Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Chr09 ID=Chr09-JGI_221_v2.0
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: 70713020
ACGTcount: A:0.33, C:0.16, G:0.16, T:0.33
Warning! 1142373 characters in sequence are not A, C, G, or T
File 192 of 226
Found at i:61167536 original size:17 final size:16
Alignment explanation
Indices: 61167504--61167547 Score: 70
Period size: 17 Copynumber: 2.7 Consensus size: 16
61167494 CAAAACATCC
*
61167504 TTTTAAAAAAACAAAA
1 TTTTAAAAAATCAAAA
61167520 TTTTAAAAAATCTAAAA
1 TTTTAAAAAATC-AAAA
61167537 TTTTAAAAAAT
1 TTTTAAAAAAT
61167548 AACAAAATCC
Statistics
Matches: 26, Mismatches: 1, Indels: 1
0.93 0.04 0.04
Matches are distributed among these distances:
16 11 0.42
17 15 0.58
ACGTcount: A:0.61, C:0.05, G:0.00, T:0.34
Consensus pattern (16 bp):
TTTTAAAAAATCAAAA
Found at i:61169136 original size:2 final size:2
Alignment explanation
Indices: 61169129--61169157 Score: 58
Period size: 2 Copynumber: 14.5 Consensus size: 2
61169119 CAAGAAATTA
61169129 AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
61169158 CTTCCCATTT
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 27 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:61172240 original size:18 final size:19
Alignment explanation
Indices: 61172219--61172280 Score: 74
Period size: 19 Copynumber: 3.3 Consensus size: 19
61172209 AAAAAAAATA
*
61172219 TAAAAATA-AAAAATATTT
1 TAAAAATATATAAATATTT
* *
61172237 TAAAAATATATAATTAATT
1 TAAAAATATATAAATATTT
61172256 TAAAAGATATATAAA-ATTT
1 TAAAA-ATATATAAATATTT
61172275 TAAAAA
1 TAAAAA
61172281 ATTATTGTTG
Statistics
Matches: 37, Mismatches: 5, Indels: 4
0.80 0.11 0.09
Matches are distributed among these distances:
18 9 0.24
19 20 0.54
20 8 0.22
ACGTcount: A:0.63, C:0.00, G:0.02, T:0.35
Consensus pattern (19 bp):
TAAAAATATATAAATATTT
Found at i:61174944 original size:24 final size:23
Alignment explanation
Indices: 61174881--61174950 Score: 86
Period size: 23 Copynumber: 3.0 Consensus size: 23
61174871 TTCATTTAAC
*
61174881 TTAATCGAACATGTTCACAAACA
1 TTAATTGAACATGTTCACAAACA
* **
61174904 TTAAATGAACATGTTCATGAACA
1 TTAATTGAACATGTTCACAAACA
*
61174927 TATAATTGAACATATTCACAAACA
1 T-TAATTGAACATGTTCACAAACA
61174951 ATGTTAATAA
Statistics
Matches: 38, Mismatches: 8, Indels: 1
0.81 0.17 0.02
Matches are distributed among these distances:
23 20 0.53
24 18 0.47
ACGTcount: A:0.46, C:0.17, G:0.09, T:0.29
Consensus pattern (23 bp):
TTAATTGAACATGTTCACAAACA
Found at i:61195704 original size:6 final size:6
Alignment explanation
Indices: 61195698--61195738 Score: 73
Period size: 6 Copynumber: 6.8 Consensus size: 6
61195688 CTTTTTCTTT
*
61195698 ATTTTT ATTTTC ATTTTC ATTTTC ATTTTC ATTTTC ATTTT
1 ATTTTC ATTTTC ATTTTC ATTTTC ATTTTC ATTTTC ATTTT
61195739 TAATTTCTAT
Statistics
Matches: 34, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
6 34 1.00
ACGTcount: A:0.17, C:0.12, G:0.00, T:0.71
Consensus pattern (6 bp):
ATTTTC
Found at i:61195745 original size:12 final size:12
Alignment explanation
Indices: 61195698--61195745 Score: 69
Period size: 12 Copynumber: 4.0 Consensus size: 12
61195688 CTTTTTCTTT
61195698 ATTTTTATTTTC
1 ATTTTTATTTTC
*
61195710 ATTTTCATTTTC
1 ATTTTTATTTTC
*
61195722 ATTTTCATTTTC
1 ATTTTTATTTTC
*
61195734 ATTTTTAATTTC
1 ATTTTTATTTTC
61195746 TATTCTTTTA
Statistics
Matches: 33, Mismatches: 3, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
12 33 1.00
ACGTcount: A:0.19, C:0.12, G:0.00, T:0.69
Consensus pattern (12 bp):
ATTTTTATTTTC
Found at i:61195745 original size:18 final size:18
Alignment explanation
Indices: 61195698--61195761 Score: 71
Period size: 18 Copynumber: 3.7 Consensus size: 18
61195688 CTTTTTCTTT
*
61195698 ATTTTTATTTTCATTTTC
1 ATTTTTAATTTCATTTTC
* *
61195716 ATTTTCATTTTCATTTTC
1 ATTTTTAATTTCATTTTC
*
61195734 ATTTTTAATTTC-TATTC
1 ATTTTTAATTTCATTTTC
61195751 --TTTTAATTTCA
1 ATTTTTAATTTCA
61195762 ATTTGAAAAG
Statistics
Matches: 41, Mismatches: 4, Indels: 4
0.84 0.08 0.08
Matches are distributed among these distances:
15 10 0.24
17 4 0.10
18 27 0.66
ACGTcount: A:0.20, C:0.12, G:0.00, T:0.67
Consensus pattern (18 bp):
ATTTTTAATTTCATTTTC
Found at i:61198093 original size:93 final size:93
Alignment explanation
Indices: 61197929--61198115 Score: 320
Period size: 93 Copynumber: 2.0 Consensus size: 93
61197919 TTGCCTTCAA
* * *
61197929 GATGTTGAATTTTGCTGCTCAAAGAACTTCTGTAATGCTTCCCTCAAACTCTTGTGTTACTCTCT
1 GATGCTGAATTTTGCTACTCAAAGAACTTCTGCAATGCTTCCCTCAAACTCTTGTGTTACTCTCT
*
61197994 CAAATGGGAAGTGAAATAATGAAGAATG
66 CAAATGGGAAGTGAAAGAATGAAGAATG
* *
61198022 GATGCTGAATTTTTCTACTCAAAGAACTTCTGCAATGCTTCCCTCAAACTCTTGTGTTGCTCTCT
1 GATGCTGAATTTTGCTACTCAAAGAACTTCTGCAATGCTTCCCTCAAACTCTTGTGTTACTCTCT
61198087 CAAATGGGAAGTGAAAGAATGAAGAATG
66 CAAATGGGAAGTGAAAGAATGAAGAATG
61198115 G
1 G
61198116 GAGAAGAGAT
Statistics
Matches: 88, Mismatches: 6, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
93 88 1.00
ACGTcount: A:0.30, C:0.18, G:0.20, T:0.32
Consensus pattern (93 bp):
GATGCTGAATTTTGCTACTCAAAGAACTTCTGCAATGCTTCCCTCAAACTCTTGTGTTACTCTCT
CAAATGGGAAGTGAAAGAATGAAGAATG
Found at i:61200772 original size:26 final size:27
Alignment explanation
Indices: 61200727--61200777 Score: 68
Period size: 26 Copynumber: 1.9 Consensus size: 27
61200717 ATTGTTCTAA
*
61200727 TTATCACTTTGATATCTAAACTTGTTT
1 TTATCAATTTGATATCTAAACTTGTTT
* *
61200754 TTATCAATTT-ATATTTAAAGTTGT
1 TTATCAATTTGATATCTAAACTTGT
61200778 ATATCATATT
Statistics
Matches: 21, Mismatches: 3, Indels: 1
0.84 0.12 0.04
Matches are distributed among these distances:
26 12 0.57
27 9 0.43
ACGTcount: A:0.29, C:0.10, G:0.08, T:0.53
Consensus pattern (27 bp):
TTATCAATTTGATATCTAAACTTGTTT
Found at i:61201546 original size:4 final size:4
Alignment explanation
Indices: 61201532--61201576 Score: 63
Period size: 4 Copynumber: 10.8 Consensus size: 4
61201522 ATTGTTTACA
*
61201532 TTTC TTTTC TTTC TTTC TTTTC TTTC TCTC TTTC TTTC TTTC TTT
1 TTTC -TTTC TTTC TTTC -TTTC TTTC TTTC TTTC TTTC TTTC TTT
61201577 TTTTTTTTGT
Statistics
Matches: 37, Mismatches: 2, Indels: 3
0.88 0.05 0.07
Matches are distributed among these distances:
4 29 0.78
5 8 0.22
ACGTcount: A:0.00, C:0.24, G:0.00, T:0.76
Consensus pattern (4 bp):
TTTC
Found at i:61201550 original size:13 final size:13
Alignment explanation
Indices: 61201532--61201577 Score: 76
Period size: 13 Copynumber: 3.6 Consensus size: 13
61201522 ATTGTTTACA
61201532 TTTCTTTTCTTTC
1 TTTCTTTTCTTTC
61201545 TTTCTTTTCTTTC
1 TTTCTTTTCTTTC
*
61201558 TCTC-TTTCTTTC
1 TTTCTTTTCTTTC
61201570 TTTCTTTT
1 TTTCTTTT
61201578 TTTTTTTGTT
Statistics
Matches: 30, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
12 11 0.37
13 19 0.63
ACGTcount: A:0.00, C:0.24, G:0.00, T:0.76
Consensus pattern (13 bp):
TTTCTTTTCTTTC
Found at i:61214936 original size:17 final size:17
Alignment explanation
Indices: 61214914--61214946 Score: 57
Period size: 17 Copynumber: 1.9 Consensus size: 17
61214904 TTTAGTGCAC
*
61214914 ATTGTCGTTGCATTTTT
1 ATTGTCATTGCATTTTT
61214931 ATTGTCATTGCATTTT
1 ATTGTCATTGCATTTT
61214947 AATATTAGTG
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
17 15 1.00
ACGTcount: A:0.15, C:0.12, G:0.15, T:0.58
Consensus pattern (17 bp):
ATTGTCATTGCATTTTT
Found at i:61220438 original size:15 final size:15
Alignment explanation
Indices: 61220420--61220450 Score: 53
Period size: 15 Copynumber: 2.1 Consensus size: 15
61220410 AAACCTATAA
*
61220420 AAATTAAATTAAACT
1 AAATTAAATAAAACT
61220435 AAATTAAATAAAACT
1 AAATTAAATAAAACT
61220450 A
1 A
61220451 CTAAGTAAAA
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
15 15 1.00
ACGTcount: A:0.65, C:0.06, G:0.00, T:0.29
Consensus pattern (15 bp):
AAATTAAATAAAACT
Found at i:61235404 original size:33 final size:33
Alignment explanation
Indices: 61235362--61235426 Score: 130
Period size: 33 Copynumber: 2.0 Consensus size: 33
61235352 CTGATGCTAA
61235362 TGTGAACATTTACTAATTGTAATTATCATGCAT
1 TGTGAACATTTACTAATTGTAATTATCATGCAT
61235395 TGTGAACATTTACTAATTGTAATTATCATGCA
1 TGTGAACATTTACTAATTGTAATTATCATGCA
61235427 AGATTATTTC
Statistics
Matches: 32, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
33 32 1.00
ACGTcount: A:0.34, C:0.12, G:0.12, T:0.42
Consensus pattern (33 bp):
TGTGAACATTTACTAATTGTAATTATCATGCAT
Found at i:61237660 original size:25 final size:25
Alignment explanation
Indices: 61237613--61237661 Score: 62
Period size: 25 Copynumber: 2.0 Consensus size: 25
61237603 AGCATCCTAA
**
61237613 TATTTGGCTCTCACGAGTTTCCCGT
1 TATTTGGCTCTCACGAGCATCCCGT
* *
61237638 TATTTGGCTCTTATGAGCATCCCG
1 TATTTGGCTCTCACGAGCATCCCG
61237662 ACATATGGTT
Statistics
Matches: 20, Mismatches: 4, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
25 20 1.00
ACGTcount: A:0.14, C:0.27, G:0.20, T:0.39
Consensus pattern (25 bp):
TATTTGGCTCTCACGAGCATCCCGT
Found at i:61237770 original size:24 final size:24
Alignment explanation
Indices: 61237743--61237822 Score: 81
Period size: 25 Copynumber: 3.2 Consensus size: 24
61237733 TACCCGATAT
*
61237743 TGGCTCGCATGAGCTTCCTGATT-A
1 TGGCTCACATGAGCTTCCTG-TTAA
** *
61237767 TGGCTCTTATGAGCTTCCCGTTACA
1 TGGCTCACATGAGCTTCCTGTTA-A
*
61237792 TGGCTCACATTAGCTTCCTGTTACA
1 TGGCTCACATGAGCTTCCTGTTA-A
61237817 TGGCTC
1 TGGCTC
61237823 GAAAGAGATA
Statistics
Matches: 47, Mismatches: 7, Indels: 3
0.82 0.12 0.05
Matches are distributed among these distances:
23 2 0.04
24 17 0.36
25 28 0.60
ACGTcount: A:0.16, C:0.28, G:0.21, T:0.35
Consensus pattern (24 bp):
TGGCTCACATGAGCTTCCTGTTAA
Found at i:61239995 original size:31 final size:31
Alignment explanation
Indices: 61239960--61240023 Score: 119
Period size: 31 Copynumber: 2.1 Consensus size: 31
61239950 GACATAACTG
61239960 AATTGCAAATAAAGCCTTTTTAAGCCATTCT
1 AATTGCAAATAAAGCCTTTTTAAGCCATTCT
*
61239991 AATTGCAGATAAAGCCTTTTTAAGCCATTCT
1 AATTGCAAATAAAGCCTTTTTAAGCCATTCT
61240022 AA
1 AA
61240024 CTAGGTTTAG
Statistics
Matches: 32, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
31 32 1.00
ACGTcount: A:0.36, C:0.19, G:0.11, T:0.34
Consensus pattern (31 bp):
AATTGCAAATAAAGCCTTTTTAAGCCATTCT
Found at i:61241127 original size:27 final size:27
Alignment explanation
Indices: 61241055--61241180 Score: 83
Period size: 27 Copynumber: 4.7 Consensus size: 27
61241045 CGGAGTACAT
* *
61241055 CACAAAGGCTA-TCTTTACAGGATTCGC
1 CACAAAGGCTATTCTTT-CAGAATTCAC
* * * * * * **
61241082 CATAGAGGTTATCCCTTCATAATTTGC
1 CACAAAGGCTATTCTTTCAGAATTCAC
* *
61241109 CACTAAGGCTATTCTTTCAGAGTTCAC
1 CACAAAGGCTATTCTTTCAGAATTCAC
* *
61241136 CACAAAGGCTATTCTTTCAGATTTTAC
1 CACAAAGGCTATTCTTTCAGAATTCAC
* * *
61241163 CATAAAGGTTTTTCTTTC
1 CACAAAGGCTATTCTTTC
61241181 CTTATGTGTT
Statistics
Matches: 74, Mismatches: 24, Indels: 2
0.74 0.24 0.02
Matches are distributed among these distances:
27 71 0.96
28 3 0.04
ACGTcount: A:0.27, C:0.23, G:0.14, T:0.36
Consensus pattern (27 bp):
CACAAAGGCTATTCTTTCAGAATTCAC
Found at i:61244237 original size:24 final size:23
Alignment explanation
Indices: 61244182--61244246 Score: 80
Period size: 24 Copynumber: 2.8 Consensus size: 23
61244172 TCCTTAAAAA
*
61244182 TAATAAAATT-TT-AATTTAATT
1 TAATAAAATTATTAAATTTAAAT
*
61244203 TATTAACAATTATTAAATTATAAAT
1 TAATAA-AATTATTAAATT-TAAAT
61244228 TAATAAAATTATTAAATTT
1 TAATAAAATTATTAAATTT
61244247 CATTTTAGCT
Statistics
Matches: 37, Mismatches: 3, Indels: 6
0.80 0.07 0.13
Matches are distributed among these distances:
21 5 0.14
22 4 0.11
23 3 0.08
24 16 0.43
25 9 0.24
ACGTcount: A:0.51, C:0.02, G:0.00, T:0.48
Consensus pattern (23 bp):
TAATAAAATTATTAAATTTAAAT
Found at i:61245106 original size:45 final size:45
Alignment explanation
Indices: 61245048--61245160 Score: 199
Period size: 45 Copynumber: 2.5 Consensus size: 45
61245038 AACACAAGAA
61245048 TACTATTACAGTTCTATTCCATTCCATTCAACCAAACAATTGAAT
1 TACTATTACAGTTCTATTCCATTCCATTCAACCAAACAATTGAAT
* *
61245093 TACTATTATAGTTCTATTCAATTCCATTCAACCAAACAATTGAAT
1 TACTATTACAGTTCTATTCCATTCCATTCAACCAAACAATTGAAT
*
61245138 TACTATTACAGTTCTATTTCATT
1 TACTATTACAGTTCTATTCCATT
61245161 ACACATCCAT
Statistics
Matches: 63, Mismatches: 5, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
45 63 1.00
ACGTcount: A:0.35, C:0.21, G:0.04, T:0.40
Consensus pattern (45 bp):
TACTATTACAGTTCTATTCCATTCCATTCAACCAAACAATTGAAT
Found at i:61246202 original size:52 final size:52
Alignment explanation
Indices: 61246140--61246245 Score: 212
Period size: 52 Copynumber: 2.0 Consensus size: 52
61246130 ATCAATGAAA
61246140 AATCATGCAATAATATTTAAACACAATCCTTTAAAACCCTAATTAAGAATTT
1 AATCATGCAATAATATTTAAACACAATCCTTTAAAACCCTAATTAAGAATTT
61246192 AATCATGCAATAATATTTAAACACAATCCTTTAAAACCCTAATTAAGAATTT
1 AATCATGCAATAATATTTAAACACAATCCTTTAAAACCCTAATTAAGAATTT
61246244 AA
1 AA
61246246 GGATTTTTAA
Statistics
Matches: 54, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
52 54 1.00
ACGTcount: A:0.47, C:0.17, G:0.04, T:0.32
Consensus pattern (52 bp):
AATCATGCAATAATATTTAAACACAATCCTTTAAAACCCTAATTAAGAATTT
Found at i:61246633 original size:22 final size:22
Alignment explanation
Indices: 61246602--61246659 Score: 89
Period size: 22 Copynumber: 2.6 Consensus size: 22
61246592 ATTTCCTCTC
61246602 AATTCCTCTCAAATTCCTTCCAA
1 AATT-CTCTCAAATTCCTTCCAA
* *
61246625 AATTTTCTCAATTTCCTTCCAA
1 AATTCTCTCAAATTCCTTCCAA
61246647 AATTCTCTCAAAT
1 AATTCTCTCAAAT
61246660 CTATATTTAA
Statistics
Matches: 31, Mismatches: 4, Indels: 1
0.86 0.11 0.03
Matches are distributed among these distances:
22 27 0.87
23 4 0.13
ACGTcount: A:0.31, C:0.29, G:0.00, T:0.40
Consensus pattern (22 bp):
AATTCTCTCAAATTCCTTCCAA
Found at i:61246687 original size:51 final size:51
Alignment explanation
Indices: 61246630--61246744 Score: 194
Period size: 51 Copynumber: 2.3 Consensus size: 51
61246620 TCCAAAATTT
* * *
61246630 TCTCAATTTCCTTCCAAAATTCTCTCAAATCTATATTTAATTTCAATTTCC
1 TCTCAATTTCCTTCAAAAATTCTCTCAAATCCATATTTAATTTAAATTTCC
*
61246681 TCTCAATTTCCTTCAAAAATTCTCTCAAATCCATATTTAATTTAAATTTCT
1 TCTCAATTTCCTTCAAAAATTCTCTCAAATCCATATTTAATTTAAATTTCC
61246732 TCTCAATTTCCTT
1 TCTCAATTTCCTT
61246745 TTTTAAAATA
Statistics
Matches: 60, Mismatches: 4, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
51 60 1.00
ACGTcount: A:0.30, C:0.24, G:0.00, T:0.46
Consensus pattern (51 bp):
TCTCAATTTCCTTCAAAAATTCTCTCAAATCCATATTTAATTTAAATTTCC
Found at i:61248466 original size:18 final size:18
Alignment explanation
Indices: 61248440--61248474 Score: 52
Period size: 18 Copynumber: 1.9 Consensus size: 18
61248430 AGGTGCGTTT
*
61248440 CCTAGCCCTTATATGTAC
1 CCTAACCCTTATATGTAC
*
61248458 CCTAACCCTTTTATGTA
1 CCTAACCCTTATATGTA
61248475 TCCTTTTCTG
Statistics
Matches: 15, Mismatches: 2, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
18 15 1.00
ACGTcount: A:0.23, C:0.31, G:0.09, T:0.37
Consensus pattern (18 bp):
CCTAACCCTTATATGTAC
Found at i:61251485 original size:126 final size:125
Alignment explanation
Indices: 61251188--61251539 Score: 492
Period size: 126 Copynumber: 2.8 Consensus size: 125
61251178 CCCAAACATG
* * *
61251188 CTACTGTAGCAAAATCGCGTCCACGAGGGCGCGATTTCACAAATTCTTCCCAAATAGCATCCTGG
1 CTACTGTAGCAAAAGCGCGTCCACGAGGGCGCGATTTCACAAATTCTTCTCAAATAGCATCCTGC
*
61251253 TATAAGCGATTTTATATTATTTTCTCAGAAACGTC-AAAAAAAATTATAGATTAAAAGAC
66 TAGAAGCGATTTTATATTATTTTCTCAGAAACGTCAAAAAAAAATTATAGATTAAAAGAC
* * *
61251312 CTACTGTAGCAAAAGCGCG-CTGACGAGGCCGCAATTTCACAAATTCTTCTCAAATAGCATCCTG
1 CTACTGTAGCAAAAGCGCGTC-CACGAGGGCGCGATTTCACAAATTCTTCTCAAATAGCATCCTG
* * *** ****
61251376 CTAGAAGCGATTTTATACTATTTGCTCAGAAACGTCAAAAAAATAATTATTTCTTCCGTGAC
65 CTAGAAGCGATTTTATATTATTTTCTCAGAAACGTCAAAAAAA-AATTATAGATTAAAAGAC
* *
61251438 CTACTGTAGCAAAAGCGCGTCCACGAGGGCGCGATGTCACAAATTCTTCTCAAATACCATCCTGC
1 CTACTGTAGCAAAAGCGCGTCCACGAGGGCGCGATTTCACAAATTCTTCTCAAATAGCATCCTGC
* *
61251503 TAGAAGCAATTTTATATTATTTTATCAGAAACGTCAA
66 TAGAAGCGATTTTATATTATTTTCTCAGAAACGTCAA
61251540 CTCGAAATTA
Statistics
Matches: 199, Mismatches: 25, Indels: 6
0.87 0.11 0.03
Matches are distributed among these distances:
123 1 0.01
124 89 0.45
125 6 0.03
126 102 0.51
127 1 0.01
ACGTcount: A:0.34, C:0.22, G:0.16, T:0.28
Consensus pattern (125 bp):
CTACTGTAGCAAAAGCGCGTCCACGAGGGCGCGATTTCACAAATTCTTCTCAAATAGCATCCTGC
TAGAAGCGATTTTATATTATTTTCTCAGAAACGTCAAAAAAAAATTATAGATTAAAAGAC
Found at i:61251608 original size:23 final size:24
Alignment explanation
Indices: 61251561--61251607 Score: 80
Period size: 22 Copynumber: 2.0 Consensus size: 24
61251551 TTCTTCCAGG
61251561 ACCCTAAAACCCTAAAAAGCCAAA
1 ACCCTAAAACCCTAAAAAGCCAAA
61251585 ACCCT-AAACCCT-AAAAGCCAAA
1 ACCCTAAAACCCTAAAAAGCCAAA
61251607 A
1 A
61251608 AAACCTAACG
Statistics
Matches: 23, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
22 11 0.48
23 7 0.30
24 5 0.22
ACGTcount: A:0.53, C:0.34, G:0.04, T:0.09
Consensus pattern (24 bp):
ACCCTAAAACCCTAAAAAGCCAAA
Found at i:61252039 original size:16 final size:16
Alignment explanation
Indices: 61252018--61252052 Score: 52
Period size: 16 Copynumber: 2.2 Consensus size: 16
61252008 TTTAAATTTG
* *
61252018 TTATGTTAATAAACTT
1 TTATGTCAAAAAACTT
61252034 TTATGTCAAAAAACTT
1 TTATGTCAAAAAACTT
61252050 TTA
1 TTA
61252053 AATTCAAAAT
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
16 17 1.00
ACGTcount: A:0.40, C:0.09, G:0.06, T:0.46
Consensus pattern (16 bp):
TTATGTCAAAAAACTT
Found at i:61252217 original size:24 final size:24
Alignment explanation
Indices: 61252184--61252235 Score: 86
Period size: 24 Copynumber: 2.2 Consensus size: 24
61252174 TTTGTAGGTC
*
61252184 AAATAAATTATGCTAATAAATACT
1 AAATAAATTATACTAATAAATACT
*
61252208 AAATATATTATACTAATAAATACT
1 AAATAAATTATACTAATAAATACT
61252232 AAAT
1 AAAT
61252236 CTTCTAGAAA
Statistics
Matches: 26, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
24 26 1.00
ACGTcount: A:0.56, C:0.08, G:0.02, T:0.35
Consensus pattern (24 bp):
AAATAAATTATACTAATAAATACT
Found at i:61260923 original size:51 final size:50
Alignment explanation
Indices: 61260854--61260973 Score: 143
Period size: 51 Copynumber: 2.4 Consensus size: 50
61260844 AAAACATAAA
* * **
61260854 TTCATTT-TTCATTTTCATTTTGGAGAAAACCACATTCCTTTCCAAATGGT
1 TTCATTTCTCCATTTTCATTTTGGAGAAAACCACAATAATTTCCAAAT-GT
* *
61260904 TTCATTTCTCCATTTTCATTTTGGAGTAAACCATAATAATTTCCAAATGT
1 TTCATTTCTCCATTTTCATTTTGGAGAAAACCACAATAATTTCCAAATGT
*
61260954 TTCCCATTTCTCAATTTTCA
1 TT--CATTTCTCCATTTTCA
61260974 CCATTTCTAT
Statistics
Matches: 60, Mismatches: 7, Indels: 4
0.85 0.10 0.06
Matches are distributed among these distances:
50 11 0.18
51 34 0.57
52 15 0.25
ACGTcount: A:0.27, C:0.21, G:0.07, T:0.45
Consensus pattern (50 bp):
TTCATTTCTCCATTTTCATTTTGGAGAAAACCACAATAATTTCCAAATGT
Found at i:61262813 original size:27 final size:25
Alignment explanation
Indices: 61262757--61262814 Score: 73
Period size: 27 Copynumber: 2.2 Consensus size: 25
61262747 ATTATTTGTG
61262757 ATATTAGTTATTTATGTTCTTAATT
1 ATATTAGTTATTTATGTTCTTAATT
*
61262782 ATATTAGTTATACTTATGTT-TTATTT
1 ATATTAGTTAT--TTATGTTCTTAATT
61262808 ATTATTA
1 A-TATTA
61262815 ATTTGGGGAA
Statistics
Matches: 29, Mismatches: 1, Indels: 4
0.85 0.03 0.12
Matches are distributed among these distances:
25 11 0.38
26 6 0.21
27 12 0.41
ACGTcount: A:0.29, C:0.03, G:0.07, T:0.60
Consensus pattern (25 bp):
ATATTAGTTATTTATGTTCTTAATT
Found at i:61264490 original size:15 final size:15
Alignment explanation
Indices: 61264448--61264492 Score: 54
Period size: 15 Copynumber: 2.9 Consensus size: 15
61264438 TATTAAACAT
* *
61264448 AAAAATGAAAATGAA
1 AAAAATTAAAATTAA
61264463 AATAAACTTAAAATTAA
1 AA-AAA-TTAAAATTAA
61264480 AAAAATTAAAATT
1 AAAAATTAAAATT
61264493 CCTTTTAGGC
Statistics
Matches: 26, Mismatches: 2, Indels: 4
0.81 0.06 0.12
Matches are distributed among these distances:
15 10 0.38
16 6 0.23
17 10 0.38
ACGTcount: A:0.69, C:0.02, G:0.04, T:0.24
Consensus pattern (15 bp):
AAAAATTAAAATTAA
Found at i:61268207 original size:20 final size:19
Alignment explanation
Indices: 61268167--61268212 Score: 58
Period size: 20 Copynumber: 2.4 Consensus size: 19
61268157 ATAAATACGA
*
61268167 TATCGAT-AACTTTTTTTG
1 TATCGATAAACTTTTTTAG
*
61268185 TATCGATAAAGTTATTTTAG
1 TATCGATAAACTT-TTTTAG
61268205 TATCGATA
1 TATCGATA
61268213 GTGTTGGTTC
Statistics
Matches: 24, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
18 7 0.29
19 4 0.17
20 13 0.54
ACGTcount: A:0.30, C:0.09, G:0.13, T:0.48
Consensus pattern (19 bp):
TATCGATAAACTTTTTTAG
Found at i:61279287 original size:21 final size:21
Alignment explanation
Indices: 61279263--61279305 Score: 59
Period size: 21 Copynumber: 2.0 Consensus size: 21
61279253 TTTTTTAAAT
*
61279263 TAATTGCACATTGATTTGTAA
1 TAATTGCACATTAATTTGTAA
* *
61279284 TAATTGTATATTAATTTGTAA
1 TAATTGCACATTAATTTGTAA
61279305 T
1 T
61279306 TTTTTGTGTG
Statistics
Matches: 19, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
21 19 1.00
ACGTcount: A:0.35, C:0.05, G:0.12, T:0.49
Consensus pattern (21 bp):
TAATTGCACATTAATTTGTAA
Found at i:61280812 original size:32 final size:32
Alignment explanation
Indices: 61280738--61280818 Score: 108
Period size: 32 Copynumber: 2.5 Consensus size: 32
61280728 TGAAATTAGT
*
61280738 TTGTTGGATTTTGAAATTATTATGTTTTAAAC
1 TTGTTGGATATTGAAATTATTATGTTTTAAAC
* * *
61280770 TTGTTAGATATTGAATTTATTATGTTTTAAGC
1 TTGTTGGATATTGAAATTATTATGTTTTAAAC
* *
61280802 TTGTCGGATATTAAAAT
1 TTGTTGGATATTGAAAT
61280819 GATTGACAAT
Statistics
Matches: 41, Mismatches: 8, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
32 41 1.00
ACGTcount: A:0.30, C:0.04, G:0.16, T:0.51
Consensus pattern (32 bp):
TTGTTGGATATTGAAATTATTATGTTTTAAAC
Found at i:61282269 original size:15 final size:15
Alignment explanation
Indices: 61282237--61282279 Score: 54
Period size: 14 Copynumber: 2.9 Consensus size: 15
61282227 CCAGAAAAGT
*
61282237 AAATCATTTTC-CGA
1 AAATCATTTTCTAGA
61282251 AAATCATTTTCTAGA
1 AAATCATTTTCTAGA
61282266 AAAT-ATTTTACTAG
1 AAATCATTTT-CTAG
61282280 CAAACAAATG
Statistics
Matches: 26, Mismatches: 1, Indels: 3
0.87 0.03 0.10
Matches are distributed among these distances:
14 16 0.62
15 10 0.38
ACGTcount: A:0.40, C:0.14, G:0.07, T:0.40
Consensus pattern (15 bp):
AAATCATTTTCTAGA
Found at i:61282433 original size:16 final size:17
Alignment explanation
Indices: 61282401--61282434 Score: 52
Period size: 17 Copynumber: 2.1 Consensus size: 17
61282391 TCTCTATTTC
61282401 AATTCATTCCTATGTTT
1 AATTCATTCCTATGTTT
*
61282418 AATTCTTTCC-ATGTTT
1 AATTCATTCCTATGTTT
61282434 A
1 A
61282435 TGGAAGCCAT
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
16 7 0.44
17 9 0.56
ACGTcount: A:0.24, C:0.18, G:0.06, T:0.53
Consensus pattern (17 bp):
AATTCATTCCTATGTTT
Found at i:61286899 original size:5 final size:5
Alignment explanation
Indices: 61286889--61286926 Score: 76
Period size: 5 Copynumber: 7.6 Consensus size: 5
61286879 GTCAATAGTG
61286889 TATTA TATTA TATTA TATTA TATTA TATTA TATTA TAT
1 TATTA TATTA TATTA TATTA TATTA TATTA TATTA TAT
61286927 GAGAGTTGGA
Statistics
Matches: 33, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 33 1.00
ACGTcount: A:0.39, C:0.00, G:0.00, T:0.61
Consensus pattern (5 bp):
TATTA
Found at i:61304836 original size:23 final size:23
Alignment explanation
Indices: 61304793--61304836 Score: 54
Period size: 23 Copynumber: 1.9 Consensus size: 23
61304783 TGGAGTATAA
* *
61304793 AAGTTTTATATTTTTATATGTAC
1 AAGTTTTATATTTATACATGTAC
61304816 AAGTTTTGA-ATTTATACATGT
1 AAGTTTT-ATATTTATACATGT
61304837 CTATACAAGT
Statistics
Matches: 18, Mismatches: 2, Indels: 2
0.82 0.09 0.09
Matches are distributed among these distances:
23 17 0.94
24 1 0.06
ACGTcount: A:0.32, C:0.05, G:0.11, T:0.52
Consensus pattern (23 bp):
AAGTTTTATATTTATACATGTAC
Found at i:61304882 original size:2 final size:2
Alignment explanation
Indices: 61304877--61304905 Score: 58
Period size: 2 Copynumber: 14.5 Consensus size: 2
61304867 AAGGTATATA
61304877 TG TG TG TG TG TG TG TG TG TG TG TG TG TG T
1 TG TG TG TG TG TG TG TG TG TG TG TG TG TG T
61304906 ACTTAAGATT
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 27 1.00
ACGTcount: A:0.00, C:0.00, G:0.48, T:0.52
Consensus pattern (2 bp):
TG
Found at i:61305486 original size:42 final size:41
Alignment explanation
Indices: 61305428--61305625 Score: 258
Period size: 42 Copynumber: 4.8 Consensus size: 41
61305418 TTATTGCCAA
*
61305428 TGAAACATTTCAGACTTTACGTCTAGCAGGCTTAATGCCGG
1 TGAAACATATCAGACTTTACGTCTAGCAGGCTTAATGCCGG
61305469 TGAAACAATATCAGACTTTACGTCTAGCAGGCTTAATGCCGG
1 TGAAAC-ATATCAGACTTTACGTCTAGCAGGCTTAATGCCGG
*
61305511 TGAAACAATATCAGACTTTACGTCTAGCAGGCTTAATGCCAG
1 TGAAAC-ATATCAGACTTTACGTCTAGCAGGCTTAATGCCGG
* * *
61305553 TGAAACATTTCAGACTATATGTCTAGCAGGC-TAAGTGCCGG
1 TGAAACATATCAGACTTTACGTCTAGCAGGCTTAA-TGCCGG
* * *
61305594 TG-TAC-TGAATCAGGCTTTAAGTCTAGCAGGCT
1 TGAAACAT--ATCAGACTTTACGTCTAGCAGGCT
61305626 AAGTGGCAGT
Statistics
Matches: 141, Mismatches: 11, Indels: 9
0.88 0.07 0.06
Matches are distributed among these distances:
39 1 0.01
40 5 0.04
41 54 0.38
42 81 0.57
ACGTcount: A:0.29, C:0.21, G:0.22, T:0.28
Consensus pattern (41 bp):
TGAAACATATCAGACTTTACGTCTAGCAGGCTTAATGCCGG
Found at i:61310144 original size:29 final size:29
Alignment explanation
Indices: 61310111--61310171 Score: 122
Period size: 29 Copynumber: 2.1 Consensus size: 29
61310101 TAGAATGAAG
61310111 AGATTTGTTACAAATCCTATGACGACCCT
1 AGATTTGTTACAAATCCTATGACGACCCT
61310140 AGATTTGTTACAAATCCTATGACGACCCT
1 AGATTTGTTACAAATCCTATGACGACCCT
61310169 AGA
1 AGA
61310172 ATACGATTGG
Statistics
Matches: 32, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
29 32 1.00
ACGTcount: A:0.33, C:0.23, G:0.15, T:0.30
Consensus pattern (29 bp):
AGATTTGTTACAAATCCTATGACGACCCT
Found at i:61319361 original size:50 final size:49
Alignment explanation
Indices: 61319307--61319457 Score: 127
Period size: 50 Copynumber: 3.1 Consensus size: 49
61319297 TGGAATAAAA
*
61319307 CTACAACAGCAAATCTTATCTCTCTAAAGTTGCAGTGGAGAAAGATGAAG
1 CTACAA-AGCAAATCTTATCTCCCTAAAGTTGCAGTGGAGAAAGATGAAG
* * * ***
61319357 CT----A-CAAATCCTATAC-CCCTGAAGTTGTAGTGG-GTCGGATTGAAG
1 CTACAAAGCAAATCTTAT-CTCCCTAAAGTTGCAGTGGAGAAAGA-TGAAG
* * *
61319401 CTACCATAGCAAATCTTATCTCCCTAAAGTTGCAGTGGAGCAAGACGAAG
1 CTA-CAAAGCAAATCTTATCTCCCTAAAGTTGCAGTGGAGAAAGATGAAG
61319451 CTACAAA
1 CTACAAA
61319458 TCCTATACCT
Statistics
Matches: 76, Mismatches: 15, Indels: 21
0.68 0.13 0.19
Matches are distributed among these distances:
43 3 0.04
44 30 0.39
45 2 0.03
49 5 0.07
50 33 0.43
51 3 0.04
ACGTcount: A:0.34, C:0.21, G:0.21, T:0.24
Consensus pattern (49 bp):
CTACAAAGCAAATCTTATCTCCCTAAAGTTGCAGTGGAGAAAGATGAAG
Found at i:61319382 original size:44 final size:44
Alignment explanation
Indices: 61319330--61319475 Score: 116
Period size: 44 Copynumber: 3.2 Consensus size: 44
61319320 TCTTATCTCT
61319330 CTAAAGTTGCAGTGGAGAAAGATGAAGCTACAAATCCTATACCC
1 CTAAAGTTGCAGTGGAGAAAGATGAAGCTACAAATCCTATACCC
* * *** *
61319374 CTGAAGTTGTAGTGG-GTCGGATTGAAGCTACCATAGCAAATCTTAT-CTCC
1 CTAAAGTTGCAGTGGAGAAAGA-TGAAG----C-TA-CAAATCCTATAC-CC
* * *
61319424 CTAAAGTTGCAGTGGAGCAAGACGAAGCTACAAATCCTATACCT
1 CTAAAGTTGCAGTGGAGAAAGATGAAGCTACAAATCCTATACCC
*
61319468 TTAAAGTT
1 CTAAAGTT
61319476 ATAGTAGGTT
Statistics
Matches: 77, Mismatches: 15, Indels: 20
0.69 0.13 0.18
Matches are distributed among these distances:
43 3 0.04
44 35 0.45
45 3 0.04
46 1 0.01
48 1 0.01
49 3 0.04
50 28 0.36
51 3 0.04
ACGTcount: A:0.34, C:0.20, G:0.21, T:0.25
Consensus pattern (44 bp):
CTAAAGTTGCAGTGGAGAAAGATGAAGCTACAAATCCTATACCC
Found at i:61319500 original size:188 final size:189
Alignment explanation
Indices: 61319173--61319730 Score: 660
Period size: 188 Copynumber: 3.0 Consensus size: 189
61319163 TGAAATAGTG
* * ** *
61319173 AATCCTATACCCCCTGAAGTTGCAGTGGGTTGAATTGAAGCTACCATAGTGAATCTTATCTCTCT
1 AATCCTATA-CCCCTGAAGTTGCAGTGGGTCGGATTGAAGCTACCATAGAAAATCTTATCTCCCT
* * *
61319238 AAAGTTGTAGTGGAGCAAGACGAAGCTACAAATCCTATACCCCTAAAGTTGA-AATGGGTTGGAA
65 AAAGTTGCAGTGGAGCAAGACGAAGCTACAAATCCTATACCCTTAAAGTT-ATAGTGGGTTGGAA
*
61319302 TAAAACTACAACAGCAAATCTTATCTCTC-TAAAGTTGCAGTGGAGAAAGATGAAGCTAC-A
129 TGAAACTACAACAGCAAATCTTATCTC-CATAAAGTTGCAGTGGAGAAAGATGAAGCTACAA
* *
61319362 AATCCTATACCCCTGAAGTTGTAGTGGGTCGGATTGAAGCTACCATAGCAAATCTTATCTCCCTA
1 AATCCTATACCCCTGAAGTTGCAGTGGGTCGGATTGAAGCTACCATAGAAAATCTTATCTCCCTA
* *
61319427 AAGTTGCAGTGGAGCAAGACGAAGCTACAAATCCTATACCTTTAAAGTTATAGTAGGTTGGAATG
66 AAGTTGCAGTGGAGCAAGACGAAGCTACAAATCCTATACCCTTAAAGTTATAGTGGGTTGGAATG
** * *
61319492 AAACTACAATGGCAAATCTTATCTCCATGAAGTTGCAGTGGAGCAAGATGAAGCTACAA
131 AAACTACAACAGCAAATCTTATCTCCATAAAGTTGCAGTGGAGAAAGATGAAGCTACAA
** * * * * ** * * *
61319551 AATCCTATTTCCCTAAAGATGCAGTGGATCAGATCAAAG--ACAATGGAAAATCTGATCTCCCTA
1 AATCCTATACCCCTGAAGTTGCAGTGGGTCGGATTGAAGCTACCATAGAAAATCTTATCTCCCTA
* * * * * * *
61319614 AAGTTACAATGGAGCAAGATGAAGCTGCAAATCATATACCCTTGAAGTTGTAGTGGGTT-GAAGT
66 AAGTTGCAGTGGAGCAAGACGAAGCTACAAATCCTATACCCTTAAAGTTATAGTGGGTTGGAA-T
* * * * * **
61319678 GAAACTATAACATCAAATCTTATCTCCATGAAGTTACAATGGATCAAGATGAA
130 GAAACTACAACAGCAAATCTTATCTCCATAAAGTTGCAGTGGAGAAAGATGAA
61319731 ACTGTGACAC
Statistics
Matches: 320, Mismatches: 45, Indels: 10
0.85 0.12 0.03
Matches are distributed among these distances:
186 3 0.01
187 119 0.37
188 158 0.49
189 40 0.12
ACGTcount: A:0.35, C:0.18, G:0.20, T:0.26
Consensus pattern (189 bp):
AATCCTATACCCCTGAAGTTGCAGTGGGTCGGATTGAAGCTACCATAGAAAATCTTATCTCCCTA
AAGTTGCAGTGGAGCAAGACGAAGCTACAAATCCTATACCCTTAAAGTTATAGTGGGTTGGAATG
AAACTACAACAGCAAATCTTATCTCCATAAAGTTGCAGTGGAGAAAGATGAAGCTACAA
Found at i:61319712 original size:94 final size:93
Alignment explanation
Indices: 61319173--61319730 Score: 539
Period size: 94 Copynumber: 5.9 Consensus size: 93
61319163 TGAAATAGTG
* * * * **
61319173 AATCCTATACCCCCTGAAGTTGCAGTGGGTTGAATTGAAGCTACCATAGTGAATCTTATCTCTC-
1 AATCCTATA-CCCCTAAAGTTGTAGTGGGTTGAA-TGAAACTACAATAGCAAATCTTATCTC-CA
* *
61319237 TAAAGTTGTAGTGGAGCAAGACGAAGCTACA
63 TAAAGTTGCAGTGGAGCAAGATGAAGCTACA
* * * *
61319268 AATCCTATACCCCTAAAGTTGAAATGGGTTGGAATAAAACTACAACAGCAAATCTTATCTCTC-T
1 AATCCTATACCCCTAAAGTTGTAGTGGGTT-GAATGAAACTACAATAGCAAATCTTATCTC-CAT
*
61319332 AAAGTTGCAGTGGAGAAAGATGAAGCTACA
64 AAAGTTGCAGTGGAGCAAGATGAAGCTACA
* * * * * *
61319362 AATCCTATACCCCTGAAGTTGTAGTGGGTCGGATTGAAGCTACCATAGCAAATCTTATCTCCCTA
1 AATCCTATACCCCTAAAGTTGTAGTGGGT-TGAATGAAACTACAATAGCAAATCTTATCTCCATA
*
61319427 AAGTTGCAGTGGAGCAAGACGAAGCTACA
65 AAGTTGCAGTGGAGCAAGATGAAGCTACA
** * * * *
61319456 AATCCTATACCTTTAAAGTTATAGTAGGTTGGAATGAAACTACAATGGCAAATCTTATCTCCATG
1 AATCCTATACCCCTAAAGTTGTAGTGGGTT-GAATGAAACTACAATAGCAAATCTTATCTCCATA
61319521 AAGTTGCAGTGGAGCAAGATGAAGCTACAA
65 AAGTTGCAGTGGAGCAAGATGAAGCTAC-A
** * * * * * * * * * *
61319551 AATCCTATTTCCCTAAAGATGCAGT-GGATCAGATCAAA-GACAATGGAAAATCTGATCTCCCTA
1 AATCCTATACCCCTAAAGTTGTAGTGGGTTGA-ATGAAACTACAATAGCAAATCTTATCTCCATA
* * *
61319614 AAGTTACAATGGAGCAAGATGAAGCTGCA
65 AAGTTGCAGTGGAGCAAGATGAAGCTACA
* * * * * * *
61319643 AATCATATACCCTTGAAGTTGTAGTGGGTTGAAGTGAAACTATAACATCAAATCTTATCTCCATG
1 AATCCTATACCCCTAAAGTTGTAGTGGGTTGAA-TGAAACTACAATAGCAAATCTTATCTCCATA
* * *
61319708 AAGTTACAATGGATCAAGATGAA
65 AAGTTGCAGTGGAGCAAGATGAA
61319731 ACTGTGACAC
Statistics
Matches: 380, Mismatches: 74, Indels: 19
0.80 0.16 0.04
Matches are distributed among these distances:
92 20 0.05
93 55 0.14
94 274 0.72
95 31 0.08
ACGTcount: A:0.35, C:0.18, G:0.20, T:0.26
Consensus pattern (93 bp):
AATCCTATACCCCTAAAGTTGTAGTGGGTTGAATGAAACTACAATAGCAAATCTTATCTCCATAA
AGTTGCAGTGGAGCAAGATGAAGCTACA
Found at i:61322347 original size:59 final size:58
Alignment explanation
Indices: 61322200--61322347 Score: 129
Period size: 59 Copynumber: 2.5 Consensus size: 58
61322190 TAACATTTGA
* * * *
61322200 CAAGTTCAAGTACCAAA-TCGAACCAAGAAAAAGATTAGGTACCAAATTAGGAAAAATAT
1 CAAGTTCAAATACCAAATTAG-A-CAAAAAAAAGATTAAGTACCAAATTAGGAAAAATAT
** * * * *
61322259 CAAGTTCAGGTACTAAATTAGACCTAAAAAAATATTAAGTACCAAATTAGGAATAAATTT
1 CAAGTTCAAATACCAAATTAGA-CAAAAAAAAGATTAAGTACCAAATTAGGAA-AAATAT
* * *
61322319 TATGTTCAAATACCAAATTAG-GAAAAAAA
1 CAAGTTCAAATACCAAATTAGACAAAAAAA
61322348 TGTCAAGTTT
Statistics
Matches: 72, Mismatches: 15, Indels: 5
0.78 0.16 0.05
Matches are distributed among these distances:
58 6 0.08
59 43 0.60
60 23 0.32
ACGTcount: A:0.51, C:0.13, G:0.13, T:0.24
Consensus pattern (58 bp):
CAAGTTCAAATACCAAATTAGACAAAAAAAAGATTAAGTACCAAATTAGGAAAAATAT
Found at i:61327837 original size:23 final size:23
Alignment explanation
Indices: 61327806--61327856 Score: 84
Period size: 23 Copynumber: 2.2 Consensus size: 23
61327796 ACCTACTTTC
* *
61327806 TTACTGTAGTAATTTTCGGGGTA
1 TTACAGTAGTAATTTTCAGGGTA
61327829 TTACAGTAGTAATTTTCAGGGTA
1 TTACAGTAGTAATTTTCAGGGTA
61327852 TTACA
1 TTACA
61327857 ACTATACTTC
Statistics
Matches: 26, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
23 26 1.00
ACGTcount: A:0.27, C:0.10, G:0.22, T:0.41
Consensus pattern (23 bp):
TTACAGTAGTAATTTTCAGGGTA
Found at i:61328042 original size:23 final size:23
Alignment explanation
Indices: 61328012--61328057 Score: 92
Period size: 23 Copynumber: 2.0 Consensus size: 23
61328002 TCCACATAAA
61328012 ATCTGTGTGTTCTTATTTTTCTT
1 ATCTGTGTGTTCTTATTTTTCTT
61328035 ATCTGTGTGTTCTTATTTTTCTT
1 ATCTGTGTGTTCTTATTTTTCTT
61328058 TCTTTTTTCT
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
23 23 1.00
ACGTcount: A:0.09, C:0.13, G:0.13, T:0.65
Consensus pattern (23 bp):
ATCTGTGTGTTCTTATTTTTCTT
Found at i:61333806 original size:3 final size:3
Alignment explanation
Indices: 61333800--61333825 Score: 52
Period size: 3 Copynumber: 8.7 Consensus size: 3
61333790 TGGTTTTTAT
61333800 TAA TAA TAA TAA TAA TAA TAA TAA TA
1 TAA TAA TAA TAA TAA TAA TAA TAA TA
61333826 TTATTATTAT
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 23 1.00
ACGTcount: A:0.65, C:0.00, G:0.00, T:0.35
Consensus pattern (3 bp):
TAA
Found at i:61333830 original size:3 final size:3
Alignment explanation
Indices: 61333824--61333899 Score: 152
Period size: 3 Copynumber: 25.3 Consensus size: 3
61333814 ATAATAATAA
61333824 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT
61333872 TAT TAT TAT TAT TAT TAT TAT TAT TAT T
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT T
61333900 GTGATCTTAA
Statistics
Matches: 73, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 73 1.00
ACGTcount: A:0.33, C:0.00, G:0.00, T:0.67
Consensus pattern (3 bp):
TAT
Found at i:61336207 original size:43 final size:43
Alignment explanation
Indices: 61336141--61336346 Score: 254
Period size: 43 Copynumber: 4.8 Consensus size: 43
61336131 TTTTAGAAAT
* * *
61336141 AAACGCCGCTATAGATCATGACCTTTAGCGTCGCTTTCCCCAC
1 AAACGCCGCTATAGATCAGGACCTTTAGCGGCGCTTTTCCCAC
* *
61336184 AAACGCCGCTATAGGTTAGGACCTTTAGCGGCGCTTTT-CCAC
1 AAACGCCGCTATAGATCAGGACCTTTAGCGGCGCTTTTCCCAC
* * ** *
61336226 AAACACCGCTATAGATCAGGACCTTTAGC-GCGTTTTTTTCTC
1 AAACGCCGCTATAGATCAGGACCTTTAGCGGCGCTTTTCCCAC
* * * *
61336268 AAACACCGCTAAAGATCAGGACCTTTAGCGGGGTTTTTCCCAC
1 AAACGCCGCTATAGATCAGGACCTTTAGCGGCGCTTTTCCCAC
* *
61336311 AAACGCCGCTAAAGATCAGGACCTTTAGCGACGCTT
1 AAACGCCGCTATAGATCAGGACCTTTAGCGGCGCTT
61336347 CTCGTAATAA
Statistics
Matches: 141, Mismatches: 20, Indels: 4
0.85 0.12 0.02
Matches are distributed among these distances:
41 7 0.05
42 60 0.43
43 74 0.52
ACGTcount: A:0.25, C:0.29, G:0.20, T:0.26
Consensus pattern (43 bp):
AAACGCCGCTATAGATCAGGACCTTTAGCGGCGCTTTTCCCAC
Found at i:61336239 original size:42 final size:42
Alignment explanation
Indices: 61336141--61336346 Score: 243
Period size: 42 Copynumber: 4.9 Consensus size: 42
61336131 TTTTAGAAAT
* * *
61336141 AAACGCCGCTATAGATCATGACCTTTAGCGTCGCTTTCCCCAC
1 AAACGCCGCTATAGATCAGGACCTTTAGCGGCGCTTT-TCCAC
* *
61336184 AAACGCCGCTATAGGTTAGGACCTTTAGCGGCGCTTTTCCAC
1 AAACGCCGCTATAGATCAGGACCTTTAGCGGCGCTTTTCCAC
* * * *
61336226 AAACACCGCTATAGATCAGGACCTTTAGC-GCGTTTTTTTCTC
1 AAACGCCGCTATAGATCAGGACCTTTAGCGGCG-CTTTTCCAC
* * * *
61336268 AAACACCGCTAAAGATCAGGACCTTTAGCGGGGTTTTTCCCAC
1 AAACGCCGCTATAGATCAGGACCTTTAGCGGCGCTTTT-CCAC
* *
61336311 AAACGCCGCTAAAGATCAGGACCTTTAGCGACGCTT
1 AAACGCCGCTATAGATCAGGACCTTTAGCGGCGCTT
61336347 CTCGTAATAA
Statistics
Matches: 141, Mismatches: 19, Indels: 6
0.85 0.11 0.04
Matches are distributed among these distances:
41 3 0.02
42 69 0.49
43 69 0.49
ACGTcount: A:0.25, C:0.29, G:0.20, T:0.26
Consensus pattern (42 bp):
AAACGCCGCTATAGATCAGGACCTTTAGCGGCGCTTTTCCAC
Found at i:61336313 original size:85 final size:85
Alignment explanation
Indices: 61336141--61336346 Score: 261
Period size: 85 Copynumber: 2.4 Consensus size: 85
61336131 TTTTAGAAAT
* * * * *
61336141 AAACGCCGCTATAGATCATGACCTTTAGCGTCGCTTTCCCCACAAACGCCGCTATAGGTTAGGAC
1 AAACGCCGCTATAGATCAGGACCTTTAGCGTCGCTTTCCCCACAAACACCGCTAAAGATCAGGAC
61336206 CTTTAGCGGCGCTTTTCCAC
66 CTTTAGCGGCGCTTTTCCAC
* * *** *
61336226 AAACACCGCTATAGATCAGGACCTTTAGCG-CGTTTTTTTCTCAAACACCGCTAAAGATCAGGAC
1 AAACGCCGCTATAGATCAGGACCTTTAGCGTCGCTTTCCCCACAAACACCGCTAAAGATCAGGAC
* *
61336290 CTTTAGCGGGGTTTTTCCCAC
66 CTTTAGCGGCGCTTTT-CCAC
* *
61336311 AAACGCCGCTAAAGATCAGGACCTTTAGCGACGCTT
1 AAACGCCGCTATAGATCAGGACCTTTAGCGTCGCTT
61336347 CTCGTAATAA
Statistics
Matches: 103, Mismatches: 16, Indels: 3
0.84 0.13 0.02
Matches are distributed among these distances:
84 39 0.38
85 60 0.58
86 4 0.04
ACGTcount: A:0.25, C:0.29, G:0.20, T:0.26
Consensus pattern (85 bp):
AAACGCCGCTATAGATCAGGACCTTTAGCGTCGCTTTCCCCACAAACACCGCTAAAGATCAGGAC
CTTTAGCGGCGCTTTTCCAC
Found at i:61336588 original size:43 final size:42
Alignment explanation
Indices: 61336519--61336768 Score: 293
Period size: 43 Copynumber: 5.9 Consensus size: 42
61336509 TTTTAGAAAT
* * * *
61336519 AAACGCCGCTATAGATCATGATCTTTAGCGGCGCTTTCCCCAC
1 AAACGCCGCTAAAGATCAGGACCTTTAGCGGCGCTTT-TCCAC
* * * *
61336562 AAATGCCGCTATAGGTTAGGACCTTTAGCGGCGCTTTTCCAC
1 AAACGCCGCTAAAGATCAGGACCTTTAGCGGCGCTTTTCCAC
* * * * * *
61336604 AAACGCTGCTATAGATCAGGAGCTTTAGTGGCGCTTTTTTCTC
1 AAACGCCGCTAAAGATCAGGACCTTTAGCGGCGC-TTTTCCAC
** *
61336647 AAACGCCGCTAAAGATCCTGATCTTTAGCGGCGCTTTTCCCAC
1 AAACGCCGCTAAAGATCAGGACCTTTAGCGGCGCTTTT-CCAC
*
61336690 AAACGCTGCTAAAGATCAGGACCTTTAGCGGCGCTTATTCCAC
1 AAACGCCGCTAAAGATCAGGACCTTTAGCGGCGCTT-TTCCAC
*
61336733 AAACGCCGCTAAAGATCAGGACCTTTAGCGACGCTT
1 AAACGCCGCTAAAGATCAGGACCTTTAGCGGCGCTT
61336769 CTCACAGAAA
Statistics
Matches: 176, Mismatches: 28, Indels: 6
0.84 0.13 0.03
Matches are distributed among these distances:
42 36 0.20
43 138 0.78
44 2 0.01
ACGTcount: A:0.24, C:0.28, G:0.21, T:0.26
Consensus pattern (42 bp):
AAACGCCGCTAAAGATCAGGACCTTTAGCGGCGCTTTTCCAC
Found at i:61336689 original size:128 final size:129
Alignment explanation
Indices: 61336519--61336760 Score: 378
Period size: 128 Copynumber: 1.9 Consensus size: 129
61336509 TTTTAGAAAT
* * * * *
61336519 AAACGCCGCTATAGATCATGATCTTTAGCGGCGCTTTCCCCACAAATGCCGCTATAGGTTAGGAC
1 AAACGCCGCTAAAGATCATGATCTTTAGCGGCGCTTTCCCCACAAACGCCGCTAAAGATCAGGAC
* * *
61336584 CTTTAGCGGCGCTT-TTCCACAAACGCTGCTATAGATCAGGAGCTTTAGTGGCGCTTTTTTCTC
66 CTTTAGCGGCGCTTATTCCACAAACGCCGCTAAAGATCAGGACCTTTAGTGGCGCTTTTTTCTC
* * *
61336647 AAACGCCGCTAAAGATCCTGATCTTTAGCGGCGCTTTTCCCACAAACGCTGCTAAAGATCAGGAC
1 AAACGCCGCTAAAGATCATGATCTTTAGCGGCGCTTTCCCCACAAACGCCGCTAAAGATCAGGAC
61336712 CTTTAGCGGCGCTTATTCCACAAACGCCGCTAAAGATCAGGACCTTTAG
66 CTTTAGCGGCGCTTATTCCACAAACGCCGCTAAAGATCAGGACCTTTAG
61336761 CGACGCTTCT
Statistics
Matches: 102, Mismatches: 11, Indels: 1
0.89 0.10 0.01
Matches are distributed among these distances:
128 71 0.70
129 31 0.30
ACGTcount: A:0.25, C:0.28, G:0.21, T:0.26
Consensus pattern (129 bp):
AAACGCCGCTAAAGATCATGATCTTTAGCGGCGCTTTCCCCACAAACGCCGCTAAAGATCAGGAC
CTTTAGCGGCGCTTATTCCACAAACGCCGCTAAAGATCAGGACCTTTAGTGGCGCTTTTTTCTC
Found at i:61337216 original size:43 final size:43
Alignment explanation
Indices: 61337144--61337230 Score: 111
Period size: 43 Copynumber: 2.0 Consensus size: 43
61337134 CATATTGCAA
* * * *
61337144 GGTAATAAAAAATACAATGCATTTTCTTAATCAAGTAAACCTT
1 GGTAATAAAAAATACAATACATCTACTTAATCAAGAAAACCTT
* * *
61337187 GGTAATAAAAGATATAATACATCTACTTAATCAAGAAAATCTT
1 GGTAATAAAAAATACAATACATCTACTTAATCAAGAAAACCTT
61337230 G
1 G
61337231 CAATGAACTC
Statistics
Matches: 37, Mismatches: 7, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
43 37 1.00
ACGTcount: A:0.46, C:0.13, G:0.10, T:0.31
Consensus pattern (43 bp):
GGTAATAAAAAATACAATACATCTACTTAATCAAGAAAACCTT
Found at i:61341563 original size:14 final size:15
Alignment explanation
Indices: 61341544--61341576 Score: 59
Period size: 14 Copynumber: 2.3 Consensus size: 15
61341534 CTTAAACCAA
61341544 AATCCCTAA-TCCAT
1 AATCCCTAATTCCAT
61341558 AATCCCTAATTCCAT
1 AATCCCTAATTCCAT
61341573 AATC
1 AATC
61341577 TATAAACCAT
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:0.36, C:0.33, G:0.00, T:0.30
Consensus pattern (15 bp):
AATCCCTAATTCCAT
Found at i:61341647 original size:14 final size:14
Alignment explanation
Indices: 61341625--61341661 Score: 56
Period size: 14 Copynumber: 2.6 Consensus size: 14
61341615 ATCCTAAATT
*
61341625 AACCATATACCTTA
1 AACCATATACCCTA
*
61341639 AACCTTATACCCTA
1 AACCATATACCCTA
61341653 AACCATATA
1 AACCATATA
61341662 TATTAAACCC
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
14 20 1.00
ACGTcount: A:0.43, C:0.30, G:0.00, T:0.27
Consensus pattern (14 bp):
AACCATATACCCTA
Found at i:61341953 original size:4 final size:4
Alignment explanation
Indices: 61341946--61342012 Score: 55
Period size: 4 Copynumber: 15.8 Consensus size: 4
61341936 TTTAATTAAT
*
61341946 ATAA ATAA ATAA ATTAA ACAGA A-AA ACTAA ATAA ATTAA ATAA ATAA
1 ATAA ATAA ATAA A-TAA ATA-A ATAA A-TAA ATAA A-TAA ATAA ATAA
* *
61341993 ACAA TTAA ATAA ATTAA ATA
1 ATAA ATAA ATAA A-TAA ATA
61342013 GACAAATTAT
Statistics
Matches: 52, Mismatches: 5, Indels: 12
0.75 0.07 0.17
Matches are distributed among these distances:
3 2 0.04
4 33 0.63
5 17 0.33
ACGTcount: A:0.69, C:0.04, G:0.01, T:0.25
Consensus pattern (4 bp):
ATAA
Found at i:61341987 original size:9 final size:9
Alignment explanation
Indices: 61341973--61342012 Score: 57
Period size: 9 Copynumber: 4.7 Consensus size: 9
61341963 ACAGAAAAAC
61341973 TAAATAAAT
1 TAAATAAAT
61341982 TAAATAAA-
1 TAAATAAAT
*
61341990 TAAA-CAAT
1 TAAATAAAT
61341998 TAAATAAAT
1 TAAATAAAT
61342007 TAAATA
1 TAAATA
61342013 GACAAATTAT
Statistics
Matches: 27, Mismatches: 2, Indels: 4
0.82 0.06 0.12
Matches are distributed among these distances:
7 2 0.07
8 8 0.30
9 17 0.63
ACGTcount: A:0.68, C:0.03, G:0.00, T:0.30
Consensus pattern (9 bp):
TAAATAAAT
Found at i:61342026 original size:21 final size:20
Alignment explanation
Indices: 61341979--61342026 Score: 53
Period size: 21 Copynumber: 2.4 Consensus size: 20
61341969 AAACTAAATA
61341979 AATTAAATAAATAAACAATT
1 AATTAAATAAATAAACAATT
* *
61341999 AAATAAATTAAATAGACAAATT
1 AATTAAA-TAAATAAAC-AATT
61342021 -ATTAAA
1 AATTAAA
61342027 AACGCTGCTA
Statistics
Matches: 23, Mismatches: 3, Indels: 3
0.79 0.10 0.10
Matches are distributed among these distances:
20 6 0.26
21 13 0.57
22 4 0.17
ACGTcount: A:0.65, C:0.04, G:0.02, T:0.29
Consensus pattern (20 bp):
AATTAAATAAATAAACAATT
Found at i:61342026 original size:25 final size:22
Alignment explanation
Indices: 61341951--61342021 Score: 79
Period size: 22 Copynumber: 3.1 Consensus size: 22
61341941 TTAATATAAA
* *
61341951 TAAATAAATTAAACAGAAAAAC
1 TAAATAAATTAAATAGAAAAAT
*
61341973 TAAATAAATTAAATAAATAAACAAT
1 TAAATAAATTAAAT--AGAAA-AAT
*
61341998 TAAATAAATTAAATAGACAAAT
1 TAAATAAATTAAATAGAAAAAT
61342020 TA
1 TA
61342022 TTAAAAACGC
Statistics
Matches: 41, Mismatches: 5, Indels: 6
0.79 0.10 0.12
Matches are distributed among these distances:
22 18 0.44
23 3 0.07
24 4 0.10
25 16 0.39
ACGTcount: A:0.66, C:0.06, G:0.03, T:0.25
Consensus pattern (22 bp):
TAAATAAATTAAATAGAAAAAT
Found at i:61342119 original size:12 final size:13
Alignment explanation
Indices: 61342090--61342116 Score: 54
Period size: 13 Copynumber: 2.1 Consensus size: 13
61342080 CTGCTTCTTT
61342090 TTAAAAACGCCGC
1 TTAAAAACGCCGC
61342103 TTAAAAACGCCGC
1 TTAAAAACGCCGC
61342116 T
1 T
61342117 AAAGCCCTGA
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 14 1.00
ACGTcount: A:0.37, C:0.30, G:0.15, T:0.19
Consensus pattern (13 bp):
TTAAAAACGCCGC
Found at i:61356140 original size:15 final size:15
Alignment explanation
Indices: 61356122--61356173 Score: 59
Period size: 15 Copynumber: 3.3 Consensus size: 15
61356112 TTTGTTTTCC
61356122 TTTTTTATTAATTAT
1 TTTTTTATTAATTAT
**
61356137 TTTTTTATTTTTTAT
1 TTTTTTATTAATTAT
*
61356152 TTTTCATATTTAATTAT
1 TTTT-TTA-TTAATTAT
61356169 TTTTT
1 TTTTT
61356174 AACTCTATGT
Statistics
Matches: 29, Mismatches: 6, Indels: 3
0.76 0.16 0.08
Matches are distributed among these distances:
15 17 0.59
16 2 0.07
17 10 0.34
ACGTcount: A:0.21, C:0.02, G:0.00, T:0.77
Consensus pattern (15 bp):
TTTTTTATTAATTAT
Found at i:61356141 original size:31 final size:31
Alignment explanation
Indices: 61356100--61356173 Score: 82
Period size: 32 Copynumber: 2.4 Consensus size: 31
61356090 TTACAGTTCA
*
61356100 AATTAGTTTTTTT-TTGTTTTCCTTTTT-TA-TT
1 AATTA-TTTTTTTATT-TTTT-ATTTTTATATTT
61356131 AATTATTTTTTTATTTTTTATTTTTCATATTT
1 AATTATTTTTTTATTTTTTATTTTT-ATATTT
61356163 AATTATTTTTT
1 AATTATTTTTT
61356174 AACTCTATGT
Statistics
Matches: 38, Mismatches: 1, Indels: 7
0.83 0.02 0.15
Matches are distributed among these distances:
29 5 0.13
30 11 0.29
31 9 0.24
32 13 0.34
ACGTcount: A:0.19, C:0.04, G:0.03, T:0.74
Consensus pattern (31 bp):
AATTATTTTTTTATTTTTTATTTTTATATTT
Found at i:61356256 original size:22 final size:21
Alignment explanation
Indices: 61356230--61356327 Score: 69
Period size: 22 Copynumber: 4.6 Consensus size: 21
61356220 AGACGCATAT
61356230 TTATTTTTTTAATATAATGTAA
1 TTATTTTTTTAATAT-ATGTAA
61356252 TTA-TTTTTT--TATATGTAA
1 TTATTTTTTTAATATATGTAA
* **
61356270 TTATTTTTTATAATCTATACATA
1 TTATTTTTT-TAATATATGTA-A
*
61356293 TATATTTATTTTTATATATGT-A
1 T-TATTT-TTTTAATATATGTAA
*
61356315 TTAATATTTTTAA
1 TT-ATTTTTTTAA
61356328 CCAATTTTAT
Statistics
Matches: 59, Mismatches: 9, Indels: 17
0.69 0.11 0.20
Matches are distributed among these distances:
18 9 0.15
19 8 0.14
20 1 0.02
21 12 0.20
22 13 0.22
23 2 0.03
24 11 0.19
25 3 0.05
ACGTcount: A:0.34, C:0.02, G:0.03, T:0.61
Consensus pattern (21 bp):
TTATTTTTTTAATATATGTAA
Found at i:61356260 original size:21 final size:19
Alignment explanation
Indices: 61356234--61356281 Score: 71
Period size: 18 Copynumber: 2.5 Consensus size: 19
61356224 GCATATTTAT
61356234 TTTTTTAATATAATGTAATTA
1 TTTTTT-ATAT-ATGTAATTA
61356255 TTTTTT-TATATGTAATTA
1 TTTTTTATATATGTAATTA
61356273 TTTTTTATA
1 TTTTTTATA
61356282 ATCTATACAT
Statistics
Matches: 26, Mismatches: 0, Indels: 4
0.87 0.00 0.13
Matches are distributed among these distances:
18 15 0.58
19 5 0.19
21 6 0.23
ACGTcount: A:0.31, C:0.00, G:0.04, T:0.65
Consensus pattern (19 bp):
TTTTTTATATATGTAATTA
Found at i:61368833 original size:45 final size:45
Alignment explanation
Indices: 61368731--61369239 Score: 215
Period size: 44 Copynumber: 11.7 Consensus size: 45
61368721 TCCCATCTCG
* *
61368731 TCTTATCTCCCTGAAGTTGCAG-GGGAGCAGACTAAGTAGGCAAG
1 TCTTATCTCCCTGAAGTTGCAGTGAGAGCAGACTAAGTAGGCAAA
*
61368775 TCTTATC-CTCCTGAAGTTACAGTGAG-GCAGACTGAAG-ATGGCAAA
1 TCTTATCTC-CCTGAAGTTGCAGTGAGAGCAGACT-AAGTA-GGCAAA
* * *
61368820 TCTTATCTCCCTGAATTTGCAGTG-GAGCA-AGTTAA--AGCCAATAA
1 TCTTATCTCCCTGAAGTTGCAGTGAGAGCAGA-CTAAGTAGGC-A-AA
* * * * *
61368864 TCCTATCTCCCTGAAGTTGTAGTG-GAGCGGATTAAAACCTAGG---A
1 TCTTATCTCCCTGAAGTTGCAGTGAGAGCAGACT--AA-GTAGGCAAA
* * * * * * *
61368908 TGTTATCTCTCTGAAGTTGCA--GAGAGCAGA-T-CGCA-TCTAG
1 TCTTATCTCCCTGAAGTTGCAGTGAGAGCAGACTAAGTAGGCAAA
* * * *
61368948 TCTTATCTCCCTGAAGTTACAGTG-GAGCAAACTAAGTAAGCAAG
1 TCTTATCTCCCTGAAGTTGCAGTGAGAGCAGACTAAGTAGGCAAA
* * *
61368992 TCTTATC-CTCCTGAAGTTGCAGTGAG-GTAGACTGAAG-ACAGAAAA
1 TCTTATCTC-CCTGAAGTTGCAGTGAGAGCAGACT-AAGTA-GGCAAA
* * * *
61369037 TCTTATCTCCCTGAAGTTGCAGTG-GAGCAGATTAAAACTTGG--GA
1 TCTTATCTCCCTGAAGTTGCAGTGAGAGCAGACT--AAGTAGGCAAA
* * * * * *
61369081 TCTTATCTCTCTGAAGTTGCA--GAGAGCAGA-TCA-CA-CCTAG
1 TCTTATCTCCCTGAAGTTGCAGTGAGAGCAGACTAAGTAGGCAAA
* * * * * *
61369121 TCTTATCTACCTGAAATTGTAGTG-GAGCAGACTAATTAAGCAAG
1 TCTTATCTCCCTGAAGTTGCAGTGAGAGCAGACTAAGTAGGCAAA
* * * *
61369165 TCTTCTC-CTCCTGAAGTTGCAATAAG-GCAAACTCAAG-ATGGCAAA
1 TCTTATCTC-CCTGAAGTTGCAGTGAGAGCAGACT-AAGTA-GGCAAA
61369210 TCTTATCTCCCTGAAGTTGCA--GAGAGCAGA
1 TCTTATCTCCCTGAAGTTGCAGTGAGAGCAGA
61369240 TCCAATCTAA
Statistics
Matches: 349, Mismatches: 70, Indels: 92
0.68 0.14 0.18
Matches are distributed among these distances:
38 1 0.00
40 36 0.10
41 13 0.04
42 11 0.03
43 22 0.06
44 161 0.46
45 95 0.27
46 8 0.02
49 2 0.01
ACGTcount: A:0.30, C:0.20, G:0.23, T:0.27
Consensus pattern (45 bp):
TCTTATCTCCCTGAAGTTGCAGTGAGAGCAGACTAAGTAGGCAAA
Found at i:61368952 original size:173 final size:173
Alignment explanation
Indices: 61368773--61369240 Score: 511
Period size: 173 Copynumber: 2.7 Consensus size: 173
61368763 TAAGTAGGCA
* *
61368773 AGTCTTATCCT-CCTGAAGTTACAGT-GAGGCAGACTGAAG-ATGGCAAATCTTAT-CTCCCTGA
1 AGTCTTAT-CTACCTGAAGTTACAGTGGA-GCAAACT-AAGTA-AGCAAATCTTATCCT-CCTGA
* * * * * *
61368834 ATTTGCAGTGGAGCAAG-TTAAAGCCA-ATAATCCTATCTCCCTGAAGTTGTAGTGGAGCGGATT
61 AGTTGCAGT-GAGCAAGACTAAAGACAGAAAATCCTATCTCCCTGAAGTTGCAGTGGAGCAGATT
* * *
61368897 AAAACCTAGGATGTTATCTCTCTGAAGTTGCAGAGAGCAGATCGCATCT
125 AAAACCTAGGATCTTATCTCTCTGAAGTTGCAGAGAGCAGATCACACCT
* *
61368946 AGTCTTATCTCCCTGAAGTTACAGTGGAGCAAACTAAGTAAGCAAGTCTTATCCTCCTGAAGTTG
1 AGTCTTATCTACCTGAAGTTACAGTGGAGCAAACTAAGTAAGCAAATCTTATCCTCCTGAAGTTG
** * * *
61369011 CAGTGAGGTAGACTGAAGACAGAAAATCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTAAAACT
66 CAGTGAGCAAGACTAAAGACAGAAAATCCTATCTCCCTGAAGTTGCAGTGGAGCAGATTAAAACC
*
61369076 TGGGATCTTATCTCTCTGAAGTTGCAGAGAGCAGATCACACCT
131 TAGGATCTTATCTCTCTGAAGTTGCAGAGAGCAGATCACACCT
* ** * * * *
61369119 AGTCTTATCTACCTGAAATTGTAGTGGAGCAGACTAATTAAGCAAGTCTTCTCCTCCTGAAGTTG
1 AGTCTTATCTACCTGAAGTTACAGTGGAGCAAACTAAGTAAGCAAATCTTATCCTCCTGAAGTTG
* * * ** * * *
61369184 CAATAAGGCAA-ACTCAAGATGGCAAATCTTATCTCCCTGAAGTTGCAG-AGAGCAGAT
66 CAGTGA-GCAAGACTAAAGACAGAAAATCCTATCTCCCTGAAGTTGCAGTGGAGCAGAT
61369241 CCAATCTAAT
Statistics
Matches: 254, Mismatches: 34, Indels: 15
0.84 0.11 0.05
Matches are distributed among these distances:
171 5 0.02
172 42 0.17
173 203 0.80
174 4 0.02
ACGTcount: A:0.30, C:0.20, G:0.22, T:0.27
Consensus pattern (173 bp):
AGTCTTATCTACCTGAAGTTACAGTGGAGCAAACTAAGTAAGCAAATCTTATCCTCCTGAAGTTG
CAGTGAGCAAGACTAAAGACAGAAAATCCTATCTCCCTGAAGTTGCAGTGGAGCAGATTAAAACC
TAGGATCTTATCTCTCTGAAGTTGCAGAGAGCAGATCACACCT
Found at i:61368972 original size:84 final size:84
Alignment explanation
Indices: 61368867--61369151 Score: 279
Period size: 84 Copynumber: 3.3 Consensus size: 84
61368857 CCAATAATCC
* * *
61368867 TATCTCCCTGAAGTTGTAGTGGAGCGGATTAAAACCTAGGATGTTATCTCTCTGAAGTTGCAGAG
1 TATCTCCCTGAAGTTGCAGTGGAGCAGATTAAAACCTAGGATCTTATCTCTCTGAAGTTGCAGAG
*
61368932 AGCAGATCGCATCTAGTCT
66 AGCAGATCGCACCTAGTCT
* * * * *
61368951 TATCTCCCTGAAGTTACAGTGGAGCAAACTAAGTAAGC-AAG-TCTTATC-CTCCTGAAGTTGCA
1 TATCTCCCTGAAGTTGCAGTGGAGCAGATTAA--AACCTAGGATCTTATCTCT-CTGAAGTTGCA
* * * *** *
61369013 GTGAGGTAGACTGAAGACAGAAAATCT
63 GAGA-GCAGA-T--CG-CACCTAGTCT
* *
61369040 TATCTCCCTGAAGTTGCAGTGGAGCAGATTAAAACTTGGGATCTTATCTCTCTGAAGTTGCAGAG
1 TATCTCCCTGAAGTTGCAGTGGAGCAGATTAAAACCTAGGATCTTATCTCTCTGAAGTTGCAGAG
*
61369105 AGCAGATCACACCTAGTCT
66 AGCAGATCGCACCTAGTCT
* * *
61369124 TATCTACCTGAAATTGTAGTGGAGCAGA
1 TATCTCCCTGAAGTTGCAGTGGAGCAGA
61369152 CTAATTAAGC
Statistics
Matches: 157, Mismatches: 33, Indels: 22
0.74 0.16 0.10
Matches are distributed among these distances:
83 2 0.01
84 78 0.50
85 6 0.04
86 4 0.03
87 3 0.02
88 6 0.04
89 56 0.36
90 2 0.01
ACGTcount: A:0.29, C:0.19, G:0.24, T:0.28
Consensus pattern (84 bp):
TATCTCCCTGAAGTTGCAGTGGAGCAGATTAAAACCTAGGATCTTATCTCTCTGAAGTTGCAGAG
AGCAGATCGCACCTAGTCT
Found at i:61369017 original size:217 final size:217
Alignment explanation
Indices: 61368639--61369065 Score: 683
Period size: 217 Copynumber: 2.0 Consensus size: 217
61368629 CAGATCCATG
* *
61368639 GCCAATAATCCTATCTCTCTAAAGTTGCAGTGGAGCAGATTAAAACATTGGATCTTATCTCTCTG
1 GCCAATAATCCTATCTCCCTAAAGTTGCAGTGGAGCAGATTAAAACATAGGATCTTATCTCTCTG
* * *
61368704 AAGTTGCAGAGAGCAGATCCCATCTCGTCTTATCTCCCTGAAGTTGCAGGGGAGCAGACTAAGTA
66 AAGTTGCAGAGAGCAGATCCCATCTAGTCTTATCTCCCTGAAGTTACAGGGGAGCAAACTAAGTA
* ** *
61368769 GGCAAGTCTTATCCTCCTGAAGTTACAGTGAGGCAGACTGAAGATGGCAAATCTTATCTCCCTGA
131 AGCAAGTCTTATCCTCCTGAAGTTACAGTGAGGCAGACTGAAGACAGAAAATCTTATCTCCCTGA
*
61368834 ATTTGCAGTGGAGCAAGTTAAA
196 AGTTGCAGTGGAGCAAGTTAAA
* * * * *
61368856 GCCAATAATCCTATCTCCCTGAAGTTGTAGTGGAGCGGATTAAAACCTAGGATGTTATCTCTCTG
1 GCCAATAATCCTATCTCCCTAAAGTTGCAGTGGAGCAGATTAAAACATAGGATCTTATCTCTCTG
* *
61368921 AAGTTGCAGAGAGCAGATCGCATCTAGTCTTATCTCCCTGAAGTTACAGTGGAGCAAACTAAGTA
66 AAGTTGCAGAGAGCAGATCCCATCTAGTCTTATCTCCCTGAAGTTACAGGGGAGCAAACTAAGTA
* *
61368986 AGCAAGTCTTATCCTCCTGAAGTTGCAGTGAGGTAGACTGAAGACAGAAAATCTTATCTCCCTGA
131 AGCAAGTCTTATCCTCCTGAAGTTACAGTGAGGCAGACTGAAGACAGAAAATCTTATCTCCCTGA
61369051 AGTTGCAGTGGAGCA
196 AGTTGCAGTGGAGCA
61369066 GATTAAAACT
Statistics
Matches: 191, Mismatches: 19, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
217 191 1.00
ACGTcount: A:0.29, C:0.21, G:0.23, T:0.27
Consensus pattern (217 bp):
GCCAATAATCCTATCTCCCTAAAGTTGCAGTGGAGCAGATTAAAACATAGGATCTTATCTCTCTG
AAGTTGCAGAGAGCAGATCCCATCTAGTCTTATCTCCCTGAAGTTACAGGGGAGCAAACTAAGTA
AGCAAGTCTTATCCTCCTGAAGTTACAGTGAGGCAGACTGAAGACAGAAAATCTTATCTCCCTGA
AGTTGCAGTGGAGCAAGTTAAA
Found at i:61369060 original size:89 final size:86
Alignment explanation
Indices: 61368948--61369239 Score: 247
Period size: 89 Copynumber: 3.4 Consensus size: 86
61368938 TCGCATCTAG
* *
61368948 TCTTATCTCCCTGAAGTTACAGTGGAGCAAACTAAGTAAGCAAGTCTTATCCTCCTGAAGTTGCA
1 TCTTATCTCCCTGAAGTTGCAGTGGAGCAGACTAA-TAAGCAAGTCTTATCCTCCTGAAGTTGCA
*
61369013 GTGAGGTAGACTGAAGACAGAAAA
65 -TGAGG-AGACTGAAGACAGCAAA
* **
61369037 TCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTAA-AA-CTTGGGATCTTAT-CTCTCTGAAGTT
1 TCTTATCTCCCTGAAGTTGCAGTGGAGCAGACTAATAAGC--AAG-TCTTATCCTC-CTGAAGTT
* ** * * *
61369099 GCA-GA-GAG-CAGATCACACCTAG
62 GCATGAGGAGACTGAAGACAGCAAA
* * * *
61369121 TCTTATCTACCTGAAATTGTAGTGGAGCAGACTAATTAAGCAAGTCTTCTCCTCCTGAAGTTGCA
1 TCTTATCTCCCTGAAGTTGCAGTGGAGCAGACTAA-TAAGCAAGTCTTATCCTCCTGAAGTTGC-
* * * **
61369186 ATAAGGCAAACTCAAGATGGCAAA
64 ATGAGG-AGACTGAAGACAGCAAA
*
61369210 TCTTATCTCCCTGAAGTTGCAG-AGAGCAGA
1 TCTTATCTCCCTGAAGTTGCAGTGGAGCAGA
61369240 TCCAATCTAA
Statistics
Matches: 156, Mismatches: 34, Indels: 27
0.72 0.16 0.12
Matches are distributed among these distances:
84 53 0.34
85 7 0.04
86 5 0.03
87 6 0.04
88 12 0.08
89 73 0.47
ACGTcount: A:0.31, C:0.21, G:0.22, T:0.27
Consensus pattern (86 bp):
TCTTATCTCCCTGAAGTTGCAGTGGAGCAGACTAATAAGCAAGTCTTATCCTCCTGAAGTTGCAT
GAGGAGACTGAAGACAGCAAA
Found at i:61369179 original size:84 final size:83
Alignment explanation
Indices: 61368867--61369185 Score: 261
Period size: 84 Copynumber: 3.7 Consensus size: 83
61368857 CCAATAATCC
* * * * * *
61368867 TATCTCCCTGAAGTTGTAGTGGAGCGGATTAA-AACCTAGGATGTTAT-CTCTCTGAAGTTGCAG
1 TATCTCCCTGAAGTTGCAGTGGAGCAGACTAATAAGC-AAG-TCTTATCCTC-CTGAAGTTGCAG
* *
61368930 AGAGCAGATCGCATCTAGTCT
63 AGAGCAGATCACACCTAGTCT
* *
61368951 TATCTCCCTGAAGTTACAGTGGAGCAAACTAAGTAAGCAAGTCTTATCCTCCTGAAGTTGCAGTG
1 TATCTCCCTGAAGTTGCAGTGGAGCAGACTAA-TAAGCAAGTCTTATCCTCCTGAAGTTGCA--G
* ** *** *
61369016 AGGTAGACTGAAGACAGAAAATCT
63 A-G-AG-CAGATCACACCTAGTCT
* **
61369040 TATCTCCCTGAAGTTGCAGTGGAGCAGATTAA-AA-CTTGGGATCTTAT-CTCTCTGAAGTTGCA
1 TATCTCCCTGAAGTTGCAGTGGAGCAGACTAATAAGC--AAG-TCTTATCCTC-CTGAAGTTGCA
61369102 GAGAGCAGATCACACCTAGTCT
62 GAGAGCAGATCACACCTAGTCT
* * * *
61369124 TATCTACCTGAAATTGTAGTGGAGCAGACTAATTAAGCAAGTCTTCTCCTCCTGAAGTTGCA
1 TATCTCCCTGAAGTTGCAGTGGAGCAGACTAA-TAAGCAAGTCTTATCCTCCTGAAGTTGCA
61369186 ATAAGGCAAA
Statistics
Matches: 184, Mismatches: 35, Indels: 32
0.73 0.14 0.13
Matches are distributed among these distances:
84 97 0.53
85 11 0.06
86 9 0.05
87 6 0.03
88 6 0.03
89 55 0.30
ACGTcount: A:0.29, C:0.20, G:0.23, T:0.28
Consensus pattern (83 bp):
TATCTCCCTGAAGTTGCAGTGGAGCAGACTAATAAGCAAGTCTTATCCTCCTGAAGTTGCAGAGA
GCAGATCACACCTAGTCT
Found at i:61369182 original size:217 final size:217
Alignment explanation
Indices: 61368640--61369139 Score: 598
Period size: 217 Copynumber: 2.3 Consensus size: 217
61368630 AGATCCATGG
* * * * * *
61368640 CCAATAATCCTATCTCTCTAAAGTTGCAGTGGAGCAGATTAAAACATTGGATCTTATCTCTCTGA
1 CCAAGAATCCTATCTCCCTGAAGTTGCAGTAGAGCAGATTAAAACCTAGGATCTTATCTCTCTGA
* ** ** * * *
61368705 AGTTGCAGAGAGCAGATCCCATCTCGTCTTATCTCCCTGAAGTTGCAGGGGAGCAGACTAAGTAG
66 AATTGCAGAGAGCAGATCGAATCAAGTCTTATCTCCCTGAAGTTACAGGGGAGCAAACTAAGTAA
** *
61368770 GCAAGTCTTATCCTCCTGAAGTTACAGTGAGGCAGACTGAAGATGGCAAATCTTATCTCCCTGAA
131 GCAAGTCTTATCCTCCTGAAGTTACAGTGAGGCAGACTGAAGACAGAAAATCTTATCTCCCTGAA
* *
61368835 TTTGCAGTGGAGCAAGTTAAAG
196 GTTGCAGTGGAGCAAGTTAAAA
* * * * *
61368857 CCAATAATCCTATCTCCCTGAAGTTGTAGTGGAGCGGATTAAAACCTAGGATGTTATCTCTCTGA
1 CCAAGAATCCTATCTCCCTGAAGTTGCAGTAGAGCAGATTAAAACCTAGGATCTTATCTCTCTGA
* * * *
61368922 AGTTGCAGAGAGCAGATCGCATCTAGTCTTATCTCCCTGAAGTTACAGTGGAGCAAACTAAGTAA
66 AATTGCAGAGAGCAGATCGAATCAAGTCTTATCTCCCTGAAGTTACAGGGGAGCAAACTAAGTAA
* *
61368987 GCAAGTCTTATCCTCCTGAAGTTGCAGTGAGGTAGACTGAAGACAGAAAATCTTATCTCCCTGAA
131 GCAAGTCTTATCCTCCTGAAGTTACAGTGAGGCAGACTGAAGACAGAAAATCTTATCTCCCTGAA
61369052 GTTGCAGTGGAGC-AGATTAAAA
196 GTTGCAGTGGAGCAAG-TTAAAA
*** * * * * *
61369074 CTTGGGATCTTATCTCTCTGAAGTTGCAG-AGAGCAGA-TCACACCTA-G-TCTTATCTAC-CTG
1 CCAAGAATCCTATCTCCCTGAAGTTGCAGTAGAGCAGATTAAAACCTAGGATCTTATCT-CTCTG
61369134 AAATTG
65 AAATTG
61369140 TAGTGGAGCA
Statistics
Matches: 247, Mismatches: 34, Indels: 8
0.85 0.12 0.03
Matches are distributed among these distances:
213 15 0.06
214 2 0.01
215 7 0.03
216 8 0.03
217 215 0.87
ACGTcount: A:0.29, C:0.21, G:0.22, T:0.28
Consensus pattern (217 bp):
CCAAGAATCCTATCTCCCTGAAGTTGCAGTAGAGCAGATTAAAACCTAGGATCTTATCTCTCTGA
AATTGCAGAGAGCAGATCGAATCAAGTCTTATCTCCCTGAAGTTACAGGGGAGCAAACTAAGTAA
GCAAGTCTTATCCTCCTGAAGTTACAGTGAGGCAGACTGAAGACAGAAAATCTTATCTCCCTGAA
GTTGCAGTGGAGCAAGTTAAAA
Found at i:61369197 original size:217 final size:217
Alignment explanation
Indices: 61368640--61369239 Score: 567
Period size: 217 Copynumber: 2.8 Consensus size: 217
61368630 AGATCCATGG
* * * * * *
61368640 CCAATAATCCTATCTCTCTAAAGTTGCAGTGGAGCAGATTAAAACATTGGATCTTATCTCTCTGA
1 CCAAGAATCCTATCTCCCTGAAGTTGCAGTAGAGCAGATTAAAACCTAGGATCTTATCTCTCTGA
* ** ** * *** *
61368705 AGTTGCAGAGAGCAGATCCCATCTCGTCTTATCTCCCTGAAGTTGCAGGGGAGCAGACTAAGTAG
66 AATTGCAGAGAGCAGATCGAATCAAGTCTTATCTCCCTGAAGTTACAATAGAGCAAACTAAGTAG
* ** *
61368770 GCAAGTCTTATCCTCCTGAAGTTACAGTGAGGCAGACTGAAGATGGCAAATCTTATCTCCCTGAA
131 GCAAGTCTTATCCTCCTGAAGTTGCAGTGAGGCAGACTGAAGACAGAAAATCTTATCTCCCTGAA
* *
61368835 TTTGCAGTGGAGCAAGTTAAAG
196 GTTGCAGTGGAGCAAGTTAAAA
* * * * *
61368857 CCAATAATCCTATCTCCCTGAAGTTGTAGTGGAGCGGATTAAAACCTAGGATGTTATCTCTCTGA
1 CCAAGAATCCTATCTCCCTGAAGTTGCAGTAGAGCAGATTAAAACCTAGGATCTTATCTCTCTGA
* * * * * *
61368922 AGTTGCAGAGAGCAGATCGCATCTAGTCTTATCTCCCTGAAGTTACAGTGGAGCAAACTAAGTAA
66 AATTGCAGAGAGCAGATCGAATCAAGTCTTATCTCCCTGAAGTTACAATAGAGCAAACTAAGTAG
*
61368987 GCAAGTCTTATCCTCCTGAAGTTGCAGTGAGGTAGACTGAAGACAGAAAATCTTATCTCCCTGAA
131 GCAAGTCTTATCCTCCTGAAGTTGCAGTGAGGCAGACTGAAGACAGAAAATCTTATCTCCCTGAA
61369052 GTTGCAGTGGAGC-AGATTAAAA
196 GTTGCAGTGGAGCAAG-TTAAAA
*** * * * * *
61369074 CTTGGGATCTTATCTCTCTGAAGTTGCAG-AGAGCAGA-TCACACCTA-G-TCTTATCTAC-CTG
1 CCAAGAATCCTATCTCCCTGAAGTTGCAGTAGAGCAGATTAAAACCTAGGATCTTATCT-CTCTG
* * * * *
61369134 AAATTGTAGTGGAGCAGA-CTAATTAAGCAAGTCTTCTC-CTCCTGAAGTTGCAATA-AGGCAAA
65 AAATTGCAG-AGAGCAGATCGAA-T---CAAGTCTTATCTC-CCTGAAGTTACAATAGA-GCAAA
* *
61369196 CTCAAG-ATGGCAAATCTTAT-CTCCCTGAAGTTGCAGAGA-GCAGA
123 CT-AAGTA-GGCAAGTCTTATCCT-CCTGAAGTTGCAGTGAGGCAGA
61369240 TCCAATCTAA
Statistics
Matches: 324, Mismatches: 47, Indels: 24
0.82 0.12 0.06
Matches are distributed among these distances:
213 19 0.06
214 10 0.03
215 7 0.02
216 10 0.03
217 250 0.77
218 28 0.09
ACGTcount: A:0.30, C:0.21, G:0.22, T:0.27
Consensus pattern (217 bp):
CCAAGAATCCTATCTCCCTGAAGTTGCAGTAGAGCAGATTAAAACCTAGGATCTTATCTCTCTGA
AATTGCAGAGAGCAGATCGAATCAAGTCTTATCTCCCTGAAGTTACAATAGAGCAAACTAAGTAG
GCAAGTCTTATCCTCCTGAAGTTGCAGTGAGGCAGACTGAAGACAGAAAATCTTATCTCCCTGAA
GTTGCAGTGGAGCAAGTTAAAA
Found at i:61370368 original size:16 final size:16
Alignment explanation
Indices: 61370349--61370383 Score: 52
Period size: 16 Copynumber: 2.2 Consensus size: 16
61370339 TGCTTTCCTC
61370349 TTTTTATTAATTATTT
1 TTTTTATTAATTATTT
**
61370365 TTTTTATTTTTTATTT
1 TTTTTATTAATTATTT
61370381 TTT
1 TTT
61370384 ATTTTTCATA
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
16 17 1.00
ACGTcount: A:0.17, C:0.00, G:0.00, T:0.83
Consensus pattern (16 bp):
TTTTTATTAATTATTT
Found at i:61370381 original size:6 final size:7
Alignment explanation
Indices: 61370364--61370389 Score: 52
Period size: 7 Copynumber: 3.7 Consensus size: 7
61370354 ATTAATTATT
61370364 TTTTTTA
1 TTTTTTA
61370371 TTTTTTA
1 TTTTTTA
61370378 TTTTTTA
1 TTTTTTA
61370385 TTTTT
1 TTTTT
61370390 CATATTTAAT
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 19 1.00
ACGTcount: A:0.12, C:0.00, G:0.00, T:0.88
Consensus pattern (7 bp):
TTTTTTA
Found at i:61370395 original size:23 final size:23
Alignment explanation
Indices: 61370349--61370407 Score: 64
Period size: 23 Copynumber: 2.5 Consensus size: 23
61370339 TGCTTTCCTC
** **
61370349 TTTTTATTAATTATTTTTTTTAT
1 TTTTTATTTTTTATTTTTCATAT
61370372 TTTTTATTTTTTATTTTTCATAT
1 TTTTTATTTTTTATTTTTCATAT
*
61370395 TTAATTATTTTTT
1 TT-TTTATTTTTT
61370408 TAAATTTATG
Statistics
Matches: 30, Mismatches: 5, Indels: 1
0.83 0.14 0.03
Matches are distributed among these distances:
23 21 0.70
24 9 0.30
ACGTcount: A:0.20, C:0.02, G:0.00, T:0.78
Consensus pattern (23 bp):
TTTTTATTTTTTATTTTTCATAT
Found at i:61370491 original size:22 final size:21
Alignment explanation
Indices: 61370465--61370561 Score: 67
Period size: 21 Copynumber: 4.6 Consensus size: 21
61370455 ATACATATAT
61370465 TTATTTTTTTAATATAATGTAA
1 TTATTTTTTTAATAT-ATGTAA
61370487 TTA-TTTTTT--TATATGTAA
1 TTATTTTTTTAATATATGTAA
* * **
61370505 TTATTTTTATAATCTATACATA
1 TTATTTTTTTAATATATGTA-A
*
61370527 TATATTTATTTTTATATATGT-A
1 T-TATTT-TTTTAATATATGTAA
*
61370549 TTAATATTTTTAA
1 TT-ATTTTTTTAA
61370562 CCAATTTTTA
Statistics
Matches: 57, Mismatches: 11, Indels: 15
0.69 0.13 0.18
Matches are distributed among these distances:
18 9 0.16
19 8 0.14
21 17 0.30
22 10 0.18
23 5 0.09
24 8 0.14
ACGTcount: A:0.34, C:0.02, G:0.03, T:0.61
Consensus pattern (21 bp):
TTATTTTTTTAATATATGTAA
Found at i:61370495 original size:21 final size:20
Alignment explanation
Indices: 61370469--61370517 Score: 66
Period size: 18 Copynumber: 2.5 Consensus size: 20
61370459 ATATATTTAT
61370469 TTTTTTAATATAATGTAATTA
1 TTTTTTAATAT-ATGTAATTA
61370490 TTTTTT--TATATGTAATTA
1 TTTTTTAATATATGTAATTA
61370508 TTTTTATAAT
1 TTTTT-TAAT
61370518 CTATACATAT
Statistics
Matches: 25, Mismatches: 0, Indels: 6
0.81 0.00 0.19
Matches are distributed among these distances:
18 14 0.56
19 4 0.16
21 7 0.28
ACGTcount: A:0.33, C:0.00, G:0.04, T:0.63
Consensus pattern (20 bp):
TTTTTTAATATATGTAATTA
Found at i:61370865 original size:24 final size:25
Alignment explanation
Indices: 61370835--61370883 Score: 91
Period size: 25 Copynumber: 2.0 Consensus size: 25
61370825 TGTTAAAAAG
61370835 AATG-TTTTTTTTTTGACCATTTAT
1 AATGTTTTTTTTTTTGACCATTTAT
61370859 AATGTTTTTTTTTTTGACCATTTAT
1 AATGTTTTTTTTTTTGACCATTTAT
61370884 TTGATATTTT
Statistics
Matches: 24, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
24 4 0.17
25 20 0.83
ACGTcount: A:0.20, C:0.08, G:0.08, T:0.63
Consensus pattern (25 bp):
AATGTTTTTTTTTTTGACCATTTAT
Found at i:61370893 original size:24 final size:25
Alignment explanation
Indices: 61370841--61370893 Score: 72
Period size: 25 Copynumber: 2.2 Consensus size: 25
61370831 AAAGAATGTT
* *
61370841 TTTTTTTTGACCATTTATAATGTTT
1 TTTTTTTTGACCATTTATAATGATA
*
61370866 TTTTTTTTGACCATTTAT-TTGATA
1 TTTTTTTTGACCATTTATAATGATA
61370890 TTTT
1 TTTT
61370894 GCATGTGATT
Statistics
Matches: 25, Mismatches: 3, Indels: 1
0.86 0.10 0.03
Matches are distributed among these distances:
24 7 0.28
25 18 0.72
ACGTcount: A:0.19, C:0.08, G:0.08, T:0.66
Consensus pattern (25 bp):
TTTTTTTTGACCATTTATAATGATA
Found at i:61372574 original size:28 final size:29
Alignment explanation
Indices: 61372541--61372595 Score: 85
Period size: 29 Copynumber: 1.9 Consensus size: 29
61372531 CCACTGAATC
*
61372541 GGGG-AATCAGCACTTAACAACCCCCTCG
1 GGGGAAATCAGCACATAACAACCCCCTCG
*
61372569 GGGGAAATCAGCACATAGCAACCCCCT
1 GGGGAAATCAGCACATAACAACCCCCT
61372596 TTTTATTTCA
Statistics
Matches: 24, Mismatches: 2, Indels: 1
0.89 0.07 0.04
Matches are distributed among these distances:
28 4 0.17
29 20 0.83
ACGTcount: A:0.31, C:0.35, G:0.22, T:0.13
Consensus pattern (29 bp):
GGGGAAATCAGCACATAACAACCCCCTCG
Found at i:61372758 original size:105 final size:103
Alignment explanation
Indices: 61372507--61372879 Score: 568
Period size: 105 Copynumber: 3.6 Consensus size: 103
61372497 TAGCCGTTAT
** * *
61372507 TGGTGGATCCCGCACTTAGCACCACCACTGAATCGGGGAATCAGCACTTAACAACCCCCTCGGGG
1 TGGTGGATATCGCACTTAGCACCACCAATGAATCGGGGAATCAGCACTTAGCAA-CCCCTCGGGG
*
61372572 GAAATCAGCACATAGCAACCCCCTTTTTATTTCAAAGATA
65 G-AATCAGCACATAGCAACCCCCTTTTCATTTCAAAGATA
*
61372612 TGGTGGATATCGCACTTAGCACCACCAATGAATCGGGGAATCAGCACTTAGCAACCCCTCGAGGG
1 TGGTGGATATCGCACTTAGCACCACCAATGAATCGGGGAATCAGCACTTAGCAACCCCTCGGGGG
61372677 AATCAGCACATAGCAACCCCCCTTTTCATTTCAAAGATA
66 AATCAGCACATAGCAA-CCCCCTTTTCATTTCAAAGATA
*
61372716 TGGTGGATATCGCACTTAGCACCACCAATGAAATCGGGGAATCAGCACTTAGCAACCCCTTGGGG
1 TGGTGGATATCGCACTTAGCACCACCAATG-AATCGGGGAATCAGCACTTAGCAACCCCTCGGGG
*
61372781 GAATCAGCACATAGCAACCCCCTTTCACATTTCAAAGATA
65 GAATCAGCACATAGCAACCCCCTTT-TCATTTCAAAGATA
* * * **
61372821 TGGTGGATCA-CGCACATAGCACCACCCATAAATCGGGGAATCAGCACACAGCAACCCCT
1 TGGTGGAT-ATCGCACTTAGCACCACCAATGAATCGGGGAATCAGCACTTAGCAACCCCT
61372880 TTTATATACA
Statistics
Matches: 250, Mismatches: 14, Indels: 9
0.92 0.05 0.03
Matches are distributed among these distances:
103 16 0.06
104 96 0.38
105 137 0.55
106 1 0.00
ACGTcount: A:0.31, C:0.30, G:0.20, T:0.20
Consensus pattern (103 bp):
TGGTGGATATCGCACTTAGCACCACCAATGAATCGGGGAATCAGCACTTAGCAACCCCTCGGGGG
AATCAGCACATAGCAACCCCCTTTTCATTTCAAAGATA
Found at i:61380395 original size:104 final size:103
Alignment explanation
Indices: 61380102--61380472 Score: 609
Period size: 105 Copynumber: 3.6 Consensus size: 103
61380092 TAGCCGTTAT
** *
61380102 TGGTGGATCCCGCACTTAGCACCACCACTGAATCGGGGAATCAGCACTTAGCAACCCCTCGGGGG
1 TGGTGGATATCGCACTTAGCACCACCAATGAATCGGGGAATCAGCACTTAGCAACCCCTCGGGGG
*
61380167 AATCAGCACATAGCAACCCCCTTTTTATTTCAAAGATA
66 AATCAGCACATAGCAACCCCCTTTTCATTTCAAAGATA
61380205 TGGTGGATATCGCACTTAGCACCACCAATGAATCGGGGAATCAGCACTTAGCAACCCCTCGGGGG
1 TGGTGGATATCGCACTTAGCACCACCAATGAATCGGGGAATCAGCACTTAGCAACCCCTCGGGGG
61380270 AATCAGCACATAGCAACCCCCCTTTTCATTTCAAAGATA
66 AATCAGCACATAGCAA-CCCCCTTTTCATTTCAAAGATA
61380309 TGGTGGATATCGCACTTAGCACCACCAATGAAATCGGGGAATCAGCACTTAGCAACCCCTCGGGG
1 TGGTGGATATCGCACTTAGCACCACCAATG-AATCGGGGAATCAGCACTTAGCAACCCCTCGGGG
*
61380374 GAATCAGCACATAGCAACCCCCTTTCACATTTCAAAGATA
65 GAATCAGCACATAGCAACCCCCTTT-TCATTTCAAAGATA
* * * **
61380414 TGGTGGATCA-CGCACATAGCACCACCCATAAATCGGGGAATCAGCACACAGCAACCCCT
1 TGGTGGAT-ATCGCACTTAGCACCACCAATGAATCGGGGAATCAGCACTTAGCAACCCCT
61380473 TTTATATACA
Statistics
Matches: 254, Mismatches: 10, Indels: 7
0.94 0.04 0.03
Matches are distributed among these distances:
103 78 0.31
104 86 0.34
105 89 0.35
106 1 0.00
ACGTcount: A:0.30, C:0.30, G:0.20, T:0.20
Consensus pattern (103 bp):
TGGTGGATATCGCACTTAGCACCACCAATGAATCGGGGAATCAGCACTTAGCAACCCCTCGGGGG
AATCAGCACATAGCAACCCCCTTTTCATTTCAAAGATA
Found at i:61380834 original size:29 final size:30
Alignment explanation
Indices: 61380808--61380864 Score: 80
Period size: 30 Copynumber: 1.9 Consensus size: 30
61380798 CCACCCAACT
61380808 TTTTG-AAAATTACAATTTTGCCCCCAAAA
1 TTTTGCAAAATTACAATTTTGCCCCCAAAA
* * *
61380837 TTTTGCATAATTACACTTTTGTCCCCAA
1 TTTTGCAAAATTACAATTTTGCCCCCAA
61380865 GCTCGGAAAT
Statistics
Matches: 24, Mismatches: 3, Indels: 1
0.86 0.11 0.04
Matches are distributed among these distances:
29 5 0.21
30 19 0.79
ACGTcount: A:0.32, C:0.23, G:0.07, T:0.39
Consensus pattern (30 bp):
TTTTGCAAAATTACAATTTTGCCCCCAAAA
Found at i:61394494 original size:31 final size:31
Alignment explanation
Indices: 61394456--61394514 Score: 100
Period size: 31 Copynumber: 1.9 Consensus size: 31
61394446 TGGGCACTTC
61394456 CGTTACATACTTTTATCATTTTAGTCACTGT
1 CGTTACATACTTTTATCATTTTAGTCACTGT
* *
61394487 CGTTACATTCTTTTATTATTTTAGTCAC
1 CGTTACATACTTTTATCATTTTAGTCAC
61394515 CCACCGTTAA
Statistics
Matches: 26, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
31 26 1.00
ACGTcount: A:0.22, C:0.19, G:0.08, T:0.51
Consensus pattern (31 bp):
CGTTACATACTTTTATCATTTTAGTCACTGT
Found at i:61394800 original size:20 final size:20
Alignment explanation
Indices: 61394744--61394801 Score: 62
Period size: 22 Copynumber: 2.8 Consensus size: 20
61394734 AAGAGAAGCA
*
61394744 AAAACTTGAGGTTTTATAGG
1 AAAACTTGAGTTTTTATAGG
** *
61394764 AAATTAAGTGGGTTTTTATAGG
1 AAA--ACTTGAGTTTTTATAGG
61394786 AAAACTTGAGTTTTTA
1 AAAACTTGAGTTTTTA
61394802 CAAGAAAAAT
Statistics
Matches: 29, Mismatches: 7, Indels: 4
0.73 0.17 0.10
Matches are distributed among these distances:
20 13 0.45
22 16 0.55
ACGTcount: A:0.34, C:0.03, G:0.22, T:0.40
Consensus pattern (20 bp):
AAAACTTGAGTTTTTATAGG
Found at i:61395272 original size:31 final size:31
Alignment explanation
Indices: 61395214--61395274 Score: 77
Period size: 31 Copynumber: 2.0 Consensus size: 31
61395204 TTAACAACGG
* ***
61395214 ATGATTAAAATGATAAATGTATATAACGACA
1 ATGACTAAAATGATAAAAAAATATAACGACA
*
61395245 ATGACTAAAATGATAAAAAAATGTAACGAC
1 ATGACTAAAATGATAAAAAAATATAACGAC
61395275 TGTGCCCATA
Statistics
Matches: 25, Mismatches: 5, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
31 25 1.00
ACGTcount: A:0.54, C:0.08, G:0.13, T:0.25
Consensus pattern (31 bp):
ATGACTAAAATGATAAAAAAATATAACGACA
Found at i:61395590 original size:2 final size:2
Alignment explanation
Indices: 61395578--61395624 Score: 85
Period size: 2 Copynumber: 23.5 Consensus size: 2
61395568 CATTTATGGA
*
61395578 AT AT TT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
61395620 AT AT A
1 AT AT A
61395625 AGTCTAAGTT
Statistics
Matches: 43, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
2 43 1.00
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (2 bp):
AT
Found at i:61396834 original size:18 final size:17
Alignment explanation
Indices: 61396811--61396846 Score: 54
Period size: 18 Copynumber: 2.1 Consensus size: 17
61396801 ACAATTGTAA
61396811 AGCAACATGAAAAGACAG
1 AGCAACATGAAAA-ACAG
*
61396829 AGCAACATTAAAAACAG
1 AGCAACATGAAAAACAG
61396846 A
1 A
61396847 CGCCTAACAA
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
17 5 0.29
18 12 0.71
ACGTcount: A:0.58, C:0.17, G:0.17, T:0.08
Consensus pattern (17 bp):
AGCAACATGAAAAACAG
Found at i:61405792 original size:12 final size:12
Alignment explanation
Indices: 61405775--61405799 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
61405765 TTCCAAGAAT
61405775 ATGCACCTTATC
1 ATGCACCTTATC
61405787 ATGCACCTTATC
1 ATGCACCTTATC
61405799 A
1 A
61405800 AAGAATATGT
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 13 1.00
ACGTcount: A:0.28, C:0.32, G:0.08, T:0.32
Consensus pattern (12 bp):
ATGCACCTTATC
Found at i:61406224 original size:854 final size:854
Alignment explanation
Indices: 61404942--61406614 Score: 3310
Period size: 854 Copynumber: 2.0 Consensus size: 854
61404932 CAGTTATTCG
61404942 ATCAAAGAATATGTTTCCAAGATTCAAAATATTAGTGTCTTGTTAGAGGCGTCCGATTCTCGAAT
1 ATCAAAGAATATGTTTCCAAGATTCAAAATATTAGTGTCTTGTTAGAGGCGTCCGATTCTCGAAT
61405007 ATCAGACGAAGAGAAGGTAGAAATCGTCCTTACCAGGTTACCTCCATATTTCGATGTAATTATCA
66 ATCAGACGAAGAGAAGGTAGAAATCGTCCTTACCAGGTTACCTCCATATTTCGATGTAATTATCA
* *
61405072 CTTTATCTTCGTTCTCTTCAGAACCTTTACCGTTTTAATGGCTTGTTAATGTACTGGTCAAGTAT
131 CTTTATCTTCGTTCTCTTCAGAACCTTTACCGTTTTAACGGCTTGTTAAGGTACTGGTCAAGTAT
61405137 GAAAGTCGTCAAGAGCGTACGATCTAGAATGTACCCCTTCATGCTAATCTTTTGAAGACTGGTTC
196 GAAAGTCGTCAAGAGCGTACGATCTAGAATGTACCCCTTCATGCTAATCTTTTGAAGACTGGTTC
61405202 GCTGTCGAATCTGGAGGATGGGCTATCATCGGTTCCAGTGGGCTCCGTTCGTGGTGCTCGTATTT
261 GCTGTCGAATCTGGAGGATGGGCTATCATCGGTTCCAGTGGGCTCCGTTCGTGGTGCTCGTATTT
61405267 TGTCTGAAGAATGTAGGAGAGGGTTTCGATCCCGCCTACAGTGCCAAATCTTTGGAAGGTTCGGC
326 TGTCTGAAGAATGTAGGAGAGGGTTTCGATCCCGCCTACAGTGCCAAATCTTTGGAAGGTTCGGC
61405332 CATATAGCCCAACGGTGTTTCTTTCGTTATAATCGGGGTTATAAAGGGTCGTCGACGATTCGAGC
391 CATATAGCCCAACGGTGTTTCTTTCGTTATAATCGGGGTTATAAAGGGTCGTCGACGATTCGAGC
61405397 AGCGAATCTGATTGATCATTATGGCGCTAGTGAATCGCCATTCTCTGGTTCGCCTTATGTCTCGT
456 AGCGAATCTGATTGATCATTATGGCGCTAGTGAATCGCCATTCTCTGGTTCGCCTTATGTCTCGT
*
61405462 CACCGTTCTCTGGTCCGCCTCATGTCCCGGGGTTGATGGAGTCGCAAGGCGCTAGTTCGGGAGAA
521 CACCATTCTCTGGTCCGCCTCATGTCCCGGGGTTGATGGAGTCGCAAGGCGCTAGTTCGGGAGAA
61405527 TTGTTTTGGTCGACTGCTACGCCTCAACATCCTAGAGGTTCTAATTCATACTTAGACAGAGCTGA
586 TTGTTTTGGTCGACTGCTACGCCTCAACATCCTAGAGGTTCTAATTCATACTTAGACAGAGCTGA
61405592 TGGTGTTAGTTATGGGCTATCATTTGGGTCATAGTTTCACTATGGGTTTGAGCCTGCACCTTATC
651 TGGTGTTAGTTATGGGCTATCATTTGGGTCATAGTTTCACTATGGGTTTGAGCCTGCACCTTATC
61405657 ATGCACATAGGCTTGCTGCTATTAGAGTTTATTGCAATAACCCGAATTTGGGGCTAGTCGAAATA
716 ATGCACATAGGCTTGCTGCTATTAGAGTTTATTGCAATAACCCGAATTTGGGGCTAGTCGAAATA
61405722 GTGGTTTCGAGGCCACAAATTTGATGAGAAAAAATTTTAGTGTTTCCAAGAATATGCACCTTATC
781 GTGGTTTCGAGGCCACAAATTTGATGAGAAAAAATTTTAGTGTTTCCAAGAATATGCACCTTATC
61405787 ATGCACCTT
846 ATGCACCTT
61405796 ATCAAAGAATATGTTTCCAAGATTCAAAATATTAGTGTCTTGTTAGAGGCGTCCGATTCTCGAAT
1 ATCAAAGAATATGTTTCCAAGATTCAAAATATTAGTGTCTTGTTAGAGGCGTCCGATTCTCGAAT
61405861 ATCAGACGAAGAGAAGGTAGAAATCGTCCTTACCAGGTTACCTCCATATTTCGATGTAATTATCA
66 ATCAGACGAAGAGAAGGTAGAAATCGTCCTTACCAGGTTACCTCCATATTTCGATGTAATTATCA
61405926 CTTTATCTTCGTTCTCTTCAGAACCTTTACCGTTTTAACGGCTTGTTAAGGTACTGGTCAAGTAT
131 CTTTATCTTCGTTCTCTTCAGAACCTTTACCGTTTTAACGGCTTGTTAAGGTACTGGTCAAGTAT
61405991 GAAAGTCGTCAAGAGCGTACGATCTAGAATGTACCCCTTCATGCTAATCTTTTGAAGACTGGTTC
196 GAAAGTCGTCAAGAGCGTACGATCTAGAATGTACCCCTTCATGCTAATCTTTTGAAGACTGGTTC
61406056 GCTGTCGAATCTGGAGGATGGGCTATCATCGGTTCCAGTGGGCTCCGTTCGTGGTGCTCGTATTT
261 GCTGTCGAATCTGGAGGATGGGCTATCATCGGTTCCAGTGGGCTCCGTTCGTGGTGCTCGTATTT
61406121 TGTCTGAAGAATGTAGGAGAGGGTTTCGATCCCGCCTACAGTGCCAAATCTTTGGAAGGTTCGGC
326 TGTCTGAAGAATGTAGGAGAGGGTTTCGATCCCGCCTACAGTGCCAAATCTTTGGAAGGTTCGGC
61406186 CATATAGCCCAACGGTGTTTCTTTCGTTATAATCGGGGTTATAAAGGGTCGTCGACGATTCGAGC
391 CATATAGCCCAACGGTGTTTCTTTCGTTATAATCGGGGTTATAAAGGGTCGTCGACGATTCGAGC
61406251 AGCGAATCTGATTGATCATTATGGCGCTAGTGAATCGCCATTCTCTGGTTCGCCTTATGTCTCGT
456 AGCGAATCTGATTGATCATTATGGCGCTAGTGAATCGCCATTCTCTGGTTCGCCTTATGTCTCGT
61406316 CACCATTCTCTGGTCCGCCTCATGTCCCGGGGTTGATGGAGTCGCAAGGCGCTAGTTCGGGAGAA
521 CACCATTCTCTGGTCCGCCTCATGTCCCGGGGTTGATGGAGTCGCAAGGCGCTAGTTCGGGAGAA
61406381 TTGTTTTGGTCGACTGCTACGCCTCAACATCCTAGAGGTTCTAATTCATACTTAGACAGAGCTGA
586 TTGTTTTGGTCGACTGCTACGCCTCAACATCCTAGAGGTTCTAATTCATACTTAGACAGAGCTGA
*
61406446 TGGTGTTAGTTATGGGCTATCATTTGGGTCATAGTTTCACTATGGGTTTGAGCCTGCACTTTATC
651 TGGTGTTAGTTATGGGCTATCATTTGGGTCATAGTTTCACTATGGGTTTGAGCCTGCACCTTATC
61406511 ATGCACATAGGCTTGCTGCTATTAGAGTTTATTGCAATAACCCGAATTTGGGGCTAGTCGAAATA
716 ATGCACATAGGCTTGCTGCTATTAGAGTTTATTGCAATAACCCGAATTTGGGGCTAGTCGAAATA
61406576 GTGGTTTCGAGGCCACAAATTTGATGAGAAAAAATTTTA
781 GTGGTTTCGAGGCCACAAATTTGATGAGAAAAAATTTTA
61406615 TTTTCATTAT
Statistics
Matches: 815, Mismatches: 4, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
854 815 1.00
ACGTcount: A:0.24, C:0.20, G:0.24, T:0.32
Consensus pattern (854 bp):
ATCAAAGAATATGTTTCCAAGATTCAAAATATTAGTGTCTTGTTAGAGGCGTCCGATTCTCGAAT
ATCAGACGAAGAGAAGGTAGAAATCGTCCTTACCAGGTTACCTCCATATTTCGATGTAATTATCA
CTTTATCTTCGTTCTCTTCAGAACCTTTACCGTTTTAACGGCTTGTTAAGGTACTGGTCAAGTAT
GAAAGTCGTCAAGAGCGTACGATCTAGAATGTACCCCTTCATGCTAATCTTTTGAAGACTGGTTC
GCTGTCGAATCTGGAGGATGGGCTATCATCGGTTCCAGTGGGCTCCGTTCGTGGTGCTCGTATTT
TGTCTGAAGAATGTAGGAGAGGGTTTCGATCCCGCCTACAGTGCCAAATCTTTGGAAGGTTCGGC
CATATAGCCCAACGGTGTTTCTTTCGTTATAATCGGGGTTATAAAGGGTCGTCGACGATTCGAGC
AGCGAATCTGATTGATCATTATGGCGCTAGTGAATCGCCATTCTCTGGTTCGCCTTATGTCTCGT
CACCATTCTCTGGTCCGCCTCATGTCCCGGGGTTGATGGAGTCGCAAGGCGCTAGTTCGGGAGAA
TTGTTTTGGTCGACTGCTACGCCTCAACATCCTAGAGGTTCTAATTCATACTTAGACAGAGCTGA
TGGTGTTAGTTATGGGCTATCATTTGGGTCATAGTTTCACTATGGGTTTGAGCCTGCACCTTATC
ATGCACATAGGCTTGCTGCTATTAGAGTTTATTGCAATAACCCGAATTTGGGGCTAGTCGAAATA
GTGGTTTCGAGGCCACAAATTTGATGAGAAAAAATTTTAGTGTTTCCAAGAATATGCACCTTATC
ATGCACCTT
Found at i:61407777 original size:51 final size:50
Alignment explanation
Indices: 61407637--61407841 Score: 234
Period size: 51 Copynumber: 4.1 Consensus size: 50
61407627 ATGTAAAAGT
* *
61407637 GAAAGTGA-TGGTCACGTGTGTAGTACTATGTGCAGGCTACTACGTGTACC
1 GAAAGT-ATTGGTCACATGTGTAGTACTATGTGCAGGCTACTATGTGTACC
* * *
61407687 GAAA-TGATAGGTCGCATGTGTAGTACTATGTGCAGGCTACTATGCGTACC
1 GAAAGT-ATTGGTCACATGTGTAGTACTATGTGCAGGCTACTATGTGTACC
* * * *
61407737 GAATAGTTTTGATCACATGTGTAGTACTACGTGCAGGCTACTATGTGTATCA
1 GAA-AGTATTGGTCACATGTGTAGTACTATGTGCAGGCTACTATGTGTA-CC
** * * *
61407789 GACGGTAATGGTAACATGTGTAGTACTATGTGCAGGCTACTATGTGAACC
1 GAAAGTATTGGTCACATGTGTAGTACTATGTGCAGGCTACTATGTGTACC
61407839 GAA
1 GAA
61407842 CATCATTGAT
Statistics
Matches: 129, Mismatches: 22, Indels: 8
0.81 0.14 0.05
Matches are distributed among these distances:
49 3 0.02
50 47 0.36
51 75 0.58
52 4 0.03
ACGTcount: A:0.27, C:0.17, G:0.27, T:0.29
Consensus pattern (50 bp):
GAAAGTATTGGTCACATGTGTAGTACTATGTGCAGGCTACTATGTGTACC
Found at i:61407782 original size:26 final size:26
Alignment explanation
Indices: 61407753--61407834 Score: 66
Period size: 26 Copynumber: 3.2 Consensus size: 26
61407743 TTTTGATCAC
61407753 ATGTGTAGTACTACGTGCAGGCTACT
1 ATGTGTAGTACTACGTGCAGGCTACT
* *
61407779 ATGTGTA-T-CAGACG-GTAATGG-TAAC-
1 ATGTGTAGTAC-TACGTG-CA-GGCT-ACT
*
61407804 ATGTGTAGTACTATGTGCAGGCTACT
1 ATGTGTAGTACTACGTGCAGGCTACT
61407830 ATGTG
1 ATGTG
61407835 AACCGAACAT
Statistics
Matches: 42, Mismatches: 5, Indels: 18
0.65 0.08 0.28
Matches are distributed among these distances:
24 2 0.05
25 17 0.40
26 21 0.50
27 2 0.05
ACGTcount: A:0.26, C:0.15, G:0.28, T:0.32
Consensus pattern (26 bp):
ATGTGTAGTACTACGTGCAGGCTACT
Found at i:61407832 original size:102 final size:101
Alignment explanation
Indices: 61407648--61407841 Score: 264
Period size: 102 Copynumber: 1.9 Consensus size: 101
61407638 AAAGTGATGG
* * * * **
61407648 TCACGTGTGTAGTACTATGTGCAGGCTACTACGTGTACCGAAATGATAGGTCGCATGTGTAGTAC
1 TCACATGTGTAGTACTACGTGCAGGCTACTACGTGTACAGAAATAATAGGTAACATGTGTAGTAC
*
61407713 TATGTGCAGGCTACTATGCGTACCGAATAGTTTTGA
66 TATGTGCAGGCTACTATGCGAACCGAATAGTTTTGA
* **
61407749 TCACATGTGTAGTACTACGTGCAGGCTACTATGTGTATCAGACGGTAAT-GGTAACATGTGTAGT
1 TCACATGTGTAGTACTACGTGCAGGCTACTACGTGTA-CAGA-AATAATAGGTAACATGTGTAGT
*
61407813 ACTATGTGCAGGCTACTATGTGAACCGAA
64 ACTATGTGCAGGCTACTATGCGAACCGAA
61407842 CATCATTGAT
Statistics
Matches: 80, Mismatches: 11, Indels: 3
0.85 0.12 0.03
Matches are distributed among these distances:
101 34 0.43
102 43 0.54
103 3 0.04
ACGTcount: A:0.26, C:0.18, G:0.26, T:0.30
Consensus pattern (101 bp):
TCACATGTGTAGTACTACGTGCAGGCTACTACGTGTACAGAAATAATAGGTAACATGTGTAGTAC
TATGTGCAGGCTACTATGCGAACCGAATAGTTTTGA
Found at i:61407897 original size:45 final size:45
Alignment explanation
Indices: 61407841--61407928 Score: 142
Period size: 45 Copynumber: 2.0 Consensus size: 45
61407831 TGTGAACCGA
*
61407841 ACATCATTGATTAGTAAGGTGGTTGCTATGTGCT-AATTCCACCAG
1 ACATCATTGATTAATAAGGTGGTTGCTATGTGCTGAA-TCCACCAG
*
61407886 ACATTATTGATTAATAAGGTGGTTGCTATGTGCTGAATCCACC
1 ACATCATTGATTAATAAGGTGGTTGCTATGTGCTGAATCCACC
61407929 GAGTATCTGT
Statistics
Matches: 40, Mismatches: 2, Indels: 2
0.91 0.05 0.05
Matches are distributed among these distances:
45 38 0.95
46 2 0.05
ACGTcount: A:0.27, C:0.17, G:0.22, T:0.34
Consensus pattern (45 bp):
ACATCATTGATTAATAAGGTGGTTGCTATGTGCTGAATCCACCAG
Found at i:61412438 original size:22 final size:22
Alignment explanation
Indices: 61412410--61412454 Score: 90
Period size: 22 Copynumber: 2.0 Consensus size: 22
61412400 TGTATGTGGA
61412410 TGACATTATTATTACCGACAAT
1 TGACATTATTATTACCGACAAT
61412432 TGACATTATTATTACCGACAAT
1 TGACATTATTATTACCGACAAT
61412454 T
1 T
61412455 TATCTTCCTA
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
22 23 1.00
ACGTcount: A:0.36, C:0.18, G:0.09, T:0.38
Consensus pattern (22 bp):
TGACATTATTATTACCGACAAT
Found at i:61415400 original size:51 final size:51
Alignment explanation
Indices: 61415275--61415563 Score: 320
Period size: 51 Copynumber: 5.7 Consensus size: 51
61415265 TATCATTCGA
* * *
61415275 TACACGTAGTAGCCTTCATATAGTACTACACACGTGATCAAGTTTTA-CGG
1 TACACGTAGTAGCCTTCACATAGTACTACACACGTGACCAAGCTTTATCGG
*
61415325 TTCACGTAGTAGCCTTCACATAGTACTACACACGTGACCAAAGCTTT-TCGG
1 TACACGTAGTAGCCTTCACATAGTACTACACACGTGACC-AAGCTTTATCGG
* * * * * *
61415376 CACACATAGTAGCCTTCACTTAGTACTACACATGTGACC-ATCATTTATCGA
1 TACACGTAGTAGCCTTCACATAGTACTACACACGTGACCAAGC-TTTATCGG
* * *
61415427 TTCACGTAGTAGCCTTCACACAGTACTACACACGTGACCAAAG-TTTCTCGG
1 TACACGTAGTAGCCTTCACATAGTACTACACACGTGACC-AAGCTTTATCGG
* * * * * *
61415478 TACACATTGTAGCC-TCACTTAGTACTACACATGTGACC-ATCATTTATCGA
1 TACACGTAGTAGCCTTCACATAGTACTACACACGTGACCAAGC-TTTATCGG
*
61415528 TACACGTAGTAGCCTTCACACAGTACTACACACGTG
1 TACACGTAGTAGCCTTCACATAGTACTACACACGTG
61415564 TTCATCAATA
Statistics
Matches: 196, Mismatches: 34, Indels: 17
0.79 0.14 0.07
Matches are distributed among these distances:
48 1 0.01
49 2 0.01
50 78 0.40
51 114 0.58
53 1 0.01
ACGTcount: A:0.29, C:0.27, G:0.16, T:0.28
Consensus pattern (51 bp):
TACACGTAGTAGCCTTCACATAGTACTACACACGTGACCAAGCTTTATCGG
Found at i:61415514 original size:152 final size:152
Alignment explanation
Indices: 61415271--61415559 Score: 379
Period size: 152 Copynumber: 1.9 Consensus size: 152
61415261 CTTTTATCAT
* * * * *
61415271 TCGATACACGTAGTAGCCTTCATATAGTACTACACACGTGATCAAGTTTTACGGTTCACGTAGTA
1 TCGATACACGTAGTAGCCTTCACACAGTACTACACACGTGACCAAGTTTTACGGTACACATAGTA
* **
61415336 GCCTTCACATAGTACTACACACGTGACCAAAGC-TTT-TCGGCACACATAGTAGCCTTCACTTAG
66 GCCTTCACATAGTACTACACACGTGACC--AGCATTTATCGACACACATAGTAGCCTTCACACAG
61415399 TACTACACATGTGACCATCATTTA
129 TACTACACATGTGACCATCATTTA
* *
61415423 TCGATTCACGTAGTAGCCTTCACACAGTACTACACACGTGACCAAAGTTTCT-CGGTACACATTG
1 TCGATACACGTAGTAGCCTTCACACAGTACTACACACGTGACC-AAGTTT-TACGGTACACATAG
* * * * *
61415487 TAGCC-TCACTTAGTACTACACATGTGACCATCATTTATCGATACACGTAGTAGCCTTCACACAG
64 TAGCCTTCACATAGTACTACACACGTGACCAGCATTTATCGACACACATAGTAGCCTTCACACAG
61415551 TACTACACA
129 TACTACACA
61415560 CGTGTTCATC
Statistics
Matches: 118, Mismatches: 15, Indels: 8
0.84 0.11 0.06
Matches are distributed among these distances:
150 2 0.02
151 3 0.03
152 92 0.78
153 20 0.17
154 1 0.01
ACGTcount: A:0.30, C:0.27, G:0.15, T:0.28
Consensus pattern (152 bp):
TCGATACACGTAGTAGCCTTCACACAGTACTACACACGTGACCAAGTTTTACGGTACACATAGTA
GCCTTCACATAGTACTACACACGTGACCAGCATTTATCGACACACATAGTAGCCTTCACACAGTA
CTACACATGTGACCATCATTTA
Found at i:61415547 original size:101 final size:102
Alignment explanation
Indices: 61415276--61415563 Score: 422
Period size: 101 Copynumber: 2.8 Consensus size: 102
61415266 ATCATTCGAT
* * * *** * *
61415276 ACACGTAGTAGCCTTCA-TATAGTACTACACACGTGATCAAGTTTTA-CGGTTCACGTAGTAGCC
1 ACACATAGTAGCCTTCACT-TAGTACTACACATGTGACCATCATTTATCGATACACGTAGTAGCC
*
61415339 TTCACATAGTACTACACACGTGACCAAAGCTTTTCGGC
65 TTCACACAGTACTACACACGTGACCAAAGCTTTTCGGC
*
61415377 ACACATAGTAGCCTTCACTTAGTACTACACATGTGACCATCATTTATCGATTCACGTAGTAGCCT
1 ACACATAGTAGCCTTCACTTAGTACTACACATGTGACCATCATTTATCGATACACGTAGTAGCCT
*
61415442 TCACACAGTACTACACACGTGACCAAAG-TTTCTCGGT
66 TCACACAGTACTACACACGTGACCAAAGCTTT-TCGGC
*
61415479 ACACATTGTAGCC-TCACTTAGTACTACACATGTGACCATCATTTATCGATACACGTAGTAGCCT
1 ACACATAGTAGCCTTCACTTAGTACTACACATGTGACCATCATTTATCGATACACGTAGTAGCCT
61415543 TCACACAGTACTACACACGTG
66 TCACACAGTACTACACACGTG
61415564 TTCATCAATA
Statistics
Matches: 173, Mismatches: 11, Indels: 6
0.91 0.06 0.03
Matches are distributed among these distances:
101 112 0.65
102 61 0.35
ACGTcount: A:0.30, C:0.27, G:0.16, T:0.28
Consensus pattern (102 bp):
ACACATAGTAGCCTTCACTTAGTACTACACATGTGACCATCATTTATCGATACACGTAGTAGCCT
TCACACAGTACTACACACGTGACCAAAGCTTTTCGGC
Found at i:61416953 original size:11 final size:11
Alignment explanation
Indices: 61416937--61416967 Score: 53
Period size: 11 Copynumber: 2.8 Consensus size: 11
61416927 TATATATATT
61416937 TAAAAATTATA
1 TAAAAATTATA
*
61416948 TAAAAATAATA
1 TAAAAATTATA
61416959 TAAAAATTA
1 TAAAAATTA
61416968 ATACGGACAG
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
11 18 1.00
ACGTcount: A:0.68, C:0.00, G:0.00, T:0.32
Consensus pattern (11 bp):
TAAAAATTATA
Found at i:61419559 original size:45 final size:45
Alignment explanation
Indices: 61419509--61419621 Score: 181
Period size: 45 Copynumber: 2.5 Consensus size: 45
61419499 AGTAAACAGT
**
61419509 AATCGGTAACGGTAACAGTAACTGTATTCGACACACAAAGTGCCG
1 AATCGGTAACGGTAACAGTAACAATATTCGACACACAAAGTGCCG
*
61419554 AATCGGTAACGGTAACAGTAACAATATTCGACACACGAAGTGCCG
1 AATCGGTAACGGTAACAGTAACAATATTCGACACACAAAGTGCCG
* *
61419599 AACCGGTAACAGTAACAGTAACA
1 AATCGGTAACGGTAACAGTAACA
61419622 GTAACAGTAA
Statistics
Matches: 63, Mismatches: 5, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
45 63 1.00
ACGTcount: A:0.39, C:0.22, G:0.21, T:0.18
Consensus pattern (45 bp):
AATCGGTAACGGTAACAGTAACAATATTCGACACACAAAGTGCCG
Found at i:61419568 original size:51 final size:50
Alignment explanation
Indices: 61419507--61419657 Score: 152
Period size: 45 Copynumber: 3.1 Consensus size: 50
61419497 CCAGTAAACA
*
61419507 GTAATCGGTAACGGTAACAGTAACTGTATTCGACACACAAAGTGCCGAATCG
1 GTAA-CGGTAACAGTAACAGTAAC-GTATTCGACACACAAAGTGCCGAATCG
* *
61419559 GTAACGGTAACAGTAAC---AA--TATTCGACACACGAAGTGCCGAACCG
1 GTAACGGTAACAGTAACAGTAACGTATTCGACACACAAAGTGCCGAATCG
* * * * * *
61419604 GTAACAGTAACAGTAACAGTAACAGTAATCGGCACA-TAAGTGCCTAATCA
1 GTAACGGTAACAGTAACAGTAAC-GTATTCGACACACAAAGTGCCGAATCG
61419654 GTAA
1 GTAA
61419658 GCTGGCAAAT
Statistics
Matches: 83, Mismatches: 10, Indels: 14
0.78 0.09 0.13
Matches are distributed among these distances:
45 40 0.48
48 4 0.05
50 14 0.17
51 21 0.25
52 4 0.05
ACGTcount: A:0.38, C:0.21, G:0.21, T:0.19
Consensus pattern (50 bp):
GTAACGGTAACAGTAACAGTAACGTATTCGACACACAAAGTGCCGAATCG
Found at i:61419615 original size:6 final size:6
Alignment explanation
Indices: 61419604--61419631 Score: 56
Period size: 6 Copynumber: 4.7 Consensus size: 6
61419594 TGCCGAACCG
61419604 GTAACA GTAACA GTAACA GTAACA GTAA
1 GTAACA GTAACA GTAACA GTAACA GTAA
61419632 TCGGCACATA
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 22 1.00
ACGTcount: A:0.50, C:0.14, G:0.18, T:0.18
Consensus pattern (6 bp):
GTAACA
Found at i:61419918 original size:39 final size:40
Alignment explanation
Indices: 61419834--61419918 Score: 102
Period size: 40 Copynumber: 2.1 Consensus size: 40
61419824 TTCTTTACTT
* * * *
61419834 CAGTAATTTCACAATTCAATGCATTATACATAACAATATT
1 CAGTATTTTCACAATTCAATGCATAATACAAAACAATATC
*
61419874 CAGTATTTTCACAATTCACT-CAGTAAT-CAAAACAATATC
1 CAGTATTTTCACAATTCAATGCA-TAATACAAAACAATATC
61419913 CAGTAT
1 CAGTAT
61419919 CCCATAATTC
Statistics
Matches: 39, Mismatches: 5, Indels: 3
0.83 0.11 0.06
Matches are distributed among these distances:
39 18 0.46
40 21 0.54
ACGTcount: A:0.41, C:0.20, G:0.06, T:0.33
Consensus pattern (40 bp):
CAGTATTTTCACAATTCAATGCATAATACAAAACAATATC
Found at i:61422084 original size:50 final size:50
Alignment explanation
Indices: 61421969--61422217 Score: 291
Period size: 50 Copynumber: 4.8 Consensus size: 50
61421959 GATAATAACA
* * ** * *
61421969 TGCCAAAGCCATGTCCCAGACATGGTCTTACATGGGATGTTCTCATGTTGG
1 TGCCAATGCCATGTCCCAGACATGGTCTTACAGGGGA-CCTCTCATCTCGG
* * *
61422020 TGCCCATGCCATGTCCCAGACATGGTCTTATAGGGGACATCTCATCTCGG
1 TGCCAATGCCATGTCCCAGACATGGTCTTACAGGGGACCTCTCATCTCGG
* * *
61422070 TGCCAACGCCATGTCCCAGACATGGTCTTACATGGGACCTCTCGTCTCGG
1 TGCCAATGCCATGTCCCAGACATGGTCTTACAGGGGACCTCTCATCTCGG
* *
61422120 TGCCCATGCCATGTCCCAGACATGGTCTTACAGGGGACCTCTCATGATCTTAAGG
1 TGCCAATGCCATGTCCCAGACATGGTCTTACAGGGGACCTCTC---ATC-T-CGG
* *
61422175 ATGCCAATGCCATGTCCCAGACATGGTCTTACATGGGATCTCT
1 -TGCCAATGCCATGTCCCAGACATGGTCTTACAGGGGACCTCT
61422218 TTACCAAATG
Statistics
Matches: 170, Mismatches: 22, Indels: 7
0.85 0.11 0.04
Matches are distributed among these distances:
50 93 0.55
51 33 0.19
53 2 0.01
54 1 0.01
55 2 0.01
56 39 0.23
ACGTcount: A:0.21, C:0.29, G:0.24, T:0.27
Consensus pattern (50 bp):
TGCCAATGCCATGTCCCAGACATGGTCTTACAGGGGACCTCTCATCTCGG
Found at i:61422155 original size:100 final size:104
Alignment explanation
Indices: 61421968--61422217 Score: 346
Period size: 100 Copynumber: 2.4 Consensus size: 104
61421958 TGATAATAAC
** * *
61421968 ATGCCAAAGCCATGTCCCAGACATGGTCTTACATGGGATGTTCTCATGTTGGTGCCCATGCCATG
1 ATGCCAAAGCCATGTCCCAGACATGGTCTTACATGGGA-CCTCTCATCTCGGTGCCCATGCCATG
* *
61422033 TCCCAGACATGGTCTTATAGGGGACATCTC-ATC-T-CGG
65 TCCCAGACATGGTCTTACAGGGGACATCTCAATCTTAAGG
* *
61422070 -TGCCAACGCCATGTCCCAGACATGGTCTTACATGGGACCTCTCGTCTCGGTGCCCATGCCATGT
1 ATGCCAAAGCCATGTCCCAGACATGGTCTTACATGGGACCTCTCATCTCGGTGCCCATGCCATGT
*
61422134 CCCAGACATGGTCTTACAGGGGACCTCTCATGATCTTAAGG
66 CCCAGACATGGTCTTACAGGGGACATCTCA--ATCTTAAGG
* *
61422175 ATGCCAATGCCATGTCCCAGACATGGTCTTACATGGGATCTCT
1 ATGCCAAAGCCATGTCCCAGACATGGTCTTACATGGGACCTCT
61422218 TTACCAAATG
Statistics
Matches: 131, Mismatches: 11, Indels: 8
0.87 0.07 0.05
Matches are distributed among these distances:
100 49 0.37
101 36 0.27
103 3 0.02
104 1 0.01
105 2 0.02
106 40 0.31
ACGTcount: A:0.21, C:0.29, G:0.24, T:0.26
Consensus pattern (104 bp):
ATGCCAAAGCCATGTCCCAGACATGGTCTTACATGGGACCTCTCATCTCGGTGCCCATGCCATGT
CCCAGACATGGTCTTACAGGGGACATCTCAATCTTAAGG
Found at i:61422332 original size:13 final size:13
Alignment explanation
Indices: 61422311--61422341 Score: 53
Period size: 13 Copynumber: 2.4 Consensus size: 13
61422301 GCTTAGATCA
*
61422311 TCATCAAATAAAT
1 TCATAAAATAAAT
61422324 TCATAAAATAAAT
1 TCATAAAATAAAT
61422337 TCATA
1 TCATA
61422342 GTTGCTGGAA
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
13 17 1.00
ACGTcount: A:0.55, C:0.13, G:0.00, T:0.32
Consensus pattern (13 bp):
TCATAAAATAAAT
Found at i:61422589 original size:30 final size:30
Alignment explanation
Indices: 61422554--61422611 Score: 89
Period size: 30 Copynumber: 1.9 Consensus size: 30
61422544 CCTCGACTCT
*
61422554 AACTTTTTCAAAATTACAATTTTGCCCCTA
1 AACTTTTACAAAATTACAATTTTGCCCCTA
* *
61422584 AACTTTTACATAATTACATTTTTGCCCC
1 AACTTTTACAAAATTACAATTTTGCCCC
61422612 AAGGCTCGGA
Statistics
Matches: 25, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
30 25 1.00
ACGTcount: A:0.31, C:0.24, G:0.03, T:0.41
Consensus pattern (30 bp):
AACTTTTACAAAATTACAATTTTGCCCCTA
Found at i:61423723 original size:14 final size:14
Alignment explanation
Indices: 61423704--61423735 Score: 64
Period size: 14 Copynumber: 2.3 Consensus size: 14
61423694 TTTGTTTATC
61423704 AATAAAAATCTCAT
1 AATAAAAATCTCAT
61423718 AATAAAAATCTCAT
1 AATAAAAATCTCAT
61423732 AATA
1 AATA
61423736 TAATTAATTA
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:0.59, C:0.12, G:0.00, T:0.28
Consensus pattern (14 bp):
AATAAAAATCTCAT
Found at i:61423919 original size:9 final size:9
Alignment explanation
Indices: 61423902--61423946 Score: 56
Period size: 9 Copynumber: 5.1 Consensus size: 9
61423892 CATTTGAATA
*
61423902 AATAATTAT
1 AATATTTAT
61423911 AATATTTAT
1 AATATTTAT
61423920 AATATTTAT
1 AATATTTAT
**
61423929 -ATACATAT
1 AATATTTAT
61423937 AATATTTAT
1 AATATTTAT
61423946 A
1 A
61423947 TTTAACTTAA
Statistics
Matches: 30, Mismatches: 5, Indels: 2
0.81 0.14 0.05
Matches are distributed among these distances:
8 6 0.20
9 24 0.80
ACGTcount: A:0.49, C:0.02, G:0.00, T:0.49
Consensus pattern (9 bp):
AATATTTAT
Found at i:61425419 original size:12 final size:12
Alignment explanation
Indices: 61425381--61425430 Score: 59
Period size: 12 Copynumber: 4.2 Consensus size: 12
61425371 CTTATAAATT
61425381 TTACATAAAGAA
1 TTACATAAAGAA
* *
61425393 TTA-TTAAA-ATT
1 TTACATAAAGA-A
61425404 TTACATAAAGAA
1 TTACATAAAGAA
61425416 TTACATAAAGAA
1 TTACATAAAGAA
61425428 TTA
1 TTA
61425431 TTAAATATTT
Statistics
Matches: 31, Mismatches: 4, Indels: 6
0.76 0.10 0.15
Matches are distributed among these distances:
10 1 0.03
11 7 0.23
12 22 0.71
13 1 0.03
ACGTcount: A:0.54, C:0.06, G:0.06, T:0.34
Consensus pattern (12 bp):
TTACATAAAGAA
Found at i:61425733 original size:7 final size:7
Alignment explanation
Indices: 61425707--61425749 Score: 50
Period size: 7 Copynumber: 6.1 Consensus size: 7
61425697 AACCCTAAAT
61425707 CCCTAAC
1 CCCTAAC
* * *
61425714 TCTTAAT
1 CCCTAAC
61425721 CCCTAAC
1 CCCTAAC
61425728 CCCTAAC
1 CCCTAAC
*
61425735 TCCTAAC
1 CCCTAAC
61425742 CCCTAAC
1 CCCTAAC
61425749 C
1 C
61425750 TTAAATCCCA
Statistics
Matches: 28, Mismatches: 8, Indels: 0
0.78 0.22 0.00
Matches are distributed among these distances:
7 28 1.00
ACGTcount: A:0.28, C:0.49, G:0.00, T:0.23
Consensus pattern (7 bp):
CCCTAAC
Found at i:61425733 original size:21 final size:21
Alignment explanation
Indices: 61425707--61425749 Score: 68
Period size: 21 Copynumber: 2.0 Consensus size: 21
61425697 AACCCTAAAT
* *
61425707 CCCTAACTCTTAATCCCTAAC
1 CCCTAACTCCTAACCCCTAAC
61425728 CCCTAACTCCTAACCCCTAAC
1 CCCTAACTCCTAACCCCTAAC
61425749 C
1 C
61425750 TTAAATCCCA
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
21 20 1.00
ACGTcount: A:0.28, C:0.49, G:0.00, T:0.23
Consensus pattern (21 bp):
CCCTAACTCCTAACCCCTAAC
Found at i:61425798 original size:15 final size:15
Alignment explanation
Indices: 61425765--61425802 Score: 53
Period size: 14 Copynumber: 2.7 Consensus size: 15
61425755 TCCCAACCCT
61425765 TAAA-CCATAATCCC
1 TAAATCCATAATCCC
*
61425779 T-AATCCATAATTCC
1 TAAATCCATAATCCC
61425793 TAAATCCATA
1 TAAATCCATA
61425803 TATAATTCCC
Statistics
Matches: 21, Mismatches: 1, Indels: 3
0.84 0.04 0.12
Matches are distributed among these distances:
13 2 0.10
14 11 0.52
15 8 0.38
ACGTcount: A:0.42, C:0.29, G:0.00, T:0.29
Consensus pattern (15 bp):
TAAATCCATAATCCC
Found at i:61425985 original size:24 final size:24
Alignment explanation
Indices: 61425958--61426013 Score: 85
Period size: 24 Copynumber: 2.3 Consensus size: 24
61425948 TATATGAAAT
61425958 TATTTAATATATAAATTAAAAAAA
1 TATTTAATATATAAATTAAAAAAA
* *
61425982 TATTTAAAATGTAAATTAAAAAAA
1 TATTTAATATATAAATTAAAAAAA
*
61426006 TAATTAAT
1 TATTTAAT
61426014 CTAAACCCAA
Statistics
Matches: 28, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
24 28 1.00
ACGTcount: A:0.61, C:0.00, G:0.02, T:0.38
Consensus pattern (24 bp):
TATTTAATATATAAATTAAAAAAA
Found at i:61426092 original size:7 final size:7
Alignment explanation
Indices: 61426075--61426105 Score: 53
Period size: 7 Copynumber: 4.3 Consensus size: 7
61426065 AACTCTTAAT
61426075 CCCTAAAC
1 CCCT-AAC
61426083 CCCTAAC
1 CCCTAAC
61426090 CCCTAAC
1 CCCTAAC
61426097 CCCTAAC
1 CCCTAAC
61426104 CC
1 CC
61426106 TTAAACCTTA
Statistics
Matches: 23, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
7 19 0.83
8 4 0.17
ACGTcount: A:0.29, C:0.58, G:0.00, T:0.13
Consensus pattern (7 bp):
CCCTAAC
Found at i:61426097 original size:14 final size:15
Alignment explanation
Indices: 61426075--61426112 Score: 60
Period size: 14 Copynumber: 2.6 Consensus size: 15
61426065 AACTCTTAAT
61426075 CCCTAAACCCCTAAC
1 CCCTAAACCCCTAAC
61426090 CCCT-AACCCCTAAC
1 CCCTAAACCCCTAAC
*
61426104 CCTTAAACC
1 CCCTAAACC
61426113 TTAAATCCCA
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
14 13 0.62
15 8 0.38
ACGTcount: A:0.32, C:0.53, G:0.00, T:0.16
Consensus pattern (15 bp):
CCCTAAACCCCTAAC
Found at i:61426125 original size:21 final size:20
Alignment explanation
Indices: 61426101--61426141 Score: 64
Period size: 21 Copynumber: 2.0 Consensus size: 20
61426091 CCTAACCCCT
*
61426101 AACCCTTAAACCTTAAATCCC
1 AACCCTTAAACCAT-AATCCC
61426122 AACCCTTAAACCATAATCCC
1 AACCCTTAAACCATAATCCC
61426142 TAATCCATAA
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
20 6 0.32
21 13 0.68
ACGTcount: A:0.39, C:0.39, G:0.00, T:0.22
Consensus pattern (20 bp):
AACCCTTAAACCATAATCCC
Done.