Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: VEPZ01008614.1 Hibiscus syriacus cultivar Beakdansim tig00111571_pilon, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Pmatch=0.80,Pindel=0.10
tuple sizes 0,4,5,7
tuple distances 0, 29, 159, 1000
Length: 86278
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.34
Found at i:1766 original size:16 final size:15
Alignment explanation
Indices: 1740--1769 Score: 51
Period size: 16 Copynumber: 1.9 Consensus size: 15
1730 AAGTAAAAAG
1740 TATAAAGTCACTACT
1 TATAAAGTCACTACT
1755 TATAAGAGTCACTAC
1 TATAA-AGTCACTAC
1770 ATCCAACTCG
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
15 5 0.36
16 9 0.64
ACGTcount: A:0.40, C:0.20, G:0.10, T:0.30
Consensus pattern (15 bp):
TATAAAGTCACTACT
Found at i:3541 original size:93 final size:93
Alignment explanation
Indices: 3416--3593 Score: 234
Period size: 93 Copynumber: 1.9 Consensus size: 93
3406 TGATTTATCC
* * **
3416 TCAGAACTAGAATCAGAACATGTTAGTCAAGCCGAAGATGACCAATCATCAATTCTCACATTAGA
1 TCAGAACTAGAATCAGAACATGTTAGTCAAGCCGAAGATGACCAATCATCAATACTAACAGCAGA
*
3481 AGTTGAGATATCAGAGCATTCTCCGGAA
66 AGTTGAGATATCACAGCATTCTCCGGAA
* * * * *
3509 TCAGAA-TCAGAATCGGAACTTGTTA-TCGAAGCCGAAGATGATCAATCATCAATACTAACGGCG
1 TCAGAACT-AGAATCAGAACATGTTAGTC-AAGCCGAAGATGACCAATCATCAATACTAACAGCA
3572 GAAGTTGAGATATCACAGCATT
64 GAAGTTGAGATATCACAGCATT
3594 TCCAACCTCA
Statistics
Matches: 73, Mismatches: 10, Indels: 4
0.84 0.11 0.05
Matches are distributed among these distances:
92 3 0.04
93 70 0.96
ACGTcount: A:0.37, C:0.20, G:0.20, T:0.24
Consensus pattern (93 bp):
TCAGAACTAGAATCAGAACATGTTAGTCAAGCCGAAGATGACCAATCATCAATACTAACAGCAGA
AGTTGAGATATCACAGCATTCTCCGGAA
Found at i:5448 original size:15 final size:15
Alignment explanation
Indices: 5428--5545 Score: 121
Period size: 15 Copynumber: 7.5 Consensus size: 15
5418 TAATAAGGTT
5428 ATTTATTTTAAAATA
1 ATTTATTTTAAAATA
5443 ATTTATTTTAAAATA
1 ATTTATTTTAAAATA
*
5458 ATTTATTATAAAATA
1 ATTTATTTTAAAATA
**
5473 ATTTACCTTAAAATA
1 ATTTATTTTAAAATA
* *
5488 AATTATTATAAAATATGGA
1 ATTTATT-TTAAA-AT--A
5507 TTGATTTATTTTAAAATA
1 ---ATTTATTTTAAAATA
5525 ATTTA-TTTAAAATA
1 ATTTATTTTAAAATA
5539 ATTTATT
1 ATTTATT
5546 AGTATGAATT
Statistics
Matches: 85, Mismatches: 10, Indels: 16
0.77 0.09 0.14
Matches are distributed among these distances:
14 14 0.16
15 51 0.60
16 4 0.05
17 2 0.02
18 1 0.01
19 1 0.01
20 2 0.02
21 4 0.05
22 6 0.07
ACGTcount: A:0.47, C:0.02, G:0.03, T:0.49
Consensus pattern (15 bp):
ATTTATTTTAAAATA
Found at i:5515 original size:22 final size:22
Alignment explanation
Indices: 5490--5590 Score: 85
Period size: 22 Copynumber: 4.5 Consensus size: 22
5480 TTAAAATAAA
*
5490 TTATTATAAAATATGGATTGAT
1 TTATTTTAAAATATGGATTGAT
** * *
5512 TTATTTTAAAATAATTTATTTAAA
1 TTATTTTAAAAT-ATGGA-TTGAT
* * * * *
5536 ATAATTTATTAGTATGAATTGAT
1 TTATTTTA-AAATATGGATTGAT
5559 TTATTTTAAAATATGGATTGAT
1 TTATTTTAAAATATGGATTGAT
5581 TTATTTTAAA
1 TTATTTTAAA
5591 TAATTTATTA
Statistics
Matches: 58, Mismatches: 18, Indels: 6
0.71 0.22 0.07
Matches are distributed among these distances:
22 32 0.55
23 12 0.21
24 12 0.21
25 2 0.03
ACGTcount: A:0.41, C:0.00, G:0.09, T:0.50
Consensus pattern (22 bp):
TTATTTTAAAATATGGATTGAT
Found at i:5581 original size:69 final size:66
Alignment explanation
Indices: 5443--5600 Score: 214
Period size: 69 Copynumber: 2.3 Consensus size: 66
5433 TTTTAAAATA
5443 ATTTATTTTAAAATAATTTATTATAAAATAATTTACCTTAAAATAAATTATTATAAAATATGGAT
1 ATTTATTTTAAAATAATTTATTATAAAATAATTTA-CTTAAAATAAATTATTATAAAATATGGAT
5508 TG
65 TG
* * *
5510 ATTTATTTTAAAATAATTTATT-TAAAATAATTTA-TTAGTATGAATTGATTTATTTTAAAATAT
1 ATTTATTTTAAAATAATTTATTATAAAATAATTTACTTA--A--AA-TAAATTATTATAAAATAT
5573 GGATTG
61 GGATTG
5579 ATTTATTTT-AAATAATTTATTA
1 ATTTATTTTAAAATAATTTATTA
5601 GTATGTATTG
Statistics
Matches: 82, Mismatches: 3, Indels: 10
0.86 0.03 0.11
Matches are distributed among these distances:
64 3 0.04
66 13 0.16
67 22 0.27
68 14 0.17
69 30 0.37
ACGTcount: A:0.44, C:0.01, G:0.06, T:0.49
Consensus pattern (66 bp):
ATTTATTTTAAAATAATTTATTATAAAATAATTTACTTAAAATAAATTATTATAAAATATGGATT
G
Found at i:5592 original size:54 final size:54
Alignment explanation
Indices: 5525--6079 Score: 441
Period size: 54 Copynumber: 10.1 Consensus size: 54
5515 TTTTAAAATA
* *
5525 ATTTATTTAAAATAATTTATTAGTATGAATTGATTTATTTTAAAATATGGATTG
1 ATTTATTTTAAATAATTTATTAGTATGGATTGATTTATTTTAAAATATGGATTG
*
5579 ATTTATTTTAAATAATTTATTAGTATGTATTGATTTATTTTAAAATATGGATTG
1 ATTTATTTTAAATAATTTATTAGTATGGATTGATTTATTTTAAAATATGGATTG
5633 ATTTATTTTAAATAATTTATTAGTATGGATTGATTTATTTTAAAATATGGATTG
1 ATTTATTTTAAATAATTTATTAGTATGGATTGATTTATTTTAAAATATGGATTG
*
5687 ATTTA--TT--AT--TGTAGTT-GTATGGATTGATTTATTTTAAATAATTTATTAGTATGTATTG
1 ATTTATTTTAAATAATTTA-TTAGTATGGATTGATTTATTTT-AA-AA--TA-T-G---G-ATTG
* *
5745 ATTTATTTTAAATAATTTATTTGTATGGATTGATTTATTTTAAAACATGGATTG
1 ATTTATTTTAAATAATTTATTAGTATGGATTGATTTATTTTAAAATATGGATTG
** **
5799 ATTTA--TT--AT--GGTAGTT-GTATGGATTGATTTATTTT-AAATAATTTATTAG
1 ATTTATTTTAAATAATTTA-TTAGTATGGATTGATTTATTTTAAAAT-ATGGATT-G
** * ** * * * * *
5848 TATGGA-TTGATTTATTTTA-AAATGTGGATTGATTTATTTTAAAATATCGATTG
1 -ATTTATTTTAAATAATTTATTAGTATGGATTGATTTATTTTAAAATATGGATTG
*
5901 ATTTATTTTAAATAATTTATTAGTATGGATTGATTTATTTT-AAATA---ATTT
1 ATTTATTTTAAATAATTTATTAGTATGGATTGATTTATTTTAAAATATGGATTG
* * ** * * *
5951 ATTTGTATGGATTGATTTATTTTAAAATATGGATTGATTTATTTTAAATAATTTATTAGTATGGA
1 ATTTATTTTAAATAATTTA--TT--AGTATGGATTGATTTA-TTT---TAA---A--A-TATGGA
6016 TTG
52 TTG
*
6019 ATTTATTTTAAATAATTTATTAGTATGGATTGATTTATTTTAAAATATGAATTG
1 ATTTATTTTAAATAATTTATTAGTATGGATTGATTTATTTTAAAATATGGATTG
6073 ATTTATT
1 ATTTATT
6080 ATTGTAGTGG
Statistics
Matches: 404, Mismatches: 48, Indels: 98
0.73 0.09 0.18
Matches are distributed among these distances:
47 3 0.01
48 48 0.12
49 7 0.02
50 25 0.06
51 1 0.00
52 11 0.03
53 17 0.04
54 190 0.47
55 11 0.03
57 2 0.00
58 11 0.03
59 2 0.00
60 6 0.01
62 5 0.01
63 7 0.02
64 38 0.09
65 2 0.00
66 2 0.00
68 16 0.04
ACGTcount: A:0.34, C:0.00, G:0.13, T:0.53
Consensus pattern (54 bp):
ATTTATTTTAAATAATTTATTAGTATGGATTGATTTATTTTAAAATATGGATTG
Found at i:5613 original size:32 final size:32
Alignment explanation
Indices: 5570--5676 Score: 135
Period size: 32 Copynumber: 3.7 Consensus size: 32
5560 TATTTTAAAA
5570 TATGGATTGATTTATTTTAAATAATTTATTAG
1 TATGGATTGATTTATTTTAAATAATTTATTAG
*
5602 TATGTATTGATTTA-TTT---TAA---A--A-
1 TATGGATTGATTTATTTTAAATAATTTATTAG
5624 TATGGATTGATTTATTTTAAATAATTTATTAG
1 TATGGATTGATTTATTTTAAATAATTTATTAG
5656 TATGGATTGATTTATTTTAAA
1 TATGGATTGATTTATTTTAAA
5677 ATATGGATTG
Statistics
Matches: 63, Mismatches: 2, Indels: 20
0.74 0.02 0.24
Matches are distributed among these distances:
22 13 0.21
23 4 0.06
25 1 0.02
26 3 0.05
28 3 0.05
29 1 0.02
31 4 0.06
32 34 0.54
ACGTcount: A:0.35, C:0.00, G:0.12, T:0.53
Consensus pattern (32 bp):
TATGGATTGATTTATTTTAAATAATTTATTAG
Found at i:5618 original size:22 final size:22
Alignment explanation
Indices: 5602--5644 Score: 77
Period size: 22 Copynumber: 2.0 Consensus size: 22
5592 AATTTATTAG
*
5602 TATGTATTGATTTATTTTAAAA
1 TATGGATTGATTTATTTTAAAA
5624 TATGGATTGATTTATTTTAAA
1 TATGGATTGATTTATTTTAAA
5645 TAATTTATTA
Statistics
Matches: 20, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
22 20 1.00
ACGTcount: A:0.35, C:0.00, G:0.12, T:0.53
Consensus pattern (22 bp):
TATGGATTGATTTATTTTAAAA
Found at i:5670 original size:18 final size:18
Alignment explanation
Indices: 5647--5694 Score: 51
Period size: 22 Copynumber: 2.4 Consensus size: 18
5637 ATTTTAAATA
*
5647 ATTTATTAGTATGGATTG
1 ATTTATTAATATGGATTG
5665 ATTTATTTTAAAATATGGATTG
1 ATTTA--TT--AATATGGATTG
5687 ATTTATTA
1 ATTTATTA
5695 TTGTAGTTGT
Statistics
Matches: 25, Mismatches: 1, Indels: 8
0.74 0.03 0.24
Matches are distributed among these distances:
18 6 0.24
20 4 0.16
22 15 0.60
ACGTcount: A:0.33, C:0.00, G:0.15, T:0.52
Consensus pattern (18 bp):
ATTTATTAATATGGATTG
Found at i:5745 original size:32 final size:32
Alignment explanation
Indices: 5703--5788 Score: 154
Period size: 32 Copynumber: 2.7 Consensus size: 32
5693 TATTGTAGTT
5703 GTATGGATTGATTTATTTTAAATAATTTATTA
1 GTATGGATTGATTTATTTTAAATAATTTATTA
* *
5735 GTATGTATTGATTTATTTTAAATAATTTATTT
1 GTATGGATTGATTTATTTTAAATAATTTATTA
5767 GTATGGATTGATTTATTTTAAA
1 GTATGGATTGATTTATTTTAAA
5789 ACATGGATTG
Statistics
Matches: 51, Mismatches: 3, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
32 51 1.00
ACGTcount: A:0.33, C:0.00, G:0.13, T:0.55
Consensus pattern (32 bp):
GTATGGATTGATTTATTTTAAATAATTTATTA
Found at i:5774 original size:112 final size:115
Alignment explanation
Indices: 5525--6160 Score: 578
Period size: 112 Copynumber: 5.5 Consensus size: 115
5515 TTTTAAAATA
* *
5525 ATTTATTTAAAATAATTTATTAGTATGAATTGATTTATTTTAAAATATGGATTGATTTATTTTAA
1 ATTTATTTTAAATAATTTATTAGTATGGATTGATTTATTTTAAAATATGGATTGATTTA-TTT-A
* *
5590 ATAATTTATTAGTATGTATTGATTTA-TTT---TAA---A--A-TATGGATTG
64 AT-ATGTATTAGTATGGATTGATTTATTTTAAATAATTTATTAGTATGGATTG
5633 ATTTATTTTAAATAATTTATTAGTATGGATTGATTTATTTTAAAATATGGATTGATTTA-TT-AT
1 ATTTATTTTAAATAATTTATTAGTATGGATTGATTTATTTTAAAATATGGATTGATTTATTTAAT
*
5696 -TGTAGTT-GTATGGATTGATTTATTTTAAATAATTTATTAGTATGTATTG
66 ATGTA-TTAGTATGGATTGATTTATTTTAAATAATTTATTAGTATGGATTG
* *
5745 ATTTATTTTAAATAATTTATTTGTATGGATTGATTTATTTTAAAACATGGATTGATTTA-TT-AT
1 ATTTATTTTAAATAATTTATTAGTATGGATTGATTTATTTTAAAATATGGATTGATTTATTTAAT
*
5808 -GGTAGTT-GTATGGATTGATTTATTTTAAATAATTTATTAGTATGGATTG
66 ATGTA-TTAGTATGGATTGATTTATTTTAAATAATTTATTAGTATGGATTG
*
5857 ATTTATTTT--A-AA---A-T-G--TGGATTGATTTATTTTAAAATATCGATTGATTTATTTTAA
1 ATTTATTTTAAATAATTTATTAGTATGGATTGATTTATTTTAAAATATGGATTGATTTA-TTT-A
* *
5912 ATAATTTATTAGTATGGATTGATTTATTTTAAATAATTTATTTGTATGGATTG
64 AT-ATGTATTAGTATGGATTGATTTATTTTAAATAATTTATTAGTATGGATTG
** ** * ** * * *
5965 ATTTATTTTAAA-ATATGGATT-G-ATTTATTTTAAATAATTTATTAGTATGGATTGATTTATTT
1 ATTTATTTTAAATA-ATTTATTAGTATGGA-TTGATTTATTTTA-AAATATGGATTGATTTA-TT
*
6027 TAAATAATTTATTAGTATGGATTGATTTATTTTAAAATATGAATTGATTTATTATTGTAGTGGTA
62 T-AAT-ATGTATTAGTATGGATTGATTTATTTT--AA-AT--A---ATTTATTA--GTA-TGG-A
*
6092 TGG
113 TTG
6095 ATTAATTTATTTTAAATAATTTATTAGTATGGATTGATTTATTTTAAAATATGGATTGATTTATT
1 A----TTTATTTTAAATAATTTATTAGTATGGATTGATTTATTTTAAAATATGGATTGATTTATT
6160 T
62 T
6161 TAAATAATTT
Statistics
Matches: 446, Mismatches: 35, Indels: 69
0.81 0.06 0.13
Matches are distributed among these distances:
102 49 0.11
103 5 0.01
104 5 0.01
105 1 0.00
106 8 0.02
107 2 0.00
108 109 0.24
109 3 0.01
110 3 0.01
111 2 0.00
112 125 0.28
114 1 0.00
115 2 0.00
116 2 0.00
117 9 0.02
118 50 0.11
120 2 0.00
121 2 0.00
123 1 0.00
126 7 0.02
128 3 0.01
129 3 0.01
130 4 0.01
133 3 0.01
134 31 0.07
135 11 0.02
136 3 0.01
ACGTcount: A:0.34, C:0.00, G:0.14, T:0.53
Consensus pattern (115 bp):
ATTTATTTTAAATAATTTATTAGTATGGATTGATTTATTTTAAAATATGGATTGATTTATTTAAT
ATGTATTAGTATGGATTGATTTATTTTAAATAATTTATTAGTATGGATTG
Found at i:5819 original size:80 final size:75
Alignment explanation
Indices: 5734--5944 Score: 305
Period size: 80 Copynumber: 2.7 Consensus size: 75
5724 ATAATTTATT
*
5734 AGTATGTATTGATTTATTTTAAATAATTTATTTGTATGGATTGATTTATTTTAAAACATGGATTG
1 AGTATG-ATTGATTTATTTTAAATAATTTATTAGTATGGATTGATTTATTTTAAAACATGGATTG
*
5799 ATTTATTATGGTAGT
65 ATTTATT-T--TA-A
* **
5814 TGTATGGATTGATTTATTTTAAATAATTTATTAGTATGGATTGATTTATTTTAAAATGTGGATTG
1 AGTAT-GATTGATTTATTTTAAATAATTTATTAGTATGGATTGATTTATTTTAAAACATGGATTG
5879 ATTTATTTTAA
65 ATTTATTTTAA
*
5890 AATATCGATTGATTTATTTTAAATAATTTATTAGTATGGATTGATTTATTTTAAA
1 AGTAT-GATTGATTTATTTTAAATAATTTATTAGTATGGATTGATTTATTTTAAA
5945 TAATTTATTT
Statistics
Matches: 122, Mismatches: 8, Indels: 6
0.90 0.06 0.04
Matches are distributed among these distances:
76 52 0.43
77 2 0.02
79 1 0.01
80 66 0.54
81 1 0.01
ACGTcount: A:0.33, C:0.01, G:0.15, T:0.52
Consensus pattern (75 bp):
AGTATGATTGATTTATTTTAAATAATTTATTAGTATGGATTGATTTATTTTAAAACATGGATTGA
TTTATTTTAA
Found at i:5856 original size:32 final size:32
Alignment explanation
Indices: 5815--6062 Score: 268
Period size: 32 Copynumber: 8.7 Consensus size: 32
5805 TATGGTAGTT
5815 GTATGGATTGATTTATTTTAAATAATTTATTA
1 GTATGGATTGATTTATTTTAAATAATTTATTA
5847 GTATGGATTGATTTATTTT--A-AA---A-T-
1 GTATGGATTGATTTATTTTAAATAATTTATTA
5871 G--TGGATTGATTTATTTTAA-------A--A
1 GTATGGATTGATTTATTTTAAATAATTTATTA
*
5892 -TATCGATTGATTTATTTTAAATAATTTATTA
1 GTATGGATTGATTTATTTTAAATAATTTATTA
*
5923 GTATGGATTGATTTATTTTAAATAATTTATTT
1 GTATGGATTGATTTATTTTAAATAATTTATTA
5955 GTATGGATTGATTTA-TTT---TAA---A--A
1 GTATGGATTGATTTATTTTAAATAATTTATTA
5978 -TATGGATTGATTTATTTTAAATAATTTATTA
1 GTATGGATTGATTTATTTTAAATAATTTATTA
6009 GTATGGATTGATTTATTTTAAATAATTTATTA
1 GTATGGATTGATTTATTTTAAATAATTTATTA
6041 GTATGGATTGATTTATTTTAAA
1 GTATGGATTGATTTATTTTAAA
6063 ATATGAATTG
Statistics
Matches: 187, Mismatches: 4, Indels: 50
0.78 0.02 0.21
Matches are distributed among these distances:
21 1 0.01
22 47 0.25
23 3 0.02
24 1 0.01
25 2 0.01
26 4 0.02
28 3 0.02
29 4 0.02
30 1 0.01
31 5 0.03
32 116 0.62
ACGTcount: A:0.34, C:0.00, G:0.13, T:0.52
Consensus pattern (32 bp):
GTATGGATTGATTTATTTTAAATAATTTATTA
Found at i:5875 original size:22 final size:22
Alignment explanation
Indices: 5848--5912 Score: 112
Period size: 22 Copynumber: 3.0 Consensus size: 22
5838 AATTTATTAG
5848 TATGGATTGATTTATTTTAAAA
1 TATGGATTGATTTATTTTAAAA
*
5870 TGTGGATTGATTTATTTTAAAA
1 TATGGATTGATTTATTTTAAAA
*
5892 TATCGATTGATTTATTTTAAA
1 TATGGATTGATTTATTTTAAA
5913 TAATTTATTA
Statistics
Matches: 40, Mismatches: 3, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
22 40 1.00
ACGTcount: A:0.34, C:0.02, G:0.14, T:0.51
Consensus pattern (22 bp):
TATGGATTGATTTATTTTAAAA
Found at i:5981 original size:22 final size:22
Alignment explanation
Indices: 5956--5998 Score: 86
Period size: 22 Copynumber: 2.0 Consensus size: 22
5946 AATTTATTTG
5956 TATGGATTGATTTATTTTAAAA
1 TATGGATTGATTTATTTTAAAA
5978 TATGGATTGATTTATTTTAAA
1 TATGGATTGATTTATTTTAAA
5999 TAATTTATTA
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
22 21 1.00
ACGTcount: A:0.35, C:0.00, G:0.14, T:0.51
Consensus pattern (22 bp):
TATGGATTGATTTATTTTAAAA
Found at i:6138 original size:22 final size:22
Alignment explanation
Indices: 6122--6164 Score: 86
Period size: 22 Copynumber: 2.0 Consensus size: 22
6112 AATTTATTAG
6122 TATGGATTGATTTATTTTAAAA
1 TATGGATTGATTTATTTTAAAA
6144 TATGGATTGATTTATTTTAAA
1 TATGGATTGATTTATTTTAAA
6165 TAATTTATTA
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
22 21 1.00
ACGTcount: A:0.35, C:0.00, G:0.14, T:0.51
Consensus pattern (22 bp):
TATGGATTGATTTATTTTAAAA
Found at i:6224 original size:31 final size:31
Alignment explanation
Indices: 6189--6247 Score: 100
Period size: 31 Copynumber: 1.9 Consensus size: 31
6179 AGTTGTATGG
* *
6189 ATTATTTAAATTTCAGTATTGTAAAACTAAA
1 ATTATTTAAATCTCAGTATTGCAAAACTAAA
6220 ATTATTTAAATCTCAGTATTGCAAAACT
1 ATTATTTAAATCTCAGTATTGCAAAACT
6248 CTTTTAAGTT
Statistics
Matches: 26, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
31 26 1.00
ACGTcount: A:0.42, C:0.10, G:0.07, T:0.41
Consensus pattern (31 bp):
ATTATTTAAATCTCAGTATTGCAAAACTAAA
Found at i:7555 original size:26 final size:26
Alignment explanation
Indices: 7512--7575 Score: 112
Period size: 26 Copynumber: 2.5 Consensus size: 26
7502 TTCATCTTTA
7512 TTTA-TTATTTCACACTTTTAAGTTT
1 TTTATTTATTTCACACTTTTAAGTTT
*
7537 TTTATTTATTTCACCCTTTTAAGTTT
1 TTTATTTATTTCACACTTTTAAGTTT
7563 TTTATTTATTTCA
1 TTTATTTATTTCA
7576 AGATCATCCT
Statistics
Matches: 37, Mismatches: 1, Indels: 1
0.95 0.03 0.03
Matches are distributed among these distances:
25 4 0.11
26 33 0.89
ACGTcount: A:0.22, C:0.12, G:0.03, T:0.62
Consensus pattern (26 bp):
TTTATTTATTTCACACTTTTAAGTTT
Found at i:10566 original size:20 final size:20
Alignment explanation
Indices: 10536--10614 Score: 104
Period size: 20 Copynumber: 3.9 Consensus size: 20
10526 ATCGCAACAC
*
10536 AATAGTAAAAAGCGCAACGTG
1 AATAGT-AAAATCGCAACGTG
*
10557 AATAGTAAAATCGTAACGTG
1 AATAGTAAAATCGCAACGTG
* **
10577 AATAGTAAAATCGTAATATG
1 AATAGTAAAATCGCAACGTG
10597 AATAGTAAAATCGCAACG
1 AATAGTAAAATCGCAACG
10615 AATCGCAACA
Statistics
Matches: 51, Mismatches: 7, Indels: 1
0.86 0.12 0.02
Matches are distributed among these distances:
20 45 0.88
21 6 0.12
ACGTcount: A:0.48, C:0.11, G:0.19, T:0.22
Consensus pattern (20 bp):
AATAGTAAAATCGCAACGTG
Found at i:10568 original size:40 final size:40
Alignment explanation
Indices: 10524--10615 Score: 105
Period size: 40 Copynumber: 2.3 Consensus size: 40
10514 GCGAATTTAT
*
10524 AAATCGCAAC-ACAATAGTAAAAAGCGCAACGTGAATAGTA
1 AAATCGCAACGACAATAGT-AAAAGCGCAACATGAATAGTA
* ** * * *
10564 AAATCGTAACGTGAATAGTAAAATCGTAATATGAATAGTA
1 AAATCGCAACGACAATAGTAAAAGCGCAACATGAATAGTA
10604 AAATCGCAACGA
1 AAATCGCAACGA
10616 ATCGCAACAT
Statistics
Matches: 42, Mismatches: 9, Indels: 2
0.79 0.17 0.04
Matches are distributed among these distances:
40 36 0.86
41 6 0.14
ACGTcount: A:0.49, C:0.14, G:0.17, T:0.20
Consensus pattern (40 bp):
AAATCGCAACGACAATAGTAAAAGCGCAACATGAATAGTA
Found at i:13802 original size:72 final size:71
Alignment explanation
Indices: 13659--13803 Score: 161
Period size: 72 Copynumber: 2.0 Consensus size: 71
13649 TTTAAATTAA
* * * *
13659 AAAAAAATCTTTAAAACAAGAGAATAAAACAACTCATCCATAATGTTGCTCATAAAATTTGATTT
1 AAAAAAATATTTAAAACAAAAGAAGAAAACAACTCATCCATAATGTTGCTCATAAAATTTGA-TA
*
13724 TTAAAAT
65 TAAAAAT
* *
13731 AAAAAAATATTTAATAA-AAAAGAAGAAAACAAAC-CATCCATAATGTTTCTTATAAAATGGTTG
1 AAAAAAATATTTAA-AACAAAAGAAGAAAAC-AACTCATCCATAATGTTGCTCATAAAAT--TTG
13794 A-ATAAAAAT
62 ATATAAAAAT
13803 A
1 A
13804 TAAACAAAAA
Statistics
Matches: 62, Mismatches: 7, Indels: 8
0.81 0.09 0.10
Matches are distributed among these distances:
72 53 0.85
73 5 0.08
74 4 0.06
ACGTcount: A:0.54, C:0.10, G:0.08, T:0.28
Consensus pattern (71 bp):
AAAAAAATATTTAAAACAAAAGAAGAAAACAACTCATCCATAATGTTGCTCATAAAATTTGATAT
AAAAAT
Found at i:16312 original size:26 final size:26
Alignment explanation
Indices: 16276--16342 Score: 125
Period size: 26 Copynumber: 2.6 Consensus size: 26
16266 GTCTCGTACG
16276 CCAAAACGGCGTCGTCCCGTTTAGTT
1 CCAAAACGGCGTCGTCCCGTTTAGTT
16302 CCAAAACGGCGTCGTCCCGTTTAGTT
1 CCAAAACGGCGTCGTCCCGTTTAGTT
*
16328 CCAGAACGGCGTCGT
1 CCAAAACGGCGTCGT
16343 TTAGGTGGCC
Statistics
Matches: 40, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
26 40 1.00
ACGTcount: A:0.19, C:0.31, G:0.25, T:0.24
Consensus pattern (26 bp):
CCAAAACGGCGTCGTCCCGTTTAGTT
Found at i:28325 original size:14 final size:13
Alignment explanation
Indices: 28308--28359 Score: 54
Period size: 14 Copynumber: 3.8 Consensus size: 13
28298 AAAATGAGTG
28308 AAAATGAAAAAAT
1 AAAATGAAAAAAT
28321 GAAAAAT-AAAAAAT
1 --AAAATGAAAAAAT
28335 AAAATGAATGAAAA-
1 AAAATGAA--AAAAT
28349 AAAATGAAAAA
1 AAAATGAAAAA
28360 TGAGGGTTCA
Statistics
Matches: 34, Mismatches: 0, Indels: 9
0.79 0.00 0.21
Matches are distributed among these distances:
12 8 0.24
13 2 0.06
14 15 0.44
15 9 0.26
ACGTcount: A:0.77, C:0.00, G:0.10, T:0.13
Consensus pattern (13 bp):
AAAATGAAAAAAT
Found at i:29415 original size:55 final size:55
Alignment explanation
Indices: 29346--29959 Score: 634
Period size: 55 Copynumber: 11.3 Consensus size: 55
29336 AGGTTTCCCA
29346 ACGATTGTTGAAGATTGTTCGAGTCTCATACTCTCTGAAGAAATAGGGAGCAGAC
1 ACGATTGTTGAAGATTGTTCGAGTCTCATACTCTCTGAAGAAATAGGGAGCAGAC
*
29401 ACGATTGTTGAAGATTGTTCGAGTCTCATACTCTCTTAAGAAATAGGGAGCAGAC
1 ACGATTGTTGAAGATTGTTCGAGTCTCATACTCTCTGAAGAAATAGGGAGCAGAC
* * * *
29456 ACGATTGATGAAGATTGTTCGAGTCTTATACTCTCTGAAGGAATGGGGAGCAGAC
1 ACGATTGTTGAAGATTGTTCGAGTCTCATACTCTCTGAAGAAATAGGGAGCAGAC
* * * *
29511 ACGATTGTTGAAAATTGTTCGAGTCTTATACTCTCTGCATAAATAGGGAGCAGAC
1 ACGATTGTTGAAGATTGTTCGAGTCTCATACTCTCTGAAGAAATAGGGAGCAGAC
* * * * *
29566 ACGACTGTTGAAGATTGTTGGAGTCTTACACTCTCTGCAGAAATAGGGAGCAGAC
1 ACGATTGTTGAAGATTGTTCGAGTCTCATACTCTCTGAAGAAATAGGGAGCAGAC
* * * *
29621 ACGATTGATGAAGATTGTTCAAGTCTTATACTCTCTGAAGGAATAGGGAGCAGAC
1 ACGATTGTTGAAGATTGTTCGAGTCTCATACTCTCTGAAGAAATAGGGAGCAGAC
* * * * * *
29676 ACGATTGATGAAGATTCTTCAAGT-TCCATACACCCT-AGAGAAAGAGGGAGC-GA-
1 ACGATTGTTGAAGATTGTTCGAGTCT-CATACTCTCTGA-AGAAATAGGGAGCAGAC
* * * *
29729 ACCCA--GTTGAAGA-TGTTCGAGT-TCCATACTC-CTTAAAGAAAGAAGGAGC-GAAC
1 A-CGATTGTTGAAGATTGTTCGAGTCT-CATACTCTC-TGAAGAAATAGGGAGCAG-AC
* * * *
29782 CCG--T-TTGAAGAGATGTTCGAGT-TCCATACTCCCT-AGAGAAATAGGGAAC-GA-
1 ACGATTGTTGAAGA-TTGTTCGAGTCT-CATACTCTCTGA-AGAAATAGGGAGCAGAC
* * *
29833 ACCCATTTGTTGAAGATTGTTCGAGTCTTATACTCTCTGAAGAAATAGGGGGCAGAC
1 A-CGA-TTGTTGAAGATTGTTCGAGTCTCATACTCTCTGAAGAAATAGGGAGCAGAC
* * *
29890 GCGATCGTTGAAGATTGTTCGAGTC-CTATACTCTCTGAAGAAATAGGGGGCAGAC
1 ACGATTGTTGAAGATTGTTCGAGTCTC-ATACTCTCTGAAGAAATAGGGAGCAGAC
* *
29945 AAGTTTGTTGAAGAT
1 ACGATTGTTGAAGAT
29960 GATCCAAGTC
Statistics
Matches: 481, Mismatches: 56, Indels: 44
0.83 0.10 0.08
Matches are distributed among these distances:
50 1 0.00
51 36 0.07
52 13 0.03
53 31 0.06
54 7 0.01
55 380 0.79
56 13 0.03
ACGTcount: A:0.31, C:0.17, G:0.25, T:0.27
Consensus pattern (55 bp):
ACGATTGTTGAAGATTGTTCGAGTCTCATACTCTCTGAAGAAATAGGGAGCAGAC
Found at i:29754 original size:51 final size:51
Alignment explanation
Indices: 29697--29858 Score: 200
Period size: 53 Copynumber: 3.1 Consensus size: 51
29687 AGATTCTTCA
*
29697 AGTTCCATACACCCTAGAGAAAGAGGGAGCGAACCCAGTTGAAGATGTTCG
1 AGTTCCATACTCCCTAGAGAAAGAGGGAGCGAACCCAGTTGAAGATGTTCG
* * *
29748 AGTTCCATACTCCTTAAAGAAAGAAGGAGCGAACCC-GTTTGAAGAGATGTTCG
1 AGTTCCATACTCCCTAGAGAAAGAGGGAGCGAACCCAG-TTG-A-AGATGTTCG
* *
29801 AGTTCCATACTCCCTAGAGAAATAGGGAACGAACCCATTTGTTGAAGATTGTTCG
1 AGTTCCATACTCCCTAGAGAAAGAGGGAGCGAACCCA---GTTGAAGA-TGTTCG
29856 AGT
1 AGT
29859 CTTATACTCT
Statistics
Matches: 94, Mismatches: 9, Indels: 12
0.82 0.08 0.10
Matches are distributed among these distances:
50 1 0.01
51 35 0.37
52 1 0.01
53 40 0.43
54 3 0.03
55 10 0.11
56 3 0.03
57 1 0.01
ACGTcount: A:0.33, C:0.20, G:0.25, T:0.23
Consensus pattern (51 bp):
AGTTCCATACTCCCTAGAGAAAGAGGGAGCGAACCCAGTTGAAGATGTTCG
Found at i:31565 original size:26 final size:26
Alignment explanation
Indices: 31529--31595 Score: 125
Period size: 26 Copynumber: 2.6 Consensus size: 26
31519 GTCTCGTACG
31529 CCAAAACGGCGTCGTCCCGTTTAGTT
1 CCAAAACGGCGTCGTCCCGTTTAGTT
31555 CCAAAACGGCGTCGTCCCGTTTAGTT
1 CCAAAACGGCGTCGTCCCGTTTAGTT
*
31581 CCAGAACGGCGTCGT
1 CCAAAACGGCGTCGT
31596 TTAGGTGGCC
Statistics
Matches: 40, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
26 40 1.00
ACGTcount: A:0.19, C:0.31, G:0.25, T:0.24
Consensus pattern (26 bp):
CCAAAACGGCGTCGTCCCGTTTAGTT
Found at i:35693 original size:15 final size:15
Alignment explanation
Indices: 35673--35816 Score: 128
Period size: 15 Copynumber: 9.0 Consensus size: 15
35663 TAATAAGGTT
35673 ATTTATTTTAAAATA
1 ATTTATTTTAAAATA
35688 ATTTATTTTAAAATA
1 ATTTATTTTAAAATA
*
35703 ATTTATTATAAAATA
1 ATTTATTTTAAAATA
**
35718 ATTTACCTTAAAATA
1 ATTTATTTTAAAATA
* *
35733 AATTATTATAAAATATGGA
1 ATTTATT-TTAAA-AT--A
35752 TTGATTTATTTTAAAATA
1 ---ATTTATTTTAAAATA
35770 ATTTA-TTTAAAATA
1 ATTTATTTTAAAATA
* *
35784 ATTTATTAGTATGAATTA
1 ATTTATT--T-TAAAATA
35802 ATTTATTTTAAAATA
1 ATTTATTTTAAAATA
35817 TGGATTGATT
Statistics
Matches: 104, Mismatches: 14, Indels: 22
0.74 0.10 0.16
Matches are distributed among these distances:
14 14 0.13
15 56 0.54
16 5 0.05
17 3 0.03
18 13 0.12
19 1 0.01
20 2 0.02
21 4 0.04
22 6 0.06
ACGTcount: A:0.47, C:0.01, G:0.03, T:0.49
Consensus pattern (15 bp):
ATTTATTTTAAAATA
Found at i:35818 original size:22 final size:22
Alignment explanation
Indices: 35793--35835 Score: 68
Period size: 22 Copynumber: 2.0 Consensus size: 22
35783 AATTTATTAG
35793 TATGAATTAATTTATTTTAAAA
1 TATGAATTAATTTATTTTAAAA
* *
35815 TATGGATTGATTTATTTTAAA
1 TATGAATTAATTTATTTTAAA
35836 TAATTTATTA
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
22 19 1.00
ACGTcount: A:0.40, C:0.00, G:0.09, T:0.51
Consensus pattern (22 bp):
TATGAATTAATTTATTTTAAAA
Found at i:35826 original size:69 final size:66
Alignment explanation
Indices: 35688--35845 Score: 223
Period size: 69 Copynumber: 2.3 Consensus size: 66
35678 TTTTAAAATA
35688 ATTTATTTTAAAATAATTTATTATAAAATAATTTACCTTAAAATAAATTATTATAAAATATGGAT
1 ATTTATTTTAAAATAATTTATTATAAAATAATTTA-CTTAAAATAAATTATTATAAAATATGGAT
35753 TG
65 TG
* *
35755 ATTTATTTTAAAATAATTTATT-TAAAATAATTTA-TTAGTATGAATTAATTTATTTTAAAATAT
1 ATTTATTTTAAAATAATTTATTATAAAATAATTTACTTA--A--AA-TAAATTATTATAAAATAT
35818 GGATTG
61 GGATTG
35824 ATTTATTTT-AAATAATTTATTA
1 ATTTATTTTAAAATAATTTATTA
35846 GTATGGATTG
Statistics
Matches: 83, Mismatches: 2, Indels: 10
0.87 0.02 0.11
Matches are distributed among these distances:
64 3 0.04
66 13 0.16
67 22 0.27
68 14 0.17
69 31 0.37
ACGTcount: A:0.44, C:0.01, G:0.05, T:0.49
Consensus pattern (66 bp):
ATTTATTTTAAAATAATTTATTATAAAATAATTTACTTAAAATAAATTATTATAAAATATGGATT
G
Found at i:35837 original size:54 final size:54
Alignment explanation
Indices: 35770--36397 Score: 523
Period size: 54 Copynumber: 11.4 Consensus size: 54
35760 TTTTAAAATA
* * *
35770 ATTTATTTAAAATAATTTATTAGTATGAATTAATTTATTTTAAAATATGGATTG
1 ATTTATTTTAAATAATTTATTAGTATGGATTGATTTATTTTAAAATATGGATTG
35824 ATTTATTTTAAATAATTTATTAGTATGGATTGATTTATTTTAAAATATGGATTG
1 ATTTATTTTAAATAATTTATTAGTATGGATTGATTTATTTTAAAATATGGATTG
35878 ATTTATTTTAAATAATTTATTAGTATGGATTGATTTATTTTAAAATATGGATTG
1 ATTTATTTTAAATAATTTATTAGTATGGATTGATTTATTTTAAAATATGGATTG
*
35932 ATTTA--TT--AT--TGTAGTT-GTATGGATTGATTTATTTTAAATAATTTATTAGTATGTATTG
1 ATTTATTTTAAATAATTTA-TTAGTATGGATTGATTTATTTT-AA-AA--TA-T-G---G-ATTG
* * *
35990 ATTTATTTTAAATAATTTATTTGTATGGATTGATTTATTTTAAAACATAGATTG
1 ATTTATTTTAAATAATTTATTAGTATGGATTGATTTATTTTAAAATATGGATTG
* ** * * * * * *
36044 ATTTATTAT-GGTAGTTGTA-T-GGATTGATTTATTTTAAATAATTTATTAGTATGGATTG
1 ATTTATTTTAAATAATT-TATTAGTATGGATTGA-TTT--AT--TTTA-AAATATGGATTG
** ** * ** * * *
36102 ATTTATTTTAAA-ATATGGATT-G-ATTTATTTTAAATAATTTATTAGTATGGATTG
1 ATTTATTTTAAATA-ATTTATTAGTATGGA-TTGATTTATTTTA-AAATATGGATTG
*
36156 ATTTATTTTAAATAATTTATTTGTATGGATTGATTTATTTTAAAATATGGATTG
1 ATTTATTTTAAATAATTTATTAGTATGGATTGATTTATTTTAAAATATGGATTG
**
36210 ATTTATTTTAAATAATTTATTAGTATGGATTGATTTATTTT-AAATAATTTATTAG
1 ATTTATTTTAAATAATTTATTAGTATGGATTGATTTATTTTAAAAT-ATGGATT-G
** * ** * * * *** *
36265 TATGGA-TTGATTTATTTTA-AAATATGGATTGATTTATTATTGTAGTGGTATGGATTA
1 -ATTTATTTTAAATAATTTATTAGTATGGATTGATTTA-T-TT-TA-AAATATGGATTG
36322 ATTTATTTTAAATAATTTATTAGTATGGATTGATTTATTTTAAAATATGGATTG
1 ATTTATTTTAAATAATTTATTAGTATGGATTGATTTATTTTAAAATATGGATTG
36376 ATTTATTTTAAATAATTTATTA
1 ATTTATTTTAAATAATTTATTA
36398 TTGTAGTTGT
Statistics
Matches: 465, Mismatches: 67, Indels: 84
0.75 0.11 0.14
Matches are distributed among these distances:
48 22 0.05
49 4 0.01
50 4 0.01
52 12 0.03
53 13 0.03
54 259 0.56
55 27 0.06
56 14 0.03
57 16 0.03
58 52 0.11
59 9 0.02
60 3 0.01
62 4 0.01
63 4 0.01
64 22 0.05
ACGTcount: A:0.34, C:0.00, G:0.13, T:0.52
Consensus pattern (54 bp):
ATTTATTTTAAATAATTTATTAGTATGGATTGATTTATTTTAAAATATGGATTG
Found at i:35855 original size:32 final size:32
Alignment explanation
Indices: 35815--35921 Score: 144
Period size: 32 Copynumber: 3.7 Consensus size: 32
35805 TATTTTAAAA
35815 TATGGATTGATTTATTTTAAATAATTTATTAG
1 TATGGATTGATTTATTTTAAATAATTTATTAG
35847 TATGGATTGATTTA-TTT---TAA---A--A-
1 TATGGATTGATTTATTTTAAATAATTTATTAG
35869 TATGGATTGATTTATTTTAAATAATTTATTAG
1 TATGGATTGATTTATTTTAAATAATTTATTAG
35901 TATGGATTGATTTATTTTAAA
1 TATGGATTGATTTATTTTAAA
35922 ATATGGATTG
Statistics
Matches: 65, Mismatches: 0, Indels: 20
0.76 0.00 0.24
Matches are distributed among these distances:
22 14 0.22
23 4 0.06
25 1 0.02
26 3 0.05
28 3 0.05
29 1 0.02
31 4 0.06
32 35 0.54
ACGTcount: A:0.35, C:0.00, G:0.13, T:0.52
Consensus pattern (32 bp):
TATGGATTGATTTATTTTAAATAATTTATTAG
Found at i:35872 original size:22 final size:22
Alignment explanation
Indices: 35847--35889 Score: 86
Period size: 22 Copynumber: 2.0 Consensus size: 22
35837 AATTTATTAG
35847 TATGGATTGATTTATTTTAAAA
1 TATGGATTGATTTATTTTAAAA
35869 TATGGATTGATTTATTTTAAA
1 TATGGATTGATTTATTTTAAA
35890 TAATTTATTA
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
22 21 1.00
ACGTcount: A:0.35, C:0.00, G:0.14, T:0.51
Consensus pattern (22 bp):
TATGGATTGATTTATTTTAAAA
Found at i:35990 original size:32 final size:32
Alignment explanation
Indices: 35948--36285 Score: 289
Period size: 32 Copynumber: 10.7 Consensus size: 32
35938 TATTGTAGTT
35948 GTATGGATTGATTTATTTTAAATAATTTATTA
1 GTATGGATTGATTTATTTTAAATAATTTATTA
* *
35980 GTATGTATTGATTTATTTTAAATAATTTATTT
1 GTATGGATTGATTTATTTTAAATAATTTATTA
*
36012 GTATGGATTGATTTATTTTAAAACATAGATTGATTTA
1 GTATGGATTGATTTATTTT--AA-ATA-ATTTA-TTA
* ** * *
36049 TTATGGTAGTTGTATGGATTGA-TTTATTTTAAATAATTTA
1 GTATGG-A-TTG-AT---TT-ATTTTA-AATAATTTA-TTA
* * * * *
36089 TTA-GTATGGATTGA-TTT--AT--TTTA-AA
1 GTATGGATTGATTTATTTTAAATAATTTATTA
*
36114 ATATGGATTGATTTATTTTAAATAATTTATTA
1 GTATGGATTGATTTATTTTAAATAATTTATTA
*
36146 GTATGGATTGATTTATTTTAAATAATTTATTT
1 GTATGGATTGATTTATTTTAAATAATTTATTA
36178 GTATGGATTGATTTA-TTT---TAA---A--A
1 GTATGGATTGATTTATTTTAAATAATTTATTA
36201 -TATGGATTGATTTATTTTAAATAATTTATTA
1 GTATGGATTGATTTATTTTAAATAATTTATTA
36232 GTATGGATTGATTTATTTTAAATAATTTATTA
1 GTATGGATTGATTTATTTTAAATAATTTATTA
36264 GTATGGATTGATTTATTTTAAA
1 GTATGGATTGATTTATTTTAAA
36286 ATATGGATTG
Statistics
Matches: 251, Mismatches: 25, Indels: 60
0.75 0.07 0.18
Matches are distributed among these distances:
22 14 0.06
23 3 0.01
25 4 0.02
26 11 0.04
27 5 0.02
28 3 0.01
29 4 0.02
31 8 0.03
32 151 0.60
33 1 0.00
34 2 0.01
35 3 0.01
36 6 0.02
37 9 0.04
38 2 0.01
39 4 0.02
40 12 0.05
41 3 0.01
43 5 0.02
44 1 0.00
ACGTcount: A:0.33, C:0.00, G:0.14, T:0.53
Consensus pattern (32 bp):
GTATGGATTGATTTATTTTAAATAATTTATTA
Found at i:36002 original size:166 final size:171
Alignment explanation
Indices: 35815--36397 Score: 835
Period size: 166 Copynumber: 3.5 Consensus size: 171
35805 TATTTTAAAA
35815 TATGGATTGATTTATTTTAAATAATTTATTAGTATGGATTGATTTATTTTAAAATATGGATTGAT
1 TATGGATTGATTTATTTTAAATAATTTATTAGTATGGATTGATTTATTTTAAAATATGGATTGAT
* * *
35880 TTATTTTAAATAATTTATTAGTATGGATTGATTTATTTT-AA-AA-TA-T-GGATTGATTTA-TT
66 TTATTTTAAATAATTTATTAGTATGGATTGATTTATTTTAAATAATTATTAGTATGGATTGATTT
* ***
35939 ATTGTAGTTGTATGGATTGATTTATTTTAAATAATTTATTAG
131 ATTTTA-AAATATGGATTGATTTATTTTAAATAATTTATTAG
* * * *
35981 TATGTATTGATTTATTTTAAATAATTTATTTGTATGGATTGATTTATTTTAAAACATAGATTGAT
1 TATGGATTGATTTATTTTAAATAATTTATTAGTATGGATTGATTTATTTTAAAATATGGATTGAT
**
36046 TTA--TT--AT--GGTAGTT-GTATGGATTGATTTATTTTAAATAATTTATTAGTATGGATTGAT
66 TTATTTTAAATAATTTA-TTAGTATGGATTGATTTATTTTAAATAA-TTATTAGTATGGATTGAT
36104 TTATTTTAAAATATGGATTGATTTATTTTAAATAATTTATTAG
129 TTATTTTAAAATATGGATTGATTTATTTTAAATAATTTATTAG
*
36147 TATGGATTGATTTATTTTAAATAATTTATTTGTATGGATTGATTTATTTTAAAATATGGATTGAT
1 TATGGATTGATTTATTTTAAATAATTTATTAGTATGGATTGATTTATTTTAAAATATGGATTGAT
36212 TTATTTTAAATAATTTATTAGTATGGATTGATTTATTTTAAATAATTTATTAGTATGGATTGATT
66 TTATTTTAAATAATTTATTAGTATGGATTGATTTATTTTAAATAA-TTATTAGTATGGATTGATT
* * *
36277 TATTTTAAAATATGGATTGATTTA--TT--AT--TGTAGTGG
130 TATTTTAAAATATGGATTGATTTATTTTAAATAATTTATTAG
*
36313 TATGGATTAATTTATTTTAAATAATTTATTAGTATGGATTGATTTATTTTAAAATATGGATTGAT
1 TATGGATTGATTTATTTTAAATAATTTATTAGTATGGATTGATTTATTTTAAAATATGGATTGAT
36378 TTATTTTAAATAATTTATTA
66 TTATTTTAAATAATTTATTA
36398 TTGTAGTTGT
Statistics
Matches: 379, Mismatches: 23, Indels: 30
0.88 0.05 0.07
Matches are distributed among these distances:
160 21 0.06
161 4 0.01
162 4 0.01
164 4 0.01
165 1 0.00
166 257 0.68
167 7 0.02
168 4 0.01
170 4 0.01
171 2 0.01
172 71 0.19
ACGTcount: A:0.33, C:0.00, G:0.14, T:0.52
Consensus pattern (171 bp):
TATGGATTGATTTATTTTAAATAATTTATTAGTATGGATTGATTTATTTTAAAATATGGATTGAT
TTATTTTAAATAATTTATTAGTATGGATTGATTTATTTTAAATAATTATTAGTATGGATTGATTT
ATTTTAAAATATGGATTGATTTATTTTAAATAATTTATTAG
Found at i:36118 original size:22 final size:22
Alignment explanation
Indices: 36093--36135 Score: 86
Period size: 22 Copynumber: 2.0 Consensus size: 22
36083 AATTTATTAG
36093 TATGGATTGATTTATTTTAAAA
1 TATGGATTGATTTATTTTAAAA
36115 TATGGATTGATTTATTTTAAA
1 TATGGATTGATTTATTTTAAA
36136 TAATTTATTA
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
22 21 1.00
ACGTcount: A:0.35, C:0.00, G:0.14, T:0.51
Consensus pattern (22 bp):
TATGGATTGATTTATTTTAAAA
Found at i:36204 original size:22 final size:22
Alignment explanation
Indices: 36179--36221 Score: 86
Period size: 22 Copynumber: 2.0 Consensus size: 22
36169 AATTTATTTG
36179 TATGGATTGATTTATTTTAAAA
1 TATGGATTGATTTATTTTAAAA
36201 TATGGATTGATTTATTTTAAA
1 TATGGATTGATTTATTTTAAA
36222 TAATTTATTA
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
22 21 1.00
ACGTcount: A:0.35, C:0.00, G:0.14, T:0.51
Consensus pattern (22 bp):
TATGGATTGATTTATTTTAAAA
Found at i:36361 original size:22 final size:22
Alignment explanation
Indices: 36345--36387 Score: 86
Period size: 22 Copynumber: 2.0 Consensus size: 22
36335 AATTTATTAG
36345 TATGGATTGATTTATTTTAAAA
1 TATGGATTGATTTATTTTAAAA
36367 TATGGATTGATTTATTTTAAA
1 TATGGATTGATTTATTTTAAA
36388 TAATTTATTA
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
22 21 1.00
ACGTcount: A:0.35, C:0.00, G:0.14, T:0.51
Consensus pattern (22 bp):
TATGGATTGATTTATTTTAAAA
Found at i:36447 original size:31 final size:31
Alignment explanation
Indices: 36412--36470 Score: 100
Period size: 31 Copynumber: 1.9 Consensus size: 31
36402 AGTTGTATGG
* *
36412 ATTATTTAAATTTCAGTATTGTAAAACTAAA
1 ATTATTTAAATCTCAGTATTGCAAAACTAAA
36443 ATTATTTAAATCTCAGTATTGCAAAACT
1 ATTATTTAAATCTCAGTATTGCAAAACT
36471 CTTTTAAGTT
Statistics
Matches: 26, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
31 26 1.00
ACGTcount: A:0.42, C:0.10, G:0.07, T:0.41
Consensus pattern (31 bp):
ATTATTTAAATCTCAGTATTGCAAAACTAAA
Found at i:37782 original size:26 final size:26
Alignment explanation
Indices: 37739--37802 Score: 112
Period size: 26 Copynumber: 2.5 Consensus size: 26
37729 TTCATCTTTA
37739 TTTA-TTATTTCACACTTTTAAGTTT
1 TTTATTTATTTCACACTTTTAAGTTT
*
37764 TTTATTTATTTCACCCTTTTAAGTTT
1 TTTATTTATTTCACACTTTTAAGTTT
37790 TTTATTTATTTCA
1 TTTATTTATTTCA
37803 AGATCGTCCT
Statistics
Matches: 37, Mismatches: 1, Indels: 1
0.95 0.03 0.03
Matches are distributed among these distances:
25 4 0.11
26 33 0.89
ACGTcount: A:0.22, C:0.12, G:0.03, T:0.62
Consensus pattern (26 bp):
TTTATTTATTTCACACTTTTAAGTTT
Found at i:42496 original size:4 final size:4
Alignment explanation
Indices: 42487--42513 Score: 54
Period size: 4 Copynumber: 6.8 Consensus size: 4
42477 TTCTACTATG
42487 TATT TATT TATT TATT TATT TATT TAT
1 TATT TATT TATT TATT TATT TATT TAT
42514 ATATGAATTA
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
4 23 1.00
ACGTcount: A:0.26, C:0.00, G:0.00, T:0.74
Consensus pattern (4 bp):
TATT
Found at i:42737 original size:2 final size:2
Alignment explanation
Indices: 42730--42765 Score: 72
Period size: 2 Copynumber: 18.0 Consensus size: 2
42720 AATTGAAAAT
42730 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
42766 ACCCACTCGT
Statistics
Matches: 34, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 34 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
TA
Found at i:55602 original size:430 final size:430
Alignment explanation
Indices: 54531--55801 Score: 2431
Period size: 430 Copynumber: 3.0 Consensus size: 430
54521 AAATTTTTAT
*
54531 CATTATTCATTTGTGTTCCTCAATTTTGACATGCAGTTTTTGCATTTATTTCATTTTAACCCATA
1 CATTATACATTTGTGTTCCTCAATTTTGACATGCAGTTTTTGCATTTATTTCATTTTAACCCATA
54596 TTATATTATACATGTTTATGTACGTAATATGTATGTGTGCATACATTATAGTTTTGGTTAAATTA
66 TTATATTATACATGTTTATGTACGTAATATGTATGTGTGCATACATTATAGTTTTGGTTAAATTA
54661 ATATATAATTATATGTAGTTATTATATATTTTTAAATATTATGCATATATTCAACACATAAAGGG
131 ATATATAATTATATGTAGTTATTATATATTTTTAAATATTATGCATATATTCAACACATAAAGGG
54726 GTTTATGTGGTCAATGAGAGTGTTGTTCCGCAGGGTAAGTGTATAATTTTT-A-ATAT-ATTATA
196 GTTTATGTGGTCAATGAGAGTGTTGTTCCGCAGGGTAAGTGTATAATTTTTAATATATAATTATA
*
54788 TGTAG---TTATATA----TAAATATTATGCATATATTCAACACATAAAGGGGTTTATTTCTGCA
261 TGTAGTTATTATATATTTTTAAATGTTATGCATATATTCAACACATAAAGGGGTTTATTTCTGCA
54846 GAGTAAGTGTATAATTTTCATAATTAAGAAAAATTATAAACAAAAATTGTTTTATACACCCTAGA
326 GAGTAAGTGTATAATTTTCATAATTAAGAAAAATTATAAACAAAAATTGTTTTATACACCCTAGA
54911 CTAATTG-A-ATATATATATATATATATTATGGTAAATTA
391 CTAATTGAATATATATATATATATATATTATGGTAAATTA
54949 CATTATACATTTGTGTTCCTCAATTTTGACATGCAGTTTTTGCATTTATTTCATTTTAACCCATA
1 CATTATACATTTGTGTTCCTCAATTTTGACATGCAGTTTTTGCATTTATTTCATTTTAACCCATA
55014 TTATATTATACATGTTTATGTACGTAATATGTATGTGTGCATACATTATAGTTTTGGTTAAATTA
66 TTATATTATACATGTTTATGTACGTAATATGTATGTGTGCATACATTATAGTTTTGGTTAAATTA
55079 ATATATAATTATATGTAGTTATTATATATTTTTAAATATTATGCATATATTCAACACATAAAGGG
131 ATATATAATTATATGTAGTTATTATATATTTTTAAATATTATGCATATATTCAACACATAAAGGG
55144 GTTTATGTGGTCAATGAGAGTGTTGTTCCGCAGGGTAAGTGTATAATTTTTAATATATAATTATA
196 GTTTATGTGGTCAATGAGAGTGTTGTTCCGCAGGGTAAGTGTATAATTTTTAATATATAATTATA
55209 TGTAGTTATTATATATTTTTAAATGTTATGCATATATTCAACACATAAAGGGGTTTATTTCTGCA
261 TGTAGTTATTATATATTTTTAAATGTTATGCATATATTCAACACATAAAGGGGTTTATTTCTGCA
55274 GAGTAAGTGTATAATTTTCATAATTAAGAAAAATTATAAACAAAAATTGTTTTATACACCCTAGA
326 GAGTAAGTGTATAATTTTCATAATTAAGAAAAATTATAAACAAAAATTGTTTTATACACCCTAGA
55339 CTAATTGAATATATATATATATATATATTATGGTAAATTA
391 CTAATTGAATATATATATATATATATATTATGGTAAATTA
55379 CATTATACATTTGTGTTCCTCAATTTTGACATGCAGTTTTTGCATTTATTTCATTTTAACCCATA
1 CATTATACATTTGTGTTCCTCAATTTTGACATGCAGTTTTTGCATTTATTTCATTTTAACCCATA
55444 TTATATTATACATGTTTATGTACGTAATATGTATGTGTGCATACATTATAGTTTTGGTTAAATTA
66 TTATATTATACATGTTTATGTACGTAATATGTATGTGTGCATACATTATAGTTTTGGTTAAATTA
55509 ATATATAATTATATGTAGTTATTATATATTTTTAAATATTATGCATATATTCAACACATAAAGGG
131 ATATATAATTATATGTAGTTATTATATATTTTTAAATATTATGCATATATTCAACACATAAAGGG
55574 GTTTATGTGGTCAATGAGAGTGTTGTTCCGCAGGGTAAGTGTATAATTTTTAATATATAATTATA
196 GTTTATGTGGTCAATGAGAGTGTTGTTCCGCAGGGTAAGTGTATAATTTTTAATATATAATTATA
55639 TGTAGTTATTATATATTTTTAAATGTTATGCATATATTCAACACATAAAGGGGTTTATTTCTGCA
261 TGTAGTTATTATATATTTTTAAATGTTATGCATATATTCAACACATAAAGGGGTTTATTTCTGCA
55704 GAGTAAGTGTATAATTTTCATAATTAAGAAAAATTATAAACAAAAATTGTTTTATACACCCTAGA
326 GAGTAAGTGTATAATTTTCATAATTAAGAAAAATTATAAACAAAAATTGTTTTATACACCCTAGA
55769 CTAATTGAATATATATATATATATATATATATG
391 CTAATTGAATATATATATATATATATAT-TATG
55802 TTTATGTATA
Statistics
Matches: 838, Mismatches: 2, Indels: 13
0.98 0.00 0.02
Matches are distributed among these distances:
418 245 0.29
419 1 0.00
420 4 0.00
421 11 0.01
424 7 0.01
428 117 0.14
429 1 0.00
430 448 0.53
431 4 0.00
ACGTcount: A:0.35, C:0.09, G:0.13, T:0.43
Consensus pattern (430 bp):
CATTATACATTTGTGTTCCTCAATTTTGACATGCAGTTTTTGCATTTATTTCATTTTAACCCATA
TTATATTATACATGTTTATGTACGTAATATGTATGTGTGCATACATTATAGTTTTGGTTAAATTA
ATATATAATTATATGTAGTTATTATATATTTTTAAATATTATGCATATATTCAACACATAAAGGG
GTTTATGTGGTCAATGAGAGTGTTGTTCCGCAGGGTAAGTGTATAATTTTTAATATATAATTATA
TGTAGTTATTATATATTTTTAAATGTTATGCATATATTCAACACATAAAGGGGTTTATTTCTGCA
GAGTAAGTGTATAATTTTCATAATTAAGAAAAATTATAAACAAAAATTGTTTTATACACCCTAGA
CTAATTGAATATATATATATATATATATTATGGTAAATTA
Found at i:66567 original size:26 final size:26
Alignment explanation
Indices: 66538--66588 Score: 102
Period size: 26 Copynumber: 2.0 Consensus size: 26
66528 AGGAAAGATG
66538 AAAACTTTATAATTTTATAAGCTTTT
1 AAAACTTTATAATTTTATAAGCTTTT
66564 AAAACTTTATAATTTTATAAGCTTT
1 AAAACTTTATAATTTTATAAGCTTT
66589 GTTCGGATTT
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
26 25 1.00
ACGTcount: A:0.39, C:0.08, G:0.04, T:0.49
Consensus pattern (26 bp):
AAAACTTTATAATTTTATAAGCTTTT
Found at i:68560 original size:40 final size:40
Alignment explanation
Indices: 68476--68563 Score: 99
Period size: 40 Copynumber: 2.2 Consensus size: 40
68466 TTCCACAAGC
* * * *
68476 TTCTAGAGAGTTCTACACTTCTCTAGAGTTCTCTGGAATG
1 TTCTAGAAAATTCTACACTTCTCCAGAGTTCTCTAGAATG
*
68516 TTCTAGAAAATTCTACACTTCTCCAGAAAG-T-TCTAGAATT
1 TTCTAGAAAATTCTACACTTCTCCAG--AGTTCTCTAGAATG
68556 TTCTAGAA
1 TTCTAGAA
68564 CCTCTCCAAT
Statistics
Matches: 41, Mismatches: 5, Indels: 4
0.82 0.10 0.08
Matches are distributed among these distances:
40 38 0.93
41 1 0.02
42 2 0.05
ACGTcount: A:0.30, C:0.19, G:0.15, T:0.36
Consensus pattern (40 bp):
TTCTAGAAAATTCTACACTTCTCCAGAGTTCTCTAGAATG
Found at i:68563 original size:20 final size:20
Alignment explanation
Indices: 68511--68563 Score: 52
Period size: 20 Copynumber: 2.6 Consensus size: 20
68501 GAGTTCTCTG
*
68511 GAATGTTCTAGAAAATTCTA
1 GAATTTTCTAGAAAATTCTA
* * * * *
68531 CACTTCTCCAGAAAGTTCTA
1 GAATTTTCTAGAAAATTCTA
68551 GAATTTTCTAGAA
1 GAATTTTCTAGAA
68564 CCTCTCCAAT
Statistics
Matches: 23, Mismatches: 10, Indels: 0
0.70 0.30 0.00
Matches are distributed among these distances:
20 23 1.00
ACGTcount: A:0.36, C:0.17, G:0.13, T:0.34
Consensus pattern (20 bp):
GAATTTTCTAGAAAATTCTA
Found at i:69550 original size:2 final size:2
Alignment explanation
Indices: 69543--69575 Score: 66
Period size: 2 Copynumber: 16.5 Consensus size: 2
69533 CCGAGTGAGC
69543 GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA G
1 GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA G
69576 GGCAGTTACC
Statistics
Matches: 31, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 31 1.00
ACGTcount: A:0.48, C:0.00, G:0.52, T:0.00
Consensus pattern (2 bp):
GA
Found at i:70038 original size:16 final size:16
Alignment explanation
Indices: 70017--70047 Score: 62
Period size: 16 Copynumber: 1.9 Consensus size: 16
70007 ATAAATAAAA
70017 GAACATAAACGAACAC
1 GAACATAAACGAACAC
70033 GAACATAAACGAACA
1 GAACATAAACGAACA
70048 ATTTTTTTTT
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 15 1.00
ACGTcount: A:0.58, C:0.23, G:0.13, T:0.06
Consensus pattern (16 bp):
GAACATAAACGAACAC
Found at i:70133 original size:16 final size:16
Alignment explanation
Indices: 70112--70170 Score: 82
Period size: 16 Copynumber: 3.7 Consensus size: 16
70102 CATTTAATAA
* *
70112 ATAAACGAACATGTAC
1 ATAAACGAACACGAAC
70128 ATAAACGAACACGAAC
1 ATAAACGAACACGAAC
* *
70144 ATAAATGAACACGAAG
1 ATAAACGAACACGAAC
70160 ATAAACGAACA
1 ATAAACGAACA
70171 TAAACATTGG
Statistics
Matches: 38, Mismatches: 5, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
16 38 1.00
ACGTcount: A:0.56, C:0.19, G:0.14, T:0.12
Consensus pattern (16 bp):
ATAAACGAACACGAAC
Found at i:70454 original size:11 final size:12
Alignment explanation
Indices: 70413--70455 Score: 54
Period size: 12 Copynumber: 3.7 Consensus size: 12
70403 AGCACGATTG
70413 AAGCTCGATTCT
1 AAGCTCGATTCT
70425 GAA-CTCGATTCT
1 -AAGCTCGATTCT
*
70437 GAGCTCGATT-T
1 AAGCTCGATTCT
70448 AAGCTCGA
1 AAGCTCGA
70456 CACTGCCCCA
Statistics
Matches: 27, Mismatches: 2, Indels: 4
0.82 0.06 0.12
Matches are distributed among these distances:
11 9 0.33
12 16 0.59
13 2 0.07
ACGTcount: A:0.26, C:0.23, G:0.21, T:0.30
Consensus pattern (12 bp):
AAGCTCGATTCT
Found at i:71338 original size:24 final size:24
Alignment explanation
Indices: 71302--71361 Score: 86
Period size: 24 Copynumber: 2.5 Consensus size: 24
71292 GATTGGGTTA
71302 AACATAAAT-GAATGAACATAAACG
1 AACAT-AATCGAATGAACATAAACG
*
71326 AACATAATCGAATGAATATAAACG
1 AACATAATCGAATGAACATAAACG
*
71350 AACATAACCGAA
1 AACATAATCGAA
71362 CGTTCATGAA
Statistics
Matches: 33, Mismatches: 2, Indels: 2
0.89 0.05 0.05
Matches are distributed among these distances:
23 3 0.09
24 30 0.91
ACGTcount: A:0.57, C:0.15, G:0.12, T:0.17
Consensus pattern (24 bp):
AACATAATCGAATGAACATAAACG
Found at i:71825 original size:14 final size:13
Alignment explanation
Indices: 71802--71915 Score: 68
Period size: 13 Copynumber: 9.2 Consensus size: 13
71792 ATATTTGATT
71802 TTAA-TTTTAATA
1 TTAATTTTTAATA
71814 TTAATTTTTTAATA
1 TTAA-TTTTTAATA
*
71828 --AA--TTAAATA
1 TTAATTTTTAATA
71837 TTAATTTTTAATA
1 TTAATTTTTAATA
*
71850 TT-ATATTATAGATA
1 TTAAT-TTTTA-ATA
*
71864 TTAA-TTTTAAAA
1 TTAATTTTTAATA
71876 TTAATTTTTTAA-A
1 TTAA-TTTTTAATA
* *
71889 -TAA-ATTAAATA
1 TTAATTTTTAATA
*
71900 TTAAATTTTAATA
1 TTAATTTTTAATA
71913 TTA
1 TTA
71916 TATTATAGAT
Statistics
Matches: 79, Mismatches: 9, Indels: 27
0.69 0.08 0.23
Matches are distributed among these distances:
9 6 0.08
10 4 0.05
11 3 0.04
12 20 0.25
13 26 0.33
14 19 0.24
15 1 0.01
ACGTcount: A:0.46, C:0.00, G:0.01, T:0.54
Consensus pattern (13 bp):
TTAATTTTTAATA
Found at i:71894 original size:63 final size:62
Alignment explanation
Indices: 71770--71936 Score: 246
Period size: 63 Copynumber: 2.6 Consensus size: 62
71760 AAGAGGTTTT
* * *
71770 ATATTTAATTTT-ATATTATATTATATTTGATTTTAATTTTAATATTAATTTTTTAATAAATTAA
1 ATATTAAATTTTAATATTATATTATA---GATATTAATTTTAAAATTAATTTTTTAATAAATTAA
*
71834 ATATTAATTTTTAATATTATATTATAGATATTAATTTTAAAATTAATTTTTTAAATAAATTAA
1 ATATTAAATTTTAATATTATATTATAGATATTAATTTTAAAATTAATTTTTT-AATAAATTAA
71897 ATATTAAATTTTAATATTATATTATAGATATTTAATTTTA
1 ATATTAAATTTTAATATTATATTATAGATA-TTAATTTTA
71937 TATCATATTA
Statistics
Matches: 95, Mismatches: 5, Indels: 6
0.90 0.05 0.06
Matches are distributed among these distances:
62 24 0.25
63 39 0.41
64 19 0.20
65 13 0.14
ACGTcount: A:0.43, C:0.00, G:0.02, T:0.56
Consensus pattern (62 bp):
ATATTAAATTTTAATATTATATTATAGATATTAATTTTAAAATTAATTTTTTAATAAATTAA
Found at i:71946 original size:26 final size:27
Alignment explanation
Indices: 71897--71947 Score: 77
Period size: 26 Copynumber: 1.9 Consensus size: 27
71887 AATAAATTAA
*
71897 ATATTAAATTTTAATATTATATTATAG
1 ATATTAAATTTTAATATCATATTATAG
*
71924 ATATTTAATTTT-ATATCATATTAT
1 ATATTAAATTTTAATATCATATTAT
71948 TTTTTATATT
Statistics
Matches: 22, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
26 11 0.50
27 11 0.50
ACGTcount: A:0.41, C:0.02, G:0.02, T:0.55
Consensus pattern (27 bp):
ATATTAAATTTTAATATCATATTATAG
Found at i:71968 original size:16 final size:16
Alignment explanation
Indices: 71925--71978 Score: 56
Period size: 17 Copynumber: 3.3 Consensus size: 16
71915 ATATTATAGA
71925 TATTT-AATTTTATAT
1 TATTTAAATTTTATAT
* **
71940 CATATTATTTTTTATAT
1 TAT-TTAAATTTTATAT
71957 TATTTAAATTTTATATT
1 TATTTAAATTTTATA-T
71974 TATTT
1 TATTT
71979 TTGATTTAAG
Statistics
Matches: 30, Mismatches: 6, Indels: 4
0.75 0.15 0.10
Matches are distributed among these distances:
15 2 0.07
16 12 0.40
17 16 0.53
ACGTcount: A:0.31, C:0.02, G:0.00, T:0.67
Consensus pattern (16 bp):
TATTTAAATTTTATAT
Found at i:72257 original size:25 final size:24
Alignment explanation
Indices: 72221--72268 Score: 62
Period size: 25 Copynumber: 2.0 Consensus size: 24
72211 ATATTTTCTA
*
72221 AAAATATCATATA-ATTATAAAAAT
1 AAAATATAATATATATT-TAAAAAT
72245 AAAATATGAATATATATTTAAAAA
1 AAAATAT-AATATATATTTAAAAA
72269 AATTAAAAGT
Statistics
Matches: 21, Mismatches: 1, Indels: 3
0.84 0.04 0.12
Matches are distributed among these distances:
24 7 0.33
25 11 0.52
26 3 0.14
ACGTcount: A:0.62, C:0.02, G:0.02, T:0.33
Consensus pattern (24 bp):
AAAATATAATATATATTTAAAAAT
Found at i:72482 original size:31 final size:31
Alignment explanation
Indices: 72445--72504 Score: 111
Period size: 31 Copynumber: 1.9 Consensus size: 31
72435 TAGTTGTATG
*
72445 AATTATTTAAATTTCAGTATTGTAAAACTAA
1 AATTATTTAAATTTCAGTATTGCAAAACTAA
72476 AATTATTTAAATTTCAGTATTGCAAAACT
1 AATTATTTAAATTTCAGTATTGCAAAACT
72505 CTTTTAAGTT
Statistics
Matches: 28, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
31 28 1.00
ACGTcount: A:0.43, C:0.08, G:0.07, T:0.42
Consensus pattern (31 bp):
AATTATTTAAATTTCAGTATTGCAAAACTAA
Found at i:74587 original size:42 final size:42
Alignment explanation
Indices: 74528--74612 Score: 170
Period size: 42 Copynumber: 2.0 Consensus size: 42
74518 TTACAAAATG
74528 ATAACCTAATTATTCATTTATTACAAACTCATCATTTTTGTT
1 ATAACCTAATTATTCATTTATTACAAACTCATCATTTTTGTT
74570 ATAACCTAATTATTCATTTATTACAAACTCATCATTTTTGTT
1 ATAACCTAATTATTCATTTATTACAAACTCATCATTTTTGTT
74612 A
1 A
74613 ATAAAATTGA
Statistics
Matches: 43, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
42 43 1.00
ACGTcount: A:0.34, C:0.16, G:0.02, T:0.47
Consensus pattern (42 bp):
ATAACCTAATTATTCATTTATTACAAACTCATCATTTTTGTT
Found at i:83270 original size:30 final size:30
Alignment explanation
Indices: 83236--83296 Score: 122
Period size: 30 Copynumber: 2.0 Consensus size: 30
83226 TTAGTTGGAG
83236 AAGGTGATTATATGTTGATGGAATTGGTTT
1 AAGGTGATTATATGTTGATGGAATTGGTTT
83266 AAGGTGATTATATGTTGATGGAATTGGTTT
1 AAGGTGATTATATGTTGATGGAATTGGTTT
83296 A
1 A
83297 TTCTTCTGGA
Statistics
Matches: 31, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
30 31 1.00
ACGTcount: A:0.28, C:0.00, G:0.30, T:0.43
Consensus pattern (30 bp):
AAGGTGATTATATGTTGATGGAATTGGTTT
Done.