Tandem Repeats Finder Program written by: Gary Benson Program in Bioinformatics Boston University Version 4.09 Sequence: Chr11 124536837 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: 124536837 ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33 Warning! 312 characters in sequence are not A, C, G, or T File 172 of 427 Found at i:47886237 original size:40 final size:40 Alignment explanation
Indices: 47886071--47886238 Score: 169 Period size: 40 Copynumber: 4.2 Consensus size: 40 47886061 CATTTGAATG * * * 47886071 ATATCCGGGCTAAGTCCCGAAGGCATTTATGCTAGTGATT 1 ATATCCGGGCTAAGACCCGAAGGCAATTGTGCTAGTGATT * * 47886111 ATGTCCGGGCTAAGACCCGAAGGC-ATTCGTGCGAGTTG-TT 1 ATATCCGGGCTAAGACCCGAAGGCAATT-GTGCTAG-TGATT * * * ** 47886151 ATATCCGGGCTAAGACCCGAAGGCAATGGTGCAAGTTACC 1 ATATCCGGGCTAAGACCCGAAGGCAATTGTGCTAGTGATT * * * * 47886191 AAATCCGGGTTAAGACCCGAAGGCAATTGTGCTTGTGGTT 1 ATATCCGGGCTAAGACCCGAAGGCAATTGTGCTAGTGATT * 47886231 GTATCCGG 1 ATATCCGG 47886239 TTAAATCCCG Statistics Matches: 102, Mismatches: 22, Indels: 8 0.77 0.17 0.06 Matches are distributed among these distances: 39 3 0.03 40 95 0.93 41 4 0.04 ACGTcount: A:0.24, C:0.21, G:0.29, T:0.25 Consensus pattern (40 bp): ATATCCGGGCTAAGACCCGAAGGCAATTGTGCTAGTGATT Found at i:47889590 original size:42 final size:42 Alignment explanation
Indices: 47889513--47889595 Score: 112 Period size: 42 Copynumber: 2.0 Consensus size: 42 47889503 AATGCCCACA ** * * * 47889513 TGGCTTGAGACAGGGGTGTGTCTCTTGGCTATGTGAGTCACC 1 TGGCTTGAGACACAGGCGTGTCTCTTGGCCATGTGACTCACC * 47889555 TGGCTTGAGACACAGGCGTGTCTCTTGGCCGTGTGACTCAC 1 TGGCTTGAGACACAGGCGTGTCTCTTGGCCATGTGACTCAC 47889596 ACGGCCTGGC Statistics Matches: 35, Mismatches: 6, Indels: 0 0.85 0.15 0.00 Matches are distributed among these distances: 42 35 1.00 ACGTcount: A:0.14, C:0.23, G:0.34, T:0.29 Consensus pattern (42 bp): TGGCTTGAGACACAGGCGTGTCTCTTGGCCATGTGACTCACC Found at i:47890981 original size:18 final size:17 Alignment explanation
Indices: 47890934--47890981 Score: 51 Period size: 18 Copynumber: 2.6 Consensus size: 17 47890924 ATATTAACTA 47890934 TGAAAGAAATATAAATGCC 1 TGAAA-AAA-ATAAATGCC * 47890953 TAAAAATAAATAAATGCTC 1 TGAAAA-AAATAAATGC-C 47890972 TGAAAAAAAT 1 TGAAAAAAAT 47890982 TTCCCCCTTT Statistics Matches: 25, Mismatches: 2, Indels: 5 0.78 0.06 0.16 Matches are distributed among these distances: 18 13 0.52 19 12 0.48 ACGTcount: A:0.58, C:0.08, G:0.10, T:0.23 Consensus pattern (17 bp): TGAAAAAAATAAATGCC Found at i:47899186 original size:20 final size:21 Alignment explanation
Indices: 47899163--47899204 Score: 59 Period size: 21 Copynumber: 2.0 Consensus size: 21 47899153 TATGTATGAG * 47899163 TTTTGAA-GTTTCTTGATAGA 1 TTTTGAATGCTTCTTGATAGA * 47899183 TTTTGAATGCTTGTTGATAGA 1 TTTTGAATGCTTCTTGATAGA 47899204 T 1 T 47899205 ATACAAGTTT Statistics Matches: 19, Mismatches: 2, Indels: 1 0.86 0.09 0.05 Matches are distributed among these distances: 20 7 0.37 21 12 0.63 ACGTcount: A:0.24, C:0.05, G:0.21, T:0.50 Consensus pattern (21 bp): TTTTGAATGCTTCTTGATAGA Found at i:47903117 original size:42 final size:42 Alignment explanation
Indices: 47903058--47903142 Score: 170 Period size: 42 Copynumber: 2.0 Consensus size: 42 47903048 AATGACTTAG 47903058 GGTTACTATTTTCCAGCTAACTTGATGCTTTTACAGTTTGAT 1 GGTTACTATTTTCCAGCTAACTTGATGCTTTTACAGTTTGAT 47903100 GGTTACTATTTTCCAGCTAACTTGATGCTTTTACAGTTTGAT 1 GGTTACTATTTTCCAGCTAACTTGATGCTTTTACAGTTTGAT 47903142 G 1 G 47903143 AGTTTGATGT Statistics Matches: 43, Mismatches: 0, Indels: 0 1.00 0.00 0.00 Matches are distributed among these distances: 42 43 1.00 ACGTcount: A:0.21, C:0.16, G:0.18, T:0.45 Consensus pattern (42 bp): GGTTACTATTTTCCAGCTAACTTGATGCTTTTACAGTTTGAT Found at i:47911748 original size:20 final size:20 Alignment explanation
Indices: 47911723--47911760 Score: 58 Period size: 20 Copynumber: 1.9 Consensus size: 20 47911713 GTTTATTCGC * 47911723 GATTTTCAATATTTTGTAAA 1 GATTTTCAAAATTTTGTAAA * 47911743 GATTTTTAAAATTTTGTA 1 GATTTTCAAAATTTTGTA 47911761 TTTGGATGTG Statistics Matches: 16, Mismatches: 2, Indels: 0 0.89 0.11 0.00 Matches are distributed among these distances: 20 16 1.00 ACGTcount: A:0.34, C:0.03, G:0.11, T:0.53 Consensus pattern (20 bp): GATTTTCAAAATTTTGTAAA Found at i:47913421 original size:28 final size:28 Alignment explanation
Indices: 47913389--47913457 Score: 122 Period size: 28 Copynumber: 2.5 Consensus size: 28 47913379 GCGTAGATCA 47913389 CGAAATTACCCCTAAAGAGCAAAATTAC 1 CGAAATTACCCCTAAAGAGCAAAATTAC 47913417 CGAAATTACCCCTAAAGAGCAAAATTAC 1 CGAAATTACCCCTAAAGAGCAAAATTAC * 47913445 CGATA-TACCCCTA 1 CGAAATTACCCCTA 47913458 GGGTTTTAAG Statistics Matches: 40, Mismatches: 1, Indels: 1 0.95 0.02 0.02 Matches are distributed among these distances: 27 8 0.20 28 32 0.80 ACGTcount: A:0.43, C:0.28, G:0.10, T:0.19 Consensus pattern (28 bp): CGAAATTACCCCTAAAGAGCAAAATTAC Found at i:47929848 original size:20 final size:20 Alignment explanation
Indices: 47929823--47929860 Score: 58 Period size: 20 Copynumber: 1.9 Consensus size: 20 47929813 GTTTATTCGC * 47929823 GATTTTCAATATTTTGTAAA 1 GATTTTCAAAATTTTGTAAA * 47929843 GATTTTTAAAATTTTGTA 1 GATTTTCAAAATTTTGTA 47929861 TTTGGATGTG Statistics Matches: 16, Mismatches: 2, Indels: 0 0.89 0.11 0.00 Matches are distributed among these distances: 20 16 1.00 ACGTcount: A:0.34, C:0.03, G:0.11, T:0.53 Consensus pattern (20 bp): GATTTTCAAAATTTTGTAAA Found at i:47931520 original size:28 final size:28 Alignment explanation
Indices: 47931488--47931556 Score: 122 Period size: 28 Copynumber: 2.5 Consensus size: 28 47931478 GCGTAGATCA 47931488 CGAAATTACCCCTAAAGAGCAAAATTAC 1 CGAAATTACCCCTAAAGAGCAAAATTAC 47931516 CGAAATTACCCCTAAAGAGCAAAATTAC 1 CGAAATTACCCCTAAAGAGCAAAATTAC * 47931544 CGATA-TACCCCTA 1 CGAAATTACCCCTA 47931557 GGGTTTTAAA Statistics Matches: 40, Mismatches: 1, Indels: 1 0.95 0.02 0.02 Matches are distributed among these distances: 27 8 0.20 28 32 0.80 ACGTcount: A:0.43, C:0.28, G:0.10, T:0.19 Consensus pattern (28 bp): CGAAATTACCCCTAAAGAGCAAAATTAC Found at i:47933019 original size:42 final size:42 Alignment explanation
Indices: 47932904--47933026 Score: 110 Period size: 43 Copynumber: 2.9 Consensus size: 42 47932894 GTCTGAGACA * 47932904 TCGTGTAAGA-CTGTGTCTGGGACACAGGCCTC-TATTAAGATT 1 TCGTGTAAGACCT-TGTCTGGGACACAGGCATCGTATT-AGATT * * * * 47932946 TACGTATCAGACCATGTCTGGGAAATC-GGCATCGTATCT-GATT 1 T-CGTGTAAGACCTTGTCTGGGACA-CAGGCATCGTAT-TAGATT * 47932989 TCGTGTAAGACCTTGTCTGGGACAGAGGCATCGATATT 1 TCGTGTAAGACCTTGTCTGGGACACAGGCATCG-TATT 47933027 CAATTACATG Statistics Matches: 64, Mismatches: 10, Indels: 14 0.73 0.11 0.16 Matches are distributed among these distances: 42 28 0.44 43 30 0.47 44 5 0.08 45 1 0.02 ACGTcount: A:0.24, C:0.20, G:0.26, T:0.30 Consensus pattern (42 bp): TCGTGTAAGACCTTGTCTGGGACACAGGCATCGTATTAGATT Found at i:47944812 original size:40 final size:40 Alignment explanation
Indices: 47944775--47945000 Score: 264 Period size: 40 Copynumber: 5.7 Consensus size: 40 47944765 GCTACTCGTT * 47944775 CAAATGCCTTCGGGACATAGCCCGG-TTATAGTAACTCGCA 1 CAAATGCCTTCGGGACTTAGCCCGGATT-TAGTAACTCGCA * * 47944815 CAAATGCCTTCGGGACTTAACTCGGATTTAGTAACTCGCA 1 CAAATGCCTTCGGGACTTAGCCCGGATTTAGTAACTCGCA * 47944855 CAAATGCCTTC-GGATCTTAGTCCGGATTTAGTAACTCGCA 1 CAAATGCCTTCGGGA-CTTAGCCCGGATTTAGTAACTCGCA * * * 47944895 CGAATGCCTTC-GGATCTTAGTCCAGATTTAGTAACTCGCA 1 CAAATGCCTTCGGGA-CTTAGCCCGGATTTAGTAACTCGCA * * * * * 47944935 CGAATGCCTTC-GGATCTTAGTCCGGATATAGTCACTTAGCA 1 CAAATGCCTTCGGGA-CTTAGCCCGGATTTAGTAAC-TCGCA 47944976 CAAA-GCCTTCGGGACTTAGCCCGGA 1 CAAATGCCTTCGGGACTTAGCCCGGA 47945001 CATCATTCGA Statistics Matches: 168, Mismatches: 14, Indels: 8 0.88 0.07 0.04 Matches are distributed among these distances: 39 3 0.02 40 153 0.91 41 12 0.07 ACGTcount: A:0.26, C:0.26, G:0.22, T:0.27 Consensus pattern (40 bp): CAAATGCCTTCGGGACTTAGCCCGGATTTAGTAACTCGCA Found at i:47955807 original size:9 final size:9 Alignment explanation
Indices: 47955795--47955829 Score: 61 Period size: 9 Copynumber: 3.9 Consensus size: 9 47955785 TAGGCCCACG 47955795 GGGCCCATT 1 GGGCCCATT 47955804 GGGCCCATT 1 GGGCCCATT 47955813 GGGCCCATT 1 GGGCCCATT * 47955822 TGGCCCAT 1 GGGCCCAT 47955830 CGAGGCCTAG Statistics Matches: 25, Mismatches: 1, Indels: 0 0.96 0.04 0.00 Matches are distributed among these distances: 9 25 1.00 ACGTcount: A:0.11, C:0.34, G:0.31, T:0.23 Consensus pattern (9 bp): GGGCCCATT Found at i:47955810 original size:18 final size:18 Alignment explanation
Indices: 47955787--47955828 Score: 57 Period size: 18 Copynumber: 2.3 Consensus size: 18 47955777 TACACAAGTA 47955787 GGCCCACGGGGCCCATTG 1 GGCCCACGGGGCCCATTG ** * 47955805 GGCCCATTGGGCCCATTT 1 GGCCCACGGGGCCCATTG 47955823 GGCCCA 1 GGCCCA 47955829 TCGAGGCCTA Statistics Matches: 21, Mismatches: 3, Indels: 0 0.88 0.12 0.00 Matches are distributed among these distances: 18 21 1.00 ACGTcount: A:0.12, C:0.38, G:0.33, T:0.17 Consensus pattern (18 bp): GGCCCACGGGGCCCATTG Found at i:47972857 original size:43 final size:43 Alignment explanation
Indices: 47972809--47972965 Score: 190 Period size: 43 Copynumber: 3.7 Consensus size: 43 47972799 TATCCAAGAT * * 47972809 ATGGTCTTACATGTTATCACATATCGATGCCAATGTCCCAGAC 1 ATGGTCTTACACGTAATCACATATCGATGCCAATGTCCCAGAC * ** * * 47972852 ATGGTCTTACACGAAATCGTATAACGATGCCAATGTCCGAGAC 1 ATGGTCTTACACGTAATCACATATCGATGCCAATGTCCCAGAC * * 47972895 ATGGTATTACACGTAATCACA-ATACAATGCCAATGTCCCAGAC 1 ATGGTCTTACACGTAATCACATAT-CGATGCCAATGTCCCAGAC * * * 47972938 ATGGTCTTGCATGTAATCACATCTCGAT 1 ATGGTCTTACACGTAATCACATATCGAT 47972966 AATCCTAATG Statistics Matches: 93, Mismatches: 19, Indels: 4 0.80 0.16 0.03 Matches are distributed among these distances: 42 1 0.01 43 91 0.98 44 1 0.01 ACGTcount: A:0.31, C:0.24, G:0.17, T:0.27 Consensus pattern (43 bp): ATGGTCTTACACGTAATCACATATCGATGCCAATGTCCCAGAC Found at i:47982106 original size:24 final size:23 Alignment explanation
Indices: 47982072--47982129 Score: 89 Period size: 24 Copynumber: 2.5 Consensus size: 23 47982062 AATCTCAAAT 47982072 GCACTATGTGTACGATTTACTATG 1 GCACTATGTGTACGATTTA-TATG * * 47982096 GTACTATGTGTGCGATTTATATG 1 GCACTATGTGTACGATTTATATG 47982119 GCACTATGTGT 1 GCACTATGTGT 47982130 GCGAACATAA Statistics Matches: 31, Mismatches: 3, Indels: 1 0.89 0.09 0.03 Matches are distributed among these distances: 23 14 0.45 24 17 0.55 ACGTcount: A:0.22, C:0.14, G:0.24, T:0.40 Consensus pattern (23 bp): GCACTATGTGTACGATTTATATG Found at i:47982124 original size:23 final size:24 Alignment explanation
Indices: 47982072--47982133 Score: 99 Period size: 23 Copynumber: 2.6 Consensus size: 24 47982062 AATCTCAAAT * 47982072 GCACTATGTGTACGATTTACTATG 1 GCACTATGTGTGCGATTTACTATG * 47982096 GTACTATGTGTGCGATTTA-TATG 1 GCACTATGTGTGCGATTTACTATG 47982119 GCACTATGTGTGCGA 1 GCACTATGTGTGCGA 47982134 ACATAATAAG Statistics Matches: 35, Mismatches: 3, Indels: 1 0.90 0.08 0.03 Matches are distributed among these distances: 23 18 0.51 24 17 0.49 ACGTcount: A:0.23, C:0.15, G:0.26, T:0.37 Consensus pattern (24 bp): GCACTATGTGTGCGATTTACTATG Found at i:47989915 original size:24 final size:24 Alignment explanation
Indices: 47989883--47989945 Score: 117 Period size: 24 Copynumber: 2.6 Consensus size: 24 47989873 AATCTCAAAT 47989883 GCACTATGTGTGCGATTTACTATG 1 GCACTATGTGTGCGATTTACTATG * 47989907 GCACTATGTGTGCGATTTATTATG 1 GCACTATGTGTGCGATTTACTATG 47989931 GCACTATGTGTGCGA 1 GCACTATGTGTGCGA 47989946 ACATAATAAG Statistics Matches: 38, Mismatches: 1, Indels: 0 0.97 0.03 0.00 Matches are distributed among these distances: 24 38 1.00 ACGTcount: A:0.21, C:0.16, G:0.27, T:0.37 Consensus pattern (24 bp): GCACTATGTGTGCGATTTACTATG Found at i:47998147 original size:15 final size:16 Alignment explanation
Indices: 47998113--47998147 Score: 54 Period size: 17 Copynumber: 2.2 Consensus size: 16 47998103 AATTTCTTGA 47998113 ATTGCCAGACACAAAAT 1 ATTGCCAGACAC-AAAT 47998130 ATTGCCAGACAC-AAT 1 ATTGCCAGACACAAAT 47998145 ATT 1 ATT 47998148 TGCATTTTTA Statistics Matches: 18, Mismatches: 0, Indels: 2 0.90 0.00 0.10 Matches are distributed among these distances: 15 6 0.33 17 12 0.67 ACGTcount: A:0.43, C:0.23, G:0.11, T:0.23 Consensus pattern (16 bp): ATTGCCAGACACAAAT Found at i:47999136 original size:40 final size:39 Alignment explanation
Indices: 47999071--47999152 Score: 110 Period size: 40 Copynumber: 2.1 Consensus size: 39 47999061 TATATATATA * 47999071 TAGCCAAAGCTATCTCAAATTGCACACCAAGTGCCACTTT 1 TAGCCAAAGCTATCTCAAATCGCACACCAAGTGCCA-TTT * * * * 47999111 TAGCCGAAGCTATTTCGAATCGCACACTAAGTGCCATTT 1 TAGCCAAAGCTATCTCAAATCGCACACCAAGTGCCATTT 47999150 TAG 1 TAG 47999153 ACGATAAGTC Statistics Matches: 37, Mismatches: 5, Indels: 1 0.86 0.12 0.02 Matches are distributed among these distances: 39 6 0.16 40 31 0.84 ACGTcount: A:0.30, C:0.27, G:0.16, T:0.27 Consensus pattern (39 bp): TAGCCAAAGCTATCTCAAATCGCACACCAAGTGCCATTT Found at i:48002120 original size:66 final size:68 Alignment explanation
Indices: 48002044--48002230 Score: 281 Period size: 71 Copynumber: 2.7 Consensus size: 68 48002034 TAGTACCACT * 48002044 CATGCGACCTAGC-CGATTTGTC-T-CGTAGCTCTCTTGTCTACATGGTGTCCTTCACTTGGAAT 1 CATGCGACCTAGCAC-ATTTATCTTACGTAGCTCTCTTGTCTACATGGTGTCCTTCACTTGGAAT 48002106 CACG 65 CACG 48002110 CATGCGACCTAGCTACATTTATCTTTCACGTAGCTCTCTTGTCTACATGGTGTCCTTCACTTGGA 1 CATGCGACCTAGC-ACATTTATC-TT-ACGTAGCTCTCTTGTCTACATGGTGTCCTTCACTTGGA 48002175 ATCACG 63 ATCACG 48002181 CATGCGACCTAGCTACATTTATCTTTCACGTAGCTCTCTTGTCTACATGG 1 CATGCGACCTAGC-ACATTTATC-TT-ACGTAGCTCTCTTGTCTACATGG 48002231 GATACATCTC Statistics Matches: 114, Mismatches: 1, Indels: 7 0.93 0.01 0.06 Matches are distributed among these distances: 66 13 0.11 67 6 0.05 68 1 0.01 69 1 0.01 71 93 0.82 ACGTcount: A:0.19, C:0.28, G:0.18, T:0.35 Consensus pattern (68 bp): CATGCGACCTAGCACATTTATCTTACGTAGCTCTCTTGTCTACATGGTGTCCTTCACTTGGAATC ACG Found at i:48002155 original size:71 final size:71 Alignment explanation
Indices: 48002067--48002230 Score: 328 Period size: 71 Copynumber: 2.3 Consensus size: 71 48002057 CGATTTGTCT 48002067 CGTAGCTCTCTTGTCTACATGGTGTCCTTCACTTGGAATCACGCATGCGACCTAGCTACATTTAT 1 CGTAGCTCTCTTGTCTACATGGTGTCCTTCACTTGGAATCACGCATGCGACCTAGCTACATTTAT 48002132 CTTTCA 66 CTTTCA 48002138 CGTAGCTCTCTTGTCTACATGGTGTCCTTCACTTGGAATCACGCATGCGACCTAGCTACATTTAT 1 CGTAGCTCTCTTGTCTACATGGTGTCCTTCACTTGGAATCACGCATGCGACCTAGCTACATTTAT 48002203 CTTTCA 66 CTTTCA 48002209 CGTAGCTCTCTTGTCTACATGG 1 CGTAGCTCTCTTGTCTACATGG 48002231 GATACATCTC Statistics Matches: 93, Mismatches: 0, Indels: 0 1.00 0.00 0.00 Matches are distributed among these distances: 71 93 1.00 ACGTcount: A:0.19, C:0.28, G:0.18, T:0.35 Consensus pattern (71 bp): CGTAGCTCTCTTGTCTACATGGTGTCCTTCACTTGGAATCACGCATGCGACCTAGCTACATTTAT CTTTCA Found at i:48002268 original size:71 final size:70 Alignment explanation
Indices: 48002067--48002264 Score: 276 Period size: 71 Copynumber: 2.8 Consensus size: 70 48002057 CGATTTGTCT * * * 48002067 CGTAGCTCTCTTGTCTACATGGTGTCCTTCACTTGGAATCACGCATGCGACCTAGCTACATTTAT 1 CGTAGCTCTCTTGTCTACATGGTGTACAT-ACTTCGAATCACGCATGCGACCTAGCTACATTTAT 48002132 CTTTCA 65 CTTTCA * * * 48002138 CGTAGCTCTCTTGTCTACATGGTGTCCTTCACTTGGAATCACGCATGCGACCTAGCTACATTTAT 1 CGTAGCTCTCTTGTCTACATGGTGTACAT-ACTTCGAATCACGCATGCGACCTAGCTACATTTAT 48002203 CTTTCA 65 CTTTCA * * 48002209 CGTAGCTCTCTTGTCTACATGG-GATACAT-C-TCGTATCACGCATGTGACCTAGCTAC 1 CGTAGCTCTCTTGTCTACATGGTG-TACATACTTCGAATCACGCATGCGACCTAGCTAC 48002265 TACAGGGTGT Statistics Matches: 121, Mismatches: 5, Indels: 5 0.92 0.04 0.04 Matches are distributed among these distances: 68 23 0.19 69 1 0.01 70 1 0.01 71 96 0.79 ACGTcount: A:0.20, C:0.28, G:0.18, T:0.34 Consensus pattern (70 bp): CGTAGCTCTCTTGTCTACATGGTGTACATACTTCGAATCACGCATGCGACCTAGCTACATTTATC TTTCA Found at i:48012576 original size:40 final size:40 Alignment explanation
Indices: 48012521--48012722 Score: 289 Period size: 40 Copynumber: 5.0 Consensus size: 40 48012511 TTGGAAATAT 48012521 GGGCTAAGACCCGAAGGCATTCGTGCGAGTTGATATATCC 1 GGGCTAAGACCCGAAGGCATTCGTGCGAGTTGATATATCC 48012561 GGGCTAAGACCCGAAGGCATTCGTGCGAGTTGATATATCC 1 GGGCTAAGACCCGAAGGCATTCGTGCGAGTTGATATATCC 48012601 GGGCTAAGACCCGAAGGCATTCGTGCGAGTTGATATATCC 1 GGGCTAAGACCCGAAGGCATTCGTGCGAGTTGATATATCC * * * * * * 48012641 GGGCTAAGACCCGAAGGCCTTTGTGCAAG-TCACCAAATCC 1 GGGCTAAGACCCGAAGGCATTCGTGCGAGTTGA-TATATCC * * * * * 48012681 GGGTTATGACCCGAAGGCAATCGTGCGAGTCGCTATATCC 1 GGGCTAAGACCCGAAGGCATTCGTGCGAGTTGATATATCC 48012721 GG 1 GG 48012723 TTAAATCCCG Statistics Matches: 143, Mismatches: 17, Indels: 4 0.87 0.10 0.02 Matches are distributed among these distances: 39 2 0.01 40 141 0.99 ACGTcount: A:0.25, C:0.24, G:0.30, T:0.21 Consensus pattern (40 bp): GGGCTAAGACCCGAAGGCATTCGTGCGAGTTGATATATCC Found at i:48021372 original size:23 final size:22 Alignment explanation
Indices: 48021346--48021418 Score: 67 Period size: 23 Copynumber: 3.1 Consensus size: 22 48021336 CTATAAGCTC 48021346 CTCCTGAGCTGATGAACAGTAAG 1 CTCCTGAGCTGA-GAACAGTAAG * * 48021369 CTCCATTGAGCT-AAAATAGTAAG 1 CTCC--TGAGCTGAGAACAGTAAG * 48021392 CTCATACGAGCTGAGAACAGTAAG 1 CTCCT--GAGCTGAGAACAGTAAG 48021416 CTC 1 CTC 48021419 TTATGAGCTG Statistics Matches: 40, Mismatches: 5, Indels: 9 0.74 0.09 0.17 Matches are distributed among these distances: 21 1 0.03 23 20 0.50 24 13 0.32 25 6 0.15 ACGTcount: A:0.34, C:0.22, G:0.22, T:0.22 Consensus pattern (22 bp): CTCCTGAGCTGAGAACAGTAAG Found at i:48021417 original size:24 final size:24 Alignment explanation
Indices: 48021350--48021429 Score: 92 Period size: 24 Copynumber: 3.3 Consensus size: 24 48021340 AAGCTCCTCC 48021350 TGAGCTGATGAACAGTAAGCTCCAT- 1 TGAGCTGA-GAACAGTAAGCT-CATA * * 48021375 TGAGCT-AAAATAGTAAGCTCATA 1 TGAGCTGAGAACAGTAAGCTCATA * * 48021398 CGAGCTGAGAACAGTAAGCTCTTA 1 TGAGCTGAGAACAGTAAGCTCATA 48021422 TGAGCTGA 1 TGAGCTGA 48021430 TATATCGGTA Statistics Matches: 46, Mismatches: 7, Indels: 5 0.79 0.12 0.09 Matches are distributed among these distances: 22 3 0.07 23 15 0.33 24 22 0.48 25 6 0.13 ACGTcount: A:0.35, C:0.17, G:0.24, T:0.24 Consensus pattern (24 bp): TGAGCTGAGAACAGTAAGCTCATA Found at i:48024483 original size:40 final size:39 Alignment explanation
Indices: 48024400--48024584 Score: 167 Period size: 40 Copynumber: 4.6 Consensus size: 39 48024390 TTGAATGATG * * * * * 48024400 TCCGGGCTAAGTCCCGAAGGC-TTTGTGCTAAGTGACTATA 1 TCCGGGCTAAGT-CCGAAGGCATTCGTG-TGAGTTAATAAA * 48024440 TCCGGACTAAGATCCGAAGGCATTCGTGTGAGTTAATAAA 1 TCCGGGCTAAG-TCCGAAGGCATTCGTGTGAGTTAATAAA * * * 48024480 TCCGGGCTAAGCCCGAAGGCATTTGTGTGAGTTACTAAA 1 TCCGGGCTAAGTCCGAAGGCATTCGTGTGAGTTAATAAA * * * * 48024519 CCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTACTATAA 1 TCCGGGCTAAGT-CCGAAGGCATTCGTGTGAGTTAATA-AA ** 48024560 -CCGGGCTTTGTCCTGAAGGCATTCG 1 TCCGGGCTAAGTCC-GAAGGCATTCG 48024585 AGCGAGTCGT Statistics Matches: 122, Mismatches: 18, Indels: 10 0.81 0.12 0.07 Matches are distributed among these distances: 39 36 0.30 40 78 0.64 41 8 0.07 ACGTcount: A:0.24, C:0.22, G:0.28, T:0.26 Consensus pattern (39 bp): TCCGGGCTAAGTCCGAAGGCATTCGTGTGAGTTAATAAA Found at i:48024539 original size:79 final size:81 Alignment explanation
Indices: 48024400--48024566 Score: 209 Period size: 79 Copynumber: 2.1 Consensus size: 81 48024390 TTGAATGATG * * 48024400 TCCGGGCTAAGTCCCGAAGGCTTTGTGCTAAGTGACTATATCCGGACTAAGATCCGAAGGCATTC 1 TCCGGGCTAAGTCCCGAAGGCTTTGTGCTAAGTGACTAAACCCGGACTAAGATCCGAAGGCATTC * 48024465 GTGTGAGTTAATA-AA 66 GTGCGAGTTAATATAA * * ** 48024480 TCCGGGCTAAG-CCCGAAGGCATTTGTG-TGAGTTACTAAACCCGGGTTAAG-TCCCGAAGGCAT 1 TCCGGGCTAAGTCCCGAAGGC-TTTGTGCTAAGTGACTAAACCCGGACTAAGAT-CCGAAGGCAT * 48024542 TCGTGCGAGTTACTATAA 64 TCGTGCGAGTTAATATAA 48024560 -CCGGGCT 1 TCCGGGCT 48024567 TTGTCCTGAA Statistics Matches: 76, Mismatches: 8, Indels: 7 0.84 0.09 0.08 Matches are distributed among these distances: 78 1 0.01 79 56 0.74 80 19 0.25 ACGTcount: A:0.25, C:0.22, G:0.28, T:0.25 Consensus pattern (81 bp): TCCGGGCTAAGTCCCGAAGGCTTTGTGCTAAGTGACTAAACCCGGACTAAGATCCGAAGGCATTC GTGCGAGTTAATATAA Found at i:48027350 original size:42 final size:42 Alignment explanation
Indices: 48027290--48027536 Score: 243 Period size: 42 Copynumber: 5.8 Consensus size: 42 48027280 CTCAAATTGA * * 48027290 GATTTACATGTAATACCATCTCTGGGACATCGACATCGTATCT 1 GATTT-CATGTAAGACCATGTCTGGGACATCGACATCGTATCT * 48027333 GATTTCATGTAAGACCATGT-TAGGGACATCGGCATCGTATCT 1 GATTTCATGTAAGACCATGTCT-GGGACATCGACATCGTATCT * * 48027375 GATTTCGTGTAAGACCATGTCTGGGACATC-AGTATCGTATCT 1 GATTTCATGTAAGACCATGTCTGGGACATCGA-CATCGTATCT * * * * * * * 48027417 GATTTCGTGTAAGACCGTGTCTAGGACA-CAGGCCTC-AATTT 1 GATTTCATGTAAGACCATGTCTGGGACATC-GACATCGTATCT * * 48027458 GAGATTT-ATGTGTAAGACCTTGTCTGGGACATCGGCATCGTATCT 1 --GATTTCA--TGTAAGACCATGTCTGGGACATCGACATCGTATCT * * 48027503 GATTTCGTGTAAGACCATGTTTGGGACATCGACA 1 GATTTCATGTAAGACCATGTCTGGGACATCGACA 48027537 CGGTGTTGAA Statistics Matches: 169, Mismatches: 23, Indels: 25 0.78 0.11 0.12 Matches are distributed among these distances: 41 5 0.03 42 120 0.71 43 16 0.09 44 24 0.14 45 4 0.02 ACGTcount: A:0.25, C:0.20, G:0.23, T:0.32 Consensus pattern (42 bp): GATTTCATGTAAGACCATGTCTGGGACATCGACATCGTATCT Found at i:48028954 original size:42 final size:42 Alignment explanation
Indices: 48028902--48029377 Score: 464 Period size: 42 Copynumber: 11.5 Consensus size: 42 48028892 GAGATTTACA * 48028902 TGTAAGACCATGTCTGGGACATCAGCATCATATCTGATTTCG 1 TGTAAGACCATGTCTGGGACATCAGCATCGTATCTGATTTCG * ** * * 48028944 TGTAAAACCATGTCTGGGACATTGGCATCGTACCTGATTTTG 1 TGTAAGACCATGTCTGGGACATCAGCATCGTATCTGATTTCG * * * 48028986 TGTAAGACCATGTCTGGGACATCGGCATCGTATCTAATTTCA 1 TGTAAGACCATGTCTGGGACATCAGCATCGTATCTGATTTCG * * * 48029028 TGTAAGACCATGTTTGGGACATCGGCATCGTATCTAATTTCG 1 TGTAAGACCATGTCTGGGACATCAGCATCGTATCTGATTTCG * * * * 48029070 TGTACGACCATGTCTGGGACA-GAGGCATCG-ATACTGAATTACA 1 TGTAAGACCATGTCTGGGACATCA-GCATCGTAT-CTG-ATTTCG * * * 48029113 TGTAAGACCACGTCTGAGACATC-GACATTGTATCTGATTTCG 1 TGTAAGACCATGTCTGGGACATCAG-CATCGTATCTGATTTCG * * * * 48029155 TGTAAGACCGTGTCTGGGGCA-CATGCCTCG-ATTTGAGATTTACG 1 TGTAAGACCATGTCTGGGACATCA-GCATCGTATCT--GATTT-CG * * 48029199 TGTAAGACCATGTCTGGGACATCAACATCGTATCTGATTTCA 1 TGTAAGACCATGTCTGGGACATCAGCATCGTATCTGATTTCG * 48029241 TGTAAGACCATGTCTGGGACATC-GACATTGTATCTGATTTCG 1 TGTAAGACCATGTCTGGGACATCAG-CATCGTATCTGATTTCG 48029283 TGTAAGACCCA--TC---GACAT-----T-GTATCTGATTTCG 1 TGTAAGA-CCATGTCTGGGACATCAGCATCGTATCTGATTTCG * * * * 48029315 TGTAAGACTATGTCTGGGACATCGGCATCGTATTTGATTTTG 1 TGTAAGACCATGTCTGGGACATCAGCATCGTATCTGATTTCG * 48029357 TGTAAGACCCTGTCTGGGACA 1 TGTAAGACCATGTCTGGGACA 48029378 GAGGTGTCGA Statistics Matches: 359, Mismatches: 49, Indels: 52 0.78 0.11 0.11 Matches are distributed among these distances: 31 2 0.01 32 20 0.06 33 3 0.01 36 5 0.01 38 5 0.01 41 9 0.03 42 240 0.67 43 43 0.12 44 27 0.08 45 5 0.01 ACGTcount: A:0.25, C:0.20, G:0.24, T:0.31 Consensus pattern (42 bp): TGTAAGACCATGTCTGGGACATCAGCATCGTATCTGATTTCG Found at i:48029262 original size:213 final size:211 Alignment explanation
Indices: 48028897--48029291 Score: 546 Period size: 213 Copynumber: 1.9 Consensus size: 211 48028887 GATTTGAGAT * * 48028897 TTACATGTAAGACCATGTCTGGGACATCAGCATCATATCTGATTTCGTGTAAAACCATGTCTGGG 1 TTACATGTAAGACCACGTCTGAGACATCAGCATCATATCTGATTTCGTGTAAAACCATGTCTGGG * ** 48028962 ACATTGGCATCGTACCTGATTTTGTGTAAGACCATGTCTGGGACATCGGCATCGTATCTAATTTC 66 ACATTGGCATCGTACCTGATTTCGTGTAAGACCATGTCTGGGACATCAACATCGTATCTAATTTC * * * 48029027 ATGTAAGACCATGTTTGGGACATCGGCATCGTATCTAATTTCGTGTACGACCATGTCTGGGACAG 131 ATGTAAGACCATGTCTGGGACATCGACATCGTATCTAATTTCGTGTAAGACCATGTCTGGGACAG 48029092 AGGCATCGATACTGAA 196 AGGCATCGATACTGAA ** * * 48029108 TTACATGTAAGACCACGTCTGAGACATC-GACATTGTATCTGATTTCGTGTAAGACCGTGTCTGG 1 TTACATGTAAGACCACGTCTGAGACATCAG-CATCATATCTGATTTCGTGTAAAACCATGTCT-G * ** 48029172 GGCACA-T-GCCTCG-ATTTGAGATTTACGTGTAAGACCATGTCTGGGACATCAACATCGTATCT 64 GG-ACATTGGCATCGTACCT--GATTT-CGTGTAAGACCATGTCTGGGACATCAACATCGTATCT * * * 48029234 GATTTCATGTAAGACCATGTCTGGGACATCGACATTGTATCTGATTTCGTGTAAGACC 125 AATTTCATGTAAGACCATGTCTGGGACATCGACATCGTATCTAATTTCGTGTAAGACC 48029292 CATCGACATT Statistics Matches: 160, Mismatches: 18, Indels: 10 0.85 0.10 0.05 Matches are distributed among these distances: 210 3 0.02 211 59 0.37 212 9 0.06 213 89 0.56 ACGTcount: A:0.26, C:0.21, G:0.23, T:0.31 Consensus pattern (211 bp): TTACATGTAAGACCACGTCTGAGACATCAGCATCATATCTGATTTCGTGTAAAACCATGTCTGGG ACATTGGCATCGTACCTGATTTCGTGTAAGACCATGTCTGGGACATCAACATCGTATCTAATTTC ATGTAAGACCATGTCTGGGACATCGACATCGTATCTAATTTCGTGTAAGACCATGTCTGGGACAG AGGCATCGATACTGAA Found at i:48029297 original size:32 final size:32 Alignment explanation
Indices: 48029260--48029322 Score: 126 Period size: 32 Copynumber: 2.0 Consensus size: 32 48029250 ATGTCTGGGA 48029260 CATCGACATTGTATCTGATTTCGTGTAAGACC 1 CATCGACATTGTATCTGATTTCGTGTAAGACC 48029292 CATCGACATTGTATCTGATTTCGTGTAAGAC 1 CATCGACATTGTATCTGATTTCGTGTAAGAC 48029323 TATGTCTGGG Statistics Matches: 31, Mismatches: 0, Indels: 0 1.00 0.00 0.00 Matches are distributed among these distances: 32 31 1.00 ACGTcount: A:0.25, C:0.21, G:0.19, T:0.35 Consensus pattern (32 bp): CATCGACATTGTATCTGATTTCGTGTAAGACC Found at i:48029353 original size:74 final size:74 Alignment explanation
Indices: 48029218--48029366 Score: 226 Period size: 74 Copynumber: 2.0 Consensus size: 74 48029208 ATGTCTGGGA * 48029218 CATCAACATCGTATCTGATTTCATGTAAGACCATGTCTGGGACATCGACATTGTATCTGATTTCG 1 CATCAACATCGTATCTGATTTCATGTAAGACCATGTCTGGGACATCGACATCGTATCTGATTTCG 48029283 TGTAAGACC 66 TGTAAGACC * * * * * * * 48029292 CATCGACATTGTATCTGATTTCGTGTAAGACTATGTCTGGGACATCGGCATCGTATTTGATTTTG 1 CATCAACATCGTATCTGATTTCATGTAAGACCATGTCTGGGACATCGACATCGTATCTGATTTCG 48029357 TGTAAGACC 66 TGTAAGACC 48029366 C 1 C 48029367 TGTCTGGGAC Statistics Matches: 67, Mismatches: 8, Indels: 0 0.89 0.11 0.00 Matches are distributed among these distances: 74 67 1.00 ACGTcount: A:0.25, C:0.20, G:0.21, T:0.34 Consensus pattern (74 bp): CATCAACATCGTATCTGATTTCATGTAAGACCATGTCTGGGACATCGACATCGTATCTGATTTCG TGTAAGACC Found at i:48032042 original size:14 final size:14 Alignment explanation
Indices: 48032023--48032054 Score: 64 Period size: 14 Copynumber: 2.3 Consensus size: 14 48032013 GATCTCAAGT 48032023 CATGTAATGTAAGC 1 CATGTAATGTAAGC 48032037 CATGTAATGTAAGC 1 CATGTAATGTAAGC 48032051 CATG 1 CATG 48032055 GTTTATCCAT Statistics Matches: 18, Mismatches: 0, Indels: 0 1.00 0.00 0.00 Matches are distributed among these distances: 14 18 1.00 ACGTcount: A:0.34, C:0.16, G:0.22, T:0.28 Consensus pattern (14 bp): CATGTAATGTAAGC Found at i:48033843 original size:18 final size:19 Alignment explanation
Indices: 48033808--48033845 Score: 51 Period size: 18 Copynumber: 2.1 Consensus size: 19 48033798 TTTTCATCAT * 48033808 AGTAAAATAAAATAATAAA 1 AGTAAAATAAAACAATAAA * 48033827 AGTAAAA-AAAACCATAAA 1 AGTAAAATAAAACAATAAA 48033845 A 1 A 48033846 ATAATTAAAA Statistics Matches: 17, Mismatches: 2, Indels: 1 0.85 0.10 0.05 Matches are distributed among these distances: 18 10 0.59 19 7 0.41 ACGTcount: A:0.74, C:0.05, G:0.05, T:0.16 Consensus pattern (19 bp): AGTAAAATAAAACAATAAA Found at i:48034355 original size:28 final size:27 Alignment explanation
Indices: 48034307--48034397 Score: 128 Period size: 28 Copynumber: 3.2 Consensus size: 27 48034297 GTGATAGAGT * 48034307 CACCAGATACAGATATTTTGTGGCACTGC 1 CACCAGA-ACAGATAATTTGTGGCA-TGC * 48034336 CACCAGAACAGATAATTTGTGGCAGGGC 1 CACCAGAACAGATAATTTGTGGCA-TGC 48034364 CACCAGAACAGATAATTTGTGGCATAGC 1 CACCAGAACAGATAATTTGTGGCAT-GC 48034392 CACCAG 1 CACCAG 48034398 GACGCTTCCT Statistics Matches: 57, Mismatches: 4, Indels: 3 0.89 0.06 0.05 Matches are distributed among these distances: 28 50 0.88 29 7 0.12 ACGTcount: A:0.32, C:0.24, G:0.23, T:0.21 Consensus pattern (27 bp): CACCAGAACAGATAATTTGTGGCATGC Found at i:48034550 original size:28 final size:28 Alignment explanation
Indices: 48034503--48034570 Score: 118 Period size: 28 Copynumber: 2.4 Consensus size: 28 48034493 AAATTAACCC * * 48034503 TAGGGGTATAAAGGTCATTTTGCATACA 1 TAGGGGTATAATGGTAATTTTGCATACA 48034531 TAGGGGTATAATGGTAATTTTGCATACA 1 TAGGGGTATAATGGTAATTTTGCATACA 48034559 TAGGGGTATAAT 1 TAGGGGTATAAT 48034571 AGCACATCTA Statistics Matches: 38, Mismatches: 2, Indels: 0 0.95 0.05 0.00 Matches are distributed among these distances: 28 38 1.00 ACGTcount: A:0.32, C:0.07, G:0.26, T:0.34 Consensus pattern (28 bp): TAGGGGTATAATGGTAATTTTGCATACA Found at i:48036679 original size:40 final size:40 Alignment explanation
Indices: 48036634--48036800 Score: 185 Period size: 40 Copynumber: 4.2 Consensus size: 40 48036624 CGGAATATAA 48036634 CCGGATATAATCACGT-GCACAAATGCCTTCGGGTCTTAGC 1 CCGGATATAATCAC-TAGCACAAATGCCTTCGGGTCTTAGC * * * * 48036674 CCGGATAGAATAACTCGCACGAATGCCTTCGGGTCTTAGC 1 CCGGATATAATCACTAGCACAAATGCCTTCGGGTCTTAGC ** * * 48036714 CCGGATATAGCCACTAGCACAATTGCCTTCGGGTCTTAAC 1 CCGGATATAATCACTAGCACAAATGCCTTCGGGTCTTAGC ** * * * * 48036754 CCGGATATAATTTCCAGCATAATTGTCTTCGGG-CTTAGC 1 CCGGATATAATCACTAGCACAAATGCCTTCGGGTCTTAGC 48036793 CCGGATAT 1 CCGGATAT 48036801 CATTCAATTT Statistics Matches: 107, Mismatches: 19, Indels: 3 0.83 0.15 0.02 Matches are distributed among these distances: 39 14 0.13 40 93 0.87 ACGTcount: A:0.25, C:0.27, G:0.22, T:0.26 Consensus pattern (40 bp): CCGGATATAATCACTAGCACAAATGCCTTCGGGTCTTAGC Found at i:48044677 original size:40 final size:40 Alignment explanation
Indices: 48044632--48044798 Score: 185 Period size: 40 Copynumber: 4.2 Consensus size: 40 48044622 CGGAATATAA 48044632 CCGGATATAATCACGT-GCACAAATGCCTTCGGGTCTTAGC 1 CCGGATATAATCAC-TAGCACAAATGCCTTCGGGTCTTAGC * * * * 48044672 CCGGATAGAATAACTCGCACGAATGCCTTCGGGTCTTAGC 1 CCGGATATAATCACTAGCACAAATGCCTTCGGGTCTTAGC ** * * 48044712 CCGGATATAGCCACTAGCACAATTGCCTTCGGGTCTTAAC 1 CCGGATATAATCACTAGCACAAATGCCTTCGGGTCTTAGC ** * * * * 48044752 CCGGATATAATTTCCAGCATAATTGTCTTCGGG-CTTAGC 1 CCGGATATAATCACTAGCACAAATGCCTTCGGGTCTTAGC 48044791 CCGGATAT 1 CCGGATAT 48044799 CATTCAATTT Statistics Matches: 107, Mismatches: 19, Indels: 3 0.83 0.15 0.02 Matches are distributed among these distances: 39 14 0.13 40 93 0.87 ACGTcount: A:0.25, C:0.27, G:0.22, T:0.26 Consensus pattern (40 bp): CCGGATATAATCACTAGCACAAATGCCTTCGGGTCTTAGC Found at i:48050309 original size:42 final size:46 Alignment explanation
Indices: 48050249--48050456 Score: 209 Period size: 42 Copynumber: 4.6 Consensus size: 46 48050239 CGTTTTCTCA ** * 48050249 ATGCCATAGTTCAACTATGGTCTTACA-AAT-C-T-TCACATAAT-G 1 ATGCCATAGCCCAGCTATGGTCTTACATAATACATATCACAT-ATCG * 48050291 ATGCCATAGCCCAGCTATGGTCTTACA-CAT--AT-TCACATATCG 1 ATGCCATAGCCCAGCTATGGTCTTACATAATACATATCACATATCG * * * * 48050333 ATGTCATAGCCCAGTTATCGTCATACATGTAATCACATATCACATATCG 1 ATGCCATAGCCCAGCTATGGTCTTACA--TAAT-ACATATCACATATCG * 48050382 ATGCCATAGCCCAGCTATGGTCTTACATGAATCACATATCACATATTG 1 ATGCCATAGCCCAGCTATGGTCTTACAT-AAT-ACATATCACATATCG * 48050430 ATGCCATAGGCCAGCTATGGTCTTACA 1 ATGCCATAGCCCAGCTATGGTCTTACA 48050457 CGAATCACAT Statistics Matches: 141, Mismatches: 15, Indels: 14 0.83 0.09 0.08 Matches are distributed among these distances: 41 2 0.01 42 57 0.40 45 2 0.01 47 1 0.01 48 46 0.33 49 33 0.23 ACGTcount: A:0.31, C:0.25, G:0.14, T:0.30 Consensus pattern (46 bp): ATGCCATAGCCCAGCTATGGTCTTACATAATACATATCACATATCG Found at i:48050433 original size:48 final size:48 Alignment explanation
Indices: 48050316--48050466 Score: 221 Period size: 48 Copynumber: 3.1 Consensus size: 48 48050306 TATGGTCTTA * * * * 48050316 CACATATTCACATATCGATGTCATAGCCCAGTTATCGTCATACATGTAAT 1 CACATA-TCACATATCGATGCCATAGCCCAGCTATGGTCTTACATG-AAT 48050366 CACATATCACATATCGATGCCATAGCCCAGCTATGGTCTTACATGAAT 1 CACATATCACATATCGATGCCATAGCCCAGCTATGGTCTTACATGAAT * * * 48050414 CACATATCACATATTGATGCCATAGGCCAGCTATGGTCTTACACGAAT 1 CACATATCACATATCGATGCCATAGCCCAGCTATGGTCTTACATGAAT 48050462 CACAT 1 CACAT 48050467 TTCTCACTGA Statistics Matches: 94, Mismatches: 7, Indels: 2 0.91 0.07 0.02 Matches are distributed among these distances: 48 53 0.56 49 35 0.37 50 6 0.06 ACGTcount: A:0.32, C:0.26, G:0.14, T:0.28 Consensus pattern (48 bp): CACATATCACATATCGATGCCATAGCCCAGCTATGGTCTTACATGAAT Found at i:48050613 original size:31 final size:31 Alignment explanation
Indices: 48050569--48050686 Score: 182 Period size: 31 Copynumber: 3.8 Consensus size: 31 48050559 CCTGTCACTT * 48050569 GTAGCCGAAGCTACCACTATTCACTGATCAG 1 GTAGCCGAAGCTACCACTTTTCACTGATCAG ** * 48050600 GTAGCCGGTGCTACCATTTTTCACTGATCAG 1 GTAGCCGAAGCTACCACTTTTCACTGATCAG * 48050631 GTAGCCGAAGCTACCACTTTTCACTGATCAA 1 GTAGCCGAAGCTACCACTTTTCACTGATCAG * 48050662 GTAGCTGAAGCTACCACTTTTCACT 1 GTAGCCGAAGCTACCACTTTTCACT 48050687 TGTCATTTGT Statistics Matches: 78, Mismatches: 9, Indels: 0 0.90 0.10 0.00 Matches are distributed among these distances: 31 78 1.00 ACGTcount: A:0.25, C:0.28, G:0.19, T:0.28 Consensus pattern (31 bp): GTAGCCGAAGCTACCACTTTTCACTGATCAG Found at i:48050767 original size:50 final size:50 Alignment explanation
Indices: 48050662--48050837 Score: 271 Period size: 50 Copynumber: 3.5 Consensus size: 50 48050652 CACTGATCAA * * * * * * 48050662 GTAGCTGAAGCTACCACTTTTCACTTGTCATTTGTCCTTGATAAGATAAGT 1 GTAGCCGAAGCTATCACTTATCACTT-TCACTTGTCCTTGATCAGATAACT 48050713 GTAGCCGAAGCTATCACTTATCACTTTCACTTGTCCTTGATCAGATAACT 1 GTAGCCGAAGCTATCACTTATCACTTTCACTTGTCCTTGATCAGATAACT * 48050763 GTAGCCGAAGCTATCACTTATCACTTTCACTTATCCTTGATCAGATAACT 1 GTAGCCGAAGCTATCACTTATCACTTTCACTTGTCCTTGATCAGATAACT * 48050813 GTAGCTGAAGCTATCACTTATCACT 1 GTAGCCGAAGCTATCACTTATCACT 48050838 GGTTGCCATA Statistics Matches: 117, Mismatches: 8, Indels: 1 0.93 0.06 0.01 Matches are distributed among these distances: 50 94 0.80 51 23 0.20 ACGTcount: A:0.27, C:0.24, G:0.15, T:0.35 Consensus pattern (50 bp): GTAGCCGAAGCTATCACTTATCACTTTCACTTGTCCTTGATCAGATAACT Found at i:48061759 original size:31 final size:31 Alignment explanation
Indices: 48061721--48061784 Score: 119 Period size: 31 Copynumber: 2.1 Consensus size: 31 48061711 CCTTTTCATA 48061721 TTTCATATTTCATAATACTGGGCCGAAGCCT 1 TTTCATATTTCATAATACTGGGCCGAAGCCT * 48061752 TTTCATATTTCATATTACTGGGCCGAAGCCT 1 TTTCATATTTCATAATACTGGGCCGAAGCCT 48061783 TT 1 TT 48061785 ACTGTAAACG Statistics Matches: 32, Mismatches: 1, Indels: 0 0.97 0.03 0.00 Matches are distributed among these distances: 31 32 1.00 ACGTcount: A:0.23, C:0.22, G:0.16, T:0.39 Consensus pattern (31 bp): TTTCATATTTCATAATACTGGGCCGAAGCCT Found at i:48062027 original size:24 final size:24 Alignment explanation
Indices: 48061976--48062118 Score: 209 Period size: 24 Copynumber: 6.0 Consensus size: 24 48061966 GCTTTATCAT * 48061976 ATAACTGGAGGCCT-AGCCTCTTTTA 1 ATAACTGG-GGCATAAGCC-CTTTTA * * 48062001 ATAACTGGGGCAAAAGCCCTTTCA 1 ATAACTGGGGCATAAGCCCTTTTA 48062025 ATAACTGGGGCATAAGCCCTTTT- 1 ATAACTGGGGCATAAGCCCTTTTA * 48062048 ATAACTGGGGCATAAGCCCTTTTG 1 ATAACTGGGGCATAAGCCCTTTTA * 48062072 ATAACTGGGGCATAAGCCCTTTTG 1 ATAACTGGGGCATAAGCCCTTTTA 48062096 ATAACTGGGGCATAAGCCCTTTT 1 ATAACTGGGGCATAAGCCCTTTT 48062119 TCACTTCCTC Statistics Matches: 111, Mismatches: 5, Indels: 5 0.92 0.04 0.04 Matches are distributed among these distances: 23 23 0.21 24 76 0.68 25 12 0.11 ACGTcount: A:0.27, C:0.22, G:0.22, T:0.29 Consensus pattern (24 bp): ATAACTGGGGCATAAGCCCTTTTA Found at i:48062055 original size:47 final size:48 Alignment explanation
Indices: 48061976--48062117 Score: 207 Period size: 47 Copynumber: 3.0 Consensus size: 48 48061966 GCTTTATCAT * * 48061976 ATAACTGGAGGCCT-AGCCTCTTTTAATAACTGGGGCAAAAGCCCTTTCA 1 ATAACTGG-GGCATAAGCC-CTTTTAATAACTGGGGCATAAGCCCTTTCA ** 48062025 ATAACTGGGGCATAAGCCCTTTT-ATAACTGGGGCATAAGCCCTTTTG 1 ATAACTGGGGCATAAGCCCTTTTAATAACTGGGGCATAAGCCCTTTCA * 48062072 ATAACTGGGGCATAAGCCCTTTTGATAACTGGGGCATAAGCCCTTT 1 ATAACTGGGGCATAAGCCCTTTTAATAACTGGGGCATAAGCCCTTT 48062118 TTCACTTCCT Statistics Matches: 87, Mismatches: 4, Indels: 5 0.91 0.04 0.05 Matches are distributed among these distances: 47 44 0.51 48 31 0.36 49 12 0.14 ACGTcount: A:0.27, C:0.23, G:0.23, T:0.28 Consensus pattern (48 bp): ATAACTGGGGCATAAGCCCTTTTAATAACTGGGGCATAAGCCCTTTCA Found at i:48062076 original size:71 final size:72 Alignment explanation
Indices: 48061975--48062118 Score: 220 Period size: 71 Copynumber: 2.0 Consensus size: 72 48061965 TGCTTTATCA * 48061975 TATAACTGGAGGCCTAGCCTCTTTTAATAACTGGGGCAAAAGCCCTTTCAATAACTGGGGCATAA 1 TATAACTGGAGGCATAGCCTCTTTTAATAACTGGGGCAAAAGCCCTTTCAATAACTGGGGCATAA 48062040 GCCCTTT 66 GCCCTTT * * ** 48062047 TATAACTGG-GGCATAAGCC-CTTTTGATAACTGGGGCATAAGCCCTTTTGATAACTGGGGCATA 1 TATAACTGGAGGCAT-AGCCTCTTTTAATAACTGGGGCAAAAGCCCTTTCAATAACTGGGGCATA 48062110 AGCCCTTT 65 AGCCCTTT 48062118 T 1 T 48062119 TCACTTCCTC Statistics Matches: 66, Mismatches: 5, Indels: 3 0.89 0.07 0.04 Matches are distributed among these distances: 71 53 0.80 72 13 0.20 ACGTcount: A:0.26, C:0.22, G:0.22, T:0.29 Consensus pattern (72 bp): TATAACTGGAGGCATAGCCTCTTTTAATAACTGGGGCAAAAGCCCTTTCAATAACTGGGGCATAA GCCCTTT Found at i:48062194 original size:20 final size:20 Alignment explanation
Indices: 48062169--48062228 Score: 111 Period size: 20 Copynumber: 3.0 Consensus size: 20 48062159 TATGATTACC 48062169 TCATGTGCATATCATACATA 1 TCATGTGCATATCATACATA * 48062189 TCATGTGCATATCATACATT 1 TCATGTGCATATCATACATA 48062209 TCATGTGCATATCATACATA 1 TCATGTGCATATCATACATA 48062229 CCATATTTAT Statistics Matches: 38, Mismatches: 2, Indels: 0 0.95 0.05 0.00 Matches are distributed among these distances: 20 38 1.00 ACGTcount: A:0.33, C:0.20, G:0.10, T:0.37 Consensus pattern (20 bp): TCATGTGCATATCATACATA Found at i:48062199 original size:11 final size:11 Alignment explanation
Indices: 48062169--48062223 Score: 55 Period size: 11 Copynumber: 5.4 Consensus size: 11 48062159 TATGATTACC 48062169 TCATGTGCATA 1 TCATGTGCATA * 48062180 TCA--TACATA 1 TCATGTGCATA 48062189 TCATGTGCATA 1 TCATGTGCATA * * 48062200 TCA--TACATT 1 TCATGTGCATA 48062209 TCATGTGCATA 1 TCATGTGCATA 48062220 TCAT 1 TCAT 48062224 ACATACCATA Statistics Matches: 34, Mismatches: 6, Indels: 8 0.71 0.12 0.17 Matches are distributed among these distances: 9 15 0.44 11 19 0.56 ACGTcount: A:0.31, C:0.20, G:0.11, T:0.38 Consensus pattern (11 bp): TCATGTGCATA Found at i:48062811 original size:58 final size:56 Alignment explanation
Indices: 48062712--48062831 Score: 154 Period size: 58 Copynumber: 2.1 Consensus size: 56 48062702 ATATGAAAAA 48062712 GAAAAAAAGAAAAAAAATGTTCATCCTTCTCCATAGGCTTGGCCG-AATGTACTAAG 1 GAAAAAAAGAAAAAAAATGTTCATCCTTCTCCATAGGCTTGGCCGAAAT-TACTAAG * *** 48062768 GAAAGAAAAGAAAAAAATTTGTTCATCCTT-TCTCATCTTCTTGGCCGAAATTACTAAG 1 GAAA-AAAAGAAAAAAA-ATGTTCATCCTTCTC-CATAGGCTTGGCCGAAATTACTAAG 48062826 GAAAAA 1 GAAAAA 48062832 GGGGGAGGAT Statistics Matches: 56, Mismatches: 4, Indels: 7 0.84 0.06 0.10 Matches are distributed among these distances: 56 4 0.07 57 16 0.29 58 33 0.59 59 3 0.05 ACGTcount: A:0.42, C:0.17, G:0.16, T:0.26 Consensus pattern (56 bp): GAAAAAAAGAAAAAAAATGTTCATCCTTCTCCATAGGCTTGGCCGAAATTACTAAG Found at i:48064108 original size:40 final size:40 Alignment explanation
Indices: 48064022--48064188 Score: 144 Period size: 40 Copynumber: 4.2 Consensus size: 40 48064012 AAATTGAATG * * ** * 48064022 ATATCCGGGCTAAG-CCCGAAGACAATTATGCTG-GAAATT 1 ATATCCGGGCTAAGACCCGAAGGCAATTGTGC-GAGTGACT * * * 48064061 ATATCCGGGTTAAGACCCGAAGGCAATTGTGCTAGTGGCT 1 ATATCCGGGCTAAGACCCGAAGGCAATTGTGCGAGTGACT * * * * 48064101 ATGTCCGGGCTAAGGCCCGAAGGC-ATTCGTGCGAGTTATT 1 ATATCCGGGCTAAGACCCGAAGGCAATT-GTGCGAGTGACT * * * 48064141 CTATCCGGGCTAAGACCCGAAGGCATTTGTGC-ACGTGATT 1 ATATCCGGGCTAAGACCCGAAGGCAATTGTGCGA-GTGACT 48064181 ATATCCGG 1 ATATCCGG 48064189 TTATATTCCG Statistics Matches: 102, Mismatches: 21, Indels: 9 0.77 0.16 0.07 Matches are distributed among these distances: 39 17 0.17 40 83 0.81 41 2 0.02 ACGTcount: A:0.25, C:0.22, G:0.28, T:0.25 Consensus pattern (40 bp): ATATCCGGGCTAAGACCCGAAGGCAATTGTGCGAGTGACT Found at i:48066760 original size:27 final size:27 Alignment explanation
Indices: 48066698--48066762 Score: 87 Period size: 27 Copynumber: 2.4 Consensus size: 27 48066688 GGGCATATTC 48066698 GTCATTTTACCATACAGGGGTATTACG 1 GTCATTTTACCATACAGGGGTATTACG * * 48066725 GTCACTTTACCCTACAGGGGCT-TTACG 1 GTCATTTTACCATACAGGGG-TATTACG * 48066752 GTCTTTTTACC 1 GTCATTTTACC 48066763 TAATAGGGAT Statistics Matches: 33, Mismatches: 4, Indels: 2 0.85 0.10 0.05 Matches are distributed among these distances: 27 32 0.97 28 1 0.03 ACGTcount: A:0.20, C:0.25, G:0.20, T:0.35 Consensus pattern (27 bp): GTCATTTTACCATACAGGGGTATTACG Found at i:48066989 original size:27 final size:27 Alignment explanation
Indices: 48066821--48067099 Score: 134 Period size: 27 Copynumber: 10.3 Consensus size: 27 48066811 TCTACAAACT * * 48066821 AAGGGTATTTCAGTAATTTTGTAAACC 1 AAGGGTATTTTAGTAATTTTGTAAATC * 48066848 AATGGTATTTCTA-TAATTTT-TAGAAAGTC 1 AAGGGTATTT-TAGTAATTTTGT--AAA-TC * * 48066877 AAGGGTATTTCT-GTAACTTTGTAAATT 1 AAGGGTATTT-TAGTAATTTTGTAAATC * * ** * 48066904 AGGGGTATTTTGGTAATTTTACAAATT 1 AAGGGTATTTTAGTAATTTTGTAAATC * * *** * 48066931 GAGGGT-TTTTCGGTAATTTCACAAACC 1 AAGGGTATTTT-AGTAATTTTGTAAATC 48066958 AAGGGTATTTTAGTAATTTTGTAAATC 1 AAGGGTATTTTAGTAATTTTGTAAATC * *** * 48066985 GAGGGTAAAATAGTAATTCTGTAAATC 1 AAGGGTATTTTAGTAATTTTGTAAATC **** * * 48067012 AAGGGTAAAACAGTAATTCTATAAATC 1 AAGGGTATTTTAGTAATTTTGTAAATC *** * * 48067039 AAGGGTAAAATAGTAATTCTATAAATC 1 AAGGGTATTTTAGTAATTTTGTAAATC *** ** 48067066 AAGGGTAAAATAGTAATTAAGTAAATC 1 AAGGGTATTTTAGTAATTTTGTAAATC * 48067093 GAGGGTA 1 AAGGGTA 48067100 AAACGGTAAT Statistics Matches: 209, Mismatches: 34, Indels: 18 0.80 0.13 0.07 Matches are distributed among these distances: 26 6 0.03 27 173 0.83 28 11 0.05 29 18 0.09 30 1 0.00 ACGTcount: A:0.37, C:0.08, G:0.19, T:0.35 Consensus pattern (27 bp): AAGGGTATTTTAGTAATTTTGTAAATC Found at i:48067100 original size:27 final size:26 Alignment explanation
Indices: 48066969--48067228 Score: 270 Period size: 27 Copynumber: 9.6 Consensus size: 26 48066959 AGGGTATTTT * * 48066969 AGTAATTTTGTAAATCGAGGGTAAAAT 1 AGTAA-TTTATAAATCGAGGGTAAAAC * * 48066996 AGTAATTCTGTAAATCAAGGGTAAAAC 1 AGTAATT-TATAAATCGAGGGTAAAAC * * 48067023 AGTAATTCTATAAATCAAGGGTAAAAT 1 AGTAATT-TATAAATCGAGGGTAAAAC * * 48067050 AGTAATTCTATAAATCAAGGGTAAAAT 1 AGTAATT-TATAAATCGAGGGTAAAAC * 48067077 AGTAATTAAGTAAATCGAGGGTAAAAC 1 AGTAATTTA-TAAATCGAGGGTAAAAC * * 48067104 GGTAATTTTACAAATCGAGGGTAAAAC 1 AGTAA-TTTATAAATCGAGGGTAAAAC * 48067131 AATAATTCTATAAATCGAGGGTAAAAC 1 AGTAATT-TATAAATCGAGGGTAAAAC * * 48067158 GGTAATTTTACAAATCGAGGGTAAAAC 1 AGTAA-TTTATAAATCGAGGGTAAAAC 48067185 AGTAATTCTATAAA-CTGAGGGTAAAAC 1 AGTAATT-TATAAATC-GAGGGTAAAAC * * 48067212 GGTAATTCTGTAAATCG 1 AGTAATT-TATAAATCG 48067229 GGAGTACTTT Statistics Matches: 205, Mismatches: 20, Indels: 16 0.85 0.08 0.07 Matches are distributed among these distances: 26 8 0.04 27 191 0.93 28 6 0.03 ACGTcount: A:0.44, C:0.09, G:0.19, T:0.28 Consensus pattern (26 bp): AGTAATTTATAAATCGAGGGTAAAAC Found at i:48067227 original size:54 final size:54 Alignment explanation
Indices: 48066969--48067228 Score: 326 Period size: 54 Copynumber: 4.8 Consensus size: 54 48066959 AGGGTATTTT * * ** * * 48066969 AGTAATTTTGTAAATCGAGGGTAAAATAGTAATTCTGTAAATCAAGGGTAAAAC 1 AGTAATTCTATAAATCGAGGGTAAAACGGTAATTCTATAAATCGAGGGTAAAAC * ** * * 48067023 AGTAATTCTATAAATCAAGGGTAAAATAGTAATTCTATAAATCAAGGGTAAAAT 1 AGTAATTCTATAAATCGAGGGTAAAACGGTAATTCTATAAATCGAGGGTAAAAC * * * 48067077 AGTAATT-AAGTAAATCGAGGGTAAAACGGTAATTTTACAAATCGAGGGTAAAAC 1 AGTAATTCTA-TAAATCGAGGGTAAAACGGTAATTCTATAAATCGAGGGTAAAAC * * * 48067131 AATAATTCTATAAATCGAGGGTAAAACGGTAATTTTACAAATCGAGGGTAAAAC 1 AGTAATTCTATAAATCGAGGGTAAAACGGTAATTCTATAAATCGAGGGTAAAAC * 48067185 AGTAATTCTATAAA-CTGAGGGTAAAACGGTAATTCTGTAAATCG 1 AGTAATTCTATAAATC-GAGGGTAAAACGGTAATTCTATAAATCG 48067229 GGAGTACTTT Statistics Matches: 184, Mismatches: 19, Indels: 6 0.88 0.09 0.03 Matches are distributed among these distances: 53 2 0.01 54 181 0.98 55 1 0.01 ACGTcount: A:0.44, C:0.09, G:0.19, T:0.28 Consensus pattern (54 bp): AGTAATTCTATAAATCGAGGGTAAAACGGTAATTCTATAAATCGAGGGTAAAAC Found at i:48067228 original size:81 final size:81 Alignment explanation
Indices: 48066969--48067259 Score: 318 Period size: 81 Copynumber: 3.6 Consensus size: 81 48066959 AGGGTATTTT * * * ** * 48066969 AGTAATTTTGTAAATCGAGGGTAAAATAGTAATTCTGTAAATCAAGGGTAAAACAGTAATTCTAT 1 AGTAATTCTATAAATCGAGGGTAAAATAGTAATTTTACAAATCGAGGGTAAAACAGTAATTCTAT * * 48067034 AAATCAAGGGTAAAAT 66 AAATCGAGGGTAAAAC * * * * * 48067050 AGTAATTCTATAAATCAAGGGTAAAATAGTAA-TTAAGTAAATCGAGGGTAAAACGGTAATTTTA 1 AGTAATTCTATAAATCGAGGGTAAAATAGTAATTTTA-CAAATCGAGGGTAAAACAGTAATTCTA * 48067114 CAAATCGAGGGTAAAAC 65 TAAATCGAGGGTAAAAC * ** 48067131 AATAATTCTATAAATCGAGGGTAAAACGGTAATTTTACAAATCGAGGGTAAAACAGTAATTCTAT 1 AGTAATTCTATAAATCGAGGGTAAAATAGTAATTTTACAAATCGAGGGTAAAACAGTAATTCTAT 48067196 AAA-CTGAGGGTAAAAC 66 AAATC-GAGGGTAAAAC * * *** * * 48067212 GGTAATTCTGTAAATCG-GGAGTACTTTGGTAATTTTACAAGTCGAGGG 1 AGTAATTCTATAAATCGAGG-GTAAAATAGTAATTTTACAAATCGAGGG 48067260 CATTTCAGTA Statistics Matches: 177, Mismatches: 29, Indels: 8 0.83 0.14 0.04 Matches are distributed among these distances: 80 4 0.02 81 170 0.96 82 3 0.02 ACGTcount: A:0.42, C:0.09, G:0.21, T:0.28 Consensus pattern (81 bp): AGTAATTCTATAAATCGAGGGTAAAATAGTAATTTTACAAATCGAGGGTAAAACAGTAATTCTAT AAATCGAGGGTAAAAC Found at i:48079042 original size:30 final size:28 Alignment explanation
Indices: 48079006--48079062 Score: 87 Period size: 30 Copynumber: 2.0 Consensus size: 28 48078996 AATCGGAAGC * 48079006 TTTGGCACTAAGTGTGCGATTTAAACTAGT 1 TTTGGCACTAAGTGT-AGATTT-AACTAGT 48079036 TTTGGCACTAAGTGTAGATTTAACTAG 1 TTTGGCACTAAGTGTAGATTTAACTAG 48079063 CTTCGGCTAC Statistics Matches: 26, Mismatches: 1, Indels: 2 0.90 0.03 0.07 Matches are distributed among these distances: 28 6 0.23 29 5 0.19 30 15 0.58 ACGTcount: A:0.28, C:0.12, G:0.23, T:0.37 Consensus pattern (28 bp): TTTGGCACTAAGTGTAGATTTAACTAGT Found at i:48081033 original size:27 final size:28 Alignment explanation
Indices: 48080977--48081046 Score: 124 Period size: 27 Copynumber: 2.5 Consensus size: 28 48080967 AAATTTGTAC 48080977 AGCACTAAGTGTGCGAGTTTGATCATAT 1 AGCACTAAGTGTGCGAGTTTGATCATAT * 48081005 AGCACTAAGTGTGCGAG-TTGATTATAT 1 AGCACTAAGTGTGCGAGTTTGATCATAT 48081032 AGCACTAAGTGTGCG 1 AGCACTAAGTGTGCG 48081047 GACTCACTAT Statistics Matches: 41, Mismatches: 1, Indels: 1 0.95 0.02 0.02 Matches are distributed among these distances: 27 24 0.59 28 17 0.41 ACGTcount: A:0.29, C:0.14, G:0.27, T:0.30 Consensus pattern (28 bp): AGCACTAAGTGTGCGAGTTTGATCATAT Found at i:48081057 original size:27 final size:27 Alignment explanation
Indices: 48080977--48081058 Score: 78 Period size: 27 Copynumber: 3.0 Consensus size: 27 48080967 AAATTTGTAC * * 48080977 AGCACTAAGTGTGCGAGTTTGA-TCATAT 1 AGCACTAAGTGTGCGAG-CTCACT-ATAT * * * 48081005 AGCACTAAGTGTGCGAGTTGATTATAT 1 AGCACTAAGTGTGCGAGCTCACTATAT 48081032 AGCACTAAGTGTGCG-GACTCACTATAT 1 AGCACTAAGTGTGCGAG-CTCACTATAT 48081059 GCTTTTGAAT Statistics Matches: 49, Mismatches: 3, Indels: 5 0.86 0.05 0.09 Matches are distributed among these distances: 26 1 0.02 27 30 0.61 28 18 0.37 ACGTcount: A:0.29, C:0.16, G:0.24, T:0.30 Consensus pattern (27 bp): AGCACTAAGTGTGCGAGCTCACTATAT Found at i:48086998 original size:27 final size:28 Alignment explanation
Indices: 48086942--48087011 Score: 124 Period size: 27 Copynumber: 2.5 Consensus size: 28 48086932 AAATTTGTAC 48086942 AGCACTAAGTGTGCGAGTTTGATCATAT 1 AGCACTAAGTGTGCGAGTTTGATCATAT * 48086970 AGCACTAAGTGTGCGAG-TTGATTATAT 1 AGCACTAAGTGTGCGAGTTTGATCATAT 48086997 AGCACTAAGTGTGCG 1 AGCACTAAGTGTGCG 48087012 GACTCACTAT Statistics Matches: 41, Mismatches: 1, Indels: 1 0.95 0.02 0.02 Matches are distributed among these distances: 27 24 0.59 28 17 0.41 ACGTcount: A:0.29, C:0.14, G:0.27, T:0.30 Consensus pattern (28 bp): AGCACTAAGTGTGCGAGTTTGATCATAT Found at i:48087022 original size:27 final size:27 Alignment explanation
Indices: 48086942--48087023 Score: 78 Period size: 27 Copynumber: 3.0 Consensus size: 27 48086932 AAATTTGTAC * * 48086942 AGCACTAAGTGTGCGAGTTTGA-TCATAT 1 AGCACTAAGTGTGCGAG-CTCACT-ATAT * * * 48086970 AGCACTAAGTGTGCGAGTTGATTATAT 1 AGCACTAAGTGTGCGAGCTCACTATAT 48086997 AGCACTAAGTGTGCG-GACTCACTATAT 1 AGCACTAAGTGTGCGAG-CTCACTATAT 48087024 GCTTTTGAAT Statistics Matches: 49, Mismatches: 3, Indels: 5 0.86 0.05 0.09 Matches are distributed among these distances: 26 1 0.02 27 30 0.61 28 18 0.37 ACGTcount: A:0.29, C:0.16, G:0.24, T:0.30 Consensus pattern (27 bp): AGCACTAAGTGTGCGAGCTCACTATAT Found at i:48090312 original size:40 final size:39 Alignment explanation
Indices: 48090275--48090460 Score: 196 Period size: 40 Copynumber: 4.6 Consensus size: 39 48090265 GCTACTCGTT * * 48090275 CAAATGCCTTCAGGACATAGCCCGG-TTACAGTAACTCGCA 1 CAAATGCCTTC-GGACTTAGCCCGGATT-TAGTAACTCGCA * * 48090315 CAGATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCA 1 CAAATGCCTTC-GGACTTAGCCCGGATTTAGTAACTCGCA * * 48090355 CAAATGCCTTCGGATCTTAGTCCGGATTTAGTAACTCGTA 1 CAAATGCCTTCGGA-CTTAGCCCGGATTTAGTAACTCGCA * * * * * 48090395 CGAATGCCTTCGGATCTTAGTCCGGATATAGTCACTTAGCA 1 CAAATGCCTTCGGA-CTTAGCCCGGATTTAGTAAC-TCGCA 48090436 CAAA-GCCTTCGGGACTTAGCCCGGA 1 CAAATGCCTTC-GGACTTAGCCCGGA 48090461 CATCATTCGA Statistics Matches: 126, Mismatches: 16, Indels: 8 0.84 0.11 0.05 Matches are distributed among these distances: 39 3 0.02 40 112 0.89 41 11 0.09 ACGTcount: A:0.26, C:0.27, G:0.22, T:0.25 Consensus pattern (39 bp): CAAATGCCTTCGGACTTAGCCCGGATTTAGTAACTCGCA Found at i:48098389 original size:71 final size:71 Alignment explanation
Indices: 48098308--48098471 Score: 328 Period size: 71 Copynumber: 2.3 Consensus size: 71 48098298 CGATTTGTCT 48098308 CGTAGCTCTCTTGTCTACATGGTGTCCTTCACTTGGAATCACGCATGCGACCTAGCTACATTTAT 1 CGTAGCTCTCTTGTCTACATGGTGTCCTTCACTTGGAATCACGCATGCGACCTAGCTACATTTAT 48098373 CTTTCA 66 CTTTCA 48098379 CGTAGCTCTCTTGTCTACATGGTGTCCTTCACTTGGAATCACGCATGCGACCTAGCTACATTTAT 1 CGTAGCTCTCTTGTCTACATGGTGTCCTTCACTTGGAATCACGCATGCGACCTAGCTACATTTAT 48098444 CTTTCA 66 CTTTCA 48098450 CGTAGCTCTCTTGTCTACATGG 1 CGTAGCTCTCTTGTCTACATGG 48098472 GATACATCTC Statistics Matches: 93, Mismatches: 0, Indels: 0 1.00 0.00 0.00 Matches are distributed among these distances: 71 93 1.00 ACGTcount: A:0.19, C:0.28, G:0.18, T:0.35 Consensus pattern (71 bp): CGTAGCTCTCTTGTCTACATGGTGTCCTTCACTTGGAATCACGCATGCGACCTAGCTACATTTAT CTTTCA Found at i:48098509 original size:71 final size:70 Alignment explanation
Indices: 48098308--48098505 Score: 258 Period size: 71 Copynumber: 2.8 Consensus size: 70 48098298 CGATTTGTCT * * * * 48098308 CGTAGCTCTCTTGTCTACATGGTGTCCTTCACTTGGAATCACGCATGCGACCTAGCTACATTTAT 1 CGTAGCTCTCTTGTCTACATGGTGTACAT-ACTTCGAATCACACATGCGACCTAGCTACATTTAT 48098373 CTTTCA 65 CTTTCA * * * * 48098379 CGTAGCTCTCTTGTCTACATGGTGTCCTTCACTTGGAATCACGCATGCGACCTAGCTACATTTAT 1 CGTAGCTCTCTTGTCTACATGGTGTACAT-ACTTCGAATCACACATGCGACCTAGCTACATTTAT 48098444 CTTTCA 65 CTTTCA * * 48098450 CGTAGCTCTCTTGTCTACATGG-GATACAT-C-TCGTATCACACATGTGACCTAGCTAC 1 CGTAGCTCTCTTGTCTACATGGTG-TACATACTTCGAATCACACATGCGACCTAGCTAC 48098506 TACAGGGTGT Statistics Matches: 120, Mismatches: 6, Indels: 5 0.92 0.05 0.04 Matches are distributed among these distances: 68 22 0.18 69 1 0.01 70 1 0.01 71 96 0.80 ACGTcount: A:0.21, C:0.28, G:0.17, T:0.34 Consensus pattern (70 bp): CGTAGCTCTCTTGTCTACATGGTGTACATACTTCGAATCACACATGCGACCTAGCTACATTTATC TTTCA Found at i:48110066 original size:29 final size:29 Alignment explanation
Indices: 48110034--48110111 Score: 102 Period size: 29 Copynumber: 2.7 Consensus size: 29 48110024 ATACCCTCCG ** * 48110034 AGCTCGCACACCCAGTGCCGTATTTTTCC 1 AGCTCGCACACTTAGTGCCGTATATTTCC * * 48110063 AGCTTGCACACTTAGTGCCATATATTTCC 1 AGCTCGCACACTTAGTGCCGTATATTTCC * 48110092 AGCACGCACACTTAGTGCCG 1 AGCTCGCACACTTAGTGCCG 48110112 ATCTCGTCAC Statistics Matches: 41, Mismatches: 8, Indels: 0 0.84 0.16 0.00 Matches are distributed among these distances: 29 41 1.00 ACGTcount: A:0.22, C:0.33, G:0.18, T:0.27 Consensus pattern (29 bp): AGCTCGCACACTTAGTGCCGTATATTTCC Found at i:48113927 original size:158 final size:158 Alignment explanation
Indices: 48113638--48113954 Score: 528 Period size: 158 Copynumber: 2.0 Consensus size: 158 48113628 GTAGAGGCTG * * * 48113638 GCTAGGTAGGACTTGTTTACTGCATAATCTGTTACTGTACTGATTACTGTTACCGTAATTGGCCA 1 GCTAGGTAGGACTTGTTTACTGCATAATCTGTTACTGTACTGACTACTATTACCGTAATGGGCCA * 48113703 AGGCCCAAATGCATGATTGTTTATGTATTAAGATAGGCTAAAGCTCGAATTGATACTGTCACAAA 66 AGGCCCAAATGCATGATTGTTTATGTATTAAGATAGGCTAAAGCTCGAACTGATACTGTCACAAA * * 48113768 TACTGAAAAGGGCGTAGGCCCAGACTGA 131 TAATGAAAAGGGCGTAGGCCCAAACTGA * * 48113796 GCTAGGTAGGACTTGTTTACTGTATAATCTGTTACTGTACTGACTACTATTATCGTAATGGGCCA 1 GCTAGGTAGGACTTGTTTACTGCATAATCTGTTACTGTACTGACTACTATTACCGTAATGGGCCA * 48113861 AGGCCCAAATGCATGATTGTTTATGTATTAAGATGGGCTAAAGCTCGAACTGATACTGTC-CTAA 66 AGGCCCAAATGCATGATTGTTTATGTATTAAGATAGGCTAAAGCTCGAACTGATACTGTCAC-AA * 48113925 ATAATGAAAAGGGCTTAGGCCCAAACTGA 130 ATAATGAAAAGGGCGTAGGCCCAAACTGA 48113954 G 1 G 48113955 TTTAATTTAT Statistics Matches: 148, Mismatches: 10, Indels: 2 0.93 0.06 0.01 Matches are distributed among these distances: 157 1 0.01 158 147 0.99 ACGTcount: A:0.30, C:0.17, G:0.23, T:0.30 Consensus pattern (158 bp): GCTAGGTAGGACTTGTTTACTGCATAATCTGTTACTGTACTGACTACTATTACCGTAATGGGCCA AGGCCCAAATGCATGATTGTTTATGTATTAAGATAGGCTAAAGCTCGAACTGATACTGTCACAAA TAATGAAAAGGGCGTAGGCCCAAACTGA Found at i:48116579 original size:40 final size:40 Alignment explanation
Indices: 48116535--48116664 Score: 165 Period size: 40 Copynumber: 3.2 Consensus size: 40 48116525 CGGAATACAA * 48116535 CCGGATATAACCACGT-GCACGAATGCGTTCGGGTCTTAGC 1 CCGGATATAACCAC-TAGCACGAATGCCTTCGGGTCTTAGC * * * 48116575 CCGGATAGAACAACTCGCACGAATGCCTTCGGGTCTTAGC 1 CCGGATATAACCACTAGCACGAATGCCTTCGGGTCTTAGC * * * 48116615 CCGGATGTAGCCACTAGCAC-AATTGCCTTCGGGTCTTAAC 1 CCGGATATAACCACTAGCACGAA-TGCCTTCGGGTCTTAGC 48116655 CCGGATATAA 1 CCGGATATAA 48116665 TTTCCAGCAT Statistics Matches: 77, Mismatches: 11, Indels: 4 0.84 0.12 0.04 Matches are distributed among these distances: 39 3 0.04 40 74 0.96 ACGTcount: A:0.25, C:0.28, G:0.25, T:0.22 Consensus pattern (40 bp): CCGGATATAACCACTAGCACGAATGCCTTCGGGTCTTAGC Found at i:48121182 original size:42 final size:41 Alignment explanation
Indices: 48121117--48121241 Score: 135 Period size: 42 Copynumber: 3.0 Consensus size: 41 48121107 ATCGATTTGA * 48121117 GATTACGTGTAAGACCATGTCTGGGACATCGGCATTGTATTT 1 GATTACGTGTAAGACCCTGTCTGGGACAT-GGCATTGTATTT * * * 48121159 GATTTCGTGGAAGACCCTGTCTGGGACAGTGGCATCGATATTT 1 GATTACGTGTAAGACCCTGTCTGGGACA-TGGCATTG-TATTT * ** 48121202 GATTACATGTAAGACCAC-GTCTAAGACATTGGCATTGTAT 1 GATTACGTGTAAGACC-CTGTCTGGGACA-TGGCATTGTAT 48121242 GAGCTTTTTG Statistics Matches: 69, Mismatches: 11, Indels: 6 0.80 0.13 0.07 Matches are distributed among these distances: 42 34 0.49 43 34 0.49 44 1 0.01 ACGTcount: A:0.26, C:0.18, G:0.26, T:0.31 Consensus pattern (41 bp): GATTACGTGTAAGACCCTGTCTGGGACATGGCATTGTATTT Found at i:48121235 original size:43 final size:43 Alignment explanation
Indices: 48121065--48121236 Score: 170 Period size: 43 Copynumber: 4.0 Consensus size: 43 48121055 CATAGGATTT * * * * 48121065 TCGATATGTGATTTCATGTAAGACCACATCTGGGACGTTGGCA 1 TCGATATTTGATTACATGTAAGACCACGTCTGGGACATTGGCA * * * * 48121108 TCGAT-TTGAGATTACGTGTAAGACCATGTCTGGGACATCGGCA 1 TCGATATT-TGATTACATGTAAGACCACGTCTGGGACATTGGCA * * * * * 48121151 TTG-TATTTGATTTCGTGGAAGACC-CTGTCTGGGACAGTGGCA 1 TCGATATTTGATTACATGTAAGACCAC-GTCTGGGACATTGGCA ** 48121193 TCGATATTTGATTACATGTAAGACCACGTCTAAGACATTGGCA 1 TCGATATTTGATTACATGTAAGACCACGTCTGGGACATTGGCA 48121236 T 1 T 48121237 TGTATGAGCT Statistics Matches: 102, Mismatches: 22, Indels: 10 0.76 0.16 0.07 Matches are distributed among these distances: 42 32 0.31 43 69 0.68 44 1 0.01 ACGTcount: A:0.26, C:0.18, G:0.26, T:0.31 Consensus pattern (43 bp): TCGATATTTGATTACATGTAAGACCACGTCTGGGACATTGGCA Found at i:48126317 original size:46 final size:46 Alignment explanation
Indices: 48126250--48126357 Score: 216 Period size: 46 Copynumber: 2.3 Consensus size: 46 48126240 TGATTCTACC 48126250 TAATAAAATCTCTTTTCAATCTCATCTACCTTAATTTTTACTTACA 1 TAATAAAATCTCTTTTCAATCTCATCTACCTTAATTTTTACTTACA 48126296 TAATAAAATCTCTTTTCAATCTCATCTACCTTAATTTTTACTTACA 1 TAATAAAATCTCTTTTCAATCTCATCTACCTTAATTTTTACTTACA 48126342 TAATAAAATCTCTTTT 1 TAATAAAATCTCTTTT 48126358 ATTTTTACTT Statistics Matches: 62, Mismatches: 0, Indels: 0 1.00 0.00 0.00 Matches are distributed among these distances: 46 62 1.00 ACGTcount: A:0.33, C:0.20, G:0.00, T:0.46 Consensus pattern (46 bp): TAATAAAATCTCTTTTCAATCTCATCTACCTTAATTTTTACTTACA Found at i:48126371 original size:29 final size:30 Alignment explanation
Indices: 48126329--48126387 Score: 111 Period size: 30 Copynumber: 2.0 Consensus size: 30 48126319 ATCTACCTTA 48126329 ATTTTTACTTACAT-AATAAAATCTCTTTT 1 ATTTTTACTTACATAAATAAAATCTCTTTT 48126358 ATTTTTACTTACATAAATAAAATCTCTTTT 1 ATTTTTACTTACATAAATAAAATCTCTTTT 48126388 CAATCTCATC Statistics Matches: 29, Mismatches: 0, Indels: 1 0.97 0.00 0.03 Matches are distributed among these distances: 29 14 0.48 30 15 0.52 ACGTcount: A:0.36, C:0.14, G:0.00, T:0.51 Consensus pattern (30 bp): ATTTTTACTTACATAAATAAAATCTCTTTT Found at i:48126624 original size:36 final size:36 Alignment explanation
Indices: 48126584--48126664 Score: 128 Period size: 36 Copynumber: 2.2 Consensus size: 36 48126574 AATTTAAACA 48126584 ATTCAA-ATAAAGAAGAATGAGATTATAATTTTGCTC 1 ATTCAAGA-AAAGAAGAATGAGATTATAATTTTGCTC * * 48126620 ATTCAAGAAGAGACGAATGAGATTATAATTTTGCTC 1 ATTCAAGAAAAGAAGAATGAGATTATAATTTTGCTC 48126656 ATTCAAGAA 1 ATTCAAGAA 48126665 GAGACTCCTC Statistics Matches: 42, Mismatches: 2, Indels: 2 0.91 0.04 0.04 Matches are distributed among these distances: 36 41 0.98 37 1 0.02 ACGTcount: A:0.43, C:0.10, G:0.16, T:0.31 Consensus pattern (36 bp): ATTCAAGAAAAGAAGAATGAGATTATAATTTTGCTC Found at i:48126665 original size:36 final size:36 Alignment explanation
Indices: 48126598--48126669 Score: 144 Period size: 36 Copynumber: 2.0 Consensus size: 36 48126588 AAATAAAGAA 48126598 GAATGAGATTATAATTTTGCTCATTCAAGAAGAGAC 1 GAATGAGATTATAATTTTGCTCATTCAAGAAGAGAC 48126634 GAATGAGATTATAATTTTGCTCATTCAAGAAGAGAC 1 GAATGAGATTATAATTTTGCTCATTCAAGAAGAGAC 48126670 TCCTCTTTCA Statistics Matches: 36, Mismatches: 0, Indels: 0 1.00 0.00 0.00 Matches are distributed among these distances: 36 36 1.00 ACGTcount: A:0.39, C:0.11, G:0.19, T:0.31 Consensus pattern (36 bp): GAATGAGATTATAATTTTGCTCATTCAAGAAGAGAC Found at i:48130869 original size:17 final size:16 Alignment explanation
Indices: 48130831--48130869 Score: 53 Period size: 15 Copynumber: 2.4 Consensus size: 16 48130821 TCATTAATAT * 48130831 TATAATATATGAATTA 1 TATAAAATATGAATTA 48130847 TA-AAAATATGAATTA 1 TATAAAATATGAATTA 48130862 TAATAAAA 1 T-ATAAAA 48130870 ATAATAATTG Statistics Matches: 20, Mismatches: 1, Indels: 3 0.83 0.04 0.12 Matches are distributed among these distances: 15 13 0.65 16 3 0.15 17 4 0.20 ACGTcount: A:0.59, C:0.00, G:0.05, T:0.36 Consensus pattern (16 bp): TATAAAATATGAATTA Found at i:48132953 original size:28 final size:27 Alignment explanation
Indices: 48132921--48132989 Score: 111 Period size: 28 Copynumber: 2.5 Consensus size: 27 48132911 GCGTAGATCA 48132921 CGAAATTACCCCTAAAGAGCAAAATTAC 1 CGAAA-TACCCCTAAAGAGCAAAATTAC 48132949 CGAAACTACCCCTAAAGAGCAAAATTAC 1 CGAAA-TACCCCTAAAGAGCAAAATTAC * 48132977 CGATATACCCCTA 1 CGAAATACCCCTA 48132990 GGGTTTTAAA Statistics Matches: 39, Mismatches: 2, Indels: 1 0.93 0.05 0.02 Matches are distributed among these distances: 27 8 0.21 28 31 0.79 ACGTcount: A:0.43, C:0.29, G:0.10, T:0.17 Consensus pattern (27 bp): CGAAATACCCCTAAAGAGCAAAATTAC Found at i:48134971 original size:27 final size:27 Alignment explanation
Indices: 48134941--48134995 Score: 92 Period size: 27 Copynumber: 2.0 Consensus size: 27 48134931 CAAGTGTAAG * * 48134941 TGAGGTTATTCGATTCGTAAATCTTTC 1 TGAGGTTATTCAATTCATAAATCTTTC 48134968 TGAGGTTATTCAATTCATAAATCTTTC 1 TGAGGTTATTCAATTCATAAATCTTTC 48134995 T 1 T 48134996 TTTAAAAATA Statistics Matches: 26, Mismatches: 2, Indels: 0 0.93 0.07 0.00 Matches are distributed among these distances: 27 26 1.00 ACGTcount: A:0.25, C:0.15, G:0.15, T:0.45 Consensus pattern (27 bp): TGAGGTTATTCAATTCATAAATCTTTC Found at i:48138099 original size:11 final size:12 Alignment explanation
Indices: 48138068--48138097 Score: 51 Period size: 12 Copynumber: 2.5 Consensus size: 12 48138058 AGTTTGTGAT 48138068 AAAAAAATTCGA 1 AAAAAAATTCGA * 48138080 AAAAAAATTTGA 1 AAAAAAATTCGA 48138092 AAAAAA 1 AAAAAA 48138098 TTCATGTATA Statistics Matches: 17, Mismatches: 1, Indels: 0 0.94 0.06 0.00 Matches are distributed among these distances: 12 17 1.00 ACGTcount: A:0.73, C:0.03, G:0.07, T:0.17 Consensus pattern (12 bp): AAAAAAATTCGA Found at i:48150909 original size:2 final size:2 Alignment explanation
Indices: 48150902--48150926 Score: 50 Period size: 2 Copynumber: 12.5 Consensus size: 2 48150892 TAATGGGATG 48150902 AT AT AT AT AT AT AT AT AT AT AT AT A 1 AT AT AT AT AT AT AT AT AT AT AT AT A 48150927 AATGAAAATG Statistics Matches: 23, Mismatches: 0, Indels: 0 1.00 0.00 0.00 Matches are distributed among these distances: 2 23 1.00 ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48 Consensus pattern (2 bp): AT Found at i:48151106 original size:29 final size:29 Alignment explanation
Indices: 48151047--48151150 Score: 95 Period size: 29 Copynumber: 3.6 Consensus size: 29 48151037 GTGACGAGAT * ** 48151047 TGGCACTAAGTGTGC-ATGCTGGAAATATA 1 TGGCACTAAGTGTGCGA-GCTCGAAACGTA ** 48151076 TGGCACTAAGTGTGCGAGCTCGAAGGGTA 1 TGGCACTAAGTGTGCGAGCTCGAAACGTA * * * * 48151105 TGGCACTATGTGTGCGGGCT-TAAATCGCA 1 TGGCACTAAGTGTGCGAGCTCGAAA-CGTA 48151134 TGGCACTAAGTGTGCGA 1 TGGCACTAAGTGTGCGA 48151151 AATCGAGTAT Statistics Matches: 61, Mismatches: 12, Indels: 4 0.79 0.16 0.05 Matches are distributed among these distances: 28 2 0.03 29 58 0.95 30 1 0.02 ACGTcount: A:0.25, C:0.17, G:0.33, T:0.25 Consensus pattern (29 bp): TGGCACTAAGTGTGCGAGCTCGAAACGTA Found at i:48158048 original size:40 final size:40 Alignment explanation
Indices: 48157993--48158202 Score: 305 Period size: 40 Copynumber: 5.2 Consensus size: 40 48157983 AACATTGGAA 48157993 ATATATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGTTG 1 ATATATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGTTG 48158033 ATATATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGTTG 1 ATATATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGTTG 48158073 ATATATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGTTG 1 ATATATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGTTG * * * * 48158113 ATATATCCGGGCTAAGACCCGAAGGCCTTTGTGCAAG-TC 1 ATATATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGTTG * * * * * * 48158152 ACCAAATCCGGGTTATGACCCGAAGGCAATCGTGCGAGTCG 1 A-TATATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGTTG * 48158193 CTATATCCGG 1 ATATATCCGG 48158203 TTAAATCCCG Statistics Matches: 151, Mismatches: 17, Indels: 4 0.88 0.10 0.02 Matches are distributed among these distances: 39 2 0.01 40 149 0.99 ACGTcount: A:0.25, C:0.24, G:0.29, T:0.22 Consensus pattern (40 bp): ATATATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGTTG Found at i:48170387 original size:80 final size:80 Alignment explanation
Indices: 48170303--48170451 Score: 183 Period size: 80 Copynumber: 1.9 Consensus size: 80 48170293 TATGGTAACC * * * * 48170303 CGCACCAAGGCCTACGGGACTTAACCCGGATATCA-CGATTTGCACAAATGCCTTCGGGTCTTAG 1 CGCACCAAGGCCTACGGGACTTAACCCGGATAT-AGCCACTAGCACAAATGCCTTCGGGTCTTAA 48170367 CCCGGATAGAATGACT 65 CCCGGATAGAATGACT * * * * * * * 48170383 CGCACGAATGCCTTCGGGTCTTAGCCCGGATGTAGCCACTAGCACAATTGCCTTCGGGTCTTAAC 1 CGCACCAAGGCCTACGGGACTTAACCCGGATATAGCCACTAGCACAAATGCCTTCGGGTCTTAAC 48170448 CCGG 66 CCGG 48170452 TTATAATTTC Statistics Matches: 57, Mismatches: 11, Indels: 2 0.81 0.16 0.03 Matches are distributed among these distances: 79 1 0.02 80 56 0.98 ACGTcount: A:0.23, C:0.30, G:0.25, T:0.22 Consensus pattern (80 bp): CGCACCAAGGCCTACGGGACTTAACCCGGATATAGCCACTAGCACAAATGCCTTCGGGTCTTAAC CCGGATAGAATGACT Found at i:48170393 original size:40 final size:38 Alignment explanation
Indices: 48170344--48170451 Score: 128 Period size: 40 Copynumber: 2.7 Consensus size: 38 48170334 ATCACGATTT * 48170344 GCACAAATGCCTTCGGGTCTTAGCCCGGATAGAATG-ACTC 1 GCAC-AATGCCTTCGGGTCTTAGCCCGGAT-GAA-GCACTA * 48170384 GCACGAATGCCTTCGGGTCTTAGCCCGGATGTAGCCACTA 1 GCAC-AATGCCTTCGGGTCTTAGCCCGGATGAAG-CACTA * 48170424 GCACAATTGCCTTCGGGTCTTAACCCGG 1 GCACAA-TGCCTTCGGGTCTTAGCCCGG 48170452 TTATAATTTC Statistics Matches: 61, Mismatches: 4, Indels: 6 0.86 0.06 0.08 Matches are distributed among these distances: 38 1 0.02 39 4 0.07 40 56 0.92 ACGTcount: A:0.21, C:0.30, G:0.26, T:0.23 Consensus pattern (38 bp): GCACAATGCCTTCGGGTCTTAGCCCGGATGAAGCACTA Found at i:48179672 original size:46 final size:46 Alignment explanation
Indices: 48179528--48179693 Score: 144 Period size: 46 Copynumber: 3.6 Consensus size: 46 48179518 TTTGTGCGTT * * * 48179528 AGTGTAAGACATGTCTGGGACATACATGGGACACAT-T-ATGAGAGCC 1 AGTGTAAGACATGTCTGGGACATGCATCGG-C-CTTGTGATGAGAGCC * * * * * * * 48179574 ATTGTAAGACCATGTCT-AGACATGGCATTGGCATTGAGACGAGAGCT 1 AGTGTAAGA-CATGTCTGGGACAT-GCATCGGCCTTGTGATGAGAGCC 48179621 A-TGTAAGACATGTCTGGGACATGCATCGGCCTTGTGATGTA-AGCC 1 AGTGTAAGACATGTCTGGGACATGCATCGGCCTTGTGATG-AGAGCC * * 48179666 AGTGTAAGACATGCCTAGGACATGCATC 1 AGTGTAAGACATGTCTGGGACATGCATC 48179694 AGCTACGAGA Statistics Matches: 96, Mismatches: 17, Indels: 14 0.76 0.13 0.11 Matches are distributed among these distances: 45 25 0.26 46 51 0.53 47 20 0.21 ACGTcount: A:0.30, C:0.19, G:0.28, T:0.24 Consensus pattern (46 bp): AGTGTAAGACATGTCTGGGACATGCATCGGCCTTGTGATGAGAGCC Found at i:48179706 original size:46 final size:44 Alignment explanation
Indices: 48179622--48179719 Score: 108 Period size: 46 Copynumber: 2.2 Consensus size: 44 48179612 ACGAGAGCTA * * * * * 48179622 TGTAAGACATGTCTGGGACATGCATCGGCCTTGTGATGTAAGCCAG 1 TGTAAGACATGCCTAGGACATGCATCAGCCTCGAGATGT--GCCAG * 48179668 TGTAAGACATGCCTAGGACATGCATCAG-CTACGAGATGTGTCAG 1 TGTAAGACATGCCTAGGACATGCATCAGCCT-CGAGATGTGCCAG 48179712 TGTAAGAC 1 TGTAAGAC 48179720 CAAGTCTGGA Statistics Matches: 45, Mismatches: 6, Indels: 4 0.82 0.11 0.07 Matches are distributed among these distances: 44 12 0.27 45 2 0.04 46 31 0.69 ACGTcount: A:0.28, C:0.19, G:0.29, T:0.24 Consensus pattern (44 bp): TGTAAGACATGCCTAGGACATGCATCAGCCTCGAGATGTGCCAG Found at i:48179782 original size:48 final size:46 Alignment explanation
Indices: 48179665--48179790 Score: 127 Period size: 48 Copynumber: 2.7 Consensus size: 46 48179655 TGATGTAAGC ** * 48179665 CAGTGTAAGA-CATGCCTAGGACAT-GCATCAGCTACGAGATGTGT 1 CAGTGTAAGACCATATCTAGGACATGGCATCAGCTACGAGAGGTGT * 48179709 CAGTGTAAGACCA-AGTCT-GGAACATGGCATCGGC-ACGTATAGAGGTGT 1 CAGTGTAAGACCATA-TCTAGG-ACATGGCATCAGCTACG---AGAGGTGT * 48179757 CAGTGTAAGACCATATCTAGGACATGGCGTCAGC 1 CAGTGTAAGACCATATCTAGGACATGGCATCAGC 48179791 CTTGATTTCG Statistics Matches: 67, Mismatches: 6, Indels: 14 0.77 0.07 0.16 Matches are distributed among these distances: 44 12 0.18 45 11 0.16 46 7 0.10 48 34 0.51 49 3 0.04 ACGTcount: A:0.29, C:0.21, G:0.29, T:0.21 Consensus pattern (46 bp): CAGTGTAAGACCATATCTAGGACATGGCATCAGCTACGAGAGGTGT Found at i:48182703 original size:26 final size:25 Alignment explanation
Indices: 48182674--48182812 Score: 102 Period size: 27 Copynumber: 5.2 Consensus size: 25 48182664 TTAGTTTATC 48182674 AAATTACTGAAATACCACCATTTGTA 1 AAATTACTGAAATACC-CCATTTGTA * * 48182700 AAATTAC-CAAAGTACCCCCAGTTTATA 1 AAATTACTGAAA-TA-CCCCA-TTTGTA ** * 48182727 AAATTACCAAAATATCCTCGATTTGTA 1 AAATTACTGAAATA-CC-CCATTTGTA * * 48182754 ACATTACTG-AATACCCTCAGTTTGCA 1 AAATTACTGAAATACCC-CA-TTTGTA * 48182780 AAATTACTGAAATACCCTCGACTTGTA 1 AAATTACTGAAATACCC-C-ATTTGTA 48182807 AAATTA 1 AAATTA 48182813 TCAAAGTACC Statistics Matches: 90, Mismatches: 14, Indels: 17 0.74 0.12 0.14 Matches are distributed among these distances: 24 1 0.01 25 6 0.07 26 29 0.32 27 48 0.53 28 6 0.07 ACGTcount: A:0.40, C:0.22, G:0.09, T:0.30 Consensus pattern (25 bp): AAATTACTGAAATACCCCATTTGTA Found at i:48182732 original size:27 final size:26 Alignment explanation
Indices: 48182666--48182737 Score: 83 Period size: 26 Copynumber: 2.7 Consensus size: 26 48182656 AGAATACTTT * * 48182666 AGTTTATCAAATTACTGAAATACCACC 1 AGTTTATAAAATTAC-CAAATACCACC * * 48182693 A-TTTGTAAAATTACCAAAGTACCCCC 1 AGTTTATAAAATTACCAAA-TACCACC 48182719 AGTTTATAAAATTACCAAA 1 AGTTTATAAAATTACCAAA 48182738 ATATCCTCGA Statistics Matches: 38, Mismatches: 5, Indels: 4 0.81 0.11 0.09 Matches are distributed among these distances: 25 3 0.08 26 18 0.47 27 17 0.45 ACGTcount: A:0.43, C:0.21, G:0.07, T:0.29 Consensus pattern (26 bp): AGTTTATAAAATTACCAAATACCACC Found at i:48182769 original size:53 final size:53 Alignment explanation
Indices: 48182666--48182823 Score: 174 Period size: 53 Copynumber: 3.0 Consensus size: 53 48182656 AGAATACTTT * * * 48182666 AGTTTATCAAATTACTGAAATACCACCATTTGTAAAATTACCAAAGTACCCCC 1 AGTTTATAAAATTACTGAAATACCTCGATTTGTAAAATTACCAAAGTACCCCC ** * ** * 48182719 AGTTTATAAAATTACCAAAATATCCTCGATTTGTAACATTACTGAA-TACCCTC 1 AGTTTATAAAATTACTGAAATA-CCTCGATTTGTAAAATTACCAAAGTACCCCC ** * * 48182772 AGTTTGCAAAATTACTGAAATACCCTCGACTTGTAAAATTATCAAAGTACCC 1 AGTTTATAAAATTACTGAAATA-CCTCGATTTGTAAAATTACCAAAGTACCC 48182824 TCGAATTACA Statistics Matches: 84, Mismatches: 19, Indels: 3 0.79 0.18 0.03 Matches are distributed among these distances: 53 61 0.73 54 23 0.27 ACGTcount: A:0.39, C:0.22, G:0.09, T:0.30 Consensus pattern (53 bp): AGTTTATAAAATTACTGAAATACCTCGATTTGTAAAATTACCAAAGTACCCCC Found at i:48182824 original size:27 final size:27 Alignment explanation
Indices: 48182694--48182827 Score: 114 Period size: 27 Copynumber: 5.0 Consensus size: 27 48182684 AATACCACCA * 48182694 TTTGTAAAATTACCAAAGTACCC-CCAG 1 TTTGTAAAATTACCAAA-TACCCTCGAG * * 48182721 TTTATAAAATTACCAAAATATCCTCGA- 1 TTTGTAAAATTACC-AAATACCCTCGAG * ** 48182748 TTTGTAACATTACTGAATACCCTC-AG 1 TTTGTAAAATTACCAAATACCCTCGAG * * 48182774 TTTGCAAAATTACTGAAATACCCTCGA- 1 TTTGTAAAATTAC-CAAATACCCTCGAG * * 48182801 CTTGTAAAATTATCAAAGTACCCTCGA 1 TTTGTAAAATTACCAAA-TACCCTCGA 48182828 ATTACAAAAT Statistics Matches: 85, Mismatches: 16, Indels: 12 0.75 0.14 0.11 Matches are distributed among these distances: 25 1 0.01 26 22 0.26 27 56 0.66 28 6 0.07 ACGTcount: A:0.37, C:0.22, G:0.10, T:0.31 Consensus pattern (27 bp): TTTGTAAAATTACCAAATACCCTCGAG Found at i:48182836 original size:27 final size:27 Alignment explanation
Indices: 48182778--48182841 Score: 76 Period size: 27 Copynumber: 2.4 Consensus size: 27 48182768 CCTCAGTTTG * * * 48182778 CAAAATTACTGAAATACCCTCGACTTG 1 CAAAATTACTCAAATACCCTCGAATTA * 48182805 TAAAATTA-TCAAAGTACCCTCGAATTA 1 CAAAATTACTCAAA-TACCCTCGAATTA 48182832 CAAAATTACT 1 CAAAATTACT 48182842 GTTTTATCCT Statistics Matches: 30, Mismatches: 5, Indels: 3 0.79 0.13 0.08 Matches are distributed among these distances: 26 4 0.13 27 25 0.83 28 1 0.03 ACGTcount: A:0.42, C:0.22, G:0.08, T:0.28 Consensus pattern (27 bp): CAAAATTACTCAAATACCCTCGAATTA Found at i:48182859 original size:27 final size:27 Alignment explanation
Indices: 48182819--48183174 Score: 453 Period size: 27 Copynumber: 13.2 Consensus size: 27 48182809 ATTATCAAAG * 48182819 TACCCTCGAATTACAAAATTACTGTTT 1 TACCCTCGATTTACAAAATTACTGTTT * * 48182846 TATCCTTGATTTACAAAATTACTGTTT 1 TACCCTCGATTTACAAAATTACTGTTT 48182873 TACCCTCGATTTACAAAATTA-TAGTTT 1 TACCCTCGATTTACAAAATTACT-GTTT * 48182900 TACCCTCGATTTACAAAATTACCGTTT 1 TACCCTCGATTTACAAAATTACTGTTT * * 48182927 TACCCTCGATTGACAGAATTACTGTTT 1 TACCCTCGATTTACAAAATTACTGTTT * * 48182954 TACCCTCTATTTACAGAATTACTGTTT 1 TACCCTCGATTTACAAAATTACTGTTT * * 48182981 TACCCTCAATTTACAAAATTACTATTT 1 TACCCTCGATTTACAAAATTACTGTTT * 48183008 TACCCTCGATTTACAAAATTACCGTTT 1 TACCCTCGATTTACAAAATTACTGTTT * * * * * 48183035 TACCCTCGATTGATAGAATTACTCTCT 1 TACCCTCGATTTACAAAATTACTGTTT * * * 48183062 AACCCTCGATTTATAAAATTATTGTTT 1 TACCCTCGATTTACAAAATTACTGTTT * * * 48183089 TACCCTCAATTTACAAAATTATTATTT 1 TACCCTCGATTTACAAAATTACTGTTT * * 48183116 TACCCTCGATTTACAGAATTACCGTTT 1 TACCCTCGATTTACAAAATTACTGTTT * ** 48183143 TACCCTCGATTTATAAAATTACCATTT 1 TACCCTCGATTTACAAAATTACTGTTT 48183170 TACCC 1 TACCC 48183175 CTAGGGTGTT Statistics Matches: 286, Mismatches: 41, Indels: 4 0.86 0.12 0.01 Matches are distributed among these distances: 26 1 0.00 27 285 1.00 ACGTcount: A:0.31, C:0.22, G:0.07, T:0.40 Consensus pattern (27 bp): TACCCTCGATTTACAAAATTACTGTTT Found at i:48182931 original size:108 final size:108 Alignment explanation
Indices: 48182819--48183174 Score: 502 Period size: 108 Copynumber: 3.3 Consensus size: 108 48182809 ATTATCAAAG * * 48182819 TACCCTCGAATT-ACAAAATTACTGTTTTATCCTTGATTTACAAAATTACTGTTTTACCCTCGAT 1 TACCCTCG-ATTGACAAAATTACTGTTTTACCCTTGATTTACAAAATTACTGTTTTACCCTCAAT 48182883 TTACAAAATTA-TAGTTTTACCCTCGATTTACAAAATTACCGTTT 65 TTACAAAATTACTA-TTTTACCCTCGATTTACAAAATTACCGTTT * * 48182927 TACCCTCGATTGACAGAATTACTGTTTTACCCTCT-ATTTACAGAATTACTGTTTTACCCTCAAT 1 TACCCTCGATTGACAAAATTACTGTTTTACCCT-TGATTTACAAAATTACTGTTTTACCCTCAAT 48182991 TTACAAAATTACTATTTTACCCTCGATTTACAAAATTACCGTTT 65 TTACAAAATTACTATTTTACCCTCGATTTACAAAATTACCGTTT * * * * * * * * 48183035 TACCCTCGATTGATAGAATTACTCTCTAACCCTCGATTTATAAAATTATTGTTTTACCCTCAATT 1 TACCCTCGATTGACAAAATTACTGTTTTACCCTTGATTTACAAAATTACTGTTTTACCCTCAATT * * 48183100 TACAAAATTATTATTTTACCCTCGATTTACAGAATTACCGTTT 66 TACAAAATTACTATTTTACCCTCGATTTACAAAATTACCGTTT * * ** 48183143 TACCCTCGATTTATAAAATTACCATTTTACCC 1 TACCCTCGATTGACAAAATTACTGTTTTACCC 48183175 CTAGGGTGTT Statistics Matches: 224, Mismatches: 20, Indels: 8 0.89 0.08 0.03 Matches are distributed among these distances: 107 3 0.01 108 218 0.97 109 3 0.01 ACGTcount: A:0.31, C:0.22, G:0.07, T:0.40 Consensus pattern (108 bp): TACCCTCGATTGACAAAATTACTGTTTTACCCTTGATTTACAAAATTACTGTTTTACCCTCAATT TACAAAATTACTATTTTACCCTCGATTTACAAAATTACCGTTT Found at i:48183645 original size:18 final size:17 Alignment explanation
Indices: 48183624--48183657 Score: 50 Period size: 18 Copynumber: 1.9 Consensus size: 17 48183614 CTGATTCTGA 48183624 TTCTAATTCTGATAATGT 1 TTCTAATTCTG-TAATGT * 48183642 TTCTTATTCTGTAATG 1 TTCTAATTCTGTAATG 48183658 GGTTAAAGCC Statistics Matches: 15, Mismatches: 1, Indels: 1 0.88 0.06 0.06 Matches are distributed among these distances: 17 5 0.33 18 10 0.67 ACGTcount: A:0.24, C:0.12, G:0.12, T:0.53 Consensus pattern (17 bp): TTCTAATTCTGTAATGT Found at i:48183651 original size:6 final size:6 Alignment explanation
Indices: 48183580--48183636 Score: 62 Period size: 6 Copynumber: 9.3 Consensus size: 6 48183570 TTGCATTCAC * * * 48183580 ATTCTG ATTTTG ATTCTG -TCACCTG ATTCTG ATTCTG ATTCTG ATTCTA 1 ATTCTG ATTCTG ATTCTG AT--TCTG ATTCTG ATTCTG ATTCTG ATTCTG 48183629 ATTCTG AT 1 ATTCTG AT 48183637 AATGTTTCTT Statistics Matches: 42, Mismatches: 6, Indels: 6 0.78 0.11 0.11 Matches are distributed among these distances: 5 1 0.02 6 37 0.88 7 3 0.07 8 1 0.02 ACGTcount: A:0.19, C:0.18, G:0.14, T:0.49 Consensus pattern (6 bp): ATTCTG Found at i:48187028 original size:55 final size:53 Alignment explanation
Indices: 48186897--48187092 Score: 207 Period size: 55 Copynumber: 3.6 Consensus size: 53 48186887 CTTACCATTT * 48186897 CCATGTCTTGACATGGTCTTACATGGTATCCTTGCCTTATGAACTCACCAATG 1 CCATGTCTTGACATGGTCTTACATGGGATCCTTGCCTTATGAACTCACCAATG * * * * 48186950 CCATGCCTTGGCATGGTCTTACATGGGA-CCTTTGCCTTATAGTAACTTATCAATG 1 CCATGTCTTGACATGGTCTTACATGGGATCC-TTGCCTTAT-G-AACTCACCAATG * *** * 48187005 TCATGTCTTGACATGGTCTTACATGATTTCCTTGCCTTA-GAAACCTTACCAATTG 1 CCATGTCTTGACATGGTCTTACATGGGATCCTTGCCTTATG-AA-CTCACCAA-TG * * * 48187060 CCATGCCTTGGCATGGTCTTACATGGTATCCTT 1 CCATGTCTTGACATGGTCTTACATGGGATCCTT 48187093 AAACCCTAAT Statistics Matches: 119, Mismatches: 18, Indels: 10 0.81 0.12 0.07 Matches are distributed among these distances: 52 2 0.02 53 37 0.31 54 8 0.07 55 70 0.59 56 2 0.02 ACGTcount: A:0.21, C:0.25, G:0.18, T:0.36 Consensus pattern (53 bp): CCATGTCTTGACATGGTCTTACATGGGATCCTTGCCTTATGAACTCACCAATG Found at i:48193409 original size:14 final size:14 Alignment explanation
Indices: 48193386--48193428 Score: 52 Period size: 14 Copynumber: 3.0 Consensus size: 14 48193376 GTGGAGAGAT 48193386 CAAAAGAAAAAGAG 1 CAAAAGAAAAAGAG * 48193400 CAAAATAAAAAGAATG 1 CAAAAGAAAAAG-A-G 48193416 -AAAAGAAAAAGAG 1 CAAAAGAAAAAGAG 48193429 TGGAATAAGT Statistics Matches: 25, Mismatches: 2, Indels: 5 0.78 0.06 0.16 Matches are distributed among these distances: 13 1 0.04 14 12 0.48 15 11 0.44 16 1 0.04 ACGTcount: A:0.72, C:0.05, G:0.19, T:0.05 Consensus pattern (14 bp): CAAAAGAAAAAGAG Found at i:48200691 original size:29 final size:29 Alignment explanation
Indices: 48200659--48200736 Score: 102 Period size: 29 Copynumber: 2.7 Consensus size: 29 48200649 ATACCCTCCG ** * 48200659 AGCTCGCACACCCAGTGCCGTATTTTTCC 1 AGCTCGCACACTTAGTGCCGTATATTTCC * * 48200688 AGCTTGCACACTTAGTGCCATATATTTCC 1 AGCTCGCACACTTAGTGCCGTATATTTCC * 48200717 AGCACGCACACTTAGTGCCG 1 AGCTCGCACACTTAGTGCCG 48200737 ATCTCGTCAC Statistics Matches: 41, Mismatches: 8, Indels: 0 0.84 0.16 0.00 Matches are distributed among these distances: 29 41 1.00 ACGTcount: A:0.22, C:0.33, G:0.18, T:0.27 Consensus pattern (29 bp): AGCTCGCACACTTAGTGCCGTATATTTCC Found at i:48201904 original size:14 final size:16 Alignment explanation
Indices: 48201885--48201916 Score: 50 Period size: 16 Copynumber: 2.1 Consensus size: 16 48201875 GCATCCATGC 48201885 TCATTT-TTT-TTTTT 1 TCATTTCTTTATTTTT 48201899 TCATTTCTTTATTTTT 1 TCATTTCTTTATTTTT 48201915 TC 1 TC 48201917 TACATAATCC Statistics Matches: 16, Mismatches: 0, Indels: 2 0.89 0.00 0.11 Matches are distributed among these distances: 14 6 0.38 15 3 0.19 16 7 0.44 ACGTcount: A:0.09, C:0.12, G:0.00, T:0.78 Consensus pattern (16 bp): TCATTTCTTTATTTTT Found at i:48208400 original size:28 final size:29 Alignment explanation
Indices: 48208360--48208432 Score: 94 Period size: 29 Copynumber: 2.6 Consensus size: 29 48208350 CCTCCGAGCT ** * 48208360 CGCACACCCAGTGCCGTAT-TTTCCAGCT 1 CGCACACTTAGTGCCGTATATTTCCAGCA * * 48208388 TGCACACTTAGTGCCATATATTTCCAGCA 1 CGCACACTTAGTGCCGTATATTTCCAGCA 48208417 CGCACACTTAGTGCCG 1 CGCACACTTAGTGCCG 48208433 ATCTCGTCAC Statistics Matches: 37, Mismatches: 7, Indels: 1 0.82 0.16 0.02 Matches are distributed among these distances: 28 15 0.41 29 22 0.59 ACGTcount: A:0.22, C:0.34, G:0.18, T:0.26 Consensus pattern (29 bp): CGCACACTTAGTGCCGTATATTTCCAGCA Found at i:48208421 original size:29 final size:28 Alignment explanation
Indices: 48208302--48208431 Score: 91 Period size: 29 Copynumber: 4.5 Consensus size: 28 48208292 TACTCGATTT * * * 48208302 CGCACACTTAGTGCCACGTAATTT-AAGCC 1 CGCACACTTAGTGCCA--TATTTTCCAGCA ** *** * 48208331 CGCACACACAGTGCCATACCCTCCGAGCT 1 CGCACACTTAGTGCCATATTTTCC-AGCA ** * * 48208360 CGCACACCCAGTGCCGTATTTTCCAGCT 1 CGCACACTTAGTGCCATATTTTCCAGCA * 48208388 TGCACACTTAGTGCCATATATTTCCAGCA 1 CGCACACTTAGTGCCATAT-TTTCCAGCA 48208417 CGCACACTTAGTGCC 1 CGCACACTTAGTGCC 48208432 GATCTCGTCA Statistics Matches: 80, Mismatches: 18, Indels: 6 0.77 0.17 0.06 Matches are distributed among these distances: 27 3 0.04 28 19 0.24 29 58 0.73 ACGTcount: A:0.24, C:0.36, G:0.17, T:0.23 Consensus pattern (28 bp): CGCACACTTAGTGCCATATTTTCCAGCA Found at i:48211692 original size:41 final size:41 Alignment explanation
Indices: 48211645--48211770 Score: 117 Period size: 40 Copynumber: 3.1 Consensus size: 41 48211635 TCGGATTTAA 48211645 CCGGATATAGCTACCATGCTCAAATGCCTTCGGGACTTAGC 1 CCGGATATAGCTACCATGCTCAAATGCCTTCGGGACTTAGC * 48211686 CCGGATA-AGTACGTACCA--C-GAAATGCCTTCGGGACTTAAGC 1 CCGGATATAG--C-TACCATGCTCAAATGCCTTCGGGACTT-AGC * 48211727 CCGGAT-TAG-TAAC-TCGCTCAAATGCCTTC-GGATCTTAG- 1 CCGGATATAGCTACCAT-GCTCAAATGCCTTCGGGA-CTTAGC 48211765 CCGGAT 1 CCGGAT 48211771 TAGTAACTCG Statistics Matches: 72, Mismatches: 3, Indels: 23 0.73 0.03 0.23 Matches are distributed among these distances: 37 3 0.04 38 6 0.08 39 6 0.08 40 32 0.44 41 19 0.26 42 1 0.01 43 5 0.07 ACGTcount: A:0.25, C:0.28, G:0.23, T:0.24 Consensus pattern (41 bp): CCGGATATAGCTACCATGCTCAAATGCCTTCGGGACTTAGC Found at i:48211712 original size:40 final size:39 Alignment explanation
Indices: 48211665--48211852 Score: 201 Period size: 40 Copynumber: 4.7 Consensus size: 39 48211655 CTACCATGCT * 48211665 CAAATGCCTTCGGGACTTAGCCCGGATAAGT-ACGTAC-CA 1 CAAATGCCTTCGGGACTTAGCCCGGATTAGTAAC-T-CGCA * 48211704 CGAAATGCCTTCGGGACTTAAGCCCGGATTAGTAACTCGCT 1 C-AAATGCCTTCGGGACTT-AGCCCGGATTAGTAACTCGCA 48211745 CAAATGCCTTC-GGATCTTAG-CCGGATTAGTAACTCGCA 1 CAAATGCCTTCGGGA-CTTAGCCCGGATTAGTAACTCGCA * * 48211783 CTAAATGCCGTC-GGA-TTAGACTGCCGGATTAGTCACTACGCA 1 C-AAATGCCTTCGGGACTTAG-C--CCGGATTAGTAACT-CGCA 48211825 CAAA-GCCTTCGGGACTTAGCCCGGATTA 1 CAAATGCCTTCGGGACTTAGCCCGGATTA 48211853 TCATCCGAAT Statistics Matches: 130, Mismatches: 6, Indels: 26 0.80 0.04 0.16 Matches are distributed among these distances: 37 4 0.03 38 18 0.14 39 26 0.20 40 36 0.28 41 35 0.27 42 11 0.08 ACGTcount: A:0.26, C:0.27, G:0.23, T:0.23 Consensus pattern (39 bp): CAAATGCCTTCGGGACTTAGCCCGGATTAGTAACTCGCA Found at i:48211764 original size:80 final size:80 Alignment explanation
Indices: 48211662--48211850 Score: 214 Period size: 79 Copynumber: 2.4 Consensus size: 80 48211652 TAGCTACCAT * 48211662 GCTCAAATGCCTTCGGGACTTAGCCCGGATAAGT-ACGTAC-CACGAAATGCCTTCGGGACTTA- 1 GCTCAAATGCCTTCGGGACTTAGCCCGGATAAGTAAC-T-CGCACGAAATGCCGTC-GGA-TTAG 48211724 A-GCCCGGATTAGTAACT-C 62 ACG-CCGGATTAGTAACTAC * * 48211742 GCTCAAATGCCTTC-GGATCTTAG-CCGGATTAGTAACTCGCACTAAATGCCGTCGGATTAGACT 1 GCTCAAATGCCTTCGGGA-CTTAGCCCGGATAAGTAACTCGCACGAAATGCCGTCGGATTAGAC- * 48211805 GCCGGATTAGTCACTAC 64 GCCGGATTAGTAACTAC * 48211822 GCACAAA-GCCTTCGGGACTTAGCCCGGAT 1 GCTCAAATGCCTTCGGGACTTAGCCCGGAT 48211851 TATCATCCGA Statistics Matches: 95, Mismatches: 5, Indels: 18 0.81 0.04 0.15 Matches are distributed among these distances: 77 3 0.03 78 5 0.05 79 49 0.52 80 38 0.40 ACGTcount: A:0.25, C:0.28, G:0.24, T:0.23 Consensus pattern (80 bp): GCTCAAATGCCTTCGGGACTTAGCCCGGATAAGTAACTCGCACGAAATGCCGTCGGATTAGACGC CGGATTAGTAACTAC Found at i:48213877 original size:29 final size:29 Alignment explanation
Indices: 48213849--48213980 Score: 210 Period size: 29 Copynumber: 4.6 Consensus size: 29 48213839 CCTCCGAGCT ** * * * 48213849 CGCACACCCAGTGCCGTATTTTTCCAGCT 1 CGCACACTTAGTGCCATATATTTCCAGCA * 48213878 TGCACACTTAGTGCCATATATTTCCAGCA 1 CGCACACTTAGTGCCATATATTTCCAGCA 48213907 CGCACACTTAGTGCCATATATTTCCAGCA 1 CGCACACTTAGTGCCATATATTTCCAGCA 48213936 CGCACACTTAGTGCCATATATTTCCAGCA 1 CGCACACTTAGTGCCATATATTTCCAGCA 48213965 CGCACACTTAGTGCCA 1 CGCACACTTAGTGCCA 48213981 ATCTCGTCAC Statistics Matches: 96, Mismatches: 7, Indels: 0 0.93 0.07 0.00 Matches are distributed among these distances: 29 96 1.00 ACGTcount: A:0.25, C:0.33, G:0.15, T:0.27 Consensus pattern (29 bp): CGCACACTTAGTGCCATATATTTCCAGCA Found at i:48213911 original size:87 final size:86 Alignment explanation
Indices: 48213791--48213980 Score: 204 Period size: 87 Copynumber: 2.2 Consensus size: 86 48213781 TACTCGATTT * * * 48213791 CGCACACTTAGTGCCACGTAATTTAAGCCCGCACACACAGTGCCATA-CCCTCCGAGCTCGCACA 1 CGCACACTTAGTGCCAC-TAATTTAAGCACGCACACACAGTGCCATATACCTCC-AGCACGCACA * * * 48213855 CCCAGTGCCGTATTTTTCCAGCT 64 CCCAGTGCCATATATTTCCAGCA * * ** ** 48213878 TGCACACTTAGTGCCA-TATATTTCCAGCACGCACACTTAGTGCCATATATTTCCAGCACGCACA 1 CGCACACTTAGTGCCACTA-ATTT-AAGCACGCACACACAGTGCCATATACCTCCAGCACGCACA ** 48213942 CTTAGTGCCATATATTTCCAGCA 64 CCCAGTGCCATATATTTCCAGCA 48213965 CGCACACTTAGTGCCA 1 CGCACACTTAGTGCCA 48213981 ATCTCGTCAC Statistics Matches: 85, Mismatches: 15, Indels: 6 0.80 0.14 0.06 Matches are distributed among these distances: 85 2 0.02 86 4 0.05 87 76 0.89 88 3 0.04 ACGTcount: A:0.25, C:0.34, G:0.16, T:0.25 Consensus pattern (86 bp): CGCACACTTAGTGCCACTAATTTAAGCACGCACACACAGTGCCATATACCTCCAGCACGCACACC CAGTGCCATATATTTCCAGCA Found at i:48221853 original size:29 final size:29 Alignment explanation
Indices: 48221825--48221956 Score: 210 Period size: 29 Copynumber: 4.6 Consensus size: 29 48221815 CCTCCGAGCT ** * * * 48221825 CGCACACCCAGTGCCGTATTTTTCCAGCT 1 CGCACACTTAGTGCCATATATTTCCAGCA * 48221854 TGCACACTTAGTGCCATATATTTCCAGCA 1 CGCACACTTAGTGCCATATATTTCCAGCA 48221883 CGCACACTTAGTGCCATATATTTCCAGCA 1 CGCACACTTAGTGCCATATATTTCCAGCA 48221912 CGCACACTTAGTGCCATATATTTCCAGCA 1 CGCACACTTAGTGCCATATATTTCCAGCA 48221941 CGCACACTTAGTGCCA 1 CGCACACTTAGTGCCA 48221957 ATCTCGTCAC Statistics Matches: 96, Mismatches: 7, Indels: 0 0.93 0.07 0.00 Matches are distributed among these distances: 29 96 1.00 ACGTcount: A:0.25, C:0.33, G:0.15, T:0.27 Consensus pattern (29 bp): CGCACACTTAGTGCCATATATTTCCAGCA Found at i:48221867 original size:87 final size:87 Alignment explanation
Indices: 48221767--48221956 Score: 206 Period size: 87 Copynumber: 2.2 Consensus size: 87 48221757 TACTCGATTT * * * 48221767 CGCACACTTAGTGCCACGTA-ATTT-AAGCCCGCACACACAGTGCCATA-CCCTCCGAGCTCGCA 1 CGCACACTTAGTGCCA--TATATTTCAAGCACGCACACACAGTGCCATATACCTCC-AGCACGCA * * * 48221829 CACCCAGTGCCGTATTTTTCCAGCT 63 CACCCAGTGCCATATATTTCCAGCA * * ** ** 48221854 TGCACACTTAGTGCCATATATTTCCAGCACGCACACTTAGTGCCATATATTTCCAGCACGCACAC 1 CGCACACTTAGTGCCATATATTTCAAGCACGCACACACAGTGCCATATACCTCCAGCACGCACAC ** 48221919 TTAGTGCCATATATTTCCAGCA 66 CCAGTGCCATATATTTCCAGCA 48221941 CGCACACTTAGTGCCA 1 CGCACACTTAGTGCCA 48221957 ATCTCGTCAC Statistics Matches: 85, Mismatches: 15, Indels: 6 0.80 0.14 0.06 Matches are distributed among these distances: 85 2 0.02 86 4 0.05 87 76 0.89 88 3 0.04 ACGTcount: A:0.25, C:0.34, G:0.16, T:0.25 Consensus pattern (87 bp): CGCACACTTAGTGCCATATATTTCAAGCACGCACACACAGTGCCATATACCTCCAGCACGCACAC CCAGTGCCATATATTTCCAGCA Found at i:48236615 original size:30 final size:30 Alignment explanation
Indices: 48236581--48236641 Score: 77 Period size: 30 Copynumber: 2.0 Consensus size: 30 48236571 TCCTTAACTC 48236581 AAACTTTGGAAAAATTACAATTTTGCCCCT 1 AAACTTTGGAAAAATTACAATTTTGCCCCT * * * * * 48236611 AAACTTTTGCATATTTACACTTTTGCCCCT 1 AAACTTTGGAAAAATTACAATTTTGCCCCT 48236641 A 1 A 48236642 GGCTCGGGAA Statistics Matches: 26, Mismatches: 5, Indels: 0 0.84 0.16 0.00 Matches are distributed among these distances: 30 26 1.00 ACGTcount: A:0.31, C:0.23, G:0.08, T:0.38 Consensus pattern (30 bp): AAACTTTGGAAAAATTACAATTTTGCCCCT Found at i:48238990 original size:2 final size:2 Alignment explanation
Indices: 48238983--48239024 Score: 84 Period size: 2 Copynumber: 21.0 Consensus size: 2 48238973 GGCCGAATAC 48238983 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT 1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT 48239025 TACCGAAGCA Statistics Matches: 40, Mismatches: 0, Indels: 0 1.00 0.00 0.00 Matches are distributed among these distances: 2 40 1.00 ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50 Consensus pattern (2 bp): AT Found at i:48239873 original size:43 final size:43 Alignment explanation
Indices: 48239792--48239877 Score: 120 Period size: 43 Copynumber: 2.0 Consensus size: 43 48239782 AAATTGTACA * ** 48239792 ATGCCAATGTCCCAGACGTGGTCTTACATGTAGTCACATATCG 1 ATGCCAATGTCCCAGACATGGTCTTACATGTAAACACATATCG * 48239835 ATGCCACTGTCCCAGACATGGTCTTAC-TCGTAAACACATATCG 1 ATGCCAATGTCCCAGACATGGTCTTACAT-GTAAACACATATCG 48239878 GAAGCACAAC Statistics Matches: 38, Mismatches: 4, Indels: 2 0.86 0.09 0.05 Matches are distributed among these distances: 42 1 0.03 43 37 0.97 ACGTcount: A:0.27, C:0.28, G:0.19, T:0.27 Consensus pattern (43 bp): ATGCCAATGTCCCAGACATGGTCTTACATGTAAACACATATCG Found at i:48244135 original size:6 final size:6 Alignment explanation
Indices: 48244124--48244328 Score: 215 Period size: 6 Copynumber: 33.8 Consensus size: 6 48244114 AACCAAAATG * 48244124 AGAATC AGAATC AGAATC AGTAA-C AAAATC AGAATC AGAATC AGAATC 1 AGAATC AGAATC AGAATC AG-AATC AGAATC AGAATC AGAATC AGAATC * * * * 48244172 AAAATT AGTAA-C AGAATC AGAATC AGAATC AGAATC AGAATT ACGTGA-C 1 AGAATC AG-AATC AGAATC AGAATC AGAATC AGAATC AGAATC A-G-AATC * * 48244221 AGAATC AGAATC AGAATC AGTAA-C AGAATC AGAATC AGAATC AGTATT 1 AGAATC AGAATC AGAATC AG-AATC AGAATC AGAATC AGAATC AGAATC * * 48244269 AGTAA-C AGAATC AGAATC AGAATC AGAATC AGAATT AG-GTGAC AGAATC 1 AG-AATC AGAATC AGAATC AGAATC AGAATC AGAATC AGAAT--C AGAATC 48244318 AGAATC AGAAT 1 AGAATC AGAAT 48244329 GTGAATGCAA Statistics Matches: 167, Mismatches: 18, Indels: 28 0.78 0.08 0.13 Matches are distributed among these distances: 5 10 0.06 6 144 0.86 7 11 0.07 8 2 0.01 ACGTcount: A:0.49, C:0.15, G:0.17, T:0.19 Consensus pattern (6 bp): AGAATC Found at i:48244228 original size:91 final size:91 Alignment explanation
Indices: 48244129--48244328 Score: 332 Period size: 91 Copynumber: 2.2 Consensus size: 91 48244119 AAATGAGAAT 48244129 CAGAATCAGAATCAGTAA-CA-AAATCAGAATCAGAATCAGAATCAAAATTAGTAACAGAATCAG 1 CAGAATCAGAATCAG-AATCAGAAA-CAGAATCAGAATCAGAATCAAAATTAGTAACAGAATCAG 48244192 AATCAGAATCAGAATCAGAATTACGTGA 64 AATCAGAATCAGAATCAGAATTACGTGA * ** 48244220 CAGAATCAGAATCAGAATCAGTAACAGAATCAGAATCAGAATCAGTATTAGTAACAGAATCAGAA 1 CAGAATCAGAATCAGAATCAGAAACAGAATCAGAATCAGAATCAAAATTAGTAACAGAATCAGAA * 48244285 TCAGAATCAGAATCAGAATTAGGTGA 66 TCAGAATCAGAATCAGAATTACGTGA 48244311 CAGAATCAGAATCAGAAT 1 CAGAATCAGAATCAGAAT 48244329 GTGAATGCAA Statistics Matches: 103, Mismatches: 4, Indels: 4 0.93 0.04 0.04 Matches are distributed among these distances: 90 2 0.02 91 99 0.96 92 2 0.02 ACGTcount: A:0.49, C:0.15, G:0.17, T:0.19 Consensus pattern (91 bp): CAGAATCAGAATCAGAATCAGAAACAGAATCAGAATCAGAATCAAAATTAGTAACAGAATCAGAA TCAGAATCAGAATCAGAATTACGTGA Found at i:48244483 original size:27 final size:26 Alignment explanation
Indices: 48244446--48244511 Score: 87 Period size: 27 Copynumber: 2.5 Consensus size: 26 48244436 AGCATGGCTG * 48244446 CCAGAACAGATATCGTGACAGAGTCA 1 CCAGAACAGATATCGTGACAGAGCCA * * 48244472 CCAGATACAGATATTGTGGCAGAGCCA 1 CCAGA-ACAGATATCGTGACAGAGCCA 48244499 CCAGAATCAGATA 1 CCAGAA-CAGATA 48244512 ATGTGGCAAA Statistics Matches: 35, Mismatches: 3, Indels: 3 0.85 0.07 0.07 Matches are distributed among these distances: 26 6 0.17 27 29 0.83 ACGTcount: A:0.38, C:0.23, G:0.23, T:0.17 Consensus pattern (26 bp): CCAGAACAGATATCGTGACAGAGCCA Found at i:48244516 original size:27 final size:27 Alignment explanation
Indices: 48244446--48244519 Score: 82 Period size: 27 Copynumber: 2.8 Consensus size: 27 48244436 AGCATGGCTG * * 48244446 CCAGAA-CAGAT-ATCGTGACAGAGTCA 1 CCAGAATCAGATAAT-GTGGCAGAGCCA * 48244472 CCAG-ATACAGATATTGTGGCAGAGCCA 1 CCAGAAT-CAGATAATGTGGCAGAGCCA 48244499 CCAGAATCAGATAATGTGGCA 1 CCAGAATCAGATAATGTGGCA 48244520 AACCCACCTA Statistics Matches: 40, Mismatches: 4, Indels: 7 0.78 0.08 0.14 Matches are distributed among these distances: 25 1 0.03 26 4 0.10 27 32 0.80 28 3 0.08 ACGTcount: A:0.36, C:0.22, G:0.24, T:0.18 Consensus pattern (27 bp): CCAGAATCAGATAATGTGGCAGAGCCA Found at i:48244526 original size:27 final size:27 Alignment explanation
Indices: 48244470--48244527 Score: 73 Period size: 27 Copynumber: 2.1 Consensus size: 27 48244460 GTGACAGAGT * * * 48244470 CACCAGATACAGATATTGTGGCAGAGC 1 CACCAGATACAGATAATGTGGCAAACC 48244497 CACCAGA-ATCAGATAATGTGGCAAACC 1 CACCAGATA-CAGATAATGTGGCAAACC 48244524 CACC 1 CACC 48244528 TAACAGAATA Statistics Matches: 27, Mismatches: 3, Indels: 2 0.84 0.09 0.06 Matches are distributed among these distances: 26 1 0.04 27 26 0.96 ACGTcount: A:0.36, C:0.28, G:0.21, T:0.16 Consensus pattern (27 bp): CACCAGATACAGATAATGTGGCAAACC Found at i:48244847 original size:27 final size:28 Alignment explanation
Indices: 48244809--48244889 Score: 114 Period size: 27 Copynumber: 3.0 Consensus size: 28 48244799 CGATCGATCA * * 48244809 ACAGATATTGTGACAGAGTCACCA-AAT 1 ACAGATATTGTGGCAGAGCCACCAGAAT 48244836 ACAGATATTGTGGCAGAGCCACCAGAAT 1 ACAGATATTGTGGCAGAGCCACCAGAAT 48244864 --AGATATTTGTGGCAGAGCCACCAGAA 1 ACAGATA-TTGTGGCAGAGCCACCAGAA 48244890 CGCTTCCTCC Statistics Matches: 50, Mismatches: 2, Indels: 4 0.89 0.04 0.07 Matches are distributed among these distances: 26 5 0.10 27 42 0.84 28 3 0.06 ACGTcount: A:0.37, C:0.20, G:0.23, T:0.20 Consensus pattern (28 bp): ACAGATATTGTGGCAGAGCCACCAGAAT Found at i:48245191 original size:54 final size:54 Alignment explanation
Indices: 48245089--48245276 Score: 216 Period size: 54 Copynumber: 3.5 Consensus size: 54 48245079 GGGGCAAAAT * * * * * 48245089 GGTAATTTTACCCCAGAAGGGTATCTCGGTAATTCTACCCTACAGGGGTATTTC 1 GGTAATTCTACCCTACAAGGGTATTTCGATAATTCTACCCTACAGGGGTATTTC * * 48245143 GGTATTTCTACCCTACAAGGGTATTTCGATAATTCTACCCTACAGGGGTATTTT 1 GGTAATTCTACCCTACAAGGGTATTTCGATAATTCTACCCTACAGGGGTATTTC * ** ** * 48245197 GGTAATTCTATCCTGTAAGGGTATTTC-AGTAATTCTACCCTATTGGGGTGTTTC 1 GGTAATTCTACCCTACAAGGGTATTTCGA-TAATTCTACCCTACAGGGGTATTTC * * * 48245251 AGAAATTCTACCCTACAGGGGTATTT 1 GGTAATTCTACCCTACAAGGGTATTT 48245277 TAGTAATTTC Statistics Matches: 112, Mismatches: 21, Indels: 2 0.83 0.16 0.01 Matches are distributed among these distances: 53 1 0.01 54 111 0.99 ACGTcount: A:0.24, C:0.20, G:0.21, T:0.36 Consensus pattern (54 bp): GGTAATTCTACCCTACAAGGGTATTTCGATAATTCTACCCTACAGGGGTATTTC Found at i:48245233 original size:81 final size:81 Alignment explanation
Indices: 48245107--48245284 Score: 223 Period size: 81 Copynumber: 2.2 Consensus size: 81 48245097 TACCCCAGAA * * * * * 48245107 GGGTATCTCGGTAATTCTACCCTACAGGGGTATTTCGGTATTTCTACCCTACAAGGGTATTTC-G 1 GGGTATTTTGGTAATTCTACCCTACAAGGGTATTTCAGTAATTCTACCCTACAAGGGTATTTCAG 48245171 ATAATTCTACCCTACAG 66 A-AATTCTACCCTACAG * ** *** * 48245188 GGGTATTTTGGTAATTCTATCCTGTAAGGGTATTTCAGTAATTCTACCCTATTGGGGTGTTTCAG 1 GGGTATTTTGGTAATTCTACCCTACAAGGGTATTTCAGTAATTCTACCCTACAAGGGTATTTCAG 48245253 AAATTCTACCCTACAG 66 AAATTCTACCCTACAG * 48245269 GGGTATTTTAGTAATT 1 GGGTATTTTGGTAATT 48245285 TCACAATTAA Statistics Matches: 83, Mismatches: 13, Indels: 2 0.85 0.13 0.02 Matches are distributed among these distances: 81 81 0.98 82 2 0.02 ACGTcount: A:0.24, C:0.19, G:0.21, T:0.37 Consensus pattern (81 bp): GGGTATTTTGGTAATTCTACCCTACAAGGGTATTTCAGTAATTCTACCCTACAAGGGTATTTCAG AAATTCTACCCTACAG Found at i:48245284 original size:27 final size:27 Alignment explanation
Indices: 48245107--48245284 Score: 196 Period size: 27 Copynumber: 6.6 Consensus size: 27 48245097 TACCCCAGAA * * 48245107 GGGTATCTCGGTAATTCTACCCTACAG 1 GGGTATTTCAGTAATTCTACCCTACAG * * * 48245134 GGGTATTTCGGTATTTCTACCCTACAA 1 GGGTATTTCAGTAATTCTACCCTACAG 48245161 GGGTATTTC-GATAATTCTACCCTACAG 1 GGGTATTTCAG-TAATTCTACCCTACAG ** * ** * 48245188 GGGTATTTTGGTAATTCTATCCTGTAA 1 GGGTATTTCAGTAATTCTACCCTACAG ** 48245215 GGGTATTTCAGTAATTCTACCCTATTG 1 GGGTATTTCAGTAATTCTACCCTACAG * * 48245242 GGGTGTTTCAGAAATTCTACCCTACAG 1 GGGTATTTCAGTAATTCTACCCTACAG * 48245269 GGGTATTTTAGTAATT 1 GGGTATTTCAGTAATT 48245285 TCACAATTAA Statistics Matches: 126, Mismatches: 23, Indels: 4 0.82 0.15 0.03 Matches are distributed among these distances: 26 1 0.01 27 124 0.98 28 1 0.01 ACGTcount: A:0.24, C:0.19, G:0.21, T:0.37 Consensus pattern (27 bp): GGGTATTTCAGTAATTCTACCCTACAG Found at i:48245326 original size:27 final size:27 Alignment explanation
Indices: 48245294--48245805 Score: 586 Period size: 27 Copynumber: 19.0 Consensus size: 27 48245284 TTCACAATTA * 48245294 AGGGTAAAACGGTAATTCTATAAATCG 1 AGGGTAAAACGGTAATTCTGTAAATCG ** * 48245321 AGGGTAAAACCATAATTTTGTAAA-CTG 1 AGGGTAAAACGGTAATTCTGTAAATC-G * * * 48245348 AGGGT-AAACTAGTAATTTTGTAAATCA 1 AGGGTAAAAC-GGTAATTCTGTAAATCG * ** * 48245375 AGGGTAAAACGGTAATTTTACAAAACG 1 AGGGTAAAACGGTAATTCTGTAAATCG * 48245402 AGGGTAAAACGATAATTCTGTAAAT-G 1 AGGGTAAAACGGTAATTCTGTAAATCG * * 48245428 AGGGTAAAACAGTAATTCTATAAA-CTG 1 AGGGTAAAACGGTAATTCTGTAAATC-G * 48245455 AGGGTAAAACGGTAATTTTGTAAATCG 1 AGGGTAAAACGGTAATTCTGTAAATCG * * * * 48245482 AGGGTGAAACAGTAATTCTATAAATTG 1 AGGGTAAAACGGTAATTCTGTAAATCG * * 48245509 AGGGTAAAACGGTAATTATATAAATCG 1 AGGGTAAAACGGTAATTCTGTAAATCG * ** 48245536 AGGGTAAAACGGTAATTTTAAAAATCG 1 AGGGTAAAACGGTAATTCTGTAAATCG 48245563 AGGGTAAAACGGTAA-TCTTGTAAATCG 1 AGGGTAAAACGGTAATTC-TGTAAATCG ** 48245590 AGGGTAAAACAATAATTCTGTAAA-CTG 1 AGGGTAAAACGGTAATTCTGTAAATC-G * * 48245617 AGGGTAAAATGGTAATTCTGTAAATAG 1 AGGGTAAAACGGTAATTCTGTAAATCG * * 48245644 AGGGTAAAACAGTAATTCTGTAAATTG 1 AGGGTAAAACGGTAATTCTGTAAATCG * 48245671 AGGGTAAAACGGTAATTCTATAAATCG 1 AGGGTAAAACGGTAATTCTGTAAATCG * * 48245698 AGGGTAAAACGGTAATTTTGAAAATCG 1 AGGGTAAAACGGTAATTCTGTAAATCG * * ** 48245725 AGGGTAAAACCGTAATTTTAAAAATCG 1 AGGGTAAAACGGTAATTCTGTAAATCG * * 48245752 AGAGTAAAACGGTAATTCTGTAAATCA 1 AGGGTAAAACGGTAATTCTGTAAATCG 48245779 AGGGTAAAACGGTAATTCTGTAAATCG 1 AGGGTAAAACGGTAATTCTGTAAATCG 48245806 GGAGTACTTT Statistics Matches: 412, Mismatches: 62, Indels: 22 0.83 0.12 0.04 Matches are distributed among these distances: 26 29 0.07 27 375 0.91 28 8 0.02 ACGTcount: A:0.42, C:0.09, G:0.22, T:0.27 Consensus pattern (27 bp): AGGGTAAAACGGTAATTCTGTAAATCG Found at i:48247824 original size:6 final size:6 Alignment explanation
Indices: 48247813--48247985 Score: 141 Period size: 6 Copynumber: 28.8 Consensus size: 6 48247803 AACCAAAATG * 48247813 AGAATC AGAATC AGTAA-C AGAATC AGAATC AGAATC A-ATATT AGTAA-C 1 AGAATC AGAATC AG-AATC AGAATC AGAATC AGAATC AGA-ATC AG-AATC 48247861 AGAATC AGAATC AGAATTAC ATG-A-C AGAATC AGAATC AGAATC AGTAA-C 1 AGAATC AGAATC AGAA-T-C A-GAATC AGAATC AGAATC AGAATC AG-AATC * * 48247910 AGAATC AGAATC AGAATC AGTATT AGTAA-C AGAAT- AGAAT- AGAATC 1 AGAATC AGAATC AGAATC AGAATC AG-AATC AGAATC AGAATC AGAATC * * 48247956 AGAATT AG-GTGAC AGAATC AGAATC AGAAT 1 AGAATC AGAAT--C AGAATC AGAATC AGAAT 48247986 GTGAATGCAA Statistics Matches: 138, Mismatches: 10, Indels: 38 0.74 0.05 0.20 Matches are distributed among these distances: 4 1 0.01 5 23 0.17 6 99 0.72 7 9 0.07 8 5 0.04 9 1 0.01 ACGTcount: A:0.49, C:0.13, G:0.17, T:0.20 Consensus pattern (6 bp): AGAATC Done.