Tandem Repeats Finder Program written by: Gary Benson Program in Bioinformatics Boston University Version 4.09 Sequence: Chr04 ID=Chr04-JGI_221_v2.0 Parameters: 2 7 7 80 10 50 1000 Pmatch=0.80,Pindel=0.10 tuple sizes 0,4,5,7 tuple distances 0, 29, 159, 1000 Length: 62178258 ACGTcount: A:0.33, C:0.16, G:0.16, T:0.33 Warning! 912357 characters in sequence are not A, C, G, or T File 107 of 198 Found at i:34248406 original size:2 final size:2 Alignment explanation
Indices: 34248399--34248444 Score: 85 Period size: 2 Copynumber: 23.5 Consensus size: 2 34248389 ACAATAAAAG 34248399 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A- AT 1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT 34248440 AT AT A 1 AT AT A 34248445 CACTACAACA Statistics Matches: 43, Mismatches: 0, Indels: 2 0.96 0.00 0.04 Matches are distributed among these distances: 1 1 0.02 2 42 0.98 ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48 Consensus pattern (2 bp): AT Found at i:34254199 original size:2 final size:2 Alignment explanation
Indices: 34254192--34254228 Score: 74 Period size: 2 Copynumber: 18.5 Consensus size: 2 34254182 GATAAGCCAT 34254192 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T 1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T 34254229 TGTCAAAGAA Statistics Matches: 35, Mismatches: 0, Indels: 0 1.00 0.00 0.00 Matches are distributed among these distances: 2 35 1.00 ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51 Consensus pattern (2 bp): TA Found at i:34254984 original size:14 final size:14 Alignment explanation
Indices: 34254946--34254984 Score: 51 Period size: 14 Copynumber: 2.8 Consensus size: 14 34254936 TAGTATTTAT * 34254946 AAAAATTTAAAATA 1 AAAAATTTAATATA * * 34254960 ATAAATTTAATCTA 1 AAAAATTTAATATA 34254974 AAAAATTTAAT 1 AAAAATTTAAT 34254985 TAATATAATA Statistics Matches: 21, Mismatches: 4, Indels: 0 0.84 0.16 0.00 Matches are distributed among these distances: 14 21 1.00 ACGTcount: A:0.62, C:0.03, G:0.00, T:0.36 Consensus pattern (14 bp): AAAAATTTAATATA Found at i:34255170 original size:19 final size:19 Alignment explanation
Indices: 34255139--34255191 Score: 61 Period size: 19 Copynumber: 2.7 Consensus size: 19 34255129 CTAAAACACC 34255139 ATTAAAAACTAAAACACAAA 1 ATTAAAAA-TAAAACACAAA * * 34255159 ATTAAAAATAAATCTCAAA 1 ATTAAAAATAAAACACAAA * * 34255178 TTTAAAAAAAAAAC 1 ATTAAAAATAAAAC 34255192 TTAAAAAAGC Statistics Matches: 28, Mismatches: 5, Indels: 1 0.82 0.15 0.03 Matches are distributed among these distances: 19 20 0.71 20 8 0.29 ACGTcount: A:0.68, C:0.11, G:0.00, T:0.21 Consensus pattern (19 bp): ATTAAAAATAAAACACAAA Found at i:34257516 original size:20 final size:19 Alignment explanation
Indices: 34257491--34257532 Score: 66 Period size: 20 Copynumber: 2.2 Consensus size: 19 34257481 GAGTTTTTTT * 34257491 TTTCAATCGATTTAAAAATG 1 TTTCAATCGAGTTAAAAA-G 34257511 TTTCAATCGAGTTAAAAAG 1 TTTCAATCGAGTTAAAAAG 34257530 TTT 1 TTT 34257533 AAAATTATTT Statistics Matches: 21, Mismatches: 1, Indels: 1 0.91 0.04 0.04 Matches are distributed among these distances: 19 4 0.19 20 17 0.81 ACGTcount: A:0.38, C:0.10, G:0.12, T:0.40 Consensus pattern (19 bp): TTTCAATCGAGTTAAAAAG Found at i:34258267 original size:87 final size:87 Alignment explanation
Indices: 34258121--34258295 Score: 341 Period size: 87 Copynumber: 2.0 Consensus size: 87 34258111 CCAAGACGCT 34258121 ACATTAAACCTCACAACTTCATACACATTCACATAGTCACATTTACGTACAACCATCATCACATT 1 ACATTAAACCTCACAACTTCATACACATTCACATAGTCACATTTACGTACAACCATCATCACATT * 34258186 CAAACATTTATAGGATTATTGA 66 CAAACATTTATAGGAGTATTGA 34258208 ACATTAAACCTCACAACTTCATACACATTCACATAGTCACATTTACGTACAACCATCATCACATT 1 ACATTAAACCTCACAACTTCATACACATTCACATAGTCACATTTACGTACAACCATCATCACATT 34258273 CAAACATTTATAGGAGTATTGA 66 CAAACATTTATAGGAGTATTGA 34258295 A 1 A 34258296 GCTAAAACAC Statistics Matches: 87, Mismatches: 1, Indels: 0 0.99 0.01 0.00 Matches are distributed among these distances: 87 87 1.00 ACGTcount: A:0.39, C:0.25, G:0.06, T:0.29 Consensus pattern (87 bp): ACATTAAACCTCACAACTTCATACACATTCACATAGTCACATTTACGTACAACCATCATCACATT CAAACATTTATAGGAGTATTGA Found at i:34263065 original size:140 final size:141 Alignment explanation
Indices: 34262905--34263183 Score: 542 Period size: 140 Copynumber: 2.0 Consensus size: 141 34262895 GACGACACAA 34262905 AAAAAGGGTGAAAGGGTGTTTCTCTTTTCTCTTCTTTCACGTTAAAAATAGGGTGAAAGGGGGAA 1 AAAAAGGGTGAAAGGGTGTTTCTCTTTTCTCTTCTTTCACGTTAAAAATAGGGTGAAAGGGGGAA 34262970 AATATGGGCTAATTTTAAAACTTGGTGTAGTAGCTTTAAAGCTACCCTTAAGTTTAATATTTTTA 66 AATATGGGCTAATTTTAAAACTTGGTGTAGTAGCTTTAAAGCTACCCTTAAGTTTAATATTTTTA 34263035 CAAAACAGTAG 131 CAAAACAGTAG 34263046 AAAAA-GGTGAAAGGGTGTTTCTCTTTTCTCTTCTTTCACGTTAAAAATAGGGTGAAAGGGGGAA 1 AAAAAGGGTGAAAGGGTGTTTCTCTTTTCTCTTCTTTCACGTTAAAAATAGGGTGAAAGGGGGAA * 34263110 AATATGGGCTAATTTTAAAACTTGGTGTGGTAGCTTTAAAGCTACCCTTAAGTTTAATATTTTTA 66 AATATGGGCTAATTTTAAAACTTGGTGTAGTAGCTTTAAAGCTACCCTTAAGTTTAATATTTTTA 34263175 CAAAACAGT 131 CAAAACAGT 34263184 CATCTTTTTA Statistics Matches: 137, Mismatches: 1, Indels: 1 0.99 0.01 0.01 Matches are distributed among these distances: 140 132 0.96 141 5 0.04 ACGTcount: A:0.33, C:0.11, G:0.21, T:0.34 Consensus pattern (141 bp): AAAAAGGGTGAAAGGGTGTTTCTCTTTTCTCTTCTTTCACGTTAAAAATAGGGTGAAAGGGGGAA AATATGGGCTAATTTTAAAACTTGGTGTAGTAGCTTTAAAGCTACCCTTAAGTTTAATATTTTTA CAAAACAGTAG Found at i:34265988 original size:18 final size:17 Alignment explanation
Indices: 34265955--34265993 Score: 53 Period size: 18 Copynumber: 2.2 Consensus size: 17 34265945 TTTTATAAAT 34265955 TGTGAATTATATTTGATA 1 TGTGAATTATATTTGA-A 34265973 TGTGAATTA-ATATTGAA 1 TGTGAATTATAT-TTGAA 34265990 TGTG 1 TGTG 34265994 GAAGTAAAAT Statistics Matches: 20, Mismatches: 0, Indels: 3 0.87 0.00 0.13 Matches are distributed among these distances: 17 7 0.35 18 13 0.65 ACGTcount: A:0.33, C:0.00, G:0.21, T:0.46 Consensus pattern (17 bp): TGTGAATTATATTTGAA Found at i:34266246 original size:23 final size:23 Alignment explanation
Indices: 34266219--34266294 Score: 125 Period size: 23 Copynumber: 3.3 Consensus size: 23 34266209 AGGGTTTTTG 34266219 ATCAGTGGTAGCTTCGGCTACAT 1 ATCAGTGGTAGCTTCGGCTACAT * * * 34266242 TTCAGTGGTAGCTACAGCTACAT 1 ATCAGTGGTAGCTTCGGCTACAT 34266265 ATCAGTGGTAGCTTCGGCTACAT 1 ATCAGTGGTAGCTTCGGCTACAT 34266288 ATCAGTG 1 ATCAGTG 34266295 TGGCACTTAT Statistics Matches: 47, Mismatches: 6, Indels: 0 0.89 0.11 0.00 Matches are distributed among these distances: 23 47 1.00 ACGTcount: A:0.24, C:0.21, G:0.25, T:0.30 Consensus pattern (23 bp): ATCAGTGGTAGCTTCGGCTACAT Found at i:34279519 original size:23 final size:22 Alignment explanation
Indices: 34279500--34279543 Score: 54 Period size: 22 Copynumber: 2.0 Consensus size: 22 34279490 TAAAATAAAT 34279500 AAATAATATTGAAAATAATATAA 1 AAATAATA-TGAAAATAATATAA * 34279523 ATATAATATG-AAATACATATA 1 AAATAATATGAAAATA-ATATA 34279544 CTTTATAAAA Statistics Matches: 19, Mismatches: 1, Indels: 3 0.83 0.04 0.13 Matches are distributed among these distances: 21 5 0.26 22 7 0.37 23 7 0.37 ACGTcount: A:0.61, C:0.02, G:0.05, T:0.32 Consensus pattern (22 bp): AAATAATATGAAAATAATATAA Found at i:34279954 original size:22 final size:23 Alignment explanation
Indices: 34279917--34279962 Score: 85 Period size: 22 Copynumber: 2.0 Consensus size: 23 34279907 CCTAATTTGG 34279917 TACTTAATCTTTTTTGTTCAATT 1 TACTTAATCTTTTTTGTTCAATT 34279940 TACTTAAT-TTTTTTGTTCAATT 1 TACTTAATCTTTTTTGTTCAATT 34279962 T 1 T 34279963 GGTACTTGTC Statistics Matches: 23, Mismatches: 0, Indels: 1 0.96 0.00 0.04 Matches are distributed among these distances: 22 15 0.65 23 8 0.35 ACGTcount: A:0.22, C:0.11, G:0.04, T:0.63 Consensus pattern (23 bp): TACTTAATCTTTTTTGTTCAATT Found at i:34280391 original size:31 final size:30 Alignment explanation
Indices: 34280349--34280506 Score: 100 Period size: 31 Copynumber: 5.4 Consensus size: 30 34280339 TAAAAAGCTT * 34280349 AGGTACCAAATTAGGAAAAAATGCCAAGTTC 1 AGGTACTAAATTAGGAAAAAATG-CAAGTTC * * * 34280380 AGGTACTAAATTGGGCCAAAAA---AA-TTT 1 AGGTACTAAATTAGG-AAAAAATGCAAGTTC * 34280407 AGGTA-TCAAATTAGGAAAAAGTGTCAAGTTC 1 AGGTACT-AAATTAGGAAAAAATG-CAAGTTC * * * * 34280438 AGGTACCAAATTGGGCCAAAAA---AA-TTT 1 AGGTACTAAATTAGG-AAAAAATGCAAGTTC 34280465 AGGTACTAAATTAGGAAAAAATGTCAAGTTC 1 AGGTACTAAATTAGGAAAAAATG-CAAGTTC * * 34280496 ATGTACAAAAT 1 AGGTACTAAAT 34280507 GTTATATTAA Statistics Matches: 94, Mismatches: 19, Indels: 28 0.67 0.13 0.20 Matches are distributed among these distances: 26 10 0.11 27 29 0.31 28 4 0.04 30 4 0.04 31 38 0.40 32 9 0.10 ACGTcount: A:0.45, C:0.12, G:0.19, T:0.24 Consensus pattern (30 bp): AGGTACTAAATTAGGAAAAAATGCAAGTTC Found at i:34280419 original size:58 final size:57 Alignment explanation
Indices: 34280347--34280506 Score: 248 Period size: 58 Copynumber: 2.8 Consensus size: 57 34280337 AATAAAAAGC * * 34280347 TTAGGTACCAAATTAGGAAAAAATGCCAAGTTCAGGTACTAAATTGGGCCAAAAAAAT 1 TTAGGTA-CAAATTAGGAAAAAATGTCAAGTTCAGGTACAAAATTGGGCCAAAAAAAT * * 34280405 TTAGGTATCAAATTAGGAAAAAGTGTCAAGTTCAGGTACCAAATTGGGCCAAAAAAAT 1 TTAGGTA-CAAATTAGGAAAAAATGTCAAGTTCAGGTACAAAATTGGGCCAAAAAAAT * 34280463 TTAGGTACTAAATTAGGAAAAAATGTCAAGTTCATGTACAAAAT 1 TTAGGTAC-AAATTAGGAAAAAATGTCAAGTTCAGGTACAAAAT 34280507 GTTATATTAA Statistics Matches: 94, Mismatches: 7, Indels: 2 0.91 0.07 0.02 Matches are distributed among these distances: 57 1 0.01 58 93 0.99 ACGTcount: A:0.44, C:0.12, G:0.19, T:0.25 Consensus pattern (57 bp): TTAGGTACAAATTAGGAAAAAATGTCAAGTTCAGGTACAAAATTGGGCCAAAAAAAT Found at i:34280476 original size:27 final size:27 Alignment explanation
Indices: 34280380--34280476 Score: 83 Period size: 27 Copynumber: 3.4 Consensus size: 27 34280370 TGCCAAGTTC 34280380 AGGTACTAAATTGGGCCAAAAAAATTT 1 AGGTACTAAATTGGGCCAAAAAAATTT * * 34280407 AGGTA-TCAAATTAGG--AAAAAGTGTCAAGTTC 1 AGGTACT-AAATTGGGCCAAAAA-----AA-TTT * 34280438 AGGTACCAAATTGGGCCAAAAAAATTT 1 AGGTACTAAATTGGGCCAAAAAAATTT 34280465 AGGTACTAAATT 1 AGGTACTAAATT 34280477 AGGAAAAAAT Statistics Matches: 54, Mismatches: 6, Indels: 20 0.68 0.08 0.25 Matches are distributed among these distances: 25 5 0.09 26 1 0.02 27 25 0.46 28 2 0.04 30 2 0.04 31 14 0.26 33 5 0.09 ACGTcount: A:0.43, C:0.11, G:0.20, T:0.26 Consensus pattern (27 bp): AGGTACTAAATTGGGCCAAAAAAATTT Found at i:34280485 original size:27 final size:27 Alignment explanation
Indices: 34280347--34280485 Score: 73 Period size: 27 Copynumber: 4.9 Consensus size: 27 34280337 AATAAAAAGC * * 34280347 TTAGGTACCAAATTAGGAAAAAATGCCAAGT 1 TTAGGTACTAAATTAGGAAAAAA----AAAT * * ** 34280378 TCAGGTACTAAATTGGGCCAAAAAAAT 1 TTAGGTACTAAATTAGGAAAAAAAAAT * * 34280405 TTAGGTA-TCAAATTAGGAAAAAGTGTCAAGT 1 TTAGGTACT-AAATTAGGAAAAA----AAAAT * * * ** 34280436 TCAGGTACCAAATTGGGCCAAAAAAAT 1 TTAGGTACTAAATTAGGAAAAAAAAAT 34280463 TTAGGTACTAAATTAGGAAAAAA 1 TTAGGTACTAAATTAGGAAAAAA 34280486 TGTCAAGTTC Statistics Matches: 78, Mismatches: 24, Indels: 16 0.66 0.20 0.14 Matches are distributed among these distances: 26 1 0.01 27 40 0.51 31 37 0.47 ACGTcount: A:0.45, C:0.12, G:0.19, T:0.24 Consensus pattern (27 bp): TTAGGTACTAAATTAGGAAAAAAAAAT Found at i:34280775 original size:21 final size:21 Alignment explanation
Indices: 34280751--34280800 Score: 59 Period size: 21 Copynumber: 2.4 Consensus size: 21 34280741 TTAACTAATT 34280751 ATTTTTA-AAATTTAAAAATA 1 ATTTTTATAAATTTAAAAATA * * 34280771 CA-TTTTATAATTTTTAAAATA 1 -ATTTTTATAAATTTAAAAATA 34280792 ATTTTTATA 1 ATTTTTATA 34280801 TATTATTTTG Statistics Matches: 25, Mismatches: 2, Indels: 4 0.81 0.06 0.13 Matches are distributed among these distances: 20 6 0.24 21 19 0.76 ACGTcount: A:0.46, C:0.02, G:0.00, T:0.52 Consensus pattern (21 bp): ATTTTTATAAATTTAAAAATA Found at i:34289293 original size:20 final size:20 Alignment explanation
Indices: 34289270--34289307 Score: 67 Period size: 20 Copynumber: 1.9 Consensus size: 20 34289260 ATTTATAGAC 34289270 ATACATATATACATATATAT 1 ATACATATATACATATATAT * 34289290 ATACATATTTACATATAT 1 ATACATATATACATATAT 34289308 CTTTGTTGTC Statistics Matches: 17, Mismatches: 1, Indels: 0 0.94 0.06 0.00 Matches are distributed among these distances: 20 17 1.00 ACGTcount: A:0.47, C:0.11, G:0.00, T:0.42 Consensus pattern (20 bp): ATACATATATACATATATAT Found at i:34289297 original size:12 final size:12 Alignment explanation
Indices: 34289263--34289297 Score: 52 Period size: 12 Copynumber: 2.9 Consensus size: 12 34289253 TTTTACAATT * * 34289263 TATAGACATACA 1 TATATACATATA 34289275 TATATACATATA 1 TATATACATATA 34289287 TATATACATAT 1 TATATACATAT 34289298 TTACATATAT Statistics Matches: 21, Mismatches: 2, Indels: 0 0.91 0.09 0.00 Matches are distributed among these distances: 12 21 1.00 ACGTcount: A:0.49, C:0.11, G:0.03, T:0.37 Consensus pattern (12 bp): TATATACATATA Found at i:34299266 original size:22 final size:22 Alignment explanation
Indices: 34299239--34299292 Score: 63 Period size: 22 Copynumber: 2.5 Consensus size: 22 34299229 TCCAAAGAAT 34299239 AACAACAAAATGGCAACAAAAC 1 AACAACAAAATGGCAACAAAAC * * * * 34299261 AGCAACGAAATGGTAGCAAAAC 1 AACAACAAAATGGCAACAAAAC * 34299283 AATAACAAAA 1 AACAACAAAA 34299293 AGTTTAGGCT Statistics Matches: 25, Mismatches: 7, Indels: 0 0.78 0.22 0.00 Matches are distributed among these distances: 22 25 1.00 ACGTcount: A:0.61, C:0.19, G:0.13, T:0.07 Consensus pattern (22 bp): AACAACAAAATGGCAACAAAAC Found at i:34304066 original size:20 final size:17 Alignment explanation
Indices: 34304041--34304083 Score: 52 Period size: 16 Copynumber: 2.4 Consensus size: 17 34304031 ATTAGAATGC 34304041 TTTAAAGTTTAGAGATCAAT 1 TTTAAA-TTT-GAG-TCAAT 34304061 TTTAAATTTGAGTCAA- 1 TTTAAATTTGAGTCAAT 34304077 TTTAAAT 1 TTTAAAT 34304084 GTATAAGGTG Statistics Matches: 23, Mismatches: 0, Indels: 4 0.85 0.00 0.15 Matches are distributed among these distances: 16 7 0.30 17 4 0.17 18 3 0.13 19 3 0.13 20 6 0.26 ACGTcount: A:0.40, C:0.05, G:0.12, T:0.44 Consensus pattern (17 bp): TTTAAATTTGAGTCAAT Found at i:34312629 original size:6 final size:6 Alignment explanation
Indices: 34312618--34312666 Score: 98 Period size: 6 Copynumber: 8.2 Consensus size: 6 34312608 AAATAAGTTG 34312618 GCCCAT GCCCAT GCCCAT GCCCAT GCCCAT GCCCAT GCCCAT GCCCAT 1 GCCCAT GCCCAT GCCCAT GCCCAT GCCCAT GCCCAT GCCCAT GCCCAT 34312666 G 1 G 34312667 ACATTGACTC Statistics Matches: 43, Mismatches: 0, Indels: 0 1.00 0.00 0.00 Matches are distributed among these distances: 6 43 1.00 ACGTcount: A:0.16, C:0.49, G:0.18, T:0.16 Consensus pattern (6 bp): GCCCAT Found at i:34316023 original size:82 final size:81 Alignment explanation
Indices: 34315856--34316030 Score: 181 Period size: 82 Copynumber: 2.1 Consensus size: 81 34315846 CTTTTTGGCC * ** * * * *** * 34315856 AAGTATCGATATTTTATGAATTATCGATACCCTTCTTAAAAGCGATACCAAAATGGCATTTTATT 1 AAGTATCGATATTTCAAAAAATATCGATACCCTTCTTAAAAACAATACCAAAACAACATTCTATT * ** 34315921 TTTCACAAACCCTATT 66 TCTCACAAACCCTACA * 34315937 AAGTATCGATATTTCAAAAAATATCGATACCCCTTCTTAAAAACAATACTAAAACAACATTCTAT 1 AAGTATCGATATTTCAAAAAATATCGATA-CCCTTCTTAAAAACAATACCAAAACAACATTCTAT * 34316002 TTCTCACAATA-CTTACA 65 TTCTCACAA-ACCCTACA * 34316019 AAGTATCAATAT 1 AAGTATCGATAT 34316031 GGTATCGATA Statistics Matches: 76, Mismatches: 16, Indels: 3 0.80 0.17 0.03 Matches are distributed among these distances: 81 25 0.33 82 50 0.66 83 1 0.01 ACGTcount: A:0.40, C:0.19, G:0.07, T:0.34 Consensus pattern (81 bp): AAGTATCGATATTTCAAAAAATATCGATACCCTTCTTAAAAACAATACCAAAACAACATTCTATT TCTCACAAACCCTACA Found at i:34322660 original size:42 final size:38 Alignment explanation
Indices: 34322576--34322692 Score: 216 Period size: 38 Copynumber: 3.1 Consensus size: 38 34322566 ATAAATTTTA * * 34322576 TTTATCTATCTATTTTTCAAGATTGGCATTGGATGAAT 1 TTTATTTATCTATTTTTCAAGATTGGGATTGGATGAAT 34322614 TTTATTTATCTATTTTTCAAGATTGGGATTGGATGAAT 1 TTTATTTATCTATTTTTCAAGATTGGGATTGGATGAAT 34322652 TTTATTTATCTATTTTTCAAGATTGGGATTGGATGAAT 1 TTTATTTATCTATTTTTCAAGATTGGGATTGGATGAAT 34322690 TTT 1 TTT 34322693 TTAAAAAAAT Statistics Matches: 77, Mismatches: 2, Indels: 0 0.97 0.03 0.00 Matches are distributed among these distances: 38 77 1.00 ACGTcount: A:0.26, C:0.07, G:0.17, T:0.50 Consensus pattern (38 bp): TTTATTTATCTATTTTTCAAGATTGGGATTGGATGAAT Found at i:34324113 original size:42 final size:42 Alignment explanation
Indices: 34324048--34324153 Score: 128 Period size: 43 Copynumber: 2.5 Consensus size: 42 34324038 TTCTGATAAA 34324048 TGTTTTCGTGTAAGACCACGTCTGGG-AGTTGGCATCGA-CTT 1 TGTTTTCGTGTAAGACCACGTCTGGGAAG-TGGCATCGATCTT 34324089 GTGTTTTCGTGTAAGACC-CTGTCTGGGACAGTGGCATCGATCTT 1 -TGTTTTCGTGTAAGACCAC-GTCTGGGA-AGTGGCATCGATCTT * * * 34324133 TGTTTACATGTAAGACTACGT 1 TGTTTTCGTGTAAGACCACGT 34324154 TTGAGACATT Statistics Matches: 56, Mismatches: 3, Indels: 9 0.82 0.04 0.13 Matches are distributed among these distances: 41 1 0.02 42 24 0.43 43 25 0.45 44 6 0.11 ACGTcount: A:0.19, C:0.19, G:0.27, T:0.35 Consensus pattern (42 bp): TGTTTTCGTGTAAGACCACGTCTGGGAAGTGGCATCGATCTT Found at i:34324883 original size:2 final size:2 Alignment explanation
Indices: 34324876--34324917 Score: 77 Period size: 2 Copynumber: 21.5 Consensus size: 2 34324866 CTTATAAGGA 34324876 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A- AT AT 1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT 34324917 A 1 A 34324918 ANNNNNNNNN Statistics Matches: 39, Mismatches: 0, Indels: 2 0.95 0.00 0.05 Matches are distributed among these distances: 1 1 0.03 2 38 0.97 ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48 Consensus pattern (2 bp): AT Found at i:34337948 original size:31 final size:31 Alignment explanation
Indices: 34337910--34337970 Score: 122 Period size: 31 Copynumber: 2.0 Consensus size: 31 34337900 AAAGTAAGAA 34337910 AAGTTTTGTTGCCTAATAGTAAATACTCAAC 1 AAGTTTTGTTGCCTAATAGTAAATACTCAAC 34337941 AAGTTTTGTTGCCTAATAGTAAATACTCAA 1 AAGTTTTGTTGCCTAATAGTAAATACTCAA 34337971 AATTTGAGGG Statistics Matches: 30, Mismatches: 0, Indels: 0 1.00 0.00 0.00 Matches are distributed among these distances: 31 30 1.00 ACGTcount: A:0.36, C:0.15, G:0.13, T:0.36 Consensus pattern (31 bp): AAGTTTTGTTGCCTAATAGTAAATACTCAAC Found at i:34342434 original size:41 final size:41 Alignment explanation
Indices: 34342333--34342438 Score: 176 Period size: 41 Copynumber: 2.6 Consensus size: 41 34342323 TCAGGCTCTG ** 34342333 TGCCTAGCAGGCTTAATGCAAGTGAAATATTTCAGACTTTA 1 TGCCTAGCAGGCTTAATGCCGGTGAAATATTTCAGACTTTA * * 34342374 CGTCTAGCAGGCTTAATGCCGGTGAAATATTTCAGACTTTA 1 TGCCTAGCAGGCTTAATGCCGGTGAAATATTTCAGACTTTA 34342415 TGCCTAGCAGGCTTAATGCCGGTG 1 TGCCTAGCAGGCTTAATGCCGGTG 34342439 TTCTAAATCA Statistics Matches: 59, Mismatches: 6, Indels: 0 0.91 0.09 0.00 Matches are distributed among these distances: 41 59 1.00 ACGTcount: A:0.26, C:0.20, G:0.24, T:0.30 Consensus pattern (41 bp): TGCCTAGCAGGCTTAATGCCGGTGAAATATTTCAGACTTTA Found at i:34342461 original size:41 final size:41 Alignment explanation
Indices: 34342334--34342481 Score: 136 Period size: 41 Copynumber: 3.6 Consensus size: 41 34342324 CAGGCTCTGT ** ** * * 34342334 GCCTAGCAGGCTTAATGCAAGTGAAATATTTCAGACTTTAC 1 GCCTAGCAGGCTTAATGCCGGTGAAATAAATCAGACTTCAA * ** * * 34342375 GTCTAGCAGGCTTAATGCCGGTGAAATATTTCAGACTTTAT 1 GCCTAGCAGGCTTAATGCCGGTGAAATAAATCAGACTTCAA *** * 34342416 GCCTAGCAGGCTTAATGCCGGTGTTCTAAATCAGGCTTCAA 1 GCCTAGCAGGCTTAATGCCGGTGAAATAAATCAGACTTCAA * 34342457 GCCTAGCAGGC-TACATGCTGGTGAA 1 GCCTAGCAGGCTTA-ATGCCGGTGAA 34342482 TCATTTTAAA Statistics Matches: 90, Mismatches: 16, Indels: 2 0.83 0.15 0.02 Matches are distributed among these distances: 40 2 0.02 41 88 0.98 ACGTcount: A:0.27, C:0.21, G:0.24, T:0.28 Consensus pattern (41 bp): GCCTAGCAGGCTTAATGCCGGTGAAATAAATCAGACTTCAA Found at i:34351424 original size:29 final size:27 Alignment explanation
Indices: 34351374--34351436 Score: 72 Period size: 29 Copynumber: 2.3 Consensus size: 27 34351364 TTCTCCCTCC * * * 34351374 AAAAATAACATATATCGATAAATATATAA 1 AAAAATAACACAAATCCATAAAT-T-TAA * 34351403 AAAAATAACACAAATCCTTAAATTTAA 1 AAAAATAACACAAATCCATAAATTTAA 34351430 AAAAATA 1 AAAAATA 34351437 TGCATATTTA Statistics Matches: 30, Mismatches: 4, Indels: 2 0.83 0.11 0.06 Matches are distributed among these distances: 27 10 0.33 28 1 0.03 29 19 0.63 ACGTcount: A:0.63, C:0.10, G:0.02, T:0.25 Consensus pattern (27 bp): AAAAATAACACAAATCCATAAATTTAA Found at i:34353676 original size:6 final size:6 Alignment explanation
Indices: 34353667--34353740 Score: 61 Period size: 6 Copynumber: 13.2 Consensus size: 6 34353657 AATGACAAGC * * 34353667 AAAAG- AAAA-A AAAAGA AAAAG- AAAAG- GAAAGA AAAAGA AATAG- 1 AAAAGA AAAAGA AAAAGA AAAAGA AAAAGA AAAAGA AAAAGA AAAAGA * * 34353710 -AAAGA AAAAGA AAAGGA AAAATGG AAAAGA A 1 AAAAGA AAAAGA AAAAGA AAAA-GA AAAAGA A 34353741 GGAGAATGAC Statistics Matches: 55, Mismatches: 8, Indels: 11 0.74 0.11 0.15 Matches are distributed among these distances: 4 3 0.05 5 17 0.31 6 30 0.55 7 5 0.09 ACGTcount: A:0.77, C:0.00, G:0.20, T:0.03 Consensus pattern (6 bp): AAAAGA Found at i:34353688 original size:16 final size:16 Alignment explanation
Indices: 34353667--34353728 Score: 88 Period size: 16 Copynumber: 3.9 Consensus size: 16 34353657 AATGACAAGC * 34353667 AAAAGAAAAAAAAAGA 1 AAAAGAAAAAGAAAGA * 34353683 AAAAGAAAAGGAAAGA 1 AAAAGAAAAAGAAAGA * 34353699 AAAAGAAATAGAAAGA 1 AAAAGAAAAAGAAAGA * 34353715 AAAAGAAAAGGAAA 1 AAAAGAAAAAGAAA 34353729 AATGGAAAAG Statistics Matches: 40, Mismatches: 6, Indels: 0 0.87 0.13 0.00 Matches are distributed among these distances: 16 40 1.00 ACGTcount: A:0.79, C:0.00, G:0.19, T:0.02 Consensus pattern (16 bp): AAAAGAAAAAGAAAGA Found at i:34353704 original size:32 final size:32 Alignment explanation
Indices: 34353667--34353728 Score: 106 Period size: 32 Copynumber: 1.9 Consensus size: 32 34353657 AATGACAAGC 34353667 AAAAGAAAAAAAAAGAAAAAGAAAAGGAAAGA 1 AAAAGAAAAAAAAAGAAAAAGAAAAGGAAAGA * * 34353699 AAAAGAAATAGAAAGAAAAAGAAAAGGAAA 1 AAAAGAAAAAAAAAGAAAAAGAAAAGGAAA 34353729 AATGGAAAAG Statistics Matches: 28, Mismatches: 2, Indels: 0 0.93 0.07 0.00 Matches are distributed among these distances: 32 28 1.00 ACGTcount: A:0.79, C:0.00, G:0.19, T:0.02 Consensus pattern (32 bp): AAAAGAAAAAAAAAGAAAAAGAAAAGGAAAGA Found at i:34354158 original size:45 final size:47 Alignment explanation
Indices: 34354082--34354176 Score: 115 Period size: 45 Copynumber: 2.1 Consensus size: 47 34354072 GGGGCGTTAC * * * * 34354082 ACTAAATAATAGATTAAATTATATAATATTTATTA-TAATTTTTTAAT 1 ACTAAATAATAGACTAAATTACATAACATTTATTATTAATTGTTT-AT * 34354129 ACTAAAT-ATA-ACTAAATTACATAGCATTTATTATTAATTGTTTAT 1 ACTAAATAATAGACTAAATTACATAACATTTATTATTAATTGTTTAT 34354174 ACT 1 ACT 34354177 TGGTTAAAGG Statistics Matches: 42, Mismatches: 5, Indels: 4 0.82 0.10 0.08 Matches are distributed among these distances: 45 24 0.57 46 11 0.26 47 7 0.17 ACGTcount: A:0.44, C:0.06, G:0.03, T:0.46 Consensus pattern (47 bp): ACTAAATAATAGACTAAATTACATAACATTTATTATTAATTGTTTAT Found at i:34354748 original size:27 final size:27 Alignment explanation
Indices: 34354716--34354774 Score: 77 Period size: 27 Copynumber: 2.2 Consensus size: 27 34354706 CTTAAATTTC * 34354716 ATAAAAAATCAAAAAATA-GAA-AAATA 1 ATAAAAAA-CAAAAAATACAAATAAATA * 34354742 ATAAAAAACAATAAATACAAATAAATA 1 ATAAAAAACAAAAAATACAAATAAATA 34354769 ATAAAA 1 ATAAAA 34354775 GGAACATAAA Statistics Matches: 29, Mismatches: 2, Indels: 3 0.85 0.06 0.09 Matches are distributed among these distances: 25 8 0.28 26 10 0.34 27 11 0.38 ACGTcount: A:0.76, C:0.05, G:0.02, T:0.17 Consensus pattern (27 bp): ATAAAAAACAAAAAATACAAATAAATA Found at i:34358139 original size:36 final size:36 Alignment explanation
Indices: 34358097--34358167 Score: 115 Period size: 36 Copynumber: 2.0 Consensus size: 36 34358087 TCTTGATGGG * * 34358097 CAAGACATTAGCAAAATGAAGTTCTGTGAGTACTAA 1 CAAGACATTAACAAAATGAAGTTCTGTGAGCACTAA * 34358133 CAAGACATTAACAAAATGAAGTTTTGTGAGCACTA 1 CAAGACATTAACAAAATGAAGTTCTGTGAGCACTA 34358168 CATTTTTGGG Statistics Matches: 32, Mismatches: 3, Indels: 0 0.91 0.09 0.00 Matches are distributed among these distances: 36 32 1.00 ACGTcount: A:0.42, C:0.14, G:0.18, T:0.25 Consensus pattern (36 bp): CAAGACATTAACAAAATGAAGTTCTGTGAGCACTAA Found at i:34361365 original size:20 final size:20 Alignment explanation
Indices: 34361340--34361380 Score: 73 Period size: 20 Copynumber: 2.0 Consensus size: 20 34361330 TCCAATTTAG * 34361340 TCCCTAAACCGAGACGAATT 1 TCCCTAAACCGAGACAAATT 34361360 TCCCTAAACCGAGACAAATT 1 TCCCTAAACCGAGACAAATT 34361380 T 1 T 34361381 TATTCTTCAC Statistics Matches: 20, Mismatches: 1, Indels: 0 0.95 0.05 0.00 Matches are distributed among these distances: 20 20 1.00 ACGTcount: A:0.37, C:0.29, G:0.12, T:0.22 Consensus pattern (20 bp): TCCCTAAACCGAGACAAATT Found at i:34361816 original size:3 final size:3 Alignment explanation
Indices: 34361808--34361851 Score: 79 Period size: 3 Copynumber: 14.7 Consensus size: 3 34361798 GTTTTGTTTT * 34361808 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATG ATA ATA ATA AT 1 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA AT 34361852 TATTATTATT Statistics Matches: 39, Mismatches: 2, Indels: 0 0.95 0.05 0.00 Matches are distributed among these distances: 3 39 1.00 ACGTcount: A:0.64, C:0.00, G:0.02, T:0.34 Consensus pattern (3 bp): ATA Found at i:34361856 original size:3 final size:3 Alignment explanation
Indices: 34361850--34361893 Score: 70 Period size: 3 Copynumber: 14.7 Consensus size: 3 34361840 GATAATAATA * * 34361850 ATT ATT ATT ATT ATC ATT ATT ATT ATT ATT ATT ATC ATT ATT AT 1 ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT AT 34361894 ATAATACATA Statistics Matches: 37, Mismatches: 4, Indels: 0 0.90 0.10 0.00 Matches are distributed among these distances: 3 37 1.00 ACGTcount: A:0.34, C:0.05, G:0.00, T:0.61 Consensus pattern (3 bp): ATT Found at i:34388017 original size:27 final size:26 Alignment explanation
Indices: 34387960--34388019 Score: 66 Period size: 27 Copynumber: 2.3 Consensus size: 26 34387950 GAATATATAT * * * * 34387960 ATTTTTAAATTTTAAGTTTTTTTGCA 1 ATTTTTAAAATTTAAATATTTTTCCA 34387986 ATTTTCTAAAATTTAAATATTTTTCCA 1 ATTTT-TAAAATTTAAATATTTTTCCA * 34388013 TTTTTTA 1 ATTTTTA 34388020 CAAAATTTTC Statistics Matches: 28, Mismatches: 5, Indels: 2 0.80 0.14 0.06 Matches are distributed among these distances: 26 7 0.25 27 21 0.75 ACGTcount: A:0.30, C:0.07, G:0.03, T:0.60 Consensus pattern (26 bp): ATTTTTAAAATTTAAATATTTTTCCA Found at i:34389562 original size:15 final size:15 Alignment explanation
Indices: 34389542--34389572 Score: 53 Period size: 15 Copynumber: 2.1 Consensus size: 15 34389532 TATAAAAAGG 34389542 ATATAACCTAATATA 1 ATATAACCTAATATA * 34389557 ATATAACCTATTATA 1 ATATAACCTAATATA 34389572 A 1 A 34389573 GTTTTTTTCC Statistics Matches: 15, Mismatches: 1, Indels: 0 0.94 0.06 0.00 Matches are distributed among these distances: 15 15 1.00 ACGTcount: A:0.52, C:0.13, G:0.00, T:0.35 Consensus pattern (15 bp): ATATAACCTAATATA Found at i:34390880 original size:11 final size:11 Alignment explanation
Indices: 34390864--34390905 Score: 57 Period size: 11 Copynumber: 3.7 Consensus size: 11 34390854 CATATCTTTC 34390864 TTTTTTTTCTT 1 TTTTTTTTCTT 34390875 TTTTTTTTCTT 1 TTTTTTTTCTT * * 34390886 TTCTTTATGCTT 1 TT-TTTTTTCTT 34390898 TTTTTTTT 1 TTTTTTTT 34390906 TGGATTTGTG Statistics Matches: 26, Mismatches: 4, Indels: 2 0.81 0.12 0.06 Matches are distributed among these distances: 11 17 0.65 12 9 0.35 ACGTcount: A:0.02, C:0.10, G:0.02, T:0.86 Consensus pattern (11 bp): TTTTTTTTCTT Found at i:34390885 original size:20 final size:23 Alignment explanation
Indices: 34390860--34390905 Score: 71 Period size: 23 Copynumber: 2.1 Consensus size: 23 34390850 GTGGCATATC 34390860 TTTCTTTT-TTT-T-CTTTTTTT 1 TTTCTTTTCTTTATGCTTTTTTT 34390880 TTTCTTTTCTTTATGCTTTTTTT 1 TTTCTTTTCTTTATGCTTTTTTT 34390903 TTT 1 TTT 34390906 TGGATTTGTG Statistics Matches: 23, Mismatches: 0, Indels: 3 0.88 0.00 0.12 Matches are distributed among these distances: 20 8 0.35 21 3 0.13 22 1 0.04 23 11 0.48 ACGTcount: A:0.02, C:0.11, G:0.02, T:0.85 Consensus pattern (23 bp): TTTCTTTTCTTTATGCTTTTTTT Found at i:34397124 original size:44 final size:44 Alignment explanation
Indices: 34397060--34397805 Score: 704 Period size: 44 Copynumber: 17.0 Consensus size: 44 34397050 CTGCCACACT ** 34397060 ACCAATATAAAAAGACAAGATCTGCTATCTTCGATCTACTTCAC 1 ACCAATATATGAAGACAAGATCTGCTATCTTCGATCTACTTCAC * * * * * * 34397104 GCCAATACATGAAGATAAGATATGCTTTCTTCGATCTACTTCGCC 1 ACCAATATATGAAGACAAGATCTGCTATCTTCGATCTACTTC-AC ** * 34397149 ACCAATATGGGAAGACAAGATCTGC-ATCTTCGATCCACTTC-C 1 ACCAATATATGAAGACAAGATCTGCTATCTTCGATCTACTTCAC * * * 34397191 TACCAATATAAGAAGACAGGATCTGTTATCTTCGATCTACTTCAC 1 -ACCAATATATGAAGACAAGATCTGCTATCTTCGATCTACTTCAC * * * * * * 34397236 GCCAATACATGAAGACGAGATCTACTTTCTTCGATCCACTTC-C 1 ACCAATATATGAAGACAAGATCTGCTATCTTCGATCTACTTCAC * * * * * 34397279 TACAAATATAGGAAGACAGGATCTGCTATCTTCTATCCA-TTGC-C 1 -ACCAATATATGAAGACAAGATCTGCTATCTTCGATCTACTT-CAC * * * ** 34397323 TACTAATATAGGAAGACAGGATCTGCTATCTTTTATCTACTTCAC 1 -ACCAATATATGAAGACAAGATCTGCTATCTTCGATCTACTTCAC * * * * * 34397368 GCCAATACATGAAGATAAGATCTGCTTTCTTCGATCTACTTCGCC 1 ACCAATATATGAAGACAAGATCTGCTATCTTCGATCTACTTC-AC ** * * 34397413 ACCAATATGGGAAGACAATATCTGC-ATCTTCGATCCACTTC-C 1 ACCAATATATGAAGACAAGATCTGCTATCTTCGATCTACTTCAC * * * 34397455 TACCAATATAGGAAGACAGGATCTGTTATCTTCGATCTACTTCAC 1 -ACCAATATATGAAGACAAGATCTGCTATCTTCGATCTACTTCAC * * * * * * 34397500 GCCAATACATGAAGACGAGATCTACTTTCTTCGATCCACTTC-C 1 ACCAATATATGAAGACAAGATCTGCTATCTTCGATCTACTTCAC * * * ** 34397543 TACTAATATAGGAAGACAGGATCTGCTATCTTTTATCTACTTCAC 1 -ACCAATATATGAAGACAAGATCTGCTATCTTCGATCTACTTCAC * * 34397588 GCCAATACATGAAGACAAGATCTGCTATCTTCGATCTACTTCAC 1 ACCAATATATGAAGACAAGATCTGCTATCTTCGATCTACTTCAC * * * * 34397632 GCCAATACATGAAGACAAGATCTGCTTTCTTCGATCTACTTCGCC 1 ACCAATATATGAAGACAAGATCTGCTATCTTCGATCTACTTC-AC * * 34397677 ACCAATAT-GGAAAGACAAGATCTGC-ATCTTCGATCCACTT-AC 1 ACCAATATATG-AAGACAAGATCTGCTATCTTCGATCTACTTCAC * * * 34397719 AACCAATATAGGAAAACAGGATCTGCTATCTTCGATCTACTTCAC 1 -ACCAATATATGAAGACAAGATCTGCTATCTTCGATCTACTTCAC * * * * 34397764 GCCAATACATGAAGACAAGATCTGCTTTTTTCGATCTACTTC 1 ACCAATATATGAAGACAAGATCTGCTATCTTCGATCTACTTC 34397806 GCCACGCATC Statistics Matches: 572, Mismatches: 110, Indels: 40 0.79 0.15 0.06 Matches are distributed among these distances: 42 3 0.01 43 66 0.12 44 434 0.76 45 69 0.12 ACGTcount: A:0.31, C:0.25, G:0.14, T:0.29 Consensus pattern (44 bp): ACCAATATATGAAGACAAGATCTGCTATCTTCGATCTACTTCAC Found at i:34397310 original size:132 final size:132 Alignment explanation
Indices: 34397058--34397810 Score: 1075 Period size: 132 Copynumber: 5.7 Consensus size: 132 34397048 GTCTGCCACA ** * * 34397058 CTACCAATATAAAAAGACAAGATCTGCTATCTTCGATCTACTTCACGCCAATACATGAAGATAAG 1 CTACCAATATAGGAAGACAGGATCTGCTATCTTCGATCTACTTCACGCCAATACATGAAGACAAG * * 34397123 ATATGCTTTCTTCGATCTACTTCGCCACCAATATGGGAAGACAAGATCTGCATCTTCGATCCACT 66 ATCTGCTTTCTTCGATCTACTTCGCCACCAATATAGGAAGACAAGATCTGCATCTTCGATCCACT 34397188 TC 131 TC * * * 34397190 CTACCAATATAAGAAGACAGGATCTGTTATCTTCGATCTACTTCACGCCAATACATGAAGACGAG 1 CTACCAATATAGGAAGACAGGATCTGCTATCTTCGATCTACTTCACGCCAATACATGAAGACAAG * * * * * * 34397255 ATCTACTTTCTTCGATCCACTTC-CTACAAATATAGGAAGACAGGATCTGCTATCTTCTATCCA- 66 ATCTGCTTTCTTCGATCTACTTCGCCACCAATATAGGAAGACAAGATCTGC-ATCTTCGATCCAC 34397318 TTGC 130 TT-C * ** * 34397322 CTACTAATATAGGAAGACAGGATCTGCTATCTTTTATCTACTTCACGCCAATACATGAAGATAAG 1 CTACCAATATAGGAAGACAGGATCTGCTATCTTCGATCTACTTCACGCCAATACATGAAGACAAG * * 34397387 ATCTGCTTTCTTCGATCTACTTCGCCACCAATATGGGAAGACAATATCTGCATCTTCGATCCACT 66 ATCTGCTTTCTTCGATCTACTTCGCCACCAATATAGGAAGACAAGATCTGCATCTTCGATCCACT 34397452 TC 131 TC * * 34397454 CTACCAATATAGGAAGACAGGATCTGTTATCTTCGATCTACTTCACGCCAATACATGAAGACGAG 1 CTACCAATATAGGAAGACAGGATCTGCTATCTTCGATCTACTTCACGCCAATACATGAAGACAAG * * * * * ** * 34397519 ATCTACTTTCTTCGATCCACTTC-CTACTAATATAGGAAGACAGGATCTGCTATCTTTTATCTAC 66 ATCTGCTTTCTTCGATCTACTTCGCCACCAATATAGGAAGACAAGATCTGC-ATCTTCGATCCAC 34397583 TTC 130 TTC * * * * 34397586 AC-GCCAATACATGAAGACAAGATCTGCTATCTTCGATCTACTTCACGCCAATACATGAAGACAA 1 -CTACCAATATAGGAAGACAGGATCTGCTATCTTCGATCTACTTCACGCCAATACATGAAGACAA 34397650 GATCTGCTTTCTTCGATCTACTTCGCCACCAATAT-GGAAAGACAAGATCTGCATCTTCGATCCA 65 GATCTGCTTTCTTCGATCTACTTCGCCACCAATATAGG-AAGACAAGATCTGCATCTTCGATCCA * 34397714 CTTA 129 CTTC * * 34397718 CAACCAATATAGGAAAACAGGATCTGCTATCTTCGATCTACTTCACGCCAATACATGAAGACAAG 1 CTACCAATATAGGAAGACAGGATCTGCTATCTTCGATCTACTTCACGCCAATACATGAAGACAAG * 34397783 ATCTGCTTTTTTCGATCTACTTCGCCAC 66 ATCTGCTTTCTTCGATCTACTTCGCCAC 34397811 GCATCTTTGA Statistics Matches: 547, Mismatches: 65, Indels: 18 0.87 0.10 0.03 Matches are distributed among these distances: 131 48 0.09 132 453 0.83 133 46 0.08 ACGTcount: A:0.31, C:0.26, G:0.14, T:0.29 Consensus pattern (132 bp): CTACCAATATAGGAAGACAGGATCTGCTATCTTCGATCTACTTCACGCCAATACATGAAGACAAG ATCTGCTTTCTTCGATCTACTTCGCCACCAATATAGGAAGACAAGATCTGCATCTTCGATCCACT TC Found at i:34397553 original size:264 final size:264 Alignment explanation
Indices: 34397071--34397805 Score: 1231 Period size: 264 Copynumber: 2.8 Consensus size: 264 34397061 CCAATATAAA * 34397071 AAGACAAGATCTGCTATCTTCGATCTACTTCACGCCAATACATGAAGATAAGATATGCTTTCTTC 1 AAGACAAGATCTGCTATCTTCGATCTACTTCACGCCAATACATGAAGATAAGATCTGCTTTCTTC 34397136 GATCTACTTCGCCACCAATATGGGAAGACAAGATCTGCATCTTCGATCCACTTCCTACCAATATA 66 GATCTACTTCGCCACCAATATGGGAAGACAAGATCTGCATCTTCGATCCACTTCCTACCAATATA * 34397201 AGAAGACAGGATCTGTTATCTTCGATCTACTTCACGCCAATACATGAAGACGAGATCTACTTTCT 131 GGAAGACAGGATCTGTTATCTTCGATCTACTTCACGCCAATACATGAAGACGAGATCTACTTTCT * 34397266 TCGATCCACTTCCTACAAATATAGGAAGACAGGATCTGCTATCTTCTATCCA-TTGC-CTACTAA 196 TCGATCCACTTCCTACAAATATAGGAAGACAGGATCTGCTATCTTCTATCCACTT-CAC-ACCAA * 34397329 TATAGG 259 TACAGG * ** 34397335 AAGACAGGATCTGCTATCTTTTATCTACTTCACGCCAATACATGAAGATAAGATCTGCTTTCTTC 1 AAGACAAGATCTGCTATCTTCGATCTACTTCACGCCAATACATGAAGATAAGATCTGCTTTCTTC * 34397400 GATCTACTTCGCCACCAATATGGGAAGACAATATCTGCATCTTCGATCCACTTCCTACCAATATA 66 GATCTACTTCGCCACCAATATGGGAAGACAAGATCTGCATCTTCGATCCACTTCCTACCAATATA 34397465 GGAAGACAGGATCTGTTATCTTCGATCTACTTCACGCCAATACATGAAGACGAGATCTACTTTCT 131 GGAAGACAGGATCTGTTATCTTCGATCTACTTCACGCCAATACATGAAGACGAGATCTACTTTCT * * * * 34397530 TCGATCCACTTCCTACTAATATAGGAAGACAGGATCTGCTATCTTTTATCTACTTCACGCCAATA 196 TCGATCCACTTCCTACAAATATAGGAAGACAGGATCTGCTATCTTCTATCCACTTCACACCAATA * 34397595 CATG 261 CAGG * 34397599 AAGACAAGATCTGCTATCTTCGATCTACTTCACGCCAATACATGAAGACAAGATCTGCTTTCTTC 1 AAGACAAGATCTGCTATCTTCGATCTACTTCACGCCAATACATGAAGATAAGATCTGCTTTCTTC * * * 34397664 GATCTACTTCGCCACCAATATGGAAAGACAAGATCTGCATCTTCGATCCACTTACAACCAATATA 66 GATCTACTTCGCCACCAATATGGGAAGACAAGATCTGCATCTTCGATCCACTTCCTACCAATATA * * * * * 34397729 GGAAAACAGGATCTGCTATCTTCGATCTACTTCACGCCAATACATGAAGACAAGATCTGCTTTTT 131 GGAAGACAGGATCTGTTATCTTCGATCTACTTCACGCCAATACATGAAGACGAGATCTACTTTCT * 34397794 TCGATCTACTTC 196 TCGATCCACTTC 34397806 GCCACGCATC Statistics Matches: 442, Mismatches: 27, Indels: 4 0.93 0.06 0.01 Matches are distributed among these distances: 264 439 0.99 265 3 0.01 ACGTcount: A:0.31, C:0.25, G:0.14, T:0.30 Consensus pattern (264 bp): AAGACAAGATCTGCTATCTTCGATCTACTTCACGCCAATACATGAAGATAAGATCTGCTTTCTTC GATCTACTTCGCCACCAATATGGGAAGACAAGATCTGCATCTTCGATCCACTTCCTACCAATATA GGAAGACAGGATCTGTTATCTTCGATCTACTTCACGCCAATACATGAAGACGAGATCTACTTTCT TCGATCCACTTCCTACAAATATAGGAAGACAGGATCTGCTATCTTCTATCCACTTCACACCAATA CAGG Found at i:34398704 original size:25 final size:26 Alignment explanation
Indices: 34398676--34398724 Score: 66 Period size: 26 Copynumber: 1.9 Consensus size: 26 34398666 GTGTCTTGAA * 34398676 AAGAA-AAAGATATT-CAATAACAATG 1 AAGAATAAAG-TATTACAAGAACAATG 34398701 AAGAATAAAGTATTACAAGAACAA 1 AAGAATAAAGTATTACAAGAACAA 34398725 ACAAATTCTG Statistics Matches: 21, Mismatches: 1, Indels: 3 0.84 0.04 0.12 Matches are distributed among these distances: 25 9 0.43 26 12 0.57 ACGTcount: A:0.61, C:0.08, G:0.12, T:0.18 Consensus pattern (26 bp): AAGAATAAAGTATTACAAGAACAATG Found at i:34413561 original size:16 final size:17 Alignment explanation
Indices: 34413542--34413575 Score: 61 Period size: 16 Copynumber: 2.1 Consensus size: 17 34413532 ATTAGTAAAT 34413542 AAAATTGAAAAT-ATAA 1 AAAATTGAAAATAATAA 34413558 AAAATTGAAAATAATAA 1 AAAATTGAAAATAATAA 34413575 A 1 A 34413576 TTTAATATAG Statistics Matches: 17, Mismatches: 0, Indels: 1 0.94 0.00 0.06 Matches are distributed among these distances: 16 12 0.71 17 5 0.29 ACGTcount: A:0.71, C:0.00, G:0.06, T:0.24 Consensus pattern (17 bp): AAAATTGAAAATAATAA Found at i:34413682 original size:17 final size:16 Alignment explanation
Indices: 34413620--34413678 Score: 73 Period size: 16 Copynumber: 3.6 Consensus size: 16 34413610 TTCAATCATA * ** 34413620 ATTTAAAAATATTTAA 1 ATTTGAAAATATTTTT 34413636 ATTATGAAAATATTTTT 1 ATT-TGAAAATATTTTT 34413653 ATTTGAAAATATTTTT 1 ATTTGAAAATATTTTT * 34413669 ATTTTAAAAT 1 ATTTGAAAAT 34413679 TATTATAGAA Statistics Matches: 38, Mismatches: 4, Indels: 2 0.86 0.09 0.05 Matches are distributed among these distances: 16 25 0.66 17 13 0.34 ACGTcount: A:0.46, C:0.00, G:0.03, T:0.51 Consensus pattern (16 bp): ATTTGAAAATATTTTT Found at i:34417149 original size:2 final size:2 Alignment explanation
Indices: 34417105--34417129 Score: 50 Period size: 2 Copynumber: 12.5 Consensus size: 2 34417095 TAAAACAGTG 34417105 TA TA TA TA TA TA TA TA TA TA TA TA T 1 TA TA TA TA TA TA TA TA TA TA TA TA T 34417130 GAAAATAAGT Statistics Matches: 23, Mismatches: 0, Indels: 0 1.00 0.00 0.00 Matches are distributed among these distances: 2 23 1.00 ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52 Consensus pattern (2 bp): TA Found at i:34418785 original size:100 final size:100 Alignment explanation
Indices: 34418603--34419095 Score: 618 Period size: 100 Copynumber: 5.0 Consensus size: 100 34418593 AACTTGTAAT ** ** * * * * 34418603 TTTAATCCGTTTAACTATAATGTCGAGGAGGCAAGATTCGCTATTGTAGC-TTCAATCTGTTCCA 1 TTTAATCTTTTTAACTGCAATGTCGAGGAAGCAAGATTCACCATTGTGGCGTT-AATCTGTTCCA * * * 34418667 CTACACCGCCTG-GAAAGTAAGATTTGCTGTTATAGC 65 CTGCACCGCTTGAG-AAGTAAGATTCGCTGTTATAGC * * * * 34418703 TTTAATATTTTTAAATGCAATGTCAAGGAAGCAAGATTCACCGTTGTGGCGTTAATCTGTTCCAC 1 TTTAATCTTTTTAACTGCAATGTCGAGGAAGCAAGATTCACCATTGTGGCGTTAATCTGTTCCAC * 34418768 TGCACCGCTTGAGAAGTAAGATTCGCTGTTGTAGC 66 TGCACCGCTTGAGAAGTAAGATTCGCTGTTATAGC * ** 34418803 TTTAATCTTTTTAACTGCAATGTCGGGGAAGCAAGATTTTCCATTGTGGCGTTAATCTGTTCCAC 1 TTTAATCTTTTTAACTGCAATGTCGAGGAAGCAAGATTCACCATTGTGGCGTTAATCTGTTCCAC * * 34418868 TGCACCACTTGAGAAGTAAGATTCGCCGTTATAGC 66 TGCACCGCTTGAGAAGTAAGATTCGCTGTTATAGC * * * 34418903 TTTAATCTTTTTAACTGCAATGTCGAGGAAGCAATATT-ACCAATGTGGCGTTAATCTGTTCTAC 1 TTTAATCTTTTTAACTGCAATGTCGAGGAAGCAAGATTCACCATTGTGGCGTTAATCTGTTCCAC * * 34418967 TGCACCGCTTGAGAAGTAAAATTCGC-GTTATAAC 66 TGCACCGCTTGAGAAGTAAGATTCGCTGTTATAGC * * 34419001 TTTAATCTTTTTAACTGCAATGTCGGGGAAGCAAGATTCACCGA-TGTGGCTTTAATCTGTTCCA 1 TTTAATCTTTTTAACTGCAATGTCGAGGAAGCAAGATTCACC-ATTGTGGCGTTAATCTGTTCCA * * * * * * 34419065 CTGAATCGCCTGGGGAGTAAGATTTGCTGTT 65 CTGCACCGCTTGAGAAGTAAGATTCGCTGTT 34419096 CTCAGTCTGC Statistics Matches: 343, Mismatches: 45, Indels: 10 0.86 0.11 0.03 Matches are distributed among these distances: 98 43 0.13 99 88 0.26 100 209 0.61 101 3 0.01 ACGTcount: A:0.26, C:0.19, G:0.21, T:0.34 Consensus pattern (100 bp): TTTAATCTTTTTAACTGCAATGTCGAGGAAGCAAGATTCACCATTGTGGCGTTAATCTGTTCCAC TGCACCGCTTGAGAAGTAAGATTCGCTGTTATAGC Found at i:34418789 original size:50 final size:50 Alignment explanation
Indices: 34418730--34419067 Score: 191 Period size: 50 Copynumber: 6.8 Consensus size: 50 34418720 CAATGTCAAG * 34418730 GAAGCAAGATTCACCGTTGTGGCGTTAATCTGTTCCACTGCACCGCTTGA 1 GAAGCAAGATTCACCGTTGTGGCGTTAATCTGTTCAACTGCACCGCTTGA * * * * * * * ** * * 34418780 GAAGTAAGATTCGCTGTTGTAGCTTTAATCTTTTTAACTGCAATG-TCGGG 1 GAAGCAAGATTCACCGTTGTGGCGTTAATCTGTTCAACTGCACCGCT-TGA ** * * * 34418830 GAAGCAAGATTTTCCATTGTGGCGTTAATCTGTTCCACTGCACCACTTGA 1 GAAGCAAGATTCACCGTTGTGGCGTTAATCTGTTCAACTGCACCGCTTGA * * * * * * * ** * 34418880 GAAGTAAGATTCGCCGTTATAGCTTTAATCTTTTTAACTGCAATG-TCGA 1 GAAGCAAGATTCACCGTTGTGGCGTTAATCTGTTCAACTGCACCGCTTGA * ** * 34418929 GGAAGCAATATT-ACCAATGTGGCGTTAATCTGTTCTACTGCACCGCTTGA 1 -GAAGCAAGATTCACCGTTGTGGCGTTAATCTGTTCAACTGCACCGCTTGA * * * * ** * * * ** * * 34418979 GAAGTAAAATTC-GCGTTATAACTTTAATCTTTTTAACTGCAATG-TCGGG 1 GAAGCAAGATTCACCGTTGTGGCGTTAATCTGTTCAACTGCACCGCT-TGA * * * 34419028 GAAGCAAGATTCACCGATGTGGCTTTAATCTGTTCCACTG 1 GAAGCAAGATTCACCGTTGTGGCGTTAATCTGTTCAACTG 34419068 AATCGCCTGG Statistics Matches: 200, Mismatches: 81, Indels: 14 0.68 0.27 0.05 Matches are distributed among these distances: 48 1 0.00 49 66 0.33 50 132 0.66 51 1 0.00 ACGTcount: A:0.26, C:0.20, G:0.21, T:0.33 Consensus pattern (50 bp): GAAGCAAGATTCACCGTTGTGGCGTTAATCTGTTCAACTGCACCGCTTGA Found at i:34419158 original size:44 final size:45 Alignment explanation
Indices: 34419076--34419179 Score: 129 Period size: 44 Copynumber: 2.3 Consensus size: 45 34419066 TGAATCGCCT * * 34419076 GGGGAGTAAGATTTGCTGTTCTCAGTCTGCCCCACTGCAACTTCAG 1 GGGGA-TAAGACTTGCTGTACTCAGTCTGCCCCACTGCAACTTCAG * * * * 34419122 GGGGATAAGACTTGCT-TACTCAGTTTGCTCCGCTGCAACTTTAG 1 GGGGATAAGACTTGCTGTACTCAGTCTGCCCCACTGCAACTTCAG * 34419166 GGAGATAAGACTTG 1 GGGGATAAGACTTG 34419180 ATGCGATCCA Statistics Matches: 51, Mismatches: 7, Indels: 2 0.85 0.12 0.03 Matches are distributed among these distances: 44 36 0.71 45 10 0.20 46 5 0.10 ACGTcount: A:0.22, C:0.22, G:0.27, T:0.29 Consensus pattern (45 bp): GGGGATAAGACTTGCTGTACTCAGTCTGCCCCACTGCAACTTCAG Found at i:34419283 original size:44 final size:45 Alignment explanation
Indices: 34419235--34419338 Score: 120 Period size: 45 Copynumber: 2.3 Consensus size: 45 34419225 TTTAATCCGT * * * * 34419235 TCCACTACAACTTCAGGGAGATAGGAT-TATCGGCTTCAATCTGC 1 TCCACTACAACCTCAGGAAGATAAGATATATCAGCTTCAATCTGC * * ** 34419279 TCCACTACATCCTCAGGAAGATAAGATATATCATCTTCGGTCTGC 1 TCCACTACAACCTCAGGAAGATAAGATATATCAGCTTCAATCTGC * 34419324 CCCACTACAACCTCA 1 TCCACTACAACCTCA 34419339 AGGGGATAAG Statistics Matches: 49, Mismatches: 10, Indels: 1 0.82 0.17 0.02 Matches are distributed among these distances: 44 23 0.47 45 26 0.53 ACGTcount: A:0.29, C:0.30, G:0.15, T:0.26 Consensus pattern (45 bp): TCCACTACAACCTCAGGAAGATAAGATATATCAGCTTCAATCTGC Found at i:34419709 original size:218 final size:218 Alignment explanation
Indices: 34419101--34419743 Score: 964 Period size: 217 Copynumber: 3.0 Consensus size: 218 34419091 CTGTTCTCAG * * * * * * 34419101 TCTGCCCCACTGCAACTTCAGGGGGATAAGACTTGCTTACTCAGTTTGCTCCGCTGCAACTTTAG 1 TCTGCCCCACTGCAACCTCAGGGGGATAAGACCTGCTTACTCAGTCTGCTCCACTGCAACCTCAG * * * 34419166 GGAGATAAGACTTGATGCGATCCACTCTACTACAACTTCAGAGAGATAAAATCTATTACTTTAAT 66 GGAGATAAGACTTGATGCGATCCACTCTACTGCAACTTTAGAGAGATAAGATCTATTACTTTAAT * * * 34419231 CCGTTCCACTACAACTTCAGGGAGATAGGATTATCGGCTTCAATCTGCTCCACTACATCCTCAGG 131 CCGCTCCACTACAACTTCAGGGAGATAGGATTATCGGCTTCAATCTGCTCCACTGCAACCTCAGG * * * 34419296 AAGATAAGATATATCATCTTCGG 196 GAGATAAGATTTATCATCTTCGA * * 34419319 TCTGCCCCACTACAACCTCAAGGGGATAAGACCTGCTTACTCAGTCTGCT-CACTGCAACCTCAG 1 TCTGCCCCACTGCAACCTCAGGGGGATAAGACCTGCTTACTCAGTCTGCTCCACTGCAACCTCAG * * * 34419383 AGAGATAAGACCTGATGCGATCCACTCTATTGCAACTTTAGAGAGATAAGATCTATTACTTTAAT 66 GGAGATAAGACTTGATGCGATCCACTCTACTGCAACTTTAGAGAGATAAGATCTATTACTTTAAT * * * * * * 34419448 CCTCCCCACCACAACTTCAGGGAGATAGGATTATCGTCTTCAATCTACTCCACTGCAACCTTAGG 131 CCGCTCCACTACAACTTCAGGGAGATAGGATTATCGGCTTCAATCTGCTCCACTGCAACCTCAGG 34419513 GAGATAAGATTTATCATCTTCGA 196 GAGATAAGATTTATCATCTTCGA * * 34419536 TTTGCCCCACTGCAACCTCAGGGGGATAAGACCTGTTTACTCAGTCTGCTCCACTGCAACCTCAG 1 TCTGCCCCACTGCAACCTCAGGGGGATAAGACCTGCTTACTCAGTCTGCTCCACTGCAACCTCAG * * * 34419601 GGAGATAAGATTTGATGGGATCCACTCTACTGCAACTTTAGAGAGATAAGATCCATTACTTTAAT 66 GGAGATAAGACTTGATGCGATCCACTCTACTGCAACTTTAGAGAGATAAGATCTATTACTTTAAT * * * 34419666 TCGCTCCACTACAATTTCAGGGAGATAGGACTATCGGCTTCAATCTGCTCCACTGCAACCTCAGG 131 CCGCTCCACTACAACTTCAGGGAGATAGGATTATCGGCTTCAATCTGCTCCACTGCAACCTCAGG * 34419731 GAGATAATATTTA 196 GAGATAAGATTTA 34419744 ATAAGATCCA Statistics Matches: 378, Mismatches: 46, Indels: 2 0.89 0.11 0.00 Matches are distributed among these distances: 217 192 0.51 218 186 0.49 ACGTcount: A:0.29, C:0.26, G:0.18, T:0.28 Consensus pattern (218 bp): TCTGCCCCACTGCAACCTCAGGGGGATAAGACCTGCTTACTCAGTCTGCTCCACTGCAACCTCAG GGAGATAAGACTTGATGCGATCCACTCTACTGCAACTTTAGAGAGATAAGATCTATTACTTTAAT CCGCTCCACTACAACTTCAGGGAGATAGGATTATCGGCTTCAATCTGCTCCACTGCAACCTCAGG GAGATAAGATTTATCATCTTCGA Found at i:34419715 original size:129 final size:129 Alignment explanation
Indices: 34419580--34419872 Score: 444 Period size: 129 Copynumber: 2.3 Consensus size: 129 34419570 GTTTACTCAG ** * * 34419580 TCTGCTCCACTGCAACCTCAGGGAGATAAGATTTGATGGGATCCACTCTACTGCAACTTTAGAGA 1 TCTGCTCCACTGCAACCTCAGGGAGATAAGATTTGATAAGATCCACTCTACTACAACTTCAGAGA * * * 34419645 GATAAGATCCATTACTTTAAT-TCGCTCCACTACAATTTCAGGGAGATAGGACTATCGGCTTCAA 66 GATAAGATCCATTACTTTAATCT-GCTCCACTACAACTGCAGGGAGATAGAACTATCGGCTTCAA * * 34419709 TCTGCTCCACTGCAACCTCAGGGAGATAATATTTAATAAGATCCACTCTACTACAACTTCAGAGA 1 TCTGCTCCACTGCAACCTCAGGGAGATAAGATTTGATAAGATCCACTCTACTACAACTTCAGAGA * * * 34419774 GATAAGATCTATTACTTTAATCTGCTCCACTACAACTGCAGGGAGATAGAATTATCGGTTTCAA 66 GATAAGATCCATTACTTTAATCTGCTCCACTACAACTGCAGGGAGATAGAACTATCGGCTTCAA * * 34419838 TCTGTTCCACTGCAACCTTAGGGAGATAAGATTTG 1 TCTGCTCCACTGCAACCTCAGGGAGATAAGATTTG 34419873 CCATCTTCAA Statistics Matches: 147, Mismatches: 16, Indels: 2 0.89 0.10 0.01 Matches are distributed among these distances: 129 146 0.99 130 1 0.01 ACGTcount: A:0.31, C:0.23, G:0.18, T:0.29 Consensus pattern (129 bp): TCTGCTCCACTGCAACCTCAGGGAGATAAGATTTGATAAGATCCACTCTACTACAACTTCAGAGA GATAAGATCCATTACTTTAATCTGCTCCACTACAACTGCAGGGAGATAGAACTATCGGCTTCAA Found at i:34419783 original size:347 final size:346 Alignment explanation
Indices: 34419363--34420042 Score: 981 Period size: 347 Copynumber: 2.0 Consensus size: 346 34419353 GCTTACTCAG * ** * * * 34419363 TCTGCTCACTGCAACCTCAGAGAGATAAGACCTGATGCGATCCACTCTATTGCAACTTTAGAGAG 1 TCTGCTCACTGCAACCTCAGAGAGATAAGACCTAATAAGATCCACTCTACTACAACTTCAGAGAG * * 34419428 ATAAGATCTATTACTTTAATCCT-CCCCACCACAACTTCAGGGAGATAGGATTATC-GTCTTCAA 66 ATAAGATCTATTACTTTAAT-CTGCCCCACCACAACTGCAGGGAGATAGAATTATCGGT-TTCAA * * * 34419491 TCTACTCCACTGCAACCTTAGGGAGATAAGATTTATCATCTTCGATTTGCCCCACTGCAACCTCA 129 TCTACTCCACTGCAACCTTAGGGAGATAAGATTTACCATCTTCAATCTGCCCCACTGCAACCTCA * ** * * 34419556 GGGGGATAAGACCTGTTTACTCAGTCTGCTCCACTGCAACCTCAGGGAGATAAGATTTGATGGGA 194 GGGGGATAAGACCTGCTTACTCAGTCTGCTCCACTGCAACCTCAGGGAGATAAGACCTAATGCGA * ** * 34419621 TCCACTCTACTGCAACTTTAGAGAGATAAGATCCATTACTTTAATTC-GCTCCACTACAA-TTTC 259 TCCACTCCACTAAAACTTCAGAGAGATAAGATCCATTACTTTAA-TCAGCTCCACTACAAGTTT- 34419684 AGGGAGATAGGACTATCGGCTTCAA 322 AGGGAGATAGGACTATCGGCTTCAA * * ** 34419709 TCTGCTCCACTGCAACCTCAGGGAGATAATATTTAATAAGATCCACTCTACTACAACTTCAGAGA 1 TCTGCT-CACTGCAACCTCAGAGAGATAAGACCTAATAAGATCCACTCTACTACAACTTCAGAGA * * 34419774 GATAAGATCTATTACTTTAATCTGCTCCACTACAACTGCAGGGAGATAGAATTATCGGTTTCAAT 65 GATAAGATCTATTACTTTAATCTGCCCCACCACAACTGCAGGGAGATAGAATTATCGGTTTCAAT ** * * * 34419839 CTGTTCCACTGCAACCTTAGGGAGATAAGATTTGCCATCTTCAATCTGTCCCACTGCAACTTCAG 130 CTACTCCACTGCAACCTTAGGGAGATAAGATTTACCATCTTCAATCTGCCCCACTGCAACCTCAG * 34419904 GGGGATAAGACCTGCTTACTCAGTCTGCTCCGCTGCAACCTCAGGGAGATAAGACCTAATGCGAT 195 GGGGATAAGACCTGCTTACTCAGTCTGCTCCACTGCAACCTCAGGGAGATAAGACCTAATGCGAT * * 34419969 CCACTCCACTAAAACTTCAGAGAGATAAGATCTATTACTTTAATCATCTCCACTACAAGTTTAGG 260 CCACTCCACTAAAACTTCAGAGAGATAAGATCCATTACTTTAATCAGCTCCACTACAAGTTTAGG 34420034 GAGATAGGA 325 GAGATAGGA 34420043 TTTGTGGCTT Statistics Matches: 295, Mismatches: 34, Indels: 9 0.87 0.10 0.03 Matches are distributed among these distances: 346 10 0.03 347 280 0.95 348 5 0.02 ACGTcount: A:0.30, C:0.25, G:0.18, T:0.28 Consensus pattern (346 bp): TCTGCTCACTGCAACCTCAGAGAGATAAGACCTAATAAGATCCACTCTACTACAACTTCAGAGAG ATAAGATCTATTACTTTAATCTGCCCCACCACAACTGCAGGGAGATAGAATTATCGGTTTCAATC TACTCCACTGCAACCTTAGGGAGATAAGATTTACCATCTTCAATCTGCCCCACTGCAACCTCAGG GGGATAAGACCTGCTTACTCAGTCTGCTCCACTGCAACCTCAGGGAGATAAGACCTAATGCGATC CACTCCACTAAAACTTCAGAGAGATAAGATCCATTACTTTAATCAGCTCCACTACAAGTTTAGGG AGATAGGACTATCGGCTTCAA Found at i:34419808 original size:44 final size:44 Alignment explanation
Indices: 34419194--34420039 Score: 339 Period size: 44 Copynumber: 19.5 Consensus size: 44 34419184 GATCCACTCT * * * * * 34419194 ACTACAACTTCAGAGAGATAAAATCTATTACTTTAATCCGTTCC 1 ACTACAACTTCAGGGAGATAAGATCTATTACTTCAATCTGCTCC * ** 34419238 ACTACAACTTCAGGGAGATAGGAT-TATCGGCTTCAATCTGCTCC 1 ACTACAACTTCAGGGAGATAAGATCTAT-TACTTCAATCTGCTCC * * * * * ** * 34419282 ACTACATCCTCAGGAAGATAAGATATATCATCTTCGGTCTGCCCC 1 ACTACAACTTCAGGGAGATAAGATCTATTA-CTTCAATCTGCTCC * * * * 34419327 ACTACAACCTCAAGGG-GATAAGACCTGCTTAC-TCAGTCTGCT-C 1 ACTACAACTTC-AGGGAGATAAGATCT-ATTACTTCAATCTGCTCC * * * * * * * ** * 34419370 ACTGCAACCTCAGAGAGATAAGA-C-CTGA-TGCGATCCACTCT 1 ACTACAACTTCAGGGAGATAAGATCTATTACTTCAATCTGCTCC * * * * * * 34419411 ATTGCAACTTTAGAGAGATAAGATCTATTACTTTAATCCT-CCCC 1 ACTACAACTTCAGGGAGATAAGATCTATTACTTCAAT-CTGCTCC * * * 34419455 ACCACAACTTCAGGGAGATAGGAT-TATCGT-CTTCAATCTACTCC 1 ACTACAACTTCAGGGAGATAAGATCTAT--TACTTCAATCTGCTCC * * * * * * 34419499 ACTGCAACCTT-AGGGAGATAAGATTTATCATCTTCGATTTGCCCC 1 ACTACAA-CTTCAGGGAGATAAGATCTATTA-CTTCAATCTGCTCC * * * * * * 34419544 ACTGCAACCTCAGGGGGATAAGACCTGTTTAC-TCAGTCTGCTCC 1 ACTACAACTTCAGGGAGATAAGATCT-ATTACTTCAATCTGCTCC * * * *** ** * 34419588 ACTGCAACCTCAGGGAGATAAGAT-T-TGA-TGGGATCCACTCT 1 ACTACAACTTCAGGGAGATAAGATCTATTACTTCAATCTGCTCC * * * * * 34419629 ACTGCAACTTTAGAGAGATAAGATCCATTACTTTAAT-TCGCTCC 1 ACTACAACTTCAGGGAGATAAGATCTATTACTTCAATCT-GCTCC * * ** 34419673 ACTACAATTTCAGGGAGATAGGA-CTATCGGCTTCAATCTGCTCC 1 ACTACAACTTCAGGGAGATAAGATCTAT-TACTTCAATCTGCTCC * * * * * ** * 34419717 ACTGCAACCTCAGGGAGAT-A-ATAT-TTA-ATAAGATCCACTCT 1 ACTACAACTTCAGGGAGATAAGATCTATTACTTCA-ATCTGCTCC * * 34419758 ACTACAACTTCAGAGAGATAAGATCTATTACTTTAATCTGCTCC 1 ACTACAACTTCAGGGAGATAAGATCTATTACTTCAATCTGCTCC * *** * 34419802 ACTACAACTGCAGGGAGAT-AGAAT-TATCGGTTTCAATCTGTTCC 1 ACTACAACTTCAGGGAGATAAG-ATCTAT-TACTTCAATCTGCTCC * * *** 34419846 ACTGCAACCTT-AGGGAGATAAGATTTGCCATCTTCAATCTG-TCCC 1 ACTACAA-CTTCAGGGAGATAAGATCTATTA-CTTCAATCTGCT-CC * * * * * 34419891 ACTGCAACTTCAGGGGGATAAGACCTGCTTAC-TCAGTCTGCTCC 1 ACTACAACTTCAGGGAGATAAGATCT-ATTACTTCAATCTGCTCC * * * * * * ** 34419935 GCTGCAACCTCAGGGAGATAAGACCTA--A-TGCGATCCACTCC 1 ACTACAACTTCAGGGAGATAAGATCTATTACTTCAATCTGCTCC * * * 34419976 ACTAAAACTTCAGAGAGATAAGATCTATTACTTTAATCAT-CTCC 1 ACTACAACTTCAGGGAGATAAGATCTATTACTTCAATC-TGCTCC * * 34420020 ACTACAAGTTTAGGGAGATA 1 ACTACAACTTCAGGGAGATA 34420040 GGATTTGTGG Statistics Matches: 587, Mismatches: 166, Indels: 98 0.69 0.20 0.12 Matches are distributed among these distances: 40 10 0.02 41 99 0.17 42 8 0.01 43 44 0.07 44 307 0.52 45 111 0.19 46 8 0.01 ACGTcount: A:0.30, C:0.25, G:0.17, T:0.27 Consensus pattern (44 bp): ACTACAACTTCAGGGAGATAAGATCTATTACTTCAATCTGCTCC Found at i:34420182 original size:129 final size:129 Alignment explanation
Indices: 34420031--34420433 Score: 662 Period size: 129 Copynumber: 3.1 Consensus size: 129 34420021 CTACAAGTTT * * ** 34420031 AGGGAGATAGGATTTGTGGCTTAAATCTGCTTCCTTACACTTGAAGATAAGATTCGTCGTCTTCG 1 AGGGATATAGGACTTGTGGCTTAAATCTGCTTCCTTACACTTGAAGATAAGATTCACCGTCTTCG * * 34420096 ATCTGCTTCGCTACTGCTTAGGGAGACAAGATTTGTAATTTCCTAGCCTATTCCACTGCTGACC 66 ATCTGCTTCGCTACTGCTTAGGGAGACAAGATCTGTAATTTCCTAACCTATTCCACTGCTGACC * * 34420160 AGGGATATAGGACTTATGGCTTAAATCTACTTCCTTACACTTGAAGATAAGATTCACCGTCTTCG 1 AGGGATATAGGACTTGTGGCTTAAATCTGCTTCCTTACACTTGAAGATAAGATTCACCGTCTTCG * * 34420225 ATCTGCTTCGCTACTGCTTAGGGAGACAAGATCTGTAATTTTCTAACATATTCCACTGCTGACC 66 ATCTGCTTCGCTACTGCTTAGGGAGACAAGATCTGTAATTTCCTAACCTATTCCACTGCTGACC 34420289 AGGGATATAGGACTTGTGGCTTAAATCTGCTTCCTTACACTTGAAGATAAGATTCACCGTCTTCG 1 AGGGATATAGGACTTGTGGCTTAAATCTGCTTCCTTACACTTGAAGATAAGATTCACCGTCTTCG * * * * * * 34420354 ATCTGCTCCGCTATTACTTAGAGAGACAAGATCTGTAATTTCCCAACCTATTCCATTGCTGACC 66 ATCTGCTTCGCTACTGCTTAGGGAGACAAGATCTGTAATTTCCTAACCTATTCCACTGCTGACC 34420418 AGGGATATAGGACTTG 1 AGGGATATAGGACTTG 34420434 CAATCTTCAA Statistics Matches: 254, Mismatches: 20, Indels: 0 0.93 0.07 0.00 Matches are distributed among these distances: 129 254 1.00 ACGTcount: A:0.26, C:0.22, G:0.20, T:0.32 Consensus pattern (129 bp): AGGGATATAGGACTTGTGGCTTAAATCTGCTTCCTTACACTTGAAGATAAGATTCACCGTCTTCG ATCTGCTTCGCTACTGCTTAGGGAGACAAGATCTGTAATTTCCTAACCTATTCCACTGCTGACC Found at i:34420479 original size:44 final size:44 Alignment explanation
Indices: 34420431--34420521 Score: 157 Period size: 44 Copynumber: 2.1 Consensus size: 44 34420421 GATATAGGAC * 34420431 TTGCAATCTTCAACCTATTCCGCTGCTGGTCA-ATGAGCTAGGTT 1 TTGCAATCTTCAACCTATTCCACTGCTGGTCAGA-GAGCTAGGTT 34420475 TTGCAATCTTCAACCTATTCCACTGCTGGTCAGAGAGCTAGGTT 1 TTGCAATCTTCAACCTATTCCACTGCTGGTCAGAGAGCTAGGTT 34420519 TTG 1 TTG 34420522 TGATTTCACA Statistics Matches: 45, Mismatches: 1, Indels: 2 0.94 0.02 0.04 Matches are distributed among these distances: 44 44 0.98 45 1 0.02 ACGTcount: A:0.21, C:0.24, G:0.21, T:0.34 Consensus pattern (44 bp): TTGCAATCTTCAACCTATTCCACTGCTGGTCAGAGAGCTAGGTT Found at i:34421825 original size:8 final size:7 Alignment explanation
Indices: 34421783--34421824 Score: 61 Period size: 7 Copynumber: 6.1 Consensus size: 7 34421773 TACTCTTTCA 34421783 TCATTTT 1 TCATTTT 34421790 T-ATTTT 1 TCATTTT 34421796 TCA-TTT 1 TCATTTT 34421802 TCACTTTT 1 TCA-TTTT 34421810 TCATTTT 1 TCATTTT 34421817 TCATTTT 1 TCATTTT 34421824 T 1 T 34421825 TTTACTCAAA Statistics Matches: 32, Mismatches: 0, Indels: 6 0.84 0.00 0.16 Matches are distributed among these distances: 6 12 0.38 7 14 0.44 8 6 0.19 ACGTcount: A:0.14, C:0.14, G:0.00, T:0.71 Consensus pattern (7 bp): TCATTTT Found at i:34422678 original size:6 final size:6 Alignment explanation
Indices: 34422653--34422728 Score: 75 Period size: 6 Copynumber: 12.8 Consensus size: 6 34422643 CCTTCTCTCT * * * * * * 34422653 ATTTTC ATTTTG ACTTTG ATTTTG ATTTTC CTTTTT CTTCTT- -TTTTG 1 ATTTTG ATTTTG ATTTTG ATTTTG ATTTTG ATTTTG ATT-TTG ATTTTG 34422700 ATTTTG ATTTTG ATTTTG ATTTTG ATTTT 1 ATTTTG ATTTTG ATTTTG ATTTTG ATTTT 34422729 TTTTGGATTG Statistics Matches: 61, Mismatches: 6, Indels: 6 0.84 0.08 0.08 Matches are distributed among these distances: 4 2 0.03 5 2 0.03 6 55 0.90 7 2 0.03 ACGTcount: A:0.13, C:0.08, G:0.11, T:0.68 Consensus pattern (6 bp): ATTTTG Found at i:34422729 original size:41 final size:42 Alignment explanation
Indices: 34422645--34422729 Score: 118 Period size: 41 Copynumber: 2.0 Consensus size: 42 34422635 CTTTTTTTCC * 34422645 TTCTCTCTATTTTCATTTTGACTTTGATTTTGATTTTCCTTT 1 TTCTCTCTATTTTCATTTTGACTTTGATTTTGATTTTCATTT * * * * 34422687 TTCT-TCTTTTTTGATTTTGATTTTGATTTTGATTTTGATTT 1 TTCTCTCTATTTTCATTTTGACTTTGATTTTGATTTTCATTT 34422728 TT 1 TT 34422730 TTTGGATTGG Statistics Matches: 38, Mismatches: 5, Indels: 1 0.86 0.11 0.02 Matches are distributed among these distances: 41 34 0.89 42 4 0.11 ACGTcount: A:0.12, C:0.11, G:0.09, T:0.68 Consensus pattern (42 bp): TTCTCTCTATTTTCATTTTGACTTTGATTTTGATTTTCATTT Found at i:34422732 original size:35 final size:35 Alignment explanation
Indices: 34422660--34422733 Score: 96 Period size: 35 Copynumber: 2.1 Consensus size: 35 34422650 TCTATTTTCA * * ** 34422660 TTTTGACTTTGATTTTGATTTTCCTTTTTCTTCTT 1 TTTTGATTTTGATTTTGATTTTCATTTTGATTCTT * 34422695 TTTTGATTTTGATTTTGATTTTGATTTTGATT-TT 1 TTTTGATTTTGATTTTGATTTTCATTTTGATTCTT 34422729 TTTTG 1 TTTTG 34422734 GATTGGATTT Statistics Matches: 34, Mismatches: 5, Indels: 1 0.85 0.12 0.03 Matches are distributed among these distances: 34 7 0.21 35 27 0.79 ACGTcount: A:0.11, C:0.07, G:0.12, T:0.70 Consensus pattern (35 bp): TTTTGATTTTGATTTTGATTTTCATTTTGATTCTT Found at i:34426138 original size:71 final size:71 Alignment explanation
Indices: 34426022--34426173 Score: 304 Period size: 71 Copynumber: 2.1 Consensus size: 71 34426012 TGTCCCCAGT 34426022 GGAGTCGCCAAGCTGTCGAAACCATTTTTTATGTATTTGAAAAACGGGGATCGACTTTGAGAATG 1 GGAGTCGCCAAGCTGTCGAAACCATTTTTTATGTATTTGAAAAACGGGGATCGACTTTGAGAATG 34426087 AAAATG 66 AAAATG 34426093 GGAGTCGCCAAGCTGTCGAAACCATTTTTTATGTATTTGAAAAACGGGGATCGACTTTGAGAATG 1 GGAGTCGCCAAGCTGTCGAAACCATTTTTTATGTATTTGAAAAACGGGGATCGACTTTGAGAATG 34426158 AAAATG 66 AAAATG 34426164 GGAGTCGCCA 1 GGAGTCGCCA 34426174 CCGATCTTTT Statistics Matches: 81, Mismatches: 0, Indels: 0 1.00 0.00 0.00 Matches are distributed among these distances: 71 81 1.00 ACGTcount: A:0.32, C:0.15, G:0.26, T:0.27 Consensus pattern (71 bp): GGAGTCGCCAAGCTGTCGAAACCATTTTTTATGTATTTGAAAAACGGGGATCGACTTTGAGAATG AAAATG Found at i:34427686 original size:2 final size:2 Alignment explanation
Indices: 34427630--34427666 Score: 65 Period size: 2 Copynumber: 18.5 Consensus size: 2 34427620 AGTAAATAAG * 34427630 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA AA TA T 1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T 34427667 GAAAATAAGT Statistics Matches: 33, Mismatches: 2, Indels: 0 0.94 0.06 0.00 Matches are distributed among these distances: 2 33 1.00 ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49 Consensus pattern (2 bp): TA Found at i:34433234 original size:20 final size:21 Alignment explanation
Indices: 34433208--34433250 Score: 59 Period size: 22 Copynumber: 2.0 Consensus size: 21 34433198 CGGCAAAAGT * * 34433208 TTTTTAAAATTGTATTATAAA 1 TTTTAAAAATTATATTATAAA 34433229 TTTTAAAAAATTATATTATAAA 1 TTTT-AAAAATTATATTATAAA 34433251 AAATATTTTA Statistics Matches: 19, Mismatches: 2, Indels: 1 0.86 0.09 0.05 Matches are distributed among these distances: 21 4 0.21 22 15 0.79 ACGTcount: A:0.49, C:0.00, G:0.02, T:0.49 Consensus pattern (21 bp): TTTTAAAAATTATATTATAAA Found at i:34433593 original size:16 final size:14 Alignment explanation
Indices: 34433572--34433605 Score: 50 Period size: 14 Copynumber: 2.3 Consensus size: 14 34433562 ATCATTTTTT 34433572 TTATAAATGTTATATA 1 TTATAAAT-TT-TATA 34433588 TTATAAATTTTATA 1 TTATAAATTTTATA 34433602 TTAT 1 TTAT 34433606 TTTTACCTAA Statistics Matches: 18, Mismatches: 0, Indels: 2 0.90 0.00 0.10 Matches are distributed among these distances: 14 8 0.44 15 2 0.11 16 8 0.44 ACGTcount: A:0.41, C:0.00, G:0.03, T:0.56 Consensus pattern (14 bp): TTATAAATTTTATA Found at i:34437861 original size:56 final size:59 Alignment explanation
Indices: 34437788--34437902 Score: 176 Period size: 61 Copynumber: 1.9 Consensus size: 59 34437778 ACTATTCCAA * * * * 34437788 AAATAATATTATTTTAATAGTTTTAATATTAAATTTAATTTAATATTTATCTTGTAGAT 1 AAATATTATTAATTTAATAGATTTAATATTAAATTTAATCTAATATTTATCTTGTAGAT 34437847 AAATATTCTATTAATTTAATAGATTTAATATTAAATTTAATCTAATATTTATCTTG 1 AAATA-T-TATTAATTTAATAGATTTAATATTAAATTTAATCTAATATTTATCTTG 34437903 ACAAGTATTG Statistics Matches: 50, Mismatches: 4, Indels: 2 0.89 0.07 0.04 Matches are distributed among these distances: 59 5 0.10 61 45 0.90 ACGTcount: A:0.41, C:0.03, G:0.04, T:0.51 Consensus pattern (59 bp): AAATATTATTAATTTAATAGATTTAATATTAAATTTAATCTAATATTTATCTTGTAGAT Found at i:34437945 original size:58 final size:60 Alignment explanation
Indices: 34437794--34437951 Score: 162 Period size: 61 Copynumber: 2.6 Consensus size: 60 34437784 CCAAAAATAA * * * * * 34437794 TATTATTTTAATAGTTTTAATATTAAATTTAATTTAATATTTATCTTGTAGATAAATATTC 1 TATTAATTTAATA-ATTAAATATTAAATTTAATCTAATATTTATCTTGTAGACAAATATTC * * * 34437855 TATTAATTTAATAGATTTAATATTAAATTTAATCTAATATTTATC-T-T-GACAAGTATTG 1 TATTAATTTAATA-ATTAAATATTAAATTTAATCTAATATTTATCTTGTAGACAAATATTC * 34437913 TATTAATTTAAT-ATTAAAGTGATTAAGTTTAATCATAAT 1 TATTAATTTAATAATTAAA-T-ATTAAATTTAATC-TAAT 34437952 TGAACTTTAT Statistics Matches: 86, Mismatches: 8, Indels: 8 0.84 0.08 0.08 Matches are distributed among these distances: 56 5 0.06 57 1 0.01 58 32 0.37 59 5 0.06 60 1 0.01 61 42 0.49 ACGTcount: A:0.40, C:0.04, G:0.06, T:0.50 Consensus pattern (60 bp): TATTAATTTAATAATTAAATATTAAATTTAATCTAATATTTATCTTGTAGACAAATATTC Found at i:34441908 original size:61 final size:60 Alignment explanation
Indices: 34441833--34441957 Score: 214 Period size: 61 Copynumber: 2.1 Consensus size: 60 34441823 GGATGCGAAC ** 34441833 TATGATGAGTAAAATAGACGGATGACGTTTAGTGAAACAATGATGTTTAGTTTAAGAAAAA 1 TATGATGAGTAAAATAGACGGATGACGTTTAGTGAAACAATGAACTTTAGTTTAAG-AAAA * 34441894 TATGATGAGTAAAATAGACGGGTGACGTTTAGTGAAACAATGAACTTTAGTTTAAGAAAA 1 TATGATGAGTAAAATAGACGGATGACGTTTAGTGAAACAATGAACTTTAGTTTAAGAAAA 34441954 TATG 1 TATG 34441958 GCAAACTTTA Statistics Matches: 61, Mismatches: 3, Indels: 1 0.94 0.05 0.02 Matches are distributed among these distances: 60 8 0.13 61 53 0.87 ACGTcount: A:0.42, C:0.06, G:0.23, T:0.30 Consensus pattern (60 bp): TATGATGAGTAAAATAGACGGATGACGTTTAGTGAAACAATGAACTTTAGTTTAAGAAAA Found at i:34445008 original size:30 final size:31 Alignment explanation
Indices: 34444974--34445044 Score: 90 Period size: 30 Copynumber: 2.3 Consensus size: 31 34444964 TTGCCCAAGA * * 34444974 GTAAATATTTAAAATTTGAGGGGTTAA-AGT 1 GTAAATATTTAAAATTTGAAGGATTAATAGT ** * 34445004 GTAAATATGAAAAATTTGAAGGATTAATTGT 1 GTAAATATTTAAAATTTGAAGGATTAATAGT 34445035 GTAAATATTT 1 GTAAATATTT 34445045 TAAGGGTGGA Statistics Matches: 33, Mismatches: 7, Indels: 1 0.80 0.17 0.02 Matches are distributed among these distances: 30 23 0.70 31 10 0.30 ACGTcount: A:0.42, C:0.00, G:0.20, T:0.38 Consensus pattern (31 bp): GTAAATATTTAAAATTTGAAGGATTAATAGT Found at i:34448475 original size:11 final size:11 Alignment explanation
Indices: 34448430--34448475 Score: 53 Period size: 11 Copynumber: 4.4 Consensus size: 11 34448420 ACTATTCAAT 34448430 TTAATTTAATA 1 TTAATTTAATA * 34448441 CTAATATTAATA 1 TTAAT-TTAATA 34448453 TT-ATTT--TA 1 TTAATTTAATA 34448461 TTAATTTAATA 1 TTAATTTAATA 34448472 TTAA 1 TTAA 34448476 AGTAATTATC Statistics Matches: 29, Mismatches: 2, Indels: 8 0.74 0.05 0.21 Matches are distributed among these distances: 8 4 0.14 9 4 0.14 10 2 0.07 11 12 0.41 12 7 0.24 ACGTcount: A:0.43, C:0.02, G:0.00, T:0.54 Consensus pattern (11 bp): TTAATTTAATA Found at i:34448483 original size:20 final size:18 Alignment explanation
Indices: 34448422--34448509 Score: 67 Period size: 20 Copynumber: 4.8 Consensus size: 18 34448412 ATATTTTTAC 34448422 TATTCAATTTAAT-TT-AA 1 TATT-AATTTAATATTAAA * ** 34448439 TACTAATATTAATATTATTT 1 TATTAAT-TTAATATTA-AA 34448459 TATTAATTTAATATTAAA 1 TATTAATTTAATATTAAA 34448477 GTAATT-ATCTTAATATTAAA 1 -T-ATTAAT-TTAATATTAAA 34448497 T-TTAATTTAATAT 1 TATTAATTTAATAT 34448510 CTATCTTGTT Statistics Matches: 57, Mismatches: 6, Indels: 16 0.72 0.08 0.20 Matches are distributed among these distances: 16 3 0.05 17 17 0.30 18 4 0.07 19 13 0.23 20 20 0.35 ACGTcount: A:0.43, C:0.03, G:0.01, T:0.52 Consensus pattern (18 bp): TATTAATTTAATATTAAA Found at i:34456689 original size:18 final size:18 Alignment explanation
Indices: 34456658--34456707 Score: 66 Period size: 18 Copynumber: 2.8 Consensus size: 18 34456648 TAAAAAAAAC * 34456658 ATTTTGAAATTGAATAAT 1 ATTTTGAAAATGAATAAT * 34456676 GA-TTTGTAAATGAATAAT 1 -ATTTTGAAAATGAATAAT 34456694 ATTTTGAAAATGAA 1 ATTTTGAAAATGAA 34456708 CGACATGATT Statistics Matches: 27, Mismatches: 3, Indels: 3 0.82 0.09 0.09 Matches are distributed among these distances: 17 1 0.04 18 25 0.93 19 1 0.04 ACGTcount: A:0.46, C:0.00, G:0.14, T:0.40 Consensus pattern (18 bp): ATTTTGAAAATGAATAAT Found at i:34464387 original size:21 final size:21 Alignment explanation
Indices: 34464362--34464437 Score: 73 Period size: 21 Copynumber: 3.6 Consensus size: 21 34464352 TAAAAAGTTA * 34464362 TATGTTATGTATGATCTGTG-T 1 TATGTTAAGTATGATCTG-GAT * * 34464383 TATGTTAAATATGATCAGGAT 1 TATGTTAAGTATGATCTGGAT * ** 34464404 TATGTAAAGTATGATCTATAT 1 TATGTTAAGTATGATCTGGAT * 34464425 TATGGTAAGTATG 1 TATGTTAAGTATG 34464438 TATGAATCTA Statistics Matches: 44, Mismatches: 10, Indels: 2 0.79 0.18 0.04 Matches are distributed among these distances: 20 1 0.02 21 43 0.98 ACGTcount: A:0.32, C:0.04, G:0.21, T:0.43 Consensus pattern (21 bp): TATGTTAAGTATGATCTGGAT Found at i:34464689 original size:20 final size:20 Alignment explanation
Indices: 34464661--34464702 Score: 50 Period size: 20 Copynumber: 2.1 Consensus size: 20 34464651 TAACAAAATC * 34464661 TCAAAACTGTCACATA-GGTA 1 TCAAAACTGACAC-TAGGGTA * 34464681 TCAATACTGACACTAGGGTA 1 TCAAAACTGACACTAGGGTA 34464701 TC 1 TC 34464703 GATATTTTCT Statistics Matches: 19, Mismatches: 2, Indels: 2 0.83 0.09 0.09 Matches are distributed among these distances: 19 2 0.11 20 17 0.89 ACGTcount: A:0.36, C:0.21, G:0.17, T:0.26 Consensus pattern (20 bp): TCAAAACTGACACTAGGGTA Found at i:34465610 original size:39 final size:38 Alignment explanation
Indices: 34465550--34465699 Score: 169 Period size: 39 Copynumber: 3.9 Consensus size: 38 34465540 AATATCAAGA * * 34465550 ATATATGACAATACTC-AATAATCACATAACATCTAAGC 1 ATATATCACAATACTCGTATAATCACATAACAT-TAAGC * * * 34465588 ATATATCACAATTCACGTATAAT-ATCATAACATTCAAAC 1 ATATATCACAATACTCGTATAATCA-CATAACATT-AAGC * * * 34465627 ATATATAACAATACTCATATAATCGCATAACATTTAAGC 1 ATATATCACAATACTCGTATAATCACATAACA-TTAAGC * 34465666 ATATATCACAATACTCGTTTAATCACATAACATT 1 ATATATCACAATACTCGTATAATCACATAACATT 34465700 CATAATTTAA Statistics Matches: 92, Mismatches: 15, Indels: 10 0.79 0.13 0.09 Matches are distributed among these distances: 38 17 0.18 39 73 0.79 40 2 0.02 ACGTcount: A:0.45, C:0.20, G:0.04, T:0.31 Consensus pattern (38 bp): ATATATCACAATACTCGTATAATCACATAACATTAAGC Found at i:34465695 original size:78 final size:77 Alignment explanation
Indices: 34465550--34465701 Score: 225 Period size: 78 Copynumber: 2.0 Consensus size: 77 34465540 AATATCAAGA * * 34465550 ATATATGACAATACTCAATAATCACATAACATCTAAGCATATATCACAATTCACGTATAATATCA 1 ATATATAACAATACTCAATAATCACATAACATCTAAGCATATATCACAATACACGTATAATATCA 34465615 TAACATTCAAAC 66 TAACATTCAAAC * * * * 34465627 ATATATAACAATACTCATATAATCGCATAACATTTAAGCATATATCACAATACTCGTTTAATCA- 1 ATATATAACAATACTCA-ATAATCACATAACATCTAAGCATATATCACAATACACGTATAAT-AT 34465691 CATAACATTCA 64 CATAACATTCA 34465702 TAATTTAAGA Statistics Matches: 67, Mismatches: 6, Indels: 3 0.88 0.08 0.04 Matches are distributed among these distances: 77 16 0.24 78 50 0.75 79 1 0.01 ACGTcount: A:0.45, C:0.20, G:0.04, T:0.30 Consensus pattern (77 bp): ATATATAACAATACTCAATAATCACATAACATCTAAGCATATATCACAATACACGTATAATATCA TAACATTCAAAC Found at i:34473530 original size:88 final size:87 Alignment explanation
Indices: 34473381--34473923 Score: 694 Period size: 88 Copynumber: 6.2 Consensus size: 87 34473371 TGGGGTCTTC * * * * 34473381 GATCTGCTATTTTCAACCTGCTCCGCTGCAACCCAGGGAGGCAAGGCTAGTGTCTTCGATCTGCT 1 GATCTGCTATCTTCAACCTGCTCCACTGCAACTCAGGGAGGCAAGGCTGGTGTCTTCGATCTGCT * * 34473446 TCATTGTCAGTACAGGAAGGCAA 66 TCACTGTC-GTGCAGGAAGGCAA * * * 34473469 GATCTGATATCTTCAACCTGCTCCACTGCAACTCAGGGAGGCAAGGTTGGTATCTTCGATCTGCT 1 GATCTGCTATCTTCAACCTGCTCCACTGCAACTCAGGGAGGCAAGGCTGGTGTCTTCGATCTGCT * * 34473534 TCGCTGTCGATGCAAGAAGGCAA 66 TCACTGTCG-TGCAGGAAGGCAA * * * 34473557 GATCTGCTATCTTTAACCTGCTCCACTGCAACTGAGGGAGGCAAGGCTGGTGTCTTCGATCTACT 1 GATCTGCTATCTTCAACCTGCTCCACTGCAACTCAGGGAGGCAAGGCTGGTGTCTTCGATCTGCT * * 34473622 TCACTATCGGTGCAAGAAGGCAA 66 TCACTGTC-GTGCAGGAAGGCAA * * * * * 34473645 GATCTGCTATTTTTAACTTGCTCCACTGTAA-TCGAGGGAGGCAAGGCTGGTGTCTTTGATCTGC 1 GATCTGCTATCTTCAACCTGCTCCACTGCAACTC-AGGGAGGCAAGGCTGGTGTCTTCGATCTGC * 34473709 TTCACTGTCAGTACAGGAAGGCAA 65 TTCACTGTC-GTGCAGGAAGGCAA * * * * 34473733 GATCTGCTATCTTCAACCTCCTCCACTGCAACCCAGGGAGGCAAGGCTGATATCTTCGATCTGCT 1 GATCTGCTATCTTCAACCTGCTCCACTGCAACTCAGGGAGGCAAGGCTGGTGTCTTCGATCTGCT ** 34473798 TCGTTGTCGATGCAGGAAGGCAA 66 TCACTGTCG-TGCAGGAAGGCAA * * * * 34473821 GATCTGCTATCTTCAACCTGCTCCACTGTAAC-CAAGGGAAGCAAGGCTAGTGTCTTCAATCTGC 1 GATCTGCTATCTTCAACCTGCTCCACTGCAACTC-AGGGAGGCAAGGCTGGTGTCTTCGATCTGC * 34473885 TTCACTGTCGGTGCAGGAAAGCAA 65 TTCACTGTC-GTGCAGGAAGGCAA * 34473909 GATATGCTATCTTCA 1 GATCTGCTATCTTCA 34473924 CTGATCTATT Statistics Matches: 396, Mismatches: 52, Indels: 14 0.86 0.11 0.03 Matches are distributed among these distances: 87 4 0.01 88 389 0.98 89 3 0.01 ACGTcount: A:0.24, C:0.25, G:0.24, T:0.27 Consensus pattern (87 bp): GATCTGCTATCTTCAACCTGCTCCACTGCAACTCAGGGAGGCAAGGCTGGTGTCTTCGATCTGCT TCACTGTCGTGCAGGAAGGCAA Found at i:34473867 original size:264 final size:264 Alignment explanation
Indices: 34473381--34473923 Score: 825 Period size: 264 Copynumber: 2.1 Consensus size: 264 34473371 TGGGGTCTTC * 34473381 GATCTGCTATTTTCAACCTGCTCCGCTGCAACCCAGGGAGGCAAGGCTAGTGTCTTCGATCTGCT 1 GATCTGCTATTTTCAACCTGCTCCACTGCAACCCAGGGAGGCAAGGCTAGTGTCTTCGATCTGCT * * * 34473446 TCATTGTCAGTACAGGAAGGCAAGATCTGATATCTTCAACCTGCTCCACTGCAACTCAGGGAGGC 66 TCACTGTCAGTACAGGAAGGCAAGATCTGATATCTTCAACCTCCTCCACTGCAACCCAGGGAGGC * * * 34473511 AAGGTTGGTATCTTCGATCTGCTTCGCTGTCGATGCAAGAAGGCAAGATCTGCTATCTTTAACCT 131 AAGGCTGATATCTTCGATCTGCTTCGCTGTCGATGCAAGAAGGCAAGATCTGCTATCTTCAACCT ** * * * * 34473576 GCTCCACTGCAACTGAGGGAGGCAAGGCTGGTGTCTTCGATCTACTTCACTATCGGTGCAAGAAG 196 GCTCCACTGCAACCAAGGGAAGCAAGGCTAGTGTCTTCAATCTACTTCACTATCGGTGCAAGAAA 34473641 GCAA 261 GCAA * * * * * * * 34473645 GATCTGCTATTTTTAACTTGCTCCACTGTAATCGAGGGAGGCAAGGCTGGTGTCTTTGATCTGCT 1 GATCTGCTATTTTCAACCTGCTCCACTGCAACCCAGGGAGGCAAGGCTAGTGTCTTCGATCTGCT * 34473710 TCACTGTCAGTACAGGAAGGCAAGATCTGCTATCTTCAACCTCCTCCACTGCAACCCAGGGAGGC 66 TCACTGTCAGTACAGGAAGGCAAGATCTGATATCTTCAACCTCCTCCACTGCAACCCAGGGAGGC * * 34473775 AAGGCTGATATCTTCGATCTGCTTCGTTGTCGATGCAGGAAGGCAAGATCTGCTATCTTCAACCT 131 AAGGCTGATATCTTCGATCTGCTTCGCTGTCGATGCAAGAAGGCAAGATCTGCTATCTTCAACCT * * * * 34473840 GCTCCACTGTAACCAAGGGAAGCAAGGCTAGTGTCTTCAATCTGCTTCACTGTCGGTGCAGGAAA 196 GCTCCACTGCAACCAAGGGAAGCAAGGCTAGTGTCTTCAATCTACTTCACTATCGGTGCAAGAAA 34473905 GCAA 261 GCAA * * 34473909 GATATGCTATCTTCA 1 GATCTGCTATTTTCA 34473924 CTGATCTATT Statistics Matches: 249, Mismatches: 30, Indels: 0 0.89 0.11 0.00 Matches are distributed among these distances: 264 249 1.00 ACGTcount: A:0.24, C:0.25, G:0.24, T:0.27 Consensus pattern (264 bp): GATCTGCTATTTTCAACCTGCTCCACTGCAACCCAGGGAGGCAAGGCTAGTGTCTTCGATCTGCT TCACTGTCAGTACAGGAAGGCAAGATCTGATATCTTCAACCTCCTCCACTGCAACCCAGGGAGGC AAGGCTGATATCTTCGATCTGCTTCGCTGTCGATGCAAGAAGGCAAGATCTGCTATCTTCAACCT GCTCCACTGCAACCAAGGGAAGCAAGGCTAGTGTCTTCAATCTACTTCACTATCGGTGCAAGAAA GCAA Found at i:34475200 original size:15 final size:16 Alignment explanation
Indices: 34475176--34475207 Score: 57 Period size: 15 Copynumber: 2.1 Consensus size: 16 34475166 GGCCTCTCCA 34475176 TTTTCTTTTTTCTTCT 1 TTTTCTTTTTTCTTCT 34475192 TTTTC-TTTTTCTTCT 1 TTTTCTTTTTTCTTCT 34475207 T 1 T 34475208 CATTATCTTT Statistics Matches: 16, Mismatches: 0, Indels: 1 0.94 0.00 0.06 Matches are distributed among these distances: 15 11 0.69 16 5 0.31 ACGTcount: A:0.00, C:0.19, G:0.00, T:0.81 Consensus pattern (16 bp): TTTTCTTTTTTCTTCT Found at i:34475224 original size:24 final size:24 Alignment explanation
Indices: 34475189--34475235 Score: 60 Period size: 24 Copynumber: 2.0 Consensus size: 24 34475179 TCTTTTTTCT * * 34475189 TCTTTTTCTTTTTCTTCTTCATTA 1 TCTTTTTCTTTTTATTCATCATTA 34475213 TCTTTATT-TTTTTATTCATCATT 1 TCTTT-TTCTTTTTATTCATCATT 34475236 TTTTTGAAAT Statistics Matches: 20, Mismatches: 2, Indels: 2 0.83 0.08 0.08 Matches are distributed among these distances: 24 18 0.90 25 2 0.10 ACGTcount: A:0.13, C:0.17, G:0.00, T:0.70 Consensus pattern (24 bp): TCTTTTTCTTTTTATTCATCATTA Found at i:34486246 original size:21 final size:20 Alignment explanation
Indices: 34486222--34486287 Score: 78 Period size: 21 Copynumber: 3.1 Consensus size: 20 34486212 AATAAGTTAG * 34486222 ATGTTAAGTATGATCTGTGTT 1 ATGTTAAGTATGAT-TGTATT * 34486243 ATGTTAAATATGATTAGTATT 1 ATGTTAAGTATGATT-GTATT * 34486264 ATGTAAAGTATGATTTGTATT 1 ATGTTAAGTATGA-TTGTATT 34486285 ATG 1 ATG 34486288 GTAACTATGT Statistics Matches: 39, Mismatches: 4, Indels: 4 0.83 0.09 0.09 Matches are distributed among these distances: 20 1 0.03 21 36 0.92 22 2 0.05 ACGTcount: A:0.32, C:0.02, G:0.20, T:0.47 Consensus pattern (20 bp): ATGTTAAGTATGATTGTATT Found at i:34486296 original size:21 final size:21 Alignment explanation
Indices: 34486230--34486301 Score: 74 Period size: 21 Copynumber: 3.4 Consensus size: 21 34486220 AGATGTTAAG * * * 34486230 TATGATCTGTGTTATGTTAAA 1 TATGATTTGTATTATGGTAAA * 34486251 TATGATTAGTATTAT-GTAAA 1 TATGATTTGTATTATGGTAAA * 34486271 GTATGATTTGTATTATGGTAAC 1 -TATGATTTGTATTATGGTAAA * 34486293 TATGTTTTG 1 TATGATTTG 34486302 AATCTGTTAT Statistics Matches: 42, Mismatches: 7, Indels: 4 0.79 0.13 0.08 Matches are distributed among these distances: 20 4 0.10 21 34 0.81 22 4 0.10 ACGTcount: A:0.29, C:0.03, G:0.19, T:0.49 Consensus pattern (21 bp): TATGATTTGTATTATGGTAAA Found at i:34488155 original size:13 final size:13 Alignment explanation
Indices: 34488137--34488161 Score: 50 Period size: 13 Copynumber: 1.9 Consensus size: 13 34488127 AATAAACTCA 34488137 AATAATTATCTTT 1 AATAATTATCTTT 34488150 AATAATTATCTT 1 AATAATTATCTT 34488162 CGAAACACAA Statistics Matches: 12, Mismatches: 0, Indels: 0 1.00 0.00 0.00 Matches are distributed among these distances: 13 12 1.00 ACGTcount: A:0.40, C:0.08, G:0.00, T:0.52 Consensus pattern (13 bp): AATAATTATCTTT Found at i:34489187 original size:18 final size:18 Alignment explanation
Indices: 34489166--34489207 Score: 50 Period size: 19 Copynumber: 2.3 Consensus size: 18 34489156 TTAAGTAATA 34489166 AAAATTGGAA-TTTATTTT 1 AAAATT-GAATTTTATTTT * 34489184 AAAACATGAATTTTATTTT 1 AAAA-TTGAATTTTATTTT 34489203 AAAAT 1 AAAAT 34489208 ATTTTTTATA Statistics Matches: 20, Mismatches: 2, Indels: 4 0.77 0.08 0.15 Matches are distributed among these distances: 18 7 0.35 19 13 0.65 ACGTcount: A:0.45, C:0.02, G:0.07, T:0.45 Consensus pattern (18 bp): AAAATTGAATTTTATTTT Found at i:34493662 original size:43 final size:43 Alignment explanation
Indices: 34493582--34493784 Score: 230 Period size: 43 Copynumber: 4.7 Consensus size: 43 34493572 AAAAAACACG * ** 34493582 GCTATAGAACATGACCTTTAGCGATGC-TTTACCTACAAACGCC 1 GCTAAAGAACATGACCTTTAGCGGCGCTTTTA-CTACAAACGCC * * * 34493625 GCTAAAGAACATGACCTTTAGCGGCACTTTTATTACAAATGCC 1 GCTAAAGAACATGACCTTTAGCGGCGCTTTTACTACAAACGCC 34493668 GCTAAAGAACATGACCTTTAGCGGCGCTTTTATCT-CAAACGCC 1 GCTAAAGAACATGACCTTTAGCGGCGCTTTTA-CTACAAACGCC * * * ** ** 34493711 ACTAAAAAACATGACCTTTAGCGGAGCTGCTACCGCAAACGCC 1 GCTAAAGAACATGACCTTTAGCGGCGCTTTTACTACAAACGCC ** * 34493754 GCTAAAGAGTATGATCTTTAGCGGCGCTTTT 1 GCTAAAGAACATGACCTTTAGCGGCGCTTTT 34493785 TAAAACAAAT Statistics Matches: 134, Mismatches: 23, Indels: 6 0.82 0.14 0.04 Matches are distributed among these distances: 42 1 0.01 43 128 0.96 44 5 0.04 ACGTcount: A:0.30, C:0.26, G:0.19, T:0.26 Consensus pattern (43 bp): GCTAAAGAACATGACCTTTAGCGGCGCTTTTACTACAAACGCC Found at i:34495469 original size:7 final size:7 Alignment explanation
Indices: 34495457--34495669 Score: 117 Period size: 7 Copynumber: 29.9 Consensus size: 7 34495447 ACTAATTAAT 34495457 CTAAACC 1 CTAAACC 34495464 CTAAACTC 1 CTAAAC-C * ** 34495472 ATATCCC 1 CTAAACC 34495479 CTAAACC 1 CTAAACC * 34495486 CTAAATC 1 CTAAACC * * 34495493 ATAAAAC 1 CTAAACC * 34495500 ATAAACC 1 CTAAACC 34495507 CTAAACC 1 CTAAACC 34495514 CTAAACC 1 CTAAACC 34495521 CTAAACC 1 CTAAACC 34495528 TCTAAACC 1 -CTAAACC 34495536 CTAAACC 1 CTAAACC * 34495543 TTAAACC 1 CTAAACC * 34495550 C-CAACC 1 CTAAACC 34495556 CTTAAACC 1 C-TAAACC * 34495564 ATAAACC 1 CTAAACC * * 34495571 ATAATCC 1 CTAAACC * ** 34495578 ATAATTC 1 CTAAACC 34495585 CTAAACC 1 CTAAACC * 34495592 CATAATCC 1 C-TAAACC * 34495600 ATAAACC 1 CTAAACC * 34495607 TTAAA-- 1 CTAAACC * 34495612 ATAGTAACTC 1 CTA--AAC-C * 34495622 TTAAACC 1 CTAAACC * 34495629 TTAAACC 1 CTAAACC * 34495636 CTAAATC 1 CTAAACC * * 34495643 ATATACC 1 CTAAACC 34495650 CTAAACC 1 CTAAACC * 34495657 ATAAACC 1 CTAAACC 34495664 CTAAAC 1 CTAAAC 34495670 TATAATGATA Statistics Matches: 160, Mismatches: 36, Indels: 20 0.74 0.17 0.09 Matches are distributed among these distances: 5 2 0.01 6 5 0.03 7 128 0.80 8 23 0.14 10 2 0.01 ACGTcount: A:0.45, C:0.33, G:0.00, T:0.22 Consensus pattern (7 bp): CTAAACC Found at i:34495511 original size:14 final size:14 Alignment explanation
Indices: 34495458--34495674 Score: 143 Period size: 14 Copynumber: 15.2 Consensus size: 14 34495448 CTAATTAATC 34495458 TAAACCCTAAACTCA 1 TAAACCCTAAAC-CA ** * 34495473 TATCCCCTAAACCC 1 TAAACCCTAAACCA * * * 34495487 TAAATCATAAAACA 1 TAAACCCTAAACCA * 34495501 TAAACCCTAAACCC 1 TAAACCCTAAACCA * 34495515 TAAACCCTAAACCTC 1 TAAACCCTAAACC-A * 34495530 TAAACCCTAAACCT 1 TAAACCCTAAACCA * * * 34495544 TAAACCCCAACCCT 1 TAAACCCTAAACCA * 34495558 TAAACCATAAACCA 1 TAAACCCTAAACCA * * * 34495572 TAATCCATAATTCC- 1 TAAACCCTAA-ACCA * 34495586 TAAACCCATAATCCA 1 TAAACCC-TAAACCA * 34495601 TAAACCTTAAA--A 1 TAAACCCTAAACCA * * 34495613 TAGTAACTCTTAAACCT 1 TA--AAC-CCTAAACCA * 34495630 TAAACCCTAAATCA 1 TAAACCCTAAACCA * 34495644 TATACCCTAAACCA 1 TAAACCCTAAACCA * 34495658 TAAACCCTAAACTA 1 TAAACCCTAAACCA 34495672 TAA 1 TAA 34495675 TGATAATTAA Statistics Matches: 159, Mismatches: 34, Indels: 19 0.75 0.16 0.09 Matches are distributed among these distances: 12 3 0.02 14 110 0.69 15 44 0.28 17 2 0.01 ACGTcount: A:0.45, C:0.32, G:0.00, T:0.22 Consensus pattern (14 bp): TAAACCCTAAACCA Found at i:34495547 original size:29 final size:28 Alignment explanation
Indices: 34495502--34495570 Score: 86 Period size: 29 Copynumber: 2.4 Consensus size: 28 34495492 CATAAAACAT * 34495502 AAACCCTAAACCCTAAACCCTAAACCTCT 1 AAACCCTAAA-CCTAAACCCCAAACCTCT * 34495531 AAACCCTAAACCTTAAACCCCAACCCT-T 1 AAACCCTAAACC-TAAACCCCAAACCTCT * 34495559 AAACCATAAACC 1 AAACCCTAAACC 34495571 ATAATCCATA Statistics Matches: 36, Mismatches: 3, Indels: 3 0.86 0.07 0.07 Matches are distributed among these distances: 28 14 0.39 29 22 0.61 ACGTcount: A:0.43, C:0.41, G:0.00, T:0.16 Consensus pattern (28 bp): AAACCCTAAACCTAAACCCCAAACCTCT Found at i:34495596 original size:15 final size:15 Alignment explanation
Indices: 34495558--34495606 Score: 50 Period size: 15 Copynumber: 3.4 Consensus size: 15 34495548 CCCCAACCCT * 34495558 TAAA-CCATAAACCA 1 TAAACCCATAATCCA * 34495572 T-AATCCATAATTCC- 1 TAAACCCATAA-TCCA 34495586 TAAACCCATAATCCA 1 TAAACCCATAATCCA 34495601 TAAACC 1 TAAACC 34495607 TTAAAATAGT Statistics Matches: 29, Mismatches: 2, Indels: 7 0.76 0.05 0.18 Matches are distributed among these distances: 13 2 0.07 14 11 0.38 15 16 0.55 ACGTcount: A:0.47, C:0.31, G:0.00, T:0.22 Consensus pattern (15 bp): TAAACCCATAATCCA Found at i:34496145 original size:40 final size:40 Alignment explanation
Indices: 34496085--34496175 Score: 128 Period size: 40 Copynumber: 2.3 Consensus size: 40 34496075 TATAGGTAGC * 34496085 GCCGCTAATGGTCGACCTATAGCAGCGTTTTTCAAAAAGT 1 GCCGCTAATGCTCGACCTATAGCAGCGTTTTTCAAAAAGT * * * * 34496125 GCCGGTAATGCTCGATCTATAGCTGCGTTTTTCAAAAAGC 1 GCCGCTAATGCTCGACCTATAGCAGCGTTTTTCAAAAAGT * 34496165 GCCACTAATGC 1 GCCGCTAATGC 34496176 CATTAAAGCT Statistics Matches: 44, Mismatches: 7, Indels: 0 0.86 0.14 0.00 Matches are distributed among these distances: 40 44 1.00 ACGTcount: A:0.26, C:0.24, G:0.22, T:0.27 Consensus pattern (40 bp): GCCGCTAATGCTCGACCTATAGCAGCGTTTTTCAAAAAGT Found at i:34496244 original size:106 final size:106 Alignment explanation
Indices: 34496109--34496386 Score: 396 Period size: 106 Copynumber: 2.6 Consensus size: 106 34496099 ACCTATAGCA * * * * 34496109 GCGTTTTTCAAAAAGTGCCGGTAATGCTCGATCTATAGCTGCGTTTTTCAAAAAGCGCCACTAAT 1 GCGTTTTTCAAAAAGCGCCGCTAATGCTCGATCTATAGCGGCGTTTTTCAAAAAGCGCCGCTAAT * * 34496174 GCCATTAAAGCTCAATATAAAACGTGCTTAATTTTTTTGTG 66 GCCACTAAAGCTCAATATAAAACGTGCTTAATTTTTTTGCG * * 34496215 GCGTTTTTCAAGAAGCGCCGCTAATGCTCGATCTATAGCGGC-TTTTTCCAAAAAGCGACGCTAA 1 GCGTTTTTCAAAAAGCGCCGCTAATGCTCGATCTATAGCGGCGTTTTT-CAAAAAGCGCCGCTAA * 34496279 TGCCACTAAAGCTTAATATAAAACGTGCTTAATTTTTTTGCG 65 TGCCACTAAAGCTCAATATAAAACGTGCTTAATTTTTTTGCG * ** * * * * 34496321 GTGTTTTTCAAAAAGCATCGCTAATGGTCGACCTATAGCGGTGTTTTTCAAAAAGCACCGCTAAT 1 GCGTTTTTCAAAAAGCGCCGCTAATGCTCGATCTATAGCGGCGTTTTTCAAAAAGCGCCGCTAAT 34496386 G 66 G 34496387 GTCAACCTAT Statistics Matches: 152, Mismatches: 18, Indels: 4 0.87 0.10 0.02 Matches are distributed among these distances: 105 5 0.03 106 142 0.93 107 5 0.03 ACGTcount: A:0.29, C:0.20, G:0.19, T:0.32 Consensus pattern (106 bp): GCGTTTTTCAAAAAGCGCCGCTAATGCTCGATCTATAGCGGCGTTTTTCAAAAAGCGCCGCTAAT GCCACTAAAGCTCAATATAAAACGTGCTTAATTTTTTTGCG Found at i:34496373 original size:40 final size:40 Alignment explanation
Indices: 34496318--34496416 Score: 171 Period size: 40 Copynumber: 2.5 Consensus size: 40 34496308 TAATTTTTTT * * 34496318 GCGGTGTTTTTCAAAAAGCATCGCTAATGGTCGACCTATA 1 GCGGTGTTTTTCAAAAAGCACCGCTAATGGTCAACCTATA 34496358 GCGGTGTTTTTCAAAAAGCACCGCTAATGGTCAACCTATA 1 GCGGTGTTTTTCAAAAAGCACCGCTAATGGTCAACCTATA * 34496398 GCGGCGTTTTTCAAAAAGC 1 GCGGTGTTTTTCAAAAAGC 34496417 CCTAAGCGCC Statistics Matches: 56, Mismatches: 3, Indels: 0 0.95 0.05 0.00 Matches are distributed among these distances: 40 56 1.00 ACGTcount: A:0.28, C:0.21, G:0.22, T:0.28 Consensus pattern (40 bp): GCGGTGTTTTTCAAAAAGCACCGCTAATGGTCAACCTATA Found at i:34503931 original size:3 final size:3 Alignment explanation
Indices: 34503925--34503979 Score: 101 Period size: 3 Copynumber: 18.3 Consensus size: 3 34503915 ATCATCGAAG * 34503925 GTA GTA GTA GTA GTA GTA GTC GTA GTA GTA GTA GTA GTA GTA GTA GTA 1 GTA GTA GTA GTA GTA GTA GTA GTA GTA GTA GTA GTA GTA GTA GTA GTA 34503973 GTA GTA G 1 GTA GTA G 34503980 AAGTTGAAGT Statistics Matches: 50, Mismatches: 2, Indels: 0 0.96 0.04 0.00 Matches are distributed among these distances: 3 50 1.00 ACGTcount: A:0.31, C:0.02, G:0.35, T:0.33 Consensus pattern (3 bp): GTA Found at i:34513433 original size:18 final size:18 Alignment explanation
Indices: 34513403--34513450 Score: 55 Period size: 18 Copynumber: 2.7 Consensus size: 18 34513393 TGTCGTTCGT 34513403 TTTCAAAAT-ATTATTC-A 1 TTTC-AAATCATTATTCAA 34513420 TTTACAAATCATTATTCAA 1 TTT-CAAATCATTATTCAA * 34513439 TTTCAAAACATT 1 TTTCAAATCATT 34513451 TTTTTTTTAT Statistics Matches: 27, Mismatches: 1, Indels: 5 0.82 0.03 0.15 Matches are distributed among these distances: 17 7 0.26 18 16 0.59 19 4 0.15 ACGTcount: A:0.42, C:0.15, G:0.00, T:0.44 Consensus pattern (18 bp): TTTCAAATCATTATTCAA Found at i:34514418 original size:17 final size:18 Alignment explanation
Indices: 34514386--34514420 Score: 54 Period size: 17 Copynumber: 2.0 Consensus size: 18 34514376 CCATGATGTT 34514386 CGCCCGTGTGGGCCCACA 1 CGCCCGTGTGGGCCCACA * 34514404 CGCCCTTGT-GGCCCACA 1 CGCCCGTGTGGGCCCACA 34514421 TGACCCAAAT Statistics Matches: 16, Mismatches: 1, Indels: 1 0.89 0.06 0.06 Matches are distributed among these distances: 17 8 0.50 18 8 0.50 ACGTcount: A:0.11, C:0.46, G:0.29, T:0.14 Consensus pattern (18 bp): CGCCCGTGTGGGCCCACA Found at i:34522198 original size:28 final size:28 Alignment explanation
Indices: 34522167--34522262 Score: 156 Period size: 28 Copynumber: 3.4 Consensus size: 28 34522157 ATAAGTTCAG * * * * 34522167 ACACTTAGTGCTTAATAATCAAACTCAC 1 ACACTTAGTGCTTTACAATTAAACTCGC 34522195 ACACTTAGTGCTTTACAATTAAACTCGC 1 ACACTTAGTGCTTTACAATTAAACTCGC 34522223 ACACTTAGTGCTTTACAATTAAACTCGC 1 ACACTTAGTGCTTTACAATTAAACTCGC 34522251 ACACTTAGTGCT 1 ACACTTAGTGCT 34522263 AATCTCATTA Statistics Matches: 64, Mismatches: 4, Indels: 0 0.94 0.06 0.00 Matches are distributed among these distances: 28 64 1.00 ACGTcount: A:0.33, C:0.25, G:0.10, T:0.31 Consensus pattern (28 bp): ACACTTAGTGCTTTACAATTAAACTCGC Found at i:34524676 original size:14 final size:14 Alignment explanation
Indices: 34524657--34524686 Score: 51 Period size: 14 Copynumber: 2.1 Consensus size: 14 34524647 CATTTCACTA * 34524657 TTATGTCTTTTTAT 1 TTATGTCTTTATAT 34524671 TTATGTCTTTATAT 1 TTATGTCTTTATAT 34524685 TT 1 TT 34524687 TGCATGAATA Statistics Matches: 15, Mismatches: 1, Indels: 0 0.94 0.06 0.00 Matches are distributed among these distances: 14 15 1.00 ACGTcount: A:0.17, C:0.07, G:0.07, T:0.70 Consensus pattern (14 bp): TTATGTCTTTATAT Found at i:34526055 original size:19 final size:19 Alignment explanation
Indices: 34526013--34526055 Score: 50 Period size: 19 Copynumber: 2.3 Consensus size: 19 34526003 ATTTTCTTAA * ** 34526013 AAATTAATTTGGAAAATCT 1 AAATTAATTTAGAAAAAAT 34526032 AAATTAATTTAGAAAAAAT 1 AAATTAATTTAGAAAAAAT * 34526051 TAATT 1 AAATT 34526056 TTGATCAAGT Statistics Matches: 20, Mismatches: 4, Indels: 0 0.83 0.17 0.00 Matches are distributed among these distances: 19 20 1.00 ACGTcount: A:0.53, C:0.02, G:0.07, T:0.37 Consensus pattern (19 bp): AAATTAATTTAGAAAAAAT Found at i:34526537 original size:37 final size:36 Alignment explanation
Indices: 34526491--34526601 Score: 115 Period size: 37 Copynumber: 3.1 Consensus size: 36 34526481 ATTCCAAAAA 34526491 TAATATTATTTTAATAGT-TTAATATTAAATTTAAT-T 1 TAATATTATTTTAATAGTATT-ATATT-AATTTAATAT * 34526527 TAATACTTATTTTAATAGTATTTTATTAATTTAATAT 1 TAATA-TTATTTTAATAGTATTATATTAATTTAATAT ** 34526564 TAA-ATTTAATGATAA-A-TATTATATTAATTTAATAT 1 TAATA-TT-ATTTTAATAGTATTATATTAATTTAATAT 34526599 TAA 1 TAA 34526602 AGTCATTAAG Statistics Matches: 66, Mismatches: 5, Indels: 9 0.82 0.06 0.11 Matches are distributed among these distances: 35 21 0.32 36 17 0.26 37 26 0.39 38 2 0.03 ACGTcount: A:0.43, C:0.01, G:0.03, T:0.53 Consensus pattern (36 bp): TAATATTATTTTAATAGTATTATATTAATTTAATAT Found at i:34526564 original size:11 final size:11 Alignment explanation
Indices: 34526491--34526601 Score: 79 Period size: 12 Copynumber: 9.8 Consensus size: 11 34526481 ATTCCAAAAA * 34526491 TAATATTATTT 1 TAATATTAATT 34526502 TAATAGTTTAATAT 1 TAATA--TTAAT-T 34526516 TAA-ATTTAATT 1 TAATA-TTAATT * 34526527 TAATACTTATTT 1 TAATA-TTAATT * 34526539 TAATAGT-ATT 1 TAATATTAATT 34526549 T--TATTAATT 1 TAATATTAATT 34526558 TAATATTAAATT 1 TAATATT-AATT * 34526570 TAATGATAAATAT 1 TAAT-ATTAAT-T 34526583 T-ATATTAATT 1 TAATATTAATT 34526593 TAATATTAA 1 TAATATTAA 34526602 AGTCATTAAG Statistics Matches: 81, Mismatches: 8, Indels: 22 0.73 0.07 0.20 Matches are distributed among these distances: 8 3 0.04 9 4 0.05 10 5 0.06 11 26 0.32 12 30 0.37 13 9 0.11 14 4 0.05 ACGTcount: A:0.43, C:0.01, G:0.03, T:0.53 Consensus pattern (11 bp): TAATATTAATT Found at i:34530367 original size:29 final size:28 Alignment explanation
Indices: 34530310--34530375 Score: 87 Period size: 29 Copynumber: 2.3 Consensus size: 28 34530300 TACATAGTAC * 34530310 ATATATATGTGCGGTTCTGCTATACATA 1 ATATATATGTGCGGTTCTACTATACATA * * * 34530338 ATATATATGTGTGAGTTCTATTATATATA 1 ATATATATGTGCG-GTTCTACTATACATA 34530367 ATATATATG 1 ATATATATG 34530376 CGGTTATAGG Statistics Matches: 33, Mismatches: 4, Indels: 1 0.87 0.11 0.03 Matches are distributed among these distances: 28 12 0.36 29 21 0.64 ACGTcount: A:0.33, C:0.08, G:0.15, T:0.44 Consensus pattern (28 bp): ATATATATGTGCGGTTCTACTATACATA Found at i:34542627 original size:22 final size:22 Alignment explanation
Indices: 34542585--34542651 Score: 68 Period size: 20 Copynumber: 3.0 Consensus size: 22 34542575 AATCCAAATC 34542585 AATA-AAAATTTTA-AAACATA 1 AATATAAAATTTTATAAACATA * 34542605 AA-ATAAAATTTTATAAATTATA 1 AATATAAAATTTTATAAA-CATA 34542627 AATTATAATACATTTTATAAACATA 1 AA-TATAA-A-ATTTTATAAACATA 34542652 TACATATATT Statistics Matches: 38, Mismatches: 2, Indels: 9 0.78 0.04 0.18 Matches are distributed among these distances: 19 1 0.03 20 11 0.29 21 3 0.08 22 5 0.13 24 4 0.11 25 4 0.11 26 10 0.26 ACGTcount: A:0.58, C:0.04, G:0.00, T:0.37 Consensus pattern (22 bp): AATATAAAATTTTATAAACATA Found at i:34547650 original size:14 final size:15 Alignment explanation
Indices: 34547618--34547651 Score: 52 Period size: 15 Copynumber: 2.3 Consensus size: 15 34547608 TTTCATCCGT * 34547618 TTTGGGCCATTGTAA 1 TTTGGGCCACTGTAA 34547633 TTTGGGCCACTG-AA 1 TTTGGGCCACTGTAA 34547647 TTTGG 1 TTTGG 34547652 TTTTGGGGCT Statistics Matches: 18, Mismatches: 1, Indels: 1 0.90 0.05 0.05 Matches are distributed among these distances: 14 7 0.39 15 11 0.61 ACGTcount: A:0.18, C:0.15, G:0.29, T:0.38 Consensus pattern (15 bp): TTTGGGCCACTGTAA Found at i:34548038 original size:44 final size:44 Alignment explanation
Indices: 34547946--34548574 Score: 212 Period size: 44 Copynumber: 14.3 Consensus size: 44 34547936 CTGCAACTTC * * * * * ** 34547946 AGGGAGATAGGA-TTGTCGGCTTTAATCTGCTCCACTGCAACTT 1 AGGGAGATAAGATTTGCCGTCTTCAATCTGCTCCACTACTGCTT * * 34547989 CAGGGAGATAAGATTTGCCATCTTCGATCTGCTCCACTACTGCTT 1 -AGGGAGATAAGATTTGCCGTCTTCAATCTGCTCCACTACTGCTT * * ** * * * * * * * 34548034 AGGGAGATAAGATCTACAATTTTCAATTTTCTCCGCTGCTACTC 1 AGGGAGATAAGATTTGCCGTCTTCAATCTGCTCCACTACTGCTT * ** ** * 34548078 AGGGAGACAAGGCTTGGTGGC-TCAAATCTGCTTCCCACTA-T-CTT 1 AGGGAGATAAGATTTGCCGTCTTC-AATCTGC-T-CCACTACTGCTT * * * 34548122 -GGAAAGATAAGATTCGCCGTCTTCGATCTGCTCCACTACTGCTT 1 AGG-GAGATAAGATTTGCCGTCTTCAATCTGCTCCACTACTGCTT * **** * * * * 34548166 AGGGAGATAAGATCTATAATCTTCAACCTTCTCCACTGCTGCTC 1 AGGGAGATAAGATTTGCCGTCTTCAATCTGCTCCACTACTGCTT * ** ** * 34548210 AGGGAGACAAGGCTTGGTGGC-TCAAATCTGCTTCCCACTA-T-CTT 1 AGGGAGATAAGATTTGCCGTCTTC-AATCTGC-T-CCACTACTGCTT * * * * 34548254 -GGAAAGATAAGATTCGCCGTCTTCGATCTGCTTCACTACTGCTT 1 AGG-GAGATAAGATTTGCCGTCTTCAATCTGCTCCACTACTGCTT * **** * * * * 34548298 AGGGAGATAAGATCTATAATCTTCAACCTTCTCCACTGCTGCTC 1 AGGGAGATAAGATTTGCCGTCTTCAATCTGCTCCACTACTGCTT * ** ** * 34548342 AGGGAGACAAGGCTTGGTGGC-TCAAATCTGCTTCCCACTA-T-C-T 1 AGGGAGATAAGATTTGCCGTCTTC-AATCTGC-T-CCACTACTGCTT * * * 34548385 AGGAAAGATAAGATTCGCCGTCTTCGATCTGCTCCACTACTGCTT 1 AGG-GAGATAAGATTTGCCGTCTTCAATCTGCTCCACTACTGCTT * **** * * * * 34548430 AGGGAGATAAGATCTATAATCTTCAACCTTCTCCACTGCTGCTC 1 AGGGAGATAAGATTTGCCGTCTTCAATCTGCTCCACTACTGCTT * ** ** * 34548474 AGGGAGACAAGGCTTGGTGGCTT-AGATCTGCTTCCCACTA-T-CTT 1 AGGGAGATAAGATTTGCCGTCTTCA-ATCTGC-T-CCACTACTGCTT * * ** 34548518 -GGAAAGATAAGATTCGCCGTCTTTGATCTGCTCCACTACTGCTT 1 AGG-GAGATAAGATTTGCCGTCTTCAATCTGCTCCACTACTGCTT * 34548562 AGGGAGACAAGAT 1 AGGGAGATAAGAT 34548575 CTATAATCTT Statistics Matches: 402, Mismatches: 150, Indels: 66 0.65 0.24 0.11 Matches are distributed among these distances: 42 23 0.06 43 24 0.06 44 289 0.72 45 47 0.12 46 19 0.05 ACGTcount: A:0.24, C:0.25, G:0.21, T:0.29 Consensus pattern (44 bp): AGGGAGATAAGATTTGCCGTCTTCAATCTGCTCCACTACTGCTT Found at i:34548130 original size:132 final size:132 Alignment explanation
Indices: 34547994--34548624 Score: 1127 Period size: 132 Copynumber: 4.8 Consensus size: 132 34547984 AACTTCAGGG * * * * 34547994 AGATAAGATTTGCCATCTTCGATCTGCTCCACTACTGCTTAGGGAGATAAGATCTACAATTTTCA 1 AGATAAGATTCGCCGTCTTCGATCTGCTCCACTACTGCTTAGGGAGATAAGATCTATAATCTTCA ** * * 34548059 ATTTTCTCCGCTGCTACTCAGGGAGACAAGGCTTGGTGGCTCAAATCTGCTTCCCACTATCTTGG 66 ACCTTCTCCACTGCTGCTCAGGGAGACAAGGCTTGGTGGCTCAAATCTGCTTCCCACTATCTTGG 34548124 AA 131 AA 34548126 AGATAAGATTCGCCGTCTTCGATCTGCTCCACTACTGCTTAGGGAGATAAGATCTATAATCTTCA 1 AGATAAGATTCGCCGTCTTCGATCTGCTCCACTACTGCTTAGGGAGATAAGATCTATAATCTTCA 34548191 ACCTTCTCCACTGCTGCTCAGGGAGACAAGGCTTGGTGGCTCAAATCTGCTTCCCACTATCTTGG 66 ACCTTCTCCACTGCTGCTCAGGGAGACAAGGCTTGGTGGCTCAAATCTGCTTCCCACTATCTTGG 34548256 AA 131 AA * 34548258 AGATAAGATTCGCCGTCTTCGATCTGCTTCACTACTGCTTAGGGAGATAAGATCTATAATCTTCA 1 AGATAAGATTCGCCGTCTTCGATCTGCTCCACTACTGCTTAGGGAGATAAGATCTATAATCTTCA * 34548323 ACCTTCTCCACTGCTGCTCAGGGAGACAAGGCTTGGTGGCTCAAATCTGCTTCCCACTATCTAGG 66 ACCTTCTCCACTGCTGCTCAGGGAGACAAGGCTTGGTGGCTCAAATCTGCTTCCCACTATCTTGG 34548388 AA 131 AA 34548390 AGATAAGATTCGCCGTCTTCGATCTGCTCCACTACTGCTTAGGGAGATAAGATCTATAATCTTCA 1 AGATAAGATTCGCCGTCTTCGATCTGCTCCACTACTGCTTAGGGAGATAAGATCTATAATCTTCA * * 34548455 ACCTTCTCCACTGCTGCTCAGGGAGACAAGGCTTGGTGGCTTAGATCTGCTTCCCACTATCTTGG 66 ACCTTCTCCACTGCTGCTCAGGGAGACAAGGCTTGGTGGCTCAAATCTGCTTCCCACTATCTTGG 34548520 AA 131 AA * * 34548522 AGATAAGATTCGCCGTCTTTGATCTGCTCCACTACTGCTTAGGGAGACAAGATCTATAATCTTCA 1 AGATAAGATTCGCCGTCTTCGATCTGCTCCACTACTGCTTAGGGAGATAAGATCTATAATCTTCA * 34548587 ACCTTCTCCACTGCTGCTCAGGGAGACAAGGCTGGGTG 66 ACCTTCTCCACTGCTGCTCAGGGAGACAAGGCTTGGTG 34548625 TTTCACCAGT Statistics Matches: 482, Mismatches: 17, Indels: 0 0.97 0.03 0.00 Matches are distributed among these distances: 132 482 1.00 ACGTcount: A:0.24, C:0.26, G:0.21, T:0.29 Consensus pattern (132 bp): AGATAAGATTCGCCGTCTTCGATCTGCTCCACTACTGCTTAGGGAGATAAGATCTATAATCTTCA ACCTTCTCCACTGCTGCTCAGGGAGACAAGGCTTGGTGGCTCAAATCTGCTTCCCACTATCTTGG AA Found at i:34560170 original size:98 final size:98 Alignment explanation
Indices: 34560050--34560240 Score: 319 Period size: 98 Copynumber: 1.9 Consensus size: 98 34560040 AGAATAAAAC * * 34560050 TAAAAGAACATCCACTCATCCAAGATTTAAGAAATCACACCCAATACGTTATGGCACGATCCCTT 1 TAAAAGAACATCCACTCATCCAAGATTTAAGAAATCACACCCAATACGTTAGGGCACAATCCCTT * 34560115 TAGAATCCCAAACTCGGAATATTTCCTTTACTT 66 TAGAATCCCAAACTCGGAACATTTCCTTTACTT * * * 34560148 TAAAAGAACTTCCACTTATCCAAGATTTAAGAAATCACACCCAATACGTTAGGGCACAATTCCTT 1 TAAAAGAACATCCACTCATCCAAGATTTAAGAAATCACACCCAATACGTTAGGGCACAATCCCTT * 34560213 TAGAATCTCAAACTCGGAACATTTCCTT 66 TAGAATCCCAAACTCGGAACATTTCCTT 34560241 CATGATTTGT Statistics Matches: 86, Mismatches: 7, Indels: 0 0.92 0.08 0.00 Matches are distributed among these distances: 98 86 1.00 ACGTcount: A:0.36, C:0.26, G:0.10, T:0.28 Consensus pattern (98 bp): TAAAAGAACATCCACTCATCCAAGATTTAAGAAATCACACCCAATACGTTAGGGCACAATCCCTT TAGAATCCCAAACTCGGAACATTTCCTTTACTT Found at i:34562106 original size:14 final size:15 Alignment explanation
Indices: 34562074--34562107 Score: 52 Period size: 15 Copynumber: 2.3 Consensus size: 15 34562064 TTTCATCCGT * 34562074 TTTGGGCCATTGTAA 1 TTTGGGCCACTGTAA 34562089 TTTGGGCCACTG-AA 1 TTTGGGCCACTGTAA 34562103 TTTGG 1 TTTGG 34562108 TTTTGGGGCT Statistics Matches: 18, Mismatches: 1, Indels: 1 0.90 0.05 0.05 Matches are distributed among these distances: 14 7 0.39 15 11 0.61 ACGTcount: A:0.18, C:0.15, G:0.29, T:0.38 Consensus pattern (15 bp): TTTGGGCCACTGTAA Found at i:34562456 original size:44 final size:44 Alignment explanation
Indices: 34562359--34562479 Score: 127 Period size: 44 Copynumber: 2.8 Consensus size: 44 34562349 GGACTACTGG * * * * * 34562359 CTTCAATCTGCTCCACTACTGCTTAGGGAGATAAGATTTGTCAT 1 CTTCAATCTACTCCACTACTGCTTAGGGAGATAAAATCTATAAT ** * 34562403 CTTTGATCTACTCCACTATTGCTTAGGGAGATAAAATCTATAAT 1 CTTCAATCTACTCCACTACTGCTTAGGGAGATAAAATCTATAAT * * * 34562447 CTTCAATCTATTCCATTGCTGAC-TAGGGAGATA 1 CTTCAATCTACTCCACTACTG-CTTAGGGAGATA 34562480 GGACTACTGG Statistics Matches: 62, Mismatches: 14, Indels: 2 0.79 0.18 0.03 Matches are distributed among these distances: 44 61 0.98 45 1 0.02 ACGTcount: A:0.28, C:0.21, G:0.17, T:0.35 Consensus pattern (44 bp): CTTCAATCTACTCCACTACTGCTTAGGGAGATAAAATCTATAAT Found at i:34562565 original size:131 final size:130 Alignment explanation
Indices: 34562227--34562567 Score: 400 Period size: 131 Copynumber: 2.6 Consensus size: 130 34562217 AAGATTCATC * 34562227 GCTTAAATCTGCTTCCCTACTCCTGGGGAAGATAAGATTTGCCGTCTTCGACCTGCTCCACTACT 1 GCTTAAATCT-CTTCCCTACTCCTGGGGAAGATAAGATTTGCCGTCTTCGATCTGCTCCACTACT * ** * * 34562292 GTTTAGGGAGACCAGATCTGTAATTTCTAACCTATTCCACTGCTGACCAGGGAAATAGGACTACT 65 GCTTAGGGAGATAAAATCTATAATTTCTAACCTATTCCACTGCTGACCAGGGAAATAGGACTACT 34562357 G 130 G * * * * * * * 34562358 GCTTCAATCTGC-TCCACTACTGCTTAGGG-AGATAAGATTTGTCATCTTTGATCTACTCCACTA 1 GCTTAAATCT-CTTCC-CTACT-CCTGGGGAAGATAAGATTTGCCGTCTTCGATCTGCTCCACTA * * * * * 34562421 TTGCTTAGGGAGATAAAATCTATAATCTTC-AATCTATTCCATTGCTGACTAGGGAGATAGGACT 63 CTGCTTAGGGAGATAAAATCTATAAT-TTCTAACCTATTCCACTGCTGACCAGGGAAATAGGACT 34562485 ACTG 127 ACTG * * * * 34562489 GCTTAAATCTATTTCCCTACTCCTGGGGAATATAAGATTCGCCGTCTTCGATCTGCTCTACTACT 1 GCTTAAATCT-CTTCCCTACTCCTGGGGAAGATAAGATTTGCCGTCTTCGATCTGCTCCACTACT * 34562554 GCTTAGAGAGATAA 65 GCTTAGGGAGATAA 34562568 GATATGTACT Statistics Matches: 173, Mismatches: 32, Indels: 10 0.80 0.15 0.05 Matches are distributed among these distances: 130 8 0.05 131 154 0.89 132 11 0.06 ACGTcount: A:0.26, C:0.23, G:0.19, T:0.32 Consensus pattern (130 bp): GCTTAAATCTCTTCCCTACTCCTGGGGAAGATAAGATTTGCCGTCTTCGATCTGCTCCACTACTG CTTAGGGAGATAAAATCTATAATTTCTAACCTATTCCACTGCTGACCAGGGAAATAGGACTACTG Found at i:34562724 original size:154 final size:154 Alignment explanation
Indices: 34562428--34562712 Score: 435 Period size: 154 Copynumber: 1.9 Consensus size: 154 34562418 CTATTGCTTA * * * 34562428 GGGAGATAAAATCTATAATCTTCAATCTATTCCATTGCTGACTAGGGAGATAGGACTACTGGCTT 1 GGGAGATAAAATCTATAATCTTCAATCTATTCCACTGCTGACCAGGGAGATAGAACTACTGGCTT * * 34562493 AAATCTATTTCCCTACTCCTGGGGAATATAAGATTCGCCGTCTTCGATCTGCTCTACTACTGCTT 66 AAATCTATTTCCCTACTCCTGGGGAAGATAAGATTCGCCGTCTTCGATCTGCTCCACTACTGCTT 34562558 AGAGAGATAAGATATGTACTATTC 131 AGAGAGATAAGATATGTACTATTC * * * * * * 34562582 GGGAGATAAGATCTGTACTCTTCATTCTATTCCACTGCTGCCCAGGGAGATAGAATTACTGGCTT 1 GGGAGATAAAATCTATAATCTTCAATCTATTCCACTGCTGACCAGGGAGATAGAACTACTGGCTT * * * * 34562647 AAATCTATTTCCCTACTCTTGGGGAAGATGAGATTCGCCGTCTTTGATTTGCTCCACTACTGCTT 66 AAATCTATTTCCCTACTCCTGGGGAAGATAAGATTCGCCGTCTTCGATCTGCTCCACTACTGCTT 34562712 A 131 A 34562713 AGGGGATAAG Statistics Matches: 116, Mismatches: 15, Indels: 0 0.89 0.11 0.00 Matches are distributed among these distances: 154 116 1.00 ACGTcount: A:0.26, C:0.21, G:0.20, T:0.33 Consensus pattern (154 bp): GGGAGATAAAATCTATAATCTTCAATCTATTCCACTGCTGACCAGGGAGATAGAACTACTGGCTT AAATCTATTTCCCTACTCCTGGGGAAGATAAGATTCGCCGTCTTCGATCTGCTCCACTACTGCTT AGAGAGATAAGATATGTACTATTC Found at i:34562815 original size:285 final size:285 Alignment explanation
Indices: 34562323--34562860 Score: 785 Period size: 285 Copynumber: 1.9 Consensus size: 285 34562313 AATTTCTAAC * * 34562323 CTATTCCACTGCTGACCAGGGAAATAGGACTACTGGCTTCAATCTGCTCCACTACTGCTTAGGGA 1 CTATTCCACTGCTGACCAGGGAAATAGAACTACTGGCTTAAATCTGCTCCACTACTGCTTAGGGA * * * 34562388 GATAAGATTTGTCATCTTTGATCTACTCCACTATTGCTTAGGGAGATAAAATCTATAATCTTCAA 66 GATAAGATTCGCCATCTTTGATCTACTCCACTACTGCTTAGGGAGATAAAATCTATAATCTTCAA * * * 34562453 TCTATTCCATTGCTGACTAGGGAGATAGGACTACTGGCTTAAATCTATTTCCCTACTCCTGGGGA 131 TCTATTCCACTGCTGACCAGGGAGATAGAACTACTGGCTTAAATCTATTTCCCTACTCCTGGGGA * * 34562518 ATATAAGATTCGCCGTCTTCGATCTGCTCTACTACTGCTTAGAGAGATAAGATATGTACTATTCG 196 AGATAAGATTCGCCGTCTTCGATCTGCTCCACTACTGCTTAGAGAGATAAGATATGTACTATTCG 34562583 GGAGATAAGATCTGTACTCTTCATT 261 GGAGATAAGATCTGTACTCTTCATT * * * ** * 34562608 CTATTCCACTGCTGCCCAGGGAGATAGAATTACTGGCTTAAATCTATTTCC-CTACT-CTTGGGG 1 CTATTCCACTGCTGACCAGGGAAATAGAACTACTGGCTTAAATCT-GCTCCACTACTGCTTAGGG * * * * * * 34562671 AAGATGAGATTCGCCGTCTTTGATTTGCTCCACTACTGCTTAAGGG-GATAAGATCTATACTCTT 65 -AGATAAGATTCGCCATCTTTGATCTACTCCACTACTGCTT-AGGGAGATAAAATCTATAATCTT * * * 34562735 CAATCTATTCCACTGCTGCCCAGGGAGATAGAATTACTGGCTTAAATCTGTTTCCCTACTCCTGG 128 CAATCTATTCCACTGCTGACCAGGGAGATAGAACTACTGGCTTAAATCTATTTCCCTACTCCTGG * * 34562800 GGAAGATAAGATTCGCCGTCTTCGATCTGCTCCACTACTGCTTAGGGAGATAAGATCTGTA 193 GGAAGATAAGATTCGCCGTCTTCGATCTGCTCCACTACTGCTTAGAGAGATAAGATATGTA 34562861 ATCTTTAACT Statistics Matches: 223, Mismatches: 27, Indels: 6 0.87 0.11 0.02 Matches are distributed among these distances: 284 6 0.03 285 210 0.94 286 7 0.03 ACGTcount: A:0.26, C:0.22, G:0.20, T:0.32 Consensus pattern (285 bp): CTATTCCACTGCTGACCAGGGAAATAGAACTACTGGCTTAAATCTGCTCCACTACTGCTTAGGGA GATAAGATTCGCCATCTTTGATCTACTCCACTACTGCTTAGGGAGATAAAATCTATAATCTTCAA TCTATTCCACTGCTGACCAGGGAGATAGAACTACTGGCTTAAATCTATTTCCCTACTCCTGGGGA AGATAAGATTCGCCGTCTTCGATCTGCTCCACTACTGCTTAGAGAGATAAGATATGTACTATTCG GGAGATAAGATCTGTACTCTTCATT Found at i:34562820 original size:131 final size:131 Alignment explanation
Indices: 34562582--34562857 Score: 473 Period size: 131 Copynumber: 2.1 Consensus size: 131 34562572 TGTACTATTC * * 34562582 GGGAGATAAGATCTGTACTCTTCATTCTATTCCACTGCTGCCCAGGGAGATAGAATTACTGGCTT 1 GGGAGATAAGATCTATACTCTTCAATCTATTCCACTGCTGCCCAGGGAGATAGAATTACTGGCTT * * * * 34562647 AAATCTATTTCCCTACTCTTGGGGAAGATGAGATTCGCCGTCTTTGATTTGCTCCACTACTGCTT 66 AAATCTATTTCCCTACTCCTGGGGAAGATAAGATTCGCCGTCTTCGATCTGCTCCACTACTGCTT 34562712 AA 131 -A 34562714 GGG-GATAAGATCTATACTCTTCAATCTATTCCACTGCTGCCCAGGGAGATAGAATTACTGGCTT 1 GGGAGATAAGATCTATACTCTTCAATCTATTCCACTGCTGCCCAGGGAGATAGAATTACTGGCTT * 34562778 AAATCTGTTTCCCTACTCCTGGGGAAGATAAGATTCGCCGTCTTCGATCTGCTCCACTACTGCTT 66 AAATCTATTTCCCTACTCCTGGGGAAGATAAGATTCGCCGTCTTCGATCTGCTCCACTACTGCTT 34562843 A 131 A 34562844 GGGAGATAAGATCT 1 GGGAGATAAGATCT 34562858 GTAATCTTTA Statistics Matches: 136, Mismatches: 7, Indels: 3 0.93 0.05 0.02 Matches are distributed among these distances: 130 4 0.03 131 129 0.95 132 3 0.02 ACGTcount: A:0.24, C:0.23, G:0.21, T:0.32 Consensus pattern (131 bp): GGGAGATAAGATCTATACTCTTCAATCTATTCCACTGCTGCCCAGGGAGATAGAATTACTGGCTT AAATCTATTTCCCTACTCCTGGGGAAGATAAGATTCGCCGTCTTCGATCTGCTCCACTACTGCTT A Found at i:34585081 original size:35 final size:35 Alignment explanation
Indices: 34584984--34585083 Score: 155 Period size: 35 Copynumber: 2.9 Consensus size: 35 34584974 TTTGTTTGGC * * * 34584984 GTGTTACGGTTGGATTAGCTCTTATGAACATTGGT 1 GTGTTTCGGTTGGATTAGCTCTTATGAGCAATGGT * 34585019 GTGTTTCGGTTGAATTAGCTCTTATGAGCAATGGT 1 GTGTTTCGGTTGGATTAGCTCTTATGAGCAATGGT * 34585054 GTGTTTCGATTGGATTAGCTCTTATGAGCA 1 GTGTTTCGGTTGGATTAGCTCTTATGAGCA 34585084 TCAGCGTGTT Statistics Matches: 59, Mismatches: 6, Indels: 0 0.91 0.09 0.00 Matches are distributed among these distances: 35 59 1.00 ACGTcount: A:0.20, C:0.12, G:0.28, T:0.40 Consensus pattern (35 bp): GTGTTTCGGTTGGATTAGCTCTTATGAGCAATGGT Found at i:34585093 original size:35 final size:34 Alignment explanation
Indices: 34584980--34585102 Score: 147 Period size: 35 Copynumber: 3.5 Consensus size: 34 34584970 ACTTTTTGTT * 34584980 TGGCGTGTTACGGTTGGATTAGCTCTTATGAACA 1 TGGCGTGTTACGGTTGGATTAGCTCTTATGAGCA * * * 34585014 TTGGTGTGTTTCGGTTGAATTAGCTCTTATGAGCAA 1 -TGGCGTGTTACGGTTGGATTAGCTCTTATGAGC-A * * * 34585050 TGGTGTGTTTCGATTGGATTAGCTCTTATGAGCA 1 TGGCGTGTTACGGTTGGATTAGCTCTTATGAGCA * 34585084 TCAGCGTGTTACGGTTGGA 1 T-GGCGTGTTACGGTTGGA 34585103 CTGACAATGT Statistics Matches: 76, Mismatches: 10, Indels: 4 0.84 0.11 0.04 Matches are distributed among these distances: 34 2 0.03 35 73 0.96 36 1 0.01 ACGTcount: A:0.19, C:0.13, G:0.30, T:0.38 Consensus pattern (34 bp): TGGCGTGTTACGGTTGGATTAGCTCTTATGAGCA Found at i:34595865 original size:16 final size:16 Alignment explanation
Indices: 34595821--34595868 Score: 55 Period size: 16 Copynumber: 3.1 Consensus size: 16 34595811 TTCCACTAAT * 34595821 AAGATTAATTATAATTA 1 AAGATTAAAT-TAATTA * 34595838 AAG--TAAACTAATTA 1 AAGATTAAATTAATTA 34595852 AAGATTAAATTAATTA 1 AAGATTAAATTAATTA 34595868 A 1 A 34595869 TTAAGGTATA Statistics Matches: 26, Mismatches: 3, Indels: 5 0.76 0.09 0.15 Matches are distributed among these distances: 14 9 0.35 15 3 0.12 16 11 0.42 17 3 0.12 ACGTcount: A:0.56, C:0.02, G:0.06, T:0.35 Consensus pattern (16 bp): AAGATTAAATTAATTA Found at i:34595869 original size:20 final size:20 Alignment explanation
Indices: 34595824--34595872 Score: 55 Period size: 20 Copynumber: 2.5 Consensus size: 20 34595814 CACTAATAAG * 34595824 ATTAATTATAATTAAAGTAA 1 ATTAATTAAAATTAAAGTAA * * 34595844 ACTAATTAAAGATTAAA-TTA 1 ATTAATTAAA-ATTAAAGTAA 34595864 ATTAATTAA 1 ATTAATTAA 34595873 GGTATAATCA Statistics Matches: 24, Mismatches: 4, Indels: 2 0.80 0.13 0.07 Matches are distributed among these distances: 20 18 0.75 21 6 0.25 ACGTcount: A:0.55, C:0.02, G:0.04, T:0.39 Consensus pattern (20 bp): ATTAATTAAAATTAAAGTAA Found at i:34596228 original size:21 final size:22 Alignment explanation
Indices: 34596204--34596250 Score: 60 Period size: 22 Copynumber: 2.2 Consensus size: 22 34596194 TTTATTATTG * * * 34596204 TTTTGCTGTTG-TTTGCTGCCA 1 TTTTGATGTTGCTCTGCTACCA 34596225 TTTTGATGTTGCTCTGCTACCA 1 TTTTGATGTTGCTCTGCTACCA 34596247 TTTT 1 TTTT 34596251 TCTATTATAT Statistics Matches: 22, Mismatches: 3, Indels: 1 0.85 0.12 0.04 Matches are distributed among these distances: 21 10 0.45 22 12 0.55 ACGTcount: A:0.09, C:0.19, G:0.19, T:0.53 Consensus pattern (22 bp): TTTTGATGTTGCTCTGCTACCA Found at i:34596264 original size:22 final size:22 Alignment explanation
Indices: 34596239--34596280 Score: 59 Period size: 22 Copynumber: 1.9 Consensus size: 22 34596229 GATGTTGCTC 34596239 TGCTACCATTTT-TCTATTATAT 1 TGCTACCATTTTGT-TATTATAT * 34596261 TGCTACTATTTTGTTATTAT 1 TGCTACCATTTTGTTATTAT 34596281 TGTTTGGATA Statistics Matches: 18, Mismatches: 1, Indels: 2 0.86 0.05 0.10 Matches are distributed among these distances: 22 17 0.94 23 1 0.06 ACGTcount: A:0.21, C:0.14, G:0.07, T:0.57 Consensus pattern (22 bp): TGCTACCATTTTGTTATTATAT Done.