b31907d700c1fe956e4e4c20e64d91de027d7c84 markd Tue May 14 02:03:33 2024 -0700 merge blatHuge implementation diff --git src/blat/test/hugeProt/lungfish.prot.psl src/blat/test/hugeProt/lungfish.prot.psl new file mode 100644 index 0000000..9945926 --- /dev/null +++ src/blat/test/hugeProt/lungfish.prot.psl @@ -0,0 +1,18 @@ +psLayout version 3 + +match mis- rep. N's Q gap Q gap T gap T gap strand Q Q Q Q T T T T block blockSizes qStarts tStarts + match match count bases count bases name size start end name size start end count +--------------------------------------------------------------------------------------------------------------------------------------------------------------- +139 48 0 0 3 194 4 248070 ++ XM_044058998.1_prot 898 150 531 NC_056744.1 1842211721 1273156765 1273405396 5 68,8,45,32,34, 150,246,392,465,497, 1273156765,1273265056,1273335993,1273404738,1273405294, +27 4 0 0 1 11 1 126 ++ XM_044058998.1_prot 898 467 509 NC_056744.1 1842211721 1684425821 1684426040 2 16,15, 467,494, 1684425821,1684425995, +107 41 0 0 2 226 3 101117 ++ XM_044058998.1_prot 898 150 524 NC_056745.1 1569859801 850011442 850113003 4 68,23,30,27, 150,438,467,497, 850011442,850102207,850111318,850112922, +101 53 0 0 4 225 4 108608 ++ XM_044058998.1_prot 898 217 596 NC_056745.1 1569859801 834788864 834897934 5 19,48,23,31,33, 217,382,438,468,563, 834788864,834837513,834844227,834851589,834897835, +65 29 0 0 1 34 2 41989 ++ XM_044058998.1_prot 898 468 596 NC_056745.1 1569859801 764718948 764761219 3 29,32,33, 468,497,563, 764718948,764719516,764761120, +46 17 0 0 0 0 1 507 ++ XM_044058998.1_prot 898 468 531 NC_056745.1 1569859801 778306355 778307051 2 30,33, 468,498, 778306355,778306952, +896 0 0 0 2 2 21 831675 ++ XM_044058998.1_prot 898 0 898 NC_056751.1 836063838 387193081 388027444 22 12,52,24,28,34,68,28,58,72,61,27,32,33,33,33,30,45,62,46,39,34,45, 0,12,64,88,116,150,218,246,304,376,438,465,497,530,563,596,626,671,734,780,819,853, 387193081,387199297,387316426,387371604,387416919,387468025,387520464,387546720,387559769,387585916,387674699,387677866,387689567,387722127,387741792,387779898,387887328,387902723,387976542,387993251,388004375,388027309, +446 0 0 0 0 0 9 322163 ++ XM_044059790.1_prot 446 0 446 NC_056751.1 836063838 388107417 388430918 10 18,58,44,38,31,35,13,91,20,98, 0,18,76,120,158,189,224,237,328,348, 388107417,388167478,388220248,388248341,388257619,388310324,388310547,388322761,388364622,388430624, +31 10 0 0 0 0 0 0 ++ XM_044059397.1_prot 825 394 435 NC_056735.1 2000000000 865544668 865544791 1 41, 394, 865544668, +818 0 0 0 0 0 21 715721 ++ XM_044059397.1_prot 825 7 825 NC_056751.1 836063838 388673194 389391369 22 83,30,29,33,33,50,47,30,40,38,43,43,35,32,64,23,27,27,23,20,28,40, 7,90,120,149,182,215,265,312,342,382,420,463,506,541,573,637,660,687,714,737,757,785, 388673194,388731583,388756649,388795483,388878898,388906974,388965697,388995469,389003402,389037993,389068690,389095840,389118789,389167280,389194792,389206641,389207102,389293314,389301632,389340306,389384278,389391249, +297 65 0 0 3 86 9 894983 +- XM_044058998.1_prot 898 116 564 NC_056745.1 1569859801 478241815 479137884 10 34,67,29,34,12,60,27,32,33,34, 116,150,217,246,364,377,438,465,497,530, 1090721917,1090791110,1090880918,1090995783,1091215134,1091294999,1091379165,1091520944,1091521768,1091617884, +40 1 0 0 0 0 0 0 +- XM_044059397.1_prot 825 422 463 NC_056750.1 882488833 345372788 345372911 1 41, 422, 537115922, +21 0 0 0 0 0 0 0 +- XM_044059397.1_prot 825 442 463 NC_056750.1 882488833 345372301 345372364 1 21, 442, 537116469,