Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: VEPZ01008010.1 Hibiscus syriacus cultivar Beakdansim tig00110472_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: 3152856
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
File 1 of 14
Found at i:106 original size:12 final size:12
Alignment explanation
Indices: 91--147 Score: 53
Period size: 12 Copynumber: 4.7 Consensus size: 12
81 TTATTTTGTT
91 TTTTTTTTCTTC
1 TTTTTTTTCTTC
103 TTTTCTTTTCTAT-
1 TTTT-TTTTCT-TC
*
116 TTTGTTTTCTTC
1 TTTTTTTTCTTC
** *
128 TTCATTTTCCTC
1 TTTTTTTTCTTC
140 TTTTTTTT
1 TTTTTTTT
148 TTATAATATA
Statistics
Matches: 36, Mismatches: 6, Indels: 6
0.75 0.12 0.12
Matches are distributed among these distances:
11 1 0.03
12 25 0.69
13 9 0.25
14 1 0.03
ACGTcount: A:0.04, C:0.18, G:0.02, T:0.77
Consensus pattern (12 bp):
TTTTTTTTCTTC
Found at i:106 original size:25 final size:26
Alignment explanation
Indices: 78--129 Score: 63
Period size: 25 Copynumber: 2.1 Consensus size: 26
68 TCTCTCATTG
* *
78 TTTTTATTTTGT-TTTTTTTTTCTTC
1 TTTTTATTTTCTATTTTGTTTTCTTC
*
103 -TTTTCTTTTCTATTTTGTTTTCTTC
1 TTTTTATTTTCTATTTTGTTTTCTTC
128 TT
1 TT
130 CATTTTCCTC
Statistics
Matches: 22, Mismatches: 3, Indels: 3
0.79 0.11 0.11
Matches are distributed among these distances:
24 9 0.41
25 12 0.55
26 1 0.05
ACGTcount: A:0.04, C:0.12, G:0.04, T:0.81
Consensus pattern (26 bp):
TTTTTATTTTCTATTTTGTTTTCTTC
Found at i:143 original size:25 final size:24
Alignment explanation
Indices: 90--148 Score: 66
Period size: 25 Copynumber: 2.4 Consensus size: 24
80 TTTATTTTGT
90 TTTTTTTTTCTTCTTTTCTTTTCTA
1 TTTTTTTTTCTTC-TTTCTTTTCTA
* *
115 TTTTGTTTTCTTC-TTCATTTTCCTC
1 TTTTTTTTTCTTCTTTC-TTTT-CTA
140 TTTTTTTTT
1 TTTTTTTTT
149 TATAATATAT
Statistics
Matches: 29, Mismatches: 3, Indels: 4
0.81 0.08 0.11
Matches are distributed among these distances:
23 3 0.10
24 4 0.14
25 22 0.76
ACGTcount: A:0.03, C:0.17, G:0.02, T:0.78
Consensus pattern (24 bp):
TTTTTTTTTCTTCTTTCTTTTCTA
Found at i:5730 original size:15 final size:15
Alignment explanation
Indices: 5710--5745 Score: 56
Period size: 15 Copynumber: 2.4 Consensus size: 15
5700 ATTAAATTAT
5710 TATAAAAAA-ATATAA
1 TATAAAAAAGATAT-A
5725 TATAAAAAAGATATA
1 TATAAAAAAGATATA
5740 TATAAA
1 TATAAA
5746 CATAAATACA
Statistics
Matches: 20, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
15 16 0.80
16 4 0.20
ACGTcount: A:0.69, C:0.00, G:0.03, T:0.28
Consensus pattern (15 bp):
TATAAAAAAGATATA
Found at i:13305 original size:27 final size:25
Alignment explanation
Indices: 13254--13314 Score: 61
Period size: 26 Copynumber: 2.3 Consensus size: 25
13244 TTAATGTTAA
* *
13254 TAAAATAAATATAAAGCATTAAAAT
1 TAAAATAAATATAAAGAAATAAAAT
13279 GTAAAATAAA-ATAAAGAAATAGGAAAT
1 -TAAAATAAATATAAAGAAATA--AAAT
13306 TATAAATAA
1 TA-AAATAA
13315 TCCAATGACT
Statistics
Matches: 30, Mismatches: 2, Indels: 5
0.81 0.05 0.14
Matches are distributed among these distances:
25 9 0.30
26 11 0.37
27 10 0.33
ACGTcount: A:0.66, C:0.02, G:0.08, T:0.25
Consensus pattern (25 bp):
TAAAATAAATATAAAGAAATAAAAT
Found at i:13602 original size:10 final size:10
Alignment explanation
Indices: 13587--13612 Score: 52
Period size: 10 Copynumber: 2.6 Consensus size: 10
13577 ACGGAGGTAT
13587 GTTCATGTTC
1 GTTCATGTTC
13597 GTTCATGTTC
1 GTTCATGTTC
13607 GTTCAT
1 GTTCAT
13613 TTAATAAATA
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
10 16 1.00
ACGTcount: A:0.12, C:0.19, G:0.19, T:0.50
Consensus pattern (10 bp):
GTTCATGTTC
Found at i:13645 original size:16 final size:16
Alignment explanation
Indices: 13624--13656 Score: 66
Period size: 16 Copynumber: 2.1 Consensus size: 16
13614 TAATAAATAG
13624 ACGAACATAAACGAAC
1 ACGAACATAAACGAAC
13640 ACGAACATAAACGAAC
1 ACGAACATAAACGAAC
13656 A
1 A
13657 AATTTTTTTT
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:0.58, C:0.24, G:0.12, T:0.06
Consensus pattern (16 bp):
ACGAACATAAACGAAC
Found at i:13738 original size:10 final size:10
Alignment explanation
Indices: 13723--13797 Score: 61
Period size: 10 Copynumber: 7.7 Consensus size: 10
13713 CATTTAATAA
13723 ATAAACGAAC
1 ATAAACGAAC
13733 ATAAACGAAC
1 ATAAACGAAC
13743 ----ACGAAC
1 ATAAACGAAC
13749 ATAAACGAAC
1 ATAAACGAAC
** *
13759 ACGAAC-ATAA
1 ATAAACGA-AC
13769 ATGAACACGAAC
1 AT-AA-ACGAAC
13781 ATAAACGAAC
1 ATAAACGAAC
13791 ATAAACG
1 ATAAACG
13798 TTGGAGACCC
Statistics
Matches: 51, Mismatches: 6, Indels: 16
0.70 0.08 0.22
Matches are distributed among these distances:
6 6 0.12
9 1 0.02
10 35 0.69
11 3 0.06
12 5 0.10
13 1 0.02
ACGTcount: A:0.57, C:0.21, G:0.12, T:0.09
Consensus pattern (10 bp):
ATAAACGAAC
Found at i:13748 original size:16 final size:16
Alignment explanation
Indices: 13727--13791 Score: 121
Period size: 16 Copynumber: 4.1 Consensus size: 16
13717 TAATAAATAA
13727 ACGAACATAAACGAAC
1 ACGAACATAAACGAAC
13743 ACGAACATAAACGAAC
1 ACGAACATAAACGAAC
*
13759 ACGAACATAAATGAAC
1 ACGAACATAAACGAAC
13775 ACGAACATAAACGAAC
1 ACGAACATAAACGAAC
13791 A
1 A
13792 TAAACGTTGG
Statistics
Matches: 47, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
16 47 1.00
ACGTcount: A:0.57, C:0.23, G:0.12, T:0.08
Consensus pattern (16 bp):
ACGAACATAAACGAAC
Found at i:14560 original size:14 final size:14
Alignment explanation
Indices: 14543--14598 Score: 66
Period size: 14 Copynumber: 4.3 Consensus size: 14
14533 AATGAACATA
14543 AACGAACATAATCG
1 AACGAACATAATCG
14557 AACGAACAT-A---
1 AACGAACATAATCG
* *
14567 AACAAACATAACCG
1 AACGAACATAATCG
14581 AACGAACATAATCG
1 AACGAACATAATCG
14595 AACG
1 AACG
14599 TTCACGAACG
Statistics
Matches: 35, Mismatches: 3, Indels: 8
0.76 0.07 0.17
Matches are distributed among these distances:
10 8 0.23
11 1 0.03
13 1 0.03
14 25 0.71
ACGTcount: A:0.54, C:0.23, G:0.12, T:0.11
Consensus pattern (14 bp):
AACGAACATAATCG
Found at i:14563 original size:24 final size:24
Alignment explanation
Indices: 14523--14597 Score: 98
Period size: 24 Copynumber: 3.1 Consensus size: 24
14513 GATTGAGTTA
*
14523 AACATAAAT-GAATGAACATAAACG
1 AACAT-AATCGAACGAACATAAACG
*
14547 AACATAATCGAACGAACATAAACA
1 AACATAATCGAACGAACATAAACG
* *
14571 AACATAACCGAACGAACATAATCG
1 AACATAATCGAACGAACATAAACG
14595 AAC
1 AAC
14598 GTTCACGAAC
Statistics
Matches: 45, Mismatches: 5, Indels: 2
0.87 0.10 0.04
Matches are distributed among these distances:
23 3 0.07
24 42 0.93
ACGTcount: A:0.56, C:0.20, G:0.11, T:0.13
Consensus pattern (24 bp):
AACATAATCGAACGAACATAAACG
Found at i:17041 original size:5 final size:5
Alignment explanation
Indices: 17025--17240 Score: 331
Period size: 5 Copynumber: 43.8 Consensus size: 5
17015 CACGTAACTA
17025 ATAAT AATAAT ATAAT ATAAT ATAAT AT-AT ATATAT ATAAT ATAAT AATAA-
1 ATAAT -ATAAT ATAAT ATAAT ATAAT ATAAT ATA-AT ATAAT ATAAT -ATAAT
17076 ATAAT ATAAT ATAAT ATAAT ATAAT ATAAT ATAAT AT-AT AT-AT AATAAT
1 ATAAT ATAAT ATAAT ATAAT ATAAT ATAAT ATAAT ATAAT ATAAT -ATAAT
17125 ATAAT ATAAT AT-AT A-AAT AATAA- ATAAT ATAAT ATAAT ATAAT ATAAT
1 ATAAT ATAAT ATAAT ATAAT -ATAAT ATAAT ATAAT ATAAT ATAAT ATAAT
17173 ATAAT ATAAT ATAAT ATAAT ATAAT ATAAT AT-AT ATAAT ATAAT ATAAT
1 ATAAT ATAAT ATAAT ATAAT ATAAT ATAAT ATAAT ATAAT ATAAT ATAAT
17222 ATAAT ATAAT ATAAT ATAA
1 ATAAT ATAAT ATAAT ATAA
17241 CTAAATAACT
Statistics
Matches: 199, Mismatches: 0, Indels: 23
0.90 0.00 0.10
Matches are distributed among these distances:
4 27 0.14
5 154 0.77
6 18 0.09
ACGTcount: A:0.61, C:0.00, G:0.00, T:0.39
Consensus pattern (5 bp):
ATAAT
Found at i:19539 original size:10 final size:10
Alignment explanation
Indices: 19524--19581 Score: 55
Period size: 10 Copynumber: 5.6 Consensus size: 10
19514 ATTTAATAAT
19524 TAAACGAACA
1 TAAACGAACA
19534 TAAACGAACA
1 TAAACGAACA
** *
19544 CGAAC-ATAAA
1 TAAACGA-ACA
19554 TGAACACGAACA
1 T-AA-ACGAACA
19566 TAAACGAACA
1 TAAACGAACA
19576 TAAACG
1 TAAACG
19582 TTGGAGACCC
Statistics
Matches: 38, Mismatches: 6, Indels: 8
0.73 0.12 0.15
Matches are distributed among these distances:
9 1 0.03
10 28 0.74
11 3 0.08
12 5 0.13
13 1 0.03
ACGTcount: A:0.57, C:0.21, G:0.12, T:0.10
Consensus pattern (10 bp):
TAAACGAACA
Found at i:19548 original size:16 final size:16
Alignment explanation
Indices: 19527--19575 Score: 89
Period size: 16 Copynumber: 3.1 Consensus size: 16
19517 TAATAATTAA
19527 ACGAACATAAACGAAC
1 ACGAACATAAACGAAC
*
19543 ACGAACATAAATGAAC
1 ACGAACATAAACGAAC
19559 ACGAACATAAACGAAC
1 ACGAACATAAACGAAC
19575 A
1 A
19576 TAAACGTTGG
Statistics
Matches: 31, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
16 31 1.00
ACGTcount: A:0.57, C:0.22, G:0.12, T:0.08
Consensus pattern (16 bp):
ACGAACATAAACGAAC
Found at i:20353 original size:14 final size:14
Alignment explanation
Indices: 20336--20395 Score: 74
Period size: 14 Copynumber: 4.6 Consensus size: 14
20326 GATTGGGTTA
20336 AACATAAATGAACG
1 AACATAAATGAACG
20350 AACATAAATGAACG
1 AACATAAATGAACG
20364 AAC--AAA--AACG
1 AACATAAATGAACG
**
20374 AACATAACCGAACG
1 AACATAAATGAACG
20388 AACATAAA
1 AACATAAA
20396 CGAATGTTCA
Statistics
Matches: 40, Mismatches: 2, Indels: 8
0.80 0.04 0.16
Matches are distributed among these distances:
10 7 0.17
12 5 0.12
14 28 0.70
ACGTcount: A:0.60, C:0.18, G:0.12, T:0.10
Consensus pattern (14 bp):
AACATAAATGAACG
Found at i:20378 original size:24 final size:24
Alignment explanation
Indices: 20346--20399 Score: 81
Period size: 24 Copynumber: 2.2 Consensus size: 24
20336 AACATAAATG
*
20346 AACGAACATAAATGAACGAACAAA
1 AACGAACATAAACGAACGAACAAA
* *
20370 AACGAACATAACCGAACGAACATA
1 AACGAACATAAACGAACGAACAAA
20394 AACGAA
1 AACGAA
20400 TGTTCACGAA
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:0.59, C:0.20, G:0.13, T:0.07
Consensus pattern (24 bp):
AACGAACATAAACGAACGAACAAA
Found at i:21561 original size:41 final size:42
Alignment explanation
Indices: 21534--21665 Score: 137
Period size: 41 Copynumber: 3.2 Consensus size: 42
21524 GCGAATTTGG
*
21534 AAAATCGCAACGCGATATTGACTATCGCAACGCG-ATAATAC
1 AAAATCGCAACGCGATACTGACTATCGCAACGCGAATAATAC
* * * *
21575 AAAATCGCAACTCGATACTGACTTTCGCAACGCG-ATACT-T
1 AAAATCGCAACGCGATACTGACTATCGCAACGCGAATAATAC
** * * *
21615 AATTTCGCAACGCAATACTGACTTTCGCAACGAG-ATAATAC
1 AAAATCGCAACGCGATACTGACTATCGCAACGCGAATAATAC
*
21656 ATAATCGCAA
1 AAAATCGCAA
21666 TGGGATTTTC
Statistics
Matches: 75, Mismatches: 15, Indels: 2
0.82 0.16 0.02
Matches are distributed among these distances:
40 33 0.44
41 42 0.56
ACGTcount: A:0.37, C:0.25, G:0.15, T:0.23
Consensus pattern (42 bp):
AAAATCGCAACGCGATACTGACTATCGCAACGCGAATAATAC
Found at i:21562 original size:20 final size:20
Alignment explanation
Indices: 21537--21651 Score: 106
Period size: 20 Copynumber: 5.7 Consensus size: 20
21527 AATTTGGAAA
*
21537 ATCGCAACGCGATATTGACT
1 ATCGCAACGCGATACTGACT
* *
21557 ATCGCAACGCGATAAT-ACAAA
1 ATCGCAACGCGATACTGAC--T
*
21578 ATCGCAACTCGATACTGACT
1 ATCGCAACGCGATACTGACT
* * *
21598 TTCGCAACGCGATACTTAAT
1 ATCGCAACGCGATACTGACT
* *
21618 TTCGCAACGCAATACTGACT
1 ATCGCAACGCGATACTGACT
* *
21638 TTCGCAACGAGATA
1 ATCGCAACGCGATA
21652 ATACATAATC
Statistics
Matches: 78, Mismatches: 14, Indels: 6
0.80 0.14 0.06
Matches are distributed among these distances:
19 2 0.03
20 60 0.77
21 14 0.18
22 2 0.03
ACGTcount: A:0.34, C:0.26, G:0.17, T:0.23
Consensus pattern (20 bp):
ATCGCAACGCGATACTGACT
Found at i:21866 original size:22 final size:22
Alignment explanation
Indices: 21838--21881 Score: 79
Period size: 22 Copynumber: 2.0 Consensus size: 22
21828 CACTCTCTCA
21838 CCCATCTCCGACGAAATCCGTC
1 CCCATCTCCGACGAAATCCGTC
*
21860 CCCATCTCCGGCGAAATCCGTC
1 CCCATCTCCGACGAAATCCGTC
21882 TATCTCCATC
Statistics
Matches: 21, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
22 21 1.00
ACGTcount: A:0.20, C:0.45, G:0.16, T:0.18
Consensus pattern (22 bp):
CCCATCTCCGACGAAATCCGTC
Found at i:21948 original size:34 final size:34
Alignment explanation
Indices: 21905--21973 Score: 138
Period size: 34 Copynumber: 2.0 Consensus size: 34
21895 CAGAGCCACC
21905 CTCACAATCAGAAATGGAAAATCAACCAAATCAA
1 CTCACAATCAGAAATGGAAAATCAACCAAATCAA
21939 CTCACAATCAGAAATGGAAAATCAACCAAATCAA
1 CTCACAATCAGAAATGGAAAATCAACCAAATCAA
21973 C
1 C
21974 CACCGAGGTT
Statistics
Matches: 35, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
34 35 1.00
ACGTcount: A:0.52, C:0.25, G:0.09, T:0.14
Consensus pattern (34 bp):
CTCACAATCAGAAATGGAAAATCAACCAAATCAA
Found at i:22222 original size:20 final size:20
Alignment explanation
Indices: 22199--22236 Score: 67
Period size: 20 Copynumber: 1.9 Consensus size: 20
22189 TCAAATTAGA
22199 GTTGCGATTGTCATTTTCGT
1 GTTGCGATTGTCATTTTCGT
*
22219 GTTGCGATTTTCATTTTC
1 GTTGCGATTGTCATTTTC
22237 AGAAACTATT
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
20 17 1.00
ACGTcount: A:0.11, C:0.16, G:0.21, T:0.53
Consensus pattern (20 bp):
GTTGCGATTGTCATTTTCGT
Found at i:22427 original size:25 final size:24
Alignment explanation
Indices: 22373--22427 Score: 58
Period size: 25 Copynumber: 2.2 Consensus size: 24
22363 TGTTTATTAT
* *
22373 TGTTTTTGGTATATCTTCACAGTG
1 TGTTTTTGGTATATCTTAACAGTA
22397 TAGTTTTTGGTATATC-TAACTTAGTA
1 T-GTTTTTGGTATATCTTAAC--AGTA
22423 TGTTT
1 TGTTT
22428 ATTGTTTTTG
Statistics
Matches: 26, Mismatches: 2, Indels: 5
0.79 0.06 0.15
Matches are distributed among these distances:
24 4 0.15
25 18 0.69
26 4 0.15
ACGTcount: A:0.20, C:0.09, G:0.18, T:0.53
Consensus pattern (24 bp):
TGTTTTTGGTATATCTTAACAGTA
Found at i:23588 original size:18 final size:18
Alignment explanation
Indices: 23544--23591 Score: 69
Period size: 18 Copynumber: 2.7 Consensus size: 18
23534 TCCACTTCGG
*
23544 GAGCCATCACCTCACCTA
1 GAGCCATCACCTCACCCA
**
23562 GAGTTATCACCTCACCCA
1 GAGCCATCACCTCACCCA
23580 GAGCCATCACCT
1 GAGCCATCACCT
23592 AATCGACCCG
Statistics
Matches: 25, Mismatches: 5, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
18 25 1.00
ACGTcount: A:0.27, C:0.42, G:0.12, T:0.19
Consensus pattern (18 bp):
GAGCCATCACCTCACCCA
Found at i:24187 original size:19 final size:20
Alignment explanation
Indices: 24133--24199 Score: 73
Period size: 20 Copynumber: 3.4 Consensus size: 20
24123 TAGTTTACTT
* *
24133 TCGCAACACGAAAATGACTA
1 TCGCAACGCGGAAATGACTA
*
24153 TCGCAACGCGGAAATGGCTA
1 TCGCAACGCGGAAATGACTA
* **
24173 TCGCAATGC-GAAATGAAAA
1 TCGCAACGCGGAAATGACTA
24192 TCGCAACG
1 TCGCAACG
24200 ACAAAATCAC
Statistics
Matches: 39, Mismatches: 8, Indels: 1
0.81 0.17 0.02
Matches are distributed among these distances:
19 14 0.36
20 25 0.64
ACGTcount: A:0.39, C:0.24, G:0.22, T:0.15
Consensus pattern (20 bp):
TCGCAACGCGGAAATGACTA
Found at i:24207 original size:14 final size:14
Alignment explanation
Indices: 24188--24246 Score: 55
Period size: 14 Copynumber: 3.9 Consensus size: 14
24178 ATGCGAAATG
24188 AAAATCGCAACGAC
1 AAAATCGCAACGAC
* *
24202 AAAATCACAATGCGAAATG
1 AAAATCGCAA--CG--A-C
24221 AAAATCGCAACGAC
1 AAAATCGCAACGAC
24235 AAAATCGCAACG
1 AAAATCGCAACG
24247 CGAAACACAA
Statistics
Matches: 36, Mismatches: 4, Indels: 10
0.72 0.08 0.20
Matches are distributed among these distances:
14 21 0.58
15 1 0.03
16 2 0.06
17 2 0.06
18 1 0.03
19 9 0.25
ACGTcount: A:0.51, C:0.24, G:0.15, T:0.10
Consensus pattern (14 bp):
AAAATCGCAACGAC
Found at i:24262 original size:33 final size:33
Alignment explanation
Indices: 24172--24251 Score: 142
Period size: 33 Copynumber: 2.4 Consensus size: 33
24162 GGAAATGGCT
24172 ATCGCAATGCGAAATGAAAATCGCAACGACAAA
1 ATCGCAATGCGAAATGAAAATCGCAACGACAAA
*
24205 ATCACAATGCGAAATGAAAATCGCAACGACAAA
1 ATCGCAATGCGAAATGAAAATCGCAACGACAAA
*
24238 ATCGCAACGCGAAA
1 ATCGCAATGCGAAA
24252 CACAAATCGC
Statistics
Matches: 44, Mismatches: 3, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
33 44 1.00
ACGTcount: A:0.49, C:0.23, G:0.17, T:0.11
Consensus pattern (33 bp):
ATCGCAATGCGAAATGAAAATCGCAACGACAAA
Found at i:24280 original size:19 final size:19
Alignment explanation
Indices: 24258--24354 Score: 88
Period size: 19 Copynumber: 5.6 Consensus size: 19
24248 GAAACACAAA
24258 TCGCATTGCGATTTTCATT
1 TCGCATTGCGATTTTCATT
* *
24277 TCGCGTTGCGA-TTT--TG
1 TCGCATTGCGATTTTCATT
*
24293 TCG--TTGCAATTTTCATT
1 TCGCATTGCGATTTTCATT
*
24310 TCGCATTGCGA-TTT--TG
1 TCGCATTGCGATTTTCATT
24326 TCG--TTGCGATTTTCATT
1 TCGCATTGCGATTTTCATT
24343 TCGCATTGCGAT
1 TCGCATTGCGAT
24355 AGCCATTTCC
Statistics
Matches: 61, Mismatches: 7, Indels: 20
0.69 0.08 0.23
Matches are distributed among these distances:
14 11 0.18
15 6 0.10
16 8 0.13
17 8 0.13
18 6 0.10
19 22 0.36
ACGTcount: A:0.13, C:0.20, G:0.21, T:0.46
Consensus pattern (19 bp):
TCGCATTGCGATTTTCATT
Found at i:24299 original size:14 final size:14
Alignment explanation
Indices: 24280--24338 Score: 55
Period size: 14 Copynumber: 3.9 Consensus size: 14
24270 TTTCATTTCG
24280 CGTTGCGATTTTGT
1 CGTTGCGATTTTGT
* *
24294 CGTTGCAATTTTCATTT
1 CGTTGCGA-TTT--TGT
24311 CGCATTGCGATTTTGT
1 CG--TTGCGATTTTGT
24327 CGTTGCGATTTT
1 CGTTGCGATTTT
24339 CATTTCGCAT
Statistics
Matches: 36, Mismatches: 4, Indels: 10
0.72 0.08 0.20
Matches are distributed among these distances:
14 17 0.47
15 3 0.08
16 4 0.11
17 4 0.11
18 3 0.08
19 5 0.14
ACGTcount: A:0.12, C:0.17, G:0.22, T:0.49
Consensus pattern (14 bp):
CGTTGCGATTTTGT
Found at i:24310 original size:33 final size:33
Alignment explanation
Indices: 24263--24354 Score: 166
Period size: 33 Copynumber: 2.8 Consensus size: 33
24253 ACAAATCGCA
*
24263 TTGCGATTTTCATTTCGCGTTGCGATTTTGTCG
1 TTGCGATTTTCATTTCGCATTGCGATTTTGTCG
*
24296 TTGCAATTTTCATTTCGCATTGCGATTTTGTCG
1 TTGCGATTTTCATTTCGCATTGCGATTTTGTCG
24329 TTGCGATTTTCATTTCGCATTGCGAT
1 TTGCGATTTTCATTTCGCATTGCGAT
24355 AGCCATTTCC
Statistics
Matches: 56, Mismatches: 3, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
33 56 1.00
ACGTcount: A:0.13, C:0.18, G:0.21, T:0.48
Consensus pattern (33 bp):
TTGCGATTTTCATTTCGCATTGCGATTTTGTCG
Found at i:24774 original size:21 final size:20
Alignment explanation
Indices: 24748--24815 Score: 66
Period size: 21 Copynumber: 3.4 Consensus size: 20
24738 CTGTCATTCC
24748 TCAAGAGTCCCCTCCAATCGT
1 TCAAGAGTCCCCTCC-ATCGT
* * **
24769 TCAAGAGGCCCCTATCATCCC
1 TCAAGAGTCCCCT-CCATCGT
*
24790 TCAAGAGTCCCC-CCACCGT
1 TCAAGAGTCCCCTCCATCGT
24809 TCAAGAG
1 TCAAGAG
24816 GCCACTGTCA
Statistics
Matches: 37, Mismatches: 9, Indels: 4
0.74 0.18 0.08
Matches are distributed among these distances:
19 10 0.27
21 26 0.70
22 1 0.03
ACGTcount: A:0.25, C:0.40, G:0.16, T:0.19
Consensus pattern (20 bp):
TCAAGAGTCCCCTCCATCGT
Found at i:24827 original size:40 final size:42
Alignment explanation
Indices: 24738--24827 Score: 130
Period size: 40 Copynumber: 2.2 Consensus size: 42
24728 CCCGACTCAC
* * *
24738 CTGTCATTCCTCAAGAGTCCCCTCCAATCGTTCAAGAGGCCC
1 CTGTCATCCCTCAAGAGTCCCCTCCAACCGTTCAAGAGGCCA
*
24780 CTATCATCCCTCAAGAGTCCCC-CC-ACCGTTCAAGAGGCCA
1 CTGTCATCCCTCAAGAGTCCCCTCCAACCGTTCAAGAGGCCA
24820 CTGTCATC
1 CTGTCATC
24828 GTTGAAGAGG
Statistics
Matches: 43, Mismatches: 5, Indels: 2
0.86 0.10 0.04
Matches are distributed among these distances:
40 21 0.49
41 2 0.05
42 20 0.47
ACGTcount: A:0.22, C:0.40, G:0.16, T:0.22
Consensus pattern (42 bp):
CTGTCATCCCTCAAGAGTCCCCTCCAACCGTTCAAGAGGCCA
Found at i:26408 original size:19 final size:19
Alignment explanation
Indices: 26384--26439 Score: 94
Period size: 19 Copynumber: 2.9 Consensus size: 19
26374 ATCGCAACGA
26384 GAAAATCGCAATGAGAAAT
1 GAAAATCGCAATGAGAAAT
*
26403 GAAAATCGCAATGCGAAAT
1 GAAAATCGCAATGAGAAAT
*
26422 GAAAATCGCAACGAGAAA
1 GAAAATCGCAATGAGAAA
26440 ATCGCAATGC
Statistics
Matches: 34, Mismatches: 3, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
19 34 1.00
ACGTcount: A:0.52, C:0.14, G:0.21, T:0.12
Consensus pattern (19 bp):
GAAAATCGCAATGAGAAAT
Found at i:26495 original size:20 final size:20
Alignment explanation
Indices: 26478--26565 Score: 115
Period size: 20 Copynumber: 4.4 Consensus size: 20
26468 CGATTTTCTA
26478 GTTGCGATAGCCATTTTCGC
1 GTTGCGATAGCCATTTTCGC
*** *
26498 GTTGCGATTTTTCA-TTTCGA
1 GTTGCGA-TAGCCATTTTCGC
*
26518 ATTGCGATAGCCATTTTCGC
1 GTTGCGATAGCCATTTTCGC
26538 GTTGCGATAGCCATTTTCGC
1 GTTGCGATAGCCATTTTCGC
26558 GTTGCGAT
1 GTTGCGAT
26566 TTCCCCGTTG
Statistics
Matches: 56, Mismatches: 10, Indels: 4
0.80 0.14 0.06
Matches are distributed among these distances:
19 3 0.05
20 50 0.89
21 3 0.05
ACGTcount: A:0.16, C:0.22, G:0.24, T:0.39
Consensus pattern (20 bp):
GTTGCGATAGCCATTTTCGC
Found at i:26503 original size:34 final size:36
Alignment explanation
Indices: 26458--26545 Score: 108
Period size: 40 Copynumber: 2.4 Consensus size: 36
26448 GCGATTTTCA
* *
26458 TTTCGCATTGCGATTTTC-T-AGTTGCGATAGCCAT
1 TTTCGCGTTGCGATTTTCTTCAATTGCGATAGCCAT
26492 TTTCGCGTTGCGATTTTTCATTTCGAATTGCGATAGCCAT
1 TTTCGCGTTGCGA-TTTTC--TTC-AATTGCGATAGCCAT
26532 TTTCGCGTTGCGAT
1 TTTCGCGTTGCGAT
26546 AGCCATTTTC
Statistics
Matches: 46, Mismatches: 2, Indels: 7
0.84 0.04 0.13
Matches are distributed among these distances:
34 12 0.26
35 5 0.11
38 1 0.02
39 1 0.02
40 27 0.59
ACGTcount: A:0.16, C:0.20, G:0.22, T:0.42
Consensus pattern (36 bp):
TTTCGCGTTGCGATTTTCTTCAATTGCGATAGCCAT
Found at i:26804 original size:20 final size:20
Alignment explanation
Indices: 26779--26870 Score: 76
Period size: 20 Copynumber: 4.5 Consensus size: 20
26769 TTGAAGATGA
26779 TTGCGATTTTCAGAATCTCG
1 TTGCGATTTTCAGAATCTCG
***
26799 TTGCGAAAGTCAGAATCTCG
1 TTGCGATTTTCAGAATCTCG
* **
26819 TTGCGATTTTGTATTATCTCG
1 TTGCGATTTT-CAGAATCTCG
** * * *
26840 TTGCGATAGTCAGTATCGCA
1 TTGCGATTTTCAGAATCTCG
26860 TTGCGATTTTC
1 TTGCGATTTTC
26871 CAAATTCGCA
Statistics
Matches: 54, Mismatches: 17, Indels: 2
0.74 0.23 0.03
Matches are distributed among these distances:
20 39 0.72
21 15 0.28
ACGTcount: A:0.21, C:0.18, G:0.22, T:0.39
Consensus pattern (20 bp):
TTGCGATTTTCAGAATCTCG
Found at i:26899 original size:20 final size:21
Alignment explanation
Indices: 26855--26906 Score: 70
Period size: 20 Copynumber: 2.5 Consensus size: 21
26845 ATAGTCAGTA
*
26855 TCGCATTGCGATTTTCCAAAT
1 TCGCATTGCGATTTTACAAAT
**
26876 TCGCATTGCGA-TTTACTTAT
1 TCGCATTGCGATTTTACAAAT
26896 TCGCATTGCGA
1 TCGCATTGCGA
26907 ATTAGGAAAA
Statistics
Matches: 28, Mismatches: 3, Indels: 1
0.88 0.09 0.03
Matches are distributed among these distances:
20 17 0.61
21 11 0.39
ACGTcount: A:0.21, C:0.23, G:0.17, T:0.38
Consensus pattern (21 bp):
TCGCATTGCGATTTTACAAAT
Found at i:27121 original size:12 final size:12
Alignment explanation
Indices: 27102--27135 Score: 52
Period size: 12 Copynumber: 2.9 Consensus size: 12
27092 CTCTCCGGCA
27102 ACATCCGTTCCT
1 ACATCCGTTCCT
*
27114 ATATCCGTTCCT
1 ACATCCGTTCCT
27126 ACATCC-TTCC
1 ACATCCGTTCC
27136 CCATCCGGCA
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
11 4 0.20
12 16 0.80
ACGTcount: A:0.18, C:0.41, G:0.06, T:0.35
Consensus pattern (12 bp):
ACATCCGTTCCT
Found at i:27741 original size:24 final size:24
Alignment explanation
Indices: 27690--27743 Score: 72
Period size: 24 Copynumber: 2.2 Consensus size: 24
27680 GTATTCGAAA
* *
27690 TTTGATCTTGGTCAATACCCGGAC
1 TTTGATATTGGTCAATACCCAGAC
* *
27714 TTTGATATTGGTCAATACTCAGAT
1 TTTGATATTGGTCAATACCCAGAC
27738 TTTGAT
1 TTTGAT
27744 GATGTTTCAG
Statistics
Matches: 26, Mismatches: 4, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
24 26 1.00
ACGTcount: A:0.24, C:0.17, G:0.19, T:0.41
Consensus pattern (24 bp):
TTTGATATTGGTCAATACCCAGAC
Found at i:27935 original size:12 final size:12
Alignment explanation
Indices: 27918--27942 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
27908 ATATAATCCT
27918 GAAGAAGAAAAA
1 GAAGAAGAAAAA
27930 GAAGAAGAAAAA
1 GAAGAAGAAAAA
27942 G
1 G
27943 TCCCCGAAGA
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:0.72, C:0.00, G:0.28, T:0.00
Consensus pattern (12 bp):
GAAGAAGAAAAA
Found at i:30254 original size:19 final size:19
Alignment explanation
Indices: 30232--30362 Score: 94
Period size: 19 Copynumber: 7.7 Consensus size: 19
30222 GGAAATTACT
30232 ATCGCAATGCGAAATGAAA
1 ATCGCAATGCGAAATGAAA
*
30251 ATCGCAA--CG--A-GAGA
1 ATCGCAATGCGAAATGAAA
30265 ATCGCAATGCGAAATGAAA
1 ATCGCAATGCGAAATGAAA
*
30284 ATCGCAACGCG-AAT----
1 ATCGCAATGCGAAATGAAA
*
30298 TTCGCAATGCGAAATGAAA
1 ATCGCAATGCGAAATGAAA
**
30317 ATCGCAA--CG--A-GGGA
1 ATCGCAATGCGAAATGAAA
*
30331 ATCACAATGCGAAATGAAA
1 ATCGCAATGCGAAATGAAA
*
30350 ATCGCAACGCGAA
1 ATCGCAATGCGAA
30363 TTTAGTTTCG
Statistics
Matches: 84, Mismatches: 13, Indels: 30
0.66 0.10 0.24
Matches are distributed among these distances:
14 27 0.32
15 5 0.06
16 4 0.05
17 4 0.05
18 5 0.06
19 39 0.46
ACGTcount: A:0.44, C:0.20, G:0.23, T:0.14
Consensus pattern (19 bp):
ATCGCAATGCGAAATGAAA
Found at i:30274 original size:33 final size:33
Alignment explanation
Indices: 30232--30358 Score: 202
Period size: 33 Copynumber: 3.8 Consensus size: 33
30222 GGAAATTACT
30232 ATCGCAATGCGAAATGAAAATCGCAACGAGAGA
1 ATCGCAATGCGAAATGAAAATCGCAACGAGAGA
*
30265 ATCGCAATGCGAAATGAAAATCGCAACGCGA-A
1 ATCGCAATGCGAAATGAAAATCGCAACGAGAGA
* *
30297 TTTCGCAATGCGAAATGAAAATCGCAACGAGGGA
1 -ATCGCAATGCGAAATGAAAATCGCAACGAGAGA
*
30331 ATCACAATGCGAAATGAAAATCGCAACG
1 ATCGCAATGCGAAATGAAAATCGCAACG
30359 CGAATTTAGT
Statistics
Matches: 86, Mismatches: 6, Indels: 4
0.90 0.06 0.04
Matches are distributed among these distances:
32 1 0.01
33 84 0.98
34 1 0.01
ACGTcount: A:0.43, C:0.20, G:0.23, T:0.14
Consensus pattern (33 bp):
ATCGCAATGCGAAATGAAAATCGCAACGAGAGA
Found at i:30339 original size:66 final size:66
Alignment explanation
Indices: 30233--30365 Score: 248
Period size: 66 Copynumber: 2.0 Consensus size: 66
30223 GAAATTACTA
*
30233 TCGCAATGCGAAATGAAAATCGCAACGAGAGAATCGCAATGCGAAATGAAAATCGCAACGCGAAT
1 TCGCAATGCGAAATGAAAATCGCAACGAGAGAATCACAATGCGAAATGAAAATCGCAACGCGAAT
30298 T
66 T
*
30299 TCGCAATGCGAAATGAAAATCGCAACGAGGGAATCACAATGCGAAATGAAAATCGCAACGCGAAT
1 TCGCAATGCGAAATGAAAATCGCAACGAGAGAATCACAATGCGAAATGAAAATCGCAACGCGAAT
30364 T
66 T
30365 T
1 T
30366 AGTTTCGCGT
Statistics
Matches: 65, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
66 65 1.00
ACGTcount: A:0.42, C:0.20, G:0.23, T:0.16
Consensus pattern (66 bp):
TCGCAATGCGAAATGAAAATCGCAACGAGAGAATCACAATGCGAAATGAAAATCGCAACGCGAAT
T
Found at i:30380 original size:19 final size:19
Alignment explanation
Indices: 30358--30399 Score: 50
Period size: 19 Copynumber: 2.2 Consensus size: 19
30348 AAATCGCAAC
*
30358 GCGAATTT-AGTTTCGCGTT
1 GCGAATTTCA-TTTCGCATT
*
30377 GCGATTTTCATTTCGCATT
1 GCGAATTTCATTTCGCATT
30396 GCGA
1 GCGA
30400 TAGTACTTTT
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
19 19 0.95
20 1 0.05
ACGTcount: A:0.17, C:0.19, G:0.24, T:0.40
Consensus pattern (19 bp):
GCGAATTTCATTTCGCATT
Found at i:30526 original size:14 final size:14
Alignment explanation
Indices: 30507--30543 Score: 65
Period size: 14 Copynumber: 2.6 Consensus size: 14
30497 CATCAATTAA
30507 ACAAATCAACTTTT
1 ACAAATCAACTTTT
*
30521 ACAAATCACCTTTT
1 ACAAATCAACTTTT
30535 ACAAATCAA
1 ACAAATCAA
30544 TTAAACAATC
Statistics
Matches: 21, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
14 21 1.00
ACGTcount: A:0.46, C:0.24, G:0.00, T:0.30
Consensus pattern (14 bp):
ACAAATCAACTTTT
Found at i:31960 original size:42 final size:41
Alignment explanation
Indices: 31883--31991 Score: 112
Period size: 42 Copynumber: 2.6 Consensus size: 41
31873 GTGAATCGGG
* **
31883 CTCTTGAATGGTGGGA-GGGACTTCTTCAACGATGATAGTTGC
1 CTCTTGAACGGTGGGAGGGGAC-TC-TCAACGATGATAGGGGC
*
31925 CTCTTGAACGGTGGGAGGGGACTCTCAAGGAATGATAGGGGC
1 CTCTTGAACGGTGGGAGGGGACTCTCAACG-ATGATAGGGGC
* * * *
31967 CTCTTCAACGATAGGAGTGGACTCT
1 CTCTTGAACGGTGGGAGGGGACTCT
31992 TGAGGGATGA
Statistics
Matches: 57, Mismatches: 8, Indels: 4
0.83 0.12 0.06
Matches are distributed among these distances:
41 5 0.09
42 47 0.82
43 5 0.09
ACGTcount: A:0.23, C:0.18, G:0.33, T:0.26
Consensus pattern (41 bp):
CTCTTGAACGGTGGGAGGGGACTCTCAACGATGATAGGGGC
Found at i:32398 original size:91 final size:90
Alignment explanation
Indices: 32223--32407 Score: 300
Period size: 91 Copynumber: 2.0 Consensus size: 90
32213 ATTTCAAACT
*
32223 TTCAACCAAAAGACAAAACAAAGACAAATACTAACTTCATAGTGTTAAAGAATACACAGTTTAGC
1 TTCAACCAAAAGACAAAACAAAGACAAATACTAACTTCATAGTGTT--A-AATAAACAGTTTAGC
32288 AGAATTGGCAGCAACCGAATAAATTTAC
63 AGAATTGGCAGCAACCGAATAAATTTAC
32316 TTCAACCAAAAGACAAAACAAAAAGACAAATACTAACTTCATAGTGTT-AATAAACAGTTTAGCA
1 TTCAACCAAAAGACAAAAC--AAAGACAAATACTAACTTCATAGTGTTAAATAAACAGTTTAGCA
*
32380 GTATTGGCAGCAACCGAATAAATTTAC
64 GAATTGGCAGCAACCGAATAAATTTAC
32407 T
1 T
32408 AAGCAATCTA
Statistics
Matches: 88, Mismatches: 2, Indels: 6
0.92 0.02 0.06
Matches are distributed among these distances:
91 42 0.48
93 19 0.22
95 27 0.31
ACGTcount: A:0.47, C:0.18, G:0.12, T:0.23
Consensus pattern (90 bp):
TTCAACCAAAAGACAAAACAAAGACAAATACTAACTTCATAGTGTTAAATAAACAGTTTAGCAGA
ATTGGCAGCAACCGAATAAATTTAC
Found at i:34139 original size:20 final size:19
Alignment explanation
Indices: 34094--34225 Score: 130
Period size: 19 Copynumber: 7.1 Consensus size: 19
34084 TCTTTTGGTT
*
34094 GAAATGAAAATCGCAACGA
1 GAAATGAAAATCGCAACGC
*
34113 GATAATGAGAATCGCAACGC
1 GA-AATGAAAATCGCAACGC
** *
34133 GGAAATGACTATCACAA--C
1 -GAAATGAAAATCGCAACGC
*
34151 G--A-GAGAATCGCAACGC
1 GAAATGAAAATCGCAACGC
**
34167 GAAATGACTATCGCAACGC
1 GAAATGAAAATCGCAACGC
34186 GAAATGAAAATCGCAACGC
1 GAAATGAAAATCGCAACGC
*
34205 GAAATGAAAATCGCAATGC
1 GAAATGAAAATCGCAACGC
34224 GA
1 GA
34226 TTTTGGTTTC
Statistics
Matches: 93, Mismatches: 13, Indels: 14
0.77 0.11 0.12
Matches are distributed among these distances:
14 8 0.09
15 1 0.01
16 2 0.02
17 1 0.01
18 2 0.02
19 51 0.55
20 26 0.28
21 2 0.02
ACGTcount: A:0.44, C:0.20, G:0.23, T:0.13
Consensus pattern (19 bp):
GAAATGAAAATCGCAACGC
Found at i:34254 original size:19 final size:19
Alignment explanation
Indices: 34221--34287 Score: 89
Period size: 19 Copynumber: 3.5 Consensus size: 19
34211 AAAATCGCAA
**
34221 TGCGATTTTGGTTTCGCGT
1 TGCGATTTTTATTTCGCGT
34240 TGCGATTTTTATTTCGCGT
1 TGCGATTTTTATTTCGCGT
**
34259 TGCGATAGTTATTTCCGCGT
1 TGCGATTTTTATTT-CGCGT
34279 TGCGATTTT
1 TGCGATTTT
34288 CATTCTCGAA
Statistics
Matches: 41, Mismatches: 6, Indels: 1
0.85 0.12 0.02
Matches are distributed among these distances:
19 29 0.71
20 12 0.29
ACGTcount: A:0.10, C:0.16, G:0.25, T:0.48
Consensus pattern (19 bp):
TGCGATTTTTATTTCGCGT
Found at i:34870 original size:21 final size:20
Alignment explanation
Indices: 34824--34877 Score: 63
Period size: 20 Copynumber: 2.6 Consensus size: 20
34814 CGATAGTAAG
* *
34824 ATTCACATTGCGATTTACGT
1 ATTCGCATTGCGATTTACCT
* *
34844 ATTCGCGTTGCGATTTTCCT
1 ATTCGCATTGCGATTTACCT
34864 AATTCGCATTGCGA
1 -ATTCGCATTGCGA
34878 ATTATGAAAA
Statistics
Matches: 28, Mismatches: 5, Indels: 1
0.82 0.15 0.03
Matches are distributed among these distances:
20 16 0.57
21 12 0.43
ACGTcount: A:0.20, C:0.22, G:0.19, T:0.39
Consensus pattern (20 bp):
ATTCGCATTGCGATTTACCT
Found at i:34891 original size:21 final size:21
Alignment explanation
Indices: 34867--34929 Score: 74
Period size: 20 Copynumber: 3.0 Consensus size: 21
34857 TTTTCCTAAT
* *
34867 TCGCATTGCGAATTATGAAAA
1 TCGCAATGCGAATTACGAAAA
* *
34888 TCGCAACGCGAA-TACGTAAA
1 TCGCAATGCGAATTACGAAAA
*
34908 TCGCAATGCGAATTAGGAAAA
1 TCGCAATGCGAATTACGAAAA
34929 T
1 T
34930 TGCATTGTGA
Statistics
Matches: 34, Mismatches: 7, Indels: 2
0.79 0.16 0.05
Matches are distributed among these distances:
20 17 0.50
21 17 0.50
ACGTcount: A:0.40, C:0.17, G:0.21, T:0.22
Consensus pattern (21 bp):
TCGCAATGCGAATTACGAAAA
Found at i:34971 original size:20 final size:20
Alignment explanation
Indices: 34931--34979 Score: 64
Period size: 20 Copynumber: 2.5 Consensus size: 20
34921 TAGGAAAATT
*
34931 GCATTGTGATAGTCAGTATC
1 GCATTGCGATAGTCAGTATC
34951 GCATTGCGATAGTCA-TAATC
1 GCATTGCGATAGTCAGT-ATC
*
34971 GCGTTGCGA
1 GCATTGCGA
34980 ATCTGGAAAT
Statistics
Matches: 26, Mismatches: 2, Indels: 2
0.87 0.07 0.07
Matches are distributed among these distances:
19 1 0.04
20 25 0.96
ACGTcount: A:0.24, C:0.18, G:0.27, T:0.31
Consensus pattern (20 bp):
GCATTGCGATAGTCAGTATC
Found at i:44174 original size:24 final size:24
Alignment explanation
Indices: 44142--44190 Score: 89
Period size: 24 Copynumber: 2.0 Consensus size: 24
44132 GGACGCTCTT
*
44142 CTGTGCCTGAGGCTTGAATGTCTC
1 CTGTGCCTGAGGCTTGAAGGTCTC
44166 CTGTGCCTGAGGCTTGAAGGTCTC
1 CTGTGCCTGAGGCTTGAAGGTCTC
44190 C
1 C
44191 AAGCCTTCCA
Statistics
Matches: 24, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
24 24 1.00
ACGTcount: A:0.12, C:0.27, G:0.31, T:0.31
Consensus pattern (24 bp):
CTGTGCCTGAGGCTTGAAGGTCTC
Found at i:46863 original size:13 final size:13
Alignment explanation
Indices: 46845--46871 Score: 54
Period size: 13 Copynumber: 2.1 Consensus size: 13
46835 TATACATTCA
46845 TGTCAGTATCATT
1 TGTCAGTATCATT
46858 TGTCAGTATCATT
1 TGTCAGTATCATT
46871 T
1 T
46872 CCCAAATTCA
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:0.15, G:0.15, T:0.48
Consensus pattern (13 bp):
TGTCAGTATCATT
Found at i:50523 original size:20 final size:20
Alignment explanation
Indices: 50498--50540 Score: 59
Period size: 20 Copynumber: 2.1 Consensus size: 20
50488 TCTAAGAGCC
50498 CATTTAGGACCATATAGATG
1 CATTTAGGACCATATAGATG
** *
50518 CATTTAGGAGTATATAGTTG
1 CATTTAGGACCATATAGATG
50538 CAT
1 CAT
50541 GTGGTGGAAT
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
20 20 1.00
ACGTcount: A:0.33, C:0.12, G:0.21, T:0.35
Consensus pattern (20 bp):
CATTTAGGACCATATAGATG
Found at i:52807 original size:42 final size:42
Alignment explanation
Indices: 52723--52805 Score: 121
Period size: 44 Copynumber: 1.9 Consensus size: 42
52713 ATTACTGACA
*
52723 TAGGGGAGCTACCAAAAAATAATTTAGAGAAAAATTATATAAG
1 TAGGGGAACTACCAAAAAATAATTTAGAGAAAAA-TATATAAG
*
52766 TAGGGGAACTACCAAAAAGGTAATTTAGAGAAAAAGTATA
1 TAGGGGAACTACCAAAAA-ATAATTTAGAGAAAAA-TATA
52806 AGCTCAAGAA
Statistics
Matches: 36, Mismatches: 3, Indels: 1
0.90 0.08 0.03
Matches are distributed among these distances:
43 17 0.47
44 19 0.53
ACGTcount: A:0.51, C:0.07, G:0.20, T:0.22
Consensus pattern (42 bp):
TAGGGGAACTACCAAAAAATAATTTAGAGAAAAATATATAAG
Found at i:58665 original size:22 final size:23
Alignment explanation
Indices: 58629--58677 Score: 91
Period size: 22 Copynumber: 2.2 Consensus size: 23
58619 TCCCCAACAC
58629 CCCAACACAGGTCGCCATGCACT
1 CCCAACACAGGTCGCCATGCACT
58652 CCCAACA-AGGTCGCCATGCACT
1 CCCAACACAGGTCGCCATGCACT
58674 CCCA
1 CCCA
58678 GCGACCTTGT
Statistics
Matches: 26, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
22 19 0.73
23 7 0.27
ACGTcount: A:0.27, C:0.45, G:0.16, T:0.12
Consensus pattern (23 bp):
CCCAACACAGGTCGCCATGCACT
Found at i:58753 original size:26 final size:26
Alignment explanation
Indices: 58715--58766 Score: 86
Period size: 26 Copynumber: 2.0 Consensus size: 26
58705 CGGCGACCAA
* *
58715 GCTGGCTATCAAACTTAACCCTGCTC
1 GCTGGCGACCAAACTTAACCCTGCTC
58741 GCTGGCGACCAAACTTAACCCTGCTC
1 GCTGGCGACCAAACTTAACCCTGCTC
58767 CCTCGTGCAT
Statistics
Matches: 24, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
26 24 1.00
ACGTcount: A:0.23, C:0.37, G:0.17, T:0.23
Consensus pattern (26 bp):
GCTGGCGACCAAACTTAACCCTGCTC
Found at i:59266 original size:28 final size:30
Alignment explanation
Indices: 59226--59287 Score: 110
Period size: 28 Copynumber: 2.1 Consensus size: 30
59216 AATTTAGTTA
59226 ATTAGTTTGTTAGTTTAAG-T-TATATTAT
1 ATTAGTTTGTTAGTTTAAGTTATATATTAT
59254 ATTAGTTTGTTAGTTTAAGTTATATATTAT
1 ATTAGTTTGTTAGTTTAAGTTATATATTAT
59284 ATTA
1 ATTA
59288 TATAAAAAAA
Statistics
Matches: 32, Mismatches: 0, Indels: 2
0.94 0.00 0.06
Matches are distributed among these distances:
28 19 0.59
29 1 0.03
30 12 0.38
ACGTcount: A:0.31, C:0.00, G:0.13, T:0.56
Consensus pattern (30 bp):
ATTAGTTTGTTAGTTTAAGTTATATATTAT
Found at i:59785 original size:17 final size:17
Alignment explanation
Indices: 59763--59819 Score: 53
Period size: 17 Copynumber: 3.3 Consensus size: 17
59753 ATAATTTCTT
59763 TTTAAAAAAATATTGTG
1 TTTAAAAAAATATTGTG
*
59780 TTTAAAAATAT-TTAGTG
1 TTTAAAAAAATATT-GTG
** *
59797 TTTTTTAAAAATATTTTG
1 -TTTAAAAAAATATTGTG
59815 TTTAA
1 TTTAA
59820 TTTATATTAA
Statistics
Matches: 30, Mismatches: 7, Indels: 6
0.70 0.16 0.14
Matches are distributed among these distances:
16 2 0.07
17 16 0.53
18 10 0.33
19 2 0.07
ACGTcount: A:0.40, C:0.00, G:0.09, T:0.51
Consensus pattern (17 bp):
TTTAAAAAAATATTGTG
Found at i:59788 original size:15 final size:15
Alignment explanation
Indices: 59768--59819 Score: 50
Period size: 15 Copynumber: 3.1 Consensus size: 15
59758 TTCTTTTTAA
59768 AAAAATATTGTGTTT
1 AAAAATATTGTGTTT
59783 AAAAATATTTAGTGTTTTTT
1 AAAAATA-TT-GTG---TTT
*
59803 AAAAATATTTTGTTT
1 AAAAATATTGTGTTT
59818 AA
1 AA
59820 TTTATATTAA
Statistics
Matches: 31, Mismatches: 1, Indels: 10
0.74 0.02 0.24
Matches are distributed among these distances:
15 12 0.39
16 2 0.06
17 3 0.10
18 2 0.06
19 2 0.06
20 10 0.32
ACGTcount: A:0.40, C:0.00, G:0.10, T:0.50
Consensus pattern (15 bp):
AAAAATATTGTGTTT
Found at i:59823 original size:20 final size:19
Alignment explanation
Indices: 59780--59817 Score: 60
Period size: 20 Copynumber: 2.0 Consensus size: 19
59770 AAATATTGTG
59780 TTTAAAAATATTTAGTGTTT
1 TTTAAAAATATTTA-TGTTT
59800 TTTAAAAATATTT-TGTTT
1 TTTAAAAATATTTATGTTT
59818 AATTTATATT
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
18 5 0.28
20 13 0.72
ACGTcount: A:0.34, C:0.00, G:0.08, T:0.58
Consensus pattern (19 bp):
TTTAAAAATATTTATGTTT
Found at i:62926 original size:10 final size:10
Alignment explanation
Indices: 62908--62939 Score: 55
Period size: 10 Copynumber: 3.2 Consensus size: 10
62898 AGTAATGATA
62908 TATGTATTTC
1 TATGTATTTC
*
62918 TATGAATTTC
1 TATGTATTTC
62928 TATGTATTTC
1 TATGTATTTC
62938 TA
1 TA
62940 AGATTTAGTA
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
10 20 1.00
ACGTcount: A:0.25, C:0.09, G:0.09, T:0.56
Consensus pattern (10 bp):
TATGTATTTC
Found at i:62977 original size:21 final size:21
Alignment explanation
Indices: 62950--63037 Score: 58
Period size: 21 Copynumber: 4.3 Consensus size: 21
62940 AGATTTAGTA
62950 ATGATTAGTAATAATGAAATT
1 ATGATTAGTAATAATGAAATT
* * *
62971 ATTATTAATATTTAATG--ATT
1 ATGATTAGTA-ATAATGAAATT
* ** * *
62991 -TGA-TAGTAATGATTTAGTA
1 ATGATTAGTAATAATGAAATT
63010 ATGATTAGTAATAATGAAATT
1 ATGATTAGTAATAATGAAATT
*
63031 ATTATTA
1 ATGATTA
63038 ATATTTAATG
Statistics
Matches: 46, Mismatches: 16, Indels: 10
0.64 0.22 0.14
Matches are distributed among these distances:
17 3 0.07
18 4 0.09
19 3 0.07
20 6 0.13
21 25 0.54
22 5 0.11
ACGTcount: A:0.43, C:0.00, G:0.12, T:0.44
Consensus pattern (21 bp):
ATGATTAGTAATAATGAAATT
Found at i:63009 original size:60 final size:60
Alignment explanation
Indices: 62941--63574 Score: 387
Period size: 60 Copynumber: 10.2 Consensus size: 60
62931 GTATTTCTAA
*
62941 GATTTAGTAATGATTAGTAATAATGAAATTATTATTAATATTTAATGATTTGATAGTAAT
1 GATTTAGTAATGATTAGTAATAATGAAATTATTATTAATATTTAATGATTTGATATTAAT
63001 GATTTAGTAATGATTAGTAATAATGAAATTATTATTAATATTTAATGATTTGATATTAAT
1 GATTTAGTAATGATTAGTAATAATGAAATTATTATTAATATTTAATGATTTGATATTAAT
*
63061 GATTTAGTAATGATTAGTAATAATGAAATTATTATTAAT-TTT--T-A-ATGAT-TT-A-
1 GATTTAGTAATGATTAGTAATAATGAAATTATTATTAATATTTAATGATTTGATATTAAT
*
63113 -A--TAGTAATGATTAGTAATAAT-AATTTATTATTAATATTTAATGATTTGATATTAAT
1 GATTTAGTAATGATTAGTAATAATGAAATTATTATTAATATTTAATGATTTGATATTAAT
* * * ** * ** *
63169 GATTTAGTAATGATTTGATAGTAATG-ATTTACGACTTGAACAATGAACAATG-TTTGGTTCAAT
1 GATTTAGTAATGATTAG-TAATAATGAAATTATTA-TT-AA-TAT--TTAATGATTT-GAT--AT
63232 TAACCAT
57 T-A--AT
* * * * * * * * *
63239 -ATTTGCGTTA-CATAACTAGTAATGAAATTA-TAATAATGATTTAATAATGATT-AGTAATAAT
1 GATTT-AGTAATGATTAGTAATAATGAAATTATTATTAAT-ATTTAATGAT--TTGA-TATTAAT
* * * * * ** * *
63300 GAAATTATTATTAAT-ATT--TAATGATTTAGTAATGATTAGTAATAATGAAATTATTATTAATA
1 G--A-T-TTAGTAATGATTAGTAAT-A-AT-GAAATTATTATTAAT-ATTTAATGA-T-TTGATA
63362 TTTAAT
56 -TTAAT
63368 GATTTGATAGTAATGATTTAGTAATGATTAGTAACAATGAAATTATTATTAATATTTAATGATTT
1 GA-TT--TAGTAATGA-TTAG---T-A--A-T---AATGAAATTATTATTAATATTTAATGATTT
*
63433 GGTATTAAT
52 GATATTAAT
* * *
63442 GATTTAGTAATGATTAGTGATAATGAAATTATTATTAATTTTTAATGATTTGATAGTAAT
1 GATTTAGTAATGATTAGTAATAATGAAATTATTATTAATATTTAATGATTTGATATTAAT
* * *
63502 GA-TTAGTAATAATTAGTAATAAT-AATTTATTATTAATATTTAATGATTTAATATTAAT
1 GATTTAGTAATGATTAGTAATAATGAAATTATTATTAATATTTAATGATTTGATATTAAT
*
63560 GATTTAGAAATGATT
1 GATTTAGTAATGATT
63575 TGATAGTAAT
Statistics
Matches: 450, Mismatches: 64, Indels: 121
0.71 0.10 0.19
Matches are distributed among these distances:
48 13 0.03
49 23 0.05
51 2 0.00
52 1 0.00
53 5 0.01
54 4 0.01
55 5 0.01
56 1 0.00
57 2 0.00
58 33 0.07
59 44 0.10
60 148 0.33
61 4 0.01
62 2 0.00
63 7 0.02
64 11 0.02
65 14 0.03
66 15 0.03
67 30 0.07
68 18 0.04
69 12 0.03
70 9 0.02
71 9 0.02
73 2 0.00
74 8 0.02
75 5 0.01
76 1 0.00
77 7 0.02
78 13 0.03
79 1 0.00
80 1 0.00
ACGTcount: A:0.41, C:0.02, G:0.12, T:0.45
Consensus pattern (60 bp):
GATTTAGTAATGATTAGTAATAATGAAATTATTATTAATATTTAATGATTTGATATTAAT
Found at i:63122 original size:14 final size:14
Alignment explanation
Indices: 63103--63199 Score: 65
Period size: 14 Copynumber: 6.7 Consensus size: 14
63093 TATTAATTTT
63103 TAATGATTTAATAG
1 TAATGATTTAATAG
*
63117 TAATGATTAGTAATAA
1 TAATGATT--TAATAG
* *
63133 TAATTTATTATTAATATT
1 TAA-TGA-T-TTAATA-G
* *
63151 TAATGATTTGATAT
1 TAATGATTTAATAG
63165 TAATGA-TT--TAG
1 TAATGATTTAATAG
*
63176 TAATGATTTGATAG
1 TAATGATTTAATAG
63190 TAATGATTTA
1 TAATGATTTA
63200 CGACTTGAAC
Statistics
Matches: 67, Mismatches: 7, Indels: 18
0.73 0.08 0.20
Matches are distributed among these distances:
11 8 0.12
12 2 0.03
13 2 0.03
14 27 0.40
15 5 0.07
16 9 0.13
17 9 0.13
18 4 0.06
19 1 0.01
ACGTcount: A:0.40, C:0.00, G:0.12, T:0.47
Consensus pattern (14 bp):
TAATGATTTAATAG
Found at i:63157 original size:48 final size:49
Alignment explanation
Indices: 63065--63179 Score: 178
Period size: 48 Copynumber: 2.3 Consensus size: 49
63055 ATTAATGATT
*
63065 TAGTAATGATTAGTAATAATGAAATTATTATTAATTTTTAATGATTTAA
1 TAGTAATGATTAGTAATAATGAAATTATTATTAATATTTAATGATTTAA
* *
63114 TAGTAATGATTAGTAATAAT-AATTTATTATTAATATTTAATGATTTGA
1 TAGTAATGATTAGTAATAATGAAATTATTATTAATATTTAATGATTTAA
*
63162 TATTAATGATTTAGTAAT
1 TAGTAATGA-TTAGTAAT
63180 GATTTGATAG
Statistics
Matches: 61, Mismatches: 4, Indels: 2
0.91 0.06 0.03
Matches are distributed among these distances:
48 33 0.54
49 28 0.46
ACGTcount: A:0.42, C:0.00, G:0.10, T:0.48
Consensus pattern (49 bp):
TAGTAATGATTAGTAATAATGAAATTATTATTAATATTTAATGATTTAA
Found at i:63180 original size:25 final size:25
Alignment explanation
Indices: 63151--63199 Score: 89
Period size: 25 Copynumber: 2.0 Consensus size: 25
63141 TATTAATATT
*
63151 TAATGATTTGATATTAATGATTTAG
1 TAATGATTTGATAGTAATGATTTAG
63176 TAATGATTTGATAGTAATGATTTA
1 TAATGATTTGATAGTAATGATTTA
63200 CGACTTGAAC
Statistics
Matches: 23, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
25 23 1.00
ACGTcount: A:0.37, C:0.00, G:0.16, T:0.47
Consensus pattern (25 bp):
TAATGATTTGATAGTAATGATTTAG
Found at i:63298 original size:13 final size:12
Alignment explanation
Indices: 63265--63301 Score: 58
Period size: 11 Copynumber: 3.1 Consensus size: 12
63255 TAGTAATGAA
63265 ATTATAATAATG
1 ATTATAATAATG
63277 ATT-TAATAATG
1 ATTATAATAATG
63288 ATTAGTAATAATG
1 ATTA-TAATAATG
63301 A
1 A
63302 AATTATTATT
Statistics
Matches: 23, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
11 11 0.48
12 3 0.13
13 9 0.39
ACGTcount: A:0.49, C:0.00, G:0.11, T:0.41
Consensus pattern (12 bp):
ATTATAATAATG
Found at i:63333 original size:46 final size:46
Alignment explanation
Indices: 63272--63392 Score: 197
Period size: 46 Copynumber: 2.5 Consensus size: 46
63262 GAAATTATAA
*
63272 TAATGATTTAATAATGATTAGTAATAATGAAATTATTATTAATATT
1 TAATGATTTAGTAATGATTAGTAATAATGAAATTATTATTAATATT
63318 TAATGATTTAGTAATGATTAGTAATAATGAAATTATTATTAATATT
1 TAATGATTTAGTAATGATTAGTAATAATGAAATTATTATTAATATT
63364 TAATGATTTGATAGTAATGATTTAGTAAT
1 TAATGA-TT--TAGTAATGA-TTAGTAAT
63393 GATTAGTAAC
Statistics
Matches: 70, Mismatches: 1, Indels: 4
0.93 0.01 0.05
Matches are distributed among these distances:
46 51 0.73
47 2 0.03
49 9 0.13
50 8 0.11
ACGTcount: A:0.43, C:0.00, G:0.12, T:0.45
Consensus pattern (46 bp):
TAATGATTTAGTAATGATTAGTAATAATGAAATTATTATTAATATT
Found at i:63368 original size:35 final size:35
Alignment explanation
Indices: 63329--63431 Score: 91
Period size: 35 Copynumber: 3.2 Consensus size: 35
63319 AATGATTTAG
63329 TAATGATTAGTAATAATGAAATTATTATTAATATT
1 TAATGATTAGTAATAATGAAATTATTATTAATATT
* * * *
63364 TAATGATT--TGAT-A-G---TAATGATT--TA-G
1 TAATGATTAGTAATAATGAAATTATTATTAATATT
*
63389 TAATGATTAGTAACAATGAAATTATTATTAATATT
1 TAATGATTAGTAATAATGAAATTATTATTAATATT
63424 TAATGATT
1 TAATGATT
63432 TGGTATTAAT
Statistics
Matches: 49, Mismatches: 9, Indels: 20
0.63 0.12 0.26
Matches are distributed among these distances:
25 8 0.16
26 2 0.04
27 2 0.04
28 7 0.14
29 1 0.02
31 1 0.02
32 7 0.14
33 3 0.06
34 2 0.04
35 16 0.33
ACGTcount: A:0.43, C:0.01, G:0.12, T:0.45
Consensus pattern (35 bp):
TAATGATTAGTAATAATGAAATTATTATTAATATT
Found at i:63508 original size:10 final size:10
Alignment explanation
Indices: 63495--63524 Score: 51
Period size: 10 Copynumber: 3.0 Consensus size: 10
63485 AATGATTTGA
*
63495 TAGTAATGAT
1 TAGTAATAAT
63505 TAGTAATAAT
1 TAGTAATAAT
63515 TAGTAATAAT
1 TAGTAATAAT
63525 AATTTATTAT
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
10 19 1.00
ACGTcount: A:0.47, C:0.00, G:0.13, T:0.40
Consensus pattern (10 bp):
TAGTAATAAT
Found at i:63545 original size:21 final size:22
Alignment explanation
Indices: 63521--63565 Score: 65
Period size: 21 Copynumber: 2.1 Consensus size: 22
63511 TAATTAGTAA
*
63521 TAATAATTTATTATTAAT-ATT
1 TAATAATTTAATATTAATGATT
*
63542 TAATGATTTAATATTAATGATT
1 TAATAATTTAATATTAATGATT
63564 TA
1 TA
63566 GAAATGATTT
Statistics
Matches: 21, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
21 16 0.76
22 5 0.24
ACGTcount: A:0.42, C:0.00, G:0.04, T:0.53
Consensus pattern (22 bp):
TAATAATTTAATATTAATGATT
Found at i:63558 original size:14 final size:14
Alignment explanation
Indices: 63534--63590 Score: 57
Period size: 14 Copynumber: 4.2 Consensus size: 14
63524 TAATTTATTA
63534 TTAATATTTAATGAT
1 TTAATA-TTAATGAT
63549 TTAATATTAATGAT
1 TTAATATTAATGAT
*
63563 TT-AGA--AATGAT
1 TTAATATTAATGAT
* *
63574 TTGATAGTAATGAT
1 TTAATATTAATGAT
63588 TTA
1 TTA
63591 CGACTTGAAC
Statistics
Matches: 36, Mismatches: 3, Indels: 7
0.78 0.07 0.15
Matches are distributed among these distances:
11 8 0.22
12 2 0.06
13 2 0.06
14 18 0.50
15 6 0.17
ACGTcount: A:0.40, C:0.00, G:0.12, T:0.47
Consensus pattern (14 bp):
TTAATATTAATGAT
Found at i:63572 original size:25 final size:25
Alignment explanation
Indices: 63543--63590 Score: 78
Period size: 25 Copynumber: 1.9 Consensus size: 25
63533 ATTAATATTT
*
63543 AATGATTTAATATTAATGATTTAGA
1 AATGATTTAATAGTAATGATTTAGA
*
63568 AATGATTTGATAGTAATGATTTA
1 AATGATTTAATAGTAATGATTTA
63591 CGACTTGAAC
Statistics
Matches: 21, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
25 21 1.00
ACGTcount: A:0.42, C:0.00, G:0.15, T:0.44
Consensus pattern (25 bp):
AATGATTTAATAGTAATGATTTAGA
Found at i:63681 original size:21 final size:20
Alignment explanation
Indices: 63657--63742 Score: 52
Period size: 21 Copynumber: 4.2 Consensus size: 20
63647 GAAATTATAA
63657 TAATGATTTAGTAATGATTAG
1 TAAT-ATTTAGTAATGATTAG
* * * *
63678 TAATA-AT-GAAATTATTAT
1 TAATATTTAGTAATGATTAG
* * *
63696 TAATATTTAATGATTTGA-TAT
1 TAATATTTAGT-A-ATGATTAG
63717 TAATGATTTAGTAATGATTAG
1 TAAT-ATTTAGTAATGATTAG
63738 TAATA
1 TAATA
63743 ATGAAATTAT
Statistics
Matches: 47, Mismatches: 12, Indels: 13
0.65 0.17 0.18
Matches are distributed among these distances:
18 13 0.28
19 2 0.04
20 5 0.11
21 19 0.40
22 8 0.17
ACGTcount: A:0.42, C:0.00, G:0.13, T:0.45
Consensus pattern (20 bp):
TAATATTTAGTAATGATTAG
Found at i:63686 original size:13 final size:12
Alignment explanation
Indices: 63650--63746 Score: 53
Period size: 11 Copynumber: 8.1 Consensus size: 12
63640 TAGTAATGAA
63650 ATTATAATAATG
1 ATTATAATAATG
*
63662 ATT-TAGTAATG
1 ATTATAATAATG
63673 ATTAGTAATAATG
1 ATTA-TAATAATG
*
63686 AAATTATTATTAAT-
1 --ATTA-TAATAATG
*
63700 ATT-TAATGAT-
1 ATTATAATAATG
*
63710 -TTGATATTAATG
1 ATT-ATAATAATG
*
63722 ATT-TAGTAATG
1 ATTATAATAATG
63733 ATTAGTAATAATG
1 ATTA-TAATAATG
63746 A
1 A
63747 AATTATTATT
Statistics
Matches: 65, Mismatches: 10, Indels: 19
0.69 0.11 0.20
Matches are distributed among these distances:
9 2 0.03
10 5 0.08
11 25 0.38
12 6 0.09
13 17 0.26
15 10 0.15
ACGTcount: A:0.43, C:0.00, G:0.12, T:0.44
Consensus pattern (12 bp):
ATTATAATAATG
Found at i:63690 original size:339 final size:320
Alignment explanation
Indices: 62997--63987 Score: 1010
Period size: 321 Copynumber: 3.0 Consensus size: 320
62987 GATTTGATAG
*
62997 TAATGATTTAGTAATGATTAGTAATAATGAAATTATTATTAATATTTAATGATTTGATATTAATG
1 TAATGATTTAGTAATGATTAGTAATAATGAAATTATTATTAATATTTAATGATTTGATAGTAATG
* *
63062 ATTTAGTAATGATTAGTAATAATGAAATTATTATTAATTTTTAATGATTTAATAGTAATGATTAG
66 ATTTAGTAATGATTAGTAACAATGAAATTATTATTAATTTTTAATGATTTGATAGTAATGATTAG
* * * *
63127 TAATAATAATTTATTATTAATATTTAATGATTTGATATTAATGATTTAGTAATGAT--TTGA-TA
131 TAATAATAAATTATTATTAATATTTAATGATTTGATATTAAT-AATTAGTAATAATAATTTATTA
* ** * * * * ** * ** * * ** *
63189 GTAATGATTTACGACTTGAACAATGAACAATGTTTG-GTTCAATT-A-A-CCAT-ATTTGCGTTA
195 TTAAT-ATTTAATAATTTAA-TATTAATGAT-TTAGAAATGATTTGATAGTAATGATTTACG--A
* * ** * * * * * * * * *
63249 CAT-AACTAGTAATGAA-ATTATAAT-AATGATTTAA-TA-ATGATTAGTAATAA-T-GAAATTA
255 CTTGAAC----AATGAACA-TAT-TTGGTTCAATTAACCATAT-TTTCGTTACAACTAGTAATGA
* *
63307 TTATTAATATT
313 -AATT-ATA-A
63318 TAATGATTTAGTAATGATTAGTAATAATGAAATTATTATTAATATTTAATGATTTGATAGTAATG
1 TAATGATTTAGTAATGATTAGTAATAATGAAATTATTATTAATATTTAATGATTTGATAGTAATG
*
63383 ATTTAGTAATGATTAGTAACAATGAAATTATTATTAATATTTAATGATTTGGTATTAATGATTTA
66 ATTTAGTAATGATTAGTAACAATGAAATTATTATTAAT-TTT--T-A-AT-G-ATT--TGA--TA
* *
63448 GTAATGATTAGTGATAATGAAATTATTATTAATTTTTAATGATTTGATAGTAATGATTAGTAATA
120 GTAATGATTAGTAATAAT-AAATTATTATTAATATTTAATGA-TT--T-G--AT-A-T--TAATA
*
63513 ATTAGTAATAATAATTTATTATTAATATTTAATGATTTAATATTAATGATTTAGAAATGATTTGA
174 ATTAGTAATAATAATTTATTATTAATATTTAATAATTTAATATTAATGATTTAGAAATGATTTGA
* **
63578 TAGTAATGATTTACGACTTGAACAATGAATA-ATTTGGTTCAATTAATTATATTTTCGTTAC-A-
239 TAGTAATGATTTACGACTTGAACAATGAACATATTTGGTTCAATTAACCATATTTTCGTTACAAC
63640 TAGTAATGAAATTATAA
304 TAGTAATGAAATTATAA
*
63657 TAATGATTTAGTAATGATTAGTAATAATGAAATTATTATTAATATTTAATGATTTGATATTAATG
1 TAATGATTTAGTAATGATTAGTAATAATGAAATTATTATTAATATTTAATGATTTGATAGTAATG
*
63722 ATTTAGTAATGATTAGTAATAATGAAATTATTATTAATTTTTAATGATTTGATAGTAATGATTAG
66 ATTTAGTAATGATTAGTAACAATGAAATTATTATTAATTTTTAATGATTTGATAGTAATGATTAG
* *
63787 TAATAATAATTTATTATTAATATTTAATGATTTGATATTAATGATTAGTAATAATAATTTATTAT
131 TAATAATAAATTATTATTAATATTTAATGATTTGATATTAATAATTAGTAATAATAATTTATTAT
* *
63852 TAATATTTAATAATTTGATATTAATGATTTAGTAATGATTTGATAGTAATGATTTACGACTTGAA
196 TAATATTTAATAATTTAATATTAATGATTTAGAAATGATTTGATAGTAATGATTTACGACTTGAA
* *
63917 CAATGAACATGTTTGGTTCAATTAACCATATTTTCGTTACATAACTAGTAATGAATTTATAA
261 CAATGAACATATTTGGTTCAATTAACCATATTTTCGTTAC--AACTAGTAATGAAATTATAA
63979 TAATGATTT
1 TAATGATTT
63988 GATACTAAAA
Statistics
Matches: 572, Mismatches: 57, Indels: 81
0.81 0.08 0.11
Matches are distributed among these distances:
317 96 0.17
318 27 0.05
319 1 0.00
320 1 0.00
321 104 0.18
322 28 0.05
323 1 0.00
324 2 0.00
325 1 0.00
326 3 0.01
327 22 0.04
328 22 0.04
330 5 0.01
332 22 0.04
333 22 0.04
334 3 0.01
335 1 0.00
336 2 0.00
337 1 0.00
338 3 0.01
339 103 0.18
340 5 0.01
341 14 0.02
342 32 0.06
343 17 0.03
344 13 0.02
345 10 0.02
346 5 0.01
347 6 0.01
ACGTcount: A:0.41, C:0.03, G:0.12, T:0.45
Consensus pattern (320 bp):
TAATGATTTAGTAATGATTAGTAATAATGAAATTATTATTAATATTTAATGATTTGATAGTAATG
ATTTAGTAATGATTAGTAACAATGAAATTATTATTAATTTTTAATGATTTGATAGTAATGATTAG
TAATAATAAATTATTATTAATATTTAATGATTTGATATTAATAATTAGTAATAATAATTTATTAT
TAATATTTAATAATTTAATATTAATGATTTAGAAATGATTTGATAGTAATGATTTACGACTTGAA
CAATGAACATATTTGGTTCAATTAACCATATTTTCGTTACAACTAGTAATGAAATTATAA
Found at i:63723 original size:60 final size:59
Alignment explanation
Indices: 63657--63891 Score: 271
Period size: 48 Copynumber: 4.3 Consensus size: 59
63647 GAAATTATAA
63657 TAATGATTTAGTAATGATTAGTAATAATGAAATTATTATTAATATTTAATGATTTGATAT
1 TAATGATTTAGTAATGATTAGTAATAAT-AAATTATTATTAATATTTAATGATTTGATAT
*
63717 TAATGATTTAGTAATGATTAGTAATAATGAAATTATTATTAAT-TTT--T-A-ATG--AT
1 TAATGATTTAGTAATGATTAGTAATAAT-AAATTATTATTAATATTTAATGATTTGATAT
*
63770 T--TGA--TAGTAATGATTAGTAATAATAATTTATTATTAATATTTAATGATTTGATAT
1 TAATGATTTAGTAATGATTAGTAATAATAAATTATTATTAATATTTAATGATTTGATAT
*
63825 TAATGA-TTAG---T-A--A-TAATAAT---TTATTATTAATATTTAATAATTTGATAT
1 TAATGATTTAGTAATGATTAGTAATAATAAATTATTATTAATATTTAATGATTTGATAT
63873 TAATGATTTAGTAATGATT
1 TAATGATTTAGTAATGATT
63892 TGATAGTAAT
Statistics
Matches: 154, Mismatches: 4, Indels: 39
0.78 0.02 0.20
Matches are distributed among these distances:
48 46 0.30
49 27 0.18
51 11 0.07
52 3 0.02
53 6 0.04
54 1 0.01
55 6 0.04
56 1 0.01
57 4 0.03
58 3 0.02
59 3 0.02
60 43 0.28
ACGTcount: A:0.41, C:0.00, G:0.11, T:0.48
Consensus pattern (59 bp):
TAATGATTTAGTAATGATTAGTAATAATAAATTATTATTAATATTTAATGATTTGATAT
Found at i:63790 original size:24 final size:24
Alignment explanation
Indices: 63763--63905 Score: 118
Period size: 24 Copynumber: 5.9 Consensus size: 24
63753 TATTAATTTT
* *
63763 TAATGATTTGATAGTAATGATTAG
1 TAATAATTTGATATTAATGATTAG
*
63787 TAATAATAATTTATTATTAAT-ATT--
1 TAATAAT--TTGA-TATTAATGATTAG
*
63811 TAATGATTTGATATTAATGATTAG
1 TAATAATTTGATATTAATGATTAG
*
63835 TAATAATAATTTATTATTAAT-ATT--
1 TAATAAT--TTGA-TATTAATGATTAG
63859 TAATAATTTGATATTAATGATTTAG
1 TAATAATTTGATATTAATGA-TTAG
* *
63884 TAATGATTTGATAGTAATGATT
1 TAATAATTTGATATTAATGATT
63906 TACGACTTGA
Statistics
Matches: 96, Mismatches: 10, Indels: 26
0.73 0.08 0.20
Matches are distributed among these distances:
21 14 0.15
22 10 0.10
23 2 0.02
24 27 0.28
25 18 0.19
26 12 0.12
27 13 0.14
ACGTcount: A:0.41, C:0.00, G:0.11, T:0.48
Consensus pattern (24 bp):
TAATAATTTGATATTAATGATTAG
Found at i:63814 original size:21 final size:22
Alignment explanation
Indices: 63790--63907 Score: 98
Period size: 21 Copynumber: 5.1 Consensus size: 22
63780 TGATTAGTAA
63790 TAATAATTT-ATTATTAAT-ATT
1 TAATAATTTGA-TATTAATGATT
*
63811 TAATGATTTGATATTAATGATT
1 TAATAATTTGATATTAATGATT
*
63833 AGTAATAATAATTTATTATTAAT-ATT
1 --TAATAAT--TTGA-TATTAATGATT
63859 TAATAATTTGATATTAATGATTT
1 TAATAATTTGATATTAATGA-TT
* *
63882 AGTAATGATTTGATAGTAATGATT
1 --TAATAATTTGATATTAATGATT
63906 TA
1 TA
63908 CGACTTGAAC
Statistics
Matches: 80, Mismatches: 6, Indels: 21
0.75 0.06 0.20
Matches are distributed among these distances:
21 22 0.28
22 10 0.12
23 2 0.03
24 15 0.19
25 18 0.22
26 6 0.08
27 7 0.09
ACGTcount: A:0.41, C:0.00, G:0.09, T:0.50
Consensus pattern (22 bp):
TAATAATTTGATATTAATGATT
Found at i:63827 original size:14 final size:14
Alignment explanation
Indices: 63810--63906 Score: 56
Period size: 14 Copynumber: 6.7 Consensus size: 14
63800 TTATTAATAT
63810 TTAATGATTTGATA
1 TTAATGATTTGATA
*
63824 TTAATGATTAGTAATA
1 TTAATGATT--TGATA
* * *
63840 ATAATTTATTATTAATA
1 TTAA-TGA-T-TTGATA
*
63857 TTTAATAATTTGATA
1 -TTAATGATTTGATA
63872 TTAATGA-TT--TA
1 TTAATGATTTGATA
*
63883 GTAATGATTTGATA
1 TTAATGATTTGATA
*
63897 GTAATGATTT
1 TTAATGATTT
63907 ACGACTTGAA
Statistics
Matches: 66, Mismatches: 8, Indels: 18
0.72 0.09 0.20
Matches are distributed among these distances:
11 8 0.12
12 2 0.03
13 2 0.03
14 27 0.41
15 5 0.08
16 8 0.12
17 9 0.14
18 4 0.06
19 1 0.02
ACGTcount: A:0.39, C:0.00, G:0.11, T:0.49
Consensus pattern (14 bp):
TTAATGATTTGATA
Found at i:66140 original size:15 final size:14
Alignment explanation
Indices: 66117--66147 Score: 53
Period size: 15 Copynumber: 2.1 Consensus size: 14
66107 TACAACACTA
66117 AACTTTAATATAAT
1 AACTTTAATATAAT
66131 AACTTATAATATAAT
1 AACTT-TAATATAAT
66146 AA
1 AA
66148 ACTAATAAAC
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
14 5 0.31
15 11 0.69
ACGTcount: A:0.55, C:0.06, G:0.00, T:0.39
Consensus pattern (14 bp):
AACTTTAATATAAT
Found at i:66155 original size:16 final size:16
Alignment explanation
Indices: 66122--66168 Score: 53
Period size: 16 Copynumber: 3.0 Consensus size: 16
66112 CACTAAACTT
*
66122 TAATATAAT-AACTTA
1 TAATATAATAAACTAA
66137 TAATATAATAAACTAA
1 TAATATAATAAACTAA
*
66153 TAA-ACTAACAAACTAA
1 TAATA-TAATAAACTAA
66169 ACTTTTTAAA
Statistics
Matches: 28, Mismatches: 2, Indels: 3
0.85 0.06 0.09
Matches are distributed among these distances:
15 10 0.36
16 18 0.64
ACGTcount: A:0.60, C:0.11, G:0.00, T:0.30
Consensus pattern (16 bp):
TAATATAATAAACTAA
Found at i:66492 original size:21 final size:22
Alignment explanation
Indices: 66468--66508 Score: 66
Period size: 22 Copynumber: 1.9 Consensus size: 22
66458 TTTATGTATA
*
66468 ATATAA-CTTAAACTAACAATC
1 ATATAACCCTAAACTAACAATC
66489 ATATAACCCTAAACTAACAA
1 ATATAACCCTAAACTAACAA
66509 ACTAATTAAC
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
21 6 0.33
22 12 0.67
ACGTcount: A:0.54, C:0.22, G:0.00, T:0.24
Consensus pattern (22 bp):
ATATAACCCTAAACTAACAATC
Found at i:66647 original size:13 final size:13
Alignment explanation
Indices: 66613--66652 Score: 62
Period size: 13 Copynumber: 3.0 Consensus size: 13
66603 AAGAGCCTTA
66613 TCTCCCTTTCTTCT
1 TCTCCCTTTCTT-T
*
66627 TCTTCCTTTCTTT
1 TCTCCCTTTCTTT
66640 TCTCCCTTTCTTT
1 TCTCCCTTTCTTT
66653 CTTTCTCGAC
Statistics
Matches: 24, Mismatches: 2, Indels: 1
0.89 0.07 0.04
Matches are distributed among these distances:
13 13 0.54
14 11 0.46
ACGTcount: A:0.00, C:0.38, G:0.00, T:0.62
Consensus pattern (13 bp):
TCTCCCTTTCTTT
Found at i:66699 original size:26 final size:26
Alignment explanation
Indices: 66662--66736 Score: 123
Period size: 26 Copynumber: 2.9 Consensus size: 26
66652 TCTTTCTCGA
* *
66662 CTGCAATTTCTTCTCCCTTTCTTCTG
1 CTGCAATCTCTTCTCCCTTTCTTCAG
*
66688 CTGCAATCTCTTCTCCTTTTCTTCAG
1 CTGCAATCTCTTCTCCCTTTCTTCAG
66714 CTGCAATCTCTTCTCCCTTTCTT
1 CTGCAATCTCTTCTCCCTTTCTT
66737 TCTTTTATGT
Statistics
Matches: 45, Mismatches: 4, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
26 45 1.00
ACGTcount: A:0.09, C:0.36, G:0.07, T:0.48
Consensus pattern (26 bp):
CTGCAATCTCTTCTCCCTTTCTTCAG
Found at i:67359 original size:29 final size:29
Alignment explanation
Indices: 67318--67382 Score: 85
Period size: 29 Copynumber: 2.2 Consensus size: 29
67308 CTTGGTCACC
* *
67318 GGGACTGCTTGGCGACCTACAAGGTCGCT
1 GGGAGTGCATGGCGACCTACAAGGTCGCT
***
67347 GGGAGTGCATGGCGACCTTGTAGGTCGCT
1 GGGAGTGCATGGCGACCTACAAGGTCGCT
67376 GGGAGTG
1 GGGAGTG
67383 GGGAGTGCAT
Statistics
Matches: 31, Mismatches: 5, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
29 31 1.00
ACGTcount: A:0.15, C:0.22, G:0.42, T:0.22
Consensus pattern (29 bp):
GGGAGTGCATGGCGACCTACAAGGTCGCT
Found at i:70941 original size:46 final size:46
Alignment explanation
Indices: 70888--71195 Score: 269
Period size: 46 Copynumber: 6.8 Consensus size: 46
70878 AAATATAGTC
*
70888 AGGTGATAACACGGATCATACGTGATGAAGAGTTCTGGCCATCTAA
1 AGGTGATAACACGGCTCATACGTGATGAAGAGTTCTGGCCATCTAA
* ** *
70934 AGGTGATAACACGGCTCATACGTGATGAAGAGTTCTAGTTATCAAGGA
1 AGGTGATAACACGGCTCATACGTGATGAAGAGTTCTGGCCATCTA--A
* * **
70982 AGGGTGATAACACGTCTCATACGTGATGAAGAGTTTTGGTTATC---
1 A-GGTGATAACACGGCTCATACGTGATGAAGAGTTCTGGCCATCTAA
* * ** * * * * *
71026 ATG-GATTGACATAGCTCCTACATAAT-AAGGAGATCAGG---TC---
1 AGGTGA-TAACACGGCTCATACGTGATGAA-GAGTTCTGGCCATCTAA
* * * * *
71066 ATGTGATGACACGACTCATACGTGATGAAGAGTTTTGACCATCTAA
1 AGGTGATAACACGGCTCATACGTGATGAAGAGTTCTGGCCATCTAA
*
71112 AGGTGATAACACGACTCATACGTGATGAAGAGTTCTGGCCATCTAA
1 AGGTGATAACACGGCTCATACGTGATGAAGAGTTCTGGCCATCTAA
*
71158 AGGTGATAACATGGCTCATACGTGATGAAGAGTTCTGG
1 AGGTGATAACACGGCTCATACGTGATGAAGAGTTCTGG
71196 TTATCAAGGA
Statistics
Matches: 214, Mismatches: 35, Indels: 26
0.78 0.13 0.09
Matches are distributed among these distances:
40 24 0.11
41 4 0.02
42 4 0.02
43 22 0.10
44 1 0.00
46 118 0.55
48 2 0.01
49 39 0.18
ACGTcount: A:0.32, C:0.16, G:0.26, T:0.26
Consensus pattern (46 bp):
AGGTGATAACACGGCTCATACGTGATGAAGAGTTCTGGCCATCTAA
Found at i:71093 original size:178 final size:178
Alignment explanation
Indices: 70768--71247 Score: 546
Period size: 178 Copynumber: 2.7 Consensus size: 178
70758 GATGACACTT
* * * * *
70768 CTCATACGTGATGAAGAGTTTTTGGCCATCTTTAGGAAGGGTGATAACTCGGT-TCCTACGTGAT
1 CTCATACGTGATGAAGAG-TTCTAGCCATC--AAGGAAGGGTGATAACAC-GTCTCATACGTGAT
* * * * * *
70832 GAGGACG-ACTGGTTATC-TAGCTTGACATAGCTCCTACATAA-AGAGGAAAT-ATAGTCAGGTG
62 GAAGA-GTTCTGGTTATCATGGATTGACATAGCTCCTACATAATA-AGGAGATCA-GGTCAGGTG
* *
70893 ATAACACGGATCATACGTGATGAAGAGTTCTGGCCATCTAAAGGTGATAACACGG
124 ATAACACGGATCATACGTGATGAAGAGTTCTGACCATCTAAAGGTGATAACACGA
**
70948 CTCATACGTGATGAAGAGTTCTAGTTATCAAGGAAGGGTGATAACACGTCTCATACGTGATGAAG
1 CTCATACGTGATGAAGAGTTCTAGCCATCAAGGAAGGGTGATAACACGTCTCATACGTGATGAAG
* * *
71013 AGTTTTGGTTATCATGGATTGACATAGCTCCTACATAATAAGGAGATCAGGTCATGTGATGACAC
66 AGTTCTGGTTATCATGGATTGACATAGCTCCTACATAATAAGGAGATCAGGTCAGGTGATAACAC
*
71078 -GACTCATACGTGATGAAGAGTTTTGACCATCTAAAGGTGATAACACGA
131 GGA-TCATACGTGATGAAGAGTTCTGACCATCTAAAGGTGATAACACGA
* * * *
71126 CTCATACGTGATGAAGAGTTCTGGCCATCTA--AA-GGTGATAACATGGCTCATACGTGATGAAG
1 CTCATACGTGATGAAGAGTTCTAGCCATCAAGGAAGGGTGATAACACGTCTCATACGTGATGAAG
* ** *** * *
71188 AGTTCTGGTTATCAAGGATTGACACGGCTCCTACGCGATGAGGAGATCAGGTCGGGTGAT
66 AGTTCTGGTTATCATGGATTGACATAGCTCCTACATAATAAGGAGATCAGGTCAGGTGAT
71248 GTCACGGTTC
Statistics
Matches: 259, Mismatches: 35, Indels: 17
0.83 0.11 0.05
Matches are distributed among these distances:
175 77 0.30
176 5 0.02
177 40 0.15
178 110 0.42
179 9 0.03
180 18 0.07
ACGTcount: A:0.30, C:0.17, G:0.26, T:0.27
Consensus pattern (178 bp):
CTCATACGTGATGAAGAGTTCTAGCCATCAAGGAAGGGTGATAACACGTCTCATACGTGATGAAG
AGTTCTGGTTATCATGGATTGACATAGCTCCTACATAATAAGGAGATCAGGTCAGGTGATAACAC
GGATCATACGTGATGAAGAGTTCTGACCATCTAAAGGTGATAACACGA
Found at i:72189 original size:85 final size:84
Alignment explanation
Indices: 71901--72217 Score: 293
Period size: 85 Copynumber: 3.7 Consensus size: 84
71891 GTCATCGAGT
* * * *
71901 TGAATGGAATCAAACTTGAAGGTGTTTGTTGACAGATAACCCTTCTCGCCTTGAGTTATGCTGTA
1 TGAATGTAATCAAACTCGAAGGTCTTGGTTGACAGATAACCCTTCTCGCCTTGAGTTATGCTGTA
* * *
71966 AACTTGACATGT-CCTGGAAC
66 AATTTG--ATGTGCCTTGAGC
* * * * *
71986 TGAATGTAATTAAACTTGAAGGT-TTGTGTTGACAGATGACCCTTCTCGCTTTGAGCTATGCTGT
1 TGAATGTAATCAAACTCGAAGGTCTTG-GTTGACAGATAACCCTTCTCGCCTTGAGTTATGCTGT
* *
72050 GAATTTG-TTTGTCCTTGAGC
65 AAATTTGATGTG-CCTTGAGC
* * * * * * *
72070 TAAATAG-AATCGAACTCAAAGGTATCTT-GCTGACAAATAACTCTTCTCACCTTGAGTTATGCT
1 TGAAT-GTAATCAAACTCGAAGG--TCTTGGTTGACAGATAACCCTTCTCGCCTTGAGTTATGCT
72133 GTAAATTTGATGTGCCTTTGAGC
63 GTAAATTTGATGTGCC-TTGAGC
* * * * *
72156 TGAGTGTAATCGAACTCGAAGGTCTTGGTTGACAGATAACTCTTCTCGTCTTGAGTTTTGCT
1 TGAATGTAATCAAACTCGAAGGTCTTGGTTGACAGATAACCCTTCTCGCCTTGAGTTATGCT
72218 ACCAATAGTT
Statistics
Matches: 188, Mismatches: 33, Indels: 22
0.77 0.14 0.09
Matches are distributed among these distances:
82 2 0.01
84 27 0.14
85 130 0.69
86 27 0.14
87 2 0.01
ACGTcount: A:0.25, C:0.18, G:0.22, T:0.35
Consensus pattern (84 bp):
TGAATGTAATCAAACTCGAAGGTCTTGGTTGACAGATAACCCTTCTCGCCTTGAGTTATGCTGTA
AATTTGATGTGCCTTGAGC
Found at i:72397 original size:86 final size:86
Alignment explanation
Indices: 72278--72539 Score: 355
Period size: 86 Copynumber: 3.0 Consensus size: 86
72268 GCAGGTTATA
* * * * *
72278 ATTCTTCAGGTGGTTCCCCTTAACGAGTTTGAACCAAGTGAGATGATCTTTGGATAACTCCCCTT
1 ATTCCTCAGGTGGTTCCCCTTAGCGGGTCTGAACCAAGTGAGATGATCTTTGGATGACTCCCCTT
*
72343 CACAGGAAAACCATGTGGTAT
66 CACAGGAAAGCCATGTGGTAT
* * * * *
72364 ATTCCTCAGGTGATTCCCCTTAGTGGGTCTGAACCGAGTAAGATGAAT-TTTGGATGACTCCACT
1 ATTCCTCAGGTGGTTCCCCTTAGCGGGTCTGAACCAAGTGAGATG-ATCTTTGGATGACTCCCCT
* *
72428 TCATAAGAAAGCCATGTGGTAT
65 TCACAGGAAAGCCATGTGGTAT
* * *
72450 ATTTCTCGGGTGGTTCCCCTTAGCGGGTCTGAACCAAGTGAGATGATCTTTAGATGACTCCCCTT
1 ATTCCTCAGGTGGTTCCCCTTAGCGGGTCTGAACCAAGTGAGATGATCTTTGGATGACTCCCCTT
*
72515 CACGGGAAAGCCATGTGGTAT
66 CACAGGAAAGCCATGTGGTAT
72536 ATTC
1 ATTC
72540 TTTAGTCGAA
Statistics
Matches: 149, Mismatches: 25, Indels: 4
0.84 0.14 0.02
Matches are distributed among these distances:
85 2 0.01
86 145 0.97
87 2 0.01
ACGTcount: A:0.25, C:0.22, G:0.23, T:0.30
Consensus pattern (86 bp):
ATTCCTCAGGTGGTTCCCCTTAGCGGGTCTGAACCAAGTGAGATGATCTTTGGATGACTCCCCTT
CACAGGAAAGCCATGTGGTAT
Found at i:74148 original size:51 final size:51
Alignment explanation
Indices: 74079--74271 Score: 246
Period size: 51 Copynumber: 3.8 Consensus size: 51
74069 AATATCCCAA
* * *
74079 CCTTTTCATGTTGGTGTGAGCCTTCAAGATGCC-CACATGGA-TAATATCTAT
1 CCTTTTCATGCTGATGTGAACCTTCAAGATGCCTCACATGGATTAAT-TCT-T
* *
74130 CGTTTTCATGCTGATGTGAACCTTCAAGATGCCTCACATGGATTACTTCTT
1 CCTTTTCATGCTGATGTGAACCTTCAAGATGCCTCACATGGATTAATTCTT
* * *
74181 CCTTTTTATGCTGATGTGAACCTTCAAGATGCCTCACATGGATTACTTATGT
1 CCTTTTCATGCTGATGTGAACCTTCAAGATGCCTCACATGGATTAATTCT-T
* * *
74233 CTTTTTCATGCTGATGTGAGCCTTCAAGATGCCCCACAT
1 CCTTTTCATGCTGATGTGAACCTTCAAGATGCCTCACAT
74272 AGATAATATA
Statistics
Matches: 127, Mismatches: 12, Indels: 5
0.88 0.08 0.03
Matches are distributed among these distances:
51 77 0.61
52 47 0.37
53 3 0.02
ACGTcount: A:0.22, C:0.23, G:0.18, T:0.36
Consensus pattern (51 bp):
CCTTTTCATGCTGATGTGAACCTTCAAGATGCCTCACATGGATTAATTCTT
Found at i:74257 original size:103 final size:102
Alignment explanation
Indices: 74079--74271 Score: 271
Period size: 103 Copynumber: 1.9 Consensus size: 102
74069 AATATCCCAA
* * * *
74079 CCTTTTCATGTTGGTGTGAGCCTTCAAGATGCCCACATGGATAATATCTATCGTTTTCATGCTGA
1 CCTTTTCATGCTGATGTGAACCTTCAAGATGCCCACATGGATAATATATATCGTTTTCATGCTGA
*
74144 TGTGAACCTTCAAGATGCCTCACATGGATTACTTCTT
66 TGTGAACCTTCAAGATGCCCCACATGGATTACTTCTT
* * * *
74181 CCTTTTTATGCTGATGTGAACCTTCAAGATGCCTCACATGGATTACT-TATGTCTTTTTCATGCT
1 CCTTTTCATGCTGATGTGAACCTTCAAGATGCC-CACATGGA-TAATATATATCGTTTTCATGCT
*
74245 GATGTGAGCCTTCAAGATGCCCCACAT
64 GATGTGAACCTTCAAGATGCCCCACAT
74272 AGATAATATA
Statistics
Matches: 79, Mismatches: 10, Indels: 3
0.86 0.11 0.03
Matches are distributed among these distances:
102 29 0.37
103 47 0.59
104 3 0.04
ACGTcount: A:0.22, C:0.23, G:0.18, T:0.36
Consensus pattern (102 bp):
CCTTTTCATGCTGATGTGAACCTTCAAGATGCCCACATGGATAATATATATCGTTTTCATGCTGA
TGTGAACCTTCAAGATGCCCCACATGGATTACTTCTT
Found at i:75570 original size:1 final size:1
Alignment explanation
Indices: 75564--75645 Score: 83
Period size: 1 Copynumber: 82.0 Consensus size: 1
75554 TTTCAAATTC
* * * * * * *
75564 TTTTTTTTTCTTTTCTTTTTTTTTCTTTTTCTTTCTTTTTCTTTCTTTTTTTTTTTTTTTTTTTT
1 TTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTT
* *
75629 TTTTCTTTCTTTTTTTT
1 TTTTTTTTTTTTTTTTT
75646 CTGATAGATG
Statistics
Matches: 63, Mismatches: 18, Indels: 0
0.78 0.22 0.00
Matches are distributed among these distances:
1 63 1.00
ACGTcount: A:0.00, C:0.11, G:0.00, T:0.89
Consensus pattern (1 bp):
T
Found at i:75576 original size:10 final size:10
Alignment explanation
Indices: 75564--75645 Score: 107
Period size: 10 Copynumber: 8.4 Consensus size: 10
75554 TTTCAAATTC
75564 TTTTT-TTTT
1 TTTTTCTTTT
*
75573 CTTTTCTTTT
1 TTTTTCTTTT
75583 TTTTTCTTTT
1 TTTTTCTTTT
*
75593 TCTTTCTTTT
1 TTTTTCTTTT
*
75603 TCTTTCTTTT
1 TTTTTCTTTT
75613 TTTTT-TTTT
1 TTTTTCTTTT
75622 TTTTT-TTTT
1 TTTTTCTTTT
75631 TTCTTTCTTTT
1 TT-TTTCTTTT
75642 TTTT
1 TTTT
75646 CTGATAGATG
Statistics
Matches: 66, Mismatches: 4, Indels: 5
0.88 0.05 0.07
Matches are distributed among these distances:
9 19 0.29
10 41 0.62
11 6 0.09
ACGTcount: A:0.00, C:0.11, G:0.00, T:0.89
Consensus pattern (10 bp):
TTTTTCTTTT
Found at i:75579 original size:15 final size:15
Alignment explanation
Indices: 75561--75645 Score: 120
Period size: 15 Copynumber: 5.7 Consensus size: 15
75551 TTGTTTCAAA
75561 TTCTTTTTTTTTCTT
1 TTCTTTTTTTTTCTT
75576 TTCTTTTTTTTTCTTT
1 TTCTTTTTTTTTC-TT
*
75592 TTCTTTCTTTTTC-T
1 TTCTTTTTTTTTCTT
*
75606 TTCTTTTTTTTTTTT
1 TTCTTTTTTTTTCTT
*
75621 TTTTTTTTTTTTC-T
1 TTCTTTTTTTTTCTT
75635 TTCTTTTTTTT
1 TTCTTTTTTTT
75646 CTGATAGATG
Statistics
Matches: 62, Mismatches: 6, Indels: 5
0.85 0.08 0.07
Matches are distributed among these distances:
14 23 0.37
15 25 0.40
16 14 0.23
ACGTcount: A:0.00, C:0.12, G:0.00, T:0.88
Consensus pattern (15 bp):
TTCTTTTTTTTTCTT
Found at i:91463 original size:17 final size:17
Alignment explanation
Indices: 91441--91487 Score: 53
Period size: 17 Copynumber: 2.9 Consensus size: 17
91431 CGATCTACGT
91441 ATTACATGTAATATGTG
1 ATTACATGTAATATGTG
* *
91458 ATTACATGCACT-TGTG
1 ATTACATGTAATATGTG
*
91474 A-TACATGTTATATG
1 ATTACATGTAATATG
91488 ATATGAGATA
Statistics
Matches: 24, Mismatches: 5, Indels: 3
0.75 0.16 0.09
Matches are distributed among these distances:
15 7 0.29
16 7 0.29
17 10 0.42
ACGTcount: A:0.32, C:0.11, G:0.17, T:0.40
Consensus pattern (17 bp):
ATTACATGTAATATGTG
Found at i:92421 original size:22 final size:22
Alignment explanation
Indices: 92372--92423 Score: 63
Period size: 21 Copynumber: 2.4 Consensus size: 22
92362 ACCATAATTG
*
92372 CTGTAGCA-AGATATCGGTACA
1 CTGTAGCATAGATATCGATACA
*
92393 CTGTAGCATAG-TATCGATACCC
1 CTGTAGCATAGATATCGATA-CA
92415 CTGTAGCAT
1 CTGTAGCAT
92424 TTTGAAAAAT
Statistics
Matches: 27, Mismatches: 2, Indels: 3
0.84 0.06 0.09
Matches are distributed among these distances:
21 15 0.56
22 12 0.44
ACGTcount: A:0.29, C:0.23, G:0.21, T:0.27
Consensus pattern (22 bp):
CTGTAGCATAGATATCGATACA
Found at i:92616 original size:13 final size:13
Alignment explanation
Indices: 92600--92631 Score: 64
Period size: 13 Copynumber: 2.5 Consensus size: 13
92590 GCCCCAATTA
92600 CCCGATTACCCGC
1 CCCGATTACCCGC
92613 CCCGATTACCCGC
1 CCCGATTACCCGC
92626 CCCGAT
1 CCCGAT
92632 AAATATTAAA
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 19 1.00
ACGTcount: A:0.16, C:0.53, G:0.16, T:0.16
Consensus pattern (13 bp):
CCCGATTACCCGC
Found at i:92688 original size:24 final size:26
Alignment explanation
Indices: 92661--92723 Score: 73
Period size: 24 Copynumber: 2.6 Consensus size: 26
92651 TTATATATAT
*
92661 ATAATATTAATA-A-ATTTAATTTAA
1 ATAATATAAATATATATTTAATTTAA
92685 ATAA-A-AAATATATATTTAATTTAA
1 ATAATATAAATATATATTTAATTTAA
*
92709 AT-ATATATATATATA
1 ATAATATAAATATATA
92724 CCCGGCCCAA
Statistics
Matches: 33, Mismatches: 2, Indels: 7
0.79 0.05 0.17
Matches are distributed among these distances:
22 4 0.12
23 3 0.09
24 18 0.55
25 8 0.24
ACGTcount: A:0.56, C:0.00, G:0.00, T:0.44
Consensus pattern (26 bp):
ATAATATAAATATATATTTAATTTAA
Found at i:92703 original size:19 final size:19
Alignment explanation
Indices: 92679--92718 Score: 53
Period size: 19 Copynumber: 2.1 Consensus size: 19
92669 AATAAATTTA
92679 ATTTAAATAAAAAATATAT
1 ATTTAAATAAAAAATATAT
* * *
92698 ATTTAATTTAAATATATAT
1 ATTTAAATAAAAAATATAT
92717 AT
1 AT
92719 ATATACCCGG
Statistics
Matches: 18, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
19 18 1.00
ACGTcount: A:0.55, C:0.00, G:0.00, T:0.45
Consensus pattern (19 bp):
ATTTAAATAAAAAATATAT
Found at i:92748 original size:23 final size:24
Alignment explanation
Indices: 92721--92774 Score: 74
Period size: 23 Copynumber: 2.3 Consensus size: 24
92711 ATATATATAT
*
92721 ATACCCGGCCCAATAC-CGACCCA
1 ATACCCGACCCAATACTCGACCCA
* *
92744 ATACCCGACCCAATACTCGGCTCA
1 ATACCCGACCCAATACTCGACCCA
92768 ATACCCG
1 ATACCCG
92775 TTTAAATAAC
Statistics
Matches: 27, Mismatches: 3, Indels: 1
0.87 0.10 0.03
Matches are distributed among these distances:
23 15 0.56
24 12 0.44
ACGTcount: A:0.30, C:0.44, G:0.13, T:0.13
Consensus pattern (24 bp):
ATACCCGACCCAATACTCGACCCA
Found at i:92751 original size:12 final size:12
Alignment explanation
Indices: 92721--92774 Score: 65
Period size: 12 Copynumber: 4.6 Consensus size: 12
92711 ATATATATAT
*
92721 ATACCCGGCCCA
1 ATACCCGACCCA
92733 ATA-CCGACCCA
1 ATACCCGACCCA
92744 ATACCCGACCCA
1 ATACCCGACCCA
* * *
92756 ATACTCGGCTCA
1 ATACCCGACCCA
92768 ATACCCG
1 ATACCCG
92775 TTTAAATAAC
Statistics
Matches: 36, Mismatches: 5, Indels: 2
0.84 0.12 0.05
Matches are distributed among these distances:
11 10 0.28
12 26 0.72
ACGTcount: A:0.30, C:0.44, G:0.13, T:0.13
Consensus pattern (12 bp):
ATACCCGACCCA
Found at i:93022 original size:19 final size:20
Alignment explanation
Indices: 92985--93024 Score: 55
Period size: 19 Copynumber: 2.0 Consensus size: 20
92975 AACTATTTGC
92985 ACAGTATCAATACTATTCAT
1 ACAGTATCAATACTATTCAT
* *
93005 ACAGTAT-AGTACTGTTCAT
1 ACAGTATCAATACTATTCAT
93024 A
1 A
93025 AAAACATTTT
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
19 11 0.61
20 7 0.39
ACGTcount: A:0.38, C:0.17, G:0.10, T:0.35
Consensus pattern (20 bp):
ACAGTATCAATACTATTCAT
Found at i:99384 original size:20 final size:20
Alignment explanation
Indices: 99360--99399 Score: 55
Period size: 20 Copynumber: 2.0 Consensus size: 20
99350 GTTTTGTTGG
* *
99360 TAAAAAA-ATGATTTTTGTT
1 TAAAAAATAAGATTTTGGTT
99379 TAAAAAATAAGATTTTGGTT
1 TAAAAAATAAGATTTTGGTT
99399 T
1 T
99400 TGGACTTTAT
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
19 7 0.39
20 11 0.61
ACGTcount: A:0.42, C:0.00, G:0.12, T:0.45
Consensus pattern (20 bp):
TAAAAAATAAGATTTTGGTT
Found at i:100123 original size:13 final size:13
Alignment explanation
Indices: 100080--100123 Score: 54
Period size: 13 Copynumber: 3.5 Consensus size: 13
100070 ATCAAAACTG
100080 ACAAAAAATAAGA
1 ACAAAAAATAAGA
*
100093 AC-TAAAATAAGA
1 ACAAAAAATAAGA
*
100105 AGAAAAAATAAGA
1 ACAAAAAATAAGA
*
100118 TCAAAA
1 ACAAAA
100124 TGAAAATTCA
Statistics
Matches: 25, Mismatches: 5, Indels: 2
0.78 0.16 0.06
Matches are distributed among these distances:
12 10 0.40
13 15 0.60
ACGTcount: A:0.73, C:0.07, G:0.09, T:0.11
Consensus pattern (13 bp):
ACAAAAAATAAGA
Found at i:106929 original size:29 final size:29
Alignment explanation
Indices: 106851--106922 Score: 117
Period size: 29 Copynumber: 2.5 Consensus size: 29
106841 ATAATGGGTA
* *
106851 CTACTAAAGTTACCAAGTCAACCTTCATT
1 CTACTAAACTTACCAAGTCAACCTCCATT
106880 CTACTAAACTTACCAAGTCAACCTCCATT
1 CTACTAAACTTACCAAGTCAACCTCCATT
*
106909 TTACTAAACTTACC
1 CTACTAAACTTACC
106923 GAATCAAACC
Statistics
Matches: 40, Mismatches: 3, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
29 40 1.00
ACGTcount: A:0.35, C:0.31, G:0.04, T:0.31
Consensus pattern (29 bp):
CTACTAAACTTACCAAGTCAACCTCCATT
Found at i:108162 original size:29 final size:29
Alignment explanation
Indices: 108120--108183 Score: 92
Period size: 29 Copynumber: 2.2 Consensus size: 29
108110 ATCGAACCAA
*
108120 AATTTATTTGAAAATTATCAACAAAACTG
1 AATTAATTTGAAAATTATCAACAAAACTG
* **
108149 AATTAATTTGAAAATTATTAACTGAACTG
1 AATTAATTTGAAAATTATCAACAAAACTG
108178 AATTAA
1 AATTAA
108184 CCAAATTTTT
Statistics
Matches: 31, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
29 31 1.00
ACGTcount: A:0.48, C:0.08, G:0.08, T:0.36
Consensus pattern (29 bp):
AATTAATTTGAAAATTATCAACAAAACTG
Found at i:108360 original size:108 final size:109
Alignment explanation
Indices: 108149--108402 Score: 345
Period size: 108 Copynumber: 2.3 Consensus size: 109
108139 AACAAAACTG
* *
108149 AATTAATTTGAAAATTATTAACTGAA-CTGAATTAACCAAATTTTTTTGAAAATTATTAATCGAA
1 AATTTATTTGAAAATTATTAAC-GAACCT-AATTAACCAAATTTTTTT-AAAATTATTAATCAAA
* * *
108213 TTAATGGAAGAAAAATTCAATTAATTCGGTTCGGTTAATCGAACTAA
63 TTAATAGAAGAAAAATTCAATTAATTCGGTTCAGTTAATCGAACCAA
108260 AATTTATTTGAAAATTATTAATCGAACCTAATTAACC-AA-TTTTTT-AAATTATTAATCAAATT
1 AATTTATTTGAAAATTATTAA-CGAACCTAATTAACCAAATTTTTTTAAAATTATTAATCAAATT
***
108322 AATAGAAGCAAAAATTTTGTTAATTCGGTTCAGTTAATCGAACCAA
65 AATAGAAG-AAAAATTCAATTAATTCGGTTCAGTTAATCGAACCAA
*
108368 AATTTATTTGAAAATTATTAACCGAACCGAATTAA
1 AATTTATTTGAAAATTATTAA-CGAACCTAATTAA
108403 TTTGAAAATT
Statistics
Matches: 130, Mismatches: 10, Indels: 9
0.87 0.07 0.06
Matches are distributed among these distances:
107 23 0.18
108 65 0.50
109 6 0.05
110 2 0.02
111 31 0.24
112 3 0.02
ACGTcount: A:0.43, C:0.10, G:0.10, T:0.37
Consensus pattern (109 bp):
AATTTATTTGAAAATTATTAACGAACCTAATTAACCAAATTTTTTTAAAATTATTAATCAAATTA
ATAGAAGAAAAATTCAATTAATTCGGTTCAGTTAATCGAACCAA
Found at i:108405 original size:29 final size:29
Alignment explanation
Indices: 108368--108431 Score: 101
Period size: 29 Copynumber: 2.2 Consensus size: 29
108358 ATCGAACCAA
*
108368 AATTTATTTGAAAATTATTAACCGAACCG
1 AATTAATTTGAAAATTATTAACCGAACCG
*
108397 AATTAATTTGAAAATTGTTAACCGAACCG
1 AATTAATTTGAAAATTATTAACCGAACCG
*
108426 ATTTAA
1 AATTAA
108432 CCAAATTTTT
Statistics
Matches: 32, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
29 32 1.00
ACGTcount: A:0.42, C:0.12, G:0.11, T:0.34
Consensus pattern (29 bp):
AATTAATTTGAAAATTATTAACCGAACCG
Found at i:111348 original size:24 final size:24
Alignment explanation
Indices: 111321--111370 Score: 73
Period size: 24 Copynumber: 2.1 Consensus size: 24
111311 TTTATATAAA
*
111321 TTATATATTATTCAAAAAACTTAT
1 TTATATAATATTCAAAAAACTTAT
* *
111345 TTATATAATATTTAAAAAAGTTAT
1 TTATATAATATTCAAAAAACTTAT
111369 TT
1 TT
111371 GTTTATAACC
Statistics
Matches: 23, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
24 23 1.00
ACGTcount: A:0.46, C:0.04, G:0.02, T:0.48
Consensus pattern (24 bp):
TTATATAATATTCAAAAAACTTAT
Found at i:113807 original size:29 final size:29
Alignment explanation
Indices: 113773--113829 Score: 80
Period size: 29 Copynumber: 2.0 Consensus size: 29
113763 CCCTTTTTGA
*
113773 AATGAACATTCCAAG-ATTTTACCTTTACC
1 AATGAACAATCCAAGCATTTT-CCTTTACC
*
113802 AATGAACAATCCAAGCCTTTTCCTTTAC
1 AATGAACAATCCAAGCATTTTCCTTTAC
113830 TTTTTAACAT
Statistics
Matches: 25, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
29 21 0.84
30 4 0.16
ACGTcount: A:0.33, C:0.26, G:0.07, T:0.33
Consensus pattern (29 bp):
AATGAACAATCCAAGCATTTTCCTTTACC
Found at i:117645 original size:25 final size:23
Alignment explanation
Indices: 117614--117671 Score: 71
Period size: 25 Copynumber: 2.4 Consensus size: 23
117604 ATTTGGTTTA
*
117614 AATTTATTTTAATTATTAATTTAGT
1 AATTTATTTTAATAATTAA-TTA-T
*
117639 AATTTATATTAATAATTAATTAT
1 AATTTATTTTAATAATTAATTAT
117662 AATTGTATTT
1 AATT-TATTT
117672 ATTTACTGTT
Statistics
Matches: 29, Mismatches: 3, Indels: 3
0.83 0.09 0.09
Matches are distributed among these distances:
23 5 0.17
24 7 0.24
25 17 0.59
ACGTcount: A:0.40, C:0.00, G:0.03, T:0.57
Consensus pattern (23 bp):
AATTTATTTTAATAATTAATTAT
Found at i:125825 original size:29 final size:29
Alignment explanation
Indices: 125780--125837 Score: 89
Period size: 29 Copynumber: 2.0 Consensus size: 29
125770 GTGTTGGCCG
*
125780 TAGGTCGCCATGCCTTCCGGGCGACCTAC
1 TAGGTCGCCATGCCTTCCCGGCGACCTAC
* *
125809 TAGGTCGCCATGTCTTCCCGGCGAGCTAC
1 TAGGTCGCCATGCCTTCCCGGCGACCTAC
125838 AAGAGATTGC
Statistics
Matches: 26, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
29 26 1.00
ACGTcount: A:0.14, C:0.36, G:0.28, T:0.22
Consensus pattern (29 bp):
TAGGTCGCCATGCCTTCCCGGCGACCTAC
Found at i:125953 original size:23 final size:24
Alignment explanation
Indices: 125902--125954 Score: 83
Period size: 23 Copynumber: 2.3 Consensus size: 24
125892 GACCGAGGCT
*
125902 ATCCGAACGAGCTATGCGAGGGCA
1 ATCCGAGCGAGCTATGCGAGGGCA
125926 A-CCGAGCGAGCTATGCGAGGG-A
1 ATCCGAGCGAGCTATGCGAGGGCA
125948 ATCCGAG
1 ATCCGAG
125955 GGAAGCCGAG
Statistics
Matches: 27, Mismatches: 1, Indels: 3
0.87 0.03 0.10
Matches are distributed among these distances:
22 2 0.07
23 24 0.89
24 1 0.04
ACGTcount: A:0.28, C:0.25, G:0.36, T:0.11
Consensus pattern (24 bp):
ATCCGAGCGAGCTATGCGAGGGCA
Found at i:126018 original size:29 final size:29
Alignment explanation
Indices: 125972--126027 Score: 85
Period size: 29 Copynumber: 1.9 Consensus size: 29
125962 GAGCGAGGAT
* *
125972 AGGTCGCCCGGAGTGCATGACGACCTACA
1 AGGTCGCCCAGAGGGCATGACGACCTACA
*
126001 AGGTCGCCCAGAGGGCATGGCGACCTA
1 AGGTCGCCCAGAGGGCATGACGACCTA
126028 TGTGTTGGGA
Statistics
Matches: 24, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
29 24 1.00
ACGTcount: A:0.23, C:0.30, G:0.34, T:0.12
Consensus pattern (29 bp):
AGGTCGCCCAGAGGGCATGACGACCTACA
Found at i:126128 original size:29 final size:29
Alignment explanation
Indices: 126086--126142 Score: 96
Period size: 29 Copynumber: 2.0 Consensus size: 29
126076 GAGCAAGGGT
*
126086 AGGTCGCTCGGAGTGCATGACGACCTACA
1 AGGTCGCCCGGAGTGCATGACGACCTACA
*
126115 AGGTCGCCCGGAGTGCATGGCGACCTAC
1 AGGTCGCCCGGAGTGCATGACGACCTAC
126143 GACCAACACT
Statistics
Matches: 26, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
29 26 1.00
ACGTcount: A:0.21, C:0.30, G:0.33, T:0.16
Consensus pattern (29 bp):
AGGTCGCCCGGAGTGCATGACGACCTACA
Found at i:126361 original size:6 final size:7
Alignment explanation
Indices: 126344--126415 Score: 56
Period size: 7 Copynumber: 9.7 Consensus size: 7
126334 CTTTCCTTTT
126344 TTTTTAA
1 TTTTTAA
126351 TTTTTAA
1 TTTTTAA
126358 TTTTTCAA
1 TTTTT-AA
126366 TTCTTTAA
1 TT-TTTAA
126374 GTTTTT-A
1 -TTTTTAA
*
126381 TTTTGAA
1 TTTTTAA
* *
126388 TGTTTGAT
1 T-TTTTAA
*
126396 TTTTTTA
1 TTTTTAA
126403 TTTTATAA
1 TTTT-TAA
126411 TTTTT
1 TTTTT
126416 TTCCTTTTTT
Statistics
Matches: 53, Mismatches: 6, Indels: 12
0.75 0.08 0.17
Matches are distributed among these distances:
6 4 0.08
7 23 0.43
8 21 0.40
9 5 0.09
ACGTcount: A:0.22, C:0.03, G:0.06, T:0.69
Consensus pattern (7 bp):
TTTTTAA
Found at i:127158 original size:20 final size:20
Alignment explanation
Indices: 127133--127267 Score: 112
Period size: 20 Copynumber: 6.7 Consensus size: 20
127123 AATTGGGAAA
127133 ATCGCAATGCGATACTGACT
1 ATCGCAATGCGATACTGACT
*
127153 ATCGCAATGCGATACTTACT
1 ATCGCAATGCGATACTGACT
* * *
127173 ATCGTAATGCGATAAT-ACAAA
1 ATCGCAATGCGATACTGAC--T
* *
127194 ATCGCAACGAGATACTGACT
1 ATCGCAATGCGATACTGACT
* * *
127214 TTCGCAACGCGATTCTGACT
1 ATCGCAATGCGATACTGACT
* * *
127234 TTCGCAACGCGATAAT-ACAT
1 ATCGCAATGCGATACTGAC-T
127254 AATCGCAATGCGAT
1 -ATCGCAATGCGAT
127268 TTTCAAAGCG
Statistics
Matches: 94, Mismatches: 16, Indels: 9
0.79 0.13 0.08
Matches are distributed among these distances:
19 4 0.04
20 65 0.69
21 23 0.24
22 2 0.02
ACGTcount: A:0.33, C:0.24, G:0.18, T:0.25
Consensus pattern (20 bp):
ATCGCAATGCGATACTGACT
Found at i:127195 original size:61 final size:61
Alignment explanation
Indices: 127130--127267 Score: 186
Period size: 61 Copynumber: 2.3 Consensus size: 61
127120 GCAAATTGGG
* * * *
127130 AAAATCGCAATGCGATACTGACTATCGCAATGCGATACTTACTATCGTAATGCGATAATAC
1 AAAATCGCAATGCGATACTGACTATCGCAACGCGATACTGACTATCGCAACGCGATAATAC
* * * * *
127191 AAAATCGCAACGAGATACTGACTTTCGCAACGCGATTCTGACTTTCGCAACGCGATAATAC
1 AAAATCGCAATGCGATACTGACTATCGCAACGCGATACTGACTATCGCAACGCGATAATAC
*
127252 ATAATCGCAATGCGAT
1 AAAATCGCAATGCGAT
127268 TTTCAAAGCG
Statistics
Matches: 65, Mismatches: 12, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
61 65 1.00
ACGTcount: A:0.35, C:0.23, G:0.17, T:0.25
Consensus pattern (61 bp):
AAAATCGCAATGCGATACTGACTATCGCAACGCGATACTGACTATCGCAACGCGATAATAC
Done.