Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Dt_chr2
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: 50190067
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.32
Warning! 915496 characters in sequence are not A, C, G, or T
File 120 of 161
Found at i:37912681 original size:37 final size:40
Alignment explanation
Indices: 37912584--37912682 Score: 114
Period size: 37 Copynumber: 2.5 Consensus size: 40
37912574 CCACTAATCC
**
37912584 TAATAACTAACACAATAATAATAATAGTTTTTTACTCAAAATAA
1 TAATAACT-A-ACAATAATAAT-ATAGGGTTTTACT-AAAATAA
*
37912628 TACTAACTAACAATAATAAT-TAGGGTTTTACT-AAA-AA
1 TAATAACTAACAATAATAATATAGGGTTTTACTAAAATAA
37912665 TAATAACTAACAATAATA
1 TAATAACTAACAATAATA
37912683 TAATGTAAAA
Statistics
Matches: 51, Mismatches: 4, Indels: 7
0.82 0.06 0.11
Matches are distributed among these distances:
37 19 0.37
38 3 0.06
40 10 0.20
42 11 0.22
43 1 0.02
44 7 0.14
ACGTcount: A:0.53, C:0.11, G:0.04, T:0.32
Consensus pattern (40 bp):
TAATAACTAACAATAATAATATAGGGTTTTACTAAAATAA
Found at i:37912714 original size:23 final size:23
Alignment explanation
Indices: 37912669--37912715 Score: 60
Period size: 23 Copynumber: 2.0 Consensus size: 23
37912659 TAAAAATAAT
*
37912669 AACTAACAATAATATAATGTAAA
1 AACTAACAATAATATAATCTAAA
*
37912692 AACTAACAATCATACTAA-CTAAA
1 AACTAACAATAATA-TAATCTAAA
37912715 A
1 A
37912716 TAATAATTAG
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
23 18 0.86
24 3 0.14
ACGTcount: A:0.60, C:0.15, G:0.02, T:0.23
Consensus pattern (23 bp):
AACTAACAATAATATAATCTAAA
Found at i:37913003 original size:3 final size:3
Alignment explanation
Indices: 37912995--37913094 Score: 182
Period size: 3 Copynumber: 33.3 Consensus size: 3
37912985 CCGGTACCAC
*
37912995 CTT CTT CTT CTT TTT CTT CTT CTT CTT CTT CTT CTT CTT CTT CTT CTT
1 CTT CTT CTT CTT CTT CTT CTT CTT CTT CTT CTT CTT CTT CTT CTT CTT
*
37913043 CTT CTT CTT CTT CTT CTT CTT CTT CTT CTT CTT CTT CTT CTT CTT CTG
1 CTT CTT CTT CTT CTT CTT CTT CTT CTT CTT CTT CTT CTT CTT CTT CTT
37913091 CTT C
1 CTT C
37913095 AGCTGGACTG
Statistics
Matches: 93, Mismatches: 4, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
3 93 1.00
ACGTcount: A:0.00, C:0.33, G:0.01, T:0.66
Consensus pattern (3 bp):
CTT
Found at i:37916310 original size:106 final size:106
Alignment explanation
Indices: 37916198--37916409 Score: 397
Period size: 106 Copynumber: 2.0 Consensus size: 106
37916188 AATATTTATA
37916198 AAAATATTTTTGACTCAGTTTTACGAGATCGAGGTCTCGATACCTTATTTTTACCCAATTTCTTC
1 AAAATATTTTTGACTCAGTTTTACGAGATCGAGGTCTCGATACCTTATTTTTACCCAATTTCTTC
*
37916263 AATAATTTCTTTTTCTAACTAACCACTAAATCGGTAAAATT
66 AATAATTTCTTTTTCTAACTAACCACCAAATCGGTAAAATT
37916304 AAAATATTTTTGACTCAGTTTTACGAGATCGAGGTCTCGATACCTTATTTTTACCCAATTTCTTC
1 AAAATATTTTTGACTCAGTTTTACGAGATCGAGGTCTCGATACCTTATTTTTACCCAATTTCTTC
* *
37916369 AATAATTTCTTTTTCTAAGTAACTACCAAATCGGTAAAATT
66 AATAATTTCTTTTTCTAACTAACCACCAAATCGGTAAAATT
37916410 CTTCTACCTA
Statistics
Matches: 103, Mismatches: 3, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
106 103 1.00
ACGTcount: A:0.31, C:0.18, G:0.10, T:0.41
Consensus pattern (106 bp):
AAAATATTTTTGACTCAGTTTTACGAGATCGAGGTCTCGATACCTTATTTTTACCCAATTTCTTC
AATAATTTCTTTTTCTAACTAACCACCAAATCGGTAAAATT
Found at i:37919872 original size:26 final size:26
Alignment explanation
Indices: 37919811--37919872 Score: 67
Period size: 26 Copynumber: 2.4 Consensus size: 26
37919801 AATTTCATAA
37919811 AATT-AAAAATATTAATAAAATATAT
1 AATTAAAAAATATTAATAAAATATAT
**
37919836 AATTACTAAATATTAAATAAAA-ATA-
1 AATTAAAAAATATT-AATAAAATATAT
37919861 AATCTAAAAAAT
1 AAT-TAAAAAAT
37919873 GGGTAACTAT
Statistics
Matches: 30, Mismatches: 4, Indels: 5
0.77 0.10 0.13
Matches are distributed among these distances:
25 7 0.23
26 16 0.53
27 7 0.23
ACGTcount: A:0.65, C:0.03, G:0.00, T:0.32
Consensus pattern (26 bp):
AATTAAAAAATATTAATAAAATATAT
Found at i:37929096 original size:68 final size:68
Alignment explanation
Indices: 37928987--37929183 Score: 385
Period size: 68 Copynumber: 2.9 Consensus size: 68
37928977 ATATGTATAA
37928987 AACTCAGCCTTAATGCCCAAGTAGATGGAATTTAGAACTACTGGGATATTAGTGGCATGCCATTA
1 AACTCAGCCTTAATGCCCAAGTAGATGGAATTTAGAACTACTGGGATATTAGTGGCATGCCATTA
37929052 AGG
66 AGG
37929055 AACTCAGCCTTAATGCCCAAGTAGATGGAATTTAGAACTACTGGGATATTAGTGGCATGCCATTA
1 AACTCAGCCTTAATGCCCAAGTAGATGGAATTTAGAACTACTGGGATATTAGTGGCATGCCATTA
37929120 AGG
66 AGG
*
37929123 AACTCAGCCTTAATGCCCAAGTAGATGGAATTTAGAACTATTGGGATATTAGTGGCATGCC
1 AACTCAGCCTTAATGCCCAAGTAGATGGAATTTAGAACTACTGGGATATTAGTGGCATGCC
37929184 CAAATATGAT
Statistics
Matches: 128, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
68 128 1.00
ACGTcount: A:0.32, C:0.18, G:0.23, T:0.27
Consensus pattern (68 bp):
AACTCAGCCTTAATGCCCAAGTAGATGGAATTTAGAACTACTGGGATATTAGTGGCATGCCATTA
AGG
Found at i:37931130 original size:35 final size:35
Alignment explanation
Indices: 37931090--37931186 Score: 97
Period size: 35 Copynumber: 2.8 Consensus size: 35
37931080 TTTATCATAG
* *
37931090 TGACATGTTTAACATGTGAATCAGAATTAGAATAA
1 TGACATGCTTAACATGTGAATCAGAATCAGAATAA
* ** * * *
37931125 TGACATGCCTAACATACGAACCATAGTCAGAATAA
1 TGACATGCTTAACATGTGAATCAGAATCAGAATAA
*
37931160 T-AGCATGCTCAACATGTGAATCAGAAT
1 TGA-CATGCTTAACATGTGAATCAGAAT
37931187 ATCAATAAAT
Statistics
Matches: 46, Mismatches: 15, Indels: 2
0.73 0.24 0.03
Matches are distributed among these distances:
34 1 0.02
35 45 0.98
ACGTcount: A:0.41, C:0.16, G:0.16, T:0.26
Consensus pattern (35 bp):
TGACATGCTTAACATGTGAATCAGAATCAGAATAA
Found at i:37937297 original size:16 final size:16
Alignment explanation
Indices: 37937270--37937321 Score: 56
Period size: 16 Copynumber: 3.4 Consensus size: 16
37937260 AGTTTCGTCA
37937270 CTATAG-TTTCAGAAT
1 CTATAGTTTTCAGAAT
37937285 CTATAGTTTTCAGAAT
1 CTATAGTTTTCAGAAT
** *
37937301 -T-TAGAGTTCACAAT
1 CTATAGTTTTCAGAAT
37937315 CTATAGT
1 CTATAGT
37937322 AATCTATATT
Statistics
Matches: 30, Mismatches: 4, Indels: 5
0.77 0.10 0.13
Matches are distributed among these distances:
14 10 0.33
15 8 0.27
16 12 0.40
ACGTcount: A:0.33, C:0.13, G:0.13, T:0.40
Consensus pattern (16 bp):
CTATAGTTTTCAGAAT
Found at i:37938755 original size:35 final size:35
Alignment explanation
Indices: 37938708--37938786 Score: 113
Period size: 35 Copynumber: 2.3 Consensus size: 35
37938698 TTTATCACAG
*
37938708 TGGCATGTTTAACATACGAATCAAAATCAAAATAA
1 TGGCATGCTTAACATACGAATCAAAATCAAAATAA
* * *
37938743 TGGCATGCTTAACATGCGAATCATAATCAGAATAA
1 TGGCATGCTTAACATACGAATCAAAATCAAAATAA
*
37938778 TAGCATGCT
1 TGGCATGCT
37938787 CAATATGCGA
Statistics
Matches: 39, Mismatches: 5, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
35 39 1.00
ACGTcount: A:0.42, C:0.16, G:0.15, T:0.27
Consensus pattern (35 bp):
TGGCATGCTTAACATACGAATCAAAATCAAAATAA
Found at i:37938795 original size:35 final size:35
Alignment explanation
Indices: 37938718--37938804 Score: 111
Period size: 35 Copynumber: 2.5 Consensus size: 35
37938708 TGGCATGTTT
* * * *
37938718 AACATACGAATCAAAATCAAAATAATGGCATGCTT
1 AACATGCGAATCATAATCAAAATAATAGCATGCTC
*
37938753 AACATGCGAATCATAATCAGAATAATAGCATGCTC
1 AACATGCGAATCATAATCAAAATAATAGCATGCTC
* *
37938788 AATATGCGAAACATAAT
1 AACATGCGAATCATAAT
37938805 ATCAATAAAT
Statistics
Matches: 45, Mismatches: 7, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
35 45 1.00
ACGTcount: A:0.47, C:0.17, G:0.13, T:0.23
Consensus pattern (35 bp):
AACATGCGAATCATAATCAAAATAATAGCATGCTC
Found at i:37943260 original size:38 final size:38
Alignment explanation
Indices: 37943209--37943299 Score: 114
Period size: 38 Copynumber: 2.4 Consensus size: 38
37943199 AATGCGGTAT
*
37943209 GACATGCTTAACATGTATTCAGTTC-AATAGTAGTAGTA
1 GACATGCTTAACATGTATTCAGTTCAAAT-GTAATAGTA
* *
37943247 GACATGCTTAACATATATTCGGTTCAAATGTAATAGTA
1 GACATGCTTAACATGTATTCAGTTCAAATGTAATAGTA
*
37943285 GGCATG-TTAAACATG
1 GACATGCTT-AACATG
37943300 CAATCGATAA
Statistics
Matches: 46, Mismatches: 5, Indels: 4
0.84 0.09 0.07
Matches are distributed among these distances:
37 2 0.04
38 41 0.89
39 3 0.07
ACGTcount: A:0.35, C:0.13, G:0.19, T:0.33
Consensus pattern (38 bp):
GACATGCTTAACATGTATTCAGTTCAAATGTAATAGTA
Found at i:37944441 original size:29 final size:30
Alignment explanation
Indices: 37944407--37944474 Score: 97
Period size: 29 Copynumber: 2.3 Consensus size: 30
37944397 ACCCTTAACT
37944407 ATTAATCGAAAC-GAAATTTATTT-AAAAAA
1 ATTAATCGAAACTGAAATTT-TTTCAAAAAA
37944436 ATTAATCG-AACTGAAATTTTTTCAAAAAA
1 ATTAATCGAAACTGAAATTTTTTCAAAAAA
*
37944465 ATTAACCGAA
1 ATTAATCGAA
37944475 CCAAACTTTT
Statistics
Matches: 35, Mismatches: 1, Indels: 5
0.85 0.02 0.12
Matches are distributed among these distances:
28 6 0.17
29 28 0.80
30 1 0.03
ACGTcount: A:0.51, C:0.10, G:0.07, T:0.31
Consensus pattern (30 bp):
ATTAATCGAAACTGAAATTTTTTCAAAAAA
Found at i:37944484 original size:29 final size:29
Alignment explanation
Indices: 37944420--37944486 Score: 84
Period size: 29 Copynumber: 2.3 Consensus size: 29
37944410 AATCGAAACG
* *
37944420 AAATTTATTT-AAAAAAATTAATCGAACTG
1 AAATTT-TTTCAAAAAAATTAACCGAACTC
37944449 AAATTTTTTCAAAAAAATTAACCGAAC-C
1 AAATTTTTTCAAAAAAATTAACCGAACTC
*
37944477 AAACTTTTTC
1 AAATTTTTTC
37944487 GGTTAATTCG
Statistics
Matches: 34, Mismatches: 3, Indels: 3
0.85 0.08 0.08
Matches are distributed among these distances:
28 12 0.35
29 22 0.65
ACGTcount: A:0.48, C:0.13, G:0.04, T:0.34
Consensus pattern (29 bp):
AAATTTTTTCAAAAAAATTAACCGAACTC
Found at i:37947603 original size:17 final size:17
Alignment explanation
Indices: 37947577--37947613 Score: 65
Period size: 17 Copynumber: 2.2 Consensus size: 17
37947567 TAGGCTAAAT
37947577 GAGGTCGAGAGATAAGC
1 GAGGTCGAGAGATAAGC
*
37947594 GAGGTTGAGAGATAAGC
1 GAGGTCGAGAGATAAGC
37947611 GAG
1 GAG
37947614 TATCAACCAA
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
17 19 1.00
ACGTcount: A:0.35, C:0.08, G:0.43, T:0.14
Consensus pattern (17 bp):
GAGGTCGAGAGATAAGC
Found at i:37949091 original size:23 final size:23
Alignment explanation
Indices: 37949017--37949110 Score: 91
Period size: 23 Copynumber: 4.1 Consensus size: 23
37949007 ACACGTAATT
*
37949017 TTCTATAAAGCCTTTGTGGCATA
1 TTCTGTAAAGCCTTTGTGGCATA
**
37949040 TTC-GATAAAGCCTACGTGGCATA
1 TTCTG-TAAAGCCTTTGTGGCATA
* *
37949063 TTCTGTAAAGTCTTTGTGGAATA
1 TTCTGTAAAGCCTTTGTGGCATA
* * * *
37949086 TTCTGTGATGCCTGTGTGGCGTA
1 TTCTGTAAAGCCTTTGTGGCATA
37949109 TT
1 TT
37949111 AGTAACGCCC
Statistics
Matches: 56, Mismatches: 13, Indels: 4
0.77 0.18 0.05
Matches are distributed among these distances:
23 55 0.98
24 1 0.02
ACGTcount: A:0.22, C:0.16, G:0.23, T:0.38
Consensus pattern (23 bp):
TTCTGTAAAGCCTTTGTGGCATA
Found at i:37949784 original size:47 final size:47
Alignment explanation
Indices: 37949715--37949808 Score: 188
Period size: 47 Copynumber: 2.0 Consensus size: 47
37949705 TATCCGCCAA
37949715 TAATAGTATCTATGAGTACCCCATTCTGAGGTAGGTATTCAACATCT
1 TAATAGTATCTATGAGTACCCCATTCTGAGGTAGGTATTCAACATCT
37949762 TAATAGTATCTATGAGTACCCCATTCTGAGGTAGGTATTCAACATCT
1 TAATAGTATCTATGAGTACCCCATTCTGAGGTAGGTATTCAACATCT
37949809 AACAGAGTGA
Statistics
Matches: 47, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
47 47 1.00
ACGTcount: A:0.30, C:0.19, G:0.17, T:0.34
Consensus pattern (47 bp):
TAATAGTATCTATGAGTACCCCATTCTGAGGTAGGTATTCAACATCT
Found at i:37967644 original size:50 final size:50
Alignment explanation
Indices: 37967578--37967809 Score: 266
Period size: 50 Copynumber: 4.6 Consensus size: 50
37967568 TCTTGTACTA
* * * ** *
37967578 CCAATGCCATATCCCAGATATGGTCTTACATGAGAGTTCTCATATAGGTG
1 CCAACGCCATGTCCCAGACATGGTCTTACATGAGACCTCTCATCTAGGTG
* * ** * *
37967628 CCCATGCCATGTCCCAGACATGGTCTTACGGGGGACCTCTCATCTTGGTG
1 CCAACGCCATGTCCCAGACATGGTCTTACATGAGACCTCTCATCTAGGTG
* * *
37967678 CCAACGTCATGTCCCAAACATGGTCTTACATGAGACCTCTCATCTCGGTG
1 CCAACGCCATGTCCCAGACATGGTCTTACATGAGACCTCTCATCTAGGTG
* ** * *
37967728 CCGACGCCATGTCCCAGACATGGTCTTACGGGGGACCTCTCATCTTGGTG
1 CCAACGCCATGTCCCAGACATGGTCTTACATGAGACCTCTCATCTAGGTG
* *
37967778 CCAACGTCATGTCCCAAACATGGTCTTACATG
1 CCAACGCCATGTCCCAGACATGGTCTTACATG
37967810 GGATCTCTTT
Statistics
Matches: 152, Mismatches: 30, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
50 152 1.00
ACGTcount: A:0.22, C:0.30, G:0.22, T:0.26
Consensus pattern (50 bp):
CCAACGCCATGTCCCAGACATGGTCTTACATGAGACCTCTCATCTAGGTG
Found at i:37967706 original size:100 final size:100
Alignment explanation
Indices: 37967597--37967809 Score: 372
Period size: 100 Copynumber: 2.1 Consensus size: 100
37967587 TATCCCAGAT
** *
37967597 ATGGTCTTACATGAGAGTTCTCATATAGGTGCCCATGCCATGTCCCAGACATGGTCTTACGGGGG
1 ATGGTCTTACATGAGACCTCTCATATAGGTGCCCACGCCATGTCCCAGACATGGTCTTACGGGGG
37967662 ACCTCTCATCTTGGTGCCAACGTCATGTCCCAAAC
66 ACCTCTCATCTTGGTGCCAACGTCATGTCCCAAAC
* * *
37967697 ATGGTCTTACATGAGACCTCTCATCTCGGTGCCGACGCCATGTCCCAGACATGGTCTTACGGGGG
1 ATGGTCTTACATGAGACCTCTCATATAGGTGCCCACGCCATGTCCCAGACATGGTCTTACGGGGG
37967762 ACCTCTCATCTTGGTGCCAACGTCATGTCCCAAAC
66 ACCTCTCATCTTGGTGCCAACGTCATGTCCCAAAC
37967797 ATGGTCTTACATG
1 ATGGTCTTACATG
37967810 GGATCTCTTT
Statistics
Matches: 107, Mismatches: 6, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
100 107 1.00
ACGTcount: A:0.21, C:0.29, G:0.23, T:0.27
Consensus pattern (100 bp):
ATGGTCTTACATGAGACCTCTCATATAGGTGCCCACGCCATGTCCCAGACATGGTCTTACGGGGG
ACCTCTCATCTTGGTGCCAACGTCATGTCCCAAAC
Found at i:37978283 original size:21 final size:22
Alignment explanation
Indices: 37978259--37978301 Score: 70
Period size: 21 Copynumber: 2.0 Consensus size: 22
37978249 AACCCCCACA
*
37978259 CTTTTTTTAGATAAAAA-TATT
1 CTTTTTTTAGAGAAAAAGTATT
37978280 CTTTTTTTAGAGAAAAAGTATT
1 CTTTTTTTAGAGAAAAAGTATT
37978302 TCTCTCAAGC
Statistics
Matches: 20, Mismatches: 1, Indels: 1
0.91 0.05 0.05
Matches are distributed among these distances:
21 16 0.80
22 4 0.20
ACGTcount: A:0.37, C:0.05, G:0.09, T:0.49
Consensus pattern (22 bp):
CTTTTTTTAGAGAAAAAGTATT
Found at i:37989571 original size:23 final size:22
Alignment explanation
Indices: 37989526--37989571 Score: 56
Period size: 23 Copynumber: 2.0 Consensus size: 22
37989516 TAAACTACCA
*
37989526 ACTAAAACCAGAAAAGCTAAAG
1 ACTAAAACCAGAAAAGATAAAG
* *
37989548 ACTAAACCCTAGAAAAGATGAAG
1 ACTAAAACC-AGAAAAGATAAAG
37989571 A
1 A
37989572 AGACTAACTA
Statistics
Matches: 20, Mismatches: 3, Indels: 1
0.83 0.12 0.04
Matches are distributed among these distances:
22 8 0.40
23 12 0.60
ACGTcount: A:0.57, C:0.17, G:0.15, T:0.11
Consensus pattern (22 bp):
ACTAAAACCAGAAAAGATAAAG
Found at i:37991590 original size:30 final size:30
Alignment explanation
Indices: 37991556--37991628 Score: 110
Period size: 30 Copynumber: 2.4 Consensus size: 30
37991546 CCTTGTGGCA
* *
37991556 CACACGGCTGTGTCGCACGGTCGTGTCTTG
1 CACACGGCCGTGTCGCAAGGTCGTGTCTTG
*
37991586 CACACGGCCATGTCGCAAGGTCGTGTCTTG
1 CACACGGCCGTGTCGCAAGGTCGTGTCTTG
*
37991616 CACTCGGCCGTGT
1 CACACGGCCGTGT
37991629 GTCTTGCCCG
Statistics
Matches: 38, Mismatches: 5, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
30 38 1.00
ACGTcount: A:0.12, C:0.32, G:0.32, T:0.25
Consensus pattern (30 bp):
CACACGGCCGTGTCGCAAGGTCGTGTCTTG
Found at i:37991591 original size:17 final size:17
Alignment explanation
Indices: 37991571--37991628 Score: 52
Period size: 17 Copynumber: 3.6 Consensus size: 17
37991561 GGCTGTGTCG
*
37991571 CACGGTCGTGTCTTGCA
1 CACGGCCGTGTCTTGCA
*
37991588 CACGGCCATGTC--GCA
1 CACGGCCGTGTCTTGCA
*
37991603 -A-GGTCGTGTCTTGCA
1 CACGGCCGTGTCTTGCA
*
37991618 CTCGGCCGTGT
1 CACGGCCGTGT
37991629 GTCTTGCCCG
Statistics
Matches: 31, Mismatches: 6, Indels: 8
0.69 0.13 0.18
Matches are distributed among these distances:
13 7 0.23
14 1 0.03
15 6 0.19
17 17 0.55
ACGTcount: A:0.12, C:0.31, G:0.31, T:0.26
Consensus pattern (17 bp):
CACGGCCGTGTCTTGCA
Found at i:38007353 original size:87 final size:86
Alignment explanation
Indices: 38007207--38007365 Score: 246
Period size: 87 Copynumber: 1.8 Consensus size: 86
38007197 ATTCGACGAG
* * * *
38007207 TTCATCAAGTCTGTTTCAATAGGACCACCGAAACTCTAGGATATGAACCCATTAAGAGTAAGAAA
1 TTCATCAAGCCTGTCTCAATAGGACCACCCAAACCCTAGGATATGAACCCATTAAGAGTAAG-AA
38007272 CTCAACCTCACATGTCAATGAA
65 CTCAACCTCACATGTCAATGAA
* **
38007294 TTCATCAAGCCTGTCTCAATAGGACCACCCAAACCCTGGGATATGAATTCATTAAGAGTAAGAAC
1 TTCATCAAGCCTGTCTCAATAGGACCACCCAAACCCTAGGATATGAACCCATTAAGAGTAAGAAC
38007359 TCAACCT
66 TCAACCT
38007366 TATGTATGTA
Statistics
Matches: 65, Mismatches: 7, Indels: 1
0.89 0.10 0.01
Matches are distributed among these distances:
86 10 0.15
87 55 0.85
ACGTcount: A:0.36, C:0.25, G:0.15, T:0.24
Consensus pattern (86 bp):
TTCATCAAGCCTGTCTCAATAGGACCACCCAAACCCTAGGATATGAACCCATTAAGAGTAAGAAC
TCAACCTCACATGTCAATGAA
Found at i:38013962 original size:22 final size:23
Alignment explanation
Indices: 38013924--38013971 Score: 64
Period size: 23 Copynumber: 2.1 Consensus size: 23
38013914 AACTTATCAA
38013924 TTCAAATATTATAATAAAAAA-AT
1 TTCAAATA-TATAATAAAAAATAT
38013947 TTCAAATA-ATACATAAAAAATAT
1 TTCAAATATATA-ATAAAAAATAT
38013970 TT
1 TT
38013972 TTAACGTATT
Statistics
Matches: 23, Mismatches: 0, Indels: 4
0.85 0.00 0.15
Matches are distributed among these distances:
21 3 0.13
22 8 0.35
23 12 0.52
ACGTcount: A:0.58, C:0.06, G:0.00, T:0.35
Consensus pattern (23 bp):
TTCAAATATATAATAAAAAATAT
Found at i:38024040 original size:31 final size:29
Alignment explanation
Indices: 38023983--38024040 Score: 71
Period size: 31 Copynumber: 1.9 Consensus size: 29
38023973 TCATGCATAA
*
38023983 AATTGCACAAAACCAAAGTACTTGTATTG
1 AATTGCACAAAACCAAAGTACATGTATTG
* *
38024012 AATTGCACAATAGACTAAAGTTCATGTAT
1 AATTGCACAA-A-ACCAAAGTACATGTAT
38024041 AGTTTTGAGA
Statistics
Matches: 24, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
29 10 0.42
30 1 0.04
31 13 0.54
ACGTcount: A:0.41, C:0.16, G:0.14, T:0.29
Consensus pattern (29 bp):
AATTGCACAAAACCAAAGTACATGTATTG
Found at i:38031425 original size:12 final size:12
Alignment explanation
Indices: 38031395--38031437 Score: 50
Period size: 12 Copynumber: 3.5 Consensus size: 12
38031385 AGAAATTTGC
*
38031395 TTTCTTCTCTCTA
1 TTTCTTCTCT-TT
38031408 TTTCTTCTCTTT
1 TTTCTTCTCTTT
*
38031420 TTTCTTTTCTTT
1 TTTCTTCTCTTT
*
38031432 TCTCTT
1 TTTCTT
38031438 ATTTGCATCA
Statistics
Matches: 27, Mismatches: 3, Indels: 1
0.87 0.10 0.03
Matches are distributed among these distances:
12 17 0.63
13 10 0.37
ACGTcount: A:0.02, C:0.26, G:0.00, T:0.72
Consensus pattern (12 bp):
TTTCTTCTCTTT
Found at i:38035088 original size:489 final size:491
Alignment explanation
Indices: 38034146--38035135 Score: 1691
Period size: 489 Copynumber: 2.0 Consensus size: 491
38034136 ATTATTATAA
38034146 GGGGTATGCAGGCTGAAAGTTTGACCACGAAATATTTTCAAGAAGCCTTCCAAAAGAAATATGTG
1 GGGGTATGCAGGCTGAAAGTTTGACCACGAAATATTTTCAAGAAGCCTTCCAAAAGAAATATGTG
*
38034211 GGCACTAAGTTTAAGTTTATCGAGTTGAAGCAGGGAGATAAGATTGTGGTGGAATATGAGGCTAA
66 GGCACTAAGTTTAAGTTTATCGAGTTGAAGCAGGGAGATAAGATTCTGGTGGAATATGAGGCTAA
* *
38034276 ATTTTTTAGTCTTAGCCGCTATGTTCAGGGTATGGTTGCCATAGGACAAGATAAGTGTGTGAGGT
131 AATTTTTAGTCTTAGCCGCTACGTTCAGGGTATGGTTGCCATAGGACAAGATAAGTGTGTGAGGT
* *
38034341 TCGAAATAGGTTGTGTTTTGACCTCAAAATTCAGGTTTCTCTACTTCAAGAACCGGTGTTTGAGA
196 TCAAAATAGGTTGTGTTTTGACCTCAAAATTCAGGTTTCTCTACTTCAAGAA-----G-TCGAGA
*
38034406 CTCTAGTTGATAAATCCAAAATTATGGAGGAGATCAAACAGGTGGAACACGAAAAATGGAAAAAG
255 -TCTAGTTGAGAAATCCAAAATTATGGAGGAGATCAAACAGGTGGAACACGAAAAATGGAAAAAG
*
38034471 AATACGATCCTGGTTAAAAGGGATTCTAGTTCTACTAACTTAAATACTTGTCCCATAAAGTGAGC
319 AATAAGATCCTGGTTAAAAGGGATTCTAGTTCTACTAACTTAAATACTTGTCCCATAAAGTGAGC
*
38034536 TAGAGAGGGTAAACCGCAACAAGAGGTTGCTGAGGCTAATTTTGGGGATAAAACTTTCAACTGTA
384 TAGAGAGGGTAAACCGCAACAAGAGGTTGCTAAGGCTAATTTTGGGGATAAAACTTTCAACTGTA
*
38034601 TGTATTGTGGTAAGCGCTACCTGGGCGTGTGTTGGAGGAAATT
449 TGTATTGTGGTAAGCGCTACCTAGGCGTGTGTTGGAGGAAATT
* ** *
38034644 GGGGTATGTAGGCTGAAAGTTTGACCTTGAAATA-TTTCTAAGAAGCCTTCCAAAAGAAGTATGT
1 GGGGTATGCAGGCTGAAAGTTTGACCACGAAATATTTTC-AAGAAGCCTTCCAAAAGAAATATGT
* *
38034708 GGGCACTAAGTTTAAGTTTATTGAGTTGAAGTAGGGAGATAAGATTCTGGTGGAATATGAGGCTA
65 GGGCACTAAGTTTAAGTTTATCGAGTTGAAGCAGGGAGATAAGATTCTGGTGGAATATGAGGCTA
38034773 AAATTTTTAGTCTTAGCCGCTACGTTCAGGGTATGGTTGCCATAGGACAAGATAAGTGTGTGAGG
130 AAATTTTTAGTCTTAGCCGCTACGTTCAGGGTATGGTTGCCATAGGACAAGATAAGTGTGTGAGG
* *
38034838 TTCAAAAATAGGTTGTGTTTTGACCTTAAAATTTAGGTTTCTCTACTTCAAGAA-TCG-G-TCTA
195 TTC-AAAATAGGTTGTGTTTTGACCTCAAAATTCAGGTTTCTCTACTTCAAGAAGTCGAGATCTA
*
38034900 GTTGAGAAATCCAAAATTGTGGAGGAGATCAAACAGGTGGAACACGAAAAATGGAAAAAGAATAA
259 GTTGAGAAATCCAAAATTATGGAGGAGATCAAACAGGTGGAACACGAAAAATGGAAAAAGAATAA
*
38034965 GGTCCTGGTTAAAAGGGATTCTAGTTCTACTAACTTAAATACTTGTCCCATAAAGTGAGCTAGAG
324 GATCCTGGTTAAAAGGGATTCTAGTTCTACTAACTTAAATACTTGTCCCATAAAGTGAGCTAGAG
*
38035030 AGGGTAAACCGTAACAAGAGGTTGCTAAGGCTAATTTTGGGGATAAAACTTTCAACTGTATGTAT
389 AGGGTAAACCGCAACAAGAGGTTGCTAAGGCTAATTTTGGGGATAAAACTTTCAACTGTATGTAT
38035095 TGTGGTAAGCGCTACCTAGGCGTGTGTTGGAGGAAATT
454 TGTGGTAAGCGCTACCTAGGCGTGTGTTGGAGGAAATT
38035133 GGG
1 GGG
38035136 TGCTTGTCTA
Statistics
Matches: 470, Mismatches: 20, Indels: 13
0.93 0.04 0.03
Matches are distributed among these distances:
489 233 0.50
491 1 0.00
492 2 0.00
497 4 0.01
498 183 0.39
499 47 0.10
ACGTcount: A:0.32, C:0.13, G:0.26, T:0.29
Consensus pattern (491 bp):
GGGGTATGCAGGCTGAAAGTTTGACCACGAAATATTTTCAAGAAGCCTTCCAAAAGAAATATGTG
GGCACTAAGTTTAAGTTTATCGAGTTGAAGCAGGGAGATAAGATTCTGGTGGAATATGAGGCTAA
AATTTTTAGTCTTAGCCGCTACGTTCAGGGTATGGTTGCCATAGGACAAGATAAGTGTGTGAGGT
TCAAAATAGGTTGTGTTTTGACCTCAAAATTCAGGTTTCTCTACTTCAAGAAGTCGAGATCTAGT
TGAGAAATCCAAAATTATGGAGGAGATCAAACAGGTGGAACACGAAAAATGGAAAAAGAATAAGA
TCCTGGTTAAAAGGGATTCTAGTTCTACTAACTTAAATACTTGTCCCATAAAGTGAGCTAGAGAG
GGTAAACCGCAACAAGAGGTTGCTAAGGCTAATTTTGGGGATAAAACTTTCAACTGTATGTATTG
TGGTAAGCGCTACCTAGGCGTGTGTTGGAGGAAATT
Found at i:38046051 original size:26 final size:25
Alignment explanation
Indices: 38045983--38046055 Score: 83
Period size: 26 Copynumber: 2.8 Consensus size: 25
38045973 TCCCATCCCT
*
38045983 ATTTTATCCTTAGCAAAATTTTGACG
1 ATTTTA-CCTTAGTAAAATTTTGACG
* *
38046009 ATTTTACCTTTGATAAAATTTTGATG
1 ATTTTACCTTAG-TAAAATTTTGACG
*
38046035 ATTTTGCCCTTAGTAAAATTT
1 ATTTT-ACCTTAGTAAAATTT
38046056 CGAGAAAATA
Statistics
Matches: 40, Mismatches: 5, Indels: 4
0.82 0.10 0.08
Matches are distributed among these distances:
25 5 0.12
26 30 0.75
27 5 0.12
ACGTcount: A:0.30, C:0.12, G:0.11, T:0.47
Consensus pattern (25 bp):
ATTTTACCTTAGTAAAATTTTGACG
Found at i:38046365 original size:23 final size:21
Alignment explanation
Indices: 38046315--38046367 Score: 70
Period size: 21 Copynumber: 2.4 Consensus size: 21
38046305 ATTAATTCCT
* *
38046315 TTCATTTCTATTCAAATACAA
1 TTCATTTTTATTCAAACACAA
38046336 TTCATTTTTATTCAAACACACGA
1 TTCATTTTTATTCAAACACA--A
38046359 TTCATTTTT
1 TTCATTTTT
38046368 GGTTTCAACG
Statistics
Matches: 28, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
21 18 0.64
23 10 0.36
ACGTcount: A:0.32, C:0.19, G:0.02, T:0.47
Consensus pattern (21 bp):
TTCATTTTTATTCAAACACAA
Found at i:38064112 original size:21 final size:21
Alignment explanation
Indices: 38064071--38064188 Score: 110
Period size: 21 Copynumber: 5.6 Consensus size: 21
38064061 ACGGGCTGCT
* **
38064071 CACACGGGCGTGTCTCCCCTC
1 CACACGGGCGTGTGTGGCCTC
* *
38064092 CACATGGGTGTGTGTGGCCTC
1 CACACGGGCGTGTGTGGCCTC
* *
38064113 TACACGGGCGTGTGTGGCCTA
1 CACACGGGCGTGTGTGGCCTC
* * *
38064134 CACACAGACGTGTGTAGCCTC
1 CACACGGGCGTGTGTGGCCTC
* * *
38064155 CACACAGACGTGTGTGGCCTT
1 CACACGGGCGTGTGTGGCCTC
*
38064176 CACACGGGTGTGT
1 CACACGGGCGTGT
38064189 AAACCCTCAC
Statistics
Matches: 78, Mismatches: 19, Indels: 0
0.80 0.20 0.00
Matches are distributed among these distances:
21 78 1.00
ACGTcount: A:0.15, C:0.31, G:0.31, T:0.23
Consensus pattern (21 bp):
CACACGGGCGTGTGTGGCCTC
Found at i:38067291 original size:23 final size:23
Alignment explanation
Indices: 38067257--38067316 Score: 70
Period size: 21 Copynumber: 2.6 Consensus size: 23
38067247 ATAAAGTAGG
*
38067257 TTATATATTAT-TTTTGTAA-TA
1 TTATATATTATATTTTTTAATTA
*
38067278 TTATATATTATATTTTTTAATTC
1 TTATATATTATATTTTTTAATTA
38067301 TTATAATAATTATATT
1 TTAT-AT-ATTATATT
38067317 AAGAATGCTA
Statistics
Matches: 33, Mismatches: 2, Indels: 4
0.85 0.05 0.10
Matches are distributed among these distances:
21 11 0.33
22 7 0.21
23 5 0.15
24 2 0.06
25 8 0.24
ACGTcount: A:0.35, C:0.02, G:0.02, T:0.62
Consensus pattern (23 bp):
TTATATATTATATTTTTTAATTA
Found at i:38067372 original size:58 final size:60
Alignment explanation
Indices: 38067303--38067440 Score: 176
Period size: 61 Copynumber: 2.3 Consensus size: 60
38067293 TTTAATTCTT
* * *
38067303 ATAATAATTATATTAAGA-ATGCTATTAAATTA-TA-TATTA-TTTTATTAAATTGTATTTA
1 ATAATAATTATATTAAAATATG--ATTAAATTATTATTATTATTTTTATTAAAATATATTTA
*
38067361 ATAATAATTATATTAAAATATGATTAAATTATTTATTTTTATTTTTATTAAAATATATTTA
1 ATAATAATTATATTAAAATATGATTAAATTA-TTATTATTATTTTTATTAAAATATATTTA
*
38067422 ATAATAATTTTATTAAAAT
1 ATAATAATTATATTAAAAT
38067441 TTAATAACAA
Statistics
Matches: 70, Mismatches: 5, Indels: 7
0.85 0.06 0.09
Matches are distributed among these distances:
57 9 0.13
58 17 0.24
59 5 0.07
60 4 0.06
61 35 0.50
ACGTcount: A:0.45, C:0.01, G:0.03, T:0.51
Consensus pattern (60 bp):
ATAATAATTATATTAAAATATGATTAAATTATTATTATTATTTTTATTAAAATATATTTA
Found at i:38067620 original size:16 final size:16
Alignment explanation
Indices: 38067599--38067634 Score: 54
Period size: 16 Copynumber: 2.2 Consensus size: 16
38067589 TGAATTACTG
*
38067599 ATTACAACTCTATTCA
1 ATTACAACCCTATTCA
*
38067615 ATTACAACCCTATTCT
1 ATTACAACCCTATTCA
38067631 ATTA
1 ATTA
38067635 TAGTGAACCA
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
16 18 1.00
ACGTcount: A:0.36, C:0.25, G:0.00, T:0.39
Consensus pattern (16 bp):
ATTACAACCCTATTCA
Found at i:38069418 original size:27 final size:27
Alignment explanation
Indices: 38069388--38069510 Score: 129
Period size: 27 Copynumber: 4.6 Consensus size: 27
38069378 TGGAAATATA
** * *
38069388 TGAAAGGAATGCCTTTGTGGTAGACTC
1 TGAAAGGAATGCCTTCATGGAAAACTC
* * * *
38069415 TGAAGGGAATGCCTTCGTGGTAGACTC
1 TGAAAGGAATGCCTTCATGGAAAACTC
* * *
38069442 TGAATGGAATGCATTCATGGAAAACTT
1 TGAAAGGAATGCCTTCATGGAAAACTC
38069469 TGAAAGGAATGCCTTCATGGAAAACTC
1 TGAAAGGAATGCCTTCATGGAAAACTC
* *
38069496 TAAAAAGAATGCCTT
1 TGAAAGGAATGCCTT
38069511 GACAACGTAC
Statistics
Matches: 83, Mismatches: 13, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
27 83 1.00
ACGTcount: A:0.33, C:0.15, G:0.25, T:0.27
Consensus pattern (27 bp):
TGAAAGGAATGCCTTCATGGAAAACTC
Found at i:38075013 original size:597 final size:593
Alignment explanation
Indices: 38073884--38075077 Score: 1987
Period size: 597 Copynumber: 2.0 Consensus size: 593
38073874 ATGAGGCAGT
38073884 TATAGTTACAACAGAGTAGGTGAGTACTCCAAGGATCGTACCTAAGGGAGGAAAGTACTAGATCG
1 TATAGTTACAACAGAGTAGGTGAGTACTCCAAGGATCGTACCTAAGGGAGGAAAGTACTAGATCG
* *
38073949 ATTTTAACCTAAACACAAAAAGATCTAATTAGTACTTTAAGTCAGTTATAGTACAATAGTAAAGG
66 ATTTCAACCTAAACACAAAAAGATCTAATTAGTACTTCAAGTCAGTTATAGTACAATAGTAAAGG
*
38074014 TAAAAAGGAGTTTTTATGATTTTTATGAATAATAAAATAACATTAAAGAAACAAAAATTGAGAGA
131 TAAAAAGGAGTTTTTATGATTTTTATGAATAATAAAATAAAATTAAAGAAACAAAAATTGAGAGA
* * *
38074079 TTAAAGAATAGAAATAATTGAATATGATTATGAGTGATTAGCTCGTTTCAGTAATCCTCATCAAC
196 TTAAAGAATAAAAAAAATTGAATATGATTATGAGTGATTAGCTCGCTTCAGTAATCCTCATCAAC
* * * *
38074144 TGTCACTTTGGGTTCTTCATCAGTCAACTAGTCACCATGCCAACATGATCTTCTAATTTTCCACT
261 TGTCACTTTGGGTTCCTCATCAATCAACTAGTCACCATGCCAACAGGATCTTCTAATCTTCCACT
* * ** *
38074209 CGAATAACGAGTCAGCAATGACTACTTGTCTTTCGACCTTATAATCTGGAGCAGTTTGGGTTGAA
326 CGAATAACGAGTCAGCAATAACTACTTGTCTTTCAACCTTATAATCCAGAGCAGTTTGGGTTAAA
**
38074274 GGTGTTCACAGATGGGAATACCAATTTTGGGTTAATTTCTACCTTGATGACTTCTCAAGGTTGTC
391 GGCATTCACAGATGGGAATACCAATTTTGGGTTAATTTCTACCTTGATGACTTCTCAAGGTTGTC
* *
38074339 AGGCCTAGGGTTTGTTTTACGTTCTTCCTTTCCTAAATAGTTGATCCGTTAAGTATCCCTACAAA
456 AGGCCTAGGGTTTATTTTACGTTCTTCCTTTCCCAAATAGTTGATCCGTTAAGTATCCCTACAAA
* *
38074404 ATAGTTAACAGATCATGCCTCCACTCGCTAATCCCTCATAGATGGATTAGTTCCTCATGGTCTCC
521 ATAGTTAACAGATCATGCCTCCACTCGCTAATCCCTCATAGAGGGATTAGTTCCTCATAGTCTCC
38074469 ATAAACAA
586 ATAAACAA
* * * *
38074477 TATAGTTACAACGGAGTAGGTGAGTACTCCGAGGATCGTACCTAAGGGAGGCAAGTGCTAGATCG
1 TATAGTTACAACAGAGTAGGTGAGTACTCCAAGGATCGTACCTAAGGGAGGAAAGTACTAGATCG
**
38074542 ATTTCAACCTAAACATGAAAAGATCTAATTAGTACTTCAAGTCAGTTATAGTACAATAGTAAAGG
66 ATTTCAACCTAAACACAAAAAGATCTAATTAGTACTTCAAGTCAGTTATAGTACAATAGTAAAGG
38074607 TAAAAAGGAGTTTTTATGATTTTTATGAATAATAAAATAAAATAACATAAAGAAACAAAAATTGA
131 TAAAAAGGAGTTTTTATGATTTTTATGAATAATAAAATAAAAT----TAAAGAAACAAAAATTGA
*
38074672 GAGATTGAAGAATAAAAAAAATTGAATATGATTATGAGTGATTAGCTCGCTTCAGTAATCCTCAT
192 GAGATTAAAGAATAAAAAAAATTGAATATGATTATGAGTGATTAGCTCGCTTCAGTAATCCTCAT
* * * *
38074737 CAACTGTCGCTTTGGGTTCCTCATCAATCAACTAGTCACCATGCCAGCAGGATCTTTTGATCTTC
257 CAACTGTCACTTTGGGTTCCTCATCAATCAACTAGTCACCATGCCAACAGGATCTTCTAATCTTC
* *
38074802 CACTCGAATAACGAGTCGGCAATAACTACTTGTCTTTCAACCTTATAGTCCAGA-CTAGTTTAGG
322 CACTCGAATAACGAGTCAGCAATAACTACTTGTCTTTCAACCTTATAATCCAGAGC-AGTTT-GG
*
38074866 G-TAAAGGCATTCACGGATGGGAATACCAATTTTGGGTTAATTTCTACCTTGATGACTTCTCAAG
385 GTTAAAGGCATTCACAGATGGGAATACCAATTTTGGGTTAATTTCTACCTTGATGACTTCTCAAG
*
38074930 GTTGTCAGGCCTAGGGTTTATTTTACGTTTTTCCTTTCCCAAATAGTTGATCCGTTAAGTATCCC
450 GTTGTCAGGCCTAGGGTTTATTTTACGTTCTTCCTTTCCCAAATAGTTGATCCGTTAAGTATCCC
*
38074995 TAGAAAATAGTTAACAGATCATGCCTCCACTCGCTAATCCCTCATAGAGGGATTAGTTCCTCATA
515 TACAAAATAGTTAACAGATCATGCCTCCACTCGCTAATCCCTCATAGAGGGATTAGTTCCTCATA
38075060 GTCTCCATAAACAA
580 GTCTCCATAAACAA
38075074 TATA
1 TATA
38075078 AAATCGATAT
Statistics
Matches: 558, Mismatches: 37, Indels: 8
0.93 0.06 0.01
Matches are distributed among these distances:
593 164 0.29
596 1 0.00
597 390 0.70
598 3 0.01
ACGTcount: A:0.33, C:0.18, G:0.18, T:0.31
Consensus pattern (593 bp):
TATAGTTACAACAGAGTAGGTGAGTACTCCAAGGATCGTACCTAAGGGAGGAAAGTACTAGATCG
ATTTCAACCTAAACACAAAAAGATCTAATTAGTACTTCAAGTCAGTTATAGTACAATAGTAAAGG
TAAAAAGGAGTTTTTATGATTTTTATGAATAATAAAATAAAATTAAAGAAACAAAAATTGAGAGA
TTAAAGAATAAAAAAAATTGAATATGATTATGAGTGATTAGCTCGCTTCAGTAATCCTCATCAAC
TGTCACTTTGGGTTCCTCATCAATCAACTAGTCACCATGCCAACAGGATCTTCTAATCTTCCACT
CGAATAACGAGTCAGCAATAACTACTTGTCTTTCAACCTTATAATCCAGAGCAGTTTGGGTTAAA
GGCATTCACAGATGGGAATACCAATTTTGGGTTAATTTCTACCTTGATGACTTCTCAAGGTTGTC
AGGCCTAGGGTTTATTTTACGTTCTTCCTTTCCCAAATAGTTGATCCGTTAAGTATCCCTACAAA
ATAGTTAACAGATCATGCCTCCACTCGCTAATCCCTCATAGAGGGATTAGTTCCTCATAGTCTCC
ATAAACAA
Found at i:38090183 original size:27 final size:27
Alignment explanation
Indices: 38090135--38090195 Score: 70
Period size: 27 Copynumber: 2.3 Consensus size: 27
38090125 AATTTTTAAT
* * *
38090135 TATTTTTTAATTTTATTTAAAATTTTA
1 TATTTTTTAATTGTATTCAAAAGTTTA
*
38090162 TATTTTTTATATTGT-TTCAAAAGTTTC
1 TATTTTTTA-ATTGTATTCAAAAGTTTA
38090189 TATTTTT
1 TATTTTT
38090196 CTTTAAAAAT
Statistics
Matches: 29, Mismatches: 4, Indels: 2
0.83 0.11 0.06
Matches are distributed among these distances:
27 25 0.86
28 4 0.14
ACGTcount: A:0.28, C:0.03, G:0.03, T:0.66
Consensus pattern (27 bp):
TATTTTTTAATTGTATTCAAAAGTTTA
Found at i:38101134 original size:3 final size:3
Alignment explanation
Indices: 38101126--38101200 Score: 141
Period size: 3 Copynumber: 25.0 Consensus size: 3
38101116 TTAATGGCGT
38101126 TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC
1 TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC
*
38101174 TTC TTC TTC TTT TTC TTC TTC TTC TTC
1 TTC TTC TTC TTC TTC TTC TTC TTC TTC
38101201 GATTGAAGAA
Statistics
Matches: 70, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
3 70 1.00
ACGTcount: A:0.00, C:0.32, G:0.00, T:0.68
Consensus pattern (3 bp):
TTC
Found at i:38110967 original size:18 final size:19
Alignment explanation
Indices: 38110927--38110976 Score: 75
Period size: 18 Copynumber: 2.6 Consensus size: 19
38110917 TTCCAAAAAG
38110927 TATCGATATCCATATGATTTT
1 TATCGATA-CCATAT-ATTTT
38110948 TATCGATACCATAT-TTTT
1 TATCGATACCATATATTTT
38110966 TATCGATACCA
1 TATCGATACCA
38110977 AAGTTCCTTA
Statistics
Matches: 29, Mismatches: 0, Indels: 3
0.91 0.00 0.09
Matches are distributed among these distances:
18 15 0.52
20 6 0.21
21 8 0.28
ACGTcount: A:0.30, C:0.18, G:0.08, T:0.44
Consensus pattern (19 bp):
TATCGATACCATATATTTT
Found at i:38112507 original size:118 final size:118
Alignment explanation
Indices: 38112299--38112535 Score: 474
Period size: 118 Copynumber: 2.0 Consensus size: 118
38112289 TAGCGAGGTG
38112299 AGGGGAGAGCTTATTGCTACTCAAGTTACAAGAAGTCGTGATTCGACATAACCTTTTCGTGATAA
1 AGGGGAGAGCTTATTGCTACTCAAGTTACAAGAAGTCGTGATTCGACATAACCTTTTCGTGATAA
38112364 ACTTTTCATGTATCATATTCTTTTATCCTTTATATCTAAATTGGACACAAGTC
66 ACTTTTCATGTATCATATTCTTTTATCCTTTATATCTAAATTGGACACAAGTC
38112417 AGGGGAGAGCTTATTGCTACTCAAGTTACAAGAAGTCGTGATTCGACATAACCTTTTCGTGATAA
1 AGGGGAGAGCTTATTGCTACTCAAGTTACAAGAAGTCGTGATTCGACATAACCTTTTCGTGATAA
38112482 ACTTTTCATGTATCATATTCTTTTATCCTTTATATCTAAATTGGACACAAGTC
66 ACTTTTCATGTATCATATTCTTTTATCCTTTATATCTAAATTGGACACAAGTC
38112535 A
1 A
38112536 TGGTATAGTC
Statistics
Matches: 119, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
118 119 1.00
ACGTcount: A:0.30, C:0.18, G:0.16, T:0.36
Consensus pattern (118 bp):
AGGGGAGAGCTTATTGCTACTCAAGTTACAAGAAGTCGTGATTCGACATAACCTTTTCGTGATAA
ACTTTTCATGTATCATATTCTTTTATCCTTTATATCTAAATTGGACACAAGTC
Found at i:38116734 original size:20 final size:21
Alignment explanation
Indices: 38116697--38116735 Score: 53
Period size: 21 Copynumber: 1.9 Consensus size: 21
38116687 ATGCAGCAAG
*
38116697 AAAAGAAATTCACTATTCAGA
1 AAAAGAAAATCACTATTCAGA
*
38116718 AAAAGAAAATGAC-ATTCA
1 AAAAGAAAATCACTATTCA
38116736 AATCACCCAA
Statistics
Matches: 16, Mismatches: 2, Indels: 1
0.84 0.11 0.05
Matches are distributed among these distances:
20 5 0.31
21 11 0.69
ACGTcount: A:0.56, C:0.13, G:0.10, T:0.21
Consensus pattern (21 bp):
AAAAGAAAATCACTATTCAGA
Found at i:38118329 original size:26 final size:26
Alignment explanation
Indices: 38118300--38118350 Score: 68
Period size: 26 Copynumber: 2.0 Consensus size: 26
38118290 AAGTAAAATA
*
38118300 TGTAAAATATTCTAAAA-ATTTATATT
1 TGTAAAATATT-TAAAAGATTAATATT
*
38118326 TGTATAATATTTAAAAGATTAATAT
1 TGTAAAATATTTAAAAGATTAATAT
38118351 CTTGCATATC
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
25 5 0.23
26 17 0.77
ACGTcount: A:0.47, C:0.02, G:0.06, T:0.45
Consensus pattern (26 bp):
TGTAAAATATTTAAAAGATTAATATT
Found at i:38122708 original size:24 final size:24
Alignment explanation
Indices: 38122676--38122734 Score: 77
Period size: 24 Copynumber: 2.5 Consensus size: 24
38122666 TCTTAATAAT
38122676 AATATTATATTAA-AATTATTATTA
1 AATATTATATTAAGAA-TATTATTA
*
38122700 AATATTATATTAAGAATGTTATTA
1 AATATTATATTAAGAATATTATTA
38122724 AATTATT-TATT
1 AA-TATTATATT
38122735 TTTATTTTTA
Statistics
Matches: 32, Mismatches: 1, Indels: 4
0.86 0.03 0.11
Matches are distributed among these distances:
24 26 0.81
25 6 0.19
ACGTcount: A:0.46, C:0.00, G:0.03, T:0.51
Consensus pattern (24 bp):
AATATTATATTAAGAATATTATTA
Found at i:38127330 original size:23 final size:25
Alignment explanation
Indices: 38127300--38127347 Score: 73
Period size: 23 Copynumber: 2.0 Consensus size: 25
38127290 TATCATATAT
*
38127300 CAATAAGCA-CGATGTG-AAAATAA
1 CAATAAGCACCGAAGTGCAAAATAA
38127323 CAATAAGCACCGAAGTGCAAAATAA
1 CAATAAGCACCGAAGTGCAAAATAA
38127348 TATTGATAAG
Statistics
Matches: 22, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
23 9 0.41
24 6 0.27
25 7 0.32
ACGTcount: A:0.52, C:0.17, G:0.17, T:0.15
Consensus pattern (25 bp):
CAATAAGCACCGAAGTGCAAAATAA
Found at i:38127356 original size:28 final size:27
Alignment explanation
Indices: 38127325--38127385 Score: 68
Period size: 28 Copynumber: 2.2 Consensus size: 27
38127315 GAAAATAACA
* * *
38127325 ATAAGCACCGAAGTGCAAAATAATATTG
1 ATAAGCAACAAAGTGCAAAATAATA-CG
* *
38127353 ATAAGCAACAAAGTGCGACATAATACG
1 ATAAGCAACAAAGTGCAAAATAATACG
38127380 ATAAGC
1 ATAAGC
38127386 GAGCTAATTT
Statistics
Matches: 28, Mismatches: 5, Indels: 1
0.82 0.15 0.03
Matches are distributed among these distances:
27 7 0.25
28 21 0.75
ACGTcount: A:0.48, C:0.16, G:0.18, T:0.18
Consensus pattern (27 bp):
ATAAGCAACAAAGTGCAAAATAATACG
Found at i:38151144 original size:25 final size:25
Alignment explanation
Indices: 38151116--38151177 Score: 74
Period size: 25 Copynumber: 2.5 Consensus size: 25
38151106 CAAAACAAAT
38151116 AGAACAG-GACAGAGCAGAAC-ATAAC
1 AGAACAGAG-CAGAGCAGAACTA-AAC
*
38151141 AGAACAGAGCATAGCAGAACTAAAC
1 AGAACAGAGCAGAGCAGAACTAAAC
*
38151166 AGAACAAAGCAG
1 AGAACAGAGCAG
38151178 TGCTAAACAG
Statistics
Matches: 32, Mismatches: 3, Indels: 4
0.82 0.08 0.10
Matches are distributed among these distances:
25 30 0.94
26 2 0.06
ACGTcount: A:0.53, C:0.19, G:0.23, T:0.05
Consensus pattern (25 bp):
AGAACAGAGCAGAGCAGAACTAAAC
Found at i:38151166 original size:20 final size:20
Alignment explanation
Indices: 38151143--38151190 Score: 60
Period size: 20 Copynumber: 2.4 Consensus size: 20
38151133 AACATAACAG
*
38151143 AACAGAGCATAGCAGAACTA
1 AACAGAGCAAAGCAGAACTA
* **
38151163 AACAGAACAAAGCAGTGCTA
1 AACAGAGCAAAGCAGAACTA
38151183 AACAGAGC
1 AACAGAGC
38151191 TATGCAAAGG
Statistics
Matches: 23, Mismatches: 5, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
20 23 1.00
ACGTcount: A:0.50, C:0.21, G:0.21, T:0.08
Consensus pattern (20 bp):
AACAGAGCAAAGCAGAACTA
Found at i:38160853 original size:85 final size:86
Alignment explanation
Indices: 38160710--38160883 Score: 332
Period size: 85 Copynumber: 2.0 Consensus size: 86
38160700 ATATCATTTT
38160710 AGATTTTTATGTCCCCTAGGATTTCGCCTCAAGAAAGTTACTAAGTCAATTCTAAAGATATAAAC
1 AGATTTTTATGTCCCCTAGGATTTCGCCTCAAGAAAGTTACTAAGTCAATTCTAAAGATATAAAC
38160775 CTTCATGCATATCTAATCT-A
66 CTTCATGCATATCTAATCTCA
38160795 AGATTTTTATGTCCCCTAGGATTTCGCCTCAAGAAAGTTACTAAGTCAATTCTAAAGATATAAAC
1 AGATTTTTATGTCCCCTAGGATTTCGCCTCAAGAAAGTTACTAAGTCAATTCTAAAGATATAAAC
*
38160860 CTTCATGCATGTCTAATCTCA
66 CTTCATGCATATCTAATCTCA
38160881 AGA
1 AGA
38160884 GGAACTAAGT
Statistics
Matches: 87, Mismatches: 1, Indels: 1
0.98 0.01 0.01
Matches are distributed among these distances:
85 83 0.95
86 4 0.05
ACGTcount: A:0.34, C:0.20, G:0.13, T:0.33
Consensus pattern (86 bp):
AGATTTTTATGTCCCCTAGGATTTCGCCTCAAGAAAGTTACTAAGTCAATTCTAAAGATATAAAC
CTTCATGCATATCTAATCTCA
Found at i:38170836 original size:29 final size:29
Alignment explanation
Indices: 38170804--38170870 Score: 80
Period size: 29 Copynumber: 2.3 Consensus size: 29
38170794 TTGCAAGTTT
** *
38170804 CTAGGGTTTTCACATATGCTAGCATATTA
1 CTAGGGTTCACACATAGGCTAGCATATTA
* * *
38170833 CTAGGGTTCACACATAGGCTCGCATGTTC
1 CTAGGGTTCACACATAGGCTAGCATATTA
38170862 CTAGGGTTC
1 CTAGGGTTC
38170871 GCATATCACA
Statistics
Matches: 32, Mismatches: 6, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
29 32 1.00
ACGTcount: A:0.22, C:0.22, G:0.22, T:0.33
Consensus pattern (29 bp):
CTAGGGTTCACACATAGGCTAGCATATTA
Found at i:38176324 original size:15 final size:16
Alignment explanation
Indices: 38176304--38176334 Score: 55
Period size: 16 Copynumber: 2.0 Consensus size: 16
38176294 ATAAATTACG
38176304 TAATATA-TATAAAAA
1 TAATATAGTATAAAAA
38176319 TAATATAGTATAAAAA
1 TAATATAGTATAAAAA
38176335 ATTACAAATT
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
15 7 0.47
16 8 0.53
ACGTcount: A:0.65, C:0.00, G:0.03, T:0.32
Consensus pattern (16 bp):
TAATATAGTATAAAAA
Found at i:38177155 original size:20 final size:22
Alignment explanation
Indices: 38177109--38177155 Score: 64
Period size: 21 Copynumber: 2.3 Consensus size: 22
38177099 GAAAAATTGT
*
38177109 AGTATATTTTTAACATATTTTA
1 AGTAAATTTTTAACATATTTTA
38177131 A-TAAATTTTTAA-ATA-TTTA
1 AGTAAATTTTTAACATATTTTA
38177150 AGTAAA
1 AGTAAA
38177156 ATTTCTAATA
Statistics
Matches: 23, Mismatches: 1, Indels: 4
0.82 0.04 0.14
Matches are distributed among these distances:
19 5 0.22
20 7 0.30
21 10 0.43
22 1 0.04
ACGTcount: A:0.45, C:0.02, G:0.04, T:0.49
Consensus pattern (22 bp):
AGTAAATTTTTAACATATTTTA
Found at i:38180559 original size:79 final size:79
Alignment explanation
Indices: 38180424--38180577 Score: 245
Period size: 79 Copynumber: 1.9 Consensus size: 79
38180414 CATATGTTCA
* * * *
38180424 CACCAGTTGAAATATGATCCATATCACCAATACCATTTGTAAATAAAAAGTTCTTAAAAGAATTT
1 CACCAGCTAAAATATGATCCATATCACCAATACCATTTGTAAATAAAAAGTACTTAAAAGAATTC
*
38180489 CGAGTAATCCATAT
66 CGAGCAATCCATAT
* *
38180503 CACCAGCTAAAATATGATCCATATCACCAATACCTTTTGTAAATAAAAGGTACTTAAAAGAATTC
1 CACCAGCTAAAATATGATCCATATCACCAATACCATTTGTAAATAAAAAGTACTTAAAAGAATTC
38180568 CGAGCAATCC
66 CGAGCAATCC
38180578 CTTCCATATC
Statistics
Matches: 68, Mismatches: 7, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
79 68 1.00
ACGTcount: A:0.42, C:0.20, G:0.10, T:0.28
Consensus pattern (79 bp):
CACCAGCTAAAATATGATCCATATCACCAATACCATTTGTAAATAAAAAGTACTTAAAAGAATTC
CGAGCAATCCATAT
Found at i:38185909 original size:70 final size:70
Alignment explanation
Indices: 38185814--38186313 Score: 312
Period size: 70 Copynumber: 7.2 Consensus size: 70
38185804 TCAGCTCACA
* * *
38185814 CTAACTATTTTAGAGGCTATGATATTGAACCTATGAGCCTTAAGATTACAGTTAGGAGCTTGGGC
1 CTAACTGTTTTAGAGGCTACGATATTGAACCTATGAGCCTTAAGATTACAATTAGGAGCTTGGGC
*
38185879 TATCG
66 TCTCG
* ** * ** * * * *
38185884 CTAATTGTTTTAGAGGCTATAATATTGAACCTGTGAGTTTTAA-AGCTATAGTTGGGAGCTTGGG
1 CTAACTGTTTTAGAGGCTACGATATTGAACCTATGAGCCTTAAGA-TTACAATTAGGAGCTTGGG
* *
38185948 CTCGCA
65 CTCTCG
* * * * * * * *
38185954 CTAACTGTTTTGGAGGCTACGATATTAAACCTATGAGCCTTACGATCATAACTGGGAGCTTAGGC
1 CTAACTGTTTTAGAGGCTACGATATTGAACCTATGAGCCTTAAGATTACAATTAGGAGCTTGGGC
38186019 TCTCG
66 TCTCG
* * * ** * *
38186024 TTAACTATTTTGGAGGCTAC-AGTATTGAACCTACAAGCCTTAA-AGCTACAATTAAGAGCTTGG
1 CTAACTGTTTTAGAGGCTACGA-TATTGAACCTATGAGCCTTAAGA-TTACAATTAGGAGCTTGG
38186087 GCTCTCG
64 GCTCTCG
* * * * * *
38186094 CTAACTGTTTTAAAGGCTGCGATATTGAACTTACGAGCCTTAAGATCACAA-T-GTGAGCTTGAG
1 CTAACTGTTTTAGAGGCTACGATATTGAACCTATGAGCCTTAAGATTACAATTAG-GAGCTTGGG
*
38186157 CTCTTG
65 CTCTCG
* ** * ** * * * * * * *
38186163 CTAACTGCTTTAGAGGCTGTG-TAATTGAACTTGGGAGCTTTAAAACTATAGTTGGGAGCTTGAG
1 CTAACTGTTTTAGAGGCTACGAT-ATTGAACCTATGAGCCTTAAGATTACAATTAGGAGCTTGGG
*
38186227 CTATCG
65 CTCTCG
* * * * ** * * * * *
38186233 CTACCTGTTTCAGAGGCTGCGGTATTGAACCTGCGAGTCTTAA-AGCTACAGTTGGGAGCTTGAG
1 CTAACTGTTTTAGAGGCTACGATATTGAACCTATGAGCCTTAAGA-TTACAATTAGGAGCTTGGG
*
38186297 CTCTCA
65 CTCTCG
*
38186303 CTAACTATTTT
1 CTAACTGTTTT
38186314 TGGGGAGATC
Statistics
Matches: 338, Mismatches: 80, Indels: 24
0.76 0.18 0.05
Matches are distributed among these distances:
68 1 0.00
69 56 0.17
70 276 0.82
71 5 0.01
ACGTcount: A:0.26, C:0.18, G:0.23, T:0.32
Consensus pattern (70 bp):
CTAACTGTTTTAGAGGCTACGATATTGAACCTATGAGCCTTAAGATTACAATTAGGAGCTTGGGC
TCTCG
Found at i:38186012 original size:140 final size:139
Alignment explanation
Indices: 38185747--38186313 Score: 485
Period size: 140 Copynumber: 4.1 Consensus size: 139
38185737 CGCAAGCTTC
* ** * **
38185747 AACTGTTTTAGAGGTTGCAGTGTTGAACCTGCGAGCCTTAAAGCTACAGTT-GGAGCTTCAGCTC
1 AACTGTTTTAGAGGCTATAGTATTGAACCTGCGAGCCTTAAAGCTACAGTTGGGAGCTTGGGCTC
* * * * *
38185811 ACACTAACTATTTTAGAGGCTATGATATTGAACCTATGAGCCTTAAGATTACAGTTAGGAGCTTG
66 ACACTAACTGTTTTAGAGGCTACGATATTGAACCTATGAGCCTTAAGATCACA-ATGGGAGCTTG
*
38185876 GGCTATCGCT
130 GGCTCTCGCT
* * * ** *
38185886 AATTGTTTTAGAGGCTATAATATTGAACCTGTGAGTTTTAAAGCTATAGTTGGGAGCTTGGGCTC
1 AACTGTTTTAGAGGCTATAGTATTGAACCTGCGAGCCTTAAAGCTACAGTTGGGAGCTTGGGCTC
* * * * * *
38185951 GCACTAACTGTTTTGGAGGCTACGATATTAAACCTATGAGCCTTACGATCATAACTGGGAGCTTA
66 ACACTAACTGTTTTAGAGGCTACGATATTGAACCTATGAGCCTTAAGATCACAA-TGGGAGCTTG
*
38186016 GGCTCTCGTT
130 GGCTCTCGCT
* * * * * * **
38186026 AACTATTTTGGAGGCTACAGTATTGAACCTACAAGCCTTAAAGCTACAATTAAGAGCTTGGGCTC
1 AACTGTTTTAGAGGCTATAGTATTGAACCTGCGAGCCTTAAAGCTACAGTTGGGAGCTTGGGCTC
* * * * * * * *
38186091 TCGCTAACTGTTTTAAAGGCTGCGATATTGAACTTACGAGCCTTAAGATCACAATGTGAGCTTGA
66 ACACTAACTGTTTTAGAGGCTACGATATTGAACCTATGAGCCTTAAGATCACAATGGGAGCTTGG
*
38186156 GCTCTTGCT
131 GCTCTCGCT
* * * * * * * *
38186165 AACTGCTTTAGAGGCTGT-GTAATTGAACTTGGGAGCTTTAAAACTATAGTTGGGAGCTTGAGCT
1 AACTGTTTTAGAGGCTATAGT-ATTGAACCTGCGAGCCTTAAAGCTACAGTTGGGAGCTTGGGCT
* * * * * ** * * *
38186229 -ATCGCTACCTGTTTCAGAGGCTGCGGTATTGAACCTGCGAGTCTTAA-AGCTACAGTTGGGAGC
65 CA-CACTAACTGTTTTAGAGGCTACGATATTGAACCTATGAGCCTTAAGATC-ACA-ATGGGAGC
* *
38186292 TTGAGCTCTCACT
127 TTGGGCTCTCGCT
*
38186305 AACTATTTT
1 AACTGTTTT
38186314 TGGGGAGATC
Statistics
Matches: 337, Mismatches: 85, Indels: 11
0.78 0.20 0.03
Matches are distributed among these distances:
138 4 0.01
139 142 0.42
140 191 0.57
ACGTcount: A:0.26, C:0.18, G:0.24, T:0.32
Consensus pattern (139 bp):
AACTGTTTTAGAGGCTATAGTATTGAACCTGCGAGCCTTAAAGCTACAGTTGGGAGCTTGGGCTC
ACACTAACTGTTTTAGAGGCTACGATATTGAACCTATGAGCCTTAAGATCACAATGGGAGCTTGG
GCTCTCGCT
Found at i:38186181 original size:69 final size:69
Alignment explanation
Indices: 38185747--38186313 Score: 267
Period size: 70 Copynumber: 8.1 Consensus size: 69
38185737 CGCAAGCTTC
* * * * * * *
38185747 AACTGTTTTAGAGGTTGC-AGTGTTGAACCTGCGAGCCTTAA-AGCTACAGT-TGGAGCTTCAGC
1 AACTGTTTTAGAGGCTACGA-TATTGAACCTACGAGCCTTAAGATC-ACAATGT-GAGCTTGAGC
* *
38185809 TCACACT
63 TCTCGCT
* * * * * *
38185816 AACTATTTTAGAGGCTATGATATTGAACCTATGAGCCTTAAGATTACAGT-TAGGAGCTTGGGCT
1 AACTGTTTTAGAGGCTACGATATTGAACCTACGAGCCTTAAGATCACAATGT--GAGCTTGAGCT
*
38185880 ATCGCT
64 CTCGCT
* ** ** ** * * * * *
38185886 AATTGTTTTAGAGGCTATAATATTGAACCTGTGAGTTTTAA-AGCTATAGTTGGGAGCTTGGGCT
1 AACTGTTTTAGAGGCTACGATATTGAACCTACGAGCCTTAAGATC-ACA-ATGTGAGCTTGAGCT
* *
38185950 CGCACT
64 CTCGCT
* * * * * *
38185956 AACTGTTTTGGAGGCTACGATATTAAACCTATGAGCCTTACGATCATAACTGGGAGCTT-AGGCT
1 AACTGTTTTAGAGGCTACGATATTGAACCTACGAGCCTTAAGATCACAA-TGTGAGCTTGA-GCT
*
38186020 CTCGTT
64 CTCGCT
* * * * *
38186026 AACTATTTTGGAGGCTAC-AGTATTGAACCTACAAGCCTTAA-AGCTACAAT-TAAGAGCTTGGG
1 AACTGTTTTAGAGGCTACGA-TATTGAACCTACGAGCCTTAAGATC-ACAATGT--GAGCTTGAG
38186088 CTCTCGCT
62 CTCTCGCT
* * *
38186096 AACTGTTTTAAAGGCTGCGATATTGAACTTACGAGCCTTAAGATCACAATGTGAGCTTGAGCTCT
1 AACTGTTTTAGAGGCTACGATATTGAACCTACGAGCCTTAAGATCACAATGTGAGCTTGAGCTCT
*
38186161 TGCT
66 CGCT
* ** * ** * * * * *
38186165 AACTGCTTTAGAGGCTGTG-TAATTGAACTTGGGAGCTTTAA-AACTATAGTTGGGAGCTTGAGC
1 AACTGTTTTAGAGGCTACGAT-ATTGAACCTACGAGCCTTAAGATC-ACA-ATGTGAGCTTGAGC
*
38186228 TATCGCT
63 TCTCGCT
* * * * * * * * *
38186235 ACCTGTTTCAGAGGCTGCGGTATTGAACCTGCGAGTCTTAA-AGCTACAGTTGGGAGCTTGAGCT
1 AACTGTTTTAGAGGCTACGATATTGAACCTACGAGCCTTAAGATC-ACA-ATGTGAGCTTGAGCT
*
38186299 CTCACT
64 CTCGCT
*
38186305 AACTATTTT
1 AACTGTTTT
38186314 TGGGGAGATC
Statistics
Matches: 388, Mismatches: 89, Indels: 41
0.75 0.17 0.08
Matches are distributed among these distances:
68 3 0.01
69 93 0.24
70 284 0.73
71 8 0.02
ACGTcount: A:0.26, C:0.18, G:0.24, T:0.32
Consensus pattern (69 bp):
AACTGTTTTAGAGGCTACGATATTGAACCTACGAGCCTTAAGATCACAATGTGAGCTTGAGCTCT
CGCT
Found at i:38187953 original size:19 final size:20
Alignment explanation
Indices: 38187917--38187954 Score: 60
Period size: 19 Copynumber: 1.9 Consensus size: 20
38187907 GCATTTCCAG
38187917 TTATTTATTAATTCCATATA
1 TTATTTATTAATTCCATATA
*
38187937 TTATTTA-TAATTGCATAT
1 TTATTTATTAATTCCATAT
38187955 TTACCTTAGT
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
19 10 0.59
20 7 0.41
ACGTcount: A:0.34, C:0.08, G:0.03, T:0.55
Consensus pattern (20 bp):
TTATTTATTAATTCCATATA
Found at i:38191989 original size:20 final size:20
Alignment explanation
Indices: 38191941--38191990 Score: 64
Period size: 20 Copynumber: 2.5 Consensus size: 20
38191931 TACATGTTAT
* *
38191941 CACTATTCATGATTTGACTC
1 CACTATTCATGACTTGACCC
* *
38191961 TACTGTTCATGACTTGACCC
1 CACTATTCATGACTTGACCC
38191981 CACTATTCAT
1 CACTATTCAT
38191991 AGAACTGACA
Statistics
Matches: 24, Mismatches: 6, Indels: 0
0.80 0.20 0.00
Matches are distributed among these distances:
20 24 1.00
ACGTcount: A:0.24, C:0.28, G:0.10, T:0.38
Consensus pattern (20 bp):
CACTATTCATGACTTGACCC
Found at i:38193489 original size:13 final size:13
Alignment explanation
Indices: 38193473--38193504 Score: 50
Period size: 11 Copynumber: 2.6 Consensus size: 13
38193463 AAAGAGTCTA
38193473 TAAAAATATTATT
1 TAAAAATATTATT
38193486 T--AAATATTATT
1 TAAAAATATTATT
38193497 TAAAAATA
1 TAAAAATA
38193505 AAAAAAATCA
Statistics
Matches: 17, Mismatches: 0, Indels: 4
0.81 0.00 0.19
Matches are distributed among these distances:
11 11 0.65
13 6 0.35
ACGTcount: A:0.56, C:0.00, G:0.00, T:0.44
Consensus pattern (13 bp):
TAAAAATATTATT
Found at i:38198263 original size:27 final size:27
Alignment explanation
Indices: 38198233--38198289 Score: 87
Period size: 27 Copynumber: 2.1 Consensus size: 27
38198223 GTTACATAAC
* * *
38198233 GTCCTGACGGGCTACCTTGTGTTTAAT
1 GTCCTGACAGACTACCTCGTGTTTAAT
38198260 GTCCTGACAGACTACCTCGTGTTTAAT
1 GTCCTGACAGACTACCTCGTGTTTAAT
38198287 GTC
1 GTC
38198290 TCAATAGACT
Statistics
Matches: 27, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
27 27 1.00
ACGTcount: A:0.18, C:0.25, G:0.23, T:0.35
Consensus pattern (27 bp):
GTCCTGACAGACTACCTCGTGTTTAAT
Found at i:38198298 original size:27 final size:28
Alignment explanation
Indices: 38198244--38198317 Score: 80
Period size: 27 Copynumber: 2.7 Consensus size: 28
38198234 TCCTGACGGG
* *
38198244 CTACCTTGTGTTTAATGTC-CTGACAGA
1 CTACCTCGTGTTTAATGTCTCTAACAGA
*
38198271 CTACCTCGTGTTTAATGTCTC-AATAGA
1 CTACCTCGTGTTTAATGTCTCTAACAGA
* * *
38198298 CTACCCCATGTTTAGTGTCT
1 CTACCTCGTGTTTAATGTCT
38198318 TGGCGAACTA
Statistics
Matches: 40, Mismatches: 6, Indels: 2
0.83 0.12 0.04
Matches are distributed among these distances:
27 39 0.98
28 1 0.03
ACGTcount: A:0.22, C:0.24, G:0.16, T:0.38
Consensus pattern (28 bp):
CTACCTCGTGTTTAATGTCTCTAACAGA
Found at i:38198354 original size:27 final size:27
Alignment explanation
Indices: 38198297--38198354 Score: 64
Period size: 27 Copynumber: 2.1 Consensus size: 27
38198287 GTCTCAATAG
* **
38198297 ACTACCCCATGTTTAGTGTCTTGGCGA
1 ACTACCCCATGTTTAGTGTCTTAGAAA
*
38198324 ACTACCCTATGTTTAGTGT-TTAGAAA
1 ACTACCCCATGTTTAGTGTCTTAGAAA
38198350 CACTA
1 -ACTA
38198355 AAATATATAG
Statistics
Matches: 26, Mismatches: 4, Indels: 2
0.81 0.12 0.06
Matches are distributed among these distances:
26 4 0.15
27 22 0.85
ACGTcount: A:0.26, C:0.22, G:0.17, T:0.34
Consensus pattern (27 bp):
ACTACCCCATGTTTAGTGTCTTAGAAA
Found at i:38200349 original size:67 final size:65
Alignment explanation
Indices: 38200254--38200492 Score: 286
Period size: 67 Copynumber: 3.6 Consensus size: 65
38200244 ATTCCAACGG
* * * *
38200254 ACTCTCTATGTTGCCATAGTCGACCTATGGTCTTACACAACATACCTCGTGTTTACTGTCCTAGC
1 ACTCTCTATGCTGCCATAGT-GAGCTATGGTCTTACACAACATACCCCATGTTTACTGTCCTA-C
38200319 AA
64 AA
38200321 ACTCTCTATGCTGCCATAGCTGAGCTATGGTCTTACACAACATACCCCATGTTTACTGTCCCTAC
1 ACTCTCTATGCTGCCATAG-TGAGCTATGGTCTTACACAACATACCCCATGTTTACTGT-CCTAC
*
38200386 GA
64 AA
* * *
38200388 ACTCTCTATGTTGTCATAGATGAGCTATGGTCTTACACAACATACCCCATGTTTACTGTCCCAAC
1 ACTCTCTATGCTGCCATAG-TGAGCTATGGTCTTACACAACATACCCCATGTTTACTGT-CCTAC
38200453 AGA
64 A-A
*
38200456 A-TC-C-ATTCATTGCCATAGTTGAGCTATGGTCTTACAC
1 ACTCTCTATGC--TGCCATAG-TGAGCTATGGTCTTACAC
38200493 CCTATACCTC
Statistics
Matches: 153, Mismatches: 14, Indels: 10
0.86 0.08 0.06
Matches are distributed among these distances:
65 2 0.01
66 1 0.01
67 143 0.93
68 7 0.05
ACGTcount: A:0.25, C:0.28, G:0.15, T:0.32
Consensus pattern (65 bp):
ACTCTCTATGCTGCCATAGTGAGCTATGGTCTTACACAACATACCCCATGTTTACTGTCCTACAA
Found at i:38200500 original size:134 final size:134
Alignment explanation
Indices: 38200236--38200492 Score: 342
Period size: 134 Copynumber: 1.9 Consensus size: 134
38200226 AGACTTCCCG
* * *
38200236 TGTTTACTATTCCAACGGACTCTCTATGTTGCCATAGTCGACCTATGGTCTTACACAACATACCT
1 TGTTTACTATCCCAACGAACTCTCTATGTTGCCATAGTCGACCTATGGTCTTACACAACATACCC
* * *
38200301 CGTGTTTACTGTCCTAGCAAACTCTCTATGCTGCCATAGCTGAGCTATGGTCTTACACAACATAC
66 CATGTTTACTGTCCCAACAAACTCTCTATGCTGCCATAGCTGAGCTATGGTCTTACACAACATAC
38200366 CCCA
131 CCCA
* * * *
38200370 TGTTTACTGTCCCTACGAACTCTCTATGTTGTCATAGAT-GAGCTATGGTCTTACACAACATACC
1 TGTTTACTATCCCAACGAACTCTCTATGTTGCCATAG-TCGACCTATGGTCTTACACAACATACC
* *
38200434 CCATGTTTACTGTCCCAACAGAA-TC-C-ATTCATTGCCATAGTTGAGCTATGGTCTTACAC
65 CCATGTTTACTGTCCCAACA-AACTCTCTATGC--TGCCATAGCTGAGCTATGGTCTTACAC
38200493 CCTATACCTC
Statistics
Matches: 107, Mismatches: 12, Indels: 8
0.84 0.09 0.06
Matches are distributed among these distances:
132 3 0.03
133 1 0.01
134 100 0.93
135 3 0.03
ACGTcount: A:0.25, C:0.28, G:0.15, T:0.32
Consensus pattern (134 bp):
TGTTTACTATCCCAACGAACTCTCTATGTTGCCATAGTCGACCTATGGTCTTACACAACATACCC
CATGTTTACTGTCCCAACAAACTCTCTATGCTGCCATAGCTGAGCTATGGTCTTACACAACATAC
CCCA
Found at i:38224062 original size:19 final size:18
Alignment explanation
Indices: 38224038--38224077 Score: 53
Period size: 18 Copynumber: 2.2 Consensus size: 18
38224028 GGAATTTTGG
38224038 AATGGAAAAGAAGAGAGAA
1 AATGG-AAAGAAGAGAGAA
* *
38224057 AATGGAGAGAAGAGAGGA
1 AATGGAAAGAAGAGAGAA
38224075 AAT
1 AAT
38224078 ATGTGAATGC
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
18 14 0.74
19 5 0.26
ACGTcount: A:0.57, C:0.00, G:0.35, T:0.07
Consensus pattern (18 bp):
AATGGAAAGAAGAGAGAA
Found at i:38237562 original size:21 final size:21
Alignment explanation
Indices: 38237538--38237591 Score: 90
Period size: 21 Copynumber: 2.6 Consensus size: 21
38237528 CCATTGTTTT
*
38237538 TAATCTCACCGCTACAGTATC
1 TAATCTCACCGCTACAGTAAC
*
38237559 TAATCTCACTGCTACAGTAAC
1 TAATCTCACCGCTACAGTAAC
38237580 TAATCTCACCGC
1 TAATCTCACCGC
38237592 CACCGCTGTT
Statistics
Matches: 30, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
21 30 1.00
ACGTcount: A:0.30, C:0.33, G:0.09, T:0.28
Consensus pattern (21 bp):
TAATCTCACCGCTACAGTAAC
Found at i:38237676 original size:21 final size:22
Alignment explanation
Indices: 38237652--38237711 Score: 68
Period size: 21 Copynumber: 2.7 Consensus size: 22
38237642 CACCCTCACT
38237652 AAAATATAAAAAAAAGTTCAAA
1 AAAATATAAAAAAAAGTTCAAA
* * *
38237674 AAAATCT-TATAAAAGTTCAAA
1 AAAATATAAAAAAAAGTTCAAA
38237695 AAAATAATTAAAAAAAA
1 AAAAT-A-TAAAAAAAA
38237712 TATAAAATTA
Statistics
Matches: 29, Mismatches: 6, Indels: 4
0.74 0.15 0.10
Matches are distributed among these distances:
21 17 0.59
22 6 0.21
23 1 0.03
24 5 0.17
ACGTcount: A:0.70, C:0.05, G:0.03, T:0.22
Consensus pattern (22 bp):
AAAATATAAAAAAAAGTTCAAA
Found at i:38248174 original size:20 final size:20
Alignment explanation
Indices: 38248149--38248189 Score: 82
Period size: 20 Copynumber: 2.0 Consensus size: 20
38248139 CATGTTCTCC
38248149 TACACTAGCAGTAATGCTAA
1 TACACTAGCAGTAATGCTAA
38248169 TACACTAGCAGTAATGCTAA
1 TACACTAGCAGTAATGCTAA
38248189 T
1 T
38248190 GCCAACTAAG
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 21 1.00
ACGTcount: A:0.39, C:0.20, G:0.15, T:0.27
Consensus pattern (20 bp):
TACACTAGCAGTAATGCTAA
Found at i:38249345 original size:16 final size:16
Alignment explanation
Indices: 38249324--38249356 Score: 57
Period size: 16 Copynumber: 2.1 Consensus size: 16
38249314 TTCGCTATAT
38249324 TGGAATAGAGGCGTAA
1 TGGAATAGAGGCGTAA
*
38249340 TGGAATAGAGGTGTAA
1 TGGAATAGAGGCGTAA
38249356 T
1 T
38249357 AACAAATCAA
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
16 16 1.00
ACGTcount: A:0.36, C:0.03, G:0.36, T:0.24
Consensus pattern (16 bp):
TGGAATAGAGGCGTAA
Found at i:38249607 original size:16 final size:16
Alignment explanation
Indices: 38249570--38249611 Score: 52
Period size: 15 Copynumber: 2.7 Consensus size: 16
38249560 TTAATCATAT
*
38249570 TTAAACATA-ATTATTA
1 TTAAA-ATATATTATAA
38249586 TT-AAATATATTATAA
1 TTAAAATATATTATAA
38249601 TTAAAATATAT
1 TTAAAATATAT
38249612 AATTTAATAA
Statistics
Matches: 23, Mismatches: 1, Indels: 4
0.82 0.04 0.14
Matches are distributed among these distances:
14 3 0.13
15 10 0.43
16 10 0.43
ACGTcount: A:0.52, C:0.02, G:0.00, T:0.45
Consensus pattern (16 bp):
TTAAAATATATTATAA
Found at i:38249618 original size:14 final size:15
Alignment explanation
Indices: 38249579--38249620 Score: 52
Period size: 15 Copynumber: 2.9 Consensus size: 15
38249569 TTTAAACATA
*
38249579 ATTATTATTAAATAT
1 ATTATAATTAAATAT
38249594 ATTATAATTAAA-AT
1 ATTATAATTAAATAT
*
38249608 A-TATAATTTAATA
1 ATTATAATTAAATA
38249621 AAATTCTTAA
Statistics
Matches: 24, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
13 9 0.38
14 4 0.17
15 11 0.46
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (15 bp):
ATTATAATTAAATAT
Found at i:38249670 original size:61 final size:61
Alignment explanation
Indices: 38249605--38249912 Score: 246
Period size: 61 Copynumber: 5.1 Consensus size: 61
38249595 TTATAATTAA
38249605 AATATATAATTTAATAAAATTCTTAATAATCAATATTCTTATATGAATTTACTCAAATCAT
1 AATATATAATTTAATAAAATTCTTAATAATCAATATTCTTATATGAATTTACTCAAATCAT
* * * * * * * * * *
38249666 AATATATGATACT-ATAAAA-TATAAATTAA-C-ATAATTATTAT-TAAATATA-TTATAATTAA
1 AATATATAAT-TTAATAAAATTCTTAA-TAATCAAT-ATTCTTATATGAATTTACTCA-AATCAT
*
38249725 AATATATAATTTAATAAAATTCTTAATAATTAATATTCTTATATGAATTTACTCAAATCAT
1 AATATATAATTTAATAAAATTCTTAATAATCAATATTCTTATATGAATTTACTCAAATCAT
* * ** * * * * *
38249786 AATATATGATACT-ATAAAA--GATAATTTAA-C-ATAATTATTAT-TAAATATA-TTATAATTA
1 AATATATAAT-TTAATAAAATTCTTAA--TAATCAAT-ATTCTTATATGAATTTACTCA-AATCA
*
38249844 A
61 T
*
38249845 AATATATAATTTAATAAAATTCTTAATAATTAATATTCTTATATGAATTTACTCAAATCAT
1 AATATATAATTTAATAAAATTCTTAATAATCAATATTCTTATATGAATTTACTCAAATCAT
38249906 AATATAT
1 AATATAT
38249913 GATACTATAA
Statistics
Matches: 182, Mismatches: 43, Indels: 44
0.68 0.16 0.16
Matches are distributed among these distances:
58 6 0.03
59 63 0.35
60 37 0.20
61 70 0.38
62 6 0.03
ACGTcount: A:0.49, C:0.06, G:0.02, T:0.43
Consensus pattern (61 bp):
AATATATAATTTAATAAAATTCTTAATAATCAATATTCTTATATGAATTTACTCAAATCAT
Found at i:38249738 original size:14 final size:15
Alignment explanation
Indices: 38249689--38249740 Score: 56
Period size: 15 Copynumber: 3.6 Consensus size: 15
38249679 ATAAAATATA
38249689 AATTAACATA-ATTAT
1 AATTAA-ATATATTAT
*
38249704 TATTAAATATATTAT
1 AATTAAATATATTAT
38249719 AATTAAA-ATA-TAT
1 AATTAAATATATTAT
*
38249732 AATTTAATA
1 AATTAAATA
38249741 AAATTCTTAA
Statistics
Matches: 32, Mismatches: 3, Indels: 5
0.80 0.08 0.12
Matches are distributed among these distances:
13 9 0.28
14 7 0.22
15 16 0.50
ACGTcount: A:0.54, C:0.02, G:0.00, T:0.44
Consensus pattern (15 bp):
AATTAAATATATTAT
Found at i:38249849 original size:16 final size:16
Alignment explanation
Indices: 38249806--38249851 Score: 51
Period size: 16 Copynumber: 2.9 Consensus size: 16
38249796 ACTATAAAAG
*
38249806 ATAATTTAACATA-ATT
1 ATAA-TTAAAATATATT
*
38249822 ATTATT-AAATATATT
1 ATAATTAAAATATATT
38249837 ATAATTAAAATATAT
1 ATAATTAAAATATAT
38249852 AATTTAATAA
Statistics
Matches: 25, Mismatches: 3, Indels: 4
0.78 0.09 0.12
Matches are distributed among these distances:
14 4 0.16
15 10 0.40
16 11 0.44
ACGTcount: A:0.52, C:0.02, G:0.00, T:0.46
Consensus pattern (16 bp):
ATAATTAAAATATATT
Found at i:38249858 original size:14 final size:15
Alignment explanation
Indices: 38249806--38249860 Score: 53
Period size: 15 Copynumber: 3.7 Consensus size: 15
38249796 ACTATAAAAG
38249806 ATAATTTAACATA-ATT
1 ATAA-TTAA-ATATATT
*
38249822 ATTATTAAATATATT
1 ATAATTAAATATATT
38249837 ATAATTAAA-ATA-T
1 ATAATTAAATATATT
*
38249850 ATAATTTAATA
1 ATAATTAAATA
38249861 AAATTCTTAA
Statistics
Matches: 34, Mismatches: 3, Indels: 6
0.79 0.07 0.14
Matches are distributed among these distances:
13 9 0.26
14 7 0.21
15 15 0.44
16 3 0.09
ACGTcount: A:0.53, C:0.02, G:0.00, T:0.45
Consensus pattern (15 bp):
ATAATTAAATATATT
Found at i:38249996 original size:120 final size:120
Alignment explanation
Indices: 38249568--38249985 Score: 757
Period size: 120 Copynumber: 3.5 Consensus size: 120
38249558 ATTTAATCAT
38249568 ATTTAAACATAATTATTATTAAATATATTATAATTAAAATATATAATTTAATAAAATTCTTAATA
1 ATTT-AACATAATTATTATTAAATATATTATAATTAAAATATATAATTTAATAAAATTCTTAATA
* *
38249633 ATCAATATTCTTATATGAATTTACTCAAATCATAATATATGATACTATAAAATATA
65 ATTAATATTCTTATATGAATTTACTCAAATCATAATATATGATACTATAAAAGATA
*
38249689 AATTAACATAATTATTATTAAATATATTATAATTAAAATATATAATTTAATAAAATTCTTAATAA
1 ATTTAACATAATTATTATTAAATATATTATAATTAAAATATATAATTTAATAAAATTCTTAATAA
38249754 TTAATATTCTTATATGAATTTACTCAAATCATAATATATGATACTATAAAAGATA
66 TTAATATTCTTATATGAATTTACTCAAATCATAATATATGATACTATAAAAGATA
38249809 ATTTAACATAATTATTATTAAATATATTATAATTAAAATATATAATTTAATAAAATTCTTAATAA
1 ATTTAACATAATTATTATTAAATATATTATAATTAAAATATATAATTTAATAAAATTCTTAATAA
38249874 TTAATATTCTTATATGAATTTACTCAAATCATAATATATGATACTATAAAAGATA
66 TTAATATTCTTATATGAATTTACTCAAATCATAATATATGATACTATAAAAGATA
* * *
38249929 ATTTGAA-ATAATTAATATTAAATATATTTTAATTAAAATATATGATTTAATAAAATT
1 ATTT-AACATAATTATTATTAAATATATTATAATTAAAATATATAATTTAATAAAATT
38249986 TAAAATAATT
Statistics
Matches: 289, Mismatches: 7, Indels: 3
0.97 0.02 0.01
Matches are distributed among these distances:
120 284 0.98
121 5 0.02
ACGTcount: A:0.50, C:0.05, G:0.02, T:0.43
Consensus pattern (120 bp):
ATTTAACATAATTATTATTAAATATATTATAATTAAAATATATAATTTAATAAAATTCTTAATAA
TTAATATTCTTATATGAATTTACTCAAATCATAATATATGATACTATAAAAGATA
Found at i:38250032 original size:101 final size:93
Alignment explanation
Indices: 38249926--38250208 Score: 333
Period size: 91 Copynumber: 3.0 Consensus size: 93
38249916 ACTATAAAAG
* * * *
38249926 ATAATTTGAAATAATTAATATTAAATATATTTTAATTAA-AATATATGATTTAATAAAATTTAAA
1 ATAATTTAAAATAATTAATATTAAATATAATTTAA-TAATAATATATAATTTCATAAAATTT---
* *
38249990 ATAATTATAACTAATAAATTTTCTTATATGAATTTGT
62 -T--CT-TAA-TAATAAATTTTCTTATATGAATTTAT
* *
38250027 ATAATTTAAAATAATTATTATTACATATAATTTAATAATAATATATAATTTCATAAAA--TTCTT
1 ATAATTTAAAATAATTAATATTAAATATAATTTAATAATAATATATAATTTCATAAAATTTTCTT
*
38250090 GATAATAAATTTTCTTATATGAATTTAT
66 AATAATAAATTTTCTTATATGAATTTAT
* *
38250118 ACAATTTAAAATAATTAATATTAAATATAATTTAATAATGATATATAATTTCATAAAA--TTCTT
1 ATAATTTAAAATAATTAATATTAAATATAATTTAATAATAATATATAATTTCATAAAATTTTCTT
*
38250181 AATAATAAAATGTTCTTATATGAATTTA
66 AATAAT-AAATTTTCTTATATGAATTTA
38250209 CTAAAATCAA
Statistics
Matches: 165, Mismatches: 15, Indels: 13
0.85 0.08 0.07
Matches are distributed among these distances:
91 89 0.54
92 22 0.13
93 1 0.01
95 1 0.01
99 1 0.01
100 3 0.02
101 48 0.29
ACGTcount: A:0.48, C:0.04, G:0.03, T:0.45
Consensus pattern (93 bp):
ATAATTTAAAATAATTAATATTAAATATAATTTAATAATAATATATAATTTCATAAAATTTTCTT
AATAATAAATTTTCTTATATGAATTTAT
Found at i:38250036 original size:47 final size:46
Alignment explanation
Indices: 38249967--38250134 Score: 143
Period size: 47 Copynumber: 3.7 Consensus size: 46
38249957 TTAATTAAAA
*
38249967 TATATG-ATTTAATAAAATTTAAAATAATTATAACTAATAAATTTTCT
1 TATATGAATTT-ATATAATTTAAAATAATTATAA-TAATAAATTTTCT
* * **
38250014 TATATGAATTTGTATAATTTAAAATAATTATTATTACATATAA-TTTAA
1 TATATGAATTTATATAATTTAAAATAATTA-TAATA-ATA-AATTTTCT
* * *
38250062 TA-AT-AA--TATATAATTTCATAA-AATTCTTGATAATAAATTTTCT
1 TATATGAATTTATATAATTT-AAAATAATT-ATAATAATAAATTTTCT
*
38250105 TATATGAATTTATACAATTTAAAATAATTA
1 TATATGAATTTATATAATTTAAAATAATTA
38250135 ATATTAAATA
Statistics
Matches: 94, Mismatches: 15, Indels: 25
0.70 0.11 0.19
Matches are distributed among these distances:
42 2 0.02
43 8 0.09
44 18 0.19
45 5 0.05
46 5 0.05
47 40 0.43
48 14 0.15
49 2 0.02
ACGTcount: A:0.47, C:0.04, G:0.03, T:0.46
Consensus pattern (46 bp):
TATATGAATTTATATAATTTAAAATAATTATAATAATAAATTTTCT
Found at i:38250056 original size:26 final size:28
Alignment explanation
Indices: 38250026--38250086 Score: 81
Period size: 28 Copynumber: 2.2 Consensus size: 28
38250016 TATGAATTTG
*
38250026 TATAATTTAA-AATAAT-TATTATTACA
1 TATAATTTAATAATAATATATAATTACA
*
38250052 TATAATTTAATAATAATATATAATTTCA
1 TATAATTTAATAATAATATATAATTACA
*
38250080 TAAAATT
1 TATAATT
38250087 CTTGATAATA
Statistics
Matches: 30, Mismatches: 3, Indels: 2
0.86 0.09 0.06
Matches are distributed among these distances:
26 10 0.33
27 6 0.20
28 14 0.47
ACGTcount: A:0.51, C:0.03, G:0.00, T:0.46
Consensus pattern (28 bp):
TATAATTTAATAATAATATATAATTACA
Found at i:38250096 original size:91 final size:91
Alignment explanation
Indices: 38250001--38250208 Score: 344
Period size: 91 Copynumber: 2.3 Consensus size: 91
38249991 TAATTATAAC
* * * *
38250001 TAATAAATTTTCTTATATGAATTTGTATAATTTAAAATAATTATTATTACATATAATTTAATAAT
1 TAATAAATTTTCTTATATGAATTTATACAATTTAAAATAATTAATATTAAATATAATTTAATAAT
*
38250066 AATATATAATTTCATAAAATTCTTGA
66 AATATATAATTTCATAAAATTCTTAA
38250092 TAATAAATTTTCTTATATGAATTTATACAATTTAAAATAATTAATATTAAATATAATTTAATAAT
1 TAATAAATTTTCTTATATGAATTTATACAATTTAAAATAATTAATATTAAATATAATTTAATAAT
*
38250157 GATATATAATTTCATAAAATTCTTAA
66 AATATATAATTTCATAAAATTCTTAA
*
38250183 TAATAAAATGTTCTTATATGAATTTA
1 TAAT-AAATTTTCTTATATGAATTTA
38250209 CTAAAATCAA
Statistics
Matches: 109, Mismatches: 7, Indels: 1
0.93 0.06 0.01
Matches are distributed among these distances:
91 89 0.82
92 20 0.18
ACGTcount: A:0.46, C:0.04, G:0.03, T:0.46
Consensus pattern (91 bp):
TAATAAATTTTCTTATATGAATTTATACAATTTAAAATAATTAATATTAAATATAATTTAATAAT
AATATATAATTTCATAAAATTCTTAA
Found at i:38250168 original size:44 final size:43
Alignment explanation
Indices: 38250026--38250168 Score: 119
Period size: 44 Copynumber: 3.2 Consensus size: 43
38250016 TATGAATTTG
* *
38250026 TATAATTTAAAATAATTATTATTACATATAATTTAATAATAATA
1 TATAATTTAAAATAATTAATATTAAATATAATTTAATAAT-ATA
** * * * *
38250070 TATAATTTCATAAAATTCTTGATAATAAAT-T-TTCTTATATGAATTTA
1 TATAA-TT--TAAAATAATTAATATTAAATATAAT-TTA-AT-AATATA
*
38250117 TACAATTTAAAATAATTAATATTAAATATAATTTAATAATGATA
1 TATAATTTAAAATAATTAATATTAAATATAATTTAATAAT-ATA
38250161 TATAATTT
1 TATAATTT
38250169 CATAAAATTC
Statistics
Matches: 74, Mismatches: 16, Indels: 18
0.69 0.15 0.17
Matches are distributed among these distances:
43 3 0.04
44 32 0.43
45 7 0.09
46 7 0.09
47 22 0.30
48 3 0.04
ACGTcount: A:0.48, C:0.03, G:0.02, T:0.46
Consensus pattern (43 bp):
TATAATTTAAAATAATTAATATTAAATATAATTTAATAATATA
Found at i:38250183 original size:47 final size:47
Alignment explanation
Indices: 38250051--38250189 Score: 137
Period size: 47 Copynumber: 3.0 Consensus size: 47
38250041 TTATTATTAC
* *
38250051 ATATAATTTAATAATAATATATAATTTCATAAAATTCTTGATAATAA
1 ATATAATTTAATAATGATATATAATTTCATAAAATTCTTAATAATAA
* * * ** *
38250098 AT-T--TTCTTAT-ATGAATTTATACAATT--TAAAATAATTAATATTAA
1 ATATAATT-TAATAATG-ATATATA-ATTTCATAAAATTCTTAATAATAA
38250142 ATATAATTTAATAATGATATATAATTTCATAAAATTCTTAATAATAA
1 ATATAATTTAATAATGATATATAATTTCATAAAATTCTTAATAATAA
38250189 A
1 A
38250190 ATGTTCTTAT
Statistics
Matches: 69, Mismatches: 14, Indels: 18
0.68 0.14 0.18
Matches are distributed among these distances:
44 20 0.29
45 13 0.19
46 13 0.19
47 23 0.33
ACGTcount: A:0.50, C:0.04, G:0.02, T:0.44
Consensus pattern (47 bp):
ATATAATTTAATAATGATATATAATTTCATAAAATTCTTAATAATAA
Found at i:38253212 original size:33 final size:33
Alignment explanation
Indices: 38253170--38253235 Score: 132
Period size: 33 Copynumber: 2.0 Consensus size: 33
38253160 ATTATAAAGC
38253170 ATGTATAATTGACCTAAAATTAATTGTTGGTAT
1 ATGTATAATTGACCTAAAATTAATTGTTGGTAT
38253203 ATGTATAATTGACCTAAAATTAATTGTTGGTAT
1 ATGTATAATTGACCTAAAATTAATTGTTGGTAT
38253236 TTGTTAGATT
Statistics
Matches: 33, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
33 33 1.00
ACGTcount: A:0.36, C:0.06, G:0.15, T:0.42
Consensus pattern (33 bp):
ATGTATAATTGACCTAAAATTAATTGTTGGTAT
Found at i:38256665 original size:44 final size:46
Alignment explanation
Indices: 38256593--38256684 Score: 143
Period size: 44 Copynumber: 2.0 Consensus size: 46
38256583 GAGGCGTATG
** *
38256593 GAATAGAGGTGTAATAGGTAATTCTTTTGTTTGGTTGAATGTAATA
1 GAATAGAGGCATAATAGGTAATTCTTTTGTTTGGTTGAATGGAATA
38256639 GAATAGAGGCATAAT-GGT-ATTCTTTTGTTTGGTTGAATGGAATA
1 GAATAGAGGCATAATAGGTAATTCTTTTGTTTGGTTGAATGGAATA
38256683 GA
1 GA
38256685 GGTGTAATAG
Statistics
Matches: 43, Mismatches: 3, Indels: 2
0.90 0.06 0.04
Matches are distributed among these distances:
44 27 0.63
45 3 0.07
46 13 0.30
ACGTcount: A:0.30, C:0.03, G:0.27, T:0.39
Consensus pattern (46 bp):
GAATAGAGGCATAATAGGTAATTCTTTTGTTTGGTTGAATGGAATA
Found at i:38256943 original size:110 final size:108
Alignment explanation
Indices: 38256840--38257077 Score: 244
Period size: 110 Copynumber: 2.2 Consensus size: 108
38256830 AATTGTTATT
* *
38256840 AAATATAAT-TTAATAAAAAT-ATATAAT-TTAATA-A-AATTGTTAAT-AAA-TATTCTTATAT
1 AAATA-AATATTAATAAAAATAATATAATAATAATATATAA-T-TTAATAAAATTATCCTTATAT
38256898 GAATTTACTAATAAAATCATAATATATAATACTATAAAATATAA-TTTA
63 GAATTTAC---TAAAATCATAATATATAATACTATAAAATATAATTTTA
* * * *
38256946 AAATAATTATTATTAAATATAATTTAATAATAATATATAATTTAATAAAATTCTTATCCTTATAT
1 AAATAAATATTAATAAAAATAATATAATAATAATATATAATTTAATAAAA---TTATCCTTATAT
38257011 GAATTTACTAAAATCATAATATATAATACTATAAAATATAA-TTT-
63 GAATTTACTAAAATCATAATATATAATACTATAAAATATAATTTTA
* * *
38257055 AAATAATTATTATTAAATATAAT
1 AAATAAATATTAATAAAAATAAT
38257078 TTATAATCTA
Statistics
Matches: 116, Mismatches: 6, Indels: 17
0.83 0.04 0.12
Matches are distributed among these distances:
105 2 0.02
106 14 0.12
107 6 0.05
108 10 0.09
109 28 0.24
110 38 0.33
113 18 0.16
ACGTcount: A:0.53, C:0.04, G:0.01, T:0.42
Consensus pattern (108 bp):
AAATAAATATTAATAAAAATAATATAATAATAATATATAATTTAATAAAATTATCCTTATATGAA
TTTACTAAAATCATAATATATAATACTATAAAATATAATTTTA
Found at i:38256959 original size:120 final size:110
Alignment explanation
Indices: 38256822--38257080 Score: 376
Period size: 120 Copynumber: 2.3 Consensus size: 110
38256812 TTAATCATAT
* *
38256822 TTTAACATAATTGTTATTAAATATAATTTAATAAAAATATATAATTTAATAAAATTGTTAATAAA
1 TTTAAAATAATTATTATTAAATATAATTTAATAAAAATATATAATTTAATAAAA---TT-AT---
*
38256887 TATTCTTATATGAATTTACTAATAAAATCATAATATATAATACTATAAAATATAA
59 TATCCTTATATGAATTTAC---TAAAATCATAATATATAATACTATAAAATATAA
* *
38256942 TTTAAAATAATTATTATTAAATATAATTTAATAATAATATATAATTTAATAAAATTCTTATCCTT
1 TTTAAAATAATTATTATTAAATATAATTTAATAAAAATATATAATTTAATAAAATTATTATCCTT
38257007 ATATGAATTTACTAAAATCATAATATATAATACTATAAAATATAA
66 ATATGAATTTACTAAAATCATAATATATAATACTATAAAATATAA
38257052 TTT-AAATAATTATTATTAAATATAATTTA
1 TTTAAAATAATTATTATTAAATATAATTTA
38257081 TAATCTACTT
Statistics
Matches: 134, Mismatches: 5, Indels: 11
0.89 0.03 0.07
Matches are distributed among these distances:
109 26 0.19
110 36 0.27
113 18 0.13
116 1 0.01
117 2 0.01
120 51 0.38
ACGTcount: A:0.51, C:0.04, G:0.02, T:0.43
Consensus pattern (110 bp):
TTTAAAATAATTATTATTAAATATAATTTAATAAAAATATATAATTTAATAAAATTATTATCCTT
ATATGAATTTACTAAAATCATAATATATAATACTATAAAATATAA
Found at i:38256964 original size:26 final size:28
Alignment explanation
Indices: 38256934--38256997 Score: 87
Period size: 28 Copynumber: 2.4 Consensus size: 28
38256924 TAATACTATA
*
38256934 AAATATAATTTAA-AATAAT-TATTATT
1 AAATATAATTTAATAATAATATATAATT
38256960 AAATATAATTTAATAATAATATATAATT
1 AAATATAATTTAATAATAATATATAATT
* *
38256988 TAATAAAATT
1 AAATATAATT
38256998 CTTATCCTTA
Statistics
Matches: 33, Mismatches: 3, Indels: 2
0.87 0.08 0.05
Matches are distributed among these distances:
26 13 0.39
27 6 0.18
28 14 0.42
ACGTcount: A:0.56, C:0.00, G:0.00, T:0.44
Consensus pattern (28 bp):
AAATATAATTTAATAATAATATATAATT
Found at i:38257076 original size:32 final size:32
Alignment explanation
Indices: 38257040--38257103 Score: 74
Period size: 32 Copynumber: 2.0 Consensus size: 32
38257030 TATATAATAC
*
38257040 TATAAAATATAATTTAAATAATTATTATTAAA
1 TATAAAATATAATCTAAATAATTATTATTAAA
** ** *
38257072 TATAATTTATAATCTACTTTATTATTATTAAA
1 TATAAAATATAATCTAAATAATTATTATTAAA
38257104 CTGCAATACA
Statistics
Matches: 26, Mismatches: 6, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
32 26 1.00
ACGTcount: A:0.48, C:0.03, G:0.00, T:0.48
Consensus pattern (32 bp):
TATAAAATATAATCTAAATAATTATTATTAAA
Found at i:38258547 original size:49 final size:49
Alignment explanation
Indices: 38258472--38258575 Score: 145
Period size: 49 Copynumber: 2.1 Consensus size: 49
38258462 AAAAAAAAAC
* * ** * *
38258472 AAATTAAAATTAAGTTTAATATCATGAATCAAAAGGTGAACACTTTATA
1 AAATTAAAATTAAGTTCAATACCATGAATCAAAAACTCAACACTGTATA
*
38258521 AAATTAAAATTGAGTTCAATACCATGAATCAAAAACTCAACACTGTATA
1 AAATTAAAATTAAGTTCAATACCATGAATCAAAAACTCAACACTGTATA
38258570 AAATTA
1 AAATTA
38258576 TAACACATGA
Statistics
Matches: 48, Mismatches: 7, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
49 48 1.00
ACGTcount: A:0.50, C:0.12, G:0.09, T:0.30
Consensus pattern (49 bp):
AAATTAAAATTAAGTTCAATACCATGAATCAAAAACTCAACACTGTATA
Found at i:38259147 original size:67 final size:67
Alignment explanation
Indices: 38259039--38259311 Score: 415
Period size: 67 Copynumber: 4.0 Consensus size: 67
38259029 TGTATACAAG
* *
38259039 GTTTATCATATTG-TACAAATTTTCTATAATATTATAATTACCCTTTATTTAGATTGTTTATCGT
1 GTTTATCATATTGTTA-AAATTTTCTATAATAATATAATTACCCTTTATTTAGATTGTTTATCAT
38259103 ATT
65 ATT
* * *
38259106 GTTTATCATATTG-TACAAATTTTCTGTAATAATACAATTACCCTTTATTTAGATTGTTTATAAT
1 GTTTATCATATTGTTA-AAATTTTCTATAATAATATAATTACCCTTTATTTAGATTGTTTATCAT
38259170 ATT
65 ATT
* * * *
38259173 GTTTATAATATTGTTAAAACATTGCAACTAATAATATAATTACCCTTTATTTAGATTGTTTATCA
1 GTTTATCATATTGTTAAAA-TTTTCTA-TAATAATATAATTACCCTTTATTTAGATTGTTTATCA
38259238 TATT
64 TATT
38259242 GTTTATCATATTGTTAAAATTTTCTATAATAATATAATTACCCTTTATTTAGATTGTTTATCATA
1 GTTTATCATATTGTTAAAATTTTCTATAATAATATAATTACCCTTTATTTAGATTGTTTATCATA
38259307 TT
66 TT
38259309 GTT
1 GTT
38259312 AAAATTTTCT
Statistics
Matches: 187, Mismatches: 16, Indels: 6
0.89 0.08 0.03
Matches are distributed among these distances:
67 121 0.65
68 9 0.05
69 57 0.30
ACGTcount: A:0.33, C:0.10, G:0.07, T:0.50
Consensus pattern (67 bp):
GTTTATCATATTGTTAAAATTTTCTATAATAATATAATTACCCTTTATTTAGATTGTTTATCATA
TT
Found at i:38259175 original size:12 final size:12
Alignment explanation
Indices: 38259158--38259187 Score: 60
Period size: 12 Copynumber: 2.5 Consensus size: 12
38259148 CTTTATTTAG
38259158 ATTGTTTATAAT
1 ATTGTTTATAAT
38259170 ATTGTTTATAAT
1 ATTGTTTATAAT
38259182 ATTGTT
1 ATTGTT
38259188 AAAACATTGC
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 18 1.00
ACGTcount: A:0.30, C:0.00, G:0.10, T:0.60
Consensus pattern (12 bp):
ATTGTTTATAAT
Found at i:38259244 original size:12 final size:12
Alignment explanation
Indices: 38259227--38259256 Score: 60
Period size: 12 Copynumber: 2.5 Consensus size: 12
38259217 CTTTATTTAG
38259227 ATTGTTTATCAT
1 ATTGTTTATCAT
38259239 ATTGTTTATCAT
1 ATTGTTTATCAT
38259251 ATTGTT
1 ATTGTT
38259257 AAAATTTTCT
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 18 1.00
ACGTcount: A:0.23, C:0.07, G:0.10, T:0.60
Consensus pattern (12 bp):
ATTGTTTATCAT
Found at i:38259309 original size:136 final size:136
Alignment explanation
Indices: 38259065--38259311 Score: 433
Period size: 136 Copynumber: 1.8 Consensus size: 136
38259055 AAATTTTCTA
* *
38259065 TAATATTATAATTACCCTTTATTTAGATTGTTTATCGTATTGTTTATCATATTGTACAAATTTTC
1 TAATAATATAATTACCCTTTATTTAGATTGTTTATCATATTGTTTATCATATTGTACAAATTTTC
*
38259130 TGTAATAATACAATTACCCTTTATTTAGATTGTTTATAATATTGTTTATAATATTGTTAAAACAT
66 TATAATAATACAATTACCCTTTATTTAGATTGTTTATAATATTGTTTATAATATTGTTAAAACAT
38259195 TGCAAC
131 TGCAAC
38259201 TAATAATATAATTACCCTTTATTTAGATTGTTTATCATATTGTTTATCATATTGTTA-AAATTTT
1 TAATAATATAATTACCCTTTATTTAGATTGTTTATCATATTGTTTATCATATTG-TACAAATTTT
* *
38259265 CTATAATAATATAATTACCCTTTATTTAGATTGTTTATCATATTGTT
65 CTATAATAATACAATTACCCTTTATTTAGATTGTTTATAATATTGTT
38259312 AAAATTTTCT
Statistics
Matches: 105, Mismatches: 5, Indels: 2
0.94 0.04 0.02
Matches are distributed among these distances:
136 103 0.98
137 2 0.02
ACGTcount: A:0.33, C:0.10, G:0.07, T:0.50
Consensus pattern (136 bp):
TAATAATATAATTACCCTTTATTTAGATTGTTTATCATATTGTTTATCATATTGTACAAATTTTC
TATAATAATACAATTACCCTTTATTTAGATTGTTTATAATATTGTTTATAATATTGTTAAAACAT
TGCAAC
Found at i:38262755 original size:3 final size:3
Alignment explanation
Indices: 38262747--38262785 Score: 60
Period size: 3 Copynumber: 13.0 Consensus size: 3
38262737 AACTATTTGT
* *
38262747 TTC TTC TTC TTC TTC TTC TTC TTC TTC TCC TCC TTC TTC
1 TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC
38262786 AGTATCTTAA
Statistics
Matches: 34, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
3 34 1.00
ACGTcount: A:0.00, C:0.38, G:0.00, T:0.62
Consensus pattern (3 bp):
TTC
Found at i:38275228 original size:30 final size:30
Alignment explanation
Indices: 38275192--38275249 Score: 89
Period size: 30 Copynumber: 1.9 Consensus size: 30
38275182 ATTTTAAGAG
* **
38275192 CCACACGGGCTGGGCACATGCCCATGTGAC
1 CCACACGGGCTGGACACAAACCCATGTGAC
38275222 CCACACGGGCTGGACACAAACCCATGTG
1 CCACACGGGCTGGACACAAACCCATGTG
38275250 CCAGCCCGTG
Statistics
Matches: 25, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
30 25 1.00
ACGTcount: A:0.24, C:0.36, G:0.28, T:0.12
Consensus pattern (30 bp):
CCACACGGGCTGGACACAAACCCATGTGAC
Found at i:38279769 original size:30 final size:30
Alignment explanation
Indices: 38279735--38279812 Score: 86
Period size: 30 Copynumber: 2.6 Consensus size: 30
38279725 GGGTTTCATC
* *
38279735 TTATAGAATGTTCATATAAAAGTCAAACTT
1 TTATAAAATGTTCAAATAAAAGTCAAACTT
* * * *
38279765 TTATACAATGCTCAAATCAAAGTTAAACTT
1 TTATAAAATGTTCAAATAAAAGTCAAACTT
*
38279795 TT-TAAAATGTTTAAATAA
1 TTATAAAATGTTCAAATAA
38279813 GAGTTAAATT
Statistics
Matches: 39, Mismatches: 9, Indels: 1
0.80 0.18 0.02
Matches are distributed among these distances:
29 12 0.31
30 27 0.69
ACGTcount: A:0.45, C:0.10, G:0.08, T:0.37
Consensus pattern (30 bp):
TTATAAAATGTTCAAATAAAAGTCAAACTT
Found at i:38279817 original size:29 final size:28
Alignment explanation
Indices: 38279741--38279826 Score: 82
Period size: 29 Copynumber: 2.9 Consensus size: 28
38279731 CATCTTATAG
* * *
38279741 AATGTTCATATAAAAGTCAAACTTTTATAC
1 AATGTTCAAAT-AAAGTTAAACTTTT-TAA
*
38279771 AATGCTCAAATCAAAGTTAAACTTTTTAA
1 AATGTTCAAAT-AAAGTTAAACTTTTTAA
* *
38279800 AATGTTTAAATAAGAGTTAAATTTTTT
1 AATGTTCAAATAA-AGTTAAACTTTTT
38279827 TTAAATACTC
Statistics
Matches: 47, Mismatches: 8, Indels: 3
0.81 0.14 0.05
Matches are distributed among these distances:
28 2 0.04
29 23 0.49
30 22 0.47
ACGTcount: A:0.43, C:0.09, G:0.08, T:0.40
Consensus pattern (28 bp):
AATGTTCAAATAAAGTTAAACTTTTTAA
Found at i:38286294 original size:27 final size:27
Alignment explanation
Indices: 38286262--38286469 Score: 249
Period size: 27 Copynumber: 7.7 Consensus size: 27
38286252 ACCCCCATAA
*
38286262 GGTAAAATGACCGAAATACTCT-TAATG
1 GGTAAAATGACCGAAATACTCTCGAA-G
*
38286289 GCTAAAATGACCGAAATACTCTCGAAG
1 GGTAAAATGACCGAAATACTCTCGAAG
* *
38286316 GGTAAAATGACCGAAATACCCTCGATG
1 GGTAAAATGACCGAAATACTCTCGAAG
*
38286343 GGTAAAATAACCGAAATACTCTCGAAG
1 GGTAAAATGACCGAAATACTCTCGAAG
*
38286370 GGTAAAATGACCAAAATACTCTCGAAG
1 GGTAAAATGACCGAAATACTCTCGAAG
* * * * * *
38286397 GGCAAAATAACCAAAATACCCCCAAAG
1 GGTAAAATGACCGAAATACTCTCGAAG
* * *
38286424 GGTAAAATTATCGAAATAC-CCCTGAAG
1 GGTAAAATGACCGAAATACTCTC-GAAG
38286451 GGTAAAATGACCGAAATAC
1 GGTAAAATGACCGAAATAC
38286470 ACCTATAGGG
Statistics
Matches: 157, Mismatches: 22, Indels: 4
0.86 0.12 0.02
Matches are distributed among these distances:
26 3 0.02
27 152 0.97
28 2 0.01
ACGTcount: A:0.43, C:0.20, G:0.18, T:0.18
Consensus pattern (27 bp):
GGTAAAATGACCGAAATACTCTCGAAG
Found at i:38286480 original size:54 final size:53
Alignment explanation
Indices: 38286239--38286485 Score: 230
Period size: 54 Copynumber: 4.6 Consensus size: 53
38286229 AGAGGTCAAT
* * * *
38286239 AAATGACC-AAATTACCCCCATAAGGTAAAATGACCGAAATACTCT-TAATGGCTA
1 AAATGACCGAAA-TACCCCCA-AGGGTAAAATGACCGAAATACCCTCGAA-GGGTA
* * *
38286293 AAATGACCGAAATACTCTCGAAGGGTAAAATGACCGAAATACCCTCGATGGGTA
1 AAATGACCGAAATAC-CCCCAAGGGTAAAATGACCGAAATACCCTCGAAGGGTA
* * * * * *
38286347 AAATAACCGAAATACTCTCGAAGGGTAAAATGACCAAAATACTCTCGAAGGGCA
1 AAATGACCGAAATAC-CCCCAAGGGTAAAATGACCGAAATACCCTCGAAGGGTA
* * * *
38286401 AAATAACCAAAATACCCCCAAAGGGTAAAATTATCGAAATACCC-CTGAAGGGTA
1 AAATGACCGAAATACCCCC-AAGGGTAAAATGACCGAAATACCCTC-GAAGGGTA
* *
38286455 AAATGACCGAAATACACCTATAGGGTAAAAT
1 AAATGACCGAAATACCCCCA-AGGGTAAAAT
38286486 AACTGTTATA
Statistics
Matches: 163, Mismatches: 24, Indels: 12
0.82 0.12 0.06
Matches are distributed among these distances:
53 4 0.02
54 152 0.93
55 7 0.04
ACGTcount: A:0.44, C:0.21, G:0.17, T:0.19
Consensus pattern (53 bp):
AAATGACCGAAATACCCCCAAGGGTAAAATGACCGAAATACCCTCGAAGGGTA
Found at i:38286485 original size:81 final size:80
Alignment explanation
Indices: 38286239--38286488 Score: 288
Period size: 81 Copynumber: 3.1 Consensus size: 80
38286229 AGAGGTCAAT
* * * * *
38286239 AAATGACCAAATTACCCCCATAA-GGTAAAATGACCGAAATACTCTTAATGGCTAAAATGACCGA
1 AAATAACCAAAATACCCCCA-AAGGGTAAAATAACCGAAATACTCTGAA-GGGTAAAATGACCGA
38286303 AATACTCTCGAAGGGTA
64 AATACTCTCGAAGGGTA
* * * * * *
38286320 AAATGACCGAAATACCCTCGATGGGTAAAATAACCGAAATACTCTCGAAGGGTAAAATGACCAAA
1 AAATAACCAAAATACCCCCAAAGGGTAAAATAACCGAAATACTCT-GAAGGGTAAAATGACCGAA
*
38286385 ATACTCTCGAAGGGCA
65 ATACTCTCGAAGGGTA
* * *
38286401 AAATAACCAAAATACCCCCAAAGGGTAAAATTATCGAAATACCCCTGAAGGGTAAAATGACCGAA
1 AAATAACCAAAATACCCCCAAAGGGTAAAATAACCGAAATA-CTCTGAAGGGTAAAATGACCGAA
* *
38286466 ATACAC-CTATAGGGTA
65 ATACTCTCGA-AGGGTA
38286482 AAATAAC
1 AAATAAC
38286489 TGTTATACCC
Statistics
Matches: 143, Mismatches: 22, Indels: 8
0.83 0.13 0.05
Matches are distributed among these distances:
80 3 0.02
81 135 0.94
82 5 0.03
ACGTcount: A:0.44, C:0.21, G:0.17, T:0.18
Consensus pattern (80 bp):
AAATAACCAAAATACCCCCAAAGGGTAAAATAACCGAAATACTCTGAAGGGTAAAATGACCGAAA
TACTCTCGAAGGGTA
Found at i:38286692 original size:26 final size:27
Alignment explanation
Indices: 38286663--38286736 Score: 80
Period size: 26 Copynumber: 2.8 Consensus size: 27
38286653 TTGCCACATA
38286663 TACTGTTACTGGCAGCTTTGCTTG-GT
1 TACTGTTACTGGCAGCTTTGCTTGCGT
* *
38286689 TACTGTTAGTAGCAGCTTTG-TTGCGT
1 TACTGTTACTGGCAGCTTTGCTTGCGT
* * * *
38286715 CATTATTACTGGTAGCTTTGCT
1 TACTGTTACTGGCAGCTTTGCT
38286737 GCGATATTGG
Statistics
Matches: 38, Mismatches: 8, Indels: 3
0.78 0.16 0.06
Matches are distributed among these distances:
25 3 0.08
26 34 0.89
27 1 0.03
ACGTcount: A:0.15, C:0.18, G:0.24, T:0.43
Consensus pattern (27 bp):
TACTGTTACTGGCAGCTTTGCTTGCGT
Found at i:38286912 original size:30 final size:28
Alignment explanation
Indices: 38286876--38286936 Score: 86
Period size: 30 Copynumber: 2.1 Consensus size: 28
38286866 AAACCCATAT
*
38286876 TGTTACTATATTGGGCTAAGGTCCACACAC
1 TGTTACTATAATGGGCTAAGG-CC-CACAC
*
38286906 TGTTACTATAATGGGCTCAGGCCCACAC
1 TGTTACTATAATGGGCTAAGGCCCACAC
38286934 TGT
1 TGT
38286937 ACTGCTACTG
Statistics
Matches: 29, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
28 8 0.28
29 2 0.07
30 19 0.66
ACGTcount: A:0.25, C:0.25, G:0.21, T:0.30
Consensus pattern (28 bp):
TGTTACTATAATGGGCTAAGGCCCACAC
Found at i:38294534 original size:5 final size:6
Alignment explanation
Indices: 38294524--38294593 Score: 53
Period size: 5 Copynumber: 12.0 Consensus size: 6
38294514 GATAGTATTT
*
38294524 TATTAA T-TTAA TATTAAAA TGATT-A TCTTAA TATTAA -ATTAA TA-TAA
1 TATTAA TATTAA TATT--AA T-ATTAA TATTAA TATTAA TATTAA TATTAA
38294571 TATTAA -ATTAA -ATTTAA TATTAA
1 TATTAA TATTAA TA-TTAA TATTAA
38294594 AGTAATTAAG
Statistics
Matches: 53, Mismatches: 2, Indels: 18
0.73 0.03 0.25
Matches are distributed among these distances:
5 23 0.43
6 23 0.43
7 1 0.02
8 3 0.06
9 3 0.06
ACGTcount: A:0.50, C:0.01, G:0.01, T:0.47
Consensus pattern (6 bp):
TATTAA
Found at i:38294540 original size:11 final size:11
Alignment explanation
Indices: 38294524--38294593 Score: 53
Period size: 11 Copynumber: 6.5 Consensus size: 11
38294514 GATAGTATTT
38294524 TATTAATTTAA
1 TATTAATTTAA
38294535 TATTAA---AA
1 TATTAATTTAA
38294543 TGATT-ATCTTAA
1 T-ATTAAT-TTAA
*
38294555 TATTAAATTAA
1 TATTAATTTAA
38294566 TA-TAATATTAA
1 TATTAAT-TTAA
38294577 -ATTAAATTTAA
1 TATT-AATTTAA
38294588 TATTAA
1 TATTAA
38294594 AGTAATTAAG
Statistics
Matches: 47, Mismatches: 2, Indels: 20
0.68 0.03 0.29
Matches are distributed among these distances:
8 4 0.09
9 3 0.06
10 4 0.09
11 26 0.55
12 10 0.21
ACGTcount: A:0.50, C:0.01, G:0.01, T:0.47
Consensus pattern (11 bp):
TATTAATTTAA
Found at i:38294571 original size:16 final size:16
Alignment explanation
Indices: 38294552--38294599 Score: 69
Period size: 16 Copynumber: 2.9 Consensus size: 16
38294542 ATGATTATCT
38294552 TAATATTAAATTAATA
1 TAATATTAAATTAATA
*
38294568 TAATATTAAATTAAATT
1 TAATATTAAATT-AATA
*
38294585 TAATATTAAAGTAAT
1 TAATATTAAATTAAT
38294600 TAAGTTTAAT
Statistics
Matches: 29, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
16 15 0.52
17 14 0.48
ACGTcount: A:0.54, C:0.00, G:0.02, T:0.44
Consensus pattern (16 bp):
TAATATTAAATTAATA
Found at i:38294599 original size:11 final size:11
Alignment explanation
Indices: 38294551--38294599 Score: 57
Period size: 11 Copynumber: 4.5 Consensus size: 11
38294541 AATGATTATC
38294551 TTAATATTAAA
1 TTAATATTAAA
38294562 TTAATA-TAATA
1 TTAATATTAA-A
38294573 TTAA-ATTAAA
1 TTAATATTAAA
38294583 TTTAATATTAAA
1 -TTAATATTAAA
*
38294595 GTAAT
1 TTAAT
38294600 TAAGTTTAAT
Statistics
Matches: 33, Mismatches: 1, Indels: 8
0.79 0.02 0.19
Matches are distributed among these distances:
10 5 0.15
11 22 0.67
12 6 0.18
ACGTcount: A:0.53, C:0.00, G:0.02, T:0.45
Consensus pattern (11 bp):
TTAATATTAAA
Found at i:38298471 original size:81 final size:81
Alignment explanation
Indices: 38298360--38298519 Score: 214
Period size: 81 Copynumber: 2.0 Consensus size: 81
38298350 TTTCATTTTC
* ** ** *
38298360 ACAAAAACCAATAAAAGTATGTATAATGTGGGATTTGAACCTGCATTAATTAGATTTATAAAACT
1 ACAAAAACCAATAAAAGTATGCATAATGTGGGATTTGAACCCACACCAATTAGATTGATAAAACT
38298425 TTAAATTTACTACTCA
66 TTAAATTTACTACTCA
* * * *
38298441 ACAAAAACTC-ATAAAATTATGCATATTGTGGGGTTTGAACCCACACCAATTGGATTGATAAAAC
1 ACAAAAAC-CAATAAAAGTATGCATAATGTGGGATTTGAACCCACACCAATTAGATTGATAAAAC
38298505 TTTAAATTTACTACT
65 TTTAAATTTACTACT
38298520 TAACCAAAGC
Statistics
Matches: 68, Mismatches: 10, Indels: 2
0.85 0.12 0.03
Matches are distributed among these distances:
81 67 0.99
82 1 0.01
ACGTcount: A:0.41, C:0.14, G:0.12, T:0.33
Consensus pattern (81 bp):
ACAAAAACCAATAAAAGTATGCATAATGTGGGATTTGAACCCACACCAATTAGATTGATAAAACT
TTAAATTTACTACTCA
Found at i:38298942 original size:14 final size:14
Alignment explanation
Indices: 38298925--38298965 Score: 64
Period size: 14 Copynumber: 2.9 Consensus size: 14
38298915 GAACATTGAT
*
38298925 CAGCAAACAGCAAA
1 CAGCAAACAACAAA
38298939 CAGCAAACAACAAA
1 CAGCAAACAACAAA
*
38298953 CAACAAACAACAA
1 CAGCAAACAACAA
38298966 CGTGGTCATG
Statistics
Matches: 25, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
14 25 1.00
ACGTcount: A:0.63, C:0.29, G:0.07, T:0.00
Consensus pattern (14 bp):
CAGCAAACAACAAA
Found at i:38298962 original size:7 final size:7
Alignment explanation
Indices: 38298928--38298965 Score: 58
Period size: 7 Copynumber: 5.4 Consensus size: 7
38298918 CATTGATCAG
*
38298928 CAAACAG
1 CAAACAA
*
38298935 CAAACAG
1 CAAACAA
38298942 CAAACAA
1 CAAACAA
38298949 CAAACAA
1 CAAACAA
38298956 CAAACAA
1 CAAACAA
38298963 CAA
1 CAA
38298966 CGTGGTCATG
Statistics
Matches: 30, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
7 30 1.00
ACGTcount: A:0.66, C:0.29, G:0.05, T:0.00
Consensus pattern (7 bp):
CAAACAA
Found at i:38299403 original size:3 final size:3
Alignment explanation
Indices: 38299395--38299443 Score: 98
Period size: 3 Copynumber: 16.3 Consensus size: 3
38299385 GCTTTACCCT
38299395 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA
38299443 T
1 T
38299444 AAGCTTGTTT
Statistics
Matches: 46, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 46 1.00
ACGTcount: A:0.33, C:0.00, G:0.00, T:0.67
Consensus pattern (3 bp):
TTA
Found at i:38307650 original size:17 final size:18
Alignment explanation
Indices: 38307608--38307650 Score: 52
Period size: 17 Copynumber: 2.4 Consensus size: 18
38307598 ATTTCATCTG
*
38307608 TTTATTTTCCTTTATTTA
1 TTTATTTTCCATTATTTA
* *
38307626 TTTCTTTT-CATTATTTC
1 TTTATTTTCCATTATTTA
38307643 TTTATTTT
1 TTTATTTT
38307651 ATCTCTTCAA
Statistics
Matches: 21, Mismatches: 4, Indels: 1
0.81 0.15 0.04
Matches are distributed among these distances:
17 14 0.67
18 7 0.33
ACGTcount: A:0.14, C:0.12, G:0.00, T:0.74
Consensus pattern (18 bp):
TTTATTTTCCATTATTTA
Found at i:38318682 original size:23 final size:22
Alignment explanation
Indices: 38318630--38318682 Score: 56
Period size: 23 Copynumber: 2.4 Consensus size: 22
38318620 TCCACGTCTT
*
38318630 TTTCTTTTGTTTCTTTTTCTAA
1 TTTCTTTTCTTTCTTTTTCTAA
38318652 -TTCATTTTCTCTTCTTTCTTC-AA
1 TTTC-TTTTCT-TTCTTT-TTCTAA
38318675 TTTCTTTT
1 TTTCTTTT
38318683 TCACTCTCAA
Statistics
Matches: 26, Mismatches: 1, Indels: 7
0.76 0.03 0.21
Matches are distributed among these distances:
21 3 0.12
22 5 0.19
23 12 0.46
24 6 0.23
ACGTcount: A:0.09, C:0.19, G:0.02, T:0.70
Consensus pattern (22 bp):
TTTCTTTTCTTTCTTTTTCTAA
Found at i:38324242 original size:45 final size:45
Alignment explanation
Indices: 38324173--38324372 Score: 181
Period size: 45 Copynumber: 4.5 Consensus size: 45
38324163 TACACGGTGG
* * *
38324173 ATCAGCACACAGC-ACCACCCTTATAGTCAATAGTACTCGGTGAA
1 ATCAGCACATAGCAACCACCTTTATAATCAATAGTACTCGGTGAA
* *
38324217 ATCAGCACATAGCAACCACCTTTATACTCAATGGTAC-CGGGTGAA
1 ATCAGCACATAGCAACCACCTTTATAATCAATAGTACTC-GGTGAA
* * * * * *
38324262 ATCAGGACATAGCAACCACCTATATAACCATTGGTA-TCCAGTGAA
1 ATCAGCACATAGCAACCACCTTTATAATCAATAGTACT-CGGTGAA
** ** * * * *
38324307 ATCAGCACATAGCAACCACCTTTATTTTCTTTAATATTAGGTGGA
1 ATCAGCACATAGCAACCACCTTTATAATCAATAGTACTCGGTGAA
*
38324352 ATCAGCACATAGCATCCACCT
1 ATCAGCACATAGCAACCACCT
38324373 ATATTTCCAA
Statistics
Matches: 129, Mismatches: 22, Indels: 9
0.81 0.14 0.06
Matches are distributed among these distances:
44 13 0.10
45 114 0.88
46 2 0.02
ACGTcount: A:0.34, C:0.27, G:0.15, T:0.24
Consensus pattern (45 bp):
ATCAGCACATAGCAACCACCTTTATAATCAATAGTACTCGGTGAA
Found at i:38324355 original size:90 final size:90
Alignment explanation
Indices: 38324212--38324376 Score: 222
Period size: 90 Copynumber: 1.8 Consensus size: 90
38324202 ATAGTACTCG
** * *
38324212 GTGAAATCAGCACATAGCAACCACCTTTATACTCAATGGTACCGGGTGAAATCAGGACATAGCAA
1 GTGAAATCAGCACATAGCAACCACCTTTATACTCAATAATACCAGGTGAAATCAGCACATAGCAA
38324277 CCACCTATATAACCATTGGTATCCA
66 CCACCTATATAACCATTGGTATCCA
** ** ** * *
38324302 GTGAAATCAGCACATAGCAACCACCTTTATTTTCTTTAATATTAGGTGGAATCAGCACATAGCAT
1 GTGAAATCAGCACATAGCAACCACCTTTATACTCAATAATACCAGGTGAAATCAGCACATAGCAA
38324367 CCACCTATAT
66 CCACCTATAT
38324377 TTCCAACGAT
Statistics
Matches: 63, Mismatches: 12, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
90 63 1.00
ACGTcount: A:0.35, C:0.24, G:0.15, T:0.26
Consensus pattern (90 bp):
GTGAAATCAGCACATAGCAACCACCTTTATACTCAATAATACCAGGTGAAATCAGCACATAGCAA
CCACCTATATAACCATTGGTATCCA
Found at i:38328206 original size:21 final size:21
Alignment explanation
Indices: 38328181--38328222 Score: 75
Period size: 21 Copynumber: 2.0 Consensus size: 21
38328171 TAGGGGTGTC
38328181 ACTTCCAAGTATACTAAGTCT
1 ACTTCCAAGTATACTAAGTCT
*
38328202 ACTTCCAAGTATAGTAAGTCT
1 ACTTCCAAGTATACTAAGTCT
38328223 CTTTAATAAA
Statistics
Matches: 20, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
21 20 1.00
ACGTcount: A:0.33, C:0.21, G:0.12, T:0.33
Consensus pattern (21 bp):
ACTTCCAAGTATACTAAGTCT
Found at i:38335597 original size:10 final size:10
Alignment explanation
Indices: 38335582--38335611 Score: 51
Period size: 10 Copynumber: 3.0 Consensus size: 10
38335572 GGGGTTTAAA
*
38335582 CTTTATGCAT
1 CTTTATCCAT
38335592 CTTTATCCAT
1 CTTTATCCAT
38335602 CTTTATCCAT
1 CTTTATCCAT
38335612 TAGGATTTAC
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
10 19 1.00
ACGTcount: A:0.20, C:0.27, G:0.03, T:0.50
Consensus pattern (10 bp):
CTTTATCCAT
Found at i:38342056 original size:59 final size:59
Alignment explanation
Indices: 38341985--38342105 Score: 242
Period size: 59 Copynumber: 2.1 Consensus size: 59
38341975 GCAACATTTC
38341985 TTGGCACTTTAGAATTTAAGGCGTAAACCAATTTTGTAATTCTTCAATTATAATAACTT
1 TTGGCACTTTAGAATTTAAGGCGTAAACCAATTTTGTAATTCTTCAATTATAATAACTT
38342044 TTGGCACTTTAGAATTTAAGGCGTAAACCAATTTTGTAATTCTTCAATTATAATAACTT
1 TTGGCACTTTAGAATTTAAGGCGTAAACCAATTTTGTAATTCTTCAATTATAATAACTT
38342103 TTG
1 TTG
38342106 TAAACCTAAT
Statistics
Matches: 62, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
59 62 1.00
ACGTcount: A:0.33, C:0.13, G:0.12, T:0.41
Consensus pattern (59 bp):
TTGGCACTTTAGAATTTAAGGCGTAAACCAATTTTGTAATTCTTCAATTATAATAACTT
Found at i:38357244 original size:15 final size:16
Alignment explanation
Indices: 38357226--38357266 Score: 57
Period size: 15 Copynumber: 2.6 Consensus size: 16
38357216 AAATTTTTTT
*
38357226 TAAAAAAATT-ATAAA
1 TAAAAAAATTCAAAAA
38357241 TAAAAAAATTCAAAAA
1 TAAAAAAATTCAAAAA
38357257 TATAAAAAAT
1 TA-AAAAAAT
38357267 AATTATAGAA
Statistics
Matches: 23, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
15 10 0.43
16 6 0.26
17 7 0.30
ACGTcount: A:0.73, C:0.02, G:0.00, T:0.24
Consensus pattern (16 bp):
TAAAAAAATTCAAAAA
Found at i:38357270 original size:20 final size:19
Alignment explanation
Indices: 38357227--38357304 Score: 58
Period size: 19 Copynumber: 4.3 Consensus size: 19
38357217 AATTTTTTTT
*
38357227 AAAAA-AATTATAAATA-A
1 AAAAATAATTAAAAATATA
*
38357244 AAAAAT--TCAAAAATATA
1 AAAAATAATTAAAAATATA
*
38357261 AAAAATAATTATAGAAT-TA
1 AAAAATAATTA-AAAATATA
* * *
38357280 AAAAATTATTAAAATTATT
1 AAAAATAATTAAAAATATA
38357299 AAAAAT
1 AAAAAT
38357305 CTTATAAAAT
Statistics
Matches: 47, Mismatches: 8, Indels: 10
0.72 0.12 0.15
Matches are distributed among these distances:
16 7 0.15
17 12 0.26
18 3 0.06
19 21 0.45
20 4 0.09
ACGTcount: A:0.68, C:0.01, G:0.01, T:0.29
Consensus pattern (19 bp):
AAAAATAATTAAAAATATA
Found at i:38357303 original size:10 final size:10
Alignment explanation
Indices: 38357280--38357335 Score: 57
Period size: 9 Copynumber: 5.8 Consensus size: 10
38357270 TATAGAATTA
38357280 AAAAATTATT
1 AAAAATTATT
38357290 -AAAATTATT
1 AAAAATTATT
*
38357299 AAAAA-TCTT
1 AAAAATTATT
38357308 ATAAAA-TATT
1 A-AAAATTATT
38357318 CAAAAATTA-T
1 -AAAAATTATT
38357328 AAAAATTA
1 AAAAATTA
38357336 CTTAGAAGTG
Statistics
Matches: 40, Mismatches: 2, Indels: 9
0.78 0.04 0.18
Matches are distributed among these distances:
9 21 0.52
10 16 0.40
11 3 0.08
ACGTcount: A:0.61, C:0.04, G:0.00, T:0.36
Consensus pattern (10 bp):
AAAAATTATT
Found at i:38357312 original size:20 final size:20
Alignment explanation
Indices: 38357276--38357333 Score: 59
Period size: 19 Copynumber: 3.0 Consensus size: 20
38357266 TAATTATAGA
38357276 ATTAAAAA-ATTATTAAAATT
1 ATTAAAAATATTATTAAAA-T
*
38357296 ATTAAAAATCTTA-TAAAAT
1 ATTAAAAATATTATTAAAAT
* *
38357315 ATTCAAAA-ATTATAAAAAT
1 ATTAAAAATATTATTAAAAT
38357334 TACTTAGAAG
Statistics
Matches: 32, Mismatches: 4, Indels: 5
0.78 0.10 0.12
Matches are distributed among these distances:
18 3 0.09
19 13 0.41
20 13 0.41
21 3 0.09
ACGTcount: A:0.60, C:0.03, G:0.00, T:0.36
Consensus pattern (20 bp):
ATTAAAAATATTATTAAAAT
Found at i:38361643 original size:41 final size:42
Alignment explanation
Indices: 38361586--38362020 Score: 484
Period size: 41 Copynumber: 10.6 Consensus size: 42
38361576 CCTTTCGGGG
*
38361586 CTTTAGCGGCGTTTTTGAAAAAGAGCCGCTAATGCTC-GGAT
1 CTTTAGCGGCGTTTTTGAAAAAGCGCCGCTAATGCTCTGGAT
* * **
38361627 CTTTAGCGGCATTTTTGAAAAAGTGCCGCTAATGCTC-GGGG
1 CTTTAGCGGCGTTTTTGAAAAAGCGCCGCTAATGCTCTGGAT
* * *
38361668 CTTTAGCGGCGTTTTTGAAAAAGTGCTGCTAATGCTCGGGA-
1 CTTTAGCGGCGTTTTTGAAAAAGCGCCGCTAATGCTCTGGAT
* * *
38361709 CTTTAGCGGCGTTTTTTAAAAAGCGCCACTAATGCTCGGGA-
1 CTTTAGCGGCGTTTTTGAAAAAGCGCCGCTAATGCTCTGGAT
* * * *
38361750 CTTTAGCGGCATTTTTTAAAAAGCGTCGTTAATGCTCTGG-T
1 CTTTAGCGGCGTTTTTGAAAAAGCGCCGCTAATGCTCTGGAT
*
38361791 CTTTAGCGGCGTTTTTTAAAAAGCGCCGCTAATGCTCTGG-T
1 CTTTAGCGGCGTTTTTGAAAAAGCGCCGCTAATGCTCTGGAT
* * *
38361832 CTTTAGCAGCATTTTTGTAAAAGCGCCGCTAATGCTC-GAGA-
1 CTTTAGCGGCGTTTTTGAAAAAGCGCCGCTAATGCTCTG-GAT
* * * *
38361873 CTTTAGTGGTGTTTTTAAAAAAGCACCGCTAATGCTCTGG-T
1 CTTTAGCGGCGTTTTTGAAAAAGCGCCGCTAATGCTCTGGAT
* * *
38361914 CTTTAGCGCCG-TTTTCAGAAAAGCGCCGCTAATGCTCTAG-T
1 CTTTAGCGGCGTTTTTGA-AAAAGCGCCGCTAATGCTCTGGAT
* * *
38361955 CTTTAGTGGCG-TTTTCAAAAAGCGTCGCTAATGCTCT-G-T
1 CTTTAGCGGCGTTTTTGAAAAAGCGCCGCTAATGCTCTGGAT
38361994 GCTTTAGCGGCGTTTTTGAAAAAGCGC
1 -CTTTAGCGGCGTTTTTGAAAAAGCGC
38362021 TGCAAAAATA
Statistics
Matches: 343, Mismatches: 42, Indels: 18
0.85 0.10 0.04
Matches are distributed among these distances:
39 2 0.01
40 35 0.10
41 303 0.88
42 3 0.01
ACGTcount: A:0.23, C:0.20, G:0.25, T:0.32
Consensus pattern (42 bp):
CTTTAGCGGCGTTTTTGAAAAAGCGCCGCTAATGCTCTGGAT
Done.