Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: VEPZ01006501.1 Hibiscus syriacus cultivar Beakdansim tig00015822_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: 209197
ACGTcount: A:0.33, C:0.17, G:0.16, T:0.33
Found at i:6932 original size:23 final size:23
Alignment explanation
Indices: 6903--6950 Score: 96
Period size: 23 Copynumber: 2.1 Consensus size: 23
6893 ATTGTGATAG
6903 TGTGATAGTTCACATCTAAATGA
1 TGTGATAGTTCACATCTAAATGA
6926 TGTGATAGTTCACATCTAAATGA
1 TGTGATAGTTCACATCTAAATGA
6949 TG
1 TG
6951 AAGTCACGAA
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
23 25 1.00
ACGTcount: A:0.33, C:0.12, G:0.19, T:0.35
Consensus pattern (23 bp):
TGTGATAGTTCACATCTAAATGA
Found at i:12107 original size:16 final size:17
Alignment explanation
Indices: 12075--12108 Score: 52
Period size: 17 Copynumber: 2.1 Consensus size: 17
12065 TTTTTTTGAA
12075 ATTTATAAATCTTTTTT
1 ATTTATAAATCTTTTTT
*
12092 ATTTTTAAAT-TTTTTT
1 ATTTATAAATCTTTTTT
12108 A
1 A
12109 AAAAATATTA
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
16 7 0.44
17 9 0.56
ACGTcount: A:0.29, C:0.03, G:0.00, T:0.68
Consensus pattern (17 bp):
ATTTATAAATCTTTTTT
Found at i:14391 original size:22 final size:22
Alignment explanation
Indices: 14361--14408 Score: 87
Period size: 22 Copynumber: 2.2 Consensus size: 22
14351 TATGGGTAAG
*
14361 GGTTTATCATGAGTGGTGATTT
1 GGTTGATCATGAGTGGTGATTT
14383 GGTTGATCATGAGTGGTGATTT
1 GGTTGATCATGAGTGGTGATTT
14405 GGTT
1 GGTT
14409 TCTCGAAGGT
Statistics
Matches: 25, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
22 25 1.00
ACGTcount: A:0.17, C:0.04, G:0.35, T:0.44
Consensus pattern (22 bp):
GGTTGATCATGAGTGGTGATTT
Found at i:15079 original size:32 final size:32
Alignment explanation
Indices: 15019--15116 Score: 108
Period size: 32 Copynumber: 3.1 Consensus size: 32
15009 ATAGTTATTA
* * * *
15019 AATT-TATCGAATTGTTTTAAAATGATCATTG
1 AATTCTATCAAATTATTATAAAATAATCATTG
* *
15050 GATTCTATCAAATTATTATAAAATAATCATTA
1 AATTCTATCAAATTATTATAAAATAATCATTG
* * *
15082 AATTCTATCAAATTGTTACAAAATAATAATTG
1 AATTCTATCAAATTATTATAAAATAATCATTG
15114 AAT
1 AAT
15117 ATATTAAACT
Statistics
Matches: 55, Mismatches: 11, Indels: 1
0.82 0.16 0.01
Matches are distributed among these distances:
31 3 0.05
32 52 0.95
ACGTcount: A:0.44, C:0.08, G:0.07, T:0.41
Consensus pattern (32 bp):
AATTCTATCAAATTATTATAAAATAATCATTG
Found at i:16514 original size:2 final size:2
Alignment explanation
Indices: 16507--16568 Score: 124
Period size: 2 Copynumber: 31.0 Consensus size: 2
16497 ACATTTTTAA
16507 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
16549 AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT
16569 GTTTTCACCG
Statistics
Matches: 60, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 60 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:17589 original size:29 final size:29
Alignment explanation
Indices: 17557--17617 Score: 122
Period size: 29 Copynumber: 2.1 Consensus size: 29
17547 TGTCTCTAAA
17557 CTTTAATTTGCCATAATTTGTTCTCCAAT
1 CTTTAATTTGCCATAATTTGTTCTCCAAT
17586 CTTTAATTTGCCATAATTTGTTCTCCAAT
1 CTTTAATTTGCCATAATTTGTTCTCCAAT
17615 CTT
1 CTT
17618 ATACTGTGAT
Statistics
Matches: 32, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
29 32 1.00
ACGTcount: A:0.23, C:0.21, G:0.07, T:0.49
Consensus pattern (29 bp):
CTTTAATTTGCCATAATTTGTTCTCCAAT
Found at i:21792 original size:54 final size:54
Alignment explanation
Indices: 21718--21831 Score: 183
Period size: 54 Copynumber: 2.1 Consensus size: 54
21708 TTAGTGCATT
* *
21718 TTTTAATCATATACACCCCATAGTGCTATATAATTAGTTTGGCACCTTTTATGCC
1 TTTT-ATCATATACACCCCATAGTGCTATATAATCAATTTGGCACCTTTTATGCC
* *
21773 TTTTATCATATGCATCCCATAGTGCTATATAATCAATTTGGCACCTTTTATGCC
1 TTTTATCATATACACCCCATAGTGCTATATAATCAATTTGGCACCTTTTATGCC
21827 TTTTA
1 TTTTA
21832 ACATTTGTAC
Statistics
Matches: 55, Mismatches: 4, Indels: 1
0.92 0.07 0.02
Matches are distributed among these distances:
54 51 0.93
55 4 0.07
ACGTcount: A:0.26, C:0.21, G:0.11, T:0.42
Consensus pattern (54 bp):
TTTTATCATATACACCCCATAGTGCTATATAATCAATTTGGCACCTTTTATGCC
Found at i:23440 original size:16 final size:16
Alignment explanation
Indices: 23419--23450 Score: 64
Period size: 16 Copynumber: 2.0 Consensus size: 16
23409 CTAATCATTC
23419 TTGTAGAATTTATAGT
1 TTGTAGAATTTATAGT
23435 TTGTAGAATTTATAGT
1 TTGTAGAATTTATAGT
23451 GATTTTATAA
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 16 1.00
ACGTcount: A:0.31, C:0.00, G:0.19, T:0.50
Consensus pattern (16 bp):
TTGTAGAATTTATAGT
Found at i:24304 original size:2 final size:2
Alignment explanation
Indices: 24287--24349 Score: 110
Period size: 2 Copynumber: 32.0 Consensus size: 2
24277 AATATAAAAC
*
24287 TA TA -A TA TA CA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
24328 TA TA TA TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA
24350 ATGTTTTCAC
Statistics
Matches: 58, Mismatches: 2, Indels: 2
0.94 0.03 0.03
Matches are distributed among these distances:
1 1 0.02
2 57 0.98
ACGTcount: A:0.51, C:0.02, G:0.00, T:0.48
Consensus pattern (2 bp):
TA
Found at i:29535 original size:16 final size:16
Alignment explanation
Indices: 29514--29544 Score: 62
Period size: 16 Copynumber: 1.9 Consensus size: 16
29504 ATAATCAGTT
29514 TGGCACCTTTTATGCA
1 TGGCACCTTTTATGCA
29530 TGGCACCTTTTATGC
1 TGGCACCTTTTATGC
29545 CTTTTATCAT
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 15 1.00
ACGTcount: A:0.16, C:0.26, G:0.19, T:0.39
Consensus pattern (16 bp):
TGGCACCTTTTATGCA
Found at i:31310 original size:16 final size:16
Alignment explanation
Indices: 31289--31320 Score: 64
Period size: 16 Copynumber: 2.0 Consensus size: 16
31279 CTAATCATTC
31289 TTGTAGAATTTATAGT
1 TTGTAGAATTTATAGT
31305 TTGTAGAATTTATAGT
1 TTGTAGAATTTATAGT
31321 GATTTTATAA
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 16 1.00
ACGTcount: A:0.31, C:0.00, G:0.19, T:0.50
Consensus pattern (16 bp):
TTGTAGAATTTATAGT
Found at i:31970 original size:2 final size:2
Alignment explanation
Indices: 31963--31989 Score: 54
Period size: 2 Copynumber: 13.5 Consensus size: 2
31953 CTAACCCTAC
31963 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 A
31990 ATGTTTTCAC
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 25 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:43722 original size:16 final size:16
Alignment explanation
Indices: 43701--43731 Score: 62
Period size: 16 Copynumber: 1.9 Consensus size: 16
43691 ATAATCAGTT
43701 TGGCACCTTTTATGCA
1 TGGCACCTTTTATGCA
43717 TGGCACCTTTTATGC
1 TGGCACCTTTTATGC
43732 CTTTTATCAT
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 15 1.00
ACGTcount: A:0.16, C:0.26, G:0.19, T:0.39
Consensus pattern (16 bp):
TGGCACCTTTTATGCA
Found at i:45523 original size:16 final size:16
Alignment explanation
Indices: 45502--45533 Score: 64
Period size: 16 Copynumber: 2.0 Consensus size: 16
45492 CTAATCATTC
45502 TTGTAGAATTTATAGT
1 TTGTAGAATTTATAGT
45518 TTGTAGAATTTATAGT
1 TTGTAGAATTTATAGT
45534 GATTTTATAA
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 16 1.00
ACGTcount: A:0.31, C:0.00, G:0.19, T:0.50
Consensus pattern (16 bp):
TTGTAGAATTTATAGT
Found at i:46187 original size:2 final size:2
Alignment explanation
Indices: 46180--46209 Score: 60
Period size: 2 Copynumber: 15.0 Consensus size: 2
46170 CCCTACATAC
46180 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
46210 TTAATGTTTT
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 28 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:57686 original size:16 final size:16
Alignment explanation
Indices: 57665--57695 Score: 62
Period size: 16 Copynumber: 1.9 Consensus size: 16
57655 ATAATCAGTT
57665 TGGCACCTTTTATGCA
1 TGGCACCTTTTATGCA
57681 TGGCACCTTTTATGC
1 TGGCACCTTTTATGC
57696 CTTTTATCAT
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 15 1.00
ACGTcount: A:0.16, C:0.26, G:0.19, T:0.39
Consensus pattern (16 bp):
TGGCACCTTTTATGCA
Found at i:59487 original size:16 final size:16
Alignment explanation
Indices: 59466--59497 Score: 64
Period size: 16 Copynumber: 2.0 Consensus size: 16
59456 CTAATCATTC
59466 TTGTAGAATTTATAGT
1 TTGTAGAATTTATAGT
59482 TTGTAGAATTTATAGT
1 TTGTAGAATTTATAGT
59498 GATTTTATAA
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 16 1.00
ACGTcount: A:0.31, C:0.00, G:0.19, T:0.50
Consensus pattern (16 bp):
TTGTAGAATTTATAGT
Found at i:66724 original size:18 final size:18
Alignment explanation
Indices: 66701--66746 Score: 65
Period size: 18 Copynumber: 2.6 Consensus size: 18
66691 ACCGGTTTCA
* *
66701 ACCCGACCCGACCCGTTT
1 ACCCGACCCGACCCATTG
*
66719 ACCCGACCCCACCCATTG
1 ACCCGACCCGACCCATTG
66737 ACCCGACCCG
1 ACCCGACCCG
66747 TTAACCGTTA
Statistics
Matches: 24, Mismatches: 4, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
18 24 1.00
ACGTcount: A:0.20, C:0.54, G:0.15, T:0.11
Consensus pattern (18 bp):
ACCCGACCCGACCCATTG
Found at i:69662 original size:63 final size:63
Alignment explanation
Indices: 69594--69717 Score: 155
Period size: 63 Copynumber: 2.0 Consensus size: 63
69584 CTAATGTGAC
* * *
69594 TCTTAGGTAGG-CTCTGCGGCCCTGAGATC-ATTCTCGGGTAGGCACT-ATGGCCCTAAGATGTG
1 TCTTAGGTAGGCCTC-ACGGCCCCGAAATCTA-TCTCGGGTAGGCACTCA-GGCCCTAAGATGTG
69656 T
63 T
* *
69657 TCTTAGGTAGGCCTCACGGCCCCGAAATCTATCTTGGGTAGGCTCTCAGGCCCTAAGATGT
1 TCTTAGGTAGGCCTCACGGCCCCGAAATCTATCTCGGGTAGGCACTCAGGCCCTAAGATGT
69718 TCCCTTAGGT
Statistics
Matches: 53, Mismatches: 5, Indels: 6
0.83 0.08 0.09
Matches are distributed among these distances:
63 48 0.91
64 5 0.09
ACGTcount: A:0.19, C:0.26, G:0.28, T:0.27
Consensus pattern (63 bp):
TCTTAGGTAGGCCTCACGGCCCCGAAATCTATCTCGGGTAGGCACTCAGGCCCTAAGATGTGT
Found at i:69678 original size:32 final size:31
Alignment explanation
Indices: 69594--69717 Score: 78
Period size: 31 Copynumber: 4.0 Consensus size: 31
69584 CTAATGTGAC
* *
69594 TCTTAGGTAGGCTCTGC-GGCCCTGAGAT-CA
1 TCTTAGGTAGGCTCT-CAGGCCCTAAGATGTA
** * *
69624 TTCTCGGGTAGGCACT-ATGGCCCTAAGATGTGT
1 -TCTTAGGTAGGCTCTCA-GGCCCTAAGATGT-A
* *
69657 TCTTAGGTAGGC-CTCACGGCCCCGAA-ATCTA
1 TCTTAGGTAGGCTCTCA-GG-CCCTAAGATGTA
*
69688 TCTTGGGTAGGCTCTCAGGCCCTAAGATGT
1 TCTTAGGTAGGCTCTCAGGCCCTAAGATGT
69718 TCCCTTAGGT
Statistics
Matches: 70, Mismatches: 15, Indels: 16
0.69 0.15 0.16
Matches are distributed among these distances:
30 5 0.07
31 40 0.57
32 20 0.29
33 5 0.07
ACGTcount: A:0.19, C:0.26, G:0.28, T:0.27
Consensus pattern (31 bp):
TCTTAGGTAGGCTCTCAGGCCCTAAGATGTA
Found at i:74234 original size:16 final size:16
Alignment explanation
Indices: 74209--74240 Score: 55
Period size: 16 Copynumber: 2.0 Consensus size: 16
74199 CTAATCGTTC
74209 TTGTACAATTTATAGT
1 TTGTACAATTTATAGT
*
74225 TTGTAGAATTTATAGT
1 TTGTACAATTTATAGT
74241 GATTTTATAA
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
16 15 1.00
ACGTcount: A:0.31, C:0.03, G:0.16, T:0.50
Consensus pattern (16 bp):
TTGTACAATTTATAGT
Found at i:77507 original size:22 final size:22
Alignment explanation
Indices: 77482--77523 Score: 75
Period size: 22 Copynumber: 1.9 Consensus size: 22
77472 GAAAGTCAAC
77482 GGTCAACGGTCCGGTCGGGTCG
1 GGTCAACGGTCCGGTCGGGTCG
*
77504 GGTCAACGGTCGGGTCGGGT
1 GGTCAACGGTCCGGTCGGGT
77524 TAGACCGGTC
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
22 19 1.00
ACGTcount: A:0.10, C:0.24, G:0.48, T:0.19
Consensus pattern (22 bp):
GGTCAACGGTCCGGTCGGGTCG
Found at i:77541 original size:9 final size:9
Alignment explanation
Indices: 77527--77579 Score: 52
Period size: 9 Copynumber: 5.7 Consensus size: 9
77517 GTCGGGTTAG
77527 ACCGGTCAA
1 ACCGGTCAA
*
77536 ACCGGTTCAG
1 ACCGG-TCAA
77546 ACCGGTCAA
1 ACCGGTCAA
* *
77555 ACCGATTCGA
1 ACCG-GTCAA
*
77565 ACCGGTTAA
1 ACCGGTCAA
77574 ACCGGT
1 ACCGGT
77580 TTCCAGCAGC
Statistics
Matches: 35, Mismatches: 7, Indels: 4
0.76 0.15 0.09
Matches are distributed among these distances:
9 20 0.57
10 15 0.43
ACGTcount: A:0.28, C:0.30, G:0.25, T:0.17
Consensus pattern (9 bp):
ACCGGTCAA
Found at i:77547 original size:19 final size:19
Alignment explanation
Indices: 77521--77580 Score: 79
Period size: 19 Copynumber: 3.2 Consensus size: 19
77511 GGTCGGGTCG
77521 GGTT-AGACCGGTCAAACC
1 GGTTCAGACCGGTCAAACC
77539 GGTTCAGACCGGTCAAACC
1 GGTTCAGACCGGTCAAACC
* *
77558 GATTC-GAACCGGTTAAACC
1 GGTTCAG-ACCGGTCAAACC
77577 GGTT
1 GGTT
77581 TCCAGCAGCC
Statistics
Matches: 37, Mismatches: 3, Indels: 3
0.86 0.07 0.07
Matches are distributed among these distances:
18 5 0.14
19 32 0.86
ACGTcount: A:0.27, C:0.27, G:0.27, T:0.20
Consensus pattern (19 bp):
GGTTCAGACCGGTCAAACC
Found at i:84706 original size:83 final size:83
Alignment explanation
Indices: 84612--84806 Score: 264
Period size: 83 Copynumber: 2.3 Consensus size: 83
84602 CAAAATGGTA
*
84612 ACTTTAGCGGCGTTTTTATACAAACGCCGCAATAAGATTAATCTATAGTGGCATTTTTTAAACAA
1 ACTTTAGCGGCGTTTTTATACAAACGCCGCAATAAGATTAATATATAGTGGCATTTTTTAAACAA
*
84677 ACGTTGCAACAAAGTAGT
66 ACGTCGCAACAAAGTAGT
* * * * * * * *
84695 ACTTTAGCGGCGCTGTTAGACAAACGCCGCAATAGGTTTCATATATAGTGTCATTTTTTCAACAA
1 ACTTTAGCGGCGTTTTTATACAAACGCCGCAATAAGATTAATATATAGTGGCATTTTTTAAACAA
* *
84760 ACGTCGCACCATAGTAGT
66 ACGTCGCAACAAAGTAGT
* *
84778 AATTTAGCGGTGTTTTTATACAAACGCCG
1 ACTTTAGCGGCGTTTTTATACAAACGCCG
84807 TAATGAGTAA
Statistics
Matches: 95, Mismatches: 17, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
83 95 1.00
ACGTcount: A:0.31, C:0.19, G:0.18, T:0.31
Consensus pattern (83 bp):
ACTTTAGCGGCGTTTTTATACAAACGCCGCAATAAGATTAATATATAGTGGCATTTTTTAAACAA
ACGTCGCAACAAAGTAGT
Found at i:85062 original size:41 final size:41
Alignment explanation
Indices: 84972--85064 Score: 98
Period size: 41 Copynumber: 2.3 Consensus size: 41
84962 AAATACTAAG
* * * * *
84972 ACTTTCGTGTCGTTTGTTTACAAACGCCGCTATAAACTCGT
1 ACTTTAGTGGCGTTTGTTTAAAAACACCGCTATAAACTCAT
* * *
85013 ACTATAGTGGCGTTTGTTTAAAAACATCGCTATAGAA-TTAT
1 ACTTTAGTGGCGTTTGTTTAAAAACACCGCTATA-AACTCAT
85054 ACTTTAGTGGC
1 ACTTTAGTGGC
85065 TTTTTTTCCA
Statistics
Matches: 42, Mismatches: 9, Indels: 2
0.79 0.17 0.04
Matches are distributed among these distances:
41 40 0.95
42 2 0.05
ACGTcount: A:0.27, C:0.18, G:0.18, T:0.37
Consensus pattern (41 bp):
ACTTTAGTGGCGTTTGTTTAAAAACACCGCTATAAACTCAT
Found at i:85604 original size:40 final size:41
Alignment explanation
Indices: 85560--85636 Score: 93
Period size: 40 Copynumber: 1.9 Consensus size: 41
85550 TTTGTATAAA
*
85560 AACACCGCTAGAGAGTTGT-TTGTAGTGGCATTTTTACACG
1 AACACCGCTAGAGACTTGTATTGTAGTGGCATTTTTACACG
* * * * *
85600 AACACTGCTATAGACTTGTATTTTAGTGTCGTTTTTA
1 AACACCGCTAGAGACTTGTATTGTAGTGGCATTTTTA
85637 TTCAAACGCC
Statistics
Matches: 30, Mismatches: 6, Indels: 1
0.81 0.16 0.03
Matches are distributed among these distances:
40 16 0.53
41 14 0.47
ACGTcount: A:0.25, C:0.16, G:0.21, T:0.39
Consensus pattern (41 bp):
AACACCGCTAGAGACTTGTATTGTAGTGGCATTTTTACACG
Found at i:90000 original size:44 final size:43
Alignment explanation
Indices: 89897--90012 Score: 151
Period size: 43 Copynumber: 2.7 Consensus size: 43
89887 TAAAAGTGGC
* * ** *
89897 TATCACTTGTCATTTAATTATTTTTGGATCGGCTTAGAAGGGA
1 TATCACTTGTCATTTAGTTATATTTGGATCGGCCAAGAAGAGA
* *
89940 TATCACTTGTCGTTTAGTTATATTTGGATCGGCCAAGATGCAGA
1 TATCACTTGTCATTTAGTTATATTTGGATCGGCCAAGAAG-AGA
*
89984 TATCACTTATCATTTAGTTATATTTGGAT
1 TATCACTTGTCATTTAGTTATATTTGGAT
90013 TGCCTTAGAT
Statistics
Matches: 63, Mismatches: 9, Indels: 1
0.86 0.12 0.01
Matches are distributed among these distances:
43 34 0.54
44 29 0.46
ACGTcount: A:0.26, C:0.13, G:0.19, T:0.42
Consensus pattern (43 bp):
TATCACTTGTCATTTAGTTATATTTGGATCGGCCAAGAAGAGA
Found at i:90076 original size:44 final size:44
Alignment explanation
Indices: 89897--90078 Score: 181
Period size: 44 Copynumber: 4.2 Consensus size: 44
89887 TAAAAGTGGC
* * *
89897 TATCACTTGTCATTTAATTATTTTTGGATCGGCTTAGAAGGG-A
1 TATCACTTGTCATTTAGTTATATTTGGATCGGCTTAGATGGGAA
* ** *
89940 TATCACTTGTCGTTTAGTTATATTTGGATCGGCCAAGAT-GCAGA
1 TATCACTTGTCATTTAGTTATATTTGGATCGGCTTAGATGGGA-A
* * * **
89984 TATCACTTATCATTTAGTTATATTTGGATTGCCTTAGATGGGGT
1 TATCACTTGTCATTTAGTTATATTTGGATCGGCTTAGATGGGAA
* * *
90028 TTTCACTTGTCGTTTAGTTATATTTGGA-CTGACTTAGATGGGAA
1 TATCACTTGTCATTTAGTTATATTTGGATC-GGCTTAGATGGGAA
*
90072 TTTCACT
1 TATCACT
90079 CGTTGAACAT
Statistics
Matches: 112, Mismatches: 23, Indels: 7
0.79 0.16 0.05
Matches are distributed among these distances:
42 1 0.01
43 33 0.29
44 77 0.69
45 1 0.01
ACGTcount: A:0.24, C:0.13, G:0.21, T:0.42
Consensus pattern (44 bp):
TATCACTTGTCATTTAGTTATATTTGGATCGGCTTAGATGGGAA
Found at i:93675 original size:12 final size:14
Alignment explanation
Indices: 93656--93710 Score: 71
Period size: 14 Copynumber: 4.1 Consensus size: 14
93646 AACTTGCATG
93656 ATAAATA-ATATAT
1 ATAAATATATATAT
93669 A-AAATA-ATATAT
1 ATAAATATATATAT
*
93681 ATATATATATATAT
1 ATAAATATATATAT
*
93695 ATATATATATATAT
1 ATAAATATATATAT
93709 AT
1 AT
93711 TTAATGTTTT
Statistics
Matches: 39, Mismatches: 1, Indels: 3
0.91 0.02 0.07
Matches are distributed among these distances:
12 12 0.31
13 5 0.13
14 22 0.56
ACGTcount: A:0.56, C:0.00, G:0.00, T:0.44
Consensus pattern (14 bp):
ATAAATATATATAT
Found at i:93680 original size:2 final size:2
Alignment explanation
Indices: 93663--93710 Score: 73
Period size: 2 Copynumber: 25.0 Consensus size: 2
93653 ATGATAAATA
*
93663 AT AT AT A- AA AT A- AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
93703 AT AT AT AT
1 AT AT AT AT
93711 TTAATGTTTT
Statistics
Matches: 43, Mismatches: 1, Indels: 4
0.90 0.02 0.08
Matches are distributed among these distances:
1 2 0.05
2 41 0.95
ACGTcount: A:0.54, C:0.00, G:0.00, T:0.46
Consensus pattern (2 bp):
AT
Found at i:98062 original size:18 final size:18
Alignment explanation
Indices: 98022--98064 Score: 50
Period size: 18 Copynumber: 2.4 Consensus size: 18
98012 GGTCATAACC
* *
98022 TGACCCGACCCGTTTACC
1 TGACCCGACCCGTTGACA
* *
98040 CGACCCGACCTGTTGACA
1 TGACCCGACCCGTTGACA
98058 TGACCCG
1 TGACCCG
98065 TTGACCCGAC
Statistics
Matches: 20, Mismatches: 5, Indels: 0
0.80 0.20 0.00
Matches are distributed among these distances:
18 20 1.00
ACGTcount: A:0.19, C:0.42, G:0.21, T:0.19
Consensus pattern (18 bp):
TGACCCGACCCGTTGACA
Found at i:98075 original size:13 final size:13
Alignment explanation
Indices: 98041--98083 Score: 59
Period size: 13 Copynumber: 3.3 Consensus size: 13
98031 CCGTTTACCC
*
98041 GACCCGACCTGTT
1 GACCCGACCCGTT
**
98054 GACATGACCCGTT
1 GACCCGACCCGTT
98067 GACCCGACCCGTT
1 GACCCGACCCGTT
98080 GACC
1 GACC
98084 GTTGACCGTT
Statistics
Matches: 25, Mismatches: 5, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
13 25 1.00
ACGTcount: A:0.19, C:0.40, G:0.23, T:0.19
Consensus pattern (13 bp):
GACCCGACCCGTT
Found at i:100225 original size:24 final size:24
Alignment explanation
Indices: 100197--100315 Score: 141
Period size: 24 Copynumber: 5.0 Consensus size: 24
100187 TTCGATTTGA
100197 ATTCTGATCTGATACTTGACATGG
1 ATTCTGATCTGATACTTGACATGG
*
100221 TTTCTGATCTGATA-TCTGACATGG
1 ATTCTGATCTGATACT-TGACATGG
* * *
100245 ATTATGATCGGATACTTGACTTGG
1 ATTCTGATCTGATACTTGACATGG
* *
100269 ATTCTGATATGATACTTGACCTGG
1 ATTCTGATCTGATACTTGACATGG
* * *
100293 ATTTTGATATGATACTTAACATG
1 ATTCTGATCTGATACTTGACATG
100316 AATTATGTTT
Statistics
Matches: 81, Mismatches: 12, Indels: 4
0.84 0.12 0.04
Matches are distributed among these distances:
23 1 0.01
24 79 0.98
25 1 0.01
ACGTcount: A:0.26, C:0.14, G:0.20, T:0.39
Consensus pattern (24 bp):
ATTCTGATCTGATACTTGACATGG
Found at i:100491 original size:43 final size:43
Alignment explanation
Indices: 100430--100524 Score: 181
Period size: 43 Copynumber: 2.2 Consensus size: 43
100420 GGGCCTTACT
*
100430 TGGTGTGTTGGTGGGTGTATGGTTCTGGGGAACCTACACATTA
1 TGGTGTGTTGGTGGGTGTATGGTTCTGGGAAACCTACACATTA
100473 TGGTGTGTTGGTGGGTGTATGGTTCTGGGAAACCTACACATTA
1 TGGTGTGTTGGTGGGTGTATGGTTCTGGGAAACCTACACATTA
100516 TGGTGTGTT
1 TGGTGTGTT
100525 TGGTTGGAGG
Statistics
Matches: 51, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
43 51 1.00
ACGTcount: A:0.16, C:0.11, G:0.37, T:0.37
Consensus pattern (43 bp):
TGGTGTGTTGGTGGGTGTATGGTTCTGGGAAACCTACACATTA
Found at i:102508 original size:22 final size:23
Alignment explanation
Indices: 102483--102532 Score: 75
Period size: 23 Copynumber: 2.2 Consensus size: 23
102473 AAATTCAAAT
*
102483 TATTTT-TTAGAATTATCTTTTG
1 TATTTTCTTAGAATTATCTTTAG
*
102505 TATTTTCTTAGGATTATCTTTAG
1 TATTTTCTTAGAATTATCTTTAG
102528 TATTT
1 TATTT
102533 CTAGGGTTTT
Statistics
Matches: 25, Mismatches: 2, Indels: 1
0.89 0.07 0.04
Matches are distributed among these distances:
22 6 0.24
23 19 0.76
ACGTcount: A:0.22, C:0.06, G:0.10, T:0.62
Consensus pattern (23 bp):
TATTTTCTTAGAATTATCTTTAG
Found at i:113807 original size:27 final size:28
Alignment explanation
Indices: 113754--113808 Score: 67
Period size: 28 Copynumber: 2.0 Consensus size: 28
113744 ATTTTAAAAA
* ** *
113754 TTGAGTGATGAAATTAAAAAGTTTAAAT
1 TTGAGTGATCAAAAGAAAAAGTATAAAT
113782 TTGAGTGATCAAAAGAAAAA-TATAAAT
1 TTGAGTGATCAAAAGAAAAAGTATAAAT
113809 GAAACTGAGT
Statistics
Matches: 23, Mismatches: 4, Indels: 1
0.82 0.14 0.04
Matches are distributed among these distances:
27 6 0.26
28 17 0.74
ACGTcount: A:0.51, C:0.02, G:0.16, T:0.31
Consensus pattern (28 bp):
TTGAGTGATCAAAAGAAAAAGTATAAAT
Found at i:115207 original size:21 final size:21
Alignment explanation
Indices: 115182--115229 Score: 78
Period size: 21 Copynumber: 2.3 Consensus size: 21
115172 CCTAATATTG
115182 CAATGTCAAAATTAGGTGCAA
1 CAATGTCAAAATTAGGTGCAA
*
115203 CAATGACAAAATTAGGTGCAA
1 CAATGTCAAAATTAGGTGCAA
*
115224 TAATGT
1 CAATGT
115230 TTGAAAATTA
Statistics
Matches: 24, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
21 24 1.00
ACGTcount: A:0.44, C:0.12, G:0.19, T:0.25
Consensus pattern (21 bp):
CAATGTCAAAATTAGGTGCAA
Found at i:119848 original size:21 final size:21
Alignment explanation
Indices: 119822--119861 Score: 80
Period size: 21 Copynumber: 1.9 Consensus size: 21
119812 CCTAATATTG
119822 CAATGTCAAAATTAGGTGCTA
1 CAATGTCAAAATTAGGTGCTA
119843 CAATGTCAAAATTAGGTGC
1 CAATGTCAAAATTAGGTGC
119862 AATAATGTTT
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
21 19 1.00
ACGTcount: A:0.38, C:0.15, G:0.20, T:0.28
Consensus pattern (21 bp):
CAATGTCAAAATTAGGTGCTA
Found at i:119868 original size:21 final size:21
Alignment explanation
Indices: 119822--119869 Score: 78
Period size: 21 Copynumber: 2.3 Consensus size: 21
119812 CCTAATATTG
*
119822 CAATGTCAAAATTAGGTGCTA
1 CAATGTCAAAATTAGGTGCAA
119843 CAATGTCAAAATTAGGTGCAA
1 CAATGTCAAAATTAGGTGCAA
*
119864 TAATGT
1 CAATGT
119870 TTGAAAATTA
Statistics
Matches: 25, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
21 25 1.00
ACGTcount: A:0.40, C:0.12, G:0.19, T:0.29
Consensus pattern (21 bp):
CAATGTCAAAATTAGGTGCAA
Found at i:121220 original size:20 final size:20
Alignment explanation
Indices: 121197--121234 Score: 58
Period size: 20 Copynumber: 1.9 Consensus size: 20
121187 CGGTACTAAC
121197 CCTTGAGTATCGATACTCCA
1 CCTTGAGTATCGATACTCCA
* *
121217 CCTTGGGTATTGATACTC
1 CCTTGAGTATCGATACTC
121235 TACAACTAAT
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:0.21, C:0.26, G:0.18, T:0.34
Consensus pattern (20 bp):
CCTTGAGTATCGATACTCCA
Found at i:125011 original size:28 final size:28
Alignment explanation
Indices: 124934--125014 Score: 74
Period size: 28 Copynumber: 2.8 Consensus size: 28
124924 GAAATGTTAG
*
124934 AAGTTT-GTGGACTAATTTAGAACATATTCA
1 AAGTTTAG-GGACAAATTTA-AA-ATATTCA
* * * *
124964 TAGTTTAGGGATAAAATTAAAATATTTA
1 AAGTTTAGGGACAAATTTAAAATATTCA
*
124992 AAGTTTAGGGACCAATTTAAAAT
1 AAGTTTAGGGACAAATTTAAAAT
125015 GAGGGGTCAT
Statistics
Matches: 41, Mismatches: 9, Indels: 4
0.76 0.17 0.07
Matches are distributed among these distances:
28 25 0.61
29 2 0.05
30 13 0.32
31 1 0.02
ACGTcount: A:0.42, C:0.06, G:0.16, T:0.36
Consensus pattern (28 bp):
AAGTTTAGGGACAAATTTAAAATATTCA
Found at i:132579 original size:24 final size:24
Alignment explanation
Indices: 132547--132617 Score: 133
Period size: 24 Copynumber: 3.0 Consensus size: 24
132537 CCAGTCTCGT
*
132547 GAGAATCAAAAAGGTACGTAACAC
1 GAGACTCAAAAAGGTACGTAACAC
132571 GAGACTCAAAAAGGTACGTAACAC
1 GAGACTCAAAAAGGTACGTAACAC
132595 GAGACTCAAAAAGGTACGTAACA
1 GAGACTCAAAAAGGTACGTAACA
132618 TATTCATATT
Statistics
Matches: 46, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
24 46 1.00
ACGTcount: A:0.48, C:0.18, G:0.21, T:0.13
Consensus pattern (24 bp):
GAGACTCAAAAAGGTACGTAACAC
Found at i:134289 original size:60 final size:59
Alignment explanation
Indices: 134217--134386 Score: 160
Period size: 60 Copynumber: 2.8 Consensus size: 59
134207 GGGGAAGTTA
* ** * * *
134217 TTTGAATGTTCAAAATTTTGAGGACTAATTTAGAATTAGGGTCATTGTTTGGGGATGAAT
1 TTTGAATATTCAAAATTTT-AGGACTAATTTAGAAGGAGAGACATAGTTTGGGGATGAAT
* * * * *
134277 TTTGAATATTCAAAATTTTAAGGGCCAATTTAGAAGGATAGACGTAGTTTGGGGATGTAT
1 TTTGAATATTCAAAATTTT-AGGACTAATTTAGAAGGAGAGACATAGTTTGGGGATGAAT
* * * * * *
134337 TTAGAATATTTAAAAGTTTTAGGACTAATTTAAAATGTGAGTCATAGTTT
1 TTTGAATATTCAAAA-TTTTAGGACTAATTTAGAAGGAGAGACATAGTTT
134387 AAGGACTAAT
Statistics
Matches: 87, Mismatches: 22, Indels: 2
0.78 0.20 0.02
Matches are distributed among these distances:
60 83 0.95
61 4 0.05
ACGTcount: A:0.34, C:0.05, G:0.22, T:0.39
Consensus pattern (59 bp):
TTTGAATATTCAAAATTTTAGGACTAATTTAGAAGGAGAGACATAGTTTGGGGATGAAT
Found at i:135637 original size:19 final size:19
Alignment explanation
Indices: 135613--135651 Score: 69
Period size: 19 Copynumber: 2.1 Consensus size: 19
135603 CCCACTTAAT
135613 GCATTATAAGGCAAAGAGA
1 GCATTATAAGGCAAAGAGA
*
135632 GCATTATAAGGCAACGAGA
1 GCATTATAAGGCAAAGAGA
135651 G
1 G
135652 TGCCTCCAGG
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
19 19 1.00
ACGTcount: A:0.44, C:0.13, G:0.28, T:0.15
Consensus pattern (19 bp):
GCATTATAAGGCAAAGAGA
Found at i:151627 original size:60 final size:61
Alignment explanation
Indices: 151563--151693 Score: 171
Period size: 60 Copynumber: 2.2 Consensus size: 61
151553 TACTCTATTT
* *
151563 GACGAGAAGATGAGG-GAAAA-TCCTTCAATCGAAAAGAAGGGGGTGAAGAA-TACTTGAATC
1 GACGAGAAGA-GAGGTGAAAAGTACTTCAATCGAAAAGAAGGGGGTGAA-AAGTACTTCAATC
* **
151623 GACGAGAAG-GGGGTGAAAAGTACTTCAATCGACGAGAAGGGGGTGAAAAGTACTTCAATC
1 GACGAGAAGAGAGGTGAAAAGTACTTCAATCGAAAAGAAGGGGGTGAAAAGTACTTCAATC
151683 GACGAGAAGAG
1 GACGAGAAGAG
151694 GACGAAGAAC
Statistics
Matches: 62, Mismatches: 5, Indels: 7
0.84 0.07 0.09
Matches are distributed among these distances:
58 3 0.05
59 7 0.11
60 51 0.82
61 1 0.02
ACGTcount: A:0.40, C:0.12, G:0.33, T:0.15
Consensus pattern (61 bp):
GACGAGAAGAGAGGTGAAAAGTACTTCAATCGAAAAGAAGGGGGTGAAAAGTACTTCAATC
Found at i:151711 original size:30 final size:30
Alignment explanation
Indices: 151585--151691 Score: 171
Period size: 30 Copynumber: 3.6 Consensus size: 30
151575 AGGGAAAATC
**
151585 CTTCAATCGAAAAGAAGGGGGTGAAGAA-TA
1 CTTCAATCGACGAGAAGGGGGTGAA-AAGTA
*
151615 CTTGAATCGACGAGAAGGGGGTGAAAAGTA
1 CTTCAATCGACGAGAAGGGGGTGAAAAGTA
151645 CTTCAATCGACGAGAAGGGGGTGAAAAGTA
1 CTTCAATCGACGAGAAGGGGGTGAAAAGTA
151675 CTTCAATCGACGAGAAG
1 CTTCAATCGACGAGAAG
151692 AGGACGAAGA
Statistics
Matches: 72, Mismatches: 4, Indels: 2
0.92 0.05 0.03
Matches are distributed among these distances:
29 2 0.03
30 70 0.97
ACGTcount: A:0.38, C:0.13, G:0.32, T:0.17
Consensus pattern (30 bp):
CTTCAATCGACGAGAAGGGGGTGAAAAGTA
Found at i:151720 original size:30 final size:29
Alignment explanation
Indices: 151607--151769 Score: 93
Period size: 30 Copynumber: 5.6 Consensus size: 29
151597 AGAAGGGGGT
* * * * *
151607 GAAGAATACTTGAATCGACGAGAAGGGGGT
1 GAAGAATACTTCAATTGAAGAGAA-GAGGA
* * * *
151637 GAA-AAGTACTTCAATCGACGAGAAGGGGGT
1 GAAGAA-TACTTCAATTGAAGAGAA-GAGGA
* *
151667 GAA-AAGTACTTCAATCGACGAGAAGAGGA
1 GAAGAA-TACTTCAATTGAAGAGAAGAGGA
* *
151696 CGAAGAACACTTCAATTGGAGAGAAGA--A
1 -GAAGAATACTTCAATTGAAGAGAAGAGGA
* *
151724 GAAGAATACTCCAATTGAAGAGTAG-GGAA
1 GAAGAATACTTCAATTGAAGAGAAGAGG-A
151753 GGAAGAATACTTCAATT
1 -GAAGAATACTTCAATT
151770 TGCAAGAACA
Statistics
Matches: 114, Mismatches: 12, Indels: 14
0.81 0.09 0.10
Matches are distributed among these distances:
27 21 0.18
28 1 0.01
29 6 0.05
30 84 0.74
31 2 0.02
ACGTcount: A:0.42, C:0.12, G:0.29, T:0.17
Consensus pattern (29 bp):
GAAGAATACTTCAATTGAAGAGAAGAGGA
Found at i:151721 original size:60 final size:60
Alignment explanation
Indices: 151563--151711 Score: 160
Period size: 60 Copynumber: 2.5 Consensus size: 60
151553 TACTCTATTT
* * * ** *
151563 GACGAGAAGATGAGGGAAAATC-CTTCAATCGAAAAGAAGGGGGTGAAGAATACTTGAATC
1 GACGAGAAGAGGA-CGAAAAGCACTTCAATCGACGAGAAGGGGGTGAAGAATACTTCAATC
* ** *
151623 GACGAGAAGGGGGTGAAAAGTACTTCAATCGACGAGAAGGGGGTGAA-AAGTACTTCAATC
1 GACGAGAAGAGGACGAAAAGCACTTCAATCGACGAGAAGGGGGTGAAGAA-TACTTCAATC
151683 GACGAGAAGAGGACGAAGAA-CACTTCAAT
1 GACGAGAAGAGGACGAA-AAGCACTTCAAT
151712 TGGAGAGAAG
Statistics
Matches: 73, Mismatches: 13, Indels: 6
0.79 0.14 0.07
Matches are distributed among these distances:
59 7 0.10
60 64 0.88
61 2 0.03
ACGTcount: A:0.40, C:0.13, G:0.31, T:0.15
Consensus pattern (60 bp):
GACGAGAAGAGGACGAAAAGCACTTCAATCGACGAGAAGGGGGTGAAGAATACTTCAATC
Found at i:151971 original size:16 final size:16
Alignment explanation
Indices: 151920--151971 Score: 54
Period size: 16 Copynumber: 3.2 Consensus size: 16
151910 GTTTACTATC
151920 TAAATTTATTAAT-TTT
1 TAAATTT-TTAATATTT
* *
151936 GATATATTTTAATA-TT
1 TAAAT-TTTTAATATTT
151952 TAAATTTTTAATATTT
1 TAAATTTTTAATATTT
151968 TAAA
1 TAAA
151972 ATTATATTTA
Statistics
Matches: 29, Mismatches: 4, Indels: 6
0.74 0.10 0.15
Matches are distributed among these distances:
15 8 0.28
16 19 0.66
17 2 0.07
ACGTcount: A:0.40, C:0.00, G:0.02, T:0.58
Consensus pattern (16 bp):
TAAATTTTTAATATTT
Found at i:161423 original size:30 final size:30
Alignment explanation
Indices: 161387--161583 Score: 238
Period size: 30 Copynumber: 6.6 Consensus size: 30
161377 AGGGAAAATC
161387 CTTCAATCGAC-AGGAAGGGGGTGAAGAATA
1 CTTCAATCGACGA-GAAGGGGGTGAAGAATA
* *
161417 CTTCAATGGATGAGAAGGGGGTGAA-AAGTA
1 CTTCAATCGACGAGAAGGGGGTGAAGAA-TA
161447 CTTCAATCGACGAGAAGGGGGTGAA-AAGTA
1 CTTCAATCGACGAGAAGGGGGTGAAGAA-TA
* *
161477 CTTCAATCGACGAGAAGGGGGTGAAGGACA
1 CTTCAATCGACGAGAAGGGGGTGAAGAATA
* *
161507 CTTCAATCGAAGAGAAGGGGGTGACGAATA
1 CTTCAATCGACGAGAAGGGGGTGAAGAATA
* ** *
161537 CTTCAATCGACGAGAAGAGGACGAAGAACA
1 CTTCAATCGACGAGAAGGGGGTGAAGAATA
* *
161567 CTTCAATTGAAGAGAAG
1 CTTCAATCGACGAGAAG
161584 AAGAAGAAGA
Statistics
Matches: 146, Mismatches: 18, Indels: 6
0.86 0.11 0.04
Matches are distributed among these distances:
29 2 0.01
30 142 0.97
31 2 0.01
ACGTcount: A:0.38, C:0.14, G:0.32, T:0.16
Consensus pattern (30 bp):
CTTCAATCGACGAGAAGGGGGTGAAGAATA
Found at i:161570 original size:90 final size:90
Alignment explanation
Indices: 161365--161583 Score: 248
Period size: 90 Copynumber: 2.4 Consensus size: 90
161355 TACTCTATTT
* * * * * *
161365 GACGAGAAGATGAGGGAAAATC-CTTCAATCGAC-AGGAAGGGGGTGAAGAATACTTCAATGGAT
1 GACGAGAAGAGGA-CGAAAAGCACTTCAATCGACGA-GAAGGGGGTGAAGAACACTTCAATCGAA
161428 GAGAAGGGGGTGAAAAGTACTTCAATC
64 GAGAAGGGGGTGAAAAGTACTTCAATC
* ** * *
161455 GACGAGAAGGGGGTGAAAAGTACTTCAATCGACGAGAAGGGGGTGAAGGACACTTCAATCGAAGA
1 GACGAGAAGAGGACGAAAAGCACTTCAATCGACGAGAAGGGGGTGAAGAACACTTCAATCGAAGA
*
161520 GAAGGGGGTGACGAA-TACTTCAATC
66 GAAGGGGGTGA-AAAGTACTTCAATC
* *
161545 GACGAGAAGAGGACGAAGAA-CACTTCAATTGAAGAGAAG
1 GACGAGAAGAGGACGAA-AAGCACTTCAATCGACGAGAAG
161584 AAGAAGAAGA
Statistics
Matches: 108, Mismatches: 17, Indels: 8
0.81 0.13 0.06
Matches are distributed among these distances:
89 5 0.05
90 98 0.91
91 5 0.05
ACGTcount: A:0.38, C:0.13, G:0.33, T:0.16
Consensus pattern (90 bp):
GACGAGAAGAGGACGAAAAGCACTTCAATCGACGAGAAGGGGGTGAAGAACACTTCAATCGAAGA
GAAGGGGGTGAAAAGTACTTCAATC
Found at i:161596 original size:33 final size:33
Alignment explanation
Indices: 161549--161613 Score: 94
Period size: 33 Copynumber: 2.0 Consensus size: 33
161539 TCAATCGACG
* * *
161549 AGAAGAGGACGAAGAACACTTCAATTGAAGAGA
1 AGAAGAAGAAGAAGAACACTCCAATTGAAGAGA
*
161582 AGAAGAAGAAGAAGAATACTCCAATTGAAGAG
1 AGAAGAAGAAGAAGAACACTCCAATTGAAGAG
161614 TAGGGAAGGA
Statistics
Matches: 28, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
33 28 1.00
ACGTcount: A:0.51, C:0.11, G:0.26, T:0.12
Consensus pattern (33 bp):
AGAAGAAGAAGAAGAACACTCCAATTGAAGAGA
Found at i:161626 original size:33 final size:34
Alignment explanation
Indices: 161549--161627 Score: 92
Period size: 33 Copynumber: 2.4 Consensus size: 34
161539 TCAATCGACG
* *
161549 AGAAG-AGGACGAAGAACACTTCAATTGAAGAGA
1 AGAAGAAGGAAGAAGAACACTCCAATTGAAGAGA
* *
161582 AGAAGAA-GAAGAAGAATACTCCAATTGAAGAGT
1 AGAAGAAGGAAGAAGAACACTCCAATTGAAGAGA
*
161615 AG-GGAAGGAAGAA
1 AGAAGAAGGAAGAA
161628 TACTTTAATT
Statistics
Matches: 39, Mismatches: 5, Indels: 4
0.81 0.10 0.08
Matches are distributed among these distances:
32 3 0.08
33 35 0.90
34 1 0.03
ACGTcount: A:0.51, C:0.09, G:0.29, T:0.11
Consensus pattern (34 bp):
AGAAGAAGGAAGAAGAACACTCCAATTGAAGAGA
Found at i:161839 original size:16 final size:15
Alignment explanation
Indices: 161779--161835 Score: 62
Period size: 16 Copynumber: 3.7 Consensus size: 15
161769 AAATTGTGTA
*
161779 TTTAATATCTAAATT
1 TTTAATATTTAAATT
*
161794 TATTAAT-TTTGATATAT
1 T-TTAATATTT-AAAT-T
161811 TTTAATATTTAAATT
1 TTTAATATTTAAATT
161826 TTTAATATTT
1 TTTAATATTT
161836 TAAAATTATA
Statistics
Matches: 35, Mismatches: 3, Indels: 8
0.76 0.07 0.17
Matches are distributed among these distances:
15 14 0.40
16 16 0.46
17 5 0.14
ACGTcount: A:0.37, C:0.02, G:0.02, T:0.60
Consensus pattern (15 bp):
TTTAATATTTAAATT
Found at i:162075 original size:15 final size:15
Alignment explanation
Indices: 162055--162084 Score: 51
Period size: 15 Copynumber: 2.0 Consensus size: 15
162045 ATTAATATAT
162055 AATTAAAAATAAAAA
1 AATTAAAAATAAAAA
*
162070 AATTAAATATAAAAA
1 AATTAAAAATAAAAA
162085 TTAGAGTGAT
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
15 14 1.00
ACGTcount: A:0.77, C:0.00, G:0.00, T:0.23
Consensus pattern (15 bp):
AATTAAAAATAAAAA
Found at i:164303 original size:49 final size:49
Alignment explanation
Indices: 164246--164341 Score: 192
Period size: 49 Copynumber: 2.0 Consensus size: 49
164236 TATAAGTCTC
164246 GCTAAGCTTTAAAATTAATCATTTGTTTCCAAATGCTTCAACTGCACTA
1 GCTAAGCTTTAAAATTAATCATTTGTTTCCAAATGCTTCAACTGCACTA
164295 GCTAAGCTTTAAAATTAATCATTTGTTTCCAAATGCTTCAACTGCAC
1 GCTAAGCTTTAAAATTAATCATTTGTTTCCAAATGCTTCAACTGCAC
164342 AATTTATCAA
Statistics
Matches: 47, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
49 47 1.00
ACGTcount: A:0.32, C:0.21, G:0.10, T:0.36
Consensus pattern (49 bp):
GCTAAGCTTTAAAATTAATCATTTGTTTCCAAATGCTTCAACTGCACTA
Found at i:178601 original size:30 final size:30
Alignment explanation
Indices: 178567--178783 Score: 213
Period size: 30 Copynumber: 7.2 Consensus size: 30
178557 AGGGAAAATC
*
178567 CTTCAATCGACAAGAAGGGGGTGAAGAATA
1 CTTCAATCGACGAGAAGGGGGTGAAGAATA
*
178597 CTTCAATCGACGAGAAAGGGGTGAA-AAGTA
1 CTTCAATCGACGAGAAGGGGGTGAAGAA-TA
*
178627 CTTCAATCGACGAGAAGGGGGTGAAGAACA
1 CTTCAATCGACGAGAAGGGGGTGAAGAATA
* * *
178657 CTTCAATCGAAGAGAAGGAGGTGACGAATA
1 CTTCAATCGACGAGAAGGGGGTGAAGAATA
* ** *
178687 CTTCAATCGACGAGAAGAGGACGAAGAACA
1 CTTCAATCGACGAGAAGGGGGTGAAGAATA
* * ** **
178717 CTTCAATTGAAGAGAAGAAGAAGAAGAATA
1 CTTCAATCGACGAGAAGGGGGTGAAGAATA
* * * * *
178747 CTCCAATTGAAGAGTAGGGAAG-GAAGAATA
1 CTTCAATCGACGAGAAGGG-GGTGAAGAATA
178777 CTTCAAT
1 CTTCAAT
178784 TTGCAAGAAG
Statistics
Matches: 157, Mismatches: 27, Indels: 6
0.83 0.14 0.03
Matches are distributed among these distances:
29 2 0.01
30 153 0.97
31 2 0.01
ACGTcount: A:0.42, C:0.14, G:0.28, T:0.16
Consensus pattern (30 bp):
CTTCAATCGACGAGAAGGGGGTGAAGAATA
Found at i:178612 original size:60 final size:60
Alignment explanation
Indices: 178548--178734 Score: 236
Period size: 60 Copynumber: 3.1 Consensus size: 60
178538 TCTATTTGAC
* * * *
178548 GAGAAGATGAGG-GAAAATCCTTCAATCGACAAGAAGGGGGTGAAGAATACTTCAATCGAC
1 GAGAAGA-GAGGTGAAAATACTTCAATCGACGAGAAGGGGGTGAAGAACACTTCAATCGAA
*
178608 GAGAA-AGGGGTGAAAAGTACTTCAATCGACGAGAAGGGGGTGAAGAACACTTCAATCGAA
1 GAGAAGAGAGGTGAAAA-TACTTCAATCGACGAGAAGGGGGTGAAGAACACTTCAATCGAA
* * ** *
178668 GAGAAG-GAGGTGACGAATACTTCAATCGACGAGAAGAGGACGAAGAACACTTCAATTGAA
1 GAGAAGAGAGGTGA-AAATACTTCAATCGACGAGAAGGGGGTGAAGAACACTTCAATCGAA
178728 GAGAAGA
1 GAGAAGA
178735 AGAAGAAGAA
Statistics
Matches: 111, Mismatches: 11, Indels: 9
0.85 0.08 0.07
Matches are distributed among these distances:
58 3 0.03
59 6 0.05
60 100 0.90
61 2 0.02
ACGTcount: A:0.41, C:0.14, G:0.30, T:0.15
Consensus pattern (60 bp):
GAGAAGAGAGGTGAAAATACTTCAATCGACGAGAAGGGGGTGAAGAACACTTCAATCGAA
Found at i:181493 original size:14 final size:15
Alignment explanation
Indices: 181476--181504 Score: 51
Period size: 15 Copynumber: 2.0 Consensus size: 15
181466 TACATGATAT
181476 GCAT-AAACATAAGA
1 GCATAAAACATAAGA
181490 GCATAAAACATAAGA
1 GCATAAAACATAAGA
181505 TATATGATAT
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
14 4 0.29
15 10 0.71
ACGTcount: A:0.59, C:0.14, G:0.14, T:0.14
Consensus pattern (15 bp):
GCATAAAACATAAGA
Found at i:181830 original size:22 final size:21
Alignment explanation
Indices: 181777--181840 Score: 74
Period size: 21 Copynumber: 3.0 Consensus size: 21
181767 AGTCGAGGGT
* *
181777 TTCATAGGTCTTTTGGGACAA
1 TTCATAGGTCCTTCGGGACAA
*
181798 CTCATAGGTCCTTCGGGACATA
1 TTCATAGGTCCTTCGGGACA-A
* *
181820 TTCACAGGTCCTTCGAGACAA
1 TTCATAGGTCCTTCGGGACAA
181841 ATTTCATATG
Statistics
Matches: 36, Mismatches: 6, Indels: 2
0.82 0.14 0.05
Matches are distributed among these distances:
21 18 0.50
22 18 0.50
ACGTcount: A:0.25, C:0.23, G:0.22, T:0.30
Consensus pattern (21 bp):
TTCATAGGTCCTTCGGGACAA
Found at i:182710 original size:7 final size:7
Alignment explanation
Indices: 182689--182724 Score: 54
Period size: 7 Copynumber: 5.1 Consensus size: 7
182679 TATTCATCGT
182689 ACTATTC
1 ACTATTC
*
182696 ACTGTTC
1 ACTATTC
*
182703 ATTATTC
1 ACTATTC
182710 ACTATTC
1 ACTATTC
182717 ACTATTC
1 ACTATTC
182724 A
1 A
182725 TACAGTATTT
Statistics
Matches: 25, Mismatches: 4, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
7 25 1.00
ACGTcount: A:0.28, C:0.25, G:0.03, T:0.44
Consensus pattern (7 bp):
ACTATTC
Found at i:187202 original size:14 final size:15
Alignment explanation
Indices: 187185--187213 Score: 51
Period size: 15 Copynumber: 2.0 Consensus size: 15
187175 TTACATGATA
187185 TGCAT-AAACATAAG
1 TGCATAAAACATAAG
187199 TGCATAAAACATAAG
1 TGCATAAAACATAAG
187214 ATATATGATA
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
14 5 0.36
15 9 0.64
ACGTcount: A:0.52, C:0.14, G:0.14, T:0.21
Consensus pattern (15 bp):
TGCATAAAACATAAG
Found at i:187540 original size:22 final size:21
Alignment explanation
Indices: 187487--187550 Score: 74
Period size: 21 Copynumber: 3.0 Consensus size: 21
187477 AGTCGAGGGT
* *
187487 TTCATAGGTCTTTTGGGACAA
1 TTCATAGGTCCTTCGGGACAA
*
187508 CTCATAGGTCCTTCGGGACATA
1 TTCATAGGTCCTTCGGGACA-A
* *
187530 TTCACAGGTCCTTCGAGACAA
1 TTCATAGGTCCTTCGGGACAA
187551 ATTTCATATG
Statistics
Matches: 36, Mismatches: 6, Indels: 2
0.82 0.14 0.05
Matches are distributed among these distances:
21 18 0.50
22 18 0.50
ACGTcount: A:0.25, C:0.23, G:0.22, T:0.30
Consensus pattern (21 bp):
TTCATAGGTCCTTCGGGACAA
Found at i:188422 original size:7 final size:7
Alignment explanation
Indices: 188412--188451 Score: 53
Period size: 7 Copynumber: 5.7 Consensus size: 7
188402 CTATTCACTG
188412 TTCATTA
1 TTCATTA
*
188419 TTCAATA
1 TTCATTA
*
188426 TTCACTA
1 TTCATTA
188433 TTCATTA
1 TTCATTA
*
188440 TTCACTA
1 TTCATTA
188447 TTCAT
1 TTCAT
188452 ACATTATTTT
Statistics
Matches: 28, Mismatches: 5, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
7 28 1.00
ACGTcount: A:0.30, C:0.20, G:0.00, T:0.50
Consensus pattern (7 bp):
TTCATTA
Found at i:188429 original size:21 final size:21
Alignment explanation
Indices: 188403--188450 Score: 78
Period size: 21 Copynumber: 2.3 Consensus size: 21
188393 TTCATCGTAC
*
188403 TATTCACTGTTCATTATTCAA
1 TATTCACTATTCATTATTCAA
*
188424 TATTCACTATTCATTATTCAC
1 TATTCACTATTCATTATTCAA
188445 TATTCA
1 TATTCA
188451 TACATTATTT
Statistics
Matches: 25, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
21 25 1.00
ACGTcount: A:0.29, C:0.21, G:0.02, T:0.48
Consensus pattern (21 bp):
TATTCACTATTCATTATTCAA
Found at i:188451 original size:14 final size:14
Alignment explanation
Indices: 188401--188451 Score: 66
Period size: 14 Copynumber: 3.6 Consensus size: 14
188391 TATTCATCGT
* *
188401 ACTATTCACTGTTC
1 ACTATTCATTATTC
* *
188415 ATTATTCAATATTC
1 ACTATTCATTATTC
188429 ACTATTCATTATTC
1 ACTATTCATTATTC
188443 ACTATTCAT
1 ACTATTCAT
188452 ACATTATTTT
Statistics
Matches: 32, Mismatches: 5, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
14 32 1.00
ACGTcount: A:0.29, C:0.22, G:0.02, T:0.47
Consensus pattern (14 bp):
ACTATTCATTATTC
Found at i:189639 original size:18 final size:18
Alignment explanation
Indices: 189616--189654 Score: 78
Period size: 18 Copynumber: 2.2 Consensus size: 18
189606 CATTGGATAA
189616 TCGCAAGCCAATGTTTAT
1 TCGCAAGCCAATGTTTAT
189634 TCGCAAGCCAATGTTTAT
1 TCGCAAGCCAATGTTTAT
189652 TCG
1 TCG
189655 ATAACATAAA
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
18 21 1.00
ACGTcount: A:0.26, C:0.23, G:0.18, T:0.33
Consensus pattern (18 bp):
TCGCAAGCCAATGTTTAT
Found at i:189881 original size:50 final size:50
Alignment explanation
Indices: 189825--189925 Score: 202
Period size: 50 Copynumber: 2.0 Consensus size: 50
189815 ATTATATGTT
189825 AGTATCCAACTAACATAATCTAAGCTTAAATATTAATTCAATAGAAACAA
1 AGTATCCAACTAACATAATCTAAGCTTAAATATTAATTCAATAGAAACAA
189875 AGTATCCAACTAACATAATCTAAGCTTAAATATTAATTCAATAGAAACAA
1 AGTATCCAACTAACATAATCTAAGCTTAAATATTAATTCAATAGAAACAA
189925 A
1 A
189926 AATTGAAACT
Statistics
Matches: 51, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
50 51 1.00
ACGTcount: A:0.50, C:0.16, G:0.06, T:0.28
Consensus pattern (50 bp):
AGTATCCAACTAACATAATCTAAGCTTAAATATTAATTCAATAGAAACAA
Found at i:191848 original size:16 final size:18
Alignment explanation
Indices: 191826--191875 Score: 77
Period size: 16 Copynumber: 2.8 Consensus size: 18
191816 TACACTGCAG
191826 GGTGTATCGGTACACC-A
1 GGTGTATCGGTACACCAA
191843 -GTGTATCGGTACACCATA
1 GGTGTATCGGTACACCA-A
191861 GGTGTATCGGTACAC
1 GGTGTATCGGTACAC
191876 TAATTGTATT
Statistics
Matches: 30, Mismatches: 0, Indels: 4
0.88 0.00 0.12
Matches are distributed among these distances:
16 15 0.50
18 1 0.03
19 14 0.47
ACGTcount: A:0.24, C:0.22, G:0.28, T:0.26
Consensus pattern (18 bp):
GGTGTATCGGTACACCAA
Found at i:192947 original size:21 final size:20
Alignment explanation
Indices: 192904--192948 Score: 56
Period size: 20 Copynumber: 2.2 Consensus size: 20
192894 AACTAGAATT
*
192904 ATTTATTTAATAATAATTTA
1 ATTTAATTAATAATAATTTA
192924 ATTTAATT-ATAATACATATTA
1 ATTTAATTAATAATA-AT-TTA
192945 ATTT
1 ATTT
192949 CAAAATATTA
Statistics
Matches: 22, Mismatches: 1, Indels: 3
0.85 0.04 0.12
Matches are distributed among these distances:
19 6 0.27
20 9 0.41
21 7 0.32
ACGTcount: A:0.44, C:0.02, G:0.00, T:0.53
Consensus pattern (20 bp):
ATTTAATTAATAATAATTTA
Found at i:193909 original size:64 final size:60
Alignment explanation
Indices: 193835--193954 Score: 143
Period size: 61 Copynumber: 1.9 Consensus size: 60
193825 ACTATGACTA
* * * *
193835 CATTCTAAATTAGT-CCTAAATCAACTTTTTGAACATTTTAGTTTCATCCACAAATTATATCCTT
1 CATTCTAAATTAGTCCCCAAA-C-A-TTTTT-AACATTTCAATATCATCC-CAAATTATATCCTT
*
193899 CATTCTAAATTGGTCCCCAAACATTTTTAACATTTCAATATCATCCCAAATTATAT
1 CATTCTAAATTAGTCCCCAAACATTTTTAACATTTCAATATCATCCCAAATTATAT
193955 ATATGTATAT
Statistics
Matches: 50, Mismatches: 5, Indels: 6
0.82 0.08 0.10
Matches are distributed among these distances:
60 10 0.20
61 15 0.30
62 5 0.10
63 1 0.02
64 14 0.28
65 5 0.10
ACGTcount: A:0.34, C:0.22, G:0.04, T:0.40
Consensus pattern (60 bp):
CATTCTAAATTAGTCCCCAAACATTTTTAACATTTCAATATCATCCCAAATTATATCCTT
Found at i:194175 original size:60 final size:59
Alignment explanation
Indices: 194098--194246 Score: 192
Period size: 60 Copynumber: 2.5 Consensus size: 59
194088 AATCGGAAGG
* * *
194098 TTTAAAAGTTTAGGGACTAATTTAGAATAAGGGCCATAGTTTAAGGATAAAATTGG-AATA
1 TTTAAAAGTTTAAGGACTAATTTAGAATAA-GACCATAATTTAAGGATAAAA-TGGTAATA
* * *
194158 TTTAAAAGTTTAAGGACTAATTTAGAATTAAGATCATAATTTGAGGATGAAATGGTAATA
1 TTTAAAAGTTTAAGGACTAATTTAGAA-TAAGACCATAATTTAAGGATAAAATGGTAATA
* *
194218 TTCAAAAGTTTAAGAACTAATTTAGAATA
1 TTTAAAAGTTTAAGGACTAATTTAGAATA
194247 GGGACATGTG
Statistics
Matches: 79, Mismatches: 8, Indels: 5
0.86 0.09 0.05
Matches are distributed among these distances:
59 5 0.06
60 71 0.90
61 3 0.04
ACGTcount: A:0.44, C:0.05, G:0.18, T:0.34
Consensus pattern (59 bp):
TTTAAAAGTTTAAGGACTAATTTAGAATAAGACCATAATTTAAGGATAAAATGGTAATA
Found at i:194185 original size:29 final size:31
Alignment explanation
Indices: 194097--194185 Score: 76
Period size: 29 Copynumber: 2.9 Consensus size: 31
194087 AAATCGGAAG
*
194097 GTTTAAAAGTTTAGGGACTAATTTAGAATAA
1 GTTTAAAAGTTTAAGGACTAATTTAGAATAA
**** * * *
194128 GGGCCATAGTTTAAGGA-TAAAATTGGAAT-A
1 GTTTAAAAGTTTAAGGACT-AATTTAGAATAA
194158 -TTTAAAAGTTTAAGGACTAATTTAGAAT
1 GTTTAAAAGTTTAAGGACTAATTTAGAAT
194186 TAAGATCATA
Statistics
Matches: 41, Mismatches: 15, Indels: 6
0.66 0.24 0.10
Matches are distributed among these distances:
29 19 0.46
30 3 0.07
31 19 0.46
ACGTcount: A:0.42, C:0.04, G:0.20, T:0.34
Consensus pattern (31 bp):
GTTTAAAAGTTTAAGGACTAATTTAGAATAA
Found at i:198496 original size:13 final size:13
Alignment explanation
Indices: 198478--198502 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
198468 TATATATATA
198478 TAATTATACATTG
1 TAATTATACATTG
198491 TAATTATACATT
1 TAATTATACATT
198503 ATAACTAAGG
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:0.40, C:0.08, G:0.04, T:0.48
Consensus pattern (13 bp):
TAATTATACATTG
Found at i:201309 original size:3 final size:3
Alignment explanation
Indices: 201303--201395 Score: 179
Period size: 3 Copynumber: 31.3 Consensus size: 3
201293 CTCCTCCTCC
201303 TCT TCT TCT TCT TCT TCT TCT TCT TCT TCT TCT TCT TCT TCT TCT TCT
1 TCT TCT TCT TCT TCT TCT TCT TCT TCT TCT TCT TCT TCT TCT TCT TCT
201351 TCT TC- TCT TCT TCT TCT TCT TCT TCT TCT TCT TCT TCT TCT TCT T
1 TCT TCT TCT TCT TCT TCT TCT TCT TCT TCT TCT TCT TCT TCT TCT T
201396 GTTGGAAAGC
Statistics
Matches: 89, Mismatches: 0, Indels: 2
0.98 0.00 0.02
Matches are distributed among these distances:
2 2 0.02
3 87 0.98
ACGTcount: A:0.00, C:0.33, G:0.00, T:0.67
Consensus pattern (3 bp):
TCT
Found at i:203816 original size:32 final size:32
Alignment explanation
Indices: 203733--203836 Score: 145
Period size: 32 Copynumber: 3.2 Consensus size: 32
203723 GTCTATGGAA
* * *
203733 TTCGGGTCGGGTCAAAATCAAATCGGTTGGGT
1 TTCGGGTCGAGTCAAAATCGAATCGGTTGGTT
203765 TTCGGGTCGAGTCAAAATCGAATCGGTTGGTT
1 TTCGGGTCGAGTCAAAATCGAATCGGTTGGTT
* * **
203797 TTCGGGTCGAGTCAAAATCGGATCAGTTAATT
1 TTCGGGTCGAGTCAAAATCGAATCGGTTGGTT
203829 TTCGGGTC
1 TTCGGGTC
203837 AGGTTAATAT
Statistics
Matches: 65, Mismatches: 7, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
32 65 1.00
ACGTcount: A:0.22, C:0.16, G:0.31, T:0.31
Consensus pattern (32 bp):
TTCGGGTCGAGTCAAAATCGAATCGGTTGGTT
Found at i:205030 original size:26 final size:26
Alignment explanation
Indices: 204962--205040 Score: 133
Period size: 26 Copynumber: 3.0 Consensus size: 26
204952 CCTATTTTAT
*
204962 ATTAGTGGTGCATTTCAATACATGTC
1 ATTAGTGGTGCATTTCTATACATGTC
204988 ATTAGTGGTGCATTTCTATACATGTC
1 ATTAGTGGTGCATTTCTATACATGTC
205014 ATTAGTGGTGCATTTCTATGA-ATGTC
1 ATTAGTGGTGCATTTCTAT-ACATGTC
205040 A
1 A
205041 CTCATTGTAG
Statistics
Matches: 51, Mismatches: 1, Indels: 2
0.94 0.02 0.04
Matches are distributed among these distances:
26 50 0.98
27 1 0.02
ACGTcount: A:0.25, C:0.14, G:0.20, T:0.41
Consensus pattern (26 bp):
ATTAGTGGTGCATTTCTATACATGTC
Done.