Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: A01
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: 104050246
ACGTcount: A:0.31, C:0.17, G:0.17, T:0.31
Warning! 4660000 characters in sequence are not A, C, G, or T
File 207 of 316
Found at i:67467148 original size:22 final size:23
Alignment explanation
Indices: 67467123--67467165 Score: 79
Period size: 22 Copynumber: 1.9 Consensus size: 23
67467113 TATCCCCACA
67467123 TGGAGTGTAG-GGATGGATGGAG
1 TGGAGTGTAGAGGATGGATGGAG
67467145 TGGAGTGTAGAGGATGGATGG
1 TGGAGTGTAGAGGATGGATGG
67467166 GTAGGACTTC
Statistics
Matches: 20, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
22 10 0.50
23 10 0.50
ACGTcount: A:0.23, C:0.00, G:0.53, T:0.23
Consensus pattern (23 bp):
TGGAGTGTAGAGGATGGATGGAG
Found at i:67479833 original size:46 final size:45
Alignment explanation
Indices: 67479780--67479952 Score: 190
Period size: 46 Copynumber: 3.8 Consensus size: 45
67479770 TGGTTGAGCA
* *
67479780 TCCGAACTCGTTGAGTTGAGTTCGAGTTCACTTATGGATGCGAATG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATG-AAATG
* * *
67479826 TCTGAACTCGTTGAGTTGAGTCCGAGTTCA-TGA--GATGTAACTAGG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATG-AA--ATG
*
67479871 CATCCGAACTCGTTGAGTTGAGTCTGAGTTCACTTATGGATGTAAATG
1 --TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATG-AAATG
* *
67479919 TCCGAGCTCATTGAGTTGAGTCCGAGTTCACTTA
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTA
67479953 GGGGCGGGTT
Statistics
Matches: 107, Mismatches: 13, Indels: 14
0.80 0.10 0.10
Matches are distributed among these distances:
43 5 0.05
45 4 0.04
46 59 0.55
47 28 0.26
48 4 0.04
50 7 0.07
ACGTcount: A:0.23, C:0.18, G:0.27, T:0.32
Consensus pattern (45 bp):
TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGAAATG
Found at i:67479936 original size:93 final size:93
Alignment explanation
Indices: 67479777--67479948 Score: 283
Period size: 93 Copynumber: 1.8 Consensus size: 93
67479767 GGATGGTTGA
* * *
67479777 GCATCCGAACTCGTTGAGTTGAGTTCGAGTTCACTTATGGATGCGAATGTCTGAACTCGTTGAGT
1 GCATCCGAACTCGTTGAGTTGAGTTCGAGTTCACTTATGGATGCAAATGTCCGAACTCATTGAGT
67479842 TGAGTCCGAGTTCATGAGATGTAACTAG
66 TGAGTCCGAGTTCATGAGATGTAACTAG
* *
67479870 GCATCCGAACTCGTTGAGTTGAG-TCTGAGTTCACTTATGGATGTAAATGTCCGAGCTCATTGAG
1 GCATCCGAACTCGTTGAGTTGAGTTC-GAGTTCACTTATGGATGCAAATGTCCGAACTCATTGAG
67479934 TTGAGTCCGAGTTCA
65 TTGAGTCCGAGTTCA
67479949 CTTAGGGGCG
Statistics
Matches: 73, Mismatches: 5, Indels: 2
0.91 0.06 0.03
Matches are distributed among these distances:
92 2 0.03
93 71 0.97
ACGTcount: A:0.23, C:0.18, G:0.27, T:0.31
Consensus pattern (93 bp):
GCATCCGAACTCGTTGAGTTGAGTTCGAGTTCACTTATGGATGCAAATGTCCGAACTCATTGAGT
TGAGTCCGAGTTCATGAGATGTAACTAG
Found at i:67487431 original size:91 final size:91
Alignment explanation
Indices: 67487268--67487434 Score: 275
Period size: 91 Copynumber: 1.8 Consensus size: 91
67487258 GGATGGTTGA
*
67487268 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAATGTCCGAACTCGTTGAGTT
1 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAACGTCCGAACTCGTTGAGTT
67487333 GAGTCGAGTTCGTGAGATGTAACTAG
66 GAGTCGAGTTCGTGAGATGTAACTAG
*
67487359 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCA-TTATGGATGCGAACG-CCGAGCTCGTTGAGT
1 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGC-AACGTCCGAACTCGTTGAGT
*
67487422 TGATTTCGAGTTC
65 TGA-GTCGAGTTC
67487435 ACTTAGGGGC
Statistics
Matches: 71, Mismatches: 3, Indels: 4
0.91 0.04 0.05
Matches are distributed among these distances:
90 27 0.38
91 44 0.62
ACGTcount: A:0.22, C:0.20, G:0.29, T:0.30
Consensus pattern (91 bp):
GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAACGTCCGAACTCGTTGAGTT
GAGTCGAGTTCGTGAGATGTAACTAG
Found at i:67492557 original size:28 final size:28
Alignment explanation
Indices: 67492504--67492558 Score: 67
Period size: 28 Copynumber: 2.0 Consensus size: 28
67492494 ATGGATACCG
* * *
67492504 TTTACTTATCATACTTTTGGCAGATACT
1 TTTACTAATCAAACTTTTGGAAGATACT
67492532 TTTACTAATCAAACTTTT-GAAGGATAC
1 TTTACTAATCAAACTTTTGGAA-GATAC
67492559 CCTTGCTAAT
Statistics
Matches: 23, Mismatches: 3, Indels: 2
0.82 0.11 0.07
Matches are distributed among these distances:
27 2 0.09
28 21 0.91
ACGTcount: A:0.31, C:0.16, G:0.11, T:0.42
Consensus pattern (28 bp):
TTTACTAATCAAACTTTTGGAAGATACT
Found at i:67493023 original size:25 final size:25
Alignment explanation
Indices: 67492995--67493055 Score: 68
Period size: 25 Copynumber: 2.4 Consensus size: 25
67492985 GACAGAATAT
67492995 GCCACAAAGGCAACATACAGATAAC
1 GCCACAAAGGCAACATACAGATAAC
* ** * *
67493020 GCCACAAATGCGTCATACGGATTAC
1 GCCACAAAGGCAACATACAGATAAC
*
67493045 ACCACAAAGGC
1 GCCACAAAGGC
67493056 TAGCAGAATA
Statistics
Matches: 29, Mismatches: 7, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
25 29 1.00
ACGTcount: A:0.41, C:0.30, G:0.18, T:0.11
Consensus pattern (25 bp):
GCCACAAAGGCAACATACAGATAAC
Found at i:67493129 original size:42 final size:42
Alignment explanation
Indices: 67493046--67493151 Score: 128
Period size: 42 Copynumber: 2.5 Consensus size: 42
67493036 ACGGATTACA
*
67493046 CCACAAAGGCTAGCAGAAT---AGTACAAAGGCAATATCAGATG
1 CCACAAAGGCTAACAGAATGCCA-TA-AAAGGCAATATCAGATG
* * * *
67493087 CCAGAAAGTCTAACATAATGCCATAAAAGGCCATATCAGATG
1 CCACAAAGGCTAACAGAATGCCATAAAAGGCAATATCAGATG
67493129 CCACAAAGGCTAACAGAATGCCA
1 CCACAAAGGCTAACAGAATGCCA
67493152 CAAGGGCTAT
Statistics
Matches: 54, Mismatches: 8, Indels: 5
0.81 0.12 0.07
Matches are distributed among these distances:
41 15 0.28
42 36 0.67
43 2 0.04
44 1 0.02
ACGTcount: A:0.43, C:0.23, G:0.19, T:0.15
Consensus pattern (42 bp):
CCACAAAGGCTAACAGAATGCCATAAAAGGCAATATCAGATG
Found at i:67493151 original size:20 final size:20
Alignment explanation
Indices: 67493046--67493160 Score: 74
Period size: 20 Copynumber: 5.6 Consensus size: 20
67493036 ACGGATTACA
*
67493046 CCACAAAGGCTAGCAGAATAG
1 CCACAAAGGCTAACAGAAT-G
* *
67493067 -TACAAAGGCAATATCAG-ATG
1 CCACAAAGGC--TAACAGAATG
* * *
67493087 CCAGAAAGTCTAACATAATG
1 CCACAAAGGCTAACAGAATG
* *
67493107 CCATAAAAGGCCATATCAG-ATG
1 CCA-CAAAGG-C-TAACAGAATG
67493129 CCACAAAGGCTAACAGAATG
1 CCACAAAGGCTAACAGAATG
*
67493149 CCACAAGGGCTA
1 CCACAAAGGCTA
67493161 TATCTAAATA
Statistics
Matches: 72, Mismatches: 14, Indels: 17
0.70 0.14 0.17
Matches are distributed among these distances:
19 9 0.12
20 30 0.42
21 17 0.24
22 12 0.17
23 4 0.06
ACGTcount: A:0.43, C:0.23, G:0.20, T:0.15
Consensus pattern (20 bp):
CCACAAAGGCTAACAGAATG
Found at i:67494664 original size:26 final size:26
Alignment explanation
Indices: 67494635--67494739 Score: 192
Period size: 26 Copynumber: 4.0 Consensus size: 26
67494625 TGATACAAAT
67494635 TGATAATGGGTTAGGTAAATGTTCCA
1 TGATAATGGGTTAGGTAAATGTTCCA
*
67494661 TGATAATGGGTTAGGTAAATGTTTCA
1 TGATAATGGGTTAGGTAAATGTTCCA
*
67494687 TGATAATAGGTTAGGTAAATGTTCCA
1 TGATAATGGGTTAGGTAAATGTTCCA
67494713 TGATAATGGGTTAGGTAAATGTTCCA
1 TGATAATGGGTTAGGTAAATGTTCCA
67494739 T
1 T
67494740 AATGGGAATT
Statistics
Matches: 75, Mismatches: 4, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
26 75 1.00
ACGTcount: A:0.31, C:0.07, G:0.26, T:0.36
Consensus pattern (26 bp):
TGATAATGGGTTAGGTAAATGTTCCA
Found at i:67495924 original size:8 final size:8
Alignment explanation
Indices: 67495911--67495940 Score: 51
Period size: 8 Copynumber: 3.8 Consensus size: 8
67495901 AGATCGGCAC
67495911 AAGCCGAA
1 AAGCCGAA
67495919 AAGCCGAA
1 AAGCCGAA
*
67495927 ATGCCGAA
1 AAGCCGAA
67495935 AAGCCG
1 AAGCCG
67495941 GTATTTTGAG
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
8 20 1.00
ACGTcount: A:0.43, C:0.27, G:0.27, T:0.03
Consensus pattern (8 bp):
AAGCCGAA
Found at i:67496369 original size:27 final size:27
Alignment explanation
Indices: 67496329--67496487 Score: 184
Period size: 27 Copynumber: 5.9 Consensus size: 27
67496319 AGGAAGCGTC
*
67496329 CTGGTGGCTATGCCACAATTATCTGAT
1 CTGGTGGCTCTGCCACAATTATCTGAT
67496356 CTGGTGGCTCTGCCAC-ATATATCTG-T
1 CTGGTGGCTCTGCCACAAT-TATCTGAT
* *
67496382 CCTGGTGGCTATGCCAAAATTATCTGAT
1 -CTGGTGGCTCTGCCACAATTATCTGAT
*
67496410 CTGGTGGCTCTGCCAC-ATATATCTGTT
1 CTGGTGGCTCTGCCACAAT-TATCTGAT
67496437 CTGGTGGCTCTGCCACAA-TATCTGTAT
1 CTGGTGGCTCTGCCACAATTATCTG-AT
* * *
67496464 CTGGTGACTCCGTCACAA-TATCTG
1 CTGGTGGCTCTGCCACAATTATCTG
67496488 GCAGCCTCGC
Statistics
Matches: 115, Mismatches: 10, Indels: 14
0.83 0.07 0.10
Matches are distributed among these distances:
26 11 0.10
27 100 0.87
28 4 0.03
ACGTcount: A:0.19, C:0.25, G:0.22, T:0.33
Consensus pattern (27 bp):
CTGGTGGCTCTGCCACAATTATCTGAT
Found at i:67496408 original size:54 final size:54
Alignment explanation
Indices: 67496326--67496487 Score: 247
Period size: 54 Copynumber: 3.0 Consensus size: 54
67496316 TGGAGGAAGC
67496326 GTCCTGGTGGCTATGCCACAATTATCTGATCTGGTGGCTCTGCCACATATATCT
1 GTCCTGGTGGCTATGCCACAATTATCTGATCTGGTGGCTCTGCCACATATATCT
*
67496380 GTCCTGGTGGCTATGCCAAAATTATCTGATCTGGTGGCTCTGCCACATATATCT
1 GTCCTGGTGGCTATGCCACAATTATCTGATCTGGTGGCTCTGCCACATATATCT
* * * * *
67496434 GTTCTGGTGGCTCTGCCACAA-TATCTGTATCTGGTGACTCCGTCACA-ATATCT
1 GTCCTGGTGGCTATGCCACAATTATCTG-ATCTGGTGGCTCTGCCACATATATCT
67496487 G
1 G
67496488 GCAGCCTCGC
Statistics
Matches: 100, Mismatches: 7, Indels: 3
0.91 0.06 0.03
Matches are distributed among these distances:
53 13 0.13
54 87 0.87
ACGTcount: A:0.19, C:0.25, G:0.22, T:0.33
Consensus pattern (54 bp):
GTCCTGGTGGCTATGCCACAATTATCTGATCTGGTGGCTCTGCCACATATATCT
Found at i:67500133 original size:61 final size:61
Alignment explanation
Indices: 67500053--67500180 Score: 229
Period size: 61 Copynumber: 2.1 Consensus size: 61
67500043 TTGTTTTATA
* *
67500053 ATTTGCTCTTTGCCCTCCAAAATTTCGAAATATGGTTTATTTGCAATAAAACCTCTTACAC
1 ATTTCCTCTTTGCCCTCCAAAATTCCGAAATATGGTTTATTTGCAATAAAACCTCTTACAC
*
67500114 ATTTCCTCTTTGCCCTCCAAAATTCCGAAATATGGTTTATTTGCTATAAAACCTCTTACAC
1 ATTTCCTCTTTGCCCTCCAAAATTCCGAAATATGGTTTATTTGCAATAAAACCTCTTACAC
67500175 ATTTCC
1 ATTTCC
67500181 CTTGTTTTTC
Statistics
Matches: 64, Mismatches: 3, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
61 64 1.00
ACGTcount: A:0.28, C:0.25, G:0.09, T:0.38
Consensus pattern (61 bp):
ATTTCCTCTTTGCCCTCCAAAATTCCGAAATATGGTTTATTTGCAATAAAACCTCTTACAC
Found at i:67505766 original size:28 final size:29
Alignment explanation
Indices: 67505734--67505799 Score: 73
Period size: 30 Copynumber: 2.3 Consensus size: 29
67505724 TATTGTGTCT
67505734 ATATTTTTATACTATTA-AC-TATATATAC
1 ATATTTTTATA-TATTATACGTATATATAC
* * *
67505762 TTATTTTATTTATATTATACGTATATATGC
1 ATATTTT-TATATATTATACGTATATATAC
67505792 ATATTTTT
1 ATATTTTT
67505800 GCAAGTTCTA
Statistics
Matches: 31, Mismatches: 4, Indels: 5
0.77 0.10 0.12
Matches are distributed among these distances:
28 11 0.35
29 6 0.19
30 14 0.45
ACGTcount: A:0.33, C:0.08, G:0.03, T:0.56
Consensus pattern (29 bp):
ATATTTTTATATATTATACGTATATATAC
Found at i:67507726 original size:180 final size:180
Alignment explanation
Indices: 67507519--67507891 Score: 746
Period size: 180 Copynumber: 2.1 Consensus size: 180
67507509 TTCATTATTA
67507519 AAATTGAAAATTAATTCAAAACTTTTATAAATGTTTGCATCAAATATTTTTTAAAGGTGCTAAAC
1 AAATTGAAAATTAATTCAAAACTTTTATAAATGTTTGCATCAAATATTTTTTAAAGGTGCTAAAC
67507584 TTGAAAATATTTTTTGAGTAAGAGGGAGTTAGAAATTATTTTTAATGGTTTTGTTATATAGAAAA
66 TTGAAAATATTTTTTGAGTAAGAGGGAGTTAGAAATTATTTTTAATGGTTTTGTTATATAGAAAA
67507649 GGGGGAAATTGTTAGCCCTAATTTTTCAAATATTTTAATATAACAGAGTC
131 GGGGGAAATTGTTAGCCCTAATTTTTCAAATATTTTAATATAACAGAGTC
67507699 AAATTGAAAATTAATTCAAAACTTTTATAAATGTTTGCATCAAATATTTTTTAAAGGTGCTAAAC
1 AAATTGAAAATTAATTCAAAACTTTTATAAATGTTTGCATCAAATATTTTTTAAAGGTGCTAAAC
67507764 TTGAAAATATTTTTTGAGTAAGAGGGAGTTAGAAATTATTTTTAATGGTTTTGTTATATAGAAAA
66 TTGAAAATATTTTTTGAGTAAGAGGGAGTTAGAAATTATTTTTAATGGTTTTGTTATATAGAAAA
67507829 GGGGGAAATTGTTAGCCCTAATTTTTCAAATATTTTAATATAACAGAGTC
131 GGGGGAAATTGTTAGCCCTAATTTTTCAAATATTTTAATATAACAGAGTC
67507879 AAATTGAAAATTA
1 AAATTGAAAATTA
67507892 TCTTTAGTCA
Statistics
Matches: 193, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
180 193 1.00
ACGTcount: A:0.39, C:0.06, G:0.15, T:0.39
Consensus pattern (180 bp):
AAATTGAAAATTAATTCAAAACTTTTATAAATGTTTGCATCAAATATTTTTTAAAGGTGCTAAAC
TTGAAAATATTTTTTGAGTAAGAGGGAGTTAGAAATTATTTTTAATGGTTTTGTTATATAGAAAA
GGGGGAAATTGTTAGCCCTAATTTTTCAAATATTTTAATATAACAGAGTC
Found at i:67514552 original size:30 final size:31
Alignment explanation
Indices: 67514518--67514595 Score: 86
Period size: 31 Copynumber: 2.5 Consensus size: 31
67514508 AACTAAAAAG
* * *
67514518 AAGTTATAATTT-GGTTATTGAACTATTCAT
1 AAGTTATAATTTAAGTTATTAAACTATTCAA
* *
67514548 AAGTTTTCATTTAAGTTATTAAACTATTCAA
1 AAGTTATAATTTAAGTTATTAAACTATTCAA
* *
67514579 AAGTTTTTATTTAAGTT
1 AAGTTATAATTTAAGTT
67514596 CATGGTCTGT
Statistics
Matches: 41, Mismatches: 6, Indels: 1
0.85 0.12 0.02
Matches are distributed among these distances:
30 10 0.24
31 31 0.76
ACGTcount: A:0.35, C:0.06, G:0.10, T:0.49
Consensus pattern (31 bp):
AAGTTATAATTTAAGTTATTAAACTATTCAA
Found at i:67514573 original size:31 final size:31
Alignment explanation
Indices: 67514531--67514595 Score: 103
Period size: 31 Copynumber: 2.1 Consensus size: 31
67514521 TTATAATTTG
* *
67514531 GTTATTGAACTATTCATAAGTTTTCATTTAA
1 GTTATTAAACTATTCAAAAGTTTTCATTTAA
*
67514562 GTTATTAAACTATTCAAAAGTTTTTATTTAA
1 GTTATTAAACTATTCAAAAGTTTTCATTTAA
67514593 GTT
1 GTT
67514596 CATGGTCTGT
Statistics
Matches: 31, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
31 31 1.00
ACGTcount: A:0.34, C:0.08, G:0.09, T:0.49
Consensus pattern (31 bp):
GTTATTAAACTATTCAAAAGTTTTCATTTAA
Found at i:67521828 original size:39 final size:39
Alignment explanation
Indices: 67521723--67521831 Score: 164
Period size: 39 Copynumber: 2.8 Consensus size: 39
67521713 ATGTTTATCT
* * *
67521723 AGACTTAGGGTCCGCAGGCTATGTGCTAGAATTATATCC
1 AGACTTAAGGTCCGCAGGCTATGTGCTGGAATTATAACC
67521762 AGACTTAAGGTCCGCAGGCTATGTGCTGGAATTATAACC
1 AGACTTAAGGTCCGCAGGCTATGTGCTGGAATTATAACC
* * *
67521801 GGACTTAAGGTCCGCAGACTACGTGCTGGAA
1 AGACTTAAGGTCCGCAGGCTATGTGCTGGAA
67521832 ATATGTCTAG
Statistics
Matches: 64, Mismatches: 6, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
39 64 1.00
ACGTcount: A:0.27, C:0.21, G:0.28, T:0.25
Consensus pattern (39 bp):
AGACTTAAGGTCCGCAGGCTATGTGCTGGAATTATAACC
Found at i:67526118 original size:82 final size:82
Alignment explanation
Indices: 67526018--67526172 Score: 215
Period size: 82 Copynumber: 1.9 Consensus size: 82
67526008 TTTGATTGCA
* * *
67526018 CTAATAATTCCTGAATCAATTAGATTACTAATT-ACTTAGCCAGTAATTAATTTGGA-AAATATG
1 CTAATAATTCCTAAATCAATTAGACTACTAATTGA-TTAGCCAGTAATTAATTT-GACAAACATG
*
67526081 TTTACTAATTGACATTACG
64 TTTACCAATTGACATTACG
* * *
67526100 CTAATAATTCCTAAATCAATTTGACTAGTAATTGATTAGCTAGTAATTAATTTGACAAACATGTT
1 CTAATAATTCCTAAATCAATTAGACTACTAATTGATTAGCCAGTAATTAATTTGACAAACATGTT
67526165 TACCAATT
66 TACCAATT
67526173 AACAATCTCT
Statistics
Matches: 64, Mismatches: 7, Indels: 4
0.85 0.09 0.05
Matches are distributed among these distances:
81 2 0.03
82 61 0.95
83 1 0.02
ACGTcount: A:0.38, C:0.14, G:0.10, T:0.38
Consensus pattern (82 bp):
CTAATAATTCCTAAATCAATTAGACTACTAATTGATTAGCCAGTAATTAATTTGACAAACATGTT
TACCAATTGACATTACG
Found at i:67528025 original size:27 final size:27
Alignment explanation
Indices: 67527941--67528030 Score: 101
Period size: 27 Copynumber: 3.3 Consensus size: 27
67527931 AACATATCAG
* *
67527941 AAAAGAATAGCCTTTGTGGTGAAGCCT
1 AAAAGAATAGCCTTTGTGGTGAAGTCA
* *
67527968 AAAAGAATAGCCTTTGTGGTGTA-TTA
1 AAAAGAATAGCCTTTGTGGTGAAGTCA
* **
67527994 CAAAAGAATAGCCTTTATGGCAAAGTCA
1 -AAAAGAATAGCCTTTGTGGTGAAGTCA
67528022 AAAAGAATA
1 AAAAGAATA
67528031 AATTTTGTGG
Statistics
Matches: 52, Mismatches: 9, Indels: 4
0.80 0.14 0.06
Matches are distributed among these distances:
27 50 0.96
28 2 0.04
ACGTcount: A:0.41, C:0.12, G:0.21, T:0.26
Consensus pattern (27 bp):
AAAAGAATAGCCTTTGTGGTGAAGTCA
Found at i:67528053 original size:27 final size:27
Alignment explanation
Indices: 67528022--67528093 Score: 72
Period size: 27 Copynumber: 2.7 Consensus size: 27
67528012 GGCAAAGTCA
* *
67528022 AAAAGAATAAATTTTGTGGCGTATTAT
1 AAAAGAATAAACTTTGTGACGTATTAT
* * * *
67528049 GAAAGAACAACCTTTGTGACGTATTCT
1 AAAAGAATAAACTTTGTGACGTATTAT
**
67528076 AAAAGAATAGGCTTTGTG
1 AAAAGAATAAACTTTGTG
67528094 GTGCACTCTG
Statistics
Matches: 35, Mismatches: 10, Indels: 0
0.78 0.22 0.00
Matches are distributed among these distances:
27 35 1.00
ACGTcount: A:0.38, C:0.10, G:0.21, T:0.32
Consensus pattern (27 bp):
AAAAGAATAAACTTTGTGACGTATTAT
Found at i:67528055 original size:54 final size:54
Alignment explanation
Indices: 67527941--67528047 Score: 133
Period size: 54 Copynumber: 2.0 Consensus size: 54
67527931 AACATATCAG
* ** * ** *
67527941 AAAAGAATAGCCTTTGTGGTGAAGCCTAAAAGAATAGCCTTTGTGGTGTATTAC
1 AAAAGAATAGCCTTTATGGCAAAGCCAAAAAGAATAAACTTTGTGGCGTATTAC
* *
67527995 AAAAGAATAGCCTTTATGGCAAAGTCAAAAAGAATAAATTTTGTGGCGTATTA
1 AAAAGAATAGCCTTTATGGCAAAGCCAAAAAGAATAAACTTTGTGGCGTATTA
67528048 TGAAAGAACA
Statistics
Matches: 44, Mismatches: 9, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
54 44 1.00
ACGTcount: A:0.38, C:0.11, G:0.21, T:0.29
Consensus pattern (54 bp):
AAAAGAATAGCCTTTATGGCAAAGCCAAAAAGAATAAACTTTGTGGCGTATTAC
Found at i:67528092 original size:54 final size:54
Alignment explanation
Indices: 67527966--67528094 Score: 123
Period size: 54 Copynumber: 2.4 Consensus size: 54
67527956 GTGGTGAAGC
* * * * *
67527966 CTAAAAGAATAGCCTTTGTGGTGTATTACAAAAGAATAGCCTTTATGGCAAAGT
1 CTAAAAGAATAGACTTTGTGGCGTATTACAAAAGAACAACCTTTATGACAAAGT
* * * ** * ** *
67528020 CAAAAAGAATAAATTTTGTGGCGTATTATGAAAGAACAACCTTTGTGACGTATT
1 CTAAAAGAATAGACTTTGTGGCGTATTACAAAAGAACAACCTTTATGACAAAGT
*
67528074 CTAAAAGAATAGGCTTTGTGG
1 CTAAAAGAATAGACTTTGTGG
67528095 TGCACTCTGA
Statistics
Matches: 57, Mismatches: 18, Indels: 0
0.76 0.24 0.00
Matches are distributed among these distances:
54 57 1.00
ACGTcount: A:0.37, C:0.12, G:0.21, T:0.30
Consensus pattern (54 bp):
CTAAAAGAATAGACTTTGTGGCGTATTACAAAAGAACAACCTTTATGACAAAGT
Found at i:67529326 original size:43 final size:43
Alignment explanation
Indices: 67529241--67529327 Score: 113
Period size: 43 Copynumber: 2.0 Consensus size: 43
67529231 TATCCTAGAA
* * * * *
67529241 GAAAAAAGAATTTAAAAAGAGGAGAATATAATATTGGGTTGTT
1 GAAAAAAGAATTTAAAAAAAGAAGAAGATAATAATGGCTTGTT
67529284 GAAAAAAGAATTTAAAAAAAGAAGAAGATAA-ACATGGCTTGTT
1 GAAAAAAGAATTTAAAAAAAGAAGAAGATAATA-ATGGCTTGTT
67529327 G
1 G
67529328 GATTTACCTT
Statistics
Matches: 38, Mismatches: 5, Indels: 2
0.84 0.11 0.04
Matches are distributed among these distances:
42 1 0.03
43 37 0.97
ACGTcount: A:0.52, C:0.02, G:0.22, T:0.24
Consensus pattern (43 bp):
GAAAAAAGAATTTAAAAAAAGAAGAAGATAATAATGGCTTGTT
Found at i:67530257 original size:17 final size:17
Alignment explanation
Indices: 67530213--67530251 Score: 69
Period size: 17 Copynumber: 2.3 Consensus size: 17
67530203 GCCATAGCAT
*
67530213 TTCCAAGTGTTCATTAA
1 TTCCAAGTATTCATTAA
67530230 TTCCAAGTATTCATTAA
1 TTCCAAGTATTCATTAA
67530247 TTCCA
1 TTCCA
67530252 CATATTGTAT
Statistics
Matches: 21, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
17 21 1.00
ACGTcount: A:0.31, C:0.21, G:0.08, T:0.41
Consensus pattern (17 bp):
TTCCAAGTATTCATTAA
Found at i:67531340 original size:36 final size:36
Alignment explanation
Indices: 67531293--67531392 Score: 146
Period size: 36 Copynumber: 2.8 Consensus size: 36
67531283 TATGATTATC
67531293 AATATTCTGATTTGCATGTTAAGCATGCTATATTCT
1 AATATTCTGATTTGCATGTTAAGCATGCTATATTCT
* *
67531329 AATATTCTGATTTGCATGTTAAGCATGTTATATTTT
1 AATATTCTGATTTGCATGTTAAGCATGCTATATTCT
* * * *
67531365 AATATTTTGATTCGCGTGTAAAGCATGC
1 AATATTCTGATTTGCATGTTAAGCATGC
67531393 CACTGAAAAT
Statistics
Matches: 57, Mismatches: 7, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
36 57 1.00
ACGTcount: A:0.28, C:0.12, G:0.16, T:0.44
Consensus pattern (36 bp):
AATATTCTGATTTGCATGTTAAGCATGCTATATTCT
Found at i:67538491 original size:19 final size:19
Alignment explanation
Indices: 67538428--67538495 Score: 59
Period size: 19 Copynumber: 3.5 Consensus size: 19
67538418 TTTTAGAAAA
67538428 TTTTT-AAAA-TTTTAACTT
1 TTTTTAAAAATTTTTAA-TT
* * * *
67538446 GTTTTATATATTCTTTAGATA
1 TTTTTAAAAATT-TTTA-ATT
67538467 TTTTTAAAAATTTTTAATT
1 TTTTTAAAAATTTTTAATT
67538486 TTTTTAAAAA
1 TTTTTAAAAA
67538496 ATATAAATTT
Statistics
Matches: 38, Mismatches: 8, Indels: 7
0.72 0.15 0.13
Matches are distributed among these distances:
18 4 0.11
19 14 0.37
20 5 0.13
21 14 0.37
22 1 0.03
ACGTcount: A:0.35, C:0.03, G:0.03, T:0.59
Consensus pattern (19 bp):
TTTTTAAAAATTTTTAATT
Found at i:67538504 original size:19 final size:19
Alignment explanation
Indices: 67538467--67538506 Score: 53
Period size: 19 Copynumber: 2.1 Consensus size: 19
67538457 TCTTTAGATA
* * *
67538467 TTTTTAAAAATTTTTAATT
1 TTTTTAAAAAATATAAATT
67538486 TTTTTAAAAAATATAAATT
1 TTTTTAAAAAATATAAATT
67538505 TT
1 TT
67538507 GAAATTTTAT
Statistics
Matches: 18, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
19 18 1.00
ACGTcount: A:0.42, C:0.00, G:0.00, T:0.57
Consensus pattern (19 bp):
TTTTTAAAAAATATAAATT
Found at i:67538626 original size:9 final size:9
Alignment explanation
Indices: 67538612--67538649 Score: 58
Period size: 9 Copynumber: 4.2 Consensus size: 9
67538602 TACCAATTCG
67538612 TTATTCGAA
1 TTATTCGAA
*
67538621 TTATTCAAA
1 TTATTCGAA
*
67538630 TTATTCGAG
1 TTATTCGAA
67538639 TTATTCGAA
1 TTATTCGAA
67538648 TT
1 TT
67538650 GTAAAATTAA
Statistics
Matches: 25, Mismatches: 4, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
9 25 1.00
ACGTcount: A:0.32, C:0.11, G:0.11, T:0.47
Consensus pattern (9 bp):
TTATTCGAA
Found at i:67539560 original size:24 final size:24
Alignment explanation
Indices: 67539507--67539560 Score: 65
Period size: 24 Copynumber: 2.2 Consensus size: 24
67539497 TTTTAATTAA
* *
67539507 ATTTTATAAATAATTAATATTTAT
1 ATTTTAAAAATAATTAAAATTTAT
*
67539531 -TGTTTAAAAATATTTAAAATTTAT
1 AT-TTTAAAAATAATTAAAATTTAT
67539555 ATTTTA
1 ATTTTA
67539561 TATATTAAAA
Statistics
Matches: 25, Mismatches: 3, Indels: 4
0.78 0.09 0.12
Matches are distributed among these distances:
23 1 0.04
24 23 0.92
25 1 0.04
ACGTcount: A:0.44, C:0.00, G:0.02, T:0.54
Consensus pattern (24 bp):
ATTTTAAAAATAATTAAAATTTAT
Found at i:67539763 original size:26 final size:26
Alignment explanation
Indices: 67539734--67539788 Score: 74
Period size: 26 Copynumber: 2.1 Consensus size: 26
67539724 TTTAAACTAA
*
67539734 ATTTTTTAAAAATACTTTTCAAAAGT
1 ATTTTTTAAAAATAATTTTCAAAAGT
* * *
67539760 ATTTTTTTATAGTAATTTTCAAAAGT
1 ATTTTTTAAAAATAATTTTCAAAAGT
67539786 ATT
1 ATT
67539789 GCCAAACTAG
Statistics
Matches: 25, Mismatches: 4, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
26 25 1.00
ACGTcount: A:0.38, C:0.05, G:0.05, T:0.51
Consensus pattern (26 bp):
ATTTTTTAAAAATAATTTTCAAAAGT
Found at i:67545103 original size:18 final size:19
Alignment explanation
Indices: 67545080--67545117 Score: 51
Period size: 18 Copynumber: 2.1 Consensus size: 19
67545070 TTCATGGATT
*
67545080 AAACATGCTATCA-ATTAC
1 AAACATACTATCATATTAC
*
67545098 AAACATATTATCATATTAC
1 AAACATACTATCATATTAC
67545117 A
1 A
67545118 CATATTGTAC
Statistics
Matches: 17, Mismatches: 2, Indels: 1
0.85 0.10 0.05
Matches are distributed among these distances:
18 11 0.65
19 6 0.35
ACGTcount: A:0.47, C:0.18, G:0.03, T:0.32
Consensus pattern (19 bp):
AAACATACTATCATATTAC
Found at i:67545474 original size:48 final size:43
Alignment explanation
Indices: 67545404--67545562 Score: 124
Period size: 42 Copynumber: 3.6 Consensus size: 43
67545394 GTACATATAC
* * * *
67545404 CGATGCTATATCCCAAATATGGTCTTATACGAAGTCTCATGTCGATGT
1 CGATGCCATGTCCCAGACATGGTCTTATACGAAGTCTCA--TC-A--T
* ** *
67545452 CGATGCCATGTCCTAGACATGGTCTTATACGGGGCCTCA-CAT
1 CGATGCCATGTCCCAGACATGGTCTTATACGAAGTCTCATCAT
* *
67545494 CGATGCCATGTCCCAGACATGGTCTTACACGAAATCTCAT-AT
1 CGATGCCATGTCCCAGACATGGTCTTATACGAAGTCTCATCAT
* * * * *
67545536 CAACGCCATATCCTAGATATGGTCTTA
1 CGATGCCATGTCCCAGACATGGTCTTA
67545563 CATGAAATCA
Statistics
Matches: 91, Mismatches: 19, Indels: 8
0.77 0.16 0.07
Matches are distributed among these distances:
42 58 0.64
44 1 0.01
45 1 0.01
48 31 0.34
ACGTcount: A:0.26, C:0.26, G:0.19, T:0.29
Consensus pattern (43 bp):
CGATGCCATGTCCCAGACATGGTCTTATACGAAGTCTCATCAT
Found at i:67545544 original size:42 final size:42
Alignment explanation
Indices: 67545456--67545576 Score: 125
Period size: 42 Copynumber: 2.9 Consensus size: 42
67545446 CGATGTCGAT
* **** * * *
67545456 GCCATGTCCTAGACATGGTCTTATACGGGGCCTCACATCGAT
1 GCCATGTCCTAGACATGGTCTTACACGAAATCTCATATCAAC
*
67545498 GCCATGTCCCAGACATGGTCTTACACGAAATCTCATATCAAC
1 GCCATGTCCTAGACATGGTCTTACACGAAATCTCATATCAAC
* * * *
67545540 GCCATATCCTAGATATGGTCTTACATGAAATCACATA
1 GCCATGTCCTAGACATGGTCTTACACGAAATCTCATA
67545577 CCGATGCCGA
Statistics
Matches: 65, Mismatches: 14, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
42 65 1.00
ACGTcount: A:0.29, C:0.27, G:0.17, T:0.26
Consensus pattern (42 bp):
GCCATGTCCTAGACATGGTCTTACACGAAATCTCATATCAAC
Found at i:67547773 original size:30 final size:30
Alignment explanation
Indices: 67547739--67547801 Score: 92
Period size: 30 Copynumber: 2.1 Consensus size: 30
67547729 ACTTATTTTA
67547739 TTGTTAATT-TTGTTATTATTTTAAAGGCAT
1 TTGTT-ATTATTGTTATTATTTTAAAGGCAT
* *
67547769 TTGTTATTATTTTTATTATTTTAGAGGCAT
1 TTGTTATTATTGTTATTATTTTAAAGGCAT
67547799 TTG
1 TTG
67547802 CTTGTTAAGT
Statistics
Matches: 30, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
29 3 0.10
30 27 0.90
ACGTcount: A:0.24, C:0.03, G:0.14, T:0.59
Consensus pattern (30 bp):
TTGTTATTATTGTTATTATTTTAAAGGCAT
Found at i:67552214 original size:47 final size:46
Alignment explanation
Indices: 67552014--67552234 Score: 164
Period size: 47 Copynumber: 4.7 Consensus size: 46
67552004 TGGAATAAAT
* * * *
67552014 TGCCGATGCCATGTCCCGGACATGGTCTTATACTAGCTCTCATATATGTG-
1 TGCCGATG-CATGTCCCAGACAT-GTCTTACACTAG--C-CATCTCTGTGA
* * * *
67552064 TGCTGATACATGTCCCAGACATGTCTTACACTAGTACAACTCT-T-A
1 TGCCGATGCATGTCCCAGACATGTCTTACACTAG-CCATCTCTGTGA
* * * * *
67552109 -GCCGATGCGTGTCCCAGACACGTCTTACACTGGCTATCTTTGTCGA
1 TGCCGATGCATGTCCCAGACATGTCTTACACTAGCCATCTCTGT-GA
* * *
67552155 GGCCAATGCATGTCCCAGACATGTCTTACACTAGCCCTCGTCTG-GA
1 TGCCGATGCATGTCCCAGACATGTCTTACACTAGCCATC-TCTGTGA
*
67552201 TGCCGATGCCATGTCTCAGACATGGTCTTACACT
1 TGCCGATG-CATGTCCCAGACAT-GTCTTACACT
67552235 GGCTCACAAA
Statistics
Matches: 136, Mismatches: 27, Indels: 18
0.75 0.15 0.10
Matches are distributed among these distances:
43 4 0.03
44 29 0.21
45 1 0.01
46 13 0.10
47 46 0.34
48 24 0.18
49 13 0.10
50 6 0.04
ACGTcount: A:0.22, C:0.29, G:0.20, T:0.29
Consensus pattern (46 bp):
TGCCGATGCATGTCCCAGACATGTCTTACACTAGCCATCTCTGTGA
Found at i:67553752 original size:40 final size:40
Alignment explanation
Indices: 67553690--67553907 Score: 332
Period size: 40 Copynumber: 5.5 Consensus size: 40
67553680 AAGCCAAGTA
* * * * *
67553690 CCTTCGGGATTTA-ACCGGATATAGCT-ACTCGCTCGATTG
1 CCTTCGGGACTTAGCCCGGATATAG-TAACTCGCACAAATG
* *
67553729 CCTTCGGGACATAGCCCGGATATAGTAACTCGCACCAATG
1 CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATG
* *
67553769 CCTTCGGGACTTAGCCTGGATATAGTAACTCGCACCAATG
1 CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATG
67553809 CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATG
1 CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATG
67553849 CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATG
1 CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATG
67553889 CCTTCGGGACTTAGCCCGG
1 CCTTCGGGACTTAGCCCGG
67553908 TTATCATCCA
Statistics
Matches: 167, Mismatches: 10, Indels: 3
0.93 0.06 0.02
Matches are distributed among these distances:
39 12 0.07
40 155 0.93
ACGTcount: A:0.24, C:0.28, G:0.23, T:0.24
Consensus pattern (40 bp):
CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATG
Found at i:67556395 original size:12 final size:12
Alignment explanation
Indices: 67556378--67556402 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
67556368 TAAAAATGTA
67556378 AAAATCATCAAG
1 AAAATCATCAAG
67556390 AAAATCATCAAG
1 AAAATCATCAAG
67556402 A
1 A
67556403 TCACTTACAT
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:0.60, C:0.16, G:0.08, T:0.16
Consensus pattern (12 bp):
AAAATCATCAAG
Found at i:67560451 original size:6 final size:6
Alignment explanation
Indices: 67560433--67560520 Score: 83
Period size: 6 Copynumber: 14.3 Consensus size: 6
67560423 AAGAAACATT
*
67560433 ATCAGA A-CTAGA ATCAGA ATCAGA ATCAGA ATCAG- GTGACAGA ATCAGA
1 ATCAGA ATC-AGA ATCAGA ATCAGA ATCAGA ATCAGA AT--CAGA ATCAGA
* *
67560482 ATCAGA ATCAGT ATCAGGTA A-CAGA ATCAAA ATCAGA AT
1 ATCAGA ATCAGA ATCA-G-A ATCAGA ATCAGA ATCAGA AT
67560521 GTGAATGCAA
Statistics
Matches: 68, Mismatches: 6, Indels: 16
0.76 0.07 0.18
Matches are distributed among these distances:
5 4 0.06
6 55 0.81
7 7 0.10
8 2 0.03
ACGTcount: A:0.48, C:0.16, G:0.18, T:0.18
Consensus pattern (6 bp):
ATCAGA
Found at i:67560454 original size:18 final size:18
Alignment explanation
Indices: 67560433--67560520 Score: 83
Period size: 19 Copynumber: 4.8 Consensus size: 18
67560423 AAGAAACATT
67560433 ATCAGAA-CTAGAATCAGA
1 ATCAGAATC-AGAATCAGA
67560451 ATCAGAATCAGAATCAG-
1 ATCAGAATCAGAATCAGA
*
67560468 GTGACAGAATCAGAATCAGA
1 AT--CAGAATCAGAATCAGA
*
67560488 ATCAGTATCAGGTAA-CAGA
1 ATCAGAATCA-G-AATCAGA
*
67560507 ATCAAAATCAGAAT
1 ATCAGAATCAGAAT
67560521 GTGAATGCAA
Statistics
Matches: 58, Mismatches: 5, Indels: 14
0.75 0.06 0.18
Matches are distributed among these distances:
17 3 0.05
18 23 0.40
19 29 0.50
20 3 0.05
ACGTcount: A:0.48, C:0.16, G:0.18, T:0.18
Consensus pattern (18 bp):
ATCAGAATCAGAATCAGA
Found at i:67560480 original size:31 final size:31
Alignment explanation
Indices: 67560442--67560520 Score: 131
Period size: 31 Copynumber: 2.5 Consensus size: 31
67560432 TATCAGAACT
*
67560442 AGAATCAGAATCAGAATCAGAATCAGGTGAC
1 AGAATCAGAATCAGAATCAGAATCAGGTAAC
*
67560473 AGAATCAGAATCAGAATCAGTATCAGGTAAC
1 AGAATCAGAATCAGAATCAGAATCAGGTAAC
*
67560504 AGAATCAAAATCAGAAT
1 AGAATCAGAATCAGAAT
67560521 GTGAATGCAA
Statistics
Matches: 45, Mismatches: 3, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
31 45 1.00
ACGTcount: A:0.48, C:0.15, G:0.19, T:0.18
Consensus pattern (31 bp):
AGAATCAGAATCAGAATCAGAATCAGGTAAC
Found at i:67560510 original size:25 final size:24
Alignment explanation
Indices: 67560447--67560493 Score: 85
Period size: 25 Copynumber: 1.9 Consensus size: 24
67560437 GAACTAGAAT
67560447 CAGAATCAGAATCAGAATCAGGTGA
1 CAGAATCAGAATCAGAATCA-GTGA
67560472 CAGAATCAGAATCAGAATCAGT
1 CAGAATCAGAATCAGAATCAGT
67560494 ATCAGGTAAC
Statistics
Matches: 22, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
24 2 0.09
25 20 0.91
ACGTcount: A:0.45, C:0.17, G:0.21, T:0.17
Consensus pattern (24 bp):
CAGAATCAGAATCAGAATCAGTGA
Found at i:67560688 original size:27 final size:26
Alignment explanation
Indices: 67560640--67560699 Score: 66
Period size: 27 Copynumber: 2.3 Consensus size: 26
67560630 GCGAGGCTGC
*
67560640 CAGATATTGTGACGAAGTCACCAGATA
1 CAGATATTGTGACGAAGCCACCAGA-A
* * *
67560667 CAGATATTGTGGCTAGGCCACCAGAA
1 CAGATATTGTGACGAAGCCACCAGAA
*
67560693 CATATAT
1 CAGATAT
67560700 GTAACACCCC
Statistics
Matches: 28, Mismatches: 5, Indels: 1
0.82 0.15 0.03
Matches are distributed among these distances:
26 7 0.25
27 21 0.75
ACGTcount: A:0.35, C:0.20, G:0.22, T:0.23
Consensus pattern (26 bp):
CAGATATTGTGACGAAGCCACCAGAA
Found at i:67562111 original size:40 final size:40
Alignment explanation
Indices: 67562064--67562290 Score: 391
Period size: 40 Copynumber: 5.7 Consensus size: 40
67562054 CAAGCATAAT
** * *
67562064 TGCCTTCGGGTCTTAGCCCGGGCATAGCAACTCGCACGAA
1 TGCCTTCGGGTCTTAGCCCGGATATATCAACTCGCACAAA
* *
67562104 TGCCTTCGGGTCTTAGCCCGGATATATCAACTTGCACAAT
1 TGCCTTCGGGTCTTAGCCCGGATATATCAACTCGCACAAA
67562144 TGCCTTCGGGTCTTAGCCCGGATATATCAACTCGCACAAA
1 TGCCTTCGGGTCTTAGCCCGGATATATCAACTCGCACAAA
67562184 TGCCTTCGGGTCTTAGCCCGGATATATCAACTCGCACAAA
1 TGCCTTCGGGTCTTAGCCCGGATATATCAACTCGCACAAA
*
67562224 TGCCTGCGGGTCTTAGCCCGGATATATCAACTCGCACAAA
1 TGCCTTCGGGTCTTAGCCCGGATATATCAACTCGCACAAA
67562264 TGCCTTCGGGTCTTAGCCCGGATATAT
1 TGCCTTCGGGTCTTAGCCCGGATATAT
67562291 ATACAAATGC
Statistics
Matches: 177, Mismatches: 10, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
40 177 1.00
ACGTcount: A:0.22, C:0.30, G:0.22, T:0.26
Consensus pattern (40 bp):
TGCCTTCGGGTCTTAGCCCGGATATATCAACTCGCACAAA
Found at i:67570430 original size:40 final size:40
Alignment explanation
Indices: 67570376--67570649 Score: 442
Period size: 40 Copynumber: 6.8 Consensus size: 40
67570366 ATTACCACAA
* * *
67570376 GCACAATTGCCTTCGGGTCTTAGCCCGCG-CATAGCAACTC
1 GCACAAATGCCTTCGGGTCTTAGCCCG-GATATATCAACTC
* *
67570416 GCACGAATGCCTTCGGGTCTTAGCCCGGATATATCAACTT
1 GCACAAATGCCTTCGGGTCTTAGCCCGGATATATCAACTC
*
67570456 GCACAATTGCCTTCGGGTCTTAGCCCGGATATATCAACTC
1 GCACAAATGCCTTCGGGTCTTAGCCCGGATATATCAACTC
*
67570496 GCACAAATGCCTGCGGGTCTTAGCCCGGATATATCAACTC
1 GCACAAATGCCTTCGGGTCTTAGCCCGGATATATCAACTC
* *
67570536 ACACAAATGACTTCGGGTCTTAGCCCGGATATATCAACTC
1 GCACAAATGCCTTCGGGTCTTAGCCCGGATATATCAACTC
*
67570576 GCACAAATGCCTGCGGGTCTTAGCCCGGATATATCAACTC
1 GCACAAATGCCTTCGGGTCTTAGCCCGGATATATCAACTC
67570616 GCACAAATGCCTTCGGGTCTTAGCCCGGATATAT
1 GCACAAATGCCTTCGGGTCTTAGCCCGGATATAT
67570650 ATACAAATGC
Statistics
Matches: 216, Mismatches: 17, Indels: 2
0.92 0.07 0.01
Matches are distributed among these distances:
39 1 0.00
40 215 1.00
ACGTcount: A:0.24, C:0.30, G:0.22, T:0.25
Consensus pattern (40 bp):
GCACAAATGCCTTCGGGTCTTAGCCCGGATATATCAACTC
Found at i:67578795 original size:20 final size:20
Alignment explanation
Indices: 67578772--67578819 Score: 60
Period size: 20 Copynumber: 2.4 Consensus size: 20
67578762 AAATTCAAAT
67578772 TAAAATACTAAAATTCAGGA
1 TAAAATACTAAAATTCAGGA
* * *
67578792 TAAACTCCTGAAATTCAGGA
1 TAAAATACTAAAATTCAGGA
67578812 TAAGAATA
1 TAA-AATA
67578820 TTAATGTGGC
Statistics
Matches: 22, Mismatches: 5, Indels: 1
0.79 0.18 0.04
Matches are distributed among these distances:
20 20 0.91
21 2 0.09
ACGTcount: A:0.50, C:0.12, G:0.12, T:0.25
Consensus pattern (20 bp):
TAAAATACTAAAATTCAGGA
Found at i:67585400 original size:47 final size:47
Alignment explanation
Indices: 67585346--67585492 Score: 195
Period size: 47 Copynumber: 3.1 Consensus size: 47
67585336 TTAGGATTGT
* * *
67585346 ATGTGATGAATGTGAATGTGTATATATGAGATAAGGCCGAATGGCCA
1 ATGTGATGAATGTGAATATGCATATATGTGATAAGGCCGAATGGCCA
** *
67585393 ATGTGATGAATGTGAGCATGCATATGTGTGATAAGGCCGAATGGCCA
1 ATGTGATGAATGTGAATATGCATATATGTGATAAGGCCGAATGGCCA
* * * * *
67585440 ATGTGATGAATATGAATATGCATATATGTGGTAAAGTCGAATGGCTA
1 ATGTGATGAATGTGAATATGCATATATGTGATAAGGCCGAATGGCCA
67585487 ATGTGA
1 ATGTGA
67585493 AATATGTATG
Statistics
Matches: 86, Mismatches: 14, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
47 86 1.00
ACGTcount: A:0.33, C:0.09, G:0.29, T:0.29
Consensus pattern (47 bp):
ATGTGATGAATGTGAATATGCATATATGTGATAAGGCCGAATGGCCA
Found at i:67585807 original size:37 final size:37
Alignment explanation
Indices: 67585699--67585807 Score: 182
Period size: 37 Copynumber: 2.9 Consensus size: 37
67585689 GGAAATATAT
*
67585699 TCCGGGTAAGACCCGATGACTACGTGTGGAGATTATG
1 TCCGGGTAAGACCCGATGACTACGTGTGGAGATTTTG
67585736 TCCGGGTAAGACCCGATGACTACGTGTGGAGATTTTG
1 TCCGGGTAAGACCCGATGACTACGTGTGGAGATTTTG
* * *
67585773 TCCGAGTAAGACCCGATAACTTCGTGTGGAGATTT
1 TCCGGGTAAGACCCGATGACTACGTGTGGAGATTT
67585808 CGTCTGAGCT
Statistics
Matches: 68, Mismatches: 4, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
37 68 1.00
ACGTcount: A:0.24, C:0.19, G:0.30, T:0.27
Consensus pattern (37 bp):
TCCGGGTAAGACCCGATGACTACGTGTGGAGATTTTG
Found at i:67586956 original size:46 final size:47
Alignment explanation
Indices: 67586794--67586966 Score: 176
Period size: 46 Copynumber: 3.7 Consensus size: 47
67586784 AACCCGCCCC
* * * * *
67586794 TAAGTGAACTCGGACTCAACTCAATGAGCTC-AAGCGTTCGCATCCA
1 TAAGTGAACTCGGACTCAACTCAACGAGTTCGGAGCATTTGCATCCA
* * * * *
67586840 TAAATGAACTTGGATTCAACTCAACGAGTTCGGATGCGTAGTTACAT-C-
1 TAAGTGAACTCGGACTCAACTCAACGAGTTCGGA-GC--ATTTGCATCCA
* *
67586888 TCA-CGAACTCGGACTCAACTCAACGAGTTCGGA-CATTTGCATCCA
1 TAAGTGAACTCGGACTCAACTCAACGAGTTCGGAGCATTTGCATCCA
67586933 TAAGTGAACTCGGACTCAACTCAACGAGTTCGGA
1 TAAGTGAACTCGGACTCAACTCAACGAGTTCGGA
67586967 TGCTCAACCA
Statistics
Matches: 102, Mismatches: 18, Indels: 14
0.76 0.13 0.10
Matches are distributed among these distances:
43 6 0.06
44 1 0.01
45 3 0.03
46 55 0.54
47 28 0.27
48 4 0.04
49 1 0.01
50 4 0.04
ACGTcount: A:0.31, C:0.25, G:0.20, T:0.24
Consensus pattern (47 bp):
TAAGTGAACTCGGACTCAACTCAACGAGTTCGGAGCATTTGCATCCA
Found at i:67586958 original size:93 final size:93
Alignment explanation
Indices: 67586799--67586969 Score: 254
Period size: 93 Copynumber: 1.8 Consensus size: 93
67586789 GCCCCTAAGT
* * * *
67586799 GAACTCGGACTCAACTCAATGAGCTCAAGCGTTCGCATCCATAAATGAACTTGGATTCAACTCAA
1 GAACTCGGACTCAACTCAACGAGCTCAAGCATTCGCATCCATAAATGAACTCGGACTCAACTCAA
67586864 CGAGTTCGGATGCGTAGTTACATCTCAC
66 CGAGTTCGGATGCGTAGTTACATCTCAC
* * * *
67586892 GAACTCGGACTCAACTCAACGAGTTC-GGACATTTGCATCCATAAGTGAACTCGGACTCAACTCA
1 GAACTCGGACTCAACTCAACGAGCTCAAG-CATTCGCATCCATAAATGAACTCGGACTCAACTCA
67586956 ACGAGTTCGGATGC
65 ACGAGTTCGGATGC
67586970 TCAACCATCC
Statistics
Matches: 69, Mismatches: 8, Indels: 2
0.87 0.10 0.03
Matches are distributed among these distances:
92 1 0.01
93 68 0.99
ACGTcount: A:0.30, C:0.26, G:0.20, T:0.23
Consensus pattern (93 bp):
GAACTCGGACTCAACTCAACGAGCTCAAGCATTCGCATCCATAAATGAACTCGGACTCAACTCAA
CGAGTTCGGATGCGTAGTTACATCTCAC
Found at i:67587423 original size:30 final size:30
Alignment explanation
Indices: 67587389--67587448 Score: 84
Period size: 30 Copynumber: 2.0 Consensus size: 30
67587379 ATTTAATACG
67587389 AACTTTAAAAAAATTACACTTTTGCCCCTA
1 AACTTTAAAAAAATTACACTTTTGCCCCTA
*** *
67587419 AACTTTTGCATAATTACACTTTTGCCCCTA
1 AACTTTAAAAAAATTACACTTTTGCCCCTA
67587449 GGCTCGGGAA
Statistics
Matches: 26, Mismatches: 4, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
30 26 1.00
ACGTcount: A:0.33, C:0.25, G:0.05, T:0.37
Consensus pattern (30 bp):
AACTTTAAAAAAATTACACTTTTGCCCCTA
Found at i:67596228 original size:22 final size:19
Alignment explanation
Indices: 67596203--67596244 Score: 57
Period size: 22 Copynumber: 2.1 Consensus size: 19
67596193 TGCTAATAAC
67596203 TAATATATAATTATATTTATTA
1 TAATATAT-ATTA-A-TTATTA
67596225 TAATATATATTAATTATTA
1 TAATATATATTAATTATTA
67596244 T
1 T
67596245 CAACTTTGCA
Statistics
Matches: 20, Mismatches: 0, Indels: 3
0.87 0.00 0.13
Matches are distributed among these distances:
19 7 0.35
20 1 0.05
21 4 0.20
22 8 0.40
ACGTcount: A:0.45, C:0.00, G:0.00, T:0.55
Consensus pattern (19 bp):
TAATATATATTAATTATTA
Found at i:67596235 original size:16 final size:15
Alignment explanation
Indices: 67596203--67596241 Score: 51
Period size: 16 Copynumber: 2.5 Consensus size: 15
67596193 TGCTAATAAC
67596203 TAATATATAATTATAT
1 TAAT-TATAATTATAT
*
67596219 TTATTATAATATATAT
1 TAATTATAAT-TATAT
67596235 TAATTAT
1 TAATTAT
67596242 TATCAACTTT
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
15 6 0.30
16 14 0.70
ACGTcount: A:0.46, C:0.00, G:0.00, T:0.54
Consensus pattern (15 bp):
TAATTATAATTATAT
Found at i:67597309 original size:29 final size:29
Alignment explanation
Indices: 67597276--67597333 Score: 107
Period size: 29 Copynumber: 2.0 Consensus size: 29
67597266 ATGACCTAGG
67597276 GCAGATGAAGACTTAGTTCATGAATTTTA
1 GCAGATGAAGACTTAGTTCATGAATTTTA
*
67597305 GCAGATGAAGAGTTAGTTCATGAATTTTA
1 GCAGATGAAGACTTAGTTCATGAATTTTA
67597334 TGTGAATTTA
Statistics
Matches: 28, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
29 28 1.00
ACGTcount: A:0.34, C:0.09, G:0.22, T:0.34
Consensus pattern (29 bp):
GCAGATGAAGACTTAGTTCATGAATTTTA
Found at i:67599664 original size:18 final size:18
Alignment explanation
Indices: 67599638--67599678 Score: 64
Period size: 18 Copynumber: 2.3 Consensus size: 18
67599628 CATAATTTTG
*
67599638 GGAAGAATGTTTTCTAAA
1 GGAATAATGTTTTCTAAA
*
67599656 GGAATAATGTTTTCTGAA
1 GGAATAATGTTTTCTAAA
67599674 GGAAT
1 GGAAT
67599679 TTTTCAAAGG
Statistics
Matches: 21, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
18 21 1.00
ACGTcount: A:0.37, C:0.05, G:0.24, T:0.34
Consensus pattern (18 bp):
GGAATAATGTTTTCTAAA
Found at i:67603875 original size:18 final size:18
Alignment explanation
Indices: 67603849--67603894 Score: 56
Period size: 19 Copynumber: 2.5 Consensus size: 18
67603839 AATATATAGA
*
67603849 ATAACATTTGCATAAAGT
1 ATAAAATTTGCATAAAGT
*
67603867 ATAAAATTTTGTATAAAGT
1 ATAAAA-TTTGCATAAAGT
*
67603886 ATGAAATTT
1 ATAAAATTT
67603895 ATACATTTTG
Statistics
Matches: 24, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
18 8 0.33
19 16 0.67
ACGTcount: A:0.46, C:0.04, G:0.11, T:0.39
Consensus pattern (18 bp):
ATAAAATTTGCATAAAGT
Found at i:67603882 original size:19 final size:19
Alignment explanation
Indices: 67603855--67603894 Score: 62
Period size: 19 Copynumber: 2.1 Consensus size: 19
67603845 TAGAATAACA
67603855 TTTGCATAAAGTATAAAAT
1 TTTGCATAAAGTATAAAAT
* *
67603874 TTTGTATAAAGTATGAAAT
1 TTTGCATAAAGTATAAAAT
67603893 TT
1 TT
67603895 ATACATTTTG
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
19 19 1.00
ACGTcount: A:0.42, C:0.03, G:0.12, T:0.42
Consensus pattern (19 bp):
TTTGCATAAAGTATAAAAT
Found at i:67608865 original size:46 final size:45
Alignment explanation
Indices: 67608815--67608990 Score: 194
Period size: 46 Copynumber: 3.8 Consensus size: 45
67608805 TGGTTGATCA
*
67608815 TCCGAACTCGTTGAGTTGAGTTCGAGTTCACTTATGGATGCGAATG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAA-G
*** * *
67608861 TCCGAACTCGTTGAGTTGAGTCCGAGTTCGAGAGATGTAACTAG-GCA-
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTC-ACTTATG-GA-T-GCGAAG
* *
67608908 TCCGAGCTTGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAA-G
* *
67608954 CCCGAGCTCGTTGAGTTGAGTCCGAGTTCACTTATGG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGG
67608991 GCGGGTTACA
Statistics
Matches: 108, Mismatches: 15, Indels: 14
0.79 0.11 0.10
Matches are distributed among these distances:
43 1 0.01
44 3 0.03
45 1 0.01
46 67 0.62
47 31 0.29
48 1 0.01
49 3 0.03
50 1 0.01
ACGTcount: A:0.21, C:0.20, G:0.30, T:0.30
Consensus pattern (45 bp):
TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAAG
Found at i:67608972 original size:93 final size:93
Alignment explanation
Indices: 67608813--67608982 Score: 286
Period size: 93 Copynumber: 1.8 Consensus size: 93
67608803 GATGGTTGAT
* * *
67608813 CATCCGAACTCGTTGAGTTGAGTTCGAGTTCACTTATGGATGCGAATGTCCGAACTCGTTGAGTT
1 CATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAACTCGTTGAGTT
67608878 GAGTCCGAGTTCGAGAGATGTAACTAGG
66 GAGTCCGAGTTCGAGAGATGTAACTAGG
* * *
67608906 CATCCGAGCTTGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAGCTCGTTGAGTT
1 CATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAACTCGTTGAGTT
67608971 GAGTCCGAGTTC
66 GAGTCCGAGTTC
67608983 ACTTATGGGC
Statistics
Matches: 71, Mismatches: 6, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
93 71 1.00
ACGTcount: A:0.21, C:0.21, G:0.29, T:0.29
Consensus pattern (93 bp):
CATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAACTCGTTGAGTT
GAGTCCGAGTTCGAGAGATGTAACTAGG
Found at i:67618187 original size:28 final size:26
Alignment explanation
Indices: 67618150--67618202 Score: 70
Period size: 26 Copynumber: 2.0 Consensus size: 26
67618140 TCACTAAAGT
67618150 TTTGACGAGCTAAGGGTTCACTAGTCTA
1 TTTGACGAGCT--GGGTTCACTAGTCTA
* *
67618178 TTTGGCGAGCTGGGTTCGCTAGTCT
1 TTTGACGAGCTGGGTTCACTAGTCT
67618203 GTGTGGTGAC
Statistics
Matches: 23, Mismatches: 2, Indels: 2
0.85 0.07 0.07
Matches are distributed among these distances:
26 13 0.57
28 10 0.43
ACGTcount: A:0.17, C:0.19, G:0.30, T:0.34
Consensus pattern (26 bp):
TTTGACGAGCTGGGTTCACTAGTCTA
Found at i:67618216 original size:26 final size:26
Alignment explanation
Indices: 67618163--67618219 Score: 69
Period size: 26 Copynumber: 2.2 Consensus size: 26
67618153 GACGAGCTAA
* *
67618163 GGGTTCACTAGTCTATTTGGCGAGCT
1 GGGTTCACTAGTCTATGTGGCGACCT
* * *
67618189 GGGTTCGCTAGTCTGTGTGGTGACCT
1 GGGTTCACTAGTCTATGTGGCGACCT
67618215 GGGTT
1 GGGTT
67618220 GGCCAGGTAA
Statistics
Matches: 26, Mismatches: 5, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
26 26 1.00
ACGTcount: A:0.11, C:0.18, G:0.37, T:0.35
Consensus pattern (26 bp):
GGGTTCACTAGTCTATGTGGCGACCT
Found at i:67625403 original size:80 final size:81
Alignment explanation
Indices: 67625287--67625472 Score: 222
Period size: 80 Copynumber: 2.3 Consensus size: 81
67625277 AGTAACTCAT
* ** *
67625287 ACAATGCCTTCGGGACTTAACCCGG-ATTTTTAAACTCGCACGAATGCCTTCGGGA-CTTAACCC
1 ACAAAGCCTTCGGGACTTAACCCGGAATTAATAAACTCGCACAAATGCCTTC-GGATCTTAACCC
*
67625350 GGA-ATTAGT-A-TCTCGC
65 GGATA-TAGTCACT-TAGC
**
67625366 ACAAAGGCCTTCGGGACTTAACCCGGAATTAAT-AACTCGCACAAATGCCTTCGGATCTTAGTCC
1 ACAAA-GCCTTCGGGACTTAACCCGGAATTAATAAACTCGCACAAATGCCTTCGGATCTTAACCC
67625430 GGATATAGTCACTTAGC
65 GGATATAGTCACTTAGC
*
67625447 ACAAAGCCTTCGGGACTTAGCCCGGA
1 ACAAAGCCTTCGGGACTTAACCCGGA
67625473 CAGCATTCAA
Statistics
Matches: 93, Mismatches: 8, Indels: 11
0.83 0.07 0.10
Matches are distributed among these distances:
79 7 0.08
80 71 0.76
81 14 0.15
82 1 0.01
ACGTcount: A:0.27, C:0.27, G:0.21, T:0.24
Consensus pattern (81 bp):
ACAAAGCCTTCGGGACTTAACCCGGAATTAATAAACTCGCACAAATGCCTTCGGATCTTAACCCG
GATATAGTCACTTAGC
Found at i:67625432 original size:40 final size:40
Alignment explanation
Indices: 67625289--67625472 Score: 196
Period size: 40 Copynumber: 4.6 Consensus size: 40
67625279 TAACTCATAC
** *
67625289 AATGCCTTCGGGACTTAACCCGG-ATTTTTAAACTCGCACG
1 AATGCCTTCGGGACTTAACCCGGAATTAAT-AACTCGCACA
* *
67625329 AATGCCTTCGGGACTTAACCCGGAATTAGTATCTCGCACA
1 AATGCCTTCGGGACTTAACCCGGAATTAATAACTCGCACA
*
67625369 AAGGCCTTCGGGACTTAACCCGGAATTAATAACTCGCACA
1 AATGCCTTCGGGACTTAACCCGGAATTAATAACTCGCACA
** * * *
67625409 AATGCCTTC-GGATCTTAGTCCGG-ATATAGTCACTTAGCACA
1 AATGCCTTCGGGA-CTTAACCCGGAAT-TAATAAC-TCGCACA
*
67625450 AA-GCCTTCGGGACTTAGCCCGGA
1 AATGCCTTCGGGACTTAACCCGGA
67625473 CAGCATTCAA
Statistics
Matches: 124, Mismatches: 14, Indels: 11
0.83 0.09 0.07
Matches are distributed among these distances:
39 5 0.04
40 104 0.84
41 15 0.12
ACGTcount: A:0.27, C:0.27, G:0.21, T:0.24
Consensus pattern (40 bp):
AATGCCTTCGGGACTTAACCCGGAATTAATAACTCGCACA
Found at i:67633167 original size:80 final size:81
Alignment explanation
Indices: 67633051--67633236 Score: 222
Period size: 80 Copynumber: 2.3 Consensus size: 81
67633041 AGTAACTCAT
* ** *
67633051 ACAATGCCTTCGGGACTTAACCCGG-ATTTTTAAACTCGCACGAATGCCTTCGGGA-CTTAACCC
1 ACAAAGCCTTCGGGACTTAACCCGGAATTAATAAACTCGCACAAATGCCTTC-GGATCTTAACCC
*
67633114 GGA-ATTAGT-A-TCTCGC
65 GGATA-TAGTCACT-TAGC
**
67633130 ACAAAGGCCTTCGGGACTTAACCCGGAATTAAT-AACTCGCACAAATGCCTTCGGATCTTAGTCC
1 ACAAA-GCCTTCGGGACTTAACCCGGAATTAATAAACTCGCACAAATGCCTTCGGATCTTAACCC
67633194 GGATATAGTCACTTAGC
65 GGATATAGTCACTTAGC
*
67633211 ACAAAGCCTTCGGGACTTAGCCCGGA
1 ACAAAGCCTTCGGGACTTAACCCGGA
67633237 CAGCATTCAA
Statistics
Matches: 93, Mismatches: 8, Indels: 11
0.83 0.07 0.10
Matches are distributed among these distances:
79 7 0.08
80 71 0.76
81 14 0.15
82 1 0.01
ACGTcount: A:0.27, C:0.27, G:0.21, T:0.24
Consensus pattern (81 bp):
ACAAAGCCTTCGGGACTTAACCCGGAATTAATAAACTCGCACAAATGCCTTCGGATCTTAACCCG
GATATAGTCACTTAGC
Found at i:67633196 original size:40 final size:40
Alignment explanation
Indices: 67633053--67633236 Score: 196
Period size: 40 Copynumber: 4.6 Consensus size: 40
67633043 TAACTCATAC
** *
67633053 AATGCCTTCGGGACTTAACCCGG-ATTTTTAAACTCGCACG
1 AATGCCTTCGGGACTTAACCCGGAATTAAT-AACTCGCACA
* *
67633093 AATGCCTTCGGGACTTAACCCGGAATTAGTATCTCGCACA
1 AATGCCTTCGGGACTTAACCCGGAATTAATAACTCGCACA
*
67633133 AAGGCCTTCGGGACTTAACCCGGAATTAATAACTCGCACA
1 AATGCCTTCGGGACTTAACCCGGAATTAATAACTCGCACA
** * * *
67633173 AATGCCTTC-GGATCTTAGTCCGG-ATATAGTCACTTAGCACA
1 AATGCCTTCGGGA-CTTAACCCGGAAT-TAATAAC-TCGCACA
*
67633214 AA-GCCTTCGGGACTTAGCCCGGA
1 AATGCCTTCGGGACTTAACCCGGA
67633237 CAGCATTCAA
Statistics
Matches: 124, Mismatches: 14, Indels: 11
0.83 0.09 0.07
Matches are distributed among these distances:
39 5 0.04
40 104 0.84
41 15 0.12
ACGTcount: A:0.27, C:0.27, G:0.21, T:0.24
Consensus pattern (40 bp):
AATGCCTTCGGGACTTAACCCGGAATTAATAACTCGCACA
Found at i:67639879 original size:14 final size:14
Alignment explanation
Indices: 67639860--67639886 Score: 54
Period size: 14 Copynumber: 1.9 Consensus size: 14
67639850 TGCGAGTTCC
67639860 TTTTAAAAGAAAGT
1 TTTTAAAAGAAAGT
67639874 TTTTAAAAGAAAG
1 TTTTAAAAGAAAG
67639887 GATTTCTAGG
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 13 1.00
ACGTcount: A:0.52, C:0.00, G:0.15, T:0.33
Consensus pattern (14 bp):
TTTTAAAAGAAAGT
Found at i:67641330 original size:18 final size:18
Alignment explanation
Indices: 67641307--67641341 Score: 52
Period size: 18 Copynumber: 1.9 Consensus size: 18
67641297 TTTACTATGT
67641307 AAATTAATAAATTAGATG
1 AAATTAATAAATTAGATG
* *
67641325 AAATTATTAAGTTAGAT
1 AAATTAATAAATTAGAT
67641342 CAAGATCGAG
Statistics
Matches: 15, Mismatches: 2, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
18 15 1.00
ACGTcount: A:0.51, C:0.00, G:0.11, T:0.37
Consensus pattern (18 bp):
AAATTAATAAATTAGATG
Found at i:67641674 original size:45 final size:45
Alignment explanation
Indices: 67641563--67641733 Score: 229
Period size: 45 Copynumber: 3.8 Consensus size: 45
67641553 ATACTAGAAA
*
67641563 CGAGTAAGACCATGACTAAAAGACGTTATGGCATTACTATT-TAT
1 CGAGTAAGACCATGACTAAAAGACGTTATGGCATCACTATTCTAT
* * * *
67641607 AGAGTAAGACCATGACTGAAAGATGTTATGGTATCACTATTCTAT
1 CGAGTAAGACCATGACTAAAAGACGTTATGGCATCACTATTCTAT
* *
67641652 CGAGTAAGACCATGACTAAAAGACATTATGGCATCACGATTCTAT
1 CGAGTAAGACCATGACTAAAAGACGTTATGGCATCACTATTCTAT
* * *
67641697 TGAGTAAGACCAT-AGCTGAAAGACGCTATGGCATCAC
1 CGAGTAAGACCATGA-CTAAAAGACGTTATGGCATCAC
67641734 GAATCAAAGG
Statistics
Matches: 110, Mismatches: 15, Indels: 3
0.86 0.12 0.02
Matches are distributed among these distances:
44 37 0.34
45 73 0.66
ACGTcount: A:0.36, C:0.18, G:0.20, T:0.26
Consensus pattern (45 bp):
CGAGTAAGACCATGACTAAAAGACGTTATGGCATCACTATTCTAT
Found at i:67641681 original size:89 final size:90
Alignment explanation
Indices: 67641563--67641733 Score: 256
Period size: 89 Copynumber: 1.9 Consensus size: 90
67641553 ATACTAGAAA
* * *
67641563 CGAGTAAGACCATGACTAAAAGACGTTATGGCATTACTATT-TATAGAGTAAGACCAT-GACTGA
1 CGAGTAAGACCATGACTAAAAGACATTATGGCATCACGATTCTATAGAGTAAGACCATAG-CTGA
* * *
67641626 AAGATGTTATGGTATCACTATTCTAT
65 AAGACGCTATGGCATCACTATTCTAT
*
67641652 CGAGTAAGACCATGACTAAAAGACATTATGGCATCACGATTCTATTGAGTAAGACCATAGCTGAA
1 CGAGTAAGACCATGACTAAAAGACATTATGGCATCACGATTCTATAGAGTAAGACCATAGCTGAA
67641717 AGACGCTATGGCATCAC
66 AGACGCTATGGCATCAC
67641734 GAATCAAAGG
Statistics
Matches: 73, Mismatches: 7, Indels: 3
0.88 0.08 0.04
Matches are distributed among these distances:
89 38 0.52
90 34 0.47
91 1 0.01
ACGTcount: A:0.36, C:0.18, G:0.20, T:0.26
Consensus pattern (90 bp):
CGAGTAAGACCATGACTAAAAGACATTATGGCATCACGATTCTATAGAGTAAGACCATAGCTGAA
AGACGCTATGGCATCACTATTCTAT
Found at i:67641750 original size:45 final size:44
Alignment explanation
Indices: 67641656--67641825 Score: 135
Period size: 45 Copynumber: 3.7 Consensus size: 44
67641646 TTCTATCGAG
* * * * ** *
67641656 TAAGACCATGACTAAAAGACATTATGGCATCACGATTCTATTGAG
1 TAAGACCATG-CTGAAAGACACTATGGCATCACGAATCAAAGGAA
*
67641701 TAAGACCATAGCTGAAAGACGCTATGGCATCACGAATCAAAGGAA
1 TAAGACCAT-GCTGAAAGACACTATGGCATCACGAATCAAAGGAA
* * * *
67641746 TAAGACTATGGTTGAAAGACACTATGGCAACTCGACGGAA-AAAATGAA
1 TAAGACCAT-GCTGAAAGACACTATGGC-A-TC-AC-GAATCAAAGGAA
* *
67641794 TAAGACCATGATTGAAAGACACTGTGGCATCA
1 TAAGACCATG-CTGAAAGACACTATGGCATCA
67641826 AGACGAGAAT
Statistics
Matches: 103, Mismatches: 16, Indels: 12
0.79 0.12 0.09
Matches are distributed among these distances:
45 60 0.58
46 4 0.04
47 4 0.04
48 32 0.31
49 3 0.03
ACGTcount: A:0.41, C:0.18, G:0.21, T:0.21
Consensus pattern (44 bp):
TAAGACCATGCTGAAAGACACTATGGCATCACGAATCAAAGGAA
Found at i:67641750 original size:90 final size:89
Alignment explanation
Indices: 67641560--67641774 Score: 234
Period size: 90 Copynumber: 2.4 Consensus size: 89
67641550 ACCATACTAG
* * * *
67641560 AAACGAGTAAGACCATGACTAAAAGACGTTATGGCATTACTATTTATAGAGTAAGACCATGACTG
1 AAACGAATAAGACCATGACTAAAAGACATTATGGCATCACGATTTATAGAGTAAGACCATGACTG
* * * * *
67641625 AAAGATGTTATGGTATCACTATTC
66 AAAGACGCTATGGCATCACGAATC
* * * *
67641649 TATCGAGTAAGACCATGACTAAAAGACATTATGGCATCACGATTCTATTGAGTAAGACCAT-AGC
1 AAACGAATAAGACCATGACTAAAAGACATTATGGCATCACGATT-TATAGAGTAAGACCATGA-C
67641713 TGAAAGACGCTATGGCATCACGAATC
64 TGAAAGACGCTATGGCATCACGAATC
* * ** * *
67641739 AAAGGAATAAGACTATGGTTGAAAGACACTATGGCA
1 AAACGAATAAGACCATGACTAAAAGACATTATGGCA
67641775 ACTCGACGGA
Statistics
Matches: 104, Mismatches: 20, Indels: 3
0.82 0.16 0.02
Matches are distributed among these distances:
89 40 0.38
90 64 0.62
ACGTcount: A:0.39, C:0.16, G:0.20, T:0.25
Consensus pattern (89 bp):
AAACGAATAAGACCATGACTAAAAGACATTATGGCATCACGATTTATAGAGTAAGACCATGACTG
AAAGACGCTATGGCATCACGAATC
Found at i:67641810 original size:48 final size:45
Alignment explanation
Indices: 67641701--67641860 Score: 140
Period size: 45 Copynumber: 3.5 Consensus size: 45
67641691 TTCTATTGAG
* * * * * *** *
67641701 TAAGACCATAGCTGAAAGACGCTATGGCATCACGAATCAAAGGAA
1 TAAGACCATGGTTGAAAGACACTATGGCAACAAGACGAAAATGAA
* **
67641746 TAAGACTATGGTTGAAAGACACTATGGCAACTCGACGGAAAAAATGAA
1 TAAGACCATGGTTGAAAGACACTATGGCAACAAGAC-G--AAAATGAA
* * * * *
67641794 TAAGACCATGATTGAAAGACACTGTGGCATCAAGACGAGAATAAA
1 TAAGACCATGGTTGAAAGACACTATGGCAACAAGACGAAAATGAA
67641839 TAAGACCATGGTTGAAAGACAC
1 TAAGACCATGGTTGAAAGACAC
67641861 CATGTCACAT
Statistics
Matches: 93, Mismatches: 19, Indels: 6
0.79 0.16 0.05
Matches are distributed among these distances:
45 56 0.60
47 1 0.01
48 36 0.39
ACGTcount: A:0.43, C:0.17, G:0.23, T:0.17
Consensus pattern (45 bp):
TAAGACCATGGTTGAAAGACACTATGGCAACAAGACGAAAATGAA
Found at i:67641854 original size:45 final size:47
Alignment explanation
Indices: 67641744--67641860 Score: 139
Period size: 48 Copynumber: 2.5 Consensus size: 47
67641734 GAATCAAAGG
* ** *
67641744 AATAAGACTATGGTTGAAAGACACTATGGCAACTCGACGGAAAAAATG
1 AATAAGACCATGGTTGAAAGACACTATGGCAACAAGACGG-AAAAATA
* * * *
67641792 AATAAGACCATGATTGAAAGACACTGTGGCATCAAGAC-G-AGAATA
1 AATAAGACCATGGTTGAAAGACACTATGGCAACAAGACGGAAAAATA
67641837 AATAAGACCATGGTTGAAAGACAC
1 AATAAGACCATGGTTGAAAGACAC
67641861 CATGTCACAT
Statistics
Matches: 60, Mismatches: 9, Indels: 3
0.83 0.12 0.04
Matches are distributed among these distances:
45 27 0.45
47 1 0.02
48 32 0.53
ACGTcount: A:0.44, C:0.15, G:0.22, T:0.18
Consensus pattern (47 bp):
AATAAGACCATGGTTGAAAGACACTATGGCAACAAGACGGAAAAATA
Found at i:67642794 original size:52 final size:52
Alignment explanation
Indices: 67642737--67642842 Score: 194
Period size: 52 Copynumber: 2.0 Consensus size: 52
67642727 GATTTTGAGT
67642737 AAAAATGCAAAATAGGGATTTATTTGTGAAAATGTGTGGTTAAATGCATGAA
1 AAAAATGCAAAATAGGGATTTATTTGTGAAAATGTGTGGTTAAATGCATGAA
* *
67642789 AAAAATGCAAAATATGGATTTATTTGTGAAAATGTGTGGTTAAATGTATGAA
1 AAAAATGCAAAATAGGGATTTATTTGTGAAAATGTGTGGTTAAATGCATGAA
67642841 AA
1 AA
67642843 GTTGATAAAT
Statistics
Matches: 52, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
52 52 1.00
ACGTcount: A:0.43, C:0.03, G:0.22, T:0.32
Consensus pattern (52 bp):
AAAAATGCAAAATAGGGATTTATTTGTGAAAATGTGTGGTTAAATGCATGAA
Found at i:67644646 original size:43 final size:43
Alignment explanation
Indices: 67644506--67644649 Score: 155
Period size: 43 Copynumber: 3.3 Consensus size: 43
67644496 GAGATGAGAC
* * * **
67644506 TACATGTAAGATCATGTTTGGGACATTGGTATCGGTATATGAT
1 TACATGTAAGACCATGTCTGGGACATTGGCATCAATATATGAT
* * *
67644549 TACATGTAAGACCATCTCTGGGACATTGGCAT-TATCATATAAT
1 TACATGTAAGACCATGTCTGGGACATTGGCATCAAT-ATATGAT
* * *
67644592 TTCATGTAAGACCATGTCTAGGACATTGGCATCAATATGTGAT
1 TACATGTAAGACCATGTCTGGGACATTGGCATCAATATATGAT
* *
67644635 AACATGCAAGACCAT
1 TACATGTAAGACCAT
67644650 ACCTGGGATA
Statistics
Matches: 83, Mismatches: 16, Indels: 4
0.81 0.16 0.04
Matches are distributed among these distances:
42 1 0.01
43 80 0.96
44 2 0.02
ACGTcount: A:0.32, C:0.16, G:0.20, T:0.32
Consensus pattern (43 bp):
TACATGTAAGACCATGTCTGGGACATTGGCATCAATATATGAT
Found at i:67644656 original size:86 final size:85
Alignment explanation
Indices: 67644508--67644666 Score: 203
Period size: 86 Copynumber: 1.9 Consensus size: 85
67644498 GATGAGACTA
* * * * ** * *
67644508 CATGTAAGATCATGTTTGGGACATTGGTATCGGTATATGATTACATGTAAGACCATCTCTGGGAC
1 CATGTAAGACCATGTCTAGGACATTGGCATCAATATATGATAACATGCAAGACCATCTCTGGGAC
67644573 ATTGGCATTATCATATAATTT
66 A-TGGCATTATCATATAATTT
*
67644594 CATGTAAGACCATGTCTAGGACATTGGCATCAATATGTGATAACATGCAAGACCATAC-CTGGGA
1 CATGTAAGACCATGTCTAGGACATTGGCATCAATATATGATAACATGCAAGACCAT-CTCTGGGA
*
67644658 TATGGCATT
65 CATGGCATT
67644667 TGTATGAGCT
Statistics
Matches: 62, Mismatches: 10, Indels: 3
0.83 0.13 0.04
Matches are distributed among these distances:
85 7 0.11
86 54 0.87
87 1 0.02
ACGTcount: A:0.31, C:0.16, G:0.21, T:0.31
Consensus pattern (85 bp):
CATGTAAGACCATGTCTAGGACATTGGCATCAATATATGATAACATGCAAGACCATCTCTGGGAC
ATGGCATTATCATATAATTT
Found at i:67658269 original size:50 final size:50
Alignment explanation
Indices: 67658195--67658292 Score: 151
Period size: 50 Copynumber: 2.0 Consensus size: 50
67658185 TACACATGAA
* * *
67658195 AAAGGAAAGGTATGTGTTCAAATGAACTATGTCATGAAGTTATAAAAAAG
1 AAAGGAAAGGTATGTATTCAAATGAACTATGCCATGAAATTATAAAAAAG
* *
67658245 AAAGGAAAGGTATGTATTCCAATGAACTATGCCATGAAATTATGAAAA
1 AAAGGAAAGGTATGTATTCAAATGAACTATGCCATGAAATTATAAAAA
67658293 GGATTAGAAT
Statistics
Matches: 43, Mismatches: 5, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
50 43 1.00
ACGTcount: A:0.46, C:0.08, G:0.20, T:0.26
Consensus pattern (50 bp):
AAAGGAAAGGTATGTATTCAAATGAACTATGCCATGAAATTATAAAAAAG
Found at i:67660755 original size:27 final size:27
Alignment explanation
Indices: 67660715--67660768 Score: 81
Period size: 27 Copynumber: 2.0 Consensus size: 27
67660705 TGTCATGTGA
* *
67660715 AATTGAATGGTAAATTATTGTTACATG
1 AATTGAATGGTAAATTACTATTACATG
*
67660742 AATTGAATGTTAAATTACTATTACATG
1 AATTGAATGGTAAATTACTATTACATG
67660769 GGTTGTATGA
Statistics
Matches: 24, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
27 24 1.00
ACGTcount: A:0.39, C:0.06, G:0.15, T:0.41
Consensus pattern (27 bp):
AATTGAATGGTAAATTACTATTACATG
Found at i:67663854 original size:6 final size:6
Alignment explanation
Indices: 67663843--67663968 Score: 231
Period size: 6 Copynumber: 21.5 Consensus size: 6
67663833 ACTGTGTTAC
67663843 ATGTAT ATGTAT ATGTAT ATGTAT ATGTAT ATGTAT ATGTAT ATGTAT
1 ATGTAT ATGTAT ATGTAT ATGTAT ATGTAT ATGTAT ATGTAT ATGTAT
67663891 ATGTAT ATGTAT ATGTAT ATGTAT ATGTAT ATGT-T ATGTAT ATG--T
1 ATGTAT ATGTAT ATGTAT ATGTAT ATGTAT ATGTAT ATGTAT ATGTAT
67663936 ATGTAT ATGTAT ATGTAT ATGTAT ATGTAT ATG
1 ATGTAT ATGTAT ATGTAT ATGTAT ATGTAT ATG
67663969 AGAGTCGAGT
Statistics
Matches: 117, Mismatches: 0, Indels: 6
0.95 0.00 0.05
Matches are distributed among these distances:
4 4 0.03
5 5 0.04
6 108 0.92
ACGTcount: A:0.33, C:0.00, G:0.17, T:0.50
Consensus pattern (6 bp):
ATGTAT
Found at i:67664826 original size:15 final size:15
Alignment explanation
Indices: 67664806--67664848 Score: 59
Period size: 15 Copynumber: 2.9 Consensus size: 15
67664796 TATTGTAATT
*
67664806 TGGATTTCCTTATCA
1 TGGATTTCTTTATCA
*
67664821 TGGATTTCTTTATCT
1 TGGATTTCTTTATCA
*
67664836 TGAATTTCTTTAT
1 TGGATTTCTTTAT
67664849 TCTGGGCTTC
Statistics
Matches: 25, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
15 25 1.00
ACGTcount: A:0.19, C:0.14, G:0.12, T:0.56
Consensus pattern (15 bp):
TGGATTTCTTTATCA
Found at i:67667357 original size:27 final size:27
Alignment explanation
Indices: 67667324--67667377 Score: 72
Period size: 27 Copynumber: 2.0 Consensus size: 27
67667314 TGTCATGTGA
* *
67667324 AATTGAACGGTAAATTATTGTTACATG
1 AATTGAACGGTAAATTACTATTACATG
* *
67667351 AATTGAATGTTAAATTACTATTACATG
1 AATTGAACGGTAAATTACTATTACATG
67667378 GGTTGTATGA
Statistics
Matches: 23, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
27 23 1.00
ACGTcount: A:0.39, C:0.07, G:0.15, T:0.39
Consensus pattern (27 bp):
AATTGAACGGTAAATTACTATTACATG
Found at i:67670158 original size:44 final size:41
Alignment explanation
Indices: 67670108--67670226 Score: 114
Period size: 42 Copynumber: 2.8 Consensus size: 41
67670098 CTGAGATATT
* *
67670108 GTGTAAGACCGTGTCTGGGACACAGGCCTCGATTTGAGATTTAC
1 GTGTAAGACCATGTCTGGGACACAGGCATCGATTT--GATTT-C
** *
67670152 GTGTAAGACCATGTCTAAGACATCA-GCATTGTATTTGATTTC
1 GTGTAAGACCATGTCTGGGACA-CAGGCATCG-ATTTGATTTC
* * *
67670194 GTGTAAGACCCTGTTTGGGACAAAGGCATCGAT
1 GTGTAAGACCATGTCTGGGACACAGGCATCGAT
67670227 ACTGAATTAC
Statistics
Matches: 61, Mismatches: 11, Indels: 9
0.75 0.14 0.11
Matches are distributed among these distances:
41 3 0.05
42 24 0.39
43 5 0.08
44 23 0.38
45 6 0.10
ACGTcount: A:0.26, C:0.18, G:0.26, T:0.29
Consensus pattern (41 bp):
GTGTAAGACCATGTCTGGGACACAGGCATCGATTTGATTTC
Found at i:67677521 original size:42 final size:42
Alignment explanation
Indices: 67677450--67677529 Score: 101
Period size: 42 Copynumber: 1.9 Consensus size: 42
67677440 TGAGATTTAA
67677450 GTGTAAGACCATGTCTAGGACATCAGCATC-ATATCTGATTTT
1 GTGTAAGACCATGTCTAGGACATCAGCATCGATA-CTGATTTT
* * *
67677492 GTGTAAGACCCTGTCTGGGACA-GAGGCATCGATACTGA
1 GTGTAAGACCATGTCTAGGACATCA-GCATCGATACTGA
67677530 ATTACATGTA
Statistics
Matches: 33, Mismatches: 3, Indels: 4
0.82 0.08 0.10
Matches are distributed among these distances:
41 1 0.03
42 29 0.88
43 3 0.09
ACGTcount: A:0.28, C:0.20, G:0.25, T:0.28
Consensus pattern (42 bp):
GTGTAAGACCATGTCTAGGACATCAGCATCGATACTGATTTT
Found at i:67689084 original size:18 final size:18
Alignment explanation
Indices: 67689058--67689093 Score: 54
Period size: 18 Copynumber: 2.0 Consensus size: 18
67689048 ATGATATTAT
*
67689058 TATTTTAATTAAATTAAG
1 TATTATAATTAAATTAAG
*
67689076 TATTATAATTGAATTAAG
1 TATTATAATTAAATTAAG
67689094 GTCAATCAAC
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
18 16 1.00
ACGTcount: A:0.44, C:0.00, G:0.08, T:0.47
Consensus pattern (18 bp):
TATTATAATTAAATTAAG
Found at i:67697563 original size:30 final size:30
Alignment explanation
Indices: 67697528--67697590 Score: 90
Period size: 30 Copynumber: 2.1 Consensus size: 30
67697518 ACTTATTTTA
*
67697528 TTGTTAATTTCATTATTACTTTAAAGGCAT
1 TTGTTAATTTCATTATTACTTTAAAGACAT
* * *
67697558 TTGTTAATTTTATTATTATTTTAGAGACAT
1 TTGTTAATTTCATTATTACTTTAAAGACAT
67697588 TTG
1 TTG
67697591 CTTGTTAAGT
Statistics
Matches: 29, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
30 29 1.00
ACGTcount: A:0.29, C:0.06, G:0.11, T:0.54
Consensus pattern (30 bp):
TTGTTAATTTCATTATTACTTTAAAGACAT
Found at i:67697708 original size:18 final size:18
Alignment explanation
Indices: 67697673--67697712 Score: 53
Period size: 18 Copynumber: 2.1 Consensus size: 18
67697663 GAAATATTTA
*
67697673 TTTTGATGTTTTTAATAT
1 TTTTGATGTTTATAATAT
67697691 TTTTGATGTATTATATATAT
1 TTTTGATGT-TTATA-ATAT
67697711 TT
1 TT
67697713 AGAAATTATA
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
18 9 0.47
19 4 0.21
20 6 0.32
ACGTcount: A:0.25, C:0.00, G:0.10, T:0.65
Consensus pattern (18 bp):
TTTTGATGTTTATAATAT
Found at i:67700251 original size:24 final size:24
Alignment explanation
Indices: 67700219--67700266 Score: 96
Period size: 24 Copynumber: 2.0 Consensus size: 24
67700209 AATGATTCCT
67700219 CCAAAAGGATAGTTAGCTCAACCA
1 CCAAAAGGATAGTTAGCTCAACCA
67700243 CCAAAAGGATAGTTAGCTCAACCA
1 CCAAAAGGATAGTTAGCTCAACCA
67700267 ACATCATTGT
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
24 24 1.00
ACGTcount: A:0.42, C:0.25, G:0.17, T:0.17
Consensus pattern (24 bp):
CCAAAAGGATAGTTAGCTCAACCA
Found at i:67700876 original size:44 final size:45
Alignment explanation
Indices: 67700826--67700918 Score: 129
Period size: 44 Copynumber: 2.1 Consensus size: 45
67700816 TACAACATCT
67700826 ATTCCATTCAACCAAACACA-AGAATT-CTG-TTACAGCTCTATTCC
1 ATTCCATTCAACCAAACA-ATA-AATTACTGATTACAGCTCTATTCC
*
67700870 ATTCCATTCAACCAAATAATTAAATTACTGATTACAGCTCTATTCC
1 ATTCCATTCAACCAAACAA-TAAATTACTGATTACAGCTCTATTCC
67700916 ATT
1 ATT
67700919 ACAGCTCTAT
Statistics
Matches: 44, Mismatches: 1, Indels: 6
0.86 0.02 0.12
Matches are distributed among these distances:
43 1 0.02
44 21 0.48
45 4 0.09
46 18 0.41
ACGTcount: A:0.35, C:0.26, G:0.05, T:0.33
Consensus pattern (45 bp):
ATTCCATTCAACCAAACAATAAATTACTGATTACAGCTCTATTCC
Found at i:67700921 original size:16 final size:16
Alignment explanation
Indices: 67700900--67700969 Score: 97
Period size: 16 Copynumber: 4.4 Consensus size: 16
67700890 TAAATTACTG
67700900 ATTACAGCTCTATTCC
1 ATTACAGCTCTATTCC
67700916 ATTACAGCTCTATTCC
1 ATTACAGCTCTATTCC
* *
67700932 ATTATAGCTCTATTCA
1 ATTACAGCTCTATTCC
*
67700948 ATGACAGC-CTTATTCC
1 ATTACAGCTC-TATTCC
67700964 ATTACA
1 ATTACA
67700970 ATGAACCAAA
Statistics
Matches: 47, Mismatches: 6, Indels: 2
0.85 0.11 0.04
Matches are distributed among these distances:
15 1 0.02
16 46 0.98
ACGTcount: A:0.29, C:0.27, G:0.07, T:0.37
Consensus pattern (16 bp):
ATTACAGCTCTATTCC
Found at i:67704463 original size:20 final size:22
Alignment explanation
Indices: 67704423--67704464 Score: 61
Period size: 20 Copynumber: 2.0 Consensus size: 22
67704413 AACTATTATA
*
67704423 TAATAAATATAATTTATTATTT
1 TAATAAATATAATTTAATATTT
67704445 TAATAAAT-T-ATTTAATATTT
1 TAATAAATATAATTTAATATTT
67704465 CAATTTTATT
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
20 10 0.53
21 1 0.05
22 8 0.42
ACGTcount: A:0.45, C:0.00, G:0.00, T:0.55
Consensus pattern (22 bp):
TAATAAATATAATTTAATATTT
Found at i:67704504 original size:15 final size:16
Alignment explanation
Indices: 67704477--67704507 Score: 55
Period size: 15 Copynumber: 2.0 Consensus size: 16
67704467 ATTTTATTTT
67704477 AATAATAAATTTTAAA
1 AATAATAAATTTTAAA
67704493 AATAAT-AATTTTAAA
1 AATAATAAATTTTAAA
67704508 TAATTTTATT
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
15 9 0.60
16 6 0.40
ACGTcount: A:0.61, C:0.00, G:0.00, T:0.39
Consensus pattern (16 bp):
AATAATAAATTTTAAA
Found at i:67704565 original size:15 final size:15
Alignment explanation
Indices: 67704531--67704601 Score: 65
Period size: 15 Copynumber: 4.6 Consensus size: 15
67704521 ATATTACTGA
67704531 AAATA-TTTAAT-AT
1 AAATATTTTAATAAT
*
67704544 TAATATTTTAATAAT
1 AAATATTTTAATAAT
*
67704559 AAATATTTATTACAATTAT
1 AAATA-TT-TT--AATAAT
*
67704578 AAATATATTAATAAT
1 AAATATTTTAATAAT
67704593 AAATATTTT
1 AAATATTTT
67704602 GTATTATAAA
Statistics
Matches: 46, Mismatches: 6, Indels: 10
0.74 0.10 0.16
Matches are distributed among these distances:
13 4 0.09
14 6 0.13
15 19 0.41
16 2 0.04
17 4 0.09
18 1 0.02
19 10 0.22
ACGTcount: A:0.51, C:0.01, G:0.00, T:0.48
Consensus pattern (15 bp):
AAATATTTTAATAAT
Found at i:67705456 original size:44 final size:44
Alignment explanation
Indices: 67705393--67705481 Score: 178
Period size: 44 Copynumber: 2.0 Consensus size: 44
67705383 AACTTTTATG
67705393 AAAGCGTTGAAATGAAGAACAAACTTTCTACAAATAATTGAATA
1 AAAGCGTTGAAATGAAGAACAAACTTTCTACAAATAATTGAATA
67705437 AAAGCGTTGAAATGAAGAACAAACTTTCTACAAATAATTGAATA
1 AAAGCGTTGAAATGAAGAACAAACTTTCTACAAATAATTGAATA
67705481 A
1 A
67705482 GGGTTAAAAT
Statistics
Matches: 45, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
44 45 1.00
ACGTcount: A:0.51, C:0.11, G:0.13, T:0.25
Consensus pattern (44 bp):
AAAGCGTTGAAATGAAGAACAAACTTTCTACAAATAATTGAATA
Found at i:67713529 original size:22 final size:20
Alignment explanation
Indices: 67713489--67713537 Score: 71
Period size: 20 Copynumber: 2.5 Consensus size: 20
67713479 TAATTTAAAC
67713489 TATAAAAATTTATTAATATG
1 TATAAAAATTTATTAATATG
* *
67713509 TATATAAATTTATTAATATA
1 TATAAAAATTTATTAATATG
*
67713529 TGTAAAAAT
1 TATAAAAAT
67713538 AACTTTTACG
Statistics
Matches: 25, Mismatches: 4, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
20 25 1.00
ACGTcount: A:0.51, C:0.00, G:0.04, T:0.45
Consensus pattern (20 bp):
TATAAAAATTTATTAATATG
Found at i:67713649 original size:20 final size:20
Alignment explanation
Indices: 67713624--67713663 Score: 71
Period size: 20 Copynumber: 2.0 Consensus size: 20
67713614 AAATATTTTC
*
67713624 AGTAAATTATTTTCCAGAAA
1 AGTAAATCATTTTCCAGAAA
67713644 AGTAAATCATTTTCCAGAAA
1 AGTAAATCATTTTCCAGAAA
67713664 TTATTTTTCG
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
20 19 1.00
ACGTcount: A:0.45, C:0.12, G:0.10, T:0.33
Consensus pattern (20 bp):
AGTAAATCATTTTCCAGAAA
Found at i:67714123 original size:23 final size:23
Alignment explanation
Indices: 67714097--67714143 Score: 85
Period size: 23 Copynumber: 2.0 Consensus size: 23
67714087 CAGTTTCCCT
67714097 TCTTTTCTGATCCTCTCGCTTTC
1 TCTTTTCTGATCCTCTCGCTTTC
*
67714120 TCTTTTCTGATTCTCTCGCTTTC
1 TCTTTTCTGATCCTCTCGCTTTC
67714143 T
1 T
67714144 TCCTTCCTTC
Statistics
Matches: 23, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
23 23 1.00
ACGTcount: A:0.04, C:0.32, G:0.09, T:0.55
Consensus pattern (23 bp):
TCTTTTCTGATCCTCTCGCTTTC
Found at i:67715046 original size:45 final size:45
Alignment explanation
Indices: 67714995--67715084 Score: 180
Period size: 45 Copynumber: 2.0 Consensus size: 45
67714985 AAGGGTTTGA
67714995 GTATGATCTTTATAGTTATTCTCATGGAATTGAGAGGCTTTCTTT
1 GTATGATCTTTATAGTTATTCTCATGGAATTGAGAGGCTTTCTTT
67715040 GTATGATCTTTATAGTTATTCTCATGGAATTGAGAGGCTTTCTTT
1 GTATGATCTTTATAGTTATTCTCATGGAATTGAGAGGCTTTCTTT
67715085 TGGTGTTATC
Statistics
Matches: 45, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
45 45 1.00
ACGTcount: A:0.22, C:0.11, G:0.20, T:0.47
Consensus pattern (45 bp):
GTATGATCTTTATAGTTATTCTCATGGAATTGAGAGGCTTTCTTT
Found at i:67718126 original size:12 final size:13
Alignment explanation
Indices: 67718101--67718134 Score: 52
Period size: 12 Copynumber: 2.7 Consensus size: 13
67718091 GTTTCTGAGG
67718101 TAAAAATAATTAT
1 TAAAAATAATTAT
*
67718114 TAAAAGTAA-TAT
1 TAAAAATAATTAT
67718126 TAAAAATAA
1 TAAAAATAA
67718135 ATCATACAAA
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
12 11 0.58
13 8 0.42
ACGTcount: A:0.65, C:0.00, G:0.03, T:0.32
Consensus pattern (13 bp):
TAAAAATAATTAT
Found at i:67718441 original size:32 final size:32
Alignment explanation
Indices: 67718379--67718441 Score: 90
Period size: 32 Copynumber: 2.0 Consensus size: 32
67718369 AAGTCTTTGA
**
67718379 ATCCCATCACATGTGTGAGTTTTAGCCTAGTT
1 ATCCCATCACATGTGTGAGCGTTAGCCTAGTT
* *
67718411 ATCCCATCACGTGTGTGAGCGTTAGTCTAGT
1 ATCCCATCACATGTGTGAGCGTTAGCCTAGT
67718442 AGTTCAATTT
Statistics
Matches: 27, Mismatches: 4, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
32 27 1.00
ACGTcount: A:0.21, C:0.22, G:0.22, T:0.35
Consensus pattern (32 bp):
ATCCCATCACATGTGTGAGCGTTAGCCTAGTT
Found at i:67720587 original size:22 final size:22
Alignment explanation
Indices: 67720562--67720615 Score: 99
Period size: 22 Copynumber: 2.5 Consensus size: 22
67720552 CATCCATCCT
67720562 CTACACACCACTCCGTCCAGCC
1 CTACACACCACTCCGTCCAGCC
*
67720584 CTACACACCACTTCGTCCAGCC
1 CTACACACCACTCCGTCCAGCC
67720606 CTACACACCA
1 CTACACACCA
67720616 TGTGGGGATA
Statistics
Matches: 31, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
22 31 1.00
ACGTcount: A:0.26, C:0.52, G:0.07, T:0.15
Consensus pattern (22 bp):
CTACACACCACTCCGTCCAGCC
Found at i:67728120 original size:39 final size:40
Alignment explanation
Indices: 67728075--67728283 Score: 116
Period size: 41 Copynumber: 5.2 Consensus size: 40
67728065 CGGGGTTTAG
* * *
67728075 CCGGATATAACCACTCGCA-CAAGGCCTTCGGGTCTTAAC
1 CCGGATATAACCACTAGCATAAAGGCCTTCGGGACTTAAC
*** * *
67728114 CCGGATATGGTCACTAGCATAAATGCCTTCGGGACTTAGC
1 CCGGATATAACCACTAGCATAAAGGCCTTCGGGACTTAAC
** * * * **
67728154 CCGGATATAGTCGCTAGCACAAATGCCTTC-GGATCTTAGT
1 CCGGATATAACCACTAGCATAAAGGCCTTCGGGA-CTTAAC
* ** * * * *
67728194 CCGGATGTAGTCGCTTAGCACAAAAGCCTTCGGGACTTAGC
1 CCGGATATAACCAC-TAGCATAAAGGCCTTCGGGACTTAAC
**** * * *
67728235 CCGGATATAGTTGCTTAGCACAAAAGCCTTCGGGACTTAGC
1 CCGGATATAACCAC-TAGCATAAAGGCCTTCGGGACTTAAC
67728276 CCGGATAT
1 CCGGATAT
67728284 CATTCGAGTA
Statistics
Matches: 149, Mismatches: 17, Indels: 6
0.87 0.10 0.03
Matches are distributed among these distances:
39 18 0.12
40 61 0.41
41 67 0.45
42 3 0.02
ACGTcount: A:0.25, C:0.27, G:0.24, T:0.24
Consensus pattern (40 bp):
CCGGATATAACCACTAGCATAAAGGCCTTCGGGACTTAAC
Found at i:67728225 original size:41 final size:41
Alignment explanation
Indices: 67728098--67728283 Score: 252
Period size: 41 Copynumber: 4.6 Consensus size: 41
67728088 CTCGCACAAG
* * * * * *
67728098 GCCTTCGGGTCTTAACCCGGATATGGTCAC-TAGCATAAAT
1 GCCTTCGGGACTTAGCCCGGATATAGTCGCTTAGCACAAAA
*
67728138 GCCTTCGGGACTTAGCCCGGATATAGTCGC-TAGCACAAAT
1 GCCTTCGGGACTTAGCCCGGATATAGTCGCTTAGCACAAAA
* *
67728178 GCCTTC-GGATCTTAGTCCGGATGTAGTCGCTTAGCACAAAA
1 GCCTTCGGGA-CTTAGCCCGGATATAGTCGCTTAGCACAAAA
*
67728219 GCCTTCGGGACTTAGCCCGGATATAGTTGCTTAGCACAAAA
1 GCCTTCGGGACTTAGCCCGGATATAGTCGCTTAGCACAAAA
67728260 GCCTTCGGGACTTAGCCCGGATAT
1 GCCTTCGGGACTTAGCCCGGATAT
67728284 CATTCGAGTA
Statistics
Matches: 132, Mismatches: 11, Indels: 5
0.89 0.07 0.03
Matches are distributed among these distances:
39 3 0.02
40 59 0.45
41 67 0.51
42 3 0.02
ACGTcount: A:0.24, C:0.26, G:0.25, T:0.25
Consensus pattern (41 bp):
GCCTTCGGGACTTAGCCCGGATATAGTCGCTTAGCACAAAA
Found at i:67728232 original size:81 final size:82
Alignment explanation
Indices: 67728098--67728281 Score: 248
Period size: 81 Copynumber: 2.3 Consensus size: 82
67728088 CTCGCACAAG
* * * * * * *
67728098 GCCTTCGGGTCTTAACCCGGATATGGTCAC-TAGCATAAATGCCTTCGGGACTTAGCCCGGATAT
1 GCCTTCGGGACTTAGCCCGGATGTAGTCGCTTAGCACAAAAGCCTTCGGGACTTAGCCCGGATAT
*
67728162 AGTCGC-TAGCACAAAT
66 AGTCGCTTAGCACAAAA
*
67728178 GCCTTC-GGATCTTAGTCCGGATGTAGTCGCTTAGCACAAAAGCCTTCGGGACTTAGCCCGGATA
1 GCCTTCGGGA-CTTAGCCCGGATGTAGTCGCTTAGCACAAAAGCCTTCGGGACTTAGCCCGGATA
*
67728242 TAGTTGCTTAGCACAAAA
65 TAGTCGCTTAGCACAAAA
67728260 GCCTTCGGGACTTAGCCCGGAT
1 GCCTTCGGGACTTAGCCCGGAT
67728282 ATCATTCGAG
Statistics
Matches: 89, Mismatches: 11, Indels: 6
0.84 0.10 0.06
Matches are distributed among these distances:
79 2 0.02
80 21 0.24
81 37 0.42
82 26 0.29
83 3 0.03
ACGTcount: A:0.24, C:0.26, G:0.25, T:0.25
Consensus pattern (82 bp):
GCCTTCGGGACTTAGCCCGGATGTAGTCGCTTAGCACAAAAGCCTTCGGGACTTAGCCCGGATAT
AGTCGCTTAGCACAAAA
Found at i:67745360 original size:39 final size:40
Alignment explanation
Indices: 67745315--67745523 Score: 116
Period size: 41 Copynumber: 5.2 Consensus size: 40
67745305 CGGGGTTTAG
* * *
67745315 CCGGATATAACCACTCGCA-CAAGGCCTTCGGGTCTTAAC
1 CCGGATATAACCACTAGCATAAAGGCCTTCGGGACTTAAC
*** * *
67745354 CCGGATATGGTCACTAGCATAAATGCCTTCGGGACTTAGC
1 CCGGATATAACCACTAGCATAAAGGCCTTCGGGACTTAAC
** * * * **
67745394 CCGGATATAGTCGCTAGCACAAATGCCTTC-GGATCTTAGT
1 CCGGATATAACCACTAGCATAAAGGCCTTCGGGA-CTTAAC
* ** * * * *
67745434 CCGGATGTAGTCGCTTAGCACAAAAGCCTTCGGGACTTAGC
1 CCGGATATAACCAC-TAGCATAAAGGCCTTCGGGACTTAAC
**** * * *
67745475 CCGGATATAGTTGCTTAGCACAAAAGCCTTCGGGACTTAGC
1 CCGGATATAACCAC-TAGCATAAAGGCCTTCGGGACTTAAC
67745516 CCGGATAT
1 CCGGATAT
67745524 CATTCGAGTA
Statistics
Matches: 149, Mismatches: 17, Indels: 6
0.87 0.10 0.03
Matches are distributed among these distances:
39 18 0.12
40 61 0.41
41 67 0.45
42 3 0.02
ACGTcount: A:0.25, C:0.27, G:0.24, T:0.24
Consensus pattern (40 bp):
CCGGATATAACCACTAGCATAAAGGCCTTCGGGACTTAAC
Found at i:67745465 original size:41 final size:41
Alignment explanation
Indices: 67745338--67745523 Score: 252
Period size: 41 Copynumber: 4.6 Consensus size: 41
67745328 CTCGCACAAG
* * * * * *
67745338 GCCTTCGGGTCTTAACCCGGATATGGTCAC-TAGCATAAAT
1 GCCTTCGGGACTTAGCCCGGATATAGTCGCTTAGCACAAAA
*
67745378 GCCTTCGGGACTTAGCCCGGATATAGTCGC-TAGCACAAAT
1 GCCTTCGGGACTTAGCCCGGATATAGTCGCTTAGCACAAAA
* *
67745418 GCCTTC-GGATCTTAGTCCGGATGTAGTCGCTTAGCACAAAA
1 GCCTTCGGGA-CTTAGCCCGGATATAGTCGCTTAGCACAAAA
*
67745459 GCCTTCGGGACTTAGCCCGGATATAGTTGCTTAGCACAAAA
1 GCCTTCGGGACTTAGCCCGGATATAGTCGCTTAGCACAAAA
67745500 GCCTTCGGGACTTAGCCCGGATAT
1 GCCTTCGGGACTTAGCCCGGATAT
67745524 CATTCGAGTA
Statistics
Matches: 132, Mismatches: 11, Indels: 5
0.89 0.07 0.03
Matches are distributed among these distances:
39 3 0.02
40 59 0.45
41 67 0.51
42 3 0.02
ACGTcount: A:0.24, C:0.26, G:0.25, T:0.25
Consensus pattern (41 bp):
GCCTTCGGGACTTAGCCCGGATATAGTCGCTTAGCACAAAA
Found at i:67745472 original size:81 final size:82
Alignment explanation
Indices: 67745338--67745521 Score: 248
Period size: 81 Copynumber: 2.3 Consensus size: 82
67745328 CTCGCACAAG
* * * * * * *
67745338 GCCTTCGGGTCTTAACCCGGATATGGTCAC-TAGCATAAATGCCTTCGGGACTTAGCCCGGATAT
1 GCCTTCGGGACTTAGCCCGGATGTAGTCGCTTAGCACAAAAGCCTTCGGGACTTAGCCCGGATAT
*
67745402 AGTCGC-TAGCACAAAT
66 AGTCGCTTAGCACAAAA
*
67745418 GCCTTC-GGATCTTAGTCCGGATGTAGTCGCTTAGCACAAAAGCCTTCGGGACTTAGCCCGGATA
1 GCCTTCGGGA-CTTAGCCCGGATGTAGTCGCTTAGCACAAAAGCCTTCGGGACTTAGCCCGGATA
*
67745482 TAGTTGCTTAGCACAAAA
65 TAGTCGCTTAGCACAAAA
67745500 GCCTTCGGGACTTAGCCCGGAT
1 GCCTTCGGGACTTAGCCCGGAT
67745522 ATCATTCGAG
Statistics
Matches: 89, Mismatches: 11, Indels: 6
0.84 0.10 0.06
Matches are distributed among these distances:
79 2 0.02
80 21 0.24
81 37 0.42
82 26 0.29
83 3 0.03
ACGTcount: A:0.24, C:0.26, G:0.25, T:0.25
Consensus pattern (82 bp):
GCCTTCGGGACTTAGCCCGGATGTAGTCGCTTAGCACAAAAGCCTTCGGGACTTAGCCCGGATAT
AGTCGCTTAGCACAAAA
Found at i:67753344 original size:39 final size:40
Alignment explanation
Indices: 67753299--67753507 Score: 125
Period size: 41 Copynumber: 5.2 Consensus size: 40
67753289 CGGGGTTTAG
* * *
67753299 CCGGATATAACCACTCGCA-CAAGGCCTTCGGGTCTTAAC
1 CCGGATATAACCACTAGCATAAAGGCCTTCGGGACTTAAC
*** * *
67753338 CCGGATATGGTCACTAGCATAAATGCCTTCGGGACTTAGC
1 CCGGATATAACCACTAGCATAAAGGCCTTCGGGACTTAAC
** * * * **
67753378 CCGGATATAGTCGCTAGCACAAATGCCTTC-GGATCTTAGT
1 CCGGATATAACCACTAGCATAAAGGCCTTCGGGA-CTTAAC
* ** * * * *
67753418 CCGGATGTAGTCGCTTAGCACAAAAGCCTTCGGGACTTAGC
1 CCGGATATAACCAC-TAGCATAAAGGCCTTCGGGACTTAAC
** * * * *
67753459 CCGGATATAGTCGCTTAGCACAAAAGCCTTCGGGACTTAGC
1 CCGGATATAACCAC-TAGCATAAAGGCCTTCGGGACTTAAC
67753500 CCGGATAT
1 CCGGATAT
67753508 CATTTGAGTA
Statistics
Matches: 150, Mismatches: 16, Indels: 6
0.87 0.09 0.03
Matches are distributed among these distances:
39 18 0.12
40 61 0.41
41 68 0.45
42 3 0.02
ACGTcount: A:0.25, C:0.27, G:0.24, T:0.23
Consensus pattern (40 bp):
CCGGATATAACCACTAGCATAAAGGCCTTCGGGACTTAAC
Found at i:67753449 original size:41 final size:41
Alignment explanation
Indices: 67753322--67753507 Score: 261
Period size: 41 Copynumber: 4.6 Consensus size: 41
67753312 CTCGCACAAG
* * * * * *
67753322 GCCTTCGGGTCTTAACCCGGATATGGTCAC-TAGCATAAAT
1 GCCTTCGGGACTTAGCCCGGATATAGTCGCTTAGCACAAAA
*
67753362 GCCTTCGGGACTTAGCCCGGATATAGTCGC-TAGCACAAAT
1 GCCTTCGGGACTTAGCCCGGATATAGTCGCTTAGCACAAAA
* *
67753402 GCCTTC-GGATCTTAGTCCGGATGTAGTCGCTTAGCACAAAA
1 GCCTTCGGGA-CTTAGCCCGGATATAGTCGCTTAGCACAAAA
67753443 GCCTTCGGGACTTAGCCCGGATATAGTCGCTTAGCACAAAA
1 GCCTTCGGGACTTAGCCCGGATATAGTCGCTTAGCACAAAA
67753484 GCCTTCGGGACTTAGCCCGGATAT
1 GCCTTCGGGACTTAGCCCGGATAT
67753508 CATTTGAGTA
Statistics
Matches: 133, Mismatches: 10, Indels: 5
0.90 0.07 0.03
Matches are distributed among these distances:
39 3 0.02
40 59 0.44
41 68 0.51
42 3 0.02
ACGTcount: A:0.24, C:0.26, G:0.25, T:0.25
Consensus pattern (41 bp):
GCCTTCGGGACTTAGCCCGGATATAGTCGCTTAGCACAAAA
Found at i:67753456 original size:81 final size:82
Alignment explanation
Indices: 67753322--67753505 Score: 257
Period size: 81 Copynumber: 2.3 Consensus size: 82
67753312 CTCGCACAAG
* * * * * * *
67753322 GCCTTCGGGTCTTAACCCGGATATGGTCAC-TAGCATAAATGCCTTCGGGACTTAGCCCGGATAT
1 GCCTTCGGGACTTAGCCCGGATGTAGTCGCTTAGCACAAAAGCCTTCGGGACTTAGCCCGGATAT
*
67753386 AGTCGC-TAGCACAAAT
66 AGTCGCTTAGCACAAAA
*
67753402 GCCTTC-GGATCTTAGTCCGGATGTAGTCGCTTAGCACAAAAGCCTTCGGGACTTAGCCCGGATA
1 GCCTTCGGGA-CTTAGCCCGGATGTAGTCGCTTAGCACAAAAGCCTTCGGGACTTAGCCCGGATA
67753466 TAGTCGCTTAGCACAAAA
65 TAGTCGCTTAGCACAAAA
67753484 GCCTTCGGGACTTAGCCCGGAT
1 GCCTTCGGGACTTAGCCCGGAT
67753506 ATCATTTGAG
Statistics
Matches: 90, Mismatches: 10, Indels: 6
0.85 0.09 0.06
Matches are distributed among these distances:
79 2 0.02
80 21 0.23
81 38 0.42
82 26 0.29
83 3 0.03
ACGTcount: A:0.24, C:0.27, G:0.25, T:0.24
Consensus pattern (82 bp):
GCCTTCGGGACTTAGCCCGGATGTAGTCGCTTAGCACAAAAGCCTTCGGGACTTAGCCCGGATAT
AGTCGCTTAGCACAAAA
Found at i:67758630 original size:9 final size:9
Alignment explanation
Indices: 67758591--67758623 Score: 57
Period size: 9 Copynumber: 3.7 Consensus size: 9
67758581 AAAAAAATAT
67758591 TTTTTCCTA
1 TTTTTCCTA
*
67758600 TTTTTCGTA
1 TTTTTCCTA
67758609 TTTTTCCTA
1 TTTTTCCTA
67758618 TTTTTC
1 TTTTTC
67758624 ATTTTTTCGA
Statistics
Matches: 22, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
9 22 1.00
ACGTcount: A:0.09, C:0.18, G:0.03, T:0.70
Consensus pattern (9 bp):
TTTTTCCTA
Found at i:67758630 original size:18 final size:18
Alignment explanation
Indices: 67758590--67758630 Score: 64
Period size: 18 Copynumber: 2.3 Consensus size: 18
67758580 CAAAAAAATA
*
67758590 TTTTTTCCTATTTTTCGT
1 TTTTTTCCTATTTTTCAT
*
67758608 ATTTTTCCTATTTTTCAT
1 TTTTTTCCTATTTTTCAT
67758626 TTTTT
1 TTTTT
67758631 CGATCATTTT
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
18 20 1.00
ACGTcount: A:0.10, C:0.15, G:0.02, T:0.73
Consensus pattern (18 bp):
TTTTTTCCTATTTTTCAT
Found at i:67759430 original size:8 final size:8
Alignment explanation
Indices: 67759419--67759444 Score: 52
Period size: 8 Copynumber: 3.2 Consensus size: 8
67759409 TAAAAAATTC
67759419 AAAATAAT
1 AAAATAAT
67759427 AAAATAAT
1 AAAATAAT
67759435 AAAATAAT
1 AAAATAAT
67759443 AA
1 AA
67759445 GAGCTAATAA
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
8 18 1.00
ACGTcount: A:0.77, C:0.00, G:0.00, T:0.23
Consensus pattern (8 bp):
AAAATAAT
Found at i:67775210 original size:21 final size:22
Alignment explanation
Indices: 67775184--67775227 Score: 81
Period size: 21 Copynumber: 2.0 Consensus size: 22
67775174 TATGAAAGTT
67775184 GTCATTTAACAAG-GTTTAGGA
1 GTCATTTAACAAGTGTTTAGGA
67775205 GTCATTTAACAAGTGTTTAGGA
1 GTCATTTAACAAGTGTTTAGGA
67775227 G
1 G
67775228 CCTATTTATA
Statistics
Matches: 22, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
21 13 0.59
22 9 0.41
ACGTcount: A:0.32, C:0.09, G:0.25, T:0.34
Consensus pattern (22 bp):
GTCATTTAACAAGTGTTTAGGA
Found at i:67775241 original size:23 final size:22
Alignment explanation
Indices: 67775186--67775235 Score: 75
Period size: 21 Copynumber: 2.3 Consensus size: 22
67775176 TGAAAGTTGT
*
67775186 CATTTAACAAG-GTTTAGGAGT
1 CATTTAACAAGTGTTTAGGAGC
67775207 CATTTAACAAGTGTTTAGGAGC
1 CATTTAACAAGTGTTTAGGAGC
67775229 CTATTTA
1 C-ATTTA
67775236 TAAAGTTACA
Statistics
Matches: 26, Mismatches: 1, Indels: 2
0.90 0.03 0.07
Matches are distributed among these distances:
21 11 0.42
22 10 0.38
23 5 0.19
ACGTcount: A:0.32, C:0.12, G:0.20, T:0.36
Consensus pattern (22 bp):
CATTTAACAAGTGTTTAGGAGC
Found at i:67779542 original size:16 final size:15
Alignment explanation
Indices: 67779518--67779547 Score: 51
Period size: 16 Copynumber: 1.9 Consensus size: 15
67779508 AACTGTTTTA
67779518 TTACAAATTTCACTC
1 TTACAAATTTCACTC
67779533 TTACATAATTTCACT
1 TTACA-AATTTCACT
67779548 TACTCAATTC
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
15 5 0.36
16 9 0.64
ACGTcount: A:0.33, C:0.23, G:0.00, T:0.43
Consensus pattern (15 bp):
TTACAAATTTCACTC
Found at i:67779877 original size:50 final size:50
Alignment explanation
Indices: 67779747--67780040 Score: 331
Period size: 50 Copynumber: 5.8 Consensus size: 50
67779737 AACCGAAGCT
* * * *
67779747 ATCTGGTACGCATAGTAGCCTGCACTTAGTACTACACATGCGACC-AACA
1 ATCTGGTACACGTAGTAGCCTGCACTTAGTACTACACATGTGACCTAACC
*
67779796 ATCTGGTACACGTAGTAGCCTGCACTTAGTACTACACACGTGACCTAACC
1 ATCTGGTACACGTAGTAGCCTGCACTTAGTACTACACATGTGACCTAACC
* * * *
67779846 ATTTGATACACGTAGTAGCCTGCACTTAGTACTACACATGTGA-TTAAAACT
1 ATCTGGTACACGTAGTAGCCTGCACTTAGTACTACACATGTGACCT--AACC
* * * * * *
67779897 ATCAGGTACGCATAGCAGCCTGCACTTAGTACTATACATGCGACCTAACC
1 ATCTGGTACACGTAGTAGCCTGCACTTAGTACTACACATGTGACCTAACC
* *
67779947 ATCTGGTACACGTAGTAGTCTGCACTTAGTACTACACACGTGACCTAAAACC
1 ATCTGGTACACGTAGTAGCCTGCACTTAGTACTACACATGTGACCT--AACC
* *** * *
67779999 ATTTTAAACACATAGTAGCCTGCACATAGTACTACACATGTG
1 ATCTGGTACACGTAGTAGCCTGCACTTAGTACTACACATGTG
67780041 TTCTCACAAC
Statistics
Matches: 203, Mismatches: 36, Indels: 9
0.82 0.15 0.04
Matches are distributed among these distances:
49 42 0.21
50 84 0.41
51 38 0.19
52 39 0.19
ACGTcount: A:0.31, C:0.26, G:0.17, T:0.26
Consensus pattern (50 bp):
ATCTGGTACACGTAGTAGCCTGCACTTAGTACTACACATGTGACCTAACC
Found at i:67779942 original size:101 final size:99
Alignment explanation
Indices: 67779759--67779989 Score: 309
Period size: 101 Copynumber: 2.3 Consensus size: 99
67779749 CTGGTACGCA
* ** * * *
67779759 TAGTAGCCTGCACTTAGTACTACACATGCGACCAACAATCTGGTACACGTAGTAGCCTGCACTTA
1 TAGTAGCCTGCACTTAGTACTACACATGTGAAAAACAATCAGGTACACATAGCAGCCTGCACTTA
* *
67779824 GTACTACACACGTGACCTAACCATTTGATACACG
66 GTACTACACACGCGACCTAACCATCTGATACACG
* *
67779858 TAGTAGCCTGCACTTAGTACTACACATGTGATTAAAACTATCAGGTACGCATAGCAGCCTGCACT
1 TAGTAGCCTGCACTTAGTACTACACATGTGA--AAAACAATCAGGTACACATAGCAGCCTGCACT
* * *
67779923 TAGTACTATACATGCGACCTAACCATCTGGTACACG
64 TAGTACTACACACGCGACCTAACCATCTGATACACG
* *
67779959 TAGTAGTCTGCACTTAGTACTACACACGTGA
1 TAGTAGCCTGCACTTAGTACTACACATGTGA
67779990 CCTAAAACCA
Statistics
Matches: 115, Mismatches: 15, Indels: 2
0.87 0.11 0.02
Matches are distributed among these distances:
99 30 0.26
101 85 0.74
ACGTcount: A:0.30, C:0.26, G:0.18, T:0.26
Consensus pattern (99 bp):
TAGTAGCCTGCACTTAGTACTACACATGTGAAAAACAATCAGGTACACATAGCAGCCTGCACTTA
GTACTACACACGCGACCTAACCATCTGATACACG
Found at i:67788922 original size:19 final size:20
Alignment explanation
Indices: 67788900--67788937 Score: 60
Period size: 19 Copynumber: 1.9 Consensus size: 20
67788890 CTTCTAAATC
*
67788900 ATTTCATTGCAT-TTAGTTT
1 ATTTCATTACATATTAGTTT
67788919 ATTTCATTACATATTAGTT
1 ATTTCATTACATATTAGTT
67788938 GTTGATTTAA
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
19 11 0.65
20 6 0.35
ACGTcount: A:0.26, C:0.11, G:0.08, T:0.55
Consensus pattern (20 bp):
ATTTCATTACATATTAGTTT
Found at i:67797338 original size:39 final size:39
Alignment explanation
Indices: 67797309--67797489 Score: 197
Period size: 39 Copynumber: 4.6 Consensus size: 39
67797299 GCTACTCGTT
*
67797309 CAAATGCCTTCGGACATAGCCCGGTTATAGTAACTCGCA
1 CAAATGCCTTCGGACTTAGCCCGGTTATAGTAACTCGCA
* *
67797348 CAATTGCCTTCGGACTTAACCCGGATT-TAGTAACTCGCA
1 CAAATGCCTTCGGACTTAGCCCGG-TTATAGTAACTCGCA
* ** *
67797387 CAAATGCCTTCGGGCTTAGCCCGAAT-TAGTATCTCGCA
1 CAAATGCCTTCGGACTTAGCCCGGTTATAGTAACTCGCA
* * * * *
67797425 CAAATGCCTTCGGATCTTAGTCCGGATATGGTCACTTAGCA
1 CAAATGCCTTCGGA-CTTAGCCCGGTTATAGTAAC-TCGCA
67797466 CAAA-GCCTTCGGGACTTAGCCCGG
1 CAAATGCCTTC-GGACTTAGCCCGG
67797490 ACATCATTCA
Statistics
Matches: 120, Mismatches: 17, Indels: 9
0.82 0.12 0.06
Matches are distributed among these distances:
38 25 0.21
39 63 0.52
40 21 0.17
41 11 0.09
ACGTcount: A:0.25, C:0.28, G:0.22, T:0.25
Consensus pattern (39 bp):
CAAATGCCTTCGGACTTAGCCCGGTTATAGTAACTCGCA
Found at i:67797407 original size:78 final size:79
Alignment explanation
Indices: 67797309--67797490 Score: 217
Period size: 78 Copynumber: 2.3 Consensus size: 79
67797299 GCTACTCGTT
* * * *
67797309 CAAATGCCTTCGGACATAGCCCGGTTATAGTAACTCGCACAATTGCCTTCGGA-CTTAACCCGGA
1 CAAATGCCTTCGGGCTTAGCCCGGAT-TAGTAACTCGCACAAATGCCTTCGGATCTTAACCCGGA
* *
67797373 TTTAGTAAC-TCGCA
65 TATAGTAACTTAGCA
* * **
67797387 CAAATGCCTTCGGGCTTAGCCCGAATTAGTATCTCGCACAAATGCCTTCGGATCTTAGTCCGGAT
1 CAAATGCCTTCGGGCTTAGCCCGGATTAGTAACTCGCACAAATGCCTTCGGATCTTAACCCGGAT
* *
67797452 ATGGTCACTTAGCA
66 ATAGTAACTTAGCA
67797466 CAAA-GCCTTCGGGACTTAGCCCGGA
1 CAAATGCCTTCGGG-CTTAGCCCGGA
67797491 CATCATTCAA
Statistics
Matches: 88, Mismatches: 13, Indels: 5
0.83 0.12 0.05
Matches are distributed among these distances:
77 24 0.27
78 46 0.52
79 18 0.20
ACGTcount: A:0.25, C:0.28, G:0.21, T:0.25
Consensus pattern (79 bp):
CAAATGCCTTCGGGCTTAGCCCGGATTAGTAACTCGCACAAATGCCTTCGGATCTTAACCCGGAT
ATAGTAACTTAGCA
Done.