Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: VEPZ01007723.1 Hibiscus syriacus cultivar Beakdansim tig00109960_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: 249863
ACGTcount: A:0.32, C:0.18, G:0.18, T:0.32
Found at i:9980 original size:43 final size:43
Alignment explanation
Indices: 9932--10016 Score: 152
Period size: 43 Copynumber: 2.0 Consensus size: 43
9922 TCCCTCTGCG
9932 GCTCTGCCTTCAGTGAAATTATTTTTGAAGCACGAACTAAGCT
1 GCTCTGCCTTCAGTGAAATTATTTTTGAAGCACGAACTAAGCT
**
9975 GCTCTGCCTTTGGTGAAATTATTTTTGAAGCACGAACTAAGC
1 GCTCTGCCTTCAGTGAAATTATTTTTGAAGCACGAACTAAGC
10017 GACCTCAGTT
Statistics
Matches: 40, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
43 40 1.00
ACGTcount: A:0.27, C:0.20, G:0.20, T:0.33
Consensus pattern (43 bp):
GCTCTGCCTTCAGTGAAATTATTTTTGAAGCACGAACTAAGCT
Found at i:10039 original size:11 final size:11
Alignment explanation
Indices: 10023--10050 Score: 56
Period size: 11 Copynumber: 2.5 Consensus size: 11
10013 AAGCGACCTC
10023 AGTTGTAAAAG
1 AGTTGTAAAAG
10034 AGTTGTAAAAG
1 AGTTGTAAAAG
10045 AGTTGT
1 AGTTGT
10051 TATTTTTTTA
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 17 1.00
ACGTcount: A:0.39, C:0.00, G:0.29, T:0.32
Consensus pattern (11 bp):
AGTTGTAAAAG
Found at i:15861 original size:69 final size:69
Alignment explanation
Indices: 15732--15861 Score: 156
Period size: 69 Copynumber: 1.9 Consensus size: 69
15722 AGTTAATCGA
* * * *
15732 AATAAATATGATTAAATGCTCTCATGCGAGTCATTCTGATTCTTAGAGGCTCTCGGGTGAGTTGC
1 AATAAATATGATTAAATGCTCTCATGCGAGTCACTCTAATCCTTAGAGGCTCTCAGGTGAGTTGC
15797 TCGT
66 TCGT
** * *
15801 AATAAATATGATTAGGTGCTCTCAT-CTGAGTCACTCTAATCCTTCG-GGACTCTCATGTGAG
1 AATAAATATGATTAAATGCTCTCATGC-GAGTCACTCTAATCCTTAGAGG-CTCTCAGGTGAG
15862 ACACCCGAAA
Statistics
Matches: 51, Mismatches: 8, Indels: 4
0.81 0.13 0.06
Matches are distributed among these distances:
68 3 0.06
69 48 0.94
ACGTcount: A:0.25, C:0.19, G:0.22, T:0.34
Consensus pattern (69 bp):
AATAAATATGATTAAATGCTCTCATGCGAGTCACTCTAATCCTTAGAGGCTCTCAGGTGAGTTGC
TCGT
Found at i:18417 original size:23 final size:23
Alignment explanation
Indices: 18390--18436 Score: 94
Period size: 23 Copynumber: 2.0 Consensus size: 23
18380 TGCTTGAAGT
18390 GCATACATCAACTGTATATGGAA
1 GCATACATCAACTGTATATGGAA
18413 GCATACATCAACTGTATATGGAA
1 GCATACATCAACTGTATATGGAA
18436 G
1 G
18437 GAAAGGAATA
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
23 24 1.00
ACGTcount: A:0.38, C:0.17, G:0.19, T:0.26
Consensus pattern (23 bp):
GCATACATCAACTGTATATGGAA
Found at i:32331 original size:27 final size:27
Alignment explanation
Indices: 32289--32356 Score: 113
Period size: 27 Copynumber: 2.6 Consensus size: 27
32279 TTGTAGGAAT
32289 TATAGAG--ATGATTTGTTACCATTCC
1 TATAGAGATATGATTTGTTACCATTCC
*
32314 TATAGAGATATGATTTGTTATCATTCC
1 TATAGAGATATGATTTGTTACCATTCC
32341 TATAGAGATATGATTT
1 TATAGAGATATGATTT
32357 TGTAAATAGA
Statistics
Matches: 40, Mismatches: 1, Indels: 2
0.93 0.02 0.05
Matches are distributed among these distances:
25 7 0.17
27 33 0.82
ACGTcount: A:0.31, C:0.10, G:0.16, T:0.43
Consensus pattern (27 bp):
TATAGAGATATGATTTGTTACCATTCC
Found at i:34853 original size:27 final size:27
Alignment explanation
Indices: 34811--34878 Score: 113
Period size: 27 Copynumber: 2.6 Consensus size: 27
34801 GTGTAGGAAT
*
34811 TATAGAG--ATGATTTGTTACCATTCG
1 TATAGAGATATGATTTGTTACCATTCC
34836 TATAGAGATATGATTTGTTACCATTCC
1 TATAGAGATATGATTTGTTACCATTCC
34863 TATAGAGATATGATTT
1 TATAGAGATATGATTT
34879 TGTAAATAGA
Statistics
Matches: 40, Mismatches: 1, Indels: 2
0.93 0.02 0.05
Matches are distributed among these distances:
25 7 0.17
27 33 0.82
ACGTcount: A:0.31, C:0.10, G:0.18, T:0.41
Consensus pattern (27 bp):
TATAGAGATATGATTTGTTACCATTCC
Found at i:41514 original size:24 final size:23
Alignment explanation
Indices: 41458--41520 Score: 63
Period size: 24 Copynumber: 2.7 Consensus size: 23
41448 GCGACCTACC
* * *
41458 CCTCGGATGGCCTCTGTTGGATG
1 CCTCGGATGCCCTCGGTCGGATG
*
41481 CGCTCAGATGCCCTCGGTCGGATGG
1 C-CTCGGATGCCCTCGGTCGGAT-G
*
41506 CCTCGGATGCTCTCG
1 CCTCGGATGCCCTCG
41521 CATAGCTCGC
Statistics
Matches: 32, Mismatches: 6, Indels: 3
0.78 0.15 0.07
Matches are distributed among these distances:
23 1 0.03
24 29 0.91
25 2 0.06
ACGTcount: A:0.10, C:0.32, G:0.33, T:0.25
Consensus pattern (23 bp):
CCTCGGATGCCCTCGGTCGGATG
Found at i:43141 original size:23 final size:22
Alignment explanation
Indices: 43098--43143 Score: 58
Period size: 22 Copynumber: 2.0 Consensus size: 22
43088 TCAATTACAT
*
43098 TATTATTTTTAATATGTTTTGG
1 TATTATTTTTAATATCTTTTGG
43120 TATTATTTTTAGAT-TCTATTTGG
1 TATTATTTTTA-ATATCT-TTTGG
43143 T
1 T
43144 TAGAATTTAT
Statistics
Matches: 21, Mismatches: 1, Indels: 3
0.84 0.04 0.12
Matches are distributed among these distances:
22 13 0.62
23 8 0.38
ACGTcount: A:0.22, C:0.02, G:0.13, T:0.63
Consensus pattern (22 bp):
TATTATTTTTAATATCTTTTGG
Found at i:43537 original size:22 final size:21
Alignment explanation
Indices: 43502--43551 Score: 55
Period size: 22 Copynumber: 2.3 Consensus size: 21
43492 TTTATAATTT
* *
43502 ATTATTAATTTAAAGCCCTAA
1 ATTATAAATTTAAAGCCCAAA
* *
43523 ATTATAAATCTTAAATCTCAAA
1 ATTATAAAT-TTAAAGCCCAAA
43545 ATTATAA
1 ATTATAA
43552 CCTTGAACTT
Statistics
Matches: 24, Mismatches: 4, Indels: 1
0.83 0.14 0.03
Matches are distributed among these distances:
21 8 0.33
22 16 0.67
ACGTcount: A:0.48, C:0.12, G:0.02, T:0.38
Consensus pattern (21 bp):
ATTATAAATTTAAAGCCCAAA
Found at i:51451 original size:19 final size:20
Alignment explanation
Indices: 51422--51460 Score: 55
Period size: 19 Copynumber: 2.0 Consensus size: 20
51412 AAAGGAAATT
51422 GGGGCTAAAATTGAA-TTTAA
1 GGGGCTAAAA-TGAACTTTAA
51442 GGGG-TAAAATGAACTTTAA
1 GGGGCTAAAATGAACTTTAA
51461 AAAAATAAAG
Statistics
Matches: 18, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
18 4 0.22
19 10 0.56
20 4 0.22
ACGTcount: A:0.41, C:0.05, G:0.26, T:0.28
Consensus pattern (20 bp):
GGGGCTAAAATGAACTTTAA
Found at i:61570 original size:30 final size:31
Alignment explanation
Indices: 61412--61572 Score: 92
Period size: 30 Copynumber: 5.4 Consensus size: 31
61402 TTAATAAAAT
* *
61412 AAGGGACT-AAATAGTAATAAA-AGAAATTTA
1 AAGGGACTAAAATAG-AAAAAAGAGAAACTTA
* * *
61442 CA-GGACTAAAACA-ACAAAAACA-ACAACTTA
1 AAGGGACTAAAATAGA-AAAAAGAGA-AACTTA
* * * **
61472 AA-GGACCAAAATAGCAAAAA-ATAAACCCA
1 AAGGGACTAAAATAGAAAAAAGAGAAACTTA
* *
61501 AA-GGACTAATATAGAAAAAAGAGAAAGTTA
1 AAGGGACTAAAATAGAAAAAAGAGAAACTTA
*
61531 AAGTG-CTAAAATAG-AAAAAGTAGAAACTT-
1 AAGGGACTAAAATAGAAAAAAG-AGAAACTTA
61560 AAGGGACTAAAAT
1 AAGGGACTAAAAT
61573 GGTATTAATA
Statistics
Matches: 100, Mismatches: 21, Indels: 20
0.71 0.15 0.14
Matches are distributed among these distances:
28 1 0.01
29 42 0.42
30 56 0.56
31 1 0.01
ACGTcount: A:0.58, C:0.11, G:0.15, T:0.16
Consensus pattern (31 bp):
AAGGGACTAAAATAGAAAAAAGAGAAACTTA
Found at i:65157 original size:336 final size:335
Alignment explanation
Indices: 64545--65214 Score: 1288
Period size: 336 Copynumber: 2.0 Consensus size: 335
64535 TTTTAACGGT
*
64545 GTTAAAATAGAGTTGACATCAGTAAACTTTTCTAAACATTGGTTGTTACTTAAAGGAACGCAAAA
1 GTTAAAATACAGTTGACATCAGTAAACTTTTCTAAACATTGGTTGTTACTTAAAGGAACGCAAAA
64610 TAAATGTAGTTAGACGATTTTTTTTTTAAAGGGAAATTTTATATTGTATTTGAGACACAACTACA
66 TAAATGTAGTTAGACGATTTTTTTTTTAAAGGGAAATTTTATATTGTATTTGAGACACAACTACA
64675 AAACAAATAAAGATGGAGACTTATGCCTCATTAAAAAAACATTTCTGATCTTAAATGAAAGAAAA
131 AAACAAATAAAGATGGAGACTTATGCCTCATTAAAAAAACATTTCTGATCTTAAATGAAAGAAAA
64740 AGAGTGTGCCACGGAACATGGACATATAACTAGATTTTGCCCCTCACAATGATCCTAGGAACTGA
196 AGAGTGTGCCACGGAACATGGACATATAACTAGATTTTGCCCCTCACAATGATCCTAGGAACTGA
64805 CACCCGACCAACTTTTCAAACTAACTATACCCCCTAGATCAGTATACGTTACTACACCATATTAA
261 CACCCGACCAACTTTTCAAACTAACTATACCCCCTAGATCAGTATACGTTACTACACCATATTAA
64870 TAAGGGAACC
326 TAAGGGAACC
*
64880 GTTAAAATACAGTTGATATCAGTAAACTTTTCTAAACATTGGTTGTTACTTAAAGGAACGCAAAA
1 GTTAAAATACAGTTGACATCAGTAAACTTTTCTAAACATTGGTTGTTACTTAAAGGAACGCAAAA
*
64945 TAAATGTAGTTAGACGATTATTTTTTTTGAAAGGGAAATTTTGTATTGTATTTGAGACACAACTA
66 TAAATGTAGTTAGACGATT-TTTTTTTT-AAAGGGAAATTTTATATTGTATTTGAGACACAACTA
65010 CAAAACAAATAAAGATGGAGACTTATGCCTCATT-AAAAAACATTTCTGATCTTAAATGAAAGAA
129 CAAAACAAATAAAGATGGAGACTTATGCCTCATTAAAAAAACATTTCTGATCTTAAATGAAAGAA
65074 AAAGAGTGTGCCACGGAACATGGACATATAACTAGATTTTGCCCCTCACAATGATCCTAGGAACT
194 AAAGAGTGTGCCACGGAACATGGACATATAACTAGATTTTGCCCCTCACAATGATCCTAGGAACT
65139 GACACCCGACCAACTTTTCAAACTAACTATACCCCCTAGATCAGTATACGTTACTACACCATATT
259 GACACCCGACCAACTTTTCAAACTAACTATACCCCCTAGATCAGTATACGTTACTACACCATATT
65204 AATAAGGGAAC
324 AATAAGGGAAC
65215 ACAACAAAAG
Statistics
Matches: 330, Mismatches: 3, Indels: 3
0.98 0.01 0.01
Matches are distributed among these distances:
335 82 0.25
336 179 0.54
337 69 0.21
ACGTcount: A:0.39, C:0.17, G:0.15, T:0.29
Consensus pattern (335 bp):
GTTAAAATACAGTTGACATCAGTAAACTTTTCTAAACATTGGTTGTTACTTAAAGGAACGCAAAA
TAAATGTAGTTAGACGATTTTTTTTTTAAAGGGAAATTTTATATTGTATTTGAGACACAACTACA
AAACAAATAAAGATGGAGACTTATGCCTCATTAAAAAAACATTTCTGATCTTAAATGAAAGAAAA
AGAGTGTGCCACGGAACATGGACATATAACTAGATTTTGCCCCTCACAATGATCCTAGGAACTGA
CACCCGACCAACTTTTCAAACTAACTATACCCCCTAGATCAGTATACGTTACTACACCATATTAA
TAAGGGAACC
Found at i:71713 original size:51 final size:51
Alignment explanation
Indices: 71637--71745 Score: 209
Period size: 51 Copynumber: 2.1 Consensus size: 51
71627 GTGGCCCTTA
71637 GTCGCTTTGCACCATTGATGGGCGCTAAGGCATCCTTAAAGCTTAAGTTTG
1 GTCGCTTTGCACCATTGATGGGCGCTAAGGCATCCTTAAAGCTTAAGTTTG
*
71688 GTCGCTTTGCACCATTGCTGGGCGCTAAGGCATCCTTAAAGCTTAAGTTTG
1 GTCGCTTTGCACCATTGATGGGCGCTAAGGCATCCTTAAAGCTTAAGTTTG
71739 GTCGCTT
1 GTCGCTT
71746 AAGTTGTTGC
Statistics
Matches: 57, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
51 57 1.00
ACGTcount: A:0.19, C:0.23, G:0.26, T:0.32
Consensus pattern (51 bp):
GTCGCTTTGCACCATTGATGGGCGCTAAGGCATCCTTAAAGCTTAAGTTTG
Found at i:72112 original size:21 final size:21
Alignment explanation
Indices: 72086--72126 Score: 73
Period size: 21 Copynumber: 2.0 Consensus size: 21
72076 TCTGTCTCGT
72086 GCTTGGCGTGCTTTGGGGCGG
1 GCTTGGCGTGCTTTGGGGCGG
*
72107 GCTTGGTGTGCTTTGGGGCG
1 GCTTGGCGTGCTTTGGGGCG
72127 AGCCTCAGAG
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
21 19 1.00
ACGTcount: A:0.00, C:0.17, G:0.51, T:0.32
Consensus pattern (21 bp):
GCTTGGCGTGCTTTGGGGCGG
Found at i:72772 original size:17 final size:17
Alignment explanation
Indices: 72750--72783 Score: 50
Period size: 17 Copynumber: 2.0 Consensus size: 17
72740 TAAAAGTATA
72750 AAATTGTCATATATTTT
1 AAATTGTCATATATTTT
* *
72767 AAATTGTTATGTATTTT
1 AAATTGTCATATATTTT
72784 TTATTCAAAA
Statistics
Matches: 15, Mismatches: 2, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
17 15 1.00
ACGTcount: A:0.32, C:0.03, G:0.09, T:0.56
Consensus pattern (17 bp):
AAATTGTCATATATTTT
Found at i:77385 original size:7 final size:7
Alignment explanation
Indices: 77369--77414 Score: 85
Period size: 7 Copynumber: 6.7 Consensus size: 7
77359 TTCATTTTTA
77369 TGGA-AG
1 TGGAGAG
77375 TGGAGAG
1 TGGAGAG
77382 TGGAGAG
1 TGGAGAG
77389 TGGAGAG
1 TGGAGAG
77396 TGGAGAG
1 TGGAGAG
77403 TGGAGAG
1 TGGAGAG
77410 TGGAG
1 TGGAG
77415 TGTTGGAGAT
Statistics
Matches: 39, Mismatches: 0, Indels: 1
0.98 0.00 0.03
Matches are distributed among these distances:
6 4 0.10
7 35 0.90
ACGTcount: A:0.28, C:0.00, G:0.57, T:0.15
Consensus pattern (7 bp):
TGGAGAG
Found at i:77397 original size:21 final size:21
Alignment explanation
Indices: 77369--77423 Score: 85
Period size: 21 Copynumber: 2.6 Consensus size: 21
77359 TTCATTTTTA
77369 TGGA-AGTGGAGAGTGGAGAG
1 TGGAGAGTGGAGAGTGGAGAG
77389 TGGAGAGTGGAGAGTGGAGAG
1 TGGAGAGTGGAGAGTGGAGAG
*
77410 TGGAGTGTTGGAGA
1 TGGAGAG-TGGAGA
77424 TTGTTCTGCT
Statistics
Matches: 32, Mismatches: 1, Indels: 2
0.91 0.03 0.06
Matches are distributed among these distances:
20 4 0.12
21 22 0.69
22 6 0.19
ACGTcount: A:0.27, C:0.00, G:0.55, T:0.18
Consensus pattern (21 bp):
TGGAGAGTGGAGAGTGGAGAG
Found at i:77566 original size:14 final size:14
Alignment explanation
Indices: 77547--77573 Score: 54
Period size: 14 Copynumber: 1.9 Consensus size: 14
77537 CGGCAATCTA
77547 AGGTTTATAATTTG
1 AGGTTTATAATTTG
77561 AGGTTTATAATTT
1 AGGTTTATAATTT
77574 ATGATTTTAA
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 13 1.00
ACGTcount: A:0.30, C:0.00, G:0.19, T:0.52
Consensus pattern (14 bp):
AGGTTTATAATTTG
Found at i:78120 original size:13 final size:13
Alignment explanation
Indices: 78102--78146 Score: 65
Period size: 13 Copynumber: 3.5 Consensus size: 13
78092 TTCAATCAAA
78102 AAATATCTGAACT
1 AAATATCTGAACT
*
78115 AAATATCTTAA-T
1 AAATATCTGAACT
78127 GAAATATCTGAACT
1 -AAATATCTGAACT
78141 AAATAT
1 AAATAT
78147 TTTCTTTTGA
Statistics
Matches: 28, Mismatches: 2, Indels: 4
0.82 0.06 0.12
Matches are distributed among these distances:
12 1 0.04
13 26 0.93
14 1 0.04
ACGTcount: A:0.49, C:0.11, G:0.07, T:0.33
Consensus pattern (13 bp):
AAATATCTGAACT
Found at i:78590 original size:94 final size:94
Alignment explanation
Indices: 78429--78603 Score: 255
Period size: 94 Copynumber: 1.9 Consensus size: 94
78419 AGAAAATTTC
* * *
78429 CTCTTAAATTAGAATATGAAATTTAATTTTATCCACTTAGTAATTTTGTTAACGATGTTACTTTT
1 CTCTTAAATTAGAATATGAAATTTAATTTTATCCACTTAATAATTTCGTTAACGATGTTACCTTT
78494 TAAATAAA-ATAATAATATAATATATATGA
66 T-AATAAAGATAATAATATAATATATATGA
* * *
78523 CTCTTAAATTAGAATATGAAATTTAATTTTATCCGCTTAAT-ATTTCCGTTAATGATGTTTCCTT
1 CTCTTAAATTAGAATATGAAATTTAATTTTATCCACTTAATAATTT-CGTTAACGATGTTACCTT
78587 TTAATAAATGATAATAA
65 TTAATAAA-GATAATAA
78604 AGTATCTGAA
Statistics
Matches: 72, Mismatches: 6, Indels: 5
0.87 0.07 0.06
Matches are distributed among these distances:
93 10 0.14
94 55 0.76
95 7 0.10
ACGTcount: A:0.39, C:0.09, G:0.08, T:0.44
Consensus pattern (94 bp):
CTCTTAAATTAGAATATGAAATTTAATTTTATCCACTTAATAATTTCGTTAACGATGTTACCTTT
TAATAAAGATAATAATATAATATATATGA
Found at i:79723 original size:13 final size:13
Alignment explanation
Indices: 79705--79749 Score: 56
Period size: 13 Copynumber: 3.5 Consensus size: 13
79695 TCTCTCAAAA
*
79705 AAATATCTGAACT
1 AAATATCTAAACT
*
79718 AAATATCTTAA-T
1 AAATATCTAAACT
79730 GAAATATCTAAACT
1 -AAATATCTAAACT
79744 AAATAT
1 AAATAT
79750 TTTCTTTTGA
Statistics
Matches: 28, Mismatches: 2, Indels: 4
0.82 0.06 0.12
Matches are distributed among these distances:
12 1 0.04
13 26 0.93
14 1 0.04
ACGTcount: A:0.51, C:0.11, G:0.04, T:0.33
Consensus pattern (13 bp):
AAATATCTAAACT
Found at i:81602 original size:36 final size:36
Alignment explanation
Indices: 81527--81595 Score: 111
Period size: 36 Copynumber: 1.9 Consensus size: 36
81517 ATTCGATAGG
* * *
81527 TTAATTAATTGAATTGTTAAGATTAAATGGTTTCAA
1 TTAATTAACTGAACTGTTAAGATTAAACGGTTTCAA
81563 TTAATTAACTGAACTGTTAAGATTAAACGGTTT
1 TTAATTAACTGAACTGTTAAGATTAAACGGTTT
81596 TGATTAACCA
Statistics
Matches: 30, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
36 30 1.00
ACGTcount: A:0.38, C:0.06, G:0.14, T:0.42
Consensus pattern (36 bp):
TTAATTAACTGAACTGTTAAGATTAAACGGTTTCAA
Found at i:89283 original size:29 final size:29
Alignment explanation
Indices: 89212--89273 Score: 99
Period size: 29 Copynumber: 2.2 Consensus size: 29
89202 GAGTGCTTAG
*
89212 GGTCTCC-ATTTTTTCATCCTTGTAATTA
1 GGTCTCCTATTTTTTCATCCTTATAATTA
*
89240 GGTCTCCTATTTTTTCATCTTTATAATTA
1 GGTCTCCTATTTTTTCATCCTTATAATTA
89269 GGTCT
1 GGTCT
89274 TTAATTTTTT
Statistics
Matches: 31, Mismatches: 2, Indels: 1
0.91 0.06 0.03
Matches are distributed among these distances:
28 7 0.23
29 24 0.77
ACGTcount: A:0.18, C:0.19, G:0.11, T:0.52
Consensus pattern (29 bp):
GGTCTCCTATTTTTTCATCCTTATAATTA
Found at i:89292 original size:29 final size:29
Alignment explanation
Indices: 89212--89290 Score: 81
Period size: 29 Copynumber: 2.7 Consensus size: 29
89202 GAGTGCTTAG
* * *
89212 GGTCTCC-ATTTTTTCATCCTTGTAATTA
1 GGTCTCCTATTTTTTAATCTTTATAATTA
*
89240 GGTCTCCTATTTTTTCATCTTTATAATTA
1 GGTCTCCTATTTTTTAATCTTTATAATTA
*
89269 GGTCT-TTAATTTTTTAAATCTT
1 GGTCTCCT-ATTTTTT-AATCTT
89291 ATTTTTCACT
Statistics
Matches: 44, Mismatches: 4, Indels: 4
0.85 0.08 0.08
Matches are distributed among these distances:
28 8 0.18
29 31 0.70
30 5 0.11
ACGTcount: A:0.20, C:0.16, G:0.09, T:0.54
Consensus pattern (29 bp):
GGTCTCCTATTTTTTAATCTTTATAATTA
Found at i:89332 original size:43 final size:42
Alignment explanation
Indices: 89250--89362 Score: 106
Period size: 43 Copynumber: 2.6 Consensus size: 42
89240 GGTCTCCTAT
* *
89250 TTTTTCATCTTTATAATTAGGTCTTTAATTTTTTAAATCTTA
1 TTTTTCATCTTTATAATTAGGTCTCTAATTTATTAAATCTTA
* *
89292 TTTTTCA-CTTTTATAATTGAGGTC-CTAATATTATTCAATCTAA
1 TTTTTCATC-TTTATAATT-AGGTCTCTAAT-TTATTAAATCTTA
* *
89335 CATTTT-ATCTTTATAATTGAAGTCTCTA
1 -TTTTTCATCTTTATAATT-AGGTCTCTA
89363 TTTTTTTCTA
Statistics
Matches: 59, Mismatches: 6, Indels: 10
0.79 0.08 0.13
Matches are distributed among these distances:
41 1 0.02
42 20 0.34
43 30 0.51
44 8 0.14
ACGTcount: A:0.28, C:0.12, G:0.06, T:0.53
Consensus pattern (42 bp):
TTTTTCATCTTTATAATTAGGTCTCTAATTTATTAAATCTTA
Found at i:89630 original size:45 final size:44
Alignment explanation
Indices: 89343--89663 Score: 253
Period size: 44 Copynumber: 7.4 Consensus size: 44
89333 AACATTTTAT
* * * *
89343 CTTTATAATTGAAGTCTCTAT-TTTTTTCTAATC-C-CTTTTTTAC
1 CTTTATAATTGAGGCCCCTATGTTTTTT-TAATCTCAC-TTTCTAC
* * * * *
89386 CTTTATAATTTAGGCCCCTA--ATTTTGTAATCTTACTTT-TAA
1 CTTTATAATTGAGGCCCCTATGTTTTTTTAATCTCACTTTCTAC
* *** * *
89427 CTTTATAACTGAGGCTTTTAAGTTTTTTCAATCTCACTTTCTAC
1 CTTTATAATTGAGGCCCCTATGTTTTTTTAATCTCACTTTCTAC
* * ** *
89471 CTTT-TCAATTGAGTCCTCTATGTTTTTCCAATCTCAATTTCTAC
1 CTTTAT-AATTGAGGCCCCTATGTTTTTTTAATCTCACTTTCTAC
* * * * *
89515 CTTTATAATTGAGACCCCCA-ATTTTTTTAATCTCACTTTTTTAA
1 CTTTATAATTGAGGCCCCTATGTTTTTTTAATCTCAC-TTTCTAC
* * *
89559 CTTTATAATTGAGGCCCTTAAGTTTTTTTAATCTCACTTTCTAA
1 CTTTATAATTGAGGCCCCTATGTTTTTTTAATCTCACTTTCTAC
* * *
89603 CTTTCTAATTGAGGCCCCTATTTTTTTTTTAATCTCAATTTCTAC
1 CTTTATAATTGAGGCCCCTA-TGTTTTTTTAATCTCACTTTCTAC
*
89648 CTTTATAATTAAGGCC
1 CTTTATAATTGAGGCC
89664 TTTAAGTTTT
Statistics
Matches: 221, Mismatches: 47, Indels: 18
0.77 0.16 0.06
Matches are distributed among these distances:
41 22 0.10
42 7 0.03
43 44 0.20
44 98 0.44
45 50 0.23
ACGTcount: A:0.24, C:0.20, G:0.07, T:0.49
Consensus pattern (44 bp):
CTTTATAATTGAGGCCCCTATGTTTTTTTAATCTCACTTTCTAC
Found at i:90023 original size:22 final size:22
Alignment explanation
Indices: 89998--90051 Score: 56
Period size: 21 Copynumber: 2.5 Consensus size: 22
89988 AAAAGTTTAA
*
89998 TAATTTTTCTAAAATATTAAAT
1 TAATTTTTCTAAAATATTAAAG
* * *
90020 TAATTGTT-TAAAGTATTTAAG
1 TAATTTTTCTAAAATATTAAAG
90041 TATATTTTTCT
1 TA-ATTTTTCT
90052 TTAATCATGA
Statistics
Matches: 25, Mismatches: 5, Indels: 3
0.76 0.15 0.09
Matches are distributed among these distances:
21 12 0.48
22 12 0.48
23 1 0.04
ACGTcount: A:0.37, C:0.04, G:0.06, T:0.54
Consensus pattern (22 bp):
TAATTTTTCTAAAATATTAAAG
Found at i:91036 original size:24 final size:23
Alignment explanation
Indices: 90991--91042 Score: 68
Period size: 24 Copynumber: 2.2 Consensus size: 23
90981 AAAATGAATG
* **
90991 TTAAACGAACACGTTCGTGAACA
1 TTAAACGAACACATTCACGAACA
91014 TATAAACGAACACATTCACGAACA
1 T-TAAACGAACACATTCACGAACA
91038 TTAAA
1 TTAAA
91043 TAAATAAATA
Statistics
Matches: 25, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
23 5 0.20
24 20 0.80
ACGTcount: A:0.46, C:0.21, G:0.12, T:0.21
Consensus pattern (23 bp):
TTAAACGAACACATTCACGAACA
Found at i:95111 original size:57 final size:57
Alignment explanation
Indices: 95018--95128 Score: 186
Period size: 57 Copynumber: 1.9 Consensus size: 57
95008 GTTTTGTAAC
*
95018 TTATAATTCTCAAGTGAAACAATGAAGTAGAGGCTTATAAATAAATAGACTTGTCAT
1 TTATAATTCTCAAGTAAAACAATGAAGTAGAGGCTTATAAATAAATAGACTTGTCAT
* * *
95075 TTATGATTCTCAAGTAAAACAATGAAGTAGAGGCTTATAAATGAATAGATTTGT
1 TTATAATTCTCAAGTAAAACAATGAAGTAGAGGCTTATAAATAAATAGACTTGT
95129 AAAAAGGATG
Statistics
Matches: 50, Mismatches: 4, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
57 50 1.00
ACGTcount: A:0.41, C:0.09, G:0.17, T:0.32
Consensus pattern (57 bp):
TTATAATTCTCAAGTAAAACAATGAAGTAGAGGCTTATAAATAAATAGACTTGTCAT
Found at i:95507 original size:19 final size:19
Alignment explanation
Indices: 95472--95509 Score: 51
Period size: 19 Copynumber: 2.0 Consensus size: 19
95462 TGAAATAGCC
*
95472 ATTGCATGCCTTCTGATTT
1 ATTGCATGCATTCTGATTT
95491 ATTGCCATGCATT-TGATTT
1 ATTG-CATGCATTCTGATTT
95510 GCATTATCTT
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
19 10 0.59
20 7 0.41
ACGTcount: A:0.18, C:0.18, G:0.16, T:0.47
Consensus pattern (19 bp):
ATTGCATGCATTCTGATTT
Found at i:97576 original size:29 final size:29
Alignment explanation
Indices: 97519--97583 Score: 76
Period size: 29 Copynumber: 2.2 Consensus size: 29
97509 TTTTGTCTTT
* **
97519 TGTGGTATTTATATTTTCAAAATGTCTAA
1 TGTGGTGTTTATATTTTCAAAATACCTAA
* *
97548 TGTGGTGTTTATATTTTTAAATTACCTAA
1 TGTGGTGTTTATATTTTCAAAATACCTAA
*
97577 AGTGGTG
1 TGTGGTG
97584 CATGAAATTT
Statistics
Matches: 30, Mismatches: 6, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
29 30 1.00
ACGTcount: A:0.28, C:0.06, G:0.18, T:0.48
Consensus pattern (29 bp):
TGTGGTGTTTATATTTTCAAAATACCTAA
Found at i:99643 original size:5 final size:5
Alignment explanation
Indices: 99633--99695 Score: 126
Period size: 5 Copynumber: 12.6 Consensus size: 5
99623 TAATCTAGTA
99633 TGATT TGATT TGATT TGATT TGATT TGATT TGATT TGATT TGATT TGATT
1 TGATT TGATT TGATT TGATT TGATT TGATT TGATT TGATT TGATT TGATT
99683 TGATT TGATT TGA
1 TGATT TGATT TGA
99696 AAGGTATATA
Statistics
Matches: 58, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 58 1.00
ACGTcount: A:0.21, C:0.00, G:0.21, T:0.59
Consensus pattern (5 bp):
TGATT
Found at i:102011 original size:14 final size:14
Alignment explanation
Indices: 101992--102019 Score: 56
Period size: 14 Copynumber: 2.0 Consensus size: 14
101982 ATTATTGTGT
101992 GATGGCTAAAGTGG
1 GATGGCTAAAGTGG
102006 GATGGCTAAAGTGG
1 GATGGCTAAAGTGG
102020 AGGGCTGCTA
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 14 1.00
ACGTcount: A:0.29, C:0.07, G:0.43, T:0.21
Consensus pattern (14 bp):
GATGGCTAAAGTGG
Found at i:104111 original size:17 final size:17
Alignment explanation
Indices: 104089--104161 Score: 92
Period size: 17 Copynumber: 4.0 Consensus size: 17
104079 TTCGGTTTGC
104089 AAAAAACCGGTTTTTTA
1 AAAAAACCGGTTTTTTA
*
104106 AAAAAACTGGATTTTTTCGGA
1 AAAAAACCGG-TTTTTT---A
104127 TAAAAAACCGGTTTTTTA
1 -AAAAAACCGGTTTTTTA
104145 AAAAAACCGGTTTTTTA
1 AAAAAACCGGTTTTTTA
104162 TCCGGTTTGA
Statistics
Matches: 49, Mismatches: 2, Indels: 10
0.80 0.03 0.16
Matches are distributed among these distances:
17 26 0.53
18 7 0.14
21 7 0.14
22 9 0.18
ACGTcount: A:0.40, C:0.11, G:0.14, T:0.36
Consensus pattern (17 bp):
AAAAAACCGGTTTTTTA
Found at i:104135 original size:39 final size:43
Alignment explanation
Indices: 104089--104185 Score: 139
Period size: 39 Copynumber: 2.3 Consensus size: 43
104079 TTCGGTTTGC
*
104089 AAAAAACCGGTTTTTTAAAAAAACTGGATTTTT-T-CGG-AT-
1 AAAAAACCGGTTTTTTAAAAAAACCGGATTTTTATCCGGTATG
* *
104128 AAAAAACCGGTTTTTTAAAAAAACCGGTTTTTTATCCGGTTTG
1 AAAAAACCGGTTTTTTAAAAAAACCGGATTTTTATCCGGTATG
104171 AAAAAACCGGTTTTT
1 AAAAAACCGGTTTTT
104186 AATCCGGTAA
Statistics
Matches: 51, Mismatches: 3, Indels: 4
0.88 0.05 0.07
Matches are distributed among these distances:
39 31 0.61
40 1 0.02
41 3 0.06
42 1 0.02
43 15 0.29
ACGTcount: A:0.36, C:0.12, G:0.15, T:0.36
Consensus pattern (43 bp):
AAAAAACCGGTTTTTTAAAAAAACCGGATTTTTATCCGGTATG
Found at i:104198 original size:24 final size:25
Alignment explanation
Indices: 104142--104203 Score: 90
Period size: 26 Copynumber: 2.5 Consensus size: 25
104132 AACCGGTTTT
*
104142 TTAAAAAAACCGGTTTTTTATCCGG
1 TTAAAAAAACCGGTTTTTAATCCGG
*
104167 TTTGAAAAAACCGGTTTTTAATCCGG
1 -TTAAAAAAACCGGTTTTTAATCCGG
104193 -TAAAAAAACCG
1 TTAAAAAAACCG
104204 ATCGTTCAAT
Statistics
Matches: 33, Mismatches: 3, Indels: 2
0.87 0.08 0.05
Matches are distributed among these distances:
24 10 0.30
26 23 0.70
ACGTcount: A:0.37, C:0.16, G:0.16, T:0.31
Consensus pattern (25 bp):
TTAAAAAAACCGGTTTTTAATCCGG
Found at i:115210 original size:35 final size:35
Alignment explanation
Indices: 115171--115286 Score: 94
Period size: 35 Copynumber: 3.2 Consensus size: 35
115161 AAATATTGAA
115171 ATAAAAAAATTAATCTTATTAAGTTAGACCATATC
1 ATAAAAAAATTAATCTTATTAAGTTAGACCATATC
* * ** * *
115206 ATAAAAATAA-TAATTTTTATATTAAATATTTA--ATTTTAA
1 ATAAAAA-AATTAA--TCT-TATTAAGT-TAGACCA-TAT-C
115245 ATAAAAAAATTAATCTTATTAAGTTAGACCATATC
1 ATAAAAAAATTAATCTTATTAAGTTAGACCATATC
115280 ATAAAAA
1 ATAAAAA
115287 TAATAAATTT
Statistics
Matches: 59, Mismatches: 12, Indels: 20
0.65 0.13 0.22
Matches are distributed among these distances:
35 19 0.32
36 11 0.19
37 6 0.10
38 11 0.19
39 12 0.20
ACGTcount: A:0.52, C:0.07, G:0.03, T:0.38
Consensus pattern (35 bp):
ATAAAAAAATTAATCTTATTAAGTTAGACCATATC
Found at i:115214 original size:41 final size:41
Alignment explanation
Indices: 115169--115289 Score: 107
Period size: 41 Copynumber: 3.1 Consensus size: 41
115159 TTAAATATTG
115169 AAATAAAAAAATTAATCTTATTAAGTTAGACCATATCATAA
1 AAATAAAAAAATTAATCTTATTAAGTTAGACCATATCATAA
* ** * * **
115210 AAAT--AATAATT--T-TTA-T-A-TTA-AATATTTAATTTT
1 AAATAAAAAAATTAATCTTATTAAGTTAGACCATATCA-TAA
115243 AAATAAAAAAATTAATCTTATTAAGTTAGACCATATCATAA
1 AAATAAAAAAATTAATCTTATTAAGTTAGACCATATCATAA
115284 AAATAA
1 AAATAA
115290 TAAATTTTAT
Statistics
Matches: 56, Mismatches: 14, Indels: 20
0.62 0.16 0.22
Matches are distributed among these distances:
32 5 0.09
33 8 0.14
34 1 0.02
35 7 0.12
36 3 0.05
37 2 0.04
38 3 0.05
39 7 0.12
40 1 0.02
41 14 0.25
42 5 0.09
ACGTcount: A:0.53, C:0.07, G:0.03, T:0.37
Consensus pattern (41 bp):
AAATAAAAAAATTAATCTTATTAAGTTAGACCATATCATAA
Found at i:115254 original size:74 final size:74
Alignment explanation
Indices: 115169--115317 Score: 289
Period size: 74 Copynumber: 2.0 Consensus size: 74
115159 TTAAATATTG
*
115169 AAATAAAAAAATTAATCTTATTAAGTTAGACCATATCATAAAAATAATAATTTTTATATTAAATA
1 AAATAAAAAAATTAATCTTATTAAGTTAGACCATATCATAAAAATAATAAATTTTATATTAAATA
115234 TTTAATTTT
66 TTTAATTTT
115243 AAATAAAAAAATTAATCTTATTAAGTTAGACCATATCATAAAAATAATAAATTTTATATTAAATA
1 AAATAAAAAAATTAATCTTATTAAGTTAGACCATATCATAAAAATAATAAATTTTATATTAAATA
115308 TTTAATTTT
66 TTTAATTTT
115317 A
1 A
115318 TTGTATTTTT
Statistics
Matches: 74, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
74 74 1.00
ACGTcount: A:0.51, C:0.05, G:0.03, T:0.41
Consensus pattern (74 bp):
AAATAAAAAAATTAATCTTATTAAGTTAGACCATATCATAAAAATAATAAATTTTATATTAAATA
TTTAATTTT
Found at i:130002 original size:13 final size:13
Alignment explanation
Indices: 129984--130106 Score: 69
Period size: 13 Copynumber: 9.4 Consensus size: 13
129974 CAAAAATTAT
129984 ATTATAATAAATA
1 ATTATAATAAATA
129997 ATTATAAT-AATA
1 ATTATAATAAATA
*
130009 A-TA-AGT-AATA
1 ATTATAATAAATA
* *
130019 A-TATTAATTATTA
1 ATTA-TAATAAATA
*
130032 AATATAATAAATA
1 ATTATAATAAATA
*
130045 ATTAAAATATAATA
1 ATTATAATA-AATA
130059 ATATATCAATATAATA
1 AT-TAT-AATA-AATA
*
130075 ATTAAAATAGAA-A
1 ATTATAATA-AATA
* *
130088 TTTATAAAAAAATA
1 ATTAT-AATAAATA
130102 ATTAT
1 ATTAT
130107 GATATATTTT
Statistics
Matches: 87, Mismatches: 14, Indels: 17
0.74 0.12 0.14
Matches are distributed among these distances:
10 9 0.10
11 2 0.02
12 7 0.08
13 32 0.37
14 22 0.25
15 4 0.05
16 11 0.13
ACGTcount: A:0.60, C:0.01, G:0.02, T:0.37
Consensus pattern (13 bp):
ATTATAATAAATA
Found at i:130006 original size:3 final size:3
Alignment explanation
Indices: 129987--130076 Score: 55
Period size: 3 Copynumber: 29.7 Consensus size: 3
129977 AAATTATATT
* * * *
129987 ATA ATAA ATA ATT ATA ATA ATA ATA AGTA ATA ATA TTA ATT ATT A-A
1 ATA AT-A ATA ATA ATA ATA ATA ATA A-TA ATA ATA ATA ATA ATA ATA
130033 AT- ATA ATAA ATA ATTA A-A AT- ATA ATA ATA TATCA AT- ATA ATA AT
1 ATA ATA AT-A ATA A-TA ATA ATA ATA ATA ATA -AT-A ATA ATA ATA AT
130077 TAAAATAGAA
Statistics
Matches: 70, Mismatches: 6, Indels: 22
0.71 0.06 0.22
Matches are distributed among these distances:
2 9 0.13
3 44 0.63
4 16 0.23
5 1 0.01
ACGTcount: A:0.60, C:0.01, G:0.01, T:0.38
Consensus pattern (3 bp):
ATA
Found at i:130008 original size:16 final size:16
Alignment explanation
Indices: 129987--130106 Score: 64
Period size: 16 Copynumber: 7.9 Consensus size: 16
129977 AAATTATATT
129987 ATAATAAATAATTATA
1 ATAATAAATAATTATA
*
130003 ATAAT-AATAAGTAATA
1 ATAATAAATAA-TTATA
* * *
130019 AT-ATTAATTATTAAA
1 ATAATAAATAATTATA
*
130034 TATAATAAATAATTAAA
1 -ATAATAAATAATTATA
130051 AT-AT-AATAA-TAT-
1 ATAATAAATAATTATA
*
130063 ATCAATATAATAATTAAA
1 AT-AATA-AATAATTATA
*
130081 AT-AGAAAT--TTATA
1 ATAATAAATAATTATA
130094 A-AA-AAATAATTAT
1 ATAATAAATAATTAT
130107 GATATATTTT
Statistics
Matches: 81, Mismatches: 10, Indels: 28
0.68 0.08 0.24
Matches are distributed among these distances:
12 6 0.07
13 8 0.10
14 11 0.14
15 15 0.19
16 26 0.32
17 13 0.16
18 2 0.02
ACGTcount: A:0.61, C:0.01, G:0.02, T:0.37
Consensus pattern (16 bp):
ATAATAAATAATTATA
Found at i:130083 original size:48 final size:48
Alignment explanation
Indices: 129986--130080 Score: 133
Period size: 48 Copynumber: 2.0 Consensus size: 48
129976 AAAATTATAT
* *
129986 TATAATAAATAATTATAATAATAATAAGTAATAATATTAATTATTAAA
1 TATAATAAATAATTAAAATAATAATAAGTAATAATATTAATAATTAAA
130034 TATAATAAATAATTAAAAT-ATAATAA-TATATCAATA-TAATAATTAAA
1 TATAATAAATAATTAAAATAATAATAAGTA-AT-AATATTAATAATTAAA
130081 ATAGAAATTT
Statistics
Matches: 43, Mismatches: 2, Indels: 5
0.86 0.04 0.10
Matches are distributed among these distances:
46 2 0.05
47 19 0.44
48 22 0.51
ACGTcount: A:0.60, C:0.01, G:0.01, T:0.38
Consensus pattern (48 bp):
TATAATAAATAATTAAAATAATAATAAGTAATAATATTAATAATTAAA
Found at i:130156 original size:161 final size:161
Alignment explanation
Indices: 129975--130451 Score: 732
Period size: 161 Copynumber: 3.0 Consensus size: 161
129965 CGCACCATTC
* *
129975 AAAAATTATATTATAATAAATAATTATAATAATAATAAGTAATAATATTAATTATTAAATATAAT
1 AAAAATTATATTATAATAAATAATTATAATAATAATAATTAATAATATTAATTATAAAATATAAT
* *
130040 AAATAATTAAAATATAATAATATATCAATATAATAATTAAAATAGAAATTTATA-AAAAAATAAT
66 AAATAATTAAAATATAATAATATATAAATATAGTAATTAAAATAGAAATTTATATAAAAAATAAT
*
130104 TATGATATATTTTGTAAAATTTGAAATAATG
131 TATAATATATTTTGTAAAATTTGAAATAATG
* * *
130135 AAAATTTTATATTATAATAAATAAATA-AACTATTAATAATTAATAATATTAATTATAAAATATA
1 AAAA-ATTATATTATAATAAATAATTATAA-TAATAATAATTAATAATATTAATTATAAAATATA
*
130199 ATAAATAATTAAAATATAATAATATATAAATATAGTAATTAAAATAGATATTT-TATAAAAAATA
64 ATAAATAATTAAAATATAATAATATATAAATATAGTAATTAAAATAGAAATTTATATAAAAAATA
130263 ATTATAATATATTTTGTAAAA-TTGAAATAATG
129 ATTATAATATATTTTGTAAAATTTGAAATAATG
* * * * *
130295 AAAAATTATATTATAATAAATGATTGTAATAATAATAATTCATAATATTAATTATCAAATAGAAT
1 AAAAATTATATTATAATAAATAATTATAATAATAATAATTAATAATATTAATTATAAAATATAAT
* *
130360 AAATAATTAAAATATAATAATATATAAATATAGTAATCAAAATAGATATTTTATATAAAAAA-AA
66 AAATAATTAAAATATAATAATATATAAATATAGTAATTAAAATAGA-AATTTATATAAAAAATAA
130424 TTATAATATATTTTG-AAAATTTTGAAAT
130 TTATAATATATTTTGTAAAA-TTTGAAAT
130452 TTAAATTTGA
Statistics
Matches: 289, Mismatches: 20, Indels: 15
0.89 0.06 0.05
Matches are distributed among these distances:
159 99 0.34
160 45 0.16
161 145 0.50
ACGTcount: A:0.57, C:0.01, G:0.04, T:0.39
Consensus pattern (161 bp):
AAAAATTATATTATAATAAATAATTATAATAATAATAATTAATAATATTAATTATAAAATATAAT
AAATAATTAAAATATAATAATATATAAATATAGTAATTAAAATAGAAATTTATATAAAAAATAAT
TATAATATATTTTGTAAAATTTGAAATAATG
Found at i:130186 original size:16 final size:15
Alignment explanation
Indices: 130154--130244 Score: 71
Period size: 16 Copynumber: 5.9 Consensus size: 15
130144 TATTATAATA
* *
130154 AATAAATAAACTATT
1 AATAATTAAAATATT
130169 AATAATTAATAATATT
1 AATAATTAA-AATATT
*
130185 AATTA-TAAAATATAAT
1 AATAATTAAAATAT--T
130201 AAATAATTAAAATA-T
1 -AATAATTAAAATATT
130216 AATAATATATAAATA-T
1 AATAAT-TA-AAATATT
*
130232 AGTAATTAAAATA
1 AATAATTAAAATA
130245 GATATTTTAT
Statistics
Matches: 64, Mismatches: 5, Indels: 15
0.76 0.06 0.18
Matches are distributed among these distances:
14 16 0.25
15 16 0.25
16 21 0.33
17 4 0.06
18 7 0.11
ACGTcount: A:0.62, C:0.01, G:0.01, T:0.36
Consensus pattern (15 bp):
AATAATTAAAATATT
Found at i:130207 original size:20 final size:18
Alignment explanation
Indices: 130147--130220 Score: 63
Period size: 18 Copynumber: 4.4 Consensus size: 18
130137 AATTTTATAT
* *
130147 TATAATAAATAAATAAAC
1 TATAATAAATAATTAAAA
130165 TAT--T-AATAATTAATAA
1 TATAATAAATAATTAA-AA
*
130181 TAT--T-AATTA-TAAAA
1 TATAATAAATAATTAAAA
130195 TATAATAAATAATTAAAA
1 TATAATAAATAATTAAAA
130213 TATAATAA
1 TATAATAA
130221 TATATAAATA
Statistics
Matches: 47, Mismatches: 4, Indels: 10
0.77 0.07 0.16
Matches are distributed among these distances:
14 5 0.11
15 11 0.23
16 11 0.23
17 4 0.09
18 16 0.34
ACGTcount: A:0.62, C:0.01, G:0.00, T:0.36
Consensus pattern (18 bp):
TATAATAAATAATTAAAA
Found at i:130219 original size:40 final size:40
Alignment explanation
Indices: 130153--130232 Score: 103
Period size: 40 Copynumber: 2.0 Consensus size: 40
130143 ATATTATAAT
*
130153 AAATAAATAAACTATTAATAATTAATAATAT-TAATTATA
1 AAATAAATAAACTATTAATAATTAATAATATATAAATATA
130192 AAATATAATAAA-TAATTAA-AATATAATAATATATAAATATA
1 AAATA-AATAAACT-ATTAATAAT-TAATAATATATAAATATA
130233 GTAATTAAAA
Statistics
Matches: 36, Mismatches: 1, Indels: 6
0.84 0.02 0.14
Matches are distributed among these distances:
39 9 0.25
40 20 0.56
41 7 0.19
ACGTcount: A:0.62, C:0.01, G:0.00, T:0.36
Consensus pattern (40 bp):
AAATAAATAAACTATTAATAATTAATAATATATAAATATA
Found at i:130390 original size:16 final size:14
Alignment explanation
Indices: 130357--130403 Score: 51
Period size: 14 Copynumber: 3.3 Consensus size: 14
130347 TATCAAATAG
130357 AATA-AATAATTAA
1 AATATAATAATTAA
130370 AATATAATAATATATA
1 AATATAATAAT-TA-A
* *
130386 AATATAGTAATCAA
1 AATATAATAATTAA
130400 AATA
1 AATA
130404 GATATTTTAT
Statistics
Matches: 29, Mismatches: 2, Indels: 5
0.81 0.06 0.14
Matches are distributed among these distances:
13 4 0.14
14 11 0.38
15 3 0.10
16 11 0.38
ACGTcount: A:0.64, C:0.02, G:0.02, T:0.32
Consensus pattern (14 bp):
AATATAATAATTAA
Found at i:140844 original size:13 final size:13
Alignment explanation
Indices: 140826--140850 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
140816 TTCCAACCCG
140826 ACCCGACCCGTTT
1 ACCCGACCCGTTT
140839 ACCCGACCCGTT
1 ACCCGACCCGTT
140851 GACCGATGTT
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:0.48, G:0.16, T:0.20
Consensus pattern (13 bp):
ACCCGACCCGTTT
Found at i:143371 original size:24 final size:24
Alignment explanation
Indices: 143289--143371 Score: 87
Period size: 24 Copynumber: 3.5 Consensus size: 24
143279 AAATATTTTA
* * *
143289 TCTGATTTCCGACTTGAATTCTGT
1 TCTGATATCTGACCTGAATTCTGT
143313 TCTGATA-CATGACCTGAATTCTGT
1 TCTGATATC-TGACCTGAATTCTGT
* * * *
143337 TATGATTTCTGATCTGGATTCTGT
1 TCTGATATCTGACCTGAATTCTGT
143361 TCTGATATCTG
1 TCTGATATCTG
143372 TTATGAATTC
Statistics
Matches: 48, Mismatches: 9, Indels: 4
0.79 0.15 0.07
Matches are distributed among these distances:
23 1 0.02
24 46 0.96
25 1 0.02
ACGTcount: A:0.19, C:0.18, G:0.18, T:0.45
Consensus pattern (24 bp):
TCTGATATCTGACCTGAATTCTGT
Found at i:143381 original size:24 final size:24
Alignment explanation
Indices: 143303--143382 Score: 90
Period size: 24 Copynumber: 3.3 Consensus size: 24
143293 ATTTCCGACT
*
143303 TGAATTCTGTTCTGATA-CATGACC
1 TGAATTCTGTTCTGATATC-TGATC
* *
143327 TGAATTCTGTTATGATTTCTGATC
1 TGAATTCTGTTCTGATATCTGATC
* * *
143351 TGGATTCTGTTCTGATATCTGTTA
1 TGAATTCTGTTCTGATATCTGATC
143375 TGAATTCT
1 TGAATTCT
143383 ATTTTGATTT
Statistics
Matches: 46, Mismatches: 9, Indels: 2
0.81 0.16 0.04
Matches are distributed among these distances:
24 45 0.98
25 1 0.02
ACGTcount: A:0.21, C:0.15, G:0.17, T:0.46
Consensus pattern (24 bp):
TGAATTCTGTTCTGATATCTGATC
Found at i:145489 original size:18 final size:18
Alignment explanation
Indices: 145466--145504 Score: 78
Period size: 18 Copynumber: 2.2 Consensus size: 18
145456 ACCGGTTCCA
145466 ACCCGACCCGACCCGTTG
1 ACCCGACCCGACCCGTTG
145484 ACCCGACCCGACCCGTTG
1 ACCCGACCCGACCCGTTG
145502 ACC
1 ACC
145505 GTTAACCGGT
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
18 21 1.00
ACGTcount: A:0.18, C:0.51, G:0.21, T:0.10
Consensus pattern (18 bp):
ACCCGACCCGACCCGTTG
Found at i:146930 original size:24 final size:23
Alignment explanation
Indices: 146872--146993 Score: 113
Period size: 24 Copynumber: 5.1 Consensus size: 23
146862 TCAAAACATA
* *
146872 AATCAGGTCAAGTATCATATCA-
1 AATCAAGTCAAGTATCAGATCAG
* *
146894 AACTCCAGATCAAGTATCATATCAG
1 AA-TCAAG-TCAAGTATCAGATCAG
146919 AATACAAGTCAAGTATCAGATCAG
1 AAT-CAAGTCAAGTATCAGATCAG
* *
146943 AATCTATGTC-AGATATCAGATTAG
1 AATC-AAGTCAAG-TATCAGATCAG
*
146967 AATCCATGTCAAGTATCAGATCAG
1 AAT-CAAGTCAAGTATCAGATCAG
146991 AAT
1 AAT
146994 TCAAATCGAA
Statistics
Matches: 85, Mismatches: 7, Indels: 14
0.80 0.07 0.13
Matches are distributed among these distances:
22 2 0.02
23 6 0.07
24 69 0.81
25 8 0.09
ACGTcount: A:0.41, C:0.18, G:0.15, T:0.26
Consensus pattern (23 bp):
AATCAAGTCAAGTATCAGATCAG
Found at i:147009 original size:48 final size:48
Alignment explanation
Indices: 146917--147011 Score: 113
Period size: 48 Copynumber: 2.0 Consensus size: 48
146907 GTATCATATC
** *
146917 AGAATACAAGTCAAGTATCAGATCAGAATCTATGTCAGATATCAGATT
1 AGAATACAAGTCAAGTATCAGATCAGAATCTAAATCAGAAATCAGATT
* *
146965 AGAATCCATGTCAAGTATCAGATCAGAAT-TCAAATC-GAAAATCAGAT
1 AGAATACAAGTCAAGTATCAGATCAGAATCT-AAATCAG-AAATCAGAT
147012 AAAATTTTCA
Statistics
Matches: 40, Mismatches: 5, Indels: 4
0.82 0.10 0.08
Matches are distributed among these distances:
47 2 0.05
48 38 0.95
ACGTcount: A:0.43, C:0.16, G:0.16, T:0.25
Consensus pattern (48 bp):
AGAATACAAGTCAAGTATCAGATCAGAATCTAAATCAGAAATCAGATT
Found at i:149493 original size:18 final size:18
Alignment explanation
Indices: 149470--149509 Score: 71
Period size: 18 Copynumber: 2.2 Consensus size: 18
149460 ACGGGTCAAA
149470 GGGTCGGGTCAACAGGTC
1 GGGTCGGGTCAACAGGTC
*
149488 GGGTCGGGTCAACGGGTC
1 GGGTCGGGTCAACAGGTC
149506 GGGT
1 GGGT
149510 AAACGGGTCT
Statistics
Matches: 21, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
18 21 1.00
ACGTcount: A:0.12, C:0.20, G:0.50, T:0.17
Consensus pattern (18 bp):
GGGTCGGGTCAACAGGTC
Found at i:149503 original size:13 final size:13
Alignment explanation
Indices: 149487--149518 Score: 55
Period size: 13 Copynumber: 2.5 Consensus size: 13
149477 GTCAACAGGT
*
149487 CGGGTCGGGTCAA
1 CGGGTCGGGTAAA
149500 CGGGTCGGGTAAA
1 CGGGTCGGGTAAA
149513 CGGGTC
1 CGGGTC
149519 TGGTTATGAC
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
13 18 1.00
ACGTcount: A:0.16, C:0.22, G:0.47, T:0.16
Consensus pattern (13 bp):
CGGGTCGGGTAAA
Found at i:150437 original size:36 final size:36
Alignment explanation
Indices: 150390--150462 Score: 137
Period size: 36 Copynumber: 2.0 Consensus size: 36
150380 AGTTCTGGAA
150390 TTAAGTAATAAAAGAATCAGCCATGGATATGTAGAT
1 TTAAGTAATAAAAGAATCAGCCATGGATATGTAGAT
*
150426 TTAAGTGATAAAAGAATCAGCCATGGATATGTAGAT
1 TTAAGTAATAAAAGAATCAGCCATGGATATGTAGAT
150462 T
1 T
150463 ATAATTTATC
Statistics
Matches: 36, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
36 36 1.00
ACGTcount: A:0.42, C:0.08, G:0.21, T:0.29
Consensus pattern (36 bp):
TTAAGTAATAAAAGAATCAGCCATGGATATGTAGAT
Found at i:152132 original size:12 final size:12
Alignment explanation
Indices: 152112--152169 Score: 71
Period size: 12 Copynumber: 4.8 Consensus size: 12
152102 GATACATGAC
152112 CTGAATTCTGTT
1 CTGAATTCTGTT
* *
152124 CTGATTTCTGAT
1 CTGAATTCTGTT
*
152136 CTGGATTCTGTT
1 CTGAATTCTGTT
152148 CTGAATTCTGTT
1 CTGAATTCTGTT
* *
152160 TTGATTTCTG
1 CTGAATTCTG
152170 ATATCTCCGT
Statistics
Matches: 38, Mismatches: 8, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
12 38 1.00
ACGTcount: A:0.14, C:0.16, G:0.19, T:0.52
Consensus pattern (12 bp):
CTGAATTCTGTT
Found at i:154820 original size:21 final size:21
Alignment explanation
Indices: 154746--154822 Score: 56
Period size: 21 Copynumber: 3.8 Consensus size: 21
154736 TGATTATTAT
*
154746 ATTA-TTATTTTATTTAAG-A
1 ATTAGTTATTTTATTTTAGAA
*
154765 ATTAGTTATTTTA--TTAGGACT
1 ATTAGTTATTTTATTTTA-GA-A
* *
154786 TTTAGTT-TGATTATTTTAGAA
1 ATTAGTTAT-TTTATTTTAGAA
154807 ATTAGTTATTTTATTT
1 ATTAGTTATTTTATTT
154823 ATTTAGAACT
Statistics
Matches: 43, Mismatches: 7, Indels: 14
0.67 0.11 0.22
Matches are distributed among these distances:
18 2 0.05
19 5 0.12
20 9 0.21
21 21 0.49
22 3 0.07
23 3 0.07
ACGTcount: A:0.30, C:0.01, G:0.10, T:0.58
Consensus pattern (21 bp):
ATTAGTTATTTTATTTTAGAA
Found at i:155562 original size:18 final size:18
Alignment explanation
Indices: 155534--155582 Score: 55
Period size: 18 Copynumber: 2.6 Consensus size: 18
155524 TGAGGCTATA
155534 TCATATTTATTTAATTCTTC
1 TCAT-TTTATTT-ATTCTTC
*
155554 T-ATTTTATTTATTTTTC
1 TCATTTTATTTATTCTTC
155571 TCATTATTATTT
1 TCATT-TTATTT
155583 TTATTCAATA
Statistics
Matches: 26, Mismatches: 1, Indels: 5
0.81 0.03 0.16
Matches are distributed among these distances:
17 7 0.27
18 10 0.38
19 8 0.31
20 1 0.04
ACGTcount: A:0.22, C:0.10, G:0.00, T:0.67
Consensus pattern (18 bp):
TCATTTTATTTATTCTTC
Found at i:155571 original size:17 final size:17
Alignment explanation
Indices: 155539--155603 Score: 60
Period size: 18 Copynumber: 3.6 Consensus size: 17
155529 CTATATCATA
*
155539 TTTATTTAATTCTTCTAT
1 TTTATTT-ATTTTTCTAT
155557 TTTATTTATTTTTCTCAT
1 TTTATTTATTTTTCT-AT
* *
155575 TATTATTT-TTATTCAAT
1 T-TTATTTATTTTTCTAT
155592 ATTTATTTATTT
1 -TTTATTTATTT
155604 ATTTTTAATT
Statistics
Matches: 39, Mismatches: 4, Indels: 8
0.76 0.08 0.16
Matches are distributed among these distances:
17 15 0.38
18 18 0.46
19 6 0.15
ACGTcount: A:0.23, C:0.08, G:0.00, T:0.69
Consensus pattern (17 bp):
TTTATTTATTTTTCTAT
Found at i:168028 original size:3 final size:3
Alignment explanation
Indices: 168022--168064 Score: 70
Period size: 3 Copynumber: 14.3 Consensus size: 3
168012 GAAAGAAGAA
168022 GAG GAG GAG GAG AGAG GA- GAG GAG GAG GAG GAG GAG GAG GAG G
1 GAG GAG GAG GAG -GAG GAG GAG GAG GAG GAG GAG GAG GAG GAG G
168065 GTGTTACGGG
Statistics
Matches: 38, Mismatches: 0, Indels: 4
0.90 0.00 0.10
Matches are distributed among these distances:
2 2 0.05
3 33 0.87
4 3 0.08
ACGTcount: A:0.35, C:0.00, G:0.65, T:0.00
Consensus pattern (3 bp):
GAG
Found at i:168034 original size:21 final size:21
Alignment explanation
Indices: 168010--168054 Score: 63
Period size: 21 Copynumber: 2.1 Consensus size: 21
168000 TACTTGAGAA
168010 GAGAAAGAAGAAGAGGAGGAG
1 GAGAAAGAAGAAGAGGAGGAG
* * *
168031 GAGAGAGGAGAGGAGGAGGAG
1 GAGAAAGAAGAAGAGGAGGAG
168052 GAG
1 GAG
168055 GAGGAGGAGG
Statistics
Matches: 21, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
21 21 1.00
ACGTcount: A:0.44, C:0.00, G:0.56, T:0.00
Consensus pattern (21 bp):
GAGAAAGAAGAAGAGGAGGAG
Found at i:170844 original size:13 final size:13
Alignment explanation
Indices: 170826--170854 Score: 58
Period size: 13 Copynumber: 2.2 Consensus size: 13
170816 CCACCGTACT
170826 CCGCCGCCGGCCA
1 CCGCCGCCGGCCA
170839 CCGCCGCCGGCCA
1 CCGCCGCCGGCCA
170852 CCG
1 CCG
170855 TAACGGTGGT
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 16 1.00
ACGTcount: A:0.07, C:0.62, G:0.31, T:0.00
Consensus pattern (13 bp):
CCGCCGCCGGCCA
Found at i:171137 original size:14 final size:14
Alignment explanation
Indices: 171118--171144 Score: 54
Period size: 14 Copynumber: 1.9 Consensus size: 14
171108 TCCTCTTTGT
171118 TTTTTTTTTTTCTG
1 TTTTTTTTTTTCTG
171132 TTTTTTTTTTTCT
1 TTTTTTTTTTTCT
171145 TTCTCTGCCG
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 13 1.00
ACGTcount: A:0.00, C:0.07, G:0.04, T:0.89
Consensus pattern (14 bp):
TTTTTTTTTTTCTG
Found at i:171151 original size:20 final size:20
Alignment explanation
Indices: 171103--171151 Score: 59
Period size: 18 Copynumber: 2.5 Consensus size: 20
171093 CTCTGTTCGG
171103 TTCTTTCCTCT-TTGTTTTTT
1 TTCTTT-CTCTGTTGTTTTTT
*
171123 TT-TTT-TCTGTTTTTTTTT
1 TTCTTTCTCTGTTGTTTTTT
171141 TTCTTTCTCTG
1 TTCTTTCTCTG
171152 CCGTTTCCTC
Statistics
Matches: 25, Mismatches: 1, Indels: 6
0.78 0.03 0.19
Matches are distributed among these distances:
17 3 0.12
18 10 0.40
19 6 0.24
20 6 0.24
ACGTcount: A:0.00, C:0.16, G:0.06, T:0.78
Consensus pattern (20 bp):
TTCTTTCTCTGTTGTTTTTT
Found at i:171543 original size:3 final size:3
Alignment explanation
Indices: 171535--171693 Score: 246
Period size: 3 Copynumber: 51.7 Consensus size: 3
171525 AATTATTTAT
171535 TAA TAA TAA TAA TATA TAA TTAA TAA TAA TAA TAA TAA TAA TATA TAA
1 TAA TAA TAA TAA TA-A TAA -TAA TAA TAA TAA TAA TAA TAA TA-A TAA
* * *
171583 TAA TAA TTA TAA TAA TAA TAC TAA TAA TATA TAA TAC TAA TAA TAA
1 TAA TAA TAA TAA TAA TAA TAA TAA TAA TA-A TAA TAA TAA TAA TAA
*
171629 TAA TAA TAA TAA TAA TAG TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA
1 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA
171677 TAA TAA TAA TAA TAA TA
1 TAA TAA TAA TAA TAA TA
171694 TGGATAAAAA
Statistics
Matches: 144, Mismatches: 8, Indels: 8
0.90 0.05 0.05
Matches are distributed among these distances:
3 132 0.92
4 12 0.08
ACGTcount: A:0.62, C:0.01, G:0.01, T:0.36
Consensus pattern (3 bp):
TAA
Found at i:172254 original size:113 final size:113
Alignment explanation
Indices: 172012--172786 Score: 1407
Period size: 113 Copynumber: 6.9 Consensus size: 113
172002 AGAATTATGC
* * * *
172012 AAAAAGTTGAACAAGTTCTTCTTATTATGAACTTCTTCTTTCC-TCTTCAAATGAGTTCTTCTCA
1 AAAAGGTTGAACAAATTCTTCTCATTATGAACTTCTTC-TTCCTTCTTCAGATGAGTTCTTCTCA
* * * *
172076 TTATGAAC-TTCTCTGGAAAAGATAATCCATCAATTGATGAATTCAGGC
65 TTATGAACTTTCTCTGGAAAAGATGATCCATCAAATGATGGATTCAGGT
172124 AAAAGGTTGAACAAATTCTTCTCATTATGAACTTCTTCTTCCTTCTTCAGATGAGTTCTTCTCAT
1 AAAAGGTTGAACAAATTCTTCTCATTATGAACTTCTTCTTCCTTCTTCAGATGAGTTCTTCTCAT
172189 TATGAACTTTCTCTGGAAAAGATGATCCATCAAATGATGGATTCAGGT
66 TATGAACTTTCTCTGGAAAAGATGATCCATCAAATGATGGATTCAGGT
172237 AAAAGGTTGAACAAATTCTTCTCATTATGAACTTCTTCTTCCTTCTTCAGATGAGTTC-T-TCAT
1 AAAAGGTTGAACAAATTCTTCTCATTATGAACTTCTTCTTCCTTCTTCAGATGAGTTCTTCTCAT
*
172300 TATGAACTTTCTCTGGAAAGGATGATCCATCAAATGATGGATTCAGGT
66 TATGAACTTTCTCTGGAAAAGATGATCCATCAAATGATGGATTCAGGT
172348 AAAAGGTTGAACAAATTC-TCTCATTATGAACTTCTTCTTCCTTCTTCAGATGAGTTCTTCTCAT
1 AAAAGGTTGAACAAATTCTTCTCATTATGAACTTCTTCTTCCTTCTTCAGATGAGTTCTTCTCAT
172412 TATGAACTTTCTCTGGAAAAGATGATCCATCAAATGATGGATTCAGGT
66 TATGAACTTTCTCTGGAAAAGATGATCCATCAAATGATGGATTCAGGT
172460 AAAAGGTTGAACAAATTCTTCTCATTATGAACTTCTTCTTCCTTCTTCAGATGAGTTCTTCTCAT
1 AAAAGGTTGAACAAATTCTTCTCATTATGAACTTCTTCTTCCTTCTTCAGATGAGTTCTTCTCAT
*
172525 TATGAACTTTCTCTGGAAAGGATGATCCATCAAATGATGGATTCAGGT
66 TATGAACTTTCTCTGGAAAAGATGATCCATCAAATGATGGATTCAGGT
172573 AAAAGGTTGAACAAATTCTTCTCATTATGAACTTCTTCTTCCTTCTTCAGATGAGTTCTTCTCAT
1 AAAAGGTTGAACAAATTCTTCTCATTATGAACTTCTTCTTCCTTCTTCAGATGAGTTCTTCTCAT
172638 TATGAACTTTCTCTGGAAAAGATGATCCATCAAATGATGGATTCAGGT
66 TATGAACTTTCTCTGGAAAAGATGATCCATCAAATGATGGATTCAGGT
172686 AAAAGGTTGAACAAATTCTTCTCATTATGAACTTCTTCTTCCTTCTTCAGATGAGTTCTTCTCAT
1 AAAAGGTTGAACAAATTCTTCTCATTATGAACTTCTTCTTCCTTCTTCAGATGAGTTCTTCTCAT
*
172751 TATGAACTTTCTCTGGAAAGGATGATCCATCAAATG
66 TATGAACTTTCTCTGGAAAAGATGATCCATCAAATG
172787 GATTCGAAAT
Statistics
Matches: 645, Mismatches: 13, Indels: 9
0.97 0.02 0.01
Matches are distributed among these distances:
110 39 0.06
111 74 0.11
112 133 0.21
113 399 0.62
ACGTcount: A:0.29, C:0.19, G:0.15, T:0.37
Consensus pattern (113 bp):
AAAAGGTTGAACAAATTCTTCTCATTATGAACTTCTTCTTCCTTCTTCAGATGAGTTCTTCTCAT
TATGAACTTTCTCTGGAAAAGATGATCCATCAAATGATGGATTCAGGT
Found at i:172466 original size:336 final size:339
Alignment explanation
Indices: 172012--172786 Score: 1407
Period size: 336 Copynumber: 2.3 Consensus size: 339
172002 AGAATTATGC
* * * *
172012 AAAAAGTTGAACAAGTTCTTCTTATTATGAACTTCTTCTTTCC-TCTTCAAATGAGTTCTTCTCA
1 AAAAGGTTGAACAAATTCTTCTCATTATGAACTTCTTC-TTCCTTCTTCAGATGAGTTCTTCTCA
* *
172076 TTATGAAC-TTCTCTGGAAAAGATAATCCATCAATTGATGAATTCAGGCAAAAGGTTGAACAAAT
65 TTATGAACTTTCTCTGGAAAAGATGATCCATCAAATGATGAATTCAGGCAAAAGGTTGAACAAAT
172140 TCTTCTCATTATGAACTTCTTCTTCCTTCTTCAGATGAGTTCTTCTCATTATGAACTTTCTCTGG
130 TCTTCTCATTATGAACTTCTTCTTCCTTCTTCAGATGAGTTCTTCTCATTATGAACTTTCTCTGG
172205 AAAAGATGATCCATCAAATGATGGATTCAGGTAAAAGGTTGAACAAATTCTTCTCATTATGAACT
195 AAAAGATGATCCATCAAATGATGGATTCAGGTAAAAGGTTGAACAAATTCTTCTCATTATGAACT
*
172270 TCTTCTTCCTTCTTCAGATGAGTTC-T-TCATTATGAACTTTCTCTGGAAAGGATGATCCATCAA
260 TCTTCTTCCTTCTTCAGATGAGTTCTTCTCATTATGAACTTTCTCTGGAAAAGATGATCCATCAA
172333 ATGATGGATTCAGGT
325 ATGATGGATTCAGGT
172348 AAAAGGTTGAACAAATTC-TCTCATTATGAACTTCTTCTTCCTTCTTCAGATGAGTTCTTCTCAT
1 AAAAGGTTGAACAAATTCTTCTCATTATGAACTTCTTCTTCCTTCTTCAGATGAGTTCTTCTCAT
* *
172412 TATGAACTTTCTCTGGAAAAGATGATCCATCAAATGATGGATTCAGGTAAAAGGTTGAACAAATT
66 TATGAACTTTCTCTGGAAAAGATGATCCATCAAATGATGAATTCAGGCAAAAGGTTGAACAAATT
172477 CTTCTCATTATGAACTTCTTCTTCCTTCTTCAGATGAGTTCTTCTCATTATGAACTTTCTCTGGA
131 CTTCTCATTATGAACTTCTTCTTCCTTCTTCAGATGAGTTCTTCTCATTATGAACTTTCTCTGGA
*
172542 AAGGATGATCCATCAAATGATGGATTCAGGTAAAAGGTTGAACAAATTCTTCTCATTATGAACTT
196 AAAGATGATCCATCAAATGATGGATTCAGGTAAAAGGTTGAACAAATTCTTCTCATTATGAACTT
172607 CTTCTTCCTTCTTCAGATGAGTTCTTCTCATTATGAACTTTCTCTGGAAAAGATGATCCATCAAA
261 CTTCTTCCTTCTTCAGATGAGTTCTTCTCATTATGAACTTTCTCTGGAAAAGATGATCCATCAAA
172672 TGATGGATTCAGGT
326 TGATGGATTCAGGT
172686 AAAAGGTTGAACAAATTCTTCTCATTATGAACTTCTTCTTCCTTCTTCAGATGAGTTCTTCTCAT
1 AAAAGGTTGAACAAATTCTTCTCATTATGAACTTCTTCTTCCTTCTTCAGATGAGTTCTTCTCAT
*
172751 TATGAACTTTCTCTGGAAAGGATGATCCATCAAATG
66 TATGAACTTTCTCTGGAAAAGATGATCCATCAAATG
172787 GATTCGAAAT
Statistics
Matches: 423, Mismatches: 11, Indels: 7
0.96 0.02 0.02
Matches are distributed among these distances:
334 4 0.01
335 46 0.11
336 222 0.52
337 1 0.00
338 69 0.16
339 81 0.19
ACGTcount: A:0.29, C:0.19, G:0.15, T:0.37
Consensus pattern (339 bp):
AAAAGGTTGAACAAATTCTTCTCATTATGAACTTCTTCTTCCTTCTTCAGATGAGTTCTTCTCAT
TATGAACTTTCTCTGGAAAAGATGATCCATCAAATGATGAATTCAGGCAAAAGGTTGAACAAATT
CTTCTCATTATGAACTTCTTCTTCCTTCTTCAGATGAGTTCTTCTCATTATGAACTTTCTCTGGA
AAAGATGATCCATCAAATGATGGATTCAGGTAAAAGGTTGAACAAATTCTTCTCATTATGAACTT
CTTCTTCCTTCTTCAGATGAGTTCTTCTCATTATGAACTTTCTCTGGAAAAGATGATCCATCAAA
TGATGGATTCAGGT
Found at i:183494 original size:13 final size:13
Alignment explanation
Indices: 183476--183517 Score: 84
Period size: 13 Copynumber: 3.2 Consensus size: 13
183466 CCACCGTACT
183476 CCGCCGCCGGCCA
1 CCGCCGCCGGCCA
183489 CCGCCGCCGGCCA
1 CCGCCGCCGGCCA
183502 CCGCCGCCGGCCA
1 CCGCCGCCGGCCA
183515 CCG
1 CCG
183518 TAACGGTGGT
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 29 1.00
ACGTcount: A:0.07, C:0.62, G:0.31, T:0.00
Consensus pattern (13 bp):
CCGCCGCCGGCCA
Found at i:183792 original size:17 final size:16
Alignment explanation
Indices: 183772--183813 Score: 57
Period size: 16 Copynumber: 2.6 Consensus size: 16
183762 TATTCGGTTC
183772 TTTCCTCTCTGTTTTTT
1 TTTCCT-TCTGTTTTTT
*
183789 TTTCGTTCTGTTTTTT
1 TTTCCTTCTGTTTTTT
*
183805 TTTCTTTCT
1 TTTCCTTCT
183814 CTGCCGTTTC
Statistics
Matches: 23, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
16 18 0.78
17 5 0.22
ACGTcount: A:0.00, C:0.19, G:0.07, T:0.74
Consensus pattern (16 bp):
TTTCCTTCTGTTTTTT
Found at i:183800 original size:16 final size:16
Alignment explanation
Indices: 183779--183813 Score: 61
Period size: 16 Copynumber: 2.2 Consensus size: 16
183769 TTCTTTCCTC
183779 TCTGTTTTTTTTTCGT
1 TCTGTTTTTTTTTCGT
*
183795 TCTGTTTTTTTTTCTT
1 TCTGTTTTTTTTTCGT
183811 TCT
1 TCT
183814 CTGCCGTTTC
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
16 18 1.00
ACGTcount: A:0.00, C:0.14, G:0.09, T:0.77
Consensus pattern (16 bp):
TCTGTTTTTTTTTCGT
Found at i:183816 original size:18 final size:17
Alignment explanation
Indices: 183772--183808 Score: 58
Period size: 16 Copynumber: 2.2 Consensus size: 17
183762 TATTCGGTTC
*
183772 TTTCCTCTCTGTTTTTT
1 TTTCGTCTCTGTTTTTT
183789 TTTCGT-TCTGTTTTTT
1 TTTCGTCTCTGTTTTTT
183805 TTTC
1 TTTC
183809 TTTCTCTGCC
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
16 14 0.74
17 5 0.26
ACGTcount: A:0.00, C:0.19, G:0.08, T:0.73
Consensus pattern (17 bp):
TTTCGTCTCTGTTTTTT
Found at i:184215 original size:3 final size:3
Alignment explanation
Indices: 184207--184371 Score: 276
Period size: 3 Copynumber: 54.3 Consensus size: 3
184197 TTATTTATTA
*
184207 AAT AAT AAT AAT ATAT AAT ATT AAT AAT AAT AAAT AAT AAT AAT AAT
1 AAT AAT AAT AAT A-AT AAT AAT AAT AAT AAT -AAT AAT AAT AAT AAT
* *
184254 AAT AAT AAT AAT AAT AAT ACT AAT AAT AAT AAT AAT ACT AAT AAT AAT
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT
*
184302 AAT AAT AAT AAT AGT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT
184350 AAT AAT AAT AAT AAT AAT AAT A
1 AAT AAT AAT AAT AAT AAT AAT A
184372 TGGATAAAAA
Statistics
Matches: 152, Mismatches: 8, Indels: 4
0.93 0.05 0.02
Matches are distributed among these distances:
3 146 0.96
4 6 0.04
ACGTcount: A:0.64, C:0.01, G:0.01, T:0.34
Consensus pattern (3 bp):
AAT
Found at i:187620 original size:21 final size:20
Alignment explanation
Indices: 187596--187690 Score: 93
Period size: 21 Copynumber: 4.5 Consensus size: 20
187586 TCCAGCAAAG
187596 GATCGATCCCTCGAGATAAAA
1 GATCGATCCCTCGAGA-AAAA
* *
187617 GATCGATCCCATGGAGAAAAG
1 GATCGATCCC-TCGAGAAAAA
*
187638 GATCGATCCCTTGGAGAAAAA
1 GATCGATCCC-TCGAGAAAAA
*
187659 GATCAATCCCTCGA-AAGAAA
1 GATCGATCCCTCGAGAA-AAA
*
187679 TGATTGATCCCT
1 -GATCGATCCCT
187691 TATCTATTTT
Statistics
Matches: 63, Mismatches: 8, Indels: 6
0.82 0.10 0.08
Matches are distributed among these distances:
19 2 0.03
20 6 0.10
21 50 0.79
22 5 0.08
ACGTcount: A:0.37, C:0.22, G:0.21, T:0.20
Consensus pattern (20 bp):
GATCGATCCCTCGAGAAAAA
Found at i:187633 original size:22 final size:20
Alignment explanation
Indices: 187596--187669 Score: 94
Period size: 21 Copynumber: 3.5 Consensus size: 20
187586 TCCAGCAAAG
*
187596 GATCGATCCCTCGAGATAAAA
1 GATCGATCCCTGGAGA-AAAA
*
187617 GATCGATCCCATGGAGAAAAG
1 GATCGATCCC-TGGAGAAAAA
187638 GATCGATCCCTTGGAGAAAAA
1 GATCGATCCC-TGGAGAAAAA
*
187659 GATCAATCCCT
1 GATCGATCCCT
187670 CGAAAGAAAT
Statistics
Matches: 47, Mismatches: 5, Indels: 3
0.85 0.09 0.05
Matches are distributed among these distances:
20 1 0.02
21 41 0.87
22 5 0.11
ACGTcount: A:0.36, C:0.23, G:0.22, T:0.19
Consensus pattern (20 bp):
GATCGATCCCTGGAGAAAAA
Found at i:188808 original size:45 final size:44
Alignment explanation
Indices: 188707--188811 Score: 115
Period size: 44 Copynumber: 2.4 Consensus size: 44
188697 TGCAAGGTGC
* *
188707 CGATGTTGTGTGACCCGGACCTAGCCTAAGGTATTGGGAGGTGT
1 CGATGTTGTGTGACCCGGACCTAGCCTAAGATATTGGGAGATGT
* * * *
188751 CGATGCTATGTGACCTGGACCTCA-CCTGAGATACTTGGGAGATGAT
1 CGATGTTGTGTGACCCGGACCT-AGCCTAAGATA-TTGGGAGATG-T
188797 -GATGTTGTGTGACCC
1 CGATGTTGTGTGACCC
188812 AGGTCTACCC
Statistics
Matches: 49, Mismatches: 9, Indels: 5
0.78 0.14 0.08
Matches are distributed among these distances:
44 26 0.53
45 22 0.45
46 1 0.02
ACGTcount: A:0.20, C:0.20, G:0.32, T:0.28
Consensus pattern (44 bp):
CGATGTTGTGTGACCCGGACCTAGCCTAAGATATTGGGAGATGT
Found at i:196927 original size:12 final size:12
Alignment explanation
Indices: 196912--196936 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
196902 GTCACTGCAA
196912 TGTTATAATGAG
1 TGTTATAATGAG
196924 TGTTATAATGAG
1 TGTTATAATGAG
196936 T
1 T
196937 TTGACAAATT
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:0.00, G:0.24, T:0.44
Consensus pattern (12 bp):
TGTTATAATGAG
Found at i:196990 original size:31 final size:30
Alignment explanation
Indices: 196942--197026 Score: 100
Period size: 31 Copynumber: 2.7 Consensus size: 30
196932 TGAGTTTGAC
* *
196942 AAATTTAGTGATCATTTTGTAAATGTTTGATA
1 AAATTTAATGATCATTTTGTAAA--TTAGATA
*
196974 AAATTTAATGAT-ATTTTATAGCAATTAGATA
1 AAATTTAATGATCATTTTGTA--AATTAGATA
197005 AAATTTAATGATCATTTTGTAA
1 AAATTTAATGATCATTTTGTAA
197027 CTTCTAAAAG
Statistics
Matches: 46, Mismatches: 4, Indels: 8
0.79 0.07 0.14
Matches are distributed among these distances:
30 1 0.02
31 25 0.54
32 18 0.39
33 2 0.04
ACGTcount: A:0.40, C:0.04, G:0.12, T:0.45
Consensus pattern (30 bp):
AAATTTAATGATCATTTTGTAAATTAGATA
Found at i:199252 original size:21 final size:20
Alignment explanation
Indices: 199228--199325 Score: 79
Period size: 21 Copynumber: 4.8 Consensus size: 20
199218 TCAGTTTCCA
*
199228 AAAATCGCAACGCGATTCTTG
1 AAAATCGCAACGCGATT-TTC
* * *
199249 AAAATCGCAATGCGATAGTAC
1 AAAATCGCAACGCGAT-TTTC
* **
199270 AAATTCGCATTGCGATTTTCC
1 AAAATCGCAACGCGATTTT-C
* * *
199291 AAAATCGCAACGCGAATATG
1 AAAATCGCAACGCGATTTTC
199311 AAAATCGCAACGCGA
1 AAAATCGCAACGCGA
199326 ACACATAAAT
Statistics
Matches: 61, Mismatches: 14, Indels: 5
0.76 0.17 0.06
Matches are distributed among these distances:
20 16 0.26
21 45 0.74
ACGTcount: A:0.38, C:0.22, G:0.18, T:0.21
Consensus pattern (20 bp):
AAAATCGCAACGCGATTTTC
Found at i:199278 original size:42 final size:41
Alignment explanation
Indices: 199228--199325 Score: 103
Period size: 42 Copynumber: 2.4 Consensus size: 41
199218 TCAGTTTCCA
* *
199228 AAAATCGCAACGCGATTCTT-GAAAATCGCAATGCG-ATA-G
1 AAAATCGCAACGCGATT-TTCCAAAATCGCAACGCGAATATG
**
199267 TACAAATTCGCATTGCGATTTTCCAAAATCGCAACGCGAATATG
1 -A-AAA-TCGCAACGCGATTTTCCAAAATCGCAACGCGAATATG
199311 AAAATCGCAACGCGA
1 AAAATCGCAACGCGA
199326 ACACATAAAT
Statistics
Matches: 47, Mismatches: 6, Indels: 9
0.76 0.10 0.15
Matches are distributed among these distances:
40 1 0.02
41 14 0.30
42 27 0.57
43 4 0.09
44 1 0.02
ACGTcount: A:0.38, C:0.22, G:0.18, T:0.21
Consensus pattern (41 bp):
AAAATCGCAACGCGATTTTCCAAAATCGCAACGCGAATATG
Found at i:199354 original size:20 final size:20
Alignment explanation
Indices: 199292--199485 Score: 212
Period size: 20 Copynumber: 9.7 Consensus size: 20
199282 CGATTTTCCA
* ** *
199292 AAATCGCAACGCGAATATGA
1 AAATCGCAACGCGTATCCGT
* *
199312 AAATCGCAACGCG-AACACAT
1 AAATCGCAACGCGTATC-CGT
199332 AAATCGCAACGCGTATCCGT
1 AAATCGCAACGCGTATCCGT
*
199352 AAATCGCAACGTGTATCCGT
1 AAATCGCAACGCGTATCCGT
**
199372 AAATCGCAACGCGTATGGGT
1 AAATCGCAACGCGTATCCGT
* *
199392 AAATCGTAATGCGTATCCGT
1 AAATCGCAACGCGTATCCGT
*
199412 ATATCGCAACGCGTATCCGT
1 AAATCGCAACGCGTATCCGT
* * *
199432 AAATCGCAACG-ATAATACAT
1 AAATCGCAACGCGT-ATCCGT
199452 AAAATCGCAACGCGTATCCGT
1 -AAATCGCAACGCGTATCCGT
199473 AAATCGCAACGCG
1 AAATCGCAACGCG
199486 ATATTTAAAG
Statistics
Matches: 144, Mismatches: 25, Indels: 10
0.80 0.14 0.06
Matches are distributed among these distances:
19 2 0.01
20 124 0.86
21 17 0.12
22 1 0.01
ACGTcount: A:0.36, C:0.25, G:0.20, T:0.20
Consensus pattern (20 bp):
AAATCGCAACGCGTATCCGT
Found at i:199376 original size:60 final size:60
Alignment explanation
Indices: 199292--199485 Score: 244
Period size: 60 Copynumber: 3.2 Consensus size: 60
199282 CGATTTTCCA
* ** * *
199292 AAATCGCAACGCGAATATGAAAATCGCAACGCGAACACATAAATCGCAACGCGTATCCGT
1 AAATCGCAACGCGTATCCGTAAATCGCAACGCGAATACATAAATCGCAACGCGTATCCGT
* * *** * *
199352 AAATCGCAACGTGTATCCGTAAATCGCAACGCGTATGGGTAAATCGTAATGCGTATCCGT
1 AAATCGCAACGCGTATCCGTAAATCGCAACGCGAATACATAAATCGCAACGCGTATCCGT
* **
199412 ATATCGCAACGCGTATCCGTAAATCGCAACGATAATACATAAAATCGCAACGCGTATCCGT
1 AAATCGCAACGCGTATCCGTAAATCGCAACGCGAATACAT-AAATCGCAACGCGTATCCGT
199473 AAATCGCAACGCG
1 AAATCGCAACGCG
199486 ATATTTAAAG
Statistics
Matches: 110, Mismatches: 23, Indels: 1
0.82 0.17 0.01
Matches are distributed among these distances:
60 80 0.73
61 30 0.27
ACGTcount: A:0.36, C:0.25, G:0.20, T:0.20
Consensus pattern (60 bp):
AAATCGCAACGCGTATCCGTAAATCGCAACGCGAATACATAAATCGCAACGCGTATCCGT
Found at i:199907 original size:33 final size:33
Alignment explanation
Indices: 199868--199938 Score: 108
Period size: 33 Copynumber: 2.2 Consensus size: 33
199858 TTCACTTAGA
199868 TTTCATTTCGCGTTACGATTCTGC-CGTTGCGAT
1 TTTCATTTCGCGTTACGATTCT-CTCGTTGCGAT
* *
199901 TTTCATTTCGCGTTGCTATTCTCTCGTTGCGAT
1 TTTCATTTCGCGTTACGATTCTCTCGTTGCGAT
199934 TTTCA
1 TTTCA
199939 AGTTAGTATT
Statistics
Matches: 35, Mismatches: 2, Indels: 2
0.90 0.05 0.05
Matches are distributed among these distances:
32 1 0.03
33 34 0.97
ACGTcount: A:0.11, C:0.24, G:0.18, T:0.46
Consensus pattern (33 bp):
TTTCATTTCGCGTTACGATTCTCTCGTTGCGAT
Found at i:200075 original size:41 final size:41
Alignment explanation
Indices: 200017--200094 Score: 147
Period size: 41 Copynumber: 1.9 Consensus size: 41
200007 TTGCAGAAGA
*
200017 GTCGCAACGAGATAAATGAAAATCGCAACGAGAGAATGACT
1 GTCGCAACGAGAGAAATGAAAATCGCAACGAGAGAATGACT
200058 GTCGCAACGAGAGAAATGAAAATCGCAACGAGAGAAT
1 GTCGCAACGAGAGAAATGAAAATCGCAACGAGAGAAT
200095 CGCAACGCGA
Statistics
Matches: 36, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
41 36 1.00
ACGTcount: A:0.45, C:0.17, G:0.26, T:0.13
Consensus pattern (41 bp):
GTCGCAACGAGAGAAATGAAAATCGCAACGAGAGAATGACT
Found at i:200091 original size:21 final size:21
Alignment explanation
Indices: 200018--200093 Score: 109
Period size: 21 Copynumber: 3.7 Consensus size: 21
200008 TGCAGAAGAG
*
200018 TCGCAACGAGATAAATGAAAA
1 TCGCAACGAGAGAAATGAAAA
***
200039 TCGCAACGAGAG-AATGACTG
1 TCGCAACGAGAGAAATGAAAA
200059 TCGCAACGAGAGAAATGAAAA
1 TCGCAACGAGAGAAATGAAAA
200080 TCGCAACGAGAGAA
1 TCGCAACGAGAGAA
200094 TCGCAACGCG
Statistics
Matches: 47, Mismatches: 7, Indels: 2
0.84 0.12 0.04
Matches are distributed among these distances:
20 17 0.36
21 30 0.64
ACGTcount: A:0.46, C:0.17, G:0.25, T:0.12
Consensus pattern (21 bp):
TCGCAACGAGAGAAATGAAAA
Found at i:202040 original size:93 final size:93
Alignment explanation
Indices: 201881--202256 Score: 736
Period size: 93 Copynumber: 4.1 Consensus size: 93
201871 TAGATTGCTT
*
201881 AGTAAATTTATTCGGTTGCTGCCAATTCTGCTAAACTGTGTATTCTTTAACACTGTGAAATAGTA
1 AGTAAATTTGTTCGGTTGCTGCCAATTCTGCTAAACTGTGTATTCTTTAACACTGTGAAATAGTA
201946 TTTGTCTTTGTTTTGTCTTTTGGTTGAA
66 TTTGTCTTTGTTTTGTCTTTTGGTTGAA
201974 AGTAAATTTGTTCGGTTGCTGCCAATTCTGCTAAACTGTGTATTCTTTAACACTGTGAAATAGTA
1 AGTAAATTTGTTCGGTTGCTGCCAATTCTGCTAAACTGTGTATTCTTTAACACTGTGAAATAGTA
202039 TTTGTCTTTGTTTTGTCTTTTGGTTGAA
66 TTTGTCTTTGTTTTGTCTTTTGGTTGAA
202067 AGTAAATTTGTTCGGTTGCTGCCAATTCTGCTAAACTGTGTATTCTTTAACACTGTGAAATAGTA
1 AGTAAATTTGTTCGGTTGCTGCCAATTCTGCTAAACTGTGTATTCTTTAACACTGTGAAATAGTA
202132 TTTGTCTTTGTTTTGTCTTTTGGTTGAA
66 TTTGTCTTTGTTTTGTCTTTTGGTTGAA
202160 AGTAAATTTGTTCGGTTGCTGCCAATTCTGCTAAACTGTGTATTCTTTAACACTGTGAAATAGTA
1 AGTAAATTTGTTCGGTTGCTGCCAATTCTGCTAAACTGTGTATTCTTTAACACTGTGAAATAGTA
202225 TTTGTCTTTGTTTTGTCTTTTGGTTG-A
66 TTTGTCTTTGTTTTGTCTTTTGGTTGAA
202252 AGTAA
1 AGTAA
202257 TGCAATCCAT
Statistics
Matches: 282, Mismatches: 1, Indels: 1
0.99 0.00 0.00
Matches are distributed among these distances:
92 6 0.02
93 276 0.98
ACGTcount: A:0.22, C:0.13, G:0.19, T:0.46
Consensus pattern (93 bp):
AGTAAATTTGTTCGGTTGCTGCCAATTCTGCTAAACTGTGTATTCTTTAACACTGTGAAATAGTA
TTTGTCTTTGTTTTGTCTTTTGGTTGAA
Found at i:202344 original size:19 final size:19
Alignment explanation
Indices: 202304--202432 Score: 125
Period size: 19 Copynumber: 7.3 Consensus size: 19
202294 TAGTTTACTT
* *
202304 TCGCAACACGAAACTTAAAA
1 TCGCAACGCGAAAC-CAAAA
202324 TCGCAACGCGAAACCAAAA
1 TCGCAACGCGAAACCAAAA
**
202343 TCGCAACGCGAAATGAAAA
1 TCGCAACGCGAAACCAAAA
*
202362 TCGCAA--CG--A-CAGAA
1 TCGCAACGCGAAACCAAAA
202376 TCGCAACGCGAAACCAAAA
1 TCGCAACGCGAAACCAAAA
*
202395 TCGCAA--CG--A-CAAGA
1 TCGCAACGCGAAACCAAAA
202409 TCGCAACGCGAAACCAAAA
1 TCGCAACGCGAAACCAAAA
202428 TCGCA
1 TCGCA
202433 TTGCGATTTC
Statistics
Matches: 90, Mismatches: 9, Indels: 21
0.75 0.08 0.17
Matches are distributed among these distances:
14 19 0.21
15 2 0.02
16 4 0.04
17 4 0.04
18 2 0.02
19 46 0.51
20 13 0.14
ACGTcount: A:0.46, C:0.29, G:0.17, T:0.09
Consensus pattern (19 bp):
TCGCAACGCGAAACCAAAA
Found at i:202383 original size:33 final size:32
Alignment explanation
Indices: 202340--202432 Score: 150
Period size: 33 Copynumber: 2.8 Consensus size: 32
202330 CGCGAAACCA
**
202340 AAATCGCAACGCGAAATGAAAATCGCAACGAC
1 AAATCGCAACGCGAAACCAAAATCGCAACGAC
202372 AGAATCGCAACGCGAAACCAAAATCGCAACGAC
1 A-AATCGCAACGCGAAACCAAAATCGCAACGAC
202405 AAGATCGCAACGCGAAACCAAAATCGCA
1 AA-ATCGCAACGCGAAACCAAAATCGCA
202433 TTGCGATTTC
Statistics
Matches: 57, Mismatches: 2, Indels: 3
0.92 0.03 0.05
Matches are distributed among these distances:
32 2 0.04
33 55 0.96
ACGTcount: A:0.46, C:0.28, G:0.18, T:0.08
Consensus pattern (32 bp):
AAATCGCAACGCGAAACCAAAATCGCAACGAC
Found at i:202430 original size:52 final size:52
Alignment explanation
Indices: 202304--202432 Score: 140
Period size: 52 Copynumber: 2.5 Consensus size: 52
202294 TAGTTTACTT
**
202304 TCGCAACACGAAACTTAAAATCGCAACGCGAAACCAAAATCGCAACGCGAAA
1 TCGCAACACGAAACACAAAATCGCAACGCGAAACCAAAATCGCAACGCGAAA
* * *
202356 T-G-AAAATCGCAACGACAGAATCGCAACGCGAAACCAAAATCGCAACGAC-AAGA
1 TCGCAACA-CGAAAC-ACAAAATCGCAACGCGAAACCAAAATCGCAACG-CGAA-A
*
202409 TCGCAACGCGAAAC-CAAAATCGCA
1 TCGCAACACGAAACACAAAATCGCA
202433 TTGCGATTTC
Statistics
Matches: 62, Mismatches: 9, Indels: 12
0.75 0.11 0.14
Matches are distributed among these distances:
50 3 0.05
51 6 0.10
52 42 0.68
53 3 0.05
54 6 0.10
55 2 0.03
ACGTcount: A:0.46, C:0.29, G:0.17, T:0.09
Consensus pattern (52 bp):
TCGCAACACGAAACACAAAATCGCAACGCGAAACCAAAATCGCAACGCGAAA
Found at i:202463 original size:19 final size:19
Alignment explanation
Indices: 202428--202547 Score: 117
Period size: 19 Copynumber: 6.6 Consensus size: 19
202418 GAAACCAAAA
*
202428 TCGCATTGCGA-TTTCATT
1 TCGCGTTGCGATTTTCATT
202446 TCGCGTTGCGATTTTCATT
1 TCGCGTTGCGATTTTCATT
* *
202465 TCGCATTGCGA--TTC-TG
1 TCGCGTTGCGATTTTCATT
202481 T--CGTTGCGATTTTCATT
1 TCGCGTTGCGATTTTCATT
* **
202498 TCTCGTTGCGATTTTGGTT
1 TCGCGTTGCGATTTTCATT
*
202517 TCGCGTTGCGATTTTAAGTT
1 TCGCGTTGCGATTTTCA-TT
*
202537 TCGTGTTGCGA
1 TCGCGTTGCGA
202548 AAGTAAACTA
Statistics
Matches: 84, Mismatches: 11, Indels: 12
0.79 0.10 0.11
Matches are distributed among these distances:
14 7 0.08
16 5 0.06
17 5 0.06
18 10 0.12
19 45 0.54
20 12 0.14
ACGTcount: A:0.12, C:0.19, G:0.23, T:0.46
Consensus pattern (19 bp):
TCGCGTTGCGATTTTCATT
Found at i:202978 original size:21 final size:21
Alignment explanation
Indices: 202954--202994 Score: 55
Period size: 21 Copynumber: 2.0 Consensus size: 21
202944 GTCATCCCTC
* *
202954 AAGAGTCCACTCCTATCATTG
1 AAGAGGCCACCCCTATCATTG
*
202975 AAGAGGCCCCCCCTATCATT
1 AAGAGGCCACCCCTATCATT
202995 CCTCGAGAGT
Statistics
Matches: 17, Mismatches: 3, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
21 17 1.00
ACGTcount: A:0.27, C:0.34, G:0.15, T:0.24
Consensus pattern (21 bp):
AAGAGGCCACCCCTATCATTG
Found at i:204493 original size:14 final size:14
Alignment explanation
Indices: 204474--204505 Score: 55
Period size: 14 Copynumber: 2.3 Consensus size: 14
204464 GTTTAATTGA
204474 TTGTAAAAGATGAT
1 TTGTAAAAGATGAT
*
204488 TTGTAAAAGTTGAT
1 TTGTAAAAGATGAT
204502 TTGT
1 TTGT
204506 GTAATTGATG
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
14 17 1.00
ACGTcount: A:0.34, C:0.00, G:0.22, T:0.44
Consensus pattern (14 bp):
TTGTAAAAGATGAT
Found at i:204628 original size:19 final size:19
Alignment explanation
Indices: 204612--204709 Score: 143
Period size: 19 Copynumber: 5.4 Consensus size: 19
204602 AAAAATGACT
204612 ATCGCAATGCGAAATGAAA
1 ATCGCAATGCGAAATGAAA
204631 ATCGCAATGCGAAATGAAA
1 ATCGCAATGCGAAATGAAA
*
204650 ATCGCAA--CG--A-GAGA
1 ATCGCAATGCGAAATGAAA
204664 ATCGCAATGCGAAATGAAA
1 ATCGCAATGCGAAATGAAA
204683 ATCGCAATGCGGAAATGAAA
1 ATCGCAATGC-GAAATGAAA
204703 ATCGCAA
1 ATCGCAA
204710 CGAGAGAATC
Statistics
Matches: 71, Mismatches: 2, Indels: 11
0.85 0.02 0.13
Matches are distributed among these distances:
14 10 0.14
15 1 0.01
16 2 0.03
17 2 0.03
18 1 0.01
19 39 0.55
20 16 0.23
ACGTcount: A:0.46, C:0.17, G:0.22, T:0.14
Consensus pattern (19 bp):
ATCGCAATGCGAAATGAAA
Found at i:204741 original size:53 final size:53
Alignment explanation
Indices: 204612--204727 Score: 225
Period size: 53 Copynumber: 2.2 Consensus size: 53
204602 AAAAATGACT
204612 ATCGCAATGCGAAATGAAAATCGCAATGC-GAAATGAAAATCGCAACGAGAGA
1 ATCGCAATGCGAAATGAAAATCGCAATGCGGAAATGAAAATCGCAACGAGAGA
204664 ATCGCAATGCGAAATGAAAATCGCAATGCGGAAATGAAAATCGCAACGAGAGA
1 ATCGCAATGCGAAATGAAAATCGCAATGCGGAAATGAAAATCGCAACGAGAGA
204717 ATCGCAATGCG
1 ATCGCAATGCG
204728 TTTATAATTT
Statistics
Matches: 63, Mismatches: 0, Indels: 1
0.98 0.00 0.02
Matches are distributed among these distances:
52 29 0.46
53 34 0.54
ACGTcount: A:0.44, C:0.18, G:0.24, T:0.14
Consensus pattern (53 bp):
ATCGCAATGCGAAATGAAAATCGCAATGCGGAAATGAAAATCGCAACGAGAGA
Found at i:204780 original size:19 final size:19
Alignment explanation
Indices: 204756--204970 Score: 231
Period size: 19 Copynumber: 12.4 Consensus size: 19
204746 GATTCTCTCG
204756 TTGCGATTTTCATTTCGCA
1 TTGCGATTTTCATTTCGCA
204775 TTGCGATTTTCATTTCGCA
1 TTGCGATTTTCATTTCGCA
204794 TTGCGA--TTC---TCG--
1 TTGCGATTTTCATTTCGCA
204806 TTGCGATTTTCATTTCGCA
1 TTGCGATTTTCATTTCGCA
204825 TTGCGATTTTCATTTCGCA
1 TTGCGATTTTCATTTCGCA
*
204844 TTGCGA--TTC-TCTCG--
1 TTGCGATTTTCATTTCGCA
*
204858 TTGTGATTTTCATTTCGCA
1 TTGCGATTTTCATTTCGCA
204877 TTGCGATTTTCATTTCGCA
1 TTGCGATTTTCATTTCGCA
*
204896 TTGCGA--TTC-TCTCG--
1 TTGCGATTTTCATTTCGCA
204910 TTGCGATTTTCATTTCCGCA
1 TTGCGATTTTCATTT-CGCA
204930 TTGCGATTTTCA--T-G--
1 TTGCGATTTTCATTTCGCA
*
204944 TTGGGATTTTCATTTCGCA
1 TTGCGATTTTCATTTCGCA
204963 TTGCGATT
1 TTGCGATT
204971 CTCTCGTTGC
Statistics
Matches: 165, Mismatches: 8, Indels: 46
0.75 0.04 0.21
Matches are distributed among these distances:
12 6 0.04
14 28 0.17
16 16 0.10
17 19 0.12
18 3 0.02
19 81 0.49
20 12 0.07
ACGTcount: A:0.14, C:0.21, G:0.18, T:0.47
Consensus pattern (19 bp):
TTGCGATTTTCATTTCGCA
Found at i:204791 original size:52 final size:52
Alignment explanation
Indices: 204734--204942 Score: 386
Period size: 52 Copynumber: 4.0 Consensus size: 52
204724 TGCGTTTATA
204734 ATTTCGCATTGCGATTCTCTCGTTGCGATTTTCATTTCGCATTGCGATTTTC
1 ATTTCGCATTGCGATTCTCTCGTTGCGATTTTCATTTCGCATTGCGATTTTC
204786 ATTTCGCATTGCGA-T-TCTCGTTGCGATTTTCATTTCGCATTGCGATTTTC
1 ATTTCGCATTGCGATTCTCTCGTTGCGATTTTCATTTCGCATTGCGATTTTC
*
204836 ATTTCGCATTGCGATTCTCTCGTTGTGATTTTCATTTCGCATTGCGATTTTC
1 ATTTCGCATTGCGATTCTCTCGTTGCGATTTTCATTTCGCATTGCGATTTTC
204888 ATTTCGCATTGCGATTCTCTCGTTGCGATTTTCATTTCCGCATTGCGATTTTC
1 ATTTCGCATTGCGATTCTCTCGTTGCGATTTTCATTT-CGCATTGCGATTTTC
204941 AT
1 AT
204943 GTTGGGATTT
Statistics
Matches: 152, Mismatches: 2, Indels: 5
0.96 0.01 0.03
Matches are distributed among these distances:
50 49 0.32
51 2 0.01
52 84 0.55
53 17 0.11
ACGTcount: A:0.14, C:0.22, G:0.17, T:0.46
Consensus pattern (52 bp):
ATTTCGCATTGCGATTCTCTCGTTGCGATTTTCATTTCGCATTGCGATTTTC
Found at i:204850 original size:102 final size:105
Alignment explanation
Indices: 204734--204942 Score: 388
Period size: 102 Copynumber: 2.0 Consensus size: 105
204724 TGCGTTTATA
204734 ATTTCGCATTGCGATTCTCTCGTTGCGATTTTCATTTCGCATTGCGATTTTCATTTCGCATTGCG
1 ATTTCGCATTGCGATTCTCTCGTTGCGATTTTCATTTCGCATTGCGATTTTCATTTCGCATTGCG
204799 A-T-TCTCGTTGCGATTTTCATTT-CGCATTGCGATTTTC
66 ATTCTCTCGTTGCGATTTTCATTTCCGCATTGCGATTTTC
*
204836 ATTTCGCATTGCGATTCTCTCGTTGTGATTTTCATTTCGCATTGCGATTTTCATTTCGCATTGCG
1 ATTTCGCATTGCGATTCTCTCGTTGCGATTTTCATTTCGCATTGCGATTTTCATTTCGCATTGCG
204901 ATTCTCTCGTTGCGATTTTCATTTCCGCATTGCGATTTTC
66 ATTCTCTCGTTGCGATTTTCATTTCCGCATTGCGATTTTC
204941 AT
1 AT
204943 GTTGGGATTT
Statistics
Matches: 103, Mismatches: 1, Indels: 3
0.96 0.01 0.03
Matches are distributed among these distances:
102 65 0.63
103 1 0.01
104 20 0.19
105 17 0.17
ACGTcount: A:0.14, C:0.22, G:0.17, T:0.46
Consensus pattern (105 bp):
ATTTCGCATTGCGATTCTCTCGTTGCGATTTTCATTTCGCATTGCGATTTTCATTTCGCATTGCG
ATTCTCTCGTTGCGATTTTCATTTCCGCATTGCGATTTTC
Found at i:204992 original size:33 final size:33
Alignment explanation
Indices: 204775--204984 Score: 209
Period size: 33 Copynumber: 6.2 Consensus size: 33
204765 TCATTTCGCA
204775 TTGCGATTTTCATTTCGCATTGCGA-T-TCTCG
1 TTGCGATTTTCATTTCGCATTGCGATTCTCTCG
*
204806 TTGCGATTTTCATTTCGCATTGCGATTTTCATTTCG
1 TTGCGATTTTCATTTCGCATTGCGA--TTC-TCTCG
* * * *
204842 CATTGCGATTCTCTCGTTGT-G-ATTTTC-ATT-TCGCA
1 --TTGCGATT-T-TCATT-TCGCA-TTGCGATTCTCTCG
204877 TTGCGATTTTCATTTCGCATTGCGATTCTCTCG
1 TTGCGATTTTCATTTCGCATTGCGATTCTCTCG
*
204910 TTGCGATTTTCATTTCCGCATTGCGATTTTCAT-G
1 TTGCGATTTTCATTT-CGCATTGCGATTCTC-TCG
*
204944 TTGGGATTTTCATTTCGCATTGCGATTCTCTCG
1 TTGCGATTTTCATTTCGCATTGCGATTCTCTCG
204977 TTGCGATT
1 TTGCGATT
204985 GTAATTTCCG
Statistics
Matches: 147, Mismatches: 14, Indels: 34
0.75 0.07 0.17
Matches are distributed among these distances:
30 1 0.01
31 33 0.22
32 6 0.04
33 48 0.33
34 30 0.20
35 3 0.02
36 4 0.03
37 2 0.01
38 8 0.05
39 3 0.02
40 8 0.05
41 1 0.01
ACGTcount: A:0.13, C:0.21, G:0.19, T:0.47
Consensus pattern (33 bp):
TTGCGATTTTCATTTCGCATTGCGATTCTCTCG
Found at i:207501 original size:24 final size:24
Alignment explanation
Indices: 207467--207513 Score: 69
Period size: 24 Copynumber: 2.0 Consensus size: 24
207457 CTGAAACATC
207467 ATCAAAATCCGTG-TATTGACCAAT
1 ATCAAAATCCG-GATATTGACCAAT
*
207491 ATCAAAGTCCGGATATTGACCAA
1 ATCAAAATCCGGATATTGACCAA
207514 GACTAAATTT
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
23 1 0.05
24 20 0.95
ACGTcount: A:0.38, C:0.21, G:0.15, T:0.26
Consensus pattern (24 bp):
ATCAAAATCCGGATATTGACCAAT
Found at i:208223 original size:20 final size:20
Alignment explanation
Indices: 208195--208404 Score: 228
Period size: 20 Copynumber: 10.5 Consensus size: 20
208185 AAATTTCAGT
* * * *
208195 GTTGTGATTTACAGATTCTC
1 GTTGCGATTTACGGATACGC
*
208215 GTTGCGATTTACGGATTA-TC
1 GTTGCGATTTACGGA-TACGC
* * *
208235 GTTGCGATTTACAGATTCTC
1 GTTGCGATTTACGGATACGC
*
208255 GTTGCGATTTACGGATTA-TC
1 GTTGCGATTTACGGA-TACGC
208275 GTTGCGATTTACGGATACGC
1 GTTGCGATTTACGGATACGC
*
208295 GTTGCGATATACGGATACGC
1 GTTGCGATTTACGGATACGC
* **
208315 ATTGCGATTTACCCATACGC
1 GTTGCGATTTACGGATACGC
*
208335 GTTGCGATTTACGGATACAC
1 GTTGCGATTTACGGATACGC
208355 GTTGCGATTTACGGATACGC
1 GTTGCGATTTACGGATACGC
* *
208375 GTTGCGATTTATGTG-TTCGC
1 GTTGCGATTTACG-GATACGC
208395 GTTGCGATTT
1 GTTGCGATTT
208405 TCATATTCGC
Statistics
Matches: 165, Mismatches: 20, Indels: 10
0.85 0.10 0.05
Matches are distributed among these distances:
19 3 0.02
20 159 0.96
21 3 0.02
ACGTcount: A:0.20, C:0.19, G:0.25, T:0.36
Consensus pattern (20 bp):
GTTGCGATTTACGGATACGC
Found at i:208413 original size:20 final size:19
Alignment explanation
Indices: 208372--208425 Score: 63
Period size: 20 Copynumber: 2.7 Consensus size: 19
208362 TTTACGGATA
* *
208372 CGCGTTGCGATTTATGTGTT
1 CGCGTTGCGATTT-TATATT
208392 CGCGTTGCGATTTTCATATT
1 CGCGTTGCGATTTT-ATATT
*
208412 CGCGTTGCGGTTTT
1 CGCGTTGCGATTTT
208426 GGAAAATCGC
Statistics
Matches: 30, Mismatches: 3, Indels: 2
0.86 0.09 0.06
Matches are distributed among these distances:
19 1 0.03
20 29 0.97
ACGTcount: A:0.09, C:0.19, G:0.28, T:0.44
Consensus pattern (19 bp):
CGCGTTGCGATTTTATATT
Found at i:216392 original size:39 final size:40
Alignment explanation
Indices: 216314--216392 Score: 133
Period size: 40 Copynumber: 2.0 Consensus size: 40
216304 TCGAGAGCTA
*
216314 CTTAAGCGATATCAATATGCTTACCACTTGAACCAACCCT
1 CTTAAGCGATATCAAGATGCTTACCACTTGAACCAACCCT
*
216354 CTTAAGCGATATCAAGATTCTTA-CACTTGAACCAACCCT
1 CTTAAGCGATATCAAGATGCTTACCACTTGAACCAACCCT
216393 GTTAGTATTA
Statistics
Matches: 37, Mismatches: 2, Indels: 1
0.93 0.05 0.03
Matches are distributed among these distances:
39 16 0.43
40 21 0.57
ACGTcount: A:0.33, C:0.29, G:0.10, T:0.28
Consensus pattern (40 bp):
CTTAAGCGATATCAAGATGCTTACCACTTGAACCAACCCT
Found at i:222217 original size:14 final size:15
Alignment explanation
Indices: 222198--222226 Score: 51
Period size: 14 Copynumber: 2.0 Consensus size: 15
222188 TAATATAATT
222198 AATATTTTAT-TTTA
1 AATATTTTATATTTA
222212 AATATTTTATATTTA
1 AATATTTTATATTTA
222227 GATTTTAAAT
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
14 10 0.71
15 4 0.29
ACGTcount: A:0.38, C:0.00, G:0.00, T:0.62
Consensus pattern (15 bp):
AATATTTTATATTTA
Found at i:226270 original size:15 final size:15
Alignment explanation
Indices: 226252--226281 Score: 51
Period size: 15 Copynumber: 2.0 Consensus size: 15
226242 CCACGGTGCT
226252 CCCGAAATCCTGCGC
1 CCCGAAATCCTGCGC
*
226267 CCCGGAATCCTGCGC
1 CCCGAAATCCTGCGC
226282 GATTGTGATA
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
15 14 1.00
ACGTcount: A:0.17, C:0.47, G:0.23, T:0.13
Consensus pattern (15 bp):
CCCGAAATCCTGCGC
Found at i:231228 original size:15 final size:15
Alignment explanation
Indices: 231210--231239 Score: 51
Period size: 15 Copynumber: 2.0 Consensus size: 15
231200 CCACGGTGCT
231210 CCCGAAATCCTGCGC
1 CCCGAAATCCTGCGC
*
231225 CCCGGAATCCTGCGC
1 CCCGAAATCCTGCGC
231240 GATTGTGATA
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
15 14 1.00
ACGTcount: A:0.17, C:0.47, G:0.23, T:0.13
Consensus pattern (15 bp):
CCCGAAATCCTGCGC
Found at i:236179 original size:15 final size:15
Alignment explanation
Indices: 236161--236190 Score: 51
Period size: 15 Copynumber: 2.0 Consensus size: 15
236151 CCACGGTGCT
236161 CCCGAAATCCTGCGC
1 CCCGAAATCCTGCGC
*
236176 CCCGGAATCCTGCGC
1 CCCGAAATCCTGCGC
236191 GATTGTGATA
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
15 14 1.00
ACGTcount: A:0.17, C:0.47, G:0.23, T:0.13
Consensus pattern (15 bp):
CCCGAAATCCTGCGC
Found at i:241122 original size:15 final size:15
Alignment explanation
Indices: 241104--241133 Score: 60
Period size: 15 Copynumber: 2.0 Consensus size: 15
241094 CCACGGTGCT
241104 CCCGGAATCCTGCGC
1 CCCGGAATCCTGCGC
241119 CCCGGAATCCTGCGC
1 CCCGGAATCCTGCGC
241134 GATTGTGATA
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 15 1.00
ACGTcount: A:0.13, C:0.47, G:0.27, T:0.13
Consensus pattern (15 bp):
CCCGGAATCCTGCGC
Found at i:242754 original size:65 final size:65
Alignment explanation
Indices: 242679--242832 Score: 281
Period size: 65 Copynumber: 2.4 Consensus size: 65
242669 TCAATATATT
* *
242679 TTATCTTCCAATTATATAACTTCAAATCTTTTATATTGAAATATTAACAAATGATACACAAAAAA
1 TTATCCTCCAATCATATAACTTCAAATCTTTTATATTGAAATATTAACAAATGATACACAAAAAA
*
242744 TTATCCTCCAATCATATAACTTCAAATCTTTTATATTGAAATATTAACAAATGATACACATAAAA
1 TTATCCTCCAATCATATAACTTCAAATCTTTTATATTGAAATATTAACAAATGATACACAAAAAA
242809 TTATCCTCCAATCATATAACTTCA
1 TTATCCTCCAATCATATAACTTCA
242833 CATTTTGAAT
Statistics
Matches: 86, Mismatches: 3, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
65 86 1.00
ACGTcount: A:0.44, C:0.18, G:0.03, T:0.36
Consensus pattern (65 bp):
TTATCCTCCAATCATATAACTTCAAATCTTTTATATTGAAATATTAACAAATGATACACAAAAAA
Found at i:243051 original size:6 final size:6
Alignment explanation
Indices: 243040--243069 Score: 51
Period size: 6 Copynumber: 4.8 Consensus size: 6
243030 AAATATTTTT
243040 TATATC TATATC TATATC TATATC TCATAT
1 TATATC TATATC TATATC TATATC T-ATAT
243070 AGATGAGATA
Statistics
Matches: 23, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
6 19 0.83
7 4 0.17
ACGTcount: A:0.33, C:0.17, G:0.00, T:0.50
Consensus pattern (6 bp):
TATATC
Found at i:244696 original size:27 final size:28
Alignment explanation
Indices: 244665--244721 Score: 89
Period size: 28 Copynumber: 2.1 Consensus size: 28
244655 TAAAAGACAT
*
244665 GAAGATTCCAG-TTCATAGGAACATTCA
1 GAAGATTCCAGTTTAATAGGAACATTCA
*
244692 GAAGATTTCAGTTTAATAGGAACATTCA
1 GAAGATTCCAGTTTAATAGGAACATTCA
244720 GA
1 GA
244722 GTTGGGGAAC
Statistics
Matches: 27, Mismatches: 2, Indels: 1
0.90 0.07 0.03
Matches are distributed among these distances:
27 10 0.37
28 17 0.63
ACGTcount: A:0.39, C:0.14, G:0.19, T:0.28
Consensus pattern (28 bp):
GAAGATTCCAGTTTAATAGGAACATTCA
Found at i:249157 original size:21 final size:21
Alignment explanation
Indices: 249131--249175 Score: 63
Period size: 21 Copynumber: 2.1 Consensus size: 21
249121 TGATTTCTGG
* *
249131 CAAGGGGAATCGGTACCCATT
1 CAAGGGGAACCGATACCCATT
*
249152 CAAGGGGAACCGATACCCCTT
1 CAAGGGGAACCGATACCCATT
249173 CAA
1 CAA
249176 ACGAACAAGA
Statistics
Matches: 21, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
21 21 1.00
ACGTcount: A:0.31, C:0.29, G:0.24, T:0.16
Consensus pattern (21 bp):
CAAGGGGAACCGATACCCATT
Done.