Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: VEPZ01009075.1 Hibiscus syriacus cultivar Beakdansim tig00112508_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: 1223780
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
File 1 of 7
Found at i:51 original size:23 final size:24
Alignment explanation
Indices: 25--98 Score: 107
Period size: 23 Copynumber: 3.2 Consensus size: 24
15 CATAATTCAA
*
25 GTCAAGTATCATATCA-AATCCAG
1 GTCAAGTATCAGATCAGAATCCAG
* *
48 GTCATGTATCAGATCAGAATCCAT
1 GTCAAGTATCAGATCAGAATCCAG
72 GTCAA-TATCAGATCAGAATCCAG
1 GTCAAGTATCAGATCAGAATCCAG
95 GTCA
1 GTCA
99 GGATCATATA
Statistics
Matches: 45, Mismatches: 5, Indels: 2
0.87 0.10 0.04
Matches are distributed among these distances:
23 35 0.78
24 10 0.22
ACGTcount: A:0.36, C:0.22, G:0.16, T:0.26
Consensus pattern (24 bp):
GTCAAGTATCAGATCAGAATCCAG
Found at i:104 original size:23 final size:23
Alignment explanation
Indices: 29--112 Score: 100
Period size: 23 Copynumber: 3.7 Consensus size: 23
19 ATTCAAGTCA
*
29 AGTATCATATCA-AATCCAGGTC
1 AGTATCAGATCAGAATCCAGGTC
*
51 ATGTATCAGATCAGAATCCATGTC
1 A-GTATCAGATCAGAATCCAGGTC
*
75 AATATCAGATCAGAATCCAGGTC
1 AGTATCAGATCAGAATCCAGGTC
* *
98 AGGATCATAT-AGAAT
1 AGTATCAGATCAGAAT
113 TCAAGTCGGA
Statistics
Matches: 53, Mismatches: 7, Indels: 4
0.83 0.11 0.06
Matches are distributed among these distances:
22 6 0.11
23 37 0.70
24 10 0.19
ACGTcount: A:0.38, C:0.19, G:0.17, T:0.26
Consensus pattern (23 bp):
AGTATCAGATCAGAATCCAGGTC
Found at i:2582 original size:15 final size:15
Alignment explanation
Indices: 2548--2604 Score: 55
Period size: 15 Copynumber: 3.8 Consensus size: 15
2538 TCAAAGTTTT
2548 GGTCAACAGTGGTCAAC
1 GGTCAAC-G-GGTCAAC
* *
2565 GGTCAATGGGTCATC
1 GGTCAACGGGTCAAC
*
2580 GGTCAACGGGTC--G
1 GGTCAACGGGTCAAC
2593 GGTCAACGGGTC
1 GGTCAACGGGTC
2605 GGGTCGGGTC
Statistics
Matches: 36, Mismatches: 4, Indels: 4
0.82 0.09 0.09
Matches are distributed among these distances:
13 12 0.33
15 17 0.47
16 1 0.03
17 6 0.17
ACGTcount: A:0.21, C:0.23, G:0.37, T:0.19
Consensus pattern (15 bp):
GGTCAACGGGTCAAC
Found at i:2598 original size:13 final size:13
Alignment explanation
Indices: 2580--2671 Score: 76
Period size: 13 Copynumber: 6.3 Consensus size: 13
2570 ATGGGTCATC
2580 GGTCAACGGGTCG
1 GGTCAACGGGTCG
2593 GGTCAACGGGTCGGGTCG
1 GGTCAA-----CGGGTCG
2611 GGTCAACGGGTCG
1 GGTCAACGGGTCG
*
2624 GGTAAACGGGTCGGGTCG
1 GGTCAA-----CGGGTCG
2642 GGTCAACGGGTCG
1 GGTCAACGGGTCG
*
2655 GGTAAACGGGTCG
1 GGTCAACGGGTCG
2668 GGTC
1 GGTC
2672 GGGTTGTGAC
Statistics
Matches: 65, Mismatches: 4, Indels: 20
0.73 0.04 0.22
Matches are distributed among these distances:
13 40 0.62
18 25 0.38
ACGTcount: A:0.15, C:0.21, G:0.48, T:0.16
Consensus pattern (13 bp):
GGTCAACGGGTCG
Found at i:2618 original size:31 final size:31
Alignment explanation
Indices: 2580--2675 Score: 183
Period size: 31 Copynumber: 3.1 Consensus size: 31
2570 ATGGGTCATC
*
2580 GGTCAACGGGTCGGGTCAACGGGTCGGGTCG
1 GGTCAACGGGTCGGGTAAACGGGTCGGGTCG
2611 GGTCAACGGGTCGGGTAAACGGGTCGGGTCG
1 GGTCAACGGGTCGGGTAAACGGGTCGGGTCG
2642 GGTCAACGGGTCGGGTAAACGGGTCGGGTCG
1 GGTCAACGGGTCGGGTAAACGGGTCGGGTCG
2673 GGT
1 GGT
2676 TGTGACCGGT
Statistics
Matches: 64, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
31 64 1.00
ACGTcount: A:0.15, C:0.20, G:0.49, T:0.17
Consensus pattern (31 bp):
GGTCAACGGGTCGGGTAAACGGGTCGGGTCG
Found at i:2675 original size:18 final size:18
Alignment explanation
Indices: 2586--2657 Score: 100
Period size: 18 Copynumber: 4.3 Consensus size: 18
2576 CATCGGTCAA
2586 CGGGTCGGGTCAACGGGT
1 CGGGTCGGGTCAACGGGT
2604 CGGGTCGGGTCAA-----
1 CGGGTCGGGTCAACGGGT
*
2617 CGGGTCGGGTAAACGGGT
1 CGGGTCGGGTCAACGGGT
2635 CGGGTCGGGTCAACGGGT
1 CGGGTCGGGTCAACGGGT
2653 CGGGT
1 CGGGT
2658 AAACGGGTCG
Statistics
Matches: 47, Mismatches: 2, Indels: 10
0.80 0.03 0.17
Matches are distributed among these distances:
13 12 0.26
18 35 0.74
ACGTcount: A:0.12, C:0.21, G:0.50, T:0.17
Consensus pattern (18 bp):
CGGGTCGGGTCAACGGGT
Found at i:7156 original size:29 final size:30
Alignment explanation
Indices: 7124--7184 Score: 81
Period size: 31 Copynumber: 2.0 Consensus size: 30
7114 ATACCTATGT
*
7124 TATATAC-AT-TTTAAATACTATATTATATA
1 TATATACAATATTTAAA-ACTATAATATATA
7153 TATATACATATATTTAAAACTATAATATATA
1 TATATACA-ATATTTAAAACTATAATATATA
7184 T
1 T
7185 TTATTTTTCT
Statistics
Matches: 28, Mismatches: 1, Indels: 4
0.85 0.03 0.12
Matches are distributed among these distances:
29 7 0.25
31 15 0.54
32 6 0.21
ACGTcount: A:0.48, C:0.07, G:0.00, T:0.46
Consensus pattern (30 bp):
TATATACAATATTTAAAACTATAATATATA
Found at i:7211 original size:28 final size:27
Alignment explanation
Indices: 7147--7245 Score: 100
Period size: 26 Copynumber: 3.7 Consensus size: 27
7137 AATACTATAT
* *
7147 TATATATATATACATATATT-T-AAAAC
1 TATA-ATATATATATATTTTCTAAAAAC
*
7173 TATAATATATATTTATTTTTCTAAAAAC
1 TATAATATATATATA-TTTTCTAAAAAC
7201 TAT-ATACTATATATATTTTCTAAAAAC
1 TATAATA-TATATATATTTTCTAAAAAC
7228 TAT--TGATATATATATTTT
1 TATAAT-ATATATATATTTT
7246 ATTATATATT
Statistics
Matches: 64, Mismatches: 4, Indels: 10
0.82 0.05 0.13
Matches are distributed among these distances:
25 9 0.14
26 20 0.31
27 20 0.31
28 15 0.23
ACGTcount: A:0.43, C:0.07, G:0.01, T:0.48
Consensus pattern (27 bp):
TATAATATATATATATTTTCTAAAAAC
Found at i:7237 original size:26 final size:26
Alignment explanation
Indices: 7149--7245 Score: 110
Period size: 27 Copynumber: 3.7 Consensus size: 26
7139 TACTATATTA
* *
7149 TATATATATACATATATT-T-AAAAC
1 TATATATATATATATTTTCTAAAAAC
*
7173 TATAATATATATTTATTTTTCTAAAAAC
1 TAT-ATATATATATA-TTTTCTAAAAAC
7201 TATATACTATATATATTTTCTAAAAAC
1 TATATA-TATATATATTTTCTAAAAAC
7228 TAT-TGATATATATATTTT
1 TATAT-ATATATATATTTT
7246 ATTATATATT
Statistics
Matches: 63, Mismatches: 4, Indels: 10
0.82 0.05 0.13
Matches are distributed among these distances:
24 3 0.05
25 9 0.14
26 16 0.25
27 20 0.32
28 15 0.24
ACGTcount: A:0.43, C:0.07, G:0.01, T:0.48
Consensus pattern (26 bp):
TATATATATATATATTTTCTAAAAAC
Found at i:10765 original size:12 final size:12
Alignment explanation
Indices: 10744--10784 Score: 64
Period size: 12 Copynumber: 3.3 Consensus size: 12
10734 CATAGAGAGA
*
10744 ATGAATGTGTGC
1 ATGAACGTGTGC
10756 ATGAACGTGTGC
1 ATGAACGTGTGC
10768 ATGAACGTGTTGC
1 ATGAACGTG-TGC
10781 ATGA
1 ATGA
10785 CACATGCACA
Statistics
Matches: 27, Mismatches: 1, Indels: 1
0.93 0.03 0.03
Matches are distributed among these distances:
12 20 0.74
13 7 0.26
ACGTcount: A:0.27, C:0.12, G:0.32, T:0.29
Consensus pattern (12 bp):
ATGAACGTGTGC
Found at i:10838 original size:29 final size:29
Alignment explanation
Indices: 10805--10892 Score: 131
Period size: 29 Copynumber: 3.0 Consensus size: 29
10795 ACCCAACCAA
* *
10805 TAGGTCGCCATGCCCTCTGGGCGACCTTG
1 TAGGTCGCCATGCACTCCGGGCGACCTTG
10834 TAGGTCGCCATGCACTCCGGGCGACCTTG
1 TAGGTCGCCATGCACTCCGGGCGACCTTG
* **
10863 TAGGTCGTCATGCACTCCCAGCGACCTTG
1 TAGGTCGCCATGCACTCCGGGCGACCTTG
10892 T
1 T
10893 CTCCTCTTGC
Statistics
Matches: 54, Mismatches: 5, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
29 54 1.00
ACGTcount: A:0.14, C:0.34, G:0.28, T:0.24
Consensus pattern (29 bp):
TAGGTCGCCATGCACTCCGGGCGACCTTG
Found at i:11162 original size:26 final size:27
Alignment explanation
Indices: 11110--11173 Score: 67
Period size: 26 Copynumber: 2.3 Consensus size: 27
11100 GAACATAAAA
**
11110 GAAAGAAAGGGAGAAGAAATTTCAGCC
1 GAAAGAAAGGGAGAAGAAATTGAAGCC
* *
11137 GAAA-AAATGGAGAAGATATTGAAGCC
1 GAAAGAAAGGGAGAAGAAATTGAAGCC
11163 GAGAAAGAAAG
1 --GAAAGAAAG
11174 AAAGGGAGAA
Statistics
Matches: 29, Mismatches: 5, Indels: 4
0.76 0.13 0.11
Matches are distributed among these distances:
26 18 0.62
27 4 0.14
28 4 0.14
29 3 0.10
ACGTcount: A:0.52, C:0.08, G:0.30, T:0.11
Consensus pattern (27 bp):
GAAAGAAAGGGAGAAGAAATTGAAGCC
Found at i:11191 original size:13 final size:13
Alignment explanation
Indices: 11168--11214 Score: 51
Period size: 14 Copynumber: 3.5 Consensus size: 13
11158 AAGCCGAGAA
11168 AGAAA-GAAAGGG
1 AGAAAGGAAAGGG
*
11180 AGAAAGGAAAGGA
1 AGAAAGGAAAGGG
*
11193 AGAAGAAGAAAGGG
1 AGAA-AGGAAAGGG
11207 AGATAAGG
1 AGA-AAGG
11215 CTCTTGTGAC
Statistics
Matches: 28, Mismatches: 4, Indels: 4
0.78 0.11 0.11
Matches are distributed among these distances:
12 5 0.18
13 10 0.36
14 12 0.43
15 1 0.04
ACGTcount: A:0.57, C:0.00, G:0.40, T:0.02
Consensus pattern (13 bp):
AGAAAGGAAAGGG
Found at i:12710 original size:14 final size:14
Alignment explanation
Indices: 12688--12721 Score: 59
Period size: 14 Copynumber: 2.4 Consensus size: 14
12678 AATCCTCTAT
*
12688 TTTAATATAAAATA
1 TTTATTATAAAATA
12702 TTTATTATAAAATA
1 TTTATTATAAAATA
12716 TTTATT
1 TTTATT
12722 TTGATTAAAA
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
14 19 1.00
ACGTcount: A:0.47, C:0.00, G:0.00, T:0.53
Consensus pattern (14 bp):
TTTATTATAAAATA
Found at i:12921 original size:23 final size:23
Alignment explanation
Indices: 12893--12937 Score: 72
Period size: 23 Copynumber: 2.0 Consensus size: 23
12883 TTTAATTATT
*
12893 ATTTAAATTAATTATATTATTTG
1 ATTTAAATCAATTATATTATTTG
*
12916 ATTTAAATCAATTTTATTATTT
1 ATTTAAATCAATTATATTATTT
12938 TTTAATTTTA
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
23 20 1.00
ACGTcount: A:0.38, C:0.02, G:0.02, T:0.58
Consensus pattern (23 bp):
ATTTAAATCAATTATATTATTTG
Found at i:12937 original size:18 final size:21
Alignment explanation
Indices: 12887--12942 Score: 67
Period size: 23 Copynumber: 2.6 Consensus size: 21
12877 GTTATTTTTA
*
12887 ATTATTATTTAAATTAATTAT
1 ATTATTATTTAAATCAATTAT
*
12908 ATTATTTGATTTAAATCAATTTT
1 ATTA-TT-ATTTAAATCAATTAT
*
12931 ATTATTTTTTAA
1 ATTATTATTTAA
12943 TTTTACAGTT
Statistics
Matches: 30, Mismatches: 3, Indels: 4
0.81 0.08 0.11
Matches are distributed among these distances:
21 9 0.30
22 4 0.13
23 17 0.57
ACGTcount: A:0.38, C:0.02, G:0.02, T:0.59
Consensus pattern (21 bp):
ATTATTATTTAAATCAATTAT
Found at i:13989 original size:59 final size:56
Alignment explanation
Indices: 13906--14026 Score: 161
Period size: 59 Copynumber: 2.1 Consensus size: 56
13896 TATTATAATT
* * * *
13906 TCATTACTAGTAATCATTAGTAAATCATTAGTATCAAATAATTAAATATTAATAATAAA
1 TCATTACTAATAATAATTACTAAATCATTAGCATCAAATAATTAAATATT--TAA-AAA
* *
13965 TCATTATTAATAATAATTACTAAATCATTAGCATCAAATCATTAAATATTTAAAAA
1 TCATTACTAATAATAATTACTAAATCATTAGCATCAAATAATTAAATATTTAAAAA
14021 TCATTA
1 TCATTA
14027 ATAAATTCGA
Statistics
Matches: 56, Mismatches: 6, Indels: 3
0.86 0.09 0.05
Matches are distributed among these distances:
56 9 0.16
57 3 0.05
59 44 0.79
ACGTcount: A:0.49, C:0.10, G:0.03, T:0.38
Consensus pattern (56 bp):
TCATTACTAATAATAATTACTAAATCATTAGCATCAAATAATTAAATATTTAAAAA
Found at i:14130 original size:11 final size:11
Alignment explanation
Indices: 14111--14150 Score: 53
Period size: 11 Copynumber: 3.6 Consensus size: 11
14101 ATTATTAATA
*
14111 ATTATTAAATC
1 ATTACTAAATC
14122 ATTACTAAATC
1 ATTACTAAATC
* *
14133 ATTATTAAATT
1 ATTACTAAATC
14144 ATTACTA
1 ATTACTA
14151 TTAAATTATT
Statistics
Matches: 25, Mismatches: 4, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
11 25 1.00
ACGTcount: A:0.45, C:0.10, G:0.00, T:0.45
Consensus pattern (11 bp):
ATTACTAAATC
Found at i:14147 original size:3 final size:3
Alignment explanation
Indices: 14141--14252 Score: 52
Period size: 3 Copynumber: 38.7 Consensus size: 3
14131 TCATTATTAA
* * * * * *
14141 ATT ATT ACT ATT A-A ATT ATT ATT ATA ATG ATT ATT ATT A-A ATC ATT
1 ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT
* * * * * * * *
14187 ATT ATC ATT ATT ATT A-A ATC ATT ATT ATA ATG ATT ATT ACT A-A ATA
1 ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT
* *
14233 ATT ATT ATA ATG ATT ATT AT
1 ATT ATT ATT ATT ATT ATT AT
14253 CAAATCATTA
Statistics
Matches: 81, Mismatches: 24, Indels: 8
0.72 0.21 0.07
Matches are distributed among these distances:
2 4 0.05
3 77 0.95
ACGTcount: A:0.42, C:0.04, G:0.03, T:0.51
Consensus pattern (3 bp):
ATT
Found at i:14152 original size:14 final size:14
Alignment explanation
Indices: 14133--14262 Score: 84
Period size: 14 Copynumber: 10.1 Consensus size: 14
14123 TTACTAAATC
14133 ATTATTAAATTATT
1 ATTATTAAATTATT
*
14147 ACTATTAAATTATT
1 ATTATTAAATTATT
*
14161 ATTA-T-AATGATT
1 ATTATTAAATTATT
*
14173 ATTATT-AA--ATC
1 ATTATTAAATTATT
*
14184 ATTATT--ATCATT
1 ATTATTAAATTATT
*
14196 ATTATTAAATCATT
1 ATTATTAAATTATT
*
14210 ATTA-T-AATGATT
1 ATTATTAAATTATT
* *
14222 ATTACTAAATAATT
1 ATTATTAAATTATT
*
14236 ATTA-T-AATGATT
1 ATTATTAAATTATT
* *
14248 ATTATCAAATCATT
1 ATTATTAAATTATT
14262 A
1 A
14263 CTAAATCATC
Statistics
Matches: 97, Mismatches: 10, Indels: 18
0.78 0.08 0.14
Matches are distributed among these distances:
10 1 0.01
11 8 0.08
12 38 0.39
13 7 0.07
14 43 0.44
ACGTcount: A:0.43, C:0.05, G:0.02, T:0.49
Consensus pattern (14 bp):
ATTATTAAATTATT
Found at i:14180 original size:26 final size:26
Alignment explanation
Indices: 14122--14262 Score: 182
Period size: 26 Copynumber: 5.6 Consensus size: 26
14112 TTATTAAATC
* *
14122 ATTACTAAATCATTATTA-AATTATT
1 ATTATTAAATCATTATTATAATGATT
* *
14147 ACTATTAAATTATTATTATAATGATT
1 ATTATTAAATCATTATTATAATGATT
*
14173 ATTATTAAATCATTA-T-T-ATCATT
1 ATTATTAAATCATTATTATAATGATT
14196 ATTATTAAATCATTATTATAATGATT
1 ATTATTAAATCATTATTATAATGATT
* *
14222 ATTACTAAATAATTATTATAATGATT
1 ATTATTAAATCATTATTATAATGATT
*
14248 ATTATCAAATCATTA
1 ATTATTAAATCATTA
14263 CTAAATCATC
Statistics
Matches: 99, Mismatches: 13, Indels: 7
0.83 0.11 0.06
Matches are distributed among these distances:
23 20 0.20
24 2 0.02
25 17 0.17
26 60 0.61
ACGTcount: A:0.43, C:0.06, G:0.02, T:0.48
Consensus pattern (26 bp):
ATTATTAAATCATTATTATAATGATT
Found at i:14213 original size:49 final size:49
Alignment explanation
Indices: 14127--14262 Score: 102
Period size: 49 Copynumber: 2.7 Consensus size: 49
14117 AAATCATTAC
* * * *
14127 TAAATCATTATTA-AATTATTACTATTAAATTATTATTATAATGATTATTAT
1 TAAATCATTATTATAATGATTATTACTAAATCATTATTATAAT---TATTAT
* * *
14178 TAAATCATTA-T-T-ATCATTATTATTAAATCATTATTATAATGATTATTAC
1 TAAATCATTATTATAATGATTATTACTAAATCATTATTAT-A--ATTATTAT
*
14227 TAAATAATTATTATAATGATTATTA-TCAAATCATTA
1 TAAATCATTATTATAATGATTATTACT-AAATCATTA
14263 CTAAATCATC
Statistics
Matches: 71, Mismatches: 6, Indels: 15
0.77 0.07 0.16
Matches are distributed among these distances:
49 36 0.51
50 3 0.04
51 12 0.17
52 20 0.28
ACGTcount: A:0.43, C:0.06, G:0.02, T:0.49
Consensus pattern (49 bp):
TAAATCATTATTATAATGATTATTACTAAATCATTATTATAATTATTAT
Found at i:14275 original size:19 final size:18
Alignment explanation
Indices: 14251--14306 Score: 55
Period size: 19 Copynumber: 3.1 Consensus size: 18
14241 AATGATTATT
14251 ATCAAATCATTACTAAATC
1 ATCAAATCATTA-TAAATC
14270 ATCAAATCA--ATAAAT-
1 ATCAAATCATTATAAATC
*
14285 ATTAAAATCATTATTAAATC
1 A-TCAAATCATTA-TAAATC
14305 AT
1 AT
14307 TTTTAAATTA
Statistics
Matches: 31, Mismatches: 1, Indels: 10
0.74 0.02 0.24
Matches are distributed among these distances:
15 1 0.03
16 12 0.39
17 1 0.03
18 1 0.03
19 15 0.48
20 1 0.03
ACGTcount: A:0.52, C:0.14, G:0.00, T:0.34
Consensus pattern (18 bp):
ATCAAATCATTATAAATC
Found at i:14322 original size:109 final size:109
Alignment explanation
Indices: 14175--14387 Score: 356
Period size: 109 Copynumber: 2.0 Consensus size: 109
14165 TAATGATTAT
* *
14175 TATTAAATCATTATTATCATTATTATTAAATCATTATTATAATGATTATTACTAAATAATTATTA
1 TATTAAATCATTATTATAATCATTATTAAATCATTATTATAATGATTATTACTAAATAATTATTA
14240 TAATGATTATTATCAAATCATTACTAAATCATCAAATCAATAAA
66 TAATGATTATTATCAAATCATTACTAAATCATCAAATCAATAAA
* * *
14284 TATTAAAATCATTATTA-AATCATTTTTAAATTATTATTATAATGATTATTACTAAATCATTATT
1 TATT-AAATCATTATTATAATCATTATTAAATCATTATTATAATGATTATTACTAAATAATTATT
*
14348 ATAATGATTATTATCAAATCCTTACTAAATCATCAAATCA
65 ATAATGATTATTATCAAATCATTACTAAATCATCAAATCA
14388 TCATAAATGT
Statistics
Matches: 97, Mismatches: 6, Indels: 2
0.92 0.06 0.02
Matches are distributed among these distances:
109 85 0.88
110 12 0.12
ACGTcount: A:0.45, C:0.10, G:0.02, T:0.44
Consensus pattern (109 bp):
TATTAAATCATTATTATAATCATTATTAAATCATTATTATAATGATTATTACTAAATAATTATTA
TAATGATTATTATCAAATCATTACTAAATCATCAAATCAATAAA
Found at i:14340 original size:26 final size:25
Alignment explanation
Indices: 14098--14366 Score: 140
Period size: 26 Copynumber: 11.0 Consensus size: 25
14088 TTATTCCATA
* *
14098 ATTATTATTAATAATTA-T-TAAATC
1 ATTATTA-TAATCATTATTATAAATT
*
14122 ATTACTA-AATCATTA-T-TAAATT
1 ATTATTATAATCATTATTATAAATT
* *
14144 ATTACTATTAAATTATTATTATAATGATT
1 ATTATTA-T-AATCATTATTATAA--ATT
*
14173 ATTATTA-AATCATTATTAT-CATT
1 ATTATTATAATCATTATTATAAATT
*
14196 ATTATTA-AATCATTATTAT-AATG
1 ATTATTATAATCATTATTATAAATT
* *
14219 ATTATTACTAAATAATTATTAT-AATG
1 ATTATTA-T-AATCATTATTATAAATT
* *
14245 ATTATTATCAAATCATTA--CTAAATC
1 ATTATTAT--AATCATTATTATAAATT
* * * * *
14270 ATCA-AATCAATAAATATTA-AAATC
1 ATTATTAT-AATCATTATTATAAATT
14294 ATTATTA-AATCATT-TT-TAAATT
1 ATTATTATAATCATTATTATAAATT
* *
14316 ATTATTATAATGATTATTACTAAATC
1 ATTATTATAATCATTATTA-TAAATT
*
14342 ATTATTATAATGATTATTATCAAAT
1 ATTATTATAATCATTATTAT-AAAT
14367 CCTTACTAAA
Statistics
Matches: 198, Mismatches: 26, Indels: 40
0.75 0.10 0.15
Matches are distributed among these distances:
22 33 0.17
23 48 0.24
24 19 0.10
25 16 0.08
26 70 0.35
27 3 0.02
29 9 0.05
ACGTcount: A:0.45, C:0.07, G:0.02, T:0.46
Consensus pattern (25 bp):
ATTATTATAATCATTATTATAAATT
Found at i:14557 original size:21 final size:20
Alignment explanation
Indices: 14530--14607 Score: 63
Period size: 18 Copynumber: 3.9 Consensus size: 20
14520 ATAATTTCAT
14530 TATTACTAATAATTACTAAA
1 TATTACTAATAATTACTAAA
* *
14550 TCATTACT-ATCAAATCATTAAA
1 T-ATTACTAAT--AATTACTAAA
* *
14572 TATTAATAATAATT--TAAG
1 TATTACTAATAATTACTAAA
*
14590 TATTGCTAATAATTACTA
1 TATTACTAATAATTACTA
14608 CCAAATCATT
Statistics
Matches: 45, Mismatches: 7, Indels: 12
0.70 0.11 0.19
Matches are distributed among these distances:
18 15 0.33
20 8 0.18
21 11 0.24
22 11 0.24
ACGTcount: A:0.46, C:0.10, G:0.03, T:0.41
Consensus pattern (20 bp):
TATTACTAATAATTACTAAA
Found at i:14613 original size:49 final size:49
Alignment explanation
Indices: 14541--14754 Score: 356
Period size: 49 Copynumber: 4.3 Consensus size: 49
14531 ATTACTAATA
* * *
14541 ATTACTAAATCATTACTATCAAATCATTAAATATTAATAATAATTTAAGT
1 ATTACT-AATCATTACTACCAAATCATTAAATATTAATAATAATTTCATT
* *
14591 ATTGCTAATAATTACTACCAAATCATTAAATATTAATAATAATTTCATT
1 ATTACTAATCATTACTACCAAATCATTAAATATTAATAATAATTTCATT
14640 ATTACTAATCATTACTACCAAATCATTAAATATTAATAATAATTTCATT
1 ATTACTAATCATTACTACCAAATCATTAAATATTAATAATAATTTCATT
*
14689 ATTACTAATCATTACTATCAAATCATTAAATATTAATAATAATTTCATT
1 ATTACTAATCATTACTACCAAATCATTAAATATTAATAATAATTTCATT
*
14738 ATTATTAATCATTACTA
1 ATTACTAATCATTACTA
14755 AATAGTTATT
Statistics
Matches: 155, Mismatches: 9, Indels: 1
0.94 0.05 0.01
Matches are distributed among these distances:
49 150 0.97
50 5 0.03
ACGTcount: A:0.45, C:0.12, G:0.01, T:0.42
Consensus pattern (49 bp):
ATTACTAATCATTACTACCAAATCATTAAATATTAATAATAATTTCATT
Found at i:14627 original size:28 final size:28
Alignment explanation
Indices: 14596--14679 Score: 74
Period size: 28 Copynumber: 3.2 Consensus size: 28
14586 TAAGTATTGC
14596 TAATAATTACTACCAAATCATTAAATAT
1 TAATAATTACTACCAAATCATTAAATAT
** * *
14624 TAAT-A--A-TA--ATTTCATT-ATTAC
1 TAATAATTACTACCAAATCATTAAATAT
*
14645 TAATCATTACTACCAAATCATTAAATAT
1 TAATAATTACTACCAAATCATTAAATAT
14673 TAATAAT
1 TAATAAT
14680 AATTTCATTA
Statistics
Matches: 40, Mismatches: 9, Indels: 14
0.63 0.14 0.22
Matches are distributed among these distances:
21 7 0.17
22 7 0.17
24 3 0.08
25 3 0.08
27 7 0.17
28 13 0.32
ACGTcount: A:0.48, C:0.13, G:0.00, T:0.39
Consensus pattern (28 bp):
TAATAATTACTACCAAATCATTAAATAT
Found at i:18043 original size:22 final size:23
Alignment explanation
Indices: 18018--18061 Score: 63
Period size: 23 Copynumber: 2.0 Consensus size: 23
18008 ACATATAATA
*
18018 TAAATTAA-ACAAAATATTTTTT
1 TAAAATAACACAAAATATTTTTT
*
18040 TAAAATAACACTAAATATTTTT
1 TAAAATAACACAAAATATTTTT
18062 AAACACAATA
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
22 7 0.37
23 12 0.63
ACGTcount: A:0.50, C:0.07, G:0.00, T:0.43
Consensus pattern (23 bp):
TAAAATAACACAAAATATTTTTT
Found at i:19911 original size:20 final size:20
Alignment explanation
Indices: 19883--19934 Score: 95
Period size: 20 Copynumber: 2.6 Consensus size: 20
19873 TTTTCCGACT
*
19883 ATCGTAATGCGAATATGTAA
1 ATCGCAATGCGAATATGTAA
19903 ATCGCAATGCGAATATGTAA
1 ATCGCAATGCGAATATGTAA
19923 ATCGCAATGCGA
1 ATCGCAATGCGA
19935 TTCTGACTAT
Statistics
Matches: 31, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
20 31 1.00
ACGTcount: A:0.38, C:0.15, G:0.21, T:0.25
Consensus pattern (20 bp):
ATCGCAATGCGAATATGTAA
Found at i:19946 original size:20 final size:20
Alignment explanation
Indices: 19923--19990 Score: 109
Period size: 20 Copynumber: 3.4 Consensus size: 20
19913 GAATATGTAA
*
19923 ATCGCAATGCGATTCTGACT
1 ATCGCAACGCGATTCTGACT
*
19943 ATCGCAACGAGATTCTGACT
1 ATCGCAACGCGATTCTGACT
*
19963 ATCGTAACGCGATTCTGACT
1 ATCGCAACGCGATTCTGACT
19983 ATCGCAAC
1 ATCGCAAC
19991 ACTGAATTTC
Statistics
Matches: 43, Mismatches: 5, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
20 43 1.00
ACGTcount: A:0.28, C:0.26, G:0.19, T:0.26
Consensus pattern (20 bp):
ATCGCAACGCGATTCTGACT
Found at i:19947 original size:40 final size:40
Alignment explanation
Indices: 19903--19990 Score: 97
Period size: 40 Copynumber: 2.2 Consensus size: 40
19893 GAATATGTAA
* * *
19903 ATCGCAATGCGAATATGTA-AATCGCAATGCGATTCTGACT
1 ATCGCAACGAGAATATG-ACAATCGCAACGCGATTCTGACT
* * * *
19943 ATCGCAACGAGATTCTGACTATCGTAACGCGATTCTGACT
1 ATCGCAACGAGAATATGACAATCGCAACGCGATTCTGACT
19983 ATCGCAAC
1 ATCGCAAC
19991 ACTGAATTTC
Statistics
Matches: 40, Mismatches: 7, Indels: 2
0.82 0.14 0.04
Matches are distributed among these distances:
39 1 0.03
40 39 0.98
ACGTcount: A:0.31, C:0.24, G:0.19, T:0.26
Consensus pattern (40 bp):
ATCGCAACGAGAATATGACAATCGCAACGCGATTCTGACT
Found at i:20861 original size:24 final size:24
Alignment explanation
Indices: 20804--20863 Score: 84
Period size: 24 Copynumber: 2.5 Consensus size: 24
20794 TAGTCGGTAT
20804 TCGAAATTTGATCTTGGTCAATAC
1 TCGAAATTTGATCTTGGTCAATAC
* * *
20828 CCGGACTTTGATCTTGGTCAATAC
1 TCGAAATTTGATCTTGGTCAATAC
*
20852 TCGAATTTTGAT
1 TCGAAATTTGAT
20864 GATGTTTCAG
Statistics
Matches: 30, Mismatches: 6, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
24 30 1.00
ACGTcount: A:0.25, C:0.18, G:0.18, T:0.38
Consensus pattern (24 bp):
TCGAAATTTGATCTTGGTCAATAC
Found at i:21082 original size:14 final size:14
Alignment explanation
Indices: 21063--21089 Score: 54
Period size: 14 Copynumber: 1.9 Consensus size: 14
21053 GAATAAGAAA
21063 TCCCCGAAGAAAAG
1 TCCCCGAAGAAAAG
21077 TCCCCGAAGAAAA
1 TCCCCGAAGAAAA
21090 TGCCACGGGA
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 13 1.00
ACGTcount: A:0.44, C:0.30, G:0.19, T:0.07
Consensus pattern (14 bp):
TCCCCGAAGAAAAG
Found at i:23445 original size:140 final size:140
Alignment explanation
Indices: 23190--23459 Score: 495
Period size: 140 Copynumber: 1.9 Consensus size: 140
23180 AAACGTTGTA
23190 TTATGTGTAAACTTTTAACATTTTCAGTTAGGCATGTATTAGTAACATGAGTTTGAACATTGCTA
1 TTATGTGTAAACTTTTAACATTTTCAGTTAGGCATGTATTAGTAACATGAGTTTGAACATTGCTA
*
23255 TGATCTGTTCAGTTGTTATCACTTATTACACATTCATTTGAATATCGCAACGCGAATTTGACTAT
66 TGATATGTTCAGTTGTTATCACTTATTACACATTCATTTGAATATCGCAACGCGAATTTGACTAT
23320 TATGTGTATT
131 TATGTGTATT
* *
23330 TTATGTGTAAACTTTTAACATTTTCAGTTAGGCATGTATTAGTAACTTGAGTTTGAACATTTCTA
1 TTATGTGTAAACTTTTAACATTTTCAGTTAGGCATGTATTAGTAACATGAGTTTGAACATTGCTA
* *
23395 TGGTATGTTCAGTTGTTATCACTTATTACACATTCATTTGAATATTGCAACGCGAATTTGACTAT
66 TGATATGTTCAGTTGTTATCACTTATTACACATTCATTTGAATATCGCAACGCGAATTTGACTAT
23460 CGTAACGTGA
Statistics
Matches: 125, Mismatches: 5, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
140 125 1.00
ACGTcount: A:0.29, C:0.13, G:0.16, T:0.43
Consensus pattern (140 bp):
TTATGTGTAAACTTTTAACATTTTCAGTTAGGCATGTATTAGTAACATGAGTTTGAACATTGCTA
TGATATGTTCAGTTGTTATCACTTATTACACATTCATTTGAATATCGCAACGCGAATTTGACTAT
TATGTGTATT
Found at i:23455 original size:20 final size:20
Alignment explanation
Indices: 23430--23708 Score: 137
Period size: 20 Copynumber: 14.8 Consensus size: 20
23420 TTACACATTC
*
23430 ATTTGAATATTGCAACGCGA
1 ATTTGAATATCGCAACGCGA
* * *
23450 ATTTGACTATCGTAACGTGA
1 ATTTGAATATCGCAACGCGA
* *
23470 ATTTGATTATCGCAACTC-A
1 ATTTGAATATCGCAACGCGA
* *
23489 A----AA-ATCACAACGTGA
1 ATTTGAATATCGCAACGCGA
* **
23504 ATTTGACTATCGCAACAAGA
1 ATTTGAATATCGCAACGCGA
* *
23524 ATATGACTATCGCAACGC-A
1 ATTTGAATATCGCAACGCGA
23543 A----AA-ATCGCAACGCGA
1 ATTTGAATATCGCAACGCGA
** *
23558 ATTTGTCTATCACAACGCGA
1 ATTTGAATATCGCAACGCGA
* *
23578 ATTTGACTATCGCAACACGA
1 ATTTGAATATCGCAACGCGA
* *
23598 ATTTGATTATCGCAACGAC-T
1 ATTTGAATATCGCAACG-CGA
* *
23618 ATTTGACTATCGTAA--CG-
1 ATTTGAATATCGCAACGCGA
*
23635 A---GAAAATCGCAACGCGA
1 ATTTGAATATCGCAACGCGA
* * *
23652 ATTTGAGTATCGCAACACAA
1 ATTTGAATATCGCAACGCGA
* * *
23672 ATTTGATTATCGCAACGGGT
1 ATTTGAATATCGCAACGCGA
* *
23692 ATTTGACTATCGTAACG
1 ATTTGAATATCGCAACG
23709 AGAAAATCGC
Statistics
Matches: 194, Mismatches: 45, Indels: 40
0.70 0.16 0.14
Matches are distributed among these distances:
14 25 0.13
15 6 0.03
16 2 0.01
17 3 0.02
19 5 0.03
20 152 0.78
21 1 0.01
ACGTcount: A:0.35, C:0.20, G:0.17, T:0.27
Consensus pattern (20 bp):
ATTTGAATATCGCAACGCGA
Found at i:23535 original size:54 final size:54
Alignment explanation
Indices: 23442--23593 Score: 205
Period size: 54 Copynumber: 2.8 Consensus size: 54
23432 TTGAATATTG
* * * *
23442 CAACGCGAATTTGACTATCGTAACGTGAATTTGATTATCGCAACTCAAAAATCA
1 CAACGCGAATTTGACTATCGCAACGAGAATTTGACTATCGCAACGCAAAAATCA
* * * *
23496 CAACGTGAATTTGACTATCGCAACAAGAATATGACTATCGCAACGCAAAAATCG
1 CAACGCGAATTTGACTATCGCAACGAGAATTTGACTATCGCAACGCAAAAATCA
* * *
23550 CAACGCGAATTTGTCTATCACAACGCGAATTTGACTATCGCAAC
1 CAACGCGAATTTGACTATCGCAACGAGAATTTGACTATCGCAAC
23594 ACGAATTTGA
Statistics
Matches: 84, Mismatches: 14, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
54 84 1.00
ACGTcount: A:0.37, C:0.23, G:0.16, T:0.24
Consensus pattern (54 bp):
CAACGCGAATTTGACTATCGCAACGAGAATTTGACTATCGCAACGCAAAAATCA
Found at i:23645 original size:34 final size:33
Alignment explanation
Indices: 23606--23735 Score: 91
Period size: 34 Copynumber: 3.6 Consensus size: 33
23596 GAATTTGATT
23606 ATCGCAACGACTATTTGACTATCGTAACGAGAAA
1 ATCGCAACG-CTATTTGACTATCGTAACGAGAAA
* * * *
23640 ATCGCAACGCGAATTTGAGTATCGCAAC-ACAAATTTGA
1 ATCGCAACGC-TATTTGACTATCGTAACGA-GAA----A
*
23678 TTATCGCAACGGGTATTTGACTATCGTAACGAGAAA
1 --ATCGCAAC-GCTATTTGACTATCGTAACGAGAAA
* *
23714 ATCGCAAAGCGTATTAGACTAT
1 ATCGCAACGC-TATTTGACTAT
23736 AAAAACGCGA
Statistics
Matches: 73, Mismatches: 12, Indels: 22
0.68 0.11 0.21
Matches are distributed among these distances:
33 3 0.04
34 42 0.58
36 1 0.01
38 1 0.01
40 24 0.33
41 2 0.03
ACGTcount: A:0.36, C:0.19, G:0.19, T:0.25
Consensus pattern (33 bp):
ATCGCAACGCTATTTGACTATCGTAACGAGAAA
Found at i:23648 original size:74 final size:74
Alignment explanation
Indices: 23570--23735 Score: 269
Period size: 74 Copynumber: 2.2 Consensus size: 74
23560 TTGTCTATCA
*
23570 CAACGCGAATTTGACTATCGCAACACGAATTTGATTATCGCAACGACTATTTGACTATCGTAACG
1 CAACGCGAATTTGACTATCGCAACACAAATTTGATTATCGCAACGACTATTTGACTATCGTAACG
23635 AGAAAATCG
66 AGAAAATCG
* **
23644 CAACGCGAATTTGAGTATCGCAACACAAATTTGATTATCGCAACGGGTATTTGACTATCGTAACG
1 CAACGCGAATTTGACTATCGCAACACAAATTTGATTATCGCAACGACTATTTGACTATCGTAACG
23709 AGAAAATCG
66 AGAAAATCG
* * *
23718 CAAAGCGTATTAGACTAT
1 CAACGCGAATTTGACTAT
23736 AAAAACGCGA
Statistics
Matches: 84, Mismatches: 8, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
74 84 1.00
ACGTcount: A:0.36, C:0.20, G:0.19, T:0.26
Consensus pattern (74 bp):
CAACGCGAATTTGACTATCGCAACACAAATTTGATTATCGCAACGACTATTTGACTATCGTAACG
AGAAAATCG
Found at i:23676 original size:54 final size:54
Alignment explanation
Indices: 23586--23688 Score: 145
Period size: 54 Copynumber: 1.9 Consensus size: 54
23576 GAATTTGACT
* * *
23586 ATCGCAACACGAATTTGATTATCGCAACGACTATTTGACTATCGTAACGAGAAA
1 ATCGCAACACGAATTTGAGTATCGCAACGACAATTTGACTATCGCAACGAGAAA
* *
23640 ATCGCAACGCGAATTTGAGTATCGCAAC-ACAAATTTGATTATCGCAACG
1 ATCGCAACACGAATTTGAGTATCGCAACGAC-AATTTGACTATCGCAACG
23689 GGTATTTGAC
Statistics
Matches: 43, Mismatches: 5, Indels: 2
0.86 0.10 0.04
Matches are distributed among these distances:
53 2 0.05
54 41 0.95
ACGTcount: A:0.36, C:0.21, G:0.17, T:0.25
Consensus pattern (54 bp):
ATCGCAACACGAATTTGAGTATCGCAACGACAATTTGACTATCGCAACGAGAAA
Found at i:23709 original size:94 final size:94
Alignment explanation
Indices: 23502--23709 Score: 256
Period size: 94 Copynumber: 2.2 Consensus size: 94
23492 ATCACAACGT
* * *
23502 GAATTTGACTATCGCAACAAGAATATGACTATCGCAACGCAAAAATCGCAACGCGAATTTGTCTA
1 GAATTTGACTATCGCAACGACAATATGACTATCGCAACGCAAAAATCGCAACGCGAATTTGACTA
* *
23567 TCACAACGCGAATTTGACTATCGCAACAC
66 TCACAACACAAATTTGACTATCGCAACAC
* * * * *
23596 GAATTTGATTATCGCAACGACTATTTGACTATCGTAACG-AGAAAATCGCAACGCGAATTTGAGT
1 GAATTTGACTATCGCAACGACAATATGACTATCGCAACGCA-AAAATCGCAACGCGAATTTGACT
* * **
23660 ATCGCAACACAAATTTGATTATCGCAACGG
65 ATCACAACACAAATTTGACTATCGCAACAC
* *
23690 GTATTTGACTATCGTAACGA
1 GAATTTGACTATCGCAACGA
23710 GAAAATCGCA
Statistics
Matches: 96, Mismatches: 17, Indels: 2
0.83 0.15 0.02
Matches are distributed among these distances:
93 1 0.01
94 95 0.99
ACGTcount: A:0.36, C:0.21, G:0.18, T:0.25
Consensus pattern (94 bp):
GAATTTGACTATCGCAACGACAATATGACTATCGCAACGCAAAAATCGCAACGCGAATTTGACTA
TCACAACACAAATTTGACTATCGCAACAC
Found at i:23776 original size:20 final size:20
Alignment explanation
Indices: 23759--23804 Score: 65
Period size: 20 Copynumber: 2.3 Consensus size: 20
23749 GACTTTCGTG
23759 TTGCGATTTTGTCTTTCGCA
1 TTGCGATTTTGTCTTTCGCA
** *
23779 TTGCGATTTTGAGTTTAGCA
1 TTGCGATTTTGTCTTTCGCA
23799 TTGCGA
1 TTGCGA
23805 AAGTGTACCT
Statistics
Matches: 23, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
20 23 1.00
ACGTcount: A:0.15, C:0.15, G:0.24, T:0.46
Consensus pattern (20 bp):
TTGCGATTTTGTCTTTCGCA
Found at i:23963 original size:14 final size:14
Alignment explanation
Indices: 23903--23964 Score: 61
Period size: 14 Copynumber: 4.3 Consensus size: 14
23893 CACAAATAAG
*
23903 AATTATTTACACATC
1 AATT-TTTACAAATC
**
23918 AATATTAAACAAATC
1 AAT-TTTTACAAATC
*
23933 AACTTTTACAAATC
1 AATTTTTACAAATC
*
23947 AATTTTTATAAATC
1 AATTTTTACAAATC
23961 AATT
1 AATT
23965 AAACAAGAAA
Statistics
Matches: 38, Mismatches: 8, Indels: 3
0.78 0.16 0.06
Matches are distributed among these distances:
14 25 0.66
15 12 0.32
16 1 0.03
ACGTcount: A:0.47, C:0.15, G:0.00, T:0.39
Consensus pattern (14 bp):
AATTTTTACAAATC
Found at i:25451 original size:42 final size:42
Alignment explanation
Indices: 25353--25464 Score: 111
Period size: 42 Copynumber: 2.7 Consensus size: 42
25343 TCTAGAATGT
* * * * *
25353 TGGGAG-GGACCTCTTCAACGATGACAGTGACCTCTTGAACGG
1 TGGGAGAGGA-CTCTTGAACGATGATAGGGGCCTCTTGAACGA
* **
25395 TGGGAGGGGACTCTTGAGGGATGATAGGGGCCTCTTGAACGA
1 TGGGAGAGGACTCTTGAACGATGATAGGGGCCTCTTGAACGA
*
25437 TAGGG-GAGGCCTCTTGAACGATGATAGG
1 T-GGGAGAGGACTCTTGAACGATGATAGG
25465 TGAGTCGGGC
Statistics
Matches: 57, Mismatches: 11, Indels: 4
0.79 0.15 0.06
Matches are distributed among these distances:
42 51 0.89
43 6 0.11
ACGTcount: A:0.23, C:0.18, G:0.38, T:0.21
Consensus pattern (42 bp):
TGGGAGAGGACTCTTGAACGATGATAGGGGCCTCTTGAACGA
Found at i:25986 original size:20 final size:20
Alignment explanation
Indices: 25961--26016 Score: 67
Period size: 20 Copynumber: 2.8 Consensus size: 20
25951 TTGCAATAAG
*
25961 AATGACTATCACAATGCGAA
1 AATGACTATCACAACGCGAA
*
25981 AATGACTATCGCAACGCGAA
1 AATGACTATCACAACGCGAA
** *
26001 TTTGACTATCGCAACG
1 AATGACTATCACAACG
26017 AGAGAATCAC
Statistics
Matches: 32, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
20 32 1.00
ACGTcount: A:0.38, C:0.23, G:0.18, T:0.21
Consensus pattern (20 bp):
AATGACTATCACAACGCGAA
Found at i:26084 original size:20 final size:20
Alignment explanation
Indices: 26059--26123 Score: 112
Period size: 20 Copynumber: 3.2 Consensus size: 20
26049 GCGATTCTCT
**
26059 CGTTGCGATAGTCAAATTCG
1 CGTTGCGATAGTCATTTTCG
26079 CGTTGCGATAGTCATTTTCG
1 CGTTGCGATAGTCATTTTCG
26099 CGTTGCGATAGTCATTTTCG
1 CGTTGCGATAGTCATTTTCG
26119 CGTTG
1 CGTTG
26124 TGAAAGTAAA
Statistics
Matches: 43, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
20 43 1.00
ACGTcount: A:0.17, C:0.20, G:0.26, T:0.37
Consensus pattern (20 bp):
CGTTGCGATAGTCATTTTCG
Found at i:26297 original size:18 final size:18
Alignment explanation
Indices: 26274--26323 Score: 100
Period size: 18 Copynumber: 2.8 Consensus size: 18
26264 TTTACTAAGC
26274 AATCTAAGTGAAATGGTT
1 AATCTAAGTGAAATGGTT
26292 AATCTAAGTGAAATGGTT
1 AATCTAAGTGAAATGGTT
26310 AATCTAAGTGAAAT
1 AATCTAAGTGAAAT
26324 TACGAGTAAA
Statistics
Matches: 32, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
18 32 1.00
ACGTcount: A:0.42, C:0.06, G:0.20, T:0.32
Consensus pattern (18 bp):
AATCTAAGTGAAATGGTT
Found at i:28077 original size:20 final size:20
Alignment explanation
Indices: 28052--28121 Score: 79
Period size: 20 Copynumber: 3.5 Consensus size: 20
28042 TCTGAAAGTT
28052 AAAATCGCAACACCAAAATG
1 AAAATCGCAACACCAAAATG
**
28072 AAAATCGCAACATGAAAATG
1 AAAATCGCAACACCAAAATG
** * *
28092 ACTATCGCAAC-GCGAAATG
1 AAAATCGCAACACCAAAATG
28111 AAAATCGCAAC
1 AAAATCGCAAC
28122 GCGAAACTAA
Statistics
Matches: 41, Mismatches: 9, Indels: 1
0.80 0.18 0.02
Matches are distributed among these distances:
19 14 0.34
20 27 0.66
ACGTcount: A:0.50, C:0.23, G:0.14, T:0.13
Consensus pattern (20 bp):
AAAATCGCAACACCAAAATG
Found at i:28111 original size:19 final size:19
Alignment explanation
Indices: 28052--28138 Score: 86
Period size: 19 Copynumber: 4.5 Consensus size: 19
28042 TCTGAAAGTT
* *
28052 AAAATCGCAACACCAAAATG
1 AAAATCGCAAC-GCGAAATG
**
28072 AAAATCGCAACATGAAAATG
1 AAAATCGCAACGCG-AAATG
**
28092 ACTATCGCAACGCGAAATG
1 AAAATCGCAACGCGAAATG
28111 AAAATCGCAACGCGAAACT-
1 AAAATCGCAACGCGAAA-TG
28130 AAAATCGCA
1 AAAATCGCA
28139 TTGCGATTCT
Statistics
Matches: 56, Mismatches: 9, Indels: 5
0.80 0.13 0.07
Matches are distributed among these distances:
19 29 0.52
20 27 0.48
ACGTcount: A:0.49, C:0.23, G:0.15, T:0.13
Consensus pattern (19 bp):
AAAATCGCAACGCGAAATG
Found at i:28774 original size:20 final size:20
Alignment explanation
Indices: 28749--28875 Score: 182
Period size: 20 Copynumber: 6.3 Consensus size: 20
28739 GAAAATTGCA
*
28749 TTGCGATAGTCAGCATCGCG
1 TTGCGATAGTCAGAATCGCG
*
28769 TTGCGACAGTCAGAATCGCG
1 TTGCGATAGTCAGAATCGCG
*
28789 TTGCGATAGTCAGAATCTCG
1 TTGCGATAGTCAGAATCGCG
*
28809 TTGCGATAGTCAGAATCTCG
1 TTGCGATAGTCAGAATCGCG
* *
28829 TTGCGATAGTCAGAATCACA
1 TTGCGATAGTCAGAATCGCG
* *
28849 TTGCGATAGTCATAATCGCA
1 TTGCGATAGTCAGAATCGCG
28869 TTGCGAT
1 TTGCGAT
28876 TTACATATTC
Statistics
Matches: 99, Mismatches: 8, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
20 99 1.00
ACGTcount: A:0.26, C:0.21, G:0.25, T:0.28
Consensus pattern (20 bp):
TTGCGATAGTCAGAATCGCG
Found at i:43612 original size:29 final size:30
Alignment explanation
Indices: 43551--43621 Score: 90
Period size: 29 Copynumber: 2.4 Consensus size: 30
43541 TTTAATGGCC
* *
43551 TAGTGGTATAATTGAAACGAAATTCAAAGTT
1 TAGTGATATAATTGAAAC-AAATTAAAAGTT
* *
43582 TAGTGTTATAATTGATA-AAATTAAAAGTT
1 TAGTGATATAATTGAAACAAATTAAAAGTT
43611 TAGTGATATAA
1 TAGTGATATAA
43622 ACAATACAAC
Statistics
Matches: 36, Mismatches: 4, Indels: 2
0.86 0.10 0.05
Matches are distributed among these distances:
29 21 0.58
31 15 0.42
ACGTcount: A:0.44, C:0.03, G:0.17, T:0.37
Consensus pattern (30 bp):
TAGTGATATAATTGAAACAAATTAAAAGTT
Found at i:43687 original size:4 final size:4
Alignment explanation
Indices: 43678--43901 Score: 448
Period size: 4 Copynumber: 56.0 Consensus size: 4
43668 TTATATATGT
43678 ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC
1 ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC
43726 ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC
1 ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC
43774 ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC
1 ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC
43822 ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC
1 ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC
43870 ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC
1 ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC
43902 GTACGTACGT
Statistics
Matches: 220, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
4 220 1.00
ACGTcount: A:0.50, C:0.25, G:0.00, T:0.25
Consensus pattern (4 bp):
ATAC
Found at i:44231 original size:2 final size:2
Alignment explanation
Indices: 44224--44258 Score: 70
Period size: 2 Copynumber: 17.5 Consensus size: 2
44214 GTATAAGTGG
44224 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
44259 ACTCAAAGCA
Statistics
Matches: 33, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 33 1.00
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (2 bp):
AT
Found at i:46988 original size:23 final size:25
Alignment explanation
Indices: 46957--47002 Score: 69
Period size: 23 Copynumber: 1.9 Consensus size: 25
46947 CTGTTTCCTC
46957 GTCTATCTCTGTTT-T-TTTTTTCT
1 GTCTATCTCTGTTTCTGTTTTTTCT
*
46980 GTCTGTCTCTGTTTCTGTTTTTT
1 GTCTATCTCTGTTTCTGTTTTTT
47003 TTTCAGGTTG
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
23 13 0.65
24 1 0.05
25 6 0.30
ACGTcount: A:0.02, C:0.17, G:0.13, T:0.67
Consensus pattern (25 bp):
GTCTATCTCTGTTTCTGTTTTTTCT
Found at i:47456 original size:3 final size:3
Alignment explanation
Indices: 47448--47527 Score: 115
Period size: 3 Copynumber: 26.7 Consensus size: 3
47438 TTAATATATT
*
47448 TAA TAA TAA TAA TAA TAA TGA TAA TAA TAA TAA TAA TAA TAA TAA TAA
1 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA
* * * *
47496 TAA TTA TTA TTA TAA TAA CAA TAA TAA TAA TA
1 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TA
47528 TTTAATATGG
Statistics
Matches: 71, Mismatches: 6, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
3 71 1.00
ACGTcount: A:0.61, C:0.01, G:0.01, T:0.36
Consensus pattern (3 bp):
TAA
Found at i:48254 original size:227 final size:226
Alignment explanation
Indices: 47670--48537 Score: 1278
Period size: 227 Copynumber: 3.8 Consensus size: 226
47660 ATTGAATAAA
* * ** *
47670 TTCTTC-TCTTTCTTCAGATGAGTTCTTCTCATTATGAACTTTCTGCTGGGGATGATGATCCATC
1 TTCTTCTTCCTTCTTCAGATGAGTTCTTCTCATTATGAACCTTCT-CTGGAAAAGATGATCCATC
* * * *
47734 AAATGATGAATTCAAGCAAAAGATTGAACAAGTTCTTCTCATTATGAACTTCTTCTTCCTTCTTC
65 AAGTGATGAATTCAGGCAAAAGGTTGAACAAATTCTTCTCATTATGAACTTCTTCTTCCTTCTTC
* * * * *
47799 AGATGACGAGTTCTTCTCATTATGAACTCTAC-CTGGCAATGTTGATCCATCAAATGATGAATTC
130 AGAT---GAGTTCTTCTCATTATGAAC-CTTCTCTGGAAAAGATAATCCATCAAATGATGAATTC
* * *
47863 AAGCAAAAGATTGAACAAGTTCTTCTCATTATGAAC
191 AAGAAAAAGGTTGAACAAATTCTTCTCATTATGAAC
*
47899 TTCTTCTTCCTTCTTCAGATGAGTTCTTCTCATTATGAACCTTCTCTGGAAAAGATAATCCATCA
1 TTCTTCTTCCTTCTTCAGATGAGTTCTTCTCATTATGAACCTTCTCTGGAAAAGATGATCCATCA
* ** *
47964 ATTTGATGAATTCAGAAAAAAGGTTGAACAAATTCTTCTCATTTTGAACTTCTTCTTCCTTCTTC
66 A-GTGATGAATTCAGGCAAAAGGTTGAACAAATTCTTCTCATTATGAACTTCTTCTTCCTTCTTC
* *
48029 AGATGAGTTCTTCTCATTATGAACCTTCTCTGGAAAAGATAATCCATCAATTTGATGAATTCAGG
130 AGATGAGTTCTTCTCATTATGAACCTTCTCTGGAAAAGATAATCCATCAA-ATGATGAATTCAAG
48094 AAAAAGGTTGAACAAATTCTTCTCATTATGAAC
194 AAAAAGGTTGAACAAATTCTTCTCATTATGAAC
*
48127 TTCTTCTTCCTTCTTCAGATGAGTTCTTCTCATTATGAACCTTCTCTGGAAAAGTTGATCCATCA
1 TTCTTCTTCCTTCTTCAGATGAGTTCTTCTCATTATGAACCTTCTCTGGAAAAGATGATCCATCA
* *
48192 AGTGATAGAATT-AGGCAGAAGGTTGAACAAATTCTTCTCATTATGAATTTCTTCTTCCTTCTTC
66 AGTGAT-GAATTCAGGCAAAAGGTTGAACAAATTCTTCTCATTATGAACTTCTTCTTCCTTCTTC
*
48256 AGATGAGTTCTTCTCATTATGAACCTTCTCTTGGAAAAGATAATCCATCAAGTGATGAATTCAAG
130 AGATGAGTTCTTCTCATTATGAACCTTCTC-TGGAAAAGATAATCCATCAAATGATGAATTCAAG
* * *
48321 TAACAGGTTGAACAAATTCTTCTCATTATGAAT
194 AAAAAGGTTGAACAAATTCTTCTCATTATGAAC
*
48354 TTCTTCTTCCTTCTTCAGATGAGTTCTTCTCATTATGAACCTTCTCTGGAAAAGCTGATCCATCA
1 TTCTTCTTCCTTCTTCAGATGAGTTCTTCTCATTATGAACCTTCTCTGGAAAAGATGATCCATCA
* *
48419 AGTGATAGAATT-AGGCAGAAGGTTGAACAAATTCTTCTCATTATGAATTTCTTCTTCCTTCTTC
66 AGTGAT-GAATTCAGGCAAAAGGTTGAACAAATTCTTCTCATTATGAACTTCTTCTTCCTTCTTC
* *
48483 AGATGAGTTCTTCTCATTATGAACTTTCTCTGGAAATG-TCAATCCATCAAATGAT
130 AGATGAGTTCTTCTCATTATGAACCTTCTCTGGAAAAGAT-AATCCATCAAATGAT
48538 AGATTTGAAT
Statistics
Matches: 592, Mismatches: 40, Indels: 17
0.91 0.06 0.03
Matches are distributed among these distances:
225 1 0.00
226 24 0.04
227 317 0.54
228 131 0.22
229 23 0.04
230 96 0.16
ACGTcount: A:0.29, C:0.20, G:0.14, T:0.37
Consensus pattern (226 bp):
TTCTTCTTCCTTCTTCAGATGAGTTCTTCTCATTATGAACCTTCTCTGGAAAAGATGATCCATCA
AGTGATGAATTCAGGCAAAAGGTTGAACAAATTCTTCTCATTATGAACTTCTTCTTCCTTCTTCA
GATGAGTTCTTCTCATTATGAACCTTCTCTGGAAAAGATAATCCATCAAATGATGAATTCAAGAA
AAAGGTTGAACAAATTCTTCTCATTATGAAC
Found at i:48540 original size:113 final size:113
Alignment explanation
Indices: 47670--48537 Score: 1242
Period size: 114 Copynumber: 7.6 Consensus size: 113
47660 ATTGAATAAA
* * ** * *
47670 TTCTTC-TCTTTCTTCAGATGAGTTCTTCTCATTATGAACTTTCTGCTGGGGATGATGATCCATC
1 TTCTTCTTCCTTCTTCAGATGAGTTCTTCTCATTATGAACCTTCT-CTGGAAAAGATAATCCATC
* * *
47734 AAATGATGAATTCAAGCAAAAGATTGAACAAGTTCTTCTCATTATGAAC
65 AAATGATGAATTCAGGCAAAAGGTTGAACAAATTCTTCTCATTATGAAC
* * * * *
47783 TTCTTCTTCCTTCTTCAGATGACGAGTTCTTCTCATTATGAACTCTAC-CTGGCAATGTTGATCC
1 TTCTTCTTCCTTCTTCAGAT---GAGTTCTTCTCATTATGAAC-CTTCTCTGGAAAAGATAATCC
* * *
47847 ATCAAATGATGAATTCAAGCAAAAGATTGAACAAGTTCTTCTCATTATGAAC
62 ATCAAATGATGAATTCAGGCAAAAGGTTGAACAAATTCTTCTCATTATGAAC
47899 TTCTTCTTCCTTCTTCAGATGAGTTCTTCTCATTATGAACCTTCTCTGGAAAAGATAATCCATCA
1 TTCTTCTTCCTTCTTCAGATGAGTTCTTCTCATTATGAACCTTCTCTGGAAAAGATAATCCATCA
* ** *
47964 ATTTGATGAATTCAGAAAAAAGGTTGAACAAATTCTTCTCATTTTGAAC
66 A-ATGATGAATTCAGGCAAAAGGTTGAACAAATTCTTCTCATTATGAAC
48013 TTCTTCTTCCTTCTTCAGATGAGTTCTTCTCATTATGAACCTTCTCTGGAAAAGATAATCCATCA
1 TTCTTCTTCCTTCTTCAGATGAGTTCTTCTCATTATGAACCTTCTCTGGAAAAGATAATCCATCA
* *
48078 ATTTGATGAATTCAGGAAAAAGGTTGAACAAATTCTTCTCATTATGAAC
66 A-ATGATGAATTCAGGCAAAAGGTTGAACAAATTCTTCTCATTATGAAC
* *
48127 TTCTTCTTCCTTCTTCAGATGAGTTCTTCTCATTATGAACCTTCTCTGGAAAAGTTGATCCATCA
1 TTCTTCTTCCTTCTTCAGATGAGTTCTTCTCATTATGAACCTTCTCTGGAAAAGATAATCCATCA
* * *
48192 AGTGATAGAATT-AGGCAGAAGGTTGAACAAATTCTTCTCATTATGAAT
66 AATGAT-GAATTCAGGCAAAAGGTTGAACAAATTCTTCTCATTATGAAC
48240 TTCTTCTTCCTTCTTCAGATGAGTTCTTCTCATTATGAACCTTCTCTTGGAAAAGATAATCCATC
1 TTCTTCTTCCTTCTTCAGATGAGTTCTTCTCATTATGAACCTTCTC-TGGAAAAGATAATCCATC
* * * * *
48305 AAGTGATGAATTCAAGTAACAGGTTGAACAAATTCTTCTCATTATGAAT
65 AAATGATGAATTCAGGCAAAAGGTTGAACAAATTCTTCTCATTATGAAC
* *
48354 TTCTTCTTCCTTCTTCAGATGAGTTCTTCTCATTATGAACCTTCTCTGGAAAAGCTGATCCATCA
1 TTCTTCTTCCTTCTTCAGATGAGTTCTTCTCATTATGAACCTTCTCTGGAAAAGATAATCCATCA
* * *
48419 AGTGATAGAATT-AGGCAGAAGGTTGAACAAATTCTTCTCATTATGAAT
66 AATGAT-GAATTCAGGCAAAAGGTTGAACAAATTCTTCTCATTATGAAC
* *
48467 TTCTTCTTCCTTCTTCAGATGAGTTCTTCTCATTATGAACTTTCTCTGGAAATG-TCAATCCATC
1 TTCTTCTTCCTTCTTCAGATGAGTTCTTCTCATTATGAACCTTCTCTGGAAAAGAT-AATCCATC
48531 AAATGAT
65 AAATGAT
48538 AGATTTGAAT
Statistics
Matches: 701, Mismatches: 42, Indels: 24
0.91 0.05 0.03
Matches are distributed among these distances:
112 4 0.01
113 251 0.36
114 339 0.48
116 85 0.12
117 20 0.03
118 2 0.00
ACGTcount: A:0.29, C:0.20, G:0.14, T:0.37
Consensus pattern (113 bp):
TTCTTCTTCCTTCTTCAGATGAGTTCTTCTCATTATGAACCTTCTCTGGAAAAGATAATCCATCA
AATGATGAATTCAGGCAAAAGGTTGAACAAATTCTTCTCATTATGAAC
Found at i:49325 original size:83 final size:83
Alignment explanation
Indices: 49186--50158 Score: 1557
Period size: 83 Copynumber: 11.7 Consensus size: 83
49176 GTAGTTCTTA
*
49186 CCAAACCAGATCAGATAACTCAAAGAACACTTCCAGAAGATGCTATGAGCACATTCATCTTCCAA
1 CCAAACCAGATCAGATAACTCAAAGAACACTTCCAGAAGATGCTATGAGCAAATTCATCTTCCAA
49251 ATTCAATGATTGGTTCTG
66 ATTCAATGATTGGTTCTG
* *
49269 CCAAACCAGATCAGATAACTCAAAGAACACTTCCAGAAGATGCTATGAGCATATTCATCTTCCCA
1 CCAAACCAGATCAGATAACTCAAAGAACACTTCCAGAAGATGCTATGAGCAAATTCATCTTCCAA
49334 ATTCAATGATTGGTTCTG
66 ATTCAATGATTGGTTCTG
* * * *
49352 CTAAACCAGATCAGATAACTCAAAGAACACTTCCAGAAGATGCTATTAACAAATTCATCTTCTAA
1 CCAAACCAGATCAGATAACTCAAAGAACACTTCCAGAAGATGCTATGAGCAAATTCATCTTCCAA
49417 ATTCAATGATTGGTTCTG
66 ATTCAATGATTGGTTCTG
* * *
49435 TCC-AACAAGATCAGATAACTCAAAGAACACTTCCAGAAGATGCTATGAGCACATTCATCTTCCC
1 -CCAAACCAGATCAGATAACTCAAAGAACACTTCCAGAAGATGCTATGAGCAAATTCATCTTCCA
49499 AATTCAATGATTGGTTCTG
65 AATTCAATGATTGGTTCTG
* * * * * *
49518 CTAAACTAGGTCAGATAACTCAAAGAACACTTCCAGAAGATGCTATTAACAAATTCATCTTCTAA
1 CCAAACCAGATCAGATAACTCAAAGAACACTTCCAGAAGATGCTATGAGCAAATTCATCTTCCAA
*
49583 ATTCAATTATTGGTTCTG
66 ATTCAATGATTGGTTCTG
49601 TCC-AACCAGATCAGATAACTCAAAGAACACTTCCAGAAGATGCTATGAGCAAATTCATCTTCCA
1 -CCAAACCAGATCAGATAACTCAAAGAACACTTCCAGAAGATGCTATGAGCAAATTCATCTTCCA
49665 AATTCAATGATTGGTTCTG
65 AATTCAATGATTGGTTCTG
* * * * *
49684 CTAAACCAGGTCAGATAACTCAAAGAACACTTCCAGAAGATGCTATTAACAAATTCATCTTCTAA
1 CCAAACCAGATCAGATAACTCAAAGAACACTTCCAGAAGATGCTATGAGCAAATTCATCTTCCAA
49749 ATTCAATGATTGGTTCTG
66 ATTCAATGATTGGTTCTG
49767 TCC-AACCAGATCAGATAACTCAAAGAACACTTCCAGAAGATGCTATGAGCAAATTCATCTTCCA
1 -CCAAACCAGATCAGATAACTCAAAGAACACTTCCAGAAGATGCTATGAGCAAATTCATCTTCCA
49831 AATTCAATGATTGGTTCTG
65 AATTCAATGATTGGTTCTG
*
49850 CCAAACCAGATCAGATAACTCAAAGAACACTTCCAGAAGATGCTATGAGCACATTCATCTTCCAA
1 CCAAACCAGATCAGATAACTCAAAGAACACTTCCAGAAGATGCTATGAGCAAATTCATCTTCCAA
49915 ATTCAATGATTGGTTCTG
66 ATTCAATGATTGGTTCTG
* * * * *
49933 CTAAACCAAATCAGATAACTCAAAGAACACTTCCAGAAGATGCTATAAACAAATTCATCTTCTAA
1 CCAAACCAGATCAGATAACTCAAAGAACACTTCCAGAAGATGCTATGAGCAAATTCATCTTCCAA
49998 ATTCAATGATTGGTTCTG
66 ATTCAATGATTGGTTCTG
* *
50016 TCC-AACCAGATCAAATAACTCAAAGAACACTTCCAGAAGATGCTATTG-GCAAATTCATCTTCT
1 -CCAAACCAGATCAGATAACTCAAAGAACACTTCCAGAAGATGCTA-TGAGCAAATTCATCTTCC
50079 AAATTCAATGATT-GTTCTG
64 AAATTCAATGATTGGTTCTG
50098 TCC-AACCAGATCAGATAACTCAAAGAACACTTCCAGAAGATGCTATTG-GCAAATTCATCTT
1 -CCAAACCAGATCAGATAACTCAAAGAACACTTCCAGAAGATGCTA-TGAGCAAATTCATCTT
50159 TCAGTTAATG
Statistics
Matches: 828, Mismatches: 54, Indels: 17
0.92 0.06 0.02
Matches are distributed among these distances:
82 70 0.08
83 753 0.91
84 5 0.01
ACGTcount: A:0.37, C:0.22, G:0.13, T:0.27
Consensus pattern (83 bp):
CCAAACCAGATCAGATAACTCAAAGAACACTTCCAGAAGATGCTATGAGCAAATTCATCTTCCAA
ATTCAATGATTGGTTCTG
Found at i:51275 original size:14 final size:14
Alignment explanation
Indices: 51258--51293 Score: 65
Period size: 14 Copynumber: 2.6 Consensus size: 14
51248 CTCTTTTTTC
51258 TCTTTTTTTTTCTT
1 TCTTTTTTTTTCTT
51272 TCTTTTTTTTTCTT
1 TCTTTTTTTTTCTT
51286 T-TTTTTTT
1 TCTTTTTTT
51294 CTTCAAGCAT
Statistics
Matches: 22, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
13 7 0.32
14 15 0.68
ACGTcount: A:0.00, C:0.11, G:0.00, T:0.89
Consensus pattern (14 bp):
TCTTTTTTTTTCTT
Found at i:51291 original size:10 final size:11
Alignment explanation
Indices: 51249--51296 Score: 62
Period size: 11 Copynumber: 4.4 Consensus size: 11
51239 CCTTGACCCC
51249 TCTTTTTTCTCT
1 TCTTTTTTCT-T
*
51261 TTTTTTTTCTT
1 TCTTTTTTCTT
51272 TCTTTTTT-TT
1 TCTTTTTTCTT
*
51282 TCTTTTTTTTT
1 TCTTTTTTCTT
51293 TCTT
1 TCTT
51297 CAAGCATAAT
Statistics
Matches: 33, Mismatches: 2, Indels: 3
0.87 0.05 0.08
Matches are distributed among these distances:
10 10 0.30
11 14 0.42
12 9 0.27
ACGTcount: A:0.00, C:0.15, G:0.00, T:0.85
Consensus pattern (11 bp):
TCTTTTTTCTT
Found at i:63642 original size:27 final size:28
Alignment explanation
Indices: 63612--63670 Score: 79
Period size: 25 Copynumber: 2.2 Consensus size: 28
63602 CGATTTCCTG
63612 TTTCCTCGTCTATCTCTGTTT-T-TTTTT
1 TTTCCT-GTCTATCTCTGTTTCTATTTTT
*
63639 TTT-CTGTCTGTCTCTGTTTCTATTTTT
1 TTTCCTGTCTATCTCTGTTTCTATTTTT
63666 TTTCC
1 TTTCC
63671 AGGTTGGGGT
Statistics
Matches: 28, Mismatches: 1, Indels: 5
0.82 0.03 0.15
Matches are distributed among these distances:
25 13 0.46
26 3 0.11
27 11 0.39
28 1 0.04
ACGTcount: A:0.03, C:0.22, G:0.08, T:0.66
Consensus pattern (28 bp):
TTTCCTGTCTATCTCTGTTTCTATTTTT
Found at i:64122 original size:3 final size:3
Alignment explanation
Indices: 64114--64190 Score: 127
Period size: 3 Copynumber: 25.7 Consensus size: 3
64104 AATATATATT
* *
64114 TAA TAA TAA TAA TAA TGA TAA TAA TAA TAA TGA TAA TAA TAA TAA TAA
1 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA
*
64162 TAA TAA TAA TAA TAA CAA TAA TAA TAA TA
1 TAA TAA TAA TAA TAA TAA TAA TAA TAA TA
64191 TTTAATATGG
Statistics
Matches: 68, Mismatches: 6, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
3 68 1.00
ACGTcount: A:0.64, C:0.01, G:0.03, T:0.32
Consensus pattern (3 bp):
TAA
Found at i:65523 original size:3 final size:3
Alignment explanation
Indices: 65515--65597 Score: 148
Period size: 3 Copynumber: 27.7 Consensus size: 3
65505 TTTTTACCCA
* *
65515 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT CAT CAT TAT TAT
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT
65563 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TA
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TA
65598 AATATATATT
Statistics
Matches: 78, Mismatches: 2, Indels: 0
0.98 0.03 0.00
Matches are distributed among these distances:
3 78 1.00
ACGTcount: A:0.34, C:0.02, G:0.00, T:0.64
Consensus pattern (3 bp):
TAT
Found at i:65772 original size:16 final size:16
Alignment explanation
Indices: 65751--65789 Score: 71
Period size: 16 Copynumber: 2.5 Consensus size: 16
65741 TAATCCCATG
65751 CCAGCCGCCTCTGCCT
1 CCAGCCGCCTCTGCCT
65767 CCAGCCGCCTCTGCCT
1 CCAGCCGCCTCTGCCT
65783 CCA-CCGC
1 CCAGCCGC
65790 TGCCACGTCC
Statistics
Matches: 23, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
15 4 0.17
16 19 0.83
ACGTcount: A:0.08, C:0.59, G:0.18, T:0.15
Consensus pattern (16 bp):
CCAGCCGCCTCTGCCT
Found at i:66973 original size:25 final size:27
Alignment explanation
Indices: 66944--67001 Score: 68
Period size: 25 Copynumber: 2.3 Consensus size: 27
66934 AATGTTGTTA
66944 TAAATATAA-TAAATAATATTTA-TTT
1 TAAATATAATTAAATAATATTTAGTTT
**
66969 TAAATA-AATTATTTAATATTTAGTTT
1 TAAATATAATTAAATAATATTTAGTTT
*
66995 TCAATAT
1 TAAATAT
67002 CAAAGAAAAT
Statistics
Matches: 27, Mismatches: 3, Indels: 4
0.79 0.09 0.12
Matches are distributed among these distances:
24 2 0.07
25 17 0.63
26 8 0.30
ACGTcount: A:0.47, C:0.02, G:0.02, T:0.50
Consensus pattern (27 bp):
TAAATATAATTAAATAATATTTAGTTT
Found at i:67693 original size:19 final size:19
Alignment explanation
Indices: 67653--67695 Score: 52
Period size: 19 Copynumber: 2.3 Consensus size: 19
67643 TCTTTTCAAA
*
67653 ATTTTTATATATACTTATT
1 ATTTTCATATATACTTATT
*
67672 ATTTTCATA-ATATTTATAT
1 ATTTTCATATATACTTAT-T
67691 ATTTT
1 ATTTT
67696 TTTTATTAAT
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
18 7 0.33
19 14 0.67
ACGTcount: A:0.33, C:0.05, G:0.00, T:0.63
Consensus pattern (19 bp):
ATTTTCATATATACTTATT
Found at i:79312 original size:83 final size:83
Alignment explanation
Indices: 79173--79523 Score: 623
Period size: 83 Copynumber: 4.2 Consensus size: 83
79163 CATTAACTGA
* *
79173 AAGATGAATTTGC-CAATAGCATCTTCTGGAAGTGTTCTTTGAGTTATCTAATCTGGTTAGACAG
1 AAGATGAATGTGCTC-ATAGCATCTTCTGGAAGTGTTCTTTGAGTTATCTGATCTGGTTAGACAG
79237 AACCAATCATTGAATTTAG
65 AACCAATCATTGAATTTAG
*
79256 AAGATGAATGTGCTCATAGCATCTTCTGGAAGTGTTCTTTGAGTTTTCTGATCTGGTTAGACAGA
1 AAGATGAATGTGCTCATAGCATCTTCTGGAAGTGTTCTTTGAGTTATCTGATCTGGTTAGACAGA
79321 ACCAATCATTGAATTTAG
66 ACCAATCATTGAATTTAG
79339 AAGATGAATGTGCTCATAGCATCTTCTGGAAGTGTTCTTTGAGTTATCTGATCTGGTTAGACAGA
1 AAGATGAATGTGCTCATAGCATCTTCTGGAAGTGTTCTTTGAGTTATCTGATCTGGTTAGACAGA
79404 ACCAATCATTGAATTTAG
66 ACCAATCATTGAATTTAG
*
79422 AAGATGAATGTGCTCATAGCATCTTCTGGAAGTGTTCTTTGAGTTATCTGATCTGGTTGGACAGA
1 AAGATGAATGTGCTCATAGCATCTTCTGGAAGTGTTCTTTGAGTTATCTGATCTGGTTAGACAGA
* *
79487 ACCAATTATTGAATTTGG
66 ACCAATCATTGAATTTAG
*
79505 AAGATGAATTTGCTCATAG
1 AAGATGAATGTGCTCATAG
79524 TAGAAATAAG
Statistics
Matches: 259, Mismatches: 8, Indels: 2
0.96 0.03 0.01
Matches are distributed among these distances:
83 258 1.00
84 1 0.00
ACGTcount: A:0.29, C:0.14, G:0.22, T:0.35
Consensus pattern (83 bp):
AAGATGAATGTGCTCATAGCATCTTCTGGAAGTGTTCTTTGAGTTATCTGATCTGGTTAGACAGA
ACCAATCATTGAATTTAG
Found at i:80516 original size:113 final size:113
Alignment explanation
Indices: 80318--81085 Score: 1112
Period size: 113 Copynumber: 6.8 Consensus size: 113
80308 TAAATCCATT
****
80318 ACTTGATGGATCAGCTTTTCCAGTTCGAGTTCATAATGAGAAGAACTCATCTGAAGAAGGAAGAA
1 ACTTGATGGATCAGCTTTTCCAGGGAAAGTTCATAATGAGAAGAACTCATCTGAAGAAGGAAGAA
80383 GAAATTCATAATGAGAAGAATTTGTTCAACCTTTTGCCTGAATTCATC
66 GAAATTCATAATGAGAAGAATTTGTTCAACCTTTTGCCTGAATTCATC
80431 ACTTGATGGATCAGCTTTTCCAGGGAAAGTTCATAATGAGAAGAACTCATCTGAAGAAGGAAGAA
1 ACTTGATGGATCAGCTTTTCCAGGGAAAGTTCATAATGAGAAGAACTCATCTGAAGAAGGAAGAA
80496 GAAATTCATAATGAGAAGAATTTGTTCAACCTTTTGCCTGAATTCATC
66 GAAATTCATAATGAGAAGAATTTGTTCAACCTTTTGCCTGAATTCATC
80544 ACTTGATGGATCAGCTTTTCCAGGGAAAGTTCATAATGAGAAGAACTCATCTGAAGAAGGAAGAA
1 ACTTGATGGATCAGCTTTTCCAGGGAAAGTTCATAATGAGAAGAACTCATCTGAAGAAGGAAGAA
80609 GAAATTCATAATGAGAAGAATTTGTTCAACCTTTTGCCTGAATTCATC
66 GAAATTCATAATGAGAAGAATTTGTTCAACCTTTTGCCTGAATTCATC
80657 ACTTGATGGATCAGCTTTTCCAGGGAAAGTTC--AATGAGAAGAACTCAT-TGAAGAAGGAAGAA
1 ACTTGATGGATCAGCTTTTCCAGGGAAAGTTCATAATGAGAAGAACTCATCTGAAGAAGGAAGAA
***
80719 GAAATTCATAATGAG-AGAA-TTGTTCAACCTTTTATTTGAATTCATC
66 GAAATTCATAATGAGAAGAATTTGTTCAACCTTTTGCCTGAATTCATC
* * **
80765 AAATTG-TGGATTAGCTTTTCCAGAAAAAGTTCATAATGAGAAGAACTCATCTGAAGAAGGAAGA
1 -ACTTGATGGATCAGCTTTTCCAGGGAAAGTTCATAATGAGAAGAACTCATCTGAAGAAGGAAGA
* *
80829 AGAAGTTCATAATGAGAAGAATTTGTTCAACCTTTT-TCTGAA-TCATC
65 AGAAATTCATAATGAGAAGAATTTGTTCAACCTTTTGCCTGAATTCATC
* * * *
80876 ACTTGATGGATTA-TTTTTGCCAGAGAAGGTTCATAATGAGAAGAACTTGTCATCTGAAGAAGGA
1 ACTTGATGGATCAGCTTTT-CCAGGGAAAGTTCATAATGAGAAGAAC---TCATCTGAAGAAGGA
* * *
80940 AGAAGAAGTTCATAATGAGAAGAACTTGTTCAATCTTTT---TGAATTCATC
62 AGAAGAAATTCATAATGAGAAGAATTTGTTCAACCTTTTGCCTGAATTCATC
* * * * * *
80989 ATTTGATGGATCA-ATATTGCCAAGTAGAGTTCATAATGAGAAGAACTCGTCATCTGAAGAAGGA
1 ACTTGATGGATCAGCT-TTTCCAGGGAAAGTTCATAATGAGAAGAA--C-TCATCTGAAGAAGGA
* *
81053 AGAAGAAGTTCATAATAAGAAGAATTTGTTCAA
62 AGAAGAAATTCATAATGAGAAGAATTTGTTCAA
81086 TAATTCTATC
Statistics
Matches: 610, Mismatches: 30, Indels: 30
0.91 0.04 0.04
Matches are distributed among these distances:
108 47 0.08
109 8 0.01
110 53 0.09
111 81 0.13
112 13 0.02
113 353 0.58
114 54 0.09
115 1 0.00
ACGTcount: A:0.37, C:0.13, G:0.20, T:0.29
Consensus pattern (113 bp):
ACTTGATGGATCAGCTTTTCCAGGGAAAGTTCATAATGAGAAGAACTCATCTGAAGAAGGAAGAA
GAAATTCATAATGAGAAGAATTTGTTCAACCTTTTGCCTGAATTCATC
Found at i:81029 original size:334 final size:337
Alignment explanation
Indices: 80318--81085 Score: 1092
Period size: 334 Copynumber: 2.3 Consensus size: 337
80308 TAAATCCATT
* * **
80318 ACTTGATGGATCAGCTTTTCC-AGTTCGAGTTCATAATGAGAAGAACTCATCTGAAGAAGGAAGA
1 ACTTGATGGATCAGATTTGCCAAG-GAGAGTTCATAATGAGAAGAACTCATCTGAAGAAGGAAGA
* *
80382 AGAAATTCATAATGAGAAGAATTTGTTCAACCTTTTGCCTGAATTCATCACTTGATGGATCAGCT
65 AGAAATTCATAATGAGAAGAATTTGTTCAACCTTTTACCTGAATTCATCAATTGATGGATCAGCT
**
80447 TTTCCAGGGAAAGTTCATAATGAGAAGAACTCATCTGAAGAAGGAAGAAGAAATTCATAATGAGA
130 TTTCCAGAAAAAGTTCATAATGAGAAGAACTCATCTGAAGAAGGAAGAAGAAATTCATAATGAGA
*
80512 AGAATTTGTTCAACCTTTTGCCTGAATTCATCACTTGATGGATCAGCTTTTCCAGGGAAAGTTCA
195 AGAATTTGTTCAACCTTTTGCCTGAATTCATCACTTGATGGATCAGCTTTTCCAGAGAAAGTTCA
*
80577 TAATGAGAAGAACTCATCTGAAGAAGGAAGAAGAAATTCATAATGAGAAGAATTTGTTCAACCTT
260 TAATGAGAAGAACTCATCTGAAGAAGGAAGAAGAAATTCATAATGAGAAGAACTTGTTCAACCTT
80642 TTGCCTGAATTCATC
325 TT--CTGAATTCATC
* * * *
80657 ACTTGATGGATCAGCTTTTCCAGGGAAAGTTC--AATGAGAAGAACTCAT-TGAAGAAGGAAGAA
1 ACTTGATGGATCAGATTTGCCAAGGAGAGTTCATAATGAGAAGAACTCATCTGAAGAAGGAAGAA
** *
80719 GAAATTCATAATGAG-AGAA-TTGTTCAACCTTTTATTTGAATTCATCAAATTG-TGGATTAGCT
66 GAAATTCATAATGAGAAGAATTTGTTCAACCTTTTACCTGAATTCATC-AATTGATGGATCAGCT
*
80781 TTTCCAGAAAAAGTTCATAATGAGAAGAACTCATCTGAAGAAGGAAGAAGAAGTTCATAATGAGA
130 TTTCCAGAAAAAGTTCATAATGAGAAGAACTCATCTGAAGAAGGAAGAAGAAATTCATAATGAGA
* * * *
80846 AGAATTTGTTCAACCTTTT-TCTGAA-TCATCACTTGATGGATTA-TTTTTGCCAGAGAAGGTTC
195 AGAATTTGTTCAACCTTTTGCCTGAATTCATCACTTGATGGATCAGCTTTT-CCAGAGAAAGTTC
*
80908 ATAATGAGAAGAACTTGTCATCTGAAGAAGGAAGAAGAAGTTCATAATGAGAAGAACTTGTTCAA
259 ATAATGAGAAGAAC---TCATCTGAAGAAGGAAGAAGAAATTCATAATGAGAAGAACTTGTTCAA
*
80973 TCTTTT-TGAATTCATC
321 CCTTTTCTGAATTCATC
* *
80989 ATTTGATGGATCA-ATATTGCCAAGTAGAGTTCATAATGAGAAGAACTCGTCATCTGAAGAAGGA
1 ACTTGATGGATCAGAT-TTGCCAAGGAGAGTTCATAATGAGAAGAA--C-TCATCTGAAGAAGGA
* *
81053 AGAAGAAGTTCATAATAAGAAGAATTTGTTCAA
62 AGAAGAAATTCATAATGAGAAGAATTTGTTCAA
81086 TAATTCTATC
Statistics
Matches: 386, Mismatches: 28, Indels: 29
0.87 0.06 0.07
Matches are distributed among these distances:
331 5 0.01
332 76 0.20
333 5 0.01
334 125 0.32
335 59 0.15
336 30 0.08
337 20 0.05
338 27 0.07
339 30 0.08
340 9 0.02
ACGTcount: A:0.37, C:0.13, G:0.20, T:0.29
Consensus pattern (337 bp):
ACTTGATGGATCAGATTTGCCAAGGAGAGTTCATAATGAGAAGAACTCATCTGAAGAAGGAAGAA
GAAATTCATAATGAGAAGAATTTGTTCAACCTTTTACCTGAATTCATCAATTGATGGATCAGCTT
TTCCAGAAAAAGTTCATAATGAGAAGAACTCATCTGAAGAAGGAAGAAGAAATTCATAATGAGAA
GAATTTGTTCAACCTTTTGCCTGAATTCATCACTTGATGGATCAGCTTTTCCAGAGAAAGTTCAT
AATGAGAAGAACTCATCTGAAGAAGGAAGAAGAAATTCATAATGAGAAGAACTTGTTCAACCTTT
TCTGAATTCATC
Found at i:81410 original size:3 final size:3
Alignment explanation
Indices: 81402--81470 Score: 129
Period size: 3 Copynumber: 22.7 Consensus size: 3
81392 TTTTTACCCA
81402 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT
81450 TATT TAT TAT TAT TAT TAT TA
1 TA-T TAT TAT TAT TAT TAT TA
81471 AAATATATTA
Statistics
Matches: 65, Mismatches: 0, Indels: 2
0.97 0.00 0.03
Matches are distributed among these distances:
3 62 0.95
4 3 0.05
ACGTcount: A:0.33, C:0.00, G:0.00, T:0.67
Consensus pattern (3 bp):
TAT
Found at i:81640 original size:16 final size:16
Alignment explanation
Indices: 81619--81657 Score: 71
Period size: 16 Copynumber: 2.5 Consensus size: 16
81609 TAATCCCATG
81619 CCAGCCGCCTCTGCCT
1 CCAGCCGCCTCTGCCT
81635 CCAGCCGCCTCTGCCT
1 CCAGCCGCCTCTGCCT
81651 CCA-CCGC
1 CCAGCCGC
81658 TGCCACGTCC
Statistics
Matches: 23, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
15 4 0.17
16 19 0.83
ACGTcount: A:0.08, C:0.59, G:0.18, T:0.15
Consensus pattern (16 bp):
CCAGCCGCCTCTGCCT
Found at i:86592 original size:23 final size:25
Alignment explanation
Indices: 86546--86593 Score: 64
Period size: 26 Copynumber: 2.0 Consensus size: 25
86536 TTTGTTTTTT
86546 AAGAAAAAAGCATTTGAAGTTTGAAG
1 AAGAAAAAAGCATTTGAAG-TTGAAG
*
86572 AAGAAAAAAG-TTTTGAA-TTGAA
1 AAGAAAAAAGCATTTGAAGTTGAA
86594 CACAAAACTT
Statistics
Matches: 21, Mismatches: 1, Indels: 3
0.84 0.04 0.12
Matches are distributed among these distances:
23 5 0.24
25 6 0.29
26 10 0.48
ACGTcount: A:0.52, C:0.02, G:0.21, T:0.25
Consensus pattern (25 bp):
AAGAAAAAAGCATTTGAAGTTGAAG
Found at i:97345 original size:19 final size:20
Alignment explanation
Indices: 97314--97387 Score: 82
Period size: 19 Copynumber: 3.9 Consensus size: 20
97304 TTTCTAGCTT
*
97314 TTTTTGGGA-TTTTTGGGAA
1 TTTTAGGGATTTTTTGGGAA
*
97333 TTTTATGG-TTTTTTGGGAA
1 TTTTAGGGATTTTTTGGGAA
* *
97352 TTTCAGGGATTTTTTAGGAA
1 TTTTAGGGATTTTTTGGGAA
*
97372 TTTTA-GAATTTTTTGG
1 TTTTAGGGATTTTTTGG
97388 AAAATTAATA
Statistics
Matches: 45, Mismatches: 8, Indels: 4
0.79 0.14 0.07
Matches are distributed among these distances:
19 31 0.69
20 14 0.31
ACGTcount: A:0.19, C:0.01, G:0.26, T:0.54
Consensus pattern (20 bp):
TTTTAGGGATTTTTTGGGAA
Found at i:97756 original size:26 final size:26
Alignment explanation
Indices: 97727--97780 Score: 81
Period size: 26 Copynumber: 2.1 Consensus size: 26
97717 TTGATTCTAG
* *
97727 TAGCTGGTTTGACCAACTGATTTGAT
1 TAGCTGATTTGACAAACTGATTTGAT
*
97753 TAGCTGATTTGAGAAACTGATTTGAT
1 TAGCTGATTTGACAAACTGATTTGAT
97779 TA
1 TA
97781 ATTGTTTATA
Statistics
Matches: 25, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
26 25 1.00
ACGTcount: A:0.28, C:0.11, G:0.22, T:0.39
Consensus pattern (26 bp):
TAGCTGATTTGACAAACTGATTTGAT
Found at i:97759 original size:13 final size:13
Alignment explanation
Indices: 97741--97781 Score: 55
Period size: 13 Copynumber: 3.2 Consensus size: 13
97731 TGGTTTGACC
97741 AACTGATTTGATT
1 AACTGATTTGATT
* **
97754 AGCTGATTTGAGA
1 AACTGATTTGATT
97767 AACTGATTTGATT
1 AACTGATTTGATT
97780 AA
1 AA
97782 TTGTTTATAT
Statistics
Matches: 22, Mismatches: 6, Indels: 0
0.79 0.21 0.00
Matches are distributed among these distances:
13 22 1.00
ACGTcount: A:0.34, C:0.07, G:0.20, T:0.39
Consensus pattern (13 bp):
AACTGATTTGATT
Found at i:98770 original size:38 final size:38
Alignment explanation
Indices: 98727--98825 Score: 121
Period size: 38 Copynumber: 2.7 Consensus size: 38
98717 AATATTTTAT
*
98727 ATTAAATCGAGATAAGATTATAAATAAATTTATTTGAA
1 ATTAAATCGAGATAAGATTATAAATAAATTTATTTAAA
*** * *
98765 ATTAAATCGAGATAAGATTGGCAGTAAATTTGTTTAAA
1 ATTAAATCGAGATAAGATTATAAATAAATTTATTTAAA
*
98803 ATTAAATCAAGATAA-A-TATAAAT
1 ATTAAATCGAGATAAGATTATAAAT
98826 TTGAAAATAG
Statistics
Matches: 50, Mismatches: 11, Indels: 2
0.79 0.17 0.03
Matches are distributed among these distances:
36 3 0.06
37 1 0.02
38 46 0.92
ACGTcount: A:0.49, C:0.04, G:0.12, T:0.34
Consensus pattern (38 bp):
ATTAAATCGAGATAAGATTATAAATAAATTTATTTAAA
Found at i:101615 original size:99 final size:98
Alignment explanation
Indices: 101348--101680 Score: 342
Period size: 99 Copynumber: 3.4 Consensus size: 98
101338 GTCTCCCCAC
* * * * *
101348 GAAGACGAATGAAAATTCATGCGATTCCCCCTGCATGCCCCATTCGCTGCTGCTACTGCCACCCC
1 GAAGACGCATGAAAATCCATGCGACTCCCCCTGCATGCCCCATGCACTGCTGCTACTGCCACCCC
* *
101413 ATTCCCTGCTGCCACGTTGAAAACAAAAACCCTTG
66 ATTCCATGTTGCCACGTTGAAAAC-AAAACCC-TG
* * * * * * * * * *
101448 GAAGACGCATGAAAATACATGCGACTCACCCTACATTCTCTATGCACTACTGATATTGCCTCCCC
1 GAAGACGCATGAAAATCCATGCGACTCCCCCTGCATGCCCCATGCACTGCTGCTACTGCCACCCC
** * *
101513 ATTCTTTGTTACCACGTTGAAAATAGAAACCCTG
66 ATTCCATGTTGCCACGTTGAAAACA-AAACCCTG
* * * *
101547 GAAGACGCATGGAAATCCATGTGACTCCCCCTGCATGCCCCATGCACTGCTGCTGCTGCCACCTC
1 GAAGACGCATGAAAATCCATGCGACTCCCCCTGCATGCCCCATGCACTGCTGCTACTGCCACCCC
* * *
101612 ATTCGATATTGCCACATTGAAAACAAAATCCCTG
66 ATTCCATGTTGCCACGTTGAAAACAAAA-CCCTG
* * * *
101646 GAAGACGCATGGAAATCCATACTACTCCCCTTGCA
1 GAAGACGCATGAAAATCCATGCGACTCCCCCTGCA
101681 AGCCATGCAT
Statistics
Matches: 188, Mismatches: 43, Indels: 5
0.80 0.18 0.02
Matches are distributed among these distances:
98 3 0.02
99 109 0.58
100 76 0.40
ACGTcount: A:0.28, C:0.32, G:0.17, T:0.23
Consensus pattern (98 bp):
GAAGACGCATGAAAATCCATGCGACTCCCCCTGCATGCCCCATGCACTGCTGCTACTGCCACCCC
ATTCCATGTTGCCACGTTGAAAACAAAACCCTG
Found at i:101826 original size:2 final size:2
Alignment explanation
Indices: 101819--101846 Score: 56
Period size: 2 Copynumber: 14.0 Consensus size: 2
101809 GGGGTTGGGT
101819 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
101847 GGGTGTAGGG
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 26 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
TA
Found at i:101901 original size:20 final size:20
Alignment explanation
Indices: 101885--101921 Score: 67
Period size: 20 Copynumber: 1.9 Consensus size: 20
101875 GAAAGAAGGG
101885 GAGAAA-AAAGAAGAGAAAA
1 GAGAAAGAAAGAAGAGAAAA
101904 GAGAAAGAAAGAAGAGAA
1 GAGAAAGAAAGAAGAGAA
101922 TAAAGTTAAA
Statistics
Matches: 17, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
19 6 0.35
20 11 0.65
ACGTcount: A:0.70, C:0.00, G:0.30, T:0.00
Consensus pattern (20 bp):
GAGAAAGAAAGAAGAGAAAA
Found at i:102266 original size:37 final size:37
Alignment explanation
Indices: 102223--102303 Score: 126
Period size: 37 Copynumber: 2.2 Consensus size: 37
102213 TTTTACTTGT
* * *
102223 TTAAATTAAATTTGTTACTTAGTAGATTATTTTTAGA
1 TTAAATTAAATTAGTTACATAGTAGATTATTTTTAAA
102260 TTAAATTAAATTAGTTACATAGTAGATTATTTTTAAA
1 TTAAATTAAATTAGTTACATAGTAGATTATTTTTAAA
*
102297 TTGAATT
1 TTAAATT
102304 CGTTATAATA
Statistics
Matches: 40, Mismatches: 4, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
37 40 1.00
ACGTcount: A:0.38, C:0.02, G:0.10, T:0.49
Consensus pattern (37 bp):
TTAAATTAAATTAGTTACATAGTAGATTATTTTTAAA
Found at i:103636 original size:5 final size:5
Alignment explanation
Indices: 103626--103773 Score: 296
Period size: 5 Copynumber: 29.6 Consensus size: 5
103616 ATTTTCTAAT
103626 ATATA ATATA ATATA ATATA ATATA ATATA ATATA ATATA ATATA ATATA
1 ATATA ATATA ATATA ATATA ATATA ATATA ATATA ATATA ATATA ATATA
103676 ATATA ATATA ATATA ATATA ATATA ATATA ATATA ATATA ATATA ATATA
1 ATATA ATATA ATATA ATATA ATATA ATATA ATATA ATATA ATATA ATATA
103726 ATATA ATATA ATATA ATATA ATATA ATATA ATATA ATATA ATATA ATA
1 ATATA ATATA ATATA ATATA ATATA ATATA ATATA ATATA ATATA ATA
103774 ATACTATTTA
Statistics
Matches: 143, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 143 1.00
ACGTcount: A:0.60, C:0.00, G:0.00, T:0.40
Consensus pattern (5 bp):
ATATA
Found at i:103792 original size:10 final size:10
Alignment explanation
Indices: 103779--103811 Score: 57
Period size: 10 Copynumber: 3.3 Consensus size: 10
103769 TAATAATACT
103779 ATTTAATTAA
1 ATTTAATTAA
103789 ATTTAATTAA
1 ATTTAATTAA
*
103799 ATTTATTTAA
1 ATTTAATTAA
103809 ATT
1 ATT
103812 AAGTTATTTA
Statistics
Matches: 22, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
10 22 1.00
ACGTcount: A:0.45, C:0.00, G:0.00, T:0.55
Consensus pattern (10 bp):
ATTTAATTAA
Found at i:103822 original size:4 final size:4
Alignment explanation
Indices: 103815--103862 Score: 50
Period size: 4 Copynumber: 13.0 Consensus size: 4
103805 TTAAATTAAG
* *
103815 TTAT TTAT TTA- -TAT TTAT TTCT TTAT TTA- -TAT TTAT TTCT TTAT
1 TTAT TTAT TTAT TTAT TTAT TTAT TTAT TTAT TTAT TTAT TTAT TTAT
103859 TTAT
1 TTAT
103863 AATTTTATAA
Statistics
Matches: 36, Mismatches: 4, Indels: 8
0.75 0.08 0.17
Matches are distributed among these distances:
2 4 0.11
4 32 0.89
ACGTcount: A:0.23, C:0.04, G:0.00, T:0.73
Consensus pattern (4 bp):
TTAT
Found at i:103822 original size:18 final size:18
Alignment explanation
Indices: 103778--103867 Score: 81
Period size: 18 Copynumber: 4.8 Consensus size: 18
103768 ATAATAATAC
*
103778 TATTTAATTAAATTTAATT
1 TATTTATTTAAATTT-ATT
* * *
103797 AAATTTATTTAAATTAAGT
1 -TATTTATTTAAATTTATT
*
103816 TATTTATTTATATTTATT
1 TATTTATTTAAATTTATT
* *
103834 TCTTTATTTATATTTATT
1 TATTTATTTAAATTTATT
*
103852 TCTTTATTTATAATTT
1 TATTTATTTA-AATTT
103868 TATAAGTTTG
Statistics
Matches: 59, Mismatches: 10, Indels: 3
0.82 0.14 0.04
Matches are distributed among these distances:
18 41 0.69
19 6 0.10
20 12 0.20
ACGTcount: A:0.33, C:0.02, G:0.01, T:0.63
Consensus pattern (18 bp):
TATTTATTTAAATTTATT
Found at i:103847 original size:14 final size:14
Alignment explanation
Indices: 103816--103858 Score: 52
Period size: 14 Copynumber: 3.1 Consensus size: 14
103806 TAAATTAAGT
103816 TATTTATTTATATT-
1 TATTTATTTAT-TTA
*
103830 TATTTCTTTATTTA
1 TATTTATTTATTTA
*
103844 TATTTATTTCTTTA
1 TATTTATTTATTTA
103858 T
1 T
103859 TTATAATTTT
Statistics
Matches: 25, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
13 2 0.08
14 23 0.92
ACGTcount: A:0.23, C:0.05, G:0.00, T:0.72
Consensus pattern (14 bp):
TATTTATTTATTTA
Found at i:105095 original size:22 final size:23
Alignment explanation
Indices: 105052--105095 Score: 56
Period size: 23 Copynumber: 2.0 Consensus size: 23
105042 TAACAAACTT
*
105052 AAAAAACATAAATTATTATACTA
1 AAAAAACATAAATTAATATACTA
105075 AAAAATACATAAA-TAAT-TACT
1 AAAAA-ACATAAATTAATATACT
105096 GATGAGGCCT
Statistics
Matches: 19, Mismatches: 1, Indels: 3
0.83 0.04 0.13
Matches are distributed among these distances:
22 4 0.21
23 8 0.42
24 7 0.37
ACGTcount: A:0.61, C:0.09, G:0.00, T:0.30
Consensus pattern (23 bp):
AAAAAACATAAATTAATATACTA
Found at i:108859 original size:12 final size:12
Alignment explanation
Indices: 108842--108866 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
108832 ATTTAGGCAA
108842 CTACAATATTTG
1 CTACAATATTTG
108854 CTACAATATTTG
1 CTACAATATTTG
108866 C
1 C
108867 CGCCTTGATA
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 13 1.00
ACGTcount: A:0.32, C:0.20, G:0.08, T:0.40
Consensus pattern (12 bp):
CTACAATATTTG
Found at i:109704 original size:13 final size:13
Alignment explanation
Indices: 109686--109712 Score: 54
Period size: 13 Copynumber: 2.1 Consensus size: 13
109676 AGTCACCGAA
109686 TTGGTAATGTATG
1 TTGGTAATGTATG
109699 TTGGTAATGTATG
1 TTGGTAATGTATG
109712 T
1 T
109713 GTCAATCATT
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 14 1.00
ACGTcount: A:0.22, C:0.00, G:0.30, T:0.48
Consensus pattern (13 bp):
TTGGTAATGTATG
Found at i:116783 original size:20 final size:20
Alignment explanation
Indices: 116758--116801 Score: 79
Period size: 20 Copynumber: 2.2 Consensus size: 20
116748 TCCAATTTCG
116758 CAACGCGAATCTGTAAATCA
1 CAACGCGAATCTGTAAATCA
*
116778 CAACGCGAATCTGTAAATCG
1 CAACGCGAATCTGTAAATCA
116798 CAAC
1 CAAC
116802 ACAGAAGTCA
Statistics
Matches: 23, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
20 23 1.00
ACGTcount: A:0.39, C:0.27, G:0.16, T:0.18
Consensus pattern (20 bp):
CAACGCGAATCTGTAAATCA
Found at i:116818 original size:20 final size:20
Alignment explanation
Indices: 116795--116904 Score: 125
Period size: 20 Copynumber: 5.5 Consensus size: 20
116785 AATCTGTAAA
116795 TCGCAACACAGAAGTCAAAT
1 TCGCAACACAGAAGTCAAAT
*
116815 TCGCAACGC-GATAGTCAAAT
1 TCGCAACACAGA-AGTCAAAT
* *
116835 CCGCAACACAAAAGTCAAAT
1 TCGCAACACAGAAGTCAAAT
* *
116855 TCGCAACACAAAAGTCAAAC
1 TCGCAACACAGAAGTCAAAT
*
116875 TCGCAACGC-GATAGTCAAAT
1 TCGCAACACAGA-AGTCAAAT
*
116895 TTGCAACACA
1 TCGCAACACA
116905 TAATTTCAAA
Statistics
Matches: 75, Mismatches: 11, Indels: 7
0.81 0.12 0.08
Matches are distributed among these distances:
19 3 0.04
20 71 0.95
21 1 0.01
ACGTcount: A:0.43, C:0.27, G:0.15, T:0.15
Consensus pattern (20 bp):
TCGCAACACAGAAGTCAAAT
Found at i:116859 original size:60 final size:61
Alignment explanation
Indices: 116795--116922 Score: 186
Period size: 60 Copynumber: 2.1 Consensus size: 61
116785 AATCTGTAAA
* *
116795 TCGCAACACAGAAGTCAAATTCGCAACGCGATAGTCAAATCCGCAACACA-AAAGTCAAAT
1 TCGCAACACAAAAGTCAAACTCGCAACGCGATAGTCAAATCCGCAACACATAAAGTCAAAT
** **
116855 TCGCAACACAAAAGTCAAACTCGCAACGCGATAGTCAAATTTGCAACACATAATTTCAAAT
1 TCGCAACACAAAAGTCAAACTCGCAACGCGATAGTCAAATCCGCAACACATAAAGTCAAAT
*
116916 TCACAAC
1 TCGCAAC
116923 GCGAAACACA
Statistics
Matches: 60, Mismatches: 7, Indels: 1
0.88 0.10 0.01
Matches are distributed among these distances:
60 46 0.77
61 14 0.23
ACGTcount: A:0.43, C:0.27, G:0.12, T:0.18
Consensus pattern (61 bp):
TCGCAACACAAAAGTCAAACTCGCAACGCGATAGTCAAATCCGCAACACATAAAGTCAAAT
Found at i:116926 original size:41 final size:40
Alignment explanation
Indices: 116807--116926 Score: 107
Period size: 40 Copynumber: 3.0 Consensus size: 40
116797 GCAACACAGA
* * * * * * *
116807 AGTCAAATTCGCAACGCGATAGTCAAA-TCCGCAACACAAA
1 AGTCAAATTCGCAACACAAAAGTCAAACT-CACAACGCGAT
*
116847 AGTCAAATTCGCAACACAAAAGTCAAACTCGCAACGCGAT
1 AGTCAAATTCGCAACACAAAAGTCAAACTCACAACGCGAT
* ** *
116887 AGTCAAATTTGCAACACATAATTTCAAATTCACAACGCGA
1 AGTCAAATTCGCAACACA-AAAGTCAAACTCACAACGCGA
116927 AACACAATAT
Statistics
Matches: 67, Mismatches: 11, Indels: 3
0.83 0.14 0.04
Matches are distributed among these distances:
40 49 0.73
41 18 0.27
ACGTcount: A:0.42, C:0.26, G:0.13, T:0.18
Consensus pattern (40 bp):
AGTCAAATTCGCAACACAAAAGTCAAACTCACAACGCGAT
Found at i:117438 original size:19 final size:19
Alignment explanation
Indices: 117414--117455 Score: 84
Period size: 19 Copynumber: 2.2 Consensus size: 19
117404 AACACCAAAA
117414 TCGCAACGCGATTTTAGTT
1 TCGCAACGCGATTTTAGTT
117433 TCGCAACGCGATTTTAGTT
1 TCGCAACGCGATTTTAGTT
117452 TCGC
1 TCGC
117456 GTTGCGATTT
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
19 23 1.00
ACGTcount: A:0.19, C:0.24, G:0.21, T:0.36
Consensus pattern (19 bp):
TCGCAACGCGATTTTAGTT
Found at i:117475 original size:20 final size:19
Alignment explanation
Indices: 117421--117493 Score: 83
Period size: 19 Copynumber: 3.7 Consensus size: 19
117411 AAATCGCAAC
**
117421 GCGATTTTAGTTTCGCAAC
1 GCGATTTTAGTTTCGCATT
*
117440 GCGATTTTAGTTTCGCGTT
1 GCGATTTTAGTTTCGCATT
*
117459 GCGATTTTCATTTTCGCATT
1 GCGATTTT-AGTTTCGCATT
*
117479 GCGAATTTAAGTTTC
1 GCG-ATTTTAGTTTC
117494 AGAAACTACT
Statistics
Matches: 45, Mismatches: 7, Indels: 3
0.82 0.13 0.05
Matches are distributed among these distances:
19 24 0.53
20 17 0.38
21 4 0.09
ACGTcount: A:0.18, C:0.18, G:0.21, T:0.44
Consensus pattern (19 bp):
GCGATTTTAGTTTCGCATT
Found at i:119472 original size:4 final size:4
Alignment explanation
Indices: 119463--119492 Score: 51
Period size: 4 Copynumber: 7.5 Consensus size: 4
119453 TTTTTCGGTA
*
119463 TTAT TTAT TTAT TTAT TTAT TAAT TTAT TT
1 TTAT TTAT TTAT TTAT TTAT TTAT TTAT TT
119493 TCAGTGGCCC
Statistics
Matches: 24, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
4 24 1.00
ACGTcount: A:0.27, C:0.00, G:0.00, T:0.73
Consensus pattern (4 bp):
TTAT
Found at i:119729 original size:21 final size:21
Alignment explanation
Indices: 119636--119754 Score: 62
Period size: 21 Copynumber: 5.7 Consensus size: 21
119626 GATGCACCTA
* * *
119636 TCATCATTCAAGAAGCGCCTC
1 TCATCGTTCAAGAGGCCCCTC
* *
119657 -CTATCGTTCAAGAGGCTCCTT
1 TC-ATCGTTCAAGAGGCCCCTC
* *
119678 TCATC-ATCAAAGAGGGCCCTC
1 TCATCGTTC-AAGAGGCCCCTC
* * * *
119699 CCACCATTCAAGAGGCCCCTG
1 TCATCGTTCAAGAGGCCCCTC
* * *
119720 TCATCGTTCAAGTGGTCCCGC
1 TCATCGTTCAAGAGGCCCCTC
* *
119741 CCGTCGTTCAAGAG
1 TCATCGTTCAAGAG
119755 CCTGATTCAC
Statistics
Matches: 71, Mismatches: 23, Indels: 8
0.70 0.23 0.08
Matches are distributed among these distances:
20 3 0.04
21 65 0.92
22 3 0.04
ACGTcount: A:0.23, C:0.34, G:0.20, T:0.24
Consensus pattern (21 bp):
TCATCGTTCAAGAGGCCCCTC
Found at i:121560 original size:12 final size:12
Alignment explanation
Indices: 121545--121585 Score: 55
Period size: 12 Copynumber: 3.4 Consensus size: 12
121535 AAGCCGGTTG
*
121545 TGATTGGGATTT
1 TGATTGCGATTT
**
121557 TGATTTTGATTT
1 TGATTGCGATTT
121569 TGATTGCGATTT
1 TGATTGCGATTT
121581 TGATT
1 TGATT
121586 TCCTTTTGCT
Statistics
Matches: 25, Mismatches: 4, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
12 25 1.00
ACGTcount: A:0.17, C:0.02, G:0.24, T:0.56
Consensus pattern (12 bp):
TGATTGCGATTT
Found at i:121561 original size:6 final size:6
Alignment explanation
Indices: 121552--121586 Score: 52
Period size: 6 Copynumber: 5.8 Consensus size: 6
121542 TTGTGATTGG
**
121552 GATTTT GATTTT GATTTT GATTGC GATTTT GATTT
1 GATTTT GATTTT GATTTT GATTTT GATTTT GATTT
121587 CCTTTTGCTT
Statistics
Matches: 25, Mismatches: 4, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
6 25 1.00
ACGTcount: A:0.17, C:0.03, G:0.20, T:0.60
Consensus pattern (6 bp):
GATTTT
Found at i:123882 original size:24 final size:24
Alignment explanation
Indices: 123848--123901 Score: 81
Period size: 24 Copynumber: 2.2 Consensus size: 24
123838 CCATCACATC
123848 ATCAAAATCCAAGAATTGACCAAG
1 ATCAAAATCCAAGAATTGACCAAG
* * *
123872 ATCAAAGTCCAGGTATTGACCAAG
1 ATCAAAATCCAAGAATTGACCAAG
123896 ATCAAA
1 ATCAAA
123902 TTTCGAATAC
Statistics
Matches: 27, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
24 27 1.00
ACGTcount: A:0.46, C:0.20, G:0.15, T:0.19
Consensus pattern (24 bp):
ATCAAAATCCAAGAATTGACCAAG
Found at i:124903 original size:19 final size:20
Alignment explanation
Indices: 124862--124913 Score: 61
Period size: 20 Copynumber: 2.6 Consensus size: 20
124852 TTAAATTCGT
* *
124862 GTTGTAAATTCGAAAATCTA
1 GTTGTGAATTTGAAAATCTA
*
124882 GTTGTGAATTTGAAATTC-A
1 GTTGTGAATTTGAAAATCTA
*
124901 GTTGCGAATTTGA
1 GTTGTGAATTTGA
124914 CTATCGCGTT
Statistics
Matches: 28, Mismatches: 4, Indels: 1
0.85 0.12 0.03
Matches are distributed among these distances:
19 13 0.46
20 15 0.54
ACGTcount: A:0.33, C:0.08, G:0.21, T:0.38
Consensus pattern (20 bp):
GTTGTGAATTTGAAAATCTA
Found at i:124964 original size:20 final size:20
Alignment explanation
Indices: 124941--124987 Score: 67
Period size: 20 Copynumber: 2.4 Consensus size: 20
124931 TAACTTATGT
124941 GTTGCGATTTACAAATTCAC
1 GTTGCGATTTACAAATTCAC
* * *
124961 GTTGCGATTTATAGATTCGC
1 GTTGCGATTTACAAATTCAC
124981 GTTGCGA
1 GTTGCGA
124988 ATTTGACTTT
Statistics
Matches: 24, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
20 24 1.00
ACGTcount: A:0.23, C:0.17, G:0.23, T:0.36
Consensus pattern (20 bp):
GTTGCGATTTACAAATTCAC
Found at i:125021 original size:40 final size:40
Alignment explanation
Indices: 124965--125072 Score: 139
Period size: 40 Copynumber: 2.7 Consensus size: 40
124955 ATTCACGTTG
* * *
124965 CGATTTATAGATTCGCGTTGCGAATTTGACTTTTGTGTTA
1 CGATTTACAGATTCGCGTTGCGAATTTGACTTCTGTGCTA
* *
125005 CGAATTTGAC-TA-TCGCGTTGCGAATTTGACTTCTGTGCTG
1 CG-ATTT-ACAGATTCGCGTTGCGAATTTGACTTCTGTGCTA
125045 CGATTTACAGATTCGCGTTGCGAATTTG
1 CGATTTACAGATTCGCGTTGCGAATTTG
125073 GAAAATCGCA
Statistics
Matches: 58, Mismatches: 6, Indels: 8
0.81 0.08 0.11
Matches are distributed among these distances:
38 2 0.03
39 5 0.09
40 45 0.78
41 5 0.09
42 1 0.02
ACGTcount: A:0.19, C:0.17, G:0.24, T:0.40
Consensus pattern (40 bp):
CGATTTACAGATTCGCGTTGCGAATTTGACTTCTGTGCTA
Found at i:125046 original size:20 final size:20
Alignment explanation
Indices: 124981--125047 Score: 82
Period size: 20 Copynumber: 3.4 Consensus size: 20
124971 ATAGATTCGC
*
124981 GTTGCGAATTTGACTTTTGT
1 GTTGCGAATTTGACTTCTGT
* *
125001 GTTACGAATTTGACTATC-GC
1 GTTGCGAATTTGACT-TCTGT
125021 GTTGCGAATTTGACTTCTGT
1 GTTGCGAATTTGACTTCTGT
*
125041 GCTGCGA
1 GTTGCGA
125048 TTTACAGATT
Statistics
Matches: 39, Mismatches: 6, Indels: 4
0.80 0.12 0.08
Matches are distributed among these distances:
19 2 0.05
20 36 0.92
21 1 0.03
ACGTcount: A:0.18, C:0.16, G:0.25, T:0.40
Consensus pattern (20 bp):
GTTGCGAATTTGACTTCTGT
Found at i:125131 original size:20 final size:20
Alignment explanation
Indices: 125057--125149 Score: 71
Period size: 20 Copynumber: 4.6 Consensus size: 20
125047 ATTTACAGAT
*
125057 TCGCGTTGCGAATTTGGAAAA
1 TCGCGTTGCGAAATTGG-AAA
** ** *
125078 TCGCAATGCG-AATTACATAT
1 TCGCGTTGCGAAATTGGA-AA
*
125098 TCGCGTTACGAAATTGGAAA
1 TCGCGTTGCGAAATTGGAAA
* * *
125118 TTGGGTTGCGAAATTGGAGA
1 TCGCGTTGCGAAATTGGAAA
125138 TCGCGTTGCGAA
1 TCGCGTTGCGAA
125150 TTTATTGGTC
Statistics
Matches: 52, Mismatches: 18, Indels: 5
0.69 0.24 0.07
Matches are distributed among these distances:
19 1 0.02
20 38 0.73
21 13 0.25
ACGTcount: A:0.29, C:0.15, G:0.28, T:0.28
Consensus pattern (20 bp):
TCGCGTTGCGAAATTGGAAA
Found at i:127719 original size:31 final size:31
Alignment explanation
Indices: 127681--127805 Score: 180
Period size: 31 Copynumber: 4.0 Consensus size: 31
127671 AGGGTCGAGG
*
127681 GTTTACCTATGTTCTTCGGGATATATGGACT
1 GTTTACCTATGTTCTTCGGGACATATGGACT
*
127712 GTTTACCTATGTTATTCGGGACATATGGACT
1 GTTTACCTATGTTCTTCGGGACATATGGACT
* *
127743 CTTTACCTATGTTCTTCGGGACATATGGATT
1 GTTTACCTATGTTCTTCGGGACATATGGACT
* *
127774 GTTTACCTAGGTTCTTCGGAATC-TATGGACT
1 GTTTACCTATGTTCTTCGGGA-CATATGGACT
127805 G
1 G
127806 GTCATTCGGG
Statistics
Matches: 84, Mismatches: 9, Indels: 2
0.88 0.09 0.02
Matches are distributed among these distances:
31 83 0.99
32 1 0.01
ACGTcount: A:0.20, C:0.18, G:0.22, T:0.40
Consensus pattern (31 bp):
GTTTACCTATGTTCTTCGGGACATATGGACT
Found at i:138089 original size:24 final size:23
Alignment explanation
Indices: 138045--138107 Score: 74
Period size: 24 Copynumber: 2.7 Consensus size: 23
138035 TTAATTATAA
* *
138045 ATAAAAATAA-ATATCTTTGTATT
1 ATAAAAATAAGTTAT-TTTGTAGT
*
138068 GTAAAAATAAGTTATTTGTGTAGT
1 ATAAAAATAAGTTATTT-TGTAGT
138092 ATAAAAATAAGTTATT
1 ATAAAAATAAGTTATT
138108 ATATATTAAA
Statistics
Matches: 34, Mismatches: 4, Indels: 3
0.83 0.10 0.07
Matches are distributed among these distances:
23 11 0.32
24 23 0.68
ACGTcount: A:0.46, C:0.02, G:0.11, T:0.41
Consensus pattern (23 bp):
ATAAAAATAAGTTATTTTGTAGT
Found at i:138330 original size:31 final size:30
Alignment explanation
Indices: 138293--138433 Score: 80
Period size: 31 Copynumber: 4.7 Consensus size: 30
138283 ACTTTTAAAT
138293 ATTCTAATTTCATCCTTAAATTATGATTCTC
1 ATTCTAATTTCATCCTTAAATTATGA-TCTC
* * *
138324 ATTCTAAATTT-GTCCTTAAACTTTTGA--AC
1 ATTCT-AATTTCATCCTTAAA-TTATGATCTC
* ** *
138353 ATTCAAATTTCATCCCCAAACTATGAATCTC
1 ATTCTAATTTCATCCTTAAATTATG-ATCTC
* * *
138384 ATTCTAAATTGAT-CTTAAACTTTTAGATCT-
1 ATTCTAATTTCATCCTTAAA-TTAT-GATCTC
*
138414 -TTC-AATTTCATCCTCAAATT
1 ATTCTAATTTCATCCTTAAATT
138434 CATCAAGATA
Statistics
Matches: 81, Mismatches: 20, Indels: 21
0.66 0.16 0.17
Matches are distributed among these distances:
28 16 0.20
29 20 0.25
30 4 0.05
31 30 0.37
32 11 0.14
ACGTcount: A:0.32, C:0.21, G:0.04, T:0.43
Consensus pattern (30 bp):
ATTCTAATTTCATCCTTAAATTATGATCTC
Found at i:138378 original size:60 final size:58
Alignment explanation
Indices: 138283--138431 Score: 174
Period size: 60 Copynumber: 2.5 Consensus size: 58
138273 ATTAATCCTT
* * * * *
138283 ACTTTTAAATATTCTAATTTCATCCTTAAATTATGATTCTCATTCTAAATTTG-TCCTTAA
1 ACTTTTGAACATTC-AATTTCATCCTCAAACTATGAATCTCATTCTAAA-TTGAT-CTTAA
*
138343 ACTTTTGAACATTCAAATTTCATCCCCAAACTATGAATCTCATTCTAAATTGATCTTAA
1 ACTTTTGAACATTC-AATTTCATCCTCAAACTATGAATCTCATTCTAAATTGATCTTAA
* *
138402 ACTTTTAGATCTTTCAATTTCATCCTCAAA
1 ACTTTT-GAACATTCAATTTCATCCTCAAA
138432 TTCATCAAGA
Statistics
Matches: 77, Mismatches: 10, Indels: 5
0.84 0.11 0.05
Matches are distributed among these distances:
59 28 0.36
60 49 0.64
ACGTcount: A:0.33, C:0.20, G:0.04, T:0.43
Consensus pattern (58 bp):
ACTTTTGAACATTCAATTTCATCCTCAAACTATGAATCTCATTCTAAATTGATCTTAA
Found at i:138678 original size:60 final size:62
Alignment explanation
Indices: 138545--138681 Score: 144
Period size: 60 Copynumber: 2.3 Consensus size: 62
138535 GTATATATGA
* * *
138545 ATAA-TTTAGAAT-AAAATTAAAATATTCAAAAAGTTTGGGGACCAATTTAGAATGAAGATC
1 ATAACTTTAGGATGAAAATTAAAATATTCAAAAAGTTTGAGGACCAATTTAGAATGAAAATC
* *
138605 ATAACTTTGGGATGAAAA-TAAAAT-TTCCAAAAA-TTTGAGGACTAATTTAGAAT-AATAATC
1 ATAACTTTAGGATGAAAATTAAAATATT-CAAAAAGTTTGAGGACCAATTTAGAATGAA-AATC
*
138665 AT-AGTTTAAGGATGAAA
1 ATAACTTT-AGGATGAAA
138682 TTGAAATGCT
Statistics
Matches: 65, Mismatches: 7, Indels: 10
0.79 0.09 0.12
Matches are distributed among these distances:
59 6 0.09
60 37 0.57
61 18 0.28
62 4 0.06
ACGTcount: A:0.47, C:0.07, G:0.15, T:0.31
Consensus pattern (62 bp):
ATAACTTTAGGATGAAAATTAAAATATTCAAAAAGTTTGAGGACCAATTTAGAATGAAAATC
Found at i:142920 original size:35 final size:35
Alignment explanation
Indices: 142857--142925 Score: 95
Period size: 35 Copynumber: 2.0 Consensus size: 35
142847 CAAAGGCATT
** *
142857 CATGGGTATCGATACCTGGAGGGTAGTATCGGTAC
1 CATGGGTATCGATACCTACAAGGTAGTATCGGTAC
142892 CATGGGTATCGATACC-ACAAGGTCAGTATCGGTA
1 CATGGGTATCGATACCTACAAGGT-AGTATCGGTA
142926 TCAATTTTTG
Statistics
Matches: 30, Mismatches: 3, Indels: 2
0.86 0.09 0.06
Matches are distributed among these distances:
34 4 0.13
35 26 0.87
ACGTcount: A:0.26, C:0.19, G:0.30, T:0.25
Consensus pattern (35 bp):
CATGGGTATCGATACCTACAAGGTAGTATCGGTAC
Found at i:146897 original size:53 final size:53
Alignment explanation
Indices: 146819--146924 Score: 212
Period size: 53 Copynumber: 2.0 Consensus size: 53
146809 GGCATTCACG
146819 GGGTATCAGTGCCTGGAGGGTAGGTTCCGATACCACAAGGTCAGTATCGGTAC
1 GGGTATCAGTGCCTGGAGGGTAGGTTCCGATACCACAAGGTCAGTATCGGTAC
146872 GGGTATCAGTGCCTGGAGGGTAGGTTCCGATACCACAAGGTCAGTATCGGTAC
1 GGGTATCAGTGCCTGGAGGGTAGGTTCCGATACCACAAGGTCAGTATCGGTAC
146925 AAATTTTTGA
Statistics
Matches: 53, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
53 53 1.00
ACGTcount: A:0.23, C:0.21, G:0.34, T:0.23
Consensus pattern (53 bp):
GGGTATCAGTGCCTGGAGGGTAGGTTCCGATACCACAAGGTCAGTATCGGTAC
Found at i:151089 original size:43 final size:43
Alignment explanation
Indices: 151028--151118 Score: 159
Period size: 43 Copynumber: 2.1 Consensus size: 43
151018 ATAATTTCCT
151028 CTAAC-TATGATAAGAAAAGCTCTCTGCGGAAAACTCAAGCTCC
1 CTAACTTATGATAAGAAAAGCTCTCTGCGGAAAACTC-AGCTCC
151071 CTAACTTATGAT-AGAAAAGCTCTCTGCGGAAAACTCAGCTCC
1 CTAACTTATGATAAGAAAAGCTCTCTGCGGAAAACTCAGCTCC
151113 CTAACT
1 CTAACT
151119 AGCTCACTAT
Statistics
Matches: 47, Mismatches: 0, Indels: 3
0.94 0.00 0.06
Matches are distributed among these distances:
42 12 0.26
43 29 0.62
44 6 0.13
ACGTcount: A:0.35, C:0.26, G:0.15, T:0.23
Consensus pattern (43 bp):
CTAACTTATGATAAGAAAAGCTCTCTGCGGAAAACTCAGCTCC
Found at i:151607 original size:15 final size:14
Alignment explanation
Indices: 151582--151619 Score: 55
Period size: 13 Copynumber: 2.9 Consensus size: 14
151572 AAAATCATAA
151582 ATCAGTATATATAT
1 ATCAGTATATATAT
151596 ATCAG-ATATATAT
1 ATCAGTATATATAT
151609 AT-A-TATATATA
1 ATCAGTATATATA
151620 AATAAAATAT
Statistics
Matches: 23, Mismatches: 0, Indels: 4
0.85 0.00 0.15
Matches are distributed among these distances:
12 8 0.35
13 10 0.43
14 5 0.22
ACGTcount: A:0.47, C:0.05, G:0.05, T:0.42
Consensus pattern (14 bp):
ATCAGTATATATAT
Found at i:155513 original size:19 final size:19
Alignment explanation
Indices: 155477--155513 Score: 56
Period size: 19 Copynumber: 1.9 Consensus size: 19
155467 TTTATAGCGA
*
155477 AAATTTAAAATTTAAATTG
1 AAATTTAAAAATTAAATTG
*
155496 AAATTTAAAAATTCAATT
1 AAATTTAAAAATTAAATT
155514 CAAAATAATT
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
19 16 1.00
ACGTcount: A:0.54, C:0.03, G:0.03, T:0.41
Consensus pattern (19 bp):
AAATTTAAAAATTAAATTG
Found at i:155676 original size:4 final size:4
Alignment explanation
Indices: 155647--155688 Score: 52
Period size: 4 Copynumber: 11.0 Consensus size: 4
155637 ATAAAAATGT
* *
155647 TAAA TAAA AAAA T-AA TAAG T-AA TAAA TAAA TAAA TAAA TAAA
1 TAAA TAAA TAAA TAAA TAAA TAAA TAAA TAAA TAAA TAAA TAAA
155689 ACATACTAAA
Statistics
Matches: 32, Mismatches: 4, Indels: 4
0.80 0.10 0.10
Matches are distributed among these distances:
3 5 0.16
4 27 0.84
ACGTcount: A:0.74, C:0.00, G:0.02, T:0.24
Consensus pattern (4 bp):
TAAA
Found at i:155698 original size:26 final size:26
Alignment explanation
Indices: 155601--155687 Score: 70
Period size: 26 Copynumber: 3.3 Consensus size: 26
155591 AAAAAAAGAT
*
155601 AAAATATATAAAAAATGAAATAAATAAA
1 AAAATA-ATAAATAAT-AAATAAATAAA
* **
155629 AGAGAAAAATAAA-AAT-GTTAAATAAA
1 A-A-AATAATAAATAATAAATAAATAAA
*
155655 AAAATAATAAGTAATAAATAAATAAA
1 AAAATAATAAATAATAAATAAATAAA
*
155681 TAAATAA
1 AAAATAA
155688 AACATACTAA
Statistics
Matches: 47, Mismatches: 8, Indels: 10
0.72 0.12 0.15
Matches are distributed among these distances:
24 7 0.15
25 4 0.09
26 23 0.49
28 4 0.09
29 6 0.13
30 3 0.06
ACGTcount: A:0.72, C:0.00, G:0.06, T:0.22
Consensus pattern (26 bp):
AAAATAATAAATAATAAATAAATAAA
Found at i:155710 original size:21 final size:21
Alignment explanation
Indices: 155686--155727 Score: 57
Period size: 21 Copynumber: 2.0 Consensus size: 21
155676 ATAAATAAAT
*
155686 AAAACATACTAAAATTAAAAG
1 AAAAAATACTAAAATTAAAAG
* *
155707 AAAAAATGCTAAATTTAAAAG
1 AAAAAATACTAAAATTAAAAG
155728 GAATGAATAA
Statistics
Matches: 18, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
21 18 1.00
ACGTcount: A:0.64, C:0.07, G:0.07, T:0.21
Consensus pattern (21 bp):
AAAAAATACTAAAATTAAAAG
Found at i:163973 original size:3 final size:3
Alignment explanation
Indices: 163965--163990 Score: 52
Period size: 3 Copynumber: 8.7 Consensus size: 3
163955 AATAAGTCAA
163965 AAT AAT AAT AAT AAT AAT AAT AAT AA
1 AAT AAT AAT AAT AAT AAT AAT AAT AA
163991 ATAAGAATAG
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 23 1.00
ACGTcount: A:0.69, C:0.00, G:0.00, T:0.31
Consensus pattern (3 bp):
AAT
Found at i:164016 original size:12 final size:13
Alignment explanation
Indices: 163946--164016 Score: 60
Period size: 12 Copynumber: 5.5 Consensus size: 13
163936 TGAAAAAATA
163946 AATAAA-AAGAAT
1 AATAAATAAGAAT
*
163958 AAGTCAAAATAATAAT
1 AA-T--AAATAAGAAT
*
163974 AAT-AATAATAAT
1 AATAAATAAGAAT
163986 AATAAATAAGAAT
1 AATAAATAAGAAT
*
163999 -AGAAATAAGAA-
1 AATAAATAAGAAT
164010 AATAAAT
1 AATAAAT
164017 TAAGGAACAA
Statistics
Matches: 49, Mismatches: 4, Indels: 12
0.75 0.06 0.18
Matches are distributed among these distances:
12 29 0.59
13 9 0.18
15 4 0.08
16 7 0.14
ACGTcount: A:0.69, C:0.01, G:0.07, T:0.23
Consensus pattern (13 bp):
AATAAATAAGAAT
Found at i:165456 original size:4 final size:4
Alignment explanation
Indices: 165447--165500 Score: 51
Period size: 4 Copynumber: 13.8 Consensus size: 4
165437 AATAATAAGT
* *
165447 AATA AATA AATA AATA AA-A AGGTA GA-A AATA AATA AATA AATA TAATA
1 AATA AATA AATA AATA AATA A-ATA AATA AATA AATA AATA AATA -AATA
165495 AA-A AAT
1 AATA AAT
165501 TCCAAAACTA
Statistics
Matches: 41, Mismatches: 4, Indels: 10
0.75 0.07 0.18
Matches are distributed among these distances:
3 7 0.17
4 29 0.71
5 5 0.12
ACGTcount: A:0.72, C:0.00, G:0.06, T:0.22
Consensus pattern (4 bp):
AATA
Done.