Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Gbar_D11
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: 68311261
ACGTcount: A:0.33, C:0.17, G:0.16, T:0.33
Warning! 408745 characters in sequence are not A, C, G, or T
File 38 of 226
Found at i:13195049 original size:19 final size:17
Alignment explanation
Indices: 13195003--13195051 Score: 55
Period size: 17 Copynumber: 2.8 Consensus size: 17
13194993 ATATGGACTG
13195003 AAAAATAA-ATATTACAA
1 AAAAATAATAT-TTACAA
*
13195020 AAAAATTATATTTACTAA
1 AAAAATAATATTTAC-AA
13195038 AAATAATAATATTT
1 AAA-AATAATATTT
13195052 GTAATAATTA
Statistics
Matches: 27, Mismatches: 2, Indels: 4
0.82 0.06 0.12
Matches are distributed among these distances:
17 11 0.41
18 7 0.26
19 9 0.33
ACGTcount: A:0.61, C:0.04, G:0.00, T:0.35
Consensus pattern (17 bp):
AAAAATAATATTTACAA
Found at i:13204897 original size:6 final size:6
Alignment explanation
Indices: 13204888--13204914 Score: 54
Period size: 6 Copynumber: 4.5 Consensus size: 6
13204878 GTTATATATT
13204888 AATTTA AATTTA AATTTA AATTTA AAT
1 AATTTA AATTTA AATTTA AATTTA AAT
13204915 CTATAAATAA
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 21 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (6 bp):
AATTTA
Found at i:13210556 original size:126 final size:124
Alignment explanation
Indices: 13210318--13210713 Score: 517
Period size: 126 Copynumber: 3.2 Consensus size: 124
13210308 TAAGGCCAAA
* * *
13210318 CAGGAACTACTGTAGAAAAATAGCGTCCACGTGGGAGCTTTTTTCAGTAATTTTGCTAACT-GTG
1 CAGGAACTACTGTAGAAAAAGAGTGTCCACGTGGGAGCTTTTTTCAGTAATTTTGCTGA-TAGTG
* * * ** *
13210382 CATACTGCTTGAAGCATTTTTGGCACTAATTTTTCAAAATTGTCTTCTCAAAATTATTTTTT
65 CATCCTGCTTGAAGCATTTTTGACACT-ATTTTTCAGAACCGTATTCTCAAAATTA-TTTTT
*
13210444 CAGGAACTACTGTAGAAAAAGAGTGTCCACGTGGGAGCTTTTTTCAGTAATTTTACTGATAGTGC
1 CAGGAACTACTGTAGAAAAAGAGTGTCCACGTGGGAGCTTTTTTCAGTAATTTTGCTGATAGTGC
* *
13210509 ATCCTGCTTGAAGCATTTTTGAAACTATTTTTCCAGAACCGTGTTCTCAAAATTATTTTT
66 ATCCTGCTTGAAGCATTTTTGACACTATTTTT-CAGAACCGTATTCTCAAAATTATTTTT
* * * * *
13210569 CAGGAACTACTGTAGAAAAAGAGTGTCCACATGGTAG-TTTTTTCAATCATTTTGCTGATAGTAC
1 CAGGAACTACTGTAGAAAAAGAGTGTCCACGTGGGAGCTTTTTTCAGTAATTTTGCTGATAGTGC
* *
13210633 ATCCTGCTTGAAGCGTTTTTGACATTATCTTTTCAGAACCGTATTCTCAAAATTAATTTTT
66 ATCCTGCTTGAAGCATTTTTGACACTAT-TTTTCAGAACCGTATTCTCAAAATT-ATTTTT
** * *
13210694 GTGAAACTACTGTAAAAAAA
1 CAGGAACTACTGTAGAAAAA
13210714 ATAAAATCCT
Statistics
Matches: 241, Mismatches: 25, Indels: 9
0.88 0.09 0.03
Matches are distributed among these distances:
124 68 0.28
125 73 0.30
126 100 0.41
ACGTcount: A:0.30, C:0.16, G:0.17, T:0.37
Consensus pattern (124 bp):
CAGGAACTACTGTAGAAAAAGAGTGTCCACGTGGGAGCTTTTTTCAGTAATTTTGCTGATAGTGC
ATCCTGCTTGAAGCATTTTTGACACTATTTTTCAGAACCGTATTCTCAAAATTATTTTT
Found at i:13210824 original size:34 final size:33
Alignment explanation
Indices: 13210767--13210900 Score: 171
Period size: 34 Copynumber: 3.9 Consensus size: 33
13210757 CTAAACACAA
*
13210767 AATTATTTTAAAAA-ACTAAACCCTAATTTAATT
1 AATT-TTTTAAAAACTCTAAACCCTAATTTAATT
13210800 AATTTTCTTAAAAACTCTAAACCCTAATTTAATT
1 AATTTT-TTAAAAACTCTAAACCCTAATTTAATT
* * *
13210834 AATTTATTTAAAACCCCTAAAACCTAATTTAATT
1 AATTT-TTTAAAAACTCTAAACCCTAATTTAATT
13210868 ATTATTTTTTAAAAAACTCTAAACCCTAATTTA
1 A--ATTTTTT-AAAAACTCTAAACCCTAATTTA
13210901 TGTTTTTAAA
Statistics
Matches: 88, Mismatches: 7, Indels: 9
0.85 0.07 0.09
Matches are distributed among these distances:
32 2 0.02
33 11 0.12
34 48 0.55
35 4 0.05
36 23 0.26
ACGTcount: A:0.44, C:0.16, G:0.00, T:0.40
Consensus pattern (33 bp):
AATTTTTTAAAAACTCTAAACCCTAATTTAATT
Found at i:13210841 original size:68 final size:69
Alignment explanation
Indices: 13210773--13210900 Score: 190
Period size: 70 Copynumber: 1.9 Consensus size: 69
13210763 ACAAAATTAT
*
13210773 TTTAAAA-AACTAAACCCTAATTTAATTA-ATTTTCTT-AAAAACTCTAAACCCTAATTTAATTA
1 TTTAAAACAACTAAAACCTAATTTAATTATATTTT-TTAAAAAACTCTAAACCCTAATTTAATTA
13210835 ATTTA
65 ATTTA
**
13210840 TTTAAAACCCCTAAAACCTAATTTAATTATTATTTTTTAAAAAACTCTAAACCCTAATTTA
1 TTTAAAACAACTAAAACCTAATTTAATTA-TATTTTTTAAAAAACTCTAAACCCTAATTTA
13210901 TGTTTTTAAA
Statistics
Matches: 54, Mismatches: 3, Indels: 5
0.87 0.05 0.08
Matches are distributed among these distances:
67 7 0.13
68 18 0.33
69 2 0.04
70 27 0.50
ACGTcount: A:0.44, C:0.16, G:0.00, T:0.40
Consensus pattern (69 bp):
TTTAAAACAACTAAAACCTAATTTAATTATATTTTTTAAAAAACTCTAAACCCTAATTTAATTAA
TTTA
Found at i:13210901 original size:29 final size:29
Alignment explanation
Indices: 13210869--13210925 Score: 80
Period size: 29 Copynumber: 2.0 Consensus size: 29
13210859 AATTTAATTA
13210869 TTAT-TTTTTAAAAAACTCTAAACCCTAAT
1 TTATGTTTTTAAAAAACT-TAAACCCTAAT
**
13210898 TTATGTTTTTAAAATTCTTAAACCCTAA
1 TTATGTTTTTAAAAAACTTAAACCCTAA
13210926 ATAAATAAAA
Statistics
Matches: 25, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
29 14 0.56
30 11 0.44
ACGTcount: A:0.39, C:0.16, G:0.02, T:0.44
Consensus pattern (29 bp):
TTATGTTTTTAAAAAACTTAAACCCTAAT
Found at i:13214936 original size:3 final size:3
Alignment explanation
Indices: 13214922--13214955 Score: 61
Period size: 3 Copynumber: 11.7 Consensus size: 3
13214912 CGAGCTCTCT
13214922 TTC TTC TT- TTC TTC TTC TTC TTC TTC TTC TTC TT
1 TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC TT
13214956 TTTGCTGTTT
Statistics
Matches: 30, Mismatches: 0, Indels: 2
0.94 0.00 0.06
Matches are distributed among these distances:
2 2 0.07
3 28 0.93
ACGTcount: A:0.00, C:0.29, G:0.00, T:0.71
Consensus pattern (3 bp):
TTC
Found at i:13223452 original size:2 final size:2
Alignment explanation
Indices: 13223445--13223469 Score: 50
Period size: 2 Copynumber: 12.5 Consensus size: 2
13223435 ATAAAATGAA
13223445 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 A
13223470 GAACTACCTT
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:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:13223984 original size:2 final size:2
Alignment explanation
Indices: 13223977--13224019 Score: 86
Period size: 2 Copynumber: 21.5 Consensus size: 2
13223967 AGCGAAAAAT
13223977 AG AG AG AG AG AG AG AG AG AG AG AG 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
13224019 A
1 A
13224020 TGGAGAGTGG
Statistics
Matches: 41, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 41 1.00
ACGTcount: A:0.51, C:0.00, G:0.49, T:0.00
Consensus pattern (2 bp):
AG
Found at i:13233815 original size:69 final size:69
Alignment explanation
Indices: 13233732--13233873 Score: 203
Period size: 69 Copynumber: 2.1 Consensus size: 69
13233722 CTGTTCTGGA
* ** *
13233732 TGAAAGTACTAGTACTATGACTGATTCTCAAGTAGTGTTGGATGAGGATTCACCAACCATGGACG
1 TGAAAGTACAAGTACTATGAAGGATTCCCAAGTAGTGTTGGATGAGGATTCACCAACCATGGACG
*
13233797 CGGT
66 CAGT
* * * *
13233801 TGAAAGTAGAAGTACTATGAAGGATTCCCTAGTGGTGTTGGATGAGGATTCACCAACCATGGATG
1 TGAAAGTACAAGTACTATGAAGGATTCCCAAGTAGTGTTGGATGAGGATTCACCAACCATGGACG
13233866 CAGT
66 CAGT
13233870 TGAA
1 TGAA
13233874 GTTGCCATTA
Statistics
Matches: 64, Mismatches: 9, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
69 64 1.00
ACGTcount: A:0.30, C:0.15, G:0.27, T:0.27
Consensus pattern (69 bp):
TGAAAGTACAAGTACTATGAAGGATTCCCAAGTAGTGTTGGATGAGGATTCACCAACCATGGACG
CAGT
Found at i:13235353 original size:19 final size:19
Alignment explanation
Indices: 13235318--13235363 Score: 53
Period size: 19 Copynumber: 2.5 Consensus size: 19
13235308 AATTTAGTTG
13235318 ATATTTTT--TATTAATAT
1 ATATTTTTAATATTAATAT
*
13235335 ATATTTTTAATATTTATAT
1 ATATTTTTAATATTAATAT
13235354 -TATTATTTAA
1 ATATT-TTTAA
13235364 ATGTTTGATT
Statistics
Matches: 25, Mismatches: 1, Indels: 4
0.83 0.03 0.13
Matches are distributed among these distances:
17 8 0.32
18 4 0.16
19 13 0.52
ACGTcount: A:0.37, C:0.00, G:0.00, T:0.63
Consensus pattern (19 bp):
ATATTTTTAATATTAATAT
Found at i:13248338 original size:41 final size:41
Alignment explanation
Indices: 13248168--13248362 Score: 166
Period size: 41 Copynumber: 4.7 Consensus size: 41
13248158 TAACCGTTAC
*
13248168 TCGGTGGAATCAGCACTTAGCAACCAAC-TTAT-ATTCAGTGAT
1 TCGG-GGAATCAGCACTTAGCAACC-CCTTTATGA-TCAGTGAT
* * * * **
13248210 ACAGGTAATCAGCACATAGCAACCCCTTTCACAATCAAG-GAT
1 TCGGGGAATCAGCACTTAGCAACCCCTTT-ATGATC-AGTGAT
* *
13248252 AT-GGTGGAATCAGCACTTAGCAACCACCTTTA-GAATCAATAAT
1 -TCGG-GGAATCAGCACTTAGCAACC-CCTTTATG-ATCAGTGAT
*
13248295 TCGGGGAATCAGCACTTAGCAACCCCTTTTTGATCAGTGAT
1 TCGGGGAATCAGCACTTAGCAACCCCTTTATGATCAGTGAT
* *
13248336 TCGGGGAATCTGCACTTGGCAACCCCT
1 TCGGGGAATCAGCACTTAGCAACCCCT
13248363 AACATTCAAT
Statistics
Matches: 124, Mismatches: 18, Indels: 23
0.75 0.11 0.14
Matches are distributed among these distances:
40 1 0.01
41 57 0.46
42 32 0.26
43 29 0.23
44 5 0.04
ACGTcount: A:0.31, C:0.25, G:0.19, T:0.25
Consensus pattern (41 bp):
TCGGGGAATCAGCACTTAGCAACCCCTTTATGATCAGTGAT
Found at i:13252394 original size:41 final size:43
Alignment explanation
Indices: 13252343--13252450 Score: 107
Period size: 41 Copynumber: 2.6 Consensus size: 43
13252333 AACCGTTACT
* * *
13252343 CGGTGGAATCAGCACTTAGCAACCAAC-TT-ATATTC-AGTGATA
1 CGGTGAAATCAGCACTTAGCAACC-ACTTTCACAATCAAG-GATA
* * *
13252385 CGG-GAAATCATCACATAGCAACCCCTTTCACAATCAAGGATA
1 CGGTGAAATCAGCACTTAGCAACCACTTTCACAATCAAGGATA
*
13252427 CGGTGGAATCAGCACTTAGCAACC
1 CGGTGAAATCAGCACTTAGCAACC
13252451 CCTCGGGGAA
Statistics
Matches: 53, Mismatches: 9, Indels: 7
0.77 0.13 0.10
Matches are distributed among these distances:
40 1 0.02
41 19 0.36
42 14 0.26
43 19 0.36
ACGTcount: A:0.34, C:0.26, G:0.19, T:0.21
Consensus pattern (43 bp):
CGGTGAAATCAGCACTTAGCAACCACTTTCACAATCAAGGATA
Found at i:13252447 original size:43 final size:42
Alignment explanation
Indices: 13252343--13252453 Score: 120
Period size: 43 Copynumber: 2.6 Consensus size: 42
13252333 AACCGTTACT
* * *
13252343 CGGTGGAATCAGCACTTAGCAACCAAC-TTATATTCAGTGATA
1 CGGTGGAATCAGCACTTAGCAACC-CCTTTACAATCAGTGATA
* * *
13252385 CGG-GAAATCATCACATAGCAACCCCTTTCACAATCAAG-GATA
1 CGGTGGAATCAGCACTTAGCAACCCCTTT-ACAATC-AGTGATA
13252427 CGGTGGAATCAGCACTTAGCAACCCCT
1 CGGTGGAATCAGCACTTAGCAACCCCT
13252454 CGGGGAATCA
Statistics
Matches: 56, Mismatches: 9, Indels: 7
0.78 0.12 0.10
Matches are distributed among these distances:
40 1 0.02
41 19 0.34
42 14 0.25
43 22 0.39
ACGTcount: A:0.33, C:0.27, G:0.18, T:0.22
Consensus pattern (42 bp):
CGGTGGAATCAGCACTTAGCAACCCCTTTACAATCAGTGATA
Found at i:13252498 original size:41 final size:40
Alignment explanation
Indices: 13252453--13252562 Score: 157
Period size: 41 Copynumber: 2.7 Consensus size: 40
13252443 TAGCAACCCC
*
13252453 TCGGGGAATCAGCACTTAGCAACCCCTTTTTGATCAGTGAT
1 TCGGGGAATCA-CACTTAGCAACCCCTTTTTGATAAGTGAT
* * *
13252494 TCGGGGAATCTCCACTTAGTAAGCCCTTTTTGATAAGTGAT
1 TCGGGGAATC-ACACTTAGCAACCCCTTTTTGATAAGTGAT
13252535 TCGGGGAATCTACACTTAGCAACCCCTT
1 TCGGGGAATC-ACACTTAGCAACCCCTT
13252563 ACATTCAATG
Statistics
Matches: 61, Mismatches: 7, Indels: 2
0.87 0.10 0.03
Matches are distributed among these distances:
41 61 1.00
ACGTcount: A:0.25, C:0.25, G:0.21, T:0.30
Consensus pattern (40 bp):
TCGGGGAATCACACTTAGCAACCCCTTTTTGATAAGTGAT
Found at i:13253022 original size:59 final size:59
Alignment explanation
Indices: 13252956--13253073 Score: 227
Period size: 59 Copynumber: 2.0 Consensus size: 59
13252946 ACACACATTT
*
13252956 TACAATCTTTTTACAAACTAGTCCTTTTATGTATTTTCACCGAAAATCACTTAGTAAAA
1 TACAATCTTTTTACAAACTAGTCCTTTTATGCATTTTCACCGAAAATCACTTAGTAAAA
13253015 TACAATCTTTTTACAAACTAGTCCTTTTATGCATTTTCACCGAAAATCACTTAGTAAAA
1 TACAATCTTTTTACAAACTAGTCCTTTTATGCATTTTCACCGAAAATCACTTAGTAAAA
13253074 GTTGTTTCTC
Statistics
Matches: 58, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
59 58 1.00
ACGTcount: A:0.36, C:0.19, G:0.07, T:0.38
Consensus pattern (59 bp):
TACAATCTTTTTACAAACTAGTCCTTTTATGCATTTTCACCGAAAATCACTTAGTAAAA
Found at i:13257101 original size:21 final size:22
Alignment explanation
Indices: 13257061--13257111 Score: 68
Period size: 21 Copynumber: 2.4 Consensus size: 22
13257051 TCTTTTTTTT
* *
13257061 TCTATTCTCTTCTGCTTCTCCA
1 TCTATTTTCTTCTCCTTCTCCA
13257083 TCTATTTTCTT-TCCTTCTCCA
1 TCTATTTTCTTCTCCTTCTCCA
*
13257104 TCTCTTTT
1 TCTATTTT
13257112 AATGTAAAAG
Statistics
Matches: 26, Mismatches: 3, Indels: 1
0.87 0.10 0.03
Matches are distributed among these distances:
21 16 0.62
22 10 0.38
ACGTcount: A:0.08, C:0.33, G:0.02, T:0.57
Consensus pattern (22 bp):
TCTATTTTCTTCTCCTTCTCCA
Found at i:13271413 original size:30 final size:31
Alignment explanation
Indices: 13271377--13271436 Score: 95
Period size: 31 Copynumber: 2.0 Consensus size: 31
13271367 ACTCTAGTAA
13271377 CTTAAAT-AAAACTTTTAAATAGTTCAATGG
1 CTTAAATGAAAACTTTTAAATAGTTCAATGG
* *
13271407 CTTAAATGAAAATTTTTTAATAGTTCAATG
1 CTTAAATGAAAACTTTTAAATAGTTCAATG
13271437 ACCATTTTGT
Statistics
Matches: 27, Mismatches: 2, Indels: 1
0.90 0.07 0.03
Matches are distributed among these distances:
30 7 0.26
31 20 0.74
ACGTcount: A:0.42, C:0.08, G:0.10, T:0.40
Consensus pattern (31 bp):
CTTAAATGAAAACTTTTAAATAGTTCAATGG
Found at i:13276191 original size:21 final size:20
Alignment explanation
Indices: 13276167--13276217 Score: 59
Period size: 21 Copynumber: 2.5 Consensus size: 20
13276157 CCCGCCTATA
13276167 TTATTTTTTAA-AATATTTATT
1 TTATTTTTTAATAAT-TTTA-T
*
13276188 TTATTATTTAATAATTTTAT
1 TTATTTTTTAATAATTTTAT
*
13276208 ATATTTTTTA
1 TTATTTTTTA
13276218 TTTATTGAAA
Statistics
Matches: 26, Mismatches: 3, Indels: 3
0.81 0.09 0.09
Matches are distributed among these distances:
20 9 0.35
21 14 0.54
22 3 0.12
ACGTcount: A:0.33, C:0.00, G:0.00, T:0.67
Consensus pattern (20 bp):
TTATTTTTTAATAATTTTAT
Found at i:13278467 original size:14 final size:14
Alignment explanation
Indices: 13278448--13278475 Score: 56
Period size: 14 Copynumber: 2.0 Consensus size: 14
13278438 GTTTGTGCAT
13278448 TTATTTATATATAA
1 TTATTTATATATAA
13278462 TTATTTATATATAA
1 TTATTTATATATAA
13278476 AATGTTTGTT
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 14 1.00
ACGTcount: A:0.43, C:0.00, G:0.00, T:0.57
Consensus pattern (14 bp):
TTATTTATATATAA
Found at i:13278702 original size:21 final size:22
Alignment explanation
Indices: 13278676--13278728 Score: 90
Period size: 22 Copynumber: 2.4 Consensus size: 22
13278666 GAAATCTAAC
13278676 TAAAAATCCTA-CAAATCAAGAG
1 TAAAAAT-CTAGCAAATCAAGAG
13278698 TAAAAATCTAGCAAATCAAGAG
1 TAAAAATCTAGCAAATCAAGAG
13278720 TAAAAATCT
1 TAAAAATCT
13278729 GATTTGTCAT
Statistics
Matches: 30, Mismatches: 0, Indels: 2
0.94 0.00 0.06
Matches are distributed among these distances:
21 3 0.10
22 27 0.90
ACGTcount: A:0.55, C:0.15, G:0.09, T:0.21
Consensus pattern (22 bp):
TAAAAATCTAGCAAATCAAGAG
Found at i:13286342 original size:48 final size:48
Alignment explanation
Indices: 13286271--13286368 Score: 196
Period size: 48 Copynumber: 2.0 Consensus size: 48
13286261 AAACTCAAGT
13286271 GAATACCTTAAGTTGAAAAGGAACCGAAACTAACGATAACATGGACTA
1 GAATACCTTAAGTTGAAAAGGAACCGAAACTAACGATAACATGGACTA
13286319 GAATACCTTAAGTTGAAAAGGAACCGAAACTAACGATAACATGGACTA
1 GAATACCTTAAGTTGAAAAGGAACCGAAACTAACGATAACATGGACTA
13286367 GA
1 GA
13286369 TTTTGTACAA
Statistics
Matches: 50, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
48 50 1.00
ACGTcount: A:0.46, C:0.16, G:0.19, T:0.18
Consensus pattern (48 bp):
GAATACCTTAAGTTGAAAAGGAACCGAAACTAACGATAACATGGACTA
Found at i:13290427 original size:30 final size:30
Alignment explanation
Indices: 13290391--13290447 Score: 87
Period size: 30 Copynumber: 1.9 Consensus size: 30
13290381 ACCATGATGG
*
13290391 GGTGAAACAGAAGCAGGAGAAACAGGCTGA
1 GGTGAAACAGAACCAGGAGAAACAGGCTGA
* *
13290421 GGTGAAACAGAACCAGGTGAAGCAGGC
1 GGTGAAACAGAACCAGGAGAAACAGGC
13290448 AGGTATTCTG
Statistics
Matches: 24, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
30 24 1.00
ACGTcount: A:0.40, C:0.16, G:0.37, T:0.07
Consensus pattern (30 bp):
GGTGAAACAGAACCAGGAGAAACAGGCTGA
Found at i:13290429 original size:72 final size:72
Alignment explanation
Indices: 13290310--13290445 Score: 184
Period size: 72 Copynumber: 1.9 Consensus size: 72
13290300 ATTCATACCT
*** * *
13290310 CCATGATGGGGTGAAACATGAGCAGGAGAGGGAGACTGAGATAAAACAGGACCAGGTGAGGCAGT
1 CCATGATGGGGTGAAACATGAGCAGGAGAAACAGACTGAGATAAAACAGAACCAGGTGAAGCAGT
13290375 CCTATCA
66 CCTATCA
* * *
13290382 CCATGATGGGGTGAAACA-GAAGCAGGAGAAACAGGCTGAGGTGAAACAGAACCAGGTGAAGCAG
1 CCATGATGGGGTGAAACATG-AGCAGGAGAAACAGACTGAGATAAAACAGAACCAGGTGAAGCAG
13290446 GCAGGTATTC
Statistics
Matches: 55, Mismatches: 8, Indels: 2
0.85 0.12 0.03
Matches are distributed among these distances:
71 1 0.02
72 54 0.98
ACGTcount: A:0.37, C:0.16, G:0.35, T:0.12
Consensus pattern (72 bp):
CCATGATGGGGTGAAACATGAGCAGGAGAAACAGACTGAGATAAAACAGAACCAGGTGAAGCAGT
CCTATCA
Found at i:13290438 original size:15 final size:15
Alignment explanation
Indices: 13290391--13290441 Score: 50
Period size: 15 Copynumber: 3.4 Consensus size: 15
13290381 ACCATGATGG
*
13290391 GGTGAAACAGAAGCA
1 GGTGAAACAGAACCA
* * *
13290406 GGAGAAACAG-GCTGA
1 GGTGAAACAGAAC-CA
13290421 GGTGAAACAGAACCA
1 GGTGAAACAGAACCA
13290436 GGTGAA
1 GGTGAA
13290442 GCAGGCAGGT
Statistics
Matches: 27, Mismatches: 7, Indels: 4
0.71 0.18 0.11
Matches are distributed among these distances:
15 26 0.96
16 1 0.04
ACGTcount: A:0.43, C:0.14, G:0.35, T:0.08
Consensus pattern (15 bp):
GGTGAAACAGAACCA
Found at i:13300952 original size:6 final size:6
Alignment explanation
Indices: 13300936--13300965 Score: 51
Period size: 6 Copynumber: 4.8 Consensus size: 6
13300926 TCTTTGAAGC
13300936 TTTTTA TTTTTTA TTTTTA TTTTTA TTTTT
1 TTTTTA -TTTTTA TTTTTA TTTTTA TTTTT
13300966 GCAAGAGTAA
Statistics
Matches: 23, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
6 17 0.74
7 6 0.26
ACGTcount: A:0.13, C:0.00, G:0.00, T:0.87
Consensus pattern (6 bp):
TTTTTA
Found at i:13306507 original size:12 final size:11
Alignment explanation
Indices: 13306478--13306521 Score: 52
Period size: 11 Copynumber: 3.9 Consensus size: 11
13306468 AATCATTTAA
*
13306478 TAATAAAATAA
1 TAATAAAATAT
*
13306489 TACTAAAAATAT
1 TAAT-AAAATAT
13306501 TAATAAAATAT
1 TAATAAAATAT
*
13306512 TAATTAAATA
1 TAATAAAATA
13306522 ACATTTATCT
Statistics
Matches: 28, Mismatches: 4, Indels: 2
0.82 0.12 0.06
Matches are distributed among these distances:
11 19 0.68
12 9 0.32
ACGTcount: A:0.64, C:0.02, G:0.00, T:0.34
Consensus pattern (11 bp):
TAATAAAATAT
Found at i:13308339 original size:15 final size:15
Alignment explanation
Indices: 13308319--13308359 Score: 64
Period size: 15 Copynumber: 2.7 Consensus size: 15
13308309 AACATAAGGG
*
13308319 AAAAAGAAAGAGAAA
1 AAAAAGAAAAAGAAA
13308334 AAAAAGAAAAAGAAA
1 AAAAAGAAAAAGAAA
13308349 AAGAAAGAAAA
1 AA-AAAGAAAA
13308360 GTTAATGGTT
Statistics
Matches: 24, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
15 16 0.67
16 8 0.33
ACGTcount: A:0.83, C:0.00, G:0.17, T:0.00
Consensus pattern (15 bp):
AAAAAGAAAAAGAAA
Found at i:13308343 original size:21 final size:21
Alignment explanation
Indices: 13308318--13308360 Score: 68
Period size: 21 Copynumber: 2.0 Consensus size: 21
13308308 AAACATAAGG
*
13308318 GAAAAAGAAAGAGAAAAAAAA
1 GAAAAAGAAAAAGAAAAAAAA
*
13308339 GAAAAAGAAAAAGAAAGAAAA
1 GAAAAAGAAAAAGAAAAAAAA
13308360 G
1 G
13308361 TTAATGGTTT
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
21 20 1.00
ACGTcount: A:0.79, C:0.00, G:0.21, T:0.00
Consensus pattern (21 bp):
GAAAAAGAAAAAGAAAAAAAA
Found at i:13308913 original size:206 final size:204
Alignment explanation
Indices: 13308526--13308950 Score: 706
Period size: 206 Copynumber: 2.1 Consensus size: 204
13308516 ATTTTAGTAC
* * *
13308526 TAGGGATTAAATTGATAGATTTTTAAGTTAGAATTGAAAAAGGATTGAATTGTAGAATAAGTTGT
1 TAGGGATTAAATTGATAGATTTTTAAGTTAGAAGTGAAAAAGGATTGAATTGTAGAATAAATTAT
* * *
13308591 AAATTTTGAGTAATAGGGACTAAATTGTAAATTTTGAAATTTAGGGATTTAAGTGAAATTAGAGA
66 AAATTTTGAGTAACAGGAACTAAATTGTAAATTTTAAAATTTAGGGATTTAAGTGAAATTAGAGA
13308656 GTTAAAACTAGTTTAAAGTGGAAATTGAATGAAAATATAGAATTAATTGTGAAGAAATAAAATTA
131 GTTAAAACTAGTTTAAAGTGGAAATTGAATGAAAATATAGAATTAATTGTGAAGAAATAAAATTA
13308721 GTCTCAGTT
196 GTCTCAGTT
* * *
13308730 TTGGGATTAATTTGATAGATTTTTAAGTTAGAAGTGAAAAATGATTGAATTGTAGAATAAATTAT
1 TAGGGATTAAATTGATAGATTTTTAAGTTAGAAGTGAAAAAGGATTGAATTGTAGAATAAATTAT
*
13308795 AAATTTTGAGTAACAGGAACTAAATTGTGAAAATTTTAAAATTTAGGGATTTAAGTGAAATTGGA
66 AAATTTTGAGTAACAGGAACTAAATTGT--AAATTTTAAAATTTAGGGATTTAAGTGAAATTAGA
* *
13308860 GAGTTAAATCTAGTTTAAAGTGGAAATTGAATGAAAATATAGAATTGATTGTGAAGAAATAAAAT
129 GAGTTAAAACTAGTTTAAAGTGGAAATTGAATGAAAATATAGAATTAATTGTGAAGAAATAAAAT
*
13308925 TAGTCTCGGTT
194 TAGTCTCAGTT
*
13308936 TAGGGACTAAATTGA
1 TAGGGATTAAATTGA
13308951 AATTTAGACA
Statistics
Matches: 203, Mismatches: 16, Indels: 2
0.92 0.07 0.01
Matches are distributed among these distances:
204 85 0.42
206 118 0.58
ACGTcount: A:0.42, C:0.02, G:0.21, T:0.35
Consensus pattern (204 bp):
TAGGGATTAAATTGATAGATTTTTAAGTTAGAAGTGAAAAAGGATTGAATTGTAGAATAAATTAT
AAATTTTGAGTAACAGGAACTAAATTGTAAATTTTAAAATTTAGGGATTTAAGTGAAATTAGAGA
GTTAAAACTAGTTTAAAGTGGAAATTGAATGAAAATATAGAATTAATTGTGAAGAAATAAAATTA
GTCTCAGTT
Found at i:13309545 original size:40 final size:40
Alignment explanation
Indices: 13309487--13309565 Score: 106
Period size: 40 Copynumber: 2.0 Consensus size: 40
13309477 GGGTGCCAAT
*
13309487 TTACTTCGATTTAACCGATGAGACACTAGGTGTCAATTTA
1 TTACTTCGATTTAACCGATGAGACACTAGGTGCCAATTTA
* * *
13309527 TTACTTCG-TATTATCCGATGAGGCACTGGGTGCCAATTT
1 TTACTTCGAT-TTAACCGATGAGACACTAGGTGCCAATTT
13309566 GGTGTGTTTT
Statistics
Matches: 34, Mismatches: 4, Indels: 2
0.85 0.10 0.05
Matches are distributed among these distances:
39 1 0.03
40 33 0.97
ACGTcount: A:0.25, C:0.19, G:0.20, T:0.35
Consensus pattern (40 bp):
TTACTTCGATTTAACCGATGAGACACTAGGTGCCAATTTA
Found at i:13309851 original size:13 final size:13
Alignment explanation
Indices: 13309835--13309885 Score: 75
Period size: 13 Copynumber: 3.9 Consensus size: 13
13309825 TTTAAACTAA
13309835 ACTTTTCAAAAGC
1 ACTTTTCAAAAGC
* *
13309848 ACTTTTCCACAGC
1 ACTTTTCAAAAGC
*
13309861 ACTTTTCAAAAAC
1 ACTTTTCAAAAGC
13309874 ACTTTTCAAAAG
1 ACTTTTCAAAAG
13309886 TAATGAAGAA
Statistics
Matches: 32, Mismatches: 6, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
13 32 1.00
ACGTcount: A:0.37, C:0.25, G:0.06, T:0.31
Consensus pattern (13 bp):
ACTTTTCAAAAGC
Found at i:13309853 original size:26 final size:26
Alignment explanation
Indices: 13309824--13309879 Score: 60
Period size: 26 Copynumber: 2.2 Consensus size: 26
13309814 AACACTCAAA
*
13309824 TTTTAAACTA-AACTTTTCAAAAGCAC
1 TTTTAAAC-AGAACTTTTCAAAAACAC
** *
13309850 TTTTCCACAGCACTTTTCAAAAACAC
1 TTTTAAACAGAACTTTTCAAAAACAC
13309876 TTTT
1 TTTT
13309880 CAAAAGTAAT
Statistics
Matches: 25, Mismatches: 4, Indels: 2
0.81 0.13 0.06
Matches are distributed among these distances:
25 1 0.04
26 24 0.96
ACGTcount: A:0.36, C:0.23, G:0.04, T:0.38
Consensus pattern (26 bp):
TTTTAAACAGAACTTTTCAAAAACAC
Found at i:13312434 original size:21 final size:21
Alignment explanation
Indices: 13312392--13312434 Score: 52
Period size: 21 Copynumber: 2.0 Consensus size: 21
13312382 ATTAAAACAT
* *
13312392 TTTTATATAATTTTATCGAAA
1 TTTTATATAAATTTATCAAAA
13312413 TTTTATATAAAATTTAT-AAAA
1 TTTTATAT-AAATTTATCAAAA
13312434 T
1 T
13312435 AATTTCCCAT
Statistics
Matches: 19, Mismatches: 2, Indels: 2
0.83 0.09 0.09
Matches are distributed among these distances:
21 12 0.63
22 7 0.37
ACGTcount: A:0.44, C:0.02, G:0.02, T:0.51
Consensus pattern (21 bp):
TTTTATATAAATTTATCAAAA
Found at i:13312672 original size:5 final size:5
Alignment explanation
Indices: 13312662--13312691 Score: 51
Period size: 5 Copynumber: 5.8 Consensus size: 5
13312652 TTCGTTTCAA
13312662 AAAAG AAAAG AAAAG AAAAG AAAAGG AAAA
1 AAAAG AAAAG AAAAG AAAAG AAAA-G AAAA
13312692 ATAACAATTT
Statistics
Matches: 24, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
5 19 0.79
6 5 0.21
ACGTcount: A:0.80, C:0.00, G:0.20, T:0.00
Consensus pattern (5 bp):
AAAAG
Found at i:13317109 original size:92 final size:92
Alignment explanation
Indices: 13316952--13317132 Score: 326
Period size: 92 Copynumber: 2.0 Consensus size: 92
13316942 AGTTGTTTAT
*
13316952 ATTATTAGATGAATTTAGCTGCATCTATGCATCTATATGAAGCTTTTATTCTGTTGTTCATGATG
1 ATTATTAGATGAATTTAGCTGCATCTATGCATCTATATGAAGCTTTTATTCTGTTGCTCATGATG
13317017 GATGAGATGGAGATGACTAGCACAGCC
66 GATGAGATGGAGATGACTAGCACAGCC
* * *
13317044 ATTATTAGGTGAATTTAGCTGCATCTATGTATCTATATGATGCTTTTATTCTGTTGCTCATGATG
1 ATTATTAGATGAATTTAGCTGCATCTATGCATCTATATGAAGCTTTTATTCTGTTGCTCATGATG
13317109 GATGAGATGGAGATGACTAGCACA
66 GATGAGATGGAGATGACTAGCACA
13317133 ACTATGAAAG
Statistics
Matches: 85, Mismatches: 4, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
92 85 1.00
ACGTcount: A:0.28, C:0.13, G:0.22, T:0.37
Consensus pattern (92 bp):
ATTATTAGATGAATTTAGCTGCATCTATGCATCTATATGAAGCTTTTATTCTGTTGCTCATGATG
GATGAGATGGAGATGACTAGCACAGCC
Found at i:13330729 original size:18 final size:18
Alignment explanation
Indices: 13330708--13330746 Score: 51
Period size: 18 Copynumber: 2.2 Consensus size: 18
13330698 TTTTCTGCTG
* *
13330708 CTTCTCCATCTTCTTCTT
1 CTTCTCCATCATCATCTT
*
13330726 CTTCTTCATCATCATCTT
1 CTTCTCCATCATCATCTT
13330744 CTT
1 CTT
13330747 TAAGTAGAGC
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:0.10, C:0.36, G:0.00, T:0.54
Consensus pattern (18 bp):
CTTCTCCATCATCATCTT
Found at i:13332975 original size:31 final size:31
Alignment explanation
Indices: 13332937--13332996 Score: 102
Period size: 31 Copynumber: 1.9 Consensus size: 31
13332927 TCCAGATAGT
* *
13332937 AAAAAAGTAGATTTAGAGATGCGTATGGAAA
1 AAAAAAGTAGATATAGAGATGCATATGGAAA
13332968 AAAAAAGTAGATATAGAGATGCATATGGA
1 AAAAAAGTAGATATAGAGATGCATATGGA
13332997 TCAAAGTTTA
Statistics
Matches: 27, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
31 27 1.00
ACGTcount: A:0.50, C:0.03, G:0.25, T:0.22
Consensus pattern (31 bp):
AAAAAAGTAGATATAGAGATGCATATGGAAA
Found at i:13338427 original size:14 final size:15
Alignment explanation
Indices: 13338410--13338439 Score: 53
Period size: 15 Copynumber: 2.1 Consensus size: 15
13338400 TGGCCCTAAT
13338410 AAAAT-AAGAAAATA
1 AAAATAAAGAAAATA
13338424 AAAATAAAGAAAATA
1 AAAATAAAGAAAATA
13338439 A
1 A
13338440 TGCTTCTAGA
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
14 5 0.33
15 10 0.67
ACGTcount: A:0.80, C:0.00, G:0.07, T:0.13
Consensus pattern (15 bp):
AAAATAAAGAAAATA
Found at i:13342308 original size:15 final size:15
Alignment explanation
Indices: 13342284--13342320 Score: 58
Period size: 15 Copynumber: 2.5 Consensus size: 15
13342274 TCATTGAGCA
13342284 AAAC-AAAAAATAAG
1 AAACAAAAAAATAAG
13342298 AAACAAAAAAATAAG
1 AAACAAAAAAATAAG
*
13342313 AAGCAAAA
1 AAACAAAA
13342321 TATATTTTTA
Statistics
Matches: 21, Mismatches: 1, Indels: 1
0.91 0.04 0.04
Matches are distributed among these distances:
14 4 0.19
15 17 0.81
ACGTcount: A:0.78, C:0.08, G:0.08, T:0.05
Consensus pattern (15 bp):
AAACAAAAAAATAAG
Found at i:13359650 original size:15 final size:14
Alignment explanation
Indices: 13359626--13359664 Score: 53
Period size: 14 Copynumber: 2.7 Consensus size: 14
13359616 ATATATTTCA
13359626 AATATTTATTTTTG
1 AATATTTATTTTTG
13359640 AATATTTTATTTTT-
1 AATA-TTTATTTTTG
13359654 AATTATTTATT
1 AA-TATTTATT
13359665 AAGTTATAAG
Statistics
Matches: 23, Mismatches: 0, Indels: 4
0.85 0.00 0.15
Matches are distributed among these distances:
14 12 0.52
15 11 0.48
ACGTcount: A:0.31, C:0.00, G:0.03, T:0.67
Consensus pattern (14 bp):
AATATTTATTTTTG
Found at i:13360987 original size:39 final size:39
Alignment explanation
Indices: 13360944--13361020 Score: 145
Period size: 39 Copynumber: 2.0 Consensus size: 39
13360934 ATCAATGGCT
13360944 ACAATTAAAAGCTGTATACAATTAGAACTCTAAGATTAA
1 ACAATTAAAAGCTGTATACAATTAGAACTCTAAGATTAA
*
13360983 ACAATTAGAAGCTGTATACAATTAGAACTCTAAGATTA
1 ACAATTAAAAGCTGTATACAATTAGAACTCTAAGATTA
13361021 CATAATCATA
Statistics
Matches: 37, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
39 37 1.00
ACGTcount: A:0.47, C:0.13, G:0.12, T:0.29
Consensus pattern (39 bp):
ACAATTAAAAGCTGTATACAATTAGAACTCTAAGATTAA
Found at i:13361005 original size:17 final size:17
Alignment explanation
Indices: 13360943--13361009 Score: 62
Period size: 17 Copynumber: 3.6 Consensus size: 17
13360933 CATCAATGGC
*
13360943 TACAATTAAAAGCTGTA
1 TACAATTAGAAGCTGTA
*
13360960 TACAATTAGAACTCTAAGATTA
1 TACAATTAGAA-GCT--G--TA
*
13360982 AACAATTAGAAGCTGTA
1 TACAATTAGAAGCTGTA
13360999 TACAATTAGAA
1 TACAATTAGAA
13361010 CTCTAAGATT
Statistics
Matches: 40, Mismatches: 5, Indels: 10
0.73 0.09 0.18
Matches are distributed among these distances:
17 22 0.55
18 2 0.05
19 1 0.03
20 1 0.03
21 2 0.05
22 12 0.30
ACGTcount: A:0.48, C:0.12, G:0.12, T:0.28
Consensus pattern (17 bp):
TACAATTAGAAGCTGTA
Found at i:13365976 original size:22 final size:22
Alignment explanation
Indices: 13365951--13366012 Score: 71
Period size: 22 Copynumber: 3.0 Consensus size: 22
13365941 AAAGCTGTAT
13365951 ACAATTAGAACTCTAAGATTAC
1 ACAATTAGAACTCTAAGATTAC
* *
13365973 ACAATTAGAAGT-T--G--TAT
1 ACAATTAGAACTCTAAGATTAC
13365990 ACAATTAGAACTCTAAGATTAC
1 ACAATTAGAACTCTAAGATTAC
13366012 A
1 A
13366013 TAATCATATC
Statistics
Matches: 31, Mismatches: 4, Indels: 10
0.69 0.09 0.22
Matches are distributed among these distances:
17 13 0.42
18 1 0.03
19 1 0.03
20 1 0.03
21 1 0.03
22 14 0.45
ACGTcount: A:0.45, C:0.15, G:0.11, T:0.29
Consensus pattern (22 bp):
ACAATTAGAACTCTAAGATTAC
Found at i:13365977 original size:39 final size:39
Alignment explanation
Indices: 13365934--13366012 Score: 140
Period size: 39 Copynumber: 2.0 Consensus size: 39
13365924 ATCACTGGCT
13365934 ACAATTAAAAGCTGTATACAATTAGAACTCTAAGATTAC
1 ACAATTAAAAGCTGTATACAATTAGAACTCTAAGATTAC
* *
13365973 ACAATTAGAAGTTGTATACAATTAGAACTCTAAGATTAC
1 ACAATTAAAAGCTGTATACAATTAGAACTCTAAGATTAC
13366012 A
1 A
13366013 TAATCATATC
Statistics
Matches: 38, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
39 38 1.00
ACGTcount: A:0.46, C:0.14, G:0.11, T:0.29
Consensus pattern (39 bp):
ACAATTAAAAGCTGTATACAATTAGAACTCTAAGATTAC
Found at i:13368759 original size:49 final size:44
Alignment explanation
Indices: 13368689--13368790 Score: 150
Period size: 49 Copynumber: 2.2 Consensus size: 44
13368679 GGACGGTGGA
13368689 GGAGAGGGAAAGAATCAGAGTAGGAGGAGGGATGGTGGGGAAGAGGG
1 GGAGAGGGAAAGAATCAGAGTAGGAGGAGGGATGGT-GGGAAGA--G
*
13368736 GGAGAGGGAGAGAGAATCAGAGTAGGGGGAGGGATGGTGGGAAGAG
1 GGAGAGGGA-A-AGAATCAGAGTAGGAGGAGGGATGGTGGGAAGAG
13368782 GGAGAGGGA
1 GGAGAGGGA
13368791 TGGGAGGGGG
Statistics
Matches: 52, Mismatches: 1, Indels: 5
0.90 0.02 0.09
Matches are distributed among these distances:
46 10 0.19
47 9 0.17
48 8 0.15
49 25 0.48
ACGTcount: A:0.33, C:0.02, G:0.57, T:0.08
Consensus pattern (44 bp):
GGAGAGGGAAAGAATCAGAGTAGGAGGAGGGATGGTGGGAAGAG
Found at i:13368839 original size:30 final size:30
Alignment explanation
Indices: 13368803--13368872 Score: 88
Period size: 30 Copynumber: 2.3 Consensus size: 30
13368793 GGAGGGGGAT
* *
13368803 GGAAAATGGTAG-TTTGGTTAAGTCTATAAC
1 GGAAAATGGTAGCTCT-ATTAAGTCTATAAC
*
13368833 GGAAAATGGTAGCTCTATTACGTCTATAAC
1 GGAAAATGGTAGCTCTATTAAGTCTATAAC
*
13368863 AGAAAATGGT
1 GGAAAATGGT
13368873 TAGTGGTGAC
Statistics
Matches: 35, Mismatches: 4, Indels: 2
0.85 0.10 0.05
Matches are distributed among these distances:
30 33 0.94
31 2 0.06
ACGTcount: A:0.36, C:0.10, G:0.24, T:0.30
Consensus pattern (30 bp):
GGAAAATGGTAGCTCTATTAAGTCTATAAC
Found at i:13369140 original size:30 final size:31
Alignment explanation
Indices: 13369096--13369155 Score: 77
Period size: 30 Copynumber: 2.0 Consensus size: 31
13369086 ACAAGAATTG
* *
13369096 TTAAATTTTAATTTTGATCCCTATA-TTTAC
1 TTAAATTTGAATTTTAATCCCTATACTTTAC
* *
13369126 TTAAATTTGGATTTTAATCTCTATACTTTA
1 TTAAATTTGAATTTTAATCCCTATACTTTA
13369156 ATTTTGACAT
Statistics
Matches: 25, Mismatches: 4, Indels: 1
0.83 0.13 0.03
Matches are distributed among these distances:
30 21 0.84
31 4 0.16
ACGTcount: A:0.30, C:0.12, G:0.05, T:0.53
Consensus pattern (31 bp):
TTAAATTTGAATTTTAATCCCTATACTTTAC
Found at i:13370217 original size:8 final size:8
Alignment explanation
Indices: 13370195--13370248 Score: 58
Period size: 8 Copynumber: 7.0 Consensus size: 8
13370185 TCTTGAAAAT
13370195 TATATAAA
1 TATATAAA
13370203 -ATATAAA
1 TATATAAA
*
13370210 TTTATAAA
1 TATATAAA
*
13370218 AATATAAA
1 TATATAAA
*
13370226 -ATAAAAA
1 TATATAAA
*
13370233 TTTATAAA
1 TATATAAA
13370241 TATATAAA
1 TATATAAA
13370249 ATAATAATTA
Statistics
Matches: 37, Mismatches: 7, Indels: 4
0.77 0.15 0.08
Matches are distributed among these distances:
7 13 0.35
8 24 0.65
ACGTcount: A:0.65, C:0.00, G:0.00, T:0.35
Consensus pattern (8 bp):
TATATAAA
Found at i:13370223 original size:23 final size:23
Alignment explanation
Indices: 13370196--13370257 Score: 97
Period size: 23 Copynumber: 2.7 Consensus size: 23
13370186 CTTGAAAATT
*
13370196 ATATAAAATATAAATTTATAAAA
1 ATATAAAATAAAAATTTATAAAA
*
13370219 ATATAAAATAAAAATTTATAAAT
1 ATATAAAATAAAAATTTATAAAA
*
13370242 ATATAAAATAATAATT
1 ATATAAAATAAAAATT
13370258 AATTAAAGAT
Statistics
Matches: 36, Mismatches: 3, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
23 36 1.00
ACGTcount: A:0.65, C:0.00, G:0.00, T:0.35
Consensus pattern (23 bp):
ATATAAAATAAAAATTTATAAAA
Found at i:13370227 original size:17 final size:18
Alignment explanation
Indices: 13370190--13370227 Score: 55
Period size: 16 Copynumber: 2.3 Consensus size: 18
13370180 TATTTTCTTG
13370190 AAAA-TTATATAAAATAT
1 AAAATTTATATAAAATAT
13370207 -AAATTTATA-AAAATAT
1 AAAATTTATATAAAATAT
13370223 AAAAT
1 AAAAT
13370228 AAAAATTTAT
Statistics
Matches: 19, Mismatches: 0, Indels: 4
0.83 0.00 0.17
Matches are distributed among these distances:
16 10 0.53
17 9 0.47
ACGTcount: A:0.66, C:0.00, G:0.00, T:0.34
Consensus pattern (18 bp):
AAAATTTATATAAAATAT
Found at i:13370897 original size:13 final size:13
Alignment explanation
Indices: 13370881--13370914 Score: 68
Period size: 13 Copynumber: 2.6 Consensus size: 13
13370871 TTTAAAAATA
13370881 AAAAAATTATTTT
1 AAAAAATTATTTT
13370894 AAAAAATTATTTT
1 AAAAAATTATTTT
13370907 AAAAAATT
1 AAAAAATT
13370915 TTAAAAATAA
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 21 1.00
ACGTcount: A:0.59, C:0.00, G:0.00, T:0.41
Consensus pattern (13 bp):
AAAAAATTATTTT
Found at i:13370900 original size:21 final size:20
Alignment explanation
Indices: 13370861--13370898 Score: 67
Period size: 20 Copynumber: 1.9 Consensus size: 20
13370851 AATAAACACC
*
13370861 AAAAATTTATTTTAAAAATA
1 AAAAAATTATTTTAAAAATA
13370881 AAAAAATTATTTTAAAAA
1 AAAAAATTATTTTAAAAA
13370899 ATTATTTTAA
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
20 17 1.00
ACGTcount: A:0.63, C:0.00, G:0.00, T:0.37
Consensus pattern (20 bp):
AAAAAATTATTTTAAAAATA
Found at i:13372778 original size:26 final size:26
Alignment explanation
Indices: 13372743--13372795 Score: 106
Period size: 26 Copynumber: 2.0 Consensus size: 26
13372733 TGACATATTC
13372743 AAAATTTTCAAATTTATTAAATCCTA
1 AAAATTTTCAAATTTATTAAATCCTA
13372769 AAAATTTTCAAATTTATTAAATCCTA
1 AAAATTTTCAAATTTATTAAATCCTA
13372795 A
1 A
13372796 CTTATATCTA
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:0.47, C:0.11, G:0.00, T:0.42
Consensus pattern (26 bp):
AAAATTTTCAAATTTATTAAATCCTA
Found at i:13373127 original size:23 final size:23
Alignment explanation
Indices: 13373100--13373143 Score: 88
Period size: 23 Copynumber: 1.9 Consensus size: 23
13373090 ACCTAGCCGA
13373100 ATAAAATTTAAACACCATATATT
1 ATAAAATTTAAACACCATATATT
13373123 ATAAAATTTAAACACCATATA
1 ATAAAATTTAAACACCATATA
13373144 AGATTTCATA
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
23 21 1.00
ACGTcount: A:0.55, C:0.14, G:0.00, T:0.32
Consensus pattern (23 bp):
ATAAAATTTAAACACCATATATT
Found at i:13373385 original size:132 final size:132
Alignment explanation
Indices: 13373143--13373429 Score: 434
Period size: 132 Copynumber: 2.2 Consensus size: 132
13373133 AACACCATAT
* *
13373143 AAGATTTCATATCTTATCTCCCTAAGCAGTAGTGGAGCAGATCGAAGATGGCGGATTTTACCTCC
1 AAGATTTCAGATCTTATCTCCCTAAGCAGTACTGGAGCAGATCGAAGATGGCGGATTTTACCTCC
* *
13373208 CTGTGGTTATAGTGGAGTACATTGAAGCCAGTAATTCTACTTCCCTGGGCAACAGTGGAATAAAT
66 CTGTGGTTACAGTGGAGTACATTGAAGCCAGTAATCCTACTTCCCTGGGCAACAGTGGAATAAAT
13373273 TG
131 TG
* *
13373275 AAGATTTCAGATCTTATCTCCCTAAGCAGTACTGGAGTAGATCGAAGATGGTGGATTTTACCTCC
1 AAGATTTCAGATCTTATCTCCCTAAGCAGTACTGGAGCAGATCGAAGATGGCGGATTTTACCTCC
* * * **
13373340 CTGTGGTTACAGTGGAGTACATTGAAGTCAGTAATCCTA-TCTCCCTGGTCAGCAGTGGAATAGG
66 CTGTGGTTACAGTGGAGTACATTGAAGCCAGTAATCCTACT-TCCCTGGGCAACAGTGGAATAAA
13373404 TTG
130 TTG
*
13373407 AAGATTGTAAG-TCTTATCTCCCT
1 AAGATT-TCAGATCTTATCTCCCT
13373430 GCAGTTGCAG
Statistics
Matches: 141, Mismatches: 12, Indels: 4
0.90 0.08 0.03
Matches are distributed among these distances:
131 1 0.01
132 137 0.97
133 3 0.02
ACGTcount: A:0.27, C:0.19, G:0.23, T:0.31
Consensus pattern (132 bp):
AAGATTTCAGATCTTATCTCCCTAAGCAGTACTGGAGCAGATCGAAGATGGCGGATTTTACCTCC
CTGTGGTTACAGTGGAGTACATTGAAGCCAGTAATCCTACTTCCCTGGGCAACAGTGGAATAAAT
TG
Found at i:13373408 original size:43 final size:44
Alignment explanation
Indices: 13373349--13373454 Score: 110
Period size: 43 Copynumber: 2.4 Consensus size: 44
13373339 CCTGTGGTTA
* *
13373349 CAGTGGAGTACATTGAAG-TCAGTAA-TCCTATCTCCCTG-GTCAG
1 CAGTGGAATAGATTGAAGAT-AGTAAGTCCTATCTCCCTGAGT-AG
* * * *
13373392 CAGTGGAATAGGTTGAAGATTGTAAGTCTTATCTCCCTGCAGTTG
1 CAGTGGAATAGATTGAAGATAGTAAGTCCTATCTCCCTG-AGTAG
13373437 CAGTGGAATAGATTGAAG
1 CAGTGGAATAGATTGAAG
13373455 CACTAGCTTC
Statistics
Matches: 52, Mismatches: 7, Indels: 6
0.80 0.11 0.09
Matches are distributed among these distances:
43 19 0.37
44 13 0.25
45 18 0.35
46 2 0.04
ACGTcount: A:0.27, C:0.17, G:0.26, T:0.29
Consensus pattern (44 bp):
CAGTGGAATAGATTGAAGATAGTAAGTCCTATCTCCCTGAGTAG
Found at i:13373723 original size:21 final size:19
Alignment explanation
Indices: 13373658--13373751 Score: 152
Period size: 19 Copynumber: 4.8 Consensus size: 19
13373648 AATTTTTGAG
13373658 GATATGCAATCTTAGATAT
1 GATATGCAATCTTAGATAT
*
13373677 GATATGCAATCCTAGATAT
1 GATATGCAATCTTAGATAT
13373696 GATATGCAATCTTAGATAT
1 GATATGCAATCTTAGATAT
13373715 GATATATGCAATCTTAGATAT
1 G--ATATGCAATCTTAGATAT
*
13373736 GATATGTAATCTTAGA
1 GATATGCAATCTTAGA
13373752 ATATATGATT
Statistics
Matches: 70, Mismatches: 3, Indels: 4
0.91 0.04 0.05
Matches are distributed among these distances:
19 51 0.73
21 19 0.27
ACGTcount: A:0.37, C:0.11, G:0.16, T:0.36
Consensus pattern (19 bp):
GATATGCAATCTTAGATAT
Found at i:13373733 original size:40 final size:38
Alignment explanation
Indices: 13373658--13373758 Score: 152
Period size: 40 Copynumber: 2.7 Consensus size: 38
13373648 AATTTTTGAG
13373658 GATATGCAATCTTAGATATGATATGCAATCCTAGATAT
1 GATATGCAATCTTAGATATGATATGCAATCCTAGATAT
*
13373696 GATATGCAATCTTAGATATGATATATGCAATCTTAGATAT
1 GATATGCAATCTTAGATATG--ATATGCAATCCTAGATAT
*
13373736 GATATGTAATCTTAGA-AT-ATATG
1 GATATGCAATCTTAGATATGATATG
13373759 ATTTTGTAAT
Statistics
Matches: 59, Mismatches: 2, Indels: 6
0.88 0.03 0.09
Matches are distributed among these distances:
36 5 0.08
38 20 0.34
39 2 0.03
40 32 0.54
ACGTcount: A:0.38, C:0.10, G:0.16, T:0.37
Consensus pattern (38 bp):
GATATGCAATCTTAGATATGATATGCAATCCTAGATAT
Found at i:13373769 original size:23 final size:22
Alignment explanation
Indices: 13373692--13373774 Score: 86
Period size: 21 Copynumber: 3.9 Consensus size: 22
13373682 GCAATCCTAG
*
13373692 ATATGATATGCAATCTTAG-AT
1 ATATGATATGTAATCTTAGAAT
*
13373713 ATGAT-ATATGCAATCTTAG---
1 AT-ATGATATGTAATCTTAGAAT
13373732 ATATGATATGTAATCTTAGAAT
1 ATATGATATGTAATCTTAGAAT
*
13373754 ATATGATTTTGTAATCTTAGA
1 ATATGA-TATGTAATCTTAGA
13373775 GATTTAATTT
Statistics
Matches: 54, Mismatches: 2, Indels: 10
0.82 0.03 0.15
Matches are distributed among these distances:
18 2 0.04
19 15 0.28
21 16 0.30
22 8 0.15
23 13 0.24
ACGTcount: A:0.37, C:0.07, G:0.14, T:0.41
Consensus pattern (22 bp):
ATATGATATGTAATCTTAGAAT
Found at i:13374804 original size:9 final size:9
Alignment explanation
Indices: 13374792--13374816 Score: 50
Period size: 9 Copynumber: 2.8 Consensus size: 9
13374782 GATGATGTAT
13374792 TTATTATTG
1 TTATTATTG
13374801 TTATTATTG
1 TTATTATTG
13374810 TTATTAT
1 TTATTAT
13374817 AGCATTTGCA
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
9 16 1.00
ACGTcount: A:0.24, C:0.00, G:0.08, T:0.68
Consensus pattern (9 bp):
TTATTATTG
Found at i:13375217 original size:98 final size:98
Alignment explanation
Indices: 13375103--13375293 Score: 346
Period size: 98 Copynumber: 1.9 Consensus size: 98
13375093 AATAATAAAG
* *
13375103 GAAATATTCCGAGTTTGGGATTTTAAAGGAATTGTGCCCTAACGTATTGGGTGTGATTTCTTAAA
1 GAAATATTCCGAGTTTGGGATTCTAAAGGAATCGTGCCCTAACGTATTGGGTGTGATTTCTTAAA
13375168 TCTTGGATAAGTGGATGTTCTTTTAAAGAAAAT
66 TCTTGGATAAGTGGATGTTCTTTTAAAGAAAAT
* *
13375201 GAAATATTCCGAGTTTGGTATTCTAGAGGAATCGTGCCCTAACGTATTGGGTGTGATTTCTTAAA
1 GAAATATTCCGAGTTTGGGATTCTAAAGGAATCGTGCCCTAACGTATTGGGTGTGATTTCTTAAA
13375266 TCTTGGATAAGTGGATGTTCTTTTAAAG
66 TCTTGGATAAGTGGATGTTCTTTTAAAG
13375294 TTTTATTGTA
Statistics
Matches: 89, Mismatches: 4, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
98 89 1.00
ACGTcount: A:0.28, C:0.10, G:0.24, T:0.38
Consensus pattern (98 bp):
GAAATATTCCGAGTTTGGGATTCTAAAGGAATCGTGCCCTAACGTATTGGGTGTGATTTCTTAAA
TCTTGGATAAGTGGATGTTCTTTTAAAGAAAAT
Found at i:13379278 original size:10 final size:10
Alignment explanation
Indices: 13379265--13379298 Score: 59
Period size: 10 Copynumber: 3.3 Consensus size: 10
13379255 CAAAATAAAT
13379265 AAAAAACAAA
1 AAAAAACAAA
13379275 AAAAAACAAAA
1 AAAAAAC-AAA
13379286 AAAAAACAAA
1 AAAAAACAAA
13379296 AAA
1 AAA
13379299 TGGAGAGGCC
Statistics
Matches: 23, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
10 13 0.57
11 10 0.43
ACGTcount: A:0.91, C:0.09, G:0.00, T:0.00
Consensus pattern (10 bp):
AAAAAACAAA
Found at i:13379279 original size:11 final size:11
Alignment explanation
Indices: 13379265--13379298 Score: 61
Period size: 11 Copynumber: 3.2 Consensus size: 11
13379255 CAAAATAAAT
13379265 AAAAAAC-AAA
1 AAAAAACAAAA
13379275 AAAAAACAAAA
1 AAAAAACAAAA
13379286 AAAAAACAAAA
1 AAAAAACAAAA
13379297 AA
1 AA
13379299 TGGAGAGGCC
Statistics
Matches: 23, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
10 7 0.30
11 16 0.70
ACGTcount: A:0.91, C:0.09, G:0.00, T:0.00
Consensus pattern (11 bp):
AAAAAACAAAA
Found at i:13379280 original size:21 final size:21
Alignment explanation
Indices: 13379256--13379298 Score: 68
Period size: 21 Copynumber: 2.0 Consensus size: 21
13379246 GTTCAGATTC
* *
13379256 AAAATAAATAAAAAACAAAAA
1 AAAACAAAAAAAAAACAAAAA
13379277 AAAACAAAAAAAAAACAAAAA
1 AAAACAAAAAAAAAACAAAAA
13379298 A
1 A
13379299 TGGAGAGGCC
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
21 20 1.00
ACGTcount: A:0.88, C:0.07, G:0.00, T:0.05
Consensus pattern (21 bp):
AAAACAAAAAAAAAACAAAAA
Found at i:13380786 original size:132 final size:132
Alignment explanation
Indices: 13380607--13381391 Score: 1268
Period size: 132 Copynumber: 5.9 Consensus size: 132
13380597 CTGCATTGAC
* * *
13380607 AGTGGAGCAGATTGAAGATGGCAGATTTTACCTCCCTGTGGTTATAGTAGAGTACATTGAAGCCA
1 AGTGGAGCAGATCGAAGATGGCGGATTTTACCTCCCTGTGGTTATAGTGGAGTACATTGAAGCCA
** * *
13380672 GTAATTCTACTTCCCTGGGTAACAGTGAAATAGATTGAAGATTTCAGATCTTATCTCCCTAAGTA
66 GTAATTCTACTTCCCTGGACAACAGTGGAATAGATTGAAGATTTCAGATCTTATCTCCCTAAGCA
13380737 GT
131 GT
* *
13380739 AGTAGAGCAGATTGAAGATGGCGGATTTTACCTCCCTGTGGTTATAGTGGAGTACATTGAAGCCA
1 AGTGGAGCAGATCGAAGATGGCGGATTTTACCTCCCTGTGGTTATAGTGGAGTACATTGAAGCCA
13380804 GTAATTCTACTTCCCTGGACAACAGTGGAATAGATTGAAGATTTCAGATCTTATCTCCCTAAGCA
66 GTAATTCTACTTCCCTGGACAACAGTGGAATAGATTGAAGATTTCAGATCTTATCTCCCTAAGCA
13380869 GT
131 GT
13380871 AGTGGAGCAGATCGAAGATGGCGGATTTTACCTCCCTGTGGTTATAGTGGAGTACATTGAAGCCA
1 AGTGGAGCAGATCGAAGATGGCGGATTTTACCTCCCTGTGGTTATAGTGGAGTACATTGAAGCCA
* *
13380936 GTAATTCTACTTCCATGGACAACAGTGGAATAGATTGAAGATTTCAGATCTTATCTCCTTAAGCA
66 GTAATTCTACTTCCCTGGACAACAGTGGAATAGATTGAAGATTTCAGATCTTATCTCCCTAAGCA
13381001 GT
131 GT
* *
13381003 AGTGGAGAAGATCGGAGATGGCGGATTTTACCTCCCTGTGGTTATAGTGGAGTACATTGAAGCCA
1 AGTGGAGCAGATCGAAGATGGCGGATTTTACCTCCCTGTGGTTATAGTGGAGTACATTGAAGCCA
* * *
13381068 GTAAGTCTACTTCCCTAGACAACAGTGGAATAGATTGAAGATTTCATATCTTATCTCCCTAAGCA
66 GTAATTCTACTTCCCTGGACAACAGTGGAATAGATTGAAGATTTCAGATCTTATCTCCCTAAGCA
13381133 GT
131 GT
*
13381135 AGTGGAGCAGATCGAAGATGGCGAATTTTACCTCCCTGTGGTTATAGTGGAGTACATTGAAGCCA
1 AGTGGAGCAGATCGAAGATGGCGGATTTTACCTCCCTGTGGTTATAGTGGAGTACATTGAAGCCA
* * *
13381200 GTAATTCTACTTCCCTGGGCAACGGTGGAATAGATTGAAGATTTCAGATCTTATCTCCCTAAGAA
66 GTAATTCTACTTCCCTGGACAACAGTGGAATAGATTGAAGATTTCAGATCTTATCTCCCTAAGCA
*
13381265 AT
131 GT
* * * *
13381267 AGTGGAGTAGATCGAAGATGGTGGATTTTACCTCCCTGTGGTTACAGTGGAGTACATTGAAGTCA
1 AGTGGAGCAGATCGAAGATGGCGGATTTTACCTCCCTGTGGTTATAGTGGAGTACATTGAAGCCA
* * * * *
13381332 GTAATCCTA-TCTCCCTGGTCAGCAGTGGAATAGGTTGAAGATTGTAAG-TCTTATCTCCCT
66 GTAATTCTACT-TCCCTGGACAACAGTGGAATAGATTGAAGATT-TCAGATCTTATCTCCCT
13381392 GCAATTGTAG
Statistics
Matches: 612, Mismatches: 39, Indels: 4
0.93 0.06 0.01
Matches are distributed among these distances:
131 1 0.00
132 608 0.99
133 3 0.00
ACGTcount: A:0.28, C:0.18, G:0.24, T:0.30
Consensus pattern (132 bp):
AGTGGAGCAGATCGAAGATGGCGGATTTTACCTCCCTGTGGTTATAGTGGAGTACATTGAAGCCA
GTAATTCTACTTCCCTGGACAACAGTGGAATAGATTGAAGATTTCAGATCTTATCTCCCTAAGCA
GT
Found at i:13381685 original size:21 final size:19
Alignment explanation
Indices: 13381620--13381713 Score: 125
Period size: 19 Copynumber: 4.8 Consensus size: 19
13381610 AATTTTTGAG
* *
13381620 GATATGCAATTTTAGTTAT
1 GATATGCAATCTTAGATAT
*
13381639 GATATGCAATCCTAGATAT
1 GATATGCAATCTTAGATAT
13381658 GATATGCAATCTTAGATAT
1 GATATGCAATCTTAGATAT
13381677 GATATATGCAATCTTAGATAT
1 G--ATATGCAATCTTAGATAT
* *
13381698 GATATGTAATATTAGA
1 GATATGCAATCTTAGA
13381714 ATATATGATT
Statistics
Matches: 67, Mismatches: 6, Indels: 4
0.87 0.08 0.05
Matches are distributed among these distances:
19 48 0.72
21 19 0.28
ACGTcount: A:0.37, C:0.09, G:0.16, T:0.38
Consensus pattern (19 bp):
GATATGCAATCTTAGATAT
Found at i:13381695 original size:40 final size:38
Alignment explanation
Indices: 13381620--13381720 Score: 125
Period size: 40 Copynumber: 2.7 Consensus size: 38
13381610 AATTTTTGAG
* *
13381620 GATATGCAATTTTAGTTATGATATGCAATCCTAGATAT
1 GATATGCAATATTAGATATGATATGCAATCCTAGATAT
* *
13381658 GATATGCAATCTTAGATATGATATATGCAATCTTAGATAT
1 GATATGCAATATTAGATATG--ATATGCAATCCTAGATAT
*
13381698 GATATGTAATATTAGA-AT-ATATG
1 GATATGCAATATTAGATATGATATG
13381721 ATTTTGTAAT
Statistics
Matches: 56, Mismatches: 5, Indels: 6
0.84 0.07 0.09
Matches are distributed among these distances:
36 5 0.09
38 18 0.32
39 2 0.04
40 31 0.55
ACGTcount: A:0.38, C:0.08, G:0.16, T:0.39
Consensus pattern (38 bp):
GATATGCAATATTAGATATGATATGCAATCCTAGATAT
Found at i:13381735 original size:23 final size:22
Alignment explanation
Indices: 13381654--13381736 Score: 59
Period size: 21 Copynumber: 3.9 Consensus size: 22
13381644 GCAATCCTAG
* *
13381654 ATATGATATGCAATCTTAG-AT
1 ATATGATATGTAATATTAGAAT
* *
13381675 ATGAT-ATATGCAATCTTAG---
1 AT-ATGATATGTAATATTAGAAT
13381694 ATATGATATGTAATATTAGAAT
1 ATATGATATGTAATATTAGAAT
* *
13381716 ATATGATTTTGTAATCTTAGA
1 ATATGA-TATGTAATATTAGA
13381737 GATTTAATTT
Statistics
Matches: 52, Mismatches: 4, Indels: 10
0.79 0.06 0.15
Matches are distributed among these distances:
18 2 0.04
19 14 0.27
21 16 0.31
22 8 0.15
23 12 0.23
ACGTcount: A:0.39, C:0.06, G:0.14, T:0.41
Consensus pattern (22 bp):
ATATGATATGTAATATTAGAAT
Found at i:13382761 original size:9 final size:9
Alignment explanation
Indices: 13382749--13382773 Score: 50
Period size: 9 Copynumber: 2.8 Consensus size: 9
13382739 GATGATGTAT
13382749 TTATTATTG
1 TTATTATTG
13382758 TTATTATTG
1 TTATTATTG
13382767 TTATTAT
1 TTATTAT
13382774 AGCATTTGCA
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
9 16 1.00
ACGTcount: A:0.24, C:0.00, G:0.08, T:0.68
Consensus pattern (9 bp):
TTATTATTG
Found at i:13383185 original size:98 final size:98
Alignment explanation
Indices: 13383057--13383247 Score: 337
Period size: 98 Copynumber: 1.9 Consensus size: 98
13383047 AATAATAAAG
* * *
13383057 GAAATATTCCGAGTTTGGGATTTTAAAGGAATTGTGCCCTAACGTATTGGGTGTGATTTCTTAAA
1 GAAATATTCCGAGTCTGGGATTCTAAAGGAATCGTGCCCTAACGTATTGGGTGTGATTTCTTAAA
13383122 TATTGGATAAGTGGATGTTCTTTTAAAGAAAAT
66 TATTGGATAAGTGGATGTTCTTTTAAAGAAAAT
*
13383155 GAAATATTCCGAGTCTGGGATTCTAGAGGAATCGTGCCCTAACGTATTGGGTGTGATTTCTTAAA
1 GAAATATTCCGAGTCTGGGATTCTAAAGGAATCGTGCCCTAACGTATTGGGTGTGATTTCTTAAA
*
13383220 TCTTGGATAAGTGGATGTTCTTTTAAAG
66 TATTGGATAAGTGGATGTTCTTTTAAAG
13383248 TTTTATTATA
Statistics
Matches: 88, Mismatches: 5, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
98 88 1.00
ACGTcount: A:0.28, C:0.10, G:0.25, T:0.37
Consensus pattern (98 bp):
GAAATATTCCGAGTCTGGGATTCTAAAGGAATCGTGCCCTAACGTATTGGGTGTGATTTCTTAAA
TATTGGATAAGTGGATGTTCTTTTAAAGAAAAT
Found at i:13388679 original size:9 final size:9
Alignment explanation
Indices: 13388652--13388688 Score: 56
Period size: 9 Copynumber: 4.1 Consensus size: 9
13388642 TGAGTTTTTG
13388652 AATTCGAAT
1 AATTCGAAT
* *
13388661 AACTCCAAT
1 AATTCGAAT
13388670 AATTCGAAT
1 AATTCGAAT
13388679 AATTCGAAT
1 AATTCGAAT
13388688 A
1 A
13388689 TCAAACTATA
Statistics
Matches: 24, Mismatches: 4, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
9 24 1.00
ACGTcount: A:0.46, C:0.16, G:0.08, T:0.30
Consensus pattern (9 bp):
AATTCGAAT
Found at i:13388765 original size:21 final size:21
Alignment explanation
Indices: 13388726--13388766 Score: 57
Period size: 21 Copynumber: 2.0 Consensus size: 21
13388716 CCCAAACTCC
*
13388726 CAAAACTTTTTACTTTTCCCT
1 CAAAACTTTTTACTCTTCCCT
13388747 CAAAAC-TTTTACTCCTTCCC
1 CAAAACTTTTTACT-CTTCCC
13388767 ACTTTGCTCC
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
20 7 0.39
21 11 0.61
ACGTcount: A:0.24, C:0.34, G:0.00, T:0.41
Consensus pattern (21 bp):
CAAAACTTTTTACTCTTCCCT
Found at i:13388936 original size:30 final size:31
Alignment explanation
Indices: 13388902--13388961 Score: 86
Period size: 30 Copynumber: 2.0 Consensus size: 31
13388892 AAAGCTTTTA
*
13388902 TTTTCCCCCAAAATTTTTACTCCC-TCCCAC
1 TTTTCCCCCAAAACTTTTACTCCCTTCCCAC
* *
13388932 TTTTCCCCTAAAACTTTTATTCCCTTCCCA
1 TTTTCCCCCAAAACTTTTACTCCCTTCCCA
13388962 TCCCACCTCC
Statistics
Matches: 26, Mismatches: 3, Indels: 1
0.87 0.10 0.03
Matches are distributed among these distances:
30 21 0.81
31 5 0.19
ACGTcount: A:0.20, C:0.40, G:0.00, T:0.40
Consensus pattern (31 bp):
TTTTCCCCCAAAACTTTTACTCCCTTCCCAC
Found at i:13389101 original size:19 final size:20
Alignment explanation
Indices: 13389065--13389103 Score: 62
Period size: 20 Copynumber: 2.0 Consensus size: 20
13389055 CAAACTTTTA
13389065 TTCCCCAAAACTTTTTATTT
1 TTCCCCAAAACTTTTTATTT
*
13389085 TTCCCCTAAAC-TTTTATTT
1 TTCCCCAAAACTTTTTATTT
13389104 CTCATCCTTT
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
19 8 0.44
20 10 0.56
ACGTcount: A:0.23, C:0.26, G:0.00, T:0.51
Consensus pattern (20 bp):
TTCCCCAAAACTTTTTATTT
Found at i:13391086 original size:19 final size:19
Alignment explanation
Indices: 13391062--13391098 Score: 65
Period size: 19 Copynumber: 1.9 Consensus size: 19
13391052 ACTTTGAGAT
13391062 TTTTATATTTTTAAAATTA
1 TTTTATATTTTTAAAATTA
*
13391081 TTTTATATTTTTTAAATT
1 TTTTATATTTTTAAAATT
13391099 TTAAAGAATT
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
19 17 1.00
ACGTcount: A:0.32, C:0.00, G:0.00, T:0.68
Consensus pattern (19 bp):
TTTTATATTTTTAAAATTA
Found at i:13391125 original size:32 final size:33
Alignment explanation
Indices: 13391081--13391159 Score: 94
Period size: 31 Copynumber: 2.5 Consensus size: 33
13391071 TTTAAAATTA
*
13391081 TTTTATATTTTTTAAATTTTAA-AGAAT-TTATT
1 TTTTATATTTTTTAAATTTTAAGA-AATGTGATT
*
13391113 TTTTATAATTTTT--ATTTTAAGAAATGTGATT
1 TTTTATATTTTTTAAATTTTAAGAAATGTGATT
*
13391144 TTTTTTATTTTTTAAA
1 TTTTATATTTTTTAAA
13391160 AATATAATTT
Statistics
Matches: 39, Mismatches: 4, Indels: 7
0.78 0.08 0.14
Matches are distributed among these distances:
30 10 0.26
31 16 0.41
32 12 0.31
33 1 0.03
ACGTcount: A:0.32, C:0.00, G:0.05, T:0.63
Consensus pattern (33 bp):
TTTTATATTTTTTAAATTTTAAGAAATGTGATT
Found at i:13392529 original size:19 final size:20
Alignment explanation
Indices: 13392489--13392540 Score: 63
Period size: 19 Copynumber: 2.6 Consensus size: 20
13392479 TTTTTAAATA
13392489 AAAATTATAAAAATACTCTTT
1 AAAATTA-AAAAATACTCTTT
13392510 AAAATTAAAAAATGA-T-TTT
1 AAAATTAAAAAAT-ACTCTTT
*
13392529 AAAAATAAAAAA
1 AAAATTAAAAAA
13392541 AATCAAAATT
Statistics
Matches: 29, Mismatches: 1, Indels: 4
0.85 0.03 0.12
Matches are distributed among these distances:
19 14 0.48
20 7 0.24
21 8 0.28
ACGTcount: A:0.63, C:0.04, G:0.02, T:0.31
Consensus pattern (20 bp):
AAAATTAAAAAATACTCTTT
Found at i:13393834 original size:14 final size:14
Alignment explanation
Indices: 13393815--13393849 Score: 52
Period size: 14 Copynumber: 2.5 Consensus size: 14
13393805 TTATTTCATT
13393815 GAAAATGGTTCTTA
1 GAAAATGGTTCTTA
* *
13393829 GAAAATGGTTTTTG
1 GAAAATGGTTCTTA
13393843 GAAAATG
1 GAAAATG
13393850 ATTTGTTTTT
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
14 19 1.00
ACGTcount: A:0.37, C:0.03, G:0.26, T:0.34
Consensus pattern (14 bp):
GAAAATGGTTCTTA
Found at i:13394433 original size:11 final size:13
Alignment explanation
Indices: 13394417--13394448 Score: 50
Period size: 11 Copynumber: 2.6 Consensus size: 13
13394407 AATTTTACGG
13394417 AAAAATTTCG-T-
1 AAAAATTTCGTTC
13394428 AAAAATTTCGTTC
1 AAAAATTTCGTTC
13394441 AAAAATTT
1 AAAAATTT
13394449 TGACGTTTGG
Statistics
Matches: 19, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
11 10 0.53
12 1 0.05
13 8 0.42
ACGTcount: A:0.47, C:0.09, G:0.06, T:0.38
Consensus pattern (13 bp):
AAAAATTTCGTTC
Found at i:13395645 original size:103 final size:103
Alignment explanation
Indices: 13395516--13395883 Score: 526
Period size: 103 Copynumber: 3.6 Consensus size: 103
13395506 TTGCATATAA
** * * **
13395516 AGGGGTTGCTGTGTGCTGATTCCCCTATTCATCAGTGGTTGCTAAGTGCTAATTCCACCGTATTT
1 AGGGGTTGCTAAGTGCTGATTCCCCGATCCATTGGTGGTTGCTAAGTGCTAATTCCACCGTATTT
13395581 TAAATGTGAAAGGGGGTTGCTAAGTGCTGATTCCCCCG
66 TAAATGTGAAAGGGGGTTGCTAAGTGCTGATTCCCCCG
* *
13395619 AGGGGTTGCTAAGTGCTGATTCCCCTA-CCTATTGGTGGTTGCTAAGTGCTGATTCCACCGTATT
1 AGGGGTTGCTAAGTGCTGATTCCCCGATCC-ATTGGTGGTTGCTAAGTGCTAATTCCACCGTATT
*
13395683 TTAAATGTGAAAGGGGGTTGCTAAGTGTTGATTCCCCCG
65 TTAAATGTGAAAGGGGGTTGCTAAGTGCTGATTCCCCCG
* * * *
13395722 AGGGGTTGCTAAGTGCTGATTCCCCGACCCATTTGGTGGTTGCTAAGTGCTGATTCCACCGCATC
1 AGGGGTTGCTAAGTGCTGATTCCCCGATCCA-TTGGTGGTTGCTAAGTGCTAATTCCACCGTATT
* *
13395787 TGAAATGTG-AAGGGGGTTGCTAAGTGCTGATTCCCCCA
65 TTAAATGTGAAAGGGGGTTGCTAAGTGCTGATTCCCCCG
** *
13395825 AGGGGTTGCTGTGTGCTGATTCCCCGATTCATTGGTGGTTGCTAAGTGCTGAA-TCCACC
1 AGGGGTTGCTAAGTGCTGATTCCCCGATCCATTGGTGGTTGCTAAGTGCT-AATTCCACC
13395884 AATAACGGTT
Statistics
Matches: 243, Mismatches: 18, Indels: 9
0.90 0.07 0.03
Matches are distributed among these distances:
102 26 0.11
103 176 0.72
104 41 0.17
ACGTcount: A:0.19, C:0.21, G:0.29, T:0.32
Consensus pattern (103 bp):
AGGGGTTGCTAAGTGCTGATTCCCCGATCCATTGGTGGTTGCTAAGTGCTAATTCCACCGTATTT
TAAATGTGAAAGGGGGTTGCTAAGTGCTGATTCCCCCG
Found at i:13398449 original size:98 final size:98
Alignment explanation
Indices: 13398277--13398471 Score: 336
Period size: 98 Copynumber: 2.0 Consensus size: 98
13398267 ACAATAAAAT
* * *
13398277 TTTAAAAGAACATCCACTTATCCAAGATTTAAGAAATCACGCCCAATATGTTAGGGCACGATTCC
1 TTTAAAAGAACATCCACTTATCCAAGATTTAAGAAATCACACCCAATACGTTAGGGCACAATTCC
*
13398342 TCTAGAATCCCAAACTCGGAATATTTCATTTAC
66 TCTAAAATCCCAAACTCGGAATATTTCATTTAC
13398375 TTTAAAAGAACATCCACTTATCCAAGATTTAAGAAATCACACCCAATACGTTAGGGCACAATTCC
1 TTTAAAAGAACATCCACTTATCCAAGATTTAAGAAATCACACCCAATACGTTAGGGCACAATTCC
* *
13398440 TTTAAAATCCCAAACTCGGAATATTTCTTTTA
66 TCTAAAATCCCAAACTCGGAATATTTCATTTA
13398472 TTGTTTTTAG
Statistics
Matches: 91, Mismatches: 6, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
98 91 1.00
ACGTcount: A:0.37, C:0.23, G:0.11, T:0.29
Consensus pattern (98 bp):
TTTAAAAGAACATCCACTTATCCAAGATTTAAGAAATCACACCCAATACGTTAGGGCACAATTCC
TCTAAAATCCCAAACTCGGAATATTTCATTTAC
Found at i:13399960 original size:19 final size:19
Alignment explanation
Indices: 13399936--13400067 Score: 201
Period size: 19 Copynumber: 6.8 Consensus size: 19
13399926 AATCATATAT
13399936 TCTAAGATTGCATATCATA
1 TCTAAGATTGCATATCATA
** *
13399955 TCTAAGATTATATATAATA
1 TCTAAGATTGCATATCATA
13399974 TCTAAGATTGCATATCATA
1 TCTAAGATTGCATATCATA
*
13399993 TTTAAGATTGCATATATCATA
1 TCTAAGATTGC--ATATCATA
13400014 TCTAAGATTGCATATCATA
1 TCTAAGATTGCATATCATA
*
13400033 TCTAGGATTGCATATCATA
1 TCTAAGATTGCATATCATA
13400052 TCTAAGATTGCATATC
1 TCTAAGATTGCATATC
13400068 CTCAAAAATT
Statistics
Matches: 101, Mismatches: 10, Indels: 4
0.88 0.09 0.03
Matches are distributed among these distances:
19 83 0.82
21 18 0.18
ACGTcount: A:0.37, C:0.14, G:0.11, T:0.39
Consensus pattern (19 bp):
TCTAAGATTGCATATCATA
Found at i:13400018 original size:59 final size:59
Alignment explanation
Indices: 13399932--13400066 Score: 202
Period size: 59 Copynumber: 2.3 Consensus size: 59
13399922 ACAAAATCAT
*
13399932 ATATTCTAAGATTGC--ATATCATATCTAAGATTATATATAATATCTAAGATTGCATATC
1 ATATT-TAAGATTGCATATATCATATCTAAGATTACATATAATATCTAAGATTGCATATC
* * *
13399990 ATATTTAAGATTGCATATATCATATCTAAGATTGCATATCATATCTAGGATTGCATATC
1 ATATTTAAGATTGCATATATCATATCTAAGATTACATATAATATCTAAGATTGCATATC
*
13400049 ATATCTAAGATTGCATAT
1 ATATTTAAGATTGCATAT
13400067 CCTCAAAAAT
Statistics
Matches: 70, Mismatches: 5, Indels: 3
0.90 0.06 0.04
Matches are distributed among these distances:
57 9 0.13
58 5 0.07
59 56 0.80
ACGTcount: A:0.38, C:0.13, G:0.10, T:0.39
Consensus pattern (59 bp):
ATATTTAAGATTGCATATATCATATCTAAGATTACATATAATATCTAAGATTGCATATC
Found at i:13413842 original size:125 final size:125
Alignment explanation
Indices: 13413620--13413957 Score: 631
Period size: 125 Copynumber: 2.7 Consensus size: 125
13413610 CGTCTCTGGT
* *
13413620 CAAATAGTATAAAATCGCTTCTACCAGGATGCTATTTGAGAAGAAATTGTGAAATCGCGCCCTCG
1 CAAATAGTATAAAATCGTTTCTACGAGGATGCTATTTGAGAAGAAATTGTGAAATCGCGCCCTCG
*
13413685 TGGACGCGATTTTGCTACAGTAGGTCATGTAAGAAATAATTTTTTTCTGATTTTTCTGAG
66 TGGACGCGATTTTGCTACAGTAGGTCATGTAAGAAATAATTTTTTTCTGATGTTTCTGAG
13413745 CAAATAGTATAAAATCGTTTCTACGAGGATGCTATTTGAGAAGAAATTGTGAAATCGCGCCCTCG
1 CAAATAGTATAAAATCGTTTCTACGAGGATGCTATTTGAGAAGAAATTGTGAAATCGCGCCCTCG
*
13413810 TGGATGCGATTTTGCTACAGTAGGTCATGTAAGAAATAATTTTTTTCTGATGTTTCTGAG
66 TGGACGCGATTTTGCTACAGTAGGTCATGTAAGAAATAATTTTTTTCTGATGTTTCTGAG
*
13413870 CAAATAGTACAAAATCGTTTCTACGAGGATGCTATTTGAGAAGAAATTGTGAAATCGCGCCCTCG
1 CAAATAGTATAAAATCGTTTCTACGAGGATGCTATTTGAGAAGAAATTGTGAAATCGCGCCCTCG
13413935 TGGACGCGATTTTGCTACAGTAG
66 TGGACGCGATTTTGCTACAGTAG
13413958 CAAGTTTGGG
Statistics
Matches: 207, Mismatches: 6, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
125 207 1.00
ACGTcount: A:0.30, C:0.16, G:0.22, T:0.32
Consensus pattern (125 bp):
CAAATAGTATAAAATCGTTTCTACGAGGATGCTATTTGAGAAGAAATTGTGAAATCGCGCCCTCG
TGGACGCGATTTTGCTACAGTAGGTCATGTAAGAAATAATTTTTTTCTGATGTTTCTGAG
Found at i:13417072 original size:10 final size:10
Alignment explanation
Indices: 13417057--13417081 Score: 50
Period size: 10 Copynumber: 2.5 Consensus size: 10
13417047 CAGATCTAAC
13417057 ATTATGTAAA
1 ATTATGTAAA
13417067 ATTATGTAAA
1 ATTATGTAAA
13417077 ATTAT
1 ATTAT
13417082 TAAGCCAAAA
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:0.48, C:0.00, G:0.08, T:0.44
Consensus pattern (10 bp):
ATTATGTAAA
Found at i:13417209 original size:25 final size:25
Alignment explanation
Indices: 13417177--13417257 Score: 144
Period size: 25 Copynumber: 3.2 Consensus size: 25
13417167 TAAAGTGTTC
13417177 AAAATATGTAAAATTATTAAGCCAA
1 AAAATATGTAAAATTATTAAGCCAA
*
13417202 AAAATATGTAAAATTATTAAACCAAA
1 AAAATATGTAAAATTATTAAGCC-AA
13417228 AAAATATGTAAAATTATTAAGCCAA
1 AAAATATGTAAAATTATTAAGCCAA
13417253 AAAAT
1 AAAAT
13417258 TTAGGTTAGT
Statistics
Matches: 53, Mismatches: 2, Indels: 2
0.93 0.04 0.04
Matches are distributed among these distances:
25 29 0.55
26 24 0.45
ACGTcount: A:0.59, C:0.07, G:0.06, T:0.27
Consensus pattern (25 bp):
AAAATATGTAAAATTATTAAGCCAA
Found at i:13417236 original size:26 final size:26
Alignment explanation
Indices: 13417177--13417256 Score: 144
Period size: 26 Copynumber: 3.1 Consensus size: 26
13417167 TAAAGTGTTC
13417177 AAAATATGTAAAATTATTAAGCC-AA
1 AAAATATGTAAAATTATTAAGCCAAA
*
13417202 AAAATATGTAAAATTATTAAACCAAA
1 AAAATATGTAAAATTATTAAGCCAAA
13417228 AAAATATGTAAAATTATTAAGCCAAA
1 AAAATATGTAAAATTATTAAGCCAAA
13417254 AAA
1 AAA
13417257 TTTAGGTTAG
Statistics
Matches: 52, Mismatches: 2, Indels: 1
0.95 0.04 0.02
Matches are distributed among these distances:
25 22 0.42
26 30 0.58
ACGTcount: A:0.60, C:0.07, G:0.06, T:0.26
Consensus pattern (26 bp):
AAAATATGTAAAATTATTAAGCCAAA
Found at i:13417855 original size:254 final size:253
Alignment explanation
Indices: 13417255--13418425 Score: 1889
Period size: 254 Copynumber: 4.6 Consensus size: 253
13417245 TAAGCCAAAA
* * * *
13417255 AATTTAGGTTAGTTTAGGGTTTTTAGTTAATTTAGCTTAGATTAGGGTTTTTAATTAATTTAGGT
1 AATTTAGATTAGATTAGGGTTTTTAATTAATTTAGGTTAGATTAGGGTTTTTAATTAATTTAGGT
* * *
13417320 TAGGTTTAGGGTTTTTTGTTAATTTAGGTTAGGTTTAGGG-TTTTAATTAATTTAGGTTAGGTTT
66 TA-GATTAGGGTTTTTAGTTAATTTAGGTTAGGTTTAGGGTTTTTAATTAATTTAGGTTA-GATT
** * * *
13417384 AGGGTTTTTTGTTAATTTAGGTTAGGTTTAGGGTTTTTAATTAATTTAAGTTAGATTAGGATTTT
129 AGGGTTTTTAATTAATTTAGGTTA-GATTAGGGTTTTTAATTAATTTAGGTTAGATTAGGGTTTT
* *
13417449 TAATTAATTTAGGTTAGATTAGGGTTTTTAATTAATTTAGGTTAGATTAGGGTTTTTAGTT
193 TAGTTAATTTAGGTTAGATTAGGGTTTTTAATTAATTTAGGTTAGATTAGGGTTTTTAATT
*
13417510 AATTTAGGTTAGATTAGGGTTTTTAATTAATTTAGGTTAGATTAGGGTTTTTAATTAATTTAGGT
1 AATTTAGATTAGATTAGGGTTTTTAATTAATTTAGGTTAGATTAGGGTTTTTAATTAATTTAGGT
* *
13417575 TAGATTAGGGTTTTTAGTTAATTTAGGTTA-GATTAGGGTTTTTAGTTAATTTAGGTTAGATTAG
66 TAGATTAGGGTTTTTAGTTAATTTAGGTTAGGTTTAGGGTTTTTAATTAATTTAGGTTAGATTAG
*
13417639 GGTTTTTAATTAATTTAGGTTAGATTAGGGTTTTTAATTAATTTAGGTTAGGTTTAGGGTTTTTA
131 GGTTTTTAATTAATTTAGGTTAGATTAGGGTTTTTAATTAATTTAGGTTA-GATTAGGGTTTTTA
*
13417704 GTTAATTTAGGTTAGATTAGGGTTTTTAATTAATTTAGGTTAGATTAAGGTTTTTAATT
195 GTTAATTTAGGTTAGATTAGGGTTTTTAATTAATTTAGGTTAGATTAGGGTTTTTAATT
* *
13417763 AATTTAGATTAGATTAGGGTTTTTAATTAATTTAGGTTAGGTTTAGGGTTTTTAGTTAATTTAGG
1 AATTTAGATTAGATTAGGGTTTTTAATTAATTTAGGTTA-GATTAGGGTTTTTAATTAATTTAGG
*
13417828 TTAGATTAGGGTTTTTAATTAATTTAGGTTAGGTTTAGGGTTTTTAATTAATTTAGGTTAGATTA
65 TTAGATTAGGGTTTTTAGTTAATTTAGGTTAGGTTTAGGGTTTTTAATTAATTTAGGTTAGATTA
* * * *
13417893 TGGCTTTTAATTAATTTAGGTTAAATTAGGGTTTTTAGTTAATTTAGGTTAGATTAGGGTTTTTA
130 GGGTTTTTAATTAATTTAGGTTAGATTAGGGTTTTTAATTAATTTAGGTTAGATTAGGGTTTTTA
13417958 GTTAATTTAGGTTAGATTAGGGTTTTTAATTAATTTAGGTTAGATTAGGGTTTTTAATT
195 GTTAATTTAGGTTAGATTAGGGTTTTTAATTAATTTAGGTTAGATTAGGGTTTTTAATT
* *
13418017 AATTTAGATTAGATTAGGGTTTTTAATTAATTTAGGTTAGGTTTAGGGTTTTTAGTTAATTTAGG
1 AATTTAGATTAGATTAGGGTTTTTAATTAATTTAGGTTA-GATTAGGGTTTTTAATTAATTTAGG
*
13418082 TTAGATTAGGGTTTTTAATTAATTTAGGTTAGGTTTAGGGTTTTTAATTAATTTAGGTTAGATTA
65 TTAGATTAGGGTTTTTAGTTAATTTAGGTTAGGTTTAGGGTTTTTAATTAATTTAGGTTAGATTA
* * * * *
13418147 TGGCTTTTAATTAATTTAGGTTAAATTAGGGTTTTTAGTTAATTTAGGTTAGATTAGAGTTTTTA
130 GGGTTTTTAATTAATTTAGGTTAGATTAGGGTTTTTAATTAATTTAGGTTAGATTAGGGTTTTTA
13418212 GTTAATTTAGGTTAGATTAGGGTTTTTAATTAATTTAGGTTAGATTAGGGTTTTTAATT
195 GTTAATTTAGGTTAGATTAGGGTTTTTAATTAATTTAGGTTAGATTAGGGTTTTTAATT
*
13418271 AATTTA-AGTTAGATTAGGGTTTTTAATTAATTTAGGTTAGATTAGGGTTTTTAATTAAATTAGG
1 AATTTAGA-TTAGATTAGGGTTTTTAATTAATTTAGGTTAGATTAGGGTTTTTAATTAATTTAGG
* * *
13418335 TTAGGTTTAGGGTTTTTAGTTAATTTAGGTTAGGTTTAGGGTTTTTAATTAATTTAGGCTAGGTT
65 TTA-GATTAGGGTTTTTAGTTAATTTAGGTTAGGTTTAGGGTTTTTAATTAATTTAGGTTA-GAT
*
13418400 TAAGGTTTTTAATTAATTTAGGTTAG
128 TAGGGTTTTTAATTAATTTAGGTTAG
13418426 GGTTAGGTTA
Statistics
Matches: 869, Mismatches: 40, Indels: 14
0.94 0.04 0.02
Matches are distributed among these distances:
252 26 0.03
253 164 0.19
254 512 0.59
255 167 0.19
ACGTcount: A:0.27, C:0.00, G:0.22, T:0.50
Consensus pattern (253 bp):
AATTTAGATTAGATTAGGGTTTTTAATTAATTTAGGTTAGATTAGGGTTTTTAATTAATTTAGGT
TAGATTAGGGTTTTTAGTTAATTTAGGTTAGGTTTAGGGTTTTTAATTAATTTAGGTTAGATTAG
GGTTTTTAATTAATTTAGGTTAGATTAGGGTTTTTAATTAATTTAGGTTAGATTAGGGTTTTTAG
TTAATTTAGGTTAGATTAGGGTTTTTAATTAATTTAGGTTAGATTAGGGTTTTTAATT
Found at i:13418434 original size:28 final size:28
Alignment explanation
Indices: 13417255--13418425 Score: 1813
Period size: 28 Copynumber: 41.4 Consensus size: 28
13417245 TAAGCCAAAA
* *
13417255 AATTTAGGTTAGTTTAGGGTTTTTAGTT
1 AATTTAGGTTAGATTAGGGTTTTTAATT
*
13417283 AATTTAGCTTAGATTAGGGTTTTTAATT
1 AATTTAGGTTAGATTAGGGTTTTTAATT
* **
13417311 AATTTAGGTTAGGTTTAGGGTTTTTTGTT
1 AATTTAGGTTA-GATTAGGGTTTTTAATT
*
13417340 AATTTAGGTTAGGTTTAGGG-TTTTAATT
1 AATTTAGGTTA-GATTAGGGTTTTTAATT
* **
13417368 AATTTAGGTTAGGTTTAGGGTTTTTTGTT
1 AATTTAGGTTA-GATTAGGGTTTTTAATT
*
13417397 AATTTAGGTTAGGTTTAGGGTTTTTAATT
1 AATTTAGGTTA-GATTAGGGTTTTTAATT
* *
13417426 AATTTAAGTTAGATTAGGATTTTTAATT
1 AATTTAGGTTAGATTAGGGTTTTTAATT
13417454 AATTTAGGTTAGATTAGGGTTTTTAATT
1 AATTTAGGTTAGATTAGGGTTTTTAATT
*
13417482 AATTTAGGTTAGATTAGGGTTTTTAGTT
1 AATTTAGGTTAGATTAGGGTTTTTAATT
13417510 AATTTAGGTTAGATTAGGGTTTTTAATT
1 AATTTAGGTTAGATTAGGGTTTTTAATT
13417538 AATTTAGGTTAGATTAGGGTTTTTAATT
1 AATTTAGGTTAGATTAGGGTTTTTAATT
*
13417566 AATTTAGGTTAGATTAGGGTTTTTAGTT
1 AATTTAGGTTAGATTAGGGTTTTTAATT
*
13417594 AATTTAGGTTAGATTAGGGTTTTTAGTT
1 AATTTAGGTTAGATTAGGGTTTTTAATT
13417622 AATTTAGGTTAGATTAGGGTTTTTAATT
1 AATTTAGGTTAGATTAGGGTTTTTAATT
13417650 AATTTAGGTTAGATTAGGGTTTTTAATT
1 AATTTAGGTTAGATTAGGGTTTTTAATT
* *
13417678 AATTTAGGTTAGGTTTAGGGTTTTTAGTT
1 AATTTAGGTTA-GATTAGGGTTTTTAATT
13417707 AATTTAGGTTAGATTAGGGTTTTTAATT
1 AATTTAGGTTAGATTAGGGTTTTTAATT
*
13417735 AATTTAGGTTAGATTAAGGTTTTTAATT
1 AATTTAGGTTAGATTAGGGTTTTTAATT
*
13417763 AATTTAGATTAGATTAGGGTTTTTAATT
1 AATTTAGGTTAGATTAGGGTTTTTAATT
* *
13417791 AATTTAGGTTAGGTTTAGGGTTTTTAGTT
1 AATTTAGGTTA-GATTAGGGTTTTTAATT
13417820 AATTTAGGTTAGATTAGGGTTTTTAATT
1 AATTTAGGTTAGATTAGGGTTTTTAATT
*
13417848 AATTTAGGTTAGGTTTAGGGTTTTTAATT
1 AATTTAGGTTA-GATTAGGGTTTTTAATT
* *
13417877 AATTTAGGTTAGATTATGGCTTTTAATT
1 AATTTAGGTTAGATTAGGGTTTTTAATT
* *
13417905 AATTTAGGTTAAATTAGGGTTTTTAGTT
1 AATTTAGGTTAGATTAGGGTTTTTAATT
*
13417933 AATTTAGGTTAGATTAGGGTTTTTAGTT
1 AATTTAGGTTAGATTAGGGTTTTTAATT
13417961 AATTTAGGTTAGATTAGGGTTTTTAATT
1 AATTTAGGTTAGATTAGGGTTTTTAATT
13417989 AATTTAGGTTAGATTAGGGTTTTTAATT
1 AATTTAGGTTAGATTAGGGTTTTTAATT
*
13418017 AATTTAGATTAGATTAGGGTTTTTAATT
1 AATTTAGGTTAGATTAGGGTTTTTAATT
* *
13418045 AATTTAGGTTAGGTTTAGGGTTTTTAGTT
1 AATTTAGGTTA-GATTAGGGTTTTTAATT
13418074 AATTTAGGTTAGATTAGGGTTTTTAATT
1 AATTTAGGTTAGATTAGGGTTTTTAATT
*
13418102 AATTTAGGTTAGGTTTAGGGTTTTTAATT
1 AATTTAGGTTA-GATTAGGGTTTTTAATT
* *
13418131 AATTTAGGTTAGATTATGGCTTTTAATT
1 AATTTAGGTTAGATTAGGGTTTTTAATT
* *
13418159 AATTTAGGTTAAATTAGGGTTTTTAGTT
1 AATTTAGGTTAGATTAGGGTTTTTAATT
* *
13418187 AATTTAGGTTAGATTAGAGTTTTTAGTT
1 AATTTAGGTTAGATTAGGGTTTTTAATT
13418215 AATTTAGGTTAGATTAGGGTTTTTAATT
1 AATTTAGGTTAGATTAGGGTTTTTAATT
13418243 AATTTAGGTTAGATTAGGGTTTTTAATT
1 AATTTAGGTTAGATTAGGGTTTTTAATT
*
13418271 AATTTAAGTTAGATTAGGGTTTTTAATT
1 AATTTAGGTTAGATTAGGGTTTTTAATT
13418299 AATTTAGGTTAGATTAGGGTTTTTAATT
1 AATTTAGGTTAGATTAGGGTTTTTAATT
* * *
13418327 AAATTAGGTTAGGTTTAGGGTTTTTAGTT
1 AATTTAGGTTA-GATTAGGGTTTTTAATT
*
13418356 AATTTAGGTTAGGTTTAGGGTTTTTAATT
1 AATTTAGGTTA-GATTAGGGTTTTTAATT
* * *
13418385 AATTTAGGCTAGGTTTAAGGTTTTTAATT
1 AATTTAGGTTA-GATTAGGGTTTTTAATT
13418414 AATTTAGGTTAG
1 AATTTAGGTTAG
13418426 GGTTAGGTTA
Statistics
Matches: 1063, Mismatches: 72, Indels: 16
0.92 0.06 0.01
Matches are distributed among these distances:
28 775 0.73
29 288 0.27
ACGTcount: A:0.27, C:0.00, G:0.22, T:0.50
Consensus pattern (28 bp):
AATTTAGGTTAGATTAGGGTTTTTAATT
Found at i:13418695 original size:24 final size:24
Alignment explanation
Indices: 13418662--13418717 Score: 76
Period size: 24 Copynumber: 2.3 Consensus size: 24
13418652 GGCGGCGATT
*
13418662 GTTCTTCCTCCGATGGTGATTGTG
1 GTTCTTCCTCCGATGATGATTGTG
* * *
13418686 GTTTTTCCTCCGGTGATGGTTGTG
1 GTTCTTCCTCCGATGATGATTGTG
13418710 GTTCTTCC
1 GTTCTTCC
13418718 GGTTCGGCAT
Statistics
Matches: 27, Mismatches: 5, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
24 27 1.00
ACGTcount: A:0.05, C:0.21, G:0.29, T:0.45
Consensus pattern (24 bp):
GTTCTTCCTCCGATGATGATTGTG
Found at i:13420805 original size:29 final size:29
Alignment explanation
Indices: 13420763--13420825 Score: 90
Period size: 29 Copynumber: 2.2 Consensus size: 29
13420753 GCCATTGATG
* *
13420763 AAAATATAAAAAAATTTAAAATTATTTTA
1 AAAAAATAAAAAAAATTAAAATTATTTTA
* *
13420792 AAAAAATATAAAAAATTATAATTATTTTA
1 AAAAAATAAAAAAAATTAAAATTATTTTA
13420821 AAAAA
1 AAAAA
13420826 TGGATTTGAG
Statistics
Matches: 30, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
29 30 1.00
ACGTcount: A:0.65, C:0.00, G:0.00, T:0.35
Consensus pattern (29 bp):
AAAAAATAAAAAAAATTAAAATTATTTTA
Found at i:13420896 original size:22 final size:22
Alignment explanation
Indices: 13420871--13420921 Score: 84
Period size: 22 Copynumber: 2.3 Consensus size: 22
13420861 AAATATGGGT
* *
13420871 TTGAGAGAATTTTGGAATGAAA
1 TTGAGAGAAATTTGGAAGGAAA
13420893 TTGAGAGAAATTTGGAAGGAAA
1 TTGAGAGAAATTTGGAAGGAAA
13420915 TTGAGAG
1 TTGAGAG
13420922 GATTAGAGAG
Statistics
Matches: 27, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
22 27 1.00
ACGTcount: A:0.41, C:0.00, G:0.31, T:0.27
Consensus pattern (22 bp):
TTGAGAGAAATTTGGAAGGAAA
Found at i:13421166 original size:29 final size:26
Alignment explanation
Indices: 13421125--13421183 Score: 64
Period size: 29 Copynumber: 2.2 Consensus size: 26
13421115 GATTTCCCGG
13421125 AAAATGGACCATTCCGGTAAATAATTAA
1 AAAATGGACCATTCCGGT-AA-AATTAA
* * *
13421153 AAAATTGGCCCATTTCTGTAAAATTAA
1 AAAA-TGGACCATTCCGGTAAAATTAA
13421180 AAAA
1 AAAA
13421184 AAAGAGCTTT
Statistics
Matches: 27, Mismatches: 3, Indels: 3
0.82 0.09 0.09
Matches are distributed among these distances:
27 10 0.37
28 6 0.22
29 11 0.41
ACGTcount: A:0.47, C:0.14, G:0.12, T:0.27
Consensus pattern (26 bp):
AAAATGGACCATTCCGGTAAAATTAA
Found at i:13427975 original size:28 final size:28
Alignment explanation
Indices: 13427933--13427990 Score: 98
Period size: 28 Copynumber: 2.1 Consensus size: 28
13427923 CTAGACTATC
13427933 TGTTGCTTGGATAGTCATCTCAGGAGGA
1 TGTTGCTTGGATAGTCATCTCAGGAGGA
* *
13427961 TGTTGCTTGGTTAGTCATCTCGGGAGGA
1 TGTTGCTTGGATAGTCATCTCAGGAGGA
13427989 TG
1 TG
13427991 AGCTCACAGG
Statistics
Matches: 28, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
28 28 1.00
ACGTcount: A:0.17, C:0.14, G:0.34, T:0.34
Consensus pattern (28 bp):
TGTTGCTTGGATAGTCATCTCAGGAGGA
Found at i:13429741 original size:123 final size:124
Alignment explanation
Indices: 13429517--13429767 Score: 396
Period size: 123 Copynumber: 2.0 Consensus size: 124
13429507 TTAGGGTTTT
* * * *
13429517 TAGGTCCTGGAAGAAATAATTTTGAGTTGACGTTTCTGATCAAATAGTATAAAATTGCTTCTAGC
1 TAGGTCATGGAAGAAATAATTTT-AGTTGACGTTTCTGAGCAAATAATATAAAATTGCTTCTAAC
* * *
13429582 AGGATGCTATTTGAGAAGAATTTGTGAAATCGCGCCCTCGTAGACGCGTTTTTGCTACAG
65 AGGATGCTATTTGAGAAGAATTTGTAAAATCACGCCCTCGTAGACGCGCTTTTGCTACAG
* *
13429642 TAGGTCATGGAAGAAATAATTTT-TTTTACGTTTCTGAGCAAATAATATAAAATTGCTTCTAACA
1 TAGGTCATGGAAGAAATAATTTTAGTTGACGTTTCTGAGCAAATAATATAAAATTGCTTCTAACA
*
13429706 GGATGCTATTTGAGAAGAATTTGTAAAATCACGCCCTCGTGGACGCGCTTTTGCTACAG
66 GGATGCTATTTGAGAAGAATTTGTAAAATCACGCCCTCGTAGACGCGCTTTTGCTACAG
13429765 TAG
1 TAG
13429768 CATGTTTAGG
Statistics
Matches: 116, Mismatches: 10, Indels: 2
0.91 0.08 0.02
Matches are distributed among these distances:
123 94 0.81
125 22 0.19
ACGTcount: A:0.30, C:0.15, G:0.22, T:0.33
Consensus pattern (124 bp):
TAGGTCATGGAAGAAATAATTTTAGTTGACGTTTCTGAGCAAATAATATAAAATTGCTTCTAACA
GGATGCTATTTGAGAAGAATTTGTAAAATCACGCCCTCGTAGACGCGCTTTTGCTACAG
Found at i:13430674 original size:24 final size:24
Alignment explanation
Indices: 13430640--13430695 Score: 85
Period size: 24 Copynumber: 2.3 Consensus size: 24
13430630 CTGAAATGAG
13430640 TTCAGATGAAGAAGAAAATCCACGA
1 TTCAGA-GAAGAAGAAAATCCACGA
*
13430665 TTCAGAGAAGAAGAAAATTCACGA
1 TTCAGAGAAGAAGAAAATCCACGA
*
13430689 TTTAGAG
1 TTCAGAG
13430696 CATACTCACC
Statistics
Matches: 29, Mismatches: 2, Indels: 1
0.91 0.06 0.03
Matches are distributed among these distances:
24 23 0.79
25 6 0.21
ACGTcount: A:0.46, C:0.12, G:0.21, T:0.20
Consensus pattern (24 bp):
TTCAGAGAAGAAGAAAATCCACGA
Found at i:13432527 original size:33 final size:33
Alignment explanation
Indices: 13432458--13432554 Score: 106
Period size: 33 Copynumber: 2.8 Consensus size: 33
13432448 CTATACCCAT
* * *
13432458 CTATGCCGAATGCATAGATACATACACTTATTTTCAC
1 CTATGCCGAATGCAT--ACACATA-A-ATATATTCAC
13432495 CTATGCCGAATGCATACACATAAATATATTCAC
1 CTATGCCGAATGCATACACATAAATATATTCAC
* *
13432528 CTATGCCGAATGCA-ACATATATATATA
1 CTATGCCGAATGCATACACATAAATATA
13432555 CATATCTATC
Statistics
Matches: 55, Mismatches: 5, Indels: 5
0.85 0.08 0.08
Matches are distributed among these distances:
32 11 0.20
33 22 0.40
34 1 0.02
35 6 0.11
37 15 0.27
ACGTcount: A:0.37, C:0.23, G:0.10, T:0.30
Consensus pattern (33 bp):
CTATGCCGAATGCATACACATAAATATATTCAC
Found at i:13432813 original size:41 final size:41
Alignment explanation
Indices: 13432768--13432923 Score: 235
Period size: 41 Copynumber: 3.8 Consensus size: 41
13432758 ACCGGCTCTT
*
13432768 AGCCTGCTAGACTTATAGTCCGAAATGTGTCACCGGCATTA
1 AGCCTGCTAGACTTATAGTCTGAAATGTGTCACCGGCATTA
13432809 AGCCTGCTAGACTTATAGTCTGAAATGTGTCACCGGCATTA
1 AGCCTGCTAGACTTATAGTCTGAAATGTGTCACCGGCATTA
13432850 AGCCTGCTAGACTTATAGTCTGAATAAT-T-TCACCGGCATTA
1 AGCCTGCTAGACTTATAGTCTG-A-AATGTGTCACCGGCATTA
* * * *
13432891 AGCCTGCTAGACGTAAAGTCTGAATTATGTCAC
1 AGCCTGCTAGACTTATAGTCTGAAATGTGTCAC
13432924 TAACGATAAA
Statistics
Matches: 107, Mismatches: 4, Indels: 8
0.90 0.03 0.07
Matches are distributed among these distances:
39 2 0.02
40 2 0.02
41 98 0.92
42 2 0.02
43 3 0.03
ACGTcount: A:0.28, C:0.22, G:0.21, T:0.29
Consensus pattern (41 bp):
AGCCTGCTAGACTTATAGTCTGAAATGTGTCACCGGCATTA
Found at i:13440160 original size:33 final size:33
Alignment explanation
Indices: 13440091--13440187 Score: 106
Period size: 33 Copynumber: 2.8 Consensus size: 33
13440081 CTATACCCAT
* * *
13440091 CTATGCCGAATGCATAGATACATACACTTATTTTCAC
1 CTATGCCGAATGCAT--ACACATA-A-ATATATTCAC
13440128 CTATGCCGAATGCATACACATAAATATATTCAC
1 CTATGCCGAATGCATACACATAAATATATTCAC
* *
13440161 CTATGCCGAATGCA-ACATATATATATA
1 CTATGCCGAATGCATACACATAAATATA
13440188 CATATCTATC
Statistics
Matches: 55, Mismatches: 5, Indels: 5
0.85 0.08 0.08
Matches are distributed among these distances:
32 11 0.20
33 22 0.40
34 1 0.02
35 6 0.11
37 15 0.27
ACGTcount: A:0.37, C:0.23, G:0.10, T:0.30
Consensus pattern (33 bp):
CTATGCCGAATGCATACACATAAATATATTCAC
Found at i:13440446 original size:41 final size:41
Alignment explanation
Indices: 13440401--13440556 Score: 235
Period size: 41 Copynumber: 3.8 Consensus size: 41
13440391 ACCGGCTCTT
*
13440401 AGCCTGCTAGACTTATAGTCCGAAATGTGTCACCGGCATTA
1 AGCCTGCTAGACTTATAGTCTGAAATGTGTCACCGGCATTA
13440442 AGCCTGCTAGACTTATAGTCTGAAATGTGTCACCGGCATTA
1 AGCCTGCTAGACTTATAGTCTGAAATGTGTCACCGGCATTA
13440483 AGCCTGCTAGACTTATAGTCTGAATAAT-T-TCACCGGCATTA
1 AGCCTGCTAGACTTATAGTCTG-A-AATGTGTCACCGGCATTA
* * * *
13440524 AGCCTGCTAGACGTAAAGTCTGAATTATGTCAC
1 AGCCTGCTAGACTTATAGTCTGAAATGTGTCAC
13440557 TAACGATAAA
Statistics
Matches: 107, Mismatches: 4, Indels: 8
0.90 0.03 0.07
Matches are distributed among these distances:
39 2 0.02
40 2 0.02
41 98 0.92
42 2 0.02
43 3 0.03
ACGTcount: A:0.28, C:0.22, G:0.21, T:0.29
Consensus pattern (41 bp):
AGCCTGCTAGACTTATAGTCTGAAATGTGTCACCGGCATTA
Found at i:13442557 original size:18 final size:18
Alignment explanation
Indices: 13442534--13442571 Score: 76
Period size: 18 Copynumber: 2.1 Consensus size: 18
13442524 TATGACATCG
13442534 AACCTGGCTGAATGCATA
1 AACCTGGCTGAATGCATA
13442552 AACCTGGCTGAATGCATA
1 AACCTGGCTGAATGCATA
13442570 AA
1 AA
13442572 TTCTGTTCTT
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
18 20 1.00
ACGTcount: A:0.37, C:0.21, G:0.21, T:0.21
Consensus pattern (18 bp):
AACCTGGCTGAATGCATA
Found at i:13443545 original size:23 final size:23
Alignment explanation
Indices: 13443490--13443954 Score: 420
Period size: 23 Copynumber: 20.9 Consensus size: 23
13443480 GAATATTAAG
13443490 GGTTAGGGTTTTTAAG-T--TTA
1 GGTTAGGGTTTTTAAGTTAATTA
* *
13443510 GGGTTAGGATTTTTAATTTAATTA
1 -GGTTAGGGTTTTTAAGTTAATTA
* *
13443534 GGTTATGGTTTTTAAGTTAA--G
1 GGTTAGGGTTTTTAAGTTAATTA
*
13443555 GGTTAGGGTTTTTAACTTAA--A
1 GGTTAGGGTTTTTAAGTTAATTA
*
13443576 GGTTAGGGTTTTTAATTTAATTA
1 GGTTAGGGTTTTTAAGTTAATTA
* *
13443599 GTTTAGGGTTTTTAATTTAATTA
1 GGTTAGGGTTTTTAAGTTAATTA
* *
13443622 GGTTAGAGTTTTTAAGTTAA--G
1 GGTTAGGGTTTTTAAGTTAATTA
* *
13443643 GGTTAGGGTTTCTAAGTTAA--G
1 GGTTAGGGTTTTTAAGTTAATTA
* *
13443664 GGTTTAGGGTTTCTAAGTTAA--G
1 GG-TTAGGGTTTTTAAGTTAATTA
*
13443686 GGTTTAGGGTTTCTAAGTTAATTA
1 GG-TTAGGGTTTTTAAGTTAATTA
* * *
13443710 GGCTAAGGTTTTTAATTTAATTA
1 GGTTAGGGTTTTTAAGTTAATTA
* *
13443733 GGTTAGAGTTTTTAAGTTAA--G
1 GGTTAGGGTTTTTAAGTTAATTA
*
13443754 GGTTTAGGG-TTTTAAATTAAATTA
1 GG-TTAGGGTTTTTAAGTT-AATTA
*
13443778 GGTTAGGGTTTTTAATTTAATTA
1 GGTTAGGGTTTTTAAGTTAATTA
*
13443801 GGTTAGGGTTTTTAAGTTAA--G
1 GGTTAGGGTTTTTAAGTTAATTA
13443822 GGTTTAGGGTTTTTAA-TTAAATTA
1 GG-TTAGGGTTTTTAAGTT-AATTA
*
13443846 GGTTAGGGTTTTTAAGTTAA--G
1 GGTTAGGGTTTTTAAGTTAATTA
* *
13443867 GGTTAGGATTTTTAATTTAATTA
1 GGTTAGGGTTTTTAAGTTAATTA
*
13443890 GGTTAGGGTTTTTAAGTTAA--G
1 GGTTAGGGTTTTTAAGTTAATTA
*
13443911 GGTTTAAGGTTTTTAA-TTAAATTA
1 GG-TTAGGGTTTTTAAGTT-AATTA
*
13443935 GGTTAGAGTTTTTAAGTTAA
1 GGTTAGGGTTTTTAAGTTAA
13443955 GGGTATTAAT
Statistics
Matches: 374, Mismatches: 45, Indels: 48
0.80 0.10 0.10
Matches are distributed among these distances:
21 108 0.29
22 77 0.21
23 166 0.44
24 23 0.06
ACGTcount: A:0.27, C:0.01, G:0.25, T:0.47
Consensus pattern (23 bp):
GGTTAGGGTTTTTAAGTTAATTA
Found at i:13443829 original size:45 final size:44
Alignment explanation
Indices: 13443490--13443958 Score: 529
Period size: 44 Copynumber: 10.5 Consensus size: 44
13443480 GAATATTAAG
* *
13443490 GGTTAGGGTTTTTAAGTTTAGGGTTAGGATTTTTAATTTAATTA
1 GGTTAGGGTTTTTAAGTTAAGGGTTAGGGTTTTTAATTTAATTA
* *
13443534 GGTTATGGTTTTTAAGTTAAGGGTTAGGGTTTTTAACTTAA--A
1 GGTTAGGGTTTTTAAGTTAAGGGTTAGGGTTTTTAATTTAATTA
* * *
13443576 GGTTAGGGTTTTTAATTTAATTAGTTTAGGGTTTTTAATTTAATTA
1 GGTTAGGGTTTTTAAGTTAA--GGGTTAGGGTTTTTAATTTAATTA
* * * *
13443622 GGTTAGAGTTTTTAAGTTAAGGGTTAGGGTTTCTAAGTTAA--G
1 GGTTAGGGTTTTTAAGTTAAGGGTTAGGGTTTTTAATTTAATTA
* * *
13443664 GGTTTAGGGTTTCTAAGTTAAGGGTTTAGGGTTTCTAAGTTAATTA
1 GG-TTAGGGTTTTTAAGTTAAGGG-TTAGGGTTTTTAATTTAATTA
* * * * * * *
13443710 GGCTAAGGTTTTTAATTTAATTAGGTTAGAGTTTTTAAGTTAA--G
1 GGTTAGGGTTTTTAAGTTAA--GGGTTAGGGTTTTTAATTTAATTA
* *
13443754 GGTTTAGGG-TTTTAAATTAAATTAGGTTAGGGTTTTTAATTTAATTA
1 GG-TTAGGGTTTTTAAGTT-AA--GGGTTAGGGTTTTTAATTTAATTA
*
13443801 GGTTAGGGTTTTTAAGTTAAGGGTTTAGGGTTTTTAATTAAATTA
1 GGTTAGGGTTTTTAAGTTAAGGG-TTAGGGTTTTTAATTTAATTA
*
13443846 GGTTAGGGTTTTTAAGTTAAGGGTTAGGATTTTTAATTTAATTA
1 GGTTAGGGTTTTTAAGTTAAGGGTTAGGGTTTTTAATTTAATTA
* *
13443890 GGTTAGGGTTTTTAAGTTAAGGGTTTAAGGTTTTTAATTAAATTA
1 GGTTAGGGTTTTTAAGTTAAGGG-TTAGGGTTTTTAATTTAATTA
*
13443935 GGTTAGAGTTTTTAAGTTAAGGGT
1 GGTTAGGGTTTTTAAGTTAAGGGT
13443959 ATTAATGGTT
Statistics
Matches: 366, Mismatches: 42, Indels: 34
0.83 0.10 0.08
Matches are distributed among these distances:
42 21 0.06
43 19 0.05
44 145 0.40
45 124 0.34
46 45 0.12
47 12 0.03
ACGTcount: A:0.27, C:0.01, G:0.25, T:0.47
Consensus pattern (44 bp):
GGTTAGGGTTTTTAAGTTAAGGGTTAGGGTTTTTAATTTAATTA
Found at i:13444044 original size:25 final size:25
Alignment explanation
Indices: 13444015--13444132 Score: 111
Period size: 25 Copynumber: 4.9 Consensus size: 25
13444005 ATTCAAAAAT
13444015 TTCTATTTTATTACATCAAATAAAC
1 TTCTATTTTATTACATCAAATAAAC
*
13444040 TTCTATTTTATTATATCAAAT-AAC
1 TTCTATTTTATTACATCAAATAAAC
* ** * * * **
13444064 ATC-A--AAATAACTTTAAA-AATT
1 TTCTATTTTATTACATCAAATAAAC
13444085 TTCTATTTTATTACATCAAATAAAC
1 TTCTATTTTATTACATCAAATAAAC
*
13444110 TTCTATTTTATTACGTCAAATAA
1 TTCTATTTTATTACATCAAATAA
13444133 TATCAAAATA
Statistics
Matches: 69, Mismatches: 19, Indels: 10
0.70 0.19 0.10
Matches are distributed among these distances:
21 10 0.14
22 1 0.01
23 1 0.01
24 13 0.19
25 44 0.64
ACGTcount: A:0.42, C:0.14, G:0.01, T:0.44
Consensus pattern (25 bp):
TTCTATTTTATTACATCAAATAAAC
Found at i:13444066 original size:35 final size:35
Alignment explanation
Indices: 13444027--13444139 Score: 88
Period size: 35 Copynumber: 3.2 Consensus size: 35
13444017 CTATTTTATT
13444027 ACATCAAATAAACTTCTATTTTATTATATCAAATA
1 ACATCAAATAAACTTCTATTTTATTATATCAAATA
** * *** *
13444062 ACATCAAA-ATAACTT-TAAAAATT-TTCTATTTTATT
1 ACATCAAATA-AACTTCT--ATTTTATTATATCAAATA
**
13444097 ACATCAAATAAACTTCTATTTTATTACGTCAAATA
1 ACATCAAATAAACTTCTATTTTATTATATCAAATA
*
13444132 ATATCAAA
1 ACATCAAA
13444140 ATATTTGTAC
Statistics
Matches: 55, Mismatches: 17, Indels: 12
0.65 0.20 0.14
Matches are distributed among these distances:
34 5 0.09
35 45 0.82
36 5 0.09
ACGTcount: A:0.45, C:0.14, G:0.01, T:0.40
Consensus pattern (35 bp):
ACATCAAATAAACTTCTATTTTATTATATCAAATA
Found at i:13444100 original size:70 final size:69
Alignment explanation
Indices: 13444009--13444142 Score: 232
Period size: 70 Copynumber: 1.9 Consensus size: 69
13443999 CAAAATATTC
*
13444009 AAAAATTTCTATTTTATTACATCAAATAAACTTCTATTTTATTATATCAAATAACATCAAAATAA
1 AAAAATTTCTATTTTATTACATCAAATAAACTTCTATTTTATTACATCAAATAACATCAAAATAA
13444074 CTTT
66 CTTT
* *
13444078 AAAAATTTTCTATTTTATTACATCAAATAAACTTCTATTTTATTACGTCAAATAATATCAAAATA
1 AAAAA-TTTCTATTTTATTACATCAAATAAACTTCTATTTTATTACATCAAATAACATCAAAATA
13444143 TTTGTACAAA
Statistics
Matches: 61, Mismatches: 3, Indels: 1
0.94 0.05 0.02
Matches are distributed among these distances:
69 5 0.08
70 56 0.92
ACGTcount: A:0.45, C:0.13, G:0.01, T:0.42
Consensus pattern (69 bp):
AAAAATTTCTATTTTATTACATCAAATAAACTTCTATTTTATTACATCAAATAACATCAAAATAA
CTTT
Found at i:13453956 original size:3 final size:3
Alignment explanation
Indices: 13453948--13453983 Score: 72
Period size: 3 Copynumber: 12.0 Consensus size: 3
13453938 TTATGGAAAG
13453948 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT
13453984 GTAGTAACTG
Statistics
Matches: 33, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 33 1.00
ACGTcount: A:0.67, C:0.00, G:0.00, T:0.33
Consensus pattern (3 bp):
AAT
Found at i:13459684 original size:26 final size:26
Alignment explanation
Indices: 13459655--13459839 Score: 80
Period size: 26 Copynumber: 7.3 Consensus size: 26
13459645 ATCCTCTCTC
13459655 GAGCCATATAA-CAGGAAGCTCACAAA
1 GAGCCAT-TAATCAGGAAGCTCACAAA
* *
13459681 GAGCCATTAATCGGGAAGTTCACAAA
1 GAGCCATTAATCAGGAAGCTCACAAA
* * *
13459707 TAGCC-TT--TCAGGAAGCTTATC-CA
1 GAGCCATTAATCAGGAAGCTCA-CAAA
* * * *
13459730 G-GCTATATAA-CAAGAAGTTCACACA
1 GAGCCAT-TAATCAGGAAGCTCACAAA
* ** * *
13459755 GAACCA-TAATCAAAAAGTTCACATA
1 GAGCCATTAATCAGGAAGCTCACAAA
* ** *
13459780 GAACTTTTAATCAGGAAGCTCACGAA
1 GAGCCATTAATCAGGAAGCTCACAAA
** * * *
13459806 GAGCTTTTAAACGGGAAGCTCACGAA
1 GAGCCATTAATCAGGAAGCTCACAAA
13459832 GAGCCATT
1 GAGCCATT
13459840 TATTAGGAGC
Statistics
Matches: 121, Mismatches: 28, Indels: 20
0.72 0.17 0.12
Matches are distributed among these distances:
22 2 0.02
23 11 0.09
24 6 0.05
25 33 0.27
26 69 0.57
ACGTcount: A:0.39, C:0.21, G:0.19, T:0.21
Consensus pattern (26 bp):
GAGCCATTAATCAGGAAGCTCACAAA
Found at i:13459772 original size:25 final size:24
Alignment explanation
Indices: 13459736--13459783 Score: 69
Period size: 25 Copynumber: 2.0 Consensus size: 24
13459726 TCCAGGCTAT
*
13459736 ATAACAAGAAGTTCACACAGAACC
1 ATAACAAAAAGTTCACACAGAACC
*
13459760 ATAATCAAAAAGTTCACATAGAAC
1 ATAA-CAAAAAGTTCACACAGAAC
13459784 TTTTAATCAG
Statistics
Matches: 21, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
24 4 0.19
25 17 0.81
ACGTcount: A:0.52, C:0.21, G:0.10, T:0.17
Consensus pattern (24 bp):
ATAACAAAAAGTTCACACAGAACC
Found at i:13462228 original size:20 final size:20
Alignment explanation
Indices: 13462191--13462228 Score: 51
Period size: 20 Copynumber: 1.9 Consensus size: 20
13462181 GGATGTTGCC
*
13462191 ATTGATGAATATATATGATT
1 ATTGATGAATAAATATGATT
13462211 ATTGATG-ATAAATGATGA
1 ATTGATGAATAAAT-ATGA
13462229 ATTTTATATA
Statistics
Matches: 16, Mismatches: 1, Indels: 2
0.84 0.05 0.11
Matches are distributed among these distances:
19 5 0.31
20 11 0.69
ACGTcount: A:0.42, C:0.00, G:0.18, T:0.39
Consensus pattern (20 bp):
ATTGATGAATAAATATGATT
Found at i:13465562 original size:15 final size:15
Alignment explanation
Indices: 13465551--13465616 Score: 57
Period size: 15 Copynumber: 4.3 Consensus size: 15
13465541 ACCAATAAAG
13465551 TGTAAATAAATAATA
1 TGTAAATAAATAATA
13465566 TGTAAATAATATATATA
1 TGTAAATAA-ATA-ATA
**
13465583 TTGTAAACGAA-AAT-
1 -TGTAAATAAATAATA
13465597 T-TAAAATAAATAATA
1 TGT-AAATAAATAATA
13465612 TGTAA
1 TGTAA
13465617 GAAAATTTAG
Statistics
Matches: 40, Mismatches: 4, Indels: 14
0.69 0.07 0.24
Matches are distributed among these distances:
12 1 0.03
13 6 0.15
14 3 0.08
15 14 0.35
16 5 0.12
17 4 0.10
18 7 0.17
ACGTcount: A:0.56, C:0.02, G:0.08, T:0.35
Consensus pattern (15 bp):
TGTAAATAAATAATA
Found at i:13465738 original size:16 final size:16
Alignment explanation
Indices: 13465717--13465749 Score: 50
Period size: 16 Copynumber: 2.1 Consensus size: 16
13465707 AAAGAAAATC
13465717 AAAATAAGTA-ATATAT
1 AAAATAA-TATATATAT
13465733 AAAATAATATATATAT
1 AAAATAATATATATAT
13465749 A
1 A
13465750 TTAATCTAAA
Statistics
Matches: 16, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
15 2 0.12
16 14 0.88
ACGTcount: A:0.64, C:0.00, G:0.03, T:0.33
Consensus pattern (16 bp):
AAAATAATATATATAT
Found at i:13466062 original size:24 final size:22
Alignment explanation
Indices: 13465988--13466066 Score: 81
Period size: 22 Copynumber: 3.5 Consensus size: 22
13465978 ACAATACATA
*
13465988 ATAAATTTGAAGAATAA-TACATG
1 ATAAATTT-AA-AATAATTATATG
*
13466011 A-AAACTTAAAATAATTATATG
1 ATAAATTTAAAATAATTATATG
*
13466032 ATAAATTTAAAATAATAATATGTG
1 ATAAATTTAAAATAAT--TATATG
13466056 ATAAATTTAAA
1 ATAAATTTAAA
13466067 CAACATTCAT
Statistics
Matches: 48, Mismatches: 4, Indels: 7
0.81 0.07 0.12
Matches are distributed among these distances:
20 5 0.10
21 8 0.17
22 18 0.38
23 1 0.02
24 16 0.33
ACGTcount: A:0.56, C:0.03, G:0.08, T:0.34
Consensus pattern (22 bp):
ATAAATTTAAAATAATTATATG
Found at i:13471352 original size:29 final size:29
Alignment explanation
Indices: 13471310--13471368 Score: 118
Period size: 29 Copynumber: 2.0 Consensus size: 29
13471300 GTAAGTATGT
13471310 ATATTTGGTTTTGTACTTGATTCCTTTTG
1 ATATTTGGTTTTGTACTTGATTCCTTTTG
13471339 ATATTTGGTTTTGTACTTGATTCCTTTTG
1 ATATTTGGTTTTGTACTTGATTCCTTTTG
13471368 A
1 A
13471369 GTGATATAAT
Statistics
Matches: 30, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
29 30 1.00
ACGTcount: A:0.15, C:0.10, G:0.17, T:0.58
Consensus pattern (29 bp):
ATATTTGGTTTTGTACTTGATTCCTTTTG
Found at i:13472482 original size:48 final size:48
Alignment explanation
Indices: 13472429--13472659 Score: 462
Period size: 48 Copynumber: 4.8 Consensus size: 48
13472419 TAAAAATTAC
13472429 ATCAATAATTAAAATAAGGACTTTAATATTTTATTAAAATAAGGACTA
1 ATCAATAATTAAAATAAGGACTTTAATATTTTATTAAAATAAGGACTA
13472477 ATCAATAATTAAAATAAGGACTTTAATATTTTATTAAAATAAGGACTA
1 ATCAATAATTAAAATAAGGACTTTAATATTTTATTAAAATAAGGACTA
13472525 ATCAATAATTAAAATAAGGACTTTAATATTTTATTAAAATAAGGACTA
1 ATCAATAATTAAAATAAGGACTTTAATATTTTATTAAAATAAGGACTA
13472573 ATCAATAATTAAAATAAGGACTTTAATATTTTATTAAAATAAGGACTA
1 ATCAATAATTAAAATAAGGACTTTAATATTTTATTAAAATAAGGACTA
13472621 ATCAATAATTAAAATAAGGACTTTAATATTTTATTAAAA
1 ATCAATAATTAAAATAAGGACTTTAATATTTTATTAAAA
13472660 ATCAAGAAAT
Statistics
Matches: 183, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
48 183 1.00
ACGTcount: A:0.50, C:0.06, G:0.08, T:0.36
Consensus pattern (48 bp):
ATCAATAATTAAAATAAGGACTTTAATATTTTATTAAAATAAGGACTA
Found at i:13476225 original size:24 final size:25
Alignment explanation
Indices: 13476198--13476245 Score: 64
Period size: 26 Copynumber: 1.9 Consensus size: 25
13476188 TTAAGAAATT
13476198 TAAT-ATTAATTA-TTAAATTATATG
1 TAATAATT-ATTATTTAAATTATATG
13476222 TAATAATTATTATTTTAAATTATA
1 TAATAATTATTA-TTTAAATTATA
13476246 CAAATTCATA
Statistics
Matches: 21, Mismatches: 0, Indels: 4
0.84 0.00 0.16
Matches are distributed among these distances:
24 8 0.38
25 3 0.14
26 10 0.48
ACGTcount: A:0.46, C:0.00, G:0.02, T:0.52
Consensus pattern (25 bp):
TAATAATTATTATTTAAATTATATG
Found at i:13476399 original size:66 final size:63
Alignment explanation
Indices: 13476324--13476534 Score: 192
Period size: 66 Copynumber: 3.4 Consensus size: 63
13476314 AAATATATTT
13476324 AATATTAATTATTTCAAATTTTCATTTATAGTATCATATATTATGATTTGAGTAAATTCATATAA
1 AATATTAATTATTT-AAATTTT-ATTTA-AGTATCATATATTATGATTTGAGTAAATTCATATAA
13476389 G
63 G
* * * * **
13476390 AATATTAATTATTAAGAATTTTA-TTAA--ATTATATATT-TTAATT-A-T-AA-T-ATAT-TT
1 AATATTAATTATTTA-AATTTTATTTAAGTATCATATATTATGATTTGAGTAAATTCATATAAG
*
13476444 AATAATAATTATGTT-AATTTATATTTTACAGTATCATATATTATGATTTGAGTAAATTCATATA
1 AATATTAATTAT-TTAAATTT-TA-TTTA-AGTATCATATATTATGATTTGAGTAAATTCATATA
13476508 AG
62 AG
*
13476510 AATATTAATTATTAAGAATTTTATT
1 AATATTAATTATTTA-AATTTTATT
13476535 AAATTATATA
Statistics
Matches: 113, Mismatches: 15, Indels: 35
0.69 0.09 0.21
Matches are distributed among these distances:
53 5 0.04
54 13 0.12
55 5 0.04
56 4 0.04
57 3 0.03
58 1 0.01
59 10 0.09
60 8 0.07
61 10 0.09
62 1 0.01
63 3 0.03
64 4 0.04
65 9 0.08
66 32 0.28
67 5 0.04
ACGTcount: A:0.42, C:0.03, G:0.06, T:0.49
Consensus pattern (63 bp):
AATATTAATTATTTAAATTTTATTTAAGTATCATATATTATGATTTGAGTAAATTCATATAAG
Found at i:13476424 original size:120 final size:120
Alignment explanation
Indices: 13476286--13476578 Score: 502
Period size: 120 Copynumber: 2.4 Consensus size: 120
13476276 AATTATTTTA
* * *
13476286 AATTTTATTAAATCATATATTTTAATTAAAATATATTTAATATTAATTAT-TTCAAATTT-TCA-
1 AATTTTATTAAATTATATATTTTAATTATAATATATTTAATAATAATTATGTT--AATTTAT-AT
*
13476348 TTTATAGTATCATATATTATGATTTGAGTAAATTCATATAAGAATATTAATTATTAAG
63 TTTACAGTATCATATATTATGATTTGAGTAAATTCATATAAGAATATTAATTATTAAG
13476406 AATTTTATTAAATTATATATTTTAATTATAATATATTTAATAATAATTATGTTAATTTATATTTT
1 AATTTTATTAAATTATATATTTTAATTATAATATATTTAATAATAATTATGTTAATTTATATTTT
13476471 ACAGTATCATATATTATGATTTGAGTAAATTCATATAAGAATATTAATTATTAAG
66 ACAGTATCATATATTATGATTTGAGTAAATTCATATAAGAATATTAATTATTAAG
13476526 AATTTTATTAAATTATATATTTTAATTATAATATATTTAATAATAATTATGTT
1 AATTTTATTAAATTATATATTTTAATTATAATATATTTAATAATAATTATGTT
13476579 TAAATATGAT
Statistics
Matches: 166, Mismatches: 4, Indels: 6
0.94 0.02 0.03
Matches are distributed among these distances:
119 6 0.04
120 158 0.95
121 2 0.01
ACGTcount: A:0.43, C:0.03, G:0.05, T:0.50
Consensus pattern (120 bp):
AATTTTATTAAATTATATATTTTAATTATAATATATTTAATAATAATTATGTTAATTTATATTTT
ACAGTATCATATATTATGATTTGAGTAAATTCATATAAGAATATTAATTATTAAG
Found at i:13476446 original size:15 final size:15
Alignment explanation
Indices: 13476411--13476462 Score: 56
Period size: 15 Copynumber: 3.6 Consensus size: 15
13476401 TTAAGAATTT
*
13476411 TATTAAATTAT-ATA
1 TATTTAATTATAATA
13476425 T-TTTAATTATAATA
1 TATTTAATTATAATA
*
13476439 TATTTAATAATAAT-
1 TATTTAATTATAATA
13476453 TATGTTAATT
1 TAT-TTAATT
13476463 TATATTTTAC
Statistics
Matches: 32, Mismatches: 3, Indels: 5
0.80 0.08 0.12
Matches are distributed among these distances:
13 8 0.25
14 8 0.25
15 16 0.50
ACGTcount: A:0.44, C:0.00, G:0.02, T:0.54
Consensus pattern (15 bp):
TATTTAATTATAATA
Done.