Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: A09
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: 81831061
ACGTcount: A:0.31, C:0.16, G:0.16, T:0.31
Warning! 3560000 characters in sequence are not A, C, G, or T
File 174 of 259
Found at i:56556117 original size:43 final size:44
Alignment explanation
Indices: 56556053--56556165 Score: 124
Period size: 43 Copynumber: 2.6 Consensus size: 44
56556043 ATTGATCTGT
* ** *
56556053 GATTTTGTGTAAGACTGTGTCTGGGACACAGGCCTCGAT-TTGA
1 GATTTCGTGTAAGACCCTGTCTGGGACACAGGCCTCGATACTGA
* *
56556096 GATTTCGTGTAAGACCCTGTCTGGGACAGAGGCTTCGATACTGA
1 GATTTCGTGTAAGACCCTGTCTGGGACACAGGCCTCGATACTGA
* *
56556140 -ATTACATGTAAGACCACT-TCTGGGAC
1 GATTTCGTGTAAGACC-CTGTCTGGGAC
56556166 GTTGGCATTG
Statistics
Matches: 60, Mismatches: 8, Indels: 4
0.83 0.11 0.06
Matches are distributed among these distances:
43 55 0.92
44 5 0.08
ACGTcount: A:0.24, C:0.19, G:0.27, T:0.29
Consensus pattern (44 bp):
GATTTCGTGTAAGACCCTGTCTGGGACACAGGCCTCGATACTGA
Found at i:56560462 original size:46 final size:46
Alignment explanation
Indices: 56560410--56560778 Score: 576
Period size: 46 Copynumber: 8.0 Consensus size: 46
56560400 AGTGTGCTCT
*
56560410 CTGATATGGAATGTGTAAGACCATGGTTGAAAGATACCATGGCAAC
1 CTGATATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAAC
56560456 CTGATATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAAC
1 CTGATATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAAC
* *
56560502 GTGATATGGAATGTGTAAGACCATGGTTGAAAGATACCATGGCAAC
1 CTGATATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAAC
*
56560548 CTGATATGGAATGTGTAAGACCATGGTTGAAAGATACCATGGCAAC
1 CTGATATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAAC
*
56560594 CTGATATGAAATATGTAAGACCATGGTTGAAAGATACCATGGCAAC
1 CTGATATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAAC
* **
56560640 ATGATATGAAATGAATAAGACCATGGTTGAAAGATACCATGGCAAC
1 CTGATATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAAC
* * *
56560686 CTGACATGAAATGAGTAAGACCATGGTTGAAAGATACTATGGCAAC
1 CTGATATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAAC
* *** **
56560732 ATGACGGGAAAATGAATAAGACCATGGTTGAAAGATACCATGGCAAC
1 CTGATATG-AAATGTGTAAGACCATGGTTGAAAGATACCATGGCAAC
56560779 ATGACAGAAA
Statistics
Matches: 303, Mismatches: 19, Indels: 1
0.94 0.06 0.00
Matches are distributed among these distances:
46 267 0.88
47 36 0.12
ACGTcount: A:0.38, C:0.15, G:0.25, T:0.22
Consensus pattern (46 bp):
CTGATATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAAC
Found at i:56564501 original size:22 final size:22
Alignment explanation
Indices: 56564474--56564517 Score: 70
Period size: 22 Copynumber: 2.0 Consensus size: 22
56564464 GAAAATAATC
*
56564474 AAAATTAATGAAAATTTATTAT
1 AAAATTAATGAAAATTCATTAT
*
56564496 AAAATTAATTAAAATTCATTAT
1 AAAATTAATGAAAATTCATTAT
56564518 GTTAATAATT
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
22 20 1.00
ACGTcount: A:0.55, C:0.02, G:0.02, T:0.41
Consensus pattern (22 bp):
AAAATTAATGAAAATTCATTAT
Found at i:56566402 original size:10 final size:10
Alignment explanation
Indices: 56566387--56566426 Score: 71
Period size: 10 Copynumber: 3.9 Consensus size: 10
56566377 CTGTTTTGTA
56566387 CATGATATGC
1 CATGATATGC
56566397 CATGATATGC
1 CATGATATGC
56566407 ACATGATATGC
1 -CATGATATGC
56566418 CATGATATG
1 CATGATATG
56566427 TTCATTTATG
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:56566412 original size:21 final size:21
Alignment explanation
Indices: 56566386--56566426 Score: 82
Period size: 21 Copynumber: 2.0 Consensus size: 21
56566376 ACTGTTTTGT
56566386 ACATGATATGCCATGATATGC
1 ACATGATATGCCATGATATGC
56566407 ACATGATATGCCATGATATG
1 ACATGATATGCCATGATATG
56566427 TTCATTTATG
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:56566554 original size:24 final size:25
Alignment explanation
Indices: 56566472--56566541 Score: 131
Period size: 25 Copynumber: 2.8 Consensus size: 25
56566462 GAGGAAGTGC
*
56566472 AAAAGGGCTTTGCCCCAGTTTACCG
1 AAAAGGGCTTTGCCCCAGTTTACCA
56566497 AAAAGGGCTTTGCCCCAGTTTACCA
1 AAAAGGGCTTTGCCCCAGTTTACCA
56566522 AAAAGGGCTTTGCCCCAGTT
1 AAAAGGGCTTTGCCCCAGTT
56566542 ATTAAAAGTG
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:56566565 original size:50 final size:50
Alignment explanation
Indices: 56566472--56566566 Score: 122
Period size: 50 Copynumber: 1.9 Consensus size: 50
56566462 GAGGAAGTGC
**
56566472 AAAAGGGCTTTGCCCCAGTTTACCGAAAAGGGCTTTGCCCCAGTTTACCA
1 AAAAGGGCTTTGCCCCAGTTTACCGAAAAGGGCTAGGCCCCAGTTTACCA
**
56566522 AAAAGGGCTTTGCCCCAG-TTA-TTAAAAGTGGCTAGGCCTCCAGTT
1 AAAAGGGCTTTGCCCCAGTTTACCGAAAAG-GGCTAGGCC-CCAGTT
56566567 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:0.26, C:0.25, G:0.23, T:0.25
Consensus pattern (50 bp):
AAAAGGGCTTTGCCCCAGTTTACCGAAAAGGGCTAGGCCCCAGTTTACCA
Found at i:56566797 original size:31 final size:31
Alignment explanation
Indices: 56566762--56566828 Score: 116
Period size: 31 Copynumber: 2.2 Consensus size: 31
56566752 CGTTTACAGT
*
56566762 AAAGGCTTTGGCCCAGTGATATAAATAATGA
1 AAAGGCTTCGGCCCAGTGATATAAATAATGA
*
56566793 AAAGGCTTCGGCCCAGTGATATGAATAATGA
1 AAAGGCTTCGGCCCAGTGATATAAATAATGA
56566824 AAAGG
1 AAAGG
56566829 GTTAGCCCAG
Statistics
Matches: 34, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
31 34 1.00
ACGTcount: A:0.39, C:0.13, G:0.25, T:0.22
Consensus pattern (31 bp):
AAAGGCTTCGGCCCAGTGATATAAATAATGA
Found at i:56566839 original size:30 final size:31
Alignment explanation
Indices: 56566762--56566844 Score: 107
Period size: 31 Copynumber: 2.7 Consensus size: 31
56566752 CGTTTACAGT
** *
56566762 AAAGGCTTTGGCCCAGTGATATAAATAATGA
1 AAAGGCTTCAGCCCAGTGATATGAATAATGA
*
56566793 AAAGGCTTCGGCCCAGTGATATGAATAATGA
1 AAAGGCTTCAGCCCAGTGATATGAATAATGA
*
56566824 AAAGGGTT-AGCCCAGT-ATATG
1 AAAGGCTTCAGCCCAGTGATATG
56566845 TTGAGACTGA
Statistics
Matches: 48, Mismatches: 4, Indels: 2
0.89 0.07 0.04
Matches are distributed among these distances:
29 5 0.10
30 7 0.15
31 36 0.75
ACGTcount: A:0.36, C:0.14, G:0.25, T:0.24
Consensus pattern (31 bp):
AAAGGCTTCAGCCCAGTGATATGAATAATGA
Found at i:56574255 original size:25 final size:25
Alignment explanation
Indices: 56574227--56574277 Score: 84
Period size: 25 Copynumber: 2.0 Consensus size: 25
56574217 CCCTTATAAT
* *
56574227 GTGAAAATGACCATTTTTCCCCTAG
1 GTGAAAATGACCATTATACCCCTAG
56574252 GTGAAAATGACCATTATACCCCTAG
1 GTGAAAATGACCATTATACCCCTAG
56574277 G
1 G
56574278 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:0.18, T:0.27
Consensus pattern (25 bp):
GTGAAAATGACCATTATACCCCTAG
Found at i:56574332 original size:10 final size:10
Alignment explanation
Indices: 56574317--56574345 Score: 58
Period size: 10 Copynumber: 2.9 Consensus size: 10
56574307 CTGTTTTGTA
56574317 CATGATATGC
1 CATGATATGC
56574327 CATGATATGC
1 CATGATATGC
56574337 CATGATATG
1 CATGATATG
56574346 TTCATATATG
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
10 19 1.00
ACGTcount: A:0.31, C:0.17, G:0.21, T:0.31
Consensus pattern (10 bp):
CATGATATGC
Found at i:56574669 original size:31 final size:31
Alignment explanation
Indices: 56574631--56574700 Score: 122
Period size: 31 Copynumber: 2.3 Consensus size: 31
56574621 CGTTTACAGT
56574631 AAAGGCTTCGACCCAGTGATATAAATAATGA
1 AAAGGCTTCGACCCAGTGATATAAATAATGA
* *
56574662 AAAGGCTTCGGCCCAGTGATATGAATAATGA
1 AAAGGCTTCGACCCAGTGATATAAATAATGA
56574693 AAAGGCTT
1 AAAGGCTT
56574701 AGGCCAGTAT
Statistics
Matches: 37, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
31 37 1.00
ACGTcount: A:0.39, C:0.16, G:0.23, T:0.23
Consensus pattern (31 bp):
AAAGGCTTCGACCCAGTGATATAAATAATGA
Found at i:56576286 original size:3 final size:3
Alignment explanation
Indices: 56576237--56576266 Score: 60
Period size: 3 Copynumber: 10.0 Consensus size: 3
56576227 AAAAAATATG
56576237 ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT
1 ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT
56576267 TGAGATGTTT
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 27 1.00
ACGTcount: A:0.33, C:0.00, G:0.00, T:0.67
Consensus pattern (3 bp):
ATT
Found at i:56582639 original size:20 final size:20
Alignment explanation
Indices: 56582611--56582656 Score: 58
Period size: 20 Copynumber: 2.3 Consensus size: 20
56582601 ACTTCGGTGT
56582611 CTCTATTTGCACGTTTG-TGC
1 CTCTATTTGCAC-TTTGATGC
*
56582631 CTCTTTTTGCACTTTGATGC
1 CTCTATTTGCACTTTGATGC
*
56582651 CCCTAT
1 CTCTAT
56582657 ATATACTTCA
Statistics
Matches: 22, Mismatches: 3, Indels: 2
0.81 0.11 0.07
Matches are distributed among these distances:
19 4 0.18
20 18 0.82
ACGTcount: A:0.11, C:0.28, G:0.15, T:0.46
Consensus pattern (20 bp):
CTCTATTTGCACTTTGATGC
Found at i:56582684 original size:20 final size:20
Alignment explanation
Indices: 56582566--56582685 Score: 52
Period size: 20 Copynumber: 6.0 Consensus size: 20
56582556 TATATAGTTT
*
56582566 AGTGTTCCTATTTGCACTTC
1 AGTGTCCCTATTTGCACTTC
* *
56582586 GGTG-CCACTGTATT-CACTTC
1 AGTGTCC-CTAT-TTGCACTTC
* *
56582606 GGTGTCTCTATTTGCACGTT-
1 AGTGTCCCTATTTGCAC-TTC
* *
56582626 TGTG-CCTCTTTTTGCACTT-
1 AGTGTCC-CTATTTGCACTTC
* * * **
56582645 TGATGCCCCTATATATACTTC
1 AG-TGTCCCTATTTGCACTTC
56582666 AGTGTCCCTATTTGCACTTC
1 AGTGTCCCTATTTGCACTTC
56582686 GATGCATCTG
Statistics
Matches: 74, Mismatches: 17, Indels: 18
0.68 0.16 0.17
Matches are distributed among these distances:
19 8 0.11
20 58 0.78
21 8 0.11
ACGTcount: A:0.14, C:0.27, G:0.17, T:0.42
Consensus pattern (20 bp):
AGTGTCCCTATTTGCACTTC
Found at i:56582730 original size:100 final size:100
Alignment explanation
Indices: 56582548--56582741 Score: 273
Period size: 100 Copynumber: 1.9 Consensus size: 100
56582538 AATGAAGAAC
* * * * * *
56582548 TGCCCCTGTATATAGTTTAGTGTTCCTATTTGCACTTCGGTGCCACTGTATTCACTTCGGTGTCT
1 TGCCCCTATATATACTTCAGTGTCCCTATTTGCACTTCGATGCCACTGTATACACTTCGGTGTCT
* * *
56582613 CTATTTGCACGTTTGTGCCTCTTTTTGCACTTTGA
66 CTATTTGCACGTCTGTGCCCCTGTTTGCACTTTGA
*
56582648 TGCCCCTATATATACTTCAGTGTCCCTATTTGCACTTCGATG-CATCTGTATACACTTTGGTGTC
1 TGCCCCTATATATACTTCAGTGTCCCTATTTGCACTTCGATGCCA-CTGTATACACTTCGGTGTC
*
56582712 TCTATTTGTACGTCTGTGCCCCTGTTTGCA
65 TCTATTTGCACGTCTGTGCCCCTGTTTGCA
56582742 TTTAAGTGTC
Statistics
Matches: 82, Mismatches: 11, Indels: 2
0.86 0.12 0.02
Matches are distributed among these distances:
99 2 0.02
100 80 0.98
ACGTcount: A:0.14, C:0.25, G:0.18, T:0.42
Consensus pattern (100 bp):
TGCCCCTATATATACTTCAGTGTCCCTATTTGCACTTCGATGCCACTGTATACACTTCGGTGTCT
CTATTTGCACGTCTGTGCCCCTGTTTGCACTTTGA
Found at i:56584619 original size:42 final size:43
Alignment explanation
Indices: 56584511--56584682 Score: 127
Period size: 43 Copynumber: 4.0 Consensus size: 43
56584501 ACCTCGTACA
* * *
56584511 ATGCCAACATCCCAGACGTGGTCTTACATGTAATCAAATATCG
1 ATGCCAATATCCCAGACATGGTCTTACACGTAATCAAATATCG
* * ** *
56584554 ATGCCACTGTCTTAGACAAGGTCTTACACG-AAGTCAAATAT-G
1 ATGCCAATATCCCAGACATGGTCTTACACGTAA-TCAAATATCG
*
56584596 ATG-CAGATATCCCAGACATGGTCTTACACATAAATCTAAA-ATCG
1 ATGCCA-ATATCCCAGACATGGTCTTACACGT-AATC-AAATATCG
** * ** ** *
56584640 ATGCCAACGTCCTAGATGTGGTCTTACACAAAATCACATATCG
1 ATGCCAATATCCCAGACATGGTCTTACACGTAATCAAATATCG
56584683 GAATCTTATG
Statistics
Matches: 100, Mismatches: 21, Indels: 16
0.73 0.15 0.12
Matches are distributed among these distances:
41 2 0.02
42 26 0.26
43 42 0.42
44 28 0.28
45 2 0.02
ACGTcount: A:0.34, C:0.24, G:0.16, T:0.26
Consensus pattern (43 bp):
ATGCCAATATCCCAGACATGGTCTTACACGTAATCAAATATCG
Found at i:56586767 original size:24 final size:24
Alignment explanation
Indices: 56586740--56586817 Score: 120
Period size: 24 Copynumber: 3.2 Consensus size: 24
56586730 AAGGCTGTCA
*
56586740 GGAGAAAATTTAGGAGCTGATAAG
1 GGAGAAGATTTAGGAGCTGATAAG
* *
56586764 GGAGAGGATGTAGGAGCTGATAAG
1 GGAGAAGATTTAGGAGCTGATAAG
*
56586788 GGAGAAGATTTAGGAGCTGATTAG
1 GGAGAAGATTTAGGAGCTGATAAG
56586812 GGAGAA
1 GGAGAA
56586818 CGGTGTTGGC
Statistics
Matches: 48, Mismatches: 6, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
24 48 1.00
ACGTcount: A:0.37, C:0.04, G:0.40, T:0.19
Consensus pattern (24 bp):
GGAGAAGATTTAGGAGCTGATAAG
Found at i:56594756 original size:46 final size:46
Alignment explanation
Indices: 56594706--56594878 Score: 208
Period size: 46 Copynumber: 3.7 Consensus size: 46
56594696 TGGTTGAGCA
*
56594706 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAATG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAACG
* * * * *
56594752 TCCGAACTCGTTGAGTTGAGTCCGAGTTC-GTGA--AATGTAACTAGGCA
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAA--A--CG
*
56594799 TCCGAACTCATTGAGTTGAGTCCGAGTTCACTTATGGATGCAAACG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAACG
* *
56594845 CCCGAGCTCGTTGAGTTGAGTCCGAGTTCACTTA
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTA
56594879 GGAGCGGGTT
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:0.24, C:0.21, G:0.26, T:0.29
Consensus pattern (46 bp):
TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAACG
Found at i:56594862 original size:93 final size:93
Alignment explanation
Indices: 56594703--56594873 Score: 306
Period size: 93 Copynumber: 1.8 Consensus size: 93
56594693 GGATGGTTGA
* * *
56594703 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAATGTCCGAACTCGTTGAGT
1 GCATCCGAACTCATTGAGTTGAGTCCGAGTTCACTTATGGATGCAAACGCCCGAACTCGTTGAGT
56594768 TGAGTCCGAGTTCGTGAAATGTAACTAG
66 TGAGTCCGAGTTCGTGAAATGTAACTAG
*
56594796 GCATCCGAACTCATTGAGTTGAGTCCGAGTTCACTTATGGATGCAAACGCCCGAGCTCGTTGAGT
1 GCATCCGAACTCATTGAGTTGAGTCCGAGTTCACTTATGGATGCAAACGCCCGAACTCGTTGAGT
56594861 TGAGTCCGAGTTC
66 TGAGTCCGAGTTC
56594874 ACTTAGGAGC
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:0.22, G:0.27, T:0.28
Consensus pattern (93 bp):
GCATCCGAACTCATTGAGTTGAGTCCGAGTTCACTTATGGATGCAAACGCCCGAACTCGTTGAGT
TGAGTCCGAGTTCGTGAAATGTAACTAG
Found at i:56603576 original size:46 final size:46
Alignment explanation
Indices: 56603526--56603698 Score: 190
Period size: 46 Copynumber: 3.7 Consensus size: 46
56603516 TGGTTGAGCA
* *
56603526 TCCGAACTCGTTGAGTTGAGTTCGAGTTCACTTATGGATGCAAATG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAACG
* * * * * *
56603572 TCCGAACTCTTTGAGTTGAGTCCGAGTTC-GTGA-AG-TGTAACTAGGCA
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAA--A--CG
56603619 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAACG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAACG
* * *
56603665 CCCGAGCTCGTTGAGTTGAGTCTGAGTTCACTTA
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTA
56603699 GGGGCGGGTT
Statistics
Matches: 103, Mismatches: 17, Indels: 14
0.77 0.13 0.10
Matches are distributed among these distances:
43 4 0.04
44 1 0.01
45 3 0.03
46 59 0.57
47 28 0.27
48 3 0.03
49 1 0.01
50 4 0.04
ACGTcount: A:0.23, C:0.20, G:0.27, T:0.31
Consensus pattern (46 bp):
TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAACG
Found at i:56603682 original size:93 final size:93
Alignment explanation
Indices: 56603523--56603693 Score: 288
Period size: 93 Copynumber: 1.8 Consensus size: 93
56603513 GGATGGTTGA
* * * *
56603523 GCATCCGAACTCGTTGAGTTGAGTTCGAGTTCACTTATGGATGCAAATGTCCGAACTCTTTGAGT
1 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAACGCCCGAACTCGTTGAGT
56603588 TGAGTCCGAGTTCGTGAAGTGTAACTAG
66 TGAGTCCGAGTTCGTGAAGTGTAACTAG
*
56603616 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAACGCCCGAGCTCGTTGAGT
1 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAACGCCCGAACTCGTTGAGT
*
56603681 TGAGTCTGAGTTC
66 TGAGTCCGAGTTC
56603694 ACTTAGGGGC
Statistics
Matches: 72, Mismatches: 6, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
93 72 1.00
ACGTcount: A:0.22, C:0.20, G:0.27, T:0.30
Consensus pattern (93 bp):
GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAACGCCCGAACTCGTTGAGT
TGAGTCCGAGTTCGTGAAGTGTAACTAG
Found at i:56606019 original size:18 final size:19
Alignment explanation
Indices: 56605996--56606036 Score: 57
Period size: 18 Copynumber: 2.2 Consensus size: 19
56605986 TCTCGTCGAC
*
56605996 TTCTTCTTTTTTCATT-TT
1 TTCTTCTTCTTTCATTCTT
*
56606014 TTCTTCTTCTTTCTTTCTT
1 TTCTTCTTCTTTCATTCTT
56606033 TTCT
1 TTCT
56606037 CATCTGTTCT
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
18 14 0.70
19 6 0.30
ACGTcount: A:0.02, C:0.22, G:0.00, T:0.76
Consensus pattern (19 bp):
TTCTTCTTCTTTCATTCTT
Found at i:56606019 original size:21 final size:21
Alignment explanation
Indices: 56605995--56606034 Score: 64
Period size: 21 Copynumber: 1.9 Consensus size: 21
56605985 TTCTCGTCGA
56605995 CTTCTTCTTT-TTTCATTTTTT
1 CTTCTTCTTTCTTTC-TTTTTT
56606016 CTTCTTCTTTCTTTCTTTT
1 CTTCTTCTTTCTTTCTTTT
56606035 CTCATCTGTT
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
21 14 0.78
22 4 0.22
ACGTcount: A:0.03, C:0.23, G:0.00, T:0.75
Consensus pattern (21 bp):
CTTCTTCTTTCTTTCTTTTTT
Found at i:56607262 original size:34 final size:34
Alignment explanation
Indices: 56607213--56607282 Score: 104
Period size: 34 Copynumber: 2.1 Consensus size: 34
56607203 GCATGACTGC
* * *
56607213 TACTGATATTTTGATGGGCTAAGGCCCTAATACA
1 TACTGATACTGTGATGGGCCAAGGCCCTAATACA
*
56607247 TACTGATACTGTGATGGGCCAAGGCCCTACTACA
1 TACTGATACTGTGATGGGCCAAGGCCCTAATACA
56607281 TA
1 TA
56607283 TTTGATATCG
Statistics
Matches: 32, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
34 32 1.00
ACGTcount: A:0.29, C:0.21, G:0.21, T:0.29
Consensus pattern (34 bp):
TACTGATACTGTGATGGGCCAAGGCCCTAATACA
Found at i:56619056 original size:25 final size:25
Alignment explanation
Indices: 56619028--56619078 Score: 84
Period size: 25 Copynumber: 2.0 Consensus size: 25
56619018 CCCTTATAAT
* *
56619028 GTGAAAATGACCATTTTGCCCCTAG
1 GTGAAAATGACCATTATACCCCTAG
56619053 GTGAAAATGACCATTATACCCCTAG
1 GTGAAAATGACCATTATACCCCTAG
56619078 G
1 G
56619079 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:56619131 original size:10 final size:10
Alignment explanation
Indices: 56619118--56619157 Score: 71
Period size: 10 Copynumber: 3.9 Consensus size: 10
56619108 CTGTTTTATA
56619118 CATGATATGC
1 CATGATATGC
56619128 CATGATATGC
1 CATGATATGC
56619138 ACATGATATGC
1 -CATGATATGC
56619149 CATGATATG
1 CATGATATG
56619158 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:56619143 original size:21 final size:21
Alignment explanation
Indices: 56619117--56619157 Score: 82
Period size: 21 Copynumber: 2.0 Consensus size: 21
56619107 ACTGTTTTAT
56619117 ACATGATATGCCATGATATGC
1 ACATGATATGCCATGATATGC
56619138 ACATGATATGCCATGATATG
1 ACATGATATGCCATGATATG
56619158 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:56619270 original size:25 final size:26
Alignment explanation
Indices: 56619203--56619272 Score: 117
Period size: 25 Copynumber: 2.8 Consensus size: 26
56619193 GAGGAAGTGC
*
56619203 AAAAGGGCTTTGCCCCAATTTACCGA
1 AAAAGGGCTTTGCCCCAGTTTACCGA
56619229 AAAA-GGCTTTGCCCCAGTTTACC-A
1 AAAAGGGCTTTGCCCCAGTTTACCGA
56619253 AAAAGGGCTTTGCCCCAGTT
1 AAAAGGGCTTTGCCCCAGTT
56619273 ATTAAAAGAG
Statistics
Matches: 42, Mismatches: 1, Indels: 3
0.91 0.02 0.07
Matches are distributed among these distances:
24 5 0.12
25 33 0.79
26 4 0.10
ACGTcount: A:0.29, C:0.27, G:0.20, T:0.24
Consensus pattern (26 bp):
AAAAGGGCTTTGCCCCAGTTTACCGA
Found at i:56619285 original size:24 final size:23
Alignment explanation
Indices: 56619202--56619299 Score: 79
Period size: 25 Copynumber: 4.0 Consensus size: 23
56619192 GGAGGAAGTG
* * *
56619202 CAAAAGGGCTTTGCCCCAATTTAC
1 CAAAAAGGCTTTGCCCC-AGTTAT
*
56619226 CGAAAAAGGCTTTGCCCCAGTTTAC
1 C-AAAAAGGCTTTGCCCCAG-TTAT
56619251 CAAAAAGGGCTTTGCCCCAGTTAT
1 CAAAAA-GGCTTTGCCCCAGTTAT
* **
56619275 TAAAAGAGGCTAGGCCTCCAGTTAT
1 CAAAA-AGGCTTTGCC-CCAGTTAT
56619300 ATGATAAAGC
Statistics
Matches: 63, Mismatches: 6, Indels: 9
0.81 0.08 0.12
Matches are distributed among these distances:
24 21 0.33
25 42 0.67
ACGTcount: A:0.30, C:0.26, G:0.20, T:0.24
Consensus pattern (23 bp):
CAAAAAGGCTTTGCCCCAGTTAT
Found at i:56619296 original size:50 final size:50
Alignment explanation
Indices: 56619203--56619297 Score: 113
Period size: 50 Copynumber: 1.9 Consensus size: 50
56619193 GAGGAAGTGC
* **
56619203 AAAAGGGCTTTGCCCCAATTTACCGAAAAAGGCTTTGCCCCAGTTTACCA
1 AAAAGGGCTTTGCCCCAAGTTACCGAAAAAGGCTAGGCCCCAGTTTACCA
**
56619253 AAAAGGGCTTTGCCCC-AGTTA-TTAAAAGAGGCTAGGCCTCCAGTT
1 AAAAGGGCTTTGCCCCAAGTTACCGAAAA-AGGCTAGGCC-CCAGTT
56619298 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 12 0.32
50 22 0.58
ACGTcount: A:0.29, C:0.25, G:0.21, T:0.24
Consensus pattern (50 bp):
AAAAGGGCTTTGCCCCAAGTTACCGAAAAAGGCTAGGCCCCAGTTTACCA
Found at i:56619528 original size:31 final size:31
Alignment explanation
Indices: 56619493--56619574 Score: 114
Period size: 31 Copynumber: 2.7 Consensus size: 31
56619483 CGTTTACAGT
56619493 AAAGGCTTTGGCCCAGTGATATAAATAATGA
1 AAAGGCTTTGGCCCAGTGATATAAATAATGA
* * *
56619524 AAAGGCTTCGGCCCTGTGATATGAATAATGA
1 AAAGGCTTTGGCCCAGTGATATAAATAATGA
*
56619555 AAAGGC-TTAGCCCAGT-ATAT
1 AAAGGCTTTGGCCCAGTGATAT
56619575 GTTAAGACTG
Statistics
Matches: 45, Mismatches: 6, Indels: 2
0.85 0.11 0.04
Matches are distributed among these distances:
29 4 0.09
30 7 0.16
31 34 0.76
ACGTcount: A:0.35, C:0.16, G:0.23, T:0.26
Consensus pattern (31 bp):
AAAGGCTTTGGCCCAGTGATATAAATAATGA
Found at i:56621646 original size:48 final size:48
Alignment explanation
Indices: 56621589--56621803 Score: 246
Period size: 46 Copynumber: 4.6 Consensus size: 48
56621579 AAGCTGACAC
* *
56621589 CATGTCCCAGATAGGTCTTACACTAGCTTGTATATCTCAAGGCCGATG
1 CATGTCCCAGACATGTCTTACACTAGCTTGTATATCTCAAGGCCGATG
* ** *
56621637 CATGTCCCAGACATGTCTTACACTAGC-TCT-CGTCTCAA-TCCTGATG
1 CATGTCCCAGACATGTCTTACACTAGCTTGTATATCTCAAGGCC-GATG
* * * *
56621683 CATGTCCCAGACATGTCTCACATTGGCTTGTATATCTCGAGGCCGATG
1 CATGTCCCAGACATGTCTTACACTAGCTTGTATATCTCAAGGCCGATG
* *
56621731 CATGTCCCAGACATGTCTTACACTGGCTCTCGTA-ATGT---GGCCGATG
1 CATGTCCCAGACATGTCTTACACTAGCT-T-GTATATCTCAAGGCCGATG
56621777 CATGTCCCAGACATGTCTTACACTAGC
1 CATGTCCCAGACATGTCTTACACTAGC
56621804 ACACATATCA
Statistics
Matches: 143, Mismatches: 18, Indels: 14
0.82 0.10 0.08
Matches are distributed among these distances:
45 2 0.01
46 68 0.48
47 4 0.03
48 60 0.42
49 6 0.04
50 3 0.02
ACGTcount: A:0.22, C:0.29, G:0.20, T:0.29
Consensus pattern (48 bp):
CATGTCCCAGACATGTCTTACACTAGCTTGTATATCTCAAGGCCGATG
Found at i:56621812 original size:94 final size:94
Alignment explanation
Indices: 56621589--56621803 Score: 306
Period size: 94 Copynumber: 2.3 Consensus size: 94
56621579 AAGCTGACAC
* *
56621589 CATGTCCCAGATAGGTCTTACACTAGCTTGTATATCTCAAGGCCGATGCATGTCCCAGACATGTC
1 CATGTCCCAGACATGTCTTACACTAGCTTGTATATCTCAAGGCCGATGCATGTCCCAGACATGTC
* *
56621654 TTACACTAGCTCTCGTCTCAATCCTGATG
66 TTACACTAGCTCTCGTATCAAGCCTGATG
* * * *
56621683 CATGTCCCAGACATGTCTCACATTGGCTTGTATATCTCGAGGCCGATGCATGTCCCAGACATGTC
1 CATGTCCCAGACATGTCTTACACTAGCTTGTATATCTCAAGGCCGATGCATGTCCCAGACATGTC
* ***
56621748 TTACACTGGCTCTCGTAATGTGGCC-GATG
66 TTACACTAGCTCTCGT-ATCAAGCCTGATG
56621777 CATGTCCCAGACATGTCTTACACTAGC
1 CATGTCCCAGACATGTCTTACACTAGC
56621804 ACACATATCA
Statistics
Matches: 105, Mismatches: 15, Indels: 2
0.86 0.12 0.02
Matches are distributed among these distances:
94 102 0.97
95 3 0.03
ACGTcount: A:0.22, C:0.29, G:0.20, T:0.29
Consensus pattern (94 bp):
CATGTCCCAGACATGTCTTACACTAGCTTGTATATCTCAAGGCCGATGCATGTCCCAGACATGTC
TTACACTAGCTCTCGTATCAAGCCTGATG
Found at i:56623668 original size:21 final size:21
Alignment explanation
Indices: 56623642--56623685 Score: 79
Period size: 21 Copynumber: 2.1 Consensus size: 21
56623632 GGTTTGGGGT
*
56623642 GTTACATTTAGTGGTATCAGA
1 GTTACATTTAGTAGTATCAGA
56623663 GTTACATTTAGTAGTATCAGA
1 GTTACATTTAGTAGTATCAGA
56623684 GT
1 GT
56623686 CAAGTTGCAA
Statistics
Matches: 22, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
21 22 1.00
ACGTcount: A:0.30, C:0.09, G:0.23, T:0.39
Consensus pattern (21 bp):
GTTACATTTAGTAGTATCAGA
Found at i:56623945 original size:16 final size:17
Alignment explanation
Indices: 56623913--56623945 Score: 50
Period size: 17 Copynumber: 2.0 Consensus size: 17
56623903 GTATATACTA
*
56623913 AAAACTGTAGTTAAACT
1 AAAACTATAGTTAAACT
56623930 AAAACTATAG-TAAACT
1 AAAACTATAGTTAAACT
56623946 GCTAGAGACT
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
16 6 0.40
17 9 0.60
ACGTcount: A:0.52, C:0.12, G:0.09, T:0.27
Consensus pattern (17 bp):
AAAACTATAGTTAAACT
Found at i:56632711 original size:17 final size:17
Alignment explanation
Indices: 56632689--56632728 Score: 80
Period size: 17 Copynumber: 2.4 Consensus size: 17
56632679 CCTATAATCA
56632689 TGTGAGCTAAAATATCG
1 TGTGAGCTAAAATATCG
56632706 TGTGAGCTAAAATATCG
1 TGTGAGCTAAAATATCG
56632723 TGTGAG
1 TGTGAG
56632729 TACCTCAGGG
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
17 23 1.00
ACGTcount: A:0.33, C:0.10, G:0.28, T:0.30
Consensus pattern (17 bp):
TGTGAGCTAAAATATCG
Found at i:56639945 original size:34 final size:34
Alignment explanation
Indices: 56639902--56639969 Score: 95
Period size: 34 Copynumber: 2.0 Consensus size: 34
56639892 ACATATTTGA
56639902 TACTGTACTGAAATG-GGCTAAGGCCC-AAACTGT
1 TACTGTACTGAAA-GAGGCTAAGGCCCAAAACTGT
*
56639935 TACTGATACTGAAAGAGGCTTAGGCCCAAAACTGT
1 TACTG-TACTGAAAGAGGCTAAGGCCCAAAACTGT
56639970 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:56641620 original size:21 final size:21
Alignment explanation
Indices: 56641596--56641658 Score: 57
Period size: 21 Copynumber: 3.2 Consensus size: 21
56641586 ACTTTCATTT
56641596 ATTTAACTTTTCAACCCTTCA
1 ATTTAACTTTTCAACCCTTCA
*
56641617 ATTTAAAC-TTTC-A---TT-T
1 ATTT-AACTTTTCAACCCTTCA
*
56641633 ATTTGACTTTTCAACCCTTCA
1 ATTTAACTTTTCAACCCTTCA
56641654 ATTTA
1 ATTTA
56641659 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:56641634 original size:37 final size:37
Alignment explanation
Indices: 56641584--56641658 Score: 141
Period size: 37 Copynumber: 2.0 Consensus size: 37
56641574 TAGCAGCCCA
56641584 AAACTTTCATTTATTTAACTTTTCAACCCTTCAATTT
1 AAACTTTCATTTATTTAACTTTTCAACCCTTCAATTT
*
56641621 AAACTTTCATTTATTTGACTTTTCAACCCTTCAATTT
1 AAACTTTCATTTATTTAACTTTTCAACCCTTCAATTT
56641658 A
1 A
56641659 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:56644005 original size:59 final size:59
Alignment explanation
Indices: 56643933--56644055 Score: 237
Period size: 59 Copynumber: 2.1 Consensus size: 59
56643923 ATTTTTGACA
*
56643933 ATTTTTACGTTTTTGAGATCATTGCAGTGTAATGTACAAAGCCCATGCTTGAATTTTTG
1 ATTTTTACGTTTTTGAGATCATTGCAGTGTAATGTACAAAGCCCATGCTTGAATTTCTG
56643992 ATTTTTACGTTTTTGAGATCATTGCAGTGTAATGTACAAAGCCCATGCTTGAATTTCTG
1 ATTTTTACGTTTTTGAGATCATTGCAGTGTAATGTACAAAGCCCATGCTTGAATTTCTG
56644051 ATTTT
1 ATTTT
56644056 GATGAATATT
Statistics
Matches: 63, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
59 63 1.00
ACGTcount: A:0.25, C:0.14, G:0.18, T:0.43
Consensus pattern (59 bp):
ATTTTTACGTTTTTGAGATCATTGCAGTGTAATGTACAAAGCCCATGCTTGAATTTCTG
Found at i:56644862 original size:43 final size:43
Alignment explanation
Indices: 56644735--56644862 Score: 134
Period size: 43 Copynumber: 3.0 Consensus size: 43
56644725 TATGATTTCT
** * *
56644735 GATATGTGATTATGTGTAAGACCACGTCTGGGACGTTGGCAAC
1 GATATGTGATTACATGTAAGACCACGTCTGGGACATTGGCATC
* * * *
56644778 GATATGTGTTTACAAGTAAGAACCTA--TCTGGAACAGTGGCATC
1 GATATGTGATTACATGTAAG-ACC-ACGTCTGGGACATTGGCATC
* *
56644821 GATATGTGATTACATGTGAGACCACGTCTGGGACTTTGGCAT
1 GATATGTGATTACATGTAAGACCACGTCTGGGACATTGGCAT
56644863 TGTACGATAT
Statistics
Matches: 67, Mismatches: 14, Indels: 8
0.75 0.16 0.09
Matches are distributed among these distances:
41 1 0.01
42 3 0.04
43 59 0.88
44 3 0.04
45 1 0.01
ACGTcount: A:0.27, C:0.16, G:0.27, T:0.29
Consensus pattern (43 bp):
GATATGTGATTACATGTAAGACCACGTCTGGGACATTGGCATC
Found at i:56652348 original size:38 final size:38
Alignment explanation
Indices: 56652266--56652460 Score: 212
Period size: 38 Copynumber: 5.0 Consensus size: 38
56652256 AAACCCAAAC
* * * * * *
56652266 ATAACACCAGCACGAAGCCTACGAGACTTTAAACTCAGAT
1 ATAATACCAGCACTAAGCCTGCGGGA-TTT-AACCCGGAT
*
56652306 ATAATACCAGCACTAGGCCTGCGGGATTTAACCCGGAT
1 ATAATACCAGCACTAAGCCTGCGGGATTTAACCCGGAT
*
56652344 ATAATACCAGCACGAAGCCTGCGGGATTTAACCCGGAT
1 ATAATACCAGCACTAAGCCTGCGGGATTTAACCCGGAT
* * *
56652382 ATATTACCAGCACAAAGCCTGCGGGATTTATCCCGGAT
1 ATAATACCAGCACTAAGCCTGCGGGATTTAACCCGGAT
** *
56652420 ATAATTTCAGCA-TATAGCCTGCGGGTCTTTAAGCCCGGAT
1 ATAATACCAGCACTA-AGCCTGCGGG-ATTTAA-CCCGGAT
56652460 A
1 A
56652461 CAATCTCAGC
Statistics
Matches: 134, Mismatches: 18, Indels: 6
0.85 0.11 0.04
Matches are distributed among these distances:
37 1 0.01
38 97 0.72
39 7 0.05
40 29 0.22
ACGTcount: A:0.31, C:0.26, G:0.21, T:0.22
Consensus pattern (38 bp):
ATAATACCAGCACTAAGCCTGCGGGATTTAACCCGGAT
Found at i:56657136 original size:43 final size:43
Alignment explanation
Indices: 56657008--56657139 Score: 180
Period size: 43 Copynumber: 3.1 Consensus size: 43
56656998 CATAGGATTT
*
56657008 TTGATATGTGATTACATGTAAGACCACGTCTGGGACGTTGCCA
1 TTGATATGTGATTACATGTAAGACCACGTCTGGGACGTTGGCA
* * *
56657051 TCGATATGTGTTTATGA-GTAAGACC-CTGTCTGGGACAG-TGGCA
1 TTGATATGTGATTA-CATGTAAGACCAC-GTCTGGGAC-GTTGGCA
56657094 TTGATATGTGATTACATGTAAGACCACGTCTGGGACGTTGGCA
1 TTGATATGTGATTACATGTAAGACCACGTCTGGGACGTTGGCA
56657137 TTG
1 TTG
56657140 TACGGTATGT
Statistics
Matches: 76, Mismatches: 7, Indels: 12
0.80 0.07 0.13
Matches are distributed among these distances:
42 3 0.04
43 70 0.92
44 3 0.04
ACGTcount: A:0.24, C:0.17, G:0.28, T:0.31
Consensus pattern (43 bp):
TTGATATGTGATTACATGTAAGACCACGTCTGGGACGTTGGCA
Found at i:56664787 original size:15 final size:15
Alignment explanation
Indices: 56664767--56664809 Score: 50
Period size: 16 Copynumber: 2.8 Consensus size: 15
56664757 TCTATACAAT
56664767 TTCAAATTAATCTCA
1 TTCAAATTAATCTCA
* *
56664782 TTCAAACATAATTTCA
1 TTCAAA-TTAATCTCA
*
56664798 TTCAATTTAATC
1 TTCAAATTAATC
56664810 CAACAACACA
Statistics
Matches: 22, Mismatches: 5, Indels: 2
0.76 0.17 0.07
Matches are distributed among these distances:
15 10 0.45
16 12 0.55
ACGTcount: A:0.40, C:0.19, G:0.00, T:0.42
Consensus pattern (15 bp):
TTCAAATTAATCTCA
Found at i:56673971 original size:39 final size:39
Alignment explanation
Indices: 56673915--56674085 Score: 288
Period size: 39 Copynumber: 4.4 Consensus size: 39
56673905 GGCAAACCCG
* * *
56673915 AAGTTCGAATATGATTCCCGCATATAGCCTATGGACCTT
1 AAGTCCGAATATAATTCCCGCATATAGCCTACGGACCTT
* *
56673954 AAGTCCGGATATAATTCCTGCATATAGCCTACGGACCTT
1 AAGTCCGAATATAATTCCCGCATATAGCCTACGGACCTT
56673993 AAGTCCGAATATAATTCCCGCATATAGCCTACGGACCTT
1 AAGTCCGAATATAATTCCCGCATATAGCCTACGGACCTT
*
56674032 AAGTCCGGATATAATTCCCGCATATAGCCTACGGACCTT
1 AAGTCCGAATATAATTCCCGCATATAGCCTACGGACCTT
56674071 AAGTCCGAATATAAT
1 AAGTCCGAATATAAT
56674086 CACCATATAT
Statistics
Matches: 123, Mismatches: 9, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
39 123 1.00
ACGTcount: A:0.30, C:0.25, G:0.17, T:0.27
Consensus pattern (39 bp):
AAGTCCGAATATAATTCCCGCATATAGCCTACGGACCTT
Found at i:56673981 original size:78 final size:78
Alignment explanation
Indices: 56673880--56674085 Score: 259
Period size: 78 Copynumber: 2.6 Consensus size: 78
56673870 GACTATTAGC
* * * *
56673880 CCGGATATAATTCCAGCACATAGCCGGCAAACCCGAAGTTCGAATATGATTCCCGCATATAGCCT
1 CCGGATATAATTCCAGCATATAGCCGACAAACCCGAAGTCCGAATATAATTCCCGCATATAGCCT
*
56673945 ATGGACCTTAAGT
66 ACGGACCTTAAGT
* * ** **
56673958 CCGGATATAATTCCTGCATATAGCCTACGGACCTTAAGTCCGAATATAATTCCCGCATATAGCCT
1 CCGGATATAATTCCAGCATATAGCCGACAAACCCGAAGTCCGAATATAATTCCCGCATATAGCCT
56674023 ACGGACCTTAAGT
66 ACGGACCTTAAGT
* * ** **
56674036 CCGGATATAATTCCCGCATATAGCCTACGGACCTTAAGTCCGAATATAAT
1 CCGGATATAATTCCAGCATATAGCCGACAAACCCGAAGTCCGAATATAAT
56674086 CACCATATAT
Statistics
Matches: 116, Mismatches: 12, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
78 116 1.00
ACGTcount: A:0.31, C:0.27, G:0.17, T:0.25
Consensus pattern (78 bp):
CCGGATATAATTCCAGCATATAGCCGACAAACCCGAAGTCCGAATATAATTCCCGCATATAGCCT
ACGGACCTTAAGT
Found at i:56674608 original size:21 final size:20
Alignment explanation
Indices: 56674584--56674646 Score: 58
Period size: 20 Copynumber: 3.1 Consensus size: 20
56674574 TAATGCATGC
* *
56674584 TTTTAATATTATAATTTATT
1 TTTTTATATTATATTTTATT
*
56674604 TTTTT-TATTTTATTTTTATT
1 TTTTTATATTATA-TTTTATT
*
56674624 TTATTT-TATTTTATTTTATT
1 TT-TTTATATTATATTTTATT
56674644 TTT
1 TTT
56674647 GTTGGGTTAT
Statistics
Matches: 38, Mismatches: 3, Indels: 5
0.83 0.07 0.11
Matches are distributed among these distances:
19 7 0.18
20 21 0.55
21 10 0.26
ACGTcount: A:0.22, C:0.00, G:0.00, T:0.78
Consensus pattern (20 bp):
TTTTTATATTATATTTTATT
Found at i:56674616 original size:5 final size:5
Alignment explanation
Indices: 56674598--56674645 Score: 80
Period size: 5 Copynumber: 9.6 Consensus size: 5
56674588 AATATTATAA
56674598 TTTAT TTT-T TTTAT TTTATT TTTAT TTTAT TTTAT TTTAT TTTAT TTT
1 TTTAT TTTAT TTTAT TTTA-T TTTAT TTTAT TTTAT TTTAT TTTAT TTT
56674646 TGTTGGGTTA
Statistics
Matches: 41, Mismatches: 0, Indels: 4
0.91 0.00 0.09
Matches are distributed among these distances:
4 4 0.10
5 32 0.78
6 5 0.12
ACGTcount: A:0.17, C:0.00, G:0.00, T:0.83
Consensus pattern (5 bp):
TTTAT
Found at i:56674642 original size:26 final size:25
Alignment explanation
Indices: 56674598--56674646 Score: 89
Period size: 26 Copynumber: 1.9 Consensus size: 25
56674588 AATATTATAA
56674598 TTTATTTTTTTTATTTTATTTTTAT
1 TTTATTTTTTTTATTTTATTTTTAT
56674623 TTTATTTTATTTTATTTTATTTTT
1 TTTATTTT-TTTTATTTTATTTTT
56674647 GTTGGGTTAT
Statistics
Matches: 23, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
25 8 0.35
26 15 0.65
ACGTcount: A:0.16, C:0.00, G:0.00, T:0.84
Consensus pattern (25 bp):
TTTATTTTTTTTATTTTATTTTTAT
Found at i:56682465 original size:39 final size:39
Alignment explanation
Indices: 56682403--56682569 Score: 228
Period size: 39 Copynumber: 4.3 Consensus size: 39
56682393 GACTATTAGC
* * ** *
56682403 CCGGATATAATTCCAGCACATAGCCGGCGAACCTGAAGT
1 CCGGATATAATTCCCGCATATAGCCTACGAACCTTAAGT
*
56682442 TCGGATATAATTCCCGCATATAGCCTAC-AGACCTTAAGT
1 CCGGATATAATTCCCGCATATAGCCTACGA-ACCTTAAGT
**
56682481 CCGGATATAATTCCCGCATATAGCCTACGGTCCTTAAGT
1 CCGGATATAATTCCCGCATATAGCCTACGAACCTTAAGT
*
56682520 CCGGATATAATTCCCGCATATAGCCTACGGACCTTAAGT
1 CCGGATATAATTCCCGCATATAGCCTACGAACCTTAAGT
*
56682559 CCTGATATAAT
1 CCGGATATAAT
56682570 CACCATATAT
Statistics
Matches: 115, Mismatches: 11, Indels: 4
0.88 0.08 0.03
Matches are distributed among these distances:
38 1 0.01
39 114 0.99
ACGTcount: A:0.29, C:0.27, G:0.18, T:0.26
Consensus pattern (39 bp):
CCGGATATAATTCCCGCATATAGCCTACGAACCTTAAGT
Found at i:56684967 original size:43 final size:44
Alignment explanation
Indices: 56684903--56685051 Score: 143
Period size: 43 Copynumber: 3.5 Consensus size: 44
56684893 GGTTTCAAAC
*
56684903 CTAGCAGGC-GTAATGCCGGTGAAATGATATCGGACTTAAAGGT
1 CTAGCAGGCTTTAATGCCGGTGAAATGATATCGGACTTAAAGGT
* * *** *
56684946 CTAGCAAGCTTTAA-GCTGGTG-AAT-ATTATCGTG-CTCCGA-GC
1 CTAGCAGGCTTTAATGCCGGTGAAATGA-TATCG-GACTTAAAGGT
*
56684987 CTAGCAGGC-GTAATGCCGGTGAAATGATATCGGACTTAAAGGT
1 CTAGCAGGCTTTAATGCCGGTGAAATGATATCGGACTTAAAGGT
*
56685030 CTAGCAGGC-TTATTGCCGGTGA
1 CTAGCAGGCTTTAATGCCGGTGA
56685052 TGAAATCAAG
Statistics
Matches: 82, Mismatches: 16, Indels: 16
0.72 0.14 0.14
Matches are distributed among these distances:
40 3 0.04
41 17 0.21
42 22 0.27
43 37 0.45
44 3 0.04
ACGTcount: A:0.27, C:0.19, G:0.29, T:0.26
Consensus pattern (44 bp):
CTAGCAGGCTTTAATGCCGGTGAAATGATATCGGACTTAAAGGT
Found at i:56690213 original size:7 final size:7
Alignment explanation
Indices: 56690201--56690233 Score: 66
Period size: 7 Copynumber: 4.7 Consensus size: 7
56690191 TTTTATGAAA
56690201 CCCAAAG
1 CCCAAAG
56690208 CCCAAAG
1 CCCAAAG
56690215 CCCAAAG
1 CCCAAAG
56690222 CCCAAAG
1 CCCAAAG
56690229 CCCAA
1 CCCAA
56690234 TCATCTACGC
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 26 1.00
ACGTcount: A:0.42, C:0.45, G:0.12, T:0.00
Consensus pattern (7 bp):
CCCAAAG
Found at i:56703276 original size:24 final size:23
Alignment explanation
Indices: 56703226--56703330 Score: 95
Period size: 24 Copynumber: 4.5 Consensus size: 23
56703216 GAGACATGGC
* *
56703226 CAGTAAGCTTATAATGAGCTGATAA
1 CAGTAAGCTCA-ATTGAGCTGA-AA
*
56703251 CAGTAAGCTCGATTGAGCTGGAAA
1 CAGTAAGCTCAATTGAGCT-GAAA
* *
56703275 CAGGAAGCTCAATTGAG-TTAAA
1 CAGTAAGCTCAATTGAGCTGAAA
* ** *
56703297 CAATAAGCTCTTTTGAGCTGAAT
1 CAGTAAGCTCAATTGAGCTGAAA
56703320 CAGTAAGCTCA
1 CAGTAAGCTCA
56703331 TATGACTATG
Statistics
Matches: 64, Mismatches: 14, Indels: 6
0.76 0.17 0.07
Matches are distributed among these distances:
22 16 0.25
23 13 0.20
24 24 0.38
25 11 0.17
ACGTcount: A:0.36, C:0.16, G:0.22, T:0.26
Consensus pattern (23 bp):
CAGTAAGCTCAATTGAGCTGAAA
Found at i:56705616 original size:22 final size:23
Alignment explanation
Indices: 56705591--56705646 Score: 55
Period size: 22 Copynumber: 2.5 Consensus size: 23
56705581 TGTTAAAGTG
56705591 TCTTGAGACATTAAAGTC-CATA
1 TCTTGAGACATTAAAGTCTCATA
* * *
56705613 TCTTAAGAC--TAAAGTCTTCTTG
1 TCTTGAGACATTAAAGTC-TCATA
56705635 TCTTGAGACATT
1 TCTTGAGACATT
56705647 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:56716923 original size:20 final size:20
Alignment explanation
Indices: 56716895--56716932 Score: 51
Period size: 20 Copynumber: 1.9 Consensus size: 20
56716885 TTATAATTCC
56716895 AATCAATAA-TATCTCATAAT
1 AATCAATAAGTAT-TCATAAT
*
56716915 AATCCATAAGTATTCATA
1 AATCAATAAGTATTCATA
56716933 CATTGAAAAT
Statistics
Matches: 16, Mismatches: 1, Indels: 2
0.84 0.05 0.11
Matches are distributed among these distances:
20 13 0.81
21 3 0.19
ACGTcount: A:0.47, C:0.16, G:0.03, T:0.34
Consensus pattern (20 bp):
AATCAATAAGTATTCATAAT
Found at i:56723378 original size:17 final size:17
Alignment explanation
Indices: 56723352--56723388 Score: 65
Period size: 17 Copynumber: 2.2 Consensus size: 17
56723342 TTTTTAGAGG
56723352 AAAACAAATGAATCTTA
1 AAAACAAATGAATCTTA
*
56723369 AAAACGAATGAATCTTA
1 AAAACAAATGAATCTTA
56723386 AAA
1 AAA
56723389 GCTTAATAAA
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
17 19 1.00
ACGTcount: A:0.59, C:0.11, G:0.08, T:0.22
Consensus pattern (17 bp):
AAAACAAATGAATCTTA
Found at i:56741037 original size:27 final size:27
Alignment explanation
Indices: 56740999--56741053 Score: 92
Period size: 27 Copynumber: 2.0 Consensus size: 27
56740989 AGTTTATGAC
*
56740999 TAGAAGAAACCTATCAAGACCTCTACT
1 TAGAAGAAACCTAACAAGACCTCTACT
*
56741026 TAGAAGAAACCTAACATGACCTCTACT
1 TAGAAGAAACCTAACAAGACCTCTACT
56741053 T
1 T
56741054 TTTTATAGTG
Statistics
Matches: 26, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
27 26 1.00
ACGTcount: A:0.40, C:0.25, G:0.11, T:0.24
Consensus pattern (27 bp):
TAGAAGAAACCTAACAAGACCTCTACT
Found at i:56745584 original size:6 final size:6
Alignment explanation
Indices: 56745569--56745661 Score: 105
Period size: 6 Copynumber: 15.3 Consensus size: 6
56745559 ATTGAGTCCA
* * *
56745569 TTTATC TTTATG TTTATT TTTATT TTTATT TTTATT TTTATT TTTATC
1 TTTATT TTTATT TTTATT TTTATT TTTATT TTTATT TTTATT TTTATT
* * * * *
56745617 TTGATC TTTAAT TTTATT TTTATG TTTATT TTGTATT TATATT TT
1 TTTATT TTTATT TTTATT TTTATT TTTATT TT-TATT TTTATT TT
56745662 GAACTCTATT
Statistics
Matches: 74, Mismatches: 12, Indels: 2
0.84 0.14 0.02
Matches are distributed among these distances:
6 69 0.93
7 5 0.07
ACGTcount: A:0.18, C:0.03, G:0.04, T:0.74
Consensus pattern (6 bp):
TTTATT
Found at i:56749327 original size:7 final size:7
Alignment explanation
Indices: 56749304--56749367 Score: 51
Period size: 7 Copynumber: 8.7 Consensus size: 7
56749294 TCCCTTTTCT
56749304 TTATTTAA
1 TTATTT-A
56749312 TTAATTTA
1 TT-ATTTA
56749320 TTATTTA
1 TTATTTA
*
56749327 TTATTTC
1 TTATTTA
56749334 TTA-TTA
1 TTATTTA
56749340 GTT-TATTA
1 -TTAT-TTA
56749348 TTTATTTA
1 -TTATTTA
*
56749356 TTGTTTA
1 TTATTTA
56749363 TTATT
1 TTATT
56749368 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:56749346 original size:18 final size:19
Alignment explanation
Indices: 56749317--56749367 Score: 72
Period size: 18 Copynumber: 2.8 Consensus size: 19
56749307 TTTAATTAAT
56749317 TTATTA-TTTATTATTT-C
1 TTATTAGTTTATTATTTAC
*
56749334 TTATTAGTTTATTATTTAT
1 TTATTAGTTTATTATTTAC
56749353 TTATT-GTTTATTATT
1 TTATTAGTTTATTATT
56749368 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:56752385 original size:6 final size:5
Alignment explanation
Indices: 56752360--56752420 Score: 59
Period size: 6 Copynumber: 10.8 Consensus size: 5
56752350 AGTCCATTTC
56752360 TTTTA TTTTA TTTTA TTTTTA GTTTTA GTTTTA TTTCTA TTTTTA TATTTA
1 TTTTA TTTTA TTTTA -TTTTA -TTTTA -TTTTA TTT-TA -TTTTA T-TTTA
56752411 TTGTTA TTTT
1 TT-TTA TTTT
56752421 CTTAGACTCA
Statistics
Matches: 50, Mismatches: 1, Indels: 10
0.82 0.02 0.16
Matches are distributed among these distances:
5 17 0.34
6 30 0.60
7 3 0.06
ACGTcount: A:0.18, C:0.02, G:0.05, T:0.75
Consensus pattern (5 bp):
TTTTA
Found at i:56752418 original size:18 final size:16
Alignment explanation
Indices: 56752360--56752420 Score: 68
Period size: 18 Copynumber: 3.6 Consensus size: 16
56752350 AGTCCATTTC
56752360 TTTTATTTTATTTTAT
1 TTTTATTTTATTTTAT
56752376 TTTTAGTTTTAGTTTTAT
1 TTTTA-TTTTA-TTTTAT
*
56752394 TTCTATTTTTATATTTAT
1 TTTTA-TTTTAT-TTTAT
*
56752412 TGTTATTTT
1 TTTTATTTT
56752421 CTTAGACTCA
Statistics
Matches: 38, Mismatches: 4, Indels: 5
0.81 0.09 0.11
Matches are distributed among these distances:
16 5 0.13
17 10 0.26
18 23 0.61
ACGTcount: A:0.18, C:0.02, G:0.05, T:0.75
Consensus pattern (16 bp):
TTTTATTTTATTTTAT
Found at i:56758125 original size:6 final size:6
Alignment explanation
Indices: 56758085--56758127 Score: 50
Period size: 6 Copynumber: 6.5 Consensus size: 6
56758075 AGAAAACCAA
56758085 AAAAATT AAAAAT AAAATAT AATAAAAT AAAAAT AAAAAT AAA
1 AAAAA-T AAAAAT AAAA-AT -A-AAAAT AAAAAT AAAAAT AAA
56758128 TAATTATCAA
Statistics
Matches: 33, Mismatches: 0, Indels: 7
0.82 0.00 0.17
Matches are distributed among these distances:
6 19 0.58
7 8 0.24
8 3 0.09
9 3 0.09
ACGTcount: A:0.79, C:0.00, G:0.00, T:0.21
Consensus pattern (6 bp):
AAAAAT
Found at i:56758130 original size:21 final size:22
Alignment explanation
Indices: 56758086--56758126 Score: 68
Period size: 21 Copynumber: 2.0 Consensus size: 22
56758076 GAAAACCAAA
56758086 AAAATTAAAAATAAAATATAAT
1 AAAATTAAAAATAAAATATAAT
56758108 AAAA-TAAAAATAAAA-ATAA
1 AAAATTAAAAATAAAATATAA
56758127 ATAATTATCA
Statistics
Matches: 19, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
20 4 0.21
21 11 0.58
22 4 0.21
ACGTcount: A:0.78, C:0.00, G:0.00, T:0.22
Consensus pattern (22 bp):
AAAATTAAAAATAAAATATAAT
Found at i:56773818 original size:15 final size:15
Alignment explanation
Indices: 56773798--56773831 Score: 52
Period size: 15 Copynumber: 2.3 Consensus size: 15
56773788 CTATTATCAA
56773798 TTATTTATT-TGTATC
1 TTATTTATTAT-TATC
56773813 TTATTTATTATTATC
1 TTATTTATTATTATC
56773828 TTAT
1 TTAT
56773832 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:56778638 original size:19 final size:20
Alignment explanation
Indices: 56778614--56778651 Score: 69
Period size: 20 Copynumber: 1.9 Consensus size: 20
56778604 TAAATTTTCC
56778614 TTTTCTT-TTTCTTTCCCTT
1 TTTTCTTCTTTCTTTCCCTT
56778633 TTTTCTTCTTTCTTTCCCT
1 TTTTCTTCTTTCTTTCCCT
56778652 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:56778641 original size:16 final size:17
Alignment explanation
Indices: 56778612--56778644 Score: 50
Period size: 16 Copynumber: 2.0 Consensus size: 17
56778602 CCTAAATTTT
*
56778612 CCTTTTCTTTTTCTTTC
1 CCTTTTCTTCTTCTTTC
56778629 CCTTTT-TTCTTCTTTC
1 CCTTTTCTTCTTCTTTC
56778645 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:56778756 original size:19 final size:19
Alignment explanation
Indices: 56778704--56778757 Score: 63
Period size: 19 Copynumber: 2.8 Consensus size: 19
56778694 TCTTTTATTT
* * *
56778704 ATTATAACTATTATATTAT
1 ATTATAATTATTATTTTAA
* *
56778723 ATCATTATTATTATTTTAA
1 ATTATAATTATTATTTTAA
56778742 ATTATAATTATTATTT
1 ATTATAATTATTATTT
56778758 CTTAAATATT
Statistics
Matches: 28, Mismatches: 7, Indels: 0
0.80 0.20 0.00
Matches are distributed among these distances:
19 28 1.00
ACGTcount: A:0.39, C:0.04, G:0.00, T:0.57
Consensus pattern (19 bp):
ATTATAATTATTATTTTAA
Found at i:56785706 original size:20 final size:20
Alignment explanation
Indices: 56785681--56785728 Score: 87
Period size: 20 Copynumber: 2.4 Consensus size: 20
56785671 ATCACAGTAG
*
56785681 TCGACACATATAGTGTCTCA
1 TCGACACATATAGTGTATCA
56785701 TCGACACATATAGTGTATCA
1 TCGACACATATAGTGTATCA
56785721 TCGACACA
1 TCGACACA
56785729 CAGTCAGAAT
Statistics
Matches: 27, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
20 27 1.00
ACGTcount: A:0.33, C:0.25, G:0.15, T:0.27
Consensus pattern (20 bp):
TCGACACATATAGTGTATCA
Found at i:56786076 original size:19 final size:20
Alignment explanation
Indices: 56786052--56786089 Score: 69
Period size: 20 Copynumber: 1.9 Consensus size: 20
56786042 TAAATTTTCC
56786052 TTTTCTT-TTTCTTTCCCTT
1 TTTTCTTGTTTCTTTCCCTT
56786071 TTTTCTTGTTTCTTTCCCT
1 TTTTCTTGTTTCTTTCCCT
56786090 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:56786174 original size:19 final size:19
Alignment explanation
Indices: 56786152--56786195 Score: 52
Period size: 19 Copynumber: 2.3 Consensus size: 19
56786142 TATTATATAC
* *
56786152 TATTATATTATATCATTAT
1 TATTATATTAAATCATAAT
* *
56786171 TATTATTTTAAATTATAAT
1 TATTATATTAAATCATAAT
56786190 TATTAT
1 TATTAT
56786196 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:56789719 original size:27 final size:27
Alignment explanation
Indices: 56789681--56789733 Score: 97
Period size: 27 Copynumber: 2.0 Consensus size: 27
56789671 TTATTACTGT
56789681 TAGCCCCAATTCCCAGAGGGTCGTGGG
1 TAGCCCCAATTCCCAGAGGGTCGTGGG
*
56789708 TAGCCTCAATTCCCAGAGGGTCGTGG
1 TAGCCCCAATTCCCAGAGGGTCGTGG
56789734 ACTTCTCTGA
Statistics
Matches: 25, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
27 25 1.00
ACGTcount: A:0.19, C:0.28, G:0.32, T:0.21
Consensus pattern (27 bp):
TAGCCCCAATTCCCAGAGGGTCGTGGG
Found at i:56790977 original size:26 final size:27
Alignment explanation
Indices: 56790920--56790978 Score: 66
Period size: 26 Copynumber: 2.2 Consensus size: 27
56790910 TAATTTAGCC
* * *
56790920 ATTTTTAATTTTTATTTTAATATTTTT
1 ATTTTTAATTTTAATTTTAATATTCTA
* *
56790947 GTTTTTAA-TTTAATTTTTATATTCTA
1 ATTTTTAATTTTAATTTTAATATTCTA
56790973 ATTTTT
1 ATTTTT
56790979 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:56808768 original size:21 final size:21
Alignment explanation
Indices: 56808742--56808784 Score: 86
Period size: 21 Copynumber: 2.0 Consensus size: 21
56808732 AAAAACTGTG
56808742 GATCTAATAGCCTGAAATTCT
1 GATCTAATAGCCTGAAATTCT
56808763 GATCTAATAGCCTGAAATTCT
1 GATCTAATAGCCTGAAATTCT
56808784 G
1 G
56808785 TTCTGAGTAT
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
21 22 1.00
ACGTcount: A:0.33, C:0.19, G:0.16, T:0.33
Consensus pattern (21 bp):
GATCTAATAGCCTGAAATTCT
Found at i:56810068 original size:25 final size:24
Alignment explanation
Indices: 56810040--56810088 Score: 62
Period size: 24 Copynumber: 2.0 Consensus size: 24
56810030 AGCATTTTGG
*
56810040 ATCCAAGGAGTTTAATTGAATATTT
1 ATCCAAGGAG-CTAATTGAATATTT
* *
56810065 ATCCTAGTAGCTAATTGAATATTT
1 ATCCAAGGAGCTAATTGAATATTT
56810089 GGAAGCTAGT
Statistics
Matches: 21, Mismatches: 3, Indels: 1
0.84 0.12 0.04
Matches are distributed among these distances:
24 13 0.62
25 8 0.38
ACGTcount: A:0.35, C:0.10, G:0.14, T:0.41
Consensus pattern (24 bp):
ATCCAAGGAGCTAATTGAATATTT
Found at i:56810801 original size:43 final size:43
Alignment explanation
Indices: 56810740--56810824 Score: 154
Period size: 43 Copynumber: 2.0 Consensus size: 43
56810730 AGAGTTTAAA
56810740 TCAAAAGGGTCCAACCTATTTGTGGTAAAAA-TCGTTTTTCCAG
1 TCAAAAGGGTCCAACCTATTTGTGGTAAAAACT-GTTTTTCCAG
56810783 TCAAAAGGGTCCAACCTATTTGTGGTAAAAACTGTTTTTCCA
1 TCAAAAGGGTCCAACCTATTTGTGGTAAAAACTGTTTTTCCA
56810825 TACGGTACAG
Statistics
Matches: 41, Mismatches: 0, Indels: 2
0.95 0.00 0.05
Matches are distributed among these distances:
43 40 0.98
44 1 0.02
ACGTcount: A:0.31, C:0.19, G:0.18, T:0.33
Consensus pattern (43 bp):
TCAAAAGGGTCCAACCTATTTGTGGTAAAAACTGTTTTTCCAG
Found at i:56811128 original size:16 final size:17
Alignment explanation
Indices: 56811107--56811146 Score: 57
Period size: 15 Copynumber: 2.5 Consensus size: 17
56811097 TAATAAAATT
*
56811107 GAAAAAAAATTTG-GAA
1 GAAAAAAAATTTGAAAA
56811123 G-AAAAAAATTTGAAAA
1 GAAAAAAAATTTGAAAA
56811139 GAAAAAAA
1 GAAAAAAA
56811147 TTCAAAAAAA
Statistics
Matches: 21, Mismatches: 1, Indels: 3
0.84 0.04 0.12
Matches are distributed among these distances:
15 11 0.52
16 4 0.19
17 6 0.29
ACGTcount: A:0.70, C:0.00, G:0.15, T:0.15
Consensus pattern (17 bp):
GAAAAAAAATTTGAAAA
Found at i:56811129 original size:15 final size:16
Alignment explanation
Indices: 56811109--56811148 Score: 64
Period size: 16 Copynumber: 2.6 Consensus size: 16
56811099 ATAAAATTGA
*
56811109 AAAAAAATTTG-GAAG
1 AAAAAAATTTGAAAAG
56811124 AAAAAAATTTGAAAAG
1 AAAAAAATTTGAAAAG
56811140 AAAAAAATT
1 AAAAAAATT
56811149 CAAAAAAATG
Statistics
Matches: 23, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
15 11 0.48
16 12 0.52
ACGTcount: A:0.68, C:0.00, G:0.12, T:0.20
Consensus pattern (16 bp):
AAAAAAATTTGAAAAG
Found at i:56811154 original size:16 final size:16
Alignment explanation
Indices: 56811121--56811154 Score: 50
Period size: 16 Copynumber: 2.1 Consensus size: 16
56811111 AAAAATTTGG
**
56811121 AAGAAAAAAATTTGAA
1 AAGAAAAAAATTCAAA
56811137 AAGAAAAAAATTCAAA
1 AAGAAAAAAATTCAAA
56811153 AA
1 AA
56811155 AATGATTTTT
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):
AAGAAAAAAATTCAAA
Found at i:56811573 original size:17 final size:16
Alignment explanation
Indices: 56811547--56811583 Score: 56
Period size: 17 Copynumber: 2.2 Consensus size: 16
56811537 GAGTGATCTC
56811547 ATTTAGTTTTATATTTT
1 ATTTAGTTTTAT-TTTT
*
56811564 ATTTATTTTTATTTTT
1 ATTTAGTTTTATTTTT
56811580 ATTT
1 ATTT
56811584 TTATAATTTT
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
16 8 0.42
17 11 0.58
ACGTcount: A:0.22, C:0.00, G:0.03, T:0.76
Consensus pattern (16 bp):
ATTTAGTTTTATTTTT
Found at i:56811574 original size:6 final size:6
Alignment explanation
Indices: 56811548--56811609 Score: 58
Period size: 6 Copynumber: 10.5 Consensus size: 6
56811538 AGTGATCTCA
* *
56811548 TTTAGT TTTATAT TTTA-- TTTATT TTTATT TTTATT TTTATAA TTT-TT
1 TTTATT TTTAT-T TTTATT TTTATT TTTATT TTTATT TTTAT-T TTTATT
*
56811595 TTTGTT TTTATT TTT
1 TTTATT TTTATT TTT
56811610 GCATTTTATT
Statistics
Matches: 47, Mismatches: 4, Indels: 10
0.77 0.07 0.16
Matches are distributed among these distances:
4 4 0.09
5 3 0.06
6 32 0.68
7 8 0.17
ACGTcount: A:0.18, C:0.00, G:0.03, T:0.79
Consensus pattern (6 bp):
TTTATT
Found at i:56811587 original size:29 final size:30
Alignment explanation
Indices: 56811548--56811609 Score: 90
Period size: 30 Copynumber: 2.1 Consensus size: 30
56811538 AGTGATCTCA
56811548 TTTAGTTTTAT-ATTTTATTTATTTTTATT
1 TTTAGTTTTATAATTTTATTTATTTTTATT
* * *
56811577 TTTATTTTTATAATTTTTTTTGTTTTTATT
1 TTTAGTTTTATAATTTTATTTATTTTTATT
56811607 TTT
1 TTT
56811610 GCATTTTATT
Statistics
Matches: 29, Mismatches: 3, Indels: 1
0.88 0.09 0.03
Matches are distributed among these distances:
29 10 0.34
30 19 0.66
ACGTcount: A:0.18, C:0.00, G:0.03, T:0.79
Consensus pattern (30 bp):
TTTAGTTTTATAATTTTATTTATTTTTATT
Found at i:56823731 original size:9 final size:9
Alignment explanation
Indices: 56823717--56823754 Score: 53
Period size: 9 Copynumber: 4.3 Consensus size: 9
56823707 AAAGTCATCC
56823717 AAATAAATA
1 AAATAAATA
56823726 AAATAAATA
1 AAATAAATA
56823735 AAA-AAATCA
1 AAATAAAT-A
56823744 AAATAAA-A
1 AAATAAATA
56823752 AAA
1 AAA
56823755 ACACACCAAT
Statistics
Matches: 27, Mismatches: 0, Indels: 5
0.84 0.00 0.16
Matches are distributed among these distances:
8 8 0.30
9 16 0.59
10 3 0.11
ACGTcount: A:0.82, C:0.03, G:0.00, T:0.16
Consensus pattern (9 bp):
AAATAAATA
Found at i:56823735 original size:13 final size:13
Alignment explanation
Indices: 56823717--56823754 Score: 51
Period size: 14 Copynumber: 2.8 Consensus size: 13
56823707 AAAGTCATCC
56823717 AAATAAATAAAAT-
1 AAATAAA-AAAATA
56823730 AAATAAAAAAATCA
1 AAATAAAAAAAT-A
56823744 AAATAAAAAAA
1 AAATAAAAAAA
56823755 ACACACCAAT
Statistics
Matches: 23, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
12 5 0.22
13 7 0.30
14 11 0.48
ACGTcount: A:0.82, C:0.03, G:0.00, T:0.16
Consensus pattern (13 bp):
AAATAAAAAAATA
Found at i:56823823 original size:12 final size:12
Alignment explanation
Indices: 56823806--56823835 Score: 60
Period size: 12 Copynumber: 2.5 Consensus size: 12
56823796 CCCAGCTTTG
56823806 CCCAAATTGAAA
1 CCCAAATTGAAA
56823818 CCCAAATTGAAA
1 CCCAAATTGAAA
56823830 CCCAAA
1 CCCAAA
56823836 AATAATCTAA
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 18 1.00
ACGTcount: A:0.50, C:0.30, G:0.07, T:0.13
Consensus pattern (12 bp):
CCCAAATTGAAA
Found at i:56823960 original size:25 final size:25
Alignment explanation
Indices: 56823918--56823969 Score: 68
Period size: 25 Copynumber: 2.1 Consensus size: 25
56823908 CATAAGGCCT
** * *
56823918 AATAGCCCAATTTCAAAACTGACCC
1 AATAGCCCAAACTAAAAAATGACCC
56823943 AATAGCCCAAACTAAAAAATGACCC
1 AATAGCCCAAACTAAAAAATGACCC
56823968 AA
1 AA
56823970 ATGGCCCAGG
Statistics
Matches: 23, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
25 23 1.00
ACGTcount: A:0.48, C:0.29, G:0.08, T:0.15
Consensus pattern (25 bp):
AATAGCCCAAACTAAAAAATGACCC
Found at i:56825554 original size:40 final size:40
Alignment explanation
Indices: 56825502--56825731 Score: 318
Period size: 40 Copynumber: 5.8 Consensus size: 40
56825492 ATAACCACAA
* * * *
56825502 GCACAATTGCCTTCGGGTCTTAACCCGGGTATAGCAACTC
1 GCACAAATGCCTTCGGGTCTTAGCCCGGATATATCAACTC
* * *
56825542 GCACGACTGCCTTCGGGTCTTAGCCCGGATATATCATCTC
1 GCACAAATGCCTTCGGGTCTTAGCCCGGATATATCAACTC
* *
56825582 TCACAAATGCCTTCGGGTCTTAGCCCGGATATATCAACTT
1 GCACAAATGCCTTCGGGTCTTAGCCCGGATATATCAACTC
*
56825622 GCACAAATGCCTTCGGGTCTTAGCCCGGATATATCAACTT
1 GCACAAATGCCTTCGGGTCTTAGCCCGGATATATCAACTC
* *
56825662 GCACAAATGCCTTCGGGTCTTAGCCCGGATAAAATC-ACTA
1 GCACAAATGCCTTCGGGTCTTAGCCCGGAT-ATATCAACTC
* *
56825702 GCATAAATGCCTTCGGGACTTAGCCCGGAT
1 GCACAAATGCCTTCGGGTCTTAGCCCGGAT
56825732 GTATTCAAAT
Statistics
Matches: 173, Mismatches: 16, Indels: 2
0.91 0.08 0.01
Matches are distributed among these distances:
40 169 0.98
41 4 0.02
ACGTcount: A:0.24, C:0.29, G:0.21, T:0.26
Consensus pattern (40 bp):
GCACAAATGCCTTCGGGTCTTAGCCCGGATATATCAACTC
Found at i:56834084 original size:40 final size:40
Alignment explanation
Indices: 56834032--56834259 Score: 241
Period size: 40 Copynumber: 5.8 Consensus size: 40
56834022 ATAACCACAA
* * *
56834032 GCACAATTGCCTTCGGGTCTTAACTCAGG-TATAGCAACTC
1 GCACAAATGCCTTCGGGTCTTAGC-CAGGATATATCAACTC
* * *
56834072 GCACGAATGCCTTCGGGTCTTAGCCCGGATATATCATCTC
1 GCACAAATGCCTTCGGGTCTTAGCCAGGATATATCAACTC
* * *
56834112 TCACAAATGCCTTCGGGTCTTAGCCCA-GATATATCACCTT
1 GCACAAATGCCTTCGGGTCTTAG-CCAGGATATATCAACTC
* *
56834152 GCACAAATGCCTTC-GGTCTTAGCCCGGATATATCAACTT
1 GCACAAATGCCTTCGGGTCTTAGCCAGGATATATCAACTC
* * *
56834191 GCACAAATGCCTTCGGGTCTTAGCCCGGATAAAATC-ACTA
1 GCACAAATGCCTTCGGGTCTTAGCCAGGAT-ATATCAACTC
* * *
56834231 GCATAAATGCCTTC-GGACTTAGCCCGGAT
1 GCACAAATGCCTTCGGGTCTTAGCCAGGAT
56834260 GTATTCAAAT
Statistics
Matches: 165, Mismatches: 18, Indels: 11
0.85 0.09 0.06
Matches are distributed among these distances:
38 2 0.01
39 51 0.31
40 106 0.64
41 6 0.04
ACGTcount: A:0.25, C:0.29, G:0.20, T:0.27
Consensus pattern (40 bp):
GCACAAATGCCTTCGGGTCTTAGCCAGGATATATCAACTC
Found at i:56834197 original size:79 final size:79
Alignment explanation
Indices: 56834032--56834259 Score: 289
Period size: 79 Copynumber: 2.9 Consensus size: 79
56834022 ATAACCACAA
* * * * * * *
56834032 GCACAATTGCCTTCGGGTCTTAACTCAGGTATAGCAACTCGCACGAATGCCTTCGGGTCTTAGCC
1 GCACAAATGCCTTCGGGTCTTAGCCCAGATATATC-ACTAGCACAAATGCCTTC-GGTCTTAGCC
*
56834097 CGGATATATCATCTCT
64 CGGATATATCAACTCT
*
56834113 -CACAAATGCCTTCGGGTCTTAGCCCAGATATATCACCTTGCACAAATGCCTTCGGTCTTAGCCC
1 GCACAAATGCCTTCGGGTCTTAGCCCAGATATATCA-CTAGCACAAATGCCTTCGGTCTTAGCCC
56834177 GGATATATCAACT-T
65 GGATATATCAACTCT
* * * *
56834191 GCACAAATGCCTTCGGGTCTTAGCCCGGATAAAATCACTAGCATAAATGCCTTCGGACTTAGCCC
1 GCACAAATGCCTTCGGGTCTTAGCCCAGAT-ATATCACTAGCACAAATGCCTTCGGTCTTAGCCC
56834256 GGAT
65 GGAT
56834260 GTATTCAAAT
Statistics
Matches: 131, Mismatches: 13, Indels: 8
0.86 0.09 0.05
Matches are distributed among these distances:
78 1 0.01
79 81 0.62
80 49 0.37
ACGTcount: A:0.25, C:0.29, G:0.20, T:0.27
Consensus pattern (79 bp):
GCACAAATGCCTTCGGGTCTTAGCCCAGATATATCACTAGCACAAATGCCTTCGGTCTTAGCCCG
GATATATCAACTCT
Found at i:56834214 original size:119 final size:119
Alignment explanation
Indices: 56834032--56834255 Score: 301
Period size: 119 Copynumber: 1.9 Consensus size: 119
56834022 ATAACCACAA
* *
56834032 GCACAATTGCCTTCGGGTCTTAACTCAGGTATAGCAACTCGCACGAATGCCTTCGGGTCTTAGCC
1 GCACAAATGCCTTCGGGTCTTAACTCAGGTATAGCAACTCGCACAAATGCCTTCGGGTCTTAGCC
* ** *
56834097 CGGAT-ATATCATCTCTCACAAATGCCTTCGGGTCTTAGCCCAGATATATCACCTT
66 CGGATAAAATCA-CTAGCACAAATGCCTTC-GGACTTAGCCCAGATATATCACCTT
* * * *
56834152 GCACAAATGCCTTC-GGTCTTAGC-CCGGATATATCAACTTGCACAAATGCCTTCGGGTCTTAGC
1 GCACAAATGCCTTCGGGTCTTAACTCAGG-TATAGCAACTCGCACAAATGCCTTCGGGTCTTAGC
*
56834215 CCGGATAAAATCACTAGCATAAATGCCTTCGGACTTAGCCC
65 CCGGATAAAATCACTAGCACAAATGCCTTCGGACTTAGCCC
56834256 GGATGTATTC
Statistics
Matches: 91, Mismatches: 11, Indels: 6
0.84 0.10 0.06
Matches are distributed among these distances:
118 13 0.14
119 60 0.66
120 18 0.20
ACGTcount: A:0.25, C:0.29, G:0.19, T:0.27
Consensus pattern (119 bp):
GCACAAATGCCTTCGGGTCTTAACTCAGGTATAGCAACTCGCACAAATGCCTTCGGGTCTTAGCC
CGGATAAAATCACTAGCACAAATGCCTTCGGACTTAGCCCAGATATATCACCTT
Found at i:56842493 original size:40 final size:40
Alignment explanation
Indices: 56842448--56842714 Score: 500
Period size: 40 Copynumber: 6.7 Consensus size: 40
56842438 CCAAACACAT
* *
56842448 TTGCCTTCGGGTCTTAACCCGGACATATCAACTCGCATAA
1 TTGCCTTCGGGTCTTAGCCCGGATATATCAACTCGCATAA
*
56842488 TTGCCTTCGGGTCTTAGCCCGGATATATCATCTCGCATAA
1 TTGCCTTCGGGTCTTAGCCCGGATATATCAACTCGCATAA
56842528 TTGCCTTCGGGT-TTAGCCCGGATATATCAACTCGCATAA
1 TTGCCTTCGGGTCTTAGCCCGGATATATCAACTCGCATAA
56842567 TTGCCTTCGGGTCTTAGCCCGGATATATCAACTCGCATAA
1 TTGCCTTCGGGTCTTAGCCCGGATATATCAACTCGCATAA
56842607 TTGCCTTCGGGTCTTAGCCCGGATATATCAACTCGCATAA
1 TTGCCTTCGGGTCTTAGCCCGGATATATCAACTCGCATAA
56842647 TTGCCTTCGGGTCTTAGCCCGGATATATCAACTCGCATAA
1 TTGCCTTCGGGTCTTAGCCCGGATATATCAACTCGCATAA
56842687 TTGCCTTCGGGTCTTAGCCCGGATATAT
1 TTGCCTTCGGGTCTTAGCCCGGATATAT
56842715 TCAATGCTCA
Statistics
Matches: 222, Mismatches: 4, Indels: 2
0.97 0.02 0.01
Matches are distributed among these distances:
39 38 0.17
40 184 0.83
ACGTcount: A:0.22, C:0.27, G:0.20, T:0.31
Consensus pattern (40 bp):
TTGCCTTCGGGTCTTAGCCCGGATATATCAACTCGCATAA
Found at i:56856569 original size:28 final size:29
Alignment explanation
Indices: 56856532--56856592 Score: 72
Period size: 28 Copynumber: 2.1 Consensus size: 29
56856522 AATTCTATGT
56856532 TATTTCATATACATAATCT-CTTTAAAATC
1 TATTTCATATACAT-ATCTCCTTTAAAATC
* * *
56856561 TATTT-ATATATATATTTCCTTTCAAATC
1 TATTTCATATACATATCTCCTTTAAAATC
56856589 TATT
1 TATT
56856593 GTTTATATAG
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:56856628 original size:30 final size:28
Alignment explanation
Indices: 56856551--56856635 Score: 93
Period size: 30 Copynumber: 3.0 Consensus size: 28
56856541 TACATAATCT
*
56856551 CTTTAAAATCTATTTATATATATATTTC
1 CTTTAAAATCTATTTTTATATATATTTC
*
56856579 CTTTCAAATCTATTGTTTATATAGT-TTATC
1 CTTTAAAATCTATT-TTTATATA-TATT-TC
*
56856609 CTTTAAAATATATATTTTAT-TATATTT
1 CTTTAAAATCTAT-TTTTATATATATTT
56856636 TTGTTATTTA
Statistics
Matches: 48, Mismatches: 4, Indels: 10
0.77 0.06 0.16
Matches are distributed among these distances:
28 15 0.31
29 13 0.27
30 19 0.40
31 1 0.02
ACGTcount: A:0.33, C:0.09, G:0.02, T:0.55
Consensus pattern (28 bp):
CTTTAAAATCTATTTTTATATATATTTC
Found at i:56861716 original size:169 final size:169
Alignment explanation
Indices: 56861432--56861756 Score: 564
Period size: 169 Copynumber: 1.9 Consensus size: 169
56861422 AAACTTTACT
* * *
56861432 ATCATATCCAAAAAGGTATTTCAAACAATCTCGTCCATTAATTATGTTAATATAGAACCAAGAAG
1 ATCAAATCCAAAAAGGTATTCCAAACAATCTCGTCCATTAATTATGTTAATATAAAACCAAGAAG
**
56861497 ACTTTCGTTACATATATATTGTAACTAAATTCATCCCTGATCACGTATATTAACATAACCAAATG
66 ACTTTCGTTACATATATATCATAACTAAATTCATCCCTGATCACGTATATTAACATAACCAAATG
56861562 ACATAAATCAAGTATGGATGTGTAGACATAACCAAATCC
131 ACATAAATCAAGTATGGATGTGTAGACATAACCAAATCC
56861601 ATCAAATCCAAAAAGGTATTCCAAACAATCTCGTCCATTAATTATGTTAATATAAAACCAAGACA
1 ATCAAATCCAAAAAGGTATTCCAAACAATCTCGTCCATTAATTATGTTAATATAAAACCAAGA-A
*
56861666 -ACTTTCGTTATATATATATCATAACTAAA-TCTATCCCTGATCACGTATATTAACATAACCAAA
65 GACTTTCGTTACATATATATCATAACTAAATTC-ATCCCTGATCACGTATATTAACATAACCAAA
56861729 TGACATAAATCAAGTATGGATGTGTAGA
129 TGACATAAATCAAGTATGGATGTGTAGA
56861757 ATGAAAACTA
Statistics
Matches: 148, Mismatches: 6, Indels: 4
0.94 0.04 0.03
Matches are distributed among these distances:
168 2 0.01
169 145 0.98
170 1 0.01
ACGTcount: A:0.42, C:0.18, G:0.10, T:0.30
Consensus pattern (169 bp):
ATCAAATCCAAAAAGGTATTCCAAACAATCTCGTCCATTAATTATGTTAATATAAAACCAAGAAG
ACTTTCGTTACATATATATCATAACTAAATTCATCCCTGATCACGTATATTAACATAACCAAATG
ACATAAATCAAGTATGGATGTGTAGACATAACCAAATCC
Found at i:56862911 original size:61 final size:61
Alignment explanation
Indices: 56862789--56862924 Score: 166
Period size: 61 Copynumber: 2.2 Consensus size: 61
56862779 TCTTAAAAAA
* * * * *
56862789 GGGACACATGCCCGTGTGGCCAGGCCGTGTGGAATGCCCCAGGCCTTATGACTCTCGAAGTT
1 GGGACACACGACCGTGT-CCCAGCCCGTGTGGAATGCCCCAGGCCTTATGACTCTCAAAGTT
* * *
56862851 GGGATACACGACCGTGTCCCAGCCCGTGTGGAATGCCCTAGG-CTGTGTGACTCTCAAAGTT
1 GGGACACACGACCGTGTCCCAGCCCGTGTGGAATGCCCCAGGCCT-TATGACTCTCAAAGTT
*
56862912 GGGACACATGACC
1 GGGACACACGACC
56862925 CTCACTGACT
Statistics
Matches: 63, Mismatches: 10, Indels: 3
0.83 0.13 0.04
Matches are distributed among these distances:
60 2 0.03
61 47 0.75
62 14 0.22
ACGTcount: A:0.20, C:0.29, G:0.31, T:0.21
Consensus pattern (61 bp):
GGGACACACGACCGTGTCCCAGCCCGTGTGGAATGCCCCAGGCCTTATGACTCTCAAAGTT
Found at i:56872760 original size:19 final size:18
Alignment explanation
Indices: 56872720--56872760 Score: 55
Period size: 19 Copynumber: 2.2 Consensus size: 18
56872710 AATATTACAC
*
56872720 ATTTCAATTTCACATTAA
1 ATTTCAATTTCACACTAA
*
56872738 ATTTCAATTTTCACACTAT
1 ATTTCAA-TTTCACACTAA
56872757 ATTT
1 ATTT
56872761 TGCTTATTCT
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
18 7 0.35
19 13 0.65
ACGTcount: A:0.34, C:0.17, G:0.00, T:0.49
Consensus pattern (18 bp):
ATTTCAATTTCACACTAA
Found at i:56873261 original size:3 final size:3
Alignment explanation
Indices: 56873253--56873277 Score: 50
Period size: 3 Copynumber: 8.3 Consensus size: 3
56873243 TCATTATAAC
56873253 TAT TAT TAT TAT TAT TAT TAT TAT T
1 TAT TAT TAT TAT TAT TAT TAT TAT T
56873278 TAATATAACA
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 22 1.00
ACGTcount: A:0.32, C:0.00, G:0.00, T:0.68
Consensus pattern (3 bp):
TAT
Found at i:56889882 original size:20 final size:20
Alignment explanation
Indices: 56889841--56889882 Score: 59
Period size: 20 Copynumber: 2.1 Consensus size: 20
56889831 CTATATAATG
**
56889841 TTTTAATTTTTTTTTAAGTT
1 TTTTAATTTTTTTAAAAGTT
56889861 TTTTAATTTTTTTAAAA-TT
1 TTTTAATTTTTTTAAAAGTT
56889880 TTT
1 TTT
56889883 CTAAAATCTG
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
19 5 0.25
20 15 0.75
ACGTcount: A:0.24, C:0.00, G:0.02, T:0.74
Consensus pattern (20 bp):
TTTTAATTTTTTTAAAAGTT
Found at i:56889970 original size:34 final size:34
Alignment explanation
Indices: 56889905--56889970 Score: 87
Period size: 34 Copynumber: 1.9 Consensus size: 34
56889895 TCCTATAAAT
* * *
56889905 AATCCTTATTATAATAAAATCCATTTAGCATAGA
1 AATCCTTATCATAAAAAAATCCAATTAGCATAGA
* *
56889939 AATCCTTATCATAAAAAAATCTAATTGGCATA
1 AATCCTTATCATAAAAAAATCCAATTAGCATA
56889971 AATTTTAACA
Statistics
Matches: 27, Mismatches: 5, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
34 27 1.00
ACGTcount: A:0.45, C:0.15, G:0.06, T:0.33
Consensus pattern (34 bp):
AATCCTTATCATAAAAAAATCCAATTAGCATAGA
Found at i:56891965 original size:15 final size:15
Alignment explanation
Indices: 56891945--56891974 Score: 60
Period size: 15 Copynumber: 2.0 Consensus size: 15
56891935 TAAATGTCTC
56891945 TTCTTCTTTTTCTTT
1 TTCTTCTTTTTCTTT
56891960 TTCTTCTTTTTCTTT
1 TTCTTCTTTTTCTTT
56891975 CTGATAACTC
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 15 1.00
ACGTcount: A:0.00, C:0.20, G:0.00, T:0.80
Consensus pattern (15 bp):
TTCTTCTTTTTCTTT
Found at i:56892569 original size:63 final size:64
Alignment explanation
Indices: 56892490--56892647 Score: 232
Period size: 63 Copynumber: 2.5 Consensus size: 64
56892480 ATGTATCAGA
* *
56892490 CCGTGTAACTTACTATTTTGGAATTAGAA-TCACACAAGCTAGAGACACGGGCATGTGTCTAAG
1 CCGTGTAACTCACTATTTTGGAATTAGAAGTCACACAAGCTAGAGACACGGGCATGTGTCCAAG
** *
56892553 CCGTGTAACTCACTATTTTGGAATTA-AAGTCACACGGGCTAGAGACATGGGCATGTGTCCAAG
1 CCGTGTAACTCACTATTTTGGAATTAGAAGTCACACAAGCTAGAGACACGGGCATGTGTCCAAG
* *
56892616 CCGTATGACTCACTATTTTGGAATTAG-AGTCA
1 CCGTGTAACTCACTATTTTGGAATTAGAAGTCA
56892648 TATGGGCTAG
Statistics
Matches: 86, Mismatches: 7, Indels: 4
0.89 0.07 0.04
Matches are distributed among these distances:
62 2 0.02
63 84 0.98
ACGTcount: A:0.30, C:0.20, G:0.23, T:0.28
Consensus pattern (64 bp):
CCGTGTAACTCACTATTTTGGAATTAGAAGTCACACAAGCTAGAGACACGGGCATGTGTCCAAG
Found at i:56893502 original size:26 final size:26
Alignment explanation
Indices: 56893466--56893525 Score: 93
Period size: 26 Copynumber: 2.3 Consensus size: 26
56893456 TCTTCTGTTC
56893466 TGTTATACGATCGTTATGAAAATCTA
1 TGTTATACGATCGTTATGAAAATCTA
* *
56893492 TGTTATACGATCGTTGTGAAAATCTC
1 TGTTATACGATCGTTATGAAAATCTA
*
56893518 TGTGATAC
1 TGTTATAC
56893526 TTTGATTTGT
Statistics
Matches: 31, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
26 31 1.00
ACGTcount: A:0.30, C:0.13, G:0.18, T:0.38
Consensus pattern (26 bp):
TGTTATACGATCGTTATGAAAATCTA
Found at i:56896386 original size:40 final size:40
Alignment explanation
Indices: 56896286--56896440 Score: 231
Period size: 40 Copynumber: 3.9 Consensus size: 40
56896276 TTATACTCTT
*
56896286 TGTCTGGTGTGTTTCAGTTGGATTAGCTCCTATGAGCTTC
1 TGTCTGGTGTGTTTCAGTTGGATTAGCTCTTATGAGCTTC
* * * *
56896326 -CTCTAGTGTGTTTCAGTTGGATTAGCTCTTATAAGGTTC
1 TGTCTGGTGTGTTTCAGTTGGATTAGCTCTTATGAGCTTC
*
56896365 TGTCTGGTGTGTTTCGGTTGGATTAGCTCTTATGAGCTTC
1 TGTCTGGTGTGTTTCAGTTGGATTAGCTCTTATGAGCTTC
* *
56896405 TATCTGGTGTGTTTCAGTTGGACTAGCTCTTATGAG
1 TGTCTGGTGTGTTTCAGTTGGATTAGCTCTTATGAG
56896441 AATCTGGTGT
Statistics
Matches: 101, Mismatches: 13, Indels: 2
0.87 0.11 0.02
Matches are distributed among these distances:
39 34 0.34
40 67 0.66
ACGTcount: A:0.14, C:0.15, G:0.27, T:0.43
Consensus pattern (40 bp):
TGTCTGGTGTGTTTCAGTTGGATTAGCTCTTATGAGCTTC
Found at i:56896984 original size:5 final size:5
Alignment explanation
Indices: 56896976--56897012 Score: 51
Period size: 5 Copynumber: 7.6 Consensus size: 5
56896966 AAATAAAAAG
56896976 ATTTT ATTTT -TTATT -TTTT ATTTT ATTTT ATTTT ATT
1 ATTTT ATTTT ATT-TT ATTTT ATTTT ATTTT ATTTT ATT
56897013 AATTTAGGTT
Statistics
Matches: 30, Mismatches: 0, Indels: 4
0.88 0.00 0.12
Matches are distributed among these distances:
4 4 0.13
5 26 0.87
ACGTcount: A:0.19, C:0.00, G:0.00, T:0.81
Consensus pattern (5 bp):
ATTTT
Found at i:56897018 original size:18 final size:17
Alignment explanation
Indices: 56896984--56897018 Score: 52
Period size: 17 Copynumber: 2.0 Consensus size: 17
56896974 AGATTTTATT
*
56896984 TTTTATTTTTTATTTTA
1 TTTTATTTTTTAATTTA
56897001 TTTTATTTTATTAATTTA
1 TTTTATTTT-TTAATTTA
56897019 GGTTAGGCTA
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:0.23, C:0.00, G:0.00, T:0.77
Consensus pattern (17 bp):
TTTTATTTTTTAATTTA
Found at i:56901958 original size:12 final size:12
Alignment explanation
Indices: 56901943--56901967 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
56901933 ATTGAAAGAC
56901943 AAATCATTGAAT
1 AAATCATTGAAT
56901955 AAATCATTGAAT
1 AAATCATTGAAT
56901967 A
1 A
56901968 GGGGCCGAAT
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 13 1.00
ACGTcount: A:0.52, C:0.08, G:0.08, T:0.32
Consensus pattern (12 bp):
AAATCATTGAAT
Found at i:56908284 original size:20 final size:21
Alignment explanation
Indices: 56908259--56908306 Score: 64
Period size: 20 Copynumber: 2.4 Consensus size: 21
56908249 ATTTCTATTT
*
56908259 GTATAAACTA-TAGTTTATCC
1 GTATAAACTAGTAGTTCATCC
56908279 GTATAAA-TAGTAGTTCATCC
1 GTATAAACTAGTAGTTCATCC
*
56908299 ATATAAAC
1 GTATAAAC
56908307 ACATATCTTA
Statistics
Matches: 24, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
19 2 0.08
20 22 0.92
ACGTcount: A:0.40, C:0.15, G:0.10, T:0.35
Consensus pattern (21 bp):
GTATAAACTAGTAGTTCATCC
Found at i:56908533 original size:24 final size:24
Alignment explanation
Indices: 56908477--56908533 Score: 66
Period size: 23 Copynumber: 2.4 Consensus size: 24
56908467 GCTGATGAAC
*
56908477 AGTAAGCTCTATTGAACTGAAACG
1 AGTAAGCTCTAATGAACTGAAACG
56908501 -GTAAGCTCTAAT-AAGCTGAAA-G
1 AGTAAGCTCTAATGAA-CTGAAACG
56908523 TAGTAAGCTCT
1 -AGTAAGCTCT
56908534 TACGAGCTGA
Statistics
Matches: 29, Mismatches: 1, Indels: 6
0.81 0.03 0.17
Matches are distributed among these distances:
22 3 0.10
23 17 0.59
24 9 0.31
ACGTcount: A:0.37, C:0.16, G:0.21, T:0.26
Consensus pattern (24 bp):
AGTAAGCTCTAATGAACTGAAACG
Found at i:56908809 original size:15 final size:16
Alignment explanation
Indices: 56908767--56908809 Score: 54
Period size: 15 Copynumber: 2.8 Consensus size: 16
56908757 ATTATAAACC
*
56908767 AAAAATAATAAATATA
1 AAAAACAATAAATATA
*
56908783 AAAAACCA-AAATA-A
1 AAAAACAATAAATATA
56908797 AAAAACAATAAAT
1 AAAAACAATAAAT
56908810 GGCCCAAAAT
Statistics
Matches: 23, Mismatches: 3, Indels: 3
0.79 0.10 0.10
Matches are distributed among these distances:
14 8 0.35
15 9 0.39
16 6 0.26
ACGTcount: A:0.77, C:0.07, G:0.00, T:0.16
Consensus pattern (16 bp):
AAAAACAATAAATATA
Found at i:56918008 original size:17 final size:18
Alignment explanation
Indices: 56917986--56918024 Score: 53
Period size: 18 Copynumber: 2.2 Consensus size: 18
56917976 TGGTTTTTAG
*
56917986 TTTAATTT-TATTCCTTT
1 TTTAATTTATATTCATTT
*
56918003 TTTAATTTATTTTCATTT
1 TTTAATTTATATTCATTT
56918021 TTTA
1 TTTA
56918025 TTAAATATCC
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
17 8 0.42
18 11 0.58
ACGTcount: A:0.21, C:0.08, G:0.00, T:0.72
Consensus pattern (18 bp):
TTTAATTTATATTCATTT
Found at i:56918148 original size:22 final size:22
Alignment explanation
Indices: 56918123--56918172 Score: 66
Period size: 22 Copynumber: 2.3 Consensus size: 22
56918113 TACATATATG
*
56918123 TATTTGTATTTAGTTT-TTTTAT
1 TATTT-TATTTAGTTTATTTTAA
*
56918145 TATTTTATTTATTTTATTTTAA
1 TATTTTATTTAGTTTATTTTAA
56918167 TATTTT
1 TATTTT
56918173 TAATGCTATA
Statistics
Matches: 25, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
21 9 0.36
22 16 0.64
ACGTcount: A:0.22, C:0.00, G:0.04, T:0.74
Consensus pattern (22 bp):
TATTTTATTTAGTTTATTTTAA
Found at i:56918277 original size:11 final size:11
Alignment explanation
Indices: 56918253--56918330 Score: 57
Period size: 11 Copynumber: 7.7 Consensus size: 11
56918243 TGTTATATAC
56918253 GTATATATT-T
1 GTATATATTAT
56918263 -TATATATTAT
1 GTATATATTAT
56918273 GTATATATTA-
1 GTATATATTAT
56918283 -T-T-T-TTAT
1 GTATATATTAT
56918290 -TATATATTAT
1 GTATATATTAT
* *
56918300 GTATATATAAC
1 GTATATATTAT
56918311 GTAT-TATTCAT
1 GTATATATT-AT
56918322 GTATTATAT
1 GTA-TATAT
56918331 CATATATGCA
Statistics
Matches: 54, Mismatches: 4, Indels: 17
0.72 0.05 0.23
Matches are distributed among these distances:
6 3 0.06
7 2 0.04
8 2 0.04
9 10 0.19
10 8 0.15
11 25 0.46
12 1 0.02
13 3 0.06
ACGTcount: A:0.35, C:0.03, G:0.06, T:0.56
Consensus pattern (11 bp):
GTATATATTAT
Found at i:56941650 original size:23 final size:22
Alignment explanation
Indices: 56941611--56941653 Score: 59
Period size: 22 Copynumber: 1.9 Consensus size: 22
56941601 NNNNNCTGTA
*
56941611 TTCTTTCCTCTTCCCTCATCTT
1 TTCTTTCCTCCTCCCTCATCTT
*
56941633 TTCTTTTCTCCTCTCCTCATC
1 TTCTTTCCTCCTC-CCTCATC
56941654 AACCTTTTTC
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
22 11 0.61
23 7 0.39
ACGTcount: A:0.05, C:0.42, G:0.00, T:0.53
Consensus pattern (22 bp):
TTCTTTCCTCCTCCCTCATCTT
Found at i:56942780 original size:28 final size:28
Alignment explanation
Indices: 56942740--56942832 Score: 159
Period size: 28 Copynumber: 3.3 Consensus size: 28
56942730 ATGTACTAGA
56942740 ATACCCCTATGTATGCAAAATTACCATT
1 ATACCCCTATGTATGCAAAATTACCATT
*
56942768 ATACTCCTATGTATGCAAAATTACCATT
1 ATACCCCTATGTATGCAAAATTACCATT
* *
56942796 ATACCCCTATGTATGCAAAATGACCTTT
1 ATACCCCTATGTATGCAAAATTACCATT
56942824 ATACCCCTA
1 ATACCCCTA
56942833 GGGTTAATTT
Statistics
Matches: 61, Mismatches: 4, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
28 61 1.00
ACGTcount: A:0.34, C:0.26, G:0.08, T:0.32
Consensus pattern (28 bp):
ATACCCCTATGTATGCAAAATTACCATT
Found at i:56942996 original size:27 final size:27
Alignment explanation
Indices: 56942938--56943027 Score: 119
Period size: 28 Copynumber: 3.2 Consensus size: 27
56942928 AGGAAGCGTC
56942938 CTGGTGGCTA-TGCCACAAATTATCTGTT
1 CTGGTGGC-ACTGCCACAAA-TATCTGTT
* *
56942966 CTGGTGGCCCTGCCACATATATCTGTT
1 CTGGTGGCACTGCCACAAATATCTGTT
56942993 CTGGTGGCACTGCCACAAAATATCTGTAT
1 CTGGTGGCACTGCCAC-AAATATCTGT-T
56943022 CTGGTG
1 CTGGTG
56943028 ACTCTGTCAC
Statistics
Matches: 55, Mismatches: 4, Indels: 5
0.86 0.06 0.08
Matches are distributed among these distances:
27 23 0.42
28 25 0.45
29 7 0.13
ACGTcount: A:0.20, C:0.24, G:0.23, T:0.32
Consensus pattern (27 bp):
CTGGTGGCACTGCCACAAATATCTGTT
Found at i:56943046 original size:55 final size:56
Alignment explanation
Indices: 56942938--56943052 Score: 146
Period size: 55 Copynumber: 2.1 Consensus size: 56
56942928 AGGAAGCGTC
* *
56942938 CTGGTGGCTATGCCACAAATTATCTGTTCTGGTGGCCCTGCCACATATATCTGT-T
1 CTGGTGGCTATGCCACAAAATATCTGTTCTGGTGACCCTGCCACATATATCTGTAT
* * *
56942993 CTGGTGGC-ACTGCCACAAAATATCTGTATCTGGTGACTCTGTCACAT-TTTCTGTAT
1 CTGGTGGCTA-TGCCACAAAATATCTGT-TCTGGTGACCCTGCCACATATATCTGTAT
56943049 CTGG
1 CTGG
56943053 CAGCCATGCT
Statistics
Matches: 52, Mismatches: 5, Indels: 5
0.84 0.08 0.08
Matches are distributed among these distances:
54 1 0.02
55 30 0.58
56 21 0.40
ACGTcount: A:0.19, C:0.24, G:0.22, T:0.35
Consensus pattern (56 bp):
CTGGTGGCTATGCCACAAAATATCTGTTCTGGTGACCCTGCCACATATATCTGTAT
Found at i:56944488 original size:87 final size:86
Alignment explanation
Indices: 56944253--56944501 Score: 279
Period size: 86 Copynumber: 2.9 Consensus size: 86
56944243 ATTTCTGTCT
* * * * *
56944253 TTTCAAAAATCAACTCATAGTGCGAGAGGTGAGTTGAGCCTTTGCTCATATGCTGAGGTATTTCT
1 TTTCAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTTGGCTCATGTGTTGAGGTATTTTT
* *
56944318 AGTTTCTGTTCAATTTATATT
66 AATTTCTGTTCAATTTATATG
* * * * *
56944339 TTTCAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCGGGTCACGTATCGAGGTATTTTT
1 TTTCAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTTGGCTCATGTGTTGAGGTATTTTT
*
56944404 AAAATTTGCTTTTCCAA-TTA-A-G
66 --AATTT-CTGTT-CAATTTATATG
* * * * *
56944426 TTTCAAAAATCAACTCGTATTGCGAGAAGTGAGTTGAGTCTTGGCTCATGTGTTGAGCTATTTTC
1 TTTCAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTTGGCTCATGTGTTGAGGTATTTTT
56944491 AATTTCTGTTC
66 AATTTCTGTTC
56944502 TAATATCTAT
Statistics
Matches: 135, Mismatches: 24, Indels: 11
0.79 0.14 0.06
Matches are distributed among these distances:
83 1 0.01
84 4 0.03
85 5 0.04
86 55 0.41
87 55 0.41
88 5 0.04
89 7 0.05
90 3 0.02
ACGTcount: A:0.26, C:0.16, G:0.20, T:0.38
Consensus pattern (86 bp):
TTTCAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTTGGCTCATGTGTTGAGGTATTTTT
AATTTCTGTTCAATTTATATG
Found at i:56946384 original size:22 final size:23
Alignment explanation
Indices: 56946354--56946396 Score: 63
Period size: 22 Copynumber: 1.9 Consensus size: 23
56946344 ACATATATGT
56946354 ATTTGTATTTAGTTTT-TTTTATC
1 ATTTGTATTTA-TTTTATTTTATC
56946377 ATTT-TATTTATTTTATTTTA
1 ATTTGTATTTATTTTATTTTA
56946397 ATATTTTTAA
Statistics
Matches: 19, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
21 4 0.21
22 11 0.58
23 4 0.21
ACGTcount: A:0.21, C:0.02, G:0.05, T:0.72
Consensus pattern (23 bp):
ATTTGTATTTATTTTATTTTATC
Found at i:56946402 original size:22 final size:21
Alignment explanation
Indices: 56946353--56946403 Score: 59
Period size: 22 Copynumber: 2.3 Consensus size: 21
56946343 TACATATATG
56946353 TATTTGTATTTAGTTTTTTTTA
1 TATTT-TATTTAGTTTTTTTTA
56946375 TCATTTTATTTA-TTTTATTTTAA
1 T-ATTTTATTTAGTTTT-TTTT-A
56946398 TATTTT
1 TATTTT
56946404 TAATGCTATA
Statistics
Matches: 26, Mismatches: 0, Indels: 6
0.81 0.00 0.19
Matches are distributed among these distances:
21 4 0.15
22 16 0.62
23 6 0.23
ACGTcount: A:0.22, C:0.02, G:0.04, T:0.73
Consensus pattern (21 bp):
TATTTTATTTAGTTTTTTTTA
Done.