Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Gbar_D01
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: 62811768
ACGTcount: A:0.33, C:0.16, G:0.16, T:0.33
Warning! 736185 characters in sequence are not A, C, G, or T
File 123 of 211
Found at i:35548386 original size:20 final size:20
Alignment explanation
Indices: 35548338--35548386 Score: 62
Period size: 20 Copynumber: 2.5 Consensus size: 20
35548328 TTTAACTTAG
35548338 TTCAGCTCACTTGAGCTCAA
1 TTCAGCTCACTTGAGCTCAA
* * *
35548358 GTGAGCTCATTTGAGCTCAA
1 TTCAGCTCACTTGAGCTCAA
*
35548378 TTCAACTCA
1 TTCAGCTCA
35548387 ATCGTAACCC
Statistics
Matches: 23, Mismatches: 6, Indels: 0
0.79 0.21 0.00
Matches are distributed among these distances:
20 23 1.00
ACGTcount: A:0.27, C:0.27, G:0.16, T:0.31
Consensus pattern (20 bp):
TTCAGCTCACTTGAGCTCAA
Found at i:35552039 original size:21 final size:21
Alignment explanation
Indices: 35551990--35552052 Score: 81
Period size: 21 Copynumber: 3.0 Consensus size: 21
35551980 TTTGAACCAT
* *
35551990 TACCAATTCGTACCAAATACCA
1 TACCATTTCGTACC-AATTCCA
* *
35552012 TAGCATTTCATACCAATTCCA
1 TACCATTTCGTACCAATTCCA
35552033 TACCATTTCGTACCAATTCC
1 TACCATTTCGTACCAATTCC
35552053 CAAATACCAA
Statistics
Matches: 35, Mismatches: 6, Indels: 1
0.83 0.14 0.02
Matches are distributed among these distances:
21 24 0.69
22 11 0.31
ACGTcount: A:0.33, C:0.32, G:0.05, T:0.30
Consensus pattern (21 bp):
TACCATTTCGTACCAATTCCA
Found at i:35554014 original size:11 final size:11
Alignment explanation
Indices: 35553998--35554023 Score: 52
Period size: 11 Copynumber: 2.4 Consensus size: 11
35553988 GGTATTCCAA
35553998 AAGAAAAAAAT
1 AAGAAAAAAAT
35554009 AAGAAAAAAAT
1 AAGAAAAAAAT
35554020 AAGA
1 AAGA
35554024 TGCCTAAAAT
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 15 1.00
ACGTcount: A:0.81, C:0.00, G:0.12, T:0.08
Consensus pattern (11 bp):
AAGAAAAAAAT
Found at i:35557190 original size:22 final size:21
Alignment explanation
Indices: 35557160--35557217 Score: 80
Period size: 22 Copynumber: 2.7 Consensus size: 21
35557150 ATGCAATAGT
*
35557160 AGATTTGATATGTAATCTTAG
1 AGATTTGATTTGTAATCTTAG
*
35557181 AAGATATGATTTTGTAATCTTAG
1 -AGATTTGA-TTTGTAATCTTAG
35557204 AGATTTGATTTGTA
1 AGATTTGATTTGTA
35557218 GATACCATTC
Statistics
Matches: 32, Mismatches: 3, Indels: 3
0.84 0.08 0.08
Matches are distributed among these distances:
21 6 0.19
22 14 0.44
23 12 0.38
ACGTcount: A:0.33, C:0.03, G:0.19, T:0.45
Consensus pattern (21 bp):
AGATTTGATTTGTAATCTTAG
Found at i:35557200 original size:23 final size:22
Alignment explanation
Indices: 35557170--35557214 Score: 72
Period size: 23 Copynumber: 2.0 Consensus size: 22
35557160 AGATTTGATA
35557170 TGTAATCTTAGAAGATATGATTT
1 TGTAATCTTAG-AGATATGATTT
*
35557193 TGTAATCTTAGAGATTTGATTT
1 TGTAATCTTAGAGATATGATTT
35557215 GTAGATACCA
Statistics
Matches: 21, Mismatches: 1, Indels: 1
0.91 0.04 0.04
Matches are distributed among these distances:
22 10 0.48
23 11 0.52
ACGTcount: A:0.31, C:0.04, G:0.18, T:0.47
Consensus pattern (22 bp):
TGTAATCTTAGAGATATGATTT
Found at i:35562149 original size:20 final size:20
Alignment explanation
Indices: 35562126--35562179 Score: 63
Period size: 20 Copynumber: 2.7 Consensus size: 20
35562116 AGTTTTTCCC
*
35562126 AGCTCGATTTAGCTCACATG
1 AGCTCAATTTAGCTCACATG
* ***
35562146 AGCTTAATTTAGCTCGTTTG
1 AGCTCAATTTAGCTCACATG
35562166 AGCTCAATTTAGCT
1 AGCTCAATTTAGCT
35562180 TACTTTAGCT
Statistics
Matches: 28, Mismatches: 6, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
20 28 1.00
ACGTcount: A:0.24, C:0.20, G:0.19, T:0.37
Consensus pattern (20 bp):
AGCTCAATTTAGCTCACATG
Found at i:35562161 original size:30 final size:30
Alignment explanation
Indices: 35562126--35562199 Score: 98
Period size: 30 Copynumber: 2.5 Consensus size: 30
35562116 AGTTTTTCCC
35562126 AGCTCGATTT-AGCTCACA-TGAGCTTAATTT
1 AGCTCG-TTTGAGCTCA-ATTGAGCTTAATTT
* *
35562156 AGCTCGTTTGAGCTCAATTTAGCTTACTTT
1 AGCTCGTTTGAGCTCAATTGAGCTTAATTT
35562186 AGCTCGTTTGAGCT
1 AGCTCGTTTGAGCT
35562200 TGGCTTAAGT
Statistics
Matches: 40, Mismatches: 2, Indels: 4
0.87 0.04 0.09
Matches are distributed among these distances:
29 4 0.10
30 36 0.90
ACGTcount: A:0.22, C:0.20, G:0.19, T:0.39
Consensus pattern (30 bp):
AGCTCGTTTGAGCTCAATTGAGCTTAATTT
Found at i:35562189 original size:20 final size:20
Alignment explanation
Indices: 35562126--35562190 Score: 53
Period size: 20 Copynumber: 3.2 Consensus size: 20
35562116 AGTTTTTCCC
* * * *
35562126 AGCTCGATTTAGCTCACATG
1 AGCTCAATTTAGCTTACTTT
*
35562146 AGCTTAATTTAGC-T-CGTTT
1 AGCTCAATTTAGCTTAC-TTT
35562165 GAGCTCAATTTAGCTTACTTT
1 -AGCTCAATTTAGCTTACTTT
35562186 AGCTC
1 AGCTC
35562191 GTTTGAGCTT
Statistics
Matches: 35, Mismatches: 6, Indels: 8
0.71 0.12 0.16
Matches are distributed among these distances:
18 1 0.03
19 1 0.03
20 28 0.80
21 4 0.11
22 1 0.03
ACGTcount: A:0.23, C:0.22, G:0.17, T:0.38
Consensus pattern (20 bp):
AGCTCAATTTAGCTTACTTT
Found at i:35563969 original size:22 final size:21
Alignment explanation
Indices: 35563939--35563996 Score: 80
Period size: 22 Copynumber: 2.7 Consensus size: 21
35563929 ATGCAATCGT
*
35563939 AGATTTGATATGTAATCTTAG
1 AGATTTGATTTGTAATCTTAG
*
35563960 AAGATATGATTTTGTAATCTTAG
1 -AGATTTGA-TTTGTAATCTTAG
35563983 AGATTTGATTTGTA
1 AGATTTGATTTGTA
35563997 GATACCATTC
Statistics
Matches: 32, Mismatches: 3, Indels: 3
0.84 0.08 0.08
Matches are distributed among these distances:
21 6 0.19
22 14 0.44
23 12 0.38
ACGTcount: A:0.33, C:0.03, G:0.19, T:0.45
Consensus pattern (21 bp):
AGATTTGATTTGTAATCTTAG
Found at i:35563979 original size:23 final size:22
Alignment explanation
Indices: 35563949--35563993 Score: 72
Period size: 23 Copynumber: 2.0 Consensus size: 22
35563939 AGATTTGATA
35563949 TGTAATCTTAGAAGATATGATTT
1 TGTAATCTTAG-AGATATGATTT
*
35563972 TGTAATCTTAGAGATTTGATTT
1 TGTAATCTTAGAGATATGATTT
35563994 GTAGATACCA
Statistics
Matches: 21, Mismatches: 1, Indels: 1
0.91 0.04 0.04
Matches are distributed among these distances:
22 10 0.48
23 11 0.52
ACGTcount: A:0.31, C:0.04, G:0.18, T:0.47
Consensus pattern (22 bp):
TGTAATCTTAGAGATATGATTT
Found at i:35569450 original size:13 final size:13
Alignment explanation
Indices: 35569432--35569475 Score: 67
Period size: 13 Copynumber: 3.6 Consensus size: 13
35569422 ACGAGATTGT
35569432 AAAAAAAATTCGA
1 AAAAAAAATTCGA
35569445 AAAAAAAATTCG-
1 AAAAAAAATTCGA
35569457 -AAAAAAATTC-A
1 AAAAAAAATTCGA
35569468 AAAAAAAA
1 AAAAAAAA
35569476 CAAAAAAGTT
Statistics
Matches: 29, Mismatches: 0, Indels: 5
0.85 0.00 0.15
Matches are distributed among these distances:
11 10 0.34
12 7 0.24
13 12 0.41
ACGTcount: A:0.75, C:0.07, G:0.05, T:0.14
Consensus pattern (13 bp):
AAAAAAAATTCGA
Found at i:35569474 original size:11 final size:11
Alignment explanation
Indices: 35569432--35569474 Score: 59
Period size: 11 Copynumber: 3.7 Consensus size: 11
35569422 ACGAGATTGT
35569432 AAAAAAAATTC
1 AAAAAAAATTC
35569443 GAAAAAAAAATTC
1 --AAAAAAAATTC
*
35569456 GAAAAAAATTC
1 AAAAAAAATTC
35569467 AAAAAAAA
1 AAAAAAAA
35569475 ACAAAAAAGT
Statistics
Matches: 28, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
11 17 0.61
13 11 0.39
ACGTcount: A:0.74, C:0.07, G:0.05, T:0.14
Consensus pattern (11 bp):
AAAAAAAATTC
Found at i:35569547 original size:18 final size:19
Alignment explanation
Indices: 35569513--35569550 Score: 60
Period size: 18 Copynumber: 2.1 Consensus size: 19
35569503 TCCTTTGTGT
*
35569513 ATTCAGTATTGAAAAAAAA
1 ATTCAGAATTGAAAAAAAA
35569532 ATTCAGAATT-AAAAAAAA
1 ATTCAGAATTGAAAAAAAA
35569550 A
1 A
35569551 AGAAGTGATT
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
18 9 0.50
19 9 0.50
ACGTcount: A:0.63, C:0.05, G:0.08, T:0.24
Consensus pattern (19 bp):
ATTCAGAATTGAAAAAAAA
Found at i:35569551 original size:19 final size:19
Alignment explanation
Indices: 35569513--35569551 Score: 60
Period size: 19 Copynumber: 2.1 Consensus size: 19
35569503 TCCTTTGTGT
* *
35569513 ATTCAGTATTGAAAAAAAA
1 ATTCAGAATTAAAAAAAAA
35569532 ATTCAGAATTAAAAAAAAA
1 ATTCAGAATTAAAAAAAAA
35569551 A
1 A
35569552 GAAGTGATTG
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
19 18 1.00
ACGTcount: A:0.64, C:0.05, G:0.08, T:0.23
Consensus pattern (19 bp):
ATTCAGAATTAAAAAAAAA
Found at i:35571484 original size:22 final size:21
Alignment explanation
Indices: 35571452--35571493 Score: 66
Period size: 22 Copynumber: 2.0 Consensus size: 21
35571442 TTGGTATTTG
35571452 GGAATTGGTACGAAATGGTAT
1 GGAATTGGTACGAAATGGTAT
*
35571473 GGAATTTGGTACGAATTGGTA
1 GGAA-TTGGTACGAAATGGTA
35571494 ATGGTTCAAA
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
21 4 0.21
22 15 0.79
ACGTcount: A:0.31, C:0.05, G:0.33, T:0.31
Consensus pattern (21 bp):
GGAATTGGTACGAAATGGTAT
Found at i:35573219 original size:15 final size:14
Alignment explanation
Indices: 35573183--35573237 Score: 65
Period size: 15 Copynumber: 3.8 Consensus size: 14
35573173 TCTATTGAGC
35573183 GAGAAAAAGAAAAA
1 GAGAAAAAGAAAAA
*
35573197 GAGAAAAACAAAAA
1 GAGAAAAAGAAAAA
*
35573211 GAGTGAAAAGAAAAA
1 GAG-AAAAAGAAAAA
*
35573226 GAAAGAAAAGAA
1 GAGA-AAAAGAA
35573238 TGATGATACG
Statistics
Matches: 34, Mismatches: 5, Indels: 3
0.81 0.12 0.07
Matches are distributed among these distances:
14 16 0.47
15 18 0.53
ACGTcount: A:0.75, C:0.02, G:0.22, T:0.02
Consensus pattern (14 bp):
GAGAAAAAGAAAAA
Found at i:35574206 original size:21 final size:23
Alignment explanation
Indices: 35574161--35574207 Score: 62
Period size: 23 Copynumber: 2.1 Consensus size: 23
35574151 TCACCTGCAA
* *
35574161 TAAACACATTAAAATGAGTTTAT
1 TAAACACATTAAAATCAGCTTAT
35574184 TAAACACATTAAAA-CA-CTTAT
1 TAAACACATTAAAATCAGCTTAT
35574205 TAA
1 TAA
35574208 TCATAACACA
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
21 7 0.32
22 1 0.05
23 14 0.64
ACGTcount: A:0.51, C:0.13, G:0.04, T:0.32
Consensus pattern (23 bp):
TAAACACATTAAAATCAGCTTAT
Found at i:35584664 original size:79 final size:82
Alignment explanation
Indices: 35584553--35584737 Score: 229
Period size: 79 Copynumber: 2.3 Consensus size: 82
35584543 GCTACTCGTT
* * *
35584553 CAAATGCCTTCGGGACATAGCCCGG-TTATAGTAACTCGCACAATTGCCTTCGGGA-CTTAACCC
1 CAAATGCCTTCGGGACTTAGCCCGGAATATAGTAACTCGCACAAATGCCTTC-GGATCTTAACCC
* *
35584616 GGATTTAGTAAC-TCGCA
65 GGATATAGTAACTTAGCA
* **
35584633 CAAATGCCTTCGGG-CTTAGCCCGGAAT-TAGTATCTCGCACAAATGCCTTCGGATCTTAGTCCG
1 CAAATGCCTTCGGGACTTAGCCCGGAATATAGTAACTCGCACAAATGCCTTCGGATCTTAACCCG
* *
35584696 GATATGGTCACTTAGCA
66 GATATAGTAACTTAGCA
35584713 CAAA-GCCTTCGGGACTTAGCCCGGA
1 CAAATGCCTTCGGGACTTAGCCCGGA
35584738 CATCATTCAA
Statistics
Matches: 91, Mismatches: 10, Indels: 8
0.83 0.09 0.07
Matches are distributed among these distances:
78 3 0.03
79 54 0.59
80 34 0.37
ACGTcount: A:0.25, C:0.28, G:0.23, T:0.25
Consensus pattern (82 bp):
CAAATGCCTTCGGGACTTAGCCCGGAATATAGTAACTCGCACAAATGCCTTCGGATCTTAACCCG
GATATAGTAACTTAGCA
Found at i:35584737 original size:40 final size:40
Alignment explanation
Indices: 35584534--35584737 Score: 229
Period size: 40 Copynumber: 5.1 Consensus size: 40
35584524 CGGAATTTAA
** *
35584534 CCGGATATAGCT-ACTCGTTCAAATGCCTTCGGGACATAGC
1 CCGGATATAG-TAACTCGCACAAATGCCTTCGGGACTTAGC
* * *
35584574 CCGGTTATAGTAACTCGCACAATTGCCTTCGGGACTTAAC
1 CCGGATATAGTAACTCGCACAAATGCCTTCGGGACTTAGC
*
35584614 CCGGATTTAGTAACTCGCACAAATGCCTTCGGG-CTTAGC
1 CCGGATATAGTAACTCGCACAAATGCCTTCGGGACTTAGC
* *
35584653 CCGGA-ATTAGTATCTCGCACAAATGCCTTC-GGATCTTAGT
1 CCGGATA-TAGTAACTCGCACAAATGCCTTCGGGA-CTTAGC
* * *
35584693 CCGGATATGGTCACTTAGCACAAA-GCCTTCGGGACTTAGC
1 CCGGATATAGTAAC-TCGCACAAATGCCTTCGGGACTTAGC
35584733 CCGGA
1 CCGGA
35584738 CATCATTCAA
Statistics
Matches: 139, Mismatches: 18, Indels: 14
0.81 0.11 0.08
Matches are distributed among these distances:
38 2 0.01
39 33 0.24
40 92 0.66
41 12 0.09
ACGTcount: A:0.25, C:0.27, G:0.23, T:0.25
Consensus pattern (40 bp):
CCGGATATAGTAACTCGCACAAATGCCTTCGGGACTTAGC
Found at i:35586511 original size:16 final size:16
Alignment explanation
Indices: 35586490--35586537 Score: 53
Period size: 16 Copynumber: 2.9 Consensus size: 16
35586480 GAAATAGAGA
*
35586490 AAAGAAAAAAGAAATG
1 AAAGAAAAAAGAAAAG
35586506 AAAG-AAAAAGAACAAG
1 AAAGAAAAAAGAA-AAG
*
35586522 AAATCAAAAAAGAAAA
1 AAA-GAAAAAAGAAAA
35586538 TGAGAGTGAG
Statistics
Matches: 27, Mismatches: 2, Indels: 5
0.79 0.06 0.15
Matches are distributed among these distances:
15 8 0.30
16 9 0.33
17 2 0.07
18 8 0.30
ACGTcount: A:0.77, C:0.04, G:0.15, T:0.04
Consensus pattern (16 bp):
AAAGAAAAAAGAAAAG
Found at i:35586512 original size:21 final size:20
Alignment explanation
Indices: 35586480--35586537 Score: 57
Period size: 21 Copynumber: 2.9 Consensus size: 20
35586470 AACATGGAAT
*
35586480 GAAATAGAGAAAAGAAAAAA
1 GAAATAAAGAAAAGAAAAAA
*
35586500 GAAATGAAAGAAAA-AGAACAA
1 GAAAT-AAAGAAAAGA-AAAAA
*
35586521 GAAATCAA-AAAAGAAAA
1 GAAATAAAGAAAAGAAAA
35586538 TGAGAGTGAG
Statistics
Matches: 31, Mismatches: 4, Indels: 7
0.74 0.10 0.17
Matches are distributed among these distances:
19 6 0.19
20 9 0.29
21 16 0.52
ACGTcount: A:0.74, C:0.03, G:0.17, T:0.05
Consensus pattern (20 bp):
GAAATAAAGAAAAGAAAAAA
Found at i:35586566 original size:25 final size:25
Alignment explanation
Indices: 35586528--35586575 Score: 62
Period size: 25 Copynumber: 1.9 Consensus size: 25
35586518 CAAGAAATCA
35586528 AAAAAGAAAATGAGAGTGAGAAAAAG
1 AAAAAGAAAATGAGAGTGA-AAAAAG
* *
35586554 AAAAA-AAATTGAGATTGAAAAA
1 AAAAAGAAAATGAGAGTGAAAAA
35586576 GGAAGTGAAA
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
24 4 0.20
25 11 0.55
26 5 0.25
ACGTcount: A:0.67, C:0.00, G:0.21, T:0.12
Consensus pattern (25 bp):
AAAAAGAAAATGAGAGTGAAAAAAG
Found at i:35590658 original size:18 final size:18
Alignment explanation
Indices: 35590639--35590674 Score: 54
Period size: 18 Copynumber: 1.9 Consensus size: 18
35590629 TTTCTTTGTC
*
35590639 AATTTTTTTCTCAATCTCA
1 AATTCTTTT-TCAATCTCA
35590658 AATTCTTTTTCAATCTC
1 AATTCTTTTTCAATCTC
35590675 TTTTCGCTTT
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
18 8 0.50
19 8 0.50
ACGTcount: A:0.25, C:0.22, G:0.00, T:0.53
Consensus pattern (18 bp):
AATTCTTTTTCAATCTCA
Found at i:35590727 original size:15 final size:16
Alignment explanation
Indices: 35590709--35590747 Score: 55
Period size: 15 Copynumber: 2.6 Consensus size: 16
35590699 TTCTGATATC
35590709 TCATTTTC-ATCATTT
1 TCATTTTCTATCATTT
*
35590724 TCA-TTTCTTTCATTT
1 TCATTTTCTATCATTT
35590739 TCATTTTCT
1 TCATTTTCT
35590748 TTGTTCTTTT
Statistics
Matches: 21, Mismatches: 1, Indels: 3
0.84 0.04 0.12
Matches are distributed among these distances:
14 4 0.19
15 12 0.57
16 5 0.24
ACGTcount: A:0.15, C:0.21, G:0.00, T:0.64
Consensus pattern (16 bp):
TCATTTTCTATCATTT
Found at i:35591788 original size:11 final size:11
Alignment explanation
Indices: 35591772--35591820 Score: 64
Period size: 11 Copynumber: 4.5 Consensus size: 11
35591762 ATACAAAAAA
35591772 TTTTTT-AACTT
1 TTTTTTGAA-TT
35591783 TTTTTTGAATT
1 TTTTTTGAATT
35591794 TTTTTTGAATT
1 TTTTTTGAATT
**
35591805 TTTTTTTTATT
1 TTTTTTGAATT
35591816 TTTTT
1 TTTTT
35591821 ACAATACCGT
Statistics
Matches: 35, Mismatches: 2, Indels: 2
0.90 0.05 0.05
Matches are distributed among these distances:
11 33 0.94
12 2 0.06
ACGTcount: A:0.14, C:0.02, G:0.04, T:0.80
Consensus pattern (11 bp):
TTTTTTGAATT
Found at i:35593649 original size:33 final size:33
Alignment explanation
Indices: 35593612--35593683 Score: 90
Period size: 33 Copynumber: 2.2 Consensus size: 33
35593602 TGATCGAGCC
* *
35593612 AGGTAAAACCAAACTTTGTTTCCCTGCTCCAAA
1 AGGTAAAACCAAACTTTATTTCCCTACTCCAAA
** * *
35593645 AGGTAAAACTGAACTTTATTTTCCTACTCCTAA
1 AGGTAAAACCAAACTTTATTTCCCTACTCCAAA
35593678 AGGTAA
1 AGGTAA
35593684 GCCTCCTGAA
Statistics
Matches: 33, Mismatches: 6, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
33 33 1.00
ACGTcount: A:0.35, C:0.22, G:0.12, T:0.31
Consensus pattern (33 bp):
AGGTAAAACCAAACTTTATTTCCCTACTCCAAA
Found at i:35594754 original size:30 final size:29
Alignment explanation
Indices: 35594700--35594846 Score: 103
Period size: 30 Copynumber: 5.2 Consensus size: 29
35594690 GTGAGTTTGG
*
35594700 AGAAA-TG-AAAGAAA-AGACATTGAAAA
1 AGAAAGTGAAAAGAAACAGAAATTGAAAA
35594726 AG-AAGTTGCAAAAGAAACAGAAATTGAAAA
1 AGAAAG-TG-AAAAGAAACAGAAATTGAAAA
** * *
35594756 AGTGAGTGAAAAGGAAAAAGAGATTGAAAA
1 AGAAAGTGAAAA-GAAACAGAAATTGAAAA
*
35594786 AGAAATTG-AAAGAAAACA-AAA-TGAAAA
1 AGAAAGTGAAAAG-AAACAGAAATTGAAAA
* * **
35594813 CGAAAGTGGAAAAGAAAAAGATCTTG-AAA
1 AGAAAGT-GAAAAGAAACAGAAATTGAAAA
35594842 AGAAA
1 AGAAA
35594847 TCGAGTGAAA
Statistics
Matches: 94, Mismatches: 15, Indels: 21
0.72 0.12 0.16
Matches are distributed among these distances:
25 2 0.02
26 2 0.02
27 13 0.14
28 8 0.09
29 30 0.32
30 37 0.39
31 2 0.02
ACGTcount: A:0.62, C:0.04, G:0.22, T:0.12
Consensus pattern (29 bp):
AGAAAGTGAAAAGAAACAGAAATTGAAAA
Found at i:35594772 original size:18 final size:18
Alignment explanation
Indices: 35594751--35594790 Score: 53
Period size: 18 Copynumber: 2.2 Consensus size: 18
35594741 AACAGAAATT
* *
35594751 GAAAAAGTGAGTGAAAAG
1 GAAAAAGAGAGTGAAAAA
*
35594769 GAAAAAGAGATTGAAAAA
1 GAAAAAGAGAGTGAAAAA
35594787 GAAA
1 GAAA
35594791 TTGAAAGAAA
Statistics
Matches: 19, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
18 19 1.00
ACGTcount: A:0.62, C:0.00, G:0.28, T:0.10
Consensus pattern (18 bp):
GAAAAAGAGAGTGAAAAA
Found at i:35594884 original size:32 final size:33
Alignment explanation
Indices: 35594817--35594889 Score: 89
Period size: 33 Copynumber: 2.2 Consensus size: 33
35594807 TGAAAACGAA
*
35594817 AGTGGAAAAGAAAAAGATCTTGAAAAGAAATCG
1 AGTGAAAAAGAAAAAGATCTTGAAAAGAAATCG
*
35594850 AGTGAAAAAGAAAGAGAGTC-TGTAAAAG-AA-CG
1 AGTGAAAAAGAAAAAGA-TCTTG-AAAAGAAATCG
35594882 AGTGAAAA
1 AGTGAAAA
35594890 GAGTAATCAC
Statistics
Matches: 36, Mismatches: 2, Indels: 5
0.84 0.05 0.12
Matches are distributed among these distances:
32 10 0.28
33 19 0.53
34 7 0.19
ACGTcount: A:0.55, C:0.05, G:0.26, T:0.14
Consensus pattern (33 bp):
AGTGAAAAAGAAAAAGATCTTGAAAAGAAATCG
Found at i:35599285 original size:20 final size:20
Alignment explanation
Indices: 35599260--35599297 Score: 67
Period size: 20 Copynumber: 1.9 Consensus size: 20
35599250 TAAATCGGGA
*
35599260 GCTGGACATTCATTCATGCC
1 GCTGGACATACATTCATGCC
35599280 GCTGGACATACATTCATG
1 GCTGGACATACATTCATG
35599298 TATCTTGCTG
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
20 17 1.00
ACGTcount: A:0.24, C:0.26, G:0.21, T:0.29
Consensus pattern (20 bp):
GCTGGACATACATTCATGCC
Found at i:35607066 original size:50 final size:52
Alignment explanation
Indices: 35606943--35607071 Score: 122
Period size: 50 Copynumber: 2.5 Consensus size: 52
35606933 ACTAAATGAG
* * * *
35606943 TTACTTAATGCA-AGACTTAATTTAATGATGCAGACTTAAACTAACATGGGAG
1 TTACATAATGCATA-ACTTTATTTAATGATGCAGACTTAAACTAACATGGAAA
* ** * *
35606995 TTACATAAAGCAT-GTTATTATTT-ATGATGCATACTT-AACTAGCATGGAAA
1 TTACATAATGCATAACT-TTATTTAATGATGCAGACTTAAACTAACATGGAAA
*
35607045 TTACATAATGCATAACTTTATTAAATG
1 TTACATAATGCATAACTTTATTTAATG
35607072 CAGAACACAC
Statistics
Matches: 60, Mismatches: 13, Indels: 9
0.73 0.16 0.11
Matches are distributed among these distances:
50 28 0.47
51 17 0.28
52 15 0.25
ACGTcount: A:0.39, C:0.12, G:0.14, T:0.35
Consensus pattern (52 bp):
TTACATAATGCATAACTTTATTTAATGATGCAGACTTAAACTAACATGGAAA
Found at i:35612934 original size:10 final size:10
Alignment explanation
Indices: 35612907--35612986 Score: 67
Period size: 10 Copynumber: 7.9 Consensus size: 10
35612897 TAAGTCATTG
35612907 TGAAAAAGAAT
1 TGAAAAA-AAT
*
35612918 TAAAAAAAAAT
1 T-GAAAAAAAT
35612929 TGAAAAAAAT
1 TGAAAAAAAT
*
35612939 GGAAACAAAAT
1 TGAAA-AAAAT
35612950 TGAAACAAAA-
1 TGAAA-AAAAT
35612960 T-AAAAAAAT
1 TGAAAAAAAT
*
35612969 T-CAAAAAAT
1 TGAAAAAAAT
*
35612978 TCAAAAAAA
1 TGAAAAAAA
35612987 AAGTTTATTT
Statistics
Matches: 59, Mismatches: 6, Indels: 9
0.80 0.08 0.12
Matches are distributed among these distances:
8 4 0.07
9 12 0.20
10 19 0.32
11 19 0.32
12 5 0.08
ACGTcount: A:0.71, C:0.05, G:0.07, T:0.16
Consensus pattern (10 bp):
TGAAAAAAAT
Found at i:35614059 original size:13 final size:12
Alignment explanation
Indices: 35614041--35614082 Score: 54
Period size: 10 Copynumber: 3.7 Consensus size: 12
35614031 TGTGAGCGAG
35614041 AAAAGAACATTGA
1 AAAAGAA-ATTGA
35614054 AAAAGAAATTG-
1 AAAAGAAATTGA
35614065 -AAAGAAA-TGA
1 AAAAGAAATTGA
35614075 AAAAGAAA
1 AAAAGAAA
35614083 AAGATGAAAA
Statistics
Matches: 27, Mismatches: 0, Indels: 6
0.82 0.00 0.18
Matches are distributed among these distances:
9 2 0.07
10 7 0.26
11 7 0.26
12 4 0.15
13 7 0.26
ACGTcount: A:0.69, C:0.02, G:0.17, T:0.12
Consensus pattern (12 bp):
AAAAGAAATTGA
Found at i:35615194 original size:42 final size:42
Alignment explanation
Indices: 35615141--35615223 Score: 139
Period size: 42 Copynumber: 2.0 Consensus size: 42
35615131 AATATGTGTG
*
35615141 AAACATTTGAAATTCAAATATTTAAACTCTTGTTCTTATCCA
1 AAACATTTGAAATTCAAACATTTAAACTCTTGTTCTTATCCA
* *
35615183 AAACGTTTGAAATTCAAACATTTGAACTCTTGTTCTTATCC
1 AAACATTTGAAATTCAAACATTTAAACTCTTGTTCTTATCC
35615224 TTTTGAATTT
Statistics
Matches: 38, Mismatches: 3, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
42 38 1.00
ACGTcount: A:0.35, C:0.18, G:0.07, T:0.40
Consensus pattern (42 bp):
AAACATTTGAAATTCAAACATTTAAACTCTTGTTCTTATCCA
Found at i:35637773 original size:14 final size:14
Alignment explanation
Indices: 35637754--35637782 Score: 58
Period size: 14 Copynumber: 2.1 Consensus size: 14
35637744 TTAGTACTGG
35637754 TTCTTTCTTGACCT
1 TTCTTTCTTGACCT
35637768 TTCTTTCTTGACCT
1 TTCTTTCTTGACCT
35637782 T
1 T
35637783 AAAGGTCAAG
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 15 1.00
ACGTcount: A:0.07, C:0.28, G:0.07, T:0.59
Consensus pattern (14 bp):
TTCTTTCTTGACCT
Found at i:35638439 original size:20 final size:20
Alignment explanation
Indices: 35638416--35638459 Score: 61
Period size: 20 Copynumber: 2.2 Consensus size: 20
35638406 GCTCGTTCCT
35638416 GCTCAAATCAGCTCACTTGA
1 GCTCAAATCAGCTCACTTGA
***
35638436 GCTCTTTTCAGCTCACTTGA
1 GCTCAAATCAGCTCACTTGA
35638456 GCTC
1 GCTC
35638460 TTTTCAGCTC
Statistics
Matches: 21, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
20 21 1.00
ACGTcount: A:0.20, C:0.32, G:0.16, T:0.32
Consensus pattern (20 bp):
GCTCAAATCAGCTCACTTGA
Found at i:35638478 original size:20 final size:20
Alignment explanation
Indices: 35638423--35638469 Score: 94
Period size: 20 Copynumber: 2.4 Consensus size: 20
35638413 CCTGCTCAAA
35638423 TCAGCTCACTTGAGCTCTTT
1 TCAGCTCACTTGAGCTCTTT
35638443 TCAGCTCACTTGAGCTCTTT
1 TCAGCTCACTTGAGCTCTTT
35638463 TCAGCTC
1 TCAGCTC
35638470 GTTTGAGCTT
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 27 1.00
ACGTcount: A:0.15, C:0.32, G:0.15, T:0.38
Consensus pattern (20 bp):
TCAGCTCACTTGAGCTCTTT
Found at i:35640112 original size:20 final size:20
Alignment explanation
Indices: 35640087--35640125 Score: 69
Period size: 20 Copynumber: 1.9 Consensus size: 20
35640077 TTAAATAGGG
*
35640087 AGCTGGACATTCATTCATGC
1 AGCTGGACATACATTCATGC
35640107 AGCTGGACATACATTCATG
1 AGCTGGACATACATTCATG
35640126 TATCTTGCTG
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
20 18 1.00
ACGTcount: A:0.28, C:0.23, G:0.21, T:0.28
Consensus pattern (20 bp):
AGCTGGACATACATTCATGC
Found at i:35642711 original size:21 final size:20
Alignment explanation
Indices: 35642685--35642748 Score: 60
Period size: 21 Copynumber: 3.2 Consensus size: 20
35642675 AATTTGGGGA
35642685 TTTAATTTTAGATCTGATTAG
1 TTTAATTTTAGATCTG-TTAG
* * *
35642706 TTTAATCTTA-TTCT-TTAT
1 TTTAATTTTAGATCTGTTAG
*
35642724 TTTAATTTTCAGATCTGTTCG
1 TTTAATTTT-AGATCTGTTAG
35642745 TTTA
1 TTTA
35642749 GAGCTTTTGT
Statistics
Matches: 33, Mismatches: 7, Indels: 6
0.72 0.15 0.13
Matches are distributed among these distances:
18 11 0.33
19 1 0.03
20 6 0.18
21 15 0.45
ACGTcount: A:0.23, C:0.09, G:0.09, T:0.58
Consensus pattern (20 bp):
TTTAATTTTAGATCTGTTAG
Found at i:35647969 original size:50 final size:52
Alignment explanation
Indices: 35647844--35647974 Score: 124
Period size: 50 Copynumber: 2.6 Consensus size: 52
35647834 AAACTAAATG
* * * *
35647844 AGTTACTTAATGCA-AGACTTAATTTAATGATGCAGGCTTAAACGAACATGGG
1 AGTTACATAATGCATA-ACTTTATTTAATGATGCAGACTTAAACGAACATGGA
* ** * * * *
35647896 AGTTACATAAAGCATGTCATTATTT-ATGATGCATACTT-AACTAGCATGGA
1 AGTTACATAATGCATAACTTTATTTAATGATGCAGACTTAAACGAACATGGA
*
35647946 AGTTACATAATGCATAACTTTATTAAATG
1 AGTTACATAATGCATAACTTTATTTAATG
35647975 CAGAACACAC
Statistics
Matches: 61, Mismatches: 16, Indels: 5
0.74 0.20 0.06
Matches are distributed among these distances:
50 29 0.48
51 14 0.23
52 18 0.30
ACGTcount: A:0.37, C:0.13, G:0.17, T:0.33
Consensus pattern (52 bp):
AGTTACATAATGCATAACTTTATTTAATGATGCAGACTTAAACGAACATGGA
Found at i:35652350 original size:22 final size:21
Alignment explanation
Indices: 35652319--35652369 Score: 66
Period size: 22 Copynumber: 2.3 Consensus size: 21
35652309 ACCTCTTTGA
35652319 ACCATTACCAATTCGTACCAAAT
1 ACCA-TACCAATTCGTACC-AAT
*
35652342 ACCATACCATTTCGTACCAAT
1 ACCATACCAATTCGTACCAAT
*
35652363 TCCATAC
1 ACCATAC
35652370 TATTTTGAAC
Statistics
Matches: 26, Mismatches: 2, Indels: 2
0.87 0.07 0.07
Matches are distributed among these distances:
21 9 0.35
22 13 0.50
23 4 0.15
ACGTcount: A:0.35, C:0.33, G:0.04, T:0.27
Consensus pattern (21 bp):
ACCATACCAATTCGTACCAAT
Found at i:35652369 original size:21 final size:21
Alignment explanation
Indices: 35652324--35652386 Score: 72
Period size: 21 Copynumber: 3.0 Consensus size: 21
35652314 TTTGAACCAT
* *
35652324 TACCAATTCGTACCAAATACCA
1 TACCATTTCGTACC-AATTCCA
35652346 TACCATTTCGTACCAATTCCA
1 TACCATTTCGTACCAATTCCA
* * *
35652367 TACTATTTTGAACCAATTCC
1 TACCATTTCGTACCAATTCC
35652387 CAAATACCAA
Statistics
Matches: 36, Mismatches: 5, Indels: 1
0.86 0.12 0.02
Matches are distributed among these distances:
21 23 0.64
22 13 0.36
ACGTcount: A:0.33, C:0.30, G:0.05, T:0.32
Consensus pattern (21 bp):
TACCATTTCGTACCAATTCCA
Found at i:35653853 original size:53 final size:53
Alignment explanation
Indices: 35653773--35653879 Score: 178
Period size: 53 Copynumber: 2.0 Consensus size: 53
35653763 GGAGAAAAAG
* * *
35653773 ATTGAATTAGTATTTGATTACCATAACTATTCTGGGAATAAGAAGGTCAAACT
1 ATTGAATTAGTATTTCATTACCATAACTATTCTGAGAATAAGAAAGTCAAACT
*
35653826 ATTGAATTAGTATTTCATTGCCATAACTATTCTGAGAATAAGAAAGTCAAACT
1 ATTGAATTAGTATTTCATTACCATAACTATTCTGAGAATAAGAAAGTCAAACT
35653879 A
1 A
35653880 GTCGTAACTG
Statistics
Matches: 50, Mismatches: 4, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
53 50 1.00
ACGTcount: A:0.39, C:0.12, G:0.15, T:0.34
Consensus pattern (53 bp):
ATTGAATTAGTATTTCATTACCATAACTATTCTGAGAATAAGAAAGTCAAACT
Found at i:35655226 original size:15 final size:15
Alignment explanation
Indices: 35655191--35655226 Score: 54
Period size: 16 Copynumber: 2.3 Consensus size: 15
35655181 AAGGAAGCAA
35655191 AAGAAGAAAAAAAAT
1 AAGAAGAAAAAAAAT
*
35655206 AGAGAAGAAAAAAATT
1 A-AGAAGAAAAAAAAT
35655222 AAGAA
1 AAGAA
35655227 AATAAGTGTG
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
15 5 0.26
16 14 0.74
ACGTcount: A:0.75, C:0.00, G:0.17, T:0.08
Consensus pattern (15 bp):
AAGAAGAAAAAAAAT
Found at i:35679526 original size:38 final size:39
Alignment explanation
Indices: 35679455--35679637 Score: 194
Period size: 39 Copynumber: 4.6 Consensus size: 39
35679445 GCTACTCGTT
*
35679455 CAAATGCCTTCGTGACATAGCCCGG-TTATAGTAACTCGCA
1 CAAATGCCTTCG-GACTTAGCCCGGATT-TAGTAACTCGCA
*
35679495 -AAATGCCTTCGGACTTAACCCGGATTTAGTAACTCGCA
1 CAAATGCCTTCGGACTTAGCCCGGATTTAGTAACTCGCA
* * *
35679533 CAAATGCC-TCGGGCTTTAGCCCGGAATTAGTATCTCGCA
1 CAAATGCCTTCGGAC-TTAGCCCGGATTTAGTAACTCGCA
* * * * *
35679572 CAAATGCCTTCGGATCTTAGTCCGGATATGGTCACTTAGCA
1 CAAATGCCTTCGGA-CTTAGCCCGGATTTAGTAAC-TCGCA
35679613 CAAA-GCCTTCGGGACTTAGCCCGGA
1 CAAATGCCTTC-GGACTTAGCCCGGA
35679638 CATCATTCAA
Statistics
Matches: 121, Mismatches: 15, Indels: 14
0.81 0.10 0.09
Matches are distributed among these distances:
38 27 0.22
39 49 0.40
40 33 0.27
41 12 0.10
ACGTcount: A:0.26, C:0.27, G:0.22, T:0.25
Consensus pattern (39 bp):
CAAATGCCTTCGGACTTAGCCCGGATTTAGTAACTCGCA
Found at i:35687488 original size:79 final size:82
Alignment explanation
Indices: 35687377--35687561 Score: 238
Period size: 79 Copynumber: 2.3 Consensus size: 82
35687367 GCTACTCGTT
* *
35687377 CAAATGCCTTCGGGACATAGCCCGG-TTATAGTAACTCGCACAAATGCCTTCGGGA-CTTAACCC
1 CAAATGCCTTCGGGACTTAGCCCGGAATATAGTAACTCGCACAAATGCCTTC-GGATCTTAACCC
* *
35687440 GGATTTAGTAAC-TCGCA
65 GGATATAGTAACTTAGCA
* **
35687457 CAAATGCCTTCGGG-CTTAGCCCGGAAT-TAGTATCTCGCACAAATGCCTTCGGATCTTAGTCCG
1 CAAATGCCTTCGGGACTTAGCCCGGAATATAGTAACTCGCACAAATGCCTTCGGATCTTAACCCG
* *
35687520 GATATGGTCACTTAGCA
66 GATATAGTAACTTAGCA
35687537 CAAA-GCCTTCGGGACTTAGCCCGGA
1 CAAATGCCTTCGGGACTTAGCCCGGA
35687562 CATCATTCAA
Statistics
Matches: 92, Mismatches: 9, Indels: 8
0.84 0.08 0.07
Matches are distributed among these distances:
78 3 0.03
79 55 0.60
80 34 0.37
ACGTcount: A:0.25, C:0.28, G:0.23, T:0.24
Consensus pattern (82 bp):
CAAATGCCTTCGGGACTTAGCCCGGAATATAGTAACTCGCACAAATGCCTTCGGATCTTAACCCG
GATATAGTAACTTAGCA
Found at i:35687561 original size:40 final size:40
Alignment explanation
Indices: 35687358--35687561 Score: 238
Period size: 40 Copynumber: 5.1 Consensus size: 40
35687348 CGGAATTTAA
** *
35687358 CCGGATATAGCT-ACTCGTTCAAATGCCTTCGGGACATAGC
1 CCGGATATAG-TAACTCGCACAAATGCCTTCGGGACTTAGC
* *
35687398 CCGGTTATAGTAACTCGCACAAATGCCTTCGGGACTTAAC
1 CCGGATATAGTAACTCGCACAAATGCCTTCGGGACTTAGC
*
35687438 CCGGATTTAGTAACTCGCACAAATGCCTTCGGG-CTTAGC
1 CCGGATATAGTAACTCGCACAAATGCCTTCGGGACTTAGC
* *
35687477 CCGGA-ATTAGTATCTCGCACAAATGCCTTC-GGATCTTAGT
1 CCGGATA-TAGTAACTCGCACAAATGCCTTCGGGA-CTTAGC
* * *
35687517 CCGGATATGGTCACTTAGCACAAA-GCCTTCGGGACTTAGC
1 CCGGATATAGTAAC-TCGCACAAATGCCTTCGGGACTTAGC
35687557 CCGGA
1 CCGGA
35687562 CATCATTCAA
Statistics
Matches: 141, Mismatches: 16, Indels: 14
0.82 0.09 0.08
Matches are distributed among these distances:
38 2 0.01
39 33 0.23
40 94 0.67
41 12 0.09
ACGTcount: A:0.25, C:0.27, G:0.23, T:0.25
Consensus pattern (40 bp):
CCGGATATAGTAACTCGCACAAATGCCTTCGGGACTTAGC
Found at i:35693942 original size:18 final size:17
Alignment explanation
Indices: 35693898--35693944 Score: 51
Period size: 18 Copynumber: 2.6 Consensus size: 17
35693888 CTTGGACACT
35693898 TTCTTTTCTTTCTTCAA
1 TTCTTTTCTTTCTTCAA
35693915 TCTCTCTTTCTTT-TTCAACA
1 T-TCT-TTTCTTTCTTC-A-A
35693935 TTCTTTTCTT
1 TTCTTTTCTT
35693945 GCTCGTATGC
Statistics
Matches: 26, Mismatches: 0, Indels: 7
0.79 0.00 0.21
Matches are distributed among these distances:
17 1 0.04
18 12 0.46
19 11 0.42
20 2 0.08
ACGTcount: A:0.11, C:0.26, G:0.00, T:0.64
Consensus pattern (17 bp):
TTCTTTTCTTTCTTCAA
Found at i:35703150 original size:66 final size:65
Alignment explanation
Indices: 35703073--35703206 Score: 259
Period size: 66 Copynumber: 2.0 Consensus size: 65
35703063 GAGGAATTGA
35703073 CATGTAAGACGTTTTGTTCACTTGACTGTAAAAATGGTGTTTTGAATCTGCCCTTCTACATTGAA
1 CATGTAAGACGTTTTGTTCACTTGACTGTAAAAATGGTGTTTTGAATCTGCCCTTCTACA-TGAA
35703138 T
65 T
35703139 CATGTAAGACGTTTTGTTCACTTGACTGTAAAAATGGTGTTTTGAATCTGCCCTTCTACATGAAT
1 CATGTAAGACGTTTTGTTCACTTGACTGTAAAAATGGTGTTTTGAATCTGCCCTTCTACATGAAT
35703204 CAT
1 CAT
35703207 ACTTGTCTTG
Statistics
Matches: 68, Mismatches: 0, Indels: 1
0.99 0.00 0.01
Matches are distributed among these distances:
65 8 0.12
66 60 0.88
ACGTcount: A:0.26, C:0.17, G:0.18, T:0.39
Consensus pattern (65 bp):
CATGTAAGACGTTTTGTTCACTTGACTGTAAAAATGGTGTTTTGAATCTGCCCTTCTACATGAAT
Found at i:35704392 original size:41 final size:41
Alignment explanation
Indices: 35704335--35704421 Score: 165
Period size: 41 Copynumber: 2.1 Consensus size: 41
35704325 GGATTAAAGG
35704335 AGCTCATTTAAGCACTTGGCTGAACATAGACAAGGCCAATC
1 AGCTCATTTAAGCACTTGGCTGAACATAGACAAGGCCAATC
*
35704376 AGCTCATTTAAGCACTTGGCTGATCATAGACAAGGCCAATC
1 AGCTCATTTAAGCACTTGGCTGAACATAGACAAGGCCAATC
35704417 AGCTC
1 AGCTC
35704422 CCTACTCTTC
Statistics
Matches: 45, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
41 45 1.00
ACGTcount: A:0.32, C:0.25, G:0.20, T:0.23
Consensus pattern (41 bp):
AGCTCATTTAAGCACTTGGCTGAACATAGACAAGGCCAATC
Found at i:35706145 original size:33 final size:33
Alignment explanation
Indices: 35706088--35706220 Score: 113
Period size: 33 Copynumber: 3.7 Consensus size: 33
35706078 TTATTCGTTA
* *
35706088 TCGGTGGATTCAGCACTTATCAACCACCAATGAG
1 TCGG-GGAATCAGCACTTAGCAACCACCAATGAG
* * *
35706122 TCGGGGAATCAACACTTAGCAACCCCTTTCACATTTAAG
1 TCGGGGAATCAGCACTTAGCAACCAC---CA-A--TGAG
* *
35706161 ATACGGTGGGATCAGCACTTAGCAACCACCAATGAT
1 -T-CGG-GGAATCAGCACTTAGCAACCACCAATGAG
35706197 TCGGGGAATCAGCACTTAGCAACC
1 TCGGGGAATCAGCACTTAGCAACC
35706221 CCTCGGGGGA
Statistics
Matches: 79, Mismatches: 11, Indels: 19
0.72 0.10 0.17
Matches are distributed among these distances:
33 37 0.47
34 7 0.09
35 1 0.01
36 4 0.05
37 1 0.01
38 1 0.01
39 5 0.06
40 1 0.01
41 3 0.04
42 19 0.24
ACGTcount: A:0.31, C:0.27, G:0.20, T:0.22
Consensus pattern (33 bp):
TCGGGGAATCAGCACTTAGCAACCACCAATGAG
Found at i:35706248 original size:102 final size:96
Alignment explanation
Indices: 35706124--35706318 Score: 291
Period size: 102 Copynumber: 2.0 Consensus size: 96
35706114 CCAATGAGTC
* *
35706124 GGGGAATCAACACTTAGCAACCCCTTTCACATTTAAGATACGGTGGGATCAGCACTTAGCAACCA
1 GGGGAATCAACACTTAGCAACCCCCTTCACATTTAAGATACGGTGGAATCAGCACTTAGCAACC-
35706189 CCAATGATTCGGGGAATCAGCACTTAGCAACCCCTCG
65 CC-----TTCGGGGAATCAGCACTTAGCAACCCCTCG
* *
35706226 GGGGAATCAGCACTTAGTAACCCCCTTCACATTTAAGATACGGTGGAATCAGCACTTAGCAACCC
1 GGGGAATCAACACTTAGCAACCCCCTTCACATTTAAGATACGGTGGAATCAGCACTTAGCAACCC
*
35706291 CTTGGGGGAATCAGCACTTAGCAACCCC
66 CTTCGGGGAATCAGCACTTAGCAACCCC
35706319 CTTTATATTC
Statistics
Matches: 88, Mismatches: 5, Indels: 6
0.89 0.05 0.06
Matches are distributed among these distances:
96 26 0.30
101 2 0.02
102 60 0.68
ACGTcount: A:0.30, C:0.29, G:0.21, T:0.21
Consensus pattern (96 bp):
GGGGAATCAACACTTAGCAACCCCCTTCACATTTAAGATACGGTGGAATCAGCACTTAGCAACCC
CTTCGGGGAATCAGCACTTAGCAACCCCTCG
Found at i:35709067 original size:33 final size:32
Alignment explanation
Indices: 35709023--35709105 Score: 89
Period size: 33 Copynumber: 2.6 Consensus size: 32
35709013 CAGAACACAA
* *
35709023 AATGCATGACATAATTAAAAGATGTAGATCAAT
1 AATGCAAGACATAATTAAAAGATGCA-ATCAAT
* *
35709056 AATGCAAGACATTAATT-AAAGATGCATTTAAT
1 AATGCAAGACA-TAATTAAAAGATGCAATCAAT
*
35709088 AA-ACAAGACATAATTAAA
1 AATGCAAGACATAATTAAA
35709106 GACTCATATT
Statistics
Matches: 43, Mismatches: 5, Indels: 6
0.80 0.09 0.11
Matches are distributed among these distances:
30 5 0.12
31 9 0.21
32 6 0.14
33 18 0.42
34 5 0.12
ACGTcount: A:0.52, C:0.10, G:0.12, T:0.27
Consensus pattern (32 bp):
AATGCAAGACATAATTAAAAGATGCAATCAAT
Found at i:35716618 original size:39 final size:39
Alignment explanation
Indices: 35716566--35716736 Score: 202
Period size: 39 Copynumber: 4.3 Consensus size: 39
35716556 GGACTAAGAT
*
35716566 CCGAAGGCATTTGTGCGAGATACAAGTTCCGGGTTAAG-C
1 CCGAAGGCATTTGTGCGAGATACAA-ATCCGGGTTAAGTC
*
35716605 CCGAAGGCCTTTGTGCGAGATACTAAATCCGGGTTAAGTC
1 CCGAAGGCATTTGTGCGAGATAC-AAATCCGGGTTAAGTC
* * *
35716645 CCGAAGGCATTCGTGCGAGTTATTAAATCCGGGTTAAGTC
1 CCGAAGGCATTTGTGCGAGATA-CAAATCCGGGTTAAGTC
* * * * *
35716685 CCGAAGGCA-TTGTGTGAGTTACTAAAACCGGGCTATGTC
1 CCGAAGGCATTTGTGCGAGATAC-AAATCCGGGTTAAGTC
35716724 CCGAAGGCATTTG
1 CCGAAGGCATTTG
35716737 AACGAGGAGC
Statistics
Matches: 115, Mismatches: 12, Indels: 9
0.85 0.09 0.07
Matches are distributed among these distances:
39 65 0.57
40 50 0.43
ACGTcount: A:0.25, C:0.21, G:0.29, T:0.25
Consensus pattern (39 bp):
CCGAAGGCATTTGTGCGAGATACAAATCCGGGTTAAGTC
Found at i:35716649 original size:79 final size:79
Alignment explanation
Indices: 35716513--35716736 Score: 222
Period size: 79 Copynumber: 2.8 Consensus size: 79
35716503 TTGAATGCTG
* * * * * * *
35716513 TCCGGGCTAAGTCCCGAAGGCTTTGTGCTA-AGTGAATATATCCGGACTAAGAT-CCGAAGGCAT
1 TCCGGGTTAAGTCCCGAAGGCATTGTGCGAGA-T-ACTAAAACCGGGCTAAG-TCCCGAAGGCAT
*
35716576 TTGTGCGAGATA-CAAGT
63 TTGTGCGAGATATCAA-A
* * * *
35716593 TCCGGGTTAAG-CCCGAAGGCCTTTGTGCGAGATACTAAATCCGGGTTAAGTCCCGAAGGCATTC
1 TCCGGGTTAAGTCCCGAAGG-CATTGTGCGAGATACTAAAACCGGGCTAAGTCCCGAAGGCATTT
* *
35716657 GTGCGAGTTATTAAA
65 GTGCGAGATATCAAA
* * *
35716672 TCCGGGTTAAGTCCCGAAGGCATTGTGTGAGTTACTAAAACCGGGCTATGTCCCGAAGGCATTTG
1 TCCGGGTTAAGTCCCGAAGGCATTGTGCGAGATACTAAAACCGGGCTAAGTCCCGAAGGCATTTG
35716737 AACGAGGAGC
Statistics
Matches: 122, Mismatches: 17, Indels: 11
0.81 0.11 0.07
Matches are distributed among these distances:
78 1 0.01
79 90 0.74
80 30 0.25
81 1 0.01
ACGTcount: A:0.25, C:0.21, G:0.28, T:0.25
Consensus pattern (79 bp):
TCCGGGTTAAGTCCCGAAGGCATTGTGCGAGATACTAAAACCGGGCTAAGTCCCGAAGGCATTTG
TGCGAGATATCAAA
Found at i:35716754 original size:79 final size:80
Alignment explanation
Indices: 35716593--35716769 Score: 200
Period size: 79 Copynumber: 2.2 Consensus size: 80
35716583 AGATACAAGT
* * *
35716593 TCCGGGTTAAG-CCCGAAGGCCTTTGTGCGAGATACTAAATCCGGGTTAAGTCCCGAAGGCATTC
1 TCCGGGTTAAGTCCCGAAGGCCATTGTGCGAGATACTAAAACCGGGCTAAGTCCCGAAGGCATTC
** * *
35716657 GTGCGAGTTATTAAA
66 GAACGAGTGACTAAA
* * * *
35716672 TCCGGGTTAAGTCCCGAAGG-CATTGTGTGAGTTACTAAAACCGGGCTATGTCCCGAAGGCATTT
1 TCCGGGTTAAGTCCCGAAGGCCATTGTGCGAGATACTAAAACCGGGCTAAGTCCCGAAGGCATTC
*
35716736 GAACGAG-GAGCTATA
66 GAACGAGTGA-CTAAA
*
35716751 TCC-GGTTAAATCCCGAAGG
1 TCCGGGTTAAGTCCCGAAGG
35716770 TATGTGATTT
Statistics
Matches: 83, Mismatches: 13, Indels: 5
0.82 0.13 0.05
Matches are distributed among these distances:
78 16 0.19
79 59 0.71
80 8 0.10
ACGTcount: A:0.26, C:0.21, G:0.28, T:0.24
Consensus pattern (80 bp):
TCCGGGTTAAGTCCCGAAGGCCATTGTGCGAGATACTAAAACCGGGCTAAGTCCCGAAGGCATTC
GAACGAGTGACTAAA
Found at i:35722817 original size:40 final size:39
Alignment explanation
Indices: 35722649--35722869 Score: 198
Period size: 39 Copynumber: 5.6 Consensus size: 39
35722639 TTGAATGCTG
* * * * * *
35722649 TCCGGGCTAAGTCCCGAAGGCTTTGTGCTAAGTGAATATA
1 TCCGGGTTAAGTCCCGAAGGCATTGTGC-GAGTTACTAAA
** * *
35722689 TCCGGACTAAGAT-CCGAAGGCATTTGTGCGA-TAAC-AAGT
1 TCCGGGTTAAG-TCCCGAAGGCA-TTGTGCGAGTTACTAA-A
* * *
35722728 TCCGGGTTAAGCCCCGAAGGCCTTTGTGCGA-ATACTAAA
1 TCCGGGTTAAGTCCCGAAGG-CATTGTGCGAGTTACTAAA
*
35722767 TCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTATTAAA
1 TCCGGGTTAAGTCCCGAAGGCATT-GTGCGAGTTACTAAA
*
35722807 TCCGGGTTAAGTCCCGAAGGCATTGTGTGAGTTACTAAA
1 TCCGGGTTAAGTCCCGAAGGCATTGTGCGAGTTACTAAA
* * *
35722846 ACCGGGCTATGTCCCGAAGGCATT
1 TCCGGGTTAAGTCCCGAAGGCATT
35722870 TGAACGAGGA
Statistics
Matches: 150, Mismatches: 23, Indels: 17
0.79 0.12 0.09
Matches are distributed among these distances:
38 4 0.03
39 87 0.58
40 52 0.35
41 7 0.05
ACGTcount: A:0.26, C:0.22, G:0.27, T:0.25
Consensus pattern (39 bp):
TCCGGGTTAAGTCCCGAAGGCATTGTGCGAGTTACTAAA
Found at i:35722823 original size:79 final size:77
Alignment explanation
Indices: 35722649--35722869 Score: 221
Period size: 79 Copynumber: 2.8 Consensus size: 77
35722639 TTGAATGCTG
* * * * *
35722649 TCCGGGCTAAGTCCCGAAGGCTTTGTGCTAAGTGAATATATCCGGACTAAGAT-CCGAAGGCATT
1 TCCGGGTTAAGTCCCGAAGGCTTTGTGCGAA-T-ACTAAATCCGGGCTAAG-TCCCGAAGGCATT
* *
35722713 TGTGCGATAACAAGT
63 CGTGCGATAACAAGA
* *
35722728 TCCGGGTTAAGCCCCGAAGGCCTTTGTGCGAATACTAAATCCGGGTTAAGTCCCGAAGGCATTCG
1 TCCGGGTTAAGTCCCGAAGG-CTTTGTGCGAATACTAAATCCGGGCTAAGTCCCGAAGGCATTCG
**
35722793 TGCGAGTTATTAA-A
65 TGCGA--TAACAAGA
* * * * *
35722807 TCCGGGTTAAGTCCCGAAGGCATTGTGTGAGTTACTAAAACCGGGCTATGTCCCGAAGGCATT
1 TCCGGGTTAAGTCCCGAAGGCTTTGTGCGA-ATACTAAATCCGGGCTAAGTCCCGAAGGCATT
35722870 TGAACGAGGA
Statistics
Matches: 119, Mismatches: 18, Indels: 10
0.81 0.12 0.07
Matches are distributed among these distances:
77 1 0.01
78 38 0.32
79 66 0.55
80 14 0.12
ACGTcount: A:0.26, C:0.22, G:0.27, T:0.25
Consensus pattern (77 bp):
TCCGGGTTAAGTCCCGAAGGCTTTGTGCGAATACTAAATCCGGGCTAAGTCCCGAAGGCATTCGT
GCGATAACAAGA
Found at i:35722889 original size:79 final size:79
Alignment explanation
Indices: 35722728--35722904 Score: 189
Period size: 79 Copynumber: 2.3 Consensus size: 79
35722718 GATAACAAGT
* * * * *
35722728 TCCGGGTTAAGCCCCGAAGGCCTTTGTGCGAATACTAAATCCGGGTTAAGTCCCGAAGGCATTCG
1 TCCGGGTTAAGTCCCGAAGGCATTTGTGAGAATACTAAAACCGGGCTAAGTCCCGAAGGCATTCG
** * *
35722793 TGCGAGTTATTAAA
66 AACGAGTGACTAAA
* * *
35722807 TCCGGGTTAAGTCCCGAAGGCATTGTGTGAG-TTACTAAAACCGGGCTATGTCCCGAAGGCATTT
1 TCCGGGTTAAGTCCCGAAGGCATT-TGTGAGAATACTAAAACCGGGCTAAGTCCCGAAGGCATTC
*
35722871 GAACGAG-GAGCTATA
65 GAACGAGTGA-CTAAA
*
35722886 TCC-GGTTAAATCCCGAAGG
1 TCCGGGTTAAGTCCCGAAGG
35722905 TATGTGATTT
Statistics
Matches: 82, Mismatches: 14, Indels: 5
0.81 0.14 0.05
Matches are distributed among these distances:
78 16 0.20
79 61 0.74
80 5 0.06
ACGTcount: A:0.26, C:0.22, G:0.28, T:0.24
Consensus pattern (79 bp):
TCCGGGTTAAGTCCCGAAGGCATTTGTGAGAATACTAAAACCGGGCTAAGTCCCGAAGGCATTCG
AACGAGTGACTAAA
Found at i:35727571 original size:39 final size:39
Alignment explanation
Indices: 35727367--35727589 Score: 216
Period size: 40 Copynumber: 5.6 Consensus size: 39
35727357 TTGAATGCTG
* * * * * *
35727367 TCCGGGCTAAGTCCCGAAGGCTTTGTGCTAAGTGAATATA
1 TCCGGGTTAAGTCCCGAAGGCATTGTGC-GAGTTACTAAA
** * *
35727407 TCCGGACTAAGAT-CCGAAGGCATTTGTGCGAGATAC-AAGT
1 TCCGGGTTAAG-TCCCGAAGGCA-TTGTGCGAGTTACTAA-A
* * *
35727447 TCCGGGTTAAGCCCCGAAGGCCTTTGTGCGAGATACTAAA
1 TCCGGGTTAAGTCCCGAAGG-CATTGTGCGAGTTACTAAA
*
35727487 TCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTATTAAA
1 TCCGGGTTAAGTCCCGAAGGCATT-GTGCGAGTTACTAAA
*
35727527 TCCGGGTTAAGTCCCGAAGGCATTGTGTGAGTTACTAAA
1 TCCGGGTTAAGTCCCGAAGGCATTGTGCGAGTTACTAAA
* * *
35727566 ACCGGGCTATGTCCCGAAGGCATT
1 TCCGGGTTAAGTCCCGAAGGCATT
35727590 TGAACGAGGA
Statistics
Matches: 154, Mismatches: 22, Indels: 15
0.81 0.12 0.08
Matches are distributed among these distances:
39 38 0.25
40 106 0.69
41 10 0.06
ACGTcount: A:0.26, C:0.22, G:0.28, T:0.25
Consensus pattern (39 bp):
TCCGGGTTAAGTCCCGAAGGCATTGTGCGAGTTACTAAA
Found at i:35727609 original size:79 final size:80
Alignment explanation
Indices: 35727447--35727624 Score: 200
Period size: 79 Copynumber: 2.2 Consensus size: 80
35727437 AGATACAAGT
* * * *
35727447 TCCGGGTTAAGCCCCGAAGGCCTTTGTGCGAGATACTAAATCCGGGTTAAGTCCCGAAGGCATTC
1 TCCGGGTTAAGTCCCGAAGGCCATTGTGCGAGATACTAAAACCGGGCTAAGTCCCGAAGGCATTC
** * *
35727512 GTGCGAGTTATTAAA
66 GAACGAGTGACTAAA
* * * *
35727527 TCCGGGTTAAGTCCCGAAGG-CATTGTGTGAGTTACTAAAACCGGGCTATGTCCCGAAGGCATTT
1 TCCGGGTTAAGTCCCGAAGGCCATTGTGCGAGATACTAAAACCGGGCTAAGTCCCGAAGGCATTC
*
35727591 GAACGAG-GAGCTATA
66 GAACGAGTGA-CTAAA
*
35727606 TCC-GGTTAAATCCCGAAGG
1 TCCGGGTTAAGTCCCGAAGG
35727625 TATGTGATTT
Statistics
Matches: 83, Mismatches: 14, Indels: 4
0.82 0.14 0.04
Matches are distributed among these distances:
78 16 0.19
79 48 0.58
80 19 0.23
ACGTcount: A:0.26, C:0.22, G:0.28, T:0.24
Consensus pattern (80 bp):
TCCGGGTTAAGTCCCGAAGGCCATTGTGCGAGATACTAAAACCGGGCTAAGTCCCGAAGGCATTC
GAACGAGTGACTAAA
Found at i:35731653 original size:12 final size:12
Alignment explanation
Indices: 35731638--35731683 Score: 60
Period size: 12 Copynumber: 3.9 Consensus size: 12
35731628 TTTTTCAAAA
35731638 AATTTTTTTTTC
1 AATTTTTTTTTC
35731650 AATTTTTTTTCTC
1 AATTTTTTTT-TC
*
35731663 GATTTTTTTTT-
1 AATTTTTTTTTC
35731674 -ATTTTTTTTT
1 AATTTTTTTTT
35731684 TGAATCTACA
Statistics
Matches: 32, Mismatches: 1, Indels: 4
0.86 0.03 0.11
Matches are distributed among these distances:
10 10 0.31
12 11 0.34
13 11 0.34
ACGTcount: A:0.13, C:0.07, G:0.02, T:0.78
Consensus pattern (12 bp):
AATTTTTTTTTC
Found at i:35734990 original size:19 final size:19
Alignment explanation
Indices: 35734966--35735004 Score: 69
Period size: 19 Copynumber: 2.1 Consensus size: 19
35734956 ATTTCAACTA
*
35734966 TAGGGTGTGACCCTTTAGG
1 TAGGGTGTGACCCTGTAGG
35734985 TAGGGTGTGACCCTGTAGG
1 TAGGGTGTGACCCTGTAGG
35735004 T
1 T
35735005 TCCTGTAACG
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
19 19 1.00
ACGTcount: A:0.15, C:0.15, G:0.38, T:0.31
Consensus pattern (19 bp):
TAGGGTGTGACCCTGTAGG
Found at i:35742272 original size:20 final size:20
Alignment explanation
Indices: 35742243--35742316 Score: 57
Period size: 19 Copynumber: 3.7 Consensus size: 20
35742233 TCTCACTTTC
35742243 TTTTCATTTTCTTTTGTAATT
1 TTTTC-TTTTCTTTTGTAATT
*
35742264 TTTTCTTTT-TTTTCTCAA-T
1 TTTTCTTTTCTTTTGT-AATT
*
35742283 TTTT-GTTTCTTTTGT-ATT
1 TTTTCTTTTCTTTTGTAATT
*
35742301 TTCACTCTTTTCTTTT
1 TT--TTCTTTTCTTTT
35742317 TCTCTCGCTT
Statistics
Matches: 42, Mismatches: 5, Indels: 12
0.71 0.08 0.20
Matches are distributed among these distances:
17 1 0.02
18 6 0.14
19 15 0.36
20 7 0.17
21 13 0.31
ACGTcount: A:0.09, C:0.14, G:0.04, T:0.73
Consensus pattern (20 bp):
TTTTCTTTTCTTTTGTAATT
Found at i:35742276 original size:19 final size:22
Alignment explanation
Indices: 35742225--35742286 Score: 67
Period size: 20 Copynumber: 2.9 Consensus size: 22
35742215 CTTTCCGTCT
*
35742225 TTTTCTTTTCTCACTTTCTTTTCA
1 TTTTCTTTTCTCA-ATT-TTTTCA
*
35742249 TTTTCTTTTGT-AATTTTTTC-
1 TTTTCTTTTCTCAATTTTTTCA
35742269 TTTT-TTTTCTCAATTTTT
1 TTTTCTTTTCTCAATTTTT
35742287 GTTTCTTTTG
Statistics
Matches: 34, Mismatches: 3, Indels: 6
0.79 0.07 0.14
Matches are distributed among these distances:
19 5 0.15
20 11 0.32
21 5 0.15
22 2 0.06
23 1 0.03
24 10 0.29
ACGTcount: A:0.10, C:0.16, G:0.02, T:0.73
Consensus pattern (22 bp):
TTTTCTTTTCTCAATTTTTTCA
Found at i:35754517 original size:14 final size:13
Alignment explanation
Indices: 35754482--35754524 Score: 70
Period size: 14 Copynumber: 3.3 Consensus size: 13
35754472 TGTAAATGTC
35754482 TTAG-TAGCTAAG
1 TTAGCTAGCTAAG
35754494 TTAGCTAGCTAAG
1 TTAGCTAGCTAAG
35754507 TTAGACTAGCTAAG
1 TTAG-CTAGCTAAG
35754521 TTAG
1 TTAG
35754525 GTTTATCTTC
Statistics
Matches: 29, Mismatches: 0, Indels: 2
0.94 0.00 0.06
Matches are distributed among these distances:
12 4 0.14
13 12 0.41
14 13 0.45
ACGTcount: A:0.33, C:0.12, G:0.23, T:0.33
Consensus pattern (13 bp):
TTAGCTAGCTAAG
Found at i:35756990 original size:25 final size:23
Alignment explanation
Indices: 35756943--35756991 Score: 62
Period size: 23 Copynumber: 2.0 Consensus size: 23
35756933 GGTATTGGTA
*
35756943 ATGGCTTTTTTACAACCTTGGAC
1 ATGGCTTTTTTACAACCTAGGAC
*
35756966 ATGGCTTTTTTGCAAGGCCTAGGAC
1 ATGGCTTTTTTACAA--CCTAGGAC
35756991 A
1 A
35756992 AAGTCCATGT
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
23 14 0.64
25 8 0.36
ACGTcount: A:0.22, C:0.20, G:0.22, T:0.35
Consensus pattern (23 bp):
ATGGCTTTTTTACAACCTAGGAC
Found at i:35763920 original size:24 final size:24
Alignment explanation
Indices: 35763847--35763928 Score: 82
Period size: 24 Copynumber: 3.5 Consensus size: 24
35763837 GTTGTCGAAT
* *
35763847 TTTAAAGGATGTATAATGCTTTCC
1 TTTAAATGATGTATAATGCTCTCC
* *
35763871 TTTGAATGATG--TAA--CAACTCC
1 TTTAAATGATGTATAATGC-TCTCC
35763892 TTTAAATGATGTATAATGCTCTCC
1 TTTAAATGATGTATAATGCTCTCC
*
35763916 TTTAATTGATGTA
1 TTTAAATGATGTA
35763929 ACAGCCCCTT
Statistics
Matches: 46, Mismatches: 7, Indels: 10
0.73 0.11 0.16
Matches are distributed among these distances:
20 1 0.02
21 13 0.28
22 3 0.07
23 3 0.07
24 25 0.54
25 1 0.02
ACGTcount: A:0.30, C:0.13, G:0.15, T:0.41
Consensus pattern (24 bp):
TTTAAATGATGTATAATGCTCTCC
Found at i:35764126 original size:24 final size:23
Alignment explanation
Indices: 35764073--35764126 Score: 65
Period size: 23 Copynumber: 2.3 Consensus size: 23
35764063 CTTAATAAAC
* *
35764073 TTAATAAACTGTAAACACTTAAT
1 TTAATAAACTGTAAAAACATAAT
35764096 TTAATAAACTGTAAATAAACAT-AT
1 TTAATAAACTGT-AA-AAACATAAT
35764120 TTAATAA
1 TTAATAA
35764127 TAAGTTATTC
Statistics
Matches: 27, Mismatches: 2, Indels: 3
0.84 0.06 0.09
Matches are distributed among these distances:
23 12 0.44
24 11 0.41
25 4 0.15
ACGTcount: A:0.52, C:0.09, G:0.04, T:0.35
Consensus pattern (23 bp):
TTAATAAACTGTAAAAACATAAT
Found at i:35768069 original size:52 final size:50
Alignment explanation
Indices: 35767954--35768071 Score: 121
Period size: 50 Copynumber: 2.3 Consensus size: 50
35767944 TAATAAAGTT
* * * *
35767954 ATGCACTATGTAACTTCCATGCTAGTTAAGTATGCATCATAAATAATGAC
1 ATGCATTAAGTAACTCCCATGCTAGTTAAGTACGCATCATAAATAATGAC
* * * *
35768004 ATGCATTAGGTAACTCCCATGTTAGTTTAAGTCCGCATCATTAAATTAA-GTC
1 ATGCATTAAGTAACTCCCATGCTAG-TTAAGTACGCATCA-TAAA-TAATGAC
*
35768056 TTGCATTAAGTAACTC
1 ATGCATTAAGTAACTC
35768072 ATTTGTCATT
Statistics
Matches: 56, Mismatches: 9, Indels: 4
0.81 0.13 0.06
Matches are distributed among these distances:
50 21 0.38
51 12 0.21
52 20 0.36
53 3 0.05
ACGTcount: A:0.33, C:0.19, G:0.14, T:0.34
Consensus pattern (50 bp):
ATGCATTAAGTAACTCCCATGCTAGTTAAGTACGCATCATAAATAATGAC
Found at i:35771738 original size:13 final size:13
Alignment explanation
Indices: 35771720--35771745 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
35771710 TACAAACTCC
35771720 CACTTTTGTATTT
1 CACTTTTGTATTT
35771733 CACTTTTGTATTT
1 CACTTTTGTATTT
35771746 TGCACACTTT
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.15, C:0.15, G:0.08, T:0.62
Consensus pattern (13 bp):
CACTTTTGTATTT
Found at i:35775766 original size:17 final size:18
Alignment explanation
Indices: 35775727--35775768 Score: 52
Period size: 17 Copynumber: 2.4 Consensus size: 18
35775717 AAGAAGAAAA
35775727 ACAAAA-AGATGAGTGAT
1 ACAAAAGAGATGAGTGAT
*
35775744 AAAAAAGAGA-GAGTGAT
1 ACAAAAGAGATGAGTGAT
*
35775761 TCAAAAGA
1 ACAAAAGA
35775769 AAAAGAAATG
Statistics
Matches: 21, Mismatches: 3, Indels: 2
0.81 0.12 0.08
Matches are distributed among these distances:
17 18 0.86
18 3 0.14
ACGTcount: A:0.57, C:0.05, G:0.24, T:0.14
Consensus pattern (18 bp):
ACAAAAGAGATGAGTGAT
Found at i:35787351 original size:23 final size:23
Alignment explanation
Indices: 35787289--35787400 Score: 68
Period size: 23 Copynumber: 4.8 Consensus size: 23
35787279 TTCGGTTTAT
* *
35787289 GTTTAGTTATGGAATGG-TTTTG
1 GTTTAGGTATGAAATGGTTTTTG
* * *
35787311 GTTTCA-GAACGAATTGGTTTTTG
1 GTTT-AGGTATGAAATGGTTTTTG
* *
35787334 GTGTAGGTATGAAATGG-TATTG
1 GTTTAGGTATGAAATGGTTTTTG
* *
35787356 GTTTTTGGTACGAAATGGTTTCTTTAG
1 G-TTTAGGTATGAAATGG-TT-TTT-G
*
35787383 GTTTAGGTTTGAAATGGT
1 GTTTAGGTATGAAATGGT
35787401 ATCAATGGCT
Statistics
Matches: 65, Mismatches: 17, Indels: 13
0.68 0.18 0.14
Matches are distributed among these distances:
22 16 0.25
23 30 0.46
25 2 0.03
26 15 0.23
27 2 0.03
ACGTcount: A:0.21, C:0.04, G:0.30, T:0.45
Consensus pattern (23 bp):
GTTTAGGTATGAAATGGTTTTTG
Found at i:35788373 original size:20 final size:20
Alignment explanation
Indices: 35788348--35788392 Score: 56
Period size: 20 Copynumber: 2.2 Consensus size: 20
35788338 TAAATTCACA
35788348 TAATTAAAACT-AGACACAAT
1 TAATT-AAACTAAGACACAAT
**
35788368 TAATTAAGTTAAGACACAAT
1 TAATTAAACTAAGACACAAT
35788388 TAATT
1 TAATT
35788393 CGGTTAGGAC
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
19 3 0.14
20 19 0.86
ACGTcount: A:0.51, C:0.11, G:0.07, T:0.31
Consensus pattern (20 bp):
TAATTAAACTAAGACACAAT
Found at i:35790808 original size:43 final size:43
Alignment explanation
Indices: 35790760--35790845 Score: 154
Period size: 43 Copynumber: 2.0 Consensus size: 43
35790750 AAAAGAAGAA
35790760 GAAGAAAGAATCTATTTTAAAGACGTTCATAGTTTTCCCGATC
1 GAAGAAAGAATCTATTTTAAAGACGTTCATAGTTTTCCCGATC
* *
35790803 GAAGAAAGAATCTGTTTTGAAGACGTTCATAGTTTTCCCGATC
1 GAAGAAAGAATCTATTTTAAAGACGTTCATAGTTTTCCCGATC
35790846 TTAAAGTGCT
Statistics
Matches: 41, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
43 41 1.00
ACGTcount: A:0.33, C:0.16, G:0.19, T:0.33
Consensus pattern (43 bp):
GAAGAAAGAATCTATTTTAAAGACGTTCATAGTTTTCCCGATC
Found at i:35791916 original size:18 final size:19
Alignment explanation
Indices: 35791895--35791932 Score: 60
Period size: 18 Copynumber: 2.1 Consensus size: 19
35791885 TTTCAAAAAC
35791895 AAAAGAGAGTG-AAAAGAA
1 AAAAGAGAGTGAAAAAGAA
*
35791913 AAAAGAGATTGAAAAAGAA
1 AAAAGAGAGTGAAAAAGAA
35791932 A
1 A
35791933 TTGAATGAGA
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
18 10 0.56
19 8 0.44
ACGTcount: A:0.68, C:0.00, G:0.24, T:0.08
Consensus pattern (19 bp):
AAAAGAGAGTGAAAAAGAA
Found at i:35797197 original size:20 final size:20
Alignment explanation
Indices: 35797174--35797242 Score: 86
Period size: 20 Copynumber: 3.5 Consensus size: 20
35797164 ACGAGCTCAA
*
35797174 TGAGCTGAATTGAGCTCGTG
1 TGAGCTGAATTGAGCTCGAG
* *
35797194 TGAGC-CAACTTGAGCTCGAA
1 TGAGCTGAA-TTGAGCTCGAG
*
35797214 TGAGCTGACTTGAGCTCGAG
1 TGAGCTGAATTGAGCTCGAG
35797234 TGAGCTGAA
1 TGAGCTGAA
35797243 CCGCATGGAG
Statistics
Matches: 40, Mismatches: 7, Indels: 4
0.78 0.14 0.08
Matches are distributed among these distances:
19 2 0.05
20 37 0.93
21 1 0.03
ACGTcount: A:0.25, C:0.19, G:0.32, T:0.25
Consensus pattern (20 bp):
TGAGCTGAATTGAGCTCGAG
Found at i:35799042 original size:6 final size:6
Alignment explanation
Indices: 35799033--35799166 Score: 90
Period size: 6 Copynumber: 22.0 Consensus size: 6
35799023 TCAATCTCAA
* * * ** **
35799033 TTTCTT TTTCAAT TTTCTTT TCTTCAT TTTCTT TTTCTC TCACTT TTTCGA
1 TTTCTT TTTC-TT TTTC-TT T-TTCTT TTTCTT TTTCTT TTTCTT TTTCTT
* * ** * *
35799084 TTTCTT TTTATT TTGCAA TTTCTT TTTCTT TTTCGT TTTCGT TTTCTT
1 TTTCTT TTTCTT TTTCTT TTTCTT TTTCTT TTTCTT TTTCTT TTTCTT
** *
35799132 TTTCTT TTTCTT TTTCAC TTTATT TTT-TT TTTCTT
1 TTTCTT TTTCTT TTTCTT TTTCTT TTTCTT TTTCTT
35799167 CTTTTTCGTT
Statistics
Matches: 95, Mismatches: 30, Indels: 6
0.73 0.23 0.05
Matches are distributed among these distances:
5 5 0.05
6 78 0.82
7 9 0.09
8 3 0.03
ACGTcount: A:0.07, C:0.17, G:0.03, T:0.72
Consensus pattern (6 bp):
TTTCTT
Found at i:35804670 original size:19 final size:19
Alignment explanation
Indices: 35804626--35804670 Score: 56
Period size: 20 Copynumber: 2.3 Consensus size: 19
35804616 GTAGATTTAG
35804626 TGAGCTAAAAGAGCTAATAA
1 TGAGCTAAAAGAGCTAAT-A
*
35804646 TGAGCTAAATGAGCTGAAT-
1 TGAGCTAAAAGAGCT-AATA
35804665 TGAGCT
1 TGAGCT
35804671 CGAGTGAGCT
Statistics
Matches: 23, Mismatches: 1, Indels: 3
0.85 0.04 0.11
Matches are distributed among these distances:
19 6 0.26
20 14 0.61
21 3 0.13
ACGTcount: A:0.40, C:0.11, G:0.24, T:0.24
Consensus pattern (19 bp):
TGAGCTAAAAGAGCTAATA
Found at i:35807242 original size:46 final size:45
Alignment explanation
Indices: 35807180--35807296 Score: 127
Period size: 40 Copynumber: 2.6 Consensus size: 45
35807170 GGCAATTAAG
* *
35807180 TAACTAAAATTGAGTTTAATAAAAATAAAGTCCAATAACTCAATTAT
1 TAACTAAGA-TGAGTTT-ATAAAAATAAAGTCCAACAACTCAATTAT
*
35807227 TAACTAAGATGAG-TT-T---AATAAAGTCGAACAACTCAATTAT
1 TAACTAAGATGAGTTTATAAAAATAAAGTCCAACAACTCAATTAT
* *
35807267 TAACTAAGATGAGTTCATTAAAATTAAAGT
1 TAACTAAGATGAGTTTA-TAAAAATAAAGT
35807297 TCAGCTTGCA
Statistics
Matches: 59, Mismatches: 5, Indels: 13
0.77 0.06 0.17
Matches are distributed among these distances:
40 35 0.59
41 1 0.02
43 2 0.03
45 2 0.03
46 11 0.19
47 8 0.14
ACGTcount: A:0.48, C:0.10, G:0.10, T:0.32
Consensus pattern (45 bp):
TAACTAAGATGAGTTTATAAAAATAAAGTCCAACAACTCAATTAT
Found at i:35807260 original size:40 final size:40
Alignment explanation
Indices: 35807203--35807281 Score: 140
Period size: 40 Copynumber: 2.0 Consensus size: 40
35807193 GTTTAATAAA
*
35807203 AATAAAGTCCAATAACTCAATTATTAACTAAGATGAGTTT
1 AATAAAGTCCAACAACTCAATTATTAACTAAGATGAGTTT
*
35807243 AATAAAGTCGAACAACTCAATTATTAACTAAGATGAGTT
1 AATAAAGTCCAACAACTCAATTATTAACTAAGATGAGTT
35807282 CATTAAAATT
Statistics
Matches: 37, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
40 37 1.00
ACGTcount: A:0.46, C:0.13, G:0.11, T:0.30
Consensus pattern (40 bp):
AATAAAGTCCAACAACTCAATTATTAACTAAGATGAGTTT
Found at i:35809349 original size:29 final size:29
Alignment explanation
Indices: 35809307--35809380 Score: 73
Period size: 30 Copynumber: 2.5 Consensus size: 29
35809297 CACTATCTTC
35809307 TTTTTCTTTC-ATTTC-CTT-TTTCTAACTTA
1 TTTTT-TTTCAATTTCTCTTCTTTCTAAC--A
*
35809336 TTTTTTTTCAATTTTCTCTTCTTTCTCACA
1 TTTTTTTTCAA-TTTCTCTTCTTTCTAACA
*
35809366 TTTTTGTTCAATTTC
1 TTTTTTTTCAATTTC
35809381 AATCTCATTT
Statistics
Matches: 39, Mismatches: 2, Indels: 8
0.80 0.04 0.16
Matches are distributed among these distances:
28 4 0.10
29 10 0.26
30 15 0.38
31 3 0.08
32 7 0.18
ACGTcount: A:0.14, C:0.20, G:0.01, T:0.65
Consensus pattern (29 bp):
TTTTTTTTCAATTTCTCTTCTTTCTAACA
Found at i:35812436 original size:28 final size:28
Alignment explanation
Indices: 35812368--35812549 Score: 294
Period size: 28 Copynumber: 6.5 Consensus size: 28
35812358 CATGAGATTG
* * * *
35812368 GCACTAAGTGTGCGGGTTTAAATTGTACA
1 GCACTAAGTGTGCGAGTTT-GATTATATA
35812397 GCACTAAGTGTGCGAGTTTGATTATATA
1 GCACTAAGTGTGCGAGTTTGATTATATA
35812425 GCACTAAGTGTGCGAGTTTGATTATATA
1 GCACTAAGTGTGCGAGTTTGATTATATA
35812453 GCACTAAGTGTGCGAGTTTGATTATATA
1 GCACTAAGTGTGCGAGTTTGATTATATA
*
35812481 GCACTAAGTGTGCGAGTTTGATTATGTA
1 GCACTAAGTGTGCGAGTTTGATTATATA
35812509 GCACTAAGTGTGCGAG-TTGATTATATA
1 GCACTAAGTGTGCGAGTTTGATTATATA
*
35812536 GCACTGAGTGTGCG
1 GCACTAAGTGTGCG
35812550 GACTTAATAT
Statistics
Matches: 146, Mismatches: 7, Indels: 2
0.94 0.05 0.01
Matches are distributed among these distances:
27 23 0.16
28 105 0.72
29 18 0.12
ACGTcount: A:0.27, C:0.12, G:0.27, T:0.34
Consensus pattern (28 bp):
GCACTAAGTGTGCGAGTTTGATTATATA
Found at i:35820567 original size:28 final size:28
Alignment explanation
Indices: 35820499--35820680 Score: 285
Period size: 28 Copynumber: 6.5 Consensus size: 28
35820489 CATGAGATTG
* * * *
35820499 GCACTAAGTGTGCGGGTTTAAATTGTACA
1 GCACTAAGTGTGCGAGTTT-GATTATATA
35820528 GCACTAAGTGTGCGAGTTTGATTATATA
1 GCACTAAGTGTGCGAGTTTGATTATATA
35820556 GCACTAAGTGTGCGAGTTTGATTATATA
1 GCACTAAGTGTGCGAGTTTGATTATATA
35820584 GCACTAAGTGTGCGAGTTTGATTATATA
1 GCACTAAGTGTGCGAGTTTGATTATATA
* *
35820612 GCACTAAGTGTGCAAGTTTGATTATGTA
1 GCACTAAGTGTGCGAGTTTGATTATATA
35820640 GCACTAAGTGTGCGAG-TTGATTATATA
1 GCACTAAGTGTGCGAGTTTGATTATATA
*
35820667 GCACTGAGTGTGCG
1 GCACTAAGTGTGCG
35820681 GACTTAATAT
Statistics
Matches: 144, Mismatches: 9, Indels: 2
0.93 0.06 0.01
Matches are distributed among these distances:
27 23 0.16
28 103 0.72
29 18 0.12
ACGTcount: A:0.27, C:0.12, G:0.27, T:0.34
Consensus pattern (28 bp):
GCACTAAGTGTGCGAGTTTGATTATATA
Found at i:35822424 original size:20 final size:22
Alignment explanation
Indices: 35822375--35822434 Score: 61
Period size: 20 Copynumber: 2.8 Consensus size: 22
35822365 ACTCCTGTAA
* *
35822375 TAAACACATTAAAATAACTCAT
1 TAAACATATTAAAATAACTAAT
*
35822397 TAAGCATATT-AAAT-ACTAAT
1 TAAACATATTAAAATAACTAAT
*
35822417 TAAACATATCAAGAATAA
1 TAAACATATTAA-AATAA
35822435 ATACTTAACT
Statistics
Matches: 30, Mismatches: 5, Indels: 5
0.75 0.12 0.12
Matches are distributed among these distances:
20 13 0.43
21 5 0.17
22 11 0.37
23 1 0.03
ACGTcount: A:0.55, C:0.13, G:0.03, T:0.28
Consensus pattern (22 bp):
TAAACATATTAAAATAACTAAT
Found at i:35833179 original size:36 final size:36
Alignment explanation
Indices: 35833097--35833179 Score: 87
Period size: 36 Copynumber: 2.3 Consensus size: 36
35833087 AATGAAAACA
* * * *
35833097 TTTCTCGCTTTTTCTCACTCACTTTCTTCTTTTTCT
1 TTTCTCTCTTTTTCTAACTCACTTTCTTCTTTATAT
* * *
35833133 TTTGTCTCTTTTTCTAACTTATTTTCTT-TTTATAT
1 TTTCTCTCTTTTTCTAACTCACTTTCTTCTTTATAT
35833168 TTTCTCTTCTTT
1 TTTCTC-TCTTT
35833180 CTCATAATTT
Statistics
Matches: 38, Mismatches: 8, Indels: 2
0.79 0.17 0.04
Matches are distributed among these distances:
35 10 0.26
36 28 0.74
ACGTcount: A:0.08, C:0.23, G:0.02, T:0.66
Consensus pattern (36 bp):
TTTCTCTCTTTTTCTAACTCACTTTCTTCTTTATAT
Found at i:35833190 original size:33 final size:33
Alignment explanation
Indices: 35833123--35833190 Score: 77
Period size: 33 Copynumber: 2.1 Consensus size: 33
35833113 ACTCACTTTC
* *
35833123 TTCTTTTTCTTTTGTCTCTTTTTCTAACTTATT
1 TTCTTTTTATTTTGTCTCTTTTTCTAACTAATT
*
35833156 TTCTTTTTATATTT-TCTCTTCTTTCTCA-TAATT
1 TTCTTTTTAT-TTTGTCTCTT-TTTCTAACTAATT
35833189 TT
1 TT
35833191 GTTCAATCTA
Statistics
Matches: 30, Mismatches: 3, Indels: 4
0.81 0.08 0.11
Matches are distributed among these distances:
33 21 0.70
34 9 0.30
ACGTcount: A:0.12, C:0.18, G:0.01, T:0.69
Consensus pattern (33 bp):
TTCTTTTTATTTTGTCTCTTTTTCTAACTAATT
Found at i:35834316 original size:11 final size:11
Alignment explanation
Indices: 35834293--35834350 Score: 84
Period size: 10 Copynumber: 5.3 Consensus size: 11
35834283 TCAAATTTTA
35834293 TTTTTTGAA-T
1 TTTTTTGAATT
35834303 TTTTTTGAATT
1 TTTTTTGAATT
35834314 TTTTTTGAA-T
1 TTTTTTGAATT
35834324 TTTTTTGAATTTT
1 TTTTTTGAA--TT
35834337 TTTTTTGAATT
1 TTTTTTGAATT
35834348 TTT
1 TTT
35834351 ATACGAACCT
Statistics
Matches: 44, Mismatches: 0, Indels: 7
0.86 0.00 0.14
Matches are distributed among these distances:
10 19 0.43
11 15 0.34
13 10 0.23
ACGTcount: A:0.17, C:0.00, G:0.09, T:0.74
Consensus pattern (11 bp):
TTTTTTGAATT
Found at i:35834319 original size:21 final size:22
Alignment explanation
Indices: 35834293--35834350 Score: 100
Period size: 21 Copynumber: 2.6 Consensus size: 22
35834283 TCAAATTTTA
35834293 TTTTTTGAATTTTTTTGAA-TT
1 TTTTTTGAATTTTTTTGAATTT
35834314 TTTTTTGAATTTTTTTGAATTTT
1 TTTTTTGAATTTTTTTGAA-TTT
35834337 TTTTTTGAATTTTT
1 TTTTTTGAATTTTT
35834351 ATACGAACCT
Statistics
Matches: 35, Mismatches: 0, Indels: 2
0.95 0.00 0.05
Matches are distributed among these distances:
21 19 0.54
23 16 0.46
ACGTcount: A:0.17, C:0.00, G:0.09, T:0.74
Consensus pattern (22 bp):
TTTTTTGAATTTTTTTGAATTT
Found at i:35834350 original size:10 final size:10
Alignment explanation
Indices: 35834293--35834339 Score: 85
Period size: 10 Copynumber: 4.6 Consensus size: 10
35834283 TCAAATTTTA
35834293 TTTTTTGAAT
1 TTTTTTGAAT
35834303 TTTTTTGAATT
1 TTTTTTGAA-T
35834314 TTTTTTGAAT
1 TTTTTTGAAT
35834324 TTTTTTGAAT
1 TTTTTTGAAT
35834334 TTTTTT
1 TTTTTT
35834340 TTTGAATTTT
Statistics
Matches: 36, Mismatches: 0, Indels: 2
0.95 0.00 0.05
Matches are distributed among these distances:
10 26 0.72
11 10 0.28
ACGTcount: A:0.17, C:0.00, G:0.09, T:0.74
Consensus pattern (10 bp):
TTTTTTGAAT
Found at i:35838380 original size:23 final size:22
Alignment explanation
Indices: 35838329--35838380 Score: 54
Period size: 23 Copynumber: 2.3 Consensus size: 22
35838319 CCTCGTCTTT
*
35838329 TTCTTTTGTTTCTTTTTCTAAC
1 TTCTTTTCTTTCTTTTTCTAAC
35838351 -TCATTTTCTCTTCTTTCTTC-AAC
1 TTC-TTTTCT-TTCTTT-TTCTAAC
35838374 TTCTTTT
1 TTCTTTT
35838381 TCAATTTTTT
Statistics
Matches: 25, Mismatches: 1, Indels: 7
0.76 0.03 0.21
Matches are distributed among these distances:
21 2 0.08
22 5 0.20
23 13 0.52
24 5 0.20
ACGTcount: A:0.10, C:0.23, G:0.02, T:0.65
Consensus pattern (22 bp):
TTCTTTTCTTTCTTTTTCTAAC
Found at i:35842348 original size:41 final size:40
Alignment explanation
Indices: 35842227--35842353 Score: 218
Period size: 40 Copynumber: 3.1 Consensus size: 40
35842217 GTTTAATAAA
35842227 AATAAAGTCCAACAACTCAATTATTAACTAAGATGAGTTT
1 AATAAAGTCCAACAACTCAATTATTAACTAAGATGAGTTT
* *
35842267 AATAAAGTCCAACAACTCAACTATTAACTAAGATGTGTTT
1 AATAAAGTCCAACAACTCAATTATTAACTAAGATGAGTTT
*
35842307 AATAAATTCCAACAACTTCAATTATTAACTAAGATGAGTTT
1 AATAAAGTCCAACAAC-TCAATTATTAACTAAGATGAGTTT
35842348 AATAAA
1 AATAAA
35842354 ATTAAAGTTC
Statistics
Matches: 81, Mismatches: 5, Indels: 1
0.93 0.06 0.01
Matches are distributed among these distances:
40 53 0.65
41 28 0.35
ACGTcount: A:0.46, C:0.15, G:0.09, T:0.31
Consensus pattern (40 bp):
AATAAAGTCCAACAACTCAATTATTAACTAAGATGAGTTT
Found at i:35848195 original size:22 final size:22
Alignment explanation
Indices: 35848168--35848220 Score: 106
Period size: 22 Copynumber: 2.4 Consensus size: 22
35848158 CAATTAAAGA
35848168 CATTAAGGATCCTTAAAGTCTT
1 CATTAAGGATCCTTAAAGTCTT
35848190 CATTAAGGATCCTTAAAGTCTT
1 CATTAAGGATCCTTAAAGTCTT
35848212 CATTAAGGA
1 CATTAAGGA
35848221 GAATTGAGAT
Statistics
Matches: 31, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
22 31 1.00
ACGTcount: A:0.34, C:0.17, G:0.15, T:0.34
Consensus pattern (22 bp):
CATTAAGGATCCTTAAAGTCTT
Found at i:35849021 original size:10 final size:11
Alignment explanation
Indices: 35848996--35849030 Score: 52
Period size: 11 Copynumber: 3.2 Consensus size: 11
35848986 GTAGGTTCGT
* *
35848996 AAAAAAATTTG
1 AAAAAAAATTC
35849007 AAAAAAAATTC
1 AAAAAAAATTC
35849018 AAAAAAAATTC
1 AAAAAAAATTC
35849029 AA
1 AA
35849031 TATAAAGATA
Statistics
Matches: 22, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
11 22 1.00
ACGTcount: A:0.71, C:0.06, G:0.03, T:0.20
Consensus pattern (11 bp):
AAAAAAAATTC
Found at i:35851668 original size:10 final size:11
Alignment explanation
Indices: 35851643--35851677 Score: 52
Period size: 11 Copynumber: 3.2 Consensus size: 11
35851633 GTAGGTTCGT
* *
35851643 AAAAAAATTTG
1 AAAAAAAATTC
35851654 AAAAAAAATTC
1 AAAAAAAATTC
35851665 AAAAAAAATTC
1 AAAAAAAATTC
35851676 AA
1 AA
35851678 TATAAAGATA
Statistics
Matches: 22, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
11 22 1.00
ACGTcount: A:0.71, C:0.06, G:0.03, T:0.20
Consensus pattern (11 bp):
AAAAAAAATTC
Found at i:35856158 original size:22 final size:22
Alignment explanation
Indices: 35856131--35856183 Score: 106
Period size: 22 Copynumber: 2.4 Consensus size: 22
35856121 CAATTAAAGA
35856131 CATTAAGGATCCTTAAAGTCTT
1 CATTAAGGATCCTTAAAGTCTT
35856153 CATTAAGGATCCTTAAAGTCTT
1 CATTAAGGATCCTTAAAGTCTT
35856175 CATTAAGGA
1 CATTAAGGA
35856184 GAATTGAGAT
Statistics
Matches: 31, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
22 31 1.00
ACGTcount: A:0.34, C:0.17, G:0.15, T:0.34
Consensus pattern (22 bp):
CATTAAGGATCCTTAAAGTCTT
Found at i:35856984 original size:10 final size:11
Alignment explanation
Indices: 35856959--35856993 Score: 52
Period size: 11 Copynumber: 3.2 Consensus size: 11
35856949 GTAGGTTCGT
* *
35856959 AAAAAAATTTG
1 AAAAAAAATTC
35856970 AAAAAAAATTC
1 AAAAAAAATTC
35856981 AAAAAAAATTC
1 AAAAAAAATTC
35856992 AA
1 AA
35856994 TATAAAGATA
Statistics
Matches: 22, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
11 22 1.00
ACGTcount: A:0.71, C:0.06, G:0.03, T:0.20
Consensus pattern (11 bp):
AAAAAAAATTC
Found at i:35859626 original size:12 final size:12
Alignment explanation
Indices: 35859609--35859646 Score: 76
Period size: 12 Copynumber: 3.2 Consensus size: 12
35859599 GTAGGTTCGT
35859609 AAAAAAATTCAA
1 AAAAAAATTCAA
35859621 AAAAAAATTCAA
1 AAAAAAATTCAA
35859633 AAAAAAATTCAA
1 AAAAAAATTCAA
35859645 AA
1 AA
35859647 TAAAGATATA
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 26 1.00
ACGTcount: A:0.76, C:0.08, G:0.00, T:0.16
Consensus pattern (12 bp):
AAAAAAATTCAA
Found at i:35869243 original size:29 final size:29
Alignment explanation
Indices: 35869201--35869258 Score: 107
Period size: 29 Copynumber: 2.0 Consensus size: 29
35869191 ATTTAAACTG
35869201 AACCTATCAAATATTAAGTCTAGCCTATC
1 AACCTATCAAATATTAAGTCTAGCCTATC
*
35869230 AACCTATCAAATATTATGTCTAGCCTATC
1 AACCTATCAAATATTAAGTCTAGCCTATC
35869259 TTTTGAATCC
Statistics
Matches: 28, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
29 28 1.00
ACGTcount: A:0.36, C:0.24, G:0.07, T:0.33
Consensus pattern (29 bp):
AACCTATCAAATATTAAGTCTAGCCTATC
Found at i:35873327 original size:40 final size:40
Alignment explanation
Indices: 35873244--35873429 Score: 252
Period size: 40 Copynumber: 4.7 Consensus size: 40
35873234 TTGAATGATG
* * * *
35873244 TCCGGGCTAAGTCCCGAAGGC-TTTGTGCTAAGTGACCATA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGC-GAGTTACTAAA
*
35873284 TCCGGACTAAGAT-CCGAAGGCATTTGTGCGAGTTACTAAA
1 TCCGGGCTAAG-TCCCGAAGGCATTTGTGCGAGTTACTAAA
*
35873324 TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAA
*
35873364 TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTA-AA
*
35873405 -CCGGGCTATGTCCCGAAGGCATTTG
1 TCCGGGCTAAGTCCCGAAGGCATTTG
35873430 AACGAGTAGC
Statistics
Matches: 133, Mismatches: 9, Indels: 8
0.89 0.06 0.05
Matches are distributed among these distances:
39 1 0.01
40 122 0.92
41 10 0.08
ACGTcount: A:0.24, C:0.22, G:0.27, T:0.26
Consensus pattern (40 bp):
TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAA
Found at i:35873436 original size:80 final size:79
Alignment explanation
Indices: 35873297--35873462 Score: 228
Period size: 80 Copynumber: 2.1 Consensus size: 79
35873287 GGACTAAGAT
* **
35873297 CCGAAGGCATTTGTGCGAGTTACTAAATCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTA-CT
1 CCGAAGGCATTTGTGCGAGTTACTAAATCCGGGCTAAGTCCCGAAGGCATTTGAACGAG-TAGCT
*
35873361 AAATCCGGGTTAAGTC
65 AAATCC-GGTTAAATC
*
35873377 CCGAAGGCATTTGTGCGAGTTACTATAA-CCGGGCTATGTCCCGAAGGCATTTGAACGAGTAGCT
1 CCGAAGGCATTTGTGCGAGTTACTA-AATCCGGGCTAAGTCCCGAAGGCATTTGAACGAGTAGCT
* *
35873441 ATATCCGGTTAAATT
65 AAATCCGGTTAAATC
35873456 CCGAAGG
1 CCGAAGG
35873463 TACGTGATTT
Statistics
Matches: 77, Mismatches: 7, Indels: 5
0.87 0.08 0.06
Matches are distributed among these distances:
79 16 0.21
80 59 0.77
81 2 0.03
ACGTcount: A:0.26, C:0.20, G:0.27, T:0.27
Consensus pattern (79 bp):
CCGAAGGCATTTGTGCGAGTTACTAAATCCGGGCTAAGTCCCGAAGGCATTTGAACGAGTAGCTA
AATCCGGTTAAATC
Found at i:35881424 original size:80 final size:81
Alignment explanation
Indices: 35881287--35881466 Score: 199
Period size: 80 Copynumber: 2.2 Consensus size: 81
35881277 TTGAATGATG
* *
35881287 TCCGGGCTAAGTCCCGAAGGCTTTGTGCTAAGTGACCATATCCGGACTAAGATCCGAAGGCATTT
1 TCCGGGTTAAGTCCCGAAGGCTTTGTGCTAAGTGACCAAATCCGGACTAAGATCCGAAGGCATTT
**
35881352 GTGCGAGTTA-CTA-AA
66 GAACGAG-TAGCTATAA
* * * * *
35881367 TCCGGGTTAAGTCCCGAAGGCATTTGTGC-GAGTTACTAAATCCGGGCTATG-TCCCGAAGGCAT
1 TCCGGGTTAAGTCCCGAAGGC-TTTGTGCTAAGTGACCAAATCCGGACTAAGAT-CCGAAGGCAT
35881430 TTGAACGAGTAGCTATAA
64 TTGAACGAGTAGCTATAA
* *
35881448 TCC-GGTTAAATTCCGAAGG
1 TCCGGGTTAAGTCCCGAAGG
35881467 TACGTGATTT
Statistics
Matches: 85, Mismatches: 11, Indels: 8
0.82 0.11 0.08
Matches are distributed among these distances:
79 3 0.04
80 70 0.82
81 12 0.14
ACGTcount: A:0.26, C:0.22, G:0.27, T:0.26
Consensus pattern (81 bp):
TCCGGGTTAAGTCCCGAAGGCTTTGTGCTAAGTGACCAAATCCGGACTAAGATCCGAAGGCATTT
GAACGAGTAGCTATAA
Found at i:35881439 original size:40 final size:40
Alignment explanation
Indices: 35881287--35881432 Score: 197
Period size: 40 Copynumber: 3.6 Consensus size: 40
35881277 TTGAATGATG
* * * *
35881287 TCCGGGCTAAGTCCCGAAGGC-TTTGTGCTAAGTGACCATA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGC-GAGTTACTAAA
*
35881327 TCCGGACTAAGAT-CCGAAGGCATTTGTGCGAGTTACTAAA
1 TCCGGGCTAAG-TCCCGAAGGCATTTGTGCGAGTTACTAAA
*
35881367 TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAA
*
35881407 TCCGGGCTATGTCCCGAAGGCATTTG
1 TCCGGGCTAAGTCCCGAAGGCATTTG
35881433 AACGAGTAGC
Statistics
Matches: 94, Mismatches: 9, Indels: 6
0.86 0.08 0.06
Matches are distributed among these distances:
39 1 0.01
40 85 0.90
41 8 0.09
ACGTcount: A:0.24, C:0.23, G:0.27, T:0.26
Consensus pattern (40 bp):
TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAA
Found at i:35881464 original size:40 final size:40
Alignment explanation
Indices: 35881287--35881466 Score: 179
Period size: 40 Copynumber: 4.5 Consensus size: 40
35881277 TTGAATGATG
* * * * *
35881287 TCCGGGCTAAGTCCCGAAGGC-TTTGTGCTAAGTGACCATA
1 TCCGGGTTAAGTCCCGAAGGCATTTGTGC-GAGTTACTAAA
**
35881327 TCCGGACTAAGAT-CCGAAGGCATTTGTGCGAGTTACTAAA
1 TCCGGGTTAAG-TCCCGAAGGCATTTGTGCGAGTTACTAAA
35881367 TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAA
1 TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAA
* * **
35881407 TCCGGGCTATGTCCCGAAGGCATTTGAACGAG-TAGCTATAA
1 TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTA-CTA-AA
* *
35881448 TCC-GGTTAAATTCCGAAGG
1 TCCGGGTTAAGTCCCGAAGG
35881467 TACGTGATTT
Statistics
Matches: 120, Mismatches: 15, Indels: 10
0.83 0.10 0.07
Matches are distributed among these distances:
39 3 0.03
40 104 0.87
41 13 0.11
ACGTcount: A:0.26, C:0.22, G:0.27, T:0.26
Consensus pattern (40 bp):
TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAA
Found at i:35883752 original size:18 final size:18
Alignment explanation
Indices: 35883731--35883769 Score: 62
Period size: 18 Copynumber: 2.2 Consensus size: 18
35883721 AAAGGAAGAT
35883731 AGAAAAAGA-AATCGAAAA
1 AGAAAAAGAGAAT-GAAAA
35883749 AGAAAAAGAGAATGAAAA
1 AGAAAAAGAGAATGAAAA
35883767 AGA
1 AGA
35883770 GCAAAAAGAG
Statistics
Matches: 20, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
18 17 0.85
19 3 0.15
ACGTcount: A:0.72, C:0.03, G:0.21, T:0.05
Consensus pattern (18 bp):
AGAAAAAGAGAATGAAAA
Found at i:35885577 original size:33 final size:34
Alignment explanation
Indices: 35885540--35885611 Score: 110
Period size: 33 Copynumber: 2.1 Consensus size: 34
35885530 GAGTTAGTTT
*
35885540 ATTAAATTTAGTTCATCTCAAATAAGTGTTAG-A
1 ATTAAATTTAGTTCAGCTCAAATAAGTGTTAGTA
* *
35885573 ATTAATTTTAGTTCAGCTTAAATAAGTGTTAGTA
1 ATTAAATTTAGTTCAGCTCAAATAAGTGTTAGTA
35885607 ATTAA
1 ATTAA
35885612 TTTGTTTAAA
Statistics
Matches: 35, Mismatches: 3, Indels: 1
0.90 0.08 0.03
Matches are distributed among these distances:
33 29 0.83
34 6 0.17
ACGTcount: A:0.39, C:0.07, G:0.12, T:0.42
Consensus pattern (34 bp):
ATTAAATTTAGTTCAGCTCAAATAAGTGTTAGTA
Found at i:35892732 original size:15 final size:13
Alignment explanation
Indices: 35892701--35892725 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
35892691 TTTTAGCTAA
35892701 TTAGAATTTAAAT
1 TTAGAATTTAAAT
35892714 TTAGAATTTAAA
1 TTAGAATTTAAA
35892726 AATTTAGTTT
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.48, C:0.00, G:0.08, T:0.44
Consensus pattern (13 bp):
TTAGAATTTAAAT
Found at i:35899815 original size:16 final size:16
Alignment explanation
Indices: 35899794--35899825 Score: 55
Period size: 16 Copynumber: 2.0 Consensus size: 16
35899784 GACATTTCTG
*
35899794 GCACTACAAAATTGTA
1 GCACTACAAAACTGTA
35899810 GCACTACAAAACTGTA
1 GCACTACAAAACTGTA
35899826 ATTAAAAAAA
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
16 15 1.00
ACGTcount: A:0.44, C:0.22, G:0.12, T:0.22
Consensus pattern (16 bp):
GCACTACAAAACTGTA
Found at i:35901975 original size:15 final size:14
Alignment explanation
Indices: 35901921--35901971 Score: 68
Period size: 14 Copynumber: 3.6 Consensus size: 14
35901911 TCCATTGAGC
35901921 GAGAAAAAGAAAAA
1 GAGAAAAAGAAAAA
*
35901935 GAGAAAAACAAAAA
1 GAGAAAAAGAAAAA
35901949 GATTG-AAAAGAAAAA
1 GA--GAAAAAGAAAAA
35901964 GAGAAAAA
1 GAGAAAAA
35901972 AGAATGATGA
Statistics
Matches: 32, Mismatches: 2, Indels: 6
0.80 0.05 0.15
Matches are distributed among these distances:
13 1 0.03
14 19 0.59
15 11 0.34
16 1 0.03
ACGTcount: A:0.75, C:0.02, G:0.20, T:0.04
Consensus pattern (14 bp):
GAGAAAAAGAAAAA
Found at i:35912730 original size:49 final size:52
Alignment explanation
Indices: 35912625--35912742 Score: 152
Period size: 50 Copynumber: 2.3 Consensus size: 52
35912615 ATGAAGAAAC
* * * * * **
35912625 GAGTTACTTAATGAATGACTTAATTTAATGATGCAGACTTAAACTAACATGG
1 GAGTTACATAATGCATGTCATAATTTAATGATGCAAACTTAAACTAACATAA
35912677 GAGTTACAT-ATGCATGTCATAATTT-ATGATGCAAACTT-AACTAACATAA
1 GAGTTACATAATGCATGTCATAATTTAATGATGCAAACTTAAACTAACATAA
35912726 GAGTTACATAATGCATG
1 GAGTTACATAATGCATG
35912743 ACTTTATTAA
Statistics
Matches: 58, Mismatches: 7, Indels: 4
0.84 0.10 0.06
Matches are distributed among these distances:
49 18 0.31
50 19 0.33
51 13 0.22
52 8 0.14
ACGTcount: A:0.39, C:0.13, G:0.16, T:0.32
Consensus pattern (52 bp):
GAGTTACATAATGCATGTCATAATTTAATGATGCAAACTTAAACTAACATAA
Found at i:35916833 original size:13 final size:13
Alignment explanation
Indices: 35916802--35916842 Score: 57
Period size: 13 Copynumber: 3.2 Consensus size: 13
35916792 GGATATCAAG
*
35916802 TTGT-AAAAAATA
1 TTGTGAAAAAAAA
35916814 TTCGTGAAAAAAAA
1 TT-GTGAAAAAAAA
35916828 TTGTGAAAAAAAA
1 TTGTGAAAAAAAA
35916841 TT
1 TT
35916843 AGTTAGTTTT
Statistics
Matches: 26, Mismatches: 1, Indels: 3
0.87 0.03 0.10
Matches are distributed among these distances:
12 2 0.08
13 15 0.58
14 9 0.35
ACGTcount: A:0.56, C:0.02, G:0.12, T:0.29
Consensus pattern (13 bp):
TTGTGAAAAAAAA
Found at i:35922377 original size:45 final size:45
Alignment explanation
Indices: 35922313--35922402 Score: 153
Period size: 45 Copynumber: 2.0 Consensus size: 45
35922303 AACAGATACT
* * *
35922313 CGGTGGATTCAGCACATAGCAACCACCTTATTAATCAATGATGTC
1 CGGTGGAATCAGCACATAGCAACCACCTTACTAATAAATGATGTC
35922358 CGGTGGAATCAGCACATAGCAACCACCTTACTAATAAATGATGTC
1 CGGTGGAATCAGCACATAGCAACCACCTTACTAATAAATGATGTC
35922403 TAGTTCACAT
Statistics
Matches: 42, Mismatches: 3, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
45 42 1.00
ACGTcount: A:0.33, C:0.24, G:0.18, T:0.24
Consensus pattern (45 bp):
CGGTGGAATCAGCACATAGCAACCACCTTACTAATAAATGATGTC
Found at i:35923552 original size:23 final size:23
Alignment explanation
Indices: 35923521--35923573 Score: 79
Period size: 23 Copynumber: 2.3 Consensus size: 23
35923511 ACCTACTTTC
* *
35923521 TTACTGTAGTAACTTTCGGGGTA
1 TTACAGTAGTAACTTTCGGGATA
*
35923544 TTACAGTAGTAATTTTCGGGATA
1 TTACAGTAGTAACTTTCGGGATA
35923567 TTACAGT
1 TTACAGT
35923574 GTTGGTGCCA
Statistics
Matches: 27, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
23 27 1.00
ACGTcount: A:0.26, C:0.11, G:0.23, T:0.40
Consensus pattern (23 bp):
TTACAGTAGTAACTTTCGGGATA
Found at i:35928034 original size:27 final size:27
Alignment explanation
Indices: 35927998--35928065 Score: 102
Period size: 27 Copynumber: 2.5 Consensus size: 27
35927988 AAATAAAAAA
*
35927998 TTATCAAAATGT-TATAATTTTTTTTAT
1 TTATCAAAATATATATAA-TTTTTTTAT
35928025 TTATCAAAATATATATAATTTTTTTAT
1 TTATCAAAATATATATAATTTTTTTAT
*
35928052 TTACCAAAATATAT
1 TTATCAAAATATAT
35928066 CAAAAAACAA
Statistics
Matches: 38, Mismatches: 2, Indels: 2
0.90 0.05 0.05
Matches are distributed among these distances:
27 33 0.87
28 5 0.13
ACGTcount: A:0.40, C:0.06, G:0.01, T:0.53
Consensus pattern (27 bp):
TTATCAAAATATATATAATTTTTTTAT
Found at i:35928078 original size:7 final size:7
Alignment explanation
Indices: 35928066--35928113 Score: 55
Period size: 7 Copynumber: 7.0 Consensus size: 7
35928056 CAAAATATAT
35928066 CAAAAAA
1 CAAAAAA
35928073 CAAAAAA
1 CAAAAAA
35928080 CAAAAAA
1 CAAAAAA
*
35928087 -AAAATA
1 CAAAAAA
35928093 -AAAAAA
1 CAAAAAA
*
35928099 TAAAAAA
1 CAAAAAA
35928106 CAGAAAAA
1 CA-AAAAA
35928114 AAACCTGGAC
Statistics
Matches: 36, Mismatches: 3, Indels: 3
0.86 0.07 0.07
Matches are distributed among these distances:
6 10 0.28
7 21 0.58
8 5 0.14
ACGTcount: A:0.85, C:0.08, G:0.02, T:0.04
Consensus pattern (7 bp):
CAAAAAA
Found at i:35928096 original size:26 final size:26
Alignment explanation
Indices: 35928067--35928116 Score: 82
Period size: 26 Copynumber: 1.9 Consensus size: 26
35928057 AAAATATATC
35928067 AAAAAACAAAAAACAAAAAAAAAATA
1 AAAAAACAAAAAACAAAAAAAAAATA
* *
35928093 AAAAAATAAAAAACAGAAAAAAAA
1 AAAAAACAAAAAACAAAAAAAAAA
35928117 CCTGGACTGA
Statistics
Matches: 22, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
26 22 1.00
ACGTcount: A:0.88, C:0.06, G:0.02, T:0.04
Consensus pattern (26 bp):
AAAAAACAAAAAACAAAAAAAAAATA
Found at i:35928491 original size:3 final size:3
Alignment explanation
Indices: 35928483--35928520 Score: 76
Period size: 3 Copynumber: 12.7 Consensus size: 3
35928473 AATTTTATAG
35928483 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TA
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TA
35928521 AGATGTTACT
Statistics
Matches: 35, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 35 1.00
ACGTcount: A:0.34, C:0.00, G:0.00, T:0.66
Consensus pattern (3 bp):
TAT
Found at i:35928630 original size:12 final size:12
Alignment explanation
Indices: 35928486--35928630 Score: 55
Period size: 12 Copynumber: 11.8 Consensus size: 12
35928476 TTTATAGTAT
*
35928486 TATTATTATTAT
1 TATTATTATTAA
*
35928498 TATTATTATTAT
1 TATTATTATTAA
35928510 TATTATTATTAA
1 TATTATTATTAA
* * *
35928522 GA-TGTTACTTAG
1 TATTATTA-TTAA
* *
35928534 TATTATTGTTAG
1 TATTATTATTAA
* ** *
35928546 TA-AAAAATTAG
1 TATTATTATTAA
*
35928557 TATTATT-TTTA
1 TATTATTATTAA
35928568 TAGTTAGTTATTAA
1 TA-TTA-TTATTAA
*
35928582 TAATT-TTAGTTAG
1 T-ATTATTA-TTAA
*
35928595 TATTATTTTGTATA
1 TATTATTAT-TA-A
**
35928609 TAAAATTATTAA
1 TATTATTATTAA
35928621 TATTATTATT
1 TATTATTATT
35928631 GTGTTAGTTA
Statistics
Matches: 97, Mismatches: 25, Indels: 22
0.67 0.17 0.15
Matches are distributed among these distances:
11 15 0.15
12 54 0.56
13 15 0.15
14 12 0.12
15 1 0.01
ACGTcount: A:0.36, C:0.01, G:0.08, T:0.56
Consensus pattern (12 bp):
TATTATTATTAA
Found at i:35929269 original size:15 final size:15
Alignment explanation
Indices: 35929249--35929277 Score: 58
Period size: 15 Copynumber: 1.9 Consensus size: 15
35929239 GATATGGTTA
35929249 GTGGTTGCGAAGAAT
1 GTGGTTGCGAAGAAT
35929264 GTGGTTGCGAAGAA
1 GTGGTTGCGAAGAA
35929278 GAAGGTGGTG
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 14 1.00
ACGTcount: A:0.28, C:0.07, G:0.41, T:0.24
Consensus pattern (15 bp):
GTGGTTGCGAAGAAT
Found at i:35929280 original size:18 final size:18
Alignment explanation
Indices: 35929257--35929291 Score: 52
Period size: 18 Copynumber: 1.9 Consensus size: 18
35929247 TAGTGGTTGC
* *
35929257 GAAGAATGTGGTTGCGAA
1 GAAGAAGGTGGTGGCGAA
35929275 GAAGAAGGTGGTGGCGA
1 GAAGAAGGTGGTGGCGA
35929292 TCATTGGGAT
Statistics
Matches: 15, Mismatches: 2, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
18 15 1.00
ACGTcount: A:0.31, C:0.06, G:0.46, T:0.17
Consensus pattern (18 bp):
GAAGAAGGTGGTGGCGAA
Done.