Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: D01
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: 64473564
ACGTcount: A:0.32, C:0.16, G:0.16, T:0.32
Warning! 1880000 characters in sequence are not A, C, G, or T
File 144 of 213
Found at i:43149981 original size:19 final size:19
Alignment explanation
Indices: 43149945--43149982 Score: 58
Period size: 19 Copynumber: 2.0 Consensus size: 19
43149935 AGATAAGTGT
**
43149945 TTTTAATTTAAAGTTAAAA
1 TTTTAATTTAAAAATAAAA
43149964 TTTTAATTTAAAAATAAAA
1 TTTTAATTTAAAAATAAAA
43149983 AAATAAATAT
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
19 17 1.00
ACGTcount: A:0.53, C:0.00, G:0.03, T:0.45
Consensus pattern (19 bp):
TTTTAATTTAAAAATAAAA
Found at i:43151278 original size:27 final size:27
Alignment explanation
Indices: 43151248--43151392 Score: 130
Period size: 28 Copynumber: 5.3 Consensus size: 27
43151238 CCATGTAGGT
* * *
43151248 TTCCATTTCGTAGATTGCCACAAAGGG
1 TTCCATTTCATAAATTGCCACAAAGGC
* * *
43151275 TTCCCTTTTCACAAATCGCCACAAAGGC
1 TT-CCATTTCATAAATTGCCACAAAGGC
* * * * *
43151303 TTCCCTTTTTATATATCGCCACAAAGGA
1 TT-CCATTTCATAAATTGCCACAAAGGC
*
43151331 TTCC-TTTCTATAAATAGCCACAAAGGC
1 TTCCATTTC-ATAAATTGCCACAAAGGC
* *
43151358 TTCCATTTCATAAATTGCCACAAAAGT
1 TTCCATTTCATAAATTGCCACAAAGGC
43151385 TTCCATTT
1 TTCCATTT
43151393 ATCTGGCATG
Statistics
Matches: 98, Mismatches: 17, Indels: 6
0.81 0.14 0.05
Matches are distributed among these distances:
26 3 0.03
27 46 0.47
28 49 0.50
ACGTcount: A:0.30, C:0.26, G:0.12, T:0.32
Consensus pattern (27 bp):
TTCCATTTCATAAATTGCCACAAAGGC
Found at i:43157539 original size:57 final size:58
Alignment explanation
Indices: 43157445--43157566 Score: 129
Period size: 57 Copynumber: 2.1 Consensus size: 58
43157435 ACCAATCTAT
* * * ** * * * *
43157445 GCTAAATCCTATCCATAGCATATGCTTTAGAGAGCTTA-ATTTGGATTACCTATTCAG
1 GCTAAATCCAATCCATAACATAAGCTCAAGAGAGCTTACATTAGAATTACCCATCCAG
* * *
43157502 GCTAAATCCAATCTATAACATAAGCTCAAGAGTGCTTACATTAGAATTACCCATCCCG
1 GCTAAATCCAATCCATAACATAAGCTCAAGAGAGCTTACATTAGAATTACCCATCCAG
43157560 GCTAAAT
1 GCTAAAT
43157567 TCTATTTACA
Statistics
Matches: 52, Mismatches: 12, Indels: 1
0.80 0.18 0.02
Matches are distributed among these distances:
57 31 0.60
58 21 0.40
ACGTcount: A:0.34, C:0.22, G:0.14, T:0.30
Consensus pattern (58 bp):
GCTAAATCCAATCCATAACATAAGCTCAAGAGAGCTTACATTAGAATTACCCATCCAG
Found at i:43158588 original size:17 final size:17
Alignment explanation
Indices: 43158558--43158591 Score: 52
Period size: 17 Copynumber: 2.0 Consensus size: 17
43158548 GACATTAAGT
43158558 TTTGAATTCCATAGCTA
1 TTTGAATTCCATAGCTA
43158575 TTTG-ATTCCTATAGCTA
1 TTTGAATTCC-ATAGCTA
43158592 CTAGAACCCA
Statistics
Matches: 16, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
16 5 0.31
17 11 0.69
ACGTcount: A:0.26, C:0.18, G:0.12, T:0.44
Consensus pattern (17 bp):
TTTGAATTCCATAGCTA
Found at i:43162198 original size:53 final size:53
Alignment explanation
Indices: 43162118--43162222 Score: 131
Period size: 53 Copynumber: 2.0 Consensus size: 53
43162108 ATAAACTACG
* * *
43162118 ATAAGGCAAAGATCCCATGTAAAACCATGCCAATG-CATGGCAATGGTGAGTTC
1 ATAAGGCAAAGATACCACGTAAAACCATGCCAA-GACATGGCAATGGTAAGTTC
* * * *
43162171 ATAAGGCAAGGATACCACGTAAGACCATGTCAAGACATGTCAATGGTAAGTT
1 ATAAGGCAAAGATACCACGTAAAACCATGCCAAGACATGGCAATGGTAAGTT
43162223 TAAAAAGGAA
Statistics
Matches: 44, Mismatches: 7, Indels: 2
0.83 0.13 0.04
Matches are distributed among these distances:
52 1 0.02
53 43 0.98
ACGTcount: A:0.37, C:0.19, G:0.23, T:0.21
Consensus pattern (53 bp):
ATAAGGCAAAGATACCACGTAAAACCATGCCAAGACATGGCAATGGTAAGTTC
Found at i:43176658 original size:29 final size:29
Alignment explanation
Indices: 43176590--43176832 Score: 268
Period size: 29 Copynumber: 8.5 Consensus size: 29
43176580 TCCTTTCCAA
*
43176590 AGATAGCCACAGAGGCTTTCCTTTTAA-AG
1 AGATAGCCACAAAGGC-TTCCTTTTAACAG
** *
43176619 -TCTCA-CCACAAAGGCGTCCTTTTAACAG
1 AGAT-AGCCACAAAGGCTTCCTTTTAACAG
* *
43176647 AGATCA-CCACAAAGACTTCCTTTTAATAG
1 AGAT-AGCCACAAAGGCTTCCTTTTAACAG
*
43176676 AGATAGCCACAAATGCTTCCTTTTAACAG
1 AGATAGCCACAAAGGCTTCCTTTTAACAG
*
43176705 AGGTAGCCACAAAGGCTTCCTTTTAACA-
1 AGATAGCCACAAAGGCTTCCTTTTAACAG
*
43176733 AGGATAGCCACAAAGGCTTCATTTTAACAG
1 A-GATAGCCACAAAGGCTTCCTTTTAACAG
* * *
43176763 AGATAACCACTAAGGCTTCCTTTTAATAG
1 AGATAGCCACAAAGGCTTCCTTTTAACAG
*
43176792 AGATAGCCACAAAGGCAT-CTTTT--CAG
1 AGATAGCCACAAAGGCTTCCTTTTAACAG
*
43176818 AAATAGCCACAAAGG
1 AGATAGCCACAAAGG
43176833 AATCTTTTTA
Statistics
Matches: 183, Mismatches: 25, Indels: 15
0.82 0.11 0.07
Matches are distributed among these distances:
26 16 0.09
27 9 0.05
28 19 0.10
29 138 0.75
30 1 0.01
ACGTcount: A:0.35, C:0.23, G:0.16, T:0.25
Consensus pattern (29 bp):
AGATAGCCACAAAGGCTTCCTTTTAACAG
Found at i:43176858 original size:26 final size:26
Alignment explanation
Indices: 43176798--43176850 Score: 79
Period size: 26 Copynumber: 2.0 Consensus size: 26
43176788 ATAGAGATAG
* *
43176798 CCACAAAGGCATCTTTTCAGAAATAG
1 CCACAAAGGAATCTTTTCAGAAATAA
*
43176824 CCACAAAGGAATCTTTTTAGAAATAA
1 CCACAAAGGAATCTTTTCAGAAATAA
43176850 C
1 C
43176851 TAGAAAGGCT
Statistics
Matches: 24, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
26 24 1.00
ACGTcount: A:0.42, C:0.21, G:0.13, T:0.25
Consensus pattern (26 bp):
CCACAAAGGAATCTTTTCAGAAATAA
Found at i:43184107 original size:21 final size:21
Alignment explanation
Indices: 43184081--43184122 Score: 75
Period size: 21 Copynumber: 2.0 Consensus size: 21
43184071 CAAAAATAGG
43184081 GGACACACACCTGTGTGACTC
1 GGACACACACCTGTGTGACTC
*
43184102 GGACACACGCCTGTGTGACTC
1 GGACACACACCTGTGTGACTC
43184123 TGCCGTGTGT
Statistics
Matches: 20, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
21 20 1.00
ACGTcount: A:0.21, C:0.33, G:0.26, T:0.19
Consensus pattern (21 bp):
GGACACACACCTGTGTGACTC
Found at i:43186144 original size:20 final size:21
Alignment explanation
Indices: 43186108--43186146 Score: 55
Period size: 20 Copynumber: 1.9 Consensus size: 21
43186098 TTTGTATAAG
43186108 TATCATTAAACATTCAAAATC
1 TATCATTAAACATTCAAAATC
43186129 TATCA-TAAATCA-TCAAAA
1 TATCATTAAA-CATTCAAAA
43186147 CACACATGTA
Statistics
Matches: 17, Mismatches: 0, Indels: 3
0.85 0.00 0.15
Matches are distributed among these distances:
20 10 0.59
21 7 0.41
ACGTcount: A:0.51, C:0.18, G:0.00, T:0.31
Consensus pattern (21 bp):
TATCATTAAACATTCAAAATC
Found at i:43193351 original size:19 final size:17
Alignment explanation
Indices: 43193304--43193354 Score: 59
Period size: 19 Copynumber: 2.8 Consensus size: 17
43193294 TATCATTAGC
43193304 TTAAGTTAATTAA-AGA
1 TTAAGTTAATTAATAGA
43193320 TTAAGGTTTAATTAATCATGA
1 TTAA-G-TTAATTAAT-A-GA
43193341 TTAAGTTAATTAAT
1 TTAAGTTAATTAAT
43193355 TAAGCTTAAA
Statistics
Matches: 30, Mismatches: 0, Indels: 7
0.81 0.00 0.19
Matches are distributed among these distances:
16 4 0.13
17 1 0.03
18 8 0.27
19 9 0.30
20 2 0.07
21 6 0.20
ACGTcount: A:0.43, C:0.02, G:0.12, T:0.43
Consensus pattern (17 bp):
TTAAGTTAATTAATAGA
Found at i:43194559 original size:19 final size:19
Alignment explanation
Indices: 43194425--43194564 Score: 95
Period size: 19 Copynumber: 7.4 Consensus size: 19
43194415 GTATGGGATT
* *
43194425 ATGCACTT-ATGCGCCAGA
1 ATGCACTTCATGTGCCAGG
* * *
43194443 ATGCATTTCGTGTGTCAGG
1 ATGCACTTCATGTGCCAGG
* * *
43194462 ATG-ATCTTCGTGTGCTAGT
1 ATGCA-CTTCATGTGCCAGG
* ** *
43194481 ATGCGCTTTGTGTGCCAAG
1 ATGCACTTCATGTGCCAGG
* * * * *
43194500 ATACGCTTTATGCGCCAAG
1 ATGCACTTCATGTGCCAGG
*
43194519 ATGCACTTCATGTGCCAAG
1 ATGCACTTCATGTGCCAGG
43194538 ATGCACTTCATGTGCCAGG
1 ATGCACTTCATGTGCCAGG
43194557 ATGCACTT
1 ATGCACTT
43194565 TGCACAGTGA
Statistics
Matches: 97, Mismatches: 22, Indels: 5
0.78 0.18 0.04
Matches are distributed among these distances:
18 8 0.08
19 89 0.92
ACGTcount: A:0.21, C:0.23, G:0.25, T:0.31
Consensus pattern (19 bp):
ATGCACTTCATGTGCCAGG
Found at i:43194560 original size:38 final size:38
Alignment explanation
Indices: 43194425--43194564 Score: 113
Period size: 38 Copynumber: 3.7 Consensus size: 38
43194415 GTATGGGATT
* * * *
43194425 ATGCACTT-ATGCGCCAGAATGCATTTCGTGTGTCAGG
1 ATGCACTTCATGCGCCAGGATGCACTTCGTGTGCCAAG
* * * * * *
43194462 ATG-ATCTTCGTGTGCTAGTATGCGCTTTGTGTGCCAAG
1 ATGCA-CTTCATGCGCCAGGATGCACTTCGTGTGCCAAG
* * * * *
43194500 ATACGCTTTATGCGCCAAGATGCACTTCATGTGCCAAG
1 ATGCACTTCATGCGCCAGGATGCACTTCGTGTGCCAAG
*
43194538 ATGCACTTCATGTGCCAGGATGCACTT
1 ATGCACTTCATGCGCCAGGATGCACTT
43194565 TGCACAGTGA
Statistics
Matches: 75, Mismatches: 25, Indels: 5
0.71 0.24 0.05
Matches are distributed among these distances:
36 1 0.01
37 6 0.08
38 68 0.91
ACGTcount: A:0.21, C:0.23, G:0.25, T:0.31
Consensus pattern (38 bp):
ATGCACTTCATGCGCCAGGATGCACTTCGTGTGCCAAG
Found at i:43199963 original size:30 final size:29
Alignment explanation
Indices: 43199905--43200090 Score: 150
Period size: 29 Copynumber: 6.4 Consensus size: 29
43199895 AAAAAGTGCA
* *
43199905 TTTGTGGCTATCTGTGTTAAAAGAAAGCC
1 TTTGTGGCTATCTCTGTTAAAAGGAAGCC
* *
43199934 TTTGGGGCTATCTCTATTAAAAAGGAAGCC
1 TTTGTGGCTATCTCTGTT-AAAAGGAAGCC
* * *
43199964 TTTGTGGCGATCTCTTTTAAAAGGAAACC
1 TTTGTGGCTATCTCTGTTAAAAGGAAGCC
*
43199993 TTTGTGGC-AGTCTTTGTTAAAAGGAAGCC
1 TTTGTGGCTA-TCTCTGTTAAAAGGAAGCC
* * * *
43200022 ATTGTGGCAATATCTG-TCAAAGGACA-CC
1 TTTGTGGCTATCTCTGTTAAAAGGA-AGCC
* *
43200050 TTTGTGGCGAGACTCTG---AAAGGAAAGCC
1 TTTGTGGCTA-TCTCTGTTAAAAGG-AAGCC
*
43200078 TTTGTAGCTATCT
1 TTTGTGGCTATCT
43200091 TTGAAAAGGA
Statistics
Matches: 128, Mismatches: 22, Indels: 16
0.77 0.13 0.10
Matches are distributed among these distances:
27 8 0.06
28 29 0.23
29 65 0.51
30 26 0.20
ACGTcount: A:0.27, C:0.17, G:0.24, T:0.32
Consensus pattern (29 bp):
TTTGTGGCTATCTCTGTTAAAAGGAAGCC
Found at i:43199970 original size:59 final size:58
Alignment explanation
Indices: 43199905--43200038 Score: 146
Period size: 59 Copynumber: 2.3 Consensus size: 58
43199895 AAAAAGTGCA
43199905 TTTGTGGCTATCTGTGTTAAAA-GAAAGCCTTTGGGGCTA-TCTCTATTAAAAAGGAAGCC
1 TTTGTGGCTATCTGTGTTAAAAGGAAA-CCTTTGGGGC-AGTCTCTATT-AAAAGGAAGCC
* * * * * *
43199964 TTTGTGGCGATCTCTTTTAAAAGGAAACCTTTGTGGCAGTCTTTGTTAAAAGGAAGCC
1 TTTGTGGCTATCTGTGTTAAAAGGAAACCTTTGGGGCAGTCTCTATTAAAAGGAAGCC
*
43200022 ATTGTGGCAATATCTGT
1 TTTGTGGC--TATCTGT
43200039 CAAAGGACAC
Statistics
Matches: 62, Mismatches: 9, Indels: 7
0.79 0.12 0.09
Matches are distributed among these distances:
58 19 0.31
59 34 0.55
60 9 0.15
ACGTcount: A:0.27, C:0.15, G:0.24, T:0.34
Consensus pattern (58 bp):
TTTGTGGCTATCTGTGTTAAAAGGAAACCTTTGGGGCAGTCTCTATTAAAAGGAAGCC
Found at i:43202510 original size:39 final size:39
Alignment explanation
Indices: 43202457--43202607 Score: 203
Period size: 39 Copynumber: 3.9 Consensus size: 39
43202447 TGCATGATAT
* *
43202457 TGGGAATATATCCGGACATGAGGTCCGCAGGCTATATGT
1 TGGGAATATATCCGGACATGAAGTCCGCAGGCTATATGC
*
43202496 TGGGAATATATCCGGACATGAGGTCCGCAGGCTATATGC
1 TGGGAATATATCCGGACATGAAGTCCGCAGGCTATATGC
* * * *
43202535 TGAGAATATATCCGAACTTGAAGTCCGCAGGCTATGTGC
1 TGGGAATATATCCGGACATGAAGTCCGCAGGCTATATGC
* * * *
43202574 TGGAAATATATTCGGACTTGAAGTCTGCAGGCTA
1 TGGGAATATATCCGGACATGAAGTCCGCAGGCTA
43202608 CGTGCTGGAA
Statistics
Matches: 101, Mismatches: 11, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
39 101 1.00
ACGTcount: A:0.27, C:0.19, G:0.28, T:0.26
Consensus pattern (39 bp):
TGGGAATATATCCGGACATGAAGTCCGCAGGCTATATGC
Found at i:43224939 original size:31 final size:31
Alignment explanation
Indices: 43224902--43224977 Score: 116
Period size: 31 Copynumber: 2.5 Consensus size: 31
43224892 GTATCCCAAG
*
43224902 CCACACGAGCGTGTATGACCACACGGCCTAC
1 CCACACGGGCGTGTATGACCACACGGCCTAC
* * *
43224933 CTACACGGGCTTGTGTGACCACACGGCCTAC
1 CCACACGGGCGTGTATGACCACACGGCCTAC
43224964 CCACACGGGCGTGT
1 CCACACGGGCGTGT
43224978 GACTCTCCAA
Statistics
Matches: 39, Mismatches: 6, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
31 39 1.00
ACGTcount: A:0.21, C:0.37, G:0.26, T:0.16
Consensus pattern (31 bp):
CCACACGGGCGTGTATGACCACACGGCCTAC
Found at i:43234310 original size:26 final size:26
Alignment explanation
Indices: 43234274--43234359 Score: 109
Period size: 26 Copynumber: 3.3 Consensus size: 26
43234264 CCACAGCTTA
43234274 TGTGAGCAGACCCATTTCATGGCTCG
1 TGTGAGCAGACCCATTTCATGGCTCG
* *
43234300 TGTGAGTAGACCCATTTCACGGCTCG
1 TGTGAGCAGACCCATTTCATGGCTCG
* * * *
43234326 AGTAAGCAGGCCCATTTCATAGCTCG
1 TGTGAGCAGACCCATTTCATGGCTCG
*
43234352 TTTGAGCA
1 TGTGAGCA
43234360 TTGATGTAAA
Statistics
Matches: 49, Mismatches: 11, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
26 49 1.00
ACGTcount: A:0.22, C:0.26, G:0.26, T:0.27
Consensus pattern (26 bp):
TGTGAGCAGACCCATTTCATGGCTCG
Found at i:43235619 original size:23 final size:21
Alignment explanation
Indices: 43235584--43235632 Score: 55
Period size: 23 Copynumber: 2.2 Consensus size: 21
43235574 GTTTGGCAAG
43235584 TTAAGATGTTTTGAATGGTATGT
1 TTAAGATGTTTTGAAT-G-ATGT
*
43235607 TTAA-ATGTATTTGGATGATGT
1 TTAAGATGT-TTTGAATGATGT
43235628 TTAAG
1 TTAAG
43235633 TCCCTTGAAA
Statistics
Matches: 23, Mismatches: 1, Indels: 5
0.79 0.03 0.17
Matches are distributed among these distances:
21 8 0.35
22 5 0.22
23 10 0.43
ACGTcount: A:0.29, C:0.00, G:0.24, T:0.47
Consensus pattern (21 bp):
TTAAGATGTTTTGAATGATGT
Found at i:43242548 original size:43 final size:42
Alignment explanation
Indices: 43242486--43242568 Score: 121
Period size: 43 Copynumber: 2.0 Consensus size: 42
43242476 TACCATACTA
* * *
43242486 ATGCCATATCCCAGATATGGTCTTACATGTAATCTCATATCG
1 ATGCCATAGCCCAGATATGGTCTTACATGAAACCTCATATCG
*
43242528 ATGCCAATAGCCCAGCTATGGTCTTACATGAAACCTCATAT
1 ATGCC-ATAGCCCAGATATGGTCTTACATGAAACCTCATAT
43242569 TGATTGGAAA
Statistics
Matches: 36, Mismatches: 4, Indels: 1
0.88 0.10 0.02
Matches are distributed among these distances:
42 5 0.14
43 31 0.86
ACGTcount: A:0.30, C:0.25, G:0.14, T:0.30
Consensus pattern (42 bp):
ATGCCATAGCCCAGATATGGTCTTACATGAAACCTCATATCG
Found at i:43243796 original size:22 final size:22
Alignment explanation
Indices: 43243771--43243822 Score: 61
Period size: 22 Copynumber: 2.4 Consensus size: 22
43243761 CACTAGGGAC
*
43243771 TATGTGATCTGAGCTCATGAGT-
1 TATGTGACCTGAGCTCATGA-TA
* *
43243793 TATGTGGCCTGGGCTCATGATA
1 TATGTGACCTGAGCTCATGATA
43243815 TATGTGAC
1 TATGTGAC
43243823 ACATGTTATG
Statistics
Matches: 25, Mismatches: 4, Indels: 2
0.81 0.13 0.06
Matches are distributed among these distances:
21 1 0.04
22 24 0.96
ACGTcount: A:0.21, C:0.15, G:0.29, T:0.35
Consensus pattern (22 bp):
TATGTGACCTGAGCTCATGATA
Found at i:43250609 original size:29 final size:29
Alignment explanation
Indices: 43250575--43250646 Score: 92
Period size: 29 Copynumber: 2.5 Consensus size: 29
43250565 ATCAACCACG
* *
43250575 CACACTTAGTGCCATGTACTTT-AAACTCA
1 CACACTTAGTGCCATGCA-TTTCAAACCCA
* *
43250604 CACACTTAGTGCCATGCATTTCAAGCCCG
1 CACACTTAGTGCCATGCATTTCAAACCCA
43250633 CACACTTAGTGCCA
1 CACACTTAGTGCCA
43250647 ATCTCACAAC
Statistics
Matches: 38, Mismatches: 4, Indels: 2
0.86 0.09 0.05
Matches are distributed among these distances:
28 3 0.08
29 35 0.92
ACGTcount: A:0.28, C:0.32, G:0.14, T:0.26
Consensus pattern (29 bp):
CACACTTAGTGCCATGCATTTCAAACCCA
Found at i:43273948 original size:40 final size:40
Alignment explanation
Indices: 43273864--43274088 Score: 287
Period size: 40 Copynumber: 5.7 Consensus size: 40
43273854 TTGAATGATG
* * * *
43273864 TCCGGGCTAAGTCCCGAAGGC-TTTGTGCTAAGTGACCATA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGC-GAGTTACTAAA
* * *
43273904 TCCGGACTAAGAT-CCGAAGGCATTTGTGCGAGATACTAAT
1 TCCGGGCTAAG-TCCCGAAGGCATTTGTGCGAGTTACTAAA
*
43273944 TCCGGGCTAAG-CCCGAAGGCATTGGTGCGAGTTACTAAA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAA
* *
43273983 TCCGGGTTAAGTCCCGATGGCATTTGTGCGAGTTACTAAA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAA
*
43274023 TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTA-AA
*
43274064 -CCGGGCTATGTCCCGAAGGCATTTG
1 TCCGGGCTAAGTCCCGAAGGCATTTG
43274089 AACGAGGAGC
Statistics
Matches: 163, Mismatches: 17, Indels: 10
0.86 0.09 0.05
Matches are distributed among these distances:
39 34 0.21
40 119 0.73
41 10 0.06
ACGTcount: A:0.24, C:0.22, G:0.28, T:0.26
Consensus pattern (40 bp):
TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAA
Found at i:43281860 original size:40 final size:40
Alignment explanation
Indices: 43281776--43282040 Score: 322
Period size: 40 Copynumber: 6.7 Consensus size: 40
43281766 TTGAATGATG
* * * * *
43281776 TCCGGGCTAAGTCCCGAAGGC-TTTGTGCTAAGTGACCATA
1 TCCGGGTTAAGTCCCGAAGGCATTTGTGC-GAGTTACTAAA
** * * *
43281816 TCCGGACTAAGAT-CCGAAGGCATTTGTGTGAGATACTAAT
1 TCCGGGTTAAG-TCCCGAAGGCATTTGTGCGAGTTACTAAA
* *
43281856 TCCGGGCTAAG-CCCGAAGGCATTGGTGCGAGTTACTAAA
1 TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAA
* *
43281895 TCTGGGTTAAGTCCCGATGGCATTTGTGCGAGTTACTAAA
1 TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAA
*
43281935 TCCGGGTTAAGTCCCGATGGCATTTGTGCGAGTTACTAAA
1 TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAA
43281975 TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAA
1 TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTACTA-AA
* *
43282016 -CCGGGCTATGTCCCGAAGGCATTTG
1 TCCGGGTTAAGTCCCGAAGGCATTTG
43282041 AACGAGGAGC
Statistics
Matches: 199, Mismatches: 21, Indels: 10
0.87 0.09 0.04
Matches are distributed among these distances:
39 32 0.16
40 158 0.79
41 9 0.05
ACGTcount: A:0.24, C:0.21, G:0.28, T:0.27
Consensus pattern (40 bp):
TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAA
Found at i:43282058 original size:120 final size:118
Alignment explanation
Indices: 43281776--43282073 Score: 307
Period size: 119 Copynumber: 2.5 Consensus size: 118
43281766 TTGAATGATG
** * * * *
43281776 TCCGGGCTAAGTCCCGAAGGC-TTTGTGCTAAGTGACCATATCCGGACTAAGAT-CCGAAGGCAT
1 TCCGGGCTAAGTCCCGAAGGCATTTGAAC-GAGTGACTAAATCCGG-TTAAG-TCCCGAAGGCAT
* *
43281839 TTGTGTGAGATACTAATTCCGGGCTAAGCCCGAAGGCATTGGTGCGAGTTACTAAA
63 TTGTGCGAGATACTAAATCCGGGCTAAGCCCGAAGGCATTGGTGCGAGTTACTAAA
* * * ** * *
43281895 TCTGGGTTAAGTCCCGATGGCATTTGTGCGAGTTACTAAATCCGGGTTAAGTCCCGATGGCATTT
1 TCCGGGCTAAGTCCCGAAGGCATTTGAACGAGTGACTAAATCC-GGTTAAGTCCCGAAGGCATTT
* * *
43281960 GTGCGAGTTACTAAATCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAA
65 GTGCGAGATACTAAATCCGGGCTAAG-CCCGAAGGCATTGGTGCGAGTTACTA-AA
* * * *
43282016 -CCGGGCTATGTCCCGAAGGCATTTGAACGAG-GAGCTATATCCGGTTAAATTCCGAAGG
1 TCCGGGCTAAGTCCCGAAGGCATTTGAACGAGTGA-CTAAATCCGGTTAAGTCCCGAAGG
43282074 TACGTGATTT
Statistics
Matches: 148, Mismatches: 25, Indels: 12
0.80 0.14 0.06
Matches are distributed among these distances:
118 1 0.01
119 79 0.53
120 66 0.45
121 2 0.01
ACGTcount: A:0.25, C:0.21, G:0.28, T:0.27
Consensus pattern (118 bp):
TCCGGGCTAAGTCCCGAAGGCATTTGAACGAGTGACTAAATCCGGTTAAGTCCCGAAGGCATTTG
TGCGAGATACTAAATCCGGGCTAAGCCCGAAGGCATTGGTGCGAGTTACTAAA
Found at i:43285349 original size:6 final size:6
Alignment explanation
Indices: 43285326--43285359 Score: 50
Period size: 6 Copynumber: 5.5 Consensus size: 6
43285316 TGCAAATGAA
*
43285326 TCATTT CTCATTT CCATTT TCATTT TCATTT TCA
1 TCATTT -TCATTT TCATTT TCATTT TCATTT TCA
43285360 AATTATTCCA
Statistics
Matches: 25, Mismatches: 2, Indels: 1
0.89 0.07 0.04
Matches are distributed among these distances:
6 19 0.76
7 6 0.24
ACGTcount: A:0.18, C:0.24, G:0.00, T:0.59
Consensus pattern (6 bp):
TCATTT
Found at i:43288822 original size:9 final size:9
Alignment explanation
Indices: 43288804--43288840 Score: 56
Period size: 9 Copynumber: 4.1 Consensus size: 9
43288794 TGTTCATTTG
*
43288804 ACCAAGTTA
1 ACCAAATTA
43288813 ACCAAATTA
1 ACCAAATTA
*
43288822 ACTAAATTA
1 ACCAAATTA
43288831 ACCAAATTA
1 ACCAAATTA
43288840 A
1 A
43288841 AACTACATAT
Statistics
Matches: 25, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
9 25 1.00
ACGTcount: A:0.54, C:0.19, G:0.03, T:0.24
Consensus pattern (9 bp):
ACCAAATTA
Found at i:43295581 original size:18 final size:17
Alignment explanation
Indices: 43295558--43295661 Score: 73
Period size: 18 Copynumber: 5.6 Consensus size: 17
43295548 CCAAACTCAC
43295558 TTTCTTTTTCAATTTTCT
1 TTTCTTTTTCAATTTT-T
* *
43295576 TTTCTTTCTCACATTCTT
1 TTTCTTTTTCA-ATTTTT
** *
43295594 TTTCGCTCTCAATCTCTTT
1 TTTCTTTTTCAAT-T-TTT
**
43295613 TTTCTTTCTTTCGTTCTTTT
1 TTTC-TT-TTTCAAT-TTTT
43295633 TTTCTTTTTCAATTTCTT
1 TTTCTTTTTCAATTT-TT
43295651 TTTCTTTTTCA
1 TTTCTTTTTCA
43295662 CATGCTTTTT
Statistics
Matches: 68, Mismatches: 12, Indels: 12
0.74 0.13 0.13
Matches are distributed among these distances:
17 4 0.06
18 39 0.57
19 12 0.18
20 7 0.10
21 6 0.09
ACGTcount: A:0.09, C:0.22, G:0.02, T:0.67
Consensus pattern (17 bp):
TTTCTTTTTCAATTTTT
Found at i:43295669 original size:18 final size:18
Alignment explanation
Indices: 43295631--43295671 Score: 57
Period size: 18 Copynumber: 2.3 Consensus size: 18
43295621 TTTCGTTCTT
*
43295631 TTTTTCTTTTTCAATTTC
1 TTTTTCTTTTTCAATTGC
43295649 TTTTTCTTTTTCACA-TGC
1 TTTTTCTTTTTCA-ATTGC
43295667 TTTTT
1 TTTTT
43295672 TGATTTCATT
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
18 20 0.95
19 1 0.05
ACGTcount: A:0.10, C:0.17, G:0.02, T:0.71
Consensus pattern (18 bp):
TTTTTCTTTTTCAATTGC
Found at i:43314885 original size:26 final size:26
Alignment explanation
Indices: 43314856--43314907 Score: 70
Period size: 26 Copynumber: 2.0 Consensus size: 26
43314846 TTTCTCATCC
43314856 CAATTTTAACCAAG-TAAAACTTTTGA
1 CAATTTTAACCAAGATAAAA-TTTTGA
* *
43314882 CAATTTTACCCACGATAAAATTTTGA
1 CAATTTTAACCAAGATAAAATTTTGA
43314908 GAAAATTCGT
Statistics
Matches: 23, Mismatches: 2, Indels: 2
0.85 0.07 0.07
Matches are distributed among these distances:
26 18 0.78
27 5 0.22
ACGTcount: A:0.40, C:0.17, G:0.08, T:0.35
Consensus pattern (26 bp):
CAATTTTAACCAAGATAAAATTTTGA
Found at i:43318215 original size:50 final size:50
Alignment explanation
Indices: 43318138--43318407 Score: 373
Period size: 50 Copynumber: 5.4 Consensus size: 50
43318128 TCCCAAATAC
** * * * *
43318138 GGTCTTACATGGGAGTTCTCATATCGGTGCCCATGCCATGTCCCTGACAT
1 GGTCTTACATGGGACCTCTTATCTCGGTGCCAATGCCATGTCCCAGACAT
* ** * *
43318188 GATCTTACGGGGGACCTCTCATCTCGGTGCCAATGCCATGCCCCAGACAT
1 GGTCTTACATGGGACCTCTTATCTCGGTGCCAATGCCATGTCCCAGACAT
* * *
43318238 GGTCTTACATGGGACCTCTTATCTCGATGCCAACGCCATGTCCCAGACAC
1 GGTCTTACATGGGACCTCTTATCTCGGTGCCAATGCCATGTCCCAGACAT
*
43318288 GGTCTTACATGGGACCTCTTATCTCGGTGCCAATGCCATATCCCAGACAT
1 GGTCTTACATGGGACCTCTTATCTCGGTGCCAATGCCATGTCCCAGACAT
43318338 GGTCTTACATGGGACCTCTTATCTCGGTGCCAACATG--ATGTCCCAGACAT
1 GGTCTTACATGGGACCTCTTATCTCGGTGCC-A-ATGCCATGTCCCAGACAT
43318388 GGTCTTACATGGGACCTCTT
1 GGTCTTACATGGGACCTCTT
43318408 TACCCAAATG
Statistics
Matches: 196, Mismatches: 22, Indels: 4
0.88 0.10 0.02
Matches are distributed among these distances:
50 192 0.98
51 1 0.01
52 3 0.02
ACGTcount: A:0.20, C:0.30, G:0.22, T:0.27
Consensus pattern (50 bp):
GGTCTTACATGGGACCTCTTATCTCGGTGCCAATGCCATGTCCCAGACAT
Found at i:43318778 original size:30 final size:30
Alignment explanation
Indices: 43318744--43318800 Score: 78
Period size: 30 Copynumber: 1.9 Consensus size: 30
43318734 CCTCGACTCT
*
43318744 AACTTTGACAAAATTACAATTTTTCCCTTA
1 AACTTTGACAAAATTACAACTTTTCCCTTA
* * *
43318774 AACTTTTACATAATTACACCTTTTCCC
1 AACTTTGACAAAATTACAACTTTTCCC
43318801 CAAAGCTCGA
Statistics
Matches: 23, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
30 23 1.00
ACGTcount: A:0.33, C:0.25, G:0.02, T:0.40
Consensus pattern (30 bp):
AACTTTGACAAAATTACAACTTTTCCCTTA
Found at i:43318863 original size:19 final size:19
Alignment explanation
Indices: 43318839--43318880 Score: 84
Period size: 19 Copynumber: 2.2 Consensus size: 19
43318829 TATTCTTATG
43318839 TTTTATGACATGCTGAACA
1 TTTTATGACATGCTGAACA
43318858 TTTTATGACATGCTGAACA
1 TTTTATGACATGCTGAACA
43318877 TTTT
1 TTTT
43318881 TCCCTTCTAT
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
19 23 1.00
ACGTcount: A:0.29, C:0.14, G:0.14, T:0.43
Consensus pattern (19 bp):
TTTTATGACATGCTGAACA
Found at i:43333734 original size:64 final size:64
Alignment explanation
Indices: 43333633--43333761 Score: 249
Period size: 64 Copynumber: 2.0 Consensus size: 64
43333623 TCACAATATG
*
43333633 ATTGAAATAGCTCAATATGTAACTTGAACATTTAAATAGATATTAAAGAAATTATAGTTATCTT
1 ATTGAAATAGCTCAATATGTAACTTGAACATTTAAATAGATATTAAAGAAATTACAGTTATCTT
43333697 ATTGAAATAGCTCAATATGTAACTTGAACATTTAAATAGATATTAAAGAAATTACAGTTATCTT
1 ATTGAAATAGCTCAATATGTAACTTGAACATTTAAATAGATATTAAAGAAATTACAGTTATCTT
43333761 A
1 A
43333762 AAATGTAAAA
Statistics
Matches: 64, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
64 64 1.00
ACGTcount: A:0.44, C:0.09, G:0.11, T:0.36
Consensus pattern (64 bp):
ATTGAAATAGCTCAATATGTAACTTGAACATTTAAATAGATATTAAAGAAATTACAGTTATCTT
Found at i:43336100 original size:19 final size:18
Alignment explanation
Indices: 43336078--43336136 Score: 64
Period size: 19 Copynumber: 3.2 Consensus size: 18
43336068 AATATAAAAA
43336078 AAATTTTAGAAAAAATATT
1 AAATTTTA-AAAAAATATT
*
43336097 AAATTTTAATAAAAATATA
1 AAATTTTAA-AAAAATATT
** *
43336116 AAAAATTAAAAAATTATT
1 AAATTTTAAAAAAATATT
43336134 AAA
1 AAA
43336137 ATTAAATTTT
Statistics
Matches: 34, Mismatches: 5, Indels: 3
0.81 0.12 0.07
Matches are distributed among these distances:
18 11 0.32
19 23 0.68
ACGTcount: A:0.64, C:0.00, G:0.02, T:0.34
Consensus pattern (18 bp):
AAATTTTAAAAAAATATT
Found at i:43336136 original size:37 final size:36
Alignment explanation
Indices: 43336087--43336205 Score: 107
Period size: 36 Copynumber: 3.1 Consensus size: 36
43336077 AAAATTTTAG
43336087 AAAAAATATTAAATTTTAATAAAAAT-ATAAAAAATT
1 AAAAAATATTAAATTTT-ATAAAAATCATAAAAAATT
*
43336123 AAAAAATTATTAAAATTAAATTTTTTATAAAAATCGTAAAAAA-T
1 -AAAAA--A-T---ATTAAA--TTTTATAAAAATCATAAAAAATT
*
43336167 AAAAAATAGTAAAATTTTATAAAAATCATAAAAAATT
1 AAAAAATA-TTAAATTTTATAAAAATCATAAAAAATT
43336204 AA
1 AA
43336206 TGACCCCTAG
Statistics
Matches: 68, Mismatches: 3, Indels: 22
0.73 0.03 0.24
Matches are distributed among these distances:
36 20 0.29
37 9 0.13
38 4 0.06
39 1 0.01
40 2 0.03
41 1 0.01
43 11 0.16
44 9 0.13
45 11 0.16
ACGTcount: A:0.64, C:0.02, G:0.02, T:0.33
Consensus pattern (36 bp):
AAAAAATATTAAATTTTATAAAAATCATAAAAAATT
Found at i:43336142 original size:43 final size:43
Alignment explanation
Indices: 43336094--43336182 Score: 119
Period size: 44 Copynumber: 2.1 Consensus size: 43
43336084 TAGAAAAAAT
*
43336094 ATTAAA-TTTTAATAAAAAT-ATAAAAAATTAAAAAATTATTAAA
1 ATTAAATTTTTAATAAAAATCATAAAAAA-TAAAAAA-TAGTAAA
* *
43336137 ATTAAATTTTTTATAAAAATCGTAAAAAATAAAAAATAGTAAA
1 ATTAAATTTTTAATAAAAATCATAAAAAATAAAAAATAGTAAA
43336180 ATT
1 ATT
43336183 TTATAAAAAT
Statistics
Matches: 41, Mismatches: 3, Indels: 4
0.85 0.06 0.08
Matches are distributed among these distances:
43 15 0.37
44 19 0.46
45 7 0.17
ACGTcount: A:0.62, C:0.01, G:0.02, T:0.35
Consensus pattern (43 bp):
ATTAAATTTTTAATAAAAATCATAAAAAATAAAAAATAGTAAA
Found at i:43336497 original size:9 final size:9
Alignment explanation
Indices: 43336407--43336507 Score: 57
Period size: 9 Copynumber: 10.8 Consensus size: 9
43336397 ACTTTATAAA
43336407 ATTTTATAAT
1 ATTTT-TAAT
*
43336417 -TTTTTTAT
1 ATTTTTAAT
*
43336425 ATTTCTATAT
1 ATTTTTA-AT
43336435 ATTTTATAA-
1 ATTTT-TAAT
*
43336444 ATTTTACAAT
1 ATTTT-TAAT
*
43336454 TTTTTATATAT
1 ATTTT-TA-AT
*
43336465 ATTTTTACT
1 ATTTTTAAT
43336474 ATTTTTAAT
1 ATTTTTAAT
43336483 AAATTTTTAAT
1 --ATTTTTAAT
43336494 A-TTTTAAT
1 ATTTTTAAT
43336502 -TTTTTA
1 ATTTTTA
43336508 TTAAAATTTA
Statistics
Matches: 73, Mismatches: 10, Indels: 18
0.72 0.10 0.18
Matches are distributed among these distances:
8 15 0.21
9 26 0.36
10 15 0.21
11 17 0.23
ACGTcount: A:0.33, C:0.03, G:0.00, T:0.64
Consensus pattern (9 bp):
ATTTTTAAT
Found at i:43336498 original size:19 final size:19
Alignment explanation
Indices: 43336433--43336501 Score: 68
Period size: 20 Copynumber: 3.5 Consensus size: 19
43336423 ATATTTCTAT
*
43336433 ATATTTT-ATAAATTTTACA
1 ATATTTTAATAAATTTT-TA
* *
43336452 ATTTTTTATATATATTTTTA
1 ATATTTTA-ATAAATTTTTA
*
43336472 CTATTTTTAATAAATTTTTA
1 ATA-TTTTAATAAATTTTTA
43336492 ATATTTTAAT
1 ATATTTTAAT
43336502 TTTTTATTAA
Statistics
Matches: 40, Mismatches: 7, Indels: 6
0.75 0.13 0.11
Matches are distributed among these distances:
19 13 0.32
20 14 0.35
21 13 0.32
ACGTcount: A:0.36, C:0.03, G:0.00, T:0.61
Consensus pattern (19 bp):
ATATTTTAATAAATTTTTA
Found at i:43336774 original size:86 final size:84
Alignment explanation
Indices: 43336600--43336794 Score: 221
Period size: 86 Copynumber: 2.3 Consensus size: 84
43336590 AATTGCTCTC
* * * * *
43336600 TTTTTTTAAGTTTGAAGGTCTTTTTGATGCATTTTGAAAGTTCAAGTACCCAATTGAGTATAAAA
1 TTTTTTTAAGTTTGAGGGT-TTTTTGATACATTTTGAAAGCTCAAGTACCCAAATGAGTACAAAA
* * **
43336665 AAAAGTAGGTGCTTAATTGT
65 AAAAGAACGTAATTAATTGT
*
43336685 TTTTTTTAAGGTTTGAGGGCTTTTTTGATACATTTTGAAAGCTCAAGTACCCAAATGAGTGCAAA
1 TTTTTTTAA-GTTTGAGGG-TTTTTTGATACATTTTGAAAGCTCAAGTACCCAAATGAGTACAAA
* * *
43336750 AAAAA-AACTTAATTAGTGTTT
64 AAAAAGAACGTAATTAAT-TGT
*
43336771 TTTTTTTAAGTTTAAGGGTTTTTT
1 TTTTTTTAAGTTTGAGGGTTTTTT
43336795 ACACCCTTAA
Statistics
Matches: 93, Mismatches: 14, Indels: 7
0.82 0.12 0.06
Matches are distributed among these distances:
84 6 0.06
85 23 0.25
86 63 0.68
87 1 0.01
ACGTcount: A:0.31, C:0.08, G:0.18, T:0.43
Consensus pattern (84 bp):
TTTTTTTAAGTTTGAGGGTTTTTTGATACATTTTGAAAGCTCAAGTACCCAAATGAGTACAAAAA
AAAGAACGTAATTAATTGT
Found at i:43337369 original size:12 final size:12
Alignment explanation
Indices: 43337352--43337376 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
43337342 AACATTTAAT
43337352 ACACATATCAAA
1 ACACATATCAAA
43337364 ACACATATCAAA
1 ACACATATCAAA
43337376 A
1 A
43337377 ATCAATCATA
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 13 1.00
ACGTcount: A:0.60, C:0.24, G:0.00, T:0.16
Consensus pattern (12 bp):
ACACATATCAAA
Found at i:43346798 original size:50 final size:49
Alignment explanation
Indices: 43346739--43347366 Score: 731
Period size: 50 Copynumber: 12.8 Consensus size: 49
43346729 GGCAATGAGT
* * *
43346739 GTGCCAGTGTAAGATCATGTCTGGGACATGGCATCGGCACAGACTGATGA
1 GTGCTAGTGTAAGACCATGTCTGGGACATGGCATCGGCACAGAC-GAGGA
* *
43346789 GTGCTAGTGTAAGACCATGTTTGGGACATGGCATCGGCACGGACAGAGGGGA
1 GTGCTAGTGTAAGACCATGTCTGGGACATGGCATCGGCACAGAC-GA--GGA
* * *
43346841 GT-C-AGTGTAAGACCATGTTTGGGACATGGCATCGGCTC-GA-GATGA
1 GTGCTAGTGTAAGACCATGTCTGGGACATGGCATCGGCACAGACGAGGA
*
43346886 GTGCCAGTGTAAGACCATGTCTGGGACATGGCATCGGCACAGACCGAGGA
1 GTGCTAGTGTAAGACCATGTCTGGGACATGGCATCGGCACAGA-CGAGGA
* **
43346936 GTGCTAGTGTAAGACCATGTCTGGGACATGGCCTCGGCATGGACAGAGGA
1 GTGCTAGTGTAAGACCATGTCTGGGACATGGCATCGGCACAGAC-GAGGA
* * *** *
43346986 GAG-TCAGTGTAAGACCATGTTTGGGACATGGCATCGG-TTTGA-GATGA
1 GTGCT-AGTGTAAGACCATGTCTGGGACATGGCATCGGCACAGACGAGGA
* * *
43347033 GTGCCATTGTAAGACCATGTCTGGGACATGGCATCGACACAGACGGAGGA
1 GTGCTAGTGTAAGACCATGTCTGGGACATGGCATCGGCACAGAC-GAGGA
*
43347083 GTGCTAGTGTAAGACCATGTCTGGGACATGGCATCGGCACAGACAGAGGG
1 GTGCTAGTGTAAGACCATGTCTGGGACATGGCATCGGCACAGAC-GAGGA
* * * * * **
43347133 GAGTTAGTGTAAAACCATGTCTGGGACATGGCATCAGCTC-GA-GATAA
1 GTGCTAGTGTAAGACCATGTCTGGGACATGGCATCGGCACAGACGAGGA
* * *
43347180 GTGCTAGTGTAAGACCATGTCTGGGACATGGCATCAGCTC-GA-GATGA
1 GTGCTAGTGTAAGACCATGTCTGGGACATGGCATCGGCACAGACGAGGA
*
43347227 GTGCTAGTGTAAGACCATGTCTGGGACATGGCATCGACACAGACCGAGGA
1 GTGCTAGTGTAAGACCATGTCTGGGACATGGCATCGGCACAGA-CGAGGA
* * *
43347277 GTGCTAGTGTAAGACCATGTCTAGGACATGGCATCTGCACGGACAGAGGA
1 GTGCTAGTGTAAGACCATGTCTGGGACATGGCATCGGCACAGAC-GAGGA
*
43347327 GAG-TCAGTGTAAGACCATGTCTGGGACATGGCATCGGCAC
1 GTGCT-AGTGTAAGACCATGTCTGGGACATGGCATCGGCAC
43347367 CTATATGCGA
Statistics
Matches: 502, Mismatches: 58, Indels: 36
0.84 0.10 0.06
Matches are distributed among these distances:
45 4 0.01
46 1 0.00
47 152 0.30
48 6 0.01
49 11 0.02
50 323 0.64
51 1 0.00
52 4 0.01
ACGTcount: A:0.26, C:0.20, G:0.33, T:0.21
Consensus pattern (49 bp):
GTGCTAGTGTAAGACCATGTCTGGGACATGGCATCGGCACAGACGAGGA
Found at i:43346919 original size:97 final size:99
Alignment explanation
Indices: 43346743--43347366 Score: 729
Period size: 97 Copynumber: 6.4 Consensus size: 99
43346733 ATGAGTGTGC
* *
43346743 CAGTGTAAGATCATGTCTGGGACATGGCATCGGCACAGACTGATGAGTGCTAGTGTAAGACCATG
1 CAGTGTAAGACCATGTCTGGGACATGGCATCGGCACAGAC-GAGGAGTGCTAGTGTAAGACCATG
* *
43346808 TTTGGGACATGGCATCGGCACGGACAGAGGGGAGT
65 TCTGGGACATGGCATCGGCACAGACAGAGGGGAGT
* * * *
43346843 CAGTGTAAGACCATGTTTGGGACATGGCATCGGCTC-GA-GATGAGTGCCAGTGTAAGACCATGT
1 CAGTGTAAGACCATGTCTGGGACATGGCATCGGCACAGACGAGGAGTGCTAGTGTAAGACCATGT
*
43346906 CTGGGACATGGCATCGGCACAGACCGA--GGAGT
66 CTGGGACATGGCATCGGCACAGACAGAGGGGAGT
* ** *
43346938 GCTAGTGTAAGACCATGTCTGGGACATGGCCTCGGCATGGACAGAGGAGAG-TCAGTGTAAGACC
1 -C-AGTGTAAGACCATGTCTGGGACATGGCATCGGCACAGAC-GAGGAGTGCT-AGTGTAAGACC
* *** * * * *
43347002 ATGTTTGGGACATGGCATCGG-TTTG--AGATGAGTGC
62 ATGTCTGGGACATGGCATCGGCACAGACAGAGGGGAGT
* *
43347037 CATTGTAAGACCATGTCTGGGACATGGCATCGACACAGACGGAGGAGTGCTAGTGTAAGACCATG
1 CAGTGTAAGACCATGTCTGGGACATGGCATCGGCACAGAC-GAGGAGTGCTAGTGTAAGACCATG
43347102 TCTGGGACATGGCATCGGCACAGACAGAGGGGAGT
65 TCTGGGACATGGCATCGGCACAGACAGAGGGGAGT
* * * * **
43347137 TAGTGTAAAACCATGTCTGGGACATGGCATCAGCTC-GA-GATAAGTGCTAGTGTAAGACCATGT
1 CAGTGTAAGACCATGTCTGGGACATGGCATCGGCACAGACGAGGAGTGCTAGTGTAAGACCATGT
* * *
43347200 CTGGGACATGGCATCAGCTC-G--AGA--TGAGT
66 CTGGGACATGGCATCGGCACAGACAGAGGGGAGT
*
43347229 GCTAGTGTAAGACCATGTCTGGGACATGGCATCGACACAGACCGAGGAGTGCTAGTGTAAGACCA
1 -C-AGTGTAAGACCATGTCTGGGACATGGCATCGGCACAGA-CGAGGAGTGCTAGTGTAAGACCA
* * * *
43347294 TGTCTAGGACATGGCATCTGCACGGACAGAGGAGAGT
63 TGTCTGGGACATGGCATCGGCACAGACAGAGGGGAGT
43347331 CAGTGTAAGACCATGTCTGGGACATGGCATCGGCAC
1 CAGTGTAAGACCATGTCTGGGACATGGCATCGGCAC
43347367 CTATATGCGA
Statistics
Matches: 442, Mismatches: 60, Indels: 44
0.81 0.11 0.08
Matches are distributed among these distances:
92 4 0.01
94 34 0.08
95 7 0.02
96 2 0.00
97 234 0.53
98 6 0.01
99 7 0.02
100 143 0.32
101 1 0.00
102 4 0.01
ACGTcount: A:0.27, C:0.20, G:0.33, T:0.21
Consensus pattern (99 bp):
CAGTGTAAGACCATGTCTGGGACATGGCATCGGCACAGACGAGGAGTGCTAGTGTAAGACCATGT
CTGGGACATGGCATCGGCACAGACAGAGGGGAGT
Found at i:43347006 original size:147 final size:146
Alignment explanation
Indices: 43346739--43347366 Score: 884
Period size: 147 Copynumber: 4.3 Consensus size: 146
43346729 GGCAATGAGT
* *
43346739 GTGCCAGTGTAAGATCATGTCTGGGACATGGCATCGGCACAGACTGATGAGTGCTAGTGTAAGAC
1 GTGCCAGTGTAAGACCATGTCTGGGACATGGCATCGGCACAGAC-GAGGAGTGCTAGTGTAAGAC
* * * *
43346804 CATGTTTGGGACATGGCATCGGCACGGACAGAGGGGAGTCAGTGTAAGACCATGTTTGGGACATG
65 CATGTCTGGGACATGGCATCGGCACAGACAGAGGAGAGTCAGTGTAAGACCATGTCTGGGACATG
43346869 GCATCGGCTCGAGATGA
130 GCATCGGCTCGAGATGA
43346886 GTGCCAGTGTAAGACCATGTCTGGGACATGGCATCGGCACAGACCGAGGAGTGCTAGTGTAAGAC
1 GTGCCAGTGTAAGACCATGTCTGGGACATGGCATCGGCACAGA-CGAGGAGTGCTAGTGTAAGAC
* ** *
43346951 CATGTCTGGGACATGGCCTCGGCATGGACAGAGGAGAGTCAGTGTAAGACCATGTTTGGGACATG
65 CATGTCTGGGACATGGCATCGGCACAGACAGAGGAGAGTCAGTGTAAGACCATGTCTGGGACATG
* *
43347016 GCATCGGTTTGAGATGA
130 GCATCGGCTCGAGATGA
* *
43347033 GTGCCATTGTAAGACCATGTCTGGGACATGGCATCGACACAGACGGAGGAGTGCTAGTGTAAGAC
1 GTGCCAGTGTAAGACCATGTCTGGGACATGGCATCGGCACAGAC-GAGGAGTGCTAGTGTAAGAC
* * *
43347098 CATGTCTGGGACATGGCATCGGCACAGACAGAGGGGAGTTAGTGTAAAACCATGTCTGGGACATG
65 CATGTCTGGGACATGGCATCGGCACAGACAGAGGAGAGTCAGTGTAAGACCATGTCTGGGACATG
* *
43347163 GCATCAGCTCGAGATAA
130 GCATCGGCTCGAGATGA
* * * *
43347180 GTGCTAGTGTAAGACCATGTCTGGGACATGGCATCAGCTC-GA-GATGAGTGCTAGTGTAAGACC
1 GTGCCAGTGTAAGACCATGTCTGGGACATGGCATCGGCACAGACGAGGAGTGCTAGTGTAAGACC
* * * *
43347243 ATGTCTGGGACATGGCATCGACACAGACCGAGGAGTG-CTAGTGTAAGACCATGTCTAGGACATG
66 ATGTCTGGGACATGGCATCGGCACAGACAGAGGAGAGTC-AGTGTAAGACCATGTCTGGGACATG
* * *
43347307 GCATCTGCACGGACAGAGGA
130 GCATCGGCTC-G--AGATGA
* *
43347327 GAGTCAGTGTAAGACCATGTCTGGGACATGGCATCGGCAC
1 GTGCCAGTGTAAGACCATGTCTGGGACATGGCATCGGCAC
43347367 CTATATGCGA
Statistics
Matches: 432, Mismatches: 43, Indels: 12
0.89 0.09 0.02
Matches are distributed among these distances:
144 84 0.19
145 1 0.00
146 3 0.01
147 343 0.79
148 1 0.00
ACGTcount: A:0.26, C:0.20, G:0.33, T:0.21
Consensus pattern (146 bp):
GTGCCAGTGTAAGACCATGTCTGGGACATGGCATCGGCACAGACGAGGAGTGCTAGTGTAAGACC
ATGTCTGGGACATGGCATCGGCACAGACAGAGGAGAGTCAGTGTAAGACCATGTCTGGGACATGG
CATCGGCTCGAGATGA
Found at i:43352596 original size:36 final size:36
Alignment explanation
Indices: 43352510--43352673 Score: 179
Period size: 35 Copynumber: 4.6 Consensus size: 36
43352500 GCACATCGTC
* * *
43352510 AGTCCAACCATAACACGCCAAATGCTCATACGAGCC
1 AGTCCAACCAAAACACGCCAAATGCTCATAAGAGCT
* ** * *
43352546 AATCCCTCCAAAACACACCAAATGCTCACAAGAGCT
1 AGTCCAACCAAAACACGCCAAATGCTCATAAGAGCT
* *
43352582 AGTCCAACCGAAACACGCC-AATACTCATAAGAGCT
1 AGTCCAACCAAAACACGCCAAATGCTCATAAGAGCT
* ** * *
43352617 AGTACAACTGAAACACGCC-AGTGCTTATAAGAGCT
1 AGTCCAACCAAAACACGCCAAATGCTCATAAGAGCT
43352652 AGTCCAACCAAAACACGCCAAA
1 AGTCCAACCAAAACACGCCAAA
43352674 CAGAGAGTAT
Statistics
Matches: 103, Mismatches: 24, Indels: 2
0.80 0.19 0.02
Matches are distributed among these distances:
35 60 0.58
36 43 0.42
ACGTcount: A:0.40, C:0.32, G:0.13, T:0.14
Consensus pattern (36 bp):
AGTCCAACCAAAACACGCCAAATGCTCATAAGAGCT
Found at i:43355643 original size:22 final size:24
Alignment explanation
Indices: 43355601--43355644 Score: 74
Period size: 22 Copynumber: 1.9 Consensus size: 24
43355591 TAACTAAGCT
43355601 TACTTACTTTTCTAACTTAATTCA
1 TACTTACTTTTCTAACTTAATTCA
43355625 TACTT-CTTTTCT-ACTTAATT
1 TACTTACTTTTCTAACTTAATT
43355645 TCTTGCCATA
Statistics
Matches: 20, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
22 8 0.40
23 7 0.35
24 5 0.25
ACGTcount: A:0.25, C:0.20, G:0.00, T:0.55
Consensus pattern (24 bp):
TACTTACTTTTCTAACTTAATTCA
Found at i:43356242 original size:5 final size:5
Alignment explanation
Indices: 43356232--43356385 Score: 190
Period size: 5 Copynumber: 31.2 Consensus size: 5
43356222 CTATTTAGTT
*
43356232 ATATA ATATA ACATA ATATA ATATA ATATA ATATA ATATA ATATA ATATA
1 ATATA ATATA ATATA ATATA ATATA ATATA ATATA ATATA ATATA ATATA
*
43356282 ATATA ATATA ATATA ATATA ATATA ATATA ATATA AT-TA ATATA TTATATT
1 ATATA ATATA ATATA ATATA ATATA ATATA ATATA ATATA ATATA --ATATA
* * * * * *
43356333 ATATT ATATT ATATT ATATT ATATT ATATT ATATA ATA-A A-ATA ATAT-
1 ATATA ATATA ATATA ATATA ATATA ATATA ATATA ATATA ATATA ATATA
43356380 ATATA A
1 ATATA A
43356386 AACATAAAAA
Statistics
Matches: 139, Mismatches: 4, Indels: 12
0.90 0.03 0.08
Matches are distributed among these distances:
3 1 0.01
4 12 0.09
5 122 0.88
7 4 0.03
ACGTcount: A:0.55, C:0.01, G:0.00, T:0.44
Consensus pattern (5 bp):
ATATA
Found at i:43362350 original size:27 final size:28
Alignment explanation
Indices: 43362320--43362378 Score: 70
Period size: 27 Copynumber: 2.2 Consensus size: 28
43362310 TCACACCTGG
43362320 AATAATAT-AAATCCT-CCATAACACACA
1 AATAATATCAAATCCTCCCA-AACACACA
* *
43362347 AAT-ATATCATATCCTCCCAAACACACC
1 AATAATATCAAATCCTCCCAAACACACA
43362374 AATAA
1 AATAA
43362379 GGCATTAGAT
Statistics
Matches: 27, Mismatches: 2, Indels: 5
0.79 0.06 0.15
Matches are distributed among these distances:
26 4 0.15
27 19 0.70
28 4 0.15
ACGTcount: A:0.49, C:0.29, G:0.00, T:0.22
Consensus pattern (28 bp):
AATAATATCAAATCCTCCCAAACACACA
Found at i:43363340 original size:22 final size:22
Alignment explanation
Indices: 43363307--43363353 Score: 53
Period size: 22 Copynumber: 2.1 Consensus size: 22
43363297 TCTTCCCCTG
43363307 TTTTCGTCTCTT-TCTCTGTTTC
1 TTTTCGTCTCTTCT-TCTGTTTC
*
43363329 TTTTCTGT-TCTTCTTTTGTTTC
1 TTTTC-GTCTCTTCTTCTGTTTC
43363351 TTT
1 TTT
43363354 ATCTTTTTAT
Statistics
Matches: 22, Mismatches: 1, Indels: 4
0.81 0.04 0.15
Matches are distributed among these distances:
22 19 0.86
23 3 0.14
ACGTcount: A:0.00, C:0.21, G:0.09, T:0.70
Consensus pattern (22 bp):
TTTTCGTCTCTTCTTCTGTTTC
Found at i:43363562 original size:5 final size:5
Alignment explanation
Indices: 43363546--43363620 Score: 95
Period size: 5 Copynumber: 15.4 Consensus size: 5
43363536 TTTACTTATT
43363546 TAATA T-ATA TAATA TAATA TAATA TAATA TAATA TAAT- TAATA TAATA
1 TAATA TAATA TAATA TAATA TAATA TAATA TAATA TAATA TAATA TAATA
*
43363594 TATTATA TTATA TAATA -AA-A TAATA TA
1 TA--ATA TAATA TAATA TAATA TAATA TA
43363621 TGTAAAACAT
Statistics
Matches: 62, Mismatches: 2, Indels: 12
0.82 0.03 0.16
Matches are distributed among these distances:
3 1 0.02
4 12 0.19
5 45 0.73
7 4 0.06
ACGTcount: A:0.57, C:0.00, G:0.00, T:0.43
Consensus pattern (5 bp):
TAATA
Found at i:43363593 original size:34 final size:30
Alignment explanation
Indices: 43363554--43363620 Score: 93
Period size: 29 Copynumber: 2.3 Consensus size: 30
43363544 TTTAATATAT
43363554 ATAATATAATATA--ATATAATATAATATAA
1 ATAATATAATATATTATATAATATAATA-AA
* *
43363583 TTAATATAATATATTATATTATATAATAAA
1 ATAATATAATATATTATATAATATAATAAA
43363613 ATAATATA
1 ATAATATA
43363621 TGTAAAACAT
Statistics
Matches: 33, Mismatches: 3, Indels: 3
0.85 0.08 0.08
Matches are distributed among these distances:
29 12 0.36
30 9 0.27
31 12 0.36
ACGTcount: A:0.58, C:0.00, G:0.00, T:0.42
Consensus pattern (30 bp):
ATAATATAATATATTATATAATATAATAAA
Found at i:43365915 original size:13 final size:14
Alignment explanation
Indices: 43365892--43365923 Score: 57
Period size: 13 Copynumber: 2.4 Consensus size: 14
43365882 TTTAGGTTTT
43365892 AGGTTTAGGGTTCA
1 AGGTTTAGGGTTCA
43365906 AGGTTT-GGGTTCA
1 AGGTTTAGGGTTCA
43365919 AGGTT
1 AGGTT
43365924 AAAGGGTTTG
Statistics
Matches: 18, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
13 12 0.67
14 6 0.33
ACGTcount: A:0.19, C:0.06, G:0.38, T:0.38
Consensus pattern (14 bp):
AGGTTTAGGGTTCA
Found at i:43365931 original size:21 final size:20
Alignment explanation
Indices: 43365907--43365956 Score: 55
Period size: 21 Copynumber: 2.4 Consensus size: 20
43365897 TAGGGTTCAA
43365907 GGTTTGGGTTCAAGGTTAAAG
1 GGTTTGGG-TCAAGGTTAAAG
* *
43365928 GGTTTGGAGTCATGGTTAATG
1 GGTTTGG-GTCAAGGTTAAAG
*
43365949 AGTTTGGG
1 GGTTTGGG
43365957 GCTTGGGGTT
Statistics
Matches: 25, Mismatches: 3, Indels: 3
0.81 0.10 0.10
Matches are distributed among these distances:
20 1 0.04
21 23 0.92
22 1 0.04
ACGTcount: A:0.20, C:0.04, G:0.40, T:0.36
Consensus pattern (20 bp):
GGTTTGGGTCAAGGTTAAAG
Found at i:43376694 original size:18 final size:18
Alignment explanation
Indices: 43376671--43376707 Score: 65
Period size: 18 Copynumber: 2.1 Consensus size: 18
43376661 TGTACATCTT
43376671 TCTGAATTCTCCACCGAA
1 TCTGAATTCTCCACCGAA
*
43376689 TCTGAATTCTCCCCCGAA
1 TCTGAATTCTCCACCGAA
43376707 T
1 T
43376708 TTTACTCACC
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
18 18 1.00
ACGTcount: A:0.24, C:0.35, G:0.11, T:0.30
Consensus pattern (18 bp):
TCTGAATTCTCCACCGAA
Found at i:43377945 original size:30 final size:30
Alignment explanation
Indices: 43377909--43377966 Score: 80
Period size: 30 Copynumber: 1.9 Consensus size: 30
43377899 CTGGGCATTT
* *
43377909 CCACACGGGCTGGCCACAAGCCCGTGTGAG
1 CCACACGAGCTGGCCACAAGCCCATGTGAG
* *
43377939 CCACACGAGTTGGCCACATGCCCATGTG
1 CCACACGAGCTGGCCACAAGCCCATGTG
43377967 CCAACCCGTG
Statistics
Matches: 24, Mismatches: 4, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
30 24 1.00
ACGTcount: A:0.21, C:0.36, G:0.29, T:0.14
Consensus pattern (30 bp):
CCACACGAGCTGGCCACAAGCCCATGTGAG
Found at i:43382838 original size:10 final size:10
Alignment explanation
Indices: 43382800--43382846 Score: 53
Period size: 10 Copynumber: 4.8 Consensus size: 10
43382790 TTCCTGTCTA
*
43382800 TTATTATTAG
1 TTATTATTAT
43382810 TTA-TATTAT
1 TTATTATTAT
*
43382819 TT-TTCTTTAT
1 TTATT-ATTAT
43382829 TTATTATTAT
1 TTATTATTAT
43382839 TTATTATT
1 TTATTATT
43382847 GTTATTAGTC
Statistics
Matches: 31, Mismatches: 3, Indels: 6
0.77 0.08 0.15
Matches are distributed among these distances:
9 8 0.26
10 21 0.68
11 2 0.06
ACGTcount: A:0.26, C:0.02, G:0.02, T:0.70
Consensus pattern (10 bp):
TTATTATTAT
Found at i:43384605 original size:5 final size:5
Alignment explanation
Indices: 43384595--43384642 Score: 60
Period size: 6 Copynumber: 8.8 Consensus size: 5
43384585 AGTCTATTTG
43384595 TTTTA TTTTA TTTTA TTTTA TTTTTA TTTTTA TGTTTA TTGTTA TTTT
1 TTTTA TTTTA TTTTA TTTTA -TTTTA -TTTTA T-TTTA TT-TTA TTTT
43384643 CTTAGACTTA
Statistics
Matches: 40, Mismatches: 0, Indels: 6
0.87 0.00 0.13
Matches are distributed among these distances:
5 19 0.47
6 21 0.52
ACGTcount: A:0.17, C:0.00, G:0.04, T:0.79
Consensus pattern (5 bp):
TTTTA
Found at i:43387341 original size:13 final size:14
Alignment explanation
Indices: 43387318--43387347 Score: 53
Period size: 13 Copynumber: 2.2 Consensus size: 14
43387308 TATTGCATTC
43387318 TTAGTTAAATTAGA
1 TTAGTTAAATTAGA
43387332 TTAG-TAAATTAGA
1 TTAGTTAAATTAGA
43387345 TTA
1 TTA
43387348 AAAACAATCA
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
13 12 0.75
14 4 0.25
ACGTcount: A:0.43, C:0.00, G:0.13, T:0.43
Consensus pattern (14 bp):
TTAGTTAAATTAGA
Found at i:43391619 original size:15 final size:16
Alignment explanation
Indices: 43391599--43391632 Score: 52
Period size: 16 Copynumber: 2.2 Consensus size: 16
43391589 GTTAATAATT
*
43391599 AATTAA-CTAGATGCA
1 AATTAACCTAAATGCA
43391614 AATTAACCTAAATGCA
1 AATTAACCTAAATGCA
43391630 AAT
1 AAT
43391633 GAGATGAAAT
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
15 6 0.35
16 11 0.65
ACGTcount: A:0.50, C:0.15, G:0.09, T:0.26
Consensus pattern (16 bp):
AATTAACCTAAATGCA
Found at i:43391954 original size:13 final size:13
Alignment explanation
Indices: 43391938--43391962 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
43391928 TCACACAAAC
43391938 CTAAAAATAAATT
1 CTAAAAATAAATT
43391951 CTAAAAATAAAT
1 CTAAAAATAAAT
43391963 AAATTCTAAA
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.64, C:0.08, G:0.00, T:0.28
Consensus pattern (13 bp):
CTAAAAATAAATT
Found at i:43391983 original size:17 final size:17
Alignment explanation
Indices: 43391942--43391974 Score: 66
Period size: 17 Copynumber: 1.9 Consensus size: 17
43391932 ACAAACCTAA
43391942 AAATAAATTCTAAAAAT
1 AAATAAATTCTAAAAAT
43391959 AAATAAATTCTAAAAA
1 AAATAAATTCTAAAAA
43391975 CCTAAAAATA
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
17 16 1.00
ACGTcount: A:0.67, C:0.06, G:0.00, T:0.27
Consensus pattern (17 bp):
AAATAAATTCTAAAAAT
Found at i:43398940 original size:21 final size:22
Alignment explanation
Indices: 43398896--43398940 Score: 56
Period size: 22 Copynumber: 2.1 Consensus size: 22
43398886 GTCAAAAATA
*
43398896 ATAAAAATAATCAAAATTTGAT
1 ATAAAAATAATCAAAATTTCAT
* *
43398918 ATAAAATTAATTAAAA-TTCAT
1 ATAAAAATAATCAAAATTTCAT
43398939 AT
1 AT
43398941 TTTTCATAAT
Statistics
Matches: 20, Mismatches: 3, Indels: 1
0.83 0.12 0.04
Matches are distributed among these distances:
21 6 0.30
22 14 0.70
ACGTcount: A:0.58, C:0.04, G:0.02, T:0.36
Consensus pattern (22 bp):
ATAAAAATAATCAAAATTTCAT
Found at i:43402039 original size:21 final size:20
Alignment explanation
Indices: 43401998--43402039 Score: 50
Period size: 21 Copynumber: 2.0 Consensus size: 20
43401988 GTGTCTTGAT
*
43401998 GGTGTGGTGCGATAGGTAAG
1 GGTGTGGTGCGATAGGCAAG
43402018 GGTGTTGGTGCGAGTA-GCAAG
1 GGTG-TGGTGCGA-TAGGCAAG
43402039 G
1 G
43402040 CACAGTGTGA
Statistics
Matches: 19, Mismatches: 1, Indels: 3
0.83 0.04 0.13
Matches are distributed among these distances:
20 4 0.21
21 13 0.68
22 2 0.11
ACGTcount: A:0.19, C:0.07, G:0.50, T:0.24
Consensus pattern (20 bp):
GGTGTGGTGCGATAGGCAAG
Found at i:43402465 original size:15 final size:17
Alignment explanation
Indices: 43402430--43402475 Score: 51
Period size: 17 Copynumber: 2.8 Consensus size: 17
43402420 TGCTATTAAT
*
43402430 TTATTAAAAATAAATAC
1 TTATTAAATATAAATAC
43402447 TTATTAAATA-AAATA-
1 TTATTAAATATAAATAC
* *
43402462 TTATCAAATTTAAA
1 TTATTAAATATAAA
43402476 CTAATCCTAA
Statistics
Matches: 25, Mismatches: 3, Indels: 3
0.81 0.10 0.10
Matches are distributed among these distances:
15 8 0.32
16 8 0.32
17 9 0.36
ACGTcount: A:0.57, C:0.04, G:0.00, T:0.39
Consensus pattern (17 bp):
TTATTAAATATAAATAC
Found at i:43409174 original size:21 final size:22
Alignment explanation
Indices: 43409145--43409190 Score: 58
Period size: 21 Copynumber: 2.1 Consensus size: 22
43409135 TTATTTAACA
* *
43409145 TAAATTAAATTGCATTA-AAAT
1 TAAAATAAATTACATTATAAAT
*
43409166 TAAAATAAATTATATTATAAAT
1 TAAAATAAATTACATTATAAAT
43409188 TAA
1 TAA
43409191 TACACATAAT
Statistics
Matches: 21, Mismatches: 3, Indels: 1
0.84 0.12 0.04
Matches are distributed among these distances:
21 14 0.67
22 7 0.33
ACGTcount: A:0.57, C:0.02, G:0.02, T:0.39
Consensus pattern (22 bp):
TAAAATAAATTACATTATAAAT
Found at i:43414529 original size:22 final size:20
Alignment explanation
Indices: 43414499--43414538 Score: 53
Period size: 20 Copynumber: 1.9 Consensus size: 20
43414489 AATGATATCA
43414499 CGACCTTGGAAGCTCAATGTTG
1 CGACCTTGG--GCTCAATGTTG
*
43414521 CGACTTTGGGCTCAATGT
1 CGACCTTGGGCTCAATGT
43414539 CGTGACATCA
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
20 9 0.53
22 8 0.47
ACGTcount: A:0.20, C:0.23, G:0.28, T:0.30
Consensus pattern (20 bp):
CGACCTTGGGCTCAATGTTG
Found at i:43423448 original size:27 final size:27
Alignment explanation
Indices: 43423418--43423490 Score: 92
Period size: 32 Copynumber: 2.5 Consensus size: 27
43423408 TGTCTTGAAT
43423418 TTGTTAGATATTGATTATGTTTTAAGC
1 TTGTTAGATATTGATTATGTTTTAAGC
43423445 TTGTTAGATATTGAATTTATTATGTTTTAAGC
1 TTGTTAGATATTG-----ATTATGTTTTAAGC
*
43423477 TTGTTGGATATTGA
1 TTGTTAGATATTGA
43423491 AATGATTGAC
Statistics
Matches: 40, Mismatches: 1, Indels: 10
0.78 0.02 0.20
Matches are distributed among these distances:
27 14 0.35
32 26 0.65
ACGTcount: A:0.26, C:0.03, G:0.19, T:0.52
Consensus pattern (27 bp):
TTGTTAGATATTGATTATGTTTTAAGC
Found at i:43423470 original size:32 final size:32
Alignment explanation
Indices: 43423431--43423491 Score: 113
Period size: 32 Copynumber: 1.9 Consensus size: 32
43423421 TTAGATATTG
43423431 ATTATGTTTTAAGCTTGTTAGATATTGAATTT
1 ATTATGTTTTAAGCTTGTTAGATATTGAATTT
*
43423463 ATTATGTTTTAAGCTTGTTGGATATTGAA
1 ATTATGTTTTAAGCTTGTTAGATATTGAA
43423492 ATGATTGACA
Statistics
Matches: 28, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
32 28 1.00
ACGTcount: A:0.28, C:0.03, G:0.18, T:0.51
Consensus pattern (32 bp):
ATTATGTTTTAAGCTTGTTAGATATTGAATTT
Found at i:43424894 original size:14 final size:15
Alignment explanation
Indices: 43424856--43424894 Score: 57
Period size: 14 Copynumber: 2.8 Consensus size: 15
43424846 AAACACTAGA
43424856 AAAT-ATTTT-CAGT
1 AAATCATTTTCCAGT
43424869 AAATCATTTTCCAG-
1 AAATCATTTTCCAGT
43424883 AAATCATTTTCC
1 AAATCATTTTCC
43424895 GGGAAATATT
Statistics
Matches: 24, Mismatches: 0, Indels: 3
0.89 0.00 0.11
Matches are distributed among these distances:
13 4 0.17
14 17 0.71
15 3 0.12
ACGTcount: A:0.36, C:0.18, G:0.05, T:0.41
Consensus pattern (15 bp):
AAATCATTTTCCAGT
Found at i:43424905 original size:14 final size:14
Alignment explanation
Indices: 43424856--43424906 Score: 52
Period size: 14 Copynumber: 3.7 Consensus size: 14
43424846 AAACACTAGA
* *
43424856 AAAT-ATTTTCAGT
1 AAATCATTTTCCGG
*
43424869 AAATCATTTTCCAG
1 AAATCATTTTCCGG
43424883 AAATCATTTTCCGGG
1 AAATCATTTTCC-GG
43424898 AAAT-ATTTT
1 AAATCATTTT
43424907 ACTGACAAAC
Statistics
Matches: 32, Mismatches: 4, Indels: 3
0.82 0.10 0.08
Matches are distributed among these distances:
13 4 0.12
14 23 0.72
15 5 0.16
ACGTcount: A:0.35, C:0.14, G:0.10, T:0.41
Consensus pattern (14 bp):
AAATCATTTTCCGG
Found at i:43431388 original size:25 final size:26
Alignment explanation
Indices: 43431357--43431407 Score: 77
Period size: 26 Copynumber: 2.0 Consensus size: 26
43431347 CTTGTATCAT
*
43431357 TCACATTTGCA-TATCATATCCTGTA
1 TCACATTTGCATTATCATACCCTGTA
*
43431382 TCACATTTGCATTTTCATACCCTGTA
1 TCACATTTGCATTATCATACCCTGTA
43431408 ATTATTCATA
Statistics
Matches: 23, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
25 11 0.48
26 12 0.52
ACGTcount: A:0.25, C:0.25, G:0.08, T:0.41
Consensus pattern (26 bp):
TCACATTTGCATTATCATACCCTGTA
Found at i:43445954 original size:35 final size:35
Alignment explanation
Indices: 43445905--43445975 Score: 117
Period size: 35 Copynumber: 2.0 Consensus size: 35
43445895 TGACATCAGA
43445905 TTTAGCTCTGCCAATTATCCTTTT-TAGATATTTTT
1 TTTAGCTCTGCCAATTAT-CTTTTGTAGATATTTTT
*
43445940 TTTAGCTCTTCCAATTATCTTTTGTAGATATTTTT
1 TTTAGCTCTGCCAATTATCTTTTGTAGATATTTTT
43445975 T
1 T
43445976 GTTCTATTCT
Statistics
Matches: 34, Mismatches: 1, Indels: 2
0.92 0.03 0.05
Matches are distributed among these distances:
34 5 0.15
35 29 0.85
ACGTcount: A:0.20, C:0.15, G:0.08, T:0.56
Consensus pattern (35 bp):
TTTAGCTCTGCCAATTATCTTTTGTAGATATTTTT
Found at i:43449445 original size:5 final size:5
Alignment explanation
Indices: 43449435--43449466 Score: 64
Period size: 5 Copynumber: 6.4 Consensus size: 5
43449425 CCTCACGGAC
43449435 ATTGG ATTGG ATTGG ATTGG ATTGG ATTGG AT
1 ATTGG ATTGG ATTGG ATTGG ATTGG ATTGG AT
43449467 CACTTAAGCC
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 27 1.00
ACGTcount: A:0.22, C:0.00, G:0.38, T:0.41
Consensus pattern (5 bp):
ATTGG
Found at i:43455745 original size:27 final size:27
Alignment explanation
Indices: 43455707--43455761 Score: 110
Period size: 27 Copynumber: 2.0 Consensus size: 27
43455697 AGACTCAATT
43455707 TGCACATTTTATTGAATTTAATTAAAC
1 TGCACATTTTATTGAATTTAATTAAAC
43455734 TGCACATTTTATTGAATTTAATTAAAC
1 TGCACATTTTATTGAATTTAATTAAAC
43455761 T
1 T
43455762 TACTAAAACA
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
27 28 1.00
ACGTcount: A:0.36, C:0.11, G:0.07, T:0.45
Consensus pattern (27 bp):
TGCACATTTTATTGAATTTAATTAAAC
Found at i:43458882 original size:24 final size:24
Alignment explanation
Indices: 43458850--43458898 Score: 98
Period size: 24 Copynumber: 2.0 Consensus size: 24
43458840 ACAGTGATGA
43458850 ACTATGGTATCTGATTTTGAATTG
1 ACTATGGTATCTGATTTTGAATTG
43458874 ACTATGGTATCTGATTTTGAATTG
1 ACTATGGTATCTGATTTTGAATTG
43458898 A
1 A
43458899 TCACAGACCT
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
24 25 1.00
ACGTcount: A:0.27, C:0.08, G:0.20, T:0.45
Consensus pattern (24 bp):
ACTATGGTATCTGATTTTGAATTG
Found at i:43459267 original size:13 final size:14
Alignment explanation
Indices: 43459249--43459289 Score: 73
Period size: 14 Copynumber: 2.9 Consensus size: 14
43459239 TTTTTCTCTC
43459249 ATTTTTTTATTTTG
1 ATTTTTTTATTTTG
43459263 ATTTTTTTATTTTG
1 ATTTTTTTATTTTG
*
43459277 ATTTTTTTGTTTT
1 ATTTTTTTATTTT
43459290 TTTAAATGAT
Statistics
Matches: 26, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
14 26 1.00
ACGTcount: A:0.12, C:0.00, G:0.07, T:0.80
Consensus pattern (14 bp):
ATTTTTTTATTTTG
Found at i:43464074 original size:28 final size:27
Alignment explanation
Indices: 43464043--43464135 Score: 89
Period size: 29 Copynumber: 3.3 Consensus size: 27
43464033 AATATATGTA
*
43464043 AATTAAAAAGTTAAAATAAATTTGAATG
1 AATTAAAATGTTAAAAT-AATTTGAATG
* * *
43464071 AATTAACAATGTTGAAATAAGTTGAAATA
1 AATTAA-AATGTTAAAATAATTTG-AATG
*
43464100 AATTAAAGATGTTAAAAT-ATTTGAAAG
1 AATTAAA-ATGTTAAAATAATTTGAATG
*
43464127 AAATAAAAT
1 AATTAAAAT
43464136 ATCTAATATA
Statistics
Matches: 53, Mismatches: 9, Indels: 8
0.76 0.13 0.11
Matches are distributed among these distances:
26 2 0.04
27 8 0.15
28 16 0.30
29 27 0.51
ACGTcount: A:0.56, C:0.01, G:0.12, T:0.31
Consensus pattern (27 bp):
AATTAAAATGTTAAAATAATTTGAATG
Found at i:43464385 original size:31 final size:31
Alignment explanation
Indices: 43464347--43464407 Score: 90
Period size: 31 Copynumber: 2.0 Consensus size: 31
43464337 GGCCCATTTT
43464347 TATTTT-AAAAT-TTTTAAAAAATTAAAAAAAG
1 TATTTTAAAAATATTTT--AAAATTAAAAAAAG
43464378 TATTTTAAAAATATTTTAAAATTAAAAAAA
1 TATTTTAAAAATATTTTAAAATTAAAAAAA
43464408 ATTAAAAAAA
Statistics
Matches: 28, Mismatches: 0, Indels: 4
0.88 0.00 0.12
Matches are distributed among these distances:
31 19 0.68
32 5 0.18
33 4 0.14
ACGTcount: A:0.59, C:0.00, G:0.02, T:0.39
Consensus pattern (31 bp):
TATTTTAAAAATATTTTAAAATTAAAAAAAG
Found at i:43464446 original size:40 final size:40
Alignment explanation
Indices: 43464347--43464529 Score: 278
Period size: 40 Copynumber: 4.5 Consensus size: 40
43464337 GGCCCATTTT
*
43464347 TATTTTAAAATTTTTAAAAAATTAAAAAAAGTATTTTAAAAA
1 TATTTTAAAA--TTAAAAAAATTAAAAAAAGTATTTTAAAAA
*
43464389 TATTTTAAAATTAAAAAAAATTAAAAAAAGTATTTTTAAAA
1 TATTTTAAAATT-AAAAAAATTAAAAAAAGTATTTTAAAAA
*
43464430 TTTTTTAAAATTAAAAAAATTAAAAAAAGTATTTTAAAAA
1 TATTTTAAAATTAAAAAAATTAAAAAAAGTATTTTAAAAA
* *
43464470 TATTTTAAAATTAAGAAAAATT-AAAAAAGTATGTAAAAAA
1 TATTTTAAAATTAA-AAAAATTAAAAAAAGTATTTTAAAAA
43464510 TATTTTAAAATTAAAAAAAT
1 TATTTTAAAATTAAAAAAAT
43464530 ATTTATTATA
Statistics
Matches: 132, Mismatches: 7, Indels: 7
0.90 0.05 0.05
Matches are distributed among these distances:
39 6 0.05
40 72 0.55
41 44 0.33
42 10 0.08
ACGTcount: A:0.60, C:0.00, G:0.03, T:0.37
Consensus pattern (40 bp):
TATTTTAAAATTAAAAAAATTAAAAAAAGTATTTTAAAAA
Found at i:43464449 original size:81 final size:80
Alignment explanation
Indices: 43464347--43464529 Score: 285
Period size: 81 Copynumber: 2.2 Consensus size: 80
43464337 GGCCCATTTT
*
43464347 TATTTTAAAATTTTTAAAAAATTAAAAAAAGTATTTTAAAAATATTTTAAAATTAAAAAAAATTA
1 TATTTTAAAA--TTAAAAAAATTAAAAAAAGTATTTTAAAAATATTTTAAAATTAAAAAAAATT-
* **
43464412 AAAAAAGTATTTTTAAAA
63 AAAAAAGTATGTAAAAAA
* *
43464430 TTTTTTAAAATTAAAAAAATTAAAAAAAGTATTTTAAAAATATTTTAAAATTAAGAAAAATTAAA
1 TATTTTAAAATTAAAAAAATTAAAAAAAGTATTTTAAAAATATTTTAAAATTAAAAAAAATTAAA
43464495 AAAGTATGTAAAAAA
66 AAAGTATGTAAAAAA
43464510 TATTTTAAAATTAAAAAAAT
1 TATTTTAAAATTAAAAAAAT
43464530 ATTTATTATA
Statistics
Matches: 93, Mismatches: 7, Indels: 3
0.90 0.07 0.03
Matches are distributed among these distances:
80 34 0.37
81 50 0.54
83 9 0.10
ACGTcount: A:0.60, C:0.00, G:0.03, T:0.37
Consensus pattern (80 bp):
TATTTTAAAATTAAAAAAATTAAAAAAAGTATTTTAAAAATATTTTAAAATTAAAAAAAATTAAA
AAAGTATGTAAAAAA
Found at i:43464973 original size:22 final size:22
Alignment explanation
Indices: 43464944--43464991 Score: 62
Period size: 22 Copynumber: 2.2 Consensus size: 22
43464934 ACAATAATAC
**
43464944 ATAT-AAAATAAAGTAATGCAT
1 ATATAAAAATAAACCAATGCAT
*
43464965 ATATAAAAATAAACCAATGTAT
1 ATATAAAAATAAACCAATGCAT
43464987 ATATA
1 ATATA
43464992 TGAAAAATGT
Statistics
Matches: 23, Mismatches: 3, Indels: 1
0.85 0.11 0.04
Matches are distributed among these distances:
21 4 0.17
22 19 0.83
ACGTcount: A:0.58, C:0.06, G:0.06, T:0.29
Consensus pattern (22 bp):
ATATAAAAATAAACCAATGCAT
Found at i:43469410 original size:15 final size:15
Alignment explanation
Indices: 43469390--43469418 Score: 58
Period size: 15 Copynumber: 1.9 Consensus size: 15
43469380 AATAAAAGAT
43469390 ATGAAAATCGATTTG
1 ATGAAAATCGATTTG
43469405 ATGAAAATCGATTT
1 ATGAAAATCGATTT
43469419 CCTCCTCTTA
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 14 1.00
ACGTcount: A:0.41, C:0.07, G:0.17, T:0.34
Consensus pattern (15 bp):
ATGAAAATCGATTTG
Found at i:43474272 original size:13 final size:13
Alignment explanation
Indices: 43474254--43474280 Score: 54
Period size: 13 Copynumber: 2.1 Consensus size: 13
43474244 AGCTTTTGGT
43474254 TTTGTTATGAAGC
1 TTTGTTATGAAGC
43474267 TTTGTTATGAAGC
1 TTTGTTATGAAGC
43474280 T
1 T
43474281 GAAATATTGA
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 14 1.00
ACGTcount: A:0.22, C:0.07, G:0.22, T:0.48
Consensus pattern (13 bp):
TTTGTTATGAAGC
Found at i:43477638 original size:48 final size:48
Alignment explanation
Indices: 43477567--43477662 Score: 192
Period size: 48 Copynumber: 2.0 Consensus size: 48
43477557 CGAAGATAAC
43477567 CACAAAATGCATTAGGATCTTGAATGTAAGAAGAAAAGCTTGGAAAGA
1 CACAAAATGCATTAGGATCTTGAATGTAAGAAGAAAAGCTTGGAAAGA
43477615 CACAAAATGCATTAGGATCTTGAATGTAAGAAGAAAAGCTTGGAAAGA
1 CACAAAATGCATTAGGATCTTGAATGTAAGAAGAAAAGCTTGGAAAGA
43477663 AACTTTGTCC
Statistics
Matches: 48, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
48 48 1.00
ACGTcount: A:0.46, C:0.10, G:0.23, T:0.21
Consensus pattern (48 bp):
CACAAAATGCATTAGGATCTTGAATGTAAGAAGAAAAGCTTGGAAAGA
Found at i:43478756 original size:2 final size:2
Alignment explanation
Indices: 43478751--43478780 Score: 60
Period size: 2 Copynumber: 15.0 Consensus size: 2
43478741 AAATGGGATT
43478751 AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG
1 AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG
43478781 TGGCATTGGC
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 28 1.00
ACGTcount: A:0.50, C:0.00, G:0.50, T:0.00
Consensus pattern (2 bp):
AG
Found at i:43480993 original size:14 final size:14
Alignment explanation
Indices: 43480974--43481008 Score: 52
Period size: 14 Copynumber: 2.5 Consensus size: 14
43480964 GTTTGCTAGT
*
43480974 AAAATGTTTTCTGA
1 AAAATGATTTCTGA
*
43480988 AAAATGATTTCTGG
1 AAAATGATTTCTGA
43481002 AAAATGA
1 AAAATGA
43481009 ATTACTTTTC
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
14 19 1.00
ACGTcount: A:0.43, C:0.06, G:0.17, T:0.34
Consensus pattern (14 bp):
AAAATGATTTCTGA
Found at i:43481020 original size:20 final size:20
Alignment explanation
Indices: 43480995--43481040 Score: 76
Period size: 19 Copynumber: 2.4 Consensus size: 20
43480985 TGAAAAATGA
43480995 TTTCTGGAAAATGAATTACT
1 TTTCTGGAAAATGAATTACT
*
43481015 TTTCT-GAAAATGATTTACT
1 TTTCTGGAAAATGAATTACT
43481034 TTTCTGG
1 TTTCTGG
43481041 TGTTTGGATG
Statistics
Matches: 24, Mismatches: 1, Indels: 2
0.89 0.04 0.07
Matches are distributed among these distances:
19 18 0.75
20 6 0.25
ACGTcount: A:0.28, C:0.11, G:0.15, T:0.46
Consensus pattern (20 bp):
TTTCTGGAAAATGAATTACT
Found at i:43481142 original size:18 final size:18
Alignment explanation
Indices: 43481116--43481158 Score: 77
Period size: 18 Copynumber: 2.4 Consensus size: 18
43481106 AAAAGTTGTT
*
43481116 TTTACATATATTAATAAA
1 TTTATATATATTAATAAA
43481134 TTTATATATATTAATAAA
1 TTTATATATATTAATAAA
43481152 TTTATAT
1 TTTATAT
43481159 TTTTAATTGT
Statistics
Matches: 24, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
18 24 1.00
ACGTcount: A:0.47, C:0.02, G:0.00, T:0.51
Consensus pattern (18 bp):
TTTATATATATTAATAAA
Found at i:43484302 original size:21 final size:19
Alignment explanation
Indices: 43484276--43484316 Score: 55
Period size: 21 Copynumber: 2.1 Consensus size: 19
43484266 TATGTCAAAA
*
43484276 TAAATTTTAAAATTAAATATT
1 TAAATTGTAAAA--AAATATT
43484297 TAAATTGTAAAAAAATATT
1 TAAATTGTAAAAAAATATT
43484316 T
1 T
43484317 TATTGTATTC
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
19 8 0.42
21 11 0.58
ACGTcount: A:0.54, C:0.00, G:0.02, T:0.44
Consensus pattern (19 bp):
TAAATTGTAAAAAAATATT
Found at i:43486785 original size:17 final size:18
Alignment explanation
Indices: 43486764--43486812 Score: 57
Period size: 17 Copynumber: 2.7 Consensus size: 18
43486754 AATTAATTAA
43486764 CTAAATTAATTTCTCAAT
1 CTAAATTAATTTCTCAAT
43486782 -TAAA-TAATTTTCTCAAT
1 CTAAATTAA-TTTCTCAAT
*
43486799 CTAATTCTAATTTC
1 CTAAAT-TAATTTC
43486813 GTTACCGTAA
Statistics
Matches: 26, Mismatches: 1, Indels: 7
0.76 0.03 0.21
Matches are distributed among these distances:
16 3 0.12
17 13 0.50
18 3 0.12
19 4 0.15
20 3 0.12
ACGTcount: A:0.37, C:0.16, G:0.00, T:0.47
Consensus pattern (18 bp):
CTAAATTAATTTCTCAAT
Found at i:43491823 original size:60 final size:60
Alignment explanation
Indices: 43491730--43491846 Score: 175
Period size: 60 Copynumber: 1.9 Consensus size: 60
43491720 GAATCTGTTG
*
43491730 GTAAAAAAAAAAAAGTAAAAATCACTAGCAACTATTTTCTACTTTATTTTAATTTTTGAT
1 GTAAAAAAAAAAAAGTAAAAATCACTAGCAACTATTTTCAACTTTATTTTAATTTTTGAT
* *
43491790 GTAAAAAATAAAAAA-TAAAAAAT-ACTAGCAACTATTTTCAATTTTATTTTTATTTTT
1 GTAAAAAA-AAAAAAGT-AAAAATCACTAGCAACTATTTTCAACTTTATTTTAATTTTT
43491847 ATTTTTTATG
Statistics
Matches: 52, Mismatches: 3, Indels: 4
0.88 0.05 0.07
Matches are distributed among these distances:
60 40 0.77
61 12 0.23
ACGTcount: A:0.46, C:0.09, G:0.05, T:0.40
Consensus pattern (60 bp):
GTAAAAAAAAAAAAGTAAAAATCACTAGCAACTATTTTCAACTTTATTTTAATTTTTGAT
Found at i:43501438 original size:124 final size:125
Alignment explanation
Indices: 43501218--43501565 Score: 581
Period size: 124 Copynumber: 2.8 Consensus size: 125
43501208 TTTCGAGTTA
* *
43501218 ACGTTTTTGAGCAAATAGTATAAAATCGCTTCTACCAAGATGCTATTTGAGAAGAAATTGTGAAA
1 ACGTTTCTGAGCAAATAGTATAAAATCGCTTCTACCAGGATGCTATTTGAGAAGAAATTGTGAAA
* * *
43501283 TCGCGCCCTCATGGACGCGATTTTGCTACAGTAGTTCATGTAAGAAGTAA-TTTTTTTTG
66 TCGCGCCCTCGTGGACGCGATTTTGCTACAGTAGGTCATGTAAGAAATAATTTTTTTTTG
* *
43501342 ACGTTTCTGAGAAAAAAGTATAAAATCGCTTCTACCAGGATGCTATTTGAGAAGAAATTGTGAAA
1 ACGTTTCTGAGCAAATAGTATAAAATCGCTTCTACCAGGATGCTATTTGAGAAGAAATTGTGAAA
* * *
43501407 TCGTGCCCTCGTGGATGCGATTTTGCTACAGTTGGTCATGTAAGAAATAATTTTTTTTTG
66 TCGCGCCCTCGTGGACGCGATTTTGCTACAGTAGGTCATGTAAGAAATAATTTTTTTTTG
*
43501467 ATGTTTCTGAGCAAATAGTATAAAATCGCTTCTACCAGGATGCTATTTGAGAAGAAATTGTGAAA
1 ACGTTTCTGAGCAAATAGTATAAAATCGCTTCTACCAGGATGCTATTTGAGAAGAAATTGTGAAA
*
43501532 TCGCGCCCTCGTGGACGCTATTTTGCTACAGTAG
66 TCGCGCCCTCGTGGACGCGATTTTGCTACAGTAG
43501566 CAAGTTTGGG
Statistics
Matches: 206, Mismatches: 17, Indels: 1
0.92 0.08 0.00
Matches are distributed among these distances:
124 105 0.51
125 101 0.49
ACGTcount: A:0.30, C:0.16, G:0.21, T:0.33
Consensus pattern (125 bp):
ACGTTTCTGAGCAAATAGTATAAAATCGCTTCTACCAGGATGCTATTTGAGAAGAAATTGTGAAA
TCGCGCCCTCGTGGACGCGATTTTGCTACAGTAGGTCATGTAAGAAATAATTTTTTTTTG
Found at i:43502295 original size:10 final size:10
Alignment explanation
Indices: 43502280--43502304 Score: 50
Period size: 10 Copynumber: 2.5 Consensus size: 10
43502270 TAAATCTAAC
43502280 ATTATGTAAA
1 ATTATGTAAA
43502290 ATTATGTAAA
1 ATTATGTAAA
43502300 ATTAT
1 ATTAT
43502305 TAAGTCCAAA
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
10 15 1.00
ACGTcount: A:0.48, C:0.00, G:0.08, T:0.44
Consensus pattern (10 bp):
ATTATGTAAA
Found at i:43502349 original size:55 final size:55
Alignment explanation
Indices: 43502288--43502413 Score: 252
Period size: 55 Copynumber: 2.3 Consensus size: 55
43502278 ACATTATGTA
43502288 AAATTATGTAAAATTATTAAGTCCAAAAATTGTGTTAATGGTTAGTAAAATTATC
1 AAATTATGTAAAATTATTAAGTCCAAAAATTGTGTTAATGGTTAGTAAAATTATC
43502343 AAATTATGTAAAATTATTAAGTCCAAAAATTGTGTTAATGGTTAGTAAAATTATC
1 AAATTATGTAAAATTATTAAGTCCAAAAATTGTGTTAATGGTTAGTAAAATTATC
43502398 AAATTATGTAAAATTA
1 AAATTATGTAAAATTA
43502414 GGTTAGGGTT
Statistics
Matches: 71, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
55 71 1.00
ACGTcount: A:0.45, C:0.05, G:0.12, T:0.38
Consensus pattern (55 bp):
AAATTATGTAAAATTATTAAGTCCAAAAATTGTGTTAATGGTTAGTAAAATTATC
Found at i:43502502 original size:30 final size:29
Alignment explanation
Indices: 43502439--43502666 Score: 311
Period size: 30 Copynumber: 7.7 Consensus size: 29
43502429 TAGGGTTAGT
*
43502439 GTTTTTAATTAAATTAGGTTAGGG-TTAGG
1 GTTTTTAATTAAATTAGGTTAGGGAGT-GG
43502468 GTTTTTAATTAAATTAGGTTAGGGCAGTGG
1 GTTTTTAATTAAATTAGGTTAGGG-AGTGG
**
43502498 GTTTTTAATTAAATTAGGTTAGGGTTTAGG
1 GTTTTTAATTAAATTAGGTTAGGGAGT-GG
43502528 GTTTTTAATTAAATTAGGTTAGGGTTAGT--
1 GTTTTTAATTAAATTAGGTTAGGG--AGTGG
43502557 GTTTTTAATTAAATTAGGTTAGGGCAGTGG
1 GTTTTTAATTAAATTAGGTTAGGG-AGTGG
43502587 GTTTTTAATTAAATTAGGTTAGGGCAGTGG
1 GTTTTTAATTAAATTAGGTTAGGG-AGTGG
*
43502617 GTTTTTAATTAAATTAGGTTAGGG-TTAGG
1 GTTTTTAATTAAATTAGGTTAGGGAGT-GG
43502646 GTTTTTAATTAAATTATGGTT
1 GTTTTTAATTAAATTA-GGTT
43502667 TTTATTACAT
Statistics
Matches: 183, Mismatches: 7, Indels: 17
0.88 0.03 0.08
Matches are distributed among these distances:
28 4 0.02
29 67 0.37
30 110 0.60
31 1 0.01
32 1 0.01
ACGTcount: A:0.27, C:0.01, G:0.27, T:0.45
Consensus pattern (29 bp):
GTTTTTAATTAAATTAGGTTAGGGAGTGG
Found at i:43502502 original size:59 final size:59
Alignment explanation
Indices: 43502439--43502666 Score: 372
Period size: 59 Copynumber: 3.8 Consensus size: 59
43502429 TAGGGTTAGT
43502439 GTTTTTAATTAAATTAGGTTAGGGTTAGGGTTTTTAATTAAATTAGGTTAGGGCAGTGG
1 GTTTTTAATTAAATTAGGTTAGGGTTAGGGTTTTTAATTAAATTAGGTTAGGGCAGTGG
*
43502498 GTTTTTAATTAAATTAGGTTAGGGTTTAGGGTTTTTAATTAAATTAGGTTAGGGTTAGT--
1 GTTTTTAATTAAATTAGGTTAGGG-TTAGGGTTTTTAATTAAATTAGGTTAGGG-CAGTGG
*
43502557 GTTTTTAATTAAATTAGGTTAGGG-CAGTGGGTTTTTAATTAAATTAGGTTAGGGCAGTGG
1 GTTTTTAATTAAATTAGGTTAGGGTTA--GGGTTTTTAATTAAATTAGGTTAGGGCAGTGG
43502617 GTTTTTAATTAAATTAGGTTAGGGTTAGGGTTTTTAATTAAATTATGGTT
1 GTTTTTAATTAAATTAGGTTAGGGTTAGGGTTTTTAATTAAATTA-GGTT
43502667 TTTATTACAT
Statistics
Matches: 157, Mismatches: 4, Indels: 15
0.89 0.02 0.09
Matches are distributed among these distances:
57 1 0.01
58 3 0.02
59 92 0.59
60 57 0.36
61 4 0.03
ACGTcount: A:0.27, C:0.01, G:0.27, T:0.45
Consensus pattern (59 bp):
GTTTTTAATTAAATTAGGTTAGGGTTAGGGTTTTTAATTAAATTAGGTTAGGGCAGTGG
Found at i:43502545 original size:89 final size:88
Alignment explanation
Indices: 43502426--43502666 Score: 412
Period size: 89 Copynumber: 2.7 Consensus size: 88
43502416 TTAGGGTTAG
*
43502426 GGTTAGGGTTAGTGTTTTTAATTAAATTAGGTTAGGGTTAGGGTTTTTAATTAAATTAGGTTAGG
1 GGTTAGGGTTAGGGTTTTTAATTAAATTAGGTTAGGGTTAGGGTTTTTAATTAAATTAGGTTAGG
43502491 GCAGTGGGTTTTTAATTAAATTA
66 GCAGTGGGTTTTTAATTAAATTA
*
43502514 GGTTAGGGTTTAGGGTTTTTAATTAAATTAGGTTAGGGTTAGTGTTTTTAATTAAATTAGGTTAG
1 GGTTAGGG-TTAGGGTTTTTAATTAAATTAGGTTAGGGTTAGGGTTTTTAATTAAATTAGGTTAG
43502579 GGCAGTGGGTTTTTAATTAAATTA
65 GGCAGTGGGTTTTTAATTAAATTA
*
43502603 GGTTAGGG-CAGTGGGTTTTTAATTAAATTAGGTTAGGGTTAGGGTTTTTAATTAAATTATGGTT
1 GGTTAGGGTTA--GGGTTTTTAATTAAATTAGGTTAGGGTTAGGGTTTTTAATTAAATTA-GGTT
43502667 TTTATTACAT
Statistics
Matches: 145, Mismatches: 4, Indels: 6
0.94 0.03 0.04
Matches are distributed among these distances:
87 1 0.01
88 8 0.06
89 132 0.91
90 4 0.03
ACGTcount: A:0.27, C:0.01, G:0.28, T:0.44
Consensus pattern (88 bp):
GGTTAGGGTTAGGGTTTTTAATTAAATTAGGTTAGGGTTAGGGTTTTTAATTAAATTAGGTTAGG
GCAGTGGGTTTTTAATTAAATTA
Found at i:43502851 original size:71 final size:70
Alignment explanation
Indices: 43502669--43502850 Score: 296
Period size: 68 Copynumber: 2.6 Consensus size: 70
43502659 TTATGGTTTT
* *
43502669 TATTACATCAAATAGAACTTCTATTTTATTATATCAAATAATATCAAAATAACTCGAAAAAATTT
1 TATTAAATCAAATA-AACTTCTATTTTATTACATCAAATAATATCAAAATAACTCGAAAAAA-TT
43502734 CTATGCC
64 CTATGCC
*
43502741 TATTATATCAAATAAACTTCTATTTTATTACATCAAATAATATCAAAATAACTCG-AAAAA-TCT
1 TATTAAATCAAATAAACTTCTATTTTATTACATCAAATAATATCAAAATAACTCGAAAAAATTCT
*
43502804 ATGCG
66 ATGCC
43502809 TATTAAATCAAATAAACTTCTATTTTATTACATCAAATAATA
1 TATTAAATCAAATAAACTTCTATTTTATTACATCAAATAATA
43502851 AATTTAAATA
Statistics
Matches: 106, Mismatches: 4, Indels: 4
0.93 0.04 0.04
Matches are distributed among these distances:
68 48 0.45
70 5 0.05
71 40 0.38
72 13 0.12
ACGTcount: A:0.46, C:0.14, G:0.03, T:0.37
Consensus pattern (70 bp):
TATTAAATCAAATAAACTTCTATTTTATTACATCAAATAATATCAAAATAACTCGAAAAAATTCT
ATGCC
Found at i:43503279 original size:18 final size:18
Alignment explanation
Indices: 43503252--43503286 Score: 52
Period size: 18 Copynumber: 1.9 Consensus size: 18
43503242 CGGAAAAGGA
* *
43503252 TACATGTAAGGGTTAGGG
1 TACATATAAGGGCTAGGG
43503270 TACATATAAGGGCTAGG
1 TACATATAAGGGCTAGG
43503287 AAACACACCT
Statistics
Matches: 15, Mismatches: 2, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
18 15 1.00
ACGTcount: A:0.31, C:0.09, G:0.34, T:0.26
Consensus pattern (18 bp):
TACATATAAGGGCTAGGG
Found at i:43503948 original size:7 final size:7
Alignment explanation
Indices: 43503938--43503962 Score: 50
Period size: 7 Copynumber: 3.6 Consensus size: 7
43503928 TTATATACAT
43503938 AATACTA
1 AATACTA
43503945 AATACTA
1 AATACTA
43503952 AATACTA
1 AATACTA
43503959 AATA
1 AATA
43503963 TCAATCGACT
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 18 1.00
ACGTcount: A:0.60, C:0.12, G:0.00, T:0.28
Consensus pattern (7 bp):
AATACTA
Found at i:43505085 original size:29 final size:29
Alignment explanation
Indices: 43505044--43505111 Score: 102
Period size: 29 Copynumber: 2.4 Consensus size: 29
43505034 GCCATTGATG
**
43505044 AAAATATAAAAAAAAATTTAATTATTTTA
1 AAAATATAAAAAAAAATAAAATTATTTTA
*
43505073 AAAATATAAAAAAATATAAAATTATTTTA
1 AAAATATAAAAAAAAATAAAATTATTTTA
43505102 AAAA-ATAAAA
1 AAAATATAAAA
43505112 TTGAGGGGAA
Statistics
Matches: 36, Mismatches: 3, Indels: 1
0.90 0.08 0.03
Matches are distributed among these distances:
28 6 0.17
29 30 0.83
ACGTcount: A:0.68, C:0.00, G:0.00, T:0.32
Consensus pattern (29 bp):
AAAATATAAAAAAAAATAAAATTATTTTA
Found at i:43505163 original size:29 final size:29
Alignment explanation
Indices: 43505131--43505213 Score: 72
Period size: 29 Copynumber: 3.1 Consensus size: 29
43505121 AATTGAAATT
43505131 AAATATGGATTTGAGAGAATTTTGGAAGG
1 AAATATGGATTTGAGAGAATTTTGGAAGG
* * **
43505160 AAAT-T-GA---GAG-GAA-ATTGAAATT
1 AAATATGGATTTGAGAGAATTTTGGAAGG
*
43505182 AAATATGGGTTTGAGAGAATTTTGGAAGG
1 AAATATGGATTTGAGAGAATTTTGGAAGG
43505211 AAA
1 AAA
43505214 GTTGGAAGTA
Statistics
Matches: 38, Mismatches: 9, Indels: 14
0.62 0.15 0.23
Matches are distributed among these distances:
22 9 0.24
23 4 0.11
24 4 0.11
27 5 0.13
28 4 0.11
29 12 0.32
ACGTcount: A:0.42, C:0.00, G:0.29, T:0.29
Consensus pattern (29 bp):
AAATATGGATTTGAGAGAATTTTGGAAGG
Found at i:43505173 original size:51 final size:51
Alignment explanation
Indices: 43505109--43505213 Score: 192
Period size: 51 Copynumber: 2.1 Consensus size: 51
43505099 TTAAAAAATA
*
43505109 AAATTGAGGGGAAATTGAAATTAAATATGGATTTGAGAGAATTTTGGAAGG
1 AAATTGAGAGGAAATTGAAATTAAATATGGATTTGAGAGAATTTTGGAAGG
*
43505160 AAATTGAGAGGAAATTGAAATTAAATATGGGTTTGAGAGAATTTTGGAAGG
1 AAATTGAGAGGAAATTGAAATTAAATATGGATTTGAGAGAATTTTGGAAGG
43505211 AAA
1 AAA
43505214 GTTGGAAGTA
Statistics
Matches: 52, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
51 52 1.00
ACGTcount: A:0.43, C:0.00, G:0.29, T:0.29
Consensus pattern (51 bp):
AAATTGAGAGGAAATTGAAATTAAATATGGATTTGAGAGAATTTTGGAAGG
Found at i:43505576 original size:21 final size:20
Alignment explanation
Indices: 43505529--43505576 Score: 53
Period size: 21 Copynumber: 2.3 Consensus size: 20
43505519 TCCCTATATT
43505529 TAATTTTATATTAAATTGAA
1 TAATTTTATATTAAATTGAA
*
43505549 AACATTTTATTACTTAAATT-AA
1 TA-ATTTTA-TA-TTAAATTGAA
43505571 TAATTT
1 TAATTT
43505577 CGATTATAAA
Statistics
Matches: 23, Mismatches: 2, Indels: 5
0.77 0.07 0.17
Matches are distributed among these distances:
20 1 0.04
21 10 0.43
22 5 0.22
23 7 0.30
ACGTcount: A:0.44, C:0.04, G:0.02, T:0.50
Consensus pattern (20 bp):
TAATTTTATATTAAATTGAA
Found at i:43511449 original size:185 final size:185
Alignment explanation
Indices: 43511137--43511510 Score: 730
Period size: 185 Copynumber: 2.0 Consensus size: 185
43511127 CACAGGTATA
43511137 AAGCAAACGTAAGATGCTTTGCACATAGCAGTAAAAATCGAAGGGTAGGAATGAAAGCTCAGTAA
1 AAGCAAACGTAAGATGCTTTGCACATAGCAGTAAAAATCGAAGGGTAGGAATGAAAGCTCAGTAA
43511202 TACTGTAGTAAAATGACAAAAACAAACTAGCATTTCACTCCATCTAGTAAAAGCATATTAAATGA
66 TACTGTAGTAAAATGACAAAAACAAACTAGCATTTCACTCCATCTAGTAAAAGCATATTAAATGA
43511267 GTCAAAAAAATGGGATGTGAATACAATTAAAGAAAAGAACATAGAAGAGGAAATG
131 GTCAAAAAAATGGGATGTGAATACAATTAAAGAAAAGAACATAGAAGAGGAAATG
*
43511322 AAGCAAACGTAAGATGCTTTGCACATAGCAGTAAAAATCGAAGGGTAGGAGTGAAAGCTCAGTAA
1 AAGCAAACGTAAGATGCTTTGCACATAGCAGTAAAAATCGAAGGGTAGGAATGAAAGCTCAGTAA
*
43511387 TACTGTAGTAAAATGACAAAAGCAAACTAGCATTTCACTCCATCTAGTAAAAGCATATTAAATGA
66 TACTGTAGTAAAATGACAAAAACAAACTAGCATTTCACTCCATCTAGTAAAAGCATATTAAATGA
43511452 GTCAAAAAAATGGGATGTGAATACAATTAAAGAAAAGAACATAGAAGAGGAAATG
131 GTCAAAAAAATGGGATGTGAATACAATTAAAGAAAAGAACATAGAAGAGGAAATG
43511507 AAGC
1 AAGC
43511511 CAATGCTCTG
Statistics
Matches: 187, Mismatches: 2, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
185 187 1.00
ACGTcount: A:0.47, C:0.13, G:0.20, T:0.20
Consensus pattern (185 bp):
AAGCAAACGTAAGATGCTTTGCACATAGCAGTAAAAATCGAAGGGTAGGAATGAAAGCTCAGTAA
TACTGTAGTAAAATGACAAAAACAAACTAGCATTTCACTCCATCTAGTAAAAGCATATTAAATGA
GTCAAAAAAATGGGATGTGAATACAATTAAAGAAAAGAACATAGAAGAGGAAATG
Found at i:43518204 original size:20 final size:23
Alignment explanation
Indices: 43518174--43518218 Score: 69
Period size: 21 Copynumber: 2.1 Consensus size: 23
43518164 AAAAAAAGAG
43518174 AAATACAAAAAAG-AATAG-ATC
1 AAATACAAAAAAGAAATAGAATC
43518195 AAAT-CAAAAAAGAAATAGAATC
1 AAATACAAAAAAGAAATAGAATC
43518217 AA
1 AA
43518219 CGATTTGCTC
Statistics
Matches: 22, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
20 8 0.36
21 9 0.41
22 5 0.23
ACGTcount: A:0.69, C:0.09, G:0.09, T:0.13
Consensus pattern (23 bp):
AAATACAAAAAAGAAATAGAATC
Found at i:43521103 original size:35 final size:34
Alignment explanation
Indices: 43521025--43521288 Score: 306
Period size: 35 Copynumber: 7.8 Consensus size: 34
43521015 AAATAATACA
* * *
43521025 TGAACAGGAGAGATTCCCTGCAA-GAAATGAT-G
1 TGAACAGGAAAGATTCCCTGCAACAAAATAATGG
*
43521057 TGAACAGGAGAGATTCCCTGCAACAAAATAATGCG
1 TGAACAGGAAAGATTCCCTGCAACAAAATAATG-G
* * * *
43521092 TGAACATGAGAGATTCCCTGCAA-GAAATGAT-G
1 TGAACAGGAAAGATTCCCTGCAACAAAATAATGG
* *
43521124 TGAATAGGAAAGATTCCCTACAACAAAATAATGTG
1 TGAACAGGAAAGATTCCCTGCAACAAAATAATG-G
*
43521159 TGAACAGGAGAGATTCCCTGCAACAAAATAATGTG
1 TGAACAGGAAAGATTCCCTGCAACAAAATAATG-G
* *
43521194 TGAACAGGAAAGATTCCCTGCAA-GAAATGAT-G
1 TGAACAGGAAAGATTCCCTGCAACAAAATAATGG
*
43521226 TGAACAGGAAAGATTCCCTGCAACAGAATAATGCG
1 TGAACAGGAAAGATTCCCTGCAACAAAATAATG-G
* *
43521261 TGAACAGGAAATATTCCCTGCAAGAAAA
1 TGAACAGGAAAGATTCCCTGCAACAAAA
43521289 GACAAGTGAA
Statistics
Matches: 200, Mismatches: 23, Indels: 15
0.84 0.10 0.06
Matches are distributed among these distances:
32 67 0.34
33 17 0.09
34 12 0.06
35 104 0.52
ACGTcount: A:0.41, C:0.17, G:0.23, T:0.19
Consensus pattern (34 bp):
TGAACAGGAAAGATTCCCTGCAACAAAATAATGG
Found at i:43521123 original size:67 final size:67
Alignment explanation
Indices: 43521015--43521288 Score: 329
Period size: 67 Copynumber: 4.0 Consensus size: 67
43521005 GTCCAAAAAG
* * * *
43521015 AAATAATACATGAACAGGAGAGATTCCCTGCAAGAAATGATGTGAACAGGAGAGATTCCCTGCAA
1 AAATAATGCGTGAACAGGAGAGATTCCCTGCAAGAAATAATGTGAACAGGAAAGATTCCCTGCAA
43521080 CA
66 CA
* * * *
43521082 AAATAATGCGTGAACATGAGAGATTCCCTGCAAGAAATGATGTGAATAGGAAAGATTCCCTACAA
1 AAATAATGCGTGAACAGGAGAGATTCCCTGCAAGAAATAATGTGAACAGGAAAGATTCCCTGCAA
43521147 CA
66 CA
* *
43521149 AAATAATGTGTGAACAGGAGAGATTCCCTGCAACAAAATAATGTGTGAACAGGAAAGATTCCCTG
1 AAATAATGCGTGAACAGGAGAGATTCCCTGCAA-GAAATAA--TGTGAACAGGAAAGATTCCCTG
*
43521214 CAA-G
63 CAACA
* * * *
43521218 AAATGAT--GTGAACAGGAAAGATTCCCTGCAACAGAATAATGCGTGAACAGGAAATATTCCCTG
1 AAATAATGCGTGAACAGGAGAGATTCCCTGCAAGA-AATAAT--GTGAACAGGAAAGATTCCCTG
*
43521281 CAAGA
63 CAACA
43521286 AAA
1 AAA
43521289 GACAAGTGAA
Statistics
Matches: 182, Mismatches: 18, Indels: 13
0.85 0.08 0.06
Matches are distributed among these distances:
65 1 0.01
66 1 0.01
67 143 0.79
68 8 0.04
69 6 0.03
70 23 0.13
ACGTcount: A:0.42, C:0.17, G:0.22, T:0.19
Consensus pattern (67 bp):
AAATAATGCGTGAACAGGAGAGATTCCCTGCAAGAAATAATGTGAACAGGAAAGATTCCCTGCAA
CA
Found at i:43521235 original size:102 final size:102
Alignment explanation
Indices: 43521025--43521288 Score: 390
Period size: 102 Copynumber: 2.6 Consensus size: 102
43521015 AAATAATACA
* * *
43521025 TGAACAGGAGAGATTCCCTGCAA-GAAATGA--TGTGAACAGGAGAGATTCCCTGCAACAAAATA
1 TGAACAGGAAAGATTCCCTGCAACAAAATAATGTGTGAACAGGAGAGATTCCCTGCAACAAAATA
* *
43521087 ATGCGTGAACATGAGAGATTCCCTGCAAGAAATGATG
66 ATGCGTGAACAGGAAAGATTCCCTGCAAGAAATGATG
* *
43521124 TGAATAGGAAAGATTCCCTACAACAAAATAATGTGTGAACAGGAGAGATTCCCTGCAACAAAATA
1 TGAACAGGAAAGATTCCCTGCAACAAAATAATGTGTGAACAGGAGAGATTCCCTGCAACAAAATA
*
43521189 ATGTGTGAACAGGAAAGATTCCCTGCAAGAAATGATG
66 ATGCGTGAACAGGAAAGATTCCCTGCAAGAAATGATG
* * * * *
43521226 TGAACAGGAAAGATTCCCTGCAACAGAATAATGCGTGAACAGGAAATATTCCCTGCAAGAAAA
1 TGAACAGGAAAGATTCCCTGCAACAAAATAATGTGTGAACAGGAGAGATTCCCTGCAACAAAA
43521289 GACAAGTGAA
Statistics
Matches: 147, Mismatches: 15, Indels: 3
0.89 0.09 0.02
Matches are distributed among these distances:
99 20 0.14
100 5 0.03
102 122 0.83
ACGTcount: A:0.41, C:0.17, G:0.23, T:0.19
Consensus pattern (102 bp):
TGAACAGGAAAGATTCCCTGCAACAAAATAATGTGTGAACAGGAGAGATTCCCTGCAACAAAATA
ATGCGTGAACAGGAAAGATTCCCTGCAAGAAATGATG
Found at i:43521536 original size:29 final size:29
Alignment explanation
Indices: 43521504--43521576 Score: 69
Period size: 29 Copynumber: 2.5 Consensus size: 29
43521494 TTCTCAAGAC
* *
43521504 ATTTAAGTTTTCAAAAATTTAGTTTTTAA
1 ATTTAAGTTTTCAAAAATTAAGTTTTCAA
*
43521533 ATTTCCAAATTTTC--AAATTAAGTTTTCAA
1 ATTT--AAGTTTTCAAAAATTAAGTTTTCAA
* *
43521562 ACTTAAGCTTTCAAA
1 ATTTAAGTTTTCAAA
43521577 TAACAAATAT
Statistics
Matches: 34, Mismatches: 6, Indels: 8
0.71 0.12 0.17
Matches are distributed among these distances:
27 6 0.18
29 21 0.62
31 7 0.21
ACGTcount: A:0.38, C:0.11, G:0.05, T:0.45
Consensus pattern (29 bp):
ATTTAAGTTTTCAAAAATTAAGTTTTCAA
Found at i:43521560 original size:13 final size:13
Alignment explanation
Indices: 43521542--43521577 Score: 54
Period size: 14 Copynumber: 2.7 Consensus size: 13
43521532 AATTTCCAAA
43521542 TTTTCAAATTAAG
1 TTTTCAAATTAAG
43521555 TTTTCAAACTTAAG
1 TTTTCAAA-TTAAG
*
43521569 CTTTCAAAT
1 TTTTCAAAT
43521578 AACAAATATA
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
13 9 0.43
14 12 0.57
ACGTcount: A:0.36, C:0.14, G:0.06, T:0.44
Consensus pattern (13 bp):
TTTTCAAATTAAG
Found at i:43521961 original size:7 final size:7
Alignment explanation
Indices: 43521941--43521984 Score: 63
Period size: 7 Copynumber: 6.3 Consensus size: 7
43521931 AAACACATGC
43521941 ATATCAT
1 ATATCAT
43521948 A-ATCAT
1 ATATCAT
43521954 ATATCAT
1 ATATCAT
*
43521961 ACATACAT
1 ATAT-CAT
43521969 ATATCAT
1 ATATCAT
43521976 ATATCAT
1 ATATCAT
43521983 AT
1 AT
43521985 GGCATACATA
Statistics
Matches: 33, Mismatches: 2, Indels: 4
0.85 0.05 0.10
Matches are distributed among these distances:
6 6 0.18
7 21 0.64
8 6 0.18
ACGTcount: A:0.45, C:0.16, G:0.00, T:0.39
Consensus pattern (7 bp):
ATATCAT
Found at i:43521974 original size:22 final size:22
Alignment explanation
Indices: 43521940--43521983 Score: 72
Period size: 22 Copynumber: 2.0 Consensus size: 22
43521930 AAAACACATG
43521940 CATATCATAATCATATATCATA
1 CATATCATAATCATATATCATA
43521962 CATA-CATATATCATATATCATA
1 CATATCATA-ATCATATATCATA
43521984 TGGCATACAT
Statistics
Matches: 21, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
21 4 0.19
22 17 0.81
ACGTcount: A:0.45, C:0.18, G:0.00, T:0.36
Consensus pattern (22 bp):
CATATCATAATCATATATCATA
Found at i:43521990 original size:29 final size:28
Alignment explanation
Indices: 43521941--43521996 Score: 85
Period size: 29 Copynumber: 2.0 Consensus size: 28
43521931 AAACACATGC
*
43521941 ATATCATAATCATATATCATACATACAT
1 ATATCATAATCATATAGCATACATACAT
*
43521969 ATATCATATATCATATGGCATACATACA
1 ATATCATA-ATCATATAGCATACATACA
43521997 CATGTACTTT
Statistics
Matches: 25, Mismatches: 2, Indels: 1
0.89 0.07 0.04
Matches are distributed among these distances:
28 8 0.32
29 17 0.68
ACGTcount: A:0.45, C:0.18, G:0.04, T:0.34
Consensus pattern (28 bp):
ATATCATAATCATATAGCATACATACAT
Found at i:43523354 original size:15 final size:16
Alignment explanation
Indices: 43523329--43523361 Score: 50
Period size: 15 Copynumber: 2.1 Consensus size: 16
43523319 ATCAAATTAT
*
43523329 TTAACAATTTACGAAA
1 TTAACAATTTAAGAAA
43523345 TTAA-AATTTAAGAAA
1 TTAACAATTTAAGAAA
43523360 TT
1 TT
43523362 TGGGGCATCA
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
15 12 0.75
16 4 0.25
ACGTcount: A:0.52, C:0.06, G:0.06, T:0.36
Consensus pattern (16 bp):
TTAACAATTTAAGAAA
Found at i:43525113 original size:43 final size:43
Alignment explanation
Indices: 43525052--43525137 Score: 154
Period size: 43 Copynumber: 2.0 Consensus size: 43
43525042 TGCTAGGAGT
43525052 ATGTTTCTTGGATTATTATGTAAAAGTCACAACATTACTCGTA
1 ATGTTTCTTGGATTATTATGTAAAAGTCACAACATTACTCGTA
* *
43525095 ATGTTTCTTGGATTATTATGTAATAGTCACTACATTACTCGTA
1 ATGTTTCTTGGATTATTATGTAAAAGTCACAACATTACTCGTA
43525138 GTGATTACAA
Statistics
Matches: 41, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
43 41 1.00
ACGTcount: A:0.30, C:0.14, G:0.14, T:0.42
Consensus pattern (43 bp):
ATGTTTCTTGGATTATTATGTAAAAGTCACAACATTACTCGTA
Found at i:43525934 original size:38 final size:39
Alignment explanation
Indices: 43525884--43525988 Score: 122
Period size: 39 Copynumber: 2.7 Consensus size: 39
43525874 TTATCGAAAT
* *
43525884 CATTGTTATAATTATTGTAATTATAATTTACGA-TCGAA
1 CATTATTATAATTATTGTAATTATAATTTACGAGTCAAA
* * * ***
43525922 TATTTTTATAATTATTGTAATTGTAATTTTTTAGTCAAA
1 CATTATTATAATTATTGTAATTATAATTTACGAGTCAAA
*
43525961 CATTATTATAATTATGGTAATTATAATT
1 CATTATTATAATTATTGTAATTATAATT
43525989 ATTATATTCG
Statistics
Matches: 55, Mismatches: 11, Indels: 1
0.82 0.16 0.01
Matches are distributed among these distances:
38 27 0.49
39 28 0.51
ACGTcount: A:0.36, C:0.05, G:0.09, T:0.50
Consensus pattern (39 bp):
CATTATTATAATTATTGTAATTATAATTTACGAGTCAAA
Found at i:43530528 original size:26 final size:26
Alignment explanation
Indices: 43530499--43530548 Score: 75
Period size: 26 Copynumber: 1.9 Consensus size: 26
43530489 TGATTAAGAT
43530499 AATAAAATAAGAAA-ATATGAAAAATA
1 AATAAAATAA-AAATATATGAAAAATA
*
43530525 AATAAAATAAAAATATATTAAAAA
1 AATAAAATAAAAATATATGAAAAA
43530549 ATACAAAAAC
Statistics
Matches: 22, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
25 3 0.14
26 19 0.86
ACGTcount: A:0.74, C:0.00, G:0.04, T:0.22
Consensus pattern (26 bp):
AATAAAATAAAAATATATGAAAAATA
Found at i:43531464 original size:23 final size:23
Alignment explanation
Indices: 43531426--43531477 Score: 77
Period size: 23 Copynumber: 2.3 Consensus size: 23
43531416 TAGATTTTTC
*
43531426 CTAAATACTATTACTAAATAATT
1 CTAAATACTATCACTAAATAATT
*
43531449 CTAAATATTATCACTAAATAATT
1 CTAAATACTATCACTAAATAATT
*
43531472 CAAAAT
1 CTAAAT
43531478 TTAAAAATCA
Statistics
Matches: 26, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
23 26 1.00
ACGTcount: A:0.50, C:0.13, G:0.00, T:0.37
Consensus pattern (23 bp):
CTAAATACTATCACTAAATAATT
Found at i:43535897 original size:27 final size:27
Alignment explanation
Indices: 43535874--43536058 Score: 210
Period size: 27 Copynumber: 6.9 Consensus size: 27
43535864 AGAGGTATAA
43535874 CAGTCATTTTACCCTATGGGGGTATTT
1 CAGTCATTTTACCCTATGGGGGTATTT
*
43535901 CAGTCATTTTACCCTATGAGGGTATTT
1 CAGTCATTTTACCCTATGGGGGTATTT
* * *
43535928 CAGTCATTTTATCCTATGAGGATATTT
1 CAGTCATTTTACCCTATGGGGGTATTT
* * * *
43535955 C-GATCATTTTGCCTTATGAGGCTATTT
1 CAG-TCATTTTACCCTATGGGGGTATTT
*
43535982 CGGTCATTTTACCCTATGGGGGTATTT
1 CAGTCATTTTACCCTATGGGGGTATTT
* * ** *
43536009 CGGTTATTTTACCCTAAAGAGGTATTT
1 CAGTCATTTTACCCTATGGGGGTATTT
**
43536036 TGGTCATTTTACCCTATGGGGGT
1 CAGTCATTTTACCCTATGGGGGT
43536059 CTCGGTGCAG
Statistics
Matches: 136, Mismatches: 20, Indels: 4
0.85 0.12 0.03
Matches are distributed among these distances:
26 1 0.01
27 134 0.99
28 1 0.01
ACGTcount: A:0.20, C:0.17, G:0.21, T:0.42
Consensus pattern (27 bp):
CAGTCATTTTACCCTATGGGGGTATTT
Found at i:43535962 original size:81 final size:81
Alignment explanation
Indices: 43535877--43536058 Score: 240
Period size: 81 Copynumber: 2.2 Consensus size: 81
43535867 GGTATAACAG
*
43535877 TCATTTTACCCTATGGGGGTATTTCAGTCATTTTACCCTATGAGGGTATTTCAGTCATTTTATCC
1 TCATTTTACCCTATGGGGGTATTTCAGTCATTTTACCCTATGAGGGTATTTCAGTCATTTTACCC
*
43535942 T-ATGAGGATATTTCGA
66 TAAAGAGG-TATTTCGA
* * * * * * * *
43535958 TCATTTTGCCTTATGAGGCTATTTCGGTCATTTTACCCTATGGGGGTATTTCGGTTATTTTACCC
1 TCATTTTACCCTATGGGGGTATTTCAGTCATTTTACCCTATGAGGGTATTTCAGTCATTTTACCC
* *
43536023 TAAAGAGGTATTTTGG
66 TAAAGAGGTATTTCGA
43536039 TCATTTTACCCTATGGGGGT
1 TCATTTTACCCTATGGGGGT
43536059 CTCGGTGCAG
Statistics
Matches: 84, Mismatches: 16, Indels: 2
0.82 0.16 0.02
Matches are distributed among these distances:
81 79 0.94
82 5 0.06
ACGTcount: A:0.20, C:0.17, G:0.21, T:0.42
Consensus pattern (81 bp):
TCATTTTACCCTATGGGGGTATTTCAGTCATTTTACCCTATGAGGGTATTTCAGTCATTTTACCC
TAAAGAGGTATTTCGA
Done.