Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: VEPZ01007227.1 Hibiscus syriacus cultivar Beakdansim tig00019129_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: 178692
ACGTcount: A:0.32, C:0.17, G:0.17, T:0.34
Found at i:573 original size:15 final size:16
Alignment explanation
Indices: 553--582 Score: 53
Period size: 15 Copynumber: 1.9 Consensus size: 16
543 ATATCATTTC
553 TCTTCTAAAT-TATTA
1 TCTTCTAAATATATTA
568 TCTTCTAAATATATT
1 TCTTCTAAATATATT
583 CGGATCGAGT
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
15 10 0.71
16 4 0.29
ACGTcount: A:0.33, C:0.13, G:0.00, T:0.53
Consensus pattern (16 bp):
TCTTCTAAATATATTA
Found at i:6652 original size:25 final size:25
Alignment explanation
Indices: 6621--6670 Score: 100
Period size: 25 Copynumber: 2.0 Consensus size: 25
6611 CAATTAAATC
6621 CTTATTTCTTATTGAATAAAAGTAA
1 CTTATTTCTTATTGAATAAAAGTAA
6646 CTTATTTCTTATTGAATAAAAGTAA
1 CTTATTTCTTATTGAATAAAAGTAA
6671 TATTTTTTAT
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
25 25 1.00
ACGTcount: A:0.40, C:0.08, G:0.08, T:0.44
Consensus pattern (25 bp):
CTTATTTCTTATTGAATAAAAGTAA
Found at i:6789 original size:26 final size:26
Alignment explanation
Indices: 6731--6795 Score: 69
Period size: 26 Copynumber: 2.5 Consensus size: 26
6721 TCAAAAGGGC
*
6731 GAGTTGAGTGGAGAGTTTATAATTTT
1 GAGTTGAGTGGAGAGTGTATAATTTT
* *
6757 CAGGTTGAGTGGAG-GTGTGTAATTTTT
1 GA-GTTGAGTGGAGAGTGTATAA-TTTT
*
6784 GAGTTGACTGGA
1 GAGTTGAGTGGA
6796 AACCCTACCT
Statistics
Matches: 32, Mismatches: 5, Indels: 4
0.78 0.12 0.10
Matches are distributed among these distances:
26 16 0.50
27 16 0.50
ACGTcount: A:0.23, C:0.03, G:0.35, T:0.38
Consensus pattern (26 bp):
GAGTTGAGTGGAGAGTGTATAATTTT
Found at i:11759 original size:24 final size:24
Alignment explanation
Indices: 11738--11794 Score: 87
Period size: 24 Copynumber: 2.4 Consensus size: 24
11728 TTTATGTTTT
11738 TTTATGTTCATTCATTTGTGTTCG
1 TTTATGTTCATTCATTTGTGTTCG
* * *
11762 TGTATGTTTATTCATTTGCGTTCG
1 TTTATGTTCATTCATTTGTGTTCG
11786 TTTATGTTC
1 TTTATGTTC
11795 TCAAATATAA
Statistics
Matches: 28, Mismatches: 5, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
24 28 1.00
ACGTcount: A:0.12, C:0.12, G:0.18, T:0.58
Consensus pattern (24 bp):
TTTATGTTCATTCATTTGTGTTCG
Found at i:17368 original size:29 final size:30
Alignment explanation
Indices: 17315--17371 Score: 80
Period size: 29 Copynumber: 1.9 Consensus size: 30
17305 AAAATGATTC
17315 AATTTGTAAAGTTCAGCGAGCAAAATAGAA
1 AATTTGTAAAGTTCAGCGAGCAAAATAGAA
* * *
17345 AATTTG-AAAGTTGAGTGAGGAAAATAG
1 AATTTGTAAAGTTCAGCGAGCAAAATAG
17372 GATAGATAGT
Statistics
Matches: 24, Mismatches: 3, Indels: 1
0.86 0.11 0.04
Matches are distributed among these distances:
29 18 0.75
30 6 0.25
ACGTcount: A:0.46, C:0.05, G:0.25, T:0.25
Consensus pattern (30 bp):
AATTTGTAAAGTTCAGCGAGCAAAATAGAA
Found at i:17458 original size:2 final size:2
Alignment explanation
Indices: 17445--17474 Score: 51
Period size: 2 Copynumber: 15.0 Consensus size: 2
17435 TTTAAGTGTA
*
17445 AT AT AC AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
17475 TAATTTTTCG
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:0.50, C:0.03, G:0.00, T:0.47
Consensus pattern (2 bp):
AT
Found at i:21243 original size:21 final size:21
Alignment explanation
Indices: 21206--21254 Score: 55
Period size: 21 Copynumber: 2.3 Consensus size: 21
21196 GAACTACTAT
* *
21206 GTCATCATTGTAGATTGTCAC
1 GTCAGCATTGTAGATTGACAC
21227 GTCAGCATTGT-GAATTGACAC
1 GTCAGCATTGTAG-ATTGACAC
*
21248 ATCAGCA
1 GTCAGCA
21255 CCGTAACGGT
Statistics
Matches: 24, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
20 1 0.04
21 23 0.96
ACGTcount: A:0.29, C:0.20, G:0.20, T:0.31
Consensus pattern (21 bp):
GTCAGCATTGTAGATTGACAC
Found at i:21765 original size:2 final size:2
Alignment explanation
Indices: 21760--21785 Score: 52
Period size: 2 Copynumber: 13.0 Consensus size: 2
21750 CACGTGCATG
21760 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
21786 CAGGCGCATG
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 24 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
TA
Found at i:23900 original size:23 final size:23
Alignment explanation
Indices: 23874--23921 Score: 62
Period size: 23 Copynumber: 2.1 Consensus size: 23
23864 TAATTAGATT
*
23874 TTAAAATCTTAATGGGT-TTAATA
1 TTAAAAT-TTAATAGGTCTTAATA
*
23897 TTAAAATTTATTAGGTCTTAATA
1 TTAAAATTTAATAGGTCTTAATA
23920 TT
1 TT
23922 TTAAATTAGT
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
22 7 0.32
23 15 0.68
ACGTcount: A:0.38, C:0.04, G:0.10, T:0.48
Consensus pattern (23 bp):
TTAAAATTTAATAGGTCTTAATA
Found at i:23967 original size:14 final size:14
Alignment explanation
Indices: 23945--23987 Score: 50
Period size: 14 Copynumber: 3.1 Consensus size: 14
23935 GAGATTGTGC
23945 TGAAAATAAATGAA
1 TGAAAATAAATGAA
* *
23959 TGAACATAAATAAA
1 TGAAAATAAATGAA
* *
23973 CGAATATAAATGAA
1 TGAAAATAAATGAA
23987 T
1 T
23988 AGATTATCGA
Statistics
Matches: 23, Mismatches: 6, Indels: 0
0.79 0.21 0.00
Matches are distributed among these distances:
14 23 1.00
ACGTcount: A:0.60, C:0.05, G:0.12, T:0.23
Consensus pattern (14 bp):
TGAAAATAAATGAA
Found at i:25621 original size:14 final size:14
Alignment explanation
Indices: 25604--25630 Score: 54
Period size: 14 Copynumber: 1.9 Consensus size: 14
25594 AACAATCGTA
25604 AATGAACATAAACG
1 AATGAACATAAACG
25618 AATGAACATAAAC
1 AATGAACATAAAC
25631 AAACACAAAC
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 13 1.00
ACGTcount: A:0.59, C:0.15, G:0.11, T:0.15
Consensus pattern (14 bp):
AATGAACATAAACG
Found at i:25645 original size:34 final size:33
Alignment explanation
Indices: 25571--25649 Score: 95
Period size: 34 Copynumber: 2.4 Consensus size: 33
25561 AATATAAATG
* **
25571 AACGAACATAAACAAATAAAATAAACAATCGTA
1 AACGAACATAAACAAATAAAATAAACAAACACA
* * *
25604 AATGAACATAAACGAATGAACATAAACAAACACA
1 AACGAACATAAACAAAT-AAAATAAACAAACACA
25638 AACGAACATAAA
1 AACGAACATAAA
25650 TGAAAATAAT
Statistics
Matches: 38, Mismatches: 7, Indels: 1
0.83 0.15 0.02
Matches are distributed among these distances:
33 15 0.39
34 23 0.61
ACGTcount: A:0.63, C:0.16, G:0.08, T:0.13
Consensus pattern (33 bp):
AACGAACATAAACAAATAAAATAAACAAACACA
Found at i:31252 original size:21 final size:20
Alignment explanation
Indices: 31225--31323 Score: 81
Period size: 21 Copynumber: 4.8 Consensus size: 20
31215 AATTAGTTTC
31225 CAAAATCGCAACGCGATTCTT
1 CAAAATCGCAACGCGATT-TT
* * * *
31246 GAAAATCGCAATGCGATAGTA
1 CAAAATCGCAACGCGAT-TTT
* **
31267 CAAATTCGCATTGCGATTTT
1 CAAAATCGCAACGCGATTTT
* *
31287 CCAAAATCGCAACGCGAATAT
1 -CAAAATCGCAACGCGATTTT
*
31308 GAAAATCGCAACGCGA
1 CAAAATCGCAACGCGA
31324 ACACATAAAT
Statistics
Matches: 61, Mismatches: 15, Indels: 5
0.75 0.19 0.06
Matches are distributed among these distances:
20 16 0.26
21 45 0.74
ACGTcount: A:0.37, C:0.23, G:0.18, T:0.21
Consensus pattern (20 bp):
CAAAATCGCAACGCGATTTT
Found at i:31339 original size:40 final size:40
Alignment explanation
Indices: 31290--31444 Score: 186
Period size: 40 Copynumber: 3.9 Consensus size: 40
31280 CGATTTTCCA
* ** *
31290 AAATCGCAACGCGAATATGAAAATCGCAACGCGAACACAT
1 AAATCGCAACGCGTATCCGTAAATCGCAACGCGAACACAT
* * *
31330 AAATCGCAACGCGTATCCGTAAATCGCAACGTGTATC-CGT
1 AAATCGCAACGCGTATCCGTAAATCGCAACGCG-AACACAT
* ** *
31370 ATATCGCAACGCGTATCCGTAAATCGCAACGATAATACAT
1 AAATCGCAACGCGTATCCGTAAATCGCAACGCGAACACAT
31410 AAAATCGCAACGCGTATCCGTAAATCGCAACGCGA
1 -AAATCGCAACGCGTATCCGTAAATCGCAACGCGA
31445 TATTTAAAGC
Statistics
Matches: 96, Mismatches: 16, Indels: 5
0.82 0.14 0.04
Matches are distributed among these distances:
39 1 0.01
40 62 0.65
41 33 0.34
ACGTcount: A:0.37, C:0.26, G:0.18, T:0.18
Consensus pattern (40 bp):
AAATCGCAACGCGTATCCGTAAATCGCAACGCGAACACAT
Found at i:31352 original size:20 final size:20
Alignment explanation
Indices: 31290--31443 Score: 168
Period size: 20 Copynumber: 7.7 Consensus size: 20
31280 CGATTTTCCA
* ** *
31290 AAATCGCAACGCGAATATGA
1 AAATCGCAACGCGTATCCGT
* *
31310 AAATCGCAACGCG-AACACAT
1 AAATCGCAACGCGTATC-CGT
31330 AAATCGCAACGCGTATCCGT
1 AAATCGCAACGCGTATCCGT
*
31350 AAATCGCAACGTGTATCCGT
1 AAATCGCAACGCGTATCCGT
*
31370 ATATCGCAACGCGTATCCGT
1 AAATCGCAACGCGTATCCGT
* * *
31390 AAATCGCAACG-ATAATACAT
1 AAATCGCAACGCGT-ATCCGT
31410 AAAATCGCAACGCGTATCCGT
1 -AAATCGCAACGCGTATCCGT
31431 AAATCGCAACGCG
1 AAATCGCAACGCG
31444 ATATTTAAAG
Statistics
Matches: 112, Mismatches: 17, Indels: 10
0.81 0.12 0.07
Matches are distributed among these distances:
19 2 0.02
20 92 0.82
21 17 0.15
22 1 0.01
ACGTcount: A:0.37, C:0.27, G:0.18, T:0.18
Consensus pattern (20 bp):
AAATCGCAACGCGTATCCGT
Found at i:31865 original size:33 final size:33
Alignment explanation
Indices: 31826--31895 Score: 113
Period size: 33 Copynumber: 2.1 Consensus size: 33
31816 TTCACTTAGA
*
31826 TTCATTTCGCGTTACGATTCTGTCGTTGCGATT
1 TTCATTTCGCGTTACGATTCTCTCGTTGCGATT
* *
31859 TTCATTTCGCGTTGCTATTCTCTCGTTGCGATT
1 TTCATTTCGCGTTACGATTCTCTCGTTGCGATT
31892 TTCA
1 TTCA
31896 AGTTAGTATT
Statistics
Matches: 34, Mismatches: 3, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
33 34 1.00
ACGTcount: A:0.11, C:0.23, G:0.19, T:0.47
Consensus pattern (33 bp):
TTCATTTCGCGTTACGATTCTCTCGTTGCGATT
Found at i:32019 original size:20 final size:20
Alignment explanation
Indices: 31975--32084 Score: 99
Period size: 21 Copynumber: 5.8 Consensus size: 20
31965 TGCAGAAGAG
*
31975 TCGCAACGAGATAAATGAAAA
1 TCGCAACGAGA-GAATGAAAA
***
31996 TCGCAACGAGAGAATGACTG
1 TCGCAACGAGAGAATGAAAA
*
32016 TCGCAACTAGAGAAATGAAAA
1 TCGCAACGAGAG-AATGAAAA
32037 TCGCAAC--GAG-A-G--AA
1 TCGCAACGAGAGAATGAAAA
*
32051 TCGCAACGCGA-AATGAAAA
1 TCGCAACGAGAGAATGAAAA
32070 TCGCAACGAGAGAAT
1 TCGCAACGAGAGAAT
32085 CGCAACGCGA
Statistics
Matches: 72, Mismatches: 9, Indels: 17
0.73 0.09 0.17
Matches are distributed among these distances:
14 9 0.12
16 4 0.06
17 2 0.03
19 15 0.21
20 19 0.26
21 23 0.32
ACGTcount: A:0.45, C:0.18, G:0.24, T:0.13
Consensus pattern (20 bp):
TCGCAACGAGAGAATGAAAA
Found at i:32032 original size:41 final size:37
Alignment explanation
Indices: 31968--32084 Score: 134
Period size: 41 Copynumber: 3.1 Consensus size: 37
31958 TTCAATTTGC
* *
31968 AGAAGAGTCGCAACGAGATAAATGAAAATCGCAACGAG
1 AGAATAGTCGCAAC-AGAGAAATGAAAATCGCAACGAG
32006 AGAATGACTGTCGCAACTAGAGAAATGAAAATCGCAACGAG
1 AGAAT-A--GTCGCAAC-AGAGAAATGAAAATCGCAACGAG
*
32047 AG-A-A-TCGCAAC-GCGAAATGAAAATCGCAACGAG
1 AGAATAGTCGCAACAGAGAAATGAAAATCGCAACGAG
32080 AGAAT
1 AGAAT
32085 CGCAACGCGA
Statistics
Matches: 70, Mismatches: 4, Indels: 13
0.80 0.05 0.15
Matches are distributed among these distances:
33 23 0.33
34 1 0.01
35 7 0.10
38 5 0.07
39 1 0.01
40 1 0.01
41 32 0.46
ACGTcount: A:0.46, C:0.17, G:0.25, T:0.12
Consensus pattern (37 bp):
AGAATAGTCGCAACAGAGAAATGAAAATCGCAACGAG
Found at i:32054 original size:14 final size:14
Alignment explanation
Indices: 32035--32091 Score: 60
Period size: 14 Copynumber: 3.7 Consensus size: 14
32025 GAGAAATGAA
32035 AATCGCAACGAGAG
1 AATCGCAACGAGAG
*
32049 AATCGCAACGCGAAATGAA
1 AATCGCAA--CG--A-GAG
32068 AATCGCAACGAGAG
1 AATCGCAACGAGAG
32082 AATCGCAACG
1 AATCGCAACG
32092 CGAAACCAAA
Statistics
Matches: 36, Mismatches: 2, Indels: 10
0.75 0.04 0.21
Matches are distributed among these distances:
14 20 0.56
15 1 0.03
16 2 0.06
17 2 0.06
18 1 0.03
19 10 0.28
ACGTcount: A:0.44, C:0.23, G:0.25, T:0.09
Consensus pattern (14 bp):
AATCGCAACGAGAG
Found at i:32066 original size:33 final size:33
Alignment explanation
Indices: 32027--32107 Score: 144
Period size: 33 Copynumber: 2.5 Consensus size: 33
32017 CGCAACTAGA
32027 GAAATGAAAATCGCAACGAGAGAATCGCAACGC
1 GAAATGAAAATCGCAACGAGAGAATCGCAACGC
32060 GAAATGAAAATCGCAACGAGAGAATCGCAACGC
1 GAAATGAAAATCGCAACGAGAGAATCGCAACGC
**
32093 GAAACCAAAATCGCA
1 GAAATGAAAATCGCA
32108 TTGCGATTTT
Statistics
Matches: 46, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
33 46 1.00
ACGTcount: A:0.47, C:0.22, G:0.22, T:0.09
Consensus pattern (33 bp):
GAAATGAAAATCGCAACGAGAGAATCGCAACGC
Found at i:32125 original size:19 final size:19
Alignment explanation
Indices: 32103--32200 Score: 81
Period size: 19 Copynumber: 5.7 Consensus size: 19
32093 GAAACCAAAA
*
32103 TCGCATTGCGATTTTCATT
1 TCGCGTTGCGATTTTCATT
32122 TCGCGTTGCGA--TTC---
1 TCGCGTTGCGATTTTCATT
*
32136 TCTCGTTGCGATTTTCATT
1 TCGCGTTGCGATTTTCATT
32155 TCGCGTTGCGA--TTC---
1 TCGCGTTGCGATTTTCATT
**
32169 TCTAGTTGCGATTTTCATT
1 TCGCGTTGCGATTTTCATT
*
32188 TTGCGTTGCGATT
1 TCGCGTTGCGATT
32201 CTCTCGTTGC
Statistics
Matches: 61, Mismatches: 8, Indels: 20
0.69 0.09 0.22
Matches are distributed among these distances:
14 19 0.31
16 6 0.10
17 6 0.10
19 30 0.49
ACGTcount: A:0.11, C:0.21, G:0.21, T:0.46
Consensus pattern (19 bp):
TCGCGTTGCGATTTTCATT
Found at i:32144 original size:14 final size:14
Alignment explanation
Indices: 32125--32214 Score: 63
Period size: 14 Copynumber: 5.7 Consensus size: 14
32115 TTTCATTTCG
32125 CGTTGCGATTCTCT
1 CGTTGCGATTCTCT
*
32139 CGTTGCGATTTTCATTTCG
1 CGTTGCGA--TTC---TCT
32158 CGTTGCGATTCTCT
1 CGTTGCGATTCTCT
* *
32172 AGTTGCGATTTTCATTTT
1 CGTTGCGA--TTC--TCT
32190 GCGTTGCGATTCTCT
1 -CGTTGCGATTCTCT
32205 CGTTGCGATT
1 CGTTGCGATT
32215 TTCATTTCAA
Statistics
Matches: 60, Mismatches: 6, Indels: 20
0.70 0.07 0.23
Matches are distributed among these distances:
14 27 0.45
15 2 0.03
16 6 0.10
17 6 0.10
18 2 0.03
19 17 0.28
ACGTcount: A:0.10, C:0.22, G:0.22, T:0.46
Consensus pattern (14 bp):
CGTTGCGATTCTCT
Found at i:32150 original size:33 final size:33
Alignment explanation
Indices: 32108--32222 Score: 212
Period size: 33 Copynumber: 3.5 Consensus size: 33
32098 CAAAATCGCA
32108 TTGCGATTTTCATTTCGCGTTGCGATTCTCTCG
1 TTGCGATTTTCATTTCGCGTTGCGATTCTCTCG
*
32141 TTGCGATTTTCATTTCGCGTTGCGATTCTCTAG
1 TTGCGATTTTCATTTCGCGTTGCGATTCTCTCG
*
32174 TTGCGATTTTCATTTTGCGTTGCGATTCTCTCG
1 TTGCGATTTTCATTTCGCGTTGCGATTCTCTCG
32207 TTGCGATTTTCATTTC
1 TTGCGATTTTCATTTC
32223 AACCAAAAGA
Statistics
Matches: 78, Mismatches: 4, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
33 78 1.00
ACGTcount: A:0.10, C:0.22, G:0.20, T:0.48
Consensus pattern (33 bp):
TTGCGATTTTCATTTCGCGTTGCGATTCTCTCG
Found at i:34078 original size:93 final size:93
Alignment explanation
Indices: 33919--34573 Score: 1285
Period size: 93 Copynumber: 7.1 Consensus size: 93
33909 TAGATTGCTT
*
33919 AGTAAATTTATTCGGTTGCTGCCAATTCTGCTAAACTGTGTATTCTTTAACACTGTGAAATAGTA
1 AGTAAATTTGTTCGGTTGCTGCCAATTCTGCTAAACTGTGTATTCTTTAACACTGTGAAATAGTA
33984 TTTGTCTTTGTTTTGTCTTTTGGTTGAA
66 TTTGTCTTTGTTTTGTCTTTTGGTTGAA
34012 AGTAAATTTGTTCGGTTGCTGCCAATTCTGCTAAACTGTGTATTCTTTAACACTGTGAAATAGTA
1 AGTAAATTTGTTCGGTTGCTGCCAATTCTGCTAAACTGTGTATTCTTTAACACTGTGAAATAGTA
34077 TTTGTCTTTGTTTTGTCTTTTGGTTGAA
66 TTTGTCTTTGTTTTGTCTTTTGGTTGAA
34105 AGTAAATTTGTTCGGTTGCTGCCAATTCTGCTAAACTGTGTATTCTTTAACACTGTGAAATAGTA
1 AGTAAATTTGTTCGGTTGCTGCCAATTCTGCTAAACTGTGTATTCTTTAACACTGTGAAATAGTA
34170 TTTGTCTTTGTTTTGTCTTTTGGTTGAA
66 TTTGTCTTTGTTTTGTCTTTTGGTTGAA
34198 AGTAAATTTGTTCGGTTGCTGCCAATTCTGCTAAACTGTGTATTCTTTAACACTGTGAAATAGTA
1 AGTAAATTTGTTCGGTTGCTGCCAATTCTGCTAAACTGTGTATTCTTTAACACTGTGAAATAGTA
34263 TTTGTCTTTGTTTTGTCTTTTGGTTGAA
66 TTTGTCTTTGTTTTGTCTTTTGGTTGAA
34291 AGTAAATTTGTTCGGTTGCTGCCAATTCTGCTAAACTGTGTATTCTTTAACACTGTGAAATAGTA
1 AGTAAATTTGTTCGGTTGCTGCCAATTCTGCTAAACTGTGTATTCTTTAACACTGTGAAATAGTA
34356 TTTGTCTTTGTTTTGTCTTTTGGTTGAA
66 TTTGTCTTTGTTTTGTCTTTTGGTTGAA
34384 AGTAAATTTGTTCGGTTGCTGCCAATTCTGCTAAACTGTGTATTCTTTAACACTGTGAAATAGTA
1 AGTAAATTTGTTCGGTTGCTGCCAATTCTGCTAAACTGTGTATTCTTTAACACTGTGAAATAGTA
34449 TTTGTCTTTGTTTTGTCTTTTGGTTGAA
66 TTTGTCTTTGTTTTGTCTTTTGGTTGAA
*
34477 AGTAAATTTGTTCGGTTCCTGCCAATTCTGCTAAACTGTGTATTCTTTAACACTGTGAAATAGTA
1 AGTAAATTTGTTCGGTTGCTGCCAATTCTGCTAAACTGTGTATTCTTTAACACTGTGAAATAGTA
34542 TTTGTCTTTGTTTTGTCTTTTGGTTG-A
66 TTTGTCTTTGTTTTGTCTTTTGGTTGAA
34569 AGTAA
1 AGTAA
34574 TGCAATCCAT
Statistics
Matches: 560, Mismatches: 2, Indels: 1
0.99 0.00 0.00
Matches are distributed among these distances:
92 6 0.01
93 554 0.99
ACGTcount: A:0.22, C:0.13, G:0.19, T:0.46
Consensus pattern (93 bp):
AGTAAATTTGTTCGGTTGCTGCCAATTCTGCTAAACTGTGTATTCTTTAACACTGTGAAATAGTA
TTTGTCTTTGTTTTGTCTTTTGGTTGAA
Found at i:34661 original size:19 final size:19
Alignment explanation
Indices: 34621--34749 Score: 125
Period size: 19 Copynumber: 7.3 Consensus size: 19
34611 TAGTTTACTT
* *
34621 TCGCAACACGAAACTTAAAA
1 TCGCAACGCGAAAC-CAAAA
34641 TCGCAACGCGAAACCAAAA
1 TCGCAACGCGAAACCAAAA
**
34660 TCGCAACGCGAAATGAAAA
1 TCGCAACGCGAAACCAAAA
*
34679 TCGCAA--CG--A-CAGAA
1 TCGCAACGCGAAACCAAAA
34693 TCGCAACGCGAAACCAAAA
1 TCGCAACGCGAAACCAAAA
*
34712 TCGCAA--CG--A-CAAGA
1 TCGCAACGCGAAACCAAAA
34726 TCGCAACGCGAAACCAAAA
1 TCGCAACGCGAAACCAAAA
34745 TCGCA
1 TCGCA
34750 TTGCGATTTT
Statistics
Matches: 90, Mismatches: 9, Indels: 21
0.75 0.08 0.17
Matches are distributed among these distances:
14 19 0.21
15 2 0.02
16 4 0.04
17 4 0.04
18 2 0.02
19 46 0.51
20 13 0.14
ACGTcount: A:0.46, C:0.29, G:0.17, T:0.09
Consensus pattern (19 bp):
TCGCAACGCGAAACCAAAA
Found at i:34700 original size:33 final size:32
Alignment explanation
Indices: 34657--34749 Score: 150
Period size: 33 Copynumber: 2.8 Consensus size: 32
34647 CGCGAAACCA
**
34657 AAATCGCAACGCGAAATGAAAATCGCAACGAC
1 AAATCGCAACGCGAAACCAAAATCGCAACGAC
34689 AGAATCGCAACGCGAAACCAAAATCGCAACGAC
1 A-AATCGCAACGCGAAACCAAAATCGCAACGAC
34722 AAGATCGCAACGCGAAACCAAAATCGCA
1 AA-ATCGCAACGCGAAACCAAAATCGCA
34750 TTGCGATTTT
Statistics
Matches: 57, Mismatches: 2, Indels: 3
0.92 0.03 0.05
Matches are distributed among these distances:
32 2 0.04
33 55 0.96
ACGTcount: A:0.46, C:0.28, G:0.18, T:0.08
Consensus pattern (32 bp):
AAATCGCAACGCGAAACCAAAATCGCAACGAC
Found at i:34747 original size:52 final size:52
Alignment explanation
Indices: 34621--34749 Score: 140
Period size: 52 Copynumber: 2.5 Consensus size: 52
34611 TAGTTTACTT
**
34621 TCGCAACACGAAACTTAAAATCGCAACGCGAAACCAAAATCGCAACGCGAAA
1 TCGCAACACGAAACACAAAATCGCAACGCGAAACCAAAATCGCAACGCGAAA
* * *
34673 T-G-AAAATCGCAACGACAGAATCGCAACGCGAAACCAAAATCGCAACGAC-AAGA
1 TCGCAACA-CGAAAC-ACAAAATCGCAACGCGAAACCAAAATCGCAACG-CGAA-A
*
34726 TCGCAACGCGAAAC-CAAAATCGCA
1 TCGCAACACGAAACACAAAATCGCA
34750 TTGCGATTTT
Statistics
Matches: 62, Mismatches: 9, Indels: 12
0.75 0.11 0.14
Matches are distributed among these distances:
50 3 0.05
51 6 0.10
52 42 0.68
53 3 0.05
54 6 0.10
55 2 0.03
ACGTcount: A:0.46, C:0.29, G:0.17, T:0.09
Consensus pattern (52 bp):
TCGCAACACGAAACACAAAATCGCAACGCGAAACCAAAATCGCAACGCGAAA
Found at i:34767 original size:19 final size:19
Alignment explanation
Indices: 34745--34879 Score: 128
Period size: 19 Copynumber: 7.6 Consensus size: 19
34735 GAAACCAAAA
*
34745 TCGCATTGCGATTTTCATT
1 TCGCGTTGCGATTTTCATT
34764 TCGCGTTGCGA--TTC-TT
1 TCGCGTTGCGATTTTCATT
34780 T--CGTTGCGATTTTCATT
1 TCGCGTTGCGATTTTCATT
* *
34797 TCGCATTGCGA--TTC-TG
1 TCGCGTTGCGATTTTCATT
34813 T--CGTTGCGATTTTCATT
1 TCGCGTTGCGATTTTCATT
**
34830 TCGCGTTGCGATTTTGGTT
1 TCGCGTTGCGATTTTCATT
*
34849 TCGCGTTGCGATTTTAAGTT
1 TCGCGTTGCGATTTTCA-TT
*
34869 TCGTGTTGCGA
1 TCGCGTTGCGA
34880 AAGTAAACTA
Statistics
Matches: 95, Mismatches: 10, Indels: 21
0.75 0.08 0.17
Matches are distributed among these distances:
14 15 0.16
16 11 0.12
17 11 0.12
19 46 0.48
20 12 0.13
ACGTcount: A:0.11, C:0.19, G:0.24, T:0.46
Consensus pattern (19 bp):
TCGCGTTGCGATTTTCATT
Found at i:34786 original size:14 final size:14
Alignment explanation
Indices: 34767--34823 Score: 60
Period size: 14 Copynumber: 3.7 Consensus size: 14
34757 TTTCATTTCG
34767 CGTTGCGATTCTTT
1 CGTTGCGATTCTTT
34781 CGTTGCGATTTTCATTT
1 CGTTGCGA--TTC-TTT
*
34798 CGCATTGCGATTCTGT
1 CG--TTGCGATTCTTT
34814 CGTTGCGATT
1 CGTTGCGATT
34824 TTCATTTCGC
Statistics
Matches: 37, Mismatches: 1, Indels: 10
0.77 0.02 0.21
Matches are distributed among these distances:
14 16 0.43
16 7 0.19
17 8 0.22
19 6 0.16
ACGTcount: A:0.11, C:0.21, G:0.23, T:0.46
Consensus pattern (14 bp):
CGTTGCGATTCTTT
Found at i:34792 original size:33 final size:33
Alignment explanation
Indices: 34750--34842 Score: 168
Period size: 33 Copynumber: 2.8 Consensus size: 33
34740 CAAAATCGCA
*
34750 TTGCGATTTTCATTTCGCGTTGCGATTCTTTCG
1 TTGCGATTTTCATTTCGCGTTGCGATTCTGTCG
*
34783 TTGCGATTTTCATTTCGCATTGCGATTCTGTCG
1 TTGCGATTTTCATTTCGCGTTGCGATTCTGTCG
34816 TTGCGATTTTCATTTCGCGTTGCGATT
1 TTGCGATTTTCATTTCGCGTTGCGATT
34843 TTGGTTTCGC
Statistics
Matches: 57, Mismatches: 3, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
33 57 1.00
ACGTcount: A:0.11, C:0.20, G:0.22, T:0.47
Consensus pattern (33 bp):
TTGCGATTTTCATTTCGCGTTGCGATTCTGTCG
Found at i:36823 original size:13 final size:14
Alignment explanation
Indices: 36798--36832 Score: 54
Period size: 13 Copynumber: 2.6 Consensus size: 14
36788 ATTGTTTAAT
36798 TGATTTGTAAAAGA
1 TGATTTGTAAAAGA
*
36812 TGATTTGT-AAAGT
1 TGATTTGTAAAAGA
36825 TGATTTGT
1 TGATTTGT
36833 GTAATTGATG
Statistics
Matches: 20, Mismatches: 1, Indels: 1
0.91 0.05 0.05
Matches are distributed among these distances:
13 12 0.60
14 8 0.40
ACGTcount: A:0.31, C:0.00, G:0.23, T:0.46
Consensus pattern (14 bp):
TGATTTGTAAAAGA
Found at i:36963 original size:19 final size:19
Alignment explanation
Indices: 36939--37036 Score: 134
Period size: 19 Copynumber: 5.4 Consensus size: 19
36929 AAAATTGACT
36939 ATCGCAATGCGAAATGAAA
1 ATCGCAATGCGAAATGAAA
*
36958 ATCGCAATACGAAATGAAA
1 ATCGCAATGCGAAATGAAA
*
36977 ATCGCAA--CG--A-GAGA
1 ATCGCAATGCGAAATGAAA
36991 ATCGCAATGCGAAATGAAA
1 ATCGCAATGCGAAATGAAA
37010 ATCGCAATGCGGAAATGAAA
1 ATCGCAATGC-GAAATGAAA
37030 ATCGCAA
1 ATCGCAA
37037 CGGGAGAATC
Statistics
Matches: 70, Mismatches: 3, Indels: 11
0.83 0.04 0.13
Matches are distributed among these distances:
14 10 0.14
15 1 0.01
16 2 0.03
17 2 0.03
18 1 0.01
19 38 0.54
20 16 0.23
ACGTcount: A:0.47, C:0.17, G:0.21, T:0.14
Consensus pattern (19 bp):
ATCGCAATGCGAAATGAAA
Found at i:37068 original size:53 final size:53
Alignment explanation
Indices: 36939--37055 Score: 209
Period size: 53 Copynumber: 2.2 Consensus size: 53
36929 AAAATTGACT
*
36939 ATCGCAATGCGAAATGAAAATCGCAATAC-GAAATGAAAATCGCAACGAGAGA
1 ATCGCAATGCGAAATGAAAATCGCAATGCGGAAATGAAAATCGCAACGAGAGA
*
36991 ATCGCAATGCGAAATGAAAATCGCAATGCGGAAATGAAAATCGCAACGGGAGA
1 ATCGCAATGCGAAATGAAAATCGCAATGCGGAAATGAAAATCGCAACGAGAGA
37044 ATCGCAATGCGA
1 ATCGCAATGCGA
37056 TTTTAATTTC
Statistics
Matches: 62, Mismatches: 2, Indels: 1
0.95 0.03 0.02
Matches are distributed among these distances:
52 28 0.45
53 34 0.55
ACGTcount: A:0.44, C:0.18, G:0.24, T:0.14
Consensus pattern (53 bp):
ATCGCAATGCGAAATGAAAATCGCAATGCGGAAATGAAAATCGCAACGAGAGA
Found at i:37142 original size:20 final size:19
Alignment explanation
Indices: 37045--37181 Score: 159
Period size: 19 Copynumber: 7.7 Consensus size: 19
37035 AACGGGAGAA
* *
37045 TCGCAATGCGATTTTAATT
1 TCGCATTGCGATTTTCATT
*
37064 TCGCATTGCGA--TTC-TC
1 TCGCATTGCGATTTTCATT
37080 TCG--TTGCGATTTTCATT
1 TCGCATTGCGATTTTCATT
37097 TCGCATTGCGATTTTCATT
1 TCGCATTGCGATTTTCATT
37116 TCGCATTGCGATTTTCATT
1 TCGCATTGCGATTTTCATT
37135 TCCGCATTGCGATTTTCA--
1 T-CGCATTGCGATTTTCATT
*
37153 T-G--TTGGGATTTTCATT
1 TCGCATTGCGATTTTCATT
37169 TCGCATTGCGATT
1 TCGCATTGCGATT
37182 CTCTCGTTGC
Statistics
Matches: 101, Mismatches: 6, Indels: 22
0.78 0.05 0.17
Matches are distributed among these distances:
14 17 0.17
16 9 0.09
17 7 0.07
18 1 0.01
19 51 0.50
20 16 0.16
ACGTcount: A:0.16, C:0.20, G:0.18, T:0.45
Consensus pattern (19 bp):
TCGCATTGCGATTTTCATT
Found at i:37165 original size:72 final size:71
Alignment explanation
Indices: 37045--37181 Score: 213
Period size: 72 Copynumber: 1.9 Consensus size: 71
37035 AACGGGAGAA
37045 TCGCAATGCGATTTTAATTTCGCATTGCGATTCTCTCGTTGCGATTTTCATTTCGCATTGCGATT
1 TCGCAATGCGATTTTAATTTCGCATTGCGATTCTCTCGTTGCGATTTTCATTTCGCATTGCGATT
37110 TTCATT
66 TTCATT
* * * *
37116 TCGCATTGCGATTTTCATTTCCGCATTGCGATTTTCAT-GTTGGGATTTTCATTTCGCATTGCGA
1 TCGCAATGCGATTTTAATTT-CGCATTGCGATTCTC-TCGTTGCGATTTTCATTTCGCATTGCGA
37180 TT
64 TT
37182 CTCTCGTTGC
Statistics
Matches: 60, Mismatches: 4, Indels: 3
0.90 0.06 0.04
Matches are distributed among these distances:
71 18 0.30
72 41 0.68
73 1 0.02
ACGTcount: A:0.16, C:0.20, G:0.18, T:0.45
Consensus pattern (71 bp):
TCGCAATGCGATTTTAATTTCGCATTGCGATTCTCTCGTTGCGATTTTCATTTCGCATTGCGATT
TTCATT
Found at i:37203 original size:33 final size:33
Alignment explanation
Indices: 37051--37195 Score: 184
Period size: 33 Copynumber: 4.2 Consensus size: 33
37041 AGAATCGCAA
*
37051 TGCGATTTTAATTTCGCATTGCGATTCTCTCGT
1 TGCGATTTTCATTTCGCATTGCGATTCTCTCGT
*
37084 TGCGATTTTCATTTCGCATTGCGATTTTCATTTCGCAT
1 TGCGATTTTCATTTCGCATTGCGA--TTC-TCTCG--T
*
37122 TGCGATTTTCATTTCCGCATTGCGATTTTCAT-GT
1 TGCGATTTTCATTT-CGCATTGCGATTCTC-TCGT
*
37156 TGGGATTTTCATTTCGCATTGCGATTCTCTCGT
1 TGCGATTTTCATTTCGCATTGCGATTCTCTCGT
37189 TGCGATT
1 TGCGATT
37196 GTAATTTCCG
Statistics
Matches: 97, Mismatches: 7, Indels: 16
0.81 0.06 0.13
Matches are distributed among these distances:
32 1 0.01
33 45 0.46
34 14 0.14
35 3 0.03
36 6 0.06
37 3 0.03
38 15 0.15
39 10 0.10
ACGTcount: A:0.14, C:0.21, G:0.19, T:0.46
Consensus pattern (33 bp):
TGCGATTTTCATTTCGCATTGCGATTCTCTCGT
Found at i:39444 original size:12 final size:12
Alignment explanation
Indices: 39427--39451 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
39417 TCTTCGGGGA
39427 CTTTTTCTTCTT
1 CTTTTTCTTCTT
39439 CTTTTTCTTCTT
1 CTTTTTCTTCTT
39451 C
1 C
39452 AGGATTATAT
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:0.00, C:0.28, G:0.00, T:0.72
Consensus pattern (12 bp):
CTTTTTCTTCTT
Found at i:39660 original size:24 final size:24
Alignment explanation
Indices: 39626--39672 Score: 69
Period size: 24 Copynumber: 2.0 Consensus size: 24
39616 CTGAAACATC
39626 ATCAAAATCCGTG-TATTGACCAAT
1 ATCAAAATCCG-GATATTGACCAAT
*
39650 ATCAAAGTCCGGATATTGACCAA
1 ATCAAAATCCGGATATTGACCAA
39673 GACCAAATTT
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
23 1 0.05
24 20 0.95
ACGTcount: A:0.38, C:0.21, G:0.15, T:0.26
Consensus pattern (24 bp):
ATCAAAATCCGGATATTGACCAAT
Found at i:40381 original size:20 final size:20
Alignment explanation
Indices: 40353--40622 Score: 290
Period size: 20 Copynumber: 13.5 Consensus size: 20
40343 AAATTTCAGT
* * *
40353 GTTGTGATTTACAGATTCTC
1 GTTGCGATTTACGGATTCGC
**
40373 GTTGCGATTTACGGATTATC
1 GTTGCGATTTACGGATTCGC
* *
40393 GTTGCGATTTACAGATTCTC
1 GTTGCGATTTACGGATTCGC
**
40413 GTTGCGATTTACGGATTATC
1 GTTGCGATTTACGGATTCGC
* *
40433 GTTGCGATTTACAGATTCTC
1 GTTGCGATTTACGGATTCGC
**
40453 GTTGCGATTTACGGATTATC
1 GTTGCGATTTACGGATTCGC
*
40473 GTTGCGATTTACGGATACGC
1 GTTGCGATTTACGGATTCGC
* *
40493 GTTGCGATATACGGATACGC
1 GTTGCGATTTACGGATTCGC
* *
40513 ATTGCGATTTACGGATACGC
1 GTTGCGATTTACGGATTCGC
* * *
40533 GTTGCGATATACGGATACAC
1 GTTGCGATTTACGGATTCGC
*
40553 GTTGCGATTTACGGATACGC
1 GTTGCGATTTACGGATTCGC
*
40573 GTTGCGATTTATGTG-TTCGC
1 GTTGCGATTTACG-GATTCGC
* **
40593 GTTGCGATTTTCATATTCGC
1 GTTGCGATTTACGGATTCGC
40613 GTTGCGATTT
1 GTTGCGATTT
40623 TTGAAAATCG
Statistics
Matches: 220, Mismatches: 28, Indels: 4
0.87 0.11 0.02
Matches are distributed among these distances:
20 219 1.00
21 1 0.00
ACGTcount: A:0.20, C:0.18, G:0.25, T:0.37
Consensus pattern (20 bp):
GTTGCGATTTACGGATTCGC
Found at i:40633 original size:21 final size:20
Alignment explanation
Indices: 40589--40687 Score: 81
Period size: 21 Copynumber: 4.8 Consensus size: 20
40579 ATTTATGTGT
* * *
40589 TCGCGTTGCGATTTTCATAT
1 TCGCGTTGCGATTTTGAAAA
40609 TCGCGTTGCGATTTTTGAAAA
1 TCGCGTTGCGA-TTTTGAAAA
** * **
40630 TCGCAATGCGAATTTGTACTA
1 TCGCGTTGCGATTTTG-AAAA
* *
40651 TCGCATTGCGATTTTCAAGAA
1 TCGCGTTGCGATTTTGAA-AA
40672 TCGCGTTGCGATTTTG
1 TCGCGTTGCGATTTTG
40688 GAAACTGATT
Statistics
Matches: 61, Mismatches: 15, Indels: 5
0.75 0.19 0.06
Matches are distributed among these distances:
20 16 0.26
21 45 0.74
ACGTcount: A:0.21, C:0.18, G:0.22, T:0.38
Consensus pattern (20 bp):
TCGCGTTGCGATTTTGAAAA
Found at i:40682 original size:42 final size:43
Alignment explanation
Indices: 40589--40687 Score: 100
Period size: 42 Copynumber: 2.4 Consensus size: 43
40579 ATTTATGTGT
* *
40589 TCGCGTTGCG-ATTT-TCATATTCGCGTTGCGATTTTTGAAAA
1 TCGCGTTGCGAATTTGTCATATTCGCATTGCGATTTTTCAAAA
**
40630 TCGCAATGCGAATTTGT-ACTA-TCGCATTGCGA-TTTTCAAGAA
1 TCGCGTTGCGAATTTGTCA-TATTCGCATTGCGATTTTTCAA-AA
*
40672 TCGCGTTGCGATTTTG
1 TCGCGTTGCGAATTTG
40688 GAAACTGATT
Statistics
Matches: 47, Mismatches: 7, Indels: 7
0.77 0.11 0.11
Matches are distributed among these distances:
41 14 0.30
42 30 0.64
43 3 0.06
ACGTcount: A:0.21, C:0.18, G:0.22, T:0.38
Consensus pattern (43 bp):
TCGCGTTGCGAATTTGTCATATTCGCATTGCGATTTTTCAAAA
Found at i:41750 original size:8 final size:8
Alignment explanation
Indices: 41733--41771 Score: 71
Period size: 8 Copynumber: 5.0 Consensus size: 8
41723 AAGCGCGTTG
41733 CTTT-TTT
1 CTTTATTT
41740 CTTTATTT
1 CTTTATTT
41748 CTTTATTT
1 CTTTATTT
41756 CTTTATTT
1 CTTTATTT
41764 CTTTATTT
1 CTTTATTT
41772 TCCATGATTT
Statistics
Matches: 31, Mismatches: 0, Indels: 1
0.97 0.00 0.03
Matches are distributed among these distances:
7 4 0.13
8 27 0.87
ACGTcount: A:0.10, C:0.13, G:0.00, T:0.77
Consensus pattern (8 bp):
CTTTATTT
Found at i:51936 original size:31 final size:30
Alignment explanation
Indices: 51901--51977 Score: 82
Period size: 31 Copynumber: 2.5 Consensus size: 30
51891 TCAAAATACA
51901 TAAGATGTGATCACCTTCGTTCTTATTTAAT
1 TAAGATGTGATCACCTTCGTT-TTATTTAAT
** * * *
51932 TAAGATGTTCTCACTTTTGGTTTTATTTATT
1 TAAGATGTGATCAC-CTTCGTTTTATTTAAT
*
51963 TAAGATGTGGTCACC
1 TAAGATGTGATCACC
51978 ACACGTTAAC
Statistics
Matches: 37, Mismatches: 8, Indels: 3
0.77 0.17 0.06
Matches are distributed among these distances:
31 32 0.86
32 5 0.14
ACGTcount: A:0.23, C:0.14, G:0.16, T:0.47
Consensus pattern (30 bp):
TAAGATGTGATCACCTTCGTTTTATTTAAT
Found at i:53798 original size:19 final size:19
Alignment explanation
Indices: 53770--53807 Score: 67
Period size: 19 Copynumber: 2.0 Consensus size: 19
53760 ACAACATTTT
53770 CATAGTAATGCTACATTCC
1 CATAGTAATGCTACATTCC
*
53789 CATAGTAATGTTACATTCC
1 CATAGTAATGCTACATTCC
53808 AGTAATGTAT
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
19 18 1.00
ACGTcount: A:0.32, C:0.24, G:0.11, T:0.34
Consensus pattern (19 bp):
CATAGTAATGCTACATTCC
Found at i:53813 original size:16 final size:18
Alignment explanation
Indices: 53773--53815 Score: 54
Period size: 19 Copynumber: 2.4 Consensus size: 18
53763 ACATTTTCAT
*
53773 AGTAATGCTACATTCCCA
1 AGTAATGTTACATTCCCA
53791 TAGTAATGTTACATT-CC-
1 -AGTAATGTTACATTCCCA
53808 AGTAATGT
1 AGTAATGT
53816 ATTCCCAAAT
Statistics
Matches: 23, Mismatches: 1, Indels: 3
0.85 0.04 0.11
Matches are distributed among these distances:
16 8 0.35
18 2 0.09
19 13 0.57
ACGTcount: A:0.33, C:0.19, G:0.14, T:0.35
Consensus pattern (18 bp):
AGTAATGTTACATTCCCA
Found at i:56367 original size:20 final size:20
Alignment explanation
Indices: 56333--56378 Score: 56
Period size: 20 Copynumber: 2.3 Consensus size: 20
56323 CCTAAATTTT
*
56333 TAAAAATTATAAAATAATTA
1 TAAAATTTATAAAATAATTA
* * *
56353 TTAAATTTATCAAATTATTA
1 TAAAATTTATAAAATAATTA
56373 TAAAAT
1 TAAAAT
56379 AACCATCGTA
Statistics
Matches: 21, Mismatches: 5, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
20 21 1.00
ACGTcount: A:0.57, C:0.02, G:0.00, T:0.41
Consensus pattern (20 bp):
TAAAATTTATAAAATAATTA
Found at i:57679 original size:148 final size:149
Alignment explanation
Indices: 57335--57682 Score: 384
Period size: 151 Copynumber: 2.3 Consensus size: 149
57325 TGCTGATTGA
* *
57335 TTTTCGTTGTTCGCTTGAGCATTTGATCTTTCGTGATCTTCTTAGCTCTGGGTATGTGTGTTTTT
1 TTTTCGTTGTTCGCTTGAGCATTTGATCTTTCGTGATCTTCTTAGCTCTCGGCATGTGTGTTTTT
* * * *
57400 TTCCTTCAAATTTCATTTTAGTAACCTTAACTCTGATCGCCTTGTTATTGAGTTTCTAGTTCCAC
66 TTCCTTCAAATTTCATTTTAGCAACCTTAACTCTGAT--CCTCGTTATTGACTTTCTAGCTCCAC
**** *
57465 TTTGCTGAAACTTTTTTGTTT
129 TTTGCTGAAACCCCCTTGTTC
* *
57486 TTTTCGTTGTTCGCTTGAGCATTTTATCTTTCATGATCTTCTTAGCTCTCGGCATGTGTAGTTTT
1 TTTTCGTTGTTCGCTTGAGCATTTGATCTTTCGTGATCTTCTTAGCTCTCGGCATGTGT-GTTTT
* * * * * * *
57551 TTT-TTTCAATTTTCGTTTTAGCACCCTTTAA-TC-G-T-CTCGTTCTTGACTTTCTAGCTCGAG
65 TTTCCTTCAAATTTCATTTTAGCAACC-TTAACTCTGATCCTCGTTATTGACTTTCTAGCTCCAC
**
57611 TTTGCTGATTTCCCCCCCTT-TTC
129 TTTGCTGA---AACCCCCTTGTTC
*
57634 TTTTGGTTGTTCGCTTGAGCATTTGATCTTTCGTGATCTTCTTAGCTCT
1 TTTTCGTTGTTCGCTTGAGCATTTGATCTTTCGTGATCTTCTTAGCTCT
57683 GGGTGTTCTT
Statistics
Matches: 167, Mismatches: 25, Indels: 13
0.81 0.12 0.06
Matches are distributed among these distances:
146 27 0.16
148 48 0.29
149 4 0.02
150 1 0.01
151 75 0.45
152 12 0.07
ACGTcount: A:0.13, C:0.20, G:0.16, T:0.50
Consensus pattern (149 bp):
TTTTCGTTGTTCGCTTGAGCATTTGATCTTTCGTGATCTTCTTAGCTCTCGGCATGTGTGTTTTT
TTCCTTCAAATTTCATTTTAGCAACCTTAACTCTGATCCTCGTTATTGACTTTCTAGCTCCACTT
TGCTGAAACCCCCTTGTTC
Found at i:69021 original size:30 final size:28
Alignment explanation
Indices: 68998--69052 Score: 83
Period size: 29 Copynumber: 1.9 Consensus size: 28
68988 CGGTGATCGG
68998 TATATTTACCGATCTAACACCGGTCAGAT
1 TATATTTACCGATCTAACACCGGT-AGAT
* *
69027 TATATTTCCCGATCTAACACCCGTAG
1 TATATTTACCGATCTAACACCGGTAG
69053 CAGTAAAGCG
Statistics
Matches: 24, Mismatches: 2, Indels: 1
0.89 0.07 0.04
Matches are distributed among these distances:
28 2 0.08
29 22 0.92
ACGTcount: A:0.29, C:0.27, G:0.13, T:0.31
Consensus pattern (28 bp):
TATATTTACCGATCTAACACCGGTAGAT
Found at i:69414 original size:17 final size:18
Alignment explanation
Indices: 69377--69417 Score: 66
Period size: 18 Copynumber: 2.3 Consensus size: 18
69367 ATATTATGTA
*
69377 TTTAATTTATTTAAGTAT
1 TTTACTTTATTTAAGTAT
69395 TTTACTTTATTTAA-TAT
1 TTTACTTTATTTAAGTAT
69412 TTTACT
1 TTTACT
69418 AATATAAATT
Statistics
Matches: 22, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
17 9 0.41
18 13 0.59
ACGTcount: A:0.29, C:0.05, G:0.02, T:0.63
Consensus pattern (18 bp):
TTTACTTTATTTAAGTAT
Found at i:73549 original size:23 final size:23
Alignment explanation
Indices: 73523--73570 Score: 69
Period size: 23 Copynumber: 2.1 Consensus size: 23
73513 ATAAAGTACA
*
73523 ATAACATACTAGGTAGCGCTTAT
1 ATAACATAATAGGTAGCGCTTAT
**
73546 ATAATGTAATAGGTAGCGCTTAT
1 ATAACATAATAGGTAGCGCTTAT
73569 AT
1 AT
73571 TTACCTATTT
Statistics
Matches: 22, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
23 22 1.00
ACGTcount: A:0.35, C:0.12, G:0.19, T:0.33
Consensus pattern (23 bp):
ATAACATAATAGGTAGCGCTTAT
Found at i:73976 original size:21 final size:20
Alignment explanation
Indices: 73946--73999 Score: 54
Period size: 23 Copynumber: 2.5 Consensus size: 20
73936 GATAGACACT
*
73946 TTACAATATAACCATTACCTA
1 TTACATTATAACCA-TACCTA
*
73967 TTACATTATATAAACGATACCTA
1 TTACA-T-TAT-AACCATACCTA
73990 TTACATTATA
1 TTACATTATA
74000 TAAGGGCTAC
Statistics
Matches: 28, Mismatches: 2, Indels: 7
0.76 0.05 0.19
Matches are distributed among these distances:
20 1 0.04
21 8 0.29
22 1 0.04
23 14 0.50
24 4 0.14
ACGTcount: A:0.43, C:0.19, G:0.02, T:0.37
Consensus pattern (20 bp):
TTACATTATAACCATACCTA
Found at i:73987 original size:23 final size:23
Alignment explanation
Indices: 73961--74023 Score: 90
Period size: 23 Copynumber: 2.7 Consensus size: 23
73951 ATATAACCAT
73961 TACCTATTACATTATATAAACGA
1 TACCTATTACATTATATAAACGA
** *
73984 TACCTATTACATTATATAAGGGC
1 TACCTATTACATTATATAAACGA
*
74007 TACCTATTACATCATAT
1 TACCTATTACATTATAT
74024 GTTTACCTAT
Statistics
Matches: 36, Mismatches: 4, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
23 36 1.00
ACGTcount: A:0.38, C:0.19, G:0.06, T:0.37
Consensus pattern (23 bp):
TACCTATTACATTATATAAACGA
Found at i:74401 original size:21 final size:20
Alignment explanation
Indices: 74371--74424 Score: 54
Period size: 23 Copynumber: 2.5 Consensus size: 20
74361 GATAGACACT
*
74371 TTACAATATAACCATTACCTA
1 TTACATTATAACCA-TACCTA
*
74392 TTACATTATATAAACGATACCTA
1 TTACA-T-TAT-AACCATACCTA
74415 TTACATTATA
1 TTACATTATA
74425 TAAGGGCTAC
Statistics
Matches: 28, Mismatches: 2, Indels: 7
0.76 0.05 0.19
Matches are distributed among these distances:
20 1 0.04
21 8 0.29
22 1 0.04
23 14 0.50
24 4 0.14
ACGTcount: A:0.43, C:0.19, G:0.02, T:0.37
Consensus pattern (20 bp):
TTACATTATAACCATACCTA
Found at i:74412 original size:23 final size:23
Alignment explanation
Indices: 74386--74448 Score: 90
Period size: 23 Copynumber: 2.7 Consensus size: 23
74376 ATATAACCAT
74386 TACCTATTACATTATATAAACGA
1 TACCTATTACATTATATAAACGA
** *
74409 TACCTATTACATTATATAAGGGC
1 TACCTATTACATTATATAAACGA
*
74432 TACCTATTACATCATAT
1 TACCTATTACATTATAT
74449 GTTTACCTAT
Statistics
Matches: 36, Mismatches: 4, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
23 36 1.00
ACGTcount: A:0.38, C:0.19, G:0.06, T:0.37
Consensus pattern (23 bp):
TACCTATTACATTATATAAACGA
Found at i:74829 original size:21 final size:20
Alignment explanation
Indices: 74799--74852 Score: 54
Period size: 23 Copynumber: 2.5 Consensus size: 20
74789 GATAGACACT
*
74799 TTACAATATAACCATTACCTA
1 TTACATTATAACCA-TACCTA
*
74820 TTACATTATATAAACGATACCTA
1 TTACA-T-TAT-AACCATACCTA
74843 TTACATTATA
1 TTACATTATA
74853 TAAGGGCTAC
Statistics
Matches: 28, Mismatches: 2, Indels: 7
0.76 0.05 0.19
Matches are distributed among these distances:
20 1 0.04
21 8 0.29
22 1 0.04
23 14 0.50
24 4 0.14
ACGTcount: A:0.43, C:0.19, G:0.02, T:0.37
Consensus pattern (20 bp):
TTACATTATAACCATACCTA
Found at i:74840 original size:23 final size:23
Alignment explanation
Indices: 74814--74876 Score: 90
Period size: 23 Copynumber: 2.7 Consensus size: 23
74804 ATATAACCAT
74814 TACCTATTACATTATATAAACGA
1 TACCTATTACATTATATAAACGA
** *
74837 TACCTATTACATTATATAAGGGC
1 TACCTATTACATTATATAAACGA
*
74860 TACCTATTACATCATAT
1 TACCTATTACATTATAT
74877 GTTTACCTAT
Statistics
Matches: 36, Mismatches: 4, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
23 36 1.00
ACGTcount: A:0.38, C:0.19, G:0.06, T:0.37
Consensus pattern (23 bp):
TACCTATTACATTATATAAACGA
Found at i:74915 original size:428 final size:429
Alignment explanation
Indices: 73681--74974 Score: 2528
Period size: 426 Copynumber: 3.0 Consensus size: 429
73671 GGATCGATAC
73681 TTTAACAGTGTTTCATGTTTTCCACCTACAATATTGATTTAATAATTTCATTTGCACAAAAAATT
1 TTTAACAGTGTTTCATGTTTTCCACCTACAATATTGATTTAATAATTTCATTTGCACAAAAAATT
73746 ATTTGATTGTTTTGATATTTTATAAAATATTATTTAGAATTTTTAATTTAATAATAATATATACC
66 ATTTGATTGTTTTGATATTTTATAAAATATTATTTAGAATTTTTAATTTAATAAT-A-ATATACC
73811 GTAACGTAAAAAATAAATCATTAGACGCCTATAATTACTAAATTAATATCTTAAAACTCACTCAA
129 GTAACGTAAAAAATAAATCATTAGACGCCTATAATTACTAAATTAATATCTTAAAACTCACTCAA
73876 AAGATAACCTTAAATTAATGTTTTCCACAGTGAAAAAAGTATGGACACTTTTATAAAAAGGATAG
194 AAGATAACCTTAAATTAATGTTTTCCACAGTGAAAAAAGTATGGACACTTTTATAAAAAGGATAG
73941 ACACTTTACAATATAACCATTACCTATTACATTATATAAACGATACCTATTACATTATATAAGGG
259 ACACTTTACAATATAACCATTACCTATTACATTATATAAACGATACCTATTACATTATATAAGGG
74006 CTACCTATTACATCATATGTTTACCTATTATATTGAAAGTGTCCATAC-TTTTATAAAAAGGATC
324 CTACCTATTACATCATATGTTTACCTATTATATTGAAAGTGTCCATACTTTTTATAAAAAGGATC
74070 GATACTTTTTTTAAAACTTATGTAATTTATGTTTCAATTTT
389 GATACTTTTTTTAAAACTTATGTAATTTATGTTTCAATTTT
74111 TTTAACAGTGTTTCATGTTTTCCACCTACAATATTGATTTAATAATTTCATTTGCAC-AAAAATT
1 TTTAACAGTGTTTCATGTTTTCCACCTACAATATTGATTTAATAATTTCATTTGCACAAAAAATT
74175 ATTTGATTGTTTTGATATTTTATAAAATATTATTTAGAATTTTTAATTTAATAAT-ATATACCGT
66 ATTTGATTGTTTTGATATTTTATAAAATATTATTTAGAATTTTTAATTTAATAATAATATACCGT
74239 AACGTAAAAAATAAATCATTAGACGCCTATAATTACTAAATTAATATCTTAAAACTCACTCAAAA
131 AACGTAAAAAATAAATCATTAGACGCCTATAATTACTAAATTAATATCTTAAAACTCACTCAAAA
74304 GATAACCTTAAATTAATGTTTTCCACAGTG-AAAAAGTATGGACACTTTTATAAAAAGGATAGAC
196 GATAACCTTAAATTAATGTTTTCCACAGTGAAAAAAGTATGGACACTTTTATAAAAAGGATAGAC
74368 ACTTTACAATATAACCATTACCTATTACATTATATAAACGATACCTATTACATTATATAAGGGCT
261 ACTTTACAATATAACCATTACCTATTACATTATATAAACGATACCTATTACATTATATAAGGGCT
74433 ACCTATTACATCATATGTTTACCTATTATATTGAAAGTGTCCATACTTTTTATAAAAAGGATCGA
326 ACCTATTACATCATATGTTTACCTATTATATTGAAAGTGTCCATACTTTTTATAAAAAGGATCGA
74498 TACTTTTTTTAAAACTTATGTAATTTATGTTTCAATTTT
391 TACTTTTTTTAAAACTTATGTAATTTATGTTTCAATTTT
74537 TTTAACAGTGTTTCATGTTTTCCACCTACAATA-TGATTTAATAATTTCATTTGCACAAAAAATT
1 TTTAACAGTGTTTCATGTTTTCCACCTACAATATTGATTTAATAATTTCATTTGCACAAAAAATT
74601 ATTTGATTGTTTTGATATTTTATAAAATATTATTTAGAATTTTTAATTTAATAATAATATACCGT
66 ATTTGATTGTTTTGATATTTTATAAAATATTATTTAGAATTTTTAATTTAATAATAATATACCGT
74666 AACGTAAAAAATAAATCATTAGACGCCTATAATTACTAAATTAATATCTTAAAACTCACTCAAAA
131 AACGTAAAAAATAAATCATTAGACGCCTATAATTACTAAATTAATATCTTAAAACTCACTCAAAA
74731 GATAACCTTAAATTAATGTTTTCCACAGTGAAAAAAGTATGGACACTTTTATAAAAAGGATAGAC
196 GATAACCTTAAATTAATGTTTTCCACAGTGAAAAAAGTATGGACACTTTTATAAAAAGGATAGAC
74796 ACTTTACAATATAACCATTACCTATTACATTATATAAACGATACCTATTACATTATATAAGGGCT
261 ACTTTACAATATAACCATTACCTATTACATTATATAAACGATACCTATTACATTATATAAGGGCT
74861 ACCTATTACATCATATGTTTACCTATTATATTGAAAGTGTCCATACTTTTTATAAAAAGGATCGA
326 ACCTATTACATCATATGTTTACCTATTATATTGAAAGTGTCCATACTTTTTATAAAAAGGATCGA
74926 TACTTTTTTTAAAACTTATGTAATTTATGTTTCAA-TTT
391 TACTTTTTTTAAAACTTATGTAATTTATGTTTCAATTTT
74964 TTTAACAGTGT
1 TTTAACAGTGT
74975 ACTGCGAATT
Statistics
Matches: 860, Mismatches: 0, Indels: 11
0.99 0.00 0.01
Matches are distributed among these distances:
425 168 0.20
426 256 0.30
427 118 0.14
428 199 0.23
429 62 0.07
430 57 0.07
ACGTcount: A:0.39, C:0.13, G:0.09, T:0.40
Consensus pattern (429 bp):
TTTAACAGTGTTTCATGTTTTCCACCTACAATATTGATTTAATAATTTCATTTGCACAAAAAATT
ATTTGATTGTTTTGATATTTTATAAAATATTATTTAGAATTTTTAATTTAATAATAATATACCGT
AACGTAAAAAATAAATCATTAGACGCCTATAATTACTAAATTAATATCTTAAAACTCACTCAAAA
GATAACCTTAAATTAATGTTTTCCACAGTGAAAAAAGTATGGACACTTTTATAAAAAGGATAGAC
ACTTTACAATATAACCATTACCTATTACATTATATAAACGATACCTATTACATTATATAAGGGCT
ACCTATTACATCATATGTTTACCTATTATATTGAAAGTGTCCATACTTTTTATAAAAAGGATCGA
TACTTTTTTTAAAACTTATGTAATTTATGTTTCAATTTT
Found at i:77740 original size:184 final size:184
Alignment explanation
Indices: 77431--78475 Score: 1968
Period size: 184 Copynumber: 5.7 Consensus size: 184
77421 TTTTAAATGG
*
77431 TATGGACATAAAGTACCGACACAATATTAAAAAGTGTCGATATAGGTTGTAGACCTATTCGCTCA
1 TATGGACATAAAGTACCGACACAATATTAAAAAGTGTCGATATAGGTTGTAGACCTATTCGCGCA
*
77496 TAAAACCGGTATATTTATACCGGTTATATTACAAAATTATCTATTACATTATAATTATGGGTTCC
66 TAAGACCGGTATATTTATACCGGTTATATTACAAAATTATCTATTACATTATAATTATGGGTTCC
77561 GATGTGTAAAATGTCGACACTTTTTTAAATTGTATCGACACATTTTTCTTCCAA
131 GATGTGTAAAATGTCGACACTTTTTTAAATTGTATCGACACATTTTTCTTCCAA
77615 TATGGACATAAAGTACCGACACAATATTAAAAAGTGTCGATATAGGTTGTAGACCTATTCGCGCA
1 TATGGACATAAAGTACCGACACAATATTAAAAAGTGTCGATATAGGTTGTAGACCTATTCGCGCA
77680 TAAGACCGGTATATTTATACCGGTTATATTACAAAATTATCTATTACATTATAATTATGGGTTCC
66 TAAGACCGGTATATTTATACCGGTTATATTACAAAATTATCTATTACATTATAATTATGGGTTCC
77745 GATGTGTAAAATGTCGACACTTTTTTAAATTGTATCGACACATTTTTCTTCCAA
131 GATGTGTAAAATGTCGACACTTTTTTAAATTGTATCGACACATTTTTCTTCCAA
77799 TATGGACATAAAGTACCGACACAATATTAAAAAGTGTCGATATAGGTTGTAGACCTATTCGCGCA
1 TATGGACATAAAGTACCGACACAATATTAAAAAGTGTCGATATAGGTTGTAGACCTATTCGCGCA
77864 TAAGACCGGTATATTTATACCGGTTATATTACAAAATTATCTATTACATTATAATTATGGGTTCC
66 TAAGACCGGTATATTTATACCGGTTATATTACAAAATTATCTATTACATTATAATTATGGGTTCC
77929 GATGTGTAAAATGTCGACACTTTTTTAAATTGTATCGACACATTTTTCTTCCAA
131 GATGTGTAAAATGTCGACACTTTTTTAAATTGTATCGACACATTTTTCTTCCAA
77983 TATGGACATAAAGTACCGACACAATATTAAAAAGTGTCGATATAGGTTGTAGACCTATTCGCGCA
1 TATGGACATAAAGTACCGACACAATATTAAAAAGTGTCGATATAGGTTGTAGACCTATTCGCGCA
78048 TAAGACCGGTATATTTATACCGGTTATATTACAAAATTATCTATTACATTATAATTATGGGTTCC
66 TAAGACCGGTATATTTATACCGGTTATATTACAAAATTATCTATTACATTATAATTATGGGTTCC
78113 GATGTGTAAAATGTCGACACTTTTTTAAATTGTATCGACACATTTTTCTTCCAA
131 GATGTGTAAAATGTCGACACTTTTTTAAATTGTATCGACACATTTTTCTTCCAA
78167 TATGGACATAAAGTACCGACACAATATTAAAAAGTGTCGATATAGGTTGTAGGTTGTAGACCTAT
1 TATGGACATAAAGTACCGACACAATATTAAAAAGTGTCG--ATA-----TAGGTTGTAGACCTAT
78232 TCGCGCATAAGACCGGTATATTTATACCGGTTATATTACAAAATTATCTATTACATTATAATTAT
59 TCGCGCATAAGACCGGTATATTTATACCGGTTATATTACAAAATTATCTATTACATTATAATTAT
*
78297 GGGTTCCGATGTGTAAAATGTCGACAC-TTTTTAAATCGTATCGACACA-TTTTCTTCCAA
124 GGGTTCCGATGTGTAAAATGTCGACACTTTTTTAAATTGTATCGACACATTTTTCTTCCAA
78356 TATGGACATAAAGTACCGACACAATATTAAAAAGTGTCGATATAGGTTGTAGACCTATTCGCGCA
1 TATGGACATAAAGTACCGACACAATATTAAAAAGTGTCGATATAGGTTGTAGACCTATTCGCGCA
**
78421 TAAGACCGGTATATTTATACCGGTTATATTACAAAATTATCTATTTTATTATAAT
66 TAAGACCGGTATATTTATACCGGTTATATTACAAAATTATCTATTACATTATAAT
78476 ATGTTGAAAG
Statistics
Matches: 849, Mismatches: 5, Indels: 16
0.98 0.01 0.02
Matches are distributed among these distances:
182 76 0.09
184 589 0.69
186 3 0.00
187 3 0.00
189 50 0.06
190 20 0.02
191 108 0.13
ACGTcount: A:0.34, C:0.16, G:0.15, T:0.35
Consensus pattern (184 bp):
TATGGACATAAAGTACCGACACAATATTAAAAAGTGTCGATATAGGTTGTAGACCTATTCGCGCA
TAAGACCGGTATATTTATACCGGTTATATTACAAAATTATCTATTACATTATAATTATGGGTTCC
GATGTGTAAAATGTCGACACTTTTTTAAATTGTATCGACACATTTTTCTTCCAA
Found at i:79848 original size:3 final size:3
Alignment explanation
Indices: 79840--79890 Score: 66
Period size: 3 Copynumber: 17.0 Consensus size: 3
79830 ACTTGTTTGG
* * * *
79840 ATC ATC ATC TTC ATC ATC ATC GTC ATC ATC ATC ATC ATC GTC ATC TTC
1 ATC ATC ATC ATC ATC ATC ATC ATC ATC ATC ATC ATC ATC ATC ATC ATC
79888 ATC
1 ATC
79891 GTCAGCTTCA
Statistics
Matches: 40, Mismatches: 8, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
3 40 1.00
ACGTcount: A:0.25, C:0.33, G:0.04, T:0.37
Consensus pattern (3 bp):
ATC
Found at i:79857 original size:12 final size:12
Alignment explanation
Indices: 79840--79902 Score: 81
Period size: 12 Copynumber: 5.2 Consensus size: 12
79830 ACTTGTTTGG
79840 ATCATCATCTTC
1 ATCATCATCTTC
*
79852 ATCATCATCGTC
1 ATCATCATCTTC
*
79864 ATCATCATCATC
1 ATCATCATCTTC
*
79876 ATCGTCATCTTC
1 ATCATCATCTTC
* *
79888 ATCGTCAGCTTC
1 ATCATCATCTTC
79900 ATC
1 ATC
79903 TTCTGCGACC
Statistics
Matches: 46, Mismatches: 5, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
12 46 1.00
ACGTcount: A:0.24, C:0.33, G:0.06, T:0.37
Consensus pattern (12 bp):
ATCATCATCTTC
Found at i:79901 original size:18 final size:18
Alignment explanation
Indices: 79844--79905 Score: 88
Period size: 18 Copynumber: 3.4 Consensus size: 18
79834 GTTTGGATCA
79844 TCATCTTCATCATCATCG
1 TCATCTTCATCATCATCG
*
79862 TCATCATCATCATCATCG
1 TCATCTTCATCATCATCG
* * *
79880 TCATCTTCATCGTCAGCT
1 TCATCTTCATCATCATCG
79898 TCATCTTC
1 TCATCTTC
79906 TGCGACCGAT
Statistics
Matches: 39, Mismatches: 5, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
18 39 1.00
ACGTcount: A:0.21, C:0.34, G:0.06, T:0.39
Consensus pattern (18 bp):
TCATCTTCATCATCATCG
Found at i:79905 original size:6 final size:6
Alignment explanation
Indices: 79844--79905 Score: 61
Period size: 6 Copynumber: 10.3 Consensus size: 6
79834 GTTTGGATCA
* * * * * *
79844 TCATCT TCATCA TCATCG TCATCA TCATCA TCATCG TCATCT TCATCG
1 TCATCT TCATCT TCATCT TCATCT TCATCT TCATCT TCATCT TCATCT
*
79892 TCAGCT TCATCT TC
1 TCATCT TCATCT TC
79906 TGCGACCGAT
Statistics
Matches: 47, Mismatches: 9, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
6 47 1.00
ACGTcount: A:0.21, C:0.34, G:0.06, T:0.39
Consensus pattern (6 bp):
TCATCT
Found at i:82045 original size:198 final size:198
Alignment explanation
Indices: 81367--82770 Score: 2212
Period size: 198 Copynumber: 7.1 Consensus size: 198
81357 TTTAAATTAG
* *
81367 TATCGACACAAAATATATTAGTGTCGACACATTATTTAGACATATTCTCTCATAAAACCGGTATA
1 TATCGACACAAACTATATTAGTGTCGACACATTATTTAGACTTATTCTCTCATAAAACCGGTATA
81432 ATTGTACCGGTTAGATTAAAAAATTACATATTACATTATACTTTTGGGTTCGATGATTTTGGGAT
66 ATTGTACCGGTTAGATTAAAAAATTACATATTACATTATACTTTTGGGTTCGATGATTTTGGGAT
*
81497 CGACACTTTTTATATATGGATCGACACTTTATTGATTCACCTTGT-AAAATTCATTCTGGAAAAA
131 CGACACTTTTTATATATGGATCGACACTTTATTGATGCACCTTGTAAAAATTCATTCTGGAAAAA
81561 AAA
196 AAA
81564 TATCGACACAAACTATATTAGTGTCGACACATTATTTAGACTTATTCTCTCATAAAACCGGTATA
1 TATCGACACAAACTATATTAGTGTCGACACATTATTTAGACTTATTCTCTCATAAAACCGGTATA
81629 ATTGTACCGGTTAGATTAAAAAATTACATATTACATTATACTTTTGGGTTCGATGATTTTGGGAT
66 ATTGTACCGGTTAGATTAAAAAATTACATATTACATTATACTTTTGGGTTCGATGATTTTGGGAT
* * *** *
81694 CGACACTTTTTTATATATGGATCGACACTTTATGGGTGCACCTTGTTTTTAATTCATTCTGGGAA
131 CGACAC-TTTTTATATATGGATCGACACTTTATTGATGCACCTTG-TAAAAATTCATTCTGGAAA
81759 AAAAA
194 AAAAA
81764 TATCGACACAAACTATATTAGTGTCGACACATTATTTAGACTTATTCTCTCATAAAACCGGTATA
1 TATCGACACAAACTATATTAGTGTCGACACATTATTTAGACTTATTCTCTCATAAAACCGGTATA
*
81829 ATTGTACCGGTTAGATTGAAAAATTACATATTACATTATACTTTTGGGTTCGATGATTTTGGGAT
66 ATTGTACCGGTTAGATTAAAAAATTACATATTACATTATACTTTTGGGTTCGATGATTTTGGGAT
81894 CGACACTTTTTATATATGGATCGACACTTTATTGATGCACCTTGTAAAAATTCATTCTGGAAAAA
131 CGACACTTTTTATATATGGATCGACACTTTATTGATGCACCTTGTAAAAATTCATTCTGGAAAAA
81959 AAA
196 AAA
81962 TATCGACACAAACTATATTAGTGTCGACACATTATTTAGACTTATTCTCTCATAAAACCGGTATA
1 TATCGACACAAACTATATTAGTGTCGACACATTATTTAGACTTATTCTCTCATAAAACCGGTATA
*
82027 ATTGTACCGGTTAGATTGAAAAATTACATATTACATTATACTTTTGGGTTCGATGATTTTGGGAT
66 ATTGTACCGGTTAGATTAAAAAATTACATATTACATTATACTTTTGGGTTCGATGATTTTGGGAT
* * *** *
82092 CGACACTTTTTATATATGGATCGACACTTTATGGGTGCACCTTGTTTTTAATTCATTCTGGGAAA
131 CGACACTTTTTATATATGGATCGACACTTTATTGATGCACCTTG-TAAAAATTCATTCTGGAAAA
82157 AAAA
195 AAAA
82161 TATCGACACAAACTATATTAGTGTCGACACATTATTTAGACTTATTCTCTCATAAAACCGGTATA
1 TATCGACACAAACTATATTAGTGTCGACACATTATTTAGACTTATTCTCTCATAAAACCGGTATA
82226 ATTGTACCGGTTAGATTAAAAAATTACATATTACATTATA----------C-----TTTTGGGAT
66 ATTGTACCGGTTAGATTAAAAAATTACATATTACATTATACTTTTGGGTTCGATGATTTTGGGAT
** * *
82276 CGACACTTTTTATATATGGATCGACACTTTATTGA-TGCA--C-CTTGT-AAAAATTCATTC--T
131 CGACACTTTTTATATATGGATCG--ACACT-TT-ATTG-ATGCACCT-TGTAAAA---ATTCATT
* *
82334 -GGAAAAAA-AA
187 CTGGAAAAAAAA
82344 TATCGACACAAACTATATTAGTGTCGACACATTATTTAGACTTATTCTCTCATAAAACCGGTATA
1 TATCGACACAAACTATATTAGTGTCGACACATTATTTAGACTTATTCTCTCATAAAACCGGTATA
*
82409 ATTGTACCGGTTAGATTGAAAAATTACATATTACATTATACTTTTGGGTTCGATGATTTTGGGAT
66 ATTGTACCGGTTAGATTAAAAAATTACATATTACATTATACTTTTGGGTTCGATGATTTTGGGAT
* * *** *
82474 CGACACTTTTTTATATATGGATCGACACTTTATGGGTGCACCTTGTTTTTAATTCATTCTGGGAA
131 CGACAC-TTTTTATATATGGATCGACACTTTATTGATGCACCTTG-TAAAAATTCATTCTGGAAA
82539 AAAAA
194 AAAAA
82544 TATCGACACAAACTATATTAGTGTCGACACATTATTTAGACTTATTCTCTCATAAAACCGGTATA
1 TATCGACACAAACTATATTAGTGTCGACACATTATTTAGACTTATTCTCTCATAAAACCGGTATA
82609 ATTGTACCGGTTAGATT-AAAAATTACATATTACATTATACTTTTGGGTTCGATGATTTTGGGAT
66 ATTGTACCGGTTAGATTAAAAAATTACATATTACATTATACTTTTGGGTTCGATGATTTTGGGAT
82673 CGACACTTTTTTATATATGGATCGACACTTTATTGATGCACCTTGTAAAAATTCATTCTGGAAAA
131 CGACAC-TTTTTATATATGGATCGACACTTTATTGATGCACCTTGTAAAAATTCATTCTGGAAAA
82738 AAAA
195 AAAA
*
82742 TATCGACACAAACTATATTAGTATCGACA
1 TATCGACACAAACTATATTAGTGTCGACA
82771 TGACCCTTAA
Statistics
Matches: 1114, Mismatches: 54, Indels: 77
0.89 0.04 0.06
Matches are distributed among these distances:
183 106 0.10
184 38 0.03
185 3 0.00
186 5 0.00
187 7 0.01
188 1 0.00
189 1 0.00
193 1 0.00
195 1 0.00
196 7 0.01
197 139 0.12
198 293 0.26
199 274 0.25
200 238 0.21
ACGTcount: A:0.33, C:0.15, G:0.15, T:0.37
Consensus pattern (198 bp):
TATCGACACAAACTATATTAGTGTCGACACATTATTTAGACTTATTCTCTCATAAAACCGGTATA
ATTGTACCGGTTAGATTAAAAAATTACATATTACATTATACTTTTGGGTTCGATGATTTTGGGAT
CGACACTTTTTATATATGGATCGACACTTTATTGATGCACCTTGTAAAAATTCATTCTGGAAAAA
AAA
Found at i:82104 original size:397 final size:398
Alignment explanation
Indices: 81367--82770 Score: 2619
Period size: 397 Copynumber: 3.6 Consensus size: 398
81357 TTTAAATTAG
* *
81367 TATCGACACAAAATATATTAGTGTCGACACATTATTTAGACATATTCTCTCATAAAACCGGTATA
1 TATCGACACAAACTATATTAGTGTCGACACATTATTTAGACTTATTCTCTCATAAAACCGGTATA
81432 ATTGTACCGGTTAGATTAAAAAATTACATATTACATTATACTTTTGGGTTCGATGATTTTGGGAT
66 ATTGTACCGGTTAGATTAAAAAATTACATATTACATTATACTTTTGGGTTCGATGATTTTGGGAT
*
81497 CGACACTTTTTATATATGGATCGACACTTTATTGATTCACCTTGT-AAAATTCATTCTGGAAAAA
131 CGACACTTTTTATATATGGATCGACACTTTATTGATGCACCTTGTAAAAATTCATTCTGGAAAAA
81561 AAATATCGACACAAACTATATTAGTGTCGACACATTATTTAGACTTATTCTCTCATAAAACCGGT
196 AAATATCGACACAAACTATATTAGTGTCGACACATTATTTAGACTTATTCTCTCATAAAACCGGT
*
81626 ATAATTGTACCGGTTAGATTAAAAAATTACATATTACATTATACTTTTGGGTTCGATGATTTTGG
261 ATAATTGTACCGGTTAGATTGAAAAATTACATATTACATTATACTTTTGGGTTCGATGATTTTGG
81691 GATCGACACTTTTTTATATATGGATCGACACTTTATGGGTGCACCTTGTTTTTAATTCATTCTGG
326 GATCGACACTTTTTTATATATGGATCGACACTTTATGGGTGCACCTTGTTTTTAATTCATTCTGG
81756 GAAAAAAA
391 GAAAAAAA
81764 TATCGACACAAACTATATTAGTGTCGACACATTATTTAGACTTATTCTCTCATAAAACCGGTATA
1 TATCGACACAAACTATATTAGTGTCGACACATTATTTAGACTTATTCTCTCATAAAACCGGTATA
*
81829 ATTGTACCGGTTAGATTGAAAAATTACATATTACATTATACTTTTGGGTTCGATGATTTTGGGAT
66 ATTGTACCGGTTAGATTAAAAAATTACATATTACATTATACTTTTGGGTTCGATGATTTTGGGAT
81894 CGACACTTTTTATATATGGATCGACACTTTATTGATGCACCTTGTAAAAATTCATTCTGGAAAAA
131 CGACACTTTTTATATATGGATCGACACTTTATTGATGCACCTTGTAAAAATTCATTCTGGAAAAA
81959 AAATATCGACACAAACTATATTAGTGTCGACACATTATTTAGACTTATTCTCTCATAAAACCGGT
196 AAATATCGACACAAACTATATTAGTGTCGACACATTATTTAGACTTATTCTCTCATAAAACCGGT
82024 ATAATTGTACCGGTTAGATTGAAAAATTACATATTACATTATACTTTTGGGTTCGATGATTTTGG
261 ATAATTGTACCGGTTAGATTGAAAAATTACATATTACATTATACTTTTGGGTTCGATGATTTTGG
82089 GATCGACAC-TTTTTATATATGGATCGACACTTTATGGGTGCACCTTGTTTTTAATTCATTCTGG
326 GATCGACACTTTTTTATATATGGATCGACACTTTATGGGTGCACCTTGTTTTTAATTCATTCTGG
82153 GAAAAAAA
391 GAAAAAAA
82161 TATCGACACAAACTATATTAGTGTCGACACATTATTTAGACTTATTCTCTCATAAAACCGGTATA
1 TATCGACACAAACTATATTAGTGTCGACACATTATTTAGACTTATTCTCTCATAAAACCGGTATA
82226 ATTGTACCGGTTAGATTAAAAAATTACATATTACATTATA----------C-----TTTTGGGAT
66 ATTGTACCGGTTAGATTAAAAAATTACATATTACATTATACTTTTGGGTTCGATGATTTTGGGAT
82276 CGACACTTTTTATATATGGATCGACACTTTATTGATGCACCTTGTAAAAATTCATTCTGGAAAAA
131 CGACACTTTTTATATATGGATCGACACTTTATTGATGCACCTTGTAAAAATTCATTCTGGAAAAA
82341 AAATATCGACACAAACTATATTAGTGTCGACACATTATTTAGACTTATTCTCTCATAAAACCGGT
196 AAATATCGACACAAACTATATTAGTGTCGACACATTATTTAGACTTATTCTCTCATAAAACCGGT
82406 ATAATTGTACCGGTTAGATTGAAAAATTACATATTACATTATACTTTTGGGTTCGATGATTTTGG
261 ATAATTGTACCGGTTAGATTGAAAAATTACATATTACATTATACTTTTGGGTTCGATGATTTTGG
82471 GATCGACACTTTTTTATATATGGATCGACACTTTATGGGTGCACCTTGTTTTTAATTCATTCTGG
326 GATCGACACTTTTTTATATATGGATCGACACTTTATGGGTGCACCTTGTTTTTAATTCATTCTGG
82536 GAAAAAAA
391 GAAAAAAA
82544 TATCGACACAAACTATATTAGTGTCGACACATTATTTAGACTTATTCTCTCATAAAACCGGTATA
1 TATCGACACAAACTATATTAGTGTCGACACATTATTTAGACTTATTCTCTCATAAAACCGGTATA
82609 ATTGTACCGGTTAGATT-AAAAATTACATATTACATTATACTTTTGGGTTCGATGATTTTGGGAT
66 ATTGTACCGGTTAGATTAAAAAATTACATATTACATTATACTTTTGGGTTCGATGATTTTGGGAT
82673 CGACACTTTTTTATATATGGATCGACACTTTATTGATGCACCTTGTAAAAATTCATTCTGGAAAA
131 CGACAC-TTTTTATATATGGATCGACACTTTATTGATGCACCTTGTAAAAATTCATTCTGGAAAA
*
82738 AAAATATCGACACAAACTATATTAGTATCGACA
195 AAAATATCGACACAAACTATATTAGTGTCGACA
82771 TGACCCTTAA
Statistics
Matches: 982, Mismatches: 7, Indels: 35
0.96 0.01 0.03
Matches are distributed among these distances:
382 235 0.24
383 145 0.15
387 1 0.00
392 1 0.00
397 353 0.36
398 247 0.25
ACGTcount: A:0.33, C:0.15, G:0.15, T:0.37
Consensus pattern (398 bp):
TATCGACACAAACTATATTAGTGTCGACACATTATTTAGACTTATTCTCTCATAAAACCGGTATA
ATTGTACCGGTTAGATTAAAAAATTACATATTACATTATACTTTTGGGTTCGATGATTTTGGGAT
CGACACTTTTTATATATGGATCGACACTTTATTGATGCACCTTGTAAAAATTCATTCTGGAAAAA
AAATATCGACACAAACTATATTAGTGTCGACACATTATTTAGACTTATTCTCTCATAAAACCGGT
ATAATTGTACCGGTTAGATTGAAAAATTACATATTACATTATACTTTTGGGTTCGATGATTTTGG
GATCGACACTTTTTTATATATGGATCGACACTTTATGGGTGCACCTTGTTTTTAATTCATTCTGG
GAAAAAAA
Found at i:82392 original size:183 final size:184
Alignment explanation
Indices: 82083--82461 Score: 679
Period size: 183 Copynumber: 2.1 Consensus size: 184
82073 GGTTCGATGA
* ***
82083 TTTTGGGATCGACACTTTTTATATATGGATCGACACTTTATGGGTGCACCTTGTTTTTAATTCAT
1 TTTTGGGATCGACACTTTTTATATATGGATCGACACTTTATGGATGCACCTTGTTAAAAATTCAT
*
82148 TCTGGGAAAAAAATATCGACACAAACTATATTAGTGTCGACACATTATTTAGACTTATTCTCTCA
66 TCTGGAAAAAAAATATCGACACAAACTATATTAGTGTCGACACATTATTTAGACTTATTCTCTCA
82213 TAAAACCGGTATAATTGTACCGGTTAGATTAAAAAATTACATATTACATTATAC
131 TAAAACCGGTATAATTGTACCGGTTAGATTAAAAAATTACATATTACATTATAC
*
82267 TTTTGGGATCGACACTTTTTATATATGGATCGACACTTTATTGATGCACCTTG-TAAAAATTCAT
1 TTTTGGGATCGACACTTTTTATATATGGATCGACACTTTATGGATGCACCTTGTTAAAAATTCAT
82331 TCTGGAAAAAAAATATCGACACAAACTATATTAGTGTCGACACATTATTTAGACTTATTCTCTCA
66 TCTGGAAAAAAAATATCGACACAAACTATATTAGTGTCGACACATTATTTAGACTTATTCTCTCA
*
82396 TAAAACCGGTATAATTGTACCGGTTAGATTGAAAAATTACATATTACATTATAC
131 TAAAACCGGTATAATTGTACCGGTTAGATTAAAAAATTACATATTACATTATAC
*
82450 TTTTGGGTTCGA
1 TTTTGGGATCGA
82462 TGATTTTGGG
Statistics
Matches: 187, Mismatches: 8, Indels: 1
0.95 0.04 0.01
Matches are distributed among these distances:
183 136 0.73
184 51 0.27
ACGTcount: A:0.34, C:0.16, G:0.14, T:0.37
Consensus pattern (184 bp):
TTTTGGGATCGACACTTTTTATATATGGATCGACACTTTATGGATGCACCTTGTTAAAAATTCAT
TCTGGAAAAAAAATATCGACACAAACTATATTAGTGTCGACACATTATTTAGACTTATTCTCTCA
TAAAACCGGTATAATTGTACCGGTTAGATTAAAAAATTACATATTACATTATAC
Found at i:82500 original size:199 final size:198
Alignment explanation
Indices: 82267--82770 Score: 920
Period size: 199 Copynumber: 2.5 Consensus size: 198
82257 TACATTATAC
82267 TTTTGGGATCGACAC-TTTTTATATATGGATCGACACTTTATTGATGCACCTTGTAAAAATTCAT
1 TTTTGGGATCGACACTTTTTTATATATGGATCGACACTTTATTGATGCACCTTGTAAAAATTCAT
82331 TCTGGAAAAAAAATATCGACACAAACTATATTAGTGTCGACACATTATTTAGACTTATTCTCTCA
66 TCTGGAAAAAAAATATCGACACAAACTATATTAGTGTCGACACATTATTTAGACTTATTCTCTCA
82396 TAAAACCGGTATAATTGTACCGGTTAGATTGAAAAATTACATATTACATTATACTTTTGGGTTCG
131 TAAAACCGGTATAATTGTACCGGTTAGATT-AAAAATTACATATTACATTATACTTTTGGGTTCG
82461 ATGA
195 ATGA
* * ***
82465 TTTTGGGATCGACACTTTTTTATATATGGATCGACACTTTATGGGTGCACCTTGTTTTTAATTCA
1 TTTTGGGATCGACACTTTTTTATATATGGATCGACACTTTATTGATGCACCTTG-TAAAAATTCA
*
82530 TTCTGGGAAAAAAATATCGACACAAACTATATTAGTGTCGACACATTATTTAGACTTATTCTCTC
65 TTCTGGAAAAAAAATATCGACACAAACTATATTAGTGTCGACACATTATTTAGACTTATTCTCTC
82595 ATAAAACCGGTATAATTGTACCGGTTAGATTAAAAATTACATATTACATTATACTTTTGGGTTCG
130 ATAAAACCGGTATAATTGTACCGGTTAGATTAAAAATTACATATTACATTATACTTTTGGGTTCG
82660 ATGA
195 ATGA
82664 TTTTGGGATCGACACTTTTTTATATATGGATCGACACTTTATTGATGCACCTTGTAAAAATTCAT
1 TTTTGGGATCGACACTTTTTTATATATGGATCGACACTTTATTGATGCACCTTGTAAAAATTCAT
*
82729 TCTGGAAAAAAAATATCGACACAAACTATATTAGTATCGACA
66 TCTGGAAAAAAAATATCGACACAAACTATATTAGTGTCGACA
82771 TGACCCTTAA
Statistics
Matches: 291, Mismatches: 13, Indels: 4
0.94 0.04 0.01
Matches are distributed among these distances:
198 63 0.22
199 126 0.43
200 102 0.35
ACGTcount: A:0.33, C:0.15, G:0.15, T:0.37
Consensus pattern (198 bp):
TTTTGGGATCGACACTTTTTTATATATGGATCGACACTTTATTGATGCACCTTGTAAAAATTCAT
TCTGGAAAAAAAATATCGACACAAACTATATTAGTGTCGACACATTATTTAGACTTATTCTCTCA
TAAAACCGGTATAATTGTACCGGTTAGATTAAAAATTACATATTACATTATACTTTTGGGTTCGA
TGA
Found at i:82877 original size:37 final size:38
Alignment explanation
Indices: 82836--82915 Score: 99
Period size: 38 Copynumber: 2.1 Consensus size: 38
82826 TCTCATTCAT
*
82836 AATTAT-ATTCACATAAAAAAATATAAATCGTATACAA
1 AATTATAAATCACATAAAAAAATATAAATCGTATACAA
** * * *
82873 AATTATAAATCGTATACAAAATTATAAATCTTATACAA
1 AATTATAAATCACATAAAAAAATATAAATCGTATACAA
82911 AATTA
1 AATTA
82916 ACTCGACATT
Statistics
Matches: 36, Mismatches: 6, Indels: 1
0.84 0.14 0.02
Matches are distributed among these distances:
37 6 0.17
38 30 0.83
ACGTcount: A:0.55, C:0.10, G:0.03, T:0.33
Consensus pattern (38 bp):
AATTATAAATCACATAAAAAAATATAAATCGTATACAA
Found at i:82879 original size:19 final size:19
Alignment explanation
Indices: 82852--82915 Score: 110
Period size: 19 Copynumber: 3.4 Consensus size: 19
82842 ATTCACATAA
*
82852 AAAAATATAAATCGTATAC
1 AAAATTATAAATCGTATAC
82871 AAAATTATAAATCGTATAC
1 AAAATTATAAATCGTATAC
*
82890 AAAATTATAAATCTTATAC
1 AAAATTATAAATCGTATAC
82909 AAAATTA
1 AAAATTA
82916 ACTCGACATT
Statistics
Matches: 43, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
19 43 1.00
ACGTcount: A:0.56, C:0.09, G:0.03, T:0.31
Consensus pattern (19 bp):
AAAATTATAAATCGTATAC
Found at i:84739 original size:33 final size:33
Alignment explanation
Indices: 84702--84767 Score: 96
Period size: 33 Copynumber: 2.0 Consensus size: 33
84692 CATCTTAATA
*
84702 TCACCCCTTAACACCGAAACTTCTTTCACCACT
1 TCACCCCTCAACACCGAAACTTCTTTCACCACT
***
84735 TCACCCCTCAACACCTCTACTTCTTTCACCACT
1 TCACCCCTCAACACCGAAACTTCTTTCACCACT
84768 CCATCTATTT
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:0.24, C:0.45, G:0.02, T:0.29
Consensus pattern (33 bp):
TCACCCCTCAACACCGAAACTTCTTTCACCACT
Found at i:86923 original size:24 final size:24
Alignment explanation
Indices: 86886--86938 Score: 63
Period size: 24 Copynumber: 2.2 Consensus size: 24
86876 CCGTTCTATC
86886 TATTTTCAGAGGATAT-TTAGCTTA
1 TATTTTCAGAGGATATGTTA-CTTA
** *
86910 TATTTTCATCGGATATGTTATTTA
1 TATTTTCAGAGGATATGTTACTTA
86934 TATTT
1 TATTT
86939 AATCGATACA
Statistics
Matches: 25, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
24 22 0.88
25 3 0.12
ACGTcount: A:0.26, C:0.08, G:0.13, T:0.53
Consensus pattern (24 bp):
TATTTTCAGAGGATATGTTACTTA
Found at i:87129 original size:20 final size:19
Alignment explanation
Indices: 87083--87129 Score: 58
Period size: 20 Copynumber: 2.4 Consensus size: 19
87073 TCCGGTATCA
*
87083 TTTTACCGTTTTTATCATT
1 TTTTACCGGTTTTATCATT
*
87102 TTGATACCGGTTTTATCATAT
1 TT-TTACCGGTTTTATCAT-T
87123 TTTTACC
1 TTTTACC
87130 TGTTATATCG
Statistics
Matches: 23, Mismatches: 3, Indels: 3
0.79 0.10 0.10
Matches are distributed among these distances:
19 2 0.09
20 18 0.78
21 3 0.13
ACGTcount: A:0.19, C:0.17, G:0.09, T:0.55
Consensus pattern (19 bp):
TTTTACCGGTTTTATCATT
Found at i:87295 original size:20 final size:20
Alignment explanation
Indices: 87247--87296 Score: 75
Period size: 20 Copynumber: 2.5 Consensus size: 20
87237 TCGACACTTT
87247 TAATTTTACCGGTTTTATCA
1 TAATTTTACCGGTTTTATCA
*
87267 T-TTTGTTACCGGTTTTATCA
1 TAATT-TTACCGGTTTTATCA
87287 TAATTTTACC
1 TAATTTTACC
87297 TGGTATATCG
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:0.22, C:0.16, G:0.10, T:0.52
Consensus pattern (20 bp):
TAATTTTACCGGTTTTATCA
Found at i:87763 original size:227 final size:225
Alignment explanation
Indices: 87362--87806 Score: 777
Period size: 227 Copynumber: 2.0 Consensus size: 225
87352 TTAAAACTGC
*
87362 TTTTAAAGTTATGTAATTTATGTTTCAATTTATTTAATAGTGTTTTATGTTTTCCACCTACAATA
1 TTTTAAAGTTATGTAATTTATGTTTCAATTTATTTAATAGTGTTTCATGTTTTCCACCTACAATA
*
87427 TTAATTTAATAATTTAATTTACACAAAATTTTATTTGATTGTTTTGATATTTTATAAAATATTAT
66 TTAATTTAATAATTTAATTTACACAAAATATTATTTGATTGTTTTGATATTTTATAAAATATTAT
*
87492 TTAGAATTTAAATTTAACAATATTAACCAAATATAATAATAAATATGTTTTCAACAGTGAAATAA
131 TTAGAATTTAAATTTAACAATATTAACCAAAGATAATAATAAATA--TTTTC-ACAGTGAAATAA
*
87557 GTATGGACACTTTTATAAAAATGATATATACTT
193 GTATGGACACTTTTATAAAAAGGATATATACTT
87590 TTTTGAAAGTTATGTAATTTATGTTTCAATTT-TTTAATAGTGTTTCATGTTTTCCACCTACAAT
1 TTTT-AAAGTTATGTAATTTATGTTTCAATTTATTTAATAGTGTTTCATGTTTTCCACCTACAAT
*
87654 ATTAATTTAATAATTTCATTTACACAAAA-ATTATTTGATTGTTTTGATATTTTATAAAATATTA
65 ATTAATTTAATAATTTAATTTACACAAAATATTATTTGATTGTTTTGATATTTTATAAAATATTA
* *
87718 TTTAGATTTTAAATTTAACAATATTAACTAAAGATAATAATAAATATTTTCACAGTGAAATAAGT
130 TTTAGAATTTAAATTTAACAATATTAACCAAAGATAATAATAAATATTTTCACAGTGAAATAAGT
87783 ATGGACACTTTTATAAAAAGGATA
195 ATGGACACTTTTATAAAAAGGATA
87807 GATAATTTAC
Statistics
Matches: 209, Mismatches: 7, Indels: 6
0.94 0.03 0.03
Matches are distributed among these distances:
224 37 0.18
225 5 0.02
227 77 0.37
228 63 0.30
229 27 0.13
ACGTcount: A:0.39, C:0.07, G:0.08, T:0.45
Consensus pattern (225 bp):
TTTTAAAGTTATGTAATTTATGTTTCAATTTATTTAATAGTGTTTCATGTTTTCCACCTACAATA
TTAATTTAATAATTTAATTTACACAAAATATTATTTGATTGTTTTGATATTTTATAAAATATTAT
TTAGAATTTAAATTTAACAATATTAACCAAAGATAATAATAAATATTTTCACAGTGAAATAAGTA
TGGACACTTTTATAAAAAGGATATATACTT
Found at i:89803 original size:14 final size:14
Alignment explanation
Indices: 89786--89818 Score: 66
Period size: 14 Copynumber: 2.4 Consensus size: 14
89776 TCTTGTGGTA
89786 TTCTTCTATTCGCT
1 TTCTTCTATTCGCT
89800 TTCTTCTATTCGCT
1 TTCTTCTATTCGCT
89814 TTCTT
1 TTCTT
89819 TGAACTGTAT
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 19 1.00
ACGTcount: A:0.06, C:0.27, G:0.06, T:0.61
Consensus pattern (14 bp):
TTCTTCTATTCGCT
Found at i:93830 original size:21 final size:21
Alignment explanation
Indices: 93804--93844 Score: 82
Period size: 21 Copynumber: 2.0 Consensus size: 21
93794 AGGATAGGTG
93804 TTTTGTAATATTCTTCAAGTA
1 TTTTGTAATATTCTTCAAGTA
93825 TTTTGTAATATTCTTCAAGT
1 TTTTGTAATATTCTTCAAGT
93845 GTCTTGAACT
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
21 20 1.00
ACGTcount: A:0.27, C:0.10, G:0.10, T:0.54
Consensus pattern (21 bp):
TTTTGTAATATTCTTCAAGTA
Found at i:106897 original size:24 final size:26
Alignment explanation
Indices: 106868--106917 Score: 77
Period size: 24 Copynumber: 2.0 Consensus size: 26
106858 CCTCTGTTCG
*
106868 AACATAAATGAACATA-AAT-GAACT
1 AACATAAACGAACATATAATCGAACT
106892 AACATAAACGAACATATAATCGAACT
1 AACATAAACGAACATATAATCGAACT
106918 TTCACGAACG
Statistics
Matches: 23, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
24 15 0.65
25 3 0.13
26 5 0.22
ACGTcount: A:0.56, C:0.16, G:0.08, T:0.20
Consensus pattern (26 bp):
AACATAAACGAACATATAATCGAACT
Found at i:112317 original size:30 final size:29
Alignment explanation
Indices: 112255--112318 Score: 78
Period size: 30 Copynumber: 2.2 Consensus size: 29
112245 AAGCGATCTT
*
112255 ACCACCAAACTATTTTTTATCTCAATTCG
1 ACCACCAAACTATTTTTTAACTCAATTCG
112284 ACCACCAAACT-TTTTAATTAACTCAA-TCAG
1 ACCACCAAACTATTTT--TTAACTCAATTC-G
112314 ACCAC
1 ACCAC
112319 TCTCCGTTAA
Statistics
Matches: 31, Mismatches: 1, Indels: 5
0.84 0.03 0.14
Matches are distributed among these distances:
28 4 0.13
29 13 0.42
30 14 0.45
ACGTcount: A:0.36, C:0.30, G:0.03, T:0.31
Consensus pattern (29 bp):
ACCACCAAACTATTTTTTAACTCAATTCG
Found at i:112882 original size:26 final size:26
Alignment explanation
Indices: 112842--112972 Score: 113
Period size: 26 Copynumber: 5.0 Consensus size: 26
112832 TTTTTTCTTT
112842 AACATTAATCGAACCGAAATTATTTG
1 AACATTAATCGAACCGAAATTATTTG
* * *
112868 ACCGTTAATTGAACCGAAATTTATTTG
1 AACATTAATCGAACCGAAA-TTATTTG
* * ** * *
112895 AAAATTAGT--AACCGATTTTTTTCTTT
1 AACATTAATCGAACCGA-AATTAT-TTG
112921 AACATTAATCGAACCGAAATTATTTG
1 AACATTAATCGAACCGAAATTATTTG
* *
112947 ACCGTTAATCGAACCGAAATTTATTT
1 AACATTAATCGAACCGAAA-TTATTT
112973 AAAAATTATT
Statistics
Matches: 80, Mismatches: 19, Indels: 11
0.73 0.17 0.10
Matches are distributed among these distances:
25 9 0.11
26 44 0.55
27 21 0.26
28 6 0.08
ACGTcount: A:0.37, C:0.15, G:0.11, T:0.37
Consensus pattern (26 bp):
AACATTAATCGAACCGAAATTATTTG
Found at i:112923 original size:79 final size:79
Alignment explanation
Indices: 112806--113052 Score: 386
Period size: 79 Copynumber: 3.1 Consensus size: 79
112796 AGGAAAAAAT
* **
112806 AATTTATTTCAAAATTATTAACAAATTTTTTTCTTTAACATTAATCGAACCGAAATTATTTGACC
1 AATTTATTTAAAAATTATTAACCGATTTTTTTCTTTAACATTAATCGAACCGAAATTATTTGACC
*
112871 GTTAATTGAACCGA
66 GTTAATCGAACCGA
* *
112885 AATTTATTTGAAAATTAGTAACCGATTTTTTTCTTTAACATTAATCGAACCGAAATTATTTGACC
1 AATTTATTTAAAAATTATTAACCGATTTTTTTCTTTAACATTAATCGAACCGAAATTATTTGACC
112950 GTTAATCGAACCGA
66 GTTAATCGAACCGA
112964 AATTTATTTAAAAATTATTAACCGATTTTTTTTCTTTAACCATTAATCGAACCGAAATTATTTGA
1 AATTTATTTAAAAATTATTAACCGA-TTTTTTTCTTTAA-CATTAATCGAACCGAAATTATTTGA
* * *
113029 CTGTTAATCGCACCCA
64 CCGTTAATCGAACCGA
*
113045 AAATTATT
1 AATTTATT
113053 AACCGAATAA
Statistics
Matches: 155, Mismatches: 11, Indels: 2
0.92 0.07 0.01
Matches are distributed among these distances:
79 97 0.63
80 13 0.08
81 45 0.29
ACGTcount: A:0.36, C:0.15, G:0.09, T:0.40
Consensus pattern (79 bp):
AATTTATTTAAAAATTATTAACCGATTTTTTTCTTTAACATTAATCGAACCGAAATTATTTGACC
GTTAATCGAACCGA
Found at i:113074 original size:81 final size:79
Alignment explanation
Indices: 112809--113108 Score: 308
Period size: 79 Copynumber: 3.8 Consensus size: 79
112799 AAAAAATAAT
*
112809 TTATTTCAAAATTATTAACAAA-TTTTTTTCTTTAA-CATTAATCGAACCGAAATTATTTGACCG
1 TTATTTAAAAATTA-TAA-AAATTTTTTTTCTTTAACCATTAATCGAACCGAAATTATTTGACCG
* * *
112872 TTAATTGAACCGAAAT
64 TTAATCGAACCCAAAA
* **
112888 TTATTTGAAAATTAGTAACCGA-TTTTTTTCTTTAA-CATTAATCGAACCGAAATTATTTGACCG
1 TTATTTAAAAATTA-TAA-AAATTTTTTTTCTTTAACCATTAATCGAACCGAAATTATTTGACCG
* *
112951 TTAATCGAACCGAAAT
64 TTAATCGAACCCAAAA
** *
112967 TTATTTAAAAATTATTAACCGATTTTTTTTCTTTAACCATTAATCGAACCGAAATTATTTGACTG
1 TTATTTAAAAATTA-TAA-AAATTTTTTTTCTTTAACCATTAATCGAACCGAAATTATTTGACCG
*
113032 TTAATCGCACCCAAAA
64 TTAATCGAACCCAAAA
* * * *
113048 TTA-TTAACCGAA-TA-AAATATTTTTTTTTCTTTAACCGTTAATCAAACCGAAATTTATTTGA
1 TTATTTAA--AAATTATAAA-AATTTTTTTTCTTTAACCATTAATCGAACCGAAA-TTATTTGA
113109 AAATTATTAA
Statistics
Matches: 198, Mismatches: 17, Indels: 11
0.88 0.08 0.05
Matches are distributed among these distances:
79 126 0.64
80 25 0.13
81 45 0.23
82 2 0.01
ACGTcount: A:0.36, C:0.15, G:0.08, T:0.40
Consensus pattern (79 bp):
TTATTTAAAAATTATAAAAATTTTTTTTCTTTAACCATTAATCGAACCGAAATTATTTGACCGTT
AATCGAACCCAAAA
Found at i:113151 original size:70 final size:68
Alignment explanation
Indices: 113044--113312 Score: 352
Period size: 70 Copynumber: 4.0 Consensus size: 68
113034 AATCGCACCC
* *
113044 AAAATTATTAACCGAAT--AA-AA-TATTTTTTTTTCTTTAACCGTTAATCAAACCGAAATTTAT
1 AAAATTATTAACCGAATCAAATAACGATTTTTTTTTCTTTAACCATTAATCAAACCGAAATTTAT
113105 TTG
66 TTG
* *
113108 AAAATTATTAACCGAACCAAATCAATCGATTTTTTTTTCTTTAACCATTAATCGAACCGAAATTT
1 AAAATTATTAACCGAATCAAAT-AA-CGATTTTTTTTTCTTTAACCATTAATCAAACCGAAATTT
113173 ATTTG
64 ATTTG
* * * * *
113178 AAAATTATTAACCGAATAAAATAA--ATTCTTTTTTCCTTAACCGTTAATCGAACCGAAATTTAT
1 AAAATTATTAACCGAATCAAATAACGATTTTTTTTTCTTTAACCATTAATCAAACCGAAATTTAT
113241 TTG
66 TTG
* * *
113244 AAAATTATTAACCGAATCAAATTAACCGAATTTTTTTTCTGTAACCATTAATCAAACTGAAATTT
1 AAAATTATTAACCGAATCAAA-TAA-CGATTTTTTTTTCTTTAACCATTAATCAAACCGAAATTT
113309 ATTT
64 ATTT
113313 AACTAAATAA
Statistics
Matches: 178, Mismatches: 17, Indels: 14
0.85 0.08 0.07
Matches are distributed among these distances:
64 16 0.09
66 61 0.34
67 3 0.02
68 2 0.01
69 2 0.01
70 94 0.53
ACGTcount: A:0.39, C:0.15, G:0.07, T:0.39
Consensus pattern (68 bp):
AAAATTATTAACCGAATCAAATAACGATTTTTTTTTCTTTAACCATTAATCAAACCGAAATTTAT
TTG
Found at i:113245 original size:136 final size:134
Alignment explanation
Indices: 113044--113312 Score: 430
Period size: 136 Copynumber: 2.0 Consensus size: 134
113034 AATCGCACCC
* *
113044 AAAATTATTAACCGAATAAAATATTTTTTTTTCTTTAACCGTTAATCAAACCGAAATTTATTTGA
1 AAAATTATTAACCGAATAAAATATTCTTTTTTCCTTAACCGTTAATCAAACCGAAATTTATTTGA
* * * *
113109 AAATTATTAACCGAACCAAATCAATCGATTTTTTTTTCTTTAACCATTAATCGAACCGAAATTTA
66 AAATTATTAACCGAACCAAATCAACCGAATTTTTTTTCTGTAACCATTAATCAAACCGAAATTTA
113174 TTTG
131 TTTG
*
113178 AAAATTATTAACCGAATAAAATAAATTCTTTTTTCCTTAACCGTTAATCGAACCGAAATTTATTT
1 AAAATTATTAACCGAATAAAAT--ATTCTTTTTTCCTTAACCGTTAATCAAACCGAAATTTATTT
* * *
113243 GAAAATTATTAACCGAATCAAATTAACCGAATTTTTTTTCTGTAACCATTAATCAAACTGAAATT
64 GAAAATTATTAACCGAACCAAATCAACCGAATTTTTTTTCTGTAACCATTAATCAAACCGAAATT
113308 TATTT
129 TATTT
113313 AACTAAATAA
Statistics
Matches: 123, Mismatches: 10, Indels: 2
0.91 0.07 0.01
Matches are distributed among these distances:
134 22 0.18
136 101 0.82
ACGTcount: A:0.39, C:0.15, G:0.07, T:0.39
Consensus pattern (134 bp):
AAAATTATTAACCGAATAAAATATTCTTTTTTCCTTAACCGTTAATCAAACCGAAATTTATTTGA
AAATTATTAACCGAACCAAATCAACCGAATTTTTTTTCTGTAACCATTAATCAAACCGAAATTTA
TTTG
Found at i:122230 original size:60 final size:60
Alignment explanation
Indices: 122157--122273 Score: 146
Period size: 60 Copynumber: 1.9 Consensus size: 60
122147 CATGTCCACG
* * *
122157 ATTATAAGATATTGTTTTATTAAGTCCCTTGATTATTAAAAGTTATAAAATGATCATCCA
1 ATTATAAGATATTGGTTTATTAAGTCCATTGATTATTAAAAATTATAAAATGATCATCCA
* * * * *
122217 ATTAT-AGAGTATTGGTTTGTTGAGTTCATTGATTATTAAAAATTATTAAATGGTCAT
1 ATTATAAGA-TATTGGTTTATTAAGTCCATTGATTATTAAAAATTATAAAATGATCAT
122274 TCGACTATTC
Statistics
Matches: 48, Mismatches: 8, Indels: 2
0.83 0.14 0.03
Matches are distributed among these distances:
59 3 0.06
60 45 0.94
ACGTcount: A:0.36, C:0.07, G:0.14, T:0.44
Consensus pattern (60 bp):
ATTATAAGATATTGGTTTATTAAGTCCATTGATTATTAAAAATTATAAAATGATCATCCA
Found at i:134747 original size:22 final size:23
Alignment explanation
Indices: 134701--134761 Score: 72
Period size: 25 Copynumber: 2.7 Consensus size: 23
134691 AAAATAAATC
134701 TAAATAATAATTATTAATTTATTAA
1 TAAATAATAA--ATTAATTTATTAA
*
134726 TAAATAATAAATTACTTT-TTAA
1 TAAATAATAAATTAATTTATTAA
*
134748 AAAAT-ATAAATTAA
1 TAAATAATAAATTAA
134762 CTAATCTATT
Statistics
Matches: 33, Mismatches: 3, Indels: 4
0.82 0.08 0.10
Matches are distributed among these distances:
21 8 0.24
22 8 0.24
23 7 0.21
25 10 0.30
ACGTcount: A:0.56, C:0.02, G:0.00, T:0.43
Consensus pattern (23 bp):
TAAATAATAAATTAATTTATTAA
Found at i:135683 original size:22 final size:22
Alignment explanation
Indices: 135639--135683 Score: 63
Period size: 22 Copynumber: 2.0 Consensus size: 22
135629 ATTTAATATG
* *
135639 TTAGTTTGGTGACTTTATGGAT
1 TTAGTTTGGTGAATTTATAGAT
*
135661 TTAGTTTGGTGAATTTGTAGAT
1 TTAGTTTGGTGAATTTATAGAT
135683 T
1 T
135684 GTTACATTAG
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
22 20 1.00
ACGTcount: A:0.20, C:0.02, G:0.27, T:0.51
Consensus pattern (22 bp):
TTAGTTTGGTGAATTTATAGAT
Found at i:135741 original size:65 final size:64
Alignment explanation
Indices: 135608--135741 Score: 141
Period size: 65 Copynumber: 2.1 Consensus size: 64
135598 AGTTTGATGT
* * **
135608 ATTTGTAGATTGTTAATGTAGATTTAATATGTTAGTTTGGTGACTTTATGGATTTAGTTTGGTGA
1 ATTTGTAGATTGTTAATGTAGATTTAATATGTTAGTTTAGTGACTTTATGGATTTAATTT-GAAA
*
135673 ATTTGTAGATTGTTACAT-TAG-TTCTAATATGTTAGTTTAGTGTA-TTTGTGGATTGTTAATTT
1 ATTTGTAGATTGTTA-ATGTAGATT-TAATATGTTAGTTTAGTG-ACTTTATGGA-T-TTAATTT
135735 -AAA
61 GAAA
135738 ATTT
1 ATTT
135742 AGACTGTGAG
Statistics
Matches: 59, Mismatches: 5, Indels: 10
0.80 0.07 0.14
Matches are distributed among these distances:
64 2 0.03
65 47 0.80
66 4 0.07
67 6 0.10
ACGTcount: A:0.26, C:0.02, G:0.21, T:0.51
Consensus pattern (64 bp):
ATTTGTAGATTGTTAATGTAGATTTAATATGTTAGTTTAGTGACTTTATGGATTTAATTTGAAA
Found at i:135897 original size:21 final size:21
Alignment explanation
Indices: 135871--135916 Score: 65
Period size: 21 Copynumber: 2.2 Consensus size: 21
135861 TTTTTTTAGT
* *
135871 GAGTTTAACGAGCAACGAGTC
1 GAGTTTAACAAACAACGAGTC
*
135892 GAGTTTAATAAACAACGAGTC
1 GAGTTTAACAAACAACGAGTC
135913 GAGT
1 GAGT
135917 CGAGTCGAAC
Statistics
Matches: 22, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
21 22 1.00
ACGTcount: A:0.37, C:0.15, G:0.26, T:0.22
Consensus pattern (21 bp):
GAGTTTAACAAACAACGAGTC
Found at i:135993 original size:31 final size:31
Alignment explanation
Indices: 135912--135993 Score: 94
Period size: 34 Copynumber: 2.6 Consensus size: 31
135902 AACAACGAGT
*
135912 CGAGT-CGAGTCGAACATCAAATTTTTTTAA
1 CGAGTACGAGTCGAGCATCAAATTTTTTTAA
* *
135942 CGAGTACGAGTTGAGTAGCATCAATTTTTTTTAA
1 CGAGTACGAG-T-CG-AGCATCAAATTTTTTTAA
*
135976 TGAGTACGAGTCGAGCAT
1 CGAGTACGAGTCGAGCAT
135994 AACTTTAACA
Statistics
Matches: 43, Mismatches: 5, Indels: 7
0.78 0.09 0.13
Matches are distributed among these distances:
30 5 0.12
31 9 0.21
32 2 0.05
33 2 0.05
34 25 0.58
ACGTcount: A:0.30, C:0.15, G:0.22, T:0.33
Consensus pattern (31 bp):
CGAGTACGAGTCGAGCATCAAATTTTTTTAA
Found at i:137085 original size:5 final size:5
Alignment explanation
Indices: 137075--137103 Score: 58
Period size: 5 Copynumber: 5.8 Consensus size: 5
137065 AAAATGTGTC
137075 ATTAT ATTAT ATTAT ATTAT ATTAT ATTA
1 ATTAT ATTAT ATTAT ATTAT ATTAT ATTA
137104 AAGAATAATT
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 24 1.00
ACGTcount: A:0.41, C:0.00, G:0.00, T:0.59
Consensus pattern (5 bp):
ATTAT
Found at i:138825 original size:60 final size:60
Alignment explanation
Indices: 138709--138834 Score: 155
Period size: 60 Copynumber: 2.1 Consensus size: 60
138699 AACATAATGA
* * * *
138709 ATAGTCAGATGACTATTTTGTAACTTTTAATAGTTAAACGACTTAATAAAACAATATTAT
1 ATAGTCAGAAGACTATTTTATAACTTTTAATAATTAAACGACTTAATAAAACAATATCAT
* * ** *
138769 ATAGTCAGAAGATTATTTTATAACTTTTAATAATT-AATGTACTTAATAAAGTAATATCCT
1 ATAGTCAGAAGACTATTTTATAACTTTTAATAATTAAACG-ACTTAATAAAACAATATCAT
138829 ATAGTC
1 ATAGTC
138835 GGGATTATTT
Statistics
Matches: 56, Mismatches: 9, Indels: 2
0.84 0.13 0.03
Matches are distributed among these distances:
59 3 0.05
60 53 0.95
ACGTcount: A:0.41, C:0.10, G:0.10, T:0.40
Consensus pattern (60 bp):
ATAGTCAGAAGACTATTTTATAACTTTTAATAATTAAACGACTTAATAAAACAATATCAT
Found at i:142749 original size:37 final size:37
Alignment explanation
Indices: 142676--142750 Score: 98
Period size: 38 Copynumber: 2.0 Consensus size: 37
142666 GTTGGAAAAT
* *
142676 ATTTATATATTTTATTTAAAAAATTTAAATTCATAAA
1 ATTTATATATTTTATTTAAAAAATTGAAAATCATAAA
* *
142713 ATTTATATAATTTTTTTTACAAAATTGAAAAT-ATAAA
1 ATTTATAT-ATTTTATTTAAAAAATTGAAAATCATAAA
142750 A
1 A
142751 AGATTTAATG
Statistics
Matches: 33, Mismatches: 4, Indels: 2
0.85 0.10 0.05
Matches are distributed among these distances:
37 14 0.42
38 19 0.58
ACGTcount: A:0.49, C:0.03, G:0.01, T:0.47
Consensus pattern (37 bp):
ATTTATATATTTTATTTAAAAAATTGAAAATCATAAA
Found at i:145953 original size:30 final size:31
Alignment explanation
Indices: 145876--145953 Score: 97
Period size: 30 Copynumber: 2.5 Consensus size: 31
145866 TTAATGTCTC
* *
145876 AATGATCATAATATTATAAATTGATAAAGTA
1 AATGATCAAAATGTTATAAATTGATAAAGTA
* *
145907 AATGA-CTAAAAAGTTATAAA-TGATTAAGTA
1 AATGATC-AAAATGTTATAAATTGATAAAGTA
145937 AATGATCAAAATGTTAT
1 AATGATCAAAATGTTAT
145954 TTTATTAAAT
Statistics
Matches: 40, Mismatches: 5, Indels: 5
0.80 0.10 0.10
Matches are distributed among these distances:
30 24 0.60
31 16 0.40
ACGTcount: A:0.51, C:0.04, G:0.12, T:0.33
Consensus pattern (31 bp):
AATGATCAAAATGTTATAAATTGATAAAGTA
Found at i:153788 original size:20 final size:20
Alignment explanation
Indices: 153765--153811 Score: 53
Period size: 20 Copynumber: 2.4 Consensus size: 20
153755 TTTTAGTTAG
*
153765 AAAATTATTTCATGGTCA-AT
1 AAAATTATTACAT-GTCATAT
153785 AAAATGT-TTACATGTCATAT
1 AAAAT-TATTACATGTCATAT
153805 AAAATTA
1 AAAATTA
153812 AGTACTTATT
Statistics
Matches: 23, Mismatches: 1, Indels: 6
0.77 0.03 0.20
Matches are distributed among these distances:
19 5 0.22
20 17 0.74
21 1 0.04
ACGTcount: A:0.45, C:0.09, G:0.09, T:0.38
Consensus pattern (20 bp):
AAAATTATTACATGTCATAT
Found at i:154267 original size:201 final size:202
Alignment explanation
Indices: 153921--154330 Score: 759
Period size: 201 Copynumber: 2.0 Consensus size: 202
153911 TGCATATATT
*
153921 AATTTAAATAAATTGTTTGACCAGAAAATAATTTAGGTATCTAAAGCAAAAAATAGCATAGTTTA
1 AATTTAAATAAATAGTTTGACCAGAAAATAATTTAGGTATCTAAAGCAAAAAATAGCATAGTTTA
*
153986 AGTTTTTTTCTCTCCCGATTCTAGGTTTTACTCTGACTAATTCGGACAGATCTACGTTACTCATG
66 AGTTTTTTTCTCTCCCGATTCTAGGTTTTACTCTGACTAATCCGGACAGATCTACGTTACTCATG
*
154051 TGACTTTGATAGATGAGTCTCACAATGGAGATTTTCTATATATACAATTACTTGAACCAATAATT
131 TGACTTTGATAGATGAGTCTCACAATGAAGATTTTCTATATATACAATTACTTGAACCAATAATT
154116 TAAAGAC
196 TAAAGAC
*
154123 AATTTAAATATATAGTTTGACCAGAAAATAATTTAGGTATCTAAAGCAAAAAATAGCATAGTTTA
1 AATTTAAATAAATAGTTTGACCAGAAAATAATTTAGGTATCTAAAGCAAAAAATAGCATAGTTTA
*
154188 AG-TTTTTTCTCTCCCGATTCTAGGTTTTACTCTGATTAATCCGGACAGATCTACGTTACTCATG
66 AGTTTTTTTCTCTCCCGATTCTAGGTTTTACTCTGACTAATCCGGACAGATCTACGTTACTCATG
*
154252 TGACTTTGATAGATGAGTCTCATAATGAAGATTTTCTATATATACAATTACTTGAACCAATAATT
131 TGACTTTGATAGATGAGTCTCACAATGAAGATTTTCTATATATACAATTACTTGAACCAATAATT
154317 TAAAGAC
196 TAAAGAC
154324 AATTTAA
1 AATTTAA
154331 TTTAAAATAT
Statistics
Matches: 202, Mismatches: 6, Indels: 1
0.97 0.03 0.00
Matches are distributed among these distances:
201 137 0.68
202 65 0.32
ACGTcount: A:0.36, C:0.14, G:0.13, T:0.36
Consensus pattern (202 bp):
AATTTAAATAAATAGTTTGACCAGAAAATAATTTAGGTATCTAAAGCAAAAAATAGCATAGTTTA
AGTTTTTTTCTCTCCCGATTCTAGGTTTTACTCTGACTAATCCGGACAGATCTACGTTACTCATG
TGACTTTGATAGATGAGTCTCACAATGAAGATTTTCTATATATACAATTACTTGAACCAATAATT
TAAAGAC
Found at i:160787 original size:26 final size:26
Alignment explanation
Indices: 160751--160811 Score: 95
Period size: 26 Copynumber: 2.3 Consensus size: 26
160741 AGAGTTGGTC
* *
160751 ATTTGATCTGAACTTGGCAGATTTTG
1 ATTTGATCTGAACTCGACAGATTTTG
*
160777 ATTTGATCTGAACTCGACAGGTTTTG
1 ATTTGATCTGAACTCGACAGATTTTG
160803 ATTTGATCT
1 ATTTGATCT
160812 AATTTTATAA
Statistics
Matches: 32, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
26 32 1.00
ACGTcount: A:0.23, C:0.13, G:0.21, T:0.43
Consensus pattern (26 bp):
ATTTGATCTGAACTCGACAGATTTTG
Found at i:163437 original size:2 final size:2
Alignment explanation
Indices: 163430--163460 Score: 53
Period size: 2 Copynumber: 15.5 Consensus size: 2
163420 TCAATGTACC
*
163430 CT CT CT CT CT CT CT CT CT CT CT CC CT CT CT C
1 CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT C
163461 GAATCTGCAT
Statistics
Matches: 27, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
2 27 1.00
ACGTcount: A:0.00, C:0.55, G:0.00, T:0.45
Consensus pattern (2 bp):
CT
Found at i:165785 original size:23 final size:22
Alignment explanation
Indices: 165752--165812 Score: 61
Period size: 24 Copynumber: 2.7 Consensus size: 22
165742 TATTGAATTA
*
165752 TATTTGAATAATTATTTTGATTAG
1 TATTTGTATAATTATTTT-ATT-G
* *
165776 TATTT-TATAAATAATTTTATTT
1 TATTTGTAT-AATTATTTTATTG
165798 TATTTGTATAATTAT
1 TATTTGTATAATTAT
165813 GAGATGAACT
Statistics
Matches: 31, Mismatches: 4, Indels: 6
0.76 0.10 0.15
Matches are distributed among these distances:
22 10 0.32
23 8 0.26
24 13 0.42
ACGTcount: A:0.34, C:0.00, G:0.07, T:0.59
Consensus pattern (22 bp):
TATTTGTATAATTATTTTATTG
Found at i:171605 original size:17 final size:17
Alignment explanation
Indices: 171567--171611 Score: 54
Period size: 17 Copynumber: 2.6 Consensus size: 17
171557 ATTAATTTTT
*
171567 TAATTAAAAATATATAA
1 TAATTTAAAATATATAA
* *
171584 AAATTTAAAATATATGA
1 TAATTTAAAATATATAA
*
171601 TAATTTTAAAT
1 TAATTTAAAAT
171612 TTTAGATGTG
Statistics
Matches: 23, Mismatches: 5, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
17 23 1.00
ACGTcount: A:0.58, C:0.00, G:0.02, T:0.40
Consensus pattern (17 bp):
TAATTTAAAATATATAA
Found at i:172332 original size:42 final size:41
Alignment explanation
Indices: 172280--172616 Score: 208
Period size: 42 Copynumber: 8.0 Consensus size: 41
172270 GATTTACATA
* *
172280 TTCGCATTGCGATAGTCCAAGTTCGTGTTGCGA-TAGTCGAAG
1 TTCGCGTTGCGATAGTCCAAGTTC--GTTGCGATTAGTCCAAG
* * * * * *
172322 TTCGCGTTGCGATTTATTCTAAATTCGTTACGATTTATTCCAAA
1 TTCGCGTTGCGA--TAGTCCAAGTTCGTTGCGA-TTAGTCCAAG
* *
172366 TT--CGTTGCGATAGTCCAAGTTCACGTTACGATTTATTCCAAG
1 TTCGCGTTGCGATAGTCCAAGTT--CGTTGCGA-TTAGTCCAAG
* * *
172408 TT--CGTTGCGATAGTCGAAGTTCGCGTTGCGATTTATTCCAAA
1 TTCGCGTTGCGATAGTCCAAGTT--CGTTGCGA-TTAGTCCAAG
* *
172450 TT--CGTTGCGATTTATTCCAAATTCGTTGCGA-TAGTCCAAG
1 TTCGCGTTGCGA--TAGTCCAAGTTCGTTGCGATTAGTCCAAG
* *
172490 TTCGCGTTGCGATTTATTCCAAGTTCGTTGCGA-TAGTCGAAG
1 TTCGCGTTGCGA--TAGTCCAAGTTCGTTGCGATTAGTCCAAG
* * * *
172532 TTCGCGTTGCGATTTATTCCAAATTCGTTGCGATTTATTCCAAA
1 TTCGCGTTGCGA--TAGTCCAAGTTCGTTGCGA-TTAGTCCAAG
* * *
172576 TTCGCGTTACGATTTATTCCAAATTCGTTGCGA-TAGTCCAA
1 TTCGCGTTGCGA--TAGTCCAAGTTCGTTGCGATTAGTCCAA
172617 AATCGCAACG
Statistics
Matches: 254, Mismatches: 29, Indels: 24
0.83 0.09 0.08
Matches are distributed among these distances:
40 17 0.07
42 174 0.69
44 63 0.25
ACGTcount: A:0.23, C:0.20, G:0.20, T:0.37
Consensus pattern (41 bp):
TTCGCGTTGCGATAGTCCAAGTTCGTTGCGATTAGTCCAAG
Found at i:172386 original size:63 final size:63
Alignment explanation
Indices: 172286--172617 Score: 283
Period size: 63 Copynumber: 5.3 Consensus size: 63
172276 CATATTCGCA
* * * * *
172286 TTGCGA-TAGTCCAAGTTCGTGTTGCGA-TAGTCGAAGTTCGCGTTGCGATTTATTCTAAATTCG
1 TTGCGATTAGTCCAAATTC-CGTTGCGATTATTCCAAGTTC-CGTTGCGATTTATTCCAAATTCG
* * * * *
172349 TTACGATTTATTCCAAATT-CGTTGCGA-TAGTCCAAGTTCACGTTACGATTTATTCCAAGTTCG
1 TTGCGA-TTAGTCCAAATTCCGTTGCGATTATTCCAAGTTC-CGTTGCGATTTATTCCAAATTCG
* * *
172412 TTGCGA-TAGTCGAAGTTCGCGTTGCGATTTATTCCAAATT-CGTTGCGATTTATTCCAAATTCG
1 TTGCGATTAGTCCAAATTC-CGTTGCGA-TTATTCCAAGTTCCGTTGCGATTTATTCCAAATTCG
* * * *
172475 TTGCGA-TAGTCCAAGTTCGCGTTGCGATTTATTCCAAGTT-CGTTGCGA--TAGTCGAAGTTCG
1 TTGCGATTAGTCCAAATTC-CGTTGCGA-TTATTCCAAGTTCCGTTGCGATTTATTCCAAATT--
172536 CG
62 CG
* * *
172538 TTGCGATTTATTCCAAATT-CGTTGCGATTTATTCCAAATTCGCGTTACGATTTATTCCAAATTC
1 TTGCGA-TTAGTCCAAATTCCGTTGCGA-TTATTCCAAGTTC-CGTTGCGATTTATTCCAAATTC
172602 G
63 G
172603 TTGCGA-TAGTCCAAA
1 TTGCGATTAGTCCAAA
172618 ATCGCAACGA
Statistics
Matches: 225, Mismatches: 30, Indels: 28
0.80 0.11 0.10
Matches are distributed among these distances:
61 16 0.07
63 159 0.71
65 42 0.19
67 8 0.04
ACGTcount: A:0.23, C:0.20, G:0.20, T:0.37
Consensus pattern (63 bp):
TTGCGATTAGTCCAAATTCCGTTGCGATTATTCCAAGTTCCGTTGCGATTTATTCCAAATTCG
Found at i:172488 original size:105 final size:105
Alignment explanation
Indices: 172295--172579 Score: 516
Period size: 105 Copynumber: 2.7 Consensus size: 105
172285 ATTGCGATAG
* *
172295 TCCAAGTTCGTGTTGCGATAGTCGAAGTTCGCGTTGCGATTTATTCTAAATTCGTTACGATTTAT
1 TCCAAGTTC--GTTGCGATAGTCGAAGTTCGCGTTGCGATTTATTCCAAATTCGTTGCGATTTAT
172360 TCCAAATTCGTTGCGATAGTCCAAGTTCACGTTACGATTTAT
64 TCCAAATTCGTTGCGATAGTCCAAGTTCACGTTACGATTTAT
172402 TCCAAGTTCGTTGCGATAGTCGAAGTTCGCGTTGCGATTTATTCCAAATTCGTTGCGATTTATTC
1 TCCAAGTTCGTTGCGATAGTCGAAGTTCGCGTTGCGATTTATTCCAAATTCGTTGCGATTTATTC
* *
172467 CAAATTCGTTGCGATAGTCCAAGTTCGCGTTGCGATTTAT
66 CAAATTCGTTGCGATAGTCCAAGTTCACGTTACGATTTAT
172507 TCCAAGTTCGTTGCGATAGTCGAAGTTCGCGTTGCGATTTATTCCAAATTCGTTGCGATTTATTC
1 TCCAAGTTCGTTGCGATAGTCGAAGTTCGCGTTGCGATTTATTCCAAATTCGTTGCGATTTATTC
172572 CAAATTCG
66 CAAATTCG
172580 CGTTACGATT
Statistics
Matches: 174, Mismatches: 4, Indels: 2
0.97 0.02 0.01
Matches are distributed among these distances:
105 165 0.95
107 9 0.05
ACGTcount: A:0.22, C:0.20, G:0.21, T:0.38
Consensus pattern (105 bp):
TCCAAGTTCGTTGCGATAGTCGAAGTTCGCGTTGCGATTTATTCCAAATTCGTTGCGATTTATTC
CAAATTCGTTGCGATAGTCCAAGTTCACGTTACGATTTAT
Found at i:172560 original size:21 final size:21
Alignment explanation
Indices: 172326--172609 Score: 278
Period size: 21 Copynumber: 13.4 Consensus size: 21
172316 TCGAAGTTCG
*
172326 CGTTGCGATTTATTCTAAATT
1 CGTTGCGATTTATTCCAAATT
*
172347 CGTTACGATTTATTCCAAATT
1 CGTTGCGATTTATTCCAAATT
* *
172368 CGTTGCGA--TAGTCCAAGTT
1 CGTTGCGATTTATTCCAAATT
* *
172387 CACGTTACGATTTATTCCAAGTT
1 --CGTTGCGATTTATTCCAAATT
* * *
172410 CGTTGCGA--TAGTCGAAGTT
1 CGTTGCGATTTATTCCAAATT
172429 CGCGTTGCGATTTATTCCAAATT
1 --CGTTGCGATTTATTCCAAATT
172452 CGTTGCGATTTATTCCAAATT
1 CGTTGCGATTTATTCCAAATT
* *
172473 CGTTGCGA--TAGTCCAAGTT
1 CGTTGCGATTTATTCCAAATT
*
172492 CGCGTTGCGATTTATTCCAAGTT
1 --CGTTGCGATTTATTCCAAATT
* * *
172515 CGTTGCGA--TAGTCGAAGTT
1 CGTTGCGATTTATTCCAAATT
172534 CGCGTTGCGATTTATTCCAAATT
1 --CGTTGCGATTTATTCCAAATT
172557 CGTTGCGATTTATTCCAAATT
1 CGTTGCGATTTATTCCAAATT
*
172578 CGCGTTACGATTTATTCCAAATT
1 --CGTTGCGATTTATTCCAAATT
172601 CGTTGCGAT
1 CGTTGCGAT
172610 AGTCCAAAAT
Statistics
Matches: 222, Mismatches: 23, Indels: 36
0.79 0.08 0.13
Matches are distributed among these distances:
19 36 0.16
21 130 0.59
23 56 0.25
ACGTcount: A:0.23, C:0.20, G:0.19, T:0.38
Consensus pattern (21 bp):
CGTTGCGATTTATTCCAAATT
Found at i:172596 original size:86 final size:84
Alignment explanation
Indices: 172452--172613 Score: 270
Period size: 86 Copynumber: 1.9 Consensus size: 84
172442 ATTCCAAATT
* * *
172452 CGTTGCGATTTATTCCAAATTCGTTGCGATAGTCCAAGTTCGCGTTGCGATTTATTCCAAGTTCG
1 CGTTGCGATTTATTCCAAATTCGTTGCGATAGTCCAAATTCGCGTTACGATTTATTCCAAATTCG
172517 TTGCGATAGTCGAAGTTCG
66 TTGCGATAGTCGAAGTTCG
*
172536 CGTTGCGATTTATTCCAAATTCGTTGCGATTTATTCCAAATTCGCGTTACGATTTATTCCAAATT
1 CGTTGCGATTTATTCCAAATTCGTTGCGA--TAGTCCAAATTCGCGTTACGATTTATTCCAAATT
172601 CGTTGCGATAGTC
64 CGTTGCGATAGTC
172614 CAAAATCGCA
Statistics
Matches: 72, Mismatches: 4, Indels: 2
0.92 0.05 0.03
Matches are distributed among these distances:
84 29 0.40
86 43 0.60
ACGTcount: A:0.22, C:0.20, G:0.20, T:0.38
Consensus pattern (84 bp):
CGTTGCGATTTATTCCAAATTCGTTGCGATAGTCCAAATTCGCGTTACGATTTATTCCAAATTCG
TTGCGATAGTCGAAGTTCG
Done.