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|
Command line: [exonerate -m est2genome comb.fa /media/Waterloo/Downloads/genomes/scer_s288c/scer_s288c.fa --bestn 3 --showcigar yes --showvulgar yes]
Hostname: [blackbriar]
C4 Alignment:
------------
Query: gi|296142823|ref|NM_001178508.1| Saccharomyces cerevisiae S288c Cdc28p (CDC28) mRNA, complete cds
Target: gi|330443482|ref|NC_001134.8| Saccharomyces cerevisiae S288c chromosome II, complete sequence
Model: est2genome
Raw score: 4485
Query range: 0 -> 897
Target range: 560077 -> 560974
1 : ATGAGCGGTGAATTAGCAAATTACAAAAGACTTGAGAAAGTCGGTGAAGGTACATACG : 58
||||||||||||||||||||||||||||||||||||||||||||||||||||||||||
560078 : ATGAGCGGTGAATTAGCAAATTACAAAAGACTTGAGAAAGTCGGTGAAGGTACATACG : 560135
59 : GTGTTGTTTATAAAGCGTTAGACTTAAGACCTGGCCAAGGTCAAAGAGTAGTCGCATT : 116
||||||||||||||||||||||||||||||||||||||||||||||||||||||||||
560136 : GTGTTGTTTATAAAGCGTTAGACTTAAGACCTGGCCAAGGTCAAAGAGTAGTCGCATT : 560193
117 : GAAGAAAATAAGACTAGAGAGTGAAGACGAGGGTGTTCCCAGTACAGCCATCAGAGAA : 174
||||||||||||||||||||||||||||||||||||||||||||||||||||||||||
560194 : GAAGAAAATAAGACTAGAGAGTGAAGACGAGGGTGTTCCCAGTACAGCCATCAGAGAA : 560251
175 : ATCTCATTATTGAAGGAATTAAAAGACGATAATATTGTCAGATTATACGATATTGTTC : 232
||||||||||||||||||||||||||||||||||||||||||||||||||||||||||
560252 : ATCTCATTATTGAAGGAATTAAAAGACGATAATATTGTCAGATTATACGATATTGTTC : 560309
233 : ACTCTGATGCACACAAGCTATATCTTGTTTTTGAGTTCCTCGATTTGGACCTGAAAAG : 290
||||||||||||||||||||||||||||||||||||||||||||||||||||||||||
560310 : ACTCTGATGCACACAAGCTATATCTTGTTTTTGAGTTCCTCGATTTGGACCTGAAAAG : 560367
291 : ATATATGGAGGGTATTCCAAAGGACCAACCGTTAGGAGCTGATATTGTTAAGAAGTTT : 348
||||||||||||||||||||||||||||||||||||||||||||||||||||||||||
560368 : ATATATGGAGGGTATTCCAAAGGACCAACCGTTAGGAGCTGATATTGTTAAGAAGTTT : 560425
349 : ATGATGCAACTTTGTAAGGGTATTGCATACTGCCACTCACACCGTATTCTGCATCGTG : 406
||||||||||||||||||||||||||||||||||||||||||||||||||||||||||
560426 : ATGATGCAACTTTGTAAGGGTATTGCATACTGCCACTCACACCGTATTCTGCATCGTG : 560483
407 : ATTTAAAACCGCAGAACTTATTGATTAACAAAGATGGGAATCTAAAACTAGGTGATTT : 464
||||||||||||||||||||||||||||||||||||||||||||||||||||||||||
560484 : ATTTAAAACCGCAGAACTTATTGATTAACAAAGATGGGAATCTAAAACTAGGTGATTT : 560541
465 : TGGCTTAGCGCGTGCTTTTGGTGTTCCGTTGAGAGCTTACACACATGAAATTGTTACT : 522
||||||||||||||||||||||||||||||||||||||||||||||||||||||||||
560542 : TGGCTTAGCGCGTGCTTTTGGTGTTCCGTTGAGAGCTTACACACATGAAATTGTTACT : 560599
523 : CTATGGTATAGAGCTCCGGAGGTATTACTGGGTGGAAAACAATATAGTACAGGTGTCG : 580
||||||||||||||||||||||||||||||||||||||||||||||||||||||||||
560600 : CTATGGTATAGAGCTCCGGAGGTATTACTGGGTGGAAAACAATATAGTACAGGTGTCG : 560657
581 : ATACATGGTCCATCGGCTGTATATTTGCCGAAATGTGTAACAGGAAACCAATCTTCAG : 638
||||||||||||||||||||||||||||||||||||||||||||||||||||||||||
560658 : ATACATGGTCCATCGGCTGTATATTTGCCGAAATGTGTAACAGGAAACCAATCTTCAG : 560715
639 : TGGCGATAGTGAGATCGATCAGATTTTCAAGATATTCAGAGTATTGGGAACGCCGAAT : 696
||||||||||||||||||||||||||||||||||||||||||||||||||||||||||
560716 : TGGCGATAGTGAGATCGATCAGATTTTCAAGATATTCAGAGTATTGGGAACGCCGAAT : 560773
697 : GAAGCTATATGGCCAGATATTGTCTACTTGCCTGATTTCAAGCCAAGCTTTCCTCAAT : 754
||||||||||||||||||||||||||||||||||||||||||||||||||||||||||
560774 : GAAGCTATATGGCCAGATATTGTCTACTTGCCTGATTTCAAGCCAAGCTTTCCTCAAT : 560831
755 : GGCGCAGAAAAGACCTATCACAAGTGGTACCAAGTCTAGATCCACGCGGTATTGATTT : 812
||||||||||||||||||||||||||||||||||||||||||||||||||||||||||
560832 : GGCGCAGAAAAGACCTATCACAAGTGGTACCAAGTCTAGATCCACGCGGTATTGATTT : 560889
813 : GTTGGACAAACTCCTCGCGTATGACCCTATTAACCGGATTAGCGCCAGAAGAGCAGCC : 870
||||||||||||||||||||||||||||||||||||||||||||||||||||||||||
560890 : GTTGGACAAACTCCTCGCGTATGACCCTATTAACCGGATTAGCGCCAGAAGAGCAGCC : 560947
871 : ATCCACCCCTACTTCCAAGAATCATAA : 897
|||||||||||||||||||||||||||
560948 : ATCCACCCCTACTTCCAAGAATCATAA : 560974
cigar: gi|296142823|ref|NM_001178508.1| 0 897 + gi|330443482|ref|NC_001134.8| 560077 560974 + 4485 M 897
vulgar: gi|296142823|ref|NM_001178508.1| 0 897 + gi|330443482|ref|NC_001134.8| 560077 560974 + 4485 M 897 897
C4 Alignment:
------------
Query: gi|296142823|ref|NM_001178508.1| Saccharomyces cerevisiae S288c Cdc28p (CDC28) mRNA, complete cds
Target: gi|330443753|ref|NC_001148.4| Saccharomyces cerevisiae S288c chromosome XVI, complete sequence:[revcomp]
Model: est2genome
Raw score: 941
Query range: 2 -> 896
Target range: 492933 -> 492033
3 : GAGCGGTGAATTAGCAAATTACAAAAGACTTGAGAAAGTCGGTGAAGGTACATACGGT : 60
|||| | || | || ||| | || | || || | || | ||||| || |
492933 : GAGC--TCTATGAACAGATTTAAGCAG-TTAGAAAAGCTTGGCAATGGTACGTATGCC : 492879
61 : GTTGTTTATAAAGCGTTAGACTTAAGACCTGGCCAAGGTCAAAGAGTAGTCGCATTGA : 118
|| || || | | || || ||| || || | | | || || |||
492878 : ACAGTGTACAAGGGACTGAAC--AAAACC---ACAGGGGTATA---T-GTTGCCCTGA : 492830
119 : AGAAAATAAGACTAGAGAGTGAAGACGAGGGTGTTCCCAGTACAGCCATCAGAGAAAT : 176
| | ||| ||| || | ||| || ||| ||| ||| |||||| | || ||
492829 : AAGAGGTAAAACTGGA---TTCAGAGGAAGGTACACCCTCTACGGCCATCCGTGAGAT : 492775
177 : CTCATTATTGAAGGAATTAAAAGACGATAATATTGTCAGATTATACGATATTGTTCAC : 234
||| || |||| ||||| ||| | || || ||||| ||| | || || || |||||
492774 : CTCCCTAATGAAAGAATTGAAACATGAGAACATTGTTAGACTTTATGACGTTATTCAC : 492717
235 : TCTGATGCACACAAGCTATATCTTGTTTTTGAGTTCCTCGATTTGGACCTGAAAAGAT : 292
| || | | ||||| | | | |||||||| ||| | || || | || | ||
492716 : ACAGA-G-A-ACAAGTTGACTTTGGTTTTTGAATTCATGGACAACGATTTAAAGAAAT : 492662
293 : ATATGGA---GGGTATTCCAAAGG-ACCA-ACCGTTAGGAGCT-GA--TA---TTG-T : 338
| ||||| | | || || | || ||| ||| ||| || || ||| |
492661 : ACATGGATTCCCGCA--CCGTGGGCAACACACCAAGAGG-GCTAGAACTAAACTTGGT : 492607
339 : TAAGAAGTTTATGATGCAACT-TTGTAAGGGTATTGCATACTGCCACTCACACCGTAT : 395
||| | || | |||||| || ||||| | || | ||||| | || ||
492606 : TAAATACTTCCAGTGGCAACTACTGCAAGGG-CTGGCCTTTTGCCATGAAAACAAGAT : 492550
396 : TCTGCATCGTGATTTAAAACCGCAGAACTTATTGATTAACAA-AGATGGGAATCTAAA : 452
||| || |||||||||||||| || ||| |||| || ||||| ||| || | | ||
492549 : TCTCCACCGTGATTTAAAACCTCAAAACCTATTAATCAACAAGAGA-GGCCAGTTGAA : 492493
453 : ACTAGGTGATTTTGGCTTAGCGCGTGCTTTTGGTGTTCCGTTGAGAGCTTACACACAT : 510
| | |||||||| || | || |||||||| ||| ||||| | | | | ||
492492 : ATTGGGTGATTTCGGTCTGGCCCGTGCTTTCGGTATTCCGGTCAACACATTTTCAAGC : 492435
511 : GAAATTGTTACTCTATGGTATAGAGCTCCGGAGGTATTACTGGGTGGAAAACAATATA : 568
||| | || || | ||||| | ||||| || || || ||||| | ||
492434 : GAAGTCGTAACGTTGTGGTACCGTGCTCCTGATGTGCTAATGGGTTCTAGGACGTACT : 492377
569 : GTACAGGTGTCGATACATGGTCCATCGGCTGTATATTTGCCGAAATGTGTAACAGG-A : 625
||| | |||| |||||| || || || |||| |||||| |||| || |
492376 : CCACATCCATTGATATATGGTCGTGTGGGTGCATTCTTGCGGAAATG-ATAACGGGTA : 492320
626 : AACCAATCTTCAGTGGCGATAGTGAGATCGATCAGATTTTCAAGATATTCAGAGTATT : 683
| || | || |||| | || || || | ||| ||| | |
492319 : AGCCTTTGTTTCCTGGCACCAACGACGAAGAACAACTGAAATTGATCTTCGACATCAT : 492262
684 : GGGAACGCCGAATGAAGCTATATGGCCAGATATTGTCTACTTGCCTGATTTCAAGCCA : 741
||| || || ||||| | ||||||| | | | || || | | ||| |||
492261 : GGGCACTCCTAATGAGTCCCTATGGCCCAGTGTAACAAAGTTACCCAAATACAACCCA : 492204
742 : AGCTTTCCTCAATGGCGCAGAAAAGACCTATCACAAG---TGGTACCA-AGTC--TAG : 793
| | | ||| | | || ||||||| |||| || |||| | | ||
492203 : AATATCCAGCAACGACCACCAAGAGACCTACGTCAAGTATTGCAACCACACACCAAAG : 492146
794 : ATCCAC--G-CGGTA------TTGATTTGTTGGACAAACTCCTCGCGTATGACCCTAT : 842
| || | | ||| | | ||||| || || |||| | | | ||
492145 : AACCGCTAGACGGGAATCTCATGGATTTCTTACACGGACTCTTGCAACTTAATCCGGA : 492088
843 : TAACCGGATTAGCGCC-AGAAGAGCAGCCATCCACCCCTACTTCCAAGAATCATA : 896
|| || | |||||| || || ||| ||||| | || ||| | ||
492087 : TATGAGGCTGAGCGCCAAGCAGGCTCTGCAT-CACCCTTGGTTTGCAGAGTACTA : 492034
cigar: gi|296142823|ref|NM_001178508.1| 2 896 + gi|330443753|ref|NC_001148.4| 492933 492033 - 941 M 4 I 2 M 21 I 1 M 51 I 2 M 6 I 3 M 11 I 3 M 1 I 1 M 26 I 3 M 102 I 1 M 1 I 1 M 1 I 1 M 55 D 3 M 5 I 2 M 7 D 1 M 4 D 1 M 9 I 1 M 3 D 1 M 2 D 2 M 2 D 3 M 3 D 1 M 22 D 1 M 9 I 1 M 68 D 1 M 3 I 1 M 174 I 1 M 8 D 1 M 154 D 3 M 8 D 1 M 4 D 2 M 9 D 2 M 1 D 1 M 5 D 6 M 53 D 1 M 14 I 1 M 23
vulgar: gi|296142823|ref|NM_001178508.1| 2 896 + gi|330443753|ref|NC_001148.4| 492933 492033 - 941 M 4 4 G 2 0 M 21 21 G 1 0 M 51 51 G 2 0 M 6 6 G 3 0 M 11 11 G 3 0 M 1 1 G 1 0 M 26 26 G 3 0 M 102 102 G 1 0 M 1 1 G 1 0 M 1 1 G 1 0 M 55 55 G 0 3 M 5 5 G 2 0 M 7 7 G 0 1 M 4 4 G 0 1 M 9 9 G 1 0 M 3 3 G 0 1 M 2 2 G 0 2 M 2 2 G 0 3 M 3 3 G 0 1 M 22 22 G 0 1 M 9 9 G 1 0 M 68 68 G 0 1 M 3 3 G 1 0 M 174 174 G 1 0 M 8 8 G 0 1 M 154 154 G 0 3 M 8 8 G 0 1 M 4 4 G 0 2 M 9 9 G 0 2 M 1 1 G 0 1 M 5 5 G 0 6 M 53 53 G 0 1 M 14 14 G 1 0 M 23 23
C4 Alignment:
------------
Query: gi|296142823|ref|NM_001178508.1| Saccharomyces cerevisiae S288c Cdc28p (CDC28) mRNA, complete cds
Target: gi|330443520|ref|NC_001136.10| Saccharomyces cerevisiae S288c chromosome IV, complete sequence
Model: est2genome
Raw score: 651
Query range: 34 -> 721
Target range: 267809 -> 300717
35 : AGAAAGTCGGTGAAGGTACATACGGTGTTGTTTATAAAGCGTTAGACTTAAGAC---- : 89
||||||| ||||| ||||| || | |||||||| | ||| | | || ||
267810 : AGAAAGTTGGTGAGGGTACTTATGCGGTTGTTTA-CTTGGGTT-G--TCAACACTCTA : 267863
90 : CTGGCCAAGGTCAAAGAGTAGTCGCATTGAAGAAAATAAGACTAGAGAGTGAAGACGA : 146
|||| ||| ||||| | | ||| | || | || || || | | | ||
267864 : CTGG--AAG---AAAGATTGCT---ATTAAGGAGATCAAAACATCCGAATTTA-AAGA : 267912
147 : GGGTGTTCCCAGTACAGCCATCAGAGAAATCTCATTA--TTGAAGGAAT-TAAAAGAC : 201
||| | | |||| ||| | ||| | | | || | ||| ||| | | |
267913 : TGGTTTAGATATGTCAGCTATCCGTGAAGT-TAAGTACCTCCAAGAAATGCAGCATCC : 267969
202 : GATAAT-ATTGTCAGATTATACGATATTGTTCACTCTGATGCACACAAGCTATATCTT : 258
|| | || | | || || ||||| | || | ||| | || || ||||
267970 : GAACGTCATAGAACTAATAGAC-ATATTTATGGCT-T-ATG---ATAATTTAAATCTC : 268021
259 : GTTTTTGAGTTCCTCGATTTGGACCTGAAAAGATATATGGAGGGTATTCCAAAGGAC- : 316
||| | |||||||| ||| || ||| || | |||| | ||| |||
268022 : GTTCTGGAGTTCCT--------ACC--AACTGATCTAGAGGTGGTAAT--AAAAGACA : 268067
317 : ---CA--ACCGTT---AGGAGCTGATATT--GTTA-AGAAGTTTATGATGCAACTTTG : 362
|| || ||| | ||| |||||| | | || | ||||| ||||||
268068 : AATCAATACTGTTTACACCAGCAGATATTAAGGCATGGATGCTTATG-----ACTTTG : 268120
363 : TAAGGGTATTGCAT-ACTGCCACTCACACCGTATTCTGCATCGTGATTTAAAACCGCA : 419
|||| || || | |||||| | | ||| |||| | ||| | ||||| |
268121 : --AGGGGCGTGTATCATTGCCACAGAAATTTCATTTTGCACAGGGATCTGAAACCAAA : 268176
420 : GAACTTATTGATTAACA-AAGATGGGAATCTAAAACTAGGTGATTTTGGCTTAGCGCG : 476
|| ||||| ||| || ||||| | ||||| ||| ||||| || |||| |
268177 : CAATTTATT-ATTTTCACCTGATGGCCAGATAAAAGTAGCAGATTTCGGTCTAGCAAG : 268233
477 : TGCTTTTGGTGTTCC-GTTGAGAGCTTACACACATGAAA--TTGTTACTCTATGGTAT : 531
|| | | || ||||| ||| ||| | || | || || |||||||
268234 : GGCGATACCGGCCCCACATGAGA---TACTGACAAGTAACGTCGTAACAAGATGGTAT : 268288
532 : AGAGCTCCGGAGGTATTACTGGGTGGAAAACAATATAGTACAGGTGTCGATACATGGT : 589
||||| || || | || | || | ||||| || | | | | | |||| ||||
268289 : AGAGCGCCAGAATTGTTGTTTGGAGCTAAACATTACACATCGGCTATTGATATCTGGT : 268346
590 : CCATCGGCTGTATATTTGCCGAAAT-GTGTAACAGGAAACCAATCTTCAGTGGCGATA : 646
| | ||| |||||| || ||| | || | |||| ||| || || | |
268347 : CAGTAGGCGTTATATTCGCGGAATTAATGCTA-AGGATACCTTATTTACCAGGACAGA : 268403
647 : GTGAGATCGATCAGATTTTCAAG--ATATTCAGAGTATTGGGAACGC <<<< Targ : 692
||| ||||||| | | ||| | ||||| | || || || |++
268404 : ATGATGTCGATCAAA--TGGAAGTAACGTTCAGGGCCTTAGGGACACct......... : 268451
693 : et Intron 1 <<<< CGAATGAAGCTA-TATGGCCAGATATTGTCT : 721
32238 bp +-| || || || ||||||||||||| |||
268452 : ................aaCAAACCGAGATAGAATGGCCAGATATTCTCT : 300717
cigar: gi|296142823|ref|NM_001178508.1| 34 721 + gi|330443520|ref|NC_001136.10| 267809 300717 + 651 M 34 I 1 M 8 I 1 M 1 I 2 M 7 D 4 M 4 I 2 M 3 I 3 M 10 I 3 M 28 I 1 M 34 I 1 M 6 D 2 M 10 D 1 M 14 D 1 M 15 I 1 M 12 I 1 M 1 I 1 M 3 I 3 M 28 I 8 M 3 I 2 M 21 I 2 M 7 D 4 M 2 D 2 M 6 D 3 M 13 D 2 M 4 D 1 M 11 I 5 M 6 I 2 M 12 D 1 M 52 I 1 M 7 D 1 M 55 D 1 M 7 I 3 M 13 D 2 M 100 D 1 M 6 I 1 M 40 I 2 M 6 D 2 M 22 D 32238 M 12 D 1 M 18
vulgar: gi|296142823|ref|NM_001178508.1| 34 721 + gi|330443520|ref|NC_001136.10| 267809 300717 + 651 M 34 34 G 1 0 M 8 8 G 1 0 M 1 1 G 2 0 M 7 7 G 0 4 M 4 4 G 2 0 M 3 3 G 3 0 M 10 10 G 3 0 M 28 28 G 1 0 M 34 34 G 1 0 M 6 6 G 0 2 M 10 10 G 0 1 M 14 14 G 0 1 M 15 15 G 1 0 M 12 12 G 1 0 M 1 1 G 1 0 M 3 3 G 3 0 M 28 28 G 8 0 M 3 3 G 2 0 M 21 21 G 2 0 M 7 7 G 0 4 M 2 2 G 0 2 M 6 6 G 0 3 M 13 13 G 0 2 M 4 4 G 0 1 M 11 11 G 5 0 M 6 6 G 2 0 M 12 12 G 0 1 M 52 52 G 1 0 M 7 7 G 0 1 M 55 55 G 0 1 M 7 7 G 3 0 M 13 13 G 0 2 M 100 100 G 0 1 M 6 6 G 1 0 M 40 40 G 2 0 M 6 6 G 0 2 M 22 22 3 0 2 I 0 32234 5 0 2 M 12 12 G 0 1 M 18 18
C4 Alignment:
------------
Query: gi|296143771|ref|NM_001180731.1| Saccharomyces cerevisiae S288c Cad1p (CAD1) mRNA, complete cds
Target: gi|330443520|ref|NC_001136.10| Saccharomyces cerevisiae S288c chromosome IV, complete sequence:[revcomp]
Model: est2genome
Raw score: 6150
Query range: 0 -> 1230
Target range: 1319275 -> 1318045
1 : ATGGGCAATATCCTTCGGAAAGGTCAGCAAATATATTTAGCAGGTGACATGAAGAA : 56
||||||||||||||||||||||||||||||||||||||||||||||||||||||||
1319275 : ATGGGCAATATCCTTCGGAAAGGTCAGCAAATATATTTAGCAGGTGACATGAAGAA : 1319220
57 : GCAAATGTTGCTAAATAAAGATGGAACACCTAAGAGGAAGGTGGGCAGACCAGGCA : 112
||||||||||||||||||||||||||||||||||||||||||||||||||||||||
1319219 : GCAAATGTTGCTAAATAAAGATGGAACACCTAAGAGGAAGGTGGGCAGACCAGGCA : 1319164
113 : GAAAAAGGATTGACTCTGAAGCTAAGAGTAGGAGGACTGCCCAGAATAGGGCAGCT : 168
||||||||||||||||||||||||||||||||||||||||||||||||||||||||
1319163 : GAAAAAGGATTGACTCTGAAGCTAAGAGTAGGAGGACTGCCCAGAATAGGGCAGCT : 1319108
169 : CAACGAGCGTTCCGAGATAGGAAAGAAGCCAAAATGAAGAGTTTGCAAGAGAGGGT : 224
||||||||||||||||||||||||||||||||||||||||||||||||||||||||
1319107 : CAACGAGCGTTCCGAGATAGGAAAGAAGCCAAAATGAAGAGTTTGCAAGAGAGGGT : 1319052
225 : AGAGTTACTAGAACAGAAAGATGCGCAGAATAAGACTACCACGGACTTTTTACTAT : 280
||||||||||||||||||||||||||||||||||||||||||||||||||||||||
1319051 : AGAGTTACTAGAACAGAAAGATGCGCAGAATAAGACTACCACGGACTTTTTACTAT : 1318996
281 : GTTCTTTAAAAAGTTTACTGTCGGAAATTACAAAATATAGAGCTAAGAATTCTGAT : 336
||||||||||||||||||||||||||||||||||||||||||||||||||||||||
1318995 : GTTCTTTAAAAAGTTTACTGTCGGAAATTACAAAATATAGAGCTAAGAATTCTGAT : 1318940
337 : GATGAAAGAATATTAGCCTTCCTCGATGATCTGCAAGAACAACAGAAAAGGGAAAA : 392
||||||||||||||||||||||||||||||||||||||||||||||||||||||||
1318939 : GATGAAAGAATATTAGCCTTCCTCGATGATCTGCAAGAACAACAGAAAAGGGAAAA : 1318884
393 : CGAAAAAGGAACAAGTACAGCAGTTAGCAAGGCTGCAAAGGAATTGCCATCGCCTA : 448
||||||||||||||||||||||||||||||||||||||||||||||||||||||||
1318883 : CGAAAAAGGAACAAGTACAGCAGTTAGCAAGGCTGCAAAGGAATTGCCATCGCCTA : 1318828
449 : ATTCAGATGAAAACATGACTGTGAACACAAGTATAGAAGTACAGCCGCACACTCAA : 504
||||||||||||||||||||||||||||||||||||||||||||||||||||||||
1318827 : ATTCAGATGAAAACATGACTGTGAACACAAGTATAGAAGTACAGCCGCACACTCAA : 1318772
505 : GAGAATGAGAAAGTTATGTGGAACATAGGCTCATGGAACGCTCCCAGTTTAACCAA : 560
||||||||||||||||||||||||||||||||||||||||||||||||||||||||
1318771 : GAGAATGAGAAAGTTATGTGGAACATAGGCTCATGGAACGCTCCCAGTTTAACCAA : 1318716
561 : TTCGTGGGATTCTCCCCCCGGAAATCGAACAGGTGCCGTTACCATCGGTGACGAAA : 616
||||||||||||||||||||||||||||||||||||||||||||||||||||||||
1318715 : TTCGTGGGATTCTCCCCCCGGAAATCGAACAGGTGCCGTTACCATCGGTGACGAAA : 1318660
617 : GTATTAATGGTAGTGAAATGCCAGATTTCAGTCTCGATCTTGTCTCCAATGATAGA : 672
||||||||||||||||||||||||||||||||||||||||||||||||||||||||
1318659 : GTATTAATGGTAGTGAAATGCCAGATTTCAGTCTCGATCTTGTCTCCAATGATAGA : 1318604
673 : CAGACTGGTCTAGAAGCTTTAGATTACGACATTCATAACTACTTTCCTCAGCACTC : 728
||||||||||||||||||||||||||||||||||||||||||||||||||||||||
1318603 : CAGACTGGTCTAGAAGCTTTAGATTACGACATTCATAACTACTTTCCTCAGCACTC : 1318548
729 : TGAACGCCTGACCGCTGAAAAAATAGATACGTCAGCATGTCAATGTGAAATTGACC : 784
||||||||||||||||||||||||||||||||||||||||||||||||||||||||
1318547 : TGAACGCCTGACCGCTGAAAAAATAGATACGTCAGCATGTCAATGTGAAATTGACC : 1318492
785 : AAAAGTATCTTCCATACGAGACAGAAGATGATACTTTATTCCCCAGCGTGCTTCCC : 840
||||||||||||||||||||||||||||||||||||||||||||||||||||||||
1318491 : AAAAGTATCTTCCATACGAGACAGAAGATGATACTTTATTCCCCAGCGTGCTTCCC : 1318436
841 : CTTGCTGTAGGGAGCCAGTGTAATAATATTTGCAACCGCAAGTGTATCGGGACCAA : 896
||||||||||||||||||||||||||||||||||||||||||||||||||||||||
1318435 : CTTGCTGTAGGGAGCCAGTGTAATAATATTTGCAACCGCAAGTGTATCGGGACCAA : 1318380
897 : ACCATGTTCAAATAAGGAGATCAAATGCGACTTAATAACAAGCCACCTGTTGAATC : 952
||||||||||||||||||||||||||||||||||||||||||||||||||||||||
1318379 : ACCATGTTCAAATAAGGAGATCAAATGCGACTTAATAACAAGCCACCTGTTGAATC : 1318324
953 : AGAAATCTCTAGCTTCGGTGCTTCCGGTGGCTGCTTCTCATACTAAAACAATTCGA : 1008
||||||||||||||||||||||||||||||||||||||||||||||||||||||||
1318323 : AGAAATCTCTAGCTTCGGTGCTTCCGGTGGCTGCTTCTCATACTAAAACAATTCGA : 1318268
1009 : ACCCAATCTGAAGCAATTGAACACATTAGCAGCGCCATATCGAATGGAAAAGCGTC : 1064
||||||||||||||||||||||||||||||||||||||||||||||||||||||||
1318267 : ACCCAATCTGAAGCAATTGAACACATTAGCAGCGCCATATCGAATGGAAAAGCGTC : 1318212
1065 : TTGCTACCACATTCTCGAAGAGATCTCCTCCCTACCAAAATATTCATCGTTGGACA : 1120
||||||||||||||||||||||||||||||||||||||||||||||||||||||||
1318211 : TTGCTACCACATTCTCGAAGAGATCTCCTCCCTACCAAAATATTCATCGTTGGACA : 1318156
1121 : TAGATGATTTATGCAGCGAATTAATAATCAAGGCAAAATGTACAGATGACTGCAAA : 1176
||||||||||||||||||||||||||||||||||||||||||||||||||||||||
1318155 : TAGATGATTTATGCAGCGAATTAATAATCAAGGCAAAATGTACAGATGACTGCAAA : 1318100
1177 : ATAGTAGTCAAAGCTCGCGACTTACAGAGTGCTCTGGTTAGACAGCTCCTGTAG : 1230
||||||||||||||||||||||||||||||||||||||||||||||||||||||
1318099 : ATAGTAGTCAAAGCTCGCGACTTACAGAGTGCTCTGGTTAGACAGCTCCTGTAG : 1318046
cigar: gi|296143771|ref|NM_001180731.1| 0 1230 + gi|330443520|ref|NC_001136.10| 1319275 1318045 - 6150 M 1230
vulgar: gi|296143771|ref|NM_001180731.1| 0 1230 + gi|330443520|ref|NC_001136.10| 1319275 1318045 - 6150 M 1230 1230
C4 Alignment:
------------
Query: gi|296143771|ref|NM_001180731.1| Saccharomyces cerevisiae S288c Cad1p (CAD1) mRNA, complete cds
Target: gi|330443688|ref|NC_001145.3| Saccharomyces cerevisiae S288c chromosome XIII, complete sequence
Model: est2genome
Raw score: 439
Query range: 0 -> 346
Target range: 85010 -> 473201
1 : ATGGGCAATATCCTTCGGAAAGGTCAGCAAATATATTTAGCAGGTGACATGAAGAAGC : 58
|||| || | |||| | |||||| |||| | | | |||| ||||||||||
85011 : ATGGTGAACCT-CTTCAAGACGGTCAG--AATA-A-TCAACAGG----ATGAAGAAGC : 85059
59 : AAATGTT >>>> Target Intron 1 >>>> GCTA-AATAAAGATGGAACACC : 86
||| | |++ 168908 bp -+|| | ||| || | | |||
85060 : AAAAGATgt.........................tgGCGAGGATAGCGA-GCA--ACC : 253993
87 : TAAGAGGAAGGTGGGCAGACCAGGCAGAAA-AAGGATT--GACTCTGAAGCTAAGAGT : 141
|||| ||||| ||| | | ||| ||| | |||| || ||||| |||||
253994 : GAAGAAGAAGGGTAGCAAAACTAGCAAAAAGCAAGATTTGGATCCTGAAACTAAGCAG : 254051
142 : AGGAGGACTGCCCAGAATAGGGCAGCTCAACGAGCGTTCCGAGATAGGAAAGAAGCCA : 199
| |||||||||||| ||| |||| |||||| |||| || | || | || || |
254052 : AAGAGGACTGCCCAAAATCGGGCCGCTCAAAGAGCTTTTAGGGAACGTAAGGAGAGGA : 254109
200 : AAATGAAGAGTTTGCAAGAGAGGGTA >>>> Target Intron 2 >>>> GAG : 228
| |||||| ||| | ||| ||||-- 96824 bp -+| |
254110 : AGATGAAGGAATTGGAGAAGAAGGTAca.........................tgGGG : 350962
229 : TTACTAGAACA--GAAAGATGCGCAGAATA--AGACTACCACGGACTT-TTTACTATG : 281
| | || | || |||| | ||||| || ||||| ||| ||| |||
350963 : TGATTATATCATTTCTGGATGAG--GAATACCTGAAGACCAC--TCTTCATTAAAATG : 351016
282 : TTCTTTAAAAAGTTTACTGTCGGAAAT-TACAAAATATAG >>>> Target Intr : 321
||||||||||| | | || | ||| || | | | |||-+ 122118 b
351017 : TTCTTTAAAAA-TATTCTTTTGGATATATTCTA---CTAGtt................ : 351055
322 : on 3 >>>> AGCTAAGAATTCTGATGATG-----AAAGAA : 346
p ++| |||||||||||| ||| ||||||
351056 : .........agATGGAAGAATTCTGATAATGCTGTAAAAGAA : 473201
cigar: gi|296143771|ref|NM_001180731.1| 0 346 + gi|330443688|ref|NC_001145.3| 85010 473201 + 439 M 11 I 1 M 15 I 2 M 4 I 1 M 1 I 1 M 8 I 4 M 17 D 168908 M 4 D 1 M 8 I 1 M 3 I 2 M 33 D 1 M 7 D 2 M 102 D 96824 M 14 D 2 M 10 I 2 M 5 D 2 M 10 I 2 M 4 D 1 M 20 I 1 M 15 D 1 M 5 I 3 M 4 D 122118 M 20 D 5 M 6
vulgar: gi|296143771|ref|NM_001180731.1| 0 346 + gi|330443688|ref|NC_001145.3| 85010 473201 + 439 M 11 11 G 1 0 M 15 15 G 2 0 M 4 4 G 1 0 M 1 1 G 1 0 M 8 8 G 4 0 M 17 17 5 0 2 I 0 168904 3 0 2 M 4 4 G 0 1 M 8 8 G 1 0 M 3 3 G 2 0 M 33 33 G 0 1 M 7 7 G 0 2 M 102 102 5 0 2 I 0 96820 3 0 2 M 14 14 G 0 2 M 10 10 G 2 0 M 5 5 G 0 2 M 10 10 G 2 0 M 4 4 G 0 1 M 20 20 G 1 0 M 15 15 G 0 1 M 5 5 G 3 0 M 4 4 5 0 2 I 0 122114 3 0 2 M 20 20 G 0 5 M 6 6
C4 Alignment:
------------
Query: gi|296143771|ref|NM_001180731.1| Saccharomyces cerevisiae S288c Cad1p (CAD1) mRNA, complete cds
Target: gi|330443688|ref|NC_001145.3| Saccharomyces cerevisiae S288c chromosome XIII, complete sequence:[revcomp]
Model: est2genome
Raw score: 263
Query range: 25 -> 406
Target range: 130198 -> 11338
26 : AGCAAATATATTTA-GCAGGTGACATGAAGAAGCAAATGTTGCTAA-ATAAAGATG-- : 80
| |||| ||| | |||| | | || |||| | | || ||| | || ||
130198 : ACCAAAGATAACAAGGCAG--AAAAAGAGGAAGAAGAAATTAATAAGGTTGAGGTGAC : 130143
81 : ----GAACACCTAAGAGGAAGGTGGGCAGACCAGGCAGAAAAAGGATTGACTCTGAAG : 133
||| | | ||| ||| | || |||||||||||| | || |||
130142 : CCCAGAAGAGCCAAGCAAAAGCATAGATAACAAGGCAGAAAAAGAA--GAAGAAGAAA : 130087
134 : CTAAGA--GTAGGAG-GACTGCCCAGAATAGGGCAGCTCAACGAGCGTTCCGA <<< : 184
||| | || | || ||| |||||| || ||| || || ||| ||++
130086 : TTAATAAGGTTGAAGTGAC--CCCAGAGGAGCCAAGCAAAAAGA---TTCGGAct... : 130036
185 : < Target Intron 1 <<<< GATAGGAAAGAAG-CCAAAATGAAGAGTTTGCAA : 216
9357 bp -+| || |||||| |||| | ||||| | ||
130035 : ......................tcG-TATTGAAGAAGTCCAAGAAGAAGA-TGAAGAA : 120650
217 : GA-GAGGGTAGAGTTACTAGAACAGAAAGATG-CGCAG <<<< Target Intron : 253
|| | | | ||| | |||||| |||| | | ||-- 109125 bp
120649 : GATAATGATGGAG-AAGAAGAACAAGAAGAAGAAGAAGaa.................. : 120610
254 : 2 <<<< AATAAGACTACCACGGACTTTTTACTATGTTCTTTAAAAAGTTTACTGT : 301
++||||||| | ||| | |||| | | | | || || | |||
120609 : .......acAATAAGAGCAACACAG----TTTA-TCTTATATGTA-----TTCAATGT : 11449
302 : CGGAAATTACAAAATATAGAGCT--AAGA--ATTCTGATGATGAAAGAATATTAGCCT : 355
| ||| |||||||||||| | || | |||| | || || || || |||
11448 : -ATAGATTTCAAAATATAGAGTTTAAATATCATTCAAAATATTCAATAAATTTTTCCT : 11392
356 : TCCTCGA-TGA-TCTGCAAGAACAACAGAAAAGGGAAAACGAAAAAGGAACAA : 406
| | | | | | | || | | || || |||||||| || ||||
11391 : TTGAAAATTTAGGCCACTAAAAAATTATAAGAGCCAAAACGAAGTAGATACAA : 11339
cigar: gi|296143771|ref|NM_001180731.1| 25 406 + gi|330443688|ref|NC_001145.3| 130198 11338 - 263 M 14 D 1 M 4 I 2 M 25 D 1 M 9 D 6 M 42 I 2 M 16 D 2 M 7 D 1 M 3 I 2 M 23 I 3 M 6 D 9357 M 1 I 1 M 11 D 1 M 12 I 1 M 9 D 1 M 10 I 1 M 18 D 1 M 5 D 109125 M 16 I 4 M 4 I 1 M 11 I 5 M 8 I 1 M 22 D 2 M 4 D 2 M 34 D 1 M 3 D 1 M 41
vulgar: gi|296143771|ref|NM_001180731.1| 25 406 + gi|330443688|ref|NC_001145.3| 130198 11338 - 263 M 14 14 G 0 1 M 4 4 G 2 0 M 25 25 G 0 1 M 9 9 G 0 6 M 42 42 G 2 0 M 16 16 G 0 2 M 7 7 G 0 1 M 3 3 G 2 0 M 23 23 G 3 0 M 6 6 3 0 2 I 0 9353 5 0 2 M 1 1 G 1 0 M 11 11 G 0 1 M 12 12 G 1 0 M 9 9 G 0 1 M 10 10 G 1 0 M 18 18 G 0 1 M 5 5 3 0 2 I 0 109121 5 0 2 M 16 16 G 4 0 M 4 4 G 1 0 M 11 11 G 5 0 M 8 8 G 1 0 M 22 22 G 0 2 M 4 4 G 0 2 M 34 34 G 0 1 M 3 3 G 0 1 M 41 41
-- completed exonerate analysis
|
