Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: VEPZ01008395.1 Hibiscus syriacus cultivar Beakdansim tig00111161_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: 193614
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
Found at i:2138 original size:13 final size:14
Alignment explanation
Indices: 2099--2139 Score: 50
Period size: 13 Copynumber: 3.1 Consensus size: 14
2089 ATATTTGTAT
2099 TTAGTACTTTTTTA
1 TTAGTACTTTTTTA
* *
2113 TT-GTAGTTGTTTA
1 TTAGTACTTTTTTA
2126 TTAG-ACTTTTTTA
1 TTAGTACTTTTTTA
2139 T
1 T
2140 GTAATTTTTT
Statistics
Matches: 22, Mismatches: 4, Indels: 3
0.76 0.14 0.10
Matches are distributed among these distances:
13 19 0.86
14 3 0.14
ACGTcount: A:0.20, C:0.05, G:0.12, T:0.63
Consensus pattern (14 bp):
TTAGTACTTTTTTA
Found at i:2154 original size:26 final size:27
Alignment explanation
Indices: 2080--2139 Score: 79
Period size: 26 Copynumber: 2.3 Consensus size: 27
2070 TAGATTTTAT
* * *
2080 TTTTTTATTATATTTGTAT-TTAGTAC
1 TTTTTTATTGTAGTTGTTTATTAGTAC
2106 TTTTTTATTGTAGTTGTTTATTAG-AC
1 TTTTTTATTGTAGTTGTTTATTAGTAC
2132 TTTTTTAT
1 TTTTTTAT
2140 GTAATTTTTT
Statistics
Matches: 30, Mismatches: 3, Indels: 2
0.86 0.09 0.06
Matches are distributed among these distances:
26 26 0.87
27 4 0.13
ACGTcount: A:0.20, C:0.03, G:0.10, T:0.67
Consensus pattern (27 bp):
TTTTTTATTGTAGTTGTTTATTAGTAC
Found at i:6356 original size:21 final size:21
Alignment explanation
Indices: 6330--6382 Score: 61
Period size: 21 Copynumber: 2.5 Consensus size: 21
6320 AACCGTTAGA
* **
6330 TGTTGACGTGATATTTTACGG
1 TGTTGACATGATAGCTTACGG
*
6351 TGTTGATATGATAGCTTACGG
1 TGTTGACATGATAGCTTACGG
*
6372 TGTTAACATGA
1 TGTTGACATGA
6383 CGATCCGCGA
Statistics
Matches: 26, Mismatches: 6, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
21 26 1.00
ACGTcount: A:0.25, C:0.09, G:0.26, T:0.40
Consensus pattern (21 bp):
TGTTGACATGATAGCTTACGG
Found at i:9532 original size:31 final size:31
Alignment explanation
Indices: 9462--9532 Score: 83
Period size: 31 Copynumber: 2.3 Consensus size: 31
9452 AATTATTTTT
* *
9462 AATTT-ACCTCTAAATTCTAGATAAAATATT
1 AATTTAACCCCTAAATTCTAGATAAAATATC
* *
9492 AACTAAACCCCTAAACTT-TAGATAAAATATC
1 AATTTAACCCCTAAA-TTCTAGATAAAATATC
9523 AATTTAACCC
1 AATTTAACCC
9533 TTTAACTCAA
Statistics
Matches: 33, Mismatches: 6, Indels: 3
0.79 0.14 0.07
Matches are distributed among these distances:
30 3 0.09
31 28 0.85
32 2 0.06
ACGTcount: A:0.45, C:0.20, G:0.03, T:0.32
Consensus pattern (31 bp):
AATTTAACCCCTAAATTCTAGATAAAATATC
Found at i:18033 original size:21 final size:21
Alignment explanation
Indices: 18004--18098 Score: 57
Period size: 21 Copynumber: 4.1 Consensus size: 21
17994 AGAATTATTA
*
18004 TAATATTTTAAAATTAATAAT
1 TAATATTTTAAAATAAATAAT
* *
18025 TAATTTTTTATAATAAATAAAAT
1 TAATATTTTAAAATAAAT--AAT
*
18048 TAATTATTATATTAAATAAATATCAT
1 TAA-TATT-T-TAAAATAAATA--AT
*
18074 TAAATAATTTTTAAATAAA-AAT
1 T-AAT-ATTTTAAAATAAATAAT
18096 TAA
1 TAA
18099 AAAAATTATT
Statistics
Matches: 59, Mismatches: 6, Indels: 18
0.71 0.07 0.22
Matches are distributed among these distances:
21 17 0.29
22 3 0.05
23 6 0.10
24 5 0.08
25 10 0.17
26 13 0.22
27 5 0.08
ACGTcount: A:0.54, C:0.01, G:0.00, T:0.45
Consensus pattern (21 bp):
TAATATTTTAAAATAAATAAT
Found at i:18063 original size:22 final size:23
Alignment explanation
Indices: 18022--18067 Score: 67
Period size: 22 Copynumber: 2.0 Consensus size: 23
18012 TAAAATTAAT
*
18022 AATTAATTTTTTATAATAAATAA
1 AATTAATTTATTATAATAAATAA
*
18045 AATTAA-TTATTATATTAAATAA
1 AATTAATTTATTATAATAAATAA
18067 A
1 A
18068 TATCATTAAA
Statistics
Matches: 21, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
22 15 0.71
23 6 0.29
ACGTcount: A:0.54, C:0.00, G:0.00, T:0.46
Consensus pattern (23 bp):
AATTAATTTATTATAATAAATAA
Found at i:18075 original size:26 final size:25
Alignment explanation
Indices: 18029--18092 Score: 67
Period size: 26 Copynumber: 2.5 Consensus size: 25
18019 AATAATTAAT
*
18029 TTTTTATAATAAATAAAATT-AATTA
1 TTTTTA-AATAAATAAAATTAAATAA
**
18054 TTATATTAAATAAATATCATTAAATAA
1 TT-T-TTAAATAAATAAAATTAAATAA
18081 TTTTTAAATAAA
1 TTTTTAAATAAA
18093 AATTAAAAAA
Statistics
Matches: 33, Mismatches: 3, Indels: 6
0.79 0.07 0.14
Matches are distributed among these distances:
25 11 0.33
26 13 0.39
27 9 0.27
ACGTcount: A:0.53, C:0.02, G:0.00, T:0.45
Consensus pattern (25 bp):
TTTTTAAATAAATAAAATTAAATAA
Found at i:23912 original size:16 final size:16
Alignment explanation
Indices: 23891--23924 Score: 59
Period size: 16 Copynumber: 2.1 Consensus size: 16
23881 TTACTATTCA
*
23891 CGTGAATAGTGAATTT
1 CGTGAATAGTGAAATT
23907 CGTGAATAGTGAAATT
1 CGTGAATAGTGAAATT
23923 CG
1 CG
23925 GTCGGCGATA
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
16 17 1.00
ACGTcount: A:0.32, C:0.09, G:0.26, T:0.32
Consensus pattern (16 bp):
CGTGAATAGTGAAATT
Found at i:24695 original size:15 final size:16
Alignment explanation
Indices: 24675--24706 Score: 57
Period size: 15 Copynumber: 2.1 Consensus size: 16
24665 TGGCAGATCC
24675 AAATCCAG-ACGGGAA
1 AAATCCAGAACGGGAA
24690 AAATCCAGAACGGGAA
1 AAATCCAGAACGGGAA
24706 A
1 A
24707 GAAATATTTT
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
15 8 0.50
16 8 0.50
ACGTcount: A:0.50, C:0.19, G:0.25, T:0.06
Consensus pattern (16 bp):
AAATCCAGAACGGGAA
Found at i:28015 original size:11 final size:11
Alignment explanation
Indices: 27999--28023 Score: 50
Period size: 11 Copynumber: 2.3 Consensus size: 11
27989 AAAAAAACAT
27999 GGGCTGCTAAG
1 GGGCTGCTAAG
28010 GGGCTGCTAAG
1 GGGCTGCTAAG
28021 GGG
1 GGG
28024 TATTTTTTTA
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 14 1.00
ACGTcount: A:0.16, C:0.16, G:0.52, T:0.16
Consensus pattern (11 bp):
GGGCTGCTAAG
Found at i:30965 original size:14 final size:14
Alignment explanation
Indices: 30946--30974 Score: 58
Period size: 14 Copynumber: 2.1 Consensus size: 14
30936 CAAATTAAAG
30946 ATATATATATACAT
1 ATATATATATACAT
30960 ATATATATATACAT
1 ATATATATATACAT
30974 A
1 A
30975 CAGTTGGAAG
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 15 1.00
ACGTcount: A:0.52, C:0.07, G:0.00, T:0.41
Consensus pattern (14 bp):
ATATATATATACAT
Found at i:41523 original size:30 final size:30
Alignment explanation
Indices: 41463--41527 Score: 85
Period size: 30 Copynumber: 2.2 Consensus size: 30
41453 GCATGGTTCG
* **
41463 TCAACGTGTGCTCCACCAATCCCTGCTCCA
1 TCAACGTGTGCTCCACCAATCCATAATCCA
* *
41493 TCAACGTGTGCTCCACCATTGCATAATCCA
1 TCAACGTGTGCTCCACCAATCCATAATCCA
41523 TCAAC
1 TCAAC
41528 ACGTGCTCTA
Statistics
Matches: 30, Mismatches: 5, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
30 30 1.00
ACGTcount: A:0.25, C:0.38, G:0.12, T:0.25
Consensus pattern (30 bp):
TCAACGTGTGCTCCACCAATCCATAATCCA
Found at i:41546 original size:30 final size:30
Alignment explanation
Indices: 41489--41546 Score: 73
Period size: 30 Copynumber: 1.9 Consensus size: 30
41479 CAATCCCTGC
** *
41489 TCCATCAACGTGTGCTCCACCATTGCATAA
1 TCCATCAACACGTGCTCAACCATTGCATAA
41519 TCCATCAACACGTGCTCTAACCA-TGCAT
1 TCCATCAACACGTGCTC-AACCATTGCAT
41547 GCTCTAACAA
Statistics
Matches: 24, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
30 20 0.83
31 4 0.17
ACGTcount: A:0.28, C:0.34, G:0.12, T:0.26
Consensus pattern (30 bp):
TCCATCAACACGTGCTCAACCATTGCATAA
Found at i:41950 original size:21 final size:21
Alignment explanation
Indices: 41924--41989 Score: 96
Period size: 21 Copynumber: 3.1 Consensus size: 21
41914 TCAACGTGTG
*
41924 ATGCTCCATTGAATTCAATGC
1 ATGCTCCATTGAATTCAACGC
* *
41945 ATGCTCAATTTAATTCAACGC
1 ATGCTCCATTGAATTCAACGC
*
41966 ATGGTCCATTGAATTCAACGC
1 ATGCTCCATTGAATTCAACGC
41987 ATG
1 ATG
41990 ATCCTTTTCA
Statistics
Matches: 39, Mismatches: 6, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
21 39 1.00
ACGTcount: A:0.30, C:0.23, G:0.15, T:0.32
Consensus pattern (21 bp):
ATGCTCCATTGAATTCAACGC
Found at i:50814 original size:30 final size:30
Alignment explanation
Indices: 50779--50840 Score: 97
Period size: 30 Copynumber: 2.1 Consensus size: 30
50769 AAATTTAAAA
* *
50779 AATTAAAAAATAAGGACAAAGGTAATTTAT
1 AATTAAAAAATAAGGAAAAAGGTAATTAAT
*
50809 AATTAAAAAATAAGGAAAAAGGTTATTAAT
1 AATTAAAAAATAAGGAAAAAGGTAATTAAT
50839 AA
1 AA
50841 GAGAATTTAA
Statistics
Matches: 29, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
30 29 1.00
ACGTcount: A:0.60, C:0.02, G:0.13, T:0.26
Consensus pattern (30 bp):
AATTAAAAAATAAGGAAAAAGGTAATTAAT
Found at i:53282 original size:34 final size:32
Alignment explanation
Indices: 53243--53337 Score: 93
Period size: 34 Copynumber: 2.8 Consensus size: 32
53233 TACTCCAACT
*
53243 AAATATCTTTTAATATTCAAATTTAAACAGATA
1 AAATATATTTTAATATTCAAATTTAAA-AGATA
*
53276 ATAATATATTTTAAT-TTGAAATCTTCAAAAGATA
1 A-AATATATTTTAATATTCAAAT-TT-AAAAGATA
* * *
53310 AAGTCATATTTTACTATTCAAACTTAAA
1 AAAT-ATATTTTAATATTCAAATTTAAA
53338 TATATATTAT
Statistics
Matches: 51, Mismatches: 6, Indels: 10
0.76 0.09 0.15
Matches are distributed among these distances:
33 12 0.24
34 31 0.61
35 8 0.16
ACGTcount: A:0.46, C:0.09, G:0.04, T:0.40
Consensus pattern (32 bp):
AAATATATTTTAATATTCAAATTTAAAAGATA
Found at i:53391 original size:63 final size:61
Alignment explanation
Indices: 53275--53491 Score: 182
Period size: 63 Copynumber: 3.5 Consensus size: 61
53265 TTAAACAGAT
* * ** *
53275 AATA-ATA-TATTTTAATTTGAAATCTTCAAAAG-ATAAAGTCATATTTTACTATTCAAACTTA
1 AATATATATTATTTTAATTTGAAATATTCAAAAGAAT-AA-TTATCCTTTAATATTCAAA-TTA
* *
53336 AATATATATTATTGTAATTTAAAATATTCAAAAGGATATAATTAT-CTTTAATATTCCAAATTA
1 AATATATATTATTTTAATTTGAAATATTCAAAA-GA-ATAATTATCCTTTAATATT-CAAATTA
* * *
53399 AATAGGTA-ATATATTTTAATTTGACATACTC-AAAGAATAATTATCCTACTAATATTCAAATTA
1 AATA--TATAT-TATTTTAATTTGAAATATTCAAAAGAATAATTATCCT-TTAATATTCAAATTA
*
53462 AA-A-ATA-TATTTTAATTTGTAATATTCAAAA
1 AATATATATTATTTTAATTTGAAATATTCAAAA
53492 TAAACATGAA
Statistics
Matches: 129, Mismatches: 14, Indels: 28
0.75 0.08 0.16
Matches are distributed among these distances:
58 17 0.13
59 4 0.03
60 1 0.01
61 4 0.03
62 12 0.09
63 49 0.38
64 20 0.16
65 20 0.16
66 2 0.02
ACGTcount: A:0.46, C:0.08, G:0.05, T:0.41
Consensus pattern (61 bp):
AATATATATTATTTTAATTTGAAATATTCAAAAGAATAATTATCCTTTAATATTCAAATTA
Found at i:54889 original size:24 final size:23
Alignment explanation
Indices: 54861--54915 Score: 58
Period size: 26 Copynumber: 2.3 Consensus size: 23
54851 ATGAGTCAAT
54861 TATATTTAATATTAAGTATTATAAAA
1 TATA-TTAA-ATTAA-TATTATAAAA
*
54887 TATGATTAAATTAATATTAT-ATA
1 TAT-ATTAAATTAATATTATAAAA
54910 TATATT
1 TATATT
54916 GAATAGAAGT
Statistics
Matches: 27, Mismatches: 1, Indels: 6
0.79 0.03 0.18
Matches are distributed among these distances:
22 3 0.11
23 5 0.19
24 6 0.22
25 5 0.19
26 7 0.26
27 1 0.04
ACGTcount: A:0.47, C:0.00, G:0.04, T:0.49
Consensus pattern (23 bp):
TATATTAAATTAATATTATAAAA
Found at i:55400 original size:23 final size:23
Alignment explanation
Indices: 55369--55420 Score: 77
Period size: 23 Copynumber: 2.3 Consensus size: 23
55359 GAAAAAAAGT
55369 GAAAAACGTGTCACAAAGGCAAA
1 GAAAAACGTGTCACAAAGGCAAA
* * *
55392 TAAAAACGTGTTACAAAGTCAAA
1 GAAAAACGTGTCACAAAGGCAAA
55415 GAAAAA
1 GAAAAA
55421 TGCCTCGCAA
Statistics
Matches: 25, Mismatches: 4, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
23 25 1.00
ACGTcount: A:0.56, C:0.13, G:0.17, T:0.13
Consensus pattern (23 bp):
GAAAAACGTGTCACAAAGGCAAA
Found at i:57665 original size:29 final size:31
Alignment explanation
Indices: 57604--57667 Score: 78
Period size: 31 Copynumber: 2.1 Consensus size: 31
57594 ATGATTAATG
* * *
57604 AAATAAAATATATTAACATTACTACATTTTA
1 AAATAAAATATATTAACATAAATACATTATA
*
57635 AAATAAAATATTTTAA-ATAAATA-ATTATA
1 AAATAAAATATATTAACATAAATACATTATA
57664 AAAT
1 AAAT
57668 TTAAATTAAA
Statistics
Matches: 29, Mismatches: 4, Indels: 2
0.83 0.11 0.06
Matches are distributed among these distances:
29 9 0.31
30 5 0.17
31 15 0.52
ACGTcount: A:0.58, C:0.05, G:0.00, T:0.38
Consensus pattern (31 bp):
AAATAAAATATATTAACATAAATACATTATA
Found at i:61616 original size:17 final size:17
Alignment explanation
Indices: 61594--61626 Score: 66
Period size: 17 Copynumber: 1.9 Consensus size: 17
61584 AATCGATCGA
61594 ATCGAATTAGTTCGGTT
1 ATCGAATTAGTTCGGTT
61611 ATCGAATTAGTTCGGT
1 ATCGAATTAGTTCGGT
61627 CGGTTAACAG
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
17 16 1.00
ACGTcount: A:0.24, C:0.12, G:0.24, T:0.39
Consensus pattern (17 bp):
ATCGAATTAGTTCGGTT
Found at i:62006 original size:185 final size:185
Alignment explanation
Indices: 61685--62418 Score: 1222
Period size: 185 Copynumber: 4.0 Consensus size: 185
61675 AACCGAAATT
* * * *
61685 AAATTTTAAATATATTATATATAACATATAGGCTCATCCCAAACCATTTAAAACTCAATTAATAA
1 AAATATTATATATATTATATATAACATATGGGCTCATCCCAAACCATTTAAAACCCAATTAATAA
*
61750 TTTAAGATCCAATAACTTTTAAACTTAAATCAATATTAATTAATTAAAAAAATTATATAAATTTT
66 TTTAAGATCCAATAACTTTTAAACCTAAATCAATATTAATTAATTAAAAAAATTATATAAATTTT
61815 TTATTTTATAATTATATATTATTTAAATTAATTGTAAATTGTTTTTTTAATTAAA
131 TTATTTTATAATTATATATTATTTAAATTAATTGTAAATTGTTTTTTTAATTAAA
61870 AAATATTATATATATTATATATAACATATGGGCTCATCCCAAACCATTTAAAACCCAATTAATAA
1 AAATATTATATATATTATATATAACATATGGGCTCATCCCAAACCATTTAAAACCCAATTAATAA
*
61935 TTTAAGATCCAATAACTTTTAAACTTAAATCAATATTAATTAATTAAAAAAATTATATAAATTTT
66 TTTAAGATCCAATAACTTTTAAACCTAAATCAATATTAATTAATTAAAAAAATTATATAAATTTT
62000 TTATTTTATAATTATATATTATTTAAATTAATTGTAAATTGTTTTTTTAATTAAA
131 TTATTTTATAATTATATATTATTTAAATTAATTGTAAATTGTTTTTTTAATTAAA
* * *
62055 AAATATTATACATATTATATATAACATATGGGCTCATTCCAAACCATTTAAAACTCAATTAATAA
1 AAATATTATATATATTATATATAACATATGGGCTCATCCCAAACCATTTAAAACCCAATTAATAA
*
62120 TTTAAGATCCAATAACTTTTAAACCTAAATCAATATTAATTAATTAAAAAATTTATATAAATTTT
66 TTTAAGATCCAATAACTTTTAAACCTAAATCAATATTAATTAATTAAAAAAATTATATAAATTTT
62185 TTATTTTATAATTATATATTATTTAAATTAATTGTAAATTG-TTTTTTAATT---
131 TTATTTTATAATTATATATTATTTAAATTAATTGTAAATTGTTTTTTTAATTAAA
*
62236 -AA-A--A-A-ATATTATATATAACATATGGGCTCAGCCCAAACCATTTAAAACCCAATTAATAA
1 AAATATTATATATATTATATATAACATATGGGCTCATCCCAAACCATTTAAAACCCAATTAATAA
** *
62295 TTTAAGATCCAATAACTTTTAAACCTAAATCAATATTAATTAATTAAAAATTTTATCTGAAA-TT
66 TTTAAGATCCAATAACTTTTAAACCTAAATCAATATTAATTAATTAAAAAAATTATAT-AAATTT
*
62359 TTTATTTTATAATTATATATTATTTAAATTAATTATAAACTT-TTTTTTTGAATTAAA
130 TTTATTTTATAATTATATATTATTTAAATTAATTGTAAA-TTGTTTTTTT-AATTAAA
62416 AAA
1 AAA
62419 CATTTAATTT
Statistics
Matches: 526, Mismatches: 15, Indels: 20
0.94 0.03 0.04
Matches are distributed among these distances:
175 147 0.28
176 12 0.02
177 5 0.01
179 1 0.00
180 2 0.00
181 2 0.00
184 10 0.02
185 347 0.66
ACGTcount: A:0.45, C:0.09, G:0.03, T:0.43
Consensus pattern (185 bp):
AAATATTATATATATTATATATAACATATGGGCTCATCCCAAACCATTTAAAACCCAATTAATAA
TTTAAGATCCAATAACTTTTAAACCTAAATCAATATTAATTAATTAAAAAAATTATATAAATTTT
TTATTTTATAATTATATATTATTTAAATTAATTGTAAATTGTTTTTTTAATTAAA
Found at i:63511 original size:27 final size:28
Alignment explanation
Indices: 63473--63528 Score: 80
Period size: 27 Copynumber: 2.0 Consensus size: 28
63463 TTCTATAAAG
*
63473 TATTTACGTTA-TGAATTTTATTTTTTAA
1 TATTTACGTTATTG-ATTTTATTTTCTAA
63501 TATTTAC-TTATTGATTTTATTTTCTAA
1 TATTTACGTTATTGATTTTATTTTCTAA
63528 T
1 T
63529 TTTCTGTGAA
Statistics
Matches: 26, Mismatches: 1, Indels: 3
0.87 0.03 0.10
Matches are distributed among these distances:
27 17 0.65
28 9 0.35
ACGTcount: A:0.27, C:0.05, G:0.05, T:0.62
Consensus pattern (28 bp):
TATTTACGTTATTGATTTTATTTTCTAA
Found at i:63796 original size:1 final size:1
Alignment explanation
Indices: 63790--63814 Score: 50
Period size: 1 Copynumber: 25.0 Consensus size: 1
63780 TAGAAAACAC
63790 AAAAAAAAAAAAAAAAAAAAAAAAA
1 AAAAAAAAAAAAAAAAAAAAAAAAA
63815 CTGGTCTCAT
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
1 24 1.00
ACGTcount: A:1.00, C:0.00, G:0.00, T:0.00
Consensus pattern (1 bp):
A
Found at i:72660 original size:21 final size:21
Alignment explanation
Indices: 72636--72684 Score: 53
Period size: 21 Copynumber: 2.3 Consensus size: 21
72626 CGGAAATATT
** *
72636 CATTTTAGGTAGCGAAATTAA
1 CATTTTAGGTAGAAAAAATAA
* *
72657 CATTTCATGTAGAAAAAATAA
1 CATTTTAGGTAGAAAAAATAA
72678 CATTTTA
1 CATTTTA
72685 AGTAACGTTC
Statistics
Matches: 22, Mismatches: 6, Indels: 0
0.79 0.21 0.00
Matches are distributed among these distances:
21 22 1.00
ACGTcount: A:0.43, C:0.10, G:0.12, T:0.35
Consensus pattern (21 bp):
CATTTTAGGTAGAAAAAATAA
Found at i:76424 original size:15 final size:15
Alignment explanation
Indices: 76404--76439 Score: 63
Period size: 15 Copynumber: 2.4 Consensus size: 15
76394 TAATCAGAAG
76404 TTTAATATTTTATAA
1 TTTAATATTTTATAA
76419 TTTAATATTTTATAA
1 TTTAATATTTTATAA
*
76434 ATTAAT
1 TTTAAT
76440 TTAATTATAC
Statistics
Matches: 20, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
15 20 1.00
ACGTcount: A:0.42, C:0.00, G:0.00, T:0.58
Consensus pattern (15 bp):
TTTAATATTTTATAA
Found at i:77213 original size:225 final size:225
Alignment explanation
Indices: 76815--77258 Score: 759
Period size: 225 Copynumber: 2.0 Consensus size: 225
76805 GTAAATTATC
* *
76815 TATCCTTTTTATAAAAGTGTCCATACTTATTTCACTGTGAAAATATATTTATTATTATCTTTAGT
1 TATCATTTTTATAAAAGTGTCCATACTTATTTCACTGTGAAAACATATTTATTATTA-CTTTAGT
**
76880 TAATATTGTTAAATTTAAAATCTAAATAATATTTTATAAAATATCAAAACAATCAAATAATTTTT
65 TAATATTGTTAAATTTAAAATCTAAATAATATTTTATAAAATATCAAAACAATCAAATAAAATTT
*
76945 TGTGTAAATGAAATTATTAAATTAATATTGTAGGTGGAAAACATGAAACACTATTAAA-AAATTG
130 TGTGTAAATGAAATTATTAAATTAATATTGTAGGTGGAAAACATAAAACACTATTAAATAAA-TG
77009 AAACATAAATTACATAACTTTCAAAAAAGTATA
194 AAACATAAATTACATAACTTT-AAAAAAGTATA
*
77042 TATCATTTTTATAAAAGTGTCCATACTTATTTCACTGTTGAAAACATATTTATTA-TA-TTTGGT
1 TATCATTTTTATAAAAGTGTCCATACTTATTTCACTG-TGAAAACATATTTATTATTACTTTAGT
*
77105 TAATATTGTTAAATTTAAATTCTAAATAATATTTTATAAAATATCAAAACAATCAAATAAAATTT
65 TAATATTGTTAAATTTAAAATCTAAATAATATTTTATAAAATATCAAAACAATCAAATAAAATTT
*
77170 TGTGTAAATTAAATTATTAAATTAATATTGTAGGTGGAAAACATAAAACACTATTAAATAAATGA
130 TGTGTAAATGAAATTATTAAATTAATATTGTAGGTGGAAAACATAAAACACTATTAAATAAATGA
77235 AACATAAATTACATAACTTTAAAA
195 AACATAAATTACATAACTTTAAAA
77259 GCAGTTTTAA
Statistics
Matches: 207, Mismatches: 8, Indels: 7
0.93 0.04 0.03
Matches are distributed among these distances:
224 4 0.02
225 146 0.71
226 3 0.01
227 38 0.18
228 16 0.08
ACGTcount: A:0.45, C:0.08, G:0.07, T:0.39
Consensus pattern (225 bp):
TATCATTTTTATAAAAGTGTCCATACTTATTTCACTGTGAAAACATATTTATTATTACTTTAGTT
AATATTGTTAAATTTAAAATCTAAATAATATTTTATAAAATATCAAAACAATCAAATAAAATTTT
GTGTAAATGAAATTATTAAATTAATATTGTAGGTGGAAAACATAAAACACTATTAAATAAATGAA
ACATAAATTACATAACTTTAAAAAAGTATA
Found at i:77347 original size:20 final size:20
Alignment explanation
Indices: 77324--77373 Score: 75
Period size: 20 Copynumber: 2.5 Consensus size: 20
77314 CGATATACCA
77324 GGTAAAATTATGATAAAACC
1 GGTAAAATTATGATAAAACC
*
77344 GGTAACAA-AATGATAAAACC
1 GGTAA-AATTATGATAAAACC
77364 GGTAAAATTA
1 GGTAAAATTA
77374 AAAGTGTCGA
Statistics
Matches: 26, Mismatches: 2, Indels: 4
0.81 0.06 0.12
Matches are distributed among these distances:
19 2 0.08
20 22 0.85
21 2 0.08
ACGTcount: A:0.52, C:0.10, G:0.16, T:0.22
Consensus pattern (20 bp):
GGTAAAATTATGATAAAACC
Found at i:77530 original size:17 final size:18
Alignment explanation
Indices: 77491--77532 Score: 59
Period size: 19 Copynumber: 2.3 Consensus size: 18
77481 AGGTAAAAAT
*
77491 ATGATAAAACCGGTATCAA
1 ATGATAAAAACGGTA-CAA
77510 ATGATAAAAACGGTA-AA
1 ATGATAAAAACGGTACAA
77527 ATGATA
1 ATGATA
77533 CCGGATATAT
Statistics
Matches: 22, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
17 8 0.36
19 14 0.64
ACGTcount: A:0.52, C:0.10, G:0.17, T:0.21
Consensus pattern (18 bp):
ATGATAAAAACGGTACAA
Found at i:79871 original size:33 final size:33
Alignment explanation
Indices: 79829--79894 Score: 96
Period size: 33 Copynumber: 2.0 Consensus size: 33
79819 AAATAGATGG
*
79829 AGTGGTGAAAGAAGTAGAGGTGTTGAGGGGTGA
1 AGTGGTGAAAGAAGTAGAGGTGTTAAGGGGTGA
***
79862 AGTGGTGAAAGAAGTTTCGGTGTTAAGGGGTGA
1 AGTGGTGAAAGAAGTAGAGGTGTTAAGGGGTGA
79895 TATTAAGATG
Statistics
Matches: 29, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
33 29 1.00
ACGTcount: A:0.29, C:0.02, G:0.45, T:0.24
Consensus pattern (33 bp):
AGTGGTGAAAGAAGTAGAGGTGTTAAGGGGTGA
Found at i:81024 original size:19 final size:19
Alignment explanation
Indices: 80961--81023 Score: 110
Period size: 19 Copynumber: 3.4 Consensus size: 19
80951 AATGTCGAGT
*
80961 TAATTTTGTATAAGATTTA
1 TAATTTTGTATACGATTTA
80980 TAATTTTGTATACGATTTA
1 TAATTTTGTATACGATTTA
80999 TAATTTTGTATACGATTTA
1 TAATTTTGTATACGATTTA
81018 T-ATTTT
1 TAATTTT
81024 TTATGTGAAT
Statistics
Matches: 43, Mismatches: 1, Indels: 1
0.96 0.02 0.02
Matches are distributed among these distances:
18 5 0.12
19 38 0.88
ACGTcount: A:0.32, C:0.03, G:0.10, T:0.56
Consensus pattern (19 bp):
TAATTTTGTATACGATTTA
Found at i:81582 original size:193 final size:198
Alignment explanation
Indices: 81103--82100 Score: 1694
Period size: 194 Copynumber: 5.1 Consensus size: 198
81093 TTAAGGGTCA
* *** *
81103 TGTCGATACTAATATAGTTTGTGTCGATATTTTTTTTCCAGAATGAATT-TTTACAAGGTGCATC
1 TGTCGACACTAATATAGTTTGTGTCGATA-TTTTTTTCCAGAATGAATTAAAAACAAGGTGCACC
*
81167 AATAAAGTGTCGATCCATATATAAAAAAGTGTCGATCCCAAAATCATCGAACCCAAAAGTATAAT
65 CATAAAGTGTCGATCCATATAT-AAAAAGTGTCGATCCCAAAATCATCGAACCCAAAAGTATAAT
*
81232 GTAATATGTAATTTTTTAATCTAACCGGTACAATTATACCGGTTTTATGAGAGAAT-AGTCTAAA
129 GTAATATGTAATTTTTCAATCTAACCGGTACAATTATACCGGTTTTATGAGAGAATAAGTCTAAA
81296 TAATG
194 TAATG
81301 TGTCGACACT-A-ATAGTTTGTGTCGATATTTTTTTCCCAGAATGAATTAAAAAC-AGGTGCACC
1 TGTCGACACTAATATAGTTTGTGTCGATATTTTTTT-CCAGAATGAATTAAAAACAAGGTGCACC
81363 CATAAAGTGTCGATCCATATATAAAAAGTGTCGATCCCAAAATCATCGAACCCAAAAGTAT-ATG
65 CATAAAGTGTCGATCCATATATAAAAAGTGTCGATCCCAAAATCATCGAACCCAAAAGTATAATG
81427 TAATATGTAATTTTTCAATCTAACCGGTACAATTATACCGG-TTT-TGAGAGAATAAGTCTAAAT
130 TAATATGTAATTTTTCAATCTAACCGGTACAATTATACCGGTTTTATGAGAGAATAAGTCTAAAT
81490 AATG
195 AATG
81494 TGTCGACACTAATATAGTTTGTGTCGATA-TTTTTTCCAGAATGAATTAAAAACAAGGTGCACCC
1 TGTCGACACTAATATAGTTTGTGTCGATATTTTTTTCCAGAATGAATTAAAAACAAGGTGCACCC
81558 AT-AAGTGTCGATCCATATATAAAAAAGTGTCGATCCC-AAATCATCGAACCCAAAA-TAT-ATG
66 ATAAAGTGTCGATCCATATAT-AAAAAGTGTCGATCCCAAAATCATCGAACCCAAAAGTATAATG
81619 TAATATGTAATTTTTCAATCTAACCGGTACAATTATACCGGTTTTATGAGAGAATAAGTCTAAAT
130 TAATATGTAATTTTTCAATCTAACCGGTACAATTATACCGGTTTTATGAGAGAATAAGTCTAAAT
81684 AATG
195 AATG
*** *
81688 TGTCGACACTAATATAGTTTGTGTCGATATTTTTTTTCCAGAATGAATT-TTTACAAGGTGCATC
1 TGTCGACACTAATATAGTTTGTGTCGATA-TTTTTTTCCAGAATGAATTAAAAACAAGGTGCACC
*
81752 AATAAAGTGTCGATCC--ATAT-AAAAGTGTCGATCCCAAAATCATCGAACCC-AAAGTATAATG
65 CATAAAGTGTCGATCCATATATAAAAAGTGTCGATCCCAAAATCATCGAACCCAAAAGTATAATG
81813 TAATATGTAATTTTTCAATCT-ACCGGTACAATTATACCGGTTTTATGAGA-AATAAGTCTAAAT
130 TAATATGTAATTTTTCAATCTAACCGGTACAATTATACCGGTTTTATGAGAGAATAAGTCTAAAT
81876 AATG
195 AATG
81880 TGTCGACACTAATATAGTTTGTGTCGATATTTTTTTCCCAGAATGAATTAAAAACAAGGTGCACC
1 TGTCGACACTAATATAGTTTGTGTCGATATTTTTTT-CCAGAATGAATTAAAAACAAGGTGCACC
81945 CATAAAGTGTCGATCCATATATAAAAAGTGTCGATCCCAAAATCATCGAACCCAAAAGTATAATG
65 CATAAAGTGTCGATCCATATATAAAAAGTGTCGATCCCAAAATCATCGAACCCAAAAGTATAATG
82010 TAATATGTAATTTTTCAATCTAACCGGTACAATTATACCGGTTTTATGAGAGAATAAGTCTAAAT
130 TAATATGTAATTTTTCAATCTAACCGGTACAATTATACCGGTTTTATGAGAGAATAAGTCTAAAT
82075 AATG
195 AATG
82079 TGTCGACACTAATATAGTTTGT
1 TGTCGACACTAATATAGTTTGT
82101 CGATCCATAT
Statistics
Matches: 760, Mismatches: 17, Indels: 45
0.92 0.02 0.05
Matches are distributed among these distances:
191 7 0.01
192 132 0.17
193 155 0.20
194 158 0.21
195 79 0.10
196 117 0.15
197 35 0.05
198 38 0.05
199 39 0.05
ACGTcount: A:0.37, C:0.15, G:0.15, T:0.33
Consensus pattern (198 bp):
TGTCGACACTAATATAGTTTGTGTCGATATTTTTTTCCAGAATGAATTAAAAACAAGGTGCACCC
ATAAAGTGTCGATCCATATATAAAAAGTGTCGATCCCAAAATCATCGAACCCAAAAGTATAATGT
AATATGTAATTTTTCAATCTAACCGGTACAATTATACCGGTTTTATGAGAGAATAAGTCTAAATA
ATG
Found at i:82104 original size:389 final size:393
Alignment explanation
Indices: 81103--82100 Score: 1704
Period size: 386 Copynumber: 2.6 Consensus size: 393
81093 TTAAGGGTCA
* *** *
81103 TGTCGATACTAATATAGTTTGTGTCGATATTTTTTTTCCAGAATGAATT-TTTACAAGGTGCATC
1 TGTCGACACTAATATAGTTTGTGTCGATA-TTTTTTTCCAGAATGAATTAAAAACAAGGTGCACC
*
81167 AATAAAGTGTCGATCCATATATAAAAAAGTGTCGATCCCAAAATCATCGAACCCAAAAGTATAAT
65 CATAAAGTGTCGATCCATATATAAAAAAGTGTCGATCCCAAAATCATCGAACCCAAAAGTATAAT
*
81232 GTAATATGTAATTTTTTAATCTAACCGGTACAATTATACCGGTTTTATGAGAGAAT-AGTCTAAA
130 GTAATATGTAATTTTTCAATCTAACCGGTACAATTATACCGGTTTTATGAGAGAATAAGTCTAAA
81296 TAATGTGTCGACACT-A-ATAGTTTGTGTCGATATTTTTTTCCCAGAATGAATTAAAAACAGGTG
195 TAATGTGTCGACACTAATATAGTTTGTGTCGATATTTTTTTCCCAGAATGAATTAAAAACAGGTG
*
81359 CACCCATAAAGTGTCGATCCATATATAAAAAGTGTCGATCCCAAAATCATCGAACCCAAAAGTAT
260 CACCAATAAAGTGTCGATCCA-ATATAAAAAGTGTCGATCCCAAAATCATCGAACCCAAAAGTAT
81424 ATGTAATATGTAATTTTTCAATCTAACCGGTACAATTATACCGGTTTTGAGAGAATAAGTCTAAA
324 ATGTAATATGTAATTTTTCAATCTAACCGGTACAATTATACCGGTTTTGAGAGAATAAGTCTAAA
81489 TAATG
389 TAATG
81494 TGTCGACACTAATATAGTTTGTGTCGATA-TTTTTTCCAGAATGAATTAAAAACAAGGTGCACCC
1 TGTCGACACTAATATAGTTTGTGTCGATATTTTTTTCCAGAATGAATTAAAAACAAGGTGCACCC
81558 AT-AAGTGTCGATCCATATATAAAAAAGTGTCGATCCC-AAATCATCGAACCCAAAA-TAT-ATG
66 ATAAAGTGTCGATCCATATATAAAAAAGTGTCGATCCCAAAATCATCGAACCCAAAAGTATAATG
81619 TAATATGTAATTTTTCAATCTAACCGGTACAATTATACCGGTTTTATGAGAGAATAAGTCTAAAT
131 TAATATGTAATTTTTCAATCTAACCGGTACAATTATACCGGTTTTATGAGAGAATAAGTCTAAAT
* ***
81684 AATGTGTCGACACTAATATAGTTTGTGTCGATATTTTTTTTCCAGAATGAATT-TTTACAAGGTG
196 AATGTGTCGACACTAATATAGTTTGTGTCGATATTTTTTTCCCAGAATGAATTAAAAAC-AGGTG
*
81748 CATCAATAAAGTGTCGATCC-ATAT-AAAAGTGTCGATCCCAAAATCATCGAACCC-AAAGTATA
260 CACCAATAAAGTGTCGATCCAATATAAAAAGTGTCGATCCCAAAATCATCGAACCCAAAAGTAT-
81810 ATGTAATATGTAATTTTTCAATCT-ACCGGTACAATTATACCGGTTTT-ATGAGAAATAAGTCTA
324 ATGTAATATGTAATTTTTCAATCTAACCGGTACAATTATACCGGTTTTGA-GAG-AATAAGTCTA
81873 AATAATG
387 AATAATG
81880 TGTCGACACTAATATAGTTTGTGTCGATATTTTTTTCCCAGAATGAATTAAAAACAAGGTGCACC
1 TGTCGACACTAATATAGTTTGTGTCGATATTTTTTT-CCAGAATGAATTAAAAACAAGGTGCACC
81945 CATAAAGTGTCGATCCATATAT-AAAAAGTGTCGATCCCAAAATCATCGAACCCAAAAGTATAAT
65 CATAAAGTGTCGATCCATATATAAAAAAGTGTCGATCCCAAAATCATCGAACCCAAAAGTATAAT
82009 GTAATATGTAATTTTTCAATCTAACCGGTACAATTATACCGGTTTTATGAGAGAATAAGTCTAAA
130 GTAATATGTAATTTTTCAATCTAACCGGTACAATTATACCGGTTTTATGAGAGAATAAGTCTAAA
82074 TAATGTGTCGACACTAATATAGTTTGT
195 TAATGTGTCGACACTAATATAGTTTGT
82101 CGATCCATAT
Statistics
Matches: 580, Mismatches: 13, Indels: 28
0.93 0.02 0.05
Matches are distributed among these distances:
384 1 0.00
385 33 0.06
386 157 0.27
387 36 0.06
388 68 0.12
389 147 0.25
390 16 0.03
391 122 0.21
ACGTcount: A:0.37, C:0.15, G:0.15, T:0.33
Consensus pattern (393 bp):
TGTCGACACTAATATAGTTTGTGTCGATATTTTTTTCCAGAATGAATTAAAAACAAGGTGCACCC
ATAAAGTGTCGATCCATATATAAAAAAGTGTCGATCCCAAAATCATCGAACCCAAAAGTATAATG
TAATATGTAATTTTTCAATCTAACCGGTACAATTATACCGGTTTTATGAGAGAATAAGTCTAAAT
AATGTGTCGACACTAATATAGTTTGTGTCGATATTTTTTTCCCAGAATGAATTAAAAACAGGTGC
ACCAATAAAGTGTCGATCCAATATAAAAAGTGTCGATCCCAAAATCATCGAACCCAAAAGTATAT
GTAATATGTAATTTTTCAATCTAACCGGTACAATTATACCGGTTTTGAGAGAATAAGTCTAAATA
ATG
Found at i:83179 original size:22 final size:23
Alignment explanation
Indices: 83154--83204 Score: 68
Period size: 22 Copynumber: 2.3 Consensus size: 23
83144 ACATATGATG
83154 TAGGTAGCCCTTATATAA-GTAA
1 TAGGTAGCCCTTATATAATGTAA
* **
83176 TAGGTATCGTTTATATAATGTAA
1 TAGGTAGCCCTTATATAATGTAA
83199 TAGGTA
1 TAGGTA
83205 ATGGTTATAT
Statistics
Matches: 25, Mismatches: 3, Indels: 1
0.86 0.10 0.03
Matches are distributed among these distances:
22 15 0.60
23 10 0.40
ACGTcount: A:0.35, C:0.08, G:0.20, T:0.37
Consensus pattern (23 bp):
TAGGTAGCCCTTATATAATGTAA
Found at i:83212 original size:23 final size:22
Alignment explanation
Indices: 83164--83214 Score: 68
Period size: 23 Copynumber: 2.3 Consensus size: 22
83154 TAGGTAGCCC
*
83164 TTATATAAGTAATAGGTATCGT
1 TTATATAAGTAATAGGTATCGG
83186 TTATATAATGTAATAGGTAAT-GG
1 TTATATAA-GTAATAGGT-ATCGG
83209 TTATAT
1 TTATAT
83215 TGTAAAGTGT
Statistics
Matches: 26, Mismatches: 1, Indels: 3
0.87 0.03 0.10
Matches are distributed among these distances:
22 8 0.31
23 16 0.62
24 2 0.08
ACGTcount: A:0.37, C:0.02, G:0.18, T:0.43
Consensus pattern (22 bp):
TTATATAAGTAATAGGTATCGG
Found at i:83617 original size:21 final size:21
Alignment explanation
Indices: 83569--83641 Score: 78
Period size: 21 Copynumber: 3.5 Consensus size: 21
83559 ATAGGTAAAC
* **
83569 ATATGATGTAATAGGTAGCCCT
1 ATAT-ATGTAATAGGTATCGTT
83591 -TATATGTAATAGGTATCGTT
1 ATATATGTAATAGGTATCGTT
*
83611 ATATATGTAATAGGTAATGGTT
1 ATATATGTAATAGGT-ATCGTT
83633 ATAT-TGTAA
1 ATATATGTAA
83642 AGTGTCTATC
Statistics
Matches: 45, Mismatches: 4, Indels: 5
0.83 0.07 0.09
Matches are distributed among these distances:
20 14 0.31
21 22 0.49
22 9 0.20
ACGTcount: A:0.34, C:0.05, G:0.21, T:0.40
Consensus pattern (21 bp):
ATATATGTAATAGGTATCGTT
Found at i:84547 original size:14 final size:15
Alignment explanation
Indices: 84523--84551 Score: 51
Period size: 14 Copynumber: 2.0 Consensus size: 15
84513 CCGGTCTAAA
84523 TTTTAAACCGGTCAC
1 TTTTAAACCGGTCAC
84538 TTTT-AACCGGTCAC
1 TTTTAAACCGGTCAC
84552 GCCGTATATT
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
14 10 0.71
15 4 0.29
ACGTcount: A:0.24, C:0.28, G:0.14, T:0.34
Consensus pattern (15 bp):
TTTTAAACCGGTCAC
Found at i:88543 original size:16 final size:16
Alignment explanation
Indices: 88524--88556 Score: 66
Period size: 16 Copynumber: 2.1 Consensus size: 16
88514 CAAATTGTTA
88524 TTCGTACTAATTAAGC
1 TTCGTACTAATTAAGC
88540 TTCGTACTAATTAAGC
1 TTCGTACTAATTAAGC
88556 T
1 T
88557 AAGGATAAAT
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 17 1.00
ACGTcount: A:0.30, C:0.18, G:0.12, T:0.39
Consensus pattern (16 bp):
TTCGTACTAATTAAGC
Found at i:90103 original size:21 final size:20
Alignment explanation
Indices: 90057--90104 Score: 60
Period size: 21 Copynumber: 2.3 Consensus size: 20
90047 GCAAACAATT
* *
90057 TAATTCCAAAATCTAAATCT
1 TAATACCAAAATCTAAATCC
90077 TAAATACCAAAATGCTAAATCC
1 T-AATACCAAAAT-CTAAATCC
90099 TAATAC
1 TAATAC
90105 ACGATACTAA
Statistics
Matches: 24, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
20 1 0.04
21 15 0.62
22 8 0.33
ACGTcount: A:0.48, C:0.21, G:0.02, T:0.29
Consensus pattern (20 bp):
TAATACCAAAATCTAAATCC
Found at i:93071 original size:2 final size:2
Alignment explanation
Indices: 93064--93090 Score: 54
Period size: 2 Copynumber: 13.5 Consensus size: 2
93054 AATAATATCC
93064 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 A
93091 AACTTGATTC
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 25 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:96903 original size:6 final size:6
Alignment explanation
Indices: 96892--96918 Score: 54
Period size: 6 Copynumber: 4.5 Consensus size: 6
96882 TGCTGGATTT
96892 TCCATG TCCATG TCCATG TCCATG TCC
1 TCCATG TCCATG TCCATG TCCATG TCC
96919 TGCATTGCTC
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 21 1.00
ACGTcount: A:0.15, C:0.37, G:0.15, T:0.33
Consensus pattern (6 bp):
TCCATG
Found at i:105408 original size:2 final size:2
Alignment explanation
Indices: 105401--105444 Score: 56
Period size: 2 Copynumber: 23.0 Consensus size: 2
105391 ATAGCGTGAC
* *
105401 AT AT AT AT AT AT AT AT AT AT AT AT AT A- AA AT -T AT AT AT GT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
105441 AT AT
1 AT AT
105445 TTTAATTACA
Statistics
Matches: 37, Mismatches: 3, Indels: 4
0.84 0.07 0.09
Matches are distributed among these distances:
1 2 0.05
2 35 0.95
ACGTcount: A:0.50, C:0.00, G:0.02, T:0.48
Consensus pattern (2 bp):
AT
Found at i:107170 original size:55 final size:54
Alignment explanation
Indices: 107110--107592 Score: 333
Period size: 55 Copynumber: 9.0 Consensus size: 54
107100 CAGGATAAGC
* * ** * * *
107110 AAGACTTGAAAAATCTTCGAATGACGGGTCTGCTCCCTATCCCTTCAGGGAGTAT
1 AAGACTCGAACAATCTTC-AAAAACGGGTCTGCTCTCTATTCCTTCAGAGAGTAT
* * * *
107165 AAGACTC-AACCAATCTTCAGCAAACGTGTCTGCTCCCTATTCATTCA-AGGAGTAT
1 AAGACTCGAA-CAATCTTCA-AAAACGGGTCTGCTCTCTATTCCTTCAGA-GAGTAT
* *
107220 AAGACTCGAACAATCTTCATAAAACGAGT-TCGCTCTATATTCCTT-AGAGAGTAT
1 AAGACTCGAACAATCTTCA-AAAACGGGTCT-GCTCTCTATTCCTTCAGAGAGTAT
* *
107274 AAGACTCGAACAATCTTCAACAAACGTGTCTGCTCTCTATTCATTCAGAGAGTAT
1 AAGACTCGAACAATCTTCAA-AAACGGGTCTGCTCTCTATTCCTTCAGAGAGTAT
*
107329 AAGACTTGAACAATCTTCAATAAAACGGGT-TCGCTCTCTATTCCTTCAGAGAGTAT
1 AAGACTCGAACAATCTTC-A-AAAACGGGTCT-GCTCTCTATTCCTTCAGAGAGTAT
** * * * *
107385 -AGAACTCGGAA-AATCTTCAATAAACATGTCCGCTCCCTATTCTTTCAAAGAGTAT
1 AAG-ACTC-GAACAATCTTCAA-AAACGGGTCTGCTCTCTATTCCTTCAGAGAGTAT
* * * * * *
107440 AGGACT----CAATCTTTAACAAACGTGTCCGCTCCCTATTCATTCAGAGAGTAT
1 AAGACTCGAACAATCTTCAA-AAACGGGTCTGCTCTCTATTCCTTCAGAGAGTAT
* * * * *
107491 AGGACTCG----ATCTTCATAAAATGTGTCCGCT-TCCTATTCTTTCAGAGAGTAT
1 AAGACTCGAACAATCTTCA-AAAACGGGTCTGCTCT-CTATTCCTTCAGAGAGTAT
* * *
107542 -AGAACTCG----ATCTTCAACAAACGTGTCTGCTCCCTATTGCTTCAGAGAGTAT
1 AAG-ACTCGAACAATCTTCAA-AAACGGGTCTGCTCTCTATTCCTTCAGAGAGTAT
107593 GGAACTCAAA
Statistics
Matches: 359, Mismatches: 44, Indels: 54
0.79 0.10 0.12
Matches are distributed among these distances:
50 2 0.01
51 121 0.34
52 1 0.00
53 1 0.00
54 50 0.14
55 136 0.38
56 44 0.12
57 4 0.01
ACGTcount: A:0.31, C:0.24, G:0.16, T:0.30
Consensus pattern (54 bp):
AAGACTCGAACAATCTTCAAAAACGGGTCTGCTCTCTATTCCTTCAGAGAGTAT
Found at i:107280 original size:109 final size:111
Alignment explanation
Indices: 107151--107446 Score: 406
Period size: 109 Copynumber: 2.7 Consensus size: 111
107141 GCTCCCTATC
* *
107151 CCTTCAGGGAGTATAAGACTC-AACCAATCTTCAGCAAACGTGTCTGCTCCCTATTCATTCAAGG
1 CCTTCAGAGAGTATAAGACTCGAA-CAATCTTCAACAAACGTGTCTGCTCCCTATTCATTCAAGG
107215 AGTATAAGACTCGAACAATCTTC-ATAAAACGAGTTCGCTCTATATT
65 AGTATAAGACTCGAACAATCTTCAATAAAACGAGTTCGCTCTATATT
*
107261 CCTT-AGAGAGTATAAGACTCGAACAATCTTCAACAAACGTGTCTGCTCTCTATTCATTC-AGAG
1 CCTTCAGAGAGTATAAGACTCGAACAATCTTCAACAAACGTGTCTGCTCCCTATTCATTCAAG-G
* * *
107324 AGTATAAGACTTGAACAATCTTCAATAAAACGGGTTCGCTCTCTATT
65 AGTATAAGACTCGAACAATCTTCAATAAAACGAGTTCGCTCTATATT
* * * * *
107371 CCTTCAGAGAGTAT-AGAACTCGGAA-AATCTTCAATAAACATGTCCGCTCCCTATTCTTTCAAA
1 CCTTCAGAGAGTATAAG-ACTC-GAACAATCTTCAACAAACGTGTCTGCTCCCTATTCATTCAAG
*
107434 GAGTATAGGACTC
64 GAGTATAAGACTC
107447 AATCTTTAAC
Statistics
Matches: 165, Mismatches: 14, Indels: 13
0.86 0.07 0.07
Matches are distributed among these distances:
108 2 0.01
109 72 0.44
110 33 0.20
111 54 0.33
112 4 0.02
ACGTcount: A:0.32, C:0.23, G:0.16, T:0.29
Consensus pattern (111 bp):
CCTTCAGAGAGTATAAGACTCGAACAATCTTCAACAAACGTGTCTGCTCCCTATTCATTCAAGGA
GTATAAGACTCGAACAATCTTCAATAAAACGAGTTCGCTCTATATT
Found at i:107472 original size:51 final size:51
Alignment explanation
Indices: 107175--107601 Score: 344
Period size: 51 Copynumber: 8.1 Consensus size: 51
107165 AAGACTCAAC
* * *
107175 CAATCTTCAGCAAACGTGTCTGCTCCCTATTCATTCA-AGGAGTATAAGACT
1 CAATCTTCAACAAACGTGTCCGCTCCCTATTCATTCAGA-GAGTATAGGACT
* * ** * *
107226 CGAACAATCTTCATA-AAACGAGTTCGCTCTATATTCCTT-AGAGAGTATAAGACT
1 ----CAATCTTCA-ACAAACGTGTCCGCTCCCTATTCATTCAGAGAGTATAGGACT
* * *
107280 CGAACAATCTTCAACAAACGTGTCTGCTCTCTATTCATTCAGAGAGTATAAGACTT
1 ----CAATCTTCAACAAACGTGTCCGCTCCCTATTCATTCAGAGAGTATAGGAC-T
* * * * * *
107336 GAACAATCTTCAATAAAACGGGTTCGCTCTCTATTCCTTCAGAGAGTATAGAACT
1 ---CAATCTTCAA-CAAACGTGTCCGCTCCCTATTCATTCAGAGAGTATAGGACT
* * * *
107391 CGGAAAATCTTCAATAAACATGTCCGCTCCCTATTCTTTCAAAGAGTATAGGACT
1 C----AATCTTCAACAAACGTGTCCGCTCCCTATTCATTCAGAGAGTATAGGACT
*
107446 CAATCTTTAACAAACGTGTCCGCTCCCTATTCATTCAGAGAGTATAGGACT
1 CAATCTTCAACAAACGTGTCCGCTCCCTATTCATTCAGAGAGTATAGGACT
* * * * *
107497 CGATCTTCATA-AAATGTGTCCGCTTCCTATTCTTTCAGAGAGTATAGAACT
1 CAATCTTCA-ACAAACGTGTCCGCTCCCTATTCATTCAGAGAGTATAGGACT
* *
107548 CGATCTTCAACAAACGTGTCTGCTCCCTATTGC-TTCAGAGAGTAT-GGAACT
1 CAATCTTCAACAAACGTGTCCGCTCCCTATT-CATTCAGAGAGTATAGG-ACT
107599 CAA
1 CAA
107602 ACGTCTTCTT
Statistics
Matches: 315, Mismatches: 43, Indels: 32
0.81 0.11 0.08
Matches are distributed among these distances:
50 2 0.01
51 131 0.42
52 3 0.01
53 1 0.00
54 45 0.14
55 90 0.29
56 43 0.14
ACGTcount: A:0.31, C:0.23, G:0.16, T:0.30
Consensus pattern (51 bp):
CAATCTTCAACAAACGTGTCCGCTCCCTATTCATTCAGAGAGTATAGGACT
Found at i:107645 original size:54 final size:54
Alignment explanation
Indices: 107587--108150 Score: 966
Period size: 54 Copynumber: 10.4 Consensus size: 54
107577 TTGCTTCAGA
* * *
107587 GAGTATGGAACTCAAACGTCTTCTTCTTACAGGTTCGCTCCCTCTTTCTCTAGG
1 GAGTATGGAACTCGAACATCTTCTTCTTACGGGTTCGCTCCCTCTTTCTCTAGG
*
107641 GAGTATGGAACTCGAACATCTTCTTCTTACGGGTTCGTTCCCTCTTTCTCTAGG
1 GAGTATGGAACTCGAACATCTTCTTCTTACGGGTTCGCTCCCTCTTTCTCTAGG
*
107695 GAGTATGGAACTCGAACATCTTCTTCTTACGGGTTCGCTCCCTCTTTCTCTAAG
1 GAGTATGGAACTCGAACATCTTCTTCTTACGGGTTCGCTCCCTCTTTCTCTAGG
107749 GAGTATGGAACTCGAACATCTTCTTCTTACGGGTTCGCTCCCTCTTTCTCTAGG
1 GAGTATGGAACTCGAACATCTTCTTCTTACGGGTTCGCTCCCTCTTTCTCTAGG
* *
107803 GAGTGTGGAACTCGAACATCTTCTTCTTACTGGTTCGCTCCCTCTTTCTCTAGG
1 GAGTATGGAACTCGAACATCTTCTTCTTACGGGTTCGCTCCCTCTTTCTCTAGG
* * *
107857 GAGTATGGATCTCAAACATCTTCTTCTTACGGGTTCGCTCCCTCTTTCTTTAGG
1 GAGTATGGAACTCGAACATCTTCTTCTTACGGGTTCGCTCCCTCTTTCTCTAGG
* *
107911 GAGTATGGAACCCGAACATCTTCTTCTTACTGGTTCGCTCCCTCTTTCTCTAGG
1 GAGTATGGAACTCGAACATCTTCTTCTTACGGGTTCGCTCCCTCTTTCTCTAGG
* * *
107965 GAGTATGGAACTCGAACATATTCTGCTTATGGGTTCGCTCCCTCTTTCTCTAGG
1 GAGTATGGAACTCGAACATCTTCTTCTTACGGGTTCGCTCCCTCTTTCTCTAGG
108019 GAGTATGGAACTCGAACATCTTCTTCTTACGGGTTCGCTCCCTCTTTCTCTAGG
1 GAGTATGGAACTCGAACATCTTCTTCTTACGGGTTCGCTCCCTCTTTCTCTAGG
* * *
108073 GAATATGAAACTCGAACATCTTCTTCTTACGGGTTCACTCCCTCTTTCTCTAGG
1 GAGTATGGAACTCGAACATCTTCTTCTTACGGGTTCGCTCCCTCTTTCTCTAGG
108127 GAGTATGGAACTCGAACATCTTCT
1 GAGTATGGAACTCGAACATCTTCT
108151 GTTTTACCAC
Statistics
Matches: 478, Mismatches: 32, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
54 478 1.00
ACGTcount: A:0.18, C:0.27, G:0.19, T:0.36
Consensus pattern (54 bp):
GAGTATGGAACTCGAACATCTTCTTCTTACGGGTTCGCTCCCTCTTTCTCTAGG
Found at i:112853 original size:72 final size:72
Alignment explanation
Indices: 112736--112886 Score: 266
Period size: 72 Copynumber: 2.1 Consensus size: 72
112726 CCCCTAACAG
112736 GTTCTTGATCAGTTGCTATCATCACATTGGCTGCACCACTAACATTCAGATTCTCACCCGAAGTC
1 GTTCTTGATCAGTTGCTATCATCACATTGGCTGCACCACTAACATTCAGATTCTCACCCGAAGTC
*
112801 TTCATCT
66 TTCATAT
* *
112808 GTTCTTGATCATTTGCTATCATCACATTGGTTGCACCACTAACATTCAGATTCTCACCCGAAGTC
1 GTTCTTGATCAGTTGCTATCATCACATTGGCTGCACCACTAACATTCAGATTCTCACCCGAAGTC
112873 TTCATAT
66 TTCATAT
*
112880 TTTCTTG
1 GTTCTTG
112887 TGTAATAGGG
Statistics
Matches: 75, Mismatches: 4, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
72 75 1.00
ACGTcount: A:0.23, C:0.27, G:0.13, T:0.36
Consensus pattern (72 bp):
GTTCTTGATCAGTTGCTATCATCACATTGGCTGCACCACTAACATTCAGATTCTCACCCGAAGTC
TTCATAT
Found at i:117852 original size:27 final size:27
Alignment explanation
Indices: 117770--117872 Score: 79
Period size: 27 Copynumber: 3.7 Consensus size: 27
117760 GCATTTGATG
*
117770 ATATTAATATTTTAAATAATTAA-TATT
1 ATATTAATA-TTTATATAATTAATTATT
*
117797 ATATTAATAATTTGATTGATACATAAATTATT
1 ATATTAAT-ATTT-A-T-ATA-ATTAATTATT
117829 A-AGTTAATATTTATATAATTAATTATT
1 ATA-TTAATATTTATATAATTAATTATT
* *
117856 -T-TTAAAATTTAAATAAT
1 ATATTAATATTTATATAAT
117873 AAGATAATAA
Statistics
Matches: 63, Mismatches: 5, Indels: 18
0.73 0.06 0.21
Matches are distributed among these distances:
25 14 0.22
27 20 0.32
28 5 0.08
29 1 0.02
30 4 0.06
31 9 0.14
32 10 0.16
ACGTcount: A:0.47, C:0.01, G:0.03, T:0.50
Consensus pattern (27 bp):
ATATTAATATTTATATAATTAATTATT
Found at i:126397 original size:2 final size:2
Alignment explanation
Indices: 126390--126414 Score: 50
Period size: 2 Copynumber: 12.5 Consensus size: 2
126380 GAGGGACCAA
126390 TC TC TC TC TC TC TC TC TC TC TC TC T
1 TC TC TC TC TC TC TC TC TC TC TC TC T
126415 ATATCTATAT
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 23 1.00
ACGTcount: A:0.00, C:0.48, G:0.00, T:0.52
Consensus pattern (2 bp):
TC
Found at i:126425 original size:2 final size:2
Alignment explanation
Indices: 126414--126443 Score: 51
Period size: 2 Copynumber: 15.0 Consensus size: 2
126404 TCTCTCTCTC
*
126414 TA TA TC 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
126444 CACGTATGTA
Statistics
Matches: 26, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
2 26 1.00
ACGTcount: A:0.47, C:0.03, G:0.00, T:0.50
Consensus pattern (2 bp):
TA
Found at i:132877 original size:20 final size:20
Alignment explanation
Indices: 132854--132898 Score: 54
Period size: 20 Copynumber: 2.2 Consensus size: 20
132844 ATATAAATTT
* *
132854 AAAAATTTTATTTAAAATAA
1 AAAAATTTAAATTAAAATAA
* *
132874 AAAACTTTAAATTATAATAA
1 AAAAATTTAAATTAAAATAA
132894 AAAAA
1 AAAAA
132899 CTCAAAATTT
Statistics
Matches: 20, Mismatches: 5, Indels: 0
0.80 0.20 0.00
Matches are distributed among these distances:
20 20 1.00
ACGTcount: A:0.64, C:0.02, G:0.00, T:0.33
Consensus pattern (20 bp):
AAAAATTTAAATTAAAATAA
Found at i:133555 original size:2 final size:2
Alignment explanation
Indices: 133548--133584 Score: 74
Period size: 2 Copynumber: 18.5 Consensus size: 2
133538 TCTTTGGGCA
133548 TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC T
1 TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC T
133585 GCTTTCTTTC
Statistics
Matches: 35, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 35 1.00
ACGTcount: A:0.00, C:0.49, G:0.00, T:0.51
Consensus pattern (2 bp):
TC
Found at i:139674 original size:30 final size:30
Alignment explanation
Indices: 139638--139696 Score: 84
Period size: 30 Copynumber: 2.0 Consensus size: 30
139628 ACGGTTCAAA
*
139638 CCGGTTTTGCC-AGTTTTCAGCCGATTCATC
1 CCGGTTTTACCGA-TTTTCAGCCGATTCATC
*
139668 CCGGTTTTACCGATTTTCAGCTGATTCAT
1 CCGGTTTTACCGATTTTCAGCCGATTCAT
139697 TACCAGTCCG
Statistics
Matches: 26, Mismatches: 2, Indels: 2
0.87 0.07 0.07
Matches are distributed among these distances:
30 25 0.96
31 1 0.04
ACGTcount: A:0.15, C:0.27, G:0.19, T:0.39
Consensus pattern (30 bp):
CCGGTTTTACCGATTTTCAGCCGATTCATC
Found at i:147010 original size:36 final size:36
Alignment explanation
Indices: 146963--147035 Score: 137
Period size: 36 Copynumber: 2.0 Consensus size: 36
146953 AGTTCTGGAA
146963 TTAAGTGATAAAAGAATCAGCCATGGATATATAGAT
1 TTAAGTGATAAAAGAATCAGCCATGGATATATAGAT
*
146999 TTAAGTGATAAAAGAATCAGCCATGGATATGTAGAT
1 TTAAGTGATAAAAGAATCAGCCATGGATATATAGAT
147035 T
1 T
147036 ATAATTTATC
Statistics
Matches: 36, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
36 36 1.00
ACGTcount: A:0.42, C:0.08, G:0.21, T:0.29
Consensus pattern (36 bp):
TTAAGTGATAAAAGAATCAGCCATGGATATATAGAT
Found at i:148893 original size:12 final size:12
Alignment explanation
Indices: 148832--148894 Score: 60
Period size: 12 Copynumber: 5.2 Consensus size: 12
148822 ATATGATACT
148832 TGACATGGATTC
1 TGACATGGATTC
* *
148844 TGATAT-GATAC
1 TGACATGGATTC
148855 TTGACATGGATTC
1 -TGACATGGATTC
148868 TGATC-T-GATATC
1 TGA-CATGGAT-TC
148880 TGACATGGATTC
1 TGACATGGATTC
148892 TGA
1 TGA
148895 TCTGATACTT
Statistics
Matches: 41, Mismatches: 4, Indels: 12
0.72 0.07 0.21
Matches are distributed among these distances:
11 8 0.20
12 25 0.61
13 8 0.20
ACGTcount: A:0.27, C:0.14, G:0.22, T:0.37
Consensus pattern (12 bp):
TGACATGGATTC
Found at i:148958 original size:24 final size:24
Alignment explanation
Indices: 148816--148955 Score: 219
Period size: 24 Copynumber: 5.8 Consensus size: 24
148806 TTCGATTTGA
148816 ATTCTGATATGATACTTGACATGG
1 ATTCTGATATGATACTTGACATGG
148840 ATTCTGATATGATACTTGACATGG
1 ATTCTGATATGATACTTGACATGG
*
148864 ATTCTGATCTGATA-TCTGACATGG
1 ATTCTGATATGATACT-TGACATGG
* *
148888 ATTCTGATCTGATACTTGACTTGG
1 ATTCTGATATGATACTTGACATGG
*
148912 ATTCTGATATGATACTTGACCTGG
1 ATTCTGATATGATACTTGACATGG
*
148936 ATTTTGATATGATACTTGAC
1 ATTCTGATATGATACTTGAC
148956 CTGATTTATG
Statistics
Matches: 109, Mismatches: 5, Indels: 4
0.92 0.04 0.03
Matches are distributed among these distances:
23 1 0.01
24 107 0.98
25 1 0.01
ACGTcount: A:0.26, C:0.14, G:0.20, T:0.39
Consensus pattern (24 bp):
ATTCTGATATGATACTTGACATGG
Found at i:149089 original size:35 final size:35
Alignment explanation
Indices: 149041--149139 Score: 164
Period size: 35 Copynumber: 2.9 Consensus size: 35
149031 TATACATGAA
* *
149041 GGCTCATCAGCTGTGTGCTCAGGGCCTTACGTACC
1 GGCTCCTCGGCTGTGTGCTCAGGGCCTTACGTACC
*
149076 GGCTCCTCGGCTGTGTGCTCAGGGCCTTACTTACC
1 GGCTCCTCGGCTGTGTGCTCAGGGCCTTACGTACC
149111 GGCTCCTCGGCTGTGTGCTCAGGG-CTTAC
1 GGCTCCTCGGCTGTGTGCTCAGGGCCTTAC
149140 TGGACTTGAC
Statistics
Matches: 61, Mismatches: 3, Indels: 1
0.94 0.05 0.02
Matches are distributed among these distances:
34 5 0.08
35 56 0.92
ACGTcount: A:0.10, C:0.32, G:0.30, T:0.27
Consensus pattern (35 bp):
GGCTCCTCGGCTGTGTGCTCAGGGCCTTACGTACC
Found at i:149210 original size:2 final size:2
Alignment explanation
Indices: 149203--149261 Score: 118
Period size: 2 Copynumber: 29.5 Consensus size: 2
149193 CGGATGGGGG
149203 TA TA 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 TA TA
149245 TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA T
149262 GTTTTAAAAA
Statistics
Matches: 57, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 57 1.00
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (2 bp):
TA
Found at i:150430 original size:20 final size:21
Alignment explanation
Indices: 150400--150441 Score: 61
Period size: 20 Copynumber: 2.0 Consensus size: 21
150390 ACTGTAAGTA
150400 TTTATTATTGTCAT-TTTATTT
1 TTTATTATTGT-ATCTTTATTT
150421 TTTA-TATTGTATCTTTATTT
1 TTTATTATTGTATCTTTATTT
150441 T
1 T
150442 CTTTTCAATA
Statistics
Matches: 20, Mismatches: 0, Indels: 3
0.87 0.00 0.13
Matches are distributed among these distances:
19 2 0.10
20 14 0.70
21 4 0.20
ACGTcount: A:0.19, C:0.05, G:0.05, T:0.71
Consensus pattern (21 bp):
TTTATTATTGTATCTTTATTT
Found at i:150488 original size:23 final size:23
Alignment explanation
Indices: 150456--150508 Score: 88
Period size: 23 Copynumber: 2.3 Consensus size: 23
150446 TCAATAAGTC
*
150456 TGTCTGTATAACACGTTTTTATA
1 TGTCTTTATAACACGTTTTTATA
*
150479 TGTCTTTATAACACGTTTTTTTA
1 TGTCTTTATAACACGTTTTTATA
150502 TGTCTTT
1 TGTCTTT
150509 TGGTATGTTT
Statistics
Matches: 28, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
23 28 1.00
ACGTcount: A:0.21, C:0.13, G:0.11, T:0.55
Consensus pattern (23 bp):
TGTCTTTATAACACGTTTTTATA
Found at i:151229 original size:41 final size:41
Alignment explanation
Indices: 151157--151516 Score: 321
Period size: 41 Copynumber: 8.7 Consensus size: 41
151147 TTAGCGGCGC
* * * *
151157 TTTTATACAAAACGCCACGACAGAGTAGTACTTTAGTGACGT
1 TTTTATAC-AAACGCCGCGATAGACTCGTACTTTAGTGACGT
* * *
151199 TTTTATACAAACGCCGCTATAGACTCGTACTTTAGTGGCCT
1 TTTTATACAAACGCCGCGATAGACTCGTACTTTAGTGACGT
* * * * * **
151240 TTTTATAAAAAACGCCACGATAGAGTAGTACTTTAGCGGTGT
1 TTTTAT-ACAAACGCCGCGATAGACTCGTACTTTAGTGACGT
* * *
151282 TTTTATACAAACGCCGCTATAAACTCGTACTTTAGTGGCGT
1 TTTTATACAAACGCCGCGATAGACTCGTACTTTAGTGACGT
* * * * *
151323 TTTTATAAAAATGCCGCAATAGACTTGTACTTTAGTGGCGT
1 TTTTATACAAACGCCGCGATAGACTCGTACTTTAGTGACGT
* * * *
151364 TTTTATACAAACGCTGCTATAGGCTTGTACTTTAGT-AGCGT
1 TTTTATACAAACGCCGCGATAGACTCGTACTTTAGTGA-CGT
* * * **
151405 TTTTGTACAAACGTCACGATAGACTCGTACAGTAGT-AGCGT
1 TTTTATACAAACGCCGCGATAGACTCGTACTTTAGTGA-CGT
* * **
151446 TTTTATACAAACGCCGCTATAGGCTTATACTTTAGT-AGCGT
1 TTTTATACAAACGCCGCGATAGACTCGTACTTTAGTGA-CGT
* *
151487 TTTTGTACAAACGTCGCGATAGACTCGTAC
1 TTTTATACAAACGCCGCGATAGACTCGTAC
151517 AGTATTCATT
Statistics
Matches: 258, Mismatches: 58, Indels: 5
0.80 0.18 0.02
Matches are distributed among these distances:
41 217 0.84
42 41 0.16
ACGTcount: A:0.28, C:0.19, G:0.19, T:0.33
Consensus pattern (41 bp):
TTTTATACAAACGCCGCGATAGACTCGTACTTTAGTGACGT
Found at i:151384 original size:82 final size:82
Alignment explanation
Indices: 151157--151516 Score: 414
Period size: 82 Copynumber: 4.4 Consensus size: 82
151147 TTAGCGGCGC
* * *
151157 TTTTATACAAAACGCCACGACAGAGTAGTACTTTAGTGACGTTTTTATACAAACGCCGCTATAGA
1 TTTTATA-AAAACGCCACGATAGACTAGTACTTTAGTGGCGTTTTTATACAAACGCCGCTATAGA
* *
151222 CTCGTACTTTAGTGGCCT
65 CTCGTACTTTAGTAGCGT
* * * *
151240 TTTTATAAAAAACGCCACGATAGAGTAGTACTTTAGCGGTGTTTTTATACAAACGCCGCTATAAA
1 TTTTAT-AAAAACGCCACGATAGACTAGTACTTTAGTGGCGTTTTTATACAAACGCCGCTATAGA
*
151305 CTCGTACTTTAGTGGCGT
65 CTCGTACTTTAGTAGCGT
* * * * * *
151323 TTTTATAAAAATGCCGCAATAGACTTGTACTTTAGTGGCGTTTTTATACAAACGCTGCTATAGGC
1 TTTTATAAAAACGCCACGATAGACTAGTACTTTAGTGGCGTTTTTATACAAACGCCGCTATAGAC
*
151388 TTGTACTTTAGTAGCGT
66 TCGTACTTTAGTAGCGT
* * * * ** * *
151405 TTTTGTACAAACGTCACGATAGACTCGTACAGTAGTAGCGTTTTTATACAAACGCCGCTATAGGC
1 TTTTATAAAAACGCCACGATAGACTAGTACTTTAGTGGCGTTTTTATACAAACGCCGCTATAGAC
**
151470 TTATACTTTAGTAGCGT
66 TCGTACTTTAGTAGCGT
* * * * *
151487 TTTTGTACAAACGTCGCGATAGACTCGTAC
1 TTTTATAAAAACGCCACGATAGACTAGTAC
151517 AGTATTCATT
Statistics
Matches: 245, Mismatches: 31, Indels: 3
0.88 0.11 0.01
Matches are distributed among these distances:
82 163 0.67
83 81 0.33
84 1 0.00
ACGTcount: A:0.28, C:0.19, G:0.19, T:0.33
Consensus pattern (82 bp):
TTTTATAAAAACGCCACGATAGACTAGTACTTTAGTGGCGTTTTTATACAAACGCCGCTATAGAC
TCGTACTTTAGTAGCGT
Found at i:151447 original size:123 final size:123
Alignment explanation
Indices: 151144--151509 Score: 367
Period size: 123 Copynumber: 3.0 Consensus size: 123
151134 ACAAATGGTA
* * * * * * **
151144 ACTTTAGCGGCGCTTTTATACAAAACGCCACGACAGAGTAGTACTTTAGT-GACGTTTTTATACA
1 ACTTTAGCAGCGTTTTTATAC-AAACGCCACGATAAACTCGTACAGTAGTAG-CGTTTTTATACA
* * *
151208 AACGCCGCTATAGACTCGTACTTTAGTGGCCTTTTTATAAAAAACGCCACGATAGAGTAGT
64 AACGCCGCTATAGACTTGTACTTTAGTGGCGTTTTTAT-ACAAACGCCACGATAGAGTAGT
* * * * ** * *
151269 ACTTTAGCGGTGTTTTTATACAAACGCCGCTATAAACTCGTACTTTAGTGGCGTTTTTATAAAAA
1 ACTTTAGCAGCGTTTTTATACAAACGCCACGATAAACTCGTACAGTAGTAGCGTTTTTATACAAA
* * ** * *
151334 TGCCGCAATAGACTTGTACTTTAGTGGCGTTTTTATACAAACGCTGCTATAG-GCTTGT
66 CGCCGCTATAGACTTGTACTTTAGTGGCGTTTTTATACAAACGCCACGATAGAG-TAGT
* * * *
151392 ACTTTAGTAGCGTTTTTGTACAAACGTCACGATAGACTCGTACAGTAGTAGCGTTTTTATACAAA
1 ACTTTAGCAGCGTTTTTATACAAACGCCACGATAAACTCGTACAGTAGTAGCGTTTTTATACAAA
* * * * * *
151457 CGCCGCTATAGGCTTATACTTTAGTAGCGTTTTTGTACAAACGTCGCGATAGA
66 CGCCGCTATAGACTTGTACTTTAGTGGCGTTTTTATACAAACGCCACGATAGA
151510 CTCGTACAGT
Statistics
Matches: 199, Mismatches: 39, Indels: 7
0.81 0.16 0.03
Matches are distributed among these distances:
122 1 0.01
123 111 0.56
124 67 0.34
125 20 0.10
ACGTcount: A:0.28, C:0.19, G:0.20, T:0.33
Consensus pattern (123 bp):
ACTTTAGCAGCGTTTTTATACAAACGCCACGATAAACTCGTACAGTAGTAGCGTTTTTATACAAA
CGCCGCTATAGACTTGTACTTTAGTGGCGTTTTTATACAAACGCCACGATAGAGTAGT
Found at i:152092 original size:43 final size:43
Alignment explanation
Indices: 152072--152254 Score: 285
Period size: 43 Copynumber: 4.3 Consensus size: 43
152062 ACCAGATCTT
* * *
152072 TTGCGGTGTTTGTGGGAAAAACGCCGCTAAATCTCAAGACATA
1 TTGCGGCGTTTGTGGGAAAAACGCCGCTAAATCTCAACACCTA
* *
152115 TTGCGGTGTTTGTGGGAAAAACGCTGCTAAATCTCAACACCTA
1 TTGCGGCGTTTGTGGGAAAAACGCCGCTAAATCTCAACACCTA
*
152158 TTGCGGCGTTTGTGGGAAAAACTCCGCTAAATCTCAACACCTA
1 TTGCGGCGTTTGTGGGAAAAACGCCGCTAAATCTCAACACCTA
* *
152201 TTGCGGCGTTTGTTGGAAAAACGCCGCTAAATATCAACACCTA
1 TTGCGGCGTTTGTGGGAAAAACGCCGCTAAATCTCAACACCTA
*
152244 TTACGGCGTTT
1 TTGCGGCGTTT
152255 TTTGTTACCA
Statistics
Matches: 130, Mismatches: 10, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
43 130 1.00
ACGTcount: A:0.28, C:0.22, G:0.23, T:0.27
Consensus pattern (43 bp):
TTGCGGCGTTTGTGGGAAAAACGCCGCTAAATCTCAACACCTA
Found at i:152126 original size:86 final size:86
Alignment explanation
Indices: 152029--152254 Score: 285
Period size: 86 Copynumber: 2.6 Consensus size: 86
152019 ATATGACCTT
** * * * * *
152029 TTGCGGCGTTTGTTCTAAAAAACGCCGCTATATAC-C-AGATCTTTTGCGGTGTTTGTGGGAAAA
1 TTGCGGCGTTTGTT-GGAAAAACGCCGCTAAAT-CTCAACACCTATTGCGGCGTTTGTGGGAAAA
*
152092 ACGCCGCTAAATCTCAAGACATA
64 ACGCCGCTAAATCTCAACACATA
* * *
152115 TTGCGGTGTTTGTGGGAAAAACGCTGCTAAATCTCAACACCTATTGCGGCGTTTGTGGGAAAAAC
1 TTGCGGCGTTTGTTGGAAAAACGCCGCTAAATCTCAACACCTATTGCGGCGTTTGTGGGAAAAAC
* *
152180 TCCGCTAAATCTCAACACCTA
66 GCCGCTAAATCTCAACACATA
* *
152201 TTGCGGCGTTTGTTGGAAAAACGCCGCTAAATATCAACACCTATTACGGCGTTT
1 TTGCGGCGTTTGTTGGAAAAACGCCGCTAAATCTCAACACCTATTGCGGCGTTT
152255 TTTGTTACCA
Statistics
Matches: 120, Mismatches: 18, Indels: 4
0.85 0.13 0.03
Matches are distributed among these distances:
84 1 0.01
85 15 0.12
86 104 0.87
ACGTcount: A:0.27, C:0.22, G:0.22, T:0.28
Consensus pattern (86 bp):
TTGCGGCGTTTGTTGGAAAAACGCCGCTAAATCTCAACACCTATTGCGGCGTTTGTGGGAAAAAC
GCCGCTAAATCTCAACACATA
Found at i:152802 original size:29 final size:29
Alignment explanation
Indices: 152751--152838 Score: 104
Period size: 29 Copynumber: 3.0 Consensus size: 29
152741 CTTCCCAGCA
* *
152751 TAGGTCGCCATGCCCTCCGGGCGACCTTG
1 TAGGTCGCCATGCACGCCGGGCGACCTTG
* * *
152780 TAGGTCGCCATGCACGCCAGGCGACATGG
1 TAGGTCGCCATGCACGCCGGGCGACCTTG
* **
152809 TAGGTTGCCATGCACGTTGGGCGACCTTG
1 TAGGTCGCCATGCACGCCGGGCGACCTTG
152838 T
1 T
152839 CCTTGGCCTT
Statistics
Matches: 48, Mismatches: 11, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
29 48 1.00
ACGTcount: A:0.15, C:0.31, G:0.33, T:0.22
Consensus pattern (29 bp):
TAGGTCGCCATGCACGCCGGGCGACCTTG
Found at i:152915 original size:22 final size:22
Alignment explanation
Indices: 152882--152935 Score: 92
Period size: 22 Copynumber: 2.5 Consensus size: 22
152872 CTCCCCATTG
152882 CATGCA-GGCGACCTCTTCCGA
1 CATGCATGGCGACCTCTTCCGA
*
152903 CGTGCATGGCGACCTCTTCCGA
1 CATGCATGGCGACCTCTTCCGA
152925 CATGCATGGCG
1 CATGCATGGCG
152936 CATGCAAAGC
Statistics
Matches: 30, Mismatches: 2, Indels: 1
0.91 0.06 0.03
Matches are distributed among these distances:
21 5 0.17
22 25 0.83
ACGTcount: A:0.17, C:0.35, G:0.28, T:0.20
Consensus pattern (22 bp):
CATGCATGGCGACCTCTTCCGA
Found at i:152974 original size:31 final size:31
Alignment explanation
Indices: 152939--153000 Score: 106
Period size: 31 Copynumber: 2.0 Consensus size: 31
152929 CATGGCGCAT
152939 GCAAAGCTTCATCCTCTCACCACAGCACGTA
1 GCAAAGCTTCATCCTCTCACCACAGCACGTA
* *
152970 GCAAAGCTTCATCCTCTCGCCACAGCTCGTA
1 GCAAAGCTTCATCCTCTCACCACAGCACGTA
153001 TAGAACACTT
Statistics
Matches: 29, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
31 29 1.00
ACGTcount: A:0.26, C:0.39, G:0.15, T:0.21
Consensus pattern (31 bp):
GCAAAGCTTCATCCTCTCACCACAGCACGTA
Found at i:155705 original size:39 final size:39
Alignment explanation
Indices: 155592--155818 Score: 181
Period size: 39 Copynumber: 5.8 Consensus size: 39
155582 TATTATTACA
* * * **
155592 TAAATCCGAGATTCGAATATACGTTGGACATACGTTACA
1 TAAATCTGAGATTCGAATATACGTCGGACATACGTCATG
*
155631 TAAATCCGAGATTCGAATATACGTCGGACATACGTCATG
1 TAAATCTGAGATTCGAATATACGTCGGACATACGTCATG
* * *
155670 TAAATATGAGATTCGAATATATGTCGGACGTACGTCATG
1 TAAATCTGAGATTCGAATATACGTCGGACATACGTCATG
* * * * *
155709 TAGATCTGACATTCGAATATATGTC-GACATTCGCCA-G
1 TAAATCTGAGATTCGAATATACGTCGGACATACGTCATG
* ** * * * * *
155746 ATAAATTTGAGATTTAAATGTATGTCGGATATACATTA-G
1 -TAAATCTGAGATTCGAATATACGTCGGACATACGTCATG
* * * *
155785 ACAAATTTGAGATTCGAATATGCGTCGGATATAC
1 -TAAATCTGAGATTCGAATATACGTCGGACATAC
155819 ATTAAAGATA
Statistics
Matches: 155, Mismatches: 31, Indels: 4
0.82 0.16 0.02
Matches are distributed among these distances:
37 1 0.01
38 27 0.17
39 127 0.82
ACGTcount: A:0.34, C:0.15, G:0.20, T:0.30
Consensus pattern (39 bp):
TAAATCTGAGATTCGAATATACGTCGGACATACGTCATG
Found at i:156542 original size:40 final size:40
Alignment explanation
Indices: 156487--156566 Score: 160
Period size: 40 Copynumber: 2.0 Consensus size: 40
156477 TGCCTTGTTT
156487 AAGAACTCCATTGAGTAACTTTCTTAGTATGAACAGGGCC
1 AAGAACTCCATTGAGTAACTTTCTTAGTATGAACAGGGCC
156527 AAGAACTCCATTGAGTAACTTTCTTAGTATGAACAGGGCC
1 AAGAACTCCATTGAGTAACTTTCTTAGTATGAACAGGGCC
156567 GTGGCAGGAT
Statistics
Matches: 40, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
40 40 1.00
ACGTcount: A:0.33, C:0.20, G:0.20, T:0.28
Consensus pattern (40 bp):
AAGAACTCCATTGAGTAACTTTCTTAGTATGAACAGGGCC
Found at i:157934 original size:21 final size:20
Alignment explanation
Indices: 157900--157944 Score: 54
Period size: 21 Copynumber: 2.2 Consensus size: 20
157890 ATTTACTATT
*
157900 GTTTAGGATTATAAGTTAGG
1 GTTTAGGATTATAAGTTAGA
* *
157920 GTTTAGGGTTTATAATTTAGA
1 GTTTA-GGATTATAAGTTAGA
157941 GTTT
1 GTTT
157945 TAATTAGGGT
Statistics
Matches: 21, Mismatches: 3, Indels: 1
0.84 0.12 0.04
Matches are distributed among these distances:
20 5 0.24
21 16 0.76
ACGTcount: A:0.27, C:0.00, G:0.27, T:0.47
Consensus pattern (20 bp):
GTTTAGGATTATAAGTTAGA
Found at i:159294 original size:21 final size:21
Alignment explanation
Indices: 159251--159294 Score: 54
Period size: 21 Copynumber: 2.1 Consensus size: 21
159241 AGAAATAATG
*
159251 ATGTAAAATTTATTTAGAGAA
1 ATGTAAAATTTATTTAGAAAA
*
159272 ATGTAAATTTTATTGT-GAAAA
1 ATGTAAAATTTATT-TAGAAAA
159293 AT
1 AT
159295 AAAATTATTA
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
21 19 0.95
22 1 0.05
ACGTcount: A:0.45, C:0.00, G:0.14, T:0.41
Consensus pattern (21 bp):
ATGTAAAATTTATTTAGAAAA
Found at i:168113 original size:8 final size:8
Alignment explanation
Indices: 168102--168127 Score: 52
Period size: 8 Copynumber: 3.2 Consensus size: 8
168092 TATATATTGT
168102 TATTTAAA
1 TATTTAAA
168110 TATTTAAA
1 TATTTAAA
168118 TATTTAAA
1 TATTTAAA
168126 TA
1 TA
168128 ATCAAAAGTA
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
8 18 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (8 bp):
TATTTAAA
Found at i:168120 original size:26 final size:27
Alignment explanation
Indices: 168052--168120 Score: 70
Period size: 26 Copynumber: 2.6 Consensus size: 27
168042 TTTTCAAAAA
*
168052 CAAATATCTAAAATATCATATTTTAGTT
1 CAAATAT-TTAAATATCATATTTTAGTT
* *
168080 CAAATATATATATAT-ATATTGTTA-TT
1 CAAATATTTAAATATCATATT-TTAGTT
*
168106 TAAATATTTAAATAT
1 CAAATATTTAAATAT
168121 TTAAATAATC
Statistics
Matches: 34, Mismatches: 6, Indels: 4
0.77 0.14 0.09
Matches are distributed among these distances:
26 19 0.56
27 8 0.24
28 7 0.21
ACGTcount: A:0.45, C:0.06, G:0.03, T:0.46
Consensus pattern (27 bp):
CAAATATTTAAATATCATATTTTAGTT
Found at i:172408 original size:36 final size:36
Alignment explanation
Indices: 172366--172441 Score: 143
Period size: 36 Copynumber: 2.1 Consensus size: 36
172356 TTATAGCTAA
*
172366 AAAAATCGTCTTTATTCGAATTTTGCCAAAAATAGC
1 AAAAATCGTATTTATTCGAATTTTGCCAAAAATAGC
172402 AAAAATCGTATTTATTCGAATTTTGCCAAAAATAGC
1 AAAAATCGTATTTATTCGAATTTTGCCAAAAATAGC
172438 AAAA
1 AAAA
172442 TCCCGAAAAT
Statistics
Matches: 39, Mismatches: 1, Indels: 0
0.98 0.03 0.00
Matches are distributed among these distances:
36 39 1.00
ACGTcount: A:0.43, C:0.14, G:0.11, T:0.32
Consensus pattern (36 bp):
AAAAATCGTATTTATTCGAATTTTGCCAAAAATAGC
Found at i:176937 original size:15 final size:15
Alignment explanation
Indices: 176919--176948 Score: 60
Period size: 15 Copynumber: 2.0 Consensus size: 15
176909 CCACGGTGCT
176919 CCCGGAATCCTGCGC
1 CCCGGAATCCTGCGC
176934 CCCGGAATCCTGCGC
1 CCCGGAATCCTGCGC
176949 GATTGTGATA
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 15 1.00
ACGTcount: A:0.13, C:0.47, G:0.27, T:0.13
Consensus pattern (15 bp):
CCCGGAATCCTGCGC
Found at i:177409 original size:36 final size:36
Alignment explanation
Indices: 177367--177442 Score: 143
Period size: 36 Copynumber: 2.1 Consensus size: 36
177357 TTATAGCTAA
*
177367 AAAAATCGTCTTTATTCGAATTTTGCCAAAAATAGC
1 AAAAATCGTATTTATTCGAATTTTGCCAAAAATAGC
177403 AAAAATCGTATTTATTCGAATTTTGCCAAAAATAGC
1 AAAAATCGTATTTATTCGAATTTTGCCAAAAATAGC
177439 AAAA
1 AAAA
177443 TCCCGAAAAT
Statistics
Matches: 39, Mismatches: 1, Indels: 0
0.98 0.03 0.00
Matches are distributed among these distances:
36 39 1.00
ACGTcount: A:0.43, C:0.14, G:0.11, T:0.32
Consensus pattern (36 bp):
AAAAATCGTATTTATTCGAATTTTGCCAAAAATAGC
Found at i:185128 original size:164 final size:164
Alignment explanation
Indices: 184849--185180 Score: 497
Period size: 164 Copynumber: 2.0 Consensus size: 164
184839 CCTGAAGGTG
* ** * *
184849 AAAATATTTGTGAGCATGGAGAAAAGAAATAGAAAATTTGCATAAAAAAGAGATCCATCTATCAG
1 AAAATATTTGTGAGCATGGAGAAAAGAAAAAGAAAAAATCCATAAAAAAGAGATCCATATATCAG
* * * * * *
184914 AAAATTCCATTTCATTCAAGTGATCGATGGGCTAAGACAGTTAGCCACAACCTCTACAACATTAA
66 AAAATTCCAGTTCATTCAAGAGATCAATGGGCTAAGACAGTCAACCACAACCTCTACAACACTAA
*
184979 AAAGAAGCCAGATATTTATCAAGGTAAGGTGAAC
131 AAAGAAGCCAGATATTTATCAAGATAAGGTGAAC
* **
185013 AAAATATTTGT-ATGTATGGAGAAAAGAAAAAGAAAAAAATCCATAAAAAAGAGATCTGTATATC
1 AAAATATTTGTGA-GCATGGAGAAAAGAAAAAG-AAAAAATCCATAAAAAAGAGATCCATATATC
185077 AGAAAATTCCAGTTCATTCAAGAGATCAAT-GGCTAAGACAGTCAACCACAACCTCTACAACACT
64 AGAAAATTCCAGTTCATTCAAGAGATCAATGGGCTAAGACAGTCAACCACAACCTCTACAACACT
185141 AAAAAGAAGCCAGATATTTATCAAGATAAGGTGAAC
129 AAAAAGAAGCCAGATATTTATCAAGATAAGGTGAAC
185177 AAAA
1 AAAA
185181 GAGTGGATTG
Statistics
Matches: 151, Mismatches: 15, Indels: 4
0.89 0.09 0.02
Matches are distributed among these distances:
163 1 0.01
164 98 0.65
165 52 0.34
ACGTcount: A:0.46, C:0.15, G:0.16, T:0.22
Consensus pattern (164 bp):
AAAATATTTGTGAGCATGGAGAAAAGAAAAAGAAAAAATCCATAAAAAAGAGATCCATATATCAG
AAAATTCCAGTTCATTCAAGAGATCAATGGGCTAAGACAGTCAACCACAACCTCTACAACACTAA
AAAGAAGCCAGATATTTATCAAGATAAGGTGAAC
Found at i:193298 original size:16 final size:16
Alignment explanation
Indices: 193277--193310 Score: 68
Period size: 16 Copynumber: 2.1 Consensus size: 16
193267 TGGGTCACTT
193277 TTTGGAAGCATTTAAG
1 TTTGGAAGCATTTAAG
193293 TTTGGAAGCATTTAAG
1 TTTGGAAGCATTTAAG
193309 TT
1 TT
193311 GCCCATGCCA
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 18 1.00
ACGTcount: A:0.29, C:0.06, G:0.24, T:0.41
Consensus pattern (16 bp):
TTTGGAAGCATTTAAG
Done.