Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: NW_019168063.1 Durio zibethinus cultivar Musang King isolate D1 unplaced genomic scaffold, Duzib1.0 scaffold_312, 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: 35918
ACGTcount: A:0.44, C:0.05, G:0.06, T:0.45
Found at i:849 original size:19 final size:19
Alignment explanation
Indices: 820--875 Score: 58
Period size: 19 Copynumber: 2.8 Consensus size: 19
810 TGTTTATAGC
* *
820 TAATTTCATATTATATATTA
1 TAATTT-ATATAATATAATA
*
840 TAGTTTATATAATATAATA
1 TAATTTATATAATATAATA
*
859 TAATTTAAATAACTATA
1 TAATTTATATAA-TATA
876 TAAATATATA
Statistics
Matches: 30, Mismatches: 5, Indels: 2
0.81 0.14 0.05
Matches are distributed among these distances:
19 21 0.70
20 9 0.30
ACGTcount: A:0.46, C:0.04, G:0.02, T:0.48
Consensus pattern (19 bp):
TAATTTATATAATATAATA
Found at i:1004 original size:25 final size:23
Alignment explanation
Indices: 944--1014 Score: 69
Period size: 22 Copynumber: 3.2 Consensus size: 23
934 ATTAGATAGT
*
944 TAATTATTATATTTA-AATAATA
1 TAATTATTAAATTTATAATAATA
*
966 TAAATA-TAAA--TATAATAATTA
1 TAATTATTAAATTTATAATAA-TA
*
987 TATATTATTAAATTTATAATAAAA
1 TA-ATTATTAAATTTATAATAATA
1011 TAAT
1 TAAT
1015 AAAAAATTTA
Statistics
Matches: 39, Mismatches: 4, Indels: 11
0.72 0.07 0.20
Matches are distributed among these distances:
19 2 0.05
20 5 0.13
21 7 0.18
22 8 0.21
23 6 0.15
24 3 0.08
25 8 0.21
ACGTcount: A:0.55, C:0.00, G:0.00, T:0.45
Consensus pattern (23 bp):
TAATTATTAAATTTATAATAATA
Found at i:1029 original size:45 final size:44
Alignment explanation
Indices: 946--1032 Score: 113
Period size: 45 Copynumber: 2.0 Consensus size: 44
936 TAGATAGTTA
* * *
946 ATTATTATATTTAAATAATATAAATATAAATATAATAATTATAT
1 ATTATTAAATTTAAATAAAATAAATAAAAATATAATAATTATAT
*
990 ATTATTAAATTTATAATAAAAT-AATAAAAAATTTAATAATTAT
1 ATTATTAAATTTA-AATAAAATAAAT-AAAAATATAATAATTAT
1033 TACTTAATTA
Statistics
Matches: 37, Mismatches: 4, Indels: 3
0.84 0.09 0.07
Matches are distributed among these distances:
44 15 0.41
45 22 0.59
ACGTcount: A:0.56, C:0.00, G:0.00, T:0.44
Consensus pattern (44 bp):
ATTATTAAATTTAAATAAAATAAATAAAAATATAATAATTATAT
Found at i:1534 original size:22 final size:20
Alignment explanation
Indices: 1496--1535 Score: 53
Period size: 20 Copynumber: 1.9 Consensus size: 20
1486 AAATTGACTA
*
1496 TATAAATTATTTAATAATCG
1 TATAAATTAATTAATAATCG
1516 TATAAATATAATTATATAAT
1 TATAAAT-TAATTA-ATAAT
1536 TTTTAAATTG
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
20 7 0.41
21 5 0.29
22 5 0.29
ACGTcount: A:0.50, C:0.03, G:0.03, T:0.45
Consensus pattern (20 bp):
TATAAATTAATTAATAATCG
Found at i:2040 original size:12 final size:12
Alignment explanation
Indices: 2022--2052 Score: 53
Period size: 12 Copynumber: 2.6 Consensus size: 12
2012 TTCCTTTTGG
2022 ATTATATAATTA
1 ATTATATAATTA
*
2034 TTTATATAATTA
1 ATTATATAATTA
2046 ATTATAT
1 ATTATAT
2053 TAATAGAAAC
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
12 17 1.00
ACGTcount: A:0.45, C:0.00, G:0.00, T:0.55
Consensus pattern (12 bp):
ATTATATAATTA
Found at i:2160 original size:26 final size:26
Alignment explanation
Indices: 2112--2205 Score: 81
Period size: 26 Copynumber: 3.7 Consensus size: 26
2102 ATACTATTAT
* *
2112 ATATATAATAAAAT-TAAAGTTAAATA
1 ATATATAATTAAATATATA-TTAAATA
2138 ATATATAATTAAATATATATTAAATA
1 ATATATAATTAAATATATATTAAATA
* * * *
2164 TTAT-TAACTAAATAATATATT-ATTT
1 ATATATAATTAAAT-ATATATTAAATA
2189 ATATAT-A-TAAATATATA
1 ATATATAATTAAATATATA
2206 ATTTGATCAT
Statistics
Matches: 58, Mismatches: 7, Indels: 9
0.78 0.09 0.12
Matches are distributed among these distances:
23 5 0.09
24 5 0.09
25 14 0.24
26 31 0.53
27 3 0.05
ACGTcount: A:0.55, C:0.01, G:0.01, T:0.43
Consensus pattern (26 bp):
ATATATAATTAAATATATATTAAATA
Found at i:2185 original size:19 final size:19
Alignment explanation
Indices: 2132--2187 Score: 60
Period size: 21 Copynumber: 2.8 Consensus size: 19
2122 AAATTAAAGT
*
2132 TAAATAATATATAATTAAA
1 TAAATAATATATTATTAAA
*
2151 TATATATTAA-ATATTATTAAC
1 TA-A-A-TAATATATTATTAAA
2172 TAAATAATATATTATT
1 TAAATAATATATTATT
2188 TATATATATA
Statistics
Matches: 31, Mismatches: 2, Indels: 8
0.76 0.05 0.20
Matches are distributed among these distances:
18 3 0.10
19 11 0.35
20 2 0.06
21 12 0.39
22 3 0.10
ACGTcount: A:0.54, C:0.02, G:0.00, T:0.45
Consensus pattern (19 bp):
TAAATAATATATTATTAAA
Found at i:2868 original size:18 final size:20
Alignment explanation
Indices: 2822--2868 Score: 64
Period size: 19 Copynumber: 2.5 Consensus size: 20
2812 TTATAAATAT
2822 TATTATAAATTTATATAGTA
1 TATTATAAATTTATATAGTA
*
2842 T-TTATAAATTTA-ATTGTA
1 TATTATAAATTTATATAGTA
2860 TATTA-AAAT
1 TATTATAAAT
2869 AGTAATTATA
Statistics
Matches: 25, Mismatches: 1, Indels: 4
0.83 0.03 0.13
Matches are distributed among these distances:
18 10 0.40
19 14 0.56
20 1 0.04
ACGTcount: A:0.45, C:0.00, G:0.04, T:0.51
Consensus pattern (20 bp):
TATTATAAATTTATATAGTA
Found at i:3621 original size:181 final size:175
Alignment explanation
Indices: 3320--4099 Score: 534
Period size: 181 Copynumber: 4.3 Consensus size: 175
3310 ATTAGTATTA
* * * ** * * ** * *
3320 TTTTATGACAAAACAAAAAGTAATAATGATTTGAAATAGATAATTGTTTAAATAGTTATAATTAT
1 TTTTATGATAAAACAAAAGGTTATAACAATTTGAAATAAATAATTGTTCAAATAGACATAACTGT
* ** ** *
3385 TTGAACTG-GTTCAGTAAATAGAATTATTTTTTAAATATCTTACTTATAAATTTTTAAAATATTA
66 TTAAAC-GAGTTCAACAAACGGATTTATTTTTTAAATATCTTA-TTAT--ATTTTTAAAATATTA
* * * * *
3449 ATAAATTACTTTCATTCTATTTCGAATTAGCTTGTATGAGCTGAAATAATTA
127 CTAAATTA-TTT-ATTTTATTTCGAATAAGCTTGTAT-AGCTGAAACAATTG
* * *
3501 TTTTATGATAAAATAAAAGGTTATAACAATTTGAAATAAATAATTGTTCATATAGACTTAACTGT
1 TTTTATGATAAAACAAAAGGTTATAACAATTTGAAATAAATAATTGTTCAAATAGACATAACTGT
* ** * * *
3566 TTGAAA-GGGTTTGACAAACGGATTTATTTTTTAAATCTCTTAGTTATTCATTTTTAGAATATTG
66 TT-AAACGAGTTCAACAAACGGATTTATTTTTTAAATATCTTA-TTA-T-ATTTTTAAAATATTA
**
3630 CTAAATTATTATTATTTTATTTCGAATAAGCTTGTATAAGGAGAAACAATTG
127 CTAAATTA-T-TTATTTTATTTCGAATAAGCTTGTAT-AGCTGAAACAATTG
* * * * *
3682 TTTTATGATAGAACAAAAGCTTGTAACAATTT-AAATAGAA-AATTATTCAAATAGTCATAACTG
1 TTTTATGATAAAACAAAAGGTTATAACAATTTGAAATA-AATAATTGTTCAAATAGACATAACTG
* * * * *
3745 TTTAAACTAGTTCAATAAACTGATTTATTTTTTAAATGTCTTATTA-ATTCTTAAAATATTACTA
65 TTTAAACGAGTTCAACAAACGGATTTATTTTTTAAATATCTTATTATATTTTTAAAATATTACTA
* * * * *
3809 AATTGGTATATTTTATTTCAAATAAGCTTGT-TTGTTGAAAAACAATTG
130 AATT-ATTTATTTTATTTCGAATAAGCTTGTATAGCTG--AAACAATTG
* * * * * * * * *
3857 TTTTATGACAAAAGAAAAGGTAATAACAATTTGAAATAGATAGTTGTTTAAAT-GGCTATAATTA
1 TTTTATGATAAAACAAAAGGTTATAACAATTTGAAATAAATAATTGTTCAAATAGAC-ATAACTG
* **** ** *
3921 TTTGAACTGA-TTGGGTAAATTGATTTATTCTTTTAAATTAGTTACTTATTA-ATTTTTGAAATA
65 TTTAAAC-GAGTTCAACAAACGGATTTATT-TTTTAAA-TA--T-CTTATTATATTTTTAAAATA
* * * * * * *
3984 TTACTAAAGTAGTATTATTTTATTTTGGATAAACTTTTATGAACTAAAACAATTG
124 TTACTAAATTA-T-TTATTTTATTTCGAATAAGCTTGTAT-AGCTGAAACAATTG
* * * ** * *
4039 TTTTATGACAAAACAAATGGTCATAATTATTTTAAATAAATAATTGTTCAAATAGCCATAA
1 TTTTATGATAAAACAAAAGGTTATAACAATTTGAAATAAATAATTGTTCAAATAGACATAA
4100 TTATTCAAAC
Statistics
Matches: 472, Mismatches: 104, Indels: 45
0.76 0.17 0.07
Matches are distributed among these distances:
173 2 0.00
174 1 0.00
175 60 0.13
176 60 0.13
177 8 0.02
178 1 0.00
179 6 0.01
180 58 0.12
181 192 0.41
182 80 0.17
183 3 0.01
184 1 0.00
ACGTcount: A:0.40, C:0.07, G:0.11, T:0.42
Consensus pattern (175 bp):
TTTTATGATAAAACAAAAGGTTATAACAATTTGAAATAAATAATTGTTCAAATAGACATAACTGT
TTAAACGAGTTCAACAAACGGATTTATTTTTTAAATATCTTATTATATTTTTAAAATATTACTAA
ATTATTTATTTTATTTCGAATAAGCTTGTATAGCTGAAACAATTG
Found at i:4041 original size:182 final size:181
Alignment explanation
Indices: 3320--4413 Score: 782
Period size: 182 Copynumber: 6.1 Consensus size: 181
3310 ATTAGTATTA
* ** * *
3320 TTTTATGACAAAACAAAAAGTAATAATGATTTGAAATAGATAATTGTTTAAATAGTTATAATTAT
1 TTTTATGACAAAACAAAAGGTAATAACAATTTGAAATAGATAATTGTTCAAATAGCTATAATTAT
* * * *
3385 TTGAACTGGTTCAGTAAA-TAGAATTATTTTTTAAA-TATCTTACTTATAAATTTTTAAAATATT
66 TTGAACTGATTCGGTAAACT-GATTTATTTTTTAAATTA-CTTACTTATTAATTTTTAAAATATT
* * * * * * * *
3448 AATAAATTACT-TTCATTCTATTTCGAATTAGCTTGTATGAGCTGAAATAATTA
129 ACTAAATTAGTATT-ATTTTATTTCGAATAAGCTTGTATGAACTAAAACAATTG
* * * * * * *
3501 TTTTATGATAAAATAAAAGGTTATAACAATTTGAAATAAATAATTGTTCATATAGACT-TAACTG
1 TTTTATGACAAAACAAAAGGTAATAACAATTTGAAATAGATAATTGTTCAAATAG-CTATAATTA
** * * ** * * * *
3565 TTTGAAAGGGTTTGACAAACGGATTTATTTTTTAAATCT-CTTAGTTATTCATTTTTAGAATATT
65 TTTGAACTGATTCGGTAAACTGATTTATTTTTTAAAT-TACTTACTTATTAATTTTTAAAATATT
* * **
3629 GCTAAATTATTATTATTTTATTTCGAATAAGCTTGTAT-AAGGAGAAACAATTG
129 ACTAAATTAGTATTATTTTATTTCGAATAAGCTTGTATGAACTA-AAACAATTG
* * * ** * * * *
3682 TTTTATGATAGAACAAAAGCTTGTAACAATTT-AAATAGAAAATTATTCAAATAG-TCATAACTG
1 TTTTATGACAAAACAAAAGGTAATAACAATTTGAAATAGATAATTGTTCAAATAGCT-ATAATTA
* ** * *
3745 TTTAAACT-AGTTCAATAAACTGATTTATTTTTTAAA-T--GT-CTTATTAATTCTTAAAATATT
65 TTTGAACTGA-TTCGGTAAACTGATTTATTTTTTAAATTACTTACTTATTAATTTTTAAAATATT
* * * ****
3805 ACTAAATTGGTA-TATTTTATTTCAAATAAGCTTGTTTGTTGAAAAACAATTG
129 ACTAAATTAGTATTATTTTATTTCGAATAAGCTTGTATGAACTAAAACAATTG
* * * *
3857 TTTTATGACAAAAGAAAAGGTAATAACAATTTGAAATAGATAGTTGTTTAAATGGCTATAATTAT
1 TTTTATGACAAAACAAAAGGTAATAACAATTTGAAATAGATAATTGTTCAAATAGCTATAATTAT
* * * *
3922 TTGAACTGATTGGGTAAATTGATTTATTCTTTTAAATTAGTTACTTATTAATTTTTGAAATATTA
66 TTGAACTGATTCGGTAAACTGATTTATT-TTTTAAATTACTTACTTATTAATTTTTAAAATATTA
* * * * *
3987 CTAAAGTAGTATTATTTTATTTTGGATAAACTTTTATGAACTAAAACAATTG
130 CTAAATTAGTATTATTTTATTTCGAATAAGCTTGTATGAACTAAAACAATTG
* * ** * * *
4039 TTTTATGACAAAACAAATGGTCATAATTATTTTAAATAAATAATTGTTCAAATAGCCATAATTAT
1 TTTTATGACAAAACAAAAGGTAATAACAATTTGAAATAGATAATTGTTCAAATAGCTATAATTAT
** * * **
4104 TCAAACTTG-TTTGGTAAACAT-ATTTATTTTTTTAAATCT-CATGA-TTATTAATTTTTTGAAT
66 TTGAAC-TGATTCGGTAAAC-TGATTTA-TTTTTTAAAT-TAC-TTACTTATTAATTTTTAAAAT
* * * * * * * *
4165 GTTAATAAATTAGTATTATTTTCTTCCAAATAAGCTTGTATGAACTGAAGCAATTA
126 ATTACTAAATTAGTATTATTTTATTTCGAATAAGCTTGTATGAACTAAAACAATTG
** ** * * * ** * * *
4221 TTACATGACTGAAGAAAAGGTCAGAATGATTTGAAATTGATAATTATTCTAATAGTCT-TAATTA
1 TTTTATGACAAAACAAAAGGTAATAACAATTTGAAATAGATAATTGTTCAAATAG-CTATAATTA
* ** * **
4285 TTTGAACTGGTTCGGTAAACACATTTATTTTTTGAA-T-C-T-CTTATTAA-TTTTGGAATATTA
65 TTTGAACTGATTCGGTAAACTGATTTATTTTTTAAATTACTTACTTATTAATTTTTAAAATATTA
* * * * * * *
4345 TTAAATTAGTAATATTTT-TATCTAAATAAGCTTGTATGATC-AGAAATAATTA
130 CTAAATTAGTATTATTTTATTTC-GAATAAGCTTGTATGAACTA-AAACAATTG
*
4397 TTTTATGAGAAAACAAA
1 TTTTATGACAAAACAAA
4414 GATTAATTAA
Statistics
Matches: 718, Mismatches: 165, Indels: 65
0.76 0.17 0.07
Matches are distributed among these distances:
175 60 0.08
176 134 0.19
177 17 0.02
178 3 0.00
179 2 0.00
180 53 0.07
181 202 0.28
182 237 0.33
183 10 0.01
ACGTcount: A:0.39, C:0.07, G:0.11, T:0.42
Consensus pattern (181 bp):
TTTTATGACAAAACAAAAGGTAATAACAATTTGAAATAGATAATTGTTCAAATAGCTATAATTAT
TTGAACTGATTCGGTAAACTGATTTATTTTTTAAATTACTTACTTATTAATTTTTAAAATATTAC
TAAATTAGTATTATTTTATTTCGAATAAGCTTGTATGAACTAAAACAATTG
Found at i:4571 original size:22 final size:21
Alignment explanation
Indices: 4540--4580 Score: 64
Period size: 22 Copynumber: 1.9 Consensus size: 21
4530 GATTTTAATT
4540 ATTATATATTAATATTTATCA
1 ATTATATATTAATATTTATCA
*
4561 ATTATATTATTAATGTTTAT
1 ATTATA-TATTAATATTTAT
4581 AATATTTTAA
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
21 6 0.33
22 12 0.67
ACGTcount: A:0.39, C:0.02, G:0.02, T:0.56
Consensus pattern (21 bp):
ATTATATATTAATATTTATCA
Found at i:4730 original size:15 final size:14
Alignment explanation
Indices: 4681--4779 Score: 61
Period size: 15 Copynumber: 7.2 Consensus size: 14
4671 TTATTAAAAC
4681 ATTTATTAATT-AT
1 ATTTATTAATTAAT
*
4694 AATTA-TAATTAA-
1 ATTTATTAATTAAT
4706 A--TATT-A-TAAT
1 ATTTATTAATTAAT
4716 ATTATATTAATTAAT
1 ATT-TATTAATTAAT
4731 ATTTTATT-ATTAAAAT
1 A-TTTATTAATT--AAT
*
4747 ATTTAAATAATTAAT
1 ATTT-ATTAATTAAT
*
4762 ATTTATTTGATTAAT
1 ATTTA-TTAATTAAT
4777 ATT
1 ATT
4780 GTTTAGTACA
Statistics
Matches: 68, Mismatches: 4, Indels: 26
0.69 0.04 0.27
Matches are distributed among these distances:
9 3 0.04
10 4 0.06
11 1 0.01
12 6 0.09
13 9 0.13
14 5 0.07
15 29 0.43
16 8 0.12
17 3 0.04
ACGTcount: A:0.45, C:0.00, G:0.01, T:0.54
Consensus pattern (14 bp):
ATTTATTAATTAAT
Found at i:5529 original size:22 final size:20
Alignment explanation
Indices: 5504--5555 Score: 50
Period size: 22 Copynumber: 2.4 Consensus size: 20
5494 TAGTAAAAAT
*
5504 TATTTTATAATCATATTATAAG
1 TATTTTAT-AT-AAATTATAAG
*
5526 TATTAGTTATATAAATTATAAT
1 TATT--TTATATAAATTATAAG
5548 TATTTTAT
1 TATTTTAT
5556 TAATTATTTT
Statistics
Matches: 26, Mismatches: 2, Indels: 6
0.76 0.06 0.18
Matches are distributed among these distances:
20 4 0.15
22 16 0.62
23 2 0.08
24 4 0.15
ACGTcount: A:0.40, C:0.02, G:0.04, T:0.54
Consensus pattern (20 bp):
TATTTTATATAAATTATAAG
Found at i:5702 original size:13 final size:13
Alignment explanation
Indices: 5684--5725 Score: 59
Period size: 13 Copynumber: 3.2 Consensus size: 13
5674 TTGATTGTAT
*
5684 TTATTAATTATAC
1 TTATTAATTATAA
5697 TTATTAATTATAA
1 TTATTAATTATAA
5710 TTA-TAATTATTAA
1 TTATTAATTA-TAA
5723 TTA
1 TTA
5726 AAAAATTATT
Statistics
Matches: 27, Mismatches: 1, Indels: 2
0.90 0.03 0.07
Matches are distributed among these distances:
12 6 0.22
13 21 0.78
ACGTcount: A:0.43, C:0.02, G:0.00, T:0.55
Consensus pattern (13 bp):
TTATTAATTATAA
Found at i:5710 original size:19 final size:19
Alignment explanation
Indices: 5688--5770 Score: 68
Period size: 19 Copynumber: 4.5 Consensus size: 19
5678 TTGTATTTAT
*
5688 TAATTATACTTATTAATTA
1 TAATTATAATTATTAATTA
5707 TAATTATAATTATTAATTA
1 TAATTATAATTATTAATTA
** *
5726 -AAAAATTATTAGTTAA-TA
1 TAATTATAATTA-TTAATTA
5744 TTAATTA-AATTA-TAA-TA
1 -TAATTATAATTATTAATTA
*
5761 AAATTATAAT
1 TAATTATAAT
5771 ACAAGTTAAT
Statistics
Matches: 52, Mismatches: 8, Indels: 10
0.74 0.11 0.14
Matches are distributed among these distances:
16 5 0.10
17 8 0.15
18 10 0.19
19 26 0.50
20 3 0.06
ACGTcount: A:0.51, C:0.01, G:0.01, T:0.47
Consensus pattern (19 bp):
TAATTATAATTATTAATTA
Found at i:6686 original size:38 final size:41
Alignment explanation
Indices: 6635--6730 Score: 128
Period size: 38 Copynumber: 2.4 Consensus size: 41
6625 ATAAATGTAT
*
6635 TAAATTATTATTATTATA-TTAAATTAAT-TTATACTAA-A
1 TAAATTATTATTATTATATTTAAATTAATATTATAATAAGA
* *
6673 TAAATTATTATTATTATATTTAACTTATTATTATAATAAGA
1 TAAATTATTATTATTATATTTAAATTAATATTATAATAAGA
*
6714 TTAATTATTA-TATTATA
1 TAAATTATTATTATTATA
6731 CAATATTGTA
Statistics
Matches: 51, Mismatches: 4, Indels: 4
0.86 0.07 0.07
Matches are distributed among these distances:
38 18 0.35
39 8 0.16
40 15 0.29
41 10 0.20
ACGTcount: A:0.45, C:0.02, G:0.01, T:0.52
Consensus pattern (41 bp):
TAAATTATTATTATTATATTTAAATTAATATTATAATAAGA
Found at i:6700 original size:20 final size:19
Alignment explanation
Indices: 6632--6706 Score: 82
Period size: 19 Copynumber: 3.9 Consensus size: 19
6622 ATTATAAATG
6632 TATTAAATTATTATTATTA
1 TATTAAATTATTATTATTA
*
6651 TATTAAATTAAT-TTA-TA
1 TATTAAATTATTATTATTA
*
6668 CTAAATAAATTATTATTATTA
1 -T-ATTAAATTATTATTATTA
*
6689 TATTTAACTTATTATTAT
1 TA-TTAAATTATTATTAT
6707 AATAAGATTA
Statistics
Matches: 46, Mismatches: 5, Indels: 9
0.77 0.08 0.15
Matches are distributed among these distances:
17 2 0.04
18 4 0.09
19 21 0.46
20 17 0.37
21 2 0.04
ACGTcount: A:0.43, C:0.03, G:0.00, T:0.55
Consensus pattern (19 bp):
TATTAAATTATTATTATTA
Found at i:6717 original size:61 final size:61
Alignment explanation
Indices: 6595--6706 Score: 149
Period size: 61 Copynumber: 1.9 Consensus size: 61
6585 ATAATTTAAT
* * * *
6595 AATTAATTTATACTATATAATTTATTAATTATAAATGTATTAAATTATTATTATTATATTA
1 AATTAATTTATACTAAATAAATTATTAATTATAAATATATTAAATTATTATTATTAGATTA
* *
6656 AATTAATTTATACTAAATAAATTATT-ATTAT-TATAT-TTAACTTATTATTAT
1 AATTAATTTATACTAAATAAATTATTAATTATAAATATATTAAATTATTATTAT
6707 AATAAGATTA
Statistics
Matches: 46, Mismatches: 5, Indels: 3
0.85 0.09 0.06
Matches are distributed among these distances:
58 14 0.30
59 3 0.07
60 5 0.11
61 24 0.52
ACGTcount: A:0.44, C:0.03, G:0.01, T:0.53
Consensus pattern (61 bp):
AATTAATTTATACTAAATAAATTATTAATTATAAATATATTAAATTATTATTATTAGATTA
Found at i:7078 original size:29 final size:28
Alignment explanation
Indices: 7025--7079 Score: 67
Period size: 29 Copynumber: 1.9 Consensus size: 28
7015 TAATTTAATA
*
7025 ATAATATTAAATAATTAGTTTAATTATG
1 ATAATATTAAATAATTAGTTAAATTATG
*
7053 ATAATATTGATATAATTTA-TTAAATTA
1 ATAATATT-AAATAA-TTAGTTAAATTA
7080 GTTATTTTAT
Statistics
Matches: 23, Mismatches: 2, Indels: 3
0.82 0.07 0.11
Matches are distributed among these distances:
28 8 0.35
29 12 0.52
30 3 0.13
ACGTcount: A:0.47, C:0.00, G:0.05, T:0.47
Consensus pattern (28 bp):
ATAATATTAAATAATTAGTTAAATTATG
Found at i:9107 original size:12 final size:12
Alignment explanation
Indices: 9092--9132 Score: 55
Period size: 12 Copynumber: 3.3 Consensus size: 12
9082 AATAAGTTTA
9092 ATAAATATTAAT
1 ATAAATATTAAT
9104 ATAAATACTTAAT
1 ATAAATA-TTAAT
* *
9117 ATTATTATTAAT
1 ATAAATATTAAT
9129 ATAA
1 ATAA
9133 TTGTTATAAG
Statistics
Matches: 25, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
12 15 0.60
13 10 0.40
ACGTcount: A:0.54, C:0.02, G:0.00, T:0.44
Consensus pattern (12 bp):
ATAAATATTAAT
Found at i:9514 original size:28 final size:28
Alignment explanation
Indices: 9482--9538 Score: 71
Period size: 28 Copynumber: 2.0 Consensus size: 28
9472 AATAATTAAA
9482 AATTTTAAATATTTAAATTA-AAATATTT
1 AATTTTAAATATTT-AATTATAAATATTT
* * *
9510 AATTTTTATTATTTAATTATAGATATTT
1 AATTTTAAATATTTAATTATAAATATTT
9538 A
1 A
9539 TTAATAAATA
Statistics
Matches: 25, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
27 5 0.20
28 20 0.80
ACGTcount: A:0.44, C:0.00, G:0.02, T:0.54
Consensus pattern (28 bp):
AATTTTAAATATTTAATTATAAATATTT
Found at i:9685 original size:27 final size:27
Alignment explanation
Indices: 9653--9715 Score: 76
Period size: 27 Copynumber: 2.3 Consensus size: 27
9643 ATATACATTT
*
9653 AATTATTATACT-ATTTGATTGCT-ATAA
1 AATTATTA-ACTAATTTAATTG-TAATAA
9680 AATTATTAACTAATTTAATTGTAATAA
1 AATTATTAACTAATTTAATTGTAATAA
*
9707 ATTTATTAA
1 AATTATTAA
9716 AATATACAAT
Statistics
Matches: 32, Mismatches: 2, Indels: 4
0.84 0.05 0.11
Matches are distributed among these distances:
26 4 0.12
27 28 0.88
ACGTcount: A:0.43, C:0.05, G:0.05, T:0.48
Consensus pattern (27 bp):
AATTATTAACTAATTTAATTGTAATAA
Found at i:10391 original size:16 final size:17
Alignment explanation
Indices: 10368--10434 Score: 61
Period size: 16 Copynumber: 4.1 Consensus size: 17
10358 TATATTATAC
10368 TTAA-ATTATTATTAAA
1 TTAATATTATTATTAAA
10384 -TAATATTATTATTTAAA
1 TTAATATTATTA-TTAAA
* *
10401 TTAAT-TTA-AATAAAGA
1 TTAATATTATTATTAA-A
*
10417 TTAAAATTATTATTAAA
1 TTAATATTATTATTAAA
10434 T
1 T
10435 AAGTTATTTA
Statistics
Matches: 40, Mismatches: 5, Indels: 11
0.71 0.09 0.20
Matches are distributed among these distances:
15 6 0.15
16 13 0.32
17 13 0.32
18 8 0.20
ACGTcount: A:0.51, C:0.00, G:0.01, T:0.48
Consensus pattern (17 bp):
TTAATATTATTATTAAA
Found at i:10392 original size:27 final size:26
Alignment explanation
Indices: 10346--10436 Score: 77
Period size: 27 Copynumber: 3.6 Consensus size: 26
10336 AATATAATAT
*
10346 AATT-TTATT-AATTATATTATACTTA
1 AATTATTATTAAATAATATTATA-TTA
10371 AATTATTATTAAATAATATTATTATTTA
1 AATTATTATTAAATAATATTA-TA-TTA
* * *
10399 AATTAAT-TTAAATAA-A-GAT-TAA
1 AATTATTATTAAATAATATTATATTA
10421 AATTATTATTAAATAA
1 AATTATTATTAAATAA
10437 GTTATTTATT
Statistics
Matches: 56, Mismatches: 6, Indels: 10
0.78 0.08 0.14
Matches are distributed among these distances:
22 8 0.14
23 8 0.14
24 1 0.02
25 5 0.09
26 6 0.11
27 17 0.30
28 11 0.20
ACGTcount: A:0.49, C:0.01, G:0.01, T:0.48
Consensus pattern (26 bp):
AATTATTATTAAATAATATTATATTA
Found at i:11079 original size:13 final size:14
Alignment explanation
Indices: 11033--11081 Score: 50
Period size: 13 Copynumber: 3.6 Consensus size: 14
11023 ATAAATTCTT
11033 ATTAATT-AT-TTA
1 ATTAATTAATATTA
*
11045 ATATAATAGAATATTA
1 AT-TAAT-TAATATTA
11061 ATTAATTAATATT-
1 ATTAATTAATATTA
11074 ATTAATTA
1 ATTAATTA
11082 TCTAAATATT
Statistics
Matches: 31, Mismatches: 2, Indels: 7
0.77 0.05 0.17
Matches are distributed among these distances:
12 2 0.06
13 12 0.39
14 6 0.19
15 6 0.19
16 5 0.16
ACGTcount: A:0.49, C:0.00, G:0.02, T:0.49
Consensus pattern (14 bp):
ATTAATTAATATTA
Found at i:11157 original size:17 final size:17
Alignment explanation
Indices: 11129--11170 Score: 50
Period size: 17 Copynumber: 2.5 Consensus size: 17
11119 TTCAATTGTT
*
11129 TAATAAAATTAATATT-A
1 TAATATAATTAA-ATTGA
*
11146 TTATATAATTAAATTGA
1 TAATATAATTAAATTGA
11163 TAATATAA
1 TAATATAA
11171 CTATATAATA
Statistics
Matches: 21, Mismatches: 3, Indels: 2
0.81 0.12 0.08
Matches are distributed among these distances:
16 3 0.14
17 18 0.86
ACGTcount: A:0.55, C:0.00, G:0.02, T:0.43
Consensus pattern (17 bp):
TAATATAATTAAATTGA
Found at i:11207 original size:28 final size:31
Alignment explanation
Indices: 11153--11209 Score: 75
Period size: 28 Copynumber: 1.9 Consensus size: 31
11143 TTATTATATA
11153 ATTAAATTGATAATATAACTATATAATATTT
1 ATTAAATTGATAATATAACTATATAATATTT
* *
11184 ATTATATT-ATAATA-AA-TATTTAATAT
1 ATTAAATTGATAATATAACTATATAATAT
11210 ACAATAATAT
Statistics
Matches: 24, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
28 9 0.38
29 2 0.08
30 6 0.25
31 7 0.29
ACGTcount: A:0.49, C:0.02, G:0.02, T:0.47
Consensus pattern (31 bp):
ATTAAATTGATAATATAACTATATAATATTT
Found at i:11216 original size:21 final size:21
Alignment explanation
Indices: 11177--11218 Score: 57
Period size: 21 Copynumber: 2.0 Consensus size: 21
11167 ATAACTATAT
* **
11177 AATATTTATTATATTATAATA
1 AATATTTAATATACAATAATA
11198 AATATTTAATATACAATAATA
1 AATATTTAATATACAATAATA
11219 TTATATAATT
Statistics
Matches: 18, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
21 18 1.00
ACGTcount: A:0.52, C:0.02, G:0.00, T:0.45
Consensus pattern (21 bp):
AATATTTAATATACAATAATA
Found at i:11238 original size:17 final size:17
Alignment explanation
Indices: 11145--11238 Score: 57
Period size: 17 Copynumber: 5.2 Consensus size: 17
11135 AATTAATATT
**
11145 ATTATATAATTAAATTG
1 ATTATATAATTAAATAA
* * *
11162 ATAATATAACTATATAA
1 ATTATATAATTAAATAA
11179 TATT-TATTATATTATAATAA
1 -ATTATA-TA-ATTA-AATAA
*
11199 A-TATTTAATATACAATAA
1 ATTATATAAT-TA-AATAA
11217 TATTATATAATTAAATAA
1 -ATTATATAATTAAATAA
11235 ATTA
1 ATTA
11239 AATATATTAT
Statistics
Matches: 58, Mismatches: 11, Indels: 16
0.68 0.13 0.19
Matches are distributed among these distances:
17 20 0.34
18 19 0.33
19 8 0.14
20 11 0.19
ACGTcount: A:0.52, C:0.02, G:0.01, T:0.45
Consensus pattern (17 bp):
ATTATATAATTAAATAA
Found at i:11841 original size:181 final size:180
Alignment explanation
Indices: 11494--11967 Score: 542
Period size: 181 Copynumber: 2.7 Consensus size: 180
11484 AGATTTCAAG
* * *
11494 CAATTAGCTATTTCAAATTGTTATGACCTTTTGTTTTG-CTATAAAACAATTGTTTCTGTTCATA
1 CAATTATCTATTTCAAATCGTTATGACCTTTTGTTTTGTC-ATAAAACAATTGTTTCTATTCATA
* * ** *
11558 CAAGTTTATTTC-AAATAAAATAATA-TAAATTTACTAATATTCCAAAGATTAATAAGTAAAAAT
65 -AAGCTTA-TTCAAAATAAAATAATACT-AATTTATTAATATTTAAAAAATTAATAAGTAAAAAT
* ** *
11621 ATATAAAATAAATTTGTTTTTTGAACATGTTAAAAATAATTATGACTATTTGAA
127 ATAAAAAATAAATTTGTTTACTGAACATGTTAAAAATAATTATGACTATTTAAA
* * *
11675 CAATTATCTATTTCAAATCGTTATGGCCTTTTGTTTTGTCGTAAACCAATTGTTTCTATTCATAA
1 CAATTATCTATTTCAAATCGTTATGACCTTTTGTTTTGTCATAAAACAATTGTTTCTATTCAT-A
* * *
11740 AAGCTTATTCAAAATAAAATAATACTAATTTATTAAAATTTAAAAAATTAATAAGTGAAATATTT
65 AAGCTTATTCAAAATAAAATAATACTAATTTATTAATATTTAAAAAATTAATAAGT-AAAAATAT
** *
11805 AAAAAATAAATTTGTTTACTGAGTGA-GTT-CAAATAATTATGACTATTTAAA
129 AAAAAATAAATTTGTTTACTGA-ACATGTTAAAAATAATTATGACTATTTAAA
* * * *
11856 TAATTATTTATTTCAAATCGTTATGATCC-CTTGTTTTGTAATAAAACAATTGTTTCTATTCAT-
1 CAATTATCTATTTCAAATCGTTATGA-CCTTTTGTTTTGTCATAAAACAATTGTTTCTATTCATA
* *
11919 -A-C--A--AAAAATAAAATAATACTAATTTATTAATATTTTAAAAATTAATAAG
65 AAGCTTATTCAAAATAAAATAATACTAATTTATTAATATTTAAAAAATTAATAAG
11968 AGATTTAAAA
Statistics
Matches: 255, Mismatches: 31, Indels: 22
0.83 0.10 0.07
Matches are distributed among these distances:
173 43 0.17
175 1 0.00
177 1 0.00
178 1 0.00
180 3 0.01
181 172 0.67
182 33 0.13
183 1 0.00
ACGTcount: A:0.42, C:0.09, G:0.08, T:0.41
Consensus pattern (180 bp):
CAATTATCTATTTCAAATCGTTATGACCTTTTGTTTTGTCATAAAACAATTGTTTCTATTCATAA
AGCTTATTCAAAATAAAATAATACTAATTTATTAATATTTAAAAAATTAATAAGTAAAAATATAA
AAAATAAATTTGTTTACTGAACATGTTAAAAATAATTATGACTATTTAAA
Found at i:12226 original size:22 final size:21
Alignment explanation
Indices: 12200--12244 Score: 54
Period size: 22 Copynumber: 2.1 Consensus size: 21
12190 GAATAATATT
12200 TAAATAGATAATAATCTATAAC
1 TAAATAGATAATAAT-TATAAC
***
12222 TAAATCTTTAATAATTATAAC
1 TAAATAGATAATAATTATAAC
12243 TA
1 TA
12245 TTACACTTCA
Statistics
Matches: 20, Mismatches: 3, Indels: 1
0.83 0.12 0.04
Matches are distributed among these distances:
21 8 0.40
22 12 0.60
ACGTcount: A:0.51, C:0.09, G:0.02, T:0.38
Consensus pattern (21 bp):
TAAATAGATAATAATTATAAC
Found at i:12312 original size:16 final size:15
Alignment explanation
Indices: 12291--12323 Score: 57
Period size: 16 Copynumber: 2.1 Consensus size: 15
12281 AAACTTTTGA
12291 ATAATATTATATAAAT
1 ATAATATTATA-AAAT
12307 ATAATATTATAAAAT
1 ATAATATTATAAAAT
12322 AT
1 AT
12324 TATAGACTAT
Statistics
Matches: 17, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
15 6 0.35
16 11 0.65
ACGTcount: A:0.58, C:0.00, G:0.00, T:0.42
Consensus pattern (15 bp):
ATAATATTATAAAAT
Found at i:12983 original size:31 final size:31
Alignment explanation
Indices: 12922--12983 Score: 74
Period size: 31 Copynumber: 2.0 Consensus size: 31
12912 TTTTAAACTT
**
12922 TATTAATCTATTAAATCAATTTTATTTATTA
1 TATTAATCTATTAAATCAATTTTACATATTA
12953 TATTAATCTA-TAAAT-AATATTATACATATTA
1 TATTAATCTATTAAATCAAT-TT-TACATATTA
12984 CAATAAATAT
Statistics
Matches: 27, Mismatches: 2, Indels: 4
0.82 0.06 0.12
Matches are distributed among these distances:
29 3 0.11
30 7 0.26
31 17 0.63
ACGTcount: A:0.44, C:0.06, G:0.00, T:0.50
Consensus pattern (31 bp):
TATTAATCTATTAAATCAATTTTACATATTA
Found at i:13664 original size:16 final size:16
Alignment explanation
Indices: 13635--13678 Score: 54
Period size: 16 Copynumber: 2.7 Consensus size: 16
13625 AACTTAACTA
13635 ATTTATTAATTAAT-ATT
1 ATTTATTAA-TAATGA-T
*
13652 TTTTATTAATAATGAT
1 ATTTATTAATAATGAT
13668 ATTTATTAATA
1 ATTTATTAATA
13679 TAATAAAATT
Statistics
Matches: 24, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
16 15 0.62
17 9 0.38
ACGTcount: A:0.41, C:0.00, G:0.02, T:0.57
Consensus pattern (16 bp):
ATTTATTAATAATGAT
Found at i:13926 original size:30 final size:28
Alignment explanation
Indices: 13892--13970 Score: 72
Period size: 30 Copynumber: 2.7 Consensus size: 28
13882 GTTTATAATA
13892 ATATAATAATTAATTAATATTAAATATATC
1 ATATAATAATTAATTAATATTAAATA-A-C
*
13922 ATATAAT--TTAATTTTAAAATTAAATAAC
1 ATATAATAATTAA--TTAATATTAAATAAC
*
13950 TTGATAATAAATTAATTAATA
1 AT-ATAAT-AATTAATTAATA
13971 ATTTAATTAA
Statistics
Matches: 40, Mismatches: 3, Indels: 12
0.73 0.05 0.22
Matches are distributed among these distances:
28 6 0.15
29 6 0.15
30 24 0.60
32 4 0.10
ACGTcount: A:0.53, C:0.03, G:0.01, T:0.43
Consensus pattern (28 bp):
ATATAATAATTAATTAATATTAAATAAC
Found at i:14939 original size:181 final size:179
Alignment explanation
Indices: 14614--14939 Score: 384
Period size: 181 Copynumber: 1.8 Consensus size: 179
14604 TCAAAATATT
* * * * * *
14614 ATTAGTATTATTTTAATCCAATAAACTTGTACGAACAAAACAATTGTTTTATGTTAAAAGAAAAT
1 ATTAGTATTATTTTAATCAAATAAAATAGTACGAACAAAACAATTGTTTGATGATAAAAGAAAAG
* * * ** * **
14679 GTCATAACGATTTGAAATAGATAATCATTCATAGAGTCTTAACTATTTAAACTGGTTCGATAATT
66 GTCATAACGATTTAAAATAAATAATCATTCAAAGAGTCAAAACTATTTAAAATGGTTCGATAAGC
14744 AAATTTATTTTTTAATTTTCTTGGTTATTAAGTTTCAAAATATTATTAA
131 AAATTTATTTTTTAATTTTCTTGGTTATTAAGTTTCAAAATATTATTAA
* * * * *
14793 ATTAGTATTATTTTATTCTAAATAAAATAGTATGAATAGAACCAATTGTTTGATGATAAAATAAA
1 ATTAGTATTATTTTAATC-AAATAAAATAGTACGAACA-AAACAATTGTTTGATGATAAAAGAAA
* * * * * *
14858 AGGTTATAACGATTTAAAATAAATAATTATTGAAATAGTCAAAACTATTTAAAATGGTTTGGTAA
64 AGGTCATAACGATTTAAAATAAATAATCATTCAAAGAGTCAAAACTATTTAAAATGGTTCGATAA
*
14923 GCAGATTT-TCTTTTTAA
129 GCAAATTTAT-TTTTTAA
14940 ATCTCTTATA
Statistics
Matches: 118, Mismatches: 26, Indels: 4
0.80 0.18 0.03
Matches are distributed among these distances:
179 17 0.14
180 15 0.13
181 86 0.73
ACGTcount: A:0.41, C:0.07, G:0.11, T:0.40
Consensus pattern (179 bp):
ATTAGTATTATTTTAATCAAATAAAATAGTACGAACAAAACAATTGTTTGATGATAAAAGAAAAG
GTCATAACGATTTAAAATAAATAATCATTCAAAGAGTCAAAACTATTTAAAATGGTTCGATAAGC
AAATTTATTTTTTAATTTTCTTGGTTATTAAGTTTCAAAATATTATTAA
Found at i:16038 original size:18 final size:20
Alignment explanation
Indices: 15996--16042 Score: 62
Period size: 18 Copynumber: 2.4 Consensus size: 20
15986 TTTAATTGCT
*
15996 AATTATATATATATATATATT
1 AATTATA-ATATATATATATA
16017 AATTATAATATA-ATA-ATA
1 AATTATAATATATATATATA
16035 AATTATAA
1 AATTATAA
16043 AATAGAATAT
Statistics
Matches: 25, Mismatches: 1, Indels: 3
0.86 0.03 0.10
Matches are distributed among these distances:
18 10 0.40
19 3 0.12
20 5 0.20
21 7 0.28
ACGTcount: A:0.55, C:0.00, G:0.00, T:0.45
Consensus pattern (20 bp):
AATTATAATATATATATATA
Found at i:16056 original size:18 final size:19
Alignment explanation
Indices: 16016--16061 Score: 51
Period size: 18 Copynumber: 2.5 Consensus size: 19
16006 ATATATATAT
* *
16016 TAATTATAATATAATAATA
1 TAATTATAAAATAAGAATA
16035 -AATTATAAAAT-AGAATA
1 TAATTATAAAATAAGAATA
*
16052 TAATTTTAAA
1 TAATTATAAA
16062 TGTTATATTC
Statistics
Matches: 23, Mismatches: 3, Indels: 3
0.79 0.10 0.10
Matches are distributed among these distances:
17 5 0.22
18 18 0.78
ACGTcount: A:0.59, C:0.00, G:0.02, T:0.39
Consensus pattern (19 bp):
TAATTATAAAATAAGAATA
Found at i:16373 original size:20 final size:21
Alignment explanation
Indices: 16341--16402 Score: 76
Period size: 20 Copynumber: 3.0 Consensus size: 21
16331 CAATAACAAC
16341 AATTTAT-TAATTAAACAAAT
1 AATTTATATAATTAAACAAAT
16361 -ATTTATATAATTAAACAAATT
1 AATTTATATAATTAAACAAA-T
*
16382 AAATTTATATTA-TAAACAAAT
1 -AATTTATATAATTAAACAAAT
16403 GCTCTATATT
Statistics
Matches: 37, Mismatches: 1, Indels: 7
0.82 0.02 0.16
Matches are distributed among these distances:
19 6 0.16
20 12 0.32
21 2 0.05
22 8 0.22
23 9 0.24
ACGTcount: A:0.55, C:0.05, G:0.00, T:0.40
Consensus pattern (21 bp):
AATTTATATAATTAAACAAAT
Found at i:16631 original size:21 final size:20
Alignment explanation
Indices: 16572--16631 Score: 57
Period size: 21 Copynumber: 2.9 Consensus size: 20
16562 TATCTATATT
* *
16572 ATAATAAAATAATATTATAA
1 ATAATAATATAATATTACAA
* *
16592 CTAATTAATATACAGATTACAA
1 ATAA-TAATATA-ATATTACAA
16614 ATAATAATATCAATATTA
1 ATAATAATAT-AATATTA
16632 GGTATAATTA
Statistics
Matches: 31, Mismatches: 6, Indels: 5
0.74 0.14 0.12
Matches are distributed among these distances:
20 3 0.10
21 17 0.55
22 11 0.35
ACGTcount: A:0.57, C:0.07, G:0.02, T:0.35
Consensus pattern (20 bp):
ATAATAATATAATATTACAA
Found at i:17166 original size:16 final size:15
Alignment explanation
Indices: 17130--17172 Score: 63
Period size: 16 Copynumber: 2.9 Consensus size: 15
17120 TAAATAATAA
17130 TATAATTATAA-TAT
1 TATAATTATAATTAT
17144 TAT-ATTATAATTAT
1 TATAATTATAATTAT
17158 TATAAATTATAATTA
1 TAT-AATTATAATTA
17173 ACTTATTTGT
Statistics
Matches: 26, Mismatches: 0, Indels: 4
0.87 0.00 0.13
Matches are distributed among these distances:
13 7 0.27
14 9 0.35
16 10 0.38
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (15 bp):
TATAATTATAATTAT
Found at i:17570 original size:17 final size:17
Alignment explanation
Indices: 17535--17573 Score: 51
Period size: 17 Copynumber: 2.2 Consensus size: 17
17525 TATAGCTTAT
*
17535 TTAAATTATTATTTAAA
1 TTAAATTATAATTTAAA
*
17552 TTAAATTATAATATTAAT
1 TTAAATTATAAT-TTAAA
17570 TTAA
1 TTAA
17574 CATGACTATT
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
17 11 0.58
18 8 0.42
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (17 bp):
TTAAATTATAATTTAAA
Found at i:17795 original size:180 final size:181
Alignment explanation
Indices: 17593--18125 Score: 458
Period size: 180 Copynumber: 3.0 Consensus size: 181
17583 TTGAACTTGT
*
17593 TCAGTAAACATATTTATTTTTTAAATCTCCTACCTATTAA-T-TTGCAAAATATTAATAAAGTAA
1 TCAGTAAACAGATTTATTTTTTAAATCTCCTACCTATTAATTGTTG--AAATATTAATAAAGTAA
* * * * * *
17656 TATTATTTTATTTTGAATAAACTTGTA-TGAATAGGAACAATT-ATTTTATGACAAAACAAAA-A
64 TATTATTTTATTTTGAATAAACTTATACAG-ACAGAAACAATTGA-TTCATCACAAAACAAAAGA
* *
17718 TTATAACTATTAGAAATAAAAAATTGTTCAAACAGTTATAA-CTATTTAAGCTTAC
127 TCATAACTATTAGAAATAAAAAATTGTTCAAACAGTCA-AATCTATTTAAGCTTAC
* ** * * * * *
17773 TCAGTAAATAGATTTATTTTTTAAATCTTTTACTTATTAATTGTTGGAATATTATTAAATTAGTA
1 TCAGTAAACAGATTTATTTTTTAAATCTCCTACCTATTAATTGTTGAAATATTAATAAAGTAATA
* *
17838 TTATTTTATTTTGAATAAGCTTATACAGACAGAAACAATTGATTCATCACAAAACAAAAGGTCAT
66 TTATTTTATTTTGAATAAACTTATACAGACAGAAACAATTGATTCATCACAAAACAAAAGATCAT
* * * * * * **
17903 AACTATTTGAAATAGATAATTGTTCAAATAGTCAAATCTATTTAAACATGT
131 AACTATTAGAAATAAAAAATTGTTCAAACAGTCAAATCTATTTAAGCTTAC
** * ** * * * *
17954 TCAAAAAACAAATTTATTTTTTAAAT-TTTTACTTATTAAATT-TTGGAATATTAATAAATTTA-
1 TCAGTAAACAGATTTATTTTTTAAATCTCCTACCTATT-AATTGTTGAAATATTAATAAAGTAAT
** * * * ** * * *
18016 ATTATTTTATTCGGTATAAGCTTGTATGGACAGAAACAATTGGTTTATCACAAAACAAAAAAGGT
65 ATTATTTTATTTTGAATAAACTTATACAGACAGAAACAATTGATTCATCACAAAAC--AAAAGAT
* * *
18081 CATAACTATTTA-AAATAAATAATTTTTCAAATAGTCAGAA-CTATT
128 CATAACTA-TTAGAAATAAAAAATTGTTCAAACAGTCA-AATCTATT
18126 CCAACATGTT
Statistics
Matches: 297, Mismatches: 45, Indels: 21
0.82 0.12 0.06
Matches are distributed among these distances:
179 48 0.16
180 128 0.43
181 114 0.38
182 7 0.02
ACGTcount: A:0.42, C:0.09, G:0.09, T:0.40
Consensus pattern (181 bp):
TCAGTAAACAGATTTATTTTTTAAATCTCCTACCTATTAATTGTTGAAATATTAATAAAGTAATA
TTATTTTATTTTGAATAAACTTATACAGACAGAAACAATTGATTCATCACAAAACAAAAGATCAT
AACTATTAGAAATAAAAAATTGTTCAAACAGTCAAATCTATTTAAGCTTAC
Found at i:18080 original size:181 final size:181
Alignment explanation
Indices: 17578--18203 Score: 680
Period size: 181 Copynumber: 3.5 Consensus size: 181
17568 ATTTAACATG
* * ** * ** * *
17578 ACTATTTGAACTTGTTCAGTAAACATATTTATTTTTTAAATCTCCTACCTATTAA-TTTGCAAAA
1 ACTATTTAAACATGTTCAAAAAACAAATTTATTTTTTAAATCTTTTACTTATTAATTTTG--GAA
* * * * * * *
17642 TATTAATAAAGTAATATTATTTTATTTTGAATAAACTTGTATGAATAGGAACAATT-ATTTTATG
64 TATTAATAAATTTATATTATTTTATTTTGAATAAGCTTGTATGGACAGAAACAATTGA-TTTATC
* * * * * *
17706 ACAAAACAAAAA--TTATAACTATTAGAAATAAAAAATTGTTCAAACAGTTATA
128 ACAAAACAAAAAGGTCATAACTATTTGAAATAAATAATTGTTCAAATAGTCAGA
* * ** ** * *
17758 ACTATTTAAGCTTACTCAGTAAATAGATTTATTTTTTAAATCTTTTACTTATTAATTGTTGGAAT
1 ACTATTTAAACATGTTCAAAAAACAAATTTATTTTTTAAATCTTTTACTTATTAATT-TTGGAAT
* * ** *
17823 ATTATTAAA-TTAGTATTATTTTATTTTGAATAAGCTTATACAGACAGAAACAATTGATTCATCA
65 ATTAATAAATTTA-TATTATTTTATTTTGAATAAGCTTGTATGGACAGAAACAATTGATTTATCA
*
17887 CAAAAC-AAAAGGTCATAACTATTTGAAATAGATAATTGTTCAAATAGTCA-A
129 CAAAACAAAAAGGTCATAACTATTTGAAATAAATAATTGTTCAAATAGTCAGA
17938 ATCTATTTAAACATGTTCAAAAAACAAATTTATTTTTTAAAT-TTTTACTTATTAAATTTTGGAA
1 A-CTATTTAAACATGTTCAAAAAACAAATTTATTTTTTAAATCTTTTACTTATT-AATTTTGGAA
** * *
18002 TATTAATAAATTTA-ATTATTTTATTCGGTATAAGCTTGTATGGACAGAAACAATTGGTTTATCA
64 TATTAATAAATTTATATTATTTTATTTTGAATAAGCTTGTATGGACAGAAACAATTGATTTATCA
* *
18066 CAAAACAAAAAAGGTCATAACTATTTAAAATAAATAATTTTTCAAATAGTCAGA
129 CAAAAC-AAAAAGGTCATAACTATTTGAAATAAATAATTGTTCAAATAGTCAGA
** *
18120 ACTATTCCAACATGTTCAAAAAACAAATTTATTTTTTAAAT-TTTCACTTATTAAATTTTGGAAT
1 ACTATTTAAACATGTTCAAAAAACAAATTTATTTTTTAAATCTTTTACTTATT-AATTTTGGAAT
*
18184 ATTAATTAATTTA-ATTATTT
65 ATTAATAAATTTATATTATTT
18204 CAAATAATTA
Statistics
Matches: 383, Mismatches: 51, Indels: 23
0.84 0.11 0.05
Matches are distributed among these distances:
179 54 0.14
180 131 0.34
181 193 0.50
182 5 0.01
ACGTcount: A:0.42, C:0.09, G:0.08, T:0.41
Consensus pattern (181 bp):
ACTATTTAAACATGTTCAAAAAACAAATTTATTTTTTAAATCTTTTACTTATTAATTTTGGAATA
TTAATAAATTTATATTATTTTATTTTGAATAAGCTTGTATGGACAGAAACAATTGATTTATCACA
AAACAAAAAGGTCATAACTATTTGAAATAAATAATTGTTCAAATAGTCAGA
Found at i:18524 original size:17 final size:16
Alignment explanation
Indices: 18492--18551 Score: 56
Period size: 14 Copynumber: 3.9 Consensus size: 16
18482 ATTTATCATT
18492 ATTTTATAT-TTA-TA
1 ATTTTATATATTATTA
18506 ATTTTATGATATTATTA
1 ATTTTAT-ATATTATTA
*
18523 ATGATTATATATTATT-
1 AT-TTTATATATTATTA
*
18539 ATATTA-ATATTAT
1 ATTTTATATATTAT
18552 AATAATAATT
Statistics
Matches: 41, Mismatches: 1, Indels: 8
0.82 0.02 0.16
Matches are distributed among these distances:
14 14 0.34
15 6 0.15
16 5 0.12
17 12 0.29
18 4 0.10
ACGTcount: A:0.38, C:0.00, G:0.03, T:0.58
Consensus pattern (16 bp):
ATTTTATATATTATTA
Found at i:18656 original size:13 final size:15
Alignment explanation
Indices: 18615--18650 Score: 63
Period size: 15 Copynumber: 2.4 Consensus size: 15
18605 CTATTGGAAT
*
18615 TATTATATTAATTAC
1 TATTATATTAATTAA
18630 TATTATATTAATTAA
1 TATTATATTAATTAA
18645 TATTAT
1 TATTAT
18651 TAATTATTAT
Statistics
Matches: 20, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
15 20 1.00
ACGTcount: A:0.42, C:0.03, G:0.00, T:0.56
Consensus pattern (15 bp):
TATTATATTAATTAA
Found at i:18662 original size:15 final size:15
Alignment explanation
Indices: 18618--18666 Score: 59
Period size: 15 Copynumber: 3.3 Consensus size: 15
18608 TTGGAATTAT
18618 TATATTAATTACTAT-
1 TATATTAATTA-TATA
18633 TATATTAATTA-ATA
1 TATATTAATTATATA
18647 T-TATTAATTATTATA
1 TATATTAATTA-TATA
18662 TATAT
1 TATAT
18667 AAATAAAATA
Statistics
Matches: 30, Mismatches: 0, Indels: 7
0.81 0.00 0.19
Matches are distributed among these distances:
13 11 0.37
14 1 0.03
15 15 0.50
16 3 0.10
ACGTcount: A:0.43, C:0.02, G:0.00, T:0.55
Consensus pattern (15 bp):
TATATTAATTATATA
Found at i:18888 original size:15 final size:16
Alignment explanation
Indices: 18868--18907 Score: 57
Period size: 15 Copynumber: 2.6 Consensus size: 16
18858 ATTATTTTTT
18868 ATTAATTAAATATT-A
1 ATTAATTAAATATTAA
18883 ATTAATT-AATATTAA
1 ATTAATTAAATATTAA
18898 ATTGAATTAA
1 ATT-AATTAA
18908 CAAAAATATA
Statistics
Matches: 22, Mismatches: 0, Indels: 4
0.85 0.00 0.15
Matches are distributed among these distances:
14 6 0.27
15 11 0.50
16 4 0.18
17 1 0.05
ACGTcount: A:0.53, C:0.00, G:0.03, T:0.45
Consensus pattern (16 bp):
ATTAATTAAATATTAA
Found at i:19171 original size:3 final size:3
Alignment explanation
Indices: 19163--19201 Score: 78
Period size: 3 Copynumber: 13.0 Consensus size: 3
19153 AAATAGTCTT
19163 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA
19202 TTATTATTAT
Statistics
Matches: 36, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 36 1.00
ACGTcount: A:0.67, C:0.00, G:0.00, T:0.33
Consensus pattern (3 bp):
ATA
Found at i:19755 original size:22 final size:22
Alignment explanation
Indices: 19722--19764 Score: 61
Period size: 22 Copynumber: 2.0 Consensus size: 22
19712 CTTTTAGTTA
*
19722 TATTCAAATAATACTATAATAT
1 TATTCAAATAATACAATAATAT
19744 TATT-AAATTAATACAATAATA
1 TATTCAAA-TAATACAATAATA
19765 ATTGTTTATA
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
21 3 0.16
22 16 0.84
ACGTcount: A:0.53, C:0.07, G:0.00, T:0.40
Consensus pattern (22 bp):
TATTCAAATAATACAATAATAT
Found at i:19869 original size:22 final size:21
Alignment explanation
Indices: 19830--19883 Score: 63
Period size: 22 Copynumber: 2.5 Consensus size: 21
19820 GTTTATCATT
19830 ATTAATAGTTAATAATTATAA
1 ATTAATAGTTAATAATTATAA
* * *
19851 ATTAATATTATAATTATTATAT
1 ATTAATAGT-TAATAATTATAA
19873 ATTAAATAGTT
1 ATT-AATAGTT
19884 TTGTTATTAA
Statistics
Matches: 27, Mismatches: 4, Indels: 3
0.79 0.12 0.09
Matches are distributed among these distances:
21 8 0.30
22 14 0.52
23 5 0.19
ACGTcount: A:0.48, C:0.00, G:0.04, T:0.48
Consensus pattern (21 bp):
ATTAATAGTTAATAATTATAA
Found at i:20581 original size:180 final size:181
Alignment explanation
Indices: 20097--20623 Score: 513
Period size: 180 Copynumber: 2.9 Consensus size: 181
20087 TAATATTTGA
* * ** *
20097 ATTAATAAATTAGTATTATTTTA-TTCGAATAAACTTGTATGATAAAAAATAATTATTTTATGAC
1 ATTAATAAATTAGTATTATTTTATTTCAAATAAGCTTGTATGAT-TGAAACAATTATTTTATGAC
* * * * * * * *
20161 AAAACAAAAGATCATAACGATTTGAAATCGATAATCATTCAAATGGCCATAATTATTTGAAC-TG
65 TAAACAAAAGGTCATAATGATTTGAAATAGATAATTATTCAAATAGTCATAAATATTTGAACTTG
* *
20225 ATTCGATAAACTGATTTATGTTTTAAATCTCTAACTTATCAATTTTTATAAT
130 ATTCGATAAACTGATTTATGTTTTAAATCTCTAACTTATAAATTTTTAGAAT
* * * * * *
20277 ATTAATAAAGTAATATTATTTTATTTCATATAAGCTTTTATGAACTGAAACAATTTTTTTATGA-
1 ATTAATAAATTAGTATTATTTTATTTCAAATAAGCTTGTATG-ATTGAAACAATTATTTTATGAC
* * * * *
20341 TAAA-ATATAAGGTCATAATGATTTTAAATAGATAGTTGTTCAAATAGTAAAAAATATTTGAACT
65 TAAACA-A-AAGGTCATAATGATTTGAAATAGATAATTATTCAAATAGTCATAAATATTTGAACT
* * *
20405 TG-TTCTG-TAAA-TAGATTT-T-TTTTCTAATTTCTTACTTAATAAATTTTT-GAAT
128 TGATTC-GATAAACT-GATTTATGTTTT-AAATCTCTAACTT-ATAAATTTTTAGAAT
* * *
20457 GTTAATAAATTAGTATTATTTTATTTCAAATAAGCATGTATCAGTTGAAACAATTATTTTATGAC
1 ATTAATAAATTAGTATTATTTTATTTCAAATAAGCTTGTATGA-TTGAAACAATTATTTTATGAC
* * * *
20522 TAAACAAAAGGTCAAAATGATTTGAAATAGATAATTATTCTAATAGTCTTAACTATTTGAAC-TG
65 TAAACAAAAGGTCATAATGATTTGAAATAGATAATTATTCAAATAGTCATAAATATTTGAACTTG
** * *
20586 ATTC-AGTAAACACATTTATTTTTTAAATC-CTTACTTAT
130 ATTCGA-TAAACTGATTTATGTTTTAAATCTCTAACTTAT
20624 TAATGTAGCA
Statistics
Matches: 278, Mismatches: 51, Indels: 37
0.76 0.14 0.10
Matches are distributed among these distances:
179 10 0.04
180 157 0.56
181 102 0.37
182 9 0.03
ACGTcount: A:0.40, C:0.09, G:0.09, T:0.42
Consensus pattern (181 bp):
ATTAATAAATTAGTATTATTTTATTTCAAATAAGCTTGTATGATTGAAACAATTATTTTATGACT
AAACAAAAGGTCATAATGATTTGAAATAGATAATTATTCAAATAGTCATAAATATTTGAACTTGA
TTCGATAAACTGATTTATGTTTTAAATCTCTAACTTATAAATTTTTAGAAT
Found at i:21208 original size:182 final size:180
Alignment explanation
Indices: 20875--21223 Score: 488
Period size: 182 Copynumber: 1.9 Consensus size: 180
20865 TTTTAAATAA
*
20875 ATTTATTTTTGAAATTTTTACTTATTAATTTTTGGAACATTAATAAATTTATATTATTTTATTTG
1 ATTTATTTTTGAAATTTTTACTTATTAATTTTTGGAACATTAATAAATTTATATTATTTTATTTC
* * ** *
20940 AAATAAGCTTGAATGAATAGAACCAATTGTTTTATGACAAAACAAAAGGTTGTAATGTTTTGAAA
66 AAATAAGCTTAAATGAATAGAAACAATTGTTTTATGACAAAACAAAAGGTTACAATGATTTGAAA
21005 TAGATAATTATTAAGATAGTCATAACTATTTGAACTTCTTCAATAAAAAG
131 TAGATAATTATTAAGATAGTCATAACTATTTGAACTTCTTCAATAAAAAG
** * *
21055 ATTTATTTTTTTAATTCTCTTACTTTTTAATTTTTGGAATATTAATAAA-TTAGTATTATTTTAT
1 ATTTATTTTTGAAATT-T-TTACTTATTAATTTTTGGAACATTAATAAATTTA-TATTATTTTAT
* * * *
21119 TTCAAATAAGC-TAACATGATTTGAAACAATTGTTTTATTACAAAACAAAATGTTACAATGATTT
63 TTCAAATAAGCTTAA-ATGAATAGAAACAATTGTTTTATGACAAAACAAAAGGTTACAATGATTT
* *
21183 GAAGTAGATAATTATTCAA-ATAGTCATGACTATTTGAACTT
127 GAAATAGATAATTATT-AAGATAGTCATAACTATTTGAACTT
21224 GATTGGTAAA
Statistics
Matches: 148, Mismatches: 16, Indels: 8
0.86 0.09 0.05
Matches are distributed among these distances:
180 14 0.09
181 6 0.04
182 126 0.85
183 2 0.01
ACGTcount: A:0.39, C:0.07, G:0.10, T:0.44
Consensus pattern (180 bp):
ATTTATTTTTGAAATTTTTACTTATTAATTTTTGGAACATTAATAAATTTATATTATTTTATTTC
AAATAAGCTTAAATGAATAGAAACAATTGTTTTATGACAAAACAAAAGGTTACAATGATTTGAAA
TAGATAATTATTAAGATAGTCATAACTATTTGAACTTCTTCAATAAAAAG
Found at i:21438 original size:11 final size:11
Alignment explanation
Indices: 21422--21463 Score: 52
Period size: 11 Copynumber: 4.0 Consensus size: 11
21412 TTGATATTAT
21422 ATTATCAAATA
1 ATTATCAAATA
21433 ATTATCAAATA
1 ATTATCAAATA
* *
21444 A-TAT-TACTA
1 ATTATCAAATA
21453 ATTATCAAATA
1 ATTATCAAATA
21464 TTACAAGTTT
Statistics
Matches: 25, Mismatches: 4, Indels: 4
0.76 0.12 0.12
Matches are distributed among these distances:
9 4 0.16
10 6 0.24
11 15 0.60
ACGTcount: A:0.52, C:0.10, G:0.00, T:0.38
Consensus pattern (11 bp):
ATTATCAAATA
Found at i:21518 original size:17 final size:17
Alignment explanation
Indices: 21443--21510 Score: 71
Period size: 17 Copynumber: 4.4 Consensus size: 17
21433 ATTATCAAAT
21443 AATATTACTAATTATCA
1 AATATTACTAATTATCA
21460 AATATTAC-AAGTT-T--
1 AATATTACTAA-TTATCA
21474 -A-A-TA-TAATTATCA
1 AATATTACTAATTATCA
21487 AATATTACTAATTATCA
1 AATATTACTAATTATCA
21504 AATATTA
1 AATATTA
21511 TCAATTATTG
Statistics
Matches: 42, Mismatches: 0, Indels: 18
0.70 0.00 0.30
Matches are distributed among these distances:
10 2 0.05
11 5 0.12
12 1 0.02
13 1 0.02
14 1 0.02
15 1 0.02
16 5 0.12
17 26 0.62
ACGTcount: A:0.49, C:0.09, G:0.01, T:0.41
Consensus pattern (17 bp):
AATATTACTAATTATCA
Found at i:21647 original size:15 final size:15
Alignment explanation
Indices: 21627--21705 Score: 65
Period size: 15 Copynumber: 5.1 Consensus size: 15
21617 TAATATTATA
21627 ATTATAATTATAATT
1 ATTATAATTATAATT
21642 ATTATAATTATAATAT
1 ATTATAATTATAAT-T
* * *
21658 ATTAGAATAATATAGT
1 ATTATAATTATA-ATT
21674 ATTA-AATTAGTAA-T
1 ATTATAATTA-TAATT
21688 ATTTGATAATTAT-ATT
1 A-TT-ATAATTATAATT
21704 AT
1 AT
21706 CAAATAATTA
Statistics
Matches: 53, Mismatches: 4, Indels: 14
0.75 0.06 0.20
Matches are distributed among these distances:
14 2 0.04
15 23 0.43
16 22 0.42
17 6 0.11
ACGTcount: A:0.47, C:0.00, G:0.05, T:0.48
Consensus pattern (15 bp):
ATTATAATTATAATT
Found at i:21988 original size:19 final size:19
Alignment explanation
Indices: 21964--22003 Score: 55
Period size: 19 Copynumber: 2.1 Consensus size: 19
21954 ATAAATGAAG
*
21964 ATTAAA-TATTATTAATTAA
1 ATTAAATTAATATT-ATTAA
21983 ATTAAATTAATATTATTAA
1 ATTAAATTAATATTATTAA
22002 AT
1 AT
22004 ATTATTATAA
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
19 13 0.68
20 6 0.32
ACGTcount: A:0.53, C:0.00, G:0.00, T:0.47
Consensus pattern (19 bp):
ATTAAATTAATATTATTAA
Found at i:22035 original size:19 final size:19
Alignment explanation
Indices: 21992--22038 Score: 53
Period size: 19 Copynumber: 2.5 Consensus size: 19
21982 AATTAAATTA
21992 ATATTATT-AAATATTATT
1 ATATTATTGAAATATTATT
*
22010 ATAATTATTGTAATATTGA-T
1 AT-ATTATTGAAATATT-ATT
22030 ATATTATTG
1 ATATTATTG
22039 CTCTGATAAT
Statistics
Matches: 25, Mismatches: 1, Indels: 5
0.81 0.03 0.16
Matches are distributed among these distances:
18 2 0.08
19 13 0.52
20 9 0.36
21 1 0.04
ACGTcount: A:0.40, C:0.00, G:0.06, T:0.53
Consensus pattern (19 bp):
ATATTATTGAAATATTATT
Found at i:22123 original size:25 final size:25
Alignment explanation
Indices: 22093--22152 Score: 77
Period size: 25 Copynumber: 2.4 Consensus size: 25
22083 TGAAATATTA
22093 ATAATAATAATATATATTTACTAA-T
1 ATAATAATAATATATATTTA-TAATT
* *
22118 ATAATAATATTATATGTTTATAATT
1 ATAATAATAATATATATTTATAATT
22143 ATAATTAATA
1 ATAA-TAATA
22153 TCATAAATTA
Statistics
Matches: 31, Mismatches: 2, Indels: 3
0.86 0.06 0.08
Matches are distributed among these distances:
24 3 0.10
25 23 0.74
26 5 0.16
ACGTcount: A:0.50, C:0.02, G:0.02, T:0.47
Consensus pattern (25 bp):
ATAATAATAATATATATTTATAATT
Found at i:22333 original size:19 final size:19
Alignment explanation
Indices: 22294--22333 Score: 53
Period size: 19 Copynumber: 2.1 Consensus size: 19
22284 ATTTTATATT
* *
22294 TTGTATATAAATATTTGAA
1 TTGTATATAAATAATTAAA
*
22313 TTGTATATAATTAATTAAA
1 TTGTATATAAATAATTAAA
22332 TT
1 TT
22334 AATTAATTAA
Statistics
Matches: 18, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
19 18 1.00
ACGTcount: A:0.42, C:0.00, G:0.07, T:0.50
Consensus pattern (19 bp):
TTGTATATAAATAATTAAA
Found at i:22642 original size:24 final size:24
Alignment explanation
Indices: 22597--22644 Score: 60
Period size: 24 Copynumber: 2.0 Consensus size: 24
22587 TATATACAAT
* * *
22597 ATATTATTTATACAATTGTTTTTA
1 ATATTATTCAAACAATTCTTTTTA
*
22621 ATATTATTCAAACTATTCTTTTTA
1 ATATTATTCAAACAATTCTTTTTA
22645 TTTTAAGTAG
Statistics
Matches: 20, Mismatches: 4, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
24 20 1.00
ACGTcount: A:0.33, C:0.08, G:0.02, T:0.56
Consensus pattern (24 bp):
ATATTATTCAAACAATTCTTTTTA
Found at i:23645 original size:25 final size:25
Alignment explanation
Indices: 23612--23683 Score: 76
Period size: 25 Copynumber: 2.9 Consensus size: 25
23602 TATATGAATT
23612 TATTCAAATATTTTATATAATTATAG
1 TATT-AAATATTTTATATAATTATAG
**
23638 TATTAAATATTATTA-ATAAAAATAG
1 TATTAAATATT-TTATATAATTATAG
* *
23663 TAAT-AATATTTTATTTAATTA
1 TATTAAATATTTTATATAATTA
23684 ATATAATATA
Statistics
Matches: 38, Mismatches: 6, Indels: 6
0.76 0.12 0.12
Matches are distributed among these distances:
23 3 0.08
24 10 0.26
25 18 0.47
26 7 0.18
ACGTcount: A:0.47, C:0.01, G:0.03, T:0.49
Consensus pattern (25 bp):
TATTAAATATTTTATATAATTATAG
Found at i:23686 original size:25 final size:25
Alignment explanation
Indices: 23618--23697 Score: 69
Period size: 25 Copynumber: 3.2 Consensus size: 25
23608 AATTTATTCA
* *
23618 AATATTTTATATAATT-ATAGTATT
1 AATATTTTATTTAATTAATAGTAAT
* *
23642 AA-ATATTA-TTAATAAAAATAGTAAT
1 AATATTTTATTTAAT--TAATAGTAAT
23667 AATATTTTATTTAATTAATA-TAAT
1 AATATTTTATTTAATTAATAGTAAT
23691 ATATATT
1 A-ATATT
23698 AATTATAACA
Statistics
Matches: 44, Mismatches: 6, Indels: 11
0.72 0.10 0.18
Matches are distributed among these distances:
22 4 0.09
23 5 0.11
24 7 0.16
25 18 0.41
26 5 0.11
27 5 0.11
ACGTcount: A:0.49, C:0.00, G:0.03, T:0.49
Consensus pattern (25 bp):
AATATTTTATTTAATTAATAGTAAT
Found at i:23919 original size:22 final size:22
Alignment explanation
Indices: 23872--23921 Score: 57
Period size: 22 Copynumber: 2.3 Consensus size: 22
23862 TATAGTTAAT
* * *
23872 TAATAATTGATTAATTTTATTA
1 TAATATTTGATTAAATTAATTA
23894 TAATATTTG-TTAAATTAATTA
1 TAATATTTGATTAAATTAATTA
23915 GTAATAT
1 -TAATAT
23922 AATTAATTTA
Statistics
Matches: 24, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
21 10 0.42
22 14 0.58
ACGTcount: A:0.42, C:0.00, G:0.06, T:0.52
Consensus pattern (22 bp):
TAATATTTGATTAAATTAATTA
Found at i:24029 original size:22 final size:22
Alignment explanation
Indices: 24003--24064 Score: 63
Period size: 23 Copynumber: 2.7 Consensus size: 22
23993 TTATCATGCT
* *
24003 TAAATATAATATATTGTTTATC
1 TAAATATAATATATTATTTATA
*
24025 TAAATATATTATAATTATTTATA
1 TAAATATAATAT-ATTATTTATA
24048 TATAATATTAAT-TATTA
1 TA-AATA-TAATATATTA
24065 ATAATATATT
Statistics
Matches: 33, Mismatches: 4, Indels: 5
0.79 0.10 0.12
Matches are distributed among these distances:
22 11 0.33
23 14 0.42
24 5 0.15
25 3 0.09
ACGTcount: A:0.45, C:0.02, G:0.02, T:0.52
Consensus pattern (22 bp):
TAAATATAATATATTATTTATA
Found at i:24042 original size:19 final size:18
Alignment explanation
Indices: 24020--24133 Score: 58
Period size: 19 Copynumber: 5.9 Consensus size: 18
24010 AATATATTGT
24020 TTATCTAAATATATTATAA
1 TTAT-TAAATATATTATAA
* *
24039 TTATTTATATATAATATTAA
1 TTA-TTAAATATATTA-TAA
24059 TTATTAATAATATATTGAT-A
1 TTATT-A-AATATATT-ATAA
24079 TTATATAAATATTATT-TAGA
1 TTAT-TAAATA-TATTATA-A
*
24099 TTA-TATATA-ATTAAGTAA
1 TTATTAAATATATT-A-TAA
24117 -TATTAAAATATATTATA
1 TTATT-AAATATATTATA
24134 TTTTATAATA
Statistics
Matches: 74, Mismatches: 6, Indels: 31
0.67 0.05 0.28
Matches are distributed among these distances:
16 3 0.04
17 2 0.03
18 10 0.14
19 25 0.34
20 25 0.34
21 8 0.11
22 1 0.01
ACGTcount: A:0.47, C:0.01, G:0.03, T:0.49
Consensus pattern (18 bp):
TTATTAAATATATTATAA
Found at i:24061 original size:20 final size:20
Alignment explanation
Indices: 24036--24109 Score: 68
Period size: 20 Copynumber: 3.9 Consensus size: 20
24026 AAATATATTA
24036 TAATTATTTATATATAATAT
1 TAATTATTTATATATAATAT
*
24056 TAATTATTAATA-AT-ATAT
1 TAATTATTTATATATAATAT
*
24074 TGA-TA-TTATATA-AATAT
1 TAATTATTTATATATAATAT
* *
24091 TATTTAGATTATATATAAT
1 TAATTA-TTTATATATAAT
24110 TAAGTAATAT
Statistics
Matches: 43, Mismatches: 5, Indels: 11
0.73 0.08 0.19
Matches are distributed among these distances:
16 4 0.09
17 8 0.19
18 8 0.19
19 2 0.05
20 18 0.42
21 3 0.07
ACGTcount: A:0.46, C:0.00, G:0.03, T:0.51
Consensus pattern (20 bp):
TAATTATTTATATATAATAT
Found at i:24213 original size:12 final size:14
Alignment explanation
Indices: 24188--24264 Score: 52
Period size: 15 Copynumber: 5.4 Consensus size: 14
24178 TAAATATATA
24188 ATAATTATATTAAT
1 ATAATTATATTAAT
*
24202 ATAATTTATAATAAGT
1 ATAA-TTATATTAA-T
*
24218 -TAAAT-TATTAATT
1 ATAATTATATTAA-T
* *
24231 GTTATGTATATTAAT
1 ATAAT-TATATTAAT
24246 ATATATTATATTAAT
1 ATA-ATTATATTAAT
24261 -TAAT
1 ATAAT
24265 AACATAATGT
Statistics
Matches: 49, Mismatches: 8, Indels: 13
0.70 0.11 0.19
Matches are distributed among these distances:
13 8 0.16
14 9 0.18
15 23 0.47
16 9 0.18
ACGTcount: A:0.45, C:0.00, G:0.04, T:0.51
Consensus pattern (14 bp):
ATAATTATATTAAT
Found at i:24425 original size:16 final size:18
Alignment explanation
Indices: 24404--24438 Score: 56
Period size: 16 Copynumber: 2.1 Consensus size: 18
24394 GTTAATTTAC
24404 AATAATA-TTAT-ATTGT
1 AATAATATTTATAATTGT
24420 AATAATATTTATAATTGT
1 AATAATATTTATAATTGT
24438 A
1 A
24439 TACAAATTAA
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
16 7 0.41
17 4 0.24
18 6 0.35
ACGTcount: A:0.46, C:0.00, G:0.06, T:0.49
Consensus pattern (18 bp):
AATAATATTTATAATTGT
Found at i:24889 original size:15 final size:15
Alignment explanation
Indices: 24869--24956 Score: 60
Period size: 15 Copynumber: 6.0 Consensus size: 15
24859 TATAAATAAA
24869 AAATAATTTTATATT
1 AAATAATTTTATATT
* *
24884 AAATAAATTTATTTT
1 AAATAATTTTATATT
* * *
24899 ATAT-ATTATAATAAT
1 AAATAATT-TTATATT
*
24914 ATAATTATTTTATATAT
1 A-AATAATTTTATAT-T
24931 AAATAA-TTTATA-T
1 AAATAATTTTATATT
24944 -AATAA-TTTATATT
1 AAATAATTTTATATT
24957 GTTATTTAAG
Statistics
Matches: 57, Mismatches: 11, Indels: 12
0.71 0.14 0.15
Matches are distributed among these distances:
12 11 0.19
13 2 0.04
14 2 0.04
15 27 0.47
16 10 0.18
17 5 0.09
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (15 bp):
AAATAATTTTATATT
Found at i:24889 original size:22 final size:22
Alignment explanation
Indices: 24861--24936 Score: 64
Period size: 22 Copynumber: 3.3 Consensus size: 22
24851 TTAATGTTTA
24861 TAAATAAAAAATAATTTTATAT
1 TAAATAAAAAATAATTTTATAT
** *
24883 TAAAT-AAATTTATTTTATATAT
1 TAAATAAAAAATAATTT-TATAT
* *
24905 TATAATAATATAATTATTTTATAT
1 TA-AATAA-AAAATAATTTTATAT
24929 ATAAATAA
1 -TAAATAA
24937 TTTATATAAT
Statistics
Matches: 41, Mismatches: 8, Indels: 8
0.72 0.14 0.14
Matches are distributed among these distances:
21 8 0.20
22 12 0.29
23 3 0.07
24 11 0.27
25 7 0.17
ACGTcount: A:0.53, C:0.00, G:0.00, T:0.47
Consensus pattern (22 bp):
TAAATAAAAAATAATTTTATAT
Found at i:24899 original size:20 final size:20
Alignment explanation
Indices: 24874--24941 Score: 66
Period size: 24 Copynumber: 3.1 Consensus size: 20
24864 ATAAAAAATA
24874 ATTTTATATTAAATAAATTT
1 ATTTTATATTAAATAAATTT
24894 ATTTTATATATTATAATAATATAATT
1 A-TTT-TATATTA-AATAA-AT--TT
24920 ATTTTATATATAAAT-AATTT
1 ATTTTATAT-TAAATAAATTT
24940 AT
1 AT
24942 ATAATAATTT
Statistics
Matches: 41, Mismatches: 0, Indels: 14
0.75 0.00 0.25
Matches are distributed among these distances:
20 5 0.12
21 3 0.07
22 9 0.22
23 6 0.15
24 10 0.24
25 5 0.12
26 3 0.07
ACGTcount: A:0.46, C:0.00, G:0.00, T:0.54
Consensus pattern (20 bp):
ATTTTATATTAAATAAATTT
Found at i:24914 original size:26 final size:24
Alignment explanation
Indices: 24859--24937 Score: 87
Period size: 26 Copynumber: 3.4 Consensus size: 24
24849 TTTTAATGTT
* *
24859 TATAAATAA-AAAATAATTTTATA
1 TATAAATAATATAATTATTTTATA
24882 T-TAAATAA-AT--TTATTTTATA
1 TATAAATAATATAATTATTTTATA
24902 TATTATAATAATATAATTATTTTATA
1 TA-TA-AATAATATAATTATTTTATA
24928 TATAAATAAT
1 TATAAATAAT
24938 TTATATAATA
Statistics
Matches: 48, Mismatches: 2, Indels: 11
0.79 0.03 0.18
Matches are distributed among these distances:
20 10 0.21
22 10 0.21
23 6 0.12
24 8 0.17
25 2 0.04
26 12 0.25
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (24 bp):
TATAAATAATATAATTATTTTATA
Found at i:24943 original size:28 final size:26
Alignment explanation
Indices: 24892--24955 Score: 76
Period size: 26 Copynumber: 2.4 Consensus size: 26
24882 TTAAATAAAT
*
24892 TTATTTTATATATTATAATAATATAA
1 TTATTTTATATATAATAATAATATAA
*
24918 TTATTTTATATATAAATAATTTATATAA
1 TTATTTTATATAT-AATAA-TAATATAA
*
24946 -TAATTTATAT
1 TTATTTTATAT
24956 TGTTATTTAA
Statistics
Matches: 33, Mismatches: 3, Indels: 3
0.85 0.08 0.08
Matches are distributed among these distances:
26 13 0.39
27 13 0.39
28 7 0.21
ACGTcount: A:0.45, C:0.00, G:0.00, T:0.55
Consensus pattern (26 bp):
TTATTTTATATATAATAATAATATAA
Found at i:24949 original size:12 final size:13
Alignment explanation
Indices: 24926--24955 Score: 53
Period size: 12 Copynumber: 2.4 Consensus size: 13
24916 AATTATTTTA
24926 TATATAAATAATT
1 TATATAAATAATT
24939 TATAT-AATAATT
1 TATATAAATAATT
24951 TATAT
1 TATAT
24956 TGTTATTTAA
Statistics
Matches: 17, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
12 12 0.71
13 5 0.29
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (13 bp):
TATATAAATAATT
Found at i:24954 original size:46 final size:44
Alignment explanation
Indices: 24852--24954 Score: 109
Period size: 46 Copynumber: 2.2 Consensus size: 44
24842 TAAGAAATTT
* *
24852 TAATGTTTATAAATAAAAAATAATTTTATATTAAATAAATTTATT
1 TAATATTTAT-AATAAAAAATAATTTTATATTAAATAAATTTATA
* * *
24897 TTATATATTATAATAATATAATTATTTTATATATAAAT-AATTTATA
1 TAATAT-TTATAATAA-AAAATAATTTTATAT-TAAATAAATTTATA
24943 TAATAATTTATA
1 TAAT-ATTTATA
24955 TTGTTATTTA
Statistics
Matches: 48, Mismatches: 6, Indels: 7
0.79 0.10 0.11
Matches are distributed among these distances:
45 9 0.19
46 32 0.67
47 7 0.15
ACGTcount: A:0.50, C:0.00, G:0.01, T:0.50
Consensus pattern (44 bp):
TAATATTTATAATAAAAAATAATTTTATATTAAATAAATTTATA
Found at i:25150 original size:23 final size:23
Alignment explanation
Indices: 25124--25171 Score: 71
Period size: 23 Copynumber: 2.1 Consensus size: 23
25114 TTATTTGATA
*
25124 ATTTATATATATTATAAGT-ATAT
1 ATTTATATA-ATTATAAATAATAT
25147 ATTTATATAATTATAAATAATAT
1 ATTTATATAATTATAAATAATAT
25170 AT
1 AT
25172 AATTTTTTAA
Statistics
Matches: 23, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
22 8 0.35
23 15 0.65
ACGTcount: A:0.48, C:0.00, G:0.02, T:0.50
Consensus pattern (23 bp):
ATTTATATAATTATAAATAATAT
Found at i:25617 original size:18 final size:18
Alignment explanation
Indices: 25571--25622 Score: 52
Period size: 18 Copynumber: 2.8 Consensus size: 18
25561 TATAATTTAT
*
25571 TATAGTAATTAATAATTAA
1 TATACTAATTAA-AATTAA
*
25590 T-TATTAAATTAAAATTAA
1 TATACT-AATTAAAATTAA
*
25608 TATACTAATTTAAAT
1 TATACTAATTAAAAT
25623 AACTAATCTA
Statistics
Matches: 28, Mismatches: 3, Indels: 5
0.78 0.08 0.14
Matches are distributed among these distances:
18 18 0.64
19 10 0.36
ACGTcount: A:0.52, C:0.02, G:0.02, T:0.44
Consensus pattern (18 bp):
TATACTAATTAAAATTAA
Found at i:25620 original size:19 final size:18
Alignment explanation
Indices: 25577--25621 Score: 54
Period size: 19 Copynumber: 2.4 Consensus size: 18
25567 TTATTATAGT
*
25577 AATTAATAATTAATTATTA
1 AATTAA-AATTAATTACTA
25596 AATTAAAATTAATATACTA
1 AATTAAAATTAAT-TACTA
*
25615 ATTTAAA
1 AATTAAA
25622 TAACTAATCT
Statistics
Matches: 23, Mismatches: 2, Indels: 2
0.85 0.07 0.07
Matches are distributed among these distances:
18 7 0.30
19 16 0.70
ACGTcount: A:0.56, C:0.02, G:0.00, T:0.42
Consensus pattern (18 bp):
AATTAAAATTAATTACTA
Found at i:25995 original size:23 final size:22
Alignment explanation
Indices: 25969--26017 Score: 62
Period size: 23 Copynumber: 2.2 Consensus size: 22
25959 TTTATAATTA
* *
25969 ATTAATTGTAATTAATATATAAT
1 ATTAATTATAATTAAT-TAAAAT
*
25992 ATTAATTATTATTAATTAAAAT
1 ATTAATTATAATTAATTAAAAT
26014 ATTA
1 ATTA
26018 TTTTAATGAT
Statistics
Matches: 23, Mismatches: 3, Indels: 1
0.85 0.11 0.04
Matches are distributed among these distances:
22 9 0.39
23 14 0.61
ACGTcount: A:0.49, C:0.00, G:0.02, T:0.49
Consensus pattern (22 bp):
ATTAATTATAATTAATTAAAAT
Found at i:26007 original size:27 final size:27
Alignment explanation
Indices: 25977--26031 Score: 74
Period size: 27 Copynumber: 2.0 Consensus size: 27
25967 TAATTAATTG
* *
25977 TAATTAATATATAATATTAATTATTAT
1 TAATTAAAATATAATATTAATGATTAT
* *
26004 TAATTAAAATATTATTTTAATGATTAT
1 TAATTAAAATATAATATTAATGATTAT
26031 T
1 T
26032 TAATAAACTT
Statistics
Matches: 24, Mismatches: 4, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
27 24 1.00
ACGTcount: A:0.45, C:0.00, G:0.02, T:0.53
Consensus pattern (27 bp):
TAATTAAAATATAATATTAATGATTAT
Found at i:26442 original size:21 final size:20
Alignment explanation
Indices: 26395--26456 Score: 65
Period size: 21 Copynumber: 3.1 Consensus size: 20
26385 AATGATTTGA
*
26395 AACTTAATTAT-TTATATAT
1 AACTTAATAATATTATATAT
*
26414 AACTTAATGATATTATATA-
1 AACTTAATAATATTATATAT
*
26433 ATACTATAATAATATTAAATAT
1 A-ACT-TAATAATATTATATAT
26455 AA
1 AA
26457 GAGATTATAA
Statistics
Matches: 36, Mismatches: 3, Indels: 6
0.80 0.07 0.13
Matches are distributed among these distances:
19 11 0.31
20 10 0.28
21 14 0.39
22 1 0.03
ACGTcount: A:0.50, C:0.05, G:0.02, T:0.44
Consensus pattern (20 bp):
AACTTAATAATATTATATAT
Found at i:26618 original size:25 final size:26
Alignment explanation
Indices: 26584--26642 Score: 68
Period size: 25 Copynumber: 2.3 Consensus size: 26
26574 ATCAATTAAA
*
26584 GTTATTATTTATATAAATTAT-TTTT
1 GTTATAATTTATATAAATTATATTTT
* *
26609 GTTATAATTTTTATAATTTATATTTT
1 GTTATAATTTATATAAATTATATTTT
*
26635 -TAATAATT
1 GTTATAATT
26643 AATTAATGTG
Statistics
Matches: 29, Mismatches: 4, Indels: 2
0.83 0.11 0.06
Matches are distributed among these distances:
25 25 0.86
26 4 0.14
ACGTcount: A:0.34, C:0.00, G:0.03, T:0.63
Consensus pattern (26 bp):
GTTATAATTTATATAAATTATATTTT
Found at i:26629 original size:16 final size:16
Alignment explanation
Indices: 26610--26642 Score: 50
Period size: 16 Copynumber: 2.1 Consensus size: 16
26600 ATTATTTTTG
26610 TTATAATTTTT-ATAAT
1 TTAT-ATTTTTAATAAT
26626 TTATATTTTTAATAAT
1 TTATATTTTTAATAAT
26642 T
1 T
26643 AATTAATGTG
Statistics
Matches: 16, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
15 6 0.38
16 10 0.62
ACGTcount: A:0.36, C:0.00, G:0.00, T:0.64
Consensus pattern (16 bp):
TTATATTTTTAATAAT
Found at i:26965 original size:12 final size:13
Alignment explanation
Indices: 26937--26973 Score: 51
Period size: 12 Copynumber: 2.9 Consensus size: 13
26927 AAATAGTATT
26937 ATTCATATAATATA
1 ATTCAT-TAATATA
26951 ATTCATTAA-ATA
1 ATTCATTAATATA
26963 ATT-ATTAATAT
1 ATTCATTAATAT
26974 TATTAATATA
Statistics
Matches: 22, Mismatches: 0, Indels: 4
0.85 0.00 0.15
Matches are distributed among these distances:
11 5 0.23
12 8 0.36
13 3 0.14
14 6 0.27
ACGTcount: A:0.49, C:0.05, G:0.00, T:0.46
Consensus pattern (13 bp):
ATTCATTAATATA
Found at i:27015 original size:39 final size:38
Alignment explanation
Indices: 26933--27015 Score: 98
Period size: 38 Copynumber: 2.2 Consensus size: 38
26923 AATAAAATAG
* * *
26933 TATTATTCATATAATATAATTCATTAAATAATTATTAA
1 TATTATTAATATAATATAACTCATTAAATAATTATGAA
26971 TATTATTAATAT-ATATAACT-ATTAGTAATAAATTATGAA
1 TATTATTAATATAATATAACTCATTA--AAT-AATTATGAA
27010 TATTAT
1 TATTAT
27016 AATCTTTAAA
Statistics
Matches: 39, Mismatches: 3, Indels: 5
0.83 0.06 0.11
Matches are distributed among these distances:
36 4 0.10
37 7 0.18
38 14 0.36
39 14 0.36
ACGTcount: A:0.47, C:0.04, G:0.02, T:0.47
Consensus pattern (38 bp):
TATTATTAATATAATATAACTCATTAAATAATTATGAA
Found at i:27137 original size:11 final size:10
Alignment explanation
Indices: 27110--27172 Score: 62
Period size: 11 Copynumber: 6.4 Consensus size: 10
27100 TATACTATAG
27110 TATTATTAA-
1 TATTATTAAT
27119 TA--ATTAAT
1 TATTATTAAT
27127 TCATTATTAAT
1 T-ATTATTAAT
27138 TAATTATTAAT
1 T-ATTATTAAT
27149 TATTATT-AT
1 TATTATTAAT
*
27158 AATTATTTAAT
1 TATTA-TTAAT
27169 TATT
1 TATT
27173 TTATAATTTA
Statistics
Matches: 45, Mismatches: 3, Indels: 10
0.78 0.05 0.17
Matches are distributed among these distances:
7 5 0.11
8 1 0.02
9 9 0.20
10 8 0.18
11 22 0.49
ACGTcount: A:0.41, C:0.02, G:0.00, T:0.57
Consensus pattern (10 bp):
TATTATTAAT
Found at i:27139 original size:4 final size:4
Alignment explanation
Indices: 27114--27170 Score: 50
Period size: 4 Copynumber: 15.0 Consensus size: 4
27104 CTATAGTATT
* *
27114 ATTA A-TA ATTA ATTC ATT- ATTA ATTA ATT- ATTA ATT- ATTA TTATA
1 ATTA ATTA ATTA ATTA ATTA ATTA ATTA ATTA ATTA ATTA ATTA AT-TA
*
27159 ATTA TTTA ATTA
1 ATTA ATTA ATTA
27171 TTTTATAATT
Statistics
Matches: 43, Mismatches: 5, Indels: 10
0.74 0.09 0.17
Matches are distributed among these distances:
3 12 0.28
4 28 0.65
5 3 0.07
ACGTcount: A:0.44, C:0.02, G:0.00, T:0.54
Consensus pattern (4 bp):
ATTA
Found at i:27176 original size:19 final size:19
Alignment explanation
Indices: 27110--27180 Score: 83
Period size: 19 Copynumber: 3.7 Consensus size: 19
27100 TATACTATAG
*
27110 TATTATTAATAATTAATTCAT
1 TATTATT-ATAATT-ATTAAT
*
27131 TATTAAT-TAATTATTAAT
1 TATTATTATAATTATTAAT
27149 TATTATTATAATTATTTAAT
1 TATTATTATAATTA-TTAAT
27169 TATT-TTATAATT
1 TATTATTATAATT
27181 TAAATAATAA
Statistics
Matches: 45, Mismatches: 3, Indels: 6
0.83 0.06 0.11
Matches are distributed among these distances:
18 11 0.24
19 19 0.42
20 9 0.20
21 6 0.13
ACGTcount: A:0.41, C:0.01, G:0.00, T:0.58
Consensus pattern (19 bp):
TATTATTATAATTATTAAT
Found at i:27188 original size:20 final size:20
Alignment explanation
Indices: 27110--27188 Score: 65
Period size: 19 Copynumber: 4.0 Consensus size: 20
27100 TATACTATAG
* *
27110 TATTATTAATAATTAATTCAT
1 TATTATT-ATAATTAAATAAT
* *
27131 TATTAAT-TAATT-ATTAAT
1 TATTATTATAATTAAATAAT
**
27149 TATTATTATAATTATTTAAT
1 TATTATTATAATTAAATAAT
27169 TATT-TTATAATTTAAATAAT
1 TATTATTATAA-TTAAATAAT
27189 AATTGTATTC
Statistics
Matches: 49, Mismatches: 6, Indels: 7
0.79 0.10 0.11
Matches are distributed among these distances:
18 11 0.22
19 16 0.33
20 16 0.33
21 6 0.12
ACGTcount: A:0.43, C:0.01, G:0.00, T:0.56
Consensus pattern (20 bp):
TATTATTATAATTAAATAAT
Found at i:27435 original size:11 final size:11
Alignment explanation
Indices: 27419--27443 Score: 50
Period size: 11 Copynumber: 2.3 Consensus size: 11
27409 TTTTGTTAGT
27419 TAATATATTTA
1 TAATATATTTA
27430 TAATATATTTA
1 TAATATATTTA
27441 TAA
1 TAA
27444 ATAATAGTCA
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:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (11 bp):
TAATATATTTA
Found at i:27866 original size:20 final size:21
Alignment explanation
Indices: 27843--27882 Score: 57
Period size: 20 Copynumber: 2.0 Consensus size: 21
27833 ATTCAAATAT
27843 TAAAT-TATAAATAA-TTGAAA
1 TAAATATAT-AATAACTTGAAA
27863 TAAATATATAATAACTTGAA
1 TAAATATATAATAACTTGAA
27883 GCAGATATTG
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:0.57, C:0.03, G:0.05, T:0.35
Consensus pattern (21 bp):
TAAATATATAATAACTTGAAA
Found at i:27944 original size:21 final size:20
Alignment explanation
Indices: 27918--27977 Score: 63
Period size: 21 Copynumber: 3.0 Consensus size: 20
27908 ACATAACTTA
27918 ATTAATAATATAATTATTAAT
1 ATTAATAATAT-ATTATTAAT
*
27939 GTTAATAAT-TA-TATTAAT
1 ATTAATAATATATTATTAAT
27957 ATTAATAA-ATTATATATTAAT
1 ATTAATAATA-TAT-TATTAAT
27978 TATAATTTAT
Statistics
Matches: 33, Mismatches: 2, Indels: 8
0.77 0.05 0.19
Matches are distributed among these distances:
18 14 0.42
19 3 0.09
20 1 0.03
21 15 0.45
ACGTcount: A:0.50, C:0.00, G:0.02, T:0.48
Consensus pattern (20 bp):
ATTAATAATATATTATTAAT
Found at i:27953 original size:18 final size:19
Alignment explanation
Indices: 27918--27971 Score: 65
Period size: 18 Copynumber: 2.8 Consensus size: 19
27908 ACATAACTTA
*
27918 ATTAATAATATAATTATTAAT
1 ATTAATAA-ATTA-TATTAAT
*
27939 GTTAAT-AATTATATTAAT
1 ATTAATAAATTATATTAAT
27957 ATTAATAAATTATAT
1 ATTAATAAATTATAT
27972 ATTAATTATA
Statistics
Matches: 29, Mismatches: 3, Indels: 4
0.81 0.08 0.11
Matches are distributed among these distances:
18 12 0.41
19 11 0.38
20 1 0.03
21 5 0.17
ACGTcount: A:0.50, C:0.00, G:0.02, T:0.48
Consensus pattern (19 bp):
ATTAATAAATTATATTAAT
Found at i:28386 original size:21 final size:21
Alignment explanation
Indices: 28339--28393 Score: 60
Period size: 20 Copynumber: 2.6 Consensus size: 21
28329 ATTTATAATA
28339 AACAATAATTTATTATATTCAT
1 AACAAT-ATTTATTATATTCAT
*
28361 -GCAATATTTATTATACTT-AT
1 AACAATATTTATTATA-TTCAT
28381 AACAATAGTTTAT
1 AACAATA-TTTAT
28394 ATAATAAACT
Statistics
Matches: 28, Mismatches: 2, Indels: 6
0.78 0.06 0.17
Matches are distributed among these distances:
20 12 0.43
21 11 0.39
22 5 0.18
ACGTcount: A:0.42, C:0.09, G:0.04, T:0.45
Consensus pattern (21 bp):
AACAATATTTATTATATTCAT
Found at i:28437 original size:13 final size:13
Alignment explanation
Indices: 28419--28443 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
28409 ATACTTTATT
28419 AATAATTAGATTA
1 AATAATTAGATTA
28432 AATAATTAGATT
1 AATAATTAGATT
28444 TATTTGTATT
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:0.52, C:0.00, G:0.08, T:0.40
Consensus pattern (13 bp):
AATAATTAGATTA
Found at i:29916 original size:14 final size:13
Alignment explanation
Indices: 29899--29940 Score: 50
Period size: 12 Copynumber: 3.2 Consensus size: 13
29889 TTTATTATGA
29899 TTATATTAATTTAT
1 TTATATT-ATTTAT
29913 TTATATTATTTA-
1 TTATATTATTTAT
**
29925 GAATATTATTTAT
1 TTATATTATTTAT
29938 TTA
1 TTA
29941 AATAATATTA
Statistics
Matches: 23, Mismatches: 4, Indels: 3
0.77 0.13 0.10
Matches are distributed among these distances:
12 10 0.43
13 6 0.26
14 7 0.30
ACGTcount: A:0.36, C:0.00, G:0.02, T:0.62
Consensus pattern (13 bp):
TTATATTATTTAT
Found at i:30911 original size:19 final size:17
Alignment explanation
Indices: 30881--30926 Score: 65
Period size: 19 Copynumber: 2.6 Consensus size: 17
30871 TATAATATAA
*
30881 TTAATTATAATTATTATT
1 TTAATAATAATTATTA-T
30899 TTAGATAATAATTATTAT
1 TTA-ATAATAATTATTAT
30917 TTAATAATAA
1 TTAATAATAA
30927 CAATTAAAGT
Statistics
Matches: 26, Mismatches: 1, Indels: 3
0.87 0.03 0.10
Matches are distributed among these distances:
17 7 0.27
18 7 0.27
19 12 0.46
ACGTcount: A:0.46, C:0.00, G:0.02, T:0.52
Consensus pattern (17 bp):
TTAATAATAATTATTAT
Found at i:32242 original size:11 final size:11
Alignment explanation
Indices: 32228--32280 Score: 56
Period size: 10 Copynumber: 4.8 Consensus size: 11
32218 TTATAATCTT
32228 ATTATAAATTA
1 ATTATAAATTA
32239 ATTATAAAATTA
1 ATTAT-AAATTA
*
32251 A-TATAAAATA
1 ATTATAAATTA
32261 ATTAT-AATTA
1 ATTATAAATTA
*
32271 TTTATTAAAT
1 ATTA-TAAAT
32281 ATTGTATATT
Statistics
Matches: 35, Mismatches: 3, Indels: 7
0.78 0.07 0.16
Matches are distributed among these distances:
10 13 0.37
11 12 0.34
12 10 0.29
ACGTcount: A:0.55, C:0.00, G:0.00, T:0.45
Consensus pattern (11 bp):
ATTATAAATTA
Found at i:32244 original size:22 final size:22
Alignment explanation
Indices: 32218--32268 Score: 66
Period size: 22 Copynumber: 2.3 Consensus size: 22
32208 TTATTATATT
* * *
32218 TTATAATCTTATTATAAATTAA
1 TTATAATATTAATATAAAATAA
*
32240 TTATAAAATTAATATAAAATAA
1 TTATAATATTAATATAAAATAA
32262 TTATAAT
1 TTATAAT
32269 TATTTATTAA
Statistics
Matches: 24, Mismatches: 5, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
22 24 1.00
ACGTcount: A:0.53, C:0.02, G:0.00, T:0.45
Consensus pattern (22 bp):
TTATAATATTAATATAAAATAA
Found at i:32244 original size:41 final size:40
Alignment explanation
Indices: 32179--32255 Score: 102
Period size: 41 Copynumber: 1.9 Consensus size: 40
32169 ATATTAATAA
* * *
32179 ATAATCTTATTACATTTAATTTATATAAATTATTATATTTT
1 ATAATCTTATTAAAATTAATTTATA-AAATTAATATATTTT
32220 ATAATCTTATTATAAATTAA-TTATAAAATTAATATA
1 ATAATCTTATTA-AAATTAATTTATAAAATTAATATA
32256 AAATAATTAT
Statistics
Matches: 32, Mismatches: 3, Indels: 3
0.84 0.08 0.08
Matches are distributed among these distances:
40 10 0.31
41 17 0.53
42 5 0.16
ACGTcount: A:0.45, C:0.04, G:0.00, T:0.51
Consensus pattern (40 bp):
ATAATCTTATTAAAATTAATTTATAAAATTAATATATTTT
Found at i:32279 original size:22 final size:22
Alignment explanation
Indices: 32226--32279 Score: 56
Period size: 22 Copynumber: 2.4 Consensus size: 22
32216 TTTTATAATC
32226 TTATTATAAATTAATTATAAAAT
1 TTATTA-AAATTAATTATAAAAT
* *
32249 TAATATAAAA-TAATTATAATTAT
1 TTAT-TAAAATTAATTATAA-AAT
32272 TTATTAAA
1 TTATTAAA
32280 TATTGTATAT
Statistics
Matches: 26, Mismatches: 3, Indels: 5
0.76 0.09 0.15
Matches are distributed among these distances:
22 13 0.50
23 11 0.42
24 2 0.08
ACGTcount: A:0.54, C:0.00, G:0.00, T:0.46
Consensus pattern (22 bp):
TTATTAAAATTAATTATAAAAT
Found at i:33302 original size:17 final size:17
Alignment explanation
Indices: 33280--33312 Score: 50
Period size: 17 Copynumber: 1.9 Consensus size: 17
33270 TTATCAAATA
33280 ATTTATATAA-ATTATTT
1 ATTTAT-TAATATTATTT
33297 ATTTATTAATATTATT
1 ATTTATTAATATTATT
33313 AATTAATTAT
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:0.39, C:0.00, G:0.00, T:0.61
Consensus pattern (17 bp):
ATTTATTAATATTATTT
Found at i:33739 original size:24 final size:24
Alignment explanation
Indices: 33690--33749 Score: 77
Period size: 24 Copynumber: 2.5 Consensus size: 24
33680 AATAAGACCA
*
33690 TATAATTAATATAATAAATTGTAT
1 TATAATTAATATAATAAATTGAAT
33714 TATAATTAATATAATAAATCT-AAT
1 TATAATTAATATAATAAAT-TGAAT
*
33738 TATTAACTAATA
1 TA-TAATTAATA
33750 ATATTAATAA
Statistics
Matches: 32, Mismatches: 2, Indels: 3
0.86 0.05 0.08
Matches are distributed among these distances:
24 23 0.72
25 9 0.28
ACGTcount: A:0.52, C:0.03, G:0.02, T:0.43
Consensus pattern (24 bp):
TATAATTAATATAATAAATTGAAT
Found at i:33800 original size:22 final size:22
Alignment explanation
Indices: 33757--33808 Score: 61
Period size: 22 Copynumber: 2.4 Consensus size: 22
33747 ATAATATTAA
* *
33757 TAATATTATAATTAATTTAATT
1 TAATATAATAATTAATTCAATT
33779 TAATATAATAATT-ATATCAATT
1 TAATATAATAATTAAT-TCAATT
*
33801 TATTATAA
1 TAATATAA
33809 AAACATATGA
Statistics
Matches: 26, Mismatches: 3, Indels: 2
0.84 0.10 0.06
Matches are distributed among these distances:
21 2 0.08
22 24 0.92
ACGTcount: A:0.48, C:0.02, G:0.00, T:0.50
Consensus pattern (22 bp):
TAATATAATAATTAATTCAATT
Found at i:34368 original size:18 final size:17
Alignment explanation
Indices: 34314--34368 Score: 51
Period size: 18 Copynumber: 3.2 Consensus size: 17
34304 ATCTATTAAT
34314 ATTAAAATATTAAAT-A
1 ATTAAAATATTAAATCA
* **
34330 A-TATAATATTATTTCA
1 ATTAAAATATTAAATCA
34346 TATTAAAATATTAAATACA
1 -ATTAAAATATTAAAT-CA
34365 ATTA
1 ATTA
34369 TCTAATTAAT
Statistics
Matches: 29, Mismatches: 6, Indels: 6
0.71 0.15 0.15
Matches are distributed among these distances:
15 10 0.34
16 2 0.07
17 1 0.03
18 14 0.48
19 2 0.07
ACGTcount: A:0.55, C:0.04, G:0.00, T:0.42
Consensus pattern (17 bp):
ATTAAAATATTAAATCA
Found at i:34469 original size:8 final size:9
Alignment explanation
Indices: 34456--34517 Score: 53
Period size: 8 Copynumber: 7.4 Consensus size: 9
34446 TAATCAAATA
34456 AATATT-AT
1 AATATTAAT
34464 AATATTAAT
1 AATATTAAT
*
34473 ATTATTAAT
1 AATATTAAT
*
34482 AA-ATTGAT
1 AATATTAAT
*
34490 AATAATAAT
1 AATATTAAT
34499 AAT-TT-AT
1 AATATTAAT
*
34506 TAT-TTAAT
1 AATATTAAT
34514 AATA
1 AATA
34518 CTGATTGATT
Statistics
Matches: 42, Mismatches: 8, Indels: 7
0.74 0.14 0.12
Matches are distributed among these distances:
7 6 0.14
8 18 0.43
9 18 0.43
ACGTcount: A:0.52, C:0.00, G:0.02, T:0.47
Consensus pattern (9 bp):
AATATTAAT
Found at i:34695 original size:14 final size:13
Alignment explanation
Indices: 34658--34691 Score: 50
Period size: 14 Copynumber: 2.5 Consensus size: 13
34648 ATAATCATCA
34658 AATAATATTAATT
1 AATAATATTAATT
34671 AATAATGATTAATT
1 AATAAT-ATTAATT
*
34685 AGTAATA
1 AATAATA
34692 ATTAGTATAA
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
13 7 0.37
14 12 0.63
ACGTcount: A:0.53, C:0.00, G:0.06, T:0.41
Consensus pattern (13 bp):
AATAATATTAATT
Found at i:34736 original size:33 final size:33
Alignment explanation
Indices: 34690--34754 Score: 94
Period size: 33 Copynumber: 2.0 Consensus size: 33
34680 TAATTAGTAA
*
34690 TAATTAGTATAAATTAAAAAATAATTATTAGTT
1 TAATTAGTATAAATTAAAAAATAATTAATAGTT
* * *
34723 TAATTATTCTAAATTAATAAATAATTAATAGT
1 TAATTAGTATAAATTAAAAAATAATTAATAGT
34755 ATTAGTTTAA
Statistics
Matches: 28, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
33 28 1.00
ACGTcount: A:0.51, C:0.02, G:0.05, T:0.43
Consensus pattern (33 bp):
TAATTAGTATAAATTAAAAAATAATTAATAGTT
Found at i:34788 original size:30 final size:30
Alignment explanation
Indices: 34692--34772 Score: 74
Period size: 33 Copynumber: 2.6 Consensus size: 30
34682 ATTAGTAATA
* * * *
34692 ATTAGTATAAATTAAAAAATAATTATTAGTTT
1 ATTAGTTTAAAATAATAAATAATTAATAG--T
*
34724 AATTA-TTCTAAATTAATAAATAATTAATAGT
1 -ATTAGTT-TAAAATAATAAATAATTAATAGT
34755 ATTAGTTTAAAATAATAA
1 ATTAGTTTAAAATAATAA
34773 TAAGTTATTA
Statistics
Matches: 42, Mismatches: 4, Indels: 7
0.79 0.08 0.13
Matches are distributed among these distances:
30 14 0.33
31 3 0.07
32 1 0.02
33 24 0.57
ACGTcount: A:0.52, C:0.01, G:0.05, T:0.42
Consensus pattern (30 bp):
ATTAGTTTAAAATAATAAATAATTAATAGT
Found at i:35462 original size:23 final size:24
Alignment explanation
Indices: 35403--35462 Score: 63
Period size: 23 Copynumber: 2.5 Consensus size: 24
35393 ATATTGAATC
35403 AATAATTTATTAGTCAATAATTAA
1 AATAATTTATTAGTCAATAATTAA
35427 AAT-ATTTAAATTA-T-AATAATTATA
1 AATAATTT--ATTAGTCAATAATTA-A
*
35451 ATTAATTTATTA
1 AATAATTTATTA
35463 AGTTATTATT
Statistics
Matches: 31, Mismatches: 1, Indels: 9
0.76 0.02 0.22
Matches are distributed among these distances:
23 16 0.52
24 7 0.23
25 8 0.26
ACGTcount: A:0.50, C:0.02, G:0.02, T:0.47
Consensus pattern (24 bp):
AATAATTTATTAGTCAATAATTAA
Done.