Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: At_chr2
Parameters: 2 7 7 80 10 50 1000
Pmatch=0.80,Pindel=0.10
tuple sizes 0,4,5,7
tuple distances 0, 29, 159, 1000
Length: 61750188
ACGTcount: A:0.32, C:0.17, G:0.17, T:0.32
Warning! 1877335 characters in sequence are not A, C, G, or T
File 38 of 186
Found at i:11314277 original size:88 final size:89
Alignment explanation
Indices: 11314111--11314306 Score: 252
Period size: 88 Copynumber: 2.2 Consensus size: 89
11314101 ATTCCGCCGA
* * ** * *
11314111 AACTTCATGAAGATAAGAACCACTGTCTTCAGTCTACTTCAATGTAACTTTAGGGAAATAGGGCT
1 AACTTCAAGAAGATAAGATCCACCATCTTCAGTCTACTCCAATGTAACTTTAGGGAAATAAGGCT
* * *
11314176 GGTGGCTTTAATCTGCTCCACTGC
66 AGTGGCTTCAATCTGATCCACTGC
* * *
11314200 AACTTCAAGAAGATAAGATCCACCATCTT-TGATCTACTCCACTG-AACTTTAGGGAGATAAGGC
1 AACTTCAAGAAGATAAGATCCACCATCTTCAG-TCTACTCCAATGTAACTTTAGGGAAATAAGGC
11314263 TAGTGGCTTCAATCTGATCCACTGC
65 TAGTGGCTTCAATCTGATCCACTGC
*
11314288 AACTTCAAGGAGATAAGAT
1 AACTTCAAGAAGATAAGAT
11314307 TCGCCATAAT
Statistics
Matches: 93, Mismatches: 13, Indels: 3
0.85 0.12 0.03
Matches are distributed among these distances:
88 58 0.62
89 35 0.38
ACGTcount: A:0.31, C:0.21, G:0.19, T:0.28
Consensus pattern (89 bp):
AACTTCAAGAAGATAAGATCCACCATCTTCAGTCTACTCCAATGTAACTTTAGGGAAATAAGGCT
AGTGGCTTCAATCTGATCCACTGC
Found at i:11314438 original size:44 final size:44
Alignment explanation
Indices: 11314374--11314646 Score: 181
Period size: 44 Copynumber: 5.7 Consensus size: 44
11314364 CTATTTTTAG
** *
11314374 TCTGCTCCGGTGCAATTTCAGGGAGATAAGACTTGTGGCTTCAA
1 TCTGCTCCACTGCAACTTCAGGGAGATAAGACTTGTGGCTTCAA
* *
11314418 TCTGCTCCACTGCAACTTCAGGGAGATAAGATTCACCATAATTTGTAGCTTTAA
1 TCTGCTCCACTGCAACTTCAGGGAGATAAG----A-C-----TTGTGGCTTCAA
* *
11314472 TCTGTTCCACTGCAACTTCAGGGATATAAGACTTGTGGCTTCAA
1 TCTGCTCCACTGCAACTTCAGGGAGATAAGACTTGTGGCTTCAA
* * *
11314516 TCT--ACCACTGCAACTTCAGGGAGATAAGATTCGTCATAATTTGTAGCTTTAA
1 TCTGCTCCACTGCAACTTCAGGGAGATAAGA-----C-----TTGTGGCTTCAA
* * * *
11314568 TTTGTTCCACTCCGCTGCAACTTTAGGGAGATAAGACTTATGGCTTCAA
1 TCTGCTCCA-----CTGCAACTTCAGGGAGATAAGACTTGTGGCTTCAA
11314617 TCTGCTCCACTGCAACTTCAGGGAGATAAG
1 TCTGCTCCACTGCAACTTCAGGGAGATAAG
11314647 TTTCGCCATG
Statistics
Matches: 180, Mismatches: 22, Indels: 54
0.70 0.09 0.21
Matches are distributed among these distances:
42 24 0.13
44 60 0.33
47 1 0.01
48 1 0.01
49 18 0.10
50 1 0.01
52 12 0.07
54 42 0.23
59 21 0.12
ACGTcount: A:0.27, C:0.22, G:0.21, T:0.31
Consensus pattern (44 bp):
TCTGCTCCACTGCAACTTCAGGGAGATAAGACTTGTGGCTTCAA
Found at i:11314501 original size:54 final size:53
Alignment explanation
Indices: 11314406--11314646 Score: 171
Period size: 54 Copynumber: 4.8 Consensus size: 53
11314396 GAGATAAGAC
* *
11314406 TTGTGGCTTCAATCTGCTCCACTGCAACTTCAGGGAGATAAGATTCACCATAAT
1 TTGTAGCTTCAATCTGTTCCACTGCAACTTCAGGGAGATAAGATTCA-CATAAT
* *
11314460 TTGTAGCTTTAATCTGTTCCACTGCAACTTCAGGGATATAAG----AC-----
1 TTGTAGCTTCAATCTGTTCCACTGCAACTTCAGGGAGATAAGATTCACATAAT
* * *
11314504 TTGTGGCTTCAATC--TACCACTGCAACTTCAGGGAGATAAGATTCGTCATAAT
1 TTGTAGCTTCAATCTGTTCCACTGCAACTTCAGGGAGATAAGATTC-ACATAAT
* * *
11314556 TTGTAGCTTTAATTTGTTCCACTCCGCTGCAACTTTAGGGAGATAAG----AC-T--T
1 TTGTAGCTTCAATCTGTTCCA-----CTGCAACTTCAGGGAGATAAGATTCACATAAT
* *
11314607 ATG--GCTTCAATCTGCTCCACTGCAACTTCAGGGAGATAAG
1 TTGTAGCTTCAATCTGTTCCACTGCAACTTCAGGGAGATAAG
11314647 TTTCGCCATG
Statistics
Matches: 150, Mismatches: 20, Indels: 44
0.70 0.09 0.21
Matches are distributed among these distances:
42 24 0.16
44 32 0.21
47 1 0.01
49 14 0.09
50 1 0.01
51 3 0.02
52 11 0.07
53 1 0.01
54 43 0.29
59 20 0.13
ACGTcount: A:0.27, C:0.22, G:0.20, T:0.32
Consensus pattern (53 bp):
TTGTAGCTTCAATCTGTTCCACTGCAACTTCAGGGAGATAAGATTCACATAAT
Found at i:11314556 original size:96 final size:98
Alignment explanation
Indices: 11314384--11314655 Score: 395
Period size: 96 Copynumber: 2.7 Consensus size: 98
11314374 TCTGCTCCGG
*
11314384 TGCAATTTCAGGGAGATAAGACTTGTGGCTTCAATCTGCTCCACTGCAACTTCAGGGAGATAAGA
1 TGCAACTTCAGGGAGATAAGACTTGTGGCTTCAATCT-CTCCACTGCAACTTCAGGGAGATAAGA
*
11314449 TTCACCATAATTTGTAGCTTTAATCTGTTCCA-C
65 TTCGCCATAATTTGTAGCTTTAATCTGTTCCACC
* *
11314482 TGCAACTTCAGGGATATAAGACTTGTGGCTTCAATCT-ACCACTGCAACTTCAGGGAGATAAGAT
1 TGCAACTTCAGGGAGATAAGACTTGTGGCTTCAATCTCTCCACTGCAACTTCAGGGAGATAAGAT
* *
11314546 TCGTCATAATTTGTAGCTTTAATTTGTTCCACTCCGC
66 TCGCCATAATTTGTAGCTTTAATCTGTTCCA---C-C
* * *
11314583 TGCAACTTTAGGGAGATAAGACTTATGGCTTCAATCTGCTCCACTGCAACTTCAGGGAGATAAGT
1 TGCAACTTCAGGGAGATAAGACTTGTGGCTTCAATCT-CTCCACTGCAACTTCAGGGAGATAAGA
11314648 TTCGCCAT
65 TTCGCCAT
11314656 GATGACTTAA
Statistics
Matches: 155, Mismatches: 12, Indels: 9
0.88 0.07 0.05
Matches are distributed among these distances:
96 54 0.35
98 35 0.23
101 35 0.23
103 31 0.20
ACGTcount: A:0.27, C:0.22, G:0.20, T:0.31
Consensus pattern (98 bp):
TGCAACTTCAGGGAGATAAGACTTGTGGCTTCAATCTCTCCACTGCAACTTCAGGGAGATAAGAT
TCGCCATAATTTGTAGCTTTAATCTGTTCCACC
Found at i:11315110 original size:46 final size:46
Alignment explanation
Indices: 11315047--11315188 Score: 167
Period size: 46 Copynumber: 3.1 Consensus size: 46
11315037 ATTTGTGGTT
* *
11315047 TCTTCCATCCATTCCACTGCAACTCAAGGGTATAAGATTTGTATCA
1 TCTTCAATCCATCCCACTGCAACTCAAGGGTATAAGATTTGTATCA
* * * * *
11315093 TCTTCAATCTATCCCACTGCAACTCAGGGGTATGAGATTTCTATCG
1 TCTTCAATCCATCCCACTGCAACTCAAGGGTATAAGATTTGTATCA
* ** * * *
11315139 TCTTCAATCCATCCCATTTTAACTCAAGGGTACAGGATTTGTATCT
1 TCTTCAATCCATCCCACTGCAACTCAAGGGTATAAGATTTGTATCA
11315185 TCTT
1 TCTT
11315189 TAATTCACTG
Statistics
Matches: 79, Mismatches: 17, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
46 79 1.00
ACGTcount: A:0.25, C:0.25, G:0.14, T:0.35
Consensus pattern (46 bp):
TCTTCAATCCATCCCACTGCAACTCAAGGGTATAAGATTTGTATCA
Found at i:11315676 original size:53 final size:53
Alignment explanation
Indices: 11315592--11315695 Score: 165
Period size: 53 Copynumber: 2.0 Consensus size: 53
11315582 GGGAGCATAG
*
11315592 CTCGAAATGAATAAGTTAATCAAAGACAGCAAATGCAATAAGAAGGAAATTAA
1 CTCGAAATGAATAAGTTAATCAAAGACAGCAAATGCAATAAAAAGGAAATTAA
* *
11315645 CTCGAAATGAATAAGTTAATCGAAA-ATAGCAAATGTAATAAAAAGGAAATT
1 CTCGAAATGAATAAGTTAATC-AAAGACAGCAAATGCAATAAAAAGGAAATT
11315696 GATTGAAAGC
Statistics
Matches: 47, Mismatches: 3, Indels: 2
0.90 0.06 0.04
Matches are distributed among these distances:
53 44 0.94
54 3 0.06
ACGTcount: A:0.53, C:0.10, G:0.16, T:0.21
Consensus pattern (53 bp):
CTCGAAATGAATAAGTTAATCAAAGACAGCAAATGCAATAAAAAGGAAATTAA
Found at i:11316078 original size:15 final size:15
Alignment explanation
Indices: 11316058--11316088 Score: 62
Period size: 15 Copynumber: 2.1 Consensus size: 15
11316048 TCTCTTCCTT
11316058 TTTTGTTTTTTTTTG
1 TTTTGTTTTTTTTTG
11316073 TTTTGTTTTTTTTTG
1 TTTTGTTTTTTTTTG
11316088 T
1 T
11316089 AAAACTTTTT
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 16 1.00
ACGTcount: A:0.00, C:0.00, G:0.13, T:0.87
Consensus pattern (15 bp):
TTTTGTTTTTTTTTG
Found at i:11319463 original size:19 final size:20
Alignment explanation
Indices: 11319439--11319483 Score: 67
Period size: 19 Copynumber: 2.4 Consensus size: 20
11319429 TTGTGACATT
*
11319439 CAATGCATATG-ATGAAATG
1 CAATGCAGATGCATGAAATG
11319458 CAATGCAGATGCATGAAATG
1 CAATGCAGATGCATGAAATG
11319478 -AATGCA
1 CAATGCA
11319484 AAAAGAGACG
Statistics
Matches: 24, Mismatches: 1, Indels: 2
0.89 0.04 0.07
Matches are distributed among these distances:
19 16 0.67
20 8 0.33
ACGTcount: A:0.42, C:0.13, G:0.22, T:0.22
Consensus pattern (20 bp):
CAATGCAGATGCATGAAATG
Found at i:11321434 original size:3 final size:3
Alignment explanation
Indices: 11321426--11321700 Score: 183
Period size: 3 Copynumber: 92.7 Consensus size: 3
11321416 ATAAACAAGA
* * * * *
11321426 AAT AAT AAT AGT AA- AAA AAT AGT AAT AAT AAT AAT GAT AAT GAT AAT
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT
* *
11321473 AGT AAT AGA- AAT AAT AAT AAT AAT AGT AAT AAT AAT GAA- AAT AAT
1 AAT AAT A-AT AAT AAT AAT AAT AAT AAT AAT AAT AAT -AAT AAT AAT
* * * *
11321518 AAT AAT AA- AAT AAGG AAT AAT AAC AAT AAC AAC AAT AAT -AT AAAT
1 AAT AAT AAT AAT AA-T AAT AAT AAT AAT AAT AAT AAT AAT AAT -AAT
* * * *
11321563 AAT AA- AA- AAC AAT AAT AGT AAT AAT AAT AAT GAT AGT AAT AAT AAT
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT
* * * ** *
11321609 AGT AAT AAT AGAA AAT AAT AGT AAT TGT AAT AAT AAT AAT AAT AGT
1 AAT AAT AAT A-AT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT
* * * **
11321655 TAT AAT AA- ATT AATT AACT AGT TTT AAT AAT AA- AAT AAT AA- AAT
1 AAT AAT AAT AAT AA-T AA-T AAT AAT AAT AAT AAT AAT AAT AAT AAT
11321699 AA
1 AA
11321701 CTAAAAAAAG
Statistics
Matches: 209, Mismatches: 48, Indels: 30
0.73 0.17 0.10
Matches are distributed among these distances:
2 18 0.09
3 177 0.85
4 14 0.07
ACGTcount: A:0.61, C:0.02, G:0.07, T:0.30
Consensus pattern (3 bp):
AAT
Found at i:11321576 original size:22 final size:22
Alignment explanation
Indices: 11321468--11321589 Score: 71
Period size: 22 Copynumber: 5.7 Consensus size: 22
11321458 AATGATAATG
*
11321468 ATAATAGTAATAGA-AATAATAATA
1 ATAATAGTAATA-ATAA-AA-AACA
**
11321492 ATAATAGTAATAATAATGAA-A
1 ATAATAGTAATAATAAAAAACA
*
11321513 AT-A-A-TAATAATAAAATA-A
1 ATAATAGTAATAATAAAAAACA
** * * *
11321531 GGAATAATAACAAT-AACAACA
1 ATAATAGTAATAATAAAAAACA
11321552 ATAATA-TAAATAATAAAAAACA
1 ATAATAGT-AATAATAAAAAACA
11321574 ATAATAGTAATAATAA
1 ATAATAGTAATAATAA
11321590 TAATGATAGT
Statistics
Matches: 76, Mismatches: 14, Indels: 18
0.70 0.13 0.17
Matches are distributed among these distances:
18 11 0.14
19 2 0.03
20 6 0.08
21 19 0.25
22 22 0.29
23 2 0.03
24 14 0.18
ACGTcount: A:0.66, C:0.03, G:0.06, T:0.25
Consensus pattern (22 bp):
ATAATAGTAATAATAAAAAACA
Found at i:11321683 original size:43 final size:42
Alignment explanation
Indices: 11321599--11321694 Score: 110
Period size: 43 Copynumber: 2.3 Consensus size: 42
11321589 ATAATGATAG
11321599 TAATAATAATAGTAATAATAGAAAATAATAGTAATTGTAATAA
1 TAATAATAATAGTAATAATAGAAAATAATAGT-ATTGTAATAA
*
11321642 TAATAATAATAGTTATAATA-AATTAATTAACTAGT-TT-TAATAA
1 TAATAATAATAGTAATAATAGAA--AA-TAA-TAGTATTGTAATAA
11321685 TAA-AATAATA
1 TAATAATAATA
11321695 AAATAACTAA
Statistics
Matches: 48, Mismatches: 1, Indels: 9
0.83 0.02 0.16
Matches are distributed among these distances:
42 9 0.19
43 28 0.58
44 4 0.08
45 3 0.06
46 4 0.08
ACGTcount: A:0.56, C:0.01, G:0.06, T:0.36
Consensus pattern (42 bp):
TAATAATAATAGTAATAATAGAAAATAATAGTATTGTAATAA
Found at i:11324589 original size:18 final size:19
Alignment explanation
Indices: 11324542--11324592 Score: 59
Period size: 18 Copynumber: 2.7 Consensus size: 19
11324532 TAAGCTCAAT
*
11324542 AAAAGTTGCGAGCTCGATA
1 AAAAGATGCGAGCTCGATA
* *
11324561 AAAAAATGCGAGCTC-ATT
1 AAAAGATGCGAGCTCGATA
*
11324579 CAAAGATGCGAGCT
1 AAAAGATGCGAGCT
11324593 TAATCCAATA
Statistics
Matches: 27, Mismatches: 5, Indels: 1
0.82 0.15 0.03
Matches are distributed among these distances:
18 14 0.52
19 13 0.48
ACGTcount: A:0.39, C:0.18, G:0.24, T:0.20
Consensus pattern (19 bp):
AAAAGATGCGAGCTCGATA
Found at i:11327985 original size:76 final size:76
Alignment explanation
Indices: 11327845--11327998 Score: 256
Period size: 76 Copynumber: 2.0 Consensus size: 76
11327835 TTTAAGGTTT
**
11327845 TACCATTCATGAATGTGTATGTGTTTTGATGTTTGATGGAAGAAATGTATCTTTGTTGATAAATA
1 TACCATTCATGAATGTGTATGTGTTTTGATGTTTGATGGAAGAAATCAATCTTTGTTGATAAATA
11327910 AACAAGTTTTG
66 AACAAGTTTTG
*
11327921 TACCATTGATGAATGTGTATGTGTTTTGATGTTTGATGGAAGAAAATCAATCTTTGTTGA-AAAT
1 TACCATTCATGAATGTGTATGTGTTTTGATGTTTGATGGAAG-AAATCAATCTTTGTTGATAAAT
*
11327985 AAATAAGTTTTG
65 AAACAAGTTTTG
11327997 TA
1 TA
11327999 AAGTGATTTT
Statistics
Matches: 73, Mismatches: 4, Indels: 2
0.92 0.05 0.03
Matches are distributed among these distances:
76 58 0.79
77 15 0.21
ACGTcount: A:0.32, C:0.06, G:0.21, T:0.42
Consensus pattern (76 bp):
TACCATTCATGAATGTGTATGTGTTTTGATGTTTGATGGAAGAAATCAATCTTTGTTGATAAATA
AACAAGTTTTG
Found at i:11329866 original size:12 final size:12
Alignment explanation
Indices: 11329849--11329879 Score: 53
Period size: 12 Copynumber: 2.6 Consensus size: 12
11329839 CTCCAGTTTT
11329849 CACACGGCCTAG
1 CACACGGCCTAG
*
11329861 CACACGGCCTGG
1 CACACGGCCTAG
11329873 CACACGG
1 CACACGG
11329880 ACGTGTGGGC
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
12 18 1.00
ACGTcount: A:0.23, C:0.42, G:0.29, T:0.06
Consensus pattern (12 bp):
CACACGGCCTAG
Found at i:11339758 original size:21 final size:21
Alignment explanation
Indices: 11339734--11339796 Score: 63
Period size: 21 Copynumber: 2.9 Consensus size: 21
11339724 TGCTTAAAAT
11339734 GGCACACGAAGTGCCTGATAC
1 GGCACACGAAGTGCCTGATAC
* *
11339755 GGCACACGAGGTGCCAGAAATAC
1 GGCACACGAAGTGCCTG--ATAC
* **
11339778 GACACATAAAGTGCCTGAT
1 GGCACACGAAGTGCCTGAT
11339797 CAGTAAAGTC
Statistics
Matches: 33, Mismatches: 7, Indels: 4
0.75 0.16 0.09
Matches are distributed among these distances:
21 17 0.52
23 16 0.48
ACGTcount: A:0.33, C:0.25, G:0.27, T:0.14
Consensus pattern (21 bp):
GGCACACGAAGTGCCTGATAC
Found at i:11360278 original size:29 final size:28
Alignment explanation
Indices: 11360230--11360287 Score: 89
Period size: 29 Copynumber: 2.0 Consensus size: 28
11360220 AACTTTGGAG
* *
11360230 TTGGTTGACGTCCAGTTCACAAGAAGGT
1 TTGGTTGACATCCAGTTCACAAAAAGGT
11360258 TTGGTTGACATACCAGTTCACAAAAAGGT
1 TTGGTTGACAT-CCAGTTCACAAAAAGGT
11360287 T
1 T
11360288 ATTGGAGTAA
Statistics
Matches: 27, Mismatches: 2, Indels: 1
0.90 0.07 0.03
Matches are distributed among these distances:
28 10 0.37
29 17 0.63
ACGTcount: A:0.29, C:0.17, G:0.24, T:0.29
Consensus pattern (28 bp):
TTGGTTGACATCCAGTTCACAAAAAGGT
Found at i:11361195 original size:3 final size:3
Alignment explanation
Indices: 11361182--11361227 Score: 57
Period size: 3 Copynumber: 17.0 Consensus size: 3
11361172 TTTAAGTAAA
11361182 TAT TAT T-T TAT TAT T-T TAT TAT TA- TAT TAT TA- TAT TAT TA- TAT
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT
11361225 TAT
1 TAT
11361228 ATCAATTAAA
Statistics
Matches: 38, Mismatches: 0, Indels: 10
0.79 0.00 0.21
Matches are distributed among these distances:
2 10 0.26
3 28 0.74
ACGTcount: A:0.33, C:0.00, G:0.00, T:0.67
Consensus pattern (3 bp):
TAT
Found at i:11361195 original size:8 final size:8
Alignment explanation
Indices: 11361181--11361227 Score: 76
Period size: 8 Copynumber: 5.9 Consensus size: 8
11361171 ATTTAAGTAA
11361181 ATATTATT
1 ATATTATT
*
11361189 TTATTATT
1 ATATTATT
*
11361197 TTATTATT
1 ATATTATT
11361205 ATATTATT
1 ATATTATT
11361213 ATATTATT
1 ATATTATT
11361221 ATATTAT
1 ATATTAT
11361228 ATCAATTAAA
Statistics
Matches: 37, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
8 37 1.00
ACGTcount: A:0.34, C:0.00, G:0.00, T:0.66
Consensus pattern (8 bp):
ATATTATT
Found at i:11361362 original size:5 final size:5
Alignment explanation
Indices: 11361341--11361395 Score: 87
Period size: 5 Copynumber: 11.4 Consensus size: 5
11361331 TACGTAAAAG
*
11361341 ATATT ATGTT ATA-- ATATT ATATT ATATT ATATT ATATT ATATT ATATT
1 ATATT ATATT ATATT ATATT ATATT ATATT ATATT ATATT ATATT ATATT
11361389 ATATT AT
1 ATATT AT
11361396 TATAAACATA
Statistics
Matches: 46, Mismatches: 2, Indels: 4
0.88 0.04 0.08
Matches are distributed among these distances:
3 3 0.07
5 43 0.93
ACGTcount: A:0.40, C:0.00, G:0.02, T:0.58
Consensus pattern (5 bp):
ATATT
Found at i:11365194 original size:31 final size:31
Alignment explanation
Indices: 11365156--11365235 Score: 133
Period size: 31 Copynumber: 2.5 Consensus size: 31
11365146 TTTTTTAGCC
11365156 TTTAGCGGCGCTTCTAAGCGCCCCTAAAACT
1 TTTAGCGGCGCTTCTAAGCGCCCCTAAAACT
*
11365187 TTTAGCGGCTCTTCTAAGCGCCCCTAAAACT
1 TTTAGCGGCGCTTCTAAGCGCCCCTAAAACT
*
11365218 TTTAGCGGTGCTTTCTAA
1 TTTAGCGGCGC-TTCTAA
11365236 AACGCCCAAA
Statistics
Matches: 45, Mismatches: 3, Indels: 1
0.92 0.06 0.02
Matches are distributed among these distances:
31 39 0.87
32 6 0.13
ACGTcount: A:0.21, C:0.29, G:0.19, T:0.31
Consensus pattern (31 bp):
TTTAGCGGCGCTTCTAAGCGCCCCTAAAACT
Found at i:11365408 original size:87 final size:86
Alignment explanation
Indices: 11365304--11365543 Score: 374
Period size: 87 Copynumber: 2.8 Consensus size: 86
11365294 AAAAACGCCA
* *
11365304 CTAAAAGTCAAGGCTTTTAGCGGCGTTTGTGGGAAAAGCGCCGCTAAAAGTCATGGCTTTTAGCG
1 CTAAAAGTCATGGCTTTTAGCGGCGTTTGTGGGAAAAGCGCCGCTAAAAGTCACGGCTTTTAGCG
*
11365369 GCGTTTGTGGTAAAAAGGGCCG
66 GCGTTTGTGG-AAAAAGAGCCG
* * *
11365391 CTAAAGGTCATGGCTTTTAGCGGCGTTTGTGGGAAAAGCACAGCTAAAAGTCACGGCTTTTAGCG
1 CTAAAAGTCATGGCTTTTAGCGGCGTTTGTGGGAAAAGCGCCGCTAAAAGTCACGGCTTTTAGCG
*
11365456 GCGTTTGTGGGAAAAGAGCCG
66 GCGTTTGTGGAAAAAGAGCCG
* * *
11365477 CTAAAAGTCATGGC-TTTAGCGGCATTTTTGGGAAAAGCGCCGCTAAAAGTCACGTCTTTTAGCG
1 CTAAAAGTCATGGCTTTTAGCGGCGTTTGTGGGAAAAGCGCCGCTAAAAGTCACGGCTTTTAGCG
11365541 GCG
66 GCG
11365544 CTTTTTCTAC
Statistics
Matches: 140, Mismatches: 13, Indels: 2
0.90 0.08 0.01
Matches are distributed among these distances:
85 48 0.34
86 22 0.16
87 70 0.50
ACGTcount: A:0.25, C:0.18, G:0.31, T:0.25
Consensus pattern (86 bp):
CTAAAAGTCATGGCTTTTAGCGGCGTTTGTGGGAAAAGCGCCGCTAAAAGTCACGGCTTTTAGCG
GCGTTTGTGGAAAAAGAGCCG
Found at i:11365455 original size:130 final size:128
Alignment explanation
Indices: 11365304--11365543 Score: 381
Period size: 130 Copynumber: 1.9 Consensus size: 128
11365294 AAAAACGCCA
*
11365304 CTAAAAGTCAAGGCTTTTAGCGGCGTTTGTGGGAAAAGCGCCGCTAAAAGTCATGGCTTTTAGCG
1 CTAAAAGTCAAGGCTTTTAGCGGCGTTTGTGGGAAAAGAGCCGCTAAAAGTCATGGC-TTTAGCG
* * * *
11365369 GCGTTTGTGGTAAAAAGGGCCGCTAAAGGTCATGGCTTTTAGCGGCGTTTGTGGGAAAAGCACAG
65 GCATTTGTGG-AAAAAGCGCCGCTAAAAGTCACGGCTTTTAGCGGCGTTTGTGGGAAAAGCACAG
*
11365434 CTAAAAGTCACGGCTTTTAGCGGCGTTTGTGGGAAAAGAGCCGCTAAAAGTCATGGCTTTAGCGG
1 CTAAAAGTCAAGGCTTTTAGCGGCGTTTGTGGGAAAAGAGCCGCTAAAAGTCATGGCTTTAGCGG
* * *
11365499 CATTTTTGGGAAAAGCGCCGCTAAAAGTCACGTCTTTTAGCGGCG
66 CATTTGTGGAAAAAGCGCCGCTAAAAGTCACGGCTTTTAGCGGCG
11365544 CTTTTTCTAC
Statistics
Matches: 101, Mismatches: 9, Indels: 2
0.90 0.08 0.02
Matches are distributed among these distances:
128 31 0.31
129 15 0.15
130 55 0.54
ACGTcount: A:0.25, C:0.18, G:0.31, T:0.25
Consensus pattern (128 bp):
CTAAAAGTCAAGGCTTTTAGCGGCGTTTGTGGGAAAAGAGCCGCTAAAAGTCATGGCTTTAGCGG
CATTTGTGGAAAAAGCGCCGCTAAAAGTCACGGCTTTTAGCGGCGTTTGTGGGAAAAGCACAG
Found at i:11365562 original size:43 final size:43
Alignment explanation
Indices: 11365294--11365543 Score: 358
Period size: 43 Copynumber: 5.8 Consensus size: 43
11365284 ATTTATTGAA
* * *
11365294 AAAAACGCCACTAAAAGTCAAGGCTTTTAGCGGCGTTTGTGGG
1 AAAAGCGCCGCTAAAAGTCATGGCTTTTAGCGGCGTTTGTGGG
*
11365337 AAAAGCGCCGCTAAAAGTCATGGCTTTTAGCGGCGTTTGTGGTA
1 AAAAGCGCCGCTAAAAGTCATGGCTTTTAGCGGCGTTTGTGG-G
* *
11365381 AAAAGGGCCGCTAAAGGTCATGGCTTTTAGCGGCGTTTGTGGG
1 AAAAGCGCCGCTAAAAGTCATGGCTTTTAGCGGCGTTTGTGGG
* * *
11365424 AAAAGCACAGCTAAAAGTCACGGCTTTTAGCGGCGTTTGTGGG
1 AAAAGCGCCGCTAAAAGTCATGGCTTTTAGCGGCGTTTGTGGG
* * *
11365467 AAAAGAGCCGCTAAAAGTCATGGC-TTTAGCGGCATTTTTGGG
1 AAAAGCGCCGCTAAAAGTCATGGCTTTTAGCGGCGTTTGTGGG
* *
11365509 AAAAGCGCCGCTAAAAGTCACGTCTTTTAGCGGCG
1 AAAAGCGCCGCTAAAAGTCATGGCTTTTAGCGGCG
11365544 CTTTTTCTAC
Statistics
Matches: 183, Mismatches: 22, Indels: 4
0.88 0.11 0.02
Matches are distributed among these distances:
42 37 0.20
43 106 0.58
44 40 0.22
ACGTcount: A:0.27, C:0.19, G:0.30, T:0.24
Consensus pattern (43 bp):
AAAAGCGCCGCTAAAAGTCATGGCTTTTAGCGGCGTTTGTGGG
Found at i:11365694 original size:32 final size:31
Alignment explanation
Indices: 11365617--11365696 Score: 88
Period size: 31 Copynumber: 2.5 Consensus size: 31
11365607 CTTCCTGCAT
* * *
11365617 TAAAATCCAACCAAATACAACAAATATAGTA
1 TAAAATACAACCAAAAACAACAAATATAGCA
* * * *
11365648 TAAAATGCAGCCAAAAACAGCAAATTTAGCA
1 TAAAATACAACCAAAAACAACAAATATAGCA
11365679 TAAAAATACAACCAAAAA
1 T-AAAATACAACCAAAAA
11365697 ATTAATTCTA
Statistics
Matches: 40, Mismatches: 8, Indels: 1
0.82 0.16 0.02
Matches are distributed among these distances:
31 26 0.65
32 14 0.35
ACGTcount: A:0.59, C:0.19, G:0.06, T:0.16
Consensus pattern (31 bp):
TAAAATACAACCAAAAACAACAAATATAGCA
Found at i:11371596 original size:9 final size:9
Alignment explanation
Indices: 11371584--11371642 Score: 82
Period size: 9 Copynumber: 6.6 Consensus size: 9
11371574 TCCGTAAGTT
*
11371584 GTTATGTAC
1 GTTATGTAA
*
11371593 GTTATGTGA
1 GTTATGTAA
11371602 GTTATGTAA
1 GTTATGTAA
*
11371611 ATTATGTAA
1 GTTATGTAA
*
11371620 GTTATGTGA
1 GTTATGTAA
11371629 GTTATGTAA
1 GTTATGTAA
11371638 GTTAT
1 GTTAT
11371643 TTTTTAAGAT
Statistics
Matches: 43, Mismatches: 7, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
9 43 1.00
ACGTcount: A:0.29, C:0.02, G:0.24, T:0.46
Consensus pattern (9 bp):
GTTATGTAA
Found at i:11371616 original size:27 final size:27
Alignment explanation
Indices: 11371585--11371642 Score: 98
Period size: 27 Copynumber: 2.1 Consensus size: 27
11371575 CCGTAAGTTG
*
11371585 TTATGTACGTTATGTGAGTTATGTAAA
1 TTATGTAAGTTATGTGAGTTATGTAAA
*
11371612 TTATGTAAGTTATGTGAGTTATGTAAG
1 TTATGTAAGTTATGTGAGTTATGTAAA
11371639 TTAT
1 TTAT
11371643 TTTTTAAGAT
Statistics
Matches: 29, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
27 29 1.00
ACGTcount: A:0.29, C:0.02, G:0.22, T:0.47
Consensus pattern (27 bp):
TTATGTAAGTTATGTGAGTTATGTAAA
Found at i:11372064 original size:241 final size:241
Alignment explanation
Indices: 11371641--11372074 Score: 850
Period size: 241 Copynumber: 1.8 Consensus size: 241
11371631 TATGTAAGTT
*
11371641 ATTTTTTAAGATTCATCATACGTGGCGTTGTTACACCTAGGGAGGATTCATTATATCTTACAGCT
1 ATTTTTTAAGATTCATCATACGTGGCGTTGTTACACCTAGGGAGGATCCATTATATCTTACAGCT
11371706 CGATATAAGGCAACCCGTCAGGTTTCCAGCCTATATACTTTGAATCTTTAAAATATTTAAAAAAA
66 CGATATAAGGCAACCCGTCAGGTTTCCAGCCTATATACTTTGAATCTTTAAAATATTTAAAAAAA
11371771 GGTTGGAGAGAAGGTCAGCTATTGTTGTAATTTTAATGGACAAGCAAGCTACATGGTAATAAATA
131 GGTTGGAGAGAAGGTCAGCTATTGTTGTAATTTTAATGGACAAGCAAGCTACATGGTAATAAATA
11371836 TTCAATAGTAAATGAGCTCGATAGAACTTTTTTCAAGTCTTTTTGA
196 TTCAATAGTAAATGAGCTCGATAGAACTTTTTTCAAGTCTTTTTGA
11371882 ATTTTTTAAGATTCATCATACGTGGCGTTGTTACACCTAGGGAGGATCCATTATATCTTACAGCT
1 ATTTTTTAAGATTCATCATACGTGGCGTTGTTACACCTAGGGAGGATCCATTATATCTTACAGCT
11371947 CGATATAAGGCAACCCGTCAGGTTTCCAGCCTATATACTTTGAATCTTTAAAATATTTAAAAAAA
66 CGATATAAGGCAACCCGTCAGGTTTCCAGCCTATATACTTTGAATCTTTAAAATATTTAAAAAAA
*
11372012 GGTTGGAGAGAGGGTCAGCTATTGTTGTAATTTTAATGGACAAGCAAGCTACATGGTAATAAA
131 GGTTGGAGAGAAGGTCAGCTATTGTTGTAATTTTAATGGACAAGCAAGCTACATGGTAATAAA
11372075 ATTAATTCAT
Statistics
Matches: 191, Mismatches: 2, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
241 191 1.00
ACGTcount: A:0.33, C:0.15, G:0.19, T:0.33
Consensus pattern (241 bp):
ATTTTTTAAGATTCATCATACGTGGCGTTGTTACACCTAGGGAGGATCCATTATATCTTACAGCT
CGATATAAGGCAACCCGTCAGGTTTCCAGCCTATATACTTTGAATCTTTAAAATATTTAAAAAAA
GGTTGGAGAGAAGGTCAGCTATTGTTGTAATTTTAATGGACAAGCAAGCTACATGGTAATAAATA
TTCAATAGTAAATGAGCTCGATAGAACTTTTTTCAAGTCTTTTTGA
Found at i:11375407 original size:40 final size:40
Alignment explanation
Indices: 11375285--11375394 Score: 186
Period size: 39 Copynumber: 2.8 Consensus size: 40
11375275 TAAATTACTT
* *
11375285 TTTTGCGGCATTTTTATCATAAATGCCGCTATTGCTTGCC
1 TTTTGCGGCGTTTTTATCATAAACGCCGCTATTGCTTGCC
*
11375325 TTTTGCGGCGTTTTTAT-ATAAACTCCGCTATTGCTTGCC
1 TTTTGCGGCGTTTTTATCATAAACGCCGCTATTGCTTGCC
11375364 TTTTGCGGCGTTTTTATCATAAACGCCGCTA
1 TTTTGCGGCGTTTTTATCATAAACGCCGCTA
11375395 ATGTTTGACT
Statistics
Matches: 65, Mismatches: 4, Indels: 2
0.92 0.06 0.03
Matches are distributed among these distances:
39 37 0.57
40 28 0.43
ACGTcount: A:0.17, C:0.23, G:0.18, T:0.42
Consensus pattern (40 bp):
TTTTGCGGCGTTTTTATCATAAACGCCGCTATTGCTTGCC
Found at i:11375433 original size:22 final size:20
Alignment explanation
Indices: 11375406--11375462 Score: 62
Period size: 22 Copynumber: 2.6 Consensus size: 20
11375396 TGTTTGACTT
11375406 TTTTATAATTTTTATATTGAA
1 TTTTATAATTTTTATATT-AA
11375427 TTATTAT-ATCTTTTATATTAA
1 TT-TTATAAT-TTTTATATTAA
11375448 TTTTAAATAATTTTT
1 TTTT--ATAATTTTT
11375463 TTTAAAAATT
Statistics
Matches: 31, Mismatches: 0, Indels: 9
0.77 0.00 0.22
Matches are distributed among these distances:
20 2 0.06
21 8 0.26
22 19 0.61
23 2 0.06
ACGTcount: A:0.33, C:0.02, G:0.02, T:0.63
Consensus pattern (20 bp):
TTTTATAATTTTTATATTAA
Found at i:11375861 original size:29 final size:30
Alignment explanation
Indices: 11375820--11375896 Score: 79
Period size: 29 Copynumber: 2.6 Consensus size: 30
11375810 ACATAACCCT
*
11375820 TAAACCCATAACCCCTAACCCCT-AA-CACC
1 TAAACCTA-AACCCCTAACCCCTAAACCACC
* * *
11375849 TAAATCTTAAACCCC-AACCCTTAAACCATC
1 TAAA-CCTAAACCCCTAACCCCTAAACCACC
11375879 TAAACCTAAACCCCTAAC
1 TAAACCTAAACCCCTAAC
11375897 TTTTATCCCC
Statistics
Matches: 39, Mismatches: 5, Indels: 7
0.76 0.10 0.14
Matches are distributed among these distances:
28 6 0.15
29 21 0.54
30 12 0.31
ACGTcount: A:0.40, C:0.42, G:0.00, T:0.18
Consensus pattern (30 bp):
TAAACCTAAACCCCTAACCCCTAAACCACC
Found at i:11375960 original size:14 final size:14
Alignment explanation
Indices: 11375937--11375987 Score: 66
Period size: 14 Copynumber: 3.6 Consensus size: 14
11375927 ATAACCCTTA
*
11375937 AACCCATAACCCAT
1 AACCCCTAACCCAT
11375951 AACCCCTAACCCAT
1 AACCCCTAACCCAT
* *
11375965 ACCCCCTAACCCCT
1 AACCCCTAACCCAT
*
11375979 AACACCTAA
1 AACCCCTAA
11375988 ACCTTAAACC
Statistics
Matches: 32, Mismatches: 5, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
14 32 1.00
ACGTcount: A:0.37, C:0.49, G:0.00, T:0.14
Consensus pattern (14 bp):
AACCCCTAACCCAT
Found at i:11375963 original size:21 final size:21
Alignment explanation
Indices: 11375926--11375981 Score: 76
Period size: 21 Copynumber: 2.6 Consensus size: 21
11375916 AATCATACAA
*
11375926 CATAACCCTTAAACCCATAACC
1 CATAACCCCT-AACCCATAACC
*
11375948 CATAACCCCTAACCCATACCC
1 CATAACCCCTAACCCATAACC
*
11375969 CCTAACCCCTAAC
1 CATAACCCCTAAC
11375982 ACCTAAACCT
Statistics
Matches: 31, Mismatches: 3, Indels: 1
0.89 0.09 0.03
Matches are distributed among these distances:
21 22 0.71
22 9 0.29
ACGTcount: A:0.36, C:0.48, G:0.00, T:0.16
Consensus pattern (21 bp):
CATAACCCCTAACCCATAACC
Found at i:11375999 original size:21 final size:21
Alignment explanation
Indices: 11375937--11376017 Score: 54
Period size: 21 Copynumber: 3.9 Consensus size: 21
11375927 ATAACCCTTA
* * *
11375937 AACCCATAACCCATAACCCCT
1 AACCCTTAAACCATAAACCCT
* ** * *
11375958 AACCCATACCCCCTAACCCCT
1 AACCCTTAAACCATAAACCCT
* * *
11375979 AACACCTAAACCTTAAACCCT
1 AACCCTTAAACCATAAACCCT
*
11376000 AGCCCTTAAACCATAAAC
1 AACCCTTAAACCATAAAC
11376018 TATAAACCAT
Statistics
Matches: 48, Mismatches: 12, Indels: 0
0.80 0.20 0.00
Matches are distributed among these distances:
21 48 1.00
ACGTcount: A:0.38, C:0.44, G:0.01, T:0.16
Consensus pattern (21 bp):
AACCCTTAAACCATAAACCCT
Found at i:11376000 original size:14 final size:14
Alignment explanation
Indices: 11375985--11376066 Score: 58
Period size: 14 Copynumber: 5.8 Consensus size: 14
11375975 CCCTAACACC
*
11375985 TAAACCTTAAACCC
1 TAAACCTTAAACCA
**
11375999 TAGCCCTTAAACCA
1 TAAACCTTAAACCA
11376013 TAAA-CTATAAACCA
1 TAAACCT-TAAACCA
* *
11376027 TAATCCATAAACCTA
1 TAAACCTTAAACC-A
* * *
11376042 TAATCCATAATCCA
1 TAAACCTTAAACCA
*
11376056 TGAACCTTAAA
1 TAAACCTTAAA
11376067 ATAGTAACTC
Statistics
Matches: 53, Mismatches: 12, Indels: 6
0.75 0.17 0.08
Matches are distributed among these distances:
13 2 0.04
14 37 0.70
15 14 0.26
ACGTcount: A:0.45, C:0.28, G:0.02, T:0.24
Consensus pattern (14 bp):
TAAACCTTAAACCA
Found at i:11376016 original size:7 final size:7
Alignment explanation
Indices: 11376006--11376066 Score: 59
Period size: 7 Copynumber: 8.6 Consensus size: 7
11375996 CCCTAGCCCT
11376006 TAAACCA
1 TAAACCA
*
11376013 TAAACTA
1 TAAACCA
11376020 TAAACCA
1 TAAACCA
*
11376027 TAATCCA
1 TAAACCA
11376034 TAAACCTA
1 TAAACC-A
*
11376042 TAATCCA
1 TAAACCA
*
11376049 TAATCCA
1 TAAACCA
* *
11376056 TGAACCT
1 TAAACCA
11376063 TAAA
1 TAAA
11376067 ATAGTAACTC
Statistics
Matches: 44, Mismatches: 9, Indels: 2
0.80 0.16 0.04
Matches are distributed among these distances:
7 38 0.86
8 6 0.14
ACGTcount: A:0.49, C:0.25, G:0.02, T:0.25
Consensus pattern (7 bp):
TAAACCA
Found at i:11376046 original size:15 final size:14
Alignment explanation
Indices: 11376006--11376056 Score: 66
Period size: 14 Copynumber: 3.6 Consensus size: 14
11375996 CCCTAGCCCT
* *
11376006 TAAACCATAAACTA
1 TAAACCATAATCCA
11376020 TAAACCATAATCCA
1 TAAACCATAATCCA
11376034 TAAACCTATAATCCA
1 TAAACC-ATAATCCA
*
11376049 TAATCCAT
1 TAAACCAT
11376057 GAACCTTAAA
Statistics
Matches: 33, Mismatches: 3, Indels: 2
0.87 0.08 0.05
Matches are distributed among these distances:
14 20 0.61
15 13 0.39
ACGTcount: A:0.49, C:0.25, G:0.00, T:0.25
Consensus pattern (14 bp):
TAAACCATAATCCA
Found at i:11376049 original size:22 final size:22
Alignment explanation
Indices: 11376010--11376066 Score: 82
Period size: 22 Copynumber: 2.7 Consensus size: 22
11376000 AGCCCTTAAA
11376010 CCATAAA-CTATAAACCATAAT
1 CCATAAACCTATAAACCATAAT
*
11376031 CCATAAACCTATAATCCATAAT
1 CCATAAACCTATAAACCATAAT
*
11376053 CCATGAACCT-TAAA
1 CCATAAACCTATAAA
11376067 ATAGTAACTC
Statistics
Matches: 32, Mismatches: 3, Indels: 2
0.86 0.08 0.05
Matches are distributed among these distances:
21 10 0.31
22 22 0.69
ACGTcount: A:0.47, C:0.26, G:0.02, T:0.25
Consensus pattern (22 bp):
CCATAAACCTATAAACCATAAT
Found at i:11376451 original size:24 final size:24
Alignment explanation
Indices: 11376423--11376472 Score: 82
Period size: 24 Copynumber: 2.1 Consensus size: 24
11376413 ACCAAAATAA
* *
11376423 AAATTAATTTTTATATAGAGTTTT
1 AAATTAATTTTTATATAAACTTTT
11376447 AAATTAATTTTTATATAAACTTTT
1 AAATTAATTTTTATATAAACTTTT
11376471 AA
1 AA
11376473 TAAATATACG
Statistics
Matches: 24, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
24 24 1.00
ACGTcount: A:0.42, C:0.02, G:0.04, T:0.52
Consensus pattern (24 bp):
AAATTAATTTTTATATAAACTTTT
Found at i:11377122 original size:80 final size:80
Alignment explanation
Indices: 11377033--11377186 Score: 308
Period size: 80 Copynumber: 1.9 Consensus size: 80
11377023 TAGGGGTTAT
11377033 AAAGTAGTGCTTATGATTTTTTGGGTTTAAGATTTTAAGAGTTATATGATTTTTAGCGGCGTTTT
1 AAAGTAGTGCTTATGATTTTTTGGGTTTAAGATTTTAAGAGTTATATGATTTTTAGCGGCGTTTT
11377098 ACCAAAAGCAAAAAA
66 ACCAAAAGCAAAAAA
11377113 AAAGTAGTGCTTATGATTTTTTGGGTTTAAGATTTTAAGAGTTATATGATTTTTAGCGGCGTTTT
1 AAAGTAGTGCTTATGATTTTTTGGGTTTAAGATTTTAAGAGTTATATGATTTTTAGCGGCGTTTT
11377178 ACCAAAAGC
66 ACCAAAAGC
11377187 GCCGCTATTG
Statistics
Matches: 74, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
80 74 1.00
ACGTcount: A:0.31, C:0.08, G:0.21, T:0.40
Consensus pattern (80 bp):
AAAGTAGTGCTTATGATTTTTTGGGTTTAAGATTTTAAGAGTTATATGATTTTTAGCGGCGTTTT
ACCAAAAGCAAAAAA
Found at i:11377230 original size:40 final size:42
Alignment explanation
Indices: 11377157--11377247 Score: 116
Period size: 40 Copynumber: 2.2 Consensus size: 42
11377147 TTAAGAGTTA
11377157 TATGATTTTTAGCGGCGTTTTACCAAAAGCGCCGCTATTGCT-
1 TATG-TTTTTAGCGGCGTTTTACCAAAAGCGCCGCTATTGCTC
***
11377199 TA-GTTTTTAGCGGCGTTTTTGGTAAAA-CGCCGCTATTGCTC
1 TATGTTTTTAGCGGCG-TTTTACCAAAAGCGCCGCTATTGCTC
11377240 TATGTTTT
1 TATGTTTT
11377248 ACAATTTTTG
Statistics
Matches: 43, Mismatches: 3, Indels: 6
0.83 0.06 0.12
Matches are distributed among these distances:
40 25 0.58
41 11 0.26
42 7 0.16
ACGTcount: A:0.19, C:0.19, G:0.22, T:0.41
Consensus pattern (42 bp):
TATGTTTTTAGCGGCGTTTTACCAAAAGCGCCGCTATTGCTC
Found at i:11382666 original size:21 final size:21
Alignment explanation
Indices: 11382637--11382687 Score: 93
Period size: 21 Copynumber: 2.4 Consensus size: 21
11382627 GTAACTATAT
*
11382637 TAGTTAGTTAGTATTTTGTTA
1 TAGTCAGTTAGTATTTTGTTA
11382658 TAGTCAGTTAGTATTTTGTTA
1 TAGTCAGTTAGTATTTTGTTA
11382679 TAGTCAGTT
1 TAGTCAGTT
11382688 GCTAATCTGT
Statistics
Matches: 29, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
21 29 1.00
ACGTcount: A:0.24, C:0.04, G:0.20, T:0.53
Consensus pattern (21 bp):
TAGTCAGTTAGTATTTTGTTA
Found at i:11382698 original size:21 final size:21
Alignment explanation
Indices: 11382637--11382701 Score: 69
Period size: 21 Copynumber: 3.1 Consensus size: 21
11382627 GTAACTATAT
* * *
11382637 TAGTTAGTTAGTATTTTGTTA
1 TAGTCAGTTAGTAATCTGTTA
* *
11382658 TAGTCAGTTAGTATTTTGTTA
1 TAGTCAGTTAGTAATCTGTTA
11382679 TAGTCAGTT-GCTAATCTGTTA
1 TAGTCAGTTAG-TAATCTGTTA
11382700 TA
1 TA
11382702 AAGCATACTG
Statistics
Matches: 40, Mismatches: 3, Indels: 2
0.89 0.07 0.04
Matches are distributed among these distances:
20 1 0.03
21 39 0.98
ACGTcount: A:0.25, C:0.06, G:0.18, T:0.51
Consensus pattern (21 bp):
TAGTCAGTTAGTAATCTGTTA
Found at i:11387211 original size:13 final size:13
Alignment explanation
Indices: 11387193--11387219 Score: 54
Period size: 13 Copynumber: 2.1 Consensus size: 13
11387183 ACAAATCACA
11387193 AGAATTAATGCAC
1 AGAATTAATGCAC
11387206 AGAATTAATGCAC
1 AGAATTAATGCAC
11387219 A
1 A
11387220 AGCTAACTCT
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:0.48, C:0.15, G:0.15, T:0.22
Consensus pattern (13 bp):
AGAATTAATGCAC
Found at i:11389048 original size:17 final size:18
Alignment explanation
Indices: 11389028--11389061 Score: 52
Period size: 17 Copynumber: 1.9 Consensus size: 18
11389018 GTTTGAGTTT
11389028 TATTTACTTT-TTTTTAA
1 TATTTACTTTATTTTTAA
*
11389045 TATTTGCTTTATTTTTA
1 TATTTACTTTATTTTTA
11389062 TTTTTTTGTG
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
17 9 0.60
18 6 0.40
ACGTcount: A:0.21, C:0.06, G:0.03, T:0.71
Consensus pattern (18 bp):
TATTTACTTTATTTTTAA
Found at i:11393772 original size:8 final size:8
Alignment explanation
Indices: 11393748--11393777 Score: 53
Period size: 8 Copynumber: 3.9 Consensus size: 8
11393738 TCCTGTTCTT
11393748 TTTCTTTA
1 TTTCTTTA
11393756 TTT-TTTA
1 TTTCTTTA
11393763 TTTCTTTA
1 TTTCTTTA
11393771 TTTCTTT
1 TTTCTTT
11393778 TATATTTTAT
Statistics
Matches: 21, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
7 7 0.33
8 14 0.67
ACGTcount: A:0.10, C:0.10, G:0.00, T:0.80
Consensus pattern (8 bp):
TTTCTTTA
Found at i:11401140 original size:16 final size:16
Alignment explanation
Indices: 11401087--11401152 Score: 62
Period size: 16 Copynumber: 3.8 Consensus size: 16
11401077 ATCTCTTTTA
11401087 TATTTTATTATATACTT
1 TATTTTATTAT-TACTT
11401104 TATTTTATTATTACTTCACTT
1 TA--TT-TTATTA-TT-ACTT
11401125 TATTTTATTATTACTT
1 TATTTTATTATTACTT
*
11401141 TATATTA-TATTA
1 TATTTTATTATTA
11401153 ATTTCTTAAA
Statistics
Matches: 43, Mismatches: 1, Indels: 12
0.77 0.02 0.21
Matches are distributed among these distances:
15 5 0.12
16 10 0.23
17 4 0.09
18 6 0.14
19 4 0.09
20 7 0.16
21 7 0.16
ACGTcount: A:0.29, C:0.08, G:0.00, T:0.64
Consensus pattern (16 bp):
TATTTTATTATTACTT
Found at i:11401148 original size:21 final size:21
Alignment explanation
Indices: 11401100--11401140 Score: 82
Period size: 21 Copynumber: 2.0 Consensus size: 21
11401090 TTTATTATAT
11401100 ACTTTATTTTATTATTACTTC
1 ACTTTATTTTATTATTACTTC
11401121 ACTTTATTTTATTATTACTT
1 ACTTTATTTTATTATTACTT
11401141 TATATTATAT
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
21 20 1.00
ACGTcount: A:0.24, C:0.12, G:0.00, T:0.63
Consensus pattern (21 bp):
ACTTTATTTTATTATTACTTC
Found at i:11406329 original size:21 final size:21
Alignment explanation
Indices: 11406303--11406343 Score: 64
Period size: 21 Copynumber: 2.0 Consensus size: 21
11406293 ATCTGCTCAA
* *
11406303 ACTCCACCTGTTTTGGAGTAC
1 ACTCCACCTGCTGTGGAGTAC
11406324 ACTCCACCTGCTGTGGAGTA
1 ACTCCACCTGCTGTGGAGTA
11406344 TTGCTCGTCT
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
21 18 1.00
ACGTcount: A:0.20, C:0.29, G:0.22, T:0.29
Consensus pattern (21 bp):
ACTCCACCTGCTGTGGAGTAC
Found at i:11410127 original size:21 final size:22
Alignment explanation
Indices: 11410083--11410136 Score: 65
Period size: 22 Copynumber: 2.5 Consensus size: 22
11410073 TCACAAAAAT
*
11410083 AATTTGAAAATGACCCCATAAA
1 AATTTGAAAAGGACCCCATAAA
*
11410105 AATTTGAAAAGGA-TCCATCAAA
1 AATTTGAAAAGGACCCCAT-AAA
*
11410127 ATTTTGAAAA
1 AATTTGAAAA
11410137 AAAGAACTAT
Statistics
Matches: 28, Mismatches: 3, Indels: 2
0.85 0.09 0.06
Matches are distributed among these distances:
21 4 0.14
22 24 0.86
ACGTcount: A:0.50, C:0.13, G:0.11, T:0.26
Consensus pattern (22 bp):
AATTTGAAAAGGACCCCATAAA
Found at i:11410430 original size:17 final size:19
Alignment explanation
Indices: 11410399--11410433 Score: 56
Period size: 17 Copynumber: 1.9 Consensus size: 19
11410389 AAGACTTAGT
11410399 TTTTTTTATTGAATGATTC
1 TTTTTTTATTGAATGATTC
11410418 TTTTTTT-TT-AATGATT
1 TTTTTTTATTGAATGATT
11410434 TTGAGACTTG
Statistics
Matches: 16, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
17 7 0.44
18 2 0.12
19 7 0.44
ACGTcount: A:0.20, C:0.03, G:0.09, T:0.69
Consensus pattern (19 bp):
TTTTTTTATTGAATGATTC
Found at i:11411764 original size:14 final size:14
Alignment explanation
Indices: 11411745--11411783 Score: 69
Period size: 14 Copynumber: 2.8 Consensus size: 14
11411735 CTGAAATGAC
11411745 ATGTTCCAAAAATT
1 ATGTTCCAAAAATT
11411759 ATGTTCCAAAAATT
1 ATGTTCCAAAAATT
*
11411773 ATGTACCAAAA
1 ATGTTCCAAAA
11411784 TGGTACATTC
Statistics
Matches: 24, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
14 24 1.00
ACGTcount: A:0.46, C:0.15, G:0.08, T:0.31
Consensus pattern (14 bp):
ATGTTCCAAAAATT
Found at i:11412196 original size:27 final size:27
Alignment explanation
Indices: 11412132--11412216 Score: 82
Period size: 27 Copynumber: 3.1 Consensus size: 27
11412122 GGGGGAAAAA
*
11412132 ACCACTGGTGCCACCTATCAGATAGGC
1 ACCACTGGTGCCGCCTATCAGATAGGC
** * *
11412159 ACCACCAGTGCTGCCTATCAGATAGGG
1 ACCACTGGTGCCGCCTATCAGATAGGC
** *
11412186 GTCACTGGTGCCGCCTAT-GGTATAGGC
1 ACCACTGGTGCCGCCTATCAG-ATAGGC
11412213 ACCA
1 ACCA
11412217 TACCCCTATA
Statistics
Matches: 43, Mismatches: 14, Indels: 2
0.73 0.24 0.03
Matches are distributed among these distances:
26 1 0.02
27 42 0.98
ACGTcount: A:0.24, C:0.31, G:0.26, T:0.20
Consensus pattern (27 bp):
ACCACTGGTGCCGCCTATCAGATAGGC
Found at i:11415513 original size:16 final size:16
Alignment explanation
Indices: 11415480--11415513 Score: 50
Period size: 16 Copynumber: 2.1 Consensus size: 16
11415470 TGTATGTGTT
* *
11415480 AACATTAATGGGAGAC
1 AACATTAATGGCAAAC
11415496 AACATTAATGGCAAAC
1 AACATTAATGGCAAAC
11415512 AA
1 AA
11415514 TACAAAGTGG
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
16 16 1.00
ACGTcount: A:0.50, C:0.15, G:0.18, T:0.18
Consensus pattern (16 bp):
AACATTAATGGCAAAC
Found at i:11419102 original size:40 final size:40
Alignment explanation
Indices: 11419030--11419164 Score: 182
Period size: 40 Copynumber: 3.4 Consensus size: 40
11419020 CGGATGTAAC
* *
11419030 AACCAGCACGAATGCCTTC-GAGACTTAACCCGGTAATAAT
1 AACCCGCACGAATGCCTTCGGA-ACTTAACCCGGTTATAAT
* * * *
11419070 AACTCGCATGAATGCCTTCGGAATTTAGCCCGGTTATAAT
1 AACCCGCACGAATGCCTTCGGAACTTAACCCGGTTATAAT
* *
11419110 AACCCGCACGAATGCCTTCGGGACTTAACTCGGTTATAAT
1 AACCCGCACGAATGCCTTCGGAACTTAACCCGGTTATAAT
11419150 AACCCGCACGAATGC
1 AACCCGCACGAATGC
11419165 TGTGCACATA
Statistics
Matches: 82, Mismatches: 12, Indels: 2
0.85 0.12 0.02
Matches are distributed among these distances:
40 80 0.98
41 2 0.02
ACGTcount: A:0.30, C:0.27, G:0.19, T:0.23
Consensus pattern (40 bp):
AACCCGCACGAATGCCTTCGGAACTTAACCCGGTTATAAT
Found at i:11423827 original size:40 final size:40
Alignment explanation
Indices: 11423762--11423936 Score: 278
Period size: 40 Copynumber: 4.4 Consensus size: 40
11423752 CGGATGTAAC
* *
11423762 AACCAGCACGAATGCCTTCGAGACTTAACCCGGTTATAAT
1 AACCCGCACGAATGCCTTCGGGACTTAACCCGGTTATAAT
* *
11423802 AACCCCCACGAATGCCTTCGGGACTTACCCCGGTTATAAT
1 AACCCGCACGAATGCCTTCGGGACTTAACCCGGTTATAAT
* *
11423842 AACCAGCACGAATGCCTTCGGGACTTAACCCGATTATAAT
1 AACCCGCACGAATGCCTTCGGGACTTAACCCGGTTATAAT
*
11423882 AACCCGCACGAATGCCTTCGGAACTTAACCCGGTTATAAT
1 AACCCGCACGAATGCCTTCGGGACTTAACCCGGTTATAAT
*
11423922 AACCCACACGAATGC
1 AACCCGCACGAATGC
11423937 TGTGCACATA
Statistics
Matches: 123, Mismatches: 12, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
40 123 1.00
ACGTcount: A:0.31, C:0.31, G:0.17, T:0.21
Consensus pattern (40 bp):
AACCCGCACGAATGCCTTCGGGACTTAACCCGGTTATAAT
Found at i:11425897 original size:21 final size:21
Alignment explanation
Indices: 11425871--11425911 Score: 64
Period size: 21 Copynumber: 2.0 Consensus size: 21
11425861 AGACGAGCAA
* *
11425871 TACTCCACAGCAGGTGGAGTG
1 TACTCCAAAACAGGTGGAGTG
11425892 TACTCCAAAACAGGTGGAGT
1 TACTCCAAAACAGGTGGAGT
11425912 TTGAGCAGAT
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
21 18 1.00
ACGTcount: A:0.29, C:0.22, G:0.29, T:0.20
Consensus pattern (21 bp):
TACTCCAAAACAGGTGGAGTG
Found at i:11441951 original size:18 final size:18
Alignment explanation
Indices: 11441908--11441957 Score: 52
Period size: 18 Copynumber: 2.9 Consensus size: 18
11441898 TCATATTGAT
*
11441908 TTAAAATATT-ATATATA
1 TTAAAATATTAATATTTA
*
11441925 -T-ATATATTAATATTTA
1 TTAAAATATTAATATTTA
*
11441941 TTAAAATATTAAAATTT
1 TTAAAATATTAATATTT
11441958 TTTGTACATA
Statistics
Matches: 26, Mismatches: 4, Indels: 5
0.74 0.11 0.14
Matches are distributed among these distances:
15 6 0.23
16 7 0.27
17 1 0.04
18 12 0.46
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (18 bp):
TTAAAATATTAATATTTA
Found at i:11445316 original size:42 final size:42
Alignment explanation
Indices: 11445253--11445365 Score: 156
Period size: 42 Copynumber: 2.7 Consensus size: 42
11445243 CTTCGTTTTC
** * *
11445253 TCGATGCCATAGTTCAACTATGGTCTTACACATCTTCACATAA
1 TCGATGCCATAGCCCAGCTATGGTCTTACACATATTCACAT-A
*
11445296 T-GATGCCATAGCCCAGCTATGGTCTTACACATATTCATATA
1 TCGATGCCATAGCCCAGCTATGGTCTTACACATATTCACATA
*
11445337 TCGATGCCATAGCCCAGCTATGGTTTTAC
1 TCGATGCCATAGCCCAGCTATGGTCTTAC
11445366 GCGAATCACA
Statistics
Matches: 63, Mismatches: 6, Indels: 3
0.88 0.08 0.04
Matches are distributed among these distances:
41 2 0.03
42 60 0.95
43 1 0.02
ACGTcount: A:0.27, C:0.26, G:0.15, T:0.32
Consensus pattern (42 bp):
TCGATGCCATAGCCCAGCTATGGTCTTACACATATTCACATA
Found at i:11445521 original size:31 final size:31
Alignment explanation
Indices: 11445486--11445603 Score: 182
Period size: 31 Copynumber: 3.8 Consensus size: 31
11445476 CTTGTCACTT
*
11445486 GTAGCCGAAGCTACCACTATTCACTGATCAG
1 GTAGCCGAAGCTACCACTTTTCACTGATCAG
* *
11445517 GTAGCCGGAGCTACCATTTTTCACTGATCAG
1 GTAGCCGAAGCTACCACTTTTCACTGATCAG
*
11445548 GTAGCCGGAGCTACCACTTTTCACTGATCAG
1 GTAGCCGAAGCTACCACTTTTCACTGATCAG
* *
11445579 GTAGCAGAAGCTACTACTTTTCACT
1 GTAGCCGAAGCTACCACTTTTCACT
11445604 TGTCATTTGT
Statistics
Matches: 80, Mismatches: 7, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
31 80 1.00
ACGTcount: A:0.25, C:0.27, G:0.20, T:0.27
Consensus pattern (31 bp):
GTAGCCGAAGCTACCACTTTTCACTGATCAG
Found at i:11445683 original size:50 final size:49
Alignment explanation
Indices: 11445579--11445755 Score: 228
Period size: 50 Copynumber: 3.5 Consensus size: 49
11445569 CACTGATCAG
* * * * *
11445579 GTAGCAGAAGCTACTACTTTTCACTTGTCATTTGTCCCTGATCAGATAGGT
1 GTAGCCGAAGCTTC-ACTTATCACTT-TCATTTGTCCTTGATCAGATAAGT
* * *
11445630 GTAGCCGAAGCTGTCACTTATCACTTTCACTTGTCATTGATCAGATAACT
1 GTAGCCGAAGCT-TCACTTATCACTTTCATTTGTCCTTGATCAGATAAGT
*
11445680 GTAGCCGAAGCTACTACTTATCACTTTCATTTGTCCTTGATCAGATAAGT
1 GTAGCCGAAGCTTC-ACTTATCACTTTCATTTGTCCTTGATCAGATAAGT
11445730 GTAGCCGAAGCTATCACTTATCACTT
1 GTAGCCGAAGCT-TCACTTATCACTT
11445756 GTTGCCATGG
Statistics
Matches: 110, Mismatches: 13, Indels: 7
0.85 0.10 0.05
Matches are distributed among these distances:
49 1 0.01
50 86 0.78
51 22 0.20
52 1 0.01
ACGTcount: A:0.25, C:0.23, G:0.17, T:0.34
Consensus pattern (49 bp):
GTAGCCGAAGCTTCACTTATCACTTTCATTTGTCCTTGATCAGATAAGT
Found at i:11448097 original size:13 final size:12
Alignment explanation
Indices: 11448071--11448121 Score: 61
Period size: 10 Copynumber: 4.2 Consensus size: 12
11448061 ATAGAAGATA
11448071 TTATTTTATTTTAT
1 TTATTTTA--TTAT
11448085 TTAGTTTTATTAT
1 TTA-TTTTATTAT
11448098 TTA-TTT-TTAT
1 TTATTTTATTAT
11448108 TTATTTTATTAT
1 TTATTTTATTAT
11448120 TT
1 TT
11448122 TAGGATTAAG
Statistics
Matches: 34, Mismatches: 0, Indels: 8
0.81 0.00 0.19
Matches are distributed among these distances:
10 7 0.21
11 6 0.18
12 6 0.18
13 7 0.21
14 3 0.09
15 5 0.15
ACGTcount: A:0.22, C:0.00, G:0.02, T:0.76
Consensus pattern (12 bp):
TTATTTTATTAT
Found at i:11448098 original size:23 final size:23
Alignment explanation
Indices: 11448069--11448123 Score: 87
Period size: 23 Copynumber: 2.4 Consensus size: 23
11448059 AAATAGAAGA
11448069 TATTATTTTA-TTTTATTTAGTTT
1 TATTATTTTATTTTTATTTA-TTT
11448092 TATTA-TTTATTTTTATTTATTT
1 TATTATTTTATTTTTATTTATTT
11448114 TATTATTTTA
1 TATTATTTTA
11448124 GGATTAAGCT
Statistics
Matches: 30, Mismatches: 0, Indels: 4
0.88 0.00 0.12
Matches are distributed among these distances:
22 12 0.40
23 18 0.60
ACGTcount: A:0.24, C:0.00, G:0.02, T:0.75
Consensus pattern (23 bp):
TATTATTTTATTTTTATTTATTT
Found at i:11449482 original size:17 final size:17
Alignment explanation
Indices: 11449457--11449490 Score: 59
Period size: 17 Copynumber: 2.0 Consensus size: 17
11449447 GTACTTGTGT
11449457 AAAACATTAAAATAATA
1 AAAACATTAAAATAATA
*
11449474 AAAATATTAAAATAATA
1 AAAACATTAAAATAATA
11449491 CTTTAATAAA
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
17 16 1.00
ACGTcount: A:0.71, C:0.03, G:0.00, T:0.26
Consensus pattern (17 bp):
AAAACATTAAAATAATA
Found at i:11460952 original size:5 final size:5
Alignment explanation
Indices: 11460938--11460972 Score: 61
Period size: 5 Copynumber: 7.0 Consensus size: 5
11460928 TTAGTTTGCC
*
11460938 TTATT CTATT TTATT TTATT TTATT TTATT TTATT
1 TTATT TTATT TTATT TTATT TTATT TTATT TTATT
11460973 CTTCTATACA
Statistics
Matches: 28, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
5 28 1.00
ACGTcount: A:0.20, C:0.03, G:0.00, T:0.77
Consensus pattern (5 bp):
TTATT
Found at i:11462033 original size:18 final size:19
Alignment explanation
Indices: 11462010--11462045 Score: 56
Period size: 18 Copynumber: 1.9 Consensus size: 19
11462000 ATAGACTCGT
*
11462010 AATTAAAA-AATTGAAAAA
1 AATTAAAAGAATTCAAAAA
11462028 AATTAAAAGAATTCAAAA
1 AATTAAAAGAATTCAAAA
11462046 TAATAGACCC
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
18 8 0.50
19 8 0.50
ACGTcount: A:0.69, C:0.03, G:0.06, T:0.22
Consensus pattern (19 bp):
AATTAAAAGAATTCAAAAA
Found at i:11462059 original size:48 final size:47
Alignment explanation
Indices: 11461986--11462080 Score: 172
Period size: 48 Copynumber: 2.0 Consensus size: 47
11461976 AAAGCATTCT
*
11461986 AAGAATTCAAAATAATAGACTCGTAATTAAAAAATTGAAAAAAATTAA
1 AAGAATTCAAAATAATAGACCCGTAATT-AAAAATTGAAAAAAATTAA
11462034 AAGAATTCAAAATAATAGACCCGTAATTAAAAATTGAAAAAAATTAA
1 AAGAATTCAAAATAATAGACCCGTAATTAAAAATTGAAAAAAATTAA
11462081 CTTCGGAAAA
Statistics
Matches: 46, Mismatches: 1, Indels: 1
0.96 0.02 0.02
Matches are distributed among these distances:
47 19 0.41
48 27 0.59
ACGTcount: A:0.60, C:0.07, G:0.08, T:0.24
Consensus pattern (47 bp):
AAGAATTCAAAATAATAGACCCGTAATTAAAAATTGAAAAAAATTAA
Found at i:11462583 original size:18 final size:18
Alignment explanation
Indices: 11462552--11462586 Score: 54
Period size: 18 Copynumber: 1.9 Consensus size: 18
11462542 TTTAAAAAAT
11462552 AAAATTAAAGTATTTTAA
1 AAAATTAAAGTATTTTAA
11462570 AAAATATAAA-TATTTTA
1 AAAAT-TAAAGTATTTTA
11462587 TATTATTAAA
Statistics
Matches: 16, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
18 12 0.75
19 4 0.25
ACGTcount: A:0.57, C:0.00, G:0.03, T:0.40
Consensus pattern (18 bp):
AAAATTAAAGTATTTTAA
Found at i:11466791 original size:21 final size:21
Alignment explanation
Indices: 11466765--11466805 Score: 64
Period size: 21 Copynumber: 2.0 Consensus size: 21
11466755 ATCTGCTCAA
* *
11466765 ACTCCACCTGTTTTGGAGTAC
1 ACTCCACCTGCTGTGGAGTAC
11466786 ACTCCACCTGCTGTGGAGTA
1 ACTCCACCTGCTGTGGAGTA
11466806 TTGCTCGTCT
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
21 18 1.00
ACGTcount: A:0.20, C:0.29, G:0.22, T:0.29
Consensus pattern (21 bp):
ACTCCACCTGCTGTGGAGTAC
Found at i:11470289 original size:19 final size:19
Alignment explanation
Indices: 11470249--11470295 Score: 51
Period size: 19 Copynumber: 2.5 Consensus size: 19
11470239 CAATCATAAA
* *
11470249 AATTGATTTAAACTTGTGT
1 AATTTATTTAAAATTGTGT
11470268 AATTTATTTAAAATT-TGAT
1 AATTTATTTAAAATTGTG-T
*
11470287 AATGTATTT
1 AATTTATTT
11470296 TTTTATTTAA
Statistics
Matches: 24, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
18 2 0.08
19 22 0.92
ACGTcount: A:0.36, C:0.02, G:0.11, T:0.51
Consensus pattern (19 bp):
AATTTATTTAAAATTGTGT
Found at i:11474474 original size:10 final size:10
Alignment explanation
Indices: 11474442--11474500 Score: 68
Period size: 10 Copynumber: 5.9 Consensus size: 10
11474432 TTAAATTCTA
11474442 AAAGATAAAT
1 AAAGATAAAT
*
11474452 ACAA-TTAAAT
1 A-AAGATAAAT
*
11474462 AAAGATAATT
1 AAAGATAAAT
11474472 AAAGATAAAT
1 AAAGATAAAT
11474482 -AAGAATAAAT
1 AAAG-ATAAAT
11474492 AAAGATAAA
1 AAAGATAAA
11474501 AGCTAAAATT
Statistics
Matches: 41, Mismatches: 4, Indels: 8
0.77 0.08 0.15
Matches are distributed among these distances:
9 5 0.12
10 31 0.76
11 5 0.12
ACGTcount: A:0.68, C:0.02, G:0.08, T:0.22
Consensus pattern (10 bp):
AAAGATAAAT
Found at i:11474476 original size:30 final size:30
Alignment explanation
Indices: 11474442--11474499 Score: 91
Period size: 30 Copynumber: 1.9 Consensus size: 30
11474432 TTAAATTCTA
*
11474442 AAAGATAAATACA-ATTAAATAAAGATAATT
1 AAAGATAAATA-AGAATAAATAAAGATAATT
11474472 AAAGATAAATAAGAATAAATAAAGATAA
1 AAAGATAAATAAGAATAAATAAAGATAA
11474500 AAGCTAAAAT
Statistics
Matches: 26, Mismatches: 1, Indels: 2
0.90 0.03 0.07
Matches are distributed among these distances:
29 1 0.04
30 25 0.96
ACGTcount: A:0.67, C:0.02, G:0.09, T:0.22
Consensus pattern (30 bp):
AAAGATAAATAAGAATAAATAAAGATAATT
Found at i:11485771 original size:46 final size:46
Alignment explanation
Indices: 11485717--11485817 Score: 168
Period size: 46 Copynumber: 2.2 Consensus size: 46
11485707 AGTGTGCTCT
*
11485717 CTGATATGAAATGTGTAAGACTATGGTTGAAAGATACCATGGCAA-
1 CTGATATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAAC
*
11485762 CTAGATATGAAATGTTTAAGACCATGGTTGAAAGATACCATGGCAAC
1 CT-GATATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAAC
11485809 CTGATATGA
1 CTGATATGA
11485818 CCATAGTTGA
Statistics
Matches: 52, Mismatches: 2, Indels: 3
0.91 0.04 0.05
Matches are distributed among these distances:
45 2 0.04
46 48 0.92
47 2 0.04
ACGTcount: A:0.38, C:0.13, G:0.23, T:0.27
Consensus pattern (46 bp):
CTGATATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAAC
Found at i:11486148 original size:16 final size:17
Alignment explanation
Indices: 11486127--11486158 Score: 57
Period size: 17 Copynumber: 1.9 Consensus size: 17
11486117 ATGATGGTGC
11486127 ATGAAAT-ATTGATATA
1 ATGAAATAATTGATATA
11486143 ATGAAATAATTGATAT
1 ATGAAATAATTGATAT
11486159 GTACTTATGA
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
16 7 0.47
17 8 0.53
ACGTcount: A:0.50, C:0.00, G:0.12, T:0.38
Consensus pattern (17 bp):
ATGAAATAATTGATATA
Found at i:11489623 original size:14 final size:14
Alignment explanation
Indices: 11489604--11489632 Score: 58
Period size: 14 Copynumber: 2.1 Consensus size: 14
11489594 TTAATGTCAA
11489604 AAAATTTGGTTTCG
1 AAAATTTGGTTTCG
11489618 AAAATTTGGTTTCG
1 AAAATTTGGTTTCG
11489632 A
1 A
11489633 GGAAAAATTT
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 15 1.00
ACGTcount: A:0.31, C:0.07, G:0.21, T:0.41
Consensus pattern (14 bp):
AAAATTTGGTTTCG
Found at i:11491265 original size:26 final size:26
Alignment explanation
Indices: 11491235--11491300 Score: 87
Period size: 26 Copynumber: 2.5 Consensus size: 26
11491225 TTTAAACCAA
* *
11491235 ATTTTTTAAAAGCACTTCTTAAAAGT
1 ATTTTTCAAAAGCACTTCTCAAAAGT
* *
11491261 ATTTTTCCACAGCACTTCTCAAAAGT
1 ATTTTTCAAAAGCACTTCTCAAAAGT
*
11491287 ACTTTTCAAAAGCA
1 ATTTTTCAAAAGCA
11491301 TTGCCAAACT
Statistics
Matches: 33, Mismatches: 7, Indels: 0
0.82 0.17 0.00
Matches are distributed among these distances:
26 33 1.00
ACGTcount: A:0.36, C:0.20, G:0.08, T:0.36
Consensus pattern (26 bp):
ATTTTTCAAAAGCACTTCTCAAAAGT
Found at i:11501873 original size:11 final size:12
Alignment explanation
Indices: 11501852--11501889 Score: 51
Period size: 11 Copynumber: 3.2 Consensus size: 12
11501842 TTTGAAACAT
11501852 TATATAAAATAA
1 TATATAAAATAA
11501864 TATA-AAAATAA
1 TATATAAAATAA
*
11501875 TATTTAATAATAA
1 TATATAA-AATAA
11501888 TA
1 TA
11501890 AAAGTACTAT
Statistics
Matches: 23, Mismatches: 1, Indels: 3
0.85 0.04 0.11
Matches are distributed among these distances:
11 10 0.43
12 6 0.26
13 7 0.30
ACGTcount: A:0.63, C:0.00, G:0.00, T:0.37
Consensus pattern (12 bp):
TATATAAAATAA
Found at i:11504245 original size:55 final size:55
Alignment explanation
Indices: 11504179--11504289 Score: 222
Period size: 55 Copynumber: 2.0 Consensus size: 55
11504169 ATTTTTAAGA
11504179 ATTAAGATTAAATTGATAGAATGTATAAAAGTTAAATGTTAGATTTATTGAACTT
1 ATTAAGATTAAATTGATAGAATGTATAAAAGTTAAATGTTAGATTTATTGAACTT
11504234 ATTAAGATTAAATTGATAGAATGTATAAAAGTTAAATGTTAGATTTATTGAACTT
1 ATTAAGATTAAATTGATAGAATGTATAAAAGTTAAATGTTAGATTTATTGAACTT
11504289 A
1 A
11504290 CTTTAAAATC
Statistics
Matches: 56, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
55 56 1.00
ACGTcount: A:0.44, C:0.02, G:0.14, T:0.40
Consensus pattern (55 bp):
ATTAAGATTAAATTGATAGAATGTATAAAAGTTAAATGTTAGATTTATTGAACTT
Found at i:11506952 original size:60 final size:60
Alignment explanation
Indices: 11506873--11506997 Score: 155
Period size: 60 Copynumber: 2.1 Consensus size: 60
11506863 TTTTCTTTTA
* * * * *
11506873 AATTTTTAGAATTAGAACTAAATTAACATATTTTGTAAATGTTGAA-ACTTAAATTTATTG
1 AATTTATAGAATTAGAACTAAAATAACAAATTTTGTAAATATTAAAGAC-TAAATTTATTG
* *
11506933 AATTTATAGAATTCA-AACTAAAATAATAAATTTTGTAAATATTAAAGACTAAATTTGTTG
1 AATTTATAGAATT-AGAACTAAAATAACAAATTTTGTAAATATTAAAGACTAAATTTATTG
11506993 AATTT
1 AATTT
11506998 TTTTATTAAA
Statistics
Matches: 56, Mismatches: 7, Indels: 4
0.84 0.10 0.06
Matches are distributed among these distances:
60 53 0.95
61 3 0.05
ACGTcount: A:0.45, C:0.05, G:0.09, T:0.42
Consensus pattern (60 bp):
AATTTATAGAATTAGAACTAAAATAACAAATTTTGTAAATATTAAAGACTAAATTTATTG
Found at i:11507719 original size:14 final size:15
Alignment explanation
Indices: 11507700--11507729 Score: 53
Period size: 15 Copynumber: 2.1 Consensus size: 15
11507690 GACCCATAAA
11507700 CCTTGAA-CCCAAAC
1 CCTTGAAGCCCAAAC
11507714 CCTTGAAGCCCAAAC
1 CCTTGAAGCCCAAAC
11507729 C
1 C
11507730 TGAACCTTGA
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
14 7 0.47
15 8 0.53
ACGTcount: A:0.33, C:0.43, G:0.10, T:0.13
Consensus pattern (15 bp):
CCTTGAAGCCCAAAC
Found at i:11507733 original size:13 final size:13
Alignment explanation
Indices: 11507697--11507735 Score: 53
Period size: 14 Copynumber: 2.9 Consensus size: 13
11507687 TCCGACCCAT
11507697 AAACCTTGAACCC
1 AAACCTTGAACCC
11507710 AAACCCTTGAAGCCC
1 AAA-CCTTGAA-CCC
11507725 AAACC-TGAACC
1 AAACCTTGAACC
11507736 TTGAACCCCG
Statistics
Matches: 24, Mismatches: 0, Indels: 5
0.83 0.00 0.17
Matches are distributed among these distances:
12 2 0.08
13 7 0.29
14 9 0.38
15 6 0.25
ACGTcount: A:0.38, C:0.38, G:0.10, T:0.13
Consensus pattern (13 bp):
AAACCTTGAACCC
Found at i:11507749 original size:20 final size:20
Alignment explanation
Indices: 11507704--11507783 Score: 61
Period size: 20 Copynumber: 3.9 Consensus size: 20
11507694 CATAAACCTT
* *
11507704 GAACCCAAACCCTTGAAGCCC
1 GAACCTAAA-CCTTGAACCCC
* *
11507725 AAACCTGAACCTTGAACCCC
1 GAACCTAAACCTTGAACCCC
* * * *
11507745 GAACCCTCAACCTTAAATCTC
1 GAA-CCTAAACCTTGAACCCC
*
11507766 GAACCCAAACCTTGAACC
1 GAACCTAAACCTTGAACC
11507784 ACAAGTTCGG
Statistics
Matches: 45, Mismatches: 13, Indels: 3
0.74 0.21 0.05
Matches are distributed among these distances:
20 23 0.51
21 22 0.49
ACGTcount: A:0.35, C:0.40, G:0.10, T:0.15
Consensus pattern (20 bp):
GAACCTAAACCTTGAACCCC
Found at i:11509149 original size:25 final size:23
Alignment explanation
Indices: 11509104--11509153 Score: 66
Period size: 25 Copynumber: 2.1 Consensus size: 23
11509094 CAAGAAGACA
11509104 AAAAACAATAGCAAACAACAAAG
1 AAAAACAATAGCAAACAACAAAG
11509127 AAAAACAATGAAG-AAACAGACAAAG
1 AAAAACAAT--AGCAAACA-ACAAAG
11509152 AA
1 AA
11509154 TAGAAACACA
Statistics
Matches: 24, Mismatches: 0, Indels: 4
0.86 0.00 0.14
Matches are distributed among these distances:
23 9 0.38
24 5 0.21
25 10 0.42
ACGTcount: A:0.70, C:0.14, G:0.12, T:0.04
Consensus pattern (23 bp):
AAAAACAATAGCAAACAACAAAG
Found at i:11510112 original size:25 final size:25
Alignment explanation
Indices: 11510066--11510168 Score: 89
Period size: 25 Copynumber: 4.0 Consensus size: 25
11510056 ACGTCTTATG
* **
11510066 TATTTTAAATTATTATAAATTTTAAA
1 TATTTTACA-TATTATTTATTTTAAA
*
11510092 TATTTTACATATTATTTATTTTAAC
1 TATTTTACATATTATTTATTTTAAA
* * * *
11510117 TACTATACATATCACTTATTTTGAAA
1 TATTTTACATATTATTTATTTT-AAA
**
11510143 TATTTTTACACGTTATTTATTTTAAA
1 TA-TTTTACATATTATTTATTTTAAA
11510169 CCATTATATA
Statistics
Matches: 60, Mismatches: 15, Indels: 4
0.76 0.19 0.05
Matches are distributed among these distances:
25 31 0.52
26 15 0.25
27 14 0.23
ACGTcount: A:0.37, C:0.08, G:0.02, T:0.53
Consensus pattern (25 bp):
TATTTTACATATTATTTATTTTAAA
Found at i:11525052 original size:46 final size:47
Alignment explanation
Indices: 11524905--11525116 Score: 170
Period size: 46 Copynumber: 4.6 Consensus size: 47
11524895 TTATTTGTGT
* *
11524905 GCCAGTGTAAGACATGTCTGGGACATGCATCGGCCAC-ATTATG-AGA
1 GCCAGTGTAAGACATGTCTGGGACATGCATCGGCCTCGA-GATGTAGA
* *** * * *
11524951 GCCAGTGTAAGACCATATCTGGGGTGTGGCATCGGCATTGAAATG-AGA
1 GCCAGTGTAAGA-CATGTCTGGGACAT-GCATCGGCCTCGAGATGTAGA
* * *
11524999 GCTAGTGTAAGACATGTCTGGGACATGCATCAGCCTCGAGGTGTA-A
1 GCCAGTGTAAGACATGTCTGGGACATGCATCGGCCTCGAGATGTAGA
* * * *
11525045 GCCAGTGTGAGACATGTTTGGGACATGCATTGG-CTATGAGATGT---
1 GCCAGTGTAAGACATGTCTGGGACATGCATCGGCCT-CGAGATGTAGA
*
11525089 GTCAGTGTAAGACCATGTCTGGGACATG
1 GCCAGTGTAAGA-CATGTCTGGGACATG
11525117 GCATTGACTT
Statistics
Matches: 132, Mismatches: 28, Indels: 13
0.76 0.16 0.08
Matches are distributed among these distances:
44 10 0.08
45 16 0.12
46 59 0.45
47 21 0.16
48 25 0.19
49 1 0.01
ACGTcount: A:0.26, C:0.18, G:0.32, T:0.25
Consensus pattern (47 bp):
GCCAGTGTAAGACATGTCTGGGACATGCATCGGCCTCGAGATGTAGA
Found at i:11525149 original size:47 final size:46
Alignment explanation
Indices: 11525057--11525164 Score: 148
Period size: 47 Copynumber: 2.3 Consensus size: 46
11525047 CAGTGTGAGA
* * * *
11525057 CATGTTTGGGACAT-GCATTGGCTATGAGATGTGTCAGTGTAAGAC
1 CATGTCTGGGACATGGCATTGACTATGAGATGTGCCAATGTAAGAC
11525102 CATGTCTGGGACATGGCATTGACT-TGATGCATGTGCCAATGTAAGAC
1 CATGTCTGGGACATGGCATTGACTATGA-G-ATGTGCCAATGTAAGAC
11525149 CATGTCTGGGACATGG
1 CATGTCTGGGACATGG
11525165 AATCGGCATT
Statistics
Matches: 56, Mismatches: 4, Indels: 4
0.88 0.06 0.06
Matches are distributed among these distances:
45 16 0.29
46 9 0.16
47 31 0.55
ACGTcount: A:0.24, C:0.17, G:0.31, T:0.29
Consensus pattern (46 bp):
CATGTCTGGGACATGGCATTGACTATGAGATGTGCCAATGTAAGAC
Found at i:11527934 original size:18 final size:19
Alignment explanation
Indices: 11527905--11527944 Score: 64
Period size: 18 Copynumber: 2.2 Consensus size: 19
11527895 AAGTTTTGTT
*
11527905 TTTATCTTTATTTTATTTA
1 TTTATCTTTATTTTACTTA
11527924 TTTAT-TTTATTTTACTTA
1 TTTATCTTTATTTTACTTA
11527942 TTT
1 TTT
11527945 TTATTATTAA
Statistics
Matches: 20, Mismatches: 1, Indels: 1
0.91 0.05 0.05
Matches are distributed among these distances:
18 15 0.75
19 5 0.25
ACGTcount: A:0.20, C:0.05, G:0.00, T:0.75
Consensus pattern (19 bp):
TTTATCTTTATTTTACTTA
Found at i:11527989 original size:45 final size:47
Alignment explanation
Indices: 11527939--11528044 Score: 118
Period size: 46 Copynumber: 2.4 Consensus size: 47
11527929 TTTATTTTAC
*
11527939 TTATTTTTATTAT-TA-ATTTTAAAAAATTTAAA-ATGAATATTTGAAA
1 TTATTTTTATAATATATATTTTAAAAAATTTAAATAT-AAT-TTTGAAA
* *
11527985 -TA-TTTTATAATATATATTTTTAAAATTTTAAATATAATTTTGAAA
1 TTATTTTTATAATATATATTTTAAAAAATTTAAATATAATTTTGAAA
11528030 TTATTTTT-TAA-ATAT
1 TTATTTTTATAATATAT
11528045 TAAATATATA
Statistics
Matches: 52, Mismatches: 3, Indels: 11
0.79 0.05 0.17
Matches are distributed among these distances:
44 8 0.15
45 15 0.29
46 23 0.44
47 6 0.12
ACGTcount: A:0.43, C:0.00, G:0.03, T:0.54
Consensus pattern (47 bp):
TTATTTTTATAATATATATTTTAAAAAATTTAAATATAATTTTGAAA
Found at i:11528035 original size:23 final size:22
Alignment explanation
Indices: 11527952--11528036 Score: 77
Period size: 23 Copynumber: 3.8 Consensus size: 22
11527942 TTTTTATTAT
* *
11527952 TAATTTT-AAAAAATTTAAA-A
1 TAATTTTGAAATATTTTAAATA
11527972 TGAATATTTGAAATATTTTATAATA
1 T-AAT-TTTGAAATATTTTA-AATA
*
11527997 TATATTTTTAAA-ATTTTAAATA
1 TA-ATTTTGAAATATTTTAAATA
11528019 TAATTTTGAAATTATTTT
1 TAATTTTGAAA-TATTTT
11528037 TTAAATATTA
Statistics
Matches: 53, Mismatches: 4, Indels: 13
0.76 0.06 0.19
Matches are distributed among these distances:
20 1 0.02
21 11 0.21
22 9 0.17
23 19 0.36
24 9 0.17
25 4 0.08
ACGTcount: A:0.46, C:0.00, G:0.04, T:0.51
Consensus pattern (22 bp):
TAATTTTGAAATATTTTAAATA
Found at i:11528066 original size:23 final size:22
Alignment explanation
Indices: 11528031--11528074 Score: 61
Period size: 23 Copynumber: 2.0 Consensus size: 22
11528021 ATTTTGAAAT
* *
11528031 TATTTTTTAAATATTAAATATA
1 TATTTTTAAAATATAAAATATA
11528053 TATTTTTAATAATATAAAATAT
1 TATTTTTAA-AATATAAAATAT
11528075 TTAAATATTT
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
22 8 0.42
23 11 0.58
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (22 bp):
TATTTTTAAAATATAAAATATA
Found at i:11528074 original size:21 final size:21
Alignment explanation
Indices: 11528027--11528074 Score: 55
Period size: 22 Copynumber: 2.3 Consensus size: 21
11528017 TATAATTTTG
*
11528027 AAAT-TATTTTTTAAATATTA
1 AAATATATTTTTAAAATATTA
11528047 AATATATATTTTTAATAATA-TA
1 AA-ATATATTTTTAA-AATATTA
11528069 AAATAT
1 AAATAT
11528075 TTAAATATTT
Statistics
Matches: 24, Mismatches: 1, Indels: 5
0.80 0.03 0.17
Matches are distributed among these distances:
20 2 0.08
21 6 0.25
22 12 0.50
23 4 0.17
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (21 bp):
AAATATATTTTTAAAATATTA
Found at i:11528165 original size:21 final size:21
Alignment explanation
Indices: 11528126--11528166 Score: 57
Period size: 21 Copynumber: 2.0 Consensus size: 21
11528116 GTTTATAATA
*
11528126 TTTTAAATATTATTTAATTAG
1 TTTTAAATATTATTAAATTAG
11528147 TTTTATAATATT-TTAAATTA
1 TTTTA-AATATTATTAAATTA
11528167 TGATTTTTAA
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
21 12 0.67
22 6 0.33
ACGTcount: A:0.39, C:0.00, G:0.02, T:0.59
Consensus pattern (21 bp):
TTTTAAATATTATTAAATTAG
Found at i:11528492 original size:16 final size:17
Alignment explanation
Indices: 11528472--11528520 Score: 57
Period size: 16 Copynumber: 3.0 Consensus size: 17
11528462 AAAAAAGATT
*
11528472 TATTTGTTAAAAAATGA
1 TATTTATTAAAAAATGA
*
11528489 -ATTTATTTAAAAAT-A
1 TATTTATTAAAAAATGA
*
11528504 TATATATTAAAAAATGA
1 TATTTATTAAAAAATGA
11528521 GATTAAAATT
Statistics
Matches: 26, Mismatches: 4, Indels: 4
0.76 0.12 0.12
Matches are distributed among these distances:
15 1 0.04
16 24 0.92
17 1 0.04
ACGTcount: A:0.53, C:0.00, G:0.06, T:0.41
Consensus pattern (17 bp):
TATTTATTAAAAAATGA
Found at i:11529008 original size:20 final size:20
Alignment explanation
Indices: 11528985--11529049 Score: 69
Period size: 20 Copynumber: 3.2 Consensus size: 20
11528975 ATAATTTTTT
11528985 AATTTTAGTACACATTTATA
1 AATTTTAGTACACATTTATA
* * * *
11529005 AATTTATATTTCA-ATTTTTT
1 AATTT-TAGTACACATTTATA
*
11529025 AATTTTAGTACACATTCATA
1 AATTTTAGTACACATTTATA
11529045 AATTT
1 AATTT
11529050 ATGTACTTAA
Statistics
Matches: 34, Mismatches: 9, Indels: 4
0.72 0.19 0.09
Matches are distributed among these distances:
19 5 0.15
20 24 0.71
21 5 0.15
ACGTcount: A:0.37, C:0.09, G:0.03, T:0.51
Consensus pattern (20 bp):
AATTTTAGTACACATTTATA
Found at i:11533735 original size:18 final size:18
Alignment explanation
Indices: 11533712--11533752 Score: 73
Period size: 18 Copynumber: 2.3 Consensus size: 18
11533702 TTTTGCCCTA
*
11533712 TTTTTTTTAAGGTTAGGG
1 TTTTTTTAAAGGTTAGGG
11533730 TTTTTTTAAAGGTTAGGG
1 TTTTTTTAAAGGTTAGGG
11533748 TTTTT
1 TTTTT
11533753 GGTGGTTTAG
Statistics
Matches: 22, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
18 22 1.00
ACGTcount: A:0.17, C:0.00, G:0.24, T:0.59
Consensus pattern (18 bp):
TTTTTTTAAAGGTTAGGG
Found at i:11534058 original size:17 final size:17
Alignment explanation
Indices: 11534017--11534074 Score: 71
Period size: 17 Copynumber: 3.4 Consensus size: 17
11534007 AAATTAGAGC
* *
11534017 TTAGTGGTTTAGGGTTTT
1 TTAGTGGTTTA-AGATTT
*
11534035 TTGGTGGTTTAAGATTT
1 TTAGTGGTTTAAGATTT
*
11534052 TTAGTGGTTTAAGGTTT
1 TTAGTGGTTTAAGATTT
11534069 TTAGTG
1 TTAGTG
11534075 TTTTTTAAGG
Statistics
Matches: 35, Mismatches: 5, Indels: 1
0.85 0.12 0.02
Matches are distributed among these distances:
17 25 0.71
18 10 0.29
ACGTcount: A:0.16, C:0.00, G:0.31, T:0.53
Consensus pattern (17 bp):
TTAGTGGTTTAAGATTT
Found at i:11534428 original size:126 final size:126
Alignment explanation
Indices: 11534207--11534521 Score: 499
Period size: 126 Copynumber: 2.5 Consensus size: 126
11534197 TAATTACGGA
* * * *
11534207 AAAAAGCTCCCACGTGGAC-ACTTTTTTGCTATAGTAGTATCTGATAAAATAATTTTAAGAAGAT
1 AAAAAGCTCCCACGTGGACGCCCTTTTT-CTACAGTAGTATCTGATAAAATAATTTTGAGAAGAT
11534271 GTTTCTGAACAAATAGTGTCAAAAACACTTCAAGAAGGATGCACTTTCAGCAAAATTACAAG
65 GTTTCTGAACAAATAGTGTCAAAAACACTTCAAGAAGGATGCACTTTCAGCAAAATTACAAG
11534333 AAAAAGCTCCCACGTGGACGCCCTTTTTCTACAGTAGTATCTGATAAAATAATTTTGAGAAGATG
1 AAAAAGCTCCCACGTGGACGCCCTTTTTCTACAGTAGTATCTGATAAAATAATTTTGAGAAGATG
* * *
11534398 TTTCTGAACAAATAGTGTCAAAAACGCTTCAATAAGGATGCACTTTCAGCAAAATTACGAG
66 TTTCTGAACAAATAGTGTCAAAAACACTTCAAGAAGGATGCACTTTCAGCAAAATTACAAG
* * * * *
11534459 AAAAAGCT-CTACATGGACGCTCTTTTGCTACAGTAGTATCTAATAAAATAATTTTGAGAAGAT
1 AAAAAGCTCCCACGTGGACGCCCTTTTTCTACAGTAGTATCTGATAAAATAATTTTGAGAAGAT
11534522 ATTTAAAAGT
Statistics
Matches: 176, Mismatches: 12, Indels: 3
0.92 0.06 0.02
Matches are distributed among these distances:
125 50 0.28
126 120 0.68
127 6 0.03
ACGTcount: A:0.38, C:0.17, G:0.17, T:0.29
Consensus pattern (126 bp):
AAAAAGCTCCCACGTGGACGCCCTTTTTCTACAGTAGTATCTGATAAAATAATTTTGAGAAGATG
TTTCTGAACAAATAGTGTCAAAAACACTTCAAGAAGGATGCACTTTCAGCAAAATTACAAG
Found at i:11536315 original size:25 final size:25
Alignment explanation
Indices: 11536277--11536332 Score: 94
Period size: 25 Copynumber: 2.2 Consensus size: 25
11536267 CCTCATTAAG
11536277 GAAAAGGACAGGCTTCTGGGAGATA
1 GAAAAGGACAGGCTTCTGGGAGATA
*
11536302 GAAAAGGACTGGCTTCTGGGAGATA
1 GAAAAGGACAGGCTTCTGGGAGATA
*
11536327 AAAAAG
1 GAAAAG
11536333 TACAAAGGTT
Statistics
Matches: 29, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
25 29 1.00
ACGTcount: A:0.39, C:0.11, G:0.34, T:0.16
Consensus pattern (25 bp):
GAAAAGGACAGGCTTCTGGGAGATA
Found at i:11538728 original size:18 final size:18
Alignment explanation
Indices: 11538702--11538744 Score: 59
Period size: 18 Copynumber: 2.4 Consensus size: 18
11538692 GACTGGGAAA
* *
11538702 AGGAAACATAAAAGGGTT
1 AGGATACATAAAAGGGCT
*
11538720 AGGATACATATAAGGGCT
1 AGGATACATAAAAGGGCT
11538738 AGGATAC
1 AGGATAC
11538745 GCACTTGGCA
Statistics
Matches: 22, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
18 22 1.00
ACGTcount: A:0.44, C:0.09, G:0.28, T:0.19
Consensus pattern (18 bp):
AGGATACATAAAAGGGCT
Found at i:11538864 original size:30 final size:31
Alignment explanation
Indices: 11538799--11538864 Score: 80
Period size: 30 Copynumber: 2.2 Consensus size: 31
11538789 TTGAAGTGTT
* ** * *
11538799 GGCCCAGGTGGTTGTGTGGGTGCTGTTGATT
1 GGCCCAGGTGATTGTGTGGGCACTGCTGATG
11538830 GGCCCA-GTGATTGTGTGGGCACTGCTGATG
1 GGCCCAGGTGATTGTGTGGGCACTGCTGATG
11538860 GGCCC
1 GGCCC
11538865 GTGTCGTCAT
Statistics
Matches: 30, Mismatches: 5, Indels: 1
0.83 0.14 0.03
Matches are distributed among these distances:
30 24 0.80
31 6 0.20
ACGTcount: A:0.09, C:0.20, G:0.42, T:0.29
Consensus pattern (31 bp):
GGCCCAGGTGATTGTGTGGGCACTGCTGATG
Found at i:11540461 original size:11 final size:11
Alignment explanation
Indices: 11540417--11540462 Score: 51
Period size: 11 Copynumber: 4.4 Consensus size: 11
11540407 CTTTAACAAA
*
11540417 AATTGAGAGA-
1 AATTTAGAGAG
11540427 AATTT-GAGAG
1 AATTTAGAGAG
* *
11540437 AATTTGGAAAG
1 AATTTAGAGAG
11540448 AATTTAGAGAG
1 AATTTAGAGAG
11540459 AATT
1 AATT
11540463 GTTGTGAGAG
Statistics
Matches: 30, Mismatches: 4, Indels: 3
0.81 0.11 0.08
Matches are distributed among these distances:
9 4 0.13
10 9 0.30
11 17 0.57
ACGTcount: A:0.46, C:0.00, G:0.26, T:0.28
Consensus pattern (11 bp):
AATTTAGAGAG
Found at i:11541083 original size:17 final size:16
Alignment explanation
Indices: 11541058--11541127 Score: 59
Period size: 17 Copynumber: 3.9 Consensus size: 16
11541048 ACATGTAGCA
11541058 AAAAATTATAAATAAAT
1 AAAAATTATAAA-AAAT
*
11541075 AAAAGTTATAAAAAAT
1 AAAAATTATAAAAAAT
11541091 ATTAAATATTAATAAAAATATT
1 A--AAA-ATT-ATAAAAA-A-T
*
11541113 AAAAAGTATAAAAAA
1 AAAAATTATAAAAAA
11541128 ATTTGTAAAA
Statistics
Matches: 44, Mismatches: 3, Indels: 12
0.75 0.05 0.20
Matches are distributed among these distances:
16 5 0.11
17 12 0.27
18 10 0.23
19 4 0.09
20 10 0.23
21 1 0.02
22 2 0.05
ACGTcount: A:0.69, C:0.00, G:0.03, T:0.29
Consensus pattern (16 bp):
AAAAATTATAAAAAAT
Found at i:11541126 original size:19 final size:19
Alignment explanation
Indices: 11541075--11541127 Score: 63
Period size: 19 Copynumber: 2.7 Consensus size: 19
11541065 ATAAATAAAT
11541075 AAAAGTTATAAAAAATATTA
1 AAAAG-TATAAAAAATATTA
* *
11541095 AATATTA-ATAAAAATATTA
1 AAAAGTATA-AAAAATATTA
11541114 AAAAGTATAAAAAA
1 AAAAGTATAAAAAA
11541128 ATTTGTAAAA
Statistics
Matches: 27, Mismatches: 4, Indels: 5
0.75 0.11 0.14
Matches are distributed among these distances:
18 1 0.04
19 22 0.81
20 4 0.15
ACGTcount: A:0.68, C:0.00, G:0.04, T:0.28
Consensus pattern (19 bp):
AAAAGTATAAAAAATATTA
Found at i:11541217 original size:29 final size:29
Alignment explanation
Indices: 11541184--11541243 Score: 111
Period size: 29 Copynumber: 2.1 Consensus size: 29
11541174 TTAACTATTA
*
11541184 ACTTAAGTCGTTGATCGTTAAAGTTAACG
1 ACTTAAGCCGTTGATCGTTAAAGTTAACG
11541213 ACTTAAGCCGTTGATCGTTAAAGTTAACG
1 ACTTAAGCCGTTGATCGTTAAAGTTAACG
11541242 AC
1 AC
11541244 CCTCAATTTT
Statistics
Matches: 30, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
29 30 1.00
ACGTcount: A:0.32, C:0.17, G:0.20, T:0.32
Consensus pattern (29 bp):
ACTTAAGCCGTTGATCGTTAAAGTTAACG
Found at i:11541386 original size:10 final size:10
Alignment explanation
Indices: 11541367--11541550 Score: 66
Period size: 10 Copynumber: 18.9 Consensus size: 10
11541357 TTTTAATACA
11541367 ATAA-TTTTT
1 ATAATTTTTT
11541376 ATAATTTTTT
1 ATAATTTTTT
* *
11541386 AAGAATTTTGT
1 -ATAATTTTTT
*
11541397 AT--TTCTTT
1 ATAATTTTTT
*
11541405 A-CATTTTTT
1 ATAATTTTTT
*
11541414 ATAATTTTCT
1 ATAATTTTTT
****
11541424 -TACGGCTTT
1 ATAATTTTTT
**
11541433 ATAAAATTTT
1 ATAATTTTTT
11541443 ATATATTTTTT
1 ATA-ATTTTTT
*
11541454 AT-ATATTTCT
1 ATAAT-TTTTT
*
11541464 AT-ATATTTT
1 ATAATTTTTT
11541473 AT-ATATTTTT
1 ATAAT-TTTTT
*
11541483 ACAATTTTTT
1 ATAATTTTTT
11541493 ATAAATTTTTT
1 AT-AATTTTTT
11541504 ATAA--TTTT
1 ATAATTTTTT
*
11541512 ATATTTTTTT
1 ATAATTTTTT
* *
11541522 CTAA-ATTTT
1 ATAATTTTTT
*
11541531 AAATATTTTTT
1 ATA-ATTTTTT
*
11541542 ATAGTTTTT
1 ATAATTTTT
11541551 AAATTTTAAA
Statistics
Matches: 126, Mismatches: 34, Indels: 29
0.67 0.18 0.15
Matches are distributed among these distances:
8 12 0.10
9 28 0.22
10 53 0.42
11 33 0.26
ACGTcount: A:0.30, C:0.04, G:0.03, T:0.63
Consensus pattern (10 bp):
ATAATTTTTT
Found at i:11541455 original size:11 final size:10
Alignment explanation
Indices: 11541439--11541551 Score: 92
Period size: 10 Copynumber: 11.5 Consensus size: 10
11541429 CTTTATAAAA
11541439 TTTTATATATT
1 TTTTATATA-T
11541450 TTTTATATAT
1 TTTTATATAT
*
11541460 TTCTATATA-
1 TTTTATATAT
11541469 TTTTATATAT
1 TTTTATATAT
*
11541479 TTTTACA-ATT
1 TTTTATATA-T
*
11541489 TTTTATAAAT
1 TTTTATATAT
*
11541499 TTTT-TATAA
1 TTTTATATAT
*
11541508 TTTTATATTT
1 TTTTATATAT
* *
11541518 TTTTCTA-AA
1 TTTTATATAT
*
11541527 TTTTAAATAT
1 TTTTATATAT
11541537 TTTT-TATAGT
1 TTTTATATA-T
11541547 TTTTA
1 TTTTA
11541552 AATTTTAAAA
Statistics
Matches: 80, Mismatches: 15, Indels: 14
0.73 0.14 0.13
Matches are distributed among these distances:
9 24 0.30
10 46 0.57
11 10 0.12
ACGTcount: A:0.30, C:0.03, G:0.01, T:0.66
Consensus pattern (10 bp):
TTTTATATAT
Found at i:11541456 original size:9 final size:9
Alignment explanation
Indices: 11541438--11541557 Score: 78
Period size: 9 Copynumber: 12.6 Consensus size: 9
11541428 GCTTTATAAA
*
11541438 ATTTTATAT
1 ATTTTTTAT
11541447 ATTTTTTAT
1 ATTTTTTAT
*
11541456 ATATTTCTAT
1 AT-TTTTTAT
*
11541466 ATATTTTAT
1 ATTTTTTAT
*
11541475 ATATTTTTACA
1 AT-TTTTTA-T
11541486 ATTTTTTAT
1 ATTTTTTAT
11541495 AAATTTTTTAT
1 --ATTTTTTAT
*
11541506 AATTTTATAT
1 -ATTTTTTAT
* *
11541516 TTTTTTCTAA
1 ATTTTT-TAT
**
11541526 ATTTTAAAT
1 ATTTTTTAT
11541535 ATTTTTTAT
1 ATTTTTTAT
* *
11541544 AGTTTTTAA
1 ATTTTTTAT
11541553 ATTTT
1 ATTTT
11541558 AAAAATGTTA
Statistics
Matches: 85, Mismatches: 20, Indels: 12
0.73 0.17 0.10
Matches are distributed among these distances:
9 40 0.47
10 34 0.40
11 11 0.13
ACGTcount: A:0.31, C:0.03, G:0.01, T:0.66
Consensus pattern (9 bp):
ATTTTTTAT
Found at i:11541472 original size:19 final size:19
Alignment explanation
Indices: 11541438--11541549 Score: 93
Period size: 19 Copynumber: 5.8 Consensus size: 19
11541428 GCTTTATAAA
*
11541438 ATTTTATATATTTTTTATAT
1 ATTTT-TATATATTTTATAT
*
11541458 ATTTCTATATATTTTATAT
1 ATTTTTATATATTTTATAT
* * *
11541477 ATTTTTACAATTTTTTATAA
1 ATTTTTA-TATATTTTATAT
11541497 ATTTTT-TATAATTTTATAT
1 ATTTTTATAT-ATTTTATAT
* * * *
11541516 TTTTTTCTAAATTTTAAAT
1 ATTTTTATATATTTTATAT
11541535 ATTTTT-TATAGTTTT
1 ATTTTTATATA-TTTT
11541550 TAAATTTTAA
Statistics
Matches: 74, Mismatches: 14, Indels: 9
0.76 0.14 0.09
Matches are distributed among these distances:
18 5 0.07
19 48 0.65
20 21 0.28
ACGTcount: A:0.30, C:0.03, G:0.01, T:0.66
Consensus pattern (19 bp):
ATTTTTATATATTTTATAT
Found at i:11541495 original size:29 final size:29
Alignment explanation
Indices: 11541430--11541540 Score: 107
Period size: 29 Copynumber: 3.8 Consensus size: 29
11541420 TTCTTACGGC
*
11541430 TTTATAAAATTTTATATATTTTTTA-TATATT
1 TTTAT-AAATTTTATATA-TTTTTACAAT-TT
* *
11541461 TCTATATATTTTATATATTTTTACAATTT
1 TTTATAAATTTTATATATTTTTACAATTT
* * * *
11541490 TTTATAAATTTTTTATAATTTTATATTTT
1 TTTATAAATTTTATATATTTTTACAATTT
* *
11541519 TTTCTAAATTTTAAATATTTTT
1 TTTATAAATTTTATATATTTTT
11541541 TATAGTTTTT
Statistics
Matches: 66, Mismatches: 13, Indels: 4
0.80 0.16 0.05
Matches are distributed among these distances:
29 49 0.74
30 13 0.20
31 4 0.06
ACGTcount: A:0.32, C:0.03, G:0.00, T:0.65
Consensus pattern (29 bp):
TTTATAAATTTTATATATTTTTACAATTT
Found at i:11542927 original size:30 final size:30
Alignment explanation
Indices: 11542881--11543004 Score: 194
Period size: 30 Copynumber: 4.1 Consensus size: 30
11542871 TTTTATTATG
*
11542881 CCAATATCTCGATACCCATATCTTTGACTTT
1 CCAATAT-TTGATACCCATATCTTTGACTTT
11542912 CCAATATTTGATACCCATATCTTTGACTTT
1 CCAATATTTGATACCCATATCTTTGACTTT
11542942 CCAATATTTGATACCCATATCTTTGACTTT
1 CCAATATTTGATACCCATATCTTTGACTTT
** * *
11542972 TTATTATTTGATACCCATATCTTTGATTTT
1 CCAATATTTGATACCCATATCTTTGACTTT
11543002 CCA
1 CCA
11543005 TAAATATGGA
Statistics
Matches: 86, Mismatches: 7, Indels: 1
0.91 0.07 0.01
Matches are distributed among these distances:
30 79 0.92
31 7 0.08
ACGTcount: A:0.26, C:0.23, G:0.06, T:0.44
Consensus pattern (30 bp):
CCAATATTTGATACCCATATCTTTGACTTT
Found at i:11542936 original size:15 final size:15
Alignment explanation
Indices: 11542891--11542998 Score: 69
Period size: 15 Copynumber: 7.2 Consensus size: 15
11542881 CCAATATCTC
11542891 GATACCCATATCTTT
1 GATACCCATATCTTT
** *
11542906 GACTTTCCA-ATATTT
1 GA-TACCCATATCTTT
11542921 GATACCCATATCTTT
1 GATACCCATATCTTT
** *
11542936 GACTTTCCA-ATATTT
1 GA-TACCCATATCTTT
11542951 GATACCCATATCTTT
1 GATACCCATATCTTT
**** *
11542966 GACTTTTTAT-TATTT
1 GA-TACCCATATCTTT
11542981 GATACCCATATCTTT
1 GATACCCATATCTTT
11542996 GAT
1 GAT
11542999 TTTCCATAAA
Statistics
Matches: 65, Mismatches: 22, Indels: 12
0.66 0.22 0.12
Matches are distributed among these distances:
14 11 0.17
15 43 0.66
16 11 0.17
ACGTcount: A:0.26, C:0.21, G:0.07, T:0.45
Consensus pattern (15 bp):
GATACCCATATCTTT
Found at i:11544686 original size:21 final size:21
Alignment explanation
Indices: 11544656--11544697 Score: 75
Period size: 21 Copynumber: 2.0 Consensus size: 21
11544646 ATCAACTCAA
11544656 CTAAACCCCAATTCTTATTGT
1 CTAAACCCCAATTCTTATTGT
*
11544677 CTAAATCCCAATTCTTATTGT
1 CTAAACCCCAATTCTTATTGT
11544698 ATACATATCA
Statistics
Matches: 20, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
21 20 1.00
ACGTcount: A:0.29, C:0.26, G:0.05, T:0.40
Consensus pattern (21 bp):
CTAAACCCCAATTCTTATTGT
Found at i:11547970 original size:19 final size:19
Alignment explanation
Indices: 11547917--11547976 Score: 61
Period size: 19 Copynumber: 3.1 Consensus size: 19
11547907 AGAATAATAA
11547917 TAAAAATA-TTT-TTATTT
1 TAAAAATATTTTATTATTT
*
11547934 TATAAAATAAATTATATTATTT
1 TA-AAAAT--ATTTTATTATTT
*
11547956 TAAAAATATTTTATTGTTT
1 TAAAAATATTTTATTATTT
11547975 TA
1 TA
11547977 TATTTTTTTA
Statistics
Matches: 35, Mismatches: 3, Indels: 8
0.76 0.07 0.17
Matches are distributed among these distances:
17 2 0.06
18 5 0.14
19 12 0.34
20 1 0.03
21 7 0.20
22 8 0.23
ACGTcount: A:0.43, C:0.00, G:0.02, T:0.55
Consensus pattern (19 bp):
TAAAAATATTTTATTATTT
Found at i:11553416 original size:22 final size:22
Alignment explanation
Indices: 11553388--11553433 Score: 83
Period size: 22 Copynumber: 2.1 Consensus size: 22
11553378 ATCATTTTAG
11553388 TTAAAGCAGATTTAGTTGGACA
1 TTAAAGCAGATTTAGTTGGACA
*
11553410 TTAAAGCTGATTTAGTTGGACA
1 TTAAAGCAGATTTAGTTGGACA
11553432 TT
1 TT
11553434 TTCTTTCTCA
Statistics
Matches: 23, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
22 23 1.00
ACGTcount: A:0.33, C:0.09, G:0.22, T:0.37
Consensus pattern (22 bp):
TTAAAGCAGATTTAGTTGGACA
Found at i:11560380 original size:72 final size:72
Alignment explanation
Indices: 11560290--11560435 Score: 256
Period size: 72 Copynumber: 2.0 Consensus size: 72
11560280 GCCAGTAAGC
** * *
11560290 TTCAGATTCAAGTATTGTTGGTTGTTGGAAGAAAAATTACGGCCTTTAAAGCTCTCCTTTGCCAT
1 TTCAGATTCAAGTATTGTTGGTCATCGGAAGAAAAATTACAGCCTTTAAAGCTCTCCTTTGCCAT
11560355 CTCCTTA
66 CTCCTTA
11560362 TTCAGATTCAAGTATTGTTGGTCATCGGAAGAAAAATTACAGCCTTTAAAGCTCTCCTTTGCCAT
1 TTCAGATTCAAGTATTGTTGGTCATCGGAAGAAAAATTACAGCCTTTAAAGCTCTCCTTTGCCAT
11560427 CTCCTTA
66 CTCCTTA
11560434 TT
1 TT
11560436 TTTCTTCATC
Statistics
Matches: 70, Mismatches: 4, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
72 70 1.00
ACGTcount: A:0.26, C:0.21, G:0.16, T:0.37
Consensus pattern (72 bp):
TTCAGATTCAAGTATTGTTGGTCATCGGAAGAAAAATTACAGCCTTTAAAGCTCTCCTTTGCCAT
CTCCTTA
Found at i:11562169 original size:42 final size:41
Alignment explanation
Indices: 11562093--11562171 Score: 97
Period size: 42 Copynumber: 1.9 Consensus size: 41
11562083 GAATAGCTGC
* *
11562093 TTTTACTAATTTGTTACATATAAATTATTGAATTATTGACT
1 TTTTACTAATTCGTTACATATAAATTAGTGAATTATTGACT
**
11562134 TTTTACTAATTCCGTTTTATATAAATT-GTGAAATTATT
1 TTTTACTAATT-CGTTACATATAAATTAGTG-AATTATT
11562172 AATTTTCATA
Statistics
Matches: 32, Mismatches: 4, Indels: 3
0.82 0.10 0.08
Matches are distributed among these distances:
41 13 0.41
42 19 0.59
ACGTcount: A:0.33, C:0.08, G:0.08, T:0.52
Consensus pattern (41 bp):
TTTTACTAATTCGTTACATATAAATTAGTGAATTATTGACT
Found at i:11572205 original size:39 final size:39
Alignment explanation
Indices: 11572162--11572379 Score: 283
Period size: 39 Copynumber: 5.6 Consensus size: 39
11572152 GCTCTGGTGA
* *
11572162 GCTTCAGTTAGCCTTCGGGCTTCCATTTAGCACTTCTGT
1 GCTTCAGTTAGCCTTCGGGCTTCCGTTTAGCACTTATGT
* *
11572201 GCTTCAGTTAGCTTTCGGGCTTCCGTTTAGCACTTCTGT
1 GCTTCAGTTAGCCTTCGGGCTTCCGTTTAGCACTTATGT
* * *
11572240 GCTTCAGTCAGCCTTCGGGCTTCCATTTAGCACTTGTGT
1 GCTTCAGTTAGCCTTCGGGCTTCCGTTTAGCACTTATGT
* * *
11572279 GCTTCAGTTAGCGTCCAGGCTTCCGTTTAGCACTTATGT
1 GCTTCAGTTAGCCTTCGGGCTTCCGTTTAGCACTTATGT
* * **
11572318 GCTTTAGCTAAACTTCGGGCTTCCGTTTAGCACTTATGT
1 GCTTCAGTTAGCCTTCGGGCTTCCGTTTAGCACTTATGT
* **
11572357 GCTTCAGCTAAACTTCGGGCTTC
1 GCTTCAGTTAGCCTTCGGGCTTC
11572380 AGATCACGAA
Statistics
Matches: 159, Mismatches: 20, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
39 159 1.00
ACGTcount: A:0.14, C:0.27, G:0.22, T:0.37
Consensus pattern (39 bp):
GCTTCAGTTAGCCTTCGGGCTTCCGTTTAGCACTTATGT
Found at i:11572694 original size:19 final size:19
Alignment explanation
Indices: 11572670--11572708 Score: 78
Period size: 19 Copynumber: 2.1 Consensus size: 19
11572660 AAAGAATGAT
11572670 ATGTATCATGATATGTAAA
1 ATGTATCATGATATGTAAA
11572689 ATGTATCATGATATGTAAA
1 ATGTATCATGATATGTAAA
11572708 A
1 A
11572709 ACGTAATTAT
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
19 20 1.00
ACGTcount: A:0.44, C:0.05, G:0.15, T:0.36
Consensus pattern (19 bp):
ATGTATCATGATATGTAAA
Found at i:11573916 original size:20 final size:20
Alignment explanation
Indices: 11573891--11573936 Score: 65
Period size: 20 Copynumber: 2.3 Consensus size: 20
11573881 AAATTTACCT
**
11573891 AGTATCAATACCTTTAATCA
1 AGTATCAATAAATTTAATCA
*
11573911 AGTATCAATAAATTTCATCA
1 AGTATCAATAAATTTAATCA
11573931 AGTATC
1 AGTATC
11573937 GATGTAAAGA
Statistics
Matches: 23, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
20 23 1.00
ACGTcount: A:0.41, C:0.17, G:0.07, T:0.35
Consensus pattern (20 bp):
AGTATCAATAAATTTAATCA
Found at i:11576316 original size:25 final size:25
Alignment explanation
Indices: 11576286--11576336 Score: 102
Period size: 25 Copynumber: 2.0 Consensus size: 25
11576276 AACCCTTAAG
11576286 AGAAAACTCAAGAAAACTAAGGCGA
1 AGAAAACTCAAGAAAACTAAGGCGA
11576311 AGAAAACTCAAGAAAACTAAGGCGA
1 AGAAAACTCAAGAAAACTAAGGCGA
11576336 A
1 A
11576337 AACTAAAAAT
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
25 26 1.00
ACGTcount: A:0.57, C:0.16, G:0.20, T:0.08
Consensus pattern (25 bp):
AGAAAACTCAAGAAAACTAAGGCGA
Found at i:11578682 original size:16 final size:16
Alignment explanation
Indices: 11578661--11578693 Score: 57
Period size: 16 Copynumber: 2.1 Consensus size: 16
11578651 TAATGATATT
*
11578661 TTTTATTTTTAAATAA
1 TTTTATTTTAAAATAA
11578677 TTTTATTTTAAAATAA
1 TTTTATTTTAAAATAA
11578693 T
1 T
11578694 AAGATTTAAA
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
16 16 1.00
ACGTcount: A:0.39, C:0.00, G:0.00, T:0.61
Consensus pattern (16 bp):
TTTTATTTTAAAATAA
Done.