Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: NW_019168205.1 Durio zibethinus cultivar Musang King isolate D1 unplaced genomic scaffold, Duzib1.0 scaffold_440, 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: 26811
ACGTcount: A:0.41, C:0.09, G:0.09, T:0.41
Found at i:1393 original size:24 final size:24
Alignment explanation
Indices: 1366--1414 Score: 73
Period size: 24 Copynumber: 2.0 Consensus size: 24
1356 ATATACATTT
1366 AGTTTTACTT-TTAGTTTTTCACAC
1 AGTTTTACTTCTTAGTTTTTC-CAC
*
1390 AGTTTTATTTCTTAGTTTTTCCAC
1 AGTTTTACTTCTTAGTTTTTCCAC
1414 A
1 A
1415 TTGTATGAGA
Statistics
Matches: 23, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
24 13 0.57
25 10 0.43
ACGTcount: A:0.20, C:0.16, G:0.08, T:0.55
Consensus pattern (24 bp):
AGTTTTACTTCTTAGTTTTTCCAC
Found at i:2413 original size:31 final size:31
Alignment explanation
Indices: 2378--2442 Score: 96
Period size: 31 Copynumber: 2.1 Consensus size: 31
2368 AATTCATATT
*
2378 TAATTCTAATTAATTAA-ATTATAATAATTAA
1 TAATTCTAATTAATTAATATTACAA-AATTAA
*
2409 TAATTCTAATTAATTAATATTCCAAAATTAA
1 TAATTCTAATTAATTAATATTACAAAATTAA
2440 TAA
1 TAA
2443 GTAAAAGATT
Statistics
Matches: 31, Mismatches: 2, Indels: 2
0.89 0.06 0.06
Matches are distributed among these distances:
31 26 0.84
32 5 0.16
ACGTcount: A:0.51, C:0.06, G:0.00, T:0.43
Consensus pattern (31 bp):
TAATTCTAATTAATTAATATTACAAAATTAA
Found at i:3036 original size:17 final size:19
Alignment explanation
Indices: 3002--3038 Score: 51
Period size: 19 Copynumber: 2.1 Consensus size: 19
2992 TTATTATTCT
*
3002 TATATAGTATAGTTATTAA
1 TATATAGTATAGTAATTAA
3021 TATATAGTA-A-TAATTAA
1 TATATAGTATAGTAATTAA
3038 T
1 T
3039 TGTTCTAATT
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
17 7 0.41
18 1 0.06
19 9 0.53
ACGTcount: A:0.46, C:0.00, G:0.08, T:0.46
Consensus pattern (19 bp):
TATATAGTATAGTAATTAA
Found at i:3512 original size:18 final size:16
Alignment explanation
Indices: 3480--3511 Score: 57
Period size: 16 Copynumber: 2.1 Consensus size: 16
3470 TTGAAGTTAT
3480 AAATATATAATTAATA
1 AAATATATAATTAATA
3496 AAATATATAA-TAATA
1 AAATATATAATTAATA
3511 A
1 A
3512 TTTAAATTTG
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
15 6 0.38
16 10 0.62
ACGTcount: A:0.66, C:0.00, G:0.00, T:0.34
Consensus pattern (16 bp):
AAATATATAATTAATA
Found at i:3666 original size:13 final size:13
Alignment explanation
Indices: 3650--3674 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
3640 AATACAAATA
3650 AATCTAATTATTT
1 AATCTAATTATTT
3663 AATCTAATTATT
1 AATCTAATTATT
3675 AATAAAGTAT
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.40, C:0.08, G:0.00, T:0.52
Consensus pattern (13 bp):
AATCTAATTATTT
Found at i:4725 original size:20 final size:22
Alignment explanation
Indices: 4667--4753 Score: 63
Period size: 25 Copynumber: 3.6 Consensus size: 22
4657 TTTTAGTAAT
4667 TAATA-TAATTA-ATCTAATAAAA
1 TAATATTAATTATAT-T-ATAAAA
4689 TAATATTAATTATATTATAATAA
1 TAATATTAATTATATTATAA-AA
4712 TAAATTATTAATTATTATT-TAATATA
1 T-AA-TATTAATTA-TATTATAA-A-A
4738 TAGATTATTAATTATA
1 TA-A-TATTAATTATA
4754 GATATTAAAT
Statistics
Matches: 57, Mismatches: 0, Indels: 13
0.81 0.00 0.19
Matches are distributed among these distances:
22 9 0.16
23 10 0.18
24 4 0.07
25 17 0.30
26 17 0.30
ACGTcount: A:0.51, C:0.01, G:0.01, T:0.47
Consensus pattern (22 bp):
TAATATTAATTATATTATAAAA
Found at i:4735 original size:42 final size:44
Alignment explanation
Indices: 4689--4803 Score: 121
Period size: 46 Copynumber: 2.6 Consensus size: 44
4679 TCTAATAAAA
*
4689 TAATATTAATTA-TATTATAATAATAAATTATTA-ATTATT-AT-T
1 TAATATTAATTATTATTATAATAATAAA-TATTATA-TATTAATCC
*
4731 TAATATATAGATTATTAATTATAGATATTAAATATTATATATTAATCC
1 TAATAT-TA-ATTATT-ATTATA-ATAATAAATATTATATATTAATCC
*
4779 TAATATTAATAATTATTATAATAAT
1 TAATATTAATTATTATTATAATAAT
4804 GTTTACTTAA
Statistics
Matches: 61, Mismatches: 4, Indels: 14
0.77 0.05 0.18
Matches are distributed among these distances:
42 6 0.10
43 2 0.03
44 8 0.13
45 7 0.11
46 20 0.33
47 12 0.20
48 6 0.10
ACGTcount: A:0.48, C:0.02, G:0.02, T:0.49
Consensus pattern (44 bp):
TAATATTAATTATTATTATAATAATAAATATTATATATTAATCC
Found at i:4744 original size:26 final size:26
Alignment explanation
Indices: 4692--4752 Score: 90
Period size: 26 Copynumber: 2.4 Consensus size: 26
4682 AATAAAATAA
4692 TATTAATTA-TATTATAATAATAAAT
1 TATTAATTATTATTATAATAATAAAT
*
4717 TATTAATTATTATT-TAATATATAGAT
1 TATTAATTATTATTATAATA-ATAAAT
4743 TATTAATTAT
1 TATTAATTAT
4753 AGATATTAAA
Statistics
Matches: 33, Mismatches: 1, Indels: 3
0.89 0.03 0.08
Matches are distributed among these distances:
25 14 0.42
26 19 0.58
ACGTcount: A:0.46, C:0.00, G:0.02, T:0.52
Consensus pattern (26 bp):
TATTAATTATTATTATAATAATAAAT
Found at i:4746 original size:16 final size:16
Alignment explanation
Indices: 4725--4765 Score: 52
Period size: 14 Copynumber: 2.8 Consensus size: 16
4715 ATTATTAATT
4725 ATTATTTAATATATAG
1 ATTATTTAATATATAG
4741 ATTA-TTAAT-TATAG
1 ATTATTTAATATATAG
*
4755 A-TATTAAATAT
1 ATTATTTAATAT
4766 TATATATTAA
Statistics
Matches: 22, Mismatches: 1, Indels: 5
0.79 0.04 0.18
Matches are distributed among these distances:
13 2 0.09
14 10 0.45
15 6 0.27
16 4 0.18
ACGTcount: A:0.46, C:0.00, G:0.05, T:0.49
Consensus pattern (16 bp):
ATTATTTAATATATAG
Found at i:4987 original size:26 final size:26
Alignment explanation
Indices: 4925--5006 Score: 76
Period size: 26 Copynumber: 3.1 Consensus size: 26
4915 TGTGTTATTA
4925 AACTATTATTAAAC-AATTATATAATT
1 AACTATTATTAAACTAA-TATATAATT
* *
4951 AATTAACTTATTAAACTAATATCTAATT
1 AACT-A-TTATTAAACTAATATATAATT
* * * *
4979 AACTATTATTTAATTTATATTTAATT
1 AACTATTATTAAACTAATATATAATT
5005 AA
1 AA
5007 AGTTTAATTA
Statistics
Matches: 46, Mismatches: 7, Indels: 6
0.78 0.12 0.10
Matches are distributed among these distances:
26 22 0.48
27 2 0.04
28 20 0.43
29 2 0.04
ACGTcount: A:0.46, C:0.07, G:0.00, T:0.46
Consensus pattern (26 bp):
AACTATTATTAAACTAATATATAATT
Found at i:5475 original size:12 final size:13
Alignment explanation
Indices: 5454--5486 Score: 52
Period size: 12 Copynumber: 2.7 Consensus size: 13
5444 AGTATCATAA
5454 TAAAATTATTAAT
1 TAAAATTATTAAT
5467 TAAAA-TATTAAT
1 TAAAATTATTAAT
5479 T-AAATTAT
1 TAAAATTAT
5487 ATTTGATCTA
Statistics
Matches: 19, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
11 3 0.16
12 11 0.58
13 5 0.26
ACGTcount: A:0.55, C:0.00, G:0.00, T:0.45
Consensus pattern (13 bp):
TAAAATTATTAAT
Found at i:5765 original size:17 final size:17
Alignment explanation
Indices: 5745--5777 Score: 50
Period size: 17 Copynumber: 1.9 Consensus size: 17
5735 ATAATTAATT
5745 AATAATATTA-ATAAATA
1 AATAAT-TTATATAAATA
5762 AATAATTTATATAAAT
1 AATAATTTATATAAAT
5778 TATTTGATAA
Statistics
Matches: 15, Mismatches: 0, Indels: 2
0.88 0.00 0.12
Matches are distributed among these distances:
16 3 0.20
17 12 0.80
ACGTcount: A:0.61, C:0.00, G:0.00, T:0.39
Consensus pattern (17 bp):
AATAATTTATATAAATA
Found at i:6853 original size:19 final size:20
Alignment explanation
Indices: 6816--6860 Score: 74
Period size: 19 Copynumber: 2.2 Consensus size: 20
6806 AATTATAGTT
6816 ATATTATTATTAATAATAATA
1 ATATTATTATT-ATAATAATA
6837 ATATTATTATT-TAATAATA
1 ATATTATTATTATAATAATA
6856 ATATT
1 ATATT
6861 TAATGTTATT
Statistics
Matches: 24, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
19 13 0.54
21 11 0.46
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (20 bp):
ATATTATTATTATAATAATA
Found at i:6853 original size:22 final size:21
Alignment explanation
Indices: 6816--6858 Score: 77
Period size: 22 Copynumber: 2.0 Consensus size: 21
6806 AATTATAGTT
6816 ATATTATTATTAATAATAATA
1 ATATTATTATTAATAATAATA
6837 ATATTATTATTTAATAATAATA
1 ATATTATTA-TTAATAATAATA
6859 TTTAATGTTA
Statistics
Matches: 21, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
21 9 0.43
22 12 0.57
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (21 bp):
ATATTATTATTAATAATAATA
Found at i:7130 original size:13 final size:14
Alignment explanation
Indices: 7107--7148 Score: 52
Period size: 13 Copynumber: 3.0 Consensus size: 14
7097 AATAATTTAA
7107 ATATAATAATTATTT
1 ATAT-ATAATTATTT
7122 AT-TATAATTATATT
1 ATATATAATTAT-TT
7136 ATATATAA-TATTT
1 ATATATAATTATTT
7149 TATGAATTAC
Statistics
Matches: 25, Mismatches: 0, Indels: 6
0.81 0.00 0.19
Matches are distributed among these distances:
13 10 0.40
14 8 0.32
15 7 0.28
ACGTcount: A:0.45, C:0.00, G:0.00, T:0.55
Consensus pattern (14 bp):
ATATATAATTATTT
Found at i:7165 original size:27 final size:28
Alignment explanation
Indices: 7098--7166 Score: 67
Period size: 27 Copynumber: 2.5 Consensus size: 28
7088 TATTTAAATA
7098 ATAATT-TAA-ATATAATAATTATTTATT
1 ATAATTATAATATAT-ATAATTATTTATT
*
7125 ATAATTATATTATATATAA-TA-TT-TT
1 ATAATTATAATATATATAATTATTTATT
7150 ATGAATTACTAATATAT
1 AT-AATTA-TAATATAT
7167 GAATAACAAT
Statistics
Matches: 36, Mismatches: 2, Indels: 8
0.78 0.04 0.17
Matches are distributed among these distances:
25 4 0.11
26 7 0.19
27 15 0.42
28 6 0.17
29 4 0.11
ACGTcount: A:0.46, C:0.01, G:0.01, T:0.51
Consensus pattern (28 bp):
ATAATTATAATATATATAATTATTTATT
Found at i:7992 original size:181 final size:179
Alignment explanation
Indices: 7642--8260 Score: 398
Period size: 181 Copynumber: 3.5 Consensus size: 179
7632 ATACTTCAAA
* * * *
7642 AATTATAAGAGATTTAGCAAATAATTTATTTATCGAACCAGTTCAAATAATTATAATTATTTGAA
1 AATTATAAGAGATTTAGAAAATAATTTATTTACCAAACCAGTTCAAATAATTATAACTATTTGAA
* ** * * *
7707 CAATTATTTATTTCAAATCATTATTGCTTTTTGTTTTGTCATAAAACAATTGTTTTTGTTAAGAT
66 CAATTATCTATTTCAAATCATTATAACTTTTTATTTTGTCATAAAACAATTGGTTCTGTTAAGAT
* * *
7772 AAGTTTGTTCAAAATAAAATAATACTAGTTTATTAATATTTAGAAAATT
131 AAGTTTATTCAAAATAAAATAATACTAATTTAATAATATTTAGAAAATT
* * * * *
7821 AATTAGTAAGAGATTTA-AAAAGTAAATTTGTTTACCAAACCATTTCAAATAGTTTTGACTATTT
1 AATTA-TAAGAGATTTAGAAAA-T-AATTTATTTACCAAACCAGTTCAAATAATTATAACTATTT
* * *
7885 GAATAATTATCTATTTCAAATTATTATAACTTTTTATTTTGTCATTAAACAATTGGTTCTGTTCA
63 GAACAATTATCTATTTCAAATCATTATAACTTTTTATTTTGTCATAAAACAATTGGTTCTGTT-A
* * * * * * * * * *
7950 TGCT-ATTTTATTTAGAATAAATTAGTATTAATTTAATAATATTTCGAAACTT
127 AGATAAGTTTATTCAAAATAAAATAATACTAATTTAATAATATTTAGAAAATT
* * * * * * * **** * * * * * *
8002 AATAACCAAGAAAATTAAAAAATAAGTCTAATTGTTGAACTAGTTAAAATAGTTATGACAATATG
1 AATTA-TAAGAGATTTAGAAAATAA-TTTATTTACCAAACCAGTTCAAATAATTATAACTATTTG
** * ** * * *
8067 AATGATTATCTATTTTAAATCATTATGGC-----CTTTTGTCATAAAACAATT-GTTTTGTT-CG
64 AACAATTATCTATTTCAAATCATTATAACTTTTTATTTTGTCATAAAACAATTGGTTCTGTTAAG
* * *** *
8125 TACAAGCTTATTTTGATTAAAATAATACTAATTTAATAATATTTTA-AAAATT
129 -ATAAGTTTATTCAAAATAAAATAATACTAATTTAATAATA-TTTAGAAAATT
* * * * * * ** *
8177 AATAAGTAAGAAATTTAAAAAATAAATTTGTTTA-CAAATCAGTTTAAATGGTTA-AGACTATTA
1 AATTA-TAAGAGATTTAGAAAAT-AATTTATTTACCAAACCAGTTCAAATAATTATA-ACTATTT
* *
8240 AAACAATTATCTATTTAAAAT
63 GAACAATTATCTATTTCAAAT
8261 TGTTTTGACC
Statistics
Matches: 339, Mismatches: 90, Indels: 27
0.74 0.20 0.06
Matches are distributed among these distances:
173 1 0.00
174 35 0.10
175 66 0.19
176 22 0.06
179 8 0.02
180 14 0.04
181 186 0.55
182 7 0.02
ACGTcount: A:0.41, C:0.08, G:0.09, T:0.42
Consensus pattern (179 bp):
AATTATAAGAGATTTAGAAAATAATTTATTTACCAAACCAGTTCAAATAATTATAACTATTTGAA
CAATTATCTATTTCAAATCATTATAACTTTTTATTTTGTCATAAAACAATTGGTTCTGTTAAGAT
AAGTTTATTCAAAATAAAATAATACTAATTTAATAATATTTAGAAAATT
Found at i:11688 original size:171 final size:171
Alignment explanation
Indices: 11357--11669 Score: 400
Period size: 171 Copynumber: 1.8 Consensus size: 171
11347 CCTATAGCCT
* * *
11357 TAACTATTTGAATTAGTTTAGTAAACAAATTTATTTTTTTAAATCTATTAGTTATTAATTTTCAG
1 TAACTATTTGAATTAGTTTAGTAAACAAATTTATTTTTTCAAATCTACTACTTATTAATTTTCAG
* * * * * * * *
11422 AATATTATTACATTAGTATTTTTTATTTCGAATAAACTTGTATGAATAGAAATAATTGTTTTATG
66 AATATTAATAAATTAATATTTTTTATTACGAATAAACTAGTATGAATAAAAACAATTATTTTATG
11487 AAAAAACAAAAGGTTATAAGAAATTGAAATACAAATAGTCA
131 AAAAAACAAAAGGTTATAAGAAATTGAAATACAAATAGTCA
* * * *
11528 TAACTATTTGAATTGGTTT-GATAAACAGATTTA-TTTTTCAAATCTCCTACTTATTAATTTT-T
1 TAACTATTTGAATTAGTTTAG-TAAACAAATTTATTTTTTCAAATCTACTACTTATTAATTTTCA
*
11590 GAAATATTAATAAATTAATATTATTTTATTACGAATAAGCTAGTAT-AATGAAAAACAATTATTT
65 G-AATATTAATAAATTAATATT-TTTTATTACGAATAAACTAGTATGAAT-AAAAACAATTATTT
**
11654 TATGTCAAAACAAAAG
127 TATGAAAAAACAAAAG
11670 TTCATAATGA
Statistics
Matches: 120, Mismatches: 18, Indels: 8
0.82 0.12 0.05
Matches are distributed among these distances:
169 1 0.01
170 45 0.38
171 74 0.62
ACGTcount: A:0.42, C:0.07, G:0.09, T:0.42
Consensus pattern (171 bp):
TAACTATTTGAATTAGTTTAGTAAACAAATTTATTTTTTCAAATCTACTACTTATTAATTTTCAG
AATATTAATAAATTAATATTTTTTATTACGAATAAACTAGTATGAATAAAAACAATTATTTTATG
AAAAAACAAAAGGTTATAAGAAATTGAAATACAAATAGTCA
Found at i:11950 original size:180 final size:180
Alignment explanation
Indices: 11518--11950 Score: 414
Period size: 180 Copynumber: 2.4 Consensus size: 180
11508 AATTGAAATA
* * * *
11518 CAAATAGTCATAACTATTTGAATTGGTTTGATAAACAGATTTATT-TTTCAAATCTCCTACTTAT
1 CAAATAGTCATAACTATTTGAATTTGTTTGATAAACAAATTT-TTGTTT-AAATTTCTTACTTAT
* * * *
11582 TAATTTTTGAAATATTAATAAATTAATATTATTTTATTACGAATAAGCTAGTATAATGAAAAACA
64 TAATTTTTAAAACATTAATAAAGTAATATTATTTTATTACGAATAAGCTAGTATAATCAAAAACA
* *
11647 ATTATTTTATGTCAAAACAAAAGTTCATAATGATTTGAAATAGATAAATGTT
129 ATTATTTTATGTCAAAACAAAAGGTCATAATGATTTGAAATAGATAAATATT
* * * ** * * * *
11699 CAAAT-GACCATAATTATTTTAA-TTGATTCAACAAACTAATTTATGTTTTAAATCTT-TAACTT
1 CAAATAG-TCATAACTATTTGAATTTG-TTTGATAAACAAATTTTTG-TTTAAAT-TTCTTACTT
** ** ** * *
11761 ACCAATTTTTAAAACATTAATAAAGTAATATTATTTTATTTGGGAA-AA-CTTTTATGATCTAAA
62 ATTAATTTTTAAAACATTAATAAAGTAATATTATTTTA-TTACGAATAAGCTAGTATAATCAAAA
* * * * *
11824 ACAATTGTTTTATGAT-AAAATAAAAGGTCATAATGATTTTAGATAGATAATTATT
126 ACAATTATTTTATG-TCAAAACAAAAGGTCATAATGATTTGAAATAGATAAATATT
* *
11879 CAAATAGTCATAACTATTTGAATTTGTTTGGTAAACAAATTTTTGAATTT-AATTTCTTGCTTAT
1 CAAATAGTCATAACTATTTGAATTTGTTTGATAAACAAATTTTTG--TTTAAATTTCTTACTTAT
11943 TAATTTTT
64 TAATTTTT
11951 TGAATAAGCA
Statistics
Matches: 195, Mismatches: 46, Indels: 23
0.74 0.17 0.09
Matches are distributed among these distances:
179 2 0.01
180 105 0.54
181 79 0.41
182 9 0.05
ACGTcount: A:0.40, C:0.08, G:0.09, T:0.42
Consensus pattern (180 bp):
CAAATAGTCATAACTATTTGAATTTGTTTGATAAACAAATTTTTGTTTAAATTTCTTACTTATTA
ATTTTTAAAACATTAATAAAGTAATATTATTTTATTACGAATAAGCTAGTATAATCAAAAACAAT
TATTTTATGTCAAAACAAAAGGTCATAATGATTTGAAATAGATAAATATT
Found at i:12065 original size:150 final size:149
Alignment explanation
Indices: 11826--12105 Score: 330
Period size: 150 Copynumber: 1.9 Consensus size: 149
11816 GATCTAAAAC
* * * * * *
11826 AATTGTTTTATGATAAAATAAAAGGTCATAATGATTTTAGATAGATAATTATTCAAATAGTCATA
1 AATTATTTTATGATAAAACAAAAGGTCAGAATGATTTGAAATAGATAACTATTCAAATAGTCATA
* * * ** * * * * *
11891 ACTATTTGAATTTGTTTGGTAAACAAATTT-TTGAATTTAATTTCTTGCTTATTAATTTTTTGAA
66 ACTATTTGAACTGGATCAGCAAACAAATTTATT--ATTTAAATCCTTACTTATTAATTTTTAGAA
11955 TAAGCATGTATGAACTGAAAT
129 TAAGCATGTATGAACTGAAAT
* * *
11976 AATTATTTTATGACT-AAACAAAAGGTTAGAATGATTTGAAATAGATAACTATTCTAATAGTCTT
1 AATTATTTTATGA-TAAAACAAAAGGTCAGAATGATTTGAAATAGATAACTATTCAAATAGTCAT
* *
12040 AACTATTTGAACTGGATCAGCAAACACATTTATTTTTTAAATCCTTACTTATTAATTTTTAGAAT
65 AACTATTTGAACTGGATCAGCAAACAAATTTATTATTTAAATCCTTACTTATTAATTTTTAGAAT
12105 A
130 A
12106 TTATTAACTT
Statistics
Matches: 107, Mismatches: 21, Indels: 5
0.80 0.16 0.04
Matches are distributed among these distances:
149 27 0.25
150 77 0.72
151 3 0.03
ACGTcount: A:0.39, C:0.08, G:0.11, T:0.42
Consensus pattern (149 bp):
AATTATTTTATGATAAAACAAAAGGTCAGAATGATTTGAAATAGATAACTATTCAAATAGTCATA
ACTATTTGAACTGGATCAGCAAACAAATTTATTATTTAAATCCTTACTTATTAATTTTTAGAATA
AGCATGTATGAACTGAAAT
Found at i:12562 original size:176 final size:178
Alignment explanation
Indices: 12272--12645 Score: 438
Period size: 176 Copynumber: 2.1 Consensus size: 178
12262 AATAATTGTG
* * *
12272 TATGAATAGAAATAATTGTTTTACAACAAAATAAAATGTCATAACAATTTGAAATAGATAATAGT
1 TATGAATAGAAACAATTGTTTTACAACAAAACAAAATGTCATAACAATTTGAAATAAATAATAGT
** * ** * *
12337 TCAAATGGACATGACTATTTGAACTGGTTATATAAACTAATTAATTTTTTAAATCTTCAACTTAT
66 TCAAATCAACATAACTATTTGAACTACTTATATAAACAAATTAATTTTTTAAATCTTCAACTTAC
*
12402 TAATTTTTAGAATGTTAA-T-A-T-ATTAGTTTTATTCCAAATAAACTTA
131 TAA-TTTTAGAATATTAATTAATTAATTA-TTTTATTCCAAATAAACTTA
* *
12448 TATGAATAGAAACAATTGTTTTATAACAAAACAAAA-GATCATAACAATTTGAAATAAATAATTG
1 TATGAATAGAAACAATTGTTTTACAACAAAACAAAATG-TCATAACAATTTGAAATAAATAATAG
* * **
12512 TTCAAA-CAATCATAACTATTTGAACTCACTTA-GTAAACAAATTTATTTTTTAAATCTTTTACT
65 TTCAAATCAA-CATAACTATTTGAACT-ACTTATATAAACAAATTAATTTTTTAAATCTTCAACT
* * *
12575 TACTAATTTTGGAATATTAATTAATTAAAATTATTTTATTCCAAATAAGCTTG
128 TACTAATTTTAGAATATTAATTAATT--AATTATTTTATTCCAAATAAACTTA
* *
12628 TTTGAACAGAAACAATTG
1 TATGAATAGAAACAATTG
12646 GTCATAATGA
Statistics
Matches: 167, Mismatches: 22, Indels: 14
0.82 0.11 0.07
Matches are distributed among these distances:
175 14 0.08
176 110 0.66
177 4 0.02
178 1 0.01
180 34 0.20
181 4 0.02
ACGTcount: A:0.43, C:0.10, G:0.08, T:0.39
Consensus pattern (178 bp):
TATGAATAGAAACAATTGTTTTACAACAAAACAAAATGTCATAACAATTTGAAATAAATAATAGT
TCAAATCAACATAACTATTTGAACTACTTATATAAACAAATTAATTTTTTAAATCTTCAACTTAC
TAATTTTAGAATATTAATTAATTAATTATTTTATTCCAAATAAACTTA
Found at i:12672 original size:161 final size:161
Alignment explanation
Indices: 12494--12806 Score: 387
Period size: 161 Copynumber: 1.9 Consensus size: 161
12484 GATCATAACA
*
12494 ATTTGAAATAAATAATTGTTCAAACAATCATAACTATTTGAACT-CACTTAGTAAACAAATTTAT
1 ATTTGAAATAAATAATTGTTCAAACAATCATAACTATTTGAA-TGCACTTAGAAAACAAATTTAT
* * * *
12558 TTTTTAAATCTTTTACTTACTAA-TTTTGGAATATTAATTAATTAAAATTATTTTATTCCAAATA
65 TTTCTAAA-ATTTTACTTACTAATTTTTGGAATATTAATAAATTAAAATTATTTTATTCAAAATA
**
12622 AGCTTGTTTGAACAGAAACAATTGGTCATAATG
129 AGCTTGCATGAACAGAAACAATTGGTCATAATG
* * * * *** * **
12655 ATTTGAAATAGATAATTGTTCAAATAGTCGTAACTATTTGAATGTGTTTAGAAAATAGCTTTATT
1 ATTTGAAATAAATAATTGTTCAAACAATCATAACTATTTGAATGCACTTAGAAAACAAATTTATT
* * * **
12720 TTCTAAAATTTTACTTATTAATTTTTGGAATATTAATAAATTTATATTATTTTATTCAAAATGCG
66 TTCTAAAATTTTACTTACTAATTTTTGGAATATTAATAAATTAAAATTATTTTATTCAAAATAAG
*
12785 CTTGCATGAACAGAACCAATTG
131 CTTGCATGAACAGAAACAATTG
12807 TTTTATGATA
Statistics
Matches: 127, Mismatches: 23, Indels: 4
0.82 0.15 0.03
Matches are distributed among these distances:
160 13 0.10
161 114 0.90
ACGTcount: A:0.39, C:0.10, G:0.10, T:0.42
Consensus pattern (161 bp):
ATTTGAAATAAATAATTGTTCAAACAATCATAACTATTTGAATGCACTTAGAAAACAAATTTATT
TTCTAAAATTTTACTTACTAATTTTTGGAATATTAATAAATTAAAATTATTTTATTCAAAATAAG
CTTGCATGAACAGAAACAATTGGTCATAATG
Found at i:13246 original size:181 final size:180
Alignment explanation
Indices: 13019--14475 Score: 1058
Period size: 181 Copynumber: 8.1 Consensus size: 180
13009 TTACTCTTTA
* *** *
13019 TTCAAATAGTCATGACTATTTGAACTTGTTCGGCAAACATATTTATTTTTTAAATCTTTTACTTA
1 TTCAAATAGTCATAACTATTTGAACTTGTTCAATAAACAGATTTATTTTTTAAATCTTTTACTTA
* * * * *
13084 TAAATTATCAAAATATTAATAAATTAATATTATTTTATTCTGAATAAGCTAGTATGAACAAAAGC
66 TTAATTTTCAAAATATTAATAAATTAGTATTATTTTATTCTAAATAAGCTAGTATGAATAAAA-C
* * * *
13149 AATTATTTTATGACAAAATAAAAAGCCATAACAATTTGAAATAAATAATTG
130 AATTATTTTATGACAAAACAAAAGGTCATAACAATTTGAAATAGATAATTG
*
13200 TTCAAATAGTCATAACGATTTGAACTTGTTCAATAAACAGATTTA-TTTTTAAATCTTTTACTTA
1 TTCAAATAGTCATAACTATTTGAACTTGTTCAATAAACAGATTTATTTTTTAAATCTTTTACTTA
* * ** * * * * * *
13264 TTAGTTGTCTTAAT-TTAATAAATTTGTATTATTTTATTCAAAATAAGCTTGCATAAATAGAAAA
66 TTAATTTTCAAAATATTAATAAATTAGTATTATTTTATTCTAAATAAGCTAGTATGAATA-AAAC
* * * *** ** *
13328 AATCATTTTATGACAAAGCAAAAGGTTATAGTGATTTCCAATAAATAATTG
130 AATTATTTTATGACAAAACAAAAGGTCATAACAATTTGAAATAGATAATTG
* * * * * * * * * *
13379 TTCAAATAATTATAATTATTTAAACTTGTTTAGTAAATAGATTCATTTTTTAAATCTCTTAATTA
1 TTCAAATAGTCATAACTATTTGAACTTGTTCAATAAACAGATTTATTTTTTAAATCTTTTACTTA
* * * *
13444 TTAATTTTCAAAATATTAATAACTTAATATTATTTTATT-TCGAATAAGCTTA-TATGAATTGAA
66 TTAATTTTCAAAATATTAATAAATTAGTATTATTTTATTCT-AAATAAGC-TAGTATGAA-TAAA
* * * * * * *
13507 ATAATTTTTTTATGATAGAAGAAAAGGTCATAACAATTTGAAATAGATAACTA
128 ACAATTATTTTATGACAAAACAAAAGGTCATAACAATTTGAAATAGATAATTG
* * * * * * * *
13560 TTCAAATAGTCATGATTGTTTGATCTAGTTCAGTAAACATATTTAATTTTTTACAT-TTTTCACT
1 TTCAAATAGTCATAACTATTTGAACTTGTTCAATAAACAGATTT-ATTTTTTAAATCTTTT-ACT
* * * * *
13624 TATT-ATTTGTCAAAATATTAATAAATTTGTATTATTTTAATCCAAATAAGCTTGAAT-ATATAG
64 TATTAATTT-TCAAAATATTAATAAATTAGTATTATTTTATTCTAAATAAGCTAGTATGA-ATA-
* * * ** ** *
13687 AAACTATTATCTTATAAC-AAACAAAAATTCATAATGATTTGAAATAAATAATTG
126 AAACAATTATTTTATGACAAAACAAAAGGTCATAACAATTTGAAATAGATAATTG
* * ** * *
13741 CTT-AAATAGTC-TTA--ATTTGAAC-CGATTTGATAAGCA-ATTTATTTTTTAAA--ATTT--T
1 -TTCAAATAGTCATAACTATTTGAACTTG-TTCAATAAACAGATTTATTTTTTAAATCTTTTACT
** * * * * * * *
13796 TATTAATTTTTGAAATATTAA-AGATTAGTATTATTTTATTTTGAACAAACTTA-TATAAACAAA
64 TATTAATTTTCAAAATATTAATAAATTAGTATTATTTTATTCTAAATAAGC-TAGTATGAATAAA
13859 A-ACATTAGTTTTATGACAAAACAAAAGGTCATAACAATTTGAAATAGATAATTG
128 ACA-ATTA-TTTTATGACAAAACAAAAGGTCATAACAATTTGAAATAGATAATTG
* * * * * * *
13913 TTCAAATAGTCATAATTATTTGAACTAGTT-AGGA-AAACATAATTATTTTTTAATTCTCTTACC
1 TTCAAATAGTCATAACTATTTGAACTTGTTCA--ATAAACAGATTTATTTTTTAAATCTTTTACT
** * *
13976 TATTAATTTTTGAAATTTTAATAAATTTA-TTTTATTTTATTCTAAATAAGCTAGTATGAATTGA
64 TATTAATTTTCAAAATATTAATAAA-TTAGTATTATTTTATTCTAAATAAGCTAGTATGAA-T-A
* * * * ** *
14040 AAA-TATTGTTTTATGACAAAACAAAAGTTTATAATGATTTGAAATAGATAATTA
126 AAACAATTATTTTATGACAAAACAAAAGGTCATAACAATTTGAAATAGATAATTG
* * * * * * * *
14094 TTCATATAGT-TTAACTATTTGAACTAGTTCGACAAATA-ATTTTATTTTTTAAATCTCTTAGTT
1 TTCAAATAGTCATAACTATTTGAACTTGTTCAATAAACAGA-TTTATTTTTTAAATCTTTTACTT
* * * * * * *
14157 ATTAATTTTTAGAATATTATTAGATTAGTTTTATTTTATT-TCAAATAAGCTTGTATAAATAGAA
65 ATTAATTTTCAAAATATTAATAAATTAGTATTATTTTATTCT-AAATAAGCTAGTATGAATA-AA
* * * * * * *
14221 ATAATTGTTTTATGACAAAACAAAAGGTTATAACAATTTGAAGTATACAACTG
128 ACAATTATTTTATGACAAAACAAAAGGTCATAACAATTTGAAATAGATAATTG
* * ***
14274 CTCTAATAGTCATAACTATTTGAA-TTGGTTTTGTAAACAGATTTATTTTTTAAATC---T-CTT
1 TTCAAATAGTCATAACTATTTGAACTT-GTTCAATAAACAGATTTATTTTTTAAATCTTTTACTT
** * ** *
14334 ATTAATTTTTGAAAGATTAATAAATTAGTATT-TTTTATTCCGAATAAGCTTGTATG-ATCAAAA
65 ATTAATTTTCAAAATATTAATAAATTAGTATTATTTTATTCTAAATAAGCTAGTATGAAT--AAA
* ** * * * *
14397 ACAATTGTCATATGACTAAACAAAAGGTAAGAACAATTTGAAATAGATAATTA
128 ACAATTATTTTATGACAAAACAAAAGGTCATAACAATTTGAAATAGATAATTG
* * * *
14450 TTAAAATGGCCATAATTATTTGAACT
1 TTCAAATAGTCATAACTATTTGAACT
14476 AATTTAGTAA
Statistics
Matches: 997, Mismatches: 227, Indels: 108
0.75 0.17 0.08
Matches are distributed among these distances:
170 7 0.01
171 34 0.03
172 56 0.06
173 6 0.01
175 19 0.02
176 105 0.11
177 35 0.04
178 17 0.02
179 123 0.12
180 218 0.22
181 296 0.30
182 77 0.08
183 4 0.00
ACGTcount: A:0.41, C:0.08, G:0.09, T:0.42
Consensus pattern (180 bp):
TTCAAATAGTCATAACTATTTGAACTTGTTCAATAAACAGATTTATTTTTTAAATCTTTTACTTA
TTAATTTTCAAAATATTAATAAATTAGTATTATTTTATTCTAAATAAGCTAGTATGAATAAAACA
ATTATTTTATGACAAAACAAAAGGTCATAACAATTTGAAATAGATAATTG
Found at i:13912 original size:534 final size:535
Alignment explanation
Indices: 13017--14510 Score: 1275
Period size: 534 Copynumber: 2.8 Consensus size: 535
13007 TGTTACTCTT
* * * * *
13017 TATTCAAATAGTCATGACTATTTGAACTTGTTCGGCAAACATATTT-ATTTTTTAAATCTTTTAC
1 TATTCAAATAGT-ATAACTATTTGAACTAGTTCGACAAATA-ATTTAATTTTTTAAATCTCTTAC
* * * * ** * * * *
13081 TTATAAATTATCAAAATATTAATAAATTAATATTATTTTATTCTGAATAAGCTAGTATGAACA-A
64 TTATTAATTTTCAAAATATTAATAAATTAGTATTATTTTAATCCAAATAAGCTTGAATAAATAGA
* * * * ** * * * *
13145 AAGCAATTATTTTATGACAAAATAAAA-AGCCATAACAATTTGAAATAAATAATTGTTCAAATAG
129 AA-TAATTATCTTATAACAAAACAAAAGA-TTATAACAATTTGAAATAAACAACTGCTCTAATAG
* ** *
13209 TCATAACGATTTGAA-CTTG-TTCAATAAACAGATTTA-TTTTTAAATCTTTTACTTATTAGTTG
192 TCATAAC-ATTTGAATC-CGATT-TGTAAACAGATTTATTTTTTAAATC---T-CTTATTAATT-
* * ** * * ** * *
13271 TCTT--AA-TTTAATAAATTTGTATTATTTTATTCAAAATAAGCTTGCATAAATAGAAAA-AATC
249 T-TTGAAAGATTAATAAATTAGTATT-TTTTATTCCGAACAAACTTATATAAACA-AAAACAATT
* * * *** ** * * *
13332 ATTTTATGACAAAGCAAAAGGTTATAGTGATTTCCAATAAATAATTGTTCAAATAATTATAATTA
311 GTTTTATGACAAAACAAAAGGTAATAACAATTTGAAATAGATAATTGTTCAAATAGTCATAATTA
* * *
13397 TTTAAACTTGTTTAGTAAATAGATTCATTTTTTAAATCTCTTAATTATTAATTTTCAAAATATTA
376 TTTGAACTAGTTTAGTAAATA-ATTCATTTTTTAAATCTCTTAACTATTAATTTTCAAAATATTA
* * * *
13462 ATAACTTAATATTATTTTATT-TCGAATAAGCTTA-TATGAATTG-AAATAATTTTTTTATGATA
440 ATAAATTAATATTATTTTATTCT-AAATAAGC-TAGTATGAATTGAAAAT-ATTGTTTTATGACA
* *
13524 GAAGAAAAGGTCATAACAATTTGAAATAGATAAC
502 AAACAAAAGGTCATAACAATTTGAAATAGATAAC
* * * * * *
13558 TATTCAAATAGTCATGATTGTTTGATCTAGTTCAGTA-AACAT-ATTTAATTTTTTACAT-TTTT
1 TATTCAAATAGT-ATAACTATTTGAACTAGTTC-G-ACAA-ATAATTTAATTTTTTAAATCTCTT
* *
13620 CACTTATT-ATTTGTCAAAATATTAATAAATTTGTATTATTTTAATCCAAATAAGCTTGAATATA
62 -ACTTATTAATTT-TCAAAATATTAATAAATTAGTATTATTTTAATCCAAATAAGCTTGAATAAA
** * *
13684 TAGAAACT-ATTATCTTATAAC-AAACAAAA-ATTCATAATGATTTGAAATAAATAATTGCT-TA
125 TAGAAA-TAATTATCTTATAACAAAACAAAAGATT-ATAACAATTTGAAATAAACAACTGCTCT-
* * *
13745 AATAGTC-TTA-ATTTGAA-CCGATTTGATAAGCA-ATTTATTTTTTAAAAT-TTTTATTAATTT
187 AATAGTCATAACATTTGAATCCGATTTG-TAAACAGATTTATTTTTT-AAATCTCTTATTAATTT
* * **
13805 TTGAAATATTAA-AGATTAGTATTATTTTATTTTGAACAAACTTATATAAACAAAAAC-ATTAGT
250 TTGAAAGATTAATAAATTAGTATT-TTTTATTCCGAACAAACTTATATAAACAAAAACAATT-GT
*
13868 TTTATGACAAAACAAAAGGTCATAACAATTTGAAATAGATAATTGTTCAAATAGTCATAATTATT
313 TTTATGACAAAACAAAAGGTAATAACAATTTGAAATAGATAATTGTTCAAATAGTCATAATTATT
* * * ** *
13933 TGAACTAG-TTAGGAAAACATAATT-ATTTTTTAATTCTCTTACCTATTAATTTTTGAAATTTTA
378 TGAACTAGTTTA-G-TAA-ATAATTCATTTTTTAAATCTCTTAACTATTAATTTTCAAAATATTA
* *
13996 ATAAATTTATTTTATTTTATTCTAAATAAGCTAGTATGAATTGAAAATATTGTTTTATGACAAAA
440 ATAAATTAATATTATTTTATTCTAAATAAGCTAGTATGAATTGAAAATATTGTTTTATGACAAAA
* * ** *
14061 CAAAAGTTTATAATGATTTGAAATAGATAAT
505 CAAAAGGTCATAACAATTTGAAATAGATAAC
* * * *
14092 TATTCATATAGTTTAACTATTTGAACTAGTTCGACAAATAATTTTATTTTTTAAATCTCTTAGTT
1 TATTCAAATAGTATAACTATTTGAACTAGTTCGACAAATAATTTAATTTTTTAAATCTCTTACTT
* * * * * * * *
14157 ATTAATTTTTAGAATATTATTAGATTAGTTTTATTTTATTTCAAATAAGCTTGTATAAATAGAAA
66 ATTAATTTTCAAAATATTAATAAATTAGTATTATTTTAATCCAAATAAGCTTGAATAAATAGAAA
* * * * * *
14222 TAATTGTTTTATGACAAAACAAAAGGTTATAACAATTTGAAGTATACAACTGCTCTAATAGTCAT
131 TAATTATCTTATAACAAAACAAAAGATTATAACAATTTGAAATAAACAACTGCTCTAATAGTCAT
** *
14287 AACTATTTGAATTGGTTTTGTAAACAGATTTATTTTTTAAATCTCTTATTAATTTTTGAAAGATT
196 AAC-ATTTGAATCCGATTTGTAAACAGATTTATTTTTTAAATCTCTTATTAATTTTTGAAAGATT
* * * * * ** *
14352 AATAAATTAGTATTTTTTATTCCGAATAAGCTTGTATGATCAAAAACAATTGTCATATGACTAAA
260 AATAAATTAGTATTTTTTATTCCGAACAAACTTATATAAACAAAAACAATTGTTTTATGACAAAA
* * * * * *
14417 CAAAAGGTAAGAACAATTTGAAATAGATAATTATTAAAATGGCCATAATTATTTGAACTAATTTA
325 CAAAAGGTAATAACAATTTGAAATAGATAATTGTTCAAATAGTCATAATTATTTGAACTAGTTTA
* * *
14482 GTAAACATATTCACTTTTTAAATCACTTA
390 GTAAATA-ATTCATTTTTTAAATCTCTTA
14511 TTTGAATTTG
Statistics
Matches: 768, Mismatches: 142, Indels: 90
0.77 0.14 0.09
Matches are distributed among these distances:
531 4 0.01
532 82 0.11
533 69 0.09
534 225 0.29
535 17 0.02
536 24 0.03
537 150 0.20
538 36 0.05
539 4 0.01
540 2 0.00
541 78 0.10
542 73 0.10
543 4 0.01
ACGTcount: A:0.41, C:0.09, G:0.09, T:0.42
Consensus pattern (535 bp):
TATTCAAATAGTATAACTATTTGAACTAGTTCGACAAATAATTTAATTTTTTAAATCTCTTACTT
ATTAATTTTCAAAATATTAATAAATTAGTATTATTTTAATCCAAATAAGCTTGAATAAATAGAAA
TAATTATCTTATAACAAAACAAAAGATTATAACAATTTGAAATAAACAACTGCTCTAATAGTCAT
AACATTTGAATCCGATTTGTAAACAGATTTATTTTTTAAATCTCTTATTAATTTTTGAAAGATTA
ATAAATTAGTATTTTTTATTCCGAACAAACTTATATAAACAAAAACAATTGTTTTATGACAAAAC
AAAAGGTAATAACAATTTGAAATAGATAATTGTTCAAATAGTCATAATTATTTGAACTAGTTTAG
TAAATAATTCATTTTTTAAATCTCTTAACTATTAATTTTCAAAATATTAATAAATTAATATTATT
TTATTCTAAATAAGCTAGTATGAATTGAAAATATTGTTTTATGACAAAACAAAAGGTCATAACAA
TTTGAAATAGATAAC
Found at i:15888 original size:149 final size:149
Alignment explanation
Indices: 15595--15890 Score: 328
Period size: 149 Copynumber: 2.0 Consensus size: 149
15585 ACATTTGTTT
* * *
15595 TATGACAAAACAAAAGGTCATAATGATTTGGAATAGATAATTATTCATATAGCCTTAACTATTTA
1 TATGACAAAACAAAAGGTCATAACGATTTGGAATAGATAATTATTCAAATAGCCATAACTATTTA
* * * * * * *
15660 AATTGGTTAGGTAAACAAATTTATTTTTTAAATCTATCAATTATTAAATTTCATAATGTTACTAG
66 AACTGATTAGATAAACAAATTTATTTTTTAAATCTATCAATTATCAAATTTCATAATATTAATAA
* *
15725 ATTAGTATTGTTTTATTTC
131 ATTAATATTATTTTATTTC
* * * *
15744 TATGACAAAACAAAAGGTTATAACGA-TTGGAAATATATAATTGTTCAAATAGTCATAACTATTT
1 TATGACAAAACAAAAGGTCATAACGATTTGG-AATAGATAATTATTCAAATAGCCATAACTATTT
* * * * * * * *
15808 GAACTGATTCGATAAATAGATTTTTTTTTTAAATCT-CCTACTTATCAATTTTTCA-AATATTAA
65 AAACTGATTAGATAAACAAATTTATTTTTTAAATCTATC-AATTATCAA-ATTTCATAATATTAA
15871 TAAATTAATATTATTTTATT
128 TAAATTAATATTATTTTATT
15891 CTGAATAGGC
Statistics
Matches: 120, Mismatches: 24, Indels: 6
0.80 0.16 0.04
Matches are distributed among these distances:
148 5 0.04
149 110 0.92
150 5 0.04
ACGTcount: A:0.39, C:0.09, G:0.09, T:0.42
Consensus pattern (149 bp):
TATGACAAAACAAAAGGTCATAACGATTTGGAATAGATAATTATTCAAATAGCCATAACTATTTA
AACTGATTAGATAAACAAATTTATTTTTTAAATCTATCAATTATCAAATTTCATAATATTAATAA
ATTAATATTATTTTATTTC
Found at i:16050 original size:181 final size:181
Alignment explanation
Indices: 15737--16626 Score: 712
Period size: 181 Copynumber: 5.0 Consensus size: 181
15727 TAGTATTGTT
* * * * *
15737 TTATTTCTATGACAAAACAAAAGGTTATAACGATTGGAAATATATAATTGTTCAAATAGTCATAA
1 TTATTT-TATGACAAAAAAAAAGGTCATAACGATTTGAAATAGATAATTGTTCAAATAGCCATAA
* *
15802 CTATTTGAACTGATTCGATAAATAGATTTTTTTTTTAAATCTCCTACTTATCAATTTTTCA-AAT
65 CTATTTGAACTGATTCGATAAATAGATTTATTTTTTAAATCTCTTACTTATCAATTTTT-AGAAT
*
15866 ATTAATAAATTAATATTATTTTATTCTGAATAGGCTTGTATG-A-TGAAAAACAA
129 ATTAATAAATTAATATTATTTTATTCTGAATAAGCTTGTATGAACTG--AAACAA
* * * * *
15919 TTGTTTTATGACAAAAAAAAAGTTCATAATGATTTGAAATAGATAATTTTTTAAAT-GACCATAA
1 TTATTTTATGACAAAAAAAAAGGTCATAACGATTTGAAATAGATAATTGTTCAAATAG-CCATAA
* * * *
15983 TTATTTGAACTGATTCGATAAACTA-ATTTATGTTTTAAATCTCTAACTTATCAATTTTTATAAT
65 CTATTTGAACTGATTCGATAAA-TAGATTTATTTTTTAAATCTCTTACTTATCAATTTTTAGAAT
*** * * *
16047 ATTAATAAGGCAATGTTATTTTATT-TTAGATAAGCTTTTATGAACTGAAACAA
129 ATTAATAAATTAATATTATTTTATTCTGA-ATAAGCTTGTATGAACTGAAACAA
* * * * * * * *
16100 TTATTTTATGATAAAATATAAGGTCATAATGATTTTAAATAGATAACTGTTCAAATAGTCGAAAA
1 TTATTTTATGACAAAAAAAAAGGTCATAACGATTTGAAATAGATAATTGTTCAAATAG-CCATAA
* * * * * *
16165 ATATTTGAACTTATTTGGTAAATAGATTT-TTTTCT-AATTTCTTACTTAAT-AATTTTCT-GAA
65 CTATTTGAACTGATTCGATAAATAGATTTATTTTTTAAATCTCTTACTT-ATCAATTTT-TAGAA
* * * * ** *
16226 TGTTAATAAATTAGTATTATTTTATTTTGAATAAGCATGTATGAGTTGAAGCAA
128 TATTAATAAATTAATATTATTTTATTCTGAATAAGCTTGTATGAACTGAAACAA
* * * * * * * * *
16280 TTATTTTATGACTAAATAAAAGGTCAAAACAATTTGAAGTAGATAATTATTCTAATAGTCTTAAC
1 TTATTTTATGACAAAAAAAAAGGTCATAACGATTTGAAATAGATAATTGTTCAAATAGCCATAAC
* * * * * *
16345 TATTTGAACTGATT-TAGCAAACACATTTATTTTTTAAATC-CTTACTTATTAATGTTTAGAATA
66 TATTTGAACTGATTCGA-TAAATAGATTTATTTTTTAAATCTCTTACTTATCAATTTTTAGAATA
* * * * *
16408 TTATTAATTTAGA-AATATTTTACTCTAAATAAGCTTGT-TGAA-T-AAA-AA
130 TTAATAAATTA-ATATTATTTTATTCTGAATAAGCTTGTATGAACTGAAACAA
* * * * * *
16456 TTAAATGTTTTAGGACAAAACAAAAA--TCATAACAATTGGAGATAAATAATTGTTCAAATAGTC
1 TT--A--TTTTATGACAAAA-AAAAAGGTCATAACGATTTGAAATAGATAATTGTTCAAATAGCC
* * * * *
16519 ATAACTATTTGAACT-AGTTAGGTAAAGAGATTTAGTTTTTAAATCTCTTA--T-T-AATTTTCA
61 ATAACTATTTGAACTGA-TTCGATAAATAGATTTATTTTTTAAATCTCTTACTTATCAATTTTTA
* * * * * **
16579 AAATAGTAATAAAATAGTATTATTTTATTTTGAATAATTTTGTATGAA
125 GAATATTAATAAATTAATATTATTTTATTCTGAATAAGCTTGTATGAA
16627 TATAAACAAT
Statistics
Matches: 559, Mismatches: 122, Indels: 59
0.76 0.16 0.08
Matches are distributed among these distances:
176 40 0.07
177 7 0.01
178 4 0.01
179 94 0.17
180 173 0.31
181 204 0.36
182 35 0.06
183 2 0.00
ACGTcount: A:0.40, C:0.08, G:0.11, T:0.42
Consensus pattern (181 bp):
TTATTTTATGACAAAAAAAAAGGTCATAACGATTTGAAATAGATAATTGTTCAAATAGCCATAAC
TATTTGAACTGATTCGATAAATAGATTTATTTTTTAAATCTCTTACTTATCAATTTTTAGAATAT
TAATAAATTAATATTATTTTATTCTGAATAAGCTTGTATGAACTGAAACAA
Found at i:16071 original size:330 final size:326
Alignment explanation
Indices: 15459--16072 Score: 725
Period size: 330 Copynumber: 1.9 Consensus size: 326
15449 AATAAAAAAA
* * * * *
15459 TGTTCAAATTGTTATAACTAATTGAACTGGTATGGTAAATAGATTTATTTATTAAATCTCTTATT
1 TGTTCAAATAGTCATAACTAATTGAACTGATATGATAAATAGATTTATTTATTAAATCTCTTATC
* *
15524 AATTTTTGAAATATTAATAAATTAATATTATTGTATTTCGAACAAACTTATATGAACAAAAACAT
66 AATTTTTCAAATATTAATAAATTAATATTATTGTATTTCGAACAAACTTATATGAACAAAAACAA
* * * *
15589 TTGTTTTATGACAAAACAAAAGGTCATAATGATTTGGAATAGATAATTATTCATATAGCCTTAAC
131 TTGTTTTATGACAAAAAAAAAGGTCATAATGATTTGAAATAGATAATTATTCAAATAGCCATAAC
* * * * * *
15654 TATTTAAATTGGTTAGGTAAACAAATTTATTTTTTAAATCTATCAATTATTAAATTTCATAATGT
196 TATTTAAACTGATTAGATAAACAAATTTATGTTTTAAATCTATCAATTATCAAATTTCATAATAT
* ** * *
15719 TACTAGATTAGTATTGTTTTATTTCTATGACAAAACAAAAGGTTATAACGATTGGAAATATATAA
261 TAATAGAGCAATATTATTTTATTTCTATGACAAAACAAAAGGTTATAACGATTGGAAATATATAA
15784 T
326 T
* * *
15785 TGTTCAAATAGTCATAACTATTTGAACTGAT-TCGATAAATAGATTTTTTTTTTAAATCTCCTAC
1 TGTTCAAATAGTCATAACTAATTGAACTGATAT-GATAAATAGATTTATTTATTAAA--T-CT-C
* * ** * **
15849 TTATCAATTTTTCAAATATTAATAAATTAATATTATTTTA-TTCTGAATAGGCTTGTATGATGAA
61 TTATCAATTTTTCAAATATTAATAAATTAATATTATTGTATTTC-GAACAAACTTATATGAACAA
* * *
15913 AAACAATTGTTTTATGACAAAAAAAAAGTTCATAATGATTTGAAATAGATAATTTTTTAAAT-GA
125 AAACAATTGTTTTATGACAAAAAAAAAGGTCATAATGATTTGAAATAGATAATTATTCAAATAG-
* * * * * *
15977 CCATAATTATTTGAACTGATTCGATAAACTAATTTATGTTTTAAATCTCT-AACTTATCAATTTT
189 CCATAACTATTTAAACTGATTAGATAAACAAATTTATGTTTTAAATCTATCAA-TTATCAAATTT
* *
16041 TATAATATTAATA-AGGCAATGTTATTTTATTT
253 CATAATATTAATAGA-GCAATATTATTTTATTT
16073 TAGATAAGCT
Statistics
Matches: 236, Mismatches: 43, Indels: 14
0.81 0.15 0.05
Matches are distributed among these distances:
325 1 0.00
326 47 0.20
328 1 0.00
329 9 0.04
330 178 0.75
ACGTcount: A:0.39, C:0.08, G:0.10, T:0.42
Consensus pattern (326 bp):
TGTTCAAATAGTCATAACTAATTGAACTGATATGATAAATAGATTTATTTATTAAATCTCTTATC
AATTTTTCAAATATTAATAAATTAATATTATTGTATTTCGAACAAACTTATATGAACAAAAACAA
TTGTTTTATGACAAAAAAAAAGGTCATAATGATTTGAAATAGATAATTATTCAAATAGCCATAAC
TATTTAAACTGATTAGATAAACAAATTTATGTTTTAAATCTATCAATTATCAAATTTCATAATAT
TAATAGAGCAATATTATTTTATTTCTATGACAAAACAAAAGGTTATAACGATTGGAAATATATAA
T
Found at i:17222 original size:181 final size:180
Alignment explanation
Indices: 16745--17225 Score: 544
Period size: 180 Copynumber: 2.7 Consensus size: 180
16735 GTTGTAATGT
* *
16745 TTTGAAATAGATAATTATTAAGATAGTCATAACTATTTGAACTTGTTCGATAAA-CAGATTTATT
1 TTTGAAATAGATAATTATTCAGATAGTCATAACTATTTGAACTTGTTCGATAAATTA-ATTTA-T
* * * * *
16809 TTTTTAATTCTCTTACTTTTTAATT-TTTGGAATATTAATAAATTAGTATTATTTTATTTCAAAT
64 TTTTTAAATCTTTTACTTATTAATTGTTT--AATATTAATAAATTAGTATTATTTTAATCCAAAT
** * * * *
16873 AACCTAACATGAATTGAAACAATTGCTTTATTATAAAACAAAATGTTACAATGA
127 AACCTAACATGAACGGAAACAATTGCTTTATGATAAAACAAAAAGGTACAACGA
* * * * *
16927 TTTGAAGTAGATAATTATTCAAATAGTCATGACTATTTGAACTTGTT-TAGTAAACTT-ATATA-
1 TTTGAAATAGATAATTATTCAGATAGTCATAACTATTTGAACTTGTTCGA-TAAA-TTAATTTAT
* * *
16989 TTTTTAAATCTTTTACTTATTAATTGTTGAAATATTAATAAATCAATATTATTTTAATCCAAATA
64 TTTTTAAATCTTTTACTTATTAATTGTT-TAATATTAATAAATTAGTATTATTTTAATCCAAATA
* * * * * *
17054 AGCTCATATGGACGGAAGCAATTGTTTTATGATAAAACAAAAAGGT-CATACGAA
128 ACCTAACATGAACGGAAACAATTGCTTTATGATAAAACAAAAAGGTACA-ACG-A
* * *
17108 TTTGAAATAAATAATTATTCAGATAGTCATAACGATTTGAATTTGTTCGATAAATTAATTTATTT
1 TTTGAAATAGATAATTATTCAGATAGTCATAACTATTTGAACTTGTTCGATAAATTAATTTATTT
*
17173 TTTAAATCTTTTACTTATTAATTGTCTTAAT-TTAATAAATTTGTATTATTTTA
66 TTTAAATCTTTTACTTATTAATTGT-TTAATATTAATAAATTAGTATTATTTTA
17226 TTTGAAGTAA
Statistics
Matches: 249, Mismatches: 39, Indels: 23
0.80 0.13 0.07
Matches are distributed among these distances:
179 2 0.01
180 92 0.37
181 72 0.29
182 82 0.33
183 1 0.00
ACGTcount: A:0.38, C:0.08, G:0.10, T:0.44
Consensus pattern (180 bp):
TTTGAAATAGATAATTATTCAGATAGTCATAACTATTTGAACTTGTTCGATAAATTAATTTATTT
TTTAAATCTTTTACTTATTAATTGTTTAATATTAATAAATTAGTATTATTTTAATCCAAATAACC
TAACATGAACGGAAACAATTGCTTTATGATAAAACAAAAAGGTACAACGA
Found at i:17873 original size:19 final size:20
Alignment explanation
Indices: 17835--17874 Score: 55
Period size: 19 Copynumber: 2.0 Consensus size: 20
17825 AATTAGTAAA
* *
17835 ATAAATTATTGTAGTAATTT
1 ATAAATAATTGTAATAATTT
17855 ATAAATAATT-TAATAATTT
1 ATAAATAATTGTAATAATTT
17874 A
1 A
17875 ATAATATTAA
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
19 9 0.50
20 9 0.50
ACGTcount: A:0.47, C:0.00, G:0.05, T:0.47
Consensus pattern (20 bp):
ATAAATAATTGTAATAATTT
Found at i:17878 original size:20 final size:21
Alignment explanation
Indices: 17834--17892 Score: 59
Period size: 20 Copynumber: 2.8 Consensus size: 21
17824 AAATTAGTAA
* * *
17834 AATAAATTATTGTAGTAATTT
1 AATAAATAATTATAATAATTT
17855 -ATAAATAATT-TAATAATTT
1 AATAAATAATTATAATAATTT
17874 AATAATATTAATTATAATA
1 AATAA-A-TAATTATAATA
17893 TTCACCCTGT
Statistics
Matches: 32, Mismatches: 2, Indels: 6
0.80 0.05 0.15
Matches are distributed among these distances:
19 8 0.25
20 13 0.41
21 1 0.03
22 5 0.16
23 5 0.16
ACGTcount: A:0.51, C:0.00, G:0.03, T:0.46
Consensus pattern (21 bp):
AATAAATAATTATAATAATTT
Found at i:18155 original size:8 final size:8
Alignment explanation
Indices: 18117--18296 Score: 60
Period size: 8 Copynumber: 22.0 Consensus size: 8
18107 AATTTATCAT
*
18117 TAATTTTA
1 TAATATTA
18125 TAATATTAA
1 TAATATT-A
18134 TTAAT-TATA
1 -TAATAT-TA
*
18143 AAATATTA
1 TAATATTA
18151 TAATACTTA
1 TAATA-TTA
18160 TAATATTA
1 TAATATTA
18168 T-A-A-T-
1 TAATATTA
18172 TAATATTA
1 TAATATTA
18180 TTAA-ATTA
1 -TAATATTA
*
18188 TAAAATTA
1 TAATATTA
*
18196 T-CTATTA
1 TAATATTA
18203 CTTTAA-ATTTA
1 ---TAATA-TTA
18214 TAAATAATT-
1 T-AAT-ATTA
18223 TAATAATT-
1 TAAT-ATTA
*
18231 TAATAATA
1 TAATATTA
*
18239 TTA-ATTA
1 TAATATTA
18246 TAATATTA
1 TAATATTA
18254 TAAGTATTA
1 TAA-TATTA
18263 TAATATTTTA
1 TAATA--TTA
*
18273 TAAT-TAA
1 TAATATTA
18280 TTAATATTA
1 -TAATATTA
*
18289 TAAAATTA
1 TAATATTA
18297 ATGATAAATT
Statistics
Matches: 133, Mismatches: 13, Indels: 52
0.67 0.07 0.26
Matches are distributed among these distances:
4 1 0.01
5 2 0.02
6 2 0.02
7 18 0.14
8 62 0.47
9 28 0.21
10 16 0.12
11 4 0.03
ACGTcount: A:0.49, C:0.02, G:0.01, T:0.49
Consensus pattern (8 bp):
TAATATTA
Found at i:18166 original size:17 final size:17
Alignment explanation
Indices: 18122--18296 Score: 86
Period size: 17 Copynumber: 10.2 Consensus size: 17
18112 ATCATTAATT
*
18122 TTATAATATTA-ATTAA
1 TTATAATATTATAATAA
*
18138 TTATAAAATATTATAATAC
1 TTAT--AATATTATAATAA
18157 TTATAATATTATAATTAATA
1 TTATAATATTATAA-T-A-A
18177 TTATTAA-ATTATAA-AA
1 TTA-TAATATTATAATAA
* *
18193 TTAT-CTATTACTTTAA-AT
1 TTATAATATTA---TAATAA
18211 TTATAAATAATT-TAATAA
1 TTAT-AAT-ATTATAATAA
*
18229 TT-TAATA--ATATTAA
1 TTATAATATTATAATAA
18243 TTATAATATTATAAGT-A
1 TTATAATATTATAA-TAA
*
18260 TTATAATATT-TTATAA
1 TTATAATATTATAATAA
18276 TTAATTAATATTATAA-AA
1 TT-A-TAATATTATAATAA
18294 TTA
1 TTA
18297 ATGATAAATT
Statistics
Matches: 124, Mismatches: 11, Indels: 47
0.68 0.06 0.26
Matches are distributed among these distances:
14 7 0.06
15 12 0.10
16 16 0.13
17 31 0.25
18 31 0.25
19 10 0.08
20 11 0.09
21 6 0.05
ACGTcount: A:0.49, C:0.02, G:0.01, T:0.49
Consensus pattern (17 bp):
TTATAATATTATAATAA
Found at i:18187 original size:20 final size:21
Alignment explanation
Indices: 18151--18190 Score: 57
Period size: 20 Copynumber: 2.0 Consensus size: 21
18141 TAAAATATTA
18151 TAATACTTATAATATTATAAT
1 TAATACTTATAATATTATAAT
18172 TAATA-TTATTAA-ATTATAA
1 TAATACTTA-TAATATTATAA
18191 AATTATCTAT
Statistics
Matches: 18, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
20 10 0.56
21 8 0.44
ACGTcount: A:0.50, C:0.03, G:0.00, T:0.47
Consensus pattern (21 bp):
TAATACTTATAATATTATAAT
Found at i:18255 original size:40 final size:35
Alignment explanation
Indices: 18211--18296 Score: 86
Period size: 35 Copynumber: 2.3 Consensus size: 35
18201 TACTTTAAAT
18211 TTATAAATAATT-TAATAATTTAATAATATTAATTATAATA
1 TTATAAAT-ATTATAAT-ATTTAAT-A-ATTAA-T-TAATA
* *
18251 TTATAAGTATTATAATATTTTATAATTAATTAATA
1 TTATAAATATTATAATATTTAATAATTAATTAATA
18286 TTATAAA-ATTA
1 TTATAAATATTA
18297 ATGATAAATT
Statistics
Matches: 42, Mismatches: 3, Indels: 8
0.79 0.06 0.15
Matches are distributed among these distances:
34 4 0.10
35 11 0.26
36 1 0.02
37 5 0.12
38 1 0.02
39 9 0.21
40 11 0.26
ACGTcount: A:0.50, C:0.00, G:0.01, T:0.49
Consensus pattern (35 bp):
TTATAAATATTATAATATTTAATAATTAATTAATA
Found at i:18901 original size:30 final size:30
Alignment explanation
Indices: 18866--18924 Score: 84
Period size: 30 Copynumber: 2.0 Consensus size: 30
18856 TTATTGTTAT
*
18866 TAATTTA-TAGTATAAATATTAATTTATTAG
1 TAATTTATTAGTATAAAT-TTAATATATTAG
*
18896 TAATTTATTATTATAAATTTAATATATTA
1 TAATTTATTAGTATAAATTTAATATATTA
18925 AATTAATATA
Statistics
Matches: 26, Mismatches: 2, Indels: 2
0.87 0.07 0.07
Matches are distributed among these distances:
30 17 0.65
31 9 0.35
ACGTcount: A:0.44, C:0.00, G:0.03, T:0.53
Consensus pattern (30 bp):
TAATTTATTAGTATAAATTTAATATATTAG
Found at i:19443 original size:14 final size:13
Alignment explanation
Indices: 19424--19453 Score: 51
Period size: 14 Copynumber: 2.2 Consensus size: 13
19414 CTCCCATATA
19424 TATTAATTATTAGT
1 TATTAATTATTA-T
19438 TATTAATTATTAT
1 TATTAATTATTAT
19451 TAT
1 TAT
19454 ATATTGTTTA
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
13 4 0.25
14 12 0.75
ACGTcount: A:0.37, C:0.00, G:0.03, T:0.60
Consensus pattern (13 bp):
TATTAATTATTAT
Found at i:19458 original size:17 final size:17
Alignment explanation
Indices: 19420--19488 Score: 56
Period size: 17 Copynumber: 4.2 Consensus size: 17
19410 AAAGCTCCCA
19420 TATATATTAATTATTA-
1 TATATATTAATTATTAT
*
19436 -GT-TATTAATTATTAT
1 TATATATTAATTATTAT
**
19451 TATATATTGTTTATTAT
1 TATATATTAATTATTAT
* *
19468 GATATA-TAGTTATTAAT
1 TATATATTAATTATT-AT
19485 TATA
1 TATA
19489 AAATAAATTA
Statistics
Matches: 41, Mismatches: 8, Indels: 7
0.73 0.14 0.12
Matches are distributed among these distances:
14 12 0.29
15 1 0.02
16 7 0.17
17 21 0.51
ACGTcount: A:0.38, C:0.00, G:0.06, T:0.57
Consensus pattern (17 bp):
TATATATTAATTATTAT
Found at i:20003 original size:20 final size:20
Alignment explanation
Indices: 19978--20024 Score: 85
Period size: 20 Copynumber: 2.4 Consensus size: 20
19968 ATACCAAATT
19978 ATTATTATATAATAATTAGA
1 ATTATTATATAATAATTAGA
*
19998 ATTATTATATAATAATTAGG
1 ATTATTATATAATAATTAGA
20018 ATTATTA
1 ATTATTA
20025 AAATTAAATA
Statistics
Matches: 26, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
20 26 1.00
ACGTcount: A:0.47, C:0.00, G:0.06, T:0.47
Consensus pattern (20 bp):
ATTATTATATAATAATTAGA
Found at i:20021 original size:17 final size:18
Alignment explanation
Indices: 19981--20030 Score: 52
Period size: 20 Copynumber: 2.8 Consensus size: 18
19971 CCAAATTATT
*
19981 ATTATATAATAATTAGAATT
1 ATTATATAATAATTAG-A-G
20001 ATTATATAATAATTAG-G
1 ATTATATAATAATTAGAG
20018 ATTAT-TAA-AATTA
1 ATTATATAATAATTA
20031 AATATTAATT
Statistics
Matches: 29, Mismatches: 1, Indels: 5
0.83 0.03 0.14
Matches are distributed among these distances:
15 5 0.17
16 3 0.10
17 5 0.17
20 16 0.55
ACGTcount: A:0.50, C:0.00, G:0.06, T:0.44
Consensus pattern (18 bp):
ATTATATAATAATTAGAG
Found at i:20055 original size:18 final size:18
Alignment explanation
Indices: 20032--20084 Score: 56
Period size: 18 Copynumber: 3.0 Consensus size: 18
20022 TTAAAATTAA
*
20032 ATATTAATTTTACTAGT-T
1 ATATTAATTTTA-TAATAT
**
20050 ATATTAATACTATAATAT
1 ATATTAATTTTATAATAT
20068 ATATTAATTTTA-AATAT
1 ATATTAATTTTATAATAT
20085 TAAATCTAAT
Statistics
Matches: 29, Mismatches: 5, Indels: 3
0.78 0.14 0.08
Matches are distributed among these distances:
17 8 0.28
18 21 0.72
ACGTcount: A:0.43, C:0.04, G:0.02, T:0.51
Consensus pattern (18 bp):
ATATTAATTTTATAATAT
Found at i:20798 original size:182 final size:181
Alignment explanation
Indices: 20377--21188 Score: 686
Period size: 182 Copynumber: 4.5 Consensus size: 181
20367 CTTATTTTAG
* * * ** * * *
20377 TTCATATAAGGTTATTGGAAATAAAATAATA-CCATGTTATTAATATTCTAAAAATTAATAATTA
1 TTCATACAAGCTTATTCGAAATAAAATAATATTAAT-TTATTAATATTCCAACAATTAATAAGTA
* * * * * * * * * *
20441 AGAGATTTAAAAAATGAATCTATTTAGCAAACAAGTTTAAATAATTAT-AGCCATTTGAACAGTT
65 AAAGATTTAAAAAATAAATCTATTTATCAAACAAGTTCAAATAGTTATGA-CTATCTAAATAATT
* * * * ** * *
20505 AT-TGATTTGAAATTGTTAT-AACCTTTTGGTTTGTCATATAATGATT-TTATTTG
129 ATCT-ATTTCAAA-TCTTATGAACCTTTTGTTTTGTCATAAAACAATTGTT-TCTA
* ** *
20558 TTCATATAAGCTTACTTC-AAATAAAATAATACAAATTTATTAATATT-AAGACAATTAATAAGT
1 TTCATACAAGCTTA-TTCGAAATAAAATAATATTAATTTATTAATATTCCA-ACAATTAATAAGT
* * * *
20621 AAAAGATTTAAAAAATAAATCTATTTATCAAATAAATTCAAATCGTTATAACTATCTAAATAATT
64 AAAAGATTTAAAAAATAAATCTATTTATCAAACAAGTTCAAATAGTTATGACTATCTAAATAATT
* * * *
20686 ATTTATTTCAAATTCTTATG-GCCTTTTTGTTTTATCATAAAACAATTGTTTCTG
129 ATCTATTTCAAA-TCTTATGAACC-TTTTGTTTTGTCATAAAACAATTGTTTCTA
* * * * * *
20740 TCCATACGAGCTTATTCGGATTAAAATAATATTGATTTATTAATATTTCAACAATTAATAAGTAA
1 TTCATACAAGCTTATTCGAAATAAAATAATATTAATTTATTAATATTCCAACAATTAATAAGTAA
* * * * * *
20805 AAGATTTAAAAAA-AAA---GTTTACCAAACAAGTTCAAATAGTCATGATTATTTGAATAATTAT
66 AAGATTTAAAAAATAAATCTATTTATCAAACAAGTTCAAATAGTTATGACTATCTAAATAATTAT
* * * * *
20866 CTACTTCAAATCAT-TGTAACATTTTGTTTTGTAATAAAACAATTGTTTCAA
131 CTATTTCAAATCTTATG-AACCTTTTGTTTTGTCATAAAACAATTGTTTCTA
*** * * *
20917 TTCATGTTAGCTTATTTGAAATAAAATAATACTAATTTATTAATATTCCCAA-AATTAAAAAGTA
1 TTCATACAAGCTTATTCGAAATAAAATAATATTAATTTATTAATATT-CCAACAATTAATAAGTA
** * * * * *
20981 GGAGAATTAAAAAAATAAATCTGTTTATCGAACAAGTTTAAATAGTTATGACTATCTTAATAATT
65 AAAG-ATTTAAAAAATAAATCTATTTATCAAACAAGTTCAAATAGTTATGACTATCTAAATAATT
* *
21046 ATCTATTTCAAAACATTA-GAACCTTTTGTTTTGTCATAAAACAATTGGTTCTA
129 ATCTATTTCAAATC-TTATGAACCTTTTGTTTTGTCATAAAACAATTGTTTCTA
* * * *
21099 TTCATTCAAGCTTATTTC-AAATAAAATAATATAAATTTATTAATGTTCCAAAAATTAATAAGTA
1 TTCATACAAGCTTA-TTCGAAATAAAATAATATTAATTTATTAATATTCCAACAATTAATAAGTA
* *
21163 AAA-ATTTTAAAAATAAAATTTATTTA
65 AAAGATTTAAAAAAT-AAATCTATTTA
21189 AAAATTAATG
Statistics
Matches: 509, Mismatches: 99, Indels: 46
0.78 0.15 0.07
Matches are distributed among these distances:
176 2 0.00
177 80 0.16
178 56 0.11
179 3 0.01
180 10 0.02
181 134 0.26
182 217 0.43
183 7 0.01
ACGTcount: A:0.43, C:0.09, G:0.08, T:0.40
Consensus pattern (181 bp):
TTCATACAAGCTTATTCGAAATAAAATAATATTAATTTATTAATATTCCAACAATTAATAAGTAA
AAGATTTAAAAAATAAATCTATTTATCAAACAAGTTCAAATAGTTATGACTATCTAAATAATTAT
CTATTTCAAATCTTATGAACCTTTTGTTTTGTCATAAAACAATTGTTTCTA
Found at i:21976 original size:168 final size:174
Alignment explanation
Indices: 21311--22341 Score: 499
Period size: 179 Copynumber: 5.9 Consensus size: 174
21301 TTTACCAAAC
* * * ** * * *
21311 CAGTTCAAATAGTTATGACTATTTGAACAATTATCTATCTCCAATTGTTATG-ATTTTTGTTTTG
1 CAGTTCAAATAGTTATGACCATTTGAACAATTATCTATTTCAAATCATTATGAACTTTTATTTTA
* * * * * * *
21375 TCCTAAAAC-ATT-TAATTTCTATTCA-ACAAGCTTATTCAAAGTAAAATATTGCTAA-ATAATA
66 TCATAAAACAATTGT-TTTTC-A-TCATACAAGCTTATTCAAAATAAAATAATACTAATTTATTA
* * * * * * *
21436 ATATTCT-AAACATTAATAAGTA-AAGATTTAAAAAATAAATGTGTTTGTTGAAT
128 ATATTATGAAAAATTAATAAGTAGGAGATTT---TAA-AAA----TCTATTAAAT
* * * * * * ** * * *
21489 TAGTTCTAATAGTTAAGACTATTAGAACAATTATCTATTTGAAATTGTTTTGACCTTTT-GTTTA
1 CAGTTCAAATAGTTATGACCATTTGAACAATTATCTATTTCAAATCATTATGAACTTTTATTTTA
* * * *
21553 GTTATAAAATAATTG--CTTCAACTCATACATGCTTATTCAAAATAAAATAATACTAATTTATTA
66 -TCATAAAACAATTGTTTTTC-A-TCATACAAGCTTATTCAAAATAAAATAATACTAATTTATTA
* * * * ** *
21616 ACATTCA-G-AAAATTATTAAGTAAGAAATTAGAAAAAAAAACCTATTTACCGAA-
128 ATATT-ATGAAAAATTAATAAGTAGGAGATT----TTAAAAATCTA-TTA---AAT
* * * * * *
21669 CAAGTTCAAATATTTTTGACTATTTGAACAATTATCTATTTAAAATCATTATGACCTTATATTTT
1 C-AGTTCAAATAGTTATGACCATTTGAACAATTATCTATTTCAAATCATTATGAACTTTTATTTT
* * * * *
21734 ATCAT-AAA-AATTG--TTGCAGTTCATAAAAGCTTA-TCTAAAATAAAACAATATTACTTTATT
65 ATCATAAAACAATTGTTTTTCA--TCATACAAGCTTATTC-AAAATAAAATAATACTAATTTATT
*
21794 AATATTAT-AAAAATTGATAAGTTA-GAGA-TTT-AAAA-C-A-TAAAT
127 AATATTATGAAAAATTAATAAG-TAGGAGATTTTAAAAATCTATTAAAT
* * * * * *
21836 CAGTTTAAATAGTTGTGGCCATTTAAACAATTATCTATTTCAAATCATTATGAACTTTTGTTTTG
1 CAGTTCAAATAGTTATGACCATTTGAACAATTATCTATTTCAAATCATTATGAACTTTTATTTTA
*
21901 TCATAAAACAATTGTTTTTCATCATACAAGCCTATTCAAAATAAAATAATACTAATTTATTAATA
66 TCATAAAACAATTGTTTTTCATCATACAAGCTTATTCAAAATAAAATAATACTAATTTATTAATA
*
21966 TT-TGAAAAATTAATAAGTAGGAGATTTTAAAAAAATCTGTTTATTGAAT
131 TTATGAAAAATTAATAAGTAGGAGATTTT--AAAAATC----TATTAAAT
* * *
22015 CAGTTCAAATAGTTATGACTATTTGAACAATTATATATTTTC-AATCGTTAT-AACCTTTTATTT
1 CAGTTCAAATAGTTATGACCATTTGAACAATTATCTA-TTTCAAATCATTATGAA-CTTTTATTT
* * * * ** * *
22078 TATCCTAAAACAATTATTTATCTTCATACAAGCTTATTTGAAATAAAATAATACTAATCTAGTAA
64 TATCATAAAACAATTGTTTTTCATCATACAAGCTTATTCAAAATAAAATAATACTAATTTATTAA
* * * * * *
22143 TATTATG-AAATTTAATAACT-GATAGATTTAAAAAATAAATTTGTTTACTGAAT
129 TATTATGAAAAATTAATAAGTAG-GAGATTT---TAA-AAATCT-ATTA---AAT
* * *** * * * * *
22196 CAATTCAAATAGTTAAGGTTATATGAATAATTATCTATTTCAAATCATTATGACCTTTTGTTTTG
1 CAGTTCAAATAGTTATGACCATTTGAACAATTATCTATTTCAAATCATTATGAACTTTTATTTTA
* * ** * * * * * *
22261 TCGTAAAA-AGAATGTTTTTGTTTATATAAGTTTGTTCGAAATAAAATAATATTAATTTATTAAT
66 TCATAAAACA-ATTGTTTTTCATCATACAAGCTTATTCAAAATAAAATAATACTAATTTATTAAT
*
22325 -TT-TCAAAAATTAATAAG
130 ATTATGAAAAATTAATAAG
22342 AGATTTAATA
Statistics
Matches: 661, Mismatches: 133, Indels: 116
0.73 0.15 0.13
Matches are distributed among these distances:
166 59 0.09
167 7 0.01
168 59 0.09
169 7 0.01
170 4 0.01
171 1 0.00
172 5 0.01
173 5 0.01
177 2 0.00
178 67 0.10
179 221 0.33
180 53 0.08
181 163 0.25
182 8 0.01
ACGTcount: A:0.41, C:0.10, G:0.09, T:0.40
Consensus pattern (174 bp):
CAGTTCAAATAGTTATGACCATTTGAACAATTATCTATTTCAAATCATTATGAACTTTTATTTTA
TCATAAAACAATTGTTTTTCATCATACAAGCTTATTCAAAATAAAATAATACTAATTTATTAATA
TTATGAAAAATTAATAAGTAGGAGATTTTAAAAATCTATTAAAT
Found at i:22133 original size:179 final size:179
Alignment explanation
Indices: 21833--22366 Score: 550
Period size: 179 Copynumber: 3.0 Consensus size: 179
21823 TTAAAACATA
* * * *
21833 AATCAGTTTAAATAGTTGTGGCCATTTAAACAATTATCTATTTCAAATCATTATGAA-CTTTTGT
1 AATCAGTTCAAATAGTTATGGCTATTTGAACAATTATCTATTTCAAATCATTAT-AACCTTTTGT
* * *
21897 TTTGTCATAAAACAATTGTTTTTCATCATACAAGCCTATTCAAAATAAAATAATACTAATTTATT
65 TTTGTCATAAAACAA-T-TTTTTCTTCATACAAGCTTATTCGAAATAAAATAATACTAATTTATT
* *
21962 AATATTTGAAAAATTAATAAGT-AGGAGATTT-TAAAA-AAATCTGTTTATTG
128 AATATTTGAAAAATTAATAAGTGA-GAGATTTAAAAAATAAATCTGTTTACTG
* * * *
22012 AATCAGTTCAAATAGTTATGACTATTTGAACAATTATATATTTTC-AATCGTTATAACCTTTTAT
1 AATCAGTTCAAATAGTTATGGCTATTTGAACAATTATCTA-TTTCAAATCATTATAACCTTTTGT
* * * * *
22076 TTTATCCTAAAACAATTATTTATCTTCATACAAGCTTATTTGAAATAAAATAATACTAATCTAGT
65 TTTGTCATAAAACAATT-TTT-TCTTCATACAAGCTTATTCGAAATAAAATAATACTAATTTATT
* * * *
22141 AATATTATG-AAATTTAATAACTGATAGATTTAAAAAATAAATTTGTTTACTG
128 AATATT-TGAAAAATTAATAAGTGAGAGATTTAAAAAATAAATCTGTTTACTG
* * * * * *
22193 AATCAATTCAAATAGTTAAGGTTATATGAATAATTATCTATTTCAAATCATTATGACCTTTTGTT
1 AATCAGTTCAAATAGTTATGGCTATTTGAACAATTATCTATTTCAAATCATTATAACCTTTTGTT
* * * * * * * *
22258 TTGTCGTAAAAAGAATGTTTTTGTTTATATAAGTTTGTTCGAAATAAAATAATATTAATTTATTA
66 TTGTCAT-AAAACAAT-TTTTTCTTCATACAAGCTTATTCGAAATAAAATAATACTAATTTATTA
* * *
22323 AT-TTTCAAAAATTAAT-A---AGAGATTTAATAAATAAATCTATTTAC
129 ATATTTGAAAAATTAATAAGTGAGAGATTTAAAAAATAAATCTGTTTAC
22367 CATACTAGTT
Statistics
Matches: 293, Mismatches: 50, Indels: 27
0.79 0.14 0.07
Matches are distributed among these distances:
176 23 0.08
177 1 0.00
178 6 0.02
179 123 0.42
180 25 0.09
181 104 0.35
182 10 0.03
183 1 0.00
ACGTcount: A:0.41, C:0.09, G:0.09, T:0.42
Consensus pattern (179 bp):
AATCAGTTCAAATAGTTATGGCTATTTGAACAATTATCTATTTCAAATCATTATAACCTTTTGTT
TTGTCATAAAACAATTTTTTCTTCATACAAGCTTATTCGAAATAAAATAATACTAATTTATTAAT
ATTTGAAAAATTAATAAGTGAGAGATTTAAAAAATAAATCTGTTTACTG
Found at i:22146 original size:347 final size:346
Alignment explanation
Indices: 21514--22182 Score: 783
Period size: 347 Copynumber: 1.9 Consensus size: 346
21504 AGACTATTAG
* ** * * * *
21514 AACAATTATCTATTTGAAATTGTTTTGACCTTTTGTTTAGTTATAAAATAATTGCTTCAACTCAT
1 AACAATTATCTATTTCAAATCATTATGAACTTTTGTTTAGTCATAAAACAATTGCTTCAACTCAT
* * *
21579 ACATGCTTATTCAAAATAAAATAATACTAATTTATTAACATTCAGAAAATTATTAAGTAAGAAAT
66 ACAAGCCTATTCAAAATAAAATAATACTAATTTATTAACATTCAGAAAATTAATAAGTAAGAAAT
* * *
21644 TAGAAAAAAAAACCTATTTACCGAACAAGTTCAAATATTTTTGACTATTTGAACAATTATCTATT
131 TA-AAAAAAAAACCTATTTACCGAACAAGTTCAAATAGTTATGACTATTTGAACAATTATATATT
* * *
21709 TAAAATCATTATGACCTTATATTTTATCATAAAAATTGTTGCAGTTCATAAAAGCTTATCTAAAA
195 TAAAATCATTATAACCTTATATTTTATCATAAAAATTATTGCACTTCATAAAAGCTTATCTAAAA
* * * * * * * *
21774 TAAAACAATATTACTTTATTAATATTATAAAAATTGATAAGTTAGAGATTTAAAACATAAATCAG
260 TAAAACAATACTAATCTAGTAATATTATAAAAATTAATAACTGAGAGATTTAAAAAATAAATCAG
21839 TTTAAATAGTTGTGGCCATTTA
325 TTTAAATAGTTGTGGCCATTTA
* *
21861 AACAATTATCTATTTCAAATCATTATGAACTTTTGTTTTGTCATAAAACAATTGTTTTTC-A-TC
1 AACAATTATCTATTTCAAATCATTATGAACTTTTGTTTAGTCATAAAACAATTG--CTTCAACTC
* * *
21924 ATACAAGCCTATTCAAAATAAAATAATACTAATTTATTAATATT-TGAAAAATTAATAAGTAGGA
64 ATACAAGCCTATTCAAAATAAAATAATACTAATTTATTAACATTCAG-AAAATTAATAAGTAAGA
* ** * * **
21988 GATT-TTAAAAAAATCTGTTTATTGAATC-AGTTCAAATAGTTATGACTATTTGAACAATTATAT
128 AATTAAAAAAAAAACCTATTTACCGAA-CAAGTTCAAATAGTTATGACTATTTGAACAATTATAT
** * * * * *
22051 ATTTTCAATCGTTATAACCTTTTATTTTATCCTAAAACAATTATT-TATCTTCATACAAGCTTAT
192 ATTTAAAATCATTATAACCTTATATTTTATCAT-AAA-AATTATTGCA-CTTCATAAAAGCTTAT
* * * * * *
22115 TTGAAATAAAATAATACTAATCTAGTAATATTATGAAATTTAATAACTGATAGATTTAAAAAATA
254 CTAAAATAAAACAATACTAATCTAGTAATATTATAAAAATTAATAACTGAGAGATTTAAAAAATA
22180 AAT
319 AAT
22183 TTGTTTACTG
Statistics
Matches: 266, Mismatches: 49, Indels: 14
0.81 0.15 0.04
Matches are distributed among these distances:
345 75 0.28
346 6 0.02
347 181 0.68
348 1 0.00
349 3 0.01
ACGTcount: A:0.42, C:0.10, G:0.08, T:0.39
Consensus pattern (346 bp):
AACAATTATCTATTTCAAATCATTATGAACTTTTGTTTAGTCATAAAACAATTGCTTCAACTCAT
ACAAGCCTATTCAAAATAAAATAATACTAATTTATTAACATTCAGAAAATTAATAAGTAAGAAAT
TAAAAAAAAAACCTATTTACCGAACAAGTTCAAATAGTTATGACTATTTGAACAATTATATATTT
AAAATCATTATAACCTTATATTTTATCATAAAAATTATTGCACTTCATAAAAGCTTATCTAAAAT
AAAACAATACTAATCTAGTAATATTATAAAAATTAATAACTGAGAGATTTAAAAAATAAATCAGT
TTAAATAGTTGTGGCCATTTA
Found at i:22304 original size:181 final size:178
Alignment explanation
Indices: 21861--22340 Score: 511
Period size: 181 Copynumber: 2.7 Consensus size: 178
21851 TGGCCATTTA
* * *
21861 AACAATTATCTATTTCAAATCATTATGAACTTTTGTTTTGTCATAAAACAATTGTTTTTCATCAT
1 AACAATTATCTATTTCAAATCATTATGACCTTTTGTTTTGTCATAAAA-AAATGTTTTTCTTCAT
* * * * *
21926 ACAAGCCTATTCAAAATAAAATAATACTAATTTATTAATATTTGAAAAATTAATAAGTAGGAGAT
65 ACAAGCTTATTCGAAATAAAATAATACTAATCTAGTAATATTTGAAAAATTAATAACTAGGAGAT
* * * * *
21991 TTTAAAAAAATCTGTTTATTGAATCAGTTCAAATAGTTATGACTATTTG
130 TTAAAAAAAATCTGTTTACTGAATCAATTCAAATAGTTAAGACTATATG
* * * * * * *
22040 AACAATTATATATTTTC-AATCGTTATAACCTTTTATTTTATCCTAAAACAAT-TATTTATCTTC
1 AACAATTATCTA-TTTCAAATCATTATGACCTTTTGTTTTGTCATAAAAAAATGT-TTT-TCTTC
* * *
22103 ATACAAGCTTATTTGAAATAAAATAATACTAATCTAGTAATATTATG-AAATTTAATAACT-GAT
63 ATACAAGCTTATTCGAAATAAAATAATACTAATCTAGTAATATT-TGAAAAATTAATAACTAG-G
* **
22166 AGATTTAAAAAATAAATTTGTTTACTGAATCAATTCAAATAGTTAAGGTTATATG
126 AGATTT-AAAAA-AAATCTGTTTACTGAATCAATTCAAATAGTTAAGACTATATG
* * * *
22221 AATAATTATCTATTTCAAATCATTATGACCTTTTGTTTTGTCGTAAAAAGAATGTTTTTGTTTAT
1 AACAATTATCTATTTCAAATCATTATGACCTTTTGTTTTGTCATAAAAA-AATGTTTTTCTTCAT
* * * * * * *
22286 ATAAGTTTGTTCGAAATAAAATAATATTAATTTATTAAT-TTTCAAAAATTAATAA
65 ACAAGCTTATTCGAAATAAAATAATACTAATCTAGTAATATTTGAAAAATTAATAA
22341 GAGATTTAAT
Statistics
Matches: 245, Mismatches: 45, Indels: 21
0.79 0.14 0.07
Matches are distributed among these distances:
177 1 0.00
178 6 0.02
179 97 0.40
180 26 0.11
181 108 0.44
182 6 0.02
183 1 0.00
ACGTcount: A:0.41, C:0.09, G:0.08, T:0.42
Consensus pattern (178 bp):
AACAATTATCTATTTCAAATCATTATGACCTTTTGTTTTGTCATAAAAAAATGTTTTTCTTCATA
CAAGCTTATTCGAAATAAAATAATACTAATCTAGTAATATTTGAAAAATTAATAACTAGGAGATT
TAAAAAAAATCTGTTTACTGAATCAATTCAAATAGTTAAGACTATATG
Found at i:24023 original size:14 final size:14
Alignment explanation
Indices: 24001--24030 Score: 51
Period size: 14 Copynumber: 2.1 Consensus size: 14
23991 TTTAAAATAG
*
24001 ATAATTATTTATTA
1 ATAAATATTTATTA
24015 ATAAATATTTATTA
1 ATAAATATTTATTA
24029 AT
1 AT
24031 TGAAATAGTG
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
14 15 1.00
ACGTcount: A:0.47, C:0.00, G:0.00, T:0.53
Consensus pattern (14 bp):
ATAAATATTTATTA
Found at i:24691 original size:181 final size:177
Alignment explanation
Indices: 24454--24901 Score: 498
Period size: 181 Copynumber: 2.5 Consensus size: 177
24444 TAATAAATAT
* *
24454 AATAAAATAATACTAATTTAATAATA-TTTCAACAATTAATAAGTAAAAGATTTAAAAAATAAAT
1 AATAAAATAATACT-ATTTATTAATATTTTC-A-AATTAAT-AGT-AGAGATTTAAAAAATAAAT
** * * * *
24518 CTGTTTACCGAGTAAGCTCAAATAGTTATAACT-ATTTA-AATAATTTTTTATTT-ATAATAGTT
61 CTGTTTACCGAACAAGCTCAAATAGTCAT-ACTCA-TTAGAACAATTATCTATTTCA-AATAGTT
* *
24580 ATGATC-TTTTGTTTTGTCATAAAACAATTGTTTCTATTTATACA-AGTTCATTCAA
123 ATGA-CATTTTGTTTTGTCATAAAACAATTGTTTCTATTCATACAGAATT-ATTCAA
24635 AATAAAATAATACTACTTTATTAATATTTTTCAAATTAATAGGTAGGAGATTTAAAAAATAAATC
1 AATAAAATAATACTA-TTTATTAATA-TTTTCAAATTAATA-GTA-GAGATTTAAAAAATAAATC
** *
24700 TGTTTACCGAACAAGCTCAAATAGTCATGTTCATTAGAACAATTATCTATTTCAAATTGTTATGA
62 TGTTTACCGAACAAGCTCAAATAGTCATACTCATTAGAACAATTATCTATTTCAAATAGTTATGA
24765 CATTTTGTTTTGTCATAAAACAATTGTTTCTATTCATACAGAATTATTCAA
127 CATTTTGTTTTGTCATAAAACAATTGTTTCTATTCATACAGAATTATTCAA
** * * *
24816 AATAAAATAATTTTGATTTATTAATATTTTGAACATTAATA--AGAGATTTAAAAACTAAATCTA
1 AATAAAATAATACT-ATTTATTAATATTTTCAA-ATTAATAGTAGAGATTTAAAAAATAAATCTG
** * *
24879 TTTACTAAACTAGTTCAAATAGT
64 TTTACCGAACAAGCTCAAATAGT
24902 TATGACTATT
Statistics
Matches: 233, Mismatches: 22, Indels: 28
0.82 0.08 0.10
Matches are distributed among these distances:
177 38 0.16
178 1 0.00
180 14 0.06
181 170 0.73
182 6 0.03
183 4 0.02
ACGTcount: A:0.42, C:0.10, G:0.08, T:0.40
Consensus pattern (177 bp):
AATAAAATAATACTATTTATTAATATTTTCAAATTAATAGTAGAGATTTAAAAAATAAATCTGTT
TACCGAACAAGCTCAAATAGTCATACTCATTAGAACAATTATCTATTTCAAATAGTTATGACATT
TTGTTTTGTCATAAAACAATTGTTTCTATTCATACAGAATTATTCAA
Found at i:25348 original size:13 final size:13
Alignment explanation
Indices: 25332--25380 Score: 52
Period size: 13 Copynumber: 4.1 Consensus size: 13
25322 TTAATATTAT
25332 TTTATAATAATAA
1 TTTATAATAATAA
*
25345 TTTATAATAATTA
1 TTTATAATAATAA
*
25358 -TTAT-TTAAT-A
1 TTTATAATAATAA
25368 -TTATAATAATAA
1 TTTATAATAATAA
25380 T
1 T
25381 AATTATTAAA
Statistics
Matches: 30, Mismatches: 3, Indels: 6
0.77 0.08 0.15
Matches are distributed among these distances:
10 5 0.17
11 8 0.27
12 5 0.17
13 12 0.40
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (13 bp):
TTTATAATAATAA
Found at i:25376 original size:25 final size:25
Alignment explanation
Indices: 25348--25424 Score: 79
Period size: 25 Copynumber: 3.1 Consensus size: 25
25338 ATAATAATTT
25348 ATAATAATTATTATTTAATATTATA
1 ATAATAATTATTATTTAATATTATA
* *
25373 ATAATAATAATTATTAAATAATTATTA
1 ATAATAATTATTATTTAAT-ATTA-TA
* *
25400 ATTA-AATTA-TAATTAATATT-TA
1 ATAATAATTATTATTTAATATTATA
25422 ATA
1 ATA
25425 TTTAACAATT
Statistics
Matches: 43, Mismatches: 7, Indels: 7
0.75 0.12 0.12
Matches are distributed among these distances:
22 4 0.09
24 3 0.07
25 23 0.53
26 8 0.19
27 5 0.12
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (25 bp):
ATAATAATTATTATTTAATATTATA
Found at i:25377 original size:11 final size:11
Alignment explanation
Indices: 25338--25424 Score: 59
Period size: 11 Copynumber: 8.5 Consensus size: 11
25328 TTATTTTATA
25338 ATAATAAT-TT
1 ATAATAATATT
25348 ATAATAATTATT
1 ATAATAA-TATT
*
25360 AT-TTAATATT
1 ATAATAATATT
25370 ATAATAATA--
1 ATAATAATATT
25379 ATAAT--TATT
1 ATAATAATATT
25388 A-AATAATTATT
1 ATAATAA-TATT
*
25399 A-ATTAA-ATT
1 ATAATAATATT
25408 ATAATTAATATT
1 ATAA-TAATATT
25420 -TAATA
1 ATAATA
25425 TTTAACAATT
Statistics
Matches: 62, Mismatches: 4, Indels: 22
0.70 0.05 0.25
Matches are distributed among these distances:
7 2 0.03
8 3 0.05
9 10 0.16
10 16 0.26
11 24 0.39
12 7 0.11
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (11 bp):
ATAATAATATT
Found at i:25379 original size:35 final size:36
Alignment explanation
Indices: 25333--25421 Score: 112
Period size: 39 Copynumber: 2.4 Consensus size: 36
25323 TAATATTATT
*
25333 TTATAATAATAATTTA-T-AATAATTATTATTTAATA
1 TTATAATAATAATTTATTAAATAATTATTAATTAA-A
25368 TTATAATAATAATAATTATTAAATAATTATTAATTAAA
1 TTATAATAATAAT--TTATTAAATAATTATTAATTAAA
25406 TTATAATTAAT-ATTTA
1 TTATAA-TAATAATTTA
25422 ATATTTAACA
Statistics
Matches: 48, Mismatches: 1, Indels: 9
0.83 0.02 0.16
Matches are distributed among these distances:
35 13 0.27
36 3 0.06
37 3 0.06
38 10 0.21
39 19 0.40
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (36 bp):
TTATAATAATAATTTATTAAATAATTATTAATTAAA
Found at i:25411 original size:18 final size:19
Alignment explanation
Indices: 25351--25426 Score: 68
Period size: 18 Copynumber: 4.0 Consensus size: 19
25341 ATAATTTATA
*
25351 ATAATTATTATTTAATATT
1 ATAATTATTAATTAATATT
*
25370 ATAA-TAATAA-TAATTATT
1 ATAATTATTAATTAA-TATT
25388 AAATAATTATTAATTAA-ATT
1 --ATAATTATTAATTAATATT
* *
25408 ATAATTAATATTTAATATT
1 ATAATTATTAATTAATATT
25427 TAACAATTTA
Statistics
Matches: 46, Mismatches: 5, Indels: 12
0.73 0.08 0.19
Matches are distributed among these distances:
17 3 0.07
18 21 0.46
19 7 0.15
20 7 0.15
21 5 0.11
22 3 0.07
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (19 bp):
ATAATTATTAATTAATATT
Found at i:25554 original size:21 final size:22
Alignment explanation
Indices: 25510--25555 Score: 58
Period size: 21 Copynumber: 2.1 Consensus size: 22
25500 AAATTGATTA
*
25510 TTAAAATTAAATAAAATAATAT
1 TTAAAATTAAATAAAATAAGAT
* *
25532 TTAAAA-TAAATACAATTAGAT
1 TTAAAATTAAATAAAATAAGAT
25553 TTA
1 TTA
25556 TAACTAAGAA
Statistics
Matches: 21, Mismatches: 3, Indels: 1
0.84 0.12 0.04
Matches are distributed among these distances:
21 15 0.71
22 6 0.29
ACGTcount: A:0.59, C:0.02, G:0.02, T:0.37
Consensus pattern (22 bp):
TTAAAATTAAATAAAATAAGAT
Found at i:26365 original size:21 final size:22
Alignment explanation
Indices: 26314--26368 Score: 64
Period size: 21 Copynumber: 2.6 Consensus size: 22
26304 TTATTCATAT
26314 TATAA-TATT-AATTATATAAA
1 TATAATTATTAAATTATATAAA
26334 TATAATTATTAAATT-TATAAA
1 TATAATTATTAAATTATATAAA
*
26355 -ATTATTAATTAAAT
1 TATAATT-ATTAAAT
26369 CGTCAATGAA
Statistics
Matches: 31, Mismatches: 1, Indels: 5
0.84 0.03 0.14
Matches are distributed among these distances:
20 10 0.32
21 17 0.55
22 4 0.13
ACGTcount: A:0.53, C:0.00, G:0.00, T:0.47
Consensus pattern (22 bp):
TATAATTATTAAATTATATAAA
Found at i:26725 original size:27 final size:26
Alignment explanation
Indices: 26662--26741 Score: 81
Period size: 27 Copynumber: 3.0 Consensus size: 26
26652 TCTTAGACTT
**
26662 AATTATATAATTATTATAAATTATTA
1 AATTATATAATTATTATTTATTATTA
* *
26688 AATAAAAATAATTATTATTTATTATTA
1 AAT-TATATAATTATTATTTATTATTA
*
26715 AATTATCATAA-TATAATTTAATTATTA
1 AATTAT-ATAATTATTATTT-ATTATTA
26742 TATAATAAAT
Statistics
Matches: 44, Mismatches: 7, Indels: 5
0.79 0.12 0.09
Matches are distributed among these distances:
26 11 0.25
27 33 0.75
ACGTcount: A:0.50, C:0.01, G:0.00, T:0.49
Consensus pattern (26 bp):
AATTATATAATTATTATTTATTATTA
Found at i:26791 original size:24 final size:23
Alignment explanation
Indices: 26704--26792 Score: 65
Period size: 25 Copynumber: 3.6 Consensus size: 23
26694 AATAATTATT
*
26704 ATTTATTATTAAATTATCATAATATA
1 ATTTATTATTTAATTAT-A-AAT-TA
*
26730 ATTTAATTA-TTATATAATAAATTA
1 ATTT-ATTATTTA-ATTATAAATTA
*
26754 AATTATT-TGATTAATTATAGAATTA
1 ATTTATTAT--TTAATTATA-AATTA
26779 ATTTATTATTTAAT
1 ATTTATTATTTAAT
26793 ATTAATGAGT
Statistics
Matches: 51, Mismatches: 5, Indels: 16
0.71 0.07 0.22
Matches are distributed among these distances:
23 3 0.06
24 15 0.29
25 17 0.33
26 8 0.16
27 8 0.16
ACGTcount: A:0.45, C:0.01, G:0.02, T:0.52
Consensus pattern (23 bp):
ATTTATTATTTAATTATAAATTA
Done.