Tandem Repeats Finder Program written by: Gary Benson Program in Bioinformatics Boston University Version 4.09 Sequence: Scaffold25 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: 9553305 ACGTcount: A:0.34, C:0.16, G:0.16, T:0.34 Warning! 6276 characters in sequence are not A, C, G, or T File 38 of 56 Found at i:6556900 original size:21 final size:20 Alignment explanation
Indices: 6556874--6556933 Score: 59 Period size: 21 Copynumber: 2.9 Consensus size: 20 6556864 AAATTCACTT 6556874 ATGTATCGATACATGCTAGCA 1 ATGTATCGATACAT-CTAGCA * * 6556895 ATGTATTGATACATC-ACCCA 1 ATGTATCGATACATCTA-GCA * 6556915 TTGTATCGATACATTCTAG 1 ATGTATCGATACA-TCTAG 6556934 TTTTTGATCC Statistics Matches: 31, Mismatches: 5, Indels: 6 0.74 0.12 0.14 Matches are distributed among these distances: 19 1 0.03 20 14 0.45 21 15 0.48 22 1 0.03 ACGTcount: A:0.32, C:0.20, G:0.15, T:0.33 Consensus pattern (20 bp): ATGTATCGATACATCTAGCA Found at i:6559439 original size:79 final size:80 Alignment explanation
Indices: 6559339--6559542 Score: 207 Period size: 80 Copynumber: 2.5 Consensus size: 80 6559329 AAAAGGGGTT * * * * 6559339 CTCCAACCCCCATTTTCACTTCTAAAACGTCGAATTTTTCATCTCTGG-GACACTCCAA-CTGCA 1 CTCCAA-CCCCATTTTTACTTCCAAAACATCGAATTTTTCATCTCTGGAGACACTCCAATC-CCA * ** 6559402 CCATCTTTGA-GAGGATA 64 CAATCTCCGAGGA-GATA * * * * 6559419 CTCCAACCCCATTTTTACTTCCAAGACATTGAATTTTTCATTTCTGGAGATACTCCAATCCCACA 1 CTCCAACCCCATTTTTACTTCCAAAACATCGAATTTTTCATCTCTGGAGACACTCCAATCCCACA 6559484 ATCTCCGAGGAGATA 66 ATCTCCGAGGAGATA * * * ** * 6559499 CTCCAACTCTATTTTTACTTCCAAAATATTAAATTTTTTATCTC 1 CTCCAACCCCATTTTTACTTCCAAAACATCGAATTTTTCATCTC 6559543 CAGATACAAC Statistics Matches: 103, Mismatches: 18, Indels: 6 0.81 0.14 0.05 Matches are distributed among these distances: 79 35 0.34 80 65 0.63 81 3 0.03 ACGTcount: A:0.28, C:0.28, G:0.09, T:0.34 Consensus pattern (80 bp): CTCCAACCCCATTTTTACTTCCAAAACATCGAATTTTTCATCTCTGGAGACACTCCAATCCCACA ATCTCCGAGGAGATA Found at i:6563413 original size:76 final size:76 Alignment explanation
Indices: 6563254--6563420 Score: 190 Period size: 76 Copynumber: 2.2 Consensus size: 76 6563244 TTTTATTTAC * * * * * 6563254 AGGGATATTCTAACCCCGCTCTTCAAAAGTTATCTAGATTTGAGCTCCTCCTTTGTCAAAATTAT 1 AGGGATACTCCAACCCCGCTCTTCAAAAGTTATCTAGATTTAAACTCCTCCTTCGTCAAAATTAT 6563319 TTATTATCAAA 66 TTATTATCAAA * * * * * * 6563330 AGAGATACTCCAACTCCGTTCTTTAAAATTTATCTAGATTTAAACTCTTCCTTCGTCAAAATTAT 1 AGGGATACTCCAACCCCGCTCTTCAAAAGTTATCTAGATTTAAACTCCTCCTTCGTCAAAATTAT * * * 6563395 TTGTTATCCAC 66 TTATTATCAAA * * 6563406 GGGGATACTTCAACC 1 AGGGATACTCCAACC 6563421 TCAACCTTTC Statistics Matches: 73, Mismatches: 18, Indels: 0 0.80 0.20 0.00 Matches are distributed among these distances: 76 73 1.00 ACGTcount: A:0.30, C:0.22, G:0.11, T:0.37 Consensus pattern (76 bp): AGGGATACTCCAACCCCGCTCTTCAAAAGTTATCTAGATTTAAACTCCTCCTTCGTCAAAATTAT TTATTATCAAA Found at i:6563461 original size:103 final size:102 Alignment explanation
Indices: 6563333--6563548 Score: 265 Period size: 103 Copynumber: 2.1 Consensus size: 102 6563323 TATCAAAAGA * * * * 6563333 GATACTCCAACTCCGTTCTTTAAAATTTATCTAGATTTAAACTCTTC-CTTCGTCAAAATTATTT 1 GATACTCCAACTCCGTTCTTCAAAATTTATCAAGATTTAAACTCCTCTCTTCATCAAAATTATTT * * * * 6563397 GTTATCCACGGGGATACTTCAACCTCAACCTTTCAAGGG 66 GTTATCCACAGAGATACTCCAACCGC-A-CTTTCAAGGG * * * * 6563436 GATACTTCAAC-CACGTTCTTCAAAATTTATCAAGATTTGAACTCCTCTTTTTATCAAAATTATT 1 GATACTCCAACTC-CGTTCTTCAAAATTTATCAAGATTTAAACTCCTCTCTTCATCAAAATTATT * * 6563500 TGTTATCCATAGAGATACTCCAACCGCACTTTCGAGGG 65 TGTTATCCACAGAGATACTCCAACCGCACTTTCAAGGG 6563538 GATACTCCAAC 1 GATACTCCAAC 6563549 GCCATTTTTA Statistics Matches: 96, Mismatches: 15, Indels: 5 0.83 0.13 0.04 Matches are distributed among these distances: 102 20 0.21 103 41 0.43 104 35 0.36 ACGTcount: A:0.30, C:0.24, G:0.12, T:0.35 Consensus pattern (102 bp): GATACTCCAACTCCGTTCTTCAAAATTTATCAAGATTTAAACTCCTCTCTTCATCAAAATTATTT GTTATCCACAGAGATACTCCAACCGCACTTTCAAGGG Found at i:6570267 original size:29 final size:28 Alignment explanation
Indices: 6570159--6570346 Score: 119 Period size: 29 Copynumber: 6.5 Consensus size: 28 6570149 TTAAAGTCAA * * * 6570159 CACAAGTCAGTGGCACCCTTCTCAGAGTC 1 CACAACTCAGTGGC-CTCTTCTCAAAGTC * * * 6570188 CACAACTCTA-TAGCCCCCTTCTCAAAGTT 1 CACAACTC-AGT-GGCCTCTTCTCAAAGTC ** * * * 6570217 CATGACTTAATGGCAC-CGTTCTCAAAGTT 1 CACAACTCAGTGGC-CTC-TTCTCAAAGTC * 6570246 CACAACTCAGTGGTCCTCTTCTTAAAGTC 1 CACAACTCAGTGG-CCTCTTCTCAAAGTC * * 6570275 CACGACTCAGTGGCCTCTTTCTTAAAGTC 1 CACAACTCAGTGGCCTC-TTCTCAAAGTC ** * * 6570304 CATGACTCAGTGACACCCTTCTCAAAGTC 1 CACAACTCAGTGGC-CTCTTCTCAAAGTC * 6570333 CACAAGTCAGTGGC 1 CACAACTCAGTGGC 6570347 ATAATCCTTA Statistics Matches: 127, Mismatches: 23, Indels: 18 0.76 0.14 0.11 Matches are distributed among these distances: 28 8 0.06 29 112 0.88 30 7 0.06 ACGTcount: A:0.26, C:0.32, G:0.16, T:0.27 Consensus pattern (28 bp): CACAACTCAGTGGCCTCTTCTCAAAGTC Found at i:6570466 original size:63 final size:63 Alignment explanation
Indices: 6570396--6570597 Score: 257 Period size: 63 Copynumber: 3.2 Consensus size: 63 6570386 TCTTAAAGTC * * * 6570396 TACGAGTTGGTGGCAACCTCTTCTTATGCTTACACGAGTTGGTGGCAACCTCTTTAAAGCCCA 1 TACGAGTTGGTGGCAACCTCTTCTTAAGCCTACACGAGTTGGTGGCAACCTCTTCAAAGCCCA * * * * * * * 6570459 CATGAGTTGGTGGCAACCTCTTCTTAAGCCCACATGAGTTGCTGGTAACCTCTTCAAAACCCA 1 TACGAGTTGGTGGCAACCTCTTCTTAAGCCTACACGAGTTGGTGGCAACCTCTTCAAAGCCCA * * * 6570522 TACGAGTTGGTGGTAACCT-TT-TAAAAGCCTA-ACGAGTTGGTGGCAACCTCTTGAAAGCCCA 1 TACGAGTTGGTGGCAACCTCTTCT-TAAGCCTACACGAGTTGGTGGCAACCTCTTCAAAGCCCA 6570583 TACGAGTTGGTGGCA 1 TACGAGTTGGTGGCA 6570598 TCAAAGCCCA Statistics Matches: 117, Mismatches: 21, Indels: 4 0.82 0.15 0.03 Matches are distributed among these distances: 61 40 0.34 62 8 0.07 63 69 0.59 ACGTcount: A:0.25, C:0.24, G:0.23, T:0.28 Consensus pattern (63 bp): TACGAGTTGGTGGCAACCTCTTCTTAAGCCTACACGAGTTGGTGGCAACCTCTTCAAAGCCCA Found at i:6570469 original size:31 final size:31 Alignment explanation
Indices: 6570397--6570648 Score: 225 Period size: 31 Copynumber: 8.3 Consensus size: 31 6570387 CTTAAAGTCT * * ** 6570397 ACGAGTTGGTGGCAACCTCTTCTTATGCTTAC 1 ACGAGTTGGTGGCAACCTCTT-TAAAGCCCAC 6570429 ACGAGTTGGTGGCAACCTCTTTAAAGCCCAC 1 ACGAGTTGGTGGCAACCTCTTTAAAGCCCAC * * 6570460 ATGAGTTGGTGGCAACCTCTTCTTAAGCCCAC 1 ACGAGTTGGTGGCAACCTCTT-TAAAGCCCAC * * * * * * 6570492 ATGAGTTGCTGGTAACCTCTTCAAAACCCAT 1 ACGAGTTGGTGGCAACCTCTTTAAAGCCCAC * * 6570523 ACGAGTTGGTGGTAACCT-TTTAAAAGCCTA- 1 ACGAGTTGGTGGCAACCTCTTT-AAAGCCCAC * * 6570553 ACGAGTTGGTGGCAACCTCTTGAAAGCCCAT 1 ACGAGTTGGTGGCAACCTCTTTAAAGCCCAC * 6570584 ACGAGTTGGTGGC-A--TC---AAAGCCCAT 1 ACGAGTTGGTGGCAACCTCTTTAAAGCCCAC * * 6570609 ACAAGTTGGTGGTAACCT-TTGTAAAGCCCAC 1 ACGAGTTGGTGGCAACCTCTT-TAAAGCCCAC * 6570640 ATGAGTTGG 1 ACGAGTTGG 6570649 CGGTAATTTT Statistics Matches: 184, Mismatches: 25, Indels: 23 0.79 0.11 0.10 Matches are distributed among these distances: 25 20 0.11 26 1 0.01 28 3 0.02 30 27 0.15 31 84 0.46 32 49 0.27 ACGTcount: A:0.26, C:0.24, G:0.23, T:0.27 Consensus pattern (31 bp): ACGAGTTGGTGGCAACCTCTTTAAAGCCCAC Found at i:6570966 original size:52 final size:52 Alignment explanation
Indices: 6570883--6571335 Score: 355 Period size: 52 Copynumber: 8.7 Consensus size: 52 6570873 TTCCTAAGCT * * * * 6570883 CAATGTCGTTGGTC-TTGAATTAACACATTGGCACCTTTATCATCTT-TAAGTC 1 CAATGTCGCTGG-CATTGAATCAGCACATTGGCACCTTTATCAT-TTCTAAGAC * * * * 6570935 CAATATCGCTGGCATTAAATCAACACATTGGCACCTTTGTCATTTCTAAGAC 1 CAATGTCGCTGGCATTGAATCAGCACATTGGCACCTTTATCATTTCTAAGAC * ** * * * * * 6570987 CAATGTTGCTAACGTTGGATCAGCACATTGGCACTTTTGTTATTTCTAAGAC 1 CAATGTCGCTGGCATTGAATCAGCACATTGGCACCTTTATCATTTCTAAGAC * * * * * 6571039 CAATGTCGCTGGCCTTGGATTAGCACATTAGCACCTTTGTCATTTCTAAGAC 1 CAATGTCGCTGGCATTGAATCAGCACATTGGCACCTTTATCATTTCTAAGAC ** * * * * 6571091 TGATGTCGCTGGCCTT-AGATTAGCACATTGCCACCTTTATCATCTT-TAAAAC 1 CAATGTCGCTGGCATTGA-ATCAGCACATTGGCACCTTTATCAT-TTCTAAGAC * ** * * * 6571143 TAATGTCATTGGTCA-TGAATTAACACATTGGCACCTTTATCATTTCTAAAAC 1 CAATGTCGCTGG-CATTGAATCAGCACATTGGCACCTTTATCATTTCTAAGAC * * * * * * * 6571195 CAATGTCACTGGCCTTCAATCAGCACATTGGCATCTTTGTCATCTCTAAAAC 1 CAATGTCGCTGGCATTGAATCAGCACATTGGCACCTTTATCATTTCTAAGAC * * * 6571247 CAGTTTCGCTGGCCA-TGAATCAGCACATTGGCACCCTTATCATCTT-TAAGA- 1 CAATGTCGCTGG-CATTGAATCAGCACATTGGCACCTTTATCAT-TTCTAAGAC * * * * * 6571298 CAATGCCGTTGGCTTTGGATTAGCACATTGGCACCTTT 1 CAATGTCGCTGGCATTGAATCAGCACATTGGCACCTTT 6571336 GCCGTCCTTA Statistics Matches: 326, Mismatches: 64, Indels: 23 0.79 0.15 0.06 Matches are distributed among these distances: 50 1 0.00 51 34 0.10 52 285 0.87 53 6 0.02 ACGTcount: A:0.26, C:0.24, G:0.16, T:0.34 Consensus pattern (52 bp): CAATGTCGCTGGCATTGAATCAGCACATTGGCACCTTTATCATTTCTAAGAC Found at i:6574264 original size:103 final size:103 Alignment explanation
Indices: 6574128--6574420 Score: 390 Period size: 103 Copynumber: 2.8 Consensus size: 103 6574118 TTCGAGGGAT * * * 6574128 ACTCAAACCTCGCTCTTCAAAATTTATCTAGATTTGATCTCCTCCTTTATCAAAATTATTTTTTA 1 ACTCAAACCTCGCTCTTCAAAATTTATCTAGATTTGAACTCCTCCTTTGTCAAAATTATTTATTA * * * 6574193 TCCAAGAAGATACTCTAACCTCGACCTTTCGATGGAAA 66 TCCAAGAAGATACTCCAACCCCGACCTTTCGAAGGAAA * * * * * 6574231 ACTCTAACCCCGCTCTTCAAAATTTAACTAGATTCGAACTCTTCCTTTGTCAAAATTATTTATTA 1 ACTCAAACCTCGCTCTTCAAAATTTATCTAGATTTGAACTCCTCCTTTGTCAAAATTATTTATTA * * * * * 6574296 TCCATGGAGATACTCCAACCCCGACCTTTTGAAGGGAT 66 TCCAAGAAGATACTCCAACCCCGACCTTTCGAAGGAAA * * * 6574334 ACTCCAACCTCGCTCTTTAAAATTTATCTAGATTTGAACTCCTCTTTTGTCAAAATTATTTATTA 1 ACTCAAACCTCGCTCTTCAAAATTTATCTAGATTTGAACTCCTCCTTTGTCAAAATTATTTATTA * 6574399 TCCACAG-GGATACTCCAACCCC 66 TCCA-AGAAGATACTCCAACCCC 6574421 ATCTTCTGAA Statistics Matches: 164, Mismatches: 25, Indels: 2 0.86 0.13 0.01 Matches are distributed among these distances: 103 163 0.99 104 1 0.01 ACGTcount: A:0.30, C:0.26, G:0.10, T:0.35 Consensus pattern (103 bp): ACTCAAACCTCGCTCTTCAAAATTTATCTAGATTTGAACTCCTCCTTTGTCAAAATTATTTATTA TCCAAGAAGATACTCCAACCCCGACCTTTCGAAGGAAA Found at i:6577747 original size:30 final size:29 Alignment explanation
Indices: 6577684--6577757 Score: 78 Period size: 30 Copynumber: 2.6 Consensus size: 29 6577674 ATGTTTATAT * * * 6577684 AATATAATTTA-TATCATATAAAATTAAA 1 AATATAATATATTATTATACAAAATTAAA * 6577712 TATATAATATATTATTATACAAATATTAAA 1 AATATAATATATTATTATACAAA-ATTAAA * * 6577742 AATATATTAAATTATT 1 AATATAATATATTATT 6577758 TATATTTTAA Statistics Matches: 37, Mismatches: 7, Indels: 2 0.80 0.15 0.04 Matches are distributed among these distances: 28 9 0.24 29 9 0.24 30 19 0.51 ACGTcount: A:0.54, C:0.03, G:0.00, T:0.43 Consensus pattern (29 bp): AATATAATATATTATTATACAAAATTAAA Found at i:6577786 original size:21 final size:21 Alignment explanation
Indices: 6577761--6577816 Score: 91 Period size: 21 Copynumber: 2.8 Consensus size: 21 6577751 AATTATTTAT 6577761 ATTTTAAAATTTAAAAAATAA 1 ATTTTAAAATTTAAAAAATAA 6577782 ATTTTAAAATTT-AAAAATAA 1 ATTTTAAAATTTAAAAAATAA 6577802 A-TTT-AAATTTAAAAA 1 ATTTTAAAATTTAAAAA 6577817 TATATATAAA Statistics Matches: 34, Mismatches: 0, Indels: 4 0.89 0.00 0.11 Matches are distributed among these distances: 18 6 0.18 19 7 0.21 20 9 0.26 21 12 0.35 ACGTcount: A:0.61, C:0.00, G:0.00, T:0.39 Consensus pattern (21 bp): ATTTTAAAATTTAAAAAATAA Found at i:6584126 original size:2 final size:2 Alignment explanation
Indices: 6584121--6584151 Score: 53 Period size: 2 Copynumber: 15.5 Consensus size: 2 6584111 ATATATATAT * 6584121 AG AG AG AG AG AG AG AT AG AG AG AG AG AG AG A 1 AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG A 6584152 CAAGAACCAT Statistics Matches: 27, Mismatches: 2, Indels: 0 0.93 0.07 0.00 Matches are distributed among these distances: 2 27 1.00 ACGTcount: A:0.52, C:0.00, G:0.45, T:0.03 Consensus pattern (2 bp): AG Found at i:6592206 original size:54 final size:54 Alignment explanation
Indices: 6592139--6592266 Score: 222 Period size: 54 Copynumber: 2.4 Consensus size: 54 6592129 CCTTAATTTA 6592139 CCACAGTT-TGAGTCTCAAAATCAGTCCCAACTACATAACAAAAACCAAAATCTG 1 CCACA-TTCTGAGTCTCAAAATCAGTCCCAACTACATAACAAAAACCAAAATCTG * * 6592193 CCACATTCTGAGTCTCAAAATCAGTCCCAAGTACATAACGAAAACCAAAATCTG 1 CCACATTCTGAGTCTCAAAATCAGTCCCAACTACATAACAAAAACCAAAATCTG 6592247 CCACATTCTGAGTCTCAAAA 1 CCACATTCTGAGTCTCAAAA 6592267 CCAGGCTAAG Statistics Matches: 71, Mismatches: 2, Indels: 2 0.95 0.03 0.03 Matches are distributed among these distances: 53 2 0.03 54 69 0.97 ACGTcount: A:0.41, C:0.28, G:0.10, T:0.21 Consensus pattern (54 bp): CCACATTCTGAGTCTCAAAATCAGTCCCAACTACATAACAAAAACCAAAATCTG Found at i:6595506 original size:287 final size:282 Alignment explanation
Indices: 6594972--6595539 Score: 667 Period size: 287 Copynumber: 2.0 Consensus size: 282 6594962 GCAAAAGCAG * * * *** 6594972 CCTAAACTCTACTAAGTTTATTATGATATTTTATTTTCTGTTAGTTATTAGTTATGTTGCCAACA 1 CCTAAACTCTACTAAGTTTATTATCATATGTTATGTTCTGTTAGTTATTAGTTATACGGCCAACA * 6595037 ATTATATTTTAGATTTATCAAGTGATCATAGAACTAGCATGTGATTGCTTAATGAGCTTGAATGG 66 ATTATA-TTT--ATTTATCAAGTGATCATAGAACTAGCATGTGAATGCTTAATGAGCTTGAATGG * * * 6595102 GATGGATTAGTGGGTTTATTTGTATCCAAGAGCTAAGATTAAATGCTGCTTTAACCCTAGTATAC 128 CAAGGATTAGTGGGTTTATTTGTATCCAAGAGCTAAGATTAAATGCTGCTGTAACCCTAGTATAC * * ** * ** * 6595167 AGTCTTTCCACACATTAAGCATCCATGTTATATTTGGATATTATTTGTTAGTCTAGAACCCTAAA 193 AGTCTTTCCACACATTAAGCAGCCATATTATATTCAGACATTATAAGTTAGTCTAGAACCCCAAA * 6595232 CCATAATATAGTGTCCTTGTTCCAAC 258 CAAT-ATATAGTGTCCTTGTTCCAAC * * * 6595258 CCTAAACTCTTACTAATTTTATTATCATATGTTCTGTTCTGTTAGTTATTTAGTTATACGGTCAA 1 CCTAAACTC-TACTAAGTTTATTATCATATGTTATGTTCTGTTAGTTA-TTAGTTATACGGCCAA * * * * * * 6595323 CAGTTATA-TT-TTTATTAAGTGATCATATAACTAGTATTTGAATGCTTAATGA-CTTTGAATTG 64 CAATTATATTTATTTATCAAGTGATCATAGAACTAGCATGTGAATGCTTAATGAGC-TTGAATGG * * * * 6595385 CAAGGATTAGTGAGGTTTATTTGTGTCCAAGGGCTAGGATTAAATGCTTCTGTAACCCTAGTATA 128 CAAGGATTAGTG-GGTTTATTTGTATCCAAGAGCTAAGATTAAATGCTGCTGTAACCCTAGTAT- * * * * 6595450 AATAGTTTTTTCA-ATGCATTAAGCAGCCATATTATATTCAGACGTTATAAGTTAGTCTAGAACC 191 -ACAGTCTTTCCACA--CATTAAGCAGCCATATTATATTCAGACATTATAAGTTAGTCTAGAACC * 6595514 CCAAACAATATATAGTGTTCTTGTTC 253 CCAAACAATATATAGTGTCCTTGTTC 6595540 GAACTTTGAT Statistics Matches: 237, Mismatches: 37, Indels: 16 0.82 0.13 0.06 Matches are distributed among these distances: 282 1 0.00 283 54 0.23 284 46 0.19 285 1 0.00 286 36 0.15 287 80 0.34 288 19 0.08 ACGTcount: A:0.30, C:0.14, G:0.16, T:0.40 Consensus pattern (282 bp): CCTAAACTCTACTAAGTTTATTATCATATGTTATGTTCTGTTAGTTATTAGTTATACGGCCAACA ATTATATTTATTTATCAAGTGATCATAGAACTAGCATGTGAATGCTTAATGAGCTTGAATGGCAA GGATTAGTGGGTTTATTTGTATCCAAGAGCTAAGATTAAATGCTGCTGTAACCCTAGTATACAGT CTTTCCACACATTAAGCAGCCATATTATATTCAGACATTATAAGTTAGTCTAGAACCCCAAACAA TATATAGTGTCCTTGTTCCAAC Found at i:6602343 original size:17 final size:17 Alignment explanation
Indices: 6602321--6602354 Score: 68 Period size: 17 Copynumber: 2.0 Consensus size: 17 6602311 ACCGTTATAA 6602321 ACAAAATATACCATCCT 1 ACAAAATATACCATCCT 6602338 ACAAAATATACCATCCT 1 ACAAAATATACCATCCT 6602355 TAACATCAAA Statistics Matches: 17, Mismatches: 0, Indels: 0 1.00 0.00 0.00 Matches are distributed among these distances: 17 17 1.00 ACGTcount: A:0.47, C:0.29, G:0.00, T:0.24 Consensus pattern (17 bp): ACAAAATATACCATCCT Found at i:6605773 original size:26 final size:26 Alignment explanation
Indices: 6605743--6605801 Score: 77 Period size: 26 Copynumber: 2.3 Consensus size: 26 6605733 TGAGAAATTT * 6605743 TTAATATTTATATATATTT-AATTAAA 1 TTAATATTTATATAAATTTAAATT-AA * 6605769 TTAATAATTATATAAATTTAAATTAA 1 TTAATATTTATATAAATTTAAATTAA 6605795 TT-ATATT 1 TTAATATT 6605802 AAATAATTAT Statistics Matches: 29, Mismatches: 3, Indels: 3 0.83 0.09 0.09 Matches are distributed among these distances: 25 4 0.14 26 21 0.72 27 4 0.14 ACGTcount: A:0.47, C:0.00, G:0.00, T:0.53 Consensus pattern (26 bp): TTAATATTTATATAAATTTAAATTAA Found at i:6605809 original size:17 final size:18 Alignment explanation
Indices: 6605763--6605814 Score: 58 Period size: 16 Copynumber: 3.0 Consensus size: 18 6605753 TATATATTTA 6605763 ATTAAATTAA-TAATTAT 1 ATTAAATTAATTAATTAT 6605780 A-TAAATTTAAATTAATTAT 1 ATTAAA-TT-AATTAATTAT 6605799 ATTAAA-TAATT-ATTAT 1 ATTAAATTAATTAATTAT 6605815 TTATTTAAAT Statistics Matches: 31, Mismatches: 0, Indels: 9 0.77 0.00 0.22 Matches are distributed among these distances: 16 9 0.29 17 7 0.23 18 3 0.10 19 8 0.26 20 4 0.13 ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48 Consensus pattern (18 bp): ATTAAATTAATTAATTAT Found at i:6605851 original size:17 final size:18 Alignment explanation
Indices: 6605817--6605854 Score: 60 Period size: 17 Copynumber: 2.2 Consensus size: 18 6605807 ATTATTATTT * 6605817 ATTTAAATATTTTTTGTA 1 ATTTAAATATTTTATGTA 6605835 ATTTAAA-ATTTTATGTA 1 ATTTAAATATTTTATGTA 6605852 ATT 1 ATT 6605855 GAATTTAAAA Statistics Matches: 19, Mismatches: 1, Indels: 1 0.90 0.05 0.05 Matches are distributed among these distances: 17 12 0.63 18 7 0.37 ACGTcount: A:0.37, C:0.00, G:0.05, T:0.58 Consensus pattern (18 bp): ATTTAAATATTTTATGTA Found at i:6606667 original size:29 final size:31 Alignment explanation
Indices: 6606621--6606683 Score: 76 Period size: 29 Copynumber: 2.1 Consensus size: 31 6606611 TAAATATGAT * * 6606621 ATGAATATATGAATGTGTCAAAA-TATATAA 1 ATGAATATATGAACGTGTAAAAATTATATAA * 6606651 ATGAATA-ATTAACGTGTAAAAATTTATATAA 1 ATGAATATATGAACGTGTAAAAA-TTATATAA 6606682 AT 1 AT 6606684 TTTTAATACT Statistics Matches: 28, Mismatches: 3, Indels: 3 0.82 0.09 0.09 Matches are distributed among these distances: 29 12 0.43 30 7 0.25 31 9 0.32 ACGTcount: A:0.51, C:0.03, G:0.11, T:0.35 Consensus pattern (31 bp): ATGAATATATGAACGTGTAAAAATTATATAA Found at i:6606888 original size:16 final size:17 Alignment explanation
Indices: 6606869--6606904 Score: 65 Period size: 17 Copynumber: 2.2 Consensus size: 17 6606859 TTTTCTCTCA 6606869 TTTCTTTTA-TTTTTTC 1 TTTCTTTTATTTTTTTC 6606885 TTTCTTTTATTTTTTTC 1 TTTCTTTTATTTTTTTC 6606902 TTT 1 TTT 6606905 TCCTTCTTTC Statistics Matches: 19, Mismatches: 0, Indels: 1 0.95 0.00 0.05 Matches are distributed among these distances: 16 9 0.47 17 10 0.53 ACGTcount: A:0.06, C:0.11, G:0.00, T:0.83 Consensus pattern (17 bp): TTTCTTTTATTTTTTTC Found at i:6606897 original size:21 final size:21 Alignment explanation
Indices: 6606857--6606913 Score: 60 Period size: 21 Copynumber: 2.7 Consensus size: 21 6606847 AACAATAAAC * * * 6606857 TTTTTTCTCTCATTTCTTTTA 1 TTTTTTCTTTCTTTTATTTTA * 6606878 TTTTTTCTTTCTTTTATTTTT 1 TTTTTTCTTTCTTTTATTTTA * 6606899 TTCTTTTCCTTCTTT 1 TT-TTTTCTTTCTTT 6606914 CTCTGCCTAC Statistics Matches: 30, Mismatches: 5, Indels: 1 0.83 0.14 0.03 Matches are distributed among these distances: 21 19 0.63 22 11 0.37 ACGTcount: A:0.05, C:0.18, G:0.00, T:0.77 Consensus pattern (21 bp): TTTTTTCTTTCTTTTATTTTA Found at i:6609740 original size:8 final size:8 Alignment explanation
Indices: 6609726--6609798 Score: 55 Period size: 8 Copynumber: 9.4 Consensus size: 8 6609716 TCCTTTTTCC 6609726 CTTTTTTT 1 CTTTTTTT 6609734 -TTCTTTTT 1 CTT-TTTTT 6609742 CTTTTTTT 1 CTTTTTTT ** 6609750 CCTTTTTAC 1 -CTTTTTTT * 6609759 CTTTTATT 1 CTTTTTTT 6609767 C---TTTT 1 CTTTTTTT * 6609772 CTTTTTCT 1 CTTTTTTT * 6609780 CTTTTATT 1 CTTTTTTT 6609788 CTTTTTTT 1 CTTTTTTT 6609796 CTT 1 CTT 6609799 CTCTTAAAAA Statistics Matches: 49, Mismatches: 10, Indels: 12 0.69 0.14 0.17 Matches are distributed among these distances: 5 4 0.08 7 2 0.04 8 35 0.71 9 8 0.16 ACGTcount: A:0.04, C:0.18, G:0.00, T:0.78 Consensus pattern (8 bp): CTTTTTTT Found at i:6609755 original size:21 final size:21 Alignment explanation
Indices: 6609731--6609796 Score: 60 Period size: 22 Copynumber: 3.0 Consensus size: 21 6609721 TTTCCCTTTT 6609731 TTTTTCTTTTTCTTTTTTTCC 1 TTTTTCTTTTTCTTTTTTTCC * * * * 6609752 TTTTTACCTTTTATTCTTTTCT 1 TTTTT-CTTTTTCTTTTTTTCC 6609774 TTTTCTCTTTTATTCTTTTTTTC 1 TTTT-TC-TTT-TTCTTTTTTTC 6609797 TTCTCTTAAA Statistics Matches: 34, Mismatches: 7, Indels: 5 0.74 0.15 0.11 Matches are distributed among these distances: 21 5 0.15 22 17 0.50 23 3 0.09 24 9 0.26 ACGTcount: A:0.05, C:0.18, G:0.00, T:0.77 Consensus pattern (21 bp): TTTTTCTTTTTCTTTTTTTCC Found at i:6609800 original size:21 final size:21 Alignment explanation
Indices: 6609726--6609803 Score: 83 Period size: 21 Copynumber: 3.8 Consensus size: 21 6609716 TCCTTTTTCC * 6609726 CTTTT-TTTTTCT-TTTTCTT 1 CTTTTCTTTTTCTCTTTTATT * 6609745 TTTTTCCTTTTTAC-CTTTTATT 1 CTTTT-CTTTTT-CTCTTTTATT 6609767 CTTTTCTTTTTCTCTTTTATT 1 CTTTTCTTTTTCTCTTTTATT 6609788 CTTTT-TTTCTTCTCTT 1 CTTTTCTTT-TTCTCTT 6609804 AAAAAAGAAT Statistics Matches: 50, Mismatches: 3, Indels: 10 0.79 0.05 0.16 Matches are distributed among these distances: 19 4 0.08 20 4 0.08 21 31 0.62 22 11 0.22 ACGTcount: A:0.04, C:0.19, G:0.00, T:0.77 Consensus pattern (21 bp): CTTTTCTTTTTCTCTTTTATT Found at i:6612980 original size:21 final size:21 Alignment explanation
Indices: 6612951--6612991 Score: 55 Period size: 21 Copynumber: 2.0 Consensus size: 21 6612941 TAGCAAATTA * 6612951 ACAAGTAAATATAAATTATAC 1 ACAAATAAATATAAATTATAC * * 6612972 ACAAATAAATTTTAATTATA 1 ACAAATAAATATAAATTATA 6612992 ATTTACATGT Statistics Matches: 17, Mismatches: 3, Indels: 0 0.85 0.15 0.00 Matches are distributed among these distances: 21 17 1.00 ACGTcount: A:0.56, C:0.07, G:0.02, T:0.34 Consensus pattern (21 bp): ACAAATAAATATAAATTATAC Found at i:6614869 original size:14 final size:14 Alignment explanation
Indices: 6614852--6614878 Score: 54 Period size: 14 Copynumber: 1.9 Consensus size: 14 6614842 TTATAATTTT 6614852 AAATATATATTTAA 1 AAATATATATTTAA 6614866 AAATATATATTTA 1 AAATATATATTTA 6614879 TAATGTATGT Statistics Matches: 13, Mismatches: 0, Indels: 0 1.00 0.00 0.00 Matches are distributed among these distances: 14 13 1.00 ACGTcount: A:0.56, C:0.00, G:0.00, T:0.44 Consensus pattern (14 bp): AAATATATATTTAA Found at i:6615676 original size:68 final size:68 Alignment explanation
Indices: 6615598--6615735 Score: 276 Period size: 68 Copynumber: 2.0 Consensus size: 68 6615588 TTCTTTTCCT 6615598 TTTATTATTAATTTAAAAGTTTAACCTTAAAAGTTTATTATTATTTTTATTTTATAATTATTAAG 1 TTTATTATTAATTTAAAAGTTTAACCTTAAAAGTTTATTATTATTTTTATTTTATAATTATTAAG 6615663 AGA 66 AGA 6615666 TTTATTATTAATTTAAAAGTTTAACCTTAAAAGTTTATTATTATTTTTATTTTATAATTATTAAG 1 TTTATTATTAATTTAAAAGTTTAACCTTAAAAGTTTATTATTATTTTTATTTTATAATTATTAAG 6615731 AGA 66 AGA 6615734 TT 1 TT 6615736 GGTTACTTTT Statistics Matches: 70, Mismatches: 0, Indels: 0 1.00 0.00 0.00 Matches are distributed among these distances: 68 70 1.00 ACGTcount: A:0.38, C:0.03, G:0.06, T:0.54 Consensus pattern (68 bp): TTTATTATTAATTTAAAAGTTTAACCTTAAAAGTTTATTATTATTTTTATTTTATAATTATTAAG AGA Found at i:6616429 original size:20 final size:21 Alignment explanation
Indices: 6616399--6616437 Score: 71 Period size: 20 Copynumber: 1.9 Consensus size: 21 6616389 AATTTTCATA 6616399 ATTTGTATCGATACATTCTTC 1 ATTTGTATCGATACATTCTTC 6616420 ATTT-TATCGATACATTCT 1 ATTTGTATCGATACATTCT 6616438 AAGTTTTACA Statistics Matches: 18, Mismatches: 0, Indels: 1 0.95 0.00 0.05 Matches are distributed among these distances: 20 14 0.78 21 4 0.22 ACGTcount: A:0.26, C:0.18, G:0.08, T:0.49 Consensus pattern (21 bp): ATTTGTATCGATACATTCTTC Found at i:6616483 original size:50 final size:49 Alignment explanation
Indices: 6616402--6616564 Score: 191 Period size: 50 Copynumber: 3.3 Consensus size: 49 6616392 TTTCATAATT * * * * 6616402 TGTATCGATACATTCTTCATTTTATCGATACATTCTAAGTTTTACACTGA 1 TGTATCGATACATTATTCATTGTATCGATACATTCT-AGTTTTACCCAGA * * * 6616452 TGTATCGATACATTATTCATTGTATCAATACATTCTACTTTTACCCAAA 1 TGTATCGATACATTATTCATTGTATCGATACATTCTAGTTTTACCCAGA * * * * * 6616501 TTTATCGATATATTTTTCATTGTATCGATACATTCTGGGTCTTACCCAGA 1 TGTATCGATACATTATTCATTGTATCGATACATTCT-AGTTTTACCCAGA * 6616551 TGTGTCGATACATT 1 TGTATCGATACATT 6616565 CATGCATTTT Statistics Matches: 94, Mismatches: 18, Indels: 2 0.82 0.16 0.02 Matches are distributed among these distances: 49 41 0.44 50 53 0.56 ACGTcount: A:0.28, C:0.18, G:0.11, T:0.43 Consensus pattern (49 bp): TGTATCGATACATTATTCATTGTATCGATACATTCTAGTTTTACCCAGA Found at i:6616520 original size:49 final size:50 Alignment explanation
Indices: 6616402--6616536 Score: 173 Period size: 49 Copynumber: 2.7 Consensus size: 50 6616392 TTTCATAATT * * * ** 6616402 TGTATCGATACATTCTTCATTTTATCGATACATTCTAAGTTTTACACTGA 1 TGTATCGATACATTATTCATTGTATCGATACATTCTAACTTTTACACAAA * * 6616452 TGTATCGATACATTATTCATTGTATCAATACATTCT-ACTTTTACCCAAA 1 TGTATCGATACATTATTCATTGTATCGATACATTCTAACTTTTACACAAA * * * 6616501 TTTATCGATATATTTTTCATTGTATCGATACATTCT 1 TGTATCGATACATTATTCATTGTATCGATACATTCT 6616537 GGGTCTTACC Statistics Matches: 74, Mismatches: 11, Indels: 1 0.86 0.13 0.01 Matches are distributed among these distances: 49 41 0.55 50 33 0.45 ACGTcount: A:0.29, C:0.18, G:0.08, T:0.45 Consensus pattern (50 bp): TGTATCGATACATTATTCATTGTATCGATACATTCTAACTTTTACACAAA Found at i:6617373 original size:46 final size:46 Alignment explanation
Indices: 6617320--6617411 Score: 166 Period size: 46 Copynumber: 2.0 Consensus size: 46 6617310 TTTGGCCATT * 6617320 GATGTCATCTTAGAAGTCCCTTGCTATGCTCATAAACACCTTAGGA 1 GATGTCATCTTAAAAGTCCCTTGCTATGCTCATAAACACCTTAGGA * 6617366 GATGTCATTTTAAAAGTCCCTTGCTATGCTCATAAACACCTTAGGA 1 GATGTCATCTTAAAAGTCCCTTGCTATGCTCATAAACACCTTAGGA 6617412 CTCCCATGCA Statistics Matches: 44, Mismatches: 2, Indels: 0 0.96 0.04 0.00 Matches are distributed among these distances: 46 44 1.00 ACGTcount: A:0.29, C:0.23, G:0.16, T:0.32 Consensus pattern (46 bp): GATGTCATCTTAAAAGTCCCTTGCTATGCTCATAAACACCTTAGGA Found at i:6619089 original size:79 final size:78 Alignment explanation
Indices: 6618988--6619318 Score: 301 Period size: 79 Copynumber: 4.2 Consensus size: 78 6618978 TTCCACCATT * * 6618988 GGGGATACTCCAACCCCATTATTTCCGAGGGGATACTTCAACCCCGGCTTTATTTCTAAAACATT 1 GGGGATACTCCAACCCCATTATTTTCGAGGGGATACTTCAACCCCGGTTTTATTT-TAAAACATT 6619053 AATTTTTCACAATC 65 AATTTTTCACAATC * * * * * ** * 6619067 GGGGATACTCCAATCCCGTTATTTTCGAGAGAATACTCCAACCCAAGTTTTATTTTCAAAACATC 1 GGGGATACTCCAACCCCATTATTTTCGAGGGGATACTTCAACCCCGGTTTTATTTT-AAAACATT 6619132 AATTTTTCACAATC 65 AATTTTTCACAATC * * * * 6619146 AGGGATACTCCCACCCCATTATTTTTGAGGGGATA-TTCCAACCCCGGTTTTATTTTCAAA-ATG 1 GGGGATACTCCAACCCCATTATTTTCGAGGGGATACTT-CAACCCCGGTTTTATTTTAAAACAT- * * 6619209 TCGATTTTTTACAATC 64 T-AATTTTTCACAATC * * ** * * * 6619225 GGGGGATACTCTAACCCCAGTTATTTTTGAGAAGATA-TCCAACCTC-ATTTTATTTCTAAAACA 1 -GGGGATACTCCAACCCCA-TTATTTTCGAGGGGATACTTCAACCCCGGTTTTATTT-TAAAACA ** * * 6619288 CCAATTTTCCACCATC 63 TTAATTTTTCACAATC * * 6619304 AGGGATACTCTAACC 1 GGGGATACTCCAACC 6619319 TTATTTTTTA Statistics Matches: 204, Mismatches: 40, Indels: 17 0.78 0.15 0.07 Matches are distributed among these distances: 77 2 0.01 78 19 0.09 79 141 0.69 80 25 0.12 81 17 0.08 ACGTcount: A:0.29, C:0.25, G:0.13, T:0.33 Consensus pattern (78 bp): GGGGATACTCCAACCCCATTATTTTCGAGGGGATACTTCAACCCCGGTTTTATTTTAAAACATTA ATTTTTCACAATC Found at i:6619257 original size:158 final size:157 Alignment explanation
Indices: 6618956--6619318 Score: 391 Period size: 158 Copynumber: 2.3 Consensus size: 157 6618946 TCATTCGTGT * * * * * ** 6618956 TTTTATTTTTTAAATACCGATTTTCCACCATTGGGGATACTCCAACCCCATTATTTCCGAGGGGA 1 TTTTATTTCTAAAACACCAATTTTCCACAATCAGGGATACTCCAACCCCATTATTTCCGAGGGGA * 6619021 TACTTCAACCCCGGCTTTATTTCTAAAACATTAATTTTTCACAATCGGGGATACTCCAATCCCGT 66 TACTTCAACCCCGGCTTTATTTCTAAAACATTAATTTTTCACAATCGGGGATACTCCAACCCCGT 6619086 TATTTTC-GAG-AGAATACTCCAACC-CAA 131 TATTTTCAGAGAAG-ATA-TCCAACCTC-A * * * ** 6619113 GTTTTATTT-TCAAAACATCAATTTTTCACAATCAGGGATACTCCCACCCCATTATTTTTGAGGG 1 -TTTTATTTCT-AAAACACCAATTTTCCACAATCAGGGATACTCCAACCCCATTATTTCCGAGGG * * * * * 6619177 GATA-TTCCAACCCCGGTTTTATTT-TCAAA-ATGTCGATTTTTTACAATCGGGGGATACTCTAA 64 GATACTT-CAACCCCGGCTTTATTTCTAAAACAT-T-AATTTTTCACAATC-GGGGATACTCCAA * 6619239 CCCCAGTTATTTT-TGAGAAGATATCCAACCTCA 125 CCCC-GTTATTTTCAGAGAAGATATCCAACCTCA * * 6619272 TTTTATTTCTAAAACACCAATTTTCCACCATCAGGGATACTCTAACC 1 TTTTATTTCTAAAACACCAATTTTCCACAATCAGGGATACTCCAACC 6619319 TTATTTTTTA Statistics Matches: 173, Mismatches: 22, Indels: 20 0.80 0.10 0.09 Matches are distributed among these distances: 156 2 0.01 157 8 0.05 158 122 0.71 159 24 0.14 160 15 0.09 161 2 0.01 ACGTcount: A:0.29, C:0.24, G:0.12, T:0.35 Consensus pattern (157 bp): TTTTATTTCTAAAACACCAATTTTCCACAATCAGGGATACTCCAACCCCATTATTTCCGAGGGGA TACTTCAACCCCGGCTTTATTTCTAAAACATTAATTTTTCACAATCGGGGATACTCCAACCCCGT TATTTTCAGAGAAGATATCCAACCTCA Found at i:6619346 original size:52 final size:50 Alignment explanation
Indices: 6619265--6619434 Score: 202 Period size: 51 Copynumber: 3.3 Consensus size: 50 6619255 GAAGATATCC * * 6619265 AACCTCA-TTTTATTTCTAAAACACCAATTTTCCACCATCAGGGATACTCT 1 AACCTCAGTTTTATTTCTAAAACA-CAATTTTCCACAATCGGGGATACTCT * * * * 6619315 AACCTTATTTTTTATTTCTAAAACACAAATTTTCCATAATCGGGGATA-TTT 1 AACCTCA-GTTTTATTTCTAAAACAC-AATTTTCCACAATCGGGGATACTCT * 6619366 CAACCTCAGTTTTATTTCTAAAATATCAATTTTCCACAATCGGGGATACTCT 1 -AACCTCAGTTTTATTTCTAAAACA-CAATTTTCCACAATCGGGGATACTCT 6619418 AACC-CAGGTTTTATTTC 1 AACCTCA-GTTTTATTTC 6619435 CCAAATACTG Statistics Matches: 103, Mismatches: 10, Indels: 13 0.82 0.08 0.10 Matches are distributed among these distances: 50 8 0.08 51 52 0.50 52 43 0.42 ACGTcount: A:0.31, C:0.22, G:0.08, T:0.38 Consensus pattern (50 bp): AACCTCAGTTTTATTTCTAAAACACAATTTTCCACAATCGGGGATACTCT Found at i:6619441 original size:51 final size:51 Alignment explanation
Indices: 6619265--6619463 Score: 199 Period size: 51 Copynumber: 3.9 Consensus size: 51 6619255 GAAGATATCC * * * * 6619265 AACCTCA-TTTTATTTCTAAAACACCAATTTTCCACCATCAGGGATACTCT 1 AACCTCAGTTTTATTTCTAAAATACAAATTTTCCACAATCGGGGATACTCT * * * * * 6619315 AACCTTATTTTTTATTTCTAAAACACAAATTTTCCATAATCGGGGATA-TTT 1 AACCTCA-GTTTTATTTCTAAAATACAAATTTTCCACAATCGGGGATACTCT 6619366 CAACCTCAGTTTTATTTCTAAAATATC-AATTTTCCACAATCGGGGATACTCT 1 -AACCTCAGTTTTATTTCTAAAATA-CAAATTTTCCACAATCGGGGATACTCT ** ** * * 6619418 AACC-CAGGTTTTATTTCCCAAATACTGATTTTTCACTATCGGGGAT 1 AACCTCA-GTTTTATTTCTAAAATACAAATTTTCCACAATCGGGGAT 6619464 GCCCCAACCC Statistics Matches: 126, Mismatches: 16, Indels: 13 0.81 0.10 0.08 Matches are distributed among these distances: 50 9 0.07 51 73 0.58 52 44 0.35 ACGTcount: A:0.31, C:0.22, G:0.10, T:0.38 Consensus pattern (51 bp): AACCTCAGTTTTATTTCTAAAATACAAATTTTCCACAATCGGGGATACTCT Found at i:6619451 original size:103 final size:101 Alignment explanation
Indices: 6619264--6619463 Score: 242 Period size: 103 Copynumber: 2.0 Consensus size: 101 6619254 AGAAGATATC * * ** 6619264 CAACCTCATTTTATTTCTAAAACACCAATTTTCCACCATCAGGGATACTCTAACCTTATTTTTTA 1 CAACCTCATTTTATTTCTAAAACACCAATTTTCCACAATCAGGGATACTCTAACCTCAGGTTTTA * 6619329 TTTCTAAAACACAAATTTTC-CATAATCGGGGATATTT 66 TTTCCAAAACACAAATTTTCAC-T-ATCGGGGATATTT * * * 6619366 CAACCTCAGTTTTATTTCTAAAATATCAATTTTCCACAATCGGGGATACTCTAACC-CAGGTTTT 1 CAACCTCA-TTTTATTTCTAAAACACCAATTTTCCACAATCAGGGATACTCTAACCTCAGGTTTT * * * * 6619430 ATTTCCCAAATACTGATTTTTCACTATCGGGGAT 65 ATTTCCAAAACAC-AAATTTTCACTATCGGGGAT 6619464 GCCCCAACCC Statistics Matches: 83, Mismatches: 12, Indels: 6 0.82 0.12 0.06 Matches are distributed among these distances: 102 32 0.39 103 50 0.60 104 1 0.01 ACGTcount: A:0.30, C:0.23, G:0.10, T:0.38 Consensus pattern (101 bp): CAACCTCATTTTATTTCTAAAACACCAATTTTCCACAATCAGGGATACTCTAACCTCAGGTTTTA TTTCCAAAACACAAATTTTCACTATCGGGGATATTT Found at i:6619628 original size:149 final size:151 Alignment explanation
Indices: 6619412--6619695 Score: 362 Period size: 149 Copynumber: 1.9 Consensus size: 151 6619402 CAATCGGGGA * * * * * * 6619412 TACTCTAACCCAGGTTTTATTTCCCAAATACTGATTTTTCACTATCGGGGATGCCCCAACCCTAT 1 TACTCTAACCCAGGTTTTATTTCCAAAACACTGATTTTTCACAATCGAGGATACCCCAACCCCAT * * * 6619477 TATTTCTGAGGGGATACTCCAA-CTCCGATTTTATTTCTAAAACATTGA-TTTTCA-CAATCAGG 66 TATTTCTGAGGGAATACTCCAACCT-CGATTTTATTTCTAAAACACTAATTTTTCATC-ATCAGG 6619539 GATACTCGTTATTTCTGGGAGGG 129 GATACTCGTTATTTCTGGGAGGG * * * 6619562 TACTCTAACCTA-GTTTTATTTCCAAAACATTGA-TTTTCTACAATCGAGGATACTCCAACCCCA 1 TACTCTAACCCAGGTTTTATTTCCAAAACACTGATTTTTC-ACAATCGAGGATACCCCAACCCCA * ** * 6619625 TTATTTTTGAGGGAATACTTTAACCTCGGTTTTATTTCTAAAACACTAATTTTTCATCATCAGGG 65 TTATTTCTGAGGGAATACTCCAACCTCGATTTTATTTCTAAAACACTAATTTTTCATCATCAGGG 6619690 ATACTC 130 ATACTC 6619696 CAACCTCGTT Statistics Matches: 114, Mismatches: 16, Indels: 8 0.83 0.12 0.06 Matches are distributed among these distances: 148 5 0.04 149 76 0.67 150 32 0.28 151 1 0.01 ACGTcount: A:0.27, C:0.22, G:0.14, T:0.37 Consensus pattern (151 bp): TACTCTAACCCAGGTTTTATTTCCAAAACACTGATTTTTCACAATCGAGGATACCCCAACCCCAT TATTTCTGAGGGAATACTCCAACCTCGATTTTATTTCTAAAACACTAATTTTTCATCATCAGGGA TACTCGTTATTTCTGGGAGGG Found at i:6632192 original size:18 final size:17 Alignment explanation
Indices: 6632155--6632215 Score: 70 Period size: 18 Copynumber: 3.5 Consensus size: 17 6632145 TTCTTTTGGT * * 6632155 AAAAAAAAAAA-AACAA 1 AAAAAAAAAAAGAAGAG * 6632171 AAAAACAAAAAATAAGAG 1 AAAAA-AAAAAAGAAGAG 6632189 AAAAAAAGAAAAGAAGAG 1 AAAAAAA-AAAAGAAGAG 6632207 AAAAAAAAA 1 AAAAAAAAA 6632216 CCTATTTAAG Statistics Matches: 39, Mismatches: 3, Indels: 5 0.83 0.06 0.11 Matches are distributed among these distances: 16 5 0.13 17 10 0.26 18 24 0.62 ACGTcount: A:0.85, C:0.03, G:0.10, T:0.02 Consensus pattern (17 bp): AAAAAAAAAAAGAAGAG Found at i:6632748 original size:61 final size:61 Alignment explanation
Indices: 6632650--6633131 Score: 594 Period size: 61 Copynumber: 8.0 Consensus size: 61 6632640 AACCTTTTAT * * * * * 6632650 CCTTTCAGTCCTCGAAGAGTAGGATGCCTTTTCCTTTTAAAGCCCACACAAGTTGGTGGTA 1 CCTTTCAGTCCTCAAAGAGCAGGACGTCTTTTCCTTTTAAAGCCCACACAAGTTGGTGGCA * * * 6632711 CCTTTTAGTCCTCAAAGAGCAGGACGTCTTTTTCTTTTAAAGCACACACAAGTTGGTGGCA 1 CCTTTCAGTCCTCAAAGAGCAGGACGTCTTTTCCTTTTAAAGCCCACACAAGTTGGTGGCA * * * * 6632772 CCTTTCAGTCCTCAAAGAGTATGATG-CTTTTCCTTTTAAAGCCCACATAAGTTGGTGGCA 1 CCTTTCAGTCCTCAAAGAGCAGGACGTCTTTTCCTTTTAAAGCCCACACAAGTTGGTGGCA ** * * * 6632832 CCTTTCAGTCCTCGAAA-AAAAGGACGCCTTTTCCTTTTAAAGCCCACTCAAGTTGGTGGAA 1 CCTTTCAGTCCTC-AAAGAGCAGGACGTCTTTTCCTTTTAAAGCCCACACAAGTTGGTGGCA * * * * 6632893 CATTTCAGTCCTCAAAGAGCAAGACGTCTTTTTCTTTTAAAGCCTACACAAGTTGGTGGCA 1 CCTTTCAGTCCTCAAAGAGCAGGACGTCTTTTCCTTTTAAAGCCCACACAAGTTGGTGGCA * * * 6632954 CCTTTCAGTCCTTAAAGAGCAGGACGT-TTTTCCTTTTAAAGCCTATACAAGTTGGTGGCA 1 CCTTTCAGTCCTCAAAGAGCAGGACGTCTTTTCCTTTTAAAGCCCACACAAGTTGGTGGCA * * * ** * * 6633014 CCTTTTAGTCCTCGAAGAGTAAAACGTCTTTT-TTTTTAAAGCCCACACAAGTTGGTGGTA 1 CCTTTCAGTCCTCAAAGAGCAGGACGTCTTTTCCTTTTAAAGCCCACACAAGTTGGTGGCA * * * * * * 6633074 CATTTCAATCCTTAAAGAGCATGACGTCTTTTCCTTTTAAAGCCTATACAAGTTGGTG 1 CCTTTCAGTCCTCAAAGAGCAGGACGTCTTTTCCTTTTAAAGCCCACACAAGTTGGTG 6633132 TCGTGACGTG Statistics Matches: 359, Mismatches: 57, Indels: 10 0.84 0.13 0.02 Matches are distributed among these distances: 60 152 0.42 61 207 0.58 ACGTcount: A:0.26, C:0.23, G:0.19, T:0.32 Consensus pattern (61 bp): CCTTTCAGTCCTCAAAGAGCAGGACGTCTTTTCCTTTTAAAGCCCACACAAGTTGGTGGCA Found at i:6632869 original size:121 final size:122 Alignment explanation
Indices: 6632650--6633131 Score: 623 Period size: 121 Copynumber: 4.0 Consensus size: 122 6632640 AACCTTTTAT * * * * * 6632650 CCTTTCAGTCCTCGAAGAGTAGGATGCCTTTTCCTTTTAAAGCCCACACAAGTTGGTGGTACCTT 1 CCTTTCAGTCCTCAAAGAGTAAGACGTCTTTTCCTTTTAAAGCCCACACAAGTTGGTGGCACCTT * * * 6632715 TTAGTCCTCAAAGAGCAGGACGTCTTTTTCTTTTAAAGCAC-ACACAAGTTGGTGGCA 66 TCAGTCCTTAAAGAGCAGGACGTCTTTTCCTTTTAAAGC-CTACACAAGTTGGTGGCA * * * 6632772 CCTTTCAGTCCTCAAAGAGTATGATG-CTTTTCCTTTTAAAGCCCACATAAGTTGGTGGCACCTT 1 CCTTTCAGTCCTCAAAGAGTAAGACGTCTTTTCCTTTTAAAGCCCACACAAGTTGGTGGCACCTT * ** * * * * 6632836 TCAGTCCTCGAAA-AAAAGGACGCCTTTTCCTTTTAAAGCCCACTCAAGTTGGTGGAA 66 TCAGTCCT-TAAAGAGCAGGACGTCTTTTCCTTTTAAAGCCTACACAAGTTGGTGGCA * * * * 6632893 CATTTCAGTCCTCAAAGAGCAAGACGTCTTTTTCTTTTAAAGCCTACACAAGTTGGTGGCACCTT 1 CCTTTCAGTCCTCAAAGAGTAAGACGTCTTTTCCTTTTAAAGCCCACACAAGTTGGTGGCACCTT * 6632958 TCAGTCCTTAAAGAGCAGGACGT-TTTTCCTTTTAAAGCCTATACAAGTTGGTGGCA 66 TCAGTCCTTAAAGAGCAGGACGTCTTTTCCTTTTAAAGCCTACACAAGTTGGTGGCA * * * * * * 6633014 CCTTTTAGTCCTCGAAGAGTAAAACGTCTTTT-TTTTTAAAGCCCACACAAGTTGGTGGTACATT 1 CCTTTCAGTCCTCAAAGAGTAAGACGTCTTTTCCTTTTAAAGCCCACACAAGTTGGTGGCACCTT * * * 6633078 TCAATCCTTAAAGAGCATGACGTCTTTTCCTTTTAAAGCCTATACAAGTTGGTG 66 TCAGTCCTTAAAGAGCAGGACGTCTTTTCCTTTTAAAGCCTACACAAGTTGGTG 6633132 TCGTGACGTG Statistics Matches: 317, Mismatches: 38, Indels: 11 0.87 0.10 0.03 Matches are distributed among these distances: 120 50 0.16 121 190 0.60 122 77 0.24 ACGTcount: A:0.26, C:0.23, G:0.19, T:0.32 Consensus pattern (122 bp): CCTTTCAGTCCTCAAAGAGTAAGACGTCTTTTCCTTTTAAAGCCCACACAAGTTGGTGGCACCTT TCAGTCCTTAAAGAGCAGGACGTCTTTTCCTTTTAAAGCCTACACAAGTTGGTGGCA Found at i:6632957 original size:182 final size:182 Alignment explanation
Indices: 6632650--6633131 Score: 675 Period size: 182 Copynumber: 2.7 Consensus size: 182 6632640 AACCTTTTAT * ** * * 6632650 CCTTTCAGTCCTCGAAGAGTAGGATGCCTTTTCCTTTTAAAGCCCACACAAGTTGGTGGTACCTT 1 CCTTTCAGTCCTCGAAAAAAAGGACGCCTTTTCCTTTTAAAGCCCACACAAGTTGGTGGTACATT * * 6632715 TTAGTCCTCAAAGAGCAGGACGTCTTTTTCTTTTAAAGCAC-ACACAAGTTGGTGGCACCTTTCA 66 TCAGTCCTCAAAGAGCAAGACGTCTTTTTCTTTTAAAGC-CTACACAAGTTGGTGGCACCTTTCA * * * * 6632779 GTCCTCAAAGAGTATGATGCTTTTCCTTTTAAAGCCCACATAAGTTGGTGGCA 130 GTCCTCAAAGAGCAGGACGCTTTTCCTTTTAAAGCCCACACAAGTTGGTGGCA * * 6632832 CCTTTCAGTCCTCGAAAAAAAGGACGCCTTTTCCTTTTAAAGCCCACTCAAGTTGGTGGAACATT 1 CCTTTCAGTCCTCGAAAAAAAGGACGCCTTTTCCTTTTAAAGCCCACACAAGTTGGTGGTACATT 6632897 TCAGTCCTCAAAGAGCAAGACGTCTTTTTCTTTTAAAGCCTACACAAGTTGGTGGCACCTTTCAG 66 TCAGTCCTCAAAGAGCAAGACGTCTTTTTCTTTTAAAGCCTACACAAGTTGGTGGCACCTTTCAG * * * * 6632962 TCCTTAAAGAGCAGGACGTTTTTCCTTTTAAAGCCTATACAAGTTGGTGGCA 131 TCCTCAAAGAGCAGGACGCTTTTCCTTTTAAAGCCCACACAAGTTGGTGGCA * * * * 6633014 CCTTTTAGTCCTCGAAGAGTAAA--ACGTCTTTT-TTTTTAAAGCCCACACAAGTTGGTGGTACA 1 CCTTTCAGTCCTCGAA-A-AAAAGGACGCCTTTTCCTTTTAAAGCCCACACAAGTTGGTGGTACA * * * * * 6633076 TTTCAATCCTTAAAGAGCATGACGTCTTTTCCTTTTAAAGCCTATACAAGTTGGTG 64 TTTCAGTCCTCAAAGAGCAAGACGTCTTTTTCTTTTAAAGCCTACACAAGTTGGTG 6633132 TCGTGACGTG Statistics Matches: 269, Mismatches: 28, Indels: 7 0.88 0.09 0.02 Matches are distributed among these distances: 181 79 0.29 182 186 0.69 183 1 0.00 184 3 0.01 ACGTcount: A:0.26, C:0.23, G:0.19, T:0.32 Consensus pattern (182 bp): CCTTTCAGTCCTCGAAAAAAAGGACGCCTTTTCCTTTTAAAGCCCACACAAGTTGGTGGTACATT TCAGTCCTCAAAGAGCAAGACGTCTTTTTCTTTTAAAGCCTACACAAGTTGGTGGCACCTTTCAG TCCTCAAAGAGCAGGACGCTTTTCCTTTTAAAGCCCACACAAGTTGGTGGCA Found at i:6636503 original size:20 final size:20 Alignment explanation
Indices: 6636478--6636552 Score: 132 Period size: 20 Copynumber: 3.8 Consensus size: 20 6636468 ATTTACCTGC 6636478 ATGTATCGATACATTGAAGA 1 ATGTATCGATACATTGAAGA * 6636498 ATGTATCGATACGTTGAAGA 1 ATGTATCGATACATTGAAGA 6636518 ATGTATCGATACATTGAAGA 1 ATGTATCGATACATTGAAGA * 6636538 ATGTATCGAAACATT 1 ATGTATCGATACATT 6636553 TGGGTTAAAA Statistics Matches: 52, Mismatches: 3, Indels: 0 0.95 0.05 0.00 Matches are distributed among these distances: 20 52 1.00 ACGTcount: A:0.39, C:0.11, G:0.20, T:0.31 Consensus pattern (20 bp): ATGTATCGATACATTGAAGA Found at i:6637815 original size:22 final size:22 Alignment explanation
Indices: 6637787--6637832 Score: 92 Period size: 22 Copynumber: 2.1 Consensus size: 22 6637777 TTCTTTGAAA 6637787 TTTACATGATTGAACCTAATCT 1 TTTACATGATTGAACCTAATCT 6637809 TTTACATGATTGAACCTAATCT 1 TTTACATGATTGAACCTAATCT 6637831 TT 1 TT 6637833 CATGGCCTAA Statistics Matches: 24, Mismatches: 0, Indels: 0 1.00 0.00 0.00 Matches are distributed among these distances: 22 24 1.00 ACGTcount: A:0.30, C:0.17, G:0.09, T:0.43 Consensus pattern (22 bp): TTTACATGATTGAACCTAATCT Found at i:6642211 original size:21 final size:20 Alignment explanation
Indices: 6642185--6642223 Score: 60 Period size: 20 Copynumber: 1.9 Consensus size: 20 6642175 AGGTCAAAAC 6642185 CCTAGAAAGTATCGATACACA 1 CCTAG-AAGTATCGATACACA * 6642206 CCTAGATGTATCGATACA 1 CCTAGAAGTATCGATACA 6642224 TGCTCATTGT Statistics Matches: 17, Mismatches: 1, Indels: 1 0.89 0.05 0.05 Matches are distributed among these distances: 20 12 0.71 21 5 0.29 ACGTcount: A:0.38, C:0.23, G:0.15, T:0.23 Consensus pattern (20 bp): CCTAGAAGTATCGATACACA Found at i:6642322 original size:20 final size:20 Alignment explanation
Indices: 6642293--6642345 Score: 72 Period size: 20 Copynumber: 2.6 Consensus size: 20 6642283 CTAAGTGAAA * * 6642293 TGTATTGATACATG-GGACAT 1 TGTATCGATACATGAAGA-AT 6642313 TGTATCGATACATGAAGAAT 1 TGTATCGATACATGAAGAAT 6642333 TGTATCGATACAT 1 TGTATCGATACAT 6642346 TATGCCCAAC Statistics Matches: 30, Mismatches: 2, Indels: 2 0.88 0.06 0.06 Matches are distributed among these distances: 20 28 0.93 21 2 0.07 ACGTcount: A:0.34, C:0.11, G:0.21, T:0.34 Consensus pattern (20 bp): TGTATCGATACATGAAGAAT Found at i:6643343 original size:13 final size:13 Alignment explanation
Indices: 6643325--6643349 Score: 50 Period size: 13 Copynumber: 1.9 Consensus size: 13 6643315 TAGCCAAACT 6643325 TGTATCGATACAA 1 TGTATCGATACAA 6643338 TGTATCGATACA 1 TGTATCGATACA 6643350 CAAAAAATTG 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:0.36, C:0.16, G:0.16, T:0.32 Consensus pattern (13 bp): TGTATCGATACAA Found at i:6645600 original size:21 final size:21 Alignment explanation
Indices: 6645567--6645611 Score: 56 Period size: 21 Copynumber: 2.1 Consensus size: 21 6645557 TTGCAAGTTG * 6645567 AAATAAAGAAGTTGGCTAATGA 1 AAATAAAGAAGTTAGCTAA-GA * 6645589 AAATAATG-AGTTAGCTAAGA 1 AAATAAAGAAGTTAGCTAAGA 6645609 AAA 1 AAA 6645612 ATGAAAACTT Statistics Matches: 21, Mismatches: 2, Indels: 2 0.84 0.08 0.08 Matches are distributed among these distances: 20 5 0.24 21 9 0.43 22 7 0.33 ACGTcount: A:0.53, C:0.04, G:0.20, T:0.22 Consensus pattern (21 bp): AAATAAAGAAGTTAGCTAAGA Found at i:6647435 original size:15 final size:15 Alignment explanation
Indices: 6647415--6647445 Score: 53 Period size: 15 Copynumber: 2.1 Consensus size: 15 6647405 TAAAAATGTC * 6647415 CAAAATGAGGAAGCT 1 CAAAATGAAGAAGCT 6647430 CAAAATGAAGAAGCT 1 CAAAATGAAGAAGCT 6647445 C 1 C 6647446 CAAACGAAAT 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:0.48, C:0.16, G:0.23, T:0.13 Consensus pattern (15 bp): CAAAATGAAGAAGCT Found at i:6651325 original size:13 final size:13 Alignment explanation
Indices: 6651307--6651332 Score: 52 Period size: 13 Copynumber: 2.0 Consensus size: 13 6651297 TACAGCAAGT 6651307 ATGTATCGATACA 1 ATGTATCGATACA 6651320 ATGTATCGATACA 1 ATGTATCGATACA 6651333 CAAAAAATTG Statistics Matches: 13, Mismatches: 0, Indels: 0 1.00 0.00 0.00 Matches are distributed among these distances: 13 13 1.00 ACGTcount: A:0.38, C:0.15, G:0.15, T:0.31 Consensus pattern (13 bp): ATGTATCGATACA Found at i:6653848 original size:28 final size:28 Alignment explanation
Indices: 6653808--6653878 Score: 97 Period size: 28 Copynumber: 2.5 Consensus size: 28 6653798 GAATAAAGCT ** * 6653808 GGGGTTGGAGTATCCCCTCGGAAGTAAC 1 GGGGTTGGAGTATCCCCGAGGAAATAAC * 6653836 GGGGTTGGAGTATCCCCGATGAAATAAC 1 GGGGTTGGAGTATCCCCGAGGAAATAAC * 6653864 GAGGTTGGAGTATCC 1 GGGGTTGGAGTATCC 6653879 TCGATTGTGA Statistics Matches: 38, Mismatches: 5, Indels: 0 0.88 0.12 0.00 Matches are distributed among these distances: 28 38 1.00 ACGTcount: A:0.24, C:0.18, G:0.35, T:0.23 Consensus pattern (28 bp): GGGGTTGGAGTATCCCCGAGGAAATAAC Found at i:6653999 original size:52 final size:52 Alignment explanation
Indices: 6653867--6654249 Score: 236 Period size: 52 Copynumber: 7.3 Consensus size: 52 6653857 AAATAACGAG * * * * 6653867 GTTGGAGTATCCTCGATTGT-GAAAAATTGGTATTTTTGGAAATAAAATCAGGA 1 GTTGGAGTATCCCCGATTGTGGAAAAATTGG-AGTTTTGAAAATAAAA-CCGGA ** * 6653920 GTTGGAGTATCCCCGATTAAAGG-AAAATTGGCGTTTTGAAAATAAAACCAGGA 1 GTTGGAGTATCCCCGATT-GTGGAAAAATTGGAGTTTTGAAAATAAAACC-GGA * * * ** 6653973 -TTGGAGTATCCCCAATTGTGGAAAAATTAGTGTTTT-AGCGATAAAACCGGA 1 GTTGGAGTATCCCCGATTGTGGAAAAATTGGAGTTTTGA-AAATAAAACCGGA * ** ** * * 6654024 GTTGGAGTATCCCC---T-CGGAAATAACGGGGTTGGAGTATCCCCGATGAT-TAA-CGGG 1 GTTGGAGTATCCCCGATTGTGGAAA-AA-----TTGGAGT-T--TTGAAAATAAAACCGGA * * * 6654079 GTTGGAGTATCCCCGATTGT-GAAGAAATTGGTATTTTTGGAAATAAAATCGGA 1 GTTGGAGTATCCCCGATTGTGGAA-AAATTGG-AGTTTTGAAAATAAAACCGGA ** * 6654132 GTTGGAGTATCCCCGATTAAAGG-AAAATTGGCGTTTTGAAAATAAAACCAGGA 1 GTTGGAGTATCCCCGATT-GTGGAAAAATTGGAGTTTTGAAAATAAAACC-GGA * * ** 6654185 -TTGGAGTATCCCCGATTGTGGAAAAATTAGCGTTTT-AGTGATAAAACCGGA 1 GTTGGAGTATCCCCGATTGTGGAAAAATTGGAGTTTTGA-AAATAAAACCGGA 6654236 GTTGGAGTATCCCC 1 GTTGGAGTATCCCC 6654250 TCGAAAATAA Statistics Matches: 258, Mismatches: 42, Indels: 61 0.71 0.12 0.17 Matches are distributed among these distances: 48 5 0.02 49 3 0.01 51 15 0.06 52 117 0.45 53 69 0.27 54 16 0.06 55 20 0.08 56 2 0.01 57 3 0.01 58 7 0.03 59 1 0.00 ACGTcount: A:0.32, C:0.14, G:0.26, T:0.28 Consensus pattern (52 bp): GTTGGAGTATCCCCGATTGTGGAAAAATTGGAGTTTTGAAAATAAAACCGGA Found at i:6654064 original size:28 final size:27 Alignment explanation
Indices: 6654024--6654094 Score: 97 Period size: 27 Copynumber: 2.6 Consensus size: 27 6654014 TAAAACCGGA ** 6654024 GTTGGAGTATCCCCTCGGAAATAACGGG 1 GTTGGAGTATCCCCGAGG-AATAACGGG * * 6654052 GTTGGAGTATCCCCGATGATTAACGGG 1 GTTGGAGTATCCCCGAGGAATAACGGG 6654079 GTTGGAGTATCCCCGA 1 GTTGGAGTATCCCCGA 6654095 TTGTGAAGAA Statistics Matches: 39, Mismatches: 4, Indels: 1 0.89 0.09 0.02 Matches are distributed among these distances: 27 24 0.62 28 15 0.38 ACGTcount: A:0.23, C:0.21, G:0.32, T:0.24 Consensus pattern (27 bp): GTTGGAGTATCCCCGAGGAATAACGGG Found at i:6654150 original size:212 final size:212 Alignment explanation
Indices: 6653811--6654419 Score: 990 Period size: 212 Copynumber: 2.9 Consensus size: 212 6653801 TAAAGCTGGG * * * 6653811 GTTGGAGTATCCCCTCGGAAGTAACGGGGTTGGAGTATCCCCGATGAAATAACGAGGTTGGAGTA 1 GTTGGAGTATCCCCTCGGAAATAACGGGGTTGGAGTATCCCCGATG-ATTAACGGGGTTGGAGTA * 6653876 TCCTCGATTGTGAA-AAATTGGTATTTTTGGAAATAAAATCAGGAGTTGGAGTATCCCCGATTAA 65 TCCCCGATTGTGAAGAAATTGGTATTTTTGGAAATAAAATC-GGAGTTGGAGTATCCCCGATTAA * * 6653940 AGGAAAATTGGCGTTTTGAAAATAAAACCAGGATTGGAGTATCCCCAATTGTGGAAAAATTAGTG 129 AGGAAAATTGGCGTTTTGAAAATAAAACCAGGATTGGAGTATCCCCGATTGTGGAAAAATTAGCG 6654005 TTTTAGCGATAAAACCGGA 194 TTTTAGCGATAAAACCGGA 6654024 GTTGGAGTATCCCCTCGGAAATAACGGGGTTGGAGTATCCCCGATGATTAACGGGGTTGGAGTAT 1 GTTGGAGTATCCCCTCGGAAATAACGGGGTTGGAGTATCCCCGATGATTAACGGGGTTGGAGTAT 6654089 CCCCGATTGTGAAGAAATTGGTATTTTTGGAAATAAAATCGGAGTTGGAGTATCCCCGATTAAAG 66 CCCCGATTGTGAAGAAATTGGTATTTTTGGAAATAAAATCGGAGTTGGAGTATCCCCGATTAAAG 6654154 GAAAATTGGCGTTTTGAAAATAAAACCAGGATTGGAGTATCCCCGATTGTGGAAAAATTAGCGTT 131 GAAAATTGGCGTTTTGAAAATAAAACCAGGATTGGAGTATCCCCGATTGTGGAAAAATTAGCGTT * 6654219 TTAGTGATAAAACCGGA 196 TTAGCGATAAAACCGGA * 6654236 GTTGGAGTATCCCCTCGAAAATAACGGGGTTGGAGTATCCCCGATGATTAACGGGGTTGGAGTAT 1 GTTGGAGTATCCCCTCGGAAATAACGGGGTTGGAGTATCCCCGATGATTAACGGGGTTGGAGTAT * * * * * 6654301 CCCCGATTGTGAAGAAATTGGTGTTTTTTTGGAAATAAAATCGGAGTTAGATTATCCCCGAATAT 66 CCCCGATTGTGAAGAAATT-G-GTATTTTTGGAAATAAAATCGGAGTTGGAGTATCCCCGATTAA * * * * * 6654366 A-GAAAATTAGTGTTTTGAAAATAAAATC-GGAGTTGGAATATCCTCGATTGTGGA 129 AGGAAAATTGGCGTTTTGAAAATAAAACCAGGA-TTGGAGTATCCCCGATTGTGGA 6654420 GAATTGATAA Statistics Matches: 374, Mismatches: 18, Indels: 8 0.94 0.05 0.02 Matches are distributed among these distances: 212 219 0.59 213 116 0.31 214 39 0.10 ACGTcount: A:0.32, C:0.14, G:0.27, T:0.28 Consensus pattern (212 bp): GTTGGAGTATCCCCTCGGAAATAACGGGGTTGGAGTATCCCCGATGATTAACGGGGTTGGAGTAT CCCCGATTGTGAAGAAATTGGTATTTTTGGAAATAAAATCGGAGTTGGAGTATCCCCGATTAAAG GAAAATTGGCGTTTTGAAAATAAAACCAGGATTGGAGTATCCCCGATTGTGGAAAAATTAGCGTT TTAGCGATAAAACCGGA Found at i:6654268 original size:28 final size:28 Alignment explanation
Indices: 6654236--6654304 Score: 97 Period size: 27 Copynumber: 2.5 Consensus size: 28 6654226 TAAAACCGGA 6654236 GTTGGAGTATCCCCTCGA-AAATAACGGG 1 GTTGGAGTATCCCC-CGATAAATAACGGG * * 6654264 GTTGGAGTAT-CCCCGATGATTAACGGG 1 GTTGGAGTATCCCCCGATAAATAACGGG 6654291 GTTGGAGTATCCCC 1 GTTGGAGTATCCCC 6654305 GATTGTGAAG Statistics Matches: 37, Mismatches: 2, Indels: 4 0.86 0.05 0.09 Matches are distributed among these distances: 26 3 0.08 27 21 0.57 28 13 0.35 ACGTcount: A:0.23, C:0.22, G:0.30, T:0.25 Consensus pattern (28 bp): GTTGGAGTATCCCCCGATAAATAACGGG Found at i:6656786 original size:20 final size:20 Alignment explanation
Indices: 6656761--6656853 Score: 105 Period size: 20 Copynumber: 4.7 Consensus size: 20 6656751 AAATTTCCAA * 6656761 ATGTATCAATACAAAGATCC 1 ATGTATCGATACAAAGATCC * *** 6656781 ATGTATCGATACACAGAAAA 1 ATGTATCGATACAAAGATCC 6656801 ATGTATCGATACAAAGATCC 1 ATGTATCGATACAAAGATCC * *** 6656821 ATGTATCGATACACAGAAAA 1 ATGTATCGATACAAAGATCC 6656841 ATGTATCGATACA 1 ATGTATCGATACA 6656854 TTTCCTTGGC Statistics Matches: 60, Mismatches: 13, Indels: 0 0.82 0.18 0.00 Matches are distributed among these distances: 20 60 1.00 ACGTcount: A:0.45, C:0.17, G:0.14, T:0.24 Consensus pattern (20 bp): ATGTATCGATACAAAGATCC Found at i:6656814 original size:40 final size:40 Alignment explanation
Indices: 6656759--6656853 Score: 181 Period size: 40 Copynumber: 2.4 Consensus size: 40 6656749 TAAAATTTCC * 6656759 AAATGTATCAATACAAAGATCCATGTATCGATACACAGAA 1 AAATGTATCGATACAAAGATCCATGTATCGATACACAGAA 6656799 AAATGTATCGATACAAAGATCCATGTATCGATACACAGAA 1 AAATGTATCGATACAAAGATCCATGTATCGATACACAGAA 6656839 AAATGTATCGATACA 1 AAATGTATCGATACA 6656854 TTTCCTTGGC Statistics Matches: 54, Mismatches: 1, Indels: 0 0.98 0.02 0.00 Matches are distributed among these distances: 40 54 1.00 ACGTcount: A:0.46, C:0.17, G:0.14, T:0.23 Consensus pattern (40 bp): AAATGTATCGATACAAAGATCCATGTATCGATACACAGAA Found at i:6656897 original size:19 final size:18 Alignment explanation
Indices: 6656873--6656940 Score: 83 Period size: 19 Copynumber: 3.9 Consensus size: 18 6656863 CAGTAGCTAA 6656873 TTATGTATCGATACAATAC 1 TTATGTATCGATACAA-AC 6656892 TTATGTATCGATAC--A- 1 TTATGTATCGATACAAAC 6656907 -T-TGTATCGATACAAAAC 1 TTATGTATCGATAC-AAAC 6656924 TTATGTATCGATACAAA 1 TTATGTATCGATACAAA 6656941 TCGTTGAATT Statistics Matches: 43, Mismatches: 0, Indels: 13 0.77 0.00 0.23 Matches are distributed among these distances: 13 11 0.26 14 1 0.02 16 2 0.05 18 4 0.09 19 25 0.58 ACGTcount: A:0.38, C:0.15, G:0.12, T:0.35 Consensus pattern (18 bp): TTATGTATCGATACAAAC Found at i:6656913 original size:13 final size:13 Alignment explanation
Indices: 6656895--6656919 Score: 50 Period size: 13 Copynumber: 1.9 Consensus size: 13 6656885 ACAATACTTA 6656895 TGTATCGATACAT 1 TGTATCGATACAT 6656908 TGTATCGATACA 1 TGTATCGATACA 6656920 AAACTTATGT 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:0.32, C:0.16, G:0.16, T:0.36 Consensus pattern (13 bp): TGTATCGATACAT Found at i:6656917 original size:32 final size:32 Alignment explanation
Indices: 6656876--6656938 Score: 117 Period size: 32 Copynumber: 2.0 Consensus size: 32 6656866 TAGCTAATTA * 6656876 TGTATCGATACAATACTTATGTATCGATACAT 1 TGTATCGATACAAAACTTATGTATCGATACAT 6656908 TGTATCGATACAAAACTTATGTATCGATACA 1 TGTATCGATACAAAACTTATGTATCGATACA 6656939 AATCGTTGAA Statistics Matches: 30, Mismatches: 1, Indels: 0 0.97 0.03 0.00 Matches are distributed among these distances: 32 30 1.00 ACGTcount: A:0.37, C:0.16, G:0.13, T:0.35 Consensus pattern (32 bp): TGTATCGATACAAAACTTATGTATCGATACAT Found at i:6661568 original size:55 final size:55 Alignment explanation
Indices: 6661493--6662382 Score: 1192 Period size: 55 Copynumber: 16.0 Consensus size: 55 6661483 TGAGGAGTAA * * * 6661493 AAAG-TGCCACTAACTCGTGTGGGCTTTGAAAGGCGTCCTGCTCTTTGAGGACTG 1 AAAGATGCCACCAACTTGTGTGGGCTTTGAAAGGTGTCCTGCTCTTTGAGGACTG * * 6661547 AAAGGTGCCACCAACTTGTGTGGGCTTT-AAGAGGTGTCCTGCTCTTTGGGGACTG 1 AAAGATGCCACCAACTTGTGTGGGCTTTGAA-AGGTGTCCTGCTCTTTGAGGACTG * ** 6661602 AAAGGTGCCACCAACTTGTGTGGGCTTTGAAAAGAAAAAGCATCCTGCTCTTTGAGGACTG 1 AAAGATGCCACCAACTTGTGTGGGCTTTG-AAAG-----GTGTCCTGCTCTTTGAGGACTG * * * * 6661663 AAAAATGCCACCAACCTGTGTGGGCTTTAAAAGGTGTCCTGCTCTTTGAGGATTGG 1 AAAGATGCCACCAACTTGTGTGGGCTTTGAAAGGTGTCCTGCTCTTTGAGGACT-G 6661719 AAA-ATGCCACCAACTTGTGTGGGCTTTGAAAGGTGTCCTGCTCTTTGAGGACTG 1 AAAGATGCCACCAACTTGTGTGGGCTTTGAAAGGTGTCCTGCTCTTTGAGGACTG * ** 6661773 AAAGGTGCCACCAACTTGTGTGGGCTTTGAAAAGAAAAAGCATCCTGCTCTTTGAGGACTG 1 AAAGATGCCACCAACTTGTGTGGGCTTTG-AAAG-----GTGTCCTGCTCTTTGAGGACTG * * * * * 6661834 AAAAATGCCACCAACCTGTGTGGGCTTTAAAAGGTGCCCTGCTCTTTGAGGATTGG 1 AAAGATGCCACCAACTTGTGTGGGCTTTGAAAGGTGTCCTGCTCTTTGAGGACT-G 6661890 AAA-ATGCCACCAACTTGTGTGGGCTTTGAAAGGTGTCCTGCTCTTTGAGGACTGG 1 AAAGATGCCACCAACTTGTGTGGGCTTTGAAAGGTGTCCTGCTCTTTGAGGACT-G * 6661945 AAA-ATGCCACCAACTTATGTGGGCTTTGAAAGGTGTCCTGCTCTTTGAGGACTGG 1 AAAGATGCCACCAACTTGTGTGGGCTTTGAAAGGTGTCCTGCTCTTTGAGGACT-G * * 6662000 AAA-ATGCCACCAACTTATATGGGCTTTGAAAGGTGTCCTGCTCTTTGAGGACTGG 1 AAAGATGCCACCAACTTGTGTGGGCTTTGAAAGGTGTCCTGCTCTTTGAGGACT-G * * 6662055 AAA-ATGCCACCAACTTGTGTGGGCTTTGAAAGGTGTCCTACTCTTTGGGGACTG 1 AAAGATGCCACCAACTTGTGTGGGCTTTGAAAGGTGTCCTGCTCTTTGAGGACTG * * 6662109 AAAGGTGCCACCAACTTGTGTGGGCTTT-AAGAGGTGTCCTGCTCTTTGGGGACTG 1 AAAGATGCCACCAACTTGTGTGGGCTTTGAA-AGGTGTCCTGCTCTTTGAGGACTG * 6662164 AAAGGTGCCACCAACTTGTGTGGGCTTT-AAGAGGTGTCCTGCTCTTTGAGGACTGG 1 AAAGATGCCACCAACTTGTGTGGGCTTTGAA-AGGTGTCCTGCTCTTTGAGGACT-G * * 6662220 AAA-ATGCCACCAACTTGGGTGGGCTTTGAAAGGTGTCCTGCTCTTTGGGGACTG 1 AAAGATGCCACCAACTTGTGTGGGCTTTGAAAGGTGTCCTGCTCTTTGAGGACTG * * 6662274 AAAGGTGCCACCAACTTGTGTGGGCTTT-AAGAGGTGTCCTGCTTTTTGAGGACTG 1 AAAGATGCCACCAACTTGTGTGGGCTTTGAA-AGGTGTCCTGCTCTTTGAGGACTG * 6662329 AAAGGTGCCACCAACTTGTGTGGGCTTT-AAGAGGTGTCCTGCTCTTTGAGGACT 1 AAAGATGCCACCAACTTGTGTGGGCTTTGAA-AGGTGTCCTGCTCTTTGAGGACT 6662383 AAAAAGCGGA Statistics Matches: 763, Mismatches: 49, Indels: 47 0.89 0.06 0.05 Matches are distributed among these distances: 54 22 0.03 55 622 0.82 56 20 0.03 57 2 0.00 60 8 0.01 61 89 0.12 ACGTcount: A:0.23, C:0.20, G:0.29, T:0.28 Consensus pattern (55 bp): AAAGATGCCACCAACTTGTGTGGGCTTTGAAAGGTGTCCTGCTCTTTGAGGACTG Found at i:6661607 original size:26 final size:26 Alignment explanation
Indices: 6661519--6661608 Score: 67 Period size: 26 Copynumber: 3.3 Consensus size: 26 6661509 GTGTGGGCTT * * 6661519 TGAAAGGCGTCCTGCTCTTTGAGGAC 1 TGAAAGGTGTCCTGCTCTTTGGGGAC ** * 6661545 TGAAAGGTG-CCACCAACTTGTGTGGG-C 1 TGAAAGGTGTCCTGC-TCTT-TG-GGGAC * 6661572 TTTAAGAGGTGTCCTGCTCTTTGGGGAC 1 -TGAA-AGGTGTCCTGCTCTTTGGGGAC 6661600 TGAAAGGTG 1 TGAAAGGTG 6661609 CCACCAACTT Statistics Matches: 47, Mismatches: 10, Indels: 14 0.66 0.14 0.20 Matches are distributed among these distances: 25 3 0.06 26 16 0.34 27 9 0.19 28 8 0.17 29 8 0.17 30 3 0.06 ACGTcount: A:0.20, C:0.19, G:0.33, T:0.28 Consensus pattern (26 bp): TGAAAGGTGTCCTGCTCTTTGGGGAC Found at i:6661632 original size:29 final size:29 Alignment explanation
Indices: 6661545--6661633 Score: 82 Period size: 29 Copynumber: 3.2 Consensus size: 29 6661535 CTTTGAGGAC 6661545 TGAAAGGTGCCACCAACTTGTGTGGGCTT 1 TGAAAGGTGCCACCAACTTGTGTGGGCTT ** * 6661574 T-AAGAGGTGTCCTGC-TCTT-TG-GGGAC-- 1 TGAA-AGGTG-CCACCAACTTGTGTGGG-CTT 6661600 TGAAAGGTGCCACCAACTTGTGTGGGCTT 1 TGAAAGGTGCCACCAACTTGTGTGGGCTT 6661629 TGAAA 1 TGAAA 6661634 AGAAAAAGCA Statistics Matches: 45, Mismatches: 6, Indels: 18 0.65 0.09 0.26 Matches are distributed among these distances: 25 3 0.07 26 9 0.20 27 8 0.18 28 8 0.18 29 14 0.31 30 3 0.07 ACGTcount: A:0.21, C:0.19, G:0.31, T:0.28 Consensus pattern (29 bp): TGAAAGGTGCCACCAACTTGTGTGGGCTT Found at i:6661947 original size:27 final size:27 Alignment explanation
Indices: 6661917--6662002 Score: 68 Period size: 27 Copynumber: 3.1 Consensus size: 27 6661907 TGTGGGCTTT 6661917 GAAAGGTGTCCTGCTCTTTGAGGACTG 1 GAAAGGTGTCCTGCTCTTTGAGGACTG * ** * * * * 6661944 GAAA-ATG-CCACCAACTTATGTGGGCTTT 1 GAAAGGTGTCCTGC-TCTT-TGAGGAC-TG 6661972 GAAAGGTGTCCTGCTCTTTGAGGACTG 1 GAAAGGTGTCCTGCTCTTTGAGGACTG 6661999 GAAA 1 GAAA 6662003 ATGCCACCAA Statistics Matches: 40, Mismatches: 14, Indels: 10 0.62 0.22 0.16 Matches are distributed among these distances: 25 3 0.08 26 5 0.12 27 14 0.35 28 10 0.25 29 5 0.12 30 3 0.08 ACGTcount: A:0.24, C:0.19, G:0.29, T:0.28 Consensus pattern (27 bp): GAAAGGTGTCCTGCTCTTTGAGGACTG Found at i:6662110 original size:26 final size:26 Alignment explanation
Indices: 6662081--6662170 Score: 78 Period size: 26 Copynumber: 3.3 Consensus size: 26 6662071 GTGTGGGCTT 6662081 TGAAAGGTGTCCTACTCTTTGGGGAC 1 TGAAAGGTGTCCTACTCTTTGGGGAC * 6662107 TGAAAGGTG-CC-ACCAACTTGTGTGGG-C 1 TGAAAGGTGTCCTA-C-TCTT-TG-GGGAC * * 6662134 TTTAAGAGGTGTCCTGCTCTTTGGGGAC 1 -TGAA-AGGTGTCCTACTCTTTGGGGAC 6662162 TGAAAGGTG 1 TGAAAGGTG 6662171 CCACCAACTT Statistics Matches: 50, Mismatches: 5, Indels: 18 0.68 0.07 0.25 Matches are distributed among these distances: 24 1 0.02 25 3 0.06 26 17 0.34 27 9 0.18 28 9 0.18 29 8 0.16 30 3 0.06 ACGTcount: A:0.20, C:0.18, G:0.33, T:0.29 Consensus pattern (26 bp): TGAAAGGTGTCCTACTCTTTGGGGAC Found at i:6663388 original size:8 final size:8 Alignment explanation
Indices: 6663349--6663418 Score: 54 Period size: 8 Copynumber: 8.8 Consensus size: 8 6663339 CTTAAGTAGG 6663349 TTTTTTC- 1 TTTTTTCT * 6663356 TTTTCTCT 1 TTTTTTCT * 6663364 CTTTTTCT 1 TTTTTTCT * 6663372 TTGTTTTGT 1 TT-TTTTCT * 6663381 TTTTTTGT 1 TTTTTTCT 6663389 TTTTTTCCT 1 TTTTTT-CT 6663398 TTTTTT-T 1 TTTTTTCT ** 6663405 TTTTGCCT 1 TTTTTTCT 6663413 TTTTTT 1 TTTTTT 6663419 TTGAAGAGAA Statistics Matches: 49, Mismatches: 10, Indels: 7 0.74 0.15 0.11 Matches are distributed among these distances: 7 11 0.22 8 24 0.49 9 14 0.29 ACGTcount: A:0.00, C:0.13, G:0.06, T:0.81 Consensus pattern (8 bp): TTTTTTCT Found at i:6663408 original size:14 final size:15 Alignment explanation
Indices: 6663381--6663420 Score: 62 Period size: 15 Copynumber: 2.6 Consensus size: 15 6663371 TTTGTTTTGT * 6663381 TTTTTTGTTTTTTTCC 1 TTTTTT-TTTTTTGCC 6663397 TTTTTTTTTTTTGCC 1 TTTTTTTTTTTTGCC 6663412 TTTTTTTTT 1 TTTTTTTTT 6663421 GAAGAGAAGG Statistics Matches: 23, Mismatches: 1, Indels: 1 0.92 0.04 0.04 Matches are distributed among these distances: 15 17 0.74 16 6 0.26 ACGTcount: A:0.00, C:0.10, G:0.05, T:0.85 Consensus pattern (15 bp): TTTTTTTTTTTTGCC Found at i:6669111 original size:17 final size:17 Alignment explanation
Indices: 6669089--6669122 Score: 50 Period size: 17 Copynumber: 2.0 Consensus size: 17 6669079 ACATCGATTC * 6669089 TTGACTGTGGCTTCCTT 1 TTGACTGTGCCTTCCTT * 6669106 TTGACTTTGCCTTCCTT 1 TTGACTGTGCCTTCCTT 6669123 CTTACCTCTG Statistics Matches: 15, Mismatches: 2, Indels: 0 0.88 0.12 0.00 Matches are distributed among these distances: 17 15 1.00 ACGTcount: A:0.06, C:0.26, G:0.18, T:0.50 Consensus pattern (17 bp): TTGACTGTGCCTTCCTT Found at i:6676023 original size:28 final size:28 Alignment explanation
Indices: 6675983--6676054 Score: 99 Period size: 28 Copynumber: 2.6 Consensus size: 28 6675973 GGAATAAAGC ** * 6675983 CGGGGTTGGAGTATCCCCTCGGAAGTAA 1 CGGGGTTGGAGTATCCCCGAGGAAATAA * 6676011 CGGGGTTGGAGTATCCCCGATGAAATAA 1 CGGGGTTGGAGTATCCCCGAGGAAATAA * 6676039 CGAGGTTGGAGTATCC 1 CGGGGTTGGAGTATCC 6676055 TCGATTGTGA Statistics Matches: 39, Mismatches: 5, Indels: 0 0.89 0.11 0.00 Matches are distributed among these distances: 28 39 1.00 ACGTcount: A:0.24, C:0.19, G:0.35, T:0.22 Consensus pattern (28 bp): CGGGGTTGGAGTATCCCCGAGGAAATAA Found at i:6676112 original size:52 final size:52 Alignment explanation
Indices: 6676043--6676423 Score: 191 Period size: 52 Copynumber: 7.3 Consensus size: 52 6676033 AAATAACGAG * * 6676043 GTTGGAGTATCCTCGATTGTGAAAAATAGGTATTTTTGGAAATAAAATCGGA 1 GTTGGAGTATCCCCGATTGTGAAAAATAGGTATTTTTGGAAATAAAACCGGA ** * * ** * 6676095 GTTGGAGTATCCCCGATTAAAGGAAAATTGG-CGTTTTGAAAATAAAACCAGGA 1 GTTGGAGTATCCCCGATT-GTGAAAAATAGGTATTTTTGGAAATAAAACC-GGA * * 6676148 -TTGGAGTATCCCCGATTGTGGAAAAATTA-GTGTTTTAGCG--ATAAAACCGGA 1 GTTGGAGTATCCCCGATTGT-GAAAAA-TAGGTATTTTTG-GAAATAAAACCGGA * * ** **** * * * 6676199 GTTGGAGTATCCCC--TCG-AAAATAACGGGTTGGAGTATCCCCGATGAT-TAA-CGGG 1 GTTGGAGTATCCCCGATTGTGAAA-AATAGG-T--A-T-TTTTGGA-AATAAAACCGGA * * 6676253 GTTGGAGTATCCCCGATTGTGAAGAAATTGGTATTTTTGGAAATAAAATCGGA 1 GTTGGAGTATCCCCGATTGTGAA-AAATAGGTATTTTTGGAAATAAAACCGGA ** * * ** * 6676306 GTTGGAGTATCCCCGATTAAAGGAAAATTGG-CGTTTTGAAAATAAAACCAGGA 1 GTTGGAGTATCCCCGATT-GTGAAAAATAGGTATTTTTGGAAATAAAACC-GGA * 6676359 -TTGGAGTATCCCCGATTGTGGAAAAATTAGCG--TTTTAGCG--ATAAAACCGGA 1 GTTGGAGTATCCCCGATTGT-GAAAAA-TAG-GTATTTTTG-GAAATAAAACCGGA 6676410 GTTGGAGTATCCCC 1 GTTGGAGTATCCCC 6676424 TCGAAAATAA Statistics Matches: 246, Mismatches: 53, Indels: 60 0.69 0.15 0.17 Matches are distributed among these distances: 48 3 0.01 49 3 0.01 50 3 0.01 51 8 0.03 52 137 0.56 53 56 0.23 54 22 0.09 55 2 0.01 56 5 0.02 57 6 0.02 58 1 0.00 ACGTcount: A:0.32, C:0.14, G:0.26, T:0.28 Consensus pattern (52 bp): GTTGGAGTATCCCCGATTGTGAAAAATAGGTATTTTTGGAAATAAAACCGGA Found at i:6676229 original size:27 final size:28 Alignment explanation
Indices: 6676186--6676266 Score: 89 Period size: 27 Copynumber: 3.0 Consensus size: 28 6676176 AGTGTTTTAG * * 6676186 CGATAAA-ACCGGAGTTGGAGTATCCCC 1 CGATAAATAACGGGGTTGGAGTATCCCC 6676213 TCGA-AAATAAC-GGGTTGGAGTAT-CCC 1 -CGATAAATAACGGGGTTGGAGTATCCCC * * 6676239 CGATGATTAACGGGGTTGGAGTATCCCC 1 CGATAAATAACGGGGTTGGAGTATCCCC 6676267 GATTGTGAAG Statistics Matches: 45, Mismatches: 4, Indels: 8 0.79 0.07 0.14 Matches are distributed among these distances: 25 3 0.07 26 8 0.18 27 26 0.58 28 8 0.18 ACGTcount: A:0.27, C:0.22, G:0.28, T:0.22 Consensus pattern (28 bp): CGATAAATAACGGGGTTGGAGTATCCCC Found at i:6676234 original size:211 final size:212 Alignment explanation
Indices: 6675976--6676593 Score: 992 Period size: 211 Copynumber: 2.9 Consensus size: 212 6675966 TATTTTGGGA * * * * * 6675976 ATAAAGCCGGGGTTGGAGTATCCCCTCGGAAGTAACGGGGTTGGAGTATCCCCGATGAAATAACG 1 ATAAAACCGGAGTTGGAGTATCCCCTCGAAAATAACGGGGTTGGAGTATCCCCGATG-ATTAACG * * 6676041 AGGTTGGAGTATCCTCGATTGTGAA-AAATAGGTATTTTTGGAAATAAAATCGGAGTTGGAGTAT 65 GGGTTGGAGTATCCCCGATTGTGAAGAAATAGGTATTTTTGGAAATAAAATCGGAGTTGGAGTAT 6676105 CCCCGATTAAAGGAAAATTGGCGTTTTGAAAATAAAACCAGGATTGGAGTATCCCCGATTGTGGA 130 CCCCGATTAAAGGAAAATTGGCGTTTTGAAAATAAAACCAGGATTGGAGTATCCCCGATTGTGGA * 6676170 AAAATTAGTGTTTTAGCG 195 AAAATTAGCGTTTTAGCG 6676188 ATAAAACCGGAGTTGGAGTATCCCCTCGAAAATAAC-GGGTTGGAGTATCCCCGATGATTAACGG 1 ATAAAACCGGAGTTGGAGTATCCCCTCGAAAATAACGGGGTTGGAGTATCCCCGATGATTAACGG * 6676252 GGTTGGAGTATCCCCGATTGTGAAGAAATTGGTATTTTTGGAAATAAAATCGGAGTTGGAGTATC 66 GGTTGGAGTATCCCCGATTGTGAAGAAATAGGTATTTTTGGAAATAAAATCGGAGTTGGAGTATC 6676317 CCCGATTAAAGGAAAATTGGCGTTTTGAAAATAAAACCAGGATTGGAGTATCCCCGATTGTGGAA 131 CCCGATTAAAGGAAAATTGGCGTTTTGAAAATAAAACCAGGATTGGAGTATCCCCGATTGTGGAA 6676382 AAATTAGCGTTTTAGCG 196 AAATTAGCGTTTTAGCG 6676399 ATAAAACCGGAGTTGGAGTATCCCCTCGAAAATAACGGGGTTGGAGTATCCCCGATGATTAACGG 1 ATAAAACCGGAGTTGGAGTATCCCCTCGAAAATAACGGGGTTGGAGTATCCCCGATGATTAACGG * * * * 6676464 GGTTGGAGTATCCCCGATTGTGAAGAAATTGGTGTTTTTTTGGAAATAAAATCGGAGTTAGATTA 66 GGTTGGAGTATCCCCGATTGTGAAGAAA-TAG-GTATTTTTGGAAATAAAATCGGAGTTGGAGTA * * * * * * * 6676529 TCCCCGAATATA-GAAAATTAGTGTTTTGAAAATAAAATC-GGAGTTGGAATATCCTCGATTGTG 129 TCCCCGATTAAAGGAAAATTGGCGTTTTGAAAATAAAACCAGGA-TTGGAGTATCCCCGATTGTG 6676592 GA 193 GA 6676594 GAATTGATAA Statistics Matches: 381, Mismatches: 20, Indels: 9 0.93 0.05 0.02 Matches are distributed among these distances: 210 29 0.08 211 176 0.46 212 91 0.24 213 46 0.12 214 39 0.10 ACGTcount: A:0.32, C:0.14, G:0.27, T:0.28 Consensus pattern (212 bp): ATAAAACCGGAGTTGGAGTATCCCCTCGAAAATAACGGGGTTGGAGTATCCCCGATGATTAACGG GGTTGGAGTATCCCCGATTGTGAAGAAATAGGTATTTTTGGAAATAAAATCGGAGTTGGAGTATC CCCGATTAAAGGAAAATTGGCGTTTTGAAAATAAAACCAGGATTGGAGTATCCCCGATTGTGGAA AAATTAGCGTTTTAGCG Found at i:6676442 original size:28 final size:28 Alignment explanation
Indices: 6676397--6676478 Score: 98 Period size: 27 Copynumber: 3.0 Consensus size: 28 6676387 AGCGTTTTAG * * 6676397 CGATAAA-ACCGGAGTTGGAGTATCCCC 1 CGATAAATAACGGGGTTGGAGTATCCCC 6676424 TCGA-AAATAACGGGGTTGGAGTAT-CCC 1 -CGATAAATAACGGGGTTGGAGTATCCCC * * 6676451 CGATGATTAACGGGGTTGGAGTATCCCC 1 CGATAAATAACGGGGTTGGAGTATCCCC 6676479 GATTGTGAAG Statistics Matches: 47, Mismatches: 4, Indels: 6 0.82 0.07 0.11 Matches are distributed among these distances: 26 3 0.06 27 24 0.51 28 20 0.43 ACGTcount: A:0.27, C:0.22, G:0.29, T:0.22 Consensus pattern (28 bp): CGATAAATAACGGGGTTGGAGTATCCCC Found at i:6678977 original size:20 final size:20 Alignment explanation
Indices: 6678932--6678980 Score: 62 Period size: 20 Copynumber: 2.5 Consensus size: 20 6678922 TAAAATTTCC * 6678932 AAATGTATCGATACAAAGAT 1 AAATGTATCGATACAAAGAA ** * 6678952 CCATGTATCGATACACAGAA 1 AAATGTATCGATACAAAGAA 6678972 AAATGTATC 1 AAATGTATC 6678981 CATATATTTC Statistics Matches: 23, Mismatches: 6, Indels: 0 0.79 0.21 0.00 Matches are distributed among these distances: 20 23 1.00 ACGTcount: A:0.45, C:0.16, G:0.14, T:0.24 Consensus pattern (20 bp): AAATGTATCGATACAAAGAA Found at i:6679030 original size:19 final size:18 Alignment explanation
Indices: 6679006--6679073 Score: 83 Period size: 19 Copynumber: 3.9 Consensus size: 18 6678996 CAGTAGCTAA 6679006 TTATGTATCGATACAATAC 1 TTATGTATCGATACAA-AC 6679025 TTATGTATCGATAC--A- 1 TTATGTATCGATACAAAC 6679040 -T-TGTATCGATACAAAAC 1 TTATGTATCGATAC-AAAC 6679057 TTATGTATCGATACAAA 1 TTATGTATCGATACAAA 6679074 TCGTTGAATT Statistics Matches: 43, Mismatches: 0, Indels: 13 0.77 0.00 0.23 Matches are distributed among these distances: 13 11 0.26 14 1 0.02 16 2 0.05 18 4 0.09 19 25 0.58 ACGTcount: A:0.38, C:0.15, G:0.12, T:0.35 Consensus pattern (18 bp): TTATGTATCGATACAAAC Found at i:6679046 original size:13 final size:13 Alignment explanation
Indices: 6679028--6679052 Score: 50 Period size: 13 Copynumber: 1.9 Consensus size: 13 6679018 ACAATACTTA 6679028 TGTATCGATACAT 1 TGTATCGATACAT 6679041 TGTATCGATACA 1 TGTATCGATACA 6679053 AAACTTATGT 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:0.32, C:0.16, G:0.16, T:0.36 Consensus pattern (13 bp): TGTATCGATACAT Found at i:6679047 original size:32 final size:32 Alignment explanation
Indices: 6679009--6679071 Score: 117 Period size: 32 Copynumber: 2.0 Consensus size: 32 6678999 TAGCTAATTA * 6679009 TGTATCGATACAATACTTATGTATCGATACAT 1 TGTATCGATACAAAACTTATGTATCGATACAT 6679041 TGTATCGATACAAAACTTATGTATCGATACA 1 TGTATCGATACAAAACTTATGTATCGATACA 6679072 AATCGTTGAA Statistics Matches: 30, Mismatches: 1, Indels: 0 0.97 0.03 0.00 Matches are distributed among these distances: 32 30 1.00 ACGTcount: A:0.37, C:0.16, G:0.13, T:0.35 Consensus pattern (32 bp): TGTATCGATACAAAACTTATGTATCGATACAT Found at i:6686841 original size:19 final size:20 Alignment explanation
Indices: 6686817--6686863 Score: 69 Period size: 19 Copynumber: 2.4 Consensus size: 20 6686807 CGATACATCA * 6686817 TATCGATAAATGCTC-ATTG 1 TATCGATAAATACTCAATTG * 6686836 TATCGATACATACTCAATTG 1 TATCGATAAATACTCAATTG 6686856 TATCGATA 1 TATCGATA 6686864 CATGAAACTG Statistics Matches: 25, Mismatches: 2, Indels: 1 0.89 0.07 0.04 Matches are distributed among these distances: 19 13 0.52 20 12 0.48 ACGTcount: A:0.34, C:0.17, G:0.13, T:0.36 Consensus pattern (20 bp): TATCGATAAATACTCAATTG Found at i:6686857 original size:20 final size:19 Alignment explanation
Indices: 6686817--6686866 Score: 73 Period size: 20 Copynumber: 2.6 Consensus size: 19 6686807 CGATACATCA * * 6686817 TATCGATAAATGCTCATTG 1 TATCGATACATACTCATTG 6686836 TATCGATACATACTCAATTG 1 TATCGATACATACTC-ATTG 6686856 TATCGATACAT 1 TATCGATACAT 6686867 GAAACTGGCA Statistics Matches: 28, Mismatches: 2, Indels: 1 0.90 0.06 0.03 Matches are distributed among these distances: 19 13 0.46 20 15 0.54 ACGTcount: A:0.34, C:0.18, G:0.12, T:0.36 Consensus pattern (19 bp): TATCGATACATACTCATTG Found at i:6686930 original size:13 final size:13 Alignment explanation
Indices: 6686912--6686941 Score: 51 Period size: 13 Copynumber: 2.3 Consensus size: 13 6686902 GATACATGGG * 6686912 ACATTGTATCGAT 1 ACATTGTATAGAT 6686925 ACATTGTATAGAT 1 ACATTGTATAGAT 6686938 ACAT 1 ACAT 6686942 GGAGAATTGT Statistics Matches: 16, Mismatches: 1, Indels: 0 0.94 0.06 0.00 Matches are distributed among these distances: 13 16 1.00 ACGTcount: A:0.37, C:0.13, G:0.13, T:0.37 Consensus pattern (13 bp): ACATTGTATAGAT Found at i:6686939 original size:33 final size:33 Alignment explanation
Indices: 6686896--6686962 Score: 109 Period size: 33 Copynumber: 2.0 Consensus size: 33 6686886 CTAAGTGAAA * 6686896 TGTATTGATACATGG-GACATTGTATCGATACAT 1 TGTATAGATACATGGAGA-ATTGTATCGATACAT 6686929 TGTATAGATACATGGAGAATTGTATCGATACAT 1 TGTATAGATACATGGAGAATTGTATCGATACAT 6686962 T 1 T 6686963 ATGCCCAATG Statistics Matches: 32, Mismatches: 1, Indels: 2 0.91 0.03 0.06 Matches are distributed among these distances: 33 30 0.94 34 2 0.06 ACGTcount: A:0.33, C:0.10, G:0.21, T:0.36 Consensus pattern (33 bp): TGTATAGATACATGGAGAATTGTATCGATACAT Found at i:6688203 original size:4 final size:4 Alignment explanation
Indices: 6688194--6688224 Score: 55 Period size: 4 Copynumber: 8.0 Consensus size: 4 6688184 CTACTTAAAT 6688194 TCAA TCAA TCAA TCAA T-AA TCAA TCAA TCAA 1 TCAA TCAA TCAA TCAA TCAA TCAA TCAA TCAA 6688225 CCATATGAAA Statistics Matches: 26, Mismatches: 0, Indels: 2 0.93 0.00 0.07 Matches are distributed among these distances: 3 3 0.12 4 23 0.88 ACGTcount: A:0.52, C:0.23, G:0.00, T:0.26 Consensus pattern (4 bp): TCAA Found at i:6688216 original size:11 final size:12 Alignment explanation
Indices: 6688194--6688224 Score: 55 Period size: 11 Copynumber: 2.7 Consensus size: 12 6688184 CTACTTAAAT 6688194 TCAATCAATCAA 1 TCAATCAATCAA 6688206 TCAAT-AATCAA 1 TCAATCAATCAA 6688217 TCAATCAA 1 TCAATCAA 6688225 CCATATGAAA Statistics Matches: 18, Mismatches: 0, Indels: 2 0.90 0.00 0.10 Matches are distributed among these distances: 11 11 0.61 12 7 0.39 ACGTcount: A:0.52, C:0.23, G:0.00, T:0.26 Consensus pattern (12 bp): TCAATCAATCAA Found at i:6688216 original size:15 final size:15 Alignment explanation
Indices: 6688196--6688224 Score: 58 Period size: 15 Copynumber: 1.9 Consensus size: 15 6688186 ACTTAAATTC 6688196 AATCAATCAATCAAT 1 AATCAATCAATCAAT 6688211 AATCAATCAATCAA 1 AATCAATCAATCAA 6688225 CCATATGAAA Statistics Matches: 14, Mismatches: 0, Indels: 0 1.00 0.00 0.00 Matches are distributed among these distances: 15 14 1.00 ACGTcount: A:0.55, C:0.21, G:0.00, T:0.24 Consensus pattern (15 bp): AATCAATCAATCAAT Found at i:6694157 original size:95 final size:93 Alignment explanation
Indices: 6694047--6694274 Score: 252 Period size: 95 Copynumber: 2.4 Consensus size: 93 6694037 CCTTCGGAGG * * * * 6694047 AATGGGGTTGGAGTATCCTCGATAATAATAGTTTAGGTAAAAATGAGAATGACCTTGAC-AAGTT 1 AATGGGGTTGGAGTATCCTCGATAATAATAATTTAGGTAAAAATAAAAATAACCTTGACGAA--T * 6694111 TAAAAAAAACGGGTTTGGAG-CCCCTC-AGAAT 64 T--AAAAAACGGGGTTGGAGTCCCCTCGA-AAT * * * 6694142 AATGGGGTTGGAGTATCC-CTGACAATAATAATTTAGGTAAAAGTAAAAATAATCTTGACGAATT 1 AATGGGGTTGGAGTATCCTC-GATAATAATAATTTAGGTAAAAATAAAAATAACCTTGACGAATT * 6694206 CAAAAACGGGGTTGGAGTATCCCCTCGAAAT 65 AAAAAACGGGGTTGGAG--TCCCCTCGAAAT 6694237 AATGGGGTTGGAGTATCCTCGATGAATAA-AATTT-GGTA 1 AATGGGGTTGGAGTATCCTCGAT-AATAATAATTTAGGTA 6694275 TATTTTTGTG Statistics Matches: 115, Mismatches: 10, Indels: 17 0.81 0.07 0.12 Matches are distributed among these distances: 92 15 0.13 94 7 0.06 95 84 0.73 96 9 0.08 ACGTcount: A:0.36, C:0.12, G:0.24, T:0.27 Consensus pattern (93 bp): AATGGGGTTGGAGTATCCTCGATAATAATAATTTAGGTAAAAATAAAAATAACCTTGACGAATTA AAAAACGGGGTTGGAGTCCCCTCGAAAT Found at i:6696243 original size:20 final size:20 Alignment explanation
Indices: 6696218--6696266 Score: 89 Period size: 20 Copynumber: 2.5 Consensus size: 20 6696208 TGCATGTATT 6696218 GATACATTGAATGATGCATC 1 GATACATTGAATGATGCATC * 6696238 GATACATTGAATGATGTATC 1 GATACATTGAATGATGCATC 6696258 GATACATTG 1 GATACATTG 6696267 TATCGATACA Statistics Matches: 28, Mismatches: 1, Indels: 0 0.97 0.03 0.00 Matches are distributed among these distances: 20 28 1.00 ACGTcount: A:0.35, C:0.12, G:0.20, T:0.33 Consensus pattern (20 bp): GATACATTGAATGATGCATC Found at i:6696283 original size:15 final size:13 Alignment explanation
Indices: 6696252--6696276 Score: 50 Period size: 13 Copynumber: 1.9 Consensus size: 13 6696242 CATTGAATGA 6696252 TGTATCGATACAT 1 TGTATCGATACAT 6696265 TGTATCGATACA 1 TGTATCGATACA 6696277 AATTGTAAAA 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:0.32, C:0.16, G:0.16, T:0.36 Consensus pattern (13 bp): TGTATCGATACAT Found at i:6696936 original size:52 final size:53 Alignment explanation
Indices: 6696874--6697362 Score: 412 Period size: 52 Copynumber: 9.4 Consensus size: 53 6696864 CTAGTGTGTA * * 6696874 GATTCAAGGCCTA-CAACACTGGACTTAAAGATGATAAAGGTGCCAATATGCT 1 GATTCAAGGCCTAGCAATATTGGACTTAAAGATGATAAAGGTGCCAATATGCT * * * * * 6696926 GATTCAAGGCC-AGCGATGTTAGAATTGAGAA-A-GA-AGAAGGTGCCAATGTGCT 1 GATTCAAGGCCTAGCAATATTGGACTT-A-AAGATGATA-AAGGTGCCAATATGCT * * * * 6696978 AATTCAAGGCC-AACAATATTGGACTTAAAGATGATAAAGGTTCCAATATGTT 1 GATTCAAGGCCTAGCAATATTGGACTTAAAGATGATAAAGGTGCCAATATGCT * * * * 6697030 GATTCAAGG-TTAGCGATGTTGGACTTGAGAA-A-GA-AGAAGGTGCCAATGTGCT 1 GATTCAAGGCCTAGCAATATTGGACTT-A-AAGATGATA-AAGGTGCCAATATGCT * * * * 6697082 AATTTAAGG-CTAACAATATTGGACTTAAAGAT-ATAAAAGTGCCAATATGCT 1 GATTCAAGGCCTAGCAATATTGGACTTAAAGATGATAAAGGTGCCAATATGCT * * * * * 6697133 GATTCAAGGCC-AACAATGTTGGAGTTGAGAA-A-GA-AGATGGTGCCAATGTGCT 1 GATTCAAGGCCTAGCAATATTGGACTT-A-AAGATGATA-AAGGTGCCAATATGCT * * * 6697185 GATTTAAGGCC-AGCAACATTGGACTTAAAGATGATAGAGGTGCCAATATGCT 1 GATTCAAGGCCTAGCAATATTGGACTTAAAGATGATAAAGGTGCCAATATGCT * * 6697237 AATTCAAGGCC-AGCAATATTGGACTTGAGAA-A-GA-AGAAGGTGCCAATCTGCT 1 GATTCAAGGCCTAGCAATATTGGACTT-A-AAGATGATA-AAGGTGCCAATATGCT * * * 6697289 GATTCAAGG-CTAGCAACATTAGACTTAAAGATGATAAAGGTGCTAATATGCT 1 GATTCAAGGCCTAGCAATATTGGACTTAAAGATGATAAAGGTGCCAATATGCT * 6697341 GATTCAAGGCC-AGCGATATTGG 1 GATTCAAGGCCTAGCAATATTGG 6697363 GCTTGTGCCA Statistics Matches: 347, Mismatches: 60, Indels: 60 0.74 0.13 0.13 Matches are distributed among these distances: 50 8 0.02 51 49 0.14 52 272 0.78 53 12 0.03 54 6 0.02 ACGTcount: A:0.36, C:0.15, G:0.25, T:0.25 Consensus pattern (53 bp): GATTCAAGGCCTAGCAATATTGGACTTAAAGATGATAAAGGTGCCAATATGCT Found at i:6697012 original size:104 final size:104 Alignment explanation
Indices: 6696874--6697453 Score: 702 Period size: 104 Copynumber: 5.7 Consensus size: 104 6696864 CTAGTGTGTA * * 6696874 GATTCAAGGCCTACAACACTGGACTTAAAGATGATAAAGGTGCCAATATGCTGATTCAAGGCCAG 1 GATTCAAGGCCAACAACATTGGACTTAAAGATGATAAAGGTGCCAATATGCTGATTCAAGGCCAG * 6696939 CGATGTTAGAATTGAGAAAGAAGAAGGTGCCAATGTGCT 66 CGATGTTGGAATTGAGAAAGAAGAAGGTGCCAATGTGCT * * * * ** 6696978 AATTCAAGGCCAACAATATTGGACTTAAAGATGATAAAGGTTCCAATATGTTGATTCAAGGTTAG 1 GATTCAAGGCCAACAACATTGGACTTAAAGATGATAAAGGTGCCAATATGCTGATTCAAGGCCAG * 6697043 CGATGTTGGACTTGAGAAAGAAGAAGGTGCCAATGTGCT 66 CGATGTTGGAATTGAGAAAGAAGAAGGTGCCAATGTGCT * * * * * * 6697082 AATTTAAGGCTAACAATATTGGACTTAAAGAT-ATAAAAGTGCCAATATGCTGATTCAAGGCCAA 1 GATTCAAGGCCAACAACATTGGACTTAAAGATGATAAAGGTGCCAATATGCTGATTCAAGGCCAG * * * 6697146 CAATGTTGGAGTTGAGAAAGAAGATGGTGCCAATGTGCT 66 CGATGTTGGAATTGAGAAAGAAGAAGGTGCCAATGTGCT * * * * 6697185 GATTTAAGGCCAGCAACATTGGACTTAAAGATGATAGAGGTGCCAATATGCTAATTCAAGGCCAG 1 GATTCAAGGCCAACAACATTGGACTTAAAGATGATAAAGGTGCCAATATGCTGATTCAAGGCCAG * * * * 6697250 CAATATTGGACTTGAGAAAGAAGAAGGTGCCAATCTGCT 66 CGATGTTGGAATTGAGAAAGAAGAAGGTGCCAATGTGCT * * * * 6697289 GATTCAAGGCTAGCAACATTAGACTTAAAGATGATAAAGGTGCTAATATGCTGATTCAAGGCCAG 1 GATTCAAGGCCAACAACATTGGACTTAAAGATGATAAAGGTGCCAATATGCTGATTCAAGGCCAG *** * 6697354 CGA---T---ATT--G---G--GCTTGTGCCAATGCGCT 66 CGATGTTGGAATTGAGAAAGAAGAAGGTGCCAATGTGCT * * * * 6697380 GATTCAAGTCCAGCAACATTAGACTTAAAGATGATAAAGGTGCCAATATGTTGATTCAAGGCCAG 1 GATTCAAGGCCAACAACATTGGACTTAAAGATGATAAAGGTGCCAATATGCTGATTCAAGGCCAG * 6697445 CGATATTGG 66 CGATGTTGG 6697454 GCTTGTGCCA Statistics Matches: 420, Mismatches: 50, Indels: 20 0.86 0.10 0.04 Matches are distributed among these distances: 91 76 0.18 93 1 0.00 94 1 0.00 96 1 0.00 98 2 0.00 101 1 0.00 103 90 0.21 104 248 0.59 ACGTcount: A:0.35, C:0.15, G:0.25, T:0.25 Consensus pattern (104 bp): GATTCAAGGCCAACAACATTGGACTTAAAGATGATAAAGGTGCCAATATGCTGATTCAAGGCCAG CGATGTTGGAATTGAGAAAGAAGAAGGTGCCAATGTGCT Found at i:6697196 original size:207 final size:208 Alignment explanation
Indices: 6696875--6697352 Score: 699 Period size: 207 Copynumber: 2.3 Consensus size: 208 6696865 TAGTGTGTAG * * 6696875 ATTCAAGGCCT-ACAACACTGGACTTAAAGATGATAAAGGTGCCAATATGCTGATTCAAGGCCAG 1 ATTCAAGG-CTAACAACATTGGACTTAAAGATGATAAAGGTGCCAATATGCTGATTCAAGGCCAA * * 6696939 CGATGTTAGAATTGAGAAAGAAGAAGGTGCCAATGTGCTAATTCAAGGCCAACAATATTGGACTT 65 CAATGTTAGAATTGAGAAAGAAGAAGGTGCCAATGTGCTAATTCAAGGCCAACAACATTGGACTT * * * ** * * 6697004 AAAGATGATAAAGGTTCCAATATGTTGATTCAAGGTTAGCGATGTTGGACTTGAGAAAGAAGAAG 130 AAAGATGATAAAGGTGCCAATATGCTAATTCAAGGCCAGCAATATTGGACTTGAGAAAGAAGAAG * 6697069 GTGCCAATGTGCTA 195 GTGCCAATCTGCTA * * * 6697083 ATTTAAGGCTAACAATATTGGACTTAAAGAT-ATAAAAGTGCCAATATGCTGATTCAAGGCCAAC 1 ATTCAAGGCTAACAACATTGGACTTAAAGATGATAAAGGTGCCAATATGCTGATTCAAGGCCAAC * * * * * * 6697147 AATGTTGGAGTTGAGAAAGAAGATGGTGCCAATGTGCTGATTTAAGGCCAGCAACATTGGACTTA 66 AATGTTAGAATTGAGAAAGAAGAAGGTGCCAATGTGCTAATTCAAGGCCAACAACATTGGACTTA * 6697212 AAGATGATAGAGGTGCCAATATGCTAATTCAAGGCCAGCAATATTGGACTTGAGAAAGAAGAAGG 131 AAGATGATAAAGGTGCCAATATGCTAATTCAAGGCCAGCAATATTGGACTTGAGAAAGAAGAAGG * 6697277 TGCCAATCTGCTG 196 TGCCAATCTGCTA * * * 6697290 ATTCAAGGCTAGCAACATTAGACTTAAAGATGATAAAGGTGCTAATATGCTGATTCAAGGCCA 1 ATTCAAGGCTAACAACATTGGACTTAAAGATGATAAAGGTGCCAATATGCTGATTCAAGGCCA 6697353 GCGATATTGG Statistics Matches: 239, Mismatches: 29, Indels: 4 0.88 0.11 0.01 Matches are distributed among these distances: 207 185 0.77 208 54 0.23 ACGTcount: A:0.36, C:0.15, G:0.24, T:0.25 Consensus pattern (208 bp): ATTCAAGGCTAACAACATTGGACTTAAAGATGATAAAGGTGCCAATATGCTGATTCAAGGCCAAC AATGTTAGAATTGAGAAAGAAGAAGGTGCCAATGTGCTAATTCAAGGCCAACAACATTGGACTTA AAGATGATAAAGGTGCCAATATGCTAATTCAAGGCCAGCAATATTGGACTTGAGAAAGAAGAAGG TGCCAATCTGCTA Found at i:6697435 original size:91 final size:91 Alignment explanation
Indices: 6697276--6697532 Score: 369 Period size: 91 Copynumber: 2.9 Consensus size: 91 6697266 AAAGAAGAAG * * 6697276 GTGCCAAT-CTGCTGATTCAAGGCTAGCAACATTAGACTTAAAGATGATAAAGGTGCTAATATGC 1 GTGCCAATGC-GCTGATTCAAGGCCAGCAACATTAGACTTAAAGATGATAAAGGTGCCAATATGC 6697340 TGATTCAAGGCCAGCGATATTGGGCTT 65 TGATTCAAGGCCAGCGATATTGGGCTT * * 6697367 GTGCCAATGCGCTGATTCAAGTCCAGCAACATTAGACTTAAAGATGATAAAGGTGCCAATATGTT 1 GTGCCAATGCGCTGATTCAAGGCCAGCAACATTAGACTTAAAGATGATAAAGGTGCCAATATGCT 6697432 GATTCAAGGCCAGCGATATTGGGCTT 66 GATTCAAGGCCAGCGATATTGGGCTT * * * * * * * 6697458 GTGCCAATGCGCTGATTCAAGGCCAACGATATTGGTCTT-AAG--GATGAAGGTGTCAATATGCT 1 GTGCCAATGCGCTGATTCAAGGCCAGCAACATTAGACTTAAAGATGATAAAGGTGCCAATATGCT * 6697520 GATTTAAGGCCAG 66 GATTCAAGGCCAG 6697533 TGACGTTGGA Statistics Matches: 151, Mismatches: 14, Indels: 5 0.89 0.08 0.03 Matches are distributed among these distances: 88 29 0.19 90 3 0.02 91 118 0.78 92 1 0.01 ACGTcount: A:0.30, C:0.18, G:0.25, T:0.27 Consensus pattern (91 bp): GTGCCAATGCGCTGATTCAAGGCCAGCAACATTAGACTTAAAGATGATAAAGGTGCCAATATGCT GATTCAAGGCCAGCGATATTGGGCTT Found at i:6697884 original size:28 final size:28 Alignment explanation
Indices: 6697827--6697895 Score: 79 Period size: 28 Copynumber: 2.5 Consensus size: 28 6697817 ACAGCAAGTA * 6697827 CCACTGA-TTGTGGACTTCGAAAAGACG 1 CCACTGACTTGTGGACTTCAAAAAGACG * * 6697854 CCATTGACTTGTGGACTTCAAAGAAG-TG 1 CCACTGACTTGTGGACTTCAAA-AAGACG * 6697882 CCACTGACTAGTGG 1 CCACTGACTTGTGG 6697896 GCTTTGAGAA Statistics Matches: 35, Mismatches: 5, Indels: 3 0.81 0.12 0.07 Matches are distributed among these distances: 27 6 0.17 28 26 0.74 29 3 0.09 ACGTcount: A:0.28, C:0.22, G:0.26, T:0.25 Consensus pattern (28 bp): CCACTGACTTGTGGACTTCAAAAAGACG Found at i:6699251 original size:1 final size:1 Alignment explanation
Indices: 6699247--6699346 Score: 56 Period size: 1 Copynumber: 100.0 Consensus size: 1 6699237 TTGTTTGTTG * * * * * * ** * ** * 6699247 TTTTTTTTTTGTTTTTTTGTTTGTTTTTGTGTTTTTTTTGTTTTTTTTGGTGTTTTTTGGTGTTT 1 TTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTT * * * * 6699312 TTTTTTTTTTGTTTTTTTTGTCTTTTTGTTTTTTT 1 TTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTT 6699347 ACGAAGGATG Statistics Matches: 71, Mismatches: 28, Indels: 0 0.72 0.28 0.00 Matches are distributed among these distances: 1 71 1.00 ACGTcount: A:0.00, C:0.01, G:0.15, T:0.84 Consensus pattern (1 bp): T Found at i:6699263 original size:10 final size:10 Alignment explanation
Indices: 6699244--6699346 Score: 95 Period size: 10 Copynumber: 10.0 Consensus size: 10 6699234 TTCTTGTTTG 6699244 TTGTTTTTTT 1 TTGTTTTTTT * 6699254 TT-TGTTTTT 1 TTGTTTTTTT * 6699263 TTGTTTGTTT 1 TTGTTTTTTT 6699273 TTGTGTTTTTT 1 TTGT-TTTTTT 6699284 TTGTTTTTTT 1 TTGTTTTTTT * 6699294 TGGTGTTTTTTG 1 T--TGTTTTTTT * 6699306 GTGTTTTTTT 1 TTGTTTTTTT 6699316 TT-TTTTGTTT 1 TTGTTTT-TTT 6699326 TT-TTTGTCTTT 1 TTGTTT-T-TTT 6699337 TTGTTTTTTT 1 TTGTTTTTTT 6699347 ACGAAGGATG Statistics Matches: 77, Mismatches: 9, Indels: 14 0.77 0.09 0.14 Matches are distributed among these distances: 9 12 0.16 10 38 0.49 11 16 0.21 12 11 0.14 ACGTcount: A:0.00, C:0.01, G:0.16, T:0.83 Consensus pattern (10 bp): TTGTTTTTTT Found at i:6699264 original size:12 final size:12 Alignment explanation
Indices: 6699247--6699344 Score: 83 Period size: 12 Copynumber: 7.8 Consensus size: 12 6699237 TTGTTTGTTG 6699247 TTTTTTTTTTGT 1 TTTTTTTTTTGT * 6699259 TTTTTTGTTTGT 1 TTTTTTTTTTGT 6699271 TTTTGTGTTTTT-T 1 TTTT-T-TTTTTGT 6699284 TTGTTTTTTTTGGT 1 TT-TTTTTTTT-GT * ** 6699298 GTTTTTTGGTGT 1 TTTTTTTTTTGT 6699310 TTTTTTTTTT-T 1 TTTTTTTTTTGT * 6699321 TGTTTTTTTTGT 1 TTTTTTTTTTGT 6699333 CTTTTTGTTTTT 1 -TTTTT-TTTTT 6699345 TTACGAAGGA Statistics Matches: 68, Mismatches: 10, Indels: 14 0.74 0.11 0.15 Matches are distributed among these distances: 11 10 0.15 12 30 0.44 13 15 0.22 14 13 0.19 ACGTcount: A:0.00, C:0.01, G:0.15, T:0.84 Consensus pattern (12 bp): TTTTTTTTTTGT Found at i:6703843 original size:14 final size:14 Alignment explanation
Indices: 6703824--6703854 Score: 62 Period size: 14 Copynumber: 2.2 Consensus size: 14 6703814 TGGTGTGGCT 6703824 ATTCTTGATGTGGG 1 ATTCTTGATGTGGG 6703838 ATTCTTGATGTGGG 1 ATTCTTGATGTGGG 6703852 ATT 1 ATT 6703855 GATCAATAAA Statistics Matches: 17, Mismatches: 0, Indels: 0 1.00 0.00 0.00 Matches are distributed among these distances: 14 17 1.00 ACGTcount: A:0.16, C:0.06, G:0.32, T:0.45 Consensus pattern (14 bp): ATTCTTGATGTGGG Found at i:6705652 original size:19 final size:19 Alignment explanation
Indices: 6705628--6705688 Score: 80 Period size: 19 Copynumber: 3.5 Consensus size: 19 6705618 CAACTATTTA 6705628 TATCGATACATAAGTGTTG 1 TATCGATACATAAGTGTTG 6705647 TATCGATAC--AA----TG 1 TATCGATACATAAGTGTTG 6705660 TATCGATACATAAGTGTTG 1 TATCGATACATAAGTGTTG 6705679 TATCGATACA 1 TATCGATACA 6705689 ATGTATTGCT Statistics Matches: 36, Mismatches: 0, Indels: 12 0.75 0.00 0.25 Matches are distributed among these distances: 13 11 0.31 15 2 0.06 17 2 0.06 19 21 0.58 ACGTcount: A:0.34, C:0.13, G:0.18, T:0.34 Consensus pattern (19 bp): TATCGATACATAAGTGTTG Found at i:6705663 original size:13 final size:13 Alignment explanation
Indices: 6705645--6705669 Score: 50 Period size: 13 Copynumber: 1.9 Consensus size: 13 6705635 ACATAAGTGT 6705645 TGTATCGATACAA 1 TGTATCGATACAA 6705658 TGTATCGATACA 1 TGTATCGATACA 6705670 TAAGTGTTGT 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:0.36, C:0.16, G:0.16, T:0.32 Consensus pattern (13 bp): TGTATCGATACAA Found at i:6705669 original size:32 final size:32 Alignment explanation
Indices: 6705628--6705694 Score: 134 Period size: 32 Copynumber: 2.1 Consensus size: 32 6705618 CAACTATTTA 6705628 TATCGATACATAAGTGTTGTATCGATACAATG 1 TATCGATACATAAGTGTTGTATCGATACAATG 6705660 TATCGATACATAAGTGTTGTATCGATACAATG 1 TATCGATACATAAGTGTTGTATCGATACAATG 6705692 TAT 1 TAT 6705695 TGCTGCGAAG Statistics Matches: 35, Mismatches: 0, Indels: 0 1.00 0.00 0.00 Matches are distributed among these distances: 32 35 1.00 ACGTcount: A:0.34, C:0.12, G:0.18, T:0.36 Consensus pattern (32 bp): TATCGATACATAAGTGTTGTATCGATACAATG Found at i:6705759 original size:13 final size:13 Alignment explanation
Indices: 6705741--6705765 Score: 50 Period size: 13 Copynumber: 1.9 Consensus size: 13 6705731 ATTACTCAAA 6705741 TGTATCGATACAT 1 TGTATCGATACAT 6705754 TGTATCGATACA 1 TGTATCGATACA 6705766 CTGATCTTTG 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:0.32, C:0.16, G:0.16, T:0.36 Consensus pattern (13 bp): TGTATCGATACAT Found at i:6705832 original size:52 final size:52 Alignment explanation
Indices: 6705774--6705902 Score: 195 Period size: 52 Copynumber: 2.5 Consensus size: 52 6705764 CACTGATCTT * * * 6705774 TGTATCGATACATGCATGCAAATTTGCCCAGATGTATCGATATACTATAAAA 1 TGTATCGATACATGCAGGCAAATTTGCCCAAATGTATCGATACACTATAAAA * * * * 6705826 TTTATCGATACATACAGGCAATTTTGCCCAAATGTATCGATACACTATGAAA 1 TGTATCGATACATGCAGGCAAATTTGCCCAAATGTATCGATACACTATAAAA 6705878 TGTATCGATACATGCAGGCAAATTT 1 TGTATCGATACATGCAGGCAAATTT 6705903 TCATATTTCG Statistics Matches: 67, Mismatches: 10, Indels: 0 0.87 0.13 0.00 Matches are distributed among these distances: 52 67 1.00 ACGTcount: A:0.36, C:0.18, G:0.16, T:0.31 Consensus pattern (52 bp): TGTATCGATACATGCAGGCAAATTTGCCCAAATGTATCGATACACTATAAAA Found at i:6715226 original size:32 final size:30 Alignment explanation
Indices: 6715190--6715248 Score: 75 Period size: 32 Copynumber: 1.9 Consensus size: 30 6715180 GAAATCAAAT 6715190 ACAAAGAGCT-TAGAAAAATAATAACAATATGA 1 ACAAA-AGCTCTAGAAAAAT-ATAA-AATATGA * 6715222 ACAAAAGCTCTTGAAAAATATAAAATA 1 ACAAAAGCTCTAGAAAAATATAAAATA 6715249 CTTTGATCTA Statistics Matches: 25, Mismatches: 1, Indels: 4 0.83 0.03 0.13 Matches are distributed among these distances: 30 4 0.16 31 8 0.32 32 13 0.52 ACGTcount: A:0.59, C:0.10, G:0.10, T:0.20 Consensus pattern (30 bp): ACAAAAGCTCTAGAAAAATATAAAATATGA Found at i:6715544 original size:13 final size:13 Alignment explanation
Indices: 6715526--6715551 Score: 52 Period size: 13 Copynumber: 2.0 Consensus size: 13 6715516 CAATTTTTTG 6715526 TGTATCGATACAT 1 TGTATCGATACAT 6715539 TGTATCGATACAT 1 TGTATCGATACAT 6715552 ACTTTGTGTA Statistics Matches: 13, Mismatches: 0, Indels: 0 1.00 0.00 0.00 Matches are distributed among these distances: 13 13 1.00 ACGTcount: A:0.31, C:0.15, G:0.15, T:0.38 Consensus pattern (13 bp): TGTATCGATACAT Found at i:6715563 original size:32 final size:33 Alignment explanation
Indices: 6715506--6715569 Score: 103 Period size: 32 Copynumber: 2.0 Consensus size: 33 6715496 TACAAGCCAA ** 6715506 TGTATCGATACAATTTTTTGTGTATCGATACAT 1 TGTATCGATACAATACTTTGTGTATCGATACAT 6715539 TGTATCGATAC-ATACTTTGTGTATCGATACA 1 TGTATCGATACAATACTTTGTGTATCGATACA 6715570 AGTTTGGCTA Statistics Matches: 29, Mismatches: 2, Indels: 1 0.91 0.06 0.03 Matches are distributed among these distances: 32 18 0.62 33 11 0.38 ACGTcount: A:0.28, C:0.14, G:0.16, T:0.42 Consensus pattern (33 bp): TGTATCGATACAATACTTTGTGTATCGATACAT Found at i:6716242 original size:40 final size:39 Alignment explanation
Indices: 6716196--6716276 Score: 99 Period size: 39 Copynumber: 2.1 Consensus size: 39 6716186 TTTTCTTTCT * 6716196 CCCTTAAACAAAATAATTTTAACAAATTCATACATTCTCC 1 CCCTT-AACAAAATAATTTTAACAAATTCACACATTCTCC * * * * * 6716236 CCCTTAATAAGATAATTTTAGCAAATTTACGCATTCTCC 1 CCCTTAACAAAATAATTTTAACAAATTCACACATTCTCC 6716275 CC 1 CC 6716277 TTTTATAAAA Statistics Matches: 35, Mismatches: 6, Indels: 1 0.83 0.14 0.02 Matches are distributed among these distances: 39 30 0.86 40 5 0.14 ACGTcount: A:0.37, C:0.26, G:0.04, T:0.33 Consensus pattern (39 bp): CCCTTAACAAAATAATTTTAACAAATTCACACATTCTCC Found at i:6718141 original size:13 final size:12 Alignment explanation
Indices: 6718123--6718160 Score: 58 Period size: 13 Copynumber: 3.0 Consensus size: 12 6718113 ATAATCCCCC 6718123 TGTATCGATACA 1 TGTATCGATACA 6718135 GTGTATCGATACCA 1 -TGTATCGATA-CA 6718149 TGTATCGATACA 1 TGTATCGATACA 6718161 AAGAAAAATG Statistics Matches: 24, Mismatches: 0, Indels: 3 0.89 0.00 0.11 Matches are distributed among these distances: 12 2 0.08 13 20 0.83 14 2 0.08 ACGTcount: A:0.32, C:0.18, G:0.18, T:0.32 Consensus pattern (12 bp): TGTATCGATACA Found at i:6724364 original size:13 final size:13 Alignment explanation
Indices: 6724346--6724371 Score: 52 Period size: 13 Copynumber: 2.0 Consensus size: 13 6724336 CAATTTTTTG 6724346 TGTATCGATACAT 1 TGTATCGATACAT 6724359 TGTATCGATACAT 1 TGTATCGATACAT 6724372 ACTTTGTGTA Statistics Matches: 13, Mismatches: 0, Indels: 0 1.00 0.00 0.00 Matches are distributed among these distances: 13 13 1.00 ACGTcount: A:0.31, C:0.15, G:0.15, T:0.38 Consensus pattern (13 bp): TGTATCGATACAT Found at i:6724383 original size:32 final size:33 Alignment explanation
Indices: 6724326--6724389 Score: 103 Period size: 32 Copynumber: 2.0 Consensus size: 33 6724316 TACAAGCCAA ** 6724326 TGTATCGATACAATTTTTTGTGTATCGATACAT 1 TGTATCGATACAATACTTTGTGTATCGATACAT 6724359 TGTATCGATAC-ATACTTTGTGTATCGATACA 1 TGTATCGATACAATACTTTGTGTATCGATACA 6724390 AGTTTGGCTA Statistics Matches: 29, Mismatches: 2, Indels: 1 0.91 0.06 0.03 Matches are distributed among these distances: 32 18 0.62 33 11 0.38 ACGTcount: A:0.28, C:0.14, G:0.16, T:0.42 Consensus pattern (33 bp): TGTATCGATACAATACTTTGTGTATCGATACAT Found at i:6729718 original size:19 final size:20 Alignment explanation
Indices: 6729694--6729731 Score: 60 Period size: 20 Copynumber: 1.9 Consensus size: 20 6729684 ATATAATAAG 6729694 ACTTA-GTATCGATACATTC 1 ACTTAGGTATCGATACATTC * 6729713 ACTTAGGTATTGATACATT 1 ACTTAGGTATCGATACATT 6729732 GATTTATTGT Statistics Matches: 17, Mismatches: 1, Indels: 1 0.89 0.05 0.05 Matches are distributed among these distances: 19 5 0.29 20 12 0.71 ACGTcount: A:0.32, C:0.16, G:0.13, T:0.39 Consensus pattern (20 bp): ACTTAGGTATCGATACATTC Found at i:6730629 original size:80 final size:80 Alignment explanation
Indices: 6730447--6730665 Score: 224 Period size: 80 Copynumber: 2.7 Consensus size: 80 6730437 TGGCAAAATG * * * * * 6730447 CCTTTTGACAT-TGACAAGGTGCCAATATGTTGATTTAAGGCCAATGATATTAAGCTTTGACTAG 1 CCTTTTGACATAAGCCAA-GTGCCAATGTGTTGATTCAAGGCCAATGATATTAAGCTTGGACTAG 6730511 AACTACATAACAAGTA 65 AACTACATAACAAGTA * * *** * ** 6730527 CCTTTTGGCATAAACGGGGTGCCAATGTATTGATTCAAGGCCAATGATATTGGGCTTGGACTAGA 1 CCTTTTGACATAAGCCAAGTGCCAATGTGTTGATTCAAGGCCAATGATATTAAGCTTGGACTAGA * * * 6730592 ACTATATGACATGTA 66 ACTACATAACAAGTA * * * ** * 6730607 CCTTTTGACATAGGCCAAGTGCCAATGTGCTGATTCAAGGCTAGCGACATTAAGCTTGG 1 CCTTTTGACATAAGCCAAGTGCCAATGTGTTGATTCAAGGCCAATGATATTAAGCTTGG 6730666 GAAAAAGATT Statistics Matches: 108, Mismatches: 30, Indels: 2 0.77 0.21 0.01 Matches are distributed among these distances: 80 108 1.00 ACGTcount: A:0.30, C:0.18, G:0.22, T:0.30 Consensus pattern (80 bp): CCTTTTGACATAAGCCAAGTGCCAATGTGTTGATTCAAGGCCAATGATATTAAGCTTGGACTAGA ACTACATAACAAGTA Found at i:6730896 original size:81 final size:80 Alignment explanation
Indices: 6730698--6730923 Score: 267 Period size: 80 Copynumber: 2.8 Consensus size: 80 6730688 GCATGACTTA * * * * * * 6730698 AGGTAAGGTACCAATGTGCTAATTCAAGGCCAGTGACATTAGGCTTTAGTGAAGAAGATTTGACA 1 AGGTAGGGTTCCAATGTGCTAATTCAAGGTCAGCGACATTGGGCTTTAGTAAAGAAGATTTGACA * 6730763 AGTGCCTTTTGACAT 66 AGTGCCTTTTAACAT * * 6730778 AGGCAGGGTGT-CAATGTGCTAATTCAAGGTTAGCGACATTGGGCTTTAGTAAAGAAGATTTGAC 1 AGGTAGGGT-TCCAATGTGCTAATTCAAGGTCAGCGACATTGGGCTTTAGTAAAGAAGATTTGAC ** 6730842 AAGTGTTTTTTTAACAT 65 AAGTG-CCTTTTAACAT * * * * * 6730859 AGGTAGGGTTCCAATGTGCTGATTCAAGGTCAACGACATTGAGCTTAAG-AAAGAAGGTTTTGAC 1 AGGTAGGGTTCCAATGTGCTAATTCAAGGTCAGCGACATTGGGCTTTAGTAAAGAA-GATTTGAC 6730923 A 65 A 6730924 GATGCTACAT Statistics Matches: 124, Mismatches: 18, Indels: 7 0.83 0.12 0.05 Matches are distributed among these distances: 80 67 0.54 81 57 0.46 ACGTcount: A:0.31, C:0.13, G:0.26, T:0.30 Consensus pattern (80 bp): AGGTAGGGTTCCAATGTGCTAATTCAAGGTCAGCGACATTGGGCTTTAGTAAAGAAGATTTGACA AGTGCCTTTTAACAT Found at i:6731198 original size:28 final size:28 Alignment explanation
Indices: 6731148--6731237 Score: 72 Period size: 28 Copynumber: 3.1 Consensus size: 28 6731138 TTTGGAAAGG * ** * 6731148 TTTGAGTGCCACTAGCTTGTGCGGGCTT 1 TTTGAGTGCCACCAGCTCATGCGAGCTT * 6731176 TTTGGGTGCCACCAGCTCATGCGAGCTT 1 TTTGAGTGCCACCAGCTCATGCGAGCTT ** * 6731204 TGGGAAATGATGCCACCAGCTCATGTGAGCTT 1 TTTG--A-G-TGCCACCAGCTCATGCGAGCTT 6731236 TT 1 TT 6731238 AGAAAGGTTT Statistics Matches: 48, Mismatches: 10, Indels: 4 0.77 0.16 0.06 Matches are distributed among these distances: 28 25 0.52 31 1 0.02 32 22 0.46 ACGTcount: A:0.17, C:0.23, G:0.29, T:0.31 Consensus pattern (28 bp): TTTGAGTGCCACCAGCTCATGCGAGCTT Found at i:6731354 original size:97 final size:97 Alignment explanation
Indices: 6731045--6731355 Score: 243 Period size: 97 Copynumber: 3.2 Consensus size: 97 6731035 GCAGGCTTTG * * * * * * * * * 6731045 AAAAGGTTTGAA-TGCCATCAGCTCATGTAGGCTTTTTAGGTGCCGCCAACTCGTGAGGGCTTTA 1 AAAAGGTTT-AAGTGCCACCAGTTCATATAGGCTTTTTGGGTGCCACCAGCTCATGCGAGCTTTA * * * * * ** * 6731109 AGAAATGATGCCATCTGTTCGTGTGCGCTTTTG 65 AGAAAGGATGCCACCAGCTCATGTAAGCTTTTA * * * * *** * 6731142 GAAAGGTTTGAGTGCCACTAGCTT-GTGCGGGCTTTTTGGGTGCCACCAGCTCATGCGAGCTTTG 1 AAAAGGTTTAAGTGCCACCAG-TTCATATAGGCTTTTTGGGTGCCACCAGCTCATGCGAGCTTTA * * * 6731206 GGAAATGATGCCACCAGCTCATGTGAGCTTTTA 65 AGAAAGGATGCCACCAGCTCATGTAAGCTTTTA * * * 6731239 GAAAGGTTTGAGTGCCACCAGTTCATATAGGCTTTTTGGGTGCCATCAGCTCGCATG-G-GCTTT 1 AAAAGGTTTAAGTGCCACCAGTTCATATAGGCTTTTTGGGTGCCACCAGCT--CATGCGAGCTTT ** * 6731302 AAGAAAGGATTTCACCAGCTCGTGTAAGCTTTTA 64 AAGAAAGGATGCCACCAGCTCATGTAAGCTTTTA * 6731336 AAAAGGTTTAAGTTCCACCA 1 AAAAGGTTTAAGTGCCACCA 6731356 ACTCGTGTGA Statistics Matches: 171, Mismatches: 38, Indels: 10 0.78 0.17 0.05 Matches are distributed among these distances: 96 3 0.02 97 162 0.95 98 2 0.01 99 4 0.02 ACGTcount: A:0.23, C:0.20, G:0.27, T:0.30 Consensus pattern (97 bp): AAAAGGTTTAAGTGCCACCAGTTCATATAGGCTTTTTGGGTGCCACCAGCTCATGCGAGCTTTAA GAAAGGATGCCACCAGCTCATGTAAGCTTTTA Found at i:6731487 original size:166 final size:166 Alignment explanation
Indices: 6731184--6731487 Score: 391 Period size: 166 Copynumber: 1.8 Consensus size: 166 6731174 TTTTTGGGTG * ** * * 6731184 CCACCAGCTCATGCGAGCTTTGGGAAATGATGCCACCAGCTCATGTGAGCTTTTAGAAAGGTTTG 1 CCACCAACTCATGCGAGCTTTGAAAAAGGATGCCACCAGCTCATGTGAGCTTTGAGAAAGGTTTG * * * * * 6731249 AGTGCCACCAGTTCATATAGGCTTTTTGGGTGCCATCAGCTCGCATGGGCTTTAAGAAAGGATTT 66 AGTGCCACCAGTTCATATAGGCATTTTAGGTGCCACCAGATCGCATGGGCTTTAAGAAAGGATTG 6731314 CACCAGCTCGTGTAAGCTTTTAAAAAGGTTTAAGTT 131 CACCAGCTCGTGTAAGCTTTTAAAAAGGTTTAAGTT * * * 6731350 CCACCAACTCGTGTGAGCTTTGAAAAAGGATGCCACCAGCTCATGTGGGCTTTCGA-AAAGGTTT 1 CCACCAACTCATGCGAGCTTTGAAAAAGGATGCCACCAGCTCATGTGAGCTTT-GAGAAAGGTTT ** * * 6731414 GAGTGCCACCAGTTTGTATGGGCATTTTAGGTGCTACCA-AT-GCATGCGGGCTTTAAGAAAGGA 65 GAGTGCCACCAGTTCATATAGGCATTTTAGGTGCCACCAGATCGCAT--GGGCTTTAAGAAAGGA 6731477 -TGCAACCAGCT 128 TTGC-ACCAGCT 6731488 TATATGGACT Statistics Matches: 117, Mismatches: 17, Indels: 8 0.82 0.12 0.06 Matches are distributed among these distances: 164 4 0.03 165 3 0.03 166 109 0.93 167 1 0.01 ACGTcount: A:0.26, C:0.21, G:0.26, T:0.28 Consensus pattern (166 bp): CCACCAACTCATGCGAGCTTTGAAAAAGGATGCCACCAGCTCATGTGAGCTTTGAGAAAGGTTTG AGTGCCACCAGTTCATATAGGCATTTTAGGTGCCACCAGATCGCATGGGCTTTAAGAAAGGATTG CACCAGCTCGTGTAAGCTTTTAAAAAGGTTTAAGTT Found at i:6736596 original size:53 final size:53 Alignment explanation
Indices: 6736528--6736649 Score: 151 Period size: 52 Copynumber: 2.3 Consensus size: 53 6736518 ATAACGAGGT * ** * 6736528 TGGAGTATCCTCGATTGTGAA-AAAATTGGTGTTTTTGGAAATAAAATCGGAGC 1 TGGAGTATCCTCGATTGTAAAGAAAATTGGTG-TTTTAAAAATAAAATCGGAGA * 6736581 TGGAGTATCCCCGA-T-TAAAGGAAAATTGGTGTTTTAAAAATAAAATCGGAGA 1 TGGAGTATCCTCGATTGTAAA-GAAAATTGGTGTTTTAAAAATAAAATCGGAGA * 6736633 TGGAATATCCTCGATTG 1 TGGAGTATCCTCGATTG 6736650 CGGAGAATTG Statistics Matches: 58, Mismatches: 7, Indels: 7 0.81 0.10 0.10 Matches are distributed among these distances: 51 3 0.05 52 31 0.53 53 24 0.41 ACGTcount: A:0.34, C:0.11, G:0.25, T:0.30 Consensus pattern (53 bp): TGGAGTATCCTCGATTGTAAAGAAAATTGGTGTTTTAAAAATAAAATCGGAGA Found at i:6739027 original size:13 final size:13 Alignment explanation
Indices: 6739009--6739034 Score: 52 Period size: 13 Copynumber: 2.0 Consensus size: 13 6738999 ACAAAGATCC 6739009 ATGTATCGATACA 1 ATGTATCGATACA 6739022 ATGTATCGATACA 1 ATGTATCGATACA 6739035 CAGAAAAATG Statistics Matches: 13, Mismatches: 0, Indels: 0 1.00 0.00 0.00 Matches are distributed among these distances: 13 13 1.00 ACGTcount: A:0.38, C:0.15, G:0.15, T:0.31 Consensus pattern (13 bp): ATGTATCGATACA Found at i:6739030 original size:33 final size:33 Alignment explanation
Indices: 6738988--6739054 Score: 98 Period size: 33 Copynumber: 2.0 Consensus size: 33 6738978 AAAATTTCCA *** 6738988 AATGTATCGATACAAAGATCCATGTATCGATAC 1 AATGTATCGATACAAAGAAAAATGTATCGATAC * 6739021 AATGTATCGATACACAGAAAAATGTATCGATAC 1 AATGTATCGATACAAAGAAAAATGTATCGATAC 6739054 A 1 A 6739055 TTTCCTTGGC Statistics Matches: 30, Mismatches: 4, Indels: 0 0.88 0.12 0.00 Matches are distributed among these distances: 33 30 1.00 ACGTcount: A:0.43, C:0.16, G:0.15, T:0.25 Consensus pattern (33 bp): AATGTATCGATACAAAGAAAAATGTATCGATAC Found at i:6739098 original size:19 final size:18 Alignment explanation
Indices: 6739074--6739141 Score: 83 Period size: 19 Copynumber: 3.9 Consensus size: 18 6739064 CAGTAGCTAA 6739074 TTATGTATCGATACAATAC 1 TTATGTATCGATACAA-AC 6739093 TTATGTATCGATAC--A- 1 TTATGTATCGATACAAAC 6739108 -T-TGTATCGATACAAAAC 1 TTATGTATCGATAC-AAAC 6739125 TTATGTATCGATACAAA 1 TTATGTATCGATACAAA 6739142 TTGTTGAATT Statistics Matches: 43, Mismatches: 0, Indels: 13 0.77 0.00 0.23 Matches are distributed among these distances: 13 11 0.26 14 1 0.02 16 2 0.05 18 4 0.09 19 25 0.58 ACGTcount: A:0.38, C:0.15, G:0.12, T:0.35 Consensus pattern (18 bp): TTATGTATCGATACAAAC Found at i:6739114 original size:13 final size:13 Alignment explanation
Indices: 6739096--6739120 Score: 50 Period size: 13 Copynumber: 1.9 Consensus size: 13 6739086 ACAATACTTA 6739096 TGTATCGATACAT 1 TGTATCGATACAT 6739109 TGTATCGATACA 1 TGTATCGATACA 6739121 AAACTTATGT 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:0.32, C:0.16, G:0.16, T:0.36 Consensus pattern (13 bp): TGTATCGATACAT Found at i:6739118 original size:32 final size:32 Alignment explanation
Indices: 6739077--6739139 Score: 117 Period size: 32 Copynumber: 2.0 Consensus size: 32 6739067 TAGCTAATTA * 6739077 TGTATCGATACAATACTTATGTATCGATACAT 1 TGTATCGATACAAAACTTATGTATCGATACAT 6739109 TGTATCGATACAAAACTTATGTATCGATACA 1 TGTATCGATACAAAACTTATGTATCGATACA 6739140 AATTGTTGAA Statistics Matches: 30, Mismatches: 1, Indels: 0 0.97 0.03 0.00 Matches are distributed among these distances: 32 30 1.00 ACGTcount: A:0.37, C:0.16, G:0.13, T:0.35 Consensus pattern (32 bp): TGTATCGATACAAAACTTATGTATCGATACAT Found at i:6740346 original size:13 final size:13 Alignment explanation
Indices: 6740328--6740353 Score: 52 Period size: 13 Copynumber: 2.0 Consensus size: 13 6740318 TACACCAAGT 6740328 ATGTATCGATACA 1 ATGTATCGATACA 6740341 ATGTATCGATACA 1 ATGTATCGATACA 6740354 CCAAAAATTG Statistics Matches: 13, Mismatches: 0, Indels: 0 1.00 0.00 0.00 Matches are distributed among these distances: 13 13 1.00 ACGTcount: A:0.38, C:0.15, G:0.15, T:0.31 Consensus pattern (13 bp): ATGTATCGATACA Done.