Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: VEPZ01006176.1 Hibiscus syriacus cultivar Beakdansim tig00014682_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: 113789
ACGTcount: A:0.33, C:0.18, G:0.16, T:0.33
Found at i:1150 original size:30 final size:30
Alignment explanation
Indices: 1093--1179 Score: 124
Period size: 30 Copynumber: 3.0 Consensus size: 30
1083 CTAACGACTA
* * *
1093 GCTAACTACAGCTAA-C-CCTAACTGCTCG
1 GCTAACAACATCTAATCTCCTAACAGCTCG
1121 GCTAACAACATCTAATCTCCTAACAGCTCG
1 GCTAACAACATCTAATCTCCTAACAGCTCG
*
1151 GCTAACAACATCTAGTCTCCTAACAGCTC
1 GCTAACAACATCTAATCTCCTAACAGCTC
1180 ATACCCACGT
Statistics
Matches: 53, Mismatches: 4, Indels: 2
0.90 0.07 0.03
Matches are distributed among these distances:
28 13 0.25
29 1 0.02
30 39 0.74
ACGTcount: A:0.31, C:0.34, G:0.11, T:0.23
Consensus pattern (30 bp):
GCTAACAACATCTAATCTCCTAACAGCTCG
Found at i:3589 original size:23 final size:23
Alignment explanation
Indices: 3524--3583 Score: 102
Period size: 23 Copynumber: 2.6 Consensus size: 23
3514 CTCTATAAAC
3524 GCACCGAAGTGCCACGTAGAATT
1 GCACCGAAGTGCCACGTAGAATT
*
3547 GCACAGAAGTGCCACGTAGAATT
1 GCACCGAAGTGCCACGTAGAATT
*
3570 GCACCGTAGTGCCA
1 GCACCGAAGTGCCA
3584 TATAGATTGT
Statistics
Matches: 34, Mismatches: 3, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
23 34 1.00
ACGTcount: A:0.30, C:0.27, G:0.27, T:0.17
Consensus pattern (23 bp):
GCACCGAAGTGCCACGTAGAATT
Found at i:3847 original size:31 final size:30
Alignment explanation
Indices: 3803--3862 Score: 86
Period size: 31 Copynumber: 2.0 Consensus size: 30
3793 TATTGTATAG
3803 ACATATAATTTCCAT-ATCTTTATCACATAA
1 ACATATAATTTCCATCA-CTTTATCACATAA
*
3833 ACATATCATGTTCCATCACTTTATCACATA
1 ACATATAAT-TTCCATCACTTTATCACATA
3863 GCTTATATAA
Statistics
Matches: 27, Mismatches: 1, Indels: 3
0.87 0.03 0.10
Matches are distributed among these distances:
30 8 0.30
31 18 0.67
32 1 0.04
ACGTcount: A:0.37, C:0.23, G:0.02, T:0.38
Consensus pattern (30 bp):
ACATATAATTTCCATCACTTTATCACATAA
Found at i:10442 original size:23 final size:23
Alignment explanation
Indices: 10416--10460 Score: 54
Period size: 23 Copynumber: 2.0 Consensus size: 23
10406 CACCACATCT
*
10416 CGTATAAACGCACCGAAGTGCCA
1 CGTAGAAACGCACCGAAGTGCCA
** *
10439 CGTAGAATTGCACTGAAGTGCC
1 CGTAGAAACGCACCGAAGTGCC
10461 GCATAGAATT
Statistics
Matches: 18, Mismatches: 4, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
23 18 1.00
ACGTcount: A:0.31, C:0.27, G:0.24, T:0.18
Consensus pattern (23 bp):
CGTAGAAACGCACCGAAGTGCCA
Found at i:10467 original size:23 final size:23
Alignment explanation
Indices: 10425--10484 Score: 77
Period size: 23 Copynumber: 2.6 Consensus size: 23
10415 TCGTATAAAC
*
10425 GCACCGAAGTGCCACGTAGAATT
1 GCACCGAAGTGCCACATAGAATT
* *
10448 GCACTGAAGTGCCGCATAGAATT
1 GCACCGAAGTGCCACATAGAATT
10471 GCACC-ATAGTGCCA
1 GCACCGA-AGTGCCA
10485 TATAAGATTA
Statistics
Matches: 31, Mismatches: 5, Indels: 2
0.82 0.13 0.05
Matches are distributed among these distances:
22 1 0.03
23 30 0.97
ACGTcount: A:0.30, C:0.27, G:0.25, T:0.18
Consensus pattern (23 bp):
GCACCGAAGTGCCACATAGAATT
Found at i:10750 original size:31 final size:30
Alignment explanation
Indices: 10706--10765 Score: 86
Period size: 31 Copynumber: 2.0 Consensus size: 30
10696 TATTGTATAG
10706 ACATATAATTTCCAT-ATCTTTATCACATAA
1 ACATATAATTTCCATCA-CTTTATCACATAA
*
10736 ACATATCATGTTCCATCACTTTATCACATA
1 ACATATAAT-TTCCATCACTTTATCACATA
10766 GCTTATATAA
Statistics
Matches: 27, Mismatches: 1, Indels: 3
0.87 0.03 0.10
Matches are distributed among these distances:
30 8 0.30
31 18 0.67
32 1 0.04
ACGTcount: A:0.37, C:0.23, G:0.02, T:0.38
Consensus pattern (30 bp):
ACATATAATTTCCATCACTTTATCACATAA
Found at i:12100 original size:20 final size:20
Alignment explanation
Indices: 12075--12113 Score: 53
Period size: 20 Copynumber: 1.9 Consensus size: 20
12065 TCCTTTAGGT
12075 ATCGAAACCTA-GGTATCGAA
1 ATCG-AACCTAGGGTATCGAA
*
12095 ATCGAACTTAGGGTATCGA
1 ATCGAACCTAGGGTATCGA
12114 TACTTCTACT
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
19 5 0.29
20 12 0.71
ACGTcount: A:0.36, C:0.18, G:0.23, T:0.23
Consensus pattern (20 bp):
ATCGAACCTAGGGTATCGAA
Found at i:12427 original size:19 final size:20
Alignment explanation
Indices: 12385--12427 Score: 61
Period size: 20 Copynumber: 2.2 Consensus size: 20
12375 TGCAAGCTAC
*
12385 ATAAATGCATGGTAAGGCTT
1 ATAAATGCATGGGAAGGCTT
*
12405 ATAAATGTATGGGAAGG-TT
1 ATAAATGCATGGGAAGGCTT
12424 ATAA
1 ATAA
12428 GGGTGTTCCC
Statistics
Matches: 21, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
19 6 0.29
20 15 0.71
ACGTcount: A:0.40, C:0.05, G:0.26, T:0.30
Consensus pattern (20 bp):
ATAAATGCATGGGAAGGCTT
Found at i:15625 original size:28 final size:29
Alignment explanation
Indices: 15594--15650 Score: 71
Period size: 28 Copynumber: 2.0 Consensus size: 29
15584 AACAACCCAA
* *
15594 CTAACTACAACTAAC-CCTAACTGCTCAG
1 CTAACAACAACTAACTCCTAACAGCTCAG
*
15622 CTAACAACATCTAACTTCCTAACAGCTCA
1 CTAACAACAACTAAC-TCCTAACAGCTCA
15651 CACGCCACGT
Statistics
Matches: 24, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
28 13 0.54
30 11 0.46
ACGTcount: A:0.37, C:0.35, G:0.05, T:0.23
Consensus pattern (29 bp):
CTAACAACAACTAACTCCTAACAGCTCAG
Found at i:17570 original size:31 final size:31
Alignment explanation
Indices: 17525--17607 Score: 89
Period size: 30 Copynumber: 2.7 Consensus size: 31
17515 ACTTTGATCG
* * *
17525 AATTTAGAGGTCAAATTGATATTTTATTTAA
1 AATTTAAAGGTCAAATTGATATTTCATCTAA
* *
17556 AGTTTAAAGGTCAAAATGA-ATTTCATCTAA
1 AATTTAAAGGTCAAATTGATATTTCATCTAA
* *
17586 AATTT-AGGGTCAAATTAATATT
1 AATTTAAAGGTCAAATTGATATT
17608 CAATCTACCA
Statistics
Matches: 42, Mismatches: 9, Indels: 3
0.78 0.17 0.06
Matches are distributed among these distances:
29 10 0.24
30 16 0.38
31 16 0.38
ACGTcount: A:0.41, C:0.06, G:0.13, T:0.40
Consensus pattern (31 bp):
AATTTAAAGGTCAAATTGATATTTCATCTAA
Found at i:21494 original size:22 final size:21
Alignment explanation
Indices: 21469--21510 Score: 59
Period size: 22 Copynumber: 2.0 Consensus size: 21
21459 GGATTCTATC
21469 TAAAAATCAC-AAAATATATATA
1 TAAAAAT-ACTAAAATA-ATATA
21491 TAAAAATACTAAAATAATAT
1 TAAAAATACTAAAATAATAT
21511 CATTTGATCA
Statistics
Matches: 19, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
21 6 0.32
22 13 0.68
ACGTcount: A:0.64, C:0.07, G:0.00, T:0.29
Consensus pattern (21 bp):
TAAAAATACTAAAATAATATA
Found at i:21536 original size:21 final size:21
Alignment explanation
Indices: 21512--21559 Score: 96
Period size: 21 Copynumber: 2.3 Consensus size: 21
21502 AAATAATATC
21512 ATTTGATCAATGTTCCTCATA
1 ATTTGATCAATGTTCCTCATA
21533 ATTTGATCAATGTTCCTCATA
1 ATTTGATCAATGTTCCTCATA
21554 ATTTGA
1 ATTTGA
21560 GGGGTTGCCG
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
21 27 1.00
ACGTcount: A:0.29, C:0.17, G:0.10, T:0.44
Consensus pattern (21 bp):
ATTTGATCAATGTTCCTCATA
Found at i:24288 original size:6 final size:6
Alignment explanation
Indices: 24277--24314 Score: 67
Period size: 6 Copynumber: 6.3 Consensus size: 6
24267 TCCCTAATTT
*
24277 CCTAAC CCTAAC CCTAAC CCTAAT CCTAAC CCTAAC CC
1 CCTAAC CCTAAC CCTAAC CCTAAC CCTAAC CCTAAC CC
24315 CTCTCTTTGA
Statistics
Matches: 30, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
6 30 1.00
ACGTcount: A:0.32, C:0.50, G:0.00, T:0.18
Consensus pattern (6 bp):
CCTAAC
Found at i:24739 original size:2 final size:2
Alignment explanation
Indices: 24732--24757 Score: 52
Period size: 2 Copynumber: 13.0 Consensus size: 2
24722 TTGATGTATG
24732 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
24758 CATCCTATTT
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):
TA
Found at i:25087 original size:28 final size:27
Alignment explanation
Indices: 25028--25080 Score: 72
Period size: 29 Copynumber: 1.9 Consensus size: 27
25018 ATAATTGAAA
*
25028 ACTATATAAAATAAAAATCTATTTATAC
1 ACTATATAAAATAAAAA-CTATGTATAC
25056 ACTATTATAAAATAAAAA-TATGTAT
1 ACTA-TATAAAATAAAAACTATGTAT
25081 CATACTAAGC
Statistics
Matches: 23, Mismatches: 1, Indels: 3
0.85 0.04 0.11
Matches are distributed among these distances:
27 6 0.26
28 4 0.17
29 13 0.57
ACGTcount: A:0.55, C:0.08, G:0.02, T:0.36
Consensus pattern (27 bp):
ACTATATAAAATAAAAACTATGTATAC
Found at i:29291 original size:30 final size:31
Alignment explanation
Indices: 29213--29297 Score: 86
Period size: 30 Copynumber: 2.8 Consensus size: 31
29203 AAACATACAT
* *
29213 GATTAAAATAATAAAAATAGCAA-TAAAAGG
1 GATTAAAATAGTAAAAATAGAAACTAAAAGG
* * * *
29243 GATCAAAAT-GGATGAAATAAAAACT-AAAGG
1 GATTAAAATAGTA-AAAATAGAAACTAAAAGG
29273 GATTAAAATAGTAAAAATAGAAACT
1 GATTAAAATAGTAAAAATAGAAACT
29298 TATGAGTCTA
Statistics
Matches: 42, Mismatches: 10, Indels: 6
0.72 0.17 0.10
Matches are distributed among these distances:
29 1 0.02
30 38 0.90
31 3 0.07
ACGTcount: A:0.60, C:0.05, G:0.15, T:0.20
Consensus pattern (31 bp):
GATTAAAATAGTAAAAATAGAAACTAAAAGG
Found at i:31071 original size:3 final size:3
Alignment explanation
Indices: 31063--31101 Score: 51
Period size: 3 Copynumber: 12.7 Consensus size: 3
31053 TGTAATTAAT
**
31063 TAA TAA TAA TAAA TAA CGA TAA TAA TAA TAA TAA TAA TA
1 TAA TAA TAA T-AA TAA TAA TAA TAA TAA TAA TAA TAA TA
31102 TAAAAAAAAC
Statistics
Matches: 31, Mismatches: 4, Indels: 2
0.84 0.11 0.05
Matches are distributed among these distances:
3 28 0.90
4 3 0.10
ACGTcount: A:0.64, C:0.03, G:0.03, T:0.31
Consensus pattern (3 bp):
TAA
Found at i:31527 original size:141 final size:141
Alignment explanation
Indices: 31336--31606 Score: 420
Period size: 141 Copynumber: 1.9 Consensus size: 141
31326 CTGGTCAAGG
* ** *
31336 GATGACACGGCTCATACGCGATGAAGAGTTCTGGTCATCTTTAAGAAGGGTGATAACTCGGTTCC
1 GATGACACGGCTCATACACGATGAAGAAATCTGGCCATCTTTAAGAAGGGTGATAACTCGGTTCC
31401 TACGTGATGAGGACGGCTGATTAT-CTAAGGTTGACACGGCTCCTACGTGATGAGGA-AGTCTGG
66 TACGTGATGAGGACGGCTGATTATCCTAAGGTTGACAC-GCTCCTACGTGATGAGGAGA-TCTGG
31464 TCGTCTAAGGGTA
129 TCGTCTAAGGGTA
* * *
31477 GATGACATGGTTCATACATGATGAAGAAATCTGGCCATCTTTAAGAAGGGTGATAACTCGGTTCC
1 GATGACACGGCTCATACACGATGAAGAAATCTGGCCATCTTTAAGAAGGGTGATAACTCGGTTCC
* * *
31542 TACGTGATGAGGACGGCTGGTTATCCTAATGTTGACACTCTCCTACGTGATGAGGAGATCTGGTC
66 TACGTGATGAGGACGGCTGATTATCCTAAGGTTGACACGCTCCTACGTGATGAGGAGATCTGGTC
31607 AGTTGATGTT
Statistics
Matches: 118, Mismatches: 10, Indels: 4
0.89 0.08 0.03
Matches are distributed among these distances:
141 105 0.89
142 13 0.11
ACGTcount: A:0.25, C:0.18, G:0.29, T:0.27
Consensus pattern (141 bp):
GATGACACGGCTCATACACGATGAAGAAATCTGGCCATCTTTAAGAAGGGTGATAACTCGGTTCC
TACGTGATGAGGACGGCTGATTATCCTAAGGTTGACACGCTCCTACGTGATGAGGAGATCTGGTC
GTCTAAGGGTA
Found at i:32588 original size:22 final size:22
Alignment explanation
Indices: 32557--32600 Score: 70
Period size: 22 Copynumber: 2.0 Consensus size: 22
32547 CTTTATTTAT
*
32557 TTTTTGTTCTTTTTCATTTTTC
1 TTTTTCTTCTTTTTCATTTTTC
*
32579 TTTTTCTTCTTTTTTATTTTTC
1 TTTTTCTTCTTTTTCATTTTTC
32601 CATCATATTT
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
22 20 1.00
ACGTcount: A:0.05, C:0.14, G:0.02, T:0.80
Consensus pattern (22 bp):
TTTTTCTTCTTTTTCATTTTTC
Found at i:44441 original size:30 final size:31
Alignment explanation
Indices: 44362--44447 Score: 88
Period size: 30 Copynumber: 2.8 Consensus size: 31
44352 TAAACATACA
* *
44362 GGATTAAAATAATAAAAATAGCAA-TAAAAG
1 GGATTAAAATAGTAAAAATAGAAACTAAAAG
* * * *
44392 GGATCAAAAT-GGATGAAATAAAAACT-AAAG
1 GGATTAAAATAGTA-AAAATAGAAACTAAAAG
44422 GGATTAAAATAGTAAAAATAGAAACT
1 GGATTAAAATAGTAAAAATAGAAACT
44448 TATGAGTCTA
Statistics
Matches: 43, Mismatches: 10, Indels: 6
0.73 0.17 0.10
Matches are distributed among these distances:
29 1 0.02
30 39 0.91
31 3 0.07
ACGTcount: A:0.59, C:0.05, G:0.16, T:0.20
Consensus pattern (31 bp):
GGATTAAAATAGTAAAAATAGAAACTAAAAG
Found at i:46200 original size:3 final size:3
Alignment explanation
Indices: 46192--46230 Score: 51
Period size: 3 Copynumber: 12.7 Consensus size: 3
46182 TGTAATTAAT
**
46192 TAA TAA TAA TAAA TAA CGA TAA TAA TAA TAA TAA TAA TA
1 TAA TAA TAA T-AA TAA TAA TAA TAA TAA TAA TAA TAA TA
46231 TAAAAAAAAA
Statistics
Matches: 31, Mismatches: 4, Indels: 2
0.84 0.11 0.05
Matches are distributed among these distances:
3 28 0.90
4 3 0.10
ACGTcount: A:0.64, C:0.03, G:0.03, T:0.31
Consensus pattern (3 bp):
TAA
Found at i:47108 original size:3 final size:3
Alignment explanation
Indices: 47100--47129 Score: 60
Period size: 3 Copynumber: 10.0 Consensus size: 3
47090 TAAAACCCCC
47100 ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT
1 ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT
47130 TAGTGGTCTA
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 27 1.00
ACGTcount: A:0.33, C:0.00, G:0.00, T:0.67
Consensus pattern (3 bp):
ATT
Found at i:47477 original size:17 final size:16
Alignment explanation
Indices: 47449--47489 Score: 55
Period size: 17 Copynumber: 2.5 Consensus size: 16
47439 CCATGGATTA
* *
47449 TTTATCAAATTTATAT
1 TTTATAAAATTTAAAT
47465 TTTAATAAAATTTAAAT
1 TTT-ATAAAATTTAAAT
47482 TTTATAAA
1 TTTATAAA
47490 CACGAATCAA
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
16 8 0.36
17 14 0.64
ACGTcount: A:0.46, C:0.02, G:0.00, T:0.51
Consensus pattern (16 bp):
TTTATAAAATTTAAAT
Found at i:52019 original size:66 final size:66
Alignment explanation
Indices: 51936--52066 Score: 235
Period size: 66 Copynumber: 2.0 Consensus size: 66
51926 GAACAAGAGT
* *
51936 AAGAGAAAGGTTGAACTTCTATCACAGAGAAACATAAGATCTGTTTGTTGTAGAAATACAGATGT
1 AAGAGAAAGGCTGAACTTCTATCACAGAGAAACATAAGATCTGTTTGTGGTAGAAATACAGATGT
52001 C
66 C
*
52002 AAGAGAAAGGCTGAACTTCTATCACAGAGAAACATAAGATCTGTTTGTGGTAGGAATACAGATGT
1 AAGAGAAAGGCTGAACTTCTATCACAGAGAAACATAAGATCTGTTTGTGGTAGAAATACAGATGT
52067 TTAGATAGAA
Statistics
Matches: 62, Mismatches: 3, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
66 62 1.00
ACGTcount: A:0.39, C:0.12, G:0.23, T:0.26
Consensus pattern (66 bp):
AAGAGAAAGGCTGAACTTCTATCACAGAGAAACATAAGATCTGTTTGTGGTAGAAATACAGATGT
C
Found at i:55678 original size:182 final size:182
Alignment explanation
Indices: 55388--56547 Score: 1771
Period size: 182 Copynumber: 6.4 Consensus size: 182
55378 TACAAATGAA
* * * * * * * *
55388 AAATGTATCGATCCATAACAATATAACAGGTAAAAATATGATAAAGCCGGTGTC-ATTATGATAA
1 AAATGTATCGATCCATAGCAATATAACAGGTAATAATATGACAAAACAGATCTCGA-AATGATAA
** *
55452 AACCGGTAAACCGCTACCAGATATATTGAAAGTGTCGATAAATTAATATAAGTATCGACACTTTT
65 AACCGGTAAAAAGCTACCGGATATATTGAAAGTGTCGATAAATTAATATAAGTATCGACACTTTT
*
55517 GTAATTTAAAAGAGAAGAAGTTATAGCGCCTATAAAGTGTCGATACTTTATAC
130 GTAATTTAAAAGAGAAGAAGTTATAGCGCCTAAAAAGTGTCGATACTTTATAC
* * * *
55570 AAATGTATCGATTCATAGCAATATAACAGGTAATAATATGACAAAACTGATATC-ATTATGATAA
1 AAATGTATCGATCCATAGCAATATAACAGGTAATAATATGACAAAACAGATCTCGA-AATGATAA
**
55634 AACCGGTAAACCGCTACCGGATATATTGAAAGTGTCGATAAATTAATATAAGTATCGACACTTTT
65 AACCGGTAAAAAGCTACCGGATATATTGAAAGTGTCGATAAATTAATATAAGTATCGACACTTTT
55699 GTAATTT-AAA-AG-AGAAGTTATAGCGCCTAAAAAGTGTCGATACTTTATAC
130 GTAATTTAAAAGAGAAGAAGTTATAGCGCCTAAAAAGTGTCGATACTTTATAC
*
55749 AAATGTATCGATCCATAGCAATATAACAAGTAATAATATGACAAAACAGATCTCGAAATGATAAA
1 AAATGTATCGATCCATAGCAATATAACAGGTAATAATATGACAAAACAGATCTCGAAATGATAAA
* *
55814 ACCGATAAAAAGCTACCGGATATATTGAAAGTGTCGATAAATTAATATAAATATCGACACTTTTG
66 ACCGGTAAAAAGCTACCGGATATATTGAAAGTGTCGATAAATTAATATAAGTATCGACACTTTTG
* * *
55879 -ATATTTAAAAGAGAAGAAGTTATAGTGCTTAAAAAGTGTCAATACTTTATAC
131 TA-ATTTAAAAGAGAAGAAGTTATAGCGCCTAAAAAGTGTCGATACTTTATAC
* * *
55931 AAGTGTATCGATCCATATCAATATAACAGGTAATAATATGACAAAACATATCTCGAAATGATAAA
1 AAATGTATCGATCCATAGCAATATAACAGGTAATAATATGACAAAACAGATCTCGAAATGATAAA
* * *
55996 ACCGGTAAAAAGATATCGGATATATTGAAAGTGTCGATAAATTAATATAAGTATCAACACTTTTG
66 ACCGGTAAAAAGCTACCGGATATATTGAAAGTGTCGATAAATTAATATAAGTATCGACACTTTTG
56061 TAATTTAAAAGAGAAGAAGTTATAGCGCCTAAAAAGTGTCGATACTTTATAC
131 TAATTTAAAAGAGAAGAAGTTATAGCGCCTAAAAAGTGTCGATACTTTATAC
* *
56113 AAATGTATCGATCCATAGCAATATAACATGTAATAATATGACAAAACAGGTCTCGAAATGATAAA
1 AAATGTATCGATCCATAGCAATATAACAGGTAATAATATGACAAAACAGATCTCGAAATGATAAA
* * * *
56178 ACCGGTAAAAAGCTAGCGGATATATT-AAAGTGTCGATAAATTAATATAATTATCGATA-TTTTT
66 ACCGGTAAAAAGCTACCGGATATATTGAAAGTGTCGATAAATTAATATAAGTATCGACACTTTTG
*
56241 TATATTTAAAAGAGAAGAAGTTATAGCGCCTAAAAAGTGTCGATATTTTATAC
131 TA-ATTTAAAAGAGAAGAAGTTATAGCGCCTAAAAAGTGTCGATACTTTATAC
*
56294 AAATGTATCGATCCATAGCAATATAACAGGTAATAATATGACAAAACAGGTCTCGAAATGATAAA
1 AAATGTATCGATCCATAGCAATATAACAGGTAATAATATGACAAAACAGATCTCGAAATGATAAA
* * *
56359 ACCGGTAAAAAACTACCGGATATATTGAAAGTGTCGATAAATTAATATAAGTATCGATACTTTCG
66 ACCGGTAAAAAGCTACCGGATATATTGAAAGTGTCGATAAATTAATATAAGTATCGACACTTTTG
*
56424 TAATTTAAAAGAGAAGAAATTATAGCGCCTAAAAAGTGTCGATACTTTATGA-
131 TAATTTAAAAGAGAAGAAGTTATAGCGCCTAAAAAGTGTCGATACTTTAT-AC
* * * * * * *
56476 AAATGTATCGATCCATAACAATATAATAGGTAAAAATATGACAAAACCGGTATCGAAATGACAAA
1 AAATGTATCGATCCATAGCAATATAACAGGTAATAATATGACAAAACAGATCTCGAAATGATAAA
56541 ACCGGTA
66 ACCGGTA
56548 TCGAAATGAA
Statistics
Matches: 908, Mismatches: 60, Indels: 20
0.92 0.06 0.02
Matches are distributed among these distances:
178 1 0.00
179 160 0.18
180 12 0.01
181 171 0.19
182 557 0.61
183 7 0.01
ACGTcount: A:0.44, C:0.13, G:0.16, T:0.28
Consensus pattern (182 bp):
AAATGTATCGATCCATAGCAATATAACAGGTAATAATATGACAAAACAGATCTCGAAATGATAAA
ACCGGTAAAAAGCTACCGGATATATTGAAAGTGTCGATAAATTAATATAAGTATCGACACTTTTG
TAATTTAAAAGAGAAGAAGTTATAGCGCCTAAAAAGTGTCGATACTTTATAC
Found at i:56356 original size:363 final size:364
Alignment explanation
Indices: 55388--56547 Score: 1780
Period size: 363 Copynumber: 3.2 Consensus size: 364
55378 TACAAATGAA
* * * * *
55388 AAATGTATCGATCCATAACAATATAACAGGTAAAAATATGATAAAGCCGGTGTC-ATTATGATAA
1 AAATGTATCGATCCATAACAATATAACAGGTAAAAATATGACAAAACAGGTCTCGA-AATGATAA
** * *
55452 AACCGGTAAACCGCTACCAGATATATTGAAAGTGTCGATAAATTAATATAAGTATCGACACTTTT
65 AACCGGTAAAAAGCTACCGGATATATTGAAAGTGTCGATAAATTAATATAAATATCGACA-TTTT
* *
55517 GTA-ATTTAAAAGAGAAGAAGTTATAGCGCCTATAAAGTGTCGATACTTTATACAAATGTATCGA
129 TTATATTTAAAAGAGAAGAAGTTATAGCGCCTAAAAAGTGTCGATACTTTATACAAATGTATCGA
* * * * *
55581 TTCATAGCAATATAACAGGTAATAATATGACAAAACTGATATC-ATTATGATAAAACCGGTAAAC
194 TCCATAGCAATATAACAGGTAATAATATGACAAAACAGATCTCGA-AATGATAAAACCGGTAAAA
* *
55645 CGCTACCGGATATATTGAAAGTGTCGATAAATTAATATAAGTATCGACACTTTTGTAATTT-AAA
258 AGATACCGGATATATTGAAAGTGTCGATAAATTAATATAAGTATCGACACTTTTGTAATTTAAAA
55709 -AG-AGAAGTTATAGCGCCTAAAAAGTGTCGATACTTTATAC
323 GAGAAGAAGTTATAGCGCCTAAAAAGTGTCGATACTTTATAC
* * * *
55749 AAATGTATCGATCCATAGCAATATAACAAGTAATAATATGACAAAACAGATCTCGAAATGATAAA
1 AAATGTATCGATCCATAACAATATAACAGGTAAAAATATGACAAAACAGGTCTCGAAATGATAAA
* * *
55814 ACCGATAAAAAGCTACCGGATATATTGAAAGTGTCGATAAATTAATATAAATATCGACACTTTTG
66 ACCGGTAAAAAGCTACCGGATATATTGAAAGTGTCGATAAATTAATATAAATATCGACATTTTTT
* * * *
55879 ATATTTAAAAGAGAAGAAGTTATAGTGCTTAAAAAGTGTCAATACTTTATACAAGTGTATCGATC
131 ATATTTAAAAGAGAAGAAGTTATAGCGCCTAAAAAGTGTCGATACTTTATACAAATGTATCGATC
* *
55944 CATATCAATATAACAGGTAATAATATGACAAAACATATCTCGAAATGATAAAACCGGTAAAAAGA
196 CATAGCAATATAACAGGTAATAATATGACAAAACAGATCTCGAAATGATAAAACCGGTAAAAAGA
* *
56009 TATCGGATATATTGAAAGTGTCGATAAATTAATATAAGTATCAACACTTTTGTAATTTAAAAGAG
261 TACCGGATATATTGAAAGTGTCGATAAATTAATATAAGTATCGACACTTTTGTAATTTAAAAGAG
56074 AAGAAGTTATAGCGCCTAAAAAGTGTCGATACTTTATAC
326 AAGAAGTTATAGCGCCTAAAAAGTGTCGATACTTTATAC
* * *
56113 AAATGTATCGATCCATAGCAATATAACATGTAATAATATGACAAAACAGGTCTCGAAATGATAAA
1 AAATGTATCGATCCATAACAATATAACAGGTAAAAATATGACAAAACAGGTCTCGAAATGATAAA
* * *
56178 ACCGGTAAAAAGCTAGCGGATATATT-AAAGTGTCGATAAATTAATATAATTATCGATATTTTTT
66 ACCGGTAAAAAGCTACCGGATATATTGAAAGTGTCGATAAATTAATATAAATATCGACATTTTTT
*
56242 ATATTTAAAAGAGAAGAAGTTATAGCGCCTAAAAAGTGTCGATATTTTATACAAATGTATCGATC
131 ATATTTAAAAGAGAAGAAGTTATAGCGCCTAAAAAGTGTCGATACTTTATACAAATGTATCGATC
*
56307 CATAGCAATATAACAGGTAATAATATGACAAAACAGGTCTCGAAATGATAAAACCGGTAAAAA-A
196 CATAGCAATATAACAGGTAATAATATGACAAAACAGATCTCGAAATGATAAAACCGGTAAAAAGA
* *
56371 CTACCGGATATATTGAAAGTGTCGATAAATTAATATAAGTATCGATACTTTCGTAATTTAAAAGA
261 -TACCGGATATATTGAAAGTGTCGATAAATTAATATAAGTATCGACACTTTTGTAATTTAAAAGA
*
56436 GAAGAAATTATAGCGCCTAAAAAGTGTCGATACTTTATGA-
325 GAAGAAGTTATAGCGCCTAAAAAGTGTCGATACTTTAT-AC
* * * *
56476 AAATGTATCGATCCATAACAATATAATAGGTAAAAATATGACAAAACCGGTATCGAAATGACAAA
1 AAATGTATCGATCCATAACAATATAACAGGTAAAAATATGACAAAACAGGTCTCGAAATGATAAA
56541 ACCGGTA
66 ACCGGTA
56548 TCGAAATGAA
Statistics
Matches: 730, Mismatches: 61, Indels: 14
0.91 0.08 0.02
Matches are distributed among these distances:
360 4 0.01
361 276 0.38
362 6 0.01
363 318 0.44
364 126 0.17
ACGTcount: A:0.44, C:0.13, G:0.16, T:0.28
Consensus pattern (364 bp):
AAATGTATCGATCCATAACAATATAACAGGTAAAAATATGACAAAACAGGTCTCGAAATGATAAA
ACCGGTAAAAAGCTACCGGATATATTGAAAGTGTCGATAAATTAATATAAATATCGACATTTTTT
ATATTTAAAAGAGAAGAAGTTATAGCGCCTAAAAAGTGTCGATACTTTATACAAATGTATCGATC
CATAGCAATATAACAGGTAATAATATGACAAAACAGATCTCGAAATGATAAAACCGGTAAAAAGA
TACCGGATATATTGAAAGTGTCGATAAATTAATATAAGTATCGACACTTTTGTAATTTAAAAGAG
AAGAAGTTATAGCGCCTAAAAAGTGTCGATACTTTATAC
Found at i:56561 original size:20 final size:20
Alignment explanation
Indices: 56513--56560 Score: 89
Period size: 20 Copynumber: 2.5 Consensus size: 20
56503 AGGTAAAAAT
56513 ATGACAAAACCGGTATCGAA
1 ATGACAAAACCGGTATCGAA
56533 ATGACAAAACCGGTATCGAA
1 ATGACAAAACCGGTATCGAA
56553 ATGA-AAAA
1 ATGACAAAA
56561 AACCAGTAAA
Statistics
Matches: 28, Mismatches: 0, Indels: 1
0.97 0.00 0.03
Matches are distributed among these distances:
19 4 0.14
20 24 0.86
ACGTcount: A:0.50, C:0.17, G:0.19, T:0.15
Consensus pattern (20 bp):
ATGACAAAACCGGTATCGAA
Found at i:59093 original size:198 final size:197
Alignment explanation
Indices: 58624--59102 Score: 527
Period size: 198 Copynumber: 2.4 Consensus size: 197
58614 AATCAAAGAG
* * * * *
58624 ACCGATAATTATAATGTAATAAGTAAATTTCCAATGTAACCGATAGAAATATACCGGGTTCATGA
1 ACCGATAATCATAATGTAATAGGTAAATTTACAATGTAACCGTTA-AAATATACC-GGTTAATGA
* * * * * **
58689 GAGAATAGGTCAACATAAAGTATCGACACTTTTTTAATTTGTGTTGATACATTTTTCCAAAATGA
64 GAAAATATGTCAACATAAAGTATCGACACTCTTTAAATATGTGTCAATACATTTTTCCAAAATGA
* * *
58754 ATGGCAAACGAGGTGTACGCATAAAGTGTCGATACATTTGTAAAAAGTATCAATCCTCGAAACAT
129 AAGACAAACGAGGTGCACGCATAAAGTGTCGATACATTTGTAAAAAGTATCAATCCTCGAAACAT
58819 CGAA
194 CGAA
* * * * * *
58823 ATCGATAATTATTATGTAATAGGTAAATTTACAAAGTAACCGGTTAAAATATACTGGTTAATTAG
1 ACCGATAATCATAATGTAATAGGTAAATTTACAATGTAACC-GTTAAAATATACCGGTTAATGAG
* * * * *
58888 CAAATATGTCTACATTATGTATCGACACTCTTTAAATATGTGTCAATACTTTTTTCCAAAAT-AA
65 AAAATATGTCAACATAAAGTATCGACACTCTTTAAATATGTGTCAATACATTTTTCCAAAATGAA
* * *
58952 AGCACAAACGAGTTGCACGCATAAAGTGTCGATACA-TT-TAAAATTGTATCGATCCT-GAAAAC
130 AG-ACAAACGAGGTGCACGCATAAAGTGTCGATACATTTGTAAAA-AGTATCAATCCTCG-AAAC
59014 ATCGAA
192 ATCGAA
* * * * *
59020 ACCGAT-ATACATAATGTAATAGGTCAATTTATAATGTAACCAGTTTAAATATACCGATTTTATG
1 ACCGATAAT-CATAATGTAATAGGTAAATTTACAATGTAACC-GTTAAAATATACCG-GTTAATG
*
59084 AGAAAATATGTCAATATAA
63 AGAAAATATGTCAACATAA
59103 GTGCTACCTA
Statistics
Matches: 231, Mismatches: 43, Indels: 13
0.80 0.15 0.05
Matches are distributed among these distances:
196 8 0.03
197 69 0.30
198 107 0.46
199 44 0.19
200 3 0.01
ACGTcount: A:0.40, C:0.14, G:0.15, T:0.32
Consensus pattern (197 bp):
ACCGATAATCATAATGTAATAGGTAAATTTACAATGTAACCGTTAAAATATACCGGTTAATGAGA
AAATATGTCAACATAAAGTATCGACACTCTTTAAATATGTGTCAATACATTTTTCCAAAATGAAA
GACAAACGAGGTGCACGCATAAAGTGTCGATACATTTGTAAAAAGTATCAATCCTCGAAACATCG
AA
Found at i:60780 original size:42 final size:42
Alignment explanation
Indices: 60733--60824 Score: 157
Period size: 42 Copynumber: 2.2 Consensus size: 42
60723 TCCGAAATCT
* *
60733 CGTGTTTATTTTACGTAATTCGTTTTTCGGAAAATATTTTCC
1 CGTGTTTATTTCACGTAATTCGTTTTCCGGAAAATATTTTCC
60775 CGTGTTTATTTCACGTAATTCGTTTTCCGGAAAATATTTTCC
1 CGTGTTTATTTCACGTAATTCGTTTTCCGGAAAATATTTTCC
*
60817 AGTGTTTA
1 CGTGTTTA
60825 GTTGGAGGAA
Statistics
Matches: 47, Mismatches: 3, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
42 47 1.00
ACGTcount: A:0.22, C:0.15, G:0.15, T:0.48
Consensus pattern (42 bp):
CGTGTTTATTTCACGTAATTCGTTTTCCGGAAAATATTTTCC
Found at i:61083 original size:8 final size:8
Alignment explanation
Indices: 61066--61115 Score: 50
Period size: 8 Copynumber: 6.4 Consensus size: 8
61056 TTAATATTTC
61066 TAATAATA
1 TAATAATA
*
61074 TAATATTA
1 TAATAATA
*
61082 TAATAAAA
1 TAATAATA
61090 TAATCAAT-
1 TAAT-AATA
*
61098 T-ATATTA
1 TAATAATA
61105 TAATAATA
1 TAATAATA
61113 TAA
1 TAA
61116 GATATTATAT
Statistics
Matches: 33, Mismatches: 6, Indels: 6
0.73 0.13 0.13
Matches are distributed among these distances:
6 2 0.06
7 3 0.09
8 26 0.79
9 2 0.06
ACGTcount: A:0.58, C:0.02, G:0.00, T:0.40
Consensus pattern (8 bp):
TAATAATA
Found at i:61089 original size:51 final size:49
Alignment explanation
Indices: 60994--61091 Score: 112
Period size: 51 Copynumber: 2.0 Consensus size: 49
60984 TTAATATTAA
* *
60994 TAAAATATTTTATTATCATTTTAATCAAAATATTAATTATTAAAATATT
1 TAAAATATTTTATTATCATTTTAATAAAAATATTAATTAATAAAATATT
61043 TAAAATATATTTATTAAT-ATTTCTAATAATATAATATT-A-TAATAAAATA
1 TAAAATAT-TTTATT-ATCATTT-TAATAA-A-AATATTAATTAATAAAATA
61092 ATCAATTATA
Statistics
Matches: 42, Mismatches: 2, Indels: 8
0.81 0.04 0.15
Matches are distributed among these distances:
49 8 0.19
50 10 0.24
51 16 0.38
52 2 0.05
53 6 0.14
ACGTcount: A:0.50, C:0.03, G:0.00, T:0.47
Consensus pattern (49 bp):
TAAAATATTTTATTATCATTTTAATAAAAATATTAATTAATAAAATATT
Found at i:61122 original size:23 final size:24
Alignment explanation
Indices: 61066--61126 Score: 72
Period size: 23 Copynumber: 2.6 Consensus size: 24
61056 TTAATATTTC
* *
61066 TAATAATATAATATTATAATAAAA
1 TAATCATATTATATTATAATAAAA
*
61090 TAATCA-ATTATATTATAATAATA
1 TAATCATATTATATTATAATAAAA
*
61113 TAA-GATATTATATT
1 TAATCATATTATATT
61127 TTTATTTTAA
Statistics
Matches: 32, Mismatches: 4, Indels: 3
0.82 0.10 0.08
Matches are distributed among these distances:
22 1 0.03
23 26 0.81
24 5 0.16
ACGTcount: A:0.54, C:0.02, G:0.02, T:0.43
Consensus pattern (24 bp):
TAATCATATTATATTATAATAAAA
Found at i:62104 original size:30 final size:30
Alignment explanation
Indices: 62068--62133 Score: 78
Period size: 30 Copynumber: 2.2 Consensus size: 30
62058 AGTGAACCGG
* **
62068 CGGTTCAAATCGGTTTTGTCAGTTTTCAGC
1 CGGTTCAAACCGGTTTTCCCAGTTTTCAGC
** *
62098 CGGTTCACCCCGGTTTTCCCGGTTTTCAGC
1 CGGTTCAAACCGGTTTTCCCAGTTTTCAGC
62128 CGGTTC
1 CGGTTC
62134 TTCCGGTTCT
Statistics
Matches: 30, Mismatches: 6, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
30 30 1.00
ACGTcount: A:0.11, C:0.29, G:0.24, T:0.36
Consensus pattern (30 bp):
CGGTTCAAACCGGTTTTCCCAGTTTTCAGC
Found at i:62498 original size:22 final size:22
Alignment explanation
Indices: 62455--62514 Score: 57
Period size: 22 Copynumber: 2.7 Consensus size: 22
62445 ATTTAATAAT
* * *
62455 AAATAAATTATTTTAATTTTTTA
1 AAATAAATAATATTAA-GTTTTA
*
62478 AAATTAATAATATTAAGTTTTA
1 AAATAAATAATATTAAGTTTTA
**
62500 TGATAAATAATATTA
1 AAATAAATAATATTA
62515 TTTATTATAT
Statistics
Matches: 30, Mismatches: 7, Indels: 1
0.79 0.18 0.03
Matches are distributed among these distances:
22 17 0.57
23 13 0.43
ACGTcount: A:0.48, C:0.00, G:0.03, T:0.48
Consensus pattern (22 bp):
AAATAAATAATATTAAGTTTTA
Found at i:62518 original size:19 final size:17
Alignment explanation
Indices: 62495--62549 Score: 51
Period size: 19 Copynumber: 3.2 Consensus size: 17
62485 TAATATTAAG
62495 TTTTATGATAAATAATAT
1 TTTTAT-ATAAATAATAT
**
62513 TATTTATTATATTTAATAT
1 T-TTTA-TATAAATAATAT
62532 TTTTA-ATAAATAAT-T
1 TTTTATATAAATAATAT
62547 TTT
1 TTT
62550 AAAAAATTTA
Statistics
Matches: 31, Mismatches: 4, Indels: 7
0.74 0.10 0.17
Matches are distributed among these distances:
15 4 0.13
16 7 0.23
18 5 0.16
19 14 0.45
20 1 0.03
ACGTcount: A:0.40, C:0.00, G:0.02, T:0.58
Consensus pattern (17 bp):
TTTTATATAAATAATAT
Found at i:62737 original size:28 final size:28
Alignment explanation
Indices: 62686--62740 Score: 76
Period size: 28 Copynumber: 2.0 Consensus size: 28
62676 TTCCAAAAAT
*
62686 GTAATTCATTTCCAGAATTCAAATTTCA
1 GTAATTCATTTACAGAATTCAAATTTCA
*
62714 GTAATTCATTTTACATAATT-AAATTTC
1 GTAATTCA-TTTACAGAATTCAAATTTC
62741 TAAAAAATCA
Statistics
Matches: 24, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
28 15 0.62
29 9 0.38
ACGTcount: A:0.36, C:0.15, G:0.05, T:0.44
Consensus pattern (28 bp):
GTAATTCATTTACAGAATTCAAATTTCA
Found at i:64269 original size:33 final size:33
Alignment explanation
Indices: 64222--64296 Score: 107
Period size: 33 Copynumber: 2.3 Consensus size: 33
64212 CGATGACGAA
* *
64222 GGCGGCGAAGAAATCGATTTTCTGGGCGGCTTT-
1 GGCGGCGAACAAATCGATTTTCTGGCCGG-TTTC
64255 GGCGGCGAACAAATCGATTTTCTGGCCGGTTTC
1 GGCGGCGAACAAATCGATTTTCTGGCCGGTTTC
*
64288 AGCGGCGAA
1 GGCGGCGAA
64297 AGGAAGGCTC
Statistics
Matches: 38, Mismatches: 3, Indels: 2
0.88 0.07 0.05
Matches are distributed among these distances:
32 3 0.08
33 35 0.92
ACGTcount: A:0.20, C:0.21, G:0.35, T:0.24
Consensus pattern (33 bp):
GGCGGCGAACAAATCGATTTTCTGGCCGGTTTC
Found at i:66001 original size:66 final size:66
Alignment explanation
Indices: 65918--66048 Score: 226
Period size: 66 Copynumber: 2.0 Consensus size: 66
65908 GAACAAGAGT
* * *
65918 AAGAGAAAGGTTGAACTTCTATCACAGAGAAACATAAGATCTGTTTGTTGTAGAAATACAGATGT
1 AAGAGAAAGGCTGAACTTCTATCACAGAGAAACATAAGATCTGTCTGTGGTAGAAATACAGATGT
65983 C
66 C
*
65984 AAGAGAAAGGCTGAACTTCTATCACAGAGAAACATAAGATCTGTCTGTGGTAGGAATACAGATGT
1 AAGAGAAAGGCTGAACTTCTATCACAGAGAAACATAAGATCTGTCTGTGGTAGAAATACAGATGT
66049 TTAGATAGAA
Statistics
Matches: 61, Mismatches: 4, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
66 61 1.00
ACGTcount: A:0.39, C:0.13, G:0.23, T:0.25
Consensus pattern (66 bp):
AAGAGAAAGGCTGAACTTCTATCACAGAGAAACATAAGATCTGTCTGTGGTAGAAATACAGATGT
C
Found at i:70926 original size:8 final size:8
Alignment explanation
Indices: 70909--70958 Score: 57
Period size: 8 Copynumber: 6.4 Consensus size: 8
70899 CTAATATTTC
70909 TAATAATA
1 TAATAATA
*
70917 TAATATTA
1 TAATAATA
*
70925 TAATAAAA
1 TAATAATA
*
70933 TAATCA-A
1 TAATAATA
*
70940 TAATATTA
1 TAATAATA
70948 TAATAATA
1 TAATAATA
70956 TAA
1 TAA
70959 GATATTATAT
Statistics
Matches: 34, Mismatches: 7, Indels: 2
0.79 0.16 0.05
Matches are distributed among these distances:
7 5 0.15
8 29 0.85
ACGTcount: A:0.60, C:0.02, G:0.00, T:0.38
Consensus pattern (8 bp):
TAATAATA
Found at i:70969 original size:23 final size:24
Alignment explanation
Indices: 70909--70958 Score: 75
Period size: 23 Copynumber: 2.1 Consensus size: 24
70899 CTAATATTTC
*
70909 TAATAATATAATATTATAATAAAA
1 TAATCATATAATATTATAATAAAA
*
70933 TAATCA-ATAATATTATAATAATA
1 TAATCATATAATATTATAATAAAA
70956 TAA
1 TAA
70959 GATATTATAT
Statistics
Matches: 24, Mismatches: 2, Indels: 1
0.89 0.07 0.04
Matches are distributed among these distances:
23 19 0.79
24 5 0.21
ACGTcount: A:0.60, C:0.02, G:0.00, T:0.38
Consensus pattern (24 bp):
TAATCATATAATATTATAATAAAA
Found at i:71104 original size:23 final size:22
Alignment explanation
Indices: 71078--71121 Score: 61
Period size: 22 Copynumber: 2.0 Consensus size: 22
71068 AATAATATTT
71078 TAATAAAGATATTTAAAATATAC
1 TAATAAAGAT-TTTAAAATATAC
* *
71101 TAATTAATATTTTAAAATATA
1 TAATAAAGATTTTAAAATATA
71122 ATATAACAAT
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
22 11 0.58
23 8 0.42
ACGTcount: A:0.55, C:0.02, G:0.02, T:0.41
Consensus pattern (22 bp):
TAATAAAGATTTTAAAATATAC
Found at i:71306 original size:22 final size:23
Alignment explanation
Indices: 71216--71307 Score: 72
Period size: 22 Copynumber: 4.3 Consensus size: 23
71206 TATTAATAAA
71216 ATTATAA-AAATAATATTTAA--T
1 ATTATAATAAATAATA-TTAATTT
* *
71237 A--ATAATAAATTATTTTAATTT
1 ATTATAATAAATAATATTAATTT
* * * *
71258 TTTAAAATTAATAATATTAAGTT
1 ATTATAATAAATAATATTAATTT
71281 -TTATAATAAATAATATT-ATTT
1 ATTATAATAAATAATATTAATTT
71302 ATTATA
1 ATTATA
71308 TTTAATATTT
Statistics
Matches: 54, Mismatches: 11, Indels: 11
0.71 0.14 0.14
Matches are distributed among these distances:
19 8 0.15
20 6 0.11
21 5 0.09
22 20 0.37
23 15 0.28
ACGTcount: A:0.50, C:0.00, G:0.01, T:0.49
Consensus pattern (23 bp):
ATTATAATAAATAATATTAATTT
Found at i:71526 original size:29 final size:28
Alignment explanation
Indices: 71469--71522 Score: 74
Period size: 28 Copynumber: 1.9 Consensus size: 28
71459 TTCTAAAATT
*
71469 GTAATTTATTTCCAGAATTTAAATTTCA
1 GTAATTCATTTCCAGAATTTAAATTTCA
*
71497 GTAATTCATTTTCCTGAA-TTAAATTT
1 GTAATTCA-TTTCCAGAATTTAAATTT
71523 TCAGAAAATC
Statistics
Matches: 23, Mismatches: 2, Indels: 2
0.85 0.07 0.07
Matches are distributed among these distances:
28 15 0.65
29 8 0.35
ACGTcount: A:0.33, C:0.11, G:0.07, T:0.48
Consensus pattern (28 bp):
GTAATTCATTTCCAGAATTTAAATTTCA
Found at i:73043 original size:33 final size:33
Alignment explanation
Indices: 72996--73070 Score: 98
Period size: 33 Copynumber: 2.3 Consensus size: 33
72986 TGAAGACGAA
* *
72996 GGCGGCGAAGAAATCGATTTCCTGGGCGGCTTT-
1 GGCGGCGAACAAATCGATTTCCTGGCCGG-TTTC
*
73029 GGCGGCGAACAAATCGATTTTCTGGCCGGTTTC
1 GGCGGCGAACAAATCGATTTCCTGGCCGGTTTC
*
73062 AGCGGCGAA
1 GGCGGCGAA
73071 AGGAAGGCTC
Statistics
Matches: 37, Mismatches: 4, Indels: 2
0.86 0.09 0.05
Matches are distributed among these distances:
32 3 0.08
33 34 0.92
ACGTcount: A:0.20, C:0.23, G:0.35, T:0.23
Consensus pattern (33 bp):
GGCGGCGAACAAATCGATTTCCTGGCCGGTTTC
Found at i:74049 original size:22 final size:23
Alignment explanation
Indices: 74011--74071 Score: 79
Period size: 23 Copynumber: 2.6 Consensus size: 23
74001 GTTTATGTAA
*
74011 TAAATTTATTAAAAATATAATTT-T
1 TAAATTTA--AAAAATAAAATTTAT
74035 TAAATTTAAAAAATAAAATTTAT
1 TAAATTTAAAAAATAAAATTTAT
*
74058 TAAATTAAAAAAAT
1 TAAATTTAAAAAAT
74072 TAACATAAAT
Statistics
Matches: 34, Mismatches: 2, Indels: 3
0.87 0.05 0.08
Matches are distributed among these distances:
22 12 0.35
23 14 0.41
24 8 0.24
ACGTcount: A:0.59, C:0.00, G:0.00, T:0.41
Consensus pattern (23 bp):
TAAATTTAAAAAATAAAATTTAT
Found at i:79159 original size:19 final size:19
Alignment explanation
Indices: 79135--79171 Score: 56
Period size: 19 Copynumber: 1.9 Consensus size: 19
79125 ATGACCAATA
* *
79135 AAATCGTAATGCGATCTCT
1 AAATCGCAACGCGATCTCT
79154 AAATCGCAACGCGATCTC
1 AAATCGCAACGCGATCTC
79172 CATTATCGCA
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
19 16 1.00
ACGTcount: A:0.32, C:0.27, G:0.16, T:0.24
Consensus pattern (19 bp):
AAATCGCAACGCGATCTCT
Found at i:79281 original size:20 final size:20
Alignment explanation
Indices: 79256--79329 Score: 87
Period size: 20 Copynumber: 3.7 Consensus size: 20
79246 CGATTTTAGA
*
79256 AAATCGCAATGCGAATATGT
1 AAATCGCAACGCGAATATGT
* *
79276 AAATCGCAACGCGATTCTG-
1 AAATCGCAACGCGAATATGT
* *
79295 ACTATCGCAATGCGAATATGT
1 A-AATCGCAACGCGAATATGT
79316 AAATCGCAACGCGA
1 AAATCGCAACGCGA
79330 TTCTGACTAT
Statistics
Matches: 43, Mismatches: 9, Indels: 4
0.77 0.16 0.07
Matches are distributed among these distances:
19 1 0.02
20 41 0.95
21 1 0.02
ACGTcount: A:0.36, C:0.22, G:0.20, T:0.22
Consensus pattern (20 bp):
AAATCGCAACGCGAATATGT
Found at i:79303 original size:40 final size:40
Alignment explanation
Indices: 79258--79390 Score: 196
Period size: 40 Copynumber: 3.3 Consensus size: 40
79248 ATTTTAGAAA
*
79258 ATCGCAATGCGAATATGTAAATCGCAACGCGATTCTGACT
1 ATCGCAACGCGAATATGTAAATCGCAACGCGATTCTGACT
*
79298 ATCGCAATGCGAATATGTAAATCGCAACGCGATTCTGACT
1 ATCGCAACGCGAATATGTAAATCGCAACGCGATTCTGACT
* * *
79338 ATCGTAACGCGATAATACGT-AATCGCAACGCGATTGTGACT
1 ATCGCAACGCG--AATATGTAAATCGCAACGCGATTCTGACT
79379 ATCGCAACGCGA
1 ATCGCAACGCGA
79391 TTCTGACTAT
Statistics
Matches: 86, Mismatches: 5, Indels: 5
0.90 0.05 0.05
Matches are distributed among these distances:
39 1 0.01
40 49 0.57
41 30 0.35
42 6 0.07
ACGTcount: A:0.32, C:0.23, G:0.21, T:0.23
Consensus pattern (40 bp):
ATCGCAACGCGAATATGTAAATCGCAACGCGATTCTGACT
Found at i:79341 original size:20 final size:20
Alignment explanation
Indices: 79278--79402 Score: 137
Period size: 20 Copynumber: 6.2 Consensus size: 20
79268 GAATATGTAA
79278 ATCGCAACGCGATTCTGACT
1 ATCGCAACGCGATTCTGACT
* * * *
79298 ATCGCAATGCGAATATGTA-A
1 ATCGCAACGCGATTCTG-ACT
79318 ATCGCAACGCGATTCTGACT
1 ATCGCAACGCGATTCTGACT
* **
79338 ATCGTAACGCGATAAT-ACGT
1 ATCGCAACGCGATTCTGAC-T
*
79358 AATCGCAACGCGATTGTGACT
1 -ATCGCAACGCGATTCTGACT
79379 ATCGCAACGCGATTCTGACT
1 ATCGCAACGCGATTCTGACT
79399 ATCG
1 ATCG
79403 TGTTGCGCTA
Statistics
Matches: 85, Mismatches: 15, Indels: 10
0.77 0.14 0.09
Matches are distributed among these distances:
19 3 0.04
20 65 0.76
21 15 0.18
22 2 0.02
ACGTcount: A:0.30, C:0.25, G:0.21, T:0.25
Consensus pattern (20 bp):
ATCGCAACGCGATTCTGACT
Found at i:79415 original size:61 final size:61
Alignment explanation
Indices: 79318--79433 Score: 169
Period size: 61 Copynumber: 1.9 Consensus size: 61
79308 GAATATGTAA
**
79318 ATCGCAACGCGATTCTGACTATCGTAACGCGATAATACGTAATCGCAACGCGATTGTGACT
1 ATCGCAACGCGATTCTGACTATCGTAACGCGATAATACAAAATCGCAACGCGATTGTGACT
*** * *
79379 ATCGCAACGCGATTCTGACTATCGTGTTGCGCTAATACAAAATCGCAATGCGATT
1 ATCGCAACGCGATTCTGACTATCGTAACGCGATAATACAAAATCGCAACGCGATT
79434 TTCAAAACGC
Statistics
Matches: 48, Mismatches: 7, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
61 48 1.00
ACGTcount: A:0.29, C:0.24, G:0.21, T:0.26
Consensus pattern (61 bp):
ATCGCAACGCGATTCTGACTATCGTAACGCGATAATACAAAATCGCAACGCGATTGTGACT
Found at i:79596 original size:22 final size:22
Alignment explanation
Indices: 79571--79628 Score: 71
Period size: 22 Copynumber: 2.6 Consensus size: 22
79561 TCACTCTCTA
*
79571 TGACGACATCCGTCCCCATCTC
1 TGACGAAATCCGTCCCCATCTC
**
79593 TGACGAAATCTATCCCCATCTC
1 TGACGAAATCCGTCCCCATCTC
* *
79615 CGGCGAAATCCGTC
1 TGACGAAATCCGTC
79629 TATCTCCATC
Statistics
Matches: 29, Mismatches: 7, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
22 29 1.00
ACGTcount: A:0.22, C:0.40, G:0.16, T:0.22
Consensus pattern (22 bp):
TGACGAAATCCGTCCCCATCTC
Found at i:80039 original size:19 final size:19
Alignment explanation
Indices: 80017--80121 Score: 77
Period size: 20 Copynumber: 5.4 Consensus size: 19
80007 AAATCGCAAC
80017 GCGATTTT-AGTTTCGCGTT
1 GCGATTTTCA-TTTCGCGTT
*
80036 GCGATTTTCATTTCTCGTT
1 GCGATTTTCATTTCGCGTT
** *
80055 GCGATAGTCAAATTCGCGTT
1 GCGATTTTC-ATTTCGCGTT
** * *
80075 GCGATAGTCATTTTTGTGTT
1 GCGATTTTCA-TTTCGCGTT
*
80095 GCGATTTTCATTTTCGTGTT
1 GCGATTTTCA-TTTCGCGTT
*
80115 GCAATTT
1 GCGATTT
80122 AAAGTTTCAG
Statistics
Matches: 71, Mismatches: 12, Indels: 5
0.81 0.14 0.06
Matches are distributed among these distances:
19 24 0.34
20 47 0.66
ACGTcount: A:0.15, C:0.16, G:0.22, T:0.47
Consensus pattern (19 bp):
GCGATTTTCATTTCGCGTT
Found at i:82099 original size:20 final size:20
Alignment explanation
Indices: 82036--82106 Score: 97
Period size: 20 Copynumber: 3.5 Consensus size: 20
82026 GAAACTTAAA
* *
82036 ATCGCAACGCGAAAATGACT
1 ATCGCAAAGCGGAAATGACT
* * *
82056 ATCACAACGTGGAAATGACT
1 ATCGCAAAGCGGAAATGACT
82076 ATCGCAAAGCGGAAATGACT
1 ATCGCAAAGCGGAAATGACT
82096 ATCGCAAAGCG
1 ATCGCAAAGCG
82107 ATAATCGCAA
Statistics
Matches: 45, Mismatches: 6, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
20 45 1.00
ACGTcount: A:0.39, C:0.23, G:0.23, T:0.15
Consensus pattern (20 bp):
ATCGCAAAGCGGAAATGACT
Found at i:82126 original size:34 final size:34
Alignment explanation
Indices: 82076--82141 Score: 87
Period size: 34 Copynumber: 1.9 Consensus size: 34
82066 GGAAATGACT
* **
82076 ATCGCAAAGCGGAAATGACTATCGCAAAGCGATA
1 ATCGCAAAGCGAAAATGAAAATCGCAAAGCGATA
* *
82110 ATCGCAATGCGAAAATGAAAATCGCAACGCGA
1 ATCGCAAAGCGAAAATGAAAATCGCAAAGCGA
82142 ATTTAGTTTC
Statistics
Matches: 27, Mismatches: 5, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
34 27 1.00
ACGTcount: A:0.42, C:0.21, G:0.23, T:0.14
Consensus pattern (34 bp):
ATCGCAAAGCGAAAATGAAAATCGCAAAGCGATA
Found at i:82165 original size:14 final size:14
Alignment explanation
Indices: 82148--82178 Score: 53
Period size: 14 Copynumber: 2.2 Consensus size: 14
82138 GCGAATTTAG
82148 TTTCGCGTTGCGAT
1 TTTCGCGTTGCGAT
*
82162 TTTCTCGTTGCGAT
1 TTTCGCGTTGCGAT
82176 TTT
1 TTT
82179 ATTTCGCATT
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
14 16 1.00
ACGTcount: A:0.06, C:0.19, G:0.23, T:0.52
Consensus pattern (14 bp):
TTTCGCGTTGCGAT
Found at i:82191 original size:32 final size:33
Alignment explanation
Indices: 82138--82207 Score: 97
Period size: 32 Copynumber: 2.2 Consensus size: 33
82128 AAATCGCAAC
* * * *
82138 GCGAATTTAGTTTCGCGTTGCGATTTTCTCGTT
1 GCGATTTTAGTTTCGCATTGCGATTATCCCGTT
82171 GCGATTTTA-TTTCGCATTGCGATTATCCCGTT
1 GCGATTTTAGTTTCGCATTGCGATTATCCCGTT
82203 GCGAT
1 GCGAT
82208 AGTCAAATTC
Statistics
Matches: 33, Mismatches: 4, Indels: 1
0.87 0.11 0.03
Matches are distributed among these distances:
32 25 0.76
33 8 0.24
ACGTcount: A:0.14, C:0.20, G:0.23, T:0.43
Consensus pattern (33 bp):
GCGATTTTAGTTTCGCATTGCGATTATCCCGTT
Found at i:82224 original size:20 final size:20
Alignment explanation
Indices: 82199--82287 Score: 133
Period size: 20 Copynumber: 4.5 Consensus size: 20
82189 GCGATTATCC
**
82199 CGTTGCGATAGTCAAATTCG
1 CGTTGCGATAGTCATTTTCG
82219 CGTTGCGATAGTCATTTTCG
1 CGTTGCGATAGTCATTTTCG
*
82239 TGTTGCGATAGTCATTTTCG
1 CGTTGCGATAGTCATTTTCG
*
82259 CATTGCGATAGTCATTTTCG
1 CGTTGCGATAGTCATTTTCG
*
82279 TGTTGCGAT
1 CGTTGCGAT
82288 TTTAAGTTTC
Statistics
Matches: 62, Mismatches: 7, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
20 62 1.00
ACGTcount: A:0.18, C:0.18, G:0.25, T:0.39
Consensus pattern (20 bp):
CGTTGCGATAGTCATTTTCG
Found at i:82259 original size:40 final size:40
Alignment explanation
Indices: 82200--82287 Score: 149
Period size: 40 Copynumber: 2.2 Consensus size: 40
82190 CGATTATCCC
*
82200 GTTGCGATAGTCAAATTCGCGTTGCGATAGTCATTTTCGT
1 GTTGCGATAGTCAAATTCGCATTGCGATAGTCATTTTCGT
**
82240 GTTGCGATAGTCATTTTCGCATTGCGATAGTCATTTTCGT
1 GTTGCGATAGTCAAATTCGCATTGCGATAGTCATTTTCGT
82280 GTTGCGAT
1 GTTGCGAT
82288 TTTAAGTTTC
Statistics
Matches: 45, Mismatches: 3, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
40 45 1.00
ACGTcount: A:0.18, C:0.17, G:0.25, T:0.40
Consensus pattern (40 bp):
GTTGCGATAGTCAAATTCGCATTGCGATAGTCATTTTCGT
Found at i:82814 original size:21 final size:21
Alignment explanation
Indices: 82745--82859 Score: 79
Period size: 21 Copynumber: 5.5 Consensus size: 21
82735 CATCTGTCAT
* * *
82745 CGTTCAAGAGGCCTCTCCTAT
1 CGTTCAAGAGGCCCCTCCCAC
**
82766 CGTTCAAGAGGCCCCTATCATC
1 CGTTCAAGAGGCCCCTCCCA-C
* *
82788 C-CTCAAGAGTCCCCTCCCAC
1 CGTTCAAGAGGCCCCTCCCAC
* ** *
82808 CGTTCAAGAGGCCCATGTCAT
1 CGTTCAAGAGGCCCCTCCCAC
* *
82829 CGTTGAAGAGGTCCCTCCCAC
1 CGTTCAAGAGGCCCCTCCCAC
* *
82850 CATTCTAGAG
1 CGTTCAAGAG
82860 CCCGATTCAC
Statistics
Matches: 68, Mismatches: 24, Indels: 4
0.71 0.25 0.04
Matches are distributed among these distances:
20 2 0.03
21 65 0.96
22 1 0.01
ACGTcount: A:0.22, C:0.37, G:0.19, T:0.23
Consensus pattern (21 bp):
CGTTCAAGAGGCCCCTCCCAC
Found at i:82829 original size:42 final size:42
Alignment explanation
Indices: 82739--82859 Score: 116
Period size: 42 Copynumber: 2.9 Consensus size: 42
82729 CCGACTCATC
** * * * *
82739 TGTCATCGTTCAAGAGGCCTCTCCTATCGTTCAAGAGGCCCC
1 TGTCATCCCTCAAGAGGCCCCTCCCACCGTTCAAGAGGCCCA
* *
82781 TATCATCCCTCAAGAGTCCCCTCCCACCGTTCAAGAGGCCCA
1 TGTCATCCCTCAAGAGGCCCCTCCCACCGTTCAAGAGGCCCA
** * * * *
82823 TGTCATCGTTGAAGAGGTCCCTCCCACCATTCTAGAG
1 TGTCATCCCTCAAGAGGCCCCTCCCACCGTTCAAGAG
82860 CCCGATTCAC
Statistics
Matches: 63, Mismatches: 16, Indels: 0
0.80 0.20 0.00
Matches are distributed among these distances:
42 63 1.00
ACGTcount: A:0.21, C:0.36, G:0.19, T:0.24
Consensus pattern (42 bp):
TGTCATCCCTCAAGAGGCCCCTCCCACCGTTCAAGAGGCCCA
Found at i:84197 original size:14 final size:14
Alignment explanation
Indices: 84178--84214 Score: 74
Period size: 14 Copynumber: 2.6 Consensus size: 14
84168 ACTTGTTTAA
84178 TTGATTTGTAAAAG
1 TTGATTTGTAAAAG
84192 TTGATTTGTAAAAG
1 TTGATTTGTAAAAG
84206 TTGATTTGT
1 TTGATTTGT
84215 TTAATTGATG
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 23 1.00
ACGTcount: A:0.30, C:0.00, G:0.22, T:0.49
Consensus pattern (14 bp):
TTGATTTGTAAAAG
Found at i:84385 original size:20 final size:20
Alignment explanation
Indices: 84357--84406 Score: 73
Period size: 20 Copynumber: 2.5 Consensus size: 20
84347 TTCTCATTGC
*
84357 GATAGTCAAATTCCCGTTGA
1 GATAGTCAAATTCACGTTGA
* *
84377 GATAATCAAATTCACGTTGC
1 GATAGTCAAATTCACGTTGA
84397 GATAGTCAAA
1 GATAGTCAAA
84407 ATCGCAATGC
Statistics
Matches: 26, Mismatches: 4, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
20 26 1.00
ACGTcount: A:0.36, C:0.18, G:0.18, T:0.28
Consensus pattern (20 bp):
GATAGTCAAATTCACGTTGA
Found at i:84417 original size:20 final size:20
Alignment explanation
Indices: 84403--84461 Score: 109
Period size: 20 Copynumber: 3.0 Consensus size: 20
84393 TTGCGATAGT
84403 CAAAATCGCAATGCGAAAGC
1 CAAAATCGCAATGCGAAAGC
84423 CAAAATCGCAATGCGAAAGC
1 CAAAATCGCAATGCGAAAGC
*
84443 CAAAATCGCAACGCGAAAG
1 CAAAATCGCAATGCGAAAG
84462 TCAATTCGCG
Statistics
Matches: 38, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
20 38 1.00
ACGTcount: A:0.46, C:0.25, G:0.20, T:0.08
Consensus pattern (20 bp):
CAAAATCGCAATGCGAAAGC
Found at i:84526 original size:153 final size:153
Alignment explanation
Indices: 84317--84594 Score: 520
Period size: 153 Copynumber: 1.8 Consensus size: 153
84307 AGGCAAAAGA
84317 CGTTGCGATAGTCTAATACGCTTTGCGATTTTCTCATTGCGATAGTCAAATTCCCGTTGAGATAA
1 CGTTGCGATAGTCTAATACGCTTTGCGATTTTCTCATTGCGATAGTCAAATTCCCGTTGAGATAA
*
84382 TCAAATTCACGTTGCGATAGTCAAAATCGCAATGCGAAAGCCAAAATCGCAATGCGAAAGCCAAA
66 TCAAATTCACGTTGCGATAGTCAAAATCGCAATGCGAAAGCCAAAATCGCAACGCGAAAGCCAAA
84447 ATCGCAACGCGAAAGTCAATTCG
131 ATCGCAACGCGAAAGTCAATTCG
* *
84470 CGTTGCGATGGTCTAATACGCTTTGCGATTTTCTCATTGCGATAGTCAAATTCCCGTTGCGATAA
1 CGTTGCGATAGTCTAATACGCTTTGCGATTTTCTCATTGCGATAGTCAAATTCCCGTTGAGATAA
*
84535 TCAAATTCACGTTGTGATAGTCAAAATCGCAATGCGAAAGCCAAAATCGCAACGCGAAAG
66 TCAAATTCACGTTGCGATAGTCAAAATCGCAATGCGAAAGCCAAAATCGCAACGCGAAAG
84595 TCAATTGGCG
Statistics
Matches: 121, Mismatches: 4, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
153 121 1.00
ACGTcount: A:0.32, C:0.22, G:0.20, T:0.26
Consensus pattern (153 bp):
CGTTGCGATAGTCTAATACGCTTTGCGATTTTCTCATTGCGATAGTCAAATTCCCGTTGAGATAA
TCAAATTCACGTTGCGATAGTCAAAATCGCAATGCGAAAGCCAAAATCGCAACGCGAAAGCCAAA
ATCGCAACGCGAAAGTCAATTCG
Found at i:84531 original size:20 final size:20
Alignment explanation
Indices: 84506--84559 Score: 81
Period size: 20 Copynumber: 2.7 Consensus size: 20
84496 GATTTTCTCA
*
84506 TTGCGATAGTCAAATTCCCG
1 TTGCGATAGTCAAATTCACG
*
84526 TTGCGATAATCAAATTCACG
1 TTGCGATAGTCAAATTCACG
*
84546 TTGTGATAGTCAAA
1 TTGCGATAGTCAAA
84560 ATCGCAATGC
Statistics
Matches: 30, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
20 30 1.00
ACGTcount: A:0.31, C:0.19, G:0.19, T:0.31
Consensus pattern (20 bp):
TTGCGATAGTCAAATTCACG
Found at i:84581 original size:20 final size:20
Alignment explanation
Indices: 84556--84594 Score: 69
Period size: 20 Copynumber: 1.9 Consensus size: 20
84546 TTGTGATAGT
*
84556 CAAAATCGCAATGCGAAAGC
1 CAAAATCGCAACGCGAAAGC
84576 CAAAATCGCAACGCGAAAG
1 CAAAATCGCAACGCGAAAG
84595 TCAATTGGCG
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:0.46, C:0.26, G:0.21, T:0.08
Consensus pattern (20 bp):
CAAAATCGCAACGCGAAAGC
Found at i:84674 original size:133 final size:133
Alignment explanation
Indices: 84371--84684 Score: 475
Period size: 133 Copynumber: 2.4 Consensus size: 133
84361 GTCAAATTCC
* * **
84371 CGTTGAGATAATCAAATTCACGTTGCGATAGTCAAAATCGCAATGCGAAAGCCAAAATCGCAATG
1 CGTTGCGATAATCAAATTCACGTTGCGATAGTCAAATTCGCGTTGCGAAAGCCAAAATCGCAATG
*
84436 CGAAAGCCAAAATCGCAACGCGAAAGTCAATTCGCGTTGCGATGGTCTAATACGCTTTGCGATTT
66 CGAAAGCCAAAATCGCAACGCGAAAGTCAATTCGCGTTGCGATGGTCTAATACACTTTGCGATTT
84501 TCT
131 TCT
* * * * * * * *
84504 CATTGCGATAGTCAAATTCCCGTTGCGATAATCAAATTCACGTTGTGATAGTCAAAATCGCAATG
1 CGTTGCGATAATCAAATTCACGTTGCGATAGTCAAATTCGCGTTGCGAAAGCCAAAATCGCAATG
* *
84569 CGAAAGCCAAAATCGCAACGCGAAAGTCAATTGGCGTTGCGATGGTCTAATACACTTTGTGATTT
66 CGAAAGCCAAAATCGCAACGCGAAAGTCAATTCGCGTTGCGATGGTCTAATACACTTTGCGATTT
84634 TCT
131 TCT
* *
84637 CGTTGCGATAATCAAATTCACGTTGCGATTGTGAAATTCGCGTTGCGA
1 CGTTGCGATAATCAAATTCACGTTGCGATAGTCAAATTCGCGTTGCGA
84685 TTTTTGCATT
Statistics
Matches: 158, Mismatches: 23, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
133 158 1.00
ACGTcount: A:0.31, C:0.21, G:0.21, T:0.27
Consensus pattern (133 bp):
CGTTGCGATAATCAAATTCACGTTGCGATAGTCAAATTCGCGTTGCGAAAGCCAAAATCGCAATG
CGAAAGCCAAAATCGCAACGCGAAAGTCAATTCGCGTTGCGATGGTCTAATACACTTTGCGATTT
TCT
Found at i:84722 original size:20 final size:19
Alignment explanation
Indices: 84697--84734 Score: 58
Period size: 19 Copynumber: 1.9 Consensus size: 19
84687 TTTGCATTGC
84697 GATAGTCAAATTCGCGTTGT
1 GATAGTC-AATTCGCGTTGT
*
84717 GATAGTCAATTTGCGTTG
1 GATAGTCAATTCGCGTTG
84735 CCATATTCAA
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
19 10 0.59
20 7 0.41
ACGTcount: A:0.24, C:0.13, G:0.26, T:0.37
Consensus pattern (19 bp):
GATAGTCAATTCGCGTTGT
Found at i:84732 original size:19 final size:20
Alignment explanation
Indices: 84637--84746 Score: 72
Period size: 20 Copynumber: 5.8 Consensus size: 20
84627 GTGATTTTCT
* **
84637 CGTTGCGATAATCAAATTCA
1 CGTTGCGATAGTCAAATTTG
* * *
84657 CGTTGCGATTGTGAAATTCG
1 CGTTGCGATAGTCAAATTTG
84677 CGTTGCGAT--T----TTTG
1 CGTTGCGATAGTCAAATTTG
* *
84691 CATTGCGATAGTCAAATTCG
1 CGTTGCGATAGTCAAATTTG
*
84711 CGTTGTGATAGTC-AATTTG
1 CGTTGCGATAGTCAAATTTG
* *
84730 CGTTGCCATATTCAAAT
1 CGTTGCGATAGTCAAAT
84747 GAATGTGTAA
Statistics
Matches: 70, Mismatches: 13, Indels: 14
0.72 0.13 0.14
Matches are distributed among these distances:
14 11 0.16
16 1 0.01
18 1 0.01
19 15 0.21
20 42 0.60
ACGTcount: A:0.25, C:0.17, G:0.22, T:0.36
Consensus pattern (20 bp):
CGTTGCGATAGTCAAATTTG
Found at i:85013 original size:140 final size:138
Alignment explanation
Indices: 84724--85013 Score: 438
Period size: 140 Copynumber: 2.1 Consensus size: 138
84714 TGTGATAGTC
* * * *
84724 AATTTGCGTTGCCATATTCAAATGAATGTGTAATAAGTGATAACAACTGAATAGATCATAGCAAT
1 AATTTGCATTGCCATATTCAAATGAATGTGTAACAAGTGATAACAACTGAACAGATCATAACAAT
* * *
84789 GTTCAAACTCAAGTTACTTATACATGCCTAACTGAAAATGTTAAAAGTTTACACATAAAATACAC
66 GTTCAAAATCAAGTTACTAATAAATGCCTAACTGAAAATGTTAAAAGTTTACACATAAAATACAC
84854 ATAATAGTCA
131 ATAATA--CA
* * *
84864 AATTCGCATTGCGATATTCAAATGAATGTGTAACAAGTGATAACAACTGAACATATCATAACAAT
1 AATTTGCATTGCCATATTCAAATGAATGTGTAACAAGTGATAACAACTGAACAGATCATAACAAT
84929 GTTCAAAATCAAGTTACTAATAAAATGCCTAACTGAAAATGTTAAAAGTTTACACATAAAATACA
66 GTTCAAAATCAAGTTACTAAT-AAATGCCTAACTGAAAATGTTAAAAGTTTACACATAAAATACA
84994 CATAATA-A
130 CATAATACA
85002 AACGTTTGCATT
1 AA--TTTGCATT
85014 TAAAAATCAC
Statistics
Matches: 136, Mismatches: 11, Indels: 6
0.89 0.07 0.04
Matches are distributed among these distances:
138 3 0.02
140 84 0.62
141 49 0.36
ACGTcount: A:0.44, C:0.15, G:0.12, T:0.29
Consensus pattern (138 bp):
AATTTGCATTGCCATATTCAAATGAATGTGTAACAAGTGATAACAACTGAACAGATCATAACAAT
GTTCAAAATCAAGTTACTAATAAATGCCTAACTGAAAATGTTAAAAGTTTACACATAAAATACAC
ATAATACA
Found at i:86154 original size:2 final size:2
Alignment explanation
Indices: 86147--86196 Score: 91
Period size: 2 Copynumber: 25.0 Consensus size: 2
86137 ATGCACCTTC
86147 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
*
86189 AT AC AT AT
1 AT AT AT AT
86197 CCACACATAC
Statistics
Matches: 46, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
2 46 1.00
ACGTcount: A:0.50, C:0.02, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:86532 original size:30 final size:30
Alignment explanation
Indices: 86469--86681 Score: 374
Period size: 30 Copynumber: 7.1 Consensus size: 30
86459 GAAGGACCTA
* * *
86469 TCCAGAGGTCACAAAGA-CCCCGGTAACTA
1 TCCAGAGGTCATAAAGATCCTCGGTAACTG
*
86498 TCCAGAGGTCATAAAGATCCTCGGTAGCTG
1 TCCAGAGGTCATAAAGATCCTCGGTAACTG
86528 TCCAGAGGTCATAAAGATCCTCGGTAACTG
1 TCCAGAGGTCATAAAGATCCTCGGTAACTG
*
86558 TTCAGAGGTCATAAAGATCCTCGGTAACTG
1 TCCAGAGGTCATAAAGATCCTCGGTAACTG
86588 TCCAGAGGTCATAAAGATCCTCGGTAACTG
1 TCCAGAGGTCATAAAGATCCTCGGTAACTG
86618 TCCAGAGGTCATAAAGATCCTCGGTAACTG
1 TCCAGAGGTCATAAAGATCCTCGGTAACTG
86648 TCCAGAGGTCATAAAGATCCTCGGTAACTG
1 TCCAGAGGTCATAAAGATCCTCGGTAACTG
86678 TCCA
1 TCCA
86682 TATGTTCCTT
Statistics
Matches: 176, Mismatches: 7, Indels: 1
0.96 0.04 0.01
Matches are distributed among these distances:
29 16 0.09
30 160 0.91
ACGTcount: A:0.30, C:0.24, G:0.23, T:0.23
Consensus pattern (30 bp):
TCCAGAGGTCATAAAGATCCTCGGTAACTG
Found at i:86712 original size:31 final size:30
Alignment explanation
Indices: 86670--86767 Score: 108
Period size: 31 Copynumber: 3.2 Consensus size: 30
86660 AAAGATCCTC
*
86670 GGTAACTGTCCATATGTTCCTTAGAACATA
1 GGTAACTGTCCATATGTTCCATAGAACATA
* *
86700 GGTATACTGTCCATATGTCTCGAAAG-ACATA
1 GGTA-ACTGTCCATATGT-TCCATAGAACATA
* *
86731 GGTAAAACTGTCCATATATTCCGTAGAACATA
1 GGT--AACTGTCCATATGTTCCATAGAACATA
86763 GGTAA
1 GGTAA
86768 ACCCTCGACT
Statistics
Matches: 56, Mismatches: 7, Indels: 10
0.77 0.10 0.14
Matches are distributed among these distances:
30 6 0.11
31 25 0.45
32 24 0.43
33 1 0.02
ACGTcount: A:0.34, C:0.18, G:0.18, T:0.30
Consensus pattern (30 bp):
GGTAACTGTCCATATGTTCCATAGAACATA
Found at i:87688 original size:21 final size:21
Alignment explanation
Indices: 87664--87708 Score: 54
Period size: 21 Copynumber: 2.1 Consensus size: 21
87654 CTATGTTCGT
* * *
87664 TTGAGGGGGTATCGGTTCCCC
1 TTGAAGGGGTACCGATTCCCC
*
87685 TTGAATGGGTACCGATTCCCC
1 TTGAAGGGGTACCGATTCCCC
87706 TTG
1 TTG
87709 CCCTGAAATC
Statistics
Matches: 20, Mismatches: 4, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
21 20 1.00
ACGTcount: A:0.13, C:0.24, G:0.31, T:0.31
Consensus pattern (21 bp):
TTGAAGGGGTACCGATTCCCC
Found at i:90188 original size:2 final size:2
Alignment explanation
Indices: 90175--90240 Score: 114
Period size: 2 Copynumber: 33.0 Consensus size: 2
90165 TGCACCTTTC
*
90175 AT AT AG 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
*
90217 AT AT AT AT AT AT AT AT AT AC AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT
90241 CCACACATAC
Statistics
Matches: 60, Mismatches: 4, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
2 60 1.00
ACGTcount: A:0.50, C:0.02, G:0.02, T:0.47
Consensus pattern (2 bp):
AT
Found at i:90569 original size:30 final size:30
Alignment explanation
Indices: 90513--90665 Score: 272
Period size: 30 Copynumber: 5.1 Consensus size: 30
90503 GAAGGACCTA
* * *
90513 TCCAGAGGTCACAAAGA-CCCCGGTAACTA
1 TCCAGAGGTCATAAAGATCCTCGGTAACTG
90542 TCCAGAGGTCATAAAGATCCTCGGTAACTG
1 TCCAGAGGTCATAAAGATCCTCGGTAACTG
90572 TCCAGAGGTCATAAAGATCCTCGGTAACTG
1 TCCAGAGGTCATAAAGATCCTCGGTAACTG
90602 TCCAGAGGTCATAAAGATCCTCGGTAACTG
1 TCCAGAGGTCATAAAGATCCTCGGTAACTG
90632 TCCAGAGGTCATAAAGATCCTCGGTAACTG
1 TCCAGAGGTCATAAAGATCCTCGGTAACTG
90662 TCCA
1 TCCA
90666 TATGTTCCTT
Statistics
Matches: 120, Mismatches: 3, Indels: 1
0.97 0.02 0.01
Matches are distributed among these distances:
29 16 0.13
30 104 0.87
ACGTcount: A:0.31, C:0.25, G:0.22, T:0.22
Consensus pattern (30 bp):
TCCAGAGGTCATAAAGATCCTCGGTAACTG
Found at i:90696 original size:31 final size:30
Alignment explanation
Indices: 90654--90751 Score: 117
Period size: 31 Copynumber: 3.2 Consensus size: 30
90644 AAAGATCCTC
*
90654 GGTAACTGTCCATATGTTCCTTAGAACATA
1 GGTAACTGTCCATATGTTCCATAGAACATA
* *
90684 GGTATACTGTCCATATGTCTCGAAAG-ACATA
1 GGTA-ACTGTCCATATGT-TCCATAGAACATA
*
90715 GGTAAAACTGTCCATATGTTCCGTAGAACATA
1 GGT--AACTGTCCATATGTTCCATAGAACATA
90747 GGTAA
1 GGTAA
90752 ACCCTCGACT
Statistics
Matches: 57, Mismatches: 6, Indels: 10
0.78 0.08 0.14
Matches are distributed among these distances:
30 6 0.11
31 25 0.44
32 25 0.44
33 1 0.02
ACGTcount: A:0.33, C:0.18, G:0.19, T:0.30
Consensus pattern (30 bp):
GGTAACTGTCCATATGTTCCATAGAACATA
Found at i:93862 original size:15 final size:14
Alignment explanation
Indices: 93826--93862 Score: 65
Period size: 14 Copynumber: 2.6 Consensus size: 14
93816 TCCCGTGGTA
93826 TTTTCTTCGGGGAT
1 TTTTCTTCGGGGAT
93840 TTTTCTTCGGGGAT
1 TTTTCTTCGGGGAT
93854 TTCTTCTTC
1 TT-TTCTTC
93863 TTCTTTTTCT
Statistics
Matches: 22, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
14 16 0.73
15 6 0.27
ACGTcount: A:0.05, C:0.19, G:0.22, T:0.54
Consensus pattern (14 bp):
TTTTCTTCGGGGAT
Found at i:94119 original size:24 final size:24
Alignment explanation
Indices: 94052--94111 Score: 84
Period size: 24 Copynumber: 2.5 Consensus size: 24
94042 CTGAAACATC
94052 ATCAAAATTCGAGTATTGACCAAG
1 ATCAAAATTCGAGTATTGACCAAG
* * *
94076 ATCAAAGTCCGGGTATTGACCAAG
1 ATCAAAATTCGAGTATTGACCAAG
*
94100 ATCAAATTTCGA
1 ATCAAAATTCGA
94112 ATACTGACTA
Statistics
Matches: 30, Mismatches: 6, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
24 30 1.00
ACGTcount: A:0.38, C:0.18, G:0.18, T:0.25
Consensus pattern (24 bp):
ATCAAAATTCGAGTATTGACCAAG
Found at i:94969 original size:20 final size:20
Alignment explanation
Indices: 94908--95016 Score: 121
Period size: 20 Copynumber: 5.4 Consensus size: 20
94898 GAAATTCAGT
*
94908 GTTGCGAAAGTCAGAATCGC
1 GTTGCGATAGTCAGAATCGC
*** *
94928 AACGCGATAGTCAGAATTGC
1 GTTGCGATAGTCAGAATCGC
*
94948 GTTGGGATAGTCAGAATCGC
1 GTTGCGATAGTCAGAATCGC
**
94968 GTTGCGATTACGT-ATTATCGC
1 GTTGCGA-TA-GTCAGAATCGC
94989 GTTGCGATAGTCAGAATCGC
1 GTTGCGATAGTCAGAATCGC
95009 GTTGCGAT
1 GTTGCGAT
95017 TATGTATTAT
Statistics
Matches: 71, Mismatches: 15, Indels: 6
0.77 0.16 0.07
Matches are distributed among these distances:
19 2 0.03
20 52 0.73
21 15 0.21
22 2 0.03
ACGTcount: A:0.26, C:0.18, G:0.29, T:0.27
Consensus pattern (20 bp):
GTTGCGATAGTCAGAATCGC
Found at i:94989 original size:21 final size:20
Alignment explanation
Indices: 94963--95038 Score: 82
Period size: 21 Copynumber: 3.7 Consensus size: 20
94953 GATAGTCAGA
94963 ATCGCGTTGCGATTACGTATT
1 ATCGCGTTGCGATTA-GTATT
**
94984 ATCGCGTTGCGA-TAGTCAGA
1 ATCGCGTTGCGATTAGT-ATT
95004 ATCGCGTTGCGATTATGTATT
1 ATCGCGTTGCGATTA-GTATT
**
95025 ATCGTATTGCGATT
1 ATCGCGTTGCGATT
95039 TACATATTCG
Statistics
Matches: 46, Mismatches: 6, Indels: 6
0.79 0.10 0.10
Matches are distributed among these distances:
19 2 0.04
20 15 0.33
21 27 0.59
22 2 0.04
ACGTcount: A:0.21, C:0.17, G:0.25, T:0.37
Consensus pattern (20 bp):
ATCGCGTTGCGATTAGTATT
Found at i:94996 original size:61 final size:61
Alignment explanation
Indices: 94931--95076 Score: 163
Period size: 61 Copynumber: 2.4 Consensus size: 61
94921 GAATCGCAAC
* * * *
94931 GCGATAGTCAGAATTGCGTTGGGA-TA-GTCAGAATCGCGTTGCGA-TTACGTATTATCGCGTT
1 GCGATAGTCAGAATTGCGTTGCGATTATGT-AGAATCGCATTGCGATTTACATA-T-TCGCATT
* ** *
94992 GCGATAGTCAGAATCGCGTTGCGATTATGTATTATCGTATTGCGATTTACATATTCGCATT
1 GCGATAGTCAGAATTGCGTTGCGATTATGTAGAATCGCATTGCGATTTACATATTCGCATT
*
95053 GCGATAGTCAAAATTGCGTTGCGA
1 GCGATAGTCAGAATTGCGTTGCGA
95077 ATCTGGAAAC
Statistics
Matches: 72, Mismatches: 10, Indels: 6
0.82 0.11 0.07
Matches are distributed among these distances:
61 50 0.69
62 14 0.19
63 8 0.11
ACGTcount: A:0.25, C:0.16, G:0.26, T:0.33
Consensus pattern (61 bp):
GCGATAGTCAGAATTGCGTTGCGATTATGTAGAATCGCATTGCGATTTACATATTCGCATT
Found at i:95003 original size:41 final size:41
Alignment explanation
Indices: 94946--95037 Score: 148
Period size: 41 Copynumber: 2.2 Consensus size: 41
94936 AGTCAGAATT
*
94946 GCGTTGGGATAGTCAGAATCGCGTTGCGATTACGTATTATC
1 GCGTTGCGATAGTCAGAATCGCGTTGCGATTACGTATTATC
*
94987 GCGTTGCGATAGTCAGAATCGCGTTGCGATTATGTATTATC
1 GCGTTGCGATAGTCAGAATCGCGTTGCGATTACGTATTATC
**
95028 GTATTGCGAT
1 GCGTTGCGAT
95038 TTACATATTC
Statistics
Matches: 47, Mismatches: 4, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
41 47 1.00
ACGTcount: A:0.22, C:0.16, G:0.28, T:0.34
Consensus pattern (41 bp):
GCGTTGCGATAGTCAGAATCGCGTTGCGATTACGTATTATC
Found at i:97726 original size:32 final size:32
Alignment explanation
Indices: 97685--97748 Score: 128
Period size: 32 Copynumber: 2.0 Consensus size: 32
97675 ACAAAAGAAT
97685 ATATTTGGTATTAATTAGGGTTAATTACATGA
1 ATATTTGGTATTAATTAGGGTTAATTACATGA
97717 ATATTTGGTATTAATTAGGGTTAATTACATGA
1 ATATTTGGTATTAATTAGGGTTAATTACATGA
97749 TTGATCATTT
Statistics
Matches: 32, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
32 32 1.00
ACGTcount: A:0.34, C:0.03, G:0.19, T:0.44
Consensus pattern (32 bp):
ATATTTGGTATTAATTAGGGTTAATTACATGA
Found at i:98585 original size:22 final size:23
Alignment explanation
Indices: 98557--98615 Score: 84
Period size: 22 Copynumber: 2.6 Consensus size: 23
98547 CTATTTTATA
*
98557 TATATTAACTTAACAATAT-TTT
1 TATATTAACTTAAAAATATATTT
*
98579 TATATTAAATTAAAAATATATTT
1 TATATTAACTTAAAAATATATTT
98602 TATTATTAACTTAA
1 TA-TATTAACTTAA
98616 TTTAAAATAT
Statistics
Matches: 32, Mismatches: 3, Indels: 2
0.86 0.08 0.05
Matches are distributed among these distances:
22 17 0.53
23 5 0.16
24 10 0.31
ACGTcount: A:0.46, C:0.05, G:0.00, T:0.49
Consensus pattern (23 bp):
TATATTAACTTAAAAATATATTT
Found at i:99002 original size:45 final size:46
Alignment explanation
Indices: 98949--99051 Score: 136
Period size: 46 Copynumber: 2.3 Consensus size: 46
98939 ATTGGATTGT
* *
98949 TAAAAGTAAAATCAAATGACTAATT-ATTTTTAATTATTGTGTTGC
1 TAAAAGTAAAATCAAATGACTAATTCATTTTTAATCATTGAGTTGC
* * *
98994 TAAAAGTAAAATCAAATTATTAATTCCTTTTTAATCATTGAGTTGC
1 TAAAAGTAAAATCAAATGACTAATTCATTTTTAATCATTGAGTTGC
* *
99040 CAAAAATAAAAT
1 TAAAAGTAAAAT
99052 TAACTTATTA
Statistics
Matches: 50, Mismatches: 7, Indels: 1
0.86 0.12 0.02
Matches are distributed among these distances:
45 23 0.46
46 27 0.54
ACGTcount: A:0.44, C:0.09, G:0.09, T:0.39
Consensus pattern (46 bp):
TAAAAGTAAAATCAAATGACTAATTCATTTTTAATCATTGAGTTGC
Found at i:99050 original size:46 final size:45
Alignment explanation
Indices: 98950--99160 Score: 167
Period size: 45 Copynumber: 4.7 Consensus size: 45
98940 TTGGATTGTT
* * * * * *
98950 AAAAGTAAAATCAAATGACTAATTATTTTTAATTATTGTGTTGCT
1 AAAAATAAAATCAAATAATTAATTCTTTTTAATTATTGAGTTGCC
* * *
98995 AAAAGTAAAATCAAATTATTAATTCCTTTTTAATCATTGAGTTGCC
1 AAAAATAAAATCAAATAATTAATT-CTTTTTAATTATTGAGTTGCC
* * * * * *
99041 AAAAATAAAATTAACTTATTAGTT-TATTTTGATTATTGCA-TTTCC
1 AAAAATAAAATCAAATAATTAATTCT-TTTTAATTATTG-AGTTGCC
* * * * * *
99086 AAAAATAAAATTAAAGAATTAGTTCCTTTTAATTATTGGGTTGTC
1 AAAAATAAAATCAAATAATTAATTCTTTTTAATTATTGAGTTGCC
* *
99131 AAAATTAAAATCAAATAATTAGTT-TTTTTA
1 AAAAATAAAATCAAATAATTAATTCTTTTTA
99161 TTACTCAATG
Statistics
Matches: 136, Mismatches: 25, Indels: 11
0.79 0.15 0.06
Matches are distributed among these distances:
44 6 0.04
45 92 0.68
46 38 0.28
ACGTcount: A:0.41, C:0.08, G:0.09, T:0.42
Consensus pattern (45 bp):
AAAAATAAAATCAAATAATTAATTCTTTTTAATTATTGAGTTGCC
Found at i:103311 original size:31 final size:31
Alignment explanation
Indices: 103276--103347 Score: 99
Period size: 31 Copynumber: 2.3 Consensus size: 31
103266 AAAACATAAT
103276 ATATGGTCACTTTTGTTTTTATTTAATTAAG
1 ATATGGTCACTTTTGTTTTTATTTAATTAAG
* * *
103307 ATATGATAACTTTTGTTTTTATTTAGTTAAG
1 ATATGGTCACTTTTGTTTTTATTTAATTAAG
* *
103338 GTGTGGTCAC
1 ATATGGTCAC
103348 CACAAGTTAA
Statistics
Matches: 34, Mismatches: 7, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
31 34 1.00
ACGTcount: A:0.25, C:0.07, G:0.17, T:0.51
Consensus pattern (31 bp):
ATATGGTCACTTTTGTTTTTATTTAATTAAG
Found at i:104062 original size:29 final size:30
Alignment explanation
Indices: 104026--104089 Score: 78
Period size: 29 Copynumber: 2.2 Consensus size: 30
104016 ATAGTATTCT
* *
104026 TAATATTTTTATTTATAAAATT-ATAGAAA
1 TAATATTTTTAATAATAAAATTGATAGAAA
* *
104055 TAATA-TTTTAATAATAATATTGATATAAA
1 TAATATTTTTAATAATAAAATTGATAGAAA
104084 TAATAT
1 TAATAT
104090 AAATAATTAT
Statistics
Matches: 29, Mismatches: 4, Indels: 3
0.81 0.11 0.08
Matches are distributed among these distances:
28 13 0.45
29 16 0.55
ACGTcount: A:0.50, C:0.00, G:0.03, T:0.47
Consensus pattern (30 bp):
TAATATTTTTAATAATAAAATTGATAGAAA
Found at i:106409 original size:12 final size:12
Alignment explanation
Indices: 106392--106434 Score: 61
Period size: 12 Copynumber: 3.7 Consensus size: 12
106382 TATAAATACC
106392 ACACTCAACATA
1 ACACTCAACATA
**
106404 ACACTCAA-ACC
1 ACACTCAACATA
106415 ACACTCAACATA
1 ACACTCAACATA
106427 ACACTCAA
1 ACACTCAA
106435 ACCACACTTA
Statistics
Matches: 26, Mismatches: 4, Indels: 2
0.81 0.12 0.06
Matches are distributed among these distances:
11 9 0.35
12 17 0.65
ACGTcount: A:0.49, C:0.37, G:0.00, T:0.14
Consensus pattern (12 bp):
ACACTCAACATA
Found at i:106415 original size:23 final size:23
Alignment explanation
Indices: 106389--106442 Score: 108
Period size: 23 Copynumber: 2.3 Consensus size: 23
106379 TTCTATAAAT
106389 ACCACACTCAACATAACACTCAA
1 ACCACACTCAACATAACACTCAA
106412 ACCACACTCAACATAACACTCAA
1 ACCACACTCAACATAACACTCAA
106435 ACCACACT
1 ACCACACT
106443 TAAATCTCAA
Statistics
Matches: 31, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
23 31 1.00
ACGTcount: A:0.46, C:0.41, G:0.00, T:0.13
Consensus pattern (23 bp):
ACCACACTCAACATAACACTCAA
Done.