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|
# lastal version: 1356
# maximum percent identity: 100
# scale of score parameters: 4.36661
# scale used while training: 87.3322
# lastal -j7 -S1 -P8 -Q1
# aligned letter pairs: 924804
# deletes: 349.415529
# inserts: 495.798222
# delOpens: 225.783723
# insOpens: 307.391919
# alignments: 8865
# mean delete size: 1.54757
# mean insert size: 1.61292
# matchProb: 0.989939
# delOpenProb: 0.000241686
# insOpenProb: 0.000329042
# delExtendProb: 0.353825
# insExtendProb: 0.380006
# substitution percent identity: 99.0569
# count matrix (query letters = columns, reference letters = rows):
# A C G T
# A 207999.994042 364.59369976 1609.62971812 464.972439801
# C 282.31380458 208664.84 367.320803025 1151.0333959
# G 1566.59722821 302.920049455 238122.96 487.110580969
# T 475.622003141 1140.80036242 506.438297497 261062.14
# probability matrix (query letters = columns, reference letters = rows):
# A C G T
# A 0.22497 0.000394339 0.00174095 0.000502907
# C 0.000305346 0.225689 0.000397289 0.00124494
# G 0.00169441 0.000327634 0.25755 0.000526851
# T 0.000514425 0.00123387 0.000547756 0.282361
# delExistCost: 675
# insExistCost: 658
# delExtendCost: 90
# insExtendCost: 84
# score matrix (query letters = columns, reference letters = rows):
# A C G T
# A 128 -426 -308 -424
# C -448 128 -437 -345
# G -310 -454 117 -432
# T -422 -346 -429 109
# lastal -j7 -S1 -P8 -Q1 -t87.2866 -p-
# aligned letter pairs: 924068
# deletes: 345.0865275
# inserts: 483.9109828
# delOpens: 174.7483739
# insOpens: 250.6328238
# alignments: 8855
# mean delete size: 1.97476
# mean insert size: 1.93076
# matchProb: 0.990056
# delOpenProb: 0.000187227
# insOpenProb: 0.000268531
# delExtendProb: 0.49361
# insExtendProb: 0.482068
# substitution percent identity: 99.0829
# count matrix (query letters = columns, reference letters = rows):
# A C G T
# A 207905.973013 289.882198296 1721.58278824 401.505504169
# C 226.745298438 208668.38 315.641680605 1167.40700617
# G 1641.70720602 261.153096774 238000.39 430.87957474
# T 416.714718373 1163.73188519 435.231989324 260754.06
# probability matrix (query letters = columns, reference letters = rows):
# A C G T
# A 0.225055 0.000313793 0.00186359 0.000434623
# C 0.000245448 0.22588 0.000341677 0.0012637
# G 0.00177712 0.000282694 0.257632 0.00046642
# T 0.000451087 0.00125972 0.000471132 0.282262
# delExistCost: 748
# insExistCost: 712
# delExtendCost: 61
# insExtendCost: 63
# score matrix (query letters = columns, reference letters = rows):
# A C G T
# A 128 -446 -302 -437
# C -467 128 -450 -344
# G -306 -467 117 -443
# T -434 -344 -442 109
# lastal -j7 -S1 -P8 -Q1 -t87.2613 -p-
# aligned letter pairs: 923943.4
# deletes: 437.1544268
# inserts: 512.5133315
# delOpens: 175.5957635
# insOpens: 245.8958201
# alignments: 8849
# mean delete size: 2.48955
# mean insert size: 2.08427
# matchProb: 0.990065
# delOpenProb: 0.000188162
# insOpenProb: 0.000263493
# delExtendProb: 0.598321
# insExtendProb: 0.520216
# substitution percent identity: 99.0882
# count matrix (query letters = columns, reference letters = rows):
# A C G T
# A 207894.97501 272.276675332 1735.76669663 391.471518076
# C 217.883147774 208653.58 307.521004812 1169.19652964
# G 1647.97671476 255.009042144 237968.26 425.258801868
# T 408.05145365 1166.94837513 425.132635177 260732.45
# probability matrix (query letters = columns, reference letters = rows):
# A C G T
# A 0.225075 0.000294776 0.0018792 0.000423821
# C 0.000235888 0.225896 0.000332933 0.00126581
# G 0.00178416 0.000276082 0.257633 0.0004604
# T 0.000441771 0.00126338 0.000460264 0.282278
# delExistCost: 784
# insExistCost: 726
# delExtendCost: 44
# insExtendCost: 57
# score matrix (query letters = columns, reference letters = rows):
# A C G T
# A 128 -452 -301 -439
# C -471 128 -453 -344
# G -306 -469 117 -444
# T -436 -344 -444 109
# lastal -j7 -S1 -P8 -Q1 -t87.2569 -p-
# aligned letter pairs: 925009.4
# deletes: 38710.0696928
# inserts: 511.5456894
# delOpens: 1098.6271655
# insOpens: 243.4920882
# alignments: 8025
# mean delete size: 35.2349
# mean insert size: 2.10087
# matchProb: 0.989974
# delOpenProb: 0.00117579
# insOpenProb: 0.000260593
# delExtendProb: 0.971619
# insExtendProb: 0.524007
# substitution percent identity: 99.093
# count matrix (query letters = columns, reference letters = rows):
# A C G T
# A 208249.23001 266.172794128 1729.98267227 384.404657432
# C 214.156155093 208334.09 305.081337732 1150.15397136
# G 1657.44134618 255.500062482 238634.76 427.261615176
# T 406.427177355 1167.44219296 422.038047445 261002.19
# probability matrix (query letters = columns, reference letters = rows):
# A C G T
# A 0.22523 0.000287877 0.00187105 0.00041575
# C 0.000231619 0.225322 0.000329958 0.00124394
# G 0.00179259 0.000276334 0.258093 0.000462101
# T 0.000439568 0.00126264 0.000456452 0.282285
# delExistCost: 707
# insExistCost: 729
# delExtendCost: 20
# insExtendCost: 56
# score matrix (query letters = columns, reference letters = rows):
# A C G T
# A 128 -454 -302 -441
# C -472 129 -453 -345
# G -306 -469 116 -444
# T -436 -344 -445 109
# lastal -j7 -S1 -P8 -Q1 -t87.2937 -p-
# aligned letter pairs: 933117.1
# deletes: 110024.687548
# inserts: 557.6413934
# delOpens: 2530.3152041
# insOpens: 249.3512652
# alignments: 7133
# mean delete size: 43.4826
# mean insert size: 2.23637
# matchProb: 0.989487
# delOpenProb: 0.00268317
# insOpenProb: 0.000264415
# delExtendProb: 0.977002
# insExtendProb: 0.552847
# substitution percent identity: 99.098
# count matrix (query letters = columns, reference letters = rows):
# A C G T
# A 210193.43 265.986374605 1725.50196509 377.621595898
# C 212.597502055 209566.12 297.366839035 1146.16203866
# G 1673.11244843 258.615766053 241075.04 433.517708587
# T 416.557220497 1182.20411908 423.151378244 263352.89
# probability matrix (query letters = columns, reference letters = rows):
# A C G T
# A 0.225384 0.00028521 0.00185021 0.000404913
# C 0.000227962 0.224712 0.000318858 0.001229
# G 0.00179403 0.000277306 0.258498 0.000464849
# T 0.000446662 0.00126764 0.000453733 0.282386
# delExistCost: 635
# insExistCost: 738
# delExtendCost: 20
# insExtendCost: 51
# score matrix (query letters = columns, reference letters = rows):
# A C G T
# A 128 -454 -303 -444
# C -474 129 -456 -346
# G -306 -469 116 -443
# T -435 -343 -446 109
# lastal -j7 -S1 -P8 -Q1 -t87.3928 -p-
# aligned letter pairs: 933438.1
# deletes: 113852.535927
# inserts: 582.6010401
# delOpens: 2694.812143
# insOpens: 254.3964749
# alignments: 7109
# mean delete size: 42.2488
# mean insert size: 2.29013
# matchProb: 0.989338
# delOpenProb: 0.00285619
# insOpenProb: 0.000269631
# delExtendProb: 0.976331
# insExtendProb: 0.563344
# substitution percent identity: 99.1015
# count matrix (query letters = columns, reference letters = rows):
# A C G T
# A 210278.95 266.162632778 1715.79445908 373.742909368
# C 211.546542556 209621.73 295.3187102 1142.33265033
# G 1670.9538086 257.308569113 241168.44 432.159391413
# T 414.531273751 1182.6164161 419.290110238 263459.06
# probability matrix (query letters = columns, reference letters = rows):
# A C G T
# A 0.225401 0.000285304 0.00183919 0.000400621
# C 0.00022676 0.224697 0.000316557 0.00122448
# G 0.00179112 0.000275813 0.258512 0.000463238
# T 0.000444342 0.00126766 0.000449443 0.282406
# delExistCost: 630
# insExistCost: 740
# delExtendCost: 20
# insExtendCost: 50
# score matrix (query letters = columns, reference letters = rows):
# A C G T
# A 128 -454 -304 -445
# C -474 129 -457 -346
# G -306 -469 116 -444
# T -435 -343 -446 109
# lastal -j7 -S1 -P8 -Q1 -t87.4013 -p-
# aligned letter pairs: 933529.8
# deletes: 114006.571779
# inserts: 585.9582281
# delOpens: 2709.156578
# insOpens: 254.9102021
# alignments: 7110
# mean delete size: 42.0819
# mean insert size: 2.29868
# matchProb: 0.989323
# delOpenProb: 0.00287107
# insOpenProb: 0.000270145
# delExtendProb: 0.976237
# insExtendProb: 0.564969
# substitution percent identity: 99.1016
# count matrix (query letters = columns, reference letters = rows):
# A C G T
# A 210302.4 266.274148041 1714.62490581 373.880425569
# C 211.482252233 209648.88 294.854631946 1142.08693997
# G 1673.50320687 257.185514646 241187.26 431.301034518
# T 414.23995412 1182.49154896 420.322063757 263479.95
# probability matrix (query letters = columns, reference letters = rows):
# A C G T
# A 0.225404 0.000285395 0.00183775 0.000400729
# C 0.000226669 0.224704 0.000316028 0.0012241
# G 0.00179368 0.000275654 0.258507 0.000462273
# T 0.000443987 0.00126741 0.000450506 0.282401
# delExistCost: 629
# insExistCost: 740
# delExtendCost: 20
# insExtendCost: 50
# score matrix (query letters = columns, reference letters = rows):
# A C G T
# A 128 -454 -304 -444
# C -474 129 -457 -346
# G -306 -469 116 -444
# T -436 -343 -446 109
# lastal -j7 -S1 -P8 -Q1 -t87.4035 -p-
# aligned letter pairs: 933530.7
# deletes: 114008.458808
# inserts: 586.3397905
# delOpens: 2713.14593
# insOpens: 255.0196962
# alignments: 7110
# mean delete size: 42.0208
# mean insert size: 2.29919
# matchProb: 0.989319
# delOpenProb: 0.00287528
# insOpenProb: 0.00027026
# delExtendProb: 0.976202
# insExtendProb: 0.565065
# substitution percent identity: 99.1016
# count matrix (query letters = columns, reference letters = rows):
# A C G T
# A 210301.84 266.291167253 1714.91289053 374.595517317
# C 211.481634531 209648.69 294.834276812 1142.03369463
# G 1673.444626 257.185363639 241186.58 431.25964152
# T 413.482786206 1182.50046444 420.304459674 263480.67
# probability matrix (query letters = columns, reference letters = rows):
# A C G T
# A 0.225404 0.000285414 0.00183806 0.000401496
# C 0.000226668 0.224704 0.000316007 0.00122404
# G 0.00179362 0.000275654 0.258506 0.000462229
# T 0.000443175 0.00126742 0.000450487 0.282402
# delExistCost: 629
# insExistCost: 740
# delExtendCost: 20
# insExtendCost: 50
# score matrix (query letters = columns, reference letters = rows):
# A C G T
# A 128 -454 -304 -444
# C -474 129 -457 -346
# G -306 -469 116 -444
# T -436 -343 -446 109
#last -Q 1
#last -t4.16075
#last -a 31
#last -A 37
#last -b 1
#last -B 2
#last -S 1
# score matrix (query letters = columns, reference letters = rows):
A C G T
A 6 -23 -15 -22
C -24 6 -23 -17
G -15 -23 6 -22
T -22 -17 -22 5
|
