Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: At_chr1
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: 106989029
ACGTcount: A:0.31, C:0.17, G:0.17, T:0.31
Warning! 3754247 characters in sequence are not A, C, G, or T
File 99 of 322
Found at i:32119514 original size:40 final size:40
Alignment explanation
Indices: 32119332--32119554 Score: 236
Period size: 40 Copynumber: 5.6 Consensus size: 40
32119322 TCCTCGTTCA
* * * * *
32119332 AATGCCTTCGGGACATAGCCCGGTTTTAGTAACTCACAC-
1 AATGCCTTCGGGACTTAACCCGGATTTAATAACTCGCACG
* *
32119371 AATGCCTTCGGGACATAACCCGGATTTAACAACTCGCACG
1 AATGCCTTCGGGACTTAACCCGGATTTAATAACTCGCACG
32119411 AATGCCTTCGGGACTTAACCCGGATTTAATAACTCGCACG
1 AATGCCTTCGGGACTTAACCCGGATTTAATAACTCGCACG
* * *
32119451 AATGCCTTCGGGACTTAACCCGGATTTAGTATCTCGCACA
1 AATGCCTTCGGGACTTAACCCGGATTTAATAACTCGCACG
* ** * * * *
32119491 AAGGCCTTC-GGATCTTAGTCCGGATATATTCACTTAGCAC-
1 AATGCCTTCGGGA-CTTAACCCGGATTTAATAAC-TCGCACG
* *
32119531 AAAGCCTTCGGGACTTAGCCCGGA
1 AATGCCTTCGGGACTTAACCCGGA
32119555 CAACATTCAA
Statistics
Matches: 160, Mismatches: 20, Indels: 7
0.86 0.11 0.04
Matches are distributed among these distances:
39 37 0.23
40 115 0.72
41 8 0.05
ACGTcount: A:0.26, C:0.28, G:0.21, T:0.25
Consensus pattern (40 bp):
AATGCCTTCGGGACTTAACCCGGATTTAATAACTCGCACG
Found at i:32119563 original size:41 final size:41
Alignment explanation
Indices: 32119486--32119563 Score: 97
Period size: 40 Copynumber: 1.9 Consensus size: 41
32119476 TTAGTATCTC
* * *
32119486 GCACAAAGGCCTTCGGATCTTAGTCCGGATATATTCACTTA
1 GCACAAAGGCCTTCGGATCTTAGCCCGGAAACATTCACTTA
32119527 GCACAAA-GCCTTCGGGA-CTTAGCCCGGACAACATTCA
1 GCACAAAGGCCTTC-GGATCTTAGCCCGGA-AACATTCA
32119564 ATTAATCATG
Statistics
Matches: 32, Mismatches: 3, Indels: 4
0.82 0.08 0.10
Matches are distributed among these distances:
40 16 0.50
41 16 0.50
ACGTcount: A:0.28, C:0.28, G:0.21, T:0.23
Consensus pattern (41 bp):
GCACAAAGGCCTTCGGATCTTAGCCCGGAAACATTCACTTA
Found at i:32134745 original size:27 final size:28
Alignment explanation
Indices: 32134582--32134732 Score: 214
Period size: 28 Copynumber: 5.4 Consensus size: 28
32134572 GAGATTGGCG
* * * *
32134582 CTAAGTGTGCGGGTTTAAATTATACAGCA
1 CTAAGTGTGCGAGCTT-GATTATATAGCA
*
32134611 CTAAGTGTGCGAGCTTGATTATGTAGCA
1 CTAAGTGTGCGAGCTTGATTATATAGCA
*
32134639 CTAAGTGTGCGAGCTTGATTATGTAGCA
1 CTAAGTGTGCGAGCTTGATTATATAGCA
*
32134667 CTAAGTGTGCGAGTTTGATTATATAGCA
1 CTAAGTGTGCGAGCTTGATTATATAGCA
32134695 CTAAGTGTGCGAG-TTGATTATATAGCA
1 CTAAGTGTGCGAGCTTGATTATATAGCA
*
32134722 CTGAGTGTGCG
1 CTAAGTGTGCG
32134733 GACTTAATAT
Statistics
Matches: 114, Mismatches: 8, Indels: 2
0.92 0.06 0.02
Matches are distributed among these distances:
27 24 0.21
28 76 0.67
29 14 0.12
ACGTcount: A:0.26, C:0.13, G:0.28, T:0.32
Consensus pattern (28 bp):
CTAAGTGTGCGAGCTTGATTATATAGCA
Found at i:32142803 original size:55 final size:53
Alignment explanation
Indices: 32142682--32142866 Score: 187
Period size: 55 Copynumber: 3.4 Consensus size: 53
32142672 ATTAGGGTTT
** * * *
32142682 AAGGATACCATGTAAGACCATGCCAAGGCATGGTAATTGGTAAGGTTTC-TAATGC
1 AAGGATACCATGTAAGACCATGCCAAGAAATGG-CATTGATAA-G-TTCATAAGGC
*
32142737 AAGGATACCATGTAAGACCAT-CTCATGAAATGGCATTGATAAGTTACTATAAGGC
1 AAGGATACCATGTAAGACCATGC-CAAGAAATGGCATTGATAAGTT-C-ATAAGGC
* ** * *
32142792 AAAGG-TCCCATGTAAGACCATGCCAAGGCATGGCATTGGTGAGTTCATAAGGC
1 -AAGGATACCATGTAAGACCATGCCAAGAAATGGCATTGATAAGTTCATAAGGC
32142845 AAGGATACCATGTAAGACCATG
1 AAGGATACCATGTAAGACCATG
32142867 TCGAGACATG
Statistics
Matches: 110, Mismatches: 13, Indels: 16
0.79 0.09 0.12
Matches are distributed among these distances:
52 6 0.05
53 25 0.23
54 9 0.08
55 65 0.59
56 5 0.05
ACGTcount: A:0.35, C:0.18, G:0.24, T:0.23
Consensus pattern (53 bp):
AAGGATACCATGTAAGACCATGCCAAGAAATGGCATTGATAAGTTCATAAGGC
Found at i:32142888 original size:108 final size:110
Alignment explanation
Indices: 32142689--32142889 Score: 284
Period size: 108 Copynumber: 1.8 Consensus size: 110
32142679 TTTAAGGATA
*
32142689 CCATGTAAGACCATGCCAAGGCATGGTAATTGGTAAGGTTTCTAATGCAAGGATACCATGTAAGA
1 CCATGTAAGACCATGCCAAGGCATGGTAATTGGTAAGGTTTCTAAGGCAAGGATACCATGTAAGA
**
32142754 CCATCTCATGAAATGGCATTGATAAGTTACTATAAGGCAAAGGTC
66 CCATCTCATGAAATGGCAACGATAAGTTACTATAAGGCAAAGGTC
* *
32142799 CCATGTAAGACCATGCCAAGGCATGG-CATTGGTGA-G-TTCATAAGGCAAGGATACCATGTAAG
1 CCATGTAAGACCATGCCAAGGCATGGTAATTGGTAAGGTTTC-TAAGGCAAGGATACCATGTAAG
* * *
32142861 ACCATGTCGA-GACATGGCAACGGTAAGTT
65 ACCATCTC-ATGAAATGGCAACGATAAGTT
32142890 TCAGAAGGAT
Statistics
Matches: 81, Mismatches: 8, Indels: 6
0.85 0.08 0.06
Matches are distributed among these distances:
107 3 0.04
108 44 0.54
109 8 0.10
110 26 0.32
ACGTcount: A:0.33, C:0.18, G:0.25, T:0.23
Consensus pattern (110 bp):
CCATGTAAGACCATGCCAAGGCATGGTAATTGGTAAGGTTTCTAAGGCAAGGATACCATGTAAGA
CCATCTCATGAAATGGCAACGATAAGTTACTATAAGGCAAAGGTC
Found at i:32143149 original size:16 final size:16
Alignment explanation
Indices: 32143128--32143158 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
32143118 ATAAATTTGA
32143128 TTAAGTAAGTAAGTAT
1 TTAAGTAAGTAAGTAT
*
32143144 TTAAGTAAGTGAGTA
1 TTAAGTAAGTAAGTA
32143159 AGTGAAGATG
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
16 14 1.00
ACGTcount: A:0.42, C:0.00, G:0.23, T:0.35
Consensus pattern (16 bp):
TTAAGTAAGTAAGTAT
Found at i:32151301 original size:54 final size:54
Alignment explanation
Indices: 32151199--32151320 Score: 172
Period size: 54 Copynumber: 2.3 Consensus size: 54
32151189 CAAATTAATT
* * * *
32151199 AAATGACTATTTTTCCTTTATGTGGTAAAATGACTGTTTTGCCATTATGTGGTA
1 AAATAACTATTTTGCCCTAATGTGGTAAAATGACTGTTTTGCCATTATGTGGTA
* * * *
32151253 AAATAACTGTTTTGCCCTAATGTGGTAAAATGATTTTTTTGCCTTTATGTGGTA
1 AAATAACTATTTTGCCCTAATGTGGTAAAATGACTGTTTTGCCATTATGTGGTA
32151307 AAATAACTATTTTG
1 AAATAACTATTTTG
32151321 TCCTTATAGA
Statistics
Matches: 59, Mismatches: 9, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
54 59 1.00
ACGTcount: A:0.28, C:0.11, G:0.17, T:0.44
Consensus pattern (54 bp):
AAATAACTATTTTGCCCTAATGTGGTAAAATGACTGTTTTGCCATTATGTGGTA
Found at i:32151327 original size:27 final size:27
Alignment explanation
Indices: 32151199--32151325 Score: 155
Period size: 27 Copynumber: 4.7 Consensus size: 27
32151189 CAAATTAATT
*
32151199 AAATGACTATTTTTCCTTTATGTGGTA
1 AAATGACTATTTTGCCTTTATGTGGTA
* *
32151226 AAATGACTGTTTTGCCATTATGTGGTA
1 AAATGACTATTTTGCCTTTATGTGGTA
* * * *
32151253 AAATAACTGTTTTGCCCTAATGTGGTA
1 AAATGACTATTTTGCCTTTATGTGGTA
* *
32151280 AAATGATTTTTTTGCCTTTATGTGGTA
1 AAATGACTATTTTGCCTTTATGTGGTA
*
32151307 AAATAACTATTTTGTCCTT
1 AAATGACTATTTTG-CCTT
32151326 ATAGAGTAAG
Statistics
Matches: 85, Mismatches: 14, Indels: 1
0.85 0.14 0.01
Matches are distributed among these distances:
27 81 0.95
28 4 0.05
ACGTcount: A:0.27, C:0.12, G:0.17, T:0.45
Consensus pattern (27 bp):
AAATGACTATTTTGCCTTTATGTGGTA
Found at i:32151347 original size:54 final size:53
Alignment explanation
Indices: 32151199--32151359 Score: 155
Period size: 54 Copynumber: 3.0 Consensus size: 53
32151189 CAAATTAATT
* * * * * *
32151199 AAATGACTATTTTTCCTTTATGTGGTAAAATGACTGTTTTGCCATTATGTGGTA
1 AAATAACTATTTTGCCCTAATGTAGTAAAATGATTGTTTTGCC-TTATGTGGTA
* * *
32151253 AAATAACTGTTTTGCCCTAATGTGGTAAAATGATTTTTTTGCCTTTATGTGGTA
1 AAATAACTATTTTGCCCTAATGTAGTAAAATGATTGTTTTGCC-TTATGTGGTA
* * *
32151307 AAATAACTATTTTGTCCTTATAG-AGTAAGATGGA-TGTTTTGTCCTTATGTGGT
1 AAATAACTATTTTGCCCTAAT-GTAGTAAAAT-GATTGTTTTG-CCTTATGTGGT
32151360 GTATGCATAT
Statistics
Matches: 90, Mismatches: 14, Indels: 6
0.82 0.13 0.05
Matches are distributed among these distances:
54 85 0.94
55 5 0.06
ACGTcount: A:0.26, C:0.11, G:0.19, T:0.44
Consensus pattern (53 bp):
AAATAACTATTTTGCCCTAATGTAGTAAAATGATTGTTTTGCCTTATGTGGTA
Found at i:32151695 original size:18 final size:18
Alignment explanation
Indices: 32151672--32151717 Score: 74
Period size: 18 Copynumber: 2.6 Consensus size: 18
32151662 AGGACGTGTA
32151672 TACTGTTACTGCACTGAT
1 TACTGTTACTGCACTGAT
*
32151690 TACTGTTTCTGCACTGAT
1 TACTGTTACTGCACTGAT
*
32151708 TATTGTTACT
1 TACTGTTACT
32151718 ATAATGGGCT
Statistics
Matches: 25, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
18 25 1.00
ACGTcount: A:0.20, C:0.20, G:0.15, T:0.46
Consensus pattern (18 bp):
TACTGTTACTGCACTGAT
Found at i:32153846 original size:72 final size:67
Alignment explanation
Indices: 32153760--32153918 Score: 203
Period size: 72 Copynumber: 2.3 Consensus size: 67
32153750 CACCACCGAA
* * *
32153760 ATTGCAGCGAGGCTGCCAGATATTGTGGCTAGGCCACCAGAACAGATATATATATATGTGGC-AA
1 ATTGCAGCGAGGCTGCCAGATATTGTGACGAAGCCACCAGAACAG------ATATATGTGGCGAA
32153824 GCCACCAG
60 GCCACCAG
* *
32153832 ATTGCAGCGAGGCTGCCAGATATTGTGACGAAGTCACCAGAACAGATATATGTGGCGAGGCCACC
1 ATTGCAGCGAGGCTGCCAGATATTGTGACGAAGCCACCAGAACAGATATATGTGGCGAAGCCACC
32153897 AG
66 AG
*
32153899 ATTGTAGCGAGGCTGCCAGA
1 ATTGCAGCGAGGCTGCCAGA
32153919 ACGCTTCCTC
Statistics
Matches: 80, Mismatches: 6, Indels: 7
0.86 0.06 0.08
Matches are distributed among these distances:
66 11 0.14
67 28 0.35
72 41 0.51
ACGTcount: A:0.30, C:0.22, G:0.29, T:0.19
Consensus pattern (67 bp):
ATTGCAGCGAGGCTGCCAGATATTGTGACGAAGCCACCAGAACAGATATATGTGGCGAAGCCACC
AG
Found at i:32153896 original size:27 final size:26
Alignment explanation
Indices: 32153848--32153899 Score: 68
Period size: 27 Copynumber: 2.0 Consensus size: 26
32153838 GCGAGGCTGC
*
32153848 CAGATATTGTGACGAAGTCACCAGAA
1 CAGATATTGTGACGAAGCCACCAGAA
* *
32153874 CAGATATATGTGGCGAGGCCACCAGA
1 CAGATAT-TGTGACGAAGCCACCAGA
32153900 TTGTAGCGAG
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:0.35, C:0.21, G:0.27, T:0.17
Consensus pattern (26 bp):
CAGATATTGTGACGAAGCCACCAGAA
Found at i:32154698 original size:27 final size:27
Alignment explanation
Indices: 32154540--32154683 Score: 207
Period size: 27 Copynumber: 5.3 Consensus size: 27
32154530 TACGCCACGA
*
32154540 GGGTATCTCGGTAATTCTACCCTACAG
1 GGGTATTTCGGTAATTCTACCCTACAG
**
32154567 GGGTATTTTAGTAATTCTACCCTACAG
1 GGGTATTTCGGTAATTCTACCCTACAG
* * *
32154594 GGGTATTTCGGTAATTTTACCTTATAG
1 GGGTATTTCGGTAATTCTACCCTACAG
* *
32154621 GGGTATTTCGGTAATTCTACCTTATAG
1 GGGTATTTCGGTAATTCTACCCTACAG
*
32154648 GGGTATTTCGATAATTCTACCCTACAG
1 GGGTATTTCGGTAATTCTACCCTACAG
32154675 GGGTATTTC
1 GGGTATTTC
32154684 AATAATGCTA
Statistics
Matches: 105, Mismatches: 12, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
27 105 1.00
ACGTcount: A:0.23, C:0.18, G:0.22, T:0.38
Consensus pattern (27 bp):
GGGTATTTCGGTAATTCTACCCTACAG
Found at i:32154701 original size:54 final size:53
Alignment explanation
Indices: 32154540--32154701 Score: 207
Period size: 54 Copynumber: 3.0 Consensus size: 53
32154530 TACGCCACGA
* * *
32154540 GGGTATCTCGGTAATTCTACCCTACAGGGGTATTTTAGTAATTCTACCCTACAG
1 GGGTATTTCGGTAATTCTACCCTACAGGGGTATTTCAGTAATTCTA-CCTATAG
* * * *
32154594 GGGTATTTCGGTAATTTTACCTTATAGGGGTATTTCGGTAATTCTACCTTATAG
1 GGGTATTTCGGTAATTCTACCCTACAGGGGTATTTCAGTAATTCTACC-TATAG
* * *
32154648 GGGTATTTCGATAATTCTACCCTACAGGGGTATTTCAATAATGCTAGCCTATAG
1 GGGTATTTCGGTAATTCTACCCTACAGGGGTATTTCAGTAATTCTA-CCTATAG
32154702 ATATGAGATT
Statistics
Matches: 92, Mismatches: 14, Indels: 4
0.84 0.13 0.04
Matches are distributed among these distances:
53 2 0.02
54 88 0.96
55 2 0.02
ACGTcount: A:0.25, C:0.18, G:0.21, T:0.36
Consensus pattern (53 bp):
GGGTATTTCGGTAATTCTACCCTACAGGGGTATTTCAGTAATTCTACCTATAG
Found at i:32154701 original size:81 final size:81
Alignment explanation
Indices: 32154540--32154701 Score: 220
Period size: 81 Copynumber: 2.0 Consensus size: 81
32154530 TACGCCACGA
* **
32154540 GGGTATCTCGGTAATTCTACCCTACAGGGGTATTTTAGTAATTCTACCCTACAGGGGTATTTCGG
1 GGGTATCTCGGTAATTCTACCCTACAGGGGTATTTGAGTAATTCTACCCTACAGGGGTATTTCAA
**
32154605 TAATTTTACCTTATAG
66 TAATGCTACCTTATAG
* * *
32154621 GGGTATTTCGGTAATTCTACCTTATAGGGGTATTTCGA-TAATTCTACCCTACAGGGGTATTTCA
1 GGGTATCTCGGTAATTCTACCCTACAGGGGTATTT-GAGTAATTCTACCCTACAGGGGTATTTCA
32154685 ATAATGCTAGCC-TATAG
65 ATAATGCTA-CCTTATAG
32154702 ATATGAGATT
Statistics
Matches: 71, Mismatches: 8, Indels: 4
0.86 0.10 0.05
Matches are distributed among these distances:
81 68 0.96
82 3 0.04
ACGTcount: A:0.25, C:0.18, G:0.21, T:0.36
Consensus pattern (81 bp):
GGGTATCTCGGTAATTCTACCCTACAGGGGTATTTGAGTAATTCTACCCTACAGGGGTATTTCAA
TAATGCTACCTTATAG
Found at i:32155714 original size:55 final size:56
Alignment explanation
Indices: 32155649--32155753 Score: 142
Period size: 56 Copynumber: 1.9 Consensus size: 56
32155639 AGCATGGCTG
* *
32155649 CCAGATACAGA-AAATGTGACAGAGTCACCAGATACAGATATTTTGTGGCAGTGCCA
1 CCAGATACAGATAAATGTGACAGAGCCACCAGA-ACAGATAATTTGTGGCAGTGCCA
* * *
32155705 CCAGA-ACAGATATATGTGGCAGGGCCACCAGAACAGATAATTTGTGGCA
1 CCAGATACAGATAAATGTGACAGAGCCACCAGAACAGATAATTTGTGGCA
32155754 TAGCCACTAG
Statistics
Matches: 43, Mismatches: 5, Indels: 3
0.84 0.10 0.06
Matches are distributed among these distances:
55 21 0.49
56 22 0.51
ACGTcount: A:0.35, C:0.20, G:0.25, T:0.20
Consensus pattern (56 bp):
CCAGATACAGATAAATGTGACAGAGCCACCAGAACAGATAATTTGTGGCAGTGCCA
Found at i:32155726 original size:27 final size:27
Alignment explanation
Indices: 32155674--32155753 Score: 115
Period size: 27 Copynumber: 2.9 Consensus size: 27
32155664 GTGACAGAGT
*
32155674 CACCAGATACAGATATTTTGTGGCAGTGC
1 CACCAGA-ACAGATA-TTTGTGGCAGGGC
*
32155703 CACCAGAACAGATATATGTGGCAGGGC
1 CACCAGAACAGATATTTGTGGCAGGGC
32155730 CACCAGAACAGATAATTTGTGGCA
1 CACCAGAACAGAT-ATTTGTGGCA
32155754 TAGCCACTAG
Statistics
Matches: 47, Mismatches: 3, Indels: 3
0.89 0.06 0.06
Matches are distributed among these distances:
27 24 0.51
28 16 0.34
29 7 0.15
ACGTcount: A:0.33, C:0.21, G:0.25, T:0.21
Consensus pattern (27 bp):
CACCAGAACAGATATTTGTGGCAGGGC
Found at i:32155916 original size:28 final size:28
Alignment explanation
Indices: 32155869--32155933 Score: 105
Period size: 28 Copynumber: 2.3 Consensus size: 28
32155859 AAATTAACCC
*
32155869 TAGGGGTATAGAGGTCATTTTGCATACA
1 TAGGGGTATAGAGGTAATTTTGCATACA
32155897 TAGGGGTATA-ATGGTAATTTTGCATACA
1 TAGGGGTATAGA-GGTAATTTTGCATACA
32155925 TAGGGGTAT
1 TAGGGGTAT
32155934 TCTAGTACAT
Statistics
Matches: 35, Mismatches: 1, Indels: 2
0.92 0.03 0.05
Matches are distributed among these distances:
27 1 0.03
28 34 0.97
ACGTcount: A:0.29, C:0.08, G:0.29, T:0.34
Consensus pattern (28 bp):
TAGGGGTATAGAGGTAATTTTGCATACA
Found at i:32162396 original size:55 final size:56
Alignment explanation
Indices: 32162331--32162445 Score: 130
Period size: 55 Copynumber: 2.1 Consensus size: 56
32162321 ATCATGGCTG
* *
32162331 CCAGATACAGA-AAATGTGAC-AGAGTCACCAAATACAGATATTTTGTGGCAGT-GCCA
1 CCAGATACAGATAAATGTGACAAG-GCCACCAAA-ACAGATAATTTGTGGCA-TAGCCA
* * *
32162387 CCAGA-ACAGATATATGTGGCAAGGCCACCAGAACAGATAATTTGTGGCATAGCCA
1 CCAGATACAGATAAATGTGACAAGGCCACCAAAACAGATAATTTGTGGCATAGCCA
32162442 CCAG
1 CCAG
32162446 GACGCTTCCT
Statistics
Matches: 51, Mismatches: 5, Indels: 7
0.81 0.08 0.11
Matches are distributed among these distances:
54 1 0.02
55 29 0.57
56 19 0.37
57 2 0.04
ACGTcount: A:0.37, C:0.22, G:0.23, T:0.19
Consensus pattern (56 bp):
CCAGATACAGATAAATGTGACAAGGCCACCAAAACAGATAATTTGTGGCATAGCCA
Found at i:32162413 original size:27 final size:27
Alignment explanation
Indices: 32162364--32162445 Score: 105
Period size: 28 Copynumber: 3.0 Consensus size: 27
32162354 GTCACCAAAT
32162364 ACAGATATTTTGTGGC-AGTGCCACCAGA
1 ACAGATA-TTTGTGGCAAG-GCCACCAGA
*
32162392 ACAGATATATGTGGCAAGGCCACCAGA
1 ACAGATATTTGTGGCAAGGCCACCAGA
32162419 ACAGATAATTTGTGGCATA-GCCACCAG
1 ACAGAT-ATTTGTGGCA-AGGCCACCAG
32162446 GACGCTTCCT
Statistics
Matches: 49, Mismatches: 2, Indels: 6
0.86 0.04 0.11
Matches are distributed among these distances:
27 22 0.45
28 26 0.53
29 1 0.02
ACGTcount: A:0.33, C:0.22, G:0.24, T:0.21
Consensus pattern (27 bp):
ACAGATATTTGTGGCAAGGCCACCAGA
Found at i:32162441 original size:28 final size:28
Alignment explanation
Indices: 32162364--32162445 Score: 107
Period size: 27 Copynumber: 3.0 Consensus size: 28
32162354 GTCACCAAAT
*
32162364 ACAGATATTTTGTGGCAGT-GCCACCAGA
1 ACAGATAATTTGTGGCA-TAGCCACCAGA
*
32162392 ACAGAT-ATATGTGGCA-AGGCCACCAGA
1 ACAGATAATTTGTGGCATA-GCCACCAGA
32162419 ACAGATAATTTGTGGCATAGCCACCAG
1 ACAGATAATTTGTGGCATAGCCACCAG
32162446 GACGCTTCCT
Statistics
Matches: 47, Mismatches: 3, Indels: 8
0.81 0.05 0.14
Matches are distributed among these distances:
27 23 0.49
28 23 0.49
29 1 0.02
ACGTcount: A:0.33, C:0.22, G:0.24, T:0.21
Consensus pattern (28 bp):
ACAGATAATTTGTGGCATAGCCACCAGA
Found at i:32162598 original size:28 final size:28
Alignment explanation
Indices: 32162551--32162615 Score: 105
Period size: 28 Copynumber: 2.3 Consensus size: 28
32162541 AAATTAACCC
*
32162551 TAGGGGTATAGAGGTCATTTTGCATACA
1 TAGGGGTATAGAGGTAATTTTGCATACA
32162579 TAGGGGTATA-ATGGTAATTTTGCATACA
1 TAGGGGTATAGA-GGTAATTTTGCATACA
32162607 TAGGGGTAT
1 TAGGGGTAT
32162616 TCTAGTACAT
Statistics
Matches: 35, Mismatches: 1, Indels: 2
0.92 0.03 0.05
Matches are distributed among these distances:
27 1 0.03
28 34 0.97
ACGTcount: A:0.29, C:0.08, G:0.29, T:0.34
Consensus pattern (28 bp):
TAGGGGTATAGAGGTAATTTTGCATACA
Found at i:32167816 original size:12 final size:12
Alignment explanation
Indices: 32167799--32167823 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
32167789 TCATATCATT
32167799 TCAATAAACATA
1 TCAATAAACATA
32167811 TCAATAAACATA
1 TCAATAAACATA
32167823 T
1 T
32167824 TGAAACCAAG
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 13 1.00
ACGTcount: A:0.56, C:0.16, G:0.00, T:0.28
Consensus pattern (12 bp):
TCAATAAACATA
Found at i:32169627 original size:27 final size:27
Alignment explanation
Indices: 32169592--32169742 Score: 173
Period size: 27 Copynumber: 5.6 Consensus size: 27
32169582 TTAGTTTACC
* * *
32169592 AAATCACCAAAAAACCCCTTGTTTGTA
1 AAATTACCAAAATACCCCTTGTTTATA
*
32169619 AAATTACCAAAATA-CCCTTAGTTTACA
1 AAATTACCAAAATACCCCTT-GTTTATA
*
32169646 AAATTACCAAAATACCCCTGGTTTATA
1 AAATTACCAAAATACCCCTTGTTTATA
*
32169673 AAATTACCATAATA-CCCTTGTTTATA
1 AAATTACCAAAATACCCCTTGTTTATA
** *
32169699 AAATTATGAAAATACCCC-TGATTTGTA
1 AAATTACCAAAATACCCCTTG-TTTATA
*
32169726 AAATTACCGAAATACCC
1 AAATTACCAAAATACCC
32169743 ATAGTTTGAA
Statistics
Matches: 105, Mismatches: 15, Indels: 8
0.82 0.12 0.06
Matches are distributed among these distances:
26 29 0.28
27 72 0.69
28 4 0.04
ACGTcount: A:0.42, C:0.22, G:0.07, T:0.30
Consensus pattern (27 bp):
AAATTACCAAAATACCCCTTGTTTATA
Found at i:32169640 original size:54 final size:54
Alignment explanation
Indices: 32169582--32169758 Score: 216
Period size: 54 Copynumber: 3.3 Consensus size: 54
32169572 TTAGAATACT
* * *
32169582 TTAGTTTACCAAATCACCAAAAAACCCCTTGTTTGTAAAATTACCAAAATACCC
1 TTAGTTTACAAAATTACCAAAATACCCCTTGTTTGTAAAATTACCAAAATACCC
* * *
32169636 TTAGTTTACAAAATTACCAAAATACCCCTGGTTTATAAAATTACCATAATACCC
1 TTAGTTTACAAAATTACCAAAATACCCCTTGTTTGTAAAATTACCAAAATACCC
* ** *
32169690 TT-GTTTATAAAATTATGAAAATACCCC-TGATTTGTAAAATTACCGAAATACCC
1 TTAGTTTACAAAATTACCAAAATACCCCTTG-TTTGTAAAATTACCAAAATACCC
*
32169743 ATAGTTTGA-AAAATTA
1 TTAGTTT-ACAAAATTA
32169759 TTGAAATACC
Statistics
Matches: 106, Mismatches: 14, Indels: 6
0.84 0.11 0.05
Matches are distributed among these distances:
52 1 0.01
53 43 0.41
54 61 0.58
55 1 0.01
ACGTcount: A:0.41, C:0.20, G:0.07, T:0.32
Consensus pattern (54 bp):
TTAGTTTACAAAATTACCAAAATACCCCTTGTTTGTAAAATTACCAAAATACCC
Found at i:32169756 original size:80 final size:80
Alignment explanation
Indices: 32169607--32169821 Score: 213
Period size: 80 Copynumber: 2.7 Consensus size: 80
32169597 ACCAAAAAAC
** * ** * *
32169607 CCCTTGTTTGTAAAATTACCAAAATA-CCCTTAGTTTACAAAATTACCAAAATACCCCTGGTTTA
1 CCCTTGTTTGTAAAATTATGAAAATACCCCTGA-TTTGTAAAATTACCAAAATACCCATAGTTTA
32169671 TAAAATTA-CCATAATA
65 TAAAATTATCCA-AATA
* *
32169687 CCCTTGTTTATAAAATTATGAAAATACCCCTGATTTGTAAAATTACCGAAATACCCATAGTTTGA
1 CCCTTGTTTGTAAAATTATGAAAATACCCCTGATTTGTAAAATTACCAAAATACCCATAGTTT-A
**
32169752 -AAAATTATTGAAATA
65 TAAAATTATCCAAATA
* ** * *
32169767 CCCTCGACCTGTAAAATTACTG-AAATACCCTTGATTTGTAAAATTACTAAAATAC
1 CCCTTG-TTTGTAAAATTA-TGAAAATACCCCTGATTTGTAAAATTACCAAAATAC
32169822 TCCTGTAAGA
Statistics
Matches: 112, Mismatches: 18, Indels: 9
0.81 0.13 0.06
Matches are distributed among these distances:
80 64 0.57
81 46 0.41
82 2 0.02
ACGTcount: A:0.40, C:0.19, G:0.08, T:0.33
Consensus pattern (80 bp):
CCCTTGTTTGTAAAATTATGAAAATACCCCTGATTTGTAAAATTACCAAAATACCCATAGTTTAT
AAAATTATCCAAATA
Found at i:32169782 original size:107 final size:107
Alignment explanation
Indices: 32169600--32169827 Score: 250
Period size: 107 Copynumber: 2.1 Consensus size: 107
32169590 CCAAATCACC
* *
32169600 AAAAAACCCCTTGTTTGTAAAATTACCAAAATACCCTTAGTTTACAAAATTACCAAAATACCCCT
1 AAAATACCCC-TGTTTGTAAAATTACCAAAATACCCATAGTTTACAAAATTACCAAAATACCCCT
***
32169665 GGTTTATAAAATTAC-CATAATACCCTTG-TTTATAAAATTA-T
65 GACCTATAAAATTACTCA-AATACCCTTGATTTATAAAATTACT
* ***
32169706 GAAAATACCCCTGATTTGTAAAATTACCGAAATACCCATAGTTTGA-AAAATTATTGAAATA-CC
1 -AAAATACCCCTG-TTTGTAAAATTACCAAAATACCCATAGTTT-ACAAAATTACCAAAATACCC
* * *
32169769 CTCGACCTGTAAAATTACTGAAATACCCTTGATTTGTAAAATTACT
63 CT-GACCTATAAAATTACTCAAATACCCTTGATTTATAAAATTACT
*
32169815 AAAATACTCCTGT
1 AAAATACCCCTGT
32169828 AAGATAGAAT
Statistics
Matches: 102, Mismatches: 13, Indels: 12
0.80 0.10 0.09
Matches are distributed among these distances:
106 6 0.06
107 71 0.70
108 24 0.24
109 1 0.01
ACGTcount: A:0.40, C:0.19, G:0.08, T:0.32
Consensus pattern (107 bp):
AAAATACCCCTGTTTGTAAAATTACCAAAATACCCATAGTTTACAAAATTACCAAAATACCCCTG
ACCTATAAAATTACTCAAATACCCTTGATTTATAAAATTACT
Found at i:32169863 original size:27 final size:27
Alignment explanation
Indices: 32169833--32170002 Score: 259
Period size: 27 Copynumber: 6.3 Consensus size: 27
32169823 CCTGTAAGAT
32169833 AGAATTACCATTTTACCCTCGATTTAC
1 AGAATTACCATTTTACCCTCGATTTAC
* * *
32169860 AGAATTACCATTTTACCTTCAATTTAT
1 AGAATTACCATTTTACCCTCGATTTAC
*
32169887 AGAATTACCATTTTACCCTCAATTTAC
1 AGAATTACCATTTTACCCTCGATTTAC
*
32169914 TGAATTACCATTTTACCCTCGATTTAC
1 AGAATTACCATTTTACCCTCGATTTAC
* *
32169941 AAAATTACCATTTTACCCTCGATTTAT
1 AGAATTACCATTTTACCCTCGATTTAC
*
32169968 TGAATTACCATTTTACCCTCGATTTAC
1 AGAATTACCATTTTACCCTCGATTTAC
*
32169995 AAAATTAC
1 AGAATTAC
32170003 TGAAATACCT
Statistics
Matches: 128, Mismatches: 15, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
27 128 1.00
ACGTcount: A:0.32, C:0.24, G:0.05, T:0.39
Consensus pattern (27 bp):
AGAATTACCATTTTACCCTCGATTTAC
Found at i:32170011 original size:27 final size:27
Alignment explanation
Indices: 32169618--32170091 Score: 203
Period size: 27 Copynumber: 17.6 Consensus size: 27
32169608 CCTTGTTTGT
*
32169618 AAAATTACCAAAATACCCT-TAGTTTAC
1 AAAATTACCAAAATACCCTCGA-TTTAC
* *
32169645 AAAATTACCAAAATACCC-CTGGTTTAT
1 AAAATTACCAAAATACCCTC-GATTTAC
* * *
32169672 AAAATTACCATAATACCCTTG-TTTAT
1 AAAATTACCAAAATACCCTCGATTTAC
** **
32169698 AAAATTATGAAAATACCC-CTGATTTGT
1 AAAATTACCAAAATACCCTC-GATTTAC
* *
32169725 AAAATTACCGAAATACCCATAG-TTTGA-
1 AAAATTACCAAAATACCC-TCGATTT-AC
*** ** **
32169752 AAAATTATTGAAATACCCTCGACCTGT
1 AAAATTACCAAAATACCCTCGATTTAC
** * **
32169779 AAAATTACTGAAATACCCTTGATTTGT
1 AAAATTACCAAAATACCCTCGATTTAC
* * *
32169806 AAAATTACTAAAATACTCCT-G--TAAG
1 AAAATTACCAAAATAC-CCTCGATTTAC
***
32169831 ATAGAATTACCATTTTACCCTCGATTTAC
1 A-A-AATTACCAAAATACCCTCGATTTAC
* *** * * *
32169860 AGAATTACCATTTTACCTTCAATTTAT
1 AAAATTACCAAAATACCCTCGATTTAC
* *** *
32169887 AGAATTACCATTTTACCCTCAATTTAC
1 AAAATTACCAAAATACCCTCGATTTAC
** ***
32169914 TGAATTACCATTTTACCCTCGATTTAC
1 AAAATTACCAAAATACCCTCGATTTAC
*** *
32169941 AAAATTACCATTTTACCCTCGATTTAT
1 AAAATTACCAAAATACCCTCGATTTAC
** ***
32169968 TGAATTACCATTTTACCCTCGATTTAC
1 AAAATTACCAAAATACCCTCGATTTAC
** * * *
32169995 AAAATTACTGAAATACCTTTGGTTTAC
1 AAAATTACCAAAATACCCTCGATTTAC
* *
32170022 AAAATTACCAAAATACCCTCGATTAAA
1 AAAATTACCAAAATACCCTCGATTTAC
* **
32170049 AAAATTACCAAAATACCC-CTGGTTTGT
1 AAAATTACCAAAATACCCTC-GATTTAC
32170076 AAAATTACCAAAATAC
1 AAAATTACCAAAATAC
32170092 AAATTACAAA
Statistics
Matches: 360, Mismatches: 70, Indels: 34
0.78 0.15 0.07
Matches are distributed among these distances:
25 2 0.01
26 28 0.08
27 323 0.90
28 4 0.01
29 3 0.01
ACGTcount: A:0.38, C:0.21, G:0.07, T:0.34
Consensus pattern (27 bp):
AAAATTACCAAAATACCCTCGATTTAC
Found at i:32170021 original size:81 final size:81
Alignment explanation
Indices: 32169835--32170045 Score: 244
Period size: 81 Copynumber: 2.6 Consensus size: 81
32169825 TGTAAGATAG
** * * *
32169835 AATTACCATTTTACCCTCGATTTACAGAATTACCATTTTACCTTCAATTTATAGAATTACCATTT
1 AATTACCATAATACCCTCGATTTACAAAATTACCATTTTACCCTCGATTTATAGAATTACCATTT
**
32169900 TACCCTCAATTTACTG
66 TACCCTCAATTTACAA
** *
32169916 AATTACCATTTTACCCTCGATTTACAAAATTACCATTTTACCCTCGATTTATTGAATTACCATTT
1 AATTACCATAATACCCTCGATTTACAAAATTACCATTTTACCCTCGATTTATAGAATTACCATTT
*
32169981 TACCCTCGATTTACAA
66 TACCCTCAATTTACAA
* * * * ***
32169997 AATTACTGA-AATACCTTTGGTTTACAAAATTACCAAAATACCCTCGATT
1 AATTAC-CATAATACCCTCGATTTACAAAATTACCATTTTACCCTCGATT
32170046 AAAAAAATTA
Statistics
Matches: 113, Mismatches: 16, Indels: 2
0.86 0.12 0.02
Matches are distributed among these distances:
81 112 0.99
82 1 0.01
ACGTcount: A:0.33, C:0.23, G:0.06, T:0.38
Consensus pattern (81 bp):
AATTACCATAATACCCTCGATTTACAAAATTACCATTTTACCCTCGATTTATAGAATTACCATTT
TACCCTCAATTTACAA
Found at i:32170103 original size:14 final size:15
Alignment explanation
Indices: 32170077--32170105 Score: 51
Period size: 14 Copynumber: 2.0 Consensus size: 15
32170067 CTGGTTTGTA
32170077 AAATTACCAAAATAC
1 AAATTACCAAAATAC
32170092 AAATTA-CAAAATAC
1 AAATTACCAAAATAC
32170106 CCTTGTAGGG
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
14 8 0.57
15 6 0.43
ACGTcount: A:0.62, C:0.17, G:0.00, T:0.21
Consensus pattern (15 bp):
AAATTACCAAAATAC
Found at i:32170132 original size:27 final size:27
Alignment explanation
Indices: 32170100--32170368 Score: 299
Period size: 27 Copynumber: 10.0 Consensus size: 27
32170090 ACAAATTACA
*
32170100 AAATACCCTTGTAGGGTAGAATTACCG
1 AAATACCCCTGTAGGGTAGAATTACCG
* *
32170127 AAATACCCCTATAGGGTAGAATTACTG
1 AAATACCCCTGTAGGGTAGAATTACCG
* * *
32170154 GAATACCCCTGTAAGGTAGAATTACAG
1 AAATACCCCTGTAGGGTAGAATTACCG
32170181 AAATACCCCTGTAGGGTAGAATTACCG
1 AAATACCCCTGTAGGGTAGAATTACCG
*
32170208 GAATACACCCTTGTAGGGTAGAATTACCG
1 AAATAC-CCC-TGTAGGGTAGAATTACCG
* *
32170237 AAAT-CCCCTATAGGGTAGAATTATCG
1 AAATACCCCTGTAGGGTAGAATTACCG
* * **
32170263 CAATACCCCTGTAGGGTAGATTTACTA
1 AAATACCCCTGTAGGGTAGAATTACCG
**
32170290 AAATACCCCTGTAGGGTAGAATTACTA
1 AAATACCCCTGTAGGGTAGAATTACCG
* * * *
32170317 AAATAACACTGTAGGATGGAATTACCG
1 AAATACCCCTGTAGGGTAGAATTACCG
* * * *
32170344 AGATA-CCTTGTGGGGTAAAATTACC
1 AAATACCCCTGTAGGGTAGAATTACC
32170369 ATTTTGCCCC
Statistics
Matches: 204, Mismatches: 35, Indels: 7
0.83 0.14 0.03
Matches are distributed among these distances:
26 33 0.16
27 146 0.72
28 4 0.02
29 21 0.10
ACGTcount: A:0.35, C:0.19, G:0.21, T:0.25
Consensus pattern (27 bp):
AAATACCCCTGTAGGGTAGAATTACCG
Found at i:32170296 original size:109 final size:110
Alignment explanation
Indices: 32170104--32170314 Score: 356
Period size: 109 Copynumber: 1.9 Consensus size: 110
32170094 ATTACAAAAT
*
32170104 ACCCTTGTAGGGTAGAATTACCGAAATACCCCTATAGGGTAGAATTACTGGAATACCCCTGTAAG
1 ACCCTTGTAGGGTAGAATTACCGAAATACCCCTATAGGGTAGAATTACTGCAATACCCCTGTAAG
32170169 GTAGAATTACAGAAATACCCCTGTAGGGTAGAATTACCGGAATAC
66 GTAGAATTACAGAAATACCCCTGTAGGGTAGAATTACCGGAATAC
*
32170214 ACCCTTGTAGGGTAGAATTACCGAAAT-CCCCTATAGGGTAGAATTA-TCGCAATACCCCTGTAG
1 ACCCTTGTAGGGTAGAATTACCGAAATACCCCTATAGGGTAGAATTACT-GCAATACCCCTGTAA
*
32170277 GGTAGATTTACTA-AAATACCCCTGTAGGGTAGAATTAC
65 GGTAGAATTAC-AGAAATACCCCTGTAGGGTAGAATTAC
32170315 TAAAATAACA
Statistics
Matches: 96, Mismatches: 3, Indels: 5
0.92 0.03 0.05
Matches are distributed among these distances:
108 1 0.01
109 67 0.70
110 28 0.29
ACGTcount: A:0.33, C:0.20, G:0.21, T:0.25
Consensus pattern (110 bp):
ACCCTTGTAGGGTAGAATTACCGAAATACCCCTATAGGGTAGAATTACTGCAATACCCCTGTAAG
GTAGAATTACAGAAATACCCCTGTAGGGTAGAATTACCGGAATAC
Found at i:32171048 original size:27 final size:27
Alignment explanation
Indices: 32171018--32171116 Score: 110
Period size: 27 Copynumber: 3.7 Consensus size: 27
32171008 ATTCTGTTAA
* *
32171018 GTGGCTTTGCCACATTATCTGTTTCTG
1 GTGGCTATGCCACAATATCTGTTTCTG
32171045 GTGGCTATGCCACAAATATCTG-TTCTG
1 GTGGCTATGCCAC-AATATCTGTTTCTG
* * *
32171072 GTGGCTCTGCCAGAATATCTGTATCTG
1 GTGGCTATGCCACAATATCTGTTTCTG
* * *
32171099 GTGACTCTGTCACAATAT
1 GTGGCTATGCCACAATAT
32171117 TTGATAACTG
Statistics
Matches: 62, Mismatches: 8, Indels: 4
0.84 0.11 0.05
Matches are distributed among these distances:
26 8 0.13
27 47 0.76
28 7 0.11
ACGTcount: A:0.19, C:0.22, G:0.22, T:0.36
Consensus pattern (27 bp):
GTGGCTATGCCACAATATCTGTTTCTG
Found at i:32171294 original size:6 final size:6
Alignment explanation
Indices: 32171256--32171372 Score: 96
Period size: 6 Copynumber: 18.8 Consensus size: 6
32171246 TTGCATTCAC
* * *
32171256 ATTCTG ATTTTTG ATTCTG -TTACCTG ATACTG ATTCTG ATTTTG ATTCTG
1 ATTCTG A-TTCTG ATTCTG ATT--CTG ATTCTG ATTCTG ATTCTG ATTCTG
* * *
32171306 -TTACCTG ATACTG ATTCTG ATTCTG ATTCTG -TCACCTA ATTCTG ATTCTG
1 ATT--CTG ATTCTG ATTCTG ATTCTG ATTCTG AT--TCTG ATTCTG ATTCTG
32171356 ATTCTG ATTCTG ATTCT
1 ATTCTG ATTCTG ATTCT
32171373 AGTTTTGATA
Statistics
Matches: 89, Mismatches: 12, Indels: 20
0.74 0.10 0.17
Matches are distributed among these distances:
5 5 0.06
6 68 0.76
7 13 0.15
8 3 0.03
ACGTcount: A:0.19, C:0.18, G:0.15, T:0.49
Consensus pattern (6 bp):
ATTCTG
Found at i:32171351 original size:37 final size:31
Alignment explanation
Indices: 32171256--32171367 Score: 170
Period size: 31 Copynumber: 3.6 Consensus size: 31
32171246 TTGCATTCAC
*
32171256 ATTCTGATTTTTGATTCTGTTACCTGATACTG
1 ATTCTGA-TTCTGATTCTGTTACCTGATACTG
*
32171288 ATTCTGATTTTGATTCTGTTACCTGATACTG
1 ATTCTGATTCTGATTCTGTTACCTGATACTG
* * *
32171319 ATTCTGATTCTGATTCTGTCACCTAATTCTG
1 ATTCTGATTCTGATTCTGTTACCTGATACTG
32171350 ATTCTGATTCTGATTCTG
1 ATTCTGATTCTGATTCTG
32171368 ATTCTAGTTT
Statistics
Matches: 76, Mismatches: 4, Indels: 1
0.94 0.05 0.01
Matches are distributed among these distances:
31 69 0.91
32 7 0.09
ACGTcount: A:0.19, C:0.18, G:0.15, T:0.48
Consensus pattern (31 bp):
ATTCTGATTCTGATTCTGTTACCTGATACTG
Found at i:32171381 original size:18 final size:18
Alignment explanation
Indices: 32171256--32171372 Score: 96
Period size: 19 Copynumber: 6.3 Consensus size: 18
32171246 TTGCATTCAC
*
32171256 ATTCTGATTTTTGATTCTG
1 ATTCTGA-TTCTGATTCTG
*
32171275 -TTACCTGATACTGATTCTG
1 ATT--CTGATTCTGATTCTG
*
32171294 ATTTTGATTCTG-TTACCTG
1 ATTCTGATTCTGATT--CTG
*
32171313 ATACTGATTCTGATTCTG
1 ATTCTGATTCTGATTCTG
* *
32171331 ATTCTG-TCACCTAATTCTG
1 ATTCTGAT--TCTGATTCTG
32171350 ATTCTGATTCTGATTCTG
1 ATTCTGATTCTGATTCTG
32171368 ATTCT
1 ATTCT
32171373 AGTTTTGATA
Statistics
Matches: 78, Mismatches: 11, Indels: 19
0.72 0.10 0.18
Matches are distributed among these distances:
17 3 0.04
18 30 0.38
19 36 0.46
20 9 0.12
ACGTcount: A:0.19, C:0.18, G:0.15, T:0.49
Consensus pattern (18 bp):
ATTCTGATTCTGATTCTG
Found at i:32172683 original size:25 final size:25
Alignment explanation
Indices: 32172645--32172717 Score: 76
Period size: 25 Copynumber: 2.9 Consensus size: 25
32172635 CATATATAGA
* *
32172645 TATGCTTATACGAGCTGTAATTCGG
1 TATGCTCACACGAGCTGTAATTCGG
* *
32172670 TATGCTCACTCGAGCTATAGATT-GG
1 TATGCTCACACGAGCTGTA-ATTCGG
* *
32172695 TATGCTCTCACAAGCTGTAATTC
1 TATGCTCACACGAGCTGTAATTC
32172718 TGTAACAGCC
Statistics
Matches: 38, Mismatches: 8, Indels: 4
0.76 0.16 0.08
Matches are distributed among these distances:
24 3 0.08
25 32 0.84
26 3 0.08
ACGTcount: A:0.25, C:0.21, G:0.21, T:0.34
Consensus pattern (25 bp):
TATGCTCACACGAGCTGTAATTCGG
Found at i:32177853 original size:27 final size:27
Alignment explanation
Indices: 32177802--32177891 Score: 101
Period size: 27 Copynumber: 3.2 Consensus size: 27
32177792 GTAACAGAGT
*
32177802 CACCAGATACACATATTTTGTGGCAGTGC
1 CACCAGA-ACAGATA-TTTGTGGCAGTGC
* *
32177831 CACCAGAACAGATATATGTGGCAGGGC
1 CACCAGAACAGATATTTGTGGCAGTGC
*
32177858 CACCAAAACAGATAATTTGTGGCA-TAGC
1 CACCAGAACAGAT-ATTTGTGGCAGT-GC
32177886 CACCAG
1 CACCAG
32177892 GATGCTTCCT
Statistics
Matches: 52, Mismatches: 7, Indels: 5
0.81 0.11 0.08
Matches are distributed among these distances:
27 23 0.44
28 22 0.42
29 7 0.13
ACGTcount: A:0.33, C:0.24, G:0.22, T:0.20
Consensus pattern (27 bp):
CACCAGAACAGATATTTGTGGCAGTGC
Found at i:32178112 original size:29 final size:28
Alignment explanation
Indices: 32177997--32178116 Score: 204
Period size: 28 Copynumber: 4.2 Consensus size: 28
32177987 AAATTAACCC
* *
32177997 TAGGGGTATAAAGGTTATTTTGCATACA
1 TAGGGGTATAATGGTAATTTTGCATACA
32178025 TAGGGGTATAATGGTAATTTTGCATACA
1 TAGGGGTATAATGGTAATTTTGCATACA
*
32178053 TAGGGCTATAATGGTAATTTTGCATACA
1 TAGGGGTATAATGGTAATTTTGCATACA
32178081 TAGGGGTATAATGGTAATTTTTGCATACA
1 TAGGGGTATAATGGTAA-TTTTGCATACA
32178110 TAGGGGT
1 TAGGGGT
32178117 TTTCTAGTAC
Statistics
Matches: 87, Mismatches: 4, Indels: 1
0.95 0.04 0.01
Matches are distributed among these distances:
28 69 0.79
29 18 0.21
ACGTcount: A:0.31, C:0.07, G:0.26, T:0.36
Consensus pattern (28 bp):
TAGGGGTATAATGGTAATTTTGCATACA
Found at i:32181106 original size:27 final size:28
Alignment explanation
Indices: 32181076--32181132 Score: 107
Period size: 27 Copynumber: 2.1 Consensus size: 28
32181066 AAATTGTCAT
32181076 TTAGGAATTTAATTGAG-AATGTTGAAA
1 TTAGGAATTTAATTGAGAAATGTTGAAA
32181103 TTAGGAATTTAATTGAGAAATGTTGAAA
1 TTAGGAATTTAATTGAGAAATGTTGAAA
32181131 TT
1 TT
32181133 TTGTGGTTAA
Statistics
Matches: 29, Mismatches: 0, Indels: 1
0.97 0.00 0.03
Matches are distributed among these distances:
27 17 0.59
28 12 0.41
ACGTcount: A:0.40, C:0.00, G:0.21, T:0.39
Consensus pattern (28 bp):
TTAGGAATTTAATTGAGAAATGTTGAAA
Found at i:32185287 original size:2 final size:2
Alignment explanation
Indices: 32185280--32185332 Score: 81
Period size: 2 Copynumber: 27.0 Consensus size: 2
32185270 GCAAACAAGC
* *
32185280 AG AG AG AG GG AG AG AG AG -G AG AG AG AG AA AG AG AG AG AG AG
1 AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG
32185321 AG AG AG AG AG AG
1 AG AG AG AG AG AG
32185333 CGAGCTCAAT
Statistics
Matches: 46, Mismatches: 4, Indels: 2
0.88 0.08 0.04
Matches are distributed among these distances:
1 1 0.02
2 45 0.98
ACGTcount: A:0.49, C:0.00, G:0.51, T:0.00
Consensus pattern (2 bp):
AG
Found at i:32186419 original size:20 final size:20
Alignment explanation
Indices: 32186394--32186450 Score: 55
Period size: 20 Copynumber: 2.8 Consensus size: 20
32186384 TTTCTTGATC
32186394 TTTATAATAATTCAATTCAA
1 TTTATAATAATTCAATTCAA
* *
32186414 TTTATAA-ATTTCACATTCAC
1 TTTATAATAATTCA-ATTCAA
32186434 TTTA-AATTCAATTCAAT
1 TTTATAA-T-AATTCAAT
32186451 GTATAAGACC
Statistics
Matches: 30, Mismatches: 3, Indels: 7
0.75 0.08 0.17
Matches are distributed among these distances:
19 7 0.23
20 16 0.53
21 2 0.07
22 5 0.17
ACGTcount: A:0.40, C:0.14, G:0.00, T:0.46
Consensus pattern (20 bp):
TTTATAATAATTCAATTCAA
Found at i:32190719 original size:27 final size:27
Alignment explanation
Indices: 32190700--32190919 Score: 251
Period size: 27 Copynumber: 8.1 Consensus size: 27
32190690 ATTACCAAAG
* * **
32190700 TACCCTCGATTTATAGAATTGCTGTTT
1 TACCCTCGATTTACAGAATTACCATTT
*
32190727 TACCCTCGATTTACAGAATTACTATTT
1 TACCCTCGATTTACAGAATTACCATTT
32190754 TACCCTCGATTTACAGAATTACCATTT
1 TACCCTCGATTTACAGAATTACCATTT
* * **
32190781 TACCCTCGATTTACAAAATCACTGTTT
1 TACCCTCGATTTACAGAATTACCATTT
* * * * *
32190808 TATCTTCGATTTATAGAATTATCGTTT
1 TACCCTCGATTTACAGAATTACCATTT
* * *
32190835 TACTCTCAATTTACAGAATTACTATTT
1 TACCCTCGATTTACAGAATTACCATTT
* *
32190862 TACCCTTGATTTATAGAATTACCATTT
1 TACCCTCGATTTACAGAATTACCATTT
* *
32190889 TACCCTCGATTTATAAAATTACCATTT
1 TACCCTCGATTTACAGAATTACCATTT
32190916 TACC
1 TACC
32190920 GCTAGGATGT
Statistics
Matches: 163, Mismatches: 30, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
27 163 1.00
ACGTcount: A:0.29, C:0.21, G:0.08, T:0.42
Consensus pattern (27 bp):
TACCCTCGATTTACAGAATTACCATTT
Found at i:32190758 original size:54 final size:54
Alignment explanation
Indices: 32190700--32190919 Score: 287
Period size: 54 Copynumber: 4.1 Consensus size: 54
32190690 ATTACCAAAG
* ** *
32190700 TACCCTCGATTTATAGAATTGCTGTTTTACCCTCGATTTACAGAATTACTATTT
1 TACCCTCGATTTATAGAATTACCATTTTACCCTCGATTTACAAAATTACTATTT
* * *
32190754 TACCCTCGATTTACAGAATTACCATTTTACCCTCGATTTACAAAATCACTGTTT
1 TACCCTCGATTTATAGAATTACCATTTTACCCTCGATTTACAAAATTACTATTT
* * * * * * *
32190808 TATCTTCGATTTATAGAATTATCGTTTTACTCTCAATTTACAGAATTACTATTT
1 TACCCTCGATTTATAGAATTACCATTTTACCCTCGATTTACAAAATTACTATTT
* * *
32190862 TACCCTTGATTTATAGAATTACCATTTTACCCTCGATTTATAAAATTACCATTT
1 TACCCTCGATTTATAGAATTACCATTTTACCCTCGATTTACAAAATTACTATTT
32190916 TACC
1 TACC
32190920 GCTAGGATGT
Statistics
Matches: 139, Mismatches: 27, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
54 139 1.00
ACGTcount: A:0.29, C:0.21, G:0.08, T:0.42
Consensus pattern (54 bp):
TACCCTCGATTTATAGAATTACCATTTTACCCTCGATTTACAAAATTACTATTT
Found at i:32190790 original size:81 final size:81
Alignment explanation
Indices: 32190700--32190919 Score: 280
Period size: 81 Copynumber: 2.7 Consensus size: 81
32190690 ATTACCAAAG
* * *
32190700 TACCCTCGATTTATAGAATTGCTGTTTTACCCTCGATTTACAGAATTACTATTTTACCCTCGATT
1 TACCCTCGATTTATAGAATTACTGTTTTACCCTCGATTTATAGAATTACTATTTTACCCTCAATT
32190765 TACAGAATTACCATTT
66 TACAGAATTACCATTT
* * * * * * *
32190781 TACCCTCGATTTACAAAATCACTGTTTTATCTTCGATTTATAGAATTA-TCGTTTTACTCTCAAT
1 TACCCTCGATTTATAGAATTACTGTTTTACCCTCGATTTATAGAATTACT-ATTTTACCCTCAAT
*
32190845 TTACAGAATTACTATTT
65 TTACAGAATTACCATTT
* ** * *
32190862 TACCCTTGATTTATAGAATTACCATTTTACCCTCGATTTATAAAATTACCATTTTACC
1 TACCCTCGATTTATAGAATTACTGTTTTACCCTCGATTTATAGAATTACTATTTTACC
32190920 GCTAGGATGT
Statistics
Matches: 114, Mismatches: 23, Indels: 4
0.81 0.16 0.03
Matches are distributed among these distances:
80 1 0.01
81 113 0.99
ACGTcount: A:0.29, C:0.21, G:0.08, T:0.42
Consensus pattern (81 bp):
TACCCTCGATTTATAGAATTACTGTTTTACCCTCGATTTATAGAATTACTATTTTACCCTCAATT
TACAGAATTACCATTT
Found at i:32190847 original size:108 final size:108
Alignment explanation
Indices: 32190705--32190907 Score: 336
Period size: 108 Copynumber: 1.9 Consensus size: 108
32190695 CAAAGTACCC
*
32190705 TCGATTTATAGAATTGCTGTTTTACCCTCGATTTACAGAATTACTATTTTACCCTCGATTTACAG
1 TCGATTTATAGAATTGCTGTTTTACCCTCAATTTACAGAATTACTATTTTACCCTCGATTTACAG
32190770 AATTACCATTTTACCCTCGATTTACAAAATCACTGTTTTATCT
66 AATTACCATTTTACCCTCGATTTACAAAATCACTGTTTTATCT
* * * *
32190813 TCGATTTATAGAATT-ATCGTTTTACTCTCAATTTACAGAATTACTATTTTACCCTTGATTTATA
1 TCGATTTATAGAATTGCT-GTTTTACCCTCAATTTACAGAATTACTATTTTACCCTCGATTTACA
*
32190877 GAATTACCATTTTACCCTCGATTTATAAAAT
65 GAATTACCATTTTACCCTCGATTTACAAAAT
32190908 TACCATTTTA
Statistics
Matches: 88, Mismatches: 6, Indels: 2
0.92 0.06 0.02
Matches are distributed among these distances:
107 1 0.01
108 87 0.99
ACGTcount: A:0.30, C:0.19, G:0.08, T:0.43
Consensus pattern (108 bp):
TCGATTTATAGAATTGCTGTTTTACCCTCAATTTACAGAATTACTATTTTACCCTCGATTTACAG
AATTACCATTTTACCCTCGATTTACAAAATCACTGTTTTATCT
Found at i:32191485 original size:25 final size:24
Alignment explanation
Indices: 32191457--32191523 Score: 98
Period size: 25 Copynumber: 2.7 Consensus size: 24
32191447 CCTGATACTG
32191457 ATTCTGATTCTACTTCTGTCACCTA
1 ATTCTGATTCTA-TTCTGTCACCTA
*
32191482 ATTCTGATTCTGATTCTGTCACCTG
1 ATTCTGATTCT-ATTCTGTCACCTA
32191507 ATTCTGATTCTAATTCT
1 ATTCTGATTCT-ATTCT
32191524 CATTTTGATT
Statistics
Matches: 39, Mismatches: 2, Indels: 2
0.91 0.05 0.05
Matches are distributed among these distances:
25 38 0.97
26 1 0.03
ACGTcount: A:0.19, C:0.24, G:0.10, T:0.46
Consensus pattern (24 bp):
ATTCTGATTCTATTCTGTCACCTA
Found at i:32191517 original size:31 final size:30
Alignment explanation
Indices: 32191426--32191523 Score: 91
Period size: 31 Copynumber: 3.4 Consensus size: 30
32191416 TTGCATTCAC
* * *
32191426 ATTCTGATTTTGATTCTTTTACCTGATACTG
1 ATTCTGATTCTGATTCTGTCACCTGAT-CTG
32191457 ATTCTGATTCT-ACTTCTGTCACCT-A----
1 ATTCTGATTCTGA-TTCTGTCACCTGATCTG
32191482 ATTCTGATTCTGATTCTGTCACCTGATTCTG
1 ATTCTGATTCTGATTCTGTCACCTGA-TCTG
*
32191513 ATTCTAATTCT
1 ATTCTGATTCT
32191524 CATTTTGATT
Statistics
Matches: 55, Mismatches: 4, Indels: 16
0.73 0.05 0.21
Matches are distributed among these distances:
25 22 0.40
26 2 0.04
30 2 0.04
31 29 0.53
ACGTcount: A:0.19, C:0.21, G:0.11, T:0.48
Consensus pattern (30 bp):
ATTCTGATTCTGATTCTGTCACCTGATCTG
Found at i:32193451 original size:31 final size:31
Alignment explanation
Indices: 32193416--32193495 Score: 90
Period size: 31 Copynumber: 2.6 Consensus size: 31
32193406 TTGCATTCAC
* * *
32193416 ATTCTGATTTTGATTCTGTTACCTGATACTA
1 ATTCTGATTCTGATTCTGTCACCTAATACTA
* * *
32193447 ATTCTGATTCT-ACTTTTGTCACCTAATTCTG
1 ATTCTGATTCTGA-TTCTGTCACCTAATACTA
32193478 ATTCTGATTCTGATTCTG
1 ATTCTGATTCTGATTCTG
32193496 ATTCTATCAC
Statistics
Matches: 40, Mismatches: 7, Indels: 4
0.78 0.14 0.08
Matches are distributed among these distances:
30 1 0.03
31 38 0.95
32 1 0.03
ACGTcount: A:0.20, C:0.19, G:0.12, T:0.49
Consensus pattern (31 bp):
ATTCTGATTCTGATTCTGTCACCTAATACTA
Found at i:32193479 original size:37 final size:37
Alignment explanation
Indices: 32193438--32193538 Score: 123
Period size: 37 Copynumber: 2.7 Consensus size: 37
32193428 ATTCTGTTAC
* * *
32193438 CTGATACTAATTCTGATTCT-ACTTTTGTCACCTAATT
1 CTGATTCTAATTCTGATTCTGA-TTCTATCACCTAATT
* *
32193475 CTGATTCTGATTCTGATTCTGATTCTATCACCTGATT
1 CTGATTCTAATTCTGATTCTGATTCTATCACCTAATT
* *
32193512 CTGATTCTAATTCTCATTTTGATTCTA
1 CTGATTCTAATTCTGATTCTGATTCTA
32193539 GTCCTGATAA
Statistics
Matches: 55, Mismatches: 8, Indels: 2
0.85 0.12 0.03
Matches are distributed among these distances:
37 54 0.98
38 1 0.02
ACGTcount: A:0.22, C:0.21, G:0.10, T:0.48
Consensus pattern (37 bp):
CTGATTCTAATTCTGATTCTGATTCTATCACCTAATT
Found at i:32193483 original size:6 final size:6
Alignment explanation
Indices: 32193472--32193537 Score: 71
Period size: 6 Copynumber: 10.8 Consensus size: 6
32193462 TTGTCACCTA
* *
32193472 ATTCTG ATTCTG ATTCTG ATTCTG ATTCT- ATCACCTG ATTCTG ATTCTA
1 ATTCTG ATTCTG ATTCTG ATTCTG ATTCTG AT--TCTG ATTCTG ATTCTG
* *
32193521 ATTCTC ATTTTG ATTCT
1 ATTCTG ATTCTG ATTCT
32193538 AGTCCTGATA
Statistics
Matches: 50, Mismatches: 7, Indels: 6
0.79 0.11 0.10
Matches are distributed among these distances:
5 2 0.04
6 44 0.88
7 2 0.04
8 2 0.04
ACGTcount: A:0.20, C:0.20, G:0.11, T:0.50
Consensus pattern (6 bp):
ATTCTG
Found at i:32205573 original size:40 final size:40
Alignment explanation
Indices: 32205515--32205626 Score: 125
Period size: 40 Copynumber: 2.8 Consensus size: 40
32205505 GAATACACAT
* * * * *
32205515 CACCAGCATGATTACTCTTCGGGACCTAGCCCAGATATGA
1 CACCAGCACGAATGCTCTTCGGGACTTAGCCCAGATATAA
* *
32205555 CACCAGCACGAATGCTCTTCGGGACTTAACCCTGATATAA
1 CACCAGCACGAATGCTCTTCGGGACTTAGCCCAGATATAA
* * * *
32205595 CTCTAGCAGGAATGCTCATCGGGACTTAGCCC
1 CACCAGCACGAATGCTCTTCGGGACTTAGCCC
32205627 GGAATGCTCT
Statistics
Matches: 60, Mismatches: 12, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
40 60 1.00
ACGTcount: A:0.27, C:0.30, G:0.21, T:0.22
Consensus pattern (40 bp):
CACCAGCACGAATGCTCTTCGGGACTTAGCCCAGATATAA
Found at i:32205630 original size:24 final size:24
Alignment explanation
Indices: 32205603--32205653 Score: 75
Period size: 24 Copynumber: 2.1 Consensus size: 24
32205593 AACTCTAGCA
*
32205603 GGAATGCTCATCGGGACTTAGCCC
1 GGAATGCTCATCGAGACTTAGCCC
* *
32205627 GGAATGCTCTTCTAGACTTAGCCC
1 GGAATGCTCATCGAGACTTAGCCC
32205651 GGA
1 GGA
32205654 TATAACTCTA
Statistics
Matches: 24, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
24 24 1.00
ACGTcount: A:0.22, C:0.27, G:0.27, T:0.24
Consensus pattern (24 bp):
GGAATGCTCATCGAGACTTAGCCC
Found at i:32205645 original size:64 final size:64
Alignment explanation
Indices: 32205564--32205689 Score: 189
Period size: 64 Copynumber: 2.0 Consensus size: 64
32205554 ACACCAGCAC
* * * *
32205564 GAATGCTCTTCGGGACTTAACCCTGATATAACTCTAGCAGGAATGCTCATCGGGACTTAGCCCG
1 GAATGCTCTTCGAGACTTAACCCGGATATAACTCTAGCACGAATGCTCATCGAGACTTAGCCCG
* * *
32205628 GAATGCTCTTCTAGACTTAGCCCGGATATAACTCTAGCACGAATGCTCTTCGAGACTTAGCC
1 GAATGCTCTTCGAGACTTAACCCGGATATAACTCTAGCACGAATGCTCATCGAGACTTAGCC
32205690 TGGATATAAC
Statistics
Matches: 55, Mismatches: 7, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
64 55 1.00
ACGTcount: A:0.25, C:0.27, G:0.21, T:0.26
Consensus pattern (64 bp):
GAATGCTCTTCGAGACTTAACCCGGATATAACTCTAGCACGAATGCTCATCGAGACTTAGCCCG
Found at i:32205672 original size:40 final size:40
Alignment explanation
Indices: 32205628--32205737 Score: 175
Period size: 40 Copynumber: 2.8 Consensus size: 40
32205618 ACTTAGCCCG
* * *
32205628 GAATGCTCTTCTAGACTTAGCCCGGATATAACTCTAGCAC
1 GAATGCTCTTCGAGACTTAGCCCGGATATAACACCAGCAC
*
32205668 GAATGCTCTTCGAGACTTAGCCTGGATATAACACCAGCAC
1 GAATGCTCTTCGAGACTTAGCCCGGATATAACACCAGCAC
*
32205708 GAATGCTCTTCGGGACTTAGCCCGGATATA
1 GAATGCTCTTCGAGACTTAGCCCGGATATA
32205738 TAACTCTCAA
Statistics
Matches: 64, Mismatches: 6, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
40 64 1.00
ACGTcount: A:0.27, C:0.26, G:0.21, T:0.25
Consensus pattern (40 bp):
GAATGCTCTTCGAGACTTAGCCCGGATATAACACCAGCAC
Found at i:32205712 original size:104 final size:104
Alignment explanation
Indices: 32205541--32205733 Score: 280
Period size: 104 Copynumber: 1.9 Consensus size: 104
32205531 CTTCGGGACC
* * * * *
32205541 TAGCCCAGATATGACACCAGCACGAATGCTCTTCGGGACTTAACCCTGATATAACTCTAGCAGGA
1 TAGCCCAGATATAACACCAGCACGAATGCTCTTCGAGACTTAACCCTGATATAACACCAGCACGA
32205606 ATGCTCATCGGGACTTAGCCCGGAATGCTCTTCTAGACT
66 ATGCTCATCGGGACTTAGCCCGGAATGCTCTTCTAGACT
* * * *
32205645 TAGCCCGGATATAACTCTAGCACGAATGCTCTTCGAGACTT-AGCCTGGATATAACACCAGCACG
1 TAGCCCAGATATAACACCAGCACGAATGCTCTTCGAGACTTAACCCT-GATATAACACCAGCACG
*
32205709 AATGCTCTTCGGGACTTAGCCCGGA
65 AATGCTCATCGGGACTTAGCCCGGA
32205734 TATATAACTC
Statistics
Matches: 78, Mismatches: 10, Indels: 2
0.87 0.11 0.02
Matches are distributed among these distances:
103 4 0.05
104 74 0.95
ACGTcount: A:0.27, C:0.28, G:0.22, T:0.23
Consensus pattern (104 bp):
TAGCCCAGATATAACACCAGCACGAATGCTCTTCGAGACTTAACCCTGATATAACACCAGCACGA
ATGCTCATCGGGACTTAGCCCGGAATGCTCTTCTAGACT
Found at i:32212216 original size:27 final size:27
Alignment explanation
Indices: 32212180--32212260 Score: 128
Period size: 27 Copynumber: 3.0 Consensus size: 27
32212170 CAAATTAAAT
32212180 AAATGACTATTTTGCCCTTATGTGGTA
1 AAATGACTATTTTGCCCTTATGTGGTA
*
32212207 AAATAACTATTTTGCCCTTATAG-GGTA
1 AAATGACTATTTTGCCCTTAT-GTGGTA
*
32212234 AGATGACTATTTTGCCCTTATGTGGTA
1 AAATGACTATTTTGCCCTTATGTGGTA
32212261 TATGCATATA
Statistics
Matches: 49, Mismatches: 3, Indels: 4
0.88 0.05 0.07
Matches are distributed among these distances:
26 1 0.02
27 47 0.96
28 1 0.02
ACGTcount: A:0.27, C:0.15, G:0.19, T:0.40
Consensus pattern (27 bp):
AAATGACTATTTTGCCCTTATGTGGTA
Found at i:32212541 original size:23 final size:24
Alignment explanation
Indices: 32212515--32212559 Score: 74
Period size: 23 Copynumber: 1.9 Consensus size: 24
32212505 ATATCCCCAC
*
32212515 ATGGAGTGTAG-GGTTGGATGGAG
1 ATGGAGTGTAGAGGCTGGATGGAG
32212538 ATGGAGTGTAGAGGCTGGATGG
1 ATGGAGTGTAGAGGCTGGATGG
32212560 GTAGGACTTG
Statistics
Matches: 20, Mismatches: 1, Indels: 1
0.91 0.05 0.05
Matches are distributed among these distances:
23 11 0.55
24 9 0.45
ACGTcount: A:0.22, C:0.02, G:0.51, T:0.24
Consensus pattern (24 bp):
ATGGAGTGTAGAGGCTGGATGGAG
Found at i:32212598 original size:18 final size:18
Alignment explanation
Indices: 32212575--32212636 Score: 61
Period size: 18 Copynumber: 3.4 Consensus size: 18
32212565 ACTTGTATAC
32212575 TGTTACTGCACTAATTAT
1 TGTTACTGCACTAATTAT
* * *
32212593 TGTTACTACACTGATTAC
1 TGTTACTGCACTAATTAT
* * * *
32212611 TATTTCTGTACTAAGTAT
1 TGTTACTGCACTAATTAT
32212629 TGTTACTG
1 TGTTACTG
32212637 TAATAGGCCA
Statistics
Matches: 32, Mismatches: 12, Indels: 0
0.73 0.27 0.00
Matches are distributed among these distances:
18 32 1.00
ACGTcount: A:0.26, C:0.16, G:0.13, T:0.45
Consensus pattern (18 bp):
TGTTACTGCACTAATTAT
Found at i:32217925 original size:93 final size:93
Alignment explanation
Indices: 32217766--32217937 Score: 281
Period size: 93 Copynumber: 1.8 Consensus size: 93
32217756 GGATGGTTGA
* * * * *
32217766 GCATCCGAACTTATTGAGTTGAGTCGGAGTTCACTTATGGATGCGAATGTCTGAACTCGTTGAGT
1 GCATCCGAACTCATTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAACTCGTTGAGT
32217831 TGAGTCCGAGTTCGTGAGATGTAACTAG
66 TGAGTCCGAGTTCGTGAGATGTAACTAG
* *
32217859 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAGCTCGTTGAGT
1 GCATCCGAACTCATTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAACTCGTTGAGT
32217924 TGAGTCCGAGTTCG
66 TGAGTCCGAGTTCG
32217938 CTTATGGGTG
Statistics
Matches: 72, Mismatches: 7, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
93 72 1.00
ACGTcount: A:0.22, C:0.20, G:0.30, T:0.29
Consensus pattern (93 bp):
GCATCCGAACTCATTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAACTCGTTGAGT
TGAGTCCGAGTTCGTGAGATGTAACTAG
Found at i:32217935 original size:46 final size:46
Alignment explanation
Indices: 32217770--32217944 Score: 178
Period size: 46 Copynumber: 3.8 Consensus size: 46
32217760 GGTTGAGCAT
** * * *
32217770 CCGAACTTATTGAGTTGAGTCGGAGTTCACTTATGGATGCGAATGT
1 CCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGC
* * * *
32217816 CTGAACTCGTTGAGTTGAGTCCGAGTTC-GTGA--GATG-TAACTAGGC
1 CCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAAC---GC
32217861 ATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGC
1 --CCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGC
* *
32217909 CCGAGCTCGTTGAGTTGAGTCCGAGTTCGCTTATGG
1 CCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGG
32217945 GTGGGTTACA
Statistics
Matches: 105, Mismatches: 15, Indels: 18
0.76 0.11 0.13
Matches are distributed among these distances:
42 2 0.02
43 4 0.04
45 3 0.03
46 58 0.55
47 27 0.26
48 4 0.04
50 4 0.04
51 3 0.03
ACGTcount: A:0.21, C:0.19, G:0.30, T:0.30
Consensus pattern (46 bp):
CCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGC
Found at i:32220375 original size:39 final size:39
Alignment explanation
Indices: 32220321--32220399 Score: 133
Period size: 39 Copynumber: 2.0 Consensus size: 39
32220311 AGCAAAATGT
*
32220321 GGGTCCTAAATCTCAGAATACTTCTGCTA-CCAGTGTAGG
1 GGGTCCTAAATCTCAGAATACTTCTGC-AGCCAATGTAGG
32220360 GGGTCCTAAATCTCAGAATACTTCTGCAGCCAATGTAGG
1 GGGTCCTAAATCTCAGAATACTTCTGCAGCCAATGTAGG
32220399 G
1 G
32220400 AACTTGAGAT
Statistics
Matches: 38, Mismatches: 1, Indels: 2
0.93 0.02 0.05
Matches are distributed among these distances:
38 1 0.03
39 37 0.97
ACGTcount: A:0.27, C:0.23, G:0.24, T:0.27
Consensus pattern (39 bp):
GGGTCCTAAATCTCAGAATACTTCTGCAGCCAATGTAGG
Found at i:32225002 original size:65 final size:65
Alignment explanation
Indices: 32224898--32225028 Score: 253
Period size: 65 Copynumber: 2.0 Consensus size: 65
32224888 AATTCAATCA
*
32224898 AAGGTAAATACTGTTCCCATGAACTACTGAACTCGAGGATGCAACATCTCAACATATCCTCAAGT
1 AAGGTAAATACCGTTCCCATGAACTACTGAACTCGAGGATGCAACATCTCAACATATCCTCAAGT
32224963 AAGGTAAATACCGTTCCCATGAACTACTGAACTCGAGGATGCAACATCTCAACATATCCTCAAGT
1 AAGGTAAATACCGTTCCCATGAACTACTGAACTCGAGGATGCAACATCTCAACATATCCTCAAGT
32225028 A
1 A
32225029 TCTGAATTAT
Statistics
Matches: 65, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
65 65 1.00
ACGTcount: A:0.36, C:0.25, G:0.15, T:0.24
Consensus pattern (65 bp):
AAGGTAAATACCGTTCCCATGAACTACTGAACTCGAGGATGCAACATCTCAACATATCCTCAAGT
Found at i:32235135 original size:46 final size:46
Alignment explanation
Indices: 32235071--32235516 Score: 724
Period size: 46 Copynumber: 9.7 Consensus size: 46
32235061 CCGCCCCTAA
** * *
32235071 GTGAACTCGGACTCAACTCAACGAGCTAGGGA-GTTCGCATCCATAA
1 GTGAACTCGGACTCAACTCAACGAG-TTCGGACATTCGCATCCATAG
* *
32235117 GTGAACTCGCACTCAACTCAACGAGTTCGGATGCCTAGTT-ACAT-C-TCA-
1 GTGAACTCGGACTCAACTCAACGAGTTCGGA---C-A-TTCGCATCCAT-AG
*
32235165 -CGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCATCCATAG
1 GTGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCATCCATAG
32235210 GTGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCATCCATAG
1 GTGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCATCCATAG
32235256 GTGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCATCCATAG
1 GTGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCATCCATAG
32235302 GTGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCATCCATAG
1 GTGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCATCCATAG
32235348 GTGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCATCCATAG
1 GTGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCATCCATAG
32235394 GTGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCATCCATAG
1 GTGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCATCCATAG
32235440 GTGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCATCCATAG
1 GTGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCATCCATAG
32235486 GTGAACTCGGACTCAACTCAACGAGTTCGGA
1 GTGAACTCGGACTCAACTCAACGAGTTCGGA
32235517 TGCTCAACCA
Statistics
Matches: 379, Mismatches: 9, Indels: 24
0.92 0.02 0.06
Matches are distributed among these distances:
42 2 0.01
43 4 0.01
44 3 0.01
45 5 0.01
46 329 0.87
47 28 0.07
48 1 0.00
49 2 0.01
50 3 0.01
51 2 0.01
ACGTcount: A:0.28, C:0.28, G:0.22, T:0.22
Consensus pattern (46 bp):
GTGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCATCCATAG
Found at i:32239534 original size:61 final size:61
Alignment explanation
Indices: 32239439--32239559 Score: 233
Period size: 61 Copynumber: 2.0 Consensus size: 61
32239429 AGATCATAGT
32239439 AAATATATCAATTTTACATTGAAACATGCATAAATTAATGCTTATTATACATATGAACTTG
1 AAATATATCAATTTTACATTGAAACATGCATAAATTAATGCTTATTATACATATGAACTTG
*
32239500 AAATATATCAATTTTACTTTGAAACATGCATAAATTAATGCTTATTATACATATGAACTT
1 AAATATATCAATTTTACATTGAAACATGCATAAATTAATGCTTATTATACATATGAACTT
32239560 ACCTTGATAA
Statistics
Matches: 59, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
61 59 1.00
ACGTcount: A:0.42, C:0.12, G:0.07, T:0.39
Consensus pattern (61 bp):
AAATATATCAATTTTACATTGAAACATGCATAAATTAATGCTTATTATACATATGAACTTG
Found at i:32244184 original size:30 final size:30
Alignment explanation
Indices: 32244150--32244210 Score: 77
Period size: 30 Copynumber: 2.0 Consensus size: 30
32244140 TCCTTAACTC
32244150 AAACTTTGGAAAAATTACAATTTTGCCCCT
1 AAACTTTGGAAAAATTACAATTTTGCCCCT
* * * * *
32244180 AAACTTTTGCATATTTACACTTTTGCCCCT
1 AAACTTTGGAAAAATTACAATTTTGCCCCT
32244210 A
1 A
32244211 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:32248484 original size:115 final size:115
Alignment explanation
Indices: 32248340--32248569 Score: 442
Period size: 115 Copynumber: 2.0 Consensus size: 115
32248330 TTGTTGTATT
*
32248340 ATTATCATACCAACTTACATACTTTCAACACCTCGGAGATCATAGGAAATATATCAATTTTACTT
1 ATTATCATACCAACTTACATACTTTCAACACCTCGGAGATCATAGGAAATATATCAATTTTACAT
32248405 TGAAACATGCATAAATTAATGCTTATTATACATATGAACTTACCTTGATA
66 TGAAACATGCATAAATTAATGCTTATTATACATATGAACTTACCTTGATA
*
32248455 ATTATCATACCAACTTACATACTTTCAACACCTCGGAGATCATAGTAAATATATCAATTTTACAT
1 ATTATCATACCAACTTACATACTTTCAACACCTCGGAGATCATAGGAAATATATCAATTTTACAT
32248520 TGAAACATGCATAAATTAATGCTTATTATACATATGAACTTACCTTGATA
66 TGAAACATGCATAAATTAATGCTTATTATACATATGAACTTACCTTGATA
32248570 TTAAAAGGGC
Statistics
Matches: 113, Mismatches: 2, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
115 113 1.00
ACGTcount: A:0.39, C:0.18, G:0.08, T:0.35
Consensus pattern (115 bp):
ATTATCATACCAACTTACATACTTTCAACACCTCGGAGATCATAGGAAATATATCAATTTTACAT
TGAAACATGCATAAATTAATGCTTATTATACATATGAACTTACCTTGATA
Found at i:32248739 original size:30 final size:30
Alignment explanation
Indices: 32248705--32248765 Score: 77
Period size: 30 Copynumber: 2.0 Consensus size: 30
32248695 TCCTTAACTC
32248705 AAACTTTGGAAAAATTACAATTTTGCCCCT
1 AAACTTTGGAAAAATTACAATTTTGCCCCT
* * * * *
32248735 AAACTTTTGCATATTTACACTTTTGCCCCT
1 AAACTTTGGAAAAATTACAATTTTGCCCCT
32248765 A
1 A
32248766 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:32249029 original size:251 final size:251
Alignment explanation
Indices: 32248586--32249088 Score: 943
Period size: 251 Copynumber: 2.0 Consensus size: 251
32248576 GGGCCATTTT
32248586 ACCAACTTTCCCAATTTTCGATTTTTCTCTCATTCTAGGTTCAAATCTCGTTATCTGGGATCTAA
1 ACCAACTTTCCCAATTTTCGATTTTTCTCTCATTCTAGGTTCAAATCTCGTTATCTGGGATCTAA
* *
32248651 AACATCATATTTTATTTATTTAATTAATTTACTATTCAAAATAGTCCTTAACTCAAACTTTGGAA
66 AACATCATATTTTACTTATTTAATTAATTTACTATTCAAAACAGTCCTTAACTCAAACTTTGGAA
* *
32248716 AAATTACAATTTTGCCCCTAAACTTTTGCATATTTACACTTTTGCCCCTAGGCTCGGGAATTAAA
131 AAATTAAAATTTTGCCCCTAAACTTTAGCATATTTACACTTTTGCCCCTAGGCTCGGGAATTAAA
32248781 CTTCATCCCTTATTCTTATGTTTTATGACATGATGATCACTTTTCCCTTCTATGGA
196 CTTCATCCCTTATTCTTATGTTTTATGACATGATGATCACTTTTCCCTTCTATGGA
* *
32248837 ACCAACTTTCCCAATTTTCGATTTTTCTCTCATTCTAGGTTCAACTCTCGTTTTCTGGGATCTAA
1 ACCAACTTTCCCAATTTTCGATTTTTCTCTCATTCTAGGTTCAAATCTCGTTATCTGGGATCTAA
32248902 AACATCATATTTTACTTATTTAATTAATTTACTATTCAAAACAGTCCTTAACTCAAACTTTGGAA
66 AACATCATATTTTACTTATTTAATTAATTTACTATTCAAAACAGTCCTTAACTCAAACTTTGGAA
*
32248967 AAATTAAAATTTTGCCCCTAAACTTTAGCATATTTACACTTTTTCCCCTAGGCTCGGGAATTAAA
131 AAATTAAAATTTTGCCCCTAAACTTTAGCATATTTACACTTTTGCCCCTAGGCTCGGGAATTAAA
32249032 CTTCATCCCTTATTCTTATGTTTTATGACATGATGATCACTTTTCCCTTCTATGGA
196 CTTCATCCCTTATTCTTATGTTTTATGACATGATGATCACTTTTCCCTTCTATGGA
32249088 A
1 A
32249089 ACATCAAATT
Statistics
Matches: 245, Mismatches: 7, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
251 245 1.00
ACGTcount: A:0.28, C:0.21, G:0.09, T:0.41
Consensus pattern (251 bp):
ACCAACTTTCCCAATTTTCGATTTTTCTCTCATTCTAGGTTCAAATCTCGTTATCTGGGATCTAA
AACATCATATTTTACTTATTTAATTAATTTACTATTCAAAACAGTCCTTAACTCAAACTTTGGAA
AAATTAAAATTTTGCCCCTAAACTTTAGCATATTTACACTTTTGCCCCTAGGCTCGGGAATTAAA
CTTCATCCCTTATTCTTATGTTTTATGACATGATGATCACTTTTCCCTTCTATGGA
Found at i:32249475 original size:210 final size:210
Alignment explanation
Indices: 32249113--32249532 Score: 813
Period size: 210 Copynumber: 2.0 Consensus size: 210
32249103 CTCTAACATA
32249113 TACTTATGACTATTAGGTATTTTTACCAATTAAGCCCTTTTGCTCGTTTTCACTTAAAACCGAGT
1 TACTTATGACTATTAGGTATTTTTACCAATTAAGCCCTTTTGCTCGTTTTCACTTAAAACCGAGT
32249178 AGCACAAGTTGTCTAACATAATTTAAAACCTCATATTGTATCATAAAACACCAGAATACACAAAT
66 AGCACAAGTTGTCTAACATAATTTAAAACCTCATATTGTATCATAAAACACCAGAATACACAAAT
**
32249243 TTTACCTTTGGGTATTTTTCCAAATATGAACCCTAGGTTGAATTATTGCTAGCATAAGCTAAATC
131 TTTACCTACGGGTATTTTTCCAAATATGAACCCTAGGTTGAATTATTGCTAGCATAAGCTAAATC
*
32249308 AAGTTACTGGGACTC
196 AAGTTACTAGGACTC
32249323 TACTTATGACTATTAGGTATTTTTACCAATTAAGCCCTTTTGCTCGTTTTCACTTAAAACCGAGT
1 TACTTATGACTATTAGGTATTTTTACCAATTAAGCCCTTTTGCTCGTTTTCACTTAAAACCGAGT
32249388 AGCACAAGTTGTCTAACATAATTTAAAACCTCATATTGTATCATAAAACACCAGAATACACAAAT
66 AGCACAAGTTGTCTAACATAATTTAAAACCTCATATTGTATCATAAAACACCAGAATACACAAAT
32249453 TTTACCTACGGGTATTTTTCCAAATATGAACCCTAGGTTGAATTATTGCTAGCATAAGCTAAATC
131 TTTACCTACGGGTATTTTTCCAAATATGAACCCTAGGTTGAATTATTGCTAGCATAAGCTAAATC
32249518 AAGTTACTAGGACTC
196 AAGTTACTAGGACTC
32249533 CAAAAACGTA
Statistics
Matches: 207, Mismatches: 3, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
210 207 1.00
ACGTcount: A:0.34, C:0.19, G:0.13, T:0.34
Consensus pattern (210 bp):
TACTTATGACTATTAGGTATTTTTACCAATTAAGCCCTTTTGCTCGTTTTCACTTAAAACCGAGT
AGCACAAGTTGTCTAACATAATTTAAAACCTCATATTGTATCATAAAACACCAGAATACACAAAT
TTTACCTACGGGTATTTTTCCAAATATGAACCCTAGGTTGAATTATTGCTAGCATAAGCTAAATC
AAGTTACTAGGACTC
Found at i:32257595 original size:29 final size:29
Alignment explanation
Indices: 32257531--32257618 Score: 101
Period size: 29 Copynumber: 3.1 Consensus size: 29
32257521 TATGCATGCT
* *
32257531 TATGACCCACTAGGCCC-AAT-ATCATTCA
1 TATGGCCCATTAGGCCCAAATCA-CATTCA
*
32257559 TATGGCCCATTAGGCCCAAATCACATTTA
1 TATGGCCCATTAGGCCCAAATCACATTCA
*
32257588 TATGGCCCACTT-GGCCCATATCACATTCA
1 TATGGCCCA-TTAGGCCCAAATCACATTCA
32257617 TA
1 TA
32257619 GTCATGCTCT
Statistics
Matches: 52, Mismatches: 5, Indels: 5
0.84 0.08 0.08
Matches are distributed among these distances:
28 15 0.29
29 34 0.65
30 3 0.06
ACGTcount: A:0.30, C:0.31, G:0.12, T:0.27
Consensus pattern (29 bp):
TATGGCCCATTAGGCCCAAATCACATTCA
Found at i:32257880 original size:16 final size:16
Alignment explanation
Indices: 32257843--32257873 Score: 62
Period size: 16 Copynumber: 1.9 Consensus size: 16
32257833 CGACTTTTTG
32257843 GCATTTCAGCTTTTCA
1 GCATTTCAGCTTTTCA
32257859 GCATTTCAGCTTTTC
1 GCATTTCAGCTTTTC
32257874 GAGATTTGCC
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 15 1.00
ACGTcount: A:0.16, C:0.26, G:0.13, T:0.45
Consensus pattern (16 bp):
GCATTTCAGCTTTTCA
Found at i:32271199 original size:46 final size:46
Alignment explanation
Indices: 32271142--32271235 Score: 170
Period size: 46 Copynumber: 2.0 Consensus size: 46
32271132 ACTATAAAGG
32271142 TTAAATCGTGTGTCTTTGCAAATAATCCATACTTTGAAAACCCGTC
1 TTAAATCGTGTGTCTTTGCAAATAATCCATACTTTGAAAACCCGTC
* *
32271188 TTAAATCGTGTGTCTTTGCAAATAATCGATACTTTGAAAACTCGTC
1 TTAAATCGTGTGTCTTTGCAAATAATCCATACTTTGAAAACCCGTC
32271234 TT
1 TT
32271236 CCCCTAGACT
Statistics
Matches: 46, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
46 46 1.00
ACGTcount: A:0.30, C:0.19, G:0.14, T:0.37
Consensus pattern (46 bp):
TTAAATCGTGTGTCTTTGCAAATAATCCATACTTTGAAAACCCGTC
Found at i:32275212 original size:17 final size:17
Alignment explanation
Indices: 32275190--32275254 Score: 55
Period size: 16 Copynumber: 3.9 Consensus size: 17
32275180 GCATGGTTAA
32275190 ATAAGTAAAATAAAAAC
1 ATAAGTAAAATAAAAAC
* *
32275207 ATAAGT-TAATAAAATAT
1 ATAAGTAAAATAAAA-AC
* *
32275224 ATTA-TAACAT-AAAAC
1 ATAAGTAAAATAAAAAC
*
32275239 ATAAATAAAATAAAAA
1 ATAAGTAAAATAAAAA
32275255 ACGAAAGCCA
Statistics
Matches: 36, Mismatches: 8, Indels: 8
0.69 0.15 0.15
Matches are distributed among these distances:
15 4 0.11
16 16 0.44
17 16 0.44
ACGTcount: A:0.68, C:0.05, G:0.03, T:0.25
Consensus pattern (17 bp):
ATAAGTAAAATAAAAAC
Found at i:32278431 original size:80 final size:79
Alignment explanation
Indices: 32278289--32278504 Score: 236
Period size: 80 Copynumber: 2.7 Consensus size: 79
32278279 CTCTCAGGGC
* * * * * * * * *
32278289 TAAGTCCCGAAGGCTTTGTGCTAAGTGAATATATCCGGACTAAGAT-CCGAAGGCCTTTGTGCGA
1 TAAGTCCCGAAGGCATTGTGC-GAGTTACTAAAACCGGGCTAAG-TCCCGAAGGCATTCGTGCGA
32278353 GATACTAAATCCGGGT
64 GATACTAAATCCGGGT
* * *
32278369 TAAGTCCCGAAGGCATTCGTGCGAGTTATTAAATCCGGGTTAAGTCCCGAAGGCATTCGTGCGAG
1 TAAGTCCCGAAGGCATT-GTGCGAGTTACTAAAACCGGGCTAAGTCCCGAAGGCATTCGTGCGAG
* **
32278434 TTGTTAAATCCGGGT
65 ATACTAAATCCGGGT
* * *
32278449 TATGTCCCGAAGGCATTGTGTGAGTTACTAAAACCGGGCTATGTCCCGAAGGCATT
1 TAAGTCCCGAAGGCATTGTGCGAGTTACTAAAACCGGGCTAAGTCCCGAAGGCATT
32278505 TGAACGAGGA
Statistics
Matches: 116, Mismatches: 18, Indels: 5
0.83 0.13 0.04
Matches are distributed among these distances:
79 35 0.30
80 77 0.66
81 4 0.03
ACGTcount: A:0.25, C:0.20, G:0.27, T:0.27
Consensus pattern (79 bp):
TAAGTCCCGAAGGCATTGTGCGAGTTACTAAAACCGGGCTAAGTCCCGAAGGCATTCGTGCGAGA
TACTAAATCCGGGT
Found at i:32278486 original size:39 final size:40
Alignment explanation
Indices: 32278335--32278504 Score: 234
Period size: 40 Copynumber: 4.3 Consensus size: 40
32278325 GGACTAAGAT
* * *
32278335 CCGAAGGCCTTTGTGCGAGATACTAAATCCGGGTTAAGTC
1 CCGAAGGCATTCGTGCGAGTTACTAAATCCGGGTTAAGTC
*
32278375 CCGAAGGCATTCGTGCGAGTTATTAAATCCGGGTTAAGTC
1 CCGAAGGCATTCGTGCGAGTTACTAAATCCGGGTTAAGTC
** *
32278415 CCGAAGGCATTCGTGCGAGTTGTTAAATCCGGGTTATGTC
1 CCGAAGGCATTCGTGCGAGTTACTAAATCCGGGTTAAGTC
* * * *
32278455 CCGAAGGCATT-GTGTGAGTTACTAAAACCGGGCTATGTC
1 CCGAAGGCATTCGTGCGAGTTACTAAATCCGGGTTAAGTC
32278494 CCGAAGGCATT
1 CCGAAGGCATT
32278505 TGAACGAGGA
Statistics
Matches: 119, Mismatches: 11, Indels: 1
0.91 0.08 0.01
Matches are distributed among these distances:
39 34 0.29
40 85 0.71
ACGTcount: A:0.24, C:0.21, G:0.28, T:0.26
Consensus pattern (40 bp):
CCGAAGGCATTCGTGCGAGTTACTAAATCCGGGTTAAGTC
Found at i:32278524 original size:79 final size:80
Alignment explanation
Indices: 32278357--32278539 Score: 226
Period size: 79 Copynumber: 2.3 Consensus size: 80
32278347 GTGCGAGATA
* * *
32278357 CTAAATCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTATTAAATCCGGGTTAAGTCCCGAAGG
1 CTAAATCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTACTAAAACCGGGCTAAGTCCCGAAGG
** **
32278422 CATTCGTGCGAGTTG
66 CATTCGAACGAGGAG
* * * *
32278437 TTAAATCCGGGTTATGTCCCGAAGGCATT-GTGTGAGTTACTAAAACCGGGCTATGTCCCGAAGG
1 CTAAATCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTACTAAAACCGGGCTAAGTCCCGAAGG
*
32278501 CATTTGAACGAGGAG
66 CATTCGAACGAGGAG
* *
32278516 CTATATCC-GGTTAAATCCCGAAGG
1 CTAAATCCGGGTTAAGTCCCGAAGG
32278540 TACGTGATTT
Statistics
Matches: 87, Mismatches: 16, Indels: 2
0.83 0.15 0.02
Matches are distributed among these distances:
78 14 0.16
79 46 0.53
80 27 0.31
ACGTcount: A:0.26, C:0.21, G:0.28, T:0.26
Consensus pattern (80 bp):
CTAAATCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTACTAAAACCGGGCTAAGTCCCGAAGG
CATTCGAACGAGGAG
Found at i:32289779 original size:42 final size:42
Alignment explanation
Indices: 32289732--32289814 Score: 157
Period size: 42 Copynumber: 2.0 Consensus size: 42
32289722 CCTTAAACAT
32289732 CAATTCATATCACGTAGATAACTTCTTTTTATTCAACCAACC
1 CAATTCATATCACGTAGATAACTTCTTTTTATTCAACCAACC
*
32289774 CAATTCATGTCACGTAGATAACTTCTTTTTATTCAACCAAC
1 CAATTCATATCACGTAGATAACTTCTTTTTATTCAACCAAC
32289815 TTCATTATTT
Statistics
Matches: 40, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
42 40 1.00
ACGTcount: A:0.33, C:0.25, G:0.06, T:0.36
Consensus pattern (42 bp):
CAATTCATATCACGTAGATAACTTCTTTTTATTCAACCAACC
Found at i:32289966 original size:128 final size:128
Alignment explanation
Indices: 32289774--32290028 Score: 483
Period size: 128 Copynumber: 2.0 Consensus size: 128
32289764 TCAACCAACC
* *
32289774 CAATTCATGTCACGTAGATAACTTCTTTTTATTCAACCAACTTCATTATTTGGCCGAATGCATCT
1 CAATTCATATCACGTAGATAACTTCTTTTTATTCAACCAACTTCATTATTTGGCCGAATACATCT
*
32289839 AGTTCAATTTCAAGGCTAAATAAATACATATACGCATATTGACATATTCATGTTACTTCACAT
66 AATTCAATTTCAAGGCTAAATAAATACATATACGCATATTGACATATTCATGTTACTTCACAT
32289902 CAATTCATATCACGTAGATAACTTCTTTTTATTCAACCAACTTCATTATTTGGCCGAATACATCT
1 CAATTCATATCACGTAGATAACTTCTTTTTATTCAACCAACTTCATTATTTGGCCGAATACATCT
32289967 AATTCAATTTCAAGGCTAAATAAATACATATACGCATATTGACATATTCATGTTACTTCACA
66 AATTCAATTTCAAGGCTAAATAAATACATATACGCATATTGACATATTCATGTTACTTCACA
32290029 CTTCAACCAA
Statistics
Matches: 124, Mismatches: 3, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
128 124 1.00
ACGTcount: A:0.34, C:0.20, G:0.09, T:0.36
Consensus pattern (128 bp):
CAATTCATATCACGTAGATAACTTCTTTTTATTCAACCAACTTCATTATTTGGCCGAATACATCT
AATTCAATTTCAAGGCTAAATAAATACATATACGCATATTGACATATTCATGTTACTTCACAT
Found at i:32290226 original size:73 final size:73
Alignment explanation
Indices: 32290107--32290253 Score: 285
Period size: 73 Copynumber: 2.0 Consensus size: 73
32290097 ATCCTGAATA
*
32290107 AGTTATAGACTTCATACAACCATAAGCAATGGCTGACAGAGCACTATCCAAATGAATAATCACAA
1 AGTTATAGACTTCATACAACCACAAGCAATGGCTGACAGAGCACTATCCAAATGAATAATCACAA
32290172 TTTAAACC
66 TTTAAACC
32290180 AGTTATAGACTTCATACAACCACAAGCAATGGCTGACAGAGCACTATCCAAATGAATAATCACAA
1 AGTTATAGACTTCATACAACCACAAGCAATGGCTGACAGAGCACTATCCAAATGAATAATCACAA
32290245 TTTAAACC
66 TTTAAACC
32290253 A
1 A
32290254 AATCAAATTT
Statistics
Matches: 73, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
73 73 1.00
ACGTcount: A:0.43, C:0.22, G:0.12, T:0.22
Consensus pattern (73 bp):
AGTTATAGACTTCATACAACCACAAGCAATGGCTGACAGAGCACTATCCAAATGAATAATCACAA
TTTAAACC
Found at i:32290414 original size:39 final size:39
Alignment explanation
Indices: 32290357--32290500 Score: 191
Period size: 39 Copynumber: 3.7 Consensus size: 39
32290347 CCAACACAAT
** *
32290357 TGCCTTCGGGACAGAGCCCGGATATAACACTAGCACGAA
1 TGCCTTCGGGACTTAGCCCGAATATAACACTAGCACGAA
* * *
32290396 TGCCTTCGGGATTTAGCCCGGATATAACACCAGCACGAA
1 TGCCTTCGGGACTTAGCCCGAATATAACACTAGCACGAA
* *
32290435 TGCCTTTGGGACTTAGCCCGAATATAACA-TCATCACGAA
1 TGCCTTCGGGACTTAGCCCGAATATAACACT-AGCACGAA
*
32290474 TGCCTTCGAGACTTAGCCCGAATATAA
1 TGCCTTCGGGACTTAGCCCGAATATAA
32290501 ATCTCACACA
Statistics
Matches: 93, Mismatches: 11, Indels: 2
0.88 0.10 0.02
Matches are distributed among these distances:
39 93 1.00
ACGTcount: A:0.30, C:0.27, G:0.22, T:0.22
Consensus pattern (39 bp):
TGCCTTCGGGACTTAGCCCGAATATAACACTAGCACGAA
Found at i:32292600 original size:14 final size:14
Alignment explanation
Indices: 32292581--32292610 Score: 51
Period size: 14 Copynumber: 2.1 Consensus size: 14
32292571 GGTGAATAAG
*
32292581 TTAGGATATCGACC
1 TTAGGATATCAACC
32292595 TTAGGATATCAACC
1 TTAGGATATCAACC
32292609 TT
1 TT
32292611 TCATAGAGTC
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
14 15 1.00
ACGTcount: A:0.30, C:0.20, G:0.17, T:0.33
Consensus pattern (14 bp):
TTAGGATATCAACC
Found at i:32301067 original size:40 final size:40
Alignment explanation
Indices: 32300984--32301286 Score: 387
Period size: 40 Copynumber: 7.6 Consensus size: 40
32300974 TTGAATGCTG
* * * * * *
32300984 TCCGGGCTAAGTCCCGAAGGC-TTTGTGCTAAGTGAATATA
1 TCCGGGTTAAGTCCCGAAGGCATTCGTGC-GAGTTATTAAA
* * * * *
32301024 TCCGGATTAAGAT-CCGAAGGCCTTTGTGCGAGATACTAAA
1 TCCGGGTTAAG-TCCCGAAGGCATTCGTGCGAGTTATTAAA
32301064 TCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTATTAAA
1 TCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTATTAAA
*
32301104 TCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTGTTAAA
1 TCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTATTAAA
*
32301144 TCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTGTTAAA
1 TCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTATTAAA
*
32301184 TCCGGGTTAAGTCCCGAAGGCATTCGTGTGAGTTATTAAA
1 TCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTATTAAA
* * *
32301224 TCCGGGTTATGTCCCGAAGGCATT-GTGTGAGTTACTAAA
1 TCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTATTAAA
* * *
32301263 ACCGGGCTATGTCCCGAAGGCATT
1 TCCGGGTTAAGTCCCGAAGGCATT
32301287 TGAACGAGGA
Statistics
Matches: 241, Mismatches: 19, Indels: 7
0.90 0.07 0.03
Matches are distributed among these distances:
39 37 0.15
40 196 0.81
41 8 0.03
ACGTcount: A:0.24, C:0.20, G:0.28, T:0.27
Consensus pattern (40 bp):
TCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTATTAAA
Found at i:32308550 original size:39 final size:39
Alignment explanation
Indices: 32308346--32308568 Score: 202
Period size: 40 Copynumber: 5.6 Consensus size: 39
32308336 TTGAATGCTG
* * * * *
32308346 TCCGGGCTAAGTCCCGAAGGCTTTGTGCTA-AGTGAATATA
1 TCCGGGTTAAGTCCCGAAGGCATTGTGCGAGA-T-ACTAAA
**
32308386 TCCGGACTAAGAT-CCGAAGGCATTTGTGCGAGATAC-AAA
1 TCCGGGTTAAG-TCCCGAAGGCA-TTGTGCGAGATACTAAA
*
32308425 TTCCGGGTTAAG-CCCGGAAGGCCTTTGTGCGAGATACTAAA
1 -TCCGGGTTAAGTCCC-GAAGG-CATTGTGCGAGATACTAAA
* *
32308466 TCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTATTAAA
1 TCCGGGTTAAGTCCCGAAGGCATT-GTGCGAGATACTAAA
* * *
32308506 TCCGGGTTATGTCCCGAAGGCATTGTGTGAGTTACTAAA
1 TCCGGGTTAAGTCCCGAAGGCATTGTGCGAGATACTAAA
* * *
32308545 ACCGGGCTATGTCCCGAAGGCATT
1 TCCGGGTTAAGTCCCGAAGGCATT
32308569 TGAACGAGGA
Statistics
Matches: 157, Mismatches: 16, Indels: 21
0.81 0.08 0.11
Matches are distributed among these distances:
39 42 0.27
40 98 0.62
41 16 0.10
42 1 0.01
ACGTcount: A:0.26, C:0.21, G:0.28, T:0.26
Consensus pattern (39 bp):
TCCGGGTTAAGTCCCGAAGGCATTGTGCGAGATACTAAA
Found at i:32308588 original size:79 final size:80
Alignment explanation
Indices: 32308426--32308603 Score: 184
Period size: 79 Copynumber: 2.2 Consensus size: 80
32308416 AGATACAAAT
* * *
32308426 TCCGGGTTAAG-CCCGGAAGGCCTTTGTGCGAGATACTAAATCCGGGTTAAGTCCCGAAGGCATT
1 TCCGGGTTAAGTCCC-GAAGGCCATTGTGCGAGATACTAAAACCGGGCTAAGTCCCGAAGGCATT
** * *
32308490 CGTGCGAGTTATTAAA
65 CGAACGAGTGACTAAA
* * * * *
32308506 TCCGGGTTATGTCCCGAAGG-CATTGTGTGAGTTACTAAAACCGGGCTATGTCCCGAAGGCATTT
1 TCCGGGTTAAGTCCCGAAGGCCATTGTGCGAGATACTAAAACCGGGCTAAGTCCCGAAGGCATTC
*
32308570 GAACGAG-GAGCTATA
66 GAACGAGTGA-CTAAA
*
32308585 TCC-GGTTAAATCCCGAAGG
1 TCCGGGTTAAGTCCCGAAGG
32308604 TACGTGATTT
Statistics
Matches: 81, Mismatches: 15, Indels: 6
0.79 0.15 0.06
Matches are distributed among these distances:
78 15 0.19
79 48 0.59
80 15 0.19
81 3 0.04
ACGTcount: A:0.25, C:0.21, G:0.29, T:0.25
Consensus pattern (80 bp):
TCCGGGTTAAGTCCCGAAGGCCATTGTGCGAGATACTAAAACCGGGCTAAGTCCCGAAGGCATTC
GAACGAGTGACTAAA
Found at i:32310561 original size:39 final size:39
Alignment explanation
Indices: 32310506--32310649 Score: 234
Period size: 39 Copynumber: 3.7 Consensus size: 39
32310496 CCAACACAAT
*
32310506 TGCCTTTGGGACTTAGCCCGGATATAACACCAGCACGAA
1 TGCCTTCGGGACTTAGCCCGGATATAACACCAGCACGAA
* * *
32310545 TGCCTTCAGGATTTAGCCTGGATATAACACCAGCACGAA
1 TGCCTTCGGGACTTAGCCCGGATATAACACCAGCACGAA
*
32310584 TGCCTTCGGGACTTAGCCCGGATATAACATCAGCACGAA
1 TGCCTTCGGGACTTAGCCCGGATATAACACCAGCACGAA
*
32310623 TGCCTTTGGGACTTAGCCCGGATATAA
1 TGCCTTCGGGACTTAGCCCGGATATAA
32310650 ATCTCACACA
Statistics
Matches: 96, Mismatches: 9, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
39 96 1.00
ACGTcount: A:0.28, C:0.26, G:0.23, T:0.23
Consensus pattern (39 bp):
TGCCTTCGGGACTTAGCCCGGATATAACACCAGCACGAA
Found at i:32324052 original size:16 final size:16
Alignment explanation
Indices: 32324031--32324062 Score: 55
Period size: 16 Copynumber: 2.0 Consensus size: 16
32324021 TGTAACGCCC
*
32324031 AAAAATCCCGAAATCT
1 AAAAATCCCAAAATCT
32324047 AAAAATCCCAAAATCT
1 AAAAATCCCAAAATCT
32324063 TGAATTTTTC
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
16 15 1.00
ACGTcount: A:0.53, C:0.25, G:0.03, T:0.19
Consensus pattern (16 bp):
AAAAATCCCAAAATCT
Found at i:32325476 original size:18 final size:19
Alignment explanation
Indices: 32325431--32325478 Score: 62
Period size: 19 Copynumber: 2.6 Consensus size: 19
32325421 ACTTGGGTTG
* *
32325431 AGAATTGGCCAAATGGGCC
1 AGAATGGGCTAAATGGGCC
32325450 AGAATGGGCTAAATGGGCC
1 AGAATGGGCTAAATGGGCC
*
32325469 TG-ATGGGCTA
1 AGAATGGGCTA
32325479 TTGGGCCCAT
Statistics
Matches: 26, Mismatches: 3, Indels: 1
0.87 0.10 0.03
Matches are distributed among these distances:
18 8 0.31
19 18 0.69
ACGTcount: A:0.29, C:0.17, G:0.35, T:0.19
Consensus pattern (19 bp):
AGAATGGGCTAAATGGGCC
Found at i:32325591 original size:29 final size:29
Alignment explanation
Indices: 32325546--32325669 Score: 119
Period size: 29 Copynumber: 4.3 Consensus size: 29
32325536 GTGAGCATGA
* *
32325546 ATAT-AATATGATTTGGGCCTAATGGGTC
1 ATATGAATATGAATTGGGCCTAATGGGCC
* * *
32325574 ATATGAATGTGAATTGGGCATAGTGGGCC
1 ATATGAATATGAATTGGGCCTAATGGGCC
*
32325603 ATAAGAATATGAATTGGGCC-AGATGGGCC
1 ATATGAATATGAATTGGGCCTA-ATGGGCC
* * * *
32325632 ATTTGAATAAG-ATTGGGCCTAGTAGGCC
1 ATATGAATATGAATTGGGCCTAATGGGCC
*
32325660 ATATGCATAT
1 ATATGAATAT
32325670 ATGTAGGGGT
Statistics
Matches: 76, Mismatches: 17, Indels: 6
0.77 0.17 0.06
Matches are distributed among these distances:
28 25 0.33
29 51 0.67
ACGTcount: A:0.31, C:0.12, G:0.28, T:0.29
Consensus pattern (29 bp):
ATATGAATATGAATTGGGCCTAATGGGCC
Found at i:32325613 original size:58 final size:57
Alignment explanation
Indices: 32325550--32325662 Score: 138
Period size: 58 Copynumber: 2.0 Consensus size: 57
32325540 GCATGAATAT
* * ** *
32325550 AATATGATTTGGGCCTA-ATGGGTCATATGAATGTGAATTGGGCATAGTGGGCCATAAG
1 AATATGAATTGGGCC-AGATGGGCCATATGAATAAG-ATTGGGCATAGTAGGCCATAAG
* *
32325608 AATATGAATTGGGCCAGATGGGCCATTTGAATAAGATTGGGCCTAGTAGGCCATA
1 AATATGAATTGGGCCAGATGGGCCATATGAATAAGATTGGGCATAGTAGGCCATA
32325663 TGCATATATG
Statistics
Matches: 47, Mismatches: 7, Indels: 3
0.82 0.12 0.05
Matches are distributed among these distances:
57 19 0.40
58 28 0.60
ACGTcount: A:0.30, C:0.12, G:0.30, T:0.27
Consensus pattern (57 bp):
AATATGAATTGGGCCAGATGGGCCATATGAATAAGATTGGGCATAGTAGGCCATAAG
Found at i:32331854 original size:18 final size:19
Alignment explanation
Indices: 32331831--32331877 Score: 53
Period size: 19 Copynumber: 2.5 Consensus size: 19
32331821 GAATGAAGAA
**
32331831 AATTTACATTTT-TTTATT
1 AATTTACATTTTATTTAAC
32331849 AATTTATC-TTTTATTTAAC
1 AATTTA-CATTTTATTTAAC
32331868 AATTTACATT
1 AATTTACATT
32331878 ACTGACCTTT
Statistics
Matches: 24, Mismatches: 2, Indels: 5
0.77 0.06 0.16
Matches are distributed among these distances:
18 11 0.46
19 13 0.54
ACGTcount: A:0.32, C:0.09, G:0.00, T:0.60
Consensus pattern (19 bp):
AATTTACATTTTATTTAAC
Found at i:32334334 original size:25 final size:25
Alignment explanation
Indices: 32334278--32334366 Score: 94
Period size: 25 Copynumber: 3.6 Consensus size: 25
32334268 AGACACACCA
*
32334278 CAGCTCGTATGAGCTTACCTATTCT
1 CAGCTCGTATGAGCTTACCGATTCT
* *
32334303 CAACTCGTATGATCTTACCGA-TCT
1 CAGCTCGTATGAGCTTACCGATTCT
*
32334327 GCAGCTCGTGA-GAGCATACCGATTCAT
1 -CAGCTCGT-ATGAGCTTACCGATTC-T
32334354 -AGCTCGTATGAGC
1 CAGCTCGTATGAGC
32334367 AAACATGTAC
Statistics
Matches: 53, Mismatches: 6, Indels: 10
0.77 0.09 0.14
Matches are distributed among these distances:
24 4 0.08
25 45 0.85
26 3 0.06
27 1 0.02
ACGTcount: A:0.24, C:0.27, G:0.20, T:0.29
Consensus pattern (25 bp):
CAGCTCGTATGAGCTTACCGATTCT
Found at i:32336987 original size:29 final size:29
Alignment explanation
Indices: 32336924--32336991 Score: 84
Period size: 29 Copynumber: 2.3 Consensus size: 29
32336914 TAATCAACCG
*
32336924 CGCACACTTAGTGCCATGTACTTTAAACT
1 CGCACACTTAGTGCCATGCACTTTAAACT
* **
32336953 CTCACACTTAGTGCCATGCA-TTTCAAGTT
1 CGCACACTTAGTGCCATGCACTTT-AAACT
32336982 CGCACACTTA
1 CGCACACTTA
32336992 CCTTTTCCGC
Statistics
Matches: 33, Mismatches: 5, Indels: 2
0.82 0.12 0.05
Matches are distributed among these distances:
28 3 0.09
29 30 0.91
ACGTcount: A:0.26, C:0.29, G:0.13, T:0.31
Consensus pattern (29 bp):
CGCACACTTAGTGCCATGCACTTTAAACT
Found at i:32337161 original size:29 final size:29
Alignment explanation
Indices: 32337098--32337165 Score: 93
Period size: 29 Copynumber: 2.3 Consensus size: 29
32337088 TAATCAACCG
32337098 CGCACACTTAGTGCCATGCACTTTAAACT
1 CGCACACTTAGTGCCATGCACTTTAAACT
* **
32337127 CACACACTTAGTGCCATGCA-TTTCAAGTT
1 CGCACACTTAGTGCCATGCACTTT-AAACT
32337156 CGCACACTTA
1 CGCACACTTA
32337166 CCTTTTCCGC
Statistics
Matches: 34, Mismatches: 4, Indels: 2
0.85 0.10 0.05
Matches are distributed among these distances:
28 3 0.09
29 31 0.91
ACGTcount: A:0.28, C:0.31, G:0.13, T:0.28
Consensus pattern (29 bp):
CGCACACTTAGTGCCATGCACTTTAAACT
Found at i:32337334 original size:29 final size:29
Alignment explanation
Indices: 32337271--32337338 Score: 84
Period size: 29 Copynumber: 2.3 Consensus size: 29
32337261 TAATCACCCA
*
32337271 CGCACACTCAGTGCCATGCACTTTAAACT
1 CGCACACTTAGTGCCATGCACTTTAAACT
* **
32337300 CACACACTTAGTGCCATGCA-TTTCAAGTT
1 CGCACACTTAGTGCCATGCACTTT-AAACT
32337329 CGCACACTTA
1 CGCACACTTA
32337339 CCTTTTCCGC
Statistics
Matches: 33, Mismatches: 5, Indels: 2
0.82 0.12 0.05
Matches are distributed among these distances:
28 3 0.09
29 30 0.91
ACGTcount: A:0.28, C:0.32, G:0.13, T:0.26
Consensus pattern (29 bp):
CGCACACTTAGTGCCATGCACTTTAAACT
Found at i:32337366 original size:173 final size:174
Alignment explanation
Indices: 32336813--32337443 Score: 1111
Period size: 174 Copynumber: 3.6 Consensus size: 174
32336803 AACTCAAGGT
*
32336813 ACTTACCTTTTCCGCTATCCAAAATCGACTCGGTAAAGTCGCACCCTTAATGTAAATAATTTATA
1 ACTTACCTTTTCCGCTGTCCAAAATCGACTCGGTAAAGTCGCACCCTTAATGTAAATAATTTATA
* *
32336878 GAAAATATATAGTGGGTTCGCACACATAGTGCTTAATAATCAACCGCGCACACTTAGTGCCATGT
66 GAAAATATATATTGGGTTCGCACACATAGTGCTTAATAATCAACCGCGCACACTTAGTGCCATGC
*
32336943 ACTTTAAACTCTCACACTTAGTGCCATGCATTTCAAGTTCGCAC
131 ACTTTAAACTCACACACTTAGTGCCATGCATTTCAAGTTCGCAC
32336987 ACTTACCTTTTCCGCTGTCCAAAATCGACTCGGTAAAGTCGCACCCTTAATGTAAATAATTTATA
1 ACTTACCTTTTCCGCTGTCCAAAATCGACTCGGTAAAGTCGCACCCTTAATGTAAATAATTTATA
*
32337052 GAAAATATATATTGGGTTCGCACACATAGTGCTCAATAATCAACCGCGCACACTTAGTGCCATGC
66 GAAAATATATATTGGGTTCGCACACATAGTGCTTAATAATCAACCGCGCACACTTAGTGCCATGC
32337117 ACTTTAAACTCACACACTTAGTGCCATGCATTTCAAGTTCGCAC
131 ACTTTAAACTCACACACTTAGTGCCATGCATTTCAAGTTCGCAC
* * ** *
32337161 ACTTACCTTTTCCGCTGTCCAAAATTGACTCGGTAAAGCCGCACCCTTCGTGTAAATAATTTATG
1 ACTTACCTTTTCCGCTGTCCAAAATCGACTCGGTAAAGTCGCACCCTTAATGTAAATAATTTATA
* * * * * *
32337226 GAAAATATATATTGGGTT-GCACACATAATGTTTAGTAATCACCCACGCACACTCAGTGCCATGC
66 GAAAATATATATTGGGTTCGCACACATAGTGCTTAATAATCAACCGCGCACACTTAGTGCCATGC
32337290 ACTTTAAACTCACACACTTAGTGCCATGCATTTCAAGTTCGCAC
131 ACTTTAAACTCACACACTTAGTGCCATGCATTTCAAGTTCGCAC
32337334 ACTTACCTTTTCCGCTGTCCAAAATCGACTCGGTAAAGTCGCACCCTTAATGTAAATAATTTATA
1 ACTTACCTTTTCCGCTGTCCAAAATCGACTCGGTAAAGTCGCACCCTTAATGTAAATAATTTATA
32337399 GAAAATATATATTGGGTTCGCACACATAGTGCTTAATAATCAACC
66 GAAAATATATATTGGGTTCGCACACATAGTGCTTAATAATCAACC
32337444 NNNNNNNNNN
Statistics
Matches: 430, Mismatches: 26, Indels: 2
0.94 0.06 0.00
Matches are distributed among these distances:
173 161 0.37
174 269 0.63
ACGTcount: A:0.31, C:0.25, G:0.14, T:0.30
Consensus pattern (174 bp):
ACTTACCTTTTCCGCTGTCCAAAATCGACTCGGTAAAGTCGCACCCTTAATGTAAATAATTTATA
GAAAATATATATTGGGTTCGCACACATAGTGCTTAATAATCAACCGCGCACACTTAGTGCCATGC
ACTTTAAACTCACACACTTAGTGCCATGCATTTCAAGTTCGCAC
Found at i:32344545 original size:29 final size:29
Alignment explanation
Indices: 32344482--32344549 Score: 84
Period size: 29 Copynumber: 2.3 Consensus size: 29
32344472 TAATCAACCG
32344482 CGCACACTTAGTGCCAAGCACTTTAAACT
1 CGCACACTTAGTGCCAAGCACTTTAAACT
* * **
32344511 CACACACTTAGTGCCATGCA-TTTCAAGTT
1 CGCACACTTAGTGCCAAGCACTTT-AAACT
32344540 CGCACACTTA
1 CGCACACTTA
32344550 CCTTTTCCGC
Statistics
Matches: 33, Mismatches: 5, Indels: 2
0.82 0.12 0.05
Matches are distributed among these distances:
28 3 0.09
29 30 0.91
ACGTcount: A:0.29, C:0.31, G:0.13, T:0.26
Consensus pattern (29 bp):
CGCACACTTAGTGCCAAGCACTTTAAACT
Found at i:32344661 original size:174 final size:174
Alignment explanation
Indices: 32344371--32344720 Score: 664
Period size: 174 Copynumber: 2.0 Consensus size: 174
32344361 AACTCAAGGT
32344371 ACTTACCTTTTCCGCTGTCCAAAATCGACTCGGTAAAGTCGCACCCTTAATGTAAATAATTTATA
1 ACTTACCTTTTCCGCTGTCCAAAATCGACTCGGTAAAGTCGCACCCTTAATGTAAATAATTTATA
*
32344436 GAAAATATATATTGGGTTCGCACACATAGTGCTTAATAATCAACCGCGCACACTTAGTGCCAAGC
66 GAAAATATATAGTGGGTTCGCACACATAGTGCTTAATAATCAACCGCGCACACTTAGTGCCAAGC
32344501 ACTTTAAACTCACACACTTAGTGCCATGCATTTCAAGTTCGCAC
131 ACTTTAAACTCACACACTTAGTGCCATGCATTTCAAGTTCGCAC
32344545 ACTTACCTTTTCCGCTGTCCAAAATCGACTCGGTAAAGTCGCACCCTTAATGTAAATAATTTATA
1 ACTTACCTTTTCCGCTGTCCAAAATCGACTCGGTAAAGTCGCACCCTTAATGTAAATAATTTATA
* *
32344610 GAAAATATATAGTGGGTTCGCACACATAGTGCTTAATAATCAACCGCGCACACTTAGTGCCATGT
66 GAAAATATATAGTGGGTTCGCACACATAGTGCTTAATAATCAACCGCGCACACTTAGTGCCAAGC
*
32344675 ACTTTAAACTCGCACACTTAGTGCCATGCATTTCAAGTTCGCAC
131 ACTTTAAACTCACACACTTAGTGCCATGCATTTCAAGTTCGCAC
32344719 AC
1 AC
32344721 CTAGTGCCAA
Statistics
Matches: 172, Mismatches: 4, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
174 172 1.00
ACGTcount: A:0.31, C:0.25, G:0.15, T:0.29
Consensus pattern (174 bp):
ACTTACCTTTTCCGCTGTCCAAAATCGACTCGGTAAAGTCGCACCCTTAATGTAAATAATTTATA
GAAAATATATAGTGGGTTCGCACACATAGTGCTTAATAATCAACCGCGCACACTTAGTGCCAAGC
ACTTTAAACTCACACACTTAGTGCCATGCATTTCAAGTTCGCAC
Found at i:32344690 original size:29 final size:29
Alignment explanation
Indices: 32344656--32344729 Score: 96
Period size: 29 Copynumber: 2.6 Consensus size: 29
32344646 TAATCAACCG
*
32344656 CGCACACTTAGTGCCATGTACTTT-AAACT
1 CGCACACTTAGTGCCATGCA-TTTCAAACT
**
32344685 CGCACACTTAGTGCCATGCATTTCAAGTT
1 CGCACACTTAGTGCCATGCATTTCAAACT
*
32344714 CGCACACCTAGTGCCA
1 CGCACACTTAGTGCCA
32344730 ATCTCACAAC
Statistics
Matches: 40, Mismatches: 4, Indels: 2
0.87 0.09 0.04
Matches are distributed among these distances:
28 3 0.08
29 37 0.93
ACGTcount: A:0.26, C:0.31, G:0.16, T:0.27
Consensus pattern (29 bp):
CGCACACTTAGTGCCATGCATTTCAAACT
Found at i:32358441 original size:64 final size:64
Alignment explanation
Indices: 32358360--32358543 Score: 194
Period size: 67 Copynumber: 2.8 Consensus size: 64
32358350 AAACATTATG
* *
32358360 ATGTAGCTAGGTCGCATGGGTGATACTATGTGTACACCATGTAGACAAGAGAGCTACGGGATAT
1 ATGTAGCTAGGTCGCATGGGTGATACTATGTGTACACCATGTAGACAAGAGAGCTACGAGATAA
* * * * * *
32358424 ATGTAGCTAGGTCGCATGCGTGGTTCCAAGTGAAGGACACCATGTAGACAAGAGAGCTACGAGAT
1 ATGTAGCTAGGTCGCATGGGT-GATACTA-TG-TGTACACCATGTAGACAAGAGAGCTACGAGAT
32358489 AA
63 AA
* * * *
32358491 ACTG--GCTAGGTCACATGGGTGGTACTAAGTGTTCACCATGT-GTACAAGAGAGC
1 A-TGTAGCTAGGTCGCATGGGTGATACTATGTGTACACCATGTAG-ACAAGAGAGC
32358544 CGAACTATAT
Statistics
Matches: 98, Mismatches: 17, Indels: 11
0.78 0.13 0.09
Matches are distributed among these distances:
62 1 0.01
63 19 0.19
64 21 0.21
65 8 0.08
66 16 0.16
67 31 0.32
68 2 0.02
ACGTcount: A:0.30, C:0.17, G:0.30, T:0.23
Consensus pattern (64 bp):
ATGTAGCTAGGTCGCATGGGTGATACTATGTGTACACCATGTAGACAAGAGAGCTACGAGATAA
Found at i:32364455 original size:33 final size:33
Alignment explanation
Indices: 32364418--32364484 Score: 107
Period size: 33 Copynumber: 2.0 Consensus size: 33
32364408 CGATGGTTAG
**
32364418 AATTGCTAAAAGACTATGAGCTTATAATTGACT
1 AATTGCTAAAAGACTACAAGCTTATAATTGACT
*
32364451 AATTGCTAAAAGACTACAAGCTTATAATTTACT
1 AATTGCTAAAAGACTACAAGCTTATAATTGACT
32364484 A
1 A
32364485 TCATCCAAGA
Statistics
Matches: 31, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
33 31 1.00
ACGTcount: A:0.42, C:0.13, G:0.12, T:0.33
Consensus pattern (33 bp):
AATTGCTAAAAGACTACAAGCTTATAATTGACT
Found at i:32367667 original size:40 final size:40
Alignment explanation
Indices: 32367591--32367935 Score: 428
Period size: 40 Copynumber: 8.5 Consensus size: 40
32367581 CCAAGTATCC
* *
32367591 TCGGGATTTAG-CCGGATATAG-CAACTCGCACAAATGCCT
1 TCGGGACTTAGCCCGGATATAGTC-ACTAGCACAAATGCCT
* **
32367630 TCGGGTCTTAGCCCGGATATAGTCACTAGCATGAATGCCT
1 TCGGGACTTAGCCCGGATATAGTCACTAGCACAAATGCCT
32367670 TCGGGACTTAGCCCGGATATAGTCACTAGCACAAATGCCT
1 TCGGGACTTAGCCCGGATATAGTCACTAGCACAAATGCCT
* *
32367710 TCGGGACTTAGCCCGGGTATAG-CAACTACTCGTACAAATGCCT
1 TCGGGACTTAGCCCGGATATAGTC-ACTA---GCACAAATGCCT
* * *
32367753 TTGGGACTTAGCCCGGATATAGTAACTTGCACAAATGCCT
1 TCGGGACTTAGCCCGGATATAGTCACTAGCACAAATGCCT
*
32367793 TCGGGACTTATCCCGGATATAGTCACTAGCACAAATGCCT
1 TCGGGACTTAGCCCGGATATAGTCACTAGCACAAATGCCT
* *
32367833 TCGGGACTTAGCCCGGGTATAG-CAACTACTCGTACAAATGCCT
1 TCGGGACTTAGCCCGGATATAGTC-ACTA---GCACAAATGCCT
* * * *
32367876 TTGGGACTTAGCCTGGATATAGTAACTTGCACAAATGCCT
1 TCGGGACTTAGCCCGGATATAGTCACTAGCACAAATGCCT
32367916 TCGGGACTTAGCCCGGATAT
1 TCGGGACTTAGCCCGGATAT
32367936 CATCCGAATA
Statistics
Matches: 264, Mismatches: 30, Indels: 23
0.83 0.09 0.07
Matches are distributed among these distances:
39 11 0.04
40 185 0.70
41 1 0.00
43 67 0.25
ACGTcount: A:0.26, C:0.26, G:0.23, T:0.25
Consensus pattern (40 bp):
TCGGGACTTAGCCCGGATATAGTCACTAGCACAAATGCCT
Found at i:32367785 original size:83 final size:80
Alignment explanation
Indices: 32367591--32367935 Score: 444
Period size: 83 Copynumber: 4.2 Consensus size: 80
32367581 CCAAGTATCC
* * *
32367591 TCGGGATTTAG-CCGGATATAGCAACTCGCACAAATGCCTTCGGGTCTTAGCCCGGATATAGTCA
1 TCGGGACTTAGCCCGGATATAGCAACTTGCACAAATGCCTTCGGGACTTAGCCCGGATATAGTCA
**
32367655 CTAGCATGAATGCCT
66 CTAGCACAAATGCCT
* *
32367670 TCGGGACTTAGCCCGGATATAGTC-ACTAGCACAAATGCCTTCGGGACTTAGCCCGGGTATAG-C
1 TCGGGACTTAGCCCGGATATAG-CAACTTGCACAAATGCCTTCGGGACTTAGCCCGGATATAGTC
*
32367733 AACTACTCGTACAAATGCCT
65 -ACTA---GCACAAATGCCT
* * *
32367753 TTGGGACTTAGCCCGGATATAGTAACTTGCACAAATGCCTTCGGGACTTATCCCGGATATAGTCA
1 TCGGGACTTAGCCCGGATATAGCAACTTGCACAAATGCCTTCGGGACTTAGCCCGGATATAGTCA
32367818 CTAGCACAAATGCCT
66 CTAGCACAAATGCCT
* * * *
32367833 TCGGGACTTAGCCCGGGTATAGCAACTACTCGTACAAATGCCTTTGGGACTTAGCCTGGATATAG
1 TCGGGACTTAGCCCGGATATAGCAACT--T-GCACAAATGCCTTCGGGACTTAGCCCGGATATAG
* *
32367898 TAACTTGCACAAATGCCT
63 TCACTAGCACAAATGCCT
32367916 TCGGGACTTAGCCCGGATAT
1 TCGGGACTTAGCCCGGATAT
32367936 CATCCGAATA
Statistics
Matches: 232, Mismatches: 23, Indels: 18
0.85 0.08 0.07
Matches are distributed among these distances:
79 11 0.05
80 84 0.36
81 1 0.00
82 1 0.00
83 134 0.58
84 1 0.00
ACGTcount: A:0.26, C:0.26, G:0.23, T:0.25
Consensus pattern (80 bp):
TCGGGACTTAGCCCGGATATAGCAACTTGCACAAATGCCTTCGGGACTTAGCCCGGATATAGTCA
CTAGCACAAATGCCT
Found at i:32367833 original size:123 final size:123
Alignment explanation
Indices: 32367591--32367935 Score: 563
Period size: 123 Copynumber: 2.8 Consensus size: 123
32367581 CCAAGTATCC
* * * * *
32367591 TCGGGATTTAG-CCGGATATAGC-A--ACTCGCACAAATGCCTTCGGGTCTTAGCCCGGATATAG
1 TCGGGACTTAGCCCGGGTATAGCAACTACTCGTACAAATGCCTTTGGGACTTAGCCCGGATATAG
* * **
32367652 TCACTAGCATGAATGCCTTCGGGACTTAGCCCGGATATAGTCACTAGCACAAATGCCT
66 TAACTTGCACAAATGCCTTCGGGACTTAGCCCGGATATAGTCACTAGCACAAATGCCT
32367710 TCGGGACTTAGCCCGGGTATAGCAACTACTCGTACAAATGCCTTTGGGACTTAGCCCGGATATAG
1 TCGGGACTTAGCCCGGGTATAGCAACTACTCGTACAAATGCCTTTGGGACTTAGCCCGGATATAG
*
32367775 TAACTTGCACAAATGCCTTCGGGACTTATCCCGGATATAGTCACTAGCACAAATGCCT
66 TAACTTGCACAAATGCCTTCGGGACTTAGCCCGGATATAGTCACTAGCACAAATGCCT
*
32367833 TCGGGACTTAGCCCGGGTATAGCAACTACTCGTACAAATGCCTTTGGGACTTAGCCTGGATATAG
1 TCGGGACTTAGCCCGGGTATAGCAACTACTCGTACAAATGCCTTTGGGACTTAGCCCGGATATAG
32367898 TAACTTGCACAAATGCCTTCGGGACTTAGCCCGGATAT
66 TAACTTGCACAAATGCCTTCGGGACTTAGCCCGGATAT
32367936 CATCCGAATA
Statistics
Matches: 210, Mismatches: 12, Indels: 4
0.93 0.05 0.02
Matches are distributed among these distances:
119 10 0.05
120 10 0.05
121 1 0.00
123 189 0.90
ACGTcount: A:0.26, C:0.26, G:0.23, T:0.25
Consensus pattern (123 bp):
TCGGGACTTAGCCCGGGTATAGCAACTACTCGTACAAATGCCTTTGGGACTTAGCCCGGATATAG
TAACTTGCACAAATGCCTTCGGGACTTAGCCCGGATATAGTCACTAGCACAAATGCCT
Found at i:32373942 original size:40 final size:40
Alignment explanation
Indices: 32373884--32374190 Score: 524
Period size: 40 Copynumber: 7.7 Consensus size: 40
32373874 AGCATTGGAT
32373884 TATATCCGGGCTAAGACCCGAAGGCAATTATGCGAGTTGA
1 TATATCCGGGCTAAGACCCGAAGGCAATTATGCGAGTTGA
* *
32373924 TATATCCGGGCTATGACCCGAAGGCAATTATGCGAGATGA
1 TATATCCGGGCTAAGACCCGAAGGCAATTATGCGAGTTGA
*
32373964 TATATCCGGGCTAAGACCCGAAGGCATTTATGCGAGTTGA
1 TATATCCGGGCTAAGACCCGAAGGCAATTATGCGAGTTGA
*
32374004 TATATCCGGGCTAAGCCCCGAAGGCAATTATGCGAGTTGA
1 TATATCCGGGCTAAGACCCGAAGGCAATTATGCGAGTTGA
* * *
32374044 TATGTCCGGGCTATGACCCGAAGGCAATTATGCGAGATGA
1 TATATCCGGGCTAAGACCCGAAGGCAATTATGCGAGTTGA
*
32374084 TATATCCGGGCTAAGACCCGAAGGCATTTATGCGAGTTGA
1 TATATCCGGGCTAAGACCCGAAGGCAATTATGCGAGTTGA
32374124 TATATCCGGGCTAAGACCCGAAGGCAATTATGCGAGTTGA
1 TATATCCGGGCTAAGACCCGAAGGCAATTATGCGAGTTGA
* *
32374164 TATGTCCGGGTTAAGACCCGAAGGCAA
1 TATATCCGGGCTAAGACCCGAAGGCAA
32374191 ATGTGTTTGC
Statistics
Matches: 249, Mismatches: 18, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
40 249 1.00
ACGTcount: A:0.29, C:0.21, G:0.28, T:0.23
Consensus pattern (40 bp):
TATATCCGGGCTAAGACCCGAAGGCAATTATGCGAGTTGA
Found at i:32374097 original size:120 final size:120
Alignment explanation
Indices: 32373884--32374190 Score: 578
Period size: 120 Copynumber: 2.6 Consensus size: 120
32373874 AGCATTGGAT
*
32373884 TATATCCGGGCTAAGACCCGAAGGCAATTATGCGAGTTGATATATCCGGGCTATGACCCGAAGGC
1 TATATCCGGGCTAAGACCCGAAGGCAATTATGCGAGTTGATATGTCCGGGCTATGACCCGAAGGC
32373949 AATTATGCGAGATGATATATCCGGGCTAAGACCCGAAGGCATTTATGCGAGTTGA
66 AATTATGCGAGATGATATATCCGGGCTAAGACCCGAAGGCATTTATGCGAGTTGA
*
32374004 TATATCCGGGCTAAGCCCCGAAGGCAATTATGCGAGTTGATATGTCCGGGCTATGACCCGAAGGC
1 TATATCCGGGCTAAGACCCGAAGGCAATTATGCGAGTTGATATGTCCGGGCTATGACCCGAAGGC
32374069 AATTATGCGAGATGATATATCCGGGCTAAGACCCGAAGGCATTTATGCGAGTTGA
66 AATTATGCGAGATGATATATCCGGGCTAAGACCCGAAGGCATTTATGCGAGTTGA
* *
32374124 TATATCCGGGCTAAGACCCGAAGGCAATTATGCGAGTTGATATGTCCGGGTTAAGACCCGAAGGC
1 TATATCCGGGCTAAGACCCGAAGGCAATTATGCGAGTTGATATGTCCGGGCTATGACCCGAAGGC
32374189 AA
66 AA
32374191 ATGTGTTTGC
Statistics
Matches: 182, Mismatches: 5, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
120 182 1.00
ACGTcount: A:0.29, C:0.21, G:0.28, T:0.23
Consensus pattern (120 bp):
TATATCCGGGCTAAGACCCGAAGGCAATTATGCGAGTTGATATGTCCGGGCTATGACCCGAAGGC
AATTATGCGAGATGATATATCCGGGCTAAGACCCGAAGGCATTTATGCGAGTTGA
Found at i:32381352 original size:17 final size:21
Alignment explanation
Indices: 32381285--32381351 Score: 89
Period size: 21 Copynumber: 3.1 Consensus size: 21
32381275 ATTATGCATC
* *
32381285 CCACCCAAATCCAGCCAACACA
1 CCACCCATA-CCAACCAACACA
* *
32381307 CTATCCATACCAACCAACACA
1 CCACCCATACCAACCAACACA
32381328 CCACCCATACCAACCAACACA
1 CCACCCATACCAACCAACACA
32381349 CCA
1 CCA
32381352 TGTGGGGATA
Statistics
Matches: 39, Mismatches: 6, Indels: 1
0.85 0.13 0.02
Matches are distributed among these distances:
21 33 0.85
22 6 0.15
ACGTcount: A:0.42, C:0.49, G:0.01, T:0.07
Consensus pattern (21 bp):
CCACCCATACCAACCAACACA
Found at i:32381470 original size:27 final size:27
Alignment explanation
Indices: 32381440--32381503 Score: 74
Period size: 27 Copynumber: 2.4 Consensus size: 27
32381430 TGCCAGAAAC
*
32381440 AGTAAATGTGGCAAAGCCACCAGTATT
1 AGTAAATGTGGCAAAGCCACCAGTAAT
* * * *
32381467 AGTAATTGTGGCATAGCCTCTAGTAAT
1 AGTAAATGTGGCAAAGCCACCAGTAAT
*
32381494 AGTGAATGTG
1 AGTAAATGTG
32381504 ACATAGTCAC
Statistics
Matches: 30, Mismatches: 7, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
27 30 1.00
ACGTcount: A:0.33, C:0.14, G:0.25, T:0.28
Consensus pattern (27 bp):
AGTAAATGTGGCAAAGCCACCAGTAAT
Found at i:32381630 original size:27 final size:27
Alignment explanation
Indices: 32381600--32381760 Score: 166
Period size: 27 Copynumber: 6.0 Consensus size: 27
32381590 GGGCACAATC
*
32381600 GTCATTTTACCCTATAGGGGCATTACT
1 GTCATTTTACCCTACAGGGGCATTACT
* *
32381627 GTCATTTTACCCTACAGGGACATTACG
1 GTCATTTTACCCTACAGGGGCATTACT
* * * *
32381654 GTCATTCTACCTTACA-GGACTATTACG
1 GTCATTTTACCCTACAGGGGC-ATTACT
* *
32381681 GTCATTTCACCCTACAAGGGCATTA-T
1 GTCATTTTACCCTACAGGGGCATTACT
** *
32381707 GATCATTTTACATTATAGGGGCATTA-T
1 G-TCATTTTACCCTACAGGGGCATTACT
32381734 GGTCATTTTACCCTACAGGGGCATTAC
1 -GTCATTTTACCCTACAGGGGCATTAC
32381761 GGCCAGATAA
Statistics
Matches: 111, Mismatches: 18, Indels: 9
0.80 0.13 0.07
Matches are distributed among these distances:
26 5 0.05
27 102 0.92
28 4 0.04
ACGTcount: A:0.25, C:0.23, G:0.18, T:0.34
Consensus pattern (27 bp):
GTCATTTTACCCTACAGGGGCATTACT
Found at i:32381762 original size:81 final size:81
Alignment explanation
Indices: 32381600--32381752 Score: 200
Period size: 81 Copynumber: 1.9 Consensus size: 81
32381590 GGGCACAATC
* * * *
32381600 GTCATTTTACCCTATAGGGGCATTACTGTCATTTTACCCTACAGGGACATTACGGTCATTCTACC
1 GTCATTTCACCCTACAAGGGCATTACTGTCATTTTACACTACAGGGACATTACGGTCATTCTACC
*
32381665 TTACAGGACTATTACG
66 CTACAGGACTATTACG
* * * * *
32381681 GTCATTTCACCCTACAAGGGCATTA-TGATCATTTTACATTATAGGGGCATTATGGTCATTTTAC
1 GTCATTTCACCCTACAAGGGCATTACTG-TCATTTTACACTACAGGGACATTACGGTCATTCTAC
32381745 CCTACAGG
65 CCTACAGG
32381753 GGCATTACGG
Statistics
Matches: 61, Mismatches: 10, Indels: 2
0.84 0.14 0.03
Matches are distributed among these distances:
80 2 0.03
81 59 0.97
ACGTcount: A:0.25, C:0.23, G:0.18, T:0.34
Consensus pattern (81 bp):
GTCATTTCACCCTACAAGGGCATTACTGTCATTTTACACTACAGGGACATTACGGTCATTCTACC
CTACAGGACTATTACG
Found at i:32382336 original size:15 final size:15
Alignment explanation
Indices: 32382316--32382347 Score: 55
Period size: 15 Copynumber: 2.1 Consensus size: 15
32382306 CTTAATCACT
32382316 TAAACCACAACCACC
1 TAAACCACAACCACC
*
32382331 TAAACCATAACCACC
1 TAAACCACAACCACC
32382346 TA
1 TA
32382348 CTTTGCTTGA
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
15 16 1.00
ACGTcount: A:0.47, C:0.41, G:0.00, T:0.12
Consensus pattern (15 bp):
TAAACCACAACCACC
Found at i:32393402 original size:13 final size:13
Alignment explanation
Indices: 32393384--32393409 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
32393374 AGATAAGGAC
32393384 CAGGCACGAGGCA
1 CAGGCACGAGGCA
32393397 CAGGCACGAGGCA
1 CAGGCACGAGGCA
32393410 TTACCAGACA
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.31, C:0.31, G:0.38, T:0.00
Consensus pattern (13 bp):
CAGGCACGAGGCA
Found at i:32399365 original size:15 final size:14
Alignment explanation
Indices: 32399317--32399401 Score: 71
Period size: 15 Copynumber: 5.8 Consensus size: 14
32399307 CAAAGATAAC
* *
32399317 AAGAAAACCGAATA
1 AAGAAATCCAAATA
32399331 AAGAAATCCAAGATA
1 AAGAAATCCAA-ATA
* *
32399346 GAGAAACCCGAAATA
1 AAGAAATCC-AAATA
32399361 AAGAAATCCAGAATA
1 AAGAAATCCA-AATA
* *
32399376 AAGAGATCCAGGATA
1 AAGAAATCCA-AATA
*
32399391 AAGAAACCCAA
1 AAGAAATCCAA
32399402 GATACGATAC
Statistics
Matches: 57, Mismatches: 11, Indels: 6
0.77 0.15 0.08
Matches are distributed among these distances:
14 10 0.18
15 45 0.79
16 2 0.04
ACGTcount: A:0.58, C:0.16, G:0.16, T:0.09
Consensus pattern (14 bp):
AAGAAATCCAAATA
Found at i:32399405 original size:15 final size:15
Alignment explanation
Indices: 32399328--32399405 Score: 79
Period size: 15 Copynumber: 5.2 Consensus size: 15
32399318 AGAAAACCGA
32399328 ATAAAGAAATCCAAG
1 ATAAAGAAATCCAAG
* *
32399343 ATAGAGAAACCCGAA-
1 ATAAAGAAATCC-AAG
32399358 ATAAAGAAATCC-AG
1 ATAAAGAAATCCAAG
* *
32399372 AATAAAGAGATCCAGG
1 -ATAAAGAAATCCAAG
*
32399388 ATAAAGAAACCCAAG
1 ATAAAGAAATCCAAG
32399403 ATA
1 ATA
32399406 CGATACTATG
Statistics
Matches: 50, Mismatches: 9, Indels: 8
0.75 0.13 0.12
Matches are distributed among these distances:
13 1 0.02
15 46 0.92
16 3 0.06
ACGTcount: A:0.56, C:0.15, G:0.17, T:0.12
Consensus pattern (15 bp):
ATAAAGAAATCCAAG
Found at i:32405522 original size:40 final size:39
Alignment explanation
Indices: 32405424--32405686 Score: 278
Period size: 40 Copynumber: 6.6 Consensus size: 39
32405414 TCCTCGTTCA
* * * *
32405424 AATGCCTTCGGGACATAGCCCGGTTTTAGTAACTCACAC
1 AATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCAC
* *
32405463 AATGCCTTCGGGACATAACCCGGATTTAATAACTCGCAC
1 AATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCAC
*
32405502 GAATGCCTTCGGGACTTAACCCGGATTTAATAACTCGCAC
1 -AATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCAC
*
32405542 GAATGCCTTCGGGACTTAACCCGGATTTAGTATCTCGCAC
1 -AATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCAC
* * *
32405582 AAAGGCCTTCGGGGCTTAACCCGGAATTT-GTATCTCGCAC
1 -AATGCCTTCGGGACTTAACCCGG-ATTTAGTAACTCGCAC
** * * * *
32405622 AAATGCCTTC-GGATCTTAGTCCGGATATATTCACTTAGCAC
1 -AATGCCTTCGGGA-CTTAACCCGGATTTAGTAAC-TCGCAC
* *
32405663 AAAGCCTTCGGGACTTAGCCCGGA
1 AATGCCTTCGGGACTTAACCCGGA
32405687 CAGCATTCAA
Statistics
Matches: 197, Mismatches: 21, Indels: 11
0.86 0.09 0.05
Matches are distributed among these distances:
39 40 0.20
40 145 0.74
41 12 0.06
ACGTcount: A:0.26, C:0.27, G:0.21, T:0.25
Consensus pattern (39 bp):
AATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCAC
Found at i:32405646 original size:120 final size:119
Alignment explanation
Indices: 32405424--32405686 Score: 307
Period size: 120 Copynumber: 2.2 Consensus size: 119
32405414 TCCTCGTTCA
* * *
32405424 AATGCCTTCGGGACATAGCCCGGTTTTAGTAACTCACACAATGCCTTCGGGACATAACCCGGATT
1 AATGCCTTCGGGACTTAGCCCGGATTTAGTAACTCACACAAGGCCTTCGGGACATAACCCGGATT
* * *
32405489 TAATAACTCGCACGAATGCCTTCGGGACTTAACCCGGATTTAATAAC-TCGCAC
66 TAATAACTCGCACAAATGCCTTCGGGACTTAACCCGGATATAATAACTTAGCAC
* * * * *
32405542 GAATGCCTTCGGGACTTAACCCGGATTTAGTATCTCGCACAAAGGCCTTCGGGGCTTAACCCGGA
1 -AATGCCTTCGGGACTTAGCCCGGATTTAGTAACTCACAC-AAGGCCTTCGGGACATAACCCGG-
* * ** * *
32405607 ATTT-GTATCTCGCACAAATGCCTTC-GGATCTTAGTCCGGATATATTCACTTAGCAC
63 ATTTAATAACTCGCACAAATGCCTTCGGGA-CTTAACCCGGATATAATAACTTAGCAC
*
32405663 AAAGCCTTCGGGACTTAGCCCGGA
1 AATGCCTTCGGGACTTAGCCCGGA
32405687 CAGCATTCAA
Statistics
Matches: 121, Mismatches: 19, Indels: 7
0.82 0.13 0.05
Matches are distributed among these distances:
119 37 0.31
120 75 0.62
121 9 0.07
ACGTcount: A:0.26, C:0.27, G:0.21, T:0.25
Consensus pattern (119 bp):
AATGCCTTCGGGACTTAGCCCGGATTTAGTAACTCACACAAGGCCTTCGGGACATAACCCGGATT
TAATAACTCGCACAAATGCCTTCGGGACTTAACCCGGATATAATAACTTAGCAC
Found at i:32405695 original size:41 final size:41
Alignment explanation
Indices: 32405618--32405695 Score: 97
Period size: 40 Copynumber: 1.9 Consensus size: 41
32405608 TTTGTATCTC
* * *
32405618 GCACAAATGCCTTCGGATCTTAGTCCGGATATATTCACTTA
1 GCACAAATGCCTTCGGATCTTAGCCCGGACACATTCACTTA
32405659 GCACAAA-GCCTTCGGGA-CTTAGCCCGGACAGCATTCA
1 GCACAAATGCCTTC-GGATCTTAGCCCGGACA-CATTCA
32405696 ATTAATCATG
Statistics
Matches: 32, Mismatches: 3, Indels: 4
0.82 0.08 0.10
Matches are distributed among these distances:
40 17 0.53
41 15 0.47
ACGTcount: A:0.27, C:0.28, G:0.21, T:0.24
Consensus pattern (41 bp):
GCACAAATGCCTTCGGATCTTAGCCCGGACACATTCACTTA
Found at i:32413642 original size:40 final size:40
Alignment explanation
Indices: 32413460--32413682 Score: 236
Period size: 40 Copynumber: 5.6 Consensus size: 40
32413450 TCCTCGTTCA
* * * * *
32413460 AATGCCTTCGGGACATAGCCCGGTTTTAGTAACTCACAC-
1 AATGCCTTCGGGACTTAACCCGGATTTAATAACTCGCACG
* *
32413499 AATGCCTTCGGGACATAACCCGGATTTAACAACTCGCACG
1 AATGCCTTCGGGACTTAACCCGGATTTAATAACTCGCACG
32413539 AATGCCTTCGGGACTTAACCCGGATTTAATAACTCGCACG
1 AATGCCTTCGGGACTTAACCCGGATTTAATAACTCGCACG
* * *
32413579 AATGCCTTCGGGACTTAACCCGGATTTAGTATCTCGCACA
1 AATGCCTTCGGGACTTAACCCGGATTTAATAACTCGCACG
* ** * * * *
32413619 AAGGCCTTC-GGATCTTAGTCCGGATATATTCACTTAGCAC-
1 AATGCCTTCGGGA-CTTAACCCGGATTTAATAAC-TCGCACG
* *
32413659 AAAGCCTTCGGGACTTAGCCCGGA
1 AATGCCTTCGGGACTTAACCCGGA
32413683 CAGCATTCAA
Statistics
Matches: 160, Mismatches: 20, Indels: 7
0.86 0.11 0.04
Matches are distributed among these distances:
39 37 0.23
40 115 0.72
41 8 0.05
ACGTcount: A:0.26, C:0.28, G:0.21, T:0.25
Consensus pattern (40 bp):
AATGCCTTCGGGACTTAACCCGGATTTAATAACTCGCACG
Found at i:32413691 original size:41 final size:41
Alignment explanation
Indices: 32413614--32413691 Score: 97
Period size: 40 Copynumber: 1.9 Consensus size: 41
32413604 TTAGTATCTC
* * *
32413614 GCACAAAGGCCTTCGGATCTTAGTCCGGATATATTCACTTA
1 GCACAAAGGCCTTCGGATCTTAGCCCGGACACATTCACTTA
32413655 GCACAAA-GCCTTCGGGA-CTTAGCCCGGACAGCATTCA
1 GCACAAAGGCCTTC-GGATCTTAGCCCGGACA-CATTCA
32413692 ATTAATCATG
Statistics
Matches: 32, Mismatches: 3, Indels: 4
0.82 0.08 0.10
Matches are distributed among these distances:
40 17 0.53
41 15 0.47
ACGTcount: A:0.27, C:0.28, G:0.22, T:0.23
Consensus pattern (41 bp):
GCACAAAGGCCTTCGGATCTTAGCCCGGACACATTCACTTA
Done.