Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Gbar_D07
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: 56457815
ACGTcount: A:0.32, C:0.16, G:0.16, T:0.32
Warning! 1765025 characters in sequence are not A, C, G, or T
File 12 of 189
Found at i:3968581 original size:44 final size:44
Alignment explanation
Indices: 3968533--3968680 Score: 170
Period size: 44 Copynumber: 3.2 Consensus size: 44
3968523 TATCACTTGC
* *
3968533 CACTTGTCATTGATCAGATAAGTGTAGCTAAAGTTACCACTTAT
1 CACTTGTCATTGATCAGATAAGTGTAGCTGAAGCTACCACTTAT
* *
3968577 CACTTGTCACTTGTCACTGATCAGATAAGTGTAGTTGAAGCTATCACTTAT
1 CACTTGTCA----T---TGATCAGATAAGTGTAGCTGAAGCTACCACTTAT
* * *
3968628 AACTTGTCACTGATCAGATAAGTGTAGCTGAAGCTACTACTTAT
1 CACTTGTCATTGATCAGATAAGTGTAGCTGAAGCTACCACTTAT
3968672 CACTTGTCA
1 CACTTGTCA
3968681 CGGATTAGAA
Statistics
Matches: 87, Mismatches: 10, Indels: 14
0.78 0.09 0.13
Matches are distributed among these distances:
44 48 0.55
48 1 0.01
51 38 0.44
ACGTcount: A:0.30, C:0.20, G:0.17, T:0.34
Consensus pattern (44 bp):
CACTTGTCATTGATCAGATAAGTGTAGCTGAAGCTACCACTTAT
Found at i:3968590 original size:51 final size:51
Alignment explanation
Indices: 3968474--3968681 Score: 270
Period size: 51 Copynumber: 4.2 Consensus size: 51
3968464 ATTACGTATG
* * *
3968474 ATCACTTATCACTTGTCCCTGGTCAGATAAGTGTAGCT-AAGCTACCACTT
1 ATCACTTGTCACTTGTCACTGATCAGATAAGTGTAGCTGAAGCTACCACTT
* * * *
3968524 ATCACTTGCCACTTGTCATTGATCAGATAAGTGTAGCTAAAGTTACCACTT
1 ATCACTTGTCACTTGTCACTGATCAGATAAGTGTAGCTGAAGCTACCACTT
* *
3968575 ATCACTTGTCACTTGTCACTGATCAGATAAGTGTAGTTGAAGCTATCACTT
1 ATCACTTGTCACTTGTCACTGATCAGATAAGTGTAGCTGAAGCTACCACTT
*
3968626 AT-A------ACTTGTCACTGATCAGATAAGTGTAGCTGAAGCTACTACTT
1 ATCACTTGTCACTTGTCACTGATCAGATAAGTGTAGCTGAAGCTACCACTT
3968670 ATCACTTGTCAC
1 ATCACTTGTCAC
3968682 GGATTAGAAG
Statistics
Matches: 135, Mismatches: 15, Indels: 15
0.82 0.09 0.09
Matches are distributed among these distances:
44 40 0.30
45 1 0.01
50 34 0.25
51 60 0.44
ACGTcount: A:0.28, C:0.22, G:0.16, T:0.33
Consensus pattern (51 bp):
ATCACTTGTCACTTGTCACTGATCAGATAAGTGTAGCTGAAGCTACCACTT
Found at i:3968651 original size:95 final size:96
Alignment explanation
Indices: 3968474--3968681 Score: 267
Period size: 95 Copynumber: 2.1 Consensus size: 96
3968464 ATTACGTATG
* * *
3968474 ATCACTTATCACTTGTCCCTGGTCAGATAAGTGTAGCTAAGCTACCACTTATCACTTGCCACTTG
1 ATCACTTGTCACTTGTCACTGATCAGATAAGTGTAGCTAAGCTACCACTTATCA-----CACTTG
* *
3968539 TCATTGATCAGATAAGTGTAGCTAAAGTTACCACTT
61 TCACTGATCAGATAAGTGTAGCTAAAGCTACCACTT
* *
3968575 ATCACTTGTCACTTGTCACTGATCAGATAAGTGTAGTTGAAGCTATCACTTAT-A-ACTTGTCAC
1 ATCACTTGTCACTTGTCACTGATCAGATAAGTGTAGCT-AAGCTACCACTTATCACACTTGTCAC
* *
3968638 TGATCAGATAAGTGTAGCTGAAGCTACTACTT
65 TGATCAGATAAGTGTAGCTAAAGCTACCACTT
3968670 ATCACTTGTCAC
1 ATCACTTGTCAC
3968682 GGATTAGAAG
Statistics
Matches: 97, Mismatches: 9, Indels: 8
0.85 0.08 0.07
Matches are distributed among these distances:
95 49 0.51
101 35 0.36
102 13 0.13
ACGTcount: A:0.28, C:0.22, G:0.16, T:0.33
Consensus pattern (96 bp):
ATCACTTGTCACTTGTCACTGATCAGATAAGTGTAGCTAAGCTACCACTTATCACACTTGTCACT
GATCAGATAAGTGTAGCTAAAGCTACCACTT
Found at i:3968681 original size:44 final size:44
Alignment explanation
Indices: 3968574--3968681 Score: 173
Period size: 44 Copynumber: 2.5 Consensus size: 44
3968564 AGTTACCACT
* *
3968574 TATCACTTGTCACTTGTCACTGATCAGATAAGTGTAGTTGAAGC
1 TATCACTTATCACTTGTCACTGATCAGATAAGTGTAGCTGAAGC
*
3968618 TATCACTTATAACTTGTCACTGATCAGATAAGTGTAGCTGAAGC
1 TATCACTTATCACTTGTCACTGATCAGATAAGTGTAGCTGAAGC
3968662 TA-CTACTTATCACTTGTCAC
1 TATC-ACTTATCACTTGTCAC
3968682 GGATTAGAAG
Statistics
Matches: 59, Mismatches: 4, Indels: 2
0.91 0.06 0.03
Matches are distributed among these distances:
43 1 0.02
44 58 0.98
ACGTcount: A:0.29, C:0.20, G:0.17, T:0.34
Consensus pattern (44 bp):
TATCACTTATCACTTGTCACTGATCAGATAAGTGTAGCTGAAGC
Found at i:3971351 original size:25 final size:25
Alignment explanation
Indices: 3971304--3971352 Score: 73
Period size: 25 Copynumber: 2.0 Consensus size: 25
3971294 TGTATATATT
*
3971304 ATATAAAAATAATTATATTTATTTA
1 ATATAAAAATAATTATATGTATTTA
3971329 ATATAAAAATAAATTAT-TGTATTT
1 ATATAAAAAT-AATTATATGTATTT
3971353 CTTTCTTTCT
Statistics
Matches: 22, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
25 16 0.73
26 6 0.27
ACGTcount: A:0.51, C:0.00, G:0.02, T:0.47
Consensus pattern (25 bp):
ATATAAAAATAATTATATGTATTTA
Found at i:3971564 original size:33 final size:33
Alignment explanation
Indices: 3971526--3971595 Score: 140
Period size: 33 Copynumber: 2.1 Consensus size: 33
3971516 AATAAATATT
3971526 AATTCTTATTTATTTATTATATATGTCACGTCA
1 AATTCTTATTTATTTATTATATATGTCACGTCA
3971559 AATTCTTATTTATTTATTATATATGTCACGTCA
1 AATTCTTATTTATTTATTATATATGTCACGTCA
3971592 AATT
1 AATT
3971596 TTTTATGGAT
Statistics
Matches: 37, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
33 37 1.00
ACGTcount: A:0.31, C:0.11, G:0.06, T:0.51
Consensus pattern (33 bp):
AATTCTTATTTATTTATTATATATGTCACGTCA
Found at i:3979508 original size:17 final size:17
Alignment explanation
Indices: 3979469--3979516 Score: 53
Period size: 17 Copynumber: 2.9 Consensus size: 17
3979459 ATATTATAAA
* *
3979469 ATATTTTCAATTAT-AT
1 ATATTTTAAATTTTAAT
*
3979485 ATTTTTTAAATTTTAAT
1 ATATTTTAAATTTTAAT
*
3979502 ATATTTTATATTTTA
1 ATATTTTAAATTTTA
3979517 TTTCAATTTT
Statistics
Matches: 26, Mismatches: 5, Indels: 1
0.81 0.16 0.03
Matches are distributed among these distances:
16 11 0.42
17 15 0.58
ACGTcount: A:0.35, C:0.02, G:0.00, T:0.62
Consensus pattern (17 bp):
ATATTTTAAATTTTAAT
Found at i:3982460 original size:2 final size:2
Alignment explanation
Indices: 3982453--3982479 Score: 54
Period size: 2 Copynumber: 13.5 Consensus size: 2
3982443 TGCTAAAAAT
3982453 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 T
3982480 GCATCATGCT
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 25 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Found at i:3983131 original size:21 final size:21
Alignment explanation
Indices: 3983106--3983153 Score: 96
Period size: 21 Copynumber: 2.3 Consensus size: 21
3983096 AGGGAGCTAA
3983106 AATTAATTATATAACTAAATT
1 AATTAATTATATAACTAAATT
3983127 AATTAATTATATAACTAAATT
1 AATTAATTATATAACTAAATT
3983148 AATTAA
1 AATTAA
3983154 ATTAATTAGG
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
21 27 1.00
ACGTcount: A:0.54, C:0.04, G:0.00, T:0.42
Consensus pattern (21 bp):
AATTAATTATATAACTAAATT
Found at i:3986788 original size:18 final size:19
Alignment explanation
Indices: 3986759--3986794 Score: 56
Period size: 18 Copynumber: 1.9 Consensus size: 19
3986749 TTGAGTTTTT
3986759 TTTTATAAAGGTTAGATCA
1 TTTTATAAAGGTTAGATCA
*
3986778 TTTTA-AAAGGTTTGATC
1 TTTTATAAAGGTTAGATC
3986795 TTCATAATAC
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
18 11 0.69
19 5 0.31
ACGTcount: A:0.33, C:0.06, G:0.17, T:0.44
Consensus pattern (19 bp):
TTTTATAAAGGTTAGATCA
Found at i:3990569 original size:17 final size:17
Alignment explanation
Indices: 3990547--3990580 Score: 59
Period size: 17 Copynumber: 2.0 Consensus size: 17
3990537 ATCCACTAAT
*
3990547 CCACTACCACCAACAAC
1 CCACTACCAACAACAAC
3990564 CCACTACCAACAACAAC
1 CCACTACCAACAACAAC
3990581 AATCCACTAC
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
17 16 1.00
ACGTcount: A:0.44, C:0.50, G:0.00, T:0.06
Consensus pattern (17 bp):
CCACTACCAACAACAAC
Found at i:3995207 original size:17 final size:17
Alignment explanation
Indices: 3995185--3995218 Score: 59
Period size: 17 Copynumber: 2.0 Consensus size: 17
3995175 ATCCACTAAT
*
3995185 CCACTACCACCAACAAC
1 CCACTACCAACAACAAC
3995202 CCACTACCAACAACAAC
1 CCACTACCAACAACAAC
3995219 AATCCACTAC
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
17 16 1.00
ACGTcount: A:0.44, C:0.50, G:0.00, T:0.06
Consensus pattern (17 bp):
CCACTACCAACAACAAC
Found at i:3997452 original size:21 final size:22
Alignment explanation
Indices: 3997426--3997474 Score: 66
Period size: 22 Copynumber: 2.3 Consensus size: 22
3997416 TTATCACTTC
3997426 TTTCTCTTTCTT-CAA-TTTTGA
1 TTTCTC-TTCTTCCAATTTTTGA
*
3997447 TTTCTCTTCTTCCAATTTTTTA
1 TTTCTCTTCTTCCAATTTTTGA
3997469 TTTCTC
1 TTTCTC
3997475 CTTAATTTAC
Statistics
Matches: 25, Mismatches: 1, Indels: 3
0.86 0.03 0.10
Matches are distributed among these distances:
20 5 0.20
21 9 0.36
22 11 0.44
ACGTcount: A:0.12, C:0.22, G:0.02, T:0.63
Consensus pattern (22 bp):
TTTCTCTTCTTCCAATTTTTGA
Found at i:4006836 original size:47 final size:47
Alignment explanation
Indices: 4006703--4006909 Score: 184
Period size: 47 Copynumber: 4.3 Consensus size: 47
4006693 ATAGTAAAAT
** * *
4006703 TATGGTCTTGCACA-TAGTCACATATCACATACCGAGGCCATAGCCCAGC
1 TATGGTCTTATACAGTAG-CACATATCAC--ACCGATGCCATAGCCCAGA
* * * * *
4006752 CATGGTCTTATAC-GGATCACATATCACACTGATGCCATATCCCAGA
1 TATGGTCTTATACAGTAGCACATATCACACCGATGCCATAGCCCAGA
* *
4006798 TATGGTCTTATACAGTAGCACATATCACACCGATGCCATATCCCGGA
1 TATGGTCTTATACAGTAGCACATATCACACCGATGCCATAGCCCAGA
* * * * *
4006845 TATGGTCTTATACGGAAGCACAAATCACATTTCTCCGAAGCCATAGCCCAGC
1 TATGGTCTTATACAGTAGCACATATCACA-----CCGATGCCATAGCCCAGA
4006897 TATGGTCTTATAC
1 TATGGTCTTATAC
4006910 GGAAATCACA
Statistics
Matches: 130, Mismatches: 21, Indels: 11
0.80 0.13 0.07
Matches are distributed among these distances:
46 27 0.21
47 55 0.42
48 10 0.08
49 11 0.08
52 27 0.21
ACGTcount: A:0.29, C:0.28, G:0.17, T:0.26
Consensus pattern (47 bp):
TATGGTCTTATACAGTAGCACATATCACACCGATGCCATAGCCCAGA
Found at i:4009625 original size:23 final size:24
Alignment explanation
Indices: 4009599--4009674 Score: 75
Period size: 28 Copynumber: 3.0 Consensus size: 24
4009589 AATTTTTTTA
4009599 TTTTTAAAATACTTTTTTTTAATT
1 TTTTTAAAATACTTTTTTTTAATT
*
4009623 TTTTTAATTTAA-AATTTTTTTTAAAATT
1 TTTTTAA---AATACTTTTTTTT--AATT
*
4009651 TTTTTAAAATAC-CTTTTTTAATT
1 TTTTTAAAATACTTTTTTTTAATT
4009674 T
1 T
4009675 AAAATATTTT
Statistics
Matches: 43, Mismatches: 3, Indels: 13
0.73 0.05 0.22
Matches are distributed among these distances:
23 5 0.12
24 7 0.16
25 8 0.19
26 10 0.23
27 2 0.05
28 11 0.26
ACGTcount: A:0.32, C:0.04, G:0.00, T:0.64
Consensus pattern (24 bp):
TTTTTAAAATACTTTTTTTTAATT
Found at i:4009642 original size:28 final size:29
Alignment explanation
Indices: 4009588--4009657 Score: 88
Period size: 28 Copynumber: 2.4 Consensus size: 29
4009578 CCCGAATAAT
* *
4009588 AAATTTTTTTATTTTTAAAATACTTTTTTT
1 AAATTTTTTTA-ATTTAAAATACTTTTTTA
* *
4009618 TAATTTTTTTAATTTAAAAT-TTTTTTTA
1 AAATTTTTTTAATTTAAAATACTTTTTTA
4009646 AAATTTTTTTAA
1 AAATTTTTTTAA
4009658 AATACCTTTT
Statistics
Matches: 35, Mismatches: 5, Indels: 2
0.83 0.12 0.05
Matches are distributed among these distances:
28 17 0.49
29 8 0.23
30 10 0.29
ACGTcount: A:0.33, C:0.01, G:0.00, T:0.66
Consensus pattern (29 bp):
AAATTTTTTTAATTTAAAATACTTTTTTA
Found at i:4009647 original size:12 final size:12
Alignment explanation
Indices: 4009611--4009660 Score: 57
Period size: 12 Copynumber: 4.1 Consensus size: 12
4009601 TTTAAAATAC
**
4009611 TTTTTTTTAATT
1 TTTTTTTTAAAA
4009623 TTTTTAATTTAAAA
1 TTTTT--TTTAAAA
4009637 TTTTTTTTAAAA
1 TTTTTTTTAAAA
4009649 -TTTTTTTAAAA
1 TTTTTTTTAAAA
4009660 T
1 T
4009661 ACCTTTTTTA
Statistics
Matches: 33, Mismatches: 2, Indels: 6
0.80 0.05 0.15
Matches are distributed among these distances:
11 11 0.33
12 12 0.36
14 10 0.30
ACGTcount: A:0.32, C:0.00, G:0.00, T:0.68
Consensus pattern (12 bp):
TTTTTTTTAAAA
Found at i:4009654 original size:11 final size:11
Alignment explanation
Indices: 4009630--4009660 Score: 53
Period size: 11 Copynumber: 2.7 Consensus size: 11
4009620 ATTTTTTTAA
4009630 TTTAAAATTTTT
1 TTTAAAA-TTTT
4009642 TTTAAAATTTT
1 TTTAAAATTTT
4009653 TTTAAAAT
1 TTTAAAAT
4009661 ACCTTTTTTA
Statistics
Matches: 19, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
11 12 0.63
12 7 0.37
ACGTcount: A:0.39, C:0.00, G:0.00, T:0.61
Consensus pattern (11 bp):
TTTAAAATTTT
Found at i:4009676 original size:30 final size:29
Alignment explanation
Indices: 4009642--4009703 Score: 97
Period size: 30 Copynumber: 2.1 Consensus size: 29
4009632 TAAAATTTTT
*
4009642 TTTAAAATTTTTTTAAAATACCTTTTTTAA
1 TTTAAAATATTTTTAAAATA-CTTTTTTAA
*
4009672 TTTAAAATATTTTTAAAATATTTTTTTAA
1 TTTAAAATATTTTTAAAATACTTTTTTAA
4009701 TTT
1 TTT
4009704 TTATTTTAAT
Statistics
Matches: 30, Mismatches: 2, Indels: 1
0.91 0.06 0.03
Matches are distributed among these distances:
29 11 0.37
30 19 0.63
ACGTcount: A:0.37, C:0.03, G:0.00, T:0.60
Consensus pattern (29 bp):
TTTAAAATATTTTTAAAATACTTTTTTAA
Found at i:4009688 original size:11 final size:11
Alignment explanation
Indices: 4009672--4009696 Score: 50
Period size: 11 Copynumber: 2.3 Consensus size: 11
4009662 CCTTTTTTAA
4009672 TTTAAAATATT
1 TTTAAAATATT
4009683 TTTAAAATATT
1 TTTAAAATATT
4009694 TTT
1 TTT
4009697 TTAATTTTTA
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 14 1.00
ACGTcount: A:0.40, C:0.00, G:0.00, T:0.60
Consensus pattern (11 bp):
TTTAAAATATT
Found at i:4009711 original size:41 final size:40
Alignment explanation
Indices: 4009596--4009715 Score: 129
Period size: 41 Copynumber: 2.9 Consensus size: 40
4009586 ATAAATTTTT
4009596 TTATTTTTAAAATACTTTTTTTTAA-TTTTTTTAATTTAAAA
1 TTATTTTTAAAATA--TTTTTTTAATTTTTTTTAATTTAAAA
* * *
4009637 TTTTTTTTAAAAT-TTTTTTAAAATACCTTTTTTAATTTAAAA
1 TTATTTTTAAAATATTTTTT-TAAT--TTTTTTTAATTTAAAA
4009679 -TATTTTTAAAATATTTTTTTAATTTTTATTTTAATTT
1 TTATTTTTAAAATATTTTTTTAA-TTTT-TTTTAATTT
4009716 TTAAAATAAA
Statistics
Matches: 66, Mismatches: 6, Indels: 14
0.77 0.07 0.16
Matches are distributed among these distances:
38 6 0.09
39 2 0.03
40 2 0.03
41 34 0.52
42 22 0.33
ACGTcount: A:0.33, C:0.03, G:0.00, T:0.64
Consensus pattern (40 bp):
TTATTTTTAAAATATTTTTTTAATTTTTTTTAATTTAAAA
Found at i:4009716 original size:32 final size:32
Alignment explanation
Indices: 4009680--4009741 Score: 90
Period size: 32 Copynumber: 1.9 Consensus size: 32
4009670 AATTTAAAAT
**
4009680 ATTTTTAAAATATTTTTTTAATT-TTTATTTTA
1 ATTTTTAAAATAAATTTTT-ATTATTTATTTTA
4009712 ATTTTTAAAATAAATTTTTATTATTTATTT
1 ATTTTTAAAATAAATTTTTATTATTTATTT
4009742 AAAAAACGGG
Statistics
Matches: 27, Mismatches: 2, Indels: 2
0.87 0.06 0.06
Matches are distributed among these distances:
31 3 0.11
32 24 0.89
ACGTcount: A:0.34, C:0.00, G:0.00, T:0.66
Consensus pattern (32 bp):
ATTTTTAAAATAAATTTTTATTATTTATTTTA
Found at i:4009746 original size:25 final size:25
Alignment explanation
Indices: 4009699--4009747 Score: 62
Period size: 25 Copynumber: 1.9 Consensus size: 25
4009689 ATATTTTTTT
*
4009699 AATTTTTATTTTAATTTTTAAAATA
1 AATTTTTATTTTAATTTTAAAAATA
* *
4009724 AATTTTTATTATTTATTTAAAAAA
1 AATTTTTATT-TTAATTTTAAAAA
4009748 CGGGCCGGGC
Statistics
Matches: 20, Mismatches: 3, Indels: 1
0.83 0.12 0.04
Matches are distributed among these distances:
25 10 0.50
26 10 0.50
ACGTcount: A:0.43, C:0.00, G:0.00, T:0.57
Consensus pattern (25 bp):
AATTTTTATTTTAATTTTAAAAATA
Found at i:4010236 original size:90 final size:90
Alignment explanation
Indices: 4010134--4010345 Score: 379
Period size: 90 Copynumber: 2.4 Consensus size: 90
4010124 ATTAATGAAA
* *
4010134 ATAAAGGTGATTGCTATGTGCTGATTTCACCGGATACCAATGGTTATATAAGTGATTGTTATGTG
1 ATAAAGGTGATTGCTATGTGCTGATTTCACCGGATACCAATGGTTATATAAGTGATTGCTATATG
4010199 CTGAATTCACCCGATACCATTGAGT
66 CTGAATTCACCCGATACCATTGAGT
4010224 ATAAAGGTGATTGCTATGTGCTGATTTCACCGGATACCAATGGTTATATAAGTGATTGCTATATG
1 ATAAAGGTGATTGCTATGTGCTGATTTCACCGGATACCAATGGTTATATAAGTGATTGCTATATG
* *
4010289 CTGAATTCACCTGGTACCATTGAGT
66 CTGAATTCACCCGATACCATTGAGT
*
4010314 ATAAAGGTGGTTGCTATGTGCTGATTTCACCG
1 ATAAAGGTGATTGCTATGTGCTGATTTCACCG
4010346 AGTACTATTG
Statistics
Matches: 117, Mismatches: 5, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
90 117 1.00
ACGTcount: A:0.27, C:0.16, G:0.23, T:0.34
Consensus pattern (90 bp):
ATAAAGGTGATTGCTATGTGCTGATTTCACCGGATACCAATGGTTATATAAGTGATTGCTATATG
CTGAATTCACCCGATACCATTGAGT
Found at i:4010335 original size:135 final size:134
Alignment explanation
Indices: 4010093--4010382 Score: 320
Period size: 135 Copynumber: 2.1 Consensus size: 134
4010083 TTGGAAATAT
** *
4010093 AGGTGGATGCTATGTGCTGATTGCACCAGATATTAATGAAAATAAAGGTGATTGCTATGTGCTGA
1 AGGTGG-TGCTATGTGCTGATTGCACCAGATACCAATGAAAATAAAGGTGATTGCTATATGCTGA
* *
4010158 TTTCACCGGATACCAATGGTTATATAAGTGATTGTTATGTGCTGAATTCACCCGA-TACCATTGA
65 ATTCACCGGATACCAATGGTTATATAAGTGATTGCTATGTGCTGAATTCA-CCGAGTACCATTGA
*
4010222 GTATAA
129 CTATAA
* * * ***
4010228 AGGTGATTGCTATGTGCTGATTTCACCGGATACCAATGGTTATATAA-GTGATTGCTATATGCTG
1 AGGTG-GTGCTATGTGCTGATTGCACCAGATACCAATGAAAATA-AAGGTGATTGCTATATGCTG
* * * *
4010292 AATTCACCTGG-TACCATTGAG-TATA-AAGGTGGTTGCTATGTGCTGATTTCACCGAGTACTAT
64 AATTCACC-GGATACCAATG-GTTATATAA-GTGATTGCTATGTGCTGAATTCACCGAGTACCAT
4010354 TGACTATAA
126 TGACTATAA
* *
4010363 GGGTGGTGCTATGTGTTGAT
1 AGGTGGTGCTATGTGCTGAT
4010383 CCACCGTGTA
Statistics
Matches: 130, Mismatches: 19, Indels: 13
0.80 0.12 0.08
Matches are distributed among these distances:
134 19 0.15
135 106 0.82
136 5 0.04
ACGTcount: A:0.27, C:0.14, G:0.24, T:0.34
Consensus pattern (134 bp):
AGGTGGTGCTATGTGCTGATTGCACCAGATACCAATGAAAATAAAGGTGATTGCTATATGCTGAA
TTCACCGGATACCAATGGTTATATAAGTGATTGCTATGTGCTGAATTCACCGAGTACCATTGACT
ATAA
Found at i:4010369 original size:45 final size:45
Alignment explanation
Indices: 4010100--4010345 Score: 286
Period size: 45 Copynumber: 5.5 Consensus size: 45
4010090 TATAGGTGGA
* * ** **
4010100 TGCTATGTGCTGATTGCACCAGATATTAATGAAAATAAAGGTGAT
1 TGCTATGTGCTGATTTCACCGGATACCAATGAGTATAAAGGTGAT
4010145 TGCTATGTGCTGATTTCACCGGATACCAATG-GTTATATAA-GTGAT
1 TGCTATGTGCTGATTTCACCGGATACCAATGAG-TATA-AAGGTGAT
* * * *
4010190 TGTTATGTGCTGAATTCACCCGATACCATTGAGTATAAAGGTGAT
1 TGCTATGTGCTGATTTCACCGGATACCAATGAGTATAAAGGTGAT
4010235 TGCTATGTGCTGATTTCACCGGATACCAATG-GTTATATAA-GTGAT
1 TGCTATGTGCTGATTTCACCGGATACCAATGAG-TATA-AAGGTGAT
* * * *
4010280 TGCTATATGCTGAATTCACCTGG-TACCATTGAGTATAAAGGTGGT
1 TGCTATGTGCTGATTTCACC-GGATACCAATGAGTATAAAGGTGAT
4010325 TGCTATGTGCTGATTTCACCG
1 TGCTATGTGCTGATTTCACCG
4010346 AGTACTATTG
Statistics
Matches: 172, Mismatches: 20, Indels: 19
0.82 0.09 0.09
Matches are distributed among these distances:
44 6 0.03
45 158 0.92
46 8 0.05
ACGTcount: A:0.28, C:0.15, G:0.23, T:0.34
Consensus pattern (45 bp):
TGCTATGTGCTGATTTCACCGGATACCAATGAGTATAAAGGTGAT
Found at i:4014434 original size:29 final size:29
Alignment explanation
Indices: 4014392--4014453 Score: 124
Period size: 29 Copynumber: 2.1 Consensus size: 29
4014382 ACTAACTTTT
4014392 AAATTCTATAACAATGGTTACAAAACAAA
1 AAATTCTATAACAATGGTTACAAAACAAA
4014421 AAATTCTATAACAATGGTTACAAAACAAA
1 AAATTCTATAACAATGGTTACAAAACAAA
4014450 AAAT
1 AAAT
4014454 GTATAGGAAG
Statistics
Matches: 33, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
29 33 1.00
ACGTcount: A:0.56, C:0.13, G:0.06, T:0.24
Consensus pattern (29 bp):
AAATTCTATAACAATGGTTACAAAACAAA
Found at i:4016687 original size:3 final size:3
Alignment explanation
Indices: 4016679--4016715 Score: 74
Period size: 3 Copynumber: 12.3 Consensus size: 3
4016669 AACGCATTCT
4016679 TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC T
1 TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC T
4016716 CCTCTTTTTT
Statistics
Matches: 34, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 34 1.00
ACGTcount: A:0.00, C:0.32, G:0.00, T:0.68
Consensus pattern (3 bp):
TTC
Found at i:4023013 original size:38 final size:37
Alignment explanation
Indices: 4022971--4023079 Score: 101
Period size: 38 Copynumber: 3.1 Consensus size: 37
4022961 TGAATATAAT
4022971 AAATATATTTTTAATACTTTTTTTATTTTTTTATTTTA
1 AAATAT-TTTTTAATACTTTTTTTATTTTTTTATTTTA
*
4023009 AAATATTTTTT-TTA-TTTTTTTA-------ATTTTA
1 AAATATTTTTTAATACTTTTTTTATTTTTTTATTTTA
** *
4023037 AAATATTTTAAAATACATTTTTTATTTTTTTATTTTTA
1 AAATATTTTTTAATACTTTTTTTATTTTTTTA-TTTTA
4023075 AAATA
1 AAATA
4023080 AATTTTTAGT
Statistics
Matches: 56, Mismatches: 5, Indels: 20
0.69 0.06 0.25
Matches are distributed among these distances:
28 15 0.27
29 2 0.04
30 7 0.12
35 8 0.14
36 2 0.04
37 6 0.11
38 16 0.29
ACGTcount: A:0.33, C:0.02, G:0.00, T:0.65
Consensus pattern (37 bp):
AAATATTTTTTAATACTTTTTTTATTTTTTTATTTTA
Found at i:4023021 original size:27 final size:28
Alignment explanation
Indices: 4022983--4023045 Score: 110
Period size: 27 Copynumber: 2.3 Consensus size: 28
4022973 ATATATTTTT
*
4022983 AATACTTTTTTTATTTTTTT-ATTTTAA
1 AATATTTTTTTTATTTTTTTAATTTTAA
4023010 AATATTTTTTTTATTTTTTTAATTTTAA
1 AATATTTTTTTTATTTTTTTAATTTTAA
4023038 AATATTTT
1 AATATTTT
4023046 AAAATACATT
Statistics
Matches: 34, Mismatches: 1, Indels: 1
0.94 0.03 0.03
Matches are distributed among these distances:
27 19 0.56
28 15 0.44
ACGTcount: A:0.29, C:0.02, G:0.00, T:0.70
Consensus pattern (28 bp):
AATATTTTTTTTATTTTTTTAATTTTAA
Found at i:4023028 original size:28 final size:27
Alignment explanation
Indices: 4022983--4023045 Score: 99
Period size: 28 Copynumber: 2.3 Consensus size: 27
4022973 ATATATTTTT
* *
4022983 AATACTTTTTTTATTTTTTTATTTTAA
1 AATATTTTTTTTATTTTTTAATTTTAA
4023010 AATATTTTTTTTATTTTTTTAATTTTAA
1 AATATTTTTTTTA-TTTTTTAATTTTAA
4023038 AATATTTT
1 AATATTTT
4023046 AAAATACATT
Statistics
Matches: 33, Mismatches: 2, Indels: 1
0.92 0.06 0.03
Matches are distributed among these distances:
27 12 0.36
28 21 0.64
ACGTcount: A:0.29, C:0.02, G:0.00, T:0.70
Consensus pattern (27 bp):
AATATTTTTTTTATTTTTTAATTTTAA
Found at i:4024602 original size:15 final size:15
Alignment explanation
Indices: 4024582--4024610 Score: 58
Period size: 15 Copynumber: 1.9 Consensus size: 15
4024572 AGTAAAAGAC
4024582 TGTTAAAACATAAAA
1 TGTTAAAACATAAAA
4024597 TGTTAAAACATAAA
1 TGTTAAAACATAAA
4024611 TAAAAAAAAC
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 14 1.00
ACGTcount: A:0.59, C:0.07, G:0.07, T:0.28
Consensus pattern (15 bp):
TGTTAAAACATAAAA
Found at i:4024733 original size:16 final size:16
Alignment explanation
Indices: 4024712--4024744 Score: 57
Period size: 16 Copynumber: 2.1 Consensus size: 16
4024702 TTCGCTGTAT
4024712 TGGAATAGAGGCGTAA
1 TGGAATAGAGGCGTAA
*
4024728 TGGAATAGAGGTGTAA
1 TGGAATAGAGGCGTAA
4024744 T
1 T
4024745 AGCAAATCAA
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
16 16 1.00
ACGTcount: A:0.36, C:0.03, G:0.36, T:0.24
Consensus pattern (16 bp):
TGGAATAGAGGCGTAA
Found at i:4024829 original size:39 final size:43
Alignment explanation
Indices: 4024724--4024832 Score: 118
Period size: 45 Copynumber: 2.6 Consensus size: 43
4024714 GAATAGAGGC
4024724 GTAATGGAATAGAGGTGTAATAGCAAATCAACTGTTTGGTTGAA
1 GTAA-GGAATAGAGGTGTAATAGCAAATCAACTGTTTGGTTGAA
* * ***
4024768 TGTAATGGAATAGAGGCGTAATAG-TAATCTTGTGTTTGGTTGAA
1 -GTAA-GGAATAGAGGTGTAATAGCAAATCAACTGTTTGGTTGAA
4024812 -T-A-GAATAGAGGTGTAATAGCA
1 GTAAGGAATAGAGGTGTAATAGCA
4024833 TAATGGAAAA
Statistics
Matches: 56, Mismatches: 7, Indels: 7
0.80 0.10 0.10
Matches are distributed among these distances:
39 16 0.29
41 1 0.02
42 1 0.02
44 16 0.29
45 22 0.39
ACGTcount: A:0.35, C:0.06, G:0.28, T:0.31
Consensus pattern (43 bp):
GTAAGGAATAGAGGTGTAATAGCAAATCAACTGTTTGGTTGAA
Found at i:4025006 original size:18 final size:16
Alignment explanation
Indices: 4024955--4024998 Score: 54
Period size: 16 Copynumber: 2.8 Consensus size: 16
4024945 ATTTAATCAT
* *
4024955 ATTTAAACATAATTATT
1 ATTTAAATAT-ATTATA
4024972 A-TTAAATATATTATA
1 ATTTAAATATATTATA
4024987 ATTTAAATATAT
1 ATTTAAATATAT
4024999 AATTTAATAA
Statistics
Matches: 24, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
15 6 0.25
16 17 0.71
17 1 0.04
ACGTcount: A:0.50, C:0.02, G:0.00, T:0.48
Consensus pattern (16 bp):
ATTTAAATATATTATA
Found at i:4025058 original size:61 final size:61
Alignment explanation
Indices: 4024992--4025299 Score: 253
Period size: 61 Copynumber: 5.1 Consensus size: 61
4024982 TTATAATTTA
*
4024992 AATATATAATTTAATAAAATTCTTAATAATCAATATTCTTATATGAATTTACTCAAATCAT
1 AATATATAATTTAATAAAATTCTTAATAATCAATATTCTTATATAAATTTACTCAAATCAT
* * * * * * * * *
4025053 AATATATGATACT-ATAAAA-TATAAATTAA-C-ATAATTATTAT-TAAATATA-TTATAATTAA
1 AATATATAAT-TTAATAAAATTCTTAA-TAATCAAT-ATTCTTATATAAATTTACTCA-AATCAT
*
4025112 AATATATAATTTAATAAAATTCTTAATAATTAATATTCTTATATAAATTTACTCAAATCAT
1 AATATATAATTTAATAAAATTCTTAATAATCAATATTCTTATATAAATTTACTCAAATCAT
* * * * * * * * *
4025173 AATATATGATACT-ATAAAA-TATAAATTAA-C-ATAATTATTAT-TAAATATA-TTATAATTAA
1 AATATATAAT-TTAATAAAATTCTTAA-TAATCAAT-ATTCTTATATAAATTTACTCA-AATCAT
* * *
4025232 AATATATAATTTAATAAAATTCTTAATAATTAATATTCTTATATGAATTTACTGAAATCAT
1 AATATATAATTTAATAAAATTCTTAATAATCAATATTCTTATATAAATTTACTCAAATCAT
4025293 AATATAT
1 AATATAT
4025300 GATACTATAA
Statistics
Matches: 186, Mismatches: 41, Indels: 40
0.70 0.15 0.15
Matches are distributed among these distances:
58 6 0.03
59 61 0.33
60 45 0.24
61 68 0.37
62 6 0.03
ACGTcount: A:0.50, C:0.06, G:0.02, T:0.43
Consensus pattern (61 bp):
AATATATAATTTAATAAAATTCTTAATAATCAATATTCTTATATAAATTTACTCAAATCAT
Found at i:4025125 original size:14 final size:15
Alignment explanation
Indices: 4025076--4025247 Score: 62
Period size: 15 Copynumber: 11.6 Consensus size: 15
4025066 ATAAAATATA
4025076 AATTAACATA-ATTAT
1 AATTAA-ATATATTAT
*
4025091 TATTAAATATATTAT
1 AATTAAATATATTAT
*
4025106 AATTAAAATATATAATTT
1 AATT-AAATATAT--TAT
* *
4025124 AATAAAAT-TCTTAAT
1 AATTAAATATATT-AT
*
4025139 AATT-AATATTCTTAT
1 AATTAAATA-TATTAT
* *
4025154 -A-TAAATTTACTCA-
1 AATTAAATATA-TTAT
* *
4025167 AATCATAATATATGAT
1 AATTA-AATATATTAT
*
4025183 ACTATAAA-ATA-TA-
1 AAT-TAAATATATTAT
4025196 AATTAACATA-ATTAT
1 AATTAA-ATATATTAT
*
4025211 TATTAAATATATTAT
1 AATTAAATATATTAT
4025226 AATTAAA-ATA-TAT
1 AATTAAATATATTAT
*
4025239 AATTTAATA
1 AATTAAATA
4025248 AAATTCTTAA
Statistics
Matches: 117, Mismatches: 20, Indels: 41
0.66 0.11 0.23
Matches are distributed among these distances:
12 3 0.03
13 15 0.13
14 25 0.21
15 41 0.35
16 23 0.20
17 5 0.04
18 5 0.04
ACGTcount: A:0.52, C:0.05, G:0.01, T:0.43
Consensus pattern (15 bp):
AATTAAATATATTAT
Found at i:4025173 original size:120 final size:120
Alignment explanation
Indices: 4024960--4025372 Score: 736
Period size: 120 Copynumber: 3.4 Consensus size: 120
4024950 ATCATATTTA
* *
4024960 AACATAATTATTATTAAATATATTATAATTTAAATATATAATTTAATAAAATTCTTAATAATCAA
1 AACATAATTATTATTAAATATATTATAATTAAAATATATAATTTAATAAAATTCTTAATAATTAA
4025025 TATTCTTATATGAATTTACTCAAATCATAATATATGATACTATAAAATATAAATT
66 TATTCTTATATGAATTTACTCAAATCATAATATATGATACTATAAAATATAAATT
4025080 AACATAATTATTATTAAATATATTATAATTAAAATATATAATTTAATAAAATTCTTAATAATTAA
1 AACATAATTATTATTAAATATATTATAATTAAAATATATAATTTAATAAAATTCTTAATAATTAA
*
4025145 TATTCTTATATAAATTTACTCAAATCATAATATATGATACTATAAAATATAAATT
66 TATTCTTATATGAATTTACTCAAATCATAATATATGATACTATAAAATATAAATT
4025200 AACATAATTATTATTAAATATATTATAATTAAAATATATAATTTAATAAAATTCTTAATAATTAA
1 AACATAATTATTATTAAATATATTATAATTAAAATATATAATTTAATAAAATTCTTAATAATTAA
* *
4025265 TATTCTTATATGAATTTACTGAAATCATAATATATGATACTATAAAATATAATTT
66 TATTCTTATATGAATTTACTCAAATCATAATATATGATACTATAAAATATAAATT
* * * * *
4025320 AAAATAATTAATATTAAATATATTTTATTTAAAATATATGATTTAATAAAATT
1 AACATAATTATTATTAAATATATTATAATTAAAATATATAATTTAATAAAATT
4025373 TAAAATAATT
Statistics
Matches: 282, Mismatches: 11, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
120 282 1.00
ACGTcount: A:0.50, C:0.05, G:0.02, T:0.43
Consensus pattern (120 bp):
AACATAATTATTATTAAATATATTATAATTAAAATATATAATTTAATAAAATTCTTAATAATTAA
TATTCTTATATGAATTTACTCAAATCATAATATATGATACTATAAAATATAAATT
Found at i:4025442 original size:26 final size:28
Alignment explanation
Indices: 4025413--4025473 Score: 81
Period size: 28 Copynumber: 2.2 Consensus size: 28
4025403 TATGAATTTG
*
4025413 TATAATTTAA-AATAAT-TATTATTACA
1 TATAATTTAATAATAATATATAATTACA
*
4025439 TATAATTTAATAATAATATATAATTTCA
1 TATAATTTAATAATAATATATAATTACA
*
4025467 TAAAATT
1 TATAATT
4025474 ATTGATAATA
Statistics
Matches: 30, Mismatches: 3, Indels: 2
0.86 0.09 0.06
Matches are distributed among these distances:
26 10 0.33
27 6 0.20
28 14 0.47
ACGTcount: A:0.51, C:0.03, G:0.00, T:0.46
Consensus pattern (28 bp):
TATAATTTAATAATAATATATAATTACA
Found at i:4025474 original size:91 final size:89
Alignment explanation
Indices: 4025379--4025595 Score: 290
Period size: 91 Copynumber: 2.4 Consensus size: 89
4025369 AATTTAAAAT
* * * *
4025379 AATTATAACTAATAAATTATCTTATATGAATTTGTATAATTTAAAATAATTATTATTACATATAA
1 AATTATAA-TAATAAATT-TCTTATATGAATTTATACAATTTAAAATAATTAATATTAAATATAA
4025444 TTTAATAATAATATATAATTTCATAA
64 TTTAATAATAATATATAATTTCATAA
* *
4025470 AATTATTGATAATAAATTTTCTTATATGAATTTATACAATTTAAAATAATTAATATTAAATTTAA
1 AATTA-TAATAATAAA-TTTCTTATATGAATTTATACAATTTAAAATAATTAATATTAAATATAA
*
4025535 TTTAATAATGATATATAATTTCATAA
64 TTTAATAATAATATATAATTTCATAA
* *
4025561 ATTTCTTAATAATAAAATGTTCTTATATGAATTTA
1 AATT-ATAATAAT-AAAT-TTCTTATATGAATTTA
4025596 CTAAAATCAA
Statistics
Matches: 111, Mismatches: 10, Indels: 9
0.85 0.08 0.07
Matches are distributed among these distances:
91 88 0.79
92 23 0.21
ACGTcount: A:0.47, C:0.04, G:0.03, T:0.46
Consensus pattern (89 bp):
AATTATAATAATAAATTTCTTATATGAATTTATACAATTTAAAATAATTAATATTAAATATAATT
TAATAATAATATATAATTTCATAA
Found at i:4025476 original size:44 final size:43
Alignment explanation
Indices: 4025413--4025555 Score: 121
Period size: 44 Copynumber: 3.2 Consensus size: 43
4025403 TATGAATTTG
4025413 TATAATTTAAAATAATTATTATTACATATAATTTAATAATAATA
1 TATAATTTAAAATAATTATTATTA-ATATAATTTAATAATAATA
* **
4025457 TATAATTTCATAA-AATTATTGA-TAATA-AATTTTCTTATATGAATTTA
1 TATAATTT-AAAATAATTATT-ATTAATATAA-TTTAATA-AT-AA--TA
* * * *
4025504 TACAATTTAAAATAATTAATATTAAATTTAATTTAATAATGATA
1 TATAATTTAAAATAATTATTATT-AATATAATTTAATAATAATA
4025548 TATAATTT
1 TATAATTT
4025556 CATAAATTTC
Statistics
Matches: 77, Mismatches: 11, Indels: 22
0.70 0.10 0.20
Matches are distributed among these distances:
42 2 0.03
43 8 0.10
44 28 0.36
45 6 0.08
46 5 0.06
47 18 0.23
48 8 0.10
49 2 0.03
ACGTcount: A:0.48, C:0.03, G:0.02, T:0.47
Consensus pattern (43 bp):
TATAATTTAAAATAATTATTATTAATATAATTTAATAATAATA
Found at i:4032105 original size:6 final size:6
Alignment explanation
Indices: 4032094--4032124 Score: 62
Period size: 6 Copynumber: 5.2 Consensus size: 6
4032084 TTTAACCGAC
4032094 TTAAAA TTAAAA TTAAAA TTAAAA TTAAAA T
1 TTAAAA TTAAAA TTAAAA TTAAAA TTAAAA T
4032125 ATTCATTCAC
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 25 1.00
ACGTcount: A:0.65, C:0.00, G:0.00, T:0.35
Consensus pattern (6 bp):
TTAAAA
Found at i:4033004 original size:44 final size:44
Alignment explanation
Indices: 4032954--4033040 Score: 147
Period size: 44 Copynumber: 2.0 Consensus size: 44
4032944 AGGTCAAATA
* * *
4032954 ATATTAAAATAACTTACATTAATCAGAGTTTAAGTAAGAAACTG
1 ATATTAAAATAACATACACTAATCAGAGTTTAAGTAAAAAACTG
4032998 ATATTAAAATAACATACACTAATCAGAGTTTAAGTAAAAAACT
1 ATATTAAAATAACATACACTAATCAGAGTTTAAGTAAAAAACT
4033041 AAAAGTAAAA
Statistics
Matches: 40, Mismatches: 3, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
44 40 1.00
ACGTcount: A:0.51, C:0.10, G:0.09, T:0.30
Consensus pattern (44 bp):
ATATTAAAATAACATACACTAATCAGAGTTTAAGTAAAAAACTG
Found at i:4033050 original size:44 final size:44
Alignment explanation
Indices: 4032958--4033051 Score: 134
Period size: 44 Copynumber: 2.1 Consensus size: 44
4032948 CAAATAATAT
* * * * * *
4032958 TAAAATAACTTACATTAATCAGAGTTTAAGTAAGAAACTGATAT
1 TAAAATAACATACACTAATCAGAGTTTAAGTAAAAAACTAAAAG
4033002 TAAAATAACATACACTAATCAGAGTTTAAGTAAAAAACTAAAAG
1 TAAAATAACATACACTAATCAGAGTTTAAGTAAAAAACTAAAAG
4033046 TAAAAT
1 TAAAAT
4033052 TTAATTGGGA
Statistics
Matches: 44, Mismatches: 6, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
44 44 1.00
ACGTcount: A:0.53, C:0.10, G:0.10, T:0.28
Consensus pattern (44 bp):
TAAAATAACATACACTAATCAGAGTTTAAGTAAAAAACTAAAAG
Found at i:4045307 original size:39 final size:37
Alignment explanation
Indices: 4045240--4045332 Score: 98
Period size: 39 Copynumber: 2.5 Consensus size: 37
4045230 ACCAGAATGG
* *
4045240 CACCCAGTGCCTCATCGGATAGTTCGAAGCAATAGTTGA
1 CACCCAGTGCCTCATCGGAAAGTCCGAAG-AA-AGTTGA
* *
4045279 CACCCAGTGTCTCATCGGCAAAG-CCGAAGAAAGTTGG
1 CACCCAGTGCCTCATCGG-AAAGTCCGAAGAAAGTTGA
* *
4045316 TACCCAGTACCTCATCG
1 CACCCAGTGCCTCATCG
4045333 AATCTATCCG
Statistics
Matches: 46, Mismatches: 7, Indels: 4
0.81 0.12 0.07
Matches are distributed among these distances:
37 19 0.41
38 2 0.04
39 22 0.48
40 3 0.07
ACGTcount: A:0.28, C:0.29, G:0.23, T:0.20
Consensus pattern (37 bp):
CACCCAGTGCCTCATCGGAAAGTCCGAAGAAAGTTGA
Found at i:4045696 original size:3 final size:3
Alignment explanation
Indices: 4045688--4045732 Score: 54
Period size: 3 Copynumber: 15.0 Consensus size: 3
4045678 ATTCCCACTC
* * * *
4045688 ATA ATA ATA ATA ATA CTA ATA ATA ATA CTA ATA CTA ATA TTA ATA
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA
4045733 CTTACCTCAC
Statistics
Matches: 34, Mismatches: 8, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
3 34 1.00
ACGTcount: A:0.58, C:0.07, G:0.00, T:0.36
Consensus pattern (3 bp):
ATA
Found at i:4045733 original size:18 final size:18
Alignment explanation
Indices: 4045688--4045734 Score: 76
Period size: 18 Copynumber: 2.6 Consensus size: 18
4045678 ATTCCCACTC
*
4045688 ATAATAATAATAATACTA
1 ATAATAATACTAATACTA
4045706 ATAATAATACTAATACTA
1 ATAATAATACTAATACTA
*
4045724 ATATTAATACT
1 ATAATAATACT
4045735 TACCTCACAT
Statistics
Matches: 27, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
18 27 1.00
ACGTcount: A:0.55, C:0.09, G:0.00, T:0.36
Consensus pattern (18 bp):
ATAATAATACTAATACTA
Found at i:4045734 original size:12 final size:12
Alignment explanation
Indices: 4045692--4045732 Score: 64
Period size: 12 Copynumber: 3.4 Consensus size: 12
4045682 CCACTCATAA
4045692 TAATAATAATAC
1 TAATAATAATAC
4045704 TAATAATAATAC
1 TAATAATAATAC
* *
4045716 TAATACTAATAT
1 TAATAATAATAC
4045728 TAATA
1 TAATA
4045733 CTTACCTCAC
Statistics
Matches: 27, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
12 27 1.00
ACGTcount: A:0.56, C:0.07, G:0.00, T:0.37
Consensus pattern (12 bp):
TAATAATAATAC
Found at i:4046801 original size:21 final size:21
Alignment explanation
Indices: 4046777--4046819 Score: 50
Period size: 21 Copynumber: 2.0 Consensus size: 21
4046767 AATAATAACT
4046777 AATAACTAATAATAAATAATA
1 AATAACTAATAATAAATAATA
* * * *
4046798 AATATCTTATACTAATTAATA
1 AATAACTAATAATAAATAATA
4046819 A
1 A
4046820 GCAAATTAAA
Statistics
Matches: 18, Mismatches: 4, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
21 18 1.00
ACGTcount: A:0.58, C:0.07, G:0.00, T:0.35
Consensus pattern (21 bp):
AATAACTAATAATAAATAATA
Found at i:4048687 original size:13 final size:13
Alignment explanation
Indices: 4048669--4048695 Score: 54
Period size: 13 Copynumber: 2.1 Consensus size: 13
4048659 TATGTTGTCT
4048669 ATATTTATAAATA
1 ATATTTATAAATA
4048682 ATATTTATAAATA
1 ATATTTATAAATA
4048695 A
1 A
4048696 ATGCTGGTTT
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 14 1.00
ACGTcount: A:0.56, C:0.00, G:0.00, T:0.44
Consensus pattern (13 bp):
ATATTTATAAATA
Found at i:4055114 original size:15 final size:15
Alignment explanation
Indices: 4055079--4055120 Score: 52
Period size: 15 Copynumber: 2.9 Consensus size: 15
4055069 TTAAGAATTT
*
4055079 TATTAAATTAT-ATA
1 TATTTAATTATAATA
4055093 T-TTTAATTATAATA
1 TATTTAATTATAATA
*
4055107 TATTTAATAATAAT
1 TATTTAATTATAAT
4055121 TATGTTAAAA
Statistics
Matches: 24, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
13 8 0.33
14 5 0.21
15 11 0.46
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (15 bp):
TATTTAATTATAATA
Found at i:4055354 original size:45 final size:43
Alignment explanation
Indices: 4055254--4055363 Score: 120
Period size: 45 Copynumber: 2.6 Consensus size: 43
4055244 TTTTCCATTA
4055254 TGCTATTACACCTCTATT-C---CATTCAACCAAACACAAGAT
1 TGCTATTACACCTCTATTCCATACATTCAACCAAACACAAGAT
* * ***
4055293 TACTATTACGCCTCTATTCCATTACATTCAACCAAACAGTTGATT
1 TGCTATTACACCTCTATTCCA-TACATTCAACCAAACACAAGA-T
4055338 TGCTATTACACCTCTATTCCAATACA
1 TGCTATTACACCTCTATTCC-ATACA
4055364 CCTCTAATCC
Statistics
Matches: 57, Mismatches: 7, Indels: 8
0.79 0.10 0.11
Matches are distributed among these distances:
39 16 0.28
40 1 0.02
44 16 0.28
45 23 0.40
46 1 0.02
ACGTcount: A:0.33, C:0.29, G:0.05, T:0.33
Consensus pattern (43 bp):
TGCTATTACACCTCTATTCCATACATTCAACCAAACACAAGAT
Found at i:4055365 original size:16 final size:16
Alignment explanation
Indices: 4055344--4055411 Score: 109
Period size: 16 Copynumber: 4.2 Consensus size: 16
4055334 GATTTGCTAT
*
4055344 TACACCTCTATTCCAA
1 TACACCTCTAATCCAA
4055360 TACACCTCTAATCCAA
1 TACACCTCTAATCCAA
*
4055376 TACACCTCTATTCCAA
1 TACACCTCTAATCCAA
*
4055392 TACACCTCTAATCTAA
1 TACACCTCTAATCCAA
4055408 TACA
1 TACA
4055412 GCGAACCAAA
Statistics
Matches: 48, Mismatches: 4, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
16 48 1.00
ACGTcount: A:0.35, C:0.35, G:0.00, T:0.29
Consensus pattern (16 bp):
TACACCTCTAATCCAA
Found at i:4055385 original size:32 final size:32
Alignment explanation
Indices: 4055344--4055411 Score: 127
Period size: 32 Copynumber: 2.1 Consensus size: 32
4055334 GATTTGCTAT
4055344 TACACCTCTATTCCAATACACCTCTAATCCAA
1 TACACCTCTATTCCAATACACCTCTAATCCAA
*
4055376 TACACCTCTATTCCAATACACCTCTAATCTAA
1 TACACCTCTATTCCAATACACCTCTAATCCAA
4055408 TACA
1 TACA
4055412 GCGAACCAAA
Statistics
Matches: 35, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
32 35 1.00
ACGTcount: A:0.35, C:0.35, G:0.00, T:0.29
Consensus pattern (32 bp):
TACACCTCTATTCCAATACACCTCTAATCCAA
Found at i:4085033 original size:52 final size:53
Alignment explanation
Indices: 4084944--4085048 Score: 185
Period size: 52 Copynumber: 2.0 Consensus size: 53
4084934 TTACAAATTC
* *
4084944 TTATAATTCCTAATATTTTTTTATAATTTTGTTTAACTTTTAATAACTCTTTA
1 TTATAATTCCTAATATTTTTTTATAATTTCGTTTAACTTTTAATAACTATTTA
4084997 TTATAATTCCTAATA-TTTTTTATAATTTCGTTTAACTTTTAATAACTATTTA
1 TTATAATTCCTAATATTTTTTTATAATTTCGTTTAACTTTTAATAACTATTTA
4085049 AGAAACAGTT
Statistics
Matches: 50, Mismatches: 2, Indels: 1
0.94 0.04 0.02
Matches are distributed among these distances:
52 35 0.70
53 15 0.30
ACGTcount: A:0.31, C:0.10, G:0.02, T:0.57
Consensus pattern (53 bp):
TTATAATTCCTAATATTTTTTTATAATTTCGTTTAACTTTTAATAACTATTTA
Found at i:4085167 original size:10 final size:10
Alignment explanation
Indices: 4085152--4085203 Score: 50
Period size: 10 Copynumber: 4.9 Consensus size: 10
4085142 TATTTATTAA
4085152 TTTTAATAAT
1 TTTTAATAAT
*
4085162 TTTTAACAAT
1 TTTTAATAAT
4085172 TTTTATTATAAT
1 TTTTA--ATAAT
* *
4085184 TCTTAATAGT
1 TTTTAATAAT
4085194 TTTTCAATAA
1 TTTT-AATAA
4085204 ATTTGTATGT
Statistics
Matches: 33, Mismatches: 6, Indels: 5
0.75 0.14 0.11
Matches are distributed among these distances:
10 21 0.64
11 4 0.12
12 8 0.24
ACGTcount: A:0.37, C:0.06, G:0.02, T:0.56
Consensus pattern (10 bp):
TTTTAATAAT
Found at i:4095119 original size:53 final size:53
Alignment explanation
Indices: 4095050--4095154 Score: 192
Period size: 53 Copynumber: 2.0 Consensus size: 53
4095040 TCTATGCTTA
*
4095050 ATCCAACCGAGTTTCCTATTGAAACTAAGTATTCTCATATCTACCACCCCAAC
1 ATCCAACCGAGCTTCCTATTGAAACTAAGTATTCTCATATCTACCACCCCAAC
*
4095103 ATCCAACCGAGCTTCCTATTGAAATTAAGTATTCTCATATCTACCACCCCAA
1 ATCCAACCGAGCTTCCTATTGAAACTAAGTATTCTCATATCTACCACCCCAA
4095155 AGTGTTCTAT
Statistics
Matches: 50, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
53 50 1.00
ACGTcount: A:0.32, C:0.31, G:0.08, T:0.29
Consensus pattern (53 bp):
ATCCAACCGAGCTTCCTATTGAAACTAAGTATTCTCATATCTACCACCCCAAC
Found at i:4106286 original size:18 final size:19
Alignment explanation
Indices: 4106248--4106288 Score: 55
Period size: 19 Copynumber: 2.2 Consensus size: 19
4106238 TTAAAAAAAT
**
4106248 AATTTTAATTTTTTTTCAA
1 AATTTTAAAGTTTTTTCAA
*
4106267 AATTTTAAAGTTTTTTAAA
1 AATTTTAAAGTTTTTTCAA
4106286 AAT
1 AAT
4106289 ATTTTTTAAG
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:0.39, C:0.02, G:0.02, T:0.56
Consensus pattern (19 bp):
AATTTTAAAGTTTTTTCAA
Found at i:4107676 original size:17 final size:17
Alignment explanation
Indices: 4107651--4107688 Score: 58
Period size: 17 Copynumber: 2.2 Consensus size: 17
4107641 AAAAAAAATT
*
4107651 AATTAAGCCTTTAAAAA
1 AATTAAGCCGTTAAAAA
*
4107668 AATTTAGCCGTTAAAAA
1 AATTAAGCCGTTAAAAA
4107685 AATT
1 AATT
4107689 CAACCTATTG
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
17 19 1.00
ACGTcount: A:0.50, C:0.11, G:0.08, T:0.32
Consensus pattern (17 bp):
AATTAAGCCGTTAAAAA
Found at i:4108427 original size:13 final size:13
Alignment explanation
Indices: 4108409--4108435 Score: 54
Period size: 13 Copynumber: 2.1 Consensus size: 13
4108399 AATTTTTTTA
4108409 TAATTATTAATAT
1 TAATTATTAATAT
4108422 TAATTATTAATAT
1 TAATTATTAATAT
4108435 T
1 T
4108436 TATTCACATT
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 14 1.00
ACGTcount: A:0.44, C:0.00, G:0.00, T:0.56
Consensus pattern (13 bp):
TAATTATTAATAT
Found at i:4115783 original size:3 final size:3
Alignment explanation
Indices: 4115775--4115806 Score: 64
Period size: 3 Copynumber: 10.7 Consensus size: 3
4115765 GAAATATTCA
4115775 ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT AT
1 ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT AT
4115807 ATTTACATTT
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 29 1.00
ACGTcount: A:0.34, C:0.00, G:0.00, T:0.66
Consensus pattern (3 bp):
ATT
Found at i:4132791 original size:15 final size:16
Alignment explanation
Indices: 4132771--4132808 Score: 51
Period size: 16 Copynumber: 2.4 Consensus size: 16
4132761 ATTAAATCAA
4132771 ATAATTATTAA-AAAT
1 ATAATTATTAATAAAT
*
4132786 ATAATTTTTTAATAAAT
1 ATAA-TTATTAATAAAT
4132803 ATAATT
1 ATAATT
4132809 TTTATATGTG
Statistics
Matches: 20, Mismatches: 1, Indels: 3
0.83 0.04 0.12
Matches are distributed among these distances:
15 4 0.20
16 8 0.40
17 8 0.40
ACGTcount: A:0.53, C:0.00, G:0.00, T:0.47
Consensus pattern (16 bp):
ATAATTATTAATAAAT
Found at i:4132797 original size:16 final size:17
Alignment explanation
Indices: 4132778--4132811 Score: 61
Period size: 17 Copynumber: 2.1 Consensus size: 17
4132768 CAAATAATTA
4132778 TTAA-AAATATAATTTT
1 TTAATAAATATAATTTT
4132794 TTAATAAATATAATTTT
1 TTAATAAATATAATTTT
4132811 T
1 T
4132812 ATATGTGTAA
Statistics
Matches: 17, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
16 4 0.24
17 13 0.76
ACGTcount: A:0.47, C:0.00, G:0.00, T:0.53
Consensus pattern (17 bp):
TTAATAAATATAATTTT
Found at i:4133111 original size:31 final size:31
Alignment explanation
Indices: 4133050--4133111 Score: 72
Period size: 31 Copynumber: 2.0 Consensus size: 31
4133040 TATATAAAAA
* *
4133050 ATATATAAAAAAGTTAGTTGATATCTATATT
1 ATATATAAAAAAGTTAGTTAATATCAATATT
* *
4133081 ATATATAAATAAGTTA-TTAATTTCAAATATT
1 ATATATAAAAAAGTTAGTTAATATC-AATATT
4133112 TTTAACATAA
Statistics
Matches: 26, Mismatches: 4, Indels: 2
0.81 0.12 0.06
Matches are distributed among these distances:
30 6 0.23
31 20 0.77
ACGTcount: A:0.47, C:0.03, G:0.06, T:0.44
Consensus pattern (31 bp):
ATATATAAAAAAGTTAGTTAATATCAATATT
Found at i:4134284 original size:30 final size:30
Alignment explanation
Indices: 4134250--4134312 Score: 117
Period size: 30 Copynumber: 2.1 Consensus size: 30
4134240 ACTTATTTTA
4134250 TTGTTAATTTTGTTATTATTTTAAAGGCAT
1 TTGTTAATTTTGTTATTATTTTAAAGGCAT
*
4134280 TTGTTAATTTTGTTATTATTTTAGAGGCAT
1 TTGTTAATTTTGTTATTATTTTAAAGGCAT
4134310 TTG
1 TTG
4134313 CTTGTTAAGT
Statistics
Matches: 32, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
30 32 1.00
ACGTcount: A:0.24, C:0.03, G:0.16, T:0.57
Consensus pattern (30 bp):
TTGTTAATTTTGTTATTATTTTAAAGGCAT
Found at i:4137360 original size:2 final size:2
Alignment explanation
Indices: 4137353--4137382 Score: 60
Period size: 2 Copynumber: 15.0 Consensus size: 2
4137343 ACTCAACTTT
4137353 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
4137383 CAAAATAAAT
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 28 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
TA
Found at i:4138779 original size:3 final size:3
Alignment explanation
Indices: 4138771--4138816 Score: 92
Period size: 3 Copynumber: 15.3 Consensus size: 3
4138761 ACCAAATATG
4138771 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA T
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA T
4138817 GGTGGAATGC
Statistics
Matches: 43, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 43 1.00
ACGTcount: A:0.33, C:0.00, G:0.00, T:0.67
Consensus pattern (3 bp):
TTA
Found at i:4139615 original size:17 final size:17
Alignment explanation
Indices: 4139571--4139615 Score: 56
Period size: 17 Copynumber: 2.6 Consensus size: 17
4139561 TTGAGCATCC
4139571 TTTGGTAGAATCATTCA
1 TTTGGTAGAATCATTCA
*
4139588 TGATGG-AGAATCATTCA
1 T-TTGGTAGAATCATTCA
*
4139605 TTTGGTTGAAT
1 TTTGGTAGAAT
4139616 TTATCCAAGA
Statistics
Matches: 23, Mismatches: 3, Indels: 4
0.77 0.10 0.13
Matches are distributed among these distances:
16 3 0.13
17 17 0.74
18 3 0.13
ACGTcount: A:0.29, C:0.09, G:0.22, T:0.40
Consensus pattern (17 bp):
TTTGGTAGAATCATTCA
Found at i:4140292 original size:15 final size:15
Alignment explanation
Indices: 4140272--4140311 Score: 71
Period size: 15 Copynumber: 2.7 Consensus size: 15
4140262 CTTTGGGCAC
*
4140272 GTGCAAAGTACCTGG
1 GTGCAAAGCACCTGG
4140287 GTGCAAAGCACCTGG
1 GTGCAAAGCACCTGG
4140302 GTGCAAAGCA
1 GTGCAAAGCA
4140312 TTTGTGATTT
Statistics
Matches: 24, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
15 24 1.00
ACGTcount: A:0.30, C:0.23, G:0.33, T:0.15
Consensus pattern (15 bp):
GTGCAAAGCACCTGG
Found at i:4143206 original size:19 final size:19
Alignment explanation
Indices: 4143155--4143205 Score: 68
Period size: 19 Copynumber: 2.6 Consensus size: 19
4143145 ATAAAAATTA
*
4143155 TTTCTTTTGTATTTGAGTTCT
1 TTTCTTTT-T-TTTGAGCTCT
4143176 TTTCTTTTTTTTGAGCTCT
1 TTTCTTTTTTTTGAGCTCT
4143195 TTT-TTTTTTTT
1 TTTCTTTTTTTT
4143206 TTCATTTATA
Statistics
Matches: 29, Mismatches: 1, Indels: 3
0.88 0.03 0.09
Matches are distributed among these distances:
18 8 0.28
19 12 0.41
20 1 0.03
21 8 0.28
ACGTcount: A:0.06, C:0.10, G:0.10, T:0.75
Consensus pattern (19 bp):
TTTCTTTTTTTTGAGCTCT
Found at i:4158558 original size:16 final size:18
Alignment explanation
Indices: 4158518--4158559 Score: 52
Period size: 16 Copynumber: 2.4 Consensus size: 18
4158508 CCTAAAAAAT
4158518 TCAAGAAAATATCTAAGC
1 TCAAGAAAATATCTAAGC
* *
4158536 TCGAGAAAAT-T-TGAGC
1 TCAAGAAAATATCTAAGC
4158552 TCAAGAAA
1 TCAAGAAA
4158560 GTTTAACATT
Statistics
Matches: 21, Mismatches: 3, Indels: 2
0.81 0.12 0.08
Matches are distributed among these distances:
16 11 0.52
17 1 0.05
18 9 0.43
ACGTcount: A:0.48, C:0.14, G:0.17, T:0.21
Consensus pattern (18 bp):
TCAAGAAAATATCTAAGC
Found at i:4158642 original size:45 final size:44
Alignment explanation
Indices: 4158583--4158673 Score: 110
Period size: 45 Copynumber: 2.0 Consensus size: 44
4158573 TTTGGTTCGT
* * *
4158583 TGTATTGGATTAGAGGTGTAATAGAAAATCAACTGTTTGGTTGAA
1 TGTAATGGAATAGAGGCGTAATAG-AAATCAACTGTTTGGTTGAA
* ***
4158628 TGTAATGGAATAGAGGCGTAATAGTAATCTTGTGTTTGGTTGAA
1 TGTAATGGAATAGAGGCGTAATAGAAATCAACTGTTTGGTTGAA
4158672 TG
1 TG
4158674 GAATAGAGGT
Statistics
Matches: 39, Mismatches: 7, Indels: 1
0.83 0.15 0.02
Matches are distributed among these distances:
44 18 0.46
45 21 0.54
ACGTcount: A:0.31, C:0.04, G:0.29, T:0.36
Consensus pattern (44 bp):
TGTAATGGAATAGAGGCGTAATAGAAATCAACTGTTTGGTTGAA
Found at i:4158859 original size:18 final size:17
Alignment explanation
Indices: 4158838--4158872 Score: 52
Period size: 18 Copynumber: 2.0 Consensus size: 17
4158828 TTATTATTAA
*
4158838 ATATATTTTAATTAAAAT
1 ATATAATTTAA-TAAAAT
4158856 ATATAATTTAATAAAAT
1 ATATAATTTAATAAAAT
4158873 TCTTAATAAT
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
17 6 0.38
18 10 0.62
ACGTcount: A:0.54, C:0.00, G:0.00, T:0.46
Consensus pattern (17 bp):
ATATAATTTAATAAAAT
Found at i:4158926 original size:157 final size:157
Alignment explanation
Indices: 4158725--4159041 Score: 580
Period size: 157 Copynumber: 2.0 Consensus size: 157
4158715 TAGAATACCC
*
4158725 TTAGCATAAATTTATTTTGGTAAATGATTATTGTTATTGTTATTTAAATTTTAATAAGATTATTA
1 TTAGCAGAAATTTATTTTGGTAAATGATTATTGTTATTGTTATTTAAATTTTAATAAGATTATTA
* * *
4158790 TTATCAATAATAAATATTTTAATCATATTTAAACATAATTATTATTAAATATATTTTAATTAAAA
66 ATATCAATAATAAATAATTTAATCATATTTAAACATAATTATTATTAAATATATTATAATTAAAA
4158855 TATATAATTTAATAAAATTCTTAATAA
131 TATATAATTTAATAAAATTCTTAATAA
* *
4158882 TTAGCAGAAATTTGTTTTGGTAAATTATTATTGTTATTGTTATTTAAATTTTAATAAGATTATTA
1 TTAGCAGAAATTTATTTTGGTAAATGATTATTGTTATTGTTATTTAAATTTTAATAAGATTATTA
4158947 ATATCAATAATAAATAATTTAATCATATTTAAACATAATTATTATTAAATATATTATAATTAAAA
66 ATATCAATAATAAATAATTTAATCATATTTAAACATAATTATTATTAAATATATTATAATTAAAA
4159012 TATATAATTTAATAAAATTCTTAATAA
131 TATATAATTTAATAAAATTCTTAATAA
4159039 TTA
1 TTA
4159042 ATATTCTTAT
Statistics
Matches: 154, Mismatches: 6, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
157 154 1.00
ACGTcount: A:0.44, C:0.03, G:0.05, T:0.48
Consensus pattern (157 bp):
TTAGCAGAAATTTATTTTGGTAAATGATTATTGTTATTGTTATTTAAATTTTAATAAGATTATTA
ATATCAATAATAAATAATTTAATCATATTTAAACATAATTATTATTAAATATATTATAATTAAAA
TATATAATTTAATAAAATTCTTAATAA
Found at i:4159012 original size:16 final size:16
Alignment explanation
Indices: 4158975--4159016 Score: 52
Period size: 15 Copynumber: 2.7 Consensus size: 16
4158965 TTAATCATAT
*
4158975 TTAAACATA-ATTATTA
1 TTAAA-ATATATTATAA
4158991 TT-AAATATATTATAA
1 TTAAAATATATTATAA
4159006 TTAAAATATAT
1 TTAAAATATAT
4159017 AATTTAATAA
Statistics
Matches: 23, Mismatches: 1, Indels: 4
0.82 0.04 0.14
Matches are distributed among these distances:
14 3 0.13
15 10 0.43
16 10 0.43
ACGTcount: A:0.52, C:0.02, G:0.00, T:0.45
Consensus pattern (16 bp):
TTAAAATATATTATAA
Found at i:4159023 original size:14 final size:15
Alignment explanation
Indices: 4158984--4159025 Score: 52
Period size: 15 Copynumber: 2.9 Consensus size: 15
4158974 TTTAAACATA
*
4158984 ATTATTATTAAATAT
1 ATTATAATTAAATAT
4158999 ATTATAATTAAA-AT
1 ATTATAATTAAATAT
*
4159013 A-TATAATTTAATA
1 ATTATAATTAAATA
4159026 AAATTCTTAA
Statistics
Matches: 24, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
13 9 0.38
14 4 0.17
15 11 0.46
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (15 bp):
ATTATAATTAAATAT
Found at i:4159038 original size:82 final size:82
Alignment explanation
Indices: 4158795--4159044 Score: 215
Period size: 76 Copynumber: 3.1 Consensus size: 82
4158785 TATTATTATC
* *
4158795 AATAATAAATATTTTAATCATATTTAAACATAATTATTATTAAATATATTTTAATTAAAATATAT
1 AATAATAAATAATTTAATCATATTTAAACATAATTATTATTAAATATATTATAATTAAAATATAT
4158860 AATTTAATAAAATTCTT
66 AATTTAATAAAATTCTT
* * * *
4158877 AATAATTAGCAGA-AATTT-GT--T-TTGGT-AA-ATTATTATTGTT--AT-TGTTAT--TTAAA
1 AATAA-TA--A-ATAATTTAATCATATT--TAAACATAATTATTATTAAATATATTATAATTAAA
* * * * *
4158930 TTTTAATAAGATTATTAATA-TC--
60 ATAT-ATAA-TTTAATAAAATTCTT
4158952 AATAATAAATAATTTAATCATATTTAAACATAATTATTATTAAATATATTATAATTAAAATATAT
1 AATAATAAATAATTTAATCATATTTAAACATAATTATTATTAAATATATTATAATTAAAATATAT
4159017 AATTTAATAAAATTCTT
66 AATTTAATAAAATTCTT
*
4159034 AATAATTAATA
1 AATAATAAATA
4159045 TTCTTATATG
Statistics
Matches: 124, Mismatches: 21, Indels: 46
0.65 0.11 0.24
Matches are distributed among these distances:
71 1 0.01
72 6 0.05
73 1 0.01
74 3 0.02
75 8 0.06
76 19 0.15
77 6 0.05
78 13 0.10
79 14 0.11
80 6 0.05
81 19 0.15
82 18 0.15
83 3 0.02
84 1 0.01
85 5 0.04
86 1 0.01
ACGTcount: A:0.48, C:0.03, G:0.03, T:0.46
Consensus pattern (82 bp):
AATAATAAATAATTTAATCATATTTAAACATAATTATTATTAAATATATTATAATTAAAATATAT
AATTTAATAAAATTCTT
Found at i:4159113 original size:120 final size:121
Alignment explanation
Indices: 4158978--4159218 Score: 457
Period size: 120 Copynumber: 2.0 Consensus size: 121
4158968 ATCATATTTA
4158978 AACATAATTATTATTAAATATATTATAATTAAAATATATAATTTAATAAAATTCTTAATAATTAA
1 AACATAATTATTATTAAATATATTATAATTAAAATATATAATTTAATAAAATTCTTAATAATTAA
*
4159043 TATTCTTATATGAATTTACTCAAATCATAATATATGATATTGTAAAATATA-AATT
66 TATTCTTATATGAATTTACTCAAATCATAATATATGATACTGTAAAATATATAATT
*
4159098 AACATAATTATTATTAAATATATTATAATTAAAATGTATAATTTAATAAAATTCTTAATAATTAA
1 AACATAATTATTATTAAATATATTATAATTAAAATATATAATTTAATAAAATTCTTAATAATTAA
4159163 TATTCTTATATGAATTTACTCAAATCATAATATATGATACTGTAAAATATATAATT
66 TATTCTTATATGAATTTACTCAAATCATAATATATGATACTGTAAAATATATAATT
4159219 TAATAAAATT
Statistics
Matches: 118, Mismatches: 2, Indels: 1
0.98 0.02 0.01
Matches are distributed among these distances:
120 114 0.97
121 4 0.03
ACGTcount: A:0.49, C:0.05, G:0.03, T:0.43
Consensus pattern (121 bp):
AACATAATTATTATTAAATATATTATAATTAAAATATATAATTTAATAAAATTCTTAATAATTAA
TATTCTTATATGAATTTACTCAAATCATAATATATGATACTGTAAAATATATAATT
Found at i:4159216 original size:78 final size:78
Alignment explanation
Indices: 4159114--4159295 Score: 323
Period size: 78 Copynumber: 2.4 Consensus size: 78
4159104 ATTATTATTA
* * *
4159114 AATATATTATAAT-TAAAATGTATAATTTAATAAAATTCTTAATAATTAATATTCTTATATGAAT
1 AATATATGATACTGTAAAATATATAATTTAATAAAATTCTTAATAATTAATATTCTTATATGAAT
4159178 TTACTCAAATCAT
66 TTACTCAAATCAT
4159191 AATATATGATACTGTAAAATATATAATTTAATAAAATTCTTAATAATTAATATTCTTATATGAAT
1 AATATATGATACTGTAAAATATATAATTTAATAAAATTCTTAATAATTAATATTCTTATATGAAT
4159256 TTACTCAAATCAT
66 TTACTCAAATCAT
4159269 AATATATGATACTGTAAAATATA-AATT
1 AATATATGATACTGTAAAATATATAATT
4159296 AACATAATTA
Statistics
Matches: 101, Mismatches: 3, Indels: 2
0.95 0.03 0.02
Matches are distributed among these distances:
77 15 0.15
78 86 0.85
ACGTcount: A:0.47, C:0.07, G:0.04, T:0.42
Consensus pattern (78 bp):
AATATATGATACTGTAAAATATATAATTTAATAAAATTCTTAATAATTAATATTCTTATATGAAT
TTACTCAAATCAT
Found at i:4159223 original size:198 final size:197
Alignment explanation
Indices: 4158994--4159406 Score: 772
Period size: 198 Copynumber: 2.1 Consensus size: 197
4158984 ATTATTATTA
* *
4158994 AATATATTATAATTAAAATATATAATTTAATAAAATTCTTAATAATTAATATTCTTATATGAATT
1 AATATATGATACTTAAAATATATAATTTAATAAAATTCTTAATAATTAATATTCTTATATGAATT
*
4159059 TACTCAAATCATAATATATGATATTGTAAAATATAAATTAACATAATTATTATTAAATATATTAT
66 TACTCAAATCATAATATATGATACTGTAAAATATAAATTAACATAATTATTATTAAATATATTAT
*
4159124 AATTAAAATGTATAATTTAATAAAATTCTTAATAATTAATATTCTTATATGAATTTACTCAAATC
131 AATTAAAATATATAATTTAATAAAATTCTTAATAATTAATATTCTTATATGAATTTACTCAAATC
4159189 AT
196 AT
4159191 AATATATGATACTGTAAAATATATAATTTAATAAAATTCTTAATAATTAATATTCTTATATGAAT
1 AATATATGATACT-TAAAATATATAATTTAATAAAATTCTTAATAATTAATATTCTTATATGAAT
4159256 TTACTCAAATCATAATATATGATACTGTAAAATATAAATTAACATAATTATTATTAAATATATTA
65 TTACTCAAATCATAATATATGATACTGTAAAATATAAATTAACATAATTATTATTAAATATATTA
4159321 TAATTAAAATATATAATTTAATAAAATTCTTAATAATTAATATTCTTATATGAATTTACTCAAAT
130 TAATTAAAATATATAATTTAATAAAATTCTTAATAATTAATATTCTTATATGAATTTACTCAAAT
4159386 CAT
195 CAT
4159389 AATATATGATACTATAAA
1 AATATATGATACT-TAAA
4159407 TGAAAATTTG
Statistics
Matches: 210, Mismatches: 5, Indels: 1
0.97 0.02 0.00
Matches are distributed among these distances:
197 11 0.05
198 199 0.95
ACGTcount: A:0.48, C:0.06, G:0.03, T:0.43
Consensus pattern (197 bp):
AATATATGATACTTAAAATATATAATTTAATAAAATTCTTAATAATTAATATTCTTATATGAATT
TACTCAAATCATAATATATGATACTGTAAAATATAAATTAACATAATTATTATTAAATATATTAT
AATTAAAATATATAATTTAATAAAATTCTTAATAATTAATATTCTTATATGAATTTACTCAAATC
AT
Found at i:4159329 original size:120 final size:117
Alignment explanation
Indices: 4159191--4159466 Score: 396
Period size: 120 Copynumber: 2.3 Consensus size: 117
4159181 CTCAAATCAT
* *
4159191 AATATATGATACTGTAAAATATATAATTTAATAAAATTCTTAATAATTAATATTCTTATATGAAT
1 AATATATTATAAT-TAAAATATATAATTTAATAAAATTCTTAATAATTAATATTCTTATATGAAT
*
4159256 TTACTCAAATCATAATATATGATACTGTAAAAT-ATAAA-TT-AACATAATTATTATTA
65 TTACTCAAATCATAATATATGATACTAT-AAATGA-AAATTTGAA-ATAATTA--A-TA
4159312 AATATATTATAATTAAAATATATAATTTAATAAAATTCTTAATAATTAATATTCTTATATGAATT
1 AATATATTATAATTAAAATATATAATTTAATAAAATTCTTAATAATTAATATTCTTATATGAATT
4159377 TACTCAAATCATAATATATGATACTATAAATGAAAATTTGAAATAATTAATA
66 TACTCAAATCATAATATATGATACTATAAATGAAAATTTGAAATAATTAATA
* * * *
4159429 TATCATATTTTATTTAAAATATATGATTTAATAAAATT
1 AAT-ATATTATAATTAAAATATATAATTTAATAAAATT
4159467 TAAAATAATT
Statistics
Matches: 144, Mismatches: 7, Indels: 11
0.89 0.04 0.07
Matches are distributed among these distances:
117 4 0.03
118 32 0.22
119 7 0.05
120 88 0.61
121 13 0.09
ACGTcount: A:0.49, C:0.05, G:0.04, T:0.42
Consensus pattern (117 bp):
AATATATTATAATTAAAATATATAATTTAATAAAATTCTTAATAATTAATATTCTTATATGAATT
TACTCAAATCATAATATATGATACTATAAATGAAAATTTGAAATAATTAATA
Found at i:4159341 original size:14 final size:15
Alignment explanation
Indices: 4159292--4159343 Score: 56
Period size: 15 Copynumber: 3.6 Consensus size: 15
4159282 GTAAAATATA
4159292 AATTAACATA-ATTAT
1 AATTAA-ATATATTAT
*
4159307 TATTAAATATATTAT
1 AATTAAATATATTAT
4159322 AATTAAA-ATA-TAT
1 AATTAAATATATTAT
*
4159335 AATTTAATA
1 AATTAAATA
4159344 AAATTCTTAA
Statistics
Matches: 32, Mismatches: 3, Indels: 5
0.80 0.08 0.12
Matches are distributed among these distances:
13 9 0.28
14 7 0.22
15 16 0.50
ACGTcount: A:0.54, C:0.02, G:0.00, T:0.44
Consensus pattern (15 bp):
AATTAAATATATTAT
Found at i:4159553 original size:24 final size:25
Alignment explanation
Indices: 4159507--4159554 Score: 64
Period size: 26 Copynumber: 1.9 Consensus size: 25
4159497 TATGAATTTG
4159507 TATAATTTAAAATAATAATTATTACA
1 TATAATTTAAAAT-ATAATTATTACA
4159533 TATAATTTAATAAT-TAA-TATTA
1 TATAATTTAA-AATATAATTATTA
4159555 AATTTCATAA
Statistics
Matches: 21, Mismatches: 0, Indels: 4
0.84 0.00 0.16
Matches are distributed among these distances:
24 5 0.24
25 3 0.14
26 10 0.48
27 3 0.14
ACGTcount: A:0.52, C:0.02, G:0.00, T:0.46
Consensus pattern (25 bp):
TATAATTTAAAATATAATTATTACA
Found at i:4159578 original size:92 final size:91
Alignment explanation
Indices: 4159482--4159690 Score: 262
Period size: 92 Copynumber: 2.3 Consensus size: 91
4159472 TAATTATAAC
* * * *
4159482 TAATAAATTATATTTTATGAATTTGTATAATTTAAAATAA-TAATTATTACATATAATTTAATAA
1 TAATAAATTATATTATATGAATTTATACAATTTAAAATAATTAA-TATTAAATATAATTTAAT-A
* *
4159546 TTAATAT-TAAATTTCATAAAATTCTTGA
64 GTAATATAT-AATTTCATAAAATTCTTAA
* *
4159574 TAATAAATTTTCTTATATGAATTTATACAATTTAAAATAATTAATATTAAATATAATTTAATAGT
1 TAATAAATTATATTATATGAATTTATACAATTTAAAATAATTAATATTAAATATAATTTAATAGT
*
4159639 GATATATAATTTCATAAAATTCTTAA
66 AATATATAATTTCATAAAATTCTTAA
*
4159665 TAATAAAATGT-TCTTATATGAATTTA
1 TAAT-AAAT-TATATTATATGAATTTA
4159691 CTAAAATCAA
Statistics
Matches: 104, Mismatches: 9, Indels: 8
0.86 0.07 0.07
Matches are distributed among these distances:
91 28 0.27
92 72 0.69
93 4 0.04
ACGTcount: A:0.46, C:0.04, G:0.04, T:0.46
Consensus pattern (91 bp):
TAATAAATTATATTATATGAATTTATACAATTTAAAATAATTAATATTAAATATAATTTAATAGT
AATATATAATTTCATAAAATTCTTAA
Found at i:4170037 original size:16 final size:17
Alignment explanation
Indices: 4170006--4170038 Score: 59
Period size: 17 Copynumber: 2.0 Consensus size: 17
4169996 ATTAATTAAA
4170006 TTAACTAAATTAATTTT
1 TTAACTAAATTAATTTT
4170023 TTAACTAAA-TAATTTT
1 TTAACTAAATTAATTTT
4170039 CTAAACTCAA
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
16 7 0.44
17 9 0.56
ACGTcount: A:0.42, C:0.06, G:0.00, T:0.52
Consensus pattern (17 bp):
TTAACTAAATTAATTTT
Found at i:4170045 original size:17 final size:17
Alignment explanation
Indices: 4170008--4170050 Score: 52
Period size: 17 Copynumber: 2.5 Consensus size: 17
4169998 TAATTAAATT
*
4170008 AACTAAATTAATTTTTT
1 AACTAAATTAATTTTTA
4170025 AACTAAA-TAATTTTCTA
1 AACTAAATTAATTTT-TA
*
4170042 AACTCAATT
1 AACTAAATT
4170051 TTAATTCCGT
Statistics
Matches: 22, Mismatches: 2, Indels: 3
0.81 0.07 0.11
Matches are distributed among these distances:
16 7 0.32
17 14 0.64
18 1 0.05
ACGTcount: A:0.44, C:0.12, G:0.00, T:0.44
Consensus pattern (17 bp):
AACTAAATTAATTTTTA
Found at i:4171169 original size:11 final size:11
Alignment explanation
Indices: 4171153--4171180 Score: 56
Period size: 11 Copynumber: 2.5 Consensus size: 11
4171143 TATTGTTTAG
4171153 TATTAGTTAAA
1 TATTAGTTAAA
4171164 TATTAGTTAAA
1 TATTAGTTAAA
4171175 TATTAG
1 TATTAG
4171181 ATAACTAGTG
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:0.43, C:0.00, G:0.11, T:0.46
Consensus pattern (11 bp):
TATTAGTTAAA
Found at i:4171593 original size:111 final size:111
Alignment explanation
Indices: 4171399--4171621 Score: 374
Period size: 111 Copynumber: 2.0 Consensus size: 111
4171389 ACATGCATGA
*
4171399 TTTTGGTTAAGAGTTTATTGTTATAAATATTACAAAGCTCGATTTTAAGAAACTTTTTAAACTTT
1 TTTTGGTTAAGAGTTTATTGTTATAAATATCACAAAGCTCGATTTTAAGAAACTTTTTAAACTTT
* * * *
4171464 CACTGTGCTTAAAAATACTATTTTGTAAACCGATTTTTCCAACAGT
66 CACCGTGCTTAAAAATACTATTTTATAAACCAATATTTCCAACAGT
*
4171510 TTTTGGTTAAGAGTTTATTGTTATAAATATCACAATGCTCGATTTTAAGAAACTTTTTAAACTTT
1 TTTTGGTTAAGAGTTTATTGTTATAAATATCACAAAGCTCGATTTTAAGAAACTTTTTAAACTTT
* *
4171575 TACCGTGCTTAAAAATACTATTTTATAAACTAATATTTCCAACAGT
66 CACCGTGCTTAAAAATACTATTTTATAAACCAATATTTCCAACAGT
4171621 T
1 T
4171622 AGGTCCATTC
Statistics
Matches: 104, Mismatches: 8, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
111 104 1.00
ACGTcount: A:0.34, C:0.13, G:0.11, T:0.43
Consensus pattern (111 bp):
TTTTGGTTAAGAGTTTATTGTTATAAATATCACAAAGCTCGATTTTAAGAAACTTTTTAAACTTT
CACCGTGCTTAAAAATACTATTTTATAAACCAATATTTCCAACAGT
Found at i:4176726 original size:10 final size:10
Alignment explanation
Indices: 4176711--4176748 Score: 53
Period size: 9 Copynumber: 4.0 Consensus size: 10
4176701 ATATATATAC
4176711 AATATAAAAA
1 AATATAAAAA
4176721 AATATAAAAA
1 AATATAAAAA
*
4176731 AA-ACAAAAA
1 AATATAAAAA
4176740 AATA-AAAAA
1 AATATAAAAA
4176749 TTTTACCTTT
Statistics
Matches: 26, Mismatches: 1, Indels: 3
0.87 0.03 0.10
Matches are distributed among these distances:
9 13 0.50
10 13 0.50
ACGTcount: A:0.84, C:0.03, G:0.00, T:0.13
Consensus pattern (10 bp):
AATATAAAAA
Found at i:4176866 original size:11 final size:11
Alignment explanation
Indices: 4176830--4176867 Score: 58
Period size: 11 Copynumber: 3.4 Consensus size: 11
4176820 GCCCGATTCC
4176830 CTTCTCTTCTCT
1 CTTC-CTTCTCT
*
4176842 CTCCCTTCTCT
1 CTTCCTTCTCT
4176853 CTTCCTTCTCT
1 CTTCCTTCTCT
4176864 CTTC
1 CTTC
4176868 TTTTTTTTCT
Statistics
Matches: 24, Mismatches: 2, Indels: 1
0.89 0.07 0.04
Matches are distributed among these distances:
11 21 0.88
12 3 0.12
ACGTcount: A:0.00, C:0.47, G:0.00, T:0.53
Consensus pattern (11 bp):
CTTCCTTCTCT
Found at i:4177369 original size:3 final size:3
Alignment explanation
Indices: 4177328--4177398 Score: 54
Period size: 3 Copynumber: 23.3 Consensus size: 3
4177318 AATATCCTTG
* * * * *
4177328 TTA TTT TTA -TA TTA TTA GTA TTG TTA GTA TTA CTA TTA TTA TTA TTA
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA
* *
4177375 TGTA TTA GTA TATA TTT TTA TTA T
1 T-TA TTA TTA T-TA TTA TTA TTA T
4177399 GTACGTGTAT
Statistics
Matches: 51, Mismatches: 14, Indels: 6
0.72 0.20 0.08
Matches are distributed among these distances:
2 2 0.04
3 43 0.84
4 6 0.12
ACGTcount: A:0.30, C:0.01, G:0.07, T:0.62
Consensus pattern (3 bp):
TTA
Found at i:4177395 original size:23 final size:22
Alignment explanation
Indices: 4177340--4177401 Score: 72
Period size: 23 Copynumber: 2.8 Consensus size: 22
4177330 ATTTTTATAT
* *
4177340 TATTAGTATTGTTA-GTATTAC
1 TATTATTATTATTATGTATTAC
*
4177361 TATTATTATTATTATGTATTAG
1 TATTATTATTATTATGTATTAC
*
4177383 TATATATTTTTATTATGTA
1 TAT-TATTATTATTATGTA
4177402 CGTGTATACA
Statistics
Matches: 35, Mismatches: 4, Indels: 2
0.85 0.10 0.05
Matches are distributed among these distances:
21 12 0.34
22 9 0.26
23 14 0.40
ACGTcount: A:0.31, C:0.02, G:0.10, T:0.58
Consensus pattern (22 bp):
TATTATTATTATTATGTATTAC
Found at i:4177408 original size:23 final size:23
Alignment explanation
Indices: 4177335--4177409 Score: 62
Period size: 23 Copynumber: 3.1 Consensus size: 23
4177325 TTGTTATTTT
* *
4177335 TATATTATTAGTATTGTTAGTATTA
1 TATATTATTATTA-TG-TAGTAGTA
*
4177360 CTATTATTATTATTATGTATTAGTA
1 -TA-TATTATTATTATGTAGTAGTA
*
4177385 TATATTTTTATTATGTACGT-GTA
1 TATATTATTATTATGTA-GTAGTA
4177408 TA
1 TA
4177410 CATATATATA
Statistics
Matches: 42, Mismatches: 5, Indels: 7
0.78 0.09 0.13
Matches are distributed among these distances:
23 19 0.45
24 3 0.07
25 6 0.14
26 4 0.10
27 10 0.24
ACGTcount: A:0.31, C:0.03, G:0.11, T:0.56
Consensus pattern (23 bp):
TATATTATTATTATGTAGTAGTA
Found at i:4177471 original size:22 final size:22
Alignment explanation
Indices: 4177428--4177471 Score: 54
Period size: 22 Copynumber: 2.0 Consensus size: 22
4177418 TATTTTCATA
* *
4177428 TTTAATATTTTTTTCACTTTAT
1 TTTAATATTTTATTCAATTTAT
4177450 TTTAATATTTTATT-AATGTTAT
1 TTTAATATTTTATTCAAT-TTAT
4177472 GTTTGTTTCT
Statistics
Matches: 19, Mismatches: 2, Indels: 2
0.83 0.09 0.09
Matches are distributed among these distances:
21 2 0.11
22 17 0.89
ACGTcount: A:0.27, C:0.05, G:0.02, T:0.66
Consensus pattern (22 bp):
TTTAATATTTTATTCAATTTAT
Found at i:4184860 original size:12 final size:12
Alignment explanation
Indices: 4184843--4184867 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
4184833 AAATTTGACT
4184843 CTTATATATATA
1 CTTATATATATA
4184855 CTTATATATATA
1 CTTATATATATA
4184867 C
1 C
4184868 ACATAACATG
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:0.40, C:0.12, G:0.00, T:0.48
Consensus pattern (12 bp):
CTTATATATATA
Found at i:4186978 original size:50 final size:50
Alignment explanation
Indices: 4186854--4187092 Score: 264
Period size: 50 Copynumber: 4.6 Consensus size: 50
4186844 GATAATAACA
* * ** * *
4186854 TGCCAAAGCCATGTCCCAGACATGGTCTTACATGGGATGTTCTCGTGAT-GG
1 TGCCAATGCCATGTCCCAGACATGGTCTTACAGGGGA-CCTCTCAT-CTCGG
* *
4186905 TGCCCATGCCATGTCCCAGACATGGTCTTATAGGGGACCTCTCATCTCGG
1 TGCCAATGCCATGTCCCAGACATGGTCTTACAGGGGACCTCTCATCTCGG
* * * *
4186955 TGCCAACGCCATGTCCCAGACATGGTCTTACATGAGACCTCTCGTCTCGG
1 TGCCAATGCCATGTCCCAGACATGGTCTTACAGGGGACCTCTCATCTCGG
* *
4187005 TGCCCATGCCATGTCCCAGACATGGTCTTACAGGGGACCTCTCATGATCTTAAGG
1 TGCCAATGCCATGTCCCAGACATGGTCTTACAGGGGACCTCTC---ATC-T-CGG
*
4187060 ATGCCAATGCCATGTCCCAGACATAGTCTTACA
1 -TGCCAATGCCATGTCCCAGACATGGTCTTACA
4187093 TGAGATCTCT
Statistics
Matches: 159, Mismatches: 22, Indels: 9
0.84 0.12 0.05
Matches are distributed among these distances:
49 1 0.01
50 90 0.57
51 33 0.21
53 2 0.01
54 1 0.01
55 2 0.01
56 30 0.19
ACGTcount: A:0.22, C:0.30, G:0.23, T:0.26
Consensus pattern (50 bp):
TGCCAATGCCATGTCCCAGACATGGTCTTACAGGGGACCTCTCATCTCGG
Found at i:4187029 original size:100 final size:104
Alignment explanation
Indices: 4186853--4187102 Score: 339
Period size: 100 Copynumber: 2.4 Consensus size: 104
4186843 TGATAATAAC
* **
4186853 ATGCCAAAGCCATGTCCCAGACATGGTCTTACATGGGATGTTCTCGTGATGGTGCCCATGCCATG
1 ATGCCAAAGCCATGTCCCAGACATGGTCTTACATGAGA-CCTCTCGTGATGGTGCCCATGCCATG
* *
4186918 TCCCAGACATGGTCTTATAGGGGACCTCTC-ATC-T-CGG
65 TCCCAGACATGGTCTTACAGGGGACCTCTCAATCTTAAGG
* *
4186955 -TGCCAACGCCATGTCCCAGACATGGTCTTACATGAGACCTCTCGT-CTCGGTGCCCATGCCATG
1 ATGCCAAAGCCATGTCCCAGACATGGTCTTACATGAGACCTCTCGTGAT-GGTGCCCATGCCATG
4187018 TCCCAGACATGGTCTTACAGGGGACCTCTCATGATCTTAAGG
65 TCCCAGACATGGTCTTACAGGGGACCTCTCA--ATCTTAAGG
* * *
4187060 ATGCCAATGCCATGTCCCAGACATAGTCTTACATGAGATCTCT
1 ATGCCAAAGCCATGTCCCAGACATGGTCTTACATGAGACCTCT
4187103 TTACCCAAAT
Statistics
Matches: 131, Mismatches: 10, Indels: 10
0.87 0.07 0.07
Matches are distributed among these distances:
99 1 0.01
100 50 0.38
101 35 0.27
103 3 0.02
104 1 0.01
105 2 0.02
106 39 0.30
ACGTcount: A:0.22, C:0.29, G:0.23, T:0.26
Consensus pattern (104 bp):
ATGCCAAAGCCATGTCCCAGACATGGTCTTACATGAGACCTCTCGTGATGGTGCCCATGCCATGT
CCCAGACATGGTCTTACAGGGGACCTCTCAATCTTAAGG
Found at i:4187218 original size:13 final size:13
Alignment explanation
Indices: 4187197--4187228 Score: 55
Period size: 13 Copynumber: 2.5 Consensus size: 13
4187187 GCTTGGATCA
*
4187197 TCATCAAATAAAT
1 TCATAAAATAAAT
4187210 TCATAAAATAAAT
1 TCATAAAATAAAT
4187223 TCATAA
1 TCATAA
4187229 TTGCTAGAAA
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:0.56, C:0.12, G:0.00, T:0.31
Consensus pattern (13 bp):
TCATAAAATAAAT
Found at i:4187476 original size:30 final size:30
Alignment explanation
Indices: 4187440--4187497 Score: 89
Period size: 30 Copynumber: 1.9 Consensus size: 30
4187430 CCTTGACTCT
*
4187440 AACTTTTTCAAAATTACAATTTTGCCCCTA
1 AACTTTTACAAAATTACAATTTTGCCCCTA
* *
4187470 AACTTTTACATAATTACATTTTTGCCCC
1 AACTTTTACAAAATTACAATTTTGCCCC
4187498 AAGGCTCGGA
Statistics
Matches: 25, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
30 25 1.00
ACGTcount: A:0.31, C:0.24, G:0.03, T:0.41
Consensus pattern (30 bp):
AACTTTTACAAAATTACAATTTTGCCCCTA
Found at i:4188080 original size:5 final size:5
Alignment explanation
Indices: 4188059--4188103 Score: 54
Period size: 5 Copynumber: 8.4 Consensus size: 5
4188049 TTTCTTTTGT
*
4188059 TATATA TATATA TATAA TATAA TATAA TATAA AATAA TAATAA TA
1 TATA-A TATA-A TATAA TATAA TATAA TATAA TATAA T-ATAA TA
4188104 ATTACTTACA
Statistics
Matches: 36, Mismatches: 2, Indels: 3
0.88 0.05 0.07
Matches are distributed among these distances:
5 21 0.58
6 15 0.42
ACGTcount: A:0.60, C:0.00, G:0.00, T:0.40
Consensus pattern (5 bp):
TATAA
Found at i:4194411 original size:68 final size:68
Alignment explanation
Indices: 4194247--4194419 Score: 190
Period size: 69 Copynumber: 2.5 Consensus size: 68
4194237 CTTTCCAAGG
* **
4194247 AAAATCAACTCATATTGCGAGAGATGAGTTGAGCCTCAAGACACGTTGAGGTATTTTTTTTTCTT
1 AAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAAGACACGCCGAGGTATTTTTTTTTCTT
4194312 CTT
66 CTT
* ** *
4194315 CAAAATCAACTCATATTGCGAGAAGTGAGTTGAGCCTCGGGGCACGCCGA-GTATTTTTAGTTTA
1 -AAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAAGACACGCCGAGGTATTTTT--TTT-
*
4194379 TGTT-TT
62 TCTTCTT
** *
4194385 -AAATTGACTCATATTGCGAGAGGTGAGTTAAGCCT
1 AAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCT
4194420 TTTAATTTTT
Statistics
Matches: 89, Mismatches: 12, Indels: 7
0.82 0.11 0.06
Matches are distributed among these distances:
68 39 0.44
69 42 0.47
70 5 0.06
71 3 0.03
ACGTcount: A:0.28, C:0.16, G:0.23, T:0.34
Consensus pattern (68 bp):
AAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAAGACACGCCGAGGTATTTTTTTTTCTT
CTT
Found at i:4194540 original size:69 final size:68
Alignment explanation
Indices: 4194438--4194606 Score: 243
Period size: 69 Copynumber: 2.5 Consensus size: 68
4194428 TTGTTTTTCA
* * * * *
4194438 AAATCAACTCATATTGCTAGAGGTGAGTTGAGCCTCGGGGCACGCTGAGGTATTTTCAATTTTTT
1 AAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACACGCTGAGGTA-ATTCAA-TTTCT
4194503 GTTTT
64 GTTTT
4194508 -AATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACACGCTGAGGTAATTCAATTTCTGT
1 AAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACACGCTGAGGTAATTCAATTTCTGT
4194572 TTT
66 TTT
4194575 CAAAATCAACTCATATTGCGAGAGGTG-GTTGA
1 --AAATCAACTCATATTGCGAGAGGTGAGTTGA
4194607 ACCTTTTAAT
Statistics
Matches: 91, Mismatches: 5, Indels: 7
0.88 0.05 0.07
Matches are distributed among these distances:
67 9 0.10
68 5 0.05
69 53 0.58
70 24 0.26
ACGTcount: A:0.27, C:0.17, G:0.24, T:0.33
Consensus pattern (68 bp):
AAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACACGCTGAGGTAATTCAATTTCTGT
TTT
Found at i:4194656 original size:190 final size:194
Alignment explanation
Indices: 4194247--4195165 Score: 870
Period size: 190 Copynumber: 4.7 Consensus size: 194
4194237 CTTTCCAAGG
* * * *
4194247 AAAATCAACTCATATTGCGAGAGATGAGTTGAGCCTCAAGACACGTTGAGGTATTTT--TTTTTC
1 AAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACACGCTGAGGTATTTTCAATTTT-
* ** * * * * * *
4194310 TTCTTCAAAATCAACTCATATTGCGAGAAGTGAGTTGAGCCTCGGGGCACGCCGA-GTATTTTTA
65 TTGTT-TTAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACACGCTGAGGTATATTCA
* * ** **
4194374 GTTTATGTTTT--AAATTGACTCATATTGCGAGAGGTGAGTT-AAGCCTTTTAATTT-TTGTTTT
129 ATTTCTGTTTTCAAAATCAACTCATATTGCGAGAGGTGAGTTGAA-CCTTTTAATTTCTACTTTT
4194435 TC
193 TC
* * *
4194437 AAAATCAACTCATATTGCTAGAGGTGAGTTGAGCCTCGGGGCACGCTGAGGTATTTTCAATTTTT
1 AAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACACGCTGAGGTATTTTCAATTTTT
4194502 TGTTTTAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACACGCTGAGGTA-ATTCAAT
66 TGTTTTAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACACGCTGAGGTATATTCAAT
4194566 TTCTGTTTTCAAAATCAACTCATATTGCGAGAGGTG-GTTGAACCTTTTAATTTCTAC-TTTTC
131 TTCTGTTTTCAAAATCAACTCATATTGCGAGAGGTGAGTTGAACCTTTTAATTTCTACTTTTTC
4194628 AAAATCAACTCATATTGCGAGA-GTGAGTTGAGCCTCAGGACACGCTGAGGTAATTTTCAA-TTT
1 AAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACACGCTGAGGT-ATTTTCAATTTT
* ** * * *
4194691 CTGTTTTCAAAATCAACT-ATATTGCGAGAAATGAGTTGAGCCTCAAGACACGTTGAGGTATTTT
65 TTGTTTT---AATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACACGCTGAGGTATATT
*
4194755 CAATTTCTGTTTTCAAAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCGGTTCACATG
127 CAATTTCTGTTTTC----AAAATCAACTCATATTGCGAGAGGTGAGTTGA-AC-C--TT----T-
* *
4194820 CTGAGGTATTTTCAATTTCTGTTTTTAAA
179 -T-A---A-TTTC---TAC--TTTTT--C
* * * **
4194849 AAAATCAACTCATATTGCGAGAGGTGAGTTGAG-CTCA-GATTACAC--A-CTATGGT--A----
1 AAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGA-CACGCTGAGGTATTTTCAATTTT
*
4194903 TT-TTTT--TCAATTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACACGCTGAGGTA-ATTTCA
65 TTGTTTTAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACACGCTGAGGTATA-TTCA
*
4194964 ATTTCTGTTTGTCAAGAATCAACTCATATTGCGAGAGGTGGGTTGAACCTTTTAATTTCTACTTT
129 ATTTCTGTTT-TCAA-AATCAACTCATATTGCGAGAGGTGAGTTGAACCTTTTAATTTCTACTTT
4195029 TTC
192 TTC
* * * *
4195032 AAAATCAGCTCATATTGCAAGAGGTGAGTTGAGCCTC-GGGCACGCTGAGGTATTTTCAATTTTG
1 AAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACACGCTGAGGTATTTTCAATTTTT
* *
4195096 TGTTTTAATTTCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACACACGCCGAGGTATTTT
66 TGTTTTAA--TCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGG--ACACGCTGAGGTATATT
4195161 CAATT
127 CAATT
4195166 AAGCCTTTTG
Statistics
Matches: 602, Mismatches: 62, Indels: 121
0.77 0.08 0.15
Matches are distributed among these distances:
183 34 0.06
184 4 0.01
185 6 0.01
186 4 0.01
187 2 0.00
188 1 0.00
190 146 0.24
191 56 0.09
192 69 0.11
193 28 0.05
194 1 0.00
195 1 0.00
197 62 0.10
198 5 0.01
199 20 0.03
200 1 0.00
201 2 0.00
202 2 0.00
203 1 0.00
204 3 0.00
205 29 0.05
206 6 0.01
207 52 0.09
208 3 0.00
209 1 0.00
211 4 0.01
212 2 0.00
213 4 0.01
215 1 0.00
216 2 0.00
217 3 0.00
218 1 0.00
219 5 0.01
220 2 0.00
221 29 0.05
222 10 0.02
ACGTcount: A:0.27, C:0.17, G:0.21, T:0.35
Consensus pattern (194 bp):
AAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACACGCTGAGGTATTTTCAATTTTT
TGTTTTAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACACGCTGAGGTATATTCAAT
TTCTGTTTTCAAAATCAACTCATATTGCGAGAGGTGAGTTGAACCTTTTAATTTCTACTTTTTC
Found at i:4194876 original size:76 final size:74
Alignment explanation
Indices: 4194628--4194886 Score: 361
Period size: 71 Copynumber: 3.5 Consensus size: 74
4194618 TCTACTTTTC
4194628 AAAATCAACTCATATTGCGAGA-GTGAGTTGAGCCTCAGGACACGCTGAGGTAATTTTCAATTTC
1 AAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACACGCTGAGGT-ATTTTCAATTTC
*
4194692 TG-TTTT--C
65 TGTTTTTAAA
** * *
4194699 AAAATCAACT-ATATTGCGAGAAATGAGTTGAGCCTCAAGACACGTTGAGGTATTTTCAATTTCT
1 AAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACACGCTGAGGTATTTTCAATTTCT
*
4194763 GTTTTCAAAA
66 GTTTT-TAAA
*
4194773 AAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTC-GGTTCACATGCTGAGGTATTTTCAATT
1 AAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGG---ACACGCTGAGGTATTTTCAATT
4194837 TCTGTTTTTAAA
63 TCTGTTTTTAAA
4194849 AAAATCAACTCATATTGCGAGAGGTGAGTTGAG-CTCAG
1 AAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAG
4194887 ATTACACACT
Statistics
Matches: 167, Mismatches: 11, Indels: 15
0.87 0.06 0.08
Matches are distributed among these distances:
70 25 0.15
71 39 0.23
74 11 0.07
75 27 0.16
76 37 0.22
77 28 0.17
ACGTcount: A:0.31, C:0.16, G:0.21, T:0.32
Consensus pattern (74 bp):
AAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACACGCTGAGGTATTTTCAATTTCT
GTTTTTAAA
Found at i:4195100 original size:127 final size:129
Alignment explanation
Indices: 4194773--4195133 Score: 370
Period size: 129 Copynumber: 2.8 Consensus size: 129
4194763 GTTTTCAAAA
*
4194773 AAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCGGTTCACATGCTGAGGTATTTTCAATTT
1 AAAATC-ACTCATATTGCGAGAGGTGAGTTGAGCCTCGG---ACACGCTGAGGTATTTTCAATTT
* *
4194838 CTGT-TTTTAAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCTCAGATTACACACTATGGT
62 -TGTGTTTT---AAAATCAACTCATATTGCGAGAGGTGAGTTGAACTC--ATTACACACTATGCT
*
4194902 ATTTTTTTC
121 ATCTTTTTC
*
4194911 --AAT---TCATATTGCGAGAGGTGAGTTGAGCCTCAGGACACGCTGAGGTAATTTCAATTTCTG
1 AAAATCACTCATATTGCGAGAGGTGAGTTGAGCCTC-GGACACGCTGAGGTATTTTCAATTT-TG
* * ** *
4194971 T-TTGTCAAGAATCAACTCATATTGCGAGAGGTGGGTTGAAC-C-TTTTA-A-T-TTCTA-CTTT
64 TGTT-TTAA-AATCAACTCATATTGCGAGAGGTGAGTTGAACTCATTACACACTATGCTATCTTT
4195029 TTC
127 TTC
* *
4195032 AAAATCAGCTCATATTGCAAGAGGTGAGTTGAGCCTCGGGCACGCTGAGGTATTTTCAATTTTGT
1 AAAATCA-CTCATATTGCGAGAGGTGAGTTGAGCCTCGGACACGCTGAGGTATTTTCAATTTTGT
**
4195097 GTTTTAATTTCAACTCATATTGCGAGAGGTGAGTTGA
65 GTTTTAAAATCAACTCATATTGCGAGAGGTGAGTTGA
4195134 GCCTCAGGAC
Statistics
Matches: 196, Mismatches: 17, Indels: 34
0.79 0.07 0.14
Matches are distributed among these distances:
121 6 0.03
122 3 0.02
123 4 0.02
124 28 0.14
125 9 0.05
126 25 0.13
127 27 0.14
128 3 0.02
129 30 0.15
130 27 0.14
131 1 0.01
132 28 0.14
133 2 0.01
136 3 0.02
ACGTcount: A:0.27, C:0.16, G:0.22, T:0.35
Consensus pattern (129 bp):
AAAATCACTCATATTGCGAGAGGTGAGTTGAGCCTCGGACACGCTGAGGTATTTTCAATTTTGTG
TTTTAAAATCAACTCATATTGCGAGAGGTGAGTTGAACTCATTACACACTATGCTATCTTTTTC
Found at i:4195289 original size:82 final size:84
Alignment explanation
Indices: 4195106--4195344 Score: 286
Period size: 82 Copynumber: 2.8 Consensus size: 84
4195096 TGTTTTAATT
*
4195106 TCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACACACGCCGAGGTATTTTCAATTAAGC-
1 TCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGG--ACA--CCGAGGTATTTTCAATT--TCT
* * *
4195170 CTTTTGATTTCTGTTTTTCAAAAAA
60 GTTTTCATTTATGTTTTTCAAAAAA
*
4195195 TCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACACCGAGGTATTTTCCATTTCTGTTTTC
1 TCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACACCGAGGTATTTTCAATTTCTGTTTTC
*
4195260 A-TTATGTTTTT-GAAAAA
66 ATTTATGTTTTTCAAAAAA
** * * *
4195277 TCAACTCATATTGCGAGAAATGAGTTGAGCCTCAAGACACATTGAGGTAATTTCAATTTCTGTTT
1 TCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACAC--CGAGGTATTTTCAATTTCTGTTT
4195342 TCA
64 TCA
4195345 AAATTCAACT
Statistics
Matches: 135, Mismatches: 12, Indels: 11
0.85 0.08 0.07
Matches are distributed among these distances:
82 42 0.31
83 10 0.07
84 28 0.21
85 16 0.12
87 3 0.02
89 36 0.27
ACGTcount: A:0.28, C:0.18, G:0.20, T:0.34
Consensus pattern (84 bp):
TCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACACCGAGGTATTTTCAATTTCTGTTTTC
ATTTATGTTTTTCAAAAAA
Found at i:4195461 original size:73 final size:72
Alignment explanation
Indices: 4195267--4195531 Score: 397
Period size: 72 Copynumber: 3.6 Consensus size: 72
4195257 TTCATTATGT
* *
4195267 TTTTGAAAAATCAACTCATATTGCGAGAAATGAGTTGAGCCTCAAGACACATTGAGGTAATTTCA
1 TTTTCAAAAATCAACTCATATTGCGAGAAATGAGTTGAGCCTCAAGACACGTTGAGGTAATTTCA
4195332 ATTTCTG
66 ATTTCTG
* *
4195339 TTTTCAAAATTCAACTCATATTGCGAGAAATGAGTTGAGCCTCAAGACACGTTGAGGTATTTTCA
1 TTTTCAAAAATCAACTCATATTGCGAGAAATGAGTTGAGCCTCAAGACACGTTGAGGTAATTTCA
4195404 ATTTCTG
66 ATTTCTG
* * *
4195411 CTTTTCAAAATTCAACTCATATTGCGAGAAATGAGTTGAGCCTCAGGACACGCTGAGGTAATTTC
1 -TTTTCAAAAATCAACTCATATTGCGAGAAATGAGTTGAGCCTCAAGACACGTTGAGGTAATTTC
4195476 AATTTCTG
65 AATTTCTG
*
4195484 TTGTCAAAAAAAAATCAACTCATATTGCGA-AAAGTGAGTTGAGCCTCA
1 TTTTC----AAAAATCAACTCATATTGCGAGAAA-TGAGTTGAGCCTCA
4195532 GTTCACATGT
Statistics
Matches: 178, Mismatches: 9, Indels: 8
0.91 0.05 0.04
Matches are distributed among these distances:
72 72 0.40
73 69 0.39
75 3 0.02
76 34 0.19
ACGTcount: A:0.34, C:0.17, G:0.18, T:0.31
Consensus pattern (72 bp):
TTTTCAAAAATCAACTCATATTGCGAGAAATGAGTTGAGCCTCAAGACACGTTGAGGTAATTTCA
ATTTCTG
Found at i:4196721 original size:8 final size:8
Alignment explanation
Indices: 4196701--4196734 Score: 59
Period size: 8 Copynumber: 4.1 Consensus size: 8
4196691 ATACAATATT
4196701 AAAAAATA
1 AAAAAATA
4196709 TAAAAAATA
1 -AAAAAATA
4196718 AAAAAATA
1 AAAAAATA
4196726 AAAAAATA
1 AAAAAATA
4196734 A
1 A
4196735 TATTTTTTTA
Statistics
Matches: 25, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
8 17 0.68
9 8 0.32
ACGTcount: A:0.85, C:0.00, G:0.00, T:0.15
Consensus pattern (8 bp):
AAAAAATA
Found at i:4196856 original size:18 final size:18
Alignment explanation
Indices: 4196833--4196870 Score: 58
Period size: 18 Copynumber: 2.1 Consensus size: 18
4196823 CCGGATTCCC
*
4196833 CTCTCTTCTCTCTCCCTT
1 CTCTCTTCCCTCTCCCTT
*
4196851 CTCTCTTCCCTCTCTCTT
1 CTCTCTTCCCTCTCCCTT
4196869 CT
1 CT
4196871 TTTTTTTCTT
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
18 18 1.00
ACGTcount: A:0.00, C:0.50, G:0.00, T:0.50
Consensus pattern (18 bp):
CTCTCTTCCCTCTCCCTT
Found at i:4196868 original size:11 final size:12
Alignment explanation
Indices: 4196837--4196869 Score: 52
Period size: 11 Copynumber: 2.9 Consensus size: 12
4196827 ATTCCCCTCT
4196837 CTTCTCTC-TCC
1 CTTCTCTCTTCC
4196848 CTTCTCTCTTCC
1 CTTCTCTCTTCC
4196860 C-TCTCTCTTC
1 CTTCTCTCTTC
4196870 TTTTTTTTCT
Statistics
Matches: 21, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
11 17 0.81
12 4 0.19
ACGTcount: A:0.00, C:0.52, G:0.00, T:0.48
Consensus pattern (12 bp):
CTTCTCTCTTCC
Found at i:4197367 original size:3 final size:3
Alignment explanation
Indices: 4197326--4197396 Score: 54
Period size: 3 Copynumber: 23.3 Consensus size: 3
4197316 AATATCCTTG
* * * * *
4197326 TTA TTT TTA -TA TTA TTA GTA TTG TTA GTA TTA CTA TTA TTA TTA TTA
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA
* *
4197373 TGTA TTA GTA TATA TTT TTA TTA T
1 T-TA TTA TTA T-TA TTA TTA TTA T
4197397 GTACGTGTAT
Statistics
Matches: 51, Mismatches: 14, Indels: 6
0.72 0.20 0.08
Matches are distributed among these distances:
2 2 0.04
3 43 0.84
4 6 0.12
ACGTcount: A:0.30, C:0.01, G:0.07, T:0.62
Consensus pattern (3 bp):
TTA
Found at i:4197393 original size:23 final size:22
Alignment explanation
Indices: 4197338--4197399 Score: 72
Period size: 23 Copynumber: 2.8 Consensus size: 22
4197328 ATTTTTATAT
* *
4197338 TATTAGTATTGTTA-GTATTAC
1 TATTATTATTATTATGTATTAC
*
4197359 TATTATTATTATTATGTATTAG
1 TATTATTATTATTATGTATTAC
*
4197381 TATATATTTTTATTATGTA
1 TAT-TATTATTATTATGTA
4197400 CGTGTATACA
Statistics
Matches: 35, Mismatches: 4, Indels: 2
0.85 0.10 0.05
Matches are distributed among these distances:
21 12 0.34
22 9 0.26
23 14 0.40
ACGTcount: A:0.31, C:0.02, G:0.10, T:0.58
Consensus pattern (22 bp):
TATTATTATTATTATGTATTAC
Found at i:4197406 original size:23 final size:23
Alignment explanation
Indices: 4197333--4197407 Score: 62
Period size: 23 Copynumber: 3.1 Consensus size: 23
4197323 TTGTTATTTT
* *
4197333 TATATTATTAGTATTGTTAGTATTA
1 TATATTATTATTA-TG-TAGTAGTA
*
4197358 CTATTATTATTATTATGTATTAGTA
1 -TA-TATTATTATTATGTAGTAGTA
*
4197383 TATATTTTTATTATGTACGT-GTA
1 TATATTATTATTATGTA-GTAGTA
4197406 TA
1 TA
4197408 CATATATATA
Statistics
Matches: 42, Mismatches: 5, Indels: 7
0.78 0.09 0.13
Matches are distributed among these distances:
23 19 0.45
24 3 0.07
25 6 0.14
26 4 0.10
27 10 0.24
ACGTcount: A:0.31, C:0.03, G:0.11, T:0.56
Consensus pattern (23 bp):
TATATTATTATTATGTAGTAGTA
Found at i:4197469 original size:22 final size:22
Alignment explanation
Indices: 4197426--4197469 Score: 54
Period size: 22 Copynumber: 2.0 Consensus size: 22
4197416 TATTTTCATA
* *
4197426 TTTAATATTTTTTTCACTTTAT
1 TTTAATATTTTATTCAATTTAT
4197448 TTTAATATTTTATT-AATGTTAT
1 TTTAATATTTTATTCAAT-TTAT
4197470 GTTTGTTTCT
Statistics
Matches: 19, Mismatches: 2, Indels: 2
0.83 0.09 0.09
Matches are distributed among these distances:
21 2 0.11
22 17 0.89
ACGTcount: A:0.27, C:0.05, G:0.02, T:0.66
Consensus pattern (22 bp):
TTTAATATTTTATTCAATTTAT
Found at i:4216481 original size:120 final size:120
Alignment explanation
Indices: 4216268--4216626 Score: 666
Period size: 120 Copynumber: 3.0 Consensus size: 120
4216258 GTTTTATGAG
* *
4216268 TCAAAGTGGTGGTTCCTTTGCTTTTTTAATTATTAATTTTTGGCTGTATCAACAGTCACAAGAAA
1 TCAAAGTGGTGGTTCCTTTTCTTTTTTAATTATTAAATTTTGGCTGTATCAACAGTCACAAGAAA
*
4216333 CTTTGACAAGAATTTTGGGAGCTTTTGAAAGTTCAGTCTATGTTTTATGCTTGTT
66 CTTTGACAAGAATTTTGGGAACTTTTGAAAGTTCAGTCTATGTTTTATGCTTGTT
4216388 TCAAAGTGGTGGTTCCTTTTCTTTTTTAATTATTAAATTTTGGCTGTATCAACAGTCACAAGAAA
1 TCAAAGTGGTGGTTCCTTTTCTTTTTTAATTATTAAATTTTGGCTGTATCAACAGTCACAAGAAA
4216453 CTTTGACAAGAATTTTGGGAACTTTTGAAAGTTCAGTCTATGTTTTATGCTTGTT
66 CTTTGACAAGAATTTTGGGAACTTTTGAAAGTTCAGTCTATGTTTTATGCTTGTT
*
4216508 TCAAAGTGGTGGTTCCTTTTCTTTTTTAATTATT-AATTTTGGCTGTATCAGCAGTCACAAGAAA
1 TCAAAGTGGTGGTTCCTTTTCTTTTTTAATTATTAAATTTTGGCTGTATCAACAGTCACAAGAAA
*
4216572 CTTTGACAAGAATTTTGGGAACTTTTGAAAGTTCAGTCTAAGTTTTATGCTTGTT
66 CTTTGACAAGAATTTTGGGAACTTTTGAAAGTTCAGTCTATGTTTTATGCTTGTT
4216627 GTATACGTGC
Statistics
Matches: 234, Mismatches: 5, Indels: 1
0.98 0.02 0.00
Matches are distributed among these distances:
119 83 0.35
120 151 0.65
ACGTcount: A:0.26, C:0.13, G:0.18, T:0.43
Consensus pattern (120 bp):
TCAAAGTGGTGGTTCCTTTTCTTTTTTAATTATTAAATTTTGGCTGTATCAACAGTCACAAGAAA
CTTTGACAAGAATTTTGGGAACTTTTGAAAGTTCAGTCTATGTTTTATGCTTGTT
Found at i:4218506 original size:20 final size:20
Alignment explanation
Indices: 4218486--4218523 Score: 60
Period size: 20 Copynumber: 1.9 Consensus size: 20
4218476 ATAAAAAACT
4218486 TTTCATTAT-TTTATTTTAC
1 TTTCATTATATTTATTTTAC
*
4218505 TTTCATTTTATTTATTTTA
1 TTTCATTATATTTATTTTA
4218524 TTTACTTTTG
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
19 8 0.47
20 9 0.53
ACGTcount: A:0.21, C:0.08, G:0.00, T:0.71
Consensus pattern (20 bp):
TTTCATTATATTTATTTTAC
Found at i:4218514 original size:11 final size:9
Alignment explanation
Indices: 4218495--4218537 Score: 50
Period size: 10 Copynumber: 4.4 Consensus size: 9
4218485 TTTTCATTAT
4218495 TTTATTTTA
1 TTTATTTTA
4218504 CTTTCATTTTA
1 -TTT-ATTTTA
4218515 TTTATTTTA
1 TTTATTTTA
*
4218524 TTTACTTTTG
1 TTTA-TTTTA
4218534 TTTA
1 TTTA
4218538 GTTAAAATGA
Statistics
Matches: 30, Mismatches: 1, Indels: 4
0.86 0.03 0.11
Matches are distributed among these distances:
9 10 0.33
10 14 0.47
11 6 0.20
ACGTcount: A:0.19, C:0.07, G:0.02, T:0.72
Consensus pattern (9 bp):
TTTATTTTA
Found at i:4236480 original size:24 final size:24
Alignment explanation
Indices: 4236453--4236501 Score: 62
Period size: 24 Copynumber: 2.0 Consensus size: 24
4236443 AAAAGTTTTC
* *
4236453 TTAACAATAATTCTAAAAAAGAAA
1 TTAAAAATAAATCTAAAAAAGAAA
* *
4236477 TTAAAAATAAATCTTAAAAATAAA
1 TTAAAAATAAATCTAAAAAAGAAA
4236501 T
1 T
4236502 ACAAATTATT
Statistics
Matches: 21, Mismatches: 4, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
24 21 1.00
ACGTcount: A:0.63, C:0.06, G:0.02, T:0.29
Consensus pattern (24 bp):
TTAAAAATAAATCTAAAAAAGAAA
Found at i:4236493 original size:13 final size:13
Alignment explanation
Indices: 4236451--4236501 Score: 52
Period size: 13 Copynumber: 4.1 Consensus size: 13
4236441 AAAAAAGTTT
* *
4236451 TCTTAACAATAAT
1 TCTTAAAAATAAA
* *
4236464 TCTAAAAAAGAAA
1 TCTTAAAAATAAA
4236477 --TTAAAAATAAA
1 TCTTAAAAATAAA
4236488 TCTTAAAAATAAA
1 TCTTAAAAATAAA
4236501 T
1 T
4236502 ACAAATTATT
Statistics
Matches: 30, Mismatches: 6, Indels: 4
0.75 0.15 0.10
Matches are distributed among these distances:
11 9 0.30
13 21 0.70
ACGTcount: A:0.61, C:0.08, G:0.02, T:0.29
Consensus pattern (13 bp):
TCTTAAAAATAAA
Found at i:4236531 original size:20 final size:19
Alignment explanation
Indices: 4236504--4236558 Score: 58
Period size: 20 Copynumber: 2.8 Consensus size: 19
4236494 AAATAAATAC
*
4236504 AAATTA-TTAAAATTATTAA
1 AAATTATTTAAAA-AATTAA
4236523 AAATATATTTAAAAAATTAA
1 AAAT-TATTTAAAAAATTAA
*
4236543 AAATTACGTTAAAAAA
1 AAATTA-TTTAAAAAA
4236559 AATTAAAACT
Statistics
Matches: 31, Mismatches: 2, Indels: 5
0.82 0.05 0.13
Matches are distributed among these distances:
19 6 0.19
20 19 0.61
21 6 0.19
ACGTcount: A:0.62, C:0.02, G:0.02, T:0.35
Consensus pattern (19 bp):
AAATTATTTAAAAAATTAA
Done.