e86128cfb99722359894e3997b13b58783ca68ae markd Sat Jan 17 14:31:01 2026 -0800 add number of aligned bases and alignment span diff --git src/hg/pslStats/tests/expected/cdna2cdnaAlignTest.stats src/hg/pslStats/tests/expected/cdna2cdnaAlignTest.stats index 39f24a5698b..18c44d3a90e 100644 --- src/hg/pslStats/tests/expected/cdna2cdnaAlignTest.stats +++ src/hg/pslStats/tests/expected/cdna2cdnaAlignTest.stats @@ -1,198 +1,198 @@ -#qName qSize tName tStart tEnd ident qCover repMatch tCover -chr1.1564.3.wu1 580 DN831210.1 0 580 1.0000 1.0000 0.0000 1.0000 -chr1.195.17.wu1 569 DN831419.1 0 570 1.0000 0.9930 0.0000 0.9912 -chr1.217.40.r.wu1 375 DN831131.1 0 375 1.0000 1.0000 0.0000 1.0000 -chr1.2278.14.wu1 462 DN831287.1 0 450 1.0000 0.9740 0.0000 1.0000 -chr1.2278.14.wu1 462 DN831889.1 39 501 0.9978 1.0000 0.0000 0.7925 -chr1.23.15.wu1 254 DN831336.1 0 254 1.0000 1.0000 0.0000 1.0000 -chr1.38.19.wu1 715 DN831193.1 0 688 0.9913 0.9622 0.0000 1.0000 -chr1.4758.7.wu1 658 DN831135.1 43 691 1.0000 0.9848 0.0000 0.9351 -chr1.4758.7.wu1 658 DN930500.1 44 692 1.0000 0.9848 0.0000 0.9364 -chr1.52.1.wu1 438 DN831538.1 0 418 0.9833 0.9543 0.0000 1.0000 -chr1.569.60.f.wu1 133 DN831305.1 121 254 1.0000 1.0000 0.0000 0.4981 -chr1.569.60.f.wu1 133 DN930395.1 0 133 1.0000 1.0000 0.0000 1.0000 -chr1.569.60.r.wu1 235 DN831306.1 4 239 0.9957 1.0000 0.0000 0.9109 -chr10.1029.19.wu1 723 DN831455.1 0 689 0.9956 0.9530 0.0000 1.0000 -chr10.1029.19.wu1 723 DN831456.1 0 704 0.9986 0.9723 0.0000 0.9986 -chr10.2808.1.wu1 586 DN831184.1 0 586 1.0000 1.0000 0.0000 1.0000 -chr10.409.1.wu1 737 DN831621.1 0 737 1.0000 1.0000 0.0000 1.0000 -chr11.1194.18.wu1 708 DN831630.1 0 708 1.0000 1.0000 0.0000 1.0000 -chr11.1470.1.wu1 489 DN831753.1 45 534 0.9959 1.0000 0.0000 0.6375 -chr11.1470.1.wu1 489 DN831418.1 0 489 1.0000 1.0000 0.0000 1.0000 -chr11.316.17.f.wu1 241 DN831100.1 0 241 1.0000 1.0000 0.0000 1.0000 -chr12.1988.5.wu1 733 DN831445.1 0 733 0.9986 1.0000 0.0000 1.0000 -chr12.2313.21.wu1 732 DN831289.1 0 711 0.9972 0.9713 0.0000 1.0000 -chr12.2313.21.wu1 732 DN831290.1 4 714 0.9972 0.9699 0.0000 0.9944 -chr13.1570.1.wu1 342 DN831390.1 68 407 1.0000 0.9912 0.0000 0.8329 -chr15.1309.9.r.wu1 261 DN930402.1 0 261 1.0000 1.0000 0.0000 1.0000 -chr15.1506.15.wu1 654 DN831624.1 0 655 1.0000 1.0000 0.0000 0.9985 -chr15.1595.4.wu1 557 DN831396.1 0 557 1.0000 1.0000 0.0000 1.0000 -chr15.1674.4.r.wu1 676 DN831120.1 0 676 1.0000 1.0000 0.0000 1.0000 -chr15.1674.4.r.wu1 676 DN831315.1 0 668 0.9801 0.9675 0.0000 0.9675 -chr15.1680.6.wu1 676 DN831315.1 0 676 0.9985 1.0000 0.0000 1.0000 -chr15.899.30.wu1 651 DN831248.1 0 619 0.9968 0.9508 0.0000 1.0000 -chr15.899.30.wu1 651 DN930502.1 3 622 0.9822 0.9508 0.0000 0.9952 -chr16.50.2.wu1 694 DN831206.1 0 664 0.9910 0.9553 0.0000 0.9985 -chr16.656.11.f.wu1 744 DN831129.1 0 744 1.0000 1.0000 0.0000 1.0000 -chr17.1147.34.f.wu1 538 DN831099.1 0 538 1.0000 1.0000 0.0000 1.0000 -chr17.1520.23.wu1 657 DN831179.1 0 645 0.9860 0.9817 0.0000 0.9471 -chr17.1520.23.wu1 657 DN930446.1 0 657 0.9970 1.0000 0.0000 1.0000 -chr17.1520.31.wu1 388 DN831663.1 170 541 0.9973 0.9562 0.0000 0.6858 -chr17.845.38.wu1 331 DV080269.1 106 437 1.0000 1.0000 0.0000 0.7455 -chr18.273.6.wu1 700 DN930433.1 0 700 0.9986 1.0000 0.0000 1.0000 -chr18.881.9.wu1 671 DN831170.1 0 656 0.9970 0.9776 0.0000 1.0000 -chr19.1157.32.wu1 772 DN831239.1 0 746 0.9920 0.9663 0.0000 1.0000 -chr19.1157.32.wu1 772 DN831240.1 0 747 0.9960 0.9650 0.0000 0.9973 -chr19.1164.9.f.wu1 138 DN930400.1 0 138 1.0000 1.0000 0.0000 1.0000 -chr19.1178.6.wu1 514 DN831277.1 0 500 0.9960 0.9728 0.0000 1.0000 -chr19.1178.6.wu1 514 DN831763.1 50 564 0.9981 1.0000 0.0000 0.8006 -chr19.1178.6.wu1 514 DN831762.1 94 608 1.0000 1.0000 0.0000 0.7428 -chr19.324.15.f.wu1 548 DN831128.1 0 548 1.0000 1.0000 0.0000 1.0000 -chr19.724.6.r.wu1 392 DN831118.1 0 392 1.0000 1.0000 0.0000 1.0000 -chr19.94.2.wu1 666 DN930459.1 0 666 1.0000 1.0000 0.0000 1.0000 -chr2.1147.6.wu1 639 DN831157.1 0 640 0.9969 1.0000 0.0000 0.9984 -chr2.1768.12.wu1 536 DN831478.1 0 536 1.0000 1.0000 0.0000 1.0000 -chr2.4595.34.wu1 439 DN831182.1 0 422 0.9929 0.9613 0.0000 0.9929 -chr2.4595.56.wu1 542 DN831231.1 0 542 1.0000 1.0000 0.0000 1.0000 -chr2.599.6.r.wu1 604 DN930407.1 0 604 1.0000 1.0000 0.0000 1.0000 -chr20.26.3.wu1 846 DN831544.1 0 846 0.9988 1.0000 0.0000 1.0000 -chr22.1023.56.r.wu1 369 DN930399.1 0 369 1.0000 1.0000 0.0000 1.0000 -chr22.607.14.wu1 559 DN831143.1 0 559 1.0000 1.0000 0.0000 1.0000 -chr22.610.6.f.wu1 276 DN930404.1 0 276 1.0000 1.0000 0.0000 1.0000 -chr22.777.3.wu1 440 DN831796.1 42 481 0.9909 0.9977 0.0000 0.9108 -chr3.1038.3.f.wu1 375 DY654435.1 86 463 0.9813 1.0000 0.0000 0.6260 -chr3.1038.3.f.wu1 375 DY654449.1 86 463 0.9893 1.0000 0.0000 0.5123 -chr3.1038.3.f.wu1 375 DN831111.1 0 375 1.0000 1.0000 0.0000 1.0000 -chr3.1038.3.r.wu1 336 DR008130.1 35 371 0.9940 1.0000 0.0000 0.5122 -chr3.1038.3.r.wu1 336 DR008129.1 241 577 0.9940 1.0000 0.0000 0.5300 -chr3.1090.2.f.wu1 224 DN831097.1 0 224 1.0000 1.0000 0.0000 1.0000 -chr3.1091.12.wu1 686 DN930411.1 0 685 1.0000 0.9913 0.0000 0.9927 -chr3.1091.42.wu1 725 DN831495.1 0 725 1.0000 1.0000 0.0000 1.0000 -chr3.1812.5.wu1 485 DN831469.1 0 485 0.9959 1.0000 0.0000 1.0000 -chr3.2382.35.wu1 735 DN831405.1 0 708 0.9972 0.9633 0.0000 1.0000 -chr3.2383.12.wu1 707 DN831440.1 0 705 0.9943 0.9972 0.0000 1.0000 -chr3.262.8.r.wu1 127 DN831133.1 0 127 1.0000 1.0000 0.0000 1.0000 -chr3.2738.4.wu1 764 DN831443.1 0 764 1.0000 1.0000 0.0000 1.0000 -chr3.2973.3.f.wu1 105 DN831113.1 0 105 1.0000 1.0000 0.0000 1.0000 -chr3.2973.3.r.wu1 171 DV080540.1 188 359 0.9825 1.0000 0.0000 0.3922 -chr3.2973.3.r.wu1 171 DV080539.1 39 210 0.9942 1.0000 0.0000 0.3904 -chr3.3602.14.r.wu1 163 DN831134.1 0 163 1.0000 1.0000 0.0000 1.0000 -chr4.1184.2.wu1 726 DN831213.1 0 691 1.0000 0.9518 0.0000 1.0000 -chr4.1184.2.wu1 726 DN831214.1 0 701 0.9986 0.9656 0.0000 1.0000 -chr5.1654.11.wu1 656 DN831617.1 0 656 1.0000 1.0000 0.0000 1.0000 -chr5.2293.1.wu1 664 DN930463.1 0 636 0.9984 0.9578 0.0000 1.0000 -chr5.2293.1.wu1 664 DN930462.1 0 635 1.0000 0.9548 0.0000 0.9984 -chr5.3105.7.wu1 736 DN831487.1 0 711 0.9972 0.9660 0.0000 1.0000 -chr5.3105.7.wu1 736 DN831488.1 1 710 0.9972 0.9620 0.0000 0.9972 -chr6.3063.7.wu1 806 DN831197.1 0 780 0.9949 0.9665 0.0000 0.9987 -chr6.3063.7.wu1 806 DN831198.1 0 806 0.9901 1.0000 0.0000 1.0000 -chr6.765.24.r.wu1 497 DN831166.1 60 557 0.9859 1.0000 0.0000 0.6662 -chr6.765.24.r.wu1 497 DN930396.1 0 497 1.0000 1.0000 0.0000 1.0000 -chr7.2560.7.wu1 686 DN831585.1 0 657 0.9924 0.9563 0.0000 0.9985 -chr7.2560.7.wu1 686 DN930472.1 0 656 0.9893 0.9563 0.0000 1.0000 -chr7.2669.6.wu1 773 DN831301.1 0 739 0.9986 0.9560 0.0000 1.0000 -chr7.2937.1.wu1 551 DN831631.1 0 551 1.0000 1.0000 0.0000 1.0000 -chr7.2987.7.wu1 763 DN831383.1 0 727 1.0000 0.9502 0.0000 0.9972 -chr7.2987.7.wu1 763 DN831384.1 0 729 0.9986 0.9554 0.0000 1.0000 -chr7.3131.24.f.wu1 523 DN930401.1 0 523 1.0000 1.0000 0.0000 1.0000 -chr7.3131.31.r.wu1 300 DN831123.1 0 300 1.0000 1.0000 0.0000 1.0000 -chr8.2968.2.wu1 378 DN831584.1 97 477 1.0000 1.0000 0.0000 0.5972 -chr8.2968.2.wu1 378 DN831583.1 127 507 0.9974 1.0000 0.0000 0.5906 -chr8.3037.72.wu1 692 DN831498.1 0 663 0.9970 0.9581 0.0000 1.0000 -chr8.626.19.wu1 483 DN930415.1 0 483 1.0000 1.0000 0.0000 1.0000 -chr9.1950.12.wu1 708 DN831235.1 0 708 1.0000 1.0000 0.0000 1.0000 -chr9.2649.6.wu1 714 DN831409.1 0 710 1.0000 0.9846 0.0000 0.9901 -chr9.2649.6.wu1 714 DN930412.1 0 714 1.0000 1.0000 0.0000 1.0000 -chrX.1325.4.wu1 745 DN831510.1 1 714 0.9986 0.9503 0.0000 0.9916 -chrX.918.10.wu1 337 DN930468.1 0 331 0.9969 0.9585 0.0000 0.9758 -chr10.1029.9.wu1 373 0 0 0.0000 0.0000 0.0000 0.0000 -chr19.293.38.wu1 594 0 0 0.0000 0.0000 0.0000 0.0000 -chr15.405.8.wu1 516 0 0 0.0000 0.0000 0.0000 0.0000 -chr19.269.11.wu1 428 0 0 0.0000 0.0000 0.0000 0.0000 -chr16.656.11.r.wu1 751 0 0 0.0000 0.0000 0.0000 0.0000 -chr15.1284.11.wu1 392 0 0 0.0000 0.0000 0.0000 0.0000 -chr16.226.13.wu1 381 0 0 0.0000 0.0000 0.0000 0.0000 -chr13.2063.22.wu1 373 0 0 0.0000 0.0000 0.0000 0.0000 -chr2.2751.22.wu1 416 0 0 0.0000 0.0000 0.0000 0.0000 -chr4.1180.2.wu1 453 0 0 0.0000 0.0000 0.0000 0.0000 -chr11.1298.17.wu1 387 0 0 0.0000 0.0000 0.0000 0.0000 -chr19.1044.7.wu1 287 0 0 0.0000 0.0000 0.0000 0.0000 -chr6.2900.3.wu1 606 0 0 0.0000 0.0000 0.0000 0.0000 -chr22.420.19.wu1 451 0 0 0.0000 0.0000 0.0000 0.0000 -chr17.1547.6.wu1 612 0 0 0.0000 0.0000 0.0000 0.0000 -chr11.1467.1.wu1 320 0 0 0.0000 0.0000 0.0000 0.0000 -chr8.2024.8.wu1 409 0 0 0.0000 0.0000 0.0000 0.0000 -chr19.794.1.wu1 645 0 0 0.0000 0.0000 0.0000 0.0000 -chr3.4105.11.wu1 530 0 0 0.0000 0.0000 0.0000 0.0000 -chr20.70.12.wu1 458 0 0 0.0000 0.0000 0.0000 0.0000 -chr4.3912.6.wu1 547 0 0 0.0000 0.0000 0.0000 0.0000 -chr6.2438.2.wu1 384 0 0 0.0000 0.0000 0.0000 0.0000 -chr4.3024.1.wu1 531 0 0 0.0000 0.0000 0.0000 0.0000 -chr1.885.1.wu1 354 0 0 0.0000 0.0000 0.0000 0.0000 -chr16.37.44.wu1 833 0 0 0.0000 0.0000 0.0000 0.0000 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0.0000 0.0000 0.0000 -chr2.4329.5.wu1 743 0 0 0.0000 0.0000 0.0000 0.0000 -chr20.672.5.wu1 1067 0 0 0.0000 0.0000 0.0000 0.0000 -chr15.799.56.wu1 578 0 0 0.0000 0.0000 0.0000 0.0000 -chr12.2313.18.wu1 396 0 0 0.0000 0.0000 0.0000 0.0000 -chr3.686.2.wu1 342 0 0 0.0000 0.0000 0.0000 0.0000 -chr18.272.15.wu1 486 0 0 0.0000 0.0000 0.0000 0.0000 -chr18.273.21.r.wu1 353 0 0 0.0000 0.0000 0.0000 0.0000 -chr11.1957.25.wu1 271 0 0 0.0000 0.0000 0.0000 0.0000 -chr15.1929.6.wu1 453 0 0 0.0000 0.0000 0.0000 0.0000 -chr12.1650.5.wu1 659 0 0 0.0000 0.0000 0.0000 0.0000 -chr19.324.15.r.wu1 145 0 0 0.0000 0.0000 0.0000 0.0000 -chr9.308.29.wu1 636 0 0 0.0000 0.0000 0.0000 0.0000 -chr3.2383.5.wu1 599 0 0 0.0000 0.0000 0.0000 0.0000 -chr12.2314.16.wu1 499 0 0 0.0000 0.0000 0.0000 0.0000 -chr4.3341.17.wu1 501 0 0 0.0000 0.0000 0.0000 0.0000 -chr9.405.2.wu1 619 0 0 0.0000 0.0000 0.0000 0.0000 -chr13.509.13.wu1 458 0 0 0.0000 0.0000 0.0000 0.0000 -chr7.2907.12.wu1 306 0 0 0.0000 0.0000 0.0000 0.0000 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0.0000 0.0000 0.0000 0.0000 -chr16.1747.9.wu1 530 0 0 0.0000 0.0000 0.0000 0.0000 -chr12.2316.20.wu1 463 0 0 0.0000 0.0000 0.0000 0.0000 -chr2.5046.2.wu1 782 0 0 0.0000 0.0000 0.0000 0.0000 -chr10.345.25.wu1 327 0 0 0.0000 0.0000 0.0000 0.0000 -chr4.1471.3.wu1 542 0 0 0.0000 0.0000 0.0000 0.0000 -chr19.827.13.wu1 464 0 0 0.0000 0.0000 0.0000 0.0000 -chr22.563.10.wu1 329 0 0 0.0000 0.0000 0.0000 0.0000 -chr3.4052.3.wu1 466 0 0 0.0000 0.0000 0.0000 0.0000 -chr19.1164.9.r.wu1 250 0 0 0.0000 0.0000 0.0000 0.0000 -chr16.1473.7.wu1 602 0 0 0.0000 0.0000 0.0000 0.0000 +#qName qSize tName tStart tEnd ident qCover repMatch tCover alnSize alnSpan +chr1.1564.3.wu1 580 DN831210.1 0 580 1.0000 1.0000 0.0000 1.0000 580 580 +chr1.195.17.wu1 569 DN831419.1 0 570 1.0000 0.9930 0.0000 0.9912 565 570 +chr1.217.40.r.wu1 375 DN831131.1 0 375 1.0000 1.0000 0.0000 1.0000 375 375 +chr1.2278.14.wu1 462 DN831287.1 0 450 1.0000 0.9740 0.0000 1.0000 450 450 +chr1.2278.14.wu1 462 DN831889.1 39 501 0.9978 1.0000 0.0000 0.7925 462 462 +chr1.23.15.wu1 254 DN831336.1 0 254 1.0000 1.0000 0.0000 1.0000 254 254 +chr1.38.19.wu1 715 DN831193.1 0 688 0.9913 0.9622 0.0000 1.0000 688 688 +chr1.4758.7.wu1 658 DN831135.1 43 691 1.0000 0.9848 0.0000 0.9351 648 648 +chr1.4758.7.wu1 658 DN930500.1 44 692 1.0000 0.9848 0.0000 0.9364 648 648 +chr1.52.1.wu1 438 DN831538.1 0 418 0.9833 0.9543 0.0000 1.0000 418 418 +chr1.569.60.f.wu1 133 DN831305.1 121 254 1.0000 1.0000 0.0000 0.4981 133 133 +chr1.569.60.f.wu1 133 DN930395.1 0 133 1.0000 1.0000 0.0000 1.0000 133 133 +chr1.569.60.r.wu1 235 DN831306.1 4 239 0.9957 1.0000 0.0000 0.9109 235 235 +chr10.1029.19.wu1 723 DN831455.1 0 689 0.9956 0.9530 0.0000 1.0000 689 689 +chr10.1029.19.wu1 723 DN831456.1 0 704 0.9986 0.9723 0.0000 0.9986 703 704 +chr10.2808.1.wu1 586 DN831184.1 0 586 1.0000 1.0000 0.0000 1.0000 586 586 +chr10.409.1.wu1 737 DN831621.1 0 737 1.0000 1.0000 0.0000 1.0000 737 737 +chr11.1194.18.wu1 708 DN831630.1 0 708 1.0000 1.0000 0.0000 1.0000 708 708 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