Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: VEPZ01001458.1 Hibiscus syriacus cultivar Beakdansim tig00002813_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: 210874
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
File 1 of 2
Found at i:310 original size:2 final size:2
Alignment explanation
Indices: 303--344 Score: 61
Period size: 2 Copynumber: 22.0 Consensus size: 2
293 TATGAATAAT
*
303 TA TA TA TA TG T- TA -A TA TA TA TA TA TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
343 TA
1 TA
345 GTGAGAGAAG
Statistics
Matches: 37, Mismatches: 1, Indels: 4
0.88 0.02 0.10
Matches are distributed among these distances:
1 2 0.05
2 35 0.95
ACGTcount: A:0.48, C:0.00, G:0.02, T:0.50
Consensus pattern (2 bp):
TA
Found at i:312 original size:16 final size:16
Alignment explanation
Indices: 291--343 Score: 65
Period size: 16 Copynumber: 3.3 Consensus size: 16
281 GAAATGGGTT
291 TATATGAATAAT-TATA
1 TATATG-ATAATATATA
*
307 TATATGTTAATATATA
1 TATATGATAATATATA
323 TATAT-ATATATATATA
1 TATATGATA-ATATATA
339 TATAT
1 TATAT
344 AGTGAGAGAA
Statistics
Matches: 33, Mismatches: 2, Indels: 4
0.85 0.05 0.10
Matches are distributed among these distances:
15 6 0.18
16 27 0.82
ACGTcount: A:0.47, C:0.00, G:0.04, T:0.49
Consensus pattern (16 bp):
TATATGATAATATATA
Found at i:765 original size:12 final size:12
Alignment explanation
Indices: 748--772 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
738 AAAAGAAGCT
748 ATGTGATACGTG
1 ATGTGATACGTG
760 ATGTGATACGTG
1 ATGTGATACGTG
772 A
1 A
773 ATTACAAGTT
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:0.28, C:0.08, G:0.32, T:0.32
Consensus pattern (12 bp):
ATGTGATACGTG
Found at i:1086 original size:144 final size:146
Alignment explanation
Indices: 892--1166 Score: 475
Period size: 144 Copynumber: 1.9 Consensus size: 146
882 CCTTCGGGAC
*
892 ATATTCTTGGAATATGTGTGAAGTCTTGAAAGACACATACTTGATCCCTAGTATATGTATATGAT
1 ATATTCTTGGAACATGTGT--AGTCTTGAAAGACACATACTTGATCCCTAGTATATGTATATGAT
*
957 TCTTAAGGAATAATATGT-GTCCTTATGGACATTATTATATGGCA-TACGGTGCAATTCTACGCG
64 TCTTAAGGAATAATATGTGGTCCTTATGGACATTATTATATGGCACTACGGTGCAAATCTACGCG
1020 GTCCTTCGGGATATATAT
129 GTCCTTCGGGATATATAT
1038 ATATTCTGTGGAACATGTGT-GTCTTGAAAGACACATACTTGATCCCTAGTATATGTATATGATT
1 ATATTCT-TGGAACATGTGTAGTCTTGAAAGACACATACTTGATCCCTAGTATATGTATATGATT
*
1102 CTTAAGGAATAATATGTGGTCCTTATGGACATTGTTATATGGCACTACGGTGCAAATCTACGCGG
65 CTTAAGGAATAATATGTGGTCCTTATGGACATTATTATATGGCACTACGGTGCAAATCTACGCGG
1167 CACTCGGGTG
Statistics
Matches: 123, Mismatches: 3, Indels: 6
0.93 0.02 0.05
Matches are distributed among these distances:
144 61 0.50
145 25 0.20
146 26 0.21
147 11 0.09
ACGTcount: A:0.29, C:0.15, G:0.21, T:0.35
Consensus pattern (146 bp):
ATATTCTTGGAACATGTGTAGTCTTGAAAGACACATACTTGATCCCTAGTATATGTATATGATTC
TTAAGGAATAATATGTGGTCCTTATGGACATTATTATATGGCACTACGGTGCAAATCTACGCGGT
CCTTCGGGATATATAT
Found at i:4468 original size:21 final size:21
Alignment explanation
Indices: 4442--4483 Score: 57
Period size: 21 Copynumber: 2.0 Consensus size: 21
4432 TTCTGGGCAT
* *
4442 GGGGAATCGGTACCCATTCAA
1 GGGGAACCGATACCCATTCAA
*
4463 GGGGAACCGATACCCCTTCAA
1 GGGGAACCGATACCCATTCAA
4484 ACGAACAACA
Statistics
Matches: 18, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
21 18 1.00
ACGTcount: A:0.29, C:0.29, G:0.26, T:0.17
Consensus pattern (21 bp):
GGGGAACCGATACCCATTCAA
Found at i:5433 original size:2 final size:2
Alignment explanation
Indices: 5426--5469 Score: 88
Period size: 2 Copynumber: 22.0 Consensus size: 2
5416 GAACATGTGA
5426 AT AT AT AT AT AT AT AT AT 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 AT AT AT AT AT AT
5468 AT
1 AT
5470 GTCTGAGAGA
Statistics
Matches: 42, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 42 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:5907 original size:14 final size:14
Alignment explanation
Indices: 5888--5915 Score: 56
Period size: 14 Copynumber: 2.0 Consensus size: 14
5878 GAAAAGAAGC
5888 TATGTGATACGTGA
1 TATGTGATACGTGA
5902 TATGTGATACGTGA
1 TATGTGATACGTGA
5916 ATTACAAGTT
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 14 1.00
ACGTcount: A:0.29, C:0.07, G:0.29, T:0.36
Consensus pattern (14 bp):
TATGTGATACGTGA
Found at i:6341 original size:149 final size:149
Alignment explanation
Indices: 6016--6317 Score: 541
Period size: 149 Copynumber: 2.0 Consensus size: 149
6006 GAGTCGAGGG
* * * *
6016 TCTACACGGTCCTTCGGGACATATGTATATTCTTTGGAACATGTGTGAAGTCTTGAAAGACACAT
1 TCTACGCGGTCCTTCGGGATATATATATATTCTGTGGAACATGTGTGAAGTCTTGAAAGACACAT
6081 ACTTGATCCCTAGTATATGTATATGATTCTTAAGGAATAATATGTGGTCCTTATGGACATTATTA
66 ACTTGATCCCTAGTATATGTATATGATTCTTAAGGAATAATATGTGGTCCTTATGGACATTATTA
* *
6146 TATGGCACTACGGTGCAAT
131 TATGGAACTACGGTGCAAA
6165 TCTACGCGGTCCTTCGGGATATATATATATTCTGTGGAACATGTGTGAAGTCTTGAAAGACACAT
1 TCTACGCGGTCCTTCGGGATATATATATATTCTGTGGAACATGTGTGAAGTCTTGAAAGACACAT
*
6230 ACTTGATCCCTAGTATATGTATATGATTCTTAAGGAATAATATGTGGTCCTTATGGACATTGTTA
66 ACTTGATCCCTAGTATATGTATATGATTCTTAAGGAATAATATGTGGTCCTTATGGACATTATTA
6295 TATGGAACTACGGTGCAAA
131 TATGGAACTACGGTGCAAA
6314 TCTA
1 TCTA
6318 TGCTGCACTT
Statistics
Matches: 146, Mismatches: 7, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
149 146 1.00
ACGTcount: A:0.29, C:0.16, G:0.21, T:0.35
Consensus pattern (149 bp):
TCTACGCGGTCCTTCGGGATATATATATATTCTGTGGAACATGTGTGAAGTCTTGAAAGACACAT
ACTTGATCCCTAGTATATGTATATGATTCTTAAGGAATAATATGTGGTCCTTATGGACATTATTA
TATGGAACTACGGTGCAAA
Found at i:7101 original size:31 final size:31
Alignment explanation
Indices: 7019--7138 Score: 129
Period size: 31 Copynumber: 3.9 Consensus size: 31
7009 GGGTGTTACA
* * * *
7019 CCATAGGTCCCGAAGAACCTAGGTAAAATAT
1 CCATATGTCTCGAAGAACATAGGTAAAATGT
**
7050 CCATATGT-TCCTTAGAACATAGGTAAAATGT
1 CCATATGTCT-CGAAGAACATAGGTAAAATGT
*
7081 CCATATGTCTCGAA-AGACATAGGTAAATTGT
1 CCATATGTCTCGAAGA-ACATAGGTAAAATGT
7112 CCATATGTC-CTGAAGAACATAGGTAAA
1 CCATATGTCTC-GAAGAACATAGGTAAA
7139 CCCTCGACTC
Statistics
Matches: 75, Mismatches: 9, Indels: 10
0.80 0.10 0.11
Matches are distributed among these distances:
30 2 0.03
31 71 0.95
32 2 0.03
ACGTcount: A:0.38, C:0.18, G:0.18, T:0.26
Consensus pattern (31 bp):
CCATATGTCTCGAAGAACATAGGTAAAATGT
Found at i:9156 original size:67 final size:67
Alignment explanation
Indices: 9072--9206 Score: 252
Period size: 67 Copynumber: 2.0 Consensus size: 67
9062 ATCTAGAATT
*
9072 GTTCATTAAATAATTTTTAGCATAATCCTTTTACATCTACCTAACATAATTTAATATATTAACAC
1 GTTCATTAAATAATTTTTAGCATAATCCTTTTACATCTACCTAACATAATTTAACATATTAACAC
9137 TG
66 TG
*
9139 GTTCATTAAATAATTTTTAGCATAATCTTTTTACATCTACCTAACATAATTTAACATATTAACAC
1 GTTCATTAAATAATTTTTAGCATAATCCTTTTACATCTACCTAACATAATTTAACATATTAACAC
9204 TG
66 TG
9206 G
1 G
9207 CAAGTCATTT
Statistics
Matches: 66, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
67 66 1.00
ACGTcount: A:0.37, C:0.16, G:0.05, T:0.41
Consensus pattern (67 bp):
GTTCATTAAATAATTTTTAGCATAATCCTTTTACATCTACCTAACATAATTTAACATATTAACAC
TG
Found at i:9679 original size:18 final size:17
Alignment explanation
Indices: 9630--9679 Score: 55
Period size: 18 Copynumber: 2.8 Consensus size: 17
9620 TTTATGTTAT
* *
9630 TCTTTGTTGAGTTATTTA
1 TCTTT-TTGAGTTGTTCA
9648 TCTTCTTTGAGTTGTTCA
1 TCTT-TTTGAGTTGTTCA
9666 TCTTTATTGAGTTG
1 TCTTT-TTGAGTTG
9680 ATCACTTCAA
Statistics
Matches: 28, Mismatches: 2, Indels: 4
0.82 0.06 0.12
Matches are distributed among these distances:
17 1 0.04
18 26 0.93
19 1 0.04
ACGTcount: A:0.14, C:0.10, G:0.18, T:0.58
Consensus pattern (17 bp):
TCTTTTTGAGTTGTTCA
Found at i:9877 original size:17 final size:18
Alignment explanation
Indices: 9851--9888 Score: 51
Period size: 17 Copynumber: 2.2 Consensus size: 18
9841 ATTTTTAAAT
*
9851 TTTATTTTTAT-ATTTAA
1 TTTATATTTATGATTTAA
*
9868 TTTATATTTATGATTTTA
1 TTTATATTTATGATTTAA
9886 TTT
1 TTT
9889 TAAATATCTA
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
17 10 0.56
18 8 0.44
ACGTcount: A:0.26, C:0.00, G:0.03, T:0.71
Consensus pattern (18 bp):
TTTATATTTATGATTTAA
Found at i:11870 original size:21 final size:21
Alignment explanation
Indices: 11845--11893 Score: 89
Period size: 21 Copynumber: 2.3 Consensus size: 21
11835 ATATAACAAG
11845 AATCATTTTGACAAAAAATTA
1 AATCATTTTGACAAAAAATTA
11866 AATCATTTTGACAAAAAATTA
1 AATCATTTTGACAAAAAATTA
*
11887 AAACATT
1 AATCATT
11894 AAGGATTAAT
Statistics
Matches: 27, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
21 27 1.00
ACGTcount: A:0.53, C:0.10, G:0.04, T:0.33
Consensus pattern (21 bp):
AATCATTTTGACAAAAAATTA
Found at i:12614 original size:25 final size:25
Alignment explanation
Indices: 12577--12624 Score: 60
Period size: 25 Copynumber: 1.9 Consensus size: 25
12567 TGGTTCGTTA
*
12577 AGGTGAAAGTGGTGAAGGATTTTGT
1 AGGTGAAACTGGTGAAGGATTTTGT
* **
12602 AGGTTAAACTGGTTTAGGATTTT
1 AGGTGAAACTGGTGAAGGATTTT
12625 TTAAGGCGAG
Statistics
Matches: 19, Mismatches: 4, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
25 19 1.00
ACGTcount: A:0.27, C:0.02, G:0.33, T:0.38
Consensus pattern (25 bp):
AGGTGAAACTGGTGAAGGATTTTGT
Found at i:12629 original size:51 final size:51
Alignment explanation
Indices: 12574--12671 Score: 115
Period size: 51 Copynumber: 1.9 Consensus size: 51
12564 ATATGGTTCG
* * * * * *
12574 TTAAGGTGAAAGTGGTGAAGGATTTTGTAGGTTAAACTGGTTTAGGATTTT
1 TTAAGGCGAAAGTGATCAAGGATTGTGTAGATTAAACTGATTTAGGATTTT
* * *
12625 TTAAGGCGAGAGTGATCAAGGGTTGTGTAGATTAAAGTGATTTAGGA
1 TTAAGGCGAAAGTGATCAAGGATTGTGTAGATTAAACTGATTTAGGA
12672 CAAGGTTCAA
Statistics
Matches: 38, Mismatches: 9, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
51 38 1.00
ACGTcount: A:0.30, C:0.03, G:0.33, T:0.35
Consensus pattern (51 bp):
TTAAGGCGAAAGTGATCAAGGATTGTGTAGATTAAACTGATTTAGGATTTT
Found at i:12831 original size:23 final size:25
Alignment explanation
Indices: 12757--12831 Score: 68
Period size: 26 Copynumber: 3.0 Consensus size: 25
12747 TACACATTGA
12757 GAAATTATAGAAAATGCAATTACATT
1 GAAA-TATAGAAAATGCAATTACATT
*
12783 GAAATATTAGAAGCAAAG-ACA-TACATT
1 GAAATA-TAGAA--AATGCA-ATTACATT
12810 G-AA-ATAGAAAATGCAATTACAT
1 GAAATATAGAAAATGCAATTACAT
12832 AAGTAAGGGT
Statistics
Matches: 41, Mismatches: 2, Indels: 15
0.71 0.03 0.26
Matches are distributed among these distances:
22 4 0.10
23 6 0.15
24 5 0.12
25 3 0.07
26 11 0.27
27 8 0.20
28 4 0.10
ACGTcount: A:0.52, C:0.09, G:0.13, T:0.25
Consensus pattern (25 bp):
GAAATATAGAAAATGCAATTACATT
Found at i:25872 original size:23 final size:23
Alignment explanation
Indices: 25846--25898 Score: 97
Period size: 23 Copynumber: 2.3 Consensus size: 23
25836 CTCTCTAACT
25846 GACCAGAAGAATCAGCATGTCTA
1 GACCAGAAGAATCAGCATGTCTA
*
25869 GACCAGAAGAATCAGCGTGTCTA
1 GACCAGAAGAATCAGCATGTCTA
25892 GACCAGA
1 GACCAGA
25899 TTCAAATCTC
Statistics
Matches: 29, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
23 29 1.00
ACGTcount: A:0.38, C:0.23, G:0.25, T:0.15
Consensus pattern (23 bp):
GACCAGAAGAATCAGCATGTCTA
Found at i:26286 original size:34 final size:34
Alignment explanation
Indices: 26243--26367 Score: 129
Period size: 34 Copynumber: 3.8 Consensus size: 34
26233 TTCGTCCTAC
26243 TAGGATTCAAACTCCTAAAAATAGGATAGAATTT
1 TAGGATTCAAACTCCTAAAAATAGGATAGAATTT
* *
26277 TAGGATTCAAACTCCTAAAGATATGATAGAATTTT
1 TAGGATTCAAACTCCTAAAAATAGGATAGAA-TTT
26312 GCTAGGATTC--A-----AAAAATAGGATAGAATTT
1 --TAGGATTCAAACTCCTAAAAATAGGATAGAATTT
* * *
26341 TATGATTTAAACTCCTAAAGATAGGAT
1 TAGGATTCAAACTCCTAAAAATAGGAT
26368 CCACAAGCAC
Statistics
Matches: 74, Mismatches: 7, Indels: 20
0.73 0.07 0.20
Matches are distributed among these distances:
27 6 0.08
29 4 0.05
30 13 0.18
34 39 0.53
35 4 0.05
37 8 0.11
ACGTcount: A:0.42, C:0.10, G:0.16, T:0.31
Consensus pattern (34 bp):
TAGGATTCAAACTCCTAAAAATAGGATAGAATTT
Found at i:26761 original size:18 final size:17
Alignment explanation
Indices: 26722--26764 Score: 61
Period size: 18 Copynumber: 2.5 Consensus size: 17
26712 ATTATATGGA
26722 TATT-TTATTCATTTAT
1 TATTATTATTCATTTAT
*
26738 TTTTATTATTCATGTTAT
1 TATTATTATTCAT-TTAT
26756 TATTATTAT
1 TATTATTAT
26765 ATGTATATAT
Statistics
Matches: 23, Mismatches: 2, Indels: 2
0.85 0.07 0.07
Matches are distributed among these distances:
16 3 0.13
17 8 0.35
18 12 0.52
ACGTcount: A:0.26, C:0.05, G:0.02, T:0.67
Consensus pattern (17 bp):
TATTATTATTCATTTAT
Found at i:27064 original size:23 final size:22
Alignment explanation
Indices: 27021--27066 Score: 58
Period size: 22 Copynumber: 2.1 Consensus size: 22
27011 ACTTTATATA
* *
27021 TATTTTTATTATTTTCGTTTTT
1 TATTTTTATTATTATAGTTTTT
27043 TATTTATTATTATTATA-TTTTT
1 TATTT-TTATTATTATAGTTTTT
27065 TA
1 TA
27067 AAAAACCTTG
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
22 12 0.57
23 9 0.43
ACGTcount: A:0.22, C:0.02, G:0.02, T:0.74
Consensus pattern (22 bp):
TATTTTTATTATTATAGTTTTT
Found at i:28461 original size:5 final size:5
Alignment explanation
Indices: 28451--28478 Score: 56
Period size: 5 Copynumber: 5.6 Consensus size: 5
28441 TCTTTTCATC
28451 TTTAT TTTAT TTTAT TTTAT TTTAT TTT
1 TTTAT TTTAT TTTAT TTTAT TTTAT TTT
28479 CATCACTTGC
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 23 1.00
ACGTcount: A:0.18, C:0.00, G:0.00, T:0.82
Consensus pattern (5 bp):
TTTAT
Found at i:30962 original size:7 final size:7
Alignment explanation
Indices: 30950--31019 Score: 61
Period size: 7 Copynumber: 9.3 Consensus size: 7
30940 TCCAATCAAG
30950 AAGAAAA
1 AAGAAAA
30957 AAGAAAA
1 AAGAAAA
30964 GAAGCAAAA
1 -AAG-AAAA
*
30973 AA-AACA
1 AAGAAAA
30979 AAGAAAA
1 AAGAAAA
30986 AAGAGAAA
1 AAGA-AAA
*
30994 CACGAACAA
1 -AAGAA-AA
31003 AAGGAAAA
1 AA-GAAAA
31011 AAGAAAA
1 AAGAAAA
31018 AA
1 AA
31020 AACAAGAATC
Statistics
Matches: 52, Mismatches: 4, Indels: 14
0.74 0.06 0.20
Matches are distributed among these distances:
6 5 0.10
7 21 0.40
8 14 0.27
9 12 0.23
ACGTcount: A:0.77, C:0.07, G:0.16, T:0.00
Consensus pattern (7 bp):
AAGAAAA
Found at i:31004 original size:32 final size:31
Alignment explanation
Indices: 30947--31021 Score: 82
Period size: 32 Copynumber: 2.4 Consensus size: 31
30937 AGATCCAATC
30947 AAGAAGAAAAAAGAAAAGAAGCAAAA-AAAACA
1 AAGAA-AAAAAAGAAAAGAAGCAAAAGAAAA-A
* *
30979 AAGAAAAAAGAGAAACACGAA-CAAAAGGAAAA
1 AAGAAAAAAAAGAAA-A-GAAGCAAAAGAAAAA
31011 AAGAAAAAAAA
1 AAGAAAAAAAA
31022 CAAGAATCAA
Statistics
Matches: 37, Mismatches: 3, Indels: 6
0.80 0.07 0.13
Matches are distributed among these distances:
31 9 0.24
32 22 0.59
33 6 0.16
ACGTcount: A:0.77, C:0.07, G:0.16, T:0.00
Consensus pattern (31 bp):
AAGAAAAAAAAGAAAAGAAGCAAAAGAAAAA
Found at i:31038 original size:45 final size:47
Alignment explanation
Indices: 30954--31051 Score: 123
Period size: 45 Copynumber: 2.1 Consensus size: 47
30944 ATCAAGAAGA
30954 AAAAAGAAAAGAAGCAAAAAAAACAAAGAAAAAAGAGAAACACGAAC
1 AAAAAGAAAAGAAGCAAAAAAAACAAAGAAAAAAGAGAAACACGAAC
* * *
31001 AAAAGGAAAA-AAG-AAAAAAAAC-AAGAATCAAAA-AGAAAGAGGAAC
1 AAAAAGAAAAGAAGCAAAAAAAACAAAGAA--AAAAGAGAAACACGAAC
31046 AAAAAG
1 AAAAAG
31052 CACATGCAAA
Statistics
Matches: 45, Mismatches: 4, Indels: 6
0.82 0.07 0.11
Matches are distributed among these distances:
44 5 0.11
45 24 0.53
46 7 0.16
47 9 0.20
ACGTcount: A:0.74, C:0.08, G:0.16, T:0.01
Consensus pattern (47 bp):
AAAAAGAAAAGAAGCAAAAAAAACAAAGAAAAAAGAGAAACACGAAC
Found at i:31700 original size:22 final size:22
Alignment explanation
Indices: 31672--31726 Score: 110
Period size: 22 Copynumber: 2.5 Consensus size: 22
31662 GCTATCCCAT
31672 CAAACCTTTGAGCATCAAATGC
1 CAAACCTTTGAGCATCAAATGC
31694 CAAACCTTTGAGCATCAAATGC
1 CAAACCTTTGAGCATCAAATGC
31716 CAAACCTTTGA
1 CAAACCTTTGA
31727 CCAAACACAA
Statistics
Matches: 33, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
22 33 1.00
ACGTcount: A:0.36, C:0.27, G:0.13, T:0.24
Consensus pattern (22 bp):
CAAACCTTTGAGCATCAAATGC
Found at i:32652 original size:36 final size:36
Alignment explanation
Indices: 32605--32709 Score: 165
Period size: 36 Copynumber: 2.9 Consensus size: 36
32595 GTGCTCACCA
32605 TTGTCTCTCTTGAGACAGTTTCCCTTGAAACAAACT
1 TTGTCTCTCTTGAGACAGTTTCCCTTGAAACAAACT
*
32641 TTGTCTCTCTTGAGACAGTTTCCCTTGAAACAAAATT
1 TTGTCTCTCTTGAGACAGTTTCCCTTGAAAC-AAACT
* * *
32678 TTTTCTCCCTTGAGACAGTTTCTCTTGAAACA
1 TTGTCTCTCTTGAGACAGTTTCCCTTGAAACA
32710 TAAACATTGA
Statistics
Matches: 64, Mismatches: 4, Indels: 2
0.91 0.06 0.03
Matches are distributed among these distances:
36 32 0.50
37 32 0.50
ACGTcount: A:0.25, C:0.24, G:0.13, T:0.38
Consensus pattern (36 bp):
TTGTCTCTCTTGAGACAGTTTCCCTTGAAACAAACT
Found at i:32699 original size:37 final size:37
Alignment explanation
Indices: 32605--32714 Score: 168
Period size: 37 Copynumber: 3.0 Consensus size: 37
32595 GTGCTCACCA
32605 TTGTCTCTCTTGAGACAGTTTCCCTTGAAAC-AAACT
1 TTGTCTCTCTTGAGACAGTTTCCCTTGAAACAAAACT
*
32641 TTGTCTCTCTTGAGACAGTTTCCCTTGAAACAAAATT
1 TTGTCTCTCTTGAGACAGTTTCCCTTGAAACAAAACT
* * *
32678 TTTTCTCCCTTGAGACAGTTTCTCTTGAAACATAAAC
1 TTGTCTCTCTTGAGACAGTTTCCCTTGAAACA-AAAC
32715 ATTGAAAACA
Statistics
Matches: 67, Mismatches: 5, Indels: 2
0.91 0.07 0.03
Matches are distributed among these distances:
36 31 0.46
37 33 0.49
38 3 0.04
ACGTcount: A:0.26, C:0.24, G:0.13, T:0.37
Consensus pattern (37 bp):
TTGTCTCTCTTGAGACAGTTTCCCTTGAAACAAAACT
Found at i:32803 original size:102 final size:102
Alignment explanation
Indices: 32623--33014 Score: 624
Period size: 102 Copynumber: 3.9 Consensus size: 102
32613 CTTGAGACAG
** * * *
32623 TTTCCCTTGAAACAAACTTTGTCTCTCTTGAGACAGTTTCCCTTGAAACAAAATTTTTTCTCCCT
1 TTTCCCTTGAAATGAATTTTGTCTCTCTTGAGATAGTTTCCCTTGAAACAAAATTTTGTCTCCCT
32688 TGAGACAGTTTCTCTTGAAACATAAACATTGAAAACA
66 TGAGACAGTTTCTCTTGAAACATAAACATTGAAAACA
* * * ** *
32725 TTTTCCTTGAAATGAGTTTTGTCACTCTTGAGATAGTTTCCCTTGAAACAAAATTCCGTCTCCAT
1 TTTCCCTTGAAATGAATTTTGTCTCTCTTGAGATAGTTTCCCTTGAAACAAAATTTTGTCTCCCT
* *
32790 TGAGACAGTTTCTCTTGAATCATAAACATTGGAAACA
66 TGAGACAGTTTCTCTTGAAACATAAACATTGAAAACA
32827 TTTCCCTTGAAATGAATTTTGTCTCTCTTGAGATAGTTTCCCTTGAAACAAAATTTTGTCTCCCT
1 TTTCCCTTGAAATGAATTTTGTCTCTCTTGAGATAGTTTCCCTTGAAACAAAATTTTGTCTCCCT
* *
32892 TGAGACAGTTTCTCCTGAAACATAAACATTGAAAATA
66 TGAGACAGTTTCTCTTGAAACATAAACATTGAAAACA
* *
32929 TTTCCCTTGAAATGAATTTCGTCTCTCTTGAGATAATTTCCCTTGAAAC-AAATTTTGTCTCCCT
1 TTTCCCTTGAAATGAATTTTGTCTCTCTTGAGATAGTTTCCCTTGAAACAAAATTTTGTCTCCCT
32993 TGAGACAGTTTCTCTTGAAACA
66 TGAGACAGTTTCTCTTGAAACA
33015 CAAAACCTTT
Statistics
Matches: 264, Mismatches: 26, Indels: 1
0.91 0.09 0.00
Matches are distributed among these distances:
101 36 0.14
102 228 0.86
ACGTcount: A:0.29, C:0.21, G:0.13, T:0.37
Consensus pattern (102 bp):
TTTCCCTTGAAATGAATTTTGTCTCTCTTGAGATAGTTTCCCTTGAAACAAAATTTTGTCTCCCT
TGAGACAGTTTCTCTTGAAACATAAACATTGAAAACA
Found at i:32894 original size:37 final size:37
Alignment explanation
Indices: 32827--32913 Score: 115
Period size: 37 Copynumber: 2.4 Consensus size: 37
32817 ATTGGAAACA
** * *
32827 TTTCCCTTGAAA-TGAATTTTGTCTCTCTTGAGATAG
1 TTTCCCTTGAAACAAAATTTTGTCTCCCTTGAGACAG
32863 TTTCCCTTGAAACAAAATTTTGTCTCCCTTGAGACAG
1 TTTCCCTTGAAACAAAATTTTGTCTCCCTTGAGACAG
32900 TTTCTCC-TGAAACA
1 TTTC-CCTTGAAACA
32914 TAAACATTGA
Statistics
Matches: 45, Mismatches: 4, Indels: 3
0.87 0.08 0.06
Matches are distributed among these distances:
36 12 0.27
37 31 0.69
38 2 0.04
ACGTcount: A:0.25, C:0.22, G:0.14, T:0.39
Consensus pattern (37 bp):
TTTCCCTTGAAACAAAATTTTGTCTCCCTTGAGACAG
Found at i:32973 original size:204 final size:203
Alignment explanation
Indices: 32623--33081 Score: 648
Period size: 204 Copynumber: 2.2 Consensus size: 203
32613 CTTGAGACAG
*
32623 TTTCCCTTGAAACAAACTTTGTCTCTCTTGAGACAGTTTCCCTTGAAACAAAATTTTTTCTCCCT
1 TTTCCCTTGAAACAAACTTTGTCTCTCTTGAGACAGTTTCCCTTGAAACAAAATTTTGTCTCCCT
* * * *
32688 TGAGACAGTTTCTCTTGAAACATAAACATTGAAAACATTTTCCTTGAAATGAGTTTTGTCACTCT
66 TGAGACAGTTTCTCCTGAAACATAAACATTGAAAACATTTCCCTTGAAATGAATTTCGTCACTCT
*
32753 TGAGATAGTTTCCCTTGAAACAAAATTCCGTCTCCATTGAGACAGTTTCTCTTGAATCATAAACA
131 TGAGATAATTTCCCTTGAAAC-AAATTCCGTCTCCATTGAGACAGTTTCTCTTGAATCATAAACA
32818 TTGGAAACA
195 TTGGAAACA
** * *
32827 TTTCCCTTGAAATGAATTTTGTCTCTCTTGAGATAGTTTCCCTTGAAACAAAATTTTGTCTCCCT
1 TTTCCCTTGAAACAAACTTTGTCTCTCTTGAGACAGTTTCCCTTGAAACAAAATTTTGTCTCCCT
* *
32892 TGAGACAGTTTCTCCTGAAACATAAACATTGAAAATATTTCCCTTGAAATGAATTTCGTCTCTCT
66 TGAGACAGTTTCTCCTGAAACATAAACATTGAAAACATTTCCCTTGAAATGAATTTCGTCACTCT
** * * * *
32957 TGAGATAATTTCCCTTGAAACAAATTTTGTCTCCCTTGAGACAGTTTCTCTTGAAACACAAAACC
131 TGAGATAATTTCCCTTGAAACAAATTCCGTCTCCATTGAGACAGTTTCTCTTGAATCA-TAAACA
* ***
33022 TTTGAGATTG
195 TTGGA-AACA
* * * * *
33032 TTTCCCTCGAAACAAATTTTGTCTCCCATGAGACAGTTTCTCTTGAAACA
1 TTTCCCTTGAAACAAACTTTGTCTCTCTTGAGACAGTTTCCCTTGAAACA
33082 CAAAATCTTT
Statistics
Matches: 224, Mismatches: 29, Indels: 3
0.88 0.11 0.01
Matches are distributed among these distances:
203 33 0.15
204 147 0.66
205 44 0.20
ACGTcount: A:0.29, C:0.21, G:0.13, T:0.36
Consensus pattern (203 bp):
TTTCCCTTGAAACAAACTTTGTCTCTCTTGAGACAGTTTCCCTTGAAACAAAATTTTGTCTCCCT
TGAGACAGTTTCTCCTGAAACATAAACATTGAAAACATTTCCCTTGAAATGAATTTCGTCACTCT
TGAGATAATTTCCCTTGAAACAAATTCCGTCTCCATTGAGACAGTTTCTCTTGAATCATAAACAT
TGGAAACA
Found at i:32975 original size:36 final size:36
Alignment explanation
Indices: 32928--33014 Score: 111
Period size: 36 Copynumber: 2.4 Consensus size: 36
32918 CATTGAAAAT
** * *
32928 ATTTCCCTTGAAATGAATTTCGTCTCTCTTGAGATA
1 ATTTCCCTTGAAACAAATTTCGTCTCCCTTGAGACA
*
32964 ATTTCCCTTGAAACAAATTTTGTCTCCCTTGAGACA
1 ATTTCCCTTGAAACAAATTTCGTCTCCCTTGAGACA
* *
33000 GTTTCTCTTGAAACA
1 ATTTCCCTTGAAACA
33015 CAAAACCTTT
Statistics
Matches: 44, Mismatches: 7, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
36 44 1.00
ACGTcount: A:0.26, C:0.22, G:0.13, T:0.39
Consensus pattern (36 bp):
ATTTCCCTTGAAACAAATTTCGTCTCCCTTGAGACA
Found at i:33105 original size:67 final size:67
Alignment explanation
Indices: 32956--33130 Score: 237
Period size: 67 Copynumber: 2.6 Consensus size: 67
32946 TTCGTCTCTC
** *
32956 TTGAGATAATTTCCCTTGAAACAAATTTTGTCTCCCTTGAGACAGTTTCTCTTGAAACACAAAAC
1 TTGAGATTGTTTCCCTTGAAACAAATTTTGTCTCCCATGAGACAGTTTCTCTTGAAACACAAAAC
33021 CT
66 CT
* *
33023 TTGAGATTGTTTCCCTCGAAACAAATTTTGTCTCCCATGAGACAGTTTCTCTTGAAACACAAAAT
1 TTGAGATTGTTTCCCTTGAAACAAATTTTGTCTCCCATGAGACAGTTTCTCTTGAAACACAAAAC
33088 CT
66 CT
* * *
33090 TTGA-ATT-TATCTCCCTTAAAACAAAATTTTGTTTCTCATGA
1 TTGAGATTGT-T-TCCCTTGAAAC-AAATTTTGTCTCCCATGA
33131 AACAACAGAT
Statistics
Matches: 96, Mismatches: 9, Indels: 5
0.87 0.08 0.05
Matches are distributed among these distances:
65 1 0.01
66 4 0.04
67 75 0.78
68 16 0.17
ACGTcount: A:0.31, C:0.21, G:0.11, T:0.37
Consensus pattern (67 bp):
TTGAGATTGTTTCCCTTGAAACAAATTTTGTCTCCCATGAGACAGTTTCTCTTGAAACACAAAAC
CT
Found at i:34002 original size:105 final size:103
Alignment explanation
Indices: 33820--34212 Score: 322
Period size: 105 Copynumber: 3.8 Consensus size: 103
33810 TGATTTCAAC
* *
33820 TCCACGATGGAGGATATCGTGCCACTCAAGACAACACAAGTTCAACTTCACAACGAAGGGACGGC
1 TCCACGACGGAGGATATCATGCCACTCAAGACAACACAAGTTCAACTTCACAACGAAGGGACGGC
33885 TGGTTGTCAACAAACAACTTTCCAATTTCAAAGCTGATTT
66 TGGTTGTCAAC-AACAA-TTTCCAATTTCAAAGCTGATTT
* *
33925 TCCACGACGGAGGATATCATGCTAC-CTATGACAACACAAGTTCAACTTCACAACGAAGGGACGG
1 TCCACGACGGAGGATATCATGCCACTC-AAGACAACACAAGTTCAACTTCACAACGAAGGGACGG
* ** **
33989 CTGGTTGTCAACAACAATTTCCCAGTTTCAGGGCCAATTT
65 CTGGTTGTCAACAACAATTT-CCAATTTCAAAGCTGATTT
* * * * * **
34029 CAACTTCAC-AGCGGAGGATAT--TG-GACCCAAGACAGCACAAGCTCAACTTCACAGTGAAGGG
1 ----TCCACGA-CGGAGGATATCATGCCACTCAAGACAACACAAGTTCAACTTCACAACGAAGGG
* ** ** * * * * **
34090 GCGGCTGACTGTCAACAAACAATTTCGGA--GCCAATCTCAACT
61 ACGGCTGGTTGTCAAC-AACAATTTCCAATTTCAAAGCTGATTT
* * * * *
34132 T-CACAATGAAGGATAT--TG-GACTCGAGACAACACAAGTTCAACTTCACAACGAAGGGACGGC
1 TCCACGACGGAGGATATCATGCCACTCAAGACAACACAAGTTCAACTTCACAACGAAGGGACGGC
34193 TGGTTGTCAACAAACAATTT
66 TGGTTGTCAAC-AACAATTT
34213 TCCGGTTCCA
Statistics
Matches: 236, Mismatches: 42, Indels: 27
0.77 0.14 0.09
Matches are distributed among these distances:
98 67 0.28
99 2 0.01
103 7 0.03
104 20 0.08
105 114 0.48
106 11 0.05
107 1 0.00
108 14 0.06
ACGTcount: A:0.33, C:0.25, G:0.21, T:0.21
Consensus pattern (103 bp):
TCCACGACGGAGGATATCATGCCACTCAAGACAACACAAGTTCAACTTCACAACGAAGGGACGGC
TGGTTGTCAACAACAATTTCCAATTTCAAAGCTGATTT
Found at i:34166 original size:98 final size:98
Alignment explanation
Indices: 33954--34212 Score: 286
Period size: 98 Copynumber: 2.6 Consensus size: 98
33944 TGCTACCTAT
* **
33954 GACAACACAAGTTCAACTTCACAACGAAGGGACGGCTGGTTGTCAAC-AACAATTTCCCAGTTTC
1 GACAACACAAGCTCAACTTCACAACGAAGGGACGGCTGACTGTCAACAAACAATTT--C-G----
* * * *
34018 AGGGCCAATTTCAACTTCACAGCGGAGGATATTGGACCCAA
59 -GAGCCAATCTCAACTTCACAACGAAGGATATTGGACCCAA
* ** *
34059 GACAGCACAAGCTCAACTTCACAGTGAAGGGGCGGCTGACTGTCAACAAACAATTTCGGAGCCAA
1 GACAACACAAGCTCAACTTCACAACGAAGGGACGGCTGACTGTCAACAAACAATTTCGGAGCCAA
* * *
34124 TCTCAACTTCACAATGAAGGATATTGGACTCGA
66 TCTCAACTTCACAACGAAGGATATTGGACCCAA
* **
34157 GACAACACAAGTTCAACTTCACAACGAAGGGACGGCTGGTTGTCAACAAACAATTT
1 GACAACACAAGCTCAACTTCACAACGAAGGGACGGCTGACTGTCAACAAACAATTT
34213 TCCGGTTCCA
Statistics
Matches: 132, Mismatches: 21, Indels: 9
0.81 0.13 0.06
Matches are distributed among these distances:
98 82 0.62
103 1 0.01
104 1 0.01
105 40 0.30
106 8 0.06
ACGTcount: A:0.34, C:0.25, G:0.21, T:0.20
Consensus pattern (98 bp):
GACAACACAAGCTCAACTTCACAACGAAGGGACGGCTGACTGTCAACAAACAATTTCGGAGCCAA
TCTCAACTTCACAACGAAGGATATTGGACCCAA
Found at i:34843 original size:33 final size:34
Alignment explanation
Indices: 34806--34929 Score: 138
Period size: 33 Copynumber: 3.8 Consensus size: 34
34796 TTCGTCCTAC
34806 TAGGATTCAAACTCCTAAA-ATAGGATAGAATTT
1 TAGGATTCAAACTCCTAAAGATAGGATAGAATTT
*
34839 TAGGATTCAAACTCCTAAAGATATGATAGAATTTT
1 TAGGATTCAAACTCCTAAAGATAGGATAGAA-TTT
34874 GCTAGGATTC-AA-----AAA-ATAGGATAGAATTT
1 --TAGGATTCAAACTCCTAAAGATAGGATAGAATTT
* *
34903 TATGATTTAAACTCCTAAAGATAGGAT
1 TAGGATTCAAACTCCTAAAGATAGGAT
34930 CCACAAGCAC
Statistics
Matches: 76, Mismatches: 4, Indels: 21
0.75 0.04 0.21
Matches are distributed among these distances:
27 6 0.08
28 2 0.03
29 3 0.04
30 10 0.13
31 3 0.04
33 22 0.29
34 17 0.22
35 3 0.04
36 2 0.03
37 8 0.11
ACGTcount: A:0.42, C:0.10, G:0.16, T:0.31
Consensus pattern (34 bp):
TAGGATTCAAACTCCTAAAGATAGGATAGAATTT
Found at i:35382 original size:2 final size:2
Alignment explanation
Indices: 35375--35419 Score: 90
Period size: 2 Copynumber: 22.5 Consensus size: 2
35365 TATTTACTAT
35375 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
35417 TA T
1 TA T
35420 TTCTTTAATA
Statistics
Matches: 43, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 43 1.00
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (2 bp):
TA
Found at i:39143 original size:20 final size:20
Alignment explanation
Indices: 39120--39236 Score: 144
Period size: 20 Copynumber: 5.8 Consensus size: 20
39110 ATTCGCGTTG
*
39120 CATTTCGCGTTGCGATTTTT
1 CATTTCGCGTTGCGATTTTC
39140 CATTTCGCGTTGCGATTTTC
1 CATTTCGCGTTGCGATTTTC
*
39160 CAGTTCGCGTTGCGATTTTC
1 CATTTCGCGTTGCGATTTTC
* * *
39180 CAGTTCGCGTTGCGATAGTTG
1 CATTTCGCGTTGCGAT-TTTC
* **
39201 AAAATCGCGTTGCGATTTTC
1 CATTTCGCGTTGCGATTTTC
*
39221 CATTTCGCATTGCGAT
1 CATTTCGCGTTGCGAT
39237 AGTATACAGT
Statistics
Matches: 83, Mismatches: 13, Indels: 2
0.85 0.13 0.02
Matches are distributed among these distances:
20 68 0.82
21 15 0.18
ACGTcount: A:0.15, C:0.22, G:0.23, T:0.40
Consensus pattern (20 bp):
CATTTCGCGTTGCGATTTTC
Found at i:39218 original size:41 final size:41
Alignment explanation
Indices: 39124--39239 Score: 153
Period size: 41 Copynumber: 2.9 Consensus size: 41
39114 GCGTTGCATT
* * * **
39124 TCGCGTTGCGATTTTTCATTTCGCGTTGCGAT-TTTCCAGT
1 TCGCGTTGCGATTTTCCATTTCGCGTTGCGATAGTTCAAAA
* *
39164 TCGCGTTGCGATTTTCCAGTTCGCGTTGCGATAGTTGAAAA
1 TCGCGTTGCGATTTTCCATTTCGCGTTGCGATAGTTCAAAA
*
39205 TCGCGTTGCGATTTTCCATTTCGCATTGCGATAGT
1 TCGCGTTGCGATTTTCCATTTCGCGTTGCGATAGT
39240 ATACAGTTGT
Statistics
Matches: 66, Mismatches: 9, Indels: 1
0.87 0.12 0.01
Matches are distributed among these distances:
40 30 0.45
41 36 0.55
ACGTcount: A:0.15, C:0.22, G:0.24, T:0.40
Consensus pattern (41 bp):
TCGCGTTGCGATTTTCCATTTCGCGTTGCGATAGTTCAAAA
Found at i:39706 original size:3 final size:3
Alignment explanation
Indices: 39698--39883 Score: 372
Period size: 3 Copynumber: 62.0 Consensus size: 3
39688 GTCAAGCACA
39698 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT
39746 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT
39794 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT
39842 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT
39884 CAGTCTCCTA
Statistics
Matches: 183, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 183 1.00
ACGTcount: A:0.33, C:0.00, G:0.00, T:0.67
Consensus pattern (3 bp):
TAT
Found at i:42266 original size:130 final size:130
Alignment explanation
Indices: 41949--42335 Score: 492
Period size: 130 Copynumber: 3.0 Consensus size: 130
41939 TTTAAGAGAG
* * * *
41949 AAAACGATAATATATAATTATTTCCAATTGAGAATAAATGACCTCTCATGCCTTAAAGCAATCAT
1 AAAACGATAATATCTAATTATTTCCAATCGAGAATAAAAGACCTCTCATGCCTTAAAGC-ATTAT
* * * * *
42014 TTATTACTCCAATCT-AAATGAAGAGATATTACTATTTCATTCTAATATTCAATATTGTTTCGAG
65 TTATTACTCCAAT-TGAAATGAAGAGATATTACTATTTTATCCTAAAATTCAATATTGATTCGAA
*
42078 AG
129 AA
* *
42080 AAAACGATAATATCTAATTACTTT-CAATCGAGAATAAAAGACCTCTCATGCATTAAAGGAGTTA
1 AAAACGATAATATCTAATTA-TTTCCAATCGAGAATAAAAGACCTCTCATGCCTTAAAGCA-TTA
* *
42144 CTTATTACTCCAATTGAAATGAAGAGATATTACTATTTTATCCTAAAATTTAAT-TTGATTCGAA
64 TTTATTACTCCAATTGAAATGAAGAGATATTACTATTTTATCCTAAAATTCAATATTGATTCGAA
42208 AA
129 AA
* *
42210 AAAACGATAATATCTAAATATTTCCAATCGAGAATAAAAGACCTCACATGCCTTAAAGCATTCAT
1 AAAACGATAATATCTAATTATTTCCAATCGAGAATAAAAGACCTCTCATGCCTTAAAGCATT-AT
* * * * ** * *
42275 TTATTACTTCAATCGAAATAAAGAAATATTACTATTTTGGCCTAAAATTCAAAATTAATTC
65 TTATTACTCCAATTGAAATGAAGAGATATTACTATTTTATCCTAAAATTCAATATTGATTC
42336 CAGAGTTATT
Statistics
Matches: 222, Mismatches: 28, Indels: 12
0.85 0.11 0.05
Matches are distributed among these distances:
129 5 0.02
130 109 0.49
131 105 0.47
132 3 0.01
ACGTcount: A:0.41, C:0.15, G:0.10, T:0.34
Consensus pattern (130 bp):
AAAACGATAATATCTAATTATTTCCAATCGAGAATAAAAGACCTCTCATGCCTTAAAGCATTATT
TATTACTCCAATTGAAATGAAGAGATATTACTATTTTATCCTAAAATTCAATATTGATTCGAAAA
Found at i:42641 original size:3 final size:3
Alignment explanation
Indices: 42585--42629 Score: 65
Period size: 3 Copynumber: 15.3 Consensus size: 3
42575 ACATTATTAA
* *
42585 ATT ATT ATT ATT ATT ATT ATT ATC ATT ATT ATC A-T ATT ATT ATT A
1 ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT A
42630 ATAAAATTAT
Statistics
Matches: 37, Mismatches: 4, Indels: 2
0.86 0.09 0.05
Matches are distributed among these distances:
2 1 0.03
3 36 0.97
ACGTcount: A:0.36, C:0.04, G:0.00, T:0.60
Consensus pattern (3 bp):
ATT
Found at i:42856 original size:17 final size:18
Alignment explanation
Indices: 42836--42874 Score: 53
Period size: 19 Copynumber: 2.2 Consensus size: 18
42826 CCACCGACGT
42836 CGAGCCA-CCACCAACAC
1 CGAGCCACCCACCAACAC
*
42853 CGAGCCATCCCACCAACGC
1 CGAGCCA-CCCACCAACAC
42872 CGA
1 CGA
42875 TGAGTCATTA
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
17 7 0.37
19 12 0.63
ACGTcount: A:0.31, C:0.51, G:0.15, T:0.03
Consensus pattern (18 bp):
CGAGCCACCCACCAACAC
Found at i:51996 original size:90 final size:90
Alignment explanation
Indices: 51843--52036 Score: 300
Period size: 90 Copynumber: 2.2 Consensus size: 90
51833 GAGCTTTCAA
* * * * *
51843 AGAAACTAAGCCTTCGGGGGTTTCTTAATTTGTAAGTCCTTCGGGCCATCTATAAGACCTTCAGT
1 AGAAACTAAGCCTTCAGAGGTTTCTTAATTTATAAGTCATTCGGGCCATCCATAAGACCTTCAGT
*
51908 GCAGGTTGTTTTCAAAAT-AGATTTT
66 GCAGGATGTTTTC-AAATGAGATTTT
*
51933 AGAAACTAAGCCTTCAGAGGTTTCTTGATTTATAAGTCATTCGGGCCATCCATAAGACCTTCAGT
1 AGAAACTAAGCCTTCAGAGGTTTCTTAATTTATAAGTCATTCGGGCCATCCATAAGACCTTCAGT
*
51998 GCATGATGTTTTCAAATGAGATTTT
66 GCAGGATGTTTTCAAATGAGATTTT
52023 AGAAACTAAGCCTT
1 AGAAACTAAGCCTT
52037 TTAGGGGTTT
Statistics
Matches: 95, Mismatches: 8, Indels: 2
0.90 0.08 0.02
Matches are distributed among these distances:
89 4 0.04
90 91 0.96
ACGTcount: A:0.28, C:0.18, G:0.20, T:0.34
Consensus pattern (90 bp):
AGAAACTAAGCCTTCAGAGGTTTCTTAATTTATAAGTCATTCGGGCCATCCATAAGACCTTCAGT
GCAGGATGTTTTCAAATGAGATTTT
Found at i:52279 original size:23 final size:22
Alignment explanation
Indices: 52249--52319 Score: 62
Period size: 23 Copynumber: 3.4 Consensus size: 22
52239 AGTTCATAAT
52249 GAGAAGAACTCATCCGATAGAGG
1 GAGAAGAACTCAT-CGATAGAGG
* *
52272 GAGAAGAAGT--TC-ATA-A-T
1 GAGAAGAACTCATCGATAGAGG
*
52289 GAGAAGAACTCATTCGACAGAGG
1 GAGAAGAACTCA-TCGATAGAGG
52312 GAGAAGAA
1 GAGAAGAA
52320 GTTCATAATG
Statistics
Matches: 37, Mismatches: 5, Indels: 12
0.69 0.09 0.22
Matches are distributed among these distances:
17 9 0.24
18 1 0.03
19 3 0.08
20 3 0.08
21 3 0.08
22 1 0.03
23 17 0.46
ACGTcount: A:0.44, C:0.13, G:0.30, T:0.14
Consensus pattern (22 bp):
GAGAAGAACTCATCGATAGAGG
Found at i:52346 original size:40 final size:40
Alignment explanation
Indices: 52239--52338 Score: 182
Period size: 40 Copynumber: 2.5 Consensus size: 40
52229 TCCAATGGAG
* *
52239 AGTTCATAATGAGAAGAACTCATCCGATAGAGGGAGAAGA
1 AGTTCATAATGAGAAGAACTCATTCGACAGAGGGAGAAGA
52279 AGTTCATAATGAGAAGAACTCATTCGACAGAGGGAGAAGA
1 AGTTCATAATGAGAAGAACTCATTCGACAGAGGGAGAAGA
52319 AGTTCATAATGAGAAGAACT
1 AGTTCATAATGAGAAGAACT
52339 TGTTCGACCT
Statistics
Matches: 58, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
40 58 1.00
ACGTcount: A:0.43, C:0.12, G:0.26, T:0.19
Consensus pattern (40 bp):
AGTTCATAATGAGAAGAACTCATTCGACAGAGGGAGAAGA
Found at i:52527 original size:136 final size:134
Alignment explanation
Indices: 52273--52608 Score: 457
Period size: 136 Copynumber: 2.5 Consensus size: 134
52263 CGATAGAGGG
* *
52273 AGAAGAAGTTCATAATGAGAAGAACTCATTCGACAGAGGGAGAAGAAGTTCATAATGAGAAGAAC
1 AGAAG-AGTTCATAATGAGAAGAACTCATCCGACAAAGGGAGAAGAAGTTCATAATGAGAAGAAC
* * * *
52338 TTGTTCGACCTATCACTCGATTCATGACATTTTGAATCAGTGACGCCTTGCTTGAGGGATTAACA
65 TTGTTCGACCTATCACTCGATTCACGACATTTCGAATCAGTGACACCTCGCTTGAGGGATTAACA
52403 TTTCC
130 TTTCC
* * *
52408 AATGGAGAGTTCATAATGAGAAGAACTCATCCGACAAAGGGAGAAGAAGTTCATAATGTGAAGAG
1 -A-GAAGAGTTCATAATGAGAAGAACTCATCCGACAAAGGGAGAAGAAGTTCATAATGAGAAGAA
** * * *
52473 CTTGTTCGACCTATCACTCGATTCACGGTATTTCGAATCATTGATACCTCGCTTGAGGGATTGAC
64 CTTGTTCGACCTATCACTCGATTCACGACATTTCGAATCAGTGACACCTCGCTTGAGGGATTAAC
52538 ATTTCC
129 ATTTCC
* * *
52544 AGAAGAGTTCATAATGAGAAGAACACGTCC--TAAA-GGAG-A-AAGTTCATAATGAGAAGAACT
1 AGAAGAGTTCATAATGAGAAGAACTCATCCGACAAAGGGAGAAGAAGTTCATAATGAGAAGAACT
52604 TGTTC
66 TGTTC
52609 CTTTCAAATT
Statistics
Matches: 179, Mismatches: 20, Indels: 9
0.86 0.10 0.04
Matches are distributed among these distances:
129 24 0.13
130 1 0.01
131 4 0.02
132 3 0.02
134 26 0.15
135 1 0.01
136 117 0.65
137 3 0.02
ACGTcount: A:0.35, C:0.17, G:0.23, T:0.26
Consensus pattern (134 bp):
AGAAGAGTTCATAATGAGAAGAACTCATCCGACAAAGGGAGAAGAAGTTCATAATGAGAAGAACT
TGTTCGACCTATCACTCGATTCACGACATTTCGAATCAGTGACACCTCGCTTGAGGGATTAACAT
TTCC
Found at i:52741 original size:105 final size:105
Alignment explanation
Indices: 52538--52726 Score: 308
Period size: 105 Copynumber: 1.8 Consensus size: 105
52528 AGGGATTGAC
*
52538 ATTTCCAGAAGAGTTCATAATGAGAAGAACACGTCCTAAAGGAGAAAGTTCATAATGAGAAGAAC
1 ATTTCCAGAAGAGTTCATAATGAGAAGAACACGTCCTAAAGGAGAAACTTCATAATGAGAAGAAC
*
52603 TTGTTCCTTTCAAATTCACCACAGAAGGAGGTGAACCAAT
66 TTGTTCCTTTCAAATCCACCACAGAAGGAGGTGAACCAAT
* * *
52643 ATTTCCAGAAGAGTTCATAATGAGTATAA-ATCGTCCTAAAGGAGAAACTTCATAATGAGAATAA
1 ATTTCCAGAAGAGTTCATAATGAGAAGAACA-CGTCCTAAAGGAGAAACTTCATAATGAGAAGAA
*
52707 CTTGTTCCTTTCAAGTCCAC
65 CTTGTTCCTTTCAAATCCAC
52727 TGCAGATATA
Statistics
Matches: 77, Mismatches: 6, Indels: 2
0.91 0.07 0.02
Matches are distributed among these distances:
104 1 0.01
105 76 0.99
ACGTcount: A:0.39, C:0.17, G:0.18, T:0.26
Consensus pattern (105 bp):
ATTTCCAGAAGAGTTCATAATGAGAAGAACACGTCCTAAAGGAGAAACTTCATAATGAGAAGAAC
TTGTTCCTTTCAAATCCACCACAGAAGGAGGTGAACCAAT
Found at i:52964 original size:91 final size:91
Alignment explanation
Indices: 52844--53061 Score: 334
Period size: 91 Copynumber: 2.4 Consensus size: 91
52834 GGAGGTGAAC
*
52844 CAATATTTCC-A-GAAGAGTTCATAATGAGAAGAACTTATCCAACA-AGGAAGAAGAAATTCATA
1 CAATATTTCCAATGAAGAGTTCATAATGAGAAGAACTTATCCAA-AGAGGAAGAACAAATTCATA
*
52906 ATGAGAAGAACTTGTTTAACCTTGCAT
65 ATGAGAAGAACTTGTTCAACCTTGCAT
* * *
52933 CAATATTTCCAATGTAGAGTTCATAATGAGAAGAACTCATCCAAAGAGGAAGAACAAGTTCATAA
1 CAATATTTCCAATGAAGAGTTCATAATGAGAAGAACTTATCCAAAGAGGAAGAACAAATTCATAA
52998 TGAGAAGAACTTGTTCAACCTTGCAT
66 TGAGAAGAACTTGTTCAACCTTGCAT
* * *
53024 CAACATTTCCAGTGGAGAGTTCATAATGAGAAGAACTT
1 CAATATTTCCAATGAAGAGTTCATAATGAGAAGAACTT
53062 GTTCAACCTT
Statistics
Matches: 117, Mismatches: 9, Indels: 4
0.90 0.07 0.03
Matches are distributed among these distances:
89 10 0.09
90 2 0.02
91 105 0.90
ACGTcount: A:0.41, C:0.16, G:0.18, T:0.26
Consensus pattern (91 bp):
CAATATTTCCAATGAAGAGTTCATAATGAGAAGAACTTATCCAAAGAGGAAGAACAAATTCATAA
TGAGAAGAACTTGTTCAACCTTGCAT
Found at i:53006 original size:20 final size:21
Alignment explanation
Indices: 52950--53008 Score: 63
Period size: 19 Copynumber: 3.0 Consensus size: 21
52940 TCCAATGTAG
*
52950 AGTTCATAATGAGAAGAACTC
1 AGTTCATAATGAGAAGAACTA
*
52971 A-TCCA-AA-GAGGAAGAAC-A
1 AGTTCATAATGA-GAAGAACTA
52989 AGTTCATAATGAGAAGAACT
1 AGTTCATAATGAGAAGAACT
53009 TGTTCAACCT
Statistics
Matches: 30, Mismatches: 3, Indels: 10
0.70 0.07 0.23
Matches are distributed among these distances:
18 3 0.10
19 12 0.40
20 12 0.40
21 3 0.10
ACGTcount: A:0.47, C:0.14, G:0.20, T:0.19
Consensus pattern (21 bp):
AGTTCATAATGAGAAGAACTA
Found at i:53013 original size:20 final size:20
Alignment explanation
Indices: 52950--53014 Score: 64
Period size: 20 Copynumber: 3.3 Consensus size: 20
52940 TCCAATGTAG
52950 AGTTCATAATGAGAAGAACT
1 AGTTCATAATGAGAAGAACT
* *
52970 CA-TCCA-AA-GAGGAAGAACA
1 -AGTTCATAATGA-GAAGAACT
52989 AGTTCATAATGAGAAGAACT
1 AGTTCATAATGAGAAGAACT
*
53009 TGTTCA
1 AGTTCA
53015 ACCTTGCATC
Statistics
Matches: 35, Mismatches: 5, Indels: 9
0.71 0.10 0.18
Matches are distributed among these distances:
18 3 0.09
19 12 0.34
20 17 0.49
21 3 0.09
ACGTcount: A:0.45, C:0.14, G:0.20, T:0.22
Consensus pattern (20 bp):
AGTTCATAATGAGAAGAACT
Found at i:53067 original size:52 final size:52
Alignment explanation
Indices: 52988--53112 Score: 205
Period size: 52 Copynumber: 2.4 Consensus size: 52
52978 GAGGAAGAAC
*
52988 AAGTTCATAATGAGAAGAACTTGTTCAACCTTGCATCAACATTTCCAGTGGA
1 AAGTTCATAATGAGAAGAACTTGTTCAACCTTGCATCAACATTTCCAATGGA
* * * *
53040 GAGTTCATAATGAGAAGAACTTGTTCAACCTTGTATCAATATTTTCAATGGA
1 AAGTTCATAATGAGAAGAACTTGTTCAACCTTGCATCAACATTTCCAATGGA
53092 AAGTTCATAATGAGAAGAACT
1 AAGTTCATAATGAGAAGAACT
53113 CATCCAACGA
Statistics
Matches: 67, Mismatches: 6, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
52 67 1.00
ACGTcount: A:0.37, C:0.15, G:0.18, T:0.30
Consensus pattern (52 bp):
AAGTTCATAATGAGAAGAACTTGTTCAACCTTGCATCAACATTTCCAATGGA
Found at i:53143 original size:91 final size:90
Alignment explanation
Indices: 53041--53247 Score: 301
Period size: 91 Copynumber: 2.3 Consensus size: 90
53031 TCCAGTGGAG
* *
53041 AGTTCATAATGAGAAGAACTTGTTCAACCTTGTATCAATATTTTCAATGGAA-AGTTCATAATGA
1 AGTTCATAATGAGAAGAACTTGTTCAACCTTGCATCAATATTTCCAAT-GAAGAGTTCATAATGA
*
53105 GAAGAACTCATCCA-ACGAGGAAGAAGA
65 GAAGAACTCATCCACAAGA-G-AGAAGA
* * *
53132 AGTTCATAATGAGAAGAACTTGTTCAACCTTGCATCAGTGTTTCCAGTGAAGAGTTCATAATGAG
1 AGTTCATAATGAGAAGAACTTGTTCAACCTTGCATCAATATTTCCAATGAAGAGTTCATAATGAG
53197 AAGAACTCATCCACAAGAGAGAAGA
66 AAGAACTCATCCACAAGAGAGAAGA
* *
53222 AGTTCATAATGAAAAGAGCTTGTTCA
1 AGTTCATAATGAGAAGAACTTGTTCA
53248 TTCTAACAAC
Statistics
Matches: 106, Mismatches: 8, Indels: 5
0.89 0.07 0.04
Matches are distributed among these distances:
90 33 0.31
91 70 0.66
92 3 0.03
ACGTcount: A:0.39, C:0.15, G:0.20, T:0.26
Consensus pattern (90 bp):
AGTTCATAATGAGAAGAACTTGTTCAACCTTGCATCAATATTTCCAATGAAGAGTTCATAATGAG
AAGAACTCATCCACAAGAGAGAAGA
Found at i:53158 original size:143 final size:143
Alignment explanation
Indices: 52900--53203 Score: 509
Period size: 143 Copynumber: 2.1 Consensus size: 143
52890 GAAGAAGAAA
* * *
52900 TTCATAATGAGAAGAACTTGTTTAACCTTGCATCAATATTTCCAATGTAGAGTTCATAATGAGAA
1 TTCATAATGAGAAGAACTTGTTCAACCTTGCATCAATATTTCCAATGGAAAGTTCATAATGAGAA
52965 GAACTCATCCAAAGAGGAAGAACAAGTTCATAATGAGAAGAACTTGTTCAACCTTGCATCAACAT
66 GAACTCATCCAAAGAGGAAGAACAAGTTCATAATGAGAAGAACTTGTTCAACCTTGCATCAACAT
*
53030 TTCCAGTGGAGAG
131 TTCCAGTGAAGAG
* *
53043 TTCATAATGAGAAGAACTTGTTCAACCTTGTATCAATATTTTCAATGGAAAGTTCATAATGAGAA
1 TTCATAATGAGAAGAACTTGTTCAACCTTGCATCAATATTTCCAATGGAAAGTTCATAATGAGAA
* * ***
53108 GAACTCATCCAACGAGGAAGAAGAAGTTCATAATGAGAAGAACTTGTTCAACCTTGCATCAGTGT
66 GAACTCATCCAAAGAGGAAGAACAAGTTCATAATGAGAAGAACTTGTTCAACCTTGCATCAACAT
53173 TTCCAGTGAAGAG
131 TTCCAGTGAAGAG
53186 TTCATAATGAGAAGAACT
1 TTCATAATGAGAAGAACT
53204 CATCCACAAG
Statistics
Matches: 150, Mismatches: 11, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
143 150 1.00
ACGTcount: A:0.38, C:0.16, G:0.19, T:0.28
Consensus pattern (143 bp):
TTCATAATGAGAAGAACTTGTTCAACCTTGCATCAATATTTCCAATGGAAAGTTCATAATGAGAA
GAACTCATCCAAAGAGGAAGAACAAGTTCATAATGAGAAGAACTTGTTCAACCTTGCATCAACAT
TTCCAGTGAAGAG
Found at i:53473 original size:3 final size:3
Alignment explanation
Indices: 53411--53461 Score: 77
Period size: 3 Copynumber: 17.3 Consensus size: 3
53401 AATTTATTAA
* *
53411 ATT ATT ATT ATT ATT ATT ATT ATT ATT ATC ATT ATT ATC A-T ATT ATT
1 ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT
53458 ATT A
1 ATT A
53462 ATAAAATTAT
Statistics
Matches: 43, Mismatches: 4, Indels: 2
0.88 0.08 0.04
Matches are distributed among these distances:
2 1 0.02
3 42 0.98
ACGTcount: A:0.35, C:0.04, G:0.00, T:0.61
Consensus pattern (3 bp):
ATT
Found at i:53686 original size:17 final size:17
Alignment explanation
Indices: 53655--53688 Score: 50
Period size: 17 Copynumber: 2.0 Consensus size: 17
53645 CAGCTCTTCA
* *
53655 CCACCACCGATGCCGAG
1 CCACCACCAACGCCGAG
53672 CCACCACCAACGCCGAG
1 CCACCACCAACGCCGAG
53689 TCATCCCACC
Statistics
Matches: 15, Mismatches: 2, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
17 15 1.00
ACGTcount: A:0.26, C:0.50, G:0.21, T:0.03
Consensus pattern (17 bp):
CCACCACCAACGCCGAG
Found at i:57477 original size:3 final size:3
Alignment explanation
Indices: 57449--57488 Score: 50
Period size: 3 Copynumber: 14.0 Consensus size: 3
57439 GGAAACAAAT
57449 TAA TAA -AA TAA -AA TAA -AA TAAA TAA TAA TAA TAA TAA TAA
1 TAA TAA TAA TAA TAA TAA TAA T-AA TAA TAA TAA TAA TAA TAA
57489 ATGTTATCCA
Statistics
Matches: 33, Mismatches: 0, Indels: 8
0.80 0.00 0.20
Matches are distributed among these distances:
2 6 0.18
3 24 0.73
4 3 0.09
ACGTcount: A:0.72, C:0.00, G:0.00, T:0.28
Consensus pattern (3 bp):
TAA
Found at i:59379 original size:11 final size:11
Alignment explanation
Indices: 59337--59416 Score: 54
Period size: 11 Copynumber: 7.0 Consensus size: 11
59327 ATTTATTTTC
*
59337 TTTTTTTGCTT
1 TTTTTTTTCTT
*
59348 TTCTTCTTTCTT
1 TT-TTTTTTCTT
59360 ATTTCTTTTTC-T
1 -TTT-TTTTTCTT
*
59372 TTTTTTTTCAT
1 TTTTTTTTCTT
** *
59383 TTTTTCATCAT
1 TTTTTTTTCTT
*
59394 TTTTCTTTCTT
1 TTTTTTTTCTT
59405 TTTTTTATTCTT
1 TTTTTT-TTCTT
59417 CTTTCTTGAG
Statistics
Matches: 54, Mismatches: 10, Indels: 9
0.74 0.14 0.12
Matches are distributed among these distances:
10 6 0.11
11 27 0.50
12 14 0.26
13 7 0.13
ACGTcount: A:0.06, C:0.15, G:0.01, T:0.78
Consensus pattern (11 bp):
TTTTTTTTCTT
Found at i:61993 original size:3 final size:3
Alignment explanation
Indices: 61985--62024 Score: 57
Period size: 3 Copynumber: 13.7 Consensus size: 3
61975 AAAAAATATA
61985 TAT TAT TA- TATT TAT TAT TAT TA- TAT TAT TAT TAT TAT TA
1 TAT TAT TAT TA-T TAT TAT TAT TAT TAT TAT TAT TAT TAT TA
62025 ATACTAATAA
Statistics
Matches: 34, Mismatches: 0, Indels: 6
0.85 0.00 0.15
Matches are distributed among these distances:
2 4 0.12
3 28 0.82
4 2 0.06
ACGTcount: A:0.35, C:0.00, G:0.00, T:0.65
Consensus pattern (3 bp):
TAT
Found at i:63300 original size:2 final size:2
Alignment explanation
Indices: 63293--63338 Score: 92
Period size: 2 Copynumber: 23.0 Consensus size: 2
63283 TTCAAGTTCT
63293 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
63335 TA TA
1 TA TA
63339 GTTATTTGAT
Statistics
Matches: 44, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 44 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
TA
Found at i:76362 original size:118 final size:117
Alignment explanation
Indices: 76151--76363 Score: 356
Period size: 117 Copynumber: 1.8 Consensus size: 117
76141 ACCGCAGAAG
*
76151 GAGGTGGATCAACATTTCCAGTGAAGAGTTCATAATGAGAAGAACTCATCCAATGAGGGAGAAGA
1 GAGGTGGATCAACATTTCCAATGAAGAGTTCATAATGAGAAGAACTCATCCAATGAGGGAGAAGA
76216 AGTTCATAATGAGAAGAACTTGTTCAACCTTGGTTTGGTTCCATCACGAAAA
66 AGTTCATAATGAGAAGAACTTGTTCAACCTTGGTTTGGTTCCATCACGAAAA
* * *
76268 GAGGTGGATCAATATTTTCAATGGAGAGTTCATAATGAGAAGAACTCATCCGACA-GAGGGAGAA
1 GAGGTGGATCAACATTTCCAATGAAGAGTTCATAATGAGAAGAACTCATCC-A-ATGAGGGAGAA
*
76332 GAAGTTCATAATGAGAAGAGCTTGTTCAACCT
64 GAAGTTCATAATGAGAAGAACTTGTTCAACCT
76364 ATCACTCGAT
Statistics
Matches: 89, Mismatches: 5, Indels: 3
0.92 0.05 0.03
Matches are distributed among these distances:
117 47 0.53
118 41 0.46
119 1 0.01
ACGTcount: A:0.36, C:0.15, G:0.25, T:0.24
Consensus pattern (117 bp):
GAGGTGGATCAACATTTCCAATGAAGAGTTCATAATGAGAAGAACTCATCCAATGAGGGAGAAGA
AGTTCATAATGAGAAGAACTTGTTCAACCTTGGTTTGGTTCCATCACGAAAA
Found at i:78865 original size:2 final size:2
Alignment explanation
Indices: 78858--78895 Score: 76
Period size: 2 Copynumber: 19.0 Consensus size: 2
78848 CAAGTTCTTT
78858 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
78896 AAAGTTATTT
Statistics
Matches: 36, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 36 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
TA
Found at i:86758 original size:20 final size:20
Alignment explanation
Indices: 86735--86808 Score: 94
Period size: 20 Copynumber: 3.7 Consensus size: 20
86725 AGTTTACAGA
86735 TTCGCAACGCGATACTGACT
1 TTCGCAACGCGATACTGACT
* * *
86755 TTCGCAACTCGATACTTAAT
1 TTCGCAACGCGATACTGACT
* *
86775 TTCGTAACGCAATACTGACT
1 TTCGCAACGCGATACTGACT
*
86795 TTCGCAACGAGATA
1 TTCGCAACGCGATA
86809 ATACATAATC
Statistics
Matches: 43, Mismatches: 11, Indels: 0
0.80 0.20 0.00
Matches are distributed among these distances:
20 43 1.00
ACGTcount: A:0.30, C:0.26, G:0.16, T:0.28
Consensus pattern (20 bp):
TTCGCAACGCGATACTGACT
Found at i:87340 original size:20 final size:20
Alignment explanation
Indices: 87292--87350 Score: 73
Period size: 20 Copynumber: 3.0 Consensus size: 20
87282 TTTATTCTCT
* *
87292 CGTTGCGATAGTCAATTTCG
1 CGTTGCGATTGTCATTTTCG
*
87312 CGTTACGATTGTCATTTTCG
1 CGTTGCGATTGTCATTTTCG
* *
87332 TGTTGCGATTTTCATTTTC
1 CGTTGCGATTGTCATTTTC
87351 AGAAACTATT
Statistics
Matches: 33, Mismatches: 6, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
20 33 1.00
ACGTcount: A:0.15, C:0.19, G:0.20, T:0.46
Consensus pattern (20 bp):
CGTTGCGATTGTCATTTTCG
Found at i:87541 original size:25 final size:24
Alignment explanation
Indices: 87487--87541 Score: 58
Period size: 25 Copynumber: 2.2 Consensus size: 24
87477 TGTTTATTAT
* *
87487 TGTTTTTGGTATATCTTCACAGTG
1 TGTTTTTGGTATATCTTAACAGTA
87511 TAGTTTTTGGTATATC-TAACTTAGTA
1 T-GTTTTTGGTATATCTTAAC--AGTA
87537 TGTTT
1 TGTTT
87542 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:88691 original size:18 final size:18
Alignment explanation
Indices: 88670--88717 Score: 87
Period size: 18 Copynumber: 2.7 Consensus size: 18
88660 TCCACTTCGG
88670 GAGCCATCACCTCACCCA
1 GAGCCATCACCTCACCCA
*
88688 GAGCTATCACCTCACCCA
1 GAGCCATCACCTCACCCA
88706 GAGCCATCACCT
1 GAGCCATCACCT
88718 GATCGACCCA
Statistics
Matches: 28, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
18 28 1.00
ACGTcount: A:0.27, C:0.46, G:0.12, T:0.15
Consensus pattern (18 bp):
GAGCCATCACCTCACCCA
Found at i:89332 original size:14 final size:14
Alignment explanation
Indices: 89313--89371 Score: 64
Period size: 14 Copynumber: 3.9 Consensus size: 14
89303 ATGCGAAATG
89313 AAAATCGCAACGAC
1 AAAATCGCAACGAC
*
89327 AAAATCGCAATGCGAAATA
1 AAAATCGCAA--CG--A-C
89346 AAAATCGCAACGAC
1 AAAATCGCAACGAC
89360 AAAATCGCAACG
1 AAAATCGCAACG
89372 CGAAATGAAA
Statistics
Matches: 38, Mismatches: 2, Indels: 10
0.76 0.04 0.20
Matches are distributed among these distances:
14 22 0.58
15 1 0.03
16 2 0.05
17 2 0.05
18 1 0.03
19 10 0.26
ACGTcount: A:0.51, C:0.24, G:0.15, T:0.10
Consensus pattern (14 bp):
AAAATCGCAACGAC
Found at i:89340 original size:33 final size:33
Alignment explanation
Indices: 89297--89388 Score: 157
Period size: 33 Copynumber: 2.8 Consensus size: 33
89287 GGAAATGGCT
*
89297 ATCGCTATGCGAAATGAAAATCGCAACGACAAA
1 ATCGCAATGCGAAATGAAAATCGCAACGACAAA
*
89330 ATCGCAATGCGAAATAAAAATCGCAACGACAAA
1 ATCGCAATGCGAAATGAAAATCGCAACGACAAA
*
89363 ATCGCAACGCGAAATGAAAATCGCAA
1 ATCGCAATGCGAAATGAAAATCGCAA
89389 TGCGATTTGT
Statistics
Matches: 55, Mismatches: 4, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
33 55 1.00
ACGTcount: A:0.48, C:0.22, G:0.17, T:0.13
Consensus pattern (33 bp):
ATCGCAATGCGAAATGAAAATCGCAACGACAAA
Found at i:89351 original size:19 final size:19
Alignment explanation
Indices: 89327--89393 Score: 72
Period size: 19 Copynumber: 3.8 Consensus size: 19
89317 TCGCAACGAC
89327 AAAATCGCAATGCGAAATA
1 AAAATCGCAATGCGAAATA
*
89346 AAAATCGCAA--CG--A-C
1 AAAATCGCAATGCGAAATA
* *
89360 AAAATCGCAACGCGAAATG
1 AAAATCGCAATGCGAAATA
89379 AAAATCGCAATGCGA
1 AAAATCGCAATGCGA
89394 TTTGTGTTTC
Statistics
Matches: 40, Mismatches: 3, Indels: 10
0.75 0.06 0.19
Matches are distributed among these distances:
14 10 0.25
15 1 0.03
16 2 0.05
17 2 0.05
18 1 0.03
19 24 0.60
ACGTcount: A:0.49, C:0.21, G:0.18, T:0.12
Consensus pattern (19 bp):
AAAATCGCAATGCGAAATA
Found at i:89424 original size:14 final size:14
Alignment explanation
Indices: 89405--89463 Score: 55
Period size: 14 Copynumber: 3.9 Consensus size: 14
89395 TTGTGTTTCG
89405 CGTTGCGATTTTGT
1 CGTTGCGATTTTGT
*
89419 CGTTGCGATTTTCATTT
1 CGTTGCGA-TTT--TGT
*
89436 CGCATTGCAATTTTGT
1 CG--TTGCGATTTTGT
89452 CGTTGCGATTTT
1 CGTTGCGATTTT
89464 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:89437 original size:33 final size:33
Alignment explanation
Indices: 89400--89479 Score: 142
Period size: 33 Copynumber: 2.4 Consensus size: 33
89390 GCGATTTGTG
*
89400 TTTCGCGTTGCGATTTTGTCGTTGCGATTTTCA
1 TTTCGCATTGCGATTTTGTCGTTGCGATTTTCA
*
89433 TTTCGCATTGCAATTTTGTCGTTGCGATTTTCA
1 TTTCGCATTGCGATTTTGTCGTTGCGATTTTCA
89466 TTTCGCATTGCGAT
1 TTTCGCATTGCGAT
89480 AGCCATTTCC
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:0.12, C:0.19, G:0.21, T:0.47
Consensus pattern (33 bp):
TTTCGCATTGCGATTTTGTCGTTGCGATTTTCA
Found at i:89448 original size:19 final size:19
Alignment explanation
Indices: 89421--89518 Score: 71
Period size: 20 Copynumber: 5.3 Consensus size: 19
89411 GATTTTGTCG
89421 TTGCGATTTTCATTTCGCA
1 TTGCGATTTTCATTTCGCA
* *
89440 TTGC-AATTT--TGTCG--
1 TTGCGATTTTCATTTCGCA
89454 TTGCGATTTTCATTTCGCA
1 TTGCGATTTTCATTTCGCA
*** *
89473 TTGCGATAGCCATTTCCGCG
1 TTGCGATTTTCATTT-CGCA
**
89493 TTGCGATAGTCATTTTCGCA
1 TTGCGATTTTCA-TTTCGCA
89513 TTGCGA
1 TTGCGA
89519 AAGTAAGTTT
Statistics
Matches: 62, Mismatches: 10, Indels: 13
0.73 0.12 0.15
Matches are distributed among these distances:
14 4 0.06
15 4 0.06
16 4 0.06
17 4 0.06
18 4 0.06
19 16 0.26
20 23 0.37
21 3 0.05
ACGTcount: A:0.16, C:0.21, G:0.20, T:0.42
Consensus pattern (19 bp):
TTGCGATTTTCATTTCGCA
Found at i:89498 original size:20 final size:19
Alignment explanation
Indices: 89464--89518 Score: 74
Period size: 20 Copynumber: 2.8 Consensus size: 19
89454 TTGCGATTTT
89464 CATTTCGCATTGCGATAGC
1 CATTTCGCATTGCGATAGC
* *
89483 CATTTCCGCGTTGCGATAGT
1 CATTT-CGCATTGCGATAGC
89503 CATTTTCGCATTGCGA
1 CA-TTTCGCATTGCGA
89519 AAGTAAGTTT
Statistics
Matches: 31, Mismatches: 3, Indels: 3
0.84 0.08 0.08
Matches are distributed among these distances:
19 5 0.16
20 23 0.74
21 3 0.10
ACGTcount: A:0.18, C:0.25, G:0.22, T:0.35
Consensus pattern (19 bp):
CATTTCGCATTGCGATAGC
Found at i:89529 original size:20 final size:19
Alignment explanation
Indices: 89465--89544 Score: 61
Period size: 20 Copynumber: 4.1 Consensus size: 19
89455 TGCGATTTTC
* **
89465 ATTTCGCATTGCGATAGCC
1 ATTTCGCATTGCGAAAGTA
* *
89484 ATTTCCGCGTTGCGATAGTCA
1 ATTT-CGCATTGCGAAAGT-A
*
89505 TTTTCGCATTGCGAAAGTA
1 ATTTCGCATTGCGAAAGTA
**
89524 AGTTTCGTGTTGCGAAAGTA
1 A-TTTCGCATTGCGAAAGTA
89544 A
1 A
89545 ACTATTCTTC
Statistics
Matches: 49, Mismatches: 9, Indels: 5
0.78 0.14 0.08
Matches are distributed among these distances:
19 5 0.10
20 41 0.84
21 3 0.06
ACGTcount: A:0.24, C:0.19, G:0.24, T:0.34
Consensus pattern (19 bp):
ATTTCGCATTGCGAAAGTA
Found at i:89536 original size:40 final size:39
Alignment explanation
Indices: 89452--89538 Score: 95
Period size: 40 Copynumber: 2.2 Consensus size: 39
89442 GCAATTTTGT
** * *
89452 CGTTGCGATTTTCATTTCGCATTGCGATAGCCATTTCCG
1 CGTTGCGATAGTCATTTCGCATTGCGAAAGCAATTTCCG
*
89491 CGTTGCGATAGTCATTTTCGCATTGCGAAAGTAAGTTT-CG
1 CGTTGCGATAGTCA-TTTCGCATTGCGAAAGCAA-TTTCCG
*
89531 TGTTGCGA
1 CGTTGCGA
89539 AAGTAAACTA
Statistics
Matches: 40, Mismatches: 6, Indels: 3
0.82 0.12 0.06
Matches are distributed among these distances:
39 12 0.30
40 25 0.62
41 3 0.08
ACGTcount: A:0.18, C:0.21, G:0.24, T:0.37
Consensus pattern (39 bp):
CGTTGCGATAGTCATTTCGCATTGCGAAAGCAATTTCCG
Found at i:89919 original size:21 final size:20
Alignment explanation
Indices: 89893--89960 Score: 66
Period size: 21 Copynumber: 3.4 Consensus size: 20
89883 CTGTCATCCC
89893 TCAAGAGTCCCCTCCAATCGT
1 TCAAGAGTCCCCTCC-ATCGT
* * * *
89914 TCAAGAGGCCTCTATCATCCT
1 TCAAGAGTCCCCT-CCATCGT
*
89935 TCAAGAGTCCCC-CCACCGT
1 TCAAGAGTCCCCTCCATCGT
89954 TCAAGAG
1 TCAAGAG
89961 GCCACTGTCA
Statistics
Matches: 37, Mismatches: 9, Indels: 4
0.74 0.18 0.08
Matches are distributed among these distances:
19 11 0.30
21 25 0.68
22 1 0.03
ACGTcount: A:0.25, C:0.37, G:0.16, T:0.22
Consensus pattern (20 bp):
TCAAGAGTCCCCTCCATCGT
Found at i:89972 original size:40 final size:40
Alignment explanation
Indices: 89883--90002 Score: 132
Period size: 42 Copynumber: 2.9 Consensus size: 40
89873 CCCGACTCAC
* * *
89883 CTGTCATCCCTCAAGAGTCCCCTCCAATCGTTCAAGAGGCCT
1 CTGTCATCCTTCAAGAGTCCCC-CC-ACCGTTCAAGAGGCCA
*
89925 CTATCATCCTTCAAGAGTCCCCCCACCGTTCAAGAGGCCA
1 CTGTCATCCTTCAAGAGTCCCCCCACCGTTCAAGAGGCCA
* * * *
89965 CTGTCATCGTTGAAGAGGTCCCTCCCACCATTCCAGAG
1 CTGTCATCCTTCAAGA-GTCCC-CCCACCGTTCAAGAG
90003 CCCGATTCAC
Statistics
Matches: 67, Mismatches: 9, Indels: 4
0.84 0.11 0.05
Matches are distributed among these distances:
40 27 0.40
41 7 0.10
42 33 0.49
ACGTcount: A:0.23, C:0.38, G:0.17, T:0.23
Consensus pattern (40 bp):
CTGTCATCCTTCAAGAGTCCCCCCACCGTTCAAGAGGCCA
Found at i:91417 original size:14 final size:14
Alignment explanation
Indices: 91383--91421 Score: 51
Period size: 14 Copynumber: 2.8 Consensus size: 14
91373 TTGATTATTT
91383 AATTGATTTGTAAA
1 AATTGATTTGTAAA
*
91397 AAATGATTTGTAAA
1 AATTGATTTGTAAA
**
91411 TGTTGATTTGT
1 AATTGATTTGT
91422 TTAATTGATG
Statistics
Matches: 21, Mismatches: 4, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
14 21 1.00
ACGTcount: A:0.36, C:0.00, G:0.18, T:0.46
Consensus pattern (14 bp):
AATTGATTTGTAAA
Found at i:91582 original size:19 final size:19
Alignment explanation
Indices: 91558--91606 Score: 89
Period size: 19 Copynumber: 2.6 Consensus size: 19
91548 ATTGCAACGA
*
91558 GAAAATCGCAATGCGAAAT
1 GAAAATCGCAATACGAAAT
91577 GAAAATCGCAATACGAAAT
1 GAAAATCGCAATACGAAAT
91596 GAAAATCGCAA
1 GAAAATCGCAA
91607 CGAGAAAATC
Statistics
Matches: 29, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
19 29 1.00
ACGTcount: A:0.51, C:0.16, G:0.18, T:0.14
Consensus pattern (19 bp):
GAAAATCGCAATACGAAAT
Found at i:91613 original size:19 final size:18
Alignment explanation
Indices: 91558--91613 Score: 67
Period size: 19 Copynumber: 2.9 Consensus size: 18
91548 ATTGCAACGA
*
91558 GAAAATCGCAATGCGAAAT
1 GAAAATCGCAA-GAGAAAT
*
91577 GAAAATCGCAATACGAAAT
1 GAAAATCGCAAGA-GAAAT
91596 GAAAATCGCAACGAGAAA
1 GAAAATCGCAA-GAGAAA
91614 ATCGCAATGT
Statistics
Matches: 32, Mismatches: 3, Indels: 4
0.82 0.08 0.10
Matches are distributed among these distances:
19 31 0.97
20 1 0.03
ACGTcount: A:0.52, C:0.16, G:0.20, T:0.12
Consensus pattern (18 bp):
GAAAATCGCAAGAGAAAT
Found at i:91979 original size:41 final size:41
Alignment explanation
Indices: 91926--92003 Score: 129
Period size: 41 Copynumber: 1.9 Consensus size: 41
91916 CGAAAGTCAG
*
91926 TATCACGTTGCGAAAGTCAGTATCGCGTTGCGATTTTGTAT
1 TATCACGTTGCGAAAGTCAGTATCGCATTGCGATTTTGTAT
* *
91967 TATCTCGTTGCGATAGTCAGTATCGCATTGCGATTTT
1 TATCACGTTGCGAAAGTCAGTATCGCATTGCGATTTT
92004 CCAAATTCGC
Statistics
Matches: 34, Mismatches: 3, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
41 34 1.00
ACGTcount: A:0.21, C:0.18, G:0.23, T:0.38
Consensus pattern (41 bp):
TATCACGTTGCGAAAGTCAGTATCGCATTGCGATTTTGTAT
Found at i:91997 original size:20 final size:20
Alignment explanation
Indices: 91911--92000 Score: 92
Period size: 20 Copynumber: 4.5 Consensus size: 20
91901 TTCAACATCT
* *
91911 CGTTGCGAAAGTCAGTATCA
1 CGTTGCGATAGTCAGTATCG
*
91931 CGTTGCGAAAGTCAGTATCG
1 CGTTGCGATAGTCAGTATCG
* * *
91951 CGTTGCGATTTTGT-ATTATCT
1 CGTTGCGA--TAGTCAGTATCG
91972 CGTTGCGATAGTCAGTATCG
1 CGTTGCGATAGTCAGTATCG
*
91992 CATTGCGAT
1 CGTTGCGAT
92001 TTTCCAAATT
Statistics
Matches: 58, Mismatches: 9, Indels: 6
0.79 0.12 0.08
Matches are distributed among these distances:
19 3 0.05
20 40 0.69
21 13 0.22
22 2 0.03
ACGTcount: A:0.22, C:0.19, G:0.26, T:0.33
Consensus pattern (20 bp):
CGTTGCGATAGTCAGTATCG
Found at i:92015 original size:21 final size:20
Alignment explanation
Indices: 91989--92040 Score: 59
Period size: 20 Copynumber: 2.5 Consensus size: 20
91979 ATAGTCAGTA
*
91989 TCGCATTGCGATTTTCCAAAT
1 TCGCATTGCGA-TTTACAAAT
* **
92010 TCGCATTACGATTTACTTAT
1 TCGCATTGCGATTTACAAAT
92030 TCGCATTGCGA
1 TCGCATTGCGA
92041 ATTGGGAAAA
Statistics
Matches: 26, Mismatches: 5, Indels: 1
0.81 0.16 0.03
Matches are distributed among these distances:
20 16 0.62
21 10 0.38
ACGTcount: A:0.23, C:0.23, G:0.15, T:0.38
Consensus pattern (20 bp):
TCGCATTGCGATTTACAAAT
Found at i:92236 original size:12 final size:12
Alignment explanation
Indices: 92217--92250 Score: 52
Period size: 12 Copynumber: 2.9 Consensus size: 12
92207 CTCTCCGGCG
92217 ACATCCGTTCCT
1 ACATCCGTTCCT
*
92229 ATATCCGTTCCT
1 ACATCCGTTCCT
92241 ACATCC-TTCC
1 ACATCCGTTCC
92251 CCATCTAGCA
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:92832 original size:24 final size:24
Alignment explanation
Indices: 92805--92858 Score: 81
Period size: 24 Copynumber: 2.2 Consensus size: 24
92795 GTATTCGAAA
*
92805 TTTGATCTTGGTCAATACCCGGAC
1 TTTGATATTGGTCAATACCCGGAC
* *
92829 TTTGATATTGGTCAATACTCGGAT
1 TTTGATATTGGTCAATACCCGGAC
92853 TTTGAT
1 TTTGAT
92859 GATGTTTCAG
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:0.22, C:0.17, G:0.20, T:0.41
Consensus pattern (24 bp):
TTTGATATTGGTCAATACCCGGAC
Found at i:95409 original size:19 final size:18
Alignment explanation
Indices: 95387--95511 Score: 76
Period size: 19 Copynumber: 7.4 Consensus size: 18
95377 GGAAATTACT
95387 ATCGCAATGCGAAATGAAA
1 ATCGCAA-GCGAAATGAAA
* *
95406 ATCGTAA-CG--A-GATA
1 ATCGCAAGCGAAATGAAA
*
95420 ATCGCAATGCGAAATTAAA
1 ATCGCAA-GCGAAATGAAA
*
95439 ATCGCAA-CG--A-GAGA
1 ATCGCAAGCGAAATGAAA
95453 ATCGCAATGCGAAATGAAA
1 ATCGCAA-GCGAAATGAAA
**
95472 ATCGCAA-CG--A-GGGA
1 ATCGCAAGCGAAATGAAA
95486 ATCGCAAAGCGAAATGAAA
1 ATCGC-AAGCGAAATGAAA
95505 ATCGCAA
1 ATCGCAA
95512 CGCAAATTTA
Statistics
Matches: 79, Mismatches: 12, Indels: 31
0.65 0.10 0.25
Matches are distributed among these distances:
14 25 0.32
15 5 0.06
16 6 0.08
17 6 0.08
18 5 0.06
19 32 0.41
ACGTcount: A:0.46, C:0.18, G:0.22, T:0.14
Consensus pattern (18 bp):
ATCGCAAGCGAAATGAAA
Found at i:95429 original size:33 final size:33
Alignment explanation
Indices: 95387--95513 Score: 209
Period size: 33 Copynumber: 3.8 Consensus size: 33
95377 GGAAATTACT
* *
95387 ATCGCAATGCGAAATGAAAATCGTAACGAGATA
1 ATCGCAATGCGAAATGAAAATCGCAACGAGAGA
*
95420 ATCGCAATGCGAAATTAAAATCGCAACGAGAGA
1 ATCGCAATGCGAAATGAAAATCGCAACGAGAGA
*
95453 ATCGCAATGCGAAATGAAAATCGCAACGAGGGA
1 ATCGCAATGCGAAATGAAAATCGCAACGAGAGA
*
95486 ATCGCAAAGCGAAATGAAAATCGCAACG
1 ATCGCAATGCGAAATGAAAATCGCAACG
95514 CAAATTTAGT
Statistics
Matches: 88, Mismatches: 6, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
33 88 1.00
ACGTcount: A:0.45, C:0.18, G:0.23, T:0.14
Consensus pattern (33 bp):
ATCGCAATGCGAAATGAAAATCGCAACGAGAGA
Found at i:95540 original size:19 final size:19
Alignment explanation
Indices: 95518--95589 Score: 75
Period size: 19 Copynumber: 4.1 Consensus size: 19
95508 GCAACGCAAA
95518 TTTAGTTTCGCGTTGCGAT
1 TTTAGTTTCGCGTTGCGAT
*
95537 TTTAGTTTCGCGTTGCAAT
1 TTTAGTTTCGCGTTGCGAT
95556 TTT-G--T--CGTTGCGATT
1 TTTAGTTTCGCGTTGCGA-T
*
95571 TTTA-TTTCGCATTGCGAT
1 TTTAGTTTCGCGTTGCGAT
95589 T
1 T
95590 CTCTAGTTGC
Statistics
Matches: 44, Mismatches: 3, Indels: 13
0.73 0.05 0.22
Matches are distributed among these distances:
14 7 0.16
15 4 0.09
16 1 0.02
17 1 0.02
18 3 0.07
19 28 0.64
ACGTcount: A:0.12, C:0.15, G:0.22, T:0.50
Consensus pattern (19 bp):
TTTAGTTTCGCGTTGCGAT
Found at i:95565 original size:33 final size:32
Alignment explanation
Indices: 95528--95654 Score: 155
Period size: 33 Copynumber: 3.8 Consensus size: 32
95518 TTTAGTTTCG
* * * *
95528 CGTTGCGATTTTAGTTTCGCGTTGCAATTTTGT
1 CGTTGCGATTTTA-TTTCGCATTGCGATTATCT
*
95561 CGTTGCGATTTTTATTTCGCATTGCGATTCTCT
1 CGTTGCGA-TTTTATTTCGCATTGCGATTATCT
*
95594 AGTTGCGATTTTCATTTCGCATTGCGATTATCT
1 CGTTGCGATTTT-ATTTCGCATTGCGATTATCT
*
95627 CGTTGCGATTTTCATTTTGCATTGCGAT
1 CGTTGCGATTTT-ATTTCGCATTGCGAT
95655 AGTAATTTTT
Statistics
Matches: 84, Mismatches: 8, Indels: 4
0.88 0.08 0.04
Matches are distributed among these distances:
32 4 0.05
33 75 0.89
34 5 0.06
ACGTcount: A:0.14, C:0.18, G:0.20, T:0.47
Consensus pattern (32 bp):
CGTTGCGATTTTATTTCGCATTGCGATTATCT
Found at i:95620 original size:19 final size:19
Alignment explanation
Indices: 95563--95654 Score: 69
Period size: 19 Copynumber: 5.4 Consensus size: 19
95553 AATTTTGTCG
*
95563 TTGCGATTTTTATTTCGCA
1 TTGCGATTTTCATTTCGCA
* *
95582 TTGCGA--TTC-TCTAG--
1 TTGCGATTTTCATTTCGCA
95596 TTGCGATTTTCATTTCGCA
1 TTGCGATTTTCATTTCGCA
*
95615 TTGCGA--TT-ATCTCG--
1 TTGCGATTTTCATTTCGCA
*
95629 TTGCGATTTTCATTTTGCA
1 TTGCGATTTTCATTTCGCA
95648 TTGCGAT
1 TTGCGAT
95655 AGTAATTTTT
Statistics
Matches: 55, Mismatches: 8, Indels: 20
0.66 0.10 0.24
Matches are distributed among these distances:
14 12 0.22
16 13 0.24
17 11 0.20
19 19 0.35
ACGTcount: A:0.15, C:0.18, G:0.18, T:0.48
Consensus pattern (19 bp):
TTGCGATTTTCATTTCGCA
Found at i:95635 original size:66 final size:66
Alignment explanation
Indices: 95529--95654 Score: 182
Period size: 66 Copynumber: 1.9 Consensus size: 66
95519 TTAGTTTCGC
* * * *
95529 GTTGCGATTTTAGTTTCGCGTTGCAATTTTGTCGTTGCGATTTTTATTTCGCATTGCGATTCTCT
1 GTTGCGATTTTAGTTTCGCATTGCAATTATCTCGTTGCGATTTTCATTTCGCATTGCGATTCTCT
95594 A
66 A
* *
95595 GTTGCGATTTTCA-TTTCGCATTGCGATTATCTCGTTGCGATTTTCATTTTGCATTGCGAT
1 GTTGCGATTTT-AGTTTCGCATTGCAATTATCTCGTTGCGATTTTCATTTCGCATTGCGAT
95655 AGTAATTTTT
Statistics
Matches: 53, Mismatches: 6, Indels: 2
0.87 0.10 0.03
Matches are distributed among these distances:
66 52 0.98
67 1 0.02
ACGTcount: A:0.14, C:0.17, G:0.21, T:0.48
Consensus pattern (66 bp):
GTTGCGATTTTAGTTTCGCATTGCAATTATCTCGTTGCGATTTTCATTTCGCATTGCGATTCTCT
A
Found at i:95780 original size:14 final size:15
Alignment explanation
Indices: 95761--95797 Score: 60
Period size: 14 Copynumber: 2.6 Consensus size: 15
95751 CATCAATTAA
95761 ACAAATCAAC-TTTT
1 ACAAATCAACATTTT
95775 ACAAATC-ACATTTT
1 ACAAATCAACATTTT
95789 ACAAATCAA
1 ACAAATCAA
95798 TTAAACAATC
Statistics
Matches: 21, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
13 2 0.10
14 18 0.86
15 1 0.05
ACGTcount: A:0.49, C:0.22, G:0.00, T:0.30
Consensus pattern (15 bp):
ACAAATCAACATTTT
Found at i:97231 original size:42 final size:42
Alignment explanation
Indices: 97146--97268 Score: 106
Period size: 42 Copynumber: 2.9 Consensus size: 42
97136 GTGAATCAGG
* ** * *
97146 CTCTTGAATGGTGGGA-GGGACCTCTTC-AACAATGACAGTGGC
1 CTCTTGAACGGTGGGAGGGGA-CTC-TCGAGGAATGATAGGGGC
97188 CTCTTGAACGGTGGGAGGGGACTCTCGAGGAATGATAGGGGC
1 CTCTTGAACGGTGGGAGGGGACTCTCGAGGAATGATAGGGGC
* * * * * * *
97230 CTCTTCAACGATAGAAGTGGACTCTTGAGGGATGATAGG
1 CTCTTGAACGGTGGGAGGGGACTCTCGAGGAATGATAGG
97269 CGAGTCGGGC
Statistics
Matches: 67, Mismatches: 12, Indels: 4
0.81 0.14 0.05
Matches are distributed among these distances:
41 2 0.03
42 61 0.91
43 4 0.06
ACGTcount: A:0.24, C:0.18, G:0.35, T:0.23
Consensus pattern (42 bp):
CTCTTGAACGGTGGGAGGGGACTCTCGAGGAATGATAGGGGC
Found at i:97667 original size:91 final size:90
Alignment explanation
Indices: 97486--97670 Score: 266
Period size: 91 Copynumber: 2.0 Consensus size: 90
97476 ATTTCAAACT
*
97486 TTCAACCAAAAGACAAAACAAAGACAAATACTAACTTCACAATGTTAAAGAATACACAGTTTATC
1 TTCAACCAAAAGACAAAACAAAGACAAATACTAACTTCACAATGTTAAAGAAT--A-AGTTTAGC
*
97551 AGAATTGGCAGCAACCGAATAAATTTAC
63 AGAATTGGAAGCAACCGAATAAATTTAC
*
97579 TTCAACCAAAAGACAAAACAAAAAGACAAATACTAACTTCACAGTGTTAATA-AAT-AGTTTAGC
1 TTCAACCAAAAGACAAAAC--AAAGACAAATACTAACTTCACAATGTTAA-AGAATAAGTTTAGC
*
97642 AGTATTGGAAGCAACCGAATAAATTTAC
63 AGAATTGGAAGCAACCGAATAAATTTAC
97670 T
1 T
97671 AAGCAATCTA
Statistics
Matches: 85, Mismatches: 4, Indels: 8
0.88 0.04 0.08
Matches are distributed among these distances:
91 34 0.40
93 19 0.22
95 31 0.36
96 1 0.01
ACGTcount: A:0.48, C:0.18, G:0.11, T:0.23
Consensus pattern (90 bp):
TTCAACCAAAAGACAAAACAAAGACAAATACTAACTTCACAATGTTAAAGAATAAGTTTAGCAGA
ATTGGAAGCAACCGAATAAATTTAC
Found at i:98052 original size:21 final size:21
Alignment explanation
Indices: 98028--98102 Score: 52
Period size: 21 Copynumber: 3.7 Consensus size: 21
98018 GTGACGGGAT
98028 AGGTGATGGCTCTCGTTGTAG
1 AGGTGATGGCTCTCGTTGTAG
* ** *
98049 AGGTGTATAG-TCGGGTTG-ATC
1 AGGTG-ATGGCTCTCGTTGTA-G
*
98070 AGGTGATGGCTCT-G-GGT-G
1 AGGTGATGGCTCTCGTTGTAG
98088 AGGTGATGGCTCTCG
1 AGGTGATGGCTCTCG
98103 AAGTGGAGGA
Statistics
Matches: 41, Mismatches: 8, Indels: 12
0.67 0.13 0.20
Matches are distributed among these distances:
18 13 0.32
19 2 0.05
20 5 0.12
21 18 0.44
22 3 0.07
ACGTcount: A:0.15, C:0.13, G:0.41, T:0.31
Consensus pattern (21 bp):
AGGTGATGGCTCTCGTTGTAG
Found at i:99383 original size:20 final size:19
Alignment explanation
Indices: 99356--99463 Score: 100
Period size: 20 Copynumber: 5.8 Consensus size: 19
99346 TCTTTTGGTT
99356 GAAATGAAAATCGCAACGA
1 GAAATGAAAATCGCAACGA
*
99375 GATAATGAAAATCGCAACGCG
1 GA-AATGAAAATCGCAACG-A
**
99396 GAAATGACTATCGCAACGA
1 GAAATGAAAATCGCAACGA
*
99415 G--A-G--AATCGCAACGC
1 GAAATGAAAATCGCAACGA
** *
99429 GAAATGACTATCGCAACGC
1 GAAATGAAAATCGCAACGA
99448 GAAATGAAAATCGCAA
1 GAAATGAAAATCGCAA
99464 TGCGATTTTG
Statistics
Matches: 73, Mismatches: 9, Indels: 14
0.76 0.09 0.15
Matches are distributed among these distances:
14 10 0.14
16 2 0.03
17 2 0.03
19 27 0.37
20 30 0.41
21 2 0.03
ACGTcount: A:0.44, C:0.20, G:0.22, T:0.13
Consensus pattern (19 bp):
GAAATGAAAATCGCAACGA
Found at i:99400 original size:40 final size:38
Alignment explanation
Indices: 99356--99468 Score: 137
Period size: 33 Copynumber: 3.1 Consensus size: 38
99346 TCTTTTGGTT
**
99356 GAAATGAAAATCGCAACGAGATAATGAAAATCGCAACGC
1 GAAATGACTATCGCAACGAGA-AATGAAAATCGCAACGC
99395 GGAAATGACTATCGCAACGAG--A-G--AATCGCAACGC
1 -GAAATGACTATCGCAACGAGAAATGAAAATCGCAACGC
* *
99429 GAAATGACTATCGCAACGCGAAATGAAAATCGCAATGC
1 GAAATGACTATCGCAACGAGAAATGAAAATCGCAACGC
99467 GA
1 GA
99469 TTTTGGTTTC
Statistics
Matches: 64, Mismatches: 4, Indels: 12
0.80 0.05 0.15
Matches are distributed among these distances:
33 19 0.30
34 11 0.17
35 1 0.02
36 2 0.03
37 1 0.02
38 12 0.19
40 18 0.28
ACGTcount: A:0.43, C:0.20, G:0.23, T:0.13
Consensus pattern (38 bp):
GAAATGACTATCGCAACGAGAAATGAAAATCGCAACGC
Found at i:99443 original size:19 final size:19
Alignment explanation
Indices: 99356--99468 Score: 110
Period size: 19 Copynumber: 6.1 Consensus size: 19
99346 TCTTTTGGTT
*
99356 GAAATGAAAATCGCAACGA
1 GAAATGAAAATCGCAACGC
99375 GATAATGAAAATCGCAACGC
1 GA-AATGAAAATCGCAACGC
**
99395 GGAAATGACTATCGCAA--C
1 -GAAATGAAAATCGCAACGC
*
99413 G--A-GAGAATCGCAACGC
1 GAAATGAAAATCGCAACGC
**
99429 GAAATGACTATCGCAACGC
1 GAAATGAAAATCGCAACGC
*
99448 GAAATGAAAATCGCAATGC
1 GAAATGAAAATCGCAACGC
99467 GA
1 GA
99469 TTTTGGTTTC
Statistics
Matches: 77, Mismatches: 10, Indels: 14
0.76 0.10 0.14
Matches are distributed among these distances:
14 9 0.12
15 1 0.01
16 2 0.03
17 1 0.01
18 2 0.03
19 32 0.42
20 28 0.36
21 2 0.03
ACGTcount: A:0.43, C:0.20, G:0.23, T:0.13
Consensus pattern (19 bp):
GAAATGAAAATCGCAACGC
Found at i:99512 original size:33 final size:32
Alignment explanation
Indices: 99464--99556 Score: 114
Period size: 33 Copynumber: 2.8 Consensus size: 32
99454 AAAATCGCAA
*
99464 TGCGATTTTGGTTTCGCGTTGCGATTATCTCGT
1 TGCGATTTT-ATTTCGCGTTGCGATTATCTCGT
* *
99497 TGCGATTTTCATTTCGCGTTGCAATTCTCTCGT
1 TGCGATTTT-ATTTCGCGTTGCGATTATCTCGT
*
99530 TGCGATAGTTATTTCCGCGTTGCGATT
1 TGCGAT-TTTATTT-CGCGTTGCGATT
99557 TTCATTCTCG
Statistics
Matches: 52, Mismatches: 6, Indels: 3
0.85 0.10 0.05
Matches are distributed among these distances:
33 39 0.75
34 13 0.25
ACGTcount: A:0.12, C:0.20, G:0.24, T:0.44
Consensus pattern (32 bp):
TGCGATTTTATTTCGCGTTGCGATTATCTCGT
Found at i:100122 original size:20 final size:20
Alignment explanation
Indices: 100081--100192 Score: 109
Period size: 20 Copynumber: 5.5 Consensus size: 20
100071 GCTATGTAAA
* *
100081 TCGCATTGCGATAGTAAG-AT
1 TCGCATTGCGAT-TTACGTAT
*
100101 TCACATTGCGATTTACGTAT
1 TCGCATTGCGATTTACGTAT
* *
100121 TCGCATTGCGATTTTCCTAAT
1 TCGCATTGCGATTTACGT-AT
* *
100142 TCGCATTGCGATTTACTTAA
1 TCGCATTGCGATTTACGTAT
* * *
100162 TCACGTTGCAATTTACGTAT
1 TCGCATTGCGATTTACGTAT
100182 TCGCATTGCGA
1 TCGCATTGCGA
100193 ATTATGAAAA
Statistics
Matches: 73, Mismatches: 17, Indels: 4
0.78 0.18 0.04
Matches are distributed among these distances:
19 3 0.04
20 52 0.71
21 18 0.25
ACGTcount: A:0.24, C:0.21, G:0.18, T:0.38
Consensus pattern (20 bp):
TCGCATTGCGATTTACGTAT
Found at i:100156 original size:41 final size:40
Alignment explanation
Indices: 100099--100192 Score: 107
Period size: 41 Copynumber: 2.3 Consensus size: 40
100089 CGATAGTAAG
* * * * *
100099 ATTCACATTGCGATTTACGTATTCGCATTGCGATTTTCCT
1 ATTCGCATTGCGATTTACGTAATCACATTGCAATTTACCT
* * *
100139 AATTCGCATTGCGATTTACTTAATCACGTTGCAATTTACGT
1 -ATTCGCATTGCGATTTACGTAATCACATTGCAATTTACCT
100180 ATTCGCATTGCGA
1 ATTCGCATTGCGA
100193 ATTATGAAAA
Statistics
Matches: 45, Mismatches: 8, Indels: 1
0.83 0.15 0.02
Matches are distributed among these distances:
40 13 0.29
41 32 0.71
ACGTcount: A:0.23, C:0.21, G:0.16, T:0.39
Consensus pattern (40 bp):
ATTCGCATTGCGATTTACGTAATCACATTGCAATTTACCT
Found at i:100206 original size:21 final size:21
Alignment explanation
Indices: 100182--100254 Score: 76
Period size: 21 Copynumber: 3.5 Consensus size: 21
100172 ATTTACGTAT
* *
100182 TCGCATTGCGAATTATGAAAA
1 TCGCAATGCGAATTACGAAAA
* *
100203 TCGCAACGCGAA-TACGTAAA
1 TCGCAATGCGAATTACGAAAA
*
100223 TCGCAATGCGAATTAGGAAAA
1 TCGCAATGCGAATTACGAAAA
* *
100244 TTGCATTGCGA
1 TCGCAATGCGA
100255 TAGTCAGTAT
Statistics
Matches: 42, Mismatches: 9, Indels: 2
0.79 0.17 0.04
Matches are distributed among these distances:
20 17 0.40
21 25 0.60
ACGTcount: A:0.37, C:0.18, G:0.22, T:0.23
Consensus pattern (21 bp):
TCGCAATGCGAATTACGAAAA
Found at i:100290 original size:21 final size:20
Alignment explanation
Indices: 100241--100293 Score: 65
Period size: 20 Copynumber: 2.6 Consensus size: 20
100231 CGAATTAGGA
100241 AAATT-GCATTGCGATAGTC
1 AAATTCGCATTGCGATAGTC
*
100260 -AGTATCGCATTGCGATAGTCC
1 AAAT-TCGCATTGCGATAGT-C
100281 AAATTCGCATTGC
1 AAATTCGCATTGC
100294 AAATTGGGAA
Statistics
Matches: 28, Mismatches: 2, Indels: 6
0.78 0.06 0.17
Matches are distributed among these distances:
18 2 0.07
19 1 0.04
20 13 0.46
21 10 0.36
22 2 0.07
ACGTcount: A:0.28, C:0.21, G:0.21, T:0.30
Consensus pattern (20 bp):
AAATTCGCATTGCGATAGTC
Found at i:100309 original size:21 final size:21
Alignment explanation
Indices: 100285--100337 Score: 63
Period size: 21 Copynumber: 2.5 Consensus size: 21
100275 TAGTCCAAAT
100285 TCGCATTGC-AAATTGGGAAAA
1 TCGCATTGCGAAATT-GGAAAA
**
100306 TCGCAACGCGAAATTGGAAAA
1 TCGCATTGCGAAATTGGAAAA
*
100327 TTGCATTGCGA
1 TCGCATTGCGA
100338 TAGTCATAAT
Statistics
Matches: 26, Mismatches: 5, Indels: 2
0.79 0.15 0.06
Matches are distributed among these distances:
21 21 0.81
22 5 0.19
ACGTcount: A:0.36, C:0.17, G:0.25, T:0.23
Consensus pattern (21 bp):
TCGCATTGCGAAATTGGAAAA
Found at i:100718 original size:4 final size:4
Alignment explanation
Indices: 100709--100749 Score: 66
Period size: 4 Copynumber: 10.2 Consensus size: 4
100699 TGTTGAAGTC
100709 TCTA TCTA TCTA TCTA TCTA TCTA TCTA TCTA -CTTA TCTA T
1 TCTA TCTA TCTA TCTA TCTA TCTA TCTA TCTA TC-TA TCTA T
100750 TTTCTTCTTC
Statistics
Matches: 35, Mismatches: 0, Indels: 4
0.90 0.00 0.10
Matches are distributed among these distances:
3 1 0.03
4 33 0.94
5 1 0.03
ACGTcount: A:0.24, C:0.24, G:0.00, T:0.51
Consensus pattern (4 bp):
TCTA
Found at i:104259 original size:14 final size:14
Alignment explanation
Indices: 104240--104277 Score: 58
Period size: 15 Copynumber: 2.6 Consensus size: 14
104230 GTTTGTTTCA
104240 TTTAAAATATTTTT
1 TTTAAAATATTTTT
104254 TTTAAAAATATTTTT
1 TTT-AAAATATTTTT
*
104269 CTTAAAATA
1 TTTAAAATA
104278 AATTACATAT
Statistics
Matches: 22, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
14 9 0.41
15 13 0.59
ACGTcount: A:0.42, C:0.03, G:0.00, T:0.55
Consensus pattern (14 bp):
TTTAAAATATTTTT
Found at i:104614 original size:21 final size:23
Alignment explanation
Indices: 104584--104630 Score: 62
Period size: 23 Copynumber: 2.1 Consensus size: 23
104574 TCTATAAAAA
*
104584 TAAAAATATT-AT-ATTATATTT
1 TAAAAATATTAATAAATATATTT
*
104605 TAAAATTATTAATAAATATATTT
1 TAAAAATATTAATAAATATATTT
104628 TAA
1 TAA
104631 GGAATTTTTA
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
21 9 0.41
22 2 0.09
23 11 0.50
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (23 bp):
TAAAAATATTAATAAATATATTT
Found at i:104622 original size:37 final size:36
Alignment explanation
Indices: 104511--104603 Score: 104
Period size: 37 Copynumber: 2.7 Consensus size: 36
104501 ATAATTTTAT
* * * *
104511 AAATAAAAATAT-T-AACTATAGTATAT-TCTATTA
1 AAATAAAAATATATAAATTATATTAAATATCTATAA
104544 AAATAAAAATATAATAAATTATATTAAATATCTATAA
1 AAATAAAAATAT-ATAAATTATATTAAATATCTATAA
*
104581 AAATAAAAATAT-TATATTATATT
1 AAATAAAAATATATAAATTATATT
104604 TTAAAATTAT
Statistics
Matches: 51, Mismatches: 5, Indels: 6
0.82 0.08 0.10
Matches are distributed among these distances:
33 12 0.24
35 11 0.22
36 10 0.20
37 18 0.35
ACGTcount: A:0.57, C:0.03, G:0.01, T:0.39
Consensus pattern (36 bp):
AAATAAAAATATATAAATTATATTAAATATCTATAA
Found at i:104645 original size:23 final size:22
Alignment explanation
Indices: 104584--104646 Score: 58
Period size: 23 Copynumber: 2.8 Consensus size: 22
104574 TCTATAAAAA
* *
104584 TAAAAATA-TTATATTATATTT
1 TAAAATTATTTATAATATATTT
*
104605 TAAAATTATTAATAAATATATTT
1 TAAAATTATTTAT-AATATATTT
104628 TAAGGAATT-TTTATAATAT
1 TAA--AATTATTTATAATAT
104647 TATTAGACTA
Statistics
Matches: 34, Mismatches: 4, Indels: 6
0.77 0.09 0.14
Matches are distributed among these distances:
21 7 0.21
22 3 0.09
23 16 0.47
24 4 0.12
25 4 0.12
ACGTcount: A:0.48, C:0.00, G:0.03, T:0.49
Consensus pattern (22 bp):
TAAAATTATTTATAATATATTT
Found at i:105548 original size:19 final size:19
Alignment explanation
Indices: 105507--105554 Score: 51
Period size: 19 Copynumber: 2.5 Consensus size: 19
105497 TTTTAAATTT
* *
105507 ATTTTGAAATTATAAATAC
1 ATTTTTAAATTATAAATAA
**
105526 ATTTTTAAATTATATTTAA
1 ATTTTTAAATTATAAATAA
105545 ATTTATTAAA
1 ATTT-TTAAA
105555 CAAAACTTAA
Statistics
Matches: 24, Mismatches: 4, Indels: 1
0.83 0.14 0.03
Matches are distributed among these distances:
19 19 0.79
20 5 0.21
ACGTcount: A:0.46, C:0.02, G:0.02, T:0.50
Consensus pattern (19 bp):
ATTTTTAAATTATAAATAA
Found at i:110116 original size:3 final size:3
Alignment explanation
Indices: 110110--110193 Score: 109
Period size: 3 Copynumber: 28.0 Consensus size: 3
110100 AAAAAAATTG
* *
110110 TAA TAA TAA TAA TAA TAA -ATA TAA TAA TAA TAA TAA T-C TAC TAA
1 TAA TAA TAA TAA TAA TAA TA-A TAA TAA TAA TAA TAA TAA TAA TAA
*
110154 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAAA TAA CAA TAA
1 TAA TAA TAA TAA TAA TAA TAA TAA TAA T-AA TAA TAA TAA
110194 CCCGAAAAAA
Statistics
Matches: 73, Mismatches: 4, Indels: 8
0.86 0.05 0.09
Matches are distributed among these distances:
2 2 0.03
3 67 0.92
4 4 0.05
ACGTcount: A:0.64, C:0.04, G:0.00, T:0.32
Consensus pattern (3 bp):
TAA
Found at i:110582 original size:41 final size:42
Alignment explanation
Indices: 110537--110616 Score: 108
Period size: 41 Copynumber: 1.9 Consensus size: 42
110527 AAGGTCTAAT
* * * *
110537 AGATGGCCTGAAGGACTTAA-CATCTTGCTCGAAAGACTGAC
1 AGATGACCCGAAGGACTTAATCAACCTGCTCGAAAGACTGAC
*
110578 AGATGACCCGAAGGATTTAATCAACCTGCTCGAAAGACT
1 AGATGACCCGAAGGACTTAATCAACCTGCTCGAAAGACT
110617 TACTGATAGT
Statistics
Matches: 33, Mismatches: 5, Indels: 1
0.85 0.13 0.03
Matches are distributed among these distances:
41 17 0.52
42 16 0.48
ACGTcount: A:0.34, C:0.23, G:0.23, T:0.21
Consensus pattern (42 bp):
AGATGACCCGAAGGACTTAATCAACCTGCTCGAAAGACTGAC
Found at i:124668 original size:22 final size:21
Alignment explanation
Indices: 124626--124665 Score: 55
Period size: 21 Copynumber: 1.9 Consensus size: 21
124616 GAGTTTGTTT
*
124626 TCATTTTTCAATTTTGAAACA
1 TCATTTTTCAATTTTAAAACA
124647 TCATTTTT-ATATTTTAAAA
1 TCATTTTTCA-ATTTTAAAA
124666 ACAATTTCTC
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
20 1 0.06
21 16 0.94
ACGTcount: A:0.35, C:0.10, G:0.03, T:0.53
Consensus pattern (21 bp):
TCATTTTTCAATTTTAAAACA
Found at i:130567 original size:26 final size:29
Alignment explanation
Indices: 130527--130586 Score: 83
Period size: 27 Copynumber: 2.2 Consensus size: 29
130517 TCTTTCTTTC
130527 TTCT-TTTTTCATTCT-TTTTT-TTTGTT
1 TTCTCTTTTTCATTCTCTTTTTATTTGTT
130553 TTCTCTTTTTC-TTCTCTTTTTATTTGTT
1 TTCTCTTTTTCATTCTCTTTTTATTTGTT
*
130581 ATCTCT
1 TTCTCT
130587 ATATTTGTTC
Statistics
Matches: 30, Mismatches: 1, Indels: 4
0.86 0.03 0.11
Matches are distributed among these distances:
26 8 0.27
27 11 0.37
28 11 0.37
ACGTcount: A:0.05, C:0.17, G:0.03, T:0.75
Consensus pattern (29 bp):
TTCTCTTTTTCATTCTCTTTTTATTTGTT
Found at i:130600 original size:30 final size:28
Alignment explanation
Indices: 130531--130602 Score: 85
Period size: 30 Copynumber: 2.5 Consensus size: 28
130521 TCTTTCTTCT
*
130531 TTTTTCATTCT-TTTTT-TTTGTTTTCTC
1 TTTTTC-TTCTCTTTTTATTTGTTATCTC
130558 TTTTTCTTCTCTTTTTATTTGTTATCTC
1 TTTTTCTTCTCTTTTTATTTGTTATCTC
*
130586 TATATTTGTTCTCTTTT
1 T-T-TTTCTTCTCTTTT
130603 ATCTCTCTTT
Statistics
Matches: 39, Mismatches: 2, Indels: 5
0.85 0.04 0.11
Matches are distributed among these distances:
26 4 0.10
27 11 0.28
28 11 0.28
29 1 0.03
30 12 0.31
ACGTcount: A:0.07, C:0.15, G:0.04, T:0.74
Consensus pattern (28 bp):
TTTTTCTTCTCTTTTTATTTGTTATCTC
Found at i:131353 original size:33 final size:32
Alignment explanation
Indices: 131316--131384 Score: 102
Period size: 33 Copynumber: 2.1 Consensus size: 32
131306 ACTTTATTGC
* *
131316 CTCAAAGAGAGGTAAAGGTATGATTTTGAGTGA
1 CTCAAAGAGAGGTAAAGGTATGACTTCG-GTGA
*
131349 CTCAAAGAGAGGTAATGGTATGACTTCGGTGA
1 CTCAAAGAGAGGTAAAGGTATGACTTCGGTGA
131381 CTCA
1 CTCA
131385 GATAGATGTA
Statistics
Matches: 33, Mismatches: 3, Indels: 1
0.89 0.08 0.03
Matches are distributed among these distances:
32 8 0.24
33 25 0.76
ACGTcount: A:0.33, C:0.12, G:0.29, T:0.26
Consensus pattern (32 bp):
CTCAAAGAGAGGTAAAGGTATGACTTCGGTGA
Found at i:140036 original size:21 final size:21
Alignment explanation
Indices: 140010--140049 Score: 62
Period size: 21 Copynumber: 1.9 Consensus size: 21
140000 CAGAACCCCA
*
140010 GGGGGGTATCGATTCCCCTGT
1 GGGGGGAATCGATTCCCCTGT
*
140031 GGGGGGAATCGGTTCCCCT
1 GGGGGGAATCGATTCCCCT
140050 TCAAAGGAGG
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
21 17 1.00
ACGTcount: A:0.10, C:0.25, G:0.40, T:0.25
Consensus pattern (21 bp):
GGGGGGAATCGATTCCCCTGT
Found at i:140084 original size:20 final size:21
Alignment explanation
Indices: 140031--140092 Score: 63
Period size: 20 Copynumber: 2.9 Consensus size: 21
140021 ATTCCCCTGT
140031 GGGGGGAATCGGTTCCCCTTCAAA
1 GGGGGG-ATCGGTT-CCC-TCAAA
* *
140055 GGAGGAATCGGTTCCCTC-AA
1 GGGGGGATCGGTTCCCTCAAA
*
140075 GGGGGGATCGATTCCCTC
1 GGGGGGATCGGTTCCCTC
140093 TACACCAAAA
Statistics
Matches: 33, Mismatches: 5, Indels: 4
0.79 0.12 0.10
Matches are distributed among these distances:
20 17 0.52
21 2 0.06
22 3 0.09
23 7 0.21
24 4 0.12
ACGTcount: A:0.19, C:0.26, G:0.34, T:0.21
Consensus pattern (21 bp):
GGGGGGATCGGTTCCCTCAAA
Found at i:148040 original size:3 final size:3
Alignment explanation
Indices: 148032--148095 Score: 60
Period size: 3 Copynumber: 21.0 Consensus size: 3
148022 TAAAAAACTG
* *
148032 TAA TAA TAA TAA -AA AAA TAA AAA T-A TCAA TAA TAA TAA TAA TAA
1 TAA TAA TAA TAA TAA TAA TAA TAA TAA T-AA TAA TAA TAA TAA TAA
*
148076 TAAA TAT TAAA TAA TAA TAA
1 T-AA TAA T-AA TAA TAA TAA
148096 CCCGGACAAA
Statistics
Matches: 51, Mismatches: 5, Indels: 10
0.77 0.08 0.15
Matches are distributed among these distances:
2 4 0.08
3 40 0.78
4 7 0.14
ACGTcount: A:0.69, C:0.02, G:0.00, T:0.30
Consensus pattern (3 bp):
TAA
Found at i:148062 original size:26 final size:26
Alignment explanation
Indices: 148033--148095 Score: 83
Period size: 26 Copynumber: 2.4 Consensus size: 26
148023 AAAAAACTGT
*
148033 AATAATAATAA-AAAAATAAAAATATC
1 AATAATAATAATAAAAATAAAAAT-TA
* *
148059 AATAATAATAATAATAATAAATATTA
1 AATAATAATAATAAAAATAAAAATTA
148085 AATAATAATAA
1 AATAATAATAA
148096 CCCGGACAAA
Statistics
Matches: 33, Mismatches: 3, Indels: 2
0.87 0.08 0.05
Matches are distributed among these distances:
26 23 0.70
27 10 0.30
ACGTcount: A:0.70, C:0.02, G:0.00, T:0.29
Consensus pattern (26 bp):
AATAATAATAATAAAAATAAAAATTA
Found at i:148068 original size:12 final size:11
Alignment explanation
Indices: 148034--148095 Score: 51
Period size: 10 Copynumber: 5.9 Consensus size: 11
148024 AAAAACTGTA
*
148034 ATAATAATAAA
1 ATAATAATAAT
* *
148045 AAAATAAAAAT
1 ATAATAATAAT
148056 ATCAATAAT-A-
1 AT-AATAATAAT
148066 ATAATAATAAT
1 ATAATAATAAT
*
148077 A-AATATTAA-
1 ATAATAATAAT
148086 ATAATAATAA
1 ATAATAATAA
148096 CCCGGACAAA
Statistics
Matches: 40, Mismatches: 7, Indels: 9
0.71 0.12 0.16
Matches are distributed among these distances:
9 7 0.17
10 17 0.43
11 11 0.28
12 5 0.12
ACGTcount: A:0.69, C:0.02, G:0.00, T:0.29
Consensus pattern (11 bp):
ATAATAATAAT
Done.