Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Chr11 124536837
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: 124536837
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
Warning! 312 characters in sequence are not A, C, G, or T
File 375 of 427
Found at i:108998956 original size:53 final size:52
Alignment explanation
Indices: 108998876--108998975 Score: 146
Period size: 53 Copynumber: 1.9 Consensus size: 52
108998866 ATGCCTAGGT
* *
108998876 CTTCACACACTGCCTAGTACAAGGGTGTATGGCTTGGCCGTGTAACCCTTGCA
1 CTTCACACACGGCCTAGCACAAGGGTGTATGG-TTGGCCGTGTAACCCTTGCA
* * *
108998929 CTTCACACACGGCCTAGCACACGGGTGTGTGGTTGGCCGTGTGACCC
1 CTTCACACACGGCCTAGCACAAGGGTGTATGGTTGGCCGTGTAACCC
108998976 AAGTCAGTAG
Statistics
Matches: 42, Mismatches: 5, Indels: 1
0.88 0.10 0.02
Matches are distributed among these distances:
52 14 0.33
53 28 0.67
ACGTcount: A:0.18, C:0.30, G:0.28, T:0.24
Consensus pattern (52 bp):
CTTCACACACGGCCTAGCACAAGGGTGTATGGTTGGCCGTGTAACCCTTGCA
Found at i:108999506 original size:23 final size:23
Alignment explanation
Indices: 108999472--108999537 Score: 98
Period size: 23 Copynumber: 2.9 Consensus size: 23
108999462 TTGTTAAAAT
*
108999472 AAAAAGAAACTTATTTTAATTAC
1 AAAAAGATACTTATTTTAATTAC
*
108999495 AAAAAGATACTTACTTTAATTAC
1 AAAAAGATACTTATTTTAATTAC
*
108999518 AAAAAGATACTT-TTGTAATT
1 AAAAAGATACTTATTTTAATT
108999538 TATCTAATCG
Statistics
Matches: 39, Mismatches: 4, Indels: 1
0.89 0.09 0.02
Matches are distributed among these distances:
22 6 0.15
23 33 0.85
ACGTcount: A:0.48, C:0.09, G:0.06, T:0.36
Consensus pattern (23 bp):
AAAAAGATACTTATTTTAATTAC
Found at i:109012733 original size:2 final size:2
Alignment explanation
Indices: 109012726--109012775 Score: 82
Period size: 2 Copynumber: 25.0 Consensus size: 2
109012716 TTTTTCCAAG
* *
109012726 AT AT AT AT AT GT AT AC AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
109012768 AT AT AT AT
1 AT AT AT AT
109012776 CACCATAAAA
Statistics
Matches: 44, Mismatches: 4, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
2 44 1.00
ACGTcount: A:0.48, C:0.02, G:0.02, T:0.48
Consensus pattern (2 bp):
AT
Found at i:109019333 original size:318 final size:317
Alignment explanation
Indices: 109018466--109019421 Score: 1507
Period size: 318 Copynumber: 3.0 Consensus size: 317
109018456 AGCTAACCAA
*
109018466 TAATGTGTAACTTTTACCATTTTTACAGTTTAGTCCTTACATCTACATTACTAACTTGTCAACCA
1 TAATGTGTAACTTTTACCATTCTTACAGTTTAGTCCTTACATCTACATT-CTAACTTGTCAACCA
* * *
109018531 AATTACTAATTCAAGAATCGATATAACACTATAACGGACTTGTAAATATTAATGAATAATATTTA
65 AATTACCAATTCAAGAATTGATATAACACTATAACAGACTTGTAAATATTAATGAATAATATTTA
* * *
109018596 TTGACTCACTCATCAAAA-TCATGGTCCTATTACCACTATTTCTGACA--ACTGAAAACCGAGCT
130 TTGACTCACTCATCAAAACT-ATGGTCCTAATACCACTGTTTCTGACACTATTGAAAACCGAGCT
*
109018658 GTTACAATTTGATTGAAATTTGGATAGTTTACTTTAGAATTTATTTTCATGTTGTTTATAAATCA
194 ATTACAATTTGATTGAAATTTGGATAGTTTACTTTAGAATTTATTTTCATGTTGTTTATAAATCA
* *
109018723 TATCTCCATTATTTTCTTTGTCGTAATATAATTAGTACGTAAGTAGTATTTATACCTAA
259 TCTCTCCATTATTTTCTTTGTCGTAATATAATTAGTACGTAAGTAGTATTTATACCTAG
* * * * *
109018782 TAATGTGTAACTTTTACCATACTTACAGTTTAGTCCTTATATCTACA-T-T-ACTAGTAAACGAA
1 TAATGTGTAACTTTTACCATTCTTACAGTTTAGTCCTTACATCTACATTCTAACTTGTCAACCAA
*
109018844 ATTACCAATTCTAGAATTGATATAACACTATAACAGACTTGTAAATATTAATGAATAATATTTAT
66 ATTACCAATTCAAGAATTGATATAACACTATAACAGACTTGTAAATATTAATGAATAATATTTAT
* * *
109018909 TGACTCACTCATCAAAACCATGGTCCTAATACCACTGTTT-TCGACACTATTAAAAATCGAG-TC
131 TGACTCACTCATCAAAACTATGGTCCTAATACCACTGTTTCT-GACACTATTGAAAACCGAGCT-
*
109018972 ATTACAAATTGATTGAAATTTGGATAGTTTACTTTAGAATTTATTTTCATGTTGTTTATAAATCA
194 ATTACAATTTGATTGAAATTTGGATAGTTTACTTTAGAATTTATTTTCATGTTGTTTATAAATCA
* * *
109019037 TCTCTCTATTATTTTCTTTGTCGTACTATATTTAGTACGTAAGTAGTATTTATACCTAG
259 TCTCTCCATTATTTTCTTTGTCGTAATATAATTAGTACGTAAGTAGTATTTATACCTAG
*
109019096 TAATGTGTAACTTTTACCATTCTTACAGTTTAGTCCTTACATCTACATTGCTAACTTTTCAACCA
1 TAATGTGTAACTTTTACCATTCTTACAGTTTAGTCCTTACATCTACATT-CTAACTTGTCAACCA
109019161 AATTACCAATTCAAGAATTGATATAACACTATAACAGACTTGTAAATATTAATGAATAATATTTA
65 AATTACCAATTCAAGAATTGATATAACACTATAACAGACTTGTAAATATTAATGAATAATATTTA
* *
109019226 TTGACTCACTCATCAAAACTGTGGTTCTAATACCACTGTTTCTGACACTATTGAAAACCGAGCTA
130 TTGACTCACTCATCAAAACTATGGTCCTAATACCACTGTTTCTGACACTATTGAAAACCGAGCTA
* *
109019291 TTACAATTTGATTGAAATTTAGATAGTTTACTTTAGAATTTATTTTCATGCTGTTTATAAATCAT
195 TTACAATTTGATTGAAATTTGGATAGTTTACTTTAGAATTTATTTTCATGTTGTTTATAAATCAT
* * * *
109019356 CTCTCCATTATTTGCTTT-TCCATAATGTAATTAGCACGTAAGTAGTATTTATACCTAG
260 CTCTCCATTATTTTCTTTGT-CGTAATATAATTAGTACGTAAGTAGTATTTATACCTAG
109019414 TAATGTGT
1 TAATGTGT
109019422 TAATTTTCAA
Statistics
Matches: 583, Mismatches: 45, Indels: 22
0.90 0.07 0.03
Matches are distributed among these distances:
311 1 0.00
312 111 0.19
313 2 0.00
314 172 0.30
315 2 0.00
316 44 0.08
317 2 0.00
318 247 0.42
319 2 0.00
ACGTcount: A:0.34, C:0.16, G:0.11, T:0.40
Consensus pattern (317 bp):
TAATGTGTAACTTTTACCATTCTTACAGTTTAGTCCTTACATCTACATTCTAACTTGTCAACCAA
ATTACCAATTCAAGAATTGATATAACACTATAACAGACTTGTAAATATTAATGAATAATATTTAT
TGACTCACTCATCAAAACTATGGTCCTAATACCACTGTTTCTGACACTATTGAAAACCGAGCTAT
TACAATTTGATTGAAATTTGGATAGTTTACTTTAGAATTTATTTTCATGTTGTTTATAAATCATC
TCTCCATTATTTTCTTTGTCGTAATATAATTAGTACGTAAGTAGTATTTATACCTAG
Found at i:109029734 original size:43 final size:43
Alignment explanation
Indices: 109029673--109029818 Score: 165
Period size: 43 Copynumber: 3.4 Consensus size: 43
109029663 TACCGAGATC
*
109029673 TGATTACATGTAAGACCATGTCTGAGACATTGGCATTGTAT-TA
1 TGATTACATGTAAGACCATGTCTG-GACATTGGCATCGTATATA
*
109029716 TGATTACATGTAAGACCATGTCTTGGACATTGACATCGT-TATA
1 TGATTACATGTAAGACCATGTC-TGGACATTGGCATCGTATATA
* * * *
109029759 TGATTTCGTGTAAGATCC-TGTCTGGGACAGTGGCATCG-ATATG
1 TGATTACATGTAAGA-CCATGTCT-GGACATTGGCATCGTATATA
*
109029802 TGATAACATGTAAGACC
1 TGATTACATGTAAGACC
109029819 TGTGACAGCC
Statistics
Matches: 88, Mismatches: 10, Indels: 11
0.81 0.09 0.10
Matches are distributed among these distances:
42 4 0.05
43 80 0.91
44 4 0.05
ACGTcount: A:0.29, C:0.16, G:0.23, T:0.33
Consensus pattern (43 bp):
TGATTACATGTAAGACCATGTCTGGACATTGGCATCGTATATA
Found at i:109030871 original size:2 final size:2
Alignment explanation
Indices: 109030866--109030895 Score: 60
Period size: 2 Copynumber: 15.0 Consensus size: 2
109030856 GCTCACACAC
109030866 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
109030896 TGCACATGAT
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 28 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:109031706 original size:40 final size:40
Alignment explanation
Indices: 109031600--109031801 Score: 277
Period size: 40 Copynumber: 5.1 Consensus size: 40
109031590 GGATGATAAT
* * *
109031600 CGGGCTAAGTCCCGAAGGCATTTGTGCTAGTGACTA-ATTC
1 CGGGCTAAGTCCCGAAGGCATTCGTGCGAGTTACTATA-TC
*
109031640 CGGGCTAAG-CCCGAAGGCAATT-GTGCGAGTTATTATATC
1 CGGGCTAAGTCCCGAAGGC-ATTCGTGCGAGTTACTATATC
109031679 CGGGCTAAGTCCCGAAGGCATTCGTGCGAGTTACTATATC
1 CGGGCTAAGTCCCGAAGGCATTCGTGCGAGTTACTATATC
* *
109031719 CGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAAC
1 CGGGCTAAGTCCCGAAGGCATTCGTGCGAGTTACTATATC
* *
109031759 CGGGCTATGTCCCGAAGGCATTCGAGCGAG-TAGCTATATC
1 CGGGCTAAGTCCCGAAGGCATTCGTGCGAGTTA-CTATATC
109031799 CGG
1 CGG
109031802 TTAAATTCCG
Statistics
Matches: 147, Mismatches: 10, Indels: 10
0.88 0.06 0.06
Matches are distributed among these distances:
39 35 0.24
40 112 0.76
ACGTcount: A:0.23, C:0.23, G:0.29, T:0.25
Consensus pattern (40 bp):
CGGGCTAAGTCCCGAAGGCATTCGTGCGAGTTACTATATC
Found at i:109037449 original size:21 final size:20
Alignment explanation
Indices: 109037425--109037463 Score: 51
Period size: 20 Copynumber: 1.9 Consensus size: 20
109037415 GTTGAAAAAG
109037425 AATTATACGCAAAGTGTTTAA
1 AATT-TACGCAAAGTGTTTAA
* *
109037446 AATTTATGCTAAGTGTTT
1 AATTTACGCAAAGTGTTT
109037464 GTATGTAGTA
Statistics
Matches: 16, Mismatches: 2, Indels: 1
0.84 0.11 0.05
Matches are distributed among these distances:
20 12 0.75
21 4 0.25
ACGTcount: A:0.36, C:0.08, G:0.15, T:0.41
Consensus pattern (20 bp):
AATTTACGCAAAGTGTTTAA
Found at i:109044440 original size:53 final size:53
Alignment explanation
Indices: 109044299--109044432 Score: 207
Period size: 53 Copynumber: 2.5 Consensus size: 53
109044289 ACAAGTGTGC
* **
109044299 CCGTTTAAGACCATAGCTGGGCTATGGCATCGGTGCAATGTGATAATGTGACT
1 CCGTATAAGACCATAGCTGGGCTATGGCATCGGTATAATGTGATAATGTGACT
*
109044352 CCGTATAAGACCATAGCTGGGCTATGGCATCGGTATAATGTGATAATGTGATT
1 CCGTATAAGACCATAGCTGGGCTATGGCATCGGTATAATGTGATAATGTGACT
*
109044405 CCGTATAAGACCAT-GTCTGGGATATGGC
1 CCGTATAAGACCATAG-CTGGGCTATGGC
109044433 TTTGGTATGA
Statistics
Matches: 75, Mismatches: 5, Indels: 2
0.91 0.06 0.02
Matches are distributed among these distances:
52 1 0.01
53 74 0.99
ACGTcount: A:0.26, C:0.18, G:0.28, T:0.28
Consensus pattern (53 bp):
CCGTATAAGACCATAGCTGGGCTATGGCATCGGTATAATGTGATAATGTGACT
Found at i:109053607 original size:22 final size:22
Alignment explanation
Indices: 109053565--109053623 Score: 91
Period size: 22 Copynumber: 2.6 Consensus size: 22
109053555 TAGCTTATAT
109053565 GAGCTTACTGTTTCAGCTCTTCG
1 GAGCTTACTGTTT-AGCTCTTCG
* *
109053588 GGGCTTACCGTTTAGCTCTTCG
1 GAGCTTACTGTTTAGCTCTTCG
109053610 GAGCTTACTGTTTA
1 GAGCTTACTGTTTA
109053624 TCAGCTCAGG
Statistics
Matches: 32, Mismatches: 4, Indels: 1
0.86 0.11 0.03
Matches are distributed among these distances:
22 21 0.66
23 11 0.34
ACGTcount: A:0.14, C:0.24, G:0.24, T:0.39
Consensus pattern (22 bp):
GAGCTTACTGTTTAGCTCTTCG
Found at i:109058777 original size:26 final size:26
Alignment explanation
Indices: 109058736--109058871 Score: 220
Period size: 26 Copynumber: 5.2 Consensus size: 26
109058726 CATGATATTC
*
109058736 TTATCATGAAACATTTACCTAACCCA
1 TTATCATGAAACATTTACCTAACCTA
* *
109058762 TTATCATGGAATATTTACCTAATCC-A
1 TTATCATGAAACATTTACCTAA-CCTA
109058788 TTATCATGAAACATTTACCTAACCTA
1 TTATCATGAAACATTTACCTAACCTA
109058814 TTATCATGAAACATTTACCTAACCTA
1 TTATCATGAAACATTTACCTAACCTA
*
109058840 TTATCATGGAACATTTACCTAACCTA
1 TTATCATGAAACATTTACCTAACCTA
109058866 TTATCA
1 TTATCA
109058872 ATTTGTATCA
Statistics
Matches: 103, Mismatches: 5, Indels: 4
0.92 0.04 0.04
Matches are distributed among these distances:
25 2 0.02
26 99 0.96
27 2 0.02
ACGTcount: A:0.37, C:0.23, G:0.05, T:0.35
Consensus pattern (26 bp):
TTATCATGAAACATTTACCTAACCTA
Found at i:109062119 original size:39 final size:39
Alignment explanation
Indices: 109062061--109062176 Score: 205
Period size: 39 Copynumber: 3.0 Consensus size: 39
109062051 TTCAGTGATG
*
109062061 TATATCCGGACTTAGGGTCCGAAGGCTATGTGCTGGAAT
1 TATATCCGGACTTAGGGTCCGCAGGCTATGTGCTGGAAT
*
109062100 TATTTCCGGACTTAGGGTCCGCAGGCTATGTGCTGGAAT
1 TATATCCGGACTTAGGGTCCGCAGGCTATGTGCTGGAAT
*
109062139 TATATCCGGACTTAGGGTCCGCAGGCTACGTGCTGGAA
1 TATATCCGGACTTAGGGTCCGCAGGCTATGTGCTGGAA
109062177 ATATGTCTGG
Statistics
Matches: 73, Mismatches: 4, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
39 73 1.00
ACGTcount: A:0.21, C:0.21, G:0.31, T:0.28
Consensus pattern (39 bp):
TATATCCGGACTTAGGGTCCGCAGGCTATGTGCTGGAAT
Found at i:109062200 original size:78 final size:78
Alignment explanation
Indices: 109062061--109062220 Score: 205
Period size: 78 Copynumber: 2.1 Consensus size: 78
109062051 TTCAGTGATG
* * * **
109062061 TATATCCGGACTTAGGGTCCGAAGGCTATGTGCTGGAATTATTTCCGGACTTAGGGTCCGCAGGC
1 TATATCCGGACTTAGGGTCCGAAGGCTACGTGCTGGAAATATGTCCGGACTTAAAGTCCGCAGGC
*
109062126 TATGTGCTGGAAT
66 TATGAGCTGGAAT
* * *
109062139 TATATCCGGACTTAGGGTCCGCAGGCTACGTGCTGGAAATATGTCTGGGC-TAAAGTCCCGCAGG
1 TATATCCGGACTTAGGGTCCGAAGGCTACGTGCTGGAAATATGTCCGGACTTAAAGT-CCGCAGG
* *
109062203 CTTTGAGCTGGTAT
65 CTATGAGCTGGAAT
109062217 TATA
1 TATA
109062221 CCGAGTTTAA
Statistics
Matches: 70, Mismatches: 11, Indels: 2
0.84 0.13 0.02
Matches are distributed among these distances:
77 4 0.06
78 66 0.94
ACGTcount: A:0.21, C:0.20, G:0.30, T:0.29
Consensus pattern (78 bp):
TATATCCGGACTTAGGGTCCGAAGGCTACGTGCTGGAAATATGTCCGGACTTAAAGTCCGCAGGC
TATGAGCTGGAAT
Found at i:109063269 original size:25 final size:26
Alignment explanation
Indices: 109063206--109063274 Score: 86
Period size: 25 Copynumber: 2.7 Consensus size: 26
109063196 GACATTATCG
109063206 GGCTGCTAACACTAGCTTCGGATCAA
1 GGCTGCTAACACTAGCTTCGGATCAA
* * * *
109063232 GGTTGCTAACACTATCTT-GGTTCGA
1 GGCTGCTAACACTAGCTTCGGATCAA
*
109063257 TGCTGCTAACACTAGCTT
1 GGCTGCTAACACTAGCTT
109063275 TAGAGAACCC
Statistics
Matches: 36, Mismatches: 7, Indels: 1
0.82 0.16 0.02
Matches are distributed among these distances:
25 20 0.56
26 16 0.44
ACGTcount: A:0.23, C:0.25, G:0.22, T:0.30
Consensus pattern (26 bp):
GGCTGCTAACACTAGCTTCGGATCAA
Found at i:109063896 original size:22 final size:21
Alignment explanation
Indices: 109063865--109063912 Score: 78
Period size: 22 Copynumber: 2.2 Consensus size: 21
109063855 TTATTATAAC
*
109063865 CAATTTAAACATCTTTTTCTT
1 CAATTTAAACACCTTTTTCTT
109063886 CAATTCTAAACACCTTTTTCTT
1 CAATT-TAAACACCTTTTTCTT
109063908 CAATT
1 CAATT
109063913 ATCTTCTAGT
Statistics
Matches: 25, Mismatches: 1, Indels: 1
0.93 0.04 0.04
Matches are distributed among these distances:
21 5 0.20
22 20 0.80
ACGTcount: A:0.29, C:0.23, G:0.00, T:0.48
Consensus pattern (21 bp):
CAATTTAAACACCTTTTTCTT
Found at i:109066393 original size:21 final size:21
Alignment explanation
Indices: 109066369--109066410 Score: 75
Period size: 21 Copynumber: 2.0 Consensus size: 21
109066359 TCTTAGAGAG
*
109066369 ATTGTTAGCTTGTTAGTAGGA
1 ATTGTTAGCTAGTTAGTAGGA
109066390 ATTGTTAGCTAGTTAGTAGGA
1 ATTGTTAGCTAGTTAGTAGGA
109066411 GTAGGAAGTT
Statistics
Matches: 20, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
21 20 1.00
ACGTcount: A:0.26, C:0.05, G:0.29, T:0.40
Consensus pattern (21 bp):
ATTGTTAGCTAGTTAGTAGGA
Found at i:109067819 original size:12 final size:12
Alignment explanation
Indices: 109067802--109067827 Score: 52
Period size: 12 Copynumber: 2.2 Consensus size: 12
109067792 TGTTTTTCAA
109067802 AAAAAAAAAAAG
1 AAAAAAAAAAAG
109067814 AAAAAAAAAAAG
1 AAAAAAAAAAAG
109067826 AA
1 AA
109067828 CTAGAACAGG
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 14 1.00
ACGTcount: A:0.92, C:0.00, G:0.08, T:0.00
Consensus pattern (12 bp):
AAAAAAAAAAAG
Found at i:109069799 original size:19 final size:19
Alignment explanation
Indices: 109069775--109069818 Score: 56
Period size: 17 Copynumber: 2.4 Consensus size: 19
109069765 GGTTGAGATA
*
109069775 AATTTTAAAATTACACATG
1 AATTTTAAAATGACACATG
*
109069794 AATTTT--AATGATACATG
1 AATTTTAAAATGACACATG
109069811 AATTTTAA
1 AATTTTAA
109069819 TTTTATACAA
Statistics
Matches: 21, Mismatches: 2, Indels: 4
0.78 0.07 0.15
Matches are distributed among these distances:
17 15 0.71
19 6 0.29
ACGTcount: A:0.45, C:0.07, G:0.07, T:0.41
Consensus pattern (19 bp):
AATTTTAAAATGACACATG
Found at i:109069827 original size:19 final size:17
Alignment explanation
Indices: 109069783--109069820 Score: 58
Period size: 17 Copynumber: 2.2 Consensus size: 17
109069773 TAAATTTTAA
*
109069783 AATTACACATGAATTTT
1 AATTATACATGAATTTT
*
109069800 AATGATACATGAATTTT
1 AATTATACATGAATTTT
109069817 AATT
1 AATT
109069821 TTATACAATT
Statistics
Matches: 18, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
17 18 1.00
ACGTcount: A:0.42, C:0.08, G:0.08, T:0.42
Consensus pattern (17 bp):
AATTATACATGAATTTT
Found at i:109071168 original size:19 final size:20
Alignment explanation
Indices: 109071135--109071181 Score: 60
Period size: 20 Copynumber: 2.4 Consensus size: 20
109071125 TTTGACGAAT
* *
109071135 TTTGAAAAACTAAATTGTAA
1 TTTGAAAAACAAAATTGAAA
109071155 TTTGAAAAA-AAAATTGAAA
1 TTTGAAAAACAAAATTGAAA
109071174 TATTGAAA
1 T-TTGAAA
109071182 TTCCCTCTTA
Statistics
Matches: 24, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
19 9 0.38
20 15 0.62
ACGTcount: A:0.55, C:0.02, G:0.11, T:0.32
Consensus pattern (20 bp):
TTTGAAAAACAAAATTGAAA
Found at i:109083774 original size:27 final size:28
Alignment explanation
Indices: 109083721--109083778 Score: 116
Period size: 28 Copynumber: 2.1 Consensus size: 28
109083711 CCAAGAAGAA
109083721 AACTTAGCAGGGGAAAAATGCTAAAAAG
1 AACTTAGCAGGGGAAAAATGCTAAAAAG
109083749 AACTTAGCAGGGGAAAAATGCTAAAAAG
1 AACTTAGCAGGGGAAAAATGCTAAAAAG
109083777 AA
1 AA
109083779 GGTAATTCTT
Statistics
Matches: 30, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
28 30 1.00
ACGTcount: A:0.52, C:0.10, G:0.24, T:0.14
Consensus pattern (28 bp):
AACTTAGCAGGGGAAAAATGCTAAAAAG
Found at i:109086455 original size:234 final size:234
Alignment explanation
Indices: 109086046--109086521 Score: 916
Period size: 234 Copynumber: 2.0 Consensus size: 234
109086036 AAGGACCAAT
*
109086046 GATTGGTTCTAAGCAACTGCAAGTATTAATACCTGATTGTAATAGGCCTTAAATTGAAACAAACA
1 GATTGGTTCTAAGCAACTGCAAGTATTAACACCTGATTGTAATAGGCCTTAAATTGAAACAAACA
109086111 TATGTTGTCCTTTTCTTAGAAAGATTACCTGTCGAATCTGTTCTAGGATTCTAGATCTTAAACTT
66 TATGTTGTCCTTTTCTTAGAAAGATTACCTGTCGAATCTGTTCTAGGATTCTAGATCTTAAACTT
109086176 ACCCAATGATCTTCTTACTAAAAAGCACAAACTACCAGAAAAAAAAATGAAGAAAATTCAAGAAA
131 ACCCAATGATCTTCTTACTAAAAAGCACAAACTACCAGAAAAAAAAATGAAGAAAATTCAAGAAA
109086241 GGTTAGGGATTATGAAGCTGTTCATTTAGAAATGTCAGA
196 GGTTAGGGATTATGAAGCTGTTCATTTAGAAATGTCAGA
109086280 GATTGGTTCTAAGCAACTGCAAGTATTAACACCTGATTGTAATAGGCCTTAAATTGAAACAAACA
1 GATTGGTTCTAAGCAACTGCAAGTATTAACACCTGATTGTAATAGGCCTTAAATTGAAACAAACA
*
109086345 TATGTTGTCCTTTTGTTAGAAAGATTACCTGTCGAATCTGTTCTAGGATTCTAGATCTTAAACTT
66 TATGTTGTCCTTTTCTTAGAAAGATTACCTGTCGAATCTGTTCTAGGATTCTAGATCTTAAACTT
*
109086410 ACCCAATGATCTTCTTACTAAAAAGCACAAACTACCAGAAAAAAAATTGAAGAAAATTCAAGAAA
131 ACCCAATGATCTTCTTACTAAAAAGCACAAACTACCAGAAAAAAAAATGAAGAAAATTCAAGAAA
109086475 GGTTAGGGATTATGAAGCTGTTCATTTAGAAATGTCAGA
196 GGTTAGGGATTATGAAGCTGTTCATTTAGAAATGTCAGA
*
109086514 GACTGGTT
1 GATTGGTT
109086522 TTTTTGTAGC
Statistics
Matches: 238, Mismatches: 4, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
234 238 1.00
ACGTcount: A:0.37, C:0.15, G:0.17, T:0.30
Consensus pattern (234 bp):
GATTGGTTCTAAGCAACTGCAAGTATTAACACCTGATTGTAATAGGCCTTAAATTGAAACAAACA
TATGTTGTCCTTTTCTTAGAAAGATTACCTGTCGAATCTGTTCTAGGATTCTAGATCTTAAACTT
ACCCAATGATCTTCTTACTAAAAAGCACAAACTACCAGAAAAAAAAATGAAGAAAATTCAAGAAA
GGTTAGGGATTATGAAGCTGTTCATTTAGAAATGTCAGA
Found at i:109097069 original size:2 final size:2
Alignment explanation
Indices: 109097062--109097105 Score: 88
Period size: 2 Copynumber: 22.0 Consensus size: 2
109097052 TATTATTATC
109097062 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
109097104 AT
1 AT
109097106 CTACTTGAAC
Statistics
Matches: 42, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 42 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:109098266 original size:3 final size:3
Alignment explanation
Indices: 109098258--109098298 Score: 82
Period size: 3 Copynumber: 13.7 Consensus size: 3
109098248 TCCAAAAGAA
109098258 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AA
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AA
109098299 GACAGGCTTT
Statistics
Matches: 38, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 38 1.00
ACGTcount: A:0.68, C:0.00, G:0.00, T:0.32
Consensus pattern (3 bp):
AAT
Found at i:109101648 original size:3 final size:3
Alignment explanation
Indices: 109101642--109101672 Score: 62
Period size: 3 Copynumber: 10.3 Consensus size: 3
109101632 GATGATGATG
109101642 ATC ATC ATC ATC ATC ATC ATC ATC ATC ATC A
1 ATC ATC ATC ATC ATC ATC ATC ATC ATC ATC A
109101673 AAGATATTAT
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 28 1.00
ACGTcount: A:0.35, C:0.32, G:0.00, T:0.32
Consensus pattern (3 bp):
ATC
Found at i:109105866 original size:15 final size:13
Alignment explanation
Indices: 109105837--109105863 Score: 54
Period size: 13 Copynumber: 2.1 Consensus size: 13
109105827 CTTCGGCAGG
109105837 GACACGCCCGTGT
1 GACACGCCCGTGT
109105850 GACACGCCCGTGT
1 GACACGCCCGTGT
109105863 G
1 G
109105864 TGATAACTGA
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 14 1.00
ACGTcount: A:0.15, C:0.37, G:0.33, T:0.15
Consensus pattern (13 bp):
GACACGCCCGTGT
Found at i:109130213 original size:42 final size:43
Alignment explanation
Indices: 109130154--109130242 Score: 117
Period size: 42 Copynumber: 2.1 Consensus size: 43
109130144 TAATGTTAGT
* *
109130154 TGAGATTACGTGTAAGACCATATCTAGGATA-TGGAATCGATA
1 TGAGATTACGTATAAGACCATAGCTAGGATATTGGAATCGATA
* * * *
109130196 TGAGATTTCGTATAAGACCATAGCTGGGCTATTGGCATCGATA
1 TGAGATTACGTATAAGACCATAGCTAGGATATTGGAATCGATA
109130239 TGAG
1 TGAG
109130243 GTCCCATGTA
Statistics
Matches: 40, Mismatches: 6, Indels: 1
0.85 0.13 0.02
Matches are distributed among these distances:
42 26 0.65
43 14 0.35
ACGTcount: A:0.31, C:0.13, G:0.26, T:0.29
Consensus pattern (43 bp):
TGAGATTACGTATAAGACCATAGCTAGGATATTGGAATCGATA
Found at i:109130255 original size:43 final size:42
Alignment explanation
Indices: 109130164--109130260 Score: 104
Period size: 43 Copynumber: 2.3 Consensus size: 42
109130154 TGAGATTACG
* ** *
109130164 TGTAAGACCATATCTAGGATATGGAATCGATATGAGATTTCG
1 TGTAAGACCATAGCTAGGATATGGAATCGATATGAGATCCCA
* * * * *
109130206 TATAAGACCATAGCTGGGCTATTGGCATCGATATGAGGTCCCA
1 TGTAAGACCATAGCTAGGATA-TGGAATCGATATGAGATCCCA
109130249 TGTAAGACCATA
1 TGTAAGACCATA
109130261 TCTGAGATAT
Statistics
Matches: 44, Mismatches: 10, Indels: 1
0.80 0.18 0.02
Matches are distributed among these distances:
42 17 0.39
43 27 0.61
ACGTcount: A:0.32, C:0.16, G:0.24, T:0.28
Consensus pattern (42 bp):
TGTAAGACCATAGCTAGGATATGGAATCGATATGAGATCCCA
Found at i:109130386 original size:20 final size:20
Alignment explanation
Indices: 109130358--109130404 Score: 67
Period size: 20 Copynumber: 2.4 Consensus size: 20
109130348 CGGCAATGTT
109130358 TAAGTTGTGAAAAACTATGG
1 TAAGTTGTGAAAAACTATGG
* * *
109130378 TATGTTGTGAAAGATTATGG
1 TAAGTTGTGAAAAACTATGG
109130398 TAAGTTG
1 TAAGTTG
109130405 CAAGTTGGTA
Statistics
Matches: 23, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
20 23 1.00
ACGTcount: A:0.34, C:0.02, G:0.28, T:0.36
Consensus pattern (20 bp):
TAAGTTGTGAAAAACTATGG
Found at i:109133191 original size:46 final size:46
Alignment explanation
Indices: 109133107--109133432 Score: 451
Period size: 46 Copynumber: 7.1 Consensus size: 46
109133097 CCCATCCACA
* * * * * * * *
109133107 GTCTTATTTATCTT-TGACATGATGCCATAGTGTCTTTCAACTACG
1 GTCTTATTCATTTTCTGTCATGTTGCCATGGTATCTTTCAACCATG
* * *
109133152 GTCTTACTCATTTTCTGTCATGTTTCAATGGTATCTTTCAACCATG
1 GTCTTATTCATTTTCTGTCATGTTGCCATGGTATCTTTCAACCATG
* *
109133198 ATCTTATTCA-TTTCTTGTCTTGTTGCCATGGTATCTTTCAACCATG
1 GTCTTATTCATTTTC-TGTCATGTTGCCATGGTATCTTTCAACCATG
109133244 GTCTTATTCATTTTCTGTCATGTTGCCATGGTATCTTTCAACCATG
1 GTCTTATTCATTTTCTGTCATGTTGCCATGGTATCTTTCAACCATG
* *
109133290 GTCTTATTCA-TTTCTTGTCACGTTACCATGGTATCTTTCAACCATG
1 GTCTTATTCATTTTC-TGTCATGTTGCCATGGTATCTTTCAACCATG
*
109133336 GTCTTATTCATTTCCTGTCATGTTGCCATGGTATCTTTCAACCATG
1 GTCTTATTCATTTTCTGTCATGTTGCCATGGTATCTTTCAACCATG
* *
109133382 GTCTTATTCATTTCCTGTCATGTTTCCATGGTATCTTTCAACCATG
1 GTCTTATTCATTTTCTGTCATGTTGCCATGGTATCTTTCAACCATG
109133428 GTCTT
1 GTCTT
109133433 CACATTTGAA
Statistics
Matches: 252, Mismatches: 24, Indels: 9
0.88 0.08 0.03
Matches are distributed among these distances:
45 19 0.08
46 226 0.90
47 7 0.03
ACGTcount: A:0.18, C:0.22, G:0.14, T:0.45
Consensus pattern (46 bp):
GTCTTATTCATTTTCTGTCATGTTGCCATGGTATCTTTCAACCATG
Found at i:109133585 original size:33 final size:33
Alignment explanation
Indices: 109133539--109133694 Score: 106
Period size: 33 Copynumber: 4.7 Consensus size: 33
109133529 TCTGGTATGA
*
109133539 TGCCATAGTCCAACTATGGTCTTACACGTGTAT
1 TGCCATAGCCCAACTATGGTCTTACACGTGTAT
* * **
109133572 TGCCATGGCCCAACCATGGTCTTACAC-TCGTGG
1 TGCCATAGCCCAACTATGGTCTTACACGT-GTAT
* *
109133605 TGCCATATCCCAGA-TATGGTATTATCATCAG-G-A-
1 TGCCATAGCCCA-ACTATGGTCTTA-CA-C-GTGTAT
* * * *
109133638 TGCCATAGCCTAGCTATGGTCTTACACATATAT
1 TGCCATAGCCCAACTATGGTCTTACACGTGTAT
* * *
109133671 TGCCATGGCCCAGCCATGGTCTTA
1 TGCCATAGCCCAACTATGGTCTTA
109133695 TCCGTCAATT
Statistics
Matches: 94, Mismatches: 19, Indels: 20
0.71 0.14 0.15
Matches are distributed among these distances:
31 1 0.01
32 4 0.04
33 84 0.89
34 3 0.03
35 2 0.02
ACGTcount: A:0.24, C:0.27, G:0.20, T:0.29
Consensus pattern (33 bp):
TGCCATAGCCCAACTATGGTCTTACACGTGTAT
Found at i:109144936 original size:13 final size:13
Alignment explanation
Indices: 109144920--109144957 Score: 51
Period size: 13 Copynumber: 2.9 Consensus size: 13
109144910 AAACAATAGC
109144920 AAAAAAAATAA-AG
1 AAAAAAAA-AAGAG
109144933 AAAAAAAAAAGAG
1 AAAAAAAAAAGAG
*
109144946 AAAAAGAAAAGA
1 AAAAAAAAAAGA
109144958 AGCAATGCCA
Statistics
Matches: 23, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
12 2 0.09
13 21 0.91
ACGTcount: A:0.84, C:0.00, G:0.13, T:0.03
Consensus pattern (13 bp):
AAAAAAAAAAGAG
Found at i:109146627 original size:7 final size:8
Alignment explanation
Indices: 109146602--109146627 Score: 52
Period size: 8 Copynumber: 3.2 Consensus size: 8
109146592 GGTTTCCCTG
109146602 TTTATCTT
1 TTTATCTT
109146610 TTTATCTT
1 TTTATCTT
109146618 TTTATCTT
1 TTTATCTT
109146626 TT
1 TT
109146628 GCCTGGTTTT
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
8 18 1.00
ACGTcount: A:0.12, C:0.12, G:0.00, T:0.77
Consensus pattern (8 bp):
TTTATCTT
Found at i:109151465 original size:14 final size:14
Alignment explanation
Indices: 109151446--109151472 Score: 54
Period size: 14 Copynumber: 1.9 Consensus size: 14
109151436 GAAAACAATG
109151446 AATATAACAATATA
1 AATATAACAATATA
109151460 AATATAACAATAT
1 AATATAACAATAT
109151473 TTTATGCAAA
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 13 1.00
ACGTcount: A:0.63, C:0.07, G:0.00, T:0.30
Consensus pattern (14 bp):
AATATAACAATATA
Found at i:109159163 original size:14 final size:14
Alignment explanation
Indices: 109159144--109159170 Score: 54
Period size: 14 Copynumber: 1.9 Consensus size: 14
109159134 GAAAACAATG
109159144 AATATAACAATATA
1 AATATAACAATATA
109159158 AATATAACAATAT
1 AATATAACAATAT
109159171 TTTATGCAAA
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 13 1.00
ACGTcount: A:0.63, C:0.07, G:0.00, T:0.30
Consensus pattern (14 bp):
AATATAACAATATA
Found at i:109159615 original size:7 final size:7
Alignment explanation
Indices: 109159605--109159646 Score: 50
Period size: 7 Copynumber: 5.9 Consensus size: 7
109159595 ACTATATACT
109159605 AATAATA
1 AATAATA
109159612 AATAATAA
1 AATAAT-A
109159620 AATAATA
1 AATAATA
*
109159627 TATAATGA
1 AATAAT-A
109159635 AATAA-A
1 AATAATA
109159641 AATAAT
1 AATAAT
109159647 GTAAGGGTTA
Statistics
Matches: 30, Mismatches: 2, Indels: 6
0.79 0.05 0.16
Matches are distributed among these distances:
6 6 0.20
7 12 0.40
8 12 0.40
ACGTcount: A:0.69, C:0.00, G:0.02, T:0.29
Consensus pattern (7 bp):
AATAATA
Found at i:109159625 original size:15 final size:15
Alignment explanation
Indices: 109159605--109159646 Score: 59
Period size: 15 Copynumber: 2.9 Consensus size: 15
109159595 ACTATATACT
109159605 AATAATAAATAATAA
1 AATAATAAATAATAA
* *
109159620 AATAATATATAATGA
1 AATAATAAATAATAA
109159635 AATAA-AAATAAT
1 AATAATAAATAAT
109159647 GTAAGGGTTA
Statistics
Matches: 24, Mismatches: 3, Indels: 1
0.86 0.11 0.04
Matches are distributed among these distances:
14 6 0.25
15 18 0.75
ACGTcount: A:0.69, C:0.00, G:0.02, T:0.29
Consensus pattern (15 bp):
AATAATAAATAATAA
Found at i:109159690 original size:12 final size:14
Alignment explanation
Indices: 109159657--109159683 Score: 54
Period size: 14 Copynumber: 1.9 Consensus size: 14
109159647 GTAAGGGTTA
109159657 ATATATAATAAAAG
1 ATATATAATAAAAG
109159671 ATATATAATAAAA
1 ATATATAATAAAA
109159684 TTTATAAATG
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 13 1.00
ACGTcount: A:0.67, C:0.00, G:0.04, T:0.30
Consensus pattern (14 bp):
ATATATAATAAAAG
Found at i:109160011 original size:30 final size:30
Alignment explanation
Indices: 109159977--109160034 Score: 73
Period size: 30 Copynumber: 1.9 Consensus size: 30
109159967 ATAATGGCCA
*
109159977 TTAGGACTAAATTGA-AACAAAAATAAAACT
1 TTAGGACCAAATT-ATAACAAAAATAAAACT
* *
109160007 TTAGGGCCAAATTATAATAAAAATAAAA
1 TTAGGACCAAATTATAACAAAAATAAAA
109160035 TGAAATTTGT
Statistics
Matches: 24, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
29 1 0.04
30 23 0.96
ACGTcount: A:0.57, C:0.09, G:0.10, T:0.24
Consensus pattern (30 bp):
TTAGGACCAAATTATAACAAAAATAAAACT
Found at i:109161486 original size:20 final size:18
Alignment explanation
Indices: 109161460--109161514 Score: 58
Period size: 20 Copynumber: 2.9 Consensus size: 18
109161450 GTATATTTAC
109161460 TTATTATATAATATATTA
1 TTATTATATAATATATTA
*
109161478 TTAAGTTAT-TATTATTATTA
1 TT-A-TTATATAATA-TATTA
109161498 TTATTATATATATATAT
1 TTATTATATA-ATATAT
109161515 AAAACAAAAC
Statistics
Matches: 30, Mismatches: 2, Indels: 9
0.73 0.05 0.22
Matches are distributed among these distances:
18 6 0.20
19 11 0.37
20 13 0.43
ACGTcount: A:0.40, C:0.00, G:0.02, T:0.58
Consensus pattern (18 bp):
TTATTATATAATATATTA
Found at i:109161486 original size:23 final size:23
Alignment explanation
Indices: 109161460--109161503 Score: 63
Period size: 23 Copynumber: 1.9 Consensus size: 23
109161450 GTATATTTAC
109161460 TTATTATATAATA-TATTATTAAG
1 TTATTAT-TAATATTATTATTAAG
*
109161483 TTATTATTATTATTATTATTA
1 TTATTATTAATATTATTATTA
109161504 TATATATATA
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
22 4 0.21
23 15 0.79
ACGTcount: A:0.39, C:0.00, G:0.02, T:0.59
Consensus pattern (23 bp):
TTATTATTAATATTATTATTAAG
Found at i:109161584 original size:16 final size:15
Alignment explanation
Indices: 109161533--109161588 Score: 53
Period size: 15 Copynumber: 3.7 Consensus size: 15
109161523 ACAAAGTAAA
*
109161533 AGAA-AAAGAAAAAG
1 AGAAGAAAGAAACAG
109161547 A-ATAGAAAGAAACAG
1 AGA-AGAAAGAAACAG
109161562 AGAAGAAACGAAACAG
1 AGAAGAAA-GAAACAG
* *
109161578 GGGAGAAAGAA
1 AGAAGAAAGAA
109161589 GGAGAAAAAG
Statistics
Matches: 35, Mismatches: 3, Indels: 7
0.78 0.07 0.16
Matches are distributed among these distances:
13 1 0.03
14 2 0.06
15 18 0.51
16 14 0.40
ACGTcount: A:0.66, C:0.05, G:0.27, T:0.02
Consensus pattern (15 bp):
AGAAGAAAGAAACAG
Found at i:109162696 original size:6 final size:6
Alignment explanation
Indices: 109162685--109162711 Score: 54
Period size: 6 Copynumber: 4.5 Consensus size: 6
109162675 TGTATACCGC
109162685 TACTGT TACTGT TACTGT TACTGT TAC
1 TACTGT TACTGT TACTGT TACTGT TAC
109162712 CCTTACGGTG
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 21 1.00
ACGTcount: A:0.19, C:0.19, G:0.15, T:0.48
Consensus pattern (6 bp):
TACTGT
Found at i:109166556 original size:3 final size:3
Alignment explanation
Indices: 109166548--109166573 Score: 52
Period size: 3 Copynumber: 8.7 Consensus size: 3
109166538 TTGATTAGAC
109166548 ATA ATA ATA ATA ATA ATA ATA ATA AT
1 ATA ATA ATA ATA ATA ATA ATA ATA AT
109166574 GCATGCATGG
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 23 1.00
ACGTcount: A:0.65, C:0.00, G:0.00, T:0.35
Consensus pattern (3 bp):
ATA
Found at i:109166916 original size:15 final size:14
Alignment explanation
Indices: 109166880--109166948 Score: 50
Period size: 14 Copynumber: 4.6 Consensus size: 14
109166870 TAAACTTTAC
*
109166880 AAATTTATAAAAAT
1 AAATATATAAAAAT
109166894 AAATATATAAAAATCT
1 AAATATATAAAAA--T
*
109166910 AAAATATATATAAATT
1 -AAATATATA-AAAAT
*
109166926 AAAAAT-TAAAAACT
1 AAATATATAAAAA-T
*
109166940 ATATATATA
1 AAATATATA
109166949 TAATATATAT
Statistics
Matches: 43, Mismatches: 6, Indels: 11
0.72 0.10 0.18
Matches are distributed among these distances:
13 3 0.07
14 19 0.44
15 7 0.16
16 2 0.05
17 9 0.21
18 3 0.07
ACGTcount: A:0.64, C:0.03, G:0.00, T:0.33
Consensus pattern (14 bp):
AAATATATAAAAAT
Found at i:109166916 original size:17 final size:17
Alignment explanation
Indices: 109166894--109166951 Score: 61
Period size: 17 Copynumber: 3.6 Consensus size: 17
109166884 TTATAAAAAT
109166894 AAATATATAAAAATCTA
1 AAATATATAAAAATCTA
*
109166911 AAATATATATAAAT-TA
1 AAATATATAAAAATCTA
109166927 AAA-AT-TAAAAA-CTA
1 AAATATATAAAAATCTA
*
109166941 TATATATATAA
1 -AAATATATAA
109166952 TATATATAAA
Statistics
Matches: 34, Mismatches: 3, Indels: 8
0.76 0.07 0.18
Matches are distributed among these distances:
14 7 0.21
15 4 0.12
16 7 0.21
17 16 0.47
ACGTcount: A:0.64, C:0.03, G:0.00, T:0.33
Consensus pattern (17 bp):
AAATATATAAAAATCTA
Found at i:109168189 original size:30 final size:30
Alignment explanation
Indices: 109168148--109168247 Score: 92
Period size: 35 Copynumber: 3.1 Consensus size: 30
109168138 TATTTTATAT
*
109168148 TTTTACAATTTTTAAAAAATTAAATTAAAG
1 TTTTATAATTTTTAAAAAATTAAATTAAAG
* *
109168178 TTTTATTATTTTTAAATAAATAAATAAATTTAAAA
1 TTTTATAATTTTTAAA-AAAT---TAAA-TTAAAG
* * *
109168213 TTTTATAAATTATAAAAAATTAAATAAAAAG
1 TTTTATAATTTTTAAAAAATTAAAT-TAAAG
109168244 TTTT
1 TTTT
109168248 CATTTTAAGG
Statistics
Matches: 56, Mismatches: 8, Indels: 11
0.75 0.11 0.15
Matches are distributed among these distances:
30 15 0.27
31 15 0.27
34 8 0.14
35 18 0.32
ACGTcount: A:0.52, C:0.01, G:0.02, T:0.45
Consensus pattern (30 bp):
TTTTATAATTTTTAAAAAATTAAATTAAAG
Found at i:109171413 original size:10 final size:10
Alignment explanation
Indices: 109171387--109171437 Score: 50
Period size: 10 Copynumber: 4.9 Consensus size: 10
109171377 AATATAAAAA
*
109171387 TAATATATTT
1 TAATATAATT
109171397 TAA-ATAATT
1 TAATATAATT
109171406 TAATATAAAATAT
1 TAATAT--AAT-T
*
109171419 TAATTTAATT
1 TAATATAATT
109171429 TAATATAAT
1 TAATATAAT
109171438 ATATTAATAT
Statistics
Matches: 34, Mismatches: 3, Indels: 8
0.76 0.07 0.18
Matches are distributed among these distances:
9 8 0.24
10 14 0.41
11 3 0.09
12 3 0.09
13 6 0.18
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (10 bp):
TAATATAATT
Found at i:109171444 original size:18 final size:18
Alignment explanation
Indices: 109171399--109171448 Score: 57
Period size: 18 Copynumber: 2.8 Consensus size: 18
109171389 ATATATTTTA
109171399 AATAATTTAATATAAAAT
1 AATAATTTAATATAAAAT
* * *
109171417 ATTAATTTAATTTAATAT
1 AATAATTTAATATAAAAT
109171435 AAT-ATATTAATATA
1 AATAAT-TTAATATA
109171449 TATTAATATT
Statistics
Matches: 26, Mismatches: 5, Indels: 2
0.79 0.15 0.06
Matches are distributed among these distances:
17 2 0.08
18 24 0.92
ACGTcount: A:0.54, C:0.00, G:0.00, T:0.46
Consensus pattern (18 bp):
AATAATTTAATATAAAAT
Found at i:109171446 original size:13 final size:12
Alignment explanation
Indices: 109171405--109171457 Score: 51
Period size: 10 Copynumber: 4.6 Consensus size: 12
109171395 TTTAAATAAT
109171405 TTAATATAAAATA
1 TTAATAT-AAATA
*
109171418 TTAAT-TTAAT-
1 TTAATATAAATA
109171428 TTAATATAATATA
1 TTAATATAA-ATA
109171441 TTAATAT--ATA
1 TTAATATAAATA
109171451 TTAATAT
1 TTAATAT
109171458 TTTATTTTAA
Statistics
Matches: 35, Mismatches: 2, Indels: 9
0.76 0.04 0.20
Matches are distributed among these distances:
10 15 0.43
11 5 0.14
12 3 0.09
13 12 0.34
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (12 bp):
TTAATATAAATA
Found at i:109171454 original size:23 final size:23
Alignment explanation
Indices: 109171396--109171457 Score: 83
Period size: 23 Copynumber: 2.7 Consensus size: 23
109171386 ATAATATATT
109171396 TTAA-ATAATTTAATATAAAATA
1 TTAATATAATTTAATATAAAATA
* *
109171418 TTAATTTAATTTAATATAATATA
1 TTAATATAATTTAATATAAAATA
109171441 TTAATAT-ATATTAATAT
1 TTAATATAAT-TTAATAT
109171458 TTTATTTTAA
Statistics
Matches: 35, Mismatches: 3, Indels: 3
0.85 0.07 0.07
Matches are distributed among these distances:
22 6 0.17
23 29 0.83
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (23 bp):
TTAATATAATTTAATATAAAATA
Found at i:109171472 original size:10 final size:10
Alignment explanation
Indices: 109171437--109171532 Score: 52
Period size: 10 Copynumber: 8.9 Consensus size: 10
109171427 TTTAATATAA
109171437 TATATT-AAT
1 TATATTAAAT
109171446 ATATATTAATATTT
1 -TATATTAA-A--T
*
109171460 TATTTTAAAT
1 TATATTAAAT
*
109171470 TATATTAAAA
1 TATATTAAAT
109171480 TATATTAAGAAT
1 TATATT-A-AAT
109171492 GT-TATTAAAT
1 -TATATTAAAT
* *
109171502 TATATATTATT
1 TATAT-TAAAT
*
109171513 TTTATTAAAT
1 TATATTAAAT
109171523 TATATGTAAA
1 TATAT-TAAA
109171533 AGCCCAAATT
Statistics
Matches: 66, Mismatches: 10, Indels: 19
0.69 0.11 0.20
Matches are distributed among these distances:
9 1 0.02
10 34 0.52
11 14 0.21
12 8 0.12
13 8 0.12
14 1 0.02
ACGTcount: A:0.45, C:0.00, G:0.03, T:0.52
Consensus pattern (10 bp):
TATATTAAAT
Found at i:109172906 original size:17 final size:18
Alignment explanation
Indices: 109172886--109172930 Score: 65
Period size: 19 Copynumber: 2.5 Consensus size: 18
109172876 TTATTATGAG
109172886 TATTATTTTTAAT-TATA
1 TATTATTTTTAATATATA
*
109172903 TATTATTATTTATTATATA
1 TATTATT-TTTAATATATA
109172922 TATTATTTT
1 TATTATTTT
109172931 CCTTAAATTA
Statistics
Matches: 25, Mismatches: 1, Indels: 3
0.86 0.03 0.10
Matches are distributed among these distances:
17 7 0.28
18 7 0.28
19 11 0.44
ACGTcount: A:0.33, C:0.00, G:0.00, T:0.67
Consensus pattern (18 bp):
TATTATTTTTAATATATA
Found at i:109172940 original size:40 final size:41
Alignment explanation
Indices: 109172896--109173015 Score: 109
Period size: 42 Copynumber: 2.8 Consensus size: 41
109172886 TATTATTTTT
*
109172896 AATTATATATTATTATTTATTATATATAT-TATTTTC-CTTA
1 AATTATAT-TTATTATTTATTATATATATATATTTTCACATA
* * *
109172936 AATTATTATTTTACATCTTTTTTATATATTATTATATTTTCACATA
1 AATTA-TA-TTTA-TTATTTATTATATA-TA-TATATTTTCACATA
* *
109172982 TATTATATTTATTAATTACTTATATATATATATT
1 AATTATATTTATTATTTA-TTATATATATATATT
109173016 GTTTTATACG
Statistics
Matches: 63, Mismatches: 9, Indels: 14
0.73 0.10 0.16
Matches are distributed among these distances:
40 5 0.08
41 5 0.08
42 18 0.29
43 7 0.11
44 12 0.19
45 9 0.14
46 7 0.11
ACGTcount: A:0.35, C:0.06, G:0.00, T:0.59
Consensus pattern (41 bp):
AATTATATTTATTATTTATTATATATATATATTTTCACATA
Found at i:109173112 original size:18 final size:20
Alignment explanation
Indices: 109173089--109173137 Score: 59
Period size: 19 Copynumber: 2.5 Consensus size: 20
109173079 ATATAATCTT
109173089 TATTATGTT-TT-ATTTTTA
1 TATTATGTTATTGATTTTTA
*
109173107 TATTAT-TTATTGTTTTTTA
1 TATTATGTTATTGATTTTTA
109173126 TATATATGTTAT
1 TAT-TATGTTAT
109173138 GTATATCATG
Statistics
Matches: 26, Mismatches: 1, Indels: 5
0.81 0.03 0.16
Matches are distributed among these distances:
17 2 0.08
18 8 0.31
19 9 0.35
20 3 0.12
21 4 0.15
ACGTcount: A:0.24, C:0.00, G:0.06, T:0.69
Consensus pattern (20 bp):
TATTATGTTATTGATTTTTA
Found at i:109173740 original size:21 final size:21
Alignment explanation
Indices: 109173701--109173741 Score: 57
Period size: 21 Copynumber: 2.0 Consensus size: 21
109173691 TTTTTTTGCT
109173701 TCGTATGTATTATTCTTTATA
1 TCGTATGTATTATTCTTTATA
*
109173722 TCGTA-GTATTCATTTTTTAT
1 TCGTATGTATT-ATTCTTTAT
109173742 CTACCTAGTA
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
20 5 0.28
21 13 0.72
ACGTcount: A:0.22, C:0.10, G:0.10, T:0.59
Consensus pattern (21 bp):
TCGTATGTATTATTCTTTATA
Found at i:109177438 original size:3 final size:3
Alignment explanation
Indices: 109177432--109177468 Score: 74
Period size: 3 Copynumber: 12.3 Consensus size: 3
109177422 ATAAAAAAAG
109177432 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA A
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA A
109177469 CACCCAATAT
Statistics
Matches: 34, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 34 1.00
ACGTcount: A:0.68, C:0.00, G:0.00, T:0.32
Consensus pattern (3 bp):
ATA
Found at i:109178535 original size:108 final size:108
Alignment explanation
Indices: 109178346--109178556 Score: 332
Period size: 108 Copynumber: 2.0 Consensus size: 108
109178336 TTTTTAATAT
* * *
109178346 ATACAATTTATTATCTATATTAGTTGCATAATTAGTTTCAAACCATACGGGTCATTATTTATTAT
1 ATACAATTTAGTATCTACATTAGTTGCATAATTAGTTTCAAACCATACCGGTCATTATTTATTAT
* * *
109178411 ATTTACTTTTAAACAAGCATTTGTGTTTTACGTTTTCATATGC
66 ATGTACTTTTAAACAAGCATTTGCGTTTTAAGTTTTCATATGC
* * *
109178454 ATACAATTTAGTATCTACATTAGTTGCATAATTAGTTTCAAACCATACCGGTTATTTTTTATTGT
1 ATACAATTTAGTATCTACATTAGTTGCATAATTAGTTTCAAACCATACCGGTCATTATTTATTAT
*
109178519 ATGTATTTTTAAACAAGCATTTGCGTTTTAAGTTTTCA
66 ATGTACTTTTAAACAAGCATTTGCGTTTTAAGTTTTCA
109178557 CACGTATATG
Statistics
Matches: 93, Mismatches: 10, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
108 93 1.00
ACGTcount: A:0.30, C:0.13, G:0.11, T:0.46
Consensus pattern (108 bp):
ATACAATTTAGTATCTACATTAGTTGCATAATTAGTTTCAAACCATACCGGTCATTATTTATTAT
ATGTACTTTTAAACAAGCATTTGCGTTTTAAGTTTTCATATGC
Found at i:109179062 original size:30 final size:30
Alignment explanation
Indices: 109179026--109179083 Score: 98
Period size: 30 Copynumber: 1.9 Consensus size: 30
109179016 TAAGAATTTT
* *
109179026 ATAGAAAATATGTATTTTTTAATTTTTTAA
1 ATAGAAAATATATATTTTTGAATTTTTTAA
109179056 ATAGAAAATATATATTTTTGAATTTTTT
1 ATAGAAAATATATATTTTTGAATTTTTT
109179084 CAATGTTTAA
Statistics
Matches: 26, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
30 26 1.00
ACGTcount: A:0.40, C:0.00, G:0.07, T:0.53
Consensus pattern (30 bp):
ATAGAAAATATATATTTTTGAATTTTTTAA
Found at i:109182837 original size:65 final size:66
Alignment explanation
Indices: 109182707--109182840 Score: 189
Period size: 65 Copynumber: 2.0 Consensus size: 66
109182697 TCTTTAAATT
* * * ** *
109182707 AGAATAATTAGTAGGATTACCAACCCATACCTCTTGTGGAGTCTTTTTCTCAATGGCAACGGATG
1 AGAATAATTAGCAAGATGACCAACCCATACCTCTTGTGGAGTCTTTTTCTCAATGAAAACAGATG
109182772 G
66 G
* *
109182773 AGAATAATTAGCAAGATGACC-AGCCATACCTCTTGTGGAGTCTTTTTCTCAATGAAAATAGATG
1 AGAATAATTAGCAAGATGACCAACCCATACCTCTTGTGGAGTCTTTTTCTCAATGAAAACAGATG
109182837 G
66 G
109182838 AGA
1 AGA
109182841 TCGGTTGATC
Statistics
Matches: 60, Mismatches: 8, Indels: 1
0.87 0.12 0.01
Matches are distributed among these distances:
65 42 0.70
66 18 0.30
ACGTcount: A:0.32, C:0.18, G:0.21, T:0.29
Consensus pattern (66 bp):
AGAATAATTAGCAAGATGACCAACCCATACCTCTTGTGGAGTCTTTTTCTCAATGAAAACAGATG
G
Found at i:109185646 original size:29 final size:28
Alignment explanation
Indices: 109185586--109185674 Score: 83
Period size: 28 Copynumber: 3.1 Consensus size: 28
109185576 AATTTTGGGT
* *
109185586 AAAATTGTAAAATTTGTAAAGTAG-GGAGA
1 AAAATTGTAAAATTTG-AAAATAGAGG-CA
109185615 AAAATTGTAAAATTTGAAATATAGAGGCA
1 AAAATTGTAAAATTTGAAA-ATAGAGGCA
* * *
109185644 AAAA-TATAATATCTGAAAGATAGAGGCA
1 AAAATTGTAAAATTTGAAA-ATAGAGGCA
109185672 AAA
1 AAA
109185675 CTGTAAGATA
Statistics
Matches: 52, Mismatches: 6, Indels: 5
0.83 0.10 0.08
Matches are distributed among these distances:
28 26 0.50
29 24 0.46
30 2 0.04
ACGTcount: A:0.53, C:0.03, G:0.19, T:0.25
Consensus pattern (28 bp):
AAAATTGTAAAATTTGAAAATAGAGGCA
Found at i:109189103 original size:16 final size:15
Alignment explanation
Indices: 109189082--109189124 Score: 54
Period size: 14 Copynumber: 2.9 Consensus size: 15
109189072 TAAGGTAAAC
109189082 TAATTAAAGATTAAGT
1 TAATT-AAGATTAAGT
109189098 TAATT-A-ATTAAAGT
1 TAATTAAGATT-AAGT
109189112 TAATTAAGATTAA
1 TAATTAAGATTAA
109189125 TCATGGTATA
Statistics
Matches: 24, Mismatches: 0, Indels: 7
0.77 0.00 0.23
Matches are distributed among these distances:
13 3 0.12
14 10 0.42
15 3 0.12
16 8 0.33
ACGTcount: A:0.51, C:0.00, G:0.09, T:0.40
Consensus pattern (15 bp):
TAATTAAGATTAAGT
Found at i:109189109 original size:29 final size:31
Alignment explanation
Indices: 109189051--109189125 Score: 79
Period size: 30 Copynumber: 2.5 Consensus size: 31
109189041 GTTATTTTCC
109189051 ACTAA-TAAAG-TTAATGATAATTAAGGTAA
1 ACTAATTAAAGATTAATGATAATTAAGGTAA
* *
109189080 ACTAATTAAAGATTAA-GTTAATTAA-TTAA
1 ACTAATTAAAGATTAATGATAATTAAGGTAA
*
109189109 AGTTAATT-AAGATTAAT
1 A-CTAATTAAAGATTAAT
109189126 CATGGTATAT
Statistics
Matches: 39, Mismatches: 3, Indels: 7
0.80 0.06 0.14
Matches are distributed among these distances:
29 17 0.44
30 18 0.46
31 4 0.10
ACGTcount: A:0.51, C:0.03, G:0.11, T:0.36
Consensus pattern (31 bp):
ACTAATTAAAGATTAATGATAATTAAGGTAA
Found at i:109189125 original size:20 final size:20
Alignment explanation
Indices: 109189082--109189118 Score: 60
Period size: 20 Copynumber: 1.9 Consensus size: 20
109189072 TAAGGTAAAC
109189082 TAATTAAAGATTAAGTTAAT
1 TAATTAAAGATTAAGTTAAT
109189102 TAATTAAAG-TTAA-TTAA
1 TAATTAAAGATTAAGTTAA
109189119 GATTAATCAT
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
18 4 0.24
19 4 0.24
20 9 0.53
ACGTcount: A:0.51, C:0.00, G:0.08, T:0.41
Consensus pattern (20 bp):
TAATTAAAGATTAAGTTAAT
Found at i:109192305 original size:22 final size:23
Alignment explanation
Indices: 109192286--109192327 Score: 63
Period size: 21 Copynumber: 2.0 Consensus size: 23
109192276 AATAATTAGG
109192286 AATAATTA-AA-TAAAATATTAA
1 AATAATTAGAATTAAAATATTAA
109192307 AATAATTAGAATTAAAA-ATTA
1 AATAATTAGAATTAAAATATTA
109192328 TAGGTTAAAA
Statistics
Matches: 19, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
21 8 0.42
22 6 0.32
23 5 0.26
ACGTcount: A:0.64, C:0.00, G:0.02, T:0.33
Consensus pattern (23 bp):
AATAATTAGAATTAAAATATTAA
Found at i:109195962 original size:29 final size:29
Alignment explanation
Indices: 109195890--109195962 Score: 76
Period size: 30 Copynumber: 2.5 Consensus size: 29
109195880 AATTTGTCAA
* *
109195890 TCAACTTTAATGTGATTGAATTTTGCCAC
1 TCAACTTTAATTTTATTGAATTTTGCCAC
* * *
109195919 TAAAATTTGAATTTTATTGAACTTTTTCCAC
1 TCAACTTT-AATTTTATTGAA-TTTTGCCAC
109195950 -CAACTTTAATTTT
1 TCAACTTTAATTTT
109195963 TATAATTAAA
Statistics
Matches: 35, Mismatches: 7, Indels: 4
0.76 0.15 0.09
Matches are distributed among these distances:
29 12 0.34
30 15 0.43
31 8 0.23
ACGTcount: A:0.30, C:0.15, G:0.08, T:0.47
Consensus pattern (29 bp):
TCAACTTTAATTTTATTGAATTTTGCCAC
Found at i:109196173 original size:28 final size:30
Alignment explanation
Indices: 109196127--109196186 Score: 72
Period size: 28 Copynumber: 2.1 Consensus size: 30
109196117 AAAAGACTTG
109196127 AAAATTAAATATAATTTAACTTTAAT-TTTT
1 AAAATTAAATATAATTTAA-TTTAATATTTT
* *
109196157 AAAATTATAT-TAA-TTAATTTATTATTTT
1 AAAATTAAATATAATTTAATTTAATATTTT
109196185 AA
1 AA
109196187 CTATTAAAAT
Statistics
Matches: 27, Mismatches: 2, Indels: 4
0.82 0.06 0.12
Matches are distributed among these distances:
27 5 0.19
28 10 0.37
29 3 0.11
30 9 0.33
ACGTcount: A:0.47, C:0.02, G:0.00, T:0.52
Consensus pattern (30 bp):
AAAATTAAATATAATTTAATTTAATATTTT
Found at i:109196870 original size:16 final size:16
Alignment explanation
Indices: 109196849--109196880 Score: 64
Period size: 16 Copynumber: 2.0 Consensus size: 16
109196839 GGGAATTAAT
109196849 TATCAATTAATGAAAC
1 TATCAATTAATGAAAC
109196865 TATCAATTAATGAAAC
1 TATCAATTAATGAAAC
109196881 AGCTGTGAAG
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 16 1.00
ACGTcount: A:0.50, C:0.12, G:0.06, T:0.31
Consensus pattern (16 bp):
TATCAATTAATGAAAC
Found at i:109203237 original size:23 final size:24
Alignment explanation
Indices: 109203199--109203243 Score: 65
Period size: 23 Copynumber: 1.9 Consensus size: 24
109203189 ATTTATTGAG
* *
109203199 TAATTAAAAATTTAACCATAAAAA
1 TAATTAAAAATGTAACAATAAAAA
109203223 TAATT-AAAATGTAACAATAAA
1 TAATTAAAAATGTAACAATAAA
109203244 TTGTATATAT
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
23 14 0.74
24 5 0.26
ACGTcount: A:0.62, C:0.07, G:0.02, T:0.29
Consensus pattern (24 bp):
TAATTAAAAATGTAACAATAAAAA
Found at i:109203297 original size:20 final size:19
Alignment explanation
Indices: 109203248--109203300 Score: 63
Period size: 18 Copynumber: 2.8 Consensus size: 19
109203238 AATAAATTGT
* *
109203248 ATATATTGTTATTAACAAA
1 ATATATTATTATTTACAAA
*
109203267 AT-TATTTTTATTTACTAAA
1 ATATATTATTATTTAC-AAA
109203286 ATATATTATTATTTA
1 ATATATTATTATTTA
109203301 TTTTCTTGAA
Statistics
Matches: 29, Mismatches: 3, Indels: 3
0.83 0.09 0.09
Matches are distributed among these distances:
18 11 0.38
19 7 0.24
20 11 0.38
ACGTcount: A:0.42, C:0.04, G:0.02, T:0.53
Consensus pattern (19 bp):
ATATATTATTATTTACAAA
Found at i:109203565 original size:2 final size:2
Alignment explanation
Indices: 109203558--109203589 Score: 64
Period size: 2 Copynumber: 16.0 Consensus size: 2
109203548 ATATTATTAG
109203558 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
109203590 GACAGAAACA
Statistics
Matches: 30, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 30 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:109208737 original size:10 final size:10
Alignment explanation
Indices: 109208715--109208757 Score: 54
Period size: 10 Copynumber: 4.4 Consensus size: 10
109208705 ATAATAAAAT
109208715 AAATATTTA-A
1 AAAT-TTTATA
109208725 AAATTTTATA
1 AAATTTTATA
109208735 AAATTTT-TA
1 AAATTTTATA
*
109208744 AAATTTTATT
1 AAATTTTATA
109208754 AAAT
1 AAAT
109208758 CGGTTTAACT
Statistics
Matches: 30, Mismatches: 1, Indels: 4
0.86 0.03 0.11
Matches are distributed among these distances:
9 13 0.43
10 17 0.57
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (10 bp):
AAATTTTATA
Found at i:109217224 original size:29 final size:30
Alignment explanation
Indices: 109217191--109217250 Score: 113
Period size: 30 Copynumber: 2.0 Consensus size: 30
109217181 ATATATATAC
109217191 TATATTAA-TAAAATTAAAAAATAATAATT
1 TATATTAAGTAAAATTAAAAAATAATAATT
109217220 TATATTAAGTAAAATTAAAAAATAATAATT
1 TATATTAAGTAAAATTAAAAAATAATAATT
109217250 T
1 T
109217251 TTTTTCTATT
Statistics
Matches: 30, Mismatches: 0, Indels: 1
0.97 0.00 0.03
Matches are distributed among these distances:
29 8 0.27
30 22 0.73
ACGTcount: A:0.60, C:0.00, G:0.02, T:0.38
Consensus pattern (30 bp):
TATATTAAGTAAAATTAAAAAATAATAATT
Found at i:109223543 original size:43 final size:43
Alignment explanation
Indices: 109223482--109223573 Score: 157
Period size: 43 Copynumber: 2.1 Consensus size: 43
109223472 TTATTTAAAA
*
109223482 AAACGCCACTAAAGGTCATGACCTTTAGCGGCGCTTTTCCCAC
1 AAACGCCACTAAAGGTCATGACCTTTAGCGGCGCTTTACCCAC
* *
109223525 AAACGCCGCTAAAGGTCATGACCTTTCGCGGCGCTTTACCCAC
1 AAACGCCACTAAAGGTCATGACCTTTAGCGGCGCTTTACCCAC
109223568 AAACGC
1 AAACGC
109223574 AAAATAAAAT
Statistics
Matches: 46, Mismatches: 3, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
43 46 1.00
ACGTcount: A:0.26, C:0.34, G:0.20, T:0.21
Consensus pattern (43 bp):
AAACGCCACTAAAGGTCATGACCTTTAGCGGCGCTTTACCCAC
Found at i:109224591 original size:138 final size:138
Alignment explanation
Indices: 109224422--109224673 Score: 452
Period size: 138 Copynumber: 1.8 Consensus size: 138
109224412 TTTTAAAATT
*
109224422 TTAAATCAAATAAGTTGCATAATAACATAACAAAGAGAAATGTTAA-TATAAAACCTAAAAATAA
1 TTAAATCAAATAAGTTGCATAATAACATAACAAAGAGAAATG-TAATTATAAAACCTAAAAACAA
* *
109224486 TTTAATGCCAATTTTTAAGGAAATTACATATGGTTCTAAAATTCAAAACAAGTACTCCTAAAAGC
65 TTTAATGCCAATTTTTAAAGAAATTACATATGATTCTAAAATTCAAAACAAGTACTCCTAAAAGC
109224551 ATCCAGACG
130 ATCCAGACG
109224560 TTAAATCAAATAAGTTGCATAATAACATAACAAAGAGAAATGTAATTATAAAACCTAAAAACAAT
1 TTAAATCAAATAAGTTGCATAATAACATAACAAAGAGAAATGTAATTATAAAACCTAAAAACAAT
*
109224625 TTAATGCCAATTTTTAAAGAGATTACATATGATTCTAAAATTCAAAACA
66 TTAATGCCAATTTTTAAAGAAATTACATATGATTCTAAAATTCAAAACA
109224674 GGGACTCCAC
Statistics
Matches: 109, Mismatches: 4, Indels: 2
0.95 0.03 0.02
Matches are distributed among these distances:
137 3 0.03
138 106 0.97
ACGTcount: A:0.50, C:0.13, G:0.09, T:0.28
Consensus pattern (138 bp):
TTAAATCAAATAAGTTGCATAATAACATAACAAAGAGAAATGTAATTATAAAACCTAAAAACAAT
TTAATGCCAATTTTTAAAGAAATTACATATGATTCTAAAATTCAAAACAAGTACTCCTAAAAGCA
TCCAGACG
Found at i:109226609 original size:17 final size:18
Alignment explanation
Indices: 109226576--109226609 Score: 52
Period size: 18 Copynumber: 1.9 Consensus size: 18
109226566 TATCTCTTAA
109226576 ATAATTTAAACTATATTG
1 ATAATTTAAACTATATTG
*
109226594 ATAATTTTAA-TATATT
1 ATAATTTAAACTATATT
109226610 AAAACAATTA
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
17 6 0.40
18 9 0.60
ACGTcount: A:0.44, C:0.03, G:0.03, T:0.50
Consensus pattern (18 bp):
ATAATTTAAACTATATTG
Found at i:109227079 original size:14 final size:14
Alignment explanation
Indices: 109227034--109227065 Score: 55
Period size: 14 Copynumber: 2.3 Consensus size: 14
109227024 GTAAACCAAA
109227034 AAACCACAAACTCT
1 AAACCACAAACTCT
*
109227048 AAACCATAAACTCT
1 AAACCACAAACTCT
109227062 AAAC
1 AAAC
109227066 TCTAAACCAA
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
14 17 1.00
ACGTcount: A:0.53, C:0.31, G:0.00, T:0.16
Consensus pattern (14 bp):
AAACCACAAACTCT
Found at i:109227085 original size:21 final size:21
Alignment explanation
Indices: 109227020--109227086 Score: 71
Period size: 21 Copynumber: 3.1 Consensus size: 21
109227010 CTACGATCCT
* * *
109227020 AACTGTAAACCAAAAAACCACA
1 AACTCTAAACC-AAAAACAATA
* **
109227042 AACTCTAAACCATAAACTCTA
1 AACTCTAAACCAAAAACAATA
109227063 AACTCTAAACCAAAAACAATA
1 AACTCTAAACCAAAAACAATA
109227084 AAC
1 AAC
109227087 ATTATATCAT
Statistics
Matches: 37, Mismatches: 8, Indels: 1
0.80 0.17 0.02
Matches are distributed among these distances:
21 27 0.73
22 10 0.27
ACGTcount: A:0.57, C:0.27, G:0.01, T:0.15
Consensus pattern (21 bp):
AACTCTAAACCAAAAACAATA
Found at i:109227867 original size:40 final size:40
Alignment explanation
Indices: 109227823--109227904 Score: 112
Period size: 41 Copynumber: 2.0 Consensus size: 40
109227813 CCTCGACCTA
* * *
109227823 TAGCGGCGTTT-TTCCAAAAGCGCCGCTATTGTTCAGTTTT
1 TAGCGGCGTTTGAT-CAAAAACGCCGCTATTGCTCAGTTTT
109227863 TAGCGGCGTTTGGATCAAAAACGCCGCTATTGCTCAGTTTT
1 TAGCGGCGTTT-GATCAAAAACGCCGCTATTGCTCAGTTTT
109227904 T
1 T
109227905 TGTGGCATTT
Statistics
Matches: 37, Mismatches: 3, Indels: 3
0.86 0.07 0.07
Matches are distributed among these distances:
40 11 0.30
41 25 0.68
42 1 0.03
ACGTcount: A:0.20, C:0.22, G:0.23, T:0.35
Consensus pattern (40 bp):
TAGCGGCGTTTGATCAAAAACGCCGCTATTGCTCAGTTTT
Found at i:109228440 original size:14 final size:14
Alignment explanation
Indices: 109228421--109228450 Score: 51
Period size: 14 Copynumber: 2.1 Consensus size: 14
109228411 ATCACCCTTT
*
109228421 AAAATCAAGATTAA
1 AAAATCAAAATTAA
109228435 AAAATCAAAATTAA
1 AAAATCAAAATTAA
109228449 AA
1 AA
109228451 TCAGAATCAA
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
14 15 1.00
ACGTcount: A:0.70, C:0.07, G:0.03, T:0.20
Consensus pattern (14 bp):
AAAATCAAAATTAA
Found at i:109233081 original size:13 final size:13
Alignment explanation
Indices: 109233065--109233097 Score: 50
Period size: 13 Copynumber: 2.6 Consensus size: 13
109233055 TTTAATTAAA
*
109233065 TTAGTTAATTAGT
1 TTAGATAATTAGT
109233078 TTAGATAATTAGT
1 TTAGATAATTAGT
109233091 TTA-ATAA
1 TTAGATAA
109233098 ACAAACCCTT
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
12 4 0.21
13 15 0.79
ACGTcount: A:0.39, C:0.00, G:0.12, T:0.48
Consensus pattern (13 bp):
TTAGATAATTAGT
Found at i:109238315 original size:11 final size:11
Alignment explanation
Indices: 109238295--109238373 Score: 63
Period size: 11 Copynumber: 6.9 Consensus size: 11
109238285 ATCCTCCTAT
109238295 TTTTTA-TTTA
1 TTTTTATTTTA
*
109238305 TTCTTATTTTA
1 TTTTTATTTTA
109238316 -TTTTATTTTTA
1 TTTTTA-TTTTA
*
109238327 TTTTTCTTTTGA
1 TTTTTATTTT-A
109238339 TTTTTATTTTTA
1 TTTTTA-TTTTA
**
109238351 TTTCAATTTTA
1 TTTTTATTTTA
109238362 TTATTTTATTTT
1 -T-TTTTATTTT
109238374 GAAAGACATA
Statistics
Matches: 54, Mismatches: 8, Indels: 11
0.74 0.11 0.15
Matches are distributed among these distances:
10 9 0.17
11 18 0.33
12 16 0.30
13 11 0.20
ACGTcount: A:0.18, C:0.04, G:0.01, T:0.77
Consensus pattern (11 bp):
TTTTTATTTTA
Found at i:109238318 original size:5 final size:5
Alignment explanation
Indices: 109238296--109238373 Score: 54
Period size: 6 Copynumber: 14.8 Consensus size: 5
109238286 TCCTCCTATT
*
109238296 TTTTA -TTTA TTCTTA TTTTA TTTTA TTTTTA TTTTTC TTTTGA TTTTTA
1 TTTTA TTTTA TT-TTA TTTTA TTTTA -TTTTA -TTTTA TTTT-A -TTTTA
*
109238345 TTTTTA TTTCAA TTTTA --TTA TTTTA TTTT
1 -TTTTA TTT-TA TTTTA TTTTA TTTTA TTTT
109238374 GAAAGACATA
Statistics
Matches: 61, Mismatches: 4, Indels: 16
0.75 0.05 0.20
Matches are distributed among these distances:
3 3 0.05
4 4 0.07
5 24 0.39
6 26 0.43
7 4 0.07
ACGTcount: A:0.18, C:0.04, G:0.01, T:0.77
Consensus pattern (5 bp):
TTTTA
Found at i:109238326 original size:22 final size:22
Alignment explanation
Indices: 109238292--109238352 Score: 70
Period size: 22 Copynumber: 2.7 Consensus size: 22
109238282 TGAATCCTCC
109238292 TATTTT-TTATTTATTCTTATTT
1 TATTTTATT-TTTATTCTTATTT
* *
109238314 TATTTTATTTTTATTTTTCTTT
1 TATTTTATTTTTATTCTTATTT
109238336 TGATTTTTATTTTTATT
1 T-A-TTTTATTTTTATT
109238353 TCAATTTTAT
Statistics
Matches: 34, Mismatches: 2, Indels: 4
0.85 0.05 0.10
Matches are distributed among these distances:
22 18 0.53
23 3 0.09
24 13 0.38
ACGTcount: A:0.16, C:0.03, G:0.02, T:0.79
Consensus pattern (22 bp):
TATTTTATTTTTATTCTTATTT
Found at i:109238343 original size:7 final size:6
Alignment explanation
Indices: 109238292--109238353 Score: 67
Period size: 6 Copynumber: 10.8 Consensus size: 6
109238282 TGAATCCTCC
* * *
109238292 TATTTT T-TATT TATTCT TA-TTT TA-TTT TATTTT TATTTT TCTTTT
1 TATTTT TATTTT TATTTT TATTTT TATTTT TATTTT TATTTT TATTTT
*
109238337 GATTTT TATTTT TATTT
1 TATTTT TATTTT TATTT
109238354 CAATTTTATT
Statistics
Matches: 46, Mismatches: 8, Indels: 4
0.79 0.14 0.07
Matches are distributed among these distances:
5 13 0.28
6 33 0.72
ACGTcount: A:0.16, C:0.03, G:0.02, T:0.79
Consensus pattern (6 bp):
TATTTT
Found at i:109238343 original size:18 final size:17
Alignment explanation
Indices: 109238295--109238373 Score: 81
Period size: 18 Copynumber: 4.6 Consensus size: 17
109238285 ATCCTCCTAT
*
109238295 TTTTTA-TTTATTCTTA
1 TTTTTATTTTATTTTTA
109238311 -TTTTATTTTATTTTTA
1 TTTTTATTTTATTTTTA
*
109238327 TTTTTCTTTTGATTTTTA
1 TTTTTATTTT-ATTTTTA
* *
109238345 TTTTTATTTCAATTTTA
1 TTTTTATTTTATTTTTA
109238362 TTATTTTATTTT
1 -T-TTTTATTTT
109238374 GAAAGACATA
Statistics
Matches: 52, Mismatches: 6, Indels: 7
0.80 0.09 0.11
Matches are distributed among these distances:
15 5 0.10
16 9 0.17
17 14 0.27
18 16 0.31
19 8 0.15
ACGTcount: A:0.18, C:0.04, G:0.01, T:0.77
Consensus pattern (17 bp):
TTTTTATTTTATTTTTA
Found at i:109238360 original size:24 final size:25
Alignment explanation
Indices: 109238313--109238373 Score: 72
Period size: 24 Copynumber: 2.5 Consensus size: 25
109238303 TATTCTTATT
***
109238313 TTATTTTATTTTTATTTTTCTTTTGA
1 TTATTTTATTTTTATTTCAATTTT-A
109238339 -T-TTTTATTTTTATTTCAATTTTA
1 TTATTTTATTTTTATTTCAATTTTA
109238362 TTATTTTATTTT
1 TTATTTTATTTT
109238374 GAAAGACATA
Statistics
Matches: 30, Mismatches: 3, Indels: 5
0.79 0.08 0.13
Matches are distributed among these distances:
23 1 0.03
24 19 0.63
25 10 0.33
ACGTcount: A:0.18, C:0.03, G:0.02, T:0.77
Consensus pattern (25 bp):
TTATTTTATTTTTATTTCAATTTTA
Found at i:109243416 original size:13 final size:13
Alignment explanation
Indices: 109243400--109243432 Score: 50
Period size: 13 Copynumber: 2.6 Consensus size: 13
109243390 TTTAATTAAA
*
109243400 TTAGTTAATTAGT
1 TTAGATAATTAGT
109243413 TTAGATAATTAGT
1 TTAGATAATTAGT
109243426 TTA-ATAA
1 TTAGATAA
109243433 ACAAACCCTT
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
12 4 0.21
13 15 0.79
ACGTcount: A:0.39, C:0.00, G:0.12, T:0.48
Consensus pattern (13 bp):
TTAGATAATTAGT
Found at i:109244816 original size:26 final size:26
Alignment explanation
Indices: 109244778--109244913 Score: 227
Period size: 26 Copynumber: 5.2 Consensus size: 26
109244768 TGATACAAAT
*
109244778 TGATAATAAGTTAGGTAAATGTTTCA
1 TGATAATAGGTTAGGTAAATGTTTCA
*
109244804 TGATAATAGGTTAGGTAAATGTTCCA
1 TGATAATAGGTTAGGTAAATGTTTCA
*
109244830 TGATAATAGGTTAGGTAAATGTTCCA
1 TGATAATAGGTTAGGTAAATGTTTCA
*
109244856 TGATAATGGGTTAGGTAAATGTTTCA
1 TGATAATAGGTTAGGTAAATGTTTCA
*
109244882 TGATAATGGGTTAGGTAAATGTTTCA
1 TGATAATAGGTTAGGTAAATGTTTCA
109244908 TGATAA
1 TGATAA
109244914 GAATATCATG
Statistics
Matches: 106, Mismatches: 4, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
26 106 1.00
ACGTcount: A:0.35, C:0.05, G:0.24, T:0.37
Consensus pattern (26 bp):
TGATAATAGGTTAGGTAAATGTTTCA
Found at i:109246455 original size:26 final size:26
Alignment explanation
Indices: 109246403--109246455 Score: 63
Period size: 26 Copynumber: 2.0 Consensus size: 26
109246393 TTTACAGTTT
*
109246403 TACCCCTAGGAGATAAATTATCGAAA
1 TACCCCTAGGAGATAAATTACCGAAA
* *
109246429 TACCCCTAGG-GTTAAATTGACCTAAA
1 TACCCCTAGGAGATAAATT-ACCGAAA
109246455 T
1 T
109246456 GCATGTTTGA
Statistics
Matches: 23, Mismatches: 3, Indels: 2
0.82 0.11 0.07
Matches are distributed among these distances:
25 7 0.30
26 16 0.70
ACGTcount: A:0.38, C:0.21, G:0.15, T:0.26
Consensus pattern (26 bp):
TACCCCTAGGAGATAAATTACCGAAA
Found at i:109246951 original size:138 final size:137
Alignment explanation
Indices: 109246703--109246990 Score: 531
Period size: 138 Copynumber: 2.1 Consensus size: 137
109246693 GAGTAGTCTC
109246703 CCCAAATGGGCTTGCATATGTTTACTGATGTTGCATGTATTTTGAAATGGGCCTATGGGCCATAC
1 CCCAAATGGGCTTGCATATGTTTACTGATGTTGCATGTATTTTGAAATGGGCCTATGGGCCATAC
109246768 TGTTATCTGAATAAGGGGCTAAGGCCCAGTTTATTGTAATCTGAAAAAGGGCTCTGGCCCAGTAC
66 TGTTATCTGAATAAGGGGCTAAGGCCCAGTTTATTGTAATCTG-AAAAGGGCTCTGGCCCAGTAC
109246833 CACTGTTA
130 CACTGTTA
109246841 CCCAAATGGGCTTGCATATGTTTACTGATGTTGCATGTATTTTGAAATGGGCCTATGGGCCATAC
1 CCCAAATGGGCTTGCATATGTTTACTGATGTTGCATGTATTTTGAAATGGGCCTATGGGCCATAC
* *
109246906 TGTTATCTGAATAAGGGGCTAAGGCCCAGTTTATTGTAATCTGAAAATGGCTCTGGCCCAGTATC
66 TGTTATCTGAATAAGGGGCTAAGGCCCAGTTTATTGTAATCTGAAAAGGGCTCTGGCCCAGTACC
109246971 ACTGTTA
131 ACTGTTA
**
109246978 CCTGAATGGGCTT
1 CCCAAATGGGCTT
109246991 AGGCCCAATA
Statistics
Matches: 146, Mismatches: 4, Indels: 1
0.97 0.03 0.01
Matches are distributed among these distances:
137 38 0.26
138 108 0.74
ACGTcount: A:0.25, C:0.19, G:0.25, T:0.32
Consensus pattern (137 bp):
CCCAAATGGGCTTGCATATGTTTACTGATGTTGCATGTATTTTGAAATGGGCCTATGGGCCATAC
TGTTATCTGAATAAGGGGCTAAGGCCCAGTTTATTGTAATCTGAAAAGGGCTCTGGCCCAGTACC
ACTGTTA
Found at i:109248743 original size:22 final size:22
Alignment explanation
Indices: 109248712--109248753 Score: 57
Period size: 22 Copynumber: 1.9 Consensus size: 22
109248702 TTAAAAGAGA
* * *
109248712 CATAATTATTCTATTAATATCT
1 CATAACTATTCAAGTAATATCT
109248734 CATAACTATTCAAGTAATAT
1 CATAACTATTCAAGTAATAT
109248754 TACTTGTATA
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:0.40, C:0.14, G:0.02, T:0.43
Consensus pattern (22 bp):
CATAACTATTCAAGTAATATCT
Found at i:109251683 original size:46 final size:46
Alignment explanation
Indices: 109251616--109251709 Score: 179
Period size: 46 Copynumber: 2.0 Consensus size: 46
109251606 CGGAACCAAA
109251616 TCAGAATCACAGGGAATTTTTTGCAAAATCCCAAAATTATACTTAC
1 TCAGAATCACAGGGAATTTTTTGCAAAATCCCAAAATTATACTTAC
*
109251662 TCAGAATCACAGGGAATTTTTTGTAAAATCCCAAAATTATACTTAC
1 TCAGAATCACAGGGAATTTTTTGCAAAATCCCAAAATTATACTTAC
109251708 TC
1 TC
109251710 TAGCCATGCC
Statistics
Matches: 47, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
46 47 1.00
ACGTcount: A:0.38, C:0.19, G:0.11, T:0.32
Consensus pattern (46 bp):
TCAGAATCACAGGGAATTTTTTGCAAAATCCCAAAATTATACTTAC
Found at i:109258496 original size:8 final size:8
Alignment explanation
Indices: 109258470--109258513 Score: 63
Period size: 8 Copynumber: 5.5 Consensus size: 8
109258460 CTTTTATGTT
109258470 TTATTATA
1 TTATTATA
109258478 TTATTCA-A
1 TTATT-ATA
109258486 TTATTATA
1 TTATTATA
*
109258494 TTAATATA
1 TTATTATA
109258502 TTATTATA
1 TTATTATA
109258510 TTAT
1 TTAT
109258514 ATACTTAAGT
Statistics
Matches: 32, Mismatches: 2, Indels: 4
0.84 0.05 0.11
Matches are distributed among these distances:
7 1 0.03
8 30 0.94
9 1 0.03
ACGTcount: A:0.39, C:0.02, G:0.00, T:0.59
Consensus pattern (8 bp):
TTATTATA
Found at i:109258512 original size:24 final size:24
Alignment explanation
Indices: 109258474--109258521 Score: 64
Period size: 24 Copynumber: 2.0 Consensus size: 24
109258464 TATGTTTTAT
109258474 TATATTATTCAATTATTATA-TTAA
1 TATATTATTCAATTA-TATACTTAA
109258498 TATATTATT-ATATTATATACTTAA
1 TATATTATTCA-ATTATATACTTAA
109258522 GTATTAAGTC
Statistics
Matches: 22, Mismatches: 0, Indels: 4
0.85 0.00 0.15
Matches are distributed among these distances:
23 5 0.23
24 17 0.77
ACGTcount: A:0.42, C:0.04, G:0.00, T:0.54
Consensus pattern (24 bp):
TATATTATTCAATTATATACTTAA
Found at i:109265235 original size:31 final size:31
Alignment explanation
Indices: 109265194--109265257 Score: 94
Period size: 31 Copynumber: 2.1 Consensus size: 31
109265184 CCTTTTCATA
*
109265194 TTTCATATTTCATAA-CACTGGGCCGAAGCCT
1 TTTCAAATTTCA-AATCACTGGGCCGAAGCCT
*
109265225 TTTCAAATTTCAAATTACTGGGCCGAAGCCT
1 TTTCAAATTTCAAATCACTGGGCCGAAGCCT
109265256 TT
1 TT
109265258 ACGGTAAACG
Statistics
Matches: 30, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
30 2 0.07
31 28 0.93
ACGTcount: A:0.27, C:0.23, G:0.16, T:0.34
Consensus pattern (31 bp):
TTTCAAATTTCAAATCACTGGGCCGAAGCCT
Found at i:109265503 original size:24 final size:24
Alignment explanation
Indices: 109265451--109265640 Score: 269
Period size: 24 Copynumber: 8.0 Consensus size: 24
109265441 GCTTTATCAT
*
109265451 ATAACTGGAGGCCT-AGCCTCTTTTA
1 ATAACTGG-GGCATAAGCC-CTTTTA
* *
109265476 ATAACTGGGGCAAAAGCCCTTTTT
1 ATAACTGGGGCATAAGCCCTTTTA
109265500 ATAACTGGGGCATAAGCCC-TTTA
1 ATAACTGGGGCATAAGCCCTTTTA
* * *
109265523 ATAACTAGGGCGTAAGCCCTTTTG
1 ATAACTGGGGCATAAGCCCTTTTA
*
109265547 ATAACTGGGGCATAAGCCCTTTTG
1 ATAACTGGGGCATAAGCCCTTTTA
*
109265571 ATAACTGGGGCATAAGCCCTTTTG
1 ATAACTGGGGCATAAGCCCTTTTA
109265595 ATAACTGGGGCATAAGCCC-TTTA
1 ATAACTGGGGCATAAGCCCTTTTA
109265618 ATAACTGGGGCATAAGCCCTTTT
1 ATAACTGGGGCATAAGCCCTTTT
109265641 TCACTTCCTC
Statistics
Matches: 151, Mismatches: 11, Indels: 7
0.89 0.07 0.04
Matches are distributed among these distances:
23 42 0.28
24 97 0.64
25 12 0.08
ACGTcount: A:0.27, C:0.22, G:0.23, T:0.29
Consensus pattern (24 bp):
ATAACTGGGGCATAAGCCCTTTTA
Found at i:109265527 original size:47 final size:48
Alignment explanation
Indices: 109265450--109265641 Score: 282
Period size: 47 Copynumber: 4.0 Consensus size: 48
109265440 TGCTTTATCA
* *
109265450 TATAACTGGAGGCCT-AGCCTCTTTTAATAACTGGGGCAAAAGCCCTTTT
1 TATAACTGG-GGCATAAGCC-CTTTTAATAACTGGGGCATAAGCCCTTTT
* *
109265499 TATAACTGGGGCATAAGCCC-TTTAATAACTAGGGCGTAAGCCCTTTT
1 TATAACTGGGGCATAAGCCCTTTTAATAACTGGGGCATAAGCCCTTTT
* *
109265546 GATAACTGGGGCATAAGCCCTTTTGATAACTGGGGCATAAGCCCTTTT
1 TATAACTGGGGCATAAGCCCTTTTAATAACTGGGGCATAAGCCCTTTT
*
109265594 GATAACTGGGGCATAAGCCC-TTTAATAACTGGGGCATAAGCCCTTTT
1 TATAACTGGGGCATAAGCCCTTTTAATAACTGGGGCATAAGCCCTTTT
109265641 T
1 T
109265642 CACTTCCTCC
Statistics
Matches: 131, Mismatches: 10, Indels: 6
0.89 0.07 0.04
Matches are distributed among these distances:
47 69 0.53
48 49 0.37
49 13 0.10
ACGTcount: A:0.27, C:0.21, G:0.22, T:0.30
Consensus pattern (48 bp):
TATAACTGGGGCATAAGCCCTTTTAATAACTGGGGCATAAGCCCTTTT
Found at i:109265551 original size:71 final size:72
Alignment explanation
Indices: 109265465--109265641 Score: 277
Period size: 71 Copynumber: 2.5 Consensus size: 72
109265455 CTGGAGGCCT
*
109265465 AGCCTCTTTTAATAACTGGGGCAAAAGCCCTTTTTATAACTGGGGCATAAGCCC-TTTAATAACT
1 AGCC-CTTTTAATAACTGGGGCATAAGCCCTTTTTATAACTGGGGCATAAGCCCTTTTAATAACT
*
109265529 AGGGCGTA
65 AGGGCATA
* * * *
109265537 AGCCCTTTTGATAACTGGGGCATAAGCCCTTTTGATAACTGGGGCATAAGCCCTTTTGATAACTG
1 AGCCCTTTTAATAACTGGGGCATAAGCCCTTTTTATAACTGGGGCATAAGCCCTTTTAATAACTA
109265602 GGGCATA
66 GGGCATA
109265609 AGCCC-TTTAATAACTGGGGCATAAGCCCTTTTT
1 AGCCCTTTTAATAACTGGGGCATAAGCCCTTTTT
109265642 CACTTCCTCC
Statistics
Matches: 96, Mismatches: 8, Indels: 3
0.90 0.07 0.03
Matches are distributed among these distances:
71 72 0.75
72 24 0.25
ACGTcount: A:0.27, C:0.21, G:0.22, T:0.30
Consensus pattern (72 bp):
AGCCCTTTTAATAACTGGGGCATAAGCCCTTTTTATAACTGGGGCATAAGCCCTTTTAATAACTA
GGGCATA
Found at i:109265755 original size:20 final size:20
Alignment explanation
Indices: 109265695--109265757 Score: 99
Period size: 20 Copynumber: 3.1 Consensus size: 20
109265685 GAACATCTCG
109265695 TGTGCATATCATACATATCA
1 TGTGCATATCATACATATCA
* * *
109265715 CGTGCATATCACACATGTCA
1 TGTGCATATCATACATATCA
109265735 TGTGCATATCATACATATCA
1 TGTGCATATCATACATATCA
109265755 TGT
1 TGT
109265758 TTATCAAAAT
Statistics
Matches: 37, Mismatches: 6, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
20 37 1.00
ACGTcount: A:0.32, C:0.22, G:0.13, T:0.33
Consensus pattern (20 bp):
TGTGCATATCATACATATCA
Found at i:109265840 original size:25 final size:25
Alignment explanation
Indices: 109265794--109265841 Score: 60
Period size: 25 Copynumber: 1.9 Consensus size: 25
109265784 ATATATAAAC
* * * *
109265794 CCTAGGGGTATAATGGTTATTTTTA
1 CCTAGGGGCAAAACGGTCATTTTTA
109265819 CCTAGGGGCAAAACGGTCATTTT
1 CCTAGGGGCAAAACGGTCATTTT
109265842 CATATTATAA
Statistics
Matches: 19, Mismatches: 4, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
25 19 1.00
ACGTcount: A:0.25, C:0.15, G:0.25, T:0.35
Consensus pattern (25 bp):
CCTAGGGGCAAAACGGTCATTTTTA
Found at i:109267410 original size:27 final size:27
Alignment explanation
Indices: 109267081--109267399 Score: 433
Period size: 27 Copynumber: 11.8 Consensus size: 27
109267071 GGGTATTTTA
* *
109267081 GTAATTTTGTAAATCGAGGGTAAAACA
1 GTAATTCTGTAAATCGAGGGTAAAACG
* * *
109267108 GTAATTTTGTAAATCAAGGGTAAAACA
1 GTAATTCTGTAAATCGAGGGTAAAACG
* *
109267135 GTAATTCTATAAATCGAGGGTAAAATG
1 GTAATTCTGTAAATCGAGGGTAAAACG
*
109267162 GTAATTCTGTAAATCGAGGGTGAAACG
1 GTAATTCTGTAAATCGAGGGTAAAACG
109267189 GTAATTCTGTAAATCGAGGGTAAAACG
1 GTAATTCTGTAAATCGAGGGTAAAACG
* * *
109267216 ATAATTATGTAAATCGGGGGTAAAACG
1 GTAATTCTGTAAATCGAGGGTAAAACG
* * *
109267243 GTAATTATGTAAATTGGGGGTAAAACG
1 GTAATTCTGTAAATCGAGGGTAAAACG
* **
109267270 GTAATTCTATAAATCGAGGGTAAAATA
1 GTAATTCTGTAAATCGAGGGTAAAACG
109267297 GTAATTCTGTAAA-CTGAGGGTAAAACG
1 GTAATTCTGTAAATC-GAGGGTAAAACG
109267324 GTAATTCTGTAAATCGAGGGTAAAACG
1 GTAATTCTGTAAATCGAGGGTAAAACG
* **
109267351 GTAATTTTACAAATCGAGGGTAAAACG
1 GTAATTCTGTAAATCGAGGGTAAAACG
*
109267378 GTAATTCTATAAATCGAGGGTA
1 GTAATTCTGTAAATCGAGGGTA
109267400 CTTTGGTAAT
Statistics
Matches: 261, Mismatches: 29, Indels: 4
0.89 0.10 0.01
Matches are distributed among these distances:
26 1 0.00
27 259 0.99
28 1 0.00
ACGTcount: A:0.39, C:0.09, G:0.24, T:0.28
Consensus pattern (27 bp):
GTAATTCTGTAAATCGAGGGTAAAACG
Found at i:109267421 original size:27 final size:27
Alignment explanation
Indices: 109267350--109267627 Score: 251
Period size: 27 Copynumber: 10.3 Consensus size: 27
109267340 AGGGTAAAAC
****
109267350 GGTAATTTTACAAATCGAGGGTAAAAC
1 GGTAATTTTACAAATCGAGGGTATTTT
* * *
109267377 GGTAATTCTATAAATCGAGGGTACTTT
1 GGTAATTTTACAAATCGAGGGTATTTT
* *
109267404 GGTAATTTTACAAGTCGAGGGTATTTC
1 GGTAATTTTACAAATCGAGGGTATTTT
** ** *
109267431 AATAATTTTACAGGTCGAGGGTATTTC
1 GGTAATTTTACAAATCGAGGGTATTTT
* * *
109267458 AGTAATTTCACAAAT-TAGGGGTATTTT
1 GGTAATTTTACAAATCGA-GGGTATTTT
*
109267485 GGTAATTTTACAAA-CTAGGGGTATTTT
1 GGTAATTTTACAAATCGA-GGGTATTTT
* *
109267512 GATAATTTTACAAA-CTAGGGGTATTTT
1 GGTAATTTTACAAATCGA-GGGTATTTT
*
109267539 GGTAATTTTACAAA-CTAGGGGTATTTT
1 GGTAATTTTACAAATCGA-GGGTATTTT
* * *
109267566 GGTAATTTTATAAACCAAGGGTATTTT
1 GGTAATTTTACAAATCGAGGGTATTTT
* *
109267593 AGTAATTTTACAAAGC-AGGGTATTTT
1 GGTAATTTTACAAATCGAGGGTATTTT
109267619 GGTAATTTT
1 GGTAATTTT
109267628 GTAAACCAAA
Statistics
Matches: 218, Mismatches: 30, Indels: 7
0.85 0.12 0.03
Matches are distributed among these distances:
26 19 0.09
27 197 0.90
28 2 0.01
ACGTcount: A:0.32, C:0.09, G:0.21, T:0.38
Consensus pattern (27 bp):
GGTAATTTTACAAATCGAGGGTATTTT
Found at i:109267641 original size:26 final size:26
Alignment explanation
Indices: 109267477--109267644 Score: 174
Period size: 27 Copynumber: 6.3 Consensus size: 26
109267467 ACAAATTAGG
* *
109267477 GGTATTTTGGTAATTTTACAAACTAGG
1 GGTATTTTGGTAATTTTACAAACCA-A
* * *
109267504 GGTATTTTGATAATTTTACAAACTAGG
1 GGTATTTTGGTAATTTTACAAACCA-A
* *
109267531 GGTATTTTGGTAATTTTACAAACTAGG
1 GGTATTTTGGTAATTTTACAAACCA-A
*
109267558 GGTATTTTGGTAATTTTATAAACCAA
1 GGTATTTTGGTAATTTTACAAACCAA
* * *
109267584 GGGTATTTTAGTAATTTTACAAAGCAG
1 -GGTATTTTGGTAATTTTACAAACCAA
**
109267611 GGTATTTTGGTAATTTTGTAAACCAA
1 GGTATTTTGGTAATTTTACAAACCAA
*
109267637 AGTATTTT
1 GGTATTTT
109267645 AAACATGGAT
Statistics
Matches: 125, Mismatches: 15, Indels: 3
0.87 0.10 0.02
Matches are distributed among these distances:
26 28 0.22
27 97 0.78
ACGTcount: A:0.32, C:0.07, G:0.20, T:0.42
Consensus pattern (26 bp):
GGTATTTTGGTAATTTTACAAACCAA
Found at i:109288185 original size:8 final size:8
Alignment explanation
Indices: 109288172--109288215 Score: 61
Period size: 8 Copynumber: 5.5 Consensus size: 8
109288162 CTTTTAGGTT
109288172 TTATTATA
1 TTATTATA
*
109288180 TTATTAAA
1 TTATTATA
*
109288188 TTATTAAA
1 TTATTATA
*
109288196 TTAATATA
1 TTATTATA
109288204 TTATTATA
1 TTATTATA
109288212 TTAT
1 TTAT
109288216 ATACTTAAGT
Statistics
Matches: 32, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
8 32 1.00
ACGTcount: A:0.43, C:0.00, G:0.00, T:0.57
Consensus pattern (8 bp):
TTATTATA
Found at i:109296059 original size:3 final size:3
Alignment explanation
Indices: 109296051--109296083 Score: 50
Period size: 3 Copynumber: 11.3 Consensus size: 3
109296041 AGATATTTAC
*
109296051 TTA TTA TTA TTA TCA TTA TTA TTA TTA TT- TTA T
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA T
109296084 CAATTAATTG
Statistics
Matches: 27, Mismatches: 2, Indels: 2
0.87 0.06 0.06
Matches are distributed among these distances:
2 2 0.07
3 25 0.93
ACGTcount: A:0.30, C:0.03, G:0.00, T:0.67
Consensus pattern (3 bp):
TTA
Found at i:109296293 original size:26 final size:25
Alignment explanation
Indices: 109296264--109296317 Score: 72
Period size: 26 Copynumber: 2.1 Consensus size: 25
109296254 AAAACAAGAA
* *
109296264 AAAGAAACAGAGAAGAAACGAAATAG
1 AAAGAAACAAAGAAGAAAAGAAA-AG
*
109296290 AAAGAAAGAAAGAAGAAAAGAAAAG
1 AAAGAAACAAAGAAGAAAAGAAAAG
109296315 AAA
1 AAA
109296318 ACGGAGAAAT
Statistics
Matches: 25, Mismatches: 3, Indels: 1
0.86 0.10 0.03
Matches are distributed among these distances:
25 5 0.20
26 20 0.80
ACGTcount: A:0.72, C:0.04, G:0.22, T:0.02
Consensus pattern (25 bp):
AAAGAAACAAAGAAGAAAAGAAAAG
Found at i:109296312 original size:5 final size:5
Alignment explanation
Indices: 109296244--109296318 Score: 50
Period size: 5 Copynumber: 14.8 Consensus size: 5
109296234 AAGAATAAAT
* * *
109296244 AAAAG -AAAG AAAA- ACAAG AAAAAG AAACAG AGAAG AAACG AAATAG
1 AAAAG AAAAG AAAAG AAAAG -AAAAG AAA-AG AAAAG AAAAG AAA-AG
109296290 -AAAG -AAAG AAAGAAG AAAAG AAAAG AAAA
1 AAAAG AAAAG -AA-AAG AAAAG AAAAG AAAA
109296319 CGGAGAAATT
Statistics
Matches: 56, Mismatches: 6, Indels: 16
0.72 0.08 0.21
Matches are distributed among these distances:
4 13 0.23
5 28 0.50
6 12 0.21
7 3 0.05
ACGTcount: A:0.75, C:0.04, G:0.20, T:0.01
Consensus pattern (5 bp):
AAAAG
Found at i:109297265 original size:37 final size:37
Alignment explanation
Indices: 109297223--109297324 Score: 98
Period size: 40 Copynumber: 2.7 Consensus size: 37
109297213 CGGATAGATT
*
109297223 CAATGAGGCGTTGGTCACCACTTTGCTTCG-GCTTAGC
1 CAATGAGGCGTTGGTCACCACTTTGCTTCGAAC-TAGC
* ** * *
109297260 CAATGAGACGTTGGTCGTCACTTATTTGTTTCGAACTATC
1 CAATGAGGCGTTGGTCACCAC---TTTGCTTCGAACTAGC
*
109297300 CAATGAGGCATTGGTCACCACTTTG
1 CAATGAGGCGTTGGTCACCACTTTG
109297325 GTGTGTTTGG
Statistics
Matches: 51, Mismatches: 10, Indels: 8
0.74 0.14 0.12
Matches are distributed among these distances:
37 22 0.43
40 28 0.55
41 1 0.02
ACGTcount: A:0.21, C:0.24, G:0.24, T:0.32
Consensus pattern (37 bp):
CAATGAGGCGTTGGTCACCACTTTGCTTCGAACTAGC
Found at i:109304550 original size:26 final size:26
Alignment explanation
Indices: 109304521--109304682 Score: 279
Period size: 26 Copynumber: 6.2 Consensus size: 26
109304511 TGATACAAAT
*
109304521 TGATAATAGGTTAGGTAAATGTTCCA
1 TGATAATAGGTTAGGTAAATGTTTCA
*
109304547 TGATAATGGGTTAGGTAAATGTTTCA
1 TGATAATAGGTTAGGTAAATGTTTCA
* *
109304573 TGATAATAGGTTAAGTAAATGTTCCA
1 TGATAATAGGTTAGGTAAATGTTTCA
109304599 TGATAATAGGTTAGGTAAATGTTTCA
1 TGATAATAGGTTAGGTAAATGTTTCA
109304625 TGATAATAGGTTAGGTAAATGTTTCA
1 TGATAATAGGTTAGGTAAATGTTTCA
*
109304651 TGATAATGGGTTAGGTAAATGTTTCA
1 TGATAATAGGTTAGGTAAATGTTTCA
109304677 TGATAA
1 TGATAA
109304683 GAATTTCATG
Statistics
Matches: 128, Mismatches: 8, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
26 128 1.00
ACGTcount: A:0.35, C:0.05, G:0.23, T:0.37
Consensus pattern (26 bp):
TGATAATAGGTTAGGTAAATGTTTCA
Found at i:109306739 original size:136 final size:135
Alignment explanation
Indices: 109306460--109306732 Score: 512
Period size: 136 Copynumber: 2.0 Consensus size: 135
109306450 GAGTAGTCTC
*
109306460 CCCAAATGGGCTTGCATATGTTATTGATGTTGCATTATTTTGAAATGGGCCTATGGGCCATACTG
1 CCCAAATGGGCTTGCATATGTTACTGATGTTGCATTATTTTGAAATGGGCCTATGGGCCATACTG
109306525 TTATCTGAATAAGGGGCTAAGGCCCAGTTTATTGTAATCTGAAAAGGGCTCTGGCCCAGTACCAC
66 TTATCTGAATAAGGGGCTAAGGCCCAGTTTATTGTAATCTGAAAAGGGCTCTGGCCCAGTACCAC
109306590 TGTTA
131 TGTTA
109306595 CCCAAATGGGCTTGCATATGTTTACTGATGTTGCATGTA-TTTGAAATGGGCCTATGGGCCATAC
1 CCCAAATGGGCTTGCATATG-TTACTGATGTTGCAT-TATTTTGAAATGGGCCTATGGGCCATAC
109306659 TGTTATCTGAATAAGGGGCTAAGGCCCAGTTTATTGTAATCTGAAAAGGGCTCTGGCCCAGTACC
64 TGTTATCTGAATAAGGGGCTAAGGCCCAGTTTATTGTAATCTGAAAAGGGCTCTGGCCCAGTACC
109306724 ACTGTTA
129 ACTGTTA
109306731 CC
1 CC
109306733 TGAATGGCTT
Statistics
Matches: 135, Mismatches: 1, Indels: 3
0.97 0.01 0.02
Matches are distributed among these distances:
135 20 0.15
136 113 0.84
137 2 0.01
ACGTcount: A:0.25, C:0.19, G:0.25, T:0.31
Consensus pattern (135 bp):
CCCAAATGGGCTTGCATATGTTACTGATGTTGCATTATTTTGAAATGGGCCTATGGGCCATACTG
TTATCTGAATAAGGGGCTAAGGCCCAGTTTATTGTAATCTGAAAAGGGCTCTGGCCCAGTACCAC
TGTTA
Found at i:109310620 original size:73 final size:75
Alignment explanation
Indices: 109310500--109310655 Score: 262
Period size: 73 Copynumber: 2.1 Consensus size: 75
109310490 TGATACAAAT
109310500 TGATAATAGGTTAGGTAAATGTTCCATGATAATGGTTAGGTAAATGTTTCATGATAATAGGTTA-
1 TGATAATAGGTTAGGTAAATGTTCCATGATAATGGTTAGGTAAATGTTTCATGATAATAGGTTAG
109310564 AAATGTTCCA
66 AAATGTTCCA
*
109310574 TGATAATAGGTTAGGTAAATGTT-CATGATAATGGTTAGGTAAATGTTTCATGATAATGGGTTAG
1 TGATAATAGGTTAGGTAAATGTTCCATGATAATGGTTAGGTAAATGTTTCATGATAATAGGTTA-
*
109310638 GTAAATGTTTCA
65 G-AAATGTTCCA
109310650 TGATAA
1 TGATAA
109310656 GAATTTCATG
Statistics
Matches: 77, Mismatches: 2, Indels: 4
0.93 0.02 0.05
Matches are distributed among these distances:
73 39 0.51
74 23 0.30
76 15 0.19
ACGTcount: A:0.35, C:0.05, G:0.23, T:0.37
Consensus pattern (75 bp):
TGATAATAGGTTAGGTAAATGTTCCATGATAATGGTTAGGTAAATGTTTCATGATAATAGGTTAG
AAATGTTCCA
Found at i:109310642 original size:26 final size:26
Alignment explanation
Indices: 109310500--109310655 Score: 243
Period size: 25 Copynumber: 6.2 Consensus size: 26
109310490 TGATACAAAT
*
109310500 TGATAATAGGTTAGGTAAATGTTCCA
1 TGATAATAGGTTAGGTAAATGTTTCA
109310526 TGATAAT-GGTTAGGTAAATGTTTCA
1 TGATAATAGGTTAGGTAAATGTTTCA
*
109310551 TGATAATAGGTTA---AAATGTTCCA
1 TGATAATAGGTTAGGTAAATGTTTCA
109310574 TGATAATAGGTTAGGTAAATG-TTCA
1 TGATAATAGGTTAGGTAAATGTTTCA
109310599 TGATAAT-GGTTAGGTAAATGTTTCA
1 TGATAATAGGTTAGGTAAATGTTTCA
*
109310624 TGATAATGGGTTAGGTAAATGTTTCA
1 TGATAATAGGTTAGGTAAATGTTTCA
109310650 TGATAA
1 TGATAA
109310656 GAATTTCATG
Statistics
Matches: 121, Mismatches: 3, Indels: 12
0.89 0.02 0.09
Matches are distributed among these distances:
23 22 0.18
24 13 0.11
25 45 0.37
26 41 0.34
ACGTcount: A:0.35, C:0.05, G:0.23, T:0.37
Consensus pattern (26 bp):
TGATAATAGGTTAGGTAAATGTTTCA
Found at i:109312708 original size:137 final size:136
Alignment explanation
Indices: 109312427--109312701 Score: 505
Period size: 137 Copynumber: 2.0 Consensus size: 136
109312417 GAGTAGTCTC
* *
109312427 CCCAAATGGGCTTGCATATGTTATTGATGTTGCATGTATTTTGAAATGGGCCTATGGGTCATACT
1 CCCAAATGGGCTTGCATATGTTACTGATGTTGCATGTATTTTGAAATGGGCCTATGGGCCATACT
*
109312492 GTTATCTGAATAAGGGGCTAAGGCCCAGTTTATTGTAATCTGAAAAGGGCTCTGGCCCAGTACCA
66 GTTATCTGAATAAGGGGCTAAGGCCCAGTTTATTGTAATCTGAAAAGGGCTCTGGCCCAGCACCA
109312557 CTGTTA
131 CTGTTA
*
109312563 CCCAAATGGGCTTGCATATGTTTACTGATGTTGCATGTATTTTGAAATGGGCCTATGGGCCCTAC
1 CCCAAATGGGCTTGCATATG-TTACTGATGTTGCATGTATTTTGAAATGGGCCTATGGGCCATAC
109312628 TGTTATCTGAATAAGGGGCTAAGGCCCAGTTTATTGTAATCTGAAAAGGGCTCTGGCCCAGCACC
65 TGTTATCTGAATAAGGGGCTAAGGCCCAGTTTATTGTAATCTGAAAAGGGCTCTGGCCCAGCACC
109312693 ACTGTTA
130 ACTGTTA
109312700 CC
1 CC
109312702 TGAATGGCCT
Statistics
Matches: 134, Mismatches: 4, Indels: 1
0.96 0.03 0.01
Matches are distributed among these distances:
136 20 0.15
137 114 0.85
ACGTcount: A:0.24, C:0.20, G:0.25, T:0.31
Consensus pattern (136 bp):
CCCAAATGGGCTTGCATATGTTACTGATGTTGCATGTATTTTGAAATGGGCCTATGGGCCATACT
GTTATCTGAATAAGGGGCTAAGGCCCAGTTTATTGTAATCTGAAAAGGGCTCTGGCCCAGCACCA
CTGTTA
Found at i:109315282 original size:7 final size:7
Alignment explanation
Indices: 109315270--109315294 Score: 50
Period size: 7 Copynumber: 3.6 Consensus size: 7
109315260 TTTAATCCCT
109315270 AAACCCC
1 AAACCCC
109315277 AAACCCC
1 AAACCCC
109315284 AAACCCC
1 AAACCCC
109315291 AAAC
1 AAAC
109315295 ATGCAATTTG
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 18 1.00
ACGTcount: A:0.48, C:0.52, G:0.00, T:0.00
Consensus pattern (7 bp):
AAACCCC
Found at i:109319893 original size:41 final size:41
Alignment explanation
Indices: 109319833--109319915 Score: 96
Period size: 41 Copynumber: 2.0 Consensus size: 41
109319823 CAGCTAAAAA
* * *
109319833 CGTTTTCAAGTGATATGCA-GAAAAGCGCTTCCAATTGGAAG
1 CGTTTTCAACTGATATGCAGGAAAA-CACTTCCAATTAGAAG
* * *
109319874 CGTTTTCAACTTATTTGCAGGAAAACACTTCCAGTTAGAAG
1 CGTTTTCAACTGATATGCAGGAAAACACTTCCAATTAGAAG
109319915 C
1 C
109319916 ATTCCCCCAC
Statistics
Matches: 35, Mismatches: 6, Indels: 2
0.81 0.14 0.05
Matches are distributed among these distances:
41 30 0.86
42 5 0.14
ACGTcount: A:0.31, C:0.19, G:0.20, T:0.29
Consensus pattern (41 bp):
CGTTTTCAACTGATATGCAGGAAAACACTTCCAATTAGAAG
Found at i:109328691 original size:43 final size:43
Alignment explanation
Indices: 109328644--109328732 Score: 160
Period size: 43 Copynumber: 2.1 Consensus size: 43
109328634 TAAAAACCCT
* *
109328644 AAACCCTAACTCTAAATTTTAAAAAATAAAATCTTAACCCTAA
1 AAACCCTAACTCTAAATTTTAAAAAATAAAACCCTAACCCTAA
109328687 AAACCCTAACTCTAAATTTTAAAAAATAAAACCCTAACCCTAA
1 AAACCCTAACTCTAAATTTTAAAAAATAAAACCCTAACCCTAA
109328730 AAA
1 AAA
109328733 ACATAACACA
Statistics
Matches: 44, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
43 44 1.00
ACGTcount: A:0.53, C:0.22, G:0.00, T:0.25
Consensus pattern (43 bp):
AAACCCTAACTCTAAATTTTAAAAAATAAAACCCTAACCCTAA
Found at i:109328855 original size:29 final size:30
Alignment explanation
Indices: 109328809--109328871 Score: 74
Period size: 29 Copynumber: 2.1 Consensus size: 30
109328799 ACTGAAAGTG
* *
109328809 TTTTCATAAAATTAACCTATTCCCGTAATT
1 TTTTCATAAAATTAACCTAATCCCATAATT
* * *
109328839 TTTTGATAAAA-TGACCTAATCTCATAATT
1 TTTTCATAAAATTAACCTAATCCCATAATT
109328868 TTTT
1 TTTT
109328872 TAACAAAATT
Statistics
Matches: 28, Mismatches: 5, Indels: 1
0.82 0.15 0.03
Matches are distributed among these distances:
29 18 0.64
30 10 0.36
ACGTcount: A:0.33, C:0.16, G:0.05, T:0.46
Consensus pattern (30 bp):
TTTTCATAAAATTAACCTAATCCCATAATT
Found at i:109337012 original size:39 final size:39
Alignment explanation
Indices: 109336958--109337038 Score: 110
Period size: 39 Copynumber: 2.1 Consensus size: 39
109336948 GAAGATTGAT
* *
109336958 TTACTAGGTCCTTGAAGCAG-TACTTTCCACCTTATACAC
1 TTACTAGGTCCTTGAA-CAGATACTTTCAACCTGATACAC
* *
109336997 TTACTGGGTCCTTGAACTGATACTTTCAACCTGATACAC
1 TTACTAGGTCCTTGAACAGATACTTTCAACCTGATACAC
109337036 TTA
1 TTA
109337039 ATCCGTAGAT
Statistics
Matches: 37, Mismatches: 4, Indels: 2
0.86 0.09 0.05
Matches are distributed among these distances:
38 2 0.05
39 35 0.95
ACGTcount: A:0.26, C:0.26, G:0.14, T:0.35
Consensus pattern (39 bp):
TTACTAGGTCCTTGAACAGATACTTTCAACCTGATACAC
Found at i:109337121 original size:96 final size:96
Alignment explanation
Indices: 109336957--109337153 Score: 367
Period size: 96 Copynumber: 2.1 Consensus size: 96
109336947 AGAAGATTGA
*
109336957 TTTACTAGGTCCTTGAAGCAGTACTTTCCACCTTATACACTTACTGGGTCCTTGAACTGATACTT
1 TTTACTAGGTCCTTGAAGCAGTACTTTCCACCTTATACACTTACTGGGTCCTCGAACTGATACTT
109337022 TCAACCTGATACACTTAATCCGTAGATCAAT
66 TCAACCTGATACACTTAATCCGTAGATCAAT
109337053 TTTACTAGGTCCTTGAAGCAGTACTTTCCACCTTATACACTTACTGGGTCCTCGAACTGATACTT
1 TTTACTAGGTCCTTGAAGCAGTACTTTCCACCTTATACACTTACTGGGTCCTCGAACTGATACTT
* *
109337118 TCAACCTTATACACTTAATCCGTAGATCCAT
66 TCAACCTGATACACTTAATCCGTAGATCAAT
109337149 TTTAC
1 TTTAC
109337154 GTAACCAAAA
Statistics
Matches: 98, Mismatches: 3, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
96 98 1.00
ACGTcount: A:0.26, C:0.26, G:0.13, T:0.35
Consensus pattern (96 bp):
TTTACTAGGTCCTTGAAGCAGTACTTTCCACCTTATACACTTACTGGGTCCTCGAACTGATACTT
TCAACCTGATACACTTAATCCGTAGATCAAT
Done.