Tandem Repeats Finder Program written by: Gary Benson Program in Bioinformatics Boston University Version 4.09 Sequence: At_chr10 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: 95480121 ACGTcount: A:0.32, C:0.17, G:0.17, T:0.31 Warning! 2980117 characters in sequence are not A, C, G, or T File 162 of 284 Found at i:54373408 original size:16 final size:16 Alignment explanation
Indices: 54373369--54373410 Score: 57 Period size: 16 Copynumber: 2.6 Consensus size: 16 54373359 ATCGACAAAA * 54373369 GCTGAAATGCTGAAAT 1 GCTGAAAAGCTGAAAT ** 54373385 GCCAAAAAGCTGAAAT 1 GCTGAAAAGCTGAAAT 54373401 GCTGAAAAGC 1 GCTGAAAAGC 54373411 CAAAAGTTTG Statistics Matches: 21, Mismatches: 5, Indels: 0 0.81 0.19 0.00 Matches are distributed among these distances: 16 21 1.00 ACGTcount: A:0.43, C:0.17, G:0.24, T:0.17 Consensus pattern (16 bp): GCTGAAAAGCTGAAAT Found at i:54373679 original size:29 final size:29 Alignment explanation
Indices: 54373637--54373736 Score: 105 Period size: 29 Copynumber: 3.5 Consensus size: 29 54373627 TGAATGTTAC * * 54373637 TGGGCCCAACGGGCCATATAAATGTGATT 1 TGGGCCTAATGGGCCATATAAATGTGATT * * 54373666 TGGGCCTAATGGGCCATA-AACAGGTGGTT 1 TGGGCCTAATGGGCCATATAA-ATGTGATT * * * 54373695 TGGGCCTAATTGGCCATATGAATATGA-T 1 TGGGCCTAATGGGCCATATAAATGTGATT * 54373723 TGGGCTTAATGGGC 1 TGGGCCTAATGGGC 54373737 AAGATACAGG Statistics Matches: 58, Mismatches: 11, Indels: 5 0.78 0.15 0.07 Matches are distributed among these distances: 28 15 0.26 29 42 0.72 30 1 0.02 ACGTcount: A:0.25, C:0.17, G:0.31, T:0.27 Consensus pattern (29 bp): TGGGCCTAATGGGCCATATAAATGTGATT Found at i:54377328 original size:27 final size:26 Alignment explanation
Indices: 54377284--54377335 Score: 68 Period size: 27 Copynumber: 2.0 Consensus size: 26 54377274 CTCACTGCAA * 54377284 TCTGGTGGCCTCGCCACATATATCTGT 1 TCTGGTGACCTCGCCACA-ATATCTGT * * 54377311 TCTGGTGACTTCGTCACAATATCTG 1 TCTGGTGACCTCGCCACAATATCTG 54377336 GCAGCCTCAC Statistics Matches: 22, Mismatches: 3, Indels: 1 0.85 0.12 0.04 Matches are distributed among these distances: 26 7 0.32 27 15 0.68 ACGTcount: A:0.17, C:0.27, G:0.21, T:0.35 Consensus pattern (26 bp): TCTGGTGACCTCGCCACAATATCTGT Found at i:54384453 original size:47 final size:49 Alignment explanation
Indices: 54384384--54384604 Score: 214 Period size: 46 Copynumber: 4.7 Consensus size: 49 54384374 TAAGGTGCCA * * * * 54384384 ATGCCATGTCCTAGACACGGTCTTATACTGGCTCAT-ATCT-TAAGCCG 1 ATGCCATGTCCCAGACATGGTCTTACACTGGCTCATCGTCTCTAAGCCG * * 54384431 ATGCCATGTCCCAAACATGGTCTTACACTGACT-ATCGTCTCGT-AGCCG 1 ATGCCATGTCCCAGACATGGTCTTACACTGGCTCATCGTCTC-TAAGCCG * * * 54384479 ATG-CATGTCCCAGACAT-GTCTTACACTGGCT-AACGTCTCGAGGCC- 1 ATGCCATGTCCCAGACATGGTCTTACACTGGCTCATCGTCTCTAAGCCG * * * * 54384524 ATTG-CATATCCCAAACAT-GTCTTACACTAGC-CCTCGTCTC-AATGCCG 1 A-TGCCATGTCCCAGACATGGTCTTACACTGGCTCATCGTCTCTAA-GCCG 54384571 ATGCCATGTCCCAGACATGGTCTTACACTGGCTC 1 ATGCCATGTCCCAGACATGGTCTTACACTGGCTC 54384605 TCATAATATG Statistics Matches: 143, Mismatches: 20, Indels: 20 0.78 0.11 0.11 Matches are distributed among these distances: 45 2 0.01 46 62 0.43 47 57 0.40 48 20 0.14 49 2 0.01 ACGTcount: A:0.23, C:0.31, G:0.19, T:0.27 Consensus pattern (49 bp): ATGCCATGTCCCAGACATGGTCTTACACTGGCTCATCGTCTCTAAGCCG Found at i:54397852 original size:30 final size:31 Alignment explanation
Indices: 54397774--54397852 Score: 92 Period size: 30 Copynumber: 2.6 Consensus size: 31 54397764 CATAGTATCA * * 54397774 TATCTTGGGTTTCTTTA-TCCTGGATCTCTT 1 TATCTTGGATTTCTTTATTCCTGGATCTCTC * * 54397804 TAT-TCTGGATTTCTTTATTCC-GGGTTTCTC 1 TATCT-TGGATTTCTTTATTCCTGGATCTCTC 54397834 TATCTTGGATTTCTTTATT 1 TATCTTGGATTTCTTTATT 54397853 TGGTTTTCTT Statistics Matches: 42, Mismatches: 4, Indels: 6 0.81 0.08 0.12 Matches are distributed among these distances: 29 1 0.02 30 37 0.88 31 4 0.10 ACGTcount: A:0.11, C:0.18, G:0.15, T:0.56 Consensus pattern (31 bp): TATCTTGGATTTCTTTATTCCTGGATCTCTC Found at i:54397860 original size:14 final size:15 Alignment explanation
Indices: 54397783--54397862 Score: 83 Period size: 15 Copynumber: 5.4 Consensus size: 15 54397773 ATATCTTGGG * 54397783 TTTCTTTATCCTGGA 1 TTTCTTTATTCTGGA * 54397798 TCTCTTTATTCTGGA 1 TTTCTTTATTCTGGA * * 54397813 TTTCTTTATTCCGGG 1 TTTCTTTATTCTGGA * 54397828 TTTCTCTA-TCTTGGA 1 TTTCTTTATTC-TGGA * 54397843 TTTCTTTATT-TGGT 1 TTTCTTTATTCTGGA 54397857 TTTCTT 1 TTTCTT 54397863 GTTATCTTTG Statistics Matches: 53, Mismatches: 10, Indels: 5 0.78 0.15 0.07 Matches are distributed among these distances: 14 11 0.21 15 41 0.77 16 1 0.02 ACGTcount: A:0.10, C:0.17, G:0.14, T:0.59 Consensus pattern (15 bp): TTTCTTTATTCTGGA Found at i:54403068 original size:50 final size:50 Alignment explanation
Indices: 54402955--54403189 Score: 260 Period size: 50 Copynumber: 4.7 Consensus size: 50 54402945 CTGGTACGCA * ** 54402955 TAGTAGCCTGCACTTAGTACTACACATGTGACC-AAAAATCTGATACACG 1 TAGTAGCCTGCACTTAGTACTACACACGTGACCTAACTATCTGATACACG * * * 54403004 TAGTAGGCTACACTTAGTACTACACACGTGACCTAACCATCTGATACACG 1 TAGTAGCCTGCACTTAGTACTACACACGTGACCTAACTATCTGATACACG * * * * * * ** * 54403054 TAGTAGACTGCACTTAGTACTACACACGTGA-TTGAAGTTGTCGGGTATGCA 1 TAGTAGCCTGCACTTAGTACTACACACGTGACCT-AA-CTATCTGATACACG * * 54403105 TAGTAGCCTGCACTTAGTACTACACATGTGACCTAACTATCTGGTACACG 1 TAGTAGCCTGCACTTAGTACTACACACGTGACCTAACTATCTGATACACG * * 54403155 TAGTATCCTGAACTTAGTACTACACACGTG-CCTAA 1 TAGTAGCCTGCACTTAGTACTACACACGTGACCTAA 54403190 AACCATCTTA Statistics Matches: 154, Mismatches: 28, Indels: 8 0.81 0.15 0.04 Matches are distributed among these distances: 49 36 0.23 50 80 0.52 51 37 0.24 52 1 0.01 ACGTcount: A:0.31, C:0.24, G:0.18, T:0.27 Consensus pattern (50 bp): TAGTAGCCTGCACTTAGTACTACACACGTGACCTAACTATCTGATACACG Found at i:54403208 original size:101 final size:99 Alignment explanation
Indices: 54402942--54403234 Score: 293 Period size: 101 Copynumber: 2.9 Consensus size: 99 54402932 TAACTGAAGT * * * * 54402942 TATCTGGTACGCATAGTAGCCTGCACTTAGTACTACACATGTGACC-AAAAATCTGATACACGTA 1 TATCTGGTACACGTAGTAGCCTGCACTTAGTACTACACACGTG-CCTAAAAATCTGATACACATA * * * 54403006 GTAGGCTACACTTAGTACTACACACGTGACCTAAC 65 GTAGCCTGCACTTAGTACTACACATGTGACCTAAC * * * ** *** * * ** 54403041 CATCTGATACACGTAGTAGACTGCACTTAGTACTACACACGTGATTGAAGTTGTCGGGTATGCAT 1 TATCTGGTACACGTAGTAGCCTGCACTTAGTACTACACACGTGCCT-AA-AAATCTGATACACAT 54403106 AGTAGCCTGCACTTAGTACTACACATGTGACCTAAC 64 AGTAGCCTGCACTTAGTACTACACATGTGACCTAAC * * * * 54403142 TATCTGGTACACGTAGTATCCTGAACTTAGTACTACACACGTGCCTAAAACCATCTTAAACACAT 1 TATCTGGTACACGTAGTAGCCTGCACTTAGTACTACACACGTGCCTAAAA--ATCTGATACACAT * * * 54403207 AG-CGCCTGCACATAGTACTATACATGTG 64 AGTAGCCTGCACTTAGTACTACACATGTG 54403235 TTCTCACAAT Statistics Matches: 151, Mismatches: 38, Indels: 9 0.76 0.19 0.05 Matches are distributed among these distances: 99 37 0.25 100 27 0.18 101 87 0.58 ACGTcount: A:0.31, C:0.25, G:0.18, T:0.27 Consensus pattern (99 bp): TATCTGGTACACGTAGTAGCCTGCACTTAGTACTACACACGTGCCTAAAAATCTGATACACATAG TAGCCTGCACTTAGTACTACACATGTGACCTAAC Found at i:54405951 original size:101 final size:99 Alignment explanation
Indices: 54405768--54405963 Score: 275 Period size: 101 Copynumber: 2.0 Consensus size: 99 54405758 AGCCGAAGCT * * * * * 54405768 ATCTGGTACGCATAGTAGCCTGCACTTAGTACTATACATGCGACCAATTATCCGGTACACGTAGT 1 ATCTGGTACACATAGTAGCCTGCACTTAGTACTACACACGCGACCAATTATCAGGTACACATAGT * 54405833 AGCCTACACTTAGTACTACACACGTGACCTAACC 66 AGCCTACACTTAGTACTACACACATGACCTAACC * * * * 54405867 ATCTGGTACACGTAGTAGCCTGCACTTAGTACTACACACGTGATCGAAGTTATCAGGTACGCATA 1 ATCTGGTACACATAGTAGCCTGCACTTAGTACTACACACGCGA-CCAA-TTATCAGGTACACATA * 54405932 GTAGCCTGCACTTAGTACTACACACATGACCT 64 GTAGCCTACACTTAGTACTACACACATGACCT 54405964 CACAATAGCT Statistics Matches: 84, Mismatches: 11, Indels: 2 0.87 0.11 0.02 Matches are distributed among these distances: 99 38 0.45 100 3 0.04 101 43 0.51 ACGTcount: A:0.29, C:0.27, G:0.18, T:0.26 Consensus pattern (99 bp): ATCTGGTACACATAGTAGCCTGCACTTAGTACTACACACGCGACCAATTATCAGGTACACATAGT AGCCTACACTTAGTACTACACACATGACCTAACC Found at i:54415951 original size:21 final size:19 Alignment explanation
Indices: 54415913--54415951 Score: 51 Period size: 21 Copynumber: 1.9 Consensus size: 19 54415903 CTGTAATTTG * 54415913 AAAATTTTCTATGTTTTCC 1 AAAATTTTCTAAGTTTTCC 54415932 AAAATTTTTCCTAAGTTTTC 1 AAAA-TTTT-CTAAGTTTTC 54415952 AGTTTAGTCC Statistics Matches: 17, Mismatches: 1, Indels: 2 0.85 0.05 0.10 Matches are distributed among these distances: 19 4 0.24 20 4 0.24 21 9 0.53 ACGTcount: A:0.28, C:0.15, G:0.05, T:0.51 Consensus pattern (19 bp): AAAATTTTCTAAGTTTTCC Found at i:54418477 original size:40 final size:39 Alignment explanation
Indices: 54418426--54418572 Score: 215 Period size: 39 Copynumber: 3.8 Consensus size: 39 54418416 TAAAAACATG * * * * * 54418426 TATTAAAGATGTCCAAACTATGACATAATTAAAAAAATCC 1 TATTAATGATGTTCAAATTATGACATAATT-AAAAACTCA * * 54418466 TATTAATGATGTTTAAATTATGACATAATTAAAAACTCT 1 TATTAATGATGTTCAAATTATGACATAATTAAAAACTCA 54418505 TATTAATGATGTTCAAATTATGACATAATTAAAAACTCA 1 TATTAATGATGTTCAAATTATGACATAATTAAAAACTCA 54418544 TATTAATGATGTT-AAATTATGACATAATT 1 TATTAATGATGTTCAAATTATGACATAATT 54418573 TGTAACACCC Statistics Matches: 99, Mismatches: 8, Indels: 2 0.91 0.07 0.02 Matches are distributed among these distances: 38 16 0.16 39 57 0.58 40 26 0.26 ACGTcount: A:0.46, C:0.10, G:0.08, T:0.37 Consensus pattern (39 bp): TATTAATGATGTTCAAATTATGACATAATTAAAAACTCA Found at i:54418498 original size:79 final size:77 Alignment explanation
Indices: 54418415--54418572 Score: 228 Period size: 79 Copynumber: 2.0 Consensus size: 77 54418405 TTAAACACAC * 54418415 TTAAAAACAT-GTATTAAAGATGTCCAAACTATGACATAATTAAAAAAATCCTATTAATGATGTT 1 TTAAAAAC-TCGTATTAAAGATGTCCAAACTATGACATAATT-AAAAAATCATATTAATGATG-T 54418479 TAAATTATGACATAA 63 TAAATTATGACATAA * * * * * 54418494 TTAAAAACTCTTATTAATGATGTTCAAATTATGACATAATTAAAAACTCATATTAATGATGTTAA 1 TTAAAAACTCGTATTAAAGATGTCCAAACTATGACATAATTAAAAAATCATATTAATGATGTTAA 54418559 ATTATGACATAA 66 ATTATGACATAA 54418571 TT 1 TT 54418573 TGTAACACCC Statistics Matches: 72, Mismatches: 6, Indels: 4 0.88 0.07 0.05 Matches are distributed among these distances: 77 18 0.25 78 19 0.26 79 35 0.49 ACGTcount: A:0.46, C:0.09, G:0.08, T:0.36 Consensus pattern (77 bp): TTAAAAACTCGTATTAAAGATGTCCAAACTATGACATAATTAAAAAATCATATTAATGATGTTAA ATTATGACATAA Found at i:54420607 original size:29 final size:27 Alignment explanation
Indices: 54420589--54420658 Score: 113 Period size: 27 Copynumber: 2.6 Consensus size: 27 54420579 ATATTAAGTC 54420589 CGCACACTCAGTGCTATATAATCAACT 1 CGCACACTCAGTGCTATATAATCAACT * 54420616 CGCACACTTAGTGCTATATAATCAAACT 1 CGCACACTCAGTGCTATATAATC-AACT * 54420644 CGCACACTTAGTGCT 1 CGCACACTCAGTGCT 54420659 GTACAATTTA Statistics Matches: 41, Mismatches: 1, Indels: 1 0.95 0.02 0.02 Matches are distributed among these distances: 27 22 0.54 28 19 0.46 ACGTcount: A:0.31, C:0.29, G:0.13, T:0.27 Consensus pattern (27 bp): CGCACACTCAGTGCTATATAATCAACT Found at i:54420652 original size:28 final size:28 Alignment explanation
Indices: 54420589--54420686 Score: 135 Period size: 28 Copynumber: 3.5 Consensus size: 28 54420579 ATATTAAGTC * 54420589 CGCACACTCAGTGCTATATAATC-AACT 1 CGCACACTTAGTGCTATATAATCAAACT 54420616 CGCACACTTAGTGCTATATAATCAAACT 1 CGCACACTTAGTGCTATATAATCAAACT * * * * 54420644 CGCACACTTAGTGCTGTACAATTTAAACC 1 CGCACACTTAGTGCTATATAA-TCAAACT 54420673 CGCACACTTAGTGC 1 CGCACACTTAGTGC 54420687 CAATCTCATG Statistics Matches: 64, Mismatches: 5, Indels: 2 0.90 0.07 0.03 Matches are distributed among these distances: 27 22 0.34 28 23 0.36 29 19 0.30 ACGTcount: A:0.32, C:0.29, G:0.13, T:0.27 Consensus pattern (28 bp): CGCACACTTAGTGCTATATAATCAAACT Found at i:54430479 original size:14 final size:14 Alignment explanation
Indices: 54430460--54430488 Score: 58 Period size: 14 Copynumber: 2.1 Consensus size: 14 54430450 CGACTTTAAC 54430460 ACATATTTATATAT 1 ACATATTTATATAT 54430474 ACATATTTATATAT 1 ACATATTTATATAT 54430488 A 1 A 54430489 TATCCCTTTC Statistics Matches: 15, Mismatches: 0, Indels: 0 1.00 0.00 0.00 Matches are distributed among these distances: 14 15 1.00 ACGTcount: A:0.45, C:0.07, G:0.00, T:0.48 Consensus pattern (14 bp): ACATATTTATATAT Found at i:54434043 original size:39 final size:40 Alignment explanation
Indices: 54433946--54434127 Score: 201 Period size: 40 Copynumber: 4.6 Consensus size: 40 54433936 AATGATGTCT * * * * * 54433946 GGGCTAAGTCCCAAAGGC-TTTGTGCTAAGTGACTATATCC 1 GGGCTAAGTCCCGAAGGCATTTGTGC-GAGTTACTAAATTC * * 54433986 GGACTAAGAT-CCGAAGGCATTTGTGCGAGTTACTAATTTC 1 GGGCTAAG-TCCCGAAGGCATTTGTGCGAGTTACTAAATTC * * 54434026 GGGCTAAG-CCTGAAGGCATTGGTGCGAGTTACTAAATTC 1 GGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAATTC * * 54434065 GGGTTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAA-CC 1 GGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTA-AATTC * 54434105 GGGCTATGTCCCGAAGGCATTTG 1 GGGCTAAGTCCCGAAGGCATTTG 54434128 AACGAGTAGC Statistics Matches: 120, Mismatches: 17, Indels: 10 0.82 0.12 0.07 Matches are distributed among these distances: 39 34 0.28 40 76 0.63 41 10 0.08 ACGTcount: A:0.25, C:0.20, G:0.28, T:0.27 Consensus pattern (40 bp): GGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAATTC Found at i:54434149 original size:79 final size:77 Alignment explanation
Indices: 54433977--54434160 Score: 183 Period size: 79 Copynumber: 2.3 Consensus size: 77 54433967 GTGCTAAGTG * ** * 54433977 ACTATATCCGGACTAAGATCCGAAGGCATTTGTGCGAGTTACTAATTTCGGGCTAAGCCTGAAGG 1 ACTATATCCGG-TTAAG-TCCGAAGGCATTTGTGCGAGTTACTAATACCGGGCTAAGCCCGAAGG ** 54434042 CATTGGTGCGAGTT 64 CATTGGAACGAGTT * * * 54434056 ACTAAATTCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTACT-ATAACCGGGCTATGTCCCGAA 1 ACTATA-TCCGGTTAAGT-CCGAAGGCATTTGTGCGAGTTACTAAT-ACCGGGCTAAG-CCCGAA * 54434120 GGCATTTGAACGAG-T 62 GGCATTGGAACGAGTT * 54434135 AGCTATATCCGGTTAAATTCCGAAGG 1 A-CTATATCCGGTT-AAGTCCGAAGG 54434161 TACGTGATTC Statistics Matches: 86, Mismatches: 13, Indels: 12 0.77 0.12 0.11 Matches are distributed among these distances: 78 3 0.03 79 56 0.65 80 27 0.31 ACGTcount: A:0.27, C:0.20, G:0.27, T:0.27 Consensus pattern (77 bp): ACTATATCCGGTTAAGTCCGAAGGCATTTGTGCGAGTTACTAATACCGGGCTAAGCCCGAAGGCA TTGGAACGAGTT Found at i:54447838 original size:54 final size:54 Alignment explanation
Indices: 54447773--54448223 Score: 353 Period size: 54 Copynumber: 8.4 Consensus size: 54 54447763 TTAGTTTACC * * 54447773 AAATTACCAAAATACCCCTAGTTTGAAAAATTACCAAAATACCC-CTGGTTTGTA 1 AAATTACCAAAATACCCCTAGTTTGTAAAATTACCAAAATACCCTC-GATTTGTA * * 54447827 AAATTATCAAAATACCCCTAGTTTGTAAAATTACCAAAATACCC-CTGATTTGTG 1 AAATTACCAAAATACCCCTAGTTTGTAAAATTACCAAAATACCCTC-GATTTGTA ** ** *** * 54447881 AAATTACTGAAATA-CCCTCAACTTGTAAAATTATTGAAATACCCTCGACTTGTA 1 AAATTACCAAAATACCCCT-AGTTTGTAAAATTACCAAAATACCCTCGATTTGTA * * * * * 54447935 AAATTACCAAAGTACCCC-CGATTTTTAAAATTACCTAAATATCCTCGATTTGTA 1 AAATTACCAAAATACCCCTAG-TTTGTAAAATTACCAAAATACCCTCGATTTGTA * * * ** 54447989 AAATTATCGAAATA-CCCTCAGTTTGCAAAATTACTGAAATACCCTCGATTTGTA 1 AAATTACCAAAATACCCCT-AGTTTGTAAAATTACCAAAATACCCTCGATTTGTA ** * ** * *** * * 54448043 AAATTACTGAAATACTCCT-GTAAGATAGAATTACCATTTTACCCTCAATTTATA 1 AAATTACCAAAATACCCCTAGTTTG-TAAAATTACCAAAATACCCTCGATTTGTA * *** * * * * * * 54448097 GAATTACCATTTTA-CCCTCGATTTATAAAATTACTAAAATACCCTTGGTTTACT- 1 AAATTACCAAAATACCCCTAG-TTTGTAAAATTACCAAAATACCCTCGATTT-GTA * * 54448151 AAATTACCAAAATACCCCTGGTTTGTAAAATTACCAAAATACTCCT-GGTTTGTA 1 AAATTACCAAAATACCCCTAGTTTGTAAAATTACCAAAATAC-CCTCGATTTGTA 54448205 AAATTACCAAAATACCCCT 1 AAATTACCAAAATACCCCT 54448224 GTAGGGTAGA Statistics Matches: 307, Mismatches: 76, Indels: 28 0.75 0.18 0.07 Matches are distributed among these distances: 53 14 0.05 54 275 0.90 55 18 0.06 ACGTcount: A:0.38, C:0.21, G:0.09, T:0.32 Consensus pattern (54 bp): AAATTACCAAAATACCCCTAGTTTGTAAAATTACCAAAATACCCTCGATTTGTA Found at i:54448224 original size:27 final size:27 Alignment explanation
Indices: 54447773--54448305 Score: 307 Period size: 27 Copynumber: 19.7 Consensus size: 27 54447763 TTAGTTTACC * * 54447773 AAATTACCAAAATACCCCTAGTTTGAA 1 AAATTACCAAAATACCCCTGGTTTGTA 54447800 AAATTACCAAAATACCCCTGGTTTGTA 1 AAATTACCAAAATACCCCTGGTTTGTA * * 54447827 AAATTATCAAAATACCCCTAGTTTGTA 1 AAATTACCAAAATACCCCTGGTTTGTA * * 54447854 AAATTACCAAAATACCCCTGATTTGTG 1 AAATTACCAAAATACCCCTGGTTTGTA ** *** 54447881 AAATTACTGAAATA-CCCTCAACTTGTA 1 AAATTACCAAAATACCCCT-GGTTTGTA *** ** 54447908 AAATTATTGAAATA-CCCTCGACTTGTA 1 AAATTACCAAAATACCCCT-GGTTTGTA * * * * 54447935 AAATTACCAAAGTACCCCCGATTTTTA 1 AAATTACCAAAATACCCCTGGTTTGTA * * * 54447962 AAATTACCTAAATA-TCCTCGATTTGTA 1 AAATTACCAAAATACCCCT-GGTTTGTA * * * * 54447989 AAATTATCGAAATA-CCCTCAGTTTGCA 1 AAATTACCAAAATACCCCT-GGTTTGTA ** * 54448016 AAATTACTGAAATA-CCCTCGATTTGTA 1 AAATTACCAAAATACCCCT-GGTTTGTA ** * ** 54448043 AAATTACTGAAATACTCCT-GTAAGATA 1 AAATTACCAAAATACCCCTGGTTTG-TA * *** ** * 54448070 GAATTACCATTTTA-CCCTCAATTTATA 1 AAATTACCAAAATACCCCT-GGTTTGTA * *** * * 54448097 GAATTACCATTTTA-CCCTCGATTTATA 1 AAATTACCAAAATACCCCT-GGTTTGTA * * * 54448124 AAATTACTAAAATACCCTTGGTTTACT- 1 AAATTACCAAAATACCCCTGGTTT-GTA 54448151 AAATTACCAAAATACCCCTGGTTTGTA 1 AAATTACCAAAATACCCCTGGTTTGTA * 54448178 AAATTACCAAAATACTCCTGGTTTGTA 1 AAATTACCAAAATACCCCTGGTTTGTA ** 54448205 AAATTACCAAAATACCCCT-GTAGGGTA 1 AAATTACCAAAATACCCCTGGT-TTGTA * * ** 54448232 GAATTACCGAAATACCCCT-GTAAGGTA 1 AAATTACCAAAATACCCCTGGT-TTGTA * ** 54448259 GAATTACCAAAATACCCCT-GTAGGGTA 1 AAATTACCAAAATACCCCTGGT-TTGTA * * 54448286 GAATTACTAAAATACCCCTG 1 AAATTACCAAAATACCCCTG 54448306 TAGGGTGGAA Statistics Matches: 419, Mismatches: 75, Indels: 23 0.81 0.15 0.04 Matches are distributed among these distances: 26 14 0.03 27 394 0.94 28 11 0.03 ACGTcount: A:0.38, C:0.21, G:0.10, T:0.31 Consensus pattern (27 bp): AAATTACCAAAATACCCCTGGTTTGTA Found at i:54448224 original size:54 final size:53 Alignment explanation
Indices: 54447773--54448277 Score: 342 Period size: 54 Copynumber: 9.4 Consensus size: 53 54447763 TTAGTTTACC * * 54447773 AAATTACCAAAATACCCCTAGTTTGAAAAATTACCAAAATACCCCTGGTTTGTA 1 AAATTACCAAAATACCCCTAGTTTGTAAAATTACCAAAATA-CCCTGATTTGTA * * 54447827 AAATTATCAAAATACCCCTAGTTTGTAAAATTACCAAAATACCCCTGATTTGTG 1 AAATTACCAAAATACCCCTAGTTTGTAAAATTACCAAAATA-CCCTGATTTGTA ** ** *** * 54447881 AAATTACTGAAATA-CCCTCAACTTGTAAAATTATTGAAATACCCTCGACTTGTA 1 AAATTACCAAAATACCCCT-AGTTTGTAAAATTACCAAAATACCCT-GATTTGTA * * * * * 54447935 AAATTACCAAAGTACCCC-CGATTTTTAAAATTACCTAAATATCCTCGATTTGTA 1 AAATTACCAAAATACCCCTAG-TTTGTAAAATTACCAAAATACCCT-GATTTGTA * * * ** 54447989 AAATTATCGAAATA-CCCTCAGTTTGCAAAATTACTGAAATACCCTCGATTTGTA 1 AAATTACCAAAATACCCCT-AGTTTGTAAAATTACCAAAATACCCT-GATTTGTA ** * ** * *** * * 54448043 AAATTACTGAAATACTCCT-GTAAGATAGAATTACCATTTTACCCTCAATTTATA 1 AAATTACCAAAATACCCCTAGTTTG-TAAAATTACCAAAATACCCT-GATTTGTA * *** * * * * * 54448097 GAATTACCATTTTA-CCCTCGATTTATAAAATTACTAAAATACCCTTGGTTTACT- 1 AAATTACCAAAATACCCCTAG-TTTGTAAAATTACCAAAATACCC-TGATTT-GTA * * 54448151 AAATTACCAAAATACCCCTGGTTTGTAAAATTACCAAAATACTCCTGGTTTGTA 1 AAATTACCAAAATACCCCTAGTTTGTAAAATTACCAAAATAC-CCTGATTTGTA ** * * ** 54448205 AAATTACCAAAATACCCCT-GTAGGGTAGAATTACCGAAATACCCCTG-TAAGGTA 1 AAATTACCAAAATACCCCTAGT-TTGTAAAATTACCAAAATA-CCCTGAT-TTGTA * 54448259 GAATTACCAAAATACCCCT 1 AAATTACCAAAATACCCCT 54448278 GTAGGGTAGA Statistics Matches: 351, Mismatches: 82, Indels: 36 0.75 0.17 0.08 Matches are distributed among these distances: 53 21 0.06 54 312 0.89 55 18 0.05 ACGTcount: A:0.38, C:0.21, G:0.10, T:0.31 Consensus pattern (53 bp): AAATTACCAAAATACCCCTAGTTTGTAAAATTACCAAAATACCCTGATTTGTA Found at i:54448237 original size:81 final size:81 Alignment explanation
Indices: 54447773--54448307 Score: 342 Period size: 81 Copynumber: 6.6 Consensus size: 81 54447763 TTAGTTTACC * * * * 54447773 AAATTACCAAAATACCCCT-AGTTTGAAAAATTACCAAAATACCCCTGGT-TTGTAAAATTATCA 1 AAATTACCAAAATACCCCTGA-TTTGTAAAATTACTAAAATACCCCT-GTATGGTAAAATTACCA 54447836 AAATACCC-CTAGTTTGTA 64 AAATACCCTC-AGTTTGTA * * ** * *** 54447854 AAATTACCAAAATACCCCTGATTTGTGAAATTACTGAAATA-CCCTCAACTTGTAAAATTATTGA 1 AAATTACCAAAATACCCCTGATTTGTAAAATTACTAAAATACCCCTGTA-TGGTAAAATTACCAA * 54447918 AATACCCTC-GACTTGTA 65 AATACCCTCAG-TTTGTA * * * * * * 54447935 AAATTACCAAAGTACCCCCGATTTTTAAAATTACCT-AAATA-TCCTCG-ATTTGTAAAATTATC 1 AAATTACCAAAATACCCCTGATTTGTAAAATTA-CTAAAATACCCCT-GTA-TGGTAAAATTACC * * 54447997 GAAATACCCTCAGTTTGCA 63 AAAATACCCTCAGTTTGTA ** * * * * * * 54448016 AAATTACTGAAATA-CCCTCGATTTGTAAAATTACTGAAATACTCCTGTAAGATAGAATTACCAT 1 AAATTACCAAAATACCCCT-GATTTGTAAAATTACTAAAATACCCCTGTATGGTAAAATTACCAA ** * * 54448080 TTTACCCTCAATTTATA 65 AATACCCTCAGTTTGTA * *** * * * ** 54448097 GAATTACCATTTTA-CCCTCGATTTATAAAATTACTAAAATACCCTTGGTTTACT-AAATTACCA 1 AAATTACCAAAATACCCCT-GATTTGTAAAATTACTAAAATACCCCT-GTATGGTAAAATTACCA * 54448160 AAATACCC-CTGGTTTGTA 64 AAATACCCTC-AGTTTGTA * * * * * * 54448178 AAATTACCAAAATACTCCTGGTTTGTAAAATTACCAAAATACCCCTGTAGGGTAGAATTACCGAA 1 AAATTACCAAAATACCCCTGATTTGTAAAATTACTAAAATACCCCTGTATGGTAAAATTACCAAA * ** 54448243 ATACCC-CTGTAAGGTA 66 ATACCCTCAGT-TTGTA * ** * 54448259 GAATTACCAAAATACCCCTG-TAGGGTAGAATTACTAAAATACCCCTGTA 1 AAATTACCAAAATACCCCTGAT-TTGTAAAATTACTAAAATACCCCTGTA 54448308 GGGTGGAATT Statistics Matches: 355, Mismatches: 81, Indels: 36 0.75 0.17 0.08 Matches are distributed among these distances: 80 17 0.05 81 322 0.91 82 16 0.05 ACGTcount: A:0.38, C:0.21, G:0.10, T:0.31 Consensus pattern (81 bp): AAATTACCAAAATACCCCTGATTTGTAAAATTACTAAAATACCCCTGTATGGTAAAATTACCAAA ATACCCTCAGTTTGTA Found at i:54448308 original size:81 final size:81 Alignment explanation
Indices: 54448152--54448328 Score: 223 Period size: 81 Copynumber: 2.2 Consensus size: 81 54448142 TGGTTTACTA * ** * ** 54448152 AATTACCAAAATACCCCTGGTTTGTAAAATTACCAAAATACTCCTGGTTTGTAAAATTACCAAAA 1 AATTACCGAAATACCCCTGGTAGGTAAAATTACCAAAATACCCCTGGTGGGTAAAATTACCAAAA 54448217 TACCCCTGTAGGGTAG 66 TACCCCTGTAGGGTAG * * * 54448233 AATTACCGAAATACCCCT-GTAAGGTAGAATTACCAAAATACCCCT-GTAGGGTAGAATTACTAA 1 AATTACCGAAATACCCCTGGT-AGGTAAAATTACCAAAATACCCCTGGT-GGGTAAAATTACCAA * 54448296 AATACCCCTGTAGGGTGG 64 AATACCCCTGTAGGGTAG * 54448314 AATTACCGAGATACC 1 AATTACCGAAATACC 54448329 TTGTGGGGTA Statistics Matches: 83, Mismatches: 11, Indels: 4 0.85 0.11 0.04 Matches are distributed among these distances: 80 4 0.05 81 79 0.95 ACGTcount: A:0.37, C:0.21, G:0.16, T:0.25 Consensus pattern (81 bp): AATTACCGAAATACCCCTGGTAGGTAAAATTACCAAAATACCCCTGGTGGGTAAAATTACCAAAA TACCCCTGTAGGGTAG Found at i:54448328 original size:54 final size:54 Alignment explanation
Indices: 54448152--54448347 Score: 200 Period size: 54 Copynumber: 3.6 Consensus size: 54 54448142 TGGTTTACTA ** * * * ** * 54448152 AATTACCAAAATACCCCTGGT-TTGTAAAATTACCAAAATACTCCTGGT-TTGTAA 1 AATTACCAAAATACCCCT-GTAGGGTAGAATTACTAAAATACCCCT-GTAAGGTAG ** 54448206 AATTACCAAAATACCCCTGTAGGGTAGAATTACCGAAATACCCCTGTAAGGTAG 1 AATTACCAAAATACCCCTGTAGGGTAGAATTACTAAAATACCCCTGTAAGGTAG * * 54448260 AATTACCAAAATACCCCTGTAGGGTAGAATTACTAAAATACCCCTGTAGGGTGG 1 AATTACCAAAATACCCCTGTAGGGTAGAATTACTAAAATACCCCTGTAAGGTAG * * * * * 54448314 AATTACCGAGATA-CCTTGTGGGGTAAAATTACTA 1 AATTACCAAAATACCCCTGTAGGGTAGAATTACTA 54448348 TTTTACCCCT Statistics Matches: 123, Mismatches: 17, Indels: 5 0.85 0.12 0.03 Matches are distributed among these distances: 53 22 0.18 54 101 0.82 ACGTcount: A:0.36, C:0.20, G:0.17, T:0.27 Consensus pattern (54 bp): AATTACCAAAATACCCCTGTAGGGTAGAATTACTAAAATACCCCTGTAAGGTAG Found at i:54448826 original size:22 final size:22 Alignment explanation
Indices: 54448770--54448834 Score: 78 Period size: 22 Copynumber: 3.0 Consensus size: 22 54448760 TTAAAGCCTT * * 54448770 CTGATTATGGCTTTGTGTCAAC 1 CTGATTATGGCTCTGTGCCAAC * 54448792 CT-ACATATGGCTCTGTGCCAAC 1 CTGA-TTATGGCTCTGTGCCAAC * 54448814 CTGATTATTGCTCTGTGCCAA 1 CTGATTATGGCTCTGTGCCAA 54448835 ACGTATTTGC Statistics Matches: 36, Mismatches: 5, Indels: 4 0.80 0.11 0.09 Matches are distributed among these distances: 21 1 0.03 22 34 0.94 23 1 0.03 ACGTcount: A:0.20, C:0.25, G:0.20, T:0.35 Consensus pattern (22 bp): CTGATTATGGCTCTGTGCCAAC Found at i:54449025 original size:27 final size:27 Alignment explanation
Indices: 54448994--54449087 Score: 127 Period size: 27 Copynumber: 3.5 Consensus size: 27 54448984 CTGTTAAGTG * * 54448994 GCCACATTATCTGTTTCTGGTGGCTAT 1 GCCACAATATCTGTTTCTGGTGGCTCT 54449021 GCCACAAATATCTG-TTCTGGTGGCTCT 1 GCCAC-AATATCTGTTTCTGGTGGCTCT * * 54449048 GCCACAATATCTGTATCTGGTGACTCT 1 GCCACAATATCTGTTTCTGGTGGCTCT * 54449075 GTCACAATATCTG 1 GCCACAATATCTG 54449088 ATAACTGAGC Statistics Matches: 60, Mismatches: 5, Indels: 4 0.87 0.07 0.06 Matches are distributed among these distances: 26 8 0.13 27 45 0.75 28 7 0.12 ACGTcount: A:0.20, C:0.24, G:0.20, T:0.35 Consensus pattern (27 bp): GCCACAATATCTGTTTCTGGTGGCTCT Found at i:54449262 original size:6 final size:6 Alignment explanation
Indices: 54449247--54449343 Score: 65 Period size: 6 Copynumber: 15.8 Consensus size: 6 54449237 ATTCTATTAC * * * * 54449247 CTGATA CTGATT CTGATT TTGATT CTG-TT ACCTGATA CTAATT CTGATT 1 CTGATT CTGATT CTGATT CTGATT CTGATT --CTGATT CTGATT CTGATT * * * 54449296 CTGATT CTG-TCAC CTAATT CTGATT TTGATT CTGATT CT-AGTT CTGAT 1 CTGATT CTGAT--T CTGATT CTGATT CTGATT CTGATT CTGA-TT CTGAT 54449344 AATGTTTCTT Statistics Matches: 70, Mismatches: 13, Indels: 16 0.71 0.13 0.16 Matches are distributed among these distances: 5 4 0.06 6 58 0.83 7 6 0.09 8 2 0.03 ACGTcount: A:0.21, C:0.18, G:0.14, T:0.47 Consensus pattern (6 bp): CTGATT Found at i:54449278 original size:31 final size:31 Alignment explanation
Indices: 54449237--54449359 Score: 133 Period size: 31 Copynumber: 4.0 Consensus size: 31 54449227 CTCATTTTTT * * 54449237 ATTCTATTACCTGATACTGATTCTGATTTTG 1 ATTCTGTTACCTGATACTGATTCTGATTCTG * 54449268 ATTCTGTTACCTGATACTAATTCTGATTCTG 1 ATTCTGTTACCTGATACTGATTCTGATTCTG * * * * 54449299 ATTCTGTCACCTAATTCTGATTTTGATTCTG 1 ATTCTGTTACCTGATACTGATTCTGATTCTG * * * 54449330 ATTCTAGTT--CTGATAATGTTTCTTATTCTG 1 ATTCT-GTTACCTGATACTGATTCTGATTCTG 54449360 TAATGAGTTA Statistics Matches: 76, Mismatches: 15, Indels: 3 0.81 0.16 0.03 Matches are distributed among these distances: 30 15 0.20 31 59 0.78 32 2 0.03 ACGTcount: A:0.21, C:0.17, G:0.13, T:0.49 Consensus pattern (31 bp): ATTCTGTTACCTGATACTGATTCTGATTCTG Found at i:54451047 original size:43 final size:42 Alignment explanation
Indices: 54451000--54451098 Score: 119 Period size: 42 Copynumber: 2.3 Consensus size: 42 54450990 TCCTAGACGT * * 54451000 GGTCTTACATGTAATCAAACATTGATGCC-ACTGTCCCAGACAG 1 GGTCTTACATGTAATCAAACA-CGATGCCGA-TGTCCCAAACAG * * * * 54451043 GGTCTTACATGAAATCAGATACGATGCCGATGTCCCAAACAT 1 GGTCTTACATGTAATCAAACACGATGCCGATGTCCCAAACAG 54451085 GGTCTTACATGTAA 1 GGTCTTACATGTAA 54451099 AACAGAAGTC Statistics Matches: 48, Mismatches: 7, Indels: 3 0.83 0.12 0.05 Matches are distributed among these distances: 42 29 0.60 43 19 0.40 ACGTcount: A:0.31, C:0.23, G:0.19, T:0.26 Consensus pattern (42 bp): GGTCTTACATGTAATCAAACACGATGCCGATGTCCCAAACAG Found at i:54451089 original size:42 final size:41 Alignment explanation
Indices: 54450989--54451145 Score: 136 Period size: 43 Copynumber: 3.7 Consensus size: 41 54450979 CAATGCCAAC * * * * * 54450989 GTCCTAGACGTGGTCTTACATGTAATCAAACATTGATGCCACT 1 GTCCCAGACATGGTCTTACATGAAATCAGA-ATCGATGCCA-T * 54451032 GTCCCAGACAGGGTCTTACATGAAATCAG-ATACGATGCCGAT 1 GTCCCAGACATGGTCTTACATGAAATCAGAAT-CGATGCC-AT * * * 54451074 GTCCCAAACATGGTCTTACATGTAAAACAGAAGTCGATGCCAAC 1 GTCCCAGACATGGTCTTACATG-AAATCAGAA-TCGATGCC-AT * * * 54451118 GTCCCAGACGTGGTTTTACACGAAATCA 1 GTCCCAGACATGGTCTTACATGAAATCA 54451146 CATATCAGAT Statistics Matches: 93, Mismatches: 16, Indels: 10 0.78 0.13 0.08 Matches are distributed among these distances: 41 2 0.02 42 27 0.29 43 36 0.39 44 27 0.29 45 1 0.01 ACGTcount: A:0.31, C:0.24, G:0.20, T:0.24 Consensus pattern (41 bp): GTCCCAGACATGGTCTTACATGAAATCAGAATCGATGCCAT Found at i:54454079 original size:63 final size:63 Alignment explanation
Indices: 54454006--54454796 Score: 1582 Period size: 63 Copynumber: 12.6 Consensus size: 63 54453996 AGCAGTGAAA 54454006 CAGGGGTAACTTCAATGAATAAAATGTACTAATTGAAGTTAACCCTGATCCACCTGGCCAGAT 1 CAGGGGTAACTTCAATGAATAAAATGTACTAATTGAAGTTAACCCTGATCCACCTGGCCAGAT 54454069 CAGGGGTAACTTCAATGAATAAAATGTACTAATTGAAGTTAACCCTGATCCACCTGGCCAGAT 1 CAGGGGTAACTTCAATGAATAAAATGTACTAATTGAAGTTAACCCTGATCCACCTGGCCAGAT 54454132 CAGGGGTAACTTCAATGAATAAAATGTACTAATTGAAGTTAACCCTGATCCACCTGGCCAGAT 1 CAGGGGTAACTTCAATGAATAAAATGTACTAATTGAAGTTAACCCTGATCCACCTGGCCAGAT 54454195 CAGGGGTAACTTCAATGAATAAAATGTACTAATTGAAGTTAACCCTGATCCACCTGGCCAGAT 1 CAGGGGTAACTTCAATGAATAAAATGTACTAATTGAAGTTAACCCTGATCCACCTGGCCAGAT 54454258 CAGGGGTAACTTCAATGAATAAAATGTACTAATTGAAGTTAACCCTGATCCACCTGGCCAGAT 1 CAGGGGTAACTTCAATGAATAAAATGTACTAATTGAAGTTAACCCTGATCCACCTGGCCAGAT 54454321 CAGGGGTAACTTCAATGAATAAAATGTACTAATTGAAGTTAACCCTGATCCACCTGGCCAGAT 1 CAGGGGTAACTTCAATGAATAAAATGTACTAATTGAAGTTAACCCTGATCCACCTGGCCAGAT 54454384 CAGGGGTAACTTCAATGAATAAAATGTACTAATTGAAGTTAACCCTGATCCACCTGGCCAGAT 1 CAGGGGTAACTTCAATGAATAAAATGTACTAATTGAAGTTAACCCTGATCCACCTGGCCAGAT 54454447 CAGGGGTAACTTCAATGAATAAAATGTACTAATTGAAGTTAACCCTGATCCACCTGGCCAGAT 1 CAGGGGTAACTTCAATGAATAAAATGTACTAATTGAAGTTAACCCTGATCCACCTGGCCAGAT 54454510 CAGGGGTAACTTCAATGAATAAAATGTACTAATTGAAGTTAACCCTGATCCACCTGGCCAGAT 1 CAGGGGTAACTTCAATGAATAAAATGTACTAATTGAAGTTAACCCTGATCCACCTGGCCAGAT 54454573 CAGGGGTAACTTCAATGAATAAAATGTACTAATTGAAGTTAACCCTGATCCACCTGGCCAGAT 1 CAGGGGTAACTTCAATGAATAAAATGTACTAATTGAAGTTAACCCTGATCCACCTGGCCAGAT 54454636 CAGGGGTAACTTCAATGAATAAAATGTACTAATTGAAGTTAACCCTGATCCACCTGGCCAGAT 1 CAGGGGTAACTTCAATGAATAAAATGTACTAATTGAAGTTAACCCTGATCCACCTGGCCAGAT 54454699 CAGGGGTAACTTCAATGAATAAAATGTACTAATTGAAGTTAACCCTGATCCACCTGGCCAGAT 1 CAGGGGTAACTTCAATGAATAAAATGTACTAATTGAAGTTAACCCTGATCCACCTGGCCAGAT 54454762 CAGGGGTAACTTCAATGAATAAAATGTACTAATTG 1 CAGGGGTAACTTCAATGAATAAAATGTACTAATTG 54454797 GCTAGACCAA Statistics Matches: 728, Mismatches: 0, Indels: 0 1.00 0.00 0.00 Matches are distributed among these distances: 63 728 1.00 ACGTcount: A:0.35, C:0.20, G:0.19, T:0.26 Consensus pattern (63 bp): CAGGGGTAACTTCAATGAATAAAATGTACTAATTGAAGTTAACCCTGATCCACCTGGCCAGAT Found at i:54458973 original size:17 final size:17 Alignment explanation
Indices: 54458951--54458984 Score: 68 Period size: 17 Copynumber: 2.0 Consensus size: 17 54458941 CAAAAAAAGT 54458951 AGAAATTGAATCAGAGA 1 AGAAATTGAATCAGAGA 54458968 AGAAATTGAATCAGAGA 1 AGAAATTGAATCAGAGA 54458985 CTGAATGAGA Statistics Matches: 17, Mismatches: 0, Indels: 0 1.00 0.00 0.00 Matches are distributed among these distances: 17 17 1.00 ACGTcount: A:0.53, C:0.06, G:0.24, T:0.18 Consensus pattern (17 bp): AGAAATTGAATCAGAGA Found at i:54466855 original size:42 final size:42 Alignment explanation
Indices: 54466753--54466866 Score: 131 Period size: 43 Copynumber: 2.7 Consensus size: 42 54466743 AACATATACA * * 54466753 ATGCCAATGTCCCAGACATGGTCTTACATGTAATCAAACATTG 1 ATGCC-ATGTCCCAGACATGGTCTTACACGAAATCAAACATTG * * * 54466796 ATGCCACTGTCCGAGACAGGGTCTTACACGAAATCAAATA-TG 1 ATGCCA-TGTCCCAGACATGGTCTTACACGAAATCAAACATTG * * 54466838 ATGCTGATGTCCTAGACATGGTCTTACAC 1 ATGC-CATGTCCCAGACATGGTCTTACAC 54466867 ATAAAACAGA Statistics Matches: 61, Mismatches: 8, Indels: 5 0.82 0.11 0.07 Matches are distributed among these distances: 42 27 0.44 43 34 0.56 ACGTcount: A:0.31, C:0.24, G:0.19, T:0.26 Consensus pattern (42 bp): ATGCCATGTCCCAGACATGGTCTTACACGAAATCAAACATTG Found at i:54468024 original size:13 final size:13 Alignment explanation
Indices: 54468006--54468040 Score: 70 Period size: 13 Copynumber: 2.7 Consensus size: 13 54467996 ACAAACGATT 54468006 AAATTTTCATACG 1 AAATTTTCATACG 54468019 AAATTTTCATACG 1 AAATTTTCATACG 54468032 AAATTTTCA 1 AAATTTTCA 54468041 CACATACTAA Statistics Matches: 22, Mismatches: 0, Indels: 0 1.00 0.00 0.00 Matches are distributed among these distances: 13 22 1.00 ACGTcount: A:0.40, C:0.14, G:0.06, T:0.40 Consensus pattern (13 bp): AAATTTTCATACG Found at i:54485087 original size:43 final size:43 Alignment explanation
Indices: 54485019--54485182 Score: 129 Period size: 43 Copynumber: 3.8 Consensus size: 43 54485009 AAAGCTCGTA * * * 54485019 CAATGCCAACGTCCCAAACATGGTCTTACATGTAATCAAATAC 1 CAATGCCAACGTCCCAAACAGGGTCTTACACGAAATCAAATAC * 54485062 CAATGCC-ACTGTCCCAGACAGGGTCTTACACGAAATCAAATA- 1 CAATGCCAAC-GTCCCAAACAGGGTCTTACACGAAATCAAATAC ** * ** * * 54485104 TGATACTGATGTCCCAAACATGGTCTTACACGTAAATCATAAGT-- 1 CAATGCCAACGTCCCAAACAGGGTCTTACACG-AAATCA-AA-TAC * * * * 54485148 CGATGCCAATGTCCCAGACATGGTCTTACACGAAA 1 CAATGCCAACGTCCCAAACAGGGTCTTACACGAAA 54485183 ACACATATCA Statistics Matches: 100, Mismatches: 16, Indels: 10 0.79 0.13 0.08 Matches are distributed among these distances: 42 25 0.25 43 45 0.45 44 29 0.29 45 1 0.01 ACGTcount: A:0.35, C:0.26, G:0.16, T:0.23 Consensus pattern (43 bp): CAATGCCAACGTCCCAAACAGGGTCTTACACGAAATCAAATAC Found at i:54486227 original size:45 final size:45 Alignment explanation
Indices: 54486119--54486294 Score: 214 Period size: 45 Copynumber: 4.0 Consensus size: 45 54486109 CCGAATTCAT * * 54486119 TCACTGGCATT-TCGCCTGCTAGGCTTC-AAGCCCA-AATAGTATC 1 TCACTGGCATTATAGCCTGCTAGGC-TCAAAGGCCAGAATAGTATC * * * * * * 54486162 TCACCGGTATTATAGCCTGCTAGGCTTAAAGGCCAGAGTGGTATT 1 TCACTGGCATTATAGCCTGCTAGGCTCAAAGGCCAGAATAGTATC * 54486207 TCACTGGCATTATAGCCTGCTAGGCTCAAAGGCCCGAATAGTATC 1 TCACTGGCATTATAGCCTGCTAGGCTCAAAGGCCAGAATAGTATC * * * 54486252 TCACGGGCATTATAGCCTACTAGGCTCAAAGGCCCGAATAGTA 1 TCACTGGCATTATAGCCTGCTAGGCTCAAAGGCCAGAATAGTA 54486295 CTGAGCGATA Statistics Matches: 113, Mismatches: 17, Indels: 4 0.84 0.13 0.03 Matches are distributed among these distances: 43 10 0.09 44 18 0.16 45 85 0.75 ACGTcount: A:0.26, C:0.26, G:0.23, T:0.26 Consensus pattern (45 bp): TCACTGGCATTATAGCCTGCTAGGCTCAAAGGCCAGAATAGTATC Found at i:54486268 original size:90 final size:88 Alignment explanation
Indices: 54486118--54486285 Score: 248 Period size: 90 Copynumber: 1.9 Consensus size: 88 54486108 CCCGAATTCA * * * 54486118 TTCACTGGCATTTCGCCTGCTAGGCTTCAAGCCCAAATAGTATCTCACCGGTATTATAGCCTGCT 1 TTCACTGGCATTTAGCCTGCTAGGCTTCAAGCCCAAATAGTATCTCACCGGCATTATAGCCTACT * 54486183 AGGCTTAAAGGCCAGAGTGGTAT 66 AGGCTCAAAGGCCAGAGTGGTAT * * 54486206 TTCACTGGCATTATAGCCTGCTAGGC-TCAAAGGCCCGAATAGTATCTCACGGGCATTATAGCCT 1 TTCACTGGCATT-TAGCCTGCTAGGCTTC-AA-GCCCAAATAGTATCTCACCGGCATTATAGCCT 54486270 ACTAGGCTCAAAGGCC 63 ACTAGGCTCAAAGGCC 54486286 CGAATAGTAC Statistics Matches: 71, Mismatches: 6, Indels: 4 0.88 0.07 0.05 Matches are distributed among these distances: 88 14 0.20 89 14 0.20 90 43 0.61 ACGTcount: A:0.25, C:0.26, G:0.23, T:0.26 Consensus pattern (88 bp): TTCACTGGCATTTAGCCTGCTAGGCTTCAAGCCCAAATAGTATCTCACCGGCATTATAGCCTACT AGGCTCAAAGGCCAGAGTGGTAT Found at i:54490078 original size:21 final size:20 Alignment explanation
Indices: 54490054--54490095 Score: 57 Period size: 21 Copynumber: 2.0 Consensus size: 20 54490044 AAACTTGTAT * 54490054 ATCTATCAACAAGCATTCAAA 1 ATCTATCAACAAACA-TCAAA * 54490075 ATCTATCATCAAACATCAAA 1 ATCTATCAACAAACATCAAA 54490095 A 1 A 54490096 CACACATGTA Statistics Matches: 19, Mismatches: 2, Indels: 1 0.86 0.09 0.05 Matches are distributed among these distances: 20 6 0.32 21 13 0.68 ACGTcount: A:0.50, C:0.24, G:0.02, T:0.24 Consensus pattern (20 bp): ATCTATCAACAAACATCAAA Found at i:54493668 original size:13 final size:13 Alignment explanation
Indices: 54493650--54493674 Score: 50 Period size: 13 Copynumber: 1.9 Consensus size: 13 54493640 CCAAGCACAT 54493650 GCCCATGTCCTTG 1 GCCCATGTCCTTG 54493663 GCCCATGTCCTT 1 GCCCATGTCCTT 54493675 CACACGGCCT Statistics Matches: 12, Mismatches: 0, Indels: 0 1.00 0.00 0.00 Matches are distributed among these distances: 13 12 1.00 ACGTcount: A:0.08, C:0.40, G:0.20, T:0.32 Consensus pattern (13 bp): GCCCATGTCCTTG Found at i:54507378 original size:20 final size:20 Alignment explanation
Indices: 54507353--54507395 Score: 86 Period size: 20 Copynumber: 2.1 Consensus size: 20 54507343 ACTACTTGAC 54507353 ACTTTGACTATCTCCTCTGG 1 ACTTTGACTATCTCCTCTGG 54507373 ACTTTGACTATCTCCTCTGG 1 ACTTTGACTATCTCCTCTGG 54507393 ACT 1 ACT 54507396 CCAAGTTCTA Statistics Matches: 23, Mismatches: 0, Indels: 0 1.00 0.00 0.00 Matches are distributed among these distances: 20 23 1.00 ACGTcount: A:0.16, C:0.30, G:0.14, T:0.40 Consensus pattern (20 bp): ACTTTGACTATCTCCTCTGG Found at i:54509291 original size:48 final size:48 Alignment explanation
Indices: 54509225--54509449 Score: 288 Period size: 48 Copynumber: 4.7 Consensus size: 48 54509215 TGTGTAACCA * * * * * * * 54509225 TGTAAGACCATATCTGGGATATGGAATCGGTATTGTTATGTGATCCCG 1 TGTAAGACCATGTCTGGGACATGGCATCGGCATTGTTACGTGAGCCAG * * * * 54509273 TATAAGACCATGTTTGGGACATGGCATCGGCATTGTTTCGTGAGCCAA 1 TGTAAGACCATGTCTGGGACATGGCATCGGCATTGTTACGTGAGCCAG ** * 54509321 TGTAAGACCATGTCTAAGACATGGCATCGGTATTGTTACGTGAGCCAG 1 TGTAAGACCATGTCTGGGACATGGCATCGGCATTGTTACGTGAGCCAG * * * 54509369 TGTAAAACCATGTCTGGGACATGGCATCTGCATTGTTACCTGAGCCAG 1 TGTAAGACCATGTCTGGGACATGGCATCGGCATTGTTACGTGAGCCAG * 54509417 TGTAAGACCATGTCTGGGACATGGCATCTGCAT 1 TGTAAGACCATGTCTGGGACATGGCATCGGCAT 54509450 GAGGCATCGT Statistics Matches: 152, Mismatches: 25, Indels: 0 0.86 0.14 0.00 Matches are distributed among these distances: 48 152 1.00 ACGTcount: A:0.25, C:0.19, G:0.27, T:0.29 Consensus pattern (48 bp): TGTAAGACCATGTCTGGGACATGGCATCGGCATTGTTACGTGAGCCAG Found at i:54511364 original size:20 final size:18 Alignment explanation
Indices: 54511339--54511382 Score: 52 Period size: 20 Copynumber: 2.3 Consensus size: 18 54511329 CAGGTGGGGG 54511339 ACACGGACGTGTCCTGAGCC 1 ACACGGACGTGT-CTGA-CC * * 54511359 ACACGGGCGTGTGTGACC 1 ACACGGACGTGTCTGACC 54511377 ACACGG 1 ACACGG 54511383 CCTGCCCACA Statistics Matches: 22, Mismatches: 2, Indels: 2 0.85 0.08 0.08 Matches are distributed among these distances: 18 8 0.36 19 3 0.14 20 11 0.50 ACGTcount: A:0.20, C:0.32, G:0.34, T:0.14 Consensus pattern (18 bp): ACACGGACGTGTCTGACC Found at i:54513451 original size:93 final size:93 Alignment explanation
Indices: 54513338--54513508 Score: 315 Period size: 93 Copynumber: 1.8 Consensus size: 93 54513328 GCCCATAAGT * * 54513338 GAACTCGGACTCAACTCAACGAGCTCGGGCGTTCGCATCCATAAGTGAACTCGGACTCAACTCAA 1 GAACTCGGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCAA 54513403 CGAGTTCGGATGCCTAGTTACATCTCAC 66 CGAGTTCGGATGCCTAGTTACATCTCAC * 54513431 GAACTCGGACTCAACTCAACGAGTTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCAA 1 GAACTCGGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCAA 54513496 CGAGTTCGGATGC 66 CGAGTTCGGATGC 54513509 TCAACCATCC Statistics Matches: 75, Mismatches: 3, Indels: 0 0.96 0.04 0.00 Matches are distributed among these distances: 93 75 1.00 ACGTcount: A:0.28, C:0.29, G:0.22, T:0.21 Consensus pattern (93 bp): GAACTCGGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCAA CGAGTTCGGATGCCTAGTTACATCTCAC Found at i:54513505 original size:46 final size:46 Alignment explanation
Indices: 54513330--54513505 Score: 225 Period size: 46 Copynumber: 3.8 Consensus size: 46 54513320 TGTAACCCGC * * * 54513330 CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGGGCGTTCGCAT 1 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCAT * 54513376 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGATGCCTAGTT-ACAT 1 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGA---C-A-TTCGCAT * * 54513426 -C-TCA-CGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCAT 1 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCAT 54513469 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGA 1 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGA 54513506 TGCTCAACCA Statistics Matches: 112, Mismatches: 9, Indels: 18 0.81 0.06 0.13 Matches are distributed among these distances: 42 2 0.02 43 4 0.04 44 2 0.02 45 2 0.02 46 64 0.57 47 29 0.26 48 2 0.02 49 2 0.02 50 3 0.03 51 2 0.02 ACGTcount: A:0.29, C:0.29, G:0.21, T:0.21 Consensus pattern (46 bp): CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCAT Found at i:54514370 original size:52 final size:52 Alignment explanation
Indices: 54514292--54514395 Score: 199 Period size: 52 Copynumber: 2.0 Consensus size: 52 54514282 ATAGGGATCT * 54514292 CAAAAACGTAAAAATCATTAAAAACGGGGCTTGGAATCACTTACTATGGAGC 1 CAAAAACGTAAAAATCATAAAAAACGGGGCTTGGAATCACTTACTATGGAGC 54514344 CAAAAACGTAAAAATCATAAAAAACGGGGCTTGGAATCACTTACTATGGAGC 1 CAAAAACGTAAAAATCATAAAAAACGGGGCTTGGAATCACTTACTATGGAGC 54514396 TTGGAAGCTT Statistics Matches: 51, Mismatches: 1, Indels: 0 0.98 0.02 0.00 Matches are distributed among these distances: 52 51 1.00 ACGTcount: A:0.43, C:0.17, G:0.19, T:0.20 Consensus pattern (52 bp): CAAAAACGTAAAAATCATAAAAAACGGGGCTTGGAATCACTTACTATGGAGC Found at i:54519948 original size:50 final size:50 Alignment explanation
Indices: 54519873--54519971 Score: 162 Period size: 50 Copynumber: 2.0 Consensus size: 50 54519863 TTTTTTATAG * ** 54519873 AATTTTTGGTTGGGCCAATTAGTACATTTTATTAGTTATTGTTACCCCTA 1 AATTTTTGGTTGGGCCAATTAGTACAGTTTATTAGTTAAAGTTACCCCTA * 54519923 AATTTTTTGTTGGGCCAATTAGTACAGTTTATTAGTTAAAGTTACCCCT 1 AATTTTTGGTTGGGCCAATTAGTACAGTTTATTAGTTAAAGTTACCCCT 54519972 GTTTCAGGAC Statistics Matches: 45, Mismatches: 4, Indels: 0 0.92 0.08 0.00 Matches are distributed among these distances: 50 45 1.00 ACGTcount: A:0.25, C:0.14, G:0.16, T:0.44 Consensus pattern (50 bp): AATTTTTGGTTGGGCCAATTAGTACAGTTTATTAGTTAAAGTTACCCCTA Found at i:54526248 original size:45 final size:45 Alignment explanation
Indices: 54526158--54526248 Score: 103 Period size: 45 Copynumber: 2.0 Consensus size: 45 54526148 GTAGGATTCT * * * * * 54526158 GATATATGTGTTTTCGAGTAAGACCACATCTGGGACGTTGGCATC 1 GATATATGTGGTTACGAGTAAGACCACATCTGGGACATCGACATC ** 54526203 GATATATGTGGTTAC-ATGTAAGACCATGTCTGGGACATCGACATC 1 GATATATGTGGTTACGA-GTAAGACCACATCTGGGACATCGACATC 54526248 G 1 G 54526249 TATTTGATTC Statistics Matches: 38, Mismatches: 7, Indels: 2 0.81 0.15 0.04 Matches are distributed among these distances: 44 1 0.03 45 37 0.97 ACGTcount: A:0.26, C:0.18, G:0.26, T:0.30 Consensus pattern (45 bp): GATATATGTGGTTACGAGTAAGACCACATCTGGGACATCGACATC Found at i:54530432 original size:49 final size:49 Alignment explanation
Indices: 54530004--54530430 Score: 732 Period size: 49 Copynumber: 8.8 Consensus size: 49 54529994 AAATGATAGT 54530004 AAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTACATATATGTGAA 1 AAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTACATATATGTGAA 54530053 AAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTACATATATGTGAA 1 AAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTACATATATGTGAA 54530102 AAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTACATATATGTGAA 1 AAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTACATATATGTGAA 54530151 AAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTACATATATGTGAA 1 AAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTACATATATGTGAA 54530200 AAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTACATATATGTGAA 1 AAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTACATATATGTGAA 54530249 AAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTACATATATGTGAA 1 AAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTACATATATGTGAA * 54530298 AAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTAC--ATATGTGAT 1 AAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTACATATATGTGAA * * * * * 54530345 AAGGCCTAACGGCCGAGGTGATGAATGTGGAAGTGTATATATATGTGAC 1 AAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTACATATATGTGAA * * * * * * 54530394 AGGGCCGAGTGGCCAACGTGATGGATGTGAAAGTGTA 1 AAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTA 54530431 TAAATGTGAT Statistics Matches: 362, Mismatches: 14, Indels: 4 0.95 0.04 0.01 Matches are distributed among these distances: 47 42 0.12 49 320 0.88 ACGTcount: A:0.33, C:0.11, G:0.30, T:0.26 Consensus pattern (49 bp): AAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTACATATATGTGAA Found at i:54530540 original size:37 final size:37 Alignment explanation
Indices: 54530484--54530562 Score: 122 Period size: 37 Copynumber: 2.1 Consensus size: 37 54530474 CCGAGCTCTA * * * 54530484 AAGACCCGATGACTACGTGTGAGGATTTTGTCCGGGT 1 AAGACCCGATAACTACGTGTGAAGATTATGTCCGGGT * 54530521 AAGACCCGATAACTTCGTGTGAAGATTATGTCCGGGT 1 AAGACCCGATAACTACGTGTGAAGATTATGTCCGGGT 54530558 AAGAC 1 AAGAC 54530563 TTCGTAATAA Statistics Matches: 38, Mismatches: 4, Indels: 0 0.90 0.10 0.00 Matches are distributed among these distances: 37 38 1.00 ACGTcount: A:0.27, C:0.19, G:0.29, T:0.25 Consensus pattern (37 bp): AAGACCCGATAACTACGTGTGAAGATTATGTCCGGGT Found at i:54532425 original size:40 final size:40 Alignment explanation
Indices: 54532370--54533690 Score: 2381 Period size: 40 Copynumber: 33.0 Consensus size: 40 54532360 ATTCGAATGA * 54532370 TATCCGGGCTAAGTCCCGAAGAGCATTCGTGCTAGTGATG 1 TATCCGGGCTAAGTCCCGAAGAGCATTCGTGCTAGTGACG ** 54532410 TATCCGGGCTAAGTCCCGAAGAGCATTCGTGCTAGTGATA 1 TATCCGGGCTAAGTCCCGAAGAGCATTCGTGCTAGTGACG * 54532450 TATCCGGGCTAAGTCCCGAAGAGCATTCGTGCTAGTGATG 1 TATCCGGGCTAAGTCCCGAAGAGCATTCGTGCTAGTGACG 54532490 TATCCGGGCTAAGTCCCGAAGAGCATTCGTGCTAGTGACG 1 TATCCGGGCTAAGTCCCGAAGAGCATTCGTGCTAGTGACG 54532530 TATCCGGGCTAAGTCCCGAAGAGCATTCGTGCTAGTGACG 1 TATCCGGGCTAAGTCCCGAAGAGCATTCGTGCTAGTGACG 54532570 TATCCGGGCTAAGTCCCGAAGAGCATTCGTGCTAGTGACG 1 TATCCGGGCTAAGTCCCGAAGAGCATTCGTGCTAGTGACG 54532610 TATCCGGGCTAAGTCCCGAAGAGCATTCGTGCTAGTGACG 1 TATCCGGGCTAAGTCCCGAAGAGCATTCGTGCTAGTGACG 54532650 TATCCGGGCTAAGTCCCGAAGAGCATTCGTGCTAGTGACG 1 TATCCGGGCTAAGTCCCGAAGAGCATTCGTGCTAGTGACG 54532690 TATCCGGGCTAAGTCCCGAAGAGCATTCGTGCTAGTGACG 1 TATCCGGGCTAAGTCCCGAAGAGCATTCGTGCTAGTGACG 54532730 TATCCGGGCTAAGTCCCGAAGAGCATTCGTGCTAGTGACG 1 TATCCGGGCTAAGTCCCGAAGAGCATTCGTGCTAGTGACG 54532770 TATCCGGGCTAAGTCCCGAAGAGCATTCGTGCTAGTGACG 1 TATCCGGGCTAAGTCCCGAAGAGCATTCGTGCTAGTGACG 54532810 TATCCGGGCTAAGTCCCGAAGAGCATTCGTGCTAGTGACG 1 TATCCGGGCTAAGTCCCGAAGAGCATTCGTGCTAGTGACG 54532850 TATCCGGGCTAAGTCCCGAAGAGCATTCGTGCTAGTGACG 1 TATCCGGGCTAAGTCCCGAAGAGCATTCGTGCTAGTGACG 54532890 TATCCGGGCTAAGTCCCGAAGAGCATTCGTGCTAGTGACG 1 TATCCGGGCTAAGTCCCGAAGAGCATTCGTGCTAGTGACG 54532930 TATCCGGGCTAAGTCCCGAAGAGCATTCGTGCTAGTGACG 1 TATCCGGGCTAAGTCCCGAAGAGCATTCGTGCTAGTGACG 54532970 TATCCGGGCTAAGTCCCGAAGAGCATTCGTGCTAGTGACG 1 TATCCGGGCTAAGTCCCGAAGAGCATTCGTGCTAGTGACG 54533010 TATCCGGGCTAAGTCCCGAAGAGCATTCGTGCTAGTGACG 1 TATCCGGGCTAAGTCCCGAAGAGCATTCGTGCTAGTGACG 54533050 TATCCGGGCTAAGTCCCGAAGAGCATTCGTGCTAGTGACG 1 TATCCGGGCTAAGTCCCGAAGAGCATTCGTGCTAGTGACG 54533090 TATCCGGGCTAAGTCCCGAAGAGCATTCGTGCTAGTGACG 1 TATCCGGGCTAAGTCCCGAAGAGCATTCGTGCTAGTGACG 54533130 TATCCGGGCTAAGTCCCGAAGAGCATTCGTGCTAGTGACG 1 TATCCGGGCTAAGTCCCGAAGAGCATTCGTGCTAGTGACG 54533170 TATCCGGGCTAAGTCCCGAAGAGCATTCGTGCTAGTGACG 1 TATCCGGGCTAAGTCCCGAAGAGCATTCGTGCTAGTGACG 54533210 TATCCGGGCTAAGTCCCGAAGAGCATTCGTGCTAGTGACG 1 TATCCGGGCTAAGTCCCGAAGAGCATTCGTGCTAGTGACG * 54533250 TATCCGGGCTAAGTCCCGAAGAGCATTCGTGCTAGTGATG 1 TATCCGGGCTAAGTCCCGAAGAGCATTCGTGCTAGTGACG * 54533290 TATCCGGGCTAAGTCCCGAAGAGCATTCGTGCTAGTGATG 1 TATCCGGGCTAAGTCCCGAAGAGCATTCGTGCTAGTGACG * 54533330 TATCCGGGCTAAGTCCCGAAGAGCATTCGTGCTAGTGATG 1 TATCCGGGCTAAGTCCCGAAGAGCATTCGTGCTAGTGACG * * 54533370 TATCCGGGCTAAGTCCCGAAGAGCATTCGTGCTAGCGATG 1 TATCCGGGCTAAGTCCCGAAGAGCATTCGTGCTAGTGACG * * * 54533410 TATCCGGGCTAAGTTCCGAAGAGCATTCGTGCTAGCGATG 1 TATCCGGGCTAAGTCCCGAAGAGCATTCGTGCTAGTGACG * 54533450 TATCCGGGCTAAGTTCCGAAGAGCATTCGTGCTAGTGACG 1 TATCCGGGCTAAGTCCCGAAGAGCATTCGTGCTAGTGACG * * 54533490 TATCCGGGCTAAGTTCCGAAGAGCATTCGTGCTAGTGATG 1 TATCCGGGCTAAGTCCCGAAGAGCATTCGTGCTAGTGACG * ** 54533530 TATCCGGGCTAAGTTCCGAAGAGCATTCGTGCTAGTGATA 1 TATCCGGGCTAAGTCCCGAAGAGCATTCGTGCTAGTGACG * * * 54533570 TATCCGGGCTAAGTCCCGAAGAGCATTCATGCTAGCGATG 1 TATCCGGGCTAAGTCCCGAAGAGCATTCGTGCTAGTGACG * ** 54533610 TATCCGGGCTAAGTTCCGAAGAGCATTCGTGCTAGTGATA 1 TATCCGGGCTAAGTCCCGAAGAGCATTCGTGCTAGTGACG * * * * * 54533650 TATCCGTGCTAAATCCCGAAGAGCAATCATGCTGGTGACG 1 TATCCGGGCTAAGTCCCGAAGAGCATTCGTGCTAGTGACG 54533690 T 1 T 54533691 GTATTCGGGC Statistics Matches: 1255, Mismatches: 26, Indels: 0 0.98 0.02 0.00 Matches are distributed among these distances: 40 1255 1.00 ACGTcount: A:0.23, C:0.24, G:0.30, T:0.24 Consensus pattern (40 bp): TATCCGGGCTAAGTCCCGAAGAGCATTCGTGCTAGTGACG Found at i:54536700 original size:35 final size:35 Alignment explanation
Indices: 54536656--54536727 Score: 144 Period size: 35 Copynumber: 2.1 Consensus size: 35 54536646 AGTAACGTGA 54536656 TTTTAGAAAATCACCATAAATTTATGGATTTGAAT 1 TTTTAGAAAATCACCATAAATTTATGGATTTGAAT 54536691 TTTTAGAAAATCACCATAAATTTATGGATTTGAAT 1 TTTTAGAAAATCACCATAAATTTATGGATTTGAAT 54536726 TT 1 TT 54536728 GAGGCTGAAT Statistics Matches: 37, Mismatches: 0, Indels: 0 1.00 0.00 0.00 Matches are distributed among these distances: 35 37 1.00 ACGTcount: A:0.39, C:0.08, G:0.11, T:0.42 Consensus pattern (35 bp): TTTTAGAAAATCACCATAAATTTATGGATTTGAAT Found at i:54537761 original size:22 final size:22 Alignment explanation
Indices: 54537731--54537773 Score: 68 Period size: 22 Copynumber: 2.0 Consensus size: 22 54537721 ACACCAAAAC * * 54537731 AGGCTTTTAGCGGCGCTTTTTT 1 AGGCCTTTAGCGACGCTTTTTT 54537753 AGGCCTTTAGCGACGCTTTTT 1 AGGCCTTTAGCGACGCTTTTT 54537774 AGCGCCGCTG Statistics Matches: 19, Mismatches: 2, Indels: 0 0.90 0.10 0.00 Matches are distributed among these distances: 22 19 1.00 ACGTcount: A:0.12, C:0.21, G:0.26, T:0.42 Consensus pattern (22 bp): AGGCCTTTAGCGACGCTTTTTT Found at i:54537906 original size:43 final size:43 Alignment explanation
Indices: 54537845--54538090 Score: 287 Period size: 43 Copynumber: 5.7 Consensus size: 43 54537835 GCGTCGCTAA * ** 54537845 CTTTAGCGGCGCTTTTCCCACAAACGCCGCTAAAGGCCAGGAC 1 CTTTAGCGGCGCTTTTCCCACAAACGCCGCTATAGATCAGGAC * * * 54537888 CTTTAACGGCGCTTTTCCCACAAACGCCGCTATAGATTAGAAC 1 CTTTAGCGGCGCTTTTCCCACAAACGCCGCTATAGATCAGGAC * * 54537931 CTTTAGCGACACTTTTCCCACAAACGCCGCTATAGATCAGGAC 1 CTTTAGCGGCGCTTTTCCCACAAACGCCGCTATAGATCAGGAC * * * 54537974 CTTTAGCGGCACTTTT-ACACAAACGCCGCTATAGATCAAGAC 1 CTTTAGCGGCGCTTTTCCCACAAACGCCGCTATAGATCAGGAC *** * * 54538016 CTTTAGCGGCGCTTTTTTTATAAACGCCGCTATAGATCATGAC 1 CTTTAGCGGCGCTTTTCCCACAAACGCCGCTATAGATCAGGAC * * * ** * 54538059 TTTTAGCGACGTTTTTTTCGCAAACGCCGCTA 1 CTTTAGCGGCGCTTTTCCCACAAACGCCGCTA 54538091 AAAGTGCCAT Statistics Matches: 177, Mismatches: 25, Indels: 2 0.87 0.12 0.01 Matches are distributed among these distances: 42 39 0.22 43 138 0.78 ACGTcount: A:0.26, C:0.29, G:0.18, T:0.27 Consensus pattern (43 bp): CTTTAGCGGCGCTTTTCCCACAAACGCCGCTATAGATCAGGAC Found at i:54538041 original size:85 final size:86 Alignment explanation
Indices: 54537845--54538066 Score: 286 Period size: 85 Copynumber: 2.6 Consensus size: 86 54537835 GCGTCGCTAA * ** * * * 54537845 CTTTAGCGGCGCTTTTCCCACAAACGCCGCTAAAGGCCAGGACCTTTAACGGCGCTTTTCCCACA 1 CTTTAGCGGCGCTTTTCCCACAAACGCCGCTATAGATCAGGACCTTTAGCGGCACTTTTCACACA * 54537910 AACGCCGCTATAGATTAGAAC 66 AACGCCGCTATAGATAAGAAC * * 54537931 CTTTAGCGACACTTTTCCCACAAACGCCGCTATAGATCAGGACCTTTAGCGGCACTTTT-ACACA 1 CTTTAGCGGCGCTTTTCCCACAAACGCCGCTATAGATCAGGACCTTTAGCGGCACTTTTCACACA 54537995 AACGCCGCTATAGATCAAG-AC 66 AACGCCGCTATAGAT-AAGAAC *** * * * 54538016 CTTTAGCGGCGCTTTTTTTATAAACGCCGCTATAGATCATGACTTTTAGCG 1 CTTTAGCGGCGCTTTTCCCACAAACGCCGCTATAGATCAGGACCTTTAGCG 54538067 ACGTTTTTTT Statistics Matches: 118, Mismatches: 17, Indels: 3 0.86 0.12 0.02 Matches are distributed among these distances: 85 64 0.54 86 54 0.46 ACGTcount: A:0.26, C:0.29, G:0.18, T:0.26 Consensus pattern (86 bp): CTTTAGCGGCGCTTTTCCCACAAACGCCGCTATAGATCAGGACCTTTAGCGGCACTTTTCACACA AACGCCGCTATAGATAAGAAC Found at i:54542672 original size:21 final size:21 Alignment explanation
Indices: 54542648--54542688 Score: 64 Period size: 21 Copynumber: 2.0 Consensus size: 21 54542638 AACCCTAAAT * 54542648 CCCTAACTCTTAACCCCTAAC 1 CCCTAACTATTAACCCCTAAC * 54542669 CCCTAACTATTAATCCCTAA 1 CCCTAACTATTAACCCCTAA 54542689 ACCTTAAATC Statistics Matches: 18, Mismatches: 2, Indels: 0 0.90 0.10 0.00 Matches are distributed among these distances: 21 18 1.00 ACGTcount: A:0.32, C:0.41, G:0.00, T:0.27 Consensus pattern (21 bp): CCCTAACTATTAACCCCTAAC Found at i:54542684 original size:35 final size:34 Alignment explanation
Indices: 54542645--54542723 Score: 88 Period size: 35 Copynumber: 2.3 Consensus size: 34 54542635 TGAAACCCTA * * 54542645 AATCCCTAACTCTTAACCCCTAACCCCT-AACTATT 1 AATCCCTAAC-CTTAAACCCTAACACCTAAACTA-T * * 54542680 AATCCCTAAACCTTAAATCCTAACACTTAAACTAT 1 AATCCCT-AACCTTAAACCCTAACACCTAAACTAT 54542715 AATCCCTAA 1 AATCCCTAA 54542724 ATCCATATAT Statistics Matches: 38, Mismatches: 4, Indels: 5 0.81 0.09 0.11 Matches are distributed among these distances: 34 2 0.05 35 28 0.74 36 8 0.21 ACGTcount: A:0.38, C:0.34, G:0.00, T:0.28 Consensus pattern (34 bp): AATCCCTAACCTTAAACCCTAACACCTAAACTAT Found at i:54542925 original size:23 final size:24 Alignment explanation
Indices: 54542886--54542939 Score: 76 Period size: 22 Copynumber: 2.3 Consensus size: 24 54542876 TATATGAAAT * 54542886 TATTTAATATATAAATTAAAAAAA 1 TATTTAATAAATAAATTAAAAAAA 54542910 TATTTAA-AAATAAATT-AAAAAA 1 TATTTAATAAATAAATTAAAAAAA * 54542932 TAATTAAT 1 TATTTAAT 54542940 CTAAACCCAA Statistics Matches: 27, Mismatches: 2, Indels: 3 0.84 0.06 0.09 Matches are distributed among these distances: 22 12 0.44 23 8 0.30 24 7 0.26 ACGTcount: A:0.63, C:0.00, G:0.00, T:0.37 Consensus pattern (24 bp): TATTTAATAAATAAATTAAAAAAA Found at i:54543012 original size:22 final size:22 Alignment explanation
Indices: 54542969--54543031 Score: 58 Period size: 22 Copynumber: 2.9 Consensus size: 22 54542959 TTGACCCATG * * 54542969 AACTCATAAACCCTAAATCCCT 1 AACTCATAAACCCCAAACCCCT * * 54542991 AACTCTTAACCCCCAAACCCCT 1 AACTCATAAACCCCAAACCCCT 54543013 AAC-CACT-AACCCCTAAACC 1 AACTCA-TAAACCCC-AAACC 54543032 TTAAATCTCA Statistics Matches: 33, Mismatches: 6, Indels: 4 0.77 0.14 0.09 Matches are distributed among these distances: 21 6 0.18 22 27 0.82 ACGTcount: A:0.38, C:0.44, G:0.00, T:0.17 Consensus pattern (22 bp): AACTCATAAACCCCAAACCCCT Found at i:54543044 original size:21 final size:20 Alignment explanation
Indices: 54543020--54543100 Score: 74 Period size: 21 Copynumber: 3.9 Consensus size: 20 54543010 CCTAACCACT * 54543020 AACCCCTAAACCTTAAATCTC 1 AACCCATAAACCTTAAATC-C * 54543041 AACCCATAAACCAT-AATCCC 1 AACCCATAAACCTTAAAT-CC * * 54543061 TAATCCATAATCCTTAAATCC 1 -AACCCATAAACCTTAAATCC 54543082 ATACTCCATAAACCTTAAA 1 A-AC-CCATAAACCTTAAA 54543101 ACAGTAACTC Statistics Matches: 48, Mismatches: 7, Indels: 9 0.75 0.11 0.14 Matches are distributed among these distances: 20 5 0.10 21 27 0.56 22 16 0.33 ACGTcount: A:0.42, C:0.33, G:0.00, T:0.25 Consensus pattern (20 bp): AACCCATAAACCTTAAATCC Found at i:54543082 original size:15 final size:15 Alignment explanation
Indices: 54543047--54543084 Score: 53 Period size: 14 Copynumber: 2.7 Consensus size: 15 54543037 TCTCAACCCA 54543047 TAAA-CCATAATCCC 1 TAAATCCATAATCCC * 54543061 T-AATCCATAATCCT 1 TAAATCCATAATCCC 54543075 TAAATCCATA 1 TAAATCCATA 54543085 CTCCATAAAC Statistics Matches: 21, Mismatches: 1, Indels: 3 0.84 0.04 0.12 Matches are distributed among these distances: 13 2 0.10 14 11 0.52 15 8 0.38 ACGTcount: A:0.42, C:0.29, G:0.00, T:0.29 Consensus pattern (15 bp): TAAATCCATAATCCC Found at i:54543089 original size:22 final size:22 Alignment explanation
Indices: 54543026--54543100 Score: 84 Period size: 22 Copynumber: 3.5 Consensus size: 22 54543016 CACTAACCCC 54543026 TAAACCTTAAATCTCA-AC-CCA 1 TAAACCTTAAATC-CATACTCCA * * * 54543047 TAAACCAT-AATCCCTAATCCA 1 TAAACCTTAAATCCATACTCCA * 54543068 TAATCCTTAAATCCATACTCCA 1 TAAACCTTAAATCCATACTCCA 54543090 TAAACCTTAAA 1 TAAACCTTAAA 54543101 ACAGTAACTC Statistics Matches: 43, Mismatches: 8, Indels: 5 0.77 0.14 0.09 Matches are distributed among these distances: 19 1 0.02 20 5 0.12 21 16 0.37 22 21 0.49 ACGTcount: A:0.43, C:0.31, G:0.00, T:0.27 Consensus pattern (22 bp): TAAACCTTAAATCCATACTCCA Found at i:54543093 original size:15 final size:15 Alignment explanation
Indices: 54543044--54543093 Score: 59 Period size: 15 Copynumber: 3.5 Consensus size: 15 54543034 AAATCTCAAC 54543044 CCATAAA-CCATAAT 1 CCATAAATCCATAAT * 54543058 CCCT-AATCCATAAT 1 CCATAAATCCATAAT * * 54543072 CCTTAAATCCATACT 1 CCATAAATCCATAAT 54543087 CCATAAA 1 CCATAAA 54543094 CCTTAAAACA Statistics Matches: 30, Mismatches: 4, Indels: 3 0.81 0.11 0.08 Matches are distributed among these distances: 13 2 0.07 14 13 0.43 15 15 0.50 ACGTcount: A:0.42, C:0.32, G:0.00, T:0.26 Consensus pattern (15 bp): CCATAAATCCATAAT Found at i:54543376 original size:41 final size:41 Alignment explanation
Indices: 54543317--54543432 Score: 180 Period size: 41 Copynumber: 2.8 Consensus size: 41 54543307 TAAAATGTTT * 54543317 TTAGCGGCGCTTTATCAAAAACGCCGCTAAAGCCCCTA-CCA 1 TTAGCGGCGCTTTTTCAAAAACGCCGCTAAAGCCCC-AGCCA * * 54543358 TTAGCGGCGCTTTTTCAAAAACGCCGCTAAAGACCCAGGCA 1 TTAGCGGCGCTTTTTCAAAAACGCCGCTAAAGCCCCAGCCA * 54543399 TTAGCGGCGCTTTTTGAAAAACGCCGCTAAAGCC 1 TTAGCGGCGCTTTTTCAAAAACGCCGCTAAAGCC 54543433 ACGAAATGTT Statistics Matches: 69, Mismatches: 5, Indels: 2 0.91 0.07 0.03 Matches are distributed among these distances: 40 1 0.01 41 68 0.99 ACGTcount: A:0.28, C:0.30, G:0.21, T:0.21 Consensus pattern (41 bp): TTAGCGGCGCTTTTTCAAAAACGCCGCTAAAGCCCCAGCCA Found at i:54543512 original size:39 final size:39 Alignment explanation
Indices: 54543468--54543546 Score: 122 Period size: 39 Copynumber: 2.0 Consensus size: 39 54543458 TAGGCTAAGG * * * 54543468 TTTTTTGCGGCGTTTTTTTGAAAAACGCCGCTAATGCTCA 1 TTTTTAGCGGCATTTTTTT-AAAAACGCCACTAATGCTCA 54543508 TTTTTAGCGGCATTTTTTTAAAAACGCCACTAATGCTCA 1 TTTTTAGCGGCATTTTTTTAAAAACGCCACTAATGCTCA 54543547 ATCTTTAGTG Statistics Matches: 36, Mismatches: 3, Indels: 1 0.90 0.08 0.03 Matches are distributed among these distances: 39 19 0.53 40 17 0.47 ACGTcount: A:0.24, C:0.20, G:0.16, T:0.39 Consensus pattern (39 bp): TTTTTAGCGGCATTTTTTTAAAAACGCCACTAATGCTCA Found at i:54543518 original size:40 final size:40 Alignment explanation
Indices: 54543468--54543605 Score: 127 Period size: 40 Copynumber: 3.5 Consensus size: 40 54543458 TAGGCTAAGG * 54543468 TTTTTTGCGGCGTTTTTTTGAAAAACGCCGCTAATGCTCA 1 TTTTTAGCGGCGTTTTTTTGAAAAACGCCGCTAATGCTCA * * 54543508 TTTTTAGCGGCATTTTTTT-AAAAACGCCACTAATGCTCAA 1 TTTTTAGCGGCGTTTTTTTGAAAAACGCCGCTAATGCTC-A * * * *** * * * 54543548 TCTTTAGTGGCGATTTCCAG-AAAGCGCCGCCAATGCTTGA 1 TTTTTAGCGGCGTTTTTTTGAAAAACGCCGCTAATGC-TCA * 54543588 TTTTTACCGGCGTTTTTT 1 TTTTTAGCGGCGTTTTTT 54543606 GTCCAAACGC Statistics Matches: 75, Mismatches: 20, Indels: 6 0.74 0.20 0.06 Matches are distributed among these distances: 39 18 0.24 40 56 0.75 41 1 0.01 ACGTcount: A:0.22, C:0.21, G:0.19, T:0.38 Consensus pattern (40 bp): TTTTTAGCGGCGTTTTTTTGAAAAACGCCGCTAATGCTCA Found at i:54547469 original size:37 final size:37 Alignment explanation
Indices: 54547427--54547501 Score: 150 Period size: 37 Copynumber: 2.0 Consensus size: 37 54547417 ACTTCTTTTC 54547427 TCTGAAGAATTATCGAGATCATTCATATTTTTTCTTA 1 TCTGAAGAATTATCGAGATCATTCATATTTTTTCTTA 54547464 TCTGAAGAATTATCGAGATCATTCATATTTTTTCTTA 1 TCTGAAGAATTATCGAGATCATTCATATTTTTTCTTA 54547501 T 1 T 54547502 GAGCTTTGTT Statistics Matches: 38, Mismatches: 0, Indels: 0 1.00 0.00 0.00 Matches are distributed among these distances: 37 38 1.00 ACGTcount: A:0.29, C:0.13, G:0.11, T:0.47 Consensus pattern (37 bp): TCTGAAGAATTATCGAGATCATTCATATTTTTTCTTA Found at i:54550868 original size:23 final size:23 Alignment explanation
Indices: 54550814--54550932 Score: 220 Period size: 23 Copynumber: 5.1 Consensus size: 23 54550804 CCTAGCCTCT * 54550814 TTTAATAACTGGGGCAAAAGCCC 1 TTTAATAACTGGGGCATAAGCCC 54550837 TTTTAATAACTGGGGCATAAGCCC 1 -TTTAATAACTGGGGCATAAGCCC 54550861 TTTAATAACTGGGGCATAAGCCC 1 TTTAATAACTGGGGCATAAGCCC 54550884 TTTAATAACTGGGGCATAAGCCC 1 TTTAATAACTGGGGCATAAGCCC 54550907 TTTAATAACTGGGGCATAAGCCC 1 TTTAATAACTGGGGCATAAGCCC 54550930 TTT 1 TTT 54550933 TACACTTCCT Statistics Matches: 94, Mismatches: 1, Indels: 1 0.98 0.01 0.01 Matches are distributed among these distances: 23 72 0.77 24 22 0.23 ACGTcount: A:0.30, C:0.21, G:0.21, T:0.28 Consensus pattern (23 bp): TTTAATAACTGGGGCATAAGCCC Found at i:54551008 original size:20 final size:20 Alignment explanation
Indices: 54550983--54551049 Score: 116 Period size: 20 Copynumber: 3.4 Consensus size: 20 54550973 TTATGAATAC 54550983 ATCATGTGCATATCATACAT 1 ATCATGTGCATATCATACAT 54551003 ATCATGTGCATATCATACAT 1 ATCATGTGCATATCATACAT * 54551023 GTCATGTGCATATCATACAT 1 ATCATGTGCATATCATACAT * 54551043 ACCATGT 1 ATCATGT 54551050 TTATCAAAAT Statistics Matches: 44, Mismatches: 3, Indels: 0 0.94 0.06 0.00 Matches are distributed among these distances: 20 44 1.00 ACGTcount: A:0.33, C:0.21, G:0.12, T:0.34 Consensus pattern (20 bp): ATCATGTGCATATCATACAT Found at i:54551014 original size:11 final size:11 Alignment explanation
Indices: 54550983--54551038 Score: 57 Period size: 11 Copynumber: 5.5 Consensus size: 11 54550973 TTATGAATAC 54550983 ATCATGTGCAT 1 ATCATGTGCAT * 54550994 ATCA--TACAT 1 ATCATGTGCAT 54551003 ATCATGTGCAT 1 ATCATGTGCAT * 54551014 ATCA--TACAT 1 ATCATGTGCAT * 54551023 GTCATGTGCAT 1 ATCATGTGCAT 54551034 ATCAT 1 ATCAT 54551039 ACATACCATG Statistics Matches: 35, Mismatches: 6, Indels: 8 0.71 0.12 0.16 Matches are distributed among these distances: 9 15 0.43 11 20 0.57 ACGTcount: A:0.32, C:0.20, G:0.12, T:0.36 Consensus pattern (11 bp): ATCATGTGCAT Found at i:54551118 original size:25 final size:25 Alignment explanation
Indices: 54551086--54551133 Score: 69 Period size: 25 Copynumber: 1.9 Consensus size: 25 54551076 ATACATAAAC * * * 54551086 CCTAGGGGTATAATGGTCATTTTTA 1 CCTAGGGGCAAAACGGTCATTTTTA 54551111 CCTAGGGGCAAAACGGTCATTTT 1 CCTAGGGGCAAAACGGTCATTTT 54551134 CATGTTATAA Statistics Matches: 20, Mismatches: 3, Indels: 0 0.87 0.13 0.00 Matches are distributed among these distances: 25 20 1.00 ACGTcount: A:0.25, C:0.17, G:0.25, T:0.33 Consensus pattern (25 bp): CCTAGGGGCAAAACGGTCATTTTTA Found at i:54557109 original size:48 final size:48 Alignment explanation
Indices: 54557034--54557309 Score: 326 Period size: 48 Copynumber: 5.8 Consensus size: 48 54557024 ACCGTGCTAA * * 54557034 ATGTGCCTGTGTAAGACCATGTCCGGGAGATGGCATCGGCGATGATAT 1 ATGTGCCTGTGTAAGACCATGTCTGGGACATGGCATCGGCGATGATAT * * * 54557082 ATATGCCTGTGTAAGACCATGT-TCGGGACATGGCATCAGTGATGATAT 1 ATGTGCCTGTGTAAGACCATGTCT-GGGACATGGCATCGGCGATGATAT * * 54557130 ATGTGCCTGTGTAAGACCATGTCTAGGACACGGCATCGGCGATGATAT 1 ATGTGCCTGTGTAAGACCATGTCTGGGACATGGCATCGGCGATGATAT * * * 54557178 ATGCGCCTGTGTAA-AGCCATGTCTGGAACATGGCATCAGCGATGATAT 1 ATGTGCCTGTGTAAGA-CCATGTCTGGGACATGGCATCGGCGATGATAT * * * * 54557226 GTGTGCCAGTGTAAGACCATGTCTGGGACATGGCATTGGCGGTGATAT 1 ATGTGCCTGTGTAAGACCATGTCTGGGACATGGCATCGGCGATGATAT * ** * 54557274 GTG-GATTCATGTAAGACCATGTC-GAGGACATGGCAT 1 ATGTGCCT-GTGTAAGACCATGTCTG-GGACATGGCAT 54557310 TAGTACTTTT Statistics Matches: 196, Mismatches: 26, Indels: 12 0.84 0.11 0.05 Matches are distributed among these distances: 47 3 0.02 48 191 0.97 49 2 0.01 ACGTcount: A:0.25, C:0.18, G:0.30, T:0.26 Consensus pattern (48 bp): ATGTGCCTGTGTAAGACCATGTCTGGGACATGGCATCGGCGATGATAT Found at i:54561200 original size:17 final size:18 Alignment explanation
Indices: 54561166--54561203 Score: 51 Period size: 17 Copynumber: 2.2 Consensus size: 18 54561156 TACTCATCCA * 54561166 TTCATTTTTTTTCATTCT 1 TTCATTTTTCTTCATTCT * 54561184 TTCA-TTTTCTTCTTTCT 1 TTCATTTTTCTTCATTCT 54561201 TTC 1 TTC 54561204 CACTCCTAGA Statistics Matches: 18, Mismatches: 2, Indels: 1 0.86 0.10 0.05 Matches are distributed among these distances: 17 14 0.78 18 4 0.22 ACGTcount: A:0.08, C:0.21, G:0.00, T:0.71 Consensus pattern (18 bp): TTCATTTTTCTTCATTCT Found at i:54563639 original size:18 final size:19 Alignment explanation
Indices: 54563616--54563654 Score: 53 Period size: 19 Copynumber: 2.1 Consensus size: 19 54563606 TATAAGAATT * 54563616 TTTATTCAT-TTTTTAGAA 1 TTTATTCATATTTTTACAA * 54563634 TTTATTTATATTTTTACAA 1 TTTATTCATATTTTTACAA 54563653 TT 1 TT 54563655 ATTGTTAGGA Statistics Matches: 18, Mismatches: 2, Indels: 1 0.86 0.10 0.05 Matches are distributed among these distances: 18 8 0.44 19 10 0.56 ACGTcount: A:0.28, C:0.05, G:0.03, T:0.64 Consensus pattern (19 bp): TTTATTCATATTTTTACAA Found at i:54564596 original size:18 final size:19 Alignment explanation
Indices: 54564562--54564601 Score: 64 Period size: 18 Copynumber: 2.2 Consensus size: 19 54564552 CTCACCACAC * 54564562 ATCTACTTTTTAAAAAAAA 1 ATCTACTTTTAAAAAAAAA 54564581 ATCTAC-TTTAAAAAAAAA 1 ATCTACTTTTAAAAAAAAA 54564599 ATC 1 ATC 54564602 GCTACTCAAA Statistics Matches: 20, Mismatches: 1, Indels: 1 0.91 0.05 0.05 Matches are distributed among these distances: 18 14 0.70 19 6 0.30 ACGTcount: A:0.55, C:0.12, G:0.00, T:0.33 Consensus pattern (19 bp): ATCTACTTTTAAAAAAAAA Found at i:54567415 original size:20 final size:20 Alignment explanation
Indices: 54567337--54567408 Score: 94 Period size: 20 Copynumber: 3.6 Consensus size: 20 54567327 AAAAATATAA * * 54567337 ATTTTGAAAATTTTATAAA-T 1 ATTTTGAATA-TTTAAAAATT 54567357 ATTTTGAAT-TTTAAAAATT 1 ATTTTGAATATTTAAAAATT 54567376 ATTTTGAATATTTAAAAATT 1 ATTTTGAATATTTAAAAATT * 54567396 ATTTTGATTATTT 1 ATTTTGAATATTT 54567409 TGTAATTTTT Statistics Matches: 47, Mismatches: 3, Indels: 4 0.87 0.06 0.07 Matches are distributed among these distances: 18 7 0.15 19 10 0.21 20 30 0.64 ACGTcount: A:0.40, C:0.00, G:0.06, T:0.54 Consensus pattern (20 bp): ATTTTGAATATTTAAAAATT Found at i:54568471 original size:22 final size:20 Alignment explanation
Indices: 54568438--54568477 Score: 53 Period size: 21 Copynumber: 1.9 Consensus size: 20 54568428 TTTGTTTGGA 54568438 AATTTTAGGAATTCTTTTTGC 1 AATTTTAGGAATT-TTTTTGC * 54568459 AATTTTAATGAATTTTTTT 1 AATTTT-AGGAATTTTTTT 54568478 ATATTTTAAA Statistics Matches: 17, Mismatches: 1, Indels: 2 0.85 0.05 0.10 Matches are distributed among these distances: 21 11 0.65 22 6 0.35 ACGTcount: A:0.28, C:0.05, G:0.10, T:0.57 Consensus pattern (20 bp): AATTTTAGGAATTTTTTTGC Found at i:54572339 original size:18 final size:18 Alignment explanation
Indices: 54572298--54572332 Score: 61 Period size: 18 Copynumber: 1.9 Consensus size: 18 54572288 GCCAGGTGTG * 54572298 TATCCTAGCCCTTATATA 1 TATCCTAACCCTTATATA 54572316 TATCCTAACCCTTATAT 1 TATCCTAACCCTTATAT 54572333 GTTTCCTTTT Statistics Matches: 16, Mismatches: 1, Indels: 0 0.94 0.06 0.00 Matches are distributed among these distances: 18 16 1.00 ACGTcount: A:0.29, C:0.29, G:0.03, T:0.40 Consensus pattern (18 bp): TATCCTAACCCTTATATA Found at i:54572623 original size:20 final size:22 Alignment explanation
Indices: 54572590--54572630 Score: 68 Period size: 21 Copynumber: 2.0 Consensus size: 22 54572580 ACAACTAGAA 54572590 CAACCACAAACCCC-GCCGGAG 1 CAACCACAAACCCCTGCCGGAG 54572611 CAACCAC-AACCCCTGCCGGA 1 CAACCACAAACCCCTGCCGGA 54572631 AGCTGAATCA Statistics Matches: 19, Mismatches: 0, Indels: 2 0.90 0.00 0.10 Matches are distributed among these distances: 20 6 0.32 21 13 0.68 ACGTcount: A:0.32, C:0.49, G:0.17, T:0.02 Consensus pattern (22 bp): CAACCACAAACCCCTGCCGGAG Found at i:54596035 original size:26 final size:26 Alignment explanation
Indices: 54595999--54596051 Score: 106 Period size: 26 Copynumber: 2.0 Consensus size: 26 54595989 GACATCTTCA 54595999 ATAGATACTATATGCCCAAGAAAACT 1 ATAGATACTATATGCCCAAGAAAACT 54596025 ATAGATACTATATGCCCAAGAAAACT 1 ATAGATACTATATGCCCAAGAAAACT 54596051 A 1 A 54596052 ACTTCCTGTA Statistics Matches: 27, Mismatches: 0, Indels: 0 1.00 0.00 0.00 Matches are distributed among these distances: 26 27 1.00 ACGTcount: A:0.47, C:0.19, G:0.11, T:0.23 Consensus pattern (26 bp): ATAGATACTATATGCCCAAGAAAACT Found at i:54608832 original size:38 final size:38 Alignment explanation
Indices: 54608781--54608942 Score: 171 Period size: 38 Copynumber: 4.0 Consensus size: 38 54608771 GGAATGAAAA * 54608781 AACGTGGTGCTAAGTGGATATACCACGATTATACGTGT 1 AACGTGGTGCTAAGTGGATATACCACGATTATACATGT * * 54608819 AACGTGGTGCTAAGTGGTTATACCATGATTACACATATTGATACATGT 1 AACGTGGTGCTAAGTGG--AT---AT-A--CCAC-GATT-ATACATGT * * 54608867 AACGTGGTGCTAAGTGGATATACCACGGTTAAACATGT 1 AACGTGGTGCTAAGTGGATATACCACGATTATACATGT * * 54608905 AACGTGGTGCTAAGTGGATATGCCACGGTTATACATGT 1 AACGTGGTGCTAAGTGGATATACCACGATTATACATGT 54608943 TAATTTGAAA Statistics Matches: 105, Mismatches: 9, Indels: 20 0.78 0.07 0.15 Matches are distributed among these distances: 38 60 0.57 39 2 0.02 40 5 0.05 42 1 0.01 43 4 0.04 44 1 0.01 46 5 0.05 47 3 0.03 48 24 0.23 ACGTcount: A:0.30, C:0.15, G:0.25, T:0.30 Consensus pattern (38 bp): AACGTGGTGCTAAGTGGATATACCACGATTATACATGT Found at i:54610606 original size:20 final size:20 Alignment explanation
Indices: 54610581--54610623 Score: 86 Period size: 20 Copynumber: 2.1 Consensus size: 20 54610571 CTATCCCGAC 54610581 GTTGGATATGGGTGAGGGGT 1 GTTGGATATGGGTGAGGGGT 54610601 GTTGGATATGGGTGAGGGGT 1 GTTGGATATGGGTGAGGGGT 54610621 GTT 1 GTT 54610624 ACATAAAACC Statistics Matches: 23, Mismatches: 0, Indels: 0 1.00 0.00 0.00 Matches are distributed among these distances: 20 23 1.00 ACGTcount: A:0.14, C:0.00, G:0.53, T:0.33 Consensus pattern (20 bp): GTTGGATATGGGTGAGGGGT Found at i:54615809 original size:56 final size:58 Alignment explanation
Indices: 54615734--54615880 Score: 140 Period size: 56 Copynumber: 2.6 Consensus size: 58 54615724 CCTATAACAA * * 54615734 GATTACTAGTCCAAGCTAAATCCTTTATATAACGTATGCTCAAAGA-GT-TCA-ATTAG 1 GATTACCAGTCCAGGCTAAATCCTTTATATAACGTATGCT-AAAGAGGTATCATATTAG * *** * ** * 54615790 GGTTACCAGTCCAGGCTAAA-CCCCAATCATAACGTATTCTTGAGAGGTATTATATTAG 1 GATTACCAGTCCAGGCTAAATCCTTTAT-ATAACGTATGCTAAAGAGGTATCATATTAG * * 54615848 GATTACCCGTCCAGGCTAAATCCTTTCTATAAC 1 GATTACCAGTCCAGGCTAAATCCTTTATATAAC 54615881 AAGGTTGATA Statistics Matches: 70, Mismatches: 16, Indels: 8 0.74 0.17 0.09 Matches are distributed among these distances: 55 7 0.10 56 30 0.43 57 2 0.03 58 28 0.40 59 3 0.04 ACGTcount: A:0.32, C:0.22, G:0.16, T:0.31 Consensus pattern (58 bp): GATTACCAGTCCAGGCTAAATCCTTTATATAACGTATGCTAAAGAGGTATCATATTAG Found at i:54621027 original size:40 final size:40 Alignment explanation
Indices: 54620971--54621173 Score: 277 Period size: 40 Copynumber: 5.1 Consensus size: 40 54620961 CGGAATTCAA * * * 54620971 CCGGATATAGCT-ACTCGCTCGAATGCCTTCGGGACATAGC 1 CCGGATATAG-TAACTCGCACAAATGCCTTCGGGACTTAGC * 54621011 CCGGTTATAGTAACTCGCACAAATGCCTTCGGGACTTAGC 1 CCGGATATAGTAACTCGCACAAATGCCTTCGGGACTTAGC * * 54621051 CCGGATATAGTAACTCGCACGAATGCCTTCAGGACTTAGC 1 CCGGATATAGTAACTCGCACAAATGCCTTCGGGACTTAGC * * 54621091 CCGGATATAATAACTCGCACAATTGCCTTCGGG-CTTAGC 1 CCGGATATAGTAACTCGCACAAATGCCTTCGGGACTTAGC * * 54621130 CCGGA-ATTAGTCACTAGCACAAATGCCTTCGGGACTTAGC 1 CCGGATA-TAGTAACTCGCACAAATGCCTTCGGGACTTAGC 54621170 CCGG 1 CCGG 54621174 TTATCATCTG Statistics Matches: 145, Mismatches: 15, Indels: 6 0.87 0.09 0.04 Matches are distributed among these distances: 38 1 0.01 39 34 0.23 40 110 0.76 ACGTcount: A:0.25, C:0.29, G:0.23, T:0.23 Consensus pattern (40 bp): CCGGATATAGTAACTCGCACAAATGCCTTCGGGACTTAGC Found at i:54625041 original size:50 final size:50 Alignment explanation
Indices: 54624966--54625065 Score: 200 Period size: 50 Copynumber: 2.0 Consensus size: 50 54624956 ATAAGTTTTT 54624966 AGTTGGTCAAAACTTTTCAGACATTTTTCCGTCCATTCGAACTTAACATC 1 AGTTGGTCAAAACTTTTCAGACATTTTTCCGTCCATTCGAACTTAACATC 54625016 AGTTGGTCAAAACTTTTCAGACATTTTTCCGTCCATTCGAACTTAACATC 1 AGTTGGTCAAAACTTTTCAGACATTTTTCCGTCCATTCGAACTTAACATC 54625066 TTTTTGAAGT Statistics Matches: 50, Mismatches: 0, Indels: 0 1.00 0.00 0.00 Matches are distributed among these distances: 50 50 1.00 ACGTcount: A:0.28, C:0.24, G:0.12, T:0.36 Consensus pattern (50 bp): AGTTGGTCAAAACTTTTCAGACATTTTTCCGTCCATTCGAACTTAACATC Found at i:54629279 original size:40 final size:40 Alignment explanation
Indices: 54629235--54629425 Score: 242 Period size: 40 Copynumber: 4.8 Consensus size: 40 54629225 GGATATAGCT * * * * * 54629235 ACTCGCTCGAATGCCTTCGGGACATAGCCCGGTTATAGTA 1 ACTCGCACAAATGCCTTCGGGACTTAGCCCGGATATAATA ** 54629275 ACTCGCACAAATGCCTTCGGGACTTAGCCTAGATATAATA 1 ACTCGCACAAATGCCTTCGGGACTTAGCCCGGATATAATA * 54629315 ACTCGCACGAATGCCTTCGGGACTTAGCCCGGATATAATA 1 ACTCGCACAAATGCCTTCGGGACTTAGCCCGGATATAATA * * * * 54629355 ACTCGCACAATTGCCTTCGGG-CTTAGCCC-GAAATTAGTC 1 ACTCGCACAAATGCCTTCGGGACTTAGCCCGGATA-TAATA * 54629394 ACTAGCACAAATGCCTTCGGGACTTAGCCCGG 1 ACTCGCACAAATGCCTTCGGGACTTAGCCCGG 54629426 TTATCATCCG Statistics Matches: 131, Mismatches: 17, Indels: 5 0.86 0.11 0.03 Matches are distributed among these distances: 38 3 0.02 39 30 0.23 40 97 0.74 41 1 0.01 ACGTcount: A:0.26, C:0.28, G:0.22, T:0.24 Consensus pattern (40 bp): ACTCGCACAAATGCCTTCGGGACTTAGCCCGGATATAATA Found at i:54634086 original size:89 final size:89 Alignment explanation
Indices: 54633984--54634161 Score: 320 Period size: 89 Copynumber: 2.0 Consensus size: 89 54633974 TGCAACTGAG * * * 54633984 CTTTTAACTCTTTTAACTCGGTTGGTGCCATACGATACGGAGCTATCGAAATCGGCGTAGTCCCA 1 CTTTTAACTCTTTTAACTCGATTGGTGCCATACGATACGGAGCTATCGAAATCAGCATAGTCCCA * 54634049 GGTACAGGCTCAATTCCAAACTCT 66 GGTACAAGCTCAATTCCAAACTCT 54634073 CTTTTAACTCTTTTAACTCGATTGGTGCCATACGATACGGAGCTATCGAAATCAGCATAGTCCCA 1 CTTTTAACTCTTTTAACTCGATTGGTGCCATACGATACGGAGCTATCGAAATCAGCATAGTCCCA 54634138 GGTACAAGCTCAATTCCAAACTCT 66 GGTACAAGCTCAATTCCAAACTCT 54634162 ACCTCCCGAA Statistics Matches: 85, Mismatches: 4, Indels: 0 0.96 0.04 0.00 Matches are distributed among these distances: 89 85 1.00 ACGTcount: A:0.27, C:0.26, G:0.18, T:0.29 Consensus pattern (89 bp): CTTTTAACTCTTTTAACTCGATTGGTGCCATACGATACGGAGCTATCGAAATCAGCATAGTCCCA GGTACAAGCTCAATTCCAAACTCT Found at i:54636886 original size:40 final size:40 Alignment explanation
Indices: 54636842--54637032 Score: 242 Period size: 40 Copynumber: 4.8 Consensus size: 40 54636832 GGATATAGCT * * * * * 54636842 ACTCGCTCGAATGCCTTCGGGACATAGCCCGGTTATAGTA 1 ACTCGCACAAATGCCTTCGGGACTTAGCCCGGATATAATA ** 54636882 ACTCGCACAAATGCCTTCGGGACTTAGCCTAGATATAATA 1 ACTCGCACAAATGCCTTCGGGACTTAGCCCGGATATAATA * 54636922 ACTCGCACGAATGCCTTCGGGACTTAGCCCGGATATAATA 1 ACTCGCACAAATGCCTTCGGGACTTAGCCCGGATATAATA * * * * 54636962 ACTCGCACAATTGCCTTCGGG-CTTAGCCC-GAAATTAGTC 1 ACTCGCACAAATGCCTTCGGGACTTAGCCCGGATA-TAATA * 54637001 ACTAGCACAAATGCCTTCGGGACTTAGCCCGG 1 ACTCGCACAAATGCCTTCGGGACTTAGCCCGG 54637033 TTATCATCCG Statistics Matches: 131, Mismatches: 17, Indels: 5 0.86 0.11 0.03 Matches are distributed among these distances: 38 3 0.02 39 30 0.23 40 97 0.74 41 1 0.01 ACGTcount: A:0.26, C:0.28, G:0.22, T:0.24 Consensus pattern (40 bp): ACTCGCACAAATGCCTTCGGGACTTAGCCCGGATATAATA Found at i:54639774 original size:132 final size:132 Alignment explanation
Indices: 54639532--54639795 Score: 492 Period size: 132 Copynumber: 2.0 Consensus size: 132 54639522 TAATGATTGA * 54639532 CTGAAAACTATTGTTGTAAGCGAACTCCATCAAAGGTAGATACCGTTCCCATGAACCACTAAACT 1 CTGAAAACTATTGTTGTAAGCGAACTCCATCAAAGGTAGATACCGTTCCCATGAACCAATAAACT * * 54639597 CAAGGATGTAGCATCTCAACATATCCTCGAGTATCTGAATAATCCGCTCGGATTGACCATCGGTT 66 CAAGGATGTAGCATCTCAACATAACCTCGAGTATCTGAATAATCCGCTCGGATTGACCATCAGTT 54639662 TG 131 TG 54639664 CTGAAAACTATTGTTGTAAGCGAACTCCATCAAAGGTAGATACCGTTCCCATGAACCAATAAACT 1 CTGAAAACTATTGTTGTAAGCGAACTCCATCAAAGGTAGATACCGTTCCCATGAACCAATAAACT * 54639729 CAAGGATGTAGCATCTCAACATAACCTCGAGTATCTGAATTATCCGCTCGGATTGACCATCAGTT 66 CAAGGATGTAGCATCTCAACATAACCTCGAGTATCTGAATAATCCGCTCGGATTGACCATCAGTT 54639794 TG 131 TG 54639796 GGGATGAAAC Statistics Matches: 128, Mismatches: 4, Indels: 0 0.97 0.03 0.00 Matches are distributed among these distances: 132 128 1.00 ACGTcount: A:0.32, C:0.24, G:0.18, T:0.27 Consensus pattern (132 bp): CTGAAAACTATTGTTGTAAGCGAACTCCATCAAAGGTAGATACCGTTCCCATGAACCAATAAACT CAAGGATGTAGCATCTCAACATAACCTCGAGTATCTGAATAATCCGCTCGGATTGACCATCAGTT TG Found at i:54644534 original size:40 final size:40 Alignment explanation
Indices: 54644490--54644680 Score: 242 Period size: 40 Copynumber: 4.8 Consensus size: 40 54644480 GGATATAGCT * * * * * 54644490 ACTCGCTCGAATGCCTTCGGGACATAGCCCGGTTATAGTA 1 ACTCGCACAAATGCCTTCGGGACTTAGCCCGGATATAATA ** 54644530 ACTCGCACAAATGCCTTCGGGACTTAGCCTAGATATAATA 1 ACTCGCACAAATGCCTTCGGGACTTAGCCCGGATATAATA * 54644570 ACTCGCACGAATGCCTTCGGGACTTAGCCCGGATATAATA 1 ACTCGCACAAATGCCTTCGGGACTTAGCCCGGATATAATA * * * * 54644610 ACTCGCACAATTGCCTTCGGG-CTTAGCCC-GAAATTAGTC 1 ACTCGCACAAATGCCTTCGGGACTTAGCCCGGATA-TAATA * 54644649 ACTAGCACAAATGCCTTCGGGACTTAGCCCGG 1 ACTCGCACAAATGCCTTCGGGACTTAGCCCGG 54644681 TTATCATCCG Statistics Matches: 131, Mismatches: 17, Indels: 5 0.86 0.11 0.03 Matches are distributed among these distances: 38 3 0.02 39 30 0.23 40 97 0.74 41 1 0.01 ACGTcount: A:0.26, C:0.28, G:0.22, T:0.24 Consensus pattern (40 bp): ACTCGCACAAATGCCTTCGGGACTTAGCCCGGATATAATA Found at i:54646214 original size:83 final size:83 Alignment explanation
Indices: 54646027--54646193 Score: 327 Period size: 83 Copynumber: 2.0 Consensus size: 83 54646017 AAGAACCAAA 54646027 GAACACAACTTGTTTTCATCACCGAAAGCTCTCTTTTTTTTGTTTTCTTTCTTCAATTCACGGCA 1 GAACACAACTTGTTTTCATCACCGAAAGCTCTCTTTTTTTTGTTTTCTTTCTTCAATTCACGGCA 54646092 AAGGGGGGGGGAAACATG 66 AAGGGGGGGGGAAACATG 54646110 GAACACAACTTGTTTTCATCACCGAAAGCTCTCTTTTTTTTGTTTTCTTTCTTCAATTCACGGCA 1 GAACACAACTTGTTTTCATCACCGAAAGCTCTCTTTTTTTTGTTTTCTTTCTTCAATTCACGGCA 54646175 AA-GGGGGGGGAAACATG 66 AAGGGGGGGGGAAACATG 54646192 GA 1 GA 54646194 TGAGACAATT Statistics Matches: 84, Mismatches: 0, Indels: 1 0.99 0.00 0.01 Matches are distributed among these distances: 82 17 0.20 83 67 0.80 ACGTcount: A:0.25, C:0.20, G:0.20, T:0.35 Consensus pattern (83 bp): GAACACAACTTGTTTTCATCACCGAAAGCTCTCTTTTTTTTGTTTTCTTTCTTCAATTCACGGCA AAGGGGGGGGGAAACATG Found at i:54651583 original size:30 final size:30 Alignment explanation
Indices: 54651549--54651609 Score: 77 Period size: 30 Copynumber: 2.0 Consensus size: 30 54651539 TCCTTAACTC 54651549 AAACTTTGGAAAAATTACAATTTTGCCCCT 1 AAACTTTGGAAAAATTACAATTTTGCCCCT * * * * * 54651579 AAACTTTTGCATATTTACACTTTTGCCCCT 1 AAACTTTGGAAAAATTACAATTTTGCCCCT 54651609 A 1 A 54651610 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:54656548 original size:18 final size:18 Alignment explanation
Indices: 54656525--54656559 Score: 70 Period size: 18 Copynumber: 1.9 Consensus size: 18 54656515 TTTGGCCCAT 54656525 TGCAGTAACAGTAAACAG 1 TGCAGTAACAGTAAACAG 54656543 TGCAGTAACAGTAAACA 1 TGCAGTAACAGTAAACA 54656560 ATATGCAAGT Statistics Matches: 17, Mismatches: 0, Indels: 0 1.00 0.00 0.00 Matches are distributed among these distances: 18 17 1.00 ACGTcount: A:0.46, C:0.17, G:0.20, T:0.17 Consensus pattern (18 bp): TGCAGTAACAGTAAACAG Found at i:54656746 original size:22 final size:22 Alignment explanation
Indices: 54656716--54656766 Score: 75 Period size: 22 Copynumber: 2.3 Consensus size: 22 54656706 ATAATAGGCT * 54656716 TAGAACCATCAGTGATTTACAG 1 TAGAGCCATCAGTGATTTACAG * 54656738 TAGAGCCATCAGTGATTTGCAG 1 TAGAGCCATCAGTGATTTACAG * 54656760 CAGAGCC 1 TAGAGCC 54656767 GCCAGTACAG Statistics Matches: 26, Mismatches: 3, Indels: 0 0.90 0.10 0.00 Matches are distributed among these distances: 22 26 1.00 ACGTcount: A:0.31, C:0.22, G:0.24, T:0.24 Consensus pattern (22 bp): TAGAGCCATCAGTGATTTACAG Found at i:54656772 original size:22 final size:22 Alignment explanation
Indices: 54656725--54656772 Score: 60 Period size: 22 Copynumber: 2.2 Consensus size: 22 54656715 TTAGAACCAT * * 54656725 CAGTGATTTACAGTAGAGCCAT 1 CAGTGATTTACAGCAGAGCCAC * * 54656747 CAGTGATTTGCAGCAGAGCCGC 1 CAGTGATTTACAGCAGAGCCAC 54656769 CAGT 1 CAGT 54656773 ACAGTACACT Statistics Matches: 22, Mismatches: 4, Indels: 0 0.85 0.15 0.00 Matches are distributed among these distances: 22 22 1.00 ACGTcount: A:0.27, C:0.23, G:0.27, T:0.23 Consensus pattern (22 bp): CAGTGATTTACAGCAGAGCCAC Found at i:54657000 original size:54 final size:54 Alignment explanation
Indices: 54656912--54657091 Score: 252 Period size: 54 Copynumber: 3.3 Consensus size: 54 54656902 ATCACATAGG * * * * * 54656912 GGTAAAACAGTCATCTTACCATAAAAGGGAAAAACAGTCATTTTACCTCCTAAA 1 GGTAAAACAGTCATTTTACCACATAAGGGCAAAACAGTCATTTTACCTCATAAA * * 54656966 GGCAAAACAGTCATTTTACTACATAAGGGCAAAACAGTCATTTTACCTCATAAA 1 GGTAAAACAGTCATTTTACCACATAAGGGCAAAACAGTCATTTTACCTCATAAA * * * * 54657020 GGTAAAATAGTCATTTCACCACATAAGGGCAAAACAATCATTTTACCTCATAAG 1 GGTAAAACAGTCATTTTACCACATAAGGGCAAAACAGTCATTTTACCTCATAAA * 54657074 GGTAAAATAGTCATTTTA 1 GGTAAAACAGTCATTTTA 54657092 TCGATTAAGG Statistics Matches: 112, Mismatches: 14, Indels: 0 0.89 0.11 0.00 Matches are distributed among these distances: 54 112 1.00 ACGTcount: A:0.41, C:0.19, G:0.13, T:0.27 Consensus pattern (54 bp): GGTAAAACAGTCATTTTACCACATAAGGGCAAAACAGTCATTTTACCTCATAAA Found at i:54657088 original size:81 final size:81 Alignment explanation
Indices: 54656905--54657091 Score: 227 Period size: 81 Copynumber: 2.3 Consensus size: 81 54656895 AGCATACATC * * * * * 54656905 ACATAGGGGTAAAACAGTCATCTTACCATAAAAGGGAAAAACAGTCATTTTACCTCCTAAAGGCA 1 ACATAAGGGTAAAACAGTCATTTTACCATAAAAGGGAAAAACAGTCATTTCACCACATAAAGGCA * 54656970 AAACAGTCATTTTACT 66 AAACAATCATTTTACT * * * * 54656986 ACATAAGGGCAAAACAGTCATTTTACC-TCATAAA-GGTAAAATAGTCATTTCACCACATAAGGG 1 ACATAAGGGTAAAACAGTCATTTTACCAT-A-AAAGGGAAAAACAGTCATTTCACCACATAAAGG 54657049 CAAAACAATCATTTTACCT 64 CAAAACAATCATTTTA-CT * 54657068 -CATAAGGGTAAAATAGTCATTTTA 1 ACATAAGGGTAAAACAGTCATTTTA 54657092 TCGATTAAGG Statistics Matches: 91, Mismatches: 12, Indels: 6 0.83 0.11 0.06 Matches are distributed among these distances: 80 1 0.01 81 85 0.93 82 5 0.05 ACGTcount: A:0.41, C:0.19, G:0.14, T:0.26 Consensus pattern (81 bp): ACATAAGGGTAAAACAGTCATTTTACCATAAAAGGGAAAAACAGTCATTTCACCACATAAAGGCA AAACAATCATTTTACT Found at i:54657103 original size:27 final size:26 Alignment explanation
Indices: 54656906--54657091 Score: 176 Period size: 27 Copynumber: 6.9 Consensus size: 26 54656896 GCATACATCA * * 54656906 CATAGGGGTAAAACAGTCATCTTAC- 1 CATAAGGGTAAAACAGTCATTTTACT * 54656931 CATAAAAGGGAAAAACAGTCATTTTACCT 1 CAT--AAGGGTAAAACAGTCATTTTA-CT * * * 54656960 CCTAAAGGCAAAACAGTCATTTTACT 1 CATAAGGGTAAAACAGTCATTTTACT * 54656986 ACATAAGGGCAAAACAGTCATTTTACCT 1 -CATAAGGGTAAAACAGTCATTTTA-CT * * * * 54657014 CATAAAGGTAAAATAGTCATTTCACCA 1 CATAAGGGTAAAACAGTCATTTTA-CT * * 54657041 CATAAGGGCAAAACAATCATTTTACCT 1 CATAAGGGTAAAACAGTCATTTTA-CT * 54657068 CATAAGGGTAAAATAGTCATTTTA 1 CATAAGGGTAAAACAGTCATTTTA 54657092 TCGATTAAGG Statistics Matches: 133, Mismatches: 22, Indels: 10 0.81 0.13 0.06 Matches are distributed among these distances: 25 3 0.02 26 2 0.02 27 123 0.92 28 3 0.02 29 2 0.02 ACGTcount: A:0.41, C:0.19, G:0.14, T:0.26 Consensus pattern (26 bp): CATAAGGGTAAAACAGTCATTTTACT Found at i:54672147 original size:54 final size:54 Alignment explanation
Indices: 54672077--54672253 Score: 248 Period size: 54 Copynumber: 3.3 Consensus size: 54 54672067 ACATAGGGGT * * 54672077 AAAACAGTCATCTTACCATAAAAGGGCAAAATAGTCATTTTACCTTATAAGGGC 1 AAAACAGTCATTTTACCATATAAGGGCAAAATAGTCATTTTACCTTATAAGGGC * * * 54672131 AAAACAATCATTTTACC-TCATAAGGGAAAAATAGTCATTTTACTTTATAAGGGC 1 AAAACAGTCATTTTACCAT-ATAAGGGCAAAATAGTCATTTTACCTTATAAGGGC * * * * 54672185 AAAACAGTCATTTCACCACATAAGGGCAAAATAATCATTTTACCTCATAAGGGC 1 AAAACAGTCATTTTACCATATAAGGGCAAAATAGTCATTTTACCTTATAAGGGC * 54672239 AAAATAGTCATTTTA 1 AAAACAGTCATTTTA 54672254 TCGTTTAAGG Statistics Matches: 107, Mismatches: 14, Indels: 4 0.86 0.11 0.03 Matches are distributed among these distances: 53 1 0.01 54 106 0.99 ACGTcount: A:0.41, C:0.18, G:0.13, T:0.28 Consensus pattern (54 bp): AAAACAGTCATTTTACCATATAAGGGCAAAATAGTCATTTTACCTTATAAGGGC Found at i:54672221 original size:81 final size:81 Alignment explanation
Indices: 54672098--54672253 Score: 258 Period size: 81 Copynumber: 1.9 Consensus size: 81 54672088 CTTACCATAA * * ** 54672098 AAGGGCAAAATAGTCATTTTACCTTATAAGGGCAAAACAATCATTTTACCTCATAAGGGAAAAAT 1 AAGGGCAAAACAGTCATTTCACCACATAAGGGCAAAACAATCATTTTACCTCATAAGGGAAAAAT 54672163 AGTCATTTTACTTTAT 66 AGTCATTTTACTTTAT * * 54672179 AAGGGCAAAACAGTCATTTCACCACATAAGGGCAAAATAATCATTTTACCTCATAAGGGCAAAAT 1 AAGGGCAAAACAGTCATTTCACCACATAAGGGCAAAACAATCATTTTACCTCATAAGGGAAAAAT 54672244 AGTCATTTTA 66 AGTCATTTTA 54672254 TCGTTTAAGG Statistics Matches: 69, Mismatches: 6, Indels: 0 0.92 0.08 0.00 Matches are distributed among these distances: 81 69 1.00 ACGTcount: A:0.40, C:0.17, G:0.14, T:0.29 Consensus pattern (81 bp): AAGGGCAAAACAGTCATTTCACCACATAAGGGCAAAACAATCATTTTACCTCATAAGGGAAAAAT AGTCATTTTACTTTAT Found at i:54672263 original size:27 final size:26 Alignment explanation
Indices: 54672077--54672253 Score: 201 Period size: 27 Copynumber: 6.6 Consensus size: 26 54672067 ACATAGGGGT * * * 54672077 AAAACAGTCATCTTACCATAAAAGGGC 1 AAAATAGTCATTTTACC-TATAAGGGC 54672104 AAAATAGTCATTTTACCTTATAAGGGC 1 AAAATAGTCATTTTACC-TATAAGGGC * * * 54672131 AAAACAATCATTTTACCTCATAAGGGA 1 AAAATAGTCATTTTACCT-ATAAGGGC * 54672158 AAAATAGTCATTTTACTTTATAAGGGC 1 AAAATAGTCATTTTAC-CTATAAGGGC * * * 54672185 AAAACAGTCATTTCACCACATAAGGGC 1 AAAATAGTCATTTTACC-TATAAGGGC * 54672212 AAAATAATCATTTTACCTCATAAGGGC 1 AAAATAGTCATTTTACCT-ATAAGGGC 54672239 AAAATAGTCATTTTA 1 AAAATAGTCATTTTA 54672254 TCGTTTAAGG Statistics Matches: 126, Mismatches: 20, Indels: 8 0.82 0.13 0.05 Matches are distributed among these distances: 26 1 0.01 27 124 0.98 28 1 0.01 ACGTcount: A:0.41, C:0.18, G:0.13, T:0.28 Consensus pattern (26 bp): AAAATAGTCATTTTACCTATAAGGGC Found at i:54677993 original size:21 final size:21 Alignment explanation
Indices: 54677967--54678008 Score: 75 Period size: 21 Copynumber: 2.0 Consensus size: 21 54677957 TAAGTCAGTA * 54677967 TCGCACACGGCCTGTGGACAC 1 TCGCACACGGCCTATGGACAC 54677988 TCGCACACGGCCTATGGACAC 1 TCGCACACGGCCTATGGACAC 54678009 ACCCATGTGT Statistics Matches: 20, Mismatches: 1, Indels: 0 0.95 0.05 0.00 Matches are distributed among these distances: 21 20 1.00 ACGTcount: A:0.21, C:0.38, G:0.26, T:0.14 Consensus pattern (21 bp): TCGCACACGGCCTATGGACAC Found at i:54680707 original size:25 final size:25 Alignment explanation
Indices: 54680646--54680709 Score: 69 Period size: 25 Copynumber: 2.6 Consensus size: 25 54680636 TATTTTGAAG * * 54680646 TTTTTATAT-TATATTATTTTAACA 1 TTTTTATATATATTTTATTTAAACA * * 54680670 TTATGTATA-ATATTTTATTTAAATA 1 TT-TTTATATATATTTTATTTAAACA 54680695 TTTTTATATATATTT 1 TTTTTATATATATTT 54680710 GTACATATAT Statistics Matches: 32, Mismatches: 5, Indels: 5 0.76 0.12 0.12 Matches are distributed among these distances: 24 7 0.22 25 25 0.78 ACGTcount: A:0.34, C:0.02, G:0.02, T:0.62 Consensus pattern (25 bp): TTTTTATATATATTTTATTTAAACA Found at i:54685016 original size:19 final size:19 Alignment explanation
Indices: 54684992--54685038 Score: 60 Period size: 19 Copynumber: 2.5 Consensus size: 19 54684982 TGATGCCTCC * 54684992 TTTGCATT-CATTTCATGCA 1 TTTGCATTACATTACAT-CA 54685011 TTTGCATTACATTACATCA 1 TTTGCATTACATTACATCA * 54685030 TATGCATTA 1 TTTGCATTA 54685039 AAGACTATTA Statistics Matches: 25, Mismatches: 2, Indels: 2 0.86 0.07 0.07 Matches are distributed among these distances: 19 18 0.72 20 7 0.28 ACGTcount: A:0.28, C:0.19, G:0.09, T:0.45 Consensus pattern (19 bp): TTTGCATTACATTACATCA Found at i:54690068 original size:13 final size:13 Alignment explanation
Indices: 54690050--54690074 Score: 50 Period size: 13 Copynumber: 1.9 Consensus size: 13 54690040 GAGACCTTAA 54690050 AAAAAATCAAAAT 1 AAAAAATCAAAAT 54690063 AAAAAATCAAAA 1 AAAAAATCAAAA 54690075 CCAAAACAAA Statistics Matches: 12, Mismatches: 0, Indels: 0 1.00 0.00 0.00 Matches are distributed among these distances: 13 12 1.00 ACGTcount: A:0.80, C:0.08, G:0.00, T:0.12 Consensus pattern (13 bp): AAAAAATCAAAAT Found at i:54690084 original size:24 final size:25 Alignment explanation
Indices: 54690052--54690114 Score: 67 Period size: 24 Copynumber: 2.6 Consensus size: 25 54690042 GACCTTAAAA ** 54690052 AAAATCAAAATAAAAAATCAAAA-CC 1 AAAA-CAAAATAAAAAAGAAAAATCC * * 54690077 AAAACAAAACAAAAAAGAAAAATTC 1 AAAACAAAATAAAAAAGAAAAATCC 54690102 AAAA-AAAATAAAA 1 AAAACAAAATAAAA 54690115 TCAAAAAAAT Statistics Matches: 32, Mismatches: 5, Indels: 3 0.80 0.12 0.08 Matches are distributed among these distances: 24 23 0.72 25 9 0.28 ACGTcount: A:0.78, C:0.11, G:0.02, T:0.10 Consensus pattern (25 bp): AAAACAAAATAAAAAAGAAAAATCC Found at i:54690120 original size:30 final size:28 Alignment explanation
Indices: 54690048--54690128 Score: 85 Period size: 30 Copynumber: 2.8 Consensus size: 28 54690038 CTGAGACCTT * 54690048 AAAAAAAATCAAAATAAAAAATCAAAACC 1 AAAAAAAATCAAAAAAAAAAATCAAAA-C 54690077 AAAACAAAA-CAAAAAAGAAAAATTCAAAA- 1 AAAA-AAAATCAAAAAA-AAAAA-TCAAAAC 54690106 AAAATAAAATCAAAAAAATAAAA 1 AAAA-AAAATCAAAAAAA-AAAA 54690129 AAAGAAGAAA Statistics Matches: 45, Mismatches: 2, Indels: 9 0.80 0.04 0.16 Matches are distributed among these distances: 29 19 0.42 30 20 0.44 31 6 0.13 ACGTcount: A:0.79, C:0.10, G:0.01, T:0.10 Consensus pattern (28 bp): AAAAAAAATCAAAAAAAAAAATCAAAAC Found at i:54691276 original size:64 final size:64 Alignment explanation
Indices: 54691203--54691331 Score: 190 Period size: 64 Copynumber: 2.0 Consensus size: 64 54691193 TATCATCCAT * 54691203 AACACATCTAGTTAGGAGA-A-TTTGATTCATTTCGATCATAGCATCCTAATTATTTGACATAAG 1 AACACATCTAATTAGGA-ACAGTTT-ATTCATTTCGATCATAGCATCCTAATTATTTGACATAAG 54691266 C 64 C * ** 54691267 AACACATCTAATTAGGAACAGTTTATTCATTTTGATCATAGCATCCTAATTATTTTCCATAAGC 1 AACACATCTAATTAGGAACAGTTTATTCATTTCGATCATAGCATCCTAATTATTTGACATAAGC 54691331 A 1 A 54691332 TAGATACATG Statistics Matches: 59, Mismatches: 4, Indels: 4 0.88 0.06 0.06 Matches are distributed among these distances: 63 1 0.02 64 55 0.93 65 3 0.05 ACGTcount: A:0.35, C:0.18, G:0.12, T:0.36 Consensus pattern (64 bp): AACACATCTAATTAGGAACAGTTTATTCATTTCGATCATAGCATCCTAATTATTTGACATAAGC Found at i:54693157 original size:40 final size:39 Alignment explanation
Indices: 54693113--54693310 Score: 247 Period size: 40 Copynumber: 5.0 Consensus size: 39 54693103 GAATTTAACC * 54693113 GGATATAGCTACTCGCTCAAATGCCTTCGGGACTTAGCCA 1 GGATATAG-TACTCGCACAAATGCCTTCGGGACTTAGCCA * ** * 54693153 GGATATAGTAGTTCATACAAATGCCTTCGGGACTTAGCCC 1 GGATATAGTA-CTCGCACAAATGCCTTCGGGACTTAGCCA * * 54693193 GGATATAGTAACTCGCACAAATGCCTTCGGGACCTAGCCC 1 GGATATAGT-ACTCGCACAAATGCCTTCGGGACTTAGCCA 54693233 GGA-ATTAGTACTCGCACAAATGCCTTCGGGACTTAGCCCA 1 GGATA-TAGTACTCGCACAAATGCCTTCGGGACTTAG-CCA * * 54693273 GAAT-TAGTCACTAGCACAAATGCCTTCGGGACTTAGCC 1 GGATATAGT-ACTCGCACAAATGCCTTCGGGACTTAGCC 54693311 CCGTTATCAT Statistics Matches: 139, Mismatches: 13, Indels: 13 0.84 0.08 0.08 Matches are distributed among these distances: 39 35 0.25 40 103 0.74 41 1 0.01 ACGTcount: A:0.27, C:0.27, G:0.22, T:0.24 Consensus pattern (39 bp): GGATATAGTACTCGCACAAATGCCTTCGGGACTTAGCCA Found at i:54693290 original size:79 final size:80 Alignment explanation
Indices: 54693130--54693311 Score: 253 Period size: 79 Copynumber: 2.3 Consensus size: 80 54693120 GCTACTCGCT * * * * 54693130 CAAATGCCTTCGGGACTTAGCCAGGATATAGTAGTTCATACAAATGCCTTCGGGACTTAGCCCGG 1 CAAATGCCTTCGGGACTTAGCCCGGATATAGTAGCTCACACAAATGCCTTCGGGACTTAGCCCGA * 54693195 ATATAGTAACTCGCA 66 ATATAGTAACTAGCA * * 54693210 CAAATGCCTTCGGGACCTAGCCCGGA-ATTAGTA-CTCGCACAAATGCCTTCGGGACTTAGCCCA 1 CAAATGCCTTCGGGACTTAGCCCGGATA-TAGTAGCTCACACAAATGCCTTCGGGACTTAGCCC- * 54693273 GAAT-TAGTCACTAGCA 64 GAATATAGTAACTAGCA 54693289 CAAATGCCTTCGGGACTTAGCCC 1 CAAATGCCTTCGGGACTTAGCCC 54693312 CGTTATCATC Statistics Matches: 91, Mismatches: 9, Indels: 5 0.87 0.09 0.05 Matches are distributed among these distances: 79 59 0.65 80 32 0.35 ACGTcount: A:0.27, C:0.27, G:0.22, T:0.23 Consensus pattern (80 bp): CAAATGCCTTCGGGACTTAGCCCGGATATAGTAGCTCACACAAATGCCTTCGGGACTTAGCCCGA ATATAGTAACTAGCA Found at i:54702969 original size:46 final size:47 Alignment explanation
Indices: 54702886--54703047 Score: 154 Period size: 46 Copynumber: 3.5 Consensus size: 47 54702876 GATGAGTGCT * * 54702886 AGTGTAAGA-CATGTCTAGGACATGCATCAGC-GTCGAGACATAAGCC 1 AGTGTAAGACCATGTCTGGGACATGCATCGGCTG-CGAGACATAAGCC * * * 54702932 AGTGTAAGA-CATGTCTGGGACATGCGTCGGCTGCGAGATGAT-AGGC 1 AGTGTAAGACCATGTCTGGGACATGCATCGGCTGCGAGA-CATAAGCC * * * * ** 54702978 AATGTAAGACCATGTCTGGGACATGGCTTCGACT-TGAGATGTAAGCC 1 AGTGTAAGACCATGTCTGGGACAT-GCATCGGCTGCGAGACATAAGCC * 54703025 AGTGTAAGACCGTGTCTGGGACA 1 AGTGTAAGACCATGTCTGGGACA 54703048 CGGTATCGGC Statistics Matches: 97, Mismatches: 14, Indels: 9 0.81 0.12 0.08 Matches are distributed among these distances: 46 45 0.46 47 45 0.46 48 7 0.07 ACGTcount: A:0.28, C:0.19, G:0.31, T:0.22 Consensus pattern (47 bp): AGTGTAAGACCATGTCTGGGACATGCATCGGCTGCGAGACATAAGCC Found at i:54703002 original size:47 final size:47 Alignment explanation
Indices: 54702888--54703047 Score: 143 Period size: 47 Copynumber: 3.4 Consensus size: 47 54702878 TGAGTGCTAG * * ** * 54702888 TGTAAGA-CATGTCTAGGACAT-GCATC-AGCGTCGAGACATAAGCCAG 1 TGTAAGACCATGTCTGGGACATGGCGTCGA-C-TCGAGATGTAAGCCAA * * 54702934 TGTAAGA-CATGTCTGGGACAT-GCGTCGGCTGCGAGATG-ATAGGCAA 1 TGTAAGACCATGTCTGGGACATGGCGTCGACT-CGAGATGTA-AGCCAA * * * 54702980 TGTAAGACCATGTCTGGGACATGGCTTCGACTTGAGATGTAAGCCAG 1 TGTAAGACCATGTCTGGGACATGGCGTCGACTCGAGATGTAAGCCAA * 54703027 TGTAAGACCGTGTCTGGGACA 1 TGTAAGACCATGTCTGGGACA 54703048 CGGTATCGGC Statistics Matches: 95, Mismatches: 13, Indels: 11 0.80 0.11 0.09 Matches are distributed among these distances: 45 2 0.02 46 41 0.43 47 44 0.46 48 8 0.08 ACGTcount: A:0.28, C:0.19, G:0.31, T:0.23 Consensus pattern (47 bp): TGTAAGACCATGTCTGGGACATGGCGTCGACTCGAGATGTAAGCCAA Found at i:54703193 original size:71 final size:71 Alignment explanation
Indices: 54703077--54703218 Score: 221 Period size: 71 Copynumber: 2.0 Consensus size: 71 54703067 CACGTTCGAG * * * 54703077 GCTATGGTATATCTGATAGCACTCCGAATGGTTCAACGTGGAAGTTCTGATTTCTAGTTAATGAG 1 GCTATGGTATATCCGATAACACTCCGAATGGTTCAACGTGGAAGTTCTGATTTCCAGTTAATGAG 54703142 GAAAGT 66 GAAAGT * * * * 54703148 GCTATGGTATATCCGATAACATTCTGAATGGTTCAATGTGGAAGTTTTGATTTCCAGTTAATGAG 1 GCTATGGTATATCCGATAACACTCCGAATGGTTCAACGTGGAAGTTCTGATTTCCAGTTAATGAG 54703213 GAAAGT 66 GAAAGT 54703219 ATAACCGTGT Statistics Matches: 64, Mismatches: 7, Indels: 0 0.90 0.10 0.00 Matches are distributed among these distances: 71 64 1.00 ACGTcount: A:0.29, C:0.13, G:0.25, T:0.34 Consensus pattern (71 bp): GCTATGGTATATCCGATAACACTCCGAATGGTTCAACGTGGAAGTTCTGATTTCCAGTTAATGAG GAAAGT Found at i:54704275 original size:22 final size:22 Alignment explanation
Indices: 54704250--54704304 Score: 92 Period size: 22 Copynumber: 2.5 Consensus size: 22 54704240 TTGGAATGGT * * 54704250 CACACGGGTGTGTTTCCCCTCC 1 CACACGGGCGTGTTGCCCCTCC 54704272 CACACGGGCGTGTTGCCCCTCC 1 CACACGGGCGTGTTGCCCCTCC 54704294 CACACGGGCGT 1 CACACGGGCGT 54704305 ATGCCTTTGT Statistics Matches: 31, Mismatches: 2, Indels: 0 0.94 0.06 0.00 Matches are distributed among these distances: 22 31 1.00 ACGTcount: A:0.11, C:0.42, G:0.27, T:0.20 Consensus pattern (22 bp): CACACGGGCGTGTTGCCCCTCC Found at i:54710682 original size:47 final size:46 Alignment explanation
Indices: 54710566--54710682 Score: 139 Period size: 46 Copynumber: 2.5 Consensus size: 46 54710556 GATGAGTGCT * 54710566 AGTGTAAGACATGTCTAGGACATGCATCGGCCTCAAGACATAAGCC 1 AGTGTAAGACATGTCTGGGACATGCATCGGCCTCAAGACATAAGCC * * * * * 54710612 AGTGAAAGACATGTCTGGGACATGCGTCGG-CT-ATGAGATGATAGTC 1 AGTGTAAGACATGTCTGGGACATGCATCGGCCTCAAGACAT-A-AGCC 54710658 AGTGTAAGACCATGTCTGGGACATG 1 AGTGTAAGA-CATGTCTGGGACATG 54710683 GCTTTGACTT Statistics Matches: 61, Mismatches: 7, Indels: 5 0.84 0.10 0.07 Matches are distributed among these distances: 44 5 0.08 45 3 0.05 46 38 0.62 47 15 0.25 ACGTcount: A:0.30, C:0.19, G:0.29, T:0.22 Consensus pattern (46 bp): AGTGTAAGACATGTCTGGGACATGCATCGGCCTCAAGACATAAGCC Found at i:54710696 original size:47 final size:47 Alignment explanation
Indices: 54710606--54710727 Score: 133 Period size: 47 Copynumber: 2.6 Consensus size: 47 54710596 CCTCAAGACA * * 54710606 TAAGCCAGTGAAAGA-CATGTCTGGGACATGCGTCGGCTATGAGATG 1 TAAGCCAGTGTAAGACCATGTCTGGGACATGCGTCGACTATGAGATG * * * 54710652 -ATAGTCAGTGTAAGACCATGTCTGGGACATGGCTTTGACT-TGAGATG 1 TA-AGCCAGTGTAAGACCATGTCTGGGACAT-GCGTCGACTATGAGATG * ** 54710699 TAAGCCAGTATAAGACTGTGTCTGGGACA 1 TAAGCCAGTGTAAGACCATGTCTGGGACA 54710728 CAACATCGGC Statistics Matches: 63, Mismatches: 9, Indels: 7 0.80 0.11 0.09 Matches are distributed among these distances: 45 1 0.02 46 11 0.17 47 44 0.70 48 7 0.11 ACGTcount: A:0.28, C:0.16, G:0.30, T:0.25 Consensus pattern (47 bp): TAAGCCAGTGTAAGACCATGTCTGGGACATGCGTCGACTATGAGATG Found at i:54717334 original size:16 final size:17 Alignment explanation
Indices: 54717304--54717338 Score: 54 Period size: 16 Copynumber: 2.1 Consensus size: 17 54717294 TATATGTGGT 54717304 AAGGAAATATGACATGA 1 AAGGAAATATGACATGA * 54717321 AAGG-AATATTACATGA 1 AAGGAAATATGACATGA 54717337 AA 1 AA 54717339 TACAAGAAGA Statistics Matches: 17, Mismatches: 1, Indels: 1 0.89 0.05 0.05 Matches are distributed among these distances: 16 13 0.76 17 4 0.24 ACGTcount: A:0.54, C:0.06, G:0.20, T:0.20 Consensus pattern (17 bp): AAGGAAATATGACATGA Found at i:54718958 original size:35 final size:35 Alignment explanation
Indices: 54718837--54718960 Score: 126 Period size: 35 Copynumber: 3.5 Consensus size: 35 54718827 TCCCAATCTT * * 54718837 TCTATCCCAACCTTTTT-GAGGTTACCTTAGACTTA- 1 TCTATCCCAACCTTTTTAG-GGTTGCCTTAGAC-GAG *** 54718872 TCTATCCCAACCTTTTTAAAATTGCCTTAGACGAG 1 TCTATCCCAACCTTTTTAGGGTTGCCTTAGACGAG * ** * 54718907 TATATCTTAACCTTTTTAGGGTTGCCTTAGACGGG 1 TCTATCCCAACCTTTTTAGGGTTGCCTTAGACGAG * 54718942 TCTATCCCAACTTTTTTAG 1 TCTATCCCAACCTTTTTAG 54718961 AGTCATCTTT Statistics Matches: 71, Mismatches: 16, Indels: 4 0.78 0.18 0.04 Matches are distributed among these distances: 34 1 0.01 35 70 0.99 ACGTcount: A:0.23, C:0.23, G:0.14, T:0.40 Consensus pattern (35 bp): TCTATCCCAACCTTTTTAGGGTTGCCTTAGACGAG Found at i:54719116 original size:28 final size:28 Alignment explanation
Indices: 54719084--54719137 Score: 108 Period size: 28 Copynumber: 1.9 Consensus size: 28 54719074 TGGCCTTGAC 54719084 TATGTTTTTGCCAACCCTTTAATAAAGG 1 TATGTTTTTGCCAACCCTTTAATAAAGG 54719112 TATGTTTTTGCCAACCCTTTAATAAA 1 TATGTTTTTGCCAACCCTTTAATAAA 54719138 AGTCGACTTA Statistics Matches: 26, Mismatches: 0, Indels: 0 1.00 0.00 0.00 Matches are distributed among these distances: 28 26 1.00 ACGTcount: A:0.30, C:0.19, G:0.11, T:0.41 Consensus pattern (28 bp): TATGTTTTTGCCAACCCTTTAATAAAGG Found at i:54720372 original size:5 final size:6 Alignment explanation
Indices: 54720355--54720379 Score: 50 Period size: 6 Copynumber: 4.2 Consensus size: 6 54720345 TGGTGTATAA 54720355 TATTTT TATTTT TATTTT TATTTT T 1 TATTTT TATTTT TATTTT TATTTT T 54720380 TGTGAGGAGA Statistics Matches: 19, Mismatches: 0, Indels: 0 1.00 0.00 0.00 Matches are distributed among these distances: 6 19 1.00 ACGTcount: A:0.16, C:0.00, G:0.00, T:0.84 Consensus pattern (6 bp): TATTTT Found at i:54724220 original size:17 final size:17 Alignment explanation
Indices: 54724198--54724234 Score: 58 Period size: 17 Copynumber: 2.2 Consensus size: 17 54724188 TGGGATATGT 54724198 GTAAAAGATGATG-TGGA 1 GTAAAAGAT-ATGATGGA 54724215 GTAAAAGATATGATGGA 1 GTAAAAGATATGATGGA 54724232 GTA 1 GTA 54724235 TCATTGTTTA Statistics Matches: 19, Mismatches: 0, Indels: 2 0.90 0.00 0.10 Matches are distributed among these distances: 16 3 0.16 17 16 0.84 ACGTcount: A:0.43, C:0.00, G:0.32, T:0.24 Consensus pattern (17 bp): GTAAAAGATATGATGGA Found at i:54724410 original size:34 final size:34 Alignment explanation
Indices: 54724367--54724481 Score: 119 Period size: 34 Copynumber: 3.4 Consensus size: 34 54724357 CTACGGTGCC 54724367 TTGGTGTGGTGTAGTTATTGCTCTATCT-A-TCCAT 1 TTGGTGTGGTGTAGTTATTGCTCTAT-TAAGT-CAT * * * 54724401 TTGGTGTGGTGTACTTATCGCTTTATTAAGTCAT 1 TTGGTGTGGTGTAGTTATTGCTCTATTAAGTCAT * * 54724435 TTGATATGGTGTAGTTATTGCTCTATTAAG-CTAT 1 TTGGTGTGGTGTAGTTATTGCTCTATTAAGTC-AT * * 54724469 CTAGTGTGGTGTA 1 TTGGTGTGGTGTA 54724482 CTACCTGTAT Statistics Matches: 66, Mismatches: 12, Indels: 6 0.79 0.14 0.07 Matches are distributed among these distances: 33 2 0.03 34 63 0.95 35 1 0.02 ACGTcount: A:0.18, C:0.11, G:0.24, T:0.46 Consensus pattern (34 bp): TTGGTGTGGTGTAGTTATTGCTCTATTAAGTCAT Done.