Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: NW_018397259.1 Herrania umbratica cultivar Fairchild unplaced genomic scaffold, ASM216827v2 scaffold_147.0, whole genome shotgun sequence
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: 10737078
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
Warning! 75620 characters in sequence are not A, C, G, or T
File 11 of 22
Found at i:4379770 original size:2 final size:2
Alignment explanation
Indices: 4379759--4379796 Score: 62
Period size: 2 Copynumber: 20.0 Consensus size: 2
4379749 AAGCGTGCTT
4379759 TA TA TA -A TA TA TA TA TA TA -A TA TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
4379797 GAGAGAGAGA
Statistics
Matches: 34, Mismatches: 0, Indels: 4
0.89 0.00 0.11
Matches are distributed among these distances:
1 2 0.06
2 32 0.94
ACGTcount: A:0.53, C:0.00, G:0.00, T:0.47
Consensus pattern (2 bp):
TA
Found at i:4379777 original size:13 final size:13
Alignment explanation
Indices: 4379759--4379796 Score: 69
Period size: 13 Copynumber: 3.0 Consensus size: 13
4379749 AAGCGTGCTT
4379759 TATATAATATATA
1 TATATAATATATA
4379772 TATATAATATATA
1 TATATAATATATA
4379785 TATAT-ATATATA
1 TATATAATATATA
4379797 GAGAGAGAGA
Statistics
Matches: 25, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
12 7 0.28
13 18 0.72
ACGTcount: A:0.53, C:0.00, G:0.00, T:0.47
Consensus pattern (13 bp):
TATATAATATATA
Found at i:4388438 original size:3 final size:3
Alignment explanation
Indices: 4388430--4388463 Score: 68
Period size: 3 Copynumber: 11.3 Consensus size: 3
4388420 AAAGTGAAAA
4388430 AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG A
1 AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG A
4388464 GTTATGTTAG
Statistics
Matches: 31, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 31 1.00
ACGTcount: A:0.68, C:0.00, G:0.32, T:0.00
Consensus pattern (3 bp):
AAG
Found at i:4388847 original size:5 final size:5
Alignment explanation
Indices: 4388837--4388862 Score: 52
Period size: 5 Copynumber: 5.2 Consensus size: 5
4388827 GAGAGGGAAA
4388837 AAAAG AAAAG AAAAG AAAAG AAAAG A
1 AAAAG AAAAG AAAAG AAAAG AAAAG A
4388863 GTTGGAGTGG
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 21 1.00
ACGTcount: A:0.81, C:0.00, G:0.19, T:0.00
Consensus pattern (5 bp):
AAAAG
Found at i:4411089 original size:27 final size:27
Alignment explanation
Indices: 4411059--4411115 Score: 114
Period size: 27 Copynumber: 2.1 Consensus size: 27
4411049 AAAAAAATTA
4411059 TTATAATTAATAGTTCATTAGTTGCTG
1 TTATAATTAATAGTTCATTAGTTGCTG
4411086 TTATAATTAATAGTTCATTAGTTGCTG
1 TTATAATTAATAGTTCATTAGTTGCTG
4411113 TTA
1 TTA
4411116 ACTAAACTAT
Statistics
Matches: 30, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
27 30 1.00
ACGTcount: A:0.30, C:0.07, G:0.14, T:0.49
Consensus pattern (27 bp):
TTATAATTAATAGTTCATTAGTTGCTG
Found at i:4411365 original size:20 final size:21
Alignment explanation
Indices: 4411327--4411368 Score: 61
Period size: 20 Copynumber: 2.0 Consensus size: 21
4411317 AATAAAAGAA
4411327 TAAAAATTTATTCAAATTTTT
1 TAAAAATTTATTCAAATTTTT
4411348 TAAAGAATTTA-T-AAATTTTT
1 TAAA-AATTTATTCAAATTTTT
4411368 T
1 T
4411369 GAAATAATAT
Statistics
Matches: 20, Mismatches: 0, Indels: 3
0.87 0.00 0.13
Matches are distributed among these distances:
20 9 0.45
21 5 0.25
22 6 0.30
ACGTcount: A:0.43, C:0.02, G:0.02, T:0.52
Consensus pattern (21 bp):
TAAAAATTTATTCAAATTTTT
Found at i:4412808 original size:164 final size:164
Alignment explanation
Indices: 4412517--4412812 Score: 376
Period size: 164 Copynumber: 1.8 Consensus size: 164
4412507 ATTTTAATCC
* ** * * *
4412517 CTCTATTCAAAATCGTAATAATTTTATTTTTTAATTTTTAAAATTATTTCAATTTAATCCCTCTA
1 CTCTACTCAAAATCACAATAATTTAATCTTTTAATTTTAAAAATTATTTCAATTTAATCCCTCTA
* * * * * ** *
4412582 ATATTTTCTTTTCGAAATTATACTTCACAAAGCTGATGTTGTTGCTAACGTGGCAAGTGAGGTGG
66 ACATTTTCCTTCCAAAATTACACTTCACAAAGCTGACATTATTGCTAACGTGGCAAGTGAGGTGG
4412647 ACCCTGTGCTCATGTATTTTTTTCATTTTAGTTT
131 ACCCTGTGCTCATGTATTTTTTTCATTTTAGTTT
* * *
4412681 CTCTACTCAAAATCACAATAATTTAATCTTTTAGTTTTAAAAATTATTTTAATTTAGTCCCTCTA
1 CTCTACTCAAAATCACAATAATTTAATCTTTTAATTTTAAAAATTATTTCAATTTAATCCCTCTA
* *** * * *
4412746 ACATTTTCCTTCCAAAATTACCCTTCATGGAGCTGACATTATTGCTGATGTGGCATGTGAGGTGG
66 ACATTTTCCTTCCAAAATTACACTTCACAAAGCTGACATTATTGCTAACGTGGCAAGTGAGGTGG
4412811 AC
131 AC
4412813 TAGAAATGCT
Statistics
Matches: 108, Mismatches: 24, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
164 108 1.00
ACGTcount: A:0.28, C:0.17, G:0.12, T:0.43
Consensus pattern (164 bp):
CTCTACTCAAAATCACAATAATTTAATCTTTTAATTTTAAAAATTATTTCAATTTAATCCCTCTA
ACATTTTCCTTCCAAAATTACACTTCACAAAGCTGACATTATTGCTAACGTGGCAAGTGAGGTGG
ACCCTGTGCTCATGTATTTTTTTCATTTTAGTTT
Found at i:4413202 original size:5 final size:5
Alignment explanation
Indices: 4413192--4413239 Score: 55
Period size: 5 Copynumber: 9.8 Consensus size: 5
4413182 ATTTCTTTTA
* *
4413192 TTCTT TTCTT TTCTTT TTCTT TT-TT TTTTT TTCTT TT-TT TTCCT TTCT
1 TTCTT TTCTT TTC-TT TTCTT TTCTT TTCTT TTCTT TTCTT TTCTT TTCT
4413240 CTCGTTTCAC
Statistics
Matches: 37, Mismatches: 3, Indels: 6
0.80 0.07 0.13
Matches are distributed among these distances:
4 8 0.22
5 24 0.65
6 5 0.14
ACGTcount: A:0.00, C:0.17, G:0.00, T:0.83
Consensus pattern (5 bp):
TTCTT
Found at i:4413210 original size:24 final size:23
Alignment explanation
Indices: 4413177--4413237 Score: 68
Period size: 25 Copynumber: 2.6 Consensus size: 23
4413167 ATATATATAG
*
4413177 TTTTTATTTCTTTTATTCTTTTC
1 TTTTTTTTTCTTTTATTCTTTTC
* *
4413200 TTTTCTTTTTCTTTTTTTTTTTTTC
1 TTTT-TTTTTC-TTTTATTCTTTTC
*
4413225 TTTTTTTTCCTTT
1 TTTTTTTTTCTTT
4413238 CTCTCGTTTC
Statistics
Matches: 32, Mismatches: 4, Indels: 4
0.80 0.10 0.10
Matches are distributed among these distances:
23 7 0.22
24 10 0.31
25 15 0.47
ACGTcount: A:0.03, C:0.13, G:0.00, T:0.84
Consensus pattern (23 bp):
TTTTTTTTTCTTTTATTCTTTTC
Found at i:4413222 original size:14 final size:14
Alignment explanation
Indices: 4413187--4413232 Score: 65
Period size: 14 Copynumber: 3.1 Consensus size: 14
4413177 TTTTTATTTC
*
4413187 TTTTATTCTTTTCTT
1 TTTTTTTCTTTT-TT
4413202 TTCTTTTTCTTTTTT
1 TT-TTTTTCTTTTTT
4413217 TTTTTTTCTTTTTT
1 TTTTTTTCTTTTTT
4413231 TT
1 TT
4413233 CCTTTCTCTC
Statistics
Matches: 29, Mismatches: 1, Indels: 3
0.88 0.03 0.09
Matches are distributed among these distances:
14 14 0.48
15 6 0.21
16 9 0.31
ACGTcount: A:0.02, C:0.11, G:0.00, T:0.87
Consensus pattern (14 bp):
TTTTTTTCTTTTTT
Found at i:4413237 original size:10 final size:9
Alignment explanation
Indices: 4413177--4413233 Score: 53
Period size: 9 Copynumber: 6.0 Consensus size: 9
4413167 ATATATATAG
4413177 TTTTTATTTC
1 TTTTT-TTTC
*
4413187 -TTTTATTC
1 TTTTTTTTC
4413195 TTTTCTTTTC
1 TTTT-TTTTC
*
4413205 TTTTTCTTTTT
1 -TTTT-TTTTC
4413216 TTTTTTTTC
1 TTTTTTTTC
4413225 TTTTTTTTC
1 TTTTTTTTC
4413234 CTTTCTCTCG
Statistics
Matches: 40, Mismatches: 4, Indels: 7
0.78 0.08 0.14
Matches are distributed among these distances:
8 3 0.08
9 20 0.50
10 8 0.20
11 9 0.22
ACGTcount: A:0.04, C:0.12, G:0.00, T:0.84
Consensus pattern (9 bp):
TTTTTTTTC
Found at i:4413238 original size:14 final size:14
Alignment explanation
Indices: 4413192--4413239 Score: 60
Period size: 14 Copynumber: 3.3 Consensus size: 14
4413182 ATTTCTTTTA
4413192 TTCTTTTCTTTTCTTT
1 TTCTTTT-TTTTC-TT
*
4413208 TTCTTTTTTTTTTT
1 TTCTTTTTTTTCTT
*
4413222 TTCTTTTTTTTCCT
1 TTCTTTTTTTTCTT
4413236 TTCT
1 TTCT
4413240 CTCGTTTCAC
Statistics
Matches: 29, Mismatches: 3, Indels: 2
0.85 0.09 0.06
Matches are distributed among these distances:
14 18 0.62
15 4 0.14
16 7 0.24
ACGTcount: A:0.00, C:0.17, G:0.00, T:0.83
Consensus pattern (14 bp):
TTCTTTTTTTTCTT
Found at i:4413463 original size:19 final size:20
Alignment explanation
Indices: 4413431--4413484 Score: 62
Period size: 19 Copynumber: 2.9 Consensus size: 20
4413421 TGAGAAGAGA
4413431 GAAG-AAGA-AAAAAAAAAG
1 GAAGAAAGAGAAAAAAAAAG
*
4413449 GAA-AAAGAGAAAAAAAAAT
1 GAAGAAAGAGAAAAAAAAAG
4413468 GAAGAAA-AGAAACAAAA
1 GAAGAAAGAGAAA-AAAA
4413485 GCAATACATA
Statistics
Matches: 31, Mismatches: 1, Indels: 6
0.82 0.03 0.16
Matches are distributed among these distances:
18 7 0.23
19 17 0.55
20 7 0.23
ACGTcount: A:0.78, C:0.02, G:0.19, T:0.02
Consensus pattern (20 bp):
GAAGAAAGAGAAAAAAAAAG
Found at i:4413475 original size:21 final size:20
Alignment explanation
Indices: 4413436--4413477 Score: 57
Period size: 20 Copynumber: 2.0 Consensus size: 20
4413426 AGAGAGAAGA
*
4413436 AGAAAAAAAAAAGGAAAAAG
1 AGAAAAAAAAAAGAAAAAAG
*
4413456 AGAAAAAAAAATGAAGAAAAG
1 AGAAAAAAAAAAGAA-AAAAG
4413477 A
1 A
4413478 AACAAAAGCA
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
20 13 0.68
21 6 0.32
ACGTcount: A:0.79, C:0.00, G:0.19, T:0.02
Consensus pattern (20 bp):
AGAAAAAAAAAAGAAAAAAG
Found at i:4414547 original size:18 final size:18
Alignment explanation
Indices: 4414509--4414547 Score: 51
Period size: 18 Copynumber: 2.2 Consensus size: 18
4414499 ACACGATTAA
*
4414509 TAACACAATTAACACGTT
1 TAACACAATTAACACGAT
* *
4414527 TAACACATTTAACATGAT
1 TAACACAATTAACACGAT
4414545 TAA
1 TAA
4414548 ATAAAAATAT
Statistics
Matches: 18, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
18 18 1.00
ACGTcount: A:0.46, C:0.18, G:0.05, T:0.31
Consensus pattern (18 bp):
TAACACAATTAACACGAT
Found at i:4415147 original size:21 final size:21
Alignment explanation
Indices: 4415075--4415156 Score: 64
Period size: 21 Copynumber: 3.9 Consensus size: 21
4415065 ATATAATATT
* *
4415075 ATATGAAAATTTAATAAAAT-A
1 ATAT-AAAATTAAATCAAATCA
4415096 A-AT-AAATTAACTATCAAATCA
1 ATATAAAATTAA--ATCAAATCA
*
4415117 ATATATAATTAAA-CAAATCTA
1 ATATAAAATTAAATCAAATC-A
*
4415138 GTATAAAATTAAATCAAAT
1 ATATAAAATTAAATCAAAT
4415157 TTACATATGA
Statistics
Matches: 49, Mismatches: 5, Indels: 13
0.73 0.07 0.19
Matches are distributed among these distances:
18 6 0.12
20 14 0.29
21 16 0.33
22 7 0.14
23 6 0.12
ACGTcount: A:0.59, C:0.07, G:0.02, T:0.32
Consensus pattern (21 bp):
ATATAAAATTAAATCAAATCA
Found at i:4416001 original size:10 final size:10
Alignment explanation
Indices: 4415970--4416016 Score: 51
Period size: 10 Copynumber: 4.7 Consensus size: 10
4415960 AATCTGATAT
4415970 AATATTTAAA
1 AATATTTAAA
*
4415980 AATTTTTCAAA
1 AATATTT-AAA
*
4415991 ACTATTTAAA
1 AATATTTAAA
*
4416001 AAAATTT-AA
1 AATATTTAAA
4416010 AATATTT
1 AATATTT
4416017 TATTTTTTTA
Statistics
Matches: 30, Mismatches: 6, Indels: 3
0.77 0.15 0.08
Matches are distributed among these distances:
9 8 0.27
10 14 0.47
11 8 0.27
ACGTcount: A:0.53, C:0.04, G:0.00, T:0.43
Consensus pattern (10 bp):
AATATTTAAA
Found at i:4416432 original size:32 final size:32
Alignment explanation
Indices: 4416371--4416432 Score: 79
Period size: 32 Copynumber: 1.9 Consensus size: 32
4416361 ATATGTTAAT
* * * *
4416371 TATAAAAACTTATTTAATTTAAAATATAAATA
1 TATAAAAACTTAATTAAATAAAAAAATAAATA
*
4416403 TATATAAACTTAATTAAATAAAAAAATAAA
1 TATAAAAACTTAATTAAATAAAAAAATAAA
4416433 AATTTATTTA
Statistics
Matches: 25, Mismatches: 5, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
32 25 1.00
ACGTcount: A:0.61, C:0.03, G:0.00, T:0.35
Consensus pattern (32 bp):
TATAAAAACTTAATTAAATAAAAAAATAAATA
Found at i:4417569 original size:21 final size:19
Alignment explanation
Indices: 4417545--4417587 Score: 50
Period size: 19 Copynumber: 2.2 Consensus size: 19
4417535 TAGATTATGT
4417545 AAATAGAAATTTCAATTAAGA
1 AAATAGAAA--TCAATTAAGA
**
4417566 AAATATTAATCAATTAAGA
1 AAATAGAAATCAATTAAGA
4417585 AAA
1 AAA
4417588 AATTTCTTAA
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
19 13 0.65
21 7 0.35
ACGTcount: A:0.60, C:0.05, G:0.07, T:0.28
Consensus pattern (19 bp):
AAATAGAAATCAATTAAGA
Found at i:4420224 original size:5 final size:6
Alignment explanation
Indices: 4420209--4420233 Score: 50
Period size: 6 Copynumber: 4.2 Consensus size: 6
4420199 TTAGAAAGAT
4420209 AAAAAG AAAAAG AAAAAG AAAAAG A
1 AAAAAG AAAAAG AAAAAG AAAAAG A
4420234 GAATGTTTGC
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 19 1.00
ACGTcount: A:0.84, C:0.00, G:0.16, T:0.00
Consensus pattern (6 bp):
AAAAAG
Found at i:4442672 original size:90 final size:89
Alignment explanation
Indices: 4442568--4442979 Score: 263
Period size: 90 Copynumber: 4.6 Consensus size: 89
4442558 TGCAAGTCAA
* * *
4442568 AAAAGCGGCATGAAACCACAGGATGAAAATGTTTCTTTAGGCCACAATAGCAGCAGGAAATCAAC
1 AAAAGCAGCCTGAAACCACAGGATGAAAATGTTTCTTTAGGCCATAATAGCAGCAGGAAATCAAC
*
4442633 TAACGGAAGTGTTTCTGTGAGT-G
66 TAACGGAAGTGTTTCTCTGAGTCG
* * * * * *
4442656 ACAAGAGCAGCTTGAAATCACAGGATGAAAATGATTCTTTAGACCATAATAGTAGCAGGAAATTA
1 A-AA-AGCAGCCTGAAACCACAGGATGAAAATGTTTCTTTAGGCCATAATAGCAGCAGGAAATCA
* * *
4442721 ATTGATGGAAGTGTTTCTCTGAGTCGG
64 ACTAACGGAAGTGTTTCTCTGAGTC-G
* * * * * * * **
4442748 AAAAGTAGCCGGAAATCCA-AGGACGGAAATGTTTCTTTACGCCGTAATAGCAGCAGAAAATCGC
1 AAAAGCAGCCTGAAA-CCACAGGATGAAAATGTTTCTTTAGGCCATAATAGCAGCAGGAAATCAA
* * *
4442812 CTGAAGGGAA-TGCTTCTTTGAGTCG
65 CT-AACGGAAGTGTTTCTCTGAGTCG
* ** * * * * * ** * * *
4442837 CAAGAGCAGCAGGAGATCACAGGAAGAAAGTGTTTCCTTACACCATAATAGCAGCAAGAATTCAG
1 -AAAAGCAGCCTGAAACCACAGGATGAAAATGTTTCTTTAGGCCATAATAGCAGCAGGAAATCAA
* * * * *
4442902 CTGATGCAAGTGTTTCTTTAAGTCGG
65 CTAACGGAAGTGTTTCTCTGAGTC-G
* *** * * * * **
4442928 AAGAGCAGTAGGAAATCACAGCATGGAAACGTTTCTTTACACCATAATAGCA
1 AAAAGCAGCCTGAAACCACAGGATGAAAATGTTTCTTTAGGCCATAATAGCA
4442980 CCAAGGGCTC
Statistics
Matches: 253, Mismatches: 61, Indels: 18
0.76 0.18 0.05
Matches are distributed among these distances:
88 1 0.00
89 9 0.04
90 231 0.91
91 10 0.04
92 2 0.01
ACGTcount: A:0.35, C:0.17, G:0.24, T:0.23
Consensus pattern (89 bp):
AAAAGCAGCCTGAAACCACAGGATGAAAATGTTTCTTTAGGCCATAATAGCAGCAGGAAATCAAC
TAACGGAAGTGTTTCTCTGAGTCG
Found at i:4442800 original size:180 final size:180
Alignment explanation
Indices: 4442594--4442979 Score: 420
Period size: 180 Copynumber: 2.1 Consensus size: 180
4442584 CACAGGATGA
* * * *
4442594 AAATGTTTCTTTAGGCCACAATAGCAGCAGGAAATCAACT-AACGGAAGTGTTTCTGTGAGT-GA
1 AAATGTTTCTTTACGCCATAATAGCAGCAGAAAATCAACTGAACGGAA-TGCTTCTGTGAGTCG-
** * * * * *
4442657 CAAGAGCAGCTTGAAATCACAGGATGAAAATGATTCTTTAGACCATAATAGTAGCAGGAAATT-A
64 CAAGAGCAGCAGGAAATCACAGGAAGAAAATGATTCCTTACACCATAATAGCAGCAAG-AATTCA
* * * * * *
4442721 ATTGATGGAAGTGTTTCTCTGAGTCGGAAAAGTAGCCGGAAATC-CAAGGACGG
128 ACTGATGCAAGTGTTTCTCTAAGTCGGAAAAGCAGCAGGAAATCAC-AGCACGG
* ** * *
4442774 AAATGTTTCTTTACGCCGTAATAGCAGCAGAAAATCGCCTGAAGGGAATGCTTCTTTGAGTCGCA
1 AAATGTTTCTTTACGCCATAATAGCAGCAGAAAATCAACTGAACGGAATGCTTCTGTGAGTCGCA
* * * *
4442839 AGAGCAGCAGGAGATCACAGGAAGAAAGTGTTTCCTTACACCATAATAGCAGCAAGAATTCAGCT
66 AGAGCAGCAGGAAATCACAGGAAGAAAATGATTCCTTACACCATAATAGCAGCAAGAATTCAACT
* * * *
4442904 GATGCAAGTGTTTCTTTAAGTCGGAAGAGCAGTAGGAAATCACAGCATGG
131 GATGCAAGTGTTTCTCTAAGTCGGAAAAGCAGCAGGAAATCACAGCACGG
* *
4442954 AAACGTTTCTTTACACCATAATAGCA
1 AAATGTTTCTTTACGCCATAATAGCA
4442980 CCAAGGGCTC
Statistics
Matches: 169, Mismatches: 33, Indels: 8
0.80 0.16 0.04
Matches are distributed among these distances:
179 4 0.02
180 157 0.93
181 8 0.05
ACGTcount: A:0.35, C:0.17, G:0.24, T:0.24
Consensus pattern (180 bp):
AAATGTTTCTTTACGCCATAATAGCAGCAGAAAATCAACTGAACGGAATGCTTCTGTGAGTCGCA
AGAGCAGCAGGAAATCACAGGAAGAAAATGATTCCTTACACCATAATAGCAGCAAGAATTCAACT
GATGCAAGTGTTTCTCTAAGTCGGAAAAGCAGCAGGAAATCACAGCACGG
Found at i:4451099 original size:31 final size:29
Alignment explanation
Indices: 4451041--4451107 Score: 82
Period size: 30 Copynumber: 2.2 Consensus size: 29
4451031 TTAACTGATG
4451041 AAAATTTATTAATTTAAAATAAAAAATATA
1 AAAATTTATTAATTTAAAATAAAAAATA-A
*
4451071 AAAATTTATTAGTATTTAATA-AAAAAATAA
1 AAAATTTATTA--ATTTAAAATAAAAAATAA
*
4451101 AATATTT
1 AAAATTT
4451108 TAAATTTTTT
Statistics
Matches: 33, Mismatches: 2, Indels: 4
0.85 0.05 0.10
Matches are distributed among these distances:
30 18 0.55
31 8 0.24
32 7 0.21
ACGTcount: A:0.60, C:0.00, G:0.01, T:0.39
Consensus pattern (29 bp):
AAAATTTATTAATTTAAAATAAAAAATAA
Found at i:4451128 original size:10 final size:10
Alignment explanation
Indices: 4451100--4451146 Score: 51
Period size: 10 Copynumber: 4.7 Consensus size: 10
4451090 TAAAAAAATA
4451100 AAATA-TTTT
1 AAATATTTTT
*
4451109 AAATTTTTTT
1 AAATATTTTT
*
4451119 AAATAGTTTTG
1 AAATA-TTTTT
*
4451130 AAAAATTTTT
1 AAATATTTTT
4451140 AAATATT
1 AAATATT
4451147 ATATCAGATT
Statistics
Matches: 30, Mismatches: 6, Indels: 3
0.77 0.15 0.08
Matches are distributed among these distances:
9 4 0.13
10 18 0.60
11 8 0.27
ACGTcount: A:0.43, C:0.00, G:0.04, T:0.53
Consensus pattern (10 bp):
AAATATTTTT
Found at i:4451988 original size:21 final size:21
Alignment explanation
Indices: 4451957--4452005 Score: 64
Period size: 21 Copynumber: 2.3 Consensus size: 21
4451947 TCATATGTAA
*
4451957 ATTTGATTTAATTTTATACTAG
1 ATTTGATTTAATTATATA-TAG
*
4451979 ATTTG-TTTAATTATATATTG
1 ATTTGATTTAATTATATATAG
4451999 ATTTGAT
1 ATTTGAT
4452006 AGTTAATTTA
Statistics
Matches: 24, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
20 7 0.29
21 12 0.50
22 5 0.21
ACGTcount: A:0.31, C:0.02, G:0.10, T:0.57
Consensus pattern (21 bp):
ATTTGATTTAATTATATATAG
Found at i:4453092 original size:31 final size:31
Alignment explanation
Indices: 4453057--4453120 Score: 119
Period size: 31 Copynumber: 2.1 Consensus size: 31
4453047 TTTTTTGTTG
*
4453057 CAAATGAGCCGTAATGGAACTTACTAGAATA
1 CAAATGAGCCGTAATAGAACTTACTAGAATA
4453088 CAAATGAGCCGTAATAGAACTTACTAGAATA
1 CAAATGAGCCGTAATAGAACTTACTAGAATA
4453119 CA
1 CA
4453121 TGTACAAGTA
Statistics
Matches: 32, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
31 32 1.00
ACGTcount: A:0.44, C:0.17, G:0.17, T:0.22
Consensus pattern (31 bp):
CAAATGAGCCGTAATAGAACTTACTAGAATA
Found at i:4459961 original size:356 final size:357
Alignment explanation
Indices: 4459266--4459968 Score: 929
Period size: 357 Copynumber: 2.0 Consensus size: 357
4459256 CTAAAAATGT
* * *
4459266 TGCCATCTGACTAGCACCTACCAGGGCAGTCTACCAACCTGATTGATGGTGACATGCTTGATATG
1 TGCCATCTGACTAGCACCCACCAGGGCAGTCTACCAACCTGATTCA-GGTGACATGCTCGATATG
* * * *
4459331 TCTTCCTCTGTCTGAAGTCCATAAATTGACTACTTGTCACTGCTTAGGAACTTAATTCGTTTGGG
65 TCTGCCTCTGTCTGAAGTCCAGAAATTGAATACTTATCACTGCTTAGGAACTTAATTCGTTTGGG
*
4459396 TGGTTCAATTTAACTTATATCACCTAAATAGTTTGTTCTTAATAACTTTTCTTTAATTTTGCTTT
130 TGGTTCAATTTAACTTATATCACCTAAATAGTTTGTTCTTAATAACTTTTCTTTAATTTTGCTCT
* * * * * *
4459461 TGATAATCTGAAGTATACCAGAAGAGCATGTTCTACTGCTCTAAATTGTTTGGAGATGAGACTTC
195 CGATAATCTGAAATATACCAGAACAGCATGTTCTACAGCTCTAAATGGTTGGGAGATGAGACTTC
** * *
4459526 TTCTCTCTCCCCCTACTTTCTTCTCGTTGTTCTTAGTTGACTATGCTTTGTCCCTTTTTCTCTTT
260 TTCTCTCTCCCCCTACTTTCTTCTCGTTGTTCTTAGTTGACTACACTTTGTCCCATTTTCTATTT
**
4459591 GGTTTTTCTGTCAACTCCATACGGTTGACAGAC
325 CATTTTTCTGTCAACTCCATACGGTTGACAGAC
* * * *
4459624 TGCCATTTGACTAGCACCCGCCAGGGCTGTCTACCACCCTGATTCA-GTGACATGCTCGATATGT
1 TGCCATCTGACTAGCACCCACCAGGGCAGTCTACCAACCTGATTCAGGTGACATGCTCGATATGT
* *
4459688 CTGCCTCTGTCTTG-AGTTCCAGAAATTGAATAACTTATCACTGCTTAGGAATTTAATT-GTTTT
66 CTGCCTCTGTC-TGAAG-TCCAGAAATTGAAT-ACTTATCACTGCTTAGGAACTTAATTCGTTTG
* * * *
4459751 GGTGG-TCTGATTTAGCTTATATCACCTAAGTAGTTTGTTCTTAATCA-TTTCTCTTTAATTTTG
128 GGTGGTTC-AATTTAACTTATATCACCTAAATAGTTTGTTCTTAATAACTTT-TCTTTAATTTTG
* * *
4459814 CTCTCGATAAGT-TGAAATATACTAGAACAGCTTGTTCTGCAGCTCTAAATGGTTGGGAGATGAG
191 CTCTCGATAA-TCTGAAATATACCAGAACAGCATGTTCTACAGCTCTAAATGGTTGGGAGATGAG
* **
4459878 ACTT-TTCT-TCTCTTCCCTACTTTCTTCTTC-TTGTTCTTAGTTGACTACACTTTGTGTCATTT
255 ACTTCTTCTCTCTC-CCCCTACTTTCTTC-TCGTTGTTCTTAGTTGACTACACTTTGTCCCATTT
*
4459940 TCTATTTCATTTTTCTGTCAACTTCATAC
318 TCTATTTCATTTTTCTGTCAACTCCATAC
4459969 AGTTACCTTT
Statistics
Matches: 300, Mismatches: 37, Indels: 18
0.85 0.10 0.05
Matches are distributed among these distances:
355 4 0.01
356 103 0.34
357 128 0.43
358 65 0.22
ACGTcount: A:0.22, C:0.21, G:0.16, T:0.41
Consensus pattern (357 bp):
TGCCATCTGACTAGCACCCACCAGGGCAGTCTACCAACCTGATTCAGGTGACATGCTCGATATGT
CTGCCTCTGTCTGAAGTCCAGAAATTGAATACTTATCACTGCTTAGGAACTTAATTCGTTTGGGT
GGTTCAATTTAACTTATATCACCTAAATAGTTTGTTCTTAATAACTTTTCTTTAATTTTGCTCTC
GATAATCTGAAATATACCAGAACAGCATGTTCTACAGCTCTAAATGGTTGGGAGATGAGACTTCT
TCTCTCTCCCCCTACTTTCTTCTCGTTGTTCTTAGTTGACTACACTTTGTCCCATTTTCTATTTC
ATTTTTCTGTCAACTCCATACGGTTGACAGAC
Found at i:4468228 original size:57 final size:57
Alignment explanation
Indices: 4468159--4468271 Score: 199
Period size: 57 Copynumber: 2.0 Consensus size: 57
4468149 GTAGTTGGAT
*
4468159 CACCAATAAACAATTACGCAAAGGAAGAAACCTTTAACTTTCCATACATTTTCCAGG
1 CACCAATAAACAATCACGCAAAGGAAGAAACCTTTAACTTTCCATACATTTTCCAGG
* *
4468216 CACCAATAAACAATCACGCAGAGGAAGAAACCTTTTACTTTCCATACATTTTCCAG
1 CACCAATAAACAATCACGCAAAGGAAGAAACCTTTAACTTTCCATACATTTTCCAG
4468272 CCTGGACAAA
Statistics
Matches: 53, Mismatches: 3, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
57 53 1.00
ACGTcount: A:0.39, C:0.26, G:0.11, T:0.25
Consensus pattern (57 bp):
CACCAATAAACAATCACGCAAAGGAAGAAACCTTTAACTTTCCATACATTTTCCAGG
Found at i:4469188 original size:22 final size:23
Alignment explanation
Indices: 4469163--4469206 Score: 63
Period size: 22 Copynumber: 2.0 Consensus size: 23
4469153 TTACCAAATT
4469163 TTAATTATATATAAT-TATAATA
1 TTAATTATATATAATATATAATA
* *
4469185 TTAATTATTTTTAATATATAAT
1 TTAATTATATATAATATATAAT
4469207 TATCTTTCAT
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
22 13 0.68
23 6 0.32
ACGTcount: A:0.45, C:0.00, G:0.00, T:0.55
Consensus pattern (23 bp):
TTAATTATATATAATATATAATA
Found at i:4469208 original size:17 final size:17
Alignment explanation
Indices: 4469180--4469231 Score: 61
Period size: 17 Copynumber: 3.1 Consensus size: 17
4469170 TATATAATTA
4469180 TAATAT-TAATTATTTT
1 TAATATATAATTATTTT
*
4469196 TAATATATAATTATCTT
1 TAATATATAATTATTTT
* * *
4469213 TCATTTATAATTGTTTT
1 TAATATATAATTATTTT
4469230 TA
1 TA
4469232 TACTTAAGCA
Statistics
Matches: 29, Mismatches: 6, Indels: 1
0.81 0.17 0.03
Matches are distributed among these distances:
16 6 0.21
17 23 0.79
ACGTcount: A:0.35, C:0.04, G:0.02, T:0.60
Consensus pattern (17 bp):
TAATATATAATTATTTT
Found at i:4470834 original size:35 final size:34
Alignment explanation
Indices: 4470794--4470870 Score: 93
Period size: 35 Copynumber: 2.2 Consensus size: 34
4470784 ATAAAGTTTA
* *
4470794 AATTTAAATAA-TCAAAAACAAATATCTTAAATATC
1 AATTTAAATAACT-AAAAACAAATAT-TCAAATAAC
*
4470829 AATTTAAATAACTAAAAATAAATATTCAAATAAC
1 AATTTAAATAACTAAAAACAAATATTCAAATAAC
*
4470863 AACTTAAA
1 AATTTAAA
4470871 CAACATTATA
Statistics
Matches: 37, Mismatches: 4, Indels: 3
0.84 0.09 0.07
Matches are distributed among these distances:
34 14 0.38
35 22 0.59
36 1 0.03
ACGTcount: A:0.60, C:0.10, G:0.00, T:0.30
Consensus pattern (34 bp):
AATTTAAATAACTAAAAACAAATATTCAAATAAC
Found at i:4472228 original size:16 final size:16
Alignment explanation
Indices: 4472207--4472241 Score: 52
Period size: 16 Copynumber: 2.2 Consensus size: 16
4472197 CACTTATTCA
4472207 TTTAATAAAATAAAAT
1 TTTAATAAAATAAAAT
* *
4472223 TTTAATAAATTAATAT
1 TTTAATAAAATAAAAT
4472239 TTT
1 TTT
4472242 TATTTAATTA
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
16 17 1.00
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (16 bp):
TTTAATAAAATAAAAT
Found at i:4497222 original size:24 final size:24
Alignment explanation
Indices: 4497195--4497246 Score: 68
Period size: 24 Copynumber: 2.2 Consensus size: 24
4497185 AAGTGAATTT
* *
4497195 ATTTCATTTAATACATGTTTTTTA
1 ATTTCATTTAACACATGCTTTTTA
* *
4497219 ATTTCATTTTACATATGCTTTTTA
1 ATTTCATTTAACACATGCTTTTTA
4497243 ATTT
1 ATTT
4497247 ATTATTTATT
Statistics
Matches: 24, Mismatches: 4, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
24 24 1.00
ACGTcount: A:0.27, C:0.10, G:0.04, T:0.60
Consensus pattern (24 bp):
ATTTCATTTAACACATGCTTTTTA
Found at i:4517347 original size:24 final size:24
Alignment explanation
Indices: 4517320--4517465 Score: 89
Period size: 24 Copynumber: 6.1 Consensus size: 24
4517310 CCTTCATTAT
4517320 CAAGACTCTTTTGACCTTGATTGC
1 CAAGACTCTTTTGACCTTGATTGC
* * ** *
4517344 CAAGAGTGTTAAGACCTTGATTTC
1 CAAGACTCTTTTGACCTTGATTGC
* * *
4517368 TAGGACTC-TTTGACCCTTGATTGT
1 CAAGACTCTTTTGA-CCTTGATTGC
* * * *
4517392 CAAAAGT-GTTTGACTCTTGATTCC
1 CAAGACTCTTTTGAC-CTTGATTGC
* *
4517416 CAAGACTCTTTGGACCTTGATTAC
1 CAAGACTCTTTTGACCTTGATTGC
* * * * *
4517440 CATGAGTATTTTGGCTTTGATTGC
1 CAAGACTCTTTTGACCTTGATTGC
4517464 CA
1 CA
4517466 GAACTATTTT
Statistics
Matches: 87, Mismatches: 31, Indels: 8
0.69 0.25 0.06
Matches are distributed among these distances:
23 4 0.05
24 78 0.90
25 5 0.06
ACGTcount: A:0.23, C:0.21, G:0.19, T:0.38
Consensus pattern (24 bp):
CAAGACTCTTTTGACCTTGATTGC
Found at i:4517351 original size:48 final size:46
Alignment explanation
Indices: 4517299--4517446 Score: 136
Period size: 48 Copynumber: 3.1 Consensus size: 46
4517289 TCATTTTTAG
* *
4517299 GAGTGTTTCGGCCTTCATTATCAAGACTCTTTTGACCTTGATTGCCAA
1 GAGTGTTT-GACCTTGATT-TCAAGACTCTTTTGACCTTGATTGCCAA
* * *
4517347 GAGTGTTAAGACCTTGATTTCTAGGACTC-TTTGACCCTTGATTGTCAA
1 GAGTGTT-TGACCTTGATTTC-AAGACTCTTTTGA-CCTTGATTGCCAA
* * * * *
4517395 AAGTGTTTGACTCTTGATTCCCAAGACTCTTTGGACCTTGATTACCAT
1 GAGTGTTTGAC-CTTGATT-TCAAGACTCTTTTGACCTTGATTGCCAA
4517443 GAGT
1 GAGT
4517447 ATTTTGGCTT
Statistics
Matches: 80, Mismatches: 14, Indels: 12
0.75 0.13 0.11
Matches are distributed among these distances:
47 10 0.12
48 65 0.81
49 5 0.06
ACGTcount: A:0.22, C:0.21, G:0.20, T:0.37
Consensus pattern (46 bp):
GAGTGTTTGACCTTGATTTCAAGACTCTTTTGACCTTGATTGCCAA
Found at i:4517716 original size:18 final size:18
Alignment explanation
Indices: 4517693--4517727 Score: 52
Period size: 18 Copynumber: 1.9 Consensus size: 18
4517683 TGGTATTCAG
4517693 AAAGAAAAAAATAAAATC
1 AAAGAAAAAAATAAAATC
* *
4517711 AAAGAAACAAATTAAAT
1 AAAGAAAAAAATAAAAT
4517728 ACCTTATTAG
Statistics
Matches: 15, Mismatches: 2, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
18 15 1.00
ACGTcount: A:0.74, C:0.06, G:0.06, T:0.14
Consensus pattern (18 bp):
AAAGAAAAAAATAAAATC
Found at i:4518412 original size:24 final size:24
Alignment explanation
Indices: 4518367--4518430 Score: 67
Period size: 24 Copynumber: 2.7 Consensus size: 24
4518357 TTGCCAAAAC
*
4518367 TGTTTGGGCCTTGATTCCCAGGAGT
1 TGTTTGGACCTTGATTCCCAGGA-T
**
4518392 T-TTTGGACCTTGATTGTCAGGAT
1 TGTTTGGACCTTGATTCCCAGGAT
* *
4518415 TGTTTTGACTTTGATT
1 TGTTTGGACCTTGATT
4518431 TCCTTGTCCT
Statistics
Matches: 33, Mismatches: 5, Indels: 3
0.80 0.12 0.07
Matches are distributed among these distances:
23 2 0.06
24 30 0.91
25 1 0.03
ACGTcount: A:0.14, C:0.14, G:0.27, T:0.45
Consensus pattern (24 bp):
TGTTTGGACCTTGATTCCCAGGAT
Found at i:4527253 original size:48 final size:48
Alignment explanation
Indices: 4527189--4527350 Score: 139
Period size: 48 Copynumber: 3.4 Consensus size: 48
4527179 TGTTTCGATA
* * * *
4527189 TTGATTCCCAGTACTCTTTTGGTCTTCATTGCCGAGAGTGTTTAGGCC
1 TTGATTCTCAGGACTCTTTTGGTCTTGATTGCCGAGAATGTTTAGGCC
* * * * ** * *
4527237 TTGATTTTCAGGACTCTCTGGGTCATGATTGAAGGGAATGTCTAGGCC
1 TTGATTCTCAGGACTCTTTTGGTCTTGATTGCCGAGAATGTTTAGGCC
** * * *
4527285 TTGATTCTCAAAACTC-TTTGGACTTTGATTGCC-AGTACTGTTTGGGCC
1 TTGATTCTCAGGACTCTTTTGGTC-TTGATTGCCGAG-AATGTTTAGGCC
4527333 TTGATTCTCAGGACTCTT
1 TTGATTCTCAGGACTCTT
4527351 AGGGCTTGGA
Statistics
Matches: 84, Mismatches: 27, Indels: 5
0.72 0.23 0.04
Matches are distributed among these distances:
47 5 0.06
48 78 0.93
49 1 0.01
ACGTcount: A:0.18, C:0.20, G:0.23, T:0.38
Consensus pattern (48 bp):
TTGATTCTCAGGACTCTTTTGGTCTTGATTGCCGAGAATGTTTAGGCC
Found at i:4527355 original size:24 final size:24
Alignment explanation
Indices: 4527281--4527355 Score: 71
Period size: 24 Copynumber: 3.1 Consensus size: 24
4527271 GGAATGTCTA
*
4527281 GGCCTTGATTCTCAAAACTCTTTG
1 GGCCTTGATTCTCAGAACTCTTTG
* * * *
4527305 GACTTTGATTGC-CAGTACTGTTTG
1 GGCCTTGATT-CTCAGAACTCTTTG
* *
4527329 GGCCTTGATTCTCAGGACTCTTAG
1 GGCCTTGATTCTCAGAACTCTTTG
4527353 GGC
1 GGC
4527356 TTGGACTATC
Statistics
Matches: 39, Mismatches: 10, Indels: 4
0.74 0.19 0.08
Matches are distributed among these distances:
23 1 0.03
24 37 0.95
25 1 0.03
ACGTcount: A:0.17, C:0.23, G:0.24, T:0.36
Consensus pattern (24 bp):
GGCCTTGATTCTCAGAACTCTTTG
Found at i:4527426 original size:25 final size:25
Alignment explanation
Indices: 4527365--4527424 Score: 88
Period size: 24 Copynumber: 2.5 Consensus size: 25
4527355 CTTGGACTAT
*
4527365 CAAGAGTG-TTTGGGTCTTGATTAC
1 CAAGACTGTTTTGGGTCTTGATTAC
*
4527389 CAAGACTGTTTTGGGT-TTGATTGC
1 CAAGACTGTTTTGGGTCTTGATTAC
4527413 CAAGACTGTTTT
1 CAAGACTGTTTT
4527425 TGCCTTGATC
Statistics
Matches: 33, Mismatches: 2, Indels: 2
0.89 0.05 0.05
Matches are distributed among these distances:
24 26 0.79
25 7 0.21
ACGTcount: A:0.20, C:0.13, G:0.27, T:0.40
Consensus pattern (25 bp):
CAAGACTGTTTTGGGTCTTGATTAC
Found at i:4527432 original size:24 final size:24
Alignment explanation
Indices: 4527365--4527433 Score: 75
Period size: 24 Copynumber: 2.9 Consensus size: 24
4527355 CTTGGACTAT
* * *
4527365 CAAGAGTGTTTGGGTCTTGATTAC
1 CAAGACTGTTTTGGCCTTGATTAC
** *
4527389 CAAGACTGTTTTGGGTTTGATTGC
1 CAAGACTGTTTTGGCCTTGATTAC
*
4527413 CAAGACTGTTTTTGCCTTGAT
1 CAAGACTGTTTTGGCCTTGAT
4527434 CGCCTTGCCT
Statistics
Matches: 37, Mismatches: 8, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
24 37 1.00
ACGTcount: A:0.19, C:0.14, G:0.26, T:0.41
Consensus pattern (24 bp):
CAAGACTGTTTTGGCCTTGATTAC
Found at i:4528530 original size:24 final size:24
Alignment explanation
Indices: 4528466--4528548 Score: 69
Period size: 24 Copynumber: 3.5 Consensus size: 24
4528456 GCTTTTTAAG
* * * *
4528466 CCTTCATTGCCAGGAGTGTTTGGG
1 CCTTGATTGCCAGGACTGTTTCGA
* *
4528490 TCTTGATTGGTCA-GACTGTTTCGA
1 CCTTGATT-GCCAGGACTGTTTCGA
* *
4528514 CCTTGATTGCCAGGACTTTTTTGA
1 CCTTGATTGCCAGGACTGTTTCGA
*
4528538 CCTTGACTGCC
1 CCTTGATTGCC
4528549 TTGTCCTAGC
Statistics
Matches: 46, Mismatches: 11, Indels: 4
0.75 0.18 0.07
Matches are distributed among these distances:
23 3 0.07
24 40 0.87
25 3 0.07
ACGTcount: A:0.14, C:0.23, G:0.25, T:0.37
Consensus pattern (24 bp):
CCTTGATTGCCAGGACTGTTTCGA
Found at i:4529367 original size:2 final size:2
Alignment explanation
Indices: 4529360--4529387 Score: 56
Period size: 2 Copynumber: 14.0 Consensus size: 2
4529350 TTAGAAGATA
4529360 AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT
4529388 GGAGAGAAAG
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 26 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:4531249 original size:21 final size:21
Alignment explanation
Indices: 4531223--4531266 Score: 70
Period size: 21 Copynumber: 2.1 Consensus size: 21
4531213 TTTCTTGCTA
*
4531223 ACCTTTCAAGAGATAAAGACG
1 ACCTTTCAAGAGACAAAGACG
*
4531244 ACCTTTTAAGAGACAAAGACG
1 ACCTTTCAAGAGACAAAGACG
4531265 AC
1 AC
4531267 GCTACCACCC
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:0.43, C:0.20, G:0.18, T:0.18
Consensus pattern (21 bp):
ACCTTTCAAGAGACAAAGACG
Found at i:4535025 original size:26 final size:26
Alignment explanation
Indices: 4534996--4535048 Score: 106
Period size: 26 Copynumber: 2.0 Consensus size: 26
4534986 AATCAAAATA
4534996 ACTACCAAAATAAACATCAAAGTTTT
1 ACTACCAAAATAAACATCAAAGTTTT
4535022 ACTACCAAAATAAACATCAAAGTTTT
1 ACTACCAAAATAAACATCAAAGTTTT
4535048 A
1 A
4535049 ACATACTCCA
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
26 27 1.00
ACGTcount: A:0.51, C:0.19, G:0.04, T:0.26
Consensus pattern (26 bp):
ACTACCAAAATAAACATCAAAGTTTT
Found at i:4535960 original size:24 final size:24
Alignment explanation
Indices: 4535933--4536011 Score: 70
Period size: 24 Copynumber: 3.3 Consensus size: 24
4535923 GTGCTTCGAC
4535933 CTTGATTTCCAGGACTCTTTTGGT
1 CTTGATTTCCAGGACTCTTTTGGT
* ** * * *
4535957 CTTGATTGCCTTGAGTGTGTTGGT
1 CTTGATTTCCAGGACTCTTTTGGT
* *
4535981 CTTGAATTT-CAGGATTCTTTGGGT
1 CTTG-ATTTCCAGGACTCTTTTGGT
4536005 CTTGATT
1 CTTGATT
4536012 GTTGAGAGTG
Statistics
Matches: 41, Mismatches: 13, Indels: 3
0.72 0.23 0.05
Matches are distributed among these distances:
23 3 0.07
24 35 0.85
25 3 0.07
ACGTcount: A:0.13, C:0.15, G:0.25, T:0.47
Consensus pattern (24 bp):
CTTGATTTCCAGGACTCTTTTGGT
Found at i:4536048 original size:48 final size:48
Alignment explanation
Indices: 4535933--4536156 Score: 154
Period size: 48 Copynumber: 4.7 Consensus size: 48
4535923 GTGCTTCGAC
* * * **
4535933 CTTGATT-TCCAGGACTCTTTTGGTCTTGATTGCCTTGAGTGTGTT-GGT
1 CTTGATTCT-CAGAACTCTTTGGGTCTTGATTGTCGAGAGTGT-TTAGGT
* * *
4535981 CTTGAATT-TCAGGATTCTTTGGGTCTTGATTGTTGAGAGTGTTTAGGT
1 CTTG-ATTCTCAGAACTCTTTGGGTCTTGATTGTCGAGAGTGTTTAGGT
* * * **
4536029 CTTGATTCTCAAAACTCTTTGGG-CTTTGATTG-CCAG-GATCGCTTAGAA
1 CTTGATTCTCAGAACTCTTTGGGTC-TTGATTGTCGAGAG-T-GTTTAGGT
* * * * * *
4536077 CTTGATTCTCAGGACTCTTTGAGTCTGGATTATCAAGAGTGTTTGGGT
1 CTTGATTCTCAGAACTCTTTGGGTCTTGATTGTCGAGAGTGTTTAGGT
* * *
4536125 CTTGATTATCAGAACTGTTTCGGTCTTGATTG
1 CTTGATTCTCAGAACTCTTTGGGTCTTGATTG
4536157 GCAAGACTAT
Statistics
Matches: 136, Mismatches: 31, Indels: 18
0.74 0.17 0.10
Matches are distributed among these distances:
46 1 0.01
47 9 0.07
48 116 0.85
49 9 0.07
50 1 0.01
ACGTcount: A:0.17, C:0.15, G:0.25, T:0.42
Consensus pattern (48 bp):
CTTGATTCTCAGAACTCTTTGGGTCTTGATTGTCGAGAGTGTTTAGGT
Found at i:4536143 original size:24 final size:24
Alignment explanation
Indices: 4536077--4536155 Score: 79
Period size: 24 Copynumber: 3.3 Consensus size: 24
4536067 TCGCTTAGAA
* * * *
4536077 CTTGATTCTCAGGACTCTTTGAGT
1 CTTGATTATCAGAACTGTTTGGGT
* *
4536101 CTGGATTATCA-AGAGTGTTTGGGT
1 CTTGATTATCAGA-ACTGTTTGGGT
*
4536125 CTTGATTATCAGAACTGTTTCGGT
1 CTTGATTATCAGAACTGTTTGGGT
4536149 CTTGATT
1 CTTGATT
4536156 GGCAAGACTA
Statistics
Matches: 44, Mismatches: 9, Indels: 4
0.77 0.16 0.07
Matches are distributed among these distances:
24 43 0.98
25 1 0.02
ACGTcount: A:0.19, C:0.15, G:0.24, T:0.42
Consensus pattern (24 bp):
CTTGATTATCAGAACTGTTTGGGT
Found at i:4538050 original size:2 final size:2
Alignment explanation
Indices: 4538043--4538080 Score: 76
Period size: 2 Copynumber: 19.0 Consensus size: 2
4538033 TTCAAAGATA
4538043 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
4538081 GGAGAGAAAA
Statistics
Matches: 36, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 36 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:4553948 original size:24 final size:24
Alignment explanation
Indices: 4553913--4554000 Score: 104
Period size: 24 Copynumber: 3.7 Consensus size: 24
4553903 GAAACGCTAT
*
4553913 TGTTTCGGCCTTCATTGCCAAGAG
1 TGTTTCGGCCTTGATTGCCAAGAG
* * * *
4553937 TGTTTCGACCTTGATTTCCAGGAC
1 TGTTTCGGCCTTGATTGCCAAGAG
* * *
4553961 TGTTTTGGGCTTGATTGCCGAGAG
1 TGTTTCGGCCTTGATTGCCAAGAG
4553985 TGTTTCGGCCTTGATT
1 TGTTTCGGCCTTGATT
4554001 CTCAAGATTC
Statistics
Matches: 50, Mismatches: 14, Indels: 0
0.78 0.22 0.00
Matches are distributed among these distances:
24 50 1.00
ACGTcount: A:0.14, C:0.20, G:0.27, T:0.39
Consensus pattern (24 bp):
TGTTTCGGCCTTGATTGCCAAGAG
Found at i:4554022 original size:48 final size:47
Alignment explanation
Indices: 4553926--4554112 Score: 155
Period size: 48 Copynumber: 3.9 Consensus size: 47
4553916 TTCGGCCTTC
* * * *
4553926 ATTGCCAAGAGTGTTTCGACCTTGATT-TCCAGGACTGTTTTGGGCTTG
1 ATTGCCGAGAGTGTTTCGGCCTTGATTCT-CAAGACT-CTTTGGGCTTG
*
4553974 ATTGCCGAGAGTGTTTCGGCCTTGATTCTCAAGATTCTTTGGGTCTTG
1 ATTGCCGAGAGTGTTTCGGCCTTGATTCTCAAGACTCTTTGGG-CTTG
** * * * * *
4554022 ATTGTAGGGAGTGTATAGGCCTTGATTCTCAAAACTCATTGGGCTTTG
1 ATTGCCGAGAGTGTTTCGGCCTTGATTCTCAAGACTCTTTGGGC-TTG
* * **
4554070 ATTGCC-AGGATTGTTT-GGAACTTGATTCTCCGGACTCTTTGGG
1 ATTGCCGA-GAGTGTTTCGG-CCTTGATTCTCAAGACTCTTTGGG
4554113 TCTAGATTAT
Statistics
Matches: 111, Mismatches: 23, Indels: 10
0.77 0.16 0.07
Matches are distributed among these distances:
47 9 0.08
48 101 0.91
49 1 0.01
ACGTcount: A:0.18, C:0.18, G:0.27, T:0.37
Consensus pattern (47 bp):
ATTGCCGAGAGTGTTTCGGCCTTGATTCTCAAGACTCTTTGGGCTTG
Found at i:4555154 original size:24 final size:25
Alignment explanation
Indices: 4555127--4555212 Score: 65
Period size: 24 Copynumber: 3.6 Consensus size: 25
4555117 GCCAGCAATG
4555127 TTTGAG-CCTTGATTGTCAAGACTC
1 TTTGAGACCTTGATTGTCAAGACTC
* * *
4555151 TTTG-GATCTTGATTG-CTAGAACTG
1 TTTGAGACCTTGATTGTCAAG-ACTC
* * * *
4555175 GTT-AGACCTCGATTCTCAAGACTT
1 TTTGAGACCTTGATTGTCAAGACTC
4555199 TTTGAG-CCTTGATT
1 TTTGAGACCTTGATT
4555213 ACCAGGAGTG
Statistics
Matches: 46, Mismatches: 11, Indels: 10
0.69 0.16 0.15
Matches are distributed among these distances:
23 4 0.09
24 37 0.80
25 5 0.11
ACGTcount: A:0.21, C:0.19, G:0.21, T:0.40
Consensus pattern (25 bp):
TTTGAGACCTTGATTGTCAAGACTC
Found at i:4555516 original size:18 final size:18
Alignment explanation
Indices: 4555495--4555529 Score: 52
Period size: 18 Copynumber: 1.9 Consensus size: 18
4555485 GATATTTCAA
4555495 AAAGAAAAAAATAAAATC
1 AAAGAAAAAAATAAAATC
* *
4555513 AAAGAAACAAATTAAAT
1 AAAGAAAAAAATAAAAT
4555530 ACCTTATCAT
Statistics
Matches: 15, Mismatches: 2, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
18 15 1.00
ACGTcount: A:0.74, C:0.06, G:0.06, T:0.14
Consensus pattern (18 bp):
AAAGAAAAAAATAAAATC
Found at i:4560151 original size:24 final size:24
Alignment explanation
Indices: 4560117--4560207 Score: 85
Period size: 24 Copynumber: 3.8 Consensus size: 24
4560107 AATATATTAT
* *
4560117 TGTTTTCGCCTTGATTGCCAAAAG
1 TGTTTTAGCCTTGATTGCCAAAAC
* **
4560141 TGTTTTAGCCTTGATTGTCAGGAC
1 TGTTTTAGCCTTGATTGCCAAAAC
* *
4560165 TGTTTTGGCCTTGATTGCCAAGAC
1 TGTTTTAGCCTTGATTGCCAAAAC
* *
4560189 TATTTTTTG-CTTGATTGCC
1 T-GTTTTAGCCTTGATTGCC
4560208 TCGTCCCGGT
Statistics
Matches: 56, Mismatches: 10, Indels: 2
0.82 0.15 0.03
Matches are distributed among these distances:
24 51 0.91
25 5 0.09
ACGTcount: A:0.16, C:0.19, G:0.22, T:0.43
Consensus pattern (24 bp):
TGTTTTAGCCTTGATTGCCAAAAC
Found at i:4560390 original size:135 final size:135
Alignment explanation
Indices: 4560141--4561073 Score: 1179
Period size: 135 Copynumber: 6.9 Consensus size: 135
4560131 TTGCCAAAAG
* * *
4560141 TGTTTTAGCCTTGATTGTCAGGACTGTTTTGGCCTTGATTGCCAAGACTATTTTTTG-CTTGATT
1 TGTTTT-GCCTTGATTGTCAGGAGTGTTTTGGCCTTGATTGCCAAGACT-GTTTTCGCCTTGATT
* * * *
4560205 GC-CTCGTCCCGGTAACATCCAATTTATGAAAGGAAGCTTTGGGGGTGGTGGAGTGCTATTGGAA
64 GCTCTTGTCCTGGTAACATCCAATTGATGAAAGGAAGCTTTGGGGGTGGTGGAGTGCTATTAGAA
4560269 ACACTAT
129 ACACTAT
* * *
4560276 TGCTTTTGCCTTGATTGTCAGGAGTCTCTTGGCCTTGATTGCCAAGACTGTTTTCTCCTTGATTG
1 TG-TTTTGCCTTGATTGTCAGGAGTGTTTTGGCCTTGATTGCCAAGACTGTTTTCGCCTTGATTG
* *
4560341 CTGCTT-TCC-GGTAACATCCAATTGATGAAAGGAAGTTTTGGGGGTGGTGGAGTGCTATCAGAA
65 CT-CTTGTCCTGGTAACATCCAATTGATGAAAGGAAGCTTTGGGGGTGGTGGAGTGCTATTAGAA
4560404 ACACTAT
129 ACACTAT
* ** * * *
4560411 TGTTTGTGCCTTGATTGTC-GAGAGTCTTTCCGCCTTGATTGCCAGGATTGTTTTCACCTTGATT
1 TGTTT-TGCCTTGATTGTCAG-GAGTGTTTTGGCCTTGATTGCCAAGACTGTTTTCGCCTTGATT
* * * *
4560475 TC-CTTGCCCCGGTAACATCCAATTGATGAAAGGAAGCTTTGGGTGTGGTGGAGTGCTATTAGAA
64 GCTCTTGTCCTGGTAACATCCAATTGATGAAAGGAAGCTTTGGGGGTGGTGGAGTGCTATTAGAA
4560539 ACACTAT
129 ACACTAT
* * * * *
4560546 TGTTTGTGCCTTGATTGTCAGGAGTGTTTTGGCCTTGGTTACCAGGACTATTTTCGGCTTGATTG
1 TGTTT-TGCCTTGATTGTCAGGAGTGTTTTGGCCTTGATTGCCAAGACTGTTTTCGCCTTGATTG
* * *
4560611 C-CTTGTCCTGGTAACATCCAATTGAAGAAAGGAAGCTTTGGGGGTGTTGGAGTGCTATTCGAAA
65 CTCTTGTCCTGGTAACATCCAATTGATGAAAGGAAGCTTTGGGGGTGGTGGAGTGCTATTAGAAA
4560675 CACTAT
130 CACTAT
* * * *
4560681 AGTTTTTGCCTTGATTGTCAGGAGTGTTTTGGCCTTGATTGCCACGATTGTTTTCGCCTTGCTTG
1 TG-TTTTGCCTTGATTGTCAGGAGTGTTTTGGCCTTGATTGCCAAGACTGTTTTCGCCTTGATTG
* **
4560746 C-CTTGTCCTGGTAACATCCAATTGATGAAAGGACG-TTTAGATGGTGGTGTG-GTGCTATTAGA
65 CTCTTGTCCTGGTAACATCCAATTGATGAAAGGAAGCTTT-GGGGGTGGTG-GAGTGCTATTAGA
*
4560808 AAGACTAT
128 AACACTAT
* * * * * * *
4560816 TGTCTTTGCCTCGATTGTCAAGAATGTTTTGGCCTTGATTGCGAAGAATGTTTTTGCCTTGCTTG
1 TGT-TTTGCCTTGATTGTCAGGAGTGTTTTGGCCTTGATTGCCAAGACTGTTTTCGCCTTGATTG
*
4560881 C-CTTGTCCTGGTAGCATCCAATTGATGAAAGGAAGCTTTGGGGGTGGTGGAGTGCTATTAGAAA
65 CTCTTGTCCTGGTAACATCCAATTGATGAAAGGAAGCTTTGGGGGTGGTGGAGTGCTATTAGAAA
*
4560945 CACTAC
130 CACTAT
* * * * * *
4560951 TGTTGTCGCCTCGATTGTCAGGGGTGTTTTGGCCTTGATTGCAAAGGCTGTTTTGGCCTTGATTG
1 TGTT-TTGCCTTGATTGTCAGGAGTGTTTTGGCCTTGATTGCCAAGACTGTTTTCGCCTTGATTG
* *
4561016 -TCTTGTCCTGGTAACATCCAATTGATGAAAGGAACCTTTGGGGTTGGTGGAGTGCTAT
65 CTCTTGTCCTGGTAACATCCAATTGATGAAAGGAAGCTTTGGGGGTGGTGGAGTGCTAT
4561074 CATGCCAAGT
Statistics
Matches: 702, Mismatches: 79, Indels: 34
0.86 0.10 0.04
Matches are distributed among these distances:
133 3 0.00
134 16 0.02
135 666 0.95
136 15 0.02
137 2 0.00
ACGTcount: A:0.20, C:0.17, G:0.27, T:0.36
Consensus pattern (135 bp):
TGTTTTGCCTTGATTGTCAGGAGTGTTTTGGCCTTGATTGCCAAGACTGTTTTCGCCTTGATTGC
TCTTGTCCTGGTAACATCCAATTGATGAAAGGAAGCTTTGGGGGTGGTGGAGTGCTATTAGAAAC
ACTAT
Found at i:4560715 original size:24 final size:24
Alignment explanation
Indices: 4560682--4560747 Score: 78
Period size: 24 Copynumber: 2.8 Consensus size: 24
4560672 AAACACTATA
* * *
4560682 GTTTTTGCCTTGATTGTCAGGAGT
1 GTTTTCGCCTTGATTGCCACGAGT
* *
4560706 GTTTTGGCCTTGATTGCCACGATT
1 GTTTTCGCCTTGATTGCCACGAGT
*
4560730 GTTTTCGCCTTGCTTGCC
1 GTTTTCGCCTTGATTGCC
4560748 TTGTCCTGGT
Statistics
Matches: 36, Mismatches: 6, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
24 36 1.00
ACGTcount: A:0.09, C:0.21, G:0.26, T:0.44
Consensus pattern (24 bp):
GTTTTCGCCTTGATTGCCACGAGT
Found at i:4560875 original size:24 final size:23
Alignment explanation
Indices: 4560820--4560881 Score: 79
Period size: 24 Copynumber: 2.6 Consensus size: 23
4560810 GACTATTGTC
*
4560820 TTTGCCTCGATTGTCAAGAATGTT
1 TTTGCCTTGATTG-CAAGAATGTT
*
4560844 TTGGCCTTGATTGCGAAGAATGTT
1 TTTGCCTTGATTGC-AAGAATGTT
*
4560868 TTTGCCTTGCTTGC
1 TTTGCCTTGATTGC
4560882 CTTGTCCTGG
Statistics
Matches: 33, Mismatches: 4, Indels: 2
0.85 0.10 0.05
Matches are distributed among these distances:
23 1 0.03
24 32 0.97
ACGTcount: A:0.16, C:0.18, G:0.24, T:0.42
Consensus pattern (23 bp):
TTTGCCTTGATTGCAAGAATGTT
Found at i:4560985 original size:24 final size:25
Alignment explanation
Indices: 4560958--4561017 Score: 79
Period size: 24 Copynumber: 2.5 Consensus size: 25
4560948 TACTGTTGTC
* * *
4560958 GCCTCGATTGTC-AGGGGTGTTTTG
1 GCCTTGATTGTCAAAGGCTGTTTTG
4560982 GCCTTGATTG-CAAAGGCTGTTTTG
1 GCCTTGATTGTCAAAGGCTGTTTTG
4561006 GCCTTGATTGTC
1 GCCTTGATTGTC
4561018 TTGTCCTGGT
Statistics
Matches: 31, Mismatches: 3, Indels: 3
0.84 0.08 0.08
Matches are distributed among these distances:
23 1 0.03
24 29 0.94
25 1 0.03
ACGTcount: A:0.12, C:0.18, G:0.32, T:0.38
Consensus pattern (25 bp):
GCCTTGATTGTCAAAGGCTGTTTTG
Found at i:4563017 original size:24 final size:24
Alignment explanation
Indices: 4562985--4563095 Score: 87
Period size: 24 Copynumber: 4.6 Consensus size: 24
4562975 AATATTATTA
* * *
4562985 TTTTTGCCTTGATTGCTAGGAGTG
1 TTTTGGCCTTGATTGCCAGGATTG
* **
4563009 TTTTGGCCTTGATTCCCAACATTG
1 TTTTGGCCTTGATTGCCAGGATTG
* * *
4563033 TTTTGGTCTTGATTGCCATGACTG
1 TTTTGGCCTTGATTGCCAGGATTG
* * * **
4563057 CTTTGGTCTTGGTTGCTTGGATTG
1 TTTTGGCCTTGATTGCCAGGATTG
*
4563081 TTTAGGCCTTGATTG
1 TTTTGGCCTTGATTG
4563096 TCTTGTCCTG
Statistics
Matches: 66, Mismatches: 21, Indels: 0
0.76 0.24 0.00
Matches are distributed among these distances:
24 66 1.00
ACGTcount: A:0.12, C:0.16, G:0.26, T:0.46
Consensus pattern (24 bp):
TTTTGGCCTTGATTGCCAGGATTG
Found at i:4595108 original size:2 final size:2
Alignment explanation
Indices: 4595101--4595126 Score: 52
Period size: 2 Copynumber: 13.0 Consensus size: 2
4595091 TTTGTCTGTT
4595101 TC TC TC TC TC TC TC TC TC TC TC TC TC
1 TC TC TC TC TC TC TC TC TC TC TC TC TC
4595127 ATCATCTAAG
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:0.00, C:0.50, G:0.00, T:0.50
Consensus pattern (2 bp):
TC
Found at i:4599150 original size:2 final size:2
Alignment explanation
Indices: 4599145--4599174 Score: 60
Period size: 2 Copynumber: 15.0 Consensus size: 2
4599135 CTCTCTGTCT
4599145 CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA
1 CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA
4599175 TGCATAATCA
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 28 1.00
ACGTcount: A:0.50, C:0.50, G:0.00, T:0.00
Consensus pattern (2 bp):
CA
Found at i:4613548 original size:16 final size:16
Alignment explanation
Indices: 4613527--4613560 Score: 50
Period size: 16 Copynumber: 2.1 Consensus size: 16
4613517 CCTGGAAAGT
* *
4613527 AAATAATTTATATTTA
1 AAATAATTAAAATTTA
4613543 AAATAATTAAAATTTA
1 AAATAATTAAAATTTA
4613559 AA
1 AA
4613561 CTAAAAAAAA
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:0.59, C:0.00, G:0.00, T:0.41
Consensus pattern (16 bp):
AAATAATTAAAATTTA
Found at i:4633438 original size:2 final size:2
Alignment explanation
Indices: 4633431--4633460 Score: 60
Period size: 2 Copynumber: 15.0 Consensus size: 2
4633421 TCACAGCTTT
4633431 TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC
1 TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC
4633461 CTTCCAACTC
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 28 1.00
ACGTcount: A:0.00, C:0.50, G:0.00, T:0.50
Consensus pattern (2 bp):
TC
Found at i:4646256 original size:62 final size:62
Alignment explanation
Indices: 4646186--4646310 Score: 207
Period size: 62 Copynumber: 2.0 Consensus size: 62
4646176 AATTAAGTAA
*
4646186 AATAAAATAAAAAAATAAAAGGAAAAAAGAAAA-ATGTCACCCCTGGACCACTTCAATCATAT
1 AATAAAATAAAAAAATAAAAGGAAAAAAGAAAAGA-GTCAACCCTGGACCACTTCAATCATAT
* *
4646248 AATAAAATAAAAAAATAAAAGGGAAAATGAAAAGAGTCAACCCTGGACCACTTCAATCATAT
1 AATAAAATAAAAAAATAAAAGGAAAAAAGAAAAGAGTCAACCCTGGACCACTTCAATCATAT
4646310 A
1 A
4646311 GACATCGCTA
Statistics
Matches: 59, Mismatches: 3, Indels: 2
0.92 0.05 0.03
Matches are distributed among these distances:
62 58 0.98
63 1 0.02
ACGTcount: A:0.56, C:0.15, G:0.11, T:0.18
Consensus pattern (62 bp):
AATAAAATAAAAAAATAAAAGGAAAAAAGAAAAGAGTCAACCCTGGACCACTTCAATCATAT
Found at i:4649581 original size:20 final size:18
Alignment explanation
Indices: 4649539--4649582 Score: 52
Period size: 18 Copynumber: 2.3 Consensus size: 18
4649529 TTTTAGGGCG
*
4649539 GGAAGAGAGAGAAAACAA
1 GGAAAAGAGAGAAAACAA
*
4649557 AGAAAAGAGAGATAAACAGA
1 GGAAAAGAGAGA-AAACA-A
4649577 GGAAAA
1 GGAAAA
4649583 TGGTCAAAGA
Statistics
Matches: 21, Mismatches: 3, Indels: 2
0.81 0.12 0.08
Matches are distributed among these distances:
18 10 0.48
19 5 0.24
20 6 0.29
ACGTcount: A:0.64, C:0.05, G:0.30, T:0.02
Consensus pattern (18 bp):
GGAAAAGAGAGAAAACAA
Found at i:4651711 original size:10 final size:10
Alignment explanation
Indices: 4651679--4651703 Score: 50
Period size: 10 Copynumber: 2.5 Consensus size: 10
4651669 ACTGAGACTG
4651679 AAAGAAAATA
1 AAAGAAAATA
4651689 AAAGAAAATA
1 AAAGAAAATA
4651699 AAAGA
1 AAAGA
4651704 TAAAAAAAAC
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
10 15 1.00
ACGTcount: A:0.80, C:0.00, G:0.12, T:0.08
Consensus pattern (10 bp):
AAAGAAAATA
Found at i:4658770 original size:4 final size:4
Alignment explanation
Indices: 4658763--4658806 Score: 61
Period size: 4 Copynumber: 11.0 Consensus size: 4
4658753 ATTATATATA
* * *
4658763 TATG TATG TAAG TATG TATA TATG TATG TATG TGTG TATG TATG
1 TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG
4658807 GAAGTTGGCA
Statistics
Matches: 34, Mismatches: 6, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
4 34 1.00
ACGTcount: A:0.27, C:0.00, G:0.25, T:0.48
Consensus pattern (4 bp):
TATG
Found at i:4658780 original size:12 final size:12
Alignment explanation
Indices: 4658763--4658811 Score: 53
Period size: 12 Copynumber: 4.1 Consensus size: 12
4658753 ATTATATATA
4658763 TATGTATGTAAG
1 TATGTATGTAAG
* *
4658775 TATGTATATATG
1 TATGTATGTAAG
**
4658787 TATGTATGTGTG
1 TATGTATGTAAG
*
4658799 TATGTATGGAAG
1 TATGTATGTAAG
4658811 T
1 T
4658812 TGGCAAGCAA
Statistics
Matches: 30, Mismatches: 7, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
12 30 1.00
ACGTcount: A:0.29, C:0.00, G:0.27, T:0.45
Consensus pattern (12 bp):
TATGTATGTAAG
Found at i:4662176 original size:2 final size:2
Alignment explanation
Indices: 4662169--4662196 Score: 56
Period size: 2 Copynumber: 14.0 Consensus size: 2
4662159 CCACTAAATC
4662169 AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT
4662197 TGAGTGATTC
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 26 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:4663632 original size:28 final size:27
Alignment explanation
Indices: 4663586--4663639 Score: 90
Period size: 28 Copynumber: 2.0 Consensus size: 27
4663576 TATGTCAGTT
4663586 TTAACCAAATTAATCATTTTAACTGAA
1 TTAACCAAATTAATCATTTTAACTGAA
*
4663613 TTAACCAAAATTAATTATTTTAACTGA
1 TTAACC-AAATTAATCATTTTAACTGA
4663640 TTTCTTGAGT
Statistics
Matches: 25, Mismatches: 1, Indels: 1
0.93 0.04 0.04
Matches are distributed among these distances:
27 6 0.24
28 19 0.76
ACGTcount: A:0.44, C:0.13, G:0.04, T:0.39
Consensus pattern (27 bp):
TTAACCAAATTAATCATTTTAACTGAA
Found at i:4665302 original size:17 final size:17
Alignment explanation
Indices: 4665280--4665318 Score: 78
Period size: 17 Copynumber: 2.3 Consensus size: 17
4665270 CAACATTTAT
4665280 TTGACTTAGTAAATAAG
1 TTGACTTAGTAAATAAG
4665297 TTGACTTAGTAAATAAG
1 TTGACTTAGTAAATAAG
4665314 TTGAC
1 TTGAC
4665319 CAAGTTTTTC
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
17 22 1.00
ACGTcount: A:0.38, C:0.08, G:0.18, T:0.36
Consensus pattern (17 bp):
TTGACTTAGTAAATAAG
Found at i:4677675 original size:37 final size:37
Alignment explanation
Indices: 4677615--4677698 Score: 123
Period size: 37 Copynumber: 2.3 Consensus size: 37
4677605 TTAAATGATC
* * *
4677615 AAGCCTAACCTTTCCAAACCACTACTTTTCATGGATT
1 AAGCATAACCTTTACAAACCACTACTTTTCATGGATA
* *
4677652 AAGCATAACCTTTACGAATCACTACTTTTCATGGATA
1 AAGCATAACCTTTACAAACCACTACTTTTCATGGATA
4677689 AAGCATAACC
1 AAGCATAACC
4677699 CCTACCTTTT
Statistics
Matches: 42, Mismatches: 5, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
37 42 1.00
ACGTcount: A:0.35, C:0.26, G:0.10, T:0.30
Consensus pattern (37 bp):
AAGCATAACCTTTACAAACCACTACTTTTCATGGATA
Found at i:4689434 original size:17 final size:18
Alignment explanation
Indices: 4689384--4689442 Score: 75
Period size: 18 Copynumber: 3.3 Consensus size: 18
4689374 TTTGTTTTCC
*
4689384 AACATAATTATTTGAATA
1 AACATAATTATTTGAACA
*
4689402 AACTTAATTATTTGAACA
1 AACATAATTATTTGAACA
*
4689420 AACATAAGT-TTTGAACA
1 AACATAATTATTTGAACA
*
4689437 ATCATA
1 AACATA
4689443 TTGTTCAAAG
Statistics
Matches: 36, Mismatches: 5, Indels: 1
0.86 0.12 0.02
Matches are distributed among these distances:
17 13 0.36
18 23 0.64
ACGTcount: A:0.47, C:0.10, G:0.07, T:0.36
Consensus pattern (18 bp):
AACATAATTATTTGAACA
Found at i:4691004 original size:15 final size:15
Alignment explanation
Indices: 4690984--4691016 Score: 50
Period size: 15 Copynumber: 2.2 Consensus size: 15
4690974 TAACATTACA
4690984 AAAATTAT-AACTTAT
1 AAAATTATCAA-TTAT
4690999 AAAATTATCAATTAT
1 AAAATTATCAATTAT
4691014 AAA
1 AAA
4691017 TATATATATC
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
15 15 0.88
16 2 0.12
ACGTcount: A:0.58, C:0.06, G:0.00, T:0.36
Consensus pattern (15 bp):
AAAATTATCAATTAT
Found at i:4703342 original size:11 final size:11
Alignment explanation
Indices: 4703326--4703350 Score: 50
Period size: 11 Copynumber: 2.3 Consensus size: 11
4703316 AATCCATAGA
4703326 TCCCCAATCAC
1 TCCCCAATCAC
4703337 TCCCCAATCAC
1 TCCCCAATCAC
4703348 TCC
1 TCC
4703351 ATCTAGCAAA
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 14 1.00
ACGTcount: A:0.24, C:0.56, G:0.00, T:0.20
Consensus pattern (11 bp):
TCCCCAATCAC
Found at i:4708019 original size:21 final size:20
Alignment explanation
Indices: 4707974--4708017 Score: 70
Period size: 20 Copynumber: 2.2 Consensus size: 20
4707964 TGAAAAGAAA
*
4707974 TTTTATGTCAAGAAACTAGT
1 TTTTATGTCAAGAAACAAGT
*
4707994 TTTTATGTCAAGAGACAAGT
1 TTTTATGTCAAGAAACAAGT
4708014 TTTT
1 TTTT
4708018 TACTCCTGGA
Statistics
Matches: 22, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
20 22 1.00
ACGTcount: A:0.32, C:0.09, G:0.16, T:0.43
Consensus pattern (20 bp):
TTTTATGTCAAGAAACAAGT
Found at i:4714422 original size:13 final size:14
Alignment explanation
Indices: 4714404--4714458 Score: 62
Period size: 13 Copynumber: 4.0 Consensus size: 14
4714394 AAAGGTAAAA
4714404 TTTTTATTTA-ATT
1 TTTTTATTTATATT
4714417 TTTTTATTTATATT
1 TTTTTATTTATATT
4714431 ATTATTT-TTTATA-T
1 -TT-TTTATTTATATT
*
4714445 TTTTTAATTATATT
1 TTTTTATTTATATT
4714459 CTATTTGTTC
Statistics
Matches: 36, Mismatches: 1, Indels: 9
0.78 0.02 0.20
Matches are distributed among these distances:
12 3 0.08
13 17 0.47
14 5 0.14
15 8 0.22
16 3 0.08
ACGTcount: A:0.25, C:0.00, G:0.00, T:0.75
Consensus pattern (14 bp):
TTTTTATTTATATT
Found at i:4714474 original size:30 final size:28
Alignment explanation
Indices: 4714416--4714479 Score: 76
Period size: 28 Copynumber: 2.3 Consensus size: 28
4714406 TTTATTTAAT
* *
4714416 TTTTTTATTTATATTATTATTTTTTATA
1 TTTTTTAATTATATTACTATTTTTTATA
*
4714444 TTTTTTAATTATATT-CTATTTGTTCATA
1 TTTTTTAATTATATTACTATTT-TTTATA
*
4714472 TATTTTAA
1 TTTTTTAA
4714480 GTTTTTATAC
Statistics
Matches: 31, Mismatches: 4, Indels: 2
0.84 0.11 0.05
Matches are distributed among these distances:
27 5 0.16
28 26 0.84
ACGTcount: A:0.27, C:0.03, G:0.02, T:0.69
Consensus pattern (28 bp):
TTTTTTAATTATATTACTATTTTTTATA
Found at i:4724001 original size:29 final size:29
Alignment explanation
Indices: 4723955--4724012 Score: 98
Period size: 29 Copynumber: 2.0 Consensus size: 29
4723945 TGATAGTTTT
*
4723955 GGGGGACAAGAAAGTTGAAACATGACAAA
1 GGGGGACAAGAAAATTGAAACATGACAAA
*
4723984 GGGGGACAAGAAAATTGAAACGTGACAAA
1 GGGGGACAAGAAAATTGAAACATGACAAA
4724013 ACTTTATTTA
Statistics
Matches: 27, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
29 27 1.00
ACGTcount: A:0.48, C:0.10, G:0.31, T:0.10
Consensus pattern (29 bp):
GGGGGACAAGAAAATTGAAACATGACAAA
Found at i:4730509 original size:16 final size:17
Alignment explanation
Indices: 4730488--4730520 Score: 59
Period size: 17 Copynumber: 2.0 Consensus size: 17
4730478 TCTCAATTTT
4730488 TAAAT-AAAATTAACAA
1 TAAATAAAAATTAACAA
4730504 TAAATAAAAATTAACAA
1 TAAATAAAAATTAACAA
4730521 ATAGAATAAC
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
16 5 0.31
17 11 0.69
ACGTcount: A:0.70, C:0.06, G:0.00, T:0.24
Consensus pattern (17 bp):
TAAATAAAAATTAACAA
Found at i:4731583 original size:16 final size:16
Alignment explanation
Indices: 4731564--4731597 Score: 50
Period size: 16 Copynumber: 2.1 Consensus size: 16
4731554 TATTAAGAAG
*
4731564 AATTAATATTAAACTT
1 AATTAATAATAAACTT
*
4731580 AATTAATAATATACTT
1 AATTAATAATAAACTT
4731596 AA
1 AA
4731598 AATATATTTC
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:0.53, C:0.06, G:0.00, T:0.41
Consensus pattern (16 bp):
AATTAATAATAAACTT
Found at i:4732452 original size:18 final size:18
Alignment explanation
Indices: 4732416--4732459 Score: 54
Period size: 18 Copynumber: 2.4 Consensus size: 18
4732406 ATGTTTCTTA
*
4732416 ATATATAATGTTATGAAT
1 ATATATAATGTTATAAAT
4732434 ATATATAAT-TGTATAAAT
1 ATATATAATGT-TATAAAT
4732452 ATTATATA
1 A-TATATA
4732460 TATAATTTAT
Statistics
Matches: 23, Mismatches: 1, Indels: 3
0.85 0.04 0.11
Matches are distributed among these distances:
17 1 0.04
18 16 0.70
19 6 0.26
ACGTcount: A:0.48, C:0.00, G:0.07, T:0.45
Consensus pattern (18 bp):
ATATATAATGTTATAAAT
Found at i:4732565 original size:14 final size:16
Alignment explanation
Indices: 4732546--4732582 Score: 51
Period size: 17 Copynumber: 2.4 Consensus size: 16
4732536 CACTCAAGTT
4732546 TTTATAA-TA-TATTA
1 TTTATAATTAGTATTA
4732560 TTTATAATTAGTTATTA
1 TTTATAATTAG-TATTA
4732577 TTTATA
1 TTTATA
4732583 CAAACTTTTA
Statistics
Matches: 20, Mismatches: 0, Indels: 3
0.87 0.00 0.13
Matches are distributed among these distances:
14 7 0.35
15 2 0.10
17 11 0.55
ACGTcount: A:0.38, C:0.00, G:0.03, T:0.59
Consensus pattern (16 bp):
TTTATAATTAGTATTA
Found at i:4732675 original size:207 final size:210
Alignment explanation
Indices: 4732454--4732853 Score: 499
Period size: 210 Copynumber: 1.9 Consensus size: 210
4732444 GTATAAATAT
*
4732454 TATATATATAATTTATACATAAGCATCACTATAACTT-ATAAT-A-TTTATTTATATGATTACAC
1 TATATATATAATTTATACATAAGCATCACCATAA-TTCATAATAACTTTATTTATATGATTACAC
* * * *
4732516 TTAATAACCTTATTAATTATCA-CTCAAGTTTTTATAATATATTATTTATAATTAGTTATTATTT
65 TTAATAACCTTATTAATTATCATCTC-A-TTTTTACAACATATT-GTTACAATTAGTTATTATTT
* *
4732580 ATACAAA-CTT-TTAT-ATAAAATATTATAACATATAAGTTATGTTATTAATTTCATATATACAC
127 ACACAAATCTTGTTATAATAAAATATTATAACATATAAGTTATGTCATTAATTTCATATATACAC
4732642 AATAAAACAATATATTATA
192 AATAAAACAATATATTATA
* * * * *
4732661 TATATATTTAATTTATATATAAGCATTACCGTAATTCATAATAGACTTTATTTATATGATTATAC
1 TATATATATAATTTATACATAAGCATCACCATAATTCATAATA-ACTTTATTTATATGATTACAC
** * *
4732726 TTAATAATTTTATTAGTTATCATTTTCATTTTTACAACATATTGTTACAATTAGTTATTATTTAC
65 TTAATAACCTTATTAATTATCA-TCTCATTTTTACAACATATTGTTACAATTAGTTATTATTTAC
* * *
4732791 ACAAATTTTGTTATAAAAATTAAATATTATAACATATAAGTTGTGTCATTAATTTCATATATA
129 ACAAATCTTGTTAT---AATAAAATATTATAACATATAAGTTATGTCATTAATTTCATATATA
4732854 TAATGAAGTA
Statistics
Matches: 162, Mismatches: 19, Indels: 16
0.82 0.10 0.08
Matches are distributed among these distances:
206 2 0.01
207 34 0.21
209 25 0.15
210 52 0.32
211 5 0.03
212 2 0.01
215 42 0.26
ACGTcount: A:0.41, C:0.09, G:0.04, T:0.46
Consensus pattern (210 bp):
TATATATATAATTTATACATAAGCATCACCATAATTCATAATAACTTTATTTATATGATTACACT
TAATAACCTTATTAATTATCATCTCATTTTTACAACATATTGTTACAATTAGTTATTATTTACAC
AAATCTTGTTATAATAAAATATTATAACATATAAGTTATGTCATTAATTTCATATATACACAATA
AAACAATATATTATA
Found at i:4747590 original size:23 final size:23
Alignment explanation
Indices: 4747564--4747607 Score: 61
Period size: 23 Copynumber: 1.9 Consensus size: 23
4747554 AGGGAATTGT
4747564 GAACATGGGTTGTTACAGGGTGG
1 GAACATGGGTTGTTACAGGGTGG
* * *
4747587 GAACGTGGGTTTTTGCAGGGT
1 GAACATGGGTTGTTACAGGGT
4747608 AGGGGTTGCC
Statistics
Matches: 18, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
23 18 1.00
ACGTcount: A:0.18, C:0.09, G:0.43, T:0.30
Consensus pattern (23 bp):
GAACATGGGTTGTTACAGGGTGG
Found at i:4759118 original size:41 final size:35
Alignment explanation
Indices: 4759078--4759147 Score: 122
Period size: 35 Copynumber: 2.0 Consensus size: 35
4759068 ATAAAATTTA
* *
4759078 AATTTAAATAACCAAAAACTAATATCTCAAACAAC
1 AATTTAAATAATCAAAAACAAATATCTCAAACAAC
4759113 AATTTAAATAATCAAAAACAAATATCTCAAACAAC
1 AATTTAAATAATCAAAAACAAATATCTCAAACAAC
4759148 TTTTAAGCTG
Statistics
Matches: 33, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
35 33 1.00
ACGTcount: A:0.59, C:0.19, G:0.00, T:0.23
Consensus pattern (35 bp):
AATTTAAATAATCAAAAACAAATATCTCAAACAAC
Found at i:4761511 original size:6 final size:6
Alignment explanation
Indices: 4761500--4761539 Score: 80
Period size: 6 Copynumber: 6.7 Consensus size: 6
4761490 TGTGACCAAA
4761500 AATAGT AATAGT AATAGT AATAGT AATAGT AATAGT AATA
1 AATAGT AATAGT AATAGT AATAGT AATAGT AATAGT AATA
4761540 CAATAAACCC
Statistics
Matches: 34, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 34 1.00
ACGTcount: A:0.53, C:0.00, G:0.15, T:0.33
Consensus pattern (6 bp):
AATAGT
Found at i:4765544 original size:21 final size:21
Alignment explanation
Indices: 4765475--4765550 Score: 55
Period size: 21 Copynumber: 3.6 Consensus size: 21
4765465 TTCTTGACTC
* * *
4765475 GGGTTTAGGATTTAGTGAATC
1 GGGTTTAGGATTTGGAGAATT
** *
4765496 GTTTTTAGGGTTTGGTA-AATT
1 GGGTTTAGGATTTGG-AGAATT
* *
4765517 AGTTTTAGGATTTGGAGAATT
1 GGGTTTAGGATTTGGAGAATT
*
4765538 GGGTTTAAGATTT
1 GGGTTTAGGATTT
4765551 TTTGAATCAG
Statistics
Matches: 41, Mismatches: 12, Indels: 4
0.72 0.21 0.07
Matches are distributed among these distances:
20 1 0.02
21 40 0.98
ACGTcount: A:0.24, C:0.01, G:0.30, T:0.45
Consensus pattern (21 bp):
GGGTTTAGGATTTGGAGAATT
Found at i:4765591 original size:21 final size:21
Alignment explanation
Indices: 4765566--4765625 Score: 84
Period size: 21 Copynumber: 2.9 Consensus size: 21
4765556 ATCAGTCTAG
4765566 AGTTTGGTGAATTGATTTTAA
1 AGTTTGGTGAATTGATTTTAA
** * *
4765587 AGTTTTTTGAATTGAGTTTAG
1 AGTTTGGTGAATTGATTTTAA
4765608 AGTTTGGTGAATTGATTT
1 AGTTTGGTGAATTGATTT
4765626 GAGGATTTAA
Statistics
Matches: 32, Mismatches: 7, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
21 32 1.00
ACGTcount: A:0.25, C:0.00, G:0.25, T:0.50
Consensus pattern (21 bp):
AGTTTGGTGAATTGATTTTAA
Found at i:4775797 original size:4 final size:4
Alignment explanation
Indices: 4775788--4775821 Score: 68
Period size: 4 Copynumber: 8.5 Consensus size: 4
4775778 GATCCAGTTT
4775788 TACA TACA TACA TACA TACA TACA TACA TACA TA
1 TACA TACA TACA TACA TACA TACA TACA TACA TA
4775822 TAGGATCAAG
Statistics
Matches: 30, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
4 30 1.00
ACGTcount: A:0.50, C:0.24, G:0.00, T:0.26
Consensus pattern (4 bp):
TACA
Found at i:4777931 original size:59 final size:60
Alignment explanation
Indices: 4777838--4777955 Score: 186
Period size: 59 Copynumber: 2.0 Consensus size: 60
4777828 AGTTTACATT
*
4777838 TTATTTCTTTTTGCCACTTTATCATCAATCAGTGATTGCA-TTCAAGTGATAATTAAAGC
1 TTATTACTTTTTGCCACTTTATCATCAATCAGTGATTGCATTTCAAGTGATAATTAAAGC
* *
4777897 TTATTACTTTTTTCCACTTTATCATCAA-CAAGTGATTGCATTTCAAGTGATGATTAAAG
1 TTATTACTTTTTGCCACTTTATCATCAATC-AGTGATTGCATTTCAAGTGATAATTAAAG
4777956 TTGTGCAGTG
Statistics
Matches: 54, Mismatches: 3, Indels: 3
0.90 0.05 0.05
Matches are distributed among these distances:
58 1 0.02
59 36 0.67
60 17 0.31
ACGTcount: A:0.30, C:0.16, G:0.12, T:0.42
Consensus pattern (60 bp):
TTATTACTTTTTGCCACTTTATCATCAATCAGTGATTGCATTTCAAGTGATAATTAAAGC
Found at i:4788033 original size:2 final size:2
Alignment explanation
Indices: 4788026--4788050 Score: 50
Period size: 2 Copynumber: 12.5 Consensus size: 2
4788016 TGAAAATGAT
4788026 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
4788051 TTCATTGCAT
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:4797128 original size:13 final size:14
Alignment explanation
Indices: 4797110--4797144 Score: 54
Period size: 13 Copynumber: 2.5 Consensus size: 14
4797100 ATATATTTTT
4797110 AATAATTTTTTA-A
1 AATAATTTTTTATA
4797123 AATAATTTTTTATTA
1 AATAATTTTTTA-TA
4797138 AATAATT
1 AATAATT
4797145 AATATAATTT
Statistics
Matches: 20, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
13 12 0.60
15 8 0.40
ACGTcount: A:0.46, C:0.00, G:0.00, T:0.54
Consensus pattern (14 bp):
AATAATTTTTTATA
Found at i:4797212 original size:18 final size:17
Alignment explanation
Indices: 4797189--4797222 Score: 50
Period size: 17 Copynumber: 1.9 Consensus size: 17
4797179 AATTTCATTC
4797189 AATTTTATTAAAATTTTT
1 AATTTT-TTAAAATTTTT
*
4797207 AATTTTTTTAAATTTT
1 AATTTTTTAAAATTTT
4797223 AAAATTTTCC
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
17 9 0.60
18 6 0.40
ACGTcount: A:0.35, C:0.00, G:0.00, T:0.65
Consensus pattern (17 bp):
AATTTTTTAAAATTTTT
Found at i:4797228 original size:18 final size:18
Alignment explanation
Indices: 4797189--4797230 Score: 50
Period size: 18 Copynumber: 2.3 Consensus size: 18
4797179 AATTTCATTC
*
4797189 AATTTTATTAAAATTTTT
1 AATTTTATTAAAATTTTA
*
4797207 AATTTT-TTTAAATTTTAA
1 AATTTTATTAAAATTTT-A
4797225 AATTTT
1 AATTTT
4797231 CCATCCATCT
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
17 9 0.43
18 12 0.57
ACGTcount: A:0.38, C:0.00, G:0.00, T:0.62
Consensus pattern (18 bp):
AATTTTATTAAAATTTTA
Found at i:4797321 original size:22 final size:22
Alignment explanation
Indices: 4797299--4797340 Score: 59
Period size: 22 Copynumber: 2.0 Consensus size: 22
4797289 AAGTTTTTAT
*
4797299 TTAAT-TTATTTATTTATATTA
1 TTAATATTATTTAATTATATTA
*
4797320 TTATTATTATTTAATTATATT
1 TTAATATTATTTAATTATATT
4797341 CTATTTGCTC
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
21 4 0.22
22 14 0.78
ACGTcount: A:0.33, C:0.00, G:0.00, T:0.67
Consensus pattern (22 bp):
TTAATATTATTTAATTATATTA
Found at i:4797484 original size:15 final size:16
Alignment explanation
Indices: 4797464--4797497 Score: 52
Period size: 16 Copynumber: 2.2 Consensus size: 16
4797454 TATCATGTGG
*
4797464 ATTTT-ATTTTTAATA
1 ATTTTAATTTTTAAAA
4797479 ATTTTAATTTTTAAAA
1 ATTTTAATTTTTAAAA
4797495 ATT
1 ATT
4797498 AAAAAATGAT
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
15 5 0.29
16 12 0.71
ACGTcount: A:0.38, C:0.00, G:0.00, T:0.62
Consensus pattern (16 bp):
ATTTTAATTTTTAAAA
Found at i:4804255 original size:33 final size:33
Alignment explanation
Indices: 4804218--4804282 Score: 121
Period size: 33 Copynumber: 2.0 Consensus size: 33
4804208 CATGCAAATA
4804218 TCAACATGATTGAACGTATTAGATAATAACCCG
1 TCAACATGATTGAACGTATTAGATAATAACCCG
*
4804251 TCAACATGATTGAACGTATTAGATAGTAACCC
1 TCAACATGATTGAACGTATTAGATAATAACCC
4804283 TCACTTACTA
Statistics
Matches: 31, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
33 31 1.00
ACGTcount: A:0.38, C:0.18, G:0.15, T:0.28
Consensus pattern (33 bp):
TCAACATGATTGAACGTATTAGATAATAACCCG
Found at i:4806643 original size:181 final size:182
Alignment explanation
Indices: 4806328--4806692 Score: 723
Period size: 181 Copynumber: 2.0 Consensus size: 182
4806318 TTTAATGTTT
4806328 TTGAGATAAAAATAAAAAATTTAAAATTTTGTACTACTGACTTGGAGTTCCACTATTCCATGATT
1 TTGAGATAAAAATAAAAAATTTAAAATTTTGTACTACTGACTTGGAGTTCCACTATTCCATGATT
4806393 ATAGTTTCTTTTACTTTTCCTACTAATTAAGAAAGATTGTTGATTTAATTTAGATTTATAGCGAC
66 ATAGTTTCTTTTACTTTTCCTACTAATTAAGAAAGATTGTTGATTTAATTTAGATTTATAGCGAC
4806458 TACATGAAGAGCTTCAGGGAGGCAATGCAAGATCTTATTGAAGCTGGAGTGA
131 TACATGAAGAGCTTCAGGGAGGCAATGCAAGATCTTATTGAAGCTGGAGTGA
4806510 TTGAGATAAAAATAAAAAATTTAAAATTTTGTACTACTGACTTGGAGTTCCACTATTCCATGATT
1 TTGAGATAAAAATAAAAAATTTAAAATTTTGTACTACTGACTTGGAGTTCCACTATTCCATGATT
4806575 AT-GTTTCTTTTACTTTTCCTACTAATTAAGAAAGATTGTTGATTTAATTTAGATTTATAGCGAC
66 ATAGTTTCTTTTACTTTTCCTACTAATTAAGAAAGATTGTTGATTTAATTTAGATTTATAGCGAC
4806639 TACATGAAGAGCTTCAGGGAGGCAATGCAAGATCTTATTGAAGCTGGAGTGA
131 TACATGAAGAGCTTCAGGGAGGCAATGCAAGATCTTATTGAAGCTGGAGTGA
4806691 TT
1 TT
4806693 ATAGATATTG
Statistics
Matches: 183, Mismatches: 0, Indels: 1
0.99 0.00 0.01
Matches are distributed among these distances:
181 116 0.63
182 67 0.37
ACGTcount: A:0.34, C:0.12, G:0.18, T:0.37
Consensus pattern (182 bp):
TTGAGATAAAAATAAAAAATTTAAAATTTTGTACTACTGACTTGGAGTTCCACTATTCCATGATT
ATAGTTTCTTTTACTTTTCCTACTAATTAAGAAAGATTGTTGATTTAATTTAGATTTATAGCGAC
TACATGAAGAGCTTCAGGGAGGCAATGCAAGATCTTATTGAAGCTGGAGTGA
Found at i:4809365 original size:18 final size:19
Alignment explanation
Indices: 4809338--4809377 Score: 55
Period size: 19 Copynumber: 2.2 Consensus size: 19
4809328 GTTCCAAATT
* *
4809338 AATAATAATT-TCAGATAA
1 AATAAGAATTATCAAATAA
4809356 AATAAGAATTATCAAATAA
1 AATAAGAATTATCAAATAA
4809375 AAT
1 AAT
4809378 TAAATACTAT
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
18 9 0.47
19 10 0.53
ACGTcount: A:0.60, C:0.05, G:0.05, T:0.30
Consensus pattern (19 bp):
AATAAGAATTATCAAATAA
Found at i:4823417 original size:2 final size:2
Alignment explanation
Indices: 4823410--4823440 Score: 62
Period size: 2 Copynumber: 15.5 Consensus size: 2
4823400 CAGATTAGGA
4823410 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
4823441 GAGAGAGAGA
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 29 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:4823445 original size:2 final size:2
Alignment explanation
Indices: 4823440--4823473 Score: 61
Period size: 2 Copynumber: 17.5 Consensus size: 2
4823430 ATATATATAT
4823440 AG AG AG AG AG AG AG A- AG AG AG AG AG AG AG AG AG A
1 AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG A
4823474 TCTTGCACTC
Statistics
Matches: 31, Mismatches: 0, Indels: 2
0.94 0.00 0.06
Matches are distributed among these distances:
1 1 0.03
2 30 0.97
ACGTcount: A:0.53, C:0.00, G:0.47, T:0.00
Consensus pattern (2 bp):
AG
Found at i:4831392 original size:16 final size:17
Alignment explanation
Indices: 4831365--4831396 Score: 57
Period size: 16 Copynumber: 1.9 Consensus size: 17
4831355 TTTATTTATT
4831365 ATTATAATATTAAAAAA
1 ATTATAATATTAAAAAA
4831382 ATTAT-ATATTAAAAA
1 ATTATAATATTAAAAA
4831397 TTAAAATTAA
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
16 10 0.67
17 5 0.33
ACGTcount: A:0.62, C:0.00, G:0.00, T:0.38
Consensus pattern (17 bp):
ATTATAATATTAAAAAA
Found at i:4831670 original size:17 final size:17
Alignment explanation
Indices: 4831648--4831685 Score: 67
Period size: 17 Copynumber: 2.2 Consensus size: 17
4831638 TGAACATAGT
4831648 AATATATGGCTACAAAA
1 AATATATGGCTACAAAA
*
4831665 AATATATGGCTATAAAA
1 AATATATGGCTACAAAA
4831682 AATA
1 AATA
4831686 CACCAGAAGA
Statistics
Matches: 20, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
17 20 1.00
ACGTcount: A:0.55, C:0.08, G:0.11, T:0.26
Consensus pattern (17 bp):
AATATATGGCTACAAAA
Found at i:4836276 original size:15 final size:16
Alignment explanation
Indices: 4836250--4836279 Score: 53
Period size: 15 Copynumber: 1.9 Consensus size: 16
4836240 TTTTTAATTT
4836250 TTAAAAATTAAAATCA
1 TTAAAAATTAAAATCA
4836266 TTAAAAA-TAAAATC
1 TTAAAAATTAAAATC
4836280 CACATAATAG
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
15 7 0.50
16 7 0.50
ACGTcount: A:0.63, C:0.07, G:0.00, T:0.30
Consensus pattern (16 bp):
TTAAAAATTAAAATCA
Found at i:4836549 original size:9 final size:9
Alignment explanation
Indices: 4836535--4836588 Score: 65
Period size: 9 Copynumber: 5.9 Consensus size: 9
4836525 AATATGGATG
4836535 AAAAAATTT
1 AAAAAATTT
4836544 AAAAAA-TT
1 AAAAAATTT
*
4836552 AAAAAAATT
1 AAAAAATTT
*
4836561 AAAAAAATT
1 AAAAAATTT
4836570 AAAAAATTT
1 AAAAAATTT
4836579 GAATAAAATT
1 -AA-AAAATT
4836589 GAATGATATT
Statistics
Matches: 41, Mismatches: 1, Indels: 4
0.89 0.02 0.09
Matches are distributed among these distances:
8 8 0.20
9 25 0.61
10 2 0.05
11 6 0.15
ACGTcount: A:0.70, C:0.00, G:0.02, T:0.28
Consensus pattern (9 bp):
AAAAAATTT
Found at i:4836557 original size:17 final size:18
Alignment explanation
Indices: 4836535--4836588 Score: 74
Period size: 18 Copynumber: 2.9 Consensus size: 18
4836525 AATATGGATG
4836535 AAAAAATTTAAAAAATTA
1 AAAAAATTTAAAAAATTA
*
4836553 AAAAAATTAAAAAAATT-
1 AAAAAATTTAAAAAATTA
4836570 AAAAAATTTGAATAAAATT
1 AAAAAATTT-AA-AAAATT
4836589 GAATGATATT
Statistics
Matches: 32, Mismatches: 2, Indels: 3
0.86 0.05 0.08
Matches are distributed among these distances:
17 8 0.25
18 18 0.56
19 6 0.19
ACGTcount: A:0.70, C:0.00, G:0.02, T:0.28
Consensus pattern (18 bp):
AAAAAATTTAAAAAATTA
Found at i:4836577 original size:8 final size:9
Alignment explanation
Indices: 4836535--4836575 Score: 73
Period size: 9 Copynumber: 4.6 Consensus size: 9
4836525 AATATGGATG
*
4836535 AAAAAATTT
1 AAAAAATTA
4836544 AAAAAATTA
1 AAAAAATTA
4836553 AAAAAATTA
1 AAAAAATTA
4836562 AAAAAATTA
1 AAAAAATTA
4836571 AAAAA
1 AAAAA
4836576 TTTGAATAAA
Statistics
Matches: 31, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
9 31 1.00
ACGTcount: A:0.78, C:0.00, G:0.00, T:0.22
Consensus pattern (9 bp):
AAAAAATTA
Found at i:4838318 original size:21 final size:21
Alignment explanation
Indices: 4838294--4838337 Score: 79
Period size: 21 Copynumber: 2.1 Consensus size: 21
4838284 GACTTTTCAC
4838294 ACCATTGAACAAAGGAATAGA
1 ACCATTGAACAAAGGAATAGA
*
4838315 ACCATTGAACAAAGGAATTGA
1 ACCATTGAACAAAGGAATAGA
4838336 AC
1 AC
4838338 TCAAGGCAGA
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:0.50, C:0.16, G:0.18, T:0.16
Consensus pattern (21 bp):
ACCATTGAACAAAGGAATAGA
Found at i:4845971 original size:20 final size:19
Alignment explanation
Indices: 4845948--4845998 Score: 52
Period size: 20 Copynumber: 2.6 Consensus size: 19
4845938 CAAATGATGC
4845948 CAAAAAGAAAAACAAACAAA
1 CAAAAAGAAAAACAAA-AAA
*
4845968 CAAAACA-AAAAAGAAAAAA
1 CAAAA-AGAAAAACAAAAAA
4845987 -AACAAAGAAAAA
1 CAA-AAAGAAAAA
4845999 TCAACCTGCA
Statistics
Matches: 27, Mismatches: 1, Indels: 7
0.77 0.03 0.20
Matches are distributed among these distances:
18 3 0.11
19 10 0.37
20 13 0.48
21 1 0.04
ACGTcount: A:0.82, C:0.12, G:0.06, T:0.00
Consensus pattern (19 bp):
CAAAAAGAAAAACAAAAAA
Found at i:4845976 original size:25 final size:25
Alignment explanation
Indices: 4845949--4845997 Score: 80
Period size: 25 Copynumber: 1.9 Consensus size: 25
4845939 AAATGATGCC
4845949 AAAAAGAAAAACAAACAAACAAAACA
1 AAAAAGAAAAA-AAACAAACAAAACA
*
4845975 AAAAAGAAAAAAAACAAAGAAAA
1 AAAAAGAAAAAAAACAAACAAAA
4845998 ATCAACCTGC
Statistics
Matches: 22, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
25 11 0.50
26 11 0.50
ACGTcount: A:0.84, C:0.10, G:0.06, T:0.00
Consensus pattern (25 bp):
AAAAAGAAAAAAAACAAACAAAACA
Found at i:4845998 original size:13 final size:13
Alignment explanation
Indices: 4845951--4845998 Score: 62
Period size: 13 Copynumber: 3.7 Consensus size: 13
4845941 ATGATGCCAA
4845951 AAAGAAAAACAAAC
1 AAAGAAAAA-AAAC
* *
4845965 AAACAAAACAAA-
1 AAAGAAAAAAAAC
4845977 AAAGAAAAAAAAC
1 AAAGAAAAAAAAC
4845990 AAAGAAAAA
1 AAAGAAAAA
4845999 TCAACCTGCA
Statistics
Matches: 29, Mismatches: 4, Indels: 3
0.81 0.11 0.08
Matches are distributed among these distances:
12 10 0.34
13 12 0.41
14 7 0.24
ACGTcount: A:0.83, C:0.10, G:0.06, T:0.00
Consensus pattern (13 bp):
AAAGAAAAAAAAC
Found at i:4845998 original size:26 final size:26
Alignment explanation
Indices: 4845949--4845998 Score: 75
Period size: 26 Copynumber: 1.9 Consensus size: 26
4845939 AAATGATGCC
*
4845949 AAAAAGAAAAACAAACAAACAAAACA
1 AAAAAGAAAAACAAACAAAAAAAACA
4845975 AAAAAGAAAAA-AAACAAAGAAAAA
1 AAAAAGAAAAACAAACAAA-AAAAA
4845999 TCAACCTGCA
Statistics
Matches: 22, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
25 7 0.32
26 15 0.68
ACGTcount: A:0.84, C:0.10, G:0.06, T:0.00
Consensus pattern (26 bp):
AAAAAGAAAAACAAACAAAAAAAACA
Found at i:4848071 original size:3 final size:3
Alignment explanation
Indices: 4848063--4848102 Score: 64
Period size: 3 Copynumber: 13.7 Consensus size: 3
4848053 CATTTTGTAC
*
4848063 TTA TTA TTA TTA TTA TTA TTA TTA TTA TT- TTA TTT TTA TT
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TT
4848103 TGTCGATGCA
Statistics
Matches: 34, Mismatches: 2, Indels: 2
0.89 0.05 0.05
Matches are distributed among these distances:
2 2 0.06
3 32 0.94
ACGTcount: A:0.28, C:0.00, G:0.00, T:0.72
Consensus pattern (3 bp):
TTA
Found at i:4849885 original size:35 final size:34
Alignment explanation
Indices: 4849832--4849898 Score: 100
Period size: 35 Copynumber: 1.9 Consensus size: 34
4849822 TTTAAGGTAT
*
4849832 TATTTAGATATTTGTTTTT-AGTTATTTAAATTGA
1 TATTTAGATATTTATTTTTGA-TTATTTAAATTGA
4849866 TATTTGAGATATTTATTTTTGATTATTTAAATT
1 TATTT-AGATATTTATTTTTGATTATTTAAATT
4849899 TAAATTTTAT
Statistics
Matches: 30, Mismatches: 1, Indels: 3
0.88 0.03 0.09
Matches are distributed among these distances:
34 5 0.17
35 24 0.80
36 1 0.03
ACGTcount: A:0.30, C:0.00, G:0.10, T:0.60
Consensus pattern (34 bp):
TATTTAGATATTTATTTTTGATTATTTAAATTGA
Found at i:4858827 original size:13 final size:13
Alignment explanation
Indices: 4858811--4858835 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
4858801 AACTATAATT
4858811 TTTTTATATATTC
1 TTTTTATATATTC
4858824 TTTTTATATATT
1 TTTTTATATATT
4858836 TTAAAGGTGT
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.24, C:0.04, G:0.00, T:0.72
Consensus pattern (13 bp):
TTTTTATATATTC
Found at i:4866862 original size:15 final size:16
Alignment explanation
Indices: 4866835--4866865 Score: 55
Period size: 16 Copynumber: 2.0 Consensus size: 16
4866825 TCTTTTATCC
4866835 TTCTTTTTCCCTCTTT
1 TTCTTTTTCCCTCTTT
4866851 TTCTTTTT-CCTCTTT
1 TTCTTTTTCCCTCTTT
4866866 CCTTTTCCCC
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
15 7 0.47
16 8 0.53
ACGTcount: A:0.00, C:0.29, G:0.00, T:0.71
Consensus pattern (16 bp):
TTCTTTTTCCCTCTTT
Found at i:4868230 original size:97 final size:100
Alignment explanation
Indices: 4868128--4868307 Score: 262
Period size: 102 Copynumber: 1.8 Consensus size: 100
4868118 TTCTTTCCTT
* *
4868128 CTTTTTATTATTGTTTAT-TAAATTTATAA-T-TT-TCTACTGAAT-TAAATTAATTCAATAATA
1 CTTTTTATTATTGTCTATATAAATTTAAAATTATTATCTA-TGAATATAAATTAATTCAATAATA
4868188 AAATATATTTTTACCTCAACATTTATATTTTTGTCTC
65 AAA-ATATTTTTACCTCAACATTTATATTTTTGTCTC
* *
4868225 CTTTTTATTATTGTCTATATAAATTTAAAATTATTAATTTATTAATATAAATTAATTCAATAATA
1 CTTTTTATTATTGTCTATATAAATTTAAAATTATT-ATCTATGAATATAAATTAATTCAATAATA
4868290 AAAATATTTTTACCTCAA
65 AAAATATTTTTACCTCAA
4868308 TAATAACGAA
Statistics
Matches: 73, Mismatches: 4, Indels: 8
0.86 0.05 0.09
Matches are distributed among these distances:
97 17 0.23
98 10 0.14
99 1 0.01
100 2 0.03
101 19 0.26
102 24 0.33
ACGTcount: A:0.38, C:0.09, G:0.02, T:0.51
Consensus pattern (100 bp):
CTTTTTATTATTGTCTATATAAATTTAAAATTATTATCTATGAATATAAATTAATTCAATAATAA
AAATATTTTTACCTCAACATTTATATTTTTGTCTC
Found at i:4871978 original size:28 final size:27
Alignment explanation
Indices: 4871954--4872105 Score: 128
Period size: 28 Copynumber: 5.6 Consensus size: 27
4871944 GTCATGTTTT
4871954 AAAATTTAGTTGTTACACACTATGTTG
1 AAAATTTAGTTGTTACACACTATGTTG
* * * **
4871981 AATAATGTAGATGTTATACGTTATGTTG
1 AA-AATTTAGTTGTTACACACTATGTTG
* * *
4872009 AAAATTTAGTTGTTACACCCCATATTG
1 AAAATTTAGTTGTTACACACTATGTTG
* **
4872036 AAAA-ATA-TTGTTACATGCTATGTTG
1 AAAATTTAGTTGTTACACACTATGTTG
* * * *
4872061 AAAATTTTAGTTGTTATATACCATGATG
1 AAAA-TTTAGTTGTTACACACTATGTTG
4872089 AAAAATTTAGTTGTTAC
1 -AAAATTTAGTTGTTAC
4872106 CTAACTATTC
Statistics
Matches: 97, Mismatches: 23, Indels: 9
0.75 0.18 0.07
Matches are distributed among these distances:
25 18 0.19
26 2 0.02
27 26 0.27
28 47 0.48
29 4 0.04
ACGTcount: A:0.35, C:0.09, G:0.15, T:0.41
Consensus pattern (27 bp):
AAAATTTAGTTGTTACACACTATGTTG
Found at i:4871988 original size:55 final size:55
Alignment explanation
Indices: 4871923--4872041 Score: 150
Period size: 55 Copynumber: 2.2 Consensus size: 55
4871913 TTGTGCCATC
*
4871923 TTGAAAAATGTAG-TGTCACACGTCATGTTTTAAAATTTAGTTGTTACACACTATG
1 TTGAAAAATGTAGATGTCACACGTCATG-TTGAAAATTTAGTTGTTACACACTATG
* * * * * * *
4871978 TTGAATAATGTAGATGTTATACGTTATGTTGAAAATTTAGTTGTTACACCCCATA
1 TTGAAAAATGTAGATGTCACACGTCATGTTGAAAATTTAGTTGTTACACACTATG
4872033 TTGAAAAAT
1 TTGAAAAAT
4872042 ATTGTTACAT
Statistics
Matches: 54, Mismatches: 9, Indels: 2
0.83 0.14 0.03
Matches are distributed among these distances:
55 43 0.80
56 11 0.20
ACGTcount: A:0.34, C:0.11, G:0.16, T:0.39
Consensus pattern (55 bp):
TTGAAAAATGTAGATGTCACACGTCATGTTGAAAATTTAGTTGTTACACACTATG
Done.