Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: CP032251.1 Gossypioides kirkii chromosome KI_09
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: 38743931
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
Warning! 2800 characters in sequence are not A, C, G, or T
File 140 of 144
Found at i:36703271 original size:256 final size:256
Alignment explanation
Indices: 36702816--36703328 Score: 1017
Period size: 256 Copynumber: 2.0 Consensus size: 256
36702806 CAGAGGAAGC
36702816 ATACCAAAGTTATTATTGAAAGTGACTATCGGATGGCCATAGAAATGTTGAAGGAGAATTTGTTG
1 ATACCAAAGTTATTATTGAAAGTGACTATCGGATGGCCATAGAAATGTTGAAGGAGAATTTGTTG
36702881 GACATTCCCTCTATGACTATTGTTCGAAAGATTAAAATGGTGTGTAGATATTTTCAAGCAGTCAA
66 GACATTCCCTCTATGACTATTGTTCGAAAGATTAAAATGGTGTGTAGATATTTTCAAGCAGTCAA
36702946 GTTCCAATATGTCTCAAGGGAAAGTAATACAGTGGCTGATTGGCTTACTCAAACTTATCCGTCTA
131 GTTCCAATATGTCTCAAGGGAAAGTAATACAGTGGCTGATTGGCTTACTCAAACTTATCCGTCTA
36703011 ATAAGACTAAGCTTGATATCATTGATTTTTCTATGTTTACTGTTAGAAAATTGCTCTTAAG
196 ATAAGACTAAGCTTGATATCATTGATTTTTCTATGTTTACTGTTAGAAAATTGCTCTTAAG
36703072 ATACCAAAGTTATTATTGAAAGTGACTATCGGATGGCCATAGAAATGTTGAAGGAGAATTTGTTG
1 ATACCAAAGTTATTATTGAAAGTGACTATCGGATGGCCATAGAAATGTTGAAGGAGAATTTGTTG
*
36703137 GAGATTCCCTCTATGACTATTGTTCGAAAGATTAAAATGGTGTGTAGATATTTTCAAGCAGTCAA
66 GACATTCCCTCTATGACTATTGTTCGAAAGATTAAAATGGTGTGTAGATATTTTCAAGCAGTCAA
36703202 GTTCCAATATGTCTCAAGGGAAAGTAATACAGTGGCTGATTGGCTTACTCAAACTTATCCGTCTA
131 GTTCCAATATGTCTCAAGGGAAAGTAATACAGTGGCTGATTGGCTTACTCAAACTTATCCGTCTA
36703267 ATAAGACTAAGCTTGATATCATTGATTTTTCTATGTTTACTGTTAGAAAATTGCTCTTAAG
196 ATAAGACTAAGCTTGATATCATTGATTTTTCTATGTTTACTGTTAGAAAATTGCTCTTAAG
36703328 A
1 A
36703329 GATAAAATAT
Statistics
Matches: 256, Mismatches: 1, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
256 256 1.00
ACGTcount: A:0.32, C:0.14, G:0.20, T:0.34
Consensus pattern (256 bp):
ATACCAAAGTTATTATTGAAAGTGACTATCGGATGGCCATAGAAATGTTGAAGGAGAATTTGTTG
GACATTCCCTCTATGACTATTGTTCGAAAGATTAAAATGGTGTGTAGATATTTTCAAGCAGTCAA
GTTCCAATATGTCTCAAGGGAAAGTAATACAGTGGCTGATTGGCTTACTCAAACTTATCCGTCTA
ATAAGACTAAGCTTGATATCATTGATTTTTCTATGTTTACTGTTAGAAAATTGCTCTTAAG
Found at i:36720019 original size:21 final size:21
Alignment explanation
Indices: 36719995--36720059 Score: 76
Period size: 21 Copynumber: 3.0 Consensus size: 21
36719985 GATTATTTAT
36719995 ATTTATTAGTCATATATTAAA
1 ATTTATTAGTCATATATTAAA
* * **
36720016 ATTTATTAGTGGAAATTAAAAAA
1 ATTTATTAGT-CATA-TATTAAA
36720039 ATTTATTAGTCATATATTAAA
1 ATTTATTAGTCATATATTAAA
36720060 TTTTTTATTT
Statistics
Matches: 34, Mismatches: 8, Indels: 4
0.74 0.17 0.09
Matches are distributed among these distances:
21 15 0.44
22 4 0.12
23 15 0.44
ACGTcount: A:0.46, C:0.03, G:0.08, T:0.43
Consensus pattern (21 bp):
ATTTATTAGTCATATATTAAA
Found at i:36729426 original size:6 final size:6
Alignment explanation
Indices: 36729415--36729457 Score: 86
Period size: 6 Copynumber: 7.2 Consensus size: 6
36729405 CGTGGGTGCC
36729415 CCCATT CCCATT CCCATT CCCATT CCCATT CCCATT CCCATT C
1 CCCATT CCCATT CCCATT CCCATT CCCATT CCCATT CCCATT C
36729458 TCATACTCGT
Statistics
Matches: 37, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 37 1.00
ACGTcount: A:0.16, C:0.51, G:0.00, T:0.33
Consensus pattern (6 bp):
CCCATT
Found at i:36729631 original size:15 final size:15
Alignment explanation
Indices: 36729611--36729644 Score: 50
Period size: 15 Copynumber: 2.3 Consensus size: 15
36729601 TTAAAGATTA
36729611 ATTTAAACAAAAAAT
1 ATTTAAACAAAAAAT
**
36729626 ATTTAAAGGAAAAAT
1 ATTTAAACAAAAAAT
36729641 ATTT
1 ATTT
36729645 GTCGAGTTCT
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
15 17 1.00
ACGTcount: A:0.59, C:0.03, G:0.06, T:0.32
Consensus pattern (15 bp):
ATTTAAACAAAAAAT
Found at i:36735024 original size:20 final size:20
Alignment explanation
Indices: 36735001--36735038 Score: 58
Period size: 20 Copynumber: 1.9 Consensus size: 20
36734991 TACGTCATAT
*
36735001 TATTTTAAAATTCTAAAATA
1 TATTATAAAATTCTAAAATA
*
36735021 TATTATAAAATTTTAAAA
1 TATTATAAAATTCTAAAA
36735039 GTCACAATAG
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:0.53, C:0.03, G:0.00, T:0.45
Consensus pattern (20 bp):
TATTATAAAATTCTAAAATA
Found at i:36735055 original size:27 final size:28
Alignment explanation
Indices: 36735002--36735065 Score: 78
Period size: 27 Copynumber: 2.3 Consensus size: 28
36734992 ACGTCATATT
*
36735002 ATTTTAAAATTCTAAAATATATTATAAA
1 ATTTTAAAAGTCTAAAATATATTATAAA
*
36735030 ATTTTAAAAGTC-ACAATAGTA-TATAAA
1 ATTTTAAAAGTCTAAAATA-TATTATAAA
*
36735057 AATTTAAAA
1 ATTTTAAAA
36735066 AGTATTTAAA
Statistics
Matches: 32, Mismatches: 3, Indels: 3
0.84 0.08 0.08
Matches are distributed among these distances:
27 19 0.59
28 13 0.41
ACGTcount: A:0.55, C:0.05, G:0.03, T:0.38
Consensus pattern (28 bp):
ATTTTAAAAGTCTAAAATATATTATAAA
Found at i:36735248 original size:8 final size:9
Alignment explanation
Indices: 36735215--36735261 Score: 53
Period size: 9 Copynumber: 5.4 Consensus size: 9
36735205 TTTCAATTGT
36735215 TTTTATAAA
1 TTTTATAAA
**
36735224 TTTTAT-TT
1 TTTTATAAA
36735232 TTTTATAAA
1 TTTTATAAA
36735241 TTTT-TAAA
1 TTTTATAAA
*
36735249 TTTTATATA
1 TTTTATAAA
36735258 TTTT
1 TTTT
36735262 CTGAATTTTT
Statistics
Matches: 31, Mismatches: 5, Indels: 4
0.77 0.12 0.10
Matches are distributed among these distances:
8 14 0.45
9 17 0.55
ACGTcount: A:0.32, C:0.00, G:0.00, T:0.68
Consensus pattern (9 bp):
TTTTATAAA
Found at i:36735270 original size:25 final size:25
Alignment explanation
Indices: 36735215--36735271 Score: 69
Period size: 26 Copynumber: 2.2 Consensus size: 25
36735205 TTTCAATTGT
*
36735215 TTTTATAAATTTTATTTTTTTATAAA
1 TTTT-TAAATTTTATTATTTTATAAA
* *
36735241 TTTTTAAATTTTATATATTTTCTGAA
1 TTTTTAAATTTTAT-TATTTTATAAA
36735267 TTTTT
1 TTTTT
36735272 TATATATTTA
Statistics
Matches: 27, Mismatches: 3, Indels: 2
0.84 0.09 0.06
Matches are distributed among these distances:
25 10 0.37
26 17 0.63
ACGTcount: A:0.30, C:0.02, G:0.02, T:0.67
Consensus pattern (25 bp):
TTTTTAAATTTTATTATTTTATAAA
Found at i:36735292 original size:21 final size:20
Alignment explanation
Indices: 36735249--36735301 Score: 63
Period size: 20 Copynumber: 2.6 Consensus size: 20
36735239 AATTTTTAAA
*
36735249 TTTTATATATTTTCTGAATT
1 TTTTATATATTTTCTCAATT
* *
36735269 TTTTATATATTTATTTCCATT
1 TTTTATATATTT-TCTCAATT
36735290 TTTTATA-ATTTT
1 TTTTATATATTTT
36735302 AAGTGTATAT
Statistics
Matches: 29, Mismatches: 3, Indels: 3
0.83 0.09 0.09
Matches are distributed among these distances:
19 1 0.03
20 16 0.55
21 12 0.41
ACGTcount: A:0.25, C:0.06, G:0.02, T:0.68
Consensus pattern (20 bp):
TTTTATATATTTTCTCAATT
Found at i:36736179 original size:18 final size:18
Alignment explanation
Indices: 36736158--36736195 Score: 76
Period size: 18 Copynumber: 2.1 Consensus size: 18
36736148 CTCCTTAAAT
36736158 GTAAATTACTTATTTACA
1 GTAAATTACTTATTTACA
36736176 GTAAATTACTTATTTACA
1 GTAAATTACTTATTTACA
36736194 GT
1 GT
36736196 GTGGCAGTGT
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
18 20 1.00
ACGTcount: A:0.37, C:0.11, G:0.08, T:0.45
Consensus pattern (18 bp):
GTAAATTACTTATTTACA
Found at i:36737556 original size:10 final size:10
Alignment explanation
Indices: 36737543--36737577 Score: 61
Period size: 10 Copynumber: 3.5 Consensus size: 10
36737533 GTCTATGATG
36737543 ATATATGTGT
1 ATATATGTGT
36737553 ATATATGTGT
1 ATATATGTGT
*
36737563 ATATATATGT
1 ATATATGTGT
36737573 ATATA
1 ATATA
36737578 GTTGATAATT
Statistics
Matches: 24, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
10 24 1.00
ACGTcount: A:0.37, C:0.00, G:0.14, T:0.49
Consensus pattern (10 bp):
ATATATGTGT
Found at i:36747152 original size:20 final size:23
Alignment explanation
Indices: 36747115--36747155 Score: 61
Period size: 20 Copynumber: 1.9 Consensus size: 23
36747105 TTTTAATAAA
36747115 TATAAGAATTGTAGAAAAAATAT
1 TATAAGAATTGTAGAAAAAATAT
36747138 TATAA-AATT-TA-AAAAAAT
1 TATAAGAATTGTAGAAAAAAT
36747156 TAAATTAAAT
Statistics
Matches: 18, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
20 7 0.39
21 2 0.11
22 4 0.22
23 5 0.28
ACGTcount: A:0.61, C:0.00, G:0.07, T:0.32
Consensus pattern (23 bp):
TATAAGAATTGTAGAAAAAATAT
Found at i:36747274 original size:57 final size:55
Alignment explanation
Indices: 36747160--36747290 Score: 142
Period size: 57 Copynumber: 2.4 Consensus size: 55
36747150 AAAAATTAAA
* * *
36747160 TTAAATATTAAATAAAAATAACTCAATATTTTTAAATAAATAATATAAAAAATAT
1 TTAAATATAAAATAATAATAACTCAAGATTTTTAAATAAATAATATAAAAAATAT
** * *
36747215 TTATTTATCAAAATAATAATAATCTCCAGATTTTTACAAT-AATAATATAAGAGAA-AT
1 TTAAATAT-AAAATAATAATAA-CTCAAGATTTTTA-AATAAATAATATAA-AAAATAT
36747272 TTAAATATAAAA-AATAATA
1 TTAAATATAAAATAATAATA
36747291 TACTTTTATA
Statistics
Matches: 63, Mismatches: 9, Indels: 8
0.79 0.11 0.10
Matches are distributed among these distances:
55 13 0.21
56 15 0.24
57 29 0.46
58 6 0.10
ACGTcount: A:0.56, C:0.05, G:0.02, T:0.36
Consensus pattern (55 bp):
TTAAATATAAAATAATAATAACTCAAGATTTTTAAATAAATAATATAAAAAATAT
Found at i:36747307 original size:10 final size:10
Alignment explanation
Indices: 36747288--36747318 Score: 53
Period size: 10 Copynumber: 3.1 Consensus size: 10
36747278 ATAAAAAATA
*
36747288 ATATACTTTT
1 ATATATTTTT
36747298 ATATATTTTT
1 ATATATTTTT
36747308 ATATATTTTT
1 ATATATTTTT
36747318 A
1 A
36747319 AAGGTTAGCA
Statistics
Matches: 20, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
10 20 1.00
ACGTcount: A:0.32, C:0.03, G:0.00, T:0.65
Consensus pattern (10 bp):
ATATATTTTT
Found at i:36750131 original size:28 final size:28
Alignment explanation
Indices: 36750078--36750135 Score: 73
Period size: 28 Copynumber: 2.1 Consensus size: 28
36750068 CATTTTTCTG
*
36750078 TTGGAATTAATTAAATTTATGATTGAAT
1 TTGGAATTAATTAAATTTATAATTGAAT
**
36750106 TTGGAATTAATTCTATTTA-AATTTGAAT
1 TTGGAATTAATTAAATTTATAA-TTGAAT
36750134 TT
1 TT
36750136 ATTTAATAAT
Statistics
Matches: 26, Mismatches: 3, Indels: 2
0.84 0.10 0.06
Matches are distributed among these distances:
27 1 0.04
28 25 0.96
ACGTcount: A:0.36, C:0.02, G:0.12, T:0.50
Consensus pattern (28 bp):
TTGGAATTAATTAAATTTATAATTGAAT
Found at i:36750176 original size:26 final size:26
Alignment explanation
Indices: 36750127--36750176 Score: 64
Period size: 26 Copynumber: 1.9 Consensus size: 26
36750117 TCTATTTAAA
* **
36750127 TTTGAATTTATTTAATAATTTTTATG
1 TTTGAATTAATTTAATAAGGTTTATG
*
36750153 TTTGAATTAATTTAATTAGGTTTA
1 TTTGAATTAATTTAATAAGGTTTA
36750177 GCAAATGACA
Statistics
Matches: 20, Mismatches: 4, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
26 20 1.00
ACGTcount: A:0.32, C:0.00, G:0.10, T:0.58
Consensus pattern (26 bp):
TTTGAATTAATTTAATAAGGTTTATG
Found at i:36750253 original size:6 final size:6
Alignment explanation
Indices: 36750242--36750282 Score: 57
Period size: 6 Copynumber: 6.8 Consensus size: 6
36750232 ATATTTGCAT
*
36750242 ACATAA ACATAA ATA-AGA ACATAA ACATAA ACATAA ACATA
1 ACATAA ACATAA ACATA-A ACATAA ACATAA ACATAA ACATA
36750283 TTTAATGGCC
Statistics
Matches: 31, Mismatches: 2, Indels: 4
0.84 0.05 0.11
Matches are distributed among these distances:
5 1 0.03
6 29 0.94
7 1 0.03
ACGTcount: A:0.66, C:0.15, G:0.02, T:0.17
Consensus pattern (6 bp):
ACATAA
Found at i:36752609 original size:13 final size:13
Alignment explanation
Indices: 36752593--36752620 Score: 56
Period size: 13 Copynumber: 2.2 Consensus size: 13
36752583 TAATTTTTCG
36752593 TTTTAAAAAATAT
1 TTTTAAAAAATAT
36752606 TTTTAAAAAATAT
1 TTTTAAAAAATAT
36752619 TT
1 TT
36752621 AATATATAAA
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 15 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (13 bp):
TTTTAAAAAATAT
Found at i:36752644 original size:17 final size:16
Alignment explanation
Indices: 36752612--36752643 Score: 57
Period size: 16 Copynumber: 2.1 Consensus size: 16
36752602 ATATTTTTAA
36752612 AAAATATTTAATATAT
1 AAAATATTTAATATAT
36752628 AAAATATTTAA-ATAT
1 AAAATATTTAATATAT
36752643 A
1 A
36752644 TCAATTGAAT
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
15 5 0.31
16 11 0.69
ACGTcount: A:0.59, C:0.00, G:0.00, T:0.41
Consensus pattern (16 bp):
AAAATATTTAATATAT
Found at i:36753655 original size:27 final size:27
Alignment explanation
Indices: 36753625--36753686 Score: 124
Period size: 27 Copynumber: 2.3 Consensus size: 27
36753615 CTGGTAGGTT
36753625 GGCACCACTGGTGCCGCCTACCAGACA
1 GGCACCACTGGTGCCGCCTACCAGACA
36753652 GGCACCACTGGTGCCGCCTACCAGACA
1 GGCACCACTGGTGCCGCCTACCAGACA
36753679 GGCACCAC
1 GGCACCAC
36753687 CCAAAAATAC
Statistics
Matches: 35, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
27 35 1.00
ACGTcount: A:0.23, C:0.42, G:0.26, T:0.10
Consensus pattern (27 bp):
GGCACCACTGGTGCCGCCTACCAGACA
Found at i:36756796 original size:28 final size:26
Alignment explanation
Indices: 36756694--36756796 Score: 86
Period size: 28 Copynumber: 3.8 Consensus size: 26
36756684 ATTATAATAA
*
36756694 AAATGTAATTTTATTATTTTAATAATT
1 AAATGTAATTTTATTTTTTTAA-AATT
*
36756721 -TATGT--TTTTATTTTTTTAAAAGATT
1 AAATGTAATTTTATTTTTTT-AAA-ATT
** *
36756746 AAATCAAATTTTTATTATTTTAAAATT
1 AAATGTAA-TTTTATTTTTTTAAAATT
36756773 CAAATGTAATTTTATTTTTATTAA
1 -AAATGTAATTTTATTTTT-TTAA
36756797 TTTAAAATTT
Statistics
Matches: 59, Mismatches: 9, Indels: 15
0.71 0.11 0.18
Matches are distributed among these distances:
24 12 0.20
25 5 0.08
26 6 0.10
27 12 0.20
28 13 0.22
29 11 0.19
ACGTcount: A:0.38, C:0.02, G:0.04, T:0.56
Consensus pattern (26 bp):
AAATGTAATTTTATTTTTTTAAAATT
Found at i:36764312 original size:16 final size:16
Alignment explanation
Indices: 36764281--36764322 Score: 50
Period size: 16 Copynumber: 2.6 Consensus size: 16
36764271 ATTTATTTAT
36764281 AATTAATATAAAAATAA
1 AATTAA-ATAAAAATAA
*
36764298 TAA-TAAATAATAATAA
1 -AATTAAATAAAAATAA
36764314 AATTAAATA
1 AATTAAATA
36764323 TTATAACGAA
Statistics
Matches: 22, Mismatches: 1, Indels: 4
0.81 0.04 0.15
Matches are distributed among these distances:
15 2 0.09
16 15 0.68
17 3 0.14
18 2 0.09
ACGTcount: A:0.69, C:0.00, G:0.00, T:0.31
Consensus pattern (16 bp):
AATTAAATAAAAATAA
Found at i:36764335 original size:20 final size:20
Alignment explanation
Indices: 36764312--36764353 Score: 59
Period size: 20 Copynumber: 2.1 Consensus size: 20
36764302 AAATAATAAT
*
36764312 AAAATTAAAT-ATTATAACGA
1 AAAATAAAATAATTA-AACGA
36764332 AAAATAAAATAATTAAACGA
1 AAAATAAAATAATTAAACGA
36764352 AA
1 AA
36764354 CACACGAAAA
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
20 16 0.80
21 4 0.20
ACGTcount: A:0.67, C:0.05, G:0.05, T:0.24
Consensus pattern (20 bp):
AAAATAAAATAATTAAACGA
Found at i:36764789 original size:16 final size:15
Alignment explanation
Indices: 36764768--36764806 Score: 55
Period size: 14 Copynumber: 2.7 Consensus size: 15
36764758 TATTAAAATA
36764768 TTAATAAATTTATATT
1 TTAATAAATTTAT-TT
36764784 TTAAT-AATTTATTT
1 TTAATAAATTTATTT
36764798 TTAA-AAATT
1 TTAATAAATT
36764807 ACAAAAATAA
Statistics
Matches: 22, Mismatches: 0, Indels: 4
0.85 0.00 0.15
Matches are distributed among these distances:
14 10 0.45
15 7 0.32
16 5 0.23
ACGTcount: A:0.44, C:0.00, G:0.00, T:0.56
Consensus pattern (15 bp):
TTAATAAATTTATTT
Found at i:36766455 original size:9 final size:9
Alignment explanation
Indices: 36766442--36766482 Score: 50
Period size: 9 Copynumber: 4.8 Consensus size: 9
36766432 TGTCATCACT
*
36766442 TAATTTTTT
1 TAATTTTTA
36766451 TAA-TTTTA
1 TAATTTTTA
*
36766459 TAATTTTAA
1 TAATTTTTA
36766468 TAATTTTTA
1 TAATTTTTA
36766477 -AATTTT
1 TAATTTT
36766483 AAATTTTAAA
Statistics
Matches: 28, Mismatches: 3, Indels: 3
0.82 0.09 0.09
Matches are distributed among these distances:
8 13 0.46
9 15 0.54
ACGTcount: A:0.34, C:0.00, G:0.00, T:0.66
Consensus pattern (9 bp):
TAATTTTTA
Found at i:36773344 original size:18 final size:18
Alignment explanation
Indices: 36773318--36773352 Score: 52
Period size: 18 Copynumber: 1.9 Consensus size: 18
36773308 CTAGTGAAGG
* *
36773318 GGGAGATAATTTATTTAA
1 GGGAAATAATGTATTTAA
36773336 GGGAAATAATGTATTTA
1 GGGAAATAATGTATTTA
36773353 TACGTGAATT
Statistics
Matches: 15, Mismatches: 2, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
18 15 1.00
ACGTcount: A:0.40, C:0.00, G:0.23, T:0.37
Consensus pattern (18 bp):
GGGAAATAATGTATTTAA
Found at i:36775625 original size:32 final size:30
Alignment explanation
Indices: 36775589--36775663 Score: 114
Period size: 32 Copynumber: 2.4 Consensus size: 30
36775579 TTTAATTTTT
36775589 TTTAAAAATTTTAATTAAACTCATTTAAAATA
1 TTTAAAAATTTTAATTAAACTC--TTAAAATA
* *
36775621 TTTAAAAATTTTCATTAAACTCTTAAAATT
1 TTTAAAAATTTTAATTAAACTCTTAAAATA
36775651 TTTAAAAATTTTA
1 TTTAAAAATTTTA
36775664 CTAAACTTCC
Statistics
Matches: 40, Mismatches: 3, Indels: 2
0.89 0.07 0.04
Matches are distributed among these distances:
30 19 0.47
32 21 0.52
ACGTcount: A:0.47, C:0.07, G:0.00, T:0.47
Consensus pattern (30 bp):
TTTAAAAATTTTAATTAAACTCTTAAAATA
Found at i:36775679 original size:30 final size:30
Alignment explanation
Indices: 36775587--36775681 Score: 84
Period size: 30 Copynumber: 3.1 Consensus size: 30
36775577 CTTTTAATTT
* * **
36775587 TTTTTAAAAATTTTAATTAAACTCATTTAAAA
1 TTTTTAAAAATTTTCACTAAACTC--CCAAAA
* * **
36775619 TATTTAAAAATTTTCATTAAACTCTTAAAA
1 TTTTTAAAAATTTTCACTAAACTCCCAAAA
36775649 TTTTTAAAAATTTT-ACTAAACTTCCCAAAA
1 TTTTTAAAAATTTTCACTAAAC-TCCCAAAA
36775679 TTT
1 TTT
36775682 AATTTCAAAA
Statistics
Matches: 56, Mismatches: 6, Indels: 4
0.85 0.09 0.06
Matches are distributed among these distances:
29 6 0.11
30 28 0.50
32 22 0.39
ACGTcount: A:0.44, C:0.11, G:0.00, T:0.45
Consensus pattern (30 bp):
TTTTTAAAAATTTTCACTAAACTCCCAAAA
Found at i:36775978 original size:23 final size:24
Alignment explanation
Indices: 36775936--36775981 Score: 67
Period size: 23 Copynumber: 2.0 Consensus size: 24
36775926 CTGTATAAAT
*
36775936 TATATCATTTTAAAAATAAAAAAA
1 TATATCATTATAAAAATAAAAAAA
*
36775960 TATAT-ATTATAAAATTAAAAAA
1 TATATCATTATAAAAATAAAAAA
36775982 TAAATCAATT
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
23 15 0.75
24 5 0.25
ACGTcount: A:0.63, C:0.02, G:0.00, T:0.35
Consensus pattern (24 bp):
TATATCATTATAAAAATAAAAAAA
Found at i:36781567 original size:21 final size:21
Alignment explanation
Indices: 36781536--36781595 Score: 59
Period size: 21 Copynumber: 2.9 Consensus size: 21
36781526 TATAACTTTG
*
36781536 AAATAGTTTAAAAATATAATTA
1 AAATA-TTTAAAAATATAAGTA
* *
36781558 AAATATTTAAAAGTTTAAGTA
1 AAATATTTAAAAATATAAGTA
* *
36781579 ACA-ATTTAAAATTATAA
1 AAATATTTAAAAATATAA
36781596 AAGTGGAAAG
Statistics
Matches: 32, Mismatches: 6, Indels: 2
0.80 0.15 0.05
Matches are distributed among these distances:
20 12 0.38
21 15 0.47
22 5 0.16
ACGTcount: A:0.57, C:0.02, G:0.05, T:0.37
Consensus pattern (21 bp):
AAATATTTAAAAATATAAGTA
Found at i:36787271 original size:17 final size:17
Alignment explanation
Indices: 36787230--36787272 Score: 52
Period size: 17 Copynumber: 2.6 Consensus size: 17
36787220 TTACACATTC
*
36787230 TTGTAATTA-CAATAAA
1 TTGTAATTATCAAGAAA
* *
36787246 TTTTAATTATCAAGACA
1 TTGTAATTATCAAGAAA
36787263 TTGTAATTAT
1 TTGTAATTAT
36787273 ACCGTAACTC
Statistics
Matches: 22, Mismatches: 4, Indels: 1
0.81 0.15 0.04
Matches are distributed among these distances:
16 8 0.36
17 14 0.64
ACGTcount: A:0.42, C:0.07, G:0.07, T:0.44
Consensus pattern (17 bp):
TTGTAATTATCAAGAAA
Found at i:36789101 original size:18 final size:20
Alignment explanation
Indices: 36789063--36789103 Score: 59
Period size: 18 Copynumber: 2.1 Consensus size: 20
36789053 TCTAATTATT
*
36789063 ATTTTTTCAATATATATTTA
1 ATTTTTTCAATATATAATTA
36789083 ATTTTTT-AATA-ATAATTA
1 ATTTTTTCAATATATAATTA
36789101 ATT
1 ATT
36789104 ATCCACATTT
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
18 9 0.45
19 4 0.20
20 7 0.35
ACGTcount: A:0.39, C:0.02, G:0.00, T:0.59
Consensus pattern (20 bp):
ATTTTTTCAATATATAATTA
Found at i:36792392 original size:58 final size:57
Alignment explanation
Indices: 36792312--36792481 Score: 166
Period size: 58 Copynumber: 2.9 Consensus size: 57
36792302 AAGCTGTCGG
* *
36792312 TCATGGCTTCGCAGACACCCAAAAAATATTTTTTTTAATCTGAAAAAAGGGGTGTCAA
1 TCATGGCTT-GCAAACAACCAAAAAATATTTTTTTTAATCTGAAAAAAGGGGTGTCAA
* * * * * ***
36792370 TCATGGCTTGACAAACAACCAAAAAAAAATATTTTTATATCTG-AAAAAGGGATATTGG
1 TCATGGCTTG-CAAACAACCAAAAAATATTTTTTTTA-ATCTGAAAAAAGGGGTGTCAA
* *
36792428 TCATGGCTTGGCAAA-AACCCAAAAAATATTTTTTTT-ATCTGATAAAGGGGGTGT
1 TCATGGCTT-GCAAACAA-CCAAAAAATATTTTTTTTAATCTGAAAAAAGGGGTGT
36792482 ATGGCTTGGC
Statistics
Matches: 90, Mismatches: 17, Indels: 11
0.76 0.14 0.09
Matches are distributed among these distances:
56 5 0.06
57 11 0.12
58 68 0.76
59 6 0.07
ACGTcount: A:0.38, C:0.14, G:0.18, T:0.30
Consensus pattern (57 bp):
TCATGGCTTGCAAACAACCAAAAAATATTTTTTTTAATCTGAAAAAAGGGGTGTCAA
Found at i:36793790 original size:20 final size:20
Alignment explanation
Indices: 36793759--36793798 Score: 64
Period size: 20 Copynumber: 2.0 Consensus size: 20
36793749 ATTATGAAAA
36793759 TAATAAATAATTAA-AATTT
1 TAATAAATAATTAATAATTT
36793778 TAATAATATAATTAATAATTT
1 TAATAA-ATAATTAATAATTT
36793799 ATTTTTGATT
Statistics
Matches: 19, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
19 6 0.32
20 8 0.42
21 5 0.26
ACGTcount: A:0.55, C:0.00, G:0.00, T:0.45
Consensus pattern (20 bp):
TAATAAATAATTAATAATTT
Found at i:36799509 original size:29 final size:31
Alignment explanation
Indices: 36799465--36799550 Score: 88
Period size: 29 Copynumber: 2.8 Consensus size: 31
36799455 ATTACATAAT
**
36799465 TTTTTATTTTGGTCACTCAT-GTT-TAAAAA
1 TTTTTATTTTAATCACTCATCGTTATAAAAA
**
36799494 TTTTTATTTTAATCACT-ATCGTTATCGAAA
1 TTTTTATTTTAATCACTCATCGTTATAAAAA
*
36799524 TTTAATATTTTAATCACTCATCCGTTA
1 TTT-TTATTTTAATCACTCAT-CGTTA
36799551 AATTACTGAC
Statistics
Matches: 47, Mismatches: 5, Indels: 6
0.81 0.09 0.10
Matches are distributed among these distances:
28 2 0.04
29 18 0.38
30 7 0.15
31 13 0.28
32 2 0.04
33 5 0.11
ACGTcount: A:0.29, C:0.14, G:0.07, T:0.50
Consensus pattern (31 bp):
TTTTTATTTTAATCACTCATCGTTATAAAAA
Found at i:36803088 original size:18 final size:19
Alignment explanation
Indices: 36803065--36803107 Score: 54
Period size: 18 Copynumber: 2.4 Consensus size: 19
36803055 CACATATTTG
*
36803065 AATATTATATATTTG-TAT
1 AATATTATATATTTGAAAT
*
36803083 AATATT-TTTATTTGAAAT
1 AATATTATATATTTGAAAT
36803101 AATATTA
1 AATATTA
36803108 ATCATTGAAT
Statistics
Matches: 21, Mismatches: 2, Indels: 3
0.81 0.08 0.12
Matches are distributed among these distances:
17 7 0.33
18 14 0.67
ACGTcount: A:0.42, C:0.00, G:0.05, T:0.53
Consensus pattern (19 bp):
AATATTATATATTTGAAAT
Found at i:36804499 original size:25 final size:24
Alignment explanation
Indices: 36804465--36804529 Score: 69
Period size: 25 Copynumber: 2.6 Consensus size: 24
36804455 AGATGGAATT
* *
36804465 AAAAATTCAATAATAATAATATATA
1 AAAAAATCAATAATAAT-ATATAAA
36804490 AAAAAATCAATACA-AATATATAAA
1 AAAAAATCAATA-ATAATATATAAA
36804514 AAACAAACTCAATAAT
1 AAA-AAA-TCAATAAT
36804530 TAATCCTAAT
Statistics
Matches: 34, Mismatches: 2, Indels: 7
0.79 0.05 0.16
Matches are distributed among these distances:
24 9 0.26
25 18 0.53
26 7 0.21
ACGTcount: A:0.66, C:0.09, G:0.00, T:0.25
Consensus pattern (24 bp):
AAAAAATCAATAATAATATATAAA
Found at i:36814124 original size:6 final size:6
Alignment explanation
Indices: 36814115--36814142 Score: 56
Period size: 6 Copynumber: 4.7 Consensus size: 6
36814105 TATTGTTTTC
36814115 CTGAAA CTGAAA CTGAAA CTGAAA CTGA
1 CTGAAA CTGAAA CTGAAA CTGAAA CTGA
36814143 TGAAAATGAA
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 22 1.00
ACGTcount: A:0.46, C:0.18, G:0.18, T:0.18
Consensus pattern (6 bp):
CTGAAA
Found at i:36814528 original size:31 final size:31
Alignment explanation
Indices: 36814484--36814552 Score: 79
Period size: 31 Copynumber: 2.2 Consensus size: 31
36814474 TCCTTGTAGA
* * *
36814484 TTAATTTGATTAA-TTTAAGTTTTTGTA-TTT
1 TTAAATTGGTTAATTTTAA-TTCTTGTACTTT
36814514 TTCAAATTGGTTAATTTTAATTCTTGTACTTT
1 TT-AAATTGGTTAATTTTAATTCTTGTACTTT
36814546 TTAAATT
1 TTAAATT
36814553 TTGAAATTTT
Statistics
Matches: 33, Mismatches: 3, Indels: 5
0.80 0.07 0.12
Matches are distributed among these distances:
30 2 0.06
31 21 0.64
32 10 0.30
ACGTcount: A:0.28, C:0.04, G:0.09, T:0.59
Consensus pattern (31 bp):
TTAAATTGGTTAATTTTAATTCTTGTACTTT
Found at i:36814902 original size:15 final size:16
Alignment explanation
Indices: 36814864--36814905 Score: 52
Period size: 17 Copynumber: 2.6 Consensus size: 16
36814854 CTGAAATTTT
36814864 AAAATTAAAAAAATAC
1 AAAATTAAAAAAATAC
36814880 AAATATTAAAAATAAT-C
1 AAA-ATTAAAAA-AATAC
36814897 -AAATTAAAA
1 AAAATTAAAA
36814906 TCAATGATTT
Statistics
Matches: 24, Mismatches: 0, Indels: 5
0.83 0.00 0.17
Matches are distributed among these distances:
15 7 0.29
16 5 0.21
17 9 0.38
18 3 0.12
ACGTcount: A:0.71, C:0.05, G:0.00, T:0.24
Consensus pattern (16 bp):
AAAATTAAAAAAATAC
Found at i:36826037 original size:31 final size:31
Alignment explanation
Indices: 36826002--36826067 Score: 82
Period size: 31 Copynumber: 2.1 Consensus size: 31
36825992 GTTATATACC
*
36826002 ATTTGGTACCTATA-TTTGG-TTTCAATGTTCA
1 ATTTGGTACCTA-AGTTTGGCTTT-AATATTCA
*
36826033 ATTTGGTATCTAAGTTTGGCTTTAATATTCA
1 ATTTGGTACCTAAGTTTGGCTTTAATATTCA
36826064 ATTT
1 ATTT
36826068 AGAATCCAAA
Statistics
Matches: 31, Mismatches: 2, Indels: 4
0.84 0.05 0.11
Matches are distributed among these distances:
30 1 0.03
31 27 0.87
32 3 0.10
ACGTcount: A:0.24, C:0.11, G:0.15, T:0.50
Consensus pattern (31 bp):
ATTTGGTACCTAAGTTTGGCTTTAATATTCA
Found at i:36827253 original size:25 final size:25
Alignment explanation
Indices: 36827219--36827272 Score: 90
Period size: 25 Copynumber: 2.2 Consensus size: 25
36827209 TTCCTTCAAA
* *
36827219 GATAATTATGCTAACTAAAGAATTT
1 GATAATTATGCTAACAAAAGAAATT
36827244 GATAATTATGCTAACAAAAGAAATT
1 GATAATTATGCTAACAAAAGAAATT
36827269 GATA
1 GATA
36827273 GATAAGATAT
Statistics
Matches: 27, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
25 27 1.00
ACGTcount: A:0.48, C:0.07, G:0.13, T:0.31
Consensus pattern (25 bp):
GATAATTATGCTAACAAAAGAAATT
Found at i:36827979 original size:19 final size:18
Alignment explanation
Indices: 36827939--36827981 Score: 50
Period size: 19 Copynumber: 2.3 Consensus size: 18
36827929 TTCCTCTCTC
* **
36827939 TTACAATTAAATCAATGG
1 TTACAATTAAAACAATAA
36827957 TTACAATTAGAAACAATAA
1 TTACAATTA-AAACAATAA
36827976 TTACAA
1 TTACAA
36827982 GTATTAAATT
Statistics
Matches: 21, Mismatches: 3, Indels: 1
0.84 0.12 0.04
Matches are distributed among these distances:
18 9 0.43
19 12 0.57
ACGTcount: A:0.51, C:0.12, G:0.07, T:0.30
Consensus pattern (18 bp):
TTACAATTAAAACAATAA
Found at i:36836673 original size:33 final size:33
Alignment explanation
Indices: 36836631--36836697 Score: 134
Period size: 33 Copynumber: 2.0 Consensus size: 33
36836621 TTTATGTTAC
36836631 TATATTCGGAATTGGATTGGATCAGATCTCGTT
1 TATATTCGGAATTGGATTGGATCAGATCTCGTT
36836664 TATATTCGGAATTGGATTGGATCAGATCTCGTT
1 TATATTCGGAATTGGATTGGATCAGATCTCGTT
36836697 T
1 T
36836698 TTAAGAATCC
Statistics
Matches: 34, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
33 34 1.00
ACGTcount: A:0.24, C:0.12, G:0.24, T:0.40
Consensus pattern (33 bp):
TATATTCGGAATTGGATTGGATCAGATCTCGTT
Found at i:36848144 original size:4 final size:4
Alignment explanation
Indices: 36848135--36848172 Score: 76
Period size: 4 Copynumber: 9.5 Consensus size: 4
36848125 CCCTTCTTCT
36848135 TCAC TCAC TCAC TCAC TCAC TCAC TCAC TCAC TCAC TC
1 TCAC TCAC TCAC TCAC TCAC TCAC TCAC TCAC TCAC TC
36848173 TTTGCTGCCA
Statistics
Matches: 34, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
4 34 1.00
ACGTcount: A:0.24, C:0.50, G:0.00, T:0.26
Consensus pattern (4 bp):
TCAC
Found at i:36848493 original size:18 final size:17
Alignment explanation
Indices: 36848453--36848501 Score: 55
Period size: 18 Copynumber: 2.9 Consensus size: 17
36848443 GGAGATGGAG
*
36848453 AATAAAAAAA-AAAATT
1 AATAAAAAAATTAAATT
*
36848469 AACAAAAAAATTAAATT
1 AATAAAAAAATTAAATT
*
36848486 AATTAAAAAACTTAAA
1 AA-TAAAAAAATTAAA
36848502 CAGAATAACT
Statistics
Matches: 27, Mismatches: 4, Indels: 2
0.82 0.12 0.06
Matches are distributed among these distances:
16 9 0.33
17 7 0.26
18 11 0.41
ACGTcount: A:0.73, C:0.04, G:0.00, T:0.22
Consensus pattern (17 bp):
AATAAAAAAATTAAATT
Found at i:36848844 original size:13 final size:13
Alignment explanation
Indices: 36848826--36848850 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
36848816 TATTCGAAAG
36848826 TTTTTTAAGTCTT
1 TTTTTTAAGTCTT
36848839 TTTTTTAAGTCT
1 TTTTTTAAGTCT
36848851 GACGATAAGT
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:0.16, C:0.08, G:0.08, T:0.68
Consensus pattern (13 bp):
TTTTTTAAGTCTT
Found at i:36849288 original size:30 final size:30
Alignment explanation
Indices: 36849235--36849301 Score: 75
Period size: 30 Copynumber: 2.3 Consensus size: 30
36849225 TCACAAATTT
* *
36849235 AGAATTTAATCTTTTTATTTTTAT-TTTCA
1 AGAATTTAATCCTTTGATTTTTATATTTCA
* *
36849264 AGAATTTAATCACTTTGCTTTTTATATTTGA
1 AGAATTTAATC-CTTTGATTTTTATATTTCA
36849295 A-AATTTA
1 AGAATTTA
36849302 GATTCAATGG
Statistics
Matches: 32, Mismatches: 4, Indels: 3
0.82 0.10 0.08
Matches are distributed among these distances:
29 11 0.34
30 16 0.50
31 5 0.16
ACGTcount: A:0.31, C:0.07, G:0.06, T:0.55
Consensus pattern (30 bp):
AGAATTTAATCCTTTGATTTTTATATTTCA
Found at i:36853311 original size:11 final size:11
Alignment explanation
Indices: 36853295--36853329 Score: 54
Period size: 11 Copynumber: 3.3 Consensus size: 11
36853285 TATTTTTCTA
36853295 TATAATAATGT
1 TATAATAATGT
36853306 TATAAT-ATGT
1 TATAATAATGT
*
36853316 TATATTAATGT
1 TATAATAATGT
36853327 TAT
1 TAT
36853330 TTAATTTTTA
Statistics
Matches: 22, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
10 9 0.41
11 13 0.59
ACGTcount: A:0.40, C:0.00, G:0.09, T:0.51
Consensus pattern (11 bp):
TATAATAATGT
Found at i:36853357 original size:15 final size:16
Alignment explanation
Indices: 36853327--36853359 Score: 50
Period size: 15 Copynumber: 2.1 Consensus size: 16
36853317 ATATTAATGT
*
36853327 TATTTAATTTTTAAAA
1 TATTTAATTATTAAAA
36853343 TATTTAA-TATTAAAA
1 TATTTAATTATTAAAA
36853358 TA
1 TA
36853360 ATACAAATTT
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
15 9 0.56
16 7 0.44
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (16 bp):
TATTTAATTATTAAAA
Found at i:36856391 original size:6 final size:6
Alignment explanation
Indices: 36856380--36856511 Score: 156
Period size: 6 Copynumber: 21.8 Consensus size: 6
36856370 GGTTCGGTGA
36856380 GGGAGG GGGAGG GGGAGG GGGAGG GGGAGG GGGAGG GGGAGG GGGAGG
1 GGGAGG GGGAGG GGGAGG GGGAGG GGGAGG GGGAGG GGGAGG GGGAGG
* * * *
36856428 GGGAGG GGGAGG GGGAGG GGGAGA GGGAGA GGGAGA GGGAGA GGGAGAG
1 GGGAGG GGGAGG GGGAGG GGGAGG GGGAGG GGGAGG GGGAGG GGGAG-G
* * * * * * *
36856477 TGGTGA GGGTGG GGGTGG GGGTGG GGGTGG GGGAG
1 GGGAGG GGGAGG GGGAGG GGGAGG GGGAGG GGGAG
36856512 AGGAGGGTTT
Statistics
Matches: 117, Mismatches: 8, Indels: 2
0.92 0.06 0.02
Matches are distributed among these distances:
6 114 0.97
7 3 0.03
ACGTcount: A:0.17, C:0.00, G:0.78, T:0.05
Consensus pattern (6 bp):
GGGAGG
Found at i:36858235 original size:29 final size:30
Alignment explanation
Indices: 36858196--36858273 Score: 90
Period size: 31 Copynumber: 2.6 Consensus size: 30
36858186 ACTACAATTT
*
36858196 AAATTTCATATATATAATTAC--ACTAAA-TCA
1 AAATTT-ATATATA-AATTACATAATAAACT-A
36858226 AAATTTATATATCAAATTACATAATAAACTA
1 AAATTTATATAT-AAATTACATAATAAACTA
36858257 AAATTTATATATAAATT
1 AAATTTATATATAAATT
36858274 TAATATTTAT
Statistics
Matches: 43, Mismatches: 1, Indels: 8
0.83 0.02 0.15
Matches are distributed among these distances:
29 12 0.28
30 12 0.28
31 18 0.42
32 1 0.02
ACGTcount: A:0.53, C:0.09, G:0.00, T:0.38
Consensus pattern (30 bp):
AAATTTATATATAAATTACATAATAAACTA
Found at i:36874734 original size:16 final size:16
Alignment explanation
Indices: 36874694--36874736 Score: 52
Period size: 15 Copynumber: 2.7 Consensus size: 16
36874684 AGTTTAAGGA
36874694 TTTTATATATATTAATT
1 TTTTATAT-TATTAATT
* *
36874711 TTTT-TATTTTTTATT
1 TTTTATATTATTAATT
36874726 TTTTATATTAT
1 TTTTATATTAT
36874737 GCATGTTCAT
Statistics
Matches: 22, Mismatches: 3, Indels: 3
0.79 0.11 0.11
Matches are distributed among these distances:
15 10 0.45
16 8 0.36
17 4 0.18
ACGTcount: A:0.26, C:0.00, G:0.00, T:0.74
Consensus pattern (16 bp):
TTTTATATTATTAATT
Found at i:36878189 original size:32 final size:32
Alignment explanation
Indices: 36878153--36878214 Score: 106
Period size: 32 Copynumber: 1.9 Consensus size: 32
36878143 CACTTTGACT
*
36878153 ATAATTAAATTAGTATTTGTTAAAGTATAAGA
1 ATAATTAAATTAATATTTGTTAAAGTATAAGA
*
36878185 ATAATTAAATTAATATTTTTTAAAGTATAA
1 ATAATTAAATTAATATTTGTTAAAGTATAA
36878215 TAACTTACCC
Statistics
Matches: 28, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
32 28 1.00
ACGTcount: A:0.48, C:0.00, G:0.08, T:0.44
Consensus pattern (32 bp):
ATAATTAAATTAATATTTGTTAAAGTATAAGA
Found at i:36878484 original size:16 final size:18
Alignment explanation
Indices: 36878449--36878508 Score: 61
Period size: 18 Copynumber: 3.4 Consensus size: 18
36878439 AAAAAGCATT
* *
36878449 AAAATTATTAAAAATATAA
1 AAAATTA-TAAAATTTTAA
*
36878468 AAAATTAT-ATA-TTTAA
1 AAAATTATAAAATTTTAA
*
36878484 AAAATTTTAAAATTTTAA
1 AAAATTATAAAATTTTAA
36878502 AAAATTA
1 AAAATTA
36878509 ATTAAACATT
Statistics
Matches: 34, Mismatches: 5, Indels: 5
0.77 0.11 0.11
Matches are distributed among these distances:
16 11 0.32
17 4 0.12
18 12 0.35
19 7 0.21
ACGTcount: A:0.62, C:0.00, G:0.00, T:0.38
Consensus pattern (18 bp):
AAAATTATAAAATTTTAA
Found at i:36878500 original size:18 final size:17
Alignment explanation
Indices: 36878449--36878507 Score: 57
Period size: 16 Copynumber: 3.4 Consensus size: 17
36878439 AAAAAGCATT
*
36878449 AAAATTATTAAAAATATAA
1 AAAATT-TT-AAAATTTAA
* *
36878468 AAAATTAT-ATATTTAA
1 AAAATTTTAAAATTTAA
36878484 AAAATTTTAAAATTTTAA
1 AAAATTTTAAAA-TTTAA
36878502 AAAATT
1 AAAATT
36878508 AATTAAACAT
Statistics
Matches: 33, Mismatches: 5, Indels: 5
0.77 0.12 0.12
Matches are distributed among these distances:
16 13 0.39
17 2 0.06
18 12 0.36
19 6 0.18
ACGTcount: A:0.61, C:0.00, G:0.00, T:0.39
Consensus pattern (17 bp):
AAAATTTTAAAATTTAA
Found at i:36884388 original size:17 final size:17
Alignment explanation
Indices: 36884348--36884389 Score: 59
Period size: 17 Copynumber: 2.5 Consensus size: 17
36884338 CGATGGGATA
36884348 TAAATTTAGTTTTAAAT
1 TAAATTTAGTTTTAAAT
*
36884365 TAGATTTA-TTTTAAATT
1 TAAATTTAGTTTTAAA-T
36884382 TAAATTTA
1 TAAATTTA
36884390 AATTAGATAT
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
16 7 0.32
17 15 0.68
ACGTcount: A:0.40, C:0.00, G:0.05, T:0.55
Consensus pattern (17 bp):
TAAATTTAGTTTTAAAT
Found at i:36885711 original size:12 final size:12
Alignment explanation
Indices: 36885694--36885718 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
36885684 TCATGGGTGG
36885694 TTGAGAGAGAGC
1 TTGAGAGAGAGC
36885706 TTGAGAGAGAGC
1 TTGAGAGAGAGC
36885718 T
1 T
36885719 CAAAGAATTT
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 13 1.00
ACGTcount: A:0.32, C:0.08, G:0.40, T:0.20
Consensus pattern (12 bp):
TTGAGAGAGAGC
Found at i:36886335 original size:30 final size:30
Alignment explanation
Indices: 36886301--36886582 Score: 181
Period size: 29 Copynumber: 9.7 Consensus size: 30
36886291 GACCTTCAAA
*
36886301 TTTCCAAAAATTATCATTTTACCCCCGAAC
1 TTTCCAAAAATTACCATTTTACCCCCGAAC
* * *
36886331 TTTCC-AAAA-TCCCATTTTAACCCCG--G
1 TTTCCAAAAATTACCATTTTACCCCCGAAC
36886357 TTTCACCAAAAATTACCATTTTACCCCCGAAC
1 TTT--CCAAAAATTACCATTTTACCCCCGAAC
*
36886389 TTTCC-AAAA-T-CCTATTTTTAACCCCG-A-
1 TTTCCAAAAATTACC-A-TTTTACCCCCGAAC
*
36886416 TTTCACCAAACATTACCATTTTACCCCCGAAC
1 TTT--CCAAAAATTACCATTTTACCCCCGAAC
* *
36886448 TTTCC-AAAA-TCCCATTTTTAACCCCG-A-
1 TTTCCAAAAATTACCA-TTTTACCCCCGAAC
* *
36886475 TTTCACCAAACATTACCATTTTACCCTCGAAC
1 TTT--CCAAAAATTACCATTTTACCCCCGAAC
* *
36886507 TTTCC-AAAA-TCCCATTTTTAACCCCG-A-
1 TTTCCAAAAATTACCA-TTTTACCCCCGAAC
* **
36886534 TTTCACCAAAAATTACTA-TTTACCCCTAAAC
1 TTT--CCAAAAATTACCATTTTACCCCCGAAC
36886565 TTTCC-AAAATT-CCATTTT
1 TTTCCAAAAATTACCATTTT
36886583 TGACCCTAAT
Statistics
Matches: 195, Mismatches: 27, Indels: 62
0.69 0.10 0.22
Matches are distributed among these distances:
26 3 0.02
27 13 0.07
28 37 0.19
29 62 0.32
30 55 0.28
31 14 0.07
32 11 0.06
ACGTcount: A:0.32, C:0.32, G:0.03, T:0.33
Consensus pattern (30 bp):
TTTCCAAAAATTACCATTTTACCCCCGAAC
Found at i:36886437 original size:59 final size:59
Alignment explanation
Indices: 36886304--36886618 Score: 483
Period size: 59 Copynumber: 5.4 Consensus size: 59
36886294 CTTCAAATTT
* *
36886304 CCAAAAATTATCATTTTACCCCCGAACTTTCCAAAATCCCA-TTTTAACCCCGGTTTCA
1 CCAAAAATTACCATTTTACCCCCGAACTTTCCAAAATCCCATTTTTAACCCCGATTTCA
*
36886362 CCAAAAATTACCATTTTACCCCCGAACTTTCCAAAATCCTATTTTTAACCCCGATTTCA
1 CCAAAAATTACCATTTTACCCCCGAACTTTCCAAAATCCCATTTTTAACCCCGATTTCA
*
36886421 CCAAACATTACCATTTTACCCCCGAACTTTCCAAAATCCCATTTTTAACCCCGATTTCA
1 CCAAAAATTACCATTTTACCCCCGAACTTTCCAAAATCCCATTTTTAACCCCGATTTCA
* *
36886480 CCAAACATTACCATTTTACCCTCGAACTTTCCAAAATCCCATTTTTAACCCCGATTTCA
1 CCAAAAATTACCATTTTACCCCCGAACTTTCCAAAATCCCATTTTTAACCCCGATTTCA
* ** * * **
36886539 CCAAAAATTACTA-TTTACCCCTAAACTTTCCAAAATTCCATTTTTGACCCTAATTTCA
1 CCAAAAATTACCATTTTACCCCCGAACTTTCCAAAATCCCATTTTTAACCCCGATTTCA
36886597 CCAAAAATTA-CATTTTTACCCC
1 CCAAAAATTACCA-TTTTACCCC
36886619 AAAAAGTCAA
Statistics
Matches: 238, Mismatches: 16, Indels: 5
0.92 0.06 0.02
Matches are distributed among these distances:
57 1 0.00
58 87 0.37
59 150 0.63
ACGTcount: A:0.32, C:0.32, G:0.03, T:0.32
Consensus pattern (59 bp):
CCAAAAATTACCATTTTACCCCCGAACTTTCCAAAATCCCATTTTTAACCCCGATTTCA
Found at i:36886566 original size:117 final size:118
Alignment explanation
Indices: 36886304--36886618 Score: 476
Period size: 117 Copynumber: 2.7 Consensus size: 118
36886294 CTTCAAATTT
*
36886304 CCAAAAATTA-TCATTTTACCCCCGAACTTTCCAAAATCCCA-TTTTAACCCCGGTTTCACCAAA
1 CCAAAAATTACT-ATTTTACCCCCGAACTTTCCAAAATCCCATTTTTAACCCCGATTTCACCAAA
*
36886367 AATTACCATTTTACCCCCGAACTTTCCAAAATCCTATTTTTAACCCCGATTTCA
65 AATTACCATTTTACCCCCGAACTTTCCAAAATCCCATTTTTAACCCCGATTTCA
* * *
36886421 CCAAACATTACCATTTTACCCCCGAACTTTCCAAAATCCCATTTTTAACCCCGATTTCACCAAAC
1 CCAAAAATTACTATTTTACCCCCGAACTTTCCAAAATCCCATTTTTAACCCCGATTTCACCAAAA
*
36886486 ATTACCATTTTACCCTCGAACTTTCCAAAATCCCATTTTTAACCCCGATTTCA
66 ATTACCATTTTACCCCCGAACTTTCCAAAATCCCATTTTTAACCCCGATTTCA
** * * **
36886539 CCAAAAATTACTA-TTTACCCCTAAACTTTCCAAAATTCCATTTTTGACCCTAATTTCACCAAAA
1 CCAAAAATTACTATTTTACCCCCGAACTTTCCAAAATCCCATTTTTAACCCCGATTTCACCAAAA
36886603 ATTA-CATTTTTACCCC
66 ATTACCA-TTTTACCCC
36886619 AAAAAGTCAA
Statistics
Matches: 179, Mismatches: 16, Indels: 6
0.89 0.08 0.03
Matches are distributed among these distances:
116 2 0.01
117 94 0.53
118 83 0.46
ACGTcount: A:0.32, C:0.32, G:0.03, T:0.32
Consensus pattern (118 bp):
CCAAAAATTACTATTTTACCCCCGAACTTTCCAAAATCCCATTTTTAACCCCGATTTCACCAAAA
ATTACCATTTTACCCCCGAACTTTCCAAAATCCCATTTTTAACCCCGATTTCA
Found at i:36886600 original size:29 final size:28
Alignment explanation
Indices: 36886392--36886617 Score: 94
Period size: 29 Copynumber: 7.7 Consensus size: 28
36886382 CCCGAACTTT
**
36886392 CCAAAA-TCCTATTTTTAACCCCGATTTCA
1 CCAAAATTCC-ATTTTT-ACCCTAATTTCA
*
36886421 CCAAACATTACCA-TTTTACCCCCGAACTTT--
1 CCAAA-ATT-CCATTTTTA--CCCTAA-TTTCA
* **
36886451 CCAAAATCCCATTTTTAACCCCGATTTCA
1 CCAAAATTCCATTTTT-ACCCTAATTTCA
36886480 CCAAACATTACCA-TTTTACCCTCGAACTTT--
1 CCAAA-ATT-CCATTTTTACCCT--AA-TTTCA
* **
36886510 CCAAAATCCCATTTTTAACCCCGATTTCA
1 CCAAAATTCCATTTTT-ACCCTAATTTCA
* *
36886539 CCAAAAATTAC-TATTTACCCCTAAACTTT--
1 CC-AAAATTCCATTTTTA-CCCT-AA-TTTCA
36886568 CCAAAATTCCATTTTTGACCCTAATTTCA
1 CCAAAATTCCATTTTT-ACCCTAATTTCA
*
36886597 CCAAAAATTACATTTTTACCC
1 CC-AAAATTCCATTTTTACCC
36886618 CAAAAAGTCA
Statistics
Matches: 150, Mismatches: 19, Indels: 56
0.67 0.08 0.25
Matches are distributed among these distances:
27 9 0.06
28 21 0.14
29 52 0.35
30 47 0.31
31 13 0.09
32 8 0.05
ACGTcount: A:0.32, C:0.32, G:0.03, T:0.33
Consensus pattern (28 bp):
CCAAAATTCCATTTTTACCCTAATTTCA
Found at i:36887413 original size:153 final size:151
Alignment explanation
Indices: 36887135--36887464 Score: 450
Period size: 153 Copynumber: 2.2 Consensus size: 151
36887125 TTCTCAAAAC
* *
36887135 ATATATCTATATTACAAATAGTTTTAAAGCGAGGCAATGTCCTGTCGTGTGAAAACTTAGAAAAA
1 ATATATCTATA-TACAAATAATTTTAAAACGAGGCAATGTCCTGTCGTGTGAAAACTTAGAAAAA
* * *
36887200 TCGCGCCTTAACTTGTTAAGTGTGATTTTCGTAATTCATGCGAATCGAATATCCTCTTCAAAAGT
65 TCGCGACTTAACGTGTTAAGTGTGATTTTCGTAATTCATGCAAATCGAATATCCTCTTCAAAAGT
* *
36887265 TTCCGAAACA-TCCTTCAATTTTT
130 TTCCAAAACACT-CTTCAA-TCTT
* * * *
36887288 ATATATCTATATCACAAATAATTTTAAAACGAGGCAATGTTCTTTCGTGTGAAAACTTCGAAGAA
1 ATATATCTATAT-ACAAATAATTTTAAAACGAGGCAATGTCCTGTCGTGTGAAAACTTAGAAAAA
* * *
36887353 TCGCGATTTAACGTGTTAAGTGTGATTTTCGTAATTCATGCAAATCGGATATCCTTTTCAAAAGT
65 TCGCGACTTAACGTGTTAAGTGTGATTTTCGTAATTCATGCAAATCGAATATCCTCTTCAAAAGT
*
36887418 TTTCAAAACACTCTTCAATCTT
130 TTCCAAAACACTCTTCAATCTT
*
36887440 ATA-AT-TATATACAAAGTGATTTTAA
1 ATATATCTATATACAAA-TAATTTTAA
36887465 GACCAAAAGA
Statistics
Matches: 158, Mismatches: 16, Indels: 9
0.86 0.09 0.05
Matches are distributed among these distances:
149 5 0.03
150 13 0.08
151 2 0.01
152 7 0.04
153 130 0.82
154 1 0.01
ACGTcount: A:0.34, C:0.16, G:0.14, T:0.36
Consensus pattern (151 bp):
ATATATCTATATACAAATAATTTTAAAACGAGGCAATGTCCTGTCGTGTGAAAACTTAGAAAAAT
CGCGACTTAACGTGTTAAGTGTGATTTTCGTAATTCATGCAAATCGAATATCCTCTTCAAAAGTT
TCCAAAACACTCTTCAATCTT
Found at i:36889819 original size:21 final size:21
Alignment explanation
Indices: 36889795--36889845 Score: 59
Period size: 21 Copynumber: 2.4 Consensus size: 21
36889785 AATCATAAAC
* *
36889795 AATTATAAT-GATTGAATTTTA
1 AATTA-AATAGATTCAATATTA
36889816 AATTAAATAGATTCAATATTA
1 AATTAAATAGATTCAATATTA
36889837 AACTTAAAT
1 AA-TTAAAT
36889846 TATTATAATA
Statistics
Matches: 26, Mismatches: 2, Indels: 3
0.84 0.06 0.10
Matches are distributed among these distances:
20 3 0.12
21 17 0.65
22 6 0.23
ACGTcount: A:0.49, C:0.04, G:0.06, T:0.41
Consensus pattern (21 bp):
AATTAAATAGATTCAATATTA
Found at i:36889876 original size:12 final size:12
Alignment explanation
Indices: 36889859--36889883 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
36889849 TATAATATAT
36889859 ACAACTAAGTAA
1 ACAACTAAGTAA
36889871 ACAACTAAGTAA
1 ACAACTAAGTAA
36889883 A
1 A
36889884 ATAAAGGATG
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 13 1.00
ACGTcount: A:0.60, C:0.16, G:0.08, T:0.16
Consensus pattern (12 bp):
ACAACTAAGTAA
Found at i:36894036 original size:18 final size:18
Alignment explanation
Indices: 36894013--36894047 Score: 61
Period size: 18 Copynumber: 1.9 Consensus size: 18
36894003 TCAATAATAA
*
36894013 AATATTATTATTTATTAT
1 AATATTATTATTAATTAT
36894031 AATATTATTATTAATTA
1 AATATTATTATTAATTA
36894048 ATATATCTTT
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
18 16 1.00
ACGTcount: A:0.43, C:0.00, G:0.00, T:0.57
Consensus pattern (18 bp):
AATATTATTATTAATTAT
Found at i:36894053 original size:18 final size:18
Alignment explanation
Indices: 36893996--36894053 Score: 57
Period size: 18 Copynumber: 3.3 Consensus size: 18
36893986 ACTTATATTT
* *
36893996 TATATTATCAATAA-TAA
1 TATATTATTATTAATTAA
* *
36894013 AATATTATTATTTATT-A
1 TATATTATTATTAATTAA
36894030 TAATATTATTATTAATTAA
1 T-ATATTATTATTAATTAA
36894049 TATAT
1 TATAT
36894054 CTTTTGATAA
Statistics
Matches: 32, Mismatches: 6, Indels: 5
0.74 0.14 0.12
Matches are distributed among these distances:
17 11 0.34
18 19 0.59
19 2 0.06
ACGTcount: A:0.47, C:0.02, G:0.00, T:0.52
Consensus pattern (18 bp):
TATATTATTATTAATTAA
Found at i:36895475 original size:43 final size:42
Alignment explanation
Indices: 36895393--36895478 Score: 109
Period size: 43 Copynumber: 2.0 Consensus size: 42
36895383 TATTTCTTTA
* ** *
36895393 ATTTCTTTTCATGACCGTCGATTTTCTGAAATGGTTTTTAGT
1 ATTTCTTTTCATGACCATCGATTTTCTGAAACAGCTTTTAGT
* *
36895435 ATTTCTTTTTCATGACCATTGCTTTTCTGAAACAGCTTTTAGT
1 ATTTC-TTTTCATGACCATCGATTTTCTGAAACAGCTTTTAGT
36895478 A
1 A
36895479 GATGAGATAG
Statistics
Matches: 37, Mismatches: 6, Indels: 1
0.84 0.14 0.02
Matches are distributed among these distances:
42 5 0.14
43 32 0.86
ACGTcount: A:0.21, C:0.16, G:0.14, T:0.49
Consensus pattern (42 bp):
ATTTCTTTTCATGACCATCGATTTTCTGAAACAGCTTTTAGT
Found at i:36899453 original size:18 final size:18
Alignment explanation
Indices: 36899427--36899491 Score: 53
Period size: 19 Copynumber: 3.6 Consensus size: 18
36899417 TATAATTCTC
*
36899427 TATATATTTTTAAAATTT
1 TATAAATTTTTAAAATTT
* *
36899445 TATAAATTTTTTAAAAATG
1 TATAAA-TTTTTAAAATTT
**
36899464 TA-AAA-TTTTAACTTTT
1 TATAAATTTTTAAAATTT
36899480 TATAAATATTTT
1 TATAAAT-TTTT
36899492 GAATTATTAA
Statistics
Matches: 36, Mismatches: 7, Indels: 7
0.72 0.14 0.14
Matches are distributed among these distances:
16 9 0.25
17 3 0.08
18 8 0.22
19 16 0.44
ACGTcount: A:0.42, C:0.02, G:0.02, T:0.55
Consensus pattern (18 bp):
TATAAATTTTTAAAATTT
Found at i:36900319 original size:22 final size:21
Alignment explanation
Indices: 36900294--36900339 Score: 58
Period size: 22 Copynumber: 2.1 Consensus size: 21
36900284 AAATAATCAC
36900294 AATTTCA-TTATTTATTAATTAT
1 AATTTCATTTA-TTATT-ATTAT
*
36900316 AATTTGATTTATTATTATTAT
1 AATTTCATTTATTATTATTAT
36900337 AAT
1 AAT
36900340 AATTAAATTA
Statistics
Matches: 22, Mismatches: 1, Indels: 3
0.85 0.04 0.12
Matches are distributed among these distances:
21 8 0.36
22 11 0.50
23 3 0.14
ACGTcount: A:0.37, C:0.02, G:0.02, T:0.59
Consensus pattern (21 bp):
AATTTCATTTATTATTATTAT
Found at i:36906803 original size:212 final size:208
Alignment explanation
Indices: 36906440--36906843 Score: 488
Period size: 212 Copynumber: 1.9 Consensus size: 208
36906430 GCCTTCAGAT
* *
36906440 TTTAGGGGGATTTGGATAGGAGGTCACCATTGGTGAAGTTTAATATGAATTTAATGGTTTTTGTA
1 TTTAGGGGGATCTGGATAGGAGGTCACCATTGATGAAGTTTAATATGAATTTAATGGTTTTTGTA
** * * *
36906505 TTGAAGTTCCAAAAATGAATTATCAACAAGTGATCAGAGAAAGTGGCAGTGGACACCTTCCCTAG
66 TTGAAGTTCCAAAAACAAATTACCAACAAGTGATCAAAGAAAGTGGCAGTGGACACCTTCCCCAG
* * * * * ** *
36906570 GCATTTGGACTGAGTTCGAATCTTGGAATCATCACTATTGGGAGGGCTTTACCGAATACCACACT
131 ACATTTAGACTAAGTTCGAATCCTAGAATCATCACTATTGAAAGGGCTTTACCAAATACCACACT
36906635 GACCCGAACAAGA
196 GACCCGAACAAGA
* *** *
36906648 TTTAGGGGGATCTGGATATGAGGTTGTCATTGATGAAGTTTATATTTGAATTTAATGGTTTTTGT
1 TTTAGGGGGATCTGGATAGGAGGTCACCATTGATGAAGTTTA-ATATGAATTTAATGGTTTTTGT
* * * **
36906713 ATTGGTGAAGTT-CAAATAACAAATTACCAACAGGTGATCAAA-AGAAGTGGCGGTGTACTTCTT
65 A-T--TGAAGTTCCAAA-AACAAATTACCAACAAGTGATCAAAGA-AAGTGGCAGTGGACACCTT
* * *
36906776 CCCCAGACATTTAGATTAAGTTCGAATCCTAGAGTCATCACTATTGAAAGGGCTTTACTAAATAC
125 CCCCAGACATTTAGACTAAGTTCGAATCCTAGAATCATCACTATTGAAAGGGCTTTACCAAATAC
36906841 CAC
190 CAC
36906844 TCCGGTCCAA
Statistics
Matches: 162, Mismatches: 28, Indels: 8
0.82 0.14 0.04
Matches are distributed among these distances:
208 36 0.22
209 22 0.14
210 1 0.01
211 5 0.03
212 98 0.60
ACGTcount: A:0.31, C:0.15, G:0.23, T:0.31
Consensus pattern (208 bp):
TTTAGGGGGATCTGGATAGGAGGTCACCATTGATGAAGTTTAATATGAATTTAATGGTTTTTGTA
TTGAAGTTCCAAAAACAAATTACCAACAAGTGATCAAAGAAAGTGGCAGTGGACACCTTCCCCAG
ACATTTAGACTAAGTTCGAATCCTAGAATCATCACTATTGAAAGGGCTTTACCAAATACCACACT
GACCCGAACAAGA
Found at i:36909531 original size:22 final size:23
Alignment explanation
Indices: 36909498--36909550 Score: 65
Period size: 22 Copynumber: 2.3 Consensus size: 23
36909488 TAAACTTATC
*
36909498 AAATT-AAAAATCGATAAAAAT-
1 AAATTAAAAAATCAATAAAAATG
*
36909519 AAATTAAAAAATCAATTAAAATG
1 AAATTAAAAAATCAATAAAAATG
36909542 ATAATTAAA
1 A-AATTAAA
36909551 TTGATTAAAT
Statistics
Matches: 27, Mismatches: 2, Indels: 3
0.84 0.06 0.09
Matches are distributed among these distances:
21 5 0.19
22 14 0.52
23 1 0.04
24 7 0.26
ACGTcount: A:0.66, C:0.04, G:0.04, T:0.26
Consensus pattern (23 bp):
AAATTAAAAAATCAATAAAAATG
Found at i:36915559 original size:17 final size:17
Alignment explanation
Indices: 36915538--36915578 Score: 57
Period size: 17 Copynumber: 2.4 Consensus size: 17
36915528 GAAAAATCCT
36915538 TTAATTT-ATAAAAAAA
1 TTAATTTAATAAAAAAA
*
36915554 TATAATTTAATTAAAAAA
1 T-TAATTTAATAAAAAAA
36915572 TTAATTT
1 TTAATTT
36915579 CATCGTATAT
Statistics
Matches: 22, Mismatches: 1, Indels: 3
0.85 0.04 0.12
Matches are distributed among these distances:
16 1 0.05
17 12 0.55
18 9 0.41
ACGTcount: A:0.56, C:0.00, G:0.00, T:0.44
Consensus pattern (17 bp):
TTAATTTAATAAAAAAA
Found at i:36917634 original size:19 final size:19
Alignment explanation
Indices: 36917593--36917664 Score: 69
Period size: 19 Copynumber: 3.9 Consensus size: 19
36917583 AAAAAAGTTG
36917593 TAAAAA-ATTAAATTTTAGA
1 TAAAAATATTAAATTTTA-A
*
36917612 -AAAATTATTAAATTTTAA
1 TAAAAATATTAAATTTTAA
* * *
36917630 TAAAAATATAAAAATTTAT
1 TAAAAATATTAAATTTTAA
*
36917649 TAAAAAT-TCAAATTTT
1 TAAAAATATTAAATTTT
36917665 TTTTATAAAA
Statistics
Matches: 44, Mismatches: 7, Indels: 5
0.79 0.12 0.09
Matches are distributed among these distances:
18 12 0.27
19 32 0.73
ACGTcount: A:0.57, C:0.01, G:0.01, T:0.40
Consensus pattern (19 bp):
TAAAAATATTAAATTTTAA
Found at i:36917728 original size:32 final size:32
Alignment explanation
Indices: 36917665--36917729 Score: 87
Period size: 32 Copynumber: 2.0 Consensus size: 32
36917655 TTCAAATTTT
*
36917665 TTTTATAAAAATAGCAAAAAAAATTTGTAAAA
1 TTTTATAAAAATAGCAAAAAAAATTTATAAAA
**
36917697 TTTTATAAAAATCATTAAAAAAAA-TTATAAAA
1 TTTTATAAAAAT-AGCAAAAAAAATTTATAAAA
36917729 T
1 T
36917730 CCGTCAAAAA
Statistics
Matches: 29, Mismatches: 3, Indels: 2
0.85 0.09 0.06
Matches are distributed among these distances:
32 20 0.69
33 9 0.31
ACGTcount: A:0.60, C:0.03, G:0.03, T:0.34
Consensus pattern (32 bp):
TTTTATAAAAATAGCAAAAAAAATTTATAAAA
Found at i:36917927 original size:9 final size:9
Alignment explanation
Indices: 36917913--36918088 Score: 99
Period size: 9 Copynumber: 18.9 Consensus size: 9
36917903 TGGTATGATG
36917913 ATTTTTATA
1 ATTTTTATA
36917922 ATTTTT-TA
1 ATTTTTATA
*
36917930 CGAATTTTATA
1 --ATTTTTATA
36917941 ATTTTT-TA
1 ATTTTTATA
*
36917949 TATTTTGTACA
1 -ATTTT-TATA
*
36917960 ATTTTTCTA
1 ATTTTTATA
**
36917969 GAACTTTATAA
1 -ATTTTTAT-A
*
36917980 AATTTTATA
1 ATTTTTATA
36917989 ATTTTT-TA
1 ATTTTTATA
36917997 TATTTTTAT-
1 -ATTTTTATA
*
36918006 ATATTTTGTA
1 AT-TTTTATA
**
36918016 ATTTTTACG
1 ATTTTTATA
36918025 ATTTTTATAA
1 ATTTTTAT-A
*
36918035 AATTTTATA
1 ATTTTTATA
* *
36918044 TTTTTTATG
1 ATTTTTATA
*
36918053 ATTTTTGTA
1 ATTTTTATA
* *
36918062 TTTTTTCTA
1 ATTTTTATA
36918071 ATTTTTAATA
1 ATTTTT-ATA
36918081 ATTTTTAT
1 ATTTTTAT
36918089 TAAAATTTAA
Statistics
Matches: 126, Mismatches: 27, Indels: 28
0.70 0.15 0.15
Matches are distributed among these distances:
8 8 0.06
9 73 0.58
10 41 0.33
11 4 0.03
ACGTcount: A:0.30, C:0.03, G:0.04, T:0.63
Consensus pattern (9 bp):
ATTTTTATA
Found at i:36917929 original size:10 final size:10
Alignment explanation
Indices: 36917914--36918086 Score: 84
Period size: 10 Copynumber: 18.4 Consensus size: 10
36917904 GGTATGATGA
36917914 TTTTTATAAT
1 TTTTTATAAT
*
36917924 TTTTTACGAA-
1 TTTTTA-TAAT
36917934 -TTTTATAAT
1 TTTTTATAAT
36917943 TTTTTAT-AT
1 TTTTTATAAT
* *
36917952 TTTGTACAAT
1 TTTTTATAAT
*
36917962 TTTTCTAGAA-
1 TTTT-TATAAT
* *
36917972 -CTTTATAAA
1 TTTTTATAAT
*
36917981 ATTTTATAAT
1 TTTTTATAAT
36917991 TTTTTAT-A-
1 TTTTTATAAT
36917999 TTTTTAT-AT
1 TTTTTATAAT
* *
36918008 ATTTTGTAA-
1 TTTTTATAAT
**
36918017 TTTTTACGA-
1 TTTTTATAAT
*
36918026 TTTTTATAAA
1 TTTTTATAAT
*
36918036 ATTTTAT-AT
1 TTTTTATAAT
*
36918045 TTTTTATGA-
1 TTTTTATAAT
*
36918054 TTTTTGT-AT
1 TTTTTATAAT
*
36918063 TTTTTCTAAT
1 TTTTTATAAT
*
36918073 TTTTAATAAT
1 TTTTTATAAT
36918083 TTTT
1 TTTT
36918087 ATTAAAATTT
Statistics
Matches: 124, Mismatches: 26, Indels: 26
0.70 0.15 0.15
Matches are distributed among these distances:
8 15 0.12
9 51 0.41
10 52 0.42
11 6 0.05
ACGTcount: A:0.29, C:0.03, G:0.04, T:0.64
Consensus pattern (10 bp):
TTTTTATAAT
Found at i:36917963 original size:38 final size:38
Alignment explanation
Indices: 36917913--36917994 Score: 96
Period size: 38 Copynumber: 2.2 Consensus size: 38
36917903 TGGTATGATG
* * **
36917913 ATTTTTATAATTTTT-TACGAATTTTATAATTTTTTAT-
1 ATTTTTACAATTTTTCTA-GAACTTTATAAAATTTTATA
36917950 ATTTTGTACAATTTTTCTAGAACTTTATAAAATTTTATA
1 ATTTT-TACAATTTTTCTAGAACTTTATAAAATTTTATA
36917989 ATTTTT
1 ATTTTT
36917995 TATATTTTTA
Statistics
Matches: 38, Mismatches: 4, Indels: 5
0.81 0.09 0.11
Matches are distributed among these distances:
37 5 0.13
38 26 0.68
39 7 0.18
ACGTcount: A:0.32, C:0.05, G:0.04, T:0.60
Consensus pattern (38 bp):
ATTTTTACAATTTTTCTAGAACTTTATAAAATTTTATA
Found at i:36918049 original size:55 final size:54
Alignment explanation
Indices: 36917934--36918110 Score: 169
Period size: 55 Copynumber: 3.1 Consensus size: 54
36917924 TTTTTACGAA
**
36917934 TTTTATAATTTTTTATATTTTGTACAATTTTT-CTAGAACTTTATAAAATTTTATAATT
1 TTTTATAATTTTTTATATTTTGT--AATTTTTAC--GATTTTTATAAAATTTTAT-ATT
36917992 TTTTAT-ATTTTTATATATTTTGTAATTTTTACGATTTTTATAAAATTTTATATT
1 TTTTATAATTTTT-TATATTTTGTAATTTTTACGATTTTTATAAAATTTTATATT
* * * ** * *
36918046 TTTTATGATTTTTGTATTTTTTCTAATTTTTAATAATTTTTATTAAAATTTAATAAT
1 TTTTATAATTTTT-TATATTTTGTAATTTTT-ACGATTTTTA-TAAAATTTTATATT
*
36918103 ATTTATAA
1 TTTTATAA
36918111 CCTTTATTGA
Statistics
Matches: 103, Mismatches: 11, Indels: 11
0.82 0.09 0.09
Matches are distributed among these distances:
54 9 0.09
55 38 0.37
56 15 0.15
57 25 0.24
58 16 0.16
ACGTcount: A:0.32, C:0.03, G:0.03, T:0.62
Consensus pattern (54 bp):
TTTTATAATTTTTTATATTTTGTAATTTTTACGATTTTTATAAAATTTTATATT
Found at i:36923287 original size:3 final size:3
Alignment explanation
Indices: 36923271--36923311 Score: 55
Period size: 3 Copynumber: 13.0 Consensus size: 3
36923261 AATCTGCTTG
*
36923271 TAT TATT TATT TAT TAT TAT TAT TGT TAT TAT TAT TAT TAT
1 TAT TA-T TA-T TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT
36923312 ATAAAAAATT
Statistics
Matches: 35, Mismatches: 2, Indels: 2
0.90 0.05 0.05
Matches are distributed among these distances:
3 28 0.80
4 7 0.20
ACGTcount: A:0.29, C:0.00, G:0.02, T:0.68
Consensus pattern (3 bp):
TAT
Found at i:36924819 original size:19 final size:18
Alignment explanation
Indices: 36924778--36924813 Score: 54
Period size: 18 Copynumber: 1.9 Consensus size: 18
36924768 ACTAAATGAA
*
36924778 CTAAATTTTTAAAAATAT
1 CTAAATTTTTAAAAACAT
36924796 CTAAATTTATTAAAAACA
1 CTAAATTT-TTAAAAACA
36924814 CATAAACATA
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
18 8 0.50
19 8 0.50
ACGTcount: A:0.53, C:0.08, G:0.00, T:0.39
Consensus pattern (18 bp):
CTAAATTTTTAAAAACAT
Found at i:36925183 original size:31 final size:31
Alignment explanation
Indices: 36925104--36925185 Score: 76
Period size: 31 Copynumber: 2.6 Consensus size: 31
36925094 TGAATTTTAC
* * * *
36925104 TTTGATGTAATTATACATGTGAAACACTAAT
1 TTTGATTTAATAATATATTTGAAACACTAAT
* * **
36925135 TGTGATTTAA-ATGTATATTTGAAACTTTAAT
1 TTTGATTTAATA-ATATATTTGAAACACTAAT
36925166 TTTGATTTAATAATATATTT
1 TTTGATTTAATAATATATTT
36925186 TTAAATAAAT
Statistics
Matches: 39, Mismatches: 10, Indels: 4
0.74 0.19 0.08
Matches are distributed among these distances:
31 38 0.97
32 1 0.03
ACGTcount: A:0.37, C:0.05, G:0.11, T:0.48
Consensus pattern (31 bp):
TTTGATTTAATAATATATTTGAAACACTAAT
Found at i:36926548 original size:39 final size:39
Alignment explanation
Indices: 36926446--36926554 Score: 157
Period size: 39 Copynumber: 2.8 Consensus size: 39
36926436 TAGCATTACG
* * *
36926446 GTGTTTACAATGTCACTGTCAATTCAGAATTATATTGCA
1 GTGTTTACAGTGTCACTGTCAGTTCAGTATTATATTGCA
*
36926485 GTGTTTACAGTGTCACTGTCAGTTCAGTATTGTATTGCA
1 GTGTTTACAGTGTCACTGTCAGTTCAGTATTATATTGCA
*
36926524 GTGTCTACAGTGTCACTG-CTAGTTCAGTATT
1 GTGTTTACAGTGTCACTGTC-AGTTCAGTATT
36926555 TTGATAACTG
Statistics
Matches: 64, Mismatches: 5, Indels: 2
0.90 0.07 0.03
Matches are distributed among these distances:
38 1 0.02
39 63 0.98
ACGTcount: A:0.24, C:0.17, G:0.20, T:0.39
Consensus pattern (39 bp):
GTGTTTACAGTGTCACTGTCAGTTCAGTATTATATTGCA
Found at i:36928326 original size:21 final size:22
Alignment explanation
Indices: 36928302--36928347 Score: 62
Period size: 21 Copynumber: 2.2 Consensus size: 22
36928292 TTTTGTATAT
36928302 TTTAAATT-TTAT-TTTTAATGA
1 TTTAAATTGTTATATTTTAA-GA
36928323 TTT-AATTGTTATATTTTAAGA
1 TTTAAATTGTTATATTTTAAGA
36928344 TTTA
1 TTTA
36928348 GATTCAATGG
Statistics
Matches: 22, Mismatches: 0, Indels: 5
0.81 0.00 0.19
Matches are distributed among these distances:
20 4 0.18
21 12 0.55
22 6 0.27
ACGTcount: A:0.33, C:0.00, G:0.07, T:0.61
Consensus pattern (22 bp):
TTTAAATTGTTATATTTTAAGA
Found at i:36937153 original size:6 final size:6
Alignment explanation
Indices: 36937142--36937171 Score: 60
Period size: 6 Copynumber: 5.0 Consensus size: 6
36937132 AAATGGTCTG
36937142 AATAAA AATAAA AATAAA AATAAA AATAAA
1 AATAAA AATAAA AATAAA AATAAA AATAAA
36937172 TTATTTTATT
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 24 1.00
ACGTcount: A:0.83, C:0.00, G:0.00, T:0.17
Consensus pattern (6 bp):
AATAAA
Found at i:36948843 original size:29 final size:30
Alignment explanation
Indices: 36948782--36948845 Score: 76
Period size: 29 Copynumber: 2.2 Consensus size: 30
36948772 GTTTTAATGG
* * *
36948782 AATAAACAATTACAATCACTATATTCAAAA
1 AATAAACAATTACAATAACTAAACTCAAAA
* *
36948812 AATAAA-AATTACAATAACTAAACTGAATA
1 AATAAACAATTACAATAACTAAACTCAAAA
36948841 AATAA
1 AATAA
36948846 CAACCAAATC
Statistics
Matches: 29, Mismatches: 5, Indels: 1
0.83 0.14 0.03
Matches are distributed among these distances:
29 23 0.79
30 6 0.21
ACGTcount: A:0.61, C:0.12, G:0.02, T:0.25
Consensus pattern (30 bp):
AATAAACAATTACAATAACTAAACTCAAAA
Found at i:36962241 original size:24 final size:24
Alignment explanation
Indices: 36962214--36962262 Score: 98
Period size: 24 Copynumber: 2.0 Consensus size: 24
36962204 CATTTAGGGT
36962214 TAGTTTAGCATTGCTTTTGAGGAG
1 TAGTTTAGCATTGCTTTTGAGGAG
36962238 TAGTTTAGCATTGCTTTTGAGGAG
1 TAGTTTAGCATTGCTTTTGAGGAG
36962262 T
1 T
36962263 GCTTTTAAAA
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
24 25 1.00
ACGTcount: A:0.20, C:0.08, G:0.29, T:0.43
Consensus pattern (24 bp):
TAGTTTAGCATTGCTTTTGAGGAG
Found at i:36962276 original size:13 final size:13
Alignment explanation
Indices: 36962260--36962312 Score: 63
Period size: 13 Copynumber: 4.1 Consensus size: 13
36962250 GCTTTTGAGG
36962260 AGTGCTTTTAAAA
1 AGTGCTTTTAAAA
36962273 AGTGC-TTTAGAAA
1 AGTGCTTTTA-AAA
* *
36962286 AGTGATTTTGAAA
1 AGTGCTTTTAAAA
*
36962299 AGTACTTTTAAAA
1 AGTGCTTTTAAAA
36962312 A
1 A
36962313 ATTTGGTCTA
Statistics
Matches: 33, Mismatches: 5, Indels: 4
0.79 0.12 0.10
Matches are distributed among these distances:
12 4 0.12
13 26 0.79
14 3 0.09
ACGTcount: A:0.42, C:0.06, G:0.17, T:0.36
Consensus pattern (13 bp):
AGTGCTTTTAAAA
Found at i:36962947 original size:19 final size:19
Alignment explanation
Indices: 36962907--36962947 Score: 55
Period size: 19 Copynumber: 2.2 Consensus size: 19
36962897 CGAAACTCGA
*
36962907 ATTCAAGGTTCGAGCTTAG
1 ATTCAAGGTTCGAGATTAG
* *
36962926 ATTCAGGGTTCGAGATTCG
1 ATTCAAGGTTCGAGATTAG
36962945 ATT
1 ATT
36962948 TTTAAGGTTT
Statistics
Matches: 19, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
19 19 1.00
ACGTcount: A:0.24, C:0.15, G:0.27, T:0.34
Consensus pattern (19 bp):
ATTCAAGGTTCGAGATTAG
Found at i:36965860 original size:3 final size:3
Alignment explanation
Indices: 36965852--36965902 Score: 102
Period size: 3 Copynumber: 17.0 Consensus size: 3
36965842 GACAACTCAT
36965852 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA
36965900 TTA
1 TTA
36965903 CTGGAGGAAG
Statistics
Matches: 48, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 48 1.00
ACGTcount: A:0.33, C:0.00, G:0.00, T:0.67
Consensus pattern (3 bp):
TTA
Found at i:36966177 original size:18 final size:18
Alignment explanation
Indices: 36966141--36966179 Score: 51
Period size: 18 Copynumber: 2.2 Consensus size: 18
36966131 GTGAATAAAT
* * *
36966141 AAAATAAATTTAATTCAA
1 AAAATAAAATAAATACAA
36966159 AAAATAAAATAAATACAA
1 AAAATAAAATAAATACAA
36966177 AAA
1 AAA
36966180 TTTTATTTTT
Statistics
Matches: 18, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
18 18 1.00
ACGTcount: A:0.72, C:0.05, G:0.00, T:0.23
Consensus pattern (18 bp):
AAAATAAAATAAATACAA
Found at i:36976537 original size:5 final size:6
Alignment explanation
Indices: 36976522--36976547 Score: 52
Period size: 6 Copynumber: 4.3 Consensus size: 6
36976512 AAACATCGTA
36976522 AAAAAG AAAAAG AAAAAG AAAAAG AA
1 AAAAAG AAAAAG AAAAAG AAAAAG AA
36976548 TATATACTGC
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 20 1.00
ACGTcount: A:0.85, C:0.00, G:0.15, T:0.00
Consensus pattern (6 bp):
AAAAAG
Found at i:36980268 original size:12 final size:12
Alignment explanation
Indices: 36980251--36980275 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
36980241 TTTTTTCTAC
36980251 ATGTAGGATGAA
1 ATGTAGGATGAA
36980263 ATGTAGGATGAA
1 ATGTAGGATGAA
36980275 A
1 A
36980276 AAGAAAATTA
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 13 1.00
ACGTcount: A:0.44, C:0.00, G:0.32, T:0.24
Consensus pattern (12 bp):
ATGTAGGATGAA
Found at i:36981573 original size:21 final size:22
Alignment explanation
Indices: 36981549--36981595 Score: 69
Period size: 21 Copynumber: 2.2 Consensus size: 22
36981539 TATTATATAG
* *
36981549 TTAAATAAAAACTTTGGAT-AT
1 TTAAATAAAAAATTTAGATAAT
36981570 TTAAATAAAAAATTTAGATAAT
1 TTAAATAAAAAATTTAGATAAT
36981592 TTAA
1 TTAA
36981596 CCTAACTTTT
Statistics
Matches: 23, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
21 17 0.74
22 6 0.26
ACGTcount: A:0.53, C:0.02, G:0.06, T:0.38
Consensus pattern (22 bp):
TTAAATAAAAAATTTAGATAAT
Found at i:36982286 original size:31 final size:31
Alignment explanation
Indices: 36982248--36982308 Score: 95
Period size: 31 Copynumber: 2.0 Consensus size: 31
36982238 TTTGGATCCA
36982248 ATTTGGTACCCAAACTTAACACTTTTTTTTG
1 ATTTGGTACCCAAACTTAACACTTTTTTTTG
* * *
36982279 ATTTGGTATCTAAACTTGACACTTTTTTTT
1 ATTTGGTACCCAAACTTAACACTTTTTTTT
36982309 AAAGTTGGTA
Statistics
Matches: 27, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
31 27 1.00
ACGTcount: A:0.25, C:0.16, G:0.10, T:0.49
Consensus pattern (31 bp):
ATTTGGTACCCAAACTTAACACTTTTTTTTG
Found at i:36982317 original size:32 final size:31
Alignment explanation
Indices: 36982250--36982327 Score: 93
Period size: 31 Copynumber: 2.5 Consensus size: 31
36982240 TGGATCCAAT
* * * *
36982250 TTGGTACCCAAACTTAACACTTTTTTTTGAT
1 TTGGTATCTAAACTTAACACTTTTTTTTAAG
*
36982281 TTGGTATCTAAACTTGACACTTTTTTTTAAAG
1 TTGGTATCTAAACTTAACACTTTTTTTT-AAG
*
36982313 TTGGTATTTAAACTT
1 TTGGTATCTAAACTT
36982328 TTTGGGATCC
Statistics
Matches: 40, Mismatches: 6, Indels: 1
0.85 0.13 0.02
Matches are distributed among these distances:
31 25 0.62
32 15 0.38
ACGTcount: A:0.27, C:0.14, G:0.12, T:0.47
Consensus pattern (31 bp):
TTGGTATCTAAACTTAACACTTTTTTTTAAG
Found at i:36997319 original size:2 final size:2
Alignment explanation
Indices: 36997312--36997346 Score: 70
Period size: 2 Copynumber: 17.5 Consensus size: 2
36997302 ACCAAGTGAT
36997312 TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC T
1 TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC T
36997347 ATTTATCTTA
Statistics
Matches: 33, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 33 1.00
ACGTcount: A:0.00, C:0.49, G:0.00, T:0.51
Consensus pattern (2 bp):
TC
Found at i:37000598 original size:12 final size:12
Alignment explanation
Indices: 37000581--37000606 Score: 52
Period size: 12 Copynumber: 2.2 Consensus size: 12
37000571 TAACAATGTT
37000581 GAAGAATCAACC
1 GAAGAATCAACC
37000593 GAAGAATCAACC
1 GAAGAATCAACC
37000605 GA
1 GA
37000607 GAGGCAACCG
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 14 1.00
ACGTcount: A:0.50, C:0.23, G:0.19, T:0.08
Consensus pattern (12 bp):
GAAGAATCAACC
Found at i:37003863 original size:2 final size:2
Alignment explanation
Indices: 37003856--37003884 Score: 58
Period size: 2 Copynumber: 14.5 Consensus size: 2
37003846 CCCTGCTGGC
37003856 AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
37003885 AAGAAAGCCT
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 27 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:37006902 original size:4 final size:4
Alignment explanation
Indices: 37006893--37006923 Score: 62
Period size: 4 Copynumber: 7.8 Consensus size: 4
37006883 CAAAATTGTT
37006893 ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATA
1 ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATA
37006924 TATATGATGA
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
4 27 1.00
ACGTcount: A:0.52, C:0.23, G:0.00, T:0.26
Consensus pattern (4 bp):
ATAC
Found at i:37031294 original size:58 final size:58
Alignment explanation
Indices: 37031229--37031346 Score: 236
Period size: 58 Copynumber: 2.0 Consensus size: 58
37031219 CGAGTCAATT
37031229 GTAATCCTTATTTTCTAAACAATAGCAATTAAATTTATTTGATTAAATTTAATTACTA
1 GTAATCCTTATTTTCTAAACAATAGCAATTAAATTTATTTGATTAAATTTAATTACTA
37031287 GTAATCCTTATTTTCTAAACAATAGCAATTAAATTTATTTGATTAAATTTAATTACTA
1 GTAATCCTTATTTTCTAAACAATAGCAATTAAATTTATTTGATTAAATTTAATTACTA
37031345 GT
1 GT
37031347 TTTGTATTAT
Statistics
Matches: 60, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
58 60 1.00
ACGTcount: A:0.39, C:0.10, G:0.06, T:0.45
Consensus pattern (58 bp):
GTAATCCTTATTTTCTAAACAATAGCAATTAAATTTATTTGATTAAATTTAATTACTA
Found at i:37037891 original size:16 final size:15
Alignment explanation
Indices: 37037850--37037892 Score: 50
Period size: 16 Copynumber: 2.7 Consensus size: 15
37037840 CTTATATTTG
*
37037850 TATATTTCATATCATC
1 TATATTT-ATATCATA
*
37037866 TATTTTTATATCATA
1 TATATTTATATCATA
37037881 TCATATTTATAT
1 T-ATATTTATAT
37037893 AATACTTTGA
Statistics
Matches: 23, Mismatches: 3, Indels: 2
0.82 0.11 0.07
Matches are distributed among these distances:
15 8 0.35
16 15 0.65
ACGTcount: A:0.33, C:0.12, G:0.00, T:0.56
Consensus pattern (15 bp):
TATATTTATATCATA
Found at i:37047305 original size:16 final size:17
Alignment explanation
Indices: 37047284--37047321 Score: 51
Period size: 17 Copynumber: 2.3 Consensus size: 17
37047274 CACTTAAAGT
*
37047284 TTTAAAA-AATTATATA
1 TTTAAAAGAATTATAAA
*
37047300 TTTAAAAGAATTTTAAA
1 TTTAAAAGAATTATAAA
37047317 TTTAA
1 TTTAA
37047322 GTTTTATTTA
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
16 7 0.37
17 12 0.63
ACGTcount: A:0.53, C:0.00, G:0.03, T:0.45
Consensus pattern (17 bp):
TTTAAAAGAATTATAAA
Found at i:37061686 original size:36 final size:36
Alignment explanation
Indices: 37061636--37061716 Score: 117
Period size: 36 Copynumber: 2.2 Consensus size: 36
37061626 CAAGTTCAGG
* * *
37061636 TAGAGGAGGTAATTTTCGAGGAACAAGAGGTTCGTA
1 TAGAGGGGGAAATTTTCGAGGAACAAGAGGTTCATA
**
37061672 TAGAGGGGGAAATTTTCGAGGTGCAAGAGGTTCATA
1 TAGAGGGGGAAATTTTCGAGGAACAAGAGGTTCATA
37061708 TAGAGGGGG
1 TAGAGGGGG
37061717 TTTTACCACT
Statistics
Matches: 40, Mismatches: 5, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
36 40 1.00
ACGTcount: A:0.31, C:0.07, G:0.38, T:0.23
Consensus pattern (36 bp):
TAGAGGGGGAAATTTTCGAGGAACAAGAGGTTCATA
Found at i:37070508 original size:3 final size:3
Alignment explanation
Indices: 37070500--37070526 Score: 54
Period size: 3 Copynumber: 9.0 Consensus size: 3
37070490 CATCTAATCA
37070500 AAT AAT AAT AAT AAT AAT AAT AAT AAT
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT
37070527 CTCTCTATTG
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 24 1.00
ACGTcount: A:0.67, C:0.00, G:0.00, T:0.33
Consensus pattern (3 bp):
AAT
Found at i:37071427 original size:74 final size:73
Alignment explanation
Indices: 37071318--37071454 Score: 177
Period size: 74 Copynumber: 1.9 Consensus size: 73
37071308 GAAAGATAAA
* * * *
37071318 TTATTTTGTTGGGTAACCCTTATTGATTACCCTCTTTT-TTAGCAAAATGCAATTAAAGCTTATT
1 TTATTTTGCTGGGTAACCCATATTCATTACCCTCTTTTATTAG--AAATGCAATCAAAGCTTATT
37071382 CATTTTTAAT
64 CATTTTTAAT
* * * *
37071392 TTATTTTGCTGGGTAACTCATATTCATTGCTCTCTTTTATTAGTAATGCAATCAAAGCTTATT
1 TTATTTTGCTGGGTAACCCATATTCATTACCCTCTTTTATTAGAAATGCAATCAAAGCTTATT
37071455 AAGTTTTTTC
Statistics
Matches: 54, Mismatches: 8, Indels: 3
0.83 0.12 0.05
Matches are distributed among these distances:
73 18 0.33
74 32 0.59
75 4 0.07
ACGTcount: A:0.26, C:0.15, G:0.12, T:0.47
Consensus pattern (73 bp):
TTATTTTGCTGGGTAACCCATATTCATTACCCTCTTTTATTAGAAATGCAATCAAAGCTTATTCA
TTTTTAAT
Found at i:37089597 original size:69 final size:69
Alignment explanation
Indices: 37089481--37089654 Score: 294
Period size: 69 Copynumber: 2.5 Consensus size: 69
37089471 ACAATACTAG
* *
37089481 CTACGATTATAAGTAATTTCTCGACATCAGAGACCACTCAGTCGCATTCCAATATGCAGTCAATT
1 CTACGATTATAAGTAATTTCTAGACATCAGAGACCACTCAGTCGCATTCCAAAATGCAGTCAATT
37089546 ATAA
66 ATAA
* * *
37089550 CTATGATTATAAGTAATTTCTAGACATCAGAGACCCCTCAGTTGCATTCCAAAATGCAGTCAATT
1 CTACGATTATAAGTAATTTCTAGACATCAGAGACCACTCAGTCGCATTCCAAAATGCAGTCAATT
37089615 ATAA
66 ATAA
*
37089619 CTACGATTTTAAGTAATTTCTAGACATCAGAGACCA
1 CTACGATTATAAGTAATTTCTAGACATCAGAGACCA
37089655 TCACTCACAT
Statistics
Matches: 97, Mismatches: 8, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
69 97 1.00
ACGTcount: A:0.36, C:0.21, G:0.13, T:0.30
Consensus pattern (69 bp):
CTACGATTATAAGTAATTTCTAGACATCAGAGACCACTCAGTCGCATTCCAAAATGCAGTCAATT
ATAA
Found at i:37092336 original size:18 final size:17
Alignment explanation
Indices: 37092304--37092337 Score: 50
Period size: 18 Copynumber: 1.9 Consensus size: 17
37092294 AAATGTTTCA
*
37092304 AAATTTTATAATATTAT
1 AAATTTTAAAATATTAT
37092321 AAATTATTAAAATATTA
1 AAATT-TTAAAATATTA
37092338 AACTTTATAA
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
17 5 0.33
18 10 0.67
ACGTcount: A:0.53, C:0.00, G:0.00, T:0.47
Consensus pattern (17 bp):
AAATTTTAAAATATTAT
Found at i:37093453 original size:19 final size:19
Alignment explanation
Indices: 37093429--37093467 Score: 53
Period size: 19 Copynumber: 2.1 Consensus size: 19
37093419 ACATAATTCA
37093429 AAATAAAAA-TGTTAAAAAT
1 AAATAAAAATTG-TAAAAAT
*
37093448 AAATAAATATTGTAAAAAT
1 AAATAAAAATTGTAAAAAT
37093467 A
1 A
37093468 TTGATTTTGA
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
19 16 0.89
20 2 0.11
ACGTcount: A:0.67, C:0.00, G:0.05, T:0.28
Consensus pattern (19 bp):
AAATAAAAATTGTAAAAAT
Found at i:37093900 original size:26 final size:26
Alignment explanation
Indices: 37093851--37093900 Score: 73
Period size: 26 Copynumber: 1.9 Consensus size: 26
37093841 TAATAACGGA
*
37093851 TTGCTCTATTCTTATTATTTTGTTAC
1 TTGCTCTATTCTTATTATTATGTTAC
* *
37093877 TTGCTCTATTTTTATTGTTATGTT
1 TTGCTCTATTCTTATTATTATGTT
37093901 GGTATAATTT
Statistics
Matches: 21, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
26 21 1.00
ACGTcount: A:0.14, C:0.12, G:0.10, T:0.64
Consensus pattern (26 bp):
TTGCTCTATTCTTATTATTATGTTAC
Found at i:37096262 original size:29 final size:30
Alignment explanation
Indices: 37096213--37096277 Score: 71
Period size: 29 Copynumber: 2.2 Consensus size: 30
37096203 ACTGTGTTTG
* * * *
37096213 AATTTTTAAATTCAAACAATATAAAGATTA
1 AATTTTTAAAATCAAACAATACAAAAACTA
37096243 AATTTTTGAAAAT-AAA-AATACAAAAACTA
1 AATTTTT-AAAATCAAACAATACAAAAACTA
37096272 AATTTT
1 AATTTT
37096278 AAATATACAA
Statistics
Matches: 30, Mismatches: 4, Indels: 3
0.81 0.11 0.08
Matches are distributed among these distances:
29 16 0.53
30 10 0.33
31 4 0.13
ACGTcount: A:0.55, C:0.06, G:0.03, T:0.35
Consensus pattern (30 bp):
AATTTTTAAAATCAAACAATACAAAAACTA
Found at i:37112154 original size:25 final size:25
Alignment explanation
Indices: 37112103--37112179 Score: 79
Period size: 25 Copynumber: 3.2 Consensus size: 25
37112093 CACTAGCGCG
* *
37112103 CTCTCTGATTAGCACTGTGTGTGCT
1 CTCTCTTATTAGCACTGTCTGTGCT
*
37112128 CTCT-GT-TTAGCAC-GTCTCGTGCT
1 CTCTCTTATTAGCACTGTCT-GTGCT
* *
37112151 CTCTGTTATTAGCACTGTGTGTGCT
1 CTCTCTTATTAGCACTGTCTGTGCT
37112176 CTCT
1 CTCT
37112180 GATTAGCACT
Statistics
Matches: 43, Mismatches: 5, Indels: 8
0.77 0.09 0.14
Matches are distributed among these distances:
22 3 0.07
23 16 0.37
24 1 0.02
25 20 0.47
26 3 0.07
ACGTcount: A:0.10, C:0.26, G:0.22, T:0.42
Consensus pattern (25 bp):
CTCTCTTATTAGCACTGTCTGTGCT
Found at i:37112180 original size:25 final size:23
Alignment explanation
Indices: 37112102--37112199 Score: 135
Period size: 23 Copynumber: 4.2 Consensus size: 23
37112092 ACACTAGCGC
37112102 GCTCTCTGATTAGCACTGTGTGT
1 GCTCTCTGATTAGCACTGTGTGT
* *
37112125 GCTCTCTGTTTAGCAC-GTCTCGT
1 GCTCTCTGATTAGCACTGTGT-GT
37112148 GCTCTCTGTTATTAGCACTGTGTGT
1 GCTCTCTG--ATTAGCACTGTGTGT
*
37112173 GCTCTCTGATTAGCACTTTGTGT
1 GCTCTCTGATTAGCACTGTGTGT
37112196 GCTC
1 GCTC
37112200 AGTACTTTGT
Statistics
Matches: 66, Mismatches: 5, Indels: 8
0.84 0.06 0.10
Matches are distributed among these distances:
22 3 0.05
23 43 0.65
25 17 0.26
26 3 0.05
ACGTcount: A:0.11, C:0.24, G:0.23, T:0.41
Consensus pattern (23 bp):
GCTCTCTGATTAGCACTGTGTGT
Found at i:37112233 original size:23 final size:23
Alignment explanation
Indices: 37112198--37112291 Score: 86
Period size: 23 Copynumber: 4.0 Consensus size: 23
37112188 CTTTGTGTGC
*
37112198 TCAGTACTTTGTGTACTCTCTGT
1 TCAGCACTTTGTGTACTCTCTGT
* *
37112221 TTAGCACTTTGTGTGCTCTCTGT
1 TCAGCACTTTGTGTACTCTCTGT
37112244 TGCCCAGCACTTATGTG--CTCTCTGT
1 T---CAGCACTT-TGTGTACTCTCTGT
* *
37112269 TCAGTACTTCG-GTACTCTCTGT
1 TCAGCACTTTGTGTACTCTCTGT
37112291 T
1 T
37112292 TGTTCCGTTT
Statistics
Matches: 59, Mismatches: 6, Indels: 13
0.76 0.08 0.17
Matches are distributed among these distances:
20 1 0.02
21 1 0.02
22 16 0.27
23 21 0.36
25 9 0.15
26 7 0.12
27 4 0.07
ACGTcount: A:0.12, C:0.26, G:0.19, T:0.44
Consensus pattern (23 bp):
TCAGCACTTTGTGTACTCTCTGT
Found at i:37123073 original size:30 final size:31
Alignment explanation
Indices: 37123018--37123078 Score: 79
Period size: 31 Copynumber: 2.0 Consensus size: 31
37123008 TTTTTAGGTT
***
37123018 TTTTAAAAGTTGGTAAAAATAAATTTCAAAC
1 TTTTAAAAGTTAAAAAAAATAAATTTCAAAC
*
37123049 TTTTAAAAGTTAAAAAAAAT-AATTTTAAAC
1 TTTTAAAAGTTAAAAAAAATAAATTTCAAAC
37123079 CTCTTTTAGC
Statistics
Matches: 26, Mismatches: 4, Indels: 1
0.84 0.13 0.03
Matches are distributed among these distances:
30 9 0.35
31 17 0.65
ACGTcount: A:0.52, C:0.05, G:0.07, T:0.36
Consensus pattern (31 bp):
TTTTAAAAGTTAAAAAAAATAAATTTCAAAC
Found at i:37141920 original size:13 final size:13
Alignment explanation
Indices: 37141902--37141944 Score: 70
Period size: 13 Copynumber: 3.3 Consensus size: 13
37141892 TTTCTTCCTC
37141902 TTTTATTTTATTA
1 TTTTATTTTATTA
37141915 TTTTATTTTATTA
1 TTTTATTTTATTA
37141928 TTTTATTATTATT-
1 TTTTATT-TTATTA
37141941 TTTT
1 TTTT
37141945 CCAAATATCA
Statistics
Matches: 29, Mismatches: 0, Indels: 2
0.94 0.00 0.06
Matches are distributed among these distances:
13 24 0.83
14 5 0.17
ACGTcount: A:0.21, C:0.00, G:0.00, T:0.79
Consensus pattern (13 bp):
TTTTATTTTATTA
Found at i:37165219 original size:24 final size:24
Alignment explanation
Indices: 37165191--37165253 Score: 81
Period size: 24 Copynumber: 2.6 Consensus size: 24
37165181 TAGAGTAATA
*
37165191 AGAGTTTGACTCAAACAAATAAAC
1 AGAGTTTAACTCAAACAAATAAAC
* * *
37165215 AGAGTTTAATTGAAACAAATAAAT
1 AGAGTTTAACTCAAACAAATAAAC
*
37165239 AGAATTTAACTCAAA
1 AGAGTTTAACTCAAA
37165254 GATTATTTTT
Statistics
Matches: 32, Mismatches: 7, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
24 32 1.00
ACGTcount: A:0.52, C:0.11, G:0.11, T:0.25
Consensus pattern (24 bp):
AGAGTTTAACTCAAACAAATAAAC
Found at i:37173878 original size:12 final size:12
Alignment explanation
Indices: 37173850--37173882 Score: 52
Period size: 12 Copynumber: 2.9 Consensus size: 12
37173840 ATTTTAAAAA
37173850 ATTTAATT-TTT
1 ATTTAATTATTT
37173861 -TTTAATTATTT
1 ATTTAATTATTT
37173872 ATTTAATTATT
1 ATTTAATTATT
37173883 GTTGGATTAA
Statistics
Matches: 20, Mismatches: 0, Indels: 3
0.87 0.00 0.13
Matches are distributed among these distances:
10 7 0.35
11 3 0.15
12 10 0.50
ACGTcount: A:0.30, C:0.00, G:0.00, T:0.70
Consensus pattern (12 bp):
ATTTAATTATTT
Found at i:37175161 original size:2 final size:2
Alignment explanation
Indices: 37175154--37175186 Score: 66
Period size: 2 Copynumber: 16.5 Consensus size: 2
37175144 ATATTATGTT
37175154 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
37175187 TTAAATGTTT
Statistics
Matches: 31, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 31 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Found at i:37194609 original size:23 final size:23
Alignment explanation
Indices: 37194570--37194619 Score: 66
Period size: 23 Copynumber: 2.2 Consensus size: 23
37194560 ATGAATTTCT
*
37194570 AGTTAATCGAATCAAGTTATTCA
1 AGTTAATCGAATCAAGTAATTCA
*
37194593 AGTTAACTCGAAT-AAGTAATTCG
1 AGTTAA-TCGAATCAAGTAATTCA
37194616 AGTT
1 AGTT
37194620 TTAAGTTCGA
Statistics
Matches: 24, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
23 18 0.75
24 6 0.25
ACGTcount: A:0.38, C:0.12, G:0.16, T:0.34
Consensus pattern (23 bp):
AGTTAATCGAATCAAGTAATTCA
Done.