Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Chr09 85040211
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: 85040211
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
Warning! 160 characters in sequence are not A, C, G, or T
File 190 of 292
Found at i:56628406 original size:13 final size:13
Alignment explanation
Indices: 56628381--56628414 Score: 52
Period size: 13 Copynumber: 2.7 Consensus size: 13
56628371 TAAAACATAT
56628381 AATGTAT-AATAA
1 AATGTATAAATAA
*
56628393 AATTTATAAATAA
1 AATGTATAAATAA
56628406 AATGTATAA
1 AATGTATAA
56628415 TAATAAAAAT
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
12 6 0.32
13 13 0.68
ACGTcount: A:0.59, C:0.00, G:0.06, T:0.35
Consensus pattern (13 bp):
AATGTATAAATAA
Found at i:56628426 original size:25 final size:25
Alignment explanation
Indices: 56628381--56628455 Score: 73
Period size: 25 Copynumber: 3.0 Consensus size: 25
56628371 TAAAACATAT
**
56628381 AATGTATAATAA-AATTTATAAATAA
1 AATGTATAATAATAA-AAATAAATAA
*
56628406 AATGTATAATAATAAAAAT-AATAT
1 AATGTATAATAATAAAAATAAATAA
* *
56628430 AATGAATAATATATAAAAAAAAATAA
1 AATGTATAATA-ATAAAAATAAATAA
56628456 TATATATTAT
Statistics
Matches: 41, Mismatches: 6, Indels: 5
0.79 0.12 0.10
Matches are distributed among these distances:
24 14 0.34
25 21 0.51
26 6 0.15
ACGTcount: A:0.65, C:0.00, G:0.04, T:0.31
Consensus pattern (25 bp):
AATGTATAATAATAAAAATAAATAA
Found at i:56631678 original size:40 final size:40
Alignment explanation
Indices: 56631593--56631743 Score: 132
Period size: 40 Copynumber: 3.8 Consensus size: 40
56631583 AATTGAATGA
* * * **
56631593 TATCCGGGCTAA-ATCCCGAAGACAATTATGCTG-GAAATTT
1 TATCCGGGCTAAGA-CCCGAAGGCAATTGTGC-GAGACATAC
* * *
56631633 TATCCGGGTTAAGACCCGAAGGCAATTGTGCTAGTGGC-TAC
1 TATCCGGGCTAAGACCCGAAGGCAATTGTGC--GAGACATAC
*
56631674 -ATCCGGGCTAAGACCCGAAGGC-ATTCGTGCGAGACATTC
1 TATCCGGGCTAAGACCCGAAGGCAATT-GTGCGAGACATAC
*
56631713 TATCCGGGCTAAGACCCGAAGGCATTTGTGC
1 TATCCGGGCTAAGACCCGAAGGCAATTGTGC
56631744 ACATGGTTAT
Statistics
Matches: 91, Mismatches: 13, Indels: 14
0.77 0.11 0.12
Matches are distributed among these distances:
38 3 0.03
39 5 0.05
40 77 0.85
41 5 0.05
42 1 0.01
ACGTcount: A:0.26, C:0.24, G:0.26, T:0.23
Consensus pattern (40 bp):
TATCCGGGCTAAGACCCGAAGGCAATTGTGCGAGACATAC
Found at i:56631757 original size:40 final size:40
Alignment explanation
Indices: 56631633--56631759 Score: 132
Period size: 40 Copynumber: 3.2 Consensus size: 40
56631623 CTGGAAATTT
* * * * *
56631633 TATCCGGGTTAAGACCCGAAGGCAATTGTGCTAGTGGCTA
1 TATCCGGGCTAAGACCCGAAGGCATTTGTGCGAATGGTTA
* * ** *
56631673 CATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGA-CATTC
1 TATCCGGGCTAAGACCCGAAGGCATTTGTGCGA-ATGGTTA
56631713 TATCCGGGCTAAGACCCGAAGGCATTTGTGC-ACATGGTTA
1 TATCCGGGCTAAGACCCGAAGGCATTTGTGCGA-ATGGTTA
56631753 TATCCGG
1 TATCCGG
56631760 TTATGTTCCG
Statistics
Matches: 69, Mismatches: 16, Indels: 4
0.78 0.18 0.04
Matches are distributed among these distances:
39 2 0.03
40 67 0.97
ACGTcount: A:0.24, C:0.24, G:0.28, T:0.23
Consensus pattern (40 bp):
TATCCGGGCTAAGACCCGAAGGCATTTGTGCGAATGGTTA
Found at i:56641228 original size:46 final size:46
Alignment explanation
Indices: 56641176--56641581 Score: 591
Period size: 46 Copynumber: 8.8 Consensus size: 46
56641166 AGTGTGCTCT
*
56641176 CTGATATGGAATGTGTAAGACCATGGTTGAAAGATACCATGGCAAC
1 CTGATATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAAC
56641222 CTGATATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAAC
1 CTGATATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAAC
*
56641268 GC-GATATGGAATGTGTAAGACCATGGTTGAAAGATACCATGGCAAC
1 -CTGATATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAAC
56641314 CTGATATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAAC
1 CTGATATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAAC
*
56641360 GTGATATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAAC
1 CTGATATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAAC
* **
56641406 GTGATATGAAATGAATAAGACCATGGTTGAAAGATACCATGGCAAC
1 CTGATATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAAC
* * *
56641452 CTGACATGAAATGAGTAAGACCATGGTTGAAAGATACCATGTCAAC
1 CTGATATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAAC
* *** **
56641498 ATGACGGGAAAATGAATAAGACCATGGTTGAAAGATACCATGGCAAC
1 CTGATATG-AAATGTGTAAGACCATGGTTGAAAGATACCATGGCAAC
* * * * *
56641545 ATGATA-GAAAACGAGTAAAACCATAGTTGAAAGATAC
1 CTGATATG-AAATGTGTAAGACCATGGTTGAAAGATAC
56641582 TATGACATCA
Statistics
Matches: 336, Mismatches: 21, Indels: 6
0.93 0.06 0.02
Matches are distributed among these distances:
45 1 0.00
46 294 0.88
47 41 0.12
ACGTcount: A:0.39, C:0.15, G:0.24, T:0.22
Consensus pattern (46 bp):
CTGATATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAAC
Found at i:56645357 original size:22 final size:22
Alignment explanation
Indices: 56645321--56645364 Score: 61
Period size: 22 Copynumber: 2.0 Consensus size: 22
56645311 GAAAATAATC
* *
56645321 AAAATTAATGGAAATTTATTAT
1 AAAATTAATGAAAATTCATTAT
*
56645343 AAAATTAATTAAAATTCATTAT
1 AAAATTAATGAAAATTCATTAT
56645365 GTTAATAATT
Statistics
Matches: 19, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
22 19 1.00
ACGTcount: A:0.52, C:0.02, G:0.05, T:0.41
Consensus pattern (22 bp):
AAAATTAATGAAAATTCATTAT
Found at i:56647195 original size:25 final size:25
Alignment explanation
Indices: 56647167--56647217 Score: 84
Period size: 25 Copynumber: 2.0 Consensus size: 25
56647157 CCCTTATAAT
* *
56647167 GTGAAAATGACCATTTTGCCCCTAG
1 GTGAAAATGACCATTATACCCCTAG
56647192 GTGAAAATGACCATTATACCCCTAG
1 GTGAAAATGACCATTATACCCCTAG
56647217 G
1 G
56647218 GATATGTTAT
Statistics
Matches: 24, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
25 24 1.00
ACGTcount: A:0.31, C:0.24, G:0.20, T:0.25
Consensus pattern (25 bp):
GTGAAAATGACCATTATACCCCTAG
Found at i:56647272 original size:10 final size:10
Alignment explanation
Indices: 56647257--56647296 Score: 71
Period size: 10 Copynumber: 3.9 Consensus size: 10
56647247 CTGTTTTGTA
56647257 CATGATATGC
1 CATGATATGC
56647267 CATGATATGC
1 CATGATATGC
56647277 ACATGATATGC
1 -CATGATATGC
56647288 CATGATATG
1 CATGATATG
56647297 TTCATATATG
Statistics
Matches: 29, Mismatches: 0, Indels: 2
0.94 0.00 0.06
Matches are distributed among these distances:
10 19 0.66
11 10 0.34
ACGTcount: A:0.33, C:0.17, G:0.20, T:0.30
Consensus pattern (10 bp):
CATGATATGC
Found at i:56647282 original size:21 final size:21
Alignment explanation
Indices: 56647256--56647296 Score: 82
Period size: 21 Copynumber: 2.0 Consensus size: 21
56647246 ACTGTTTTGT
56647256 ACATGATATGCCATGATATGC
1 ACATGATATGCCATGATATGC
56647277 ACATGATATGCCATGATATG
1 ACATGATATGCCATGATATG
56647297 TTCATATATG
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
21 20 1.00
ACGTcount: A:0.34, C:0.17, G:0.20, T:0.29
Consensus pattern (21 bp):
ACATGATATGCCATGATATGC
Found at i:56647376 original size:25 final size:25
Alignment explanation
Indices: 56647342--56647411 Score: 131
Period size: 25 Copynumber: 2.8 Consensus size: 25
56647332 GAGGAAGTGC
*
56647342 AAAAGGGCTTTGCCCCAGTTTACCG
1 AAAAGGGCTTTGCCCCAGTTTACCA
56647367 AAAAGGGCTTTGCCCCAGTTTACCA
1 AAAAGGGCTTTGCCCCAGTTTACCA
56647392 AAAAGGGCTTTGCCCCAGTT
1 AAAAGGGCTTTGCCCCAGTT
56647412 ATTAAAAGAG
Statistics
Matches: 44, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
25 44 1.00
ACGTcount: A:0.26, C:0.27, G:0.23, T:0.24
Consensus pattern (25 bp):
AAAAGGGCTTTGCCCCAGTTTACCA
Found at i:56647435 original size:50 final size:50
Alignment explanation
Indices: 56647342--56647436 Score: 122
Period size: 50 Copynumber: 1.9 Consensus size: 50
56647332 GAGGAAGTGC
**
56647342 AAAAGGGCTTTGCCCCAGTTTACCGAAAAGGGCTTTGCCCCAGTTTACCA
1 AAAAGGGCTTTGCCCCAGTTTACCGAAAAGGGCTAGGCCCCAGTTTACCA
**
56647392 AAAAGGGCTTTGCCCCAG-TTA-TTAAAAGAGGCTAGGCCTCCAGTT
1 AAAAGGGCTTTGCCCCAGTTTACCGAAAAG-GGCTAGGCC-CCAGTT
56647437 ATATGATAAA
Statistics
Matches: 39, Mismatches: 4, Indels: 4
0.83 0.09 0.09
Matches are distributed among these distances:
48 5 0.13
49 10 0.26
50 24 0.62
ACGTcount: A:0.27, C:0.25, G:0.23, T:0.24
Consensus pattern (50 bp):
AAAAGGGCTTTGCCCCAGTTTACCGAAAAGGGCTAGGCCCCAGTTTACCA
Found at i:56647667 original size:31 final size:31
Alignment explanation
Indices: 56647632--56647698 Score: 125
Period size: 31 Copynumber: 2.2 Consensus size: 31
56647622 CGTTTACAGT
56647632 AAAGGCTTCGGCCCAGTGATATAAATAATGA
1 AAAGGCTTCGGCCCAGTGATATAAATAATGA
*
56647663 AAAGGCTTCGGCCCAGTGATATGAATAATGA
1 AAAGGCTTCGGCCCAGTGATATAAATAATGA
56647694 AAAGG
1 AAAGG
56647699 GTTAGCCCAG
Statistics
Matches: 35, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
31 35 1.00
ACGTcount: A:0.39, C:0.15, G:0.25, T:0.21
Consensus pattern (31 bp):
AAAGGCTTCGGCCCAGTGATATAAATAATGA
Found at i:56647709 original size:30 final size:31
Alignment explanation
Indices: 56647632--56647714 Score: 116
Period size: 31 Copynumber: 2.7 Consensus size: 31
56647622 CGTTTACAGT
* *
56647632 AAAGGCTTCGGCCCAGTGATATAAATAATGA
1 AAAGGCTTCAGCCCAGTGATATGAATAATGA
*
56647663 AAAGGCTTCGGCCCAGTGATATGAATAATGA
1 AAAGGCTTCAGCCCAGTGATATGAATAATGA
*
56647694 AAAGGGTT-AGCCCAGT-ATATG
1 AAAGGCTTCAGCCCAGTGATATG
56647715 TTGAGACTGA
Statistics
Matches: 49, Mismatches: 3, Indels: 2
0.91 0.06 0.04
Matches are distributed among these distances:
29 5 0.10
30 7 0.14
31 37 0.76
ACGTcount: A:0.36, C:0.16, G:0.25, T:0.23
Consensus pattern (31 bp):
AAAGGCTTCAGCCCAGTGATATGAATAATGA
Found at i:56649910 original size:6 final size:6
Alignment explanation
Indices: 56649899--56649931 Score: 66
Period size: 6 Copynumber: 5.5 Consensus size: 6
56649889 AAGGTAGGGG
56649899 TGGTAA TGGTAA TGGTAA TGGTAA TGGTAA TGG
1 TGGTAA TGGTAA TGGTAA TGGTAA TGGTAA TGG
56649932 ACGTGGATGT
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 27 1.00
ACGTcount: A:0.30, C:0.00, G:0.36, T:0.33
Consensus pattern (6 bp):
TGGTAA
Found at i:56655137 original size:25 final size:25
Alignment explanation
Indices: 56655109--56655159 Score: 84
Period size: 25 Copynumber: 2.0 Consensus size: 25
56655099 CCCTTATAAT
* *
56655109 GTGAAAATGACCATTTTGCCCCTAG
1 GTGAAAATGACCATTATACCCCTAG
56655134 GTGAAAATGACCATTATACCCCTAG
1 GTGAAAATGACCATTATACCCCTAG
56655159 G
1 G
56655160 GATATGTTAT
Statistics
Matches: 24, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
25 24 1.00
ACGTcount: A:0.31, C:0.24, G:0.20, T:0.25
Consensus pattern (25 bp):
GTGAAAATGACCATTATACCCCTAG
Found at i:56655214 original size:10 final size:10
Alignment explanation
Indices: 56655199--56655238 Score: 71
Period size: 10 Copynumber: 3.9 Consensus size: 10
56655189 TTGTTTTGTA
56655199 CATGATATGC
1 CATGATATGC
56655209 CATGATATGC
1 CATGATATGC
56655219 ACATGATATGC
1 -CATGATATGC
56655230 CATGATATG
1 CATGATATG
56655239 TTCATATATG
Statistics
Matches: 29, Mismatches: 0, Indels: 2
0.94 0.00 0.06
Matches are distributed among these distances:
10 19 0.66
11 10 0.34
ACGTcount: A:0.33, C:0.17, G:0.20, T:0.30
Consensus pattern (10 bp):
CATGATATGC
Found at i:56655224 original size:21 final size:21
Alignment explanation
Indices: 56655198--56655238 Score: 82
Period size: 21 Copynumber: 2.0 Consensus size: 21
56655188 ATTGTTTTGT
56655198 ACATGATATGCCATGATATGC
1 ACATGATATGCCATGATATGC
56655219 ACATGATATGCCATGATATG
1 ACATGATATGCCATGATATG
56655239 TTCATATATG
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
21 20 1.00
ACGTcount: A:0.34, C:0.17, G:0.20, T:0.29
Consensus pattern (21 bp):
ACATGATATGCCATGATATGC
Found at i:56655562 original size:31 final size:31
Alignment explanation
Indices: 56655524--56655593 Score: 113
Period size: 31 Copynumber: 2.3 Consensus size: 31
56655514 CGTTTACAGT
56655524 AAAGGCTTCGACCCAGTGATATAAATAATGA
1 AAAGGCTTCGACCCAGTGATATAAATAATGA
* * *
56655555 AAAGGCTTCGGCCTAGTGATATGAATAATGA
1 AAAGGCTTCGACCCAGTGATATAAATAATGA
56655586 AAAGGCTT
1 AAAGGCTT
56655594 AGGCCAGTAT
Statistics
Matches: 36, Mismatches: 3, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
31 36 1.00
ACGTcount: A:0.39, C:0.14, G:0.23, T:0.24
Consensus pattern (31 bp):
AAAGGCTTCGACCCAGTGATATAAATAATGA
Found at i:56657286 original size:3 final size:3
Alignment explanation
Indices: 56657223--56657267 Score: 90
Period size: 3 Copynumber: 15.0 Consensus size: 3
56657213 AAAAAATATG
56657223 ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT
1 ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT
56657268 TGAGATGTTT
Statistics
Matches: 42, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 42 1.00
ACGTcount: A:0.33, C:0.00, G:0.00, T:0.67
Consensus pattern (3 bp):
ATT
Found at i:56663433 original size:2 final size:2
Alignment explanation
Indices: 56663428--56663453 Score: 52
Period size: 2 Copynumber: 13.0 Consensus size: 2
56663418 ACACACACAC
56663428 AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT
56663454 GAAATTAAGA
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 24 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:56663636 original size:40 final size:40
Alignment explanation
Indices: 56663558--56663641 Score: 100
Period size: 40 Copynumber: 2.1 Consensus size: 40
56663548 GCCCCTGTTC
* * *
56663558 GCACTTCGGTGCCCCTGTATATAGTTTAGTGTTCCTATTT
1 GCACTTCGGTGCCACTGTATATACTTCAGTGTTCCTATTT
*
56663598 GCACTTCGGTGCCACTGTAT-TCACTTCGGTG-TCTCTATTT
1 GCACTTCGGTGCCACTGTATAT-ACTTCAGTGTTC-CTATTT
56663638 GCAC
1 GCAC
56663642 GTTTGTGCCT
Statistics
Matches: 38, Mismatches: 4, Indels: 4
0.83 0.09 0.09
Matches are distributed among these distances:
39 3 0.08
40 35 0.92
ACGTcount: A:0.14, C:0.26, G:0.20, T:0.39
Consensus pattern (40 bp):
GCACTTCGGTGCCACTGTATATACTTCAGTGTTCCTATTT
Found at i:56663670 original size:20 final size:20
Alignment explanation
Indices: 56663595--56663670 Score: 66
Period size: 20 Copynumber: 3.8 Consensus size: 20
56663585 AGTGTTCCTA
*
56663595 TTTGCACTTCGGTGCCACTGT
1 TTTGCACTTCGGTGCCTCT-T
* * *
56663616 ATT-CACTTCGGTGTCTCTA
1 TTTGCACTTCGGTGCCTCTT
*
56663635 TTTGCACGTT-TGTGCCTCTT
1 TTTGCAC-TTCGGTGCCTCTT
*
56663655 TTTGCACTTCGATGCC
1 TTTGCACTTCGGTGCC
56663671 CCTATATATA
Statistics
Matches: 42, Mismatches: 10, Indels: 7
0.71 0.17 0.12
Matches are distributed among these distances:
19 4 0.10
20 34 0.81
21 4 0.10
ACGTcount: A:0.11, C:0.28, G:0.20, T:0.42
Consensus pattern (20 bp):
TTTGCACTTCGGTGCCTCTT
Found at i:56663703 original size:20 final size:20
Alignment explanation
Indices: 56663585--56663704 Score: 61
Period size: 20 Copynumber: 6.0 Consensus size: 20
56663575 TATATAGTTT
*
56663585 AGTGTTCCTATTTGCACTTC
1 AGTGTCCCTATTTGCACTTC
* *
56663605 GGTG-CCACTGTATT-CACTTC
1 AGTGTCC-CTAT-TTGCACTTC
* *
56663625 GGTGTCTCTATTTGCACGTT-
1 AGTGTCCCTATTTGCAC-TTC
* *
56663645 TGTG-CCTCTTTTTGCACTTC
1 AGTGTCC-CTATTTGCACTTC
* * **
56663665 -GATGCCCCTATATATACTTC
1 AG-TGTCCCTATTTGCACTTC
56663685 AGTGTCCCTATTTGCACTTC
1 AGTGTCCCTATTTGCACTTC
56663705 GATGCATCTG
Statistics
Matches: 74, Mismatches: 16, Indels: 20
0.67 0.15 0.18
Matches are distributed among these distances:
19 7 0.09
20 59 0.80
21 8 0.11
ACGTcount: A:0.14, C:0.28, G:0.17, T:0.42
Consensus pattern (20 bp):
AGTGTCCCTATTTGCACTTC
Found at i:56663730 original size:40 final size:40
Alignment explanation
Indices: 56663655--56663738 Score: 105
Period size: 40 Copynumber: 2.1 Consensus size: 40
56663645 TGTGCCTCTT
* *
56663655 TTTGCACTTCGATGCCCCTATATATACTTCAGTGTCCCTA
1 TTTGCACTTCGATGCACCTATATACACTTCAGTGTCCCTA
* * ** *
56663695 TTTGCACTTCGATGCATCTGTATACACTTTGGTGTCTCTA
1 TTTGCACTTCGATGCACCTATATACACTTCAGTGTCCCTA
56663735 TTTG
1 TTTG
56663739 TACGTCTGTG
Statistics
Matches: 37, Mismatches: 7, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
40 37 1.00
ACGTcount: A:0.18, C:0.25, G:0.15, T:0.42
Consensus pattern (40 bp):
TTTGCACTTCGATGCACCTATATACACTTCAGTGTCCCTA
Found at i:56663731 original size:100 final size:100
Alignment explanation
Indices: 56663547--56663760 Score: 295
Period size: 100 Copynumber: 2.1 Consensus size: 100
56663537 AATGAAGAAC
* * * * * * *
56663547 TGCCCCTGTTCGCACTTCGGTGCCCCTGTATATAGTTTAGTGTTCCTATTTGCACTTCGGTGCCA
1 TGCCCCTGTTTGCACTTCGATGCCCCTATATATACTTCAGTGTCCCTATTTGCACTTCGATGCCA
* *
56663612 CTGTATTCACTTCGGTGTCTCTATTTGCACGTTTG
66 CTGTATACACTTCGGTGTCTCTATTTGCACGTCTG
* *
56663647 TGCCTCTTTTTGCACTTCGATGCCCCTATATATACTTCAGTGTCCCTATTTGCACTTCGATG-CA
1 TGCCCCTGTTTGCACTTCGATGCCCCTATATATACTTCAGTGTCCCTATTTGCACTTCGATGCCA
* *
56663711 TCTGTATACACTTTGGTGTCTCTATTTGTACGTCTG
66 -CTGTATACACTTCGGTGTCTCTATTTGCACGTCTG
56663747 TGCCCCTGTTTGCA
1 TGCCCCTGTTTGCA
56663761 TTTAAGTGTC
Statistics
Matches: 98, Mismatches: 15, Indels: 2
0.85 0.13 0.02
Matches are distributed among these distances:
99 2 0.02
100 96 0.98
ACGTcount: A:0.14, C:0.27, G:0.19, T:0.41
Consensus pattern (100 bp):
TGCCCCTGTTTGCACTTCGATGCCCCTATATATACTTCAGTGTCCCTATTTGCACTTCGATGCCA
CTGTATACACTTCGGTGTCTCTATTTGCACGTCTG
Found at i:56667788 original size:24 final size:24
Alignment explanation
Indices: 56667761--56667839 Score: 122
Period size: 24 Copynumber: 3.3 Consensus size: 24
56667751 AAAGGCTGTC
56667761 AGGAGAAGATTTAGGAGCTGATAA
1 AGGAGAAGATTTAGGAGCTGATAA
* *
56667785 AGGAGAGGATGTAGGAGCTGATAA
1 AGGAGAAGATTTAGGAGCTGATAA
* *
56667809 GGGAGAAGATTTAGGAGCTGATTA
1 AGGAGAAGATTTAGGAGCTGATAA
56667833 AGGAGAA
1 AGGAGAA
56667840 CGGTGTTGGC
Statistics
Matches: 48, Mismatches: 7, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
24 48 1.00
ACGTcount: A:0.39, C:0.04, G:0.38, T:0.19
Consensus pattern (24 bp):
AGGAGAAGATTTAGGAGCTGATAA
Found at i:56670168 original size:16 final size:16
Alignment explanation
Indices: 56670142--56670174 Score: 50
Period size: 16 Copynumber: 2.1 Consensus size: 16
56670132 CTTAACAGTA
56670142 ACTTCACCAGAAGCAAC
1 ACTTCACCAGAAG-AAC
56670159 ACTT-ACCAGAAGAAC
1 ACTTCACCAGAAGAAC
56670174 A
1 A
56670175 TCGACTGACT
Statistics
Matches: 16, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
15 4 0.25
16 8 0.50
17 4 0.25
ACGTcount: A:0.45, C:0.30, G:0.12, T:0.12
Consensus pattern (16 bp):
ACTTCACCAGAAGAAC
Found at i:56675804 original size:46 final size:46
Alignment explanation
Indices: 56675751--56675923 Score: 208
Period size: 46 Copynumber: 3.7 Consensus size: 46
56675741 TGGTTGAGCA
*
56675751 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAATG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAACG
* * * * * *
56675797 TCTGAACTCGTTGAGTTGAGTCCGAGTTC-GTGA--AATGTAACTAGGCA
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAA--A--CG
56675844 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAACG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAACG
* *
56675890 CCCGAGCTCGTTGAGTTGAGTCCGAGTTCACTTA
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTA
56675924 GGGGCGGGTT
Statistics
Matches: 105, Mismatches: 15, Indels: 14
0.78 0.11 0.10
Matches are distributed among these distances:
43 5 0.05
45 3 0.03
46 61 0.58
47 28 0.27
48 3 0.03
50 5 0.05
ACGTcount: A:0.23, C:0.21, G:0.27, T:0.29
Consensus pattern (46 bp):
TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAACG
Found at i:56675907 original size:93 final size:93
Alignment explanation
Indices: 56675748--56675918 Score: 306
Period size: 93 Copynumber: 1.8 Consensus size: 93
56675738 GGATGGTTGA
* * *
56675748 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAATGTCTGAACTCGTTGAGT
1 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAACGCCCGAACTCGTTGAGT
56675813 TGAGTCCGAGTTCGTGAAATGTAACTAG
66 TGAGTCCGAGTTCGTGAAATGTAACTAG
*
56675841 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAACGCCCGAGCTCGTTGAGT
1 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAACGCCCGAACTCGTTGAGT
56675906 TGAGTCCGAGTTC
66 TGAGTCCGAGTTC
56675919 ACTTAGGGGC
Statistics
Matches: 74, Mismatches: 4, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
93 74 1.00
ACGTcount: A:0.23, C:0.21, G:0.27, T:0.29
Consensus pattern (93 bp):
GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAACGCCCGAACTCGTTGAGT
TGAGTCCGAGTTCGTGAAATGTAACTAG
Found at i:56682305 original size:46 final size:45
Alignment explanation
Indices: 56682141--56682311 Score: 204
Period size: 46 Copynumber: 3.7 Consensus size: 45
56682131 GGTTGAGCAT
* *
56682141 CCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAATGT
1 CCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAACGC
* * * *
56682186 CCGAACTCGTTGAGTTGAGTCCGAGTTC-GTGA--AATGTAACTAGGC
1 CCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAC---GC
56682231 ATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGC
1 --CCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGC-AACGC
*
56682279 CCGAGCTCGTTGAGTTGAGTCCGAGTTCACTTA
1 CCGAACTCGTTGAGTTGAGTCCGAGTTCACTTA
56682312 GGGGGGTTAC
Statistics
Matches: 106, Mismatches: 11, Indels: 17
0.79 0.08 0.13
Matches are distributed among these distances:
42 5 0.05
44 2 0.02
45 29 0.27
46 32 0.30
47 28 0.26
48 4 0.04
50 3 0.03
51 3 0.03
ACGTcount: A:0.22, C:0.22, G:0.27, T:0.29
Consensus pattern (45 bp):
CCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAACGC
Found at i:56684615 original size:19 final size:19
Alignment explanation
Indices: 56684593--56684634 Score: 59
Period size: 19 Copynumber: 2.2 Consensus size: 19
56684583 TCTCGTCGAC
*
56684593 TTCTTCTTTTTTCATTT-TT
1 TTCTTCTTCTTTC-TTTCTT
56684612 TTCTTCTTCTTTCTTTCTT
1 TTCTTCTTCTTTCTTTCTT
56684631 TTCT
1 TTCT
56684635 CATCTGTTCT
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
18 3 0.14
19 18 0.86
ACGTcount: A:0.02, C:0.21, G:0.00, T:0.76
Consensus pattern (19 bp):
TTCTTCTTCTTTCTTTCTT
Found at i:56688605 original size:27 final size:28
Alignment explanation
Indices: 56688549--56688618 Score: 124
Period size: 27 Copynumber: 2.5 Consensus size: 28
56688539 AAACTTGTAC
56688549 AGCACTAAGTGTGCGAGTTTGATCATAT
1 AGCACTAAGTGTGCGAGTTTGATCATAT
*
56688577 AGCACTAAGTGTGCGAG-TTGATTATAT
1 AGCACTAAGTGTGCGAGTTTGATCATAT
56688604 AGCACTAAGTGTGCG
1 AGCACTAAGTGTGCG
56688619 GACTCACTAT
Statistics
Matches: 41, Mismatches: 1, Indels: 1
0.95 0.02 0.02
Matches are distributed among these distances:
27 24 0.59
28 17 0.41
ACGTcount: A:0.29, C:0.14, G:0.27, T:0.30
Consensus pattern (28 bp):
AGCACTAAGTGTGCGAGTTTGATCATAT
Found at i:56688629 original size:27 final size:27
Alignment explanation
Indices: 56688549--56688630 Score: 78
Period size: 27 Copynumber: 3.0 Consensus size: 27
56688539 AAACTTGTAC
* *
56688549 AGCACTAAGTGTGCGAGTTTGA-TCATAT
1 AGCACTAAGTGTGCGAG-CTCACT-ATAT
* * *
56688577 AGCACTAAGTGTGCGAGTTGATTATAT
1 AGCACTAAGTGTGCGAGCTCACTATAT
56688604 AGCACTAAGTGTGCG-GACTCACTATAT
1 AGCACTAAGTGTGCGAG-CTCACTATAT
56688631 GCTTTTGAAT
Statistics
Matches: 49, Mismatches: 3, Indels: 5
0.86 0.05 0.09
Matches are distributed among these distances:
26 1 0.02
27 30 0.61
28 18 0.37
ACGTcount: A:0.29, C:0.16, G:0.24, T:0.30
Consensus pattern (27 bp):
AGCACTAAGTGTGCGAGCTCACTATAT
Found at i:56696607 original size:27 final size:28
Alignment explanation
Indices: 56696551--56696620 Score: 124
Period size: 27 Copynumber: 2.5 Consensus size: 28
56696541 AAACTTGTAC
56696551 AGCACTAAGTGTGCGAGTTTGATCATAT
1 AGCACTAAGTGTGCGAGTTTGATCATAT
*
56696579 AGCACTAAGTGTGCGAG-TTGATTATAT
1 AGCACTAAGTGTGCGAGTTTGATCATAT
56696606 AGCACTAAGTGTGCG
1 AGCACTAAGTGTGCG
56696621 GACTCACTAT
Statistics
Matches: 41, Mismatches: 1, Indels: 1
0.95 0.02 0.02
Matches are distributed among these distances:
27 24 0.59
28 17 0.41
ACGTcount: A:0.29, C:0.14, G:0.27, T:0.30
Consensus pattern (28 bp):
AGCACTAAGTGTGCGAGTTTGATCATAT
Found at i:56696631 original size:27 final size:27
Alignment explanation
Indices: 56696551--56696632 Score: 78
Period size: 27 Copynumber: 3.0 Consensus size: 27
56696541 AAACTTGTAC
* *
56696551 AGCACTAAGTGTGCGAGTTTGA-TCATAT
1 AGCACTAAGTGTGCGAG-CTCACT-ATAT
* * *
56696579 AGCACTAAGTGTGCGAGTTGATTATAT
1 AGCACTAAGTGTGCGAGCTCACTATAT
56696606 AGCACTAAGTGTGCG-GACTCACTATAT
1 AGCACTAAGTGTGCGAG-CTCACTATAT
56696633 GCTTTTGAAT
Statistics
Matches: 49, Mismatches: 3, Indels: 5
0.86 0.05 0.09
Matches are distributed among these distances:
26 1 0.02
27 30 0.61
28 18 0.37
ACGTcount: A:0.29, C:0.16, G:0.24, T:0.30
Consensus pattern (27 bp):
AGCACTAAGTGTGCGAGCTCACTATAT
Found at i:56699763 original size:27 final size:28
Alignment explanation
Indices: 56699707--56699776 Score: 124
Period size: 27 Copynumber: 2.5 Consensus size: 28
56699697 AAACTTGTAC
56699707 AGCACTAAGTGTGCGAGTTTGATCATAT
1 AGCACTAAGTGTGCGAGTTTGATCATAT
*
56699735 AGCACTAAGTGTGCGAG-TTGATTATAT
1 AGCACTAAGTGTGCGAGTTTGATCATAT
56699762 AGCACTAAGTGTGCG
1 AGCACTAAGTGTGCG
56699777 GACTCACTAT
Statistics
Matches: 41, Mismatches: 1, Indels: 1
0.95 0.02 0.02
Matches are distributed among these distances:
27 24 0.59
28 17 0.41
ACGTcount: A:0.29, C:0.14, G:0.27, T:0.30
Consensus pattern (28 bp):
AGCACTAAGTGTGCGAGTTTGATCATAT
Found at i:56699787 original size:27 final size:27
Alignment explanation
Indices: 56699707--56699788 Score: 78
Period size: 27 Copynumber: 3.0 Consensus size: 27
56699697 AAACTTGTAC
* *
56699707 AGCACTAAGTGTGCGAGTTTGA-TCATAT
1 AGCACTAAGTGTGCGAG-CTCACT-ATAT
* * *
56699735 AGCACTAAGTGTGCGAGTTGATTATAT
1 AGCACTAAGTGTGCGAGCTCACTATAT
56699762 AGCACTAAGTGTGCG-GACTCACTATAT
1 AGCACTAAGTGTGCGAG-CTCACTATAT
56699789 GCTTTTGAAT
Statistics
Matches: 49, Mismatches: 3, Indels: 5
0.86 0.05 0.09
Matches are distributed among these distances:
26 1 0.02
27 30 0.61
28 18 0.37
ACGTcount: A:0.29, C:0.16, G:0.24, T:0.30
Consensus pattern (27 bp):
AGCACTAAGTGTGCGAGCTCACTATAT
Found at i:56707746 original size:27 final size:28
Alignment explanation
Indices: 56707690--56707759 Score: 124
Period size: 27 Copynumber: 2.5 Consensus size: 28
56707680 AAACTTGTAC
56707690 AGCACTAAGTGTGCGAGTTTGATCATAT
1 AGCACTAAGTGTGCGAGTTTGATCATAT
*
56707718 AGCACTAAGTGTGCGAG-TTGATTATAT
1 AGCACTAAGTGTGCGAGTTTGATCATAT
56707745 AGCACTAAGTGTGCG
1 AGCACTAAGTGTGCG
56707760 GACTCACTAT
Statistics
Matches: 41, Mismatches: 1, Indels: 1
0.95 0.02 0.02
Matches are distributed among these distances:
27 24 0.59
28 17 0.41
ACGTcount: A:0.29, C:0.14, G:0.27, T:0.30
Consensus pattern (28 bp):
AGCACTAAGTGTGCGAGTTTGATCATAT
Found at i:56707770 original size:27 final size:27
Alignment explanation
Indices: 56707690--56707771 Score: 78
Period size: 27 Copynumber: 3.0 Consensus size: 27
56707680 AAACTTGTAC
* *
56707690 AGCACTAAGTGTGCGAGTTTGA-TCATAT
1 AGCACTAAGTGTGCGAG-CTCACT-ATAT
* * *
56707718 AGCACTAAGTGTGCGAGTTGATTATAT
1 AGCACTAAGTGTGCGAGCTCACTATAT
56707745 AGCACTAAGTGTGCG-GACTCACTATAT
1 AGCACTAAGTGTGCGAG-CTCACTATAT
56707772 GCTTTTGAAT
Statistics
Matches: 49, Mismatches: 3, Indels: 5
0.86 0.05 0.09
Matches are distributed among these distances:
26 1 0.02
27 30 0.61
28 18 0.37
ACGTcount: A:0.29, C:0.16, G:0.24, T:0.30
Consensus pattern (27 bp):
AGCACTAAGTGTGCGAGCTCACTATAT
Found at i:56713412 original size:3 final size:3
Alignment explanation
Indices: 56713404--56713429 Score: 52
Period size: 3 Copynumber: 8.7 Consensus size: 3
56713394 CATTTATTTC
56713404 ATT ATT ATT ATT ATT ATT ATT ATT AT
1 ATT ATT ATT ATT ATT ATT ATT ATT AT
56713430 CATGTTCATT
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 23 1.00
ACGTcount: A:0.35, C:0.00, G:0.00, T:0.65
Consensus pattern (3 bp):
ATT
Found at i:56719929 original size:25 final size:25
Alignment explanation
Indices: 56719901--56719951 Score: 75
Period size: 25 Copynumber: 2.0 Consensus size: 25
56719891 CCCTTATAAT
* * *
56719901 GTGAAAATGACCATTTTGCCCCTAG
1 GTGAAAATAACCATTATACCCCTAG
56719926 GTGAAAATAACCATTATACCCCTAG
1 GTGAAAATAACCATTATACCCCTAG
56719951 G
1 G
56719952 GATATGTTAC
Statistics
Matches: 23, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
25 23 1.00
ACGTcount: A:0.33, C:0.24, G:0.18, T:0.25
Consensus pattern (25 bp):
GTGAAAATAACCATTATACCCCTAG
Found at i:56720004 original size:10 final size:10
Alignment explanation
Indices: 56719991--56720030 Score: 71
Period size: 10 Copynumber: 3.9 Consensus size: 10
56719981 CTGTTTTATA
56719991 CATGATATGC
1 CATGATATGC
56720001 CATGATATGC
1 CATGATATGC
56720011 ACATGATATGC
1 -CATGATATGC
56720022 CATGATATG
1 CATGATATG
56720031 TTCATATATG
Statistics
Matches: 29, Mismatches: 0, Indels: 2
0.94 0.00 0.06
Matches are distributed among these distances:
10 19 0.66
11 10 0.34
ACGTcount: A:0.33, C:0.17, G:0.20, T:0.30
Consensus pattern (10 bp):
CATGATATGC
Found at i:56720016 original size:21 final size:21
Alignment explanation
Indices: 56719990--56720030 Score: 82
Period size: 21 Copynumber: 2.0 Consensus size: 21
56719980 ACTGTTTTAT
56719990 ACATGATATGCCATGATATGC
1 ACATGATATGCCATGATATGC
56720011 ACATGATATGCCATGATATG
1 ACATGATATGCCATGATATG
56720031 TTCATATATG
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
21 20 1.00
ACGTcount: A:0.34, C:0.17, G:0.20, T:0.29
Consensus pattern (21 bp):
ACATGATATGCCATGATATGC
Found at i:56720110 original size:25 final size:24
Alignment explanation
Indices: 56720075--56720145 Score: 106
Period size: 25 Copynumber: 2.9 Consensus size: 24
56720065 GGAGGAAGTG
* *
56720075 CAAAAGGGCTTTGCCCTAGTTTAC
1 CAAAAAGGCTTTGCCCCAGTTTAC
56720099 CGAAAAAGGCTTTGCCCCAGTTTAC
1 C-AAAAAGGCTTTGCCCCAGTTTAC
56720124 CAAAAAGGGCTTTGCCCCAGTT
1 CAAAAA-GGCTTTGCCCCAGTT
56720146 ATTAAAAGAG
Statistics
Matches: 43, Mismatches: 2, Indels: 3
0.90 0.04 0.06
Matches are distributed among these distances:
24 6 0.14
25 37 0.86
ACGTcount: A:0.27, C:0.27, G:0.21, T:0.25
Consensus pattern (24 bp):
CAAAAAGGCTTTGCCCCAGTTTAC
Found at i:56720158 original size:24 final size:23
Alignment explanation
Indices: 56720075--56720172 Score: 79
Period size: 25 Copynumber: 4.0 Consensus size: 23
56720065 GGAGGAAGTG
* * *
56720075 CAAAAGGGCTTTGCCCTAGTTTAC
1 CAAAAAGGCTTTGCCCCAG-TTAT
*
56720099 CGAAAAAGGCTTTGCCCCAGTTTAC
1 C-AAAAAGGCTTTGCCCCAG-TTAT
56720124 CAAAAAGGGCTTTGCCCCAGTTAT
1 CAAAAA-GGCTTTGCCCCAGTTAT
* **
56720148 TAAAAGAGGCTAGGCCTCCAGTTAT
1 CAAAA-AGGCTTTGCC-CCAGTTAT
56720173 ATGATAAAAC
Statistics
Matches: 64, Mismatches: 6, Indels: 7
0.83 0.08 0.09
Matches are distributed among these distances:
24 20 0.31
25 44 0.69
ACGTcount: A:0.29, C:0.24, G:0.21, T:0.26
Consensus pattern (23 bp):
CAAAAAGGCTTTGCCCCAGTTAT
Found at i:56720169 original size:50 final size:50
Alignment explanation
Indices: 56720076--56720170 Score: 113
Period size: 50 Copynumber: 1.9 Consensus size: 50
56720066 GAGGAAGTGC
* **
56720076 AAAAGGGCTTTGCCCTAGTTTACCGAAAAAGGCTTTGCCCCAGTTTACCA
1 AAAAGGGCTTTGCCCCAGTTTACCGAAAAAGGCTAGGCCCCAGTTTACCA
**
56720126 AAAAGGGCTTTGCCCCAG-TTA-TTAAAAGAGGCTAGGCCTCCAGTT
1 AAAAGGGCTTTGCCCCAGTTTACCGAAAA-AGGCTAGGCC-CCAGTT
56720171 ATATGATAAA
Statistics
Matches: 38, Mismatches: 5, Indels: 4
0.81 0.11 0.09
Matches are distributed among these distances:
48 4 0.11
49 11 0.29
50 23 0.61
ACGTcount: A:0.28, C:0.24, G:0.22, T:0.25
Consensus pattern (50 bp):
AAAAGGGCTTTGCCCCAGTTTACCGAAAAAGGCTAGGCCCCAGTTTACCA
Found at i:56720404 original size:31 final size:31
Alignment explanation
Indices: 56720366--56720447 Score: 114
Period size: 31 Copynumber: 2.7 Consensus size: 31
56720356 CGTTTACAGT
56720366 AAAGGCTTTAGCCCAGTGATATAAATAATGA
1 AAAGGCTTTAGCCCAGTGATATAAATAATGA
** * *
56720397 AAAGGCTTCGGCCCTGTGATATGAATAATGA
1 AAAGGCTTTAGCCCAGTGATATAAATAATGA
56720428 AAAGGC-TTAGCCCAGT-ATAT
1 AAAGGCTTTAGCCCAGTGATAT
56720448 GTTAAGACTG
Statistics
Matches: 44, Mismatches: 7, Indels: 2
0.83 0.13 0.04
Matches are distributed among these distances:
29 4 0.09
30 7 0.16
31 33 0.75
ACGTcount: A:0.37, C:0.16, G:0.22, T:0.26
Consensus pattern (31 bp):
AAAGGCTTTAGCCCAGTGATATAAATAATGA
Found at i:56722485 original size:48 final size:48
Alignment explanation
Indices: 56722315--56722630 Score: 240
Period size: 49 Copynumber: 6.6 Consensus size: 48
56722305 AAATCAAATT
* * ** * *
56722315 CGATGCCATGTCCCAAACAGGTCTTACACTAACTT-TCATATATCGAGGC
1 CGATG-CATGTCCCAGACATGTCTTACACTGGCTTGT-ATATCTCAAGGC
* * * * *
56722364 AGATGTCATGTCCCAAACA-GCTCTTACACTGGCTT-TCATCTGTC-AGTGT
1 CGATG-CATGTCCCAGACATG-TCTTACACTGGCTTGT-ATATCTCAAG-GC
* * *
56722413 TGATGCCATGTCCCAGACAGGTCTTACACTCGCTTGTATATCTCAAGGC
1 CGATG-CATGTCCCAGACATGTCTTACACTGGCTTGTATATCTCAAGGC
* * ** *
56722462 CGATGCATGTCCCAGACATGTCTTACACTAGC-TCT-CGTCTCAA-TC
1 CGATGCATGTCCCAGACATGTCTTACACTGGCTTGTATATCTCAAGGC
* * * * *
56722507 TTGATGCATGTCCCAGATATGTCTTATATTGGCTTGTATATCTCGAGGC
1 -CGATGCATGTCCCAGACATGTCTTACACTGGCTTGTATATCTCAAGGC
*
56722556 CGATGCATGTCCCAGACATGTCTTACACTGGCTCTCGTA-ATGT---GGC
1 CGATGCATGTCCCAGACATGTCTTACACTGGCT-T-GTATATCTCAAGGC
56722602 CGATGCATGTCCCAGACATGTCTTACACT
1 CGATGCATGTCCCAGACATGTCTTACACT
56722631 AGCACACATA
Statistics
Matches: 220, Mismatches: 36, Indels: 25
0.78 0.13 0.09
Matches are distributed among these distances:
45 1 0.00
46 65 0.30
47 4 0.02
48 62 0.28
49 81 0.37
50 7 0.03
ACGTcount: A:0.23, C:0.28, G:0.19, T:0.30
Consensus pattern (48 bp):
CGATGCATGTCCCAGACATGTCTTACACTGGCTTGTATATCTCAAGGC
Found at i:56722520 original size:46 final size:46
Alignment explanation
Indices: 56722462--56722633 Score: 154
Period size: 46 Copynumber: 3.7 Consensus size: 46
56722452 ATCTCAAGGC
56722462 CGATGCATGTCCCAGACATGTCTTACACTAGCTCTCGTCTCAATCT
1 CGATGCATGTCCCAGACATGTCTTACACTAGCTCTCGTCTCAATCT
* * * * * * ** **
56722508 TGATGCATGTCCCAGATATGTCTTATATTGGCTTGTATATCTCGAGGC-
1 CGATGCATGTCCCAGACATGTCTTACACTAGC-TCT-CGTCTC-AATCT
* *
56722556 CGATGCATGTCCCAGACATGTCTTACACTGGCTCTCG--T-AATGT
1 CGATGCATGTCCCAGACATGTCTTACACTAGCTCTCGTCTCAATCT
56722599 GGCCGATGCATGTCCCAGACATGTCTTACACTAGC
1 ---CGATGCATGTCCCAGACATGTCTTACACTAGC
56722634 ACACATATCA
Statistics
Matches: 98, Mismatches: 21, Indels: 14
0.74 0.16 0.11
Matches are distributed among these distances:
42 1 0.01
44 1 0.01
46 58 0.59
47 4 0.04
48 32 0.33
49 2 0.02
ACGTcount: A:0.22, C:0.27, G:0.20, T:0.31
Consensus pattern (46 bp):
CGATGCATGTCCCAGACATGTCTTACACTAGCTCTCGTCTCAATCT
Found at i:56722542 original size:94 final size:95
Alignment explanation
Indices: 56722316--56722593 Score: 319
Period size: 94 Copynumber: 2.9 Consensus size: 95
56722306 AATCAAATTC
* ** * * * *
56722316 GATGCCATGTCCCAAACAGGTCTTACACTAACTT-TCATATATCGAGGCAGATGTCATGTCCCAA
1 GATGCCATGTCCCAGACAGGTCTTACACTCGCTTGT-ATATCTCAAGGCCGATG-CATGTCCCAG
* * * * *
56722380 ACA-GCTCTTACACTGGCTTTCATCTGTCAGTGTT
64 ACATG-TCTTACACTAGCTCTCGTC--TCAATCTT
56722414 GATGCCATGTCCCAGACAGGTCTTACACTCGCTTGTATATCTCAAGGCCGATGCATGTCCCAGAC
1 GATGCCATGTCCCAGACAGGTCTTACACTCGCTTGTATATCTCAAGGCCGATGCATGTCCCAGAC
56722479 ATGTCTTACACTAGCTCTCGTCTCAATCTT
66 ATGTCTTACACTAGCTCTCGTCTCAATCTT
* * * * * *
56722509 GATG-CATGTCCCAGATATGTCTTATATTGGCTTGTATATCTCGAGGCCGATGCATGTCCCAGAC
1 GATGCCATGTCCCAGACAGGTCTTACACTCGCTTGTATATCTCAAGGCCGATGCATGTCCCAGAC
*
56722573 ATGTCTTACACTGGCTCTCGT
66 ATGTCTTACACTAGCTCTCGT
56722594 AATGTGGCCG
Statistics
Matches: 159, Mismatches: 19, Indels: 8
0.85 0.10 0.04
Matches are distributed among these distances:
94 74 0.47
95 10 0.06
97 28 0.18
98 46 0.29
99 1 0.01
ACGTcount: A:0.23, C:0.27, G:0.19, T:0.31
Consensus pattern (95 bp):
GATGCCATGTCCCAGACAGGTCTTACACTCGCTTGTATATCTCAAGGCCGATGCATGTCCCAGAC
ATGTCTTACACTAGCTCTCGTCTCAATCTT
Found at i:56722642 original size:94 final size:93
Alignment explanation
Indices: 56722315--56722633 Score: 306
Period size: 94 Copynumber: 3.4 Consensus size: 93
56722305 AAATCAAATT
* * * * * *
56722315 CGATGCCATGTCCCAAACAGGTCTTACACTAACTTTCATATATCGAGGCAGATGTCATGTCCCAA
1 CGATGCCATGTCCCAGACAGGTCTTACACTAGCTTGCATATCTCGAGGCCGATG-CATGTCCCAG
*
56722380 ACA-GCTCTTACACTGGCTTTCATCTGTCA-GTG
65 ACATG-TCTTACACTGGC--TC-TC-GTAATGTG
* * * *
56722412 TTGATGCCATGTCCCAGACAGGTCTTACACTCGCTTGTATATCTCAAGGCCGATGCATGTCCCAG
1 -CGATGCCATGTCCCAGACAGGTCTTACACTAGCTTGCATATCTCGAGGCCGATGCATGTCCCAG
* *
56722477 ACATGTCTTACACTAGCTCTCGTCTCAATCT-
65 ACATGTCTTACACTGGCTCTCG--T-AATGTG
* * * * * * *
56722508 TGATG-CATGTCCCAGATATGTCTTATATTGGCTTGTATATCTCGAGGCCGATGCATGTCCCAGA
1 CGATGCCATGTCCCAGACAGGTCTTACACTAGCTTGCATATCTCGAGGCCGATGCATGTCCCAGA
56722572 CATGTCTTACACTGGCTCTCGTAATGTGG
66 CATGTCTTACACTGGCTCTCGTAATGT-G
*
56722601 CCGATG-CATGTCCCAGACATGTCTTACACTAGC
1 -CGATGCCATGTCCCAGACAGGTCTTACACTAGC
56722634 ACACATATCA
Statistics
Matches: 187, Mismatches: 26, Indels: 20
0.80 0.11 0.09
Matches are distributed among these distances:
91 4 0.02
92 1 0.01
93 1 0.01
94 102 0.55
95 8 0.04
96 1 0.01
97 24 0.13
98 46 0.25
ACGTcount: A:0.23, C:0.28, G:0.19, T:0.30
Consensus pattern (93 bp):
CGATGCCATGTCCCAGACAGGTCTTACACTAGCTTGCATATCTCGAGGCCGATGCATGTCCCAGA
CATGTCTTACACTGGCTCTCGTAATGTG
Found at i:56723313 original size:19 final size:19
Alignment explanation
Indices: 56723282--56723332 Score: 61
Period size: 20 Copynumber: 2.7 Consensus size: 19
56723272 CTATAGCAAC
56723282 TCACAATTT-CAA-TTATT
1 TCACAATTTACAATTTATT
56723299 TCACACATTTACAATTTATT
1 TCACA-ATTTACAATTTATT
*
56723319 TTACAACTTTACAA
1 TCACAA-TTTACAA
56723333 AATAGCCCTT
Statistics
Matches: 29, Mismatches: 1, Indels: 5
0.83 0.03 0.14
Matches are distributed among these distances:
17 5 0.17
18 4 0.14
19 4 0.14
20 16 0.55
ACGTcount: A:0.37, C:0.20, G:0.00, T:0.43
Consensus pattern (19 bp):
TCACAATTTACAATTTATT
Found at i:56724499 original size:21 final size:21
Alignment explanation
Indices: 56724473--56724516 Score: 70
Period size: 21 Copynumber: 2.1 Consensus size: 21
56724463 GGTTTGGGGT
* *
56724473 GTTACATTTAGTGGTATTAGA
1 GTTACATTTAGTAGTATCAGA
56724494 GTTACATTTAGTAGTATCAGA
1 GTTACATTTAGTAGTATCAGA
56724515 GT
1 GT
56724517 CAGGTTGCAA
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:0.07, G:0.23, T:0.41
Consensus pattern (21 bp):
GTTACATTTAGTAGTATCAGA
Found at i:56724777 original size:16 final size:18
Alignment explanation
Indices: 56724741--56724777 Score: 51
Period size: 17 Copynumber: 2.2 Consensus size: 18
56724731 GTTAGTATAT
*
56724741 ACTACAAACTGTAGTTAA
1 ACTACAAACTATAGTTAA
56724759 ACTA-AAACTATAG-TAA
1 ACTACAAACTATAGTTAA
56724775 ACT
1 ACT
56724778 GCTAGAGACT
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
16 6 0.33
17 8 0.44
18 4 0.22
ACGTcount: A:0.49, C:0.16, G:0.08, T:0.27
Consensus pattern (18 bp):
ACTACAAACTATAGTTAA
Found at i:56731054 original size:19 final size:19
Alignment explanation
Indices: 56731020--56731058 Score: 53
Period size: 20 Copynumber: 2.1 Consensus size: 19
56731010 GATCTCGTAC
*
56731020 TTTGGCCCATTTTCTCCGTT
1 TTTGGCCCAGTTTCT-CGTT
56731040 TTTGGCCC-GTTTCTCGTT
1 TTTGGCCCAGTTTCTCGTT
56731058 T
1 T
56731059 CTTTCGCTCT
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
18 5 0.28
19 5 0.28
20 8 0.44
ACGTcount: A:0.03, C:0.28, G:0.18, T:0.51
Consensus pattern (19 bp):
TTTGGCCCAGTTTCTCGTT
Found at i:56733544 original size:17 final size:17
Alignment explanation
Indices: 56733522--56733561 Score: 71
Period size: 17 Copynumber: 2.4 Consensus size: 17
56733512 CCTGTAATCA
*
56733522 TGTGAGCTAAAATATCG
1 TGTGAGCTAAAATAGCG
56733539 TGTGAGCTAAAATAGCG
1 TGTGAGCTAAAATAGCG
56733556 TGTGAG
1 TGTGAG
56733562 TACCTCAGGG
Statistics
Matches: 22, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
17 22 1.00
ACGTcount: A:0.33, C:0.10, G:0.30, T:0.28
Consensus pattern (17 bp):
TGTGAGCTAAAATAGCG
Found at i:56740791 original size:34 final size:34
Alignment explanation
Indices: 56740748--56740815 Score: 95
Period size: 34 Copynumber: 2.0 Consensus size: 34
56740738 GCATATTTGA
56740748 TACTGTACTGAAATG-GGCTAAGGCCC-AAACTGT
1 TACTGTACTGAAA-GAGGCTAAGGCCCAAAACTGT
*
56740781 TACTGATACTGAAAGAGGCTTAGGCCCAAAACTGT
1 TACTG-TACTGAAAGAGGCTAAGGCCCAAAACTGT
56740816 ATTTGACTGT
Statistics
Matches: 31, Mismatches: 1, Indels: 4
0.86 0.03 0.11
Matches are distributed among these distances:
33 6 0.19
34 18 0.58
35 7 0.23
ACGTcount: A:0.32, C:0.21, G:0.24, T:0.24
Consensus pattern (34 bp):
TACTGTACTGAAAGAGGCTAAGGCCCAAAACTGT
Found at i:56742467 original size:21 final size:21
Alignment explanation
Indices: 56742443--56742505 Score: 57
Period size: 21 Copynumber: 3.2 Consensus size: 21
56742433 ACTTTCATTT
56742443 ATTTAACTTTTCAACCCTTCA
1 ATTTAACTTTTCAACCCTTCA
*
56742464 ATTTAAAC-TTTC-A---TT-T
1 ATTT-AACTTTTCAACCCTTCA
*
56742480 ATTTGACTTTTCAACCCTTCA
1 ATTTAACTTTTCAACCCTTCA
56742501 ATTTA
1 ATTTA
56742506 CATATTTCAC
Statistics
Matches: 31, Mismatches: 4, Indels: 14
0.63 0.08 0.29
Matches are distributed among these distances:
15 2 0.06
16 8 0.26
17 3 0.10
20 3 0.10
21 12 0.39
22 3 0.10
ACGTcount: A:0.29, C:0.22, G:0.02, T:0.48
Consensus pattern (21 bp):
ATTTAACTTTTCAACCCTTCA
Found at i:56742481 original size:37 final size:37
Alignment explanation
Indices: 56742431--56742505 Score: 141
Period size: 37 Copynumber: 2.0 Consensus size: 37
56742421 TAGCAGCCCA
56742431 AAACTTTCATTTATTTAACTTTTCAACCCTTCAATTT
1 AAACTTTCATTTATTTAACTTTTCAACCCTTCAATTT
*
56742468 AAACTTTCATTTATTTGACTTTTCAACCCTTCAATTT
1 AAACTTTCATTTATTTAACTTTTCAACCCTTCAATTT
56742505 A
1 A
56742506 CATATTTCAC
Statistics
Matches: 37, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
37 37 1.00
ACGTcount: A:0.29, C:0.21, G:0.01, T:0.48
Consensus pattern (37 bp):
AAACTTTCATTTATTTAACTTTTCAACCCTTCAATTT
Found at i:56745648 original size:43 final size:43
Alignment explanation
Indices: 56745521--56745648 Score: 150
Period size: 43 Copynumber: 3.0 Consensus size: 43
56745511 TATGATTTCT
** * *
56745521 GATATGTGATTATGTGTAAGACCACGTCTGGGACGTTGGCAAC
1 GATATGTGATTACATGTAAGACCACGTCTGGGACATTGGCATC
* * * *
56745564 GATATGTGTTTACAAGTAAGACC-CTGTCTGGAACAGTGGCATC
1 GATATGTGATTACATGTAAGACCAC-GTCTGGGACATTGGCATC
* *
56745607 GATATGTGATTACATGTGAGACCACGTCTGGGACTTTGGCAT
1 GATATGTGATTACATGTAAGACCACGTCTGGGACATTGGCAT
56745649 TGTACGATAT
Statistics
Matches: 69, Mismatches: 14, Indels: 4
0.79 0.16 0.05
Matches are distributed among these distances:
42 1 0.01
43 67 0.97
44 1 0.01
ACGTcount: A:0.26, C:0.17, G:0.28, T:0.29
Consensus pattern (43 bp):
GATATGTGATTACATGTAAGACCACGTCTGGGACATTGGCATC
Found at i:56753144 original size:38 final size:38
Alignment explanation
Indices: 56753057--56753253 Score: 261
Period size: 38 Copynumber: 5.1 Consensus size: 38
56753047 AAACCCAAAC
* * * ***
56753057 ATAACACCAGCACGAAGCCTACGGGACTTTAAACTTAGAT
1 ATAATACCAGCACAAAGCCTGCGGGA-TTT-AACCCGGAT
* *
56753097 ATAATACCAGCACTAGGCCTGCGGGATTTAACCCGGAT
1 ATAATACCAGCACAAAGCCTGCGGGATTTAACCCGGAT
* *
56753135 ATAATACCAGCACGAAGCCTGCGAGATTTAACCCGGAT
1 ATAATACCAGCACAAAGCCTGCGGGATTTAACCCGGAT
*
56753173 ATATTACCAGCACAAAGCCTGCGGGATTTAACCCGGAT
1 ATAATACCAGCACAAAGCCTGCGGGATTTAACCCGGAT
56753211 A-AATTACCAGCACAAAGCCTGCGGGATTTAACCCGGAT
1 ATAA-TACCAGCACAAAGCCTGCGGGATTTAACCCGGAT
56753249 ATAAT
1 ATAAT
56753254 TTCAGCATAT
Statistics
Matches: 141, Mismatches: 14, Indels: 6
0.88 0.09 0.04
Matches are distributed among these distances:
37 1 0.01
38 113 0.80
39 5 0.04
40 22 0.16
ACGTcount: A:0.34, C:0.25, G:0.20, T:0.20
Consensus pattern (38 bp):
ATAATACCAGCACAAAGCCTGCGGGATTTAACCCGGAT
Found at i:56756018 original size:26 final size:26
Alignment explanation
Indices: 56755968--56756020 Score: 65
Period size: 26 Copynumber: 2.0 Consensus size: 26
56755958 ATTTTATTTT
*
56755968 TATCAATAACTATATAATAATAAATA
1 TATCAATAACTATATAATAAAAAATA
56755994 TATCAATAAACTACT-TAA-AAAAAATA
1 TATCAAT-AACTA-TATAATAAAAAATA
56756020 T
1 T
56756021 CAATTCATTA
Statistics
Matches: 24, Mismatches: 1, Indels: 4
0.83 0.03 0.14
Matches are distributed among these distances:
26 15 0.62
27 8 0.33
28 1 0.04
ACGTcount: A:0.58, C:0.09, G:0.00, T:0.32
Consensus pattern (26 bp):
TATCAATAACTATATAATAAAAAATA
Found at i:56757900 original size:43 final size:43
Alignment explanation
Indices: 56757836--56757967 Score: 180
Period size: 43 Copynumber: 3.1 Consensus size: 43
56757826 CATAGGATTT
* *
56757836 TTGATATGTGATTACATGTAAGACCACATCTGGGACGTTGCCA
1 TTGATATGTGATTACATGTAAGACCACGTCTGGGACGTTGGCA
* *
56757879 TTGATATGTGTTTA-TTAGTAAGACC-CTGTCTGGGACAG-TGGCA
1 TTGATATGTGATTACAT-GTAAGACCAC-GTCTGGGAC-GTTGGCA
56757922 TTGATATGTGATTACATGTAAGACCACGTCTGGGACGTTGGCA
1 TTGATATGTGATTACATGTAAGACCACGTCTGGGACGTTGGCA
56757965 TTG
1 TTG
56757968 TACGGTATGT
Statistics
Matches: 77, Mismatches: 6, Indels: 12
0.81 0.06 0.13
Matches are distributed among these distances:
42 3 0.04
43 71 0.92
44 3 0.04
ACGTcount: A:0.25, C:0.16, G:0.27, T:0.33
Consensus pattern (43 bp):
TTGATATGTGATTACATGTAAGACCACGTCTGGGACGTTGGCA
Found at i:56774693 original size:39 final size:39
Alignment explanation
Indices: 56774645--56774768 Score: 221
Period size: 39 Copynumber: 3.2 Consensus size: 39
56774635 CGAAGTTTGA
*
56774645 ATATGATTCCCGCATATAGCCTACGGACCTTAAGTCCGG
1 ATATAATTCCCGCATATAGCCTACGGACCTTAAGTCCGG
* *
56774684 ATATAATTCCTGCATATAGCCTACAGACCTTAAGTCCGG
1 ATATAATTCCCGCATATAGCCTACGGACCTTAAGTCCGG
56774723 ATATAATTCCCGCATATAGCCTACGGACCTTAAGTCCGG
1 ATATAATTCCCGCATATAGCCTACGGACCTTAAGTCCGG
56774762 ATATAAT
1 ATATAAT
56774769 CACCATATAT
Statistics
Matches: 80, Mismatches: 5, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
39 80 1.00
ACGTcount: A:0.30, C:0.26, G:0.17, T:0.27
Consensus pattern (39 bp):
ATATAATTCCCGCATATAGCCTACGGACCTTAAGTCCGG
Found at i:56774703 original size:78 final size:78
Alignment explanation
Indices: 56774604--56774768 Score: 231
Period size: 78 Copynumber: 2.1 Consensus size: 78
56774594 CTATTAGCCT
* ** *
56774604 GGATATAATTCCAGCACATAGCCGGCAAACCCGAAGTTTGAATATGATTCCCGCATATAGCCTAC
1 GGATATAATTCCAGCACATAGCCGACAAACCCGAAGTCCGAATATAATTCCCGCATATAGCCTAC
56774669 GGACCTTAAGTCC
66 GGACCTTAAGTCC
* * * * ** *
56774682 GGATATAATTCCTGCATATAGCCTACAGACCTTAAGTCCGGATATAATTCCCGCATATAGCCTAC
1 GGATATAATTCCAGCACATAGCCGACAAACCCGAAGTCCGAATATAATTCCCGCATATAGCCTAC
56774747 GGACCTTAAGTCC
66 GGACCTTAAGTCC
56774760 GGATATAAT
1 GGATATAAT
56774769 CACCATATAT
Statistics
Matches: 76, Mismatches: 11, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
78 76 1.00
ACGTcount: A:0.31, C:0.25, G:0.18, T:0.25
Consensus pattern (78 bp):
GGATATAATTCCAGCACATAGCCGACAAACCCGAAGTCCGAATATAATTCCCGCATATAGCCTAC
GGACCTTAAGTCC
Found at i:56779560 original size:39 final size:39
Alignment explanation
Indices: 56779512--56779635 Score: 212
Period size: 39 Copynumber: 3.2 Consensus size: 39
56779502 CGAAGTTTGA
*
56779512 ATATGATTCCCGCATATAGCCTACGGACCTTAAGTCCGG
1 ATATAATTCCCGCATATAGCCTACGGACCTTAAGTCCGG
* **
56779551 ATATAATTCCTGCATATAGCCTACAAACCTTAAGTCCGG
1 ATATAATTCCCGCATATAGCCTACGGACCTTAAGTCCGG
56779590 ATATAATTCCCGCATATAGCCTACGGACCTTAAGTCCGG
1 ATATAATTCCCGCATATAGCCTACGGACCTTAAGTCCGG
56779629 ATATAAT
1 ATATAAT
56779636 CACCATATAT
Statistics
Matches: 78, Mismatches: 7, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
39 78 1.00
ACGTcount: A:0.31, C:0.26, G:0.16, T:0.27
Consensus pattern (39 bp):
ATATAATTCCCGCATATAGCCTACGGACCTTAAGTCCGG
Found at i:56779570 original size:78 final size:78
Alignment explanation
Indices: 56779471--56779635 Score: 240
Period size: 78 Copynumber: 2.1 Consensus size: 78
56779461 CTATTAGCCT
* ** *
56779471 GGATATAATTCCAGCACATAGCCGGCAAACCCGAAGTTTGAATATGATTCCCGCATATAGCCTAC
1 GGATATAATTCCAGCACATAGCCGACAAACCCGAAGTCCGAATATAATTCCCGCATATAGCCTAC
56779536 GGACCTTAAGTCC
66 GGACCTTAAGTCC
* * * ** *
56779549 GGATATAATTCCTGCATATAGCCTACAAACCTTAAGTCCGGATATAATTCCCGCATATAGCCTAC
1 GGATATAATTCCAGCACATAGCCGACAAACCCGAAGTCCGAATATAATTCCCGCATATAGCCTAC
56779614 GGACCTTAAGTCC
66 GGACCTTAAGTCC
56779627 GGATATAAT
1 GGATATAAT
56779636 CACCATATAT
Statistics
Matches: 77, Mismatches: 10, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
78 77 1.00
ACGTcount: A:0.32, C:0.25, G:0.18, T:0.25
Consensus pattern (78 bp):
GGATATAATTCCAGCACATAGCCGACAAACCCGAAGTCCGAATATAATTCCCGCATATAGCCTAC
GGACCTTAAGTCC
Found at i:56780166 original size:6 final size:6
Alignment explanation
Indices: 56780152--56780196 Score: 51
Period size: 5 Copynumber: 7.7 Consensus size: 6
56780142 TTATAATTAA
56780152 TTTTA- TTTTAT TTTTA- TTTTAT TTTTATTT TTTTAT TTTT-T TTTT
1 TTTTAT TTTTAT TTTTAT TTTTAT TTTTA--T TTTTAT TTTTAT TTTT
56780197 GTTGGGTTAT
Statistics
Matches: 36, Mismatches: 0, Indels: 8
0.82 0.00 0.18
Matches are distributed among these distances:
5 15 0.42
6 15 0.42
8 6 0.17
ACGTcount: A:0.13, C:0.00, G:0.00, T:0.87
Consensus pattern (6 bp):
TTTTAT
Found at i:56780196 original size:11 final size:11
Alignment explanation
Indices: 56780152--56780182 Score: 62
Period size: 11 Copynumber: 2.8 Consensus size: 11
56780142 TTATAATTAA
56780152 TTTTATTTTAT
1 TTTTATTTTAT
56780163 TTTTATTTTAT
1 TTTTATTTTAT
56780174 TTTTATTTT
1 TTTTATTTT
56780183 TTTATTTTTT
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 20 1.00
ACGTcount: A:0.16, C:0.00, G:0.00, T:0.84
Consensus pattern (11 bp):
TTTTATTTTAT
Found at i:56790094 original size:29 final size:28
Alignment explanation
Indices: 56790016--56790093 Score: 138
Period size: 29 Copynumber: 2.8 Consensus size: 28
56790006 TTCCCGAGCC
56790016 TAGGGGCAAAATTGTAATTTTGAAAAGT
1 TAGGGGCAAAATTGTAATTTTGAAAAGT
56790044 TAGGGGGCAAAATTGTAATTTTGAAAAGT
1 TA-GGGGCAAAATTGTAATTTTGAAAAGT
*
56790073 TAGGGGCAAAAATGTAATTTT
1 TAGGGGCAAAATTGTAATTTT
56790094 TCCATGATGT
Statistics
Matches: 48, Mismatches: 1, Indels: 2
0.94 0.02 0.04
Matches are distributed among these distances:
28 20 0.42
29 28 0.58
ACGTcount: A:0.38, C:0.04, G:0.26, T:0.32
Consensus pattern (28 bp):
TAGGGGCAAAATTGTAATTTTGAAAAGT
Found at i:56790601 original size:41 final size:41
Alignment explanation
Indices: 56790556--56790673 Score: 98
Period size: 41 Copynumber: 3.1 Consensus size: 41
56790546 TGAAAGATAA
56790556 ATGTAGCTAGGTCGCATGCGTGATTCCAAGTGAAGGACACC
1 ATGTAGCTAGGTCGCATGCGTGATTCCAAGTGAAGGACACC
* * * * *
56790597 ATGTAGAC-AAG-AG-A-GC-T-A---C--GTGAAAGATA-A
1 ATGTAG-CTAGGTCGCATGCGTGATTCCAAGTGAAGGACACC
56790627 ATGTAGCTAGGTCGCATGCGTGATTCCAAGTGAAGGACACC
1 ATGTAGCTAGGTCGCATGCGTGATTCCAAGTGAAGGACACC
56790668 ATGTAG
1 ATGTAG
56790674 ACAAGAGAGC
Statistics
Matches: 54, Mismatches: 10, Indels: 26
0.60 0.11 0.29
Matches are distributed among these distances:
29 1 0.02
30 8 0.15
31 9 0.17
32 1 0.02
33 3 0.06
34 1 0.02
35 1 0.02
36 1 0.02
37 1 0.02
38 3 0.06
39 1 0.02
40 9 0.17
41 14 0.26
42 1 0.02
ACGTcount: A:0.32, C:0.18, G:0.29, T:0.21
Consensus pattern (41 bp):
ATGTAGCTAGGTCGCATGCGTGATTCCAAGTGAAGGACACC
Found at i:56790612 original size:71 final size:71
Alignment explanation
Indices: 56790524--56790687 Score: 328
Period size: 71 Copynumber: 2.3 Consensus size: 71
56790514 GAGATGTATC
56790524 CCATGTAGACAAGAGAGCTACGTGAAAGATAAATGTAGCTAGGTCGCATGCGTGATTCCAAGTGA
1 CCATGTAGACAAGAGAGCTACGTGAAAGATAAATGTAGCTAGGTCGCATGCGTGATTCCAAGTGA
56790589 AGGACA
66 AGGACA
56790595 CCATGTAGACAAGAGAGCTACGTGAAAGATAAATGTAGCTAGGTCGCATGCGTGATTCCAAGTGA
1 CCATGTAGACAAGAGAGCTACGTGAAAGATAAATGTAGCTAGGTCGCATGCGTGATTCCAAGTGA
56790660 AGGACA
66 AGGACA
56790666 CCATGTAGACAAGAGAGCTACG
1 CCATGTAGACAAGAGAGCTACG
56790688 AGACAAATCG
Statistics
Matches: 93, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
71 93 1.00
ACGTcount: A:0.35, C:0.18, G:0.28, T:0.19
Consensus pattern (71 bp):
CCATGTAGACAAGAGAGCTACGTGAAAGATAAATGTAGCTAGGTCGCATGCGTGATTCCAAGTGA
AGGACA
Found at i:56797056 original size:41 final size:41
Alignment explanation
Indices: 56797011--56797128 Score: 98
Period size: 41 Copynumber: 3.1 Consensus size: 41
56797001 TGAAAGATAA
56797011 ATGTAGCTAGGTCGCATGCGTGATTCCAAGTGAAGGACACC
1 ATGTAGCTAGGTCGCATGCGTGATTCCAAGTGAAGGACACC
* * * * *
56797052 ATGTAGAC-AAG-AG-A-GC-T-A---C--GTGAAAGATA-A
1 ATGTAG-CTAGGTCGCATGCGTGATTCCAAGTGAAGGACACC
56797082 ATGTAGCTAGGTCGCATGCGTGATTCCAAGTGAAGGACACC
1 ATGTAGCTAGGTCGCATGCGTGATTCCAAGTGAAGGACACC
56797123 ATGTAG
1 ATGTAG
56797129 ACAAGAGAGC
Statistics
Matches: 54, Mismatches: 10, Indels: 26
0.60 0.11 0.29
Matches are distributed among these distances:
29 1 0.02
30 8 0.15
31 9 0.17
32 1 0.02
33 3 0.06
34 1 0.02
35 1 0.02
36 1 0.02
37 1 0.02
38 3 0.06
39 1 0.02
40 9 0.17
41 14 0.26
42 1 0.02
ACGTcount: A:0.32, C:0.18, G:0.29, T:0.21
Consensus pattern (41 bp):
ATGTAGCTAGGTCGCATGCGTGATTCCAAGTGAAGGACACC
Found at i:56797067 original size:71 final size:71
Alignment explanation
Indices: 56796979--56797142 Score: 328
Period size: 71 Copynumber: 2.3 Consensus size: 71
56796969 GAGATGTATC
56796979 CCATGTAGACAAGAGAGCTACGTGAAAGATAAATGTAGCTAGGTCGCATGCGTGATTCCAAGTGA
1 CCATGTAGACAAGAGAGCTACGTGAAAGATAAATGTAGCTAGGTCGCATGCGTGATTCCAAGTGA
56797044 AGGACA
66 AGGACA
56797050 CCATGTAGACAAGAGAGCTACGTGAAAGATAAATGTAGCTAGGTCGCATGCGTGATTCCAAGTGA
1 CCATGTAGACAAGAGAGCTACGTGAAAGATAAATGTAGCTAGGTCGCATGCGTGATTCCAAGTGA
56797115 AGGACA
66 AGGACA
56797121 CCATGTAGACAAGAGAGCTACG
1 CCATGTAGACAAGAGAGCTACG
56797143 AGACAAATCG
Statistics
Matches: 93, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
71 93 1.00
ACGTcount: A:0.35, C:0.18, G:0.28, T:0.19
Consensus pattern (71 bp):
CCATGTAGACAAGAGAGCTACGTGAAAGATAAATGTAGCTAGGTCGCATGCGTGATTCCAAGTGA
AGGACA
Found at i:56819104 original size:22 final size:23
Alignment explanation
Indices: 56819079--56819134 Score: 55
Period size: 22 Copynumber: 2.5 Consensus size: 23
56819069 TGTTGAAGTG
56819079 TCTTGAGACATTAAAGTC-CATA
1 TCTTGAGACATTAAAGTCTCATA
* * *
56819101 TCTTAAGAC--TAAAGTCTTCTTG
1 TCTTGAGACATTAAAGTC-TCATA
56819123 TCTTGAGACATT
1 TCTTGAGACATT
56819135 CTTTTCCTAT
Statistics
Matches: 26, Mismatches: 4, Indels: 6
0.72 0.11 0.17
Matches are distributed among these distances:
20 7 0.27
22 18 0.69
24 1 0.04
ACGTcount: A:0.30, C:0.18, G:0.14, T:0.38
Consensus pattern (23 bp):
TCTTGAGACATTAAAGTCTCATA
Found at i:56832692 original size:28 final size:29
Alignment explanation
Indices: 56832594--56832692 Score: 114
Period size: 28 Copynumber: 3.5 Consensus size: 29
56832584 TCATAAATTG
* *
56832594 GCACTAAGTGTGCGGGTTCAAAT-TGTATA
1 GCACTAAGTGTGCGAGTTCGAATAT-TATA
* * *
56832623 GCACTAAGTGTGCAAGTTTGATTA-TATA
1 GCACTAAGTGTGCGAGTTCGAATATTATA
*
56832651 GCACTAAGTGTGCGAGTTCGACTATTA-A
1 GCACTAAGTGTGCGAGTTCGAATATTATA
56832679 GCACTAAGTGTGCG
1 GCACTAAGTGTGCG
56832693 GGCTTATTAT
Statistics
Matches: 60, Mismatches: 8, Indels: 5
0.82 0.11 0.07
Matches are distributed among these distances:
28 40 0.67
29 20 0.33
ACGTcount: A:0.28, C:0.15, G:0.26, T:0.30
Consensus pattern (29 bp):
GCACTAAGTGTGCGAGTTCGAATATTATA
Found at i:56840349 original size:28 final size:29
Alignment explanation
Indices: 56840251--56840349 Score: 114
Period size: 28 Copynumber: 3.5 Consensus size: 29
56840241 TCATAAATTG
* *
56840251 GCACTAAGTGTGCGGGTTCAAAT-TGTATA
1 GCACTAAGTGTGCGAGTTCGAATAT-TATA
* * *
56840280 GCACTAAGTGTGCAAGTTTGATTA-TATA
1 GCACTAAGTGTGCGAGTTCGAATATTATA
*
56840308 GCACTAAGTGTGCGAGTTCGACTATTA-A
1 GCACTAAGTGTGCGAGTTCGAATATTATA
56840336 GCACTAAGTGTGCG
1 GCACTAAGTGTGCG
56840350 GGCTTATTAT
Statistics
Matches: 60, Mismatches: 8, Indels: 5
0.82 0.11 0.07
Matches are distributed among these distances:
28 40 0.67
29 20 0.33
ACGTcount: A:0.28, C:0.15, G:0.26, T:0.30
Consensus pattern (29 bp):
GCACTAAGTGTGCGAGTTCGAATATTATA
Found at i:56847311 original size:17 final size:17
Alignment explanation
Indices: 56847285--56847323 Score: 69
Period size: 17 Copynumber: 2.3 Consensus size: 17
56847275 TTTTTAGAGG
56847285 AAAACAAATGAATCTTA
1 AAAACAAATGAATCTTA
*
56847302 AAAACGAATGAATCTTA
1 AAAACAAATGAATCTTA
56847319 AAAAC
1 AAAAC
56847324 TTAATAAAAG
Statistics
Matches: 21, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
17 21 1.00
ACGTcount: A:0.59, C:0.13, G:0.08, T:0.21
Consensus pattern (17 bp):
AAAACAAATGAATCTTA
Found at i:56848116 original size:18 final size:18
Alignment explanation
Indices: 56848089--56848125 Score: 65
Period size: 18 Copynumber: 2.1 Consensus size: 18
56848079 TTTTAGTTTC
*
56848089 CCCGGGAAAAATTTGAGT
1 CCCGGAAAAAATTTGAGT
56848107 CCCGGAAAAAATTTGAGT
1 CCCGGAAAAAATTTGAGT
56848125 C
1 C
56848126 TTGAGTTGTA
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
18 18 1.00
ACGTcount: A:0.35, C:0.19, G:0.24, T:0.22
Consensus pattern (18 bp):
CCCGGAAAAAATTTGAGT
Found at i:56863871 original size:30 final size:30
Alignment explanation
Indices: 56863835--56863937 Score: 206
Period size: 30 Copynumber: 3.4 Consensus size: 30
56863825 AAAGACTAAT
56863835 TCCACACGGGCTGAGCACACGCCCGTGTGA
1 TCCACACGGGCTGAGCACACGCCCGTGTGA
56863865 TCCACACGGGCTGAGCACACGCCCGTGTGA
1 TCCACACGGGCTGAGCACACGCCCGTGTGA
56863895 TCCACACGGGCTGAGCACACGCCCGTGTGA
1 TCCACACGGGCTGAGCACACGCCCGTGTGA
56863925 TCCACACGGGCTG
1 TCCACACGGGCTG
56863938 GCCACATGCC
Statistics
Matches: 73, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
30 73 1.00
ACGTcount: A:0.19, C:0.37, G:0.30, T:0.14
Consensus pattern (30 bp):
TCCACACGGGCTGAGCACACGCCCGTGTGA
Found at i:56865130 original size:27 final size:27
Alignment explanation
Indices: 56865094--56865145 Score: 86
Period size: 27 Copynumber: 1.9 Consensus size: 27
56865084 TTATGACTAA
*
56865094 AAGAAACCTATCAAGACCTCTACTTAG
1 AAGAAACCTAACAAGACCTCTACTTAG
*
56865121 AAGAAACCTAACATGACCTCTACTT
1 AAGAAACCTAACAAGACCTCTACTT
56865146 TTTGATAGTG
Statistics
Matches: 23, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
27 23 1.00
ACGTcount: A:0.40, C:0.27, G:0.10, T:0.23
Consensus pattern (27 bp):
AAGAAACCTAACAAGACCTCTACTTAG
Found at i:56869620 original size:6 final size:6
Alignment explanation
Indices: 56869605--56869683 Score: 88
Period size: 6 Copynumber: 13.3 Consensus size: 6
56869595 ATTGAGTCCA
* * * *
56869605 TTTATC TTTATG TTTA-T TTTATT TTTATT TTTATT TTTATT TCTATC
1 TTTATT TTTATT TTTATT TTTATT TTTATT TTTATT TTTATT TTTATT
* * *
56869652 TTGATT TTTAAT TTTATT TTTATG TTTATT TT
1 TTTATT TTTATT TTTATT TTTATT TTTATT TT
56869684 GTCTTTATAT
Statistics
Matches: 60, Mismatches: 12, Indels: 2
0.81 0.16 0.03
Matches are distributed among these distances:
5 4 0.07
6 56 0.93
ACGTcount: A:0.18, C:0.04, G:0.04, T:0.75
Consensus pattern (6 bp):
TTTATT
Found at i:56873474 original size:7 final size:7
Alignment explanation
Indices: 56873451--56873514 Score: 51
Period size: 7 Copynumber: 8.7 Consensus size: 7
56873441 TCCCTTTTCT
56873451 TTATTTAA
1 TTATTT-A
56873459 TTAATTTA
1 TT-ATTTA
56873467 TTATTTA
1 TTATTTA
*
56873474 TTATTTC
1 TTATTTA
56873481 TTA-TTA
1 TTATTTA
56873487 GTT-TATTA
1 -TTAT-TTA
56873495 TTTATTTA
1 -TTATTTA
*
56873503 TTGTTTA
1 TTATTTA
56873510 TTATT
1 TTATT
56873515 ATTTGTTAAT
Statistics
Matches: 46, Mismatches: 5, Indels: 11
0.74 0.08 0.18
Matches are distributed among these distances:
6 2 0.04
7 26 0.57
8 13 0.28
9 5 0.11
ACGTcount: A:0.27, C:0.02, G:0.03, T:0.69
Consensus pattern (7 bp):
TTATTTA
Found at i:56873493 original size:18 final size:19
Alignment explanation
Indices: 56873464--56873514 Score: 72
Period size: 18 Copynumber: 2.8 Consensus size: 19
56873454 TTTAATTAAT
56873464 TTATTA-TTTATTATTT-C
1 TTATTAGTTTATTATTTAC
*
56873481 TTATTAGTTTATTATTTAT
1 TTATTAGTTTATTATTTAC
56873500 TTATT-GTTTATTATT
1 TTATTAGTTTATTATT
56873515 ATTTGTTAAT
Statistics
Matches: 31, Mismatches: 1, Indels: 3
0.89 0.03 0.09
Matches are distributed among these distances:
17 6 0.19
18 20 0.65
19 5 0.16
ACGTcount: A:0.24, C:0.02, G:0.04, T:0.71
Consensus pattern (19 bp):
TTATTAGTTTATTATTTAC
Found at i:56873669 original size:15 final size:15
Alignment explanation
Indices: 56873649--56873677 Score: 58
Period size: 15 Copynumber: 1.9 Consensus size: 15
56873639 GTCTATTAGT
56873649 TACTTTTTGTACTGC
1 TACTTTTTGTACTGC
56873664 TACTTTTTGTACTG
1 TACTTTTTGTACTG
56873678 TTTTCGACTA
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 14 1.00
ACGTcount: A:0.14, C:0.17, G:0.14, T:0.55
Consensus pattern (15 bp):
TACTTTTTGTACTGC
Found at i:56876533 original size:6 final size:5
Alignment explanation
Indices: 56876508--56876568 Score: 59
Period size: 6 Copynumber: 10.8 Consensus size: 5
56876498 AGTCCATTTC
56876508 TTTTA TTTTA TTTTA TTTTTA GTTTTA GTTTTA TTTCTA TTTCTA TTTTTA
1 TTTTA TTTTA TTTTA -TTTTA -TTTTA -TTTTA TTT-TA TTT-TA -TTTTA
56876559 TTGTTA TTTT
1 TT-TTA TTTT
56876569 CTTAGACTCA
Statistics
Matches: 51, Mismatches: 1, Indels: 8
0.85 0.02 0.13
Matches are distributed among these distances:
5 17 0.33
6 31 0.61
7 3 0.06
ACGTcount: A:0.16, C:0.03, G:0.05, T:0.75
Consensus pattern (5 bp):
TTTTA
Found at i:56887891 original size:15 final size:15
Alignment explanation
Indices: 56887871--56887904 Score: 52
Period size: 15 Copynumber: 2.3 Consensus size: 15
56887861 CTATTATCAA
56887871 TTATTTATT-TGTATC
1 TTATTTATTAT-TATC
56887886 TTATTTATTATTATC
1 TTATTTATTATTATC
56887901 TTAT
1 TTAT
56887905 CCTTATATGT
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
15 17 0.94
16 1 0.06
ACGTcount: A:0.24, C:0.06, G:0.03, T:0.68
Consensus pattern (15 bp):
TTATTTATTATTATC
Found at i:56892746 original size:19 final size:20
Alignment explanation
Indices: 56892722--56892759 Score: 69
Period size: 20 Copynumber: 1.9 Consensus size: 20
56892712 TAAATTTTCC
56892722 TTTTCTT-TTTCTTTCCCTT
1 TTTTCTTCTTTCTTTCCCTT
56892741 TTTTCTTCTTTCTTTCCCT
1 TTTTCTTCTTTCTTTCCCT
56892760 GCTATTCGTG
Statistics
Matches: 18, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
19 7 0.39
20 11 0.61
ACGTcount: A:0.00, C:0.29, G:0.00, T:0.71
Consensus pattern (20 bp):
TTTTCTTCTTTCTTTCCCTT
Found at i:56892749 original size:16 final size:17
Alignment explanation
Indices: 56892720--56892752 Score: 50
Period size: 16 Copynumber: 2.0 Consensus size: 17
56892710 CCTAAATTTT
*
56892720 CCTTTTCTTTTTCTTTC
1 CCTTTTCTTCTTCTTTC
56892737 CCTTTT-TTCTTCTTTC
1 CCTTTTCTTCTTCTTTC
56892753 TTTCCCTGCT
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
16 9 0.60
17 6 0.40
ACGTcount: A:0.00, C:0.30, G:0.00, T:0.70
Consensus pattern (17 bp):
CCTTTTCTTCTTCTTTC
Found at i:56898761 original size:5 final size:6
Alignment explanation
Indices: 56898748--56898788 Score: 64
Period size: 6 Copynumber: 6.5 Consensus size: 6
56898738 ATAATTTAAT
56898748 AAATAA AAATAA AAATCTAA AAATAA AAATAA AAATAA AAA
1 AAATAA AAATAA AAA--TAA AAATAA AAATAA AAATAA AAA
56898789 CATATAATTT
Statistics
Matches: 33, Mismatches: 0, Indels: 4
0.89 0.00 0.11
Matches are distributed among these distances:
6 27 0.82
8 6 0.18
ACGTcount: A:0.80, C:0.02, G:0.00, T:0.17
Consensus pattern (6 bp):
AAATAA
Found at i:56898782 original size:21 final size:22
Alignment explanation
Indices: 56898725--56898782 Score: 66
Period size: 20 Copynumber: 2.6 Consensus size: 22
56898715 CAACCCAATC
*
56898725 ATAAAAATTACAAATAATTTAATAA
1 ATAAAAA-TA-AAA-AATCTAATAA
56898750 ATAAAAAT-AAAAATCTAA-AA
1 ATAAAAATAAAAAATCTAATAA
56898770 ATAAAAATAAAAA
1 ATAAAAATAAAAA
56898783 TAAAAACATA
Statistics
Matches: 31, Mismatches: 1, Indels: 6
0.82 0.03 0.16
Matches are distributed among these distances:
20 10 0.32
21 10 0.32
22 3 0.10
24 1 0.03
25 7 0.23
ACGTcount: A:0.72, C:0.03, G:0.00, T:0.24
Consensus pattern (22 bp):
ATAAAAATAAAAAATCTAATAA
Found at i:56898854 original size:18 final size:18
Alignment explanation
Indices: 56898807--56898856 Score: 73
Period size: 18 Copynumber: 2.8 Consensus size: 18
56898797 TTTATACAAA
56898807 TAATTTGGTTAATTCGGT
1 TAATTTGGTTAATTCGGT
***
56898825 TAATTCAATTAATTCGGT
1 TAATTTGGTTAATTCGGT
56898843 TAATTTGGTTAATT
1 TAATTTGGTTAATT
56898857 TTACACTTAT
Statistics
Matches: 26, Mismatches: 6, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
18 26 1.00
ACGTcount: A:0.28, C:0.06, G:0.16, T:0.50
Consensus pattern (18 bp):
TAATTTGGTTAATTCGGT
Found at i:56898857 original size:9 final size:9
Alignment explanation
Indices: 56898807--56898856 Score: 64
Period size: 9 Copynumber: 5.6 Consensus size: 9
56898797 TTTATACAAA
*
56898807 TAATTTGGT
1 TAATTCGGT
56898816 TAATTCGGT
1 TAATTCGGT
**
56898825 TAATTCAAT
1 TAATTCGGT
56898834 TAATTCGGT
1 TAATTCGGT
*
56898843 TAATTTGGT
1 TAATTCGGT
56898852 TAATT
1 TAATT
56898857 TTACACTTAT
Statistics
Matches: 35, Mismatches: 6, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
9 35 1.00
ACGTcount: A:0.28, C:0.06, G:0.16, T:0.50
Consensus pattern (9 bp):
TAATTCGGT
Found at i:56900205 original size:19 final size:20
Alignment explanation
Indices: 56900181--56900218 Score: 69
Period size: 20 Copynumber: 1.9 Consensus size: 20
56900171 TAAATTTTCC
56900181 TTTTCTT-TTTCTTTCCCTT
1 TTTTCTTGTTTCTTTCCCTT
56900200 TTTTCTTGTTTCTTTCCCT
1 TTTTCTTGTTTCTTTCCCT
56900219 GCTACTCATG
Statistics
Matches: 18, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
19 7 0.39
20 11 0.61
ACGTcount: A:0.00, C:0.26, G:0.03, T:0.71
Consensus pattern (20 bp):
TTTTCTTGTTTCTTTCCCTT
Found at i:56900302 original size:19 final size:19
Alignment explanation
Indices: 56900280--56900323 Score: 52
Period size: 19 Copynumber: 2.3 Consensus size: 19
56900270 TATTATATAC
* *
56900280 TATTATATTATATCATTAT
1 TATTATATTAAATCATAAT
* *
56900299 TATTATTTTAAATTATAAT
1 TATTATATTAAATCATAAT
56900318 TATTAT
1 TATTAT
56900324 TTCTTAAATA
Statistics
Matches: 21, Mismatches: 4, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
19 21 1.00
ACGTcount: A:0.39, C:0.02, G:0.00, T:0.59
Consensus pattern (19 bp):
TATTATATTAAATCATAAT
Found at i:56903829 original size:27 final size:27
Alignment explanation
Indices: 56903791--56903843 Score: 106
Period size: 27 Copynumber: 2.0 Consensus size: 27
56903781 TTATTACTGT
56903791 TAGCCCCAATTCCCAGAGGGTCGTGGG
1 TAGCCCCAATTCCCAGAGGGTCGTGGG
56903818 TAGCCCCAATTCCCAGAGGGTCGTGG
1 TAGCCCCAATTCCCAGAGGGTCGTGG
56903844 ACTTCTCTGA
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
27 26 1.00
ACGTcount: A:0.19, C:0.30, G:0.32, T:0.19
Consensus pattern (27 bp):
TAGCCCCAATTCCCAGAGGGTCGTGGG
Found at i:56905116 original size:26 final size:27
Alignment explanation
Indices: 56905059--56905117 Score: 66
Period size: 26 Copynumber: 2.2 Consensus size: 27
56905049 TAATTTAGCC
* * *
56905059 ATTTTTAATTTTTATTTTAATATTTTT
1 ATTTTTAATTTTAATTTTAATATTCTA
* *
56905086 GTTTTTAA-TTTAATTTTTATATTCTA
1 ATTTTTAATTTTAATTTTAATATTCTA
56905112 ATTTTT
1 ATTTTT
56905118 CGTTTGTTTG
Statistics
Matches: 26, Mismatches: 6, Indels: 1
0.79 0.18 0.03
Matches are distributed among these distances:
26 19 0.73
27 7 0.27
ACGTcount: A:0.25, C:0.02, G:0.02, T:0.71
Consensus pattern (27 bp):
ATTTTTAATTTTAATTTTAATATTCTA
Found at i:56926314 original size:40 final size:40
Alignment explanation
Indices: 56926175--56926320 Score: 125
Period size: 40 Copynumber: 3.6 Consensus size: 40
56926165 GCGACTCGCT
* * * *** * *
56926175 CAAAAGCCTTCGGGACATAGCCCGGTTATAATAGCTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGATATGGGAACTAGCA
* * *
56926215 CAAATGCCTTCGGGACTTAACCCGGATTTGGGAACTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGATATGGGAACTAGCA
* * **
56926255 CAAATGCCTTC-GGATCTTAGTCTGGATATGGTCACTTAGCA
1 CAAATGCCTTCGGGA-CTTAGCCCGGATATGGGAAC-TAGCA
56926296 CAAA-GCCTTCGGGACTTAGCCCGGA
1 CAAATGCCTTCGGGACTTAGCCCGGA
56926321 CATCATTCGA
Statistics
Matches: 85, Mismatches: 18, Indels: 6
0.78 0.17 0.06
Matches are distributed among these distances:
39 3 0.04
40 71 0.84
41 11 0.13
ACGTcount: A:0.26, C:0.27, G:0.24, T:0.23
Consensus pattern (40 bp):
CAAATGCCTTCGGGACTTAGCCCGGATATGGGAACTAGCA
Found at i:56928453 original size:16 final size:16
Alignment explanation
Indices: 56928431--56928469 Score: 62
Period size: 15 Copynumber: 2.5 Consensus size: 16
56928421 TAAAAAAATT
*
56928431 GAAAAAAATTTG-GAA
1 GAAAAAAATTTGAAAA
56928446 GAAAAAAATTTGAAAA
1 GAAAAAAATTTGAAAA
56928462 GAAAAAAA
1 GAAAAAAA
56928470 ATTCAAAAAA
Statistics
Matches: 22, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
15 12 0.55
16 10 0.45
ACGTcount: A:0.69, C:0.00, G:0.15, T:0.15
Consensus pattern (16 bp):
GAAAAAAATTTGAAAA
Found at i:56928477 original size:16 final size:16
Alignment explanation
Indices: 56928444--56928477 Score: 50
Period size: 16 Copynumber: 2.1 Consensus size: 16
56928434 AAAAATTTGG
* *
56928444 AAGAAAAAAATTTGAA
1 AAGAAAAAAAATTCAA
56928460 AAGAAAAAAAATTCAA
1 AAGAAAAAAAATTCAA
56928476 AA
1 AA
56928478 AAATTATTTT
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
16 16 1.00
ACGTcount: A:0.74, C:0.03, G:0.09, T:0.15
Consensus pattern (16 bp):
AAGAAAAAAAATTCAA
Found at i:56928897 original size:17 final size:16
Alignment explanation
Indices: 56928871--56928905 Score: 52
Period size: 17 Copynumber: 2.1 Consensus size: 16
56928861 GAGTGATCTC
56928871 ATTTAGTTTTATATTTT
1 ATTTAGTTTTAT-TTTT
*
56928888 ATTTATTTTTATTTTT
1 ATTTAGTTTTATTTTT
56928904 AT
1 AT
56928906 AAATTTTTTT
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
16 6 0.35
17 11 0.65
ACGTcount: A:0.23, C:0.00, G:0.03, T:0.74
Consensus pattern (16 bp):
ATTTAGTTTTATTTTT
Found at i:56928903 original size:23 final size:23
Alignment explanation
Indices: 56928872--56928937 Score: 71
Period size: 24 Copynumber: 2.8 Consensus size: 23
56928862 AGTGATCTCA
*
56928872 TTTAGTTTTATATTTTATTTATT
1 TTTATTTTTATATTTTATTTATT
*
56928895 TTTATTTTTATAAATTTT-TTTGTT
1 TTTATTTTTAT--ATTTTATTTATT
**
56928919 TTTATTTTTGCATTTTATT
1 TTTATTTTTATATTTTATT
56928938 ATGCACGGTA
Statistics
Matches: 36, Mismatches: 4, Indels: 6
0.78 0.09 0.13
Matches are distributed among these distances:
22 5 0.14
23 12 0.33
24 14 0.39
25 5 0.14
ACGTcount: A:0.20, C:0.02, G:0.05, T:0.74
Consensus pattern (23 bp):
TTTATTTTTATATTTTATTTATT
Found at i:56941048 original size:9 final size:9
Alignment explanation
Indices: 56941034--56941071 Score: 53
Period size: 8 Copynumber: 4.3 Consensus size: 9
56941024 AAAGTCATCC
56941034 AAATAAATA
1 AAATAAATA
56941043 AAATAAAT-
1 AAATAAATA
56941051 AAATAAATCA
1 AAATAAAT-A
56941061 AAATAAA-A
1 AAATAAATA
56941069 AAA
1 AAA
56941072 ACACACCAAT
Statistics
Matches: 27, Mismatches: 0, Indels: 5
0.84 0.00 0.16
Matches are distributed among these distances:
8 12 0.44
9 8 0.30
10 7 0.26
ACGTcount: A:0.79, C:0.03, G:0.00, T:0.18
Consensus pattern (9 bp):
AAATAAATA
Found at i:56941319 original size:26 final size:25
Alignment explanation
Indices: 56941261--56941320 Score: 66
Period size: 25 Copynumber: 2.4 Consensus size: 25
56941251 CATAAGGCCT
** * *
56941261 AATGGCCCAATTTCAAAACTGACCC
1 AATGGCCCAAACTAAAAAATGACCC
*
56941286 AATAGCCCAAACTAAAAAATGACCC
1 AATGGCCCAAACTAAAAAATGACCC
56941311 AAATGGCCCA
1 -AATGGCCCA
56941321 GGTAGGTTGA
Statistics
Matches: 28, Mismatches: 6, Indels: 1
0.80 0.17 0.03
Matches are distributed among these distances:
25 20 0.71
26 8 0.29
ACGTcount: A:0.43, C:0.30, G:0.12, T:0.15
Consensus pattern (25 bp):
AATGGCCCAAACTAAAAAATGACCC
Found at i:56942660 original size:28 final size:29
Alignment explanation
Indices: 56942623--56942683 Score: 72
Period size: 28 Copynumber: 2.1 Consensus size: 29
56942613 AATTCTATGT
56942623 TATTTCATATACATAATCT-CTTTAAAATC
1 TATTTCATATACAT-ATCTCCTTTAAAATC
* * *
56942652 TATTT-ATATATATATTTCCTTTCAAATC
1 TATTTCATATACATATCTCCTTTAAAATC
56942680 TATT
1 TATT
56942684 GTGTATATAG
Statistics
Matches: 28, Mismatches: 3, Indels: 3
0.82 0.09 0.09
Matches are distributed among these distances:
27 3 0.11
28 20 0.71
29 5 0.18
ACGTcount: A:0.34, C:0.15, G:0.00, T:0.51
Consensus pattern (29 bp):
TATTTCATATACATATCTCCTTTAAAATC
Found at i:56953239 original size:126 final size:126
Alignment explanation
Indices: 56953081--56953523 Score: 366
Period size: 126 Copynumber: 3.5 Consensus size: 126
56953071 CAAAAATTTC
* ** * *
56953081 TCAAAACAAAGGCAATGTTTGATGTTTGGAAATTCGAG-AAATCGTGCCCTAACATACTGGGTTT
1 TCAAAAC-GAGGCAATGTTCCATGTTTGGAAATCCGAGAAAAT-GTGCCCTAACGTACTGGGTTT
56953145 CGATTTTCCATTTGACCAAATAGTCAGATATCCCTTTAAAGTTTCGTCCATGTTTTCTTAACT
64 CGATTTTCCATTTGACCAAATAGTCAGATATCCCTTTAAAGTTTCGTCCATGTTTTCTTAACT
**
56953208 TCAAAACGAGGCAATGTTCCATGTTTGGAAATCCGAGAAAATGTGCCCTAACGTGTTGGGTTTC-
1 TCAAAACGAGGCAATGTTCCATGTTTGGAAATCCGAGAAAATGTGCCCTAACGTACTGGGTTTCG
* * * ** * * *** * * * *** *
56953272 AGTTTTTCGTTGGACCAAATAACCAAAAATGATTTTGTAA-TTT-TTCAAATGTATGGATT--TT
66 A-TTTTCCATTTGACCAAATAGTCAGATATCCCTTT-AAAGTTTCGTC-CATGT-TTTCTTAACT
* * * * * *** ** * * *
56953333 TGAAAATC-AAG-AATTGAT-CTTAGTTTCGAGGGCTTA-AAAGGTCATGTCCTAACGTACTGGG
1 TCAAAA-CGAGGCAA-TGTTCCAT-GTTTGGAAATCCGAGAAA-AT-GTGCCCTAACGTACTGGG
56953394 TTTCGATTTTCCATTTGACCAAATAGTCAGATATCCCTTTAAAGTTTCGTCCATGTTTTCTTAAC
61 TTTCGATTTTCCATTTGACCAAATAGTCAGATATCCCTTTAAAGTTTCGTCCATGTTTTCTTAAC
56953459 T
126 T
**
56953460 TCAAAACGAGGCAATGTTCCATGTTTGGAAATCCGAGAAAATGTGCCCTAACGTGTTGGGTTTC
1 TCAAAACGAGGCAATGTTCCATGTTTGGAAATCCGAGAAAATGTGCCCTAACGTACTGGGTTTC
56953524 AGTTTTTCGT
Statistics
Matches: 226, Mismatches: 71, Indels: 39
0.67 0.21 0.12
Matches are distributed among these distances:
124 7 0.03
125 28 0.12
126 145 0.64
127 39 0.17
128 7 0.03
ACGTcount: A:0.29, C:0.17, G:0.19, T:0.35
Consensus pattern (126 bp):
TCAAAACGAGGCAATGTTCCATGTTTGGAAATCCGAGAAAATGTGCCCTAACGTACTGGGTTTCG
ATTTTCCATTTGACCAAATAGTCAGATATCCCTTTAAAGTTTCGTCCATGTTTTCTTAACT
Found at i:56956970 original size:12 final size:12
Alignment explanation
Indices: 56956950--56956984 Score: 61
Period size: 12 Copynumber: 2.9 Consensus size: 12
56956940 GAAAAATTAG
56956950 AGCAAATGCAAA
1 AGCAAATGCAAA
*
56956962 AGGAAATGCAAA
1 AGCAAATGCAAA
56956974 AGCAAATGCAA
1 AGCAAATGCAA
56956985 GTGCAGATGC
Statistics
Matches: 21, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
12 21 1.00
ACGTcount: A:0.57, C:0.14, G:0.20, T:0.09
Consensus pattern (12 bp):
AGCAAATGCAAA
Found at i:56965583 original size:177 final size:176
Alignment explanation
Indices: 56965288--56965893 Score: 761
Period size: 177 Copynumber: 3.4 Consensus size: 176
56965278 TCACAGATTT
* *
56965288 TATCTCCCTAAGCAGTAGTGGAGCAGATCAAAAATGGCGAATCTTATCTTCCTGAGATAGCAGGG
1 TATCTCCCTAAGCAGTAGTGGAGTAGATC-AAAATGGCGAATCTTATCTTCCTGAGGTAGCAGGG
* * * *
56965353 GAGCAGATTTTAACCACCAGCCTTATCTCTCTGAGGTAGCAATAGAGCAGGTTGAAGATGGCAGT
65 GAGCAGATTTTAGCCACCAGCCTTATCTCTCTGAGGTAGCAAGAGAGCAGGTTGAAGATTGTAGT
56965418 CTTATCTTCCTGAA-GTAGCAAGGAAGCAGACTGAGGATTGT-GATCA
130 CTTATCTTCCT-AAGGTAGCAAGGAAGCAGACTGAGGATTGTAGATCA
* *
56965464 TATCTCCCTAAGCAATAGTGGAGTAGATCGAAAATGGCAAAATCTTATCTTCCTGAGGTAGCAGG
1 TATCTCCCTAAGCAGTAGTGGAGTAGATC-AAAATGGC-GAATCTTATCTTCCTGAGGTAGCAGG
*
56965529 GGAGCAGATTTTAGCCTCCAGCCTTATCTCTCTGAGGTAGCAAGAGAGCAGGTTGAAGATTGTAG
64 GGAGCAGATTTTAGCCACCAGCCTTATCTCTCTGAGGTAGCAAGAGAGCAGGTTGAAGATTGTAG
* * *
56965594 TCTTATATTCCTAAGGTAGCAAGGAAGCAGATTGAGGATTGTAGATCT
129 TCTTATCTTCCTAAGGTAGCAAGGAAGCAGACTGAGGATTGTAGATCA
* * * *
56965642 TATCTCCTTAAGCAGTAGTGGAGTAGATCAAAGATGGTGAATCTTATCTTCCCGAGGTAGCAGGA
1 TATCTCCCTAAGCAGTAGTGGAGTAGATCAAA-ATGGCGAATCTTATCTTCCTGAGGTAGCAGGG
* * * * * *
56965707 GAGCAGATTTTAGTCACTAGCCTTATCTCTCTGAGGAAGCAAGGGAGCAGGCTGAAGATTATAGT
65 GAGCAGATTTTAGCCACCAGCCTTATCTCTCTGAGGTAGCAAGAGAGCAGGTTGAAGATTGTAGT
* ** * * *
56965772 TTTATCTTCCTAAGGTAGCAA-GAGAGCAGACTGAATATTATAAATCT
130 CTTATCTTCCTAAGGTAGCAAGGA-AGCAGACTGAGGATTGTAGATCA
* * * * * * * * *
56965819 TATCTCCCTGATGTAGCAGTGGAGCAGATCGAAGACGGTGAATCTTATC-TCCATAAGGTAGCAA
1 TATCTCCCT-AAGCAGTAGTGGAGTAGATC-AAAATGGCGAATCTTATCTTCC-TGAGGTAGCAG
*
56965883 TGGAGCAGATT
63 GGGAGCAGATT
56965894 GAAACCATCA
Statistics
Matches: 377, Mismatches: 45, Indels: 14
0.86 0.10 0.03
Matches are distributed among these distances:
176 39 0.10
177 254 0.67
178 82 0.22
179 2 0.01
ACGTcount: A:0.30, C:0.18, G:0.25, T:0.27
Consensus pattern (176 bp):
TATCTCCCTAAGCAGTAGTGGAGTAGATCAAAATGGCGAATCTTATCTTCCTGAGGTAGCAGGGG
AGCAGATTTTAGCCACCAGCCTTATCTCTCTGAGGTAGCAAGAGAGCAGGTTGAAGATTGTAGTC
TTATCTTCCTAAGGTAGCAAGGAAGCAGACTGAGGATTGTAGATCA
Found at i:56965599 original size:44 final size:44
Alignment explanation
Indices: 56965551--56965896 Score: 145
Period size: 44 Copynumber: 7.8 Consensus size: 44
56965541 AGCCTCCAGC
*
56965551 CTTATCTCTCTGAGGTAGCAAGAGAGCAGGTTGAAGATTGTAGT
1 CTTATCTCTCTGAGGTAGCAAGAGAGCAGATTGAAGATTGTAGT
* * *
56965595 CTTATAT-TCCTAAGGTAGCAAG-GAAGCAGATTGAGGATTGTAGAT
1 CTTATCTCT-CTGAGGTAGCAAGAG-AGCAGATTGAAGATTGTAG-T
* * * * * * ** * *
56965640 CTTATCTC-CTTAAGCAG-TAGTGGAGTAGATCAAAGATGGTGAAT
1 CTTATCTCTCTGAGGTAGCAAG-AGAGCAGATTGAAGATTGT-AGT
* * ** ** *
56965684 CTTATCT-TCCCGAGGTAGCAGGAGAGCAGATTTTAG-TCACTAGC
1 CTTATCTCT-CTGAGGTAGCAAGAGAGCAGATTGAAGAT-TGTAGT
* * ** *
56965728 CTTATCTCTCTGAGGAAGCAAGGGAGCAGGCTGAAGATTATAGT
1 CTTATCTCTCTGAGGTAGCAAGAGAGCAGATTGAAGATTGTAGT
* * * * * *
56965772 TTTATCT-TCCTAAGGTAGCAAGAGAGCAGACTGAATATTATAAAT
1 CTTATCTCT-CTGAGGTAGCAAGAGAGCAGATTGAAGATTGT-AGT
* * * * ** *
56965817 CTTATCTCCCTGATGTAGC-AGTGGAGCAGATCGAAGACGGTGAAT
1 CTTATCTCTCTGAGGTAGCAAG-AGAGCAGATTGAAGATTGT-AGT
*
56965862 CTTATCTC-CATAAGGTAGCAATG-GAGCAGATTGAA
1 CTTATCTCTC-TGAGGTAGCAA-GAGAGCAGATTGAA
56965897 ACCATCAGCC
Statistics
Matches: 219, Mismatches: 63, Indels: 39
0.68 0.20 0.12
Matches are distributed among these distances:
43 5 0.02
44 128 0.58
45 83 0.38
46 2 0.01
47 1 0.00
ACGTcount: A:0.31, C:0.16, G:0.26, T:0.28
Consensus pattern (44 bp):
CTTATCTCTCTGAGGTAGCAAGAGAGCAGATTGAAGATTGTAGT
Found at i:56965788 original size:88 final size:88
Alignment explanation
Indices: 56965506--56965801 Score: 253
Period size: 88 Copynumber: 3.4 Consensus size: 88
56965496 AATGGCAAAA
* * * * *
56965506 TCTTATCTTCCTGAGGTAGCAGGGGAGCAGATTTTAGCCTCCAGCCTTATCTCTCTGAGGTAGCA
1 TCTTATCTTCCTAAGGTAGCAGGAGAGCAGATTTTAGTCTCTAGCCTTATCTCTCTGAGGAAGCA
* *
56965571 AGAGAGCAGGTTGAAGATTGTAG
66 AGGGAGCAGGATGAAGATTGTAG
* * * * * * *
56965594 TCTTATATTCCTAAGGTAGCAAGGA-AGCAGA-TTGAGGAT-TGTAGATCTTATCTC-CTTAAGC
1 TCTTATCTTCCTAAGGTAGC-AGGAGAGCAGATTTTA-G-TCTCTAG-CCTTATCTCTCTGAGGA
* * * * *
56965655 AG-TAGTGGAGTA-GATCAAAGATGGTGAA
62 AGCAAG-GGAGCAGGAT-GAAGATTGT-AG
** *
56965683 TCTTATCTTCCCGAGGTAGCAGGAGAGCAGATTTTAGTCACTAGCCTTATCTCTCTGAGGAAGCA
1 TCTTATCTTCCTAAGGTAGCAGGAGAGCAGATTTTAGTCTCTAGCCTTATCTCTCTGAGGAAGCA
* *
56965748 AGGGAGCAGGCTGAAGATTATAG
66 AGGGAGCAGGATGAAGATTGTAG
* *
56965771 TTTTATCTTCCTAAGGTAGCAAGAGAGCAGA
1 TCTTATCTTCCTAAGGTAGCAGGAGAGCAGA
56965802 CTGAATATTA
Statistics
Matches: 156, Mismatches: 39, Indels: 26
0.71 0.18 0.12
Matches are distributed among these distances:
87 7 0.04
88 86 0.55
89 56 0.36
90 7 0.04
ACGTcount: A:0.28, C:0.17, G:0.27, T:0.28
Consensus pattern (88 bp):
TCTTATCTTCCTAAGGTAGCAGGAGAGCAGATTTTAGTCTCTAGCCTTATCTCTCTGAGGAAGCA
AGGGAGCAGGATGAAGATTGTAG
Found at i:56966650 original size:5 final size:6
Alignment explanation
Indices: 56966628--56966660 Score: 57
Period size: 6 Copynumber: 5.3 Consensus size: 6
56966618 GCTTTGGGGC
56966628 TTTTTGA TTTTTA TTTTTA TTTTTA TTTTTA TT
1 TTTTT-A TTTTTA TTTTTA TTTTTA TTTTTA TT
56966661 CAGATATAAG
Statistics
Matches: 26, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
6 21 0.81
7 5 0.19
ACGTcount: A:0.15, C:0.00, G:0.03, T:0.82
Consensus pattern (6 bp):
TTTTTA
Found at i:56967781 original size:2 final size:2
Alignment explanation
Indices: 56967774--56967798 Score: 50
Period size: 2 Copynumber: 12.5 Consensus size: 2
56967764 AAAATCTATT
56967774 TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA T
56967799 TTCCTTTCAA
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 23 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Found at i:56969357 original size:37 final size:37
Alignment explanation
Indices: 56969316--56969388 Score: 110
Period size: 37 Copynumber: 2.0 Consensus size: 37
56969306 TGAATTTTCG
*
56969316 AACTATTTTTTTACTATTTTCTTGCACATAAATTATT
1 AACTATTTTATTACTATTTTCTTGCACATAAATTATT
* * *
56969353 AACTATTTTATTATTATTTTGTTGTACATAAATTAT
1 AACTATTTTATTACTATTTTCTTGCACATAAATTAT
56969389 ATTAAATTGT
Statistics
Matches: 32, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
37 32 1.00
ACGTcount: A:0.32, C:0.10, G:0.04, T:0.55
Consensus pattern (37 bp):
AACTATTTTATTACTATTTTCTTGCACATAAATTATT
Found at i:56971941 original size:7 final size:7
Alignment explanation
Indices: 56971931--56971956 Score: 52
Period size: 7 Copynumber: 3.7 Consensus size: 7
56971921 ATGCATAGTG
56971931 CAATACA
1 CAATACA
56971938 CAATACA
1 CAATACA
56971945 CAATACA
1 CAATACA
56971952 CAATA
1 CAATA
56971957 GCAATTTTAG
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 19 1.00
ACGTcount: A:0.58, C:0.27, G:0.00, T:0.15
Consensus pattern (7 bp):
CAATACA
Found at i:56972371 original size:89 final size:89
Alignment explanation
Indices: 56972175--56972432 Score: 320
Period size: 89 Copynumber: 2.9 Consensus size: 89
56972165 ACTGGTTTTG
* * * * *
56972175 CAGATAAAATCTATCACTGGGCTGTGAATACACAACAAAAATTCTCAAATTAAACCTGCCACTAG
1 CAGATAAAATCTATCACTGGGCTATGGATACACAACAAAAATTCT-AGATGAAACTTGCCACTAG
* **
56972240 ACTGTGGGTACACAGCAAAATATTG
65 GCTGTGGGTACACAGCAAAATATCA
* * * *
56972265 TAGATAAAATCTGTCACTGGGCTATGGATACAGAACAAAAATTCATAGATGAAACTTGCCA-TGG
1 CAGATAAAATCTATCACTGGGCTATGGATACACAACAAAAATTC-TAGATGAAACTTGCCACTAG
56972329 GCTGTGGGTACACAGCAAAATATCA
65 GCTGTGGGTACACAGCAAAATATCA
* * * ** *
56972354 CAGATAAAATCTATCACTAGACTATGGATACATAGTAAAAATTCGTTGATGAAACTTGCCACTAG
1 CAGATAAAATCTATCACTGGGCTATGGATACACAACAAAAATTC-TAGATGAAACTTGCCACTAG
56972419 GCTGTGGGTACACA
65 GCTGTGGGTACACA
56972433 ATAAAAATTC
Statistics
Matches: 144, Mismatches: 22, Indels: 4
0.85 0.13 0.02
Matches are distributed among these distances:
89 76 0.53
90 67 0.47
91 1 0.01
ACGTcount: A:0.38, C:0.19, G:0.19, T:0.24
Consensus pattern (89 bp):
CAGATAAAATCTATCACTGGGCTATGGATACACAACAAAAATTCTAGATGAAACTTGCCACTAGG
CTGTGGGTACACAGCAAAATATCA
Found at i:56972438 original size:45 final size:45
Alignment explanation
Indices: 56972189--56972483 Score: 210
Period size: 45 Copynumber: 6.6 Consensus size: 45
56972179 TAAAATCTAT
* ** * * *
56972189 CACTGGGCTGTGAATACACAACAAAAATTC-TCAAATTAAACCTGC
1 CACTAGGCTGTGGGTACACAACAAAAATTCGT-AGATGAAACTTGC
* * * *
56972234 CACTAGACTGTGGGTACACAGCAAAATATT-GTAGAT-AAAATCTGT
1 CACTAGGCTGTGGGTACACAACAAAA-ATTCGTAGATGAAACT-TGC
* * * * *
56972279 CACTGGGCTATGGATACAGAACAAAAATTCATAGATGAAACTTGC
1 CACTAGGCTGTGGGTACACAACAAAAATTCGTAGATGAAACTTGC
* * ** *
56972324 CA-TGGGCTGTGGGTACACAGC-AAAATATCACAGATAAAATCTAT--
1 CACTAGGCTGTGGGTACACAACAAAAAT-TCGTAGATGAAA-CT-TGC
* * * * ** *
56972368 CACTAGACTATGGATACATAGTAAAAATTCGTTGATGAAACTTGC
1 CACTAGGCTGTGGGTACACAACAAAAATTCGTAGATGAAACTTGC
* *
56972413 CACTAGGCTGTGGGTACACAATAAAAATTCGTAGATGAAACTTGT
1 CACTAGGCTGTGGGTACACAACAAAAATTCGTAGATGAAACTTGC
56972458 CACT-GGACTGTGGGTACACAACAAAA
1 CACTAGG-CTGTGGGTACACAACAAAA
56972484 TATCGAAGAT
Statistics
Matches: 195, Mismatches: 42, Indels: 26
0.74 0.16 0.10
Matches are distributed among these distances:
43 6 0.03
44 37 0.19
45 138 0.71
46 14 0.07
ACGTcount: A:0.38, C:0.18, G:0.19, T:0.24
Consensus pattern (45 bp):
CACTAGGCTGTGGGTACACAACAAAAATTCGTAGATGAAACTTGC
Found at i:56972484 original size:89 final size:89
Alignment explanation
Indices: 56972176--56972484 Score: 288
Period size: 90 Copynumber: 3.4 Consensus size: 89
56972166 CTGGTTTTGC
* * * * * * *
56972176 AGATAAAATCTATCACTGGGCTGTGAATACACAACAAAAATTC-TCAAATTAAACCTGCCACTAG
1 AGATAAAATCTGTCACTGGACTATGGATACACAAC-AAAATTCAT-AGATGAAACTTGCCACTAG
* *
56972240 ACTGTGGGTACACAGCAAAATATT-GT
64 GCTGTGGGTACACAACAAAA-ATTCGT
* * *
56972266 AGATAAAATCTGTCACTGGGCTATGGATACAGAACAAAAATTCATAGATGAAACTTGCCA-TGGG
1 AGATAAAATCTGTCACTGGACTATGGATACACAAC-AAAATTCATAGATGAAACTTGCCACTAGG
* **
56972330 CTGTGGGTACACAGC-AAAATATCAC
65 CTGTGGGTACACAACAAAAAT-TCGT
* * * * *
56972355 AGATAAAATCTATCACTAGACTATGGATACATAGTA-AAAATTCGTTGATGAAACTTGCCACTAG
1 AGATAAAATCTGTCACTGGACTATGGATACACA--ACAAAATTCATAGATGAAACTTGCCACTAG
*
56972419 GCTGTGGGTACACAATAAAAATTCGT
64 GCTGTGGGTACACAACAAAAATTCGT
* * *
56972445 AGATGAAA-CTTGTCACTGGACTGTGGGTACACAACAAAAT
1 AGATAAAATC-TGTCACTGGACTATGGATACACAACAAAAT
56972485 ATCGAAGATA
Statistics
Matches: 182, Mismatches: 28, Indels: 19
0.79 0.12 0.08
Matches are distributed among these distances:
87 2 0.01
88 5 0.03
89 74 0.41
90 94 0.52
91 7 0.04
ACGTcount: A:0.39, C:0.18, G:0.19, T:0.25
Consensus pattern (89 bp):
AGATAAAATCTGTCACTGGACTATGGATACACAACAAAATTCATAGATGAAACTTGCCACTAGGC
TGTGGGTACACAACAAAAATTCGT
Found at i:56972504 original size:45 final size:45
Alignment explanation
Indices: 56972176--56972508 Score: 179
Period size: 45 Copynumber: 7.4 Consensus size: 45
56972166 CTGGTTTTGC
* * ** *
56972176 AGATAAAATCTATCACTGGGCTGTGAATACACAACAAAA-ATTCTCA
1 AGATAAAATCTGTCACTGGACTGTGGGTACACAACAAAATA-TC-GA
* * * * * * *
56972222 A-ATTAAACCTGCCACTAGACTGTGGGTACACAGCAAAATATTGT
1 AGATAAAATCTGTCACTGGACTGTGGGTACACAACAAAATATCGA
* * * *
56972266 AGATAAAATCTGTCACTGGGCTATGGATACAGAACAAAA-ATTC-A
1 AGATAAAATCTGTCACTGGACTGTGGGTACACAACAAAATA-TCGA
* * * *
56972310 TAGATGAAA-CTTGCCA-TGGGCTGTGGGTACACAGCAAAATATC-A
1 -AGATAAAATC-TGTCACTGGACTGTGGGTACACAACAAAATATCGA
* * * * * *
56972354 CAGATAAAATCTATCACTAGACTATGGATACATAGTA-AAAAT-TCGT
1 -AGATAAAATCTGTCACTGGACTGTGGGTACACA--ACAAAATATCGA
* * * * *
56972400 TGATGAAA-CTTGCCACTAGG-CTGTGGGTACACAATAAAA-ATTCGT
1 AGATAAAATC-TGTCACT-GGACTGTGGGTACACAACAAAATA-TCGA
*
56972445 AGATGAAA-CTTGTCACTGGACTGTGGGTACACAACAAAATATCGA
1 AGATAAAATC-TGTCACTGGACTGTGGGTACACAACAAAATATCGA
56972490 AGATAAAATCTGTCACTGG
1 AGATAAAATCTGTCACTGG
56972509 GTTGTAGATC
Statistics
Matches: 215, Mismatches: 53, Indels: 39
0.70 0.17 0.13
Matches are distributed among these distances:
43 1 0.00
44 42 0.20
45 162 0.75
46 10 0.05
ACGTcount: A:0.39, C:0.18, G:0.19, T:0.25
Consensus pattern (45 bp):
AGATAAAATCTGTCACTGGACTGTGGGTACACAACAAAATATCGA
Found at i:56973104 original size:28 final size:28
Alignment explanation
Indices: 56973064--56973285 Score: 141
Period size: 28 Copynumber: 7.9 Consensus size: 28
56973054 AAATTTTGAA
* *
56973064 CAAAGCTATAAAATCTGAATAATAGGGG
1 CAAAACTATAAAATCTGAAAAATAGGGG
56973092 CAAAACTATAAAATCTGAAAAAAATAGAGGG
1 CAAAACTATAAAATCTG--AAAAATAG-GGG
* * *
56973123 --AAAGTGTAAAATCTAAAAAATATGGGG
1 CAAAACTATAAAATCTGAAAAATA-GGGG
*
56973150 -AAAACTATAAAATCT-AAAAATTAAGGG
1 CAAAACTATAAAATCTGAAAAA-TAGGGG
* * * *
56973177 TAAAATTATAAAATCTG-AAAATATGGA
1 CAAAACTATAAAATCTGAAAAATAGGGG
* * **
56973204 CAAAATTATAAAATCTAAAAGAATAGAAG
1 CAAAACTATAAAATCTGAAA-AATAGGGG
* * * * *
56973233 -AAAACTGTCAAATCTAAAAAATAGAGA
1 CAAAACTATAAAATCTGAAAAATAGGGG
*** *
56973260 CAAGTTTATAAAATCTAAAAAATAGG
1 CAAAACTATAAAATCTGAAAAATAGG
56973286 AAATATATCG
Statistics
Matches: 155, Mismatches: 28, Indels: 22
0.76 0.14 0.11
Matches are distributed among these distances:
27 43 0.28
28 86 0.55
29 16 0.10
30 7 0.05
31 3 0.02
ACGTcount: A:0.56, C:0.08, G:0.14, T:0.22
Consensus pattern (28 bp):
CAAAACTATAAAATCTGAAAAATAGGGG
Found at i:56973135 original size:57 final size:56
Alignment explanation
Indices: 56973065--56973230 Score: 178
Period size: 57 Copynumber: 2.9 Consensus size: 56
56973055 AATTTTGAAC
56973065 AAAGCTATAAAATCTGAATAATAGGGGCAAAACTATAAAATCTGAAAAAAATAGAGGG-
1 AAAG-TATAAAATCTGAA-AATAGGGGCAAAACTATAAAATCT-AAAAAAATAGAGGGA
* * *
56973123 AAAGTGTAAAATCTAAAAAATATGGGG-AAAACTATAAAATCT-AAAAATTA-AGGGTA
1 AAAGTATAAAATCT-GAAAATA-GGGGCAAAACTATAAAATCTAAAAAAATAGAGGG-A
* * * * *
56973179 AAATTATAAAATCTGAAAATATGGACAAAATTATAAAATCTAAAAGAATAGA
1 AAAGTATAAAATCTGAAAATAGGGGCAAAACTATAAAATCTAAAAAAATAGA
56973231 AGAAAACTGT
Statistics
Matches: 90, Mismatches: 11, Indels: 15
0.78 0.09 0.13
Matches are distributed among these distances:
54 6 0.07
55 27 0.30
56 18 0.20
57 29 0.32
58 10 0.11
ACGTcount: A:0.56, C:0.07, G:0.15, T:0.22
Consensus pattern (56 bp):
AAAGTATAAAATCTGAAAATAGGGGCAAAACTATAAAATCTAAAAAAATAGAGGGA
Done.