Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: At_chr9
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: 91122320
ACGTcount: A:0.32, C:0.17, G:0.17, T:0.32
Warning! 2661692 characters in sequence are not A, C, G, or T
File 94 of 279
Found at i:30515886 original size:22 final size:22
Alignment explanation
Indices: 30515861--30515912 Score: 68
Period size: 22 Copynumber: 2.3 Consensus size: 22
30515851 CCAACTTAAT
* *
30515861 AATTAATTTAATTATAAAATTA
1 AATTAAATTAATTAAAAAATTA
*
30515883 AATTAAATTACTTAAAAAATTA
1 AATTAAATTAATTAAAAAATTA
30515905 AATCTAAA
1 AAT-TAAA
30515913 AACAAAATAA
Statistics
Matches: 26, Mismatches: 3, Indels: 1
0.87 0.10 0.03
Matches are distributed among these distances:
22 22 0.85
23 4 0.15
ACGTcount: A:0.58, C:0.04, G:0.00, T:0.38
Consensus pattern (22 bp):
AATTAAATTAATTAAAAAATTA
Found at i:30517052 original size:22 final size:21
Alignment explanation
Indices: 30517024--30517067 Score: 70
Period size: 22 Copynumber: 2.0 Consensus size: 21
30517014 AATCTGAGTT
*
30517024 TGCTTCTTGGCACAGGTTTTTC
1 TGCTTCTTGGCAC-GGTGTTTC
30517046 TGCTTCTTGGCACGGTGTTTC
1 TGCTTCTTGGCACGGTGTTTC
30517067 T
1 T
30517068 TCCATACTGA
Statistics
Matches: 21, Mismatches: 1, Indels: 1
0.91 0.04 0.04
Matches are distributed among these distances:
21 8 0.38
22 13 0.62
ACGTcount: A:0.07, C:0.23, G:0.25, T:0.45
Consensus pattern (21 bp):
TGCTTCTTGGCACGGTGTTTC
Found at i:30521328 original size:50 final size:50
Alignment explanation
Indices: 30521245--30521527 Score: 293
Period size: 50 Copynumber: 5.6 Consensus size: 50
30521235 CTAGTACGCA
* * ** *
30521245 TAGTAGCCTACACTTAGTACTACATACACGACCTAGCAATCTGGTACACG
1 TAGTAGCCTGCACTTAGTACTACACACGTGACCTAACAATCTGGTACACG
* * * *
30521295 TAGTATCCTACACTTAGTACTACACACGTGACCTAACTATCTGATACACG
1 TAGTAGCCTGCACTTAGTACTACACACGTGACCTAACAATCTGGTACACG
* * * * ***
30521345 TAGTAGCCTGCACTTAGTACTACACACGTGATCGAAGCTATCGGGTACGTA
1 TAGTAGCCTGCACTTAGTACTACACACGTGACCTAA-CAATCTGGTACACG
*
30521396 TAGTAGCCTGCACTTAGTACTACAC-CTGCGACCTAACAATCTGGTACACG
1 TAGTAGCCTGCACTTAGTACTACACAC-GTGACCTAACAATCTGGTACACG
* * *
30521446 TAGTAGCCTGCACTTAGTACTACACATGTGACCTAA-AA-CTGTCTTAAACACA
1 TAGTAGCCTGCACTTAGTACTACACACGTGACCTAACAATCTG--GT--ACACG
* *
30521498 TAGTAGCCTACACATAGTACTACACACGTG
1 TAGTAGCCTGCACTTAGTACTACACACGTG
30521528 TTCTCACTGC
Statistics
Matches: 195, Mismatches: 31, Indels: 12
0.82 0.13 0.05
Matches are distributed among these distances:
48 3 0.02
49 2 0.01
50 119 0.61
51 40 0.21
52 31 0.16
ACGTcount: A:0.31, C:0.27, G:0.17, T:0.25
Consensus pattern (50 bp):
TAGTAGCCTGCACTTAGTACTACACACGTGACCTAACAATCTGGTACACG
Found at i:30521419 original size:101 final size:101
Alignment explanation
Indices: 30521295--30521476 Score: 294
Period size: 101 Copynumber: 1.8 Consensus size: 101
30521285 CTGGTACACG
* * *
30521295 TAGTATCCTACACTTAGTACTACACAC-GTGACCTAACTATCTGATACACGTAGTAGCCTGCACT
1 TAGTAGCCTACACTTAGTACTACAC-CTGCGACCTAACAATCTGATACACGTAGTAGCCTGCACT
30521359 TAGTACTACACACGTGATCGAAGCTATCGGGTACGTA
65 TAGTACTACACACGTGATCGAAGCTATCGGGTACGTA
* *
30521396 TAGTAGCCTGCACTTAGTACTACACCTGCGACCTAACAATCTGGTACACGTAGTAGCCTGCACTT
1 TAGTAGCCTACACTTAGTACTACACCTGCGACCTAACAATCTGATACACGTAGTAGCCTGCACTT
*
30521461 AGTACTACACATGTGA
66 AGTACTACACACGTGA
30521477 CCTAAAACTG
Statistics
Matches: 74, Mismatches: 6, Indels: 2
0.90 0.07 0.02
Matches are distributed among these distances:
100 1 0.01
101 73 0.99
ACGTcount: A:0.29, C:0.26, G:0.18, T:0.26
Consensus pattern (101 bp):
TAGTAGCCTACACTTAGTACTACACCTGCGACCTAACAATCTGATACACGTAGTAGCCTGCACTT
AGTACTACACACGTGATCGAAGCTATCGGGTACGTA
Found at i:30521477 original size:151 final size:152
Alignment explanation
Indices: 30521224--30521527 Score: 423
Period size: 151 Copynumber: 2.0 Consensus size: 152
30521214 CACCCTTGTA
* * *
30521224 ATCGAAGCTCTCTAGTACGCATAGTAGCCTACACTTAGTACTACATACACGACCTAGCAATCTGG
1 ATCGAAGCTATCGAGTACGCATAGTAGCCTACACTTAGTACTACATACACGACCTAACAATCTGG
* * *
30521289 TACACGTAGTATCCTACACTTAGTACTACACACGTGACCT-AACTATCTGATACACGTAGTAGCC
66 TACACGTAGTAGCCTACACTTAGTACTACACACGTGACCTAAACTATCTGAAACACATAGTAGCC
* *
30521353 TGCACTTAGTACTACACACGTG
131 TACACATAGTACTACACACGTG
* * * * *
30521375 ATCGAAGCTATCGGGTACGTATAGTAGCCTGCACTTAGTACTACA-CCTGCGACCTAACAATCTG
1 ATCGAAGCTATCGAGTACGCATAGTAGCCTACACTTAGTACTACATAC-ACGACCTAACAATCTG
* * * *
30521439 GTACACGTAGTAGCCTGCACTTAGTACTACACATGTGACCTAAAACTGTCTTAAACACATAGTAG
65 GTACACGTAGTAGCCTACACTTAGTACTACACACGTGACCT-AAACTATCTGAAACACATAGTAG
30521504 CCTACACATAGTACTACACACGTG
129 CCTACACATAGTACTACACACGTG
30521528 TTCTCACTGC
Statistics
Matches: 133, Mismatches: 17, Indels: 4
0.86 0.11 0.03
Matches are distributed among these distances:
150 1 0.01
151 92 0.69
153 40 0.30
ACGTcount: A:0.31, C:0.27, G:0.17, T:0.25
Consensus pattern (152 bp):
ATCGAAGCTATCGAGTACGCATAGTAGCCTACACTTAGTACTACATACACGACCTAACAATCTGG
TACACGTAGTAGCCTACACTTAGTACTACACACGTGACCTAAACTATCTGAAACACATAGTAGCC
TACACATAGTACTACACACGTG
Found at i:30524286 original size:20 final size:18
Alignment explanation
Indices: 30524261--30524304 Score: 52
Period size: 20 Copynumber: 2.3 Consensus size: 18
30524251 TGGGCCGAGG
*
30524261 ACACGGGTGTGTCCAGAGCC
1 ACACGGGCGTGT-CAGA-CC
*
30524281 ACACGGGCGTGTGAGACC
1 ACACGGGCGTGTCAGACC
30524299 ACACGG
1 ACACGG
30524305 CCTACCCACA
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
18 8 0.36
19 3 0.14
20 11 0.50
ACGTcount: A:0.23, C:0.30, G:0.36, T:0.11
Consensus pattern (18 bp):
ACACGGGCGTGTCAGACC
Found at i:30525993 original size:13 final size:13
Alignment explanation
Indices: 30525960--30525993 Score: 59
Period size: 13 Copynumber: 2.6 Consensus size: 13
30525950 AATATATTTA
*
30525960 AACCCAAGTACCC
1 AACCCAATTACCC
30525973 AACCCAATTACCC
1 AACCCAATTACCC
30525986 AACCCAAT
1 AACCCAAT
30525994 AATAAAAATT
Statistics
Matches: 20, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
13 20 1.00
ACGTcount: A:0.41, C:0.44, G:0.03, T:0.12
Consensus pattern (13 bp):
AACCCAATTACCC
Found at i:30526349 original size:21 final size:21
Alignment explanation
Indices: 30526323--30526362 Score: 62
Period size: 21 Copynumber: 1.9 Consensus size: 21
30526313 TTTTGAGGTA
*
30526323 TTTTATAATCTTATTTAATAT
1 TTTTATAATCATATTTAATAT
*
30526344 TTTTATAATGATATTTAAT
1 TTTTATAATCATATTTAAT
30526363 TATATTTGTA
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
21 17 1.00
ACGTcount: A:0.35, C:0.03, G:0.03, T:0.60
Consensus pattern (21 bp):
TTTTATAATCATATTTAATAT
Found at i:30532611 original size:29 final size:30
Alignment explanation
Indices: 30532572--30532637 Score: 111
Period size: 29 Copynumber: 2.3 Consensus size: 30
30532562 GAAGGAAAGG
30532572 AAAA-TAA-GTTGTGTTTAGGGTTTG-AAA
1 AAAATTAAGGTTGTGTTTAGGGTTTGAAAA
30532599 AAAATTAAGGTTGTGTTTAGGGTTTGAAAA
1 AAAATTAAGGTTGTGTTTAGGGTTTGAAAA
30532629 AAAATTAAG
1 AAAATTAAG
30532638 AGATTGTATT
Statistics
Matches: 36, Mismatches: 0, Indels: 3
0.92 0.00 0.08
Matches are distributed among these distances:
27 4 0.11
28 3 0.08
29 17 0.47
30 12 0.33
ACGTcount: A:0.41, C:0.00, G:0.24, T:0.35
Consensus pattern (30 bp):
AAAATTAAGGTTGTGTTTAGGGTTTGAAAA
Found at i:30535675 original size:47 final size:47
Alignment explanation
Indices: 30535560--30535748 Score: 191
Period size: 47 Copynumber: 3.9 Consensus size: 47
30535550 TGCACATAGT
* ** * *
30535560 CACATATCACATACCGAGGCCATAGCCCAGCCATGGTCTTACAC-GGAT
1 CACATATCAC--ACCGATGCCATAGCCCAGATATGGTCTTATACAGGAG
* * *
30535608 CACATATCACACTGATGCCATATCCCAGATATGGTCTTATACAGTAG
1 CACATATCACACCGATGCCATAGCCCAGATATGGTCTTATACAGGAG
* * *
30535655 CACATATCACACCGATGCCATATCCCGGATATGGTCTTATACGGGAG
1 CACATATCACACCGATGCCATAGCCCAGATATGGTCTTATACAGGAG
* *
30535702 CACATATCACATCTCCCCGAAGCCATAGCCCAGCTATGGTCTTATAC
1 CACATATCACA-----CCGATGCCATAGCCCAGATATGGTCTTATAC
30535749 GGAAATCACA
Statistics
Matches: 119, Mismatches: 16, Indels: 8
0.83 0.11 0.06
Matches are distributed among these distances:
46 26 0.22
47 56 0.47
48 10 0.08
52 27 0.23
ACGTcount: A:0.29, C:0.31, G:0.17, T:0.23
Consensus pattern (47 bp):
CACATATCACACCGATGCCATAGCCCAGATATGGTCTTATACAGGAG
Found at i:30542123 original size:329 final size:329
Alignment explanation
Indices: 30541525--30542183 Score: 1309
Period size: 329 Copynumber: 2.0 Consensus size: 329
30541515 CTCATTCTGA
30541525 GCACATAAACTTGTCAACTCCGGCTCATTAAGGATACTTGCATTGAAAGCAAACTGTCCATTGGC
1 GCACATAAACTTGTCAACTCCGGCTCATTAAGGATACTTGCATTGAAAGCAAACTGTCCATTGGC
30541590 ACATGAGCTCGGAGAGCATACACCAGGGCTACATAGCTGCAAAGGCGGACTATAGTCCAGTGAAG
66 ACATGAGCTCGGAGAGCATACACCAGGGCTACATAGCTGCAAAGGCGGACTATAGTCCAGTGAAG
30541655 ACTGTTCGTTTGCGCCCCAACAATTAAGAACCAAGTCAACTTCTCGAACCCCACAAGTCATGGAA
131 ACTGTTCGTTTGCGCCCCAACAATTAAGAACCAAGTCAACTTCTCGAACCCCACAAGTCATGGAA
30541720 TCTGATGAAGCAATAGCCAAGAAACCAGAAGCCTTTGGAACTGAAGAAACATTAATGTTCCTTCC
196 TCTGATGAAGCAATAGCCAAGAAACCAGAAGCCTTTGGAACTGAAGAAACATTAATGTTCCTTCC
*
30541785 CCAGCATTCTATTTCATGATCATCTTCACGGATGCCGCAAAAACGCTGTCCACCAGCCGATAAAC
261 CCAGCATTCTATTTCATGATCATCTTCACGAATGCCGCAAAAACGCTGTCCACCAGCCGATAAAC
30541850 TAAC
326 TAAC
30541854 GCACATAAACTTGTCAACTCCGGCTCATTAAGGATACTTGCATTGAAAGCAAACTGTCCATTGGC
1 GCACATAAACTTGTCAACTCCGGCTCATTAAGGATACTTGCATTGAAAGCAAACTGTCCATTGGC
30541919 ACATGAGCTCGGAGAGCATACACCAGGGCTACATAGCTGCAAAGGCGGACTATAGTCCAGTGAAG
66 ACATGAGCTCGGAGAGCATACACCAGGGCTACATAGCTGCAAAGGCGGACTATAGTCCAGTGAAG
30541984 ACTGTTCGTTTGCGCCCCAACAATTAAGAACCAAGTCAACTTCTCGAACCCCACAAGTCATGGAA
131 ACTGTTCGTTTGCGCCCCAACAATTAAGAACCAAGTCAACTTCTCGAACCCCACAAGTCATGGAA
30542049 TCTGATGAAGCAATAGCCAAGAAACCAGAAGCCTTTGGAACTGAAGAAACATTAATGTTCCTTCC
196 TCTGATGAAGCAATAGCCAAGAAACCAGAAGCCTTTGGAACTGAAGAAACATTAATGTTCCTTCC
30542114 CCAGCATTCTATTTCATGATCATCTTCACGAATGCCGCAAAAACGCTGTCCACCAGCCGATAAAC
261 CCAGCATTCTATTTCATGATCATCTTCACGAATGCCGCAAAAACGCTGTCCACCAGCCGATAAAC
30542179 TAAC
326 TAAC
30542183 G
1 G
30542184 AATGGAGTCC
Statistics
Matches: 329, Mismatches: 1, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
329 329 1.00
ACGTcount: A:0.33, C:0.26, G:0.19, T:0.22
Consensus pattern (329 bp):
GCACATAAACTTGTCAACTCCGGCTCATTAAGGATACTTGCATTGAAAGCAAACTGTCCATTGGC
ACATGAGCTCGGAGAGCATACACCAGGGCTACATAGCTGCAAAGGCGGACTATAGTCCAGTGAAG
ACTGTTCGTTTGCGCCCCAACAATTAAGAACCAAGTCAACTTCTCGAACCCCACAAGTCATGGAA
TCTGATGAAGCAATAGCCAAGAAACCAGAAGCCTTTGGAACTGAAGAAACATTAATGTTCCTTCC
CCAGCATTCTATTTCATGATCATCTTCACGAATGCCGCAAAAACGCTGTCCACCAGCCGATAAAC
TAAC
Found at i:30550604 original size:30 final size:31
Alignment explanation
Indices: 30550550--30550616 Score: 86
Period size: 30 Copynumber: 2.2 Consensus size: 31
30550540 TAATTTAATC
*
30550550 AATTTTAATTTTTGTATTTTTTGAAATATTT-
1 AATTTTAATTTTTGTATCTTTTGAAAT-TTTA
30550581 AATTTT-ATTCTTTGTA-CTTTTGAAATTTTA
1 AATTTTAATT-TTTGTATCTTTTGAAATTTTA
30550611 AATTTT
1 AATTTT
30550617 TAGTCATGAC
Statistics
Matches: 33, Mismatches: 1, Indels: 5
0.85 0.03 0.13
Matches are distributed among these distances:
29 3 0.09
30 18 0.55
31 12 0.36
ACGTcount: A:0.28, C:0.03, G:0.06, T:0.63
Consensus pattern (31 bp):
AATTTTAATTTTTGTATCTTTTGAAATTTTA
Found at i:30553233 original size:28 final size:23
Alignment explanation
Indices: 30553201--30553266 Score: 69
Period size: 27 Copynumber: 2.7 Consensus size: 23
30553191 TTTGTCCATT
*
30553201 TATTTTATAAAATTTATTTATTTA
1 TATTTTATAAAATTTA-ATATTTA
*
30553225 TTTTAATTTATCAAAATTTAATATTTA
1 ---TATTTTAT-AAAATTTAATATTTA
30553252 TATTTTATAAAATTT
1 TATTTTATAAAATTT
30553267 TATAAAAATT
Statistics
Matches: 35, Mismatches: 3, Indels: 6
0.80 0.07 0.14
Matches are distributed among these distances:
23 7 0.20
24 7 0.20
27 13 0.37
28 8 0.23
ACGTcount: A:0.39, C:0.02, G:0.00, T:0.59
Consensus pattern (23 bp):
TATTTTATAAAATTTAATATTTA
Found at i:30553234 original size:27 final size:27
Alignment explanation
Indices: 30553199--30553252 Score: 74
Period size: 27 Copynumber: 2.0 Consensus size: 27
30553189 TTTTTGTCCA
* *
30553199 TTTATTTTAT-AAAATTTATTTATTTAT
1 TTTAATTTATCAAAATTTA-ATATTTAT
30553226 TTTAATTTATCAAAATTTAATATTTAT
1 TTTAATTTATCAAAATTTAATATTTAT
30553253 ATTTTATAAA
Statistics
Matches: 24, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
27 16 0.67
28 8 0.33
ACGTcount: A:0.37, C:0.02, G:0.00, T:0.61
Consensus pattern (27 bp):
TTTAATTTATCAAAATTTAATATTTAT
Found at i:30562715 original size:3 final size:3
Alignment explanation
Indices: 30562707--30562735 Score: 58
Period size: 3 Copynumber: 9.7 Consensus size: 3
30562697 ATACACACAA
30562707 AAT AAT AAT AAT AAT AAT AAT AAT AAT AA
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AA
30562736 ACCATAAAAG
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 26 1.00
ACGTcount: A:0.69, C:0.00, G:0.00, T:0.31
Consensus pattern (3 bp):
AAT
Found at i:30566550 original size:20 final size:19
Alignment explanation
Indices: 30566502--30566541 Score: 55
Period size: 19 Copynumber: 2.2 Consensus size: 19
30566492 TTGTTATTTT
30566502 AAAG-ATTAAATGTAGAGA
1 AAAGAATTAAATGTAGAGA
* *
30566520 AAAGAATTAAATTTAGGGA
1 AAAGAATTAAATGTAGAGA
30566539 AAA
1 AAA
30566542 TACATTAAAG
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
18 4 0.21
19 15 0.79
ACGTcount: A:0.57, C:0.00, G:0.20, T:0.23
Consensus pattern (19 bp):
AAAGAATTAAATGTAGAGA
Found at i:30567640 original size:44 final size:43
Alignment explanation
Indices: 30567587--30567672 Score: 145
Period size: 44 Copynumber: 2.0 Consensus size: 43
30567577 AAAATAGAAG
*
30567587 TTGTGATAATTATACATTTAAAAATAATTATAATTTAATATTAT
1 TTGTGATAATTAAACATTTAAAAATAATTATAATTTAA-ATTAT
*
30567631 TTGTGATAATTAAATATTTAAAAATAATTATAATTTAAATTA
1 TTGTGATAATTAAACATTTAAAAATAATTATAATTTAAATTA
30567673 CAATTATAAT
Statistics
Matches: 40, Mismatches: 2, Indels: 1
0.93 0.05 0.02
Matches are distributed among these distances:
43 4 0.10
44 36 0.90
ACGTcount: A:0.48, C:0.01, G:0.05, T:0.47
Consensus pattern (43 bp):
TTGTGATAATTAAACATTTAAAAATAATTATAATTTAAATTAT
Found at i:30567659 original size:18 final size:17
Alignment explanation
Indices: 30567636--30567669 Score: 50
Period size: 18 Copynumber: 1.9 Consensus size: 17
30567626 ATTATTTGTG
30567636 ATAATTAAATATTTAAAA
1 ATAATTAAA-ATTTAAAA
*
30567654 ATAATTATAATTTAAA
1 ATAATTAAAATTTAAA
30567670 TTACAATTAT
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
17 7 0.47
18 8 0.53
ACGTcount: A:0.59, C:0.00, G:0.00, T:0.41
Consensus pattern (17 bp):
ATAATTAAAATTTAAAA
Found at i:30577834 original size:25 final size:25
Alignment explanation
Indices: 30577800--30577850 Score: 84
Period size: 25 Copynumber: 2.0 Consensus size: 25
30577790 TTCCTTATAA
**
30577800 ACTTTAAATTAGGAATTCTATTAGG
1 ACTTTAAATTAGGAATTAGATTAGG
30577825 ACTTTAAATTAGGAATTAGATTAGG
1 ACTTTAAATTAGGAATTAGATTAGG
30577850 A
1 A
30577851 TTTTCCTTTG
Statistics
Matches: 24, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
25 24 1.00
ACGTcount: A:0.39, C:0.06, G:0.18, T:0.37
Consensus pattern (25 bp):
ACTTTAAATTAGGAATTAGATTAGG
Found at i:30577849 original size:12 final size:12
Alignment explanation
Indices: 30577803--30577850 Score: 51
Period size: 12 Copynumber: 3.9 Consensus size: 12
30577793 CTTATAAACT
30577803 TTAAATTAGGAA
1 TTAAATTAGGAA
** *
30577815 TTCTATTAGGACT
1 TTAAATTAGGA-A
30577828 TTAAATTAGGAA
1 TTAAATTAGGAA
*
30577840 TTAGATTAGGA
1 TTAAATTAGGA
30577851 TTTTCCTTTG
Statistics
Matches: 28, Mismatches: 7, Indels: 2
0.76 0.19 0.05
Matches are distributed among these distances:
12 19 0.68
13 9 0.32
ACGTcount: A:0.40, C:0.04, G:0.19, T:0.38
Consensus pattern (12 bp):
TTAAATTAGGAA
Found at i:30580393 original size:25 final size:25
Alignment explanation
Indices: 30580365--30580415 Score: 84
Period size: 25 Copynumber: 2.0 Consensus size: 25
30580355 TTCCTTATAA
**
30580365 ACTTTAAATTAGGAATTCTATTAGG
1 ACTTTAAATTAGGAATTAGATTAGG
30580390 ACTTTAAATTAGGAATTAGATTAGG
1 ACTTTAAATTAGGAATTAGATTAGG
30580415 A
1 A
30580416 TTTTCCTTTG
Statistics
Matches: 24, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
25 24 1.00
ACGTcount: A:0.39, C:0.06, G:0.18, T:0.37
Consensus pattern (25 bp):
ACTTTAAATTAGGAATTAGATTAGG
Found at i:30580414 original size:12 final size:12
Alignment explanation
Indices: 30580368--30580415 Score: 51
Period size: 12 Copynumber: 3.9 Consensus size: 12
30580358 CTTATAAACT
30580368 TTAAATTAGGAA
1 TTAAATTAGGAA
** *
30580380 TTCTATTAGGACT
1 TTAAATTAGGA-A
30580393 TTAAATTAGGAA
1 TTAAATTAGGAA
*
30580405 TTAGATTAGGA
1 TTAAATTAGGA
30580416 TTTTCCTTTG
Statistics
Matches: 28, Mismatches: 7, Indels: 2
0.76 0.19 0.05
Matches are distributed among these distances:
12 19 0.68
13 9 0.32
ACGTcount: A:0.40, C:0.04, G:0.19, T:0.38
Consensus pattern (12 bp):
TTAAATTAGGAA
Found at i:30585175 original size:21 final size:21
Alignment explanation
Indices: 30585149--30585189 Score: 64
Period size: 21 Copynumber: 2.0 Consensus size: 21
30585139 ATCTGCTCAA
* *
30585149 ACTCCACCTGTTTTGGAGTAC
1 ACTCCACCTGCTGTGGAGTAC
30585170 ACTCCACCTGCTGTGGAGTA
1 ACTCCACCTGCTGTGGAGTA
30585190 TTGCTCGTCT
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:0.29, G:0.22, T:0.29
Consensus pattern (21 bp):
ACTCCACCTGCTGTGGAGTAC
Found at i:30591096 original size:19 final size:19
Alignment explanation
Indices: 30591072--30591112 Score: 64
Period size: 19 Copynumber: 2.2 Consensus size: 19
30591062 AGTAAAATAT
*
30591072 TTTCCAGAAAATAATTTAC
1 TTTCCAAAAAATAATTTAC
*
30591091 TTTCCAAAAAATGATTTAC
1 TTTCCAAAAAATAATTTAC
30591110 TTT
1 TTT
30591113 TCTGGTGTTT
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
19 20 1.00
ACGTcount: A:0.39, C:0.15, G:0.05, T:0.41
Consensus pattern (19 bp):
TTTCCAAAAAATAATTTAC
Found at i:30594910 original size:6 final size:6
Alignment explanation
Indices: 30594890--30594927 Score: 60
Period size: 6 Copynumber: 6.5 Consensus size: 6
30594880 GGGACGCAAT
*
30594890 GAAGG- GAAGGA GAAGGG GAAGGA GAAGGA GAAGGA GAA
1 GAAGGA GAAGGA GAAGGA GAAGGA GAAGGA GAAGGA GAA
30594928 AGCGTTTCAA
Statistics
Matches: 30, Mismatches: 2, Indels: 1
0.91 0.06 0.03
Matches are distributed among these distances:
5 5 0.17
6 25 0.83
ACGTcount: A:0.47, C:0.00, G:0.53, T:0.00
Consensus pattern (6 bp):
GAAGGA
Found at i:30599120 original size:22 final size:22
Alignment explanation
Indices: 30599089--30599137 Score: 80
Period size: 22 Copynumber: 2.2 Consensus size: 22
30599079 GGACAATGTT
30599089 GTTATAATGTGCTGTAATATTA
1 GTTATAATGTGCTGTAATATTA
* *
30599111 GTTATCATGTGGTGTAATATTA
1 GTTATAATGTGCTGTAATATTA
30599133 GTTAT
1 GTTAT
30599138 GCACTTGGAT
Statistics
Matches: 25, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
22 25 1.00
ACGTcount: A:0.29, C:0.04, G:0.20, T:0.47
Consensus pattern (22 bp):
GTTATAATGTGCTGTAATATTA
Found at i:30599150 original size:22 final size:22
Alignment explanation
Indices: 30599060--30599150 Score: 59
Period size: 22 Copynumber: 4.2 Consensus size: 22
30599050 TAATGTGGTG
30599060 TAATATTAGTTATGCACT-TGGA
1 TAATATTAGTTAT-CACTGTGGA
* * *
30599082 CAATGTT-GTTAT-AATGTGCTG-
1 TAATATTAGTTATCACTGTG--GA
*
30599103 TAATATTAGTTATCA-TGTGGTG
1 TAATATTAGTTATCACTGTGG-A
30599125 TAATATTAGTTATGCACT-TGGA
1 TAATATTAGTTAT-CACTGTGGA
30599147 TAAT
1 TAAT
30599151 GTTGTTGTTA
Statistics
Matches: 54, Mismatches: 6, Indels: 18
0.69 0.08 0.23
Matches are distributed among these distances:
19 2 0.04
20 3 0.06
21 10 0.19
22 32 0.59
23 6 0.11
24 1 0.02
ACGTcount: A:0.30, C:0.08, G:0.20, T:0.43
Consensus pattern (22 bp):
TAATATTAGTTATCACTGTGGA
Found at i:30599618 original size:14 final size:14
Alignment explanation
Indices: 30599596--30599639 Score: 63
Period size: 14 Copynumber: 3.2 Consensus size: 14
30599586 CCAGAAAAGT
* *
30599596 AAATCATTTTTCAG
1 AAATTATTTTCCAG
30599610 AAATTATTTTCCAG
1 AAATTATTTTCCAG
30599624 AAATTATTTTCC-G
1 AAATTATTTTCCAG
30599637 AAA
1 AAA
30599640 AATATTTTAC
Statistics
Matches: 28, Mismatches: 2, Indels: 1
0.90 0.06 0.03
Matches are distributed among these distances:
13 4 0.14
14 24 0.86
ACGTcount: A:0.39, C:0.14, G:0.07, T:0.41
Consensus pattern (14 bp):
AAATTATTTTCCAG
Found at i:30599645 original size:14 final size:14
Alignment explanation
Indices: 30599596--30599647 Score: 52
Period size: 14 Copynumber: 3.6 Consensus size: 14
30599586 CCAGAAAAGT
*
30599596 AAATCATTTTTCAGA
1 AAAT-ATTTTCCAGA
*
30599611 AATTATTTTCCAGA
1 AAATATTTTCCAGA
*
30599625 AATTATTTTCC-GAA
1 AAATATTTTCCAG-A
30599639 AAATATTTT
1 AAATATTTT
30599648 ACCTGCAAAC
Statistics
Matches: 33, Mismatches: 3, Indels: 3
0.85 0.08 0.08
Matches are distributed among these distances:
13 1 0.03
14 29 0.88
15 3 0.09
ACGTcount: A:0.38, C:0.12, G:0.06, T:0.44
Consensus pattern (14 bp):
AAATATTTTCCAGA
Found at i:30599811 original size:11 final size:11
Alignment explanation
Indices: 30599795--30599830 Score: 51
Period size: 11 Copynumber: 3.5 Consensus size: 11
30599785 TCAATCTAAT
30599795 TTGATTAGTGA
1 TTGATTAGTGA
30599806 TTGATT--TG-
1 TTGATTAGTGA
30599814 TTGATTAGTGA
1 TTGATTAGTGA
30599825 TTGATT
1 TTGATT
30599831 TGTTTTGTTT
Statistics
Matches: 22, Mismatches: 0, Indels: 6
0.79 0.00 0.21
Matches are distributed among these distances:
8 6 0.27
9 2 0.09
10 2 0.09
11 12 0.55
ACGTcount: A:0.22, C:0.00, G:0.25, T:0.53
Consensus pattern (11 bp):
TTGATTAGTGA
Found at i:30599817 original size:19 final size:19
Alignment explanation
Indices: 30599795--30599834 Score: 80
Period size: 19 Copynumber: 2.1 Consensus size: 19
30599785 TCAATCTAAT
30599795 TTGATTAGTGATTGATTTG
1 TTGATTAGTGATTGATTTG
30599814 TTGATTAGTGATTGATTTG
1 TTGATTAGTGATTGATTTG
30599833 TT
1 TT
30599835 TTGTTTATAG
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
19 21 1.00
ACGTcount: A:0.20, C:0.00, G:0.25, T:0.55
Consensus pattern (19 bp):
TTGATTAGTGATTGATTTG
Found at i:30600527 original size:16 final size:16
Alignment explanation
Indices: 30600488--30600518 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
30600478 GACCCGTCTC
30600488 AAATATATTATATTAT
1 AAATATATTATATTAT
*
30600504 AAAAATATTATATTA
1 AAATATATTATATTA
30600519 ATTATATATG
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
16 14 1.00
ACGTcount: A:0.55, C:0.00, G:0.00, T:0.45
Consensus pattern (16 bp):
AAATATATTATATTAT
Found at i:30601521 original size:17 final size:19
Alignment explanation
Indices: 30601499--30601535 Score: 60
Period size: 17 Copynumber: 2.1 Consensus size: 19
30601489 AATTATTATC
30601499 TAACTTT-TTTAAA-ATTT
1 TAACTTTCTTTAAATATTT
30601516 TAACTTTCTTTAAATATTT
1 TAACTTTCTTTAAATATTT
30601535 T
1 T
30601536 TTAGAATTTT
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
17 7 0.39
18 6 0.33
19 5 0.28
ACGTcount: A:0.32, C:0.08, G:0.00, T:0.59
Consensus pattern (19 bp):
TAACTTTCTTTAAATATTT
Found at i:30601760 original size:23 final size:22
Alignment explanation
Indices: 30601722--30601764 Score: 61
Period size: 23 Copynumber: 1.9 Consensus size: 22
30601712 ATTCAACTCG
30601722 ACTCGAATTCGAAACTCAAATA
1 ACTCGAATTCGAAACTCAAATA
30601744 ACTC-AATTCGATTAACTCAAA
1 ACTCGAATTCGA--AACTCAAA
30601765 ATTCGAAAAA
Statistics
Matches: 19, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
21 7 0.37
22 4 0.21
23 8 0.42
ACGTcount: A:0.44, C:0.23, G:0.07, T:0.26
Consensus pattern (22 bp):
ACTCGAATTCGAAACTCAAATA
Found at i:30604352 original size:24 final size:24
Alignment explanation
Indices: 30604325--30604376 Score: 77
Period size: 24 Copynumber: 2.2 Consensus size: 24
30604315 TTAGTAAGTC
*
30604325 AAATAAACTATACTAATAAATGCT
1 AAATAAACTATACTAATAAATACT
* *
30604349 AAATATATTATACTAATAAATACT
1 AAATAAACTATACTAATAAATACT
30604373 AAAT
1 AAAT
30604377 CTTCTAGAAA
Statistics
Matches: 25, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
24 25 1.00
ACGTcount: A:0.56, C:0.10, G:0.02, T:0.33
Consensus pattern (24 bp):
AAATAAACTATACTAATAAATACT
Found at i:30612825 original size:16 final size:17
Alignment explanation
Indices: 30612794--30612826 Score: 59
Period size: 17 Copynumber: 2.0 Consensus size: 17
30612784 TTCATAAGTA
30612794 TATATCAATCATTTCAT
1 TATATCAATCATTTCAT
30612811 TATATCAAT-ATTTCAT
1 TATATCAATCATTTCAT
30612827 GCTCCATCAT
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
16 7 0.44
17 9 0.56
ACGTcount: A:0.36, C:0.15, G:0.00, T:0.48
Consensus pattern (17 bp):
TATATCAATCATTTCAT
Found at i:30617783 original size:16 final size:17
Alignment explanation
Indices: 30617752--30617784 Score: 59
Period size: 17 Copynumber: 2.0 Consensus size: 17
30617742 TTCATAAGTA
30617752 TATATCAATCATTTCAT
1 TATATCAATCATTTCAT
30617769 TATATCAAT-ATTTCAT
1 TATATCAATCATTTCAT
30617785 GCTCCATCAT
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
16 7 0.44
17 9 0.56
ACGTcount: A:0.36, C:0.15, G:0.00, T:0.48
Consensus pattern (17 bp):
TATATCAATCATTTCAT
Found at i:30618130 original size:46 final size:46
Alignment explanation
Indices: 30618070--30618297 Score: 341
Period size: 46 Copynumber: 5.0 Consensus size: 46
30618060 TTTGACATGA
* * * * *
30618070 TGCCATAGTGTCTTTCAACTATGGTCTTACTCATTTTC-TGTCATGT
1 TGCCATGGTATCTTTCAACCATGGTCTTACTCA-TTTCATATCAGGT
* * *
30618116 TGCCATGGTATCTTTCAACCATGGTCTTATTCATTTCATGTCACGT
1 TGCCATGGTATCTTTCAACCATGGTCTTACTCATTTCATATCAGGT
*
30618162 TGCCATGGTATCTTTCAACCATGGTCTTATTCATTTCATATCAGGT
1 TGCCATGGTATCTTTCAACCATGGTCTTACTCATTTCATATCAGGT
*
30618208 TGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATATCAGGT
1 TGCCATGGTATCTTTCAACCATGGTCTTACTCATTTCATATCAGGT
*
30618254 TGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATATCAG
1 TGCCATGGTATCTTTCAACCATGGTCTTACTCATTTCATATCAG
30618298 AGAGCACACT
Statistics
Matches: 172, Mismatches: 9, Indels: 2
0.94 0.05 0.01
Matches are distributed among these distances:
45 4 0.02
46 168 0.98
ACGTcount: A:0.21, C:0.23, G:0.15, T:0.40
Consensus pattern (46 bp):
TGCCATGGTATCTTTCAACCATGGTCTTACTCATTTCATATCAGGT
Found at i:30622302 original size:18 final size:18
Alignment explanation
Indices: 30622266--30622302 Score: 56
Period size: 18 Copynumber: 2.1 Consensus size: 18
30622256 TGTAATATAT
*
30622266 TTCAAAATTCACTATTAA
1 TTCAAAATTCACTAATAA
*
30622284 TTCAAAATTCTCTAATAA
1 TTCAAAATTCACTAATAA
30622302 T
1 T
30622303 CCTTATCATG
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
18 17 1.00
ACGTcount: A:0.43, C:0.16, G:0.00, T:0.41
Consensus pattern (18 bp):
TTCAAAATTCACTAATAA
Found at i:30623210 original size:16 final size:17
Alignment explanation
Indices: 30623179--30623211 Score: 59
Period size: 17 Copynumber: 2.0 Consensus size: 17
30623169 TTCATAAGTA
30623179 TATATCAATCATTTCAT
1 TATATCAATCATTTCAT
30623196 TATATCAAT-ATTTCAT
1 TATATCAATCATTTCAT
30623212 GCTCCATCAT
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
16 7 0.44
17 9 0.56
ACGTcount: A:0.36, C:0.15, G:0.00, T:0.48
Consensus pattern (17 bp):
TATATCAATCATTTCAT
Found at i:30626066 original size:101 final size:101
Alignment explanation
Indices: 30625928--30626130 Score: 291
Period size: 101 Copynumber: 2.0 Consensus size: 101
30625918 CACAGCTCTG
* * * *
30625928 CCATGGTCTTACGTTCATAGTGCTATAACTCAGTTATGGTCTTATCATCAGAATG-TCGTAGCCC
1 CCATGGTCATAAGTTCATAGTGCCATAACCCAGTTATGGTCTTATCATCAGAATGCT-GTAGCCC
30625992 AACTATAGTCTTACATATAAACACTATCATGGACCAA
65 AACTATAGTCTTACATATAAACACTATCATGGACCAA
*
30626029 CCATGGTCATAAGTTCATAGTGCCATAACCCAGTTATGGTTTTATCATCAGAATGCTGTAGCCCA
1 CCATGGTCATAAGTTCATAGTGCCATAACCCAGTTATGGTCTTATCATCAGAATGCTGTAGCCCA
* * * * * *
30626094 GCTATGGTCTTACATATATACATTGTCATGGTCCAA
66 ACTATAGTCTTACATATAAACACTATCATGGACCAA
30626130 C
1 C
30626131 TGTGGTTTTA
Statistics
Matches: 90, Mismatches: 11, Indels: 2
0.87 0.11 0.02
Matches are distributed among these distances:
101 89 0.99
102 1 0.01
ACGTcount: A:0.29, C:0.23, G:0.16, T:0.32
Consensus pattern (101 bp):
CCATGGTCATAAGTTCATAGTGCCATAACCCAGTTATGGTCTTATCATCAGAATGCTGTAGCCCA
ACTATAGTCTTACATATAAACACTATCATGGACCAA
Found at i:30628383 original size:13 final size:12
Alignment explanation
Indices: 30628357--30628389 Score: 50
Period size: 11 Copynumber: 2.8 Consensus size: 12
30628347 TTCTAAATTT
30628357 AAAAAATT-ATA
1 AAAAAATTAATA
30628368 AAAAAATTAATA
1 AAAAAATTAATA
30628380 AAAATAATTA
1 AAAA-AATTA
30628390 TGAGCTTAAA
Statistics
Matches: 20, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
11 8 0.40
12 7 0.35
13 5 0.25
ACGTcount: A:0.73, C:0.00, G:0.00, T:0.27
Consensus pattern (12 bp):
AAAAAATTAATA
Found at i:30628384 original size:10 final size:11
Alignment explanation
Indices: 30628357--30628390 Score: 50
Period size: 12 Copynumber: 2.9 Consensus size: 11
30628347 TTCTAAATTT
30628357 AAAAAATTATA
1 AAAAAATTATA
30628368 AAAAAATTAATA
1 AAAAAATT-ATA
30628380 AAAATAATTAT
1 AAAA-AATTAT
30628391 GAGCTTAAAT
Statistics
Matches: 21, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
11 8 0.38
12 9 0.43
13 4 0.19
ACGTcount: A:0.71, C:0.00, G:0.00, T:0.29
Consensus pattern (11 bp):
AAAAAATTATA
Found at i:30629203 original size:50 final size:50
Alignment explanation
Indices: 30629128--30629234 Score: 187
Period size: 50 Copynumber: 2.1 Consensus size: 50
30629118 CCATGGCAAC
* *
30629128 AAGTGATAAGTGATAGTTTCGGCTACATTTATCTGATCAAGAACAAGTGA
1 AAGTGATAAGTGATAGTTTCGGCTACACTTATCTAATCAAGAACAAGTGA
*
30629178 AAGTGATAAGTGATAGTTTCGGCTACACTTATCTAATCAAGGACAAGTGA
1 AAGTGATAAGTGATAGTTTCGGCTACACTTATCTAATCAAGAACAAGTGA
30629228 AAGTGAT
1 AAGTGAT
30629235 CAAGGACAAG
Statistics
Matches: 54, Mismatches: 3, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
50 54 1.00
ACGTcount: A:0.36, C:0.12, G:0.22, T:0.29
Consensus pattern (50 bp):
AAGTGATAAGTGATAGTTTCGGCTACACTTATCTAATCAAGAACAAGTGA
Found at i:30629238 original size:20 final size:20
Alignment explanation
Indices: 30629213--30629254 Score: 84
Period size: 20 Copynumber: 2.1 Consensus size: 20
30629203 CACTTATCTA
30629213 ATCAAGGACAAGTGAAAGTG
1 ATCAAGGACAAGTGAAAGTG
30629233 ATCAAGGACAAGTGAAAGTG
1 ATCAAGGACAAGTGAAAGTG
30629253 AT
1 AT
30629255 AAGTGATAGC
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 22 1.00
ACGTcount: A:0.45, C:0.10, G:0.29, T:0.17
Consensus pattern (20 bp):
ATCAAGGACAAGTGAAAGTG
Found at i:30629275 original size:70 final size:71
Alignment explanation
Indices: 30629161--30629304 Score: 227
Period size: 70 Copynumber: 2.0 Consensus size: 71
30629151 TACATTTATC
* *
30629161 TGATCAAGAACAAGTGAAAGTGATAAGTGATAGTTTCGGCTACACTTATCTAATCAAGGACAAGT
1 TGATCAAGAACAAGTGAAAGTGATAAGTGATAGCTTCGGCTACACTTATCTAATCAAGGACAAAT
30629226 GA-AAG
66 GACAAG
* * * *
30629231 TGATCAAGGACAAGTGAAAGTGATAAGTGATAGCTTCGGTTACACTTATCTGATCAATGACAAAT
1 TGATCAAGAACAAGTGAAAGTGATAAGTGATAGCTTCGGCTACACTTATCTAATCAAGGACAAAT
30629296 GACAAG
66 GACAAG
30629302 TGA
1 TGA
30629305 AAAGTGGTAG
Statistics
Matches: 67, Mismatches: 6, Indels: 1
0.91 0.08 0.01
Matches are distributed among these distances:
70 61 0.91
71 6 0.09
ACGTcount: A:0.39, C:0.13, G:0.23, T:0.25
Consensus pattern (71 bp):
TGATCAAGAACAAGTGAAAGTGATAAGTGATAGCTTCGGCTACACTTATCTAATCAAGGACAAAT
GACAAG
Found at i:30629344 original size:31 final size:31
Alignment explanation
Indices: 30629300--30629417 Score: 137
Period size: 31 Copynumber: 3.8 Consensus size: 31
30629290 ACAAATGACA
30629300 AGTGAAAAGTGGTAGCTTCAGCTACCTGATC
1 AGTGAAAAGTGGTAGCTTCAGCTACCTGATC
* * *
30629331 AATGAAAATTGGTAGCTTCAGCTACCTAATC
1 AGTGAAAAGTGGTAGCTTCAGCTACCTGATC
* * * * * *
30629362 AGTGAAAAATGATAGCTTCGGTTGCTTGATC
1 AGTGAAAAGTGGTAGCTTCAGCTACCTGATC
* *
30629393 AGTGAATAGTGGTAGCTTCGGCTAC
1 AGTGAAAAGTGGTAGCTTCAGCTAC
30629418 AAGTCACAAG
Statistics
Matches: 71, Mismatches: 16, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
31 71 1.00
ACGTcount: A:0.30, C:0.17, G:0.25, T:0.29
Consensus pattern (31 bp):
AGTGAAAAGTGGTAGCTTCAGCTACCTGATC
Found at i:30634044 original size:22 final size:23
Alignment explanation
Indices: 30634007--30634049 Score: 61
Period size: 22 Copynumber: 1.9 Consensus size: 23
30633997 TTTTATGTCA
**
30634007 ATTTTTTTATTTTTCT-TTAATT
1 ATTTTTTTATAATTCTATTAATT
30634029 ATTTTTTTATAATTCTATTAA
1 ATTTTTTTATAATTCTATTAA
30634050 AAATATATTT
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
22 14 0.78
23 4 0.22
ACGTcount: A:0.26, C:0.05, G:0.00, T:0.70
Consensus pattern (23 bp):
ATTTTTTTATAATTCTATTAATT
Found at i:30636889 original size:23 final size:23
Alignment explanation
Indices: 30636858--30636902 Score: 63
Period size: 23 Copynumber: 2.0 Consensus size: 23
30636848 AGTTGTCCAA
* **
30636858 TTTTTCTTTTCTGTTCTTCTTTC
1 TTTTCCTTTTCTAATCTTCTTTC
30636881 TTTTCCTTTTCTAATCTTCTTT
1 TTTTCCTTTTCTAATCTTCTTT
30636903 TTTCTTCTTC
Statistics
Matches: 19, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
23 19 1.00
ACGTcount: A:0.04, C:0.22, G:0.02, T:0.71
Consensus pattern (23 bp):
TTTTCCTTTTCTAATCTTCTTTC
Found at i:30643532 original size:30 final size:30
Alignment explanation
Indices: 30643489--30643547 Score: 100
Period size: 30 Copynumber: 2.0 Consensus size: 30
30643479 CTTAACAAGC
30643489 AAATGCCTCTAAAATAATAACAAAATTAAT
1 AAATGCCTCTAAAATAATAACAAAATTAAT
* *
30643519 AAATGGCTTTAAAATAATAACAAAATTAA
1 AAATGCCTCTAAAATAATAACAAAATTAA
30643548 CAATAAAATA
Statistics
Matches: 27, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
30 27 1.00
ACGTcount: A:0.58, C:0.10, G:0.05, T:0.27
Consensus pattern (30 bp):
AAATGCCTCTAAAATAATAACAAAATTAAT
Found at i:30651436 original size:16 final size:17
Alignment explanation
Indices: 30651407--30651439 Score: 59
Period size: 16 Copynumber: 2.0 Consensus size: 17
30651397 AAATATATAA
30651407 TAAAATTATAGTTAAAT
1 TAAAATTATAGTTAAAT
30651424 TAAAATT-TAGTTAAAT
1 TAAAATTATAGTTAAAT
30651440 GTTTAGAAAA
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
16 9 0.56
17 7 0.44
ACGTcount: A:0.52, C:0.00, G:0.06, T:0.42
Consensus pattern (17 bp):
TAAAATTATAGTTAAAT
Found at i:30656567 original size:19 final size:19
Alignment explanation
Indices: 30656543--30656581 Score: 78
Period size: 19 Copynumber: 2.1 Consensus size: 19
30656533 AGTATGTTCT
30656543 TGAGTTAAATTACAAGTTG
1 TGAGTTAAATTACAAGTTG
30656562 TGAGTTAAATTACAAGTTG
1 TGAGTTAAATTACAAGTTG
30656581 T
1 T
30656582 ACAAGTATGT
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
19 20 1.00
ACGTcount: A:0.36, C:0.05, G:0.21, T:0.38
Consensus pattern (19 bp):
TGAGTTAAATTACAAGTTG
Found at i:30659962 original size:12 final size:12
Alignment explanation
Indices: 30659945--30659972 Score: 56
Period size: 12 Copynumber: 2.3 Consensus size: 12
30659935 ATGGTGGAAT
30659945 GATGTTTTAGAA
1 GATGTTTTAGAA
30659957 GATGTTTTAGAA
1 GATGTTTTAGAA
30659969 GATG
1 GATG
30659973 GCTGATACGG
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 16 1.00
ACGTcount: A:0.32, C:0.00, G:0.29, T:0.39
Consensus pattern (12 bp):
GATGTTTTAGAA
Found at i:30662339 original size:32 final size:32
Alignment explanation
Indices: 30662298--30662361 Score: 119
Period size: 32 Copynumber: 2.0 Consensus size: 32
30662288 ATGGTAGTTT
30662298 TCACCAGCAAAAACGGTGGTAGTGAAAAACTC
1 TCACCAGCAAAAACGGTGGTAGTGAAAAACTC
*
30662330 TCACCAGCAAAAACGGTGGTGGTGAAAAACTC
1 TCACCAGCAAAAACGGTGGTAGTGAAAAACTC
30662362 ATGTTTTTAC
Statistics
Matches: 31, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
32 31 1.00
ACGTcount: A:0.39, C:0.22, G:0.23, T:0.16
Consensus pattern (32 bp):
TCACCAGCAAAAACGGTGGTAGTGAAAAACTC
Found at i:30663780 original size:49 final size:48
Alignment explanation
Indices: 30663684--30664023 Score: 200
Period size: 49 Copynumber: 7.0 Consensus size: 48
30663674 ATCTTTCATG
* * ** **
30663684 AAAATAATAACCTTGCTCCCAAATGCATAGGGGAAGAATTATAGAAGGT
1 AAAATAATAACCTTGCTCTCAAATGCAT-GGGGGAGGCTTACGGAAGGT
*
30663733 AAAATAATAACATTGCTCTCAAATGCATGTGGGGAGGCTTACGGAAGGT
1 AAAATAATAACCTTGCTCTCAAATGCATG-GGGGAGGCTTACGGAAGGT
* * * * * * * * *
30663782 AGAATGATAACCCTACTCTCAGATGTATGGGGGAAGCTTGCGAAAGGT
1 AAAATAATAACCTTGCTCTCAAATGCATGGGGGAGGCTTACGGAAGGT
* * * * * * *
30663830 AAAATAATAACCTTGTTCCCAGACGTATGGGAGGAGACTTACGAAAGGT
1 AAAATAATAACCTTGCTCTCAAATGCATGGG-GGAGGCTTACGGAAGGT
* ** * * * * *
30663879 AGTAAACAATAACCCAGCTCTTAGACGTATGGGGGAGGCTTATGGAAGGT
1 A--AAATAATAACCTTGCTCTCAAATGCATGGGGGAGGCTTACGGAAGGT
* * * * * *
30663929 AGAGTAATAACCTTGCTCCCATACAT--ATGAAGGGAGACTTATGGAAGGT
1 AAAATAATAACCTTGCTCTCA-A-ATGCATG-GGGGAGGCTTACGGAAGGT
* * * * * *
30663978 ATAATAATAACCCTACTCCCTAATGCAT-GGAGAGGCTTACGGAAGG
1 AAAATAATAACCTTGCTCTCAAATGCATGGGGGAGGCTTACGGAAGG
30664024 CTCAATGTCT
Statistics
Matches: 226, Mismatches: 56, Indels: 20
0.75 0.19 0.07
Matches are distributed among these distances:
47 16 0.07
48 58 0.26
49 112 0.50
50 16 0.07
51 24 0.11
ACGTcount: A:0.35, C:0.16, G:0.25, T:0.23
Consensus pattern (48 bp):
AAAATAATAACCTTGCTCTCAAATGCATGGGGGAGGCTTACGGAAGGT
Found at i:30663965 original size:99 final size:97
Alignment explanation
Indices: 30663728--30663995 Score: 238
Period size: 99 Copynumber: 2.7 Consensus size: 97
30663718 AGAATTATAG
* * * * * * * **
30663728 AAGGTAAAATAATAACATTGCTCTCA-A-ATGCATGTGGGGAGGCTTACGGAAGGTAGAATGATA
1 AAGGTAAAATAATAACCTTGCTCCCAGACAT--ATGAGAGGAGACTTACGAAAGGTATAACAATA
* *
30663791 ACCCTACTCTCAGATGTATGGGGGAAGCTTGCGA
64 ACCCTACTCTCAGACGTATGGGGGAAGCTTACGA
* * *
30663825 AAGGTAAAATAATAACCTTGTTCCCAGACGTATGGGAGGAGACTTACGAAAGGTAGTAAACAATA
1 AAGGTAAAATAATAACCTTGCTCCCAGACATATGAGAGGAGACTTACGAAAGGTA-T-AACAATA
* * * *
30663890 ACCC-AGCTCTTAGACGTATGGGGGAGGCTTATGG
64 ACCCTA-CTCTCAGACGTATGGGGGAAGCTTACGA
* * * * * *
30663924 AAGGTAGAGTAATAACCTTGCTCCCATACATATGA-AGGGAGACTTATGGAAGGTATAATAATAA
1 AAGGTAAAATAATAACCTTGCTCCCAGACATATGAGA-GGAGACTTACGAAAGGTATAACAATAA
30663988 CCCTACTC
65 CCCTACTC
30663996 CCTAATGCAT
Statistics
Matches: 138, Mismatches: 26, Indels: 14
0.78 0.15 0.08
Matches are distributed among these distances:
97 56 0.41
98 5 0.04
99 77 0.56
ACGTcount: A:0.35, C:0.16, G:0.25, T:0.24
Consensus pattern (97 bp):
AAGGTAAAATAATAACCTTGCTCCCAGACATATGAGAGGAGACTTACGAAAGGTATAACAATAAC
CCTACTCTCAGACGTATGGGGGAAGCTTACGA
Found at i:30664730 original size:9 final size:9
Alignment explanation
Indices: 30664713--30664749 Score: 65
Period size: 9 Copynumber: 4.1 Consensus size: 9
30664703 TGAGTTTTCG
30664713 AATTCGAAT
1 AATTCGAAT
*
30664722 AACTCGAAT
1 AATTCGAAT
30664731 AATTCGAAT
1 AATTCGAAT
30664740 AATTCGAAT
1 AATTCGAAT
30664749 A
1 A
30664750 TTAAACTATA
Statistics
Matches: 26, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
9 26 1.00
ACGTcount: A:0.46, C:0.14, G:0.11, T:0.30
Consensus pattern (9 bp):
AATTCGAAT
Found at i:30665426 original size:86 final size:86
Alignment explanation
Indices: 30665336--30665509 Score: 312
Period size: 86 Copynumber: 2.0 Consensus size: 86
30665326 ATTAAAATTG
*
30665336 AATTATTAATTATGCCATAAAATATTCGTGTTAAAATTTTATATTGGTATCAATTTCACATTTTA
1 AATTATTAATTATGCCATAAAATATTCGTGTTAAAATTTTATATTGGTATAAATTTCACATTTTA
30665401 TCTTTAAAATAACTTTTATTA
66 TCTTTAAAATAACTTTTATTA
* * *
30665422 AATTATTAATTATGTCATAAAATATTCGTGTTAAAATTTTGTATTGGTATAAATTTTACATTTTA
1 AATTATTAATTATGCCATAAAATATTCGTGTTAAAATTTTATATTGGTATAAATTTCACATTTTA
30665487 TCTTTAAAATAACTTTTATTA
66 TCTTTAAAATAACTTTTATTA
30665508 AA
1 AA
30665510 AAACCACATT
Statistics
Matches: 84, Mismatches: 4, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
86 84 1.00
ACGTcount: A:0.38, C:0.07, G:0.06, T:0.48
Consensus pattern (86 bp):
AATTATTAATTATGCCATAAAATATTCGTGTTAAAATTTTATATTGGTATAAATTTCACATTTTA
TCTTTAAAATAACTTTTATTA
Found at i:30667108 original size:25 final size:25
Alignment explanation
Indices: 30667061--30667108 Score: 60
Period size: 25 Copynumber: 1.9 Consensus size: 25
30667051 ATGTTGTTCG
*
30667061 AATATTGCATTGTTAATGATGTCTA
1 AATATTGCATTATTAATGATGTCTA
* * *
30667086 AATATTGTATTATTGATGCTGTC
1 AATATTGCATTATTAATGATGTC
30667109 CGAATCAGCC
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:0.29, C:0.08, G:0.17, T:0.46
Consensus pattern (25 bp):
AATATTGCATTATTAATGATGTCTA
Found at i:30667520 original size:6 final size:6
Alignment explanation
Indices: 30667509--30667536 Score: 56
Period size: 6 Copynumber: 4.7 Consensus size: 6
30667499 GTGATTTAAA
30667509 AAAAAT AAAAAT AAAAAT AAAAAT AAAA
1 AAAAAT AAAAAT AAAAAT AAAAAT AAAA
30667537 CTTTTCAGCA
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 22 1.00
ACGTcount: A:0.86, C:0.00, G:0.00, T:0.14
Consensus pattern (6 bp):
AAAAAT
Found at i:30668139 original size:15 final size:15
Alignment explanation
Indices: 30668109--30668158 Score: 52
Period size: 15 Copynumber: 3.5 Consensus size: 15
30668099 TATAAATTAT
30668109 ATAATAT-ATA-AAA
1 ATAATATAATATAAA
30668122 ATAATATAATATAAA
1 ATAATATAATATAAA
* *
30668137 ATATTATAAATTTAAA
1 ATAATAT-AATATAAA
30668153 A-AATAT
1 ATAATAT
30668159 TCTAGACTTG
Statistics
Matches: 31, Mismatches: 3, Indels: 4
0.82 0.08 0.11
Matches are distributed among these distances:
13 7 0.23
14 3 0.10
15 13 0.42
16 8 0.26
ACGTcount: A:0.64, C:0.00, G:0.00, T:0.36
Consensus pattern (15 bp):
ATAATATAATATAAA
Found at i:30668683 original size:3 final size:3
Alignment explanation
Indices: 30668675--30668702 Score: 56
Period size: 3 Copynumber: 9.3 Consensus size: 3
30668665 CCATACTAGT
30668675 TAA TAA TAA TAA TAA TAA TAA TAA TAA T
1 TAA TAA TAA TAA TAA TAA TAA TAA TAA T
30668703 TTAAGAGAGG
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 25 1.00
ACGTcount: A:0.64, C:0.00, G:0.00, T:0.36
Consensus pattern (3 bp):
TAA
Found at i:30669990 original size:21 final size:21
Alignment explanation
Indices: 30669966--30670030 Score: 75
Period size: 21 Copynumber: 3.2 Consensus size: 21
30669956 AATTAAATTT
30669966 TAAAATTTTGATGGATGTTCA
1 TAAAATTTTGATGGATGTTCA
* *
30669987 TAAAA-ATTGAT--ATGATT-T
1 TAAAATTTTGATGGATG-TTCA
30670005 TAAAATTTTGATGGATGTTCA
1 TAAAATTTTGATGGATGTTCA
30670026 TAAAA
1 TAAAA
30670031 ATTGATATGA
Statistics
Matches: 35, Mismatches: 4, Indels: 10
0.71 0.08 0.20
Matches are distributed among these distances:
18 8 0.23
19 7 0.20
20 7 0.20
21 13 0.37
ACGTcount: A:0.40, C:0.03, G:0.15, T:0.42
Consensus pattern (21 bp):
TAAAATTTTGATGGATGTTCA
Found at i:30670016 original size:39 final size:39
Alignment explanation
Indices: 30669962--30670043 Score: 164
Period size: 39 Copynumber: 2.1 Consensus size: 39
30669952 ATTCAATTAA
30669962 ATTTTAAAATTTTGATGGATGTTCATAAAAATTGATATG
1 ATTTTAAAATTTTGATGGATGTTCATAAAAATTGATATG
30670001 ATTTTAAAATTTTGATGGATGTTCATAAAAATTGATATG
1 ATTTTAAAATTTTGATGGATGTTCATAAAAATTGATATG
30670040 ATTT
1 ATTT
30670044 GATTTGCATT
Statistics
Matches: 43, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
39 43 1.00
ACGTcount: A:0.38, C:0.02, G:0.15, T:0.45
Consensus pattern (39 bp):
ATTTTAAAATTTTGATGGATGTTCATAAAAATTGATATG
Found at i:30670717 original size:70 final size:70
Alignment explanation
Indices: 30670614--30670754 Score: 264
Period size: 70 Copynumber: 2.0 Consensus size: 70
30670604 TTTTTAAATA
*
30670614 TATAATTACTGTTTAATAGTTAGTTTTTATTTAAATTAAATTTAAAATATATAAACATAATAATT
1 TATAATTACTGTTTAATAGTTAGTTTTTATTTAAATTAAATTTAAAATATATAAACATAATAATA
30670679 ATTAT
66 ATTAT
*
30670684 TATAATTACTGTTTAATAGTTAGTTTTTATTTAAATTTAATTTAAAATATATAAACATAATAATA
1 TATAATTACTGTTTAATAGTTAGTTTTTATTTAAATTAAATTTAAAATATATAAACATAATAATA
30670749 ATTAT
66 ATTAT
30670754 T
1 T
30670755 TTTTATAAGG
Statistics
Matches: 69, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
70 69 1.00
ACGTcount: A:0.44, C:0.03, G:0.04, T:0.49
Consensus pattern (70 bp):
TATAATTACTGTTTAATAGTTAGTTTTTATTTAAATTAAATTTAAAATATATAAACATAATAATA
ATTAT
Found at i:30673423 original size:14 final size:16
Alignment explanation
Indices: 30673389--30673425 Score: 51
Period size: 16 Copynumber: 2.4 Consensus size: 16
30673379 TTTGTAATAT
*
30673389 AAATTTAGCACTTATA
1 AAATTTAGCACGTATA
30673405 AAATTTAGCA-GTA-A
1 AAATTTAGCACGTATA
30673419 AAATTTA
1 AAATTTA
30673426 TTATTTAATT
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
14 8 0.40
15 2 0.10
16 10 0.50
ACGTcount: A:0.49, C:0.08, G:0.08, T:0.35
Consensus pattern (16 bp):
AAATTTAGCACGTATA
Found at i:30674452 original size:2 final size:2
Alignment explanation
Indices: 30674445--30674473 Score: 58
Period size: 2 Copynumber: 14.5 Consensus size: 2
30674435 AATATCTCAC
30674445 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
30674474 CCACTTTTAT
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:30675382 original size:37 final size:35
Alignment explanation
Indices: 30675316--30675387 Score: 83
Period size: 37 Copynumber: 2.0 Consensus size: 35
30675306 AATTTTATTA
* *
30675316 AAAAAAACTGAATTACAAAAGTAAAAAAAGTAAAG
1 AAAAAAACTGAATTACAAAAGAAAAAAAAGAAAAG
*
30675351 AAAAAAACTGTAAATTGCAAAA-AAAAGAAAAGAAAAG
1 AAAAAAACTG--AATTACAAAAGAAAA-AAAAGAAAAG
30675388 CTTCCACGAT
Statistics
Matches: 31, Mismatches: 3, Indels: 4
0.82 0.08 0.11
Matches are distributed among these distances:
35 10 0.32
36 3 0.10
37 18 0.58
ACGTcount: A:0.69, C:0.06, G:0.12, T:0.12
Consensus pattern (35 bp):
AAAAAAACTGAATTACAAAAGAAAAAAAAGAAAAG
Found at i:30676084 original size:29 final size:30
Alignment explanation
Indices: 30676052--30676110 Score: 84
Period size: 29 Copynumber: 2.0 Consensus size: 30
30676042 TTTAGTCTAA
*
30676052 TGTGTAATTTTATACATG-AACTTTGATTT
1 TGTGCAATTTTATACATGAAACTTTGATTT
* *
30676081 TGTGCAATTTTATATATGAAATTTTGATTT
1 TGTGCAATTTTATACATGAAACTTTGATTT
30676111 GATCTAATTC
Statistics
Matches: 26, Mismatches: 3, Indels: 1
0.87 0.10 0.03
Matches are distributed among these distances:
29 16 0.62
30 10 0.38
ACGTcount: A:0.29, C:0.05, G:0.14, T:0.53
Consensus pattern (30 bp):
TGTGCAATTTTATACATGAAACTTTGATTT
Found at i:30679269 original size:30 final size:30
Alignment explanation
Indices: 30679171--30679269 Score: 83
Period size: 30 Copynumber: 3.1 Consensus size: 30
30679161 CTAACTCCCA
*
30679171 TAATTCCCTATTAGATCAATG-AGAGTTCTC
1 TAATTCCCTATTAGATCAA-GAATAGTTCTC
* * *
30679201 TAATTCCCTATTAGGTCGAGAACACATTATTATCTC
1 TAATTCCCTATTAGATC---AAGA-A-TAGT-TCTC
*
30679237 TAATTCCCTATTAGATTAAGAATAGTTCTC
1 TAATTCCCTATTAGATCAAGAATAGTTCTC
30679267 TAA
1 TAA
30679270 CAACTTACTA
Statistics
Matches: 54, Mismatches: 8, Indels: 14
0.71 0.11 0.18
Matches are distributed among these distances:
30 23 0.43
31 3 0.06
32 1 0.02
33 5 0.09
34 1 0.02
35 2 0.04
36 19 0.35
ACGTcount: A:0.32, C:0.19, G:0.11, T:0.37
Consensus pattern (30 bp):
TAATTCCCTATTAGATCAAGAATAGTTCTC
Found at i:30679304 original size:66 final size:66
Alignment explanation
Indices: 30679171--30679307 Score: 150
Period size: 66 Copynumber: 2.1 Consensus size: 66
30679161 CTAACTCCCA
*** * * * * *
30679171 TAATTCCCTATTAGATCAATGAGAGTTCTCTAATTCCCTATTAGGTCGAGAACACATTATTATCT
1 TAATTCCCTATTAGATCAATGAGAGTTCTCTAACAACCTACTAGGTCGAGAAAAAAGTATTACCT
30679236 C
66 C
* * * *
30679237 TAATTCCCTATTAGATTAA-GAATAGTTCTCTAACAACTTACTAGGTCGAGAAAAAAGTGTTACC
1 TAATTCCCTATTAGATCAATG-AGAGTTCTCTAACAACCTACTAGGTCGAGAAAAAAGTATTACC
30679301 TC
65 TC
30679303 TAATT
1 TAATT
30679308 TTCTATTGGG
Statistics
Matches: 58, Mismatches: 12, Indels: 2
0.81 0.17 0.03
Matches are distributed among these distances:
65 1 0.02
66 57 0.98
ACGTcount: A:0.34, C:0.19, G:0.12, T:0.35
Consensus pattern (66 bp):
TAATTCCCTATTAGATCAATGAGAGTTCTCTAACAACCTACTAGGTCGAGAAAAAAGTATTACCT
C
Found at i:30682016 original size:40 final size:40
Alignment explanation
Indices: 30681972--30682082 Score: 152
Period size: 40 Copynumber: 2.8 Consensus size: 40
30681962 TGAGTTACCA
* * *
30681972 TAGTGAATCAGGAACAAGTCCTATCCACTTTATATAT-TTC
1 TAGTGAATCAGGAATAAATCCTATTCACTTTA-ATATCTTC
* * *
30682012 TAGTGAATCAGGAATAAATCCTATTCGCTTTAATTTCTTT
1 TAGTGAATCAGGAATAAATCCTATTCACTTTAATATCTTC
30682052 TAGTGAATCAGGAATAAATCCTATTCACTTT
1 TAGTGAATCAGGAATAAATCCTATTCACTTT
30682083 TAATTCTCGA
Statistics
Matches: 63, Mismatches: 7, Indels: 2
0.88 0.10 0.03
Matches are distributed among these distances:
39 3 0.05
40 60 0.95
ACGTcount: A:0.32, C:0.17, G:0.13, T:0.38
Consensus pattern (40 bp):
TAGTGAATCAGGAATAAATCCTATTCACTTTAATATCTTC
Found at i:30682968 original size:16 final size:18
Alignment explanation
Indices: 30682942--30682980 Score: 64
Period size: 17 Copynumber: 2.3 Consensus size: 18
30682932 TAAACCCCAA
30682942 TTTCTCCTTTTT-CTTTC
1 TTTCTCCTTTTTCCTTTC
30682959 TTTC-CCTTTTTCCTTTC
1 TTTCTCCTTTTTCCTTTC
30682976 TTTCT
1 TTTCT
30682981 TTCTCCCCTG
Statistics
Matches: 20, Mismatches: 0, Indels: 3
0.87 0.00 0.13
Matches are distributed among these distances:
16 7 0.35
17 13 0.65
ACGTcount: A:0.00, C:0.31, G:0.00, T:0.69
Consensus pattern (18 bp):
TTTCTCCTTTTTCCTTTC
Found at i:30683214 original size:8 final size:8
Alignment explanation
Indices: 30683193--30683229 Score: 58
Period size: 8 Copynumber: 4.8 Consensus size: 8
30683183 TTACTTTATT
30683193 TAAT-TAA
1 TAATATAA
*
30683200 TATTATAA
1 TAATATAA
30683208 TAATATAA
1 TAATATAA
30683216 TAATATAA
1 TAATATAA
30683224 TAATAT
1 TAATAT
30683230 TTACTTAAAT
Statistics
Matches: 27, Mismatches: 2, Indels: 1
0.90 0.07 0.03
Matches are distributed among these distances:
7 3 0.11
8 24 0.89
ACGTcount: A:0.57, C:0.00, G:0.00, T:0.43
Consensus pattern (8 bp):
TAATATAA
Found at i:30686983 original size:21 final size:20
Alignment explanation
Indices: 30686951--30686989 Score: 51
Period size: 21 Copynumber: 1.9 Consensus size: 20
30686941 TTTGCCAAGA
*
30686951 TTAGATTAAATTTTTATATG
1 TTAGATTAAATTTGTATATG
*
30686971 TTAGAATTTAATTTGTATA
1 TTAG-ATTAAATTTGTATA
30686990 ACTATTTTTG
Statistics
Matches: 16, Mismatches: 2, Indels: 1
0.84 0.11 0.05
Matches are distributed among these distances:
20 4 0.25
21 12 0.75
ACGTcount: A:0.36, C:0.00, G:0.10, T:0.54
Consensus pattern (20 bp):
TTAGATTAAATTTGTATATG
Found at i:30688067 original size:9 final size:9
Alignment explanation
Indices: 30688041--30688083 Score: 61
Period size: 9 Copynumber: 4.9 Consensus size: 9
30688031 AATTGAAAAA
30688041 GAATAATTT
1 GAATAATTT
*
30688050 -TATAATTT
1 GAATAATTT
*
30688058 GAACAATTT
1 GAATAATTT
30688067 GAATAATTT
1 GAATAATTT
30688076 GAATAATT
1 GAATAATT
30688084 GATTGGTGTA
Statistics
Matches: 29, Mismatches: 4, Indels: 2
0.83 0.11 0.06
Matches are distributed among these distances:
8 7 0.24
9 22 0.76
ACGTcount: A:0.44, C:0.02, G:0.09, T:0.44
Consensus pattern (9 bp):
GAATAATTT
Found at i:30690198 original size:10 final size:9
Alignment explanation
Indices: 30690154--30690205 Score: 52
Period size: 9 Copynumber: 5.8 Consensus size: 9
30690144 TAATTTGAGT
30690154 TAATTTTAA
1 TAATTTTAA
**
30690163 TAATTCGAA
1 TAATTTTAA
*
30690172 TAATTTAAA
1 TAATTTTAA
*
30690181 TAAATTTAA
1 TAATTTTAA
30690190 TATATTTTAA
1 TA-ATTTTAA
30690200 -AATTTT
1 TAATTTT
30690206 TTAATTATTT
Statistics
Matches: 35, Mismatches: 7, Indels: 3
0.78 0.16 0.07
Matches are distributed among these distances:
8 5 0.14
9 24 0.69
10 6 0.17
ACGTcount: A:0.46, C:0.02, G:0.02, T:0.50
Consensus pattern (9 bp):
TAATTTTAA
Found at i:30690633 original size:22 final size:20
Alignment explanation
Indices: 30690596--30690636 Score: 55
Period size: 22 Copynumber: 1.9 Consensus size: 20
30690586 TAAAGTTAAA
30690596 AAATTATAAAAGAAAAAATT
1 AAATTATAAAAGAAAAAATT
*
30690616 AAATTACTCAAAATAAAAAAT
1 AAATTA-T-AAAAGAAAAAAT
30690637 AGGGACCAAT
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
20 6 0.33
21 1 0.06
22 11 0.61
ACGTcount: A:0.68, C:0.05, G:0.02, T:0.24
Consensus pattern (20 bp):
AAATTATAAAAGAAAAAATT
Found at i:30693831 original size:19 final size:19
Alignment explanation
Indices: 30693807--30693844 Score: 76
Period size: 19 Copynumber: 2.0 Consensus size: 19
30693797 ACAAGGAACA
30693807 GTAGAATAATCCATATTTG
1 GTAGAATAATCCATATTTG
30693826 GTAGAATAATCCATATTTG
1 GTAGAATAATCCATATTTG
30693845 ATATGGTTGA
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
19 19 1.00
ACGTcount: A:0.37, C:0.11, G:0.16, T:0.37
Consensus pattern (19 bp):
GTAGAATAATCCATATTTG
Found at i:30695817 original size:16 final size:17
Alignment explanation
Indices: 30695796--30695829 Score: 52
Period size: 16 Copynumber: 2.1 Consensus size: 17
30695786 ATTAAAAGTA
30695796 AAGGAAAGATT-TTTAC
1 AAGGAAAGATTGTTTAC
*
30695812 AAGGAAAGGTTGTTTAC
1 AAGGAAAGATTGTTTAC
30695829 A
1 A
30695830 GAGAGGATGC
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
16 10 0.62
17 6 0.38
ACGTcount: A:0.41, C:0.06, G:0.24, T:0.29
Consensus pattern (17 bp):
AAGGAAAGATTGTTTAC
Found at i:30697492 original size:18 final size:18
Alignment explanation
Indices: 30697469--30697503 Score: 61
Period size: 18 Copynumber: 1.9 Consensus size: 18
30697459 TGTTAATATA
30697469 GGAGTAAATCCCTGATTG
1 GGAGTAAATCCCTGATTG
*
30697487 GGAGTAAATCCTTGATT
1 GGAGTAAATCCCTGATT
30697504 AGGATTTATC
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
18 16 1.00
ACGTcount: A:0.29, C:0.14, G:0.26, T:0.31
Consensus pattern (18 bp):
GGAGTAAATCCCTGATTG
Found at i:30703641 original size:18 final size:18
Alignment explanation
Indices: 30703614--30703666 Score: 88
Period size: 18 Copynumber: 2.9 Consensus size: 18
30703604 GATAAATCCT
*
30703614 AATCAAGGATTTACTCCC
1 AATCAGGGATTTACTCCC
30703632 AATCAGGGATTTACTCCC
1 AATCAGGGATTTACTCCC
*
30703650 AATTAGGGATTTACTCC
1 AATCAGGGATTTACTCC
30703667 TATATTAACA
Statistics
Matches: 33, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
18 33 1.00
ACGTcount: A:0.30, C:0.25, G:0.15, T:0.30
Consensus pattern (18 bp):
AATCAGGGATTTACTCCC
Found at i:30704070 original size:16 final size:17
Alignment explanation
Indices: 30704049--30704082 Score: 52
Period size: 16 Copynumber: 2.1 Consensus size: 17
30704039 ATTAAAAGTA
30704049 AAGGAAAGATT-TTTAC
1 AAGGAAAGATTGTTTAC
*
30704065 AAGGAAAGGTTGTTTAC
1 AAGGAAAGATTGTTTAC
30704082 A
1 A
30704083 GAGAGGATGC
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
16 10 0.62
17 6 0.38
ACGTcount: A:0.41, C:0.06, G:0.24, T:0.29
Consensus pattern (17 bp):
AAGGAAAGATTGTTTAC
Found at i:30706832 original size:21 final size:21
Alignment explanation
Indices: 30706808--30706849 Score: 84
Period size: 21 Copynumber: 2.0 Consensus size: 21
30706798 TTATCTTCTT
30706808 CTTCTATTTGAGAATTAGAAG
1 CTTCTATTTGAGAATTAGAAG
30706829 CTTCTATTTGAGAATTAGAAG
1 CTTCTATTTGAGAATTAGAAG
30706850 GTAAAACTAA
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
21 21 1.00
ACGTcount: A:0.33, C:0.10, G:0.19, T:0.38
Consensus pattern (21 bp):
CTTCTATTTGAGAATTAGAAG
Found at i:30707129 original size:57 final size:57
Alignment explanation
Indices: 30707067--30707180 Score: 210
Period size: 57 Copynumber: 2.0 Consensus size: 57
30707057 ACTCAATTAT
*
30707067 TTTATTATTAATTTCTTTAATTTCTACTTCTGTCGTGTTGGTATATTCATTAATAGA
1 TTTATTATTAATTTCTTTAATTTCTACTTCTGCCGTGTTGGTATATTCATTAATAGA
*
30707124 TTTATTATTAATTTCTTTAATTTCTACTTCTGCCGTGTTGGTATTTTCATTAATAGA
1 TTTATTATTAATTTCTTTAATTTCTACTTCTGCCGTGTTGGTATATTCATTAATAGA
30707181 AGTCCAACTT
Statistics
Matches: 55, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
57 55 1.00
ACGTcount: A:0.24, C:0.11, G:0.11, T:0.54
Consensus pattern (57 bp):
TTTATTATTAATTTCTTTAATTTCTACTTCTGCCGTGTTGGTATATTCATTAATAGA
Found at i:30718021 original size:17 final size:17
Alignment explanation
Indices: 30718001--30718033 Score: 50
Period size: 17 Copynumber: 1.9 Consensus size: 17
30717991 AGGGCATCTT
30718001 AAAA-AAAAAGAGAAAAG
1 AAAAGAAAAA-AGAAAAG
30718018 AAAAGAAAAAAGAAAA
1 AAAAGAAAAAAGAAAA
30718034 AGAGAGAGGG
Statistics
Matches: 15, Mismatches: 0, Indels: 2
0.88 0.00 0.12
Matches are distributed among these distances:
17 10 0.67
18 5 0.33
ACGTcount: A:0.85, C:0.00, G:0.15, T:0.00
Consensus pattern (17 bp):
AAAAGAAAAAAGAAAAG
Found at i:30719101 original size:73 final size:73
Alignment explanation
Indices: 30718981--30719147 Score: 235
Period size: 73 Copynumber: 2.3 Consensus size: 73
30718971 ATTTCCGTTT
* * *
30718981 TTTCAATTTATGCTTTTCAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTTAGGACACG
1 TTTCAATTTATGCTTTTC-AAAAATCAACTCATATTGCGAGAGGTGAGCTGAGACTCAGGACACG
*
30719046 CTGAGGTAA
65 CCGAGGTAA
* *
30719055 TTTCAATTTATGCTTTTCAAAAATCAACTCATATTGCGAGAGGTGAGCTGAGACTCAGGGCATGC
1 TTTCAATTTATGCTTTTCAAAAATCAACTCATATTGCGAGAGGTGAGCTGAGACTCAGGACACGC
*
30719120 CGAGGTAT
66 CGAGGTAA
* * *
30719128 TTTTAATTTCTGTTTTTCAA
1 TTTCAATTTATGCTTTTCAA
30719148 TTTCTGCTTT
Statistics
Matches: 83, Mismatches: 10, Indels: 1
0.88 0.11 0.01
Matches are distributed among these distances:
73 65 0.78
74 18 0.22
ACGTcount: A:0.29, C:0.16, G:0.20, T:0.35
Consensus pattern (73 bp):
TTTCAATTTATGCTTTTCAAAAATCAACTCATATTGCGAGAGGTGAGCTGAGACTCAGGACACGC
CGAGGTAA
Found at i:30719171 original size:13 final size:13
Alignment explanation
Indices: 30719127--30719171 Score: 72
Period size: 13 Copynumber: 3.4 Consensus size: 13
30719117 TGCCGAGGTA
30719127 TTTTTAATTTCTG
1 TTTTTAATTTCTG
30719140 TTTTTCAATTTCTG
1 TTTTT-AATTTCTG
*
30719154 CTTTTAATTTCTG
1 TTTTTAATTTCTG
30719167 TTTTT
1 TTTTT
30719172 CAAAATCAAC
Statistics
Matches: 29, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
13 17 0.59
14 12 0.41
ACGTcount: A:0.13, C:0.11, G:0.07, T:0.69
Consensus pattern (13 bp):
TTTTTAATTTCTG
Found at i:30719188 original size:99 final size:100
Alignment explanation
Indices: 30719058--30719340 Score: 396
Period size: 97 Copynumber: 2.9 Consensus size: 100
30719048 GAGGTAATTT
* * * * *
30719058 CAATTTATGCTTTTCAAAAATCAACTCATATTGCGAGAGGTGAGCTGAGACTCAGGGCATGCCGA
1 CAATTTCTGCTTTTC-AAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGGCACGCTGA
* *
30719123 GGTATTTTTAATTTCTGTTTTTCAATTTCTG-CTTT
65 GGTATTTTCAATTTCTGTTTTTCAATTTCTGCCTTA
* * *
30719158 TAATTTCTGTTTTTCAAAATCAACTTATATT--GAGAGGTGAGTTGAGCCTCAGGGCACGCTGAG
1 CAATTTCTGCTTTTCAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGGCACGCTGAG
*
30719221 GTATTTTCAATTTCTGTTTTTCAATTTTTGCCTTA
66 GTATTTTCAATTTCTGTTTTTCAATTTCTGCCTTA
* *
30719256 CAAATTCTGCTTTTC-AAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACACGCTGAG
1 CAATTTCTGCTTTTCAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGGCACGCTGAG
30719320 GTATTTTCAATTT-TCGTTTTT
66 GTATTTTCAATTTCT-GTTTTT
30719341 TTAATTTATG
Statistics
Matches: 163, Mismatches: 16, Indels: 9
0.87 0.09 0.05
Matches are distributed among these distances:
97 70 0.43
98 16 0.10
99 65 0.40
100 12 0.07
ACGTcount: A:0.24, C:0.17, G:0.19, T:0.40
Consensus pattern (100 bp):
CAATTTCTGCTTTTCAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGGCACGCTGAG
GTATTTTCAATTTCTGTTTTTCAATTTCTGCCTTA
Found at i:30719540 original size:147 final size:148
Alignment explanation
Indices: 30719357--30719731 Score: 581
Period size: 147 Copynumber: 2.5 Consensus size: 148
30719347 TATGTTTCTA
** *
30719357 AAAAAAATCAACTCATATTGCGAGAAATGAGGTGAGCCTCAGGACACGCTGAGGTAATTTCAATT
1 AAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACACGCTGAGGTAATTTCAATT
*
30719422 TTTGTTTATCAAAACTCAACTCATATTGCAAGAGGTGAGTTGAGCCTCAAGACACGTTGAGGTAT
66 TTTGTTTATCAAAAATCAACTCATATTGCAAGAGGTGAGTTGAGCCTCAAGACACGTTGAGGTAT
*
30719487 TTTCAATTTCTGTTTTTC
131 TTTCAATTTCTGTCTTTC
*
30719505 -AAAAAATCAACTCATATTGCGATAGGTGAGTTGAGCCTCAGGACACGCTGAGGTAATTTCAATT
1 AAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACACGCTGAGGTAATTTCAATT
* *
30719569 TTTGTTTGTCAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAAGACACGTTGAGGTAT
66 TTTGTTTATCAAAAATCAACTCATATTGCAAGAGGTGAGTTGAGCCTCAAGACACGTTGAGGTAT
30719634 TTTCAATTTCTGTCTTTC
131 TTTCAATTTCTGTCTTTC
* * ** *
30719652 AAAAAAATCAGCTCATATTGCGAGAGGTGAGTTGAGCCTTGACTCACACGCTGAGGTATTTTCAA
1 AAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCC-TCA-GGACACGCTGAGGTAATTTCAA
* * *
30719717 ATTCTGTTTTTCAAA
64 TTTTTGTTTATCAAA
30719732 TATTATTTTT
Statistics
Matches: 207, Mismatches: 17, Indels: 4
0.91 0.07 0.02
Matches are distributed among these distances:
147 139 0.67
148 35 0.17
149 2 0.01
150 31 0.15
ACGTcount: A:0.31, C:0.17, G:0.20, T:0.32
Consensus pattern (148 bp):
AAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACACGCTGAGGTAATTTCAATT
TTTGTTTATCAAAAATCAACTCATATTGCAAGAGGTGAGTTGAGCCTCAAGACACGTTGAGGTAT
TTTCAATTTCTGTCTTTC
Found at i:30719550 original size:74 final size:74
Alignment explanation
Indices: 30719358--30719731 Score: 509
Period size: 73 Copynumber: 5.0 Consensus size: 74
30719348 ATGTTTCTAA
** * * *
30719358 AAAAAATCAACTCATATTGCGAGAAATGAGGTGAGCCTCAGGACACGCTGAGGTAATTTCAATTT
1 AAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAAGACACGCTGAGGTATTTTCAATTT
* *
30719423 TTGTTTATC
66 CTGTTTTTC
* * *
30719432 -AAAACTCAACTCATATTGCAAGAGGTGAGTTGAGCCTCAAGACACGTTGAGGTATTTTCAATTT
1 AAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAAGACACGCTGAGGTATTTTCAATTT
30719496 CTGTTTTTC
66 CTGTTTTTC
* * *
30719505 AAAAAATCAACTCATATTGCGATAGGTGAGTTGAGCCTCAGGACACGCTGAGGTAATTTCAATTT
1 AAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAAGACACGCTGAGGTATTTTCAATTT
* *
30719570 TTGTTTGTC
66 CTGTTTTTC
*
30719579 -AAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAAGACACGTTGAGGTATTTTCAATTT
1 AAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAAGACACGCTGAGGTATTTTCAATTT
*
30719643 CTGTCTTTC
66 CTGTTTTTC
* * **
30719652 AAAAAAATCAGCTCATATTGCGAGAGGTGAGTTGAGCCTTGACTCACACGCTGAGGTATTTTCAA
1 -AAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCC-TCA-AGACACGCTGAGGTATTTTCAA
*
30719717 ATTCTGTTTTTC
63 TTTCTGTTTTTC
30719729 AAA
1 AAA
30719732 TATTATTTTT
Statistics
Matches: 263, Mismatches: 32, Indels: 8
0.87 0.11 0.03
Matches are distributed among these distances:
73 129 0.49
74 65 0.25
75 35 0.13
76 5 0.02
77 29 0.11
ACGTcount: A:0.30, C:0.17, G:0.20, T:0.32
Consensus pattern (74 bp):
AAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAAGACACGCTGAGGTATTTTCAATTT
CTGTTTTTC
Found at i:30719819 original size:92 final size:91
Alignment explanation
Indices: 30719633--30720089 Score: 454
Period size: 92 Copynumber: 5.0 Consensus size: 91
30719623 CGTTGAGGTA
* * * **
30719633 TTTTC-AATTTCTGTCTTTCAAAAAAATCAGCTCATATTGCGAGAGGTGAGTTGAGCCTTGACTC
1 TTTTCAAATTTATGT-TTTCAAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCC-TCAGGC
* * *
30719697 ACACGCTGAGGTATTTTCAAATTC-TGT
64 ACACGCTGAGATATTTTCAATTTCTTTT
*
30719724 TTTTCAAATATTAT-TTTTCCAAAAAAATCAACTCATATTGCGAGAGGTGAGTTCAGCCTCAGG-
1 TTTTCAAAT-TTATGTTTT-CAAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGC
30719787 ACACGCTGAGATATTTTCAATTTCTTTTTT
64 ACACGCTGAGATATTTTCAATTTC--TTTT
30719817 TTTTC-AATTTATGTTTGTCAAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGTC
1 TTTTCAAATTTATGTTT-TCAAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGG-C
* * **
30719881 ACACGCCGAGGTATTTTCAATTGATTTT
64 ACACGCTGAGATATTTTCAATTTCTTTT
* * * *
30719909 TTTTTAAATTTATGCTTTGC--AAAAATCAACTCATATTACGAGAGGTGAGTTGAGCCTCGGGTC
1 TTTTCAAATTTATG-TTTTCAAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGG-C
** * ** *
30719972 ACATACCGAGATATTTTCAAAATC-TGT
64 ACACGCTGAGATATTTTCAATTTCTTTT
* * * *
30719999 TTTACAAATTT-TGTTTT---AAAAATCAACTCATATTGCGAGAAGTGAGTTGAGCCT-TGGCTC
1 TTTTCAAATTTATGTTTTCAAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGCAC
* *
30720059 ACGTGCTGAGCTATTTTCAATTTCTGTT
66 AC--GCTGAGATATTTTCAATTTCTTTT
30720087 TTT
1 TTT
30720090 AATGTTTAGT
Statistics
Matches: 310, Mismatches: 41, Indels: 33
0.81 0.11 0.09
Matches are distributed among these distances:
85 3 0.01
86 2 0.01
87 50 0.16
88 7 0.02
89 2 0.01
90 33 0.11
91 72 0.23
92 98 0.32
93 20 0.06
94 23 0.07
ACGTcount: A:0.28, C:0.17, G:0.18, T:0.37
Consensus pattern (91 bp):
TTTTCAAATTTATGTTTTCAAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGCAC
ACGCTGAGATATTTTCAATTTCTTTT
Found at i:30720806 original size:30 final size:30
Alignment explanation
Indices: 30720770--30720868 Score: 162
Period size: 30 Copynumber: 3.3 Consensus size: 30
30720760 CTAGCCTTTG
*
30720770 CCACCACCAACTCCACTAGCTACACTTGCT
1 CCACCACCAACTCCACTAGCCACACTTGCT
*
30720800 CCACCACCAACTCCATTAGCCACACTTGCT
1 CCACCACCAACTCCACTAGCCACACTTGCT
* *
30720830 CCACTACCTACTCCACTAGCCACACTTGCT
1 CCACCACCAACTCCACTAGCCACACTTGCT
30720860 CCACCACCA
1 CCACCACCA
30720869 CTTGTACCTA
Statistics
Matches: 62, Mismatches: 7, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
30 62 1.00
ACGTcount: A:0.26, C:0.48, G:0.06, T:0.19
Consensus pattern (30 bp):
CCACCACCAACTCCACTAGCCACACTTGCT
Found at i:30725837 original size:16 final size:17
Alignment explanation
Indices: 30725816--30725849 Score: 52
Period size: 16 Copynumber: 2.1 Consensus size: 17
30725806 ATTAAAAGTA
30725816 AAGGAAAGATT-TTTAC
1 AAGGAAAGATTGTTTAC
*
30725832 AAGGAAAGGTTGTTTAC
1 AAGGAAAGATTGTTTAC
30725849 A
1 A
30725850 GAGAGGATAC
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
16 10 0.62
17 6 0.38
ACGTcount: A:0.41, C:0.06, G:0.24, T:0.29
Consensus pattern (17 bp):
AAGGAAAGATTGTTTAC
Found at i:30727514 original size:18 final size:18
Alignment explanation
Indices: 30727491--30727525 Score: 61
Period size: 18 Copynumber: 1.9 Consensus size: 18
30727481 TGTTAATATA
30727491 GGAGTAAATCCCTGATTG
1 GGAGTAAATCCCTGATTG
*
30727509 GGAGTAAATCCTTGATT
1 GGAGTAAATCCCTGATT
30727526 AGGATTTATC
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
18 16 1.00
ACGTcount: A:0.29, C:0.14, G:0.26, T:0.31
Consensus pattern (18 bp):
GGAGTAAATCCCTGATTG
Found at i:30727734 original size:18 final size:19
Alignment explanation
Indices: 30727701--30727736 Score: 56
Period size: 18 Copynumber: 1.9 Consensus size: 19
30727691 AATTTCCTTT
30727701 ATTGAAATATTAGTTTAGA
1 ATTGAAATATTAGTTTAGA
*
30727720 ATTGATATA-TAGTTTAG
1 ATTGAAATATTAGTTTAG
30727737 TTTCAATAAA
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
18 8 0.50
19 8 0.50
ACGTcount: A:0.39, C:0.00, G:0.17, T:0.44
Consensus pattern (19 bp):
ATTGAAATATTAGTTTAGA
Found at i:30729600 original size:10 final size:10
Alignment explanation
Indices: 30729584--30729614 Score: 53
Period size: 10 Copynumber: 3.1 Consensus size: 10
30729574 TTTAAAACTC
30729584 ATTTTAAATG
1 ATTTTAAATG
*
30729594 TTTTTAAATG
1 ATTTTAAATG
30729604 ATTTTAAATG
1 ATTTTAAATG
30729614 A
1 A
30729615 CTTAAAAATA
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
10 19 1.00
ACGTcount: A:0.39, C:0.00, G:0.10, T:0.52
Consensus pattern (10 bp):
ATTTTAAATG
Found at i:30732067 original size:10 final size:9
Alignment explanation
Indices: 30732023--30732074 Score: 52
Period size: 9 Copynumber: 5.8 Consensus size: 9
30732013 AATAATGAGT
30732023 TAATTTTAA
1 TAATTTTAA
**
30732032 TAATTCGAA
1 TAATTTTAA
*
30732041 TAATTTAAA
1 TAATTTTAA
*
30732050 TAAATTTAA
1 TAATTTTAA
30732059 TATATTTTAA
1 TA-ATTTTAA
30732069 -AATTTT
1 TAATTTT
30732075 TTAATTATTT
Statistics
Matches: 35, Mismatches: 7, Indels: 3
0.78 0.16 0.07
Matches are distributed among these distances:
8 5 0.14
9 24 0.69
10 6 0.17
ACGTcount: A:0.46, C:0.02, G:0.02, T:0.50
Consensus pattern (9 bp):
TAATTTTAA
Found at i:30732325 original size:16 final size:17
Alignment explanation
Indices: 30732304--30732341 Score: 51
Period size: 17 Copynumber: 2.3 Consensus size: 17
30732294 TTAAAATTAG
* *
30732304 TTTTT-ATATTTTTATT
1 TTTTTAATAATTTAATT
30732320 TTTTTAATAATTTAATT
1 TTTTTAATAATTTAATT
30732337 TTTTT
1 TTTTT
30732342 GAGTGAGACA
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
16 5 0.26
17 14 0.74
ACGTcount: A:0.24, C:0.00, G:0.00, T:0.76
Consensus pattern (17 bp):
TTTTTAATAATTTAATT
Found at i:30732326 original size:29 final size:31
Alignment explanation
Indices: 30732274--30732331 Score: 77
Period size: 29 Copynumber: 1.9 Consensus size: 31
30732264 TTAATGAAGT
30732274 TTTTCTATATTTTGTATTTGTTAA-AATTAG
1 TTTTCTATATTTTGTATTTGTTAATAATTAG
*
30732304 TTTT-TATATTTT-TATTTTTTTAATAATT
1 TTTTCTATATTTTGTA-TTTGTTAATAATT
30732332 TAATTTTTTT
Statistics
Matches: 25, Mismatches: 1, Indels: 4
0.83 0.03 0.13
Matches are distributed among these distances:
28 2 0.08
29 15 0.60
30 8 0.32
ACGTcount: A:0.26, C:0.02, G:0.05, T:0.67
Consensus pattern (31 bp):
TTTTCTATATTTTGTATTTGTTAATAATTAG
Found at i:30737869 original size:24 final size:24
Alignment explanation
Indices: 30737842--30737888 Score: 94
Period size: 24 Copynumber: 2.0 Consensus size: 24
30737832 ATTTCAACGC
30737842 TGGAAGAATATCAGTTGATAGGTG
1 TGGAAGAATATCAGTTGATAGGTG
30737866 TGGAAGAATATCAGTTGATAGGT
1 TGGAAGAATATCAGTTGATAGGT
30737889 CCCAAAAATT
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
24 23 1.00
ACGTcount: A:0.34, C:0.04, G:0.32, T:0.30
Consensus pattern (24 bp):
TGGAAGAATATCAGTTGATAGGTG
Found at i:30751030 original size:10 final size:10
Alignment explanation
Indices: 30751017--30751061 Score: 63
Period size: 11 Copynumber: 4.3 Consensus size: 10
30751007 ATTTTTATGT
30751017 AAAATTATAA
1 AAAATTATAA
*
30751027 AAAATTCAAAA
1 AAAATT-ATAA
30751038 AAAATTATTAA
1 AAAATTA-TAA
30751049 AAAATTATAA
1 AAAATTATAA
30751059 AAA
1 AAA
30751062 TACAAAAAAA
Statistics
Matches: 31, Mismatches: 2, Indels: 4
0.84 0.05 0.11
Matches are distributed among these distances:
10 13 0.42
11 18 0.58
ACGTcount: A:0.71, C:0.02, G:0.00, T:0.27
Consensus pattern (10 bp):
AAAATTATAA
Found at i:30751041 original size:11 final size:10
Alignment explanation
Indices: 30751017--30751081 Score: 51
Period size: 11 Copynumber: 6.2 Consensus size: 10
30751007 ATTTTTATGT
*
30751017 AAAATTATAA
1 AAAATTAAAA
30751027 AAAATTCAAAA
1 AAAATT-AAAA
*
30751038 AAAATTATTAA
1 AAAATTA-AAA
*
30751049 AAAATT-ATA
1 AAAATTAAAA
*
30751058 AAAATACAAAA
1 AAAAT-TAAAA
30751069 AAAAGTTAAAA
1 AAAA-TTAAAA
30751080 AA
1 AA
30751082 TTAAAAACTT
Statistics
Matches: 43, Mismatches: 7, Indels: 9
0.73 0.12 0.15
Matches are distributed among these distances:
9 6 0.14
10 7 0.16
11 29 0.67
12 1 0.02
ACGTcount: A:0.72, C:0.03, G:0.02, T:0.23
Consensus pattern (10 bp):
AAAATTAAAA
Found at i:30751174 original size:6 final size:7
Alignment explanation
Indices: 30751155--30751180 Score: 52
Period size: 7 Copynumber: 3.7 Consensus size: 7
30751145 CATACTAAAG
30751155 TATTTTT
1 TATTTTT
30751162 TATTTTT
1 TATTTTT
30751169 TATTTTT
1 TATTTTT
30751176 TATTT
1 TATTT
30751181 CTTCTTTGGA
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 19 1.00
ACGTcount: A:0.15, C:0.00, G:0.00, T:0.85
Consensus pattern (7 bp):
TATTTTT
Found at i:30755747 original size:3 final size:3
Alignment explanation
Indices: 30755730--30755828 Score: 119
Period size: 3 Copynumber: 32.7 Consensus size: 3
30755720 TGCAAAAGCA
* *
30755730 AAG AGAG AA- AAG AAG AAG AAG AAG AAG AAA AAA AAG AAG AAG AAG
1 AAG A-AG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG
* * * *
30755775 AAG AAG AAA AAG AAG AAG AAG AAG AAG AAG AAG GAG AAG GAG GAG AAAG
1 AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG -AAG
30755824 AAG AA
1 AAG AA
30755829 AAAAATGTTA
Statistics
Matches: 85, Mismatches: 8, Indels: 6
0.86 0.08 0.06
Matches are distributed among these distances:
2 2 0.02
3 78 0.92
4 5 0.06
ACGTcount: A:0.68, C:0.00, G:0.32, T:0.00
Consensus pattern (3 bp):
AAG
Found at i:30755764 original size:24 final size:24
Alignment explanation
Indices: 30755737--30755806 Score: 131
Period size: 24 Copynumber: 2.9 Consensus size: 24
30755727 GCAAAGAGAG
30755737 AAAAGAAGAAGAAGAAGAAGAAAA
1 AAAAGAAGAAGAAGAAGAAGAAAA
30755761 AAAAGAAGAAGAAGAAGAAGAAAA
1 AAAAGAAGAAGAAGAAGAAGAAAA
*
30755785 AGAAGAAGAAGAAGAAGAAGAA
1 AAAAGAAGAAGAAGAAGAAGAA
30755807 GGAGAAGGAG
Statistics
Matches: 45, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
24 45 1.00
ACGTcount: A:0.73, C:0.00, G:0.27, T:0.00
Consensus pattern (24 bp):
AAAAGAAGAAGAAGAAGAAGAAAA
Found at i:30756917 original size:11 final size:11
Alignment explanation
Indices: 30756882--30756909 Score: 56
Period size: 11 Copynumber: 2.5 Consensus size: 11
30756872 GAGAGTAAGA
30756882 AATTTTAATGT
1 AATTTTAATGT
30756893 AATTTTAATGT
1 AATTTTAATGT
30756904 AATTTT
1 AATTTT
30756910 GATATAATGT
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 17 1.00
ACGTcount: A:0.36, C:0.00, G:0.07, T:0.57
Consensus pattern (11 bp):
AATTTTAATGT
Found at i:30758533 original size:6 final size:6
Alignment explanation
Indices: 30758522--30758551 Score: 60
Period size: 6 Copynumber: 5.0 Consensus size: 6
30758512 TGCACCAACT
30758522 CCAGAG CCAGAG CCAGAG CCAGAG CCAGAG
1 CCAGAG CCAGAG CCAGAG CCAGAG CCAGAG
30758552 GCAGTGCCGG
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 24 1.00
ACGTcount: A:0.33, C:0.33, G:0.33, T:0.00
Consensus pattern (6 bp):
CCAGAG
Found at i:30762847 original size:3 final size:3
Alignment explanation
Indices: 30762839--30762864 Score: 52
Period size: 3 Copynumber: 8.7 Consensus size: 3
30762829 ATTCAATACC
30762839 ATA ATA ATA ATA ATA ATA ATA ATA AT
1 ATA ATA ATA ATA ATA ATA ATA ATA AT
30762865 GATGATGATG
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:30763511 original size:17 final size:19
Alignment explanation
Indices: 30763477--30763514 Score: 62
Period size: 17 Copynumber: 2.1 Consensus size: 19
30763467 AAACCTTTAA
30763477 TTTTCTCTTTTCTTCTTTC
1 TTTTCTCTTTTCTTCTTTC
30763496 TTTTCTC-TTT-TTCTTTC
1 TTTTCTCTTTTCTTCTTTC
30763513 TT
1 TT
30763515 CCTTCCCCTA
Statistics
Matches: 19, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
17 9 0.47
18 3 0.16
19 7 0.37
ACGTcount: A:0.00, C:0.24, G:0.00, T:0.76
Consensus pattern (19 bp):
TTTTCTCTTTTCTTCTTTC
Found at i:30765999 original size:42 final size:41
Alignment explanation
Indices: 30765921--30766064 Score: 166
Period size: 42 Copynumber: 3.4 Consensus size: 41
30765911 CCAGACGTAA
*
30765921 TCTTACATGTAATCAAATAACGATGCCACTGTCCCAGACAGGG
1 TCTTACATGAAATCAAAT-ACGATGCCA-TGTCCCAGACAGGG
*
30765964 TCTTACATGAAATCAAATACGATGCCGATGTCCCAGACACGG
1 TCTTACATGAAATCAAATACGATGCC-ATGTCCCAGACAGGG
* *
30766006 TCTTACACGTAAATTTCAAAT-CGATGCCAACGTCCCAGAC-GTGG
1 TCTTACATG-AAA--TCAAATACGATGCC-ATGTCCCAGACAG-GG
30766050 TCTTACATGAAATCA
1 TCTTACATGAAATCA
30766065 CATATCAGAA
Statistics
Matches: 89, Mismatches: 7, Indels: 12
0.82 0.06 0.11
Matches are distributed among these distances:
41 3 0.03
42 29 0.33
43 24 0.27
44 27 0.30
45 6 0.07
ACGTcount: A:0.33, C:0.26, G:0.17, T:0.24
Consensus pattern (41 bp):
TCTTACATGAAATCAAATACGATGCCATGTCCCAGACAGGG
Found at i:30767969 original size:26 final size:25
Alignment explanation
Indices: 30767932--30767984 Score: 97
Period size: 26 Copynumber: 2.1 Consensus size: 25
30767922 CTCCTAAACT
30767932 CTTTGTTTTGTCTTAACAGTTCCTG
1 CTTTGTTTTGTCTTAACAGTTCCTG
30767957 CTTTCGTTTTGTCTTAACAGTTCCTG
1 CTTT-GTTTTGTCTTAACAGTTCCTG
30767983 CT
1 CT
30767985 GAAACACTTA
Statistics
Matches: 27, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
25 4 0.15
26 23 0.85
ACGTcount: A:0.11, C:0.23, G:0.15, T:0.51
Consensus pattern (25 bp):
CTTTGTTTTGTCTTAACAGTTCCTG
Found at i:30771873 original size:3 final size:3
Alignment explanation
Indices: 30771865--30771889 Score: 50
Period size: 3 Copynumber: 8.3 Consensus size: 3
30771855 GCGCAAGACA
30771865 TAT TAT TAT TAT TAT TAT TAT TAT T
1 TAT TAT TAT TAT TAT TAT TAT TAT T
30771890 TATTCGTCCA
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 22 1.00
ACGTcount: A:0.32, C:0.00, G:0.00, T:0.68
Consensus pattern (3 bp):
TAT
Found at i:30771982 original size:3 final size:3
Alignment explanation
Indices: 30771974--30772008 Score: 61
Period size: 3 Copynumber: 11.7 Consensus size: 3
30771964 TTTATTTCTC
*
30771974 TTA TTA TTA TTA TTA TTA TTA TCA TTA TTA TTA TT
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TT
30772009 CATTGTCGTC
Statistics
Matches: 30, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
3 30 1.00
ACGTcount: A:0.31, C:0.03, G:0.00, T:0.66
Consensus pattern (3 bp):
TTA
Found at i:30772130 original size:13 final size:13
Alignment explanation
Indices: 30772114--30772139 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
30772104 ATTTTCCTTA
30772114 ATATTTATTTATT
1 ATATTTATTTATT
30772127 ATATTTATTTATT
1 ATATTTATTTATT
30772140 TATCCCTTTA
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:0.31, C:0.00, G:0.00, T:0.69
Consensus pattern (13 bp):
ATATTTATTTATT
Found at i:30778900 original size:42 final size:42
Alignment explanation
Indices: 30778841--30778989 Score: 181
Period size: 42 Copynumber: 3.5 Consensus size: 42
30778831 GCGAATCTTG
30778841 TCTCCCTAAGCAGTAGTGGAGCAGATTTAAGCCACCATCCTA
1 TCTCCCTAAGCAGTAGTGGAGCAGATTTAAGCCACCATCCTA
* ** * ** * * *
30778883 TCTCCCTAAGCAGTAGTGGAGTAGGCTGAAGATTACAGATCTTG
1 TCTCCCTAAGCAGTAGTGGAGCAGATTTAAG-CCAC-CATCCTA
*
30778927 TCTCCCTAAGCAGTAATGGAGCAGATTTAAGCCACCATCCTA
1 TCTCCCTAAGCAGTAGTGGAGCAGATTTAAGCCACCATCCTA
*
30778969 TCTCCTTAAGCAGTAGTGGAG
1 TCTCCCTAAGCAGTAGTGGAG
30778990 TAGGCTGAAG
Statistics
Matches: 84, Mismatches: 21, Indels: 4
0.77 0.19 0.04
Matches are distributed among these distances:
42 50 0.60
43 4 0.05
44 30 0.36
ACGTcount: A:0.28, C:0.24, G:0.22, T:0.26
Consensus pattern (42 bp):
TCTCCCTAAGCAGTAGTGGAGCAGATTTAAGCCACCATCCTA
Found at i:30778903 original size:86 final size:86
Alignment explanation
Indices: 30778801--30779079 Score: 371
Period size: 86 Copynumber: 3.2 Consensus size: 86
30778791 ATCATGTCTT
* * **
30778801 CTTAAGCAGTAGTGGAGCAGGTTGAATACGGC-GAATCTTGTCTCCCTAAGCAGTAGTGGAGCAG
1 CTTAAGCAGTAGTGGAGCAGGCTGAAGATTGCAG-ATCTTGTCTCCCTAAGCAGTAGTGGAGCAG
30778865 ATTTAAGCCACCATCCTATCTC
65 ATTTAAGCCACCATCCTATCTC
* * * *
30778887 CCTAAGCAGTAGTGGAGTAGGCTGAAGATTACAGATCTTGTCTCCCTAAGCAGTAATGGAGCAGA
1 CTTAAGCAGTAGTGGAGCAGGCTGAAGATTGCAGATCTTGTCTCCCTAAGCAGTAGTGGAGCAGA
30778952 TTTAAGCCACCATCCTATCTC
66 TTTAAGCCACCATCCTATCTC
* * * * *
30778973 CTTAAGCAGTAGTGGAGTAGGCTGAAGATTGTAGATCTTGTCTCTCTAAGCAGTAGTAGAGCAGG
1 CTTAAGCAGTAGTGGAGCAGGCTGAAGATTGCAGATCTTGTCTCCCTAAGCAGTAGTGGAGCAGA
** *
30779038 TTTAAGCCACGGTCCTATCTT
66 TTTAAGCCACCATCCTATCTC
* * *
30779059 CTTGAGTAGCAGTGGAGCAGG
1 CTTAAGCAGTAGTGGAGCAGG
30779080 TTAAAATCAA
Statistics
Matches: 170, Mismatches: 22, Indels: 2
0.88 0.11 0.01
Matches are distributed among these distances:
86 169 0.99
87 1 0.01
ACGTcount: A:0.27, C:0.21, G:0.26, T:0.27
Consensus pattern (86 bp):
CTTAAGCAGTAGTGGAGCAGGCTGAAGATTGCAGATCTTGTCTCCCTAAGCAGTAGTGGAGCAGA
TTTAAGCCACCATCCTATCTC
Found at i:30778947 original size:44 final size:44
Alignment explanation
Indices: 30778883--30779029 Score: 154
Period size: 44 Copynumber: 3.4 Consensus size: 44
30778873 CACCATCCTA
30778883 TCTCCCTAAGCAGTAGTGGAGTAGGCTGAAGATTACAGATCTTG
1 TCTCCCTAAGCAGTAGTGGAGTAGGCTGAAGATTACAGATCTTG
* * ** * ** * * *
30778927 TCTCCCTAAGCAGTAATGGAGCAGATTTAAG-CCAC-CATCCTA
1 TCTCCCTAAGCAGTAGTGGAGTAGGCTGAAGATTACAGATCTTG
* **
30778969 TCTCCTTAAGCAGTAGTGGAGTAGGCTGAAGATTGTAGATCTTG
1 TCTCCCTAAGCAGTAGTGGAGTAGGCTGAAGATTACAGATCTTG
*
30779013 TCTCTCTAAGCAGTAGT
1 TCTCCCTAAGCAGTAGT
30779030 AGAGCAGGTT
Statistics
Matches: 76, Mismatches: 25, Indels: 4
0.72 0.24 0.04
Matches are distributed among these distances:
42 29 0.38
43 2 0.03
44 45 0.59
ACGTcount: A:0.27, C:0.20, G:0.24, T:0.29
Consensus pattern (44 bp):
TCTCCCTAAGCAGTAGTGGAGTAGGCTGAAGATTACAGATCTTG
Found at i:30779248 original size:88 final size:88
Alignment explanation
Indices: 30779089--30779505 Score: 557
Period size: 88 Copynumber: 4.8 Consensus size: 88
30779079 GTTAAAATCA
* * * * *
30779089 ACAATTCTTATCTCCTTGAAATTCTAGCGGAGTAGGTCGAAGTTACAAATCTCTTCTCCCTAAAA
1 ACAATTCGTATCTCCTTGAAGTTCTAGCGGAGTAGATCGAAGCTACAAATCTCTTCTCCCTGAAA
* * * *
30779154 TTGTATTGGATCAGCTCGAAGCC
66 TGGCATTGGAGCGGCTCGAAGCC
* * * * *
30779177 ACAATTCGTCTCTCCTTGAAGTTCCAGCGGAGTAGATTGAAGTTACAAATCTCTTATCCCTGAAA
1 ACAATTCGTATCTCCTTGAAGTTCTAGCGGAGTAGATCGAAGCTACAAATCTCTTCTCCCTGAAA
* *
30779242 TGGTATTGGAGCGGCTCAAAGCC
66 TGGCATTGGAGCGGCTCGAAGCC
*
30779265 ACAATTCGTATCTCCTTGAAGTTCTAGCGGAGTAGATCGAAGCTACAAATCTCTTCTCTCTGAAA
1 ACAATTCGTATCTCCTTGAAGTTCTAGCGGAGTAGATCGAAGCTACAAATCTCTTCTCCCTGAAA
*
30779330 TGGCAATGGAGCGGCTCGAAGCC
66 TGGCATTGGAGCGGCTCGAAGCC
* * * * * * *
30779353 ATAATTCATATCTCTTTGAAGTTCCAGCGAAGTAGATCGAAACTACAAATCTCTTCCCCCTGAAA
1 ACAATTCGTATCTCCTTGAAGTTCTAGCGGAGTAGATCGAAGCTACAAATCTCTTCTCCCTGAAA
* *
30779418 TGGCATTGAAGCGGCTCGTAGCC
66 TGGCATTGGAGCGGCTCGAAGCC
* * *
30779441 ACAATTCGTATCTCCTTGAAGTTTTAGC-GAGTAGATCGAAGCTAGAAATCTCTTCTTCCTGAAA
1 ACAATTCGTATCTCCTTGAAGTTCTAGCGGAGTAGATCGAAGCTACAAATCTCTTCTCCCTGAAA
30779505 T
66 T
30779506 TACAATGGAA
Statistics
Matches: 287, Mismatches: 42, Indels: 1
0.87 0.13 0.00
Matches are distributed among these distances:
87 32 0.11
88 255 0.89
ACGTcount: A:0.28, C:0.23, G:0.19, T:0.29
Consensus pattern (88 bp):
ACAATTCGTATCTCCTTGAAGTTCTAGCGGAGTAGATCGAAGCTACAAATCTCTTCTCCCTGAAA
TGGCATTGGAGCGGCTCGAAGCC
Found at i:30781417 original size:3 final size:3
Alignment explanation
Indices: 30781409--30781440 Score: 55
Period size: 3 Copynumber: 10.7 Consensus size: 3
30781399 ATAATTTTAT
*
30781409 TTA TTA TTA TTA TTA TTA TCA TTA TTA TTA TT
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TT
30781441 CATTGTCGTC
Statistics
Matches: 27, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
3 27 1.00
ACGTcount: A:0.31, C:0.03, G:0.00, T:0.66
Consensus pattern (3 bp):
TTA
Done.