Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: NW_019168317.1 Durio zibethinus cultivar Musang King isolate D1 unplaced genomic scaffold, Duzib1.0 scaffold_541, 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: 23606
ACGTcount: A:0.45, C:0.05, G:0.05, T:0.45
Found at i:99 original size:21 final size:22
Alignment explanation
Indices: 75--125 Score: 61
Period size: 21 Copynumber: 2.4 Consensus size: 22
65 ATTAGTTAAA
*
75 TAATTATACTA-ATTATAATTT
1 TAATTATAATACATTATAATTT
*
96 TAATTA-AATACATTATATTTT
1 TAATTATAATACATTATAATTT
*
117 TAGTTATAA
1 TAATTATAA
126 CAATTAAACA
Statistics
Matches: 25, Mismatches: 3, Indels: 3
0.81 0.10 0.10
Matches are distributed among these distances:
20 3 0.12
21 20 0.80
22 2 0.08
ACGTcount: A:0.43, C:0.04, G:0.02, T:0.51
Consensus pattern (22 bp):
TAATTATAATACATTATAATTT
Found at i:131 original size:21 final size:20
Alignment explanation
Indices: 75--131 Score: 51
Period size: 21 Copynumber: 2.7 Consensus size: 20
65 ATTAGTTAAA
*
75 TAATTATACTAATTATAATTT
1 TAATTAAAC-AATTATAATTT
* *
96 TAATTAAATACATTATATTTT
1 TAATTAAACA-ATTATAATTT
*
117 TAGTTATAACAATTA
1 TAATTA-AACAATTA
132 AACAATTGTT
Statistics
Matches: 29, Mismatches: 5, Indels: 4
0.76 0.13 0.11
Matches are distributed among these distances:
20 1 0.03
21 25 0.86
22 3 0.10
ACGTcount: A:0.44, C:0.05, G:0.02, T:0.49
Consensus pattern (20 bp):
TAATTAAACAATTATAATTT
Found at i:402 original size:35 final size:34
Alignment explanation
Indices: 314--403 Score: 105
Period size: 35 Copynumber: 2.7 Consensus size: 34
304 TTTTAAACTA
*
314 ATACT-ATTAATTGTTTATT-ATTTAGAATAATT
1 ATACTAATTAATTATTTATTAATTTAGAATAATT
* * * *
346 AAACTAA-TAATTATTTTTTAATTTATACTAATT
1 ATACTAATTAATTATTTATTAATTTAGAATAATT
379 ATTACTAATTAATTATTTATTAATT
1 A-TACTAATTAATTATTTATTAATT
404 AATATTATTT
Statistics
Matches: 47, Mismatches: 7, Indels: 5
0.80 0.12 0.08
Matches are distributed among these distances:
32 14 0.30
33 13 0.28
34 5 0.11
35 15 0.32
ACGTcount: A:0.40, C:0.04, G:0.02, T:0.53
Consensus pattern (34 bp):
ATACTAATTAATTATTTATTAATTTAGAATAATT
Found at i:432 original size:11 final size:11
Alignment explanation
Indices: 353--441 Score: 51
Period size: 11 Copynumber: 8.0 Consensus size: 11
343 ATTAAACTAA
* *
353 TAATTATTTTT
1 TAATTATATAT
*
364 TAATT-TATAC
1 TAATTATATAT
374 TAATTATTACTAAT
1 TAATTA-TA-T-AT
*
388 TAATTATTTAT
1 TAATTATATAT
399 TAATTA-ATAT
1 TAATTATATAT
409 T-ATT-TGATGAT
1 TAATTAT-AT-AT
*
420 TATTTATATAT
1 TAATTATATAT
*
431 TAATAATATAT
1 TAATTATATAT
442 AATGAATAAT
Statistics
Matches: 60, Mismatches: 9, Indels: 18
0.69 0.10 0.21
Matches are distributed among these distances:
9 3 0.05
10 13 0.22
11 27 0.45
12 7 0.12
13 3 0.05
14 7 0.12
ACGTcount: A:0.39, C:0.02, G:0.02, T:0.56
Consensus pattern (11 bp):
TAATTATATAT
Found at i:446 original size:28 final size:28
Alignment explanation
Indices: 390--446 Score: 71
Period size: 28 Copynumber: 2.0 Consensus size: 28
380 TTACTAATTA
* * *
390 ATTATTTATTAATTAATATTATTTGATG
1 ATTATTTATTAATTAATAATATATAATG
418 ATTATTTA-TATATTAATAATATATAATG
1 ATTATTTATTA-ATTAATAATATATAATG
446 A
1 A
447 ATAATTTAAA
Statistics
Matches: 25, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
27 2 0.08
28 23 0.92
ACGTcount: A:0.42, C:0.00, G:0.05, T:0.53
Consensus pattern (28 bp):
ATTATTTATTAATTAATAATATATAATG
Found at i:771 original size:15 final size:15
Alignment explanation
Indices: 720--775 Score: 51
Period size: 15 Copynumber: 3.6 Consensus size: 15
710 TAGATAATTG
720 TATTTAATATTTTAA
1 TATTTAATATTTTAA
* * *
735 TATGAAATAATATTATAT
1 TAT---TTAATATTTTAA
753 TATTTAATATTTTAA
1 TATTTAATATTTTAA
768 TA-TTAATA
1 TATTTAATA
776 GATAATTGTT
Statistics
Matches: 32, Mismatches: 6, Indels: 7
0.71 0.13 0.16
Matches are distributed among these distances:
14 6 0.19
15 14 0.44
18 12 0.38
ACGTcount: A:0.45, C:0.00, G:0.02, T:0.54
Consensus pattern (15 bp):
TATTTAATATTTTAA
Found at i:1542 original size:26 final size:28
Alignment explanation
Indices: 1509--1563 Score: 78
Period size: 28 Copynumber: 2.0 Consensus size: 28
1499 ATAATTAGTA
1509 TAAAATT-ATATAAATTTTATT-ATATT
1 TAAAATTAATATAAATTTTATTAATATT
*
1535 TAAAATTAAATATAATTTTTATTAATATT
1 TAAAATT-AATATAAATTTTATTAATATT
1564 AATAACATAT
Statistics
Matches: 25, Mismatches: 1, Indels: 3
0.86 0.03 0.10
Matches are distributed among these distances:
26 7 0.28
28 13 0.52
29 5 0.20
ACGTcount: A:0.47, C:0.00, G:0.00, T:0.53
Consensus pattern (28 bp):
TAAAATTAATATAAATTTTATTAATATT
Found at i:2677 original size:20 final size:20
Alignment explanation
Indices: 2635--2671 Score: 58
Period size: 19 Copynumber: 1.9 Consensus size: 20
2625 TCTATTATAT
*
2635 ATAATATAATTAATTTAACA
1 ATAATATAAATAATTTAACA
2655 ATAAT-TAAATAATTTAA
1 ATAATATAAATAATTTAA
2672 ATAATAGCTT
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
19 11 0.69
20 5 0.31
ACGTcount: A:0.57, C:0.03, G:0.00, T:0.41
Consensus pattern (20 bp):
ATAATATAAATAATTTAACA
Found at i:2797 original size:11 final size:12
Alignment explanation
Indices: 2734--2811 Score: 60
Period size: 11 Copynumber: 7.0 Consensus size: 12
2724 ATTAAACAAA
2734 TAATTTTATAAT
1 TAATTTTATAAT
* *
2746 TAAATATATAA-
1 TAATTTTATAAT
* *
2757 T-ATTTAATAAA
1 TAATTTTATAAT
2768 TAA--TTATAAT
1 TAATTTTATAAT
**
2778 TGTTTTTAT-AT
1 TAATTTTATAAT
2789 TAATTTTATAAT
1 TAATTTTATAAT
2801 TAA-TTTATAAT
1 TAATTTTATAAT
2812 AAGATTACAA
Statistics
Matches: 50, Mismatches: 11, Indels: 11
0.69 0.15 0.15
Matches are distributed among these distances:
10 12 0.24
11 19 0.38
12 19 0.38
ACGTcount: A:0.45, C:0.00, G:0.01, T:0.54
Consensus pattern (12 bp):
TAATTTTATAAT
Found at i:3824 original size:22 final size:22
Alignment explanation
Indices: 3796--3840 Score: 63
Period size: 22 Copynumber: 2.0 Consensus size: 22
3786 TTTATTACAA
**
3796 TATAAATATTTATAAACTATAT
1 TATAAATATAGATAAACTATAT
*
3818 TATAAATATAGATAATCTATAT
1 TATAAATATAGATAAACTATAT
3840 T
1 T
3841 TCCACTCATA
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
22 20 1.00
ACGTcount: A:0.49, C:0.04, G:0.02, T:0.44
Consensus pattern (22 bp):
TATAAATATAGATAAACTATAT
Found at i:4564 original size:13 final size:13
Alignment explanation
Indices: 4546--4575 Score: 51
Period size: 13 Copynumber: 2.3 Consensus size: 13
4536 TTTCTATTTT
4546 ATTATTATAATTA
1 ATTATTATAATTA
*
4559 ATTATTTTAATTA
1 ATTATTATAATTA
4572 ATTA
1 ATTA
4576 ATAATCAATA
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
13 16 1.00
ACGTcount: A:0.43, C:0.00, G:0.00, T:0.57
Consensus pattern (13 bp):
ATTATTATAATTA
Found at i:5132 original size:14 final size:13
Alignment explanation
Indices: 5093--5134 Score: 50
Period size: 12 Copynumber: 3.2 Consensus size: 13
5083 TAATATTATT
5093 TAAATAAATAATA
1 TAAATAAATAATA
**
5106 T-TCTAAATAATA
1 TAAATAAATAATA
5118 TAAATAAATTAATA
1 TAAATAAA-TAATA
5132 TAA
1 TAA
5135 TCATAATAAA
Statistics
Matches: 23, Mismatches: 4, Indels: 3
0.77 0.13 0.10
Matches are distributed among these distances:
12 10 0.43
13 5 0.22
14 8 0.35
ACGTcount: A:0.62, C:0.02, G:0.00, T:0.36
Consensus pattern (13 bp):
TAAATAAATAATA
Found at i:5757 original size:20 final size:20
Alignment explanation
Indices: 5730--5767 Score: 60
Period size: 20 Copynumber: 1.9 Consensus size: 20
5720 ATTTATATTA
5730 GTTATATAAATT-ATAAAAT
1 GTTATATAAATTAATAAAAT
5749 GTTATTATAAATTAATAAA
1 GTTA-TATAAATTAATAAA
5768 TAATTAAATA
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
19 4 0.24
20 8 0.47
21 5 0.29
ACGTcount: A:0.53, C:0.00, G:0.05, T:0.42
Consensus pattern (20 bp):
GTTATATAAATTAATAAAAT
Found at i:6636 original size:13 final size:13
Alignment explanation
Indices: 6620--6644 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
6610 AATACAAATA
6620 AATCTAATTATTT
1 AATCTAATTATTT
6633 AATCTAATTATT
1 AATCTAATTATT
6645 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:6700 original size:21 final size:22
Alignment explanation
Indices: 6670--6724 Score: 62
Period size: 21 Copynumber: 2.6 Consensus size: 22
6660 AGTTTATTAT
6670 ATAAACTATTGTTAT-AAGTATA
1 ATAAACTATTGTTATGAA-TATA
*
6692 ATAAA-TATTG-CATGAATATA
1 ATAAACTATTGTTATGAATATA
*
6712 ATAAATTATTGTT
1 ATAAACTATTGTT
6725 TATTATAAAT
Statistics
Matches: 28, Mismatches: 2, Indels: 6
0.78 0.06 0.17
Matches are distributed among these distances:
20 11 0.39
21 12 0.43
22 5 0.18
ACGTcount: A:0.45, C:0.04, G:0.09, T:0.42
Consensus pattern (22 bp):
ATAAACTATTGTTATGAATATA
Found at i:6731 original size:20 final size:19
Alignment explanation
Indices: 6661--6742 Score: 58
Period size: 21 Copynumber: 4.0 Consensus size: 19
6651 GTATTAATTA
6661 GTTTATTAT-ATAAACTATT
1 GTTTATTATAATAAA-TATT
*
6680 GTTATAAGTATAATAAATATT
1 GTT-T-ATTATAATAAATATT
* * *
6701 GCATGAATATAATAAATTATT
1 G-TTTATTATAATAAA-TATT
6722 GTTTATTATAAATTAAATATT
1 GTTTATTAT-AA-TAAATATT
6743 AATTTAAGTT
Statistics
Matches: 49, Mismatches: 7, Indels: 12
0.72 0.10 0.18
Matches are distributed among these distances:
19 3 0.06
20 16 0.33
21 20 0.41
22 10 0.20
ACGTcount: A:0.44, C:0.02, G:0.07, T:0.46
Consensus pattern (19 bp):
GTTTATTATAATAAATATT
Found at i:7069 original size:18 final size:18
Alignment explanation
Indices: 7037--7084 Score: 55
Period size: 18 Copynumber: 2.7 Consensus size: 18
7027 ATCATTTAAA
*
7037 AATTAAT-TAAATAAA-T
1 AATTAATATTAATAAATT
*
7053 ATTTAATTATTAATAAATT
1 AATTAA-TATTAATAAATT
7072 AATTAATATTAAT
1 AATTAATATTAAT
7085 TTTAATGTTA
Statistics
Matches: 26, Mismatches: 3, Indels: 4
0.79 0.09 0.12
Matches are distributed among these distances:
16 5 0.19
17 1 0.04
18 14 0.54
19 6 0.23
ACGTcount: A:0.54, C:0.00, G:0.00, T:0.46
Consensus pattern (18 bp):
AATTAATATTAATAAATT
Found at i:7071 original size:31 final size:30
Alignment explanation
Indices: 7032--7090 Score: 84
Period size: 31 Copynumber: 1.9 Consensus size: 30
7022 ATTGAATCAT
7032 TTAAAAATTAATTAA-ATAAATATTTAATTA
1 TTAAAAATTAATTAATATAAAT-TTTAATTA
*
7062 TTAATAAATTAATTAATATTAATTTTAAT
1 TTAA-AAATTAATTAATATAAATTTTAAT
7091 GTTATAAATA
Statistics
Matches: 26, Mismatches: 1, Indels: 3
0.87 0.03 0.10
Matches are distributed among these distances:
30 4 0.15
31 17 0.65
32 5 0.19
ACGTcount: A:0.53, C:0.00, G:0.00, T:0.47
Consensus pattern (30 bp):
TTAAAAATTAATTAATATAAATTTTAATTA
Found at i:7124 original size:27 final size:27
Alignment explanation
Indices: 7032--7124 Score: 66
Period size: 27 Copynumber: 3.3 Consensus size: 27
7022 ATTGAATCAT
*
7032 TTAA-AAATTAATTAAATAAATATTTAATTA
1 TTAATAAATTAATT-AAT-AATAATT--TTA
*
7062 TTAATAAATTAATTAATATTAATTTTAA
1 TTAATAAATTAATTAATAATAATTTT-A
*
7090 TGTTATAAA-T-ATTAATAAATAATTTTA
1 T-TAATAAATTAATTAAT-AATAATTTTA
7117 TATAATAA
1 T-TAATAA
7125 GTTATTTTAT
Statistics
Matches: 53, Mismatches: 6, Indels: 11
0.76 0.09 0.16
Matches are distributed among these distances:
27 15 0.28
28 11 0.21
29 11 0.21
30 7 0.13
31 9 0.17
ACGTcount: A:0.53, C:0.00, G:0.01, T:0.46
Consensus pattern (27 bp):
TTAATAAATTAATTAATAATAATTTTA
Found at i:7145 original size:21 final size:20
Alignment explanation
Indices: 7099--7164 Score: 68
Period size: 21 Copynumber: 3.5 Consensus size: 20
7089 ATGTTATAAA
*
7099 TATT-AATAAATAATTTTA-
1 TATTAAATAAATTATTTTAT
*
7117 TA-T-AATAAGTTATTTTAT
1 TATTAAATAAATTATTTTAT
*
7135 TGTTTAAATAAATTATTTTAT
1 T-ATTAAATAAATTATTTTAT
7156 TATTAAATA
1 TATTAAATA
7165 TTTGTCAATA
Statistics
Matches: 39, Mismatches: 5, Indels: 6
0.78 0.10 0.12
Matches are distributed among these distances:
17 13 0.33
18 3 0.08
20 8 0.21
21 15 0.38
ACGTcount: A:0.44, C:0.00, G:0.03, T:0.53
Consensus pattern (20 bp):
TATTAAATAAATTATTTTAT
Found at i:7566 original size:11 final size:11
Alignment explanation
Indices: 7552--7576 Score: 50
Period size: 11 Copynumber: 2.3 Consensus size: 11
7542 TGACTATTAT
7552 TTATAAATATA
1 TTATAAATATA
7563 TTATAAATATA
1 TTATAAATATA
7574 TTA
1 TTA
7577 ACTAACAAAA
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:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (11 bp):
TTATAAATATA
Found at i:7837 original size:13 final size:14
Alignment explanation
Indices: 7821--7874 Score: 56
Period size: 14 Copynumber: 3.8 Consensus size: 14
7811 ATTTATAATT
7821 ATAA-AATAATTAA
1 ATAATAATAATTAA
*
7834 ATAATTATAATAATAA
1 ATAATAATAAT--TAA
7850 ATAATAATAATTAA
1 ATAATAATAATTAA
* *
7864 TTATTAATAAT
1 ATAATAATAAT
7875 ACTATAGTAT
Statistics
Matches: 34, Mismatches: 4, Indels: 5
0.79 0.09 0.12
Matches are distributed among these distances:
13 4 0.12
14 17 0.50
16 13 0.38
ACGTcount: A:0.61, C:0.00, G:0.00, T:0.39
Consensus pattern (14 bp):
ATAATAATAATTAA
Found at i:7852 original size:16 final size:17
Alignment explanation
Indices: 7815--7866 Score: 61
Period size: 16 Copynumber: 2.9 Consensus size: 17
7805 ATTATTATTT
7815 ATAATTATAAAATAATTAA
1 ATAATTAT--AATAATTAA
7834 ATAATTATAATAA-TAA
1 ATAATTATAATAATTAA
*
7850 ATAATAATAATTAATTA
1 ATAATTATAA-TAATTA
7867 TTAATAATAC
Statistics
Matches: 30, Mismatches: 1, Indels: 5
0.83 0.03 0.14
Matches are distributed among these distances:
16 12 0.40
17 8 0.27
18 2 0.07
19 8 0.27
ACGTcount: A:0.62, C:0.00, G:0.00, T:0.38
Consensus pattern (17 bp):
ATAATTATAATAATTAA
Found at i:7855 original size:19 final size:19
Alignment explanation
Indices: 7815--7857 Score: 61
Period size: 19 Copynumber: 2.3 Consensus size: 19
7805 ATTATTATTT
*
7815 ATAATTATAAAATAATTAA
1 ATAATTATAAAATAAATAA
7834 ATAATTATAATAATAAAT-A
1 ATAATTATAA-AATAAATAA
7853 ATAAT
1 ATAAT
7858 AATTAATTAT
Statistics
Matches: 22, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
19 16 0.73
20 6 0.27
ACGTcount: A:0.63, C:0.00, G:0.00, T:0.37
Consensus pattern (19 bp):
ATAATTATAAAATAAATAA
Found at i:8008 original size:20 final size:19
Alignment explanation
Indices: 7971--8028 Score: 64
Period size: 20 Copynumber: 2.9 Consensus size: 19
7961 TTTAAAGATT
*
7971 ATAATATTCATAATTTATTA
1 ATAATATTAATAA-TTATTA
*
7991 CTAATAGTT-ATATATTATTA
1 ATAATA-TTAATA-ATTATTA
8011 ATAATATTAATAATTATT
1 ATAATATTAATAATTATT
8029 TAATGAATTA
Statistics
Matches: 33, Mismatches: 2, Indels: 7
0.79 0.05 0.17
Matches are distributed among these distances:
19 8 0.24
20 22 0.67
21 3 0.09
ACGTcount: A:0.45, C:0.03, G:0.02, T:0.50
Consensus pattern (19 bp):
ATAATATTAATAATTATTA
Found at i:8031 original size:20 final size:19
Alignment explanation
Indices: 7971--8054 Score: 59
Period size: 20 Copynumber: 4.3 Consensus size: 19
7961 TTTAAAGATT
7971 ATAATATTCATAATT-TATTA
1 ATAATATT-ATAATTAT-TTA
*
7991 CTAATAGTTATATATTA-TTA
1 ATAATA-TTATA-ATTATTTA
8011 ATAATATTAATAATTATTTA
1 ATAATATT-ATAATTATTTA
* *
8031 ATGA-ATTAT-ATTATATGA
1 ATAATATTATAATTAT-TTA
8049 ATAATA
1 ATAATA
8055 CTATTTTATT
Statistics
Matches: 52, Mismatches: 5, Indels: 15
0.72 0.07 0.21
Matches are distributed among these distances:
17 5 0.10
18 7 0.13
19 10 0.19
20 25 0.48
21 5 0.10
ACGTcount: A:0.46, C:0.02, G:0.04, T:0.48
Consensus pattern (19 bp):
ATAATATTATAATTATTTA
Found at i:8509 original size:34 final size:37
Alignment explanation
Indices: 8454--8525 Score: 89
Period size: 36 Copynumber: 2.0 Consensus size: 37
8444 TTATATTAAA
*
8454 TTTATAAATATTTTAATATG-T-TTAATTAATTATTT
1 TTTATAAATATTTTAATATGTTATTAAGTAATTATTT
*
8489 TTTAT-AAT-TTTTTATAATGTTATTAAGTAATTATTT
1 TTTATAAATATTTTAAT-ATGTTATTAAGTAATTATTT
8525 T
1 T
8526 ATAATCTCTT
Statistics
Matches: 32, Mismatches: 2, Indels: 5
0.82 0.05 0.13
Matches are distributed among these distances:
33 6 0.19
34 6 0.19
35 6 0.19
36 14 0.44
ACGTcount: A:0.35, C:0.00, G:0.04, T:0.61
Consensus pattern (37 bp):
TTTATAAATATTTTAATATGTTATTAAGTAATTATTT
Found at i:8593 original size:19 final size:20
Alignment explanation
Indices: 8534--8595 Score: 65
Period size: 21 Copynumber: 3.1 Consensus size: 20
8524 TTATAATCTC
* *
8534 TTATATTTAATATTATTATAG
1 TTATATATAATATAATTA-AG
*
8555 -TATTATATAATATCATTAAG
1 TTA-TATATAATATAATTAAG
8575 TTATATATAA-ATAATTAAG
1 TTATATATAATATAATTAAG
8594 TT
1 TT
8596 TCAAATCATA
Statistics
Matches: 36, Mismatches: 3, Indels: 6
0.80 0.07 0.13
Matches are distributed among these distances:
19 10 0.28
20 11 0.31
21 15 0.42
ACGTcount: A:0.44, C:0.02, G:0.05, T:0.50
Consensus pattern (20 bp):
TTATATATAATATAATTAAG
Found at i:9006 original size:27 final size:27
Alignment explanation
Indices: 8972--9033 Score: 81
Period size: 27 Copynumber: 2.3 Consensus size: 27
8962 AACTAATAAG
*
8972 TTTT-ATTAATAATCATTAAAATAATA
1 TTTTAATTAATAATAATTAAAATAATA
* *
8998 TTTTAATTAATAATAATTAATATTATA
1 TTTTAATTAATAATAATTAAAATAATA
*
9025 TATTAATTA
1 TTTTAATTA
9034 CAATTAATTA
Statistics
Matches: 31, Mismatches: 4, Indels: 1
0.86 0.11 0.03
Matches are distributed among these distances:
26 4 0.13
27 27 0.87
ACGTcount: A:0.48, C:0.02, G:0.00, T:0.50
Consensus pattern (27 bp):
TTTTAATTAATAATAATTAAAATAATA
Found at i:9038 original size:23 final size:22
Alignment explanation
Indices: 8993--9050 Score: 62
Period size: 23 Copynumber: 2.5 Consensus size: 22
8983 ATCATTAAAA
* *
8993 TAATATTTTAATTAATAATAAT
1 TAATATTATAATTAATAACAAT
*
9015 TAATATTATATATTAATTACAAT
1 TAATATTATA-ATTAATAACAAT
9038 TAATTAATTATAA
1 TAA-T-ATTATAA
9051 AATAATACTA
Statistics
Matches: 30, Mismatches: 3, Indels: 4
0.81 0.08 0.11
Matches are distributed among these distances:
22 9 0.30
23 13 0.43
24 2 0.07
25 6 0.20
ACGTcount: A:0.50, C:0.02, G:0.00, T:0.48
Consensus pattern (22 bp):
TAATATTATAATTAATAACAAT
Found at i:9039 original size:17 final size:15
Alignment explanation
Indices: 8954--9041 Score: 56
Period size: 17 Copynumber: 5.7 Consensus size: 15
8944 TAAATAAATT
8954 ATTAAATTAACTAATA
1 ATTAAATTAA-TAATA
** *
8970 AGTTTTATTAATAATC
1 A-TTAAATTAATAATA
8986 ATT-AA--AATAATA
1 ATTAAATTAATAATA
* *
8998 TTTTAATTAATAATA
1 ATTAAATTAATAATA
*
9013 ATTAATATTATATATTA
1 ATTAA-ATTA-ATAATA
9030 ATTACAATTAAT
1 ATTA-AATTAAT
9042 TAATTATAAA
Statistics
Matches: 56, Mismatches: 9, Indels: 14
0.71 0.11 0.18
Matches are distributed among these distances:
12 8 0.14
13 2 0.04
14 1 0.02
15 12 0.21
16 12 0.21
17 20 0.36
18 1 0.02
ACGTcount: A:0.50, C:0.03, G:0.01, T:0.45
Consensus pattern (15 bp):
ATTAAATTAATAATA
Found at i:9417 original size:18 final size:18
Alignment explanation
Indices: 9391--9442 Score: 52
Period size: 18 Copynumber: 2.8 Consensus size: 18
9381 TAGATTAGTT
* *
9391 ATTTAAATTAGTATATTA
1 ATTTTAATTAATATATTA
9409 ATTTTAATTTAATA-ATTA
1 ATTTTAA-TTAATATATTA
*
9427 ATTATTAATTACTATA
1 ATT-TTAATTAATATA
9443 AATAAATTAT
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:0.44, C:0.02, G:0.02, T:0.52
Consensus pattern (18 bp):
ATTTTAATTAATATATTA
Found at i:10076 original size:12 final size:13
Alignment explanation
Indices: 10061--10090 Score: 53
Period size: 12 Copynumber: 2.4 Consensus size: 13
10051 TTAAATAACA
10061 ATATAAATTA-TT
1 ATATAAATTATTT
10073 ATATAAATTATTT
1 ATATAAATTATTT
10086 ATATA
1 ATATA
10091 TAAAATAATT
Statistics
Matches: 17, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
12 10 0.59
13 7 0.41
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (13 bp):
ATATAAATTATTT
Found at i:10092 original size:15 final size:15
Alignment explanation
Indices: 10061--10147 Score: 51
Period size: 15 Copynumber: 5.9 Consensus size: 15
10051 TTAAATAACA
10061 ATATAAATTA--T-T
1 ATATAAATTATTTAT
10073 ATATAAATTATTTAT
1 ATATAAATTATTTAT
* *
10088 ATATAAAATAATTAT
1 ATATAAATTATTTAT
*
10103 ATTATTATAA-TATATA-
1 A-TA-TA-AATTATTTAT
*
10119 AAATAAATTTATTTA-
1 ATATAAA-TTATTTAT
10134 ATATAAAATTATTT
1 ATAT-AAATTATTT
10148 TTTATTTATA
Statistics
Matches: 59, Mismatches: 7, Indels: 15
0.73 0.09 0.19
Matches are distributed among these distances:
12 10 0.17
13 2 0.03
14 3 0.05
15 30 0.51
16 6 0.10
17 6 0.10
18 2 0.03
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (15 bp):
ATATAAATTATTTAT
Found at i:10101 original size:28 final size:26
Alignment explanation
Indices: 10061--10124 Score: 76
Period size: 26 Copynumber: 2.4 Consensus size: 26
10051 TTAAATAACA
* *
10061 ATAT-AAATTATTATATAAATTATTTAT
1 ATATAAAATAATTATAT-AATTA-TAAT
*
10088 ATATAAAATAATTATATTATTATAAT
1 ATATAAAATAATTATATAATTATAAT
10114 ATATAAAATAA
1 ATATAAAATAA
10125 ATTTATTTAA
Statistics
Matches: 33, Mismatches: 3, Indels: 3
0.85 0.08 0.08
Matches are distributed among these distances:
26 14 0.42
27 8 0.24
28 11 0.33
ACGTcount: A:0.55, C:0.00, G:0.00, T:0.45
Consensus pattern (26 bp):
ATATAAAATAATTATATAATTATAAT
Found at i:10115 original size:26 final size:23
Alignment explanation
Indices: 10079--10138 Score: 79
Period size: 26 Copynumber: 2.6 Consensus size: 23
10069 TATTATATAA
10079 ATTATTT-ATATATAAAATAATTAT
1 ATTATTTAATATATAAAATAA--AT
10103 ATTATTATAATATATAAAATAAAT
1 ATTATT-TAATATATAAAATAAAT
10127 -TTATTTAATATA
1 ATTATTTAATATA
10139 AAATTATTTT
Statistics
Matches: 34, Mismatches: 0, Indels: 6
0.85 0.00 0.15
Matches are distributed among these distances:
22 7 0.21
23 5 0.15
24 8 0.24
25 1 0.03
26 13 0.38
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (23 bp):
ATTATTTAATATATAAAATAAAT
Found at i:10137 original size:20 final size:21
Alignment explanation
Indices: 10075--10158 Score: 77
Period size: 20 Copynumber: 4.0 Consensus size: 21
10065 AAATTATTAT
10075 ATAAA-TTATTTATATATAAA
1 ATAAATTTATTTATATATAAA
10095 ATAATTATATTATTATAATATATAAA
1 ATAA--AT-TTATT-T-ATATATAAA
10121 ATAAATTTATTTA-ATATAAA
1 ATAAATTTATTTATATATAAA
* *
10141 AT-TATTT-TTTATTTATAA
1 ATAAATTTATTTATATATAA
10159 CATTAAAATT
Statistics
Matches: 55, Mismatches: 2, Indels: 15
0.76 0.03 0.21
Matches are distributed among these distances:
18 4 0.07
19 9 0.16
20 13 0.24
21 1 0.02
22 2 0.04
23 5 0.09
24 7 0.13
25 1 0.02
26 13 0.24
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (21 bp):
ATAAATTTATTTATATATAAA
Found at i:10138 original size:46 final size:45
Alignment explanation
Indices: 10075--10167 Score: 118
Period size: 46 Copynumber: 2.0 Consensus size: 45
10065 AAATTATTAT
*
10075 ATAAATTATTTATATATAAAATAATTATATTA-TTATAATATATAAA
1 ATAAATTATTTATATATAAAATAATT-TATTATTTATAACAT-TAAA
* *
10121 ATAAATTTATTTA-ATATAAAATTATTTTTTATTTATAACATTAAA
1 ATAAA-TTATTTATATATAAAATAATTTATTATTTATAACATTAAA
10166 AT
1 AT
10168 TTCTTATTAT
Statistics
Matches: 42, Mismatches: 3, Indels: 5
0.84 0.06 0.10
Matches are distributed among these distances:
45 10 0.24
46 25 0.60
47 7 0.17
ACGTcount: A:0.51, C:0.01, G:0.00, T:0.48
Consensus pattern (45 bp):
ATAAATTATTTATATATAAAATAATTTATTATTTATAACATTAAA
Found at i:10151 original size:22 final size:22
Alignment explanation
Indices: 10080--10155 Score: 64
Period size: 22 Copynumber: 3.3 Consensus size: 22
10070 ATTATATAAA
* *
10080 TTATTTATATATAAAATAATTATA
1 TTATTTA-ATATAAAATTATT-TT
* **
10104 TTATTATAATATATAAAATA-AAT
1 TTATT-TAATATA-AAATTATTTT
10127 TTATTTAATATAAAATTATTTT
1 TTATTTAATATAAAATTATTTT
10149 TTATTTA
1 TTATTTA
10156 TAACATTAAA
Statistics
Matches: 41, Mismatches: 8, Indels: 8
0.72 0.14 0.14
Matches are distributed among these distances:
21 5 0.12
22 15 0.37
23 5 0.12
24 10 0.24
25 6 0.15
ACGTcount: A:0.47, C:0.00, G:0.00, T:0.53
Consensus pattern (22 bp):
TTATTTAATATAAAATTATTTT
Found at i:10499 original size:18 final size:18
Alignment explanation
Indices: 10476--10511 Score: 56
Period size: 18 Copynumber: 2.0 Consensus size: 18
10466 ATATATAAGT
10476 TTATTAT-ATAATTAATTA
1 TTATTATGATAA-TAATTA
10494 TTATTATGATAATAATTA
1 TTATTATGATAATAATTA
10512 AATACTAAAT
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
18 13 0.76
19 4 0.24
ACGTcount: A:0.44, C:0.00, G:0.03, T:0.53
Consensus pattern (18 bp):
TTATTATGATAATAATTA
Found at i:10602 original size:16 final size:18
Alignment explanation
Indices: 10571--10605 Score: 56
Period size: 16 Copynumber: 2.1 Consensus size: 18
10561 TTAATTTGTA
10571 TACAATTATAAATATTAT
1 TACAATTATAAATATTAT
10589 TACAA-TAT-AATATTAT
1 TACAATTATAAATATTAT
10605 T
1 T
10606 GTAAATTAAC
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
16 9 0.53
17 3 0.18
18 5 0.29
ACGTcount: A:0.49, C:0.06, G:0.00, T:0.46
Consensus pattern (18 bp):
TACAATTATAAATATTAT
Found at i:10825 original size:24 final size:25
Alignment explanation
Indices: 10785--10835 Score: 68
Period size: 24 Copynumber: 2.1 Consensus size: 25
10775 TAACAATTAA
*
10785 TAATTTAACTTATTATAAATTATAT
1 TAATATAACTTATTATAAATTATAT
* *
10810 TAATATAA-TTATTATATATTTTAT
1 TAATATAACTTATTATAAATTATAT
10834 TA
1 TA
10836 TTGTTTATTT
Statistics
Matches: 23, Mismatches: 3, Indels: 1
0.85 0.11 0.04
Matches are distributed among these distances:
24 16 0.70
25 7 0.30
ACGTcount: A:0.43, C:0.02, G:0.00, T:0.55
Consensus pattern (25 bp):
TAATATAACTTATTATAAATTATAT
Found at i:10946 original size:40 final size:40
Alignment explanation
Indices: 10909--10984 Score: 93
Period size: 40 Copynumber: 1.9 Consensus size: 40
10899 TTAATTATAT
* *
10909 ATAATCTAA-ATAATATTTATATAA-TATCAATATATTATTA
1 ATAAT-TAATATAATATATAAATAATTAT-AATATATTATTA
*
10949 ATAATTAATATTATATATAAATAATTATAATATATT
1 ATAATTAATATAATATATAAATAATTATAATATATT
10985 TAGATAAACA
Statistics
Matches: 31, Mismatches: 3, Indels: 4
0.82 0.08 0.11
Matches are distributed among these distances:
39 3 0.10
40 25 0.81
41 3 0.10
ACGTcount: A:0.51, C:0.03, G:0.00, T:0.46
Consensus pattern (40 bp):
ATAATTAATATAATATATAAATAATTATAATATATTATTA
Found at i:10968 original size:16 final size:16
Alignment explanation
Indices: 10915--10983 Score: 52
Period size: 17 Copynumber: 4.1 Consensus size: 16
10905 ATATATAATC
10915 TAAATAATATT-TATA
1 TAAATAATATTATATA
10930 TAATATCAATA-TATTATTAA
1 TAA-AT-AATATTA-TA-T-A
*
10950 TAATTAATATTATATA
1 TAAATAATATTATATA
*
10966 TAAATAATTATAATATA
1 TAAATAA-TATTATATA
10983 T
1 T
10984 TTAGATAAAC
Statistics
Matches: 43, Mismatches: 3, Indels: 14
0.72 0.05 0.23
Matches are distributed among these distances:
15 3 0.07
16 10 0.23
17 14 0.33
18 8 0.19
19 4 0.09
20 4 0.09
ACGTcount: A:0.52, C:0.01, G:0.00, T:0.46
Consensus pattern (16 bp):
TAAATAATATTATATA
Found at i:10974 original size:20 final size:20
Alignment explanation
Indices: 10902--10975 Score: 68
Period size: 20 Copynumber: 3.9 Consensus size: 20
10892 ATATTACTTA
* *
10902 ATTATATATAATCTAAATAAT
1 ATTATATATAA-ATAATTAAT
*
10923 ATT-TATAT-AAT-ATCAAT
1 ATTATATATAAATAATTAAT
*
10940 A-TAT-TATTAATAATTAAT
1 ATTATATATAAATAATTAAT
10958 ATTATATATAAATAATTA
1 ATTATATATAAATAATTA
10976 TAATATATTT
Statistics
Matches: 43, Mismatches: 5, Indels: 11
0.73 0.08 0.19
Matches are distributed among these distances:
16 4 0.09
17 9 0.21
18 7 0.16
19 4 0.09
20 16 0.37
21 3 0.07
ACGTcount: A:0.51, C:0.03, G:0.00, T:0.46
Consensus pattern (20 bp):
ATTATATATAAATAATTAAT
Found at i:10991 original size:19 final size:18
Alignment explanation
Indices: 10878--10991 Score: 58
Period size: 20 Copynumber: 5.9 Consensus size: 18
10868 TATTATAAAA
10878 TATAATATATTTTAAT-AT
1 TATAATATA-TTTAATAAT
*
10896 TACTTAAT-TATAT-ATAAT
1 TA--TAATATATTTAATAAT
10914 CTA-AATAATATTTATATAA-
1 -TATAAT-ATATTTA-ATAAT
10933 TATCAATATATTATTAATAAT
1 TAT-AATATA-T-TTAATAAT
* *
10954 TAATATTATATATAAATAAT
1 T-ATAATATAT-TTAATAAT
10974 TATAATATATTTAGATAA
1 TATAATATATTTA-ATAA
10992 ACAACAATAT
Statistics
Matches: 75, Mismatches: 6, Indels: 29
0.68 0.05 0.26
Matches are distributed among these distances:
16 3 0.04
17 2 0.03
18 14 0.19
19 19 0.25
20 26 0.35
21 9 0.12
22 2 0.03
ACGTcount: A:0.49, C:0.03, G:0.01, T:0.47
Consensus pattern (18 bp):
TATAATATATTTAATAAT
Found at i:11120 original size:22 final size:22
Alignment explanation
Indices: 11093--11142 Score: 57
Period size: 22 Copynumber: 2.3 Consensus size: 22
11083 TAAATTAATT
* *
11093 ATATTACTAATTAATTTAA-CAA
1 ATATTA-TAATAAAATTAATCAA
11115 ATATTATAATAAAATTAATCAA
1 ATATTATAATAAAATTAATCAA
*
11137 TTATTA
1 ATATTA
11143 ATTAACTATA
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:0.52, C:0.06, G:0.00, T:0.42
Consensus pattern (22 bp):
ATATTATAATAAAATTAATCAA
Found at i:11357 original size:25 final size:25
Alignment explanation
Indices: 11317--11397 Score: 71
Period size: 25 Copynumber: 3.3 Consensus size: 25
11307 TGTTATAATT
11317 AAATATATATTA-TATTAATTAAATA
1 AAATAT-TATTACTATTAATTAAATA
* *
11342 AAATATTATTACTATT--TTTATTA
1 AAATATTATTACTATTAATTAAATA
* *
11365 ATAATATTTAATACTA-TAATTATATA
1 A-AATA-TTATTACTATTAATTAAATA
11391 AAATATT
1 AAATATT
11398 TGAATAAATT
Statistics
Matches: 45, Mismatches: 6, Indels: 11
0.73 0.10 0.18
Matches are distributed among these distances:
23 6 0.13
24 12 0.27
25 22 0.49
26 5 0.11
ACGTcount: A:0.49, C:0.02, G:0.00, T:0.48
Consensus pattern (25 bp):
AAATATTATTACTATTAATTAAATA
Found at i:11398 original size:25 final size:25
Alignment explanation
Indices: 11332--11403 Score: 76
Period size: 25 Copynumber: 2.9 Consensus size: 25
11322 TATATTATAT
* *
11332 TAATTAAATAAAATA-TTATTACTA
1 TAATTATATAAAATATTTAATACTA
**
11356 TTTTTAT-TAATAATATTTAATACTA
1 TAATTATATAA-AATATTTAATACTA
11381 TAATTATATAAAATATTTGAATA
1 TAATTATATAAAATATTT-AATA
11404 AATTCATATA
Statistics
Matches: 38, Mismatches: 6, Indels: 6
0.76 0.12 0.12
Matches are distributed among these distances:
23 3 0.08
24 8 0.21
25 20 0.53
26 7 0.18
ACGTcount: A:0.49, C:0.03, G:0.01, T:0.47
Consensus pattern (25 bp):
TAATTATATAAAATATTTAATACTA
Found at i:11464 original size:20 final size:20
Alignment explanation
Indices: 11427--11465 Score: 53
Period size: 20 Copynumber: 1.9 Consensus size: 20
11417 ATAAAATTTA
*
11427 TAATTTATTATTTGTAATTG
1 TAATTTATTATATGTAATTG
11447 TAATTTATATATAT-TAATT
1 TAATTTAT-TATATGTAATT
11466 AATTAATAAG
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
20 13 0.76
21 4 0.24
ACGTcount: A:0.36, C:0.00, G:0.05, T:0.59
Consensus pattern (20 bp):
TAATTTATTATATGTAATTG
Found at i:12398 original size:23 final size:23
Alignment explanation
Indices: 12372--12416 Score: 54
Period size: 23 Copynumber: 2.0 Consensus size: 23
12362 CTTAAAAATA
* * *
12372 AAAAGAATAGTTTGAATAATATT
1 AAAACAATAGTATAAATAATATT
*
12395 AAAACAATTGTATAAATAATAT
1 AAAACAATAGTATAAATAATAT
12417 ATTGTATATA
Statistics
Matches: 18, Mismatches: 4, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
23 18 1.00
ACGTcount: A:0.56, C:0.02, G:0.09, T:0.33
Consensus pattern (23 bp):
AAAACAATAGTATAAATAATATT
Found at i:12505 original size:24 final size:26
Alignment explanation
Indices: 12458--12505 Score: 64
Period size: 26 Copynumber: 1.9 Consensus size: 26
12448 CAGTATAACC
*
12458 AATATACTTAAGAGTTAATCTTAAAT
1 AATATACTTAAGAGTTAATATTAAAT
*
12484 AATATATTTAA-AG-TAATATTAA
1 AATATACTTAAGAGTTAATATTAA
12506 TTATTAATTG
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
24 8 0.40
25 2 0.10
26 10 0.50
ACGTcount: A:0.50, C:0.04, G:0.06, T:0.40
Consensus pattern (26 bp):
AATATACTTAAGAGTTAATATTAAAT
Found at i:13011 original size:19 final size:18
Alignment explanation
Indices: 12987--13033 Score: 51
Period size: 19 Copynumber: 2.5 Consensus size: 18
12977 ATTATCATAG
12987 CAATAATAT-ATCAATATT
1 CAATAATATAAT-AATATT
13005 ACAATAATTATAATAATATT
1 -CAATAA-TATAATAATATT
*
13025 TAATAATAT
1 CAATAATAT
13034 TAATTTAATT
Statistics
Matches: 25, Mismatches: 1, Indels: 5
0.81 0.03 0.16
Matches are distributed among these distances:
18 3 0.12
19 11 0.44
20 9 0.36
21 2 0.08
ACGTcount: A:0.53, C:0.06, G:0.00, T:0.40
Consensus pattern (18 bp):
CAATAATATAATAATATT
Found at i:13044 original size:19 final size:19
Alignment explanation
Indices: 13022--13061 Score: 55
Period size: 19 Copynumber: 2.1 Consensus size: 19
13012 TTATAATAAT
*
13022 ATTTAA-TAATATTAATTTA
1 ATTTAATTAATAAT-ATTTA
13041 ATTTAATTAATAATATTTA
1 ATTTAATTAATAATATTTA
13060 AT
1 AT
13062 CTTCATTTAT
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:0.47, C:0.00, G:0.00, T:0.53
Consensus pattern (19 bp):
ATTTAATTAATAATATTTA
Found at i:13387 original size:15 final size:15
Alignment explanation
Indices: 13317--13395 Score: 65
Period size: 15 Copynumber: 5.1 Consensus size: 15
13307 TAATTATTTG
13317 ATAA-TATAATTATCA
1 ATAATTATAATTAT-A
13332 A-ATATTACTAATT-TA
1 ATA-ATTA-TAATTATA
* * *
13347 ATACTATATTATTCTA
1 ATAAT-TATAATTATA
13363 ATATATTATAATTATA
1 ATA-ATTATAATTATA
13379 ATAATTATAATTATA
1 ATAATTATAATTATA
13394 AT
1 AT
13396 TATAATATTA
Statistics
Matches: 52, Mismatches: 5, Indels: 14
0.73 0.07 0.20
Matches are distributed among these distances:
14 1 0.02
15 23 0.44
16 22 0.42
17 6 0.12
ACGTcount: A:0.48, C:0.05, G:0.00, T:0.47
Consensus pattern (15 bp):
ATAATTATAATTATA
Found at i:13524 original size:17 final size:17
Alignment explanation
Indices: 13512--13579 Score: 71
Period size: 17 Copynumber: 4.4 Consensus size: 17
13502 CAATAATTGA
13512 TAATATTTGATAATTAG
1 TAATATTTGATAATTAG
13529 TAATATTTGATAA-T--
1 TAATATTTGATAATTAG
13543 T-ATA-TT-A-AACTT-G
1 TAATATTTGATAA-TTAG
13556 TAATATTTGATAATTAG
1 TAATATTTGATAATTAG
13573 TAATATT
1 TAATATT
13580 ATTTGATAAT
Statistics
Matches: 43, Mismatches: 0, Indels: 16
0.73 0.00 0.27
Matches are distributed among these distances:
10 2 0.05
11 1 0.02
12 3 0.07
13 4 0.09
14 4 0.09
15 2 0.05
16 4 0.09
17 23 0.53
ACGTcount: A:0.41, C:0.01, G:0.09, T:0.49
Consensus pattern (17 bp):
TAATATTTGATAATTAG
Found at i:13541 original size:27 final size:26
Alignment explanation
Indices: 13503--13569 Score: 75
Period size: 27 Copynumber: 2.5 Consensus size: 26
13493 ATAAATACAC
*
13503 AATAATTGATAATAT-TTGATAA-TTAGT
1 AATATTTGATAATATATT-A-AACTT-GT
13530 AATATTTGATAATTATATTAAACTTGT
1 AATATTTGATAA-TATATTAAACTTGT
13557 AATATTTGATAAT
1 AATATTTGATAAT
13570 TAGTAATATT
Statistics
Matches: 36, Mismatches: 1, Indels: 7
0.82 0.02 0.16
Matches are distributed among these distances:
26 1 0.03
27 27 0.75
28 6 0.17
29 2 0.06
ACGTcount: A:0.43, C:0.01, G:0.09, T:0.46
Consensus pattern (26 bp):
AATATTTGATAATATATTAAACTTGT
Found at i:13593 original size:11 final size:11
Alignment explanation
Indices: 13559--13600 Score: 52
Period size: 11 Copynumber: 4.0 Consensus size: 11
13549 AAACTTGTAA
13559 TATTTGATAAT
1 TATTTGATAAT
* *
13570 TA-GTAAT-AT
1 TATTTGATAAT
13579 TATTTGATAAT
1 TATTTGATAAT
13590 TATTTGATAAT
1 TATTTGATAAT
13601 ATAATATCAA
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:0.38, C:0.00, G:0.10, T:0.52
Consensus pattern (11 bp):
TATTTGATAAT
Found at i:14105 original size:182 final size:180
Alignment explanation
Indices: 13798--14146 Score: 488
Period size: 182 Copynumber: 1.9 Consensus size: 180
13788 TTTACCAATC
* **
13798 AAGTTCAAATAGTCATGACTATTTGAATAATTATCTACTTCAAATCATTGTAACATTTTGTTTTG
1 AAGTTCAAATAGTCATGACTATTTGAATAATTATCTACTTCAAAACATTACAACATTTTGTTTTG
* * *
13863 TAATAAAACAATTGTTTCAAATCATGTTAGCTTATTTGAAATAAAATAATACTAATTTATTAATA
66 TAATAAAACAATTGGTTCAAATCATGTAAGCTTATTTCAAATAAAATAATACTAATTTATTAATA
13928 TTCCAAAAATTAAAAAGTAAGAGAATTAAAAAAATAAATCTTTTTATTGAAG
131 TTCCAAAAATTAAAAAGTAA-A-AATTAAAAAAATAAATCTTTTTATTGAAG
* * *
13980 AAGTTCAAATAGTTATGACTATCTT-AATAATTATCTATTTCAAAACATTACAACCTTTTGTTTT
1 AAGTTCAAATAGTCATGACTAT-TTGAATAATTATCTACTTCAAAACATTACAACATTTTGTTTT
* * *
14044 GTCATAAAACAATTGGTTCTATTCAT-TCAAGCTTATTTCAAATAAAATAATA-TAAATTTATTA
65 GTAATAAAACAATTGGTTCAAATCATGT-AAGCTTATTTCAAATAAAATAATACT-AATTTATTA
* * **
14107 ATGTTCCAAAAATTAATAAGTAAAAATTTCAAAAATAAAT
128 ATATTCCAAAAATTAAAAAGTAAAAATTAAAAAAATAAAT
14147 TTATTTAAAA
Statistics
Matches: 148, Mismatches: 16, Indels: 8
0.86 0.09 0.05
Matches are distributed among these distances:
180 14 0.09
181 3 0.02
182 129 0.87
183 2 0.01
ACGTcount: A:0.44, C:0.10, G:0.07, T:0.39
Consensus pattern (180 bp):
AAGTTCAAATAGTCATGACTATTTGAATAATTATCTACTTCAAAACATTACAACATTTTGTTTTG
TAATAAAACAATTGGTTCAAATCATGTAAGCTTATTTCAAATAAAATAATACTAATTTATTAATA
TTCCAAAAATTAAAAAGTAAAAATTAAAAAAATAAATCTTTTTATTGAAG
Found at i:14869 original size:181 final size:179
Alignment explanation
Indices: 14398--14923 Score: 530
Period size: 180 Copynumber: 2.9 Consensus size: 179
14388 TGCTACATTA
** * * * *
14398 ATAAGTAAG-GATTTAAAAAATAAATGTGTTTACTGAATCAGTTCAAATAGTTAAGACTATTAGA
1 ATAAGTAAGAGATTT-AAAAATAAATCAGTTTACAGAATCAGTTCAAATAATTATGACTATTTGA
* * *
14462 ATAATTATCTATTTCAAATCATTTTGACCTTTTGTTTAGTCATAAAATAATTGTTTCAACTGATA
65 ATAATTATCTATTTCAAATCATTATGACCTTTTGTTTTGTCATAAAATAATTGTTTCAACTCATA
* * *
14527 CATGCTTATTCGAAATAAAATAATACTAATTTATTAACATTCAAAAATTT
130 AAAGCTTATTCGAAATAAAATAATACTAATTTATTAACATTCAAAAATTG
* * * * *
14577 ATTAAGTAAGA-AATTAGAAAAAAAATCTA-TTTACAGAA-CAAGTTCAAATATTTTTTACTATT
1 A-TAAGTAAGAGATTTA-AAAATAAATC-AGTTTACAGAATC-AGTTCAAATAATTATGACTATT
* * * * * * **
14639 TGAACAATTATCTATTTAAAATCATTATGACCTTATATTTTATCATAAAAAAATTGTTTCAGTTC
62 TGAATAATTATCTATTTCAAATCATTATGACCTTTTGTTTTGTCATAAAATAATTGTTTCAACTC
* * * *
14704 ATAAAAGCTTATAT-GAAATAAAATAATATTACTTTATTAATATTATAAAAATTG
127 ATAAAAGCTTAT-TCGAAATAAAATAATACTAATTTATTAACATT-CAAAAATTG
* * *
14758 ATAAGTTAGAGATTTAAAACATAAATCAGTTTATC-GAATCAGTTCAAATAATTATGGCCATTTG
1 ATAAGTAAGAGATTTAAAA-ATAAATCAGTTTA-CAGAATCAGTTCAAATAATTATGACTATTTG
* * * * **
14822 AATGATTAT-TGATTTCAAATCGTTATGATCTTTTGTTTTGTCATAAAATAATTATTTTTTA-TC
64 AATAATTATCT-ATTTCAAATCATTATGACCTTTTGTTTTGTCATAAAATAATT-GTTTCAACTC
* *
14885 ATACAAGTTTATTCG-AATAAAATAATACTAATTTATTAA
127 ATAAAAGCTTATTCGAAATAAAATAATACTAATTTATTAA
14924 TTCAAATATT
Statistics
Matches: 279, Mismatches: 53, Indels: 29
0.77 0.15 0.08
Matches are distributed among these distances:
179 3 0.01
180 171 0.61
181 100 0.36
182 5 0.02
ACGTcount: A:0.42, C:0.09, G:0.09, T:0.40
Consensus pattern (179 bp):
ATAAGTAAGAGATTTAAAAATAAATCAGTTTACAGAATCAGTTCAAATAATTATGACTATTTGAA
TAATTATCTATTTCAAATCATTATGACCTTTTGTTTTGTCATAAAATAATTGTTTCAACTCATAA
AAGCTTATTCGAAATAAAATAATACTAATTTATTAACATTCAAAAATTG
Found at i:15076 original size:26 final size:24
Alignment explanation
Indices: 15047--15114 Score: 64
Period size: 26 Copynumber: 2.7 Consensus size: 24
15037 TAATTAAACT
15047 TTAATTAAATATAAATTAAATAATA
1 TTAATTAAATATAAATTAAATAA-A
* * * *
15072 GTTAATTAGATATTAGTTTAATAAA
1 -TTAATTAAATATAAATTAAATAAA
*
15097 TTAATTAATTATATAATT
1 TTAATTAAATATA-AATT
15115 GTTATATAAT
Statistics
Matches: 33, Mismatches: 8, Indels: 3
0.75 0.18 0.07
Matches are distributed among these distances:
24 10 0.30
25 4 0.12
26 19 0.58
ACGTcount: A:0.50, C:0.00, G:0.04, T:0.46
Consensus pattern (24 bp):
TTAATTAAATATAAATTAAATAAA
Found at i:15175 original size:22 final size:21
Alignment explanation
Indices: 15144--15192 Score: 62
Period size: 22 Copynumber: 2.3 Consensus size: 21
15134 ACAAAACTAT
15144 TTAATATATAATAATTATAATA
1 TTAATATATAATAATTA-AATA
* * *
15166 TTAATTTATAATTATTAACTA
1 TTAATATATAATAATTAAATA
15187 TTAATA
1 TTAATA
15193 ATGATAAACA
Statistics
Matches: 23, Mismatches: 4, Indels: 1
0.82 0.14 0.04
Matches are distributed among these distances:
21 8 0.35
22 15 0.65
ACGTcount: A:0.49, C:0.02, G:0.00, T:0.49
Consensus pattern (21 bp):
TTAATATATAATAATTAAATA
Found at i:15289 original size:22 final size:22
Alignment explanation
Indices: 15257--15299 Score: 61
Period size: 22 Copynumber: 2.0 Consensus size: 22
15247 TATAAACAAT
*
15257 TATTATTGTATTAATTT-AATAA
1 TATTATAGTATT-ATTTGAATAA
15279 TATTATAGTATTATTTGAATA
1 TATTATAGTATTATTTGAATA
15300 TAACTAAAAG
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
21 4 0.21
22 15 0.79
ACGTcount: A:0.40, C:0.00, G:0.07, T:0.53
Consensus pattern (22 bp):
TATTATAGTATTATTTGAATAA
Found at i:15830 original size:3 final size:3
Alignment explanation
Indices: 15824--15853 Score: 60
Period size: 3 Copynumber: 10.0 Consensus size: 3
15814 AATATAATAA
15824 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT
15854 AAGACTATTT
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 27 1.00
ACGTcount: A:0.33, C:0.00, G:0.00, T:0.67
Consensus pattern (3 bp):
TAT
Found at i:16133 original size:15 final size:16
Alignment explanation
Indices: 16108--16147 Score: 57
Period size: 15 Copynumber: 2.6 Consensus size: 16
16098 TATATTTTTG
16108 TTAATTCAATTTAATA-
1 TTAATT-AATTTAATAT
16124 TTAATTAA-TTAATAT
1 TTAATTAATTTAATAT
16139 TTAATTAAT
1 TTAATTAAT
16148 AAAAAATAAT
Statistics
Matches: 22, Mismatches: 0, Indels: 4
0.85 0.00 0.15
Matches are distributed among these distances:
14 6 0.27
15 10 0.45
16 6 0.27
ACGTcount: A:0.45, C:0.03, G:0.00, T:0.53
Consensus pattern (16 bp):
TTAATTAATTTAATAT
Found at i:16386 original size:15 final size:15
Alignment explanation
Indices: 16368--16403 Score: 63
Period size: 15 Copynumber: 2.4 Consensus size: 15
16358 ATAATAATTG
*
16368 ATAATATTAATTAAT
1 ATAATAGTAATTAAT
16383 ATAATAGTAATTAAT
1 ATAATAGTAATTAAT
16398 ATAATA
1 ATAATA
16404 ATTCCAATAG
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:0.56, C:0.00, G:0.03, T:0.42
Consensus pattern (15 bp):
ATAATAGTAATTAAT
Found at i:16465 original size:11 final size:12
Alignment explanation
Indices: 16442--16483 Score: 52
Period size: 11 Copynumber: 3.7 Consensus size: 12
16432 ATTCCAAATA
*
16442 ATTATAATAATT
1 ATTATAATTATT
16454 ATT-TAATTATT
1 ATTATAATTATT
16465 ATTATAA-TATT
1 ATTATAATTATT
*
16476 AATATAAT
1 ATTATAAT
16484 AATATATAAT
Statistics
Matches: 26, Mismatches: 2, Indels: 4
0.81 0.06 0.12
Matches are distributed among these distances:
11 20 0.77
12 6 0.23
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (12 bp):
ATTATAATTATT
Found at i:16515 original size:17 final size:16
Alignment explanation
Indices: 16468--16527 Score: 56
Period size: 14 Copynumber: 3.9 Consensus size: 16
16458 AATTATTATT
*
16468 ATAATAT-TAATA-TA
1 ATAATATATAAAATTA
*
16482 ATAATATATAATCATTA
1 ATAATATATAA-AATTA
16499 ATAATATCATAAAATT-
1 ATAATAT-ATAAAATTA
16515 ATAA-ATATAAAAT
1 ATAATATATAAAAT
16528 AATGATAAAT
Statistics
Matches: 40, Mismatches: 2, Indels: 8
0.80 0.04 0.16
Matches are distributed among these distances:
14 14 0.35
15 5 0.12
16 5 0.12
17 12 0.30
18 4 0.10
ACGTcount: A:0.58, C:0.03, G:0.00, T:0.38
Consensus pattern (16 bp):
ATAATATATAAAATTA
Found at i:17119 original size:181 final size:179
Alignment explanation
Indices: 16815--17440 Score: 679
Period size: 181 Copynumber: 3.5 Consensus size: 179
16805 TAATTATTTG
* * *
16815 AAATAATTAAATTAATTAATATTCCAAAATTTAATAAGTGAAAATTTAAAAAATAAATTTGTTTT
1 AAATAATTAAATTTATTAATATTCCAAAA-TTAATAAGTAAAAATTTAAAAAATAAATTTGTTTA
* * ** * * *
16880 TTGAACATGTTGGAATAGTTCTGACTATTTGAAAAATTATTTATTTTAAATAGTTATGACCTTTT
65 CTGAACAAGTTTAAATAGTTATGACTATTTGAACAATTATTTATTTCAAATAGTTATGACC-TTT
* * **
16945 TTGTTTTGTGATAAACCAATTGTTTCTGTCCATACAAGCTTATACCGAATA
129 TTGTTTTGTGATAAAACAATTGTTTCTGTCCATACAAGCTTATTCAAAATA
*
16996 AAATAATTAAATTTATTAATATTCCAAAATTTAATAAGTAAAAATTTAAAAAATAAATTTGTTTT
1 AAATAATTAAATTTATTAATATTCCAAAA-TTAATAAGTAAAAATTTAAAAAATAAATTTGTTTA
* * *
17061 TTGAACATGTTTAAATAGATT-TGACTATTTGAACAATTATCTATTTCAAATAGTTATGACC-TT
65 CTGAACAAGTTTAAATAG-TTATGACTATTTGAACAATTATTTATTTCAAATAGTTATGACCTTT
* * ** *
17124 TTGTTTTGTGATGAATCAATTGTTTCTGTCTGTATAAGCTTATTCAAAATA
129 TTGTTTTGTGATAAAACAATTGTTTCTGTCCATACAAGCTTATTCAAAATA
* * *
17175 AAATAA-TACTAATTTAATAATATTCCAACAATTAATAAGTAAAAGATTTAAAAAATAAATCTAT
1 AAATAATTA--AATTTATTAATATTCCAA-AATTAATAAGTAAAA-ATTTAAAAAATAAATTTGT
** * * * * *
17239 TTACTGAGTAAGCTTAAATAGTTATAACTATTTGAACAATTTTTTATTTCTAATAGTTAT-A-AT
62 TTACTGAACAAGTTTAAATAGTTATGACTATTTGAACAATTATTTATTTCAAATAGTTATGACCT
* * * * * *
17302 TTTTGTTTTGTCATAAAATAATTGTTCCTATTCATACAAGTTTATTCAAAATA
127 TTTTGTTTTGTGATAAAACAATTGTTTCTGTCCATACAAGCTTATTCAAAATA
* * * * * * *
17355 AAATAATATTACTTTATTAATATTTTGC-AAATTAATAGGTAGGAGATTTAAAAAATAAATATGT
1 AAATAAT-TAAATTTATTAATA--TTCCAAAATTAATAAGTA-AAAATTTAAAAAATAAATTTGT
*
17419 TTACTGAACAAGTTCAAATAGT
62 TTACTGAACAAGTTTAAATAGT
17441 CATGTTAAAT
Statistics
Matches: 380, Mismatches: 53, Indels: 25
0.83 0.12 0.05
Matches are distributed among these distances:
178 2 0.01
179 51 0.13
180 137 0.36
181 184 0.48
182 6 0.02
ACGTcount: A:0.41, C:0.08, G:0.09, T:0.42
Consensus pattern (179 bp):
AAATAATTAAATTTATTAATATTCCAAAATTAATAAGTAAAAATTTAAAAAATAAATTTGTTTAC
TGAACAAGTTTAAATAGTTATGACTATTTGAACAATTATTTATTTCAAATAGTTATGACCTTTTT
GTTTTGTGATAAAACAATTGTTTCTGTCCATACAAGCTTATTCAAAATA
Found at i:17871 original size:16 final size:16
Alignment explanation
Indices: 17850--17889 Score: 59
Period size: 16 Copynumber: 2.7 Consensus size: 16
17840 ACAAATAAGT
17850 TAATTATAATTTATAA
1 TAATTATAATTTATAA
17866 TAATTATAA--TATAA
1 TAATTATAATTTATAA
17880 T-ATTATAATT
1 TAATTATAATT
17890 ATATTATTAT
Statistics
Matches: 22, Mismatches: 0, Indels: 5
0.81 0.00 0.19
Matches are distributed among these distances:
13 7 0.32
14 6 0.27
16 9 0.41
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (16 bp):
TAATTATAATTTATAA
Found at i:17893 original size:16 final size:16
Alignment explanation
Indices: 17852--17908 Score: 50
Period size: 18 Copynumber: 3.6 Consensus size: 16
17842 AAATAAGTTA
17852 ATTATAATT-TATAAT
1 ATTATAATTATATAAT
17867 AATTAT-A--ATATAAT
1 -ATTATAATTATATAAT
*
17881 ATTATAATTATATTATT
1 ATTATAATTATA-TAAT
17898 ATTTATAATTA
1 A-TTATAATTA
17909 ACTTATTTGT
Statistics
Matches: 34, Mismatches: 1, Indels: 10
0.76 0.02 0.22
Matches are distributed among these distances:
13 5 0.15
14 7 0.21
15 1 0.03
16 8 0.24
17 4 0.12
18 9 0.26
ACGTcount: A:0.47, C:0.00, G:0.00, T:0.53
Consensus pattern (16 bp):
ATTATAATTATATAAT
Found at i:17921 original size:18 final size:18
Alignment explanation
Indices: 17865--17908 Score: 61
Period size: 19 Copynumber: 2.4 Consensus size: 18
17855 ATAATTTATA
* *
17865 ATAATTATAATATAATATT
1 ATAATTATATTATTAT-TT
17884 ATAATTATATTATTATTT
1 ATAATTATATTATTATTT
17902 ATAATTA
1 ATAATTA
17909 ACTTATTTGT
Statistics
Matches: 23, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
18 9 0.39
19 14 0.61
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (18 bp):
ATAATTATATTATTATTT
Found at i:18416 original size:21 final size:21
Alignment explanation
Indices: 18392--18451 Score: 52
Period size: 21 Copynumber: 2.9 Consensus size: 21
18382 TAATTATACC
*
18392 TAATATTGATATTATTATTTG
1 TAATATTGATATTATTATTTA
* *
18413 TAAT-CTGTATATTAATTAGTTA
1 TAATATTG-ATATT-ATTATTTA
*
18435 TAATATT-ATTTTATTAT
1 TAATATTGATATTATTAT
18452 AATATAGATA
Statistics
Matches: 30, Mismatches: 6, Indels: 7
0.70 0.14 0.16
Matches are distributed among these distances:
20 6 0.20
21 13 0.43
22 10 0.33
23 1 0.03
ACGTcount: A:0.35, C:0.02, G:0.07, T:0.57
Consensus pattern (21 bp):
TAATATTGATATTATTATTTA
Found at i:18667 original size:20 final size:21
Alignment explanation
Indices: 18622--18682 Score: 74
Period size: 20 Copynumber: 3.0 Consensus size: 21
18612 AATATAGAGC
*
18622 ATTTGTTT-ATAATATAAATTTA
1 ATTTGTTTAATTATATAAA--TA
18644 ATTTGTTTAATTATATAAAT-
1 ATTTGTTTAATTATATAAATA
18664 ATTTGTTTAATTA-ATAAAT
1 ATTTGTTTAATTATATAAAT
18683 TGTTGTTATT
Statistics
Matches: 37, Mismatches: 1, Indels: 5
0.86 0.02 0.12
Matches are distributed among these distances:
19 6 0.16
20 13 0.35
21 1 0.03
22 8 0.22
23 9 0.24
ACGTcount: A:0.41, C:0.00, G:0.05, T:0.54
Consensus pattern (21 bp):
ATTTGTTTAATTATATAAATA
Found at i:18991 original size:18 final size:19
Alignment explanation
Indices: 18965--19010 Score: 51
Period size: 18 Copynumber: 2.5 Consensus size: 19
18955 GAATATAACA
*
18965 TTTAAAATTATATT-CTAT
1 TTTATAATTATATTACTAT
*
18983 TTTATAATT-TATTATTAT
1 TTTATAATTATATTACTAT
*
19001 ATTATAATTA
1 TTTATAATTA
19011 ATATATATAT
Statistics
Matches: 23, Mismatches: 3, Indels: 3
0.79 0.10 0.10
Matches are distributed among these distances:
17 4 0.17
18 19 0.83
ACGTcount: A:0.39, C:0.02, G:0.00, T:0.59
Consensus pattern (19 bp):
TTTATAATTATATTACTAT
Found at i:19019 original size:18 final size:18
Alignment explanation
Indices: 18984--19031 Score: 60
Period size: 18 Copynumber: 2.5 Consensus size: 18
18974 ATATTCTATT
*
18984 TTATAATTTATTATTATA
1 TTATAATTAATTATTATA
19002 TTATAATTAATATATATATA
1 TTATAATTAAT-TAT-TATA
19022 TATATAATTA
1 T-TATAATTA
19032 GCAATTAAAT
Statistics
Matches: 26, Mismatches: 1, Indels: 3
0.87 0.03 0.10
Matches are distributed among these distances:
18 10 0.38
19 3 0.12
20 5 0.19
21 8 0.31
ACGTcount: A:0.46, C:0.00, G:0.00, T:0.54
Consensus pattern (18 bp):
TTATAATTAATTATTATA
Found at i:19678 original size:183 final size:179
Alignment explanation
Indices: 19046--20325 Score: 823
Period size: 183 Copynumber: 7.1 Consensus size: 179
19036 TTAAATTATT
* * * ** * ** * *
19046 AACAATTGTTTTATGATAGAACAAAAGGTTGTTACAATTTGAAATAGAAAATTGTT-AGAATAGT
1 AACAATTATTTTATGACAAAACAAAAGGTCATAATGATTTGAAATAGATAATTATTCA-AATAGT
* * *** *** * * * *
19110 CATAACTATTTGAACTAGTTCAATAAATTGATTGA-TTTTTTAAATGTC--TTATTAATTCTTAA
65 CTTAACTATTTAAACTAGTTTGGTAAACAAATTTATTTTTTTAAATCTCTGTTATTAATTTTTGA
* * *
19172 AATATTAATAAATTGGCATTATTTTATTTCAAATAAGCTTGTATG--TTGAA
130 AATATTAATAAATTAGTATTATTTT-TTTCAAATAAGCTTGTATGAACTG-A
* * ** * * * *
19222 AAGCAATTGTTTTATGACAAAACAAAA-GTAATAACAATTTGAAATAGATAGTTGTTTAAAT-GG
1 AA-CAATTATTTTATGACAAAACAAAAGGTCATAATGATTTGAAATAGATAATTATTCAAATAGT
* * * * * * *
19285 CTATGATTATTTGAACT--TATTGGTTAAACTAATTTATTCTTTTAAAT-TAGTTACTTATTAAT
65 CT-TAACTATTTAAACTAGT-TTGG-TAAACAAATTTATTTTTTTAAATCT--CT-GTTATTAAT
* * *** * * *
19347 TTTTGAAATATTACTAAAGTAGTATTATTTTATTTTGGATAAACTTTTATGAACTAA
124 TTTTGAAATATTAATAAATTAGTATTATTTT-TTTCAAATAAGCTTGTATGAACTGA
* * * * * * *
19404 AACAATTGTTTTATGACAAAACAAATGGTCATAATTATTTTAAATAAATAATTGTTCAAATAGCC
1 AACAATTATTTTATGACAAAACAAAAGGTCATAATGATTTGAAATAGATAATTATTCAAATAGTC
* * * * * *
19469 GTAATTATTCAAACTTGCTCGGTAAACAAATTTATTATTTTTAAATCTCATGATTATTAATTTTT
66 TTAACTATTTAAACTAGTTTGGTAAACAAATTTATT-TTTTTAAATCTC-TG-TTATTAA-TTTT
*
19534 TGAAA-ATTAATAAATTAGTATTATTTTCTTTCAAATAAGCTTGTATAAACTGA
127 TGAAATATTAATAAATTAGTATTATTTT-TTTCAAATAAGCTTGTATGAACTGA
* ** * * * * *
19587 AGCAATTATTACACGACTAAAGAAAAGGTCATAATGATTTGAAATTGATAATTATTCTAATAGTC
1 AACAATTATTTTATGACAAAACAAAAGGTCATAATGATTTGAAATAGATAATTATTCAAATAGTC
** *
19652 TTAACTATTTAAACTAGTTTGGTAAACGCATTTA-TTTTTTGAATCTC--TTATTAATTTTTGAA
66 TTAACTATTTAAACTAGTTTGGTAAACAAATTTATTTTTTTAAATCTCTGTTATTAATTTTTGAA
* * * * *
19714 ATATTATTAAATTAGTAATATTTTTATCTAAATAAGCTTGTATGATCAGA
131 ATATTAATAAATTAGTATTATTTTTTTC-AAATAAGCTTGTATGAACTGA
* * * * ** * * * *
19764 AATAATTATTTTATGAGAAAAC-AAAGATCAAAACAATTTGAGATTGATATTTATTCAAATAGCC
1 AACAATTATTTTATGACAAAACAAAAGGTCATAATGATTTGAAATAGATAATTATTCAAATAGTC
* * * * * * ** *
19828 ATAATTATTTGAACT-GATTTAGAAAACAATTTTAGTTTTTAAAAATCT-TGCTTATTAATTTTC
66 TTAACTATTTAAACTAG-TTTGGTAAACAAATTTA-TTTTTTTAAATCTCTG-TTATTAATTTTT
* * * * * * * *
19891 AAAATATTAATAAAGTGGTATTATTTTATTTCAGATAAGTTTTTATAAACTAA
128 GAAATATTAATAAATTAGTATTATTTT-TTTCAAATAAGCTTGTATGAACTGA
* * *
19944 AACAATTATTTTATGACAAAACAAAAGGTCATAACGAATTT-AAATAGATAATTGTTCAAATAAT
1 AACAATTATTTTATGACAAAACAAAAGGTCATAATG-ATTTGAAATAGATAATTATTCAAATAGT
* ** * * * *
20008 C-AAATCTATTTTAATTTA-TTTGATAAATAGATTTATTTTTTTAAATCTAATGCTTATTAATTT
65 CTTAA-CTA-TTTAAACTAGTTTGGTAAACAAATTTATTTTTTTAAATCT-CTG-TTATTAA-TT
* * * * *
20071 TTTG-AATGTTAATAAATTAGCATTAATTTATTCTAAATAAGCTTGTATGAATTGA
125 TTTGAAATATTAATAAATTAGTATTATTTTTTTC-AAATAAGCTTGTATGAACTGA
* * * * * * * *
20126 AATAAGTTGTTTTTGTGACTAAACAAAAGGTCAAAATGATATGAAATAGATAATTATCCTAATAG
1 AACAA-TT-ATTTTATGACAAAACAAAAGGTCATAATGATTTGAAATAGATAATTATTCAAATAG
* * *
20191 TCTTAACTATTTAAACTAGTTTGGCAAACACATTTA-TTTTTTAAATCTC--TTACTAATTTTT-
64 TCTTAACTATTTAAACTAGTTTGGTAAACAAATTTATTTTTTTAAATCTCTGTTATTAATTTTTG
* * * * * **
20252 AGAATATTATTAAATTAGTATTACTTTAATAT-GAATAAGCTTATATGAAAAGA
129 A-AATATTAATAAATTAGTATTA-TTT-TTTTCAAATAAGCTTGTATGAACTGA
*
20305 AACAATTCTTTTATGACAAAA
1 AACAATTATTTTATGACAAAA
20326 TAAAGATCGT
Statistics
Matches: 850, Mismatches: 205, Indels: 97
0.74 0.18 0.08
Matches are distributed among these distances:
174 1 0.00
175 4 0.00
176 121 0.14
177 102 0.12
178 16 0.02
179 45 0.05
180 82 0.10
181 130 0.15
182 113 0.13
183 164 0.19
184 70 0.08
185 2 0.00
ACGTcount: A:0.40, C:0.08, G:0.10, T:0.42
Consensus pattern (179 bp):
AACAATTATTTTATGACAAAACAAAAGGTCATAATGATTTGAAATAGATAATTATTCAAATAGTC
TTAACTATTTAAACTAGTTTGGTAAACAAATTTATTTTTTTAAATCTCTGTTATTAATTTTTGAA
ATATTAATAAATTAGTATTATTTTTTTCAAATAAGCTTGTATGAACTGA
Found at i:20148 original size:541 final size:539
Alignment explanation
Indices: 19104--20345 Score: 1390
Period size: 541 Copynumber: 2.3 Consensus size: 539
19094 AAATTGTTAG
* * *** * * *
19104 AATAGTCATAACTATTTGAACTAGTTCAATAAATTG-ATTGATTTTTTAAATGTCTTATTAATTC
1 AATAGTCTTAACTATTTAAACTAGTTTGGTAAA-CGCATTTATTTTTTAAATCTCTTATTAATT-
* * * * * * * *
19168 TTAAAATATTAATAAATTGGCATTATTTTATTTCAAATAAGCTTGTATGTTGAA-AAGCAATTGT
64 TTTAAATATTATTAAATTAGTATTATTTTATAT-AAATAAGCTTGTATGAT-AAGAAACAATTAT
* * * * *
19232 TTTATGACAAAACAAA-AGT-AATAACAATTTGAAATAGATAGTTGTTTAAATGGCTATGATTAT
127 TTTATGACAAAACAAAGA-TCAA-AACAATTTGAAATAGATAGTTATTCAAATAGCCATAATTAT
* * * * * * **
19295 TTGAACTTATTGGTTAAACTAATTTATTCTTTTAAATTAGTTACTTATTAATTTTTGAAATATTA
190 TTGAACTGATTAGTAAAACTAATTTATTCTTTAAAAATACTTACTTATTAATTTTCAAAATATTA
* ** * *
19360 CTAAAGTAGTATTATTTTATTTTGGATAAACTTTTATGAACTAAAACAATTGTTTTATGACAAAA
255 ATAAAGTAGTATTATTTTATTTCAGATAAACTTTTATAAACTAAAACAATTATTTTATGACAAAA
* ** * * * *
19425 CAAATGGTCATAATTATTTTAAATAAATAATTGTTCAAATAGCCGTAATTATTCAAACTTGCTCG
320 CAAAAGGTCATAACGAATTTAAATAAATAATTGTTCAAATAACCGAAATTATTCAAACTTACTCG
* * *
19490 GTAAACAAATTTATTATTTTTAAATCTCATGATTATTAATTTTTTGAAAATTAATAAATTAGTAT
385 ATAAACAAATTTATTATTTTTAAATCTAATGATTATTAATTTTTTGAAAATTAATAAATTAGCAT
* * * * *
19555 TATTTTCTTTCAAATAAGCTTGTATAAACTGAAGCAATTATTACACGACTAAAGAAAAGGTCATA
450 TAATTTATTTCAAATAAGCTTGTATAAACTGAAACAATTATTACACGACTAAACAAAAGGTCAAA
* * *
19620 ATGATTTGAAATTGATAATTATTCT
515 ATGATATGAAATAGATAATTATCCT
*
19645 AATAGTCTTAACTATTTAAACTAGTTTGGTAAACGCATTTATTTTTTGAATCTCTTATTAATTTT
1 AATAGTCTTAACTATTTAAACTAGTTTGGTAAACGCATTTATTTTTTAAATCTCTTATTAATTTT
* * * *
19710 TGAAATATTATTAAATTAGTAATATTTTTATCTAAATAAGCTTGTATGATCAGAAATAATTATTT
66 T-AAATATTATTAAATTAGTATTA-TTTTATATAAATAAGCTTGTATGATAAGAAACAATTATTT
* * * *
19775 TATGAGAAAACAAAGATCAAAACAATTTGAGATTGATATTTATTCAAATAGCCATAATTATTTGA
129 TATGACAAAACAAAGATCAAAACAATTTGAAATAGATAGTTATTCAAATAGCCATAATTATTTGA
*
19840 ACTGATTTAG-AAAAC-AATTTTAGTT-TTTAAAAAT-CTTGCTTATTAATTTTCAAAATATTAA
194 ACTGA-TTAGTAAAACTAA-TTTA-TTCTTTAAAAATACTTACTTATTAATTTTCAAAATATTAA
* **
19901 TAAAGTGGTATTATTTTATTTCAGATAAGTTTTTATAAACTAAAACAATTATTTTATGACAAAAC
256 TAAAGTAGTATTATTTTATTTCAGATAAACTTTTATAAACTAAAACAATTATTTTATGACAAAAC
* * ** * * *
19966 AAAAGGTCATAACGAATTTAAATAGATAATTGTTCAAATAATC-AAATCTATTTTAATTTATTTG
321 AAAAGGTCATAACGAATTTAAATAAATAATTGTTCAAATAACCGAAAT-TATTCAAACTTACTCG
* * * **
20030 ATAAATAGATTTATT-TTTTTAAATCTAATGCTTATTAATTTTTTGAATGTTAATAAATTAGCAT
385 ATAAACAAATTTATTATTTTTAAATCTAATGATTATTAATTTTTTGAAAATTAATAAATTAGCAT
* * * * ****
20094 TAATTTA-TTCTAAATAAGCTTGTATGAATTGAAATAAGTTGTTTTTGTGACTAAACAAAAGGTC
450 TAATTTATTTC-AAATAAGCTTGTATAAACTGAAACAA-TT-ATTACACGACTAAACAAAAGGTC
20158 AAAATGATATGAAATAGATAATTATCCT
512 AAAATGATATGAAATAGATAATTATCCT
* * *
20186 AATAGTCTTAACTATTTAAACTAGTTTGGCAAACACATTTATTTTTTAAATCTCTTACTAATTTT
1 AATAGTCTTAACTATTTAAACTAGTTTGGTAAACGCATTTATTTTTTAAATCTCTTATTAATTTT
* * * * *
20251 TAGAATATTATTAAATTAGTATTACTTTAATATGAATAAGCTTATATGAAAAGAAACAATTCTTT
66 TA-AATATTATTAAATTAGTATTA-TTTTATATAAATAAGCTTGTATGATAAGAAACAATTATTT
* **
20316 TATGACAAAATAAAGATCGTAACAATTTGA
129 TATGACAAAACAAAGATCAAAACAATTTGA
20346 TATAAATAAT
Statistics
Matches: 585, Mismatches: 102, Indels: 28
0.82 0.14 0.04
Matches are distributed among these distances:
538 3 0.01
539 74 0.13
540 147 0.25
541 346 0.59
542 15 0.03
ACGTcount: A:0.40, C:0.08, G:0.10, T:0.42
Consensus pattern (539 bp):
AATAGTCTTAACTATTTAAACTAGTTTGGTAAACGCATTTATTTTTTAAATCTCTTATTAATTTT
TAAATATTATTAAATTAGTATTATTTTATATAAATAAGCTTGTATGATAAGAAACAATTATTTTA
TGACAAAACAAAGATCAAAACAATTTGAAATAGATAGTTATTCAAATAGCCATAATTATTTGAAC
TGATTAGTAAAACTAATTTATTCTTTAAAAATACTTACTTATTAATTTTCAAAATATTAATAAAG
TAGTATTATTTTATTTCAGATAAACTTTTATAAACTAAAACAATTATTTTATGACAAAACAAAAG
GTCATAACGAATTTAAATAAATAATTGTTCAAATAACCGAAATTATTCAAACTTACTCGATAAAC
AAATTTATTATTTTTAAATCTAATGATTATTAATTTTTTGAAAATTAATAAATTAGCATTAATTT
ATTTCAAATAAGCTTGTATAAACTGAAACAATTATTACACGACTAAACAAAAGGTCAAAATGATA
TGAAATAGATAATTATCCT
Found at i:20732 original size:22 final size:22
Alignment explanation
Indices: 20688--20733 Score: 56
Period size: 22 Copynumber: 2.1 Consensus size: 22
20678 ATTTTAATAG
* *
20688 TATTATATTTTTTAATAACTAT
1 TATTATATTATATAATAACTAT
* *
20710 TATTATATTATATATTAATTAT
1 TATTATATTATATAATAACTAT
20732 TA
1 TA
20734 CTATTAATAA
Statistics
Matches: 20, Mismatches: 4, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
22 20 1.00
ACGTcount: A:0.39, C:0.02, G:0.00, T:0.59
Consensus pattern (22 bp):
TATTATATTATATAATAACTAT
Found at i:20778 original size:15 final size:14
Alignment explanation
Indices: 20760--20801 Score: 50
Period size: 15 Copynumber: 2.9 Consensus size: 14
20750 AATTTAATAT
20760 TATATTAATTAATTC
1 TATATTAA-TAATTC
20775 TATATTAATAATT-
1 TATATTAATAATTC
20788 TGATATATAATAAT
1 T-ATAT-TAATAAT
20802 ATAATTATAT
Statistics
Matches: 25, Mismatches: 0, Indels: 4
0.86 0.00 0.14
Matches are distributed among these distances:
13 1 0.04
14 9 0.36
15 15 0.60
ACGTcount: A:0.45, C:0.02, G:0.02, T:0.50
Consensus pattern (14 bp):
TATATTAATAATTC
Found at i:20889 original size:15 final size:14
Alignment explanation
Indices: 20868--20962 Score: 60
Period size: 13 Copynumber: 7.0 Consensus size: 14
20858 TATTCTAAGT
20868 ATTATATAATTATA
1 ATTATATAATTATA
20882 ATTTATATAATGT-T-
1 A-TTATATAAT-TATA
*
20896 ATTATATTATT-TA
1 ATTATATAATTATA
* *
20909 A-AATATATTTATA
1 ATTATATAATTATA
* *
20922 ATTTATTTATTTATA
1 A-TTATATAATTATA
20937 A-TATATAATTAT-
1 ATTATATAATTATA
20949 A-TATATAGATTATA
1 ATTATATA-ATTATA
20963 TATATTATAG
Statistics
Matches: 65, Mismatches: 8, Indels: 16
0.73 0.09 0.18
Matches are distributed among these distances:
12 15 0.23
13 26 0.40
14 2 0.03
15 21 0.32
16 1 0.02
ACGTcount: A:0.44, C:0.00, G:0.02, T:0.54
Consensus pattern (14 bp):
ATTATATAATTATA
Found at i:21037 original size:21 final size:20
Alignment explanation
Indices: 21011--21073 Score: 53
Period size: 20 Copynumber: 3.1 Consensus size: 20
21001 AGTGATTGAT
21011 TAATTACTAAATTTATATATA
1 TAATTA-TAAATTTATATATA
21032 TAATTATATAA-TTAT-TA-A
1 TAATTATA-AATTTATATATA
*
21050 TAATATATTTAATTTATA-ATA
1 TAAT-TA-TAAATTTATATATA
21071 TAA
1 TAA
21074 AGAATTTATA
Statistics
Matches: 35, Mismatches: 1, Indels: 12
0.73 0.02 0.25
Matches are distributed among these distances:
18 5 0.14
19 6 0.17
20 12 0.34
21 12 0.34
ACGTcount: A:0.49, C:0.02, G:0.00, T:0.49
Consensus pattern (20 bp):
TAATTATAAATTTATATATA
Found at i:21044 original size:29 final size:26
Alignment explanation
Indices: 21011--21084 Score: 69
Period size: 25 Copynumber: 2.8 Consensus size: 26
21001 AGTGATTGAT
*
21011 TAATTACTAAATTTATATATATAATTATA
1 TAATTA-TAAA-TAATATATATAATT-TA
* *
21040 TAATTATTAATAATATATTTAATTTA
1 TAATTATAAATAATATATATAATTTA
* *
21066 TAA-TATAAAGAATTTATAT
1 TAATTATAAATAATATATAT
21085 GTAATAAATT
Statistics
Matches: 38, Mismatches: 7, Indels: 4
0.78 0.14 0.08
Matches are distributed among these distances:
25 12 0.32
26 5 0.13
27 12 0.32
28 3 0.08
29 6 0.16
ACGTcount: A:0.49, C:0.01, G:0.01, T:0.49
Consensus pattern (26 bp):
TAATTATAAATAATATATATAATTTA
Found at i:21315 original size:23 final size:23
Alignment explanation
Indices: 21289--21355 Score: 55
Period size: 23 Copynumber: 2.9 Consensus size: 23
21279 GCAATTATTT
21289 AAATTAAAAATAAATAATTAAGG
1 AAATTAAAAATAAATAATTAAGG
* * * **
21312 AAA-TAGATAATCATTAATTAATT
1 AAATTA-AAAATAAATAATTAAGG
*
21335 AAATATAAAACTAAATAATTA
1 AAAT-TAAAAATAAATAATTA
21356 TATTATTATC
Statistics
Matches: 32, Mismatches: 9, Indels: 5
0.70 0.20 0.11
Matches are distributed among these distances:
22 2 0.06
23 18 0.56
24 10 0.31
25 2 0.06
ACGTcount: A:0.61, C:0.03, G:0.04, T:0.31
Consensus pattern (23 bp):
AAATTAAAAATAAATAATTAAGG
Found at i:21523 original size:21 final size:20
Alignment explanation
Indices: 21476--21524 Score: 57
Period size: 18 Copynumber: 2.5 Consensus size: 20
21466 CATAATACTA
*
21476 ATTTTAATCTATTATAATTT
1 ATTTTAATCAATTATAATTT
21496 A-TTTAAT-AATTATAATTAAT
1 ATTTTAATCAATTATAATT--T
21516 ATTTTAATC
1 ATTTTAATC
21525 TTTATTAAAT
Statistics
Matches: 24, Mismatches: 1, Indels: 6
0.77 0.03 0.19
Matches are distributed among these distances:
18 9 0.38
19 6 0.25
20 3 0.12
21 6 0.25
ACGTcount: A:0.41, C:0.04, G:0.00, T:0.55
Consensus pattern (20 bp):
ATTTTAATCAATTATAATTT
Found at i:21789 original size:28 final size:29
Alignment explanation
Indices: 21701--21789 Score: 80
Period size: 28 Copynumber: 3.2 Consensus size: 29
21691 TTATAATCCT
*
21701 TATT-AATTATAATTA-ATTATTAATATT
1 TATTAAATTATAATTAGATTATTAATATA
* **
21728 TATTATAA-TGTAA-TAGAAAATTAATATA
1 TATTA-AATTATAATTAGATTATTAATATA
* *
21756 TGTTAAATTTTAATTAGATTATTAA-ATA
1 TATTAAATTATAATTAGATTATTAATATA
21784 TATTAA
1 TATTAA
21790 TAATATGATA
Statistics
Matches: 48, Mismatches: 9, Indels: 9
0.73 0.14 0.14
Matches are distributed among these distances:
27 8 0.17
28 29 0.60
29 11 0.23
ACGTcount: A:0.47, C:0.00, G:0.04, T:0.48
Consensus pattern (29 bp):
TATTAAATTATAATTAGATTATTAATATA
Found at i:21921 original size:10 final size:10
Alignment explanation
Indices: 21876--21919 Score: 56
Period size: 9 Copynumber: 4.5 Consensus size: 10
21866 TTTTACTTAG
21876 TTAAATAAT-
1 TTAAATAATA
*
21885 TTAAATATTA
1 TTAAATAATA
21895 TTTAAATAATA
1 -TTAAATAATA
21906 TTAAATAA-A
1 TTAAATAATA
21915 TTAAA
1 TTAAA
21920 ATGATAAAAT
Statistics
Matches: 31, Mismatches: 2, Indels: 4
0.84 0.05 0.11
Matches are distributed among these distances:
9 14 0.45
10 8 0.26
11 9 0.29
ACGTcount: A:0.57, C:0.00, G:0.00, T:0.43
Consensus pattern (10 bp):
TTAAATAATA
Found at i:21921 original size:20 final size:20
Alignment explanation
Indices: 21878--21921 Score: 54
Period size: 20 Copynumber: 2.2 Consensus size: 20
21868 TTACTTAGTT
* *
21878 AAATAATTTAAATATTATTT
1 AAATAATTTAAATATAATTA
21898 AAATAATATTAAATA-AATTA
1 AAATAAT-TTAAATATAATTA
21918 AAAT
1 AAAT
21922 GATAAAATGT
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
20 14 0.67
21 7 0.33
ACGTcount: A:0.59, C:0.00, G:0.00, T:0.41
Consensus pattern (20 bp):
AAATAATTTAAATATAATTA
Found at i:21967 original size:13 final size:13
Alignment explanation
Indices: 21937--22021 Score: 59
Period size: 14 Copynumber: 6.3 Consensus size: 13
21927 AATGTAGACA
*
21937 ATTATTAATATGAT
1 ATTATT-ATATAAT
*
21951 ATTATTATTTAAT
1 ATTATTATATAAT
21964 ATTATTAATATAAT
1 ATTATT-ATATAAT
*
21978 A-TATTATGAT-TT
1 ATTATTAT-ATAAT
*
21990 ATTAATAATATAAT
1 ATT-ATTATATAAT
22004 ATATATTAT-TATAT
1 AT-TATTATATA-AT
22018 ATTA
1 ATTA
22022 AAAAATATAG
Statistics
Matches: 57, Mismatches: 7, Indels: 15
0.72 0.09 0.19
Matches are distributed among these distances:
12 4 0.07
13 24 0.42
14 28 0.49
15 1 0.02
ACGTcount: A:0.45, C:0.00, G:0.02, T:0.53
Consensus pattern (13 bp):
ATTATTATATAAT
Found at i:21992 original size:26 final size:25
Alignment explanation
Indices: 21937--22021 Score: 82
Period size: 26 Copynumber: 3.2 Consensus size: 25
21927 AATGTAGACA
*
21937 ATTATTAATATGATATTATTATTTAAT
1 ATTATTAATATAATA-TATTATTT-AT
21964 ATTATTAATATAATATATTATGATT-T
1 ATTATTAATATAATATATTAT--TTAT
*
21990 ATTAATAATATAATATATATTATTATAT
1 ATTATTAATAT-A-ATATATTATT-TAT
22018 ATTA
1 ATTA
22022 AAAAATATAG
Statistics
Matches: 50, Mismatches: 2, Indels: 11
0.79 0.03 0.17
Matches are distributed among these distances:
26 18 0.36
27 16 0.32
28 16 0.32
ACGTcount: A:0.45, C:0.00, G:0.02, T:0.53
Consensus pattern (25 bp):
ATTATTAATATAATATATTATTTAT
Found at i:21999 original size:21 final size:21
Alignment explanation
Indices: 21962--22054 Score: 63
Period size: 21 Copynumber: 4.5 Consensus size: 21
21952 TTATTATTTA
*
21962 ATATTATTAATATAATATATTAT
1 ATATTATT-A-ATAATATAATAT
21985 GAT-TTATTAATAATATAATAT
1 -ATATTATTAATAATATAATAT
* * *
22006 ATATTATTATATATTAAAAAAT
1 ATATTATTA-ATAATATAATAT
*
22028 ATA-GA-T-ATAATATAATA-
1 ATATTATTAATAATATAATAT
22045 AT-TTATTAAT
1 ATATTATTAAT
22055 TTATTATATA
Statistics
Matches: 55, Mismatches: 9, Indels: 15
0.70 0.11 0.19
Matches are distributed among these distances:
17 3 0.05
18 9 0.16
19 2 0.04
20 3 0.05
21 18 0.33
22 13 0.24
23 5 0.09
24 2 0.04
ACGTcount: A:0.51, C:0.00, G:0.02, T:0.47
Consensus pattern (21 bp):
ATATTATTAATAATATAATAT
Found at i:22327 original size:17 final size:16
Alignment explanation
Indices: 22278--22340 Score: 60
Period size: 16 Copynumber: 3.9 Consensus size: 16
22268 TAAATATTTA
* *
22278 ATTAATT-AAATCATT
1 ATTAATTAAAATGAAT
22293 ATTAATT--AATGATTAT
1 ATTAATTAAAATGA--AT
22309 ATTAATTTAAAATGAAT
1 ATTAA-TTAAAATGAAT
22326 ATTAATTAAAATGAA
1 ATTAATTAAAATGAA
22341 CAATTGTTGT
Statistics
Matches: 41, Mismatches: 2, Indels: 9
0.79 0.04 0.17
Matches are distributed among these distances:
14 4 0.10
15 7 0.17
16 16 0.39
17 9 0.22
19 5 0.12
ACGTcount: A:0.51, C:0.02, G:0.05, T:0.43
Consensus pattern (16 bp):
ATTAATTAAAATGAAT
Found at i:22512 original size:27 final size:27
Alignment explanation
Indices: 22475--22570 Score: 88
Period size: 27 Copynumber: 3.4 Consensus size: 27
22465 TAATTTCAAT
22475 TATA-AATAATCATAGTTATAAATTATA
1 TATATAATAATCA-AGTTATAAATTATA
* *
22502 T-TTTAATAATCAAGTTAATTAATTATA
1 TATATAATAATCAAGTT-ATAAATTATA
*
22529 TATATAATTATCAAGTTATTATACTATTATA
1 TATATAATAATCAAGTTA-TA-A--ATTATA
*
22560 TATAAAATAAT
1 TATATAATAAT
22571 TTATAATATA
Statistics
Matches: 55, Mismatches: 7, Indels: 10
0.76 0.10 0.14
Matches are distributed among these distances:
26 5 0.09
27 20 0.36
28 14 0.25
29 1 0.02
31 15 0.27
ACGTcount: A:0.48, C:0.04, G:0.03, T:0.45
Consensus pattern (27 bp):
TATATAATAATCAAGTTATAAATTATA
Found at i:22559 original size:29 final size:29
Alignment explanation
Indices: 22496--22564 Score: 79
Period size: 28 Copynumber: 2.4 Consensus size: 29
22486 ATAGTTATAA
* *
22496 ATTATATTTTAATAATCAAGTTAATTAATT
1 ATTATA-TATAATAATCAAGTTAATTAACT
*
22526 A-TATATATAATTATCAAGTT-ATTATACT
1 ATTATATATAATAATCAAGTTAATTA-ACT
22554 ATTATATATAA
1 ATTATATATAA
22565 AATAATTTAT
Statistics
Matches: 34, Mismatches: 3, Indels: 5
0.81 0.07 0.12
Matches are distributed among these distances:
27 4 0.12
28 16 0.47
29 13 0.38
30 1 0.03
ACGTcount: A:0.45, C:0.04, G:0.03, T:0.48
Consensus pattern (29 bp):
ATTATATATAATAATCAAGTTAATTAACT
Found at i:22660 original size:11 final size:11
Alignment explanation
Indices: 22644--22677 Score: 54
Period size: 11 Copynumber: 3.3 Consensus size: 11
22634 TAATTTAACT
22644 AATATATTATA
1 AATATATTATA
22655 AATATATTAT-
1 AATATATTATA
22665 AAT-TATTATA
1 AATATATTATA
22675 AAT
1 AAT
22678 TATAATAATT
Statistics
Matches: 22, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
9 6 0.27
10 6 0.27
11 10 0.45
ACGTcount: A:0.53, C:0.00, G:0.00, T:0.47
Consensus pattern (11 bp):
AATATATTATA
Found at i:22687 original size:9 final size:9
Alignment explanation
Indices: 22590--22687 Score: 60
Period size: 9 Copynumber: 10.6 Consensus size: 9
22580 AGTTATTTGC
22590 TAATTATAA
1 TAATTATAA
22599 TAAATTATAA
1 T-AATTATAA
* *
22609 TATTTATGA
1 TAATTATAA
* *
22618 TAAATATTA
1 TAATTATAA
22627 T-ATTA-AA
1 TAATTATAA
22634 TAATTTAACTAA
1 TAA-TT-A-TAA
22646 TATATTATAAA
1 TA-ATTAT-AA
22657 TATATTATAA
1 TA-ATTATAA
*
22667 TTATTAT-A
1 TAATTATAA
22675 -AATTATAA
1 TAATTATAA
22683 TAATT
1 TAATT
22688 TACATTTACT
Statistics
Matches: 70, Mismatches: 9, Indels: 20
0.71 0.09 0.20
Matches are distributed among these distances:
7 7 0.10
8 6 0.09
9 25 0.36
10 14 0.20
11 11 0.16
12 6 0.09
13 1 0.01
ACGTcount: A:0.51, C:0.01, G:0.01, T:0.47
Consensus pattern (9 bp):
TAATTATAA
Found at i:23370 original size:11 final size:11
Alignment explanation
Indices: 23356--23405 Score: 55
Period size: 11 Copynumber: 4.4 Consensus size: 11
23346 CTTTATAATT
*
23356 ATATTATTATA
1 ATATTAATATA
*
23367 ATATTAATATT
1 ATATTAATATA
23378 ATATTAATATCA
1 ATATTAATAT-A
*
23390 ATTATTAATAAA
1 A-TATTAATATA
23402 ATAT
1 ATAT
23406 GGTTTTGTAA
Statistics
Matches: 33, Mismatches: 4, Indels: 4
0.80 0.10 0.10
Matches are distributed among these distances:
11 22 0.67
12 3 0.09
13 8 0.24
ACGTcount: A:0.50, C:0.02, G:0.00, T:0.48
Consensus pattern (11 bp):
ATATTAATATA
Found at i:23419 original size:114 final size:116
Alignment explanation
Indices: 23301--23538 Score: 387
Period size: 113 Copynumber: 2.1 Consensus size: 116
23291 CATATAAATC
*
23301 ATATTTATTACATAGTTTTAAGGATTAATACTTTATTAATTAC-AACTTTATAATTATATTATTA
1 ATATTTATTACATAGTTTTAAGGATTAATACTTTATTAATTACAAACTTTATAACTATATTATTA
23365 TAATATTAATATTATA-TTAATATCAATTATT-AATAAAATATGGTTTTGTA
66 TAATATTAATATTATATTTAATATCAATTATTAAAT-AAATATGGTTTTGTA
*
23415 ATA-TTAAT-CATAGTTTTAAGGATTAATACTTTATTAATTACAAACTTTATAACTATATTATTA
1 ATATTTATTACATAGTTTTAAGGATTAATACTTTATTAATTACAAACTTTATAACTATATTATTA
* *
23478 TAATATTGATATTATATTTGATATCAATTATTAAATAAATATGGTTTTGTA
66 TAATATTAATATTATATTTAATATCAATTATTAAATAAATATGGTTTTGTA
*
23529 ATATTAATTA
1 ATATTTATTA
23539 ATATAAAACT
Statistics
Matches: 113, Mismatches: 6, Indels: 8
0.89 0.05 0.06
Matches are distributed among these distances:
112 33 0.29
113 39 0.35
114 35 0.31
115 6 0.05
ACGTcount: A:0.41, C:0.05, G:0.06, T:0.48
Consensus pattern (116 bp):
ATATTTATTACATAGTTTTAAGGATTAATACTTTATTAATTACAAACTTTATAACTATATTATTA
TAATATTAATATTATATTTAATATCAATTATTAAATAAATATGGTTTTGTA
Found at i:23439 original size:112 final size:114
Alignment explanation
Indices: 23311--23536 Score: 395
Period size: 114 Copynumber: 2.0 Consensus size: 114
23301 ATATTTATTA
*
23311 CATAGTTTTAAGGATTAATACTTTATTAATTAC-AACTTTATAATTATATTATTATAATATTAAT
1 CATAGTTTTAAGGATTAATACTTTATTAATTACAAACTTTATAACTATATTATTATAATATTAAT
23375 ATTATA-TTAATATCAATTATT-AATAAAATATGGTTTTGTAATATTAAT
66 ATTATATTTAATATCAATTATTAAAT-AAATATGGTTTTGTAATATTAAT
*
23423 CATAGTTTTAAGGATTAATACTTTATTAATTACAAACTTTATAACTATATTATTATAATATTGAT
1 CATAGTTTTAAGGATTAATACTTTATTAATTACAAACTTTATAACTATATTATTATAATATTAAT
*
23488 ATTATATTTGATATCAATTATTAAATAAATATGGTTTTGTAATATTAAT
66 ATTATATTTAATATCAATTATTAAATAAATATGGTTTTGTAATATTAAT
23537 TAATATAAAA
Statistics
Matches: 108, Mismatches: 3, Indels: 4
0.94 0.03 0.03
Matches are distributed among these distances:
112 33 0.31
113 35 0.32
114 37 0.34
115 3 0.03
ACGTcount: A:0.41, C:0.05, G:0.06, T:0.48
Consensus pattern (114 bp):
CATAGTTTTAAGGATTAATACTTTATTAATTACAAACTTTATAACTATATTATTATAATATTAAT
ATTATATTTAATATCAATTATTAAATAAATATGGTTTTGTAATATTAAT
Done.