Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: A10
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: 111961792
ACGTcount: A:0.31, C:0.16, G:0.16, T:0.31
Warning! 4980000 characters in sequence are not A, C, G, or T
File 269 of 344
Found at i:89782745 original size:21 final size:21
Alignment explanation
Indices: 89782721--89782774 Score: 72
Period size: 21 Copynumber: 2.6 Consensus size: 21
89782711 AGCTTCTTGA
*
89782721 TGAGTTGGGGCAGTAGGTATC
1 TGAGTTGGGGCAGTAGGTAAC
* *
89782742 TGAGTTGAGGCAGTGGGTAAC
1 TGAGTTGGGGCAGTAGGTAAC
*
89782763 TGAATTGGGGCA
1 TGAGTTGGGGCA
89782775 CCTTGTTGAG
Statistics
Matches: 28, Mismatches: 5, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
21 28 1.00
ACGTcount: A:0.22, C:0.09, G:0.43, T:0.26
Consensus pattern (21 bp):
TGAGTTGGGGCAGTAGGTAAC
Found at i:89783637 original size:42 final size:43
Alignment explanation
Indices: 89783476--89783655 Score: 269
Period size: 43 Copynumber: 4.3 Consensus size: 43
89783466 TATAAAAAAA
* * *
89783476 AATCATTGCATGCGTATTAAAAAATAGGCAACA-C--ACCAAC
1 AATCATTGCATGCATATTAAAAAATAGTCAACAGCTTTCCAAC
89783516 AATCATTGCATGCATATTAAAAAATAGTCAACAGCTTTCCAAC
1 AATCATTGCATGCATATTAAAAAATAGTCAACAGCTTTCCAAC
*
89783559 AATCATTACATGCATATTAAAAAATAGTCAACAGCTTTCCAAC
1 AATCATTGCATGCATATTAAAAAATAGTCAACAGCTTTCCAAC
* *
89783602 AATCATTGCATACATATTAAAAAA-AGTCAATAGCTTTCCAAC
1 AATCATTGCATGCATATTAAAAAATAGTCAACAGCTTTCCAAC
*
89783644 AATCAGTGCATG
1 AATCATTGCATG
89783656 TGATCGGCAA
Statistics
Matches: 128, Mismatches: 9, Indels: 4
0.91 0.06 0.03
Matches are distributed among these distances:
40 31 0.24
41 1 0.01
42 27 0.21
43 69 0.54
ACGTcount: A:0.43, C:0.21, G:0.10, T:0.26
Consensus pattern (43 bp):
AATCATTGCATGCATATTAAAAAATAGTCAACAGCTTTCCAAC
Found at i:89785318 original size:15 final size:15
Alignment explanation
Indices: 89785298--89785341 Score: 88
Period size: 15 Copynumber: 2.9 Consensus size: 15
89785288 ATACATCACT
89785298 ATCACTACCAGACAC
1 ATCACTACCAGACAC
89785313 ATCACTACCAGACAC
1 ATCACTACCAGACAC
89785328 ATCACTACCAGACA
1 ATCACTACCAGACA
89785342 TGTTTTCTTC
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 29 1.00
ACGTcount: A:0.41, C:0.39, G:0.07, T:0.14
Consensus pattern (15 bp):
ATCACTACCAGACAC
Found at i:89785714 original size:47 final size:48
Alignment explanation
Indices: 89785643--89785763 Score: 163
Period size: 47 Copynumber: 2.5 Consensus size: 48
89785633 AATAAACATC
*
89785643 ATGGCAGATATACACAATAAACATCAGCTTGATAAT-GCATTCATACA
1 ATGGCAGATATACACAATAAACATCAACTTGATAATGGCATTCATACA
* * *
89785690 ATGGCAGATATACGCAATACACATCAATTTGATAATGGCATTCATACA
1 ATGGCAGATATACACAATAAACATCAACTTGATAATGGCATTCATACA
* * * *
89785738 ATGGAAGAAACAAACAATAAACATCA
1 ATGGCAGATATACACAATAAACATCA
89785764 TGCATATGGC
Statistics
Matches: 63, Mismatches: 10, Indels: 1
0.85 0.14 0.01
Matches are distributed among these distances:
47 32 0.51
48 31 0.49
ACGTcount: A:0.45, C:0.18, G:0.13, T:0.23
Consensus pattern (48 bp):
ATGGCAGATATACACAATAAACATCAACTTGATAATGGCATTCATACA
Found at i:89785756 original size:48 final size:47
Alignment explanation
Indices: 89785656--89785763 Score: 135
Period size: 48 Copynumber: 2.3 Consensus size: 47
89785646 GCAGATATAC
* * * * *
89785656 ACAATAAACATCAGCTTGATAATGCATTCATACAATGGCAGATATAC
1 ACAATAAACATCAACTTGATAATGCATTCATACAATGGAAGAAACAA
* * *
89785703 GCAATACACATCAATTTGATAATGGCATTCATACAATGGAAGAAACAA
1 ACAATAAACATCAACTTGATAAT-GCATTCATACAATGGAAGAAACAA
89785751 ACAATAAACATCA
1 ACAATAAACATCA
89785764 TGCATATGGC
Statistics
Matches: 50, Mismatches: 10, Indels: 1
0.82 0.16 0.02
Matches are distributed among these distances:
47 19 0.38
48 31 0.62
ACGTcount: A:0.46, C:0.19, G:0.12, T:0.23
Consensus pattern (47 bp):
ACAATAAACATCAACTTGATAATGCATTCATACAATGGAAGAAACAA
Found at i:89785866 original size:12 final size:12
Alignment explanation
Indices: 89785849--89785893 Score: 63
Period size: 12 Copynumber: 3.8 Consensus size: 12
89785839 AGTGTTTTAG
89785849 AATCGAAATCAA
1 AATCGAAATCAA
*
89785861 AATCGAAATCAG
1 AATCGAAATCAA
*
89785873 AATCGAAATTAA
1 AATCGAAATCAA
*
89785885 AATTGAAAT
1 AATCGAAAT
89785894 AGAAATAACC
Statistics
Matches: 29, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
12 29 1.00
ACGTcount: A:0.56, C:0.11, G:0.11, T:0.22
Consensus pattern (12 bp):
AATCGAAATCAA
Found at i:89785874 original size:24 final size:23
Alignment explanation
Indices: 89785846--89785897 Score: 77
Period size: 24 Copynumber: 2.2 Consensus size: 23
89785836 GTGAGTGTTT
89785846 TAGAATCGAAATCAAAATCGAAA
1 TAGAATCGAAATCAAAATCGAAA
* *
89785869 TCAGAATCGAAATTAAAATTGAAA
1 T-AGAATCGAAATCAAAATCGAAA
89785893 TAGAA
1 TAGAA
89785898 ATAACCCTAA
Statistics
Matches: 26, Mismatches: 2, Indels: 2
0.87 0.07 0.07
Matches are distributed among these distances:
23 5 0.19
24 21 0.81
ACGTcount: A:0.56, C:0.10, G:0.13, T:0.21
Consensus pattern (23 bp):
TAGAATCGAAATCAAAATCGAAA
Found at i:89787029 original size:4 final size:4
Alignment explanation
Indices: 89787013--89787052 Score: 71
Period size: 4 Copynumber: 9.8 Consensus size: 4
89787003 TTATAACATT
89787013 TTTA TTTA CTTTA TTTA TTTA TTTA TTTA TTTA TTTA TTT
1 TTTA TTTA -TTTA TTTA TTTA TTTA TTTA TTTA TTTA TTT
89787053 TGTGTATGTA
Statistics
Matches: 35, Mismatches: 0, Indels: 2
0.95 0.00 0.05
Matches are distributed among these distances:
4 31 0.89
5 4 0.11
ACGTcount: A:0.23, C:0.03, G:0.00, T:0.75
Consensus pattern (4 bp):
TTTA
Found at i:89797134 original size:19 final size:19
Alignment explanation
Indices: 89797097--89797136 Score: 53
Period size: 19 Copynumber: 2.1 Consensus size: 19
89797087 TAAAATTCCA
* *
89797097 GTGTATTTAGGTCATTTTG
1 GTGTATTTAGGCCAGTTTG
*
89797116 GTGTATTTCGGCCAGTTTG
1 GTGTATTTAGGCCAGTTTG
89797135 GT
1 GT
89797137 CAATACTGGC
Statistics
Matches: 18, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
19 18 1.00
ACGTcount: A:0.12, C:0.10, G:0.30, T:0.47
Consensus pattern (19 bp):
GTGTATTTAGGCCAGTTTG
Found at i:89799279 original size:16 final size:14
Alignment explanation
Indices: 89799248--89799288 Score: 50
Period size: 14 Copynumber: 3.0 Consensus size: 14
89799238 TTTATCCTAA
*
89799248 TCTCTCAATTTTC-
1 TCTCTAAATTTTCT
89799261 TCTC-AAATTCTTCT
1 TCTCTAAATT-TTCT
89799275 TCTCTAAATTTTCT
1 TCTCTAAATTTTCT
89799289 ATCTAACAGT
Statistics
Matches: 24, Mismatches: 1, Indels: 5
0.80 0.03 0.17
Matches are distributed among these distances:
12 4 0.17
13 7 0.29
14 8 0.33
15 5 0.21
ACGTcount: A:0.20, C:0.27, G:0.00, T:0.54
Consensus pattern (14 bp):
TCTCTAAATTTTCT
Found at i:89799293 original size:13 final size:13
Alignment explanation
Indices: 89799248--89799294 Score: 51
Period size: 13 Copynumber: 3.5 Consensus size: 13
89799238 TTTATCCTAA
*
89799248 TCTCTCAATTTTC
1 TCTCTAAATTTTC
89799261 TCTC-AAATTCTTC
1 TCTCTAAATT-TTC
89799274 TTCTCTAAATTTTC
1 -TCTCTAAATTTTC
*
89799288 TATCTAA
1 TCTCTAA
89799295 CAGTTAGTAA
Statistics
Matches: 29, Mismatches: 2, Indels: 6
0.78 0.05 0.16
Matches are distributed among these distances:
12 4 0.14
13 13 0.45
14 7 0.24
15 5 0.17
ACGTcount: A:0.23, C:0.26, G:0.00, T:0.51
Consensus pattern (13 bp):
TCTCTAAATTTTC
Found at i:89799381 original size:15 final size:15
Alignment explanation
Indices: 89799361--89799390 Score: 51
Period size: 15 Copynumber: 2.0 Consensus size: 15
89799351 AATAAGTATT
*
89799361 TTTTTAATTTGTTTA
1 TTTTTAATATGTTTA
89799376 TTTTTAATATGTTTA
1 TTTTTAATATGTTTA
89799391 ATGATATTTT
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
15 14 1.00
ACGTcount: A:0.23, C:0.00, G:0.07, T:0.70
Consensus pattern (15 bp):
TTTTTAATATGTTTA
Found at i:89808474 original size:25 final size:25
Alignment explanation
Indices: 89808402--89808475 Score: 112
Period size: 25 Copynumber: 3.0 Consensus size: 25
89808392 AAATAATGAC
**
89808402 TTTAATTTGTTTACTCATCTTTACA
1 TTTAATTTGTTTACTCATCTTCGCA
*
89808427 TTTAATTTGTTTACGCATCTTCGCA
1 TTTAATTTGTTTACTCATCTTCGCA
*
89808452 TTTAATTTGTTTACTCATATTCGC
1 TTTAATTTGTTTACTCATCTTCGC
89808476 CAAAAAAACC
Statistics
Matches: 44, Mismatches: 5, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
25 44 1.00
ACGTcount: A:0.22, C:0.18, G:0.08, T:0.53
Consensus pattern (25 bp):
TTTAATTTGTTTACTCATCTTCGCA
Found at i:89816608 original size:30 final size:30
Alignment explanation
Indices: 89816568--89816664 Score: 97
Period size: 30 Copynumber: 3.3 Consensus size: 30
89816558 GATGACGATG
* *
89816568 CGGGCTCATCAACAGCACCCACACAATTAC
1 CGGGCCCATCAACAGCGCCCACACAATTAC
* * * *
89816598 CGGGCCCATCAA-AGGGTCCATACAATCAC
1 CGGGCCCATCAACAGCGCCCACACAATTAC
* * * *
89816627 CAGACCCATCAACAGCGCCCACATAGTTAC
1 CGGGCCCATCAACAGCGCCCACACAATTAC
89816657 CGGGCCCA
1 CGGGCCCA
89816665 ACACTTCAAC
Statistics
Matches: 50, Mismatches: 16, Indels: 2
0.74 0.24 0.03
Matches are distributed among these distances:
29 22 0.44
30 28 0.56
ACGTcount: A:0.31, C:0.39, G:0.18, T:0.12
Consensus pattern (30 bp):
CGGGCCCATCAACAGCGCCCACACAATTAC
Found at i:89820559 original size:126 final size:126
Alignment explanation
Indices: 89820338--89820801 Score: 628
Period size: 126 Copynumber: 3.7 Consensus size: 126
89820328 GGAATTGCTG
*
89820338 TAGAAAAAGAGCGTCCACATGAGAGCTTTTTT-AGTACTTTTGCTAACAGTGCAT-CTGGCTTGA
1 TAGAAAAAGAGCGTCCACATGGGAGCTTTTTTCAGTACTTTTGCTAACAGTGCATCCT-GCTTGA
* * * * * * *
89820401 AGTGTTTTTGACACTAGTTGTTTAGAAACATCTTCTCAAAATTATTTTTTCAAAAACAACTG
65 AGCGTTTTTGACACTATTTATTCAAAAACATCTTCTCAAAATTATTTTTTCAAAAACTACTA
* *
89820463 TAGAAAAAGAGCGTCCACGTGGGAGCTTTTTTCAGTACTTTTGCTGACAGTGCATCCTGCTTGAA
1 TAGAAAAAGAGCGTCCACATGGGAGCTTTTTTCAGTACTTTTGCTAACAGTGCATCCTGCTTGAA
* *
89820528 GCGTTTTTGACACTATTTGTTCAAAAACATCTTCTCAAAATTA-TTTTTCAGAAACTACTA
66 GCGTTTTTGACACTATTTATTCAAAAACATCTTCTCAAAATTATTTTTTCAAAAACTACTA
* * ** * * * * *
89820588 TTGAAAAAAAAAGTCCGCGTGGGAGCTTTTTTCAGTACTTTTGTTGACAGTACATCCTGCTTGAA
1 TAGAAAAAGAGCGTCCACATGGGAGCTTTTTTCAGTACTTTTGCTAACAGTGCATCCTGCTTGAA
**
89820653 GCGTTTTTGACACTATTTATTCAAAAATGTCTTCTCAAAATTATTTTTTCAAAAACTACTA
66 GCGTTTTTGACACTATTTATTCAAAAACATCTTCTCAAAATTATTTTTTCAAAAACTACTA
* * * * * *
89820714 TAGAAAAAGTGCATCCATATGGGAGCTTTTTTCAGTGCTTTTGCTAACAGTGTATCCTACTTGAA
1 TAGAAAAAGAGCGTCCACATGGGAGCTTTTTTCAGTACTTTTGCTAACAGTGCATCCTGCTTGAA
*
89820779 GCGTTTTTTACACTATTTATTCA
66 GCGTTTTTGACACTATTTATTCA
89820802 GAGGCCAAAC
Statistics
Matches: 299, Mismatches: 37, Indels: 5
0.88 0.11 0.01
Matches are distributed among these distances:
125 142 0.47
126 155 0.52
127 2 0.01
ACGTcount: A:0.30, C:0.17, G:0.16, T:0.37
Consensus pattern (126 bp):
TAGAAAAAGAGCGTCCACATGGGAGCTTTTTTCAGTACTTTTGCTAACAGTGCATCCTGCTTGAA
GCGTTTTTGACACTATTTATTCAAAAACATCTTCTCAAAATTATTTTTTCAAAAACTACTA
Found at i:89821283 original size:15 final size:15
Alignment explanation
Indices: 89821265--89821295 Score: 53
Period size: 15 Copynumber: 2.1 Consensus size: 15
89821255 ATCTCTCATC
*
89821265 TATCTATCTATTTTT
1 TATCTATATATTTTT
89821280 TATCTATATATTTTT
1 TATCTATATATTTTT
89821295 T
1 T
89821296 CTTTAGTTAT
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
15 15 1.00
ACGTcount: A:0.23, C:0.10, G:0.00, T:0.68
Consensus pattern (15 bp):
TATCTATATATTTTT
Found at i:89824193 original size:4 final size:4
Alignment explanation
Indices: 89824186--89824211 Score: 52
Period size: 4 Copynumber: 6.5 Consensus size: 4
89824176 AATAAATAAT
89824186 AAAC AAAC AAAC AAAC AAAC AAAC AA
1 AAAC AAAC AAAC AAAC AAAC AAAC AA
89824212 TAAATACATA
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
4 22 1.00
ACGTcount: A:0.77, C:0.23, G:0.00, T:0.00
Consensus pattern (4 bp):
AAAC
Found at i:89830127 original size:20 final size:20
Alignment explanation
Indices: 89830083--89830128 Score: 51
Period size: 20 Copynumber: 2.3 Consensus size: 20
89830073 CTTTTACATA
*
89830083 TTATA-TATTTTAAACTTGT
1 TTATATTATTTTAAACTTGC
89830102 TATATATTATTTTAAA-TTGAC
1 T-TATATTATTTTAAACTTG-C
89830123 TTATAT
1 TTATAT
89830129 ATTATTTATT
Statistics
Matches: 23, Mismatches: 1, Indels: 5
0.79 0.03 0.17
Matches are distributed among these distances:
19 1 0.04
20 12 0.52
21 10 0.43
ACGTcount: A:0.35, C:0.04, G:0.04, T:0.57
Consensus pattern (20 bp):
TTATATTATTTTAAACTTGC
Found at i:89830129 original size:22 final size:21
Alignment explanation
Indices: 89830084--89830135 Score: 72
Period size: 22 Copynumber: 2.5 Consensus size: 21
89830074 TTTTACATAT
89830084 TATA-TATTTTAAACTTGTTA
1 TATATTATTTTAAACTTGTTA
89830104 TATATTATTTTAAA-TTGACTTA
1 TATATTATTTTAAACTTG--TTA
89830126 TATATTATTT
1 TATATTATTT
89830136 ATTTTAAAAT
Statistics
Matches: 29, Mismatches: 0, Indels: 4
0.88 0.00 0.12
Matches are distributed among these distances:
20 7 0.24
21 9 0.31
22 13 0.45
ACGTcount: A:0.35, C:0.04, G:0.04, T:0.58
Consensus pattern (21 bp):
TATATTATTTTAAACTTGTTA
Found at i:89830148 original size:22 final size:22
Alignment explanation
Indices: 89830080--89830148 Score: 52
Period size: 26 Copynumber: 3.0 Consensus size: 22
89830070 ATTCTTTTAC
* * *
89830080 ATATTATATATTTTAAACTTGT
1 ATATTATTTATTTTAAAATTAT
89830102 -TA-TATATTATTTTAAATTGACTTAT
1 ATATTAT-TTATTTTAAA---A-TTAT
89830127 ATATTATTTATTTTAAAATTAT
1 ATATTATTTATTTTAAAATTAT
89830149 TTTATATACC
Statistics
Matches: 37, Mismatches: 3, Indels: 14
0.69 0.06 0.26
Matches are distributed among these distances:
20 3 0.08
21 11 0.30
22 4 0.11
23 1 0.03
25 3 0.08
26 12 0.32
27 3 0.08
ACGTcount: A:0.38, C:0.03, G:0.03, T:0.57
Consensus pattern (22 bp):
ATATTATTTATTTTAAAATTAT
Found at i:89830154 original size:25 final size:24
Alignment explanation
Indices: 89830036--89830168 Score: 76
Period size: 25 Copynumber: 5.4 Consensus size: 24
89830026 TGAACTGTTA
* * *
89830036 TTATTATAAAATATATTTATATTGT
1 TTATTTTAAATTAT-TTTATATTAT
* * *
89830061 CTATTTTTAATTCTTTTACATATTAT
1 TTATTTTAAATTATTTT--ATATTAT
* * *
89830087 ATATTTTAAACT-TGTTATA-TA-
1 TTATTTTAAATTATTTTATATTAT
*
89830108 TTATTTTAAATTGACTTATATATTAT
1 TTATTTTAAATT-A-TTTTATATTAT
*
89830134 TTATTTTAAAATTATTTTATA-TACC
1 TTATTTT-AAATTATTTTATATTA-T
89830159 TTATTTTAAA
1 TTATTTTAAA
89830169 CCCTTTTTAC
Statistics
Matches: 83, Mismatches: 16, Indels: 19
0.70 0.14 0.16
Matches are distributed among these distances:
21 10 0.12
22 2 0.02
23 3 0.04
24 13 0.16
25 27 0.33
26 23 0.28
27 5 0.06
ACGTcount: A:0.35, C:0.05, G:0.02, T:0.57
Consensus pattern (24 bp):
TTATTTTAAATTATTTTATATTAT
Found at i:89830217 original size:22 final size:22
Alignment explanation
Indices: 89830192--89830233 Score: 57
Period size: 22 Copynumber: 1.9 Consensus size: 22
89830182 TTTCAAATGA
**
89830192 TTTTATTATTTATTATTTTAGG
1 TTTTATTACATATTATTTTAGG
*
89830214 TTTTTTTACATATTATTTTA
1 TTTTATTACATATTATTTTA
89830234 CACTTTTTAT
Statistics
Matches: 17, Mismatches: 3, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
22 17 1.00
ACGTcount: A:0.24, C:0.02, G:0.05, T:0.69
Consensus pattern (22 bp):
TTTTATTACATATTATTTTAGG
Found at i:89833601 original size:40 final size:41
Alignment explanation
Indices: 89833522--89833604 Score: 150
Period size: 41 Copynumber: 2.0 Consensus size: 41
89833512 GAAAATTACT
89833522 TTGATGACAATCATATTATTATATTTTTTTAATATGAAAGC
1 TTGATGACAATCATATTATTATATTTTTTTAATATGAAAGC
*
89833563 TTGATGATAATCATATTATTATA-TTTTTTAATATGAAAGC
1 TTGATGACAATCATATTATTATATTTTTTTAATATGAAAGC
89833603 TT
1 TT
89833605 CAAAGCTTAT
Statistics
Matches: 41, Mismatches: 1, Indels: 1
0.95 0.02 0.02
Matches are distributed among these distances:
40 19 0.46
41 22 0.54
ACGTcount: A:0.36, C:0.06, G:0.10, T:0.48
Consensus pattern (41 bp):
TTGATGACAATCATATTATTATATTTTTTTAATATGAAAGC
Found at i:89833691 original size:7 final size:7
Alignment explanation
Indices: 89833681--89833715 Score: 70
Period size: 7 Copynumber: 5.0 Consensus size: 7
89833671 TATAATGATA
89833681 ATTATTT
1 ATTATTT
89833688 ATTATTT
1 ATTATTT
89833695 ATTATTT
1 ATTATTT
89833702 ATTATTT
1 ATTATTT
89833709 ATTATTT
1 ATTATTT
89833716 TAAAATTTCA
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 28 1.00
ACGTcount: A:0.29, C:0.00, G:0.00, T:0.71
Consensus pattern (7 bp):
ATTATTT
Found at i:89839760 original size:40 final size:40
Alignment explanation
Indices: 89839705--89839784 Score: 160
Period size: 40 Copynumber: 2.0 Consensus size: 40
89839695 CTTTATGAGA
89839705 AAGAGAATCCATTATTAGATGGTGAAACTGTCGGTTTGTT
1 AAGAGAATCCATTATTAGATGGTGAAACTGTCGGTTTGTT
89839745 AAGAGAATCCATTATTAGATGGTGAAACTGTCGGTTTGTT
1 AAGAGAATCCATTATTAGATGGTGAAACTGTCGGTTTGTT
89839785 GCATGTGGAT
Statistics
Matches: 40, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
40 40 1.00
ACGTcount: A:0.30, C:0.10, G:0.25, T:0.35
Consensus pattern (40 bp):
AAGAGAATCCATTATTAGATGGTGAAACTGTCGGTTTGTT
Found at i:89855193 original size:21 final size:21
Alignment explanation
Indices: 89855169--89855209 Score: 64
Period size: 21 Copynumber: 2.0 Consensus size: 21
89855159 AAACACTCGT
*
89855169 TTTCCTTTTTCAATTGAACCA
1 TTTCCTTTTCCAATTGAACCA
*
89855190 TTTCCTTTTCCATTTGAACC
1 TTTCCTTTTCCAATTGAACC
89855210 CTAATATCAT
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
21 18 1.00
ACGTcount: A:0.20, C:0.27, G:0.05, T:0.49
Consensus pattern (21 bp):
TTTCCTTTTCCAATTGAACCA
Found at i:89858913 original size:49 final size:49
Alignment explanation
Indices: 89858840--89858950 Score: 125
Period size: 49 Copynumber: 2.3 Consensus size: 49
89858830 TCCTAGACAA
*
89858840 GTCTTACACTGACTTTCATATATCGAG-GCCGATACCATGTCCCAAACAG
1 GTCTTACACTGACTCTCATATATCG-GTGCCGATACCATGTCCCAAACAG
* * * * * * *
89858889 GTCTTACATTGGCTCTCATCTATCGGTGTCGATGCCATGTCCTAGACAG
1 GTCTTACACTGACTCTCATATATCGGTGCCGATACCATGTCCCAAACAG
*
89858938 GTCTTATACTGAC
1 GTCTTACACTGAC
89858951 ATACAACAAG
Statistics
Matches: 50, Mismatches: 11, Indels: 2
0.79 0.17 0.03
Matches are distributed among these distances:
48 1 0.02
49 49 0.98
ACGTcount: A:0.23, C:0.27, G:0.19, T:0.31
Consensus pattern (49 bp):
GTCTTACACTGACTCTCATATATCGGTGCCGATACCATGTCCCAAACAG
Found at i:89859074 original size:46 final size:46
Alignment explanation
Indices: 89858963--89859136 Score: 183
Period size: 46 Copynumber: 3.7 Consensus size: 46
89858953 ACAACAAGCT
* * * * *
89858963 GATGCCATGTCCCAGATAGGTCTTACACTAGCTTGTATATCCTGA-GGCC
1 GATG-CATGTCCCAGACATGTCTTACACTAGC-TCT-CATCAT-ATGGCC
89859012 GATGCATGTCCCAGACATGTCTTACACTAGCTCTCATC-TCAAT-GCC
1 GATGCATGTCCCAGACATGTCTTACACTAGCTCTCATCAT--ATGGCC
* * * *
89859058 GATGCATGTCCCAGACATGTCTTACACTGGCACTCATGATGTGGCC
1 GATGCATGTCCCAGACATGTCTTACACTAGCTCTCATCATATGGCC
*
89859104 GATGCATGTCCCAAACATGTCTTACACTAGCTC
1 GATGCATGTCCCAGACATGTCTTACACTAGCTC
89859137 ACATACCACT
Statistics
Matches: 109, Mismatches: 12, Indels: 11
0.83 0.09 0.08
Matches are distributed among these distances:
45 2 0.02
46 75 0.69
47 3 0.03
48 25 0.23
49 4 0.04
ACGTcount: A:0.24, C:0.29, G:0.20, T:0.28
Consensus pattern (46 bp):
GATGCATGTCCCAGACATGTCTTACACTAGCTCTCATCATATGGCC
Found at i:89867528 original size:41 final size:41
Alignment explanation
Indices: 89867392--89867531 Score: 119
Period size: 41 Copynumber: 3.5 Consensus size: 41
89867382 ACACACCAGT
* ** * * * *
89867392 TTGACACCCAGTGCCTCGCCGGA-TAATGCGAAGTAATAAT
1 TTGACACCCAGTGTCTCATCGAACTAATCCGAAGTAGTAAA
* * *
89867432 TTGACACCCAGTGTCTCATC-AGCTAAACC-AA--AGTGAA
1 TTGACACCCAGTGTCTCATCGAACTAATCCGAAGTAGTAAA
* * *
89867469 TTGGCACCCAGTGCCTCATCGAATTAATCCGAAGTAGTAAA
1 TTGACACCCAGTGTCTCATCGAACTAATCCGAAGTAGTAAA
*
89867510 TTGACACCTAGTGTCTCATCGA
1 TTGACACCCAGTGTCTCATCGA
89867532 CTCAATGTCG
Statistics
Matches: 76, Mismatches: 19, Indels: 9
0.73 0.18 0.09
Matches are distributed among these distances:
37 21 0.28
38 6 0.08
39 4 0.05
40 21 0.28
41 24 0.32
ACGTcount: A:0.31, C:0.26, G:0.19, T:0.24
Consensus pattern (41 bp):
TTGACACCCAGTGTCTCATCGAACTAATCCGAAGTAGTAAA
Found at i:89873656 original size:41 final size:41
Alignment explanation
Indices: 89873611--89873696 Score: 145
Period size: 41 Copynumber: 2.1 Consensus size: 41
89873601 TAACTGTCAG
* *
89873611 CTAATTAACAACTAACAAATTAACTGACTTAATCTGTTACT
1 CTAATTAACAACTAACAAATTAACTAACTTAATCAGTTACT
*
89873652 CTAATTAACAACTGACAAATTAACTAACTTAATCAGTTACT
1 CTAATTAACAACTAACAAATTAACTAACTTAATCAGTTACT
89873693 CTAA
1 CTAA
89873697 CATTCCTTTG
Statistics
Matches: 42, Mismatches: 3, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
41 42 1.00
ACGTcount: A:0.43, C:0.20, G:0.05, T:0.33
Consensus pattern (41 bp):
CTAATTAACAACTAACAAATTAACTAACTTAATCAGTTACT
Found at i:89878786 original size:23 final size:23
Alignment explanation
Indices: 89878756--89878805 Score: 100
Period size: 23 Copynumber: 2.2 Consensus size: 23
89878746 CATCAGTGAC
89878756 ACTTTCAGTACAAAATGGTATTA
1 ACTTTCAGTACAAAATGGTATTA
89878779 ACTTTCAGTACAAAATGGTATTA
1 ACTTTCAGTACAAAATGGTATTA
89878802 ACTT
1 ACTT
89878806 GGACATCAAT
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
23 27 1.00
ACGTcount: A:0.38, C:0.14, G:0.12, T:0.36
Consensus pattern (23 bp):
ACTTTCAGTACAAAATGGTATTA
Found at i:89886361 original size:16 final size:16
Alignment explanation
Indices: 89886324--89886366 Score: 52
Period size: 16 Copynumber: 2.7 Consensus size: 16
89886314 TAATTTATTA
*
89886324 AATAAAA-ATAATCTT
1 AATAAAATATTATCTT
*
89886339 AATTAAAATATTATTTT
1 AA-TAAAATATTATCTT
89886356 AATAAAATATT
1 AATAAAATATT
89886367 TAAATTTCAC
Statistics
Matches: 24, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
15 2 0.08
16 14 0.58
17 8 0.33
ACGTcount: A:0.56, C:0.02, G:0.00, T:0.42
Consensus pattern (16 bp):
AATAAAATATTATCTT
Found at i:89886950 original size:21 final size:22
Alignment explanation
Indices: 89886914--89886957 Score: 63
Period size: 21 Copynumber: 2.0 Consensus size: 22
89886904 ACTTTTTATA
* *
89886914 TTTTGTGTAAATTAAAGTTTTT
1 TTTTGTATAAATTAAAGATTTT
89886936 TTTTGTATAAA-TAAAGATTTT
1 TTTTGTATAAATTAAAGATTTT
89886957 T
1 T
89886958 AACCTTTTGT
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
21 10 0.50
22 10 0.50
ACGTcount: A:0.32, C:0.00, G:0.11, T:0.57
Consensus pattern (22 bp):
TTTTGTATAAATTAAAGATTTT
Found at i:89887635 original size:27 final size:28
Alignment explanation
Indices: 89887578--89887635 Score: 66
Period size: 27 Copynumber: 2.1 Consensus size: 28
89887568 GATGACCGTC
* * *
89887578 TATTTGATTTAATTTATATTATCTTTTT
1 TATTTGATTTAAATTATATTATCATTGT
89887606 TATTT-ATTTAAATTATCATTAT-ATTGT
1 TATTTGATTTAAATTAT-ATTATCATTGT
89887633 TAT
1 TAT
89887636 GAATTTCAAA
Statistics
Matches: 26, Mismatches: 3, Indels: 3
0.81 0.09 0.09
Matches are distributed among these distances:
27 16 0.62
28 10 0.38
ACGTcount: A:0.29, C:0.03, G:0.03, T:0.64
Consensus pattern (28 bp):
TATTTGATTTAAATTATATTATCATTGT
Found at i:89888208 original size:18 final size:19
Alignment explanation
Indices: 89888175--89888210 Score: 56
Period size: 19 Copynumber: 1.9 Consensus size: 19
89888165 ACTTTTTTGG
*
89888175 TTTTTTTGAAACAAATATT
1 TTTTTTTCAAACAAATATT
89888194 TTTTTTTCAAA-AAATAT
1 TTTTTTTCAAACAAATAT
89888211 ATAAGCTTTA
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
18 6 0.38
19 10 0.62
ACGTcount: A:0.39, C:0.06, G:0.03, T:0.53
Consensus pattern (19 bp):
TTTTTTTCAAACAAATATT
Found at i:89888596 original size:2 final size:2
Alignment explanation
Indices: 89888589--89888617 Score: 58
Period size: 2 Copynumber: 14.5 Consensus size: 2
89888579 ATGAAAACAG
89888589 AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
89888618 ACAAGATACA
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:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:89891163 original size:68 final size:68
Alignment explanation
Indices: 89891078--89891215 Score: 249
Period size: 68 Copynumber: 2.0 Consensus size: 68
89891068 ATTAAAGATT
*
89891078 TCATTGATCTTGAATGTCACGCACTTACAAAATAAAATGTCCAAGTAAATTACAACTTTCAATAA
1 TCATTGATCTTGAATGTCACGCACTTACAAAATAAAATCTCCAAGTAAATTACAACTTTCAATAA
89891143 TAA
66 TAA
* *
89891146 TCATTGATCTTGAATGTCACGCACTTGCAAAATAAAATCTCCAAGTAAGTTACAACTTTCAATAA
1 TCATTGATCTTGAATGTCACGCACTTACAAAATAAAATCTCCAAGTAAATTACAACTTTCAATAA
89891211 TAA
66 TAA
89891214 TC
1 TC
89891216 CTGTTATATT
Statistics
Matches: 67, Mismatches: 3, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
68 67 1.00
ACGTcount: A:0.41, C:0.19, G:0.09, T:0.31
Consensus pattern (68 bp):
TCATTGATCTTGAATGTCACGCACTTACAAAATAAAATCTCCAAGTAAATTACAACTTTCAATAA
TAA
Found at i:89895793 original size:16 final size:17
Alignment explanation
Indices: 89895755--89895794 Score: 50
Period size: 16 Copynumber: 2.5 Consensus size: 17
89895745 AAGTATTTCG
89895755 ATATAATCGAACAATAA
1 ATATAATCGAACAATAA
89895772 AT-TAATC-AAGC-ATAA
1 ATATAATCGAA-CAATAA
89895787 ATATAATC
1 ATATAATC
89895795 TTAAGCTAAC
Statistics
Matches: 21, Mismatches: 0, Indels: 5
0.81 0.00 0.19
Matches are distributed among these distances:
15 8 0.38
16 11 0.52
17 2 0.10
ACGTcount: A:0.55, C:0.12, G:0.05, T:0.28
Consensus pattern (17 bp):
ATATAATCGAACAATAA
Found at i:89903794 original size:3 final size:3
Alignment explanation
Indices: 89903741--89903778 Score: 58
Period size: 3 Copynumber: 12.7 Consensus size: 3
89903731 ATTTTTATAA
* *
89903741 TAT TAG TAT TAT TAC TAT TAT TAT TAT TAT TAT TAT TA
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TA
89903779 GCTTATGTTT
Statistics
Matches: 31, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
3 31 1.00
ACGTcount: A:0.34, C:0.03, G:0.03, T:0.61
Consensus pattern (3 bp):
TAT
Found at i:89904536 original size:24 final size:24
Alignment explanation
Indices: 89904503--89904549 Score: 76
Period size: 24 Copynumber: 2.0 Consensus size: 24
89904493 TATTTTTAAC
89904503 ATTATACTATGTACATATTTCCAT
1 ATTATACTATGTACATATTTCCAT
* *
89904527 ATTATCCTATGTATATATTTCCA
1 ATTATACTATGTACATATTTCCA
89904550 ATACCATACT
Statistics
Matches: 21, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
24 21 1.00
ACGTcount: A:0.32, C:0.17, G:0.04, T:0.47
Consensus pattern (24 bp):
ATTATACTATGTACATATTTCCAT
Found at i:89906766 original size:24 final size:24
Alignment explanation
Indices: 89906734--89906782 Score: 98
Period size: 24 Copynumber: 2.0 Consensus size: 24
89906724 TAATCGTAAG
89906734 CTTAGTGTACATACCGGTACCATA
1 CTTAGTGTACATACCGGTACCATA
89906758 CTTAGTGTACATACCGGTACCATA
1 CTTAGTGTACATACCGGTACCATA
89906782 C
1 C
89906783 ATTTTTACCC
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
24 25 1.00
ACGTcount: A:0.29, C:0.27, G:0.16, T:0.29
Consensus pattern (24 bp):
CTTAGTGTACATACCGGTACCATA
Found at i:89906966 original size:48 final size:49
Alignment explanation
Indices: 89906895--89907205 Score: 323
Period size: 48 Copynumber: 6.5 Consensus size: 49
89906885 GTACCAATGT
* * * *
89906895 CATGTCCCCGGCATGGTCTTACATGAATC-CACATATCATCACTGATGC
1 CATGTCCCAGACATGGTCTTACATGAAGCACACATATCATCACCGATGC
* * * *
89906943 CATGTCCCAGATATGGTCTTACAT-AGGCATATATATCATCACCGATGC
1 CATGTCCCAGACATGGTCTTACATGAAGCACACATATCATCACCGATGC
* * ** * *
89906991 CATGTCCCAAACATGTTCTTACACTG-A-CATGCATATCATCGCCAATGC
1 CATGTCCCAGACATGGTCTTACA-TGAAGCACACATATCATCACCGATGC
* * ** *
89907039 CATGTCCCAGACATGGTCTTACA-CAGGCACACATATCATTGCTGATGC
1 CATGTCCCAGACATGGTCTTACATGAAGCACACATATCATCACCGATGC
* **
89907087 CATATCCCAGACATGGTCTTACACTG--GCACACATATCATTGCCGATGC
1 CATGTCCCAGACATGGTCTTACA-TGAAGCACACATATCATCACCGATGC
* * *
89907135 CATGTCCCAGACATGGTCTTACA-CAGGCACATATATCATCACCGATGC
1 CATGTCCCAGACATGGTCTTACATGAAGCACACATATCATCACCGATGC
89907183 CATGTCCCAGACATGGTCTTACA
1 CATGTCCCAGACATGGTCTTACA
89907206 CAGGCACATT
Statistics
Matches: 221, Mismatches: 33, Indels: 18
0.81 0.12 0.07
Matches are distributed among these distances:
47 2 0.01
48 218 0.99
49 1 0.00
ACGTcount: A:0.28, C:0.30, G:0.16, T:0.26
Consensus pattern (49 bp):
CATGTCCCAGACATGGTCTTACATGAAGCACACATATCATCACCGATGC
Found at i:89907149 original size:144 final size:144
Alignment explanation
Indices: 89906887--89907213 Score: 419
Period size: 144 Copynumber: 2.3 Consensus size: 144
89906877 CAATTAAAGT
* * * * ** *
89906887 ACCAATGTCATGTCCCCGGCATGGTCTTACATGAATC-CACATATCATCACTGATGCCATGTCCC
1 ACCAATGCCATGTCCCAGACATGGTCTTACA-CAGGCACACATATCATCACTGATGCCATATCCC
* * * *
89906951 AGATATGGTCTTACATAGGCATATATATCATCACCGATGCCATGTCCCAAACATGTTCTTACAC-
65 AGACATGGTCTTACATAGGCACACATATCATCACCGATGCCATGTCCCAAACATGGTCTTACACA
*
89907015 TG-ACATGCATATCATC
130 GGCACAT--ATATCATC
* **
89907031 GCCAATGCCATGTCCCAGACATGGTCTTACACAGGCACACATATCATTGCTGATGCCATATCCCA
1 ACCAATGCCATGTCCCAGACATGGTCTTACACAGGCACACATATCATCACTGATGCCATATCCCA
** *
89907096 GACATGGTCTTACACT-GGCACACATATCATTGCCGATGCCATGTCCCAGACATGGTCTTACACA
66 GACATGGTCTTACA-TAGGCACACATATCATCACCGATGCCATGTCCCAAACATGGTCTTACACA
89907160 GGCACATATATCATC
130 GGCACATATATCATC
*
89907175 ACCGATGCCATGTCCCAGACATGGTCTTACACAGGCACA
1 ACCAATGCCATGTCCCAGACATGGTCTTACACAGGCACA
89907214 TTCAGCACGG
Statistics
Matches: 159, Mismatches: 20, Indels: 8
0.85 0.11 0.04
Matches are distributed among these distances:
143 2 0.01
144 151 0.95
145 2 0.01
146 4 0.03
ACGTcount: A:0.28, C:0.30, G:0.17, T:0.25
Consensus pattern (144 bp):
ACCAATGCCATGTCCCAGACATGGTCTTACACAGGCACACATATCATCACTGATGCCATATCCCA
GACATGGTCTTACATAGGCACACATATCATCACCGATGCCATGTCCCAAACATGGTCTTACACAG
GCACATATATCATC
Found at i:89907206 original size:48 final size:48
Alignment explanation
Indices: 89906927--89907214 Score: 382
Period size: 48 Copynumber: 6.0 Consensus size: 48
89906917 ATGAATCCAC
* * * *
89906927 ATATCATCACTGATGCCATGTCCCAGATATGGTCTTACATAGGCATAT
1 ATATCATCACCGATGCCATGTCCCAGACATGGTCTTACACAGGCACAT
* * *
89906975 ATATCATCACCGATGCCATGTCCCAAACATGTTCTTACAC-TG-ACAT
1 ATATCATCACCGATGCCATGTCCCAGACATGGTCTTACACAGGCACAT
* * *
89907021 GCATATCATCGCCAATGCCATGTCCCAGACATGGTCTTACACAGGCACAC
1 --ATATCATCACCGATGCCATGTCCCAGACATGGTCTTACACAGGCACAT
** * * * *
89907071 ATATCATTGCTGATGCCATATCCCAGACATGGTCTTACACTGGCACAC
1 ATATCATCACCGATGCCATGTCCCAGACATGGTCTTACACAGGCACAT
**
89907119 ATATCATTGCCGATGCCATGTCCCAGACATGGTCTTACACAGGCACAT
1 ATATCATCACCGATGCCATGTCCCAGACATGGTCTTACACAGGCACAT
89907167 ATATCATCACCGATGCCATGTCCCAGACATGGTCTTACACAGGCACAT
1 ATATCATCACCGATGCCATGTCCCAGACATGGTCTTACACAGGCACAT
89907215 TCAGCACGGT
Statistics
Matches: 212, Mismatches: 24, Indels: 8
0.87 0.10 0.03
Matches are distributed among these distances:
46 3 0.01
47 1 0.00
48 204 0.96
49 1 0.00
50 3 0.01
ACGTcount: A:0.28, C:0.30, G:0.16, T:0.26
Consensus pattern (48 bp):
ATATCATCACCGATGCCATGTCCCAGACATGGTCTTACACAGGCACAT
Found at i:89920894 original size:45 final size:45
Alignment explanation
Indices: 89920847--89921071 Score: 247
Period size: 45 Copynumber: 5.0 Consensus size: 45
89920837 CATCCATTAT
* * *
89920847 GAACTCAGACCAACTCAACGAGCTCAGATGCTCCACATATATCAT
1 GAACTCGGACCAACTCAACGAGCTCGGATGCTCCACATATATCAC
* * * * *
89920892 GAACTTGGACCAAATCAACAAGTTCGGAT-TTCTCACATATATCAC
1 GAACTCGGACCAACTCAACGAGCTCGGATGCTC-CACATATATCAC
*
89920937 GAACTCGGACCAACTCAACGAGCTCGGATGCTTCACATATATCAC
1 GAACTCGGACCAACTCAACGAGCTCGGATGCTCCACATATATCAC
* * * ** * *
89920982 GAACTTGGACTAACTCAACAAATTTGGAT-TTCTCACATATATCAC
1 GAACTCGGACCAACTCAACGAGCTCGGATGCTC-CACATATATCAC
* * *
89921027 GAACTCGGACTAACTCAACGTGCTCGGATGCTTCACATATATCAC
1 GAACTCGGACCAACTCAACGAGCTCGGATGCTCCACATATATCAC
89921072 ATAATATGAA
Statistics
Matches: 146, Mismatches: 30, Indels: 8
0.79 0.16 0.04
Matches are distributed among these distances:
44 3 0.02
45 141 0.97
46 2 0.01
ACGTcount: A:0.33, C:0.28, G:0.15, T:0.24
Consensus pattern (45 bp):
GAACTCGGACCAACTCAACGAGCTCGGATGCTCCACATATATCAC
Found at i:89920987 original size:90 final size:90
Alignment explanation
Indices: 89920847--89921071 Score: 360
Period size: 90 Copynumber: 2.5 Consensus size: 90
89920837 CATCCATTAT
* * * *
89920847 GAACTCAGACCAACTCAACGAGCTCAGATGCTCCACATATATCATGAACTTGGACCAAATCAACA
1 GAACTCGGACCAACTCAACGAGCTCGGATGCTTCACATATATCACGAACTTGGACCAAATCAACA
*
89920912 AGTTCGGATTTCTCACATATATCAC
66 AATTCGGATTTCTCACATATATCAC
* *
89920937 GAACTCGGACCAACTCAACGAGCTCGGATGCTTCACATATATCACGAACTTGGACTAACTCAACA
1 GAACTCGGACCAACTCAACGAGCTCGGATGCTTCACATATATCACGAACTTGGACCAAATCAACA
*
89921002 AATTTGGATTTCTCACATATATCAC
66 AATTCGGATTTCTCACATATATCAC
* *
89921027 GAACTCGGACTAACTCAACGTGCTCGGATGCTTCACATATATCAC
1 GAACTCGGACCAACTCAACGAGCTCGGATGCTTCACATATATCAC
89921072 ATAATATGAA
Statistics
Matches: 125, Mismatches: 10, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
90 125 1.00
ACGTcount: A:0.33, C:0.28, G:0.15, T:0.24
Consensus pattern (90 bp):
GAACTCGGACCAACTCAACGAGCTCGGATGCTTCACATATATCACGAACTTGGACCAAATCAACA
AATTCGGATTTCTCACATATATCAC
Found at i:89924020 original size:58 final size:57
Alignment explanation
Indices: 89923915--89924023 Score: 155
Period size: 58 Copynumber: 1.9 Consensus size: 57
89923905 TCTTGTTTCC
* * * *
89923915 AACATATGCTCATCAGAGTTTAATCAAGATTACCCGTCCGGGCTAAATCCTATCTAT
1 AACATATGCTCAACAGAGCTTAATCAAGATTACCAGTCCAGGCTAAATCCTATCTAT
* *
89923972 AACATATGCTCAACAGGGCTTATATCAGGATTACCAGTCCAGGCTAAATCCT
1 AACATATGCTCAACAGAGCTTA-ATCAAGATTACCAGTCCAGGCTAAATCCT
89924024 TTCTGTAATA
Statistics
Matches: 45, Mismatches: 6, Indels: 1
0.87 0.12 0.02
Matches are distributed among these distances:
57 19 0.42
58 26 0.58
ACGTcount: A:0.32, C:0.25, G:0.16, T:0.28
Consensus pattern (57 bp):
AACATATGCTCAACAGAGCTTAATCAAGATTACCAGTCCAGGCTAAATCCTATCTAT
Found at i:89925275 original size:14 final size:14
Alignment explanation
Indices: 89925256--89925286 Score: 53
Period size: 14 Copynumber: 2.2 Consensus size: 14
89925246 TCCCATCCTG
*
89925256 AAAATTGGGTTAGT
1 AAAATTGGGTCAGT
89925270 AAAATTGGGTCAGT
1 AAAATTGGGTCAGT
89925284 AAA
1 AAA
89925287 CTAGGGGTTG
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
14 16 1.00
ACGTcount: A:0.42, C:0.03, G:0.26, T:0.29
Consensus pattern (14 bp):
AAAATTGGGTCAGT
Found at i:89928130 original size:96 final size:96
Alignment explanation
Indices: 89927994--89928198 Score: 241
Period size: 96 Copynumber: 2.1 Consensus size: 96
89927984 ATTTATCAGT
* * * *
89927994 ACGACCAGTGGTTCATCCACAACGTACTAGCAGTTGTTATCTTCACCAAAGGATGGTTTATCCAC
1 ACGATCAGTGGTTCATCCACAACGTACTAGCAGTTGTTATCTGCACCAAAGGATGATTCATCCAC
**
89928059 CAATAGTTTTATCATTAGCAGTTCATTTGCA
66 CAATAGTTTTATCATTAGCAGTTCAGCTGCA
* * * * * ** *
89928090 ATGATCAGTGGTTCATCCATAATGTATTAGCA-TCTTTTATCTGCACTGATGGATGATTCATCCA
1 ACGATCAGTGGTTCATCCACAACGTACTAGCAGT-TGTTATCTGCACCAAAGGATGATTCATCCA
* * *
89928154 CCAATATTTTTATCGTTAGCATTTCAGCTGCA
65 CCAATAGTTTTATCATTAGCAGTTCAGCTGCA
89928186 ACGATCAGTGGTT
1 ACGATCAGTGGTT
89928199 TGTTCACAAC
Statistics
Matches: 90, Mismatches: 18, Indels: 2
0.82 0.16 0.02
Matches are distributed among these distances:
95 1 0.01
96 89 0.99
ACGTcount: A:0.27, C:0.21, G:0.17, T:0.35
Consensus pattern (96 bp):
ACGATCAGTGGTTCATCCACAACGTACTAGCAGTTGTTATCTGCACCAAAGGATGATTCATCCAC
CAATAGTTTTATCATTAGCAGTTCAGCTGCA
Found at i:89929077 original size:346 final size:348
Alignment explanation
Indices: 89928443--89929144 Score: 1273
Period size: 346 Copynumber: 2.0 Consensus size: 348
89928433 TCATCTACTG
89928443 TTTCCACTAACTTACTTGTGATAAGATTCACACTGAGCTTCATAAGCTCACTCCCTCTTTTTATT
1 TTTCCACTAACTTACTTGTGATAAGATTCACACTGAGCTTCATAAGCTCACTCCCTCTTTTTATT
* * * ** *
89928508 TTCATTTTTACAGATAGCCCACCAGTTTAGGATGCGGGCTCGATATTGGGAGGACTTGACACATA
66 TTCATCTTTACAGATAACCCACCAGTTTAGGATGCGGGCTCGACATTCCGAGGACTCGACACATA
*
89928573 TTGTTTTTACATAAAAGTATTTTAGACTATTATTTGAAATTTCAGTTATTCAAAGATTGTATTAT
131 TTGTTTTTACATAAAAGTATTTTAGACTATTATTTGAAATTTCAGTTATTCAAAGACTGTATTAT
* *
89928638 TTTATTTGAACTGTGGCATGGGGCTTAGGTTTTGGGTTTATATAGCATCCATGGTATTTGATTTG
196 TTTATTAGAACTGTGGCATGGGGCTTAGGTTTTGGGTTTATATAGCATCCATGGTATTTAATTTG
89928703 CAAATAGATATTGAAACATAAATTTAGAATTAAATACACATAAAATAATTTTGA-TTTTTCTTAA
261 CAAATAGATATTGAAACATAAATTTAGAATTAAATACACATAAAATAATTTTGATTTTTTCTTAA
89928767 TTAAAACTGAGTTGAATATCACA
326 TTAAAACTGAGTTGAATATCACA
* *
89928790 -TTCCACTAACTTACTTGTGATAAGATTCACTCTGAGCTTCATAAGCTCGCTCCCTCTTTTTATT
1 TTTCCACTAACTTACTTGTGATAAGATTCACACTGAGCTTCATAAGCTCACTCCCTCTTTTTATT
89928854 TTCATCTTTACAGATAACCCACCAGTTTAGGATGCGGGCTCGACATTCCGAGGACTCGACACATA
66 TTCATCTTTACAGATAACCCACCAGTTTAGGATGCGGGCTCGACATTCCGAGGACTCGACACATA
*
89928919 TTGTTTTTACATAAAAGTATTTTAGACTATTATTTGAAATTTTAGTTATTCAAAGACTGTATTAT
131 TTGTTTTTACATAAAAGTATTTTAGACTATTATTTGAAATTTCAGTTATTCAAAGACTGTATTAT
89928984 TTTATTAGAACTGTGGCATGGGGCTTAGGTTTTGGGTTTATATAGCATCCATGGTATTTAATTTG
196 TTTATTAGAACTGTGGCATGGGGCTTAGGTTTTGGGTTTATATAGCATCCATGGTATTTAATTTG
*
89929049 CAAATAGATATTGAAACATAGATTTAGAATTAAATACACATAAAATAATTTTGATTTTTTCTTAA
261 CAAATAGATATTGAAACATAAATTTAGAATTAAATACACATAAAATAATTTTGATTTTTTCTTAA
89929114 TTAAAACTGAGTTGAATATCACA
326 TTAAAACTGAGTTGAATATCACA
89929137 TTTCCACT
1 TTTCCACT
89929145 GCTAGATTAT
Statistics
Matches: 340, Mismatches: 13, Indels: 3
0.96 0.04 0.01
Matches are distributed among these distances:
346 300 0.88
347 33 0.10
348 7 0.02
ACGTcount: A:0.31, C:0.15, G:0.15, T:0.39
Consensus pattern (348 bp):
TTTCCACTAACTTACTTGTGATAAGATTCACACTGAGCTTCATAAGCTCACTCCCTCTTTTTATT
TTCATCTTTACAGATAACCCACCAGTTTAGGATGCGGGCTCGACATTCCGAGGACTCGACACATA
TTGTTTTTACATAAAAGTATTTTAGACTATTATTTGAAATTTCAGTTATTCAAAGACTGTATTAT
TTTATTAGAACTGTGGCATGGGGCTTAGGTTTTGGGTTTATATAGCATCCATGGTATTTAATTTG
CAAATAGATATTGAAACATAAATTTAGAATTAAATACACATAAAATAATTTTGATTTTTTCTTAA
TTAAAACTGAGTTGAATATCACA
Found at i:89929549 original size:21 final size:23
Alignment explanation
Indices: 89929500--89929550 Score: 63
Period size: 21 Copynumber: 2.3 Consensus size: 23
89929490 AAGAAATAAA
*
89929500 AATATATTTATATTATTTTAATT
1 AATATATTTATATAATTTTAATT
*
89929523 TA-ATATTTA-ATAATTTT-ATT
1 AATATATTTATATAATTTTAATT
89929543 AATATATT
1 AATATATT
89929551 ATTTATTAAA
Statistics
Matches: 24, Mismatches: 3, Indels: 4
0.77 0.10 0.13
Matches are distributed among these distances:
20 4 0.17
21 12 0.50
22 7 0.29
23 1 0.04
ACGTcount: A:0.41, C:0.00, G:0.00, T:0.59
Consensus pattern (23 bp):
AATATATTTATATAATTTTAATT
Found at i:89942267 original size:39 final size:39
Alignment explanation
Indices: 89942224--89942301 Score: 113
Period size: 39 Copynumber: 2.0 Consensus size: 39
89942214 ACATTACGCG
* *
89942224 TATAAT-TACATAACGTTCAAGCACATATCACAATACTCA
1 TATAATCT-CATAACATTCAACCACATATCACAATACTCA
*
89942263 TATAATCTCATAACATTCAACCATATATCACAATACTCA
1 TATAATCTCATAACATTCAACCACATATCACAATACTCA
89942302 AAAATAGGTT
Statistics
Matches: 35, Mismatches: 3, Indels: 2
0.88 0.08 0.05
Matches are distributed among these distances:
39 34 0.97
40 1 0.03
ACGTcount: A:0.44, C:0.24, G:0.03, T:0.29
Consensus pattern (39 bp):
TATAATCTCATAACATTCAACCACATATCACAATACTCA
Found at i:89948863 original size:13 final size:13
Alignment explanation
Indices: 89948845--89948870 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
89948835 ACTACATTAG
89948845 AAAAAAAGGAAAA
1 AAAAAAAGGAAAA
89948858 AAAAAAAGGAAAA
1 AAAAAAAGGAAAA
89948871 GAAACTACGT
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:0.85, C:0.00, G:0.15, T:0.00
Consensus pattern (13 bp):
AAAAAAAGGAAAA
Found at i:89949732 original size:22 final size:21
Alignment explanation
Indices: 89949696--89949736 Score: 55
Period size: 22 Copynumber: 1.9 Consensus size: 21
89949686 TTTTTCTAAC
*
89949696 AAAAATTTTAACAAAATTTATT
1 AAAAATTTCAAC-AAATTTATT
*
89949718 AAAAATTTCATCAAATTTA
1 AAAAATTTCAACAAATTTA
89949737 ACGATGGTGA
Statistics
Matches: 17, Mismatches: 2, Indels: 1
0.85 0.10 0.05
Matches are distributed among these distances:
21 7 0.41
22 10 0.59
ACGTcount: A:0.54, C:0.07, G:0.00, T:0.39
Consensus pattern (21 bp):
AAAAATTTCAACAAATTTATT
Found at i:89959039 original size:53 final size:52
Alignment explanation
Indices: 89958888--89959039 Score: 182
Period size: 52 Copynumber: 2.9 Consensus size: 52
89958878 ATGTGATATA
* * *
89958888 TGATTCCGTATAAGACCATAGCCGGGCTATGGCATCGGTACAATGTGATTCG
1 TGATTCCGTATAAGACCATAGCTGGGCTATGGCATCGGTATAATATGATTCG
* * *
89958940 TG-TTCTAGTATAAGACCATAGCTGGGCTATGGCATCGGTGTGATATGATAAT-G
1 TGATTC-CGTATAAGACCATAGCTGGGCTATGGCATCGGTATAATATGAT--TCG
* * *
89958993 TGATTCCGTATAAGACCATATCTGAGATATGGCATCGGTATAATATG
1 TGATTCCGTATAAGACCATAGCTGGGCTATGGCATCGGTATAATATG
89959040 TGATCCGTGT
Statistics
Matches: 84, Mismatches: 12, Indels: 7
0.82 0.12 0.07
Matches are distributed among these distances:
51 3 0.04
52 39 0.46
53 38 0.45
54 4 0.05
ACGTcount: A:0.28, C:0.16, G:0.26, T:0.30
Consensus pattern (52 bp):
TGATTCCGTATAAGACCATAGCTGGGCTATGGCATCGGTATAATATGATTCG
Found at i:89959877 original size:20 final size:20
Alignment explanation
Indices: 89959827--89959883 Score: 87
Period size: 20 Copynumber: 2.9 Consensus size: 20
89959817 GCTAATGGGC
* *
89959827 AGGCCACACGAGCATGTTCT
1 AGGCCACACGGGCGTGTTCT
*
89959847 AGGCTACACGGGCGTGTTCT
1 AGGCCACACGGGCGTGTTCT
89959867 AGGCCACACGGGCGTGT
1 AGGCCACACGGGCGTGT
89959884 GCCCCTATCT
Statistics
Matches: 33, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
20 33 1.00
ACGTcount: A:0.19, C:0.28, G:0.33, T:0.19
Consensus pattern (20 bp):
AGGCCACACGGGCGTGTTCT
Found at i:89964930 original size:14 final size:15
Alignment explanation
Indices: 89964901--89964933 Score: 50
Period size: 14 Copynumber: 2.3 Consensus size: 15
89964891 ATCCACATTT
*
89964901 ATTTTCAGGTACGAA
1 ATTTTAAGGTACGAA
89964916 ATTTTAAGG-ACGAA
1 ATTTTAAGGTACGAA
89964930 ATTT
1 ATTT
89964934 CCAAAGGGGG
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
14 9 0.53
15 8 0.47
ACGTcount: A:0.36, C:0.09, G:0.18, T:0.36
Consensus pattern (15 bp):
ATTTTAAGGTACGAA
Found at i:89966393 original size:52 final size:53
Alignment explanation
Indices: 89966285--89966436 Score: 148
Period size: 52 Copynumber: 2.9 Consensus size: 53
89966275 GACGGAAAAG
* * * * *
89966285 ATGTGAT-ATATGATTCCGTATAAGACCATAGCCGGACCATGGCATCGGTACA
1 ATGTGATAATGTGATTCCCTATAAGACCATAGCTGGGCTATGGCATCGGTACA
** ***
89966337 ATGTGATTCT-TG-TTCCCCTATAAGACCATAGCTGGGCTATGGCATCGGTGTG
1 ATGTGATAATGTGATT-CCCTATAAGACCATAGCTGGGCTATGGCATCGGTACA
* * * *
89966389 ATGTGATAATGTGATTCCGTATAAGACCATATCTGGGATATGACATCG
1 ATGTGATAATGTGATTCCCTATAAGACCATAGCTGGGCTATGGCATCG
89966437 ATATGATATG
Statistics
Matches: 82, Mismatches: 14, Indels: 7
0.80 0.14 0.07
Matches are distributed among these distances:
51 2 0.02
52 47 0.57
53 31 0.38
54 2 0.02
ACGTcount: A:0.27, C:0.19, G:0.24, T:0.30
Consensus pattern (53 bp):
ATGTGATAATGTGATTCCCTATAAGACCATAGCTGGGCTATGGCATCGGTACA
Found at i:89967281 original size:20 final size:20
Alignment explanation
Indices: 89967230--89967287 Score: 71
Period size: 20 Copynumber: 2.9 Consensus size: 20
89967220 TGCTCATGGG
*
89967230 CAGGCCACACGAGCATGTTC
1 CAGGCCACACGGGCATGTTC
* **
89967250 CATGCCACACGGGTGTGTTC
1 CAGGCCACACGGGCATGTTC
*
89967270 CAGGCCACACGGACATGT
1 CAGGCCACACGGGCATGT
89967288 GCCCCTATCT
Statistics
Matches: 30, Mismatches: 8, Indels: 0
0.79 0.21 0.00
Matches are distributed among these distances:
20 30 1.00
ACGTcount: A:0.22, C:0.33, G:0.28, T:0.17
Consensus pattern (20 bp):
CAGGCCACACGGGCATGTTC
Found at i:89981424 original size:27 final size:27
Alignment explanation
Indices: 89981352--89981426 Score: 123
Period size: 28 Copynumber: 2.7 Consensus size: 27
89981342 TGGAGGAATC
89981352 GTTCTGGTGGCTATGCCACAAATATCT
1 GTTCTGGTGGCTATGCCACAAATATCT
*
89981379 GTTTCTGGTGGCTACGCCACAAATATCT
1 G-TTCTGGTGGCTATGCCACAAATATCT
*
89981407 GTTCTGGTGGCTGTGCCACA
1 GTTCTGGTGGCTATGCCACA
89981427 TATTCTGGTA
Statistics
Matches: 44, Mismatches: 3, Indels: 2
0.90 0.06 0.04
Matches are distributed among these distances:
27 18 0.41
28 26 0.59
ACGTcount: A:0.19, C:0.24, G:0.25, T:0.32
Consensus pattern (27 bp):
GTTCTGGTGGCTATGCCACAAATATCT
Found at i:89981735 original size:61 final size:60
Alignment explanation
Indices: 89981639--89981813 Score: 180
Period size: 61 Copynumber: 2.9 Consensus size: 60
89981629 CCAACTGTGT
* * *
89981639 TAATATGGGCAAGGCCCAATATA-TCTCGA-ACTTGTAATAGGGCTACGGCCCAGATTGATAC
1 TAATATGGGCTAGGCCCAGTATACTCT-GATA-TTGTAATAGGGCTA-GGCCCAGATTAATAC
* *
89981700 TAATATGGGCTAGGCCCAGTATACTCTGATATTGTAA-AGGGTTATGGCCCAGATTAATAT
1 TAATATGGGCTAGGCCCAGTATACTCTGATATTGTAATAGGGCTA-GGCCCAGATTAATAC
* *
89981760 TGATATGGGCTAAGGCCCAGT-TAACTCTGAT-TTCTGAATAGGGCTTAGGCCCAG
1 TAATATGGGCT-AGGCCCAGTAT-ACTCTGATATTGT-AATAGGGC-TAGGCCCAG
89981814 TAAAGCTTGA
Statistics
Matches: 98, Mismatches: 9, Indels: 13
0.82 0.08 0.11
Matches are distributed among these distances:
60 33 0.34
61 48 0.49
62 15 0.15
63 2 0.02
ACGTcount: A:0.29, C:0.19, G:0.25, T:0.28
Consensus pattern (60 bp):
TAATATGGGCTAGGCCCAGTATACTCTGATATTGTAATAGGGCTAGGCCCAGATTAATAC
Found at i:89988030 original size:8 final size:8
Alignment explanation
Indices: 89988013--89988050 Score: 62
Period size: 8 Copynumber: 5.0 Consensus size: 8
89988003 TTTAAAATTG
89988013 ATTT-AAA
1 ATTTAAAA
89988020 ATTTAAAA
1 ATTTAAAA
89988028 ATTTAAAA
1 ATTTAAAA
89988036 ATTT-AAA
1 ATTTAAAA
89988043 ATTTAAAA
1 ATTTAAAA
89988051 TTAAAAGTAT
Statistics
Matches: 29, Mismatches: 0, Indels: 3
0.91 0.00 0.09
Matches are distributed among these distances:
7 11 0.38
8 18 0.62
ACGTcount: A:0.61, C:0.00, G:0.00, T:0.39
Consensus pattern (8 bp):
ATTTAAAA
Found at i:89988033 original size:15 final size:15
Alignment explanation
Indices: 89988013--89988056 Score: 65
Period size: 15 Copynumber: 3.0 Consensus size: 15
89988003 TTTAAAATTG
89988013 ATTTAAAATTTAAAA
1 ATTTAAAATTTAAAA
89988028 ATTTAAAAATTT-AAA
1 ATTT-AAAATTTAAAA
89988043 ATTTAAAA-TTAAAA
1 ATTTAAAATTTAAAA
89988057 GTATTATAAT
Statistics
Matches: 27, Mismatches: 0, Indels: 5
0.84 0.00 0.16
Matches are distributed among these distances:
13 2 0.07
14 7 0.26
15 11 0.41
16 7 0.26
ACGTcount: A:0.61, C:0.00, G:0.00, T:0.39
Consensus pattern (15 bp):
ATTTAAAATTTAAAA
Found at i:89988056 original size:6 final size:7
Alignment explanation
Indices: 89988013--89988056 Score: 63
Period size: 7 Copynumber: 6.1 Consensus size: 7
89988003 TTTAAAATTG
89988013 ATTTAAA
1 ATTTAAA
89988020 ATTTAAAA
1 ATTT-AAA
89988028 ATTTAAAA
1 ATTT-AAA
89988036 ATTTAAA
1 ATTTAAA
89988043 ATTTAAA
1 ATTTAAA
89988050 A-TTAAA
1 ATTTAAA
89988056 A
1 A
89988057 GTATTATAAT
Statistics
Matches: 36, Mismatches: 0, Indels: 3
0.92 0.00 0.08
Matches are distributed among these distances:
6 6 0.17
7 15 0.42
8 15 0.42
ACGTcount: A:0.61, C:0.00, G:0.00, T:0.39
Consensus pattern (7 bp):
ATTTAAA
Found at i:89988509 original size:6 final size:6
Alignment explanation
Indices: 89988498--89988598 Score: 202
Period size: 6 Copynumber: 16.8 Consensus size: 6
89988488 TAATTCTATC
89988498 TATAAA TATAAA TATAAA TATAAA TATAAA TATAAA TATAAA TATAAA
1 TATAAA TATAAA TATAAA TATAAA TATAAA TATAAA TATAAA TATAAA
89988546 TATAAA TATAAA TATAAA TATAAA TATAAA TATAAA TATAAA TATAAA
1 TATAAA TATAAA TATAAA TATAAA TATAAA TATAAA TATAAA TATAAA
89988594 TATAA
1 TATAA
89988599 TCACAATTAT
Statistics
Matches: 95, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 95 1.00
ACGTcount: A:0.66, C:0.00, G:0.00, T:0.34
Consensus pattern (6 bp):
TATAAA
Found at i:89992484 original size:54 final size:54
Alignment explanation
Indices: 89992369--89992486 Score: 128
Period size: 54 Copynumber: 2.2 Consensus size: 54
89992359 GGTCACACGA
* * * * * * *
89992369 CCATGTAACTTTTTATGACCGTGTGGCTCAAGGTTACACGATCGTGTCGCTAGG
1 CCATGTAACTTTTTATGACCGTGTAGCTCAAGGTCACACAAGCATGTCACCAGG
** * *
89992423 TTATGTAACTTTTTGTGACTGTGTAGCTCAAGGTCACACAAGCATGTCACCAGG
1 CCATGTAACTTTTTATGACCGTGTAGCTCAAGGTCACACAAGCATGTCACCAGG
*
89992477 CCGTGTAACT
1 CCATGTAACT
89992487 CTATACCCGT
Statistics
Matches: 50, Mismatches: 14, Indels: 0
0.78 0.22 0.00
Matches are distributed among these distances:
54 50 1.00
ACGTcount: A:0.23, C:0.22, G:0.24, T:0.31
Consensus pattern (54 bp):
CCATGTAACTTTTTATGACCGTGTAGCTCAAGGTCACACAAGCATGTCACCAGG
Found at i:90006282 original size:35 final size:35
Alignment explanation
Indices: 90006236--90006307 Score: 144
Period size: 35 Copynumber: 2.1 Consensus size: 35
90006226 AACATAAGAA
90006236 AGGAAATTGACTCACATTCTCAAGCAGCACAAACG
1 AGGAAATTGACTCACATTCTCAAGCAGCACAAACG
90006271 AGGAAATTGACTCACATTCTCAAGCAGCACAAACG
1 AGGAAATTGACTCACATTCTCAAGCAGCACAAACG
90006306 AG
1 AG
90006308 CTATTGTATG
Statistics
Matches: 37, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
35 37 1.00
ACGTcount: A:0.40, C:0.25, G:0.18, T:0.17
Consensus pattern (35 bp):
AGGAAATTGACTCACATTCTCAAGCAGCACAAACG
Found at i:90014412 original size:47 final size:46
Alignment explanation
Indices: 90014340--90014707 Score: 193
Period size: 47 Copynumber: 7.8 Consensus size: 46
90014330 CGAATTGTGC
* * *
90014340 GCCAGTGTAAGACATGTTTGGGACATGCTTCGGCCACATTATGAAA
1 GCCAGTGTAAGACATGTCTGGGACATGCATCGGCCATATTATGAAA
*
90014386 GCCAGTGTAAGACCATGTCTGGGACATGGCATCGG---TATTGAAAT-AAGG
1 GCCAGTGTAAGA-CATGTCTGGGACAT-GCATCGGCCATATT---ATGAA-A
* * * **
90014434 GCTAGTGTAAGACAGGTCTGGGACATGCATCAGCCATATTATGATT
1 GCCAGTGTAAGACATGTCTGGGACATGCATCGGCCATATTATGAAA
* * * * **
90014480 GCCAGTATAAGACCATGTCTGGGACATGGCATTGGCACAGA-GATGAGT
1 GCCAGTGTAAGA-CATGTCTGGGACAT-GCATCGGC-CATATTATGAAA
* * *
90014528 GCTAGTGTAAGACATGTCTGGGACATACATCGGCC-TCGA-CA-GAGATA
1 GCCAGTGTAAGACATGTCTGGGACATGCATCGGCCAT--ATTATGA-A-A
* * * * * * *
90014575 GCCAGTGTAAGACGTGTCTGGTACACGCATCGGCTAAGAGT-TG--T
1 GCCAGTGTAAGACATGTCTGGGACATGCATCGGC-CATATTATGAAA
* * * * *
90014619 GCTAGTGTAAGACGTGTCTGGGACATGCATCAGCACGCGTA-TATGAGA
1 GCCAGTGTAAGACATGTCTGGGACATGCATC-G-GC-CATATTATGAAA
* *
90014667 GCCAGTGTAAGACCATGTTTGGGACATGGCATCGGCAATAT
1 GCCAGTGTAAGA-CATGTCTGGGACAT-GCATCGGCCATAT
90014708 ATCCCATGTT
Statistics
Matches: 244, Mismatches: 49, Indels: 56
0.70 0.14 0.16
Matches are distributed among these distances:
44 28 0.11
45 8 0.03
46 42 0.17
47 88 0.36
48 53 0.22
49 20 0.08
50 5 0.02
ACGTcount: A:0.28, C:0.19, G:0.29, T:0.24
Consensus pattern (46 bp):
GCCAGTGTAAGACATGTCTGGGACATGCATCGGCCATATTATGAAA
Found at i:90014504 original size:94 final size:94
Alignment explanation
Indices: 90014343--90014703 Score: 331
Period size: 94 Copynumber: 3.9 Consensus size: 94
90014333 ATTGTGCGCC
* * * *
90014343 AGTGTAAGACATGTTTGGGACATGCTTCGGCCACATTATGAAAGCCAGTGTAAGACCATGTCTGG
1 AGTGTAAGACATGTCTGGGACATGCATCAGCCACATTATGAAAGCCAGTATAAGACCATGTCTGG
* **
90014408 GACATGGCATCGGTATTGAAATAAGGGCT
66 GACATGGCATCGGCACAGAAATAAGGGCT
* * **
90014437 AGTGTAAGACAGGTCTGGGACATGCATCAGCCATATTATGATTGCCAGTATAAGACCATGTCTGG
1 AGTGTAAGACATGTCTGGGACATGCATCAGCCACATTATGAAAGCCAGTATAAGACCATGTCTGG
* * * *
90014502 GACATGGCATTGGCACAGAGATGAGTGCT
66 GACATGGCATCGGCACAGAAATAAGGGCT
* * * * * *
90014531 AGTGTAAGACATGTCTGGGACATACATCGGCCTCGACA-GA-GATAGCCAGTGTAAGA-CGTGTC
1 AGTGTAAGACATGTCTGGGACATGCATCAG-C-C-ACATTATGAAAGCCAGTATAAGACCATGTC
* * * * *
90014593 TGGTACA-CGCATCGGCTA-AG-AGT-TGTGCT
63 TGGGACATGGCATCGGC-ACAGAAATAAGGGCT
* * * * * *
90014622 AGTGTAAGACGTGTCTGGGACATGCATCAGCACGCGTATATGAGAGCCAGTGTAAGACCATGTTT
1 AGTGTAAGACATGTCTGGGACATGCATCAGC-CACAT-TATGAAAGCCAGTATAAGACCATGTCT
90014687 GGGACATGGCATCGGCA
64 GGGACATGGCATCGGCA
90014704 ATATATCCCA
Statistics
Matches: 217, Mismatches: 41, Indels: 19
0.78 0.15 0.07
Matches are distributed among these distances:
89 1 0.00
90 2 0.01
91 33 0.15
92 16 0.07
93 20 0.09
94 126 0.58
95 15 0.07
96 2 0.01
97 2 0.01
ACGTcount: A:0.28, C:0.19, G:0.30, T:0.24
Consensus pattern (94 bp):
AGTGTAAGACATGTCTGGGACATGCATCAGCCACATTATGAAAGCCAGTATAAGACCATGTCTGG
GACATGGCATCGGCACAGAAATAAGGGCT
Found at i:90021690 original size:40 final size:40
Alignment explanation
Indices: 90021607--90021909 Score: 396
Period size: 40 Copynumber: 7.6 Consensus size: 40
90021597 TTGAATGCTG
* * * * * *
90021607 TCCGGGCTAAGTCCCGAAGGC-TTTGTGCTAAGTGAATATA
1 TCCGGGTTAAGTCCCGAAGGCATTCGTGC-GAGTTATTAAA
* * * * *
90021647 TCCGGATTAAGAT-CCGAAGGCCTTTGTGCGAGATACTAAA
1 TCCGGGTTAAG-TCCCGAAGGCATTCGTGCGAGTTATTAAA
90021687 TCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTATTAAA
1 TCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTATTAAA
90021727 TCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTATTAAA
1 TCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTATTAAA
90021767 TCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTATTAAA
1 TCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTATTAAA
*
90021807 TCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTGTTAAA
1 TCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTATTAAA
* * * *
90021847 TTCGGGTTATGTCCCGAAGGCATT-GTGTGAGTTACTAAA
1 TCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTATTAAA
* * *
90021886 ACCGGGCTATGTCCCGAAGGCATT
1 TCCGGGTTAAGTCCCGAAGGCATT
90021910 TGAACGAGGA
Statistics
Matches: 239, Mismatches: 21, Indels: 7
0.90 0.08 0.03
Matches are distributed among these distances:
39 34 0.14
40 197 0.82
41 8 0.03
ACGTcount: A:0.25, C:0.20, G:0.28, T:0.27
Consensus pattern (40 bp):
TCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTATTAAA
Found at i:90024721 original size:47 final size:47
Alignment explanation
Indices: 90024654--90024866 Score: 188
Period size: 47 Copynumber: 4.6 Consensus size: 47
90024644 AAAATTGTGC
*
90024654 GCCAGTGTAA-ACATGTCTGGGACAT-GCTTCGGCCACATTATGAGA
1 GCCAGTGTAAGACATGTCTGGGACATGGCATCGGCCACATTATGAGA
* *
90024699 GCCAGTGTAAGACCATGTCTGGGACATGGCATC-GACATCCA-AATGA-A
1 GCCAGTGTAAGA-CATGTCTGGGACATGGCATCGGCCA--CATTATGAGA
* * * * * **
90024746 GGCTAGTATATGACATGTCTGGGACAT-GCATCAGCCATATTATGATT
1 -GCCAGTGTAAGACATGTCTGGGACATGGCATCGGCCACATTATGAGA
* ** *
90024793 GCCAGTGTAAGACCATGTCTGGGACATGGCATCGG-TACAGAGATGAGT
1 GCCAGTGTAAGA-CATGTCTGGGACATGGCATCGGCCACA-TTATGAGA
*
90024841 GCCTGTGTAAGACATGTCTGGGACAT
1 GCCAGTGTAAGACATGTCTGGGACAT
90024867 ACACCGGCCT
Statistics
Matches: 136, Mismatches: 20, Indels: 22
0.76 0.11 0.12
Matches are distributed among these distances:
45 11 0.08
46 19 0.14
47 65 0.48
48 39 0.29
49 2 0.01
ACGTcount: A:0.28, C:0.20, G:0.28, T:0.24
Consensus pattern (47 bp):
GCCAGTGTAAGACATGTCTGGGACATGGCATCGGCCACATTATGAGA
Found at i:90024855 original size:94 final size:93
Alignment explanation
Indices: 90024657--90025013 Score: 277
Period size: 94 Copynumber: 3.8 Consensus size: 93
90024647 ATTGTGCGCC
* *
90024657 AGTGTAA-ACATGTCTGGGACATGCTTCGGCCACATTATGAGAGCCAGTGTAAGACCATGTCTGG
1 AGTGTAAGACATGTCTGGGACATGCATCAGCCACATTATGAGAGCCAGTGTAAGACCATGTCTGG
90024721 GACATGGCATCGACATCCAAATGAAGGCT
66 GACATGGCATCGACA-CCAAATGAAGGCT
* * * **
90024750 AGTATATGACATGTCTGGGACATGCATCAGCCATATTATGATTGCCAGTGTAAGACCATGTCTGG
1 AGTGTAAGACATGTCTGGGACATGCATCAGCCACATTATGAGAGCCAGTGTAAGACCATGTCTGG
* *
90024815 GACATGGCATCGGTACA-GAGATG-AGTGCCT
66 GACATGGCATC-G-ACACCAAATGAAG-G-CT
* * * * * **
90024845 -GTGTAAGACATGTCTGGGACATACACCGGCCTTGACA-GA-GATAGCCAGTGTAAGA-TGTGTC
1 AGTGTAAGACATGTCTGGGACATGCATCAGCC---ACATTATGAGAGCCAGTGTAAGACCATGTC
* ** ** *
90024906 TGGGACA-CGCATC-AGCTAGGAGTTG--TGCT
63 TGGGACATGGCATCGA-C-ACCAAATGAAGGCT
* * * * * *
90024935 AGGGTAAGACGTGTCTGAGACATGCATCAGCACGCGTATATGAGAGCCAGTGTAAGACCATGCCT
1 AGTGTAAGACATGTCTGGGACATGCATCAGC-CACAT-TATGAGAGCCAGTGTAAGACCATGTCT
90025000 GGGACATGGCATCG
64 GGGACATGGCATCG
90025014 GCAATATATC
Statistics
Matches: 209, Mismatches: 36, Indels: 36
0.74 0.13 0.13
Matches are distributed among these distances:
89 1 0.00
90 3 0.01
91 27 0.13
92 17 0.08
93 27 0.13
94 110 0.53
95 18 0.09
96 4 0.02
97 2 0.01
ACGTcount: A:0.27, C:0.20, G:0.29, T:0.23
Consensus pattern (93 bp):
AGTGTAAGACATGTCTGGGACATGCATCAGCCACATTATGAGAGCCAGTGTAAGACCATGTCTGG
GACATGGCATCGACACCAAATGAAGGCT
Found at i:90024896 original size:47 final size:46
Alignment explanation
Indices: 90024793--90024912 Score: 120
Period size: 47 Copynumber: 2.5 Consensus size: 46
90024783 TATTATGATT
* *
90024793 GCCAGTGTAAGACCATGTCTGGGACATGGCATCGGTACAGAGATGAG
1 GCCAGTGTAAGA-CATGTCTGGGACATGACACCGGTACAGAGATGAG
*
90024840 TGCCTGTGTAAGACATGTCTGGGACAT-ACACCGGCCTTGACAGAGAT-A-
1 -GCCAGTGTAAGACATGTCTGGGACATGACACCGG---T-ACAGAGATGAG
**
90024888 GCCAGTGTAAGATGTGTCTGGGACA
1 GCCAGTGTAAGACATGTCTGGGACA
90024913 CGCATCAGCT
Statistics
Matches: 62, Mismatches: 6, Indels: 9
0.81 0.08 0.12
Matches are distributed among these distances:
46 5 0.08
47 36 0.58
48 11 0.18
49 2 0.03
50 8 0.13
ACGTcount: A:0.27, C:0.20, G:0.32, T:0.22
Consensus pattern (46 bp):
GCCAGTGTAAGACATGTCTGGGACATGACACCGGTACAGAGATGAG
Found at i:90032421 original size:17 final size:16
Alignment explanation
Indices: 90032399--90032432 Score: 50
Period size: 16 Copynumber: 2.1 Consensus size: 16
90032389 GGGGATGGAG
90032399 TTTGTTTGATGTTTATT
1 TTTGTTTG-TGTTTATT
*
90032416 TTTGTTTGTTTTTATT
1 TTTGTTTGTGTTTATT
90032432 T
1 T
90032433 CATAATATTT
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
16 8 0.50
17 8 0.50
ACGTcount: A:0.09, C:0.00, G:0.15, T:0.76
Consensus pattern (16 bp):
TTTGTTTGTGTTTATT
Found at i:90035033 original size:63 final size:63
Alignment explanation
Indices: 90034957--90035082 Score: 243
Period size: 63 Copynumber: 2.0 Consensus size: 63
90034947 AAGAAGAATG
*
90034957 ACATACTATCGATGTGCTAGATGATCTAATTGCAAAAGAATTCAATGATCAAAGTACAGTACT
1 ACATACCATCGATGTGCTAGATGATCTAATTGCAAAAGAATTCAATGATCAAAGTACAGTACT
90035020 ACATACCATCGATGTGCTAGATGATCTAATTGCAAAAGAATTCAATGATCAAAGTACAGTACT
1 ACATACCATCGATGTGCTAGATGATCTAATTGCAAAAGAATTCAATGATCAAAGTACAGTACT
90035083 TTCTGAGGAG
Statistics
Matches: 62, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
63 62 1.00
ACGTcount: A:0.40, C:0.17, G:0.16, T:0.28
Consensus pattern (63 bp):
ACATACCATCGATGTGCTAGATGATCTAATTGCAAAAGAATTCAATGATCAAAGTACAGTACT
Found at i:90048304 original size:9 final size:10
Alignment explanation
Indices: 90048280--90048330 Score: 66
Period size: 11 Copynumber: 4.7 Consensus size: 10
90048270 CACAATAGTC
90048280 CTCTCACAATT
1 CTCTCA-AATT
90048291 CTCTCTAAATT
1 CTCTC-AAATT
90048302 CTCTCCAAATT
1 CTCT-CAAATT
90048313 CTCTCAAATTT
1 CTCTCAAA-TT
90048324 CTCTCAA
1 CTCTCAA
90048331 TTTTTGTCAA
Statistics
Matches: 37, Mismatches: 0, Indels: 6
0.86 0.00 0.14
Matches are distributed among these distances:
10 4 0.11
11 31 0.84
12 2 0.05
ACGTcount: A:0.27, C:0.33, G:0.00, T:0.39
Consensus pattern (10 bp):
CTCTCAAATT
Found at i:90048340 original size:21 final size:22
Alignment explanation
Indices: 90048323--90048362 Score: 66
Period size: 21 Copynumber: 1.9 Consensus size: 22
90048313 CTCTCAAATT
90048323 TCTCTC-AATTTTTGTCAAAGC
1 TCTCTCTAATTTTTGTCAAAGC
90048344 TCTCTCTAATTTTTG-CAAA
1 TCTCTCTAATTTTTGTCAAA
90048363 AAAAGCTTTG
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
21 10 0.56
22 8 0.44
ACGTcount: A:0.25, C:0.23, G:0.07, T:0.45
Consensus pattern (22 bp):
TCTCTCTAATTTTTGTCAAAGC
Found at i:90049517 original size:7 final size:7
Alignment explanation
Indices: 90049505--90049572 Score: 127
Period size: 7 Copynumber: 9.7 Consensus size: 7
90049495 TAGTCGTTTC
90049505 GTATTTA
1 GTATTTA
90049512 GTATTTA
1 GTATTTA
90049519 GTATTTA
1 GTATTTA
90049526 GTATTTA
1 GTATTTA
90049533 GTATTTA
1 GTATTTA
90049540 GTATTTA
1 GTATTTA
90049547 GTATTTA
1 GTATTTA
*
90049554 GTATTAA
1 GTATTTA
90049561 GTATTTA
1 GTATTTA
90049568 GTATT
1 GTATT
90049573 ACCTATATAA
Statistics
Matches: 59, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
7 59 1.00
ACGTcount: A:0.29, C:0.00, G:0.15, T:0.56
Consensus pattern (7 bp):
GTATTTA
Found at i:90050213 original size:18 final size:18
Alignment explanation
Indices: 90050190--90050232 Score: 59
Period size: 18 Copynumber: 2.4 Consensus size: 18
90050180 TGCCAGGTGC
*
90050190 GTATCCTAGCCCTTATAT
1 GTATCCTAACCCTTATAT
*
90050208 GTATCCTAACCCTTTTAT
1 GTATCCTAACCCTTATAT
*
90050226 GTTTCCT
1 GTATCCT
90050233 TTTCCTAGTC
Statistics
Matches: 22, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
18 22 1.00
ACGTcount: A:0.19, C:0.28, G:0.09, T:0.44
Consensus pattern (18 bp):
GTATCCTAACCCTTATAT
Found at i:90050746 original size:63 final size:60
Alignment explanation
Indices: 90050679--90050995 Score: 164
Period size: 55 Copynumber: 5.1 Consensus size: 60
90050669 AGTTGTTTTT
90050679 AATATTTTAACTGTACTTTACTTTTTTTAATTTTATTAAAATAAATGTTCTTTTAAATTAGAC
1 AATATTTTAA-TGTACTTTACTTTTTTTAATTTTATTAAAATAAATGTT-TTTTAAATTAG-C
* * * * * *
90050742 AATATTTTTTAT-TATTTTTA-TATAGTTTTAA--TTAATAAAATAAAAGTTGTTT---TT---
1 AATA-TTTTAATGTA-CTTTACT-T-TTTTTAATTTTATTAAAATAAATGTTTTTTAAATTAGC
90050796 AATATTTTAATTGTACTTTACTTTTTTTAATTTTATTAAAATAAATGTTATTTTAAATTAGCC
1 AATATTTTAA-TGTACTTTACTTTTTTTAATTTTATTAAAATAAATGTT-TTTTAAATTAG-C
* * * *
90050859 AATATTTTTATTATTTTTATATTTA-TTTTTTATATAGTTTTAATTAATAAAATAAAAGTTGTTT
1 AATA-TTTTA--A--TGTA-CTTTACTTTTTT-TA-A-TTTT-A-T--TAAAATAAATGTTTTTT
90050923 ---TT---
53 AAATTAGC
* * *
90050925 AATATTTTAATTGTACTTTACTTTTTTTAATTTTAATACAACAAATGTTATTTTAAATTAGCC
1 AATATTTTAA-TGTACTTTACTTTTTTTAATTTTATTAAAATAAATGTT-TTTTAAATTAG-C
90050988 AATATTTT
1 AATATTTT
90050996 TTATTAAAAT
Statistics
Matches: 193, Mismatches: 23, Indels: 76
0.66 0.08 0.26
Matches are distributed among these distances:
53 11 0.06
54 10 0.05
55 28 0.15
56 6 0.03
58 3 0.02
59 8 0.04
60 1 0.01
61 9 0.05
62 28 0.15
63 23 0.12
64 16 0.08
65 5 0.03
66 5 0.03
67 10 0.05
68 6 0.03
69 1 0.01
70 6 0.03
71 1 0.01
72 1 0.01
73 3 0.02
74 12 0.06
ACGTcount: A:0.35, C:0.05, G:0.05, T:0.55
Consensus pattern (60 bp):
AATATTTTAATGTACTTTACTTTTTTTAATTTTATTAAAATAAATGTTTTTTAAATTAGC
Found at i:90050784 original size:62 final size:57
Alignment explanation
Indices: 90050700--90050880 Score: 149
Period size: 62 Copynumber: 3.2 Consensus size: 57
90050690 TGTACTTTAC
* *
90050700 TTTTTTTA-ATTTTATTAAAATAAATGTTCTTTTAAATTAGACAATATTTTTTATTA
1 TTTTTATATATTTTATTAAAATAAATGTTATTTTAAATTAGACAATATTTTTTATTA
* * ** * * ** *
90050756 TTTTTATATAGTTTTAATTAATAAAATAAAAGTTGTTTTTAATATTTTA-ATTGTACTTTACT-
1 TTTTTATATA-TTTT-A-T--TAAAATAAATGTT-ATTTTAA-ATTAGACAATATTTTTTATTA
*
90050818 TTTTT-TA-ATTTTATTAAAATAAATGTTATTTTAAATTAGCCAATA-TTTTTATTA
1 TTTTTATATATTTTATTAAAATAAATGTTATTTTAAATTAGACAATATTTTTTATTA
90050872 TTTTTATAT
1 TTTTTATAT
90050881 TTATTTTTTA
Statistics
Matches: 93, Mismatches: 20, Indels: 24
0.68 0.15 0.18
Matches are distributed among these distances:
53 8 0.09
54 13 0.14
55 14 0.15
56 7 0.08
57 2 0.02
58 5 0.05
59 5 0.05
60 2 0.02
61 2 0.02
62 17 0.18
63 14 0.15
64 4 0.04
ACGTcount: A:0.35, C:0.03, G:0.04, T:0.57
Consensus pattern (57 bp):
TTTTTATATATTTTATTAAAATAAATGTTATTTTAAATTAGACAATATTTTTTATTA
Found at i:90050850 original size:117 final size:118
Alignment explanation
Indices: 90050639--90051001 Score: 525
Period size: 129 Copynumber: 3.0 Consensus size: 118
90050629 GTAGAAACTT
* *
90050639 TTTTTTATATAG-TTTCATATAATAAAAT-AAAGTTGTTTTTAATATTTTAACTGTACTTTACTT
1 TTTTTTATATAGTTTTAAT-TAATAAAATAAAAGTTGTTTTTAATATTTTAATTGTACTTTACTT
*
90050702 TTTTTAATTTTATTAAAATAAATGTTCTTTTAAATTAGACAATATTTTTTATTA
65 TTTTTAATTTTATTAAAATAAATGTTATTTTAAATTAGACAATATTTTTTATTA
90050756 -TTTTTATATAGTTTTAATTAATAAAATAAAAGTTGTTTTTAATATTTTAATTGTACTTTACTTT
1 TTTTTTATATAGTTTTAATTAATAAAATAAAAGTTGTTTTTAATATTTTAATTGTACTTTACTTT
*
90050820 TTTTAATTTTATTAAAATAAATGTTATTTTAAATTAGCCAATATTTTTATTATTTTTATATTTA
66 TTTTAATTTTATTAAAATAAATGTTATTTTAAATTAG---ACA-----A-TATTTTT-TA-TTA
90050884 TTTTTTATATAGTTTTAATTAATAAAATAAAAGTTGTTTTTAATATTTTAATTGTACTTTACTTT
1 TTTTTTATATAGTTTTAATTAATAAAATAAAAGTTGTTTTTAATATTTTAATTGTACTTTACTTT
* * * *
90050949 TTTTAATTTTAATACAACAAATGTTATTTTAAATTAGCCAATATTTTTTATTA
66 TTTTAATTTTATTAAAATAAATGTTATTTTAAATTAGACAATATTTTTTATTA
90051002 AAATAAATGT
Statistics
Matches: 223, Mismatches: 9, Indels: 27
0.86 0.03 0.10
Matches are distributed among these distances:
116 20 0.09
117 76 0.34
118 3 0.01
119 2 0.01
120 9 0.04
121 1 0.00
125 1 0.00
126 8 0.04
127 2 0.01
128 3 0.01
129 98 0.44
ACGTcount: A:0.35, C:0.04, G:0.05, T:0.55
Consensus pattern (118 bp):
TTTTTTATATAGTTTTAATTAATAAAATAAAAGTTGTTTTTAATATTTTAATTGTACTTTACTTT
TTTTAATTTTATTAAAATAAATGTTATTTTAAATTAGACAATATTTTTTATTA
Found at i:90052394 original size:30 final size:30
Alignment explanation
Indices: 90052359--90052417 Score: 91
Period size: 30 Copynumber: 2.0 Consensus size: 30
90052349 CGCTAGGACC
* *
90052359 AAAAACGCCACTATAGATTGAGCATTAGCA
1 AAAAACACCACTATAGATCGAGCATTAGCA
*
90052389 AAAAACACCGCTATAGATCGAGCATTAGC
1 AAAAACACCACTATAGATCGAGCATTAGC
90052418 GACGCTTTCT
Statistics
Matches: 26, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
30 26 1.00
ACGTcount: A:0.42, C:0.22, G:0.17, T:0.19
Consensus pattern (30 bp):
AAAAACACCACTATAGATCGAGCATTAGCA
Found at i:90052525 original size:40 final size:39
Alignment explanation
Indices: 90052481--90052581 Score: 98
Period size: 38 Copynumber: 2.6 Consensus size: 39
90052471 TAGTGACATT
90052481 AGCGGCGCTTTTTGAAAAACGCCACTATAGATCGAGC-ATC
1 AGCGGCGCTTTTT-AAAAACGCCACTATAGATCGA-CTATC
** * * * *
90052521 AGCGGCG-TTTTTTCAAACGCCGCTATAGGTTGACTATT
1 AGCGGCGCTTTTTAAAAACGCCACTATAGATCGACTATC
*
90052559 AGCGGCGCTTTCTAAAAAACGCC
1 AGCGGCGCTTT-TTAAAAACGCC
90052582 GCAAAAAAAT
Statistics
Matches: 49, Mismatches: 9, Indels: 6
0.77 0.14 0.09
Matches are distributed among these distances:
37 1 0.02
38 25 0.51
39 8 0.16
40 15 0.31
ACGTcount: A:0.27, C:0.25, G:0.23, T:0.26
Consensus pattern (39 bp):
AGCGGCGCTTTTTAAAAACGCCACTATAGATCGACTATC
Found at i:90052710 original size:40 final size:40
Alignment explanation
Indices: 90052640--90052735 Score: 149
Period size: 40 Copynumber: 2.4 Consensus size: 40
90052630 ATTAGTAGTC
90052640 CTTTTTGAAAAACG-CGCTATAGATCAAGCATTAGCGGCA
1 CTTTTTGAAAAACGCCGCTATAGATCAAGCATTAGCGGCA
* * *
90052679 CTTTCTGAAAAACGCCGCTATAGATCGAGCATTAGCGGCG
1 CTTTTTGAAAAACGCCGCTATAGATCAAGCATTAGCGGCA
*
90052719 CTTTTTGAAAAATGCCG
1 CTTTTTGAAAAACGCCG
90052736 TAAAAATTAA
Statistics
Matches: 51, Mismatches: 5, Indels: 1
0.89 0.09 0.02
Matches are distributed among these distances:
39 13 0.25
40 38 0.75
ACGTcount: A:0.30, C:0.22, G:0.22, T:0.26
Consensus pattern (40 bp):
CTTTTTGAAAAACGCCGCTATAGATCAAGCATTAGCGGCA
Found at i:90053421 original size:43 final size:43
Alignment explanation
Indices: 90053253--90053422 Score: 100
Period size: 43 Copynumber: 4.0 Consensus size: 43
90053243 TTAAGGGTTG
* *
90053253 GGGTTAAGGGTTTATGGT-TTATG-TT-TTATGGTTTAGAGTTTAA
1 GGGTTAAGGGTTTATGATATAATGTTTATTAT--TTTAG-GTTTAA
* * *
90053296 GGGATAAGGG-TTATGATATAATATTTATTATTTTGGGGTTTAA
1 GGGTTAAGGGTTTATGATATAATGTTTATTATTTT-AGGTTTAA
* * * * * * * * **
90053339 -AGTTTATGATTTAAGATTTAAGGTTTAATA-TCCATGGTTTAA
1 GGGTTAAGGGTTTATGATATAATGTTTATTATTTTA-GGTTTAA
* *
90053381 GGGTTTAGGGTTTATGGTATAATGTTTATTATTTTAGGTTTA
1 GGGTTAAGGGTTTATGATATAATGTTTATTATTTTAGGTTTA
90053423 GAGTTTTTAA
Statistics
Matches: 91, Mismatches: 28, Indels: 16
0.67 0.21 0.12
Matches are distributed among these distances:
42 18 0.20
43 64 0.70
44 5 0.05
45 4 0.04
ACGTcount: A:0.26, C:0.01, G:0.25, T:0.48
Consensus pattern (43 bp):
GGGTTAAGGGTTTATGATATAATGTTTATTATTTTAGGTTTAA
Found at i:90058423 original size:43 final size:41
Alignment explanation
Indices: 90058263--90058447 Score: 156
Period size: 43 Copynumber: 4.3 Consensus size: 41
90058253 AAAGAACAAC
**
90058263 TTTTAGCGGCG-TTGTGGAGAAAGCGCCACTAAAGACCATGT
1 TTTTAGCGGCGTTTGTGGA-AAAGCGCCACTAAAGGTCATGT
* * *
90058304 TCTTTAGCAGCGTTTGTGAGAGAAGTGCCACTAAAGGTCATGT
1 T-TTTAGCGGCGTTTGTG-GAAAAGCGCCACTAAAGGTCATGT
* * * ***
90058347 TCTTTAGCGGTGTTTGTGGGAGAAGTGTTGCTAAAGGTCATGCT
1 T-TTTAGCGGCGTTTGT-GGAAAAGCGCCACTAAAGGTCATG-T
* *
90058391 TTTTAGCGGCGTTTGTGGCAAAAGCGTCGCTAAAGGTCATGCT
1 TTTTAGCGGCGTTTGTGG-AAAAGCGCCACTAAAGGTCATG-T
* *
90058434 CTTTAGCGGTGTTT
1 TTTTAGCGGCGTTT
90058448 TTTTTTAAAT
Statistics
Matches: 122, Mismatches: 16, Indels: 10
0.82 0.11 0.07
Matches are distributed among these distances:
41 1 0.01
42 11 0.09
43 105 0.86
44 5 0.04
ACGTcount: A:0.22, C:0.16, G:0.30, T:0.32
Consensus pattern (41 bp):
TTTTAGCGGCGTTTGTGGAAAAGCGCCACTAAAGGTCATGT
Found at i:90060580 original size:126 final size:126
Alignment explanation
Indices: 90060353--90060786 Score: 615
Period size: 126 Copynumber: 3.5 Consensus size: 126
90060343 AGTCTAAGGC
* * ** *
90060353 TTTTTCAAATACTACTGTAGCAAAAGAGCGTTTACGT-AAGAGCTTTTTTCCGTAATTTTGCTGA
1 TTTTTCAGATACTACTGTAGCAAAAGAGCATCCACGTGGA-AGCTTTTTTCCGTAATTTTGCTGA
* ** *
90060417 CAGTGTATCATTCTTGAAGTGTTTTTGACA-TTATTTGTTCAGAAACATCTTCTCAAATTTAT
65 CAGTGCATCATTCTTGAAGCATTTTTGACACTT-TTTGTTCAGAAACATCTTCTCAAAATTAT
*
90060479 TTTTTCAGATACCACTGTAGCAAAAGAGCATCCACGTAGG-AGCTTTTTTCCGTAATTTTGCTGA
1 TTTTTCAGATACTACTGTAGCAAAAGAGCATCCACGT-GGAAGCTTTTTTCCGTAATTTTGCTGA
*
90060543 CAGTGCATCATTCTTGAAGCATTTTTGACACTTTTTGTTCAGAAACATCTTCTCAAAATCAT
65 CAGTGCATCATTCTTGAAGCATTTTTGACACTTTTTGTTCAGAAACATCTTCTCAAAATTAT
*
90060605 TTTTTCAGATACTACTGTAGCAAAAGAGCATCCACGTGGTAGCTTTTTTCCGTAATTTTGCTGAC
1 TTTTTCAGATACTACTGTAGCAAAAGAGCATCCACGTGGAAGCTTTTTTCCGTAATTTTGCTGAC
* * * * * * **
90060670 CGTGCATCCTTGTTAAAGCATTTTTGATACTATTCATTCAGAAACATCTTCTCAAAATTA-
66 AGTGCATCATTCTTGAAGCATTTTTGACACTTTTTGTTCAGAAACATCTTCTCAAAATTAT
* *
90060730 TTTTTCAGATAGTACTGTAGCAAAAGAGCGTCCACGTGGAAGCTTTTTTCCGTAATT
1 TTTTTCAGATACTACTGTAGCAAAAGAGCATCCACGTGGAAGCTTTTTTCCGTAATT
90060787 AATAGTTAAT
Statistics
Matches: 280, Mismatches: 24, Indels: 9
0.89 0.08 0.03
Matches are distributed among these distances:
125 56 0.20
126 222 0.79
127 2 0.01
ACGTcount: A:0.28, C:0.18, G:0.16, T:0.38
Consensus pattern (126 bp):
TTTTTCAGATACTACTGTAGCAAAAGAGCATCCACGTGGAAGCTTTTTTCCGTAATTTTGCTGAC
AGTGCATCATTCTTGAAGCATTTTTGACACTTTTTGTTCAGAAACATCTTCTCAAAATTAT
Found at i:90065000 original size:15 final size:15
Alignment explanation
Indices: 90064980--90065009 Score: 51
Period size: 15 Copynumber: 2.0 Consensus size: 15
90064970 CAAACTATGT
*
90064980 CTCTAATTTAGGAAA
1 CTCTAAGTTAGGAAA
90064995 CTCTAAGTTAGGAAA
1 CTCTAAGTTAGGAAA
90065010 GATACTAATA
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
15 14 1.00
ACGTcount: A:0.40, C:0.13, G:0.17, T:0.30
Consensus pattern (15 bp):
CTCTAAGTTAGGAAA
Found at i:90076455 original size:44 final size:44
Alignment explanation
Indices: 90076327--90076768 Score: 154
Period size: 44 Copynumber: 9.7 Consensus size: 44
90076317 TTGCGACTTC
* *
90076327 AATCTGCTCCACTGCAATTTCAGAGAGATAAGATTCATCATGGTAACTT
1 AATCTGCTCCACTGCAACTTCAGAGAGATAAGATT--T-ATGG--ATTT
* * * **
90076376 GAT-TCGAC-CTACTGCAACTTCAGAG-GTATAGGATTTATGGCCTT
1 AATCT-G-CTCCACTGCAACTTCAGAGAG-ATAAGATTTATGGATTT
* * ***
90076420 AATCTGCTCTACTGCAACTTCAGAGAGATAAGATTTGCTATTTTT
1 AATCTGCTCCACTGCAACTTCAGAGAGATAAGATTT-ATGGATTT
* ** *
90076465 AGTCTATTCCACTGCAACTTCA-AGGAGATAAGA-CT-TGGTAATTT
1 AATCTGCTCCACTGCAACTTCAGA-GAGATAAGATTTATGG--ATTT
** * * * * *
90076509 CAAAGTACTCCACTGCATCTTCAGGGAGATAATG-TTAATGGCTTT
1 -AATCTGCTCCACTGCAACTTCAGAGAGATAA-GATTTATGGATTT
* *
90076554 AATCTGCTCTACTGCAACTTCAGAGAGATAATATTTGCCATGGTAAATTT
1 AATCTGCTCCACTGCAACTTCAGAGAGATAAGATTT---ATGG---ATTT
* * * * * **
90076604 GATCCGAC-CCACTGCAACTTCAGA-AGTATATGACTTATAGCCTT
1 AATCTG-CTCCACTGCAACTTCAGAGAG-ATAAGATTTATGGATTT
** *
90076648 AATCTGCTTTACTGCAACTTCAGAGAGATAAGA-TT-TGCTATCTT
1 AATCTGCTCCACTGCAACTTCAGAGAGATAAGATTTATG-GAT-TT
** * * *
90076692 CAATCTATTCCACTGCAACTTCAGGGAAATAAGACTTGTAT--TTTT
1 -AATCTGCTCCACTGCAACTTCAGAGAGATAAGA-TT-TATGGATTT
* * * *
90076737 AACCTGCTCCACCGCAACCTCAGGGAGATAAG
1 AATCTGCTCCACTGCAACTTCAGAGAGATAAG
90076769 GTTTGCTATT
Statistics
Matches: 291, Mismatches: 69, Indels: 71
0.68 0.16 0.16
Matches are distributed among these distances:
42 2 0.01
43 4 0.01
44 116 0.40
45 90 0.31
46 6 0.02
47 12 0.04
48 3 0.01
49 28 0.10
50 29 0.10
51 1 0.00
ACGTcount: A:0.30, C:0.21, G:0.17, T:0.31
Consensus pattern (44 bp):
AATCTGCTCCACTGCAACTTCAGAGAGATAAGATTTATGGATTT
Found at i:90076687 original size:228 final size:227
Alignment explanation
Indices: 90076291--90076774 Score: 650
Period size: 228 Copynumber: 2.1 Consensus size: 227
90076281 TCGTTCTATC
* *
90076291 CCACTGCATCTTCAGGGGGATAAGGTTTGCGACTTCAATCTGCTCCACTGCAATTTCAGAGAGAT
1 CCACTGCATCTTCAGGGAGATAAGGTTTGCGACTTCAATCTGCTCCACTGCAACTTCAGAGAGAT
* * * * * *
90076356 AAGATTCATCATGGTAACTTGATTCGACCTACTGCAACTTCAGAGGTATAGGATTTATGGCCTTA
66 AAGATTCACCATGGTAACTTGATCCGACCCACTGCAACTTCAGAAGTATAGGACTTATAGCCTTA
* * *
90076421 ATCTGCTCTACTGCAACTTCAGAGAGATAAGATTTGCTATTTTTAGTCTATTCCACTGCAACTTC
131 ATCTGCTCTACTGCAACTTCAGAGAGATAAGATTTGCTATCTTCAATCTATTCCACTGCAACTTC
*
90076486 AAGGAGATAAGACTTGGTAATTTCAAAGTACT
196 AAGGAAATAAGACTTGGTAATTTCAAAGTACT
* * *
90076518 CCACTGCATCTTCAGGGAGATAATGTTAATG-G-CTTTAATCTGCTCTACTGCAACTTCAGAGAG
1 CCACTGCATCTTCAGGGAGATAAGGTT--TGCGACTTCAATCTGCTCCACTGCAACTTCAGAGAG
* ** * *
90076581 ATAATATTTGCCATGGTAAATTTGATCCGACCCACTGCAACTTCAGAAGTATATGACTTATAGCC
64 ATAAGATTCACCATGGT-AACTTGATCCGACCCACTGCAACTTCAGAAGTATAGGACTTATAGCC
*
90076646 TTAATCTGCTTTACTGCAACTTCAGAGAGATAAGATTTGCTATCTTCAATCTATTCCACTGCAAC
128 TTAATCTGCTCTACTGCAACTTCAGAGAGATAAGATTTGCTATCTTCAATCTATTCCACTGCAAC
* * * ** *
90076711 TTCAGGGAAATAAGACTT-GTATTTTTAACCTGCT
193 TTCAAGGAAATAAGACTTGGTAATTTCAAAGTACT
* * *
90076745 CCACCGCAACCTCAGGGAGATAAGGTTTGC
1 CCACTGCATCTTCAGGGAGATAAGGTTTGC
90076775 TATTCTTCGA
Statistics
Matches: 222, Mismatches: 31, Indels: 9
0.85 0.12 0.03
Matches are distributed among these distances:
225 2 0.01
227 100 0.45
228 118 0.53
229 2 0.01
ACGTcount: A:0.29, C:0.21, G:0.18, T:0.31
Consensus pattern (227 bp):
CCACTGCATCTTCAGGGAGATAAGGTTTGCGACTTCAATCTGCTCCACTGCAACTTCAGAGAGAT
AAGATTCACCATGGTAACTTGATCCGACCCACTGCAACTTCAGAAGTATAGGACTTATAGCCTTA
ATCTGCTCTACTGCAACTTCAGAGAGATAAGATTTGCTATCTTCAATCTATTCCACTGCAACTTC
AAGGAAATAAGACTTGGTAATTTCAAAGTACT
Found at i:90076871 original size:44 final size:44
Alignment explanation
Indices: 90076657--90076905 Score: 124
Period size: 44 Copynumber: 5.6 Consensus size: 44
90076647 TAATCTGCTT
* * *
90076657 TACTGCAACTTC-AGAGAGATAAGATTTGCTATCTTCAATCTATTC
1 TACTGCAACTTCAAG-GAGATAAGATTTG-TAACTTCAATATACTC
* * * * ** * ** *
90076702 CACTGCAACTTCAGGGAAATAAGACTTGTATTTTTAACCTGCTC
1 TACTGCAACTTCAAGGAGATAAGATTTGTAACTTCAATATACTC
* * * * * * * * *
90076746 CACCGCAACCTCAGGGAGATAAGGTTTGCTATTCTTCGATCTATTC
1 TACTGCAACTTCAAGGAGATAAGATTTG-TA-ACTTCAATATACTC
** * * * * *
90076792 CGCTGCCACTTTAGGGAGATGAGATCTGTAACTTCAATATACTCC
1 TACTGCAACTTCAAGGAGATAAGATTTGTAACTTCAATATACT-C
* * * *
90076837 T-CTGTAACTTCAAGGAGATAAGATTTGTGACTTCAATTTGCTC
1 TACTGCAACTTCAAGGAGATAAGATTTGTAACTTCAATATACTC
* *
90076880 TACTGCAACTTCAGGGAGACAAGATT
1 TACTGCAACTTCAAGGAGATAAGATT
90076906 CGCCATGGTG
Statistics
Matches: 154, Mismatches: 45, Indels: 11
0.73 0.21 0.05
Matches are distributed among these distances:
43 2 0.01
44 96 0.62
45 27 0.18
46 29 0.19
ACGTcount: A:0.29, C:0.22, G:0.18, T:0.32
Consensus pattern (44 bp):
TACTGCAACTTCAAGGAGATAAGATTTGTAACTTCAATATACTC
Found at i:90085032 original size:19 final size:20
Alignment explanation
Indices: 90084995--90085037 Score: 52
Period size: 19 Copynumber: 2.2 Consensus size: 20
90084985 GGTCTTTTCG
* * *
90084995 TGAAATTTAATGCATATG-A
1 TGAAATGTAATACAAATGAA
90085014 TGAAATGTAATACAAATGAA
1 TGAAATGTAATACAAATGAA
90085034 TGAA
1 TGAA
90085038 TGCAAAAAGA
Statistics
Matches: 20, Mismatches: 3, Indels: 1
0.83 0.12 0.04
Matches are distributed among these distances:
19 15 0.75
20 5 0.25
ACGTcount: A:0.49, C:0.05, G:0.16, T:0.30
Consensus pattern (20 bp):
TGAAATGTAATACAAATGAA
Found at i:90096530 original size:12 final size:12
Alignment explanation
Indices: 90096511--90096560 Score: 64
Period size: 12 Copynumber: 4.0 Consensus size: 12
90096501 TGATTTTCTC
90096511 AAAATGGAAATG
1 AAAATGGAAATG
**
90096523 GGAATGGAAATG
1 AAAATGGAAATG
90096535 AAAATGGAAATG
1 AAAATGGAAATG
90096547 AAAAATGAGAAATG
1 -AAAATG-GAAATG
90096561 CAATGATTCA
Statistics
Matches: 32, Mismatches: 4, Indels: 2
0.84 0.11 0.05
Matches are distributed among these distances:
12 20 0.62
13 6 0.19
14 6 0.19
ACGTcount: A:0.56, C:0.00, G:0.28, T:0.16
Consensus pattern (12 bp):
AAAATGGAAATG
Found at i:90096559 original size:7 final size:6
Alignment explanation
Indices: 90096512--90096560 Score: 53
Period size: 6 Copynumber: 7.8 Consensus size: 6
90096502 GATTTTCTCA
* * *
90096512 AAATGG AAATGG GAATGG AAATGA AAATGG AAATGAA AAATGAG AAATG
1 AAATGG AAATGG AAATGG AAATGG AAATGG AAATG-G AAATG-G AAATG
90096561 CAATGATTCA
Statistics
Matches: 36, Mismatches: 6, Indels: 1
0.84 0.14 0.02
Matches are distributed among these distances:
6 25 0.69
7 11 0.31
ACGTcount: A:0.55, C:0.00, G:0.29, T:0.16
Consensus pattern (6 bp):
AAATGG
Found at i:90115584 original size:40 final size:40
Alignment explanation
Indices: 90115540--90115765 Score: 232
Period size: 40 Copynumber: 5.7 Consensus size: 40
90115530 GCTCCTCGTT
* *
90115540 CAAATGCCTTCGGGACATAGCCCGG-TTATAGTAATTCACA
1 CAAATGCCTTCGGGACTTAGCCCGGATT-TAGTAATTCGCA
* *
90115580 CAAATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGATTTAGTAATTCGCA
*
90115620 CAAATGCCTTC-GGATCTTAGTCCGGATTTAGT-ATCTCGCA
1 CAAATGCCTTCGGGA-CTTAGCCCGGATTTAGTAAT-TCGCA
* *
90115660 CAAATGCCTTC-GGATCTTAGTCCGGATTTAGT-ATCTCGTA
1 CAAATGCCTTCGGGA-CTTAGCCCGGATTTAGTAAT-TCGCA
* * * * *
90115700 CAAATGCCTTC-GGATCTTAGTCCGGATATGGTCACTTAGCA
1 CAAATGCCTTCGGGA-CTTAGCCCGGATTTAGT-AATTCGCA
90115741 CAAA-GCCTTCGGGACTTAGCCCGGA
1 CAAATGCCTTCGGGACTTAGCCCGGA
90115766 CATCATTCAA
Statistics
Matches: 166, Mismatches: 14, Indels: 12
0.86 0.07 0.06
Matches are distributed among these distances:
39 4 0.02
40 149 0.90
41 12 0.07
42 1 0.01
ACGTcount: A:0.25, C:0.26, G:0.21, T:0.28
Consensus pattern (40 bp):
CAAATGCCTTCGGGACTTAGCCCGGATTTAGTAATTCGCA
Found at i:90115652 original size:80 final size:80
Alignment explanation
Indices: 90115540--90115765 Score: 266
Period size: 80 Copynumber: 2.8 Consensus size: 80
90115530 GCTCCTCGTT
* * *
90115540 CAAATGCCTTCGGGA-CATAGCCCGG-TTATAGTAATTCACACAAATGCCTTCGGGACTTAACCC
1 CAAATGCCTTC-GGATCTTAGTCCGGATT-TAGTAATTCACACAAATGCCTTCGGGACTTAGCCC
90115603 GGATTTAGTAACTCGCA
64 GGATTTAGTAACTCGCA
* *
90115620 CAAATGCCTTCGGATCTTAGTCCGGATTTAGT-ATCTCGCACAAATGCCTTC-GGATCTTAGTCC
1 CAAATGCCTTCGGATCTTAGTCCGGATTTAGTAAT-TCACACAAATGCCTTCGGGA-CTTAGCCC
* *
90115683 GGATTTAGTATCTCGTA
64 GGATTTAGTAACTCGCA
* * *
90115700 CAAATGCCTTCGGATCTTAGTCCGGATATGGTCACTT-AGCACAAA-GCCTTCGGGACTTAGCCC
1 CAAATGCCTTCGGATCTTAGTCCGGATTTAGT-AATTCA-CACAAATGCCTTCGGGACTTAGCCC
90115763 GGA
64 GGA
90115766 CATCATTCAA
Statistics
Matches: 126, Mismatches: 12, Indels: 16
0.82 0.08 0.10
Matches are distributed among these distances:
79 8 0.06
80 105 0.83
81 12 0.10
82 1 0.01
ACGTcount: A:0.25, C:0.26, G:0.21, T:0.28
Consensus pattern (80 bp):
CAAATGCCTTCGGATCTTAGTCCGGATTTAGTAATTCACACAAATGCCTTCGGGACTTAGCCCGG
ATTTAGTAACTCGCA
Found at i:90123380 original size:40 final size:40
Alignment explanation
Indices: 90123336--90123561 Score: 241
Period size: 40 Copynumber: 5.7 Consensus size: 40
90123326 GCTCCTCGTT
* *
90123336 CAAATGCCTTCGGGA-CATAGCCCGG-TTATAGTAATTCACA
1 CAAATGCCTTC-GGATCTTAGCCCGGATT-TAGTAATTCGCA
* *
90123376 CAAATGCCTTCGGGA-CTTAACCCGGATTTAGTAACTCGCA
1 CAAATGCCTTC-GGATCTTAGCCCGGATTTAGTAATTCGCA
*
90123416 CAAATGCCTTCGGATCTTAGTCCGGATTTAGT-ATCTCGCA
1 CAAATGCCTTCGGATCTTAGCCCGGATTTAGTAAT-TCGCA
*
90123456 CAAATGCCTTCGGATCTTAGTCCGGATTTAGT-ATCTCGCA
1 CAAATGCCTTCGGATCTTAGCCCGGATTTAGTAAT-TCGCA
* * * * *
90123496 CAAATGCCTTCGGATCTTAGTCCGGATATGGTCACTTAGCA
1 CAAATGCCTTCGGATCTTAGCCCGGATTTAGT-AATTCGCA
90123537 CAAA-GCCTTCGGGA-CTTAGCCCGGA
1 CAAATGCCTTC-GGATCTTAGCCCGGA
90123562 CATCATTCAA
Statistics
Matches: 168, Mismatches: 12, Indels: 12
0.88 0.06 0.06
Matches are distributed among these distances:
39 4 0.02
40 150 0.89
41 13 0.08
42 1 0.01
ACGTcount: A:0.25, C:0.26, G:0.21, T:0.27
Consensus pattern (40 bp):
CAAATGCCTTCGGATCTTAGCCCGGATTTAGTAATTCGCA
Found at i:90123448 original size:80 final size:80
Alignment explanation
Indices: 90123336--90123561 Score: 275
Period size: 80 Copynumber: 2.8 Consensus size: 80
90123326 GCTCCTCGTT
* * *
90123336 CAAATGCCTTCGGGA-CATAGCCCGG-TTATAGTAATTCACACAAATGCCTTCGGGACTTAACCC
1 CAAATGCCTTC-GGATCTTAGTCCGGATT-TAGTAATTCACACAAATGCCTTCGGGACTTAGCCC
90123399 GGATTTAGTAACTCGCA
64 GGATTTAGTAACTCGCA
* *
90123416 CAAATGCCTTCGGATCTTAGTCCGGATTTAGT-ATCTCGCACAAATGCCTTC-GGATCTTAGTCC
1 CAAATGCCTTCGGATCTTAGTCCGGATTTAGTAAT-TCACACAAATGCCTTCGGGA-CTTAGCCC
*
90123479 GGATTTAGTATCTCGCA
64 GGATTTAGTAACTCGCA
* * *
90123496 CAAATGCCTTCGGATCTTAGTCCGGATATGGTCACTT-AGCACAAA-GCCTTCGGGACTTAGCCC
1 CAAATGCCTTCGGATCTTAGTCCGGATTTAGT-AATTCA-CACAAATGCCTTCGGGACTTAGCCC
90123559 GGA
64 GGA
90123562 CATCATTCAA
Statistics
Matches: 127, Mismatches: 11, Indels: 16
0.82 0.07 0.10
Matches are distributed among these distances:
79 8 0.06
80 106 0.83
81 12 0.09
82 1 0.01
ACGTcount: A:0.25, C:0.26, G:0.21, T:0.27
Consensus pattern (80 bp):
CAAATGCCTTCGGATCTTAGTCCGGATTTAGTAATTCACACAAATGCCTTCGGGACTTAGCCCGG
ATTTAGTAACTCGCA
Found at i:90123545 original size:120 final size:120
Alignment explanation
Indices: 90123336--90123561 Score: 266
Period size: 120 Copynumber: 1.9 Consensus size: 120
90123326 GCTCCTCGTT
90123336 CAAATGCCTTCGGGACATAGCCCGGTTATAGTAATTCACACAAATGCCTTCGGGACTTAACCCGG
1 CAAATGCCTTCGGGACATAGCCCGGTTATAGTAATTCACACAAATGCCTTCGGGACTTAACCCGG
* * *
90123401 ATTTAGTAACTCGCACAAATGCCTTC-GGATCTTAGTCCGGATTTAGTATCTCGCA
66 ATATAGTAACTAGCACAAATGCCTTCGGGA-CTTAGCCCGGATTTAGTATCTCGCA
* * * **
90123456 CAAATGCCTTC-GGATCTTAGTCCGGATT-TAGT-ATCTCGCACAAATGCCTTC-GGATCTTAGT
1 CAAATGCCTTCGGGA-CATAGCCCGG-TTATAGTAAT-TCACACAAATGCCTTCGGGA-CTTAAC
* *
90123517 CCGGATATGGTCACTTAGCACAAA-GCCTTCGGGACTTAGCCCGGA
62 CCGGATATAGTAAC-TAGCACAAATGCCTTCGGGACTTAGCCCGGA
90123562 CATCATTCAA
Statistics
Matches: 90, Mismatches: 10, Indels: 12
0.80 0.09 0.11
Matches are distributed among these distances:
119 8 0.09
120 69 0.77
121 13 0.14
ACGTcount: A:0.25, C:0.26, G:0.21, T:0.27
Consensus pattern (120 bp):
CAAATGCCTTCGGGACATAGCCCGGTTATAGTAATTCACACAAATGCCTTCGGGACTTAACCCGG
ATATAGTAACTAGCACAAATGCCTTCGGGACTTAGCCCGGATTTAGTATCTCGCA
Found at i:90129093 original size:39 final size:39
Alignment explanation
Indices: 90129039--90129116 Score: 156
Period size: 39 Copynumber: 2.0 Consensus size: 39
90129029 TACTTAAAGC
90129039 ATCGACGACCACATTCGCCTTTCCTGGAAGGTAGTCAAT
1 ATCGACGACCACATTCGCCTTTCCTGGAAGGTAGTCAAT
90129078 ATCGACGACCACATTCGCCTTTCCTGGAAGGTAGTCAAT
1 ATCGACGACCACATTCGCCTTTCCTGGAAGGTAGTCAAT
90129117 CACTAATTCG
Statistics
Matches: 39, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
39 39 1.00
ACGTcount: A:0.26, C:0.28, G:0.21, T:0.26
Consensus pattern (39 bp):
ATCGACGACCACATTCGCCTTTCCTGGAAGGTAGTCAAT
Found at i:90129455 original size:14 final size:14
Alignment explanation
Indices: 90129436--90129465 Score: 60
Period size: 14 Copynumber: 2.1 Consensus size: 14
90129426 AGGTTGTACT
90129436 AAAATCCTTTAACA
1 AAAATCCTTTAACA
90129450 AAAATCCTTTAACA
1 AAAATCCTTTAACA
90129464 AA
1 AA
90129466 CCATCGATAG
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 16 1.00
ACGTcount: A:0.53, C:0.20, G:0.00, T:0.27
Consensus pattern (14 bp):
AAAATCCTTTAACA
Found at i:90133640 original size:28 final size:28
Alignment explanation
Indices: 90133598--90133709 Score: 109
Period size: 28 Copynumber: 4.0 Consensus size: 28
90133588 CATGACTGTA
*
90133598 AATGTGATTTAGGCCTAGT-GGCCATATG
1 AATGTGA-TTGGGCCTAGTGGGCCATATG
* ** *
90133626 AATGTGATTTGGGCCTAATGGGCCACGTA
1 AATGTGA-TTGGGCCTAGTGGGCCATATG
* **
90133655 AATGTGAATGGGCCTAAAGGGCCATATG
1 AATGTGATTGGGCCTAGTGGGCCATATG
* *
90133683 AAAGAGATTGGGCCTAGTGGGCCATAT
1 AATGTGATTGGGCCTAGTGGGCCATAT
90133710 ATATAGGTAT
Statistics
Matches: 68, Mismatches: 15, Indels: 2
0.80 0.18 0.02
Matches are distributed among these distances:
28 55 0.81
29 13 0.19
ACGTcount: A:0.28, C:0.15, G:0.31, T:0.26
Consensus pattern (28 bp):
AATGTGATTGGGCCTAGTGGGCCATATG
Found at i:90146610 original size:63 final size:61
Alignment explanation
Indices: 90146534--90146676 Score: 198
Period size: 62 Copynumber: 2.3 Consensus size: 61
90146524 TAAAGTAGGC
* *
90146534 TATATATTATTATTTTTATT-AATTCATATTTTAATAATAATTATATTAAGAATGTTATTAAAT
1 TATATATTATTATTTTTATTAAATTC-TA-TTTAATAATAATTATATTAA-AATATGATTAAAT
*
90146597 TATATATTTTTATTTTTATTAAATTCTATTTAATAATAATTATATTAAAATATGATTAAAT
1 TATATATTATTATTTTTATTAAATTCTATTTAATAATAATTATATTAAAATATGATTAAAT
* *
90146658 TATTTGTTATTATTATTTA
1 TATATATTATTATT-TTTA
90146677 ATTATATTTA
Statistics
Matches: 72, Mismatches: 6, Indels: 5
0.87 0.07 0.06
Matches are distributed among these distances:
61 22 0.31
62 24 0.33
63 21 0.29
64 5 0.07
ACGTcount: A:0.40, C:0.01, G:0.03, T:0.56
Consensus pattern (61 bp):
TATATATTATTATTTTTATTAAATTCTATTTAATAATAATTATATTAAAATATGATTAAAT
Found at i:90146690 original size:58 final size:62
Alignment explanation
Indices: 90146534--90146690 Score: 198
Period size: 58 Copynumber: 2.6 Consensus size: 62
90146524 TAAAGTAGGC
* * *
90146534 TATATATTATTATTTTTA-TTAATTCATATTTTAATAATAATTATATTAAGAATGTTATTAAAT
1 TATATATTGTTATTTTTATTTAATT-ATA-TTTAATAATAATTATATTAAGAATATGATTAAAT
* * *
90146597 TATATATTTTTATTTTTATTAAATTCTATTTAATAATAATTATATTAA-AATATGATTAAA-
1 TATATATTGTTATTTTTATTTAATTATATTTAATAATAATTATATTAAGAATATGATTAAAT
*
90146657 T-TAT-TTGTTATTATTATTTAATTATATTTAATAA
1 TATATATTGTTATTTTTATTTAATTATATTTAATAA
90146691 CAATAATCAT
Statistics
Matches: 84, Mismatches: 9, Indels: 7
0.84 0.09 0.07
Matches are distributed among these distances:
58 26 0.31
59 3 0.04
60 1 0.01
61 10 0.12
62 20 0.24
63 19 0.23
64 5 0.06
ACGTcount: A:0.41, C:0.01, G:0.03, T:0.55
Consensus pattern (62 bp):
TATATATTGTTATTTTTATTTAATTATATTTAATAATAATTATATTAAGAATATGATTAAAT
Found at i:90158451 original size:49 final size:50
Alignment explanation
Indices: 90158394--90158493 Score: 175
Period size: 50 Copynumber: 2.0 Consensus size: 50
90158384 AATAAAAATA
* *
90158394 AATCATTCAAATTGGAGTG-ATAAAAGGAAAATAAGAAGCAATTCCTCTT
1 AATCATTCAAATTGGAGTGAAAAAAAGGAAAATAAGAAGCAACTCCTCTT
90158443 AATCATTCAAATTGGAGTGAAAAAAAGGAAAATAAGAAGCAACTCCTCTT
1 AATCATTCAAATTGGAGTGAAAAAAAGGAAAATAAGAAGCAACTCCTCTT
90158493 A
1 A
90158494 CTTTTCAATT
Statistics
Matches: 48, Mismatches: 2, Indels: 1
0.94 0.04 0.02
Matches are distributed among these distances:
49 19 0.40
50 29 0.60
ACGTcount: A:0.47, C:0.13, G:0.16, T:0.24
Consensus pattern (50 bp):
AATCATTCAAATTGGAGTGAAAAAAAGGAAAATAAGAAGCAACTCCTCTT
Found at i:90167785 original size:210 final size:210
Alignment explanation
Indices: 90167418--90167838 Score: 797
Period size: 210 Copynumber: 2.0 Consensus size: 210
90167408 CTAGGATGAT
*
90167418 AAGCATTCAACAAGCTCCTATGCTTTATGAAGTTTTCAAGATAATCAAGTAGTTTGCAAGAATAT
1 AAGCATTCAACAAGCTCCTATGCTTTATGAAATTTTCAAGATAATCAAGTAGTTTGCAAGAATAT
90167483 CTAAAAGCTCAAATGTCTACCAAAATTATAAATATTCATTTGGAGATGTTGTCAAAATTTCATTG
66 CTAAAAGCTCAAATGTCTACCAAAATTATAAATATTCATTTGGAGATGTTGTCAAAATTTCATTG
90167548 CCTCAAAGGAGAATCTCATAAAAAGACATAAAAATAGGATGGACAAATGCCATAGATGCAAGAAT
131 CCTCAAAGGAGAATCTCATAAAAAGACATAAAAATAGGATGGACAAATGCCATAGATGCAAGAAT
90167613 ATGATGGATCAATTG
196 ATGATGGATCAATTG
90167628 AAGCATTCAACAAGCTCCTATGCTTTATGAAATTTTCAAGATAATCAAGTAGTTTGCAAGAATAT
1 AAGCATTCAACAAGCTCCTATGCTTTATGAAATTTTCAAGATAATCAAGTAGTTTGCAAGAATAT
**
90167693 CTAAAAGCTCAAATGTCTACCAAAATTATAAATATTCATTTGGAGATGTTGTTGAAATTTCATTG
66 CTAAAAGCTCAAATGTCTACCAAAATTATAAATATTCATTTGGAGATGTTGTCAAAATTTCATTG
* *
90167758 CCTCAAAGGAGAATCTGATAGAAAGACATAAAAATAGGATGGACAAATGCCATAGATGCAAGAAT
131 CCTCAAAGGAGAATCTCATAAAAAGACATAAAAATAGGATGGACAAATGCCATAGATGCAAGAAT
90167823 ATGATGGATCAATTG
196 ATGATGGATCAATTG
90167838 A
1 A
90167839 GCACTTGTTT
Statistics
Matches: 206, Mismatches: 5, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
210 206 1.00
ACGTcount: A:0.41, C:0.14, G:0.17, T:0.29
Consensus pattern (210 bp):
AAGCATTCAACAAGCTCCTATGCTTTATGAAATTTTCAAGATAATCAAGTAGTTTGCAAGAATAT
CTAAAAGCTCAAATGTCTACCAAAATTATAAATATTCATTTGGAGATGTTGTCAAAATTTCATTG
CCTCAAAGGAGAATCTCATAAAAAGACATAAAAATAGGATGGACAAATGCCATAGATGCAAGAAT
ATGATGGATCAATTG
Found at i:90171683 original size:43 final size:43
Alignment explanation
Indices: 90171612--90171746 Score: 134
Period size: 43 Copynumber: 3.1 Consensus size: 43
90171602 GGCTCGTACA
* * *
90171612 ATGCCAATGTCCTAGAC-GTGGTCATACATGTAATCAAATATCG
1 ATGCCACTGTCCCAGACAG-GGTCTTACATGTAATCAAATATCG
*
90171655 ATGCCACTGTCCCAGACAGGGTCTTACATGAAATCAAATA-CG
1 ATGCCACTGTCCCAGACAGGGTCTTACATGTAATCAAATATCG
* * * *
90171697 ATGCCAAC-ATCCCAGACATGGTCTTACACGTAAATCATAA-GTCG
1 ATGCC-ACTGTCCCAGACAGGGTCTTACATGT-AATCA-AATATCG
90171741 ATGCCA
1 ATGCCA
90171747 ACGTCCTAGG
Statistics
Matches: 78, Mismatches: 9, Indels: 10
0.80 0.09 0.10
Matches are distributed among these distances:
42 26 0.33
43 42 0.54
44 10 0.13
ACGTcount: A:0.33, C:0.25, G:0.18, T:0.24
Consensus pattern (43 bp):
ATGCCACTGTCCCAGACAGGGTCTTACATGTAATCAAATATCG
Found at i:90176961 original size:25 final size:25
Alignment explanation
Indices: 90176924--90176983 Score: 93
Period size: 25 Copynumber: 2.4 Consensus size: 25
90176914 TTCTGTATAT
90176924 AGGCTTTCCAGAGGACTTGCCACAA
1 AGGCTTTCCAGAGGACTTGCCACAA
* *
90176949 AGGCTTTCTAGAGGACTTGCCATAA
1 AGGCTTTCCAGAGGACTTGCCACAA
*
90176974 ATGCTTTCCA
1 AGGCTTTCCA
90176984 AATAATGCAC
Statistics
Matches: 31, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
25 31 1.00
ACGTcount: A:0.27, C:0.25, G:0.22, T:0.27
Consensus pattern (25 bp):
AGGCTTTCCAGAGGACTTGCCACAA
Found at i:90177059 original size:23 final size:25
Alignment explanation
Indices: 90177033--90177080 Score: 73
Period size: 25 Copynumber: 2.0 Consensus size: 25
90177023 AAATGCTTCC
90177033 CAAATAATACG-C-CATAGGCTTTT
1 CAAATAATACGCCACATAGGCTTTT
*
90177056 CAAATAATATGCCACATAGGCTTTT
1 CAAATAATACGCCACATAGGCTTTT
90177081 TAGATAACAA
Statistics
Matches: 22, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
23 10 0.45
24 1 0.05
25 11 0.50
ACGTcount: A:0.35, C:0.21, G:0.12, T:0.31
Consensus pattern (25 bp):
CAAATAATACGCCACATAGGCTTTT
Found at i:90177157 original size:76 final size:75
Alignment explanation
Indices: 90176981--90177195 Score: 258
Period size: 76 Copynumber: 2.9 Consensus size: 75
90176971 TAAATGCTTT
* * * *
90176981 CCAAATAATGCACCACATATGCTTTTTGAGATAACTAGCTAGAAATGCTTCCCAAATAATAC-GC
1 CCAAATAATACACCACATAGGCTTTTTGAGATAACTAGCTACAAATGCTTCCCAAATAATACACC
* * *
90177045 CATAGGCTTT
66 CATAAGATTC
* ** *
90177055 TCAAATAATATGCCACATAGGCTTTTT-AGATAACAAGCTACAAA-GCACTTCCCAAATAATACA
1 CCAAATAATACACCACATAGGCTTTTTGAGATAACTAGCTACAAATG--CTTCCCAAATAATACA
90177118 CCCAATAAGATTC
64 CCC-ATAAGATTC
*
90177131 CCAAACAATACACCACATAGGCTTTTTGAGATAACTAGAC-ACAAATGCTTCCCAAATAATACAC
1 CCAAATAATACACCACATAGGCTTTTTGAGATAACTAG-CTACAAATGCTTCCCAAATAATACAC
90177195 C
65 C
90177196 ATAGGCTTTT
Statistics
Matches: 118, Mismatches: 16, Indels: 12
0.81 0.11 0.08
Matches are distributed among these distances:
72 1 0.01
73 15 0.13
74 37 0.31
75 2 0.02
76 47 0.40
77 14 0.12
78 2 0.02
ACGTcount: A:0.40, C:0.25, G:0.11, T:0.25
Consensus pattern (75 bp):
CCAAATAATACACCACATAGGCTTTTTGAGATAACTAGCTACAAATGCTTCCCAAATAATACACC
CATAAGATTC
Found at i:90177224 original size:48 final size:51
Alignment explanation
Indices: 90177128--90177228 Score: 154
Period size: 48 Copynumber: 2.0 Consensus size: 51
90177118 CCCAATAAGA
*
90177128 TTCCCAAACAATACACCACATAGGCTTTTTGAGATAACTAGACACAAATGC
1 TTCCCAAACAATACACCACATAGGCTTTTTCAGATAACTAGACACAAATGC
* *
90177179 TTCCCAAATAATACA-C-CATAGGC-TTTTCAGATAACTATACACAAATGC
1 TTCCCAAACAATACACCACATAGGCTTTTTCAGATAACTAGACACAAATGC
90177227 TT
1 TT
90177229 GTTTGGTTTG
Statistics
Matches: 47, Mismatches: 3, Indels: 3
0.89 0.06 0.06
Matches are distributed among these distances:
48 25 0.53
49 7 0.15
50 1 0.02
51 14 0.30
ACGTcount: A:0.39, C:0.25, G:0.10, T:0.27
Consensus pattern (51 bp):
TTCCCAAACAATACACCACATAGGCTTTTTCAGATAACTAGACACAAATGC
Found at i:90182446 original size:6 final size:6
Alignment explanation
Indices: 90182435--90182473 Score: 51
Period size: 6 Copynumber: 6.5 Consensus size: 6
90182425 GGAATACACT
* * *
90182435 GTAATA GTAATA GTAACA GTAACA GCAACA GTAACA GTA
1 GTAACA GTAACA GTAACA GTAACA GTAACA GTAACA GTA
90182474 GTAGTAGCGA
Statistics
Matches: 30, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
6 30 1.00
ACGTcount: A:0.49, C:0.13, G:0.18, T:0.21
Consensus pattern (6 bp):
GTAACA
Found at i:90182986 original size:3 final size:3
Alignment explanation
Indices: 90182968--90183016 Score: 50
Period size: 3 Copynumber: 17.0 Consensus size: 3
90182958 TTTACTTTTA
* *
90182968 ATT ATT A-T ATT A-T ATT ATT ATT A-T ATT TTT AGTA ATT ATT ATT
1 ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT A-TT ATT ATT ATT
90183011 ATT ATT
1 ATT ATT
90183017 TACTTATAAT
Statistics
Matches: 38, Mismatches: 4, Indels: 8
0.76 0.08 0.16
Matches are distributed among these distances:
2 6 0.16
3 30 0.79
4 2 0.05
ACGTcount: A:0.35, C:0.00, G:0.02, T:0.63
Consensus pattern (3 bp):
ATT
Found at i:90186313 original size:46 final size:46
Alignment explanation
Indices: 90186257--90186379 Score: 183
Period size: 46 Copynumber: 2.7 Consensus size: 46
90186247 GATATTTGGG
*
90186257 CATCCAAACTCGTTGAGTTGAGTCCGAGTTCACTTATAGATGCGAA
1 CATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATAGATGCGAA
* * *
90186303 CATCCGAACTCGTTGAGCTGAGTCCGAGTTCAGTTATGGATGCGAA
1 CATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATAGATGCGAA
* * *
90186349 CGTCCGAACTAGTTGAGTTGAGTCCTAGTTC
1 CATCCGAACTCGTTGAGTTGAGTCCGAGTTC
90186380 GTGAAATGTA
Statistics
Matches: 69, Mismatches: 8, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
46 69 1.00
ACGTcount: A:0.24, C:0.22, G:0.25, T:0.28
Consensus pattern (46 bp):
CATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATAGATGCGAA
Found at i:90189114 original size:15 final size:15
Alignment explanation
Indices: 90189091--90189150 Score: 66
Period size: 15 Copynumber: 4.0 Consensus size: 15
90189081 GTATCGTATC
*
90189091 TTGGGTTTCTTTATT
1 TTGGATTTCTTTATT
90189106 TTGGATTTCTTTATT
1 TTGGATTTCTTTATT
* * * *
90189121 CTGGGTTTCTCTATC
1 TTGGATTTCTTTATT
*
90189136 TTAGATTTCTTTATT
1 TTGGATTTCTTTATT
90189151 CAGTTTTCTT
Statistics
Matches: 35, Mismatches: 10, Indels: 0
0.78 0.22 0.00
Matches are distributed among these distances:
15 35 1.00
ACGTcount: A:0.12, C:0.12, G:0.15, T:0.62
Consensus pattern (15 bp):
TTGGATTTCTTTATT
Found at i:90189128 original size:30 final size:30
Alignment explanation
Indices: 90189092--90189151 Score: 93
Period size: 30 Copynumber: 2.0 Consensus size: 30
90189082 TATCGTATCT
* * *
90189092 TGGGTTTCTTTATTTTGGATTTCTTTATTC
1 TGGGTTTCTCTATCTTAGATTTCTTTATTC
90189122 TGGGTTTCTCTATCTTAGATTTCTTTATTC
1 TGGGTTTCTCTATCTTAGATTTCTTTATTC
90189152 AGTTTTCTTG
Statistics
Matches: 27, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
30 27 1.00
ACGTcount: A:0.12, C:0.13, G:0.15, T:0.60
Consensus pattern (30 bp):
TGGGTTTCTCTATCTTAGATTTCTTTATTC
Found at i:90191648 original size:46 final size:46
Alignment explanation
Indices: 90191593--90191703 Score: 195
Period size: 46 Copynumber: 2.4 Consensus size: 46
90191583 CCAAACTCAT
90191593 TGAGTTGAGTCCGAGTTCACTTATGGATGCGAACATCCGAACTCGC
1 TGAGTTGAGTCCGAGTTCACTTATGGATGCGAACATCCGAACTCGC
* * *
90191639 TGAGCTGAGTCCGAGTTCACTTATGGATGCGAACGTCCGAACTCGT
1 TGAGTTGAGTCCGAGTTCACTTATGGATGCGAACATCCGAACTCGC
90191685 TGAGTTGAGTCCGAGTTCA
1 TGAGTTGAGTCCGAGTTCA
90191704 TGAAATGTAA
Statistics
Matches: 61, Mismatches: 4, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
46 61 1.00
ACGTcount: A:0.23, C:0.23, G:0.28, T:0.27
Consensus pattern (46 bp):
TGAGTTGAGTCCGAGTTCACTTATGGATGCGAACATCCGAACTCGC
Found at i:90195765 original size:39 final size:39
Alignment explanation
Indices: 90195722--90196032 Score: 487
Period size: 39 Copynumber: 8.0 Consensus size: 39
90195712 ATTATATTAT
* * *
90195722 CAGCACAAAACCTGCGGGACTTTAACCCGGATACATTTC
1 CAGCACGAAGCCTGCGGGACTTTAGCCCGGATACATTTC
*
90195761 CAGCACGAAGCCTGCGGGACTTTGGCCCGGATACATTTC
1 CAGCACGAAGCCTGCGGGACTTTAGCCCGGATACATTTC
* * *
90195800 CAGCATGAAGCCTGCGGGACTTTGGCCCGGATACATTTG
1 CAGCACGAAGCCTGCGGGACTTTAGCCCGGATACATTTC
* *
90195839 CAGCACGAAGTCTGCGGGACTTTAGTCCGGATACATTTC
1 CAGCACGAAGCCTGCGGGACTTTAGCCCGGATACATTTC
* * *
90195878 TAGCACGAAGCCTGCGGGACTTTGGCCCGGATATATTTC
1 CAGCACGAAGCCTGCGGGACTTTAGCCCGGATACATTTC
*
90195917 CAGCACGAAGCCTGCGGGACTTTAGCCCGGATATATTTC
1 CAGCACGAAGCCTGCGGGACTTTAGCCCGGATACATTTC
*
90195956 CAGCACGAAGCCTGCGGAACTTTAGCCCGGATACATTTC
1 CAGCACGAAGCCTGCGGGACTTTAGCCCGGATACATTTC
*
90195995 CAGCACGAAGCCTGCGGGACTTTAGCCTGGATACATTT
1 CAGCACGAAGCCTGCGGGACTTTAGCCCGGATACATTT
90196033 TCAGTGTCTT
Statistics
Matches: 250, Mismatches: 22, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
39 250 1.00
ACGTcount: A:0.23, C:0.28, G:0.26, T:0.23
Consensus pattern (39 bp):
CAGCACGAAGCCTGCGGGACTTTAGCCCGGATACATTTC
Found at i:90196125 original size:43 final size:43
Alignment explanation
Indices: 90196077--90196165 Score: 178
Period size: 43 Copynumber: 2.1 Consensus size: 43
90196067 ATTTCACATA
90196077 ACATTTCACATTAGCAATTTAATTGCTTCATTCGAATATAAGC
1 ACATTTCACATTAGCAATTTAATTGCTTCATTCGAATATAAGC
90196120 ACATTTCACATTAGCAATTTAATTGCTTCATTCGAATATAAGC
1 ACATTTCACATTAGCAATTTAATTGCTTCATTCGAATATAAGC
90196163 ACA
1 ACA
90196166 AAATGTACAC
Statistics
Matches: 46, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
43 46 1.00
ACGTcount: A:0.36, C:0.19, G:0.09, T:0.36
Consensus pattern (43 bp):
ACATTTCACATTAGCAATTTAATTGCTTCATTCGAATATAAGC
Done.