Mercurial > repos > iuc > last
diff test-data/last_train_E.txt @ 4:8705e0d74a0f draft
"planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/last commit 6b601baaf89634bc8d110ea06e3e64c7a585f3ba"
| author | iuc |
|---|---|
| date | Wed, 24 Mar 2021 22:36:50 +0000 |
| parents | 3de2195f32c0 |
| children |
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--- a/test-data/last_train_E.txt Fri Nov 13 09:05:49 2020 +0000 +++ b/test-data/last_train_E.txt Wed Mar 24 22:36:50 2021 +0000 @@ -1,9 +1,9 @@ -# lastal version: 1021 +# lastal version: 1205 # maximum percent identity: 100 # scale of score parameters: 4.5512 # scale used while training: 91.024 -# lastal -j7 -D1000000 -E10 -s1 -S1 -T0 -m10 -k1 -P1 -X0 -Q0 -r5 -q5 -a15 -b3 -A15 -B3 ref_db /tmp/tmpikDSIL/tmp/tmpDOHHwB +# lastal -j7 -D1000000 -E10 -s1 -S1 -T0 -m10 -k1 -P1 -X0 -Q0 -r5 -q5 -a15 -b3 -A15 -B3 /home/berntm/.planemo/planemo_tmp_y1t9frxe/test-data/humdb /tmp/tmpw04gddt3 # aligned letter pairs: 14901 # deletes: 694 @@ -47,7 +47,7 @@ # G -88 -164 145 -167 # T -112 -66 -127 90 -# lastal -j7 -D1000000 -E10 -s1 -S1 -T0 -m10 -k1 -P1 -X0 -Q0 -t91.4322 -p- ref_db /tmp/tmpikDSIL/tmp/tmpDOHHwB +# lastal -j7 -D1000000 -E10 -s1 -S1 -T0 -m10 -k1 -P1 -X0 -Q0 -t91.4322 -p- /home/berntm/.planemo/planemo_tmp_y1t9frxe/test-data/humdb /tmp/tmpw04gddt3 # aligned letter pairs: 14771 # deletes: 379.3 @@ -63,21 +63,21 @@ # delExtendProb: 0.511732 # insExtendProb: 0.566038 -# substitution percent identity: 70.0105 +# substitution percent identity: 70.0152 # count matrix (query letters = columns, reference letters = rows): # A C G T -# A 3158 583.4 429.9 391.6 +# A 3158 582.4 429.9 391.6 # C 589 3065 156.8 774 # G 252.2 88.64 1571 68.46 # T 342.6 630.1 131.09 2566 # probability matrix (query letters = columns, reference letters = rows): # A C G T -# A 0.21341 0.0394248 0.0290516 0.0264634 -# C 0.0398032 0.207126 0.0105962 0.0523051 -# G 0.0170431 0.00599008 0.106165 0.00462637 -# T 0.0231521 0.0425807 0.00885876 0.173404 +# A 0.213425 0.0393599 0.0290536 0.0264652 +# C 0.0398059 0.20714 0.0105969 0.0523086 +# G 0.0170442 0.00599049 0.106172 0.00462668 +# T 0.0231537 0.0425836 0.00885935 0.173416 # delExistCost: 406 # insExistCost: 400 @@ -86,218 +86,218 @@ # score matrix (query letters = columns, reference letters = rows): # A C G T -# A 75 -79 -48 -102 +# A 76 -79 -48 -102 # C -78 72 -140 -41 # G -79 -174 146 -185 # T -107 -52 -136 89 -# lastal -j7 -D1000000 -E10 -s1 -S1 -T0 -m10 -k1 -P1 -X0 -Q0 -t90.8564 -p- ref_db /tmp/tmpikDSIL/tmp/tmpDOHHwB +# lastal -j7 -D1000000 -E10 -s1 -S1 -T0 -m10 -k1 -P1 -X0 -Q0 -t91.6863 -p- /home/berntm/.planemo/planemo_tmp_y1t9frxe/test-data/humdb /tmp/tmpw04gddt3 # aligned letter pairs: 14881 -# deletes: 258.8 -# inserts: 446.1 -# delOpens: 112.91 -# insOpens: 168 +# deletes: 264.3 +# inserts: 451.9 +# delOpens: 116.18 +# insOpens: 171.3 # alignments: 2 -# mean delete size: 2.29209 -# mean insert size: 2.65536 -# matchProb: 0.981278 -# delOpenProb: 0.00744548 -# insOpenProb: 0.0110782 -# delExtendProb: 0.563717 -# insExtendProb: 0.623403 +# mean delete size: 2.27492 +# mean insert size: 2.63806 +# matchProb: 0.980854 +# delOpenProb: 0.00765779 +# insOpenProb: 0.0112909 +# delExtendProb: 0.560424 +# insExtendProb: 0.620934 -# substitution percent identity: 68.9366 +# substitution percent identity: 68.9602 # count matrix (query letters = columns, reference letters = rows): # A C G T -# A 3126 618.3 445 406.6 -# C 622.8 3041 159.4 805.4 -# G 265.2 91.16 1560 68.22 -# T 357.3 660 133.33 2554 +# A 3126 617.2 445 406.6 +# C 621.9 3041 159.4 804.4 +# G 264.2 91.07 1560 68.32 +# T 357.3 658.9 133.32 2554 # probability matrix (query letters = columns, reference letters = rows): # A C G T -# A 0.209606 0.0414585 0.0298383 0.0272635 -# C 0.0417602 0.203906 0.0106882 0.054004 -# G 0.0177823 0.0061125 0.104602 0.00457431 -# T 0.0239578 0.0442546 0.0089401 0.171252 +# A 0.209677 0.0413989 0.0298485 0.0272728 +# C 0.0417142 0.203976 0.0106918 0.0539554 +# G 0.0177213 0.00610855 0.104638 0.00458259 +# T 0.023966 0.0441959 0.00894248 0.17131 -# delExistCost: 470 -# insExistCost: 457 +# delExistCost: 466 +# insExistCost: 453 # delExtendCost: 52 -# insExtendCost: 42 +# insExtendCost: 43 # score matrix (query letters = columns, reference letters = rows): # A C G T -# A 75 -73 -44 -99 +# A 75 -74 -44 -99 # C -73 71 -138 -37 -# G -73 -171 147 -185 +# G -74 -171 147 -185 # T -103 -48 -134 88 -# lastal -j7 -D1000000 -E10 -s1 -S1 -T0 -m10 -k1 -P1 -X0 -Q0 -t91.1831 -p- ref_db /tmp/tmpikDSIL/tmp/tmpDOHHwB +# lastal -j7 -D1000000 -E10 -s1 -S1 -T0 -m10 -k1 -P1 -X0 -Q0 -t91.1379 -p- /home/berntm/.planemo/planemo_tmp_y1t9frxe/test-data/humdb /tmp/tmpw04gddt3 # aligned letter pairs: 14981 -# deletes: 214.8 -# inserts: 402.9 -# delOpens: 82.32 -# insOpens: 131.98 +# deletes: 217 +# inserts: 405.1 +# delOpens: 83.75 +# insOpens: 134.12 # alignments: 2 -# mean delete size: 2.60933 -# mean insert size: 3.05274 -# matchProb: 0.985702 -# delOpenProb: 0.0054164 -# insOpenProb: 0.00868387 -# delExtendProb: 0.61676 -# insExtendProb: 0.672425 +# mean delete size: 2.59104 +# mean insert size: 3.02043 +# matchProb: 0.985471 +# delOpenProb: 0.00550919 +# insOpenProb: 0.0088226 +# delExtendProb: 0.614055 +# insExtendProb: 0.668921 -# substitution percent identity: 68.4035 +# substitution percent identity: 68.4369 # count matrix (query letters = columns, reference letters = rows): # A C G T -# A 3114 635.9 450 416.3 -# C 640.1 3019 164.9 816.3 -# G 270.6 93.43 1560 69.38 -# T 365.7 670 135.53 2543 +# A 3114 634.8 449.1 416.3 +# C 639 3019 163.9 815.3 +# G 269.6 93.35 1560 69.28 +# T 364.7 670 135.51 2543 # probability matrix (query letters = columns, reference letters = rows): # A C G T -# A 0.208097 0.0424949 0.0300719 0.0278198 -# C 0.0427756 0.201749 0.0110197 0.0545504 -# G 0.0180832 0.00624359 0.104249 0.00463642 -# T 0.0244384 0.0447737 0.00905699 0.16994 +# A 0.208199 0.0424421 0.0300264 0.0278334 +# C 0.0427229 0.201847 0.0109582 0.0545102 +# G 0.0180252 0.00624129 0.1043 0.00463199 +# T 0.0243835 0.0447956 0.00906007 0.170023 -# delExistCost: 518 -# insExistCost: 498 +# delExistCost: 516 +# insExistCost: 495 # delExtendCost: 44 # insExtendCost: 36 # score matrix (query letters = columns, reference letters = rows): # A C G T -# A 74 -71 -43 -97 +# A 75 -71 -43 -97 # C -70 71 -135 -36 -# G -71 -169 146 -183 +# G -72 -169 147 -183 # T -101 -46 -133 88 -# lastal -j7 -D1000000 -E10 -s1 -S1 -T0 -m10 -k1 -P1 -X0 -Q0 -t90.7211 -p- ref_db /tmp/tmpikDSIL/tmp/tmpDOHHwB +# lastal -j7 -D1000000 -E10 -s1 -S1 -T0 -m10 -k1 -P1 -X0 -Q0 -t91.7798 -p- /home/berntm/.planemo/planemo_tmp_y1t9frxe/test-data/humdb /tmp/tmpw04gddt3 # aligned letter pairs: 14981 -# deletes: 197.5 -# inserts: 386.4 -# delOpens: 68.51 -# insOpens: 115.71 +# deletes: 204.2 +# inserts: 393.3 +# delOpens: 71.01 +# insOpens: 119.07 # alignments: 2 -# mean delete size: 2.88279 -# mean insert size: 3.33938 -# matchProb: 0.987657 -# delOpenProb: 0.00451668 -# insOpenProb: 0.00762845 -# delExtendProb: 0.653114 -# insExtendProb: 0.700543 +# mean delete size: 2.87565 +# mean insert size: 3.3031 +# matchProb: 0.987276 +# delOpenProb: 0.00467969 +# insOpenProb: 0.00784693 +# delExtendProb: 0.652253 +# insExtendProb: 0.697254 -# substitution percent identity: 68.1501 +# substitution percent identity: 68.1926 # count matrix (query letters = columns, reference letters = rows): # A C G T -# A 3103 643.6 451.1 422.5 -# C 649.8 3008 167 819.5 -# G 272.7 94.59 1560 70.43 -# T 369.8 675.4 136.61 2542 +# A 3104 642.4 451.1 421.4 +# C 647.7 3009 167 819.4 +# G 271.7 94.39 1560 70.33 +# T 368.8 674.3 136.58 2543 # probability matrix (query letters = columns, reference letters = rows): # A C G T -# A 0.20706 0.0429467 0.0301014 0.0281929 -# C 0.0433604 0.20072 0.0111437 0.0546843 -# G 0.0181969 0.00631188 0.104097 0.00469971 -# T 0.0246763 0.0450686 0.00911582 0.169625 +# A 0.207194 0.0428807 0.0301113 0.0281288 +# C 0.0432345 0.200853 0.0111474 0.0546956 +# G 0.0181362 0.00630061 0.104131 0.00469458 +# T 0.0246177 0.04501 0.00911682 0.169747 -# delExistCost: 549 -# insExistCost: 522 +# delExistCost: 545 +# insExistCost: 517 # delExtendCost: 39 -# insExtendCost: 32 +# insExtendCost: 33 # score matrix (query letters = columns, reference letters = rows): # A C G T -# A 74 -69 -43 -95 -# C -68 70 -134 -35 +# A 74 -70 -43 -96 +# C -69 70 -134 -35 # G -71 -168 146 -182 -# T -100 -45 -132 88 +# T -100 -46 -132 88 -# lastal -j7 -D1000000 -E10 -s1 -S1 -T0 -m10 -k1 -P1 -X0 -Q0 -t90.7441 -p- ref_db /tmp/tmpikDSIL/tmp/tmpDOHHwB +# lastal -j7 -D1000000 -E10 -s1 -S1 -T0 -m10 -k1 -P1 -X0 -Q0 -t90.3541 -p- /home/berntm/.planemo/planemo_tmp_y1t9frxe/test-data/humdb /tmp/tmpw04gddt3 # aligned letter pairs: 14981 -# deletes: 192.1 -# inserts: 380.9 -# delOpens: 62.34 -# insOpens: 108.21 +# deletes: 194.4 +# inserts: 382.1 +# delOpens: 63.11 +# insOpens: 109.31 # alignments: 2 -# mean delete size: 3.08149 -# mean insert size: 3.52001 -# matchProb: 0.988548 -# delOpenProb: 0.00411362 -# insOpenProb: 0.00714043 -# delExtendProb: 0.675482 -# insExtendProb: 0.71591 +# mean delete size: 3.08034 +# mean insert size: 3.49556 +# matchProb: 0.988426 +# delOpenProb: 0.00416391 +# insOpenProb: 0.00721213 +# delExtendProb: 0.67536 +# insExtendProb: 0.713923 -# substitution percent identity: 67.9883 +# substitution percent identity: 68.0193 # count matrix (query letters = columns, reference letters = rows): # A C G T -# A 3093 648 451.1 425.7 -# C 654.2 3008 169 821.5 -# G 272.8 95.26 1550 71.05 -# T 371.8 677.5 136.66 2532 +# A 3093 646.9 451.1 424.6 +# C 652.9 3008 168 821.5 +# G 272.7 95.16 1550 70.95 +# T 370.8 676.5 136.64 2532 # probability matrix (query letters = columns, reference letters = rows): # A C G T -# A 0.206509 0.0432647 0.0301184 0.0284225 -# C 0.0436786 0.200834 0.0112835 0.0548487 -# G 0.0182139 0.00636018 0.103488 0.00474376 -# T 0.0248238 0.0452343 0.00912431 0.169053 +# A 0.206603 0.0432109 0.0301321 0.028362 +# C 0.0436117 0.200925 0.0112219 0.0548737 +# G 0.0182155 0.00635639 0.103535 0.00473924 +# T 0.0247683 0.0451881 0.00912713 0.16913 -# delExistCost: 566 -# insExistCost: 534 +# delExistCost: 565 +# insExistCost: 533 # delExtendCost: 36 # insExtendCost: 30 # score matrix (query letters = columns, reference letters = rows): # A C G T -# A 74 -69 -42 -94 +# A 74 -69 -42 -95 # C -68 70 -133 -35 # G -70 -167 147 -181 # T -99 -45 -131 88 -# lastal -j7 -D1000000 -E10 -s1 -S1 -T0 -m10 -k1 -P1 -X0 -Q0 -t91.2473 -p- ref_db /tmp/tmpikDSIL/tmp/tmpDOHHwB +# lastal -j7 -D1000000 -E10 -s1 -S1 -T0 -m10 -k1 -P1 -X0 -Q0 -t91.1953 -p- /home/berntm/.planemo/planemo_tmp_y1t9frxe/test-data/humdb /tmp/tmpw04gddt3 # aligned letter pairs: 14981 -# deletes: 194.5 -# inserts: 383.3 -# delOpens: 60.42 -# insOpens: 106.36 +# deletes: 195.6 +# inserts: 384.5 +# delOpens: 60.75 +# insOpens: 106.8 # alignments: 2 -# mean delete size: 3.21913 -# mean insert size: 3.6038 -# matchProb: 0.988794 -# delOpenProb: 0.00398791 -# insOpenProb: 0.0070201 -# delExtendProb: 0.689357 -# insExtendProb: 0.722515 +# mean delete size: 3.21975 +# mean insert size: 3.60019 +# matchProb: 0.988744 +# delOpenProb: 0.00400949 +# insOpenProb: 0.00704878 +# delExtendProb: 0.689417 +# insExtendProb: 0.722237 -# substitution percent identity: 67.9593 +# substitution percent identity: 67.9748 # count matrix (query letters = columns, reference letters = rows): # A C G T -# A 3093 648.9 451.2 426.7 -# C 655.2 3008 169 821.4 -# G 273.8 95.46 1550 71.26 -# T 372.8 678.6 136.64 2532 +# A 3093 648.9 451.2 425.6 +# C 655.1 3008 169 821.4 +# G 272.8 95.36 1550 71.16 +# T 372.8 677.6 136.64 2532 # probability matrix (query letters = columns, reference letters = rows): # A C G T -# A 0.206421 0.0433063 0.0301122 0.0284771 -# C 0.0437268 0.200748 0.0112787 0.0548186 -# G 0.0182729 0.00637081 0.103444 0.00475575 -# T 0.0248799 0.0452884 0.00911908 0.168981 +# A 0.206468 0.0433161 0.030119 0.0284102 +# C 0.04373 0.200794 0.0112813 0.0548311 +# G 0.0182103 0.00636558 0.103467 0.00475016 +# T 0.0248856 0.045232 0.00912115 0.169019 # delExistCost: 575 # insExistCost: 539 @@ -307,41 +307,41 @@ # score matrix (query letters = columns, reference letters = rows): # A C G T # A 74 -69 -42 -94 -# C -68 70 -132 -35 -# G -70 -167 147 -180 +# C -68 70 -133 -35 +# G -70 -167 147 -181 # T -99 -45 -131 88 -# lastal -j7 -D1000000 -E10 -s1 -S1 -T0 -m10 -k1 -P1 -X0 -Q0 -t91.2311 -p- ref_db /tmp/tmpikDSIL/tmp/tmpDOHHwB +# lastal -j7 -D1000000 -E10 -s1 -S1 -T0 -m10 -k1 -P1 -X0 -Q0 -t91.1816 -p- /home/berntm/.planemo/planemo_tmp_y1t9frxe/test-data/humdb /tmp/tmpw04gddt3 # aligned letter pairs: 14981 # deletes: 196.9 # inserts: 385.7 -# delOpens: 59.47 -# insOpens: 105.68 +# delOpens: 59.46 +# insOpens: 105.67 # alignments: 2 -# mean delete size: 3.31091 -# mean insert size: 3.6497 -# matchProb: 0.9889 -# delOpenProb: 0.00392563 -# insOpenProb: 0.00697597 -# delExtendProb: 0.697969 -# insExtendProb: 0.726005 +# mean delete size: 3.31147 +# mean insert size: 3.65004 +# matchProb: 0.988902 +# delOpenProb: 0.00392498 +# insOpenProb: 0.00697532 +# delExtendProb: 0.698019 +# insExtendProb: 0.726031 -# substitution percent identity: 67.9572 +# substitution percent identity: 67.9622 # count matrix (query letters = columns, reference letters = rows): # A C G T # A 3093 648.8 451.2 426.6 -# C 655.1 3008 169.9 821.4 +# C 655 3008 168.9 821.4 # G 273.8 95.45 1550 71.26 -# T 372.7 678.6 136.63 2532 +# T 372.7 678.6 136.62 2532 # probability matrix (query letters = columns, reference letters = rows): # A C G T -# A 0.206414 0.0432982 0.0301112 0.0284695 -# C 0.0437187 0.200742 0.0113384 0.0548169 -# G 0.0182723 0.00636994 0.103441 0.0047556 -# T 0.0248725 0.045287 0.00911813 0.168975 +# A 0.206429 0.0433015 0.0301135 0.0284716 +# C 0.0437152 0.200756 0.0112725 0.0548209 +# G 0.0182736 0.00637041 0.103448 0.00475595 +# T 0.0248743 0.0452903 0.00911813 0.168988 # delExistCost: 580 # insExistCost: 541 @@ -351,11 +351,11 @@ # score matrix (query letters = columns, reference letters = rows): # A C G T # A 74 -69 -42 -94 -# C -68 70 -132 -35 +# C -68 70 -133 -35 # G -70 -167 147 -180 # T -99 -45 -131 88 -# lastal -j7 -D1000000 -E10 -s1 -S1 -T0 -m10 -k1 -P1 -X0 -Q0 -t91.1656 -p- ref_db /tmp/tmpikDSIL/tmp/tmpDOHHwB +# lastal -j7 -D1000000 -E10 -s1 -S1 -T0 -m10 -k1 -P1 -X0 -Q0 -t91.131 -p- /home/berntm/.planemo/planemo_tmp_y1t9frxe/test-data/humdb /tmp/tmpw04gddt3 # aligned letter pairs: 14981 # deletes: 197 @@ -371,21 +371,21 @@ # delExtendProb: 0.701929 # insExtendProb: 0.727405 -# substitution percent identity: 67.9308 +# substitution percent identity: 67.9358 # count matrix (query letters = columns, reference letters = rows): # A C G T # A 3093 648.8 451.2 426.6 -# C 656 2998 169.9 821.4 -# G 273.8 95.55 1550 71.36 +# C 656 2998 168.9 821.4 +# G 273.8 95.45 1550 71.36 # T 372.7 678.6 136.62 2532 # probability matrix (query letters = columns, reference letters = rows): # A C G T -# A 0.206537 0.043324 0.0301292 0.0284865 -# C 0.0438048 0.200193 0.0113452 0.0548495 -# G 0.0182832 0.00638041 0.103502 0.00476511 -# T 0.0248873 0.0453139 0.00912288 0.169076 +# A 0.206552 0.0433272 0.0301314 0.0284886 +# C 0.043808 0.200208 0.0112792 0.0548535 +# G 0.0182845 0.0063742 0.10351 0.00476546 +# T 0.0248891 0.0453173 0.00912355 0.169088 # delExistCost: 584 # insExistCost: 542 @@ -397,9 +397,9 @@ # A 74 -69 -42 -94 # C -68 70 -132 -35 # G -70 -166 146 -180 -# T -99 -45 -132 88 +# T -99 -45 -131 88 -# lastal -j7 -D1000000 -E10 -s1 -S1 -T0 -m10 -k1 -P1 -X0 -Q0 -t90.815 -p- ref_db /tmp/tmpikDSIL/tmp/tmpDOHHwB +# lastal -j7 -D1000000 -E10 -s1 -S1 -T0 -m10 -k1 -P1 -X0 -Q0 -t90.8423 -p- /home/berntm/.planemo/planemo_tmp_y1t9frxe/test-data/humdb /tmp/tmpw04gddt3 # aligned letter pairs: 14981 # deletes: 197 @@ -415,21 +415,153 @@ # delExtendProb: 0.705736 # insExtendProb: 0.728334 -# substitution percent identity: 67.93 +# substitution percent identity: 67.9254 # count matrix (query letters = columns, reference letters = rows): # A C G T # A 3093 648.8 451.2 427.6 # C 656 2998 169.9 821.4 # G 273.8 95.75 1550 71.36 -# T 372.7 678.6 135.61 2532 +# T 372.7 678.6 136.62 2532 + +# probability matrix (query letters = columns, reference letters = rows): +# A C G T +# A 0.20652 0.0433205 0.0301267 0.028551 +# C 0.0438013 0.200177 0.0113443 0.0548451 +# G 0.0182817 0.00639325 0.103494 0.00476473 +# T 0.0248853 0.0453103 0.00912215 0.169062 + +# delExistCost: 586 +# insExistCost: 543 +# delExtendCost: 32 +# insExtendCost: 29 + +# score matrix (query letters = columns, reference letters = rows): +# A C G T +# A 74 -69 -43 -94 +# C -68 70 -132 -35 +# G -70 -166 146 -180 +# T -99 -45 -132 88 + +# lastal -j7 -D1000000 -E10 -s1 -S1 -T0 -m10 -k1 -P1 -X0 -Q0 -t90.682 -p- /home/berntm/.planemo/planemo_tmp_y1t9frxe/test-data/humdb /tmp/tmpw04gddt3 + +# aligned letter pairs: 14981 +# deletes: 194.8 +# inserts: 383.5 +# delOpens: 57.43 +# insOpens: 103.95 +# alignments: 2 +# mean delete size: 3.39196 +# mean insert size: 3.68927 +# matchProb: 0.989147 +# delOpenProb: 0.00379192 +# insOpenProb: 0.00686348 +# delExtendProb: 0.705185 +# insExtendProb: 0.728944 + +# substitution percent identity: 67.9249 + +# count matrix (query letters = columns, reference letters = rows): +# A C G T +# A 3093 649.9 451.1 427.6 +# C 656 2998 169.9 821.4 +# G 273.8 95.75 1550 71.46 +# T 372.7 678.6 135.62 2532 # probability matrix (query letters = columns, reference letters = rows): # A C G T -# A 0.206534 0.0433235 0.0301288 0.0285529 -# C 0.0438042 0.200191 0.011345 0.0548488 -# G 0.0182829 0.00639368 0.103501 0.00476505 -# T 0.024887 0.0453133 0.00905532 0.169074 +# A 0.206519 0.0433937 0.0301199 0.0285508 +# C 0.043801 0.200176 0.0113442 0.0548447 +# G 0.0182816 0.00639321 0.103493 0.00477137 +# T 0.0248851 0.04531 0.00905532 0.169061 + +# delExistCost: 587 +# insExistCost: 543 +# delExtendCost: 32 +# insExtendCost: 29 + +# score matrix (query letters = columns, reference letters = rows): +# A C G T +# A 74 -68 -42 -94 +# C -68 70 -132 -35 +# G -70 -166 147 -180 +# T -99 -45 -132 88 + +# lastal -j7 -D1000000 -E10 -s1 -S1 -T0 -m10 -k1 -P1 -X0 -Q0 -t91.2049 -p- /home/berntm/.planemo/planemo_tmp_y1t9frxe/test-data/humdb /tmp/tmpw04gddt3 + +# aligned letter pairs: 14981 +# deletes: 195.9 +# inserts: 384.7 +# delOpens: 57.66 +# insOpens: 104.5 +# alignments: 2 +# mean delete size: 3.3975 +# mean insert size: 3.68134 +# matchProb: 0.989096 +# delOpenProb: 0.00380691 +# insOpenProb: 0.00689944 +# delExtendProb: 0.705666 +# insExtendProb: 0.72836 + +# substitution percent identity: 67.9195 + +# count matrix (query letters = columns, reference letters = rows): +# A C G T +# A 3093 649.9 451.2 427.6 +# C 656.1 2998 169.9 821.4 +# G 273.8 95.74 1550 71.46 +# T 373.7 678.6 135.62 2532 + +# probability matrix (query letters = columns, reference letters = rows): +# A C G T +# A 0.206503 0.0433902 0.0301241 0.0285485 +# C 0.0438042 0.20016 0.0113433 0.0548404 +# G 0.0182801 0.00639203 0.103485 0.00477099 +# T 0.0249499 0.0453064 0.0090546 0.169048 + +# delExistCost: 586 +# insExistCost: 543 +# delExtendCost: 32 +# insExtendCost: 29 + +# score matrix (query letters = columns, reference letters = rows): +# A C G T +# A 74 -68 -42 -94 +# C -68 70 -132 -35 +# G -70 -166 147 -180 +# T -99 -45 -132 88 + +# lastal -j7 -D1000000 -E10 -s1 -S1 -T0 -m10 -k1 -P1 -X0 -Q0 -t91.2167 -p- /home/berntm/.planemo/planemo_tmp_y1t9frxe/test-data/humdb /tmp/tmpw04gddt3 + +# aligned letter pairs: 14981 +# deletes: 196 +# inserts: 384.7 +# delOpens: 57.87 +# insOpens: 104.51 +# alignments: 2 +# mean delete size: 3.3869 +# mean insert size: 3.68099 +# matchProb: 0.989081 +# delOpenProb: 0.00382071 +# insOpenProb: 0.0069 +# delExtendProb: 0.704745 +# insExtendProb: 0.728334 + +# substitution percent identity: 67.9245 + +# count matrix (query letters = columns, reference letters = rows): +# A C G T +# A 3093 649.9 451.2 427.6 +# C 656.1 2998 169.9 821.4 +# G 273.8 95.64 1550 71.46 +# T 372.7 678.6 135.62 2532 + +# probability matrix (query letters = columns, reference letters = rows): +# A C G T +# A 0.206518 0.0433934 0.0301264 0.0285506 +# C 0.0438074 0.200175 0.0113441 0.0548444 +# G 0.0182815 0.00638583 0.103493 0.00477134 +# T 0.024885 0.0453097 0.00905527 0.16906 # delExistCost: 586 # insExistCost: 543 @@ -443,7 +575,7 @@ # G -70 -166 147 -180 # T -99 -45 -132 88 -# lastal -j7 -D1000000 -E10 -s1 -S1 -T0 -m10 -k1 -P1 -X0 -Q0 -t91.0834 -p- ref_db /tmp/tmpikDSIL/tmp/tmpDOHHwB +# lastal -j7 -D1000000 -E10 -s1 -S1 -T0 -m10 -k1 -P1 -X0 -Q0 -t91.0834 -p- /home/berntm/.planemo/planemo_tmp_y1t9frxe/test-data/humdb /tmp/tmpw04gddt3 # aligned letter pairs: 14981 # deletes: 196