Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: VEPZ01001191.1 Hibiscus syriacus cultivar Beakdansim tig00002363_pilon, whole genome shotgun sequence
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: 159353
ACGTcount: A:0.32, C:0.17, G:0.17, T:0.33
Found at i:2535 original size:33 final size:33
Alignment explanation
Indices: 2493--2557 Score: 130
Period size: 33 Copynumber: 2.0 Consensus size: 33
2483 TTCTGGTTGT
2493 CCAGGTCTCTCTGGAAAGGACTCATCCTCCTGC
1 CCAGGTCTCTCTGGAAAGGACTCATCCTCCTGC
2526 CCAGGTCTCTCTGGAAAGGACTCATCCTCCTG
1 CCAGGTCTCTCTGGAAAGGACTCATCCTCCTG
2558 AATACTACTT
Statistics
Matches: 32, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
33 32 1.00
ACGTcount: A:0.18, C:0.35, G:0.22, T:0.25
Consensus pattern (33 bp):
CCAGGTCTCTCTGGAAAGGACTCATCCTCCTGC
Found at i:19280 original size:21 final size:21
Alignment explanation
Indices: 19234--19289 Score: 69
Period size: 21 Copynumber: 2.7 Consensus size: 21
19224 GATTCTGACT
19234 ATCGCATTGCGA-TTTCCCAA
1 ATCGCATTGCGATTTTCCCAA
* *
19254 ATTCGCGTTGCGATTTTCCTAA
1 A-TCGCATTGCGATTTTCCCAA
*
19276 ATCGCAATGCGATT
1 ATCGCATTGCGATT
19290 ACGTAAATCG
Statistics
Matches: 30, Mismatches: 4, Indels: 3
0.81 0.11 0.08
Matches are distributed among these distances:
20 1 0.03
21 21 0.70
22 8 0.27
ACGTcount: A:0.23, C:0.25, G:0.18, T:0.34
Consensus pattern (21 bp):
ATCGCATTGCGATTTTCCCAA
Found at i:19532 original size:22 final size:22
Alignment explanation
Indices: 19507--19565 Score: 56
Period size: 18 Copynumber: 2.9 Consensus size: 22
19497 GACATCCGTT
19507 CCCATCTCCGACGAAATCAGTC
1 CCCATCTCCGACGAAATCAGTC
19529 CCCA----CGACGATAA-CAGTC
1 CCCATCTCCGACGA-AATCAGTC
* *
19547 TCCATCTCCGGCGAAATCA
1 CCCATCTCCGACGAAATCA
19566 TTCACGGTCA
Statistics
Matches: 29, Mismatches: 2, Indels: 12
0.67 0.05 0.28
Matches are distributed among these distances:
18 14 0.48
19 2 0.07
21 2 0.07
22 11 0.38
ACGTcount: A:0.29, C:0.39, G:0.15, T:0.17
Consensus pattern (22 bp):
CCCATCTCCGACGAAATCAGTC
Found at i:21875 original size:20 final size:20
Alignment explanation
Indices: 21850--21939 Score: 135
Period size: 20 Copynumber: 4.5 Consensus size: 20
21840 AGAATAGTTT
*
21850 ACTATCGCAATGTGAAAATG
1 ACTATCGCAATGCGAAAATG
*
21870 ACTATCGCAGTGCGAAAATG
1 ACTATCGCAATGCGAAAATG
*
21890 ACTATCGCAATGCAAAAATG
1 ACTATCGCAATGCGAAAATG
**
21910 ACTATCGCAATGCGAATTTG
1 ACTATCGCAATGCGAAAATG
21930 ACTATCGCAA
1 ACTATCGCAA
21940 CGAAAGAATC
Statistics
Matches: 63, Mismatches: 7, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
20 63 1.00
ACGTcount: A:0.38, C:0.20, G:0.19, T:0.23
Consensus pattern (20 bp):
ACTATCGCAATGCGAAAATG
Found at i:22011 original size:20 final size:20
Alignment explanation
Indices: 21986--22072 Score: 129
Period size: 20 Copynumber: 4.3 Consensus size: 20
21976 GATTCTCTCG
21986 TTGCGATAGTCAAATTCGCA
1 TTGCGATAGTCAAATTCGCA
22006 TTGCGATAGTCAAATTCGCA
1 TTGCGATAGTCAAATTCGCA
**
22026 TTGCGATAGTCATTTTCGCA
1 TTGCGATAGTCAAATTCGCA
** *
22046 TTGCGATAGTCATTTTCGCG
1 TTGCGATAGTCAAATTCGCA
22066 TTGCGAT
1 TTGCGAT
22073 TTTAAGTTTC
Statistics
Matches: 64, Mismatches: 3, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
20 64 1.00
ACGTcount: A:0.23, C:0.20, G:0.22, T:0.36
Consensus pattern (20 bp):
TTGCGATAGTCAAATTCGCA
Found at i:22647 original size:21 final size:21
Alignment explanation
Indices: 22556--22647 Score: 78
Period size: 21 Copynumber: 4.4 Consensus size: 21
22546 GACTCACCTG
*
22556 TCATCGTTCAAGAGGCCTC-C
1 TCATCGTTCAAGAGGCCACTC
* *
22576 CCTATCGTTCAAGAGGCCACTA
1 TC-ATCGTTCAAGAGGCCACTC
** * *
22598 TCATCCCTCAAGAGTCCCCTC
1 TCATCGTTCAAGAGGCCACTC
* * *
22619 CCACCGTTCAAGAGGCCACTG
1 TCATCGTTCAAGAGGCCACTC
22640 TCATCGTT
1 TCATCGTT
22648 GAAAAGGTCT
Statistics
Matches: 52, Mismatches: 18, Indels: 3
0.71 0.25 0.04
Matches are distributed among these distances:
20 1 0.02
21 50 0.96
22 1 0.02
ACGTcount: A:0.22, C:0.37, G:0.17, T:0.24
Consensus pattern (21 bp):
TCATCGTTCAAGAGGCCACTC
Found at i:24037 original size:14 final size:14
Alignment explanation
Indices: 24018--24053 Score: 54
Period size: 14 Copynumber: 2.6 Consensus size: 14
24008 ATTGTTTAAT
24018 TGATTTGTAAAAGA
1 TGATTTGTAAAAGA
* *
24032 TGATTTGTAAATGT
1 TGATTTGTAAAAGA
24046 TGATTTGT
1 TGATTTGT
24054 TTAATTGATG
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
14 20 1.00
ACGTcount: A:0.31, C:0.00, G:0.22, T:0.47
Consensus pattern (14 bp):
TGATTTGTAAAAGA
Found at i:24243 original size:34 final size:33
Alignment explanation
Indices: 24155--24250 Score: 138
Period size: 33 Copynumber: 2.8 Consensus size: 33
24145 AAAACAGACT
* **
24155 ATCGCAACGCGGAAATGACTATCGCAACGAGAGA
1 ATCGCAATGC-GAAATGAAAATCGCAACGAGAGA
*
24189 ATCGCAATGCGAAATGAAAATCGCAACGAGTGA
1 ATCGCAATGCGAAATGAAAATCGCAACGAGAGA
24222 ATCGCAATGCGAAAATGAAAATCGCAACG
1 ATCGCAATGCG-AAATGAAAATCGCAACG
24251 CGAAATTAGT
Statistics
Matches: 57, Mismatches: 4, Indels: 2
0.90 0.06 0.03
Matches are distributed among these distances:
33 31 0.54
34 26 0.46
ACGTcount: A:0.42, C:0.21, G:0.24, T:0.14
Consensus pattern (33 bp):
ATCGCAATGCGAAATGAAAATCGCAACGAGAGA
Found at i:24246 original size:20 final size:19
Alignment explanation
Indices: 24188--24256 Score: 76
Period size: 19 Copynumber: 3.8 Consensus size: 19
24178 GCAACGAGAG
24188 AATCGCAATGCGAAATGAA
1 AATCGCAATGCGAAATGAA
*
24207 AATCGCAA--CG-AGTG--
1 AATCGCAATGCGAAATGAA
24221 AATCGCAATGCGAAAATGAA
1 AATCGCAATGCG-AAATGAA
*
24241 AATCGCAACGCGAAAT
1 AATCGCAATGCGAAAT
24257 TAGTTTCGCG
Statistics
Matches: 41, Mismatches: 3, Indels: 12
0.73 0.05 0.21
Matches are distributed among these distances:
14 8 0.20
16 5 0.12
17 2 0.05
18 3 0.07
19 12 0.29
20 11 0.27
ACGTcount: A:0.45, C:0.19, G:0.22, T:0.14
Consensus pattern (19 bp):
AATCGCAATGCGAAATGAA
Found at i:24442 original size:33 final size:33
Alignment explanation
Indices: 24403--24470 Score: 109
Period size: 33 Copynumber: 2.1 Consensus size: 33
24393 TCGCAACGTA
**
24403 GAAATGACTATCGCAACGAGAGAATCGCAATGC
1 GAAATGAAAATCGCAACGAGAGAATCGCAATGC
*
24436 GAAATGAAAATCGCAACGAGTGAATCGCAATGC
1 GAAATGAAAATCGCAACGAGAGAATCGCAATGC
24469 GA
1 GA
24471 TTCTCTCGTT
Statistics
Matches: 32, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
33 32 1.00
ACGTcount: A:0.41, C:0.19, G:0.25, T:0.15
Consensus pattern (33 bp):
GAAATGAAAATCGCAACGAGAGAATCGCAATGC
Found at i:24502 original size:20 final size:20
Alignment explanation
Indices: 24477--24565 Score: 126
Period size: 20 Copynumber: 4.5 Consensus size: 20
24467 GCGATTCTCT
24477 CGTTGCGATAGTCATTTCCG
1 CGTTGCGATAGTCATTTCCG
* *
24497 CGTTGCGATAGTCAATTCTG
1 CGTTGCGATAGTCATTTCCG
*
24517 CATTGCGATAGTCATTTCCG
1 CGTTGCGATAGTCATTTCCG
*
24537 TGTTGCGATAGTCATATT-CG
1 CGTTGCGATAGTCAT-TTCCG
24557 CGTTGCGAT
1 CGTTGCGAT
24566 TTCCGCGTTG
Statistics
Matches: 60, Mismatches: 8, Indels: 2
0.86 0.11 0.03
Matches are distributed among these distances:
20 58 0.97
21 2 0.03
ACGTcount: A:0.18, C:0.21, G:0.25, T:0.36
Consensus pattern (20 bp):
CGTTGCGATAGTCATTTCCG
Found at i:24526 original size:40 final size:40
Alignment explanation
Indices: 24479--24565 Score: 140
Period size: 40 Copynumber: 2.2 Consensus size: 40
24469 GATTCTCTCG
24479 TTGCGATAGTCATTTCCGCGTTGCGATAGTCA-ATTCTGCA
1 TTGCGATAGTCATTTCCGCGTTGCGATAGTCATATTC-GCA
* *
24519 TTGCGATAGTCATTTCCGTGTTGCGATAGTCATATTCGCG
1 TTGCGATAGTCATTTCCGCGTTGCGATAGTCATATTCGCA
24559 TTGCGAT
1 TTGCGAT
24566 TTCCGCGTTG
Statistics
Matches: 44, Mismatches: 2, Indels: 2
0.92 0.04 0.04
Matches are distributed among these distances:
40 40 0.91
41 4 0.09
ACGTcount: A:0.18, C:0.21, G:0.24, T:0.37
Consensus pattern (40 bp):
TTGCGATAGTCATTTCCGCGTTGCGATAGTCATATTCGCA
Found at i:24805 original size:20 final size:20
Alignment explanation
Indices: 24777--24831 Score: 92
Period size: 20 Copynumber: 2.8 Consensus size: 20
24767 TTTCCCAAAT
*
24777 TCGCGTTGCGATTTACGTAA
1 TCGCATTGCGATTTACGTAA
24797 TCGCATTGCGATTTACGTAA
1 TCGCATTGCGATTTACGTAA
*
24817 TCGCATTGAGATTTA
1 TCGCATTGCGATTTA
24832 GGAAAATCGC
Statistics
Matches: 33, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
20 33 1.00
ACGTcount: A:0.24, C:0.18, G:0.22, T:0.36
Consensus pattern (20 bp):
TCGCATTGCGATTTACGTAA
Found at i:24841 original size:21 final size:20
Alignment explanation
Indices: 24786--24842 Score: 69
Period size: 20 Copynumber: 2.8 Consensus size: 20
24776 TTCGCGTTGC
* *
24786 GATTTACGTAATCGCATTGC
1 GATTTACGAAATCGCATTGA
*
24806 GATTTACGTAATCGCATTGA
1 GATTTACGAAATCGCATTGA
*
24826 GATTTAGGAAAATCGCA
1 GATTTACG-AAATCGCA
24843 ACACCTAAAT
Statistics
Matches: 33, Mismatches: 3, Indels: 1
0.89 0.08 0.03
Matches are distributed among these distances:
20 26 0.79
21 7 0.21
ACGTcount: A:0.32, C:0.16, G:0.21, T:0.32
Consensus pattern (20 bp):
GATTTACGAAATCGCATTGA
Found at i:25422 original size:2 final size:2
Alignment explanation
Indices: 25417--25442 Score: 52
Period size: 2 Copynumber: 13.0 Consensus size: 2
25407 ATAAAAAATA
25417 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
25443 TTAAATATAC
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 24 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:28620 original size:15 final size:15
Alignment explanation
Indices: 28583--28626 Score: 52
Period size: 15 Copynumber: 2.8 Consensus size: 15
28573 TGAATTGGAT
* *
28583 TTAAAATTTATAAAAT
1 TTAAAAATTA-AAAAG
28599 TTGAAAAATTAAAAAG
1 TT-AAAAATTAAAAAG
28615 TTAAAAATTAAA
1 TTAAAAATTAAA
28627 CCGATGTTTT
Statistics
Matches: 25, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
15 10 0.40
16 8 0.32
17 7 0.28
ACGTcount: A:0.61, C:0.00, G:0.05, T:0.34
Consensus pattern (15 bp):
TTAAAAATTAAAAAG
Found at i:32172 original size:20 final size:20
Alignment explanation
Indices: 32149--32186 Score: 58
Period size: 20 Copynumber: 1.9 Consensus size: 20
32139 AAATTTTAAT
* *
32149 TTTATTTGATAAAGTTAAAA
1 TTTAATTGAAAAAGTTAAAA
32169 TTTAATTGAAAAAGTTAA
1 TTTAATTGAAAAAGTTAA
32187 TATAAAGATT
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
20 16 1.00
ACGTcount: A:0.47, C:0.00, G:0.11, T:0.42
Consensus pattern (20 bp):
TTTAATTGAAAAAGTTAAAA
Found at i:32810 original size:21 final size:20
Alignment explanation
Indices: 32786--32824 Score: 51
Period size: 21 Copynumber: 1.9 Consensus size: 20
32776 AATTTAATAG
32786 AATACATAATTAATAAAAACA
1 AATACATAATT-ATAAAAACA
* *
32807 AATATATTATTATAAAAA
1 AATACATAATTATAAAAA
32825 TTGTTTAATT
Statistics
Matches: 16, Mismatches: 2, Indels: 1
0.84 0.11 0.05
Matches are distributed among these distances:
20 7 0.44
21 9 0.56
ACGTcount: A:0.64, C:0.05, G:0.00, T:0.31
Consensus pattern (20 bp):
AATACATAATTATAAAAACA
Found at i:32915 original size:25 final size:25
Alignment explanation
Indices: 32887--32949 Score: 126
Period size: 25 Copynumber: 2.5 Consensus size: 25
32877 ATCTGATTGA
32887 AATCAAATTGAAAGTCTAGTAACCT
1 AATCAAATTGAAAGTCTAGTAACCT
32912 AATCAAATTGAAAGTCTAGTAACCT
1 AATCAAATTGAAAGTCTAGTAACCT
32937 AATCAAATTGAAA
1 AATCAAATTGAAA
32950 TCAAATTTTG
Statistics
Matches: 38, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
25 38 1.00
ACGTcount: A:0.48, C:0.14, G:0.11, T:0.27
Consensus pattern (25 bp):
AATCAAATTGAAAGTCTAGTAACCT
Found at i:48111 original size:10 final size:10
Alignment explanation
Indices: 48082--48150 Score: 72
Period size: 10 Copynumber: 7.1 Consensus size: 10
48072 GCTGCTGGAA
48082 AACCGGTTTG
1 AACCGGTTTG
*
48092 -ACCAGTTTTG
1 AACC-GGTTTG
48102 AACCGGTTTG
1 AACCGGTTTG
*
48112 -ACCGGTTCG
1 AACCGGTTTG
48121 AACCGGTTTG
1 AACCGGTTTG
*
48131 -ACCGGTCTG
1 AACCGGTTTG
*
48140 AACCGGGTTG
1 AACCGGTTTG
48150 A
1 A
48151 CCCGACCAGA
Statistics
Matches: 48, Mismatches: 7, Indels: 8
0.76 0.11 0.13
Matches are distributed among these distances:
9 19 0.40
10 26 0.54
11 3 0.06
ACGTcount: A:0.19, C:0.23, G:0.30, T:0.28
Consensus pattern (10 bp):
AACCGGTTTG
Found at i:48125 original size:19 final size:19
Alignment explanation
Indices: 48082--48152 Score: 90
Period size: 19 Copynumber: 3.7 Consensus size: 19
48072 GCTGCTGGAA
* *
48082 AACCGGTTTGACCAGTTTTG
1 AACCGGTTTGACC-GGTTCG
48102 AACCGGTTTGACCGGTTCG
1 AACCGGTTTGACCGGTTCG
48121 AACCGGTTTGACCGG-TCTG
1 AACCGGTTTGACCGGTTC-G
*
48140 AACCGGGTTGACC
1 AACCGGTTTGACC
48153 CGACCAGACT
Statistics
Matches: 47, Mismatches: 3, Indels: 3
0.89 0.06 0.06
Matches are distributed among these distances:
18 2 0.04
19 32 0.68
20 13 0.28
ACGTcount: A:0.18, C:0.25, G:0.30, T:0.27
Consensus pattern (19 bp):
AACCGGTTTGACCGGTTCG
Found at i:48168 original size:17 final size:17
Alignment explanation
Indices: 48146--48203 Score: 98
Period size: 17 Copynumber: 3.4 Consensus size: 17
48136 TCTGAACCGG
* *
48146 GTTGACCCGACCAGACT
1 GTTGACCCGACCCGACC
48163 GTTGACCCGACCCGACC
1 GTTGACCCGACCCGACC
48180 GTTGACCCGACCCGACC
1 GTTGACCCGACCCGACC
48197 GTTGACC
1 GTTGACC
48204 GTTGACCGTG
Statistics
Matches: 39, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
17 39 1.00
ACGTcount: A:0.19, C:0.41, G:0.24, T:0.16
Consensus pattern (17 bp):
GTTGACCCGACCCGACC
Found at i:48203 original size:7 final size:7
Alignment explanation
Indices: 48193--48229 Score: 67
Period size: 7 Copynumber: 5.4 Consensus size: 7
48183 GACCCGACCC
48193 GACCGTT
1 GACCGTT
48200 GACCGTT
1 GACCGTT
48207 GACCG-T
1 GACCGTT
48213 GACCGTT
1 GACCGTT
48220 GACCGTT
1 GACCGTT
48227 GAC
1 GAC
48230 TTTCTTTGAC
Statistics
Matches: 29, Mismatches: 0, Indels: 2
0.94 0.00 0.06
Matches are distributed among these distances:
6 6 0.21
7 23 0.79
ACGTcount: A:0.16, C:0.30, G:0.30, T:0.24
Consensus pattern (7 bp):
GACCGTT
Found at i:48217 original size:13 final size:13
Alignment explanation
Indices: 48193--48225 Score: 57
Period size: 13 Copynumber: 2.5 Consensus size: 13
48183 GACCCGACCC
48193 GACCGTTGACCGTT
1 GACCG-TGACCGTT
48207 GACCGTGACCGTT
1 GACCGTGACCGTT
48220 GACCGT
1 GACCGT
48226 TGACTTTCTT
Statistics
Matches: 19, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
13 14 0.74
14 5 0.26
ACGTcount: A:0.15, C:0.30, G:0.30, T:0.24
Consensus pattern (13 bp):
GACCGTGACCGTT
Found at i:55425 original size:10 final size:10
Alignment explanation
Indices: 55396--55464 Score: 72
Period size: 10 Copynumber: 7.1 Consensus size: 10
55386 GCTGCTGGAA
55396 AACCGGTTTG
1 AACCGGTTTG
*
55406 -ACCAGTTTTG
1 AACC-GGTTTG
55416 AACCGGTTTG
1 AACCGGTTTG
*
55426 -ACCGGTTCG
1 AACCGGTTTG
55435 AACCGGTTTG
1 AACCGGTTTG
*
55445 -ACCGGTCTG
1 AACCGGTTTG
*
55454 AACCGGGTTG
1 AACCGGTTTG
55464 A
1 A
55465 CCCGACCCGA
Statistics
Matches: 48, Mismatches: 7, Indels: 8
0.76 0.11 0.13
Matches are distributed among these distances:
9 19 0.40
10 26 0.54
11 3 0.06
ACGTcount: A:0.19, C:0.23, G:0.30, T:0.28
Consensus pattern (10 bp):
AACCGGTTTG
Found at i:55439 original size:19 final size:19
Alignment explanation
Indices: 55396--55466 Score: 90
Period size: 19 Copynumber: 3.7 Consensus size: 19
55386 GCTGCTGGAA
* *
55396 AACCGGTTTGACCAGTTTTG
1 AACCGGTTTGACC-GGTTCG
55416 AACCGGTTTGACCGGTTCG
1 AACCGGTTTGACCGGTTCG
55435 AACCGGTTTGACCGG-TCTG
1 AACCGGTTTGACCGGTTC-G
*
55454 AACCGGGTTGACC
1 AACCGGTTTGACC
55467 CGACCCGACT
Statistics
Matches: 47, Mismatches: 3, Indels: 3
0.89 0.06 0.06
Matches are distributed among these distances:
18 2 0.04
19 32 0.68
20 13 0.28
ACGTcount: A:0.18, C:0.25, G:0.30, T:0.27
Consensus pattern (19 bp):
AACCGGTTTGACCGGTTCG
Found at i:55482 original size:17 final size:17
Alignment explanation
Indices: 55460--55500 Score: 73
Period size: 17 Copynumber: 2.4 Consensus size: 17
55450 TCTGAACCGG
*
55460 GTTGACCCGACCCGACT
1 GTTGACCCGACCCGACC
55477 GTTGACCCGACCCGACC
1 GTTGACCCGACCCGACC
55494 GTTGACC
1 GTTGACC
55501 GTTGACCGTG
Statistics
Matches: 23, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
17 23 1.00
ACGTcount: A:0.17, C:0.41, G:0.24, T:0.17
Consensus pattern (17 bp):
GTTGACCCGACCCGACC
Found at i:55502 original size:7 final size:7
Alignment explanation
Indices: 55490--55539 Score: 77
Period size: 7 Copynumber: 7.4 Consensus size: 7
55480 GACCCGACCC
55490 GACCGTT
1 GACCGTT
55497 GACCGTT
1 GACCGTT
55504 GACCG-T
1 GACCGTT
55510 GACCGTT
1 GACCGTT
55517 GACCG-T
1 GACCGTT
55523 GACCGTT
1 GACCGTT
*
55530 GATCGTT
1 GACCGTT
55537 GAC
1 GAC
55540 TTTCTTTGAC
Statistics
Matches: 39, Mismatches: 2, Indels: 4
0.87 0.04 0.09
Matches are distributed among these distances:
6 12 0.31
7 27 0.69
ACGTcount: A:0.16, C:0.28, G:0.30, T:0.26
Consensus pattern (7 bp):
GACCGTT
Found at i:55514 original size:13 final size:13
Alignment explanation
Indices: 55490--55531 Score: 75
Period size: 13 Copynumber: 3.2 Consensus size: 13
55480 GACCCGACCC
55490 GACCGTTGACCGTT
1 GACCG-TGACCGTT
55504 GACCGTGACCGTT
1 GACCGTGACCGTT
55517 GACCGTGACCGTT
1 GACCGTGACCGTT
55530 GA
1 GA
55532 TCGTTGACTT
Statistics
Matches: 28, Mismatches: 0, Indels: 1
0.97 0.00 0.03
Matches are distributed among these distances:
13 23 0.82
14 5 0.18
ACGTcount: A:0.17, C:0.29, G:0.31, T:0.24
Consensus pattern (13 bp):
GACCGTGACCGTT
Found at i:55515 original size:20 final size:20
Alignment explanation
Indices: 55490--55539 Score: 75
Period size: 20 Copynumber: 2.5 Consensus size: 20
55480 GACCCGACCC
55490 GACCGTTGACCGTTGACCG-T
1 GACCGTTGACCG-TGACCGTT
55510 GACCGTTGACCGTGACCGTT
1 GACCGTTGACCGTGACCGTT
*
55530 GATCGTTGAC
1 GACCGTTGAC
55540 TTTCTTTGAC
Statistics
Matches: 28, Mismatches: 1, Indels: 2
0.90 0.03 0.06
Matches are distributed among these distances:
19 6 0.21
20 22 0.79
ACGTcount: A:0.16, C:0.28, G:0.30, T:0.26
Consensus pattern (20 bp):
GACCGTTGACCGTGACCGTT
Found at i:57312 original size:16 final size:16
Alignment explanation
Indices: 57291--57324 Score: 50
Period size: 16 Copynumber: 2.1 Consensus size: 16
57281 AATACTTTAT
57291 ATTTAAATTTAAATAA
1 ATTTAAATTTAAATAA
* *
57307 ATTTAATTTTCAATAA
1 ATTTAAATTTAAATAA
57323 AT
1 AT
57325 AATAATTCAT
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
16 16 1.00
ACGTcount: A:0.50, C:0.03, G:0.00, T:0.47
Consensus pattern (16 bp):
ATTTAAATTTAAATAA
Found at i:62270 original size:29 final size:29
Alignment explanation
Indices: 62227--62309 Score: 139
Period size: 29 Copynumber: 2.8 Consensus size: 29
62217 CTCACCTAAC
62227 TAAATTGATGTAAGCAATGACATCATTAAT
1 TAAA-TGATGTAAGCAATGACATCATTAAT
*
62257 TAAATGATGTAAGCAATGACATCTTTAAT
1 TAAATGATGTAAGCAATGACATCATTAAT
*
62286 TAAATGATGTAAGTAATGACATCA
1 TAAATGATGTAAGCAATGACATCA
62310 ATTTAGTTTG
Statistics
Matches: 50, Mismatches: 3, Indels: 1
0.93 0.06 0.02
Matches are distributed among these distances:
29 46 0.92
30 4 0.08
ACGTcount: A:0.43, C:0.10, G:0.14, T:0.33
Consensus pattern (29 bp):
TAAATGATGTAAGCAATGACATCATTAAT
Found at i:66976 original size:29 final size:29
Alignment explanation
Indices: 66933--67015 Score: 139
Period size: 29 Copynumber: 2.8 Consensus size: 29
66923 CTCACCTAAC
66933 TAAATTGATGTAAGCAATGACATCATTAAT
1 TAAA-TGATGTAAGCAATGACATCATTAAT
*
66963 TAAATGATGTAAGCAATGACATCTTTAAT
1 TAAATGATGTAAGCAATGACATCATTAAT
*
66992 TAAATGATGTAAGTAATGACATCA
1 TAAATGATGTAAGCAATGACATCA
67016 ATTTAGTTTG
Statistics
Matches: 50, Mismatches: 3, Indels: 1
0.93 0.06 0.02
Matches are distributed among these distances:
29 46 0.92
30 4 0.08
ACGTcount: A:0.43, C:0.10, G:0.14, T:0.33
Consensus pattern (29 bp):
TAAATGATGTAAGCAATGACATCATTAAT
Found at i:74310 original size:24 final size:20
Alignment explanation
Indices: 74278--74335 Score: 62
Period size: 20 Copynumber: 2.7 Consensus size: 20
74268 ATGCAATTAG
*
74278 TGCATCGATGCACATGTAAAGGGA
1 TGCATCGATGCAC-TGT--A-GAA
*
74302 TGCATCGATACACTGTAGAA
1 TGCATCGATGCACTGTAGAA
74322 TGCATCGATGCACT
1 TGCATCGATGCACT
74336 TCAAGGGAAA
Statistics
Matches: 31, Mismatches: 3, Indels: 4
0.82 0.08 0.11
Matches are distributed among these distances:
20 15 0.48
21 1 0.03
23 3 0.10
24 12 0.39
ACGTcount: A:0.31, C:0.21, G:0.24, T:0.24
Consensus pattern (20 bp):
TGCATCGATGCACTGTAGAA
Found at i:77247 original size:24 final size:24
Alignment explanation
Indices: 77220--77326 Score: 74
Period size: 24 Copynumber: 4.5 Consensus size: 24
77210 AAACTGAGAT
*
77220 ATCAGAAATCAAAACATAATTCAG
1 ATCAGAAATCAAAACATAATTCAA
* * *
77244 ATCAGATATCAGAACATAA-TCTAG
1 ATCAGAAATCAAAACATAATTC-AA
* * * * * *
77268 GTTAGGAATCAGAATAGT-CTTCAA
1 ATCAGAAATCAAAACA-TAATTCAA
**
77292 ATCAGATGTCAAAACATAATTCAA
1 ATCAGAAATCAAAACATAATTCAA
77316 ATCAGAAATCA
1 ATCAGAAATCA
77327 GATAAAATAT
Statistics
Matches: 60, Mismatches: 19, Indels: 8
0.69 0.22 0.09
Matches are distributed among these distances:
23 3 0.05
24 54 0.90
25 3 0.05
ACGTcount: A:0.48, C:0.16, G:0.12, T:0.24
Consensus pattern (24 bp):
ATCAGAAATCAAAACATAATTCAA
Found at i:81237 original size:19 final size:19
Alignment explanation
Indices: 81213--81263 Score: 93
Period size: 19 Copynumber: 2.7 Consensus size: 19
81203 ACCAACTAAA
*
81213 TCGCAATGCGATCGATAAT
1 TCGCAACGCGATCGATAAT
81232 TCGCAACGCGATCGATAAT
1 TCGCAACGCGATCGATAAT
81251 TCGCAACGCGATC
1 TCGCAACGCGATC
81264 TTCGGTATCG
Statistics
Matches: 31, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
19 31 1.00
ACGTcount: A:0.29, C:0.27, G:0.22, T:0.22
Consensus pattern (19 bp):
TCGCAACGCGATCGATAAT
Found at i:81402 original size:42 final size:42
Alignment explanation
Indices: 81356--81662 Score: 515
Period size: 42 Copynumber: 7.3 Consensus size: 42
81346 TCCAAGTTCG
81356 CGTTGCGATAGTCGAAGTTCGCGTTGCGATTTATTCCAAATT
1 CGTTGCGATAGTCGAAGTTCGCGTTGCGATTTATTCCAAATT
* *
81398 CGTTGCGATAGTCCAAGTTCGCGTTGCGATTTATTCCAAGTT
1 CGTTGCGATAGTCGAAGTTCGCGTTGCGATTTATTCCAAATT
*
81440 CGTTGCGATAGTCGAAGTTCGCGTTGTGATTTATTCCAAATT
1 CGTTGCGATAGTCGAAGTTCGCGTTGCGATTTATTCCAAATT
* *
81482 CGTTGCGATAGTCCAAGTTCGCGTTGCGATTTATTCCAAGTT
1 CGTTGCGATAGTCGAAGTTCGCGTTGCGATTTATTCCAAATT
81524 CGTTGCGATAGTCGAAGTTCGCGTTGCGATTTATTCCAAATT
1 CGTTGCGATAGTCGAAGTTCGCGTTGCGATTTATTCCAAATT
* * *
81566 TGTTGCGATAGTCCAAGTTCGCGTTGCGATTTATTCCAAGTT
1 CGTTGCGATAGTCGAAGTTCGCGTTGCGATTTATTCCAAATT
* *
81608 CGTTGTGATAGTCGAAGTTCGCGTTGTGATTTATTCCAAATT
1 CGTTGCGATAGTCGAAGTTCGCGTTGCGATTTATTCCAAATT
*
81650 CATTGCGATAGTC
1 CGTTGCGATAGTC
81663 CAAAATCGCA
Statistics
Matches: 245, Mismatches: 20, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
42 245 1.00
ACGTcount: A:0.21, C:0.19, G:0.24, T:0.37
Consensus pattern (42 bp):
CGTTGCGATAGTCGAAGTTCGCGTTGCGATTTATTCCAAATT
Found at i:81444 original size:84 final size:84
Alignment explanation
Indices: 81346--81665 Score: 577
Period size: 84 Copynumber: 3.8 Consensus size: 84
81336 ATTGCGATAG
81346 TCCAAGTTCGCGTTGCGATAGTCGAAGTTCGCGTTGCGATTTATTCCAAATTCGTTGCGATAGTC
1 TCCAAGTT--CGTTGCGATAGTCGAAGTTCGCGTTGCGATTTATTCCAAATTCGTTGCGATAGTC
81411 CAAGTTCGCGTTGCGATTTAT
64 CAAGTTCGCGTTGCGATTTAT
*
81432 TCCAAGTTCGTTGCGATAGTCGAAGTTCGCGTTGTGATTTATTCCAAATTCGTTGCGATAGTCCA
1 TCCAAGTTCGTTGCGATAGTCGAAGTTCGCGTTGCGATTTATTCCAAATTCGTTGCGATAGTCCA
81497 AGTTCGCGTTGCGATTTAT
66 AGTTCGCGTTGCGATTTAT
*
81516 TCCAAGTTCGTTGCGATAGTCGAAGTTCGCGTTGCGATTTATTCCAAATTTGTTGCGATAGTCCA
1 TCCAAGTTCGTTGCGATAGTCGAAGTTCGCGTTGCGATTTATTCCAAATTCGTTGCGATAGTCCA
81581 AGTTCGCGTTGCGATTTAT
66 AGTTCGCGTTGCGATTTAT
* * *
81600 TCCAAGTTCGTTGTGATAGTCGAAGTTCGCGTTGTGATTTATTCCAAATTCATTGCGATAGTCCA
1 TCCAAGTTCGTTGCGATAGTCGAAGTTCGCGTTGCGATTTATTCCAAATTCGTTGCGATAGTCCA
81665 A
66 A
81666 AATCGCAACG
Statistics
Matches: 227, Mismatches: 7, Indels: 2
0.96 0.03 0.01
Matches are distributed among these distances:
84 219 0.96
86 8 0.04
ACGTcount: A:0.21, C:0.19, G:0.23, T:0.36
Consensus pattern (84 bp):
TCCAAGTTCGTTGCGATAGTCGAAGTTCGCGTTGCGATTTATTCCAAATTCGTTGCGATAGTCCA
AGTTCGCGTTGCGATTTAT
Found at i:82282 original size:12 final size:11
Alignment explanation
Indices: 82252--82285 Score: 52
Period size: 12 Copynumber: 3.1 Consensus size: 11
82242 TCGTCTCGTA
82252 TCGGGTCG-GG
1 TCGGGTCGTGG
82262 TCGGGTCGTGG
1 TCGGGTCGTGG
82273 TCGTGGTCGTGG
1 TCG-GGTCGTGG
82285 T
1 T
82286 AATACGTGTC
Statistics
Matches: 22, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
10 8 0.36
11 5 0.23
12 9 0.41
ACGTcount: A:0.00, C:0.18, G:0.53, T:0.29
Consensus pattern (11 bp):
TCGGGTCGTGG
Found at i:82407 original size:21 final size:21
Alignment explanation
Indices: 82381--82431 Score: 93
Period size: 21 Copynumber: 2.4 Consensus size: 21
82371 ATTTTGGACT
82381 ATCACAACGAATTTGGAATAA
1 ATCACAACGAATTTGGAATAA
82402 ATCACAACGAATTTGGAATAA
1 ATCACAACGAATTTGGAATAA
*
82423 ATCGCAACG
1 ATCACAACG
82432 CGAACTTCGA
Statistics
Matches: 29, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
21 29 1.00
ACGTcount: A:0.45, C:0.18, G:0.16, T:0.22
Consensus pattern (21 bp):
ATCACAACGAATTTGGAATAA
Found at i:82565 original size:90 final size:90
Alignment explanation
Indices: 82409--82656 Score: 313
Period size: 90 Copynumber: 2.7 Consensus size: 90
82399 TAAATCACAA
82409 CGAATTTGGAATAAATCGCAACGCGAACTTCGACTATCGCAATGCGAATATGTAAATCGCAATGC
1 CGAATTTGG-A-AAATCGCAACGCGAACTTCGACTATCGCAATGCGAATATGTAAATCGCAATGC
* *
82474 GATAGTCGAAGTTCGCGTTGCAATAGT
64 GATAGTCGAAATTCGCGTTGCAATAAT
* * * *
82501 CGAATTTGGAAAAGCGCAACGCGAACTTCGACTATCGCACTTCG-AT-T-TACATATTCGCATTG
1 CGAATTTGGAAAATCGCAACGCGAACTTCGACTATCGCAATGCGAATATGTA-A-A-TCGCAATG
**
82563 CGATAGTCGAAATTCGCGTTGTGATAAT
63 CGATAGTCGAAATTCGCGTTGCAATAAT
* * * *
82591 CGAATTTGAAAAATCGCAACGCGAACTTCGACTATCGCAATGCGAATTTGGACTATCGCAATGCG
1 CGAATTTGGAAAATCGCAACGCGAACTTCGACTATCGCAATGCGAATATGTA-AATCGCAATGCG
82656 A
65 A
82657 ATATGTAAAT
Statistics
Matches: 135, Mismatches: 15, Indels: 13
0.83 0.09 0.08
Matches are distributed among these distances:
87 2 0.01
88 2 0.01
89 3 0.02
90 102 0.76
91 13 0.10
92 11 0.08
93 2 0.01
ACGTcount: A:0.31, C:0.21, G:0.22, T:0.26
Consensus pattern (90 bp):
CGAATTTGGAAAATCGCAACGCGAACTTCGACTATCGCAATGCGAATATGTAAATCGCAATGCGA
TAGTCGAAATTCGCGTTGCAATAAT
Found at i:82579 original size:21 final size:21
Alignment explanation
Indices: 82553--82594 Score: 57
Period size: 21 Copynumber: 2.0 Consensus size: 21
82543 CGATTTACAT
*
82553 ATTCGCATTGCGATAGTCGAA
1 ATTCGCATTGCGATAATCGAA
* *
82574 ATTCGCGTTGTGATAATCGAA
1 ATTCGCATTGCGATAATCGAA
82595 TTTGAAAAAT
Statistics
Matches: 18, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
21 18 1.00
ACGTcount: A:0.29, C:0.17, G:0.24, T:0.31
Consensus pattern (21 bp):
ATTCGCATTGCGATAATCGAA
Found at i:82658 original size:21 final size:21
Alignment explanation
Indices: 82603--82658 Score: 85
Period size: 21 Copynumber: 2.7 Consensus size: 21
82593 AATTTGAAAA
* *
82603 ATCGCAACGCGAACTTCGACT
1 ATCGCAATGCGAATTTCGACT
*
82624 ATCGCAATGCGAATTTGGACT
1 ATCGCAATGCGAATTTCGACT
82645 ATCGCAATGCGAAT
1 ATCGCAATGCGAAT
82659 ATGTAAATCG
Statistics
Matches: 32, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
21 32 1.00
ACGTcount: A:0.30, C:0.25, G:0.21, T:0.23
Consensus pattern (21 bp):
ATCGCAATGCGAATTTCGACT
Found at i:85409 original size:20 final size:20
Alignment explanation
Indices: 85335--85410 Score: 82
Period size: 20 Copynumber: 3.8 Consensus size: 20
85325 GTTTCCAGAT
*
85335 TCGCAACGCGATTTTGACTA
1 TCGCAACGCGATTCTGACTA
* **
85355 TCGCAACACGATAAT-ACATAA
1 TCGCAACGCGATTCTGAC-T-A
85376 TCGCAACGCGATTCTGACTA
1 TCGCAACGCGATTCTGACTA
*
85396 TCGCAATGCGATTCT
1 TCGCAACGCGATTCT
85411 TACTGTCACA
Statistics
Matches: 46, Mismatches: 7, Indels: 6
0.78 0.12 0.10
Matches are distributed among these distances:
19 2 0.04
20 28 0.61
21 14 0.30
22 2 0.04
ACGTcount: A:0.30, C:0.26, G:0.17, T:0.26
Consensus pattern (20 bp):
TCGCAACGCGATTCTGACTA
Found at i:86293 original size:24 final size:24
Alignment explanation
Indices: 86236--86295 Score: 66
Period size: 24 Copynumber: 2.5 Consensus size: 24
86226 TAGTCGGTAT
* *
86236 TCGAAATTTGATCTTGGTCAATAC
1 TCGAAATTTGATCATGGTAAATAC
* * *
86260 CCGGACTTTGATCATGGTAAATAC
1 TCGAAATTTGATCATGGTAAATAC
*
86284 TCGAATTTTGAT
1 TCGAAATTTGAT
86296 GATGTTTCAG
Statistics
Matches: 28, Mismatches: 8, Indels: 0
0.78 0.22 0.00
Matches are distributed among these distances:
24 28 1.00
ACGTcount: A:0.28, C:0.17, G:0.18, T:0.37
Consensus pattern (24 bp):
TCGAAATTTGATCATGGTAAATAC
Found at i:88559 original size:18 final size:18
Alignment explanation
Indices: 88536--88570 Score: 61
Period size: 18 Copynumber: 1.9 Consensus size: 18
88526 AGAAAAAGAT
*
88536 AATCAAAATCGCAATCAA
1 AATCAAAATCCCAATCAA
88554 AATCAAAATCCCAATCA
1 AATCAAAATCCCAATCA
88571 TAACCGGCTT
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:0.54, C:0.26, G:0.03, T:0.17
Consensus pattern (18 bp):
AATCAAAATCCCAATCAA
Found at i:88880 original size:140 final size:140
Alignment explanation
Indices: 88628--88910 Score: 539
Period size: 140 Copynumber: 2.0 Consensus size: 140
88618 GCAAACGTTG
*
88628 TATTATGTGTATTTTATGTGTAAACTTTTAACATTTTCAGTTAGGCATGTATTAGTAACTTGAGT
1 TATTATGTGTATTTTATGTGTAAACTTTTAACATTTTCAGTTAGACATGTATTAGTAACTTGAGT
88693 TTGAACATTGCTATGATATGTTCAGTTGTTATCACTTATTACACATTCATTTGAATATCGCAACG
66 TTGAACATTGCTATGATATGTTCAGTTGTTATCACTTATTACACATTCATTTGAATATCGCAACG
*
88758 CGAATTTGAC
131 CGAATTTAAC
88768 TATTATGTGTATTTTATGTGTAAACTTTTAACATTTTCAGTTAGACATGTATTAGTAACTTGAGT
1 TATTATGTGTATTTTATGTGTAAACTTTTAACATTTTCAGTTAGACATGTATTAGTAACTTGAGT
*
88833 TTGAACATTGCTATGATTTGTTCAGTTGTTATCACTTATTACACATTCATTTGAATATCGCAACG
66 TTGAACATTGCTATGATATGTTCAGTTGTTATCACTTATTACACATTCATTTGAATATCGCAACG
88898 CGAATTTAAC
131 CGAATTTAAC
88908 TAT
1 TAT
88911 CGCAACGCGA
Statistics
Matches: 140, Mismatches: 3, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
140 140 1.00
ACGTcount: A:0.29, C:0.13, G:0.15, T:0.43
Consensus pattern (140 bp):
TATTATGTGTATTTTATGTGTAAACTTTTAACATTTTCAGTTAGACATGTATTAGTAACTTGAGT
TTGAACATTGCTATGATATGTTCAGTTGTTATCACTTATTACACATTCATTTGAATATCGCAACG
CGAATTTAAC
Found at i:88911 original size:20 final size:20
Alignment explanation
Indices: 88881--89085 Score: 191
Period size: 20 Copynumber: 10.8 Consensus size: 20
88871 TTACACATTC
*
88881 ATTTGAATATCGCAACGCGA
1 ATTTGACTATCGCAACGCGA
*
88901 ATTTAACTATCGCAACGCGA
1 ATTTGACTATCGCAACGCGA
* *
88921 ATTTGATTATCGCAACTC-A
1 ATTTGACTATCGCAACGCGA
*
88940 A----A-AATCGCAACGCGA
1 ATTTGACTATCGCAACGCGA
88955 ATTTGACTATCGCAACGCGA
1 ATTTGACTATCGCAACGCGA
*
88975 ATATGACTATCGCAACGC-A
1 ATTTGACTATCGCAACGCGA
* *
88994 A----A-AATTGCAACGCGA
1 ATTTGACTATCGCAACGCGA
*
89009 ATTTGACTATCGCAACTCGA
1 ATTTGACTATCGCAACGCGA
* *
89029 ATTTGACTATCGCAATGTGA
1 ATTTGACTATCGCAACGCGA
* * * *
89049 ATTTGATTATCACAACGGGT
1 ATTTGACTATCGCAACGCGA
89069 ATTTGACTATCGCAACG
1 ATTTGACTATCGCAACG
89086 ATAAAATCGC
Statistics
Matches: 149, Mismatches: 24, Indels: 24
0.76 0.12 0.12
Matches are distributed among these distances:
14 18 0.12
15 6 0.04
19 6 0.04
20 119 0.80
ACGTcount: A:0.34, C:0.22, G:0.18, T:0.26
Consensus pattern (20 bp):
ATTTGACTATCGCAACGCGA
Found at i:88971 original size:54 final size:54
Alignment explanation
Indices: 88889--89043 Score: 256
Period size: 54 Copynumber: 2.9 Consensus size: 54
88879 TCATTTGAAT
* * *
88889 ATCGCAACGCGAATTTAACTATCGCAACGCGAATTTGATTATCGCAACTCAAAA
1 ATCGCAACGCGAATTTGACTATCGCAACGCGAATTTGACTATCGCAACGCAAAA
*
88943 ATCGCAACGCGAATTTGACTATCGCAACGCGAATATGACTATCGCAACGCAAAA
1 ATCGCAACGCGAATTTGACTATCGCAACGCGAATTTGACTATCGCAACGCAAAA
* *
88997 ATTGCAACGCGAATTTGACTATCGCAACTCGAATTTGACTATCGCAA
1 ATCGCAACGCGAATTTGACTATCGCAACGCGAATTTGACTATCGCAA
89044 TGTGAATTTG
Statistics
Matches: 94, Mismatches: 7, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
54 94 1.00
ACGTcount: A:0.35, C:0.25, G:0.17, T:0.23
Consensus pattern (54 bp):
ATCGCAACGCGAATTTGACTATCGCAACGCGAATTTGACTATCGCAACGCAAAA
Found at i:88971 original size:74 final size:73
Alignment explanation
Indices: 88881--89134 Score: 228
Period size: 74 Copynumber: 3.5 Consensus size: 73
88871 TTACACATTC
* *
88881 ATTTGAATATCGCAACGCGAATTTAACTATCGCAACGCGAATTTGATTATCGCAACTCAAAAATC
1 ATTTGACTATCGCAACGCGAATTTGACTATCGCAACGCGAATTTGA-TATCGCAACTCAAAAATC
88946 GCAACGCGA
65 GCAACGCGA
* * * * ** **
88955 ATTTGACTATCGCAACGCGAATATGACTATCGCAACGCAAAAATTGCA-A-CGCGAATTTGACTA
1 ATTTGACTATCGCAACGCGAATTTGACTATCGCAACGC-GAATTTG-ATATCGC-AACTCAAAAA
*
89018 TCGCAACTCGA
63 TCGCAACGCGA
* * * * * * *
89029 ATTTGACTATCGCAATGTGAATTTGATTATCACAACGGGTATTTGACTATCGCAAC-GATAAAAT
1 ATTTGACTATCGCAACGCGAATTTGACTATCGCAACGCGAATTTGA-TATCGCAACTCA-AAAAT
* *
89093 CGCAAAGCGT
64 CGCAACGCGA
* *
89103 ATTAGACTATCGCAACGCGAA-TTGACTTTCGC
1 ATTTGACTATCGCAACGCGAATTTGACTATCGC
89135 GTTGCGATTT
Statistics
Matches: 139, Mismatches: 34, Indels: 15
0.74 0.18 0.08
Matches are distributed among these distances:
72 1 0.01
73 15 0.11
74 114 0.82
75 8 0.06
76 1 0.01
ACGTcount: A:0.34, C:0.22, G:0.18, T:0.26
Consensus pattern (73 bp):
ATTTGACTATCGCAACGCGAATTTGACTATCGCAACGCGAATTTGATATCGCAACTCAAAAATCG
CAACGCGA
Found at i:89134 original size:19 final size:20
Alignment explanation
Indices: 88943--89134 Score: 70
Period size: 20 Copynumber: 10.2 Consensus size: 20
88933 CAACTCAAAA
* *
88943 ATCGCAACGCGAATTTGACT
1 ATCGCAAAGCGAATTAGACT
*
88963 ATCGCAACGCGAA-TATGACT
1 ATCGCAAAGCGAATTA-GACT
*
88983 ATCGCAACGC-AA--A-A--
1 ATCGCAAAGCGAATTAGACT
* * *
88997 ATTGCAACGCGAATTTGACT
1 ATCGCAAAGCGAATTAGACT
** *
89017 ATCGCAACTCGAATTTGACT
1 ATCGCAAAGCGAATTAGACT
* * * *
89037 ATCGCAATGTGAATTTGATT
1 ATCGCAAAGCGAATTAGACT
* * * * *
89057 ATCACAACGGGTATTTGACT
1 ATCGCAAAGCGAATTAGACT
*
89077 ATCGC-AA-CG-A-TA-A-A
1 ATCGCAAAGCGAATTAGACT
*
89091 ATCGCAAAGCGTATTAGACT
1 ATCGCAAAGCGAATTAGACT
*
89111 ATCGCAACGCGAATT-GACT
1 ATCGCAAAGCGAATTAGACT
*
89130 TTCGC
1 ATCGC
89135 GTTGCGATTT
Statistics
Matches: 136, Mismatches: 23, Indels: 27
0.73 0.12 0.15
Matches are distributed among these distances:
14 14 0.10
15 5 0.04
16 4 0.03
17 2 0.01
18 5 0.04
19 13 0.10
20 93 0.68
ACGTcount: A:0.33, C:0.22, G:0.19, T:0.26
Consensus pattern (20 bp):
ATCGCAAAGCGAATTAGACT
Found at i:89153 original size:20 final size:20
Alignment explanation
Indices: 89128--89166 Score: 69
Period size: 20 Copynumber: 1.9 Consensus size: 20
89118 CGCGAATTGA
*
89128 CTTTCGCGTTGCGATTTTGG
1 CTTTCGCATTGCGATTTTGG
89148 CTTTCGCATTGCGATTTTG
1 CTTTCGCATTGCGATTTTG
89167 AGTTTAGCGT
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
20 18 1.00
ACGTcount: A:0.08, C:0.21, G:0.26, T:0.46
Consensus pattern (20 bp):
CTTTCGCATTGCGATTTTGG
Found at i:89322 original size:14 final size:14
Alignment explanation
Indices: 89303--89334 Score: 55
Period size: 14 Copynumber: 2.3 Consensus size: 14
89293 TCAATATTAA
89303 ACAAATCAACTTTT
1 ACAAATCAACTTTT
*
89317 ACAAATCAATTTTT
1 ACAAATCAACTTTT
89331 ACAA
1 ACAA
89335 GCAAAAAATT
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:0.47, C:0.19, G:0.00, T:0.34
Consensus pattern (14 bp):
ACAAATCAACTTTT
Found at i:90784 original size:21 final size:21
Alignment explanation
Indices: 90737--90841 Score: 84
Period size: 21 Copynumber: 5.0 Consensus size: 21
90727 TTAAATGGTA
* *
90737 GGAGGGACCTCTTCAACGATG
1 GGAGGGGCCTCTTGAACGATG
** *
90758 ACAGGGGCCTCTTGAACGGTG
1 GGAGGGGCCTCTTGAACGATG
* ** *
90779 GGAGGGGACTCTTGAGGGAAG
1 GGAGGGGCCTCTTGAACGATG
** *
90800 ATAGGGGCCTCTTGAACGATA
1 GGAGGGGCCTCTTGAACGATG
**
90821 GGAGAAGCCTCTTGAACGATG
1 GGAGGGGCCTCTTGAACGATG
90842 ACAGGTGAGT
Statistics
Matches: 60, Mismatches: 24, Indels: 0
0.71 0.29 0.00
Matches are distributed among these distances:
21 60 1.00
ACGTcount: A:0.25, C:0.19, G:0.37, T:0.19
Consensus pattern (21 bp):
GGAGGGGCCTCTTGAACGATG
Found at i:91383 original size:20 final size:20
Alignment explanation
Indices: 91358--91403 Score: 83
Period size: 20 Copynumber: 2.3 Consensus size: 20
91348 AACTTAAATT
91358 GCAACGCGAAAATGACTATC
1 GCAACGCGAAAATGACTATC
*
91378 GCAACGCGGAAATGACTATC
1 GCAACGCGAAAATGACTATC
91398 GCAACG
1 GCAACG
91404 GGATAATCGC
Statistics
Matches: 25, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
20 25 1.00
ACGTcount: A:0.37, C:0.26, G:0.24, T:0.13
Consensus pattern (20 bp):
GCAACGCGAAAATGACTATC
Found at i:91558 original size:20 final size:20
Alignment explanation
Indices: 91533--91601 Score: 86
Period size: 20 Copynumber: 3.5 Consensus size: 20
91523 GCGATTATCC
*
91533 CGTTGCGATAGTCAACTTCG
1 CGTTGCGATAGTCAATTTCG
91553 CGTTGCGATAGTC-ATTTCCG
1 CGTTGCGATAGTCAATTT-CG
* * *
91573 CTTTGTGATAGTCATTTTCG
1 CGTTGCGATAGTCAATTTCG
91593 CGTTGCGAT
1 CGTTGCGAT
91602 TTAAGTTTCG
Statistics
Matches: 41, Mismatches: 6, Indels: 4
0.80 0.12 0.08
Matches are distributed among these distances:
19 3 0.07
20 35 0.85
21 3 0.07
ACGTcount: A:0.16, C:0.22, G:0.25, T:0.38
Consensus pattern (20 bp):
CGTTGCGATAGTCAATTTCG
Found at i:93984 original size:31 final size:31
Alignment explanation
Indices: 93946--94132 Score: 322
Period size: 31 Copynumber: 6.0 Consensus size: 31
93936 CCTGAAGGAC
* * *
93946 CAGTCCATA-GATTCCGAAGAACCTAGGTAAT
1 CAGTCCATATG-TCCCGAAGAACATAGGTAAA
93977 CAGTCCATATGTCCCGAAGAACATAGGTAAA
1 CAGTCCATATGTCCCGAAGAACATAGGTAAA
94008 CAGTCCATATGTCCCGAAGAACATAGGTAAA
1 CAGTCCATATGTCCCGAAGAACATAGGTAAA
94039 CAGTCCATATGTCCCGAAGAACATAGGTAAA
1 CAGTCCATATGTCCCGAAGAACATAGGTAAA
94070 CAGTCCATATGTCCCGAAGAACATAGGTAAA
1 CAGTCCATATGTCCCGAAGAACATAGGTAAA
*
94101 CAGTCCATATGTCTCGAAGAACATAGGTAAA
1 CAGTCCATATGTCCCGAAGAACATAGGTAAA
94132 C
1 C
94133 CCTCGACCCT
Statistics
Matches: 151, Mismatches: 4, Indels: 2
0.96 0.03 0.01
Matches are distributed among these distances:
31 150 0.99
32 1 0.01
ACGTcount: A:0.38, C:0.22, G:0.19, T:0.20
Consensus pattern (31 bp):
CAGTCCATATGTCCCGAAGAACATAGGTAAA
Found at i:94707 original size:19 final size:21
Alignment explanation
Indices: 94665--94707 Score: 63
Period size: 20 Copynumber: 2.1 Consensus size: 21
94655 TTCATAATCA
94665 CATATTCATATAGTTTATTAT
1 CATATTCATATAGTTTATTAT
*
94686 CATA-TCATATGGTTTA-TAT
1 CATATTCATATAGTTTATTAT
94705 CAT
1 CAT
94708 CACAACATAT
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
19 6 0.29
20 11 0.52
21 4 0.19
ACGTcount: A:0.33, C:0.12, G:0.07, T:0.49
Consensus pattern (21 bp):
CATATTCATATAGTTTATTAT
Found at i:95169 original size:21 final size:21
Alignment explanation
Indices: 95145--95189 Score: 56
Period size: 21 Copynumber: 2.1 Consensus size: 21
95135 TTTTGTTCGT
95145 TTGAAGGGGTATCAG-TTCCCC
1 TTGAAGGGGTA-CAGATTCCCC
* *
95166 TTGAATGGGTACCGATTCCCC
1 TTGAAGGGGTACAGATTCCCC
95187 TTG
1 TTG
95190 CCCAGAAATC
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
20 2 0.10
21 19 0.90
ACGTcount: A:0.18, C:0.24, G:0.27, T:0.31
Consensus pattern (21 bp):
TTGAAGGGGTACAGATTCCCC
Found at i:98558 original size:31 final size:31
Alignment explanation
Indices: 98520--98675 Score: 260
Period size: 31 Copynumber: 5.0 Consensus size: 31
98510 CCCGAAGGAC
* * *
98520 CAGTCCATA-GATTCCGAAGAACCTAGGTAAT
1 CAGTCCATATG-TCCCGAAGAACATAGGTAAA
*
98551 CAGTCCATATGTCCCGAAAAACATAGGTAAA
1 CAGTCCATATGTCCCGAAGAACATAGGTAAA
98582 CAGTCCATATGTCCCGAAGAACATAGGTAAA
1 CAGTCCATATGTCCCGAAGAACATAGGTAAA
98613 CAGTCCATATGTCCCGAAGAACATAGGTAAA
1 CAGTCCATATGTCCCGAAGAACATAGGTAAA
98644 CAGTCCATATGTCCCGAAGAACATAGGTAAA
1 CAGTCCATATGTCCCGAAGAACATAGGTAAA
98675 C
1 C
98676 CCTCGACCCT
Statistics
Matches: 119, Mismatches: 5, Indels: 2
0.94 0.04 0.02
Matches are distributed among these distances:
31 118 0.99
32 1 0.01
ACGTcount: A:0.38, C:0.23, G:0.19, T:0.20
Consensus pattern (31 bp):
CAGTCCATATGTCCCGAAGAACATAGGTAAA
Found at i:99713 original size:21 final size:21
Alignment explanation
Indices: 99689--99733 Score: 63
Period size: 21 Copynumber: 2.1 Consensus size: 21
99679 TTTTGTTCGT
* *
99689 TTGAAGGGGTATCGGTTCCCC
1 TTGAAGGGGTACCGATTCCCC
*
99710 TTGAATGGGTACCGATTCCCC
1 TTGAAGGGGTACCGATTCCCC
99731 TTG
1 TTG
99734 CCCAGAAATC
Statistics
Matches: 21, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
21 21 1.00
ACGTcount: A:0.16, C:0.24, G:0.29, T:0.31
Consensus pattern (21 bp):
TTGAAGGGGTACCGATTCCCC
Found at i:103091 original size:31 final size:31
Alignment explanation
Indices: 103056--103242 Score: 322
Period size: 31 Copynumber: 6.0 Consensus size: 31
103046 CCCGAAGGTC
* * *
103056 CAGTCCATA-GATTCCGAAGAACCTAGGTAAT
1 CAGTCCATATG-TCCCGAAGAACATAGGTAAA
103087 CAGTCCATATGTCCCGAAGAACATAGGTAAA
1 CAGTCCATATGTCCCGAAGAACATAGGTAAA
103118 CAGTCCATATGTCCCGAAGAACATAGGTAAA
1 CAGTCCATATGTCCCGAAGAACATAGGTAAA
103149 CAGTCCATATGTCCCGAAGAACATAGGTAAA
1 CAGTCCATATGTCCCGAAGAACATAGGTAAA
103180 CAGTCCATATGTCCCGAAGAACATAGGTAAA
1 CAGTCCATATGTCCCGAAGAACATAGGTAAA
*
103211 CAGTCTATATGTCCCGAAGAACATAGGTAAA
1 CAGTCCATATGTCCCGAAGAACATAGGTAAA
103242 C
1 C
103243 CCTCGACCCT
Statistics
Matches: 151, Mismatches: 4, Indels: 2
0.96 0.03 0.01
Matches are distributed among these distances:
31 150 0.99
32 1 0.01
ACGTcount: A:0.38, C:0.22, G:0.19, T:0.20
Consensus pattern (31 bp):
CAGTCCATATGTCCCGAAGAACATAGGTAAA
Found at i:103474 original size:58 final size:58
Alignment explanation
Indices: 103361--103474 Score: 133
Period size: 58 Copynumber: 2.0 Consensus size: 58
103351 CACATATCTT
* * * * *
103361 TTCTTTTCAGTCACGTATCACATGTACGTGTAATCATTGATCTCATAATCAATGTTCC
1 TTCTCTTCAGTCACATACCACATGTACGTGTAAACATTGATCTAATAATCAATGTTCC
* *
103419 TTCTCTTCTGTCACATACCACATGTATGTGTAAACATAT-ATCTAAT-ATCATATGTT
1 TTCTCTTCAGTCACATACCACATGTACGTGTAAACAT-TGATCTAATAATCA-ATGTT
103475 GCATGTAATC
Statistics
Matches: 47, Mismatches: 7, Indels: 4
0.81 0.12 0.07
Matches are distributed among these distances:
57 4 0.09
58 42 0.89
59 1 0.02
ACGTcount: A:0.28, C:0.21, G:0.11, T:0.40
Consensus pattern (58 bp):
TTCTCTTCAGTCACATACCACATGTACGTGTAAACATTGATCTAATAATCAATGTTCC
Found at i:103817 original size:19 final size:21
Alignment explanation
Indices: 103775--103817 Score: 63
Period size: 20 Copynumber: 2.1 Consensus size: 21
103765 TTCATAATCA
103775 CATATTCATATAGTTTATTAT
1 CATATTCATATAGTTTATTAT
*
103796 CATA-TCATATGGTTTA-TAT
1 CATATTCATATAGTTTATTAT
103815 CAT
1 CAT
103818 CACAACATAT
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
19 6 0.29
20 11 0.52
21 4 0.19
ACGTcount: A:0.33, C:0.12, G:0.07, T:0.49
Consensus pattern (21 bp):
CATATTCATATAGTTTATTAT
Found at i:104277 original size:21 final size:21
Alignment explanation
Indices: 104253--104297 Score: 63
Period size: 21 Copynumber: 2.1 Consensus size: 21
104243 TTTTGTTCGT
* *
104253 TTGAAGGGGTATCGGTTCCCC
1 TTGAAGGGGTACCGATTCCCC
*
104274 TTGAATGGGTACCGATTCCCC
1 TTGAAGGGGTACCGATTCCCC
104295 TTG
1 TTG
104298 CCCAGAAATC
Statistics
Matches: 21, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
21 21 1.00
ACGTcount: A:0.16, C:0.24, G:0.29, T:0.31
Consensus pattern (21 bp):
TTGAAGGGGTACCGATTCCCC
Found at i:105116 original size:19 final size:19
Alignment explanation
Indices: 105092--105142 Score: 66
Period size: 19 Copynumber: 2.6 Consensus size: 19
105082 CGCAACACAA
105092 AAATGACTATCGCAACGCG
1 AAATGACTATCGCAACGCG
**
105111 AAATGAAAATCGCAACGCG
1 AAATGACTATCGCAACGCG
*
105130 AATTTGACTATCG
1 AA-ATGACTATCG
105143 TTGCGATTTT
Statistics
Matches: 26, Mismatches: 5, Indels: 1
0.81 0.16 0.03
Matches are distributed among these distances:
19 19 0.73
20 7 0.27
ACGTcount: A:0.39, C:0.22, G:0.20, T:0.20
Consensus pattern (19 bp):
AAATGACTATCGCAACGCG
Found at i:106641 original size:31 final size:31
Alignment explanation
Indices: 106603--106756 Score: 274
Period size: 31 Copynumber: 5.0 Consensus size: 31
106593 GGGTCGAGGG
106603 TTACCTATGTTCTTCGGGACATATGGACTGT
1 TTACCTATGTTCTTCGGGACATATGGACTGT
106634 TTACCTATGTTCTTCGGGACATATGGACTGT
1 TTACCTATGTTCTTCGGGACATATGGACTGT
106665 TTACCTATGTTCTTCGGGACATATGGACTGT
1 TTACCTATGTTCTTCGGGACATATGGACTGT
106696 TTACCTATGTTCTTCGGGACATATGGACTGT
1 TTACCTATGTTCTTCGGGACATATGGACTGT
* *
106727 TTACCTAGGTTCTTCGGAATC-TATGGACTG
1 TTACCTATGTTCTTCGGGA-CATATGGACTG
106757 GTCCTTCGGG
Statistics
Matches: 120, Mismatches: 2, Indels: 2
0.97 0.02 0.02
Matches are distributed among these distances:
31 119 0.99
32 1 0.01
ACGTcount: A:0.19, C:0.19, G:0.23, T:0.38
Consensus pattern (31 bp):
TTACCTATGTTCTTCGGGACATATGGACTGT
Found at i:107931 original size:22 final size:22
Alignment explanation
Indices: 107904--107954 Score: 93
Period size: 22 Copynumber: 2.3 Consensus size: 22
107894 GATGGAGATA
107904 GACGGATTTCGTCGGAGATGGG
1 GACGGATTTCGTCGGAGATGGG
*
107926 GACGGATTTCGTCGGAGATGTG
1 GACGGATTTCGTCGGAGATGGG
107948 GACGGAT
1 GACGGAT
107955 GTCGCCGATG
Statistics
Matches: 28, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
22 28 1.00
ACGTcount: A:0.20, C:0.14, G:0.43, T:0.24
Consensus pattern (22 bp):
GACGGATTTCGTCGGAGATGGG
Found at i:108192 original size:20 final size:20
Alignment explanation
Indices: 108120--108191 Score: 108
Period size: 20 Copynumber: 3.6 Consensus size: 20
108110 ATTTTGTATT
108120 ATCGCGTTGCGACAGTAAGA
1 ATCGCGTTGCGACAGTAAGA
*
108140 ATCGCGTTGCGACAGTCAGA
1 ATCGCGTTGCGACAGTAAGA
* *
108160 ATCGCGTTGCGATAGTTAGA
1 ATCGCGTTGCGACAGTAAGA
*
108180 ATCGTGTTGCGA
1 ATCGCGTTGCGA
108192 TTATGTATTA
Statistics
Matches: 48, Mismatches: 4, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
20 48 1.00
ACGTcount: A:0.25, C:0.19, G:0.31, T:0.25
Consensus pattern (20 bp):
ATCGCGTTGCGACAGTAAGA
Found at i:108262 original size:19 final size:19
Alignment explanation
Indices: 108238--108274 Score: 65
Period size: 19 Copynumber: 1.9 Consensus size: 19
108228 TGTGATACTG
*
108238 GAGATCGCGTTGCGATTTA
1 GAGATCGCATTGCGATTTA
108257 GAGATCGCATTGCGATTT
1 GAGATCGCATTGCGATTT
108275 TGTTGGTCAT
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
19 17 1.00
ACGTcount: A:0.22, C:0.16, G:0.30, T:0.32
Consensus pattern (19 bp):
GAGATCGCATTGCGATTTA
Found at i:111822 original size:108 final size:108
Alignment explanation
Indices: 111703--111913 Score: 368
Period size: 108 Copynumber: 2.0 Consensus size: 108
111693 TGATTTAAGT
*
111703 TAATGATAAATTAAATAATGAAATTGTAATAAGGACTTTAAAAAGTAAATATCAATAAAGAATAT
1 TAATGATAAATTAAATAATGAAATAGTAATAAGGACTTTAAAAAGTAAATATCAATAAAGAATAT
*
111768 GATAATTTGAAATCAATGAATGTCTGATTGAATTATTTTTAGA
66 GATAATTTGAAATCAATGAATGTCTAATTGAATTATTTTTAGA
* * *
111811 TAATGATAAATTAAATAATGAAATAGTAATAAGGACTTTAGAAAGTGAATATTAATAAAGAATAT
1 TAATGATAAATTAAATAATGAAATAGTAATAAGGACTTTAAAAAGTAAATATCAATAAAGAATAT
*
111876 GATAATTTGAAATCAATGAATGTCTAATTTAATTATTT
66 GATAATTTGAAATCAATGAATGTCTAATTGAATTATTT
111914 AATTACTCAC
Statistics
Matches: 97, Mismatches: 6, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
108 97 1.00
ACGTcount: A:0.48, C:0.03, G:0.13, T:0.36
Consensus pattern (108 bp):
TAATGATAAATTAAATAATGAAATAGTAATAAGGACTTTAAAAAGTAAATATCAATAAAGAATAT
GATAATTTGAAATCAATGAATGTCTAATTGAATTATTTTTAGA
Found at i:114519 original size:36 final size:36
Alignment explanation
Indices: 114472--114612 Score: 167
Period size: 36 Copynumber: 3.9 Consensus size: 36
114462 TGAATAAGAA
*
114472 GAACGAAAGGAAACATCAGCATTTTCGATTCAAAGT
1 GAACGAAAGGAAACATCAGCACTTTCGATTCAAAGT
* * * *
114508 GAACGGAAGGAAGCATCAGTACTTTCGATTC-AAGAA
1 GAACGAAAGGAAACATCAGCACTTTCGATTCAAAG-T
114544 GAACGAAAGGAAACATCAGCACTTTCGATTCAAAGT
1 GAACGAAAGGAAACATCAGCACTTTCGATTCAAAGT
* * * * * *
114580 GAACGGAATGAAGCATCGGTACTTTCGACTCAA
1 GAACGAAAGGAAACATCAGCACTTTCGATTCAA
114613 TTGTTCATCT
Statistics
Matches: 88, Mismatches: 15, Indels: 4
0.82 0.14 0.04
Matches are distributed among these distances:
35 3 0.03
36 82 0.93
37 3 0.03
ACGTcount: A:0.39, C:0.18, G:0.22, T:0.21
Consensus pattern (36 bp):
GAACGAAAGGAAACATCAGCACTTTCGATTCAAAGT
Found at i:114553 original size:72 final size:72
Alignment explanation
Indices: 114467--114612 Score: 256
Period size: 72 Copynumber: 2.0 Consensus size: 72
114457 GAAGGTGAAT
*
114467 AAGAAGAACGAAAGGAAACATCAGCATTTTCGATTCAAAGTGAACGGAAGGAAGCATCAGTACTT
1 AAGAAGAACGAAAGGAAACATCAGCACTTTCGATTCAAAGTGAACGGAAGGAAGCATCAGTACTT
*
114532 TCGATTC
66 TCGACTC
* *
114539 AAGAAGAACGAAAGGAAACATCAGCACTTTCGATTCAAAGTGAACGGAATGAAGCATCGGTACTT
1 AAGAAGAACGAAAGGAAACATCAGCACTTTCGATTCAAAGTGAACGGAAGGAAGCATCAGTACTT
114604 TCGACTC
66 TCGACTC
114611 AA
1 AA
114613 TTGTTCATCT
Statistics
Matches: 70, Mismatches: 4, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
72 70 1.00
ACGTcount: A:0.40, C:0.18, G:0.22, T:0.20
Consensus pattern (72 bp):
AAGAAGAACGAAAGGAAACATCAGCACTTTCGATTCAAAGTGAACGGAAGGAAGCATCAGTACTT
TCGACTC
Found at i:115976 original size:42 final size:42
Alignment explanation
Indices: 115886--115976 Score: 146
Period size: 42 Copynumber: 2.2 Consensus size: 42
115876 TTGAAATCAT
* *
115886 GTGTTTGTTTCACGTAATTCATTTTTCGAAAAATATTTTCCT
1 GTGTTTGTTTCACATAATTCATTTTTCGAAAAATATTTTCCA
* *
115928 GCGTTTGTTTCACATAATTCATTTTTCGGAAAATATTTTCCA
1 GTGTTTGTTTCACATAATTCATTTTTCGAAAAATATTTTCCA
115970 GTGTTTG
1 GTGTTTG
115977 GTTGGAGGAA
Statistics
Matches: 44, Mismatches: 5, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
42 44 1.00
ACGTcount: A:0.23, C:0.14, G:0.14, T:0.48
Consensus pattern (42 bp):
GTGTTTGTTTCACATAATTCATTTTTCGAAAAATATTTTCCA
Found at i:116235 original size:26 final size:24
Alignment explanation
Indices: 116173--116235 Score: 60
Period size: 23 Copynumber: 2.6 Consensus size: 24
116163 CATTTTAATC
116173 AAAATAT-TAATTATTAAAATATTT
1 AAAATATAT-ATTATTAAAATATTT
*
116197 AAAATATAT-TTATTAATAT-TTAT
1 AAAATATATATTATTAAAATATT-T
116220 AATAATATAATATTAT
1 AA-AATAT-ATATTAT
116236 ATTTTTAAGA
Statistics
Matches: 33, Mismatches: 1, Indels: 8
0.79 0.02 0.19
Matches are distributed among these distances:
22 2 0.06
23 12 0.36
24 12 0.36
25 3 0.09
26 4 0.12
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (24 bp):
AAAATATATATTATTAAAATATTT
Found at i:116237 original size:22 final size:23
Alignment explanation
Indices: 116190--116253 Score: 62
Period size: 22 Copynumber: 2.9 Consensus size: 23
116180 TAATTATTAA
* *
116190 AATATTTAAAAT-ATAT-TTATT
1 AATATTTATAATAATATAATATT
116211 AATATTTATAATAATATAATATT
1 AATATTTATAATAATATAATATT
* * *
116234 -ATATTTTTAAGATTATAATA
1 AATATTTATAATAATATAATA
116254 AAATAATCAA
Statistics
Matches: 36, Mismatches: 5, Indels: 3
0.82 0.11 0.07
Matches are distributed among these distances:
21 11 0.31
22 21 0.58
23 4 0.11
ACGTcount: A:0.48, C:0.00, G:0.02, T:0.50
Consensus pattern (23 bp):
AATATTTATAATAATATAATATT
Found at i:116252 original size:30 final size:33
Alignment explanation
Indices: 116201--116270 Score: 92
Period size: 32 Copynumber: 2.2 Consensus size: 33
116191 ATATTTAAAA
* *
116201 TATATTTATTAATATTTATAATAATATAAT-AT
1 TATATTTATTAAGATTTATAATAAAATAATAAT
116233 TATATTT-TTAAGA-TTATAATAAAATAATCAAT
1 TATATTTATTAAGATTTATAATAAAATAAT-AAT
116265 TATATT
1 TATATT
116271 ATAATAATAT
Statistics
Matches: 34, Mismatches: 2, Indels: 4
0.85 0.05 0.10
Matches are distributed among these distances:
30 14 0.41
31 5 0.15
32 15 0.44
ACGTcount: A:0.47, C:0.01, G:0.01, T:0.50
Consensus pattern (33 bp):
TATATTTATTAAGATTTATAATAAAATAATAAT
Found at i:116441 original size:23 final size:24
Alignment explanation
Indices: 116415--116464 Score: 59
Period size: 23 Copynumber: 2.2 Consensus size: 24
116405 ACATTAATAT
116415 AATAATA-TAATAAAGATATTTAA
1 AATAATACTAATAAAGATATTTAA
* * *
116438 AAT-ATACTAATTAATATTTTTAA
1 AATAATACTAATAAAGATATTTAA
116461 AATA
1 AATA
116465 TAATATAACA
Statistics
Matches: 22, Mismatches: 3, Indels: 3
0.79 0.11 0.11
Matches are distributed among these distances:
22 3 0.14
23 19 0.86
ACGTcount: A:0.56, C:0.02, G:0.02, T:0.40
Consensus pattern (24 bp):
AATAATACTAATAAAGATATTTAA
Found at i:116845 original size:29 final size:29
Alignment explanation
Indices: 116801--116858 Score: 89
Period size: 29 Copynumber: 2.0 Consensus size: 29
116791 TACAGAAATA
* *
116801 TAATTTATTTTTCAGAATTCAAATTCCAG
1 TAATTCATTTTCCAGAATTCAAATTCCAG
*
116830 TAATTCATTTTCCAGAATTCAATTTCCAG
1 TAATTCATTTTCCAGAATTCAAATTCCAG
116859 AAAACCAATT
Statistics
Matches: 26, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
29 26 1.00
ACGTcount: A:0.33, C:0.17, G:0.07, T:0.43
Consensus pattern (29 bp):
TAATTCATTTTCCAGAATTCAAATTCCAG
Found at i:116850 original size:14 final size:14
Alignment explanation
Indices: 116813--116860 Score: 69
Period size: 14 Copynumber: 3.4 Consensus size: 14
116803 ATTTATTTTT
*
116813 CAGAATTCAAATTC
1 CAGAATTCAATTTC
*
116827 CAGTAATTCATTTTC
1 CAG-AATTCAATTTC
116842 CAGAATTCAATTTC
1 CAGAATTCAATTTC
116856 CAGAA
1 CAGAA
116861 AACCAATTAC
Statistics
Matches: 30, Mismatches: 3, Indels: 2
0.86 0.09 0.06
Matches are distributed among these distances:
14 18 0.60
15 12 0.40
ACGTcount: A:0.38, C:0.21, G:0.08, T:0.33
Consensus pattern (14 bp):
CAGAATTCAATTTC
Found at i:118282 original size:12 final size:12
Alignment explanation
Indices: 118265--118289 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
118255 GGCATTGTAA
118265 GACATGCATGAC
1 GACATGCATGAC
118277 GACATGCATGAC
1 GACATGCATGAC
118289 G
1 G
118290 CAAAGTTTCC
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 13 1.00
ACGTcount: A:0.32, C:0.24, G:0.28, T:0.16
Consensus pattern (12 bp):
GACATGCATGAC
Found at i:119400 original size:22 final size:23
Alignment explanation
Indices: 119375--119425 Score: 57
Period size: 28 Copynumber: 2.0 Consensus size: 23
119365 AACATTCACC
119375 ATAAGTTTATCCTTTCAAATGGATA
1 ATAAGTTTATCCTTTCAAATGG--A
119400 AGGTGAAGTTTATCCTTTCAAATGGA
1 A--T-AAGTTTATCCTTTCAAATGGA
119426 TAAAGGGAAT
Statistics
Matches: 23, Mismatches: 0, Indels: 5
0.82 0.00 0.18
Matches are distributed among these distances:
25 1 0.04
26 1 0.04
27 1 0.04
28 20 0.87
ACGTcount: A:0.33, C:0.12, G:0.18, T:0.37
Consensus pattern (23 bp):
ATAAGTTTATCCTTTCAAATGGA
Found at i:127209 original size:21 final size:22
Alignment explanation
Indices: 127185--127233 Score: 59
Period size: 21 Copynumber: 2.3 Consensus size: 22
127175 AGCGGAAAAT
127185 GAAGCAAG-GG-AAGCACAGAGA
1 GAAGCAAGCGGCAA-CACAGAGA
*
127206 GAAGC-AGCGGCAACATAGAGA
1 GAAGCAAGCGGCAACACAGAGA
127227 GAAGCAA
1 GAAGCAA
127234 CATATCAGTA
Statistics
Matches: 24, Mismatches: 1, Indels: 5
0.80 0.03 0.17
Matches are distributed among these distances:
20 2 0.08
21 19 0.79
22 3 0.12
ACGTcount: A:0.47, C:0.16, G:0.35, T:0.02
Consensus pattern (22 bp):
GAAGCAAGCGGCAACACAGAGA
Found at i:127778 original size:85 final size:85
Alignment explanation
Indices: 127673--128006 Score: 401
Period size: 85 Copynumber: 4.0 Consensus size: 85
127663 CCAAGAAATC
* * * *
127673 TCAACATCTATTGCGGCGTTTTTGATAAAAACGCCGCTAAATC-TCAACACCTACTGCGGCGTTT
1 TCAACACCTACTGCGGCGTTTGTGAGAAAAACGCCGCTAAA-CATCAACACCTACTGCGGCGTTT
127737 GTGGTAAAACGCCGCTAAACA
65 GTGGTAAAACGCCGCTAAACA
* * *
127758 TGAACACCTACTGCGACGTTTGTGGGAAAAACGCCGCTAAACATCAACACCTACTGCGGCGTTTG
1 TCAACACCTACTGCGGCGTTTGTGAGAAAAACGCCGCTAAACATCAACACCTACTGCGGCGTTTG
* * *
127823 TGGGAAAAACGACGCTAAACG
66 T-GGTAAAACGCCGCTAAACA
* *
127844 TCAACACCTACTGCGTCGTTTGTG-GAAAAACACCGCTAAACATCAACACCTACTGCGGCG-TT-
1 TCAACACCTACTGCGGCGTTTGTGAGAAAAACGCCGCTAAACATCAACACCTACTGCGGCGTTTG
* *
127906 T-GTCAAACGCCGCTAAATA
66 TGGTAAAACGCCGCTAAACA
* ** * *
127925 TCAACACCTATTGCGGCGTTTGTTGA-TTAAACGCCGCTAAATATCAACACCTATTGCGGCGTTT
1 TCAACACCTACTGCGGCGTTTG-TGAGAAAAACGCCGCTAAACATCAACACCTACTGCGGCGTTT
* *
127989 GTTGATTAAACGCCGCTA
65 G-TGGTAAAACGCCGCTA
128007 TATATCGTCA
Statistics
Matches: 214, Mismatches: 27, Indels: 15
0.84 0.11 0.06
Matches are distributed among these distances:
81 33 0.15
82 32 0.15
83 3 0.01
84 3 0.01
85 93 0.43
86 50 0.23
ACGTcount: A:0.29, C:0.26, G:0.20, T:0.24
Consensus pattern (85 bp):
TCAACACCTACTGCGGCGTTTGTGAGAAAAACGCCGCTAAACATCAACACCTACTGCGGCGTTTG
TGGTAAAACGCCGCTAAACA
Found at i:128024 original size:43 final size:43
Alignment explanation
Indices: 127673--128006 Score: 391
Period size: 43 Copynumber: 7.9 Consensus size: 43
127663 CCAAGAAATC
* *
127673 TCAACATCTATTGCGGCGTTT-TTGATAAAAACGCCGCTAAATC-
1 TCAACACCTACTGCGGCGTTTGTTGAT-AAAACGCCGCTAAA-CA
*
127716 TCAACACCTACTGCGGCGTTTG-TGGTAAAACGCCGCTAAACA
1 TCAACACCTACTGCGGCGTTTGTTGATAAAACGCCGCTAAACA
* * *
127758 TGAACACCTACTGCGACGTTTGTGGGA-AAAACGCCGCTAAACA
1 TCAACACCTACTGCGGCGTTTGT-TGATAAAACGCCGCTAAACA
* * *
127801 TCAACACCTACTGCGGCGTTTGTGGGA-AAAACGACGCTAAACG
1 TCAACACCTACTGCGGCGTTTGT-TGATAAAACGCCGCTAAACA
* * *
127844 TCAACACCTACTGCGTCGTTTGTGGA-AAAACACCGCTAAACA
1 TCAACACCTACTGCGGCGTTTGTTGATAAAACGCCGCTAAACA
* *
127886 TCAACACCTACTGCGGCG--T-TTG-TCAAACGCCGCTAAATA
1 TCAACACCTACTGCGGCGTTTGTTGATAAAACGCCGCTAAACA
* * *
127925 TCAACACCTATTGCGGCGTTTGTTGATTAAACGCCGCTAAATA
1 TCAACACCTACTGCGGCGTTTGTTGATAAAACGCCGCTAAACA
* *
127968 TCAACACCTATTGCGGCGTTTGTTGATTAAACGCCGCTA
1 TCAACACCTACTGCGGCGTTTGTTGATAAAACGCCGCTA
128007 TATATCGTCA
Statistics
Matches: 260, Mismatches: 22, Indels: 18
0.87 0.07 0.06
Matches are distributed among these distances:
39 32 0.12
40 1 0.00
41 2 0.01
42 70 0.27
43 154 0.59
44 1 0.00
ACGTcount: A:0.29, C:0.26, G:0.20, T:0.24
Consensus pattern (43 bp):
TCAACACCTACTGCGGCGTTTGTTGATAAAACGCCGCTAAACA
Found at i:128237 original size:85 final size:85
Alignment explanation
Indices: 128065--128317 Score: 341
Period size: 85 Copynumber: 3.0 Consensus size: 85
128055 TGTTTTTGAT
* *
128065 AAAAACGCCGCTAAATC-TCAACACCTACTGCGACGTTTGTGGTAAAACGCAGCTAAACATTAAC
1 AAAAACGCCGCTAAA-CATCAACACCTACTGCGACGTTTGTGGGAAAACGCAGCTAAACATCAAC
128129 ACCTACTGCGGCGTTTGTGGG
65 ACCTACTGCGGCGTTTGTGGG
*
128150 AAAAACGCCGCTAAACATCAACACCTACTGCGACGTTTGTGGGGAAAACG-ACGCTAAACGTCAA
1 AAAAACGCCGCTAAACATCAACACCTACTGCGACGTTTGT-GGGAAAACGCA-GCTAAACATCAA
*
128214 CACCTACTGCGTCGTTTGT-GG
64 CACCTACTGCGGCGTTTGTGGG
* *** * *
128235 AAAAACGCCGCTAAACATCAACACCTACTGCGGCGTTTGTCTAACAAACGCCGCTAAATATCAAC
1 AAAAACGCCGCTAAACATCAACACCTACTGCGACGTTTGTGGGA-AAACGCAGCTAAACATCAAC
* *
128300 ACCTATTACGGCGTTTGT
65 ACCTACTGCGGCGTTTGT
128318 TGATTAAACG
Statistics
Matches: 149, Mismatches: 14, Indels: 10
0.86 0.08 0.06
Matches are distributed among these distances:
84 2 0.01
85 111 0.74
86 36 0.24
ACGTcount: A:0.31, C:0.27, G:0.20, T:0.22
Consensus pattern (85 bp):
AAAAACGCCGCTAAACATCAACACCTACTGCGACGTTTGTGGGAAAACGCAGCTAAACATCAACA
CCTACTGCGGCGTTTGTGGG
Found at i:128339 original size:43 final size:42
Alignment explanation
Indices: 128065--128333 Score: 342
Period size: 43 Copynumber: 6.3 Consensus size: 42
128055 TGTTTTTGAT
*
128065 AAAAACGCCGCTAAATC-TCAACACCTACTGCGACGTTTGTGG
1 AAAAACGCCGCTAAA-CATCAACACCTACTGCGGCGTTTGTGG
* * *
128107 TAAAACGCAGCTAAACATTAACACCTACTGCGGCGTTTGTGGG
1 AAAAACGCCGCTAAACATCAACACCTACTGCGGCGTTTGT-GG
*
128150 AAAAACGCCGCTAAACATCAACACCTACTGCGACGTTTGTGGG
1 AAAAACGCCGCTAAACATCAACACCTACTGCGGCGTTTGT-GG
* * * *
128193 GAAAACGACGCTAAACGTCAACACCTACTGCGTCGTTTGTGG
1 AAAAACGCCGCTAAACATCAACACCTACTGCGGCGTTTGTGG
**
128235 AAAAACGCCGCTAAACATCAACACCTACTGCGGCGTTTGTCT
1 AAAAACGCCGCTAAACATCAACACCTACTGCGGCGTTTGTGG
* * * *
128277 AACAAACGCCGCTAAATATCAACACCTATTACGGCGTTTGTTG
1 AA-AAACGCCGCTAAACATCAACACCTACTGCGGCGTTTGTGG
*
128320 ATTAAACGCCGCTA
1 A-AAAACGCCGCTA
128334 TATATCGTCA
Statistics
Matches: 199, Mismatches: 24, Indels: 7
0.87 0.10 0.03
Matches are distributed among these distances:
41 1 0.01
42 74 0.37
43 124 0.62
ACGTcount: A:0.31, C:0.27, G:0.20, T:0.22
Consensus pattern (42 bp):
AAAAACGCCGCTAAACATCAACACCTACTGCGGCGTTTGTGG
Found at i:128347 original size:128 final size:128
Alignment explanation
Indices: 128031--128339 Score: 377
Period size: 128 Copynumber: 2.4 Consensus size: 128
128021 TTGCACCAAG
* * * *
128031 AAATCTCAACATCTATTGCGGCGTTGTTTTTGATAAAAACGCCGCTAAATCTCAACACCTACTGC
1 AAATATCAACACCTATTGCGGCG-T-TTGTTGAT-AAAACGCCGCTAAATATCAACACCTACTGC
* * *
128096 GACGTTTGTGGTAAAACGCAGCTAAACATTAACACCTACTGCGGCGTTTGTGGGAAAAACGCCGC
63 GACGTTTGTGGAAAAACGCAGCTAAACATCAACACCTACTGCGGCGTTTGTGCGAAAAACGCCGC
128161 T
128 T
* * * * ** * ** *
128162 AAACATCAACACCTACTGCGACGTTTGTGGGGAAAACGACGCTAAACGTCAACACCTACTGCGTC
1 AAATATCAACACCTATTGCGGCGTTTGTTGATAAAACGCCGCTAAATATCAACACCTACTGCGAC
* *
128227 GTTTGTGGAAAAACGCCGCTAAACATCAACACCTACTGCGGCGTTTGT-CTAACAAACGCCGCT
66 GTTTGTGGAAAAACGCAGCTAAACATCAACACCTACTGCGGCGTTTGTGCGAA-AAACGCCGCT
* * *
128290 AAATATCAACACCTATTACGGCGTTTGTTGATTAAACGCCGCTATATATC
1 AAATATCAACACCTATTGCGGCGTTTGTTGATAAAACGCCGCTAAATATC
128340 GTCACCTATT
Statistics
Matches: 147, Mismatches: 30, Indels: 5
0.81 0.16 0.03
Matches are distributed among these distances:
127 2 0.01
128 122 0.83
129 4 0.03
130 1 0.01
131 18 0.12
ACGTcount: A:0.30, C:0.26, G:0.19, T:0.25
Consensus pattern (128 bp):
AAATATCAACACCTATTGCGGCGTTTGTTGATAAAACGCCGCTAAATATCAACACCTACTGCGAC
GTTTGTGGAAAAACGCAGCTAAACATCAACACCTACTGCGGCGTTTGTGCGAAAAACGCCGCT
Found at i:129874 original size:59 final size:59
Alignment explanation
Indices: 129800--129919 Score: 168
Period size: 59 Copynumber: 2.0 Consensus size: 59
129790 ATAAACTAAA
* *
129800 TCTCAAACAATACCTTTGAATAACAAAAATTAAAAAAACTCCACAATTAATAAGAGTGT
1 TCTCAAACAAAACCTTTAAATAACAAAAATTAAAAAAACTCCACAATTAATAAGAGTGT
* * * ** *
129859 TCTCAAACAAAACCTTTAAATAACAAAAATTAATAAAATTCTACGGTTAATATGAGTGT
1 TCTCAAACAAAACCTTTAAATAACAAAAATTAAAAAAACTCCACAATTAATAAGAGTGT
129918 TC
1 TC
129920 GTCGATTCAT
Statistics
Matches: 53, Mismatches: 8, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
59 53 1.00
ACGTcount: A:0.48, C:0.16, G:0.07, T:0.28
Consensus pattern (59 bp):
TCTCAAACAAAACCTTTAAATAACAAAAATTAAAAAAACTCCACAATTAATAAGAGTGT
Found at i:131433 original size:58 final size:58
Alignment explanation
Indices: 131361--131474 Score: 169
Period size: 58 Copynumber: 2.0 Consensus size: 58
131351 AAAGACTCTA
**
131361 AAATCGAGTATATCTATCAGTTGTTGTCATTAA-AAAGGTCC-AAAAAATAGGGGCCCCG
1 AAATCGAGTATATCTATCAGTTGTTACCATTAAGAAA--TCCAAAAAAATAGGGGCCCCG
*
131419 AAATCGAGTATATCTATCCGTTGTTACCATTAAGAAATCCAAAAAAATAGGGGCCC
1 AAATCGAGTATATCTATCAGTTGTTACCATTAAGAAATCCAAAAAAATAGGGGCCC
131475 AAAAATAAGT
Statistics
Matches: 51, Mismatches: 3, Indels: 4
0.88 0.05 0.07
Matches are distributed among these distances:
57 3 0.06
58 45 0.88
59 3 0.06
ACGTcount: A:0.38, C:0.18, G:0.18, T:0.25
Consensus pattern (58 bp):
AAATCGAGTATATCTATCAGTTGTTACCATTAAGAAATCCAAAAAAATAGGGGCCCCG
Found at i:132100 original size:3 final size:3
Alignment explanation
Indices: 132092--132118 Score: 54
Period size: 3 Copynumber: 9.0 Consensus size: 3
132082 TAGATTCCAC
132092 AAT AAT AAT AAT AAT AAT AAT AAT AAT
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT
132119 TGTATTGGAC
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 24 1.00
ACGTcount: A:0.67, C:0.00, G:0.00, T:0.33
Consensus pattern (3 bp):
AAT
Found at i:135216 original size:55 final size:54
Alignment explanation
Indices: 135049--135471 Score: 600
Period size: 54 Copynumber: 7.8 Consensus size: 54
135039 CTATATGGTA
* * *
135049 ATTCATCATCTCATGATAAATTATGTGGGTTGCACACATAGTGCATGTACGGTT
1 ATTCATCAACTCATGATGAATCATGTGGGTTGCACACATAGTGCATGTACGGTT
*
135103 ATTCATCAACTCATGATGAATCTTGTGGGTTGCACACATAGTGCATGTACGGTT
1 ATTCATCAACTCATGATGAATCATGTGGGTTGCACACATAGTGCATGTACGGTT
*
135157 ATTCATCAACTCATGATGAATCATGTGGGTTTGCACACATAGTGCATGTACAGTT
1 ATTCATCAACTCATGATGAATCATGTGGG-TTGCACACATAGTGCATGTACGGTT
* * *
135212 ATTCATCAACTCATGATGAATCATGTGGATTTGCACGCATAGTACATGTACGGTT
1 ATTCATCAACTCATGATGAATCATGTGG-GTTGCACACATAGTGCATGTACGGTT
** * * *
135267 ATTCATCAACTCATGATGAATCCCGTGGATTTGCACACATAATGCCTGTACGGTT
1 ATTCATCAACTCATGATGAATCATGTGG-GTTGCACACATAGTGCATGTACGGTT
*
135322 ATTCATCAACTCATGATGAATC-TCGTGGGTTGCACACATAGTGCAT-TCACTGTT
1 ATTCATCAACTCATGATGAATCAT-GTGGGTTGCACACATAGTGCATGT-ACGGTT
* * *
135376 ATTCATCAACTCATGATGAATC-TCGTGGGTTGCACACATAGTACCTGTACGATT
1 ATTCATCAACTCATGATGAATCAT-GTGGGTTGCACACATAGTGCATGTACGGTT
**
135430 ATTCATCAACTCATGATGAATCCCGTGGGTTGCACACATAGT
1 ATTCATCAACTCATGATGAATCATGTGGGTTGCACACATAGT
135472 ACTGATATAT
Statistics
Matches: 337, Mismatches: 26, Indels: 12
0.90 0.07 0.03
Matches are distributed among these distances:
53 1 0.00
54 186 0.55
55 150 0.45
ACGTcount: A:0.28, C:0.20, G:0.20, T:0.32
Consensus pattern (54 bp):
ATTCATCAACTCATGATGAATCATGTGGGTTGCACACATAGTGCATGTACGGTT
Found at i:136389 original size:16 final size:16
Alignment explanation
Indices: 136368--136401 Score: 68
Period size: 16 Copynumber: 2.1 Consensus size: 16
136358 ATTAAAACTC
136368 AACTCAAACTCAAAAA
1 AACTCAAACTCAAAAA
136384 AACTCAAACTCAAAAA
1 AACTCAAACTCAAAAA
136400 AA
1 AA
136402 ATATTAAGAA
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 18 1.00
ACGTcount: A:0.65, C:0.24, G:0.00, T:0.12
Consensus pattern (16 bp):
AACTCAAACTCAAAAA
Found at i:138055 original size:7 final size:7
Alignment explanation
Indices: 138046--138151 Score: 61
Period size: 7 Copynumber: 15.3 Consensus size: 7
138036 TGGATTAAGT
*
138046 GTTTAGT
1 GTTTAGG
138053 GTTTAGG
1 GTTTAGG
138060 GTTTAGG
1 GTTTAGG
**
138067 GTTTATA
1 GTTTAGG
138074 GTTTAGG
1 GTTTAGG
**
138081 GTTTATA
1 GTTTAGG
** *
138088 ACTCAGG
1 GTTTAGG
138095 GTTTAGG
1 GTTTAGG
*
138102 ATTTAGG
1 GTTTAGG
**
138109 GTTTATA
1 GTTTAGG
**
138116 ACTTAGG
1 GTTTAGG
*
138123 GTTTAGA
1 GTTTAGG
*
138130 GTTTA-C
1 GTTTAGG
*
138136 GTTTAGA
1 GTTTAGG
138143 GTTTAGG
1 GTTTAGG
138150 GT
1 GT
138152 GTAATCTAAC
Statistics
Matches: 69, Mismatches: 29, Indels: 2
0.69 0.29 0.02
Matches are distributed among these distances:
6 5 0.07
7 64 0.93
ACGTcount: A:0.22, C:0.04, G:0.30, T:0.44
Consensus pattern (7 bp):
GTTTAGG
Found at i:138095 original size:28 final size:27
Alignment explanation
Indices: 138064--138134 Score: 97
Period size: 28 Copynumber: 2.5 Consensus size: 27
138054 TTTAGGGTTT
138064 AGGGTTTATAGTTTAGGGTTTATAACTC
1 AGGGTTTA-AGTTTAGGGTTTATAACTC
* *
138092 AGGGTTTAGGATTTAGGGTTTATAACTT
1 AGGGTTTAAG-TTTAGGGTTTATAACTC
138120 AGGGTTTAGAGTTTA
1 AGGGTTTA-AGTTTA
138135 CGTTTAGAGT
Statistics
Matches: 38, Mismatches: 3, Indels: 4
0.84 0.07 0.09
Matches are distributed among these distances:
27 1 0.03
28 36 0.95
29 1 0.03
ACGTcount: A:0.25, C:0.04, G:0.28, T:0.42
Consensus pattern (27 bp):
AGGGTTTAAGTTTAGGGTTTATAACTC
Found at i:138141 original size:13 final size:13
Alignment explanation
Indices: 138123--138147 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
138113 ATAACTTAGG
138123 GTTTAGAGTTTAC
1 GTTTAGAGTTTAC
138136 GTTTAGAGTTTA
1 GTTTAGAGTTTA
138148 GGGTGTAATC
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.24, C:0.04, G:0.24, T:0.48
Consensus pattern (13 bp):
GTTTAGAGTTTAC
Found at i:138261 original size:7 final size:7
Alignment explanation
Indices: 138222--138288 Score: 57
Period size: 7 Copynumber: 9.7 Consensus size: 7
138212 AATCGGATTA
138222 AGGGTTT
1 AGGGTTT
**
138229 AGAATTT
1 AGGGTTT
138236 AGGG-TT
1 AGGGTTT
*
138242 GGGGTTT
1 AGGGTTT
*
138249 ATGGTTT
1 AGGGTTT
*
138256 GGGGTTT
1 AGGGTTT
138263 -GGGATTT
1 AGGG-TTT
*
138270 AGAGTTT
1 AGGGTTT
138277 AGGGTTT
1 AGGGTTT
138284 AGGGT
1 AGGGT
138289 GTAATCTAAC
Statistics
Matches: 46, Mismatches: 11, Indels: 6
0.73 0.17 0.10
Matches are distributed among these distances:
6 8 0.17
7 36 0.78
8 2 0.04
ACGTcount: A:0.16, C:0.00, G:0.42, T:0.42
Consensus pattern (7 bp):
AGGGTTT
Found at i:138270 original size:21 final size:21
Alignment explanation
Indices: 138226--138283 Score: 66
Period size: 21 Copynumber: 2.8 Consensus size: 21
138216 GGATTAAGGG
* *
138226 TTTAGAATTTAGGG-TTGGGG
1 TTTAGAGTTTAGGGTTTGGGA
*
138246 TTTATG-GTTTGGGGTTTGGGA
1 TTTA-GAGTTTAGGGTTTGGGA
138267 TTTAGAGTTTAGGGTTT
1 TTTAGAGTTTAGGGTTT
138284 AGGGTGTAAT
Statistics
Matches: 31, Mismatches: 4, Indels: 5
0.77 0.10 0.12
Matches are distributed among these distances:
20 11 0.35
21 20 0.65
ACGTcount: A:0.16, C:0.00, G:0.38, T:0.47
Consensus pattern (21 bp):
TTTAGAGTTTAGGGTTTGGGA
Found at i:142286 original size:57 final size:57
Alignment explanation
Indices: 142198--142310 Score: 199
Period size: 57 Copynumber: 2.0 Consensus size: 57
142188 AGGAAACATA
*
142198 AATATGCAAGTCGCTTCACATGGTGTGCAAAGTAGCCAAAATAACTCGGCATTGATC
1 AATATGCAAGTCGCTTCACATGGTGTGCAAAGTAACCAAAATAACTCGGCATTGATC
* *
142255 AATATGCAAGTTGCTTCTCATGGTGTGCAAAGTAACCAAAATAACTCGGCATTGAT
1 AATATGCAAGTCGCTTCACATGGTGTGCAAAGTAACCAAAATAACTCGGCATTGAT
142311 GCAGATGGGT
Statistics
Matches: 53, Mismatches: 3, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
57 53 1.00
ACGTcount: A:0.34, C:0.19, G:0.20, T:0.27
Consensus pattern (57 bp):
AATATGCAAGTCGCTTCACATGGTGTGCAAAGTAACCAAAATAACTCGGCATTGATC
Found at i:147136 original size:38 final size:38
Alignment explanation
Indices: 147073--147161 Score: 146
Period size: 38 Copynumber: 2.4 Consensus size: 38
147063 ATTTTGTTCG
147073 GGTCGGGTCGGG-TTTTTTAAGTGTGATATTCGGGTC-
1 GGTCGGGTCGGGTTTTTTTAAGTGTGATATTCGGGTCA
147109 GAGTCGGGTCGGGTTTTTTTAAGTGTGATATTCGGGTCA
1 G-GTCGGGTCGGGTTTTTTTAAGTGTGATATTCGGGTCA
*
147148 GGTCAGGTCGGGTT
1 GGTCGGGTCGGGTT
147162 CGGGTTTAGG
Statistics
Matches: 49, Mismatches: 1, Indels: 4
0.91 0.02 0.07
Matches are distributed among these distances:
36 1 0.02
37 11 0.22
38 36 0.73
39 1 0.02
ACGTcount: A:0.12, C:0.11, G:0.39, T:0.37
Consensus pattern (38 bp):
GGTCGGGTCGGGTTTTTTTAAGTGTGATATTCGGGTCA
Found at i:155700 original size:77 final size:77
Alignment explanation
Indices: 155571--155754 Score: 251
Period size: 77 Copynumber: 2.4 Consensus size: 77
155561 ATACGTGCCG
* * * * *
155571 GACATATACCTGTATCCAACAGTCCTACTTGAGTCCTAGTAAAGAGTGTAAATTTATAGCACTTG
1 GACATATACATGTATCCAACACTCATACTCGAGTCCAAGTAAAGAGTGTAAATTTATAGCACTTG
155636 CAACCTATACCA
66 CAACCTATACCA
* * * *
155648 GACATATACTTGTATCCAACACTCATACTCGATTCCAAGTAAATAGTTTAAATTTATAGCACTTG
1 GACATATACATGTATCCAACACTCATACTCGAGTCCAAGTAAAGAGTGTAAATTTATAGCACTTG
**
155713 CAACCTATGTCA
66 CAACCTATACCA
* *
155725 AACATATACATGTATCCAACCCTCATACTC
1 GACATATACATGTATCCAACACTCATACTC
155755 AAACCCGAAT
Statistics
Matches: 94, Mismatches: 13, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
77 94 1.00
ACGTcount: A:0.35, C:0.24, G:0.11, T:0.30
Consensus pattern (77 bp):
GACATATACATGTATCCAACACTCATACTCGAGTCCAAGTAAAGAGTGTAAATTTATAGCACTTG
CAACCTATACCA
Done.