Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: D11
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: 73211361
ACGTcount: A:0.33, C:0.16, G:0.16, T:0.33
Warning! 1690000 characters in sequence are not A, C, G, or T
File 101 of 240
Found at i:31509790 original size:26 final size:26
Alignment explanation
Indices: 31509754--31509806 Score: 79
Period size: 26 Copynumber: 2.0 Consensus size: 26
31509744 TTGAATGTAA
*
31509754 AGGGGTCGCTAAGTGCAGATTTCCTG
1 AGGGGTCGCTAAGTGCAGATTCCCTG
* *
31509780 AGGGGTTGCTAAGTGCTGATTCCCTG
1 AGGGGTCGCTAAGTGCAGATTCCCTG
31509806 A
1 A
31509807 ATTATTGATT
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:0.19, C:0.19, G:0.34, T:0.28
Consensus pattern (26 bp):
AGGGGTCGCTAAGTGCAGATTCCCTG
Found at i:31511213 original size:23 final size:23
Alignment explanation
Indices: 31511187--31511263 Score: 100
Period size: 23 Copynumber: 3.3 Consensus size: 23
31511177 CCAAGTAGAA
* * **
31511187 CCTTTGTGTCGTACTCCATTTGG
1 CCTTTGTGGCGTATTCTGTTTGG
* *
31511210 CCTTTGTGGCGTATTTTGTTTAG
1 CCTTTGTGGCGTATTCTGTTTGG
31511233 CCTTTGTGGCGTATTCTGTTTGG
1 CCTTTGTGGCGTATTCTGTTTGG
31511256 CCTTTGTG
1 CCTTTGTG
31511264 CCATAATATG
Statistics
Matches: 46, Mismatches: 8, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
23 46 1.00
ACGTcount: A:0.06, C:0.19, G:0.26, T:0.48
Consensus pattern (23 bp):
CCTTTGTGGCGTATTCTGTTTGG
Found at i:31511309 original size:24 final size:24
Alignment explanation
Indices: 31511232--31511310 Score: 70
Period size: 24 Copynumber: 3.3 Consensus size: 24
31511222 ATTTTGTTTA
* * *
31511232 GCCTTTGTGGCGTATTCTGTTTG-
1 GCCTTTGTGGCATAATCTGTATGT
* * *
31511255 GCCTTTGTGCCATAATATGTAAGT
1 GCCTTTGTGGCATAATCTGTATGT
** *
31511279 GTTTTTGTGGCATAATCTGCATGT
1 GCCTTTGTGGCATAATCTGTATGT
31511303 GCCTTTGT
1 GCCTTTGT
31511311 AGCGAATTCT
Statistics
Matches: 41, Mismatches: 14, Indels: 1
0.73 0.25 0.02
Matches are distributed among these distances:
23 17 0.41
24 24 0.59
ACGTcount: A:0.14, C:0.16, G:0.25, T:0.44
Consensus pattern (24 bp):
GCCTTTGTGGCATAATCTGTATGT
Found at i:31522320 original size:16 final size:16
Alignment explanation
Indices: 31522299--31522330 Score: 64
Period size: 16 Copynumber: 2.0 Consensus size: 16
31522289 GTGTAAAAAA
31522299 TAATAATAAGTAATAT
1 TAATAATAAGTAATAT
31522315 TAATAATAAGTAATAT
1 TAATAATAAGTAATAT
31522331 AAGGGCACTC
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 16 1.00
ACGTcount: A:0.56, C:0.00, G:0.06, T:0.38
Consensus pattern (16 bp):
TAATAATAAGTAATAT
Found at i:31525682 original size:40 final size:40
Alignment explanation
Indices: 31525622--31525844 Score: 374
Period size: 40 Copynumber: 5.6 Consensus size: 40
31525612 CAAGCTCAAT
* * * * *
31525622 TGCCTTCGGGTCTTAACCCGGGTATAGCAACTCGCACGAA
1 TGCCTTCGGGTCTTAGCCCGGATATATCAACTTGCACAAA
*
31525662 TGCCTTCGTGTCTTAGCCCGGATATATCAACTTGCACAAA
1 TGCCTTCGGGTCTTAGCCCGGATATATCAACTTGCACAAA
31525702 TGCCTTCGGGTCTTAGCCCGGATATATCAACTTGCACAAA
1 TGCCTTCGGGTCTTAGCCCGGATATATCAACTTGCACAAA
* *
31525742 TGCCTTCGGGTCTTAGCCCGTATATATCAACTCGCACAAA
1 TGCCTTCGGGTCTTAGCCCGGATATATCAACTTGCACAAA
31525782 TGCCTTCGGGTCTTAGCCCGGATATATCAACTTGCACAAA
1 TGCCTTCGGGTCTTAGCCCGGATATATCAACTTGCACAAA
31525822 TGCCTTCGGGTCTTAGCCCGGAT
1 TGCCTTCGGGTCTTAGCCCGGAT
31525845 GTATTCAAAT
Statistics
Matches: 172, Mismatches: 11, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
40 172 1.00
ACGTcount: A:0.23, C:0.29, G:0.21, T:0.27
Consensus pattern (40 bp):
TGCCTTCGGGTCTTAGCCCGGATATATCAACTTGCACAAA
Found at i:31534083 original size:40 final size:40
Alignment explanation
Indices: 31534023--31534205 Score: 312
Period size: 40 Copynumber: 4.6 Consensus size: 40
31534013 CAAGCTCAAT
* * * *
31534023 TGCCTTCGGGTCTTAACCCGGGTATAGCAACTCGCACGAA
1 TGCCTTCGGGTCTTAGCCCGGATATATCAACTCGCACAAA
*
31534063 TGCCTTCGGGTCTTAGCCCGGATATATCAACTTGCACAAA
1 TGCCTTCGGGTCTTAGCCCGGATATATCAACTCGCACAAA
31534103 TGCCTTCGGGTCTTAGCCCGGATATATCAACTCGCACAAA
1 TGCCTTCGGGTCTTAGCCCGGATATATCAACTCGCACAAA
*
31534143 TGCCTTCGGGTCTTAGCCCGGATATATCAACTTGCACAAA
1 TGCCTTCGGGTCTTAGCCCGGATATATCAACTCGCACAAA
31534183 TGCCTTCGGGTCTTAGCCCGGAT
1 TGCCTTCGGGTCTTAGCCCGGAT
31534206 GTATTCAAAT
Statistics
Matches: 136, Mismatches: 7, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
40 136 1.00
ACGTcount: A:0.22, C:0.29, G:0.22, T:0.26
Consensus pattern (40 bp):
TGCCTTCGGGTCTTAGCCCGGATATATCAACTCGCACAAA
Found at i:31551632 original size:20 final size:19
Alignment explanation
Indices: 31551604--31551645 Score: 57
Period size: 20 Copynumber: 2.2 Consensus size: 19
31551594 ACTTTATATA
31551604 ATTTAAAATAACGTAAACAT
1 ATTTAAAATAACGTAAA-AT
* *
31551624 ATTTCAAATAACTTAAAAT
1 ATTTAAAATAACGTAAAAT
31551643 ATT
1 ATT
31551646 ACTTGATAAA
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
19 5 0.25
20 15 0.75
ACGTcount: A:0.52, C:0.10, G:0.02, T:0.36
Consensus pattern (19 bp):
ATTTAAAATAACGTAAAAT
Found at i:31582464 original size:14 final size:14
Alignment explanation
Indices: 31582445--31582476 Score: 64
Period size: 14 Copynumber: 2.3 Consensus size: 14
31582435 ACCTTATTAT
31582445 AAAGATAAAGAAAC
1 AAAGATAAAGAAAC
31582459 AAAGATAAAGAAAC
1 AAAGATAAAGAAAC
31582473 AAAG
1 AAAG
31582477 GAAGAACTCA
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 18 1.00
ACGTcount: A:0.72, C:0.06, G:0.16, T:0.06
Consensus pattern (14 bp):
AAAGATAAAGAAAC
Found at i:31583359 original size:35 final size:37
Alignment explanation
Indices: 31583313--31583404 Score: 107
Period size: 35 Copynumber: 2.5 Consensus size: 37
31583303 CTTAACACTC
* *
31583313 AAAATAGGTGAATTATTCGCAAGTT-CCA-ATTATCT
1 AAAATAGGTGAATTATTCGCAAGTTGCCACAGTAGCT
* *
31583348 AAAATAGGTGAACTATTCGCATGTTAGGCCACCAGTAGCT
1 AAAATAGGTGAATTATTCGCAAGTT--GCCA-CAGTAGCT
31583388 AAAATAGGTGAATTATT
1 AAAATAGGTGAATTATT
31583405 AAGCTAAAAA
Statistics
Matches: 47, Mismatches: 5, Indels: 5
0.82 0.09 0.09
Matches are distributed among these distances:
35 23 0.49
38 3 0.06
40 21 0.45
ACGTcount: A:0.37, C:0.14, G:0.18, T:0.30
Consensus pattern (37 bp):
AAAATAGGTGAATTATTCGCAAGTTGCCACAGTAGCT
Found at i:31587129 original size:28 final size:27
Alignment explanation
Indices: 31587093--31587155 Score: 74
Period size: 28 Copynumber: 2.3 Consensus size: 27
31587083 AATATAAAAA
* * *
31587093 AATAAAAATCTA-AAATATATTTTTTAT
1 AATAAAAATATATAAATAGATATTTT-T
31587120 AATATAAAATATATAAATAGATATTTTT
1 AATA-AAAATATATAAATAGATATTTTT
31587148 AATAAAAA
1 AATAAAAA
31587156 ATTCAAGATT
Statistics
Matches: 31, Mismatches: 3, Indels: 4
0.82 0.08 0.11
Matches are distributed among these distances:
27 8 0.26
28 12 0.39
29 11 0.35
ACGTcount: A:0.57, C:0.02, G:0.02, T:0.40
Consensus pattern (27 bp):
AATAAAAATATATAAATAGATATTTTT
Found at i:31589847 original size:11 final size:11
Alignment explanation
Indices: 31589817--31589875 Score: 57
Period size: 11 Copynumber: 5.3 Consensus size: 11
31589807 AAACTAATCC
31589817 CCTCTCAATTAT
1 CCTCTCAATT-T
**
31589829 TTTCTCAATTT
1 CCTCTCAATTT
31589840 CCTCTCAATTT
1 CCTCTCAATTT
*
31589851 -GTCCTCAATTT
1 CCT-CTCAATTT
*
31589862 GCTCTCAATTT
1 CCTCTCAATTT
31589873 CCT
1 CCT
31589876 TCCAAATTTC
Statistics
Matches: 38, Mismatches: 7, Indels: 5
0.76 0.14 0.10
Matches are distributed among these distances:
10 1 0.03
11 28 0.74
12 9 0.24
ACGTcount: A:0.19, C:0.31, G:0.03, T:0.47
Consensus pattern (11 bp):
CCTCTCAATTT
Found at i:31589860 original size:22 final size:22
Alignment explanation
Indices: 31589817--31589872 Score: 76
Period size: 22 Copynumber: 2.5 Consensus size: 22
31589807 AAACTAATCC
* *
31589817 CCTCTCAATTATTTTCTCAATTT
1 CCTCTCAATT-TGTCCTCAATTT
31589840 CCTCTCAATTTGTCCTCAATTT
1 CCTCTCAATTTGTCCTCAATTT
*
31589862 GCTCTCAATTT
1 CCTCTCAATTT
31589873 CCTTCCAAAT
Statistics
Matches: 30, Mismatches: 3, Indels: 1
0.88 0.09 0.03
Matches are distributed among these distances:
22 20 0.67
23 10 0.33
ACGTcount: A:0.20, C:0.29, G:0.04, T:0.48
Consensus pattern (22 bp):
CCTCTCAATTTGTCCTCAATTT
Found at i:31591790 original size:7 final size:7
Alignment explanation
Indices: 31591770--31591809 Score: 57
Period size: 7 Copynumber: 5.9 Consensus size: 7
31591760 ATTTATTAAA
31591770 AATTTAT
1 AATTTAT
31591777 AAATTTAT
1 -AATTTAT
31591785 AATTTAT
1 AATTTAT
31591792 AA-TTA-
1 AATTTAT
31591797 AATTTAT
1 AATTTAT
31591804 AATTTA
1 AATTTA
31591810 ATTGACAAAC
Statistics
Matches: 30, Mismatches: 0, Indels: 5
0.86 0.00 0.14
Matches are distributed among these distances:
5 2 0.07
6 6 0.20
7 15 0.50
8 7 0.23
ACGTcount: A:0.47, C:0.00, G:0.00, T:0.53
Consensus pattern (7 bp):
AATTTAT
Found at i:31591867 original size:22 final size:22
Alignment explanation
Indices: 31591841--31591947 Score: 132
Period size: 21 Copynumber: 5.0 Consensus size: 22
31591831 CCCTAACCCT
*
31591841 AACCCTAAACCTTTAACTTAAA
1 AACCCTAAACCCTTAACTTAAA
*
31591863 AACCCTAAACCCTTAACTTAAT
1 AACCCTAAACCCTTAACTTAAA
31591885 AACCCT-AACCCTTAACTTAAA
1 AACCCTAAACCCTTAACTTAAA
* *
31591906 AACCTTAAA-TCTTAACTT-AA
1 AACCCTAAACCCTTAACTTAAA
31591926 AACCCTAAAACCC-TAATCTTAA
1 AACCCT-AAACCCTTAA-CTTAA
31591948 CAAAAACCCT
Statistics
Matches: 73, Mismatches: 7, Indels: 9
0.82 0.08 0.10
Matches are distributed among these distances:
20 7 0.10
21 33 0.45
22 32 0.44
23 1 0.01
ACGTcount: A:0.44, C:0.29, G:0.00, T:0.27
Consensus pattern (22 bp):
AACCCTAAACCCTTAACTTAAA
Found at i:31591938 original size:43 final size:44
Alignment explanation
Indices: 31591840--31591947 Score: 143
Period size: 43 Copynumber: 2.5 Consensus size: 44
31591830 ACCCTAACCC
*
31591840 TAACCCTAAACCTTTAACTTAAAAACCCTAAACCCTTAACTTAA
1 TAACCCTAAACCCTTAACTTAAAAACCCTAAACCCTTAACTTAA
* *
31591884 TAACCCT-AACCCTTAACTTAAAAACCTTAAA-TCTTAACTTAA
1 TAACCCTAAACCCTTAACTTAAAAACCCTAAACCCTTAACTTAA
31591926 -AACCCTAAAACCC-TAATCTTAA
1 TAACCCT-AAACCCTTAA-CTTAA
31591948 CAAAAACCCT
Statistics
Matches: 58, Mismatches: 3, Indels: 7
0.85 0.04 0.10
Matches are distributed among these distances:
41 6 0.10
42 13 0.22
43 32 0.55
44 7 0.12
ACGTcount: A:0.44, C:0.29, G:0.00, T:0.28
Consensus pattern (44 bp):
TAACCCTAAACCCTTAACTTAAAAACCCTAAACCCTTAACTTAA
Found at i:31591972 original size:24 final size:25
Alignment explanation
Indices: 31591924--31591972 Score: 64
Period size: 24 Copynumber: 2.0 Consensus size: 25
31591914 ATCTTAACTT
* *
31591924 AAAACCCTAAAACCCTAATCTTAACA
1 AAAACCCT-AAACCCTAAACCTAACA
31591950 AAAACCCT-AACCCTAAACCTAAC
1 AAAACCCTAAACCCTAAACCTAAC
31591973 CCTAATATGA
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
24 13 0.62
26 8 0.38
ACGTcount: A:0.49, C:0.35, G:0.00, T:0.16
Consensus pattern (25 bp):
AAAACCCTAAACCCTAAACCTAACA
Found at i:31595417 original size:125 final size:125
Alignment explanation
Indices: 31595086--31595524 Score: 681
Period size: 125 Copynumber: 3.5 Consensus size: 125
31595076 CCCAAACATG
* * *
31595086 CTACTATAGCAAAAGCGCGTCCACGA-GGGCGCGATTTCAAAAATTCTTCTGAAAAAGCATCCTG
1 CTACTGTAGCAAAAGCGCGTCCAC-ATGGGCGCGATTTCAGAAATTCTTCTGATAAAGCATCCTG
* * *
31595150 CTTGAAGCATTTTTTATACTATTCACTCAGAAACGTCAACTCGAAATTATTTTTTTAGGAC
65 CTTGAAGCGTTTTTTATACTATTCGCTCAGAAACGTCAACTCGAAATTATTTTTTCAGGAC
*
31595211 CTACTGTAGCAAAAGCGCGT-C-CATGTG-GCGATTTCAGAAATTCTTCTGATAAAGCATCCTGC
1 CTACTGTAGCAAAAGCGCGTCCACATGGGCGCGATTTCAGAAATTCTTCTGATAAAGCATCCTGC
* *
31595273 TTGAAGCGTTTTTTATACTATTCGCTCAGAAGCGACAACTCGAAATTATTTTTTCAGGAC
66 TTGAAGCGTTTTTTATACTATTCGCTCAGAAACGTCAACTCGAAATTATTTTTTCAGGAC
* *
31595333 CTATTGTAGCAAAAGCGCGTCCACATGGGCGTGATTTCAGAAATTCTTCTGATAAAGCATCCTGC
1 CTACTGTAGCAAAAGCGCGTCCACATGGGCGCGATTTCAGAAATTCTTCTGATAAAGCATCCTGC
*
31595398 TTGAAGCGTTTTTTATACTATTTGCTCAGAAACGTCAACTCGAAATTA-TTTTTCAGGAC
66 TTGAAGCGTTTTTTATACTATTCGCTCAGAAACGTCAACTCGAAATTATTTTTTCAGGAC
* * * *
31595457 CAACTGTAGCAAAAGCGCGTCCACGTGGGCGCGATTTTAGAAATTCTTCTGATACAAGCTTCCTG
1 CTACTGTAGCAAAAGCGCGTCCACATGGGCGCGATTTCAGAAATTCTTCTGATA-AAGCATCCTG
31595522 CTT
65 CTT
31595525 TGATTTTATC
Statistics
Matches: 288, Mismatches: 21, Indels: 10
0.90 0.07 0.03
Matches are distributed among these distances:
122 108 0.38
123 4 0.01
124 66 0.23
125 110 0.38
ACGTcount: A:0.29, C:0.22, G:0.18, T:0.31
Consensus pattern (125 bp):
CTACTGTAGCAAAAGCGCGTCCACATGGGCGCGATTTCAGAAATTCTTCTGATAAAGCATCCTGC
TTGAAGCGTTTTTTATACTATTCGCTCAGAAACGTCAACTCGAAATTATTTTTTCAGGAC
Found at i:31595697 original size:21 final size:22
Alignment explanation
Indices: 31595659--31595699 Score: 57
Period size: 21 Copynumber: 1.9 Consensus size: 22
31595649 CTAAATATCT
* *
31595659 TAAAAACCTTAAACCCTAACCC
1 TAAAAACCTCAAAACCTAACCC
31595681 TAAAAACC-CAAAACCTAAC
1 TAAAAACCTCAAAACCTAAC
31595700 GTGGGAGAAA
Statistics
Matches: 17, Mismatches: 2, Indels: 1
0.85 0.10 0.05
Matches are distributed among these distances:
21 9 0.53
22 8 0.47
ACGTcount: A:0.51, C:0.34, G:0.00, T:0.15
Consensus pattern (22 bp):
TAAAAACCTCAAAACCTAACCC
Found at i:31599124 original size:14 final size:13
Alignment explanation
Indices: 31599105--31599144 Score: 53
Period size: 14 Copynumber: 2.9 Consensus size: 13
31599095 GAGCATTCTC
*
31599105 TTTATTTCCTTCAT
1 TTTATTTCATT-AT
31599119 TTTATTTCATTAT
1 TTTATTTCATTAT
31599132 TTATATTTCATTA
1 TT-TATTTCATTA
31599145 ACTTGATTAA
Statistics
Matches: 24, Mismatches: 1, Indels: 2
0.89 0.04 0.07
Matches are distributed among these distances:
13 4 0.17
14 20 0.83
ACGTcount: A:0.23, C:0.12, G:0.00, T:0.65
Consensus pattern (13 bp):
TTTATTTCATTAT
Found at i:31601287 original size:15 final size:16
Alignment explanation
Indices: 31601262--31601305 Score: 74
Period size: 15 Copynumber: 2.9 Consensus size: 16
31601252 TCTCTTTTGA
31601262 ATTTAGTTTATTTTTC
1 ATTTAGTTTATTTTTC
31601278 ATTT-GTTTA-TTTTC
1 ATTTAGTTTATTTTTC
31601292 ATTTAGTTTATTTT
1 ATTTAGTTTATTTT
31601306 AAGTCCTTAA
Statistics
Matches: 26, Mismatches: 0, Indels: 4
0.87 0.00 0.13
Matches are distributed among these distances:
14 9 0.35
15 10 0.38
16 7 0.27
ACGTcount: A:0.18, C:0.05, G:0.07, T:0.70
Consensus pattern (16 bp):
ATTTAGTTTATTTTTC
Found at i:31603425 original size:25 final size:25
Alignment explanation
Indices: 31603397--31603447 Score: 102
Period size: 25 Copynumber: 2.0 Consensus size: 25
31603387 TTATTTTCAA
31603397 TCAATTTATGATTTTATATTTCATT
1 TCAATTTATGATTTTATATTTCATT
31603422 TCAATTTATGATTTTATATTTCATT
1 TCAATTTATGATTTTATATTTCATT
31603447 T
1 T
31603448 TCAGTACTTA
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
25 26 1.00
ACGTcount: A:0.27, C:0.08, G:0.04, T:0.61
Consensus pattern (25 bp):
TCAATTTATGATTTTATATTTCATT
Found at i:31605049 original size:34 final size:34
Alignment explanation
Indices: 31605003--31605068 Score: 123
Period size: 34 Copynumber: 1.9 Consensus size: 34
31604993 CTCAAAAGAC
31605003 GTTGCACAAGTACGCCTTACCTACATTAGATGTA
1 GTTGCACAAGTACGCCTTACCTACATTAGATGTA
*
31605037 GTTGCACGAGTACGCCTTACCTACATTAGATG
1 GTTGCACAAGTACGCCTTACCTACATTAGATG
31605069 CAGTGTAAGG
Statistics
Matches: 31, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
34 31 1.00
ACGTcount: A:0.27, C:0.24, G:0.20, T:0.29
Consensus pattern (34 bp):
GTTGCACAAGTACGCCTTACCTACATTAGATGTA
Found at i:31614125 original size:16 final size:17
Alignment explanation
Indices: 31614104--31614136 Score: 50
Period size: 16 Copynumber: 2.0 Consensus size: 17
31614094 AATAAATATC
*
31614104 AAAATAATAAAA-ATAA
1 AAAATAAGAAAACATAA
31614120 AAAATAAGAAAACATAA
1 AAAATAAGAAAACATAA
31614137 TTTTCTTCTT
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
16 11 0.73
17 4 0.27
ACGTcount: A:0.79, C:0.03, G:0.03, T:0.15
Consensus pattern (17 bp):
AAAATAAGAAAACATAA
Found at i:31614705 original size:14 final size:14
Alignment explanation
Indices: 31614686--31614713 Score: 56
Period size: 14 Copynumber: 2.0 Consensus size: 14
31614676 TTGAATAAAA
31614686 TTATTAATTTAGAT
1 TTATTAATTTAGAT
31614700 TTATTAATTTAGAT
1 TTATTAATTTAGAT
31614714 CAAGATATAG
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 14 1.00
ACGTcount: A:0.36, C:0.00, G:0.07, T:0.57
Consensus pattern (14 bp):
TTATTAATTTAGAT
Found at i:31616723 original size:23 final size:23
Alignment explanation
Indices: 31616680--31616726 Score: 60
Period size: 23 Copynumber: 2.0 Consensus size: 23
31616670 TTTAAAGTGT
*
31616680 AAATGAAAACATAAATCAATAAA
1 AAATGAAAACATAAAACAATAAA
*
31616703 AAATGAAAA-ATATAAAGAATAAA
1 AAATGAAAACATA-AAACAATAAA
31616726 A
1 A
31616727 GGTACATAAT
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
22 3 0.14
23 18 0.86
ACGTcount: A:0.72, C:0.04, G:0.06, T:0.17
Consensus pattern (23 bp):
AAATGAAAACATAAAACAATAAA
Found at i:31617180 original size:14 final size:14
Alignment explanation
Indices: 31617160--31617192 Score: 57
Period size: 14 Copynumber: 2.3 Consensus size: 14
31617150 GCGCATGAAT
31617160 ATAAAAAAACTAATA
1 ATAAAAAAA-TAATA
31617175 ATAAAAAAATAATA
1 ATAAAAAAATAATA
31617189 ATAA
1 ATAA
31617193 TGATACAAGA
Statistics
Matches: 18, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
14 9 0.50
15 9 0.50
ACGTcount: A:0.76, C:0.03, G:0.00, T:0.21
Consensus pattern (14 bp):
ATAAAAAAATAATA
Found at i:31617702 original size:22 final size:23
Alignment explanation
Indices: 31617660--31617704 Score: 74
Period size: 23 Copynumber: 2.0 Consensus size: 23
31617650 AAATTAAAAC
31617660 TCTAAGATTACAAAATCATATCT
1 TCTAAGATTACAAAATCATATCT
*
31617683 TCTAAGATTAC-ATATCATATCT
1 TCTAAGATTACAAAATCATATCT
31617705 AAGATTGCAT
Statistics
Matches: 21, Mismatches: 1, Indels: 1
0.91 0.04 0.04
Matches are distributed among these distances:
22 10 0.48
23 11 0.52
ACGTcount: A:0.40, C:0.18, G:0.04, T:0.38
Consensus pattern (23 bp):
TCTAAGATTACAAAATCATATCT
Found at i:31617707 original size:19 final size:20
Alignment explanation
Indices: 31617660--31617717 Score: 64
Period size: 19 Copynumber: 2.8 Consensus size: 20
31617650 AAATTAAAAC
*
31617660 TCTAAGATTACAAAATCATATCT
1 TCTAAGATTAC-ATATCATA--T
31617683 TCTAAGATTACATATCATA-
1 TCTAAGATTACATATCATAT
*
31617702 TCTAAGATTGCATATC
1 TCTAAGATTACATATC
31617718 CTTGAAGATT
Statistics
Matches: 33, Mismatches: 2, Indels: 4
0.85 0.05 0.10
Matches are distributed among these distances:
19 15 0.45
22 7 0.21
23 11 0.33
ACGTcount: A:0.40, C:0.17, G:0.07, T:0.36
Consensus pattern (20 bp):
TCTAAGATTACATATCATAT
Found at i:31618433 original size:44 final size:44
Alignment explanation
Indices: 31618331--31618708 Score: 282
Period size: 44 Copynumber: 8.7 Consensus size: 44
31618321 CTTTCTTGAG
* * *
31618331 TCTGCTCCACTGCAACTTCAGGGAGATAAGACCCGAT-G---TGA
1 TCTGCTCCACTGCAACTTCAGGGAGATAAGATCTG-TGGTTTTAA
* * *
31618372 TCTACTCTACTGCAACTTCAGAGAGATAAGATCTGTGGTTTTAA
1 TCTGCTCCACTGCAACTTCAGGGAGATAAGATCTGTGGTTTTAA
* * * *
31618416 TCCGCTCCACTGCAACTTCAGGGAGATAGGAT-TATTGGCTTTAA
1 TCTGCTCCACTGCAACTTCAGGGAGATAAGATCT-GTGGTTTTAA
*** * *
31618460 TCTGCTCCACTGCAACTTCAGGGAGATAAGAT-TCGCCATCTTCAG
1 TCTGCTCCACTGCAACTTCAGGGAGATAAGATCT-GTGGT-TTTAA
* *
31618505 TCTGC-CTCACTGCAACTTCA-GGAGGATAAGA-CT-TGCTTACTTAG
1 TCTGCTC-CACTGCAACTTCAGGGA-GATAAGATCTGTGGTT--TTAA
* * * ***
31618549 TCTGCTCCACTGCAACTTCAGAGAGATAAGA-C--TAGATGCGA
1 TCTGCTCCACTGCAACTTCAGGGAGATAAGATCTGTGGTTTTAA
* * * *
31618590 TCTGCTCTA-TGCAACTTCAGAGAGATAAAATCTGTGATTTTAA
1 TCTGCTCCACTGCAACTTCAGGGAGATAAGATCTGTGGTTTTAA
* * *
31618633 TCTGCTCCACTGCAACTTCAGGGAGATAGGAT-TATTGGCTTTAA
1 TCTGCTCCACTGCAACTTCAGGGAGATAAGATCT-GTGGTTTTAA
* *
31618677 TCTACTCCATTGCAACTTCAGGGAGATAAGAT
1 TCTGCTCCACTGCAACTTCAGGGAGATAAGAT
31618709 TCTCCATCTT
Statistics
Matches: 266, Mismatches: 53, Indels: 33
0.76 0.15 0.09
Matches are distributed among these distances:
40 21 0.08
41 40 0.15
42 1 0.00
43 16 0.06
44 156 0.59
45 32 0.12
ACGTcount: A:0.28, C:0.23, G:0.21, T:0.29
Consensus pattern (44 bp):
TCTGCTCCACTGCAACTTCAGGGAGATAAGATCTGTGGTTTTAA
Found at i:31618524 original size:45 final size:44
Alignment explanation
Indices: 31618246--31618707 Score: 237
Period size: 44 Copynumber: 10.6 Consensus size: 44
31618236 CTCTAATCCA
* * * * * ** *
31618246 CTCCACTACAACTTTAGGGAGACAGGATTTGTTTATTTAGTCTG
1 CTCCACTGCAACTTCAGGGAGATAAGACTTGCATACTTAGTCTG
* * * * * * *
31618290 CCCCACTGTAATTTCAGGGGGATAAGACCTGCTTTCTTGAGTCTG
1 CTCCACTGCAACTTCAGGGAGATAAGACTTGCATACTT-AGTCTG
** * * *
31618335 CTCCACTGCAACTTCAGGGAGATAAGACCCG-AT-GTGA-TCTA
1 CTCCACTGCAACTTCAGGGAGATAAGACTTGCATACTTAGTCTG
* * * * * *
31618376 CTCTACTGCAACTTCAGAGAGATAAGATCTGTG-GT-TTTAATCCG
1 CTCCACTGCAACTTCAGGGAGATAAGA-CT-TGCATACTTAGTCTG
* * *
31618420 CTCCACTGCAACTTCAGGGAGATAGGA-TT--ATTGGCTTTAATCTG
1 CTCCACTGCAACTTCAGGGAGATAAGACTTGCA-T-AC-TTAGTCTG
31618464 CTCCACTGCAACTTCAGGGAGATAAGA-TTCGCCAT-CTTCAGTCTG
1 CTCCACTGCAACTTCAGGGAGATAAGACTT-G-CATACTT-AGTCTG
*
31618509 C-CTCACTGCAACTTCA-GGAGGATAAGACTTGCTTACTTAGTCTG
1 CTC-CACTGCAACTTCAGGGA-GATAAGACTTGCATACTTAGTCTG
* * * *
31618553 CTCCACTGCAACTTCAGAGAGATAAGACTAG-ATGC-GA-TCTG
1 CTCCACTGCAACTTCAGGGAGATAAGACTTGCATACTTAGTCTG
* * * * *
31618594 CTCTA-TGCAACTTCAGAGAGATAAAATCTGTG-AT-TTTAATCTG
1 CTCCACTGCAACTTCAGGGAGATAAGA-CT-TGCATACTTAGTCTG
* * * *
31618637 CTCCACTGCAACTTCAGGGAGATAGGA-TT--ATTGGCTTTAATCTA
1 CTCCACTGCAACTTCAGGGAGATAAGACTTGCA-T-AC-TTAGTCTG
*
31618681 CTCCATTGCAACTTCAGGGAGATAAGA
1 CTCCACTGCAACTTCAGGGAGATAAGA
31618708 TTCTCCATCT
Statistics
Matches: 332, Mismatches: 58, Indels: 56
0.74 0.13 0.13
Matches are distributed among these distances:
40 21 0.06
41 42 0.13
42 9 0.03
43 15 0.05
44 175 0.53
45 66 0.20
46 2 0.01
47 1 0.00
48 1 0.00
ACGTcount: A:0.27, C:0.23, G:0.21, T:0.29
Consensus pattern (44 bp):
CTCCACTGCAACTTCAGGGAGATAAGACTTGCATACTTAGTCTG
Found at i:31618558 original size:133 final size:129
Alignment explanation
Indices: 31618331--31618576 Score: 313
Period size: 133 Copynumber: 1.9 Consensus size: 129
31618321 CTTTCTTGAG
*
31618331 TCTGCTCCACTGCAACTTCAGGGAGATAAGACCCGATGTGATCTACTCTACTGCAACTTCAGAGA
1 TCTGCTCCACTGCAACTTCAGGGAGATAAGACCCGATGTCATCTACTCTACTGCAACTTCAGAGA
* *
31618396 GATAAGATCTGTGGTTTTAATCCGCTCCACTGCAACTTCAGGGAGATAGGATTATTGGCTTTAA
66 GATAAGATCTGTGCTTTTAATCCGCTCCACTGCAACTTCAGAGAGATAGGATTATTGGCTTTAA
* *
31618460 TCTGCTCCACTGCAACTTCAGGGAGATAAGATTCGCC-ATCTTCAGTCTGC-CTCACTGCAACTT
1 TCTGCTCCACTGCAACTTCAGGGAGATAAGA--C-CCGAT-GTCA-TCTACTCT-ACTGCAACTT
* *
31618523 CAG-GAGGATAAGA-CT-TGCTTACTTAGTCTGCTCCACTGCAACTTCAGAGAGATA
60 CAGAGA-GATAAGATCTGTGCTT--TTAATCCGCTCCACTGCAACTTCAGAGAGATA
31618577 AGACTAGATG
Statistics
Matches: 101, Mismatches: 7, Indels: 14
0.83 0.06 0.11
Matches are distributed among these distances:
129 31 0.31
131 7 0.07
132 10 0.10
133 53 0.52
ACGTcount: A:0.26, C:0.25, G:0.21, T:0.28
Consensus pattern (129 bp):
TCTGCTCCACTGCAACTTCAGGGAGATAAGACCCGATGTCATCTACTCTACTGCAACTTCAGAGA
GATAAGATCTGTGCTTTTAATCCGCTCCACTGCAACTTCAGAGAGATAGGATTATTGGCTTTAA
Found at i:31618646 original size:84 final size:85
Alignment explanation
Indices: 31618455--31618660 Score: 226
Period size: 84 Copynumber: 2.4 Consensus size: 85
31618445 GATTATTGGC
* *
31618455 TTTAATCTGCTCCACTGCAACTTCAGGGAGATAAGATTCGCCATCTTCAGTCTGCCTCACTGCAA
1 TTTAATCTGCTCCACTGCAACTTCAGGGAGATAAGACTAG-CATC-TCAGTCTGCCTCACTGCAA
* *
31618520 CTTCAGGAGGATAAGACTTGCT
64 CTTCAGGAGGATAAAACTTGAT
* * *
31618542 TACTTAGTCTGCTCCACTGCAACTTCAGAGAGATAAGACTAG-AT-GC-GATCTG-CTCTA-TGC
1 T--TTAATCTGCTCCACTGCAACTTCAGGGAGATAAGACTAGCATCTCAG-TCTGCCTC-ACTGC
31618602 AACTTCA-GAGAGATAAAATCTGTGAT
62 AACTTCAGGAG-GATAAAA-CT-TGAT
31618628 TTTAATCTGCTCCACTGCAACTTCAGGGAGATA
1 TTTAATCTGCTCCACTGCAACTTCAGGGAGATA
31618661 GGATTATTGG
Statistics
Matches: 103, Mismatches: 9, Indels: 17
0.80 0.07 0.13
Matches are distributed among these distances:
83 3 0.03
84 50 0.49
85 8 0.08
86 4 0.04
87 3 0.03
89 35 0.34
ACGTcount: A:0.28, C:0.24, G:0.19, T:0.29
Consensus pattern (85 bp):
TTTAATCTGCTCCACTGCAACTTCAGGGAGATAAGACTAGCATCTCAGTCTGCCTCACTGCAACT
TCAGGAGGATAAAACTTGAT
Found at i:31618648 original size:217 final size:219
Alignment explanation
Indices: 31618284--31618724 Score: 715
Period size: 217 Copynumber: 2.0 Consensus size: 219
31618274 TTGTTTATTT
* * * *
31618284 AGTCTGCCCCACTGTAATTTCAGGGGGATAAGACCTGCTTTCTTGAGTCTGCTCCACTGCAACTT
1 AGTCTGCCCCACTGCAACTTCAGGAGGATAAGACCTGCTTACTTGAGTCTGCTCCACTGCAACTT
* * * * *
31618349 CAGGGAGATAAGACCCGATGTGATCTACTCTACTGCAACTTCAGAGAGATAAGATCTGTGGTTTT
66 CAGAGAGATAAGACCAGATGCGATCTACTCTACTGCAACTTCAGAGAGATAAAATCTGTGATTTT
*
31618414 AATCCGCTCCACTGCAACTTCAGGGAGATAGGATTATTGGCTTTAATCTGCTCCACTGCAACTTC
131 AATCCGCTCCACTGCAACTTCAGGGAGATAGGATTATTGGCTTTAATCTACTCCACTGCAACTTC
31618479 AGGGAGATAAGATTCGCCATCTTC
196 AGGGAGATAAGATTCGCCATCTTC
* *
31618503 AGTCTGCCTCACTGCAACTTCAGGAGGATAAGACTTGCTTACTT-AGTCTGCTCCACTGCAACTT
1 AGTCTGCCCCACTGCAACTTCAGGAGGATAAGACCTGCTTACTTGAGTCTGCTCCACTGCAACTT
* *
31618567 CAGAGAGATAAGACTAGATGCGATCTGCTCTA-TGCAACTTCAGAGAGATAAAATCTGTGATTTT
66 CAGAGAGATAAGACCAGATGCGATCTACTCTACTGCAACTTCAGAGAGATAAAATCTGTGATTTT
* *
31618631 AATCTGCTCCACTGCAACTTCAGGGAGATAGGATTATTGGCTTTAATCTACTCCATTGCAACTTC
131 AATCCGCTCCACTGCAACTTCAGGGAGATAGGATTATTGGCTTTAATCTACTCCACTGCAACTTC
*
31618696 AGGGAGATAAGATTCTCCATCTTC
196 AGGGAGATAAGATTCGCCATCTTC
31618720 AGTCT
1 AGTCT
31618725 TTTAAATTGC
Statistics
Matches: 205, Mismatches: 17, Indels: 2
0.92 0.08 0.01
Matches are distributed among these distances:
217 120 0.59
218 47 0.23
219 38 0.19
ACGTcount: A:0.27, C:0.23, G:0.21, T:0.29
Consensus pattern (219 bp):
AGTCTGCCCCACTGCAACTTCAGGAGGATAAGACCTGCTTACTTGAGTCTGCTCCACTGCAACTT
CAGAGAGATAAGACCAGATGCGATCTACTCTACTGCAACTTCAGAGAGATAAAATCTGTGATTTT
AATCCGCTCCACTGCAACTTCAGGGAGATAGGATTATTGGCTTTAATCTACTCCACTGCAACTTC
AGGGAGATAAGATTCGCCATCTTC
Found at i:31618796 original size:50 final size:50
Alignment explanation
Indices: 31618742--31618924 Score: 150
Period size: 50 Copynumber: 3.7 Consensus size: 50
31618732 TGCAATGTTG
31618742 GGGAAACAAGATTCGCCGTCGTAGCTTCAATCTGTTCCACTACACCGCCA
1 GGGAAACAAGATTCGCCGTCGTAGCTTCAATCTGTTCCACTACACCGCCA
** * * ** * ** * * ** ***
31618792 GGGAAGTAAGATTCGTCGTTGCGGCTTCAATCTTTTTAATTGCAATGTTG
1 GGGAAACAAGATTCGCCGTCGTAGCTTCAATCTGTTCCACTACACCGCCA
* *
31618842 GGGAAACAAGATTTGCTGTCGTAGCTTCAATCTGTTCCACTACACCGCCA
1 GGGAAACAAGATTCGCCGTCGTAGCTTCAATCTGTTCCACTACACCGCCA
* ** * * *
31618892 GGGGAGTAAGATTCGCTGTTGTGGCTTCAATCT
1 GGGAAACAAGATTCGCCGTCGTAGCTTCAATCT
31618925 TTTTAATTGC
Statistics
Matches: 93, Mismatches: 40, Indels: 0
0.70 0.30 0.00
Matches are distributed among these distances:
50 93 1.00
ACGTcount: A:0.23, C:0.23, G:0.24, T:0.30
Consensus pattern (50 bp):
GGGAAACAAGATTCGCCGTCGTAGCTTCAATCTGTTCCACTACACCGCCA
Found at i:31618843 original size:100 final size:100
Alignment explanation
Indices: 31618716--31618938 Score: 376
Period size: 100 Copynumber: 2.2 Consensus size: 100
31618706 GATTCTCCAT
* *
31618716 CTTCAGTCTTTTAAATTGCAATGTTGGGGAAACAAGATTCGCCGTCGTAGCTTCAATCTGTTCCA
1 CTTCAATCTTTTTAATTGCAATGTTGGGGAAACAAGATTCGCCGTCGTAGCTTCAATCTGTTCCA
31618781 CTACACCGCCAGGGAAGTAAGATTCG-TCGTTGCGG
66 CTACACCGCCAGGGAAGTAAGATTCGCT-GTTGCGG
* *
31618816 CTTCAATCTTTTTAATTGCAATGTTGGGGAAACAAGATTTGCTGTCGTAGCTTCAATCTGTTCCA
1 CTTCAATCTTTTTAATTGCAATGTTGGGGAAACAAGATTCGCCGTCGTAGCTTCAATCTGTTCCA
* *
31618881 CTACACCGCCAGGGGAGTAAGATTCGCTGTTGTGG
66 CTACACCGCCAGGGAAGTAAGATTCGCTGTTGCGG
31618916 CTTCAATCTTTTTAATTGCAATG
1 CTTCAATCTTTTTAATTGCAATG
31618939 AAGATTCACC
Statistics
Matches: 116, Mismatches: 6, Indels: 2
0.94 0.05 0.02
Matches are distributed among these distances:
100 115 0.99
101 1 0.01
ACGTcount: A:0.24, C:0.21, G:0.22, T:0.33
Consensus pattern (100 bp):
CTTCAATCTTTTTAATTGCAATGTTGGGGAAACAAGATTCGCCGTCGTAGCTTCAATCTGTTCCA
CTACACCGCCAGGGAAGTAAGATTCGCTGTTGCGG
Found at i:31618954 original size:40 final size:40
Alignment explanation
Indices: 31618899--31618978 Score: 142
Period size: 40 Copynumber: 2.0 Consensus size: 40
31618889 CCAGGGGAGT
* *
31618899 AAGATTCGCTGTTGTGGCTTCAATCTTTTTAATTGCAATG
1 AAGATTCACCGTTGTGGCTTCAATCTTTTTAATTGCAATG
31618939 AAGATTCACCGTTGTGGCTTCAATCTTTTTAATTGCAATG
1 AAGATTCACCGTTGTGGCTTCAATCTTTTTAATTGCAATG
31618979 TTAGAGAAAC
Statistics
Matches: 38, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
40 38 1.00
ACGTcount: A:0.24, C:0.16, G:0.19, T:0.41
Consensus pattern (40 bp):
AAGATTCACCGTTGTGGCTTCAATCTTTTTAATTGCAATG
Found at i:31619058 original size:140 final size:140
Alignment explanation
Indices: 31618799--31619078 Score: 461
Period size: 140 Copynumber: 2.0 Consensus size: 140
31618789 CCAGGGAAGT
** * * * *
31618799 AAGATTCGTCGTTGCGGCTTCAATCTTTTTAATTGCAATGTTGGGGAAACAAGATTTGCTGTCGT
1 AAGATTCACCGTTGCGGCTTCAATCTTTTTAATTGCAATGTTAGAGAAACAAGATTAGCCGTCGT
** *
31618864 AGCTTCAATCTGTTCCACTACACCGCCAGGGGAGTAAGATTCGCTGTTGTGGCTTCAATCTTTTT
66 AGCTTCAATCTGTTCCACTACACCGCCAGGGGAGTAAGATTCGCCATTGCGGCTTCAATCTTTTT
31618929 AATTGCAATG
131 AATTGCAATG
*
31618939 AAGATTCACCGTTGTGGCTTCAATCTTTTTAATTGCAATGTTAGAGAAACAAGATTAGCCGTCGT
1 AAGATTCACCGTTGCGGCTTCAATCTTTTTAATTGCAATGTTAGAGAAACAAGATTAGCCGTCGT
*
31619004 AGCTTCAATCTGTTCCACTACACTGCCAGGGGAGTAAGATTCGCCATTGCGGCTTCAATCTTTTT
66 AGCTTCAATCTGTTCCACTACACCGCCAGGGGAGTAAGATTCGCCATTGCGGCTTCAATCTTTTT
31619069 AATTGCAATG
131 AATTGCAATG
31619079 TTGGGGAAAC
Statistics
Matches: 129, Mismatches: 11, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
140 129 1.00
ACGTcount: A:0.25, C:0.20, G:0.21, T:0.34
Consensus pattern (140 bp):
AAGATTCACCGTTGCGGCTTCAATCTTTTTAATTGCAATGTTAGAGAAACAAGATTAGCCGTCGT
AGCTTCAATCTGTTCCACTACACCGCCAGGGGAGTAAGATTCGCCATTGCGGCTTCAATCTTTTT
AATTGCAATG
Found at i:31619109 original size:50 final size:49
Alignment explanation
Indices: 31618940--31619110 Score: 121
Period size: 50 Copynumber: 3.4 Consensus size: 49
31618930 ATTGCAATGA
* * * *
31618940 AGATTCACCGTTGTGGCTTCAATCTTTTTAATTGCAATGTTAGAGAAAC
1 AGATTCACCGTCGTAGCTTCAATCTTTTTAATTGCAATGTTGGGGAAAC
* ** * * * ** *
31618989 AAGATT-AGCCGTCGTAGCTTCAATCTGTTCCACTACACTGCCAGGGGAGTA-
1 -AGATTCA-CCGTCGTAGCTTCAATCTTTTTAATTGCAATG-TTGGGGA-AAC
* * * **
31619040 AGATTCGCCATTGCGGCTTCAATCTTTTTAATTGCAATGTTGGGGAAAC
1 AGATTCACCGTCGTAGCTTCAATCTTTTTAATTGCAATGTTGGGGAAAC
31619089 GAGATTCACCGTCGTAGCTTCA
1 -AGATTCACCGTCGTAGCTTCA
31619111 TTCTATTCCA
Statistics
Matches: 83, Mismatches: 32, Indels: 12
0.65 0.25 0.09
Matches are distributed among these distances:
48 1 0.01
49 6 0.07
50 72 0.87
51 3 0.04
52 1 0.01
ACGTcount: A:0.26, C:0.21, G:0.22, T:0.32
Consensus pattern (49 bp):
AGATTCACCGTCGTAGCTTCAATCTTTTTAATTGCAATGTTGGGGAAAC
Found at i:31619161 original size:100 final size:100
Alignment explanation
Indices: 31618939--31619164 Score: 312
Period size: 100 Copynumber: 2.3 Consensus size: 100
31618929 AATTGCAATG
*
31618939 AAGATTCACCGTTGTGGCTTCAATCTTTTTAATTGCAATGTTAGAGAAACAAGATTAGCCGTCGT
1 AAGATTCGCCGTTGTGGCTTCAATCTTTTTAATTGCAATGTTAGAGAAACAAGATTAGCCGTCGT
* *
31619004 AGCTTCAATCTGTTCCACTACACTGCCAGGGGAGT
66 AGCTTCAATCTATTCCACTACACTGCCAAGGGAGT
* * * * *
31619039 AAGATTCGCCATTGCGGCTTCAATCTTTTTAATTGCAATGTTGGGGAAACGAGATTCA-CCGTCG
1 AAGATTCGCCGTTGTGGCTTCAATCTTTTTAATTGCAATGTTAGAGAAACAAGATT-AGCCGTCG
* *
31619103 TAGCTTCATTCTATTCCACTACA-TCGTCAAGGGAGT
65 TAGCTTCAATCTATTCCACTACACT-GCCAAGGGAGT
* *
31619139 AAGATTCGCCGTGGTGGTTTCAATCT
1 AAGATTCGCCGTTGTGGCTTCAATCT
31619165 GTTCCACTGT
Statistics
Matches: 110, Mismatches: 14, Indels: 4
0.86 0.11 0.03
Matches are distributed among these distances:
99 1 0.01
100 108 0.98
101 1 0.01
ACGTcount: A:0.25, C:0.21, G:0.22, T:0.32
Consensus pattern (100 bp):
AAGATTCGCCGTTGTGGCTTCAATCTTTTTAATTGCAATGTTAGAGAAACAAGATTAGCCGTCGT
AGCTTCAATCTATTCCACTACACTGCCAAGGGAGT
Found at i:31619163 original size:240 final size:240
Alignment explanation
Indices: 31618716--31619164 Score: 709
Period size: 240 Copynumber: 1.9 Consensus size: 240
31618706 GATTCTCCAT
* * * *
31618716 CTTCAGTCTTTTAAATTGCAATGTTGGGGAAACAAGATTCGCCGTCGTAGCTTCAATCTGTTCCA
1 CTTCAATCTTTTAAATTGCAATGTTAGAGAAACAAGATTAGCCGTCGTAGCTTCAATCTGTTCCA
* *
31618781 CTACACCGCCAGGGAAGTAAGATTCGTCGTTGCGGCTTCAATCTTTTTAATTGCAATGTTGGGGA
66 CTACACCGCCAGGGAAGTAAGATTCGCCATTGCGGCTTCAATCTTTTTAATTGCAATGTTGGGGA
** * * * *
31618846 AACAAGATTTGCTGTCGTAGCTTCAATCTGTTCCACTACACCGCCAGGGGAGTAAGATTCGCTGT
131 AACAAGATTCACCGTCGTAGCTTCAATCTATTCCACTACACCGCCAAGGGAGTAAGATTCGCCGT
*
31618911 TGTGGCTTCAATCTTTTTAATTGCAATGAAGATTCACCGTTGTGG
196 GGTGGCTTCAATCTTTTTAATTGCAATGAAGATTCACCGTTGTGG
*
31618956 CTTCAATCTTTTTAATTGCAATGTTAGAGAAACAAGATTAGCCGTCGTAGCTTCAATCTGTTCCA
1 CTTCAATCTTTTAAATTGCAATGTTAGAGAAACAAGATTAGCCGTCGTAGCTTCAATCTGTTCCA
* *
31619021 CTACACTGCCAGGGGAGTAAGATTCGCCATTGCGGCTTCAATCTTTTTAATTGCAATGTTGGGGA
66 CTACACCGCCAGGGAAGTAAGATTCGCCATTGCGGCTTCAATCTTTTTAATTGCAATGTTGGGGA
* * * *
31619086 AACGAGATTCACCGTCGTAGCTTCATTCTATTCCACTACATCGTCAAGGGAGTAAGATTCGCCGT
131 AACAAGATTCACCGTCGTAGCTTCAATCTATTCCACTACACCGCCAAGGGAGTAAGATTCGCCGT
*
31619151 GGTGGTTTCAATCT
196 GGTGGCTTCAATCT
31619165 GTTCCACTGT
Statistics
Matches: 188, Mismatches: 21, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
240 188 1.00
ACGTcount: A:0.24, C:0.21, G:0.22, T:0.32
Consensus pattern (240 bp):
CTTCAATCTTTTAAATTGCAATGTTAGAGAAACAAGATTAGCCGTCGTAGCTTCAATCTGTTCCA
CTACACCGCCAGGGAAGTAAGATTCGCCATTGCGGCTTCAATCTTTTTAATTGCAATGTTGGGGA
AACAAGATTCACCGTCGTAGCTTCAATCTATTCCACTACACCGCCAAGGGAGTAAGATTCGCCGT
GGTGGCTTCAATCTTTTTAATTGCAATGAAGATTCACCGTTGTGG
Found at i:31619323 original size:50 final size:50
Alignment explanation
Indices: 31619242--31619336 Score: 127
Period size: 50 Copynumber: 1.9 Consensus size: 50
31619232 TCCAAGCCTT
*
31619242 AACGCCAGGGAGATAAGATTCACCGTCGTGGCTTCAATCTCTTCCGCTAC
1 AACGCCAGGGAAATAAGATTCACCGTCGTGGCTTCAATCTCTTCCGCTAC
* ** * * *
31619292 AACGTCAGGGAAATAAGATTTGCTGTTGTGGCTTCAATCTTTTCC
1 AACGCCAGGGAAATAAGATTCACCGTCGTGGCTTCAATCTCTTCC
31619337 ATTGTAACGT
Statistics
Matches: 38, Mismatches: 7, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
50 38 1.00
ACGTcount: A:0.24, C:0.24, G:0.22, T:0.29
Consensus pattern (50 bp):
AACGCCAGGGAAATAAGATTCACCGTCGTGGCTTCAATCTCTTCCGCTAC
Found at i:31619346 original size:50 final size:50
Alignment explanation
Indices: 31619241--31619348 Score: 117
Period size: 50 Copynumber: 2.2 Consensus size: 50
31619231 ATCCAAGCCT
* * *
31619241 TAACGCCAGGGAGATAAGATTCACCGTCGTGGCTTCAATCTCTTCCGCTA
1 TAACGTCAGGGAAATAAGATTCACCGTCGTGGCTTCAATCTCTTCCACTA
* ** * * * * *
31619291 CAACGTCAGGGAAATAAGATTTGCTGTTGTGGCTTCAATCTTTTCCATTG
1 TAACGTCAGGGAAATAAGATTCACCGTCGTGGCTTCAATCTCTTCCACTA
31619341 TAACGTCA
1 TAACGTCA
31619349 AGGTGGTAAG
Statistics
Matches: 46, Mismatches: 12, Indels: 0
0.79 0.21 0.00
Matches are distributed among these distances:
50 46 1.00
ACGTcount: A:0.25, C:0.23, G:0.21, T:0.31
Consensus pattern (50 bp):
TAACGTCAGGGAAATAAGATTCACCGTCGTGGCTTCAATCTCTTCCACTA
Found at i:31619527 original size:44 final size:44
Alignment explanation
Indices: 31619400--31619527 Score: 114
Period size: 43 Copynumber: 2.9 Consensus size: 44
31619390 ACAGGAAGGT
* * *
31619400 AAGATCTGCTATTTTCAACCTACTCCACTACTGCTCAGGGAGAC
1 AAGATCTGCTATTTTCAACCTACTCCACTGCTGCTTAGGGAAAC
* * * * * ** ***
31619444 AAG-GCTGGTATCTTCAATCTACTTCGTTGCCAATATAGGGAAAC
1 AAGATCTGCTATTTTCAACCTACTCCACTGCTGCT-TAGGGAAAC
*
31619488 AAGATCTGCTATTTTCAACCTACTCCACTGGTGCTTAGGG
1 AAGATCTGCTATTTTCAACCTACTCCACTGCTGCTTAGGG
31619528 TGATAGGATT
Statistics
Matches: 58, Mismatches: 24, Indels: 4
0.67 0.28 0.05
Matches are distributed among these distances:
43 20 0.34
44 18 0.31
45 20 0.34
ACGTcount: A:0.27, C:0.25, G:0.19, T:0.30
Consensus pattern (44 bp):
AAGATCTGCTATTTTCAACCTACTCCACTGCTGCTTAGGGAAAC
Found at i:31619549 original size:44 final size:44
Alignment explanation
Indices: 31619501--31619973 Score: 673
Period size: 44 Copynumber: 10.7 Consensus size: 44
31619491 ATCTGCTATT
* * * *
31619501 TTCAACCTACTCCACTGGTG-CTTAGGGTGATAGGATTCACAATC
1 TTCAACCTATTCCACTGCTGAC-CAGGGAGATAGGATTCACAATC
31619545 TTCAACCTATTCCACTGCTGACCAGGGAGATAGGATTCACAATC
1 TTCAACCTATTCCACTGCTGACCAGGGAGATAGGATTCACAATC
* *
31619589 TTCAACCTATTCCATTGCTGACTAGGGAGATAGGATTCACAATC
1 TTCAACCTATTCCACTGCTGACCAGGGAGATAGGATTCACAATC
*
31619633 TTCAACCTATTCCACTGCTGACCAGGGAGAAAGGATTCACAATC
1 TTCAACCTATTCCACTGCTGACCAGGGAGATAGGATTCACAATC
** *
31619677 TTCAACCTATTCCAACTGCTGACTGGGGAGATA-GATCTTACAATC
1 TTCAACCTATTCC-ACTGCTGACCAGGGAGATAGGAT-TCACAATC
* *
31619722 TTCAACCTATTTCACTGCTGACCAAGGAGATAGGATTCACAATC
1 TTCAACCTATTCCACTGCTGACCAGGGAGATAGGATTCACAATC
*
31619766 TTCAACCTATTCCACTACTGACCAGGGAGATAGGATTCACAATC
1 TTCAACCTATTCCACTGCTGACCAGGGAGATAGGATTCACAATC
* * * * *
31619810 TTCAACCTATTCTACTGCTGACCAAGGAGATAAGACTCACAATT
1 TTCAACCTATTCCACTGCTGACCAGGGAGATAGGATTCACAATC
*
31619854 TTCAACCTATTCCACTGTTGACCAGGGAGATAGGACTT-ACAATC
1 TTCAACCTATTCCACTGCTGACCAGGGAGATAGGA-TTCACAATC
* *
31619898 TTCAACCTATTCCACTACTGACCAGGGAGATAGGATTTACAATC
1 TTCAACCTATTCCACTGCTGACCAGGGAGATAGGATTCACAATC
* * *
31619942 TTCAACATATTCCACTGTTGCCCAGGGAGATA
1 TTCAACCTATTCCACTGCTGACCAGGGAGATA
31619974 AAGCTTTGTG
Statistics
Matches: 384, Mismatches: 39, Indels: 12
0.88 0.09 0.03
Matches are distributed among these distances:
43 2 0.01
44 342 0.89
45 40 0.10
ACGTcount: A:0.30, C:0.25, G:0.17, T:0.27
Consensus pattern (44 bp):
TTCAACCTATTCCACTGCTGACCAGGGAGATAGGATTCACAATC
Found at i:31621201 original size:6 final size:6
Alignment explanation
Indices: 31621192--31621222 Score: 53
Period size: 6 Copynumber: 5.2 Consensus size: 6
31621182 TTTCTTTTTG
*
31621192 TCATTT TCATTT TCATTT TCATTT TGATTT T
1 TCATTT TCATTT TCATTT TCATTT TCATTT T
31621223 TTTTTTATTT
Statistics
Matches: 24, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
6 24 1.00
ACGTcount: A:0.16, C:0.13, G:0.03, T:0.68
Consensus pattern (6 bp):
TCATTT
Found at i:31626213 original size:23 final size:23
Alignment explanation
Indices: 31626170--31626216 Score: 60
Period size: 23 Copynumber: 2.0 Consensus size: 23
31626160 TTTAAAGTGT
*
31626170 AAATGAAAACATAAATCAATAAA
1 AAATGAAAACATAAAACAATAAA
*
31626193 AAATGAAAA-ATATAAAGAATAAA
1 AAATGAAAACATA-AAACAATAAA
31626216 A
1 A
31626217 GGTACGTAAT
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
22 3 0.14
23 18 0.86
ACGTcount: A:0.72, C:0.04, G:0.06, T:0.17
Consensus pattern (23 bp):
AAATGAAAACATAAAACAATAAA
Found at i:31627068 original size:23 final size:22
Alignment explanation
Indices: 31627023--31627080 Score: 64
Period size: 22 Copynumber: 2.6 Consensus size: 22
31627013 AAAGGGTATC
* *
31627023 TACAAATTAAATC-TCTAAAAT
1 TACAAATCATATCTTCTAAAAT
*
31627044 TACAAAATCATATCTTCTAAGAT
1 TAC-AAATCATATCTTCTAAAAT
*
31627067 TACATATCATATCT
1 TACAAATCATATCT
31627081 AAGATTGCAT
Statistics
Matches: 31, Mismatches: 4, Indels: 3
0.82 0.11 0.08
Matches are distributed among these distances:
21 3 0.10
22 18 0.58
23 10 0.32
ACGTcount: A:0.45, C:0.17, G:0.02, T:0.36
Consensus pattern (22 bp):
TACAAATCATATCTTCTAAAAT
Found at i:31630226 original size:15 final size:15
Alignment explanation
Indices: 31630206--31630286 Score: 67
Period size: 15 Copynumber: 5.4 Consensus size: 15
31630196 TTTATCGAAA
31630206 ATCAAAGATATGGGT
1 ATCAAAGATATGGGT
* * **
31630221 ATCAAATA-ATAGAA
1 ATCAAAGATATGGGT
31630235 AGTCAAAGATATGGGT
1 A-TCAAAGATATGGGT
* **
31630251 ATCAAATAT-TGGAA
1 ATCAAAGATATGGGT
31630265 AGTCAAAGATATGGGT
1 A-TCAAAGATATGGGT
31630281 ATCAAA
1 ATCAAA
31630287 TATTAGAAAG
Statistics
Matches: 48, Mismatches: 14, Indels: 8
0.69 0.20 0.11
Matches are distributed among these distances:
14 8 0.17
15 32 0.67
16 8 0.17
ACGTcount: A:0.47, C:0.07, G:0.21, T:0.25
Consensus pattern (15 bp):
ATCAAAGATATGGGT
Found at i:31630243 original size:30 final size:30
Alignment explanation
Indices: 31630202--31630311 Score: 184
Period size: 30 Copynumber: 3.7 Consensus size: 30
31630192 CATATTTATC
* *
31630202 GAAAATCAAAGATATGGGTATCAAATAATA
1 GAAAGTCAAAGATATGGGTATCAAATATTA
*
31630232 GAAAGTCAAAGATATGGGTATCAAATATTG
1 GAAAGTCAAAGATATGGGTATCAAATATTA
31630262 GAAAGTCAAAGATATGGGTATCAAATATTA
1 GAAAGTCAAAGATATGGGTATCAAATATTA
*
31630292 GAAAGTCAAAGAGATGGGTA
1 GAAAGTCAAAGATATGGGTA
31630312 CCGAGATATT
Statistics
Matches: 75, Mismatches: 5, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
30 75 1.00
ACGTcount: A:0.47, C:0.06, G:0.23, T:0.24
Consensus pattern (30 bp):
GAAAGTCAAAGATATGGGTATCAAATATTA
Found at i:31634923 original size:15 final size:15
Alignment explanation
Indices: 31634903--31634978 Score: 57
Period size: 15 Copynumber: 5.1 Consensus size: 15
31634893 TTTATGGAAA
31634903 ATCAAAGATATGGGT
1 ATCAAAGATATGGGT
* * **
31634918 ATCAAATA-ATAGAA
1 ATCAAAGATATGGGT
31634932 AGTCAAAGATATGGGT
1 A-TCAAAGATATGGGT
* **
31634948 ATCAAATAT-TGGAA
1 ATCAAAGATATGGGT
31634962 AGTCAAAGATATGGGT
1 A-TCAAAGATATGGGT
31634978 A
1 A
31634979 CCGAGATATT
Statistics
Matches: 43, Mismatches: 14, Indels: 7
0.67 0.22 0.11
Matches are distributed among these distances:
14 8 0.19
15 27 0.63
16 8 0.19
ACGTcount: A:0.46, C:0.07, G:0.22, T:0.25
Consensus pattern (15 bp):
ATCAAAGATATGGGT
Found at i:31634940 original size:30 final size:30
Alignment explanation
Indices: 31634899--31634978 Score: 133
Period size: 30 Copynumber: 2.7 Consensus size: 30
31634889 CATATTTATG
*
31634899 GAAAATCAAAGATATGGGTATCAAATAATA
1 GAAAGTCAAAGATATGGGTATCAAATAATA
* *
31634929 GAAAGTCAAAGATATGGGTATCAAATATTG
1 GAAAGTCAAAGATATGGGTATCAAATAATA
31634959 GAAAGTCAAAGATATGGGTA
1 GAAAGTCAAAGATATGGGTA
31634979 CCGAGATATT
Statistics
Matches: 47, Mismatches: 3, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
30 47 1.00
ACGTcount: A:0.47, C:0.06, G:0.23, T:0.24
Consensus pattern (30 bp):
GAAAGTCAAAGATATGGGTATCAAATAATA
Found at i:31637444 original size:15 final size:15
Alignment explanation
Indices: 31637424--31637455 Score: 55
Period size: 15 Copynumber: 2.1 Consensus size: 15
31637414 TATTTCACTA
*
31637424 TTATGTCTTTTGTAT
1 TTATGTCTTTTATAT
31637439 TTATGTCTTTTATAT
1 TTATGTCTTTTATAT
31637454 TT
1 TT
31637456 TGCATCCATA
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
15 16 1.00
ACGTcount: A:0.16, C:0.06, G:0.09, T:0.69
Consensus pattern (15 bp):
TTATGTCTTTTATAT
Found at i:31647999 original size:22 final size:21
Alignment explanation
Indices: 31647974--31648017 Score: 54
Period size: 22 Copynumber: 2.0 Consensus size: 21
31647964 TGATAAACTT
31647974 TAATATATA-ATTATATTATTTA
1 TAATATATATATTA-ATT-TTTA
*
31647996 TAATTTATATATTAATTTTTA
1 TAATATATATATTAATTTTTA
31648017 T
1 T
31648018 CAACTTAGCT
Statistics
Matches: 20, Mismatches: 1, Indels: 3
0.83 0.04 0.12
Matches are distributed among these distances:
21 5 0.25
22 11 0.55
23 4 0.20
ACGTcount: A:0.41, C:0.00, G:0.00, T:0.59
Consensus pattern (21 bp):
TAATATATATATTAATTTTTA
Found at i:31649527 original size:17 final size:16
Alignment explanation
Indices: 31649507--31649539 Score: 57
Period size: 17 Copynumber: 2.0 Consensus size: 16
31649497 TTCTTGTAGA
31649507 AAAATAATTAATATTAT
1 AAAATAATTAA-ATTAT
31649524 AAAATAATTAAATTAT
1 AAAATAATTAAATTAT
31649540 GTTAAAAATA
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
16 5 0.31
17 11 0.69
ACGTcount: A:0.61, C:0.00, G:0.00, T:0.39
Consensus pattern (16 bp):
AAAATAATTAAATTAT
Found at i:31652463 original size:62 final size:63
Alignment explanation
Indices: 31652391--31652571 Score: 203
Period size: 62 Copynumber: 2.9 Consensus size: 63
31652381 ATTTTAATAT
* * *
31652391 TTTAATATTAAATTTAATTTAATACTTATCTTAAT-AGTATTTTATTAATATAATATAATCA-A
1 TTTAATATTAAATTTAATTTAATATTTATCTTAATAAATATTTTATTAAT-TAATATAATAAGA
*
31652453 TTTAATATTAAATTTAATTTAATGTTTATCTTGTAGATAAATATTTTATT-ATT--T-TAATAAG
1 TTTAATATTAAATTTAATTTAATATTTATC-T-TA-ATAAATATTTTATTAATTAATATAATAAG
31652514 A
63 A
* * * *
31652515 TTTAATGTTAAATTTAATCTAATATTTATCTTGATAAATATTATATTAATTTAATAT
1 TTTAATATTAAATTTAATTTAATATTTATCTTAATAAATATTTTATTAA-TTAATAT
31652572 TAAAGTTATT
Statistics
Matches: 100, Mismatches: 9, Indels: 18
0.79 0.07 0.14
Matches are distributed among these distances:
59 13 0.13
60 2 0.02
61 8 0.08
62 57 0.57
63 2 0.02
64 4 0.04
65 4 0.04
66 10 0.10
ACGTcount: A:0.41, C:0.03, G:0.04, T:0.52
Consensus pattern (63 bp):
TTTAATATTAAATTTAATTTAATATTTATCTTAATAAATATTTTATTAATTAATATAATAAGA
Found at i:31659270 original size:3 final size:3
Alignment explanation
Indices: 31659262--31659300 Score: 53
Period size: 3 Copynumber: 13.0 Consensus size: 3
31659252 AGGGCGTCGG
*
31659262 TGA TGA TGA TGA TGA CT-A GGA TGA TGA TGA TGA TGA TGA
1 TGA TGA TGA TGA TGA -TGA TGA TGA TGA TGA TGA TGA TGA
31659301 GACCTTTATC
Statistics
Matches: 32, Mismatches: 2, Indels: 4
0.84 0.05 0.11
Matches are distributed among these distances:
3 31 0.97
4 1 0.03
ACGTcount: A:0.33, C:0.03, G:0.33, T:0.31
Consensus pattern (3 bp):
TGA
Found at i:31661767 original size:8 final size:8
Alignment explanation
Indices: 31661756--31661792 Score: 56
Period size: 8 Copynumber: 4.5 Consensus size: 8
31661746 ATTTAGTTCA
31661756 TTTTTTAT
1 TTTTTTAT
31661764 TTTTCTTAT
1 TTTT-TTAT
*
31661773 TTATTTAT
1 TTTTTTAT
31661781 TTTTTTAT
1 TTTTTTAT
31661789 TTTT
1 TTTT
31661793 ATCTCTTCAA
Statistics
Matches: 26, Mismatches: 2, Indels: 2
0.87 0.07 0.07
Matches are distributed among these distances:
8 19 0.73
9 7 0.27
ACGTcount: A:0.14, C:0.03, G:0.00, T:0.84
Consensus pattern (8 bp):
TTTTTTAT
Found at i:31662977 original size:29 final size:29
Alignment explanation
Indices: 31662944--31663002 Score: 82
Period size: 29 Copynumber: 2.0 Consensus size: 29
31662934 AGGAATAGGG
* *
31662944 AATTCTATTAGGATATCTTAGGTTAATTA
1 AATTCCATTAGGATATCTTAAGTTAATTA
* *
31662973 AATTCCATTAGGTTATTTTAAGTTAATTA
1 AATTCCATTAGGATATCTTAAGTTAATTA
31663002 A
1 A
31663003 TTTACTCATG
Statistics
Matches: 26, Mismatches: 4, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
29 26 1.00
ACGTcount: A:0.36, C:0.07, G:0.12, T:0.46
Consensus pattern (29 bp):
AATTCCATTAGGATATCTTAAGTTAATTA
Found at i:31664377 original size:52 final size:52
Alignment explanation
Indices: 31664299--31664403 Score: 210
Period size: 52 Copynumber: 2.0 Consensus size: 52
31664289 AAGTGAATAC
31664299 CAAACTATAATGTTTTACATTTTTACCCCAAACTTCCAAACCTATTTATTTT
1 CAAACTATAATGTTTTACATTTTTACCCCAAACTTCCAAACCTATTTATTTT
31664351 CAAACTATAATGTTTTACATTTTTACCCCAAACTTCCAAACCTATTTATTTT
1 CAAACTATAATGTTTTACATTTTTACCCCAAACTTCCAAACCTATTTATTTT
31664403 C
1 C
31664404 TCCCAAAACT
Statistics
Matches: 53, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
52 53 1.00
ACGTcount: A:0.32, C:0.24, G:0.02, T:0.42
Consensus pattern (52 bp):
CAAACTATAATGTTTTACATTTTTACCCCAAACTTCCAAACCTATTTATTTT
Found at i:31674820 original size:28 final size:28
Alignment explanation
Indices: 31674780--31674933 Score: 256
Period size: 28 Copynumber: 5.5 Consensus size: 28
31674770 TAAATTGTAC
*
31674780 AGCACTAAGTGTGCGAGTTTGATTACGT
1 AGCACTAAGTGTGCGAGTTTGATTATGT
*
31674808 AGCACTAAGTGTGCGAGCTTGATTATGT
1 AGCACTAAGTGTGCGAGTTTGATTATGT
31674836 AGCACTAAGTGTGCGAGTTTGATTATGT
1 AGCACTAAGTGTGCGAGTTTGATTATGT
*
31674864 AGCACTAAGTGTGCGAGTTTGATTATAT
1 AGCACTAAGTGTGCGAGTTTGATTATGT
*
31674892 AGCACTAAGTGTGCGAG-TTGATTATAT
1 AGCACTAAGTGTGCGAGTTTGATTATGT
*
31674919 AGCACTGAGTGTGCG
1 AGCACTAAGTGTGCG
31674934 GACTTAATAT
Statistics
Matches: 121, Mismatches: 5, Indels: 1
0.95 0.04 0.01
Matches are distributed among these distances:
27 24 0.20
28 97 0.80
ACGTcount: A:0.26, C:0.13, G:0.29, T:0.32
Consensus pattern (28 bp):
AGCACTAAGTGTGCGAGTTTGATTATGT
Found at i:31679543 original size:15 final size:15
Alignment explanation
Indices: 31679523--31679553 Score: 62
Period size: 15 Copynumber: 2.1 Consensus size: 15
31679513 GTTATGTAAG
31679523 TGAAAGGTCAAGAGT
1 TGAAAGGTCAAGAGT
31679538 TGAAAGGTCAAGAGT
1 TGAAAGGTCAAGAGT
31679553 T
1 T
31679554 ATGTTGTTTT
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 16 1.00
ACGTcount: A:0.39, C:0.06, G:0.32, T:0.23
Consensus pattern (15 bp):
TGAAAGGTCAAGAGT
Found at i:31681422 original size:15 final size:15
Alignment explanation
Indices: 31681383--31681457 Score: 52
Period size: 15 Copynumber: 5.0 Consensus size: 15
31681373 TAATAGTTTA
31681383 TATATATTCATTAATGAT
1 TATATATT-A-TAAT-AT
*
31681401 TAAATATTATAATAT
1 TATATATTATAATAT
31681416 TATATATT-T--TAT
1 TATATATTATAATAT
31681428 TATA-ATGTATAATAT
1 TATATAT-TATAATAT
*
31681443 AATA-ATTATATATAT
1 TATATATTATA-ATAT
31681458 ATCATGTATT
Statistics
Matches: 49, Mismatches: 3, Indels: 13
0.75 0.05 0.20
Matches are distributed among these distances:
11 2 0.04
12 8 0.16
13 1 0.02
14 5 0.10
15 21 0.43
16 4 0.08
17 1 0.02
18 7 0.14
ACGTcount: A:0.45, C:0.01, G:0.03, T:0.51
Consensus pattern (15 bp):
TATATATTATAATAT
Found at i:31682061 original size:22 final size:21
Alignment explanation
Indices: 31682036--31682091 Score: 58
Period size: 22 Copynumber: 2.6 Consensus size: 21
31682026 GCTATAATAA
31682036 TATATAATATATTTATTATCAT
1 TATATAATATATTTATTAT-AT
* *
31682058 TATATATTATTGTTTATTATAT
1 TATATAATA-TATTTATTATAT
* *
31682080 TAGATAAAATAT
1 TATATAATATAT
31682092 GTTTTAAGTC
Statistics
Matches: 27, Mismatches: 6, Indels: 3
0.75 0.17 0.08
Matches are distributed among these distances:
21 2 0.07
22 16 0.59
23 9 0.33
ACGTcount: A:0.41, C:0.02, G:0.04, T:0.54
Consensus pattern (21 bp):
TATATAATATATTTATTATAT
Found at i:31682094 original size:23 final size:24
Alignment explanation
Indices: 31682041--31682095 Score: 60
Period size: 23 Copynumber: 2.4 Consensus size: 24
31682031 AATAATATAT
* * *
31682041 AATATATTTATTATCATTATATAT
1 AATATGTTTATTATCATTAGATAA
*
31682065 TAT-TGTTTATTAT-ATTAGATAA
1 AATATGTTTATTATCATTAGATAA
31682087 AATATGTTT
1 AATATGTTT
31682096 TAAGTCCTTA
Statistics
Matches: 25, Mismatches: 5, Indels: 3
0.76 0.15 0.09
Matches are distributed among these distances:
22 9 0.36
23 14 0.56
24 2 0.08
ACGTcount: A:0.38, C:0.02, G:0.05, T:0.55
Consensus pattern (24 bp):
AATATGTTTATTATCATTAGATAA
Found at i:31685673 original size:43 final size:42
Alignment explanation
Indices: 31685612--31685770 Score: 165
Period size: 43 Copynumber: 4.0 Consensus size: 42
31685602 CCGGAGTACA
* *
31685612 TTGAATATAAAAGGGGTTGCTAAGTGCTGATTCCACCGTATCT
1 TTGAATGTGAAAGGGGTTGCTAAGTGCTGATTCC-CCGTATCT
* * *
31685655 TTGAATGTGAAAGGGGTTGCTAAGTGTTGATTTCCCGAATCT
1 TTGAATGTGAAAGGGGTTGCTAAGTGCTGATTCCCCGTATCT
*
31685697 TT--A-GT------GGTTGCTAAGTGTTGATTCCACCGTATCT
1 TTGAATGTGAAAGGGGTTGCTAAGTGCTGATTCC-CCGTATCT
* *
31685731 TTGAATGTGAAAGGGGTTGCTATGTGCTAATTCCCCGTAT
1 TTGAATGTGAAAGGGGTTGCTAAGTGCTGATTCCCCGTAT
31685771 TACTGAATAT
Statistics
Matches: 96, Mismatches: 10, Indels: 21
0.76 0.08 0.17
Matches are distributed among these distances:
33 19 0.20
34 9 0.09
36 1 0.01
37 2 0.02
39 2 0.02
40 1 0.01
42 15 0.16
43 47 0.49
ACGTcount: A:0.23, C:0.15, G:0.26, T:0.36
Consensus pattern (42 bp):
TTGAATGTGAAAGGGGTTGCTAAGTGCTGATTCCCCGTATCT
Found at i:31687136 original size:24 final size:24
Alignment explanation
Indices: 31687089--31687136 Score: 60
Period size: 24 Copynumber: 2.0 Consensus size: 24
31687079 ACAGTCCCTC
* * *
31687089 TGGTTTGTTGTTGGGCTTCCACTT
1 TGGTTTGTTCTCGGGCCTCCACTT
*
31687113 TGGTTTGTTCTCGGGCCTCTACTT
1 TGGTTTGTTCTCGGGCCTCCACTT
31687137 CCCATTATTT
Statistics
Matches: 20, Mismatches: 4, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
24 20 1.00
ACGTcount: A:0.04, C:0.21, G:0.27, T:0.48
Consensus pattern (24 bp):
TGGTTTGTTCTCGGGCCTCCACTT
Found at i:31690814 original size:103 final size:103
Alignment explanation
Indices: 31690635--31690840 Score: 322
Period size: 103 Copynumber: 2.0 Consensus size: 103
31690625 TTCAAACACG
* *
31690635 CAATTCATTTCTAGTTTCAACGAGCTAGCAGAGGGACCGATTAAACATATGTAGTTTAGAATCAA
1 CAATTCAGTTCTAGTTTCAACAAGCTAGCAGAGGGACCGATTAAACATATGTAGTTTAGAATCAA
* *
31690700 ATGATTTATAATTAAGTTCCTACTTTTCGCCTATTAAT
66 ATGATATATAATTAAGTTCCTACTTTTCACCTATTAAT
* **
31690738 CAATTCAGTTCTAGTTTCAACAAGCTAGCGGAGGGACCGATTAAACATATGTAGTTTAGGCTCAA
1 CAATTCAGTTCTAGTTTCAACAAGCTAGCAGAGGGACCGATTAAACATATGTAGTTTAGAATCAA
* * *
31690803 ATGGTATATAATTAATTTCCTGCTTTTCACCTATTAAT
66 ATGATATATAATTAAGTTCCTACTTTTCACCTATTAAT
31690841 TATAAACTCA
Statistics
Matches: 93, Mismatches: 10, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
103 93 1.00
ACGTcount: A:0.32, C:0.17, G:0.16, T:0.35
Consensus pattern (103 bp):
CAATTCAGTTCTAGTTTCAACAAGCTAGCAGAGGGACCGATTAAACATATGTAGTTTAGAATCAA
ATGATATATAATTAAGTTCCTACTTTTCACCTATTAAT
Found at i:31696751 original size:20 final size:20
Alignment explanation
Indices: 31696710--31696752 Score: 52
Period size: 20 Copynumber: 2.1 Consensus size: 20
31696700 AAATCAGCTC
*
31696710 ATTTGAGCTTCTTTCAGCTT
1 ATTTGAGCTTCTTTCAACTT
*
31696730 ATTTGAGC-TCATTTCAATTT
1 ATTTGAGCTTC-TTTCAACTT
31696750 ATT
1 ATT
31696753 CCCAGCTCAT
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
19 2 0.10
20 18 0.90
ACGTcount: A:0.21, C:0.16, G:0.12, T:0.51
Consensus pattern (20 bp):
ATTTGAGCTTCTTTCAACTT
Found at i:31702510 original size:14 final size:13
Alignment explanation
Indices: 31702469--31702512 Score: 56
Period size: 12 Copynumber: 3.5 Consensus size: 13
31702459 GTCCATTTTT
31702469 ATTTTT-ATTATA
1 ATTTTTAATTATA
*
31702481 ATTTTTAGTT-TA
1 ATTTTTAATTATA
31702493 ATTTTTACATTATA
1 ATTTTTA-ATTATA
31702507 ATTTTT
1 ATTTTT
31702513 CTTTTATTTG
Statistics
Matches: 27, Mismatches: 2, Indels: 4
0.82 0.06 0.12
Matches are distributed among these distances:
12 15 0.56
13 4 0.15
14 8 0.30
ACGTcount: A:0.30, C:0.02, G:0.02, T:0.66
Consensus pattern (13 bp):
ATTTTTAATTATA
Found at i:31704978 original size:43 final size:42
Alignment explanation
Indices: 31704907--31705053 Score: 134
Period size: 43 Copynumber: 3.4 Consensus size: 42
31704897 CAAAAAGCTC
* * *** *
31704907 ATACAATGCCAACGTCCCAGACGTGGTCTTACATGTAATCAA
1 ATACGATGCCAATGTCCCAGATAAGGTCTTACACGTAATCAA
* *
31704949 ATAACGATGCCACTGTCCCAGATAAGGTCTTACACGTAATCAT
1 AT-ACGATGCCAATGTCCCAGATAAGGTCTTACACGTAATCAA
* * * *
31704992 ATACGATGTCAATGTCCTAGATATGGTCTTACACATAAATCGCAA
1 ATACGATGCCAATGTCCCAGATAAGGTCTTACACGT-AAT--CAA
*
31705037 AT-CGATGCCAACGTCCC
1 ATACGATGCCAATGTCCC
31705054 TGACGTGCTC
Statistics
Matches: 84, Mismatches: 17, Indels: 6
0.79 0.16 0.06
Matches are distributed among these distances:
42 31 0.37
43 37 0.44
44 12 0.14
45 4 0.05
ACGTcount: A:0.33, C:0.26, G:0.16, T:0.25
Consensus pattern (42 bp):
ATACGATGCCAATGTCCCAGATAAGGTCTTACACGTAATCAA
Found at i:31706800 original size:22 final size:22
Alignment explanation
Indices: 31706756--31706823 Score: 68
Period size: 24 Copynumber: 3.0 Consensus size: 22
31706746 GACCATTGAG
*
31706756 TTTATTTTTTTCTTTTTAGATTTT
1 TTTATTTTTTTATTTTT--ATTTT
*
31706780 TTTATTTTTTTATTGTTA--TT
1 TTTATTTTTTTATTTTTATTTT
31706800 TTTAGTTCTTTTTATTTTTATTTT
1 TTTA-TT-TTTTTATTTTTATTTT
31706824 CTTAGCCTTA
Statistics
Matches: 37, Mismatches: 3, Indels: 8
0.77 0.06 0.17
Matches are distributed among these distances:
20 6 0.16
21 2 0.05
22 12 0.32
24 17 0.46
ACGTcount: A:0.13, C:0.03, G:0.04, T:0.79
Consensus pattern (22 bp):
TTTATTTTTTTATTTTTATTTT
Found at i:31706816 original size:16 final size:15
Alignment explanation
Indices: 31706756--31706823 Score: 63
Period size: 16 Copynumber: 4.6 Consensus size: 15
31706746 GACCATTGAG
*
31706756 TTTA-TTTTTTTCTT
1 TTTAGTTTTTTTATT
31706770 TTTAGATTTTTTTATT
1 TTTAG-TTTTTTTATT
*
31706786 TTT--TTATTGTTATT
1 TTTAGTT-TTTTTATT
31706800 TTTAGTTCTTTTTATT
1 TTTAGTT-TTTTTATT
31706816 TTTA-TTTT
1 TTTAGTTTT
31706824 CTTAGCCTTA
Statistics
Matches: 45, Mismatches: 4, Indels: 10
0.76 0.07 0.17
Matches are distributed among these distances:
13 2 0.04
14 16 0.36
15 2 0.04
16 25 0.56
ACGTcount: A:0.13, C:0.03, G:0.04, T:0.79
Consensus pattern (15 bp):
TTTAGTTTTTTTATT
Found at i:31708491 original size:19 final size:19
Alignment explanation
Indices: 31708467--31708504 Score: 76
Period size: 19 Copynumber: 2.0 Consensus size: 19
31708457 TATAAATACC
31708467 CATTAGAAGAAGACATAAG
1 CATTAGAAGAAGACATAAG
31708486 CATTAGAAGAAGACATAAG
1 CATTAGAAGAAGACATAAG
31708505 AGGGTAACCA
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
19 19 1.00
ACGTcount: A:0.53, C:0.11, G:0.21, T:0.16
Consensus pattern (19 bp):
CATTAGAAGAAGACATAAG
Found at i:31709878 original size:98 final size:98
Alignment explanation
Indices: 31709704--31709900 Score: 349
Period size: 98 Copynumber: 2.0 Consensus size: 98
31709694 GTACAATAAA
*
31709704 ACTTTAAAAGAACATCCACTTATCCAAGATTTAAGAAATCACACCCAATACGTTAGGGCACGATT
1 ACTTTAAAAGAACATCCACTTATCCAAGATTTAAGAAATCACACCCAATACGTTAGGGCACAATT
* *
31709769 CCTCTAGAATCCTAAACTCGGAATATTTCCTTT
66 CCTCTAAAATCCCAAACTCGGAATATTTCCTTT
31709802 ACTTTAAAAGAACATCCACTTATCCAAGATTTAAGAAATCACACCCAATACGTTAGGGCACAATT
1 ACTTTAAAAGAACATCCACTTATCCAAGATTTAAGAAATCACACCCAATACGTTAGGGCACAATT
* *
31709867 CCTTTAAAATCCCAACCTCGGAATATTTCCTTT
66 CCTCTAAAATCCCAAACTCGGAATATTTCCTTT
31709900 A
1 A
31709901 TTATTTTTTA
Statistics
Matches: 94, Mismatches: 5, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
98 94 1.00
ACGTcount: A:0.37, C:0.25, G:0.10, T:0.28
Consensus pattern (98 bp):
ACTTTAAAAGAACATCCACTTATCCAAGATTTAAGAAATCACACCCAATACGTTAGGGCACAATT
CCTCTAAAATCCCAAACTCGGAATATTTCCTTT
Found at i:31710594 original size:23 final size:24
Alignment explanation
Indices: 31710566--31710620 Score: 85
Period size: 25 Copynumber: 2.3 Consensus size: 24
31710556 ATATACATAT
*
31710566 AAATAT-GAAAATATTCTTTAAAA
1 AAATATAGAAAATATTCGTTAAAA
31710589 AAATATAGGAAAATATTCGTTAAAA
1 AAATATA-GAAAATATTCGTTAAAA
31710614 AAATATA
1 AAATATA
31710621 CATGTACATA
Statistics
Matches: 29, Mismatches: 1, Indels: 2
0.91 0.03 0.06
Matches are distributed among these distances:
23 6 0.21
25 23 0.79
ACGTcount: A:0.58, C:0.04, G:0.07, T:0.31
Consensus pattern (24 bp):
AAATATAGAAAATATTCGTTAAAA
Found at i:31710631 original size:27 final size:25
Alignment explanation
Indices: 31710572--31710620 Score: 89
Period size: 25 Copynumber: 2.0 Consensus size: 25
31710562 ATATAAATAT
*
31710572 GAAAATATTCTTTAAAAAAATATAG
1 GAAAATATTCGTTAAAAAAATATAG
31710597 GAAAATATTCGTTAAAAAAATATA
1 GAAAATATTCGTTAAAAAAATATA
31710621 CATGTACATA
Statistics
Matches: 23, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
25 23 1.00
ACGTcount: A:0.57, C:0.04, G:0.08, T:0.31
Consensus pattern (25 bp):
GAAAATATTCGTTAAAAAAATATAG
Found at i:31711404 original size:19 final size:19
Alignment explanation
Indices: 31711380--31711492 Score: 163
Period size: 19 Copynumber: 5.8 Consensus size: 19
31711370 AATCATATAT
31711380 TCTAAGATTGCATATCATA
1 TCTAAGATTGCATATCATA
**
31711399 TCTAAGATTATATATCATA
1 TCTAAGATTGCATATCATA
31711418 TCTAAGATTGCATATCATA
1 TCTAAGATTGCATATCATA
31711437 TCTAAGATTGCATATATCATA
1 TCTAAGATTGC--ATATCATA
**
31711458 TCTTGGATTGCATATCATA
1 TCTAAGATTGCATATCATA
*
31711477 TCTAATATTGCATATC
1 TCTAAGATTGCATATC
31711493 CTCAAAAATT
Statistics
Matches: 83, Mismatches: 9, Indels: 4
0.86 0.09 0.04
Matches are distributed among these distances:
19 66 0.80
21 17 0.20
ACGTcount: A:0.35, C:0.15, G:0.10, T:0.40
Consensus pattern (19 bp):
TCTAAGATTGCATATCATA
Found at i:31711467 original size:40 final size:40
Alignment explanation
Indices: 31711380--31711491 Score: 183
Period size: 40 Copynumber: 2.9 Consensus size: 40
31711370 AATCATATAT
31711380 TCTAAGATTGCATATCATATCTAAGATT--ATATATCATA
1 TCTAAGATTGCATATCATATCTAAGATTGCATATATCATA
31711418 TCTAAGATTGCATATCATATCTAAGATTGCATATATCATA
1 TCTAAGATTGCATATCATATCTAAGATTGCATATATCATA
** *
31711458 TCTTGGATTGCATATCATATCTAATATTGCATAT
1 TCTAAGATTGCATATCATATCTAAGATTGCATAT
31711492 CCTCAAAAAT
Statistics
Matches: 69, Mismatches: 3, Indels: 2
0.93 0.04 0.03
Matches are distributed among these distances:
38 28 0.41
40 41 0.59
ACGTcount: A:0.36, C:0.14, G:0.10, T:0.40
Consensus pattern (40 bp):
TCTAAGATTGCATATCATATCTAAGATTGCATATATCATA
Found at i:31711717 original size:44 final size:45
Alignment explanation
Indices: 31711668--31712179 Score: 325
Period size: 44 Copynumber: 11.8 Consensus size: 45
31711658 TGCCATCTTC
* *
31711668 AGTCTGCCCCACTGCAACTTCAGGAG-GATAGGACTTGCTTACTT
1 AGTCTGCTCCACTGCAACTTCAGGAGAGATAAGACTTGCTTACTT
* * * *
31711712 AGTCTGCTCCACTGCAACTTCAGG-GAGATAAGACTAG-ATGC-G
1 AGTCTGCTCCACTGCAACTTCAGGAGAGATAAGACTTGCTTACTT
* * * * *
31711754 A-TCTGCT-CTCTGCAACTTTA-GAAAGATAAGATCTGAGGTT--TT
1 AGTCTGCTCCACTGCAACTTCAGGAGAGATAAGA-CT-TGCTTACTT
* * *
31711796 AATCTGCTCCACTGCAACTTCAGG-GAGATAGGATTATCGGC-T--TT
1 AGTCTGCTCCACTGCAACTTCAGGAGAGATAAGACT-T--GCTTACTT
* * *
31711840 AATCTGCTCTACTGCAACTTCAGG-GAGATAAGACTTGC-CATCTT
1 AGTCTGCTCCACTGCAACTTCAGGAGAGATAAGACTTGCTTA-CTT
*
31711884 CAGTCTGCCCCACTGCAACTTCAGGAG-GATAAGACTTGCTTACTT
1 -AGTCTGCTCCACTGCAACTTCAGGAGAGATAAGACTTGCTTACTT
* * * * * *
31711929 AGTCTGCTCCACTGCAACTTCAAG-GAGATAATACTAG-ATGC-G
1 AGTCTGCTCCACTGCAACTTCAGGAGAGATAAGACTTGCTTACTT
* * *
31711971 A-TCTGCT-CTCTGCAACTTCA-GAGAGATAAGATCTGAGGTT--TT
1 AGTCTGCTCCACTGCAACTTCAGGAGAGATAAGA-CT-TGCTTACTT
* * * * * *
31712013 AATCCGCTCCAATACAACTTCAGG-GAGATAGGATTATCGGC-T--TT
1 AGTCTGCTCCACTGCAACTTCAGGAGAGATAAGACT-T--GCTTACTT
* *
31712057 AATCTGCTCCACTGCAACTTCAGG-GAGATAAGACTTGC-CATCTT
1 AGTCTGCTCCACTGCAACTTCAGGAGAGATAAGACTTGCTTA-CTT
*
31712101 CAGTCTGC-CCACTGCAACTTCAGGAG-GATAAGACATGCTTACTT
1 -AGTCTGCTCCACTGCAACTTCAGGAGAGATAAGACTTGCTTACTT
* *
31712145 AGTCTGATCCACTGCAACTTCAAG-GAGATAAGACT
1 AGTCTGCTCCACTGCAACTTCAGGAGAGATAAGACT
31712180 AGATGCGATA
Statistics
Matches: 373, Mismatches: 59, Indels: 72
0.74 0.12 0.14
Matches are distributed among these distances:
39 2 0.01
40 39 0.10
41 20 0.05
42 8 0.02
43 30 0.08
44 224 0.60
45 48 0.13
46 2 0.01
ACGTcount: A:0.28, C:0.24, G:0.21, T:0.28
Consensus pattern (45 bp):
AGTCTGCTCCACTGCAACTTCAGGAGAGATAAGACTTGCTTACTT
Found at i:31712033 original size:217 final size:217
Alignment explanation
Indices: 31711658--31712263 Score: 1061
Period size: 217 Copynumber: 2.8 Consensus size: 217
31711648 TAGGAATTAG
*
31711658 TGCCATCTTCAGTCTGCCCCACTGCAACTTCAGGAGGATAGGACTTGCTTACTTAGTCTGCTCCA
1 TGCCATCTTCAGTCTGCCCCACTGCAACTTCAGGAGGATAAGACTTGCTTACTTAGTCTGCTCCA
* * *
31711723 CTGCAACTTCAGGGAGATAAGACTAGATGCGATCTGCTCTCTGCAACTTTAGAAAGATAAGATCT
66 CTGCAACTTCAAGGAGATAAGACTAGATGCGATCTGCTCTCTGCAACTTCAGAGAGATAAGATCT
* *
31711788 GAGGTTTTAATCTGCTCCACTGCAACTTCAGGGAGATAGGATTATCGGCTTTAATCTGCTCTACT
131 GAGGTTTTAATCCGCTCCACTGCAACTTCAGGGAGATAGGATTATCGGCTTTAATCTGCTCCACT
31711853 GCAACTTCAGGGAGATAAGACT
196 GCAACTTCAGGGAGATAAGACT
31711875 TGCCATCTTCAGTCTGCCCCACTGCAACTTCAGGAGGATAAGACTTGCTTACTTAGTCTGCTCCA
1 TGCCATCTTCAGTCTGCCCCACTGCAACTTCAGGAGGATAAGACTTGCTTACTTAGTCTGCTCCA
*
31711940 CTGCAACTTCAAGGAGATAATACTAGATGCGATCTGCTCTCTGCAACTTCAGAGAGATAAGATCT
66 CTGCAACTTCAAGGAGATAAGACTAGATGCGATCTGCTCTCTGCAACTTCAGAGAGATAAGATCT
* *
31712005 GAGGTTTTAATCCGCTCCAATACAACTTCAGGGAGATAGGATTATCGGCTTTAATCTGCTCCACT
131 GAGGTTTTAATCCGCTCCACTGCAACTTCAGGGAGATAGGATTATCGGCTTTAATCTGCTCCACT
31712070 GCAACTTCAGGGAGATAAGACT
196 GCAACTTCAGGGAGATAAGACT
* *
31712092 TGCCATCTTCAGTCTG-CCCACTGCAACTTCAGGAGGATAAGACATGCTTACTTAGTCTGATCCA
1 TGCCATCTTCAGTCTGCCCCACTGCAACTTCAGGAGGATAAGACTTGCTTACTTAGTCTGCTCCA
* * *
31712156 CTGCAACTTCAAGGAGATAAGACTAGATGCGATATGCTTTTTGCAACTTCAGAGAGATAAGATCT
66 CTGCAACTTCAAGGAGATAAGACTAGATGCGATCTGCTCTCTGCAACTTCAGAGAGATAAGATCT
* *
31712221 GAGGTTTTCATCCACTCCACTGCAACTTCAGGGAGATAGGATT
131 GAGGTTTTAATCCGCTCCACTGCAACTTCAGGGAGATAGGATT
31712264 TACAATCTTC
Statistics
Matches: 370, Mismatches: 19, Indels: 1
0.95 0.05 0.00
Matches are distributed among these distances:
216 146 0.39
217 224 0.61
ACGTcount: A:0.27, C:0.24, G:0.21, T:0.28
Consensus pattern (217 bp):
TGCCATCTTCAGTCTGCCCCACTGCAACTTCAGGAGGATAAGACTTGCTTACTTAGTCTGCTCCA
CTGCAACTTCAAGGAGATAAGACTAGATGCGATCTGCTCTCTGCAACTTCAGAGAGATAAGATCT
GAGGTTTTAATCCGCTCCACTGCAACTTCAGGGAGATAGGATTATCGGCTTTAATCTGCTCCACT
GCAACTTCAGGGAGATAAGACT
Found at i:31712390 original size:44 final size:44
Alignment explanation
Indices: 31712342--31712790 Score: 145
Period size: 44 Copynumber: 10.2 Consensus size: 44
31712332 TATCTTGGAA
*
31712342 AGATAAGATTCGCCGTCTTCGATCTGCTCCACTACTGCTTAGGG
1 AGATAAGATTCGCCGTCTTCAATCTGCTCCACTACTGCTTAGGG
* ** * * *** * *
31712386 AGATAAGA-TCTACAATCTTCAACCTTCTCTGTTGCTGCTGAGGG
1 AGATAAGATTC-GCCGTCTTCAATCTGCTCCACTACTGCTTAGGG
* * ** * * *
31712430 AGACAAGGCTT-GGTGGCTTAAATCTGCTTCCCACTA-T-CTT-GGAA
1 AGATAA-GATTCGCCGTCTTCAATCTGC-T-CCACTACTGCTTAGG-G
* ** *
31712474 AGATAAGATTCGCCATCTTTGATCTGGTCCACTACTGCTTAGGG
1 AGATAAGATTCGCCGTCTTCAATCTGCTCCACTACTGCTTAGGG
* ** * * ** * * *
31712518 AGATAAGA-TCTACAATCTTCAACCTTCTCCGTTGCTGCTGAAGG
1 AGATAAGATTC-GCCGTCTTCAATCTGCTCCACTACTGCTTAGGG
* * ** * * *
31712562 AGACAAGGCTT-GGTGGCTTAAATCTGCTTCCCACTA-T-CTT-GGAA
1 AGATAA-GATTCGCCGTCTTCAATCTGC-T-CCACTACTGCTTAGG-G
*
31712606 AGATAAGATTCGCCGTCTTCGATCTGCTCCACTACTGCTTAGGG
1 AGATAAGATTCGCCGTCTTCAATCTGCTCCACTACTGCTTAGGG
* ** * * * * *
31712650 AGATAAGA-TCTACAATCTTCAACCTTCTCCGCTGCTGCTGAGGG
1 AGATAAGATTC-GCCGTCTTCAATCTGCTCCACTACTGCTTAGGG
* ** ** * * *
31712694 AGACAAG-GCCTGGTGGCTTAAATCTGCTTCCCACTA-T-CTT-GGAA
1 AGATAAGATTC-GCCGTCTTCAATCTGC-T-CCACTACTGCTTAGG-G
*
31712738 AGATAAGATTCGCCGTCTTCGATCTGCTCCACTACTGCTTAGGG
1 AGATAAGATTCGCCGTCTTCAATCTGCTCCACTACTGCTTAGGG
31712782 AGATAAGAT
1 AGATAAGAT
31712791 CTACAATCTT
Statistics
Matches: 271, Mismatches: 105, Indels: 58
0.62 0.24 0.13
Matches are distributed among these distances:
42 18 0.07
43 23 0.08
44 204 0.75
45 15 0.06
46 11 0.04
ACGTcount: A:0.24, C:0.24, G:0.22, T:0.29
Consensus pattern (44 bp):
AGATAAGATTCGCCGTCTTCAATCTGCTCCACTACTGCTTAGGG
Found at i:31712430 original size:132 final size:132
Alignment explanation
Indices: 31712250--31712902 Score: 1180
Period size: 132 Copynumber: 4.9 Consensus size: 132
31712240 CTGCAACTTC
* * *
31712250 AGGGAGATAGGATTTACAATCTTCAACCTTCTCCGCTGCTGCTCAGGGAGACAAGGCTTGGTGGC
1 AGGGAGATAAGATCTACAATCTTCAACCTTCTCCGCTGCTGCTGAGGGAGACAAGGCTTGGTGGC
31712315 TTAAATCTGCTTCCCACTATCTTGGAAAGATAAGATTCGCCGTCTTCGATCTGCTCCACTACTGC
66 TTAAATCTGCTTCCCACTATCTTGGAAAGATAAGATTCGCCGTCTTCGATCTGCTCCACTACTGC
31712380 TT
131 TT
* *
31712382 AGGGAGATAAGATCTACAATCTTCAACCTTCTCTGTTGCTGCTGAGGGAGACAAGGCTTGGTGGC
1 AGGGAGATAAGATCTACAATCTTCAACCTTCTCCGCTGCTGCTGAGGGAGACAAGGCTTGGTGGC
* * *
31712447 TTAAATCTGCTTCCCACTATCTTGGAAAGATAAGATTCGCCATCTTTGATCTGGTCCACTACTGC
66 TTAAATCTGCTTCCCACTATCTTGGAAAGATAAGATTCGCCGTCTTCGATCTGCTCCACTACTGC
31712512 TT
131 TT
* *
31712514 AGGGAGATAAGATCTACAATCTTCAACCTTCTCCGTTGCTGCTGAAGGAGACAAGGCTTGGTGGC
1 AGGGAGATAAGATCTACAATCTTCAACCTTCTCCGCTGCTGCTGAGGGAGACAAGGCTTGGTGGC
31712579 TTAAATCTGCTTCCCACTATCTTGGAAAGATAAGATTCGCCGTCTTCGATCTGCTCCACTACTGC
66 TTAAATCTGCTTCCCACTATCTTGGAAAGATAAGATTCGCCGTCTTCGATCTGCTCCACTACTGC
31712644 TT
131 TT
*
31712646 AGGGAGATAAGATCTACAATCTTCAACCTTCTCCGCTGCTGCTGAGGGAGACAAGGCCTGGTGGC
1 AGGGAGATAAGATCTACAATCTTCAACCTTCTCCGCTGCTGCTGAGGGAGACAAGGCTTGGTGGC
31712711 TTAAATCTGCTTCCCACTATCTTGGAAAGATAAGATTCGCCGTCTTCGATCTGCTCCACTACTGC
66 TTAAATCTGCTTCCCACTATCTTGGAAAGATAAGATTCGCCGTCTTCGATCTGCTCCACTACTGC
31712776 TT
131 TT
31712778 AGGGAGATAAGATCTACAATCTTCAACCTTCTCCGCTGCTGCTGAGGGAGACAAGGCTTGGTGGC
1 AGGGAGATAAGATCTACAATCTTCAACCTTCTCCGCTGCTGCTGAGGGAGACAAGGCTTGGTGGC
* * *
31712843 TTAAATCTGCTTCCCACTATCTTGGAAAGATAAGATTCACCGTCTTCAATCTACTCCACT
66 TTAAATCTGCTTCCCACTATCTTGGAAAGATAAGATTCGCCGTCTTCGATCTGCTCCACT
31712903 GTCAATGCAG
Statistics
Matches: 501, Mismatches: 20, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
132 501 1.00
ACGTcount: A:0.24, C:0.25, G:0.21, T:0.29
Consensus pattern (132 bp):
AGGGAGATAAGATCTACAATCTTCAACCTTCTCCGCTGCTGCTGAGGGAGACAAGGCTTGGTGGC
TTAAATCTGCTTCCCACTATCTTGGAAAGATAAGATTCGCCGTCTTCGATCTGCTCCACTACTGC
TT
Found at i:31718076 original size:97 final size:98
Alignment explanation
Indices: 31717903--31718098 Score: 322
Period size: 97 Copynumber: 2.0 Consensus size: 98
31717893 GTACAATAAA
* * *
31717903 ACTTTAAAAGAACATCCACTTATCCAAGATTTAAGAAATCACACTCAATACGTTAGGGCACGATT
1 ACTTTAAAAGAACATCCACTTATCCAAGATTTAAGAAATCACACCCAATACATTAGGGCACAATT
*
31717968 CCTCTAGAATCCC-AACTCGAAATATTTCCTTT
66 CCTCTAAAATCCCAAACTCGAAATATTTCCTTT
*
31718000 ACTTTAAAAGAACATTCACTTATCCAAGATTTAAGAAATCACACCCAATACATTAGGGCACAATT
1 ACTTTAAAAGAACATCCACTTATCCAAGATTTAAGAAATCACACCCAATACATTAGGGCACAATT
* *
31718065 CCTTTAAAATCCCAAACTCGGAATATTTCCTTT
66 CCTCTAAAATCCCAAACTCGAAATATTTCCTTT
31718098 A
1 A
31718099 TTATTTTTTA
Statistics
Matches: 91, Mismatches: 7, Indels: 1
0.92 0.07 0.01
Matches are distributed among these distances:
97 72 0.79
98 19 0.21
ACGTcount: A:0.38, C:0.24, G:0.09, T:0.29
Consensus pattern (98 bp):
ACTTTAAAAGAACATCCACTTATCCAAGATTTAAGAAATCACACCCAATACATTAGGGCACAATT
CCTCTAAAATCCCAAACTCGAAATATTTCCTTT
Found at i:31718797 original size:24 final size:25
Alignment explanation
Indices: 31718768--31718815 Score: 80
Period size: 25 Copynumber: 2.0 Consensus size: 25
31718758 ATATAAATAT
*
31718768 GAAAATATTC-TTTAAAAAATATAG
1 GAAAATATTCGTTAAAAAAATATAG
31718792 GAAAATATTCGTTAAAAAAATATA
1 GAAAATATTCGTTAAAAAAATATA
31718816 CATGTACATA
Statistics
Matches: 22, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
24 10 0.45
25 12 0.55
ACGTcount: A:0.56, C:0.04, G:0.08, T:0.31
Consensus pattern (25 bp):
GAAAATATTCGTTAAAAAAATATAG
Found at i:31719585 original size:19 final size:19
Alignment explanation
Indices: 31719561--31719673 Score: 172
Period size: 19 Copynumber: 5.8 Consensus size: 19
31719551 AATCATATAT
31719561 TCTAAGATTGCATATCATA
1 TCTAAGATTGCATATCATA
**
31719580 TCTAAGATTATATATCATA
1 TCTAAGATTGCATATCATA
31719599 TCTAAGATTGCATATCATA
1 TCTAAGATTGCATATCATA
31719618 TCTAAGATTGCATATATCATA
1 TCTAAGATTGC--ATATCATA
**
31719639 TCTTGGATTGCATATCATA
1 TCTAAGATTGCATATCATA
31719658 TCTAAGATTGCATATC
1 TCTAAGATTGCATATC
31719674 CTCAAAAATT
Statistics
Matches: 84, Mismatches: 8, Indels: 4
0.88 0.08 0.04
Matches are distributed among these distances:
19 67 0.80
21 17 0.20
ACGTcount: A:0.35, C:0.15, G:0.11, T:0.39
Consensus pattern (19 bp):
TCTAAGATTGCATATCATA
Found at i:31719648 original size:40 final size:40
Alignment explanation
Indices: 31719561--31719672 Score: 192
Period size: 40 Copynumber: 2.9 Consensus size: 40
31719551 AATCATATAT
31719561 TCTAAGATTGCATATCATATCTAAGATT--ATATATCATA
1 TCTAAGATTGCATATCATATCTAAGATTGCATATATCATA
31719599 TCTAAGATTGCATATCATATCTAAGATTGCATATATCATA
1 TCTAAGATTGCATATCATATCTAAGATTGCATATATCATA
**
31719639 TCTTGGATTGCATATCATATCTAAGATTGCATAT
1 TCTAAGATTGCATATCATATCTAAGATTGCATAT
31719673 CCTCAAAAAT
Statistics
Matches: 70, Mismatches: 2, Indels: 2
0.95 0.03 0.03
Matches are distributed among these distances:
38 28 0.40
40 42 0.60
ACGTcount: A:0.36, C:0.14, G:0.11, T:0.39
Consensus pattern (40 bp):
TCTAAGATTGCATATCATATCTAAGATTGCATATATCATA
Found at i:31719654 original size:59 final size:56
Alignment explanation
Indices: 31719554--31719673 Score: 170
Period size: 59 Copynumber: 2.1 Consensus size: 56
31719544 ATTACAAAAT
*
31719554 CATAT-ATTCTAAGATTGCATATCATATCTAAGATTATATATCATATCTAAGATTG
1 CATATCATTCTAAGATTGCATATCATATCTAAGATTACATATCATATCTAAGATTG
** *
31719609 CATATCATATCTAAGATTGCATATATCATATCTTGGATTGCATATCATATCTAAGATTG
1 CATATCAT-TCTAAGATTGC--ATATCATATCTAAGATTACATATCATATCTAAGATTG
31719668 CATATC
1 CATATC
31719674 CTCAAAAATT
Statistics
Matches: 57, Mismatches: 4, Indels: 4
0.88 0.06 0.06
Matches are distributed among these distances:
55 5 0.09
56 2 0.04
57 11 0.19
59 39 0.68
ACGTcount: A:0.36, C:0.15, G:0.10, T:0.39
Consensus pattern (56 bp):
CATATCATTCTAAGATTGCATATCATATCTAAGATTACATATCATATCTAAGATTG
Found at i:31726430 original size:27 final size:28
Alignment explanation
Indices: 31726371--31726424 Score: 74
Period size: 27 Copynumber: 2.0 Consensus size: 28
31726361 AAAATAATTA
*
31726371 AAATTAAATATGTTAATAATTTAAGTGC
1 AAATTAAATATGTTAATAATTAAAGTGC
* *
31726399 AAATTAATTAT-TTTATAATTAAAGTG
1 AAATTAAATATGTTAATAATTAAAGTG
31726425 TGAATTTTGA
Statistics
Matches: 23, Mismatches: 3, Indels: 1
0.85 0.11 0.04
Matches are distributed among these distances:
27 13 0.57
28 10 0.43
ACGTcount: A:0.46, C:0.02, G:0.09, T:0.43
Consensus pattern (28 bp):
AAATTAAATATGTTAATAATTAAAGTGC
Found at i:31731329 original size:53 final size:52
Alignment explanation
Indices: 31731272--31731377 Score: 126
Period size: 53 Copynumber: 2.0 Consensus size: 52
31731262 TATATTATGA
*
31731272 TTTTAGTAAATTCATA-TAAGAATAATTATATTAAGAAT-TTCATTAAATTATTT
1 TTTTAGTAAATT-ATATTAAGAATAATTAAATTAA-AATATT-ATTAAATTATTT
* * *
31731325 TTTTATTAAATTATATTTAATACTAATTAAATTAAAATATTATTAAATTATTT
1 TTTTAGTAAATTATA-TTAAGAATAATTAAATTAAAATATTATTAAATTATTT
31731378 ATTATTTTAT
Statistics
Matches: 46, Mismatches: 4, Indels: 6
0.82 0.07 0.11
Matches are distributed among these distances:
52 3 0.07
53 26 0.57
54 17 0.37
ACGTcount: A:0.44, C:0.03, G:0.03, T:0.50
Consensus pattern (52 bp):
TTTTAGTAAATTATATTAAGAATAATTAAATTAAAATATTATTAAATTATTT
Found at i:31731592 original size:16 final size:16
Alignment explanation
Indices: 31731571--31731611 Score: 73
Period size: 16 Copynumber: 2.6 Consensus size: 16
31731561 TTGAATTACT
31731571 ATTACAGCTCTATTCC
1 ATTACAGCTCTATTCC
*
31731587 ATTACACCTCTATTCC
1 ATTACAGCTCTATTCC
31731603 ATTACAGCT
1 ATTACAGCT
31731612 AGGGGTGAGC
Statistics
Matches: 23, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
16 23 1.00
ACGTcount: A:0.27, C:0.32, G:0.05, T:0.37
Consensus pattern (16 bp):
ATTACAGCTCTATTCC
Found at i:31732146 original size:19 final size:19
Alignment explanation
Indices: 31732113--31732160 Score: 57
Period size: 19 Copynumber: 2.6 Consensus size: 19
31732103 TAAACAATTC
31732113 AATAATATAAA--TAATAT
1 AATAATATAAATTTAATAT
*
31732130 AA-AATATGAAATTTAATTT
1 AATAATAT-AAATTTAATAT
31732149 AATAATATAAAT
1 AATAATATAAAT
31732161 AGTATATATA
Statistics
Matches: 26, Mismatches: 1, Indels: 6
0.79 0.03 0.18
Matches are distributed among these distances:
16 5 0.19
17 5 0.19
19 11 0.42
20 5 0.19
ACGTcount: A:0.60, C:0.00, G:0.02, T:0.38
Consensus pattern (19 bp):
AATAATATAAATTTAATAT
Found at i:31732666 original size:9 final size:9
Alignment explanation
Indices: 31732652--31732696 Score: 74
Period size: 9 Copynumber: 5.1 Consensus size: 9
31732642 TATAGTTTGA
31732652 TATTCGAAT
1 TATTCGAAT
31732661 TATTCGAAT
1 TATTCGAAT
31732670 TATTCGAAT
1 TATTCGAAT
*
31732679 TATTCGAGT
1 TATTCGAAT
31732688 TA-TCGAAT
1 TATTCGAAT
31732696 T
1 T
31732697 CGAAAACTCA
Statistics
Matches: 34, Mismatches: 2, Indels: 1
0.92 0.05 0.03
Matches are distributed among these distances:
8 6 0.18
9 28 0.82
ACGTcount: A:0.31, C:0.11, G:0.13, T:0.44
Consensus pattern (9 bp):
TATTCGAAT
Found at i:31740993 original size:11 final size:11
Alignment explanation
Indices: 31740979--31741044 Score: 63
Period size: 11 Copynumber: 6.4 Consensus size: 11
31740969 TTATTTTTAA
31740979 TTTTAAAATAT
1 TTTTAAAATAT
31740990 TTTTAAAATACT
1 TTTTAAAATA-T
*
31741002 TTTTAAACT-T
1 TTTTAAAATAT
31741012 TTTT---A-A-
1 TTTTAAAATAT
31741018 TTTTAAAATAT
1 TTTTAAAATAT
31741029 TTTTAAAATACT
1 TTTTAAAATA-T
31741041 TTTT
1 TTTT
31741045 TTAATTTTTA
Statistics
Matches: 45, Mismatches: 2, Indels: 15
0.73 0.03 0.24
Matches are distributed among these distances:
6 4 0.09
9 1 0.02
10 6 0.13
11 20 0.44
12 14 0.31
ACGTcount: A:0.38, C:0.05, G:0.00, T:0.58
Consensus pattern (11 bp):
TTTTAAAATAT
Found at i:31741053 original size:39 final size:39
Alignment explanation
Indices: 31740961--31741053 Score: 143
Period size: 39 Copynumber: 2.4 Consensus size: 39
31740951 AATATATTTA
*
31740961 TTTTTTTATTATTTTTAATTTTAAAATATTTTTAAAATAC
1 TTTTTTTAAT-TTTTTAATTTTAAAATATTTTTAAAATAC
*
31741001 -TTTTTAAACTTTTTTAATTTTAAAATATTTTTAAAATAC
1 TTTTTTTAA-TTTTTTAATTTTAAAATATTTTTAAAATAC
31741040 TTTTTTTAATTTTT
1 TTTTTTTAATTTTT
31741054 AAAATAAATT
Statistics
Matches: 48, Mismatches: 3, Indels: 5
0.86 0.05 0.09
Matches are distributed among these distances:
39 40 0.83
40 8 0.17
ACGTcount: A:0.33, C:0.03, G:0.00, T:0.63
Consensus pattern (39 bp):
TTTTTTTAATTTTTTAATTTTAAAATATTTTTAAAATAC
Found at i:31741065 original size:21 final size:21
Alignment explanation
Indices: 31741027--31741066 Score: 62
Period size: 21 Copynumber: 1.9 Consensus size: 21
31741017 ATTTTAAAAT
**
31741027 ATTTTTAAAATACTTTTTTTA
1 ATTTTTAAAATAAATTTTTTA
31741048 ATTTTTAAAATAAATTTTT
1 ATTTTTAAAATAAATTTTT
31741067 GGTATTTATT
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
21 17 1.00
ACGTcount: A:0.38, C:0.03, G:0.00, T:0.60
Consensus pattern (21 bp):
ATTTTTAAAATAAATTTTTTA
Found at i:31741073 original size:22 final size:21
Alignment explanation
Indices: 31741026--31741084 Score: 59
Period size: 22 Copynumber: 2.8 Consensus size: 21
31741016 AATTTTAAAA
* *
31741026 TATTTTTAAAAT-ACTTTTTT
1 TATTTTTAAAATAAATTTTTG
31741046 TAATTTTTAAAATAAATTTTTGG
1 T-ATTTTTAAAATAAATTTTT-G
31741069 TATTTATTAAAA-AAAT
1 TATTT-TTAAAATAAAT
31741085 GGGCCGGGCT
Statistics
Matches: 33, Mismatches: 2, Indels: 6
0.80 0.05 0.15
Matches are distributed among these distances:
20 1 0.03
21 11 0.33
22 14 0.42
23 7 0.21
ACGTcount: A:0.41, C:0.02, G:0.03, T:0.54
Consensus pattern (21 bp):
TATTTTTAAAATAAATTTTTG
Found at i:31741647 original size:54 final size:54
Alignment explanation
Indices: 31741584--31741752 Score: 180
Period size: 65 Copynumber: 2.9 Consensus size: 54
31741574 TTGATTAGGT
* *
31741584 TTTATGAAAAATTAAATTAGGGTATTATGTTTTTAATTG-TATAGGGTTTTAAGG
1 TTTAGGAAAAATTAAATTAGGGTATTAGGTTTTTAATTGTTA-AGGGTTTTAAGG
31741638 TTTAGGAAAAATTAAATTAGGGTATTAGGTTTTTAATTGTTAAGGGTTTCTGGGCTTAATTAGGG
1 TTTAGGAAAAATTAAATTAGGGTATTAGGTTTTTAATTGTTAAGGG--T-T----TT-A--A-GG
*
31741703 TTTAGGAAAAATTAAATCAGGGTATTAGGTTTTTAATTGTTTAA-GGTTTT
1 TTTAGGAAAAATTAAATTAGGGTATTAGGTTTTTAATTG-TTAAGGGTTTT
31741753 GGGATTTGAT
Statistics
Matches: 99, Mismatches: 3, Indels: 22
0.80 0.02 0.18
Matches are distributed among these distances:
54 41 0.41
55 2 0.02
56 1 0.01
57 1 0.01
58 2 0.02
61 2 0.02
62 2 0.02
63 1 0.01
64 1 0.01
65 42 0.42
66 4 0.04
ACGTcount: A:0.31, C:0.02, G:0.22, T:0.44
Consensus pattern (54 bp):
TTTAGGAAAAATTAAATTAGGGTATTAGGTTTTTAATTGTTAAGGGTTTTAAGG
Found at i:31741786 original size:130 final size:130
Alignment explanation
Indices: 31741637--31741881 Score: 382
Period size: 130 Copynumber: 1.9 Consensus size: 130
31741627 GGGTTTTAAG
* * *
31741637 GTTTAGGAAAAATTAAATTAGGGTATTAGGTTTTTAATTGTTAAGGGTTTCTGGGCTTAATTAGG
1 GTTTAGGAAAAATTAAATTACGGTATTAAGTTTTTAATTGTTAAGGGTTTCTGGGCTTAATTAAG
* *
31741702 GTTTAGGAAAAATTAAATCAGGGTATTAGGTTTTTAATTGTTTAAGGTTTTGGGATTTGATTAGT
66 GATTAGAAAAAATTAAATCAGGGTATTAGGTTTTTAATTGTTTAAGGTTTTGGGATTTGATTAGT
** * * * *
31741767 GTTTAGGAAATTTTAAATTACGGTATTAAGTTTTTAATTGTTTAGGGTTTTTGGGTTTGATTAAG
1 GTTTAGGAAAAATTAAATTACGGTATTAAGTTTTTAATTGTTAAGGGTTTCTGGGCTTAATTAAG
*
31741832 GATTAGAAAAAATTAAATTAGGGTATTAGGTTTTTAATTGTTTAAGGTTT
66 GATTAGAAAAAATTAAATCAGGGTATTAGGTTTTTAATTGTTTAAGGTTT
31741882 AATTACTTTT
Statistics
Matches: 103, Mismatches: 12, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
130 103 1.00
ACGTcount: A:0.30, C:0.02, G:0.24, T:0.45
Consensus pattern (130 bp):
GTTTAGGAAAAATTAAATTACGGTATTAAGTTTTTAATTGTTAAGGGTTTCTGGGCTTAATTAAG
GATTAGAAAAAATTAAATCAGGGTATTAGGTTTTTAATTGTTTAAGGTTTTGGGATTTGATTAGT
Found at i:31741881 original size:65 final size:65
Alignment explanation
Indices: 31741632--31741881 Score: 344
Period size: 65 Copynumber: 3.8 Consensus size: 65
31741622 GTATAGGGTT
* * *
31741632 TTAAGGTTTAGGAAAAATTAAATTAGGGTATTAGGTTTTTAATTG-TTAAGGGTTTCTGGGCTTA
1 TTAAGGTTTAGGAAAAATTAAATTAGGGTATTAGGTTTTTAATTGTTTAA-GGTTTTTGGGTTTG
31741696 A
65 A
* *
31741697 TTAGGGTTTAGGAAAAATTAAATCAGGGTATTAGGTTTTTAATTGTTTAAGG-TTTTGGGATTTG
1 TTAAGGTTTAGGAAAAATTAAATTAGGGTATTAGGTTTTTAATTGTTTAAGGTTTTTGGG-TTTG
31741761 A
65 A
** * * *
31741762 TT-AGTGTTTAGGAAATTTTAAATTACGGTATTAAGTTTTTAATTGTTTAGGGTTTTTGGGTTTG
1 TTAAG-GTTTAGGAAAAATTAAATTAGGGTATTAGGTTTTTAATTGTTTAAGGTTTTTGGGTTTG
31741826 A
65 A
* *
31741827 TTAAGGATTAGAAAAAATTAAATTAGGGTATTAGGTTTTTAATTGTTTAAGGTTT
1 TTAAGGTTTAGGAAAAATTAAATTAGGGTATTAGGTTTTTAATTGTTTAAGGTTT
31741882 AATTACTTTT
Statistics
Matches: 161, Mismatches: 19, Indels: 10
0.85 0.10 0.05
Matches are distributed among these distances:
64 7 0.04
65 141 0.88
66 13 0.08
ACGTcount: A:0.30, C:0.02, G:0.24, T:0.45
Consensus pattern (65 bp):
TTAAGGTTTAGGAAAAATTAAATTAGGGTATTAGGTTTTTAATTGTTTAAGGTTTTTGGGTTTGA
Found at i:31745875 original size:113 final size:113
Alignment explanation
Indices: 31745717--31745939 Score: 301
Period size: 114 Copynumber: 2.0 Consensus size: 113
31745707 GATTCACAAA
31745717 AAGCGCCGCAAAAAAATAAGGCCAACAACGTCGTTTATTGAG-TTTTTGGGCCATTAGCGGCGTT
1 AAGCGCCGCAAAAAAATAAGGCCAACAACGTCGTTTATTGAGTTTTTTGGGCCATTAGCGGCGTT
*
31745781 TT-TACAAAAGCGCCGCTAATGCTCTTG-TCTTTAGCGGCGTTTTTTGAG
66 TTCT-CAAAAGCGCCGCTAATGAT-TTGTTCTTTAGCGGCGTTTTTTGAG
* * ** *
31745829 AAGCGCCGCAAAAAACCTAAGGGCAACAACGTCGTTT-TCTTTGTTTTTTGGGCCTTTAGCGGCG
1 AAGCGCCGCAAAAAA-ATAAGGCCAACAACGTCGTTTAT-TGAGTTTTTTGGGCCATTAGCGGCG
* * *
31745893 TTTTCTTAAAAGCGCTGCTAATGATTTGTTTTTTAGCGGCGTTTTTT
64 TTTTCTCAAAAGCGCCGCTAATGATTTGTTCTTTAGCGGCGTTTTTT
31745940 TGTAAGTGCC
Statistics
Matches: 97, Mismatches: 9, Indels: 8
0.85 0.08 0.07
Matches are distributed among these distances:
112 16 0.16
113 24 0.25
114 56 0.58
115 1 0.01
ACGTcount: A:0.23, C:0.20, G:0.23, T:0.34
Consensus pattern (113 bp):
AAGCGCCGCAAAAAAATAAGGCCAACAACGTCGTTTATTGAGTTTTTTGGGCCATTAGCGGCGTT
TTCTCAAAAGCGCCGCTAATGATTTGTTCTTTAGCGGCGTTTTTTGAG
Found at i:31746340 original size:18 final size:21
Alignment explanation
Indices: 31746294--31746342 Score: 59
Period size: 18 Copynumber: 2.5 Consensus size: 21
31746284 TAGTTCGACT
31746294 AAATTAATATATAAATCAAAC
1 AAATTAATATATAAATCAAAC
* *
31746315 AAAGTAATATA-AAA-C-ACC
1 AAATTAATATATAAATCAAAC
31746333 AAATTAATAT
1 AAATTAATAT
31746343 CGTGATTAAT
Statistics
Matches: 25, Mismatches: 3, Indels: 3
0.81 0.10 0.10
Matches are distributed among these distances:
18 11 0.44
19 1 0.04
20 3 0.12
21 10 0.40
ACGTcount: A:0.61, C:0.10, G:0.02, T:0.27
Consensus pattern (21 bp):
AAATTAATATATAAATCAAAC
Found at i:31746944 original size:7 final size:7
Alignment explanation
Indices: 31746932--31746958 Score: 54
Period size: 7 Copynumber: 3.9 Consensus size: 7
31746922 GAGGTAAGGG
31746932 TTTGGGA
1 TTTGGGA
31746939 TTTGGGA
1 TTTGGGA
31746946 TTTGGGA
1 TTTGGGA
31746953 TTTGGG
1 TTTGGG
31746959 TTTTTGAGTT
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 20 1.00
ACGTcount: A:0.11, C:0.00, G:0.44, T:0.44
Consensus pattern (7 bp):
TTTGGGA
Found at i:31747905 original size:231 final size:231
Alignment explanation
Indices: 31747408--31747889 Score: 786
Period size: 230 Copynumber: 2.1 Consensus size: 231
31747398 AAGTTGTGAA
*
31747408 GAAAACGGCGCCGTTTTCTTATTACATTTAGTGGCGTTTTATACAAAACGCCGCAACTATGTTTT
1 GAAAACGGCGCCGTTTTCTTATTACATTTAGTGGCGTTTTAGACAAAACGCCGCAACTATGTTTT
* * * ** *
31747473 CTTTGTTACGGGAACGGCGTCGTTTTCCATTGTTATTAGTGGCGTTACACCCAAAACGCCGCAAA
66 CTTTGTTACAGAAACGGCATCGTTTTCCAAGGATATTAGTGGCGTTACACCCAAAACGCCGCAAA
*
31747538 TATATTTTAAAGATTACACGAGTTTGCGTTAAACGACTGCGTTTGACCTTATATTTAGTGGCATT
131 TATATTTTAAAGATTACACGAGTTTGCGTTAAACGACTGCGTTTGACCTTATATTTAGTGGCACT
* *
31747603 TATATATAAACGTCGCAAACTCGAAATGGTGTTACG
196 TATATATAAACGCCGCAAAATCGAAATGGTGTTACG
* * * *
31747639 AAAAACGGCGCCATTTTCTTATTACATTTAGTGGCGTTTTAGATAAAACGCCGCAAGTATGTTTT
1 GAAAACGGCGCCGTTTTCTTATTACATTTAGTGGCGTTTTAGACAAAACGCCGCAACTATGTTTT
*
31747704 CTTTGTTACAGAAACGGCATCGTTTT-CAAGGATATTTGTGGCGTTACACCCAAAACGCCGCAAA
66 CTTTGTTACAGAAACGGCATCGTTTTCCAAGGATATTAGTGGCGTTACACCCAAAACGCCGCAAA
* * *
31747768 TATATTTTAAAGATTACAGGAGTTTGCTTTAAACGACTGCGTTTGACCTTATATTTAGTGGCGCT
131 TATATTTTAAAGATTACACGAGTTTGCGTTAAACGACTGCGTTTGACCTTATATTTAGTGGCACT
31747833 TATATATAAACGCCGCAAAATCGAAATGGTGTTACG
196 TATATATAAACGCCGCAAAATCGAAATGGTGTTACG
*
31747869 GAAAACGGCGCCGTTTACTTA
1 GAAAACGGCGCCGTTTTCTTA
31747890 GTTGGTTTTA
Statistics
Matches: 230, Mismatches: 21, Indels: 1
0.91 0.08 0.00
Matches are distributed among these distances:
230 147 0.64
231 83 0.36
ACGTcount: A:0.29, C:0.19, G:0.20, T:0.33
Consensus pattern (231 bp):
GAAAACGGCGCCGTTTTCTTATTACATTTAGTGGCGTTTTAGACAAAACGCCGCAACTATGTTTT
CTTTGTTACAGAAACGGCATCGTTTTCCAAGGATATTAGTGGCGTTACACCCAAAACGCCGCAAA
TATATTTTAAAGATTACACGAGTTTGCGTTAAACGACTGCGTTTGACCTTATATTTAGTGGCACT
TATATATAAACGCCGCAAAATCGAAATGGTGTTACG
Found at i:31747959 original size:230 final size:229
Alignment explanation
Indices: 31747409--31747960 Score: 667
Period size: 230 Copynumber: 2.4 Consensus size: 229
31747399 AGTTGTGAAG
* * * * ** *
31747409 AAAACGGCGCCGTTTTCTTATTACATTTAGTGGCGTTTTATACAAAACGCCGCAACTATGTTTTC
1 AAAACGGCGCCATTTACTTATTACATTTAGTGGCGTTTTA-ATAAAACGCCGCAAATATGCATTA
*** * * * ** *
31747474 TTTGTTACGGGAACGGCGTCGTTTTCCATTGTTATTAGTGGCGTTACACCCAAAACGCCGCAAAT
65 TAACTTACAGAAACGGCATCGTTTT-CAAGGATATTAGTGGCGTTACACCCAAAACGCCGCAAAT
*
31747539 ATATTTTAAAGATTACACGAGTTTGCGTTAAACGACTGCGTTTGACCTTATATTTAGTGGCATTT
129 ATATTTTAAAGATTACACGAGTTTGCGTTAAACGACTGCGTTTGACCTTATATTTAGTGGCACTT
* *
31747604 ATATATAAACGTCGCAAACTCGAAATGGTGTTACGA
194 ATATATAAACGCCGCAAAATCGAAATGGTGTTACGA
* * ** *
31747640 AAAACGGCGCCATTTTCTTATTACATTTAGTGGCGTTTTAGATAAAACGCCGCAAGTATGTTTTC
1 AAAACGGCGCCATTTACTTATTACATTTAGTGGCGTTTTA-ATAAAACGCCGCAAATATGCATTA
*** *
31747705 TTTGTTACAGAAACGGCATCGTTTTCAAGGATATTTGTGGCGTTACACCCAAAACGCCGCAAATA
65 TAACTTACAGAAACGGCATCGTTTTCAAGGATATTAGTGGCGTTACACCCAAAACGCCGCAAATA
* * *
31747770 TATTTTAAAGATTACAGGAGTTTGCTTTAAACGACTGCGTTTGACCTTATATTTAGTGGCGCTTA
130 TATTTTAAAGATTACACGAGTTTGCGTTAAACGACTGCGTTTGACCTTATATTTAGTGGCACTTA
*
31747835 TATATAAACGCCGCAAAATCGAAATGGTGTTACGG
195 TATATAAACGCCGCAAAATCGAAATGGTGTTACGA
* *** * * *
31747870 AAAACGGCGCCGTTTACTTAGTTGGTTTTAGTGGCGCTTTT-ATTAAACGCTGCAAATTTGCATT
1 AAAACGGCGCCATTTACTTA-TTACATTTAGTGGCG-TTTTAATAAAACGCCGCAAATATGCATT
* *
31747934 ATAACTTA-AGGAAACTGCGTCGTTTTC
64 ATAACTTACA-GAAACGGCATCGTTTTC
31747961 CATTGTTAGT
Statistics
Matches: 283, Mismatches: 35, Indels: 7
0.87 0.11 0.02
Matches are distributed among these distances:
229 1 0.00
230 183 0.65
231 95 0.34
232 4 0.01
ACGTcount: A:0.28, C:0.18, G:0.20, T:0.34
Consensus pattern (229 bp):
AAAACGGCGCCATTTACTTATTACATTTAGTGGCGTTTTAATAAAACGCCGCAAATATGCATTAT
AACTTACAGAAACGGCATCGTTTTCAAGGATATTAGTGGCGTTACACCCAAAACGCCGCAAATAT
ATTTTAAAGATTACACGAGTTTGCGTTAAACGACTGCGTTTGACCTTATATTTAGTGGCACTTAT
ATATAAACGCCGCAAAATCGAAATGGTGTTACGA
Found at i:31748275 original size:19 final size:19
Alignment explanation
Indices: 31748253--31748296 Score: 61
Period size: 19 Copynumber: 2.3 Consensus size: 19
31748243 CAGACATCTC
*
31748253 CCCCAAATCCCTAAAATTT
1 CCCCAAATCCCTAAAAGTT
* *
31748272 CCCCTAATCCCTAACAGTT
1 CCCCAAATCCCTAAAAGTT
31748291 CCCCAA
1 CCCCAA
31748297 CGTAGTCCAG
Statistics
Matches: 21, Mismatches: 4, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
19 21 1.00
ACGTcount: A:0.32, C:0.43, G:0.02, T:0.23
Consensus pattern (19 bp):
CCCCAAATCCCTAAAAGTT
Found at i:31750373 original size:39 final size:39
Alignment explanation
Indices: 31750316--31751154 Score: 160
Period size: 37 Copynumber: 21.9 Consensus size: 39
31750306 TACAATTTCT
31750316 TAACTTATATAATATTAAGATAACTTATATAATATTACA
1 TAACTTATATAATATTAAGATAACTTATATAATATTACA
* * * * *
31750355 TAACTTATATCATGTTAAGATAA--AAAATCGA-ATTACA
1 TAACTTATATAATATTAAGATAACTTATAT-AATATTACA
* * * *
31750392 TAACTTATATAATATTAATATTACTTTTATAATATTAAGA
1 TAACTTATATAATATTAAGATAACTTATATAATATT-ACA
* ** * * *
31750432 TCAAATT-T-CGA-ATT-ACATAACTTATACAATAATA-A
1 T-AACTTATATAATATTAAGATAACTTATATAATATTACA
* * * * * *
31750467 GGTAAAATT-TCT-A-ATT-ACATAACTTACACAATATTAAGA
1 --T-AACTTATATAATATTAAGATAACTTATATAATATT-ACA
** ** * *
31750506 TAAAAT-TCCAA-ATT-ACATAACTTATATAATATTAAGA
1 TAACTTATATAATATTAAGATAACTTATATAATATT-ACA
* * * **
31750543 TTACTTTTATAATATTAAGATCAAATT-T-CGA-ATTACA
1 TAACTTATATAATATTAAGAT-AACTTATATAATATTACA
* * *
31750580 TAACTTATATAATATT-ACATAACTTACGTACAATATTAAGA
1 TAACTTATATAATATTAAGATAACTTA--TATAATATT-ACA
* ** * * *
31750621 TAAAATT-T-CGA-ATT-ACATAAGTTATATAATATTAAGA
1 T-AACTTATATAATATTAAGATAACTTATATAATATT-ACA
* * * **
31750658 TTACTTTTATAATATTAAGATCAAATT-T-CGA-ATTACA
1 TAACTTATATAATATTAAGAT-AACTTATATAATATTACA
* ** *
31750695 TAACTTATATAATTTTCCG-TAACTTATATAATATTAAGA
1 TAACTTATATAATATTAAGATAACTTATATAATATT-ACA
* ** *
31750734 TAAAATT-T-CGA-ATT-ACATAACTTATATAATATTACA
1 T-AACTTATATAATATTAAGATAACTTATATAATATTACA
* * * **
31750770 TAACTTATACAATATTAAGGTAAGATT-T-CGA-ATTACA
1 TAACTTATATAATATTAAGATAA-CTTATATAATATTACA
* * * *
31750807 TAACTCATACAATATTAAGATTACTTATATAATATTAAGA
1 TAACTTATATAATATTAAGATAACTTATATAATATT-ACA
* * * * *
31750847 TTACTTTTATAATATTAAGATCAAATT-T-TTA-ATTACG
1 TAACTTATATAATATTAAGAT-AACTTATATAATATTACA
* ** *
31750884 TAACTTATATAATTTTCCG-TAACTTATATAATATTAAGA
1 TAACTTATATAATATTAAGATAACTTATATAATATT-ACA
* * *
31750923 TTACTTATATAATATTAAGATAAAATT-TCT-A-ATTACA
1 TAACTTATATAATATTAAGAT-AACTTATATAATATTACA
* * *
31750960 TAACTTACATAA-ATT-ACATAACTTATACAATATTA-A
1 TAACTTATATAATATTAAGATAACTTATATAATATTACA
* * * * * *
31750996 GGTAAGATT-T-CAA-ATT-ACATAACTCATACAATATTAAGA
1 --TAA-CTTATATAATATTAAGATAACTTATATAATATT-ACA
* * *
31751035 TTACTTATATAATATTAAGATAAAATTTCTAATTACATAAATTACA
1 TAACTTATATAATATTAAGAT--AACTTAT-A-TA-AT--ATTACA
* * * **
31751081 TAACTTATACAATATTAAGGTAAGATT-T-CGA-ATTACA
1 TAACTTATATAATATTAAGATAA-CTTATATAATATTACA
* * *
31751118 TAACTCATACAATATTAAGATTACTTATATAATATTA
1 TAACTTATATAATATTAAGATAACTTATATAATATTA
31751155 AGATAAAATT
Statistics
Matches: 581, Mismatches: 146, Indels: 146
0.67 0.17 0.17
Matches are distributed among these distances:
34 4 0.01
35 21 0.04
36 32 0.06
37 279 0.48
38 42 0.07
39 91 0.16
40 49 0.08
41 23 0.04
42 8 0.01
43 1 0.00
44 4 0.01
45 4 0.01
46 20 0.03
47 3 0.01
ACGTcount: A:0.46, C:0.10, G:0.05, T:0.39
Consensus pattern (39 bp):
TAACTTATATAATATTAAGATAACTTATATAATATTACA
Found at i:31750449 original size:57 final size:56
Alignment explanation
Indices: 31750335--31750462 Score: 168
Period size: 57 Copynumber: 2.3 Consensus size: 56
31750325 TAATATTAAG
* * * **
31750335 ATAACTTATATAATATTACATA-ACTTATATCATGTTAAGATAAAAAATCGAATTAC
1 ATAACTTATATAATATTA-ATATACTTATATAATATTAAGATCAAATTTCGAATTAC
*
31750391 ATAACTTATATAATATTAATATTACTTTTATAATATTAAGATCAAATTTCGAATTAC
1 ATAACTTATATAATATTAATA-TACTTATATAATATTAAGATCAAATTTCGAATTAC
*
31750448 ATAACTTATACAATA
1 ATAACTTATATAATA
31750463 ATAAGGTAAA
Statistics
Matches: 63, Mismatches: 7, Indels: 3
0.86 0.10 0.04
Matches are distributed among these distances:
55 3 0.05
56 18 0.29
57 42 0.67
ACGTcount: A:0.47, C:0.10, G:0.04, T:0.39
Consensus pattern (56 bp):
ATAACTTATATAATATTAATATACTTATATAATATTAAGATCAAATTTCGAATTAC
Found at i:31750476 original size:37 final size:37
Alignment explanation
Indices: 31750422--31750543 Score: 172
Period size: 37 Copynumber: 3.3 Consensus size: 37
31750412 TTACTTTTAT
* *
31750422 AATATTAAGATCAAATTTCGAATTACATAACTTATAC
1 AATATTAAGATAAAATTTCAAATTACATAACTTATAC
* * * *
31750459 AATAATAAGGTAAAATTTCTAATTACATAACTTACAC
1 AATATTAAGATAAAATTTCAAATTACATAACTTATAC
* *
31750496 AATATTAAGATAAAATTCCAAATTACATAACTTATAT
1 AATATTAAGATAAAATTTCAAATTACATAACTTATAC
31750533 AATATTAAGAT
1 AATATTAAGAT
31750544 TACTTTTATA
Statistics
Matches: 74, Mismatches: 11, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
37 74 1.00
ACGTcount: A:0.49, C:0.11, G:0.05, T:0.34
Consensus pattern (37 bp):
AATATTAAGATAAAATTTCAAATTACATAACTTATAC
Found at i:31750622 original size:115 final size:114
Alignment explanation
Indices: 31750480--31750847 Score: 521
Period size: 115 Copynumber: 3.2 Consensus size: 114
31750470 AAAATTTCTA
* *
31750480 ATTACATAACTTAC-ACAATATTAAGATAAAATTCCAAATTACATAACTTATATAATATTAAGAT
1 ATTACATAACTTACTACAATATTAAGATAAAATTTCGAATTACATAACTTATATAATATTAAGAT
31750544 TACTTTTATAATATTAAGATCAAATTTCGAATTACATAACTTATATAAT
66 TACTTTTATAATATTAAGATCAAATTTCGAATTACATAACTTATATAAT
*
31750593 ATTACATAACTTACGTACAATATTAAGATAAAATTTCGAATTACATAAGTTATATAATATTAAGA
1 ATTACATAACTTAC-TACAATATTAAGATAAAATTTCGAATTACATAACTTATATAATATTAAGA
31750658 TTACTTTTATAATATTAAGATCAAATTTCGAATTACATAACTTATATAAT
65 TTACTTTTATAATATTAAGATCAAATTTCGAATTACATAACTTATATAAT
* * * * *
31750708 TTTCCGTAACTTA-TATAATATTAAGATAAAATTTCGAATTACATAACTTATATAATATT-ACAT
1 ATTACATAACTTACTACAATATTAAGATAAAATTTCGAATTACATAACTTATATAATATTAAGAT
* * * * * *
31750771 AACTTATACAATATTAAGGT-AAGATTTCGAATTACATAACTCATACAAT
66 TACTTTTATAATATTAAGATCAA-ATTTCGAATTACATAACTTATATAAT
* * *
31750820 ATTAAGATTACTTA-TATAATATTAAGAT
1 ATT-ACATAACTTACTACAATATTAAGAT
31750848 TACTTTTATA
Statistics
Matches: 231, Mismatches: 20, Indels: 8
0.89 0.08 0.03
Matches are distributed among these distances:
111 2 0.01
112 45 0.19
113 78 0.34
115 106 0.46
ACGTcount: A:0.45, C:0.11, G:0.05, T:0.39
Consensus pattern (114 bp):
ATTACATAACTTACTACAATATTAAGATAAAATTTCGAATTACATAACTTATATAATATTAAGAT
TACTTTTATAATATTAAGATCAAATTTCGAATTACATAACTTATATAAT
Found at i:31750748 original size:56 final size:57
Alignment explanation
Indices: 31750485--31750847 Score: 480
Period size: 57 Copynumber: 6.4 Consensus size: 57
31750475 TTCTAATTAC
* * * *
31750485 ATAACTTACACAATATTAAGATAAAATTCCAAATTACATAACTTATATAATATTAAG
1 ATAACTTATATAATATTAAGATAAAATTTCGAATTACATAACTTATATAATATTAAG
* * * *
31750542 ATTACTTTTATAATATTAAGATCAAATTTCGAATTACATAACTTATATAATATT-AC
1 ATAACTTATATAATATTAAGATAAAATTTCGAATTACATAACTTATATAATATTAAG
* *
31750598 ATAACTTACGTACAATATTAAGATAAAATTTCGAATTACATAAGTTATATAATATTAAG
1 ATAACTTA--TATAATATTAAGATAAAATTTCGAATTACATAACTTATATAATATTAAG
* * * * **
31750657 ATTACTTTTATAATATTAAGATCAAATTTCGAATTACATAACTTATATAATTTTCCG
1 ATAACTTATATAATATTAAGATAAAATTTCGAATTACATAACTTATATAATATTAAG
*
31750714 -TAACTTATATAATATTAAGATAAAATTTCGAATTACATAACTTATATAATATT-AC
1 ATAACTTATATAATATTAAGATAAAATTTCGAATTACATAACTTATATAATATTAAG
* * * * *
31750769 ATAACTTATACAATATTAAGGTAAGATTTCGAATTACATAACTCATACAATATTAAG
1 ATAACTTATATAATATTAAGATAAAATTTCGAATTACATAACTTATATAATATTAAG
*
31750826 ATTACTTATATAATATTAAGAT
1 ATAACTTATATAATATTAAGAT
31750848 TACTTTTATA
Statistics
Matches: 264, Mismatches: 37, Indels: 10
0.85 0.12 0.03
Matches are distributed among these distances:
56 104 0.39
57 110 0.42
58 43 0.16
59 7 0.03
ACGTcount: A:0.45, C:0.10, G:0.06, T:0.39
Consensus pattern (57 bp):
ATAACTTATATAATATTAAGATAAAATTTCGAATTACATAACTTATATAATATTAAG
Found at i:31750852 original size:189 final size:199
Alignment explanation
Indices: 31750696--31751055 Score: 483
Period size: 208 Copynumber: 1.8 Consensus size: 199
31750686 CGAATTACAT
*
31750696 AACTTATATAATTTTCCGTAACTTATATAATATTAAG-A-TA-A-AAT-TT-CG-AATTACATAA
1 AACTTATATAATTTTCCGTAACTTATATAATATTAAGTACTATATAATATTAAGAAATTAC-TAA
*
31750754 CTT-AT-A-TA-AT-ATTACATAACTTATACAATATTAAGGTAAGATTTCGAATTACATAACTCA
65 -TTAATAACTACATAATTACATAACTTATACAATATTAAGGTAAGATTTCAAATTACATAACTCA
**
31750814 TACAATATTAAGATTACTTATATAATATTAAGATTACTTTTATAATATTAAGATCAAATTTTTAA
129 TACAATATTAAGATTACTTATATAATATTAAGATTACTTTTATAATATTAAGATCAAATTTCGAA
*
31750879 TTACGT
194 TTACAT
31750885 AACTTATATAATTTTCCGTAACTTATATAATATTAAGATTACTTATATAATATTAAGATAAAATT
1 AACTTATATAATTTTCCGTAACTTATATAATATTAAG--TAC-TATATAATATTAAG---AAATT
*
31750950 TCTAATTACATAACTTACATAAATTACATAACTTATACAATATTAAGGTAAGATTTCAAATTACA
60 ACTAATTA-ATAAC-TACAT-AATTACATAACTTATACAATATTAAGGTAAGATTTCAAATTACA
31751015 TAACTCATACAATATTAAGATTACTTATATAATATTAAGAT
122 TAACTCATACAATATTAAGATTACTTATATAATATTAAGAT
31751056 AAAATTTCTA
Statistics
Matches: 147, Mismatches: 3, Indels: 23
0.85 0.02 0.13
Matches are distributed among these distances:
189 37 0.25
192 1 0.01
194 2 0.01
195 1 0.01
196 3 0.02
197 2 0.01
198 1 0.01
200 2 0.01
201 3 0.02
202 7 0.05
203 1 0.01
205 2 0.01
206 2 0.01
208 83 0.56
ACGTcount: A:0.44, C:0.10, G:0.05, T:0.40
Consensus pattern (199 bp):
AACTTATATAATTTTCCGTAACTTATATAATATTAAGTACTATATAATATTAAGAAATTACTAAT
TAATAACTACATAATTACATAACTTATACAATATTAAGGTAAGATTTCAAATTACATAACTCATA
CAATATTAAGATTACTTATATAATATTAAGATTACTTTTATAATATTAAGATCAAATTTCGAATT
ACAT
Found at i:31750969 original size:9 final size:9
Alignment explanation
Indices: 31750955--31750984 Score: 51
Period size: 9 Copynumber: 3.3 Consensus size: 9
31750945 AAATTTCTAA
31750955 TTACATAAC
1 TTACATAAC
*
31750964 TTACATAAA
1 TTACATAAC
31750973 TTACATAAC
1 TTACATAAC
31750982 TTA
1 TTA
31750985 TACAATATTA
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
9 19 1.00
ACGTcount: A:0.47, C:0.17, G:0.00, T:0.37
Consensus pattern (9 bp):
TTACATAAC
Found at i:31751017 original size:46 final size:46
Alignment explanation
Indices: 31750964--31751120 Score: 161
Period size: 46 Copynumber: 3.2 Consensus size: 46
31750954 ATTACATAAC
31750964 TTACATAAATTACATAACTTATACAATATTAAGGTAAGATTTCAAA
1 TTACATAAATTACATAACTTATACAATATTAAGGTAAGATTTCAAA
* * * * *
31751010 TTACATAACTCATACAATATTAAGATTACTTATATAATATTAAGATAAAATTTCTAA
1 TTACATAAAT--TAC---A-T---A--ACTTATACAATATTAAGGTAAGATTTCAAA
*
31751067 TTACATAAATTACATAACTTATACAATATTAAGGTAAGATTTCGAA
1 TTACATAAATTACATAACTTATACAATATTAAGGTAAGATTTCAAA
31751113 TTACATAA
1 TTACATAA
31751121 CTCATACAAT
Statistics
Matches: 90, Mismatches: 10, Indels: 22
0.74 0.08 0.18
Matches are distributed among these distances:
46 43 0.48
48 4 0.04
51 2 0.02
52 2 0.02
55 4 0.04
57 35 0.39
ACGTcount: A:0.47, C:0.11, G:0.06, T:0.36
Consensus pattern (46 bp):
TTACATAAATTACATAACTTATACAATATTAAGGTAAGATTTCAAA
Found at i:31751053 original size:112 final size:112
Alignment explanation
Indices: 31750903--31751195 Score: 496
Period size: 103 Copynumber: 2.7 Consensus size: 112
31750893 TAATTTTCCG
* *
31750903 TAACTTATATAATATTAAGATTACTTATATAATATTAAGATAAAATTTCTAATTACATAACTTAC
1 TAACTCATACAATATTAAGATTACTTATATAATATTAAGATAAAATTTCTAATTACATAACTTAC
31750968 ATAAATTACATAACTTATACAATATTAAGGTAAGATTTCAAATTACA
66 ATAAATTACATAACTTATACAATATTAAGGTAAGATTTCAAATTACA
31751015 TAACTCATACAATATTAAGATTACTTATATAATATTAAGATAAAA----T--TT-C-TAA-TTAC
1 TAACTCATACAATATTAAGATTACTTATATAATATTAAGATAAAATTTCTAATTACATAACTTAC
*
31751071 ATAAATTACATAACTTATACAATATTAAGGTAAGATTTCGAATTACA
66 ATAAATTACATAACTTATACAATATTAAGGTAAGATTTCAAATTACA
31751118 TAACTCATACAATATTAAGATTACTTATATAATATTAAGATAAAATTTCTAATTACATAACTTAC
1 TAACTCATACAATATTAAGATTACTTATATAATATTAAGATAAAATTTCTAATTACATAACTTAC
31751183 ATAAATTACATAA
66 ATAAATTACATAA
31751196 ATTACATAAC
Statistics
Matches: 169, Mismatches: 3, Indels: 18
0.89 0.02 0.09
Matches are distributed among these distances:
103 95 0.56
104 3 0.02
105 1 0.01
106 2 0.01
107 1 0.01
108 1 0.01
109 2 0.01
110 1 0.01
111 3 0.02
112 60 0.36
ACGTcount: A:0.47, C:0.11, G:0.04, T:0.38
Consensus pattern (112 bp):
TAACTCATACAATATTAAGATTACTTATATAATATTAAGATAAAATTTCTAATTACATAACTTAC
ATAAATTACATAACTTATACAATATTAAGGTAAGATTTCAAATTACA
Found at i:31751063 original size:57 final size:56
Alignment explanation
Indices: 31750903--31751183 Score: 318
Period size: 57 Copynumber: 5.2 Consensus size: 56
31750893 TAATTTTCCG
*
31750903 TAACTTATATAATATTAAGATTACTTATATAATATTAAGATAAAATTTCTAATTACA
1 TAAC-TATACAATATTAAGATTACTTATATAATATTAAGATAAAATTTCTAATTACA
* * * * * * *
31750960 TAACT-TACATAAATT-ACATAACTTATACAATATTAAGGTAAGATTTCAAATTACA
1 TAACTATACA-ATATTAAGATTACTTATATAATATTAAGATAAAATTTCTAATTACA
31751015 TAACTCATACAATATTAAGATTACTTATATAATATTAAGATAAAATTTCTAATTACA
1 TAACT-ATACAATATTAAGATTACTTATATAATATTAAGATAAAATTTCTAATTACA
* * * * *
31751072 TAAAT-TAC---A-T---A--ACTTATACAATATTAAGGTAAGATTTCGAATTACA
1 TAACTATACAATATTAAGATTACTTATATAATATTAAGATAAAATTTCTAATTACA
31751118 TAACTCATACAATATTAAGATTACTTATATAATATTAAGATAAAATTTCTAATTACA
1 TAACT-ATACAATATTAAGATTACTTATATAATATTAAGATAAAATTTCTAATTACA
31751175 TAACT-TACA
1 TAACTATACA
31751184 TAAATTACAT
Statistics
Matches: 184, Mismatches: 25, Indels: 32
0.76 0.10 0.13
Matches are distributed among these distances:
46 35 0.19
48 4 0.02
51 2 0.01
52 2 0.01
55 50 0.27
56 9 0.05
57 82 0.45
ACGTcount: A:0.47, C:0.11, G:0.05, T:0.38
Consensus pattern (56 bp):
TAACTATACAATATTAAGATTACTTATATAATATTAAGATAAAATTTCTAATTACA
Found at i:31751184 original size:9 final size:9
Alignment explanation
Indices: 31751170--31751451 Score: 260
Period size: 9 Copynumber: 32.1 Consensus size: 9
31751160 AAATTTCTAA
31751170 TTACATAAC
1 TTACATAAC
*
31751179 TTACATAAA
1 TTACATAAC
*
31751188 TTACATAAA
1 TTACATAAC
31751197 TTACATAAC
1 TTACATAAC
*
31751206 TTACATAAA
1 TTACATAAC
*
31751215 TTAAATAAC
1 TTACATAAC
*
31751224 TTGCATAAC
1 TTACATAAC
*
31751233 TTAAATAAC
1 TTACATAAC
31751242 TTACATAAC
1 TTACATAAC
*
31751251 --AGATAACC
1 TTACATAA-C
* *
31751259 TT-CCTAGC
1 TTACATAAC
* *
31751267 TTACATTAT
1 TTACATAAC
*
31751276 TTAGATAA-
1 TTACATAAC
*
31751284 -TACATAGC
1 TTACATAAC
*
31751292 CTACATAAC
1 TTACATAAC
31751301 TTACATAAC
1 TTACATAAC
*
31751310 TTACATAAA
1 TTACATAAC
*
31751319 TTAAATAAC
1 TTACATAAC
31751328 TTACATAAC
1 TTACATAAC
31751337 TTACATAAC
1 TTACATAAC
*
31751346 TTACATAAA
1 TTACATAAC
*
31751355 TTAAATAAC
1 TTACATAAC
31751364 TTACATAAC
1 TTACATAAC
31751373 TTACATAAC
1 TTACATAAC
*
31751382 TCACATAA-
1 TTACATAAC
*
31751390 -TACACAAC
1 TTACATAAC
31751398 TTACATAAC
1 TTACATAAC
31751407 TTACATAA-
1 TTACATAAC
31751415 -TACATAAC
1 TTACATAAC
* *
31751423 ATT-CCTATC
1 -TTACATAAC
*
31751432 ATATCATAAC
1 TTA-CATAAC
31751442 TTACATAAC
1 TTACATAAC
31751451 T
1 T
31751452 CATTTATAGT
Statistics
Matches: 218, Mismatches: 42, Indels: 26
0.76 0.15 0.09
Matches are distributed among these distances:
7 22 0.10
8 5 0.02
9 184 0.84
10 7 0.03
ACGTcount: A:0.46, C:0.20, G:0.02, T:0.33
Consensus pattern (9 bp):
TTACATAAC
Found at i:31756946 original size:21 final size:21
Alignment explanation
Indices: 31756920--31756990 Score: 88
Period size: 21 Copynumber: 3.4 Consensus size: 21
31756910 CTACAACTTA
*
31756920 AAGCAGAGGCGGCAGCGAGGG
1 AAGCAGAGGCTGCAGCGAGGG
* * *
31756941 AAGCAGCGGCTGTAGCGAAGG
1 AAGCAGAGGCTGCAGCGAGGG
*
31756962 AAGCAGAGGCTGCAGCGAGAG
1 AAGCAGAGGCTGCAGCGAGGG
*
31756983 AAGTAGAG
1 AAGCAGAG
31756991 CAGAGCAAAA
Statistics
Matches: 41, Mismatches: 9, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
21 41 1.00
ACGTcount: A:0.32, C:0.17, G:0.45, T:0.06
Consensus pattern (21 bp):
AAGCAGAGGCTGCAGCGAGGG
Found at i:31757349 original size:44 final size:42
Alignment explanation
Indices: 31757299--31757461 Score: 220
Period size: 44 Copynumber: 3.9 Consensus size: 42
31757289 CGTTTTTGTG
31757299 AAAAAACGCCACTAAAGACCATGTTCTTTAGCGGCGCTTACAA
1 AAAAAACGCCACTAAAGACCATGTTCTTTAGCGGCGCTTA-AA
* * *
31757342 ACAAAAACGCCGCTAAAGACCATGATCTTTAGCGGCGCTTAGA
1 A-AAAAACGCCACTAAAGACCATGTTCTTTAGCGGCGCTTAAA
* *
31757385 AAAAAGCGCCACTAAAGACCATGTTCTTTAGCGGCGCTT-AG
1 AAAAAACGCCACTAAAGACCATGTTCTTTAGCGGCGCTTAAA
** * *
31757426 AAAAAACGCTGCTAAAGACAATGCTCTTTAGCGGCG
1 AAAAAACGCCACTAAAGACCATGTTCTTTAGCGGCG
31757462 TTTCTTTCTA
Statistics
Matches: 106, Mismatches: 13, Indels: 4
0.86 0.11 0.03
Matches are distributed among these distances:
41 31 0.29
42 35 0.33
43 3 0.03
44 37 0.35
ACGTcount: A:0.35, C:0.25, G:0.20, T:0.20
Consensus pattern (42 bp):
AAAAAACGCCACTAAAGACCATGTTCTTTAGCGGCGCTTAAA
Found at i:31757413 original size:42 final size:41
Alignment explanation
Indices: 31757298--31757461 Score: 229
Period size: 42 Copynumber: 3.9 Consensus size: 41
31757288 GCGTTTTTGT
31757298 GAAAAAACGCCACTAAAGACCATGTTCTTTAGCGGCGCTTACA
1 GAAAAAACGCCACTAAAGACCATGTTCTTTAGCGGCGCTT--A
* * *
31757341 AACAAAAACGCCGCTAAAGACCATGATCTTTAGCGGCGCTTA
1 GA-AAAAACGCCACTAAAGACCATGTTCTTTAGCGGCGCTTA
31757383 GAAAAAAGCGCCACTAAAGACCATGTTCTTTAGCGGCGCTTA
1 GAAAAAA-CGCCACTAAAGACCATGTTCTTTAGCGGCGCTTA
** * *
31757425 GAAAAAACGCTGCTAAAGACAATGCTCTTTAGCGGCG
1 GAAAAAACGCCACTAAAGACCATGTTCTTTAGCGGCG
31757462 TTTCTTTCTA
Statistics
Matches: 109, Mismatches: 10, Indels: 6
0.87 0.08 0.05
Matches are distributed among these distances:
41 31 0.28
42 41 0.38
43 1 0.01
44 36 0.33
ACGTcount: A:0.35, C:0.24, G:0.21, T:0.20
Consensus pattern (41 bp):
GAAAAAACGCCACTAAAGACCATGTTCTTTAGCGGCGCTTA
Found at i:31757475 original size:83 final size:83
Alignment explanation
Indices: 31757305--31757588 Score: 282
Period size: 85 Copynumber: 3.4 Consensus size: 83
31757295 TGTGAAAAAA
* * *
31757305 CGCCACTAAAGACCATGTTCTTTAGCGGCGCTTACAAACAAAAACGCCGCTAAAGACCATGATCT
1 CGCCACTAAAGAACATGGTCTTTAGCGGCGCTT--AAA-AAAAACGCCGCTAAAGACAATGATCT
* *****
31757370 TTAGCGGCGCTTAGAAAAAAG
63 TTAGCGGCGTTTATTTCTAAG
* * * * *
31757391 CGCCACTAAAGACCATGTTCTTTAGCGGCGCTTAGAAAAAACGCTGCTAAAGACAATGCTCTTTA
1 CGCCACTAAAGAACATGGTCTTTAGCGGCGCTTAAAAAAAACGCCGCTAAAGACAATGATCTTTA
*
31757456 GCGGCGTTTCTTTCTAAG
66 GCGGCGTTTATTTCTAAG
* * *** * * *
31757474 CGCCGCTAAAGAACATGGTCTTTAGCGGCGTTTTTTTTATAAGCGCCGCTAAAGA-ACATGGTCT
1 CGCCACTAAAGAACATGGTCTTTAGCGGCG--CTTAAAAAAAACGCCGCTAAAGACA-ATGATCT
*
31757538 TTAGCGGCGTTTTTTTCTAAG
63 TTAGCGGCGTTTATTTCTAAG
*
31757559 CGCCGCTAAAGAACATGGTCTTTAGCGGCG
1 CGCCACTAAAGAACATGGTCTTTAGCGGCG
31757589 TTTTTTTTTA
Statistics
Matches: 172, Mismatches: 23, Indels: 7
0.85 0.11 0.03
Matches are distributed among these distances:
83 64 0.37
84 3 0.02
85 72 0.42
86 33 0.19
ACGTcount: A:0.28, C:0.24, G:0.22, T:0.26
Consensus pattern (83 bp):
CGCCACTAAAGAACATGGTCTTTAGCGGCGCTTAAAAAAAACGCCGCTAAAGACAATGATCTTTA
GCGGCGTTTATTTCTAAG
Done.