Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: CP032252.1 Gossypioides kirkii chromosome KI_10
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: 47257441
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
Warning! 3600 characters in sequence are not A, C, G, or T
File 28 of 163
Found at i:7488554 original size:117 final size:117
Alignment explanation
Indices: 7488093--7488521 Score: 589
Period size: 117 Copynumber: 3.7 Consensus size: 117
7488083 GAAACTTTCT
*
7488093 AAAAATTACCATTTTACCCCCAAACTTTCCAAAATTTCATTTTTGACCTCGATTTCACCAAAAAT
1 AAAAATTACCATTTTACCCCCAAACTTTCCAAAATTCCATTTTTGACC-CGATTTCACCAAAAAT
* **
7488158 TATCATTTTACCCCTGAACTTTCCAAAATTCCATTTTTAACCCAAATTTCACC
65 TACCATTTTACCCCTGAACTTTCCAAAATTCCATTTTTAACCCCGATTTCACC
* * * * * *
7488211 AAAAATTACCATTTTACTCTCGAACTTTCCAAAATTCTA-TTTTGACCCTTATTTCATCAAAAAT
1 AAAAATTACCATTTTACCCCCAAACTTTCCAAAATTCCATTTTTGACCC-GATTTCACCAAAAAT
*
7488275 TACTATTTTACCCCTGAACTTTCCAAAATTCCATTTTTAACCCCGATTTCACC
65 TACCATTTTACCCCTGAACTTTCCAAAATTCCATTTTTAACCCCGATTTCACC
* *
7488328 AAAAATTACCA-TTTA-CCTCAAACTTTCCAAAATTCCATTTTTGATCTCGATTTCACCAAAAAT
1 AAAAATTACCATTTTACCCCCAAACTTTCCAAAATTCCATTTTTGA-CCCGATTTCACCAAAAAT
* * *
7488391 TACCATTTTACCCCT-AAGCTTTCCAAAATTTCATTTTTGACCCCGATTTTACC
65 TACCATTTTACCCCTGAA-CTTTCCAAAATTCCATTTTTAACCCCGATTTCACC
** * *
7488444 AAAAATTACCATTTTACCCCCAAACTTTCCAAAATTCCCGTTTTGACCCAATTTCAATC-AAAAT
1 AAAAATTACCATTTTACCCCCAAACTTTCCAAAATTCCATTTTTGACCCGATTTC-ACCAAAAAT
*
7488508 TACCATTTTTCCCC
65 TACCATTTTACCCC
7488522 GAGCATCCAA
Statistics
Matches: 276, Mismatches: 28, Indels: 15
0.87 0.09 0.05
Matches are distributed among these distances:
115 21 0.08
116 81 0.29
117 112 0.41
118 62 0.22
ACGTcount: A:0.33, C:0.28, G:0.03, T:0.36
Consensus pattern (117 bp):
AAAAATTACCATTTTACCCCCAAACTTTCCAAAATTCCATTTTTGACCCGATTTCACCAAAAATT
ACCATTTTACCCCTGAACTTTCCAAAATTCCATTTTTAACCCCGATTTCACC
Found at i:7494366 original size:19 final size:19
Alignment explanation
Indices: 7494338--7494386 Score: 57
Period size: 17 Copynumber: 2.6 Consensus size: 19
7494328 TTGAAATTAT
*
7494338 TATAATTTTTTCAAAAAATA
1 TATAAATTTTT-AAAAAATA
7494358 TA-AAA-TTTTAAAAAATA
1 TATAAATTTTTAAAAAATA
*
7494375 TATAAATATTTA
1 TATAAATTTTTA
7494387 GAAATTTGAA
Statistics
Matches: 25, Mismatches: 2, Indels: 5
0.78 0.06 0.16
Matches are distributed among these distances:
17 10 0.40
18 7 0.28
19 6 0.24
20 2 0.08
ACGTcount: A:0.55, C:0.02, G:0.00, T:0.43
Consensus pattern (19 bp):
TATAAATTTTTAAAAAATA
Found at i:7494372 original size:17 final size:18
Alignment explanation
Indices: 7494345--7494386 Score: 59
Period size: 17 Copynumber: 2.3 Consensus size: 18
7494335 TATTATAATT
7494345 TTTTCAAAAAATATA-AAA
1 TTTT-AAAAAATATATAAA
7494363 TTTTAAAAAATATATAAA
1 TTTTAAAAAATATATAAA
7494381 TATTTA
1 T-TTTA
7494387 GAAATTTGAA
Statistics
Matches: 22, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
17 10 0.45
18 8 0.36
19 4 0.18
ACGTcount: A:0.57, C:0.02, G:0.00, T:0.40
Consensus pattern (18 bp):
TTTTAAAAAATATATAAA
Found at i:7494417 original size:19 final size:20
Alignment explanation
Indices: 7494395--7494433 Score: 71
Period size: 20 Copynumber: 2.0 Consensus size: 20
7494385 TAGAAATTTG
7494395 AAAATTA-TTTGAATTTTTT
1 AAAATTACTTTGAATTTTTT
7494414 AAAATTACTTTGAATTTTTT
1 AAAATTACTTTGAATTTTTT
7494434 GTAACTTTTG
Statistics
Matches: 19, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
19 7 0.37
20 12 0.63
ACGTcount: A:0.36, C:0.03, G:0.05, T:0.56
Consensus pattern (20 bp):
AAAATTACTTTGAATTTTTT
Found at i:7505285 original size:30 final size:28
Alignment explanation
Indices: 7505224--7505301 Score: 113
Period size: 30 Copynumber: 2.8 Consensus size: 28
7505214 ACTTTTTTCT
*
7505224 AATTTGGTACCTAAATTT-TTTTTACTC
1 AATTTGGTACCTAAATTTATTTTGACTC
*
7505251 AATTTGGTACCTAAACTTTATTTTAGATTC
1 AATTTGGTACCTAAA-TTTATTTT-GACTC
7505281 AATTTGGTACCTAAATTTATT
1 AATTTGGTACCTAAATTTATT
7505302 AAATATTATA
Statistics
Matches: 46, Mismatches: 2, Indels: 4
0.88 0.04 0.08
Matches are distributed among these distances:
27 15 0.33
28 3 0.07
29 10 0.22
30 18 0.39
ACGTcount: A:0.29, C:0.13, G:0.09, T:0.49
Consensus pattern (28 bp):
AATTTGGTACCTAAATTTATTTTGACTC
Found at i:7505578 original size:60 final size:59
Alignment explanation
Indices: 7505440--7505598 Score: 183
Period size: 59 Copynumber: 2.7 Consensus size: 59
7505430 TTAAAAAAAA
* ** * * ** *
7505440 TAAGTACCCAATTAGAAAAAAAAGTCAAGTTCAGGTACCAAATTGGACCCCAAAAAGTT
1 TAAGTACCAAATTAGAAAAAAGTGTCAAGTTTAAGTACCAAATTGGACCAAAAAAAGCT
* * *
7505499 TAAGTACCAACTTAAAAAAAAGTGTCAAGTTTGAGTACCAAATTGGACCAAAAAAAAGCT
1 TAAGTACCAAATTAGAAAAAAGTGTCAAGTTTAAGTACCAAATTGGACC-AAAAAAAGCT
* * *
7505559 TAGGTACCAAATTAGAAAAAAGTGTTAAGTTCAAGTACCA
1 TAAGTACCAAATTAGAAAAAAGTGTCAAGTTTAAGTACCA
7505599 TACATTATAT
Statistics
Matches: 82, Mismatches: 17, Indels: 1
0.82 0.17 0.01
Matches are distributed among these distances:
59 41 0.50
60 41 0.50
ACGTcount: A:0.47, C:0.16, G:0.16, T:0.22
Consensus pattern (59 bp):
TAAGTACCAAATTAGAAAAAAGTGTCAAGTTTAAGTACCAAATTGGACCAAAAAAAGCT
Found at i:7510953 original size:59 final size:59
Alignment explanation
Indices: 7510881--7511000 Score: 195
Period size: 59 Copynumber: 2.0 Consensus size: 59
7510871 CTCATGAACA
*
7510881 TTTGGGGGTAAAATTGTAATTTTTGAAAAAATTGAGGTCAAAAATGGAATTTTGGAAAG
1 TTTGGGGGTAAAATTGTAATTTTTGAAAAAATTAAGGTCAAAAATGGAATTTTGGAAAG
* * * *
7510940 TTTGGGGGTAAAATTGTATTTTTTGAAGAATTTAAGGTTAAAAATGGAATTTTGGAAAG
1 TTTGGGGGTAAAATTGTAATTTTTGAAAAAATTAAGGTCAAAAATGGAATTTTGGAAAG
7510999 TT
1 TT
7511001 CAGGGGTTAA
Statistics
Matches: 56, Mismatches: 5, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
59 56 1.00
ACGTcount: A:0.37, C:0.01, G:0.25, T:0.38
Consensus pattern (59 bp):
TTTGGGGGTAAAATTGTAATTTTTGAAAAAATTAAGGTCAAAAATGGAATTTTGGAAAG
Found at i:7511007 original size:59 final size:59
Alignment explanation
Indices: 7510885--7511013 Score: 186
Period size: 59 Copynumber: 2.2 Consensus size: 59
7510875 TGAACATTTG
* **
7510885 GGGGTAAAATTGTAATTTTTGAAAAAATTGAGGTCAAAAATGGAATTTTGGAAAGTTTG
1 GGGGTAAAATTGTAATTTTTGAAAAAATTAAGGTCAAAAATGGAATTTTGGAAAGTTCA
* * * *
7510944 GGGGTAAAATTGTATTTTTTGAAGAATTTAAGGTTAAAAATGGAATTTTGGAAAGTTCA
1 GGGGTAAAATTGTAATTTTTGAAAAAATTAAGGTCAAAAATGGAATTTTGGAAAGTTCA
7511003 GGGGTTAAAAT
1 GGGG-TAAAAT
7511014 ATGATTTCTA
Statistics
Matches: 62, Mismatches: 7, Indels: 1
0.89 0.10 0.01
Matches are distributed among these distances:
59 56 0.90
60 6 0.10
ACGTcount: A:0.38, C:0.02, G:0.26, T:0.35
Consensus pattern (59 bp):
GGGGTAAAATTGTAATTTTTGAAAAAATTAAGGTCAAAAATGGAATTTTGGAAAGTTCA
Found at i:7511009 original size:30 final size:29
Alignment explanation
Indices: 7510920--7511012 Score: 80
Period size: 30 Copynumber: 3.1 Consensus size: 29
7510910 AATTGAGGTC
* *
7510920 AAAAATGGAATTTTGGAAAGTTTGGGGGT
1 AAAAATGGAATTTTGGAAAGTTAGGGGTT
* * * * * *
7510949 AAAATTGTATTTTTTGAAGAATTTA-AGGTT
1 AAAAATGGA-ATTTTGGA-AAGTTAGGGGTT
7510979 AAAAATGGAATTTTGGAAAGTTCAGGGGTT
1 AAAAATGGAATTTTGGAAAGTT-AGGGGTT
7511009 AAAA
1 AAAA
7511013 TATGATTTCT
Statistics
Matches: 46, Mismatches: 14, Indels: 7
0.69 0.21 0.10
Matches are distributed among these distances:
28 4 0.09
29 14 0.30
30 24 0.52
31 4 0.09
ACGTcount: A:0.39, C:0.01, G:0.26, T:0.34
Consensus pattern (29 bp):
AAAAATGGAATTTTGGAAAGTTAGGGGTT
Found at i:7511031 original size:59 final size:59
Alignment explanation
Indices: 7510884--7511032 Score: 160
Period size: 59 Copynumber: 2.5 Consensus size: 59
7510874 ATGAACATTT
* * * * *
7510884 GGGGGTAAAATTGTAATTT-TTGAAAAAATTGAGGTCAAAAATGGAATTTTGGAAAGTTT
1 GGGGGTAAAATTGT-ATTTCTAGAACAATTTAAGGTCAAAAATGGAATTTTGGAAAGTTA
* * * *
7510943 GGGGGTAAAATTGTATTTTTTGAAGAATTTAAGGTTAAAAATGGAATTTTGGAAAGTTCA
1 GGGGGTAAAATTGTATTTCTAGAACAATTTAAGGTCAAAAATGGAATTTTGGAAAGTT-A
*
7511003 GGGGTTAAAATATG-ATTTCTAG-ACAATTTA
1 GGGGGTAAAAT-TGTATTTCTAGAACAATTTA
7511033 GGGGCCTCTA
Statistics
Matches: 78, Mismatches: 9, Indels: 6
0.84 0.10 0.06
Matches are distributed among these distances:
58 4 0.05
59 56 0.72
60 16 0.21
61 2 0.03
ACGTcount: A:0.38, C:0.03, G:0.24, T:0.36
Consensus pattern (59 bp):
GGGGGTAAAATTGTATTTCTAGAACAATTTAAGGTCAAAAATGGAATTTTGGAAAGTTA
Found at i:7512631 original size:22 final size:23
Alignment explanation
Indices: 7512577--7512636 Score: 68
Period size: 23 Copynumber: 2.7 Consensus size: 23
7512567 TAGTTCTCCA
7512577 AAATCCTAAAAATAATAAAAGAT
1 AAATCCTAAAAATAATAAAAGAT
* * * * *
7512600 AATTCTTAAAAATATTTAAA-TT
1 AAATCCTAAAAATAATAAAAGAT
7512622 AAATCCTAAAAATAA
1 AAATCCTAAAAATAA
7512637 AAGATAATTT
Statistics
Matches: 29, Mismatches: 8, Indels: 1
0.76 0.21 0.03
Matches are distributed among these distances:
22 13 0.45
23 16 0.55
ACGTcount: A:0.60, C:0.08, G:0.02, T:0.30
Consensus pattern (23 bp):
AAATCCTAAAAATAATAAAAGAT
Found at i:7512701 original size:23 final size:23
Alignment explanation
Indices: 7512673--7512730 Score: 75
Period size: 23 Copynumber: 2.5 Consensus size: 23
7512663 AATCCATCCT
7512673 TGCTGACTGGA-CTTTCT-AGAAGC
1 TGCTGACTGGATCTTT-TGA-AAGC
*
7512696 TGCTGACTGAATCTTTTGAAAGC
1 TGCTGACTGGATCTTTTGAAAGC
7512719 TGCTGACTGGAT
1 TGCTGACTGGAT
7512731 GTCATGTCAG
Statistics
Matches: 31, Mismatches: 2, Indels: 4
0.84 0.05 0.11
Matches are distributed among these distances:
23 26 0.84
24 5 0.16
ACGTcount: A:0.22, C:0.19, G:0.26, T:0.33
Consensus pattern (23 bp):
TGCTGACTGGATCTTTTGAAAGC
Found at i:7514187 original size:17 final size:17
Alignment explanation
Indices: 7514157--7514217 Score: 77
Period size: 17 Copynumber: 3.6 Consensus size: 17
7514147 TTTTTAATTT
7514157 AAAATAAATTTAAACTC
1 AAAATAAATTTAAACTC
* * * *
7514174 AAAGTAAGTTTAAATTT
1 AAAATAAATTTAAACTC
*
7514191 AAAATAAATTTAAACTT
1 AAAATAAATTTAAACTC
7514208 AAAATAAATT
1 AAAATAAATT
7514218 AAAGTTTTAA
Statistics
Matches: 37, Mismatches: 7, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
17 37 1.00
ACGTcount: A:0.57, C:0.05, G:0.03, T:0.34
Consensus pattern (17 bp):
AAAATAAATTTAAACTC
Found at i:7514787 original size:48 final size:48
Alignment explanation
Indices: 7514668--7515116 Score: 248
Period size: 48 Copynumber: 9.3 Consensus size: 48
7514658 TCCACCGTTG
* * * * * *
7514668 CTTAAAT-TTTCCTTTCATGTTTCTGAGGTA-TAGGGTCCGTCATTGCAA
1 CTTAAATCTTTCCTTT-ATGTCTCCGAGGTACT-GGATCCGCCGTTGCGA
* * * *
7514716 CTTAAACCTTTCCCTTTTTGTCTCCGTGGTACTGGATCCGCTGTTGCGA
1 CTTAAATCTTT-CCTTTATGTCTCCGAGGTACTGGATCCGCCGTTGCGA
* ** * *
7514765 CTTAGATCTTTCCTTTATGTCTCTAAGGTACTAGG-TTCGCCATTGCGA
1 CTTAAATCTTTCCTTTATGTCTCCGAGGTACT-GGATCCGCCGTTGCGA
* * * * * * *
7514813 CTTAAACCTTTCCCTTGTGTCTTCGTGGTACTGGATCCGTCGTTGCGG
1 CTTAAATCTTTCCTTTATGTCTCCGAGGTACTGGATCCGCCGTTGCGA
* * * **
7514861 CTTAAATCTTTTCTTACATGTCTCTGAGGTACTAGG-TTTGCCGTTGCGA
1 CTTAAATCTTTCCTT-TATGTCTCCGAGGTACT-GGATCCGCCGTTGCGA
* * * * * * *
7514910 CTTAAACCTTTCCCTTATGTCTTCGTGGTACTGGATCTGTCGTTGCGG
1 CTTAAATCTTTCCTTTATGTCTCCGAGGTACTGGATCCGCCGTTGCGA
* * * * * * * ***
7514958 TTTAGATCTTTCCCTTCATGTCTCTGAGGTACTAGATTCGCCATTTTAA
1 CTTAAATCTTT-CCTTTATGTCTCCGAGGTACTGGATCCGCCGTTGCGA
* * * *
7515007 CTTAAA-CTTTTCCCTTGTGTCTTC-ATGGTACTGGATCCGCCGTTGCGG
1 CTTAAATC-TTTCCTTTATGTCTCCGA-GGTACTGGATCCGCCGTTGCGA
* * * * *
7515055 C-TAAGATCTTTCCCTTCATGTCTCTGAGGTACTAGG-TTCACCATTGCGA
1 CTTAA-ATCTTT-CCTTTATGTCTCCGAGGTACT-GGATCCGCCGTTGCGA
*
7515104 CTTAAACCTTTCC
1 CTTAAATCTTTCC
7515117 CTCCATATCT
Statistics
Matches: 290, Mismatches: 94, Indels: 34
0.69 0.22 0.08
Matches are distributed among these distances:
47 8 0.03
48 140 0.48
49 128 0.44
50 14 0.05
ACGTcount: A:0.16, C:0.25, G:0.20, T:0.39
Consensus pattern (48 bp):
CTTAAATCTTTCCTTTATGTCTCCGAGGTACTGGATCCGCCGTTGCGA
Found at i:7514816 original size:97 final size:96
Alignment explanation
Indices: 7514667--7515118 Score: 586
Period size: 97 Copynumber: 4.7 Consensus size: 96
7514657 ATCCACCGTT
* * * * *
7514667 GCTTAAAT-TTTCCTTTCATGTTTCTGAGGTA-TAGGGTCCGTCATTGCAACTTAAACCTTTCCC
1 GCTTAGATCTTTCC-TTCATGTCTCTGAGGTACTA-GGTTCGCCATTGCGACTTAAACCTTTCCC
* *
7514730 TTTTTGTCTCCGTGGTACTGGATCCG-CTGTTGCG
64 -TTGTGTCTTCGTGGTACTGGATCCGTC-GTTGCG
* * *
7514764 ACTTAGATCTTTCCTTTATGTCTCTAAGGTACTAGGTTCGCCATTGCGACTTAAACCTTTCCCTT
1 GCTTAGATCTTTCCTTCATGTCTCTGAGGTACTAGGTTCGCCATTGCGACTTAAACCTTTCCCTT
7514829 GTGTCTTCGTGGTACTGGATCCGTCGTTGCG
66 GTGTCTTCGTGGTACTGGATCCGTCGTTGCG
* * * *
7514860 GCTTAAATCTTTTCTTACATGTCTCTGAGGTACTAGGTTTGCCGTTGCGACTTAAACCTTTCCCT
1 GCTTAGATCTTTCCTT-CATGTCTCTGAGGTACTAGGTTCGCCATTGCGACTTAAACCTTTCCCT
* *
7514925 TATGTCTTCGTGGTACTGGATCTGTCGTTGCG
65 TGTGTCTTCGTGGTACTGGATCCGTCGTTGCG
* * *** *
7514957 GTTTAGATCTTTCCCTTCATGTCTCTGAGGTACTAGATTCGCCATTTTAACTTAAACTTTTCCCT
1 GCTTAGATCTTT-CCTTCATGTCTCTGAGGTACTAGGTTCGCCATTGCGACTTAAACCTTTCCCT
* *
7515022 TGTGTCTTCATGGTACTGGATCCGCCGTTGCG
65 TGTGTCTTCGTGGTACTGGATCCGTCGTTGCG
* *
7515054 GCTAAGATCTTTCCCTTCATGTCTCTGAGGTACTAGGTTCACCATTGCGACTTAAACCTTTCCCT
1 GCTTAGATCTTT-CCTTCATGTCTCTGAGGTACTAGGTTCGCCATTGCGACTTAAACCTTTCCCT
7515119 CCATATCTTC
Statistics
Matches: 309, Mismatches: 41, Indels: 10
0.86 0.11 0.03
Matches are distributed among these distances:
96 42 0.14
97 257 0.83
98 10 0.03
ACGTcount: A:0.16, C:0.25, G:0.20, T:0.39
Consensus pattern (96 bp):
GCTTAGATCTTTCCTTCATGTCTCTGAGGTACTAGGTTCGCCATTGCGACTTAAACCTTTCCCTT
GTGTCTTCGTGGTACTGGATCCGTCGTTGCG
Found at i:7526717 original size:60 final size:58
Alignment explanation
Indices: 7526652--7526782 Score: 140
Period size: 60 Copynumber: 2.2 Consensus size: 58
7526642 GGGAGGGGGG
* * *
7526652 AAATGGTAATTTTGGACA-CTCGGGGATAAAATCACAATTTTTGGGAAAGTTC-GAGGTTAA
1 AAATGG-AATTTTAGACATCTAGGGG-TAAAATCACAATTTTT-GGAAAGTTCAG-GGTCAA
* * **
7526712 AAATGGAATTTTTAGATATCTAGGGGTAAAATGATGATTTTTGGAAAGTTCAGGGTCAA
1 AAATGGAA-TTTTAGACATCTAGGGGTAAAATCACAATTTTTGGAAAGTTCAGGGTCAA
7526771 AAATGGAATTTT
1 AAATGGAATTTT
7526783 TAAAAGTTCG
Statistics
Matches: 61, Mismatches: 7, Indels: 8
0.80 0.09 0.11
Matches are distributed among these distances:
58 4 0.07
59 24 0.39
60 27 0.44
61 6 0.10
ACGTcount: A:0.36, C:0.07, G:0.24, T:0.33
Consensus pattern (58 bp):
AAATGGAATTTTAGACATCTAGGGGTAAAATCACAATTTTTGGAAAGTTCAGGGTCAA
Found at i:7526767 original size:29 final size:30
Alignment explanation
Indices: 7526735--7526817 Score: 75
Period size: 29 Copynumber: 2.8 Consensus size: 30
7526725 AGATATCTAG
7526735 GGGTAAAATGATGATTTTTGGAAAGTTC-A
1 GGGTAAAATGATGATTTTTGGAAAGTTCGA
* *
7526764 GGGTCAAAA--ATGGAATTTTT-AAAAGTTCGG
1 GGGT-AAAATGAT-G-ATTTTTGGAAAGTTCGA
* *
7526794 GGGTAAAATGGTAATTTTTGGAAA
1 GGGTAAAATGATGATTTTTGGAAA
7526818 AATAGGCCAA
Statistics
Matches: 42, Mismatches: 5, Indels: 13
0.70 0.08 0.22
Matches are distributed among these distances:
28 2 0.05
29 22 0.52
30 17 0.40
31 1 0.02
ACGTcount: A:0.36, C:0.04, G:0.28, T:0.33
Consensus pattern (30 bp):
GGGTAAAATGATGATTTTTGGAAAGTTCGA
Found at i:7526797 original size:59 final size:59
Alignment explanation
Indices: 7526734--7526987 Score: 236
Period size: 59 Copynumber: 4.4 Consensus size: 59
7526724 TAGATATCTA
* **
7526734 GGGGTAAAATGATGATTTTTGGAAAGTTCAGGGTCAAAAATGGAATTTTTAAAAGTTCG
1 GGGGTAAAATGATAATTTTTGGAAAAATCAGGGTCAAAAATGGAATTTTTAAAAGTTCG
* * * * **
7526793 GGGGTAAAATGGTAATTTTTGGAAAAAT-A-GG-CCAAAAT-AAAATTTTGGAAGTTCG
1 GGGGTAAAATGATAATTTTTGGAAAAATCAGGGTCAAAAATGGAATTTTTAAAAGTTCG
* * *
7526848 GGGGTAAAATGGTAATTTTATGGGAAAATCAGGGTC-AAAATGGAA-TTTTAGAAAGTTTG
1 GGGGTAAAATGATAATTTT-TGGAAAAATCAGGGTCAAAAATGGAATTTTTA-AAAGTTCG
* ** * ** * **
7526907 GGGATAAAATGATTTTTTTTGGAAAAAT-GGGGTCAAAAATGGAATTTTGGATAGTTTA
1 GGGGTAAAATGATAATTTTTGGAAAAATCAGGGTCAAAAATGGAATTTTTAAAAGTTCG
7526965 GGGGTAAAAAT-ATAATTTTTGGA
1 GGGGT-AAAATGATAATTTTTGGA
7526988 GAATTTAAGG
Statistics
Matches: 159, Mismatches: 27, Indels: 19
0.78 0.13 0.09
Matches are distributed among these distances:
55 32 0.20
56 14 0.09
57 8 0.05
58 49 0.31
59 56 0.35
ACGTcount: A:0.37, C:0.04, G:0.27, T:0.32
Consensus pattern (59 bp):
GGGGTAAAATGATAATTTTTGGAAAAATCAGGGTCAAAAATGGAATTTTTAAAAGTTCG
Found at i:7526934 original size:58 final size:57
Alignment explanation
Indices: 7526710--7527045 Score: 240
Period size: 58 Copynumber: 5.8 Consensus size: 57
7526700 GTTCGAGGTT
* * * **
7526710 AAAAATGGAATTTTTAGATA-TCTAGGGGTAAAATGATGATTTTTGGAAAGTTCAGGGTC
1 AAAAATGGAA-TTTTAGAAAGT-TCGGGGTAAAATGATAATTTTTGGAAAAAT-AGGGTC
*
7526769 AAAAATGGAATTTTTA-AAAGTTCGGGGGTAAAATGGTAATTTTTGGAAAAATA-GG-C
1 AAAAATGGAA-TTTTAGAAAGTTC-GGGGTAAAATGATAATTTTTGGAAAAATAGGGTC
* ** * * *
7526825 CAAAATAAAATTTT-GGAAGTTCGGGGGTAAAATGGTAATTTTATGGGAAAATCAGGGTC
1 AAAAATGGAATTTTAGAAAGTTC-GGGGTAAAATGATAATTTT-TGGAAAAAT-AGGGTC
* ** *
7526884 -AAAATGGAATTTTAGAAAGTTTGGGGATAAAATGATTTTTTTTGGAAAAATGGGGTC
1 AAAAATGGAATTTTAGAAAGTTCGGGG-TAAAATGATAATTTTTGGAAAAATAGGGTC
* * * ** *
7526941 AAAAATGGAATTTTGGATAGTTTAGGGGTAAAAAT-ATAATTTTTGGAGAATTTAAGGT-
1 AAAAATGGAATTTTAGAAAG-TTCGGGGT-AAAATGATAATTTTTGGA-AAAATAGGGTC
* * * * *
7526999 TAAAATAGAATTTTGGAAAATTTGAGGGTAAAAATG-TAATTTTTGGA
1 AAAAATGGAATTTTAGAAAGTTCG-GGGT-AAAATGATAATTTTTGGA
7527046 GAATTCGAGG
Statistics
Matches: 228, Mismatches: 34, Indels: 31
0.78 0.12 0.11
Matches are distributed among these distances:
55 30 0.13
56 16 0.07
57 11 0.05
58 94 0.41
59 77 0.34
ACGTcount: A:0.39, C:0.03, G:0.25, T:0.33
Consensus pattern (57 bp):
AAAAATGGAATTTTAGAAAGTTCGGGGTAAAATGATAATTTTTGGAAAAATAGGGTC
Found at i:7526974 original size:29 final size:29
Alignment explanation
Indices: 7526923--7527094 Score: 113
Period size: 30 Copynumber: 5.9 Consensus size: 29
7526913 AAATGATTTT
* *
7526923 TTTTGGAAAA-AT-GGGGTCAAAAATGGAA
1 TTTTGGAAAATTTAGGGGT-AAAAATAGAA
* * *
7526951 TTTTGGATAGTTTAGGGGTAAAAATATAA
1 TTTTGGAAAATTTAGGGGTAAAAATAGAA
* * *
7526980 TTTTTGGAGAATTTA-AGGTTAAAATAGAA
1 -TTTTGGAAAATTTAGGGGTAAAAATAGAA
7527009 TTTTGGAAAATTT-GAGGGTAAAAAT-GTAA
1 TTTTGGAAAATTTAG-GGGTAAAAATAG-AA
* * * *
7527038 TTTTTGGAGAA-TTCGAGGTTAAAAATATAA
1 -TTTTGGAAAATTTAG-GGGTAAAAATAGAA
* *
7527068 TTGTGGAAAAGTTTAGGGGTCAAAATA
1 TTTTGGAAAA-TTTAGGGGTAAAAATA
7527095 TGATTTTTAG
Statistics
Matches: 112, Mismatches: 21, Indels: 20
0.73 0.14 0.13
Matches are distributed among these distances:
28 21 0.19
29 40 0.36
30 48 0.43
31 3 0.03
ACGTcount: A:0.40, C:0.02, G:0.24, T:0.34
Consensus pattern (29 bp):
TTTTGGAAAATTTAGGGGTAAAAATAGAA
Found at i:7526985 original size:30 final size:30
Alignment explanation
Indices: 7526951--7527116 Score: 121
Period size: 30 Copynumber: 5.6 Consensus size: 30
7526941 AAAAATGGAA
*
7526951 TTTTGGATAGTTTAGGGGTAAAAATATAAT
1 TTTTGGAAAGTTTAGGGGTAAAAATATAAT
* * *
7526981 TTTTGGAGAA-TTTA-AGGTTAAAATAGAA-
1 TTTTGGA-AAGTTTAGGGGTAAAAATATAAT
* *
7527009 TTTTGGAAAATTT-GAGGGTAAAAATGTAAT
1 TTTTGGAAAGTTTAG-GGGTAAAAATATAAT
* *
7527039 TTTTGGAGAA--TTCGAGGTTAAAAATATAA-
1 TTTTGGA-AAGTTTAG-GGGTAAAAATATAAT
* * *
7527068 TTGTGGAAAAGTTTAGGGGTCAAAATATGAT
1 TTTTGG-AAAGTTTAGGGGTAAAAATATAAT
* *
7527099 TTTTAGACAGTTTAGGGG
1 TTTTGGAAAGTTTAGGGG
7527117 CCTCTAGGAC
Statistics
Matches: 107, Mismatches: 18, Indels: 22
0.73 0.12 0.15
Matches are distributed among these distances:
27 2 0.02
28 10 0.09
29 30 0.28
30 55 0.51
31 10 0.09
ACGTcount: A:0.37, C:0.02, G:0.25, T:0.36
Consensus pattern (30 bp):
TTTTGGAAAGTTTAGGGGTAAAAATATAAT
Found at i:7527046 original size:58 final size:58
Alignment explanation
Indices: 7526941--7527102 Score: 191
Period size: 58 Copynumber: 2.7 Consensus size: 58
7526931 AAATGGGGTC
* * * *
7526941 AAAAATGGAATTTTGGATAGTTTAGGGGTAAAAATATAATTTTTGGAGAATTTAAGGTT
1 AAAAATAGAATTTTGGAAAATTTA-GGGTAAAAATATAATTTTTGGAGAATTCAAGGTT
* *
7527000 -AAAATAGAATTTTGGAAAATTTGAGGGTAAAAATGTAATTTTTGGAGAATTCGAGGTT
1 AAAAATAGAATTTTGGAAAATTT-AGGGTAAAAATATAATTTTTGGAGAATTCAAGGTT
* * * *
7527058 AAAAATATAATTGTGGAAAAGTTTAGGGGTCAAAATATGATTTTT
1 AAAAATAGAATTTTGGAAAA-TTTA-GGGTAAAAATATAATTTTT
7527103 AGACAGTTTA
Statistics
Matches: 88, Mismatches: 11, Indels: 7
0.83 0.10 0.07
Matches are distributed among these distances:
58 50 0.57
59 19 0.22
60 19 0.22
ACGTcount: A:0.40, C:0.01, G:0.23, T:0.36
Consensus pattern (58 bp):
AAAAATAGAATTTTGGAAAATTTAGGGTAAAAATATAATTTTTGGAGAATTCAAGGTT
Found at i:7528265 original size:9 final size:9
Alignment explanation
Indices: 7528251--7528285 Score: 52
Period size: 9 Copynumber: 3.8 Consensus size: 9
7528241 TTATTAAAAA
7528251 TAATATTAT
1 TAATATTAT
7528260 TAATATTAT
1 TAATATTAT
*
7528269 TATTATTTAT
1 TAATA-TTAT
7528279 TAATATT
1 TAATATT
7528286 CATTTAATAC
Statistics
Matches: 23, Mismatches: 2, Indels: 2
0.85 0.07 0.07
Matches are distributed among these distances:
9 15 0.65
10 8 0.35
ACGTcount: A:0.40, C:0.00, G:0.00, T:0.60
Consensus pattern (9 bp):
TAATATTAT
Found at i:7529042 original size:17 final size:17
Alignment explanation
Indices: 7529020--7529093 Score: 85
Period size: 17 Copynumber: 4.4 Consensus size: 17
7529010 TATTTTTAAT
* *
7529020 TAAATTTTAATTTAATA
1 TAAATTTAAATTTAAAA
* * *
7529037 TAAATTTAAACTCAAAG
1 TAAATTTAAATTTAAAA
*
7529054 TAAATTTAGATTTAAAA
1 TAAATTTAAATTTAAAA
*
7529071 TAAATTTAAACTTAAAA
1 TAAATTTAAATTTAAAA
7529088 TAAATT
1 TAAATT
7529094 AAAGTTTTAA
Statistics
Matches: 46, Mismatches: 11, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
17 46 1.00
ACGTcount: A:0.53, C:0.04, G:0.03, T:0.41
Consensus pattern (17 bp):
TAAATTTAAATTTAAAA
Found at i:7529067 original size:34 final size:33
Alignment explanation
Indices: 7529020--7529093 Score: 103
Period size: 34 Copynumber: 2.2 Consensus size: 33
7529010 TATTTTTAAT
* *
7529020 TAAATTTTAATTTAATATAAATTTAAACTCAAAG
1 TAAA-TTTAATTTAAAATAAATTTAAACTCAAAA
*
7529054 TAAATTTAGATTTAAAATAAATTTAAACTTAAAA
1 TAAATTTA-ATTTAAAATAAATTTAAACTCAAAA
7529088 TAAATT
1 TAAATT
7529094 AAAGTTTTAA
Statistics
Matches: 36, Mismatches: 3, Indels: 2
0.88 0.07 0.05
Matches are distributed among these distances:
33 4 0.11
34 32 0.89
ACGTcount: A:0.53, C:0.04, G:0.03, T:0.41
Consensus pattern (33 bp):
TAAATTTAATTTAAAATAAATTTAAACTCAAAA
Found at i:7535794 original size:691 final size:694
Alignment explanation
Indices: 7534460--7535855 Score: 2039
Period size: 691 Copynumber: 2.0 Consensus size: 694
7534450 AGATCAAACC
* *
7534460 AAGTTTCGCCAAAGATTTTGAGTATCATTGCTATCAAATCCACCAAAAATATTAGTCTTATGCCT
1 AAGTTTCGCCAAAGATTTTGAGTATCATTACTATCAAATCCACCAAAAATATTAGTATTATGCCT
* * *
7534525 AAACAGTAAATTAATAGTAATATAGAAAGTAATGTCAATCTCAAAAAGACTAATATATCTAAAAT
66 AAACAGTAAATTAACAGTAATATAAAAAGTAATGTCAATCTCAAAAAAACTAATATATCTAAAAT
* * * *
7534590 TATCGTATAGATTTAACCAGATTGAACGTCAGGTAATTGTCGTGCCCATGATGTGTTATGATCTG
131 TATCATATAGATTTAACCAGATTGAACGTCAGGTAATTGTCGTGCCCATGAAGTGTGATGATCTA
* * *
7534655 TACAAAAATAAAAATAAAAACTTTAAATATGATAAAAATTAAAATAATAGAAATAATTAAAATCA
196 TACAAAAATAAAAATAAAAAATTTAAATATGATAAAAATCAAAATAATAGAAACAATTAAAATCA
* * *
7534720 AAATTACAATAAAAGTAAACAGTAATAAAATTAAATTGGATAACTCGATATATATATATCGTAAA
261 AAATAACAATAAAAATAAACAGTAATAAAATTAAATTAGATAACTCG----A-ATATA-CGTAAA
* * **
7534785 ATTCTAGCTTCAGGTTCAATTTTTGTTTTGATTTCCACTAATAAACTTTTAACGTCTTCATGGGA
320 ATTCTAGCATCAGGTTCAATTTTTATTCCGATTTCCACTAATAAACTTTTAACGTCTTCATGGGA
* * * *
7534850 TTAATAAAAGTTCTTTCATAGGACCTGAAAGTTAAGTGATCAAAATGAAAATATAAATATGATGT
385 TTAATAAAAGTTCTTTCATAGAACCTGAAAATTAAGTGATAAAAATGAAAATATAAACATGATGT
* * * * * *
7534915 GATGTGTATAGCCAATCACCATTAAAAATTTAATGATTAGATGACTAAGATGAAAATATCTTAAA
450 GATATATACAACCAATCACCATTAAAAATTTAATGATTAGATGACTAAGATGAAAACACCTTAAA
* * * * *
7534980 AATTAAATAACAAAATTACAAATATTTCATTTTAAATGACTAAAATAAAAGCGCCTTAAAAATTG
515 AACTAAATAACAAAATTACAAAAATTTCATTTTAAATAACTAAAATAAAAGCGCCCTAAAAATTA
* *
7535045 GATGATCAACTAACTAGTTTCACTTTTAATATACAAATATGATTTATTATGCTCACCGCTTTCAT
580 GATCATCAACTAACTAGTTTCACTTTTAATATACAAATATGATTTATTATACTCACCGCTTTCAT
*
7535110 ATATAACAAATTAATGTTTGTATTTTACTCACTGTCTTTAGTATAATAAT
645 ATATAACAAATTAATGTTTGTATTTTACTCACTGTCTTTAGTACAATAAT
* *
7535160 AAGTTTCGCCAAAGATTTTGAGTATCATTACTGTCAAATCCACCAAAAATATTAGTATTATGTCT
1 AAGTTTCGCCAAAGATTTTGAGTATCATTACTATCAAATCCACCAAAAATATTAGTATTATGCCT
* *
7535225 AAACAGTAAATTAGCAGTAGTATAAAAAGTAA-GATCAATCTCAAAAAAACTAATATATCTAAAA
66 AAACAGTAAATTAACAGTAATATAAAAAGTAATG-TCAATCTCAAAAAAACTAATATATCTAAAA
* * * * *
7535289 TTATCATATTGATTTAGCCAGATTGAACGTCAGGTAGTTGTTGTGCCCGTGAAGTGTGATGATCT
130 TTATCATATAGATTTAACCAGATTGAACGTCAGGTAATTGTCGTGCCCATGAAGTGTGATGATCT
* *
7535354 ATGC-AAAATAAAAATAAAAAATTTAAATATGATATAAATCAAAATAATAGAAACAATTAAAATC
195 ATACAAAAATAAAAATAAAAAATTTAAATATGATAAAAATCAAAATAATAGAAACAATTAAAATC
* * * * *
7535418 AAAATAACAGTAAAAATATATC-GTAATAAAATTAAATTAGATAACTCG-ATGTA-GTCAAATTT
260 AAAATAACAATAAAAATA-AACAGTAATAAAATTAAATTAGATAACTCGAATATACGTAAAATTC
* * * *
7535480 TAGCATCAGGTTCAATTTTTATTCCGTTTTCCACTAATAAATTTTTAATGTCTTCATGGGGTTAA
324 TAGCATCAGGTTCAATTTTTATTCCGATTTCCACTAATAAACTTTTAACGTCTTCATGGGATTAA
* * * *
7535545 TAAAAGTTCTTTCATAGAACTTGAAAATTAGGTGATAAAAATGAAAGTGTAAACATGATGTGATA
389 TAAAAGTTCTTTCATAGAACCTGAAAATTAAGTGATAAAAATGAAAATATAAACATGATGTGATA
* * *
7535610 TATACAATCAATCACCATTAAAAATTTAATTATTAGATGACTAAGATTAAAACACCTTAAAAACT
454 TATACAACCAATCACCATTAAAAATTTAATGATTAGATGACTAAGATGAAAACACCTTAAAAACT
* *
7535675 AAATTACAAAATTACAAAAATTTCATTTTAAATAACTAAAATAAAAGC-CTCCTAAAAATTAGTT
519 AAATAACAAAATTACAAAAATTTCATTTTAAATAACTAAAATAAAAGCGC-CCTAAAAATTAGAT
*
7535739 CATCAACTAACTAGTTTCACTTTTAATATACAAATATGATTTATTATATTCACCGCTTTCATATA
583 CATCAACTAACTAGTTTCACTTTTAATATACAAATATGATTTATTATACTCACCGCTTTCATATA
* * *
7535804 TAGCAAATTAATGTTTGTATTTTACTCAGTGTCTTTAGTGCAATAAT
648 TAACAAATTAATGTTTGTATTTTACTCACTGTCTTTAGTACAATAAT
7535851 AAGTT
1 AAGTT
7535856 GATATCTCGC
Statistics
Matches: 623, Mismatches: 70, Indels: 15
0.88 0.10 0.02
Matches are distributed among these distances:
690 1 0.00
691 342 0.55
693 4 0.01
699 97 0.16
700 179 0.29
ACGTcount: A:0.43, C:0.12, G:0.11, T:0.34
Consensus pattern (694 bp):
AAGTTTCGCCAAAGATTTTGAGTATCATTACTATCAAATCCACCAAAAATATTAGTATTATGCCT
AAACAGTAAATTAACAGTAATATAAAAAGTAATGTCAATCTCAAAAAAACTAATATATCTAAAAT
TATCATATAGATTTAACCAGATTGAACGTCAGGTAATTGTCGTGCCCATGAAGTGTGATGATCTA
TACAAAAATAAAAATAAAAAATTTAAATATGATAAAAATCAAAATAATAGAAACAATTAAAATCA
AAATAACAATAAAAATAAACAGTAATAAAATTAAATTAGATAACTCGAATATACGTAAAATTCTA
GCATCAGGTTCAATTTTTATTCCGATTTCCACTAATAAACTTTTAACGTCTTCATGGGATTAATA
AAAGTTCTTTCATAGAACCTGAAAATTAAGTGATAAAAATGAAAATATAAACATGATGTGATATA
TACAACCAATCACCATTAAAAATTTAATGATTAGATGACTAAGATGAAAACACCTTAAAAACTAA
ATAACAAAATTACAAAAATTTCATTTTAAATAACTAAAATAAAAGCGCCCTAAAAATTAGATCAT
CAACTAACTAGTTTCACTTTTAATATACAAATATGATTTATTATACTCACCGCTTTCATATATAA
CAAATTAATGTTTGTATTTTACTCACTGTCTTTAGTACAATAAT
Found at i:7540559 original size:15 final size:15
Alignment explanation
Indices: 7540523--7540571 Score: 53
Period size: 15 Copynumber: 3.1 Consensus size: 15
7540513 TCAAGAAACC
7540523 ATTTAAAATAAATATATA
1 ATTTAAAAT-AAT-T-TA
**
7540541 ATTTAATTTAATTTA
1 ATTTAAAATAATTTA
7540556 ATTTAAAATAATTTA
1 ATTTAAAATAATTTA
7540571 A
1 A
7540572 AACAAAACAA
Statistics
Matches: 27, Mismatches: 4, Indels: 3
0.79 0.12 0.09
Matches are distributed among these distances:
15 16 0.59
16 1 0.04
17 3 0.11
18 7 0.26
ACGTcount: A:0.53, C:0.00, G:0.00, T:0.47
Consensus pattern (15 bp):
ATTTAAAATAATTTA
Found at i:7541390 original size:24 final size:24
Alignment explanation
Indices: 7541362--7541424 Score: 99
Period size: 24 Copynumber: 2.6 Consensus size: 24
7541352 AGAAATAATC
7541362 TTTCAGTTAAACTCTGTTTATTTG
1 TTTCAGTTAAACTCTGTTTATTTG
*
7541386 TTTCAATTAAACTCTGTTTATTTG
1 TTTCAGTTAAACTCTGTTTATTTG
* *
7541410 TTTGAGTCAAACTCT
1 TTTCAGTTAAACTCT
7541425 TATTACTCTA
Statistics
Matches: 35, Mismatches: 4, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
24 35 1.00
ACGTcount: A:0.24, C:0.14, G:0.11, T:0.51
Consensus pattern (24 bp):
TTTCAGTTAAACTCTGTTTATTTG
Found at i:7547263 original size:14 final size:14
Alignment explanation
Indices: 7547246--7547275 Score: 51
Period size: 14 Copynumber: 2.1 Consensus size: 14
7547236 TTCAAGCTAA
*
7547246 AATGTTTAAAGAAT
1 AATGTTAAAAGAAT
7547260 AATGTTAAAAGAAT
1 AATGTTAAAAGAAT
7547274 AA
1 AA
7547276 AAAAAAAAAA
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
14 15 1.00
ACGTcount: A:0.57, C:0.00, G:0.13, T:0.30
Consensus pattern (14 bp):
AATGTTAAAAGAAT
Found at i:7547626 original size:32 final size:32
Alignment explanation
Indices: 7547569--7547639 Score: 85
Period size: 32 Copynumber: 2.2 Consensus size: 32
7547559 TTAGATCTAG
*
7547569 TTGGT-CTTCGAACTTGTATCACATCAGCCAG-
1 TTGGTCCTT-GAACTTGTATCACATCAACCAGA
7547600 TTAGGTCCTTGAACTTGTATTC-CATCAACCAGA
1 TT-GGTCCTTGAACTTGTA-TCACATCAACCAGA
7547633 TTGGTCC
1 TTGGTCC
7547640 CTCCACATTA
Statistics
Matches: 35, Mismatches: 1, Indels: 7
0.81 0.02 0.16
Matches are distributed among these distances:
31 2 0.06
32 26 0.74
33 7 0.20
ACGTcount: A:0.23, C:0.25, G:0.18, T:0.34
Consensus pattern (32 bp):
TTGGTCCTTGAACTTGTATCACATCAACCAGA
Found at i:7551129 original size:12 final size:13
Alignment explanation
Indices: 7551109--7551158 Score: 61
Period size: 12 Copynumber: 4.0 Consensus size: 13
7551099 CAAAAACTTA
7551109 AAAAT-AATT-AT
1 AAAATAAATTCAT
7551120 AAAATAAATTCAT
1 AAAATAAATTCAT
7551133 AAAAATAAATTCA-
1 -AAAATAAATTCAT
*
7551146 AAAATAATTTCAT
1 AAAATAAATTCAT
7551159 TATAGGTTTT
Statistics
Matches: 34, Mismatches: 1, Indels: 6
0.83 0.02 0.15
Matches are distributed among these distances:
11 5 0.15
12 15 0.44
13 2 0.06
14 12 0.35
ACGTcount: A:0.62, C:0.06, G:0.00, T:0.32
Consensus pattern (13 bp):
AAAATAAATTCAT
Found at i:7551137 original size:26 final size:26
Alignment explanation
Indices: 7551107--7551158 Score: 72
Period size: 26 Copynumber: 2.0 Consensus size: 26
7551097 ACCAAAAACT
7551107 TAAAAAT-AATT-ATAAAATAAATTCA
1 TAAAAATAAATTCA-AAAATAAATTCA
*
7551132 TAAAAATAAATTCAAAAATAATTTCA
1 TAAAAATAAATTCAAAAATAAATTCA
7551158 T
1 T
7551159 TATAGGTTTT
Statistics
Matches: 24, Mismatches: 1, Indels: 3
0.86 0.04 0.11
Matches are distributed among these distances:
25 7 0.29
26 16 0.67
27 1 0.04
ACGTcount: A:0.62, C:0.06, G:0.00, T:0.33
Consensus pattern (26 bp):
TAAAAATAAATTCAAAAATAAATTCA
Found at i:7556905 original size:21 final size:21
Alignment explanation
Indices: 7556872--7556911 Score: 53
Period size: 21 Copynumber: 1.9 Consensus size: 21
7556862 TTTATCTTCA
* * *
7556872 ACTTTCTATAATATATTATCT
1 ACTTCCTAAAATAAATTATCT
7556893 ACTTCCTAAAATAAATTAT
1 ACTTCCTAAAATAAATTAT
7556912 TCAATAATAT
Statistics
Matches: 16, Mismatches: 3, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
21 16 1.00
ACGTcount: A:0.40, C:0.15, G:0.00, T:0.45
Consensus pattern (21 bp):
ACTTCCTAAAATAAATTATCT
Found at i:7558905 original size:24 final size:24
Alignment explanation
Indices: 7558877--7558935 Score: 82
Period size: 24 Copynumber: 2.5 Consensus size: 24
7558867 TAGAGTAATA
* *
7558877 AGAGTTTGACTCTAACAAATAAAC
1 AGAGTTTAACTCAAACAAATAAAC
* *
7558901 AGAGTTTAATTGAAACAAATAAAC
1 AGAGTTTAACTCAAACAAATAAAC
7558925 AGAGTTTAACT
1 AGAGTTTAACT
7558936 GAAAGATTAT
Statistics
Matches: 30, Mismatches: 5, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
24 30 1.00
ACGTcount: A:0.47, C:0.12, G:0.14, T:0.27
Consensus pattern (24 bp):
AGAGTTTAACTCAAACAAATAAAC
Found at i:7558938 original size:24 final size:24
Alignment explanation
Indices: 7558890--7558939 Score: 91
Period size: 24 Copynumber: 2.1 Consensus size: 24
7558880 GTTTGACTCT
*
7558890 AACAAATAAACAGAGTTTAATTGA
1 AACAAATAAACAGAGTTTAACTGA
7558914 AACAAATAAACAGAGTTTAACTGA
1 AACAAATAAACAGAGTTTAACTGA
7558938 AA
1 AA
7558940 GATTATTTCT
Statistics
Matches: 25, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
24 25 1.00
ACGTcount: A:0.56, C:0.10, G:0.12, T:0.22
Consensus pattern (24 bp):
AACAAATAAACAGAGTTTAACTGA
Found at i:7569290 original size:23 final size:23
Alignment explanation
Indices: 7569264--7569309 Score: 83
Period size: 23 Copynumber: 2.0 Consensus size: 23
7569254 TTCATTTAAC
7569264 TTAATCGAACATGTTCACGAACA
1 TTAATCGAACATGTTCACGAACA
*
7569287 TTAATTGAACATGTTCACGAACA
1 TTAATCGAACATGTTCACGAACA
7569310 ATGTTAATGA
Statistics
Matches: 22, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
23 22 1.00
ACGTcount: A:0.39, C:0.20, G:0.13, T:0.28
Consensus pattern (23 bp):
TTAATCGAACATGTTCACGAACA
Found at i:7569357 original size:4 final size:4
Alignment explanation
Indices: 7569350--7569382 Score: 66
Period size: 4 Copynumber: 8.2 Consensus size: 4
7569340 CAAATAATAA
7569350 ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC A
1 ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC A
7569383 CAGATTTTTT
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
4 29 1.00
ACGTcount: A:0.52, C:0.24, G:0.00, T:0.24
Consensus pattern (4 bp):
ATAC
Found at i:7575635 original size:2 final size:2
Alignment explanation
Indices: 7575626--7575660 Score: 63
Period size: 2 Copynumber: 18.0 Consensus size: 2
7575616 AAAATTACTT
7575626 TA TA -A TA TA TA TA TA TA 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
7575661 ATAAATTGAG
Statistics
Matches: 32, Mismatches: 0, Indels: 2
0.94 0.00 0.06
Matches are distributed among these distances:
1 1 0.03
2 31 0.97
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (2 bp):
TA
Found at i:7579047 original size:92 final size:92
Alignment explanation
Indices: 7578885--7579064 Score: 351
Period size: 92 Copynumber: 2.0 Consensus size: 92
7578875 AAATAATATC
7578885 TTCGAAAGTATTCCTTCTGATATAGGAAGGTTGAGTTTACTTTGGATGCTTGATCTTTCCCAAAA
1 TTCGAAAGTATTCCTTCTGATATAGGAAGGTTGAGTTTACTTTGGATGCTTGATCTTTCCCAAAA
7578950 CCATCTCACTGGTACAATACCTAGAAA
66 CCATCTCACTGGTACAATACCTAGAAA
*
7578977 TTCGGAAGTATTCCTTCTGATATAGGAAGGTTGAGTTTACTTTGGATGCTTGATCTTTCCCAAAA
1 TTCGAAAGTATTCCTTCTGATATAGGAAGGTTGAGTTTACTTTGGATGCTTGATCTTTCCCAAAA
7579042 CCATCTCACTGGTACAATACCTA
66 CCATCTCACTGGTACAATACCTA
7579065 TTTCTATTGG
Statistics
Matches: 87, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
92 87 1.00
ACGTcount: A:0.28, C:0.20, G:0.18, T:0.34
Consensus pattern (92 bp):
TTCGAAAGTATTCCTTCTGATATAGGAAGGTTGAGTTTACTTTGGATGCTTGATCTTTCCCAAAA
CCATCTCACTGGTACAATACCTAGAAA
Found at i:7580654 original size:20 final size:20
Alignment explanation
Indices: 7580631--7580670 Score: 80
Period size: 20 Copynumber: 2.0 Consensus size: 20
7580621 AAAGGACCAA
7580631 AGTCATCATTTCAGTTATGC
1 AGTCATCATTTCAGTTATGC
7580651 AGTCATCATTTCAGTTATGC
1 AGTCATCATTTCAGTTATGC
7580671 TTCTACTCTT
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 20 1.00
ACGTcount: A:0.25, C:0.20, G:0.15, T:0.40
Consensus pattern (20 bp):
AGTCATCATTTCAGTTATGC
Found at i:7582787 original size:19 final size:19
Alignment explanation
Indices: 7582763--7582805 Score: 52
Period size: 19 Copynumber: 2.3 Consensus size: 19
7582753 AAAAATAAAT
7582763 TAAATACAAAT-TTAAATAA
1 TAAATA-AAATCTTAAATAA
* *
7582782 TAAATAATATCTTAAATAT
1 TAAATAAAATCTTAAATAA
7582801 TAAAT
1 TAAAT
7582806 TCTAATAAAA
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
18 3 0.14
19 18 0.86
ACGTcount: A:0.58, C:0.05, G:0.00, T:0.37
Consensus pattern (19 bp):
TAAATAAAATCTTAAATAA
Found at i:7582798 original size:31 final size:31
Alignment explanation
Indices: 7582751--7582828 Score: 85
Period size: 31 Copynumber: 2.6 Consensus size: 31
7582741 ATACAAAAAG
7582751 ATAAAAATAA-A--TTAAATA-CAAATT-TAA
1 ATAAAAATAATATCTTAAATATCAAATTCT-A
*
7582778 ATAATAAATAATATCTTAAATATTAAATTCTA
1 ATAA-AAATAATATCTTAAATATCAAATTCTA
*
7582810 ATAAAAATAATATTTTAAA
1 ATAAAAATAATATCTTAAA
7582829 ATAAAATAAA
Statistics
Matches: 43, Mismatches: 2, Indels: 8
0.81 0.04 0.15
Matches are distributed among these distances:
27 4 0.09
28 6 0.14
29 1 0.02
31 21 0.49
32 10 0.23
33 1 0.02
ACGTcount: A:0.60, C:0.04, G:0.00, T:0.36
Consensus pattern (31 bp):
ATAAAAATAATATCTTAAATATCAAATTCTA
Found at i:7583916 original size:69 final size:68
Alignment explanation
Indices: 7583801--7583931 Score: 190
Period size: 69 Copynumber: 1.9 Consensus size: 68
7583791 ATGCTCTATC
* * ** *
7583801 AACTCCTCCAGCTTATCCAAGCTTGTTTAGGAGTCTTACAGGGGTGAGTTGTTGCTGCCTTACCT
1 AACTCCTCCAACTTATCCAAGCTTGTTTAGGAGTCTCACAAAGGTGAGTTGTTGCTACCTTACCT
7583866 TGG
66 TGG
* *
7583869 AACTCCTTCAACTTATCCCAAGCTTGTTTGGGAGTCTCACAAAGGTGAGTTGTTGCTACCTTA
1 AACTCCTCCAACTTAT-CCAAGCTTGTTTAGGAGTCTCACAAAGGTGAGTTGTTGCTACCTTA
7583932 ACAAGTAGCC
Statistics
Matches: 55, Mismatches: 7, Indels: 1
0.87 0.11 0.02
Matches are distributed among these distances:
68 14 0.25
69 41 0.75
ACGTcount: A:0.21, C:0.24, G:0.22, T:0.34
Consensus pattern (68 bp):
AACTCCTCCAACTTATCCAAGCTTGTTTAGGAGTCTCACAAAGGTGAGTTGTTGCTACCTTACCT
TGG
Found at i:7584911 original size:24 final size:24
Alignment explanation
Indices: 7584883--7584933 Score: 93
Period size: 24 Copynumber: 2.1 Consensus size: 24
7584873 AGAAATAATC
*
7584883 TTTCAGTTAAACTCTGTTTATTTG
1 TTTCAATTAAACTCTGTTTATTTG
7584907 TTTCAATTAAACTCTGTTTATTTG
1 TTTCAATTAAACTCTGTTTATTTG
7584931 TTT
1 TTT
7584934 AAGTCAAAAC
Statistics
Matches: 26, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
24 26 1.00
ACGTcount: A:0.22, C:0.12, G:0.10, T:0.57
Consensus pattern (24 bp):
TTTCAATTAAACTCTGTTTATTTG
Found at i:7586899 original size:24 final size:24
Alignment explanation
Indices: 7586870--7586920 Score: 102
Period size: 24 Copynumber: 2.1 Consensus size: 24
7586860 AGAAATAATC
7586870 TTTCAATTAAACTCTGTTTATTTG
1 TTTCAATTAAACTCTGTTTATTTG
7586894 TTTCAATTAAACTCTGTTTATTTG
1 TTTCAATTAAACTCTGTTTATTTG
7586918 TTT
1 TTT
7586921 GAGTCAAAAC
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
24 27 1.00
ACGTcount: A:0.24, C:0.12, G:0.08, T:0.57
Consensus pattern (24 bp):
TTTCAATTAAACTCTGTTTATTTG
Found at i:7588492 original size:30 final size:30
Alignment explanation
Indices: 7588429--7588485 Score: 78
Period size: 30 Copynumber: 1.9 Consensus size: 30
7588419 AATAGTATAT
* *
7588429 ATTTTTATAATTTTTAAAATATTAAATCAA
1 ATTTTTATAATTTTTAAAAGATAAAATCAA
* *
7588459 ATTTTTATTATTTTTAAAAGGTAAAAT
1 ATTTTTATAATTTTTAAAAGATAAAAT
7588486 GTAATTTAAT
Statistics
Matches: 23, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
30 23 1.00
ACGTcount: A:0.44, C:0.02, G:0.04, T:0.51
Consensus pattern (30 bp):
ATTTTTATAATTTTTAAAAGATAAAATCAA
Found at i:7591099 original size:30 final size:29
Alignment explanation
Indices: 7591063--7591119 Score: 78
Period size: 30 Copynumber: 1.9 Consensus size: 29
7591053 ATAATTTACA
* *
7591063 AAAATTGAATCAAATCAAAATTTCATGTCT
1 AAAATTGAATAAAATC-AAAGTTCATGTCT
*
7591093 AAAATTGCATAAAATCAAAGTTCATGT
1 AAAATTGAATAAAATCAAAGTTCATGT
7591120 ATACAATTAC
Statistics
Matches: 24, Mismatches: 3, Indels: 1
0.86 0.11 0.04
Matches are distributed among these distances:
29 10 0.42
30 14 0.58
ACGTcount: A:0.47, C:0.12, G:0.09, T:0.32
Consensus pattern (29 bp):
AAAATTGAATAAAATCAAAGTTCATGTCT
Found at i:7591127 original size:29 final size:30
Alignment explanation
Indices: 7591063--7591127 Score: 78
Period size: 29 Copynumber: 2.2 Consensus size: 30
7591053 ATAATTTACA
* * *
7591063 AAAATTGAATCAAATCAAAATTTCATGTCT
1 AAAATTGAATAAAATCAAAAGTTCATGTAT
*
7591093 AAAATTGCATAAAATC-AAAGTTCATGTAT
1 AAAATTGAATAAAATCAAAAGTTCATGTAT
*
7591122 ACAATT
1 AAAATT
7591128 ACACGTTAAA
Statistics
Matches: 30, Mismatches: 5, Indels: 1
0.83 0.14 0.03
Matches are distributed among these distances:
29 16 0.53
30 14 0.47
ACGTcount: A:0.48, C:0.12, G:0.08, T:0.32
Consensus pattern (30 bp):
AAAATTGAATAAAATCAAAAGTTCATGTAT
Found at i:7610286 original size:12 final size:12
Alignment explanation
Indices: 7610274--7610328 Score: 58
Period size: 12 Copynumber: 4.7 Consensus size: 12
7610264 AAAACAGCAG
*
7610274 TAAAAATAACAG
1 TAAAAATAACAA
*
7610286 T-AAAACAACAA
1 TAAAAATAACAA
* *
7610297 CAAAAATAGCAA
1 TAAAAATAACAA
*
7610309 CAAAAATAACAA
1 TAAAAATAACAA
7610321 TAAAAATA
1 TAAAAATA
7610329 TCAAAACAGT
Statistics
Matches: 35, Mismatches: 7, Indels: 2
0.80 0.16 0.05
Matches are distributed among these distances:
11 8 0.23
12 27 0.77
ACGTcount: A:0.71, C:0.13, G:0.04, T:0.13
Consensus pattern (12 bp):
TAAAAATAACAA
Found at i:7610292 original size:32 final size:30
Alignment explanation
Indices: 7610234--7610294 Score: 79
Period size: 32 Copynumber: 2.0 Consensus size: 30
7610224 AACAATAGTA
*
7610234 AAAACACATAAAAATAACATCCAAACAACC
1 AAAACACATAAAAATAACATCAAAACAACC
7610264 AAAACAGCAGTAAAAATAACAGT-AAAACAAC
1 AAAACA-CA-TAAAAATAACA-TCAAAACAAC
7610295 AACAAAAATA
Statistics
Matches: 27, Mismatches: 1, Indels: 4
0.84 0.03 0.12
Matches are distributed among these distances:
30 6 0.22
31 2 0.07
32 18 0.67
33 1 0.04
ACGTcount: A:0.64, C:0.21, G:0.05, T:0.10
Consensus pattern (30 bp):
AAAACACATAAAAATAACATCAAAACAACC
Found at i:7610341 original size:17 final size:16
Alignment explanation
Indices: 7610316--7610399 Score: 60
Period size: 17 Copynumber: 4.8 Consensus size: 16
7610306 CAACAAAAAT
* *
7610316 AACAATAAAAATATCAA
1 AACAGTAAAAA-AACAA
7610333 AACAGTAAAAAATAGCACTAA
1 AACAGTAAAAAA-A-CA---A
7610354 AACAGTAAAAAAACAGA
1 AACAGTAAAAAAACA-A
* *
7610371 AACAGCAAAAAACCAA
1 AACAGTAAAAAAACAA
*
7610387 AATAGTAAAAAAA
1 AACAGTAAAAAAA
7610400 AAACACCAAA
Statistics
Matches: 54, Mismatches: 8, Indels: 11
0.74 0.11 0.15
Matches are distributed among these distances:
16 12 0.22
17 24 0.44
18 2 0.04
19 2 0.04
20 1 0.02
21 13 0.24
ACGTcount: A:0.69, C:0.13, G:0.07, T:0.11
Consensus pattern (16 bp):
AACAGTAAAAAAACAA
Found at i:7610695 original size:17 final size:17
Alignment explanation
Indices: 7610665--7610709 Score: 56
Period size: 17 Copynumber: 2.7 Consensus size: 17
7610655 AACTTGGATT
*
7610665 TTAAA-TTAAGTTTGAA
1 TTAAATTTAAATTTGAA
**
7610681 TTAAATTTAAATTTGTT
1 TTAAATTTAAATTTGAA
7610698 TTAAATTTAAAT
1 TTAAATTTAAAT
7610710 ACATTTAAAA
Statistics
Matches: 25, Mismatches: 3, Indels: 1
0.86 0.10 0.03
Matches are distributed among these distances:
16 5 0.20
17 20 0.80
ACGTcount: A:0.42, C:0.00, G:0.07, T:0.51
Consensus pattern (17 bp):
TTAAATTTAAATTTGAA
Found at i:7611593 original size:10 final size:10
Alignment explanation
Indices: 7611566--7611595 Score: 51
Period size: 10 Copynumber: 3.0 Consensus size: 10
7611556 AAACAGTTGT
*
7611566 AATAATAATA
1 AATAATATTA
7611576 AATAATATTA
1 AATAATATTA
7611586 AATAATATTA
1 AATAATATTA
7611596 TTTTTTTAAT
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
10 19 1.00
ACGTcount: A:0.63, C:0.00, G:0.00, T:0.37
Consensus pattern (10 bp):
AATAATATTA
Found at i:7612681 original size:30 final size:29
Alignment explanation
Indices: 7612643--7612718 Score: 89
Period size: 30 Copynumber: 2.6 Consensus size: 29
7612633 CCCTGGACTG
*
7612643 TTCAAAAATTATATTTTGACCCAAAAACT
1 TTCAAAAATTACATTTTGACCCAAAAACT
* ***
7612672 TTCTAAAAATTACATTTTTACCCCCGAACT
1 TTC-AAAAATTACATTTTGACCCAAAAACT
*
7612702 TTCAAAAATTCCATTTT
1 TTCAAAAATTACATTTT
7612719 TAACCCCAAT
Statistics
Matches: 40, Mismatches: 6, Indels: 2
0.83 0.12 0.04
Matches are distributed among these distances:
29 16 0.40
30 24 0.60
ACGTcount: A:0.38, C:0.21, G:0.03, T:0.38
Consensus pattern (29 bp):
TTCAAAAATTACATTTTGACCCAAAAACT
Found at i:7612717 original size:29 final size:28
Alignment explanation
Indices: 7612668--7612732 Score: 87
Period size: 29 Copynumber: 2.3 Consensus size: 28
7612658 TTGACCCAAA
*
7612668 AACTTTCTAAAAATTACATTTTTACCCCC
1 AACTTTC-AAAAATTACATTTTTAACCCC
*
7612697 GAACTTTCAAAAATTCCATTTTTAACCCC
1 -AACTTTCAAAAATTACATTTTTAACCCC
7612726 AA-TTTCA
1 AACTTTCA
7612733 CCAAAAATTA
Statistics
Matches: 33, Mismatches: 2, Indels: 3
0.87 0.05 0.08
Matches are distributed among these distances:
27 5 0.15
28 2 0.06
29 19 0.58
30 7 0.21
ACGTcount: A:0.35, C:0.26, G:0.02, T:0.37
Consensus pattern (28 bp):
AACTTTCAAAAATTACATTTTTAACCCC
Found at i:7612725 original size:30 final size:30
Alignment explanation
Indices: 7612668--7612725 Score: 91
Period size: 29 Copynumber: 2.0 Consensus size: 30
7612658 TTGACCCAAA
7612668 AACTTTCTAAAAATTACATTTTTACCCCCG
1 AACTTTCTAAAAATTACATTTTTACCCCCG
* *
7612698 AACTTTC-AAAAATTCCATTTTTAACCCC
1 AACTTTCTAAAAATTACATTTTTACCCCC
7612726 AATTTCACCA
Statistics
Matches: 26, Mismatches: 2, Indels: 1
0.90 0.07 0.03
Matches are distributed among these distances:
29 19 0.73
30 7 0.27
ACGTcount: A:0.34, C:0.28, G:0.02, T:0.36
Consensus pattern (30 bp):
AACTTTCTAAAAATTACATTTTTACCCCCG
Found at i:7612738 original size:29 final size:30
Alignment explanation
Indices: 7612677--7612866 Score: 84
Period size: 29 Copynumber: 6.5 Consensus size: 30
7612667 AAACTTTCTA
* *
7612677 AAAATTACATTTTTACCCCCGAACTTTCA--
1 AAAATTACATTTTTAACCCC-AAATTTCACC
*
7612706 AAAATTCCATTTTTAACCCC-AATTTCACC
1 AAAATTACATTTTTAACCCCAAATTTCACC
* *
7612735 AAAAATTACCA--TTT-ACCCCTAAACTTC-TC
1 -AAAATTA-CATTTTTAACCCC-AAATTTCACC
** * * *
7612764 AAAA-CCCTATTTTTAGCCCC-GATTTTACC
1 AAAATTAC-ATTTTTAACCCCAAATTTCACC
7612793 AAAATTAC-TATTTT-ACCCGCAAACTTT--CC
1 AAAATTACAT-TTTTAACCC-CAAA-TTTCACC
* * *
7612822 AAAATTTCATTTTTGA-CCCTAATTTCACC
1 AAAATTACATTTTTAACCCCAAATTTCACC
7612851 AAAAATTACATTTTTA
1 -AAAATTACATTTTTA
7612867 CGCCCGAAAG
Statistics
Matches: 119, Mismatches: 21, Indels: 41
0.66 0.12 0.23
Matches are distributed among these distances:
26 1 0.01
27 10 0.08
28 19 0.16
29 52 0.44
30 32 0.27
31 5 0.04
ACGTcount: A:0.35, C:0.27, G:0.03, T:0.36
Consensus pattern (30 bp):
AAAATTACATTTTTAACCCCAAATTTCACC
Found at i:7612864 original size:58 final size:56
Alignment explanation
Indices: 7612676--7612864 Score: 188
Period size: 58 Copynumber: 3.2 Consensus size: 56
7612666 AAAACTTTCT
* *
7612676 AAAAATTACATTTTTACCCCCGAACTTTCAAAAATTCCATTTTTAACCCCAATTTCACC
1 AAAAATTACA-TTTTA-CCCCAAACTTTCCAAAATTCCATTTTT-ACCCCAATTTCACC
* * *
7612735 AAAAATTACCA-TTTACCCCTAAAC-TTCTCAAAA-CCCTATTTTTAGCCCCGATTTTACC
1 AAAAATTA-CATTTTACCCC-AAACTTTC-CAAAATTCC-ATTTTTA-CCCCAATTTCACC
* *
7612793 -AAAATTACTATTTTACCCGCAAACTTTCCAAAATTTCATTTTTGACCCTAATTTCACC
1 AAAAATTAC-ATTTTACCC-CAAACTTTCCAAAATTCCATTTTT-ACCCCAATTTCACC
7612851 AAAAATTACATTTT
1 AAAAATTACATTTT
7612865 TACGCCCGAA
Statistics
Matches: 108, Mismatches: 10, Indels: 25
0.76 0.07 0.17
Matches are distributed among these distances:
56 1 0.01
57 18 0.17
58 65 0.60
59 22 0.20
60 2 0.02
ACGTcount: A:0.35, C:0.27, G:0.03, T:0.35
Consensus pattern (56 bp):
AAAAATTACATTTTACCCCAAACTTTCCAAAATTCCATTTTTACCCCAATTTCACC
Found at i:7624974 original size:199 final size:200
Alignment explanation
Indices: 7624633--7625001 Score: 591
Period size: 199 Copynumber: 1.9 Consensus size: 200
7624623 CACCTTGAAG
* *
7624633 TAACACGAGCAAATCTTCGAACCCAGCTTTTTGATGAGACACTGAGAAGCAGGTCGAAGCAATAA
1 TAACACGAGCAAATCTTCGAACCCAGCTTTCTGATAAGACACTGAGAAGCAGGTCGAAGCAATAA
*
7624698 AAAGGTTAGCTTCCTGATAAGACACAGAGAAGTGGACCAAATTCGTCTTCTTGAGGAGATCCAGA
66 AAAGGTTAGCTTCCTGATAAGACACAGAGAAGTGGACCAAATTCGTCTTCCTGAGGAGATCCAGA
* * *
7624763 AAAGTGAATTAAAACAACCGAGGCGATCATCTTCTTGATGAGATACAGAGAAGAATACCAACTCA
131 AAAGCGAATTAAAACAACCGAGACGATCATCTTCCTGATGAGATACAGAGAAGAATACCAACTCA
7624828 ACGCT
196 ACGCT
7624833 TAACACGAGCAAATCTTCGAACCCAG-TTTCCTGATAAGACACTGAGAAGCAGGTCGAAGCAAT-
1 TAACACGAGCAAATCTTCGAACCCAGCTTT-CTGATAAGACACTGAGAAGCAGGTCGAAGCAATA
* *
7624896 AAAAGGTTAGCTTCCTGATGAGACACAGAGAAGTGGACCAGATTCGTCTTCCTGAGGAGATCCAG
65 AAAAGGTTAGCTTCCTGATAAGACACAGAGAAGTGGACCAAATTCGTCTTCCTGAGGAGATCCAG
* * * *
7624961 AGAAA-CGAATTAAAGCAAGCGAGATGGTCATCTTCCTGATG
130 A-AAAGCGAATTAAAACAACCGAGACGATCATCTTCCTGATG
7625002 CTCAACGCGA
Statistics
Matches: 155, Mismatches: 12, Indels: 5
0.90 0.07 0.03
Matches are distributed among these distances:
199 95 0.61
200 60 0.39
ACGTcount: A:0.36, C:0.20, G:0.23, T:0.21
Consensus pattern (200 bp):
TAACACGAGCAAATCTTCGAACCCAGCTTTCTGATAAGACACTGAGAAGCAGGTCGAAGCAATAA
AAAGGTTAGCTTCCTGATAAGACACAGAGAAGTGGACCAAATTCGTCTTCCTGAGGAGATCCAGA
AAAGCGAATTAAAACAACCGAGACGATCATCTTCCTGATGAGATACAGAGAAGAATACCAACTCA
ACGCT
Found at i:7625129 original size:172 final size:171
Alignment explanation
Indices: 7624838--7625169 Score: 538
Period size: 172 Copynumber: 1.9 Consensus size: 171
7624828 ACGCTTAACA
**
7624838 CGAGCAAATCTTCGAACCCAGTTTCCTGATAAGACACTGAGAAGCAGGTCGAAGCAATAAAAGGT
1 CGAGCAAATCTTCGAACCCAGCATCCTGATAAGACACTGAGAAGCAGGTCGAAGCAATAAAAGGT
* * *
7624903 TAGCTTCCTGATGAGACACAGAGAAGTGGACCAGATTCGTCTTCCTGAGGAGATCCAGAGAAACG
66 TAGCTTACTGATGAGACACAGAGAAGTGAACCAGATTCGTCTTCCTGAGGAGATCCACAGAAACG
7624968 AATTAAAGCAAGCGAGATGGTCATCTTCCTGATGCTCAACG
131 AATTAAAGCAAGCGAGATGGTCATCTTCCTGATGCTCAACG
* * * ** *
7625009 CGAGCGAATCTTCGAACCTAGCATCCTGATTAGGTACTGAGAAGCAGGTTGAAGCAATAAAAAGG
1 CGAGCAAATCTTCGAACCCAGCATCCTGATAAGACACTGAGAAGCAGGTCGAAGCAAT-AAAAGG
* *
7625074 TTAGCTTATTGATGAGACACAGAGAAGTGAACCAGATTCGTCTTCCTGAGGAGATCCACAGAAGC
65 TTAGCTTACTGATGAGACACAGAGAAGTGAACCAGATTCGTCTTCCTGAGGAGATCCACAGAAAC
7625139 GAATTAAAGCAAGCGAGATGGTCATCTTCCT
130 GAATTAAAGCAAGCGAGATGGTCATCTTCCT
7625170 AATGAGATAC
Statistics
Matches: 147, Mismatches: 13, Indels: 1
0.91 0.08 0.01
Matches are distributed among these distances:
171 50 0.34
172 97 0.66
ACGTcount: A:0.33, C:0.20, G:0.25, T:0.21
Consensus pattern (171 bp):
CGAGCAAATCTTCGAACCCAGCATCCTGATAAGACACTGAGAAGCAGGTCGAAGCAATAAAAGGT
TAGCTTACTGATGAGACACAGAGAAGTGAACCAGATTCGTCTTCCTGAGGAGATCCACAGAAACG
AATTAAAGCAAGCGAGATGGTCATCTTCCTGATGCTCAACG
Found at i:7626497 original size:29 final size:29
Alignment explanation
Indices: 7626462--7626619 Score: 121
Period size: 29 Copynumber: 5.4 Consensus size: 29
7626452 CTAAAAATTA
*
7626462 CATTTTTACCCCCGAACTTTCCAAAATCC
1 CATTTTTACCCCCGAACTTTCCAAAATAC
*
7626491 CATTTTTAACCCCG-A-TTTCACCAAAAATTAC
1 CATTTTTACCCCCGAACTTT--CC-AAAA-TAC
*
7626522 CA-TTTTACCCCCGAACTTTCCAAAATCC
1 CATTTTTACCCCCGAACTTTCCAAAATAC
* *
7626550 CATTTTTAACCTCG-A-TTTCACCAAAATTAC
1 CATTTTTACCCCCGAACTTT--CCAAAA-TAC
* * * *
7626580 C-GTTTTACCCGCAAACTTTCCAAAATTC
1 CATTTTTACCCCCGAACTTTCCAAAATAC
7626608 CATTTTTGACCC
1 CATTTTT-ACCC
7626620 TAATTTCACC
Statistics
Matches: 102, Mismatches: 13, Indels: 27
0.72 0.09 0.19
Matches are distributed among these distances:
27 6 0.06
28 9 0.09
29 52 0.51
30 24 0.24
31 8 0.08
32 3 0.03
ACGTcount: A:0.30, C:0.33, G:0.04, T:0.33
Consensus pattern (29 bp):
CATTTTTACCCCCGAACTTTCCAAAATAC
Found at i:7626521 original size:59 final size:59
Alignment explanation
Indices: 7626454--7626653 Score: 296
Period size: 59 Copynumber: 3.4 Consensus size: 59
7626444 AAAACTTTCT
7626454 AAAAATTACATTTTTACCCCCGAACTTTCCAAAATCCCATTTTTAACCCCGATTTCACC
1 AAAAATTACATTTTTACCCCCGAACTTTCCAAAATCCCATTTTTAACCCCGATTTCACC
*
7626513 AAAAATTACCA-TTTTACCCCCGAACTTTCCAAAATCCCATTTTTAACCTCGATTTCACC
1 AAAAATTA-CATTTTTACCCCCGAACTTTCCAAAATCCCATTTTTAACCCCGATTTCACC
** * * * * **
7626572 -AAAATTACCGTTTTACCCGCAAACTTTCCAAAATTCCATTTTTGACCCTAATTTCACC
1 AAAAATTACATTTTTACCCCCGAACTTTCCAAAATCCCATTTTTAACCCCGATTTCACC
7626630 AAAAATTACATTTTTACCCCCGAA
1 AAAAATTACATTTTTACCCCCGAA
7626654 AGTCAAAAAT
Statistics
Matches: 125, Mismatches: 13, Indels: 6
0.87 0.09 0.04
Matches are distributed among these distances:
57 1 0.01
58 48 0.38
59 74 0.59
60 2 0.02
ACGTcount: A:0.33, C:0.30, G:0.04, T:0.33
Consensus pattern (59 bp):
AAAAATTACATTTTTACCCCCGAACTTTCCAAAATCCCATTTTTAACCCCGATTTCACC
Found at i:7626670 original size:117 final size:117
Alignment explanation
Indices: 7626455--7626671 Score: 294
Period size: 117 Copynumber: 1.9 Consensus size: 117
7626445 AAACTTTCTA
* * *
7626455 AAAATTACATTTTTACCCCCGAACTTTCCAAAATCCCATTTTTAACCCCGATTTCACCAAAAATT
1 AAAATTACAGTTTTACCCCCAAACTTTCCAAAATCCCATTTTTAACCCCAATTTCACCAAAAATT
** * *
7626520 ACCATTTTACCCCCGAACTTTCCAAAATCCCATTTTTAACCTCGATTTCACC
66 ACCATTTTACCCCCGAACAGTCAAAAATACCATTTTTAACCTCGATTTCACC
* * * * *
7626572 AAAATTACCGTTTTACCCGCAAACTTTCCAAAATTCCATTTTTGACCCTAATTTCACCAAAAATT
1 AAAATTACAGTTTTACCCCCAAACTTTCCAAAATCCCATTTTTAACCCCAATTTCACCAAAAATT
7626637 A-CATTTTTACCCCCGAA-AGTCAAAAATTACCATTT
66 ACCA-TTTTACCCCCGAACAGTCAAAAA-TACCATTT
7626672 CGCCCCGGGC
Statistics
Matches: 86, Mismatches: 12, Indels: 4
0.84 0.12 0.04
Matches are distributed among these distances:
116 8 0.09
117 78 0.91
ACGTcount: A:0.34, C:0.29, G:0.04, T:0.33
Consensus pattern (117 bp):
AAAATTACAGTTTTACCCCCAAACTTTCCAAAATCCCATTTTTAACCCCAATTTCACCAAAAATT
ACCATTTTACCCCCGAACAGTCAAAAATACCATTTTTAACCTCGATTTCACC
Found at i:7628145 original size:10 final size:10
Alignment explanation
Indices: 7628100--7628173 Score: 73
Period size: 10 Copynumber: 7.4 Consensus size: 10
7628090 GGAAAATTAA
7628100 AAATTAAT-T
1 AAATTAATAT
7628109 AAATT-ATAT
1 AAATTAATAT
7628118 AATATTTAA-AT
1 AA-A-TTAATAT
* *
7628129 AATTTAACAT
1 AAATTAATAT
7628139 AAATTAATAT
1 AAATTAATAT
*
7628149 AAATAAAATAT
1 AAAT-TAATAT
7628160 AAATTAATAT
1 AAATTAATAT
7628170 AAAT
1 AAAT
7628174 AAGGATATTT
Statistics
Matches: 54, Mismatches: 5, Indels: 11
0.77 0.07 0.16
Matches are distributed among these distances:
8 2 0.04
9 12 0.22
10 24 0.44
11 15 0.28
12 1 0.02
ACGTcount: A:0.59, C:0.01, G:0.00, T:0.39
Consensus pattern (10 bp):
AAATTAATAT
Found at i:7629085 original size:22 final size:21
Alignment explanation
Indices: 7629037--7629086 Score: 64
Period size: 22 Copynumber: 2.3 Consensus size: 21
7629027 TTAGTAAAAC
* *
7629037 AAAAATAATATTTATTTTAAT
1 AAAAATAATATTTATTCTAAG
7629058 AGAAAATAATATTCTATTCTAAG
1 A-AAAATAATATT-TATTCTAAG
7629081 AAAAAT
1 AAAAAT
7629087 GGGATGGGCA
Statistics
Matches: 25, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
21 1 0.04
22 16 0.64
23 8 0.32
ACGTcount: A:0.54, C:0.04, G:0.04, T:0.38
Consensus pattern (21 bp):
AAAAATAATATTTATTCTAAG
Found at i:7631031 original size:16 final size:16
Alignment explanation
Indices: 7631010--7631041 Score: 64
Period size: 16 Copynumber: 2.0 Consensus size: 16
7631000 ACTAAAACAA
7631010 CATGAGTTCTAAAGTT
1 CATGAGTTCTAAAGTT
7631026 CATGAGTTCTAAAGTT
1 CATGAGTTCTAAAGTT
7631042 AATTAAAACC
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 16 1.00
ACGTcount: A:0.31, C:0.12, G:0.19, T:0.38
Consensus pattern (16 bp):
CATGAGTTCTAAAGTT
Found at i:7633080 original size:15 final size:16
Alignment explanation
Indices: 7633048--7633087 Score: 64
Period size: 16 Copynumber: 2.6 Consensus size: 16
7633038 AACATTTTAC
7633048 TTTTT-CAAAAGTACT
1 TTTTTACAAAAGTACT
*
7633063 TTTTTACAAAAGTATT
1 TTTTTACAAAAGTACT
7633079 TTTTTACAA
1 TTTTTACAA
7633088 CAATGATAAA
Statistics
Matches: 23, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
15 5 0.22
16 18 0.78
ACGTcount: A:0.35, C:0.10, G:0.05, T:0.50
Consensus pattern (16 bp):
TTTTTACAAAAGTACT
Found at i:7634991 original size:120 final size:121
Alignment explanation
Indices: 7634778--7635010 Score: 459
Period size: 120 Copynumber: 1.9 Consensus size: 121
7634768 TCATACAACC
7634778 GAATTACCAAATGGGTATTAATTTATTTTTAGAATTTCATATTAAATTTAATGTTAAATAACAAT
1 GAATTACCAAATGGGTATTAATTTATTTTTAGAATTTCATATTAAATTTAATGTTAAATAACAAT
7634843 AAGTATATTAATTATTAATGTTAAATATTTG-AAAGTGTTTTTTAATATAATATTT
66 AAGTATATTAATTATTAATGTTAAATATTTGAAAAGTGTTTTTTAATATAATATTT
7634898 GAATTACCAAATGGGTATTAATTTATTTTTAGAATTTCATATTAAATTTAATGTTAAATAACAAT
1 GAATTACCAAATGGGTATTAATTTATTTTTAGAATTTCATATTAAATTTAATGTTAAATAACAAT
7634963 AAGTATATTAATTATTAATGTTAAATATTTGAAAAGTGTTTTTTAATA
66 AAGTATATTAATTATTAATGTTAAATATTTGAAAAGTGTTTTTTAATA
7635011 ATGTTAACTG
Statistics
Matches: 112, Mismatches: 0, Indels: 1
0.99 0.00 0.01
Matches are distributed among these distances:
120 96 0.86
121 16 0.14
ACGTcount: A:0.41, C:0.03, G:0.09, T:0.46
Consensus pattern (121 bp):
GAATTACCAAATGGGTATTAATTTATTTTTAGAATTTCATATTAAATTTAATGTTAAATAACAAT
AAGTATATTAATTATTAATGTTAAATATTTGAAAAGTGTTTTTTAATATAATATTT
Found at i:7635164 original size:29 final size:28
Alignment explanation
Indices: 7635131--7635199 Score: 66
Period size: 29 Copynumber: 2.4 Consensus size: 28
7635121 TCAACCATTC
* * *
7635131 AAAAATTTAAATGGAGTGAAAATTTTGA
1 AAAAATTTAAATGAAGTGAAAAGTTTCA
* * *
7635159 TAAAAAATAAAATTAAGTGAAAAGTTTCA
1 -AAAAATTTAAATGAAGTGAAAAGTTTCA
7635188 ATAAAATTTAAA
1 A-AAAATTTAAA
7635200 CATAATGACT
Statistics
Matches: 31, Mismatches: 8, Indels: 2
0.76 0.20 0.05
Matches are distributed among these distances:
28 1 0.03
29 30 0.97
ACGTcount: A:0.57, C:0.01, G:0.12, T:0.30
Consensus pattern (28 bp):
AAAAATTTAAATGAAGTGAAAAGTTTCA
Found at i:7639049 original size:139 final size:138
Alignment explanation
Indices: 7638785--7639103 Score: 374
Period size: 139 Copynumber: 2.3 Consensus size: 138
7638775 TGTTTTGAGC
* ** * *
7638785 TGACTAAAATAAGAACAACAACTATTTAGAGTGACTAACGTAAAAATGTACAATTAACTTTTCGT
1 TGACCAAAATAAGAACAACCCCTATTTAGAGTGACTAACGTAAAAATGTACAATTAACATTCCGT
* *
7638850 TACCATTTAATGATGGAGTGATCAATTTGATCAATTTTTTTAAATGACCAAATTAATAACAAAAA
66 TACCATTTAATGATGGAGTGACCAATTTGATCAATTTTTTTAAATAACCAAATT-ATAACAAAAA
*
7638915 AAATTATAG
130 AAATTAGAG
* * * ** *** *
7638924 TGATCAAAATAAGAACGACCCCTATTTAGAGTGACTAATGTGGAAATGTATTGTTAGCATTCCGT
1 TGACCAAAATAAGAACAACCCCTATTTAGAGTGACTAACGTAAAAATGTACAATTAACATTCCGT
* *
7638989 TACTATTTAATGATGGAGTGACCAATTTGATCAAATTTTTTTGGGAATAACC-AATT-TAACAAA
66 TACCATTTAATGATGGAGTGACCAATTTGATC-AATTTTTTT--AAATAACCAAATTATAACAAA
*
7639052 AAAAATTGGAG
128 AAAAATTAGAG
* *
7639063 TGACCAAAATAA-AAGCAATCCCTATTTAGAGTGAGTAACGT
1 TGACCAAAATAAGAA-CAACCCCTATTTAGAGTGACTAACGT
7639104 GTCAGTATTT
Statistics
Matches: 151, Mismatches: 25, Indels: 8
0.82 0.14 0.04
Matches are distributed among these distances:
138 2 0.01
139 130 0.86
140 9 0.06
141 4 0.03
142 6 0.04
ACGTcount: A:0.41, C:0.13, G:0.15, T:0.31
Consensus pattern (138 bp):
TGACCAAAATAAGAACAACCCCTATTTAGAGTGACTAACGTAAAAATGTACAATTAACATTCCGT
TACCATTTAATGATGGAGTGACCAATTTGATCAATTTTTTTAAATAACCAAATTATAACAAAAAA
AATTAGAG
Found at i:7650146 original size:18 final size:18
Alignment explanation
Indices: 7650115--7650151 Score: 56
Period size: 18 Copynumber: 2.1 Consensus size: 18
7650105 TTTGTGATCA
*
7650115 AAATTGAAAGTGAAAGTG
1 AAATTAAAAGTGAAAGTG
*
7650133 AAATTAAAATTGAAAGTG
1 AAATTAAAAGTGAAAGTG
7650151 A
1 A
7650152 TATGAATTGT
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
18 17 1.00
ACGTcount: A:0.54, C:0.00, G:0.22, T:0.24
Consensus pattern (18 bp):
AAATTAAAAGTGAAAGTG
Found at i:7656160 original size:3 final size:3
Alignment explanation
Indices: 7656152--7656188 Score: 74
Period size: 3 Copynumber: 12.3 Consensus size: 3
7656142 ACAATATATG
7656152 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT T
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT T
7656189 TTTGCCTGAA
Statistics
Matches: 34, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 34 1.00
ACGTcount: A:0.32, C:0.00, G:0.00, T:0.68
Consensus pattern (3 bp):
TAT
Found at i:7682589 original size:6 final size:6
Alignment explanation
Indices: 7682571--7682621 Score: 59
Period size: 6 Copynumber: 8.5 Consensus size: 6
7682561 TATTTCTAAG
* **
7682571 TTTAAA TTT-AA TTTAAA TTTAAA TTTAAAA TTCATT TTTAAA TTTAAA
1 TTTAAA TTTAAA TTTAAA TTTAAA TTT-AAA TTTAAA TTTAAA TTTAAA
7682619 TTT
1 TTT
7682622 GTTAGCTTAA
Statistics
Matches: 37, Mismatches: 6, Indels: 4
0.79 0.13 0.09
Matches are distributed among these distances:
5 5 0.14
6 27 0.73
7 5 0.14
ACGTcount: A:0.43, C:0.02, G:0.00, T:0.55
Consensus pattern (6 bp):
TTTAAA
Found at i:7682593 original size:17 final size:18
Alignment explanation
Indices: 7682556--7682598 Score: 61
Period size: 17 Copynumber: 2.4 Consensus size: 18
7682546 ATTTGGTTTC
* *
7682556 AAATTTATTTCTAAGTTT
1 AAATTTAATTCTAAATTT
7682574 AAATTTAATT-TAAATTT
1 AAATTTAATTCTAAATTT
7682591 AAATTTAA
1 AAATTTAA
7682599 AATTCATTTT
Statistics
Matches: 23, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
17 14 0.61
18 9 0.39
ACGTcount: A:0.44, C:0.02, G:0.02, T:0.51
Consensus pattern (18 bp):
AAATTTAATTCTAAATTT
Found at i:7684534 original size:30 final size:29
Alignment explanation
Indices: 7684489--7684698 Score: 109
Period size: 30 Copynumber: 7.1 Consensus size: 29
7684479 GCTCATAGGT
7684489 CCCCAAAAC-TTCCAAAAATTACCATTTTA
1 CCCC-AAACTTTCCAAAAATTACCATTTTA
7684518 CCCCTAAACTTTCCAAAAATT-CCATTTTTAA
1 CCCC-AAACTTTCCAAAAATTACCA-TTTT-A
*
7684549 CCCC-GA-TTTCACCAAAAATTACCATTTTA
1 CCCCAAACTTT--CCAAAAATTACCATTTTA
**
7684578 CCCCCAAACTTT-TTAAAATT-CCATTTTGA
1 -CCCCAAACTTTCCAAAAATTACCATTTT-A
** * * *
7684607 CGTC-GA-TTTCACCAAAAATTTCCATTTTG
1 CCCCAAACTTT--CCAAAAATTACCATTTTA
* * * *
7684636 CCCTCGAACCTACC-AAAATT-TCATTTTTGA
1 CCC-CAAACTTTCCAAAAATTACCA-TTTT-A
7684666 CCCCAAAACTTT-CAAAAATTACCATTTTA
1 CCCC-AAACTTTCCAAAAATTACCATTTTA
7684695 CCCC
1 CCCC
7684699 CGAACCTTCT
Statistics
Matches: 137, Mismatches: 22, Indels: 44
0.67 0.11 0.22
Matches are distributed among these distances:
26 3 0.02
27 1 0.01
28 14 0.10
29 44 0.32
30 59 0.43
31 12 0.09
32 4 0.03
ACGTcount: A:0.34, C:0.30, G:0.03, T:0.33
Consensus pattern (29 bp):
CCCCAAACTTTCCAAAAATTACCATTTTA
Found at i:7684769 original size:117 final size:115
Alignment explanation
Indices: 7684500--7684840 Score: 332
Period size: 117 Copynumber: 2.9 Consensus size: 115
7684490 CCCAAAACTT
* *
7684500 CCAAAAATTACCATTTTACCCCTAAACTTTCCAAAAATTCCATTTTTAACCCCGATTTCACCAAA
1 CCAAAAATTACCATTTTACCCCCAAACTTTCC-AAAATTCCATTTTTAACCCCAATTT--CCAAA
* * * *
7684565 AATTACCATTTTACCCCCAAACTTTTTAAAATTCCATTTTGACGTCGATTTCA
63 AATTACCATTTTACCCCCAAACCTTCTAAAATTCCATTTTAACCTCGATTTCA
* * * * * * * *
7684618 CCAAAAATTTCCATTTTGCCCTCGAACCTACCAAAATTTCATTTTTGACCCCAAAACTTT-CAAA
1 CCAAAAATTACCATTTTACCCCCAAACTTTCCAAAATTCCATTTTTAACCCC--AA-TTTCCAAA
* *
7684682 AATTACCATTTTACCCCCGAACCTTCTAAAA-TCTCGTTTTAACC-CTGATTTCA
63 AATTACCATTTTACCCCCAAACCTTCTAAAATTC-CATTTTAACCTC-GATTTCA
* * * * *
7684735 CCCAAAATTACCAATTTACCCCCAAATTTTCCAAAATTCCATTTTTAA-CTCAATTTCACCCAAA
1 CCAAAAATTACCATTTTACCCCCAAACTTTCCAAAATTCCATTTTTAACCCCAATTT--CCAAAA
* * * *
7684799 AGTACCA-TTTATCCCCAAACTTTCTAAAATTCTATTTTAACC
64 ATTACCATTTTACCCCCAAACCTTCTAAAATTCCATTTTAACC
7684841 CCGAATTTTC
Statistics
Matches: 179, Mismatches: 35, Indels: 21
0.76 0.15 0.09
Matches are distributed among these distances:
113 3 0.02
114 2 0.01
115 27 0.15
116 17 0.09
117 101 0.56
118 25 0.14
119 1 0.01
120 3 0.02
ACGTcount: A:0.34, C:0.29, G:0.03, T:0.34
Consensus pattern (115 bp):
CCAAAAATTACCATTTTACCCCCAAACTTTCCAAAATTCCATTTTTAACCCCAATTTCCAAAAAT
TACCATTTTACCCCCAAACCTTCTAAAATTCCATTTTAACCTCGATTTCA
Found at i:7684848 original size:58 final size:58
Alignment explanation
Indices: 7684500--7684844 Score: 283
Period size: 58 Copynumber: 5.9 Consensus size: 58
7684490 CCCAAAACTT
* *
7684500 CCAAAAATTACCATTTTACCCCTAAACTTTCCAAAAATTCCATTTTTAACCCCGATTTCA
1 CCAAAAATTACCA-TTTACCCCCAAACTTT-CTAAAATTCCATTTTTAACCCCGATTTCA
* * **
7684560 CCAAAAATTACCATTTTACCCCCAAACTTTTTAAAATTCCA-TTTTGACGTCGATTTCA
1 CCAAAAATTACCA-TTTACCCCCAAACTTTCTAAAATTCCATTTTTAACCCCGATTTCA
* * * * * * * * * *
7684618 CCAAAAATTTCCATTTTGCCCTCGAACCTACCAAAATTTCATTTTTGACCCCAAAACTTT--
1 CCAAAAATTACCA-TTTACCCCCAAACTTTCTAAAATTCCATTTTTAACCCC--GA-TTTCA
* * * *
7684678 -CAAAAATTACCATTTTACCCCCGAACCTTCTAAAA-TCTC-GTTTTAACCCTGATTTCA
1 CCAAAAATTACCA-TTTACCCCCAAACTTTCTAAAATTC-CATTTTTAACCCCGATTTCA
* * * * *
7684735 CCCAAAATTACCAATTTACCCCCAAATTTTCCAAAATTCCATTTTTAA-CTCAATTTCA
1 CCAAAAATTACC-ATTTACCCCCAAACTTTCTAAAATTCCATTTTTAACCCCGATTTCA
* * * *
7684793 CCCAAAAGTACCATTTATCCCCAAACTTTCTAAAATTCTA-TTTTAACCCCGA
1 CCAAAAATTACCATTTACCCCCAAACTTTCTAAAATTCCATTTTTAACCCCGA
7684845 ATTTTCCCGA
Statistics
Matches: 229, Mismatches: 44, Indels: 27
0.76 0.15 0.09
Matches are distributed among these distances:
55 3 0.01
56 7 0.03
57 27 0.12
58 102 0.45
59 57 0.25
60 29 0.13
61 1 0.00
62 3 0.01
ACGTcount: A:0.34, C:0.29, G:0.03, T:0.34
Consensus pattern (58 bp):
CCAAAAATTACCATTTACCCCCAAACTTTCTAAAATTCCATTTTTAACCCCGATTTCA
Found at i:7693196 original size:25 final size:25
Alignment explanation
Indices: 7693168--7693218 Score: 77
Period size: 25 Copynumber: 2.0 Consensus size: 25
7693158 AATTCAAATC
*
7693168 AAAT-AAATTATTATAAAATTATAAA
1 AAATAAAAATATTA-AAAATTATAAA
7693193 AAATAAAAATATTAAAAATTATAAA
1 AAATAAAAATATTAAAAATTATAAA
7693218 A
1 A
7693219 TTTGATTTAA
Statistics
Matches: 24, Mismatches: 1, Indels: 2
0.89 0.04 0.07
Matches are distributed among these distances:
25 16 0.67
26 8 0.33
ACGTcount: A:0.69, C:0.00, G:0.00, T:0.31
Consensus pattern (25 bp):
AAATAAAAATATTAAAAATTATAAA
Found at i:7693406 original size:24 final size:25
Alignment explanation
Indices: 7693358--7693407 Score: 68
Period size: 25 Copynumber: 2.0 Consensus size: 25
7693348 ATCCGGATCT
*
7693358 TAAAATATTTTTAATATTTTTATAA
1 TAAAATATTTTTAATATTTTAATAA
7693383 TAAAATATTATTT-AT-TTTTAATAA
1 TAAAATATT-TTTAATATTTTAATAA
7693407 T
1 T
7693408 CCAAAAGTGA
Statistics
Matches: 23, Mismatches: 1, Indels: 3
0.85 0.04 0.11
Matches are distributed among these distances:
24 9 0.39
25 11 0.48
26 3 0.13
ACGTcount: A:0.44, C:0.00, G:0.00, T:0.56
Consensus pattern (25 bp):
TAAAATATTTTTAATATTTTAATAA
Found at i:7700610 original size:6 final size:6
Alignment explanation
Indices: 7700599--7700623 Score: 50
Period size: 6 Copynumber: 4.2 Consensus size: 6
7700589 AAAAAATATG
7700599 AATTAA AATTAA AATTAA AATTAA A
1 AATTAA AATTAA AATTAA AATTAA A
7700624 GAACTTGAAA
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:0.68, C:0.00, G:0.00, T:0.32
Consensus pattern (6 bp):
AATTAA
Found at i:7705455 original size:67 final size:67
Alignment explanation
Indices: 7705347--7705479 Score: 266
Period size: 67 Copynumber: 2.0 Consensus size: 67
7705337 AAATAAATTT
7705347 TCAACTATAACAACAATGACCATATGCCTATATTGACTAAGGGTGGATTTAAATGGACGATGCAT
1 TCAACTATAACAACAATGACCATATGCCTATATTGACTAAGGGTGGATTTAAATGGACGATGCAT
7705412 TC
66 TC
7705414 TCAACTATAACAACAATGACCATATGCCTATATTGACTAAGGGTGGATTTAAATGGACGATGCAT
1 TCAACTATAACAACAATGACCATATGCCTATATTGACTAAGGGTGGATTTAAATGGACGATGCAT
7705479 T
66 T
7705480 TACTTGCAAT
Statistics
Matches: 66, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
67 66 1.00
ACGTcount: A:0.36, C:0.17, G:0.18, T:0.29
Consensus pattern (67 bp):
TCAACTATAACAACAATGACCATATGCCTATATTGACTAAGGGTGGATTTAAATGGACGATGCAT
TC
Found at i:7709706 original size:30 final size:30
Alignment explanation
Indices: 7709672--7709732 Score: 95
Period size: 30 Copynumber: 2.0 Consensus size: 30
7709662 ATATTAGATC
* * *
7709672 ACATTTTATCTAAGTAAATTTGTAAATCCT
1 ACATTTGATATAAGTAAATTTCTAAATCCT
7709702 ACATTTGATATAAGTAAATTTCTAAATCCT
1 ACATTTGATATAAGTAAATTTCTAAATCCT
7709732 A
1 A
7709733 ATATGTTTCC
Statistics
Matches: 28, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
30 28 1.00
ACGTcount: A:0.39, C:0.13, G:0.07, T:0.41
Consensus pattern (30 bp):
ACATTTGATATAAGTAAATTTCTAAATCCT
Found at i:7711495 original size:96 final size:96
Alignment explanation
Indices: 7711175--7711563 Score: 482
Period size: 97 Copynumber: 4.0 Consensus size: 96
7711165 AATCCTGATA
* * * *
7711175 GATGTCAAAAGGTTTTCTT-ACTAGTCTAGAAGCTTCACATTTATTAGCTTTAGGAAGCAGCAAT
1 GATGTCAAAAGGTTTT-TTGACTAGTCTAAAAGCTTCACATTTATTGGCTTTGGGAAGCAACAAT
* * * *
7711239 CTAGGTGTAAATTAGGTTTCTTATTATGTTTTG
65 CTAGGCGTGAACT-GGTTTATTATTATGTTTTG
* *
7711272 GATGTCAAAAGGTTTTTTGACTAGTCTAAAAGCTTCACATTTATTGGTTTTGGGAAGCAGA-AGT
1 GATGTCAAAAGGTTTTTTGACTAGTCTAAAAGCTTCACATTTATTGGCTTTGGGAAGCA-ACAAT
*
7711336 CTAGACGTGAACTGAGTTTATTATTATGTTTTG
65 CTAGGCGTGAACTG-GTTTATTATTATGTTTTG
* * *
7711369 GATGTCAAAAGGTTTTTTGACTAGTGTAAAAGCTTCATATTTATTGGCTTTGGGAAACAACAA-C
1 GATGTCAAAAGGTTTTTTGACTAGTCTAAAAGCTTCACATTTATTGGCTTTGGGAAGCAACAATC
*
7711433 TAGGCGTGGACTGTGTTTATTATTATGTTTTG
66 TAGGCGTGAACTG-GTTTATTATTATGTTTTG
* * * * *
7711465 GATGTCAAAAGATTTTTTGACTAATTTAAAAGCTTTACATTTATTGGCTTTGGGAAGCATCAATC
1 GATGTCAAAAGGTTTTTTGACTAGTCTAAAAGCTTCACATTTATTGGCTTTGGGAAGCAACAATC
* *
7711530 TATG-GT-AGGCTGGGTTTATTATTATGTTTTG
66 TAGGCGTGA-ACT-GGTTTATTATTATGTTTTG
7711561 GAT
1 GAT
7711564 TTTGGTAGCC
Statistics
Matches: 256, Mismatches: 29, Indels: 15
0.85 0.10 0.05
Matches are distributed among these distances:
96 115 0.45
97 141 0.55
ACGTcount: A:0.28, C:0.11, G:0.22, T:0.40
Consensus pattern (96 bp):
GATGTCAAAAGGTTTTTTGACTAGTCTAAAAGCTTCACATTTATTGGCTTTGGGAAGCAACAATC
TAGGCGTGAACTGGTTTATTATTATGTTTTG
Found at i:7711507 original size:193 final size:194
Alignment explanation
Indices: 7711175--7711523 Score: 506
Period size: 193 Copynumber: 1.8 Consensus size: 194
7711165 AATCCTGATA
* * *
7711175 GATGTCAAAAGGTTTTCTTACTAGTCTAGAAGCTTCACATTTATTAGCTTTAGGAAGCAGCAATC
1 GATGTCAAAAGGTTTTCTTACTAGTCTAAAAGCTTCACATTTATTAGCTTTAGGAAACAACAATC
* * * * *
7711240 TAGGTGTAAATTAGGTTTCTTATTATGTTTTGGATGTCAAAAGGTTTTTTGACTAGTCTAAAAGC
66 TAGGCGTAAACTAGGTTTATTATTATGTTTTGGATGTCAAAAGATTTTTTGACTAATCTAAAAGC
*
7711305 TTCACATTTATTGGTTTTGGGAAGCAGAAGTCTAGACGTGAACTGAGTTTATTATTATGTTTTG
131 TTCACATTTATTGGCTTTGGGAAGCAGAAGTCTAGACGTGAACTGAGTTTATTATTATGTTTTG
* * * *
7711369 GATGTCAAAAGGTTTT-TTGACTAGTGTAAAAGCTTCATATTTATTGGCTTTGGGAAACAACAA-
1 GATGTCAAAAGGTTTTCTT-ACTAGTCTAAAAGCTTCACATTTATTAGCTTTAGGAAACAACAAT
** *
7711432 CTAGGCGTGGACT-GTGTTTATTATTATGTTTTGGATGTCAAAAGATTTTTTGACTAATTTAAAA
65 CTAGGCGTAAACTAG-GTTTATTATTATGTTTTGGATGTCAAAAGATTTTTTGACTAATCTAAAA
*
7711496 GCTTTACATTTATTGGCTTTGGGAAGCA
129 GCTTCACATTTATTGGCTTTGGGAAGCA
7711524 TCAATCTATG
Statistics
Matches: 136, Mismatches: 17, Indels: 5
0.86 0.11 0.03
Matches are distributed among these distances:
192 1 0.01
193 82 0.60
194 53 0.39
ACGTcount: A:0.28, C:0.11, G:0.21, T:0.40
Consensus pattern (194 bp):
GATGTCAAAAGGTTTTCTTACTAGTCTAAAAGCTTCACATTTATTAGCTTTAGGAAACAACAATC
TAGGCGTAAACTAGGTTTATTATTATGTTTTGGATGTCAAAAGATTTTTTGACTAATCTAAAAGC
TTCACATTTATTGGCTTTGGGAAGCAGAAGTCTAGACGTGAACTGAGTTTATTATTATGTTTTG
Found at i:7715317 original size:39 final size:39
Alignment explanation
Indices: 7715258--7715332 Score: 123
Period size: 39 Copynumber: 1.9 Consensus size: 39
7715248 GTTCTACTAA
* *
7715258 AAAAATAATAGTGTCTACCTAATAAATACACTTTTTTTT
1 AAAAATAATAGTCTCGACCTAATAAATACACTTTTTTTT
*
7715297 AAAATTAATAGTCTCGACCTAATAAATACACTTTTT
1 AAAAATAATAGTCTCGACCTAATAAATACACTTTTT
7715333 AAAAAAAAAA
Statistics
Matches: 33, Mismatches: 3, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
39 33 1.00
ACGTcount: A:0.41, C:0.15, G:0.05, T:0.39
Consensus pattern (39 bp):
AAAAATAATAGTCTCGACCTAATAAATACACTTTTTTTT
Found at i:7716817 original size:15 final size:14
Alignment explanation
Indices: 7716797--7716832 Score: 54
Period size: 15 Copynumber: 2.4 Consensus size: 14
7716787 AATGGGAGTA
7716797 GTGGTGATAGTGGTG
1 GTGGTGA-AGTGGTG
7716812 GTGGTGGAAGTGGTG
1 GTGGT-GAAGTGGTG
7716827 GTGGTG
1 GTGGTG
7716833 GCCGGTGGTG
Statistics
Matches: 20, Mismatches: 0, Indels: 3
0.87 0.00 0.13
Matches are distributed among these distances:
14 1 0.05
15 17 0.85
16 2 0.10
ACGTcount: A:0.11, C:0.00, G:0.58, T:0.31
Consensus pattern (14 bp):
GTGGTGAAGTGGTG
Found at i:7716833 original size:15 final size:15
Alignment explanation
Indices: 7716805--7716833 Score: 58
Period size: 15 Copynumber: 1.9 Consensus size: 15
7716795 TAGTGGTGAT
7716805 AGTGGTGGTGGTGGA
1 AGTGGTGGTGGTGGA
7716820 AGTGGTGGTGGTGG
1 AGTGGTGGTGGTGG
7716834 CCGGTGGTGG
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 14 1.00
ACGTcount: A:0.10, C:0.00, G:0.62, T:0.28
Consensus pattern (15 bp):
AGTGGTGGTGGTGGA
Found at i:7718137 original size:23 final size:22
Alignment explanation
Indices: 7718089--7718137 Score: 55
Period size: 22 Copynumber: 2.2 Consensus size: 22
7718079 GTTTCACTCA
* *
7718089 TTTTAATTTTTCAAAAATCATT
1 TTTTAAATTTTCAAAAATCATG
7718111 TTTTAAATTTTCAATCAAA-CATG
1 TTTTAAATTTTCAA--AAATCATG
7718134 TTTT
1 TTTT
7718138 TGCTCAATGT
Statistics
Matches: 23, Mismatches: 2, Indels: 3
0.82 0.07 0.11
Matches are distributed among these distances:
22 13 0.57
23 7 0.30
24 3 0.13
ACGTcount: A:0.35, C:0.10, G:0.02, T:0.53
Consensus pattern (22 bp):
TTTTAAATTTTCAAAAATCATG
Found at i:7722932 original size:46 final size:46
Alignment explanation
Indices: 7722879--7722971 Score: 134
Period size: 46 Copynumber: 2.0 Consensus size: 46
7722869 TTTTTTATTC
* * *
7722879 TATCAACTTCAATAACAATACTGTATATTG-TGGTATATGTTGATGA
1 TATCAACTTCAACAACAATACTGCATATTGCT-ATATATGTTGATGA
*
7722925 TATCAACTTCAACAATAATACTGCATATTGCTATATATGTTGATGA
1 TATCAACTTCAACAACAATACTGCATATTGCTATATATGTTGATGA
7722971 T
1 T
7722972 TTCATAATCA
Statistics
Matches: 42, Mismatches: 4, Indels: 2
0.88 0.08 0.04
Matches are distributed among these distances:
46 41 0.98
47 1 0.02
ACGTcount: A:0.35, C:0.13, G:0.13, T:0.39
Consensus pattern (46 bp):
TATCAACTTCAACAACAATACTGCATATTGCTATATATGTTGATGA
Found at i:7727690 original size:53 final size:53
Alignment explanation
Indices: 7727610--7727715 Score: 194
Period size: 53 Copynumber: 2.0 Consensus size: 53
7727600 ATCTAACACA
*
7727610 CACAAATAATATGCAAATAATTTCAAGTATATTTGAATTAACAAATGCACATT
1 CACAAATAATATGCAAATAATTTCAAGTATATTTAAATTAACAAATGCACATT
*
7727663 CACAAATAATATGCAAATAATTTCAAGTATATTTAAATTAACAATTGCACATT
1 CACAAATAATATGCAAATAATTTCAAGTATATTTAAATTAACAAATGCACATT
7727716 TTAGTGAATA
Statistics
Matches: 51, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
53 51 1.00
ACGTcount: A:0.47, C:0.13, G:0.07, T:0.33
Consensus pattern (53 bp):
CACAAATAATATGCAAATAATTTCAAGTATATTTAAATTAACAAATGCACATT
Found at i:7730675 original size:6 final size:6
Alignment explanation
Indices: 7730664--7730693 Score: 60
Period size: 6 Copynumber: 5.0 Consensus size: 6
7730654 TCCTTTCCCA
7730664 GATTTT GATTTT GATTTT GATTTT GATTTT
1 GATTTT GATTTT GATTTT GATTTT GATTTT
7730694 CGTTTCCATC
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 24 1.00
ACGTcount: A:0.17, C:0.00, G:0.17, T:0.67
Consensus pattern (6 bp):
GATTTT
Found at i:7733928 original size:23 final size:22
Alignment explanation
Indices: 7733897--7734041 Score: 109
Period size: 23 Copynumber: 6.5 Consensus size: 22
7733887 GCTAGGGAAA
7733897 CAGTAAGCACACACAGTGCAAT
1 CAGTAAGCACACACAGTGCAAT
7733919 CTAGTAAGCACACACAGTGCAAT
1 C-AGTAAGCACACACAGTGCAAT
* * * *
7733942 CAGTAGGCGCACATAGCGCAAAT
1 CAGTAAGCACACACAGTGC-AAT
* * *
7733965 CAGTAGGCACACGA-GGTGCGAAA
1 CAGTAAGCACAC-ACAGTGC-AAT
** *
7733988 CAGTAAGCA-TGA-AGTGCGAAA
1 CAGTAAGCACACACAGTGC-AAT
7734009 CAGTAAGCACACACAGTGCTGAA-
1 CAGTAAGCACACACAGTGC--AAT
7734032 CAGTAAGCAC
1 CAGTAAGCAC
7734042 GCTAGCGTTC
Statistics
Matches: 102, Mismatches: 15, Indels: 11
0.80 0.12 0.09
Matches are distributed among these distances:
21 18 0.18
22 16 0.16
23 64 0.63
24 4 0.04
ACGTcount: A:0.39, C:0.24, G:0.24, T:0.13
Consensus pattern (22 bp):
CAGTAAGCACACACAGTGCAAT
Found at i:7734140 original size:24 final size:26
Alignment explanation
Indices: 7734102--7734149 Score: 66
Period size: 24 Copynumber: 1.9 Consensus size: 26
7734092 TTTACATGGG
7734102 CATAATCTCTCATAT-TCATCATTTCT
1 CATAATCTCTCATATATCA-CATTTCT
7734128 CATAAT-T-TCATATATCACATTT
1 CATAATCTCTCATATATCACATTT
7734150 ACATTTCTCT
Statistics
Matches: 21, Mismatches: 0, Indels: 4
0.84 0.00 0.16
Matches are distributed among these distances:
24 11 0.52
25 4 0.19
26 6 0.29
ACGTcount: A:0.31, C:0.23, G:0.00, T:0.46
Consensus pattern (26 bp):
CATAATCTCTCATATATCACATTTCT
Found at i:7734458 original size:13 final size:13
Alignment explanation
Indices: 7734442--7734467 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
7734432 ATATTTTTAC
7734442 CATAAAAATTTCA
1 CATAAAAATTTCA
7734455 CATAAAAATTTCA
1 CATAAAAATTTCA
7734468 AAATTTTTAC
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.54, C:0.15, G:0.00, T:0.31
Consensus pattern (13 bp):
CATAAAAATTTCA
Found at i:7739774 original size:24 final size:24
Alignment explanation
Indices: 7739730--7739775 Score: 58
Period size: 24 Copynumber: 1.9 Consensus size: 24
7739720 AGTGTTTTTA
* *
7739730 ATTTTTTTTATTTTACGTTATTGT
1 ATTTTTTTTATTGTACATTATTGT
7739754 ATTTATTTTTATTGT-CATTATT
1 ATTT-TTTTTATTGTACATTATT
7739776 ATTTTTACAT
Statistics
Matches: 19, Mismatches: 2, Indels: 2
0.83 0.09 0.09
Matches are distributed among these distances:
24 10 0.53
25 9 0.47
ACGTcount: A:0.20, C:0.04, G:0.07, T:0.70
Consensus pattern (24 bp):
ATTTTTTTTATTGTACATTATTGT
Found at i:7740937 original size:9 final size:9
Alignment explanation
Indices: 7740923--7740995 Score: 63
Period size: 9 Copynumber: 8.8 Consensus size: 9
7740913 GCAAATGATT
7740923 TTAAAATTA
1 TTAAAATTA
7740932 TTAAAATTA
1 TTAAAATTA
7740941 TT----TT-
1 TTAAAATTA
*
7740945 TTAAAAATA
1 TTAAAATTA
7740954 -TAAAATTA
1 TTAAAATTA
7740962 TTAAAATTA
1 TTAAAATTA
7740971 TTTTAAAA-TA
1 --TTAAAATTA
7740981 -TAAAATTA
1 TTAAAATTA
7740989 TTAAAAT
1 TTAAAAT
7740996 AATCATCATT
Statistics
Matches: 52, Mismatches: 2, Indels: 20
0.70 0.03 0.27
Matches are distributed among these distances:
4 2 0.04
5 2 0.04
7 5 0.10
8 10 0.19
9 25 0.48
10 2 0.04
11 6 0.12
ACGTcount: A:0.55, C:0.00, G:0.00, T:0.45
Consensus pattern (9 bp):
TTAAAATTA
Found at i:7740957 original size:21 final size:22
Alignment explanation
Indices: 7740921--7740963 Score: 70
Period size: 21 Copynumber: 2.0 Consensus size: 22
7740911 CAGCAAATGA
*
7740921 TTTTAAAATTATTAAAATTATT
1 TTTTAAAAATATTAAAATTATT
7740943 TTTTAAAAATA-TAAAATTATT
1 TTTTAAAAATATTAAAATTATT
7740964 AAAATTATTT
Statistics
Matches: 20, Mismatches: 1, Indels: 1
0.91 0.05 0.05
Matches are distributed among these distances:
21 10 0.50
22 10 0.50
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (22 bp):
TTTTAAAAATATTAAAATTATT
Found at i:7740978 original size:27 final size:29
Alignment explanation
Indices: 7740924--7740995 Score: 121
Period size: 27 Copynumber: 2.5 Consensus size: 29
7740914 CAAATGATTT
7740924 TAAAATTATTAAAATTATTTTTTAAAAATA
1 TAAAATTATTAAAATTA-TTTTTAAAAATA
7740954 TAAAATTATTAAAATTA-TTTT-AAAATA
1 TAAAATTATTAAAATTATTTTTAAAAATA
7740981 TAAAATTATTAAAAT
1 TAAAATTATTAAAAT
7740996 AATCATCATT
Statistics
Matches: 42, Mismatches: 0, Indels: 3
0.93 0.00 0.07
Matches are distributed among these distances:
27 21 0.50
28 4 0.10
30 17 0.40
ACGTcount: A:0.56, C:0.00, G:0.00, T:0.44
Consensus pattern (29 bp):
TAAAATTATTAAAATTATTTTTAAAAATA
Found at i:7740994 original size:16 final size:16
Alignment explanation
Indices: 7740948--7740996 Score: 63
Period size: 16 Copynumber: 3.4 Consensus size: 16
7740938 TTATTTTTTA
7740948 AAAATATAAAATTATT
1 AAAATATAAAATTATT
7740964 AAAAT-T---ATT-TT
1 AAAATATAAAATTATT
7740975 AAAATATAAAATTATT
1 AAAATATAAAATTATT
7740991 AAAATA
1 AAAATA
7740997 ATCATCATTT
Statistics
Matches: 28, Mismatches: 0, Indels: 10
0.74 0.00 0.26
Matches are distributed among these distances:
11 7 0.25
12 4 0.14
15 4 0.14
16 13 0.46
ACGTcount: A:0.61, C:0.00, G:0.00, T:0.39
Consensus pattern (16 bp):
AAAATATAAAATTATT
Found at i:7741927 original size:14 final size:13
Alignment explanation
Indices: 7741892--7741945 Score: 67
Period size: 15 Copynumber: 4.2 Consensus size: 13
7741882 TAATTTTATA
7741892 TTTAAAAAATAAT
1 TTTAAAAAATAAT
*
7741905 TTT--AAATTAAT
1 TTTAAAAAATAAT
7741916 TTTAAAAAATTATAT
1 TTTAAAAAA-TA-AT
7741931 TTTAAAAAATAAT
1 TTTAAAAAATAAT
7741944 TT
1 TT
7741946 ATTTTTTGTT
Statistics
Matches: 35, Mismatches: 2, Indels: 8
0.78 0.04 0.18
Matches are distributed among these distances:
11 10 0.29
13 10 0.29
14 4 0.11
15 11 0.31
ACGTcount: A:0.54, C:0.00, G:0.00, T:0.46
Consensus pattern (13 bp):
TTTAAAAAATAAT
Found at i:7742307 original size:11 final size:11
Alignment explanation
Indices: 7742275--7742314 Score: 53
Period size: 11 Copynumber: 3.5 Consensus size: 11
7742265 TAAAGTATGA
7742275 AATAAAAATAT
1 AATAAAAATAT
*
7742286 AATAGTTAAATAT
1 AATA--AAAATAT
7742299 AATAAAAATAT
1 AATAAAAATAT
7742310 AATAA
1 AATAA
7742315 TTAGTTAAAT
Statistics
Matches: 25, Mismatches: 2, Indels: 4
0.81 0.06 0.13
Matches are distributed among these distances:
11 15 0.60
13 10 0.40
ACGTcount: A:0.68, C:0.00, G:0.03, T:0.30
Consensus pattern (11 bp):
AATAAAAATAT
Found at i:7745377 original size:3 final size:3
Alignment explanation
Indices: 7745371--7745402 Score: 64
Period size: 3 Copynumber: 10.7 Consensus size: 3
7745361 AGAACTACAA
7745371 ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT AT
1 ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT AT
7745403 ATATATATTT
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 29 1.00
ACGTcount: A:0.34, C:0.00, G:0.00, T:0.66
Consensus pattern (3 bp):
ATT
Found at i:7750335 original size:26 final size:26
Alignment explanation
Indices: 7750306--7750358 Score: 106
Period size: 26 Copynumber: 2.0 Consensus size: 26
7750296 TTAGAAAGTA
7750306 AGAGCAATTTATTCAATAAAATACAT
1 AGAGCAATTTATTCAATAAAATACAT
7750332 AGAGCAATTTATTCAATAAAATACAT
1 AGAGCAATTTATTCAATAAAATACAT
7750358 A
1 A
7750359 AAAACAGTTC
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:0.11, G:0.08, T:0.30
Consensus pattern (26 bp):
AGAGCAATTTATTCAATAAAATACAT
Found at i:7752939 original size:20 final size:20
Alignment explanation
Indices: 7752914--7752952 Score: 69
Period size: 20 Copynumber: 1.9 Consensus size: 20
7752904 TAAGATTTTT
*
7752914 GTGAGTGAGTATAGCATTAC
1 GTGAGTGAATATAGCATTAC
7752934 GTGAGTGAATATAGCATTA
1 GTGAGTGAATATAGCATTA
7752953 AAACCACATT
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
20 18 1.00
ACGTcount: A:0.33, C:0.08, G:0.28, T:0.31
Consensus pattern (20 bp):
GTGAGTGAATATAGCATTAC
Found at i:7756742 original size:34 final size:32
Alignment explanation
Indices: 7756697--7756759 Score: 74
Period size: 34 Copynumber: 1.9 Consensus size: 32
7756687 TCAAATACCC
7756697 TTAATTAATTAT-TTAGGTATATAAAAATTAGA
1 TTAATTAATTATATT-GGTATATAAAAATTAGA
* *
7756729 TTAATATATATTATATTGTTATATTAAAATT
1 TTAAT-TA-ATTATATTGGTATATAAAAATT
7756760 TCTAAATATT
Statistics
Matches: 26, Mismatches: 2, Indels: 4
0.81 0.06 0.12
Matches are distributed among these distances:
32 5 0.19
33 2 0.08
34 17 0.65
35 2 0.08
ACGTcount: A:0.44, C:0.00, G:0.06, T:0.49
Consensus pattern (32 bp):
TTAATTAATTATATTGGTATATAAAAATTAGA
Found at i:7764982 original size:2 final size:2
Alignment explanation
Indices: 7764975--7765017 Score: 77
Period size: 2 Copynumber: 21.5 Consensus size: 2
7764965 ATTAATTAAA
*
7764975 AG AG AG AG AG AG AG AG AG AG AG AC AG AG AG AG AG AG AG AG AG
1 AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG
7765017 A
1 A
7765018 ATCCCAGCAT
Statistics
Matches: 39, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
2 39 1.00
ACGTcount: A:0.51, C:0.02, G:0.47, T:0.00
Consensus pattern (2 bp):
AG
Found at i:7768036 original size:2 final size:2
Alignment explanation
Indices: 7768029--7768060 Score: 64
Period size: 2 Copynumber: 16.0 Consensus size: 2
7768019 ATAACACGAC
7768029 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
7768061 GAATATTTGA
Statistics
Matches: 30, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 30 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:7768607 original size:3 final size:3
Alignment explanation
Indices: 7768599--7768643 Score: 90
Period size: 3 Copynumber: 15.0 Consensus size: 3
7768589 GATTTAAAAC
7768599 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA
7768644 GGTAAAAGAA
Statistics
Matches: 42, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 42 1.00
ACGTcount: A:0.67, C:0.00, G:0.00, T:0.33
Consensus pattern (3 bp):
ATA
Found at i:7770497 original size:28 final size:29
Alignment explanation
Indices: 7770458--7770515 Score: 75
Period size: 28 Copynumber: 2.0 Consensus size: 29
7770448 TATTTTACTA
* *
7770458 TTATATTATTGT-TATTTTGTTATTATTGT
1 TTATATTATTGTATAATTTATT-TTATTGT
7770487 TTATA-TATTGTATAATTTATTTTATTGT
1 TTATATTATTGTATAATTTATTTTATTGT
7770515 T
1 T
7770516 AATTTTGTTA
Statistics
Matches: 26, Mismatches: 2, Indels: 3
0.84 0.06 0.10
Matches are distributed among these distances:
28 14 0.54
29 12 0.46
ACGTcount: A:0.24, C:0.00, G:0.09, T:0.67
Consensus pattern (29 bp):
TTATATTATTGTATAATTTATTTTATTGT
Found at i:7771906 original size:2 final size:2
Alignment explanation
Indices: 7771899--7771927 Score: 58
Period size: 2 Copynumber: 14.5 Consensus size: 2
7771889 GCTTTCCTTT
7771899 TA TA 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 TA TA T
7771928 GATTTTATCA
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 27 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Found at i:7772895 original size:10 final size:10
Alignment explanation
Indices: 7772880--7772908 Score: 51
Period size: 9 Copynumber: 3.0 Consensus size: 10
7772870 CAAAACTTTA
7772880 TTTTATTATT
1 TTTTATTATT
7772890 TTTTA-TATT
1 TTTTATTATT
7772899 TTTTATTATT
1 TTTTATTATT
7772909 AATTAATTTA
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
9 9 0.50
10 9 0.50
ACGTcount: A:0.21, C:0.00, G:0.00, T:0.79
Consensus pattern (10 bp):
TTTTATTATT
Found at i:7773508 original size:31 final size:30
Alignment explanation
Indices: 7773473--7773550 Score: 86
Period size: 31 Copynumber: 2.6 Consensus size: 30
7773463 TCAAAATTAC
*
7773473 ATATAAATTTTGATTTAGTGTACAATGTTAT
1 ATATAAATTTTGATTTA-TGAACAATGTTAT
* *
7773504 ATATAAAATTTGATTT-TGAACAATTTTAT
1 ATATAAATTTTGATTTATGAACAATGTTAT
* *
7773533 ACATAAAATTTTAATTTA
1 ATAT-AAATTTTGATTTA
7773551 ATTCAATTTT
Statistics
Matches: 39, Mismatches: 6, Indels: 4
0.80 0.12 0.08
Matches are distributed among these distances:
29 14 0.36
30 10 0.26
31 15 0.38
ACGTcount: A:0.41, C:0.04, G:0.08, T:0.47
Consensus pattern (30 bp):
ATATAAATTTTGATTTATGAACAATGTTAT
Found at i:7773526 original size:29 final size:30
Alignment explanation
Indices: 7773473--7773543 Score: 90
Period size: 29 Copynumber: 2.4 Consensus size: 30
7773463 TCAAAATTAC
* *
7773473 ATATAAATTTTGATTTAGTGTACAATGTTAT
1 ATATAAAATTTGATTTA-TGAACAATGTTAT
*
7773504 ATATAAAATTTGATTT-TGAACAATTTTAT
1 ATATAAAATTTGATTTATGAACAATGTTAT
*
7773533 ACATAAAATTT
1 ATATAAAATTT
7773544 TAATTTAATT
Statistics
Matches: 36, Mismatches: 4, Indels: 2
0.86 0.10 0.05
Matches are distributed among these distances:
29 21 0.58
31 15 0.42
ACGTcount: A:0.41, C:0.04, G:0.08, T:0.46
Consensus pattern (30 bp):
ATATAAAATTTGATTTATGAACAATGTTAT
Found at i:7773560 original size:30 final size:30
Alignment explanation
Indices: 7773470--7773560 Score: 78
Period size: 29 Copynumber: 3.0 Consensus size: 30
7773460 ATCTCAAAAT
* * *
7773470 TACATATAAATTTTGATTTAGTGTACAATGTTA
1 TACATA-AAATTTTAATTTAAT-T-CAATTTTA
* * *
7773503 TATATAAAATTTGATTTTGAA--CAATTTTA
1 TACATAAAATTTTAATTT-AATTCAATTTTA
7773532 TACATAAAATTTTAATTTAATTCAATTTT
1 TACATAAAATTTTAATTTAATTCAATTTT
7773561 GACAATTACT
Statistics
Matches: 46, Mismatches: 9, Indels: 9
0.72 0.14 0.14
Matches are distributed among these distances:
28 2 0.04
29 22 0.48
30 7 0.15
32 9 0.20
33 6 0.13
ACGTcount: A:0.40, C:0.05, G:0.07, T:0.48
Consensus pattern (30 bp):
TACATAAAATTTTAATTTAATTCAATTTTA
Found at i:7779433 original size:20 final size:20
Alignment explanation
Indices: 7779405--7779471 Score: 59
Period size: 20 Copynumber: 3.4 Consensus size: 20
7779395 TCACGTCAGC
*
7779405 AAATAATTTTAAAATTATTA
1 AAATTATTTTAAAATTATTA
*
7779425 AAATTATTTTTAAAAATA-TA
1 AAATTA-TTTTAAAATTATTA
*
7779445 ACATTA--TTAAAATTATTTTA
1 AAATTATTTTAAAATTA--TTA
7779465 AAATTAT
1 AAATTAT
7779472 AATCATCATC
Statistics
Matches: 37, Mismatches: 5, Indels: 9
0.73 0.10 0.18
Matches are distributed among these distances:
17 8 0.22
20 19 0.51
21 10 0.27
ACGTcount: A:0.52, C:0.01, G:0.00, T:0.46
Consensus pattern (20 bp):
AAATTATTTTAAAATTATTA
Found at i:7779437 original size:21 final size:20
Alignment explanation
Indices: 7779411--7779452 Score: 57
Period size: 21 Copynumber: 2.0 Consensus size: 20
7779401 CAGCAAATAA
*
7779411 TTTTAAAATTATTAAAATTAT
1 TTTTAAAAATA-TAAAATTAT
*
7779432 TTTTAAAAATATAACATTAT
1 TTTTAAAAATATAAAATTAT
7779452 T
1 T
7779453 AAAATTATTT
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
20 9 0.47
21 10 0.53
ACGTcount: A:0.48, C:0.02, G:0.00, T:0.50
Consensus pattern (20 bp):
TTTTAAAAATATAAAATTAT
Found at i:7779460 original size:29 final size:28
Alignment explanation
Indices: 7779418--7779473 Score: 94
Period size: 28 Copynumber: 2.0 Consensus size: 28
7779408 TAATTTTAAA
7779418 ATTATTAAAATTATTTTTAAAAATATAAC
1 ATTATTAAAATTA-TTTTAAAAATATAAC
*
7779447 ATTATTAAAATTATTTTAAAATTATAA
1 ATTATTAAAATTATTTTAAAAATATAA
7779474 TCATCATCAT
Statistics
Matches: 26, Mismatches: 1, Indels: 1
0.93 0.04 0.04
Matches are distributed among these distances:
28 13 0.50
29 13 0.50
ACGTcount: A:0.52, C:0.02, G:0.00, T:0.46
Consensus pattern (28 bp):
ATTATTAAAATTATTTTAAAAATATAAC
Found at i:7780158 original size:9 final size:9
Alignment explanation
Indices: 7780144--7780194 Score: 52
Period size: 9 Copynumber: 5.6 Consensus size: 9
7780134 ATTATAATTA
7780144 TTTAATAAT
1 TTTAATAAT
*
7780153 TTTAATATT
1 TTTAATAAT
7780162 TTTAAAAATAAT
1 TTT---AATAAT
7780174 TTTAATAAT
1 TTTAATAAT
7780183 TTT-AT-AT
1 TTTAATAAT
7780190 TTTAA
1 TTTAA
7780195 AAAATAATTT
Statistics
Matches: 36, Mismatches: 2, Indels: 9
0.77 0.04 0.19
Matches are distributed among these distances:
7 5 0.14
8 3 0.08
9 20 0.56
12 8 0.22
ACGTcount: A:0.43, C:0.00, G:0.00, T:0.57
Consensus pattern (9 bp):
TTTAATAAT
Found at i:7780172 original size:21 final size:21
Alignment explanation
Indices: 7780147--7780186 Score: 71
Period size: 21 Copynumber: 1.9 Consensus size: 21
7780137 ATAATTATTT
*
7780147 AATAATTTTAATATTTTTAAA
1 AATAATTTTAATAATTTTAAA
7780168 AATAATTTTAATAATTTTA
1 AATAATTTTAATAATTTTA
7780187 TATTTTAAAA
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
21 18 1.00
ACGTcount: A:0.47, C:0.00, G:0.00, T:0.53
Consensus pattern (21 bp):
AATAATTTTAATAATTTTAAA
Found at i:7780190 original size:29 final size:29
Alignment explanation
Indices: 7780144--7780244 Score: 150
Period size: 29 Copynumber: 3.4 Consensus size: 29
7780134 ATTATAATTA
*
7780144 TTTAATAATTTTAATATTTTTAAAAATAAT
1 TTTAATAATTTT-ATATTTTAAAAAATAAT
7780174 TTTAATAATTTTATATTTTAAAAAATAAT
1 TTTAATAATTTTATATTTTAAAAAATAAT
* *
7780203 TTAAAT-TTTTTATATTTTAAAAAAATAAT
1 TTTAATAATTTTATATTTT-AAAAAATAAT
7780232 TTTAATAATTTTA
1 TTTAATAATTTTA
7780245 AAATCATTTG
Statistics
Matches: 64, Mismatches: 5, Indels: 4
0.88 0.07 0.05
Matches are distributed among these distances:
28 11 0.17
29 36 0.56
30 17 0.27
ACGTcount: A:0.47, C:0.00, G:0.00, T:0.53
Consensus pattern (29 bp):
TTTAATAATTTTATATTTTAAAAAATAAT
Done.