Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: At_chr6
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: 56482370
ACGTcount: A:0.32, C:0.17, G:0.17, T:0.32
Warning! 1659275 characters in sequence are not A, C, G, or T
File 164 of 172
Found at i:53628148 original size:11 final size:11
Alignment explanation
Indices: 53628120--53628158 Score: 55
Period size: 11 Copynumber: 3.7 Consensus size: 11
53628110 TTGTTTTTTC
53628120 TTTTTT-TC-T
1 TTTTTTCTCTT
*
53628129 TTTTCTCTCTT
1 TTTTTTCTCTT
53628140 TTTTTTCTCTT
1 TTTTTTCTCTT
53628151 TTTTTTCT
1 TTTTTTCT
53628159 GCTGGGCTGG
Statistics
Matches: 26, Mismatches: 2, Indels: 2
0.87 0.07 0.07
Matches are distributed among these distances:
9 5 0.19
10 2 0.08
11 19 0.73
ACGTcount: A:0.00, C:0.18, G:0.00, T:0.82
Consensus pattern (11 bp):
TTTTTTCTCTT
Found at i:53628304 original size:23 final size:24
Alignment explanation
Indices: 53628275--53628328 Score: 101
Period size: 23 Copynumber: 2.3 Consensus size: 24
53628265 CTGCATTTGG
53628275 GCTGCTTCTTTCTTCTTCTTTTTT
1 GCTGCTTCTTTCTTCTTCTTTTTT
53628299 -CTGCTTCTTTCTTCTTCTTTTTT
1 GCTGCTTCTTTCTTCTTCTTTTTT
53628322 GCTGCTT
1 GCTGCTT
53628329 TTTTTTTGCT
Statistics
Matches: 29, Mismatches: 0, Indels: 2
0.94 0.00 0.06
Matches are distributed among these distances:
23 23 0.79
24 6 0.21
ACGTcount: A:0.00, C:0.26, G:0.09, T:0.65
Consensus pattern (24 bp):
GCTGCTTCTTTCTTCTTCTTTTTT
Found at i:53628305 original size:13 final size:13
Alignment explanation
Indices: 53628283--53628339 Score: 52
Period size: 13 Copynumber: 4.7 Consensus size: 13
53628273 GGGCTGCTTC
*
53628283 TTTCTTCTTCTTT
1 TTTCTGCTTCTTT
53628296 TTTCTGCTTC---
1 TTTCTGCTTCTTT
*
53628306 TTTCTTCTTCTTT
1 TTTCTGCTTCTTT
53628319 TTTGCTGCTT-TTT
1 TTT-CTGCTTCTTT
53628332 TTT-TGCTT
1 TTTCTGCTT
53628340 TGGTTTTTTT
Statistics
Matches: 37, Mismatches: 3, Indels: 10
0.74 0.06 0.20
Matches are distributed among these distances:
10 9 0.24
11 5 0.14
13 18 0.49
14 5 0.14
ACGTcount: A:0.00, C:0.21, G:0.07, T:0.72
Consensus pattern (13 bp):
TTTCTGCTTCTTT
Found at i:53628338 original size:11 final size:11
Alignment explanation
Indices: 53628293--53628340 Score: 51
Period size: 11 Copynumber: 4.2 Consensus size: 11
53628283 TTTCTTCTTC
53628293 TTTTTTCTGCT
1 TTTTTTCTGCT
*
53628304 TCTTTCTTCTTCT
1 T-TTT-TTCTGCT
*
53628317 TTTTTGCTGCT
1 TTTTTTCTGCT
*
53628328 TTTTTTTTGCT
1 TTTTTTCTGCT
53628339 TT
1 TT
53628341 GGTTTTTTTT
Statistics
Matches: 30, Mismatches: 5, Indels: 4
0.77 0.13 0.10
Matches are distributed among these distances:
11 17 0.57
12 6 0.20
13 7 0.23
ACGTcount: A:0.00, C:0.19, G:0.08, T:0.73
Consensus pattern (11 bp):
TTTTTTCTGCT
Found at i:53628449 original size:9 final size:9
Alignment explanation
Indices: 53628437--53628480 Score: 52
Period size: 9 Copynumber: 4.8 Consensus size: 9
53628427 TTTTTTATTT
53628437 TTTTCTTTC
1 TTTTCTTTC
*
53628446 TTTTTTTTC
1 TTTTCTTTC
* *
53628455 TTTCCCTTTT
1 TTT-TCTTTC
53628465 TTTTCTTTC
1 TTTTCTTTC
53628474 TTTTCTT
1 TTTTCTT
53628481 CTTCTTCCTT
Statistics
Matches: 28, Mismatches: 6, Indels: 2
0.78 0.17 0.06
Matches are distributed among these distances:
9 22 0.79
10 6 0.21
ACGTcount: A:0.00, C:0.20, G:0.00, T:0.80
Consensus pattern (9 bp):
TTTTCTTTC
Found at i:53628452 original size:13 final size:13
Alignment explanation
Indices: 53628434--53628477 Score: 70
Period size: 13 Copynumber: 3.2 Consensus size: 13
53628424 TTATTTTTTA
53628434 TTTTTTTCTTTCT
1 TTTTTTTCTTTCT
53628447 TTTTTTTCTTTCCCT
1 TTTTTTTCTTT--CT
53628462 TTTTTTTCTTTCT
1 TTTTTTTCTTTCT
53628475 TTT
1 TTT
53628478 CTTCTTCTTC
Statistics
Matches: 29, Mismatches: 0, Indels: 4
0.88 0.00 0.12
Matches are distributed among these distances:
13 16 0.55
15 13 0.45
ACGTcount: A:0.00, C:0.18, G:0.00, T:0.82
Consensus pattern (13 bp):
TTTTTTTCTTTCT
Found at i:53628463 original size:15 final size:14
Alignment explanation
Indices: 53628434--53628490 Score: 66
Period size: 15 Copynumber: 4.1 Consensus size: 14
53628424 TTATTTTTTA
53628434 TTTTTTTCTTT-CT
1 TTTTTTTCTTTCCT
53628447 TTTTTTTCTTTCCCT
1 TTTTTTTCTTT-CCT
53628462 TTTTTTTCTTT-CT
1 TTTTTTTCTTTCCT
53628475 TTTCTTCTTC-TTCCT
1 TTT-TT-TTCTTTCCT
53628490 T
1 T
53628491 CCCTATTTCG
Statistics
Matches: 39, Mismatches: 0, Indels: 8
0.83 0.00 0.17
Matches are distributed among these distances:
13 16 0.41
14 4 0.10
15 19 0.49
ACGTcount: A:0.00, C:0.23, G:0.00, T:0.77
Consensus pattern (14 bp):
TTTTTTTCTTTCCT
Found at i:53628479 original size:33 final size:33
Alignment explanation
Indices: 53628428--53628494 Score: 82
Period size: 33 Copynumber: 2.0 Consensus size: 33
53628418 GATATATTAT
* * * *
53628428 TTTTTATTTTTTTCTTTCTTTTTTTTCTTTCCC
1 TTTTTATTTCTTTCTTTCTTCTTCTTCCTTCCC
53628461 TTTTT-TTTCTTTCTTTTCTTCTTCTTCCTTCCC
1 TTTTTATTTCTTTC-TTTCTTCTTCTTCCTTCCC
53628494 T
1 T
53628495 ATTTCGGCTC
Statistics
Matches: 29, Mismatches: 4, Indels: 2
0.83 0.11 0.06
Matches are distributed among these distances:
32 7 0.24
33 22 0.76
ACGTcount: A:0.01, C:0.24, G:0.00, T:0.75
Consensus pattern (33 bp):
TTTTTATTTCTTTCTTTCTTCTTCTTCCTTCCC
Found at i:53628882 original size:29 final size:29
Alignment explanation
Indices: 53628849--53628965 Score: 94
Period size: 30 Copynumber: 3.9 Consensus size: 29
53628839 TGTAATTTTT
*
53628849 AGAAAATTTAGGATTAAAATGAAATTTAA
1 AGAAAATTTAGGGTTAAAATGAAATTTAA
* * *
53628878 TGAAAGTTTAGGGGTCT-AAGTGAAATTTAA
1 AGAAAATTTA-GGGT-TAAAATGAAATTTAA
* *
53628908 AGAAAGTTTAAGGGTCAAAATGAAATTT-A
1 AGAAAATTT-AGGGTTAAAATGAAATTTAA
* * *
53628937 GGAAAAGTTTAGGGGTCAAAATGCAATTT
1 AGAAAA-TTTA-GGGTTAAAATGAAATTT
53628966 TTATTTTTTN
Statistics
Matches: 72, Mismatches: 10, Indels: 11
0.77 0.11 0.12
Matches are distributed among these distances:
29 14 0.19
30 56 0.78
31 2 0.03
ACGTcount: A:0.44, C:0.03, G:0.22, T:0.30
Consensus pattern (29 bp):
AGAAAATTTAGGGTTAAAATGAAATTTAA
Found at i:53628904 original size:30 final size:30
Alignment explanation
Indices: 53628864--53628965 Score: 134
Period size: 30 Copynumber: 3.4 Consensus size: 30
53628854 ATTTAGGATT
*
53628864 AAAATGAAATTTAATGAAAGTTTAGGGGTC
1 AAAATGAAATTTAAAGAAAGTTTAGGGGTC
* * *
53628894 TAAGTGAAATTTAAAGAAAGTTTAAGGGTC
1 AAAATGAAATTTAAAGAAAGTTTAGGGGTC
*
53628924 AAAATGAAATTT-AGGAAAAGTTTAGGGGTC
1 AAAATGAAATTTAAAG-AAAGTTTAGGGGTC
*
53628954 AAAATGCAATTT
1 AAAATGAAATTT
53628966 TTATTTTTTN
Statistics
Matches: 62, Mismatches: 9, Indels: 2
0.85 0.12 0.03
Matches are distributed among these distances:
29 2 0.03
30 60 0.97
ACGTcount: A:0.44, C:0.04, G:0.23, T:0.29
Consensus pattern (30 bp):
AAAATGAAATTTAAAGAAAGTTTAGGGGTC
Found at i:53644584 original size:14 final size:14
Alignment explanation
Indices: 53644561--53644596 Score: 56
Period size: 14 Copynumber: 2.6 Consensus size: 14
53644551 CTGCTGCTTC
*
53644561 TTTCTTCTTCTTTT
1 TTTCTGCTTCTTTT
53644575 TTTCTGCTTCTTTT
1 TTTCTGCTTCTTTT
53644589 TTT-TGCTT
1 TTTCTGCTT
53644597 TGTTTTTTTT
Statistics
Matches: 21, Mismatches: 1, Indels: 1
0.91 0.04 0.04
Matches are distributed among these distances:
13 5 0.24
14 16 0.76
ACGTcount: A:0.00, C:0.19, G:0.06, T:0.75
Consensus pattern (14 bp):
TTTCTGCTTCTTTT
Found at i:53644602 original size:14 final size:13
Alignment explanation
Indices: 53644567--53644607 Score: 55
Period size: 14 Copynumber: 3.0 Consensus size: 13
53644557 CTTCTTTCTT
53644567 CTTCTTTTTTTCTG
1 CTTCTTTTTTT-TG
53644581 CTTCTTTTTTTTG
1 CTTCTTTTTTTTG
*
53644594 CTTTGTTTTTTTTG
1 C-TTCTTTTTTTTG
53644608 GGCTGGCCTG
Statistics
Matches: 25, Mismatches: 1, Indels: 2
0.89 0.04 0.07
Matches are distributed among these distances:
13 3 0.12
14 22 0.88
ACGTcount: A:0.00, C:0.15, G:0.10, T:0.76
Consensus pattern (13 bp):
CTTCTTTTTTTTG
Found at i:53645180 original size:30 final size:30
Alignment explanation
Indices: 53645131--53645232 Score: 125
Period size: 30 Copynumber: 3.4 Consensus size: 30
53645121 ATTTAGGATT
* *
53645131 AAAATGAAATATAATGAAAGTTTAAGGGTC
1 AAAATGAAATTTAAAGAAAGTTTAAGGGTC
* *
53645161 TAAGTGAAATTTAAAGAAAGTTTAAGGGTC
1 AAAATGAAATTTAAAGAAAGTTTAAGGGTC
* *
53645191 AAAATGAAATTT-AGGAAAAGTTTAGGGGTC
1 AAAATGAAATTTAAAG-AAAGTTTAAGGGTC
*
53645221 AAAATGCAATTT
1 AAAATGAAATTT
53645233 TTATTTTTTT
Statistics
Matches: 62, Mismatches: 9, Indels: 2
0.85 0.12 0.03
Matches are distributed among these distances:
29 2 0.03
30 60 0.97
ACGTcount: A:0.46, C:0.04, G:0.22, T:0.28
Consensus pattern (30 bp):
AAAATGAAATTTAAAGAAAGTTTAAGGGTC
Found at i:53650744 original size:20 final size:21
Alignment explanation
Indices: 53650712--53650761 Score: 66
Period size: 20 Copynumber: 2.4 Consensus size: 21
53650702 GTAAATGGAC
53650712 TTTGATGTTTTGGACTTATTTA
1 TTTGAT-TTTTGGACTTATTTA
**
53650734 TTT-ATTTTTGGTTTTATTTA
1 TTTGATTTTTGGACTTATTTA
53650754 TTTGATTT
1 TTTGATTT
53650762 AGTGGGCCGG
Statistics
Matches: 25, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
20 16 0.64
21 6 0.24
22 3 0.12
ACGTcount: A:0.16, C:0.02, G:0.14, T:0.68
Consensus pattern (21 bp):
TTTGATTTTTGGACTTATTTA
Found at i:53652987 original size:21 final size:21
Alignment explanation
Indices: 53652962--53653004 Score: 61
Period size: 21 Copynumber: 2.0 Consensus size: 21
53652952 AATTGAGCTT
53652962 AATTTCAACCAATT-TCACACA
1 AATTTCAACCAATTCTCA-ACA
*
53652983 AATTTCAATCAATTCTCAACA
1 AATTTCAACCAATTCTCAACA
53653004 A
1 A
53653005 TGGAAACTTT
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
21 17 0.85
22 3 0.15
ACGTcount: A:0.44, C:0.26, G:0.00, T:0.30
Consensus pattern (21 bp):
AATTTCAACCAATTCTCAACA
Found at i:53655613 original size:31 final size:31
Alignment explanation
Indices: 53655578--53655636 Score: 91
Period size: 31 Copynumber: 1.9 Consensus size: 31
53655568 GTTATTCAAT
* *
53655578 TTTTAAAAAATGAAAAATAAAAAATAAAAAA
1 TTTTAAAAAAAGAAAAAGAAAAAATAAAAAA
*
53655609 TTTTAAAAAAAGAAAAAGAAAATATAAA
1 TTTTAAAAAAAGAAAAAGAAAAAATAAA
53655637 TATAAATAAA
Statistics
Matches: 25, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
31 25 1.00
ACGTcount: A:0.73, C:0.00, G:0.05, T:0.22
Consensus pattern (31 bp):
TTTTAAAAAAAGAAAAAGAAAAAATAAAAAA
Found at i:53661729 original size:209 final size:210
Alignment explanation
Indices: 53661360--53661770 Score: 619
Period size: 209 Copynumber: 2.0 Consensus size: 210
53661350 GTTGTGTCGG
* * *
53661360 GGTACAAACAAACTAGACCAAGAGCTTTAAACTATTAATTGTTGTCTGGACGCCAAGAAAAACAA
1 GGTACAAACAAACTAGACCAAGAGCTTTAAACAAATAATTGTTGTCTAGACGCCAAGAAAAACAA
*
53661425 TCATGCGAAATTCTTAACAAGAAGCCCTCATTCATACCTCTTCATGAATTTTATCCATTAGCAAC
66 TCATGCAAAATTCTTAACAAGAAGCCCTCATTCATACCTCTTCATGAATTTTATCCATTAGCAAC
* * *
53661490 TACTTTCTCTAAGAGCAATTAGAGCTCGATTTTTCGCAACAATTTTGAGAAACTCTTCACCTATG
131 TACTTTCTCTAAAAACAATTAGAACTCGATTTTTCGCAACAATTTTGAGAAACTCTTCACCTATG
53661555 ATTATGTTGTCTTGA
196 ATTATGTTGTCTTGA
* *
53661570 GGTACAAACGAACTAGACCAAGAGCTTTAAACAAATAATTGTTGTCTAGACGCCAAGGAAAACAA
1 GGTACAAACAAACTAGACCAAGAGCTTTAAACAAATAATTGTTGTCTAGACGCCAAGAAAAACAA
* * * ** *
53661635 T-ATGCAAAATTCTTAAC-TGAAAGTCCTTATTTGTACCTCTTCATGAATTTTATCCATTAGCAG
66 TCATGCAAAATTCTTAACAAG-AAGCCCTCATTCATACCTCTTCATGAATTTTATCCATTAGCAA
* ** * *
53661698 TTACTTTCTCTAAAAACAATTAGAACTCGATTTTTCGCAACAATTTTTTGAAACTTTTCATCTAT
130 CTACTTTCTCTAAAAACAATTAGAACTCGATTTTTCGCAACAATTTTGAGAAACTCTTCACCTAT
53661763 GATTATGT
195 GATTATGT
53661771 GAAAGATTAC
Statistics
Matches: 180, Mismatches: 20, Indels: 3
0.89 0.10 0.01
Matches are distributed among these distances:
208 1 0.01
209 118 0.66
210 61 0.34
ACGTcount: A:0.35, C:0.19, G:0.13, T:0.33
Consensus pattern (210 bp):
GGTACAAACAAACTAGACCAAGAGCTTTAAACAAATAATTGTTGTCTAGACGCCAAGAAAAACAA
TCATGCAAAATTCTTAACAAGAAGCCCTCATTCATACCTCTTCATGAATTTTATCCATTAGCAAC
TACTTTCTCTAAAAACAATTAGAACTCGATTTTTCGCAACAATTTTGAGAAACTCTTCACCTATG
ATTATGTTGTCTTGA
Found at i:53679906 original size:18 final size:18
Alignment explanation
Indices: 53679883--53679943 Score: 86
Period size: 18 Copynumber: 3.4 Consensus size: 18
53679873 TACGACCATT
*
53679883 TACAGTACTATTCATGTA
1 TACAGTACTATTCACGTA
* *
53679901 TACAGTATTATTTACGTA
1 TACAGTACTATTCACGTA
*
53679919 TACAGTACTGTTCACGTA
1 TACAGTACTATTCACGTA
53679937 TACAGTA
1 TACAGTA
53679944 GTTGAGATTG
Statistics
Matches: 37, Mismatches: 6, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
18 37 1.00
ACGTcount: A:0.33, C:0.16, G:0.13, T:0.38
Consensus pattern (18 bp):
TACAGTACTATTCACGTA
Found at i:53683796 original size:17 final size:18
Alignment explanation
Indices: 53683763--53683797 Score: 54
Period size: 17 Copynumber: 2.0 Consensus size: 18
53683753 AGAGCAGGGG
*
53683763 AAAGAAAGGAGGGAAAAA
1 AAAGAAAGGAAGGAAAAA
53683781 AAAGAAA-GAAGGAAAAA
1 AAAGAAAGGAAGGAAAAA
53683798 GGGAAAAATT
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
17 9 0.56
18 7 0.44
ACGTcount: A:0.71, C:0.00, G:0.29, T:0.00
Consensus pattern (18 bp):
AAAGAAAGGAAGGAAAAA
Found at i:53685908 original size:28 final size:27
Alignment explanation
Indices: 53685873--53685930 Score: 98
Period size: 28 Copynumber: 2.1 Consensus size: 27
53685863 TGTGTAAGAC
53685873 CATGGTTGAAAGATACCATGACAACCAT
1 CATGGTTGAAAGATACCATGACAACC-T
*
53685901 CATGGTTGAAAGATACCATGGCAACCT
1 CATGGTTGAAAGATACCATGACAACCT
53685928 CAT
1 CAT
53685931 ATGAAATGTG
Statistics
Matches: 29, Mismatches: 1, Indels: 1
0.94 0.03 0.03
Matches are distributed among these distances:
27 4 0.14
28 25 0.86
ACGTcount: A:0.36, C:0.22, G:0.19, T:0.22
Consensus pattern (27 bp):
CATGGTTGAAAGATACCATGACAACCT
Found at i:53685956 original size:46 final size:46
Alignment explanation
Indices: 53685901--53686064 Score: 222
Period size: 46 Copynumber: 3.6 Consensus size: 46
53685891 TGACAACCAT
* *
53685901 CATGGTTGAAAGATACCATGGCAACCTCATATGAAATGTGTAAGAC
1 CATGGTTGAAAGATACCATGGCAACCTGATATGAAATGTATAAGAC
* *
53685947 CATGGTTGAAAGATACCATGACAACGTGATATGAAAT-TAATAAGAC
1 CATGGTTGAAAGATACCATGGCAACCTGATATGAAATGT-ATAAGAC
* * * *
53685993 CATGGTTGAAAGATACCATGGCAACGTGACATGAAAAGAATAAGAC
1 CATGGTTGAAAGATACCATGGCAACCTGATATGAAATGTATAAGAC
* *
53686039 CATGGTTGATAGATACTATGGCAACC
1 CATGGTTGAAAGATACCATGGCAACC
53686065 AACTATTACC
Statistics
Matches: 105, Mismatches: 11, Indels: 4
0.88 0.09 0.03
Matches are distributed among these distances:
45 1 0.01
46 104 0.99
ACGTcount: A:0.40, C:0.16, G:0.22, T:0.23
Consensus pattern (46 bp):
CATGGTTGAAAGATACCATGGCAACCTGATATGAAATGTATAAGAC
Found at i:53692485 original size:23 final size:23
Alignment explanation
Indices: 53692441--53692486 Score: 58
Period size: 23 Copynumber: 2.0 Consensus size: 23
53692431 ATATTACCAT
*
53692441 TATTATTATTATGTATTAGTATA
1 TATTATTATTATGTAGTAGTATA
*
53692464 TATTTTTATTATGTACGT-GTATA
1 TATTATTATTATGTA-GTAGTATA
53692487 CCTATATATA
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
23 19 0.95
24 1 0.05
ACGTcount: A:0.30, C:0.02, G:0.11, T:0.57
Consensus pattern (23 bp):
TATTATTATTATGTAGTAGTATA
Found at i:53692753 original size:19 final size:19
Alignment explanation
Indices: 53692718--53692754 Score: 56
Period size: 19 Copynumber: 1.9 Consensus size: 19
53692708 ATATATTACC
**
53692718 TAAATATTTTAGTATTATG
1 TAAATATTTTAACATTATG
53692737 TAAATATTTTAACATTAT
1 TAAATATTTTAACATTAT
53692755 ATTATATATG
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
19 16 1.00
ACGTcount: A:0.41, C:0.03, G:0.05, T:0.51
Consensus pattern (19 bp):
TAAATATTTTAACATTATG
Found at i:53698173 original size:43 final size:43
Alignment explanation
Indices: 53698102--53698201 Score: 155
Period size: 43 Copynumber: 2.3 Consensus size: 43
53698092 TTAAAAAAAT
* **
53698102 GCCGTTAAAGGTCATGACCTTTAGCGGCGCTTTTCCCACAAAC
1 GCCGCTAAAGGTCATGACCTTTAGCGGCGCTAATCCCACAAAC
* *
53698145 GCCGCTAAATGTCATGACCTTTAGCGGCGCTAATCTCACAAAC
1 GCCGCTAAAGGTCATGACCTTTAGCGGCGCTAATCCCACAAAC
53698188 GCCGCTAAAGGTCA
1 GCCGCTAAAGGTCA
53698202 CAAAATTTTA
Statistics
Matches: 51, Mismatches: 6, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
43 51 1.00
ACGTcount: A:0.26, C:0.30, G:0.21, T:0.23
Consensus pattern (43 bp):
GCCGCTAAAGGTCATGACCTTTAGCGGCGCTAATCCCACAAAC
Found at i:53698510 original size:19 final size:19
Alignment explanation
Indices: 53698465--53698511 Score: 51
Period size: 19 Copynumber: 2.5 Consensus size: 19
53698455 TAAATATTAA
*
53698465 AATAAAAATAAAAATATAG
1 AATAAAAATAAAAATAAAG
* *
53698484 AATCAAAACT-AAAATAAAT
1 AAT-AAAAATAAAAATAAAG
53698503 AATAAAAAT
1 AATAAAAAT
53698512 TAGATTAAAT
Statistics
Matches: 23, Mismatches: 4, Indels: 3
0.77 0.13 0.10
Matches are distributed among these distances:
18 5 0.22
19 13 0.57
20 5 0.22
ACGTcount: A:0.72, C:0.04, G:0.02, T:0.21
Consensus pattern (19 bp):
AATAAAAATAAAAATAAAG
Found at i:53698778 original size:23 final size:23
Alignment explanation
Indices: 53698748--53698996 Score: 256
Period size: 23 Copynumber: 10.9 Consensus size: 23
53698738 AAACAAATGC
* *
53698748 CAATTTACAACATTTAAGCACTT
1 CAATTTACAGCATTTAAACACTT
53698771 CAATTTACAGCATTTAAACACTT
1 CAATTTACAGCATTTAAACACTT
*
53698794 CAATTTGCAGCACTTT-AACA-TCT
1 CAATTTACAGCA-TTTAAACACT-T
* * *
53698817 CAATTAACAACATTTATACAAC-T
1 CAATTTACAGCATTTAAAC-ACTT
* * *
53698840 CAA-TTACAACAATAAAACA-TCT
1 CAATTTACAGCATTTAAACACT-T
* **
53698862 CAATTTCCAGCAACTAAACACTT
1 CAATTTACAGCATTTAAACACTT
* * *
53698885 CAATTTGCAGTACTTAAACACTT
1 CAATTTACAGCATTTAAACACTT
* *
53698908 CAATTTACAACATTTAAACACTG
1 CAATTTACAGCATTTAAACACTT
*
53698931 CAATTTACAACATTTAAACACTT
1 CAATTTACAGCATTTAAACACTT
53698954 CAATTTACAGCATTTAAACACTT
1 CAATTTACAGCATTTAAACACTT
*
53698977 CAATTTGCAGCATTTAAACA
1 CAATTTACAGCATTTAAACA
53698997 ACAGCATCCA
Statistics
Matches: 190, Mismatches: 27, Indels: 18
0.81 0.11 0.08
Matches are distributed among these distances:
21 1 0.01
22 19 0.10
23 165 0.87
24 5 0.03
ACGTcount: A:0.41, C:0.23, G:0.04, T:0.32
Consensus pattern (23 bp):
CAATTTACAGCATTTAAACACTT
Found at i:53698863 original size:22 final size:23
Alignment explanation
Indices: 53698810--53698866 Score: 71
Period size: 22 Copynumber: 2.5 Consensus size: 23
53698800 GCAGCACTTT
* *
53698810 AACATCTCAATTAACAACATTTA
1 AACATCTCAATTAACAACAATAA
* *
53698833 TACAACTCAATT-ACAACAATAA
1 AACATCTCAATTAACAACAATAA
53698855 AACATCTCAATT
1 AACATCTCAATT
53698867 TCCAGCAACT
Statistics
Matches: 28, Mismatches: 6, Indels: 1
0.80 0.17 0.03
Matches are distributed among these distances:
22 18 0.64
23 10 0.36
ACGTcount: A:0.49, C:0.23, G:0.00, T:0.28
Consensus pattern (23 bp):
AACATCTCAATTAACAACAATAA
Found at i:53702659 original size:41 final size:40
Alignment explanation
Indices: 53702614--53702738 Score: 124
Period size: 41 Copynumber: 3.0 Consensus size: 40
53702604 TAATTTCACC
* *
53702614 TTTTGCGGCGTTTTAAAAAACAACGCCACTATAGTTTAGTT
1 TTTTGCGGCGTTTTAAAAAA-AACGCCACTATAGCTTAATT
* *
53702655 TTTTGCGGCGTTTTTGATAAAAACGCCACTATAGCTTAATT
1 TTTTGCGGCG-TTTTAAAAAAAACGCCACTATAGCTTAATT
* * *** * *
53702696 TTTTGTGGCATTTTTCCTAAAACCGCCACTATTGCTTAATT
1 TTTTGCGGC-GTTTTAAAAAAAACGCCACTATAGCTTAATT
53702737 TT
1 TT
53702739 AATTTTTTTT
Statistics
Matches: 72, Mismatches: 10, Indels: 4
0.84 0.12 0.05
Matches are distributed among these distances:
41 64 0.89
42 8 0.11
ACGTcount: A:0.26, C:0.18, G:0.15, T:0.41
Consensus pattern (40 bp):
TTTTGCGGCGTTTTAAAAAAAACGCCACTATAGCTTAATT
Found at i:53702882 original size:8 final size:8
Alignment explanation
Indices: 53702871--53702895 Score: 50
Period size: 8 Copynumber: 3.1 Consensus size: 8
53702861 ATATTAAATA
53702871 TTAGTTTT
1 TTAGTTTT
53702879 TTAGTTTT
1 TTAGTTTT
53702887 TTAGTTTT
1 TTAGTTTT
53702895 T
1 T
53702896 AAATTTTTAA
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
8 17 1.00
ACGTcount: A:0.12, C:0.00, G:0.12, T:0.76
Consensus pattern (8 bp):
TTAGTTTT
Found at i:53702886 original size:7 final size:7
Alignment explanation
Indices: 53702884--53702931 Score: 78
Period size: 7 Copynumber: 6.7 Consensus size: 7
53702874 GTTTTTTAGT
*
53702884 TTTTTAG
1 TTTTTAA
53702891 TTTTTAAA
1 TTTTT-AA
53702899 TTTTTAA
1 TTTTTAA
53702906 TTTTTAA
1 TTTTTAA
53702913 TTTTTAA
1 TTTTTAA
53702920 TTTTTAA
1 TTTTTAA
53702927 TTTTT
1 TTTTT
53702932 TTGAGCATTT
Statistics
Matches: 39, Mismatches: 1, Indels: 2
0.93 0.02 0.05
Matches are distributed among these distances:
7 33 0.85
8 6 0.15
ACGTcount: A:0.25, C:0.00, G:0.02, T:0.73
Consensus pattern (7 bp):
TTTTTAA
Found at i:53702902 original size:14 final size:14
Alignment explanation
Indices: 53702885--53702930 Score: 58
Period size: 15 Copynumber: 3.3 Consensus size: 14
53702875 TTTTTTAGTT
*
53702885 TTTTAGTTTTTAAA
1 TTTTAATTTTTAAA
*
53702899 TTTTTAATTTTTAAT
1 -TTTTAATTTTTAAA
53702914 TTTTAATTTTT-AA
1 TTTTAATTTTTAAA
53702927 TTTT
1 TTTT
53702931 TTTGAGCATT
Statistics
Matches: 28, Mismatches: 3, Indels: 2
0.85 0.09 0.06
Matches are distributed among these distances:
13 5 0.18
14 11 0.39
15 12 0.43
ACGTcount: A:0.26, C:0.00, G:0.02, T:0.72
Consensus pattern (14 bp):
TTTTAATTTTTAAA
Found at i:53702950 original size:9 final size:8
Alignment explanation
Indices: 53702891--53702957 Score: 59
Period size: 7 Copynumber: 8.2 Consensus size: 8
53702881 AGTTTTTTAG
53702891 TTTTTAAA
1 TTTTTAAA
53702899 TTTTT-AA
1 TTTTTAAA
53702906 TTTTT-AA
1 TTTTTAAA
53702913 TTTTT-AA
1 TTTTTAAA
*
53702920 TTTTTAATT
1 TTTTTAA-A
*
53702929 TTTTTGAGCA
1 TTTTT-A-AA
53702939 TTTTTATAA
1 TTTTTA-AA
53702948 TTTTTAAA
1 TTTTTAAA
53702956 TT
1 TT
53702958 ATCATATTAA
Statistics
Matches: 50, Mismatches: 5, Indels: 8
0.79 0.08 0.13
Matches are distributed among these distances:
7 21 0.42
8 10 0.20
9 13 0.26
10 6 0.12
ACGTcount: A:0.28, C:0.01, G:0.03, T:0.67
Consensus pattern (8 bp):
TTTTTAAA
Found at i:53703594 original size:14 final size:14
Alignment explanation
Indices: 53703572--53703616 Score: 65
Period size: 14 Copynumber: 3.2 Consensus size: 14
53703562 TCATACACTT
53703572 TAAACCCTAAA-TAA
1 TAAACCCTAAACT-A
*
53703586 TATACCCTAAACTA
1 TAAACCCTAAACTA
53703600 TAAACCCTAAACTA
1 TAAACCCTAAACTA
53703614 TAA
1 TAA
53703617 TGATAATTAA
Statistics
Matches: 28, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
14 27 0.96
15 1 0.04
ACGTcount: A:0.51, C:0.24, G:0.00, T:0.24
Consensus pattern (14 bp):
TAAACCCTAAACTA
Found at i:53703751 original size:14 final size:14
Alignment explanation
Indices: 53703710--53703757 Score: 53
Period size: 14 Copynumber: 3.4 Consensus size: 14
53703700 ACTAATTAAT
*
53703710 CTAAACCCTAAACTT
1 CTAAACCCTAAA-TC
*
53703725 CT-AATCCTCAAATC
1 CTAAACCCT-AAATC
53703739 CTAAACCCTAAATC
1 CTAAACCCTAAATC
53703753 CTAAA
1 CTAAA
53703758 ACATGAACCA
Statistics
Matches: 28, Mismatches: 3, Indels: 5
0.78 0.08 0.14
Matches are distributed among these distances:
14 18 0.64
15 10 0.36
ACGTcount: A:0.42, C:0.33, G:0.00, T:0.25
Consensus pattern (14 bp):
CTAAACCCTAAATC
Found at i:53703830 original size:11 final size:11
Alignment explanation
Indices: 53703814--53703845 Score: 55
Period size: 11 Copynumber: 2.9 Consensus size: 11
53703804 TAAACCCCAA
*
53703814 CCTTAAACTAC
1 CCTTAAACCAC
53703825 CCTTAAACCAC
1 CCTTAAACCAC
53703836 CCTTAAACCA
1 CCTTAAACCA
53703846 TGATCCCTAA
Statistics
Matches: 20, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
11 20 1.00
ACGTcount: A:0.38, C:0.41, G:0.00, T:0.22
Consensus pattern (11 bp):
CCTTAAACCAC
Found at i:53704107 original size:30 final size:31
Alignment explanation
Indices: 53704050--53704107 Score: 75
Period size: 31 Copynumber: 1.9 Consensus size: 31
53704040 TTTAAAATTA
*
53704050 TTTTAAAAAATAGTATTTTCATTTTTTTCAT
1 TTTTAAAAAATAGTATTTTCATGTTTTTCAT
*
53704081 TTTTAACAAATA-T-TTTTCTATGTTTTT
1 TTTTAAAAAATAGTATTTTC-ATGTTTTT
53704108 ACTTTCAAAT
Statistics
Matches: 24, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
29 5 0.21
30 8 0.33
31 11 0.46
ACGTcount: A:0.29, C:0.07, G:0.03, T:0.60
Consensus pattern (31 bp):
TTTTAAAAAATAGTATTTTCATGTTTTTCAT
Found at i:53704497 original size:116 final size:115
Alignment explanation
Indices: 53704291--53704571 Score: 411
Period size: 116 Copynumber: 2.4 Consensus size: 115
53704281 TTTTATAAAG
* *
53704291 CGCCGCTAAAGGTGTACCTATAGCGGCGTTTTT-AATAGCGCCGCTACAGCAACTAAAAGGTCAA
1 CGCCGCTAAAGGTGTACCTATAGCGGCGTTTTTAAAAAGCGCCGCTAAAGCAACTAAAAGGTCAA
* **
53704355 TAAAAAACGATGTCGTTTTGCAAAACTCTTTTGCGGCTCTTTTTGAAAAA
66 TAAAAAACGACGTCGTTTTGCAAAACTCTTTTGCGGAACTTTTTGAAAAA
* * *
53704405 CGCCGCTAAAGGTGTACTTATAGCGGCGTTTTTCAAAAAGCGCAGCTAAAGCCACTAAAAGGTCA
1 CGCCGCTAAAGGTGTACCTATAGCGGCGTTTTT-AAAAAGCGCCGCTAAAGCAACTAAAAGGTCA
* * *
53704470 ATATAAAACGACGTCGTTTTGTAAAACTCTTTTGTGGAACTTTTTGAAAAA
65 ATAAAAAACGACGTCGTTTTGCAAAACTCTTTTGCGGAACTTTTTGAAAAA
* * *
53704521 CGCCACTATAGGTGTACCTATAGCGGCGCTTTTTAAAAAACGCCGCTAAAG
1 CGCCGCTAAAGGTGTACCTATAGCGGCG-TTTTTAAAAAGCGCCGCTAAAG
53704572 GTGTACCTAT
Statistics
Matches: 148, Mismatches: 16, Indels: 4
0.88 0.10 0.02
Matches are distributed among these distances:
114 32 0.22
116 111 0.75
117 5 0.03
ACGTcount: A:0.32, C:0.21, G:0.20, T:0.27
Consensus pattern (115 bp):
CGCCGCTAAAGGTGTACCTATAGCGGCGTTTTTAAAAAGCGCCGCTAAAGCAACTAAAAGGTCAA
TAAAAAACGACGTCGTTTTGCAAAACTCTTTTGCGGAACTTTTTGAAAAA
Found at i:53704571 original size:156 final size:154
Alignment explanation
Indices: 53704387--53704724 Score: 543
Period size: 155 Copynumber: 2.2 Consensus size: 154
53704377 AAACTCTTTT
* * * *
53704387 GCGGCTCTTTTTGAAAAACGCCGCTAAAGGTGTACTTATAGCGGCGTTTTTCAAAAAGCGCAGCT
1 GCGGCGCTTTTTAAAAAACGCCGCTAAAGGTGTACCTATAGCGACGTTTTT-AAAAAGCGCAGCT
* *
53704452 AAAGCCACTAAAAGGTCAATATAAAACGACGTCGTTTTGTAAAACTCTTTTGTGGAACTTTTTGA
65 AAAGCCACTAAAAGGTCAATATAAAACGACGTCGTTTTGTAAAACTCTTTTGCGGAACTTTCT-A
*
53704517 AAAACGCCACTATAGGTGTACCTATA
129 AAAACGCCACTAAAGGTGTACCTATA
*
53704543 GCGGCGCTTTTTAAAAAACGCCGCTAAAGGTGTACCTATAGCGACGTTTTTAAAAAGCGCCGCTA
1 GCGGCGCTTTTTAAAAAACGCCGCTAAAGGTGTACCTATAGCGACGTTTTTAAAAAGCGCAGCTA
**
53704608 AAGCCACTAAAAGGTCAATATAAAACGACGTCGTTTTGTAAAACTCTTTTGCGGCGCTTTCTAAA
66 AAGCCACTAAAAGGTCAATATAAAACGACGTCGTTTTGTAAAACTCTTTTGCGGAACTTTCTAAA
*
53704673 AACGCCGCTAAAGGTGTACCTATA
131 AACGCCACTAAAGGTGTACCTATA
*
53704697 GCGGCG-TTTTTAAAAAGCGCCGCTAAAG
1 GCGGCGCTTTTTAAAAAACGCCGCTAAAG
53704725 CCACTAAAAG
Statistics
Matches: 170, Mismatches: 12, Indels: 3
0.92 0.06 0.02
Matches are distributed among these distances:
153 21 0.12
154 31 0.18
155 71 0.42
156 47 0.28
ACGTcount: A:0.32, C:0.21, G:0.21, T:0.27
Consensus pattern (154 bp):
GCGGCGCTTTTTAAAAAACGCCGCTAAAGGTGTACCTATAGCGACGTTTTTAAAAAGCGCAGCTA
AAGCCACTAAAAGGTCAATATAAAACGACGTCGTTTTGTAAAACTCTTTTGCGGAACTTTCTAAA
AACGCCACTAAAGGTGTACCTATA
Found at i:53704593 original size:39 final size:40
Alignment explanation
Indices: 53704509--53704610 Score: 152
Period size: 40 Copynumber: 2.6 Consensus size: 40
53704499 TTTTGTGGAA
* * * *
53704509 CTTTTTGAAAAACGCCACTATAGGTGTACCTATAGCGGCG
1 CTTTTTAAAAAACGCCGCTAAAGGTGTACCTATAGCGACG
53704549 CTTTTTAAAAAACGCCGCTAAAGGTGTACCTATAGCGACG
1 CTTTTTAAAAAACGCCGCTAAAGGTGTACCTATAGCGACG
*
53704589 -TTTTTAAAAAGCGCCGCTAAAG
1 CTTTTTAAAAAACGCCGCTAAAG
53704611 CCACTAAAAG
Statistics
Matches: 57, Mismatches: 5, Indels: 1
0.90 0.08 0.02
Matches are distributed among these distances:
39 21 0.37
40 36 0.63
ACGTcount: A:0.31, C:0.22, G:0.21, T:0.26
Consensus pattern (40 bp):
CTTTTTAAAAAACGCCGCTAAAGGTGTACCTATAGCGACG
Found at i:53704805 original size:269 final size:269
Alignment explanation
Indices: 53704271--53704839 Score: 899
Period size: 269 Copynumber: 2.1 Consensus size: 269
53704261 GATAAAGCAT
* * *
53704271 TAGCGGCGTTTTTTATAAAGCGCCGCTAAAGGTGTACCTATAGCGGCGTTTTTAATAGCGCCGCT
1 TAGCGGCG-TTTTTAAAAAGCGCCGCTAAAGGTGTACCTATAGCGACGTTTTTAAAAGCGCCGCT
* * * *
53704336 ACAGCAACTAAAAGGTCAATAAAAAACGATGTCGTTTTGCAAAACTCTTTTGCGGCTCTTTTTGA
65 AAAGCAACTAAAAGGTCAATAAAAAACGACGTCGTTTTGCAAAACTCTTTTGCGGCGCTTTCTGA
*
53704401 AAAACGCCGCTAAAGGTGTACTTATAGCGGCGTTTTTCAAAAAGCGCAGCTAAAGCCACTAAAAG
130 AAAACGCCGCTAAAGGTGTACCTATAGCGGCGTTTTTCAAAAAGCGCAGCTAAAGCCACTAAAAG
* *
53704466 GTCAATATAAAACGACGTCGTTTTGTAAAACTCTTTTGTGGAACTTTTTGAAAAACGCCACTATA
195 GTCAATACAAAACGACGTCGTTTTGTAAAACTCTTTTGCGGAACTTTTTGAAAAACGCCACTATA
53704531 GGTGTACCTA
260 GGTGTACCTA
*
53704541 TAGCGGCGCTTTTTAAAAAACGCCGCTAAAGGTGTACCTATAGCGACGTTTTTAAAAAGCGCCGC
1 TAGCGGCG-TTTTTAAAAAGCGCCGCTAAAGGTGTACCTATAGCGACGTTTTT-AAAAGCGCCGC
* * *
53704606 TAAAGCCACTAAAAGGTCAATATAAAACGACGTCGTTTTGTAAAACTCTTTTGCGGCGCTTTCT-
64 TAAAGCAACTAAAAGGTCAATAAAAAACGACGTCGTTTTGCAAAACTCTTTTGCGGCGCTTTCTG
*
53704670 AAAAACGCCGCTAAAGGTGTACCTATAGCGGCGTTTTT-AAAAAGCGCCGCTAAAGCCACTAAAA
129 AAAAACGCCGCTAAAGGTGTACCTATAGCGGCGTTTTTCAAAAAGCGCAGCTAAAGCCACTAAAA
* * ** *
53704734 GGTCAATACAAAATGACGTTGTTTTGTAAAACTCTTTTGCGGCGCTTTTTGAAAAACGCCGCTAT
194 GGTCAATACAAAACGACGTCGTTTTGTAAAACTCTTTTGCGGAACTTTTTGAAAAACGCCACTAT
53704799 AGGTGTACCTA
259 AGGTGTACCTA
* *
53704810 TAGCGGCGTTTTTAAGAAGCGCCACTAAAG
1 TAGCGGCGTTTTTAAAAAGCGCCGCTAAAG
53704840 CCACTAAAAG
Statistics
Matches: 274, Mismatches: 24, Indels: 4
0.91 0.08 0.01
Matches are distributed among these distances:
268 19 0.07
269 102 0.37
270 86 0.31
271 67 0.24
ACGTcount: A:0.31, C:0.20, G:0.21, T:0.28
Consensus pattern (269 bp):
TAGCGGCGTTTTTAAAAAGCGCCGCTAAAGGTGTACCTATAGCGACGTTTTTAAAAGCGCCGCTA
AAGCAACTAAAAGGTCAATAAAAAACGACGTCGTTTTGCAAAACTCTTTTGCGGCGCTTTCTGAA
AAACGCCGCTAAAGGTGTACCTATAGCGGCGTTTTTCAAAAAGCGCAGCTAAAGCCACTAAAAGG
TCAATACAAAACGACGTCGTTTTGTAAAACTCTTTTGCGGAACTTTTTGAAAAACGCCACTATAG
GTGTACCTA
Found at i:53704855 original size:115 final size:115
Alignment explanation
Indices: 53704543--53704953 Score: 707
Period size: 115 Copynumber: 3.6 Consensus size: 115
53704533 TGTACCTATA
* *
53704543 GCGGCGCTTTTTAAAAAACGCCGCTAAAGGTGTACCTATAGCGACGTTTTTAAAAAGCGCCGCTA
1 GCGGCGCTTTTTGAAAAACGCCGCTAAAGGTGTACCTATAGCGGCGTTTTTAAAAAGCGCCGCTA
* *
53704608 AAGCCACTAAAAGGTCAATATAAAACGACGTCGTTTTGTAAAACTCTTTT
66 AAGCCACTAAAAGGTCAATACAAAACGACGTTGTTTTGTAAAACTCTTTT
*
53704658 GCGGCGCTTTCT-AAAAACGCCGCTAAAGGTGTACCTATAGCGGCGTTTTTAAAAAGCGCCGCTA
1 GCGGCGCTTTTTGAAAAACGCCGCTAAAGGTGTACCTATAGCGGCGTTTTTAAAAAGCGCCGCTA
*
53704722 AAGCCACTAAAAGGTCAATACAAAATGACGTTGTTTTGTAAAACTCTTTT
66 AAGCCACTAAAAGGTCAATACAAAACGACGTTGTTTTGTAAAACTCTTTT
* * *
53704772 GCGGCGCTTTTTGAAAAACGCCGCTATAGGTGTACCTATAGCGGCGTTTTTAAGAAGCGCCACTA
1 GCGGCGCTTTTTGAAAAACGCCGCTAAAGGTGTACCTATAGCGGCGTTTTTAAAAAGCGCCGCTA
*
53704837 AAGCCACTAAAAGGTCAATACAAAACGACGTTGTTCTGTAAAACTCTTTT
66 AAGCCACTAAAAGGTCAATACAAAACGACGTTGTTTTGTAAAACTCTTTT
*
53704887 GCGGCGCTTTTTGAAAAACGCCGCTAAAGGTGTACCTATAGCGGCGCTTTTTAAAAAACGCCGCT
1 GCGGCGCTTTTTGAAAAACGCCGCTAAAGGTGTACCTATAGCGGCG-TTTTTAAAAAGCGCCGCT
53704952 AA
65 AA
53704954 TGTTCGTTCT
Statistics
Matches: 279, Mismatches: 15, Indels: 3
0.94 0.05 0.01
Matches are distributed among these distances:
114 109 0.39
115 153 0.55
116 17 0.06
ACGTcount: A:0.31, C:0.22, G:0.21, T:0.27
Consensus pattern (115 bp):
GCGGCGCTTTTTGAAAAACGCCGCTAAAGGTGTACCTATAGCGGCGTTTTTAAAAAGCGCCGCTA
AAGCCACTAAAAGGTCAATACAAAACGACGTTGTTTTGTAAAACTCTTTT
Found at i:53710111 original size:21 final size:21
Alignment explanation
Indices: 53710085--53710128 Score: 70
Period size: 21 Copynumber: 2.1 Consensus size: 21
53710075 AGACGAGCAA
* *
53710085 TACTCCACAGCAGGTGGAGTG
1 TACTCCAAAACAGGTGGAGTG
53710106 TACTCCAAAACAGGTGGAGTG
1 TACTCCAAAACAGGTGGAGTG
53710127 TA
1 TA
53710129 ACAGCCCAAT
Statistics
Matches: 21, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
21 21 1.00
ACGTcount: A:0.30, C:0.20, G:0.30, T:0.20
Consensus pattern (21 bp):
TACTCCAAAACAGGTGGAGTG
Found at i:53712215 original size:19 final size:18
Alignment explanation
Indices: 53712191--53712258 Score: 57
Period size: 18 Copynumber: 3.7 Consensus size: 18
53712181 AATATATTTT
*
53712191 TAAAAAATATTAATTATTA
1 TAAAAAATATTAA-TATGA
* *
53712210 TAAAAATTATCAATATGA
1 TAAAAAATATTAATATGA
* *
53712228 TAAAAAATTTTAA-ACGAA
1 TAAAAAATATTAATATG-A
*
53712246 TAACAAATATTAA
1 TAAAAAATATTAA
53712259 AATTAAGTCA
Statistics
Matches: 39, Mismatches: 9, Indels: 3
0.76 0.18 0.06
Matches are distributed among these distances:
17 2 0.05
18 26 0.67
19 11 0.28
ACGTcount: A:0.59, C:0.04, G:0.03, T:0.34
Consensus pattern (18 bp):
TAAAAAATATTAATATGA
Found at i:53713177 original size:16 final size:16
Alignment explanation
Indices: 53713156--53713213 Score: 53
Period size: 16 Copynumber: 3.6 Consensus size: 16
53713146 AGTGTGTGGT
53713156 GATGATTGGCAGGTGA
1 GATGATTGGCAGGTGA
** *
53713172 GATGATTGGTGGGTGGC
1 GATGATTGGCAGGT-GA
* * *
53713189 GGTGCTGGGCAGGTGA
1 GATGATTGGCAGGTGA
53713205 GATGATTGG
1 GATGATTGG
53713214 TGGGTGGCGG
Statistics
Matches: 29, Mismatches: 12, Indels: 2
0.67 0.28 0.05
Matches are distributed among these distances:
16 19 0.66
17 10 0.34
ACGTcount: A:0.17, C:0.07, G:0.50, T:0.26
Consensus pattern (16 bp):
GATGATTGGCAGGTGA
Found at i:53713200 original size:33 final size:33
Alignment explanation
Indices: 53713163--53713230 Score: 136
Period size: 33 Copynumber: 2.1 Consensus size: 33
53713153 GGTGATGATT
53713163 GGCAGGTGAGATGATTGGTGGGTGGCGGTGCTG
1 GGCAGGTGAGATGATTGGTGGGTGGCGGTGCTG
53713196 GGCAGGTGAGATGATTGGTGGGTGGCGGTGCTG
1 GGCAGGTGAGATGATTGGTGGGTGGCGGTGCTG
53713229 GG
1 GG
53713231 ATGATTCATT
Statistics
Matches: 35, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
33 35 1.00
ACGTcount: A:0.12, C:0.09, G:0.56, T:0.24
Consensus pattern (33 bp):
GGCAGGTGAGATGATTGGTGGGTGGCGGTGCTG
Found at i:53717041 original size:68 final size:68
Alignment explanation
Indices: 53716952--53717089 Score: 258
Period size: 68 Copynumber: 2.0 Consensus size: 68
53716942 ATCAAATCTC
53716952 TTAACTTCTAGCAGTATTCAAGAGGAAACAATGAGAAGCAAAAACCAAGTTCCTATATATTATTA
1 TTAACTTCTAGCAGTATTCAAGAGGAAACAATGAGAAGCAAAAACCAAGTTCCTATATATTATTA
53717017 GCT
66 GCT
* *
53717020 TTAATTTCTAGCAGTATTCAAGAGGGAACAATGAGAAGCAAAAACCAAGTTCCTATATATTATTA
1 TTAACTTCTAGCAGTATTCAAGAGGAAACAATGAGAAGCAAAAACCAAGTTCCTATATATTATTA
53717085 GCT
66 GCT
53717088 TT
1 TT
53717090 TCTTTTCGTC
Statistics
Matches: 68, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
68 68 1.00
ACGTcount: A:0.40, C:0.15, G:0.15, T:0.30
Consensus pattern (68 bp):
TTAACTTCTAGCAGTATTCAAGAGGAAACAATGAGAAGCAAAAACCAAGTTCCTATATATTATTA
GCT
Found at i:53717380 original size:32 final size:32
Alignment explanation
Indices: 53717339--53717403 Score: 121
Period size: 32 Copynumber: 2.0 Consensus size: 32
53717329 ATGACAAAAA
53717339 GACATGCAAACAATTACAATATATTAATATCT
1 GACATGCAAACAATTACAATATATTAATATCT
*
53717371 GACATGCAAACAGTTACAATATATTAATATCT
1 GACATGCAAACAATTACAATATATTAATATCT
53717403 G
1 G
53717404 CACTTTCTCT
Statistics
Matches: 32, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
32 32 1.00
ACGTcount: A:0.45, C:0.15, G:0.09, T:0.31
Consensus pattern (32 bp):
GACATGCAAACAATTACAATATATTAATATCT
Found at i:53719271 original size:30 final size:31
Alignment explanation
Indices: 53719215--53719275 Score: 88
Period size: 30 Copynumber: 2.0 Consensus size: 31
53719205 TTAAGAACCG
* **
53719215 GTGACTAGAATGACTAAAGTATGTAATGGTA
1 GTGACTAAAATGACTAAAAAATGTAATGGTA
53719246 GTGACTAAAATGAC-AAAAAATGTAATGGTA
1 GTGACTAAAATGACTAAAAAATGTAATGGTA
53719276 ATACTCATAT
Statistics
Matches: 27, Mismatches: 3, Indels: 1
0.87 0.10 0.03
Matches are distributed among these distances:
30 14 0.52
31 13 0.48
ACGTcount: A:0.44, C:0.07, G:0.23, T:0.26
Consensus pattern (31 bp):
GTGACTAAAATGACTAAAAAATGTAATGGTA
Found at i:53719571 original size:17 final size:18
Alignment explanation
Indices: 53719539--53719573 Score: 54
Period size: 17 Copynumber: 2.0 Consensus size: 18
53719529 AACATTAATC
*
53719539 TTAGTTATTCTAAATATT
1 TTAGTTAATCTAAATATT
53719557 TTAGTTAAT-TAAATATT
1 TTAGTTAATCTAAATATT
53719574 ATAATATATA
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
17 8 0.50
18 8 0.50
ACGTcount: A:0.37, C:0.03, G:0.06, T:0.54
Consensus pattern (18 bp):
TTAGTTAATCTAAATATT
Found at i:53727390 original size:18 final size:17
Alignment explanation
Indices: 53727366--53727409 Score: 61
Period size: 17 Copynumber: 2.5 Consensus size: 17
53727356 CCAACAGTGA
53727366 AAAAAAAAGGCTGAAAAAG
1 AAAAAAAA--CTGAAAAAG
*
53727385 AAAAAAAACTGAAAATG
1 AAAAAAAACTGAAAAAG
53727402 AAAAAAAA
1 AAAAAAAA
53727410 ATAAAAAACA
Statistics
Matches: 24, Mismatches: 1, Indels: 2
0.89 0.04 0.07
Matches are distributed among these distances:
17 16 0.67
19 8 0.33
ACGTcount: A:0.75, C:0.05, G:0.14, T:0.07
Consensus pattern (17 bp):
AAAAAAAACTGAAAAAG
Found at i:53727576 original size:20 final size:19
Alignment explanation
Indices: 53727543--53727593 Score: 61
Period size: 17 Copynumber: 2.7 Consensus size: 19
53727533 GAAGAAAATA
*
53727543 AAGGGAAAGAAAGGAGAAGAG
1 AAGGAAAAG-AAGGAGAAG-G
53727564 AAGGAAAAGAAGGAGAAGG
1 AAGGAAAAGAAGGAGAAGG
53727583 AA--AAAAGAAGG
1 AAGGAAAAGAAGG
53727594 TATAAATTTT
Statistics
Matches: 29, Mismatches: 1, Indels: 4
0.85 0.03 0.12
Matches are distributed among these distances:
17 9 0.31
19 3 0.10
20 9 0.31
21 8 0.28
ACGTcount: A:0.61, C:0.00, G:0.39, T:0.00
Consensus pattern (19 bp):
AAGGAAAAGAAGGAGAAGG
Found at i:53727581 original size:15 final size:14
Alignment explanation
Indices: 53727557--53727590 Score: 52
Period size: 15 Copynumber: 2.4 Consensus size: 14
53727547 GAAAGAAAGG
53727557 AGAAGAGAAGGAAA
1 AGAAGAGAAGGAAA
53727571 AGAAGGAGAAGGAAA
1 AGAA-GAGAAGGAAA
53727586 A-AAGA
1 AGAAGA
53727591 AGGTATAAAT
Statistics
Matches: 19, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
13 2 0.11
14 6 0.32
15 11 0.58
ACGTcount: A:0.65, C:0.00, G:0.35, T:0.00
Consensus pattern (14 bp):
AGAAGAGAAGGAAA
Found at i:53727742 original size:29 final size:26
Alignment explanation
Indices: 53727684--53727749 Score: 93
Period size: 26 Copynumber: 2.7 Consensus size: 26
53727674 TTGCTGTTAG
**
53727684 TTATTATTATTGTTAGTAAAAATTCC
1 TTATTATTATTGTTAGTAAAAAACCC
53727710 TTATTATTATTGTTAGTAAAAAACCC
1 TTATTATTATTGTTAGTAAAAAACCC
53727736 -TA--ATTATTGTTAGT
1 TTATTATTATTGTTAGT
53727750 TATTATTGTT
Statistics
Matches: 38, Mismatches: 2, Indels: 3
0.88 0.05 0.07
Matches are distributed among these distances:
23 12 0.32
25 2 0.05
26 24 0.63
ACGTcount: A:0.35, C:0.08, G:0.09, T:0.48
Consensus pattern (26 bp):
TTATTATTATTGTTAGTAAAAAACCC
Found at i:53731594 original size:17 final size:17
Alignment explanation
Indices: 53731572--53731610 Score: 62
Period size: 17 Copynumber: 2.3 Consensus size: 17
53731562 CGGTAATAGT
53731572 ATGTTCCAATTTA-ATTA
1 ATGTTCCAA-TTAGATTA
53731589 ATGTTCCAATTAGATTA
1 ATGTTCCAATTAGATTA
53731606 ATGTT
1 ATGTT
53731611 GTAATGTATT
Statistics
Matches: 21, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
16 3 0.14
17 18 0.86
ACGTcount: A:0.33, C:0.10, G:0.10, T:0.46
Consensus pattern (17 bp):
ATGTTCCAATTAGATTA
Found at i:53732283 original size:71 final size:72
Alignment explanation
Indices: 53732145--53732288 Score: 175
Period size: 71 Copynumber: 2.0 Consensus size: 72
53732135 ATCCGCCCCC
* * * *
53732145 TGACGAGCTCGGGAAATAGTTATTGCCCGCCAAATCCGGATAATAAGAAGTATTAGCTGAATATG
1 TGACGAGCTCCGGAAATAGTAATTGCCCGCCAAATCCAGATAATAAGAAGTATAAGCTGAATATG
53732210 AATGCGA
66 AATGCGA
* * * * * *
53732217 TGACGAGC-CCGGAAATAGTAATTGCCCGCTAAGTCCAGATGATAATAAGTATCAATC-GAATGT
1 TGACGAGCTCCGGAAATAGTAATTGCCCGCCAAATCCAGATAATAAGAAGTAT-AAGCTGAATAT
53732280 GAATGCGA
65 GAATGCGA
53732288 T
1 T
53732289 CGCTCGGACT
Statistics
Matches: 61, Mismatches: 10, Indels: 3
0.82 0.14 0.04
Matches are distributed among these distances:
71 51 0.84
72 10 0.16
ACGTcount: A:0.35, C:0.17, G:0.24, T:0.24
Consensus pattern (72 bp):
TGACGAGCTCCGGAAATAGTAATTGCCCGCCAAATCCAGATAATAAGAAGTATAAGCTGAATATG
AATGCGA
Found at i:53733966 original size:16 final size:16
Alignment explanation
Indices: 53733908--53733966 Score: 50
Period size: 16 Copynumber: 3.8 Consensus size: 16
53733898 TGGCACTTTC
*
53733908 TTCGTATTTTTTTATT
1 TTCGTATTTTATTATT
*
53733924 TTCGTATCTTATT-TT
1 TTCGTATTTTATTATT
** * *
53733939 TT-AAAATATATTATT
1 TTCGTATTTTATTATT
53733954 TTCGTATTTTATT
1 TTCGTATTTTATT
53733967 TCTTTATATT
Statistics
Matches: 30, Mismatches: 11, Indels: 4
0.67 0.24 0.09
Matches are distributed among these distances:
14 5 0.17
15 8 0.27
16 17 0.57
ACGTcount: A:0.22, C:0.07, G:0.05, T:0.66
Consensus pattern (16 bp):
TTCGTATTTTATTATT
Found at i:53734085 original size:13 final size:13
Alignment explanation
Indices: 53734069--53734130 Score: 54
Period size: 13 Copynumber: 4.5 Consensus size: 13
53734059 TTCGTATTTT
*
53734069 TTATTTTCGTATA
1 TTATTTTCATATA
53734082 TTATTTTCTAAAATATA
1 TTATTTTC----ATATA
*
53734099 TTATTTTTATATA
1 TTATTTTCATATA
*
53734112 TTATTTT-TTATA
1 TTATTTTCATATA
53734124 TTATTTT
1 TTATTTT
53734131 AACAAAAAAT
Statistics
Matches: 42, Mismatches: 3, Indels: 9
0.78 0.06 0.17
Matches are distributed among these distances:
12 11 0.26
13 20 0.48
17 11 0.26
ACGTcount: A:0.29, C:0.03, G:0.02, T:0.66
Consensus pattern (13 bp):
TTATTTTCATATA
Found at i:53734123 original size:12 final size:13
Alignment explanation
Indices: 53734094--53734130 Score: 67
Period size: 13 Copynumber: 2.9 Consensus size: 13
53734084 ATTTTCTAAA
53734094 ATATATTATTTTT
1 ATATATTATTTTT
53734107 ATATATTATTTTT
1 ATATATTATTTTT
53734120 -TATATTATTTT
1 ATATATTATTTT
53734131 AACAAAAAAT
Statistics
Matches: 24, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
12 11 0.46
13 13 0.54
ACGTcount: A:0.30, C:0.00, G:0.00, T:0.70
Consensus pattern (13 bp):
ATATATTATTTTT
Found at i:53734415 original size:16 final size:16
Alignment explanation
Indices: 53734357--53734415 Score: 50
Period size: 16 Copynumber: 3.8 Consensus size: 16
53734347 TGGCACTTTC
*
53734357 TTCGTATTTTTTTATT
1 TTCGTATTTTATTATT
*
53734373 TTCGTATATTATT-TT
1 TTCGTATTTTATTATT
** * *
53734388 TT-AAAATATATTATT
1 TTCGTATTTTATTATT
53734403 TTCGTATTTTATT
1 TTCGTATTTTATT
53734416 TTTATATTAT
Statistics
Matches: 30, Mismatches: 11, Indels: 4
0.67 0.24 0.09
Matches are distributed among these distances:
14 5 0.17
15 8 0.27
16 17 0.57
ACGTcount: A:0.24, C:0.05, G:0.05, T:0.66
Consensus pattern (16 bp):
TTCGTATTTTATTATT
Found at i:53734565 original size:150 final size:150
Alignment explanation
Indices: 53734330--53735917 Score: 2239
Period size: 151 Copynumber: 10.7 Consensus size: 150
53734320 TCAAACTATC
* * *
53734330 ATAAATAACCTTGATTTTGGCACTTTCTTCGTATTTTTTTATTTTCGTATATTATTTTTTAAAAT
1 ATAAATAACCCTGATTTTAGCACTTTATTCGTATTTTTTTATTTTCGTATATTATTTTTTAAAAT
* * *
53734395 ATATTATTTTCGTATTTTA-TTTTTATATTATTTTAGGAAAAAATGTTTCAAATGTGTTATGTAA
66 ATATTATTTTCGTATTTTATTTTTTATATTATTTTAGCAAAAAATGTTTCAAATGTATTATTTAA
53734459 GTGTTTTTTATATTAATTTA
131 GTGTTTTTTATATTAATTTA
* * *
53734479 ATAAATAACCCTGATTTTGGCACTTTCTTCGTATTTTTTTTATTTTCGTATCTTATTTTTTAAAA
1 ATAAATAACCCTGATTTTAGCACTTTATTCGTA-TTTTTTTATTTTCGTATATTATTTTTTAAAA
* * *
53734544 TATATTATTTTCGTATTTTATTTCTTTATATTATTTTAGTACATAATGTTTCAAATGTATTATTT
65 TATATTATTTTCGTATTTTATTT-TTTATATTATTTTAGCAAAAAATGTTTCAAATGTATTATTT
**
53734609 AAGTGTTTTTTTATATTTTTTTA
129 AAGTG-TTTTTTATATTAATTTA
*
53734632 ATAAATAACCCTAATTTTAGCACTTTATTCGTA-TTTTTTATTTTCGTATATTATTTTTTAAAAT
1 ATAAATAACCCTGATTTTAGCACTTTATTCGTATTTTTTTATTTTCGTATATTATTTTTTAAAAT
* *
53734696 ATATTATTTTTGTATTTTATTTTTTATATTATTTTAGCAAAAAATGTTTCAAATGTATTACTTAA
66 ATATTATTTTCGTATTTTATTTTTTATATTATTTTAGCAAAAAATGTTTCAAATGTATTATTTAA
53734761 GT-TTTTTTATATTAATTTA
131 GTGTTTTTTATATTAATTTA
* * * *
53734780 ATAAATAACCCTAATTTTTGCACTTTTTTTCGTATTTTTTTATTTTCGTATCTTATTTTTTAAAA
1 ATAAATAACCCTGATTTTAGCAC-TTTATTCGTATTTTTTTATTTTCGTATATTATTTTTTAAAA
* * * *
53734845 TATATTATTTTCGTATTTTATTTCTTTATATTATTTTAGTACATAATGTTTCAAATGCATTATTT
65 TATATTATTTTCGTATTTTATTT-TTTATATTATTTTAGCAAAAAATGTTTCAAATGTATTATTT
*
53734910 AAGTGTTTTTTATATT-TTTTA
129 AAGTGTTTTTTATATTAATTTA
53734931 ATAAATAACCCTGATTTTAGCACTTTATTCGTA-TTTTTTATTTTCGTATATTA-TTTTTAAAAT
1 ATAAATAACCCTGATTTTAGCACTTTATTCGTATTTTTTTATTTTCGTATATTATTTTTTAAAAT
* *
53734994 ATATTATTTTCGTATTTTA-TTTTTATATTATTTTAGCAAGAAATGTTTCAAATGTATTACTTAA
66 ATATTATTTTCGTATTTTATTTTTTATATTATTTTAGCAAAAAATGTTTCAAATGTATTATTTAA
53735058 GTGTTTTTTATATTAATTTA
131 GTGTTTTTTATATTAATTTA
** * * * *
53735078 ATAAATAATACTGATTTTGGCACTTTCTTCGTATTTTTTTATTTTTGTATCTTATTTTTTAAAAT
1 ATAAATAACCCTGATTTTAGCACTTTATTCGTATTTTTTTATTTTCGTATATTATTTTTTAAAAT
* * * *
53735143 ATATTATTTTCGTATTTTATTTCTTTATATTATTTTAGTACATAATGTTTCAAATGCATTATTTA
66 ATATTATTTTCGTATTTTATTT-TTTATATTATTTTAGCAAAAAATGTTTCAAATGTATTATTTA
*
53735208 AGTGTTTTTTATATT-TTTTA
130 AGTGTTTTTTATATTAATTTA
*
53735228 ATAAATAACCCAGATTTTAGCACTTTATTCGTA-TTTTTTATTTTCGTATATTA-TTTTTAAAAT
1 ATAAATAACCCTGATTTTAGCACTTTATTCGTATTTTTTTATTTTCGTATATTATTTTTTAAAAT
* * *
53735291 ATATTATTTTTGTATTTTA-TTTTTATATTATTTTAGCAAGAAATGTTTCAAATGTATTACTTAA
66 ATATTATTTTCGTATTTTATTTTTTATATTATTTTAGCAAAAAATGTTTCAAATGTATTATTTAA
53735355 GTGTTTTTTATATTAATTTA
131 GTGTTTTTTATATTAATTTA
** * * * *
53735375 ATAAATAATACTGATTTTGGCACTTTCTTCGTATTTTTTTTTATTTTTGTATCTTATTTTTTAAA
1 ATAAATAACCCTGATTTTAGCACTTTATTCGTA--TTTTTTTATTTTCGTATATTATTTTTTAAA
* * * *
53735440 ATATATTATTTTCGTATTTTATTTCTTTATATTATTTTAGTACATAATGTTTCAAATGTATTATA
64 ATATATTATTTTCGTATTTTATTT-TTTATATTATTTTAGCAAAAAATGTTTCAAATGTATTATT
*
53735505 TAAGTG-TTTTTATATT-TTTTA
128 TAAGTGTTTTTTATATTAATTTA
53735526 ATAAATAACCCTGATTTTAGCACTTTATTCGTA---TTTT-TTTTCGTATATTA-TTTTTAAAAT
1 ATAAATAACCCTGATTTTAGCACTTTATTCGTATTTTTTTATTTTCGTATATTATTTTTTAAAAT
* * * *
53735586 ATATTATTTTCGTATTTTATTTCTTTATATTATTTTAGTACATAATGTTTCAAATGTATTATATA
66 ATATTATTTTCGTATTTTATTT-TTTATATTATTTTAGCAAAAAATGTTTCAAATGTATTATTTA
*
53735651 AGTG-TTTTTATATT-TTTTA
130 AGTGTTTTTTATATTAATTTA
53735670 ATAAATAACCCTGATTTTAGCACTTTATTCGTA---TTTT-TTTTCGTATATTA-TTTTTAAAAT
1 ATAAATAACCCTGATTTTAGCACTTTATTCGTATTTTTTTATTTTCGTATATTATTTTTTAAAAT
* *
53735730 ATATTATTTTCGTA---T-TTTTTAATATGATTTTAGCAAAAAATGTTTCAAATGTATTATTTAA
66 ATATTATTTTCGTATTTTATTTTTTATATTATTTTAGCAAAAAATGTTTCAAATGTATTATTTAA
53735791 --GTTTTTTATATTAATTTA
131 GTGTTTTTTATATTAATTTA
* * * * * *
53735809 ATAAATAACCCTGACTTTGGCACATTGTTCGTATTTTTTTATTTTCGGATTTTATTTTTTAAAAT
1 ATAAATAACCCTGATTTTAGCACTTTATTCGTATTTTTTTATTTTCGTATATTATTTTTTAAAAT
* **
53735874 ATACTATTTTTATATTTTATTTTTTATATTATTTTAGCAAAAAA
66 ATATTATTTTCGTATTTTATTTTTTATATTATTTTAGCAAAAAA
53735918 CTCGTCAGCA
Statistics
Matches: 1300, Mismatches: 108, Indels: 63
0.88 0.07 0.04
Matches are distributed among these distances:
137 1 0.00
138 10 0.01
139 70 0.05
140 3 0.00
141 1 0.00
142 4 0.00
143 11 0.01
144 189 0.15
145 11 0.01
146 106 0.08
147 70 0.05
148 135 0.10
149 107 0.08
150 203 0.16
151 230 0.18
152 64 0.05
153 85 0.07
ACGTcount: A:0.29, C:0.07, G:0.07, T:0.56
Consensus pattern (150 bp):
ATAAATAACCCTGATTTTAGCACTTTATTCGTATTTTTTTATTTTCGTATATTATTTTTTAAAAT
ATATTATTTTCGTATTTTATTTTTTATATTATTTTAGCAAAAAATGTTTCAAATGTATTATTTAA
GTGTTTTTTATATTAATTTA
Found at i:53734727 original size:12 final size:13
Alignment explanation
Indices: 53734695--53734730 Score: 56
Period size: 13 Copynumber: 2.8 Consensus size: 13
53734685 TTTTTTAAAA
53734695 TATATTATTTTTG
1 TATATTATTTTTG
*
53734708 TATTTTATTTTT-
1 TATATTATTTTTG
53734720 TATATTATTTT
1 TATATTATTTT
53734731 AGCAAAAAAT
Statistics
Matches: 21, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
12 10 0.48
13 11 0.52
ACGTcount: A:0.22, C:0.00, G:0.03, T:0.75
Consensus pattern (13 bp):
TATATTATTTTTG
Found at i:53734866 original size:16 final size:16
Alignment explanation
Indices: 53734806--53734866 Score: 54
Period size: 16 Copynumber: 3.9 Consensus size: 16
53734796 TTTGCACTTT
*
53734806 TTTTCGTATTTTTTTA
1 TTTTCGTATTTTATTA
*
53734822 TTTTCGTATCTTATT-
1 TTTTCGTATTTTATTA
** * *
53734837 TTTT-AAAATATATTA
1 TTTTCGTATTTTATTA
53734852 TTTTCGTATTTTATT
1 TTTTCGTATTTTATT
53734867 TCTTTATATT
Statistics
Matches: 32, Mismatches: 11, Indels: 4
0.68 0.23 0.09
Matches are distributed among these distances:
14 5 0.16
15 8 0.25
16 19 0.59
ACGTcount: A:0.21, C:0.07, G:0.05, T:0.67
Consensus pattern (16 bp):
TTTTCGTATTTTATTA
Found at i:53734984 original size:13 final size:13
Alignment explanation
Indices: 53734968--53735027 Score: 52
Period size: 13 Copynumber: 4.5 Consensus size: 13
53734958 TTCGTATTTT
53734968 TTATTTTCGTATA
1 TTATTTTCGTATA
**
53734981 TTATTTTTAAAATATA
1 TTA-TTTT--CGTATA
*
53734997 TTATTTTCGTATT
1 TTATTTTCGTATA
53735010 TTATTTT--TATA
1 TTATTTTCGTATA
53735021 TTATTTT
1 TTATTTT
53735028 AGCAAGAAAT
Statistics
Matches: 38, Mismatches: 6, Indels: 8
0.73 0.12 0.15
Matches are distributed among these distances:
11 10 0.26
13 13 0.34
14 4 0.11
15 4 0.11
16 7 0.18
ACGTcount: A:0.27, C:0.03, G:0.03, T:0.67
Consensus pattern (13 bp):
TTATTTTCGTATA
Found at i:53735165 original size:297 final size:299
Alignment explanation
Indices: 53734466--53735917 Score: 2279
Period size: 297 Copynumber: 4.9 Consensus size: 299
53734456 TAAGTGTTTT
53734466 TTATATTAATTTAATAAATAACCCTGATTTTGGCACTTTCTTCGTATTTTTTTTATTTTCGTATC
1 TTATATTAATTTAATAAATAACCCTGATTTTGGCACTTTCTTCGTA-TTTTTTTATTTTCGTATC
53734531 TTATTTTTTAAAATATATTATTTTCGTATTTTATTTCTTTATATTATTTTAGTACATAATGTTTC
65 TTATTTTTTAAAATATATTATTTTCGTATTTTATTTCTTTATATTATTTTAGTACATAATGTTTC
*
53734596 AAATGTATTATTTAAGTGTTTTTTTATATTTTTTTAATAAATAACCCTAATTTTAGCACTTTATT
130 AAATGTATTATTTAAGTG-TTTTTTATA-TTTTTTAATAAATAACCCTGATTTTAGCACTTTATT
*
53734661 CGTATTTTTTATTTTCGTATATTATTTTTTAAAATATATTATTTTTGTATTTTATTTTTTATATT
193 CGTATTTTTTATTTTCGTATATTATTTTTTAAAATATATTATTTTCGTATTTTATTTTTTATATT
53734726 ATTTTAGCAAAAAATGTTTCAAATGTATTACTTAAGT-TTTT
258 ATTTTAGCAAAAAATGTTTCAAATGTATTACTTAAGTGTTTT
* * *
53734767 TTATATTAATTTAATAAATAACCCTAATTTTTGCACTTTTTTTCGTATTTTTTTATTTTCGTATC
1 TTATATTAATTTAATAAATAACCCTGATTTTGGCAC-TTTCTTCGTATTTTTTTATTTTCGTATC
53734832 TTATTTTTTAAAATATATTATTTTCGTATTTTATTTCTTTATATTATTTTAGTACATAATGTTTC
65 TTATTTTTTAAAATATATTATTTTCGTATTTTATTTCTTTATATTATTTTAGTACATAATGTTTC
*
53734897 AAATGCATTATTTAAGTGTTTTTTATATTTTTTAATAAATAACCCTGATTTTAGCACTTTATTCG
130 AAATGTATTATTTAAGTGTTTTTTATATTTTTTAATAAATAACCCTGATTTTAGCACTTTATTCG
53734962 TATTTTTTATTTTCGTATATTA-TTTTTAAAATATATTATTTTCGTATTTTA-TTTTTATATTAT
195 TATTTTTTATTTTCGTATATTATTTTTTAAAATATATTATTTTCGTATTTTATTTTTTATATTAT
*
53735025 TTTAGCAAGAAATGTTTCAAATGTATTACTTAAGTGTTTT
260 TTTAGCAAAAAATGTTTCAAATGTATTACTTAAGTGTTTT
** *
53735065 TTATATTAATTTAATAAATAATACTGATTTTGGCACTTTCTTCGTATTTTTTTATTTTTGTATCT
1 TTATATTAATTTAATAAATAACCCTGATTTTGGCACTTTCTTCGTATTTTTTTATTTTCGTATCT
53735130 TATTTTTTAAAATATATTATTTTCGTATTTTATTTCTTTATATTATTTTAGTACATAATGTTTCA
66 TATTTTTTAAAATATATTATTTTCGTATTTTATTTCTTTATATTATTTTAGTACATAATGTTTCA
* *
53735195 AATGCATTATTTAAGTGTTTTTTATATTTTTTAATAAATAACCCAGATTTTAGCACTTTATTCGT
131 AATGTATTATTTAAGTGTTTTTTATATTTTTTAATAAATAACCCTGATTTTAGCACTTTATTCGT
*
53735260 ATTTTTTATTTTCGTATATTA-TTTTTAAAATATATTATTTTTGTATTTTA-TTTTTATATTATT
196 ATTTTTTATTTTCGTATATTATTTTTTAAAATATATTATTTTCGTATTTTATTTTTTATATTATT
*
53735323 TTAGCAAGAAATGTTTCAAATGTATTACTTAAGTGTTTT
261 TTAGCAAAAAATGTTTCAAATGTATTACTTAAGTGTTTT
** *
53735362 TTATATTAATTTAATAAATAATACTGATTTTGGCACTTTCTTCGTATTTTTTTTTATTTTTGTAT
1 TTATATTAATTTAATAAATAACCCTGATTTTGGCACTTTCTTCGTA--TTTTTTTATTTTCGTAT
53735427 CTTATTTTTTAAAATATATTATTTTCGTATTTTATTTCTTTATATTATTTTAGTACATAATGTTT
64 CTTATTTTTTAAAATATATTATTTTCGTATTTTATTTCTTTATATTATTTTAGTACATAATGTTT
*
53735492 CAAATGTATTATATAAGTG-TTTTTATATTTTTTAATAAATAACCCTGATTTTAGCACTTTATTC
129 CAAATGTATTATTTAAGTGTTTTTTATATTTTTTAATAAATAACCCTGATTTTAGCACTTTATTC
53735556 GTA--TTTT-TTTTCGTATATTA-TTTTTAAAATATATTATTTTCGTATTTTATTTCTTTATATT
194 GTATTTTTTATTTTCGTATATTATTTTTTAAAATATATTATTTTCGTATTTTATTT-TTTATATT
* * *
53735617 ATTTTAGTACATAATGTTTCAAATGTATTA-TATAAGTG-TTT
258 ATTTTAGCAAAAAATGTTTCAAATGTATTACT-TAAGTGTTTT
* * * *
53735658 TTATATT-TTTTAATAAATAACCCTGATTTTAGCACTTTATTCGTA---TTTT-TTTTCGTATAT
1 TTATATTAATTTAATAAATAACCCTGATTTTGGCACTTTCTTCGTATTTTTTTATTTTCGTATCT
* * * * *
53735718 TA-TTTTTAAAATATATTATTTTCGTA---T-TTT-TTAATATGATTTTAGCAAAAAATGTTTCA
66 TATTTTTTAAAATATATTATTTTCGTATTTTATTTCTTTATATTATTTTAGTACATAATGTTTCA
* * * * *
53735777 AATGTATTATTTAA--GTTTTTTATATTAATTTAATAAATAACCCTGACTTTGGCACATTGTTCG
131 AATGTATTATTTAAGTGTTTTTTATATT-TTTTAATAAATAACCCTGATTTTAGCACTTTATTCG
* * * **
53735840 TATTTTTTTATTTTCGGATTTTATTTTTTAAAATATACTATTTTTATATTTTATTTTTTATATTA
195 TA-TTTTTTATTTTCGTATATTATTTTTTAAAATATATTATTTTCGTATTTTATTTTTTATATTA
53735905 TTTTAGCAAAAAA
259 TTTTAGCAAAAAA
53735918 CTCGTCAGCA
Statistics
Matches: 1088, Mismatches: 49, Indels: 42
0.92 0.04 0.04
Matches are distributed among these distances:
281 1 0.00
282 10 0.01
283 70 0.06
284 3 0.00
285 1 0.00
286 4 0.00
287 30 0.03
288 53 0.05
289 11 0.01
290 4 0.00
295 74 0.07
296 17 0.02
297 389 0.36
298 111 0.10
299 158 0.15
300 9 0.01
301 134 0.12
302 9 0.01
ACGTcount: A:0.29, C:0.08, G:0.07, T:0.56
Consensus pattern (299 bp):
TTATATTAATTTAATAAATAACCCTGATTTTGGCACTTTCTTCGTATTTTTTTATTTTCGTATCT
TATTTTTTAAAATATATTATTTTCGTATTTTATTTCTTTATATTATTTTAGTACATAATGTTTCA
AATGTATTATTTAAGTGTTTTTTATATTTTTTAATAAATAACCCTGATTTTAGCACTTTATTCGT
ATTTTTTATTTTCGTATATTATTTTTTAAAATATATTATTTTCGTATTTTATTTTTTATATTATT
TTAGCAAAAAATGTTTCAAATGTATTACTTAAGTGTTTT
Found at i:53736001 original size:15 final size:15
Alignment explanation
Indices: 53735949--53736001 Score: 61
Period size: 15 Copynumber: 3.5 Consensus size: 15
53735939 AAAAAAAGTT
*
53735949 TTTTTTTGTATTTTA
1 TTTTTTAGTATTTTA
* * *
53735964 TTTTTTCATTAATATA
1 TTTTTT-AGTATTTTA
53735980 TTTTTTAGTATTTTA
1 TTTTTTAGTATTTTA
53735995 TTTTTTA
1 TTTTTTA
53736002 TACTATTTTT
Statistics
Matches: 30, Mismatches: 7, Indels: 2
0.77 0.18 0.05
Matches are distributed among these distances:
15 19 0.63
16 11 0.37
ACGTcount: A:0.21, C:0.02, G:0.04, T:0.74
Consensus pattern (15 bp):
TTTTTTAGTATTTTA
Found at i:53736515 original size:17 final size:15
Alignment explanation
Indices: 53736489--53736531 Score: 50
Period size: 17 Copynumber: 2.6 Consensus size: 15
53736479 TTTCTTCTTC
53736489 TTCTCTTCTTTCCTT
1 TTCTCTTCTTTCCTT
53736504 ATTCTCCTTCTTTTCCTT
1 -TTCT-CTTC-TTTCCTT
53736522 TTCTTCTTCT
1 TTC-TCTTCT
53736532 CCTTCTTTGC
Statistics
Matches: 24, Mismatches: 0, Indels: 6
0.80 0.00 0.20
Matches are distributed among these distances:
16 5 0.21
17 11 0.46
18 8 0.33
ACGTcount: A:0.02, C:0.33, G:0.00, T:0.65
Consensus pattern (15 bp):
TTCTCTTCTTTCCTT
Found at i:53736531 original size:23 final size:22
Alignment explanation
Indices: 53736474--53736539 Score: 78
Period size: 23 Copynumber: 2.9 Consensus size: 22
53736464 CTCCCCTTCT
* *
53736474 TTTTCTTTCTTCTTCTTCTCTTC
1 TTTTC-TTCTTCTCCTTCTTTTC
* *
53736497 TTTCCTTATTCTCCTTCTTTTCC
1 TTTTCTTCTTCTCCTTCTTTT-C
53736520 TTTTCTTCTTCTCCTTCTTT
1 TTTTCTTCTTCTCCTTCTTT
53736540 GCTCCCGAAA
Statistics
Matches: 36, Mismatches: 6, Indels: 2
0.82 0.14 0.05
Matches are distributed among these distances:
22 13 0.36
23 23 0.64
ACGTcount: A:0.02, C:0.32, G:0.00, T:0.67
Consensus pattern (22 bp):
TTTTCTTCTTCTCCTTCTTTTC
Found at i:53736536 original size:9 final size:9
Alignment explanation
Indices: 53736452--53736538 Score: 53
Period size: 9 Copynumber: 10.3 Consensus size: 9
53736442 TGCCGGCCTC
53736452 CTTCTCCTT
1 CTTCTCCTT
* *
53736461 CTCCTCC-C
1 CTTCTCCTT
**
53736469 CTTCTTTTT
1 CTTCTCCTT
*
53736478 CTTTCTTCTT
1 C-TTCTCCTT
53736488 CTTCT-CTT
1 CTTCTCCTT
53736496 CTT-TCCTT
1 CTTCTCCTT
*
53736504 ATTCTCCTT
1 CTTCTCCTT
*
53736513 CTTTTCC-T
1 CTTCTCCTT
53736521 -TT-T-CTT
1 CTTCTCCTT
53736527 CTTCTCCTT
1 CTTCTCCTT
53736536 CTT
1 CTT
53736539 TGCTCCCGAA
Statistics
Matches: 60, Mismatches: 10, Indels: 16
0.70 0.12 0.19
Matches are distributed among these distances:
5 1 0.02
6 2 0.03
7 5 0.08
8 17 0.28
9 27 0.45
10 8 0.13
ACGTcount: A:0.01, C:0.38, G:0.00, T:0.61
Consensus pattern (9 bp):
CTTCTCCTT
Found at i:53736712 original size:19 final size:18
Alignment explanation
Indices: 53736685--53736733 Score: 53
Period size: 19 Copynumber: 2.6 Consensus size: 18
53736675 TTTTTTTTAT
53736685 TTTTATTTTTCGTTTTCAG
1 TTTT-TTTTTCGTTTTCAG
* *
53736704 CTTTTTTTTTTGTTTTTAG
1 -TTTTTTTTTCGTTTTCAG
53736723 TGTTTTTTTTC
1 T-TTTTTTTTC
53736734 ACTGTTGGCC
Statistics
Matches: 25, Mismatches: 3, Indels: 3
0.81 0.10 0.10
Matches are distributed among these distances:
18 1 0.04
19 20 0.80
20 4 0.16
ACGTcount: A:0.06, C:0.08, G:0.10, T:0.76
Consensus pattern (18 bp):
TTTTTTTTTCGTTTTCAG
Found at i:53736720 original size:20 final size:18
Alignment explanation
Indices: 53736679--53736733 Score: 51
Period size: 18 Copynumber: 2.9 Consensus size: 18
53736669 ATGACCTTTT
53736679 TTTTA-TTTTTATTTTTCG
1 TTTTAGTTTTT-TTTTTCG
53736697 TTTTCAGCTTTTTTTTTT-G
1 TTTT-AG-TTTTTTTTTTCG
*
53736716 TTTTTAGTGTTTTTTTTC
1 -TTTTAGTTTTTTTTTTC
53736734 ACTGTTGGCC
Statistics
Matches: 31, Mismatches: 1, Indels: 9
0.76 0.02 0.22
Matches are distributed among these distances:
18 13 0.42
19 4 0.13
20 9 0.29
21 5 0.16
ACGTcount: A:0.07, C:0.07, G:0.09, T:0.76
Consensus pattern (18 bp):
TTTTAGTTTTTTTTTTCG
Found at i:53747203 original size:94 final size:94
Alignment explanation
Indices: 53747090--53747292 Score: 273
Period size: 94 Copynumber: 2.2 Consensus size: 94
53747080 AGACTCACTA
* * * *
53747090 ATTTACGATCATAACCTAAGTTCATTGGTTTATGATCATGAACAATCTTTTATGAATTAGCTGAT
1 ATTTACGATCACAACCTAAGTTCACTGATTTATGATCATGAACAATCTTCTATGAATTAGCTGAT
*
53747155 TTATTATCACTACTTTAAACAGTTCGTTG
66 TTAGTATCACTACTTTAAACAGTTCGTTG
* * *
53747184 ATTTACGATGACAACCTAAGTTCACTGATTTATGATCATGAACAATCTTCTATGAGTTAGTTGAT
1 ATTTACGATCACAACCTAAGTTCACTGATTTATGATCATGAACAATCTTCTATGAATTAGCTGAT
* * * * *
53747249 TTAGTATCGCTACTCCT-AACAATTAGATG
66 TTAGTATCACTACT-TTAAACAGTTCGTTG
53747278 ATTTACGATCACAAC
1 ATTTACGATCACAAC
53747293 TGATCTTATT
Statistics
Matches: 94, Mismatches: 14, Indels: 2
0.85 0.13 0.02
Matches are distributed among these distances:
94 93 0.99
95 1 0.01
ACGTcount: A:0.32, C:0.17, G:0.13, T:0.38
Consensus pattern (94 bp):
ATTTACGATCACAACCTAAGTTCACTGATTTATGATCATGAACAATCTTCTATGAATTAGCTGAT
TTAGTATCACTACTTTAAACAGTTCGTTG
Found at i:53749501 original size:10 final size:10
Alignment explanation
Indices: 53749488--53749515 Score: 56
Period size: 10 Copynumber: 2.8 Consensus size: 10
53749478 GCACTAAATT
53749488 TCACTGATAA
1 TCACTGATAA
53749498 TCACTGATAA
1 TCACTGATAA
53749508 TCACTGAT
1 TCACTGAT
53749516 GCCATAGCAT
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
10 18 1.00
ACGTcount: A:0.36, C:0.21, G:0.11, T:0.32
Consensus pattern (10 bp):
TCACTGATAA
Found at i:53749778 original size:31 final size:31
Alignment explanation
Indices: 53749735--53749856 Score: 154
Period size: 31 Copynumber: 3.9 Consensus size: 31
53749725 TTGTCACTTT
* * *
53749735 TAGCTGAAGCTACCACTATTCATTGATCAGG
1 TAGCCGAAGCTACCACTTTTCACTGATCAGG
* * *
53749766 TAGCCGAAGCTACTATTTTTCACAGATCAGG
1 TAGCCGAAGCTACCACTTTTCACTGATCAGG
*
53749797 TAGCCGAAGCTATCACTTTTCACTGATCAGG
1 TAGCCGAAGCTACCACTTTTCACTGATCAGG
* * *
53749828 TAACCGAAGCTACCACTTTTGACTTATCA
1 TAGCCGAAGCTACCACTTTTCACTGATCA
53749857 TTTGTCCTTT
Statistics
Matches: 77, Mismatches: 14, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
31 77 1.00
ACGTcount: A:0.29, C:0.25, G:0.17, T:0.30
Consensus pattern (31 bp):
TAGCCGAAGCTACCACTTTTCACTGATCAGG
Found at i:53755546 original size:22 final size:23
Alignment explanation
Indices: 53755516--53755560 Score: 58
Period size: 21 Copynumber: 2.0 Consensus size: 23
53755506 GAAATTACAG
53755516 AAACATTATTAAAAAATT-TATAA
1 AAACATTA-TAAAAAATTATATAA
*
53755539 AAAC-TTATAGAAAATTATATAA
1 AAACATTATAAAAAATTATATAA
53755561 GGCAACTGAG
Statistics
Matches: 20, Mismatches: 1, Indels: 3
0.83 0.04 0.12
Matches are distributed among these distances:
21 8 0.40
22 8 0.40
23 4 0.20
ACGTcount: A:0.60, C:0.04, G:0.02, T:0.33
Consensus pattern (23 bp):
AAACATTATAAAAAATTATATAA
Found at i:53757284 original size:16 final size:17
Alignment explanation
Indices: 53757263--53757392 Score: 55
Period size: 18 Copynumber: 7.4 Consensus size: 17
53757253 AAATACTTAA
53757263 GAGCTCGCA-CTTTGAT
1 GAGCTCGCATCTTTGAT
*
53757279 GAGCTCTCATCTTTGAT
1 GAGCTCGCATCTTTGAT
** * * *
53757296 GAATTTGCGTCTTTGTTT
1 GAGCTCGCATCTTTG-AT
* * *
53757314 GAGCTCGCAGCTTTCAAA
1 GAGCTCGCATCTTT-GAT
* *
53757332 GAGCTCGCAACTTTGTTT
1 GAGCTCGCATCTTTG-AT
** *
53757350 GAGCTTACAGCTTTCGAT
1 GAGCTCGCATCTTT-GAT
* * *
53757368 GAGCTCACAACTCTGGAT
1 GAGCTCGCATCT-TTGAT
53757386 GAGCTCG
1 GAGCTCG
53757393 TAGCTTCAAG
Statistics
Matches: 81, Mismatches: 27, Indels: 10
0.69 0.23 0.08
Matches are distributed among these distances:
16 8 0.10
17 17 0.21
18 54 0.67
19 2 0.02
ACGTcount: A:0.20, C:0.23, G:0.23, T:0.34
Consensus pattern (17 bp):
GAGCTCGCATCTTTGAT
Found at i:53757294 original size:17 final size:16
Alignment explanation
Indices: 53757263--53757297 Score: 52
Period size: 17 Copynumber: 2.1 Consensus size: 16
53757253 AAATACTTAA
53757263 GAGCTCGCACTTTGAT
1 GAGCTCGCACTTTGAT
*
53757279 GAGCTCTCATCTTTGAT
1 GAGCTCGCA-CTTTGAT
53757296 GA
1 GA
53757298 ATTTGCGTCT
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
16 8 0.47
17 9 0.53
ACGTcount: A:0.20, C:0.23, G:0.23, T:0.34
Consensus pattern (16 bp):
GAGCTCGCACTTTGAT
Found at i:53757348 original size:36 final size:36
Alignment explanation
Indices: 53757306--53757398 Score: 105
Period size: 36 Copynumber: 2.6 Consensus size: 36
53757296 GAATTTGCGT
*
53757306 CTTTGTTTGAGCTCGCAGCTTTCAAAGAGCTCGCAA
1 CTTTGTTTGAGCTCGCAGCTTTCAAAGAGCTCACAA
** * *
53757342 CTTTGTTTGAGCTTACAGCTTTCGATGAGCTCACAA
1 CTTTGTTTGAGCTCGCAGCTTTCAAAGAGCTCACAA
* ** *
53757378 CTCTGGATGAGCTCGTAGCTT
1 CTTTGTTTGAGCTCGCAGCTT
53757399 CAAGTGAACT
Statistics
Matches: 46, Mismatches: 11, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
36 46 1.00
ACGTcount: A:0.20, C:0.24, G:0.23, T:0.33
Consensus pattern (36 bp):
CTTTGTTTGAGCTCGCAGCTTTCAAAGAGCTCACAA
Found at i:53762378 original size:16 final size:17
Alignment explanation
Indices: 53762349--53762389 Score: 57
Period size: 17 Copynumber: 2.4 Consensus size: 17
53762339 ATATATATAT
*
53762349 AAAGTAAAAGGAATA-AA
1 AAAG-AAAAAGAATAGAA
53762366 AAAGAAAAAGAATAGAA
1 AAAGAAAAAGAATAGAA
53762383 AAAGAAA
1 AAAGAAA
53762390 GAAAGGATGA
Statistics
Matches: 22, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
16 9 0.41
17 13 0.59
ACGTcount: A:0.76, C:0.00, G:0.17, T:0.07
Consensus pattern (17 bp):
AAAGAAAAAGAATAGAA
Found at i:53762437 original size:16 final size:16
Alignment explanation
Indices: 53762418--53762456 Score: 51
Period size: 16 Copynumber: 2.4 Consensus size: 16
53762408 AGAGAGCAGG
* *
53762418 GGAAAGAAAGAAGGAA
1 GGAAAAAAAGAAAGAA
*
53762434 GGAAAAAAATAAAGAA
1 GGAAAAAAAGAAAGAA
53762450 GGAAAAA
1 GGAAAAA
53762457 GGGAAAAATT
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
16 20 1.00
ACGTcount: A:0.69, C:0.00, G:0.28, T:0.03
Consensus pattern (16 bp):
GGAAAAAAAGAAAGAA
Found at i:53764117 original size:46 final size:46
Alignment explanation
Indices: 53764050--53764231 Score: 249
Period size: 46 Copynumber: 4.0 Consensus size: 46
53764040 AGTGTGCTCT
* *
53764050 CTGATATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAAC
1 CTGACATGAAATGAGTAAGACCATGGTTGAAAGATACCATGGCAAC
* * *
53764096 CTGATATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAGC
1 CTGACATGAAATGAGTAAGACCATGGTTGAAAGATACCATGGCAAC
* *
53764142 GTGACATGAAATGAATAAGACCATGGTTGAAAGATACCATGGCAAC
1 CTGACATGAAATGAGTAAGACCATGGTTGAAAGATACCATGGCAAC
* * * *
53764188 ATGACA-GAAAATGAGTAAGACCATAGTTGAAAGACACTATGGCA
1 CTGACATG-AAATGAGTAAGACCATGGTTGAAAGATACCATGGCA
53764232 TCATGTCAAA
Statistics
Matches: 124, Mismatches: 11, Indels: 2
0.91 0.08 0.01
Matches are distributed among these distances:
45 1 0.01
46 123 0.99
ACGTcount: A:0.40, C:0.15, G:0.24, T:0.21
Consensus pattern (46 bp):
CTGACATGAAATGAGTAAGACCATGGTTGAAAGATACCATGGCAAC
Found at i:53767078 original size:18 final size:18
Alignment explanation
Indices: 53767057--53767091 Score: 54
Period size: 18 Copynumber: 1.9 Consensus size: 18
53767047 TAACAATAGC
53767057 AATTAAATATAT-TTATTT
1 AATTAAAT-TATGTTATTT
53767075 AATTAAATTATGTTATT
1 AATTAAATTATGTTATT
53767092 AGTTTTTTTT
Statistics
Matches: 16, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
17 3 0.19
18 13 0.81
ACGTcount: A:0.43, C:0.00, G:0.03, T:0.54
Consensus pattern (18 bp):
AATTAAATTATGTTATTT
Found at i:53768302 original size:25 final size:24
Alignment explanation
Indices: 53768274--53768333 Score: 77
Period size: 24 Copynumber: 2.5 Consensus size: 24
53768264 TTTTATTATA
53768274 TATTTAATATTTATATGAAATATTT
1 TATTTAATATTTAT-TGAAATATTT
* *
53768299 TATTTAATAATTATTTAAATATTT
1 TATTTAATATTTATTGAAATATTT
53768323 T-TTTACATATT
1 TATTTA-ATATT
53768334 AAATGGTCAA
Statistics
Matches: 31, Mismatches: 3, Indels: 3
0.84 0.08 0.08
Matches are distributed among these distances:
23 4 0.13
24 14 0.45
25 13 0.42
ACGTcount: A:0.38, C:0.02, G:0.02, T:0.58
Consensus pattern (24 bp):
TATTTAATATTTATTGAAATATTT
Found at i:53771862 original size:39 final size:40
Alignment explanation
Indices: 53771778--53771862 Score: 118
Period size: 39 Copynumber: 2.1 Consensus size: 40
53771768 ACTTAATTCA
* * *
53771778 CCAGCATTAAGCCTGCGGGACTTTAAACCCGGATACAATC
1 CCAGCATGAAGCCAGCGGGACTCTAAACCCGGATACAATC
*
53771818 CCAGCATGAAGCCAGCGGGTCTCT-AACCCGGATACAATC
1 CCAGCATGAAGCCAGCGGGACTCTAAACCCGGATACAATC
*
53771857 TCAGCA
1 CCAGCA
53771863 CAATTCATTT
Statistics
Matches: 40, Mismatches: 5, Indels: 1
0.87 0.11 0.02
Matches are distributed among these distances:
39 20 0.50
40 20 0.50
ACGTcount: A:0.29, C:0.32, G:0.21, T:0.18
Consensus pattern (40 bp):
CCAGCATGAAGCCAGCGGGACTCTAAACCCGGATACAATC
Found at i:53775896 original size:3 final size:3
Alignment explanation
Indices: 53775888--53775925 Score: 67
Period size: 3 Copynumber: 12.7 Consensus size: 3
53775878 CTTAATAAAT
*
53775888 TTA TTA TTA TTA TTA TTA TTA TCA TTA TTA TTA TTA TT
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TT
53775926 TCTTCCTATT
Statistics
Matches: 33, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
3 33 1.00
ACGTcount: A:0.32, C:0.03, G:0.00, T:0.66
Consensus pattern (3 bp):
TTA
Found at i:53778164 original size:16 final size:16
Alignment explanation
Indices: 53778140--53778194 Score: 58
Period size: 16 Copynumber: 3.4 Consensus size: 16
53778130 TGAATTACTG
*
53778140 ATTACAGCTCTATTCC
1 ATTACAGCTCTATTCA
* *
53778156 ATTATAGCTTTATTCA
1 ATTACAGCTCTATTCA
*
53778172 ATTACAGC-CTTATTCT
1 ATTACAGCTC-TATTCA
53778188 ATTACAG
1 ATTACAG
53778195 TAAACCAAAC
Statistics
Matches: 32, Mismatches: 6, Indels: 2
0.80 0.15 0.05
Matches are distributed among these distances:
16 32 1.00
ACGTcount: A:0.29, C:0.22, G:0.07, T:0.42
Consensus pattern (16 bp):
ATTACAGCTCTATTCA
Found at i:53795592 original size:18 final size:17
Alignment explanation
Indices: 53795565--53795604 Score: 62
Period size: 18 Copynumber: 2.3 Consensus size: 17
53795555 TTAAAAATGT
*
53795565 TTTTTTATAATTTTATAA
1 TTTTTAATAATTTTA-AA
53795583 TTTTTAATAATTTTAAA
1 TTTTTAATAATTTTAAA
53795600 TTTTT
1 TTTTT
53795605 TTAAAAAATA
Statistics
Matches: 21, Mismatches: 1, Indels: 1
0.91 0.04 0.04
Matches are distributed among these distances:
17 7 0.33
18 14 0.67
ACGTcount: A:0.33, C:0.00, G:0.00, T:0.68
Consensus pattern (17 bp):
TTTTTAATAATTTTAAA
Found at i:53801348 original size:33 final size:33
Alignment explanation
Indices: 53801292--53801365 Score: 103
Period size: 33 Copynumber: 2.2 Consensus size: 33
53801282 ATTATTATGT
* * *
53801292 GATATTATTTCTTAGCAAATTAATTCCTAATGA
1 GATATTATCTATTAACAAATTAATTCCTAATGA
* *
53801325 GATATTATCTATTAACAATTTAATTCCTAATGG
1 GATATTATCTATTAACAAATTAATTCCTAATGA
53801358 GATATTAT
1 GATATTAT
53801366 ATGATATTAT
Statistics
Matches: 36, Mismatches: 5, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
33 36 1.00
ACGTcount: A:0.36, C:0.11, G:0.09, T:0.43
Consensus pattern (33 bp):
GATATTATCTATTAACAAATTAATTCCTAATGA
Found at i:53804626 original size:28 final size:28
Alignment explanation
Indices: 53804589--53804643 Score: 110
Period size: 28 Copynumber: 2.0 Consensus size: 28
53804579 TTATTTGACC
53804589 TATGAATTTAGCCTATAAATAGGCTCTA
1 TATGAATTTAGCCTATAAATAGGCTCTA
53804617 TATGAATTTAGCCTATAAATAGGCTCT
1 TATGAATTTAGCCTATAAATAGGCTCT
53804644 TTTACAACCT
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
28 27 1.00
ACGTcount: A:0.35, C:0.15, G:0.15, T:0.36
Consensus pattern (28 bp):
TATGAATTTAGCCTATAAATAGGCTCTA
Found at i:53806253 original size:30 final size:29
Alignment explanation
Indices: 53806206--53806290 Score: 125
Period size: 30 Copynumber: 2.9 Consensus size: 29
53806196 AAAACCCTAG
*
53806206 CCACCTTGCTTCCACTTGCACCTACTCCA
1 CCACCTTGCTCCCACTTGCACCTACTCCA
*
53806235 CCACCTTGCCTCCCACTTGCACCTACTCTA
1 CCACCTTG-CTCCCACTTGCACCTACTCCA
*
53806265 CCACCTTATCTCCCACTTGCACCTAC
1 CCACCTT-GCTCCCACTTGCACCTAC
53806291 ACCATCAAAT
Statistics
Matches: 51, Mismatches: 3, Indels: 3
0.89 0.05 0.05
Matches are distributed among these distances:
29 8 0.16
30 43 0.84
ACGTcount: A:0.18, C:0.49, G:0.06, T:0.27
Consensus pattern (29 bp):
CCACCTTGCTCCCACTTGCACCTACTCCA
Found at i:53806806 original size:3 final size:3
Alignment explanation
Indices: 53806795--53806874 Score: 53
Period size: 3 Copynumber: 26.3 Consensus size: 3
53806785 TTTATTTTTT
* *
53806795 TTA TT- TTA TTA TTT TTA CTA TTA TT- TATA TTA TTA TTA TT- TCTCA
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA T-TA TTA TTA TTA TTA T-T-A
53806840 TGTA TATA TTA TTA TT- TATA TTA TTA TTA -TA TTA T
1 T-TA T-TA TTA TTA TTA T-TA TTA TTA TTA TTA TTA T
53806875 ATATACCCTC
Statistics
Matches: 62, Mismatches: 6, Indels: 18
0.72 0.07 0.21
Matches are distributed among these distances:
2 7 0.11
3 46 0.74
4 7 0.11
5 2 0.03
ACGTcount: A:0.30, C:0.04, G:0.01, T:0.65
Consensus pattern (3 bp):
TTA
Found at i:53806811 original size:9 final size:9
Alignment explanation
Indices: 53806786--53806874 Score: 56
Period size: 9 Copynumber: 9.4 Consensus size: 9
53806776 GAGCTTTGTT
*
53806786 TTATTTTTT
1 TTATTTTTA
53806795 TTA-TTTTA
1 TTATTTTTA
53806803 TTATTTTTA
1 TTATTTTTA
*
53806812 CTATTATTTA
1 TTATT-TTTA
*
53806822 -TATTATTA
1 TTATTTTTA
*
53806830 TTATTTCTCA
1 TTATTT-TTA
*
53806840 TGTATATATTA
1 T-TAT-TTTTA
*
53806851 TTATTTATA
1 TTATTTTTA
53806860 TTATTATTATA
1 TTATT-TT-TA
53806871 TTAT
1 TTAT
53806875 ATATACCCTC
Statistics
Matches: 62, Mismatches: 10, Indels: 14
0.72 0.12 0.16
Matches are distributed among these distances:
8 10 0.16
9 28 0.45
10 11 0.18
11 12 0.19
12 1 0.02
ACGTcount: A:0.28, C:0.03, G:0.01, T:0.67
Consensus pattern (9 bp):
TTATTTTTA
Found at i:53806816 original size:17 final size:14
Alignment explanation
Indices: 53806784--53806835 Score: 50
Period size: 15 Copynumber: 3.6 Consensus size: 14
53806774 GAGAGCTTTG
53806784 TTTTATTTTTTTTA
1 TTTTATTTTTTTTA
*
53806798 TTTTATTATTTTTA
1 TTTTATTTTTTTTA
* * *
53806812 CTATTATTTATATTA
1 -TTTTATTTTTTTTA
53806827 TTATTATTT
1 TT-TTATTT
53806836 CTCATGTATA
Statistics
Matches: 30, Mismatches: 6, Indels: 3
0.77 0.15 0.08
Matches are distributed among these distances:
14 14 0.47
15 16 0.53
ACGTcount: A:0.23, C:0.02, G:0.00, T:0.75
Consensus pattern (14 bp):
TTTTATTTTTTTTA
Found at i:53806834 original size:18 final size:18
Alignment explanation
Indices: 53806799--53806878 Score: 67
Period size: 18 Copynumber: 4.4 Consensus size: 18
53806789 TTTTTTTTAT
* *
53806799 TTTATTATTTTTACTATTA
1 TTTA-TATTATTATTATTA
53806818 TTTATATTATTATTATT-
1 TTTATATTATTATTATTA
* *
53806835 TCTCAT-GTATATATTATTA
1 T-TTATATTAT-TATTATTA
53806854 TTTATATTATTATTA-TA
1 TTTATATTATTATTATTA
53806871 TTATATAT
1 TT-TATAT
53806879 ACCCTCTCCA
Statistics
Matches: 50, Mismatches: 6, Indels: 11
0.75 0.09 0.16
Matches are distributed among these distances:
17 8 0.16
18 34 0.68
19 8 0.16
ACGTcount: A:0.31, C:0.04, G:0.01, T:0.64
Consensus pattern (18 bp):
TTTATATTATTATTATTA
Found at i:53806861 original size:12 final size:12
Alignment explanation
Indices: 53806794--53806874 Score: 78
Period size: 12 Copynumber: 6.8 Consensus size: 12
53806784 TTTTATTTTT
*
53806794 TTTATTTTATTA
1 TTTATATTATTA
* *
53806806 TTTTTACTATTA
1 TTTATATTATTA
53806818 TTTATATTATTA
1 TTTATATTATTA
* *
53806830 -TTAT-TTCTCA
1 TTTATATTATTA
53806840 TGTATATATTATTA
1 T-T-TATATTATTA
53806854 TTTATATTATTA
1 TTTATATTATTA
53806866 -TTATATTAT
1 TTTATATTAT
53806875 ATATACCCTC
Statistics
Matches: 56, Mismatches: 9, Indels: 9
0.76 0.12 0.12
Matches are distributed among these distances:
10 4 0.07
11 13 0.23
12 30 0.54
13 4 0.07
14 5 0.09
ACGTcount: A:0.30, C:0.04, G:0.01, T:0.65
Consensus pattern (12 bp):
TTTATATTATTA
Found at i:53810525 original size:12 final size:12
Alignment explanation
Indices: 53810510--53810539 Score: 51
Period size: 12 Copynumber: 2.5 Consensus size: 12
53810500 ACAATAATAC
53810510 TATATATAAATG
1 TATATATAAATG
*
53810522 TATATATATATG
1 TATATATAAATG
53810534 TATATA
1 TATATA
53810540 ATAGAAATAC
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
12 17 1.00
ACGTcount: A:0.47, C:0.00, G:0.07, T:0.47
Consensus pattern (12 bp):
TATATATAAATG
Found at i:53810782 original size:3 final size:3
Alignment explanation
Indices: 53810774--53810989 Score: 71
Period size: 3 Copynumber: 70.0 Consensus size: 3
53810764 GGGGTGATAT
*
53810774 TAA TAA TAA TAA TAA TAA TAA TAA TAA TACA -AA CAA TAA TACA TATA
1 TAA TAA TAA TAA TAA TAA TAA TAA TAA TA-A TAA TAA TAA TA-A TA-A
* * * *
53810821 TATA TAA TAA TAG TAT TCAGA -AA TAA -AA -AA TAA TAGA -AG TAA CAA
1 TA-A TAA TAA TAA TAA T-A-A TAA TAA TAA TAA TAA TA-A TAA TAA TAA
* * * *
53810866 TAA TGA TAG TAA TAA T-A TAAA TAA -ATA TAGA GAGGG T-A TATA TAA
1 TAA TAA TAA TAA TAA TAA T-AA TAA TA-A TA-A TA--A TAA TA-A TAA
53810911 T-A TAA TAA TAA T-A TAAA TAA TAA TATA TACA TGAGA -AA TAA TAA
1 TAA TAA TAA TAA TAA T-AA TAA TAA TA-A TA-A T-A-A TAA TAA TAA
* *
53810955 TAA TAA T-A TAAA TAA TAG TAA AAA TAA TAA -AA TAA
1 TAA TAA TAA T-AA TAA TAA TAA TAA TAA TAA TAA TAA
53810990 AAAAATAAAA
Statistics
Matches: 164, Mismatches: 24, Indels: 50
0.69 0.10 0.21
Matches are distributed among these distances:
2 19 0.12
3 112 0.68
4 30 0.18
5 3 0.02
ACGTcount: A:0.61, C:0.03, G:0.06, T:0.30
Consensus pattern (3 bp):
TAA
Found at i:53811532 original size:30 final size:30
Alignment explanation
Indices: 53811498--53811579 Score: 146
Period size: 30 Copynumber: 2.7 Consensus size: 30
53811488 GATGGTGTAG
*
53811498 GTGCAAGTGGGAGACAAGGTGGTGGAGTAA
1 GTGCAAGTGGGAGGCAAGGTGGTGGAGTAA
*
53811528 GTGCAAGTGGGAGGCAAGGTGGTGGAGTAG
1 GTGCAAGTGGGAGGCAAGGTGGTGGAGTAA
53811558 GTGCAAGTGGGAGGCAAGGTGG
1 GTGCAAGTGGGAGGCAAGGTGG
53811580 CTAGGGTTTT
Statistics
Matches: 50, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
30 50 1.00
ACGTcount: A:0.26, C:0.07, G:0.51, T:0.16
Consensus pattern (30 bp):
GTGCAAGTGGGAGGCAAGGTGGTGGAGTAA
Found at i:53811577 original size:18 final size:18
Alignment explanation
Indices: 53811496--53811578 Score: 55
Period size: 18 Copynumber: 5.3 Consensus size: 18
53811486 TTGATGGTGT
*
53811496 AGGTGCAAGTGGGAGACA
1 AGGTGCAAGTGGGAGGCA
*
53811514 AGGTG---GT-GGA-GTA
1 AGGTGCAAGTGGGAGGCA
53811527 A-GTGCAAGTGGGAGGCA
1 AGGTGCAAGTGGGAGGCA
*
53811544 AGGTG---GT-GGA-G-T
1 AGGTGCAAGTGGGAGGCA
53811556 AGGTGCAAGTGGGAGGCA
1 AGGTGCAAGTGGGAGGCA
53811574 AGGTG
1 AGGTG
53811579 GCTAGGGTTT
Statistics
Matches: 48, Mismatches: 5, Indels: 24
0.62 0.06 0.31
Matches are distributed among these distances:
12 8 0.17
13 3 0.06
14 6 0.12
15 8 0.17
16 6 0.12
17 4 0.08
18 13 0.27
ACGTcount: A:0.27, C:0.07, G:0.51, T:0.16
Consensus pattern (18 bp):
AGGTGCAAGTGGGAGGCA
Found at i:53833680 original size:139 final size:139
Alignment explanation
Indices: 53833432--53834401 Score: 1856
Period size: 139 Copynumber: 7.0 Consensus size: 139
53833422 TGCCTGTAAC
* * * *
53833432 GACTCGATTTTTGTTGGTGTT-AAAAATTTAATTTGAGAGTGAATTTT-TTAAATT-AAAAATTT
1 GACTCGATTTTTATTGGTGTTAAAAAATTCAATTTGAGGGTGAATTTTCTTAATTTGAAAAA-TT
* *
53833494 TATGAGTTAACTATAATAAAATATGTATATATAGTAATTTGACTTATAAAATTATTTATTTGAAT
65 TATGAGTTAACTATAAAAAAATACGTATATATAGTAATTTGACTTATAAAATTATTTATTTGAAT
53833559 AATTAGTGAT
130 AATTAGTGAT
53833569 GACTCGATTTTTATTGGTGTTAAAAAATTCAATTTGAGGGTGAATTTTCTTAATTTGAAAAATTT
1 GACTCGATTTTTATTGGTGTTAAAAAATTCAATTTGAGGGTGAATTTTCTTAATTTGAAAAATTT
53833634 ATGAGTTAACTATAAAAAAATACGTATATATAGTAATTTGACTTATAAAATTATTTATTTGAATA
66 ATGAGTTAACTATAAAAAAATACGTATATATAGTAATTTGACTTATAAAATTATTTATTTGAATA
53833699 ATTAGTGAT
131 ATTAGTGAT
53833708 GACTCGATTTTTATTGGTGTTAAAAAATTCAATTTGAGGGTGAATTTTCTTAATTTGAAAAATTT
1 GACTCGATTTTTATTGGTGTTAAAAAATTCAATTTGAGGGTGAATTTTCTTAATTTGAAAAATTT
53833773 ATGAGTTAACTATAAAAAAATACGTATATATAGTAATTTGACTTATAAAATTATTTATTTGAATA
66 ATGAGTTAACTATAAAAAAATACGTATATATAGTAATTTGACTTATAAAATTATTTATTTGAATA
53833838 ATTAGTGAT
131 ATTAGTGAT
53833847 GACTCGATTTTTATTGGTGTTAAAAAATTCAATTTGAGGGTGAATTTTCTTAATTTGAAAAATTT
1 GACTCGATTTTTATTGGTGTTAAAAAATTCAATTTGAGGGTGAATTTTCTTAATTTGAAAAATTT
53833912 ATGAGTTAACTATAAAAAAATACGTATATATAGTAATTTGACTTATAAAATTATTTATTTGAATA
66 ATGAGTTAACTATAAAAAAATACGTATATATAGTAATTTGACTTATAAAATTATTTATTTGAATA
53833977 ATTAGTGAT
131 ATTAGTGAT
53833986 GACTCGATTTTTATTGGTGTTAAAAAATTCAATTTGAGGGTGAATTTTCTTAATTTGAAAAATTT
1 GACTCGATTTTTATTGGTGTTAAAAAATTCAATTTGAGGGTGAATTTTCTTAATTTGAAAAATTT
53834051 ATGAGTTAACTATAAAAAAATACGTATATATAGTAATTTGACTTATAAAATTATTTATTTGAATA
66 ATGAGTTAACTATAAAAAAATACGTATATATAGTAATTTGACTTATAAAATTATTTATTTGAATA
53834116 ATTAGTGAT
131 ATTAGTGAT
53834125 GACTCGATTTTTATTGGTGTTAAAAAATTCAATTTGAGGGTGAATTTTCTTAATTTGAAAAATTT
1 GACTCGATTTTTATTGGTGTTAAAAAATTCAATTTGAGGGTGAATTTTCTTAATTTGAAAAATTT
53834190 ATGAGTTAACTATAAAAAAATACGTATATATAGTAATTTGACTTATAAAATTATTTATTTGAATA
66 ATGAGTTAACTATAAAAAAATACGTATATATAGTAATTTGACTTATAAAATTATTTATTTGAATA
53834255 ATTAGTGAT
131 ATTAGTGAT
53834264 GACTCGATTTTTATTGGTGTTAAAAAATTCAATTTGAGGGTGAATTTTCTTAATTTGAAAAATTT
1 GACTCGATTTTTATTGGTGTTAAAAAATTCAATTTGAGGGTGAATTTTCTTAATTTGAAAAATTT
53834329 ATGAGTTAACTATAAAAAAATACGTATATATAGTAATTTGACTTATAAAATTATTTATTTGAATA
66 ATGAGTTAACTATAAAAAAATACGTATATATAGTAATTTGACTTATAAAATTATTTATTTGAATA
53834394 ATTAGTGA
131 ATTAGTGA
53834402 AAATAGTATA
Statistics
Matches: 824, Mismatches: 6, Indels: 4
0.99 0.01 0.00
Matches are distributed among these distances:
137 20 0.02
138 24 0.03
139 775 0.94
140 5 0.01
ACGTcount: A:0.39, C:0.05, G:0.14, T:0.43
Consensus pattern (139 bp):
GACTCGATTTTTATTGGTGTTAAAAAATTCAATTTGAGGGTGAATTTTCTTAATTTGAAAAATTT
ATGAGTTAACTATAAAAAAATACGTATATATAGTAATTTGACTTATAAAATTATTTATTTGAATA
ATTAGTGAT
Found at i:53834820 original size:10 final size:11
Alignment explanation
Indices: 53834785--53834825 Score: 52
Period size: 10 Copynumber: 4.0 Consensus size: 11
53834775 TTTAATTTTG
53834785 GTATTTATCTT
1 GTATTTATCTT
*
53834796 -TAATTATCTT
1 GTATTTATCTT
53834806 G-ATTTA-CTT
1 GTATTTATCTT
53834815 GTATTTATCTT
1 GTATTTATCTT
53834826 TTAAAATTTA
Statistics
Matches: 25, Mismatches: 2, Indels: 6
0.76 0.06 0.18
Matches are distributed among these distances:
9 4 0.16
10 18 0.72
11 3 0.12
ACGTcount: A:0.22, C:0.10, G:0.07, T:0.61
Consensus pattern (11 bp):
GTATTTATCTT
Found at i:53845534 original size:3 final size:3
Alignment explanation
Indices: 53845526--53845583 Score: 116
Period size: 3 Copynumber: 19.3 Consensus size: 3
53845516 ATAAAGAGAG
53845526 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA
53845574 ATA ATA ATA A
1 ATA ATA ATA A
53845584 AGAGAAAAAG
Statistics
Matches: 55, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 55 1.00
ACGTcount: A:0.67, C:0.00, G:0.00, T:0.33
Consensus pattern (3 bp):
ATA
Found at i:53845736 original size:10 final size:10
Alignment explanation
Indices: 53845706--53845730 Score: 50
Period size: 10 Copynumber: 2.5 Consensus size: 10
53845696 TTGATCCTTT
53845706 TTTAAAAAAA
1 TTTAAAAAAA
53845716 TTTAAAAAAA
1 TTTAAAAAAA
53845726 TTTAA
1 TTTAA
53845731 TTAAATAAGA
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
10 15 1.00
ACGTcount: A:0.64, C:0.00, G:0.00, T:0.36
Consensus pattern (10 bp):
TTTAAAAAAA
Found at i:53846123 original size:31 final size:32
Alignment explanation
Indices: 53846088--53846149 Score: 74
Period size: 31 Copynumber: 2.0 Consensus size: 32
53846078 AATTTGTGAG
* *
53846088 AATTAAA-TCAAATTAAAATTT-TATGTAAAAA
1 AATTAAACT-AAATCAAAATTTATATATAAAAA
*
53846119 AATTACACTAAATCAAAATTTATATATAAAA
1 AATTAAACTAAATCAAAATTTATATATAAAA
53846150 TTACACGCTA
Statistics
Matches: 26, Mismatches: 3, Indels: 3
0.81 0.09 0.09
Matches are distributed among these distances:
31 17 0.65
32 9 0.35
ACGTcount: A:0.58, C:0.06, G:0.02, T:0.34
Consensus pattern (32 bp):
AATTAAACTAAATCAAAATTTATATATAAAAA
Found at i:53849561 original size:27 final size:27
Alignment explanation
Indices: 53849531--53849620 Score: 126
Period size: 27 Copynumber: 3.2 Consensus size: 27
53849521 GCCTTTGCCA
53849531 CCACCAACTCCACTAGCCACACTTGCT
1 CCACCAACTCCACTAGCCACACTTGCT
* *
53849558 CCACCTACTCCACTAGCCACACTTGTT
1 CCACCAACTCCACTAGCCACACTTGCT
*
53849585 CCACCACCTACTCCATTAGCCACACTTGCT
1 CCACCA---ACTCCACTAGCCACACTTGCT
53849615 CCACCA
1 CCACCA
53849621 CCACTTGTAC
Statistics
Matches: 55, Mismatches: 5, Indels: 3
0.87 0.08 0.05
Matches are distributed among these distances:
27 30 0.55
30 25 0.45
ACGTcount: A:0.24, C:0.48, G:0.07, T:0.21
Consensus pattern (27 bp):
CCACCAACTCCACTAGCCACACTTGCT
Found at i:53849594 original size:30 final size:29
Alignment explanation
Indices: 53849528--53849622 Score: 131
Period size: 30 Copynumber: 3.3 Consensus size: 29
53849518 CTAGCCTTTG
*
53849528 CCACCACCAACTCCACTAGCCACACTTG-
1 CCACCACCTACTCCACTAGCCACACTTGT
*
53849556 -CTCCACCTACTCCACTAGCCACACTTGTT
1 CCACCACCTACTCCACTAGCCACACTTG-T
*
53849585 CCACCACCTACTCCATTAGCCACACTTGCT
1 CCACCACCTACTCCACTAGCCACACTTG-T
53849615 CCACCACC
1 CCACCACC
53849623 ACTTGTACCT
Statistics
Matches: 59, Mismatches: 5, Indels: 4
0.87 0.07 0.06
Matches are distributed among these distances:
27 25 0.42
30 34 0.58
ACGTcount: A:0.24, C:0.49, G:0.06, T:0.20
Consensus pattern (29 bp):
CCACCACCTACTCCACTAGCCACACTTGT
Found at i:53851411 original size:250 final size:250
Alignment explanation
Indices: 53850960--53851466 Score: 942
Period size: 250 Copynumber: 2.0 Consensus size: 250
53850950 AATCGATTTT
* * *
53850960 AAATTTACTGCATTGCATGTTGTCTGTTATTTTCGCGACTCTCTTCATAATATGCTTGCTTTAAG
1 AAATGTACTACATTGCATGTTGTCTGTTATTTTCACGACTCTCTTCATAATATGCTTGCTTTAAG
53851025 TGGTTTAATTCTTTGAGGTATCTTTGCATATCGCATCGCATTATTGGTCGATTTCACCCTCTTAA
66 TGGTTTAATTCTTTGAGGTATCTTTGCATATCGCATCGCATTATTGGTCGATTTCACCCTCTTAA
53851090 GTGGAAGTAAAAAACTACTCCTTGGTGAGGTCTTCACCTCCGTATAGGATAGTGGATCGCTTTCG
131 GTGGAAGTAAAAAACTACTCCTTGGTGAGGTCTTCACCTCCGTATAGGATAGTGGATCGCTTTCG
* *
53851155 GGATACATTTGTACCTGTGTCTTCGTGGGGTTTTCACCTCCGTATAGCCATAGGG
196 GGATACATTCGTACCTGCGTCTTCGTGGGGTTTTCACCTCCGTATAGCCATAGGG
53851210 AAATGTACTACATTGCATGTTGTCTGTTATTTTCACGACTCTCTTCATAATATGCTTGCTTTAAG
1 AAATGTACTACATTGCATGTTGTCTGTTATTTTCACGACTCTCTTCATAATATGCTTGCTTTAAG
53851275 TGGTTTAATTCTTTGAGGTATCTTTGCATATCGCATCGCATTATTGGTCGATTTCACCCTCTTAA
66 TGGTTTAATTCTTTGAGGTATCTTTGCATATCGCATCGCATTATTGGTCGATTTCACCCTCTTAA
* *
53851340 GTGGAAGTAAAACACTACTCCTTTGTGAGGTCTTCACCTCCGTATAGGATAGTGGATCGCTTTCG
131 GTGGAAGTAAAAAACTACTCCTTGGTGAGGTCTTCACCTCCGTATAGGATAGTGGATCGCTTTCG
*
53851405 GGATACATTCGTACCTGCGTCTTCGTGGGGTTTTCACCTCCGTATAGCCGTAGGG
196 GGATACATTCGTACCTGCGTCTTCGTGGGGTTTTCACCTCCGTATAGCCATAGGG
53851460 AAATGTA
1 AAATGTA
53851467 TTCCCCTGAA
Statistics
Matches: 249, Mismatches: 8, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
250 249 1.00
ACGTcount: A:0.21, C:0.20, G:0.21, T:0.37
Consensus pattern (250 bp):
AAATGTACTACATTGCATGTTGTCTGTTATTTTCACGACTCTCTTCATAATATGCTTGCTTTAAG
TGGTTTAATTCTTTGAGGTATCTTTGCATATCGCATCGCATTATTGGTCGATTTCACCCTCTTAA
GTGGAAGTAAAAAACTACTCCTTGGTGAGGTCTTCACCTCCGTATAGGATAGTGGATCGCTTTCG
GGATACATTCGTACCTGCGTCTTCGTGGGGTTTTCACCTCCGTATAGCCATAGGG
Found at i:53861471 original size:73 final size:72
Alignment explanation
Indices: 53861381--53861556 Score: 300
Period size: 73 Copynumber: 2.4 Consensus size: 72
53861371 AAAAAGGAAA
*
53861381 ATCAAGATGAAAACCCGAAAAAGGGCATCTTAAAAAAAAGAGAAAAGAAAAGAAAAAAGAAAAAG
1 ATCAAGGTGAAAACCCGAAAAAGGGCATCTT-AAAAAAAGAGAAAAGAAAAGAAAAAAGAAAAAG
53861446 AGAGAGGG
65 AGAGAGGG
*
53861454 ATCAAGGTGAAAACCCGAAAAAAAGGCATCTTAAAAAAAGAGAAAAGAAAAGAAAAAAGAAAAAG
1 ATCAAGGTGAAAACCCG-AAAAAGGGCATCTTAAAAAAAGAGAAAAGAAAAGAAAAAAGAAAAAG
53861519 AGAGAGGG
65 AGAGAGGG
*
53861527 ATCAAGGTGAAAACCC-AAAAAGGGCGTCTT
1 ATCAAGGTGAAAACCCGAAAAAGGGCATCTT
53861557 GATTAACACA
Statistics
Matches: 98, Mismatches: 4, Indels: 4
0.92 0.04 0.04
Matches are distributed among these distances:
71 12 0.12
73 73 0.74
74 13 0.13
ACGTcount: A:0.58, C:0.10, G:0.23, T:0.09
Consensus pattern (72 bp):
ATCAAGGTGAAAACCCGAAAAAGGGCATCTTAAAAAAAGAGAAAAGAAAAGAAAAAAGAAAAAGA
GAGAGGG
Found at i:53861504 original size:12 final size:13
Alignment explanation
Indices: 53861488--53861521 Score: 52
Period size: 12 Copynumber: 2.7 Consensus size: 13
53861478 GGCATCTTAA
53861488 AAAAAGAGAAAAG
1 AAAAAGAGAAAAG
*
53861501 -AAAAGAAAAAAG
1 AAAAAGAGAAAAG
53861513 AAAAAGAGA
1 AAAAAGAGA
53861522 GAGGGATCAA
Statistics
Matches: 18, Mismatches: 2, Indels: 2
0.82 0.09 0.09
Matches are distributed among these distances:
12 11 0.61
13 7 0.39
ACGTcount: A:0.79, C:0.00, G:0.21, T:0.00
Consensus pattern (13 bp):
AAAAAGAGAAAAG
Found at i:53862489 original size:90 final size:90
Alignment explanation
Indices: 53862391--53862642 Score: 400
Period size: 90 Copynumber: 2.8 Consensus size: 90
53862381 TGTCTTTCAA
* *
53862391 AAAAATCAACTCATATTGCGAAAGGCGAGTTGGGCCTCAGGTCACACGCTGAGGTATTTTCAATT
1 AAAAATCAACTCATATTGCGAGAGGTGAGTTGGGCCTCAGGTCACACGCTGAGGTATTTTCAATT
53862456 TCTGTTTTTTCAATTTATGCTTTTC
66 TCTGTTTTTTCAATTTATGCTTTTC
*
53862481 AAAAATCAACTCATATTGCGAGAGGTGAGTTGGGCCTCAGGTCATACGCTGAGGTATTTTCAATT
1 AAAAATCAACTCATATTGCGAGAGGTGAGTTGGGCCTCAGGTCACACGCTGAGGTATTTTCAATT
*
53862546 TCCGTTTTTTCAATTTATGCTTTTC
66 TCTGTTTTTTCAATTTATGCTTTTC
* * ** * *
53862571 AAAAATCAACTCATATTGCGAGAGGTGAGCTGAGCCTC-GG-GGCACGCCGAGGTATTTTTAATT
1 AAAAATCAACTCATATTGCGAGAGGTGAGTTGGGCCTCAGGTCACACGCTGAGGTATTTTCAATT
53862634 TCTGTTTTT
66 TCTGTTTTT
53862643 CAANNNNNNN
Statistics
Matches: 150, Mismatches: 12, Indels: 2
0.91 0.07 0.01
Matches are distributed among these distances:
88 26 0.17
89 2 0.01
90 122 0.81
ACGTcount: A:0.25, C:0.18, G:0.21, T:0.36
Consensus pattern (90 bp):
AAAAATCAACTCATATTGCGAGAGGTGAGTTGGGCCTCAGGTCACACGCTGAGGTATTTTCAATT
TCTGTTTTTTCAATTTATGCTTTTC
Found at i:53870205 original size:50 final size:50
Alignment explanation
Indices: 53870130--53870229 Score: 200
Period size: 50 Copynumber: 2.0 Consensus size: 50
53870120 ATCTAAAATA
53870130 TAGAAAAAAAATCGATTGAAATGGTTCAACCGATTTTCATAATTAAATTC
1 TAGAAAAAAAATCGATTGAAATGGTTCAACCGATTTTCATAATTAAATTC
53870180 TAGAAAAAAAATCGATTGAAATGGTTCAACCGATTTTCATAATTAAATTC
1 TAGAAAAAAAATCGATTGAAATGGTTCAACCGATTTTCATAATTAAATTC
53870230 AACTAATTCC
Statistics
Matches: 50, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
50 50 1.00
ACGTcount: A:0.44, C:0.12, G:0.12, T:0.32
Consensus pattern (50 bp):
TAGAAAAAAAATCGATTGAAATGGTTCAACCGATTTTCATAATTAAATTC
Found at i:53877422 original size:17 final size:18
Alignment explanation
Indices: 53877381--53877423 Score: 54
Period size: 17 Copynumber: 2.5 Consensus size: 18
53877371 TGTCAAAGTT
*
53877381 GGATTCTAATAGCTATAA
1 GGATTCAAATAGCTATAA
*
53877399 GGA-TCAAATAGCTAT-G
1 GGATTCAAATAGCTATAA
53877415 GGATTCAAA
1 GGATTCAAA
53877424 ATGTGAGGTC
Statistics
Matches: 22, Mismatches: 2, Indels: 3
0.81 0.07 0.11
Matches are distributed among these distances:
16 3 0.14
17 16 0.73
18 3 0.14
ACGTcount: A:0.40, C:0.12, G:0.21, T:0.28
Consensus pattern (18 bp):
GGATTCAAATAGCTATAA
Found at i:53878536 original size:33 final size:33
Alignment explanation
Indices: 53878490--53878642 Score: 157
Period size: 33 Copynumber: 4.7 Consensus size: 33
53878480 TACCTAAATG
* * *
53878490 GTAC-ACTTGAAAAGGTTATGTGCACTTTGTGT
1 GTACAACTTGAAAAGGATATGTACACTTTGAGT
* * *
53878522 GTACAATTTGAAAAGGCTATGTACACTTTGCGT
1 GTACAACTTGAAAAGGATATGTACACTTTGAGT
* *
53878555 GTACAACTTGAAAAGAATACGTACACTTTGAGT
1 GTACAACTTGAAAAGGATATGTACACTTTGAGT
* * *
53878588 GTACCACTTGAAAAGGGA-ATGTACACCTCGAGT
1 GTACAACTTGAAAA-GGATATGTACACTTTGAGT
* * *
53878621 GTACGACTGGAAAAGGTTATGT
1 GTACAACTTGAAAAGGATATGT
53878643 CCATCAGAAA
Statistics
Matches: 101, Mismatches: 17, Indels: 5
0.82 0.14 0.04
Matches are distributed among these distances:
32 6 0.06
33 93 0.92
34 2 0.02
ACGTcount: A:0.32, C:0.15, G:0.24, T:0.29
Consensus pattern (33 bp):
GTACAACTTGAAAAGGATATGTACACTTTGAGT
Found at i:53882995 original size:7 final size:7
Alignment explanation
Indices: 53882983--53883007 Score: 50
Period size: 7 Copynumber: 3.6 Consensus size: 7
53882973 AATGCTGAAG
53882983 CATTGAC
1 CATTGAC
53882990 CATTGAC
1 CATTGAC
53882997 CATTGAC
1 CATTGAC
53883004 CATT
1 CATT
53883008 TAAGACTACA
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 18 1.00
ACGTcount: A:0.28, C:0.28, G:0.12, T:0.32
Consensus pattern (7 bp):
CATTGAC
Found at i:53884001 original size:22 final size:22
Alignment explanation
Indices: 53883974--53884016 Score: 86
Period size: 22 Copynumber: 2.0 Consensus size: 22
53883964 TAAATTTATT
53883974 ACTTAAACAAAATTTTATTTAG
1 ACTTAAACAAAATTTTATTTAG
53883996 ACTTAAACAAAATTTTATTTA
1 ACTTAAACAAAATTTTATTTA
53884017 ATTTTATTAC
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
22 21 1.00
ACGTcount: A:0.47, C:0.09, G:0.02, T:0.42
Consensus pattern (22 bp):
ACTTAAACAAAATTTTATTTAG
Found at i:53889940 original size:20 final size:19
Alignment explanation
Indices: 53889917--53889955 Score: 51
Period size: 20 Copynumber: 2.0 Consensus size: 19
53889907 TAGAAAAGAA
*
53889917 AATTTAATTTTAGATATTTT
1 AATTTAATGTTA-ATATTTT
*
53889937 AATTTTATGTTAATATTTT
1 AATTTAATGTTAATATTTT
53889956 TTCAAGTTTT
Statistics
Matches: 17, Mismatches: 2, Indels: 1
0.85 0.10 0.05
Matches are distributed among these distances:
19 7 0.41
20 10 0.59
ACGTcount: A:0.33, C:0.00, G:0.05, T:0.62
Consensus pattern (19 bp):
AATTTAATGTTAATATTTT
Found at i:53897924 original size:19 final size:18
Alignment explanation
Indices: 53897902--53897942 Score: 50
Period size: 18 Copynumber: 2.3 Consensus size: 18
53897892 AAAACTTCAA
53897902 TAAAATTTTTAGATAATG-C
1 TAAAATTTTTA-A-AATGTC
53897921 T-AAATTTTTAAAATGTC
1 TAAAATTTTTAAAATGTC
53897938 TAAAA
1 TAAAA
53897943 AGTTATTTTA
Statistics
Matches: 20, Mismatches: 0, Indels: 5
0.80 0.00 0.20
Matches are distributed among these distances:
16 4 0.20
17 3 0.15
18 12 0.60
19 1 0.05
ACGTcount: A:0.46, C:0.05, G:0.07, T:0.41
Consensus pattern (18 bp):
TAAAATTTTTAAAATGTC
Found at i:53902093 original size:2 final size:2
Alignment explanation
Indices: 53902086--53902126 Score: 82
Period size: 2 Copynumber: 20.5 Consensus size: 2
53902076 CATCACATAT
53902086 AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG A
1 AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG A
53902127 AAAGAAAGAG
Statistics
Matches: 39, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 39 1.00
ACGTcount: A:0.51, C:0.00, G:0.49, T:0.00
Consensus pattern (2 bp):
AG
Found at i:53904974 original size:83 final size:82
Alignment explanation
Indices: 53904815--53904976 Score: 218
Period size: 83 Copynumber: 2.0 Consensus size: 82
53904805 TTACGTTTTG
* *** * *
53904815 TAAAAGTGGTTAATTTTTAATTTTGGTTTTTTTAATATGTTTAAATTTGATATTTAATCCTTATA
1 TAAAAGTGGTTAATTTTCAATTTTGGTTCAATCAATATGCTTAAATTTGATATTTAATCCTTATA
*
53904880 TTTTAATTTCTAACCTA
66 ATTTAATTTCTAACCTA
* *
53904897 TAAAAGTGGTTAATTTTCAGTTTTGG-TCAATCAATATGCTTAAATTTGAGATTTTTAATCCTTA
1 TAAAAGTGGTTAATTTTCAATTTTGGTTCAATCAATATGCTTAAATTT--GATATTTAATCCTTA
53904961 TAATTTAATTTCTAAC
64 TAATTTAATTTCTAAC
53904977 ATAATTTGGT
Statistics
Matches: 69, Mismatches: 9, Indels: 3
0.85 0.11 0.04
Matches are distributed among these distances:
81 16 0.23
82 24 0.35
83 29 0.42
ACGTcount: A:0.31, C:0.08, G:0.10, T:0.51
Consensus pattern (82 bp):
TAAAAGTGGTTAATTTTCAATTTTGGTTCAATCAATATGCTTAAATTTGATATTTAATCCTTATA
ATTTAATTTCTAACCTA
Found at i:53906110 original size:151 final size:151
Alignment explanation
Indices: 53905832--53906131 Score: 528
Period size: 151 Copynumber: 2.0 Consensus size: 151
53905822 TGGGTGAAGC
* * *
53905832 GGAATTTTATTTATACAGCATTTTATTTATACGATGAACTTAAAAAACTAATTTTTATTATATTT
1 GGAATTTTATTTATACAACATTTTATTTATACGATGAACTTAAAAAAATAATTTTCATTATATTT
* * *
53905897 AAGAATTTTTTACATTCACTAATCATATTAGATTTTGATTAAATTTGAAGTCGAATAAATTCGGA
66 AAGAACTTTTCACATTCACTAATCACATTAGATTTTGATTAAATTTGAAGTCGAATAAATTCGGA
53905962 TCCTTTAAATAAGAAAAAAGT
131 TCCTTTAAATAAGAAAAAAGT
53905983 GGAATTTTATTTATACAACATTTTATTTATACGATGAACTTAAAAAAATAATTTTCATTATATTT
1 GGAATTTTATTTATACAACATTTTATTTATACGATGAACTTAAAAAAATAATTTTCATTATATTT
* *
53906048 AAGAACTTTTCACATTCACTAATCACATTAGATTTTGATTATATTTGAAGTCGAATAGATTCGGA
66 AAGAACTTTTCACATTCACTAATCACATTAGATTTTGATTAAATTTGAAGTCGAATAAATTCGGA
53906113 TCCTTTAAATAAGAAAAAA
131 TCCTTTAAATAAGAAAAAA
53906132 AGTTCTCTCA
Statistics
Matches: 141, Mismatches: 8, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
151 141 1.00
ACGTcount: A:0.40, C:0.10, G:0.10, T:0.41
Consensus pattern (151 bp):
GGAATTTTATTTATACAACATTTTATTTATACGATGAACTTAAAAAAATAATTTTCATTATATTT
AAGAACTTTTCACATTCACTAATCACATTAGATTTTGATTAAATTTGAAGTCGAATAAATTCGGA
TCCTTTAAATAAGAAAAAAGT
Found at i:53922576 original size:26 final size:26
Alignment explanation
Indices: 53922540--53922596 Score: 105
Period size: 26 Copynumber: 2.2 Consensus size: 26
53922530 AGTATCTATG
53922540 ATATTAGCAACATTTATGTTCAACAC
1 ATATTAGCAACATTTATGTTCAACAC
*
53922566 ATATTAGCAACATTTTTGTTCAACAC
1 ATATTAGCAACATTTATGTTCAACAC
53922592 ATATT
1 ATATT
53922597 CCTTCAGACA
Statistics
Matches: 30, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
26 30 1.00
ACGTcount: A:0.37, C:0.18, G:0.07, T:0.39
Consensus pattern (26 bp):
ATATTAGCAACATTTATGTTCAACAC
Done.