Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: VEPZ01006197.1 Hibiscus syriacus cultivar Beakdansim tig00014753_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: 150453
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
Found at i:9995 original size:29 final size:29
Alignment explanation
Indices: 9963--10062 Score: 96
Period size: 29 Copynumber: 3.4 Consensus size: 29
9953 AATTAAATGT
*
9963 TAGAATTTAAAGGACTAAAAAGTAAATAC
1 TAGAAATTAAAGGACTAAAAAGTAAATAC
* * *
9992 TAGAAATTAAAGAACT-GAAATTGAAATAC
1 TAGAAATTAAAGGACTAAAAAGT-AAATAC
* * * *
10021 TAAAAATTAAAGGGC-ATAAATGTAAATAA
1 TAGAAATTAAAGGACTA-AAAAGTAAATAC
10050 TAGAAATTAAAGG
1 TAGAAATTAAAGG
10063 TTCAGTTTTT
Statistics
Matches: 56, Mismatches: 12, Indels: 6
0.76 0.16 0.08
Matches are distributed among these distances:
28 4 0.07
29 49 0.88
30 3 0.05
ACGTcount: A:0.56, C:0.05, G:0.15, T:0.24
Consensus pattern (29 bp):
TAGAAATTAAAGGACTAAAAAGTAAATAC
Found at i:10002 original size:14 final size:14
Alignment explanation
Indices: 9952--10031 Score: 54
Period size: 14 Copynumber: 5.6 Consensus size: 14
9942 AAAATGAATA
**
9952 AAATTAAATGTTAG
1 AAATTAAATACTAG
* * *
9966 AATTTAAAGGACTAA
1 AAATTAAA-TACTAG
*
9981 AAAGTAAATACTAG
1 AAATTAAATACTAG
*
9995 AAATTAAAGAACT-G
1 AAATTAAA-TACTAG
*
10009 AAATTGAAATACTAA
1 AAATT-AAATACTAG
10024 AAATTAAA
1 AAATTAAA
10032 GGGCATAAAT
Statistics
Matches: 49, Mismatches: 13, Indels: 8
0.70 0.19 0.11
Matches are distributed among these distances:
14 30 0.61
15 19 0.39
ACGTcount: A:0.57, C:0.05, G:0.11, T:0.26
Consensus pattern (14 bp):
AAATTAAATACTAG
Found at i:10293 original size:6 final size:6
Alignment explanation
Indices: 10282--10307 Score: 52
Period size: 6 Copynumber: 4.3 Consensus size: 6
10272 GAACAACAAG
10282 TTAAAA TTAAAA TTAAAA TTAAAA TT
1 TTAAAA TTAAAA TTAAAA TTAAAA TT
10308 GAATCATAAT
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 20 1.00
ACGTcount: A:0.62, C:0.00, G:0.00, T:0.38
Consensus pattern (6 bp):
TTAAAA
Found at i:12185 original size:20 final size:20
Alignment explanation
Indices: 12160--12200 Score: 82
Period size: 20 Copynumber: 2.0 Consensus size: 20
12150 ACGAACACGA
12160 ACGAACGAACATAAACGAAC
1 ACGAACGAACATAAACGAAC
12180 ACGAACGAACATAAACGAAC
1 ACGAACGAACATAAACGAAC
12200 A
1 A
12201 ACACAAAAAA
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 21 1.00
ACGTcount: A:0.56, C:0.24, G:0.15, T:0.05
Consensus pattern (20 bp):
ACGAACGAACATAAACGAAC
Found at i:19777 original size:22 final size:22
Alignment explanation
Indices: 19752--19795 Score: 63
Period size: 21 Copynumber: 2.0 Consensus size: 22
19742 TTTTGTTTGG
19752 ATTGAAAGAAAAACTGG-AGGAA
1 ATTG-AAGAAAAACTGGAAGGAA
*
19774 ATTGGAGAAAAACTGGAAGGAA
1 ATTGAAGAAAAACTGGAAGGAA
19796 GTTAATGGGG
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
21 11 0.55
22 9 0.45
ACGTcount: A:0.52, C:0.05, G:0.30, T:0.14
Consensus pattern (22 bp):
ATTGAAGAAAAACTGGAAGGAA
Found at i:24463 original size:19 final size:20
Alignment explanation
Indices: 24420--24467 Score: 62
Period size: 20 Copynumber: 2.5 Consensus size: 20
24410 GTGACTGCAT
* * *
24420 TATCGATACTGACCCTTGGG
1 TATCGATACTCACCCTAGAG
24440 TATCGATACTCACCC-AGAG
1 TATCGATACTCACCCTAGAG
24459 TATCGATAC
1 TATCGATAC
24468 AAGAAATAGT
Statistics
Matches: 25, Mismatches: 3, Indels: 1
0.86 0.10 0.03
Matches are distributed among these distances:
19 11 0.44
20 14 0.56
ACGTcount: A:0.27, C:0.27, G:0.19, T:0.27
Consensus pattern (20 bp):
TATCGATACTCACCCTAGAG
Found at i:33806 original size:9 final size:9
Alignment explanation
Indices: 33792--33825 Score: 59
Period size: 9 Copynumber: 3.8 Consensus size: 9
33782 ACACTTCTCC
33792 CATTTAAAA
1 CATTTAAAA
*
33801 CATTTAACA
1 CATTTAAAA
33810 CATTTAAAA
1 CATTTAAAA
33819 CATTTAA
1 CATTTAA
33826 CACTTCTCCC
Statistics
Matches: 23, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
9 23 1.00
ACGTcount: A:0.50, C:0.15, G:0.00, T:0.35
Consensus pattern (9 bp):
CATTTAAAA
Found at i:33813 original size:18 final size:18
Alignment explanation
Indices: 33792--33828 Score: 74
Period size: 18 Copynumber: 2.1 Consensus size: 18
33782 ACACTTCTCC
33792 CATTTAAAACATTTAACA
1 CATTTAAAACATTTAACA
33810 CATTTAAAACATTTAACA
1 CATTTAAAACATTTAACA
33828 C
1 C
33829 TTCTCCCCCT
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
18 19 1.00
ACGTcount: A:0.49, C:0.19, G:0.00, T:0.32
Consensus pattern (18 bp):
CATTTAAAACATTTAACA
Found at i:39925 original size:22 final size:21
Alignment explanation
Indices: 39883--39922 Score: 55
Period size: 21 Copynumber: 1.9 Consensus size: 21
39873 GAGTTTATTT
*
39883 TCATTTTTCAATTTTGAAACA
1 TCATTTTTCAATTTTAAAACA
39904 TCATTTTT-ATATTTTAAAA
1 TCATTTTTCA-ATTTTAAAA
39923 ACAATTTCTC
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
20 1 0.06
21 16 0.94
ACGTcount: A:0.35, C:0.10, G:0.03, T:0.53
Consensus pattern (21 bp):
TCATTTTTCAATTTTAAAACA
Found at i:50249 original size:115 final size:115
Alignment explanation
Indices: 50033--50291 Score: 475
Period size: 115 Copynumber: 2.3 Consensus size: 115
50023 TACTTTCGGT
* * *
50033 ACTAAAGGTGCAA-TCATGGTATTCATAATGTGTTTTTAAATCACATTTCGATATACATGTGTAT
1 ACTAAAAGTGCAACCCATGGAATTCATAATGTGTTTTTAAATCACATTTCGATATACATGTGTAT
50097 ATAAAAGCTATCAATCGATTTTGTTTAATGTATAATGGTGCATTTTCAGC
66 ATAAAAGCTATCAATCGATTTTGTTTAATGTATAATGGTGCATTTTCAGC
50147 ACTAAAAGTGCAACCCATGGAATTCATAATGTGTTTTTAAATCACATTTCGATATACATGTGTAT
1 ACTAAAAGTGCAACCCATGGAATTCATAATGTGTTTTTAAATCACATTTCGATATACATGTGTAT
*
50212 ATAAAAGCTATCAATCGATTTTGTTTAATGTATAATGGTGCATTTTCGGC
66 ATAAAAGCTATCAATCGATTTTGTTTAATGTATAATGGTGCATTTTCAGC
50262 ACTAAAAGTGCAACCCATGGAATTCATAAT
1 ACTAAAAGTGCAACCCATGGAATTCATAAT
50292 AAGTTTATGA
Statistics
Matches: 140, Mismatches: 4, Indels: 1
0.97 0.03 0.01
Matches are distributed among these distances:
114 12 0.09
115 128 0.91
ACGTcount: A:0.34, C:0.14, G:0.15, T:0.37
Consensus pattern (115 bp):
ACTAAAAGTGCAACCCATGGAATTCATAATGTGTTTTTAAATCACATTTCGATATACATGTGTAT
ATAAAAGCTATCAATCGATTTTGTTTAATGTATAATGGTGCATTTTCAGC
Found at i:52382 original size:22 final size:22
Alignment explanation
Indices: 52356--52397 Score: 59
Period size: 22 Copynumber: 1.9 Consensus size: 22
52346 GTTACATTAA
*
52356 GAAGTG-GCTTCAAGTATTATGT
1 GAAGTGCGATTCAAGT-TTATGT
52378 GAAGTGCGATTCAAGTTTAT
1 GAAGTGCGATTCAAGTTTAT
52398 ATGTTTATTT
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
22 10 0.56
23 8 0.44
ACGTcount: A:0.29, C:0.10, G:0.26, T:0.36
Consensus pattern (22 bp):
GAAGTGCGATTCAAGTTTATGT
Found at i:53104 original size:18 final size:18
Alignment explanation
Indices: 53083--53141 Score: 75
Period size: 18 Copynumber: 3.3 Consensus size: 18
53073 TGATATTTAC
53083 AGTTATTAGATGATTTTT
1 AGTTATTAGATGATTTTT
*
53101 AGTTATTAGAT-ATTTAT
1 AGTTATTAGATGATTTTT
* * *
53118 AGTTATCATATGATTTTC
1 AGTTATTAGATGATTTTT
53136 AGTTAT
1 AGTTAT
53142 CAAATGTTTA
Statistics
Matches: 35, Mismatches: 5, Indels: 2
0.83 0.12 0.05
Matches are distributed among these distances:
17 14 0.40
18 21 0.60
ACGTcount: A:0.31, C:0.03, G:0.14, T:0.53
Consensus pattern (18 bp):
AGTTATTAGATGATTTTT
Found at i:53120 original size:17 final size:17
Alignment explanation
Indices: 53074--53123 Score: 73
Period size: 18 Copynumber: 2.9 Consensus size: 17
53064 GCCCAAGTAT
*
53074 GATATTTACAGTTATTA
1 GATATTTATAGTTATTA
*
53091 GATGATTTTTAGTTATTA
1 GAT-ATTTATAGTTATTA
53109 GATATTTATAGTTAT
1 GATATTTATAGTTAT
53124 CATATGATTT
Statistics
Matches: 29, Mismatches: 3, Indels: 2
0.85 0.09 0.06
Matches are distributed among these distances:
17 14 0.48
18 15 0.52
ACGTcount: A:0.32, C:0.02, G:0.14, T:0.52
Consensus pattern (17 bp):
GATATTTATAGTTATTA
Found at i:53122 original size:35 final size:35
Alignment explanation
Indices: 53074--53164 Score: 119
Period size: 35 Copynumber: 2.6 Consensus size: 35
53064 GCCCAAGTAT
* * *
53074 GATATTTACAGTTATTAGATGATTTTTAGTTATTA
1 GATATTTACAGTTATCAGATGATTTTCAGTTATCA
* *
53109 GATATTTATAGTTATCATATGATTTTCAGTTATCA
1 GATATTTACAGTTATCAGATGATTTTCAGTTATCA
* *
53144 AATGTTTACAGTTATCAGATG
1 GATATTTACAGTTATCAGATG
53165 TAGATTAATA
Statistics
Matches: 47, Mismatches: 9, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
35 47 1.00
ACGTcount: A:0.32, C:0.07, G:0.14, T:0.47
Consensus pattern (35 bp):
GATATTTACAGTTATCAGATGATTTTCAGTTATCA
Found at i:53142 original size:18 final size:18
Alignment explanation
Indices: 53072--53164 Score: 84
Period size: 17 Copynumber: 5.2 Consensus size: 18
53062 CTGCCCAAGT
*
53072 ATGATATTTACAGTTATTAG
1 ATGAT-TTT-CAGTTATCAG
* *
53092 ATGATTTTTAGTTATTAG
1 ATGATTTTCAGTTATCAG
*
53110 AT-ATTTAT-AGTTATCAT
1 ATGATTT-TCAGTTATCAG
*
53127 ATGATTTTCAGTTATCAA
1 ATGATTTTCAGTTATCAG
*
53145 ATG-TTTACAGTTATCAG
1 ATGATTTTCAGTTATCAG
53162 ATG
1 ATG
53165 TAGATTAATA
Statistics
Matches: 64, Mismatches: 6, Indels: 9
0.81 0.08 0.11
Matches are distributed among these distances:
17 29 0.45
18 27 0.42
19 3 0.05
20 5 0.08
ACGTcount: A:0.32, C:0.06, G:0.14, T:0.47
Consensus pattern (18 bp):
ATGATTTTCAGTTATCAG
Found at i:53662 original size:16 final size:16
Alignment explanation
Indices: 53641--53675 Score: 54
Period size: 16 Copynumber: 2.2 Consensus size: 16
53631 CAGTTTGAAG
53641 TTTAAATTATT-TTTTA
1 TTTAAATT-TTATTTTA
53657 TTTAAATTTTATTTTA
1 TTTAAATTTTATTTTA
53673 TTT
1 TTT
53676 TTTATATTTT
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
15 2 0.11
16 16 0.89
ACGTcount: A:0.29, C:0.00, G:0.00, T:0.71
Consensus pattern (16 bp):
TTTAAATTTTATTTTA
Found at i:53684 original size:19 final size:18
Alignment explanation
Indices: 53647--53687 Score: 55
Period size: 19 Copynumber: 2.2 Consensus size: 18
53637 GAAGTTTAAA
53647 TTATTTTTTATTTAAATT
1 TTATTTTTTATTTAAATT
* *
53665 TTATTTTATTTTTTATATT
1 TTATTTT-TTATTTAAATT
53684 TTAT
1 TTAT
53688 GGATTTTATG
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
18 7 0.35
19 13 0.65
ACGTcount: A:0.24, C:0.00, G:0.00, T:0.76
Consensus pattern (18 bp):
TTATTTTTTATTTAAATT
Found at i:54874 original size:34 final size:30
Alignment explanation
Indices: 54836--54904 Score: 95
Period size: 30 Copynumber: 2.2 Consensus size: 30
54826 TTGATATAAC
54836 AATTTAAGGCAAAATGGTTTTTGGACTTGAATTG
1 AATTTAA--CAAAAT-GTTTTTGGACTT-AATTG
54870 AATTT-ACAAAATGTTTTTGGACTTAATTG
1 AATTTAACAAAATGTTTTTGGACTTAATTG
54899 AATTTA
1 AATTTA
54905 TTCAAAGTTT
Statistics
Matches: 34, Mismatches: 0, Indels: 6
0.85 0.00 0.15
Matches are distributed among these distances:
29 10 0.29
30 12 0.35
31 6 0.18
33 1 0.03
34 5 0.15
ACGTcount: A:0.35, C:0.06, G:0.17, T:0.42
Consensus pattern (30 bp):
AATTTAACAAAATGTTTTTGGACTTAATTG
Found at i:54915 original size:29 final size:30
Alignment explanation
Indices: 54845--54904 Score: 104
Period size: 30 Copynumber: 2.0 Consensus size: 30
54835 CAATTTAAGG
54845 CAAAATGGTTTTTGGACTTGAATTGAATTTA
1 CAAAAT-GTTTTTGGACTTGAATTGAATTTA
54876 CAAAATGTTTTTGGACTT-AATTGAATTTA
1 CAAAATGTTTTTGGACTTGAATTGAATTTA
54905 TTCAAAGTTT
Statistics
Matches: 29, Mismatches: 0, Indels: 2
0.94 0.00 0.06
Matches are distributed among these distances:
29 11 0.38
30 12 0.41
31 6 0.21
ACGTcount: A:0.33, C:0.07, G:0.17, T:0.43
Consensus pattern (30 bp):
CAAAATGTTTTTGGACTTGAATTGAATTTA
Found at i:55010 original size:21 final size:21
Alignment explanation
Indices: 54984--55082 Score: 112
Period size: 21 Copynumber: 4.7 Consensus size: 21
54974 AGGGTGTCAA
54984 AGTGCATCCATGCACCCCTAC
1 AGTGCATCCATGCACCCCTAC
* *
55005 AGTGCATCCATGCATCCCTGC
1 AGTGCATCCATGCACCCCTAC
*
55026 AGTGCATCCATGCACCTGC-AC
1 AGTGCATCCATGCACC-CCTAC
* * *
55047 TAGTGCATCGATGCA-CCATGC
1 -AGTGCATCCATGCACCCCTAC
55068 AGTGCATCCATGCAC
1 AGTGCATCCATGCAC
55083 TCAAACACCG
Statistics
Matches: 64, Mismatches: 10, Indels: 8
0.78 0.12 0.10
Matches are distributed among these distances:
20 13 0.20
21 37 0.58
22 14 0.22
ACGTcount: A:0.23, C:0.36, G:0.19, T:0.21
Consensus pattern (21 bp):
AGTGCATCCATGCACCCCTAC
Found at i:55069 original size:42 final size:42
Alignment explanation
Indices: 54984--55082 Score: 139
Period size: 42 Copynumber: 2.4 Consensus size: 42
54974 AGGGTGTCAA
*
54984 AGTGCATCCATGCACCCCTACAGTGCATCCATGCATCCCTGC
1 AGTGCATCCATGCACCCCTACAGTGCATCCATGCATCCATGC
* *
55026 AGTGCATCCATGCACCTGC-ACTAGTGCATCGATGCA-CCATGC
1 AGTGCATCCATGCACC-CCTAC-AGTGCATCCATGCATCCATGC
55068 AGTGCATCCATGCAC
1 AGTGCATCCATGCAC
55083 TCAAACACCG
Statistics
Matches: 52, Mismatches: 3, Indels: 4
0.88 0.05 0.07
Matches are distributed among these distances:
42 38 0.73
43 14 0.27
ACGTcount: A:0.23, C:0.36, G:0.19, T:0.21
Consensus pattern (42 bp):
AGTGCATCCATGCACCCCTACAGTGCATCCATGCATCCATGC
Found at i:55128 original size:20 final size:19
Alignment explanation
Indices: 55099--55137 Score: 60
Period size: 20 Copynumber: 2.0 Consensus size: 19
55089 ACCGAATACA
55099 CTTAGTGCATCAATGCATC
1 CTTAGTGCATCAATGCATC
*
55118 CTTATGTGCATCGATGCATC
1 CTTA-GTGCATCAATGCATC
55138 AAGGCTGTGC
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
19 4 0.22
20 14 0.78
ACGTcount: A:0.23, C:0.26, G:0.18, T:0.33
Consensus pattern (19 bp):
CTTAGTGCATCAATGCATC
Found at i:55150 original size:41 final size:41
Alignment explanation
Indices: 55103--55185 Score: 109
Period size: 41 Copynumber: 2.0 Consensus size: 41
55093 AATACACTTA
*
55103 GTGCATC-AATGCATCCT-TATGTGCATCGATGCATC-AAGGCT
1 GTGCATCGAAT-CATCCTGT-TGTGCATCCATGCA-CGAAGGCT
55144 GTGCATCGAATCATCCTGTTGTGCATCCATGCACGAAGGCT
1 GTGCATCGAATCATCCTGTTGTGCATCCATGCACGAAGGCT
55185 G
1 G
55186 CAATGGCTAG
Statistics
Matches: 38, Mismatches: 1, Indels: 6
0.84 0.02 0.13
Matches are distributed among these distances:
40 1 0.03
41 33 0.87
42 4 0.11
ACGTcount: A:0.23, C:0.25, G:0.24, T:0.28
Consensus pattern (41 bp):
GTGCATCGAATCATCCTGTTGTGCATCCATGCACGAAGGCT
Found at i:58339 original size:34 final size:30
Alignment explanation
Indices: 58300--58368 Score: 95
Period size: 30 Copynumber: 2.2 Consensus size: 30
58290 TTGGTATAAC
58300 AATTTAAGGCAAAATGGTTTTTGGACTTGAATTG
1 AATTTAA--CAAAAT-GTTTTTGGACTT-AATTG
58334 AATTT-ACAAAATGTTTTTGGACTTAATTG
1 AATTTAACAAAATGTTTTTGGACTTAATTG
58363 AATTTA
1 AATTTA
58369 TTCAAAATTT
Statistics
Matches: 34, Mismatches: 0, Indels: 6
0.85 0.00 0.15
Matches are distributed among these distances:
29 10 0.29
30 12 0.35
31 6 0.18
33 1 0.03
34 5 0.15
ACGTcount: A:0.35, C:0.06, G:0.17, T:0.42
Consensus pattern (30 bp):
AATTTAACAAAATGTTTTTGGACTTAATTG
Found at i:58376 original size:31 final size:31
Alignment explanation
Indices: 58309--58368 Score: 106
Period size: 30 Copynumber: 2.0 Consensus size: 31
58299 CAATTTAAGG
58309 CAAAATGGTTTTTGGACTTGAATTGAATTTA
1 CAAAATGGTTTTTGGACTTGAATTGAATTTA
58340 CAAAAT-GTTTTTGGACTT-AATTGAATTTA
1 CAAAATGGTTTTTGGACTTGAATTGAATTTA
58369 TTCAAAATTT
Statistics
Matches: 29, Mismatches: 0, Indels: 2
0.94 0.00 0.06
Matches are distributed among these distances:
29 11 0.38
30 12 0.41
31 6 0.21
ACGTcount: A:0.33, C:0.07, G:0.17, T:0.43
Consensus pattern (31 bp):
CAAAATGGTTTTTGGACTTGAATTGAATTTA
Found at i:58474 original size:21 final size:21
Alignment explanation
Indices: 58448--58505 Score: 107
Period size: 21 Copynumber: 2.8 Consensus size: 21
58438 AGGGTGTCAA
58448 AGTGCATCCATGCACCCCTGC
1 AGTGCATCCATGCACCCCTGC
*
58469 AGTGCATCCATGCATCCCTGC
1 AGTGCATCCATGCACCCCTGC
58490 AGTGCATCCATGCACC
1 AGTGCATCCATGCACC
58506 TGCACTAGTG
Statistics
Matches: 35, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
21 35 1.00
ACGTcount: A:0.21, C:0.40, G:0.19, T:0.21
Consensus pattern (21 bp):
AGTGCATCCATGCACCCCTGC
Found at i:58536 original size:42 final size:41
Alignment explanation
Indices: 58448--58546 Score: 112
Period size: 42 Copynumber: 2.4 Consensus size: 41
58438 AGGGTGTCAA
*
58448 AGTGCATCCATGCACCCCTGCAGTGCATCCATGCATCCCTGC
1 AGTGCATCCATGCACCCCT-CAGTGCATCCATGCATCCATGC
** *
58490 AGTGCATCCATGCACCTGCACT-AGTGCATTGATGCA-CCATGT
1 AGTGCATCCATGCACC--C-CTCAGTGCATCCATGCATCCATGC
58532 AGTGCATCCATGCAC
1 AGTGCATCCATGCAC
58547 TCAAACACCG
Statistics
Matches: 50, Mismatches: 4, Indels: 6
0.83 0.07 0.10
Matches are distributed among these distances:
42 35 0.70
43 12 0.24
44 1 0.02
45 2 0.04
ACGTcount: A:0.22, C:0.34, G:0.20, T:0.23
Consensus pattern (41 bp):
AGTGCATCCATGCACCCCTCAGTGCATCCATGCATCCATGC
Found at i:58592 original size:20 final size:19
Alignment explanation
Indices: 58563--58601 Score: 69
Period size: 20 Copynumber: 2.0 Consensus size: 19
58553 ACCGAATGCA
58563 CTTAGTGCATCGATGCATC
1 CTTAGTGCATCGATGCATC
58582 CTTATGTGCATCGATGCATC
1 CTTA-GTGCATCGATGCATC
58602 AAGGTTGTGC
Statistics
Matches: 19, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
19 4 0.21
20 15 0.79
ACGTcount: A:0.21, C:0.26, G:0.21, T:0.33
Consensus pattern (19 bp):
CTTAGTGCATCGATGCATC
Found at i:60017 original size:21 final size:21
Alignment explanation
Indices: 59987--60042 Score: 94
Period size: 21 Copynumber: 2.7 Consensus size: 21
59977 AAACTACTTA
*
59987 GGTTTTGAAACCCCCAACGCT
1 GGTTTAGAAACCCCCAACGCT
*
60008 GGTTTAGAAACCCCCAAGGCT
1 GGTTTAGAAACCCCCAACGCT
60029 GGTTTAGAAACCCC
1 GGTTTAGAAACCCC
60043 TTCCTGAAAT
Statistics
Matches: 33, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
21 33 1.00
ACGTcount: A:0.27, C:0.30, G:0.21, T:0.21
Consensus pattern (21 bp):
GGTTTAGAAACCCCCAACGCT
Found at i:62343 original size:24 final size:24
Alignment explanation
Indices: 62302--62390 Score: 62
Period size: 24 Copynumber: 3.8 Consensus size: 24
62292 GTAGGCTTAC
* * *
62302 TTAATCAATTGAAGGTGTTGATTG
1 TTAATCAGTTAAAAGTGTTGATTG
*
62326 TTAATCAGTTAAAAGTGTTTA-TG
1 TTAATCAGTTAAAAGTGTTGATTG
* *
62349 -TAGCTCGAGATT---AGTATTGATTG
1 TTA-ATC-AG-TTAAAAGTGTTGATTG
62372 TTAATCAGTTAAAAGTGTT
1 TTAATCAGTTAAAAGTGTT
62391 TATCTATATC
Statistics
Matches: 48, Mismatches: 9, Indels: 16
0.66 0.12 0.22
Matches are distributed among these distances:
21 2 0.04
22 10 0.21
23 8 0.17
24 26 0.54
25 2 0.04
ACGTcount: A:0.31, C:0.06, G:0.21, T:0.42
Consensus pattern (24 bp):
TTAATCAGTTAAAAGTGTTGATTG
Found at i:62876 original size:27 final size:29
Alignment explanation
Indices: 62846--62903 Score: 75
Period size: 27 Copynumber: 2.1 Consensus size: 29
62836 ACTATATATT
**
62846 ATATATATTTTCTA-AAATATTTT-AAAA
1 ATATATATAATCTATAAATATTTTCAAAA
*
62873 ATATATATAATCTATAAATGTTTTCAAAA
1 ATATATATAATCTATAAATATTTTCAAAA
62902 AT
1 AT
62904 GTTTAAAAAA
Statistics
Matches: 26, Mismatches: 3, Indels: 2
0.84 0.10 0.06
Matches are distributed among these distances:
27 12 0.46
28 8 0.31
29 6 0.23
ACGTcount: A:0.48, C:0.05, G:0.02, T:0.45
Consensus pattern (29 bp):
ATATATATAATCTATAAATATTTTCAAAA
Found at i:62880 original size:38 final size:37
Alignment explanation
Indices: 62754--63006 Score: 168
Period size: 38 Copynumber: 6.5 Consensus size: 37
62744 AATACTTTCC
* * * *
62754 AAAACATATAATATATA-AATTTATAAAATGATTTTAA
1 AAAATATATATTATATATATTTTCTAAAAT-ATTTTAA
* * * *
62791 AAACTATATAATATATATATTTTTCATAAACGTTTTTTTAA
1 AAAATATATATTATATATA-TTTTC-TAAA--ATATTTTAA
62832 TAAAACTATATATTATATATATTTTCTAAAATATTTTAA
1 -AAAA-TATATATTATATATATTTTCTAAAATATTTTAA
* * * * *
62871 AAATATATATAATCTATAAATGTTTTCAAAAATGTTTAAA
1 AAA-ATATAT-AT-TATATATATTTTCTAAAATATTTTAA
* * *
62911 AAAACTATATAATATATATATTTTCAAAAATGGTTTTTTAA
1 AAAA-TATATATTATATATATTTTCTAAAA---TATTTTAA
* * *
62952 AAACTATATATTATATACATTTTC-AAAATGTTTTTTAA
1 AAAATATATATTATATATATTTTCTAAAA--TATTTTAA
*
62990 AAACTATATATTATATA
1 AAAATATATATTATATA
63007 CGTAATTTCA
Statistics
Matches: 178, Mismatches: 24, Indels: 27
0.78 0.10 0.12
Matches are distributed among these distances:
37 15 0.08
38 51 0.29
39 19 0.11
40 51 0.29
41 19 0.11
42 9 0.05
43 14 0.08
ACGTcount: A:0.47, C:0.06, G:0.03, T:0.44
Consensus pattern (37 bp):
AAAATATATATTATATATATTTTCTAAAATATTTTAA
Found at i:62927 original size:78 final size:79
Alignment explanation
Indices: 62754--63006 Score: 227
Period size: 78 Copynumber: 3.2 Consensus size: 79
62744 AATACTTTCC
* * * *
62754 AAAAC-ATATAATATATA-AATTTATAAAATGATTTTAAAAACTATATAATATATATATTTTTCA
1 AAAACTATATAATATATATATTTTCTAAAATGATTTTAAAAAATATATAATATATAAATTTTTCA
* * *
62817 TAAACGTTTTTTTAAT
66 TAAAC--ATGTTTAAA
* *
62833 AAAACTATATATTATATATATTTTCTAAAAT-ATTTTAAAAATATATATAATCTATAAATGTTTT
1 AAAACTATATAATATATATATTTTCTAAAATGATTTTAAAAA-ATATATAATATATAAAT-TTTT
62897 CA-AAA-ATGTTTAAA
64 CATAAACATGTTTAAA
* * * * *
62911 AAAACTATATAATATATATATTTTCAAAAATGGTTTTTTAAAAACTATATATTATATACA-TTTT
1 AAAACTATATAATATATATATTTTCTAAAAT-G-ATTTTAAAAAATATATAATATATAAATTTTT
**
62975 C--AAA-ATGTTTTTTA
64 CATAAACATG-TTTAAA
*
62989 AAAACTATATATTATATA
1 AAAACTATATAATATATA
63007 CGTAATTTCA
Statistics
Matches: 147, Mismatches: 19, Indels: 17
0.80 0.10 0.09
Matches are distributed among these distances:
77 6 0.04
78 61 0.41
79 5 0.03
80 33 0.22
81 36 0.24
82 6 0.04
ACGTcount: A:0.47, C:0.06, G:0.03, T:0.44
Consensus pattern (79 bp):
AAAACTATATAATATATATATTTTCTAAAATGATTTTAAAAAATATATAATATATAAATTTTTCA
TAAACATGTTTAAA
Found at i:63016 original size:40 final size:39
Alignment explanation
Indices: 62785--63026 Score: 240
Period size: 40 Copynumber: 6.0 Consensus size: 39
62775 TATAAAATGA
* * *
62785 TTTTAAAAACTATATAATATATATATTTTTCATAAACGTTT
1 TTTTAAAAACTATATATTATATATA-TTTTCAAAAATG-TT
* *
62826 TTTTAATAAAACTATATATTATATATATTTTCTAAAA--TA
1 TTTT-A-AAAACTATATATTATATATATTTTCAAAAATGTT
* * *
62865 TTTTAAAAATATATATAATCTATAAATGTTTTCAAAAATG-T
1 TTTTAAAAA-CTATAT-AT-TATATATATTTTCAAAAATGTT
** *
62906 TTAAAAAAACTATATAATATATATATTTTCAAAAATGGTT
1 TTTTAAAAACTATATATTATATATATTTTCAAAAAT-GTT
*
62946 TTTTAAAAACTATATATTATATACATTTTC-AAAATGTT
1 TTTTAAAAACTATATATTATATATATTTTCAAAAATGTT
*
62984 TTTTAAAAACTATATATTATATACGTAATTTCAAAAACTGTT
1 TTTTAAAAACTATATATTATATA--TATTTTCAAAAA-TGTT
63026 T
1 T
63027 GCAAACTATA
Statistics
Matches: 167, Mismatches: 21, Indels: 25
0.78 0.10 0.12
Matches are distributed among these distances:
37 4 0.02
38 49 0.29
39 14 0.08
40 52 0.31
41 15 0.09
42 14 0.08
43 19 0.11
ACGTcount: A:0.45, C:0.07, G:0.03, T:0.45
Consensus pattern (39 bp):
TTTTAAAAACTATATATTATATATATTTTCAAAAATGTT
Found at i:63044 original size:2 final size:2
Alignment explanation
Indices: 63033--63088 Score: 105
Period size: 2 Copynumber: 28.5 Consensus size: 2
63023 GTTTGCAAAC
63033 TA TA -A 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 TA TA TA
63074 TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA T
63089 GGACGAAAAT
Statistics
Matches: 53, Mismatches: 0, Indels: 2
0.96 0.00 0.04
Matches are distributed among these distances:
1 1 0.02
2 52 0.98
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
TA
Found at i:63973 original size:49 final size:49
Alignment explanation
Indices: 63896--64074 Score: 234
Period size: 49 Copynumber: 3.6 Consensus size: 49
63886 CCTTTCCGAT
* * *
63896 CTTTCTGGCAAAAATGCACAGTTGGGCATTTAACTTGCATTAGTGGCAC
1 CTTTCTGCCAAAAATGCACCGTTAGGCATTTAACTTGCATTAGTGGCAC
63945 CTTTCTGCCAAAAATGCACCGTTAGGCATTTAACTTGCATTAGTGGCAC
1 CTTTCTGCCAAAAATGCACCGTTAGGCATTTAACTTGCATTAGTGGCAC
* * ** * * *
63994 CTTTCTGCGAAAAAATGCATCGCTT-TTCCTCTAACTTGCATTAGTTGCAC
1 CTTTCTGC-CAAAAATGCACCG-TTAGGCATTTAACTTGCATTAGTGGCAC
*
64044 CTTTCTGCCAAAAATGCATCGTTAGGCATTT
1 CTTTCTGCCAAAAATGCACCGTTAGGCATTT
64075 TCATTTTATT
Statistics
Matches: 112, Mismatches: 15, Indels: 6
0.84 0.11 0.05
Matches are distributed among these distances:
48 2 0.02
49 69 0.62
50 39 0.35
51 2 0.02
ACGTcount: A:0.26, C:0.23, G:0.18, T:0.33
Consensus pattern (49 bp):
CTTTCTGCCAAAAATGCACCGTTAGGCATTTAACTTGCATTAGTGGCAC
Found at i:64663 original size:21 final size:21
Alignment explanation
Indices: 64621--64668 Score: 60
Period size: 21 Copynumber: 2.3 Consensus size: 21
64611 TACCCACAGT
***
64621 AGTATCGATACTAATTGTATC
1 AGTATCGATACTAATACAATC
*
64642 AGTATCGATACTGATACAATC
1 AGTATCGATACTAATACAATC
64663 AGTATC
1 AGTATC
64669 AATATTGTTC
Statistics
Matches: 23, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
21 23 1.00
ACGTcount: A:0.35, C:0.17, G:0.15, T:0.33
Consensus pattern (21 bp):
AGTATCGATACTAATACAATC
Found at i:68531 original size:27 final size:27
Alignment explanation
Indices: 68493--68588 Score: 129
Period size: 27 Copynumber: 3.5 Consensus size: 27
68483 ATATTTTTAT
*
68493 TTAAGTTTTAAAATTTCCTTTCTTAAA
1 TTAAGTTTTAAAATTTCCTTTCGTAAA
*
68520 TTAAGTTTTAAAATTTCCTTTCCGAACAA
1 TTAAGTTTTAAAATTTCCTTT-CGTA-AA
* * *
68549 TTATGTTTTAAAATTTCCTTACGTAAT
1 TTAAGTTTTAAAATTTCCTTTCGTAAA
68576 TTAAGTTTTAAAA
1 TTAAGTTTTAAAA
68589 AGCATTTTTT
Statistics
Matches: 60, Mismatches: 7, Indels: 4
0.85 0.10 0.06
Matches are distributed among these distances:
27 34 0.57
28 5 0.08
29 21 0.35
ACGTcount: A:0.34, C:0.11, G:0.06, T:0.48
Consensus pattern (27 bp):
TTAAGTTTTAAAATTTCCTTTCGTAAA
Found at i:68625 original size:11 final size:11
Alignment explanation
Indices: 68592--68627 Score: 54
Period size: 11 Copynumber: 3.3 Consensus size: 11
68582 TTTAAAAAGC
68592 ATTTTTTTAAT
1 ATTTTTTTAAT
*
68603 TTTTTTTTAAT
1 ATTTTTTTAAT
*
68614 ATTTTTTAAAT
1 ATTTTTTTAAT
68625 ATT
1 ATT
68628 ATAAATTTCC
Statistics
Matches: 22, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
11 22 1.00
ACGTcount: A:0.28, C:0.00, G:0.00, T:0.72
Consensus pattern (11 bp):
ATTTTTTTAAT
Found at i:68669 original size:30 final size:30
Alignment explanation
Indices: 68629--68699 Score: 94
Period size: 30 Copynumber: 2.4 Consensus size: 30
68619 TTAAATATTA
68629 TAAA-TTTCCTTTTTCAAAAA-TTATTTTTT
1 TAAATTTTCCTTTTTCAAAAATTTA-TTTTT
**
68658 TAAATTTTCCTTTTTTGAAAATTTATTTTT
1 TAAATTTTCCTTTTTCAAAAATTTATTTTT
68688 T-AATTTTCCTTT
1 TAAATTTTCCTTT
68700 CCTGGAAATT
Statistics
Matches: 38, Mismatches: 2, Indels: 4
0.86 0.05 0.09
Matches are distributed among these distances:
29 15 0.39
30 20 0.53
31 3 0.08
ACGTcount: A:0.27, C:0.10, G:0.01, T:0.62
Consensus pattern (30 bp):
TAAATTTTCCTTTTTCAAAAATTTATTTTT
Found at i:68723 original size:29 final size:28
Alignment explanation
Indices: 68645--68722 Score: 102
Period size: 29 Copynumber: 2.7 Consensus size: 28
68635 TCCTTTTTCA
**
68645 AAAATTATTTTTTTAAATTTTCCTTTTTTG
1 AAAATTA-TTTTTT-AATTTTCCTTTCCTG
68675 AAAATTTATTTTTTAATTTTCCTTTCCTG
1 AAAA-TTATTTTTTAATTTTCCTTTCCTG
*
68704 GAAATTATTTTTTAATTTT
1 AAAATTATTTTTTAATTTT
68723 TTTTTTAAAA
Statistics
Matches: 44, Mismatches: 3, Indels: 4
0.86 0.06 0.08
Matches are distributed among these distances:
28 15 0.34
29 16 0.36
30 10 0.23
31 3 0.07
ACGTcount: A:0.27, C:0.08, G:0.04, T:0.62
Consensus pattern (28 bp):
AAAATTATTTTTTAATTTTCCTTTCCTG
Found at i:74025 original size:31 final size:31
Alignment explanation
Indices: 73987--74049 Score: 108
Period size: 31 Copynumber: 2.0 Consensus size: 31
73977 CCCAAGAGTT
*
73987 TGGGAGTTCCTAGTGAGAAGGACATATTGAA
1 TGGGAGTTCCTAGTAAGAAGGACATATTGAA
*
74018 TGGGAGTTCCTAGTAAGAAGGATATATTGAA
1 TGGGAGTTCCTAGTAAGAAGGACATATTGAA
74049 T
1 T
74050 TTACCGAATT
Statistics
Matches: 30, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
31 30 1.00
ACGTcount: A:0.33, C:0.08, G:0.30, T:0.29
Consensus pattern (31 bp):
TGGGAGTTCCTAGTAAGAAGGACATATTGAA
Found at i:77095 original size:30 final size:31
Alignment explanation
Indices: 77026--77095 Score: 79
Period size: 31 Copynumber: 2.3 Consensus size: 31
77016 TCCGATGTCT
*
77026 AAATTAAAATTTTAACTAAATTTGAGGGCCA
1 AAATTAAAATTTTAACTAAATTTGAGAGCCA
* * * *
77057 AAAATAAAATTTTGATTAAATTT-AGATCCA
1 AAATTAAAATTTTAACTAAATTTGAGAGCCA
*
77087 AATTTAAAA
1 AAATTAAAA
77096 AGTACTAAAA
Statistics
Matches: 32, Mismatches: 7, Indels: 1
0.80 0.17 0.03
Matches are distributed among these distances:
30 12 0.38
31 20 0.62
ACGTcount: A:0.50, C:0.07, G:0.09, T:0.34
Consensus pattern (31 bp):
AAATTAAAATTTTAACTAAATTTGAGAGCCA
Found at i:78485 original size:39 final size:39
Alignment explanation
Indices: 78416--78508 Score: 123
Period size: 39 Copynumber: 2.4 Consensus size: 39
78406 CTATGACTTA
* * * * *
78416 TAAGACCTTATCGCGGGCTCTTCTGTTTTGTGCTCAGGG
1 TAAGTCCTTAACGCAGGCTCCTCTGCTTTGTGCTCAGGG
*
78455 TAAGTCCTTACCGCAGGCTCCTCTGCTTTGTGCTCAGGG
1 TAAGTCCTTAACGCAGGCTCCTCTGCTTTGTGCTCAGGG
*
78494 TAAGTACTTAACGCA
1 TAAGTCCTTAACGCA
78509 TGTCCTTATG
Statistics
Matches: 47, Mismatches: 7, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
39 47 1.00
ACGTcount: A:0.17, C:0.26, G:0.25, T:0.32
Consensus pattern (39 bp):
TAAGTCCTTAACGCAGGCTCCTCTGCTTTGTGCTCAGGG
Found at i:82235 original size:39 final size:39
Alignment explanation
Indices: 82192--82268 Score: 118
Period size: 39 Copynumber: 2.0 Consensus size: 39
82182 TTACCACAAG
*
82192 CTCCTCTGCTTTGTGATCAGGGTAAGTTTTTACCGCAGT
1 CTCCTCTGCTTTGTGATCAGGGTAAGTCTTTACCGCAGT
* * *
82231 CTCCTTTGCTTTGTGCTCAGGGTAAGTCTTTATCGCAG
1 CTCCTCTGCTTTGTGATCAGGGTAAGTCTTTACCGCAG
82269 GGTAAGTCTT
Statistics
Matches: 34, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
39 34 1.00
ACGTcount: A:0.14, C:0.23, G:0.23, T:0.39
Consensus pattern (39 bp):
CTCCTCTGCTTTGTGATCAGGGTAAGTCTTTACCGCAGT
Found at i:82271 original size:18 final size:18
Alignment explanation
Indices: 82248--82282 Score: 70
Period size: 18 Copynumber: 1.9 Consensus size: 18
82238 GCTTTGTGCT
82248 CAGGGTAAGTCTTTATCG
1 CAGGGTAAGTCTTTATCG
82266 CAGGGTAAGTCTTTATC
1 CAGGGTAAGTCTTTATC
82283 CCGGGTGTAT
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
18 17 1.00
ACGTcount: A:0.23, C:0.17, G:0.26, T:0.34
Consensus pattern (18 bp):
CAGGGTAAGTCTTTATCG
Found at i:87358 original size:46 final size:46
Alignment explanation
Indices: 87288--87375 Score: 140
Period size: 46 Copynumber: 1.9 Consensus size: 46
87278 ACCGTTATGT
* * *
87288 ATTTTCATTTGTGGCATCCATTCATGCCAATTATGCACTGTTATAC
1 ATTTTCATTTATGGAATCCATTCATGCCAACTATGCACTGTTATAC
*
87334 ATTTTCATTTATGGAATCCTTTCATGCCAACTATGCACTGTT
1 ATTTTCATTTATGGAATCCATTCATGCCAACTATGCACTGTT
87376 CCTCATATAA
Statistics
Matches: 38, Mismatches: 4, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
46 38 1.00
ACGTcount: A:0.24, C:0.22, G:0.12, T:0.42
Consensus pattern (46 bp):
ATTTTCATTTATGGAATCCATTCATGCCAACTATGCACTGTTATAC
Found at i:87492 original size:47 final size:48
Alignment explanation
Indices: 87383--87519 Score: 177
Period size: 49 Copynumber: 2.8 Consensus size: 48
87373 GTTCCTCATA
* * * *
87383 TAACCTGCATTAGTGGCACCTTTATGCCAAAAGTGCACCGTTAGACATC
1 TAACTTGCATTAATGGCACCTTTATGCCAAAA-AGCACAGTTAGACATC
* *
87432 TAACTTGCATTAATGACACCTTTCTGCCAAAAAGCACAGTTAG-CATC
1 TAACTTGCATTAATGGCACCTTTATGCCAAAAAGCACAGTTAGACATC
*
87479 TAACTTGCATTAATGGCACCTTTTTTGCCAAAAATGCACAG
1 TAACTTGCATTAATGGCACC-TTTATGCCAAAAA-GCACAG
87520 CTAGGCATTT
Statistics
Matches: 78, Mismatches: 8, Indels: 4
0.87 0.09 0.04
Matches are distributed among these distances:
47 23 0.29
48 21 0.27
49 34 0.44
ACGTcount: A:0.31, C:0.25, G:0.15, T:0.28
Consensus pattern (48 bp):
TAACTTGCATTAATGGCACCTTTATGCCAAAAAGCACAGTTAGACATC
Found at i:87797 original size:82 final size:82
Alignment explanation
Indices: 87475--87865 Score: 536
Period size: 81 Copynumber: 4.8 Consensus size: 82
87465 GCACAGTTAG
* * * * * *
87475 CATCTAACTTGCATTAATGGCACCTTTTTTGCCAAAAATGCACAGCTAGGCATTTAGTATTTTAT
1 CATCTAACTAGCATTATTGACACC-TTTCTGCC--AAATGCACAACTAGGCATTTAGTCTTTTAT
*
87540 CCCAAAGGCAATTAACCTTT
63 CCCAAAGGCATTTAACCTTT
* * * *
87560 CATCTAACT-GTCATTATTGACAACTTTCT-ACAAATGAACAACTAGGCATTTAGTATTTTATCC
1 CATCTAACTAG-CATTATTGACACCTTTCTGCCAAATGCACAACTAGGCATTTAGTCTTTTATCC
*
87623 CAAAGGCATTTAAGCTTT
65 CAAAGGCATTTAACCTTT
* * *
87641 CATCTAACTGGCATTATTGACACTTTTCTGCC-AATGCACAACTAGACATTTAGTCTTTTATCCC
1 CATCTAACTAGCATTATTGACACCTTTCTGCCAAATGCACAACTAGGCATTTAGTCTTTTATCCC
87705 AAAGGCATTTAACCTTT
66 AAAGGCATTTAACCTTT
* * *
87722 CATCTAACTAACATTATTGGCACCTTTCTGCCAAATGCACAACTAGGCATTTCGTCTTTTATCCC
1 CATCTAACTAGCATTATTGACACCTTTCTGCCAAATGCACAACTAGGCATTTAGTCTTTTATCCC
*
87787 AAAGGCATTTAACATTT
66 AAAGGCATTTAACCTTT
* *
87804 CATCTAACTAGCATTATTAACACCTTTCTGTCAAATGCACAACTAGGCATTTAGTCTTTTAT
1 CATCTAACTAGCATTATTGACACCTTTCTGCCAAATGCACAACTAGGCATTTAGTCTTTTAT
87866 TTTAAAATAG
Statistics
Matches: 274, Mismatches: 28, Indels: 11
0.88 0.09 0.04
Matches are distributed among these distances:
81 144 0.53
82 105 0.38
83 1 0.00
84 5 0.02
85 19 0.07
ACGTcount: A:0.30, C:0.23, G:0.11, T:0.35
Consensus pattern (82 bp):
CATCTAACTAGCATTATTGACACCTTTCTGCCAAATGCACAACTAGGCATTTAGTCTTTTATCCC
AAAGGCATTTAACCTTT
Found at i:88010 original size:54 final size:54
Alignment explanation
Indices: 87952--88075 Score: 162
Period size: 54 Copynumber: 2.3 Consensus size: 54
87942 GCACACGTAG
*
87952 TGCCAATACGGTAATTCAT-AACTTATTATGAATTACGTGGGGTTGCACACACAA
1 TGCCAATACGGTAATTCATAAACTTATTATGAATTAC-TGAGGTTGCACACACAA
* * * *
88006 TGCCAATAC-ATAAATTCATAAACTTATTATGAATTTCTTAGGTTGCACACACAT
1 TGCCAATACGGT-AATTCATAAACTTATTATGAATTACTGAGGTTGCACACACAA
*
88060 TGCCCATACGGTAATT
1 TGCCAATACGGTAATT
88076 ACAATATATA
Statistics
Matches: 60, Mismatches: 7, Indels: 6
0.82 0.10 0.08
Matches are distributed among these distances:
53 1 0.02
54 42 0.70
55 17 0.28
ACGTcount: A:0.34, C:0.19, G:0.15, T:0.32
Consensus pattern (54 bp):
TGCCAATACGGTAATTCATAAACTTATTATGAATTACTGAGGTTGCACACACAA
Found at i:92956 original size:46 final size:46
Alignment explanation
Indices: 92905--92995 Score: 155
Period size: 46 Copynumber: 2.0 Consensus size: 46
92895 ATAGGAATAA
*
92905 AATAAAAAAATGTAGCACTTAACACATACTTACATCGATGTAAGTG
1 AATAAAAAAATGTAGCACATAACACATACTTACATCGATGTAAGTG
* *
92951 AATAAAAAAATGTATCACATAACACATACTTACATCGGTGTAAGT
1 AATAAAAAAATGTAGCACATAACACATACTTACATCGATGTAAGT
92996 ATGTACATCT
Statistics
Matches: 42, Mismatches: 3, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
46 42 1.00
ACGTcount: A:0.46, C:0.15, G:0.12, T:0.26
Consensus pattern (46 bp):
AATAAAAAAATGTAGCACATAACACATACTTACATCGATGTAAGTG
Found at i:100672 original size:2 final size:2
Alignment explanation
Indices: 100665--100702 Score: 76
Period size: 2 Copynumber: 19.0 Consensus size: 2
100655 AAGTTAAAAT
100665 TA 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 TA
100703 ATTTAATATT
Statistics
Matches: 36, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 36 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
TA
Found at i:102750 original size:159 final size:158
Alignment explanation
Indices: 102417--102819 Score: 504
Period size: 159 Copynumber: 2.5 Consensus size: 158
102407 CTTAGTTTCA
* * *
102417 TTATTTCTTCAATTTCTCCTTCATTTTAAGTCAATTTGTTTTACCAAATTTGAACTACATGCTCC
1 TTATTTCTTCAA-TTCTCATTTATTTTAAGTC-ATTT-TTTTACCAAATTTGAACCACATGCTCC
* * *
102482 TAAACCATAGTAAAATACATGTGTGCTTTCAAGTCCTCTTTTTGATAACAAATTTTTTATTTTTC
63 TAAACCATAATAGAATACATGTGTACTTTCAAGTCCTCTTTTTGATAACAAATTTTTTATTTTTC
* *
102547 AATTTAGTCCTTCAATTTTTTCATAATCTCC
128 AATTTAATCCTTCAATATTTTCATAATCTCC
* * *
102578 TTATGTTTTTCAATTCGTCATTTATTTTAAGTCATTTATTTA-CAAATTTGAGCCACATGCTCCT
1 TTAT-TTCTTCAATTC-TCATTTATTTTAAGTCATTTTTTTACCAAATTTGAACCACATGCTCCT
* * *
102642 AAACCATAATAGAATACATGTGTACTTTCAATTCCTCTTTTTGATAATAATTTTTTTTTATTTTT
64 AAACCATAATAGAATACATGTGTACTTTCAAGTCCTCTTTTTGATAACAA--ATTTTTTATTTTT
**
102707 TTATTTAATCCTTCAA-ATTTTCATAATCTCC
127 CAATTTAATCCTTCAATATTTTCATAATCTCC
* * * * *
102738 TTATTCCTTCAATTTTAGATTTATTTTAAGTTATTTTTTTTACCAAATTTGAACCACATGCTCAT
1 TTATTTCTTCAATTCT-CATTTATTTTAAGTCA-TTTTTTTACCAAATTTGAACCACATGCTCCT
* *
102803 ATACCACAATAGAATAC
64 AAACCATAATAGAATAC
102820 CTATGTAACT
Statistics
Matches: 209, Mismatches: 26, Indels: 14
0.84 0.10 0.06
Matches are distributed among these distances:
158 1 0.00
159 87 0.42
160 29 0.14
161 71 0.34
162 21 0.10
ACGTcount: A:0.29, C:0.18, G:0.06, T:0.47
Consensus pattern (158 bp):
TTATTTCTTCAATTCTCATTTATTTTAAGTCATTTTTTTACCAAATTTGAACCACATGCTCCTAA
ACCATAATAGAATACATGTGTACTTTCAAGTCCTCTTTTTGATAACAAATTTTTTATTTTTCAAT
TTAATCCTTCAATATTTTCATAATCTCC
Found at i:103068 original size:20 final size:19
Alignment explanation
Indices: 103039--103098 Score: 61
Period size: 20 Copynumber: 3.1 Consensus size: 19
103029 TTTTAGATTG
103039 TATT-TAATATATTAAATAA
1 TATTATAATATA-TAAATAA
*
103058 TATTATAATATA-AAAGATA
1 TATTATAATATATAAATA-A
103077 TATATATAATACTATAAATAA
1 TAT-TATAATA-TATAAATAA
103098 T
1 T
103099 TATAATAAAA
Statistics
Matches: 34, Mismatches: 2, Indels: 8
0.77 0.05 0.18
Matches are distributed among these distances:
18 4 0.12
19 8 0.24
20 14 0.41
21 4 0.12
22 4 0.12
ACGTcount: A:0.55, C:0.02, G:0.02, T:0.42
Consensus pattern (19 bp):
TATTATAATATATAAATAA
Found at i:103104 original size:18 final size:19
Alignment explanation
Indices: 103057--103105 Score: 57
Period size: 20 Copynumber: 2.6 Consensus size: 19
103047 ATATTAAATA
103057 ATATTATAATATAAAAGAT
1 ATATTATAATATAAAAGAT
*
103076 ATATATATAATACTATAA-AT
1 ATAT-TATAATA-TAAAAGAT
103096 A-ATTATAATA
1 ATATTATAATA
103106 AAATTAGTAC
Statistics
Matches: 27, Mismatches: 1, Indels: 5
0.82 0.03 0.15
Matches are distributed among these distances:
18 7 0.26
19 6 0.22
20 10 0.37
21 4 0.15
ACGTcount: A:0.57, C:0.02, G:0.02, T:0.39
Consensus pattern (19 bp):
ATATTATAATATAAAAGAT
Found at i:110128 original size:18 final size:19
Alignment explanation
Indices: 110107--110156 Score: 59
Period size: 18 Copynumber: 2.6 Consensus size: 19
110097 ACCAAATTTG
110107 GTATCGATACTCACGG-GA
1 GTATCGATACTCACGGAGA
*
110125 GTATCGATAGC-CAGGGTAGA
1 GTATCGATA-CTCACGG-AGA
110145 GTATCGATACTC
1 GTATCGATACTC
110157 CCTATTGGAG
Statistics
Matches: 27, Mismatches: 1, Indels: 6
0.79 0.03 0.18
Matches are distributed among these distances:
18 13 0.48
19 2 0.07
20 12 0.44
ACGTcount: A:0.28, C:0.20, G:0.28, T:0.24
Consensus pattern (19 bp):
GTATCGATACTCACGGAGA
Found at i:111691 original size:37 final size:37
Alignment explanation
Indices: 111609--111696 Score: 99
Period size: 37 Copynumber: 2.4 Consensus size: 37
111599 GTTTACGTAT
*
111609 GGTCGGGTCAGGTCAGGTTTTTTTAAAATAATTTCAG
1 GGTCGGGTCGGGTCAGGTTTTTTTAAAATAATTTCAG
* * * *
111646 GTTTGGGTCGGGTCAGG-TTTTTTAAAGGTGATGTTC-G
1 GGTCGGGTCGGGTCAGGTTTTTTTAAA-ATAAT-TTCAG
111683 GGTCGGGTCGGGTC
1 GGTCGGGTCGGGTC
111697 GGGTCAGATT
Statistics
Matches: 42, Mismatches: 7, Indels: 4
0.79 0.13 0.08
Matches are distributed among these distances:
36 9 0.21
37 30 0.71
38 3 0.07
ACGTcount: A:0.16, C:0.11, G:0.36, T:0.36
Consensus pattern (37 bp):
GGTCGGGTCGGGTCAGGTTTTTTTAAAATAATTTCAG
Found at i:111954 original size:37 final size:37
Alignment explanation
Indices: 111879--111956 Score: 93
Period size: 37 Copynumber: 2.1 Consensus size: 37
111869 TCGAGTCGGA
* * * * * *
111879 TCGGGTCGGGTGGAGGGTATATATTTTTCGGGTTGAG
1 TCGGGTCGGGTGAAGGATATAAAATTCTCGGGTCGAG
*
111916 TCGGGTCGGGTGAAGGATATAAAATTCTCTGGTCGAG
1 TCGGGTCGGGTGAAGGATATAAAATTCTCGGGTCGAG
111953 TCGG
1 TCGG
111957 ATTGGCCGAA
Statistics
Matches: 34, Mismatches: 7, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
37 34 1.00
ACGTcount: A:0.18, C:0.12, G:0.40, T:0.31
Consensus pattern (37 bp):
TCGGGTCGGGTGAAGGATATAAAATTCTCGGGTCGAG
Found at i:116222 original size:9 final size:9
Alignment explanation
Indices: 116208--116232 Score: 50
Period size: 9 Copynumber: 2.8 Consensus size: 9
116198 GAAATCGGTT
116208 AATTAACTG
1 AATTAACTG
116217 AATTAACTG
1 AATTAACTG
116226 AATTAAC
1 AATTAAC
116233 CGAAATAAAT
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
9 16 1.00
ACGTcount: A:0.48, C:0.12, G:0.08, T:0.32
Consensus pattern (9 bp):
AATTAACTG
Found at i:116566 original size:186 final size:184
Alignment explanation
Indices: 116246--116636 Score: 640
Period size: 186 Copynumber: 2.1 Consensus size: 184
116236 AATAAATTTT
* *
116246 AAAATTTTAAATATATTATATATAACATATGGGCACATCCCAAACCATTTAAAACCCAATTAATA
1 AAAATATTAAATATATTATATATAACATATGGGCACAGCCCAAACCATTTAAAACCCAATTAATA
*
116311 ATTTAAGATCCAATAACTTTTAAACCTAAATCAATATTAATTAATTAAAAAATTTATATAAAATT
66 ATTTAAGATCCAATAACTTTTAAACATAAATCAATATTAATTAATTAAAAAATTTATATAAAATT
* *
116376 TTTATTTTATAATTATATATTATTTAAATTAATTGTAAACTATTTTTCTGAATTAA
131 TTTATTTTATAATTATATATTATTTAAATTAAGTATAAAC-ATTTTT-TGAATTAA
**
116432 AAAATATTAAATATATTATATATAACATATGGGCTTAGCCCAAACCATTTAAAACCCAATTAATA
1 AAAATATTAAATATATTATATATAACATATGGGCACAGCCCAAACCATTTAAAACCCAATTAATA
*
116497 ATTTAAGATCCAATAACTTTTAAACATAAATCAATATTAATTAATTAAAAAATTTATATAAATTT
66 ATTTAAGATCCAATAACTTTTAAACATAAATCAATATTAATTAATTAAAAAATTTATATAAAATT
* * *
116562 TTTATTTTATAATTATGTATTATTTAAATTAAGTATAAACATTTTTTTAATTAT
131 TTTATTTTATAATTATATATTATTTAAATTAAGTATAAACATTTTTTGAATTAA
* *
116616 AAAATATTTAAT-TTTTATATA
1 AAAATATTAAATATATTATATA
116637 AATTAGAAAA
Statistics
Matches: 192, Mismatches: 13, Indels: 3
0.92 0.06 0.01
Matches are distributed among these distances:
183 8 0.04
184 17 0.09
185 6 0.03
186 161 0.84
ACGTcount: A:0.46, C:0.09, G:0.03, T:0.42
Consensus pattern (184 bp):
AAAATATTAAATATATTATATATAACATATGGGCACAGCCCAAACCATTTAAAACCCAATTAATA
ATTTAAGATCCAATAACTTTTAAACATAAATCAATATTAATTAATTAAAAAATTTATATAAAATT
TTTATTTTATAATTATATATTATTTAAATTAAGTATAAACATTTTTTGAATTAA
Found at i:117892 original size:64 final size:63
Alignment explanation
Indices: 117790--117939 Score: 153
Period size: 64 Copynumber: 2.4 Consensus size: 63
117780 CCTTCAAGGA
* ** *
117790 GTATCGATACTC-GGGTCCAGTATCGATACTGAGACATTTTTGAAAACATTGAAGCCAAATTT-G
1 GTATCGATACTCAGGGT-GAGTATCGATACCAAGACATTTTTGAAAACATCGAAG-CAAATTTCG
* * ** *
117853 GTATCGATACTCAGGGTAGAGTATCGATACCAATG-CATTTTTTAAGACATCGAAGTTATTTTCG
1 GTATCGATACTCAGGGT-GAGTATCGATACCAA-GACATTTTTGAAAACATCGAAGCAAATTTCG
*
117917 GTATCGATATTCAGGGTGAGTAT
1 GTATCGATACTCAGGGTGAGTAT
117940 GGAGGACCTT
Statistics
Matches: 73, Mismatches: 11, Indels: 6
0.81 0.12 0.07
Matches are distributed among these distances:
63 22 0.30
64 50 0.68
65 1 0.01
ACGTcount: A:0.30, C:0.15, G:0.22, T:0.33
Consensus pattern (63 bp):
GTATCGATACTCAGGGTGAGTATCGATACCAAGACATTTTTGAAAACATCGAAGCAAATTTCG
Found at i:118189 original size:23 final size:23
Alignment explanation
Indices: 118156--118253 Score: 99
Period size: 23 Copynumber: 4.3 Consensus size: 23
118146 AAAGTGCCAT
*
118156 ATAGAAATGTCCTGAAGGACCAC
1 ATAGAAATGTCCCGAAGGACCAC
* * *
118179 ATAGTATTGTCCCAAAGGACCAC
1 ATAGAAATGTCCCGAAGGACCAC
* *
118202 GTAGAAATGTCCCGAAGGACCAT
1 ATAGAAATGTCCCGAAGGACCAC
* * *
118225 GTAGAATTGTCCCGATGGA-CAGC
1 ATAGAAATGTCCCGAAGGACCA-C
118248 ATAGAA
1 ATAGAA
118254 CCATTGACTC
Statistics
Matches: 61, Mismatches: 13, Indels: 2
0.80 0.17 0.03
Matches are distributed among these distances:
22 2 0.03
23 59 0.97
ACGTcount: A:0.36, C:0.21, G:0.23, T:0.19
Consensus pattern (23 bp):
ATAGAAATGTCCCGAAGGACCAC
Found at i:118441 original size:44 final size:44
Alignment explanation
Indices: 118355--118601 Score: 350
Period size: 44 Copynumber: 5.6 Consensus size: 44
118345 CATAGACATG
* * * * * *
118355 TATTCACATAGCTCATTGTCATATTGCTTATATCACATTTTCAAA
1 TATTCACATAGATCA-TATCACATAGCTTATATCACAGTTTCACA
* * *
118400 TATTCACATAAATTATATCACATAGCTTATATCACAATTTCACA
1 TATTCACATAGATCATATCACATAGCTTATATCACAGTTTCACA
* *
118444 TAATCACATAGATCATATCACATAGCTTATATCATAGTTTCACA
1 TATTCACATAGATCATATCACATAGCTTATATCACAGTTTCACA
* * *
118488 TAATCACATAGATCATATCACATAACTTATATCACAGTTTCATA
1 TATTCACATAGATCATATCACATAGCTTATATCACAGTTTCACA
*
118532 TATTCACATAGATCATATCACATAGCTTATATCACAGTTTCATA
1 TATTCACATAGATCATATCACATAGCTTATATCACAGTTTCACA
118576 TATTCACATAGATCATATCACATAGC
1 TATTCACATAGATCATATCACATAGC
118602 AAAGAATATA
Statistics
Matches: 184, Mismatches: 18, Indels: 1
0.91 0.09 0.00
Matches are distributed among these distances:
44 172 0.93
45 12 0.07
ACGTcount: A:0.38, C:0.21, G:0.06, T:0.36
Consensus pattern (44 bp):
TATTCACATAGATCATATCACATAGCTTATATCACAGTTTCACA
Found at i:118465 original size:14 final size:14
Alignment explanation
Indices: 118446--118600 Score: 86
Period size: 14 Copynumber: 10.6 Consensus size: 14
118436 ATTTCACATA
118446 ATCACATAGATCAT
1 ATCACATAGATCAT
* *
118460 ATCACATAGCTTAT
1 ATCACATAGATCAT
*
118474 AT--CATAGTTTCACAT
1 ATCACATAG-AT--CAT
118489 AATCACATAGATCAT
1 -ATCACATAGATCAT
*
118504 ATCACATA-ACTTAT
1 ATCACATAGA-TCAT
**
118518 ATCACAGTTTCAT-AT
1 ATCACA--TAGATCAT
118533 ATTCACATAGATCAT
1 A-TCACATAGATCAT
* *
118548 ATCACATAGCTTAT
1 ATCACATAGATCAT
**
118562 ATCACAGTTTCAT-AT
1 ATCACA--TAGATCAT
118577 ATTCACATAGATCAT
1 A-TCACATAGATCAT
118592 ATCACATAG
1 ATCACATAG
118601 CAAAGAATAT
Statistics
Matches: 109, Mismatches: 16, Indels: 32
0.69 0.10 0.20
Matches are distributed among these distances:
12 5 0.05
13 2 0.02
14 62 0.57
15 17 0.16
16 16 0.15
17 2 0.02
18 5 0.05
ACGTcount: A:0.39, C:0.21, G:0.06, T:0.34
Consensus pattern (14 bp):
ATCACATAGATCAT
Found at i:118626 original size:88 final size:87
Alignment explanation
Indices: 118355--118629 Score: 232
Period size: 88 Copynumber: 3.1 Consensus size: 87
118345 CATAGACATG
* * * * * * * * *
118355 TATTCACATAGCTCATTGTCATATTGCTTATATCACATTTTCAAATATTCACATAAATTATATCA
1 TATTCACATAGATCA-TATCACATAGCTTATATCACAGTTTCACATAATCACATAGATCATATCA
**** * *
118420 CATAGCTTATATCACA-ATTTCACA
65 CATAAAGAATATAACAGA-TGCA-A
* *
118444 TAATCACATAGATCATATCACATAGCTTATATCATAGTTTCACATAATCACATAGATCATATCAC
1 TATTCACATAGATCATATCACATAGCTTATATCACAGTTTCACATAATCACATAGATCATATCAC
*** * * *
118509 ATAACTTATATCACAGTTTCATA
66 ATAAAGAATATAACAGATGCA-A
* *
118532 TATTCACATAGATCATATCACATAGCTTATATCACAGTTTCATATATTCACATAGATCATATCAC
1 TATTCACATAGATCATATCACATAGCTTATATCACAGTTTCACATAATCACATAGATCATATCAC
118597 ATAGCAAAGAATATAACA-ATGC-A
66 AT---AAAGAATATAACAGATGCAA
*
118620 TGTTCACATA
1 TATTCACATA
118630 CTAACAAATA
Statistics
Matches: 157, Mismatches: 25, Indels: 9
0.82 0.13 0.05
Matches are distributed among these distances:
88 133 0.85
89 13 0.08
90 2 0.01
91 9 0.06
ACGTcount: A:0.39, C:0.20, G:0.06, T:0.35
Consensus pattern (87 bp):
TATTCACATAGATCATATCACATAGCTTATATCACAGTTTCACATAATCACATAGATCATATCAC
ATAAAGAATATAACAGATGCAA
Found at i:120907 original size:29 final size:30
Alignment explanation
Indices: 120830--120942 Score: 95
Period size: 31 Copynumber: 3.7 Consensus size: 30
120820 AAAAAGTTTT
*
120830 AATAGTTTAGGTACATTATTTTGACAAAAAGA
1 AATACTTTAGGTAC-TTATTTT-ACAAAAAGA
120862 AATAACTTTAGGTACTTATTTT-CATAAAA-A
1 AAT-ACTTTAGGTACTTATTTTACA-AAAAGA
* ** * *
120892 AATACTTTAAGTACTTAAATAAAAAAGAAGA
1 AATACTTTAGGTACTTATTTTACAAA-AAGA
* *
120923 TATACTTTAAGTACTTATTT
1 AATACTTTAGGTACTTATTT
120943 GTGATATAAT
Statistics
Matches: 67, Mismatches: 9, Indels: 11
0.77 0.10 0.13
Matches are distributed among these distances:
29 16 0.24
30 9 0.13
31 22 0.33
32 10 0.15
33 10 0.15
ACGTcount: A:0.45, C:0.08, G:0.10, T:0.37
Consensus pattern (30 bp):
AATACTTTAGGTACTTATTTTACAAAAAGA
Found at i:122641 original size:15 final size:15
Alignment explanation
Indices: 122621--122652 Score: 64
Period size: 15 Copynumber: 2.1 Consensus size: 15
122611 CTCTATCATC
122621 CTCTATCATCCTCGT
1 CTCTATCATCCTCGT
122636 CTCTATCATCCTCGT
1 CTCTATCATCCTCGT
122651 CT
1 CT
122653 TCCATTAAAC
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 17 1.00
ACGTcount: A:0.12, C:0.41, G:0.06, T:0.41
Consensus pattern (15 bp):
CTCTATCATCCTCGT
Found at i:130317 original size:12 final size:13
Alignment explanation
Indices: 130290--130320 Score: 55
Period size: 13 Copynumber: 2.5 Consensus size: 13
130280 ATTTTCTCAC
130290 TATAATAAAAATA
1 TATAATAAAAATA
130303 TATAATAAAAA-A
1 TATAATAAAAATA
130315 TATAAT
1 TATAAT
130321 TTATCATAAA
Statistics
Matches: 18, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
12 7 0.39
13 11 0.61
ACGTcount: A:0.68, C:0.00, G:0.00, T:0.32
Consensus pattern (13 bp):
TATAATAAAAATA
Found at i:133442 original size:43 final size:44
Alignment explanation
Indices: 133367--133463 Score: 124
Period size: 43 Copynumber: 2.2 Consensus size: 44
133357 TTGTATTTCT
* ** * *
133367 AACTTATTTCTTACACTATGTTGGAGCAATTACTAGTATTACCC
1 AACTTATTTCTTAAACTATGTCAGAGCAATTACCAGCATTACCC
* *
133411 AACTTATTTC-TAAATTATGTCAGAGCTATTACCAGCATTACCC
1 AACTTATTTCTTAAACTATGTCAGAGCAATTACCAGCATTACCC
133454 AACTTATTTC
1 AACTTATTTC
133464 CTAAGATCTC
Statistics
Matches: 46, Mismatches: 7, Indels: 1
0.85 0.13 0.02
Matches are distributed among these distances:
43 36 0.78
44 10 0.22
ACGTcount: A:0.31, C:0.22, G:0.09, T:0.38
Consensus pattern (44 bp):
AACTTATTTCTTAAACTATGTCAGAGCAATTACCAGCATTACCC
Found at i:148437 original size:59 final size:59
Alignment explanation
Indices: 148347--148524 Score: 261
Period size: 59 Copynumber: 3.1 Consensus size: 59
148337 GTAGGGTTGG
** *
148347 TTAGAGCCATA-T-TCGAGTTTGATTTTTCATTGCAACTAGGAGGGTTCGATAGGACAC
1 TTAGAGCCATATTATCGAGTTTGCCTTTTCATTGTAACTAGGAGGGTTCGATAGGACAC
*
148404 TTAGAGCCATATTATCGAGTTTGCCTTTTCATTGTAACTAGGAGGGTTCGATAAGACAC
1 TTAGAGCCATATTATCGAGTTTGCCTTTTCATTGTAACTAGGAGGGTTCGATAGGACAC
* * ** *
148463 TTAGAGCCATATTATCGAGTTTGCCTTTTCATTGTGACTAAGAGGGTTTAATAGAACAC
1 TTAGAGCCATATTATCGAGTTTGCCTTTTCATTGTAACTAGGAGGGTTCGATAGGACAC
148522 TTA
1 TTA
148525 TCTATCTATT
Statistics
Matches: 109, Mismatches: 10, Indels: 2
0.90 0.08 0.02
Matches are distributed among these distances:
57 11 0.10
58 1 0.01
59 97 0.89
ACGTcount: A:0.28, C:0.16, G:0.22, T:0.35
Consensus pattern (59 bp):
TTAGAGCCATATTATCGAGTTTGCCTTTTCATTGTAACTAGGAGGGTTCGATAGGACAC
Done.