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|
#----------------------------------------------------------------------#
# pftools test 1: pfsearch -f sh3.prf sh3.seq C=6.0
#----------------------------------------------------------------------#
8.455 459 pos. 1 - 39 sp|P03949|ABL1_CAEEL TYROSINE-PROTEIN KINASE ABL-1 (EC 2.7.1.112) (FRAGMENT).
14.973 857 pos. 61 - 121 sp|P00519|ABL1_HUMAN PROTO-ONCOGENE TYROSINE-PROTEIN KINASE ABL (EC 2.7.1.112) (P150) (C-ABL).
12.958 734 pos. 43 - 107 sp|P39969|BEB1_YEAST BEB1 PROTEIN.
13.499 767 pos. 58 - 128 sp|P04821|CC25_YEAST CELL DIVISION CONTROL PROTEIN 25.
10.043 556 pos. 100 - 161 sp|Q02640|CICX_HUMAN DIHYDROPRYRIDINE-SENSITIVE L-TYPE, BRAIN CALCIUM CHANNEL BETA-1-B1 SUBUNIT.
11.812 664 pos. 279 - 341 sp|P20936|GTPA_HUMAN GTPASE-ACTIVATING PROTEIN (GAP) (RAS P21 PROTEIN ACTIVATOR).
10.289 571 pos. 114 - 175 sp|Q08289|MSAB_HUMAN LAMBERT-EATON MYASTHENIC SYNDROME ANTIGEN B (MYSB).
18.100 1048 pos. 1053 - 1111 sp|P34092|MYSB_DICDI MYOSIN IB HEAVY CHAIN.
15.316 878 pos. 156 - 215 sp|P14598|NCF1_HUMAN NEUTROPHIL CYTOSOL FACTOR 1 (NCF-1) (NCF-47K) (47 KD AUTOSOMAL CHRONIC GRANU
12.238 690 pos. 226 - 285 sp|P14598|NCF1_HUMAN NEUTROPHIL CYTOSOL FACTOR 1 (NCF-1) (NCF-47K) (47 KD AUTOSOMAL CHRONIC GRANU
16.315 939 pos. 2 - 61 sp|P16333|NCK_HUMAN CYTOPLASMIC PROTEIN NCK.
15.284 876 pos. 115 - 165 sp|P16333|NCK_HUMAN CYTOPLASMIC PROTEIN NCK.
17.036 983 pos. 190 - 252 sp|P16333|NCK_HUMAN CYTOPLASMIC PROTEIN NCK.
13.384 760 pos. 3 - 79 sp|P23727|P85A_BOVIN PHOSPHATIDYLINOSITOL 3-KINASE REGULATORY ALPHA SUBUNIT (PI3-KINASE P85-ALPHA
15.464 887 pos. 769 - 829 sp|P16885|PIP5_HUMAN 1-PHOSPHATIDYLINOSITOL-4,5-BISPHOSPHATE PHOSPHODIESTERASE GAMMA 2 (EC 3.1.4.
15.382 882 pos. 24 - 86 sp|P40996|SCD2_SCHPO SCD2 PROTEIN.
11.992 675 pos. 123 - 185 sp|P40996|SCD2_SCHPO SCD2 PROTEIN.
16.889 974 pos. 1 - 58 sp|P29355|SEM5_CAEEL SEX MUSCLE ABNORMAL PROTEIN 5.
18.837 1093 pos. 154 - 213 sp|P29355|SEM5_CAEEL SEX MUSCLE ABNORMAL PROTEIN 5.
20.295 1182 pos. 80 - 141 sp|P00523|SRC_CHICK PROTO-ONCOGENE TYROSINE-PROTEIN KINASE SRC (EC 2.7.1.112) (P60-SRC).
10.764 600 pos. 1 - 60 sp|P26674|STE6_SCHPO STE6 PROTEIN.
11.796 663 pos. 617 - 660 sp|P15498|VAV_HUMAN VAV ONCOGENE.
17.560 1015 pos. 783 - 843 sp|P15498|VAV_HUMAN VAV ONCOGENE.
18.542 1075 pos. 314 - 373 sp|P43603|YFJ4_YEAST HYPOTHETICAL 40.4 KD PROTEIN IN PES4-HIS2 INTERGENIC REGION.
13.089 742 pos. 493 - 555 sp|P38822|YHR4_YEAST HYPOTHETICAL 71.2 KD PROTEIN IN CDC12-ORC6 INTERGENIC REGION.
13.695 779 pos. 577 - 633 sp|P38822|YHR4_YEAST HYPOTHETICAL 71.2 KD PROTEIN IN CDC12-ORC6 INTERGENIC REGION.
9.323 512 pos. 504 - 572 sp|Q07157|ZO1_HUMAN TIGHT JUNCTION PROTEIN ZO-1.
#----------------------------------------------------------------------#
# pftools test 2: pfsearch -bx ecp.prf CVPBR322 | psa2msa -du
#----------------------------------------------------------------------#
>CVPBR322_1 63.920 271 pos. 1 - 41 J01749|CVPBR322 Cloning vector pBR322, complete genome.
TTCTCATGTTTGACAGCTTATCATC----GATAAGCTTTAATGCG
>CVPBR322_2 45.534 240 pos. 25 - 65 J01749|CVPBR322 Cloning vector pBR322, complete genome.
CGATAAGCTTTAATGCGGTAGTTTA----TCACAGTTAAATTGCT
>CVPBR322_3 55.617 257 pos. 1589 - 1629 J01749|CVPBR322 Cloning vector pBR322, complete genome.
CAACATGAATGGTCTTCGGTTTCCG----TGTTTCGTAAAGTCTG
>CVPBR322_4 46.720 242 pos. 2274 - 2314 J01749|CVPBR322 Cloning vector pBR322, complete genome.
CAGATTGTACTGAGAGTGCACCATA----TGCGGTGTGAAATACC
>CVPBR322_5 48.500 245 pos. 2296 - 2340 J01749|CVPBR322 Cloning vector pBR322, complete genome.
ATATGCGGTGTGAAATACCGCACAGATGCGTAAGGAGAAAATACC
>CVPBR322_6 64.513 272 pos. 2931 - 2972 J01749|CVPBR322 Cloning vector pBR322, complete genome.
ACAGAGTTCTTGAAGTGGTGGCCTA---ACTACGGCTACACTAGA
>CVPBR322_7 50.872 249 pos. 3207 - 3246 J01749|CVPBR322 Cloning vector pBR322, complete genome.
AAAAGGATCTTCACCTAGATCCTTT-----TAAATTAAAAATGAA
>CVPBR322_8 45.534 240 pos. 3233 - 3274 J01749|CVPBR322 Cloning vector pBR322, complete genome.
AAATTAAAAATGAAGTTTTAAATCA---ATCTAAAGTATATATGA
>CVPBR322_9 53.244 253 pos. 3240 - 3284 J01749|CVPBR322 Cloning vector pBR322, complete genome.
AAATGAAGTTTTAAATCAATCTAAAGTATATATGAGTAAACTTGG
>CVPBR322_10 52.058 251 pos. 3350 - 3391 J01749|CVPBR322 Cloning vector pBR322, complete genome.
CATAGTTGCCTGACTCCCCGTCGTG---TAGATAACTACGATACG
>CVPBR322_11 53.837 254 pos. 3788 - 3828 J01749|CVPBR322 Cloning vector pBR322, complete genome.
ACTGCATAATTCTCTTACTGTCATG----CCATCCGTAAGATGCT
>CVPBR322_12 46.127 241 pos. 3796 - 3836 J01749|CVPBR322 Cloning vector pBR322, complete genome.
ATTCTCTTACTGTCATGCCATCCGT----AAGATGCTTTTCTGTG
>CVPBR322_13 56.210 258 pos. 4133 - 4173 J01749|CVPBR322 Cloning vector pBR322, complete genome.
ACGGAAATGTTGAATACTCATACTC----TTCCTTTTTCAATATT
>CVPBR322_14 53.244 253 pos. 4166 - 4207 J01749|CVPBR322 Cloning vector pBR322, complete genome.
TCAATATTATTGAAGCATTTATCAG---GGTTATTGTCTCATGAG
>CVPBR322_15 52.058 251 pos. 4187 - 4227 J01749|CVPBR322 Cloning vector pBR322, complete genome.
TCAGGGTTATTGTCTCATGAGCGGA----TACATATTTGAATGTA
>CVPBR322_16 56.803 259 pos. 4273 - 4312 J01749|CVPBR322 Cloning vector pBR322, complete genome.
AAGTGCCACCTGACGTCTAAGAAAC-----CATTATTATCATGAC
>CVPBR322_17 47.906 244 pos. 4291 - 4331 J01749|CVPBR322 Cloning vector pBR322, complete genome.
AAGAAACCATTATTATCATGACATT----AACCTATAAAAATAGG
>CVPBR322_18 47.906 244 pos. 4299 - 4342 J01749|CVPBR322 Cloning vector pBR322, complete genome.
ATTATTATCATGACATTAACCTATA-AAAATAGGCGTATCACGAG
>CVPBR322_19 50.279 248 pos. 4348 - 4308 J01749|CVPBR322 Cloning vector pBR322, complete genome.
AAGGGCCTCGTGATACGCCTATTTT----TATAGGTTAATGTCAT
>CVPBR322_20 47.906 244 pos. 4336 - 4296 J01749|CVPBR322 Cloning vector pBR322, complete genome.
ATACGCCTATTTTTATAGGTTAATG----TCATGATAATAATGGT
>CVPBR322_21 50.279 248 pos. 4323 - 4283 J01749|CVPBR322 Cloning vector pBR322, complete genome.
TATAGGTTAATGTCATGATAATAAT----GGTTTCTTAGACGTCA
>CVPBR322_22 52.651 252 pos. 4232 - 4192 J01749|CVPBR322 Cloning vector pBR322, complete genome.
CTAAATACATTCAAATATGTATCCG----CTCATGAGACAATAAC
>CVPBR322_23 50.872 249 pos. 4178 - 4135 J01749|CVPBR322 Cloning vector pBR322, complete genome.
TCAATAATATTGAAAAAGGAAGAGT-ATGAGTATTCAACATTTCC
>CVPBR322_24 46.127 241 pos. 3954 - 3913 J01749|CVPBR322 Cloning vector pBR322, complete genome.
TGAGCACTTTTAAAGTTCTGCTATG---TGGCGCGGTATTATCCC
>CVPBR322_25 46.720 242 pos. 3861 - 3821 J01749|CVPBR322 Cloning vector pBR322, complete genome.
ATGACTTGGTTGAGTACTCACCAGT----CACAGAAAAGCATCTT
>CVPBR322_26 45.534 240 pos. 3569 - 3529 J01749|CVPBR322 Cloning vector pBR322, complete genome.
ACTACTTACTCTAGCTTCCCGGCAA----CAATTAATAGACTGGA
>CVPBR322_27 47.313 243 pos. 3464 - 3420 J01749|CVPBR322 Cloning vector pBR322, complete genome.
TGATAAATCTGGAGCCGGTGAGCGTGGGTCTCGCGGTATCATTGC
>CVPBR322_28 54.431 255 pos. 3301 - 3261 J01749|CVPBR322 Cloning vector pBR322, complete genome.
CATTGGTAACTGTCAGACCAAGTTT----ACTCATATATACTTTA
>CVPBR322_29 51.465 250 pos. 3273 - 3232 J01749|CVPBR322 Cloning vector pBR322, complete genome.
CATATATACTTTAGATTGATTTAAA---ACTTCATTTTTAATTTA
>CVPBR322_30 45.534 240 pos. 3267 - 3225 J01749|CVPBR322 Cloning vector pBR322, complete genome.
TACTTTAGATTGATTTAAAACTTCA--TTTTTAATTTAAAAGGAT
>CVPBR322_31 46.127 241 pos. 3250 - 3210 J01749|CVPBR322 Cloning vector pBR322, complete genome.
AAACTTCATTTTTAATTTAAAAGGA----TCTAGGTGAAGATCCT
>CVPBR322_32 53.244 253 pos. 3216 - 3173 J01749|CVPBR322 Cloning vector pBR322, complete genome.
AGATCCTTTTTGATAATCTCATGAC-CAAAATCCCTTAACGTGAG
>CVPBR322_33 60.362 265 pos. 3131 - 3091 J01749|CVPBR322 Cloning vector pBR322, complete genome.
AGGATCTTCTTGAGATCCTTTTTTT----CTGCGCGTAATCTGCT
>CVPBR322_34 47.313 243 pos. 2318 - 2274 J01749|CVPBR322 Cloning vector pBR322, complete genome.
GTGCGGTATTTCACACCGCATATGGTGCACTCTCAGTACAATCTG
>CVPBR322_35 58.582 262 pos. 85 - 41 J01749|CVPBR322 Cloning vector pBR322, complete genome.
ACACGGTGCCTGACTGCGTTAGCAATTTAACTGTGATAAACTACC
#----------------------------------------------------------------------#
# pftools test 3: pfscan -s GTPA_HUMAN prosite13.prf
#----------------------------------------------------------------------#
>C2_DOMAIN_2 10.353 680 pos. 594 - 676 PS50004|C2_DOMAIN_2 C2-domain profile.
SSLVLHIEEAHKLPVKHFTNPYCNIYLNSVQVAKTHAREGQNPVWSEEFVFDDLPPDINR
FEITLSNKTKKSKDPDILFMRCQ
>PH_DOMAIN 16.616 659 pos. 474 - 577 PS50003|PH_DOMAIN PH domain profile.
NIVKKGYLLKKGKGKRWKNLYFILEGSDAQLIYFESEKRATKPKGLIDLSVCSVYVVHDS
LFGRPNCFQIVVQHFSEEHYIFYFAGETPEQAEDWMKGLQAFCN
>SH2_1 21.898 1450 pos. 181 - 272 PS50001|SH2 Src homology 2 (SH2) domain profile.
WYHGKLDRTIAEERLRQAGKSGSYLIRESDRRPGSFVLSFLSQMNVVNHFRIIAMCGDYY
IGGRRFSSLSDLIGYYSHVSCLLKGEKLLYPV
>SH2_2 20.059 1326 pos. 351 - 441 PS50001|SH2 Src homology 2 (SH2) domain profile.
WFHGKISKQEAYNLLMTVGQVCSFLVRPSDNTPGDYSLYFRTNENIQRFKICPTPNNQFM
MGGRYYNSIGDIIDHYRKEQIVEGYYLKEPV
>SH3 11.812 664 pos. 279 - 341 PS50002|SH3 Src homology 3 (SH3) domain profile.
EDRRRVRAILPYTKVPDTDEISFLKGDMFIVHNELEDGWMWVTNLRTDEQGLIVEDLVEE
VGR
>RAS_GTPASE_ACTIV_2 56.401 3900 pos. 748 - 942 PS50018|RAS_GTPASE_ACTIV_2 Ras GTPase-activating proteins profile.
DRTLLASILLRIFLHEKLESLLLCTLNDREISMEDEATTLFRATTLASTLMEQYMKATAT
QFVHHALKDSILKIMESKQSCELSPSKLEKNEDVNTNLTHLLNILSELVEKIFMASEILP
PTLRYIYGCLQKSVQHKWPTNTTMRTRVVSGFVFLRLICPAILNPRMFNIISDSPSPIAA
RTLILVAKSVQNLAN
#----------------------------------------------------------------------#
# pftools test 4: pfscan -by CVPBR322 ecp.prf L=2
#----------------------------------------------------------------------#
63.920 271 pos. 1 - 41 NS00001|ECOLI_PROM_RP70 E. coli RNA POL sigma-70 promoter.
#
# P 1 *********TTGACA*********************TATAAT*** -1
# S 1 TTCTCATGTTTGACAGCTTATCATC----GATAAGCTTTAATGCG -4321
#
55.617 257 pos. 1589 - 1629 NS00001|ECOLI_PROM_RP70 E. coli RNA POL sigma-70 promoter.
#
# P 1 *********TTGACA*********************TATAAT*** -1
# S 1589 CAACATGAATGGTCTTCGGTTTCCG----TGTTTCGTAAAGTCTG -2733
#
64.513 272 pos. 2931 - 2972 NS00001|ECOLI_PROM_RP70 E. coli RNA POL sigma-70 promoter.
#
# P 1 *********TTGACA*********************TATAAT*** -1
# S 2931 ACAGAGTTCTTGAAGTGGTGGCCTA---ACTACGGCTACACTAGA -1390
#
56.210 258 pos. 4133 - 4173 NS00001|ECOLI_PROM_RP70 E. coli RNA POL sigma-70 promoter.
#
# P 1 *********TTGACA*********************TATAAT*** -1
# S 4133 ACGGAAATGTTGAATACTCATACTC----TTCCTTTTTCAATATT -189
#
56.803 259 pos. 4273 - 4312 NS00001|ECOLI_PROM_RP70 E. coli RNA POL sigma-70 promoter.
#
# P 1 *********TTGACA*********************TATAAT*** -1
# S 4273 AAGTGCCACCTGACGTCTAAGAAAC-----CATTATTATCATGAC -50
#
60.362 265 pos. 3131 - 3091 NS00001|ECOLI_PROM_RP70 E. coli RNA POL sigma-70 promoter.
#
# P 1 *********TTGACA*********************TATAAT*** -1
# S 3131 AGGATCTTCTTGAGATCCTTTTTTT----CTGCGCGTAATCTGCT -1271
#
58.582 262 pos. 85 - 41 NS00001|ECOLI_PROM_RP70 E. coli RNA POL sigma-70 promoter.
#
# P 1 *********TTGACA*********************TATAAT*** -1
# S 85 ACACGGTGCCTGACTGCGTTAGCAATTTAACTGTGATAAACTACC -4321
#
#----------------------------------------------------------------------#
# pftools test 5: gtop sh3.gpr F=50 | pfsearch -far - sh3.seq
# | sort -nr
#----------------------------------------------------------------------#
944 sp|P00523|SRC_CHICK PROTO-ONCOGENE TYROSINE-PROTEIN KINASE SRC (EC 2.7.1.112) (P60-SRC).
874 sp|P43603|YFJ4_YEAST HYPOTHETICAL 40.4 KD PROTEIN IN PES4-HIS2 INTERGENIC REGION.
839 sp|P29355|SEM5_CAEEL SEX MUSCLE ABNORMAL PROTEIN 5.
825 sp|P16333|NCK_HUMAN CYTOPLASMIC PROTEIN NCK.
819 sp|P15498|VAV_HUMAN VAV ONCOGENE.
805 sp|P16885|PIP5_HUMAN 1-PHOSPHATIDYLINOSITOL-4,5-BISPHOSPHATE PHOSPHODIESTERASE GAMMA 2 (EC 3.1.4.11) (PLC-GAMMA-2) (PHOSPHOL
764 sp|P23727|P85A_BOVIN PHOSPHATIDYLINOSITOL 3-KINASE REGULATORY ALPHA SUBUNIT (PI3-KINASE P85-ALPHA SUBUNIT) (PTDINS-3-KINASE
750 sp|P34092|MYSB_DICDI MYOSIN IB HEAVY CHAIN.
744 sp|P14598|NCF1_HUMAN NEUTROPHIL CYTOSOL FACTOR 1 (NCF-1) (NCF-47K) (47 KD AUTOSOMAL CHRONIC GRANULOMATOUS DISEASE PROTEIN).
699 sp|P00519|ABL1_HUMAN PROTO-ONCOGENE TYROSINE-PROTEIN KINASE ABL (EC 2.7.1.112) (P150) (C-ABL).
633 sp|P40996|SCD2_SCHPO SCD2 PROTEIN.
619 sp|P38822|YHR4_YEAST HYPOTHETICAL 71.2 KD PROTEIN IN CDC12-ORC6 INTERGENIC REGION.
555 sp|P04821|CC25_YEAST CELL DIVISION CONTROL PROTEIN 25.
544 sp|P39969|BEB1_YEAST BEB1 PROTEIN.
466 sp|Q07157|ZO1_HUMAN TIGHT JUNCTION PROTEIN ZO-1.
329 sp|P26674|STE6_SCHPO STE6 PROTEIN.
303 sp|P03949|ABL1_CAEEL TYROSINE-PROTEIN KINASE ABL-1 (EC 2.7.1.112) (FRAGMENT).
298 sp|Q02640|CICX_HUMAN DIHYDROPRYRIDINE-SENSITIVE L-TYPE, BRAIN CALCIUM CHANNEL BETA-1-B1 SUBUNIT.
293 sp|Q08289|MSAB_HUMAN LAMBERT-EATON MYASTHENIC SYNDROME ANTIGEN B (MYSB).
279 sp|P20936|GTPA_HUMAN GTPASE-ACTIVATING PROTEIN (GAP) (RAS P21 PROTEIN ACTIVATOR).
#----------------------------------------------------------------------#
# pftools test 6: htop pfam_sh3.hmm | pfsearch -f - sh3.seq
| sort -nr
#----------------------------------------------------------------------#
19.485 100384 pos. 317 - 373 sp|P43603|YFJ4_YEAST HYPOTHETICAL 40.4 KD PROTEIN IN PES4-HIS2 INTERGENIC REGION.
19.303 98748 pos. 157 - 211 sp|P29355|SEM5_CAEEL SEX MUSCLE ABNORMAL PROTEIN 5.
19.183 97669 pos. 83 - 139 sp|P00523|SRC_CHICK PROTO-ONCOGENE TYROSINE-PROTEIN KINASE SRC (EC 2.7.1.112) (P60-SRC).
18.790 94141 pos. 1056 - 1111 sp|P34092|MYSB_DICDI MYOSIN IB HEAVY CHAIN.
18.265 89412 pos. 786 - 841 sp|P15498|VAV_HUMAN VAV ONCOGENE.
17.931 86411 pos. 1 - 56 sp|P29355|SEM5_CAEEL SEX MUSCLE ABNORMAL PROTEIN 5.
17.706 84386 pos. 193 - 250 sp|P16333|NCK_HUMAN CYTOPLASMIC PROTEIN NCK.
17.657 83950 pos. 772 - 827 sp|P16885|PIP5_HUMAN 1-PHOSPHATIDYLINOSITOL-4,5-BISPHOSPHATE PHOSPHODIESTERASE GAMMA 2 (EC 3.1.4.
17.544 82931 pos. 5 - 59 sp|P16333|NCK_HUMAN CYTOPLASMIC PROTEIN NCK.
16.584 74299 pos. 27 - 84 sp|P40996|SCD2_SCHPO SCD2 PROTEIN.
16.486 73418 pos. 159 - 213 sp|P14598|NCF1_HUMAN NEUTROPHIL CYTOSOL FACTOR 1 (NCF-1) (NCF-47K) (47 KD AUTOSOMAL CHRONIC GRANU
16.430 72911 pos. 64 - 119 sp|P00519|ABL1_HUMAN PROTO-ONCOGENE TYROSINE-PROTEIN KINASE ABL (EC 2.7.1.112) (P150) (C-ABL).
15.759 66878 pos. 46 - 105 sp|P39969|BEB1_YEAST BEB1 PROTEIN.
15.511 64650 pos. 229 - 283 sp|P14598|NCF1_HUMAN NEUTROPHIL CYTOSOL FACTOR 1 (NCF-1) (NCF-47K) (47 KD AUTOSOMAL CHRONIC GRANU
15.503 64573 pos. 109 - 163 sp|P16333|NCK_HUMAN CYTOPLASMIC PROTEIN NCK.
14.963 59722 pos. 496 - 553 sp|P38822|YHR4_YEAST HYPOTHETICAL 71.2 KD PROTEIN IN CDC12-ORC6 INTERGENIC REGION.
14.515 55695 pos. 126 - 183 sp|P40996|SCD2_SCHPO SCD2 PROTEIN.
13.945 50565 pos. 3 - 58 sp|P26674|STE6_SCHPO STE6 PROTEIN.
13.506 46616 pos. 580 - 633 sp|P38822|YHR4_YEAST HYPOTHETICAL 71.2 KD PROTEIN IN CDC12-ORC6 INTERGENIC REGION.
13.399 45653 pos. 282 - 339 sp|P20936|GTPA_HUMAN GTPASE-ACTIVATING PROTEIN (GAP) (RAS P21 PROTEIN ACTIVATOR).
11.564 29159 pos. 6 - 77 sp|P23727|P85A_BOVIN PHOSPHATIDYLINOSITOL 3-KINASE REGULATORY ALPHA SUBUNIT (PI3-KINASE P85-ALPHA
11.218 26047 pos. 61 - 126 sp|P04821|CC25_YEAST CELL DIVISION CONTROL PROTEIN 25.
10.425 18915 pos. 601 - 658 sp|P15498|VAV_HUMAN VAV ONCOGENE.
#----------------------------------------------------------------------#
# pftools test 7: pfw sh3.msf N=1000 |
# pfmake -b - blosum45.cmp H=0.6
#----------------------------------------------------------------------#
ID SEQUENCE_RPOFILE; MATRIX.
AC ZZ99999;
DT Wed Jul 14 12:27:00 1999
DE Generated from MSF file: 'stdin'.
MA /GENERAL_SPEC: ALPHABET='ABCDEFGHIKLMNPQRSTVWYZ'; LENGTH=62;
MA /DISJOINT: DEFINITION=PROTECT; N1=6; N2=57;
MA /NORMALIZATION: MODE=1; FUNCTION=LINEAR; R1=0.0000000; R2=0.0100000; TEXT='No_units';
MA /CUT_OFF: LEVEL=0; SCORE=850; N_SCORE=8.5000; MODE=1; TEXT='!';
MA /CUT_OFF: LEVEL=-1; SCORE=650; N_SCORE=6.5000; MODE=1; TEXT='?';
MA /DEFAULT: M0=-8; D=-20; I=-20; B1=-60; E1=-60; MI=-105; MD=-105; IM=-105; DM=-105;
MA /I: B1=0; BI=-105; BD=-105;
MA /M: SY='P'; M=-1,-9,-25,-10,-4,-19,-4,-12,-14,-7,-16,-8,-6,3,-4,-9,0,-4,-13,-24,-14,-6;
MA /M: SY='D'; M=-7,2,-26,7,5,-23,-14,-9,-14,-6,-17,-11,-3,4,-2,-12,-2,-6,-12,-29,-15,0;
MA /M: M=-4,-11,-24,-11,-6,-12,-11,-13,-12,-6,-10,-8,-8,-7,-6,-1,-3,-4,-8,-23,-12,-7;
MA /M: M=-12,-13,-26,-15,-8,0,-11,-6,-14,-5,-10,-5,-8,-9,-8,0,-10,-9,-13,-16,-2,-9;
MA /M: SY='T'; M=-3,-13,-20,-17,-9,-4,-22,-14,-3,-5,-4,0,-11,-13,-6,-5,-4,5,1,-19,-2,-8;
MA /M: SY='V'; M=0,-20,-18,-24,-23,5,-19,-16,11,-17,2,4,-16,-24,-20,-18,-8,-3,16,-14,6,-22;
MA /M: SY='R'; M=-10,-14,-24,-15,-7,-15,-25,-13,-4,9,-9,-1,-10,-19,-1,19,-9,-5,4,-24,-9,-6;
MA /M: SY='A'; M=38,-11,-10,-20,-12,-16,-6,-21,-6,-11,-8,-8,-11,-12,-12,-19,9,7,5,-22,-18,-12;
MA /M: SY='L'; M=-8,-16,-24,-20,-12,-5,-26,-10,12,-16,17,9,-11,-22,-8,-12,-17,-9,3,-23,-4,-12;
MA /M: SY='Y'; M=-13,-18,-24,-22,-19,27,-26,4,-1,-13,1,-1,-15,-27,-16,-12,-14,-8,-3,6,40,-19;
MA /M: SY='D'; M=-6,26,-27,37,14,-33,-6,-6,-31,-3,-27,-24,11,-1,-1,-11,4,-7,-25,-35,-21,6;
MA /M: SY='Y'; M=-20,-23,-27,-26,-23,45,-30,8,0,-16,3,0,-20,-30,-19,-13,-20,-10,-7,24,65,-23;
MA /M: SY='E'; M=-1,1,-15,-2,5,-15,-16,-10,-13,-2,-14,-9,2,-14,-1,-6,4,4,-7,-29,-14,2;
MA /I: I=-4; MI=0; MD=-23; IM=0; DM=-23;
MA /M: SY='A'; M=21,-6,-18,-9,-3,-24,-6,-15,-16,1,-18,-12,-6,-4,-3,-8,6,-2,-8,-24,-18,-4;
MA /M: SY='E'; M=-3,-2,-23,0,13,-25,-11,-7,-22,7,-22,-13,0,-5,10,8,7,0,-17,-28,-17,11;
MA /M: SY='D'; M=-8,6,-25,8,7,-25,-6,0,-26,4,-24,-14,8,-9,5,7,6,-2,-21,-30,-16,5;
MA /M: SY='E'; M=-4,5,-26,11,14,-28,-4,-10,-27,-4,-25,-20,1,9,-1,-9,6,-2,-23,-31,-22,5;
MA /M: SY='D'; M=-12,25,-26,34,13,-30,-7,-2,-30,-2,-25,-21,12,-11,4,-8,5,-2,-25,-32,-14,8;
MA /M: SY='E'; M=-11,11,-28,20,40,-25,-14,-4,-28,3,-17,-19,1,-5,10,-5,-1,-8,-26,-29,-17,25;
MA /M: SY='L'; M=-8,-30,-20,-32,-23,6,-31,-23,26,-28,38,20,-28,-28,-21,-21,-25,-8,20,-22,-2,-23;
MA /M: SY='S'; M=2,4,-19,6,5,-24,-7,-9,-23,-3,-27,-19,7,1,0,-5,19,8,-16,-35,-20,1;
MA /M: SY='F'; M=-10,-29,-20,-35,-26,34,-30,-22,16,-27,20,11,-23,-27,-28,-21,-20,-8,13,-9,10,-26;
MA /I: I=-4; MI=0; MD=-21; IM=0; DM=-21;
MA /M: SY='K'; M=-6,2,-18,0,6,-21,-17,-5,-19,9,-16,-10,4,-14,3,4,-1,-2,-16,-28,-12,4;
MA /M: SY='K'; M=-3,-7,-28,-5,7,-26,-18,-11,-22,17,-21,-11,-7,10,4,11,-6,-7,-19,-23,-16,4;
MA /M: SY='G'; M=-1,-7,-30,-8,-17,-30,60,-18,-38,-13,-30,-19,2,-19,-17,-15,0,-18,-29,-21,-28,-17;
MA /M: SY='D'; M=-13,34,-28,48,29,-35,-12,-1,-34,2,-26,-25,14,-7,5,-7,1,-7,-28,-36,-20,17;
MA /M: SY='V'; M=-4,-18,-20,-24,-17,1,-25,-20,7,-7,1,5,-15,-20,-15,-6,-9,0,11,-19,-3,-16;
MA /M: SY='I'; M=-10,-30,-22,-35,-27,14,-34,-25,31,-28,25,17,-24,-26,-24,-24,-21,-8,23,-17,3,-27;
MA /M: SY='H'; M=-12,-6,-27,-7,1,-13,-23,6,-11,-1,-12,-5,-3,-15,1,1,-5,-3,-12,-16,1,-1;
MA /M: SY='V'; M=-2,-26,-17,-30,-26,0,-30,-26,29,-23,17,12,-23,-26,-24,-22,-14,-4,33,-26,-7,-26;
MA /M: SY='I'; M=-8,-22,-22,-26,-21,-3,-30,-17,22,-17,15,13,-17,-23,-16,-16,-15,-5,19,-24,-3,-20;
MA /M: SY='E'; M=-4,13,-24,12,14,-26,-5,0,-26,6,-24,-17,14,-11,5,1,4,-5,-24,-30,-17,9;
MA /M: SY='K'; M=-8,1,-27,2,5,-24,-12,-8,-26,24,-23,-12,1,-13,3,18,-5,-6,-17,-22,-10,3;
MA /I: I=-3; MI=0; MD=-13; IM=0; DM=-13;
MA /M: SY='N'; M=-6,2,-16,1,1,-10,-13,-2,-15,-6,-11,-10,3,-16,-5,-8,1,0,-14,-24,-5,-2; D=-3;
MA /I: I=-3; DM=-13;
MA /M: SY='E'; M=-8,13,-25,15,16,-25,-6,-3,-24,-1,-20,-16,12,-8,5,-5,3,-5,-24,-32,-18,10;
MA /M: SY='D'; M=-7,9,-27,11,1,-28,3,-2,-26,-3,-27,-17,10,-3,1,-7,4,-7,-24,-31,-19,0;
MA /M: SY='G'; M=-3,7,-27,9,0,-29,29,-7,-34,-10,-28,-20,9,-15,-7,-13,5,-11,-27,-28,-23,-3;
MA /M: SY='W'; M=-20,-40,-50,-40,-30,10,-20,-30,-20,-20,-20,-20,-40,-30,-20,-20,-40,-30,-30,150,30,-20;
MA /M: SY='W'; M=-15,-30,-25,-32,-25,7,-23,-20,-10,-19,-5,-7,-30,-28,-18,-18,-27,-14,-16,71,21,-19;
MA /M: SY='E'; M=-9,-5,-26,-5,3,-10,-21,-11,-11,3,-11,-8,-6,-16,-3,2,-9,-7,-9,-13,-4,0;
MA /M: SY='G'; M=6,-16,-13,-20,-22,-20,24,-23,-13,-21,-14,-9,-10,-21,-20,-22,-3,-12,-5,-24,-22,-22;
MA /M: SY='R'; M=-14,-3,-21,-3,6,-20,-20,0,-21,11,-16,-9,1,-16,10,24,-5,-6,-18,-24,-8,6;
MA /M: SY='N'; M=-9,-2,-12,-10,-12,-8,-19,-8,-2,-10,-4,-2,5,-18,-10,-10,-7,-3,-6,-27,-6,-12;
MA /M: M=-8,0,-24,0,-5,-16,-12,-13,-7,-7,-9,-7,0,-13,-9,-11,-4,-4,-6,-27,-11,-8;
MA /I: I=-4; MD=-22;
MA /M: SY='K'; M=-2,-1,-12,-2,-1,-12,-4,-6,-12,6,-11,-5,0,-7,0,6,2,3,-7,-14,-7,-1; D=-4;
MA /I: I=-4; MI=0; MD=-22; IM=0; DM=-22;
MA /M: SY='T'; M=1,-1,-11,-4,-2,-10,-3,-10,-10,-4,-7,-7,1,-8,-5,-5,6,12,-6,-17,-9,-3; D=-4;
MA /I: I=-4; DM=-22;
MA /M: SY='G'; M=-4,3,-13,0,-10,-25,22,-13,-27,-12,-24,-17,9,-21,-13,-12,0,-11,-20,-29,-24,-12;
MA /M: SY='E'; M=-9,1,-27,2,18,-24,-12,-5,-19,7,-16,-9,1,-11,10,5,-3,-7,-19,-26,-15,13;
MA /M: SY='R'; M=-10,-10,-25,-11,1,-18,-23,-10,-9,6,-12,-5,-7,-10,5,14,-4,1,-5,-24,-11,1;
MA /M: SY='G'; M=0,-10,-30,-10,-18,-30,66,-19,-39,-19,-30,-19,0,-20,-17,-19,0,-20,-30,-20,-29,-18;
MA /M: SY='W'; M=-16,-29,-31,-31,-25,23,-27,-19,3,-24,10,0,-27,-28,-22,-20,-28,-16,-5,40,23,-22;
MA /M: SY='F'; M=-11,-29,-21,-37,-29,32,-33,-24,23,-27,12,8,-22,-26,-29,-23,-17,-8,20,-8,12,-29;
MA /M: SY='P'; M=-10,-20,-39,-11,-1,-29,-20,-20,-18,-10,-28,-19,-20,84,-11,-20,-10,-10,-26,-30,-29,-11;
MA /M: SY='S'; M=6,-4,-7,-7,-4,-18,-8,-14,-14,-9,-17,-12,1,-15,-4,-10,16,11,-6,-33,-17,-4;
MA /M: SY='N'; M=-5,21,-18,10,-1,-19,-6,-1,-17,-1,-24,-15,31,-16,-2,-3,14,7,-18,-37,-17,-1;
MA /M: SY='Y'; M=-19,-17,-21,-21,-19,28,-27,11,-4,-13,0,-1,-14,-29,-14,-8,-17,-10,-10,11,49,-19;
MA /M: SY='V'; M=-6,-26,-14,-30,-26,1,-27,-26,22,-21,11,9,-23,-26,-24,-17,-13,-4,27,-25,-6,-26;
MA /M: SY='E'; M=-5,2,-21,4,22,-27,-18,-4,-25,10,-19,-13,-1,-9,16,9,1,-2,-21,-26,-15,18;
MA /M: SY='P'; M=-10,-9,-30,-4,8,-17,-22,-10,-12,-1,-11,-7,-11,12,-2,-6,-9,-8,-15,-23,-10,1;
MA /M: SY='I'; M=-7,-12,-22,-14,-10,-8,-22,-11,4,-9,-2,2,-9,-19,-5,-8,-3,-1,4,-22,-1,-9;
MA /M: SY='N'; M=-7,5,-24,6,-2,-22,6,-8,-22,-5,-19,-14,7,-17,-4,-5,2,-5,-17,-27,-15,-4;
MA /M: SY='S'; M=0,-1,-13,-3,-4,-19,-13,-4,-15,-4,-15,-10,2,-16,-2,-2,7,2,-9,-30,-13,-4;
MA /I: E1=0; IE=-105; DE=-105;
CC /GENERATED_BY="pfmake -b - blosum45.cmp H=0.6";
//
#----------------------------------------------------------------------#
# pftools test 8: ptoh ecp.prf L=1.15
#----------------------------------------------------------------------#
# HMM v1.7
45 # M -- length of model
4 # alphabet length
1 # alphabet type
ACGT # alphabet
no # Optional reference line annotation?
no # Optional consensus structure annotation?
###MATCH_STATE 0 ( ) ( )
1.000000 # t_m1
0.000000 # t_d1
0.000000 # t_i0
0.000000 # Symbol A probability
0.000000 # Symbol C probability
0.000000 # Symbol G probability
0.000000 # Symbol T probability
###DELETE_STATE 0 ( ) ( )
0.000000 # t_m1
0.000000 # t_d1
0.000000 # t_i0
###INSERT_STATE 0 ( ) ( )
0.000000 # t_m1
0.000000 # t_d1
0.000000 # t_i0
0.250000 # Symbol A probability
0.250000 # Symbol C probability
0.250000 # Symbol G probability
0.250000 # Symbol T probability
###MATCH_STATE 1 ( ) ( )
1.000000 # t_m1
0.000000 # t_d1
0.000000 # t_i0
0.492674 # Symbol A probability
0.161056 # Symbol C probability
0.161056 # Symbol G probability
0.185214 # Symbol T probability
###DELETE_STATE 1 ( ) ( )
0.000000 # t_m1
1.000000 # t_d1
0.000000 # t_i0
###INSERT_STATE 1 ( ) ( )
0.000000 # t_m1
0.000000 # t_d1
0.000000 # t_i0
0.250000 # Symbol A probability
0.250000 # Symbol C probability
0.250000 # Symbol G probability
0.250000 # Symbol T probability
###MATCH_STATE 2 ( ) ( )
1.000000 # t_m1
0.000000 # t_d1
0.000000 # t_i0
0.347990 # Symbol A probability
0.198964 # Symbol C probability
0.150446 # Symbol G probability
0.302600 # Symbol T probability
###DELETE_STATE 2 ( ) ( )
0.000000 # t_m1
1.000000 # t_d1
0.000000 # t_i0
###INSERT_STATE 2 ( ) ( )
0.000000 # t_m1
0.000000 # t_d1
0.000000 # t_i0
0.250000 # Symbol A probability
0.250000 # Symbol C probability
0.250000 # Symbol G probability
0.250000 # Symbol T probability
###MATCH_STATE 3 ( ) ( )
1.000000 # t_m1
0.000000 # t_d1
0.000000 # t_i0
0.347990 # Symbol A probability
0.150446 # Symbol C probability
0.198964 # Symbol G probability
0.302600 # Symbol T probability
###DELETE_STATE 3 ( ) ( )
0.000000 # t_m1
1.000000 # t_d1
0.000000 # t_i0
###INSERT_STATE 3 ( ) ( )
0.000000 # t_m1
0.000000 # t_d1
0.000000 # t_i0
0.250000 # Symbol A probability
0.250000 # Symbol C probability
0.250000 # Symbol G probability
0.250000 # Symbol T probability
###MATCH_STATE 4 ( ) ( )
1.000000 # t_m1
0.000000 # t_d1
0.000000 # t_i0
0.302600 # Symbol A probability
0.198964 # Symbol C probability
0.150446 # Symbol G probability
0.347990 # Symbol T probability
###DELETE_STATE 4 ( ) ( )
0.000000 # t_m1
1.000000 # t_d1
0.000000 # t_i0
###INSERT_STATE 4 ( ) ( )
0.000000 # t_m1
0.000000 # t_d1
0.000000 # t_i0
0.250000 # Symbol A probability
0.250000 # Symbol C probability
0.250000 # Symbol G probability
0.250000 # Symbol T probability
###MATCH_STATE 5 ( ) ( )
1.000000 # t_m1
0.000000 # t_d1
0.000000 # t_i0
0.357012 # Symbol A probability
0.204123 # Symbol C probability
0.204123 # Symbol G probability
0.234741 # Symbol T probability
###DELETE_STATE 5 ( ) ( )
0.000000 # t_m1
1.000000 # t_d1
0.000000 # t_i0
###INSERT_STATE 5 ( ) ( )
0.000000 # t_m1
0.000000 # t_d1
0.000000 # t_i0
0.250000 # Symbol A probability
0.250000 # Symbol C probability
0.250000 # Symbol G probability
0.250000 # Symbol T probability
###MATCH_STATE 6 ( ) ( )
1.000000 # t_m1
0.000000 # t_d1
0.000000 # t_i0
0.312748 # Symbol A probability
0.178815 # Symbol C probability
0.236482 # Symbol G probability
0.271955 # Symbol T probability
###DELETE_STATE 6 ( ) ( )
0.000000 # t_m1
1.000000 # t_d1
0.000000 # t_i0
###INSERT_STATE 6 ( ) ( )
0.000000 # t_m1
0.000000 # t_d1
0.000000 # t_i0
0.250000 # Symbol A probability
0.250000 # Symbol C probability
0.250000 # Symbol G probability
0.250000 # Symbol T probability
###MATCH_STATE 7 ( ) ( )
1.000000 # t_m1
0.000000 # t_d1
0.000000 # t_i0
0.176792 # Symbol A probability
0.233808 # Symbol C probability
0.233808 # Symbol G probability
0.355592 # Symbol T probability
###DELETE_STATE 7 ( ) ( )
0.000000 # t_m1
1.000000 # t_d1
0.000000 # t_i0
###INSERT_STATE 7 ( ) ( )
0.000000 # t_m1
0.000000 # t_d1
0.000000 # t_i0
0.250000 # Symbol A probability
0.250000 # Symbol C probability
0.250000 # Symbol G probability
0.250000 # Symbol T probability
###MATCH_STATE 8 ( ) ( )
1.000000 # t_m1
0.000000 # t_d1
0.000000 # t_i0
0.226936 # Symbol A probability
0.149214 # Symbol C probability
0.226936 # Symbol G probability
0.396913 # Symbol T probability
###DELETE_STATE 8 ( ) ( )
0.000000 # t_m1
1.000000 # t_d1
0.000000 # t_i0
###INSERT_STATE 8 ( ) ( )
0.000000 # t_m1
0.000000 # t_d1
0.000000 # t_i0
0.250000 # Symbol A probability
0.250000 # Symbol C probability
0.250000 # Symbol G probability
0.250000 # Symbol T probability
###MATCH_STATE 9 ( ) ( )
1.000000 # t_m1
0.000000 # t_d1
0.000000 # t_i0
0.233808 # Symbol A probability
0.355592 # Symbol C probability
0.233808 # Symbol G probability
0.176792 # Symbol T probability
###DELETE_STATE 9 ( ) ( )
0.000000 # t_m1
1.000000 # t_d1
0.000000 # t_i0
###INSERT_STATE 9 ( ) ( )
0.000000 # t_m1
0.000000 # t_d1
0.000000 # t_i0
0.250000 # Symbol A probability
0.250000 # Symbol C probability
0.250000 # Symbol G probability
0.250000 # Symbol T probability
###MATCH_STATE 10 ( ) ( )
1.000000 # t_m1
0.000000 # t_d1
0.000000 # t_i0
0.070255 # Symbol A probability
0.080794 # Symbol C probability
0.092913 # Symbol G probability
0.756038 # Symbol T probability
###DELETE_STATE 10 ( ) ( )
0.000000 # t_m1
1.000000 # t_d1
0.000000 # t_i0
###INSERT_STATE 10 ( ) ( )
0.000000 # t_m1
0.000000 # t_d1
0.000000 # t_i0
0.250000 # Symbol A probability
0.250000 # Symbol C probability
0.250000 # Symbol G probability
0.250000 # Symbol T probability
###MATCH_STATE 11 ( ) ( )
1.000000 # t_m1
0.000000 # t_d1
0.000000 # t_i0
0.072668 # Symbol A probability
0.072668 # Symbol C probability
0.072668 # Symbol G probability
0.781997 # Symbol T probability
###DELETE_STATE 11 ( ) ( )
0.000000 # t_m1
1.000000 # t_d1
0.000000 # t_i0
###INSERT_STATE 11 ( ) ( )
0.000000 # t_m1
0.000000 # t_d1
0.000000 # t_i0
0.250000 # Symbol A probability
0.250000 # Symbol C probability
0.250000 # Symbol G probability
0.250000 # Symbol T probability
###MATCH_STATE 12 ( ) ( )
1.000000 # t_m1
0.000000 # t_d1
0.000000 # t_i0
0.069414 # Symbol A probability
0.091800 # Symbol C probability
0.746985 # Symbol G probability
0.091800 # Symbol T probability
###DELETE_STATE 12 ( ) ( )
0.000000 # t_m1
1.000000 # t_d1
0.000000 # t_i0
###INSERT_STATE 12 ( ) ( )
0.000000 # t_m1
0.000000 # t_d1
0.000000 # t_i0
0.250000 # Symbol A probability
0.250000 # Symbol C probability
0.250000 # Symbol G probability
0.250000 # Symbol T probability
###MATCH_STATE 13 ( ) ( )
1.000000 # t_m1
0.000000 # t_d1
0.000000 # t_i0
0.615515 # Symbol A probability
0.132301 # Symbol C probability
0.100038 # Symbol G probability
0.152146 # Symbol T probability
###DELETE_STATE 13 ( ) ( )
0.000000 # t_m1
1.000000 # t_d1
0.000000 # t_i0
###INSERT_STATE 13 ( ) ( )
0.000000 # t_m1
0.000000 # t_d1
0.000000 # t_i0
0.250000 # Symbol A probability
0.250000 # Symbol C probability
0.250000 # Symbol G probability
0.250000 # Symbol T probability
###MATCH_STATE 14 ( ) ( )
1.000000 # t_m1
0.000000 # t_d1
0.000000 # t_i0
0.211563 # Symbol A probability
0.489359 # Symbol C probability
0.139106 # Symbol G probability
0.159972 # Symbol T probability
###DELETE_STATE 14 ( ) ( )
0.000000 # t_m1
1.000000 # t_d1
0.000000 # t_i0
###INSERT_STATE 14 ( ) ( )
0.000000 # t_m1
0.000000 # t_d1
0.000000 # t_i0
0.250000 # Symbol A probability
0.250000 # Symbol C probability
0.250000 # Symbol G probability
0.250000 # Symbol T probability
###MATCH_STATE 15 ( ) ( )
1.000000 # t_m1
0.000000 # t_d1
0.000000 # t_i0
0.389953 # Symbol A probability
0.146598 # Symbol C probability
0.168588 # Symbol G probability
0.294861 # Symbol T probability
###DELETE_STATE 15 ( ) ( )
0.000000 # t_m1
1.000000 # t_d1
0.000000 # t_i0
###INSERT_STATE 15 ( ) ( )
0.000000 # t_m1
0.000000 # t_d1
0.000000 # t_i0
0.250000 # Symbol A probability
0.250000 # Symbol C probability
0.250000 # Symbol G probability
0.250000 # Symbol T probability
###MATCH_STATE 16 ( ) ( )
1.000000 # t_m1
0.000000 # t_d1
0.000000 # t_i0
0.221968 # Symbol A probability
0.221968 # Symbol C probability
0.167840 # Symbol G probability
0.388224 # Symbol T probability
###DELETE_STATE 16 ( ) ( )
0.000000 # t_m1
1.000000 # t_d1
0.000000 # t_i0
###INSERT_STATE 16 ( ) ( )
0.000000 # t_m1
0.000000 # t_d1
0.000000 # t_i0
0.250000 # Symbol A probability
0.250000 # Symbol C probability
0.250000 # Symbol G probability
0.250000 # Symbol T probability
###MATCH_STATE 17 ( ) ( )
1.000000 # t_m1
0.000000 # t_d1
0.000000 # t_i0
0.250000 # Symbol A probability
0.250000 # Symbol C probability
0.250000 # Symbol G probability
0.250000 # Symbol T probability
###DELETE_STATE 17 ( ) ( )
0.000000 # t_m1
1.000000 # t_d1
0.000000 # t_i0
###INSERT_STATE 17 ( ) ( )
0.000000 # t_m1
0.000000 # t_d1
0.000000 # t_i0
0.250000 # Symbol A probability
0.250000 # Symbol C probability
0.250000 # Symbol G probability
0.250000 # Symbol T probability
###MATCH_STATE 18 ( ) ( )
1.000000 # t_m1
0.000000 # t_d1
0.000000 # t_i0
0.250000 # Symbol A probability
0.250000 # Symbol C probability
0.250000 # Symbol G probability
0.250000 # Symbol T probability
###DELETE_STATE 18 ( ) ( )
0.000000 # t_m1
1.000000 # t_d1
0.000000 # t_i0
###INSERT_STATE 18 ( ) ( )
0.000000 # t_m1
0.000000 # t_d1
0.000000 # t_i0
0.250000 # Symbol A probability
0.250000 # Symbol C probability
0.250000 # Symbol G probability
0.250000 # Symbol T probability
###MATCH_STATE 19 ( ) ( )
1.000000 # t_m1
0.000000 # t_d1
0.000000 # t_i0
0.250000 # Symbol A probability
0.250000 # Symbol C probability
0.250000 # Symbol G probability
0.250000 # Symbol T probability
###DELETE_STATE 19 ( ) ( )
0.000000 # t_m1
1.000000 # t_d1
0.000000 # t_i0
###INSERT_STATE 19 ( ) ( )
0.000000 # t_m1
0.000000 # t_d1
0.000000 # t_i0
0.250000 # Symbol A probability
0.250000 # Symbol C probability
0.250000 # Symbol G probability
0.250000 # Symbol T probability
###MATCH_STATE 20 ( ) ( )
1.000000 # t_m1
0.000000 # t_d1
0.000000 # t_i0
0.250000 # Symbol A probability
0.250000 # Symbol C probability
0.250000 # Symbol G probability
0.250000 # Symbol T probability
###DELETE_STATE 20 ( ) ( )
0.000000 # t_m1
1.000000 # t_d1
0.000000 # t_i0
###INSERT_STATE 20 ( ) ( )
0.000000 # t_m1
0.000000 # t_d1
0.000000 # t_i0
0.250000 # Symbol A probability
0.250000 # Symbol C probability
0.250000 # Symbol G probability
0.250000 # Symbol T probability
###MATCH_STATE 21 ( ) ( )
1.000000 # t_m1
0.000000 # t_d1
0.000000 # t_i0
0.250000 # Symbol A probability
0.250000 # Symbol C probability
0.250000 # Symbol G probability
0.250000 # Symbol T probability
###DELETE_STATE 21 ( ) ( )
0.000000 # t_m1
1.000000 # t_d1
0.000000 # t_i0
###INSERT_STATE 21 ( ) ( )
0.000000 # t_m1
0.000000 # t_d1
0.000000 # t_i0
0.250000 # Symbol A probability
0.250000 # Symbol C probability
0.250000 # Symbol G probability
0.250000 # Symbol T probability
###MATCH_STATE 22 ( ) ( )
1.000000 # t_m1
0.000000 # t_d1
0.000000 # t_i0
0.250000 # Symbol A probability
0.250000 # Symbol C probability
0.250000 # Symbol G probability
0.250000 # Symbol T probability
###DELETE_STATE 22 ( ) ( )
0.000000 # t_m1
1.000000 # t_d1
0.000000 # t_i0
###INSERT_STATE 22 ( ) ( )
0.000000 # t_m1
0.000000 # t_d1
0.000000 # t_i0
0.250000 # Symbol A probability
0.250000 # Symbol C probability
0.250000 # Symbol G probability
0.250000 # Symbol T probability
###MATCH_STATE 23 ( ) ( )
1.000000 # t_m1
0.000000 # t_d1
0.000000 # t_i0
0.250000 # Symbol A probability
0.250000 # Symbol C probability
0.250000 # Symbol G probability
0.250000 # Symbol T probability
###DELETE_STATE 23 ( ) ( )
0.000000 # t_m1
1.000000 # t_d1
0.000000 # t_i0
###INSERT_STATE 23 ( ) ( )
0.000000 # t_m1
0.000000 # t_d1
0.000000 # t_i0
0.250000 # Symbol A probability
0.250000 # Symbol C probability
0.250000 # Symbol G probability
0.250000 # Symbol T probability
###MATCH_STATE 24 ( ) ( )
1.000000 # t_m1
0.000000 # t_d1
0.000000 # t_i0
0.250000 # Symbol A probability
0.250000 # Symbol C probability
0.250000 # Symbol G probability
0.250000 # Symbol T probability
###DELETE_STATE 24 ( ) ( )
0.000000 # t_m1
1.000000 # t_d1
0.000000 # t_i0
###INSERT_STATE 24 ( ) ( )
0.000000 # t_m1
0.000000 # t_d1
0.000000 # t_i0
0.250000 # Symbol A probability
0.250000 # Symbol C probability
0.250000 # Symbol G probability
0.250000 # Symbol T probability
###MATCH_STATE 25 ( ) ( )
0.070544 # t_m1
0.929456 # t_d1
0.000000 # t_i0
0.250000 # Symbol A probability
0.250000 # Symbol C probability
0.250000 # Symbol G probability
0.250000 # Symbol T probability
###DELETE_STATE 25 ( ) ( )
0.000000 # t_m1
1.000000 # t_d1
0.000000 # t_i0
###INSERT_STATE 25 ( ) ( )
0.000000 # t_m1
0.000000 # t_d1
0.000000 # t_i0
0.250000 # Symbol A probability
0.250000 # Symbol C probability
0.250000 # Symbol G probability
0.250000 # Symbol T probability
###MATCH_STATE 26 ( ) ( )
1.000000 # t_m1
0.000000 # t_d1
0.000000 # t_i0
0.250000 # Symbol A probability
0.250000 # Symbol C probability
0.250000 # Symbol G probability
0.250000 # Symbol T probability
###DELETE_STATE 26 ( ) ( )
0.075898 # t_m1
0.924101 # t_d1
0.000000 # t_i0
###INSERT_STATE 26 ( ) ( )
0.000000 # t_m1
0.000000 # t_d1
0.000000 # t_i0
0.250000 # Symbol A probability
0.250000 # Symbol C probability
0.250000 # Symbol G probability
0.250000 # Symbol T probability
###MATCH_STATE 27 ( ) ( )
1.000000 # t_m1
0.000000 # t_d1
0.000000 # t_i0
0.250000 # Symbol A probability
0.250000 # Symbol C probability
0.250000 # Symbol G probability
0.250000 # Symbol T probability
###DELETE_STATE 27 ( ) ( )
0.082132 # t_m1
0.917868 # t_d1
0.000000 # t_i0
###INSERT_STATE 27 ( ) ( )
0.000000 # t_m1
0.000000 # t_d1
0.000000 # t_i0
0.250000 # Symbol A probability
0.250000 # Symbol C probability
0.250000 # Symbol G probability
0.250000 # Symbol T probability
###MATCH_STATE 28 ( ) ( )
1.000000 # t_m1
0.000000 # t_d1
0.000000 # t_i0
0.250000 # Symbol A probability
0.250000 # Symbol C probability
0.250000 # Symbol G probability
0.250000 # Symbol T probability
###DELETE_STATE 28 ( ) ( )
0.179979 # t_m1
0.820021 # t_d1
0.000000 # t_i0
###INSERT_STATE 28 ( ) ( )
0.000000 # t_m1
0.000000 # t_d1
0.000000 # t_i0
0.250000 # Symbol A probability
0.250000 # Symbol C probability
0.250000 # Symbol G probability
0.250000 # Symbol T probability
###MATCH_STATE 29 ( ) ( )
1.000000 # t_m1
0.000000 # t_d1
0.000000 # t_i0
0.250000 # Symbol A probability
0.250000 # Symbol C probability
0.250000 # Symbol G probability
0.250000 # Symbol T probability
###DELETE_STATE 29 ( ) ( )
0.671398 # t_m1
0.328602 # t_d1
0.000000 # t_i0
###INSERT_STATE 29 ( ) ( )
0.000000 # t_m1
0.000000 # t_d1
0.000000 # t_i0
0.250000 # Symbol A probability
0.250000 # Symbol C probability
0.250000 # Symbol G probability
0.250000 # Symbol T probability
###MATCH_STATE 30 ( ) ( )
1.000000 # t_m1
0.000000 # t_d1
0.000000 # t_i0
0.250000 # Symbol A probability
0.250000 # Symbol C probability
0.250000 # Symbol G probability
0.250000 # Symbol T probability
###DELETE_STATE 30 ( ) ( )
0.667924 # t_m1
0.332077 # t_d1
0.000000 # t_i0
###INSERT_STATE 30 ( ) ( )
0.000000 # t_m1
0.000000 # t_d1
0.000000 # t_i0
0.250000 # Symbol A probability
0.250000 # Symbol C probability
0.250000 # Symbol G probability
0.250000 # Symbol T probability
###MATCH_STATE 31 ( ) ( )
1.000000 # t_m1
0.000000 # t_d1
0.000000 # t_i0
0.250000 # Symbol A probability
0.250000 # Symbol C probability
0.250000 # Symbol G probability
0.250000 # Symbol T probability
###DELETE_STATE 31 ( ) ( )
0.999998 # t_m1
0.000001 # t_d1
0.000000 # t_i0
###INSERT_STATE 31 ( ) ( )
0.000000 # t_m1
0.000000 # t_d1
0.000000 # t_i0
0.250000 # Symbol A probability
0.250000 # Symbol C probability
0.250000 # Symbol G probability
0.250000 # Symbol T probability
###MATCH_STATE 32 ( ) ( )
1.000000 # t_m1
0.000000 # t_d1
0.000000 # t_i0
0.191600 # Symbol A probability
0.220340 # Symbol C probability
0.144877 # Symbol G probability
0.443183 # Symbol T probability
###DELETE_STATE 32 ( ) ( )
0.000000 # t_m1
1.000000 # t_d1
0.000000 # t_i0
###INSERT_STATE 32 ( ) ( )
0.000000 # t_m1
0.000000 # t_d1
0.000000 # t_i0
0.250000 # Symbol A probability
0.250000 # Symbol C probability
0.250000 # Symbol G probability
0.250000 # Symbol T probability
###MATCH_STATE 33 ( ) ( )
1.000000 # t_m1
0.000000 # t_d1
0.000000 # t_i0
0.248783 # Symbol A probability
0.216333 # Symbol C probability
0.248783 # Symbol G probability
0.286101 # Symbol T probability
###DELETE_STATE 33 ( ) ( )
0.000000 # t_m1
1.000000 # t_d1
0.000000 # t_i0
###INSERT_STATE 33 ( ) ( )
0.000000 # t_m1
0.000000 # t_d1
0.000000 # t_i0
0.250000 # Symbol A probability
0.250000 # Symbol C probability
0.250000 # Symbol G probability
0.250000 # Symbol T probability
###MATCH_STATE 34 ( ) ( )
1.000000 # t_m1
0.000000 # t_d1
0.000000 # t_i0
0.176792 # Symbol A probability
0.233808 # Symbol C probability
0.233808 # Symbol G probability
0.355592 # Symbol T probability
###DELETE_STATE 34 ( ) ( )
0.000000 # t_m1
1.000000 # t_d1
0.000000 # t_i0
###INSERT_STATE 34 ( ) ( )
0.000000 # t_m1
0.000000 # t_d1
0.000000 # t_i0
0.250000 # Symbol A probability
0.250000 # Symbol C probability
0.250000 # Symbol G probability
0.250000 # Symbol T probability
###MATCH_STATE 35 ( ) ( )
1.000000 # t_m1
0.000000 # t_d1
0.000000 # t_i0
0.204123 # Symbol A probability
0.204123 # Symbol C probability
0.357012 # Symbol G probability
0.234741 # Symbol T probability
###DELETE_STATE 35 ( ) ( )
0.000000 # t_m1
1.000000 # t_d1
0.000000 # t_i0
###INSERT_STATE 35 ( ) ( )
0.000000 # t_m1
0.000000 # t_d1
0.000000 # t_i0
0.250000 # Symbol A probability
0.250000 # Symbol C probability
0.250000 # Symbol G probability
0.250000 # Symbol T probability
###MATCH_STATE 36 ( ) ( )
1.000000 # t_m1
0.000000 # t_d1
0.000000 # t_i0
0.200265 # Symbol A probability
0.230305 # Symbol C probability
0.304579 # Symbol G probability
0.264851 # Symbol T probability
###DELETE_STATE 36 ( ) ( )
0.000000 # t_m1
1.000000 # t_d1
0.000000 # t_i0
###INSERT_STATE 36 ( ) ( )
0.000000 # t_m1
0.000000 # t_d1
0.000000 # t_i0
0.250000 # Symbol A probability
0.250000 # Symbol C probability
0.250000 # Symbol G probability
0.250000 # Symbol T probability
###MATCH_STATE 37 ( ) ( )
1.000000 # t_m1
0.000000 # t_d1
0.000000 # t_i0
0.069414 # Symbol A probability
0.091800 # Symbol C probability
0.091800 # Symbol G probability
0.746985 # Symbol T probability
###DELETE_STATE 37 ( ) ( )
0.000000 # t_m1
1.000000 # t_d1
0.000000 # t_i0
###INSERT_STATE 37 ( ) ( )
0.000000 # t_m1
0.000000 # t_d1
0.000000 # t_i0
0.250000 # Symbol A probability
0.250000 # Symbol C probability
0.250000 # Symbol G probability
0.250000 # Symbol T probability
###MATCH_STATE 38 ( ) ( )
1.000000 # t_m1
0.000000 # t_d1
0.000000 # t_i0
0.838598 # Symbol A probability
0.051239 # Symbol C probability
0.051239 # Symbol G probability
0.058924 # Symbol T probability
###DELETE_STATE 38 ( ) ( )
0.000000 # t_m1
1.000000 # t_d1
0.000000 # t_i0
###INSERT_STATE 38 ( ) ( )
0.000000 # t_m1
0.000000 # t_d1
0.000000 # t_i0
0.250000 # Symbol A probability
0.250000 # Symbol C probability
0.250000 # Symbol G probability
0.250000 # Symbol T probability
###MATCH_STATE 39 ( ) ( )
1.000000 # t_m1
0.000000 # t_d1
0.000000 # t_i0
0.234671 # Symbol A probability
0.177445 # Symbol C probability
0.177445 # Symbol G probability
0.410440 # Symbol T probability
###DELETE_STATE 39 ( ) ( )
0.000000 # t_m1
1.000000 # t_d1
0.000000 # t_i0
###INSERT_STATE 39 ( ) ( )
0.000000 # t_m1
0.000000 # t_d1
0.000000 # t_i0
0.250000 # Symbol A probability
0.250000 # Symbol C probability
0.250000 # Symbol G probability
0.250000 # Symbol T probability
###MATCH_STATE 40 ( ) ( )
1.000000 # t_m1
0.000000 # t_d1
0.000000 # t_i0
0.539727 # Symbol A probability
0.153424 # Symbol C probability
0.153424 # Symbol G probability
0.153424 # Symbol T probability
###DELETE_STATE 40 ( ) ( )
0.000000 # t_m1
1.000000 # t_d1
0.000000 # t_i0
###INSERT_STATE 40 ( ) ( )
0.000000 # t_m1
0.000000 # t_d1
0.000000 # t_i0
0.250000 # Symbol A probability
0.250000 # Symbol C probability
0.250000 # Symbol G probability
0.250000 # Symbol T probability
###MATCH_STATE 41 ( ) ( )
1.000000 # t_m1
0.000000 # t_d1
0.000000 # t_i0
0.481052 # Symbol A probability
0.180845 # Symbol C probability
0.157257 # Symbol G probability
0.180845 # Symbol T probability
###DELETE_STATE 41 ( ) ( )
0.000000 # t_m1
1.000000 # t_d1
0.000000 # t_i0
###INSERT_STATE 41 ( ) ( )
0.000000 # t_m1
0.000000 # t_d1
0.000000 # t_i0
0.250000 # Symbol A probability
0.250000 # Symbol C probability
0.250000 # Symbol G probability
0.250000 # Symbol T probability
###MATCH_STATE 42 ( ) ( )
1.000000 # t_m1
0.000000 # t_d1
0.000000 # t_i0
0.051239 # Symbol A probability
0.058924 # Symbol C probability
0.051239 # Symbol G probability
0.838598 # Symbol T probability
###DELETE_STATE 42 ( ) ( )
0.000000 # t_m1
1.000000 # t_d1
0.000000 # t_i0
###INSERT_STATE 42 ( ) ( )
0.000000 # t_m1
0.000000 # t_d1
0.000000 # t_i0
0.250000 # Symbol A probability
0.250000 # Symbol C probability
0.250000 # Symbol G probability
0.250000 # Symbol T probability
###MATCH_STATE 43 ( ) ( )
1.000000 # t_m1
0.000000 # t_d1
0.000000 # t_i0
0.308994 # Symbol A probability
0.153625 # Symbol C probability
0.268691 # Symbol G probability
0.268691 # Symbol T probability
###DELETE_STATE 43 ( ) ( )
0.000000 # t_m1
1.000000 # t_d1
0.000000 # t_i0
###INSERT_STATE 43 ( ) ( )
0.000000 # t_m1
0.000000 # t_d1
0.000000 # t_i0
0.250000 # Symbol A probability
0.250000 # Symbol C probability
0.250000 # Symbol G probability
0.250000 # Symbol T probability
###MATCH_STATE 44 ( ) ( )
1.000000 # t_m1
0.000000 # t_d1
0.000000 # t_i0
0.207431 # Symbol A probability
0.315477 # Symbol C probability
0.238546 # Symbol G probability
0.238546 # Symbol T probability
###DELETE_STATE 44 ( ) ( )
0.000000 # t_m1
1.000000 # t_d1
0.000000 # t_i0
###INSERT_STATE 44 ( ) ( )
0.000000 # t_m1
0.000000 # t_d1
0.000000 # t_i0
0.250000 # Symbol A probability
0.250000 # Symbol C probability
0.250000 # Symbol G probability
0.250000 # Symbol T probability
###MATCH_STATE 45 ( ) ( )
1.000000 # t_m1
0.000000 # t_d1
0.000000 # t_i0
0.266231 # Symbol A probability
0.266231 # Symbol C probability
0.266231 # Symbol G probability
0.201309 # Symbol T probability
###DELETE_STATE 45 ( ) ( )
0.000000 # t_m1
1.000000 # t_d1
0.000000 # t_i0
###INSERT_STATE 45 ( ) ( )
0.000000 # t_m1
0.000000 # t_d1
0.000000 # t_i0
0.250000 # Symbol A probability
0.250000 # Symbol C probability
0.250000 # Symbol G probability
0.250000 # Symbol T probability
#----------------------------------------------------------------------#
# pftools test 9: pfscale score.lis N=14147368 P=0.0001
# Q=0.000001 | sed -n 1,25p
#----------------------------------------------------------------------#
# -LogP = 2.0437 + 0.00741886 * raw-score
#
# rank raw-score -logFreq -logProb
#
1 621.00 7.4517 6.6508
2 614.00 6.9746 6.5989
3 606.00 6.7527 6.5395
4 581.00 6.6066 6.3541
5 576.00 6.4975 6.3170
6 572.00 6.4103 6.2873
7 569.00 6.3378 6.2650
8 569.00 6.2756 6.2650
9 561.00 6.2213 6.2057
10 557.00 6.1730 6.1760
11 554.00 6.1295 6.1538
12 551.00 6.0900 6.1315
13 548.00 6.0538 6.1092
14 539.00 6.0203 6.0425
15 532.00 5.9893 5.9905
16 527.00 5.9603 5.9534
17 526.00 5.9332 5.9460
18 525.00 5.9076 5.9386
19 523.00 5.8835 5.9238
20 523.00 5.8606 5.9238
21 519.00 5.8389 5.8941
#----------------------------------------------------------------------#
# pftools test 10: pfsearch -y coils.prf MYSA_HUMAN
#----------------------------------------------------------------------#
82.697 2354 pos. 848 - 1922 P13533|MYSA_HUMAN MYOSIN HEAVY CHAIN, CARDIAC MUSCLE ALPHA ISOFORM.
#
# P 5 efgabcdefgabcdefgabcdefgabcdefgabcdefgabcdefgabcdefgabcdefga -7
# S 848 EKEMATMKEEFGRIKETLEKSEARRKELEEKMVSLLQEKNDLQLQVQAEQDNLNDAEERC -1033
#
# P 2 bcdefgabcdefgabcdefgabcdefgabcdefgabcdefgabcdefgabcdefgabcde -3
# S 908 DQLIKNKIQLEAKVKEMNERLEDEEEMNAELTAKKRKLEDECSELKKDIDDLELTLAKVE -973
#
# P 6 fgabcdefgabcdefgabcdefgabcdefgabcdefgabcdefgabcdefgabcdefgab -6
# S 968 KEKHATENKVKNLTEEMAGLDEIIAKLTKEKKALQEAHQQALDDLQAEEDKVNTLSKSKV -913
#
# P 3 cdefgabcdefgabcdefgabcdefgabcdefgabcdefgabcdefgabcdefgabcdef -2
# S 1028 KLEQQVDDLEGSLEQEKKVRMDLERAKRKLEGDLKLTQESIMDLENDKLQLEEKLKKKEF -853
#
# P 7 gabcdefgabcdefgabcdefgabcdefgabcdefgabcdefgabcdefgabcdefgabc -5
# S 1088 DINQQNSKIEDEQVLALQLQKKLKENQARIEELEEELEAERTARAKVEKLRSDLSRELEE -793
#
# P 4 defgabcdefgabcdefgabcdefgabcdefgabcdefgabcdefga-bcdefgabcdef -2
# S 1148 ISERLEEAGGATSVQIEMNKKREAEFQKMRRDLEEATLQHEATAAALrKKHADSVAELGE -733
#
# P 7 gabcdefgabcdefgabcdefgabcdefgabcdefgabcdefgabcdefgabcdefgabc -5
# S 1208 QIDNLQRVKQKLEKEKSEFKLELDDVTSNMEQIIKAKANLEKVSRTLEDQANEYRVKLEE -673
#
# P 4 defgabcdefgabcdefgabcdefgabcdefgabcdefgabcdefgabcdefgabcdefg -1
# S 1268 AQRSLNDFTTQRAKLQTENGELSRQLEEKEALISQLTRGKLSYTQQMEDLKRQLEEEGKA -613
#
# P 1 abcdefgabcdefgabcdefgabcdefgabcdefgabcdefgabcdefgab-cdefgabc -5
# S 1328 KNALAHALQSARHDCDLLREQYEEETEAKAELQRVLSKANSEVAQCRTKYEtDAIQRTEE -553
#
# P 4 defgabcdefgabcdefgabcdefgabcdefgabcdefgabcdefgabcdefgabcdefg -1
# S 1388 LEEAKKKLAQRLQDAEEAVEAVNAKCSSLEKTKHRLQNEIEDLMVDVERSNAAAAALDKK -493
#
# P 1 abcdefgabcdefgabcdefgabcdefgabcdefgabcdefgabcdefgabcdefgabcd -4
# S 1448 QRNFDKILAEWKQKYEESQSELESSQKEARSLSTELFKLKNAYEESLEHLETFKRENKNL -433
#
# P 5 efgabcdefgabcdefgabcdefgabcdefgabcdefgabcdefgabcdefgabcdefga -7
# S 1508 QEEISDLTEQLGEGGKNVHELEKVRKQLEVEKLELQSALEEAEASLEHEEGKILRAQLEF -373
#
# P 2 bcdefgabc-defgabcdefgabcdefgabcdefgabcdefgabcdefgabcdefgabcd -4
# S 1568 NQIKAEIERkLAEKDEEMEQAKRNHQRVVDSLQTSLDAETRSRNEVLRVKKKMEGDLNEM -313
#
# P 5 efgabcdefgabcdefgabcdefgabcdefgabcdefgabcdefgabcdefgabcdefga -7
# S 1628 EIQLSHANRMAAEAQKQVKSLQSLLKDTQIQLDDAVRANDDLKENIAIVERRNNLLQAEL -253
#
# P 2 bcdefgabcdefgabcdefgabcdefgabcdefgabcdefgabcdefgabcdefgabcde -3
# S 1688 EELRAVVEQTERSRKLADRELIETSERVQLLHSQNTSLINQKKKMDADLSQLQSEVEEAV -193
#
# P 6 fgabcdefgabcdefgabcdefgabcdefgabcdefgabcdefgabcdefgabcdef-ga -7
# S 1748 QECRNAEEKAKKAITHAAMMAEELKKEQDTSAHLERMKKNMEQTIKDLQHRLDEAEQiAL -133
#
# P 2 bcdefgabcdefgabcdefgabcdefgabcdefgabcdefgabcdefgabcdefgabcde -3
# S 1808 KGGKKQLQKLEARVRELEGELEAEQKRNAESVKGMRKSERRIKELTYQTEEDKKNLLRLQ -73
#
# P 6 fgabcdefgabcdefgabcdefgabcdefgabcdefgabcdefgabcdefgabcd -4
# S 1868 DLVDKLQLKVKAYKRQAEEAEEQANTNLSKFRKVQHELDEAEERADIAESQVNKL -18
#
#----------------------------------------------------------------------#
# pftools test 11: rm sh3.fsp
# ptof -r sh3.prf F=-1.2 I=0.6 X=-1.5 B=-0.5 >sh3.fsp
# 2ft < R76849.seq | pfsearch -fy sh3.fsp - C=5.0
# rm sh3.fsp
#----------------------------------------------------------------------#
10.764 600 pos. 186 - 347 x|gi|851481|gb|R76849|R76849_M yi63d09.r1 Homo sapiens cDNA clone 143921 5' similar to gb:M23379
#
# P 28 Y><D><Y><E>----<A><E><D><P><D><E><L><S><F>-<K><K><G><D><I><I -103
# S 186 YTPPLLYTHTQkkksVYTPPQRDTHTLODMOEKNIOKSVFFSpLLOKKKRGERDIYMCVF -253
#
# P 83 ><Y><I><L><E><K><S><D><D><D><W><W><R><G><R><N><X><R><T><G><Q -43
# S 246 SHILCVFSHIONMOENILOREKRDMWGDMWGDMCVWGGVLYTQKNIFLOKRENTQRDMOE -193
#
# P 143 ><E><G><Y><I><P><S><N><Y><V><E><E><X><D><S -1
# S 306 NTQKRGAPLLYILCVLOEKRDTPLOSVOREKRERGVWGGAPR -151
#
|
