Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Chr11 124536837
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: 124536837
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
Warning! 312 characters in sequence are not A, C, G, or T
File 49 of 427
Found at i:11846005 original size:20 final size:21
Alignment explanation
Indices: 11845980--11846042 Score: 56
Period size: 26 Copynumber: 2.8 Consensus size: 21
11845970 TATTTTAGCA
11845980 CATTTATTTTATTTATTT-AT
1 CATTTATTTTATTTATTTCAT
11846000 CATTTACTCTCATTATTATTATTTCAT
1 CATTTA-T-T--TTA-T-TTATTTCAT
*
11846027 CATCTATTTTATTTAT
1 CATTTATTTTATTTAT
11846043 AGTTTTTCTT
Statistics
Matches: 35, Mismatches: 1, Indels: 13
0.71 0.02 0.27
Matches are distributed among these distances:
20 6 0.17
21 5 0.14
22 2 0.06
23 3 0.09
24 3 0.09
25 2 0.06
26 7 0.20
27 7 0.20
ACGTcount: A:0.25, C:0.13, G:0.00, T:0.62
Consensus pattern (21 bp):
CATTTATTTTATTTATTTCAT
Found at i:11847708 original size:2 final size:2
Alignment explanation
Indices: 11847701--11847726 Score: 52
Period size: 2 Copynumber: 13.0 Consensus size: 2
11847691 CTATTATCAC
11847701 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
11847727 AATTTTTGTA
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 24 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
TA
Found at i:11847907 original size:3 final size:3
Alignment explanation
Indices: 11847899--11848019 Score: 104
Period size: 3 Copynumber: 40.7 Consensus size: 3
11847889 AGTATTTTCC
* * * * *
11847899 ATT ATT ATT ATT AAT ATC ACT ACT ATC ATT ATT ATT ATT ATT A-T ATT
1 ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT
** * * *
11847946 ACG A-T ACCTT TTT ATT ATT ATT ACT ATT -GT ATT ATT ATT ATT ATT
1 ATT ATT A--TT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT
*
11847991 ATT ATT ATC ATT ATT ATT ATT ATT ATT AT
1 ATT ATT ATT ATT ATT ATT ATT ATT ATT AT
11848020 ATTTCCCTTT
Statistics
Matches: 94, Mismatches: 19, Indels: 10
0.76 0.15 0.08
Matches are distributed among these distances:
2 4 0.04
3 89 0.95
5 1 0.01
ACGTcount: A:0.33, C:0.07, G:0.02, T:0.58
Consensus pattern (3 bp):
ATT
Found at i:11848115 original size:20 final size:21
Alignment explanation
Indices: 11848090--11848152 Score: 56
Period size: 26 Copynumber: 2.8 Consensus size: 21
11848080 TATTTTAGCA
11848090 CATTTATTTTATTTATTT-AT
1 CATTTATTTTATTTATTTCAT
11848110 CATTTACTCTCATTATTATTATTTCAT
1 CATTTA-T-T--TTA-T-TTATTTCAT
*
11848137 CATCTATTTTATTTAT
1 CATTTATTTTATTTAT
11848153 AGTTTTTCTT
Statistics
Matches: 35, Mismatches: 1, Indels: 13
0.71 0.02 0.27
Matches are distributed among these distances:
20 6 0.17
21 5 0.14
22 2 0.06
23 3 0.09
24 3 0.09
25 2 0.06
26 7 0.20
27 7 0.20
ACGTcount: A:0.25, C:0.13, G:0.00, T:0.62
Consensus pattern (21 bp):
CATTTATTTTATTTATTTCAT
Found at i:11853967 original size:12 final size:12
Alignment explanation
Indices: 11853950--11853982 Score: 66
Period size: 12 Copynumber: 2.8 Consensus size: 12
11853940 AGGGTTTTAA
11853950 CGGCGTTTTCAG
1 CGGCGTTTTCAG
11853962 CGGCGTTTTCAG
1 CGGCGTTTTCAG
11853974 CGGCGTTTT
1 CGGCGTTTT
11853983 ATCAAAAAAC
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 21 1.00
ACGTcount: A:0.06, C:0.24, G:0.33, T:0.36
Consensus pattern (12 bp):
CGGCGTTTTCAG
Found at i:11854074 original size:41 final size:40
Alignment explanation
Indices: 11854014--11854295 Score: 348
Period size: 41 Copynumber: 7.0 Consensus size: 40
11854004 TATAAAACAT
*
11854014 AGAGCAATAGCGGCGTTTTTGGTAAAACGCCGCTAAAAAC
1 AGAGCAATAGCGGCGCTTTTGGTAAAACGCCGCTAAAAAC
* ** * *
11854054 AAAGCAATAGCGGCATTTTTTGTTAAAACGCCGCTAAAAAT
1 AGAGCAATAGCGGC-GCTTTTGGTAAAACGCCGCTAAAAAC
* *
11854095 AGAGCAATAGCGGCGTTTTTTGTTAAAACGCCGCTAAAAAC
1 AGAGCAATAGCGGCG-CTTTTGGTAAAACGCCGCTAAAAAC
* *
11854136 AGAGCAATAGCGACGCTTTTGGTAAAACGCCGCTAAAAAT
1 AGAGCAATAGCGGCGCTTTTGGTAAAACGCCGCTAAAAAC
* * *
11854176 AGAGCAATAGCGACGCTTTCGGTAAAACGCCGCTAAAAGTC
1 AGAGCAATAGCGGCGCTTTTGGTAAAACGCCGCTAAAA-AC
* * * *
11854217 GGGGCAATAGCGGCGCTTTCGGTAAAACGCCGCTAAAAGTC
1 AGAGCAATAGCGGCGCTTTTGGTAAAACGCCGCTAAAA-AC
* * *
11854258 GGGGCAATAGCGGCGCTTTTGGTAAAACGCTGCTAAAA
1 AGAGCAATAGCGGCGCTTTTGGTAAAACGCCGCTAAAA
11854296 GTCATATAAC
Statistics
Matches: 220, Mismatches: 19, Indels: 5
0.90 0.08 0.02
Matches are distributed among these distances:
40 72 0.33
41 148 0.67
ACGTcount: A:0.34, C:0.21, G:0.25, T:0.21
Consensus pattern (40 bp):
AGAGCAATAGCGGCGCTTTTGGTAAAACGCCGCTAAAAAC
Found at i:11854162 original size:81 final size:80
Alignment explanation
Indices: 11854006--11854295 Score: 373
Period size: 81 Copynumber: 3.6 Consensus size: 80
11853996 GCAAAAATTA
* * **
11854006 TAAAACATAGAGCAATAGCGGCGTTTTTGGTAAAACGCCGCTAAAAACAAAGCAATAGCGGCATT
1 TAAAA-ATAGAGCAATAGCGGCGCTTTTGGTAAAACGCCGCTAAAAACAGAGCAATAGCGGC-GC
*
11854071 TTTTGTTAAAACGCCGC
64 TTTTGGTAAAACGCCGC
* * *
11854088 TAAAAATAGAGCAATAGCGGCGTTTTTTGTTAAAACGCCGCTAAAAACAGAGCAATAGCGACGCT
1 TAAAAATAGAGCAATAGCGGCG-CTTTTGGTAAAACGCCGCTAAAAACAGAGCAATAGCGGCGCT
11854153 TTTGGTAAAACGCCGC
65 TTTGGTAAAACGCCGC
* * * * *
11854169 TAAAAATAGAGCAATAGCGACGCTTTCGGTAAAACGCCGCTAAAAGTCGGGGCAATAGCGGCGCT
1 TAAAAATAGAGCAATAGCGGCGCTTTTGGTAAAACGCCGCTAAAA-ACAGAGCAATAGCGGCGCT
*
11854234 TTCGGTAAAACGCCGC
65 TTTGGTAAAACGCCGC
* * * *
11854250 TAAAAGTCGGGGCAATAGCGGCGCTTTTGGTAAAACGCTGCTAAAA
1 TAAAAAT-AGAGCAATAGCGGCGCTTTTGGTAAAACGCCGCTAAAA
11854296 GTCATATAAC
Statistics
Matches: 184, Mismatches: 21, Indels: 6
0.87 0.10 0.03
Matches are distributed among these distances:
80 20 0.11
81 90 0.49
82 74 0.40
ACGTcount: A:0.34, C:0.20, G:0.24, T:0.21
Consensus pattern (80 bp):
TAAAAATAGAGCAATAGCGGCGCTTTTGGTAAAACGCCGCTAAAAACAGAGCAATAGCGGCGCTT
TTGGTAAAACGCCGC
Found at i:11854173 original size:122 final size:122
Alignment explanation
Indices: 11854014--11854295 Score: 361
Period size: 122 Copynumber: 2.3 Consensus size: 122
11854004 TATAAAACAT
* * ** * *
11854014 AGAGCAATAGCGGCGTTTTTGGTAAAACGCCGCTAAAAACAAAGCAATAGCGGCATTTTTTGTTA
1 AGAGCAATAGCGGCGCTTTTGGTAAAACGCCGCTAAAAACAAAGCAATAGCGAC-GCTTTCGGTA
* * *
11854079 AAACGCCGCTAAAAAT-AGAGCAATAGCGGCGTTTTTTGTTAAAACGCCGCTAAAA-AC
65 AAACGCCGCTAAAAATCAGAGCAATAGCGGCG-CTTTCGGTAAAACGCCGCTAAAAGAC
* * *
11854136 AGAGCAATAGCGACGCTTTTGGTAAAACGCCGCTAAAAATAGAGCAATAGCGACGCTTTCGGTAA
1 AGAGCAATAGCGGCGCTTTTGGTAAAACGCCGCTAAAAACAAAGCAATAGCGACGCTTTCGGTAA
* * * *
11854201 AACGCCGCTAAAAGTCGGGGCAATAGCGGCGCTTTCGGTAAAACGCCGCTAAAAGTC
66 AACGCCGCTAAAAATCAGAGCAATAGCGGCGCTTTCGGTAAAACGCCGCTAAAAGAC
* * *
11854258 GGGGCAATAGCGGCGCTTTTGGTAAAACGCTGCTAAAA
1 AGAGCAATAGCGGCGCTTTTGGTAAAACGCCGCTAAAA
11854296 GTCATATAAC
Statistics
Matches: 138, Mismatches: 20, Indels: 4
0.85 0.12 0.02
Matches are distributed among these distances:
121 41 0.30
122 97 0.70
ACGTcount: A:0.34, C:0.21, G:0.25, T:0.21
Consensus pattern (122 bp):
AGAGCAATAGCGGCGCTTTTGGTAAAACGCCGCTAAAAACAAAGCAATAGCGACGCTTTCGGTAA
AACGCCGCTAAAAATCAGAGCAATAGCGGCGCTTTCGGTAAAACGCCGCTAAAAGAC
Found at i:11854379 original size:37 final size:37
Alignment explanation
Indices: 11854337--11854407 Score: 97
Period size: 37 Copynumber: 1.9 Consensus size: 37
11854327 AAAAATCATG
* * *
11854337 AACACTAATCTATAACTCCTAAAATACTAAACCCTTA
1 AACACTAAACCATAACTCCTAAAACACTAAACCCTTA
* *
11854374 AACACTAAACCATAACTTCTAAAACCCTAAACCC
1 AACACTAAACCATAACTCCTAAAACACTAAACCC
11854408 AAAAAACGTC
Statistics
Matches: 29, Mismatches: 5, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
37 29 1.00
ACGTcount: A:0.46, C:0.31, G:0.00, T:0.23
Consensus pattern (37 bp):
AACACTAAACCATAACTCCTAAAACACTAAACCCTTA
Found at i:11854546 original size:7 final size:7
Alignment explanation
Indices: 11854536--11854582 Score: 58
Period size: 7 Copynumber: 6.7 Consensus size: 7
11854526 CGGTTTAGTA
11854536 TTTAAGG
1 TTTAAGG
11854543 TTTAAGG
1 TTTAAGG
* *
11854550 TCTATGG
1 TTTAAGG
*
11854557 TTTAGGG
1 TTTAAGG
*
11854564 TTTATGG
1 TTTAAGG
11854571 TTTAAGG
1 TTTAAGG
11854578 TTTAA
1 TTTAA
11854583 TGGCCATGGG
Statistics
Matches: 34, Mismatches: 6, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
7 34 1.00
ACGTcount: A:0.23, C:0.02, G:0.28, T:0.47
Consensus pattern (7 bp):
TTTAAGG
Found at i:11854579 original size:14 final size:14
Alignment explanation
Indices: 11854536--11854581 Score: 65
Period size: 14 Copynumber: 3.3 Consensus size: 14
11854526 CGGTTTAGTA
*
11854536 TTTAAGGTTTAAGG
1 TTTATGGTTTAAGG
* *
11854550 TCTATGGTTTAGGG
1 TTTATGGTTTAAGG
11854564 TTTATGGTTTAAGG
1 TTTATGGTTTAAGG
11854578 TTTA
1 TTTA
11854582 ATGGCCATGG
Statistics
Matches: 27, Mismatches: 5, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
14 27 1.00
ACGTcount: A:0.22, C:0.02, G:0.28, T:0.48
Consensus pattern (14 bp):
TTTATGGTTTAAGG
Found at i:11855185 original size:7 final size:7
Alignment explanation
Indices: 11855175--11855207 Score: 57
Period size: 7 Copynumber: 4.6 Consensus size: 7
11855165 AAATAAACTC
11855175 AAAATTT
1 AAAATTT
11855182 AAAAATTT
1 -AAAATTT
11855190 AAAATTT
1 AAAATTT
11855197 AAAATTT
1 AAAATTT
11855204 AAAA
1 AAAA
11855208 ATAAAAAATA
Statistics
Matches: 25, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
7 18 0.72
8 7 0.28
ACGTcount: A:0.64, C:0.00, G:0.00, T:0.36
Consensus pattern (7 bp):
AAAATTT
Found at i:11855188 original size:8 final size:8
Alignment explanation
Indices: 11855175--11855250 Score: 72
Period size: 8 Copynumber: 10.1 Consensus size: 8
11855165 AAATAAACTC
11855175 AAAATTTA
1 AAAATTTA
11855183 AAAATTT-
1 AAAATTTA
11855190 AAAATTT-
1 AAAATTTA
11855197 AAAATTTA
1 AAAATTTA
11855205 AAAA--TA
1 AAAATTTA
* *
11855211 AAAAATAA
1 AAAATTTA
* *
11855219 AAAAATAA
1 AAAATTTA
*
11855227 AAAACTTA
1 AAAATTTA
11855235 AAAATTT-
1 AAAATTTA
11855242 AAAATTTA
1 AAAATTTA
11855250 A
1 A
11855251 TATTTTAGTC
Statistics
Matches: 60, Mismatches: 4, Indels: 8
0.83 0.06 0.11
Matches are distributed among these distances:
6 6 0.10
7 21 0.35
8 33 0.55
ACGTcount: A:0.68, C:0.01, G:0.00, T:0.30
Consensus pattern (8 bp):
AAAATTTA
Found at i:11855195 original size:15 final size:15
Alignment explanation
Indices: 11855175--11855250 Score: 73
Period size: 15 Copynumber: 5.1 Consensus size: 15
11855165 AAATAAACTC
11855175 AAAATTTAAAAATTT-
1 AAAATTT-AAAATTTA
11855190 AAAATTTAAAATTTA
1 AAAATTTAAAATTTA
** **
11855205 AAAATAAAAAATAAA
1 AAAATTTAAAATTTA
** *
11855220 AAAATAAAAAACTTA
1 AAAATTTAAAATTTA
11855235 AAAATTTAAAATTTA
1 AAAATTTAAAATTTA
11855250 A
1 A
11855251 TATTTTAGTC
Statistics
Matches: 50, Mismatches: 10, Indels: 2
0.81 0.16 0.03
Matches are distributed among these distances:
14 7 0.14
15 43 0.86
ACGTcount: A:0.68, C:0.01, G:0.00, T:0.30
Consensus pattern (15 bp):
AAAATTTAAAATTTA
Found at i:11859235 original size:2 final size:2
Alignment explanation
Indices: 11859228--11859254 Score: 54
Period size: 2 Copynumber: 13.5 Consensus size: 2
11859218 TCTAATACTT
11859228 TG TG TG TG TG TG TG TG TG TG TG TG TG T
1 TG TG TG TG TG TG TG TG TG TG TG TG TG T
11859255 TTTATGTATT
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 25 1.00
ACGTcount: A:0.00, C:0.00, G:0.48, T:0.52
Consensus pattern (2 bp):
TG
Found at i:11859483 original size:22 final size:20
Alignment explanation
Indices: 11859417--11859472 Score: 58
Period size: 22 Copynumber: 2.6 Consensus size: 20
11859407 AAATTTCAAA
*
11859417 AATTAAATATAATATAATATTT
1 AATTAAA-ATAA-ATATTATTT
*
11859439 AACATAGAAATAAATATTATTT
1 AA-TTA-AAATAAATATTATTT
11859461 AATTAAAATAAA
1 AATTAAAATAAA
11859473 ATAATTTTTT
Statistics
Matches: 29, Mismatches: 3, Indels: 6
0.76 0.08 0.16
Matches are distributed among these distances:
20 7 0.24
21 2 0.07
22 12 0.41
23 6 0.21
24 2 0.07
ACGTcount: A:0.59, C:0.02, G:0.02, T:0.38
Consensus pattern (20 bp):
AATTAAAATAAATATTATTT
Found at i:11859560 original size:43 final size:43
Alignment explanation
Indices: 11859495--11859655 Score: 216
Period size: 43 Copynumber: 3.8 Consensus size: 43
11859485 TATCATTATT
* * * * * * *
11859495 TTTAGCGGCGTTTGTGAGAAAAGTGCTGCTAAAGTTTATGATC
1 TTTAGCGGCGTTTGCGAAAAAAGCGCCGCTAAAGGTCATGGTC
**
11859538 TTTAGCGGCGTTTGCGAAAAAAGCG-CATTAAAGGTCATGGTC
1 TTTAGCGGCGTTTGCGAAAAAAGCGCCGCTAAAGGTCATGGTC
* *
11859580 TTTAGCGGCGTTTGTGAAAAAAGCGCCACTAAAGGTCATGGTC
1 TTTAGCGGCGTTTGCGAAAAAAGCGCCGCTAAAGGTCATGGTC
11859623 TTTAGCGGCGTTTGCGAAAAAAGCGCCGCTAAA
1 TTTAGCGGCGTTTGCGAAAAAAGCGCCGCTAAA
11859656 AGTATTAGCG
Statistics
Matches: 104, Mismatches: 13, Indels: 2
0.87 0.11 0.02
Matches are distributed among these distances:
42 35 0.34
43 69 0.66
ACGTcount: A:0.28, C:0.17, G:0.28, T:0.27
Consensus pattern (43 bp):
TTTAGCGGCGTTTGCGAAAAAAGCGCCGCTAAAGGTCATGGTC
Found at i:11859790 original size:3 final size:3
Alignment explanation
Indices: 11859760--11859824 Score: 87
Period size: 3 Copynumber: 21.7 Consensus size: 3
11859750 TACTATTCTT
* * *
11859760 TTA TTT TTA TTT TTA TTT TTGA -TA TTA TTA TTA TTA TTA TTA TTA
1 TTA TTA TTA TTA TTA TTA TT-A TTA TTA TTA TTA TTA TTA TTA TTA
11859805 TTA TTA TTA TTA TTA TTA TT
1 TTA TTA TTA TTA TTA TTA TT
11859825 GTTGTTGTTG
Statistics
Matches: 54, Mismatches: 6, Indels: 4
0.84 0.09 0.06
Matches are distributed among these distances:
2 1 0.02
3 53 0.98
ACGTcount: A:0.28, C:0.00, G:0.02, T:0.71
Consensus pattern (3 bp):
TTA
Found at i:11860985 original size:25 final size:27
Alignment explanation
Indices: 11860948--11861000 Score: 74
Period size: 26 Copynumber: 2.0 Consensus size: 27
11860938 TCAAACATGC
11860948 ATTTAGGTCAATTTAAC-CCTAGGGGT
1 ATTTAGGTCAATTTAACTCCTAGGGGT
* *
11860974 ATTTCGGT-AATTTATCTCCTAGGGGT
1 ATTTAGGTCAATTTAACTCCTAGGGGT
11861000 A
1 A
11861001 AAACTGTAAA
Statistics
Matches: 24, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
25 7 0.29
26 17 0.71
ACGTcount: A:0.25, C:0.15, G:0.23, T:0.38
Consensus pattern (27 bp):
ATTTAGGTCAATTTAACTCCTAGGGGT
Found at i:11862521 original size:26 final size:26
Alignment explanation
Indices: 11862485--11862619 Score: 227
Period size: 26 Copynumber: 5.2 Consensus size: 26
11862475 CATGAAATTC
11862485 TTATCATGAAACATTTACCTAACCCA
1 TTATCATGAAACATTTACCTAACCCA
11862511 TTATCATGAAACATTTACCTAACCCA
1 TTATCATGAAACATTTACCTAACCCA
* *
11862537 TTATCATGGAACATTTACCTAACCTA
1 TTATCATGAAACATTTACCTAACCCA
11862563 TTATCATGAAACATTTACCTAA-CCA
1 TTATCATGAAACATTTACCTAACCCA
* *
11862588 TTATCATGGAACATTTACCTAACCTA
1 TTATCATGAAACATTTACCTAACCCA
11862614 TTATCA
1 TTATCA
11862620 ATTTGTATCA
Statistics
Matches: 102, Mismatches: 6, Indels: 2
0.93 0.05 0.02
Matches are distributed among these distances:
25 23 0.23
26 79 0.77
ACGTcount: A:0.37, C:0.24, G:0.05, T:0.33
Consensus pattern (26 bp):
TTATCATGAAACATTTACCTAACCCA
Found at i:11866835 original size:26 final size:26
Alignment explanation
Indices: 11866789--11866841 Score: 63
Period size: 26 Copynumber: 2.0 Consensus size: 26
11866779 TCAAACATGC
*
11866789 ATTTAGGTCAATTTAACCCTATGGGT
1 ATTTAGGTCAATTTAACCCTAGGGGT
* *
11866815 ATTTCGGT-AATTTATCTCCTAGGGGT
1 ATTTAGGTCAATTTAAC-CCTAGGGGT
11866841 A
1 A
11866842 AAACTGTAAA
Statistics
Matches: 23, Mismatches: 3, Indels: 2
0.82 0.11 0.07
Matches are distributed among these distances:
25 7 0.30
26 16 0.70
ACGTcount: A:0.25, C:0.15, G:0.21, T:0.40
Consensus pattern (26 bp):
ATTTAGGTCAATTTAACCCTAGGGGT
Found at i:11869383 original size:25 final size:26
Alignment explanation
Indices: 11869355--11869412 Score: 75
Period size: 25 Copynumber: 2.2 Consensus size: 26
11869345 TAATATCACC
*
11869355 ATATATTTATTTTCAAC-ATA-TATGT
1 ATATATATATTTT-AACTATATTATGT
11869380 ATATATATATTTTAACTATATTATGT
1 ATATATATATTTTAACTATATTATGT
11869406 ACTATAT
1 A-TATAT
11869413 CTACATATAT
Statistics
Matches: 29, Mismatches: 1, Indels: 4
0.85 0.03 0.12
Matches are distributed among these distances:
24 3 0.10
25 15 0.52
26 6 0.21
27 5 0.17
ACGTcount: A:0.38, C:0.07, G:0.03, T:0.52
Consensus pattern (26 bp):
ATATATATATTTTAACTATATTATGT
Found at i:11872559 original size:24 final size:24
Alignment explanation
Indices: 11872456--11872583 Score: 206
Period size: 25 Copynumber: 5.2 Consensus size: 24
11872446 TGATACAAAT
11872456 TGATAATAGGTTAGGTAAATGTT--
1 TGATAAT-GGTTAGGTAAATGTTCA
11872479 TGATAATGGTTAGGTAAATGTTCA
1 TGATAATGGTTAGGTAAATGTTCA
11872503 TGATAATAGGTTAGGTAAATGTTCCA
1 TGATAAT-GGTTAGGTAAATGTT-CA
11872529 TGATAATGGTTAGGTAAATGTTCA
1 TGATAATGGTTAGGTAAATGTTCA
11872553 TGATAATGGTTAGGTAAATGTTTCA
1 TGATAATGGTTAGGTAAATG-TTCA
11872578 TGATAA
1 TGATAA
11872584 GAATTTCATG
Statistics
Matches: 100, Mismatches: 0, Indels: 8
0.93 0.00 0.07
Matches are distributed among these distances:
22 15 0.15
23 7 0.07
24 29 0.29
25 40 0.40
26 9 0.09
ACGTcount: A:0.34, C:0.04, G:0.24, T:0.38
Consensus pattern (24 bp):
TGATAATGGTTAGGTAAATGTTCA
Found at i:11875864 original size:23 final size:24
Alignment explanation
Indices: 11875834--11875910 Score: 122
Period size: 23 Copynumber: 3.3 Consensus size: 24
11875824 ACTCGGGGAA
11875834 GAGGCCGTGGTCGA-GCCGTGGTC
1 GAGGCCGTGGTCGAGGCCGTGGTC
11875857 GAGGCCGTGGTCGAGGCCGTGGTC
1 GAGGCCGTGGTCGAGGCCGTGGTC
* *
11875881 GAGG-CGAGGTCGAGGCCGAGGTC
1 GAGGCCGTGGTCGAGGCCGTGGTC
11875904 GAGGCCG
1 GAGGCCG
11875911 AGGTAGTACT
Statistics
Matches: 50, Mismatches: 2, Indels: 3
0.91 0.04 0.05
Matches are distributed among these distances:
23 35 0.70
24 15 0.30
ACGTcount: A:0.12, C:0.25, G:0.51, T:0.13
Consensus pattern (24 bp):
GAGGCCGTGGTCGAGGCCGTGGTC
Found at i:11875880 original size:35 final size:35
Alignment explanation
Indices: 11875834--11875910 Score: 127
Period size: 35 Copynumber: 2.2 Consensus size: 35
11875824 ACTCGGGGAA
* *
11875834 GAGGCCGTGGTCGAGCCGTGGTCGAGGCCGTGGTC
1 GAGGCCGTGGTCGAGCCGAGGTCGAGGCCGAGGTC
*
11875869 GAGGCCGTGGTCGAGGCGAGGTCGAGGCCGAGGTC
1 GAGGCCGTGGTCGAGCCGAGGTCGAGGCCGAGGTC
11875904 GAGGCCG
1 GAGGCCG
11875911 AGGTAGTACT
Statistics
Matches: 39, Mismatches: 3, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
35 39 1.00
ACGTcount: A:0.12, C:0.25, G:0.51, T:0.13
Consensus pattern (35 bp):
GAGGCCGTGGTCGAGCCGAGGTCGAGGCCGAGGTC
Found at i:11875914 original size:12 final size:12
Alignment explanation
Indices: 11875834--11875910 Score: 122
Period size: 12 Copynumber: 6.6 Consensus size: 12
11875824 ACTCGGGGAA
11875834 GAGGCCGTGGTC
1 GAGGCCGTGGTC
11875846 GA-GCCGTGGTC
1 GAGGCCGTGGTC
11875857 GAGGCCGTGGTC
1 GAGGCCGTGGTC
11875869 GAGGCCGTGGTC
1 GAGGCCGTGGTC
*
11875881 GAGG-CGAGGTC
1 GAGGCCGTGGTC
*
11875892 GAGGCCGAGGTC
1 GAGGCCGTGGTC
11875904 GAGGCCG
1 GAGGCCG
11875911 AGGTAGTACT
Statistics
Matches: 62, Mismatches: 1, Indels: 4
0.93 0.01 0.06
Matches are distributed among these distances:
11 21 0.34
12 41 0.66
ACGTcount: A:0.12, C:0.25, G:0.51, T:0.13
Consensus pattern (12 bp):
GAGGCCGTGGTC
Found at i:11880834 original size:24 final size:25
Alignment explanation
Indices: 11880769--11880897 Score: 203
Period size: 24 Copynumber: 5.2 Consensus size: 25
11880759 TGATACAAAT
11880769 TGATAATAGGTTAGGTAAATG-TTCA
1 TGATAAT-GGTTAGGTAAATGTTTCA
11880794 TGATAATAGGTTAGGTAAATGTTTCA
1 TGATAAT-GGTTAGGTAAATGTTTCA
*
11880820 T-ATAATGGTTAGGT-AATGTTCCA
1 TGATAATGGTTAGGTAAATGTTTCA
11880843 TGATAATGGTTAGGTAAATG-TTCA
1 TGATAATGGTTAGGTAAATGTTTCA
11880867 TGATAATGGTTAGGTAAATGTTTCA
1 TGATAATGGTTAGGTAAATGTTTCA
11880892 TGATAA
1 TGATAA
11880898 GAATTTCATG
Statistics
Matches: 98, Mismatches: 2, Indels: 8
0.91 0.02 0.07
Matches are distributed among these distances:
23 9 0.09
24 44 0.45
25 40 0.41
26 5 0.05
ACGTcount: A:0.34, C:0.05, G:0.23, T:0.38
Consensus pattern (25 bp):
TGATAATGGTTAGGTAAATGTTTCA
Found at i:11882404 original size:26 final size:26
Alignment explanation
Indices: 11882375--11882427 Score: 72
Period size: 26 Copynumber: 2.0 Consensus size: 26
11882365 TTTACAGTTT
11882375 TACCCCTAGGAGATAAATT-ACCGAAA
1 TACCCCTAGG-GATAAATTGACCGAAA
* *
11882401 TACCCCTAGGGTTAAATTGACCTAAA
1 TACCCCTAGGGATAAATTGACCGAAA
11882427 T
1 T
11882428 GCATGTTTGA
Statistics
Matches: 24, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
25 7 0.29
26 17 0.71
ACGTcount: A:0.38, C:0.23, G:0.15, T:0.25
Consensus pattern (26 bp):
TACCCCTAGGGATAAATTGACCGAAA
Found at i:11882919 original size:136 final size:137
Alignment explanation
Indices: 11882674--11882959 Score: 520
Period size: 136 Copynumber: 2.1 Consensus size: 137
11882664 GAGTAGTCTC
11882674 CCCAAATGGGCTTGCATATGTTTACTGATGTTGCATGTATTTTGAAATGGGCCTATGGGCCATAC
1 CCCAAATGGGCTTGCATATGTTTACTGATGTTGCATGTATTTTGAAATGGGCCTATGGGCCATAC
* *
11882739 TGTTATCTGAATAAGGGGCTAAGGCCCAGTTTATTGTAATCTGAAAAGGGCTTTGGCCCAGTATC
66 TGTTATCTGAATAAGGGGCTAAGGCCCAGTTTATTGTAATCTGAAAAGGGCTCTGGCCCAGTACC
11882804 ACTGTTA
131 ACTGTTA
*
11882811 CCCAAATGGGCTTGCATATG-TTATTGATGTTGCATGTATTTTGAAATGGGCCTATGGGCCATAC
1 CCCAAATGGGCTTGCATATGTTTACTGATGTTGCATGTATTTTGAAATGGGCCTATGGGCCATAC
11882875 TGTTATCTGAATAAGGGGCTAAGGCCCAGTTTATTGTAATCTGAAAAGGGCTCTGGCCCAGTACC
66 TGTTATCTGAATAAGGGGCTAAGGCCCAGTTTATTGTAATCTGAAAAGGGCTCTGGCCCAGTACC
11882940 ACTGTTA
131 ACTGTTA
**
11882947 CCTGAATGGGCTT
1 CCCAAATGGGCTT
11882960 AGGCCCAATG
Statistics
Matches: 144, Mismatches: 5, Indels: 1
0.96 0.03 0.01
Matches are distributed among these distances:
136 124 0.86
137 20 0.14
ACGTcount: A:0.24, C:0.18, G:0.25, T:0.32
Consensus pattern (137 bp):
CCCAAATGGGCTTGCATATGTTTACTGATGTTGCATGTATTTTGAAATGGGCCTATGGGCCATAC
TGTTATCTGAATAAGGGGCTAAGGCCCAGTTTATTGTAATCTGAAAAGGGCTCTGGCCCAGTACC
ACTGTTA
Found at i:11889358 original size:15 final size:15
Alignment explanation
Indices: 11889316--11889365 Score: 52
Period size: 15 Copynumber: 3.5 Consensus size: 15
11889306 ATAACTTTGA
*
11889316 ATGCAAATG-ATGTG
1 ATGCAAATGCATGAG
*
11889330 ATG-AAATTCTATGAG
1 ATGCAAATGC-ATGAG
11889345 ATGCAAATGCATGA-
1 ATGCAAATGCATGAG
11889359 ATGCAAA
1 ATGCAAA
11889366 AAGGATATCG
Statistics
Matches: 30, Mismatches: 3, Indels: 6
0.77 0.08 0.15
Matches are distributed among these distances:
13 4 0.13
14 10 0.33
15 11 0.37
16 5 0.17
ACGTcount: A:0.42, C:0.10, G:0.22, T:0.26
Consensus pattern (15 bp):
ATGCAAATGCATGAG
Found at i:11892607 original size:26 final size:27
Alignment explanation
Indices: 11892578--11892641 Score: 76
Period size: 26 Copynumber: 2.4 Consensus size: 27
11892568 CAAAATTAAC
*
11892578 CCTAGGGGTATAACGGTCATTTT-ACA
1 CCTAGGGGTATAACGGTAATTTTCACA
* * *
11892604 CCTAGGGGTAAAATGGTAATTTTCATA
1 CCTAGGGGTATAACGGTAATTTTCACA
*
11892631 CTTAGGGGTAT
1 CCTAGGGGTAT
11892642 TCTAGTAATT
Statistics
Matches: 31, Mismatches: 6, Indels: 1
0.82 0.16 0.03
Matches are distributed among these distances:
26 20 0.65
27 11 0.35
ACGTcount: A:0.28, C:0.14, G:0.25, T:0.33
Consensus pattern (27 bp):
CCTAGGGGTATAACGGTAATTTTCACA
Found at i:11894298 original size:192 final size:192
Alignment explanation
Indices: 11893971--11894354 Score: 741
Period size: 192 Copynumber: 2.0 Consensus size: 192
11893961 CGTGCCTATC
11893971 TCCTTCTTTATAGCCAACAACATAGTTTGAATTTAATTCAAACTCTCCTTGCGCAAACAACAGCA
1 TCCTTCTTTATAGCCAACAACATAGTTTGAATTTAATTCAAACTCTCCTTGCGCAAACAACAGCA
11894036 GGAGTCCTCCGCTTGGCTGACTCACCTCGCACCTTGCTGCTAGGGGAGTTTCAATCTCGTACGAC
66 GGAGTCCTCCGCTTGGCTGACTCACCTCGCACCTTGCTGCTAGGGGAGTTTCAATCTCGTACGAC
11894101 CCTTTTCGTACGCGCACATAAAAAAGGAGCACCCTCCTGCACGCAACGCTGCTCGAACACGG
131 CCTTTTCGTACGCGCACATAAAAAAGGAGCACCCTCCTGCACGCAACGCTGCTCGAACACGG
11894163 TCCTTCTTTATAGCCAACAACATAGTTTGAATTTAATTCAAACTCTCCTTGCGCAAACAACAGCA
1 TCCTTCTTTATAGCCAACAACATAGTTTGAATTTAATTCAAACTCTCCTTGCGCAAACAACAGCA
*
11894228 GGAGTCCTCCGCTTGGCTGACTCACCTTGCACCTTGCTGCTAGGGGAGTTTCAATCTCGTACGAC
66 GGAGTCCTCCGCTTGGCTGACTCACCTCGCACCTTGCTGCTAGGGGAGTTTCAATCTCGTACGAC
* *
11894293 CCTTTTCGTACGCGCACATCAAAAAGGAGCACCGTCCTGCACGCAACGCTGCTCGAACACGG
131 CCTTTTCGTACGCGCACATAAAAAAGGAGCACCCTCCTGCACGCAACGCTGCTCGAACACGG
11894355 GACCTCTAGG
Statistics
Matches: 189, Mismatches: 3, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
192 189 1.00
ACGTcount: A:0.25, C:0.31, G:0.19, T:0.25
Consensus pattern (192 bp):
TCCTTCTTTATAGCCAACAACATAGTTTGAATTTAATTCAAACTCTCCTTGCGCAAACAACAGCA
GGAGTCCTCCGCTTGGCTGACTCACCTCGCACCTTGCTGCTAGGGGAGTTTCAATCTCGTACGAC
CCTTTTCGTACGCGCACATAAAAAAGGAGCACCCTCCTGCACGCAACGCTGCTCGAACACGG
Found at i:11897081 original size:18 final size:18
Alignment explanation
Indices: 11897058--11897092 Score: 54
Period size: 18 Copynumber: 1.9 Consensus size: 18
11897048 ATAAAAATAC
11897058 ATAAAAGAAT-TAATATAT
1 ATAAAA-AATATAATATAT
11897076 ATAAAAAATATAATATA
1 ATAAAAAATATAATATA
11897093 AAGTGAATAA
Statistics
Matches: 16, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
17 3 0.19
18 13 0.81
ACGTcount: A:0.66, C:0.00, G:0.03, T:0.31
Consensus pattern (18 bp):
ATAAAAAATATAATATAT
Found at i:11897557 original size:26 final size:24
Alignment explanation
Indices: 11897512--11897559 Score: 60
Period size: 26 Copynumber: 1.9 Consensus size: 24
11897502 AATAAGATAT
**
11897512 AATATAAATATATAGGAAATAAGA
1 AATATAAATATATAAAAAATAAGA
11897536 AATATAATAGTATATAAAAAATAA
1 AATATAA-A-TATATAAAAAATAA
11897560 CATAATATTA
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
24 7 0.35
25 1 0.05
26 12 0.60
ACGTcount: A:0.65, C:0.00, G:0.08, T:0.27
Consensus pattern (24 bp):
AATATAAATATATAAAAAATAAGA
Found at i:11902039 original size:18 final size:18
Alignment explanation
Indices: 11902013--11902055 Score: 59
Period size: 18 Copynumber: 2.4 Consensus size: 18
11902003 GGACTAGAAA
* *
11902013 AGGAAACATATAAGGATT
1 AGGATACATATAAGGACT
*
11902031 AGGATACATATAAGGGCT
1 AGGATACATATAAGGACT
11902049 AGGATAC
1 AGGATAC
11902056 GCACCTGGCA
Statistics
Matches: 22, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
18 22 1.00
ACGTcount: A:0.44, C:0.09, G:0.26, T:0.21
Consensus pattern (18 bp):
AGGATACATATAAGGACT
Found at i:11902658 original size:7 final size:7
Alignment explanation
Indices: 11902648--11902678 Score: 53
Period size: 7 Copynumber: 4.4 Consensus size: 7
11902638 CATAATACAT
11902648 AATACTA
1 AATACTA
11902655 AATACTA
1 AATACTA
11902662 AATACTA
1 AATACTA
*
11902669 AATACGA
1 AATACTA
11902676 AAT
1 AAT
11902679 GATTATTTTA
Statistics
Matches: 23, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
7 23 1.00
ACGTcount: A:0.58, C:0.13, G:0.03, T:0.26
Consensus pattern (7 bp):
AATACTA
Found at i:11903788 original size:47 final size:48
Alignment explanation
Indices: 11903654--11903788 Score: 168
Period size: 48 Copynumber: 2.8 Consensus size: 48
11903644 ATGCAAACAT
* * *
11903654 CATAAATGAAAAAAAGAATCAAGTAGTATTGAAATTTTAATTATAATTG
1 CATAAATGAATAAAA-TATCAAATAGTATTGAAATTTTAATTATAATTG
11903703 CATAAATGAATAAAATATCAAATAGTATTGCAAA-TTTAATTA-AATTTG
1 CATAAATGAATAAAATATCAAATAGTATTG-AAATTTTAATTATAA-TTG
* **
11903751 CATAAATTAA-AAAATATTGAATAGTATTGAAATTTTAA
1 CATAAATGAATAAAATATCAAATAGTATTGAAATTTTAA
11903789 AATTATCACT
Statistics
Matches: 77, Mismatches: 6, Indels: 8
0.85 0.07 0.09
Matches are distributed among these distances:
46 3 0.04
47 24 0.31
48 33 0.43
49 17 0.22
ACGTcount: A:0.51, C:0.04, G:0.10, T:0.35
Consensus pattern (48 bp):
CATAAATGAATAAAATATCAAATAGTATTGAAATTTTAATTATAATTG
Found at i:11903942 original size:11 final size:11
Alignment explanation
Indices: 11903928--11903962 Score: 54
Period size: 11 Copynumber: 3.3 Consensus size: 11
11903918 AACAAAAAAA
11903928 TTTGATAGAAT
1 TTTGATAGAAT
*
11903939 TTTGATAGAAA
1 TTTGATAGAAT
11903950 TTTGATAG-AT
1 TTTGATAGAAT
11903960 TTT
1 TTT
11903963 TTAAGGGAAT
Statistics
Matches: 22, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
10 4 0.18
11 18 0.82
ACGTcount: A:0.34, C:0.00, G:0.17, T:0.49
Consensus pattern (11 bp):
TTTGATAGAAT
Found at i:11913351 original size:18 final size:18
Alignment explanation
Indices: 11913328--11913416 Score: 90
Period size: 18 Copynumber: 4.9 Consensus size: 18
11913318 CGTTTACGGT
11913328 ACTATTCACGTATACAGC
1 ACTATTCACGTATACAGC
*
11913346 ACTATTCACGTATACAGT
1 ACTATTCACGTATACAGC
*
11913364 ACTATTCACATATAC-GAC
1 ACTATTCACGTATACAG-C
* * * * *
11913382 ACTATTTATGAATACGGT
1 ACTATTCACGTATACAGC
*
11913400 ACTGTTCACGTATACAG
1 ACTATTCACGTATACAG
11913417 TAGTTGGGAT
Statistics
Matches: 56, Mismatches: 13, Indels: 4
0.77 0.18 0.05
Matches are distributed among these distances:
17 1 0.02
18 54 0.96
19 1 0.02
ACGTcount: A:0.34, C:0.22, G:0.12, T:0.31
Consensus pattern (18 bp):
ACTATTCACGTATACAGC
Found at i:11913378 original size:36 final size:37
Alignment explanation
Indices: 11913326--11913416 Score: 114
Period size: 36 Copynumber: 2.5 Consensus size: 37
11913316 ACCGTTTACG
*
11913326 GTACTATTCACGTATACAG-CACTATTCACGTATACA
1 GTACTATTCACGTATACAGACACTATTCACGAATACA
* * * *
11913362 GTACTATTCACATATAC-GACACTATTTATGAATACG
1 GTACTATTCACGTATACAGACACTATTCACGAATACA
*
11913398 GTACTGTTCACGTATACAG
1 GTACTATTCACGTATACAG
11913417 TAGTTGGGAT
Statistics
Matches: 46, Mismatches: 7, Indels: 3
0.82 0.12 0.05
Matches are distributed among these distances:
35 1 0.02
36 44 0.96
37 1 0.02
ACGTcount: A:0.33, C:0.22, G:0.13, T:0.32
Consensus pattern (37 bp):
GTACTATTCACGTATACAGACACTATTCACGAATACA
Found at i:11920314 original size:17 final size:18
Alignment explanation
Indices: 11920282--11920315 Score: 52
Period size: 18 Copynumber: 1.9 Consensus size: 18
11920272 CTCTTTTAAG
*
11920282 ATTTGGCTTGTTAATTTT
1 ATTTCGCTTGTTAATTTT
11920300 ATTTCGCTT-TTAATTT
1 ATTTCGCTTGTTAATTT
11920316 AGTCCCCTGA
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
17 7 0.47
18 8 0.53
ACGTcount: A:0.18, C:0.09, G:0.12, T:0.62
Consensus pattern (18 bp):
ATTTCGCTTGTTAATTTT
Found at i:11920462 original size:52 final size:52
Alignment explanation
Indices: 11920384--11920497 Score: 219
Period size: 52 Copynumber: 2.2 Consensus size: 52
11920374 TAATCCTTTG
11920384 ACTTTTTTGCACATTTTGAATTAGTCCCTTTTATTGTTTTGCCATCCGATTA
1 ACTTTTTTGCACATTTTGAATTAGTCCCTTTTATTGTTTTGCCATCCGATTA
11920436 ACTTTTTTGCACATTTTGAATTAGTCCCTTTTATTGTTTTGCCATCCGATTA
1 ACTTTTTTGCACATTTTGAATTAGTCCCTTTTATTGTTTTGCCATCCGATTA
11920488 ACTTATTTTG
1 ACTT-TTTTG
11920498 TTATATTTTA
Statistics
Matches: 61, Mismatches: 0, Indels: 1
0.98 0.00 0.02
Matches are distributed among these distances:
52 56 0.92
53 5 0.08
ACGTcount: A:0.19, C:0.18, G:0.11, T:0.51
Consensus pattern (52 bp):
ACTTTTTTGCACATTTTGAATTAGTCCCTTTTATTGTTTTGCCATCCGATTA
Found at i:11920609 original size:3 final size:3
Alignment explanation
Indices: 11920601--11920648 Score: 51
Period size: 3 Copynumber: 14.7 Consensus size: 3
11920591 TTTCTTTACT
*
11920601 TTA TTA TTA TTA TTA TTA TTTA TTTA TTA TTTA TTA TTT TTA TCTA TT
1 TTA TTA TTA TTA TTA TTA -TTA -TTA TTA -TTA TTA TTA TTA T-TA TT
11920649 TCTTTCGGAA
Statistics
Matches: 40, Mismatches: 2, Indels: 6
0.83 0.04 0.12
Matches are distributed among these distances:
3 27 0.68
4 13 0.32
ACGTcount: A:0.27, C:0.02, G:0.00, T:0.71
Consensus pattern (3 bp):
TTA
Found at i:11920629 original size:20 final size:20
Alignment explanation
Indices: 11920600--11920648 Score: 66
Period size: 20 Copynumber: 2.5 Consensus size: 20
11920590 ATTTCTTTAC
11920600 TTTA-TTATTA-TTATTATT
1 TTTATTTATTATTTATTATT
11920618 ATTTATTTATTATTTATTATT
1 -TTTATTTATTATTTATTATT
*
11920639 TTTATCTATT
1 TTTATTTATT
11920649 TCTTTCGGAA
Statistics
Matches: 27, Mismatches: 1, Indels: 3
0.87 0.03 0.10
Matches are distributed among these distances:
19 4 0.15
20 15 0.56
21 8 0.30
ACGTcount: A:0.27, C:0.02, G:0.00, T:0.71
Consensus pattern (20 bp):
TTTATTTATTATTTATTATT
Found at i:11920634 original size:24 final size:23
Alignment explanation
Indices: 11920601--11920649 Score: 71
Period size: 24 Copynumber: 2.1 Consensus size: 23
11920591 TTTCTTTACT
11920601 TTATTATTATTATTATTATTTAT
1 TTATTATTATTATTATTATTTAT
* *
11920624 TTATTATTTATTATTTTTATCTAT
1 TTATTA-TTATTATTATTATTTAT
11920648 TT
1 TT
11920650 CTTTCGGAAT
Statistics
Matches: 23, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
23 6 0.26
24 17 0.74
ACGTcount: A:0.27, C:0.02, G:0.00, T:0.71
Consensus pattern (23 bp):
TTATTATTATTATTATTATTTAT
Found at i:11922213 original size:22 final size:22
Alignment explanation
Indices: 11922188--11922267 Score: 62
Period size: 22 Copynumber: 3.8 Consensus size: 22
11922178 TAGAATGATT
**
11922188 TTTTAATTTTTAAATTTATATA
1 TTTTAATAATTAAATTTATATA
* *
11922210 TTTTCATAATT-AA-TGAT-T-
1 TTTTAATAATTAAATTTATATA
*
11922228 TTTTAA-ATTTTAAATTTATATA
1 TTTTAATA-ATTAAATTTATATA
*
11922250 TTTTCATAATTAAATTTA
1 TTTTAATAATTAAATTTA
11922268 AATAAATTTA
Statistics
Matches: 43, Mismatches: 9, Indels: 12
0.67 0.14 0.19
Matches are distributed among these distances:
17 1 0.02
18 7 0.16
19 3 0.07
20 6 0.14
21 3 0.07
22 22 0.51
23 1 0.02
ACGTcount: A:0.38, C:0.03, G:0.01, T:0.59
Consensus pattern (22 bp):
TTTTAATAATTAAATTTATATA
Found at i:11922239 original size:40 final size:40
Alignment explanation
Indices: 11922181--11922262 Score: 155
Period size: 40 Copynumber: 2.0 Consensus size: 40
11922171 ATTTATGTAG
*
11922181 AATGATTTTTTAATTTTTAAATTTATATATTTTCATAATT
1 AATGATTTTTTAAATTTTAAATTTATATATTTTCATAATT
11922221 AATGATTTTTTAAATTTTAAATTTATATATTTTCATAATT
1 AATGATTTTTTAAATTTTAAATTTATATATTTTCATAATT
11922261 AA
1 AA
11922263 ATTTAAATAA
Statistics
Matches: 41, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
40 41 1.00
ACGTcount: A:0.38, C:0.02, G:0.02, T:0.57
Consensus pattern (40 bp):
AATGATTTTTTAAATTTTAAATTTATATATTTTCATAATT
Found at i:11926081 original size:18 final size:18
Alignment explanation
Indices: 11926058--11926146 Score: 99
Period size: 18 Copynumber: 4.9 Consensus size: 18
11926048 CGTTTACGGT
11926058 ACTATTCACGTATACAGC
1 ACTATTCACGTATACAGC
*
11926076 ACTATTCACGTATACAGT
1 ACTATTCACGTATACAGC
*
11926094 ACTATTCATGTATA-AGGC
1 ACTATTCACGTATACA-GC
* * * *
11926112 ACTATTTACGAATACGGT
1 ACTATTCACGTATACAGC
*
11926130 ACTGTTCACGTATACAG
1 ACTATTCACGTATACAG
11926147 TAGTTGGGAT
Statistics
Matches: 57, Mismatches: 12, Indels: 4
0.78 0.16 0.05
Matches are distributed among these distances:
17 1 0.02
18 56 0.98
ACGTcount: A:0.33, C:0.21, G:0.15, T:0.31
Consensus pattern (18 bp):
ACTATTCACGTATACAGC
Found at i:11926107 original size:36 final size:36
Alignment explanation
Indices: 11926056--11926146 Score: 121
Period size: 36 Copynumber: 2.5 Consensus size: 36
11926046 ACCGTTTACG
*
11926056 GTACTATTCACGTATACAGCACTATTCACGTATACA
1 GTACTATTCACGTATACAGCACTATTCACGAATACA
* * *
11926092 GTACTATTCATGTATA-AGGCACTATTTACGAATACG
1 GTACTATTCACGTATACA-GCACTATTCACGAATACA
*
11926128 GTACTGTTCACGTATACAG
1 GTACTATTCACGTATACAG
11926147 TAGTTGGGAT
Statistics
Matches: 47, Mismatches: 6, Indels: 4
0.82 0.11 0.07
Matches are distributed among these distances:
35 1 0.02
36 45 0.96
37 1 0.02
ACGTcount: A:0.32, C:0.21, G:0.15, T:0.32
Consensus pattern (36 bp):
GTACTATTCACGTATACAGCACTATTCACGAATACA
Found at i:11932054 original size:2 final size:2
Alignment explanation
Indices: 11932047--11932096 Score: 100
Period size: 2 Copynumber: 25.0 Consensus size: 2
11932037 GTTTGTTCTT
11932047 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
11932089 TA TA TA TA
1 TA TA TA TA
11932097 AATTATAAGT
Statistics
Matches: 48, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 48 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
TA
Found at i:11934222 original size:5 final size:5
Alignment explanation
Indices: 11934212--11934243 Score: 57
Period size: 5 Copynumber: 6.6 Consensus size: 5
11934202 TTGTGTGTTC
11934212 TTTAT TTTA- TTTAT TTTAT TTTAT TTTAT TTT
1 TTTAT TTTAT TTTAT TTTAT TTTAT TTTAT TTT
11934244 TCACAAACTG
Statistics
Matches: 26, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
4 4 0.15
5 22 0.85
ACGTcount: A:0.19, C:0.00, G:0.00, T:0.81
Consensus pattern (5 bp):
TTTAT
Found at i:11934226 original size:9 final size:9
Alignment explanation
Indices: 11934212--11934242 Score: 53
Period size: 9 Copynumber: 3.3 Consensus size: 9
11934202 TTGTGTGTTC
11934212 TTTATTTTA
1 TTTATTTTA
11934221 TTTATTTTA
1 TTTATTTTA
11934230 TTTTATTTTA
1 -TTTATTTTA
11934240 TTT
1 TTT
11934243 TTCACAAACT
Statistics
Matches: 21, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
9 12 0.57
10 9 0.43
ACGTcount: A:0.19, C:0.00, G:0.00, T:0.81
Consensus pattern (9 bp):
TTTATTTTA
Found at i:11938655 original size:5 final size:5
Alignment explanation
Indices: 11938645--11938676 Score: 57
Period size: 5 Copynumber: 6.6 Consensus size: 5
11938635 TTGTGTGTTC
11938645 TTTAT TTTA- TTTAT TTTAT TTTAT TTTAT TTT
1 TTTAT TTTAT TTTAT TTTAT TTTAT TTTAT TTT
11938677 TCACAAATTG
Statistics
Matches: 26, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
4 4 0.15
5 22 0.85
ACGTcount: A:0.19, C:0.00, G:0.00, T:0.81
Consensus pattern (5 bp):
TTTAT
Found at i:11938659 original size:9 final size:9
Alignment explanation
Indices: 11938645--11938675 Score: 53
Period size: 9 Copynumber: 3.3 Consensus size: 9
11938635 TTGTGTGTTC
11938645 TTTATTTTA
1 TTTATTTTA
11938654 TTTATTTTA
1 TTTATTTTA
11938663 TTTTATTTTA
1 -TTTATTTTA
11938673 TTT
1 TTT
11938676 TTCACAAATT
Statistics
Matches: 21, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
9 12 0.57
10 9 0.43
ACGTcount: A:0.19, C:0.00, G:0.00, T:0.81
Consensus pattern (9 bp):
TTTATTTTA
Found at i:11939427 original size:22 final size:22
Alignment explanation
Indices: 11939402--11939445 Score: 70
Period size: 22 Copynumber: 2.0 Consensus size: 22
11939392 TAGTCATATA
11939402 ATAAATTATTAATATAATAAAT
1 ATAAATTATTAATATAATAAAT
* *
11939424 ATAAATTATTATTTTAATAAAT
1 ATAAATTATTAATATAATAAAT
11939446 TATTTAATAT
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
22 20 1.00
ACGTcount: A:0.55, C:0.00, G:0.00, T:0.45
Consensus pattern (22 bp):
ATAAATTATTAATATAATAAAT
Found at i:11940262 original size:5 final size:5
Alignment explanation
Indices: 11940252--11940281 Score: 60
Period size: 5 Copynumber: 6.0 Consensus size: 5
11940242 AAACAATAGT
11940252 TTTTA TTTTA TTTTA TTTTA TTTTA TTTTA
1 TTTTA TTTTA TTTTA TTTTA TTTTA TTTTA
11940282 AAAATAATTC
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 25 1.00
ACGTcount: A:0.20, C:0.00, G:0.00, T:0.80
Consensus pattern (5 bp):
TTTTA
Found at i:11948098 original size:3 final size:3
Alignment explanation
Indices: 11948090--11948371 Score: 82
Period size: 3 Copynumber: 92.7 Consensus size: 3
11948080 ATTTGCCATT
**
11948090 TTA TTA TTA AAA TTGA TTAA TTA -TA TTTA TTTA TTAA TT- TTA TTA
1 TTA TTA TTA TTA TT-A TT-A TTA TTA T-TA T-TA TT-A TTA TTA TTA
* * * *
11948135 TTA TTG CTA TTA TTA TTA TTA TTA TTA TTA TTA TCA TTA TTT TTA TT-
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA
* * * * * *
11948182 CTG TTA TTG TTA TTA TT- TCTC TTG TTG TT- TTCA TTA TTA TT- TATA
1 TTA TTA TTA TTA TTA TTA T-TA TTA TTA TTA TT-A TTA TTA TTA T-TA
* * ** * * *
11948227 TTA TTG TTA GTA CCA TTA GTA CTCT- TTA GT- TTA TTA CTA TTA TTA
1 TTA TTA TTA TTA TTA TTA TTA -T-TA TTA TTA TTA TTA TTA TTA TTA
* * * * * *
11948272 CTA TCTCA TCA TTA TTT TCTA TTA TTG TTA TTA ATA -TA CTA TTA TTA
1 TTA T-T-A TTA TTA TTA T-TA TTA TTA TTA TTA TTA TTA TTA TTA TTA
* * * *
11948319 TTC TTA TTAA TGTA TTA CTA TTA TTT TTA CT- TTA TTA TTA -TA TTA
1 TTA TTA TT-A T-TA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA
*
11948364 TTA CTA TT
1 TTA TTA TT
11948372 GCTATCATCA
Statistics
Matches: 203, Mismatches: 52, Indels: 48
0.67 0.17 0.16
Matches are distributed among these distances:
2 16 0.08
3 156 0.77
4 27 0.13
5 4 0.02
ACGTcount: A:0.28, C:0.07, G:0.04, T:0.60
Consensus pattern (3 bp):
TTA
Found at i:11948334 original size:20 final size:20
Alignment explanation
Indices: 11948311--11948366 Score: 60
Period size: 20 Copynumber: 2.9 Consensus size: 20
11948301 ATTAATATAC
*
11948311 TATTATTATTCTTATTAATG
1 TATTATTATTATTATTAATG
* * * *
11948331 TATTACTATTATTTTTACTT
1 TATTATTATTATTATTAATG
11948351 TATTATTA-TATTATTA
1 TATTATTATTATTATTA
11948367 CTATTGCTAT
Statistics
Matches: 29, Mismatches: 7, Indels: 1
0.78 0.19 0.03
Matches are distributed among these distances:
19 7 0.24
20 22 0.76
ACGTcount: A:0.30, C:0.05, G:0.02, T:0.62
Consensus pattern (20 bp):
TATTATTATTATTATTAATG
Found at i:11948389 original size:3 final size:3
Alignment explanation
Indices: 11948120--11948371 Score: 83
Period size: 3 Copynumber: 83.7 Consensus size: 3
11948110 TTATATTTAT
* *
11948120 TTA TTAA TT- TTA TTA TTA TTG CTA TTA TTA TTA TTA TTA TTA TTA
1 TTA TT-A TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA
* * * * * * * *
11948165 TTA TCA TTA TTT TTA TT- CTG TTA TTG TTA TTA TT- TCTC TTG TTG
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA T-TA TTA TTA
* * ** *
11948209 TT- TTCA TTA TTA TT- TATA TTA TTG TTA GTA CCA TTA GTA CTCT- TTA
1 TTA TT-A TTA TTA TTA T-TA TTA TTA TTA TTA TTA TTA TTA -T-TA TTA
* * * * * *
11948255 GT- TTA TTA CTA TTA TTA CTA TCTCA TCA TTA TTT TCTA TTA TTG TTA
1 TTA TTA TTA TTA TTA TTA TTA T-T-A TTA TTA TTA T-TA TTA TTA TTA
* * * * *
11948302 TTA ATA -TA CTA TTA TTA TTC TTA TTAA TGTA TTA CTA TTA TTT TTA
1 TTA TTA TTA TTA TTA TTA TTA TTA TT-A T-TA TTA TTA TTA TTA TTA
* *
11948348 CT- TTA TTA TTA -TA TTA TTA CTA TT
1 TTA TTA TTA TTA TTA TTA TTA TTA TT
11948372 GCTATCATCA
Statistics
Matches: 181, Mismatches: 47, Indels: 42
0.67 0.17 0.16
Matches are distributed among these distances:
2 14 0.08
3 149 0.82
4 14 0.08
5 4 0.02
ACGTcount: A:0.27, C:0.08, G:0.04, T:0.61
Consensus pattern (3 bp):
TTA
Found at i:11948473 original size:3 final size:3
Alignment explanation
Indices: 11948461--11948495 Score: 61
Period size: 3 Copynumber: 11.7 Consensus size: 3
11948451 TTATTACTGC
*
11948461 TAT TAC TAT TAT TAT TAT TAT TAT TAT TAT TAT TA
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TA
11948496 GACATAACAT
Statistics
Matches: 30, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
3 30 1.00
ACGTcount: A:0.34, C:0.03, G:0.00, T:0.63
Consensus pattern (3 bp):
TAT
Found at i:11948473 original size:9 final size:9
Alignment explanation
Indices: 11948446--11948492 Score: 51
Period size: 9 Copynumber: 5.3 Consensus size: 9
11948436 TTGTATATAT
11948446 TTAC-ATTA
1 TTACTATTA
**
11948454 TTACTGCTA
1 TTACTATTA
11948463 TTACTATTA
1 TTACTATTA
*
11948472 TTATTATTA
1 TTACTATTA
*
11948481 TTATTATTA
1 TTACTATTA
11948490 TTA
1 TTA
11948493 TTAGACATAA
Statistics
Matches: 33, Mismatches: 5, Indels: 1
0.85 0.13 0.03
Matches are distributed among these distances:
8 4 0.12
9 29 0.88
ACGTcount: A:0.32, C:0.09, G:0.02, T:0.57
Consensus pattern (9 bp):
TTACTATTA
Found at i:11952381 original size:19 final size:19
Alignment explanation
Indices: 11952361--11952401 Score: 55
Period size: 19 Copynumber: 2.1 Consensus size: 19
11952351 TTGTTTTGCA
*
11952361 TTCATTCATTTGCATTACAT
1 TTCA-TCATGTGCATTACAT
*
11952381 TTCATCATGTGCATTAAAT
1 TTCATCATGTGCATTACAT
11952400 TT
1 TT
11952402 TGTGAAAAGA
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
19 15 0.79
20 4 0.21
ACGTcount: A:0.27, C:0.17, G:0.07, T:0.49
Consensus pattern (19 bp):
TTCATCATGTGCATTACAT
Found at i:11956241 original size:30 final size:29
Alignment explanation
Indices: 11956205--11956293 Score: 99
Period size: 30 Copynumber: 3.0 Consensus size: 29
11956195 GAACTTGCTT
11956205 ACACAAGTTGACTTTATATTAGAATTGTTC
1 ACACAAGTTGACTTTATA-TAGAATTGTTC
* * *
11956235 ACACAAGTTGACTTTGTA-ATAATTGCTC
1 ACACAAGTTGACTTTATATAGAATTGTTC
* * *
11956263 ACACAAGCTAATTTTATAATAGAATTGTTC
1 ACACAAGTTGACTTTAT-ATAGAATTGTTC
11956293 A
1 A
11956294 TACATGCTAA
Statistics
Matches: 48, Mismatches: 9, Indels: 4
0.79 0.15 0.07
Matches are distributed among these distances:
28 21 0.44
29 1 0.02
30 26 0.54
ACGTcount: A:0.36, C:0.15, G:0.12, T:0.37
Consensus pattern (29 bp):
ACACAAGTTGACTTTATATAGAATTGTTC
Found at i:11956289 original size:58 final size:57
Alignment explanation
Indices: 11956199--11956339 Score: 149
Period size: 58 Copynumber: 2.5 Consensus size: 57
11956189 TTTAACGAAC
* * * * * *
11956199 TTGCTTACACAAGTTGACTTTATATTAGAATTGTTCACACAAGTTGACTTTGTAATAA
1 TTGCTCACACAAGCTAACTTTATAATAGAATTGTTCACACAAGCTAACTTTGTAA-AA
* * * *
11956257 TTGCTCACACAAGCTAATTTTATAATAGAATTGTTCATACATGCTAACTTTGTGAAA
1 TTGCTCACACAAGCTAACTTTATAATAGAATTGTTCACACAAGCTAACTTTGTAAAA
* * *
11956314 -TGCTCACGCAAGCTGACTTTGTAATA
1 TTGCTCACACAAGCTAACTTTATAATA
11956340 CTTCCATACA
Statistics
Matches: 69, Mismatches: 14, Indels: 2
0.81 0.16 0.02
Matches are distributed among these distances:
56 22 0.32
57 2 0.03
58 45 0.65
ACGTcount: A:0.33, C:0.16, G:0.14, T:0.37
Consensus pattern (57 bp):
TTGCTCACACAAGCTAACTTTATAATAGAATTGTTCACACAAGCTAACTTTGTAAAA
Found at i:11957883 original size:25 final size:26
Alignment explanation
Indices: 11957846--11957897 Score: 70
Period size: 25 Copynumber: 2.0 Consensus size: 26
11957836 TCAAACATGC
11957846 ATTTAGGTCAATTTAACCCTAGGGGT
1 ATTTAGGTCAATTTAACCCTAGGGGT
* * *
11957872 ATTTCGGT-AATTTATCTCTAGGGGT
1 ATTTAGGTCAATTTAACCCTAGGGGT
11957897 A
1 A
11957898 AAACTGTAAA
Statistics
Matches: 23, Mismatches: 3, Indels: 1
0.85 0.11 0.04
Matches are distributed among these distances:
25 16 0.70
26 7 0.30
ACGTcount: A:0.25, C:0.13, G:0.23, T:0.38
Consensus pattern (26 bp):
ATTTAGGTCAATTTAACCCTAGGGGT
Found at i:11959401 original size:25 final size:25
Alignment explanation
Indices: 11959367--11959470 Score: 142
Period size: 25 Copynumber: 4.2 Consensus size: 25
11959357 ACATGAATTC
11959367 TTATCATGAAACATTTACCTAACCA
1 TTATCATGAAACATTTACCTAACCA
11959392 TTATCATGAAACATTTACCTAACCCA
1 TTATCATGAAACATTTACCTAA-CCA
* *
11959418 TTATCATG-GA-ATTTACCTAA-TA
1 TTATCATGAAACATTTACCTAACCA
* *
11959440 TTATCATGGAACATTTACCTACCCA
1 TTATCATGAAACATTTACCTAACCA
11959465 TTATCA
1 TTATCA
11959471 ATTTGTATCA
Statistics
Matches: 70, Mismatches: 5, Indels: 8
0.84 0.06 0.10
Matches are distributed among these distances:
22 9 0.13
23 1 0.01
24 19 0.27
25 30 0.43
26 11 0.16
ACGTcount: A:0.37, C:0.23, G:0.06, T:0.35
Consensus pattern (25 bp):
TTATCATGAAACATTTACCTAACCA
Found at i:11959453 original size:48 final size:48
Alignment explanation
Indices: 11959379--11959470 Score: 150
Period size: 48 Copynumber: 1.9 Consensus size: 48
11959369 ATCATGAAAC
11959379 ATTTACCTAACCATTATCATGAAACATTTACCTAACCCATTATCATGGA
1 ATTTACCTAACCATTATCATGAAACATTTACCT-ACCCATTATCATGGA
* *
11959428 ATTTACCTAA-TATTATCATGGAACATTTACCTACCCATTATCA
1 ATTTACCTAACCATTATCATGAAACATTTACCTACCCATTATCA
11959471 ATTTGTATCA
Statistics
Matches: 41, Mismatches: 2, Indels: 2
0.91 0.04 0.04
Matches are distributed among these distances:
47 11 0.27
48 20 0.49
49 10 0.24
ACGTcount: A:0.36, C:0.24, G:0.05, T:0.35
Consensus pattern (48 bp):
ATTTACCTAACCATTATCATGAAACATTTACCTACCCATTATCATGGA
Found at i:11964354 original size:12 final size:12
Alignment explanation
Indices: 11964337--11964391 Score: 110
Period size: 12 Copynumber: 4.6 Consensus size: 12
11964327 AGTACTACCT
11964337 CGGCCTCGACCA
1 CGGCCTCGACCA
11964349 CGGCCTCGACCA
1 CGGCCTCGACCA
11964361 CGGCCTCGACCA
1 CGGCCTCGACCA
11964373 CGGCCTCGACCA
1 CGGCCTCGACCA
11964385 CGGCCTC
1 CGGCCTC
11964392 TTCCCCGAGT
Statistics
Matches: 43, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 43 1.00
ACGTcount: A:0.15, C:0.51, G:0.25, T:0.09
Consensus pattern (12 bp):
CGGCCTCGACCA
Found at i:11965831 original size:134 final size:137
Alignment explanation
Indices: 11965646--11965929 Score: 520
Period size: 134 Copynumber: 2.1 Consensus size: 137
11965636 CATTGGGCCT
**
11965646 AAGCCCATTCAGGTAACAGTGGTACTGGGCCAGAGCCCTTTTCAGATTACAATAAACTGGGCCTT
1 AAGCCCATTTGGGTAACAGTGGTACTGGGCCAGAGCCCTTTTCAGATTACAATAAACTGGGCCTT
11965711 AGCCCCTTATTCAGATAACAGTATGGCCCATAGGCCCATTTCAAAATACATGCAACATCAAT-AA
66 AGCCCCTTATTCAGATAACAGTATGGCCCATAGGCCCATTTCAAAATACATGCAACATCAATAAA
11965775 CATATGC
131 CATATGC
11965782 AAGCCCATTTGGGTAACAGT-GTACTGGGCCA-AGCCCTTTTCAGATTACAATAAACTGGGCCTT
1 AAGCCCATTTGGGTAACAGTGGTACTGGGCCAGAGCCCTTTTCAGATTACAATAAACTGGGCCTT
*
11965845 AGCCCCTTATTCAGATAACAGTATGGCCCATAGGCCCATTTCAAAATACATGCAACATCAGTAAA
66 AGCCCCTTATTCAGATAACAGTATGGCCCATAGGCCCATTTCAAAATACATGCAACATCAATAAA
11965910 CATATGC
131 CATATGC
11965917 AAGCCCATTTGGG
1 AAGCCCATTTGGG
11965930 GAGACTACTC
Statistics
Matches: 144, Mismatches: 3, Indels: 3
0.96 0.02 0.02
Matches are distributed among these distances:
134 93 0.65
135 33 0.23
136 18 0.12
ACGTcount: A:0.32, C:0.25, G:0.18, T:0.25
Consensus pattern (137 bp):
AAGCCCATTTGGGTAACAGTGGTACTGGGCCAGAGCCCTTTTCAGATTACAATAAACTGGGCCTT
AGCCCCTTATTCAGATAACAGTATGGCCCATAGGCCCATTTCAAAATACATGCAACATCAATAAA
CATATGC
Found at i:11967741 original size:26 final size:26
Alignment explanation
Indices: 11967683--11967791 Score: 175
Period size: 26 Copynumber: 4.2 Consensus size: 26
11967673 ACATGAATTC
11967683 TTATCATGAAACATTTACCTAA-CCA
1 TTATCATGAAACATTTACCTAACCCA
11967708 TTATCATGAAACATTTACCTAACCCA
1 TTATCATGAAACATTTACCTAACCCA
* * *
11967734 TTATCATGGAATATTTACCTAATCCA
1 TTATCATGAAACATTTACCTAACCCA
*
11967760 TTATCATGGAACATTTACCTAACCCA
1 TTATCATGAAACATTTACCTAACCCA
11967786 TTATCA
1 TTATCA
11967792 ATTTGTATCA
Statistics
Matches: 78, Mismatches: 5, Indels: 1
0.93 0.06 0.01
Matches are distributed among these distances:
25 22 0.28
26 56 0.72
ACGTcount: A:0.37, C:0.24, G:0.06, T:0.34
Consensus pattern (26 bp):
TTATCATGAAACATTTACCTAACCCA
Found at i:11971234 original size:26 final size:26
Alignment explanation
Indices: 11971198--11971332 Score: 227
Period size: 26 Copynumber: 5.2 Consensus size: 26
11971188 ACATGAATTC
11971198 TTATCATGAAACATTTACCTAACCCA
1 TTATCATGAAACATTTACCTAACCCA
11971224 TTATCATGAAACATTTACCTAACCCA
1 TTATCATGAAACATTTACCTAACCCA
* *
11971250 TTATCATGGAACATTTACCTAACCTA
1 TTATCATGAAACATTTACCTAACCCA
11971276 TTATCATG-AACATTTACCTAACCCA
1 TTATCATGAAACATTTACCTAACCCA
* *
11971301 TTATCATGGAACATTTACCTAACCTA
1 TTATCATGAAACATTTACCTAACCCA
11971327 TTATCA
1 TTATCA
11971333 ATTTGTATCA
Statistics
Matches: 104, Mismatches: 4, Indels: 2
0.95 0.04 0.02
Matches are distributed among these distances:
25 24 0.23
26 80 0.77
ACGTcount: A:0.36, C:0.25, G:0.05, T:0.33
Consensus pattern (26 bp):
TTATCATGAAACATTTACCTAACCCA
Found at i:11971309 original size:51 final size:52
Alignment explanation
Indices: 11971198--11971332 Score: 245
Period size: 51 Copynumber: 2.6 Consensus size: 52
11971188 ACATGAATTC
* *
11971198 TTATCATGAAACATTTACCTAACCCATTATCATGAAACATTTACCTAACCCA
1 TTATCATGGAACATTTACCTAACCTATTATCATGAAACATTTACCTAACCCA
11971250 TTATCATGGAACATTTACCTAACCTATTATCATG-AACATTTACCTAACCCA
1 TTATCATGGAACATTTACCTAACCTATTATCATGAAACATTTACCTAACCCA
11971301 TTATCATGGAACATTTACCTAACCTATTATCA
1 TTATCATGGAACATTTACCTAACCTATTATCA
11971333 ATTTGTATCA
Statistics
Matches: 81, Mismatches: 2, Indels: 1
0.96 0.02 0.01
Matches are distributed among these distances:
51 49 0.60
52 32 0.40
ACGTcount: A:0.36, C:0.25, G:0.05, T:0.33
Consensus pattern (52 bp):
TTATCATGGAACATTTACCTAACCTATTATCATGAAACATTTACCTAACCCA
Found at i:11979257 original size:41 final size:43
Alignment explanation
Indices: 11979156--11979405 Score: 143
Period size: 45 Copynumber: 5.6 Consensus size: 43
11979146 TATAGCTTCA
* * * * *
11979156 ATCTGTTCCACTGCAACTCCAGGGA-AATAAGATTTGCTATCTTTG
1 ATCTGCTCTACTGCAACTTCAGGGAGAA-AAGACTTG-T-TATTTG
* *
11979201 GTCTGCTCTGCTGCAACTTCAGGGAGAAAAGACTTG-T-TTTG
1 ATCTGCTCTACTGCAACTTCAGGGAGAAAAGACTTGTTATTTG
* * **
11979242 ATCTGCTCTACTGCAACTTTAGAGAGATGAGATCTGTGATTTATAGCTTCG
1 ATCTGCTCTACTGCAACTTCAGGGAGAAAAGA-CT-TG--TTAT---TT-G
* * * * * *
11979293 ATCTGTTCCACTACAATTTCAGGGA-AATAAGATTTGCTATCTCTG
1 ATCTGCTCTACTGCAACTTCAGGGAGAA-AAGACTTGTTAT-T-TG
* * *
11979338 GTCTGCTCCACTGCAACTTCAGGGAGATAAGACTTG-T-TTTG
1 ATCTGCTCTACTGCAACTTCAGGGAGAAAAGACTTGTTATTTG
*
11979379 ATCTGCTCTACTGCAACTTCAGAGAGA
1 ATCTGCTCTACTGCAACTTCAGGGAGA
11979406 TGAGATCTGT
Statistics
Matches: 160, Mismatches: 31, Indels: 32
0.72 0.14 0.14
Matches are distributed among these distances:
41 56 0.35
42 4 0.03
43 3 0.02
44 1 0.01
45 58 0.36
46 5 0.03
47 4 0.03
49 2 0.01
50 4 0.03
51 23 0.14
ACGTcount: A:0.26, C:0.21, G:0.21, T:0.33
Consensus pattern (43 bp):
ATCTGCTCTACTGCAACTTCAGGGAGAAAAGACTTGTTATTTG
Found at i:11979361 original size:137 final size:138
Alignment explanation
Indices: 11978965--11979422 Score: 747
Period size: 138 Copynumber: 3.3 Consensus size: 138
11978955 GGTTTGCTTC
* *
11978965 GATCTGCTCTACTACGACTTCAGAGAGAGGAGATCTGTGATTTTATAGCTTCAATCTGTTCCACT
1 GATCTGCTCTACTACAACTTCAGAGAGATGAGATCTGTGATTTTATAGCTTCAATCTGTTCCACT
* * *
11979030 ACAACTCCATGGAAATAAGATTTGCTATCTTTAGTCTACTCCACTGCAACTTCAGGGAGATAAGA
66 ACAACTCCAGGGAAATAAGATTTGCTATCTTTGGTCTGCTCCACTGCAACTTCAGGGAGATAAGA
11979095 CTTGTTTT
131 CTTGTTTT
* *
11979103 GATCTGCTCTACTACAACTTTAAAGAGATGAGATCTGTGATTTTATAGCTTCAATCTGTTCCACT
1 GATCTGCTCTACTACAACTTCAGAGAGATGAGATCTGTGATTTTATAGCTTCAATCTGTTCCACT
* ** *
11979168 GCAACTCCAGGGAAATAAGATTTGCTATCTTTGGTCTGCTCTGCTGCAACTTCAGGGAGAAAAGA
66 ACAACTCCAGGGAAATAAGATTTGCTATCTTTGGTCTGCTCCACTGCAACTTCAGGGAGATAAGA
11979233 CTTGTTTT
131 CTTGTTTT
* * *
11979241 GATCTGCTCTACTGCAACTTTAGAGAGATGAGATCTGTGA-TTTATAGCTTCGATCTGTTCCACT
1 GATCTGCTCTACTACAACTTCAGAGAGATGAGATCTGTGATTTTATAGCTTCAATCTGTTCCACT
* * *
11979305 ACAATTTCAGGGAAATAAGATTTGCTATCTCTGGTCTGCTCCACTGCAACTTCAGGGAGATAAGA
66 ACAACTCCAGGGAAATAAGATTTGCTATCTTTGGTCTGCTCCACTGCAACTTCAGGGAGATAAGA
11979370 CTTGTTTT
131 CTTGTTTT
*
11979378 GATCTGCTCTACTGCAACTTCAGAGAGATGAGATCTGTGATTTTA
1 GATCTGCTCTACTACAACTTCAGAGAGATGAGATCTGTGATTTTA
11979423 ATCTACTTTA
Statistics
Matches: 297, Mismatches: 22, Indels: 2
0.93 0.07 0.01
Matches are distributed among these distances:
137 128 0.43
138 169 0.57
ACGTcount: A:0.27, C:0.20, G:0.20, T:0.34
Consensus pattern (138 bp):
GATCTGCTCTACTACAACTTCAGAGAGATGAGATCTGTGATTTTATAGCTTCAATCTGTTCCACT
ACAACTCCAGGGAAATAAGATTTGCTATCTTTGGTCTGCTCCACTGCAACTTCAGGGAGATAAGA
CTTGTTTT
Found at i:11979406 original size:41 final size:44
Alignment explanation
Indices: 11979339--11979443 Score: 126
Period size: 41 Copynumber: 2.5 Consensus size: 44
11979329 CTATCTCTGG
* * *
11979339 TCTGCTCCACTGCAACTTCAGGGAGATAAGA-CT-TG-TTTTGA
1 TCTGCTCTACTGCAACTTCAGAGAGATAAGATCTGTGATTTTAA
*
11979380 TCTGCTCTACTGCAACTTCAGAGAGATGAGATCTGTGATTTTAA
1 TCTGCTCTACTGCAACTTCAGAGAGATAAGATCTGTGATTTTAA
* * *
11979424 TCTACTTTACTGAAACTTCA
1 TCTGCTCTACTGCAACTTCA
11979444 AGGAGATCTG
Statistics
Matches: 54, Mismatches: 7, Indels: 3
0.84 0.11 0.05
Matches are distributed among these distances:
41 28 0.52
42 2 0.04
43 2 0.04
44 22 0.41
ACGTcount: A:0.27, C:0.21, G:0.18, T:0.34
Consensus pattern (44 bp):
TCTGCTCTACTGCAACTTCAGAGAGATAAGATCTGTGATTTTAA
Found at i:11979441 original size:44 final size:41
Alignment explanation
Indices: 11979347--11979443 Score: 113
Period size: 44 Copynumber: 2.3 Consensus size: 41
11979337 GGTCTGCTCC
* * *
11979347 ACTGCAACTTCAGGGAGATAAGACTTGTTTTGATCTGCTCT
1 ACTGCAACTTCAGAGAGATAAGACTTGTTTTAATCTACTCT
* *
11979388 ACTGCAACTTCAGAGAGATGAGATCTGTGATTTTAATCTACTTT
1 ACTGCAACTTCAGAGAGATAAGA-CT-TG-TTTTAATCTACTCT
*
11979432 ACTGAAACTTCA
1 ACTGCAACTTCA
11979444 AGGAGATCTG
Statistics
Matches: 47, Mismatches: 6, Indels: 3
0.84 0.11 0.05
Matches are distributed among these distances:
41 21 0.45
42 2 0.04
43 2 0.04
44 22 0.47
ACGTcount: A:0.29, C:0.19, G:0.19, T:0.34
Consensus pattern (41 bp):
ACTGCAACTTCAGAGAGATAAGACTTGTTTTAATCTACTCT
Found at i:11995581 original size:16 final size:16
Alignment explanation
Indices: 11995560--11995591 Score: 50
Period size: 14 Copynumber: 2.1 Consensus size: 16
11995550 ATTTTTAAGG
11995560 TATATAT-AT-ATACA
1 TATATATAATAATACA
11995574 TATATATAATAATACA
1 TATATATAATAATACA
11995590 TA
1 TA
11995592 AAACATAGAA
Statistics
Matches: 16, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
14 7 0.44
15 2 0.12
16 7 0.44
ACGTcount: A:0.53, C:0.06, G:0.00, T:0.41
Consensus pattern (16 bp):
TATATATAATAATACA
Found at i:11998828 original size:136 final size:136
Alignment explanation
Indices: 11998584--11998868 Score: 525
Period size: 136 Copynumber: 2.1 Consensus size: 136
11998574 TATTGGGCCT
** * *
11998584 AAGCCCATTCAGGTAACAGTGGTACTGGGGCAGAGCCCTTTTCAGATTACAATAAACTGGGCCTT
1 AAGCCCATTTGGGTAACAGTGGTACTGGGCCAGAGCCCTTTTCAGATTACAATAAACTAGGCCTT
11998649 AGCCCCTTATTCAGATAACAGTATGGCCCATAGGCCCATTTCAAAATACATGCAACATCAATAAC
66 AGCCCCTTATTCAGATAACAGTATGGCCCATAGGCCCATTTCAAAATACATGCAACATCAATAAC
11998714 ATATGC
131 ATATGC
*
11998720 AAGCCCATTTGGGTAACAGTGGTACTGGGCCAGAGCCCTTTTCAGATTACAATAAACTAGGCTTT
1 AAGCCCATTTGGGTAACAGTGGTACTGGGCCAGAGCCCTTTTCAGATTACAATAAACTAGGCCTT
11998785 AGCCCCTTATTCAGATAACAGTATGGCCCATAGGCCCATTTCAAAATACATGCAACATCAATAAC
66 AGCCCCTTATTCAGATAACAGTATGGCCCATAGGCCCATTTCAAAATACATGCAACATCAATAAC
11998850 ATATGC
131 ATATGC
11998856 AAGCCCATTTGGG
1 AAGCCCATTTGGG
11998869 GAGACTACTC
Statistics
Matches: 144, Mismatches: 5, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
136 144 1.00
ACGTcount: A:0.32, C:0.25, G:0.19, T:0.25
Consensus pattern (136 bp):
AAGCCCATTTGGGTAACAGTGGTACTGGGCCAGAGCCCTTTTCAGATTACAATAAACTAGGCCTT
AGCCCCTTATTCAGATAACAGTATGGCCCATAGGCCCATTTCAAAATACATGCAACATCAATAAC
ATATGC
Found at i:11998904 original size:21 final size:21
Alignment explanation
Indices: 11998875--11998922 Score: 62
Period size: 21 Copynumber: 2.3 Consensus size: 21
11998865 TGGGGAGACT
*
11998875 ACTCAACCC-ACCAACCACTAC
1 ACTCCACCCTACCAACCA-TAC
*
11998896 ACTCCACCCTACCAGCCATAC
1 ACTCCACCCTACCAACCATAC
11998917 ACTCCA
1 ACTCCA
11998923 TGTGGGGAAT
Statistics
Matches: 24, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
21 17 0.71
22 7 0.29
ACGTcount: A:0.33, C:0.52, G:0.02, T:0.12
Consensus pattern (21 bp):
ACTCCACCCTACCAACCATAC
Found at i:12000690 original size:26 final size:26
Alignment explanation
Indices: 12000654--12000763 Score: 175
Period size: 26 Copynumber: 4.2 Consensus size: 26
12000644 CATGAATTTC
*
12000654 TTATCATGAAACATTTACCTAAACCA
1 TTATCATGAAACATTTACCTAACCCA
12000680 TTATCATGAAACATTTACCTAACCCA
1 TTATCATGAAACATTTACCTAACCCA
* * *
12000706 TTATCATGGAATATTTACCTAATCCA
1 TTATCATGAAACATTTACCTAACCCA
*
12000732 TTATCATGGAACATTTACCTAACCCA
1 TTATCATGAAACATTTACCTAACCCA
12000758 TTATCA
1 TTATCA
12000764 ATTTGTATCA
Statistics
Matches: 78, Mismatches: 6, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
26 78 1.00
ACGTcount: A:0.37, C:0.24, G:0.05, T:0.34
Consensus pattern (26 bp):
TTATCATGAAACATTTACCTAACCCA
Found at i:12001331 original size:28 final size:30
Alignment explanation
Indices: 12001286--12001343 Score: 93
Period size: 28 Copynumber: 2.0 Consensus size: 30
12001276 GACCAATGTG
*
12001286 TTTTTGTCTTTTCTTTTCCATCTGTTTTAT
1 TTTTTGTCTTTTCTTTTCCATCCGTTTTAT
12001316 TTTTTGTC-TTT-TTTTCCATCCGTTTTAT
1 TTTTTGTCTTTTCTTTTCCATCCGTTTTAT
12001344 CTCTTGTAAC
Statistics
Matches: 27, Mismatches: 1, Indels: 2
0.90 0.03 0.07
Matches are distributed among these distances:
28 16 0.59
29 3 0.11
30 8 0.30
ACGTcount: A:0.07, C:0.17, G:0.07, T:0.69
Consensus pattern (30 bp):
TTTTTGTCTTTTCTTTTCCATCCGTTTTAT
Found at i:12001350 original size:28 final size:30
Alignment explanation
Indices: 12001289--12001350 Score: 83
Period size: 28 Copynumber: 2.1 Consensus size: 30
12001279 CAATGTGTTT
* * *
12001289 TTGTCTTTTCTTTTCCATCTGTTTTATTTT
1 TTGTCTTTTCTTTTCCATCCGTTTTATCTC
12001319 TTGTC-TTT-TTTTCCATCCGTTTTATCTC
1 TTGTCTTTTCTTTTCCATCCGTTTTATCTC
12001347 TTGT
1 TTGT
12001351 AACATATAAG
Statistics
Matches: 29, Mismatches: 3, Indels: 2
0.85 0.09 0.06
Matches are distributed among these distances:
28 21 0.72
29 3 0.10
30 5 0.17
ACGTcount: A:0.06, C:0.19, G:0.08, T:0.66
Consensus pattern (30 bp):
TTGTCTTTTCTTTTCCATCCGTTTTATCTC
Found at i:12002020 original size:3 final size:3
Alignment explanation
Indices: 12002014--12002057 Score: 61
Period size: 3 Copynumber: 14.7 Consensus size: 3
12002004 CTCCTCGTCC
* * *
12002014 TCT TCT TTT TCT TCT TCT TCT TCT TCT TTT TCT TCT TCT ACT TC
1 TCT TCT TCT TCT TCT TCT TCT TCT TCT TCT TCT TCT TCT TCT TC
12002058 CTGTAATAGG
Statistics
Matches: 35, Mismatches: 6, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
3 35 1.00
ACGTcount: A:0.02, C:0.30, G:0.00, T:0.68
Consensus pattern (3 bp):
TCT
Found at i:12005371 original size:19 final size:18
Alignment explanation
Indices: 12005328--12005379 Score: 61
Period size: 18 Copynumber: 2.8 Consensus size: 18
12005318 CTTTTTACAA
*
12005328 ATTATTATTATTATTTTAC
1 ATTATTATTA-TACTTTAC
12005347 ATTATTATTATACTTTAC
1 ATTATTATTATACTTTAC
*
12005365 TTGTATTA-TATACTT
1 AT-TATTATTATACTT
12005380 ATTAATCATT
Statistics
Matches: 30, Mismatches: 2, Indels: 3
0.86 0.06 0.09
Matches are distributed among these distances:
18 15 0.50
19 15 0.50
ACGTcount: A:0.31, C:0.08, G:0.02, T:0.60
Consensus pattern (18 bp):
ATTATTATTATACTTTAC
Found at i:12008701 original size:25 final size:27
Alignment explanation
Indices: 12008664--12008716 Score: 74
Period size: 26 Copynumber: 2.0 Consensus size: 27
12008654 TCAAACATGC
12008664 ATTTAGGTCAATTTAAC-CCTAGGGGT
1 ATTTAGGTCAATTTAACTCCTAGGGGT
* *
12008690 ATTTCGGT-AATTTATCTCCTAGGGGT
1 ATTTAGGTCAATTTAACTCCTAGGGGT
12008716 A
1 A
12008717 AAACTGTAAA
Statistics
Matches: 24, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
25 7 0.29
26 17 0.71
ACGTcount: A:0.25, C:0.15, G:0.23, T:0.38
Consensus pattern (27 bp):
ATTTAGGTCAATTTAACTCCTAGGGGT
Found at i:12010234 original size:26 final size:26
Alignment explanation
Indices: 12010198--12010307 Score: 202
Period size: 26 Copynumber: 4.2 Consensus size: 26
12010188 ACATGAATTC
12010198 TTATCATGAAACATTTACCTAACCCA
1 TTATCATGAAACATTTACCTAACCCA
12010224 TTATCATGAAACATTTACCTAACCCA
1 TTATCATGAAACATTTACCTAACCCA
12010250 TTATCATGAAACATTTACCTAACCCA
1 TTATCATGAAACATTTACCTAACCCA
* *
12010276 TTATCATGGAACATTTACCTAACCTA
1 TTATCATGAAACATTTACCTAACCCA
12010302 TTATCA
1 TTATCA
12010308 ATTTGTATCA
Statistics
Matches: 82, Mismatches: 2, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
26 82 1.00
ACGTcount: A:0.37, C:0.25, G:0.05, T:0.33
Consensus pattern (26 bp):
TTATCATGAAACATTTACCTAACCCA
Found at i:12013291 original size:12 final size:13
Alignment explanation
Indices: 12013269--12013294 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
12013259 CATTCTTTAT
12013269 AAAATTTTTTTTG
1 AAAATTTTTTTTG
12013282 AAAATTTTTTTTG
1 AAAATTTTTTTTG
12013295 TAAACCCATT
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:0.31, C:0.00, G:0.08, T:0.62
Consensus pattern (13 bp):
AAAATTTTTTTTG
Found at i:12014483 original size:24 final size:26
Alignment explanation
Indices: 12014447--12014495 Score: 66
Period size: 25 Copynumber: 2.0 Consensus size: 26
12014437 TCAAACATGC
12014447 ATTTAGGTCAATTTAAC-CCTAGGGT
1 ATTTAGGTCAATTTAACTCCTAGGGT
* *
12014472 ATTTCGGT-AATTTATCTCCTAGGG
1 ATTTAGGTCAATTTAACTCCTAGGG
12014496 GTAAAACTGT
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
24 7 0.33
25 14 0.67
ACGTcount: A:0.24, C:0.16, G:0.20, T:0.39
Consensus pattern (26 bp):
ATTTAGGTCAATTTAACTCCTAGGGT
Found at i:12016020 original size:26 final size:26
Alignment explanation
Indices: 12015984--12016067 Score: 150
Period size: 26 Copynumber: 3.2 Consensus size: 26
12015974 CATGATATTC
12015984 TTATCATGAAACATTTACCTAACCCA
1 TTATCATGAAACATTTACCTAACCCA
12016010 TTATCATGAAACATTTACCTAACCCA
1 TTATCATGAAACATTTACCTAACCCA
* *
12016036 TTATCATGGAACATTTACCTAACCTA
1 TTATCATGAAACATTTACCTAACCCA
12016062 TTATCA
1 TTATCA
12016068 ATTTGTATCA
Statistics
Matches: 56, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
26 56 1.00
ACGTcount: A:0.37, C:0.25, G:0.05, T:0.33
Consensus pattern (26 bp):
TTATCATGAAACATTTACCTAACCCA
Found at i:12022410 original size:22 final size:22
Alignment explanation
Indices: 12022359--12022410 Score: 68
Period size: 22 Copynumber: 2.3 Consensus size: 22
12022349 AAACACTTTT
* *
12022359 TAATTTTTTTTAAATTTTTAAA
1 TAATTTTTTATAAATTTCTAAA
*
12022381 TAATTTTTTATAAATTTCTATA
1 TAATTTTTTATAAATTTCTAAA
12022403 TATATTTT
1 TA-ATTTT
12022411 AATTTTTTTT
Statistics
Matches: 26, Mismatches: 3, Indels: 1
0.87 0.10 0.03
Matches are distributed among these distances:
22 21 0.81
23 5 0.19
ACGTcount: A:0.35, C:0.02, G:0.00, T:0.63
Consensus pattern (22 bp):
TAATTTTTTATAAATTTCTAAA
Found at i:12023655 original size:2 final size:2
Alignment explanation
Indices: 12023650--12023687 Score: 76
Period size: 2 Copynumber: 19.0 Consensus size: 2
12023640 CCTTTCTCCG
12023650 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
12023688 TCAATCGTGA
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):
AT
Found at i:12024185 original size:31 final size:31
Alignment explanation
Indices: 12024119--12024190 Score: 85
Period size: 31 Copynumber: 2.3 Consensus size: 31
12024109 TATCATTTTT
* * *
12024119 TATATATTTTTGGAATCAGTTGATGTATTTC
1 TATATATGTTTGGAATCAGTTGATATATTTA
12024150 TATATATGTTTGGAATCA-TT-ATATATATATA
1 TATATATGTTTGGAATCAGTTGATATAT-T-TA
12024181 TATATATGTT
1 TATATATGTT
12024191 GTTTTCATTT
Statistics
Matches: 36, Mismatches: 3, Indels: 4
0.84 0.07 0.09
Matches are distributed among these distances:
29 5 0.14
30 3 0.08
31 28 0.78
ACGTcount: A:0.32, C:0.04, G:0.12, T:0.51
Consensus pattern (31 bp):
TATATATGTTTGGAATCAGTTGATATATTTA
Found at i:12024259 original size:18 final size:19
Alignment explanation
Indices: 12024236--12024279 Score: 56
Period size: 17 Copynumber: 2.4 Consensus size: 19
12024226 TTTTAATACA
*
12024236 TATATTTTGGTTTTTA-TT
1 TATATTTTGGTTTATACTT
12024254 TATA-TTTGGTTTATACTT
1 TATATTTTGGTTTATACTT
*
12024272 TTTATTTT
1 TATATTTT
12024280 TTTTAAAAAT
Statistics
Matches: 22, Mismatches: 2, Indels: 3
0.81 0.07 0.11
Matches are distributed among these distances:
17 10 0.45
18 9 0.41
19 3 0.14
ACGTcount: A:0.18, C:0.02, G:0.09, T:0.70
Consensus pattern (19 bp):
TATATTTTGGTTTATACTT
Found at i:12025246 original size:21 final size:21
Alignment explanation
Indices: 12025220--12025260 Score: 64
Period size: 21 Copynumber: 2.0 Consensus size: 21
12025210 ATCTGCTCAA
* *
12025220 ACTCCACCTGTTTTGGAGTAC
1 ACTCCACCTGCTGTGGAGTAC
12025241 ACTCCACCTGCTGTGGAGTA
1 ACTCCACCTGCTGTGGAGTA
12025261 TCGCTCGTCT
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
21 18 1.00
ACGTcount: A:0.20, C:0.29, G:0.22, T:0.29
Consensus pattern (21 bp):
ACTCCACCTGCTGTGGAGTAC
Found at i:12030025 original size:21 final size:21
Alignment explanation
Indices: 12029999--12030039 Score: 64
Period size: 21 Copynumber: 2.0 Consensus size: 21
12029989 ATCTGCTCAA
* *
12029999 ACTCCACCTGTTTTGGAGTAC
1 ACTCCACCTGCTGTGGAGTAC
12030020 ACTCCACCTGCTGTGGAGTA
1 ACTCCACCTGCTGTGGAGTA
12030040 TCGCTCGTCT
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
21 18 1.00
ACGTcount: A:0.20, C:0.29, G:0.22, T:0.29
Consensus pattern (21 bp):
ACTCCACCTGCTGTGGAGTAC
Found at i:12033357 original size:26 final size:26
Alignment explanation
Indices: 12033298--12033406 Score: 193
Period size: 26 Copynumber: 4.2 Consensus size: 26
12033288 TGATACAAAT
12033298 TGATAATAGGTTAGGTAAATG-TTCA
1 TGATAATAGGTTAGGTAAATGTTTCA
*
12033323 TGATAATAGGTTAGGTAAATGTTCCA
1 TGATAATAGGTTAGGTAAATGTTTCA
12033349 TGATAATAGGTTAGGTAAATGTTTCA
1 TGATAATAGGTTAGGTAAATGTTTCA
*
12033375 TGATAATGGGTTAGGTAAATGTTTCA
1 TGATAATAGGTTAGGTAAATGTTTCA
12033401 TGATAA
1 TGATAA
12033407 GAATTTCATG
Statistics
Matches: 80, Mismatches: 3, Indels: 1
0.95 0.04 0.01
Matches are distributed among these distances:
25 21 0.26
26 59 0.74
ACGTcount: A:0.35, C:0.05, G:0.24, T:0.37
Consensus pattern (26 bp):
TGATAATAGGTTAGGTAAATGTTTCA
Found at i:12035433 original size:137 final size:136
Alignment explanation
Indices: 12035188--12035473 Score: 536
Period size: 137 Copynumber: 2.1 Consensus size: 136
12035178 GAGTAGTCTC
*
12035188 CCCAAATGGGCTTGCATATGTTATTGATGTTGCATGTATTTTGAAATGGGCCTATGGGCCATACT
1 CCCAAATGGGCTTGCATATGTTACTGATGTTGCATGTATTTTGAAATGGGCCTATGGGCCATACT
12035253 GTTATCTGAATAAGGGGCTAAGGCCCAGTTTATTGTAATCTGAAAAGGGCTCTGGCCCAGTACCA
66 GTTATCTGAATAAGGGGCTAAGGCCCAGTTTATTGTAATCTGAAAAGGGCTCTGGCCCAGTACCA
12035318 CTGTTA
131 CTGTTA
12035324 CCCAAATGGGCTTGCATATGTTTACTGATGTTGCATGTATTTTGAAATGGGCCTATGGGCCATAC
1 CCCAAATGGGCTTGCATATG-TTACTGATGTTGCATGTATTTTGAAATGGGCCTATGGGCCATAC
12035389 TGTTATCTGAATAAGGGGCTAAGGCCCAGTTTATTGTAATCTGAAAAGGGCTCTGGCCCAGTACC
65 TGTTATCTGAATAAGGGGCTAAGGCCCAGTTTATTGTAATCTGAAAAGGGCTCTGGCCCAGTACC
12035454 ACTGTTA
130 ACTGTTA
**
12035461 CCTGAATGGGCTT
1 CCCAAATGGGCTT
12035474 AGGCCCAATA
Statistics
Matches: 146, Mismatches: 3, Indels: 1
0.97 0.02 0.01
Matches are distributed among these distances:
136 20 0.14
137 126 0.86
ACGTcount: A:0.24, C:0.19, G:0.25, T:0.31
Consensus pattern (136 bp):
CCCAAATGGGCTTGCATATGTTACTGATGTTGCATGTATTTTGAAATGGGCCTATGGGCCATACT
GTTATCTGAATAAGGGGCTAAGGCCCAGTTTATTGTAATCTGAAAAGGGCTCTGGCCCAGTACCA
CTGTTA
Found at i:12039291 original size:51 final size:51
Alignment explanation
Indices: 12039212--12039319 Score: 182
Period size: 51 Copynumber: 2.1 Consensus size: 51
12039202 TGATACAAAT
12039212 TGATAATAGGTTAGGTAAATGTTCATGATAATAGGTTAGGTAAATGTTCCA
1 TGATAATAGGTTAGGTAAATGTTCATGATAATAGGTTAGGTAAATGTTCCA
* *
12039263 TGATAAT-GGTTAGGTAAATGTTTCATGATAATGGGTTAGGTAAATGTTTCA
1 TGATAATAGGTTAGGTAAATG-TTCATGATAATAGGTTAGGTAAATGTTCCA
12039314 TGATAA
1 TGATAA
12039320 GAATTTCATG
Statistics
Matches: 54, Mismatches: 2, Indels: 2
0.93 0.03 0.03
Matches are distributed among these distances:
50 13 0.24
51 41 0.76
ACGTcount: A:0.34, C:0.05, G:0.24, T:0.37
Consensus pattern (51 bp):
TGATAATAGGTTAGGTAAATGTTCATGATAATAGGTTAGGTAAATGTTCCA
Found at i:12039306 original size:26 final size:26
Alignment explanation
Indices: 12039212--12039319 Score: 184
Period size: 25 Copynumber: 4.2 Consensus size: 26
12039202 TGATACAAAT
12039212 TGATAATAGGTTAGGTAAATG-TTCA
1 TGATAATAGGTTAGGTAAATGTTTCA
*
12039237 TGATAATAGGTTAGGTAAATGTTCCA
1 TGATAATAGGTTAGGTAAATGTTTCA
12039263 TGATAAT-GGTTAGGTAAATGTTTCA
1 TGATAATAGGTTAGGTAAATGTTTCA
*
12039288 TGATAATGGGTTAGGTAAATGTTTCA
1 TGATAATAGGTTAGGTAAATGTTTCA
12039314 TGATAA
1 TGATAA
12039320 GAATTTCATG
Statistics
Matches: 79, Mismatches: 2, Indels: 3
0.94 0.02 0.04
Matches are distributed among these distances:
25 45 0.57
26 34 0.43
ACGTcount: A:0.34, C:0.05, G:0.24, T:0.37
Consensus pattern (26 bp):
TGATAATAGGTTAGGTAAATGTTTCA
Found at i:12041345 original size:137 final size:136
Alignment explanation
Indices: 12041100--12041385 Score: 509
Period size: 137 Copynumber: 2.1 Consensus size: 136
12041090 GAGTAGTCTC
*
12041100 CCCAAATGGGCTTGCATATGTTATTGATGTTGCATGTATTTTGAAATGGGCCTATGGGCCATACT
1 CCCAAATGGGCTTGCATATGTTACTGATGTTGCATGTATTTTGAAATGGGCCTATGGGCCATACT
12041165 GTTATCTAAATAAGGGGCTAAGGCCCAGTTTATTGTAATCTGAAAAGGGCTCTGGCCCAGTACCA
66 GTTATCTAAATAAGGGGCTAAGGCCCAGTTTATTGTAATCTGAAAAGGGCTCTGGCCCAGTACCA
12041230 CTGTTA
131 CTGTTA
* *
12041236 CCCAAATGGGCTTGCATATGTTTACTGATGTTGCATGTATTTTGAAATGGGCCTATGGGTCATAT
1 CCCAAATGGGCTTGCATATG-TTACTGATGTTGCATGTATTTTGAAATGGGCCTATGGGCCATAC
*
12041301 TGTTATCTGAATAAGGGGCTAAGGCCCAGTTTATTGTAATCTGAAAAGGGCTCTGGCCCAGTACC
65 TGTTATCTAAATAAGGGGCTAAGGCCCAGTTTATTGTAATCTGAAAAGGGCTCTGGCCCAGTACC
12041366 ACTGTTA
130 ACTGTTA
**
12041373 CCTGAATGGGCTT
1 CCCAAATGGGCTT
12041386 AGGCCAATAG
Statistics
Matches: 143, Mismatches: 6, Indels: 1
0.95 0.04 0.01
Matches are distributed among these distances:
136 20 0.14
137 123 0.86
ACGTcount: A:0.25, C:0.18, G:0.25, T:0.32
Consensus pattern (136 bp):
CCCAAATGGGCTTGCATATGTTACTGATGTTGCATGTATTTTGAAATGGGCCTATGGGCCATACT
GTTATCTAAATAAGGGGCTAAGGCCCAGTTTATTGTAATCTGAAAAGGGCTCTGGCCCAGTACCA
CTGTTA
Found at i:12046102 original size:7 final size:7
Alignment explanation
Indices: 12046090--12046114 Score: 50
Period size: 7 Copynumber: 3.6 Consensus size: 7
12046080 CATGTATGAC
12046090 ATTTAAT
1 ATTTAAT
12046097 ATTTAAT
1 ATTTAAT
12046104 ATTTAAT
1 ATTTAAT
12046111 ATTT
1 ATTT
12046115 TTAATATTTG
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 18 1.00
ACGTcount: A:0.40, C:0.00, G:0.00, T:0.60
Consensus pattern (7 bp):
ATTTAAT
Found at i:12048581 original size:9 final size:9
Alignment explanation
Indices: 12048562--12048629 Score: 55
Period size: 9 Copynumber: 7.1 Consensus size: 9
12048552 CCAAAACTAA
12048562 TTTTAATTTT
1 TTTTAA-TTT
12048572 TTTTAATTT
1 TTTTAATTT
*
12048581 TTTTACTTT
1 TTTTAATTT
** *
12048590 TTAAAATAT
1 TTTTAATTT
12048599 TTTTAATATT
1 TTTTAAT-TT
12048609 TTTAATAATTT
1 TTT--TAATTT
*
12048620 TTTGAATTT
1 TTTTAATTT
12048629 T
1 T
12048630 AAAAATTAAT
Statistics
Matches: 46, Mismatches: 9, Indels: 7
0.74 0.15 0.11
Matches are distributed among these distances:
9 27 0.59
10 10 0.22
11 5 0.11
12 4 0.09
ACGTcount: A:0.28, C:0.01, G:0.01, T:0.69
Consensus pattern (9 bp):
TTTTAATTT
Found at i:12048761 original size:17 final size:19
Alignment explanation
Indices: 12048736--12048775 Score: 57
Period size: 17 Copynumber: 2.2 Consensus size: 19
12048726 AACATAAATT
*
12048736 TAAAGATTAAA-AAAAA-C
1 TAAAAATTAAATAAAAAGC
12048753 TAAAAATTAAATAAAAAGC
1 TAAAAATTAAATAAAAAGC
12048772 TAAA
1 TAAA
12048776 TAACTTAACA
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
17 10 0.50
18 5 0.25
19 5 0.25
ACGTcount: A:0.70, C:0.05, G:0.05, T:0.20
Consensus pattern (19 bp):
TAAAAATTAAATAAAAAGC
Found at i:12051204 original size:34 final size:33
Alignment explanation
Indices: 12051137--12051232 Score: 151
Period size: 34 Copynumber: 2.9 Consensus size: 33
12051127 AGCCCCCCAA
*
12051137 AAAAACCTAACCCCAAAAAAAAAG--AAAAAAG
1 AAAAACCTAACCCAAAAAAAAAAGAAAAAAAAG
12051168 AAAAACCTAACCCAAAAAAAAGAAGAAAAAAAAG
1 AAAAACCTAACCCAAAAAAAA-AAGAAAAAAAAG
*
12051202 AAAAACCTAACCCAAAAAAAAAATAAAAAAA
1 AAAAACCTAACCCAAAAAAAAAAGAAAAAAA
12051233 CCCTAGCCAC
Statistics
Matches: 60, Mismatches: 2, Indels: 4
0.91 0.03 0.06
Matches are distributed among these distances:
31 20 0.33
32 3 0.05
33 9 0.15
34 28 0.47
ACGTcount: A:0.74, C:0.17, G:0.05, T:0.04
Consensus pattern (33 bp):
AAAAACCTAACCCAAAAAAAAAAGAAAAAAAAG
Found at i:12051812 original size:24 final size:24
Alignment explanation
Indices: 12051735--12051822 Score: 70
Period size: 24 Copynumber: 3.6 Consensus size: 24
12051725 ATTTTATATA
* * *
12051735 TATTATGTATATATTTTTTAATGC
1 TATTATGTATATATTCTTAAATAC
* ** *
12051759 CATTA-GTTATATATTTCTTATGTATT
1 TATTATG-TATATA-TTCTTAAATA-C
12051785 TATTATGTATATATTCTTAAATAC
1 TATTATGTATATATTCTTAAATAC
*
12051809 TATTATATATATAT
1 TATTATGTATATAT
12051823 ATATATTTTA
Statistics
Matches: 48, Mismatches: 12, Indels: 8
0.71 0.18 0.12
Matches are distributed among these distances:
23 1 0.02
24 23 0.48
25 13 0.27
26 10 0.21
27 1 0.02
ACGTcount: A:0.33, C:0.06, G:0.06, T:0.56
Consensus pattern (24 bp):
TATTATGTATATATTCTTAAATAC
Found at i:12051941 original size:12 final size:12
Alignment explanation
Indices: 12051924--12051963 Score: 71
Period size: 12 Copynumber: 3.3 Consensus size: 12
12051914 TTTTATGTAC
12051924 ATATGTATATAT
1 ATATGTATATAT
12051936 ATATGTATATAT
1 ATATGTATATAT
*
12051948 ATATATATATAT
1 ATATGTATATAT
12051960 ATAT
1 ATAT
12051964 TTGTACATAT
Statistics
Matches: 27, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
12 27 1.00
ACGTcount: A:0.45, C:0.00, G:0.05, T:0.50
Consensus pattern (12 bp):
ATATGTATATAT
Found at i:12051975 original size:2 final size:2
Alignment explanation
Indices: 12051924--12051963 Score: 62
Period size: 2 Copynumber: 20.0 Consensus size: 2
12051914 TTTTATGTAC
* *
12051924 AT AT GT AT AT AT AT AT GT 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
12051964 TTGTACATAT
Statistics
Matches: 34, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
2 34 1.00
ACGTcount: A:0.45, C:0.00, G:0.05, T:0.50
Consensus pattern (2 bp):
AT
Found at i:12052013 original size:14 final size:15
Alignment explanation
Indices: 12051994--12052022 Score: 51
Period size: 15 Copynumber: 2.0 Consensus size: 15
12051984 ATTATTGTTG
12051994 TATA-TTTTTATGTA
1 TATATTTTTTATGTA
12052008 TATATTTTTTATGTA
1 TATATTTTTTATGTA
12052023 CGTTTCCTAA
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
14 4 0.29
15 10 0.71
ACGTcount: A:0.28, C:0.00, G:0.07, T:0.66
Consensus pattern (15 bp):
TATATTTTTTATGTA
Found at i:12052081 original size:37 final size:37
Alignment explanation
Indices: 12052039--12052140 Score: 93
Period size: 37 Copynumber: 2.6 Consensus size: 37
12052029 CTAATATTTT
12052039 CTTTTATTGTAGATATTATTATTATTATTAT-TACATA
1 CTTTTATT-TAGATATTATTATTATTATTATGTACATA
*
12052076 CTTTTATTATATGCATATATATATATGTATTTTTATGTACATA
1 CTTTTATT-TA-G-ATAT-TAT-TAT-TATTATTATGTACATA
*
12052119 -TTATTATTT-TATATTATTATTA
1 CTT-TTATTTAGATATTATTATTA
12052141 CCAAATATGT
Statistics
Matches: 55, Mismatches: 3, Indels: 15
0.75 0.04 0.21
Matches are distributed among these distances:
36 2 0.04
37 13 0.24
38 4 0.07
39 8 0.15
40 3 0.05
41 3 0.05
42 11 0.20
43 11 0.20
ACGTcount: A:0.32, C:0.05, G:0.05, T:0.58
Consensus pattern (37 bp):
CTTTTATTTAGATATTATTATTATTATTATGTACATA
Found at i:12053840 original size:12 final size:12
Alignment explanation
Indices: 12053823--12053858 Score: 63
Period size: 12 Copynumber: 3.0 Consensus size: 12
12053813 CATCATTTGA
12053823 CATTCATGCATT
1 CATTCATGCATT
12053835 CATTCATGCATT
1 CATTCATGCATT
*
12053847 CATTCATACATT
1 CATTCATGCATT
12053859 GCATATCCCA
Statistics
Matches: 23, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
12 23 1.00
ACGTcount: A:0.28, C:0.25, G:0.06, T:0.42
Consensus pattern (12 bp):
CATTCATGCATT
Found at i:12059165 original size:70 final size:69
Alignment explanation
Indices: 12059046--12059468 Score: 403
Period size: 71 Copynumber: 6.2 Consensus size: 69
12059036 GAGTTAAGCC
*
12059046 TTTT-AATTTTTGTTTTTCAAAATCAACTCATATTGCTAGAGGTGAGTTGAGCCTCGGGGCACGC
1 TTTTCAATTTTTG-TTTT--AAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCGGGGCACGC
12059110 TGAGGTA
63 TGAGGTA
* * ** * *
12059117 TTTTCAATTTTTGTGTTTTAATCAACTCATATTGCGAGAGATGAGTTGAGCCTCAAGACACGTTG
1 TTTTCAATTTTTGT-TTTAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCGGGGCACGCTG
12059182 AGGTA
65 AGGTA
* *
12059187 TTTTTAATTTTTGTTTTCAAAATCAACTCATATTGCGAGAAGTGAGTTGAGCCTCGGGGCACGCT
1 TTTTCAATTTTTGTTTT--AAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCGGGGCACGCT
12059252 GAGGTA
64 GAGGTA
* * * ** * * *
12059258 TTTTTAGTTTATGTTTTAAATTGACTCATATTGCGAGAGGTGAGTTAAGCCT---------TTTA
1 TTTTCAATTTTTGTTTTAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCGGGGCACGCTGA
12059314 ---A
66 GGTA
*** ** *
12059315 TTTTTGTTTTTCA----AAATCAACTCATATTGCTAGAGGTGAGTTGAGCCTCGGGGCACGCTGA
1 TTTTCAATTTTTGTTTTAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCGGGGCACGCTGA
12059376 GGTA
66 GGTA
* * *
12059380 TTTTCAATTTTTGTGTTTTAATTTCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGTCACGC
1 TTTTCAA-TTTT-TGTTTTAA-ATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCGGGGCACGC
12059445 TGAGGTA
63 TGAGGTA
*
12059452 TTTTCAATTTCTGTTTT
1 TTTTCAATTTTTGTTTT
12059469 CAATTTACGT
Statistics
Matches: 285, Mismatches: 44, Indels: 47
0.76 0.12 0.12
Matches are distributed among these distances:
53 31 0.11
57 9 0.03
60 2 0.01
62 2 0.01
65 5 0.02
66 4 0.01
69 34 0.12
70 64 0.22
71 70 0.25
72 64 0.22
ACGTcount: A:0.24, C:0.14, G:0.22, T:0.39
Consensus pattern (69 bp):
TTTTCAATTTTTGTTTTAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCGGGGCACGCTGA
GGTA
Found at i:12059354 original size:122 final size:124
Alignment explanation
Indices: 12059188--12059434 Score: 392
Period size: 122 Copynumber: 2.0 Consensus size: 124
12059178 GTTGAGGTAT
12059188 TTTTAATTTTTGTTTTCAAAATCAACTCATATTGCGAGAAGTGAGTTGAGCCTCGGGGCACGCTG
1 TTTTAATTTTTGTTTTCAAAATCAACTCATATTGCGAGAAGTGAGTTGAGCCTCGGGGCACGCTG
* *
12059253 AGGTATTTT-TA-GTTTATGTTTTAAATT-GACTCATATTGCGAGAGGTGAGTTAAGCC
66 AGGTATTTTCAATGTTTATGTTTTAAATTCAACTCATATTGCGAGAGGTGAGTTAAGCC
* *
12059309 TTTTAATTTTTGTTTTTCAAAATCAACTCATATTGCTAGAGGTGAGTTGAGCCTCGGGGCACGCT
1 TTTTAATTTTTG-TTTTCAAAATCAACTCATATTGCGAGAAGTGAGTTGAGCCTCGGGGCACGCT
* * * *
12059374 GAGGTATTTTCAATTTTTGTGTTTTAATTTCAACTCATATTGCGAGAGGTGAGTTGAGCC
65 GAGGTATTTTCAATGTTTATGTTTTAAATTCAACTCATATTGCGAGAGGTGAGTTAAGCC
12059434 T
1 T
12059435 CAGGTCACGC
Statistics
Matches: 114, Mismatches: 8, Indels: 4
0.90 0.06 0.03
Matches are distributed among these distances:
121 12 0.11
122 60 0.53
123 1 0.01
124 13 0.11
125 28 0.25
ACGTcount: A:0.24, C:0.14, G:0.23, T:0.39
Consensus pattern (124 bp):
TTTTAATTTTTGTTTTCAAAATCAACTCATATTGCGAGAAGTGAGTTGAGCCTCGGGGCACGCTG
AGGTATTTTCAATGTTTATGTTTTAAATTCAACTCATATTGCGAGAGGTGAGTTAAGCC
Found at i:12059399 original size:263 final size:257
Alignment explanation
Indices: 12058879--12059471 Score: 1042
Period size: 263 Copynumber: 2.3 Consensus size: 257
12058869 TTTCAAGGAA
*
12058879 AATCAACTCATATTGCGAGAGATGAGTTGAGCCTCAAGACACGTTGAGGTATTTTTAATTGTTGT
1 AATCAACTCATATTGCGAGAGATGAGTTGAGCCTCAAGACACGTTGAGGTATTTTTAATTTTTGT
12058944 TTTCAAAATCAACTCATATTGCGAGAAGTGAGTTGAGCCTCGGGACACGCTGAGGTATTTTTAGT
66 TTTCAAAATCAACTCATATTGCGAGAAGTGAGTTGAGCCTCGGGACACGCTGAGGTATTTTTAGT
12059009 TTTAAATTGACTCATATTGCGAGAGGTGAGTTAAGCCTTTTAATTTTTGTTTTTCAAAATCAACT
131 TTTAAATTGACTCATATTGCGAGAGGTGAGTTAAGCCTTTTAATTTTTGTTTTTCAAAATCAACT
12059074 CATATTGCTAGAGGTGAGTTGAGCCTCGGGGCACGCTGAGGTATTTTCAATTTTTGTGTTTT
196 CATATTGCTAGAGGTGAGTTGAGCCTCGGGGCACGCTGAGGTATTTTCAATTTTTGTGTTTT
12059136 AATCAACTCATATTGCGAGAGATGAGTTGAGCCTCAAGACACGTTGAGGTATTTTTAATTTTTGT
1 AATCAACTCATATTGCGAGAGATGAGTTGAGCCTCAAGACACGTTGAGGTATTTTTAATTTTTGT
*
12059201 TTTCAAAATCAACTCATATTGCGAGAAGTGAGTTGAGCCTCGGGGCACGCTGAGGTATTTTTAGT
66 TTTCAAAATCAACTCATATTGCGAGAAGTGAGTTGAGCCTCGGGACACGCTGAGGTA---TT--T
12059266 TTATGTTTTAAATTGACTCATATTGCGAGAGGTGAGTTAAGCCTTTTAATTTTTGTTTTTCAAAA
126 TTA-GTTTTAAATTGACTCATATTGCGAGAGGTGAGTTAAGCCTTTTAATTTTTGTTTTTCAAAA
12059331 TCAACTCATATTGCTAGAGGTGAGTTGAGCCTCGGGGCACGCTGAGGTATTTTCAATTTTTGTGT
190 TCAACTCATATTGCTAGAGGTGAGTTGAGCCTCGGGGCACGCTGAGGTATTTTCAATTTTTGTGT
12059396 TTT
255 TTT
* * * * * *
12059399 AATTTCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGTCACGCTGAGGTATTTTCAATTTCT
1 AA--TCAACTCATATTGCGAGAGATGAGTTGAGCCTCAAGACACGTTGAGGTATTTTTAATTTTT
12059464 GTTTTCAA
64 GTTTTCAA
12059472 TTTACGTTGT
Statistics
Matches: 320, Mismatches: 8, Indels: 8
0.95 0.02 0.02
Matches are distributed among these distances:
257 120 0.38
260 2 0.01
262 4 0.01
263 131 0.41
265 63 0.20
ACGTcount: A:0.26, C:0.15, G:0.23, T:0.37
Consensus pattern (257 bp):
AATCAACTCATATTGCGAGAGATGAGTTGAGCCTCAAGACACGTTGAGGTATTTTTAATTTTTGT
TTTCAAAATCAACTCATATTGCGAGAAGTGAGTTGAGCCTCGGGACACGCTGAGGTATTTTTAGT
TTTAAATTGACTCATATTGCGAGAGGTGAGTTAAGCCTTTTAATTTTTGTTTTTCAAAATCAACT
CATATTGCTAGAGGTGAGTTGAGCCTCGGGGCACGCTGAGGTATTTTCAATTTTTGTGTTTT
Found at i:12059430 original size:72 final size:71
Alignment explanation
Indices: 12059309--12059474 Score: 244
Period size: 72 Copynumber: 2.3 Consensus size: 71
12059299 GAGTTAAGCC
** * *
12059309 TTTT-AATTTTTGTTTTTCAAAATCAACTCATATTGCTAGAGGTGAGTTGAGCCTCGGGGCACGC
1 TTTTCAATTTTTGTTTTT-AATTTCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGGCACGC
12059373 TGAGGTA
65 TGAGGTA
*
12059380 TTTTCAATTTTTGTGTTTTAATTTCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGTCACGC
1 TTTTCAATTTTTGT-TTTTAATTTCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGGCACGC
12059445 TGAGGTA
65 TGAGGTA
* *
12059452 TTTTCAATTTCTGTTTTCAATTT
1 TTTTCAATTTTTGTTTTTAATTT
12059475 ACGTTGTTCA
Statistics
Matches: 86, Mismatches: 7, Indels: 4
0.89 0.07 0.04
Matches are distributed among these distances:
71 12 0.14
72 70 0.81
73 4 0.05
ACGTcount: A:0.22, C:0.15, G:0.21, T:0.42
Consensus pattern (71 bp):
TTTTCAATTTTTGTTTTTAATTTCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGGCACGCT
GAGGTA
Found at i:12059805 original size:74 final size:76
Alignment explanation
Indices: 12059699--12059843 Score: 224
Period size: 74 Copynumber: 1.9 Consensus size: 76
12059689 TTTTTGCCTT
*
12059699 TCAAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAG--GACACG-CTGAGGTAATTT
1 TCAAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGATCACACGTC-GAGGTAATTT
12059761 CAATTTCTGTTG
65 CAATTTCTGTTG
* * *
12059773 TCAAAAAAGTCAACTCGTATTGCGAGAGGTGAGTTGAGCCTCAGATCACACGTCGAGGTATTTTC
1 TCAAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGATCACACGTCGAGGTAATTTC
12059838 AATTTC
66 AATTTC
12059844 CATTTTTCAA
Statistics
Matches: 64, Mismatches: 4, Indels: 4
0.89 0.06 0.06
Matches are distributed among these distances:
74 42 0.66
76 21 0.33
77 1 0.02
ACGTcount: A:0.30, C:0.19, G:0.23, T:0.28
Consensus pattern (76 bp):
TCAAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGATCACACGTCGAGGTAATTTC
AATTTCTGTTG
Found at i:12059811 original size:165 final size:166
Alignment explanation
Indices: 12059539--12060016 Score: 714
Period size: 165 Copynumber: 2.9 Consensus size: 166
12059529 CTACTTTTTC
12059539 AAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACACGCTGAGGTAATTTCAATTTCT
1 AAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACACGCTGAGGTAATTTCAATTTCT
* * *
12059604 GTTGTCAAAAAAATCAACTCGTATTGCGAGTGGCGAGTTGAGCCTCAGGTCACACGCCGAGGTAT
66 GTTGTCAAAAAAATCAACTCGTATTGCGAGAGGTGAGTTGAGCCTCAGGTCACACGTCGAGGTAT
* *
12059669 TTTCAATTTCCGTTTTTCAATTTTTGCCTTTC-AAA
131 TTTCAATTTCCGTTTTTCAATTTCTGCATTTCAAAA
12059704 AAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACACGCTGAGGTAATTTCAATTTCT
1 AAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACACGCTGAGGTAATTTCAATTTCT
* *
12059769 GTTGTCAAAAAAGTCAACTCGTATTGCGAGAGGTGAGTTGAGCCTCAGATCACACGTCGAGGTAT
66 GTTGTCAAAAAAATCAACTCGTATTGCGAGAGGTGAGTTGAGCCTCAGGTCACACGTCGAGGTAT
*
12059834 TTTCAATTTCCATTTTTCAATTTCTGCATTTCAAAAAAAAA
131 TTTCAATTTCCGTTTTTCAATTTCTGCATTTC-----AAAA
*
12059875 AAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCGGGACACGCTGAGGTAATTTCAATTTCT
1 AAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACACGCTGAGGTAATTTCAATTTCT
* * * * ** * *
12059940 GTTTTC--AAAATTCAACTCATATTGTGAGAAATGAGTTGAGCCTCAAG--ACACGTTGAGGTAT
66 GTTGTCAAAAAAATCAACTCGTATTGCGAGAGGTGAGTTGAGCCTCAGGTCACACGTCGAGGTAT
*
12060001 TTTCAATTTCTGTTTT
131 TTTCAATTTCCGTTTT
12060017 CAAAAAATCA
Statistics
Matches: 287, Mismatches: 20, Indels: 10
0.91 0.06 0.03
Matches are distributed among these distances:
165 154 0.54
167 27 0.09
169 34 0.12
171 72 0.25
ACGTcount: A:0.29, C:0.18, G:0.21, T:0.32
Consensus pattern (166 bp):
AAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACACGCTGAGGTAATTTCAATTTCT
GTTGTCAAAAAAATCAACTCGTATTGCGAGAGGTGAGTTGAGCCTCAGGTCACACGTCGAGGTAT
TTTCAATTTCCGTTTTTCAATTTCTGCATTTCAAAA
Found at i:12059957 original size:72 final size:73
Alignment explanation
Indices: 12059873--12060379 Score: 406
Period size: 72 Copynumber: 6.5 Consensus size: 73
12059863 TTCAAAAAAA
*
12059873 AAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCGGGACACGCTGAGGTAATTTCAATTT
1 AAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCGGGACACGCTGAGGTATTTTCAATTT
12059938 CTGTTTTC
66 CTGTTTTC
* * ** ** *
12059946 -AAAATTCAACTCATATTGTGAGAAATGAGTTGAGCCTCAAGACACGTTGAGGTATTTTCAATTT
1 AAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCGGGACACGCTGAGGTATTTTCAATTT
12060010 CTGTTTTC
66 CTGTTTTC
* * * ** *
12060018 AAAAAATCAACTTATATTGCGAGAGGTGAGTTGACCCTTGGCTCATGCGCTGAGCTATTTTCAAT
1 AAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCGGGACA--CGCTGAGGTATTTTCAAT
*
12060083 TTCTATCTTTC
64 TTCTGT-TTTC
* ** *
12060094 AAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCTTCAGATCACACACTGAGGTATTTTTTC
1 -AAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTC-G-GGACACGCTGAGGTA--TTTTC
* *
12060159 AATTTATATTTTTC
61 AATTTCT-GTTTTC
* * *
12060173 AAAAAAATCAACTCACATTGCGAGATGTGAGTTGAGCCTCGGGTTACATG-TCGAGGTATTTTCA
1 -AAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCGGG--ACACGCT-GAGGTATTTTCA
**
12060237 AAATCTGTTTTTC
62 ATTTCTG-TTTTC
* * **
12060250 AAATTCTGTTTTCAAAAATCAACTCATATTGCGAGAAGTGAGTTGAGCCTTGGCTCACGTGCTGA
1 --A----------AAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCGGGACAC--GCTGA
*
12060315 GCTATTTTCAATTTCTGTTTTTTTTTC
52 GGTATTTTCAATTTCTG-----TTTTC
12060342 AAAAAAATTCAACTCATATTGCGAGAGGTGAGTTGAGC
1 -AAAAAA-TCAACTCATATTGCGAGAGGTGAGTTGAGC
12060380 TTTTTAATTT
Statistics
Matches: 348, Mismatches: 53, Indels: 57
0.76 0.12 0.12
Matches are distributed among these distances:
72 64 0.18
73 33 0.09
75 21 0.06
76 4 0.01
77 57 0.16
78 5 0.01
79 64 0.18
80 1 0.00
81 5 0.01
82 29 0.08
86 2 0.01
88 54 0.16
89 1 0.00
91 2 0.01
92 6 0.02
ACGTcount: A:0.29, C:0.17, G:0.19, T:0.35
Consensus pattern (73 bp):
AAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCGGGACACGCTGAGGTATTTTCAATTT
CTGTTTTC
Found at i:12060196 original size:79 final size:76
Alignment explanation
Indices: 12059872--12060589 Score: 427
Period size: 88 Copynumber: 9.0 Consensus size: 76
12059862 TTTCAAAAAA
** *
12059872 AAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTC-G-GGACACGCTGAGGTAATTTCAA
1 AAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGATCACACGCTGAGGTATTTTCAA
12059935 TTTCTGTTTTC
66 TTTCTGTTTTC
* * ** * *
12059946 --AAAATTCAACTCATATTGTGAGAAATGAGTTGAGCCTCA-A-GACACGTTGAGGTATTTTCAA
1 AAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGATCACACGCTGAGGTATTTTCAA
12060007 TTTCTGTTTTC
66 TTTCTGTTTTC
* * ** * ** *
12060018 -AAAAAATCAACTTATATTGCGAGAGGTGAGTTGACCCTTGGCTCATGCGCTGAGCTATTTTCAA
1 AAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGATCACACGCTGAGGTATTTTCAA
*
12060082 TTTCTATCTTTC
66 TTTCTGT-TTTC
* *
12060094 AAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCTTCAGATCACACACTGAGGTATTTTTTC
1 AAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGATCACACGCTGAGGTA--TTTTC
* *
12060159 AATTTATATTTTTC
64 AATTTCT-GTTTTC
* * * * * *
12060173 AAAAAAATCAACTCACATTGCGAGATGTGAGTTGAGCCTCGGGTTACATG-TCGAGGTATTTTCA
1 AAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGATCACACGCT-GAGGTATTTTCA
**
12060237 AAATCTGTTTTTC
65 ATTTCTG-TTTTC
* ** * **
12060250 AAATTCTGTTTTCAAAAATCAACTCATATTGCGAGAAGTGAGTTGAGCCTTGGCTCACGTGCTGA
1 -AA----------AAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGATCACACGCTGA
*
12060315 GCTATTTTCAATTTCTGTTTTTTTTTC
55 GGTATTTTCAATTTCTG-----TTTTC
* * * * * *
12060342 AAAAAAATTCAACTCATATTGCGAGAGGTGAGTTGAGCTTTTTA-ATTTCTGCGAGAGTTGAGTT
1 AAAAAAA-TCAACTCATATTGCGAGAGGTGAGTTGAGC--CTCAGA--TC-AC-A-CGCTGAGGT
*
12060406 GAGTCTTTTAATTTCTGTTTTTC
58 -A-T-TTTCAATTTCTG-TTTTC
* **
12060429 --AAAAATCAACTCATATTGCGAGAGGTGAGTTGAACCTCCAG-TCACA-TATCGAGGTATTTTC
1 AAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCT-CAGATCACACGCT-GAGGTATTTTC
**
12060490 AAAATCTGCTTTTC
64 AATTTCTG-TTTTC
** * *
12060504 AAGTTAAGTTTCAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTTGGCTCACGCGCTGA
1 ------A-----AAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGATCACACGCTGA
*
12060569 GCTATTTTCAATTTCTGTTTT
55 GGTATTTTCAATTTCTGTTTT
12060590 TAATGTCTGT
Statistics
Matches: 503, Mismatches: 84, Indels: 101
0.73 0.12 0.15
Matches are distributed among these distances:
72 64 0.13
73 31 0.06
75 36 0.07
76 5 0.01
77 63 0.13
78 7 0.01
79 64 0.13
80 2 0.00
81 7 0.01
82 30 0.06
83 1 0.00
84 31 0.06
85 7 0.01
86 1 0.00
87 11 0.02
88 120 0.24
89 3 0.01
90 1 0.00
91 13 0.03
92 6 0.01
ACGTcount: A:0.29, C:0.17, G:0.19, T:0.36
Consensus pattern (76 bp):
AAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGATCACACGCTGAGGTATTTTCAA
TTTCTGTTTTC
Found at i:12060250 original size:14 final size:13
Alignment explanation
Indices: 12060231--12060266 Score: 54
Period size: 14 Copynumber: 2.7 Consensus size: 13
12060221 TGTCGAGGTA
12060231 TTTTCAAAATCTG
1 TTTTCAAAATCTG
*
12060244 TTTTTCAAATTCTG
1 -TTTTCAAAATCTG
12060258 TTTTCAAAA
1 TTTTCAAAA
12060267 ATCAACTCAT
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
13 8 0.40
14 12 0.60
ACGTcount: A:0.31, C:0.14, G:0.06, T:0.50
Consensus pattern (13 bp):
TTTTCAAAATCTG
Found at i:12060397 original size:30 final size:30
Alignment explanation
Indices: 12060361--12060422 Score: 99
Period size: 30 Copynumber: 2.1 Consensus size: 30
12060351 CAACTCATAT
12060361 TGCGAGAGGTGAGTTGAG-CTTTTTAATTTC
1 TGCGAGAGGTGAGTTGAGTC-TTTTAATTTC
*
12060391 TGCGAGAGTTGAGTTGAGTCTTTTAATTTC
1 TGCGAGAGGTGAGTTGAGTCTTTTAATTTC
12060421 TG
1 TG
12060423 TTTTTCAAAA
Statistics
Matches: 30, Mismatches: 1, Indels: 2
0.91 0.03 0.06
Matches are distributed among these distances:
30 29 0.97
31 1 0.03
ACGTcount: A:0.19, C:0.10, G:0.29, T:0.42
Consensus pattern (30 bp):
TGCGAGAGGTGAGTTGAGTCTTTTAATTTC
Done.