Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Dt_chr1
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: 96304692
ACGTcount: A:0.32, C:0.17, G:0.17, T:0.32
Warning! 2448173 characters in sequence are not A, C, G, or T
File 203 of 313
Found at i:62247941 original size:15 final size:15
Alignment explanation
Indices: 62247921--62247949 Score: 58
Period size: 15 Copynumber: 1.9 Consensus size: 15
62247911 GCAGGCTAAG
62247921 TGCCGGTGAACTGAC
1 TGCCGGTGAACTGAC
62247936 TGCCGGTGAACTGA
1 TGCCGGTGAACTGA
62247950 ATCAGGCTAT
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:0.21, C:0.24, G:0.34, T:0.21
Consensus pattern (15 bp):
TGCCGGTGAACTGAC
Found at i:62247996 original size:41 final size:41
Alignment explanation
Indices: 62247949--62248068 Score: 159
Period size: 41 Copynumber: 2.9 Consensus size: 41
62247939 CGGTGAACTG
62247949 AATCAGGCTATAAGCCTAGCAGGCTAAGTGCCAGTGATCTA
1 AATCAGGCTATAAGCCTAGCAGGCTAAGTGCCAGTGATCTA
* * * * *
62247990 AATCAGGTTATAAGCCTAGCAAGCTAAGTGTCGGTGATCTG
1 AATCAGGCTATAAGCCTAGCAGGCTAAGTGCCAGTGATCTA
* * *
62248031 AATCAAGCTTTAAGCCTAACAGGGCTAAGTGCCAGTGA
1 AATCAGGCTATAAGCCTAGCA-GGCTAAGTGCCAGTGA
62248069 ATCAGTTTAA
Statistics
Matches: 66, Mismatches: 12, Indels: 1
0.84 0.15 0.01
Matches are distributed among these distances:
41 53 0.80
42 13 0.20
ACGTcount: A:0.32, C:0.20, G:0.25, T:0.23
Consensus pattern (41 bp):
AATCAGGCTATAAGCCTAGCAGGCTAAGTGCCAGTGATCTA
Found at i:62249656 original size:253 final size:252
Alignment explanation
Indices: 62249184--62249663 Score: 716
Period size: 253 Copynumber: 1.9 Consensus size: 252
62249174 GGGTGTTACA
62249184 CCTTAAGTGTAGTATTTTGGTATAAGTACACCTGTAATTTTTCGAACAGATTGATTAATAAAATT
1 CCTTAAGTGTAGTATTTTGGTATAAGTACACCTGTAATTTTTCGAACAGATTGATTAATAAAATT
* *
62249249 ATTCATGAATTACATTAATACTTTGTATTATTGTTCTCAAATAATTTTTGTACACAAAGCAAAAT
66 ATTCATGAATTACATCAATACTTTGTATTATTGTTCTCAAATAATTTTTGCACACAAAGCAAAAT
* * * *
62249314 GAAAGCAAATGTTGCTCAATGGTTGTTTAATGTTTAACTAATATTAAGCAGTATTACGTGATTGG
131 GAAAGCAAATGTCGCTCAATGGTTGTCTAATGTTTAACTAATAGTAAGCAGTATTACATGATTGG
62249379 ATTGTAATACAGAAAGACAACTTATATTAGTAGACGAGTCTAATGTTGGATTTGGTG
196 ATTGTAATACAGAAAGACAACTTATATTAGTAGACGAGTCTAATGTTGGATTTGGTG
* *
62249436 CCTTAAGTGTAGTATGTTT-GTCTAAGTACACTTGTAATTATTTCGAACAGATTGATTAATAAAA
1 CCTTAAGTGTAGTAT-TTTGGTATAAGTACACCTGTAATT-TTTCGAACAGATTGATTAATAAAA
* * * * ** *
62249500 TTATTCATGAATTGCATCAATATTTTGTA-TATTTTTCTCACATGGTTTTTGCACGCAAAGCAAA
64 TTATTCATGAATTACATCAATACTTTGTATTATTGTTCTCAAATAATTTTTGCACACAAAGCAAA
* * *
62249564 ATGGAAA-CAAATGTCGTTCACTGGTTGTCTAATGTTTAACTAATTAGTAAGCAGTATTACATGG
129 AT-GAAAGCAAATGTCGCTCAATGGTTGTCTAATGTTTAACTAA-TAGTAAGCAGTATTACATGA
*
62249628 TTGG-TTCGTAATATAGAAAGACAACTTATATTAGTA
192 TTGGATT-GTAATACAGAAAGACAACTTATATTAGTA
62249664 AACAAACGTA
Statistics
Matches: 204, Mismatches: 19, Indels: 9
0.88 0.08 0.04
Matches are distributed among these distances:
252 98 0.48
253 106 0.52
ACGTcount: A:0.34, C:0.11, G:0.16, T:0.38
Consensus pattern (252 bp):
CCTTAAGTGTAGTATTTTGGTATAAGTACACCTGTAATTTTTCGAACAGATTGATTAATAAAATT
ATTCATGAATTACATCAATACTTTGTATTATTGTTCTCAAATAATTTTTGCACACAAAGCAAAAT
GAAAGCAAATGTCGCTCAATGGTTGTCTAATGTTTAACTAATAGTAAGCAGTATTACATGATTGG
ATTGTAATACAGAAAGACAACTTATATTAGTAGACGAGTCTAATGTTGGATTTGGTG
Found at i:62252905 original size:21 final size:21
Alignment explanation
Indices: 62252880--62252925 Score: 65
Period size: 21 Copynumber: 2.2 Consensus size: 21
62252870 CAAACAAACG
*
62252880 AAAATATTAAAATATTAAAAT
1 AAAATATTAAAAAATTAAAAT
* *
62252901 AAAATTTTAAAAAATTAAATT
1 AAAATATTAAAAAATTAAAAT
62252922 AAAA
1 AAAA
62252926 AATGGCTAAA
Statistics
Matches: 22, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
21 22 1.00
ACGTcount: A:0.67, C:0.00, G:0.00, T:0.33
Consensus pattern (21 bp):
AAAATATTAAAAAATTAAAAT
Found at i:62274383 original size:9 final size:9
Alignment explanation
Indices: 62274325--62274382 Score: 80
Period size: 9 Copynumber: 6.4 Consensus size: 9
62274315 GTAGTGATTC
*
62274325 AATTTGGTT
1 AATTCGGTT
62274334 AATTCGGTT
1 AATTCGGTT
*
62274343 AATTCGGGT
1 AATTCGGTT
*
62274352 AATTCGGGT
1 AATTCGGTT
62274361 AATTCGGTT
1 AATTCGGTT
*
62274370 AATTTGGTT
1 AATTCGGTT
62274379 AATT
1 AATT
62274383 TTTAACCAAA
Statistics
Matches: 45, Mismatches: 4, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
9 45 1.00
ACGTcount: A:0.24, C:0.07, G:0.24, T:0.45
Consensus pattern (9 bp):
AATTCGGTT
Found at i:62284168 original size:13 final size:13
Alignment explanation
Indices: 62284150--62284179 Score: 60
Period size: 13 Copynumber: 2.3 Consensus size: 13
62284140 AGCCCAAACT
62284150 CAATTACCCAACC
1 CAATTACCCAACC
62284163 CAATTACCCAACC
1 CAATTACCCAACC
62284176 CAAT
1 CAAT
62284180 AAAACTAAAA
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 17 1.00
ACGTcount: A:0.40, C:0.43, G:0.00, T:0.17
Consensus pattern (13 bp):
CAATTACCCAACC
Found at i:62284337 original size:9 final size:9
Alignment explanation
Indices: 62284321--62284359 Score: 53
Period size: 9 Copynumber: 4.4 Consensus size: 9
62284311 AATAAAAAAA
62284321 AATT-GGGT
1 AATTCGGGT
62284329 AATTCGGGT
1 AATTCGGGT
*
62284338 AATTCAGGT
1 AATTCGGGT
*
62284347 AATTCGAGT
1 AATTCGGGT
62284356 AATT
1 AATT
62284360 TTTAACCAAA
Statistics
Matches: 27, Mismatches: 3, Indels: 1
0.87 0.10 0.03
Matches are distributed among these distances:
8 4 0.15
9 23 0.85
ACGTcount: A:0.31, C:0.08, G:0.26, T:0.36
Consensus pattern (9 bp):
AATTCGGGT
Found at i:62295561 original size:17 final size:17
Alignment explanation
Indices: 62295539--62295575 Score: 74
Period size: 17 Copynumber: 2.2 Consensus size: 17
62295529 TGGAACTTAC
62295539 GGTGGTAGGTCAGTTGG
1 GGTGGTAGGTCAGTTGG
62295556 GGTGGTAGGTCAGTTGG
1 GGTGGTAGGTCAGTTGG
62295573 GGT
1 GGT
62295576 TCAAATGGGA
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
17 20 1.00
ACGTcount: A:0.11, C:0.05, G:0.54, T:0.30
Consensus pattern (17 bp):
GGTGGTAGGTCAGTTGG
Found at i:62304125 original size:41 final size:37
Alignment explanation
Indices: 62304023--62304128 Score: 104
Period size: 37 Copynumber: 2.8 Consensus size: 37
62304013 AATTCGAAAT
* **
62304023 AGTAAATTGACACCCTGTGTCTCATCGGTTAAACCGA
1 AGTAAATTGACACCCAGTGTCTCATCGAATAAACCGA
* * * * *
62304060 AGTAAGTTGGCACTCAGTGCCTCATTGAATAAACCTGA
1 AGTAAATTGACACCCAGTGTCTCATCGAATAAACC-GA
62304098 AGTAATAAATTGACACCCAGTGTCTCATCGA
1 AG---TAAATTGACACCCAGTGTCTCATCGA
62304129 CTCGAAGTCG
Statistics
Matches: 52, Mismatches: 13, Indels: 4
0.75 0.19 0.06
Matches are distributed among these distances:
37 27 0.52
38 4 0.08
41 21 0.40
ACGTcount: A:0.32, C:0.23, G:0.19, T:0.26
Consensus pattern (37 bp):
AGTAAATTGACACCCAGTGTCTCATCGAATAAACCGA
Found at i:62308232 original size:34 final size:34
Alignment explanation
Indices: 62308194--62308261 Score: 118
Period size: 34 Copynumber: 2.0 Consensus size: 34
62308184 TCAATTGACA
*
62308194 AAGTTGGAAATATCAAATGTCATGGCCTTGACTT
1 AAGTTGGAAATATCAAATGCCATGGCCTTGACTT
*
62308228 AAGTTGGAAATATCAAATGCCATGGTCTTGACTT
1 AAGTTGGAAATATCAAATGCCATGGCCTTGACTT
62308262 GCAATCTCTC
Statistics
Matches: 32, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
34 32 1.00
ACGTcount: A:0.32, C:0.15, G:0.21, T:0.32
Consensus pattern (34 bp):
AAGTTGGAAATATCAAATGCCATGGCCTTGACTT
Found at i:62308595 original size:15 final size:15
Alignment explanation
Indices: 62308567--62308602 Score: 56
Period size: 15 Copynumber: 2.4 Consensus size: 15
62308557 GAGAAAAAAT
62308567 AAATATAAATTATAA
1 AAATATAAATTATAA
62308582 AAATAGTAAA-TATAA
1 AAATA-TAAATTATAA
62308597 AAATAT
1 AAATAT
62308603 TTTAAAGATT
Statistics
Matches: 20, Mismatches: 0, Indels: 3
0.87 0.00 0.13
Matches are distributed among these distances:
14 1 0.05
15 15 0.75
16 4 0.20
ACGTcount: A:0.67, C:0.00, G:0.03, T:0.31
Consensus pattern (15 bp):
AAATATAAATTATAA
Found at i:62308636 original size:10 final size:11
Alignment explanation
Indices: 62308602--62308628 Score: 54
Period size: 11 Copynumber: 2.5 Consensus size: 11
62308592 TATAAAAATA
62308602 TTTTAAAGATT
1 TTTTAAAGATT
62308613 TTTTAAAGATT
1 TTTTAAAGATT
62308624 TTTTA
1 TTTTA
62308629 TAATTTTTAG
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 16 1.00
ACGTcount: A:0.33, C:0.00, G:0.07, T:0.59
Consensus pattern (11 bp):
TTTTAAAGATT
Found at i:62308820 original size:29 final size:30
Alignment explanation
Indices: 62308772--62308850 Score: 106
Period size: 30 Copynumber: 2.6 Consensus size: 30
62308762 ATATTTAATT
* * *
62308772 TTGAAAAGTTGAATGACTAAATCGAAAAAA
1 TTGAATAGTTGAGTGACTAAATAGAAAAAA
*
62308802 TT-AATAGTTGAGTGACTAAAATAGAACAAA
1 TTGAATAGTTGAGTGACT-AAATAGAAAAAA
62308832 TTGAATAGTTGAGTGACTA
1 TTGAATAGTTGAGTGACTA
62308851 TTCTTGTACT
Statistics
Matches: 43, Mismatches: 4, Indels: 4
0.84 0.08 0.08
Matches are distributed among these distances:
29 13 0.30
30 15 0.35
31 15 0.35
ACGTcount: A:0.47, C:0.06, G:0.19, T:0.28
Consensus pattern (30 bp):
TTGAATAGTTGAGTGACTAAATAGAAAAAA
Found at i:62308842 original size:31 final size:31
Alignment explanation
Indices: 62308772--62308850 Score: 108
Period size: 31 Copynumber: 2.6 Consensus size: 31
62308762 ATATTTAATT
* * *
62308772 TTGAAAAGTTGAATGACT-AAATCGAAAAAA
1 TTGAATAGTTGAGTGACTAAAATAGAAAAAA
*
62308802 TT-AATAGTTGAGTGACTAAAATAGAACAAA
1 TTGAATAGTTGAGTGACTAAAATAGAAAAAA
62308832 TTGAATAGTTGAGTGACTA
1 TTGAATAGTTGAGTGACTA
62308851 TTCTTGTACT
Statistics
Matches: 43, Mismatches: 4, Indels: 3
0.86 0.08 0.06
Matches are distributed among these distances:
29 13 0.30
30 14 0.33
31 16 0.37
ACGTcount: A:0.47, C:0.06, G:0.19, T:0.28
Consensus pattern (31 bp):
TTGAATAGTTGAGTGACTAAAATAGAAAAAA
Found at i:62315813 original size:52 final size:52
Alignment explanation
Indices: 62315735--62315840 Score: 203
Period size: 52 Copynumber: 2.0 Consensus size: 52
62315725 ATGCTCACCT
*
62315735 ATGATTCTTTTTATAGTTCAAACACTCATCTATCATTATTCACCTAACTTTA
1 ATGATTCTTTTTATAGTTCAAACACTCATCTATCATCATTCACCTAACTTTA
62315787 ATGATTCTTTTTATAGTTCAAACACTCATCTATCATCATTCACCTAACTTTA
1 ATGATTCTTTTTATAGTTCAAACACTCATCTATCATCATTCACCTAACTTTA
62315839 AT
1 AT
62315841 ATGAAACAAC
Statistics
Matches: 53, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
52 53 1.00
ACGTcount: A:0.31, C:0.22, G:0.04, T:0.43
Consensus pattern (52 bp):
ATGATTCTTTTTATAGTTCAAACACTCATCTATCATCATTCACCTAACTTTA
Found at i:62333316 original size:29 final size:29
Alignment explanation
Indices: 62333253--62333320 Score: 84
Period size: 29 Copynumber: 2.3 Consensus size: 29
62333243 TAATCAACCG
*
62333253 CGCACACTTAGTGCCATGTACTTTAAACT
1 CGCACACTTAGTGCCATGCACTTTAAACT
* **
62333282 CACACACTTAGTGCCATGCA-TTTCAAGTT
1 CGCACACTTAGTGCCATGCACTTT-AAACT
62333311 CGCACACTTA
1 CGCACACTTA
62333321 CCTTTTCCGC
Statistics
Matches: 33, Mismatches: 5, Indels: 2
0.82 0.12 0.05
Matches are distributed among these distances:
28 3 0.09
29 30 0.91
ACGTcount: A:0.28, C:0.29, G:0.13, T:0.29
Consensus pattern (29 bp):
CGCACACTTAGTGCCATGCACTTTAAACT
Found at i:62333432 original size:174 final size:174
Alignment explanation
Indices: 62333142--62333469 Score: 629
Period size: 174 Copynumber: 1.9 Consensus size: 174
62333132 AACTCAAGGT
* *
62333142 ACTTACCTTTTCCGCTGTCCAAAATTGACTCGGTAAAGTCGCACCCTTCATGTAAATAATTTATA
1 ACTTACCTTTTCCGCTGTCCAAAATCGACTCGGTAAAGTCGCACCCTTAATGTAAATAATTTATA
62333207 GAAAATATATATTGGGTTCGCACACATAGTGCTTAATAATCAACCGCGCACACTTAGTGCCATGT
66 GAAAATATATATTGGGTTCGCACACATAGTGCTTAATAATCAACCGCGCACACTTAGTGCCATGT
62333272 ACTTTAAACTCACACACTTAGTGCCATGCATTTCAAGTTCGCAC
131 ACTTTAAACTCACACACTTAGTGCCATGCATTTCAAGTTCGCAC
62333316 ACTTACCTTTTCCGCTGTCCAAAATCGACTCGGTAAAGTCGCACCCTTAATGTAAATAATTTATA
1 ACTTACCTTTTCCGCTGTCCAAAATCGACTCGGTAAAGTCGCACCCTTAATGTAAATAATTTATA
*
62333381 GAAAATATATATTGGGTTCGCGCACATAGTGCTTAATAATCAACCGCGCACACTTAGTGCCATGT
66 GAAAATATATATTGGGTTCGCACACATAGTGCTTAATAATCAACCGCGCACACTTAGTGCCATGT
62333446 ACTTTAAACTCACACACTTAGTGC
131 ACTTTAAACTCACACACTTAGTGC
62333470 TGTACAATTT
Statistics
Matches: 151, Mismatches: 3, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
174 151 1.00
ACGTcount: A:0.31, C:0.24, G:0.15, T:0.30
Consensus pattern (174 bp):
ACTTACCTTTTCCGCTGTCCAAAATCGACTCGGTAAAGTCGCACCCTTAATGTAAATAATTTATA
GAAAATATATATTGGGTTCGCACACATAGTGCTTAATAATCAACCGCGCACACTTAGTGCCATGT
ACTTTAAACTCACACACTTAGTGCCATGCATTTCAAGTTCGCAC
Found at i:62333463 original size:29 final size:30
Alignment explanation
Indices: 62333429--62333500 Score: 96
Period size: 29 Copynumber: 2.5 Consensus size: 30
62333419 ATCAACCGCG
*
62333429 CACACTTAGTGCCATGTAC-TTTAAACTCA
1 CACACTTAGTGCCATGTACATTTAAACCCA
*
62333458 CACACTTAGTG-C-TGTACAATTTAAACCCG
1 CACACTTAGTGCCATGTAC-ATTTAAACCCA
62333487 CACACTTAGTGCCA
1 CACACTTAGTGCCA
62333501 ATCTCATGAC
Statistics
Matches: 37, Mismatches: 2, Indels: 6
0.82 0.04 0.13
Matches are distributed among these distances:
27 5 0.14
28 1 0.03
29 30 0.81
30 1 0.03
ACGTcount: A:0.31, C:0.29, G:0.12, T:0.28
Consensus pattern (30 bp):
CACACTTAGTGCCATGTACATTTAAACCCA
Found at i:62335906 original size:40 final size:40
Alignment explanation
Indices: 62335829--62336046 Score: 289
Period size: 40 Copynumber: 5.5 Consensus size: 40
62335819 AAACCAAGTA
* **
62335829 CCTTCGGGATTTAG-CCGGATATAGCT-ACTCGTTCAAATG
1 CCTTCGGGACTTAGCCCGGATATAG-TAACTCGCACAAATG
*
62335868 CCTTCGGGACTTAGCCCGGCTATAGTAACTCGCACAAATG
1 CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATG
* **
62335908 CCTTCGGGACCTAGCCCGGATATAGTAACTCATACAAATG
1 CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATG
*
62335948 CCTTCGGGACTTAGCCCAGATATAGTAACTCGCACAAATG
1 CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATG
* * *
62335988 CCTTCGGGACTTAGCCC-GAAATTAGTCACTAGCACAAATG
1 CCTTCGGGACTTAGCCCGGATA-TAGTAACTCGCACAAATG
*
62336028 CCTTCGGGATTTAGCCCGG
1 CCTTCGGGACTTAGCCCGG
62336047 TTATCATCCG
Statistics
Matches: 159, Mismatches: 16, Indels: 6
0.88 0.09 0.03
Matches are distributed among these distances:
39 17 0.11
40 141 0.89
41 1 0.01
ACGTcount: A:0.26, C:0.28, G:0.22, T:0.24
Consensus pattern (40 bp):
CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATG
Found at i:62338310 original size:14 final size:14
Alignment explanation
Indices: 62338291--62338317 Score: 54
Period size: 14 Copynumber: 1.9 Consensus size: 14
62338281 ATATTTAACT
62338291 TGTTCTTAATTATG
1 TGTTCTTAATTATG
62338305 TGTTCTTAATTAT
1 TGTTCTTAATTAT
62338318 TGCTTTGATA
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 13 1.00
ACGTcount: A:0.22, C:0.07, G:0.11, T:0.59
Consensus pattern (14 bp):
TGTTCTTAATTATG
Found at i:62342219 original size:34 final size:36
Alignment explanation
Indices: 62342164--62342233 Score: 85
Period size: 34 Copynumber: 2.0 Consensus size: 36
62342154 TTTTGGAAGT
62342164 AGTATTGAATTATATGAGTATGATTGAGATG-TTGTA
1 AGTATTGAATTATATGAGTATGATTGA-ATGATTGTA
*
62342200 AGTA-TGAA-TAT-TGAGGTATGTTTGAATGATTGTA
1 AGTATTGAATTATATGA-GTATGATTGAATGATTGTA
62342234 TTTGAGGTGC
Statistics
Matches: 31, Mismatches: 1, Indels: 6
0.82 0.03 0.16
Matches are distributed among these distances:
33 6 0.19
34 17 0.55
35 4 0.13
36 4 0.13
ACGTcount: A:0.33, C:0.00, G:0.26, T:0.41
Consensus pattern (36 bp):
AGTATTGAATTATATGAGTATGATTGAATGATTGTA
Found at i:62344013 original size:40 final size:40
Alignment explanation
Indices: 62343961--62344098 Score: 134
Period size: 40 Copynumber: 3.5 Consensus size: 40
62343951 TATAGATGCA
** *
62343961 AAACAAGGGCACCAAAGTGAAATCAGAAGCACGAGTGTGC
1 AAACAAGGGCACCAAAGTGAAATCAGGGGCACGAATGTGC
* ** * *
62344001 AAACAGGGGCACCGGAGTGTAGTCAGGGGCACGAATGTGC
1 AAACAAGGGCACCAAAGTGAAATCAGGGGCACGAATGTGC
* * * * *
62344041 TATC-AGGGCATCAAAGTGCATTCAGGGGCACGAATGTGC
1 AAACAAGGGCACCAAAGTGAAATCAGGGGCACGAATGTGC
* *
62344080 ATACAAGGACACCAAAGTG
1 AAACAAGGGCACCAAAGTG
62344099 TTTTTAGGGG
Statistics
Matches: 76, Mismatches: 21, Indels: 2
0.77 0.21 0.02
Matches are distributed among these distances:
39 30 0.39
40 46 0.61
ACGTcount: A:0.35, C:0.20, G:0.31, T:0.14
Consensus pattern (40 bp):
AAACAAGGGCACCAAAGTGAAATCAGGGGCACGAATGTGC
Found at i:62344046 original size:20 final size:20
Alignment explanation
Indices: 62344023--62344081 Score: 70
Period size: 20 Copynumber: 3.0 Consensus size: 20
62344013 CGGAGTGTAG
62344023 TCAGGGGCACGAATGTGC-T
1 TCAGGGGCACGAATGTGCAT
*
62344042 ATCA-GGGCATC-AAAGTGCAT
1 -TCAGGGGCA-CGAATGTGCAT
62344062 TCAGGGGCACGAATGTGCAT
1 TCAGGGGCACGAATGTGCAT
62344082 ACAAGGACAC
Statistics
Matches: 33, Mismatches: 2, Indels: 8
0.77 0.05 0.19
Matches are distributed among these distances:
19 15 0.45
20 18 0.55
ACGTcount: A:0.27, C:0.20, G:0.32, T:0.20
Consensus pattern (20 bp):
TCAGGGGCACGAATGTGCAT
Found at i:62344111 original size:40 final size:39
Alignment explanation
Indices: 62344023--62344098 Score: 109
Period size: 39 Copynumber: 1.9 Consensus size: 39
62344013 CGGAGTGTAG
* *
62344023 TCAGGGGCACGAATGTGCTATCAGGGCATCAAAGTGCAT
1 TCAGGGGCACGAATGTGCTATCAGGACACCAAAGTGCAT
62344062 TCAGGGGCACGAATGTGC-ATACAAGGACACCAAAGTG
1 TCAGGGGCACGAATGTGCTAT-C-AGGACACCAAAGTG
62344099 TTTTTAGGGG
Statistics
Matches: 33, Mismatches: 2, Indels: 3
0.87 0.05 0.08
Matches are distributed among these distances:
38 2 0.06
39 19 0.58
40 12 0.36
ACGTcount: A:0.32, C:0.21, G:0.30, T:0.17
Consensus pattern (39 bp):
TCAGGGGCACGAATGTGCTATCAGGACACCAAAGTGCAT
Found at i:62349738 original size:24 final size:24
Alignment explanation
Indices: 62349711--62349771 Score: 86
Period size: 24 Copynumber: 2.5 Consensus size: 24
62349701 GGAGCTTCAA
*
62349711 GATATGGTTCTTTGTGAACTTTCC
1 GATATGGTTCTTTGTGAACTTCCC
*
62349735 GATAAGGTTCTTTGTGAACTTCCC
1 GATATGGTTCTTTGTGAACTTCCC
*
62349759 GATTATGGCTCTT
1 GA-TATGGTTCTT
62349772 ATGAGCTTCC
Statistics
Matches: 32, Mismatches: 4, Indels: 1
0.86 0.11 0.03
Matches are distributed among these distances:
24 24 0.75
25 8 0.25
ACGTcount: A:0.18, C:0.18, G:0.21, T:0.43
Consensus pattern (24 bp):
GATATGGTTCTTTGTGAACTTCCC
Found at i:62355734 original size:19 final size:20
Alignment explanation
Indices: 62355710--62355747 Score: 53
Period size: 19 Copynumber: 1.9 Consensus size: 20
62355700 GGTACCACCA
62355710 AAACAT-ATATCA-CATCTTT
1 AAACATCAT-TCATCATCTTT
62355729 AAACATCATTCATCATCTT
1 AAACATCATTCATCATCTT
62355748 ACCACCTTAT
Statistics
Matches: 17, Mismatches: 0, Indels: 3
0.85 0.00 0.15
Matches are distributed among these distances:
19 9 0.53
20 8 0.47
ACGTcount: A:0.39, C:0.24, G:0.00, T:0.37
Consensus pattern (20 bp):
AAACATCATTCATCATCTTT
Found at i:62356407 original size:30 final size:30
Alignment explanation
Indices: 62356373--62356430 Score: 80
Period size: 30 Copynumber: 1.9 Consensus size: 30
62356363 ATTTAATAGG
62356373 AACTTTAAAAAAATTACACTTTTGCCCCAA
1 AACTTTAAAAAAATTACACTTTTGCCCCAA
*** *
62356403 AACTTTTGCATAATTACACTTTTGCCCC
1 AACTTTAAAAAAATTACACTTTTGCCCC
62356431 TAGGCTCGGG
Statistics
Matches: 24, Mismatches: 4, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
30 24 1.00
ACGTcount: A:0.34, C:0.26, G:0.05, T:0.34
Consensus pattern (30 bp):
AACTTTAAAAAAATTACACTTTTGCCCCAA
Found at i:62360422 original size:39 final size:39
Alignment explanation
Indices: 62360379--62361328 Score: 1769
Period size: 39 Copynumber: 24.3 Consensus size: 39
62360369 GGACTAAGAT
62360379 CCGAAGGCATTTGTGCGAGATACTAATTTCGGGCTAAGC
1 CCGAAGGCATTTGTGCGAGATACTAATTTCGGGCTAAGC
62360418 CCGAAGGCATTTGTGCGAGATACTAATTTCGGGCTAAGC
1 CCGAAGGCATTTGTGCGAGATACTAATTTCGGGCTAAGC
62360457 CCGAAGGCATTTGTGCGAGATACTAATTTCGGGCTAAGC
1 CCGAAGGCATTTGTGCGAGATACTAATTTCGGGCTAAGC
62360496 CCGAAGGCATTTGTGCGAGATACTAATTTCGGGCTAAGC
1 CCGAAGGCATTTGTGCGAGATACTAATTTCGGGCTAAGC
62360535 CCGAAGGCATTTGTGCGAGATACTAATTTCGGGCTAAGC
1 CCGAAGGCATTTGTGCGAGATACTAATTTCGGGCTAAGC
62360574 CCGAAGGCATTTGTGCGAGATACTAATTTCGGGCTAAGC
1 CCGAAGGCATTTGTGCGAGATACTAATTTCGGGCTAAGC
62360613 CCGAAGGCATTTGTGCGAGATACTAATTTCGGGCTAAGC
1 CCGAAGGCATTTGTGCGAGATACTAATTTCGGGCTAAGC
62360652 CCGAAGGCATTTGTGCGAGATACTAATTTCGGGCTAAGC
1 CCGAAGGCATTTGTGCGAGATACTAATTTCGGGCTAAGC
62360691 CCGAAGGCATTTGTGCGAGATACTAATTTCGGGCTAAGC
1 CCGAAGGCATTTGTGCGAGATACTAATTTCGGGCTAAGC
62360730 CCGAAGGCATTTGTGCGAGATACTAATTTCGGGCTAAGC
1 CCGAAGGCATTTGTGCGAGATACTAATTTCGGGCTAAGC
62360769 CCGAAGGCATTTGTGCGAGATACTAATTTCGGGCTAAGC
1 CCGAAGGCATTTGTGCGAGATACTAATTTCGGGCTAAGC
62360808 CCGAAGGCATTTGTGCGAGATACTAATTTCGGGCTAAGC
1 CCGAAGGCATTTGTGCGAGATACTAATTTCGGGCTAAGC
62360847 CCGAAGGCATTTGTGCGAGATACTAATTTCGGGCTAAGC
1 CCGAAGGCATTTGTGCGAGATACTAATTTCGGGCTAAGC
62360886 CCGAAGGCATTTGTGCGAGATACTAATTTCGGGCTAAGC
1 CCGAAGGCATTTGTGCGAGATACTAATTTCGGGCTAAGC
62360925 CCGAAGGCATTTGTGCGAGATACTAATTTCGGGCTAAGC
1 CCGAAGGCATTTGTGCGAGATACTAATTTCGGGCTAAGC
62360964 CCGAAGGCATTTGTGCGAGATACTAATTTCGGGCTAAGC
1 CCGAAGGCATTTGTGCGAGATACTAATTTCGGGCTAAGC
62361003 CCGAAGGCATTTGTGCGAGATACTAATTTCGGGCTAAGC
1 CCGAAGGCATTTGTGCGAGATACTAATTTCGGGCTAAGC
62361042 CCGAAGGCATTTGTGCGAGATACTAATTTCGGGCTAAGC
1 CCGAAGGCATTTGTGCGAGATACTAATTTCGGGCTAAGC
62361081 CCGAAGGCATTTGTGCGAGATACTAATTTCGGGCTAAGC
1 CCGAAGGCATTTGTGCGAGATACTAATTTCGGGCTAAGC
62361120 CCGAAGGCATTTGTGCGAGATACTAATTTCGGGCTAAGC
1 CCGAAGGCATTTGTGCGAGATACTAATTTCGGGCTAAGC
*
62361159 CCGAAGGCATTTGTGCGAGATACTAATTTTGGGCTAAGC
1 CCGAAGGCATTTGTGCGAGATACTAATTTCGGGCTAAGC
*
62361198 CCGAAGGCATTTGTGCGAGATACTAATTCCGGGCTAAGC
1 CCGAAGGCATTTGTGCGAGATACTAATTTCGGGCTAAGC
* * *
62361237 CCGAAGGCATTTGTGCGAGTTACTAAATTCGGGTTAAGTC
1 CCGAAGGCATTTGTGCGAGATACTAATTTCGGGCTAAG-C
* ** *
62361277 CCGAAGGTATTTGTGCGA-ATTACT-ATAACCGGGCTATGTC
1 CCGAAGGCATTTGTGCGAGA-TACTAAT-TTCGGGCTAAG-C
62361317 CCGAAGGCATTT
1 CCGAAGGCATTT
62361329 AAACGAGGAG
Statistics
Matches: 893, Mismatches: 15, Indels: 5
0.98 0.02 0.01
Matches are distributed among these distances:
39 851 0.95
40 42 0.05
ACGTcount: A:0.26, C:0.20, G:0.28, T:0.26
Consensus pattern (39 bp):
CCGAAGGCATTTGTGCGAGATACTAATTTCGGGCTAAGC
Found at i:62361675 original size:66 final size:66
Alignment explanation
Indices: 62361569--62361701 Score: 257
Period size: 66 Copynumber: 2.0 Consensus size: 66
62361559 GAAGCAAGTA
*
62361569 CGATATGGTAAATTTGTGCATATGAAATTATCCGTTTAGCTATATGAATGCTATACTTTTGTTGT
1 CGATATGGTAAATTTGGGCATATGAAATTATCCGTTTAGCTATATGAATGCTATACTTTTGTTGT
62361634 G
66 G
62361635 CGATATGGTAAATTTGGGCATATGAAATTATCCGTTTAGCTATATGAATGCTATACTTTTGTTGT
1 CGATATGGTAAATTTGGGCATATGAAATTATCCGTTTAGCTATATGAATGCTATACTTTTGTTGT
62361700 G
66 G
62361701 C
1 C
62361702 TGGAATTCCT
Statistics
Matches: 66, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
66 66 1.00
ACGTcount: A:0.27, C:0.11, G:0.20, T:0.41
Consensus pattern (66 bp):
CGATATGGTAAATTTGGGCATATGAAATTATCCGTTTAGCTATATGAATGCTATACTTTTGTTGT
G
Found at i:62362758 original size:9 final size:9
Alignment explanation
Indices: 62362744--62362833 Score: 81
Period size: 9 Copynumber: 9.3 Consensus size: 9
62362734 GTTCGGGGTG
*
62362744 TTACATAAT
1 TTACATAAC
62362753 TTACATAACAAC
1 TTACAT-A--AC
62362765 TTACATAAC
1 TTACATAAC
*
62362774 TCACATAAC
1 TTACATAAC
*
62362783 TTACATAAT
1 TTACATAAC
62362792 TTACATAAC
1 TTACATAAC
*
62362801 TCACATAAC
1 TTACATAAC
*
62362810 GTACATAACAAC
1 TTACAT---AAC
62362822 TTACATAAC
1 TTACATAAC
62362831 TTA
1 TTA
62362834 ACTAATACAT
Statistics
Matches: 66, Mismatches: 9, Indels: 12
0.76 0.10 0.14
Matches are distributed among these distances:
9 49 0.74
10 1 0.02
11 1 0.02
12 15 0.23
ACGTcount: A:0.46, C:0.22, G:0.01, T:0.31
Consensus pattern (9 bp):
TTACATAAC
Found at i:62362803 original size:27 final size:27
Alignment explanation
Indices: 62362765--62362817 Score: 97
Period size: 27 Copynumber: 2.0 Consensus size: 27
62362755 ACATAACAAC
*
62362765 TTACATAACTCACATAACTTACATAAT
1 TTACATAACTCACATAACGTACATAAT
62362792 TTACATAACTCACATAACGTACATAA
1 TTACATAACTCACATAACGTACATAA
62362818 CAACTTACAT
Statistics
Matches: 25, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
27 25 1.00
ACGTcount: A:0.45, C:0.23, G:0.02, T:0.30
Consensus pattern (27 bp):
TTACATAACTCACATAACGTACATAAT
Found at i:62363356 original size:40 final size:40
Alignment explanation
Indices: 62363295--62363375 Score: 144
Period size: 40 Copynumber: 2.0 Consensus size: 40
62363285 TTATACTGGT
*
62363295 TACCGTCAGTATATTAGAGAAGATGACATGGAAGGTATGA
1 TACCGTCAGTATATTAAAGAAGATGACATGGAAGGTATGA
*
62363335 TACCGTCAGTATGTTAAAGAAGATGACATGGAAGGTATGA
1 TACCGTCAGTATATTAAAGAAGATGACATGGAAGGTATGA
62363375 T
1 T
62363376 GCGGGATGCA
Statistics
Matches: 39, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
40 39 1.00
ACGTcount: A:0.37, C:0.10, G:0.27, T:0.26
Consensus pattern (40 bp):
TACCGTCAGTATATTAAAGAAGATGACATGGAAGGTATGA
Found at i:62364723 original size:12 final size:12
Alignment explanation
Indices: 62364706--62364731 Score: 52
Period size: 12 Copynumber: 2.2 Consensus size: 12
62364696 ACGATCGAGG
62364706 GATGAATCTGAT
1 GATGAATCTGAT
62364718 GATGAATCTGAT
1 GATGAATCTGAT
62364730 GA
1 GA
62364732 GGAGGATGAC
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 14 1.00
ACGTcount: A:0.35, C:0.08, G:0.27, T:0.31
Consensus pattern (12 bp):
GATGAATCTGAT
Found at i:62368437 original size:21 final size:21
Alignment explanation
Indices: 62368411--62368458 Score: 87
Period size: 21 Copynumber: 2.3 Consensus size: 21
62368401 TCAACTTAGA
*
62368411 GCGGAGGCAGCAGCGCGGGAG
1 GCGGAGGCAGCAGCGAGGGAG
62368432 GCGGAGGCAGCAGCGAGGGAG
1 GCGGAGGCAGCAGCGAGGGAG
62368453 GCGGAG
1 GCGGAG
62368459 CAGAACAGAA
Statistics
Matches: 26, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
21 26 1.00
ACGTcount: A:0.21, C:0.21, G:0.58, T:0.00
Consensus pattern (21 bp):
GCGGAGGCAGCAGCGAGGGAG
Found at i:62368836 original size:42 final size:43
Alignment explanation
Indices: 62368752--62368869 Score: 150
Period size: 43 Copynumber: 2.7 Consensus size: 43
62368742 ACTGGGCAAA
* * *
62368752 TTAGCGGCGTTTTTTATAAAAGCGCCGCTAAAGGTCCCGATCT
1 TTAGCGGCGTTTTTTAAAAAAGCGCCGCTAAAAGTCACGATCT
* *
62368795 TTAGCGACGTTTTTTAAAAAAGCGCC-CTAAAAGTCATGATCT
1 TTAGCGGCGTTTTTTAAAAAAGCGCCGCTAAAAGTCACGATCT
62368837 TTAGCGGCGTTTTTTTCAAACAAA-CGCCGCTAA
1 TTAGCGGCG-TTTTTT-AAA-AAAGCGCCGCTAA
62368870 TTTTAGCGAC
Statistics
Matches: 65, Mismatches: 6, Indels: 6
0.84 0.08 0.08
Matches are distributed among these distances:
42 21 0.32
43 30 0.46
44 7 0.11
45 7 0.11
ACGTcount: A:0.28, C:0.22, G:0.19, T:0.31
Consensus pattern (43 bp):
TTAGCGGCGTTTTTTAAAAAAGCGCCGCTAAAAGTCACGATCT
Found at i:62371541 original size:18 final size:18
Alignment explanation
Indices: 62371518--62371553 Score: 72
Period size: 18 Copynumber: 2.0 Consensus size: 18
62371508 ATCTTCAAGA
62371518 AAACAACAATGAAAACTT
1 AAACAACAATGAAAACTT
62371536 AAACAACAATGAAAACTT
1 AAACAACAATGAAAACTT
62371554 TCAAAAACTT
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
18 18 1.00
ACGTcount: A:0.61, C:0.17, G:0.06, T:0.17
Consensus pattern (18 bp):
AAACAACAATGAAAACTT
Found at i:62371811 original size:19 final size:20
Alignment explanation
Indices: 62371777--62371819 Score: 70
Period size: 19 Copynumber: 2.2 Consensus size: 20
62371767 CTTATATACG
*
62371777 TTAATTAAATCTTTAATTAC
1 TTAATTAAATCTTTAATTAA
62371797 TTAATTAAA-CTTTAATTAA
1 TTAATTAAATCTTTAATTAA
62371816 TTAA
1 TTAA
62371820 AACTTAATCA
Statistics
Matches: 22, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
19 13 0.59
20 9 0.41
ACGTcount: A:0.44, C:0.07, G:0.00, T:0.49
Consensus pattern (20 bp):
TTAATTAAATCTTTAATTAA
Found at i:62375973 original size:42 final size:42
Alignment explanation
Indices: 62375919--62376031 Score: 165
Period size: 42 Copynumber: 2.7 Consensus size: 42
62375909 ACACGGCCAA
* *
62375919 CACACACGCCCGTGTGGCTAGTCTGTGTGCCCTAAAAAGTGC
1 CACACACACCCGTGTGGCTAGTCTGTGTGCCCTAAAAAATGC
* *
62375961 CACACACACCCGTGTGGCTAGTTTGTGTGCTCTAAAAAATGC
1 CACACACACCCGTGTGGCTAGTCTGTGTGCCCTAAAAAATGC
* *
62376003 CACACACACCCGTGT-GTTAGGCTGTGTGC
1 CACACACACCCGTGTGGCTAGTCTGTGTGC
62376032 TAGGCCGTGC
Statistics
Matches: 64, Mismatches: 7, Indels: 1
0.89 0.10 0.01
Matches are distributed among these distances:
41 11 0.17
42 53 0.83
ACGTcount: A:0.22, C:0.29, G:0.25, T:0.24
Consensus pattern (42 bp):
CACACACACCCGTGTGGCTAGTCTGTGTGCCCTAAAAAATGC
Found at i:62380427 original size:49 final size:50
Alignment explanation
Indices: 62380360--62380606 Score: 252
Period size: 49 Copynumber: 5.0 Consensus size: 50
62380350 AGCTATTGTG
* * * *
62380360 AGGTCACGTATGTAGTACTAAGTGAAGGCTACTACGTGTACTAGATTGTT
1 AGGTCACATGTGTAGTACTAAGTGCAGGCTACTACGTGTACTAGATAGTT
* * *
62380410 -GGTCGCATGTGTAGTACTAAGTGCAGGCTACTA-TTCGTACCT-GATAACTT
1 AGGTCACATGTGTAGTACTAAGTGCAGGCTACTACGT-GTA-CTAGAT-AGTT
* * * *
62380460 CGATCACGTGTGTAGTACTAAGTGCAGGCTACTACGTGTA-TCAGATGGTT
1 AGGTCACATGTGTAGTACTAAGTGCAGGCTACTACGTGTACT-AGATAGTT
* ** *
62380510 AGGTCACGTGTGTAGTACTAAGTGCAGGCTACTACGTGTACCGGATAATT
1 AGGTCACATGTGTAGTACTAAGTGCAGGCTACTACGTGTACTAGATAGTT
* * * *
62380560 -GGTCGCATGTGTAGTACTAAGTGCAGGCTACTATGCGTACCAGATAG
1 AGGTCACATGTGTAGTACTAAGTGCAGGCTACTACGTGTACTAGATAG
62380607 CTTCGGCTAC
Statistics
Matches: 164, Mismatches: 25, Indels: 17
0.80 0.12 0.08
Matches are distributed among these distances:
48 1 0.01
49 77 0.47
50 49 0.30
51 36 0.22
52 1 0.01
ACGTcount: A:0.26, C:0.18, G:0.27, T:0.30
Consensus pattern (50 bp):
AGGTCACATGTGTAGTACTAAGTGCAGGCTACTACGTGTACTAGATAGTT
Found at i:62380497 original size:28 final size:28
Alignment explanation
Indices: 62380465--62380548 Score: 83
Period size: 28 Copynumber: 3.2 Consensus size: 28
62380455 AACTTCGATC
62380465 ACGTGTGTAGTACTAAGTGCAGGCTACT
1 ACGTGTGTAGTACTAAGTGCAGGCTACT
* * *
62380493 ACGTGTATCAG-A-T-GGT-TAGG-T-C-
1 ACGTGTGT-AGTACTAAGTGCAGGCTACT
62380515 ACGTGTGTAGTACTAAGTGCAGGCTACT
1 ACGTGTGTAGTACTAAGTGCAGGCTACT
62380543 ACGTGT
1 ACGTGT
62380549 ACCGGATAAT
Statistics
Matches: 42, Mismatches: 6, Indels: 16
0.66 0.09 0.25
Matches are distributed among these distances:
21 2 0.05
22 8 0.19
23 2 0.05
24 3 0.07
25 6 0.14
26 3 0.07
27 2 0.05
28 14 0.33
29 2 0.05
ACGTcount: A:0.24, C:0.17, G:0.30, T:0.30
Consensus pattern (28 bp):
ACGTGTGTAGTACTAAGTGCAGGCTACT
Found at i:62380557 original size:101 final size:98
Alignment explanation
Indices: 62380363--62380592 Score: 311
Period size: 100 Copynumber: 2.3 Consensus size: 98
62380353 TATTGTGAGG
* * * *
62380363 TCACGTATGTAGTACTAAGTGAAGGCTACTACGTGTACTAGATTGTTGGTCGCATGTGTAGTACT
1 TCACGTGTGTAGTACTAAGTGCAGGCTACTACGTGTACTAGATGGTTGGTCACATGTGTAGTACT
* *
62380428 AAGTGCAGGCTACTATTCGTACCTGATAACTTCGA
66 AAGTGCAGGCTACTAGTCGTACCGGATAA-TT-GA
*
62380463 TCACGTGTGTAGTACTAAGTGCAGGCTACTACGTGTA-TCAGATGGTTAGGTCACGTGTGTAGTA
1 TCACGTGTGTAGTACTAAGTGCAGGCTACTACGTGTACT-AGATGGTT-GGTCACATGTGTAGTA
*
62380527 CTAAGTGCAGGCTACTACGT-GTACCGGATAATTGG
64 CTAAGTGCAGGCTACTA-GTCGTACCGGATAATTGA
* *
62380562 TCGCATGTGTAGTACTAAGTGCAGGCTACTA
1 TCACGTGTGTAGTACTAAGTGCAGGCTACTA
62380593 TGCGTACCAG
Statistics
Matches: 117, Mismatches: 10, Indels: 7
0.87 0.07 0.05
Matches are distributed among these distances:
99 31 0.26
100 44 0.38
101 41 0.35
102 1 0.01
ACGTcount: A:0.25, C:0.18, G:0.27, T:0.30
Consensus pattern (98 bp):
TCACGTGTGTAGTACTAAGTGCAGGCTACTACGTGTACTAGATGGTTGGTCACATGTGTAGTACT
AAGTGCAGGCTACTAGTCGTACCGGATAATTGA
Found at i:62389919 original size:5 final size:5
Alignment explanation
Indices: 62389909--62389940 Score: 57
Period size: 5 Copynumber: 6.6 Consensus size: 5
62389899 AAAAGATGTG
62389909 AAAAT AAAAT AAAAT AAAAT -AAAT AAAAT AAA
1 AAAAT AAAAT AAAAT AAAAT AAAAT AAAAT AAA
62389941 GAACACACAA
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:0.81, C:0.00, G:0.00, T:0.19
Consensus pattern (5 bp):
AAAAT
Found at i:62389934 original size:9 final size:9
Alignment explanation
Indices: 62389910--62389940 Score: 53
Period size: 9 Copynumber: 3.3 Consensus size: 9
62389900 AAAGATGTGA
62389910 AAATAAAAT
1 AAATAAAAT
62389919 AAAATAAAAT
1 -AAATAAAAT
62389929 AAATAAAAT
1 AAATAAAAT
62389938 AAA
1 AAA
62389941 GAACACACAA
Statistics
Matches: 21, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
9 12 0.57
10 9 0.43
ACGTcount: A:0.81, C:0.00, G:0.00, T:0.19
Consensus pattern (9 bp):
AAATAAAAT
Found at i:62394337 original size:5 final size:5
Alignment explanation
Indices: 62394327--62394370 Score: 51
Period size: 5 Copynumber: 9.6 Consensus size: 5
62394317 CCAATTTGAG
*
62394327 AAAAT AAAAT AAAAT AAAA- AATA- AAAAT -AAA- AAAAT AAAAT AAA
1 AAAAT AAAAT AAAAT AAAAT AAAAT AAAAT AAAAT AAAAT AAAAT AAA
62394371 GAACACACAA
Statistics
Matches: 34, Mismatches: 2, Indels: 6
0.81 0.05 0.14
Matches are distributed among these distances:
4 12 0.35
5 22 0.65
ACGTcount: A:0.84, C:0.00, G:0.00, T:0.16
Consensus pattern (5 bp):
AAAAT
Found at i:62394355 original size:13 final size:13
Alignment explanation
Indices: 62394332--62394370 Score: 55
Period size: 13 Copynumber: 3.1 Consensus size: 13
62394322 TTGAGAAAAT
62394332 AAAAT-AAAATAA
1 AAAATAAAAATAA
62394344 AAAATAAAAATAA
1 AAAATAAAAATAA
62394357 AAAA-ATAAAATAA
1 AAAATA-AAAATAA
62394370 A
1 A
62394371 GAACACACAA
Statistics
Matches: 25, Mismatches: 0, Indels: 3
0.89 0.00 0.11
Matches are distributed among these distances:
12 6 0.24
13 19 0.76
ACGTcount: A:0.85, C:0.00, G:0.00, T:0.15
Consensus pattern (13 bp):
AAAATAAAAATAA
Found at i:62396577 original size:38 final size:38
Alignment explanation
Indices: 62396526--62396601 Score: 143
Period size: 38 Copynumber: 2.0 Consensus size: 38
62396516 ATTAAGATAC
*
62396526 GTAAATTTTCTTAGAAATAAGACTCATGTATCTTTCCA
1 GTAAATTTTCTTAGAAACAAGACTCATGTATCTTTCCA
62396564 GTAAATTTTCTTAGAAACAAGACTCATGTATCTTTCCA
1 GTAAATTTTCTTAGAAACAAGACTCATGTATCTTTCCA
62396602 CCATAAAATT
Statistics
Matches: 37, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
38 37 1.00
ACGTcount: A:0.34, C:0.17, G:0.11, T:0.38
Consensus pattern (38 bp):
GTAAATTTTCTTAGAAACAAGACTCATGTATCTTTCCA
Found at i:62397347 original size:51 final size:50
Alignment explanation
Indices: 62397271--62397421 Score: 180
Period size: 51 Copynumber: 3.0 Consensus size: 50
62397261 CTCTTGTAGC
* * *
62397271 CAAAGCTATCTGGTACGCATAGTAGCCTTCACTTAGTACTACACACGTGA
1 CAAAGTTATCGGGTACGCATAGTAGCCTTCACTTAGTACTACACATGTGA
* * *
62397321 TCAAAGTTATCGGGTACGCATAGTAGCCTGCACTTAATACTACACATGCGA
1 -CAAAGTTATCGGGTACGCATAGTAGCCTTCACTTAGTACTACACATGTGA
* * * *
62397372 CCAA-TTATCGGGTACACGTAGTAGCCTGT-AGTTAGTACTACACATGTGA
1 CAAAGTTATCGGGTACGCATAGTAGCCT-TCACTTAGTACTACACATGTGA
62397421 C
1 C
62397422 CTCACAATAG
Statistics
Matches: 86, Mismatches: 13, Indels: 4
0.83 0.13 0.04
Matches are distributed among these distances:
49 39 0.45
50 3 0.03
51 44 0.51
ACGTcount: A:0.30, C:0.24, G:0.20, T:0.26
Consensus pattern (50 bp):
CAAAGTTATCGGGTACGCATAGTAGCCTTCACTTAGTACTACACATGTGA
Found at i:62397399 original size:49 final size:50
Alignment explanation
Indices: 62397277--62397422 Score: 177
Period size: 49 Copynumber: 2.9 Consensus size: 50
62397267 TAGCCAAAGC
* * * * *
62397277 TATCTGGTACGCATAGTAGCCTTCACTTAGTACTACACACGTGATCAAAGT
1 TATCGGGTACACATAGTAGCCTGCACTTAGTACTACACATGTGA-CCAAGT
* * *
62397328 TATCGGGTACGCATAGTAGCCTGCACTTAATACTACACATGCGACCAA-T
1 TATCGGGTACACATAGTAGCCTGCACTTAGTACTACACATGTGACCAAGT
* * *
62397377 TATCGGGTACACGTAGTAGCCTGTAGTTAGTACTACACATGTGACC
1 TATCGGGTACACATAGTAGCCTGCACTTAGTACTACACATGTGACC
62397423 TCACAATAGA
Statistics
Matches: 83, Mismatches: 12, Indels: 2
0.86 0.12 0.02
Matches are distributed among these distances:
49 41 0.49
50 3 0.04
51 39 0.47
ACGTcount: A:0.29, C:0.24, G:0.20, T:0.27
Consensus pattern (50 bp):
TATCGGGTACACATAGTAGCCTGCACTTAGTACTACACATGTGACCAAGT
Found at i:62399457 original size:15 final size:15
Alignment explanation
Indices: 62399434--62399473 Score: 62
Period size: 15 Copynumber: 2.7 Consensus size: 15
62399424 CAAGCCCAGA
62399434 ATAAGGAAATCCAAG
1 ATAAGGAAATCCAAG
* *
62399449 ATAAAGAAATCCATG
1 ATAAGGAAATCCAAG
62399464 ATAAGGAAAT
1 ATAAGGAAAT
62399474 ACCATTTACA
Statistics
Matches: 22, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
15 22 1.00
ACGTcount: A:0.55, C:0.10, G:0.17, T:0.17
Consensus pattern (15 bp):
ATAAGGAAATCCAAG
Found at i:62402372 original size:49 final size:51
Alignment explanation
Indices: 62402254--62402402 Score: 185
Period size: 51 Copynumber: 2.9 Consensus size: 51
62402244 TCACACTTAT
* * *
62402254 ATCCAAAGCTATCTGGTACGCATAGTAGCCTGCACTTAGTACTACACACATG
1 ATCC-AAGTTATCCGGTACGCATAGTAGCCTGCACTTAGTACTACACACACG
* * * **
62402306 ATCGAAGTTATCGGGTACGCATAGTAGCCTGCAATTAGTACTACACATGCG
1 ATCCAAGTTATCCGGTACGCATAGTAGCCTGCACTTAGTACTACACACACG
* *
62402357 A-CCAA-TTATCCGGTACACGTAGTAGCCTGCACTTAGTACTACACAC
1 ATCCAAGTTATCCGGTACGCATAGTAGCCTGCACTTAGTACTACACAC
62402403 GTGACCTCAC
Statistics
Matches: 84, Mismatches: 13, Indels: 3
0.84 0.13 0.03
Matches are distributed among these distances:
49 36 0.43
50 3 0.04
51 42 0.50
52 3 0.04
ACGTcount: A:0.30, C:0.26, G:0.19, T:0.25
Consensus pattern (51 bp):
ATCCAAGTTATCCGGTACGCATAGTAGCCTGCACTTAGTACTACACACACG
Found at i:62404730 original size:18 final size:18
Alignment explanation
Indices: 62404707--62404744 Score: 76
Period size: 18 Copynumber: 2.1 Consensus size: 18
62404697 GAGTTTTCTT
62404707 TATGTTTTGTTATTTTCA
1 TATGTTTTGTTATTTTCA
62404725 TATGTTTTGTTATTTTCA
1 TATGTTTTGTTATTTTCA
62404743 TA
1 TA
62404745 CTTTTGAGAT
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
18 20 1.00
ACGTcount: A:0.18, C:0.05, G:0.11, T:0.66
Consensus pattern (18 bp):
TATGTTTTGTTATTTTCA
Found at i:62407030 original size:46 final size:46
Alignment explanation
Indices: 62406980--62407155 Score: 182
Period size: 46 Copynumber: 3.8 Consensus size: 46
62406970 TGGTTGAGCA
62406980 TCCGAACTCGTTGAGTTGAGTCTGAGTTCACTTATGGATGCGAATG
1 TCCGAACTCGTTGAGTTGAGTCTGAGTTCACTTATGGATGCGAATG
* * * *
62407026 TCCGAACTCATTGAGTTGAGT-TCGAGTTC-GTGA--GATG-TAACTAGG
1 TCCGAACTCGTTGAGTTGAGTCT-GAGTTCACTTATGGATGCGAA-T--G
* * *
62407071 CATCCGAGCTCGTTGAGTTGAGTCTGGGTTCACTTATGGATGCGAACG
1 --TCCGAACTCGTTGAGTTGAGTCTGAGTTCACTTATGGATGCGAATG
* *
62407119 CCCGAGCTCGTTGAGTTGAGTCTGAGTTCACTTATGG
1 TCCGAACTCGTTGAGTTGAGTCTGAGTTCACTTATGG
62407156 GCGGGTTACA
Statistics
Matches: 106, Mismatches: 13, Indels: 22
0.75 0.09 0.16
Matches are distributed among these distances:
42 2 0.02
43 5 0.05
45 4 0.04
46 61 0.58
47 24 0.23
48 4 0.04
50 4 0.04
51 2 0.02
ACGTcount: A:0.20, C:0.19, G:0.30, T:0.31
Consensus pattern (46 bp):
TCCGAACTCGTTGAGTTGAGTCTGAGTTCACTTATGGATGCGAATG
Found at i:62407136 original size:93 final size:93
Alignment explanation
Indices: 62406977--62407147 Score: 272
Period size: 93 Copynumber: 1.8 Consensus size: 93
62406967 GGATGGTTGA
* *
62406977 GCATCCGAACTCGTTGAGTTGAGTCTGAGTTCACTTATGGATGCGAATGTCCGAACTCATTGAGT
1 GCATCCGAACTCGTTGAGTTGAGTCTGAGTTCACTTATGGATGCGAACGCCCGAACTCATTGAGT
62407042 TGAGT-TCGAGTTCGTGAGATGTAACTAG
66 TGAGTCT-GAGTTCGTGAGATGTAACTAG
* * * *
62407070 GCATCCGAGCTCGTTGAGTTGAGTCTGGGTTCACTTATGGATGCGAACGCCCGAGCTCGTTGAGT
1 GCATCCGAACTCGTTGAGTTGAGTCTGAGTTCACTTATGGATGCGAACGCCCGAACTCATTGAGT
62407135 TGAGTCTGAGTTC
66 TGAGTCTGAGTTC
62407148 ACTTATGGGC
Statistics
Matches: 71, Mismatches: 6, Indels: 2
0.90 0.08 0.03
Matches are distributed among these distances:
93 70 0.99
94 1 0.01
ACGTcount: A:0.20, C:0.19, G:0.30, T:0.30
Consensus pattern (93 bp):
GCATCCGAACTCGTTGAGTTGAGTCTGAGTTCACTTATGGATGCGAACGCCCGAACTCATTGAGT
TGAGTCTGAGTTCGTGAGATGTAACTAG
Found at i:62416315 original size:14 final size:14
Alignment explanation
Indices: 62416296--62416324 Score: 58
Period size: 14 Copynumber: 2.1 Consensus size: 14
62416286 CACTTTTGAG
62416296 AAAATCTCAAAGCT
1 AAAATCTCAAAGCT
62416310 AAAATCTCAAAGCT
1 AAAATCTCAAAGCT
62416324 A
1 A
62416325 TCTCATTAAG
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:0.52, C:0.21, G:0.07, T:0.21
Consensus pattern (14 bp):
AAAATCTCAAAGCT
Found at i:62417325 original size:19 final size:20
Alignment explanation
Indices: 62417301--62417344 Score: 63
Period size: 19 Copynumber: 2.2 Consensus size: 20
62417291 ATTATCATTG
* *
62417301 TTCATGATTTGACTC-ACTA
1 TTCATGAGTTGACCCTACTA
62417320 TTCATGAGTTGACCCTACTA
1 TTCATGAGTTGACCCTACTA
62417340 TTCAT
1 TTCAT
62417345 AGGACTGGTA
Statistics
Matches: 22, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
19 13 0.59
20 9 0.41
ACGTcount: A:0.25, C:0.23, G:0.11, T:0.41
Consensus pattern (20 bp):
TTCATGAGTTGACCCTACTA
Found at i:62423461 original size:140 final size:139
Alignment explanation
Indices: 62423240--62423769 Score: 562
Period size: 140 Copynumber: 3.8 Consensus size: 139
62423230 AACCTATGAA
* * * * * * * *
62423240 CCTTAAAGCTATAGTTGGGAGCTTG-GATTCACACTAACTGTCTTAGAGGTTGCGATATTGAACT
1 CCTTAAAGTTACAGTTAGGAGCTTGAG-CTCACACTAACTAT-TTTGGGGTTGCAATATTGAACT
* * * *
62423304 TGTGAACCTTAAGGCTACAATTGGGAGCTTGAGCTCGCGTTAACTATTTTGGGGGTTACGGTATT
64 TCTGAGCCTTAAAGCTACAATTGGGAGCTTGAGCTCGCGCTAACTATTTTGGGGGTTACGGTATT
*
62423369 AAACTTGTGAG
129 AAACTTGTAAG
* * * *
62423380 CCTTAAAGTCACAGTTAGGAGATTGAGCTCACACTAACTCTTTTGGGGTTTGCGATATTGAACTT
1 CCTTAAAGTTACAGTTAGGAGCTTGAGCTCACACTAACTATTTTGGGG-TTGCAATATTGAACTT
* ** * *
62423445 CTGAGCCTTAAAGCTACAATTGGGAGCTTGAGTTTACACTAACTATTTTGGGGGTTGCGGTATTA
65 CTGAGCCTTAAAGCTACAATTGGGAGCTTGAGCTCGCGCTAACTATTTTGGGGGTTACGGTATTA
62423510 AACTTGTAAG
130 AACTTGTAAG
* * * * * * *
62423520 CCTTACAGTTATAGTT-GAGAGCTTGAACTCACGCTAACTGTTTTGGGGCTACAATATTGAACCT
1 CCTTAAAGTTACAGTTAG-GAGCTTGAGCTCACACTAACTATTTTGGGGTTGCAATATTGAA-CT
* * * * *
62423584 AC-GAGCCTTAAAGCTACAATTGGGAGCTTGAGCTTGTGCTAACTATTTTGGTGGCTACGGTATT
64 TCTGAGCCTTAAAGCTACAATTGGGAGCTTGAGCTCGCGCTAACTATTTTGGGGGTTACGGTATT
* * *
62423648 GAACCTGCAAG
129 AAACTTGTAAG
* ** **
62423659 CCTTAAGGTTACAACTAGGAGCTTGAGCTTGCACTAACTAATTTTGGGGTTGCAATATTGAACTT
1 CCTTAAAGTTACAGTTAGGAGCTTGAGCTCACACTAACT-ATTTTGGGGTTGCAATATTGAACTT
* * * * *
62423724 TTGAGCCTTAAGGTTACAATTTGGAGCTTGAGCTCGTGCTAACTAT
65 CTGAGCCTTAAAGCTACAATTGGGAGCTTGAGCTCGCGCTAACTAT
62423770 CTTTTGGAAG
Statistics
Matches: 325, Mismatches: 58, Indels: 14
0.82 0.15 0.04
Matches are distributed among these distances:
139 109 0.34
140 215 0.66
141 1 0.00
ACGTcount: A:0.26, C:0.17, G:0.24, T:0.33
Consensus pattern (139 bp):
CCTTAAAGTTACAGTTAGGAGCTTGAGCTCACACTAACTATTTTGGGGTTGCAATATTGAACTTC
TGAGCCTTAAAGCTACAATTGGGAGCTTGAGCTCGCGCTAACTATTTTGGGGGTTACGGTATTAA
ACTTGTAAG
Found at i:62423766 original size:70 final size:69
Alignment explanation
Indices: 62423287--62423769 Score: 426
Period size: 70 Copynumber: 6.9 Consensus size: 69
62423277 CTGTCTTAGA
* * * *
62423287 GGTTGCGATATTGAACTTGTGAACCTTAAGGCTACAATTGGGAGCTTGAGCTCGCGTTAACTATT
1 GGTTGCGATATTGAACTTGTGAGCCTTAAAGTTACAATTGGGAGCTTGAGCTCGCGCTAACTATT
62423352 TTGGG
66 TT-GG
* * * * * * * * * *
62423357 GGTTACGGTATTAAACTTGTGAGCCTTAAAGTCACAGTTAGGAGATTGAGCTCACACTAACTCTT
1 GGTTGCGATATTGAACTTGTGAGCCTTAAAGTTACAATTGGGAGCTTGAGCTCGCGCTAACTATT
62423422 TTGG
66 TTGG
* * * ** *
62423426 GGTTTGCGATATTGAACTTCTGAGCCTTAAAGCTACAATTGGGAGCTTGAGTTTACACTAACTAT
1 GG-TTGCGATATTGAACTTGTGAGCCTTAAAGTTACAATTGGGAGCTTGAGCTCGCGCTAACTAT
62423491 TTTGGG
65 TTT-GG
* * * * * * * * * *
62423497 GGTTGCGGTATTAAACTTGTAAGCCTTACAGTTATAGTTGAGAGCTTGAACTCACGCTAACTGTT
1 GGTTGCGATATTGAACTTGTGAGCCTTAAAGTTACAATTGGGAGCTTGAGCTCGCGCTAACTATT
62423562 TTGG
66 TTGG
* * * * ** * * *
62423566 GGCTACAATATTGAACCTACGAGCCTTAAAGCTACAATTGGGAGCTTGAGCTTGTGCTAACTATT
1 GGTTGCGATATTGAACTTGTGAGCCTTAAAGTTACAATTGGGAGCTTGAGCTCGCGCTAACTATT
62423631 TTGG
66 TTGG
* * * * ** * * * * *
62423635 TGGCTACGGTATTGAACCTGCAAGCCTTAAGGTTACAACTAGGAGCTTGAGCTTGCACTAACTAA
1 -GGTTGCGATATTGAACTTGTGAGCCTTAAAGTTACAATTGGGAGCTTGAGCTCGCGCTAACT-A
62423700 TTTTGG
64 TTTTGG
* * * * *
62423706 GGTTGCAATATTGAACTTTTGAGCCTTAAGGTTACAATTTGGAGCTTGAGCTCGTGCTAACTAT
1 GGTTGCGATATTGAACTTGTGAGCCTTAAAGTTACAATTGGGAGCTTGAGCTCGCGCTAACTAT
62423770 CTTTTGGAAG
Statistics
Matches: 327, Mismatches: 82, Indels: 9
0.78 0.20 0.02
Matches are distributed among these distances:
69 58 0.18
70 258 0.79
71 11 0.03
ACGTcount: A:0.26, C:0.17, G:0.24, T:0.33
Consensus pattern (69 bp):
GGTTGCGATATTGAACTTGTGAGCCTTAAAGTTACAATTGGGAGCTTGAGCTCGCGCTAACTATT
TTGG
Found at i:62428403 original size:11 final size:11
Alignment explanation
Indices: 62428389--62428418 Score: 60
Period size: 11 Copynumber: 2.7 Consensus size: 11
62428379 CTATAACATC
62428389 AAAATAATAAT
1 AAAATAATAAT
62428400 AAAATAATAAT
1 AAAATAATAAT
62428411 AAAATAAT
1 AAAATAAT
62428419 CTATTTGACT
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 19 1.00
ACGTcount: A:0.73, C:0.00, G:0.00, T:0.27
Consensus pattern (11 bp):
AAAATAATAAT
Found at i:62432899 original size:68 final size:64
Alignment explanation
Indices: 62432789--62432934 Score: 170
Period size: 68 Copynumber: 2.2 Consensus size: 64
62432779 ATACAGATGG
* * *
62432789 TATGTAGCTAGGTCACATGTATGGTGCTGAGTGCACATCATGT-GTACAAGAGAGCTACGAGACA
1 TATGTAGCTAGGTCACATGGATGATGCTGAGTGCACACCATGTAG-ACAAGAGAGCTACG-G-CA
62432853 TTA
63 -TA
* * *
62432856 TGATGTAGCTAGGTCACATGGGTGATGCT-ATGTGTACACCATGTAGACAAGAGAGCTACGGGAT
1 T-ATGTAGCTAGGTCACATGGATGATGCTGA-GTGCACACCATGTAGACAAGAGAGCTACGGCAT
62432920 A
64 A
62432921 TATGTAGCTAGGTC
1 TATGTAGCTAGGTC
62432935 GCATACGTGG
Statistics
Matches: 70, Mismatches: 6, Indels: 9
0.82 0.07 0.11
Matches are distributed among these distances:
64 13 0.19
65 3 0.04
66 1 0.01
67 3 0.04
68 49 0.70
69 1 0.01
ACGTcount: A:0.29, C:0.16, G:0.29, T:0.27
Consensus pattern (64 bp):
TATGTAGCTAGGTCACATGGATGATGCTGAGTGCACACCATGTAGACAAGAGAGCTACGGCATA
Found at i:62435303 original size:20 final size:20
Alignment explanation
Indices: 62435261--62435311 Score: 57
Period size: 20 Copynumber: 2.5 Consensus size: 20
62435251 TGCATAGTAT
* * *
62435261 CACTGTTCATAATTTTACTC
1 CACTGTTCATAACTTGACCC
*
62435281 CACTGTTCATGACTTGACCC
1 CACTGTTCATAACTTGACCC
*
62435301 CACTATTCATA
1 CACTGTTCATA
62435312 GTACTGATAT
Statistics
Matches: 25, Mismatches: 6, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
20 25 1.00
ACGTcount: A:0.25, C:0.29, G:0.08, T:0.37
Consensus pattern (20 bp):
CACTGTTCATAACTTGACCC
Found at i:62437062 original size:58 final size:61
Alignment explanation
Indices: 62436977--62437090 Score: 155
Period size: 59 Copynumber: 1.9 Consensus size: 61
62436967 ACCTTATGGA
* *
62436977 TTTGATTTTTAAGAAAAAAATGATGCAATTT--GTGTTATTTGATTTCTAGG-TTTTGGGGT
1 TTTGATTTTTAAGAAAAAAATAATGCAATTTAGGT-TTATTTGATTTATAGGATTTTGGGGT
* *
62437036 TTTGATTTTTATG-ATAAAATAATGCAATTTAGGTTTATTTGATTTATAGGATTTT
1 TTTGATTTTTAAGAAAAAAATAATGCAATTTAGGTTTATTTGATTTATAGGATTTT
62437091 TCTTCTTCTC
Statistics
Matches: 48, Mismatches: 4, Indels: 5
0.84 0.07 0.09
Matches are distributed among these distances:
58 15 0.31
59 27 0.56
60 6 0.12
ACGTcount: A:0.29, C:0.03, G:0.18, T:0.50
Consensus pattern (61 bp):
TTTGATTTTTAAGAAAAAAATAATGCAATTTAGGTTTATTTGATTTATAGGATTTTGGGGT
Found at i:62437773 original size:30 final size:30
Alignment explanation
Indices: 62437737--62437797 Score: 122
Period size: 30 Copynumber: 2.0 Consensus size: 30
62437727 TATTTATAAG
62437737 CTCCTTTACATTCAATTAATAAATGTATTA
1 CTCCTTTACATTCAATTAATAAATGTATTA
62437767 CTCCTTTACATTCAATTAATAAATGTATTA
1 CTCCTTTACATTCAATTAATAAATGTATTA
62437797 C
1 C
62437798 ATTCAATCAA
Statistics
Matches: 31, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
30 31 1.00
ACGTcount: A:0.36, C:0.18, G:0.03, T:0.43
Consensus pattern (30 bp):
CTCCTTTACATTCAATTAATAAATGTATTA
Found at i:62437800 original size:22 final size:22
Alignment explanation
Indices: 62437772--62437814 Score: 77
Period size: 22 Copynumber: 2.0 Consensus size: 22
62437762 TATTACTCCT
*
62437772 TTACATTCAATTAATAAATGTA
1 TTACATTCAATCAATAAATGTA
62437794 TTACATTCAATCAATAAATGT
1 TTACATTCAATCAATAAATGT
62437815 GTATTAAGTT
Statistics
Matches: 20, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
22 20 1.00
ACGTcount: A:0.44, C:0.12, G:0.05, T:0.40
Consensus pattern (22 bp):
TTACATTCAATCAATAAATGTA
Found at i:62440005 original size:40 final size:40
Alignment explanation
Indices: 62439950--62440054 Score: 176
Period size: 40 Copynumber: 2.6 Consensus size: 40
62439940 CGGATGATAA
*
62439950 CCGGGCTAAGTCCCGAAGGCATTTGTGCTAGTGACTA-ATT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTGACTATA-T
*
62439990 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTGACTATAT
62440030 CCGGGCTAAGTCCCGAAGGCATTTG
1 CCGGGCTAAGTCCCGAAGGCATTTG
62440055 AGCAAGTAGT
Statistics
Matches: 62, Mismatches: 2, Indels: 2
0.94 0.03 0.03
Matches are distributed among these distances:
40 61 0.98
41 1 0.02
ACGTcount: A:0.22, C:0.24, G:0.29, T:0.26
Consensus pattern (40 bp):
CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTGACTATAT
Found at i:62440069 original size:40 final size:39
Alignment explanation
Indices: 62439950--62440086 Score: 161
Period size: 40 Copynumber: 3.5 Consensus size: 39
62439940 CGGATGATAA
* *
62439950 CCGGGCTAAGTCCCGAAGGCATTTGTGCTAGTGACTA-ATT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCAAGT-ATTATA-T
* *
62439990 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCAAG-TATTATAT
*
62440030 CCGGGCTAAGTCCCGAAGGCATTTGAGCAAGTAGTTATAT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCAAGTA-TTATAT
* *
62440070 TC-GGCTAAATCCCGAAG
1 CCGGGCTAAGTCCCGAAG
62440087 ATGCTTGGGC
Statistics
Matches: 88, Mismatches: 6, Indels: 7
0.87 0.06 0.07
Matches are distributed among these distances:
39 16 0.18
40 70 0.80
41 2 0.02
ACGTcount: A:0.25, C:0.23, G:0.27, T:0.26
Consensus pattern (39 bp):
CCGGGCTAAGTCCCGAAGGCATTTGTGCAAGTATTATAT
Found at i:62440354 original size:22 final size:21
Alignment explanation
Indices: 62440313--62440357 Score: 56
Period size: 22 Copynumber: 2.0 Consensus size: 21
62440303 GAATGTGCAT
62440313 ATATGAAGTTATCCATTTAGCC
1 ATATGAAGTTATCCA-TTAGCC
62440335 ATATGAATGTTATACC-TTAGCC
1 ATATGAA-GTTAT-CCATTAGCC
62440357 A
1 A
62440358 AAACTAATTT
Statistics
Matches: 21, Mismatches: 0, Indels: 4
0.84 0.00 0.16
Matches are distributed among these distances:
22 14 0.67
23 5 0.24
24 2 0.10
ACGTcount: A:0.33, C:0.18, G:0.13, T:0.36
Consensus pattern (21 bp):
ATATGAAGTTATCCATTAGCC
Found at i:62444573 original size:26 final size:24
Alignment explanation
Indices: 62444539--62444602 Score: 69
Period size: 26 Copynumber: 2.6 Consensus size: 24
62444529 AATATAGTTC
62444539 GAAAGATAAGAAACAAAATAAGTTTAA
1 GAAA-ATAAGAAACAAAATAA--TTAA
62444566 GAAAATAAGAATA-AAAATAATTAA
1 GAAAATAAGAA-ACAAAATAATTAA
*
62444590 -AAAATAATAAACA
1 GAAAATAAGAAACA
62444603 TAAACATAAA
Statistics
Matches: 34, Mismatches: 1, Indels: 8
0.79 0.02 0.19
Matches are distributed among these distances:
22 1 0.03
23 10 0.29
24 4 0.12
26 14 0.41
27 5 0.15
ACGTcount: A:0.69, C:0.03, G:0.09, T:0.19
Consensus pattern (24 bp):
GAAAATAAGAAACAAAATAATTAA
Found at i:62446075 original size:19 final size:19
Alignment explanation
Indices: 62446047--62446092 Score: 65
Period size: 19 Copynumber: 2.4 Consensus size: 19
62446037 GCTAGAATAT
* *
62446047 ATAAAGAATAATAATACGA
1 ATAAATAATAATAATAAGA
*
62446066 ATAAATAATAATAATAATA
1 ATAAATAATAATAATAAGA
62446085 ATAAATAA
1 ATAAATAA
62446093 AACCCTAACA
Statistics
Matches: 24, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
19 24 1.00
ACGTcount: A:0.67, C:0.02, G:0.04, T:0.26
Consensus pattern (19 bp):
ATAAATAATAATAATAAGA
Found at i:62455401 original size:22 final size:22
Alignment explanation
Indices: 62455376--62455418 Score: 77
Period size: 22 Copynumber: 2.0 Consensus size: 22
62455366 ATAAGCTCAT
*
62455376 TTACATTCAATTAATAAATGTA
1 TTACATTCAATCAATAAATGTA
62455398 TTACATTCAATCAATAAATGT
1 TTACATTCAATCAATAAATGT
62455419 GAATTAAGTT
Statistics
Matches: 20, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
22 20 1.00
ACGTcount: A:0.44, C:0.12, G:0.05, T:0.40
Consensus pattern (22 bp):
TTACATTCAATCAATAAATGTA
Found at i:62459323 original size:39 final size:40
Alignment explanation
Indices: 62459228--62459489 Score: 337
Period size: 39 Copynumber: 6.7 Consensus size: 40
62459218 TTGAATGATG
*
62459228 TCCGGGCTAAGTCCCGAAGGC--TTGTGCTA-AGTGAC-AAT
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGA-T-ACTAAT
*
62459266 ATCCGGACTAAGAT-CCGAAGGCATTTGTGCGAGATACTAAT
1 -TCCGGGCTAAG-TCCCGAAGGCATTTGTGCGAGATACTAAT
62459307 TCCGGGCTAAG-CCCGAAGGCATTTGTGCGAGATACTAAT
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGATACTAAT
62459346 TCCGGGCTAAG-CCCGAAGGCATTTGTGCGAGATACTAAT
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGATACTAAT
* *
62459385 TCCGGGCTAAG-CCCGAAGGCATTTGTGCGAGTTACTAAA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGATACTAAT
*
62459424 TCCGGGTTAAGTCCCGAAGGCATTTGTGCGA-ATTACT-AT
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGA-TACTAAT
* *
62459463 AACCGGGCTATGTCCCGAAGGCATTTG
1 -TCCGGGCTAAGTCCCGAAGGCATTTG
62459490 AACGAGGAGC
Statistics
Matches: 203, Mismatches: 11, Indels: 17
0.88 0.05 0.07
Matches are distributed among these distances:
39 132 0.65
40 59 0.29
41 11 0.05
42 1 0.00
ACGTcount: A:0.26, C:0.23, G:0.27, T:0.24
Consensus pattern (40 bp):
TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGATACTAAT
Found at i:62467814 original size:40 final size:40
Alignment explanation
Indices: 62467725--62467988 Score: 360
Period size: 40 Copynumber: 6.7 Consensus size: 40
62467715 TTGAATGATG
* *
62467725 TCCGGGCTAAGTCCCGAAGGC--TTGTGCTAAGTGAC-AATA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGC-GAGTTACTAA-A
* * *
62467764 TCCGGACTAAGAT-CCGAAGGCATTTGTGCGAGATACTAAT
1 TCCGGGCTAAG-TCCCGAAGGCATTTGTGCGAGTTACTAAA
62467804 TCCGGGCTAAG-CCCGAAGGCATTTGTGCGAGTTACTAAA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAA
*
62467843 TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAA
*
62467883 TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAA
* *
62467923 TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAATTACTATAA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTA-AA
*
62467964 -CCGGGCTATGTCCCGAAGGCATTTG
1 TCCGGGCTAAGTCCCGAAGGCATTTG
62467989 AACGAGGAGC
Statistics
Matches: 206, Mismatches: 12, Indels: 13
0.89 0.05 0.06
Matches are distributed among these distances:
39 53 0.26
40 143 0.69
41 10 0.05
ACGTcount: A:0.25, C:0.22, G:0.27, T:0.26
Consensus pattern (40 bp):
TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAA
Found at i:62468006 original size:120 final size:118
Alignment explanation
Indices: 62467725--62468021 Score: 338
Period size: 119 Copynumber: 2.5 Consensus size: 118
62467715 TTGAATGATG
* *
62467725 TCCGGGCTAAGTCCCGAAGGC-TTGTG--CTAAGTGAC-AATATCCGGACTAAGAT-CCGAAGGC
1 TCCGGGCTAAGTCCCGAAGGCATT-TGAAC-GAGTGACTAA-ATCCGG-TTAA-ATCCCGAAGGC
* *
62467785 ATTTGTGCGAGATACTAATTCCGGGCTAAGCCCGAAGGCATTTGTGCGAGTTACTAAA
61 ATTTGTGCGAGATACTAAATCCGGGCTAAGCCCGAAGGCATTTGTGCGAATTACTAAA
* ** * *
62467843 TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAATCCGGGTTAAGTCCCGAAGGCATTT
1 TCCGGGCTAAGTCCCGAAGGCATTTGAACGAGTGACTAAATCC-GGTTAAATCCCGAAGGCATTT
* *
62467908 GTGCGAGTTACTAAATCCGGGTTAAGTCCCGAAGGCATTTGTGCGAATTACTATAA
65 GTGCGAGATACTAAATCCGGGCTAAG-CCCGAAGGCATTTGTGCGAATTACTA-AA
* * *
62467964 -CCGGGCTATGTCCCGAAGGCATTTGAACGAG-GAGCTATATCCGGTTAAATTCCGAAGG
1 TCCGGGCTAAGTCCCGAAGGCATTTGAACGAGTGA-CTAAATCCGGTTAAATCCCGAAGG
62468022 TACGTGATTT
Statistics
Matches: 153, Mismatches: 17, Indels: 17
0.82 0.09 0.09
Matches are distributed among these distances:
118 23 0.15
119 64 0.42
120 64 0.42
121 2 0.01
ACGTcount: A:0.26, C:0.21, G:0.27, T:0.25
Consensus pattern (118 bp):
TCCGGGCTAAGTCCCGAAGGCATTTGAACGAGTGACTAAATCCGGTTAAATCCCGAAGGCATTTG
TGCGAGATACTAAATCCGGGCTAAGCCCGAAGGCATTTGTGCGAATTACTAAA
Found at i:62471039 original size:43 final size:43
Alignment explanation
Indices: 62470986--62471125 Score: 190
Period size: 43 Copynumber: 3.3 Consensus size: 43
62470976 TTATTTTAAA
*
62470986 AAACGCCGCTAAAGACCATGACTTTTAGCGGCGCTTTTTTCGC
1 AAACGCCGCTAAAGACCATGACTTTTAGCGGCGCTTTTTTCAC
* * * ** *
62471029 AAACGTCGCTAAAGACCATGACCTTTAGCGACGCTTTTCCCAA
1 AAACGCCGCTAAAGACCATGACTTTTAGCGGCGCTTTTTTCAC
* *
62471072 AAACGCCGCTAAAGACCATGACTTTTAGCGGCACCTTTTTCAC
1 AAACGCCGCTAAAGACCATGACTTTTAGCGGCGCTTTTTTCAC
*
62471115 AAATGCCGCTA
1 AAACGCCGCTA
62471126 TAAAACAGAC
Statistics
Matches: 81, Mismatches: 16, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
43 81 1.00
ACGTcount: A:0.28, C:0.29, G:0.18, T:0.25
Consensus pattern (43 bp):
AAACGCCGCTAAAGACCATGACTTTTAGCGGCGCTTTTTTCAC
Found at i:62471165 original size:42 final size:41
Alignment explanation
Indices: 62470985--62471171 Score: 137
Period size: 43 Copynumber: 4.4 Consensus size: 41
62470975 ATTATTTTAA
* * * * *
62470985 AAAACGCCGCTAAAGACCATGACTTTTAGCGGCGCTTTTTTCGC
1 AAAACGCCGCTAAA-AACATGACCTTTAGCGACAC--TTTTCAC
* * * *
62471029 -AAACGTCGCTAAAGACCATGACCTTTAGCGACGCTTTTCCC
1 AAAACGCCGCTAAA-AACATGACCTTTAGCGACACTTTTCAC
* * *
62471070 AAAAACGCCGCTAAAGACCATGACTTTTAGCGGCACCTTTTTCAC
1 -AAAACGCCGCTAAA-AACATGACCTTTAGCGACA-C-TTTTCAC
* *
62471115 -AAATGCCGCTATAAAACA-GACCTTTAGCGACACTTATCAC
1 AAAACGCCGCTA-AAAACATGACCTTTAGCGACACTTTTCAC
62471155 ATAAACGCCGCTAAAAA
1 A-AAACGCCGCTAAAAA
62471172 ATATAACTTT
Statistics
Matches: 121, Mismatches: 15, Indels: 17
0.79 0.10 0.11
Matches are distributed among these distances:
40 6 0.05
41 11 0.09
42 22 0.18
43 73 0.60
44 3 0.02
45 6 0.05
ACGTcount: A:0.32, C:0.28, G:0.16, T:0.24
Consensus pattern (41 bp):
AAAACGCCGCTAAAAACATGACCTTTAGCGACACTTTTCAC
Found at i:62472606 original size:22 final size:23
Alignment explanation
Indices: 62472573--62472616 Score: 63
Period size: 22 Copynumber: 2.0 Consensus size: 23
62472563 ATTTGAAATG
* *
62472573 TTTTATAATATATTTTTTTAAAA
1 TTTTATAATATATATATTTAAAA
62472596 TTTT-TAATATATATATTTAAA
1 TTTTATAATATATATATTTAAA
62472617 TATTATTTTT
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
22 15 0.79
23 4 0.21
ACGTcount: A:0.41, C:0.00, G:0.00, T:0.59
Consensus pattern (23 bp):
TTTTATAATATATATATTTAAAA
Found at i:62472627 original size:13 final size:13
Alignment explanation
Indices: 62472595--62472634 Score: 55
Period size: 13 Copynumber: 3.1 Consensus size: 13
62472585 TTTTTTTAAA
62472595 ATTTTT-AATATAT
1 ATTTTTAAATAT-T
*
62472608 ATATTTAAATATT
1 ATTTTTAAATATT
62472621 ATTTTTAAATATT
1 ATTTTTAAATATT
62472634 A
1 A
62472635 AATAAATTTT
Statistics
Matches: 24, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
13 19 0.79
14 5 0.21
ACGTcount: A:0.42, C:0.00, G:0.00, T:0.57
Consensus pattern (13 bp):
ATTTTTAAATATT
Found at i:62472730 original size:16 final size:17
Alignment explanation
Indices: 62472703--62472738 Score: 56
Period size: 16 Copynumber: 2.2 Consensus size: 17
62472693 TTATTATTAG
62472703 TTTTATAATATTTTAAA
1 TTTTATAATATTTTAAA
*
62472720 TTTTA-AATATTTTTAA
1 TTTTATAATATTTTAAA
62472736 TTT
1 TTT
62472739 GTTTTAAAGA
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
16 13 0.72
17 5 0.28
ACGTcount: A:0.36, C:0.00, G:0.00, T:0.64
Consensus pattern (17 bp):
TTTTATAATATTTTAAA
Found at i:62472763 original size:20 final size:20
Alignment explanation
Indices: 62472710--62472776 Score: 77
Period size: 20 Copynumber: 3.4 Consensus size: 20
62472700 TAGTTTTATA
62472710 ATATTTTAAATTTT-AA-AT
1 ATATTTTAAATTTTAAAGAT
*
62472728 AT-TTTTAATTTGTTTTAAAGAT
1 ATATTTTAA---ATTTTAAAGAT
62472750 ATATTTTAAATTTTAAAGAT
1 ATATTTTAAATTTTAAAGAT
62472770 ATATTTT
1 ATATTTT
62472777 TTAATAATAT
Statistics
Matches: 41, Mismatches: 2, Indels: 10
0.77 0.04 0.19
Matches are distributed among these distances:
17 6 0.15
18 2 0.05
20 21 0.51
21 2 0.05
22 4 0.10
23 6 0.15
ACGTcount: A:0.39, C:0.00, G:0.04, T:0.57
Consensus pattern (20 bp):
ATATTTTAAATTTTAAAGAT
Found at i:62472937 original size:14 final size:15
Alignment explanation
Indices: 62472918--62472957 Score: 57
Period size: 14 Copynumber: 2.8 Consensus size: 15
62472908 ATCTTTAAAA
62472918 ATAATTTAAAA-ATC
1 ATAATTTAAAATATC
*
62472932 ATAATTTAAAATATT
1 ATAATTTAAAATATC
62472947 AT-ATTTAAAAT
1 ATAATTTAAAAT
62472958 TTAAAATATA
Statistics
Matches: 24, Mismatches: 1, Indels: 2
0.89 0.04 0.07
Matches are distributed among these distances:
14 20 0.83
15 4 0.17
ACGTcount: A:0.55, C:0.03, G:0.00, T:0.42
Consensus pattern (15 bp):
ATAATTTAAAATATC
Found at i:62472972 original size:23 final size:23
Alignment explanation
Indices: 62472934--62472990 Score: 100
Period size: 23 Copynumber: 2.6 Consensus size: 23
62472924 TAAAAATCAT
62472934 AATTT-AAA-ATATTATATTTAA
1 AATTTAAAATATATTATATTTAA
62472955 AATTTAAAATATATTATATTTAA
1 AATTTAAAATATATTATATTTAA
62472978 AATTTAAAATATA
1 AATTTAAAATATA
62472991 CATTAAAAAT
Statistics
Matches: 34, Mismatches: 0, Indels: 2
0.94 0.00 0.06
Matches are distributed among these distances:
21 5 0.15
22 3 0.09
23 26 0.76
ACGTcount: A:0.54, C:0.00, G:0.00, T:0.46
Consensus pattern (23 bp):
AATTTAAAATATATTATATTTAA
Found at i:62473016 original size:44 final size:44
Alignment explanation
Indices: 62472934--62473018 Score: 109
Period size: 44 Copynumber: 1.9 Consensus size: 44
62472924 TAAAAATCAT
* *
62472934 AATTTAAAATATTATATTTAAAATTTAAAATATATTATATTTAA
1 AATTTAAAATATTACATTAAAAATTTAAAATATATTATATTTAA
* * *
62472978 AATTTAAAATA-TACATTAAAAATATTTAAATCTTTTATATT
1 AATTTAAAATATTACATTAAAAAT-TTAAAATATATTATATT
62473019 ATTAAAAAAT
Statistics
Matches: 35, Mismatches: 5, Indels: 2
0.83 0.12 0.05
Matches are distributed among these distances:
43 10 0.29
44 25 0.71
ACGTcount: A:0.51, C:0.02, G:0.00, T:0.47
Consensus pattern (44 bp):
AATTTAAAATATTACATTAAAAATTTAAAATATATTATATTTAA
Found at i:62473067 original size:23 final size:21
Alignment explanation
Indices: 62473020--62473073 Score: 74
Period size: 21 Copynumber: 2.6 Consensus size: 21
62473010 TTTTATATTA
*
62473020 TTAAAAAAT-ATATGTAATAT
1 TTAAAAAATAATATGTAAAAT
*
62473040 TTAAAAAATAATATTTAAAAT
1 TTAAAAAATAATATGTAAAAT
62473061 TTATAAAAATAAT
1 TTA-AAAAATAAT
62473074 TTTGAATATA
Statistics
Matches: 30, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
20 9 0.30
21 12 0.40
22 9 0.30
ACGTcount: A:0.59, C:0.00, G:0.02, T:0.39
Consensus pattern (21 bp):
TTAAAAAATAATATGTAAAAT
Found at i:62473087 original size:22 final size:22
Alignment explanation
Indices: 62473023--62473087 Score: 73
Period size: 22 Copynumber: 3.0 Consensus size: 22
62473013 TATATTATTA
*
62473023 AAAAAT-ATATGTAATATTTA-
1 AAAAATAATATTTAATATTTAT
*
62473043 AAAAATAATATTTAAAATTTAT
1 AAAAATAATATTTAATATTTAT
*
62473065 AAAAATAAT-TTTGAATATATAT
1 AAAAATAATATTT-AATATTTAT
62473087 A
1 A
62473088 TTTAAAATTT
Statistics
Matches: 38, Mismatches: 4, Indels: 4
0.83 0.09 0.09
Matches are distributed among these distances:
20 6 0.16
21 15 0.39
22 17 0.45
ACGTcount: A:0.57, C:0.00, G:0.03, T:0.40
Consensus pattern (22 bp):
AAAAATAATATTTAATATTTAT
Found at i:62473170 original size:9 final size:9
Alignment explanation
Indices: 62473144--62473194 Score: 50
Period size: 10 Copynumber: 5.4 Consensus size: 9
62473134 TCAAGTTTTA
*
62473144 AAAATTAAT
1 AAAATAAAT
62473153 AATAATAAAT
1 AA-AATAAAT
62473163 AAAATAAAT
1 AAAATAAAT
62473172 -AAATAAAAT
1 AAAAT-AAAT
*
62473181 AAAGATAAAG
1 AAA-ATAAAT
62473191 AAAA
1 AAAA
62473195 AACTTAAAAA
Statistics
Matches: 36, Mismatches: 2, Indels: 8
0.78 0.04 0.17
Matches are distributed among these distances:
8 4 0.11
9 14 0.39
10 16 0.44
11 2 0.06
ACGTcount: A:0.75, C:0.00, G:0.04, T:0.22
Consensus pattern (9 bp):
AAAATAAAT
Found at i:62473174 original size:13 final size:13
Alignment explanation
Indices: 62473156--62473183 Score: 56
Period size: 13 Copynumber: 2.2 Consensus size: 13
62473146 AATTAATAAT
62473156 AATAAATAAAATA
1 AATAAATAAAATA
62473169 AATAAATAAAATA
1 AATAAATAAAATA
62473182 AA
1 AA
62473184 GATAAAGAAA
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 15 1.00
ACGTcount: A:0.79, C:0.00, G:0.00, T:0.21
Consensus pattern (13 bp):
AATAAATAAAATA
Found at i:62475140 original size:46 final size:44
Alignment explanation
Indices: 62475056--62475175 Score: 127
Period size: 46 Copynumber: 2.6 Consensus size: 44
62475046 CGAGAGCTAG
* * *
62475056 TGTAAGACATGTTTGGGACATGCATCGGCCTCATGATGTAAGCCAC
1 TGTAAGACATGTCTGGGACATGCATCGGACTCATGATGT--GCCAA
* *
62475102 TGTAAGACATGTCTGGGACATGCGTC-GACTACGA-GATGTGTCAA
1 TGTAAGACATGTCTGGGACATGCATCGGACT-C-ATGATGTGCCAA
62475146 TGTAAGACCATGTCTGGGACATGGCATCGG
1 TGTAAGA-CATGTCTGGGACAT-GCATCGG
62475176 CATGTATAGA
Statistics
Matches: 63, Mismatches: 6, Indels: 9
0.81 0.08 0.12
Matches are distributed among these distances:
44 10 0.16
45 17 0.27
46 34 0.54
47 2 0.03
ACGTcount: A:0.26, C:0.20, G:0.29, T:0.25
Consensus pattern (44 bp):
TGTAAGACATGTCTGGGACATGCATCGGACTCATGATGTGCCAA
Found at i:62482743 original size:46 final size:46
Alignment explanation
Indices: 62482597--62482761 Score: 163
Period size: 46 Copynumber: 3.5 Consensus size: 46
62482587 TTTGTGCGCT
* * * * *
62482597 AGTGTAAGACATTTCTGGGACATGCATTGGCCACACT-ATGAGAGCC
1 AGTGTAAGACATGTCTAGGACATGCATCGGCCTC-GTGATGAGAGCC
** * * * *
62482643 AGAATAAGACCATGTCTAGGACATGGCATCGGCATTGAGATGAGAGCT
1 AGTGTAAGA-CATGTCTAGGACAT-GCATCGGCCTCGTGATGAGAGCC
* *
62482691 AGTGTAAGACATGTCTGGGACATGCATCGACCTCGTGATGTA-AGCC
1 AGTGTAAGACATGTCTAGGACATGCATCGGCCTCGTGATG-AGAGCC
62482737 AGTGTAAGACATGTCTAGGACATGC
1 AGTGTAAGACATGTCTAGGACATGC
62482762 GTCAGTTACG
Statistics
Matches: 95, Mismatches: 20, Indels: 8
0.77 0.16 0.07
Matches are distributed among these distances:
46 47 0.49
47 26 0.27
48 22 0.23
ACGTcount: A:0.30, C:0.19, G:0.28, T:0.23
Consensus pattern (46 bp):
AGTGTAAGACATGTCTAGGACATGCATCGGCCTCGTGATGAGAGCC
Found at i:62482840 original size:48 final size:47
Alignment explanation
Indices: 62482776--62482955 Score: 136
Period size: 48 Copynumber: 3.8 Consensus size: 47
62482766 GTTACGAGAT
* * *
62482776 GTGTTAGTGTAAGACCATGTTTGGGACATGGCATCGATACGTATAGA
1 GTGTCAGTGTAAGACCATGTCTGGGACATGGCATCGATACATATAGA
* * * *
62482823 GGTGTCAGTGTAAGACCATGCCTGGGACATGGCGTCGACCT-CAATTTCGA
1 -GTGTCAGTGTAAGACCATGTCTGGGACATGGCATCGA--TAC-ATATAGA
* * * *
62482873 -TAGTCAGTGTAGGACCATGTTTGGGACATGGCATC-A-ACTTGATGGA
1 GT-GTCAGTGTAAGACCATGTCTGGGACATGGCATCGATACAT-ATAGA
* *
62482919 -TGAGCTAGTGTAAGACCATGTCTGTGACATGGCATCG
1 GTG-TC-AGTGTAAGACCATGTCTGGGACATGGCATCG
62482956 GCATTACACC
Statistics
Matches: 105, Mismatches: 18, Indels: 18
0.74 0.13 0.13
Matches are distributed among these distances:
45 2 0.02
46 6 0.06
47 27 0.26
48 35 0.33
49 30 0.29
50 5 0.05
ACGTcount: A:0.25, C:0.18, G:0.30, T:0.27
Consensus pattern (47 bp):
GTGTCAGTGTAAGACCATGTCTGGGACATGGCATCGATACATATAGA
Found at i:62487629 original size:48 final size:47
Alignment explanation
Indices: 62487558--62487792 Score: 265
Period size: 48 Copynumber: 4.9 Consensus size: 47
62487548 AGGGTAAGAT
* * **
62487558 GTCGATGCCATGTCCCAGACATGGTCTTACACTAGCCCACATGTCGAG
1 GTCGATGCCATGT-CCAGACATGGTCTTACACTAGCTCACATATAAAG
** *
62487606 GTCGATGCCATGTCCTAGACATGGTCTTACACTAGCTCTTATATAAAT
1 GTCGATGCCATGTCC-AGACATGGTCTTACACTAGCTCACATATAAAG
* ***
62487654 GTCGATGCCATGTTCCAAACATGGTCTTACACTAGCTCACATACCGAG
1 GTCGATGCCATG-TCCAGACATGGTCTTACACTAGCTCACATATAAAG
* * * *
62487702 GCCAATGCCATGTCCCAGACATGGTCTTACACTAGCTCTCATATAAAT
1 GTCGATGCCATGT-CCAGACATGGTCTTACACTAGCTCACATATAAAG
*
62487750 GTCGATGCCATGTTCCAAACATGGTCTTACA-TCAGCTCACATA
1 GTCGATGCCATG-TCCAGACATGGTCTTACACT-AGCTCACATA
62487793 ACCCTAGTAA
Statistics
Matches: 156, Mismatches: 26, Indels: 10
0.81 0.14 0.05
Matches are distributed among these distances:
47 4 0.03
48 148 0.95
49 4 0.03
ACGTcount: A:0.27, C:0.28, G:0.18, T:0.27
Consensus pattern (47 bp):
GTCGATGCCATGTCCAGACATGGTCTTACACTAGCTCACATATAAAG
Found at i:62487722 original size:96 final size:96
Alignment explanation
Indices: 62487556--62487792 Score: 377
Period size: 96 Copynumber: 2.5 Consensus size: 96
62487546 AAAGGGTAAG
* * * ** * *
62487556 ATGTCGATGCCATGTCCCAGACATGGTCTTACACTAGCCCACATGTCGAGGTCGATGCCATGTCC
1 ATGTCGATGCCATGTTCCAAACATGGTCTTACACTAGCTCACATACCGAGGCCAATGCCATGTCC
* *
62487621 TAGACATGGTCTTACACTAGCTCTTATATAA
66 CAGACATGGTCTTACACTAGCTCTCATATAA
62487652 ATGTCGATGCCATGTTCCAAACATGGTCTTACACTAGCTCACATACCGAGGCCAATGCCATGTCC
1 ATGTCGATGCCATGTTCCAAACATGGTCTTACACTAGCTCACATACCGAGGCCAATGCCATGTCC
62487717 CAGACATGGTCTTACACTAGCTCTCATATAA
66 CAGACATGGTCTTACACTAGCTCTCATATAA
62487748 ATGTCGATGCCATGTTCCAAACATGGTCTTACA-TCAGCTCACATA
1 ATGTCGATGCCATGTTCCAAACATGGTCTTACACT-AGCTCACATA
62487793 ACCCTAGTAA
Statistics
Matches: 131, Mismatches: 9, Indels: 2
0.92 0.06 0.01
Matches are distributed among these distances:
95 1 0.01
96 130 0.99
ACGTcount: A:0.27, C:0.28, G:0.18, T:0.27
Consensus pattern (96 bp):
ATGTCGATGCCATGTTCCAAACATGGTCTTACACTAGCTCACATACCGAGGCCAATGCCATGTCC
CAGACATGGTCTTACACTAGCTCTCATATAA
Found at i:62492911 original size:12 final size:12
Alignment explanation
Indices: 62492894--62492923 Score: 60
Period size: 12 Copynumber: 2.5 Consensus size: 12
62492884 TCTTTTTACT
62492894 CTCATTACTATA
1 CTCATTACTATA
62492906 CTCATTACTATA
1 CTCATTACTATA
62492918 CTCATT
1 CTCATT
62492924 GTTTCATCTT
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 18 1.00
ACGTcount: A:0.30, C:0.27, G:0.00, T:0.43
Consensus pattern (12 bp):
CTCATTACTATA
Found at i:62493490 original size:17 final size:18
Alignment explanation
Indices: 62493470--62493512 Score: 52
Period size: 19 Copynumber: 2.4 Consensus size: 18
62493460 AATCAAGTTT
62493470 AATATTATTA-TATTAAA
1 AATATTATTATTATTAAA
* *
62493487 AATATTTTTTATTTTTAAA
1 AATA-TTATTATTATTAAA
62493506 AATATTA
1 AATATTA
62493513 AAATAAAATA
Statistics
Matches: 21, Mismatches: 3, Indels: 3
0.78 0.11 0.11
Matches are distributed among these distances:
17 4 0.19
18 7 0.33
19 10 0.48
ACGTcount: A:0.47, C:0.00, G:0.00, T:0.53
Consensus pattern (18 bp):
AATATTATTATTATTAAA
Found at i:62493660 original size:19 final size:19
Alignment explanation
Indices: 62493638--62493693 Score: 57
Period size: 19 Copynumber: 3.2 Consensus size: 19
62493628 ATATTTCAAT
62493638 TTTATTTTAATAATAAATA
1 TTTATTTTAATAATAAATA
** *
62493657 TTTATTACAATTATAAATA
1 TTTATTTTAATAATAAATA
62493676 --TA--TTAATAATAAATA
1 TTTATTTTAATAATAAATA
62493691 TTT
1 TTT
62493694 TATAGTATAA
Statistics
Matches: 29, Mismatches: 6, Indels: 6
0.71 0.15 0.15
Matches are distributed among these distances:
15 10 0.34
17 3 0.10
19 16 0.55
ACGTcount: A:0.48, C:0.02, G:0.00, T:0.50
Consensus pattern (19 bp):
TTTATTTTAATAATAAATA
Found at i:62493689 original size:15 final size:15
Alignment explanation
Indices: 62493644--62493691 Score: 51
Period size: 15 Copynumber: 2.9 Consensus size: 15
62493634 CAATTTTATT
62493644 TTAATAATAAATATTTA
1 TTAATAATAAATA--TA
*
62493661 TTACAATTATAAATATA
1 TT--AATAATAAATATA
62493678 TTAATAATAAATAT
1 TTAATAATAAATAT
62493692 TTTATAGTAT
Statistics
Matches: 27, Mismatches: 2, Indels: 6
0.77 0.06 0.17
Matches are distributed among these distances:
15 11 0.41
17 6 0.22
19 10 0.37
ACGTcount: A:0.54, C:0.02, G:0.00, T:0.44
Consensus pattern (15 bp):
TTAATAATAAATATA
Found at i:62495357 original size:19 final size:19
Alignment explanation
Indices: 62495321--62495359 Score: 51
Period size: 19 Copynumber: 2.1 Consensus size: 19
62495311 GTTTCATCAT
* *
62495321 AGTAAAATAAAATAATAAA
1 AGTAAAACAAAACAATAAA
*
62495340 AGTAAAACAAAACCATAAA
1 AGTAAAACAAAACAATAAA
62495359 A
1 A
62495360 ATAATTAAAA
Statistics
Matches: 17, Mismatches: 3, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
19 17 1.00
ACGTcount: A:0.72, C:0.08, G:0.05, T:0.15
Consensus pattern (19 bp):
AGTAAAACAAAACAATAAA
Found at i:62498220 original size:24 final size:24
Alignment explanation
Indices: 62498188--62498238 Score: 93
Period size: 24 Copynumber: 2.1 Consensus size: 24
62498178 TTTGTTTGTG
62498188 TCTATTAGTTATATAAATAAATAA
1 TCTATTAGTTATATAAATAAATAA
*
62498212 TCTATTAGTTATATAAATAAATGA
1 TCTATTAGTTATATAAATAAATAA
62498236 TCT
1 TCT
62498239 TTTATTTAAG
Statistics
Matches: 26, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
24 26 1.00
ACGTcount: A:0.45, C:0.06, G:0.06, T:0.43
Consensus pattern (24 bp):
TCTATTAGTTATATAAATAAATAA
Found at i:62498885 original size:29 final size:27
Alignment explanation
Indices: 62498853--62498909 Score: 71
Period size: 29 Copynumber: 2.0 Consensus size: 27
62498843 TTATCGATAA
62498853 TTTTTATAA-ATTTATAATATTTTACAAC
1 TTTTTA-AATATTTATAATATTTTA-AAC
*
62498881 TTTTTAAATTTTTTATAATATTTTAAAC
1 TTTTTAAA-TATTTATAATATTTTAAAC
62498909 T
1 T
62498910 ACATCTAGAA
Statistics
Matches: 26, Mismatches: 1, Indels: 4
0.84 0.03 0.13
Matches are distributed among these distances:
27 2 0.08
28 10 0.38
29 14 0.54
ACGTcount: A:0.37, C:0.05, G:0.00, T:0.58
Consensus pattern (27 bp):
TTTTTAAATATTTATAATATTTTAAAC
Found at i:62498904 original size:19 final size:19
Alignment explanation
Indices: 62498853--62498907 Score: 53
Period size: 19 Copynumber: 2.9 Consensus size: 19
62498843 TTATCGATAA
62498853 TTTTTATAA-A-TTTATAAT
1 TTTTTATAATATTTTA-AAT
* *
62498871 ATTTTACAACT-TTTTAAAT
1 TTTTTATAA-TATTTTAAAT
62498890 TTTTTATAATATTTTAAA
1 TTTTTATAATATTTTAAA
62498908 CTACATCTAG
Statistics
Matches: 29, Mismatches: 4, Indels: 7
0.73 0.10 0.17
Matches are distributed among these distances:
18 8 0.28
19 17 0.59
20 4 0.14
ACGTcount: A:0.38, C:0.04, G:0.00, T:0.58
Consensus pattern (19 bp):
TTTTTATAATATTTTAAAT
Found at i:62498905 original size:10 final size:10
Alignment explanation
Indices: 62498849--62498905 Score: 52
Period size: 10 Copynumber: 6.1 Consensus size: 10
62498839 CTAATTATCG
62498849 ATAAT-TTTT
1 ATAATATTTT
62498858 ATAA-A-TTT
1 ATAATATTTT
62498866 ATAATATTTT
1 ATAATATTTT
*
62498876 ACAACT-TTTT
1 ATAA-TATTTT
*
62498886 A-AATTTTTT
1 ATAATATTTT
62498895 ATAATATTTT
1 ATAATATTTT
62498905 A
1 A
62498906 AACTACATCT
Statistics
Matches: 40, Mismatches: 2, Indels: 11
0.75 0.04 0.21
Matches are distributed among these distances:
8 8 0.20
9 12 0.30
10 19 0.47
11 1 0.03
ACGTcount: A:0.39, C:0.04, G:0.00, T:0.58
Consensus pattern (10 bp):
ATAATATTTT
Found at i:62499458 original size:23 final size:22
Alignment explanation
Indices: 62499411--62499479 Score: 67
Period size: 23 Copynumber: 3.2 Consensus size: 22
62499401 GATAATAATT
62499411 CAAATAAA--AAAATTTATATA
1 CAAATAAACCAAAATTTATATA
62499431 C--AT-AACCATAAATGTTATATA
1 CAAATAAACCA-AAAT-TTATATA
*
62499452 CAAATAAACCAAAATATTACATA
1 CAAATAAACCAAAAT-TTATATA
62499475 CAAAT
1 CAAAT
62499480 TCATATACAT
Statistics
Matches: 40, Mismatches: 2, Indels: 11
0.75 0.04 0.21
Matches are distributed among these distances:
17 2 0.05
18 2 0.05
19 1 0.03
20 5 0.12
21 8 0.20
23 17 0.43
24 5 0.12
ACGTcount: A:0.58, C:0.13, G:0.01, T:0.28
Consensus pattern (22 bp):
CAAATAAACCAAAATTTATATA
Found at i:62506168 original size:132 final size:132
Alignment explanation
Indices: 62505972--62506438 Score: 426
Period size: 131 Copynumber: 3.6 Consensus size: 132
62505962 CGTGGAATAG
* * * * *
62505972 TGCCCTAACGTGTTGGGTTGCAATTTCGT-GTTTGCTCAAAACAATTGAATATCTCTTCAAAATT
1 TGCCCTAACGTGCTGGGTTGCAATTTC-TCGTTTGCTCAAAACAATCGAAGATCCCTTCAGAATT
* ** *
62506036 TCACTCGTACCTTTCAAAAATTCTTCAAAACGAAGGCGATATTCGATACTTGGTAATTCATG-GA
65 TCACTCGTACCTTTCAAAAATCCTTCAAAACGAAGGCGATATTCGATGTTTGGCAATTC-TGAGA
*
62506100 ATCG
129 ATCA
* ** * *
62506104 TGCCCTAACGTGTTGGGTTGCAATTTCTCGTTTGCTCAAAGTAATCGAAGGTCCCTTTAGAATTT
1 TGCCCTAACGTGCTGGGTTGCAATTTCTCGTTTGCTCAAAACAATCGAAGATCCCTTCAGAATTT
* ** * * * * **
62506169 CACCCGTTTC-TTCTAAAAATCCTTTAAAACGAAGGCAATACTCGGTGTTTAACAATTC-GAGAA
66 CACTCGTACCTTTC-AAAAATCCTTCAAAACGAAGGCGATATTCGATGTTTGGCAATTCTGAGAA
*
62506232 ACA
130 TCA
* ** * * * * **
62506235 TGCCCTACCGTGCTGGGTTGTGATTTCTCGTTTGCTCAAAATAATCGAATATTCCTTTAGGTTTT
1 TGCCCTAACGTGCTGGGTTGCAATTTCTCGTTTGCTCAAAACAATCGAAGATCCCTTCAGAATTT
* ** * *
62506300 CACTCAT-GTTTATTAAAAA-CCTTGCAAAACGAAGGCGATATTCGATGTTTGGCGATT-TGAGA
66 CACTCGTACCTT-TCAAAAATCCTT-CAAAACGAAGGCGATATTCGATGTTTGGCAATTCTGAGA
62506362 ATCA
129 ATCA
* * * ** * *
62506366 AGCCCTATCGCGCTGGGTTGCGCTTTCTCTTTTGCTCAAAACAATCGAAGATCCCTTCGGAATTT
1 TGCCCTAACGTGCTGGGTTGCAATTTCTCGTTTGCTCAAAACAATCGAAGATCCCTTCAGAATTT
62506431 CACTCGTA
66 CACTCGTA
62506439 TTTTCTAAGG
Statistics
Matches: 267, Mismatches: 60, Indels: 16
0.78 0.17 0.05
Matches are distributed among these distances:
130 5 0.02
131 165 0.62
132 97 0.36
ACGTcount: A:0.27, C:0.21, G:0.18, T:0.34
Consensus pattern (132 bp):
TGCCCTAACGTGCTGGGTTGCAATTTCTCGTTTGCTCAAAACAATCGAAGATCCCTTCAGAATTT
CACTCGTACCTTTCAAAAATCCTTCAAAACGAAGGCGATATTCGATGTTTGGCAATTCTGAGAAT
CA
Found at i:62522539 original size:39 final size:39
Alignment explanation
Indices: 62522422--62522763 Score: 408
Period size: 39 Copynumber: 8.6 Consensus size: 39
62522412 GCTCCTCGTT
* *
62522422 CAAATGCCTTCGGGACATAGCCCGG-TTATAGTAAT-TCGCA
1 CAAATGCCTTCGGG-CTTAGCCCGGAAT-TAGT-ATCTCGCA
* * *
62522462 CAAATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCA
1 CAAATGCCTTCGGG-CTTAGCCCGGAATTAGTATCTCGCA
62522502 CAAATGCCTTCGGGCTTAGCCCGGAATTAGTATCTCGCA
1 CAAATGCCTTCGGGCTTAGCCCGGAATTAGTATCTCGCA
62522541 CAAATGCCTTCGGGCTTAGCCCGGAATTAGTATCTCGCA
1 CAAATGCCTTCGGGCTTAGCCCGGAATTAGTATCTCGCA
* * *
62522580 CAAATGCCTTCGGATCTTAGTCCGGATTTAGTATCTCGCA
1 CAAATGCCTTCGG-GCTTAGCCCGGAATTAGTATCTCGCA
*
62522620 CAAATGCCTTCCGGGCTTAGCCCGAAATTAGTATCTCGCA
1 CAAATGCCTT-CGGGCTTAGCCCGGAATTAGTATCTCGCA
* * *
62522660 CAAATGCCTTCGGGTTTAGCCCGAAATTAGAATCTCGCA
1 CAAATGCCTTCGGGCTTAGCCCGGAATTAGTATCTCGCA
* * *
62522699 CAAATGCCTTCGGATCTTAGTCCGGATATT-GTCA-CTTAGCA
1 CAAATGCCTTCGG-GCTTAGCCCGGA-ATTAGT-ATC-TCGCA
62522740 C-AA-GCCTTCGGGACTTAGCCCGGA
1 CAAATGCCTTCGGG-CTTAGCCCGGA
62522764 CATCATTCAA
Statistics
Matches: 270, Mismatches: 23, Indels: 19
0.87 0.07 0.06
Matches are distributed among these distances:
39 133 0.49
40 123 0.46
41 14 0.05
ACGTcount: A:0.25, C:0.27, G:0.22, T:0.26
Consensus pattern (39 bp):
CAAATGCCTTCGGGCTTAGCCCGGAATTAGTATCTCGCA
Found at i:62522665 original size:119 final size:118
Alignment explanation
Indices: 62522422--62522761 Score: 467
Period size: 119 Copynumber: 2.9 Consensus size: 118
62522412 GCTCCTCGTT
* * **
62522422 CAAATGCCTTCGGGACATAGCCCGG-TTATAGTAAT-TCGCACAAATGCCTTCGGGA-CTTAACC
1 CAAATGCCTTCGGG-CTTAGCCCGGAAT-TAGT-ATCTCGCACAAATGCCTTC-GGATCTTAGTC
*
62522484 CGGATTTAGTAACTCGCACAAATGCCTTCGGGCTTAGCCCGGAATTAGTATCTCGCA
62 CGGATTTAGTAACTCGCACAAATGCCTTCGGGCTTAGCCCGAAATTAGTATCTCGCA
62522541 CAAATGCCTTCGGGCTTAGCCCGGAATTAGTATCTCGCACAAATGCCTTCGGATCTTAGTCCGGA
1 CAAATGCCTTCGGGCTTAGCCCGGAATTAGTATCTCGCACAAATGCCTTCGGATCTTAGTCCGGA
*
62522606 TTTAGTATCTCGCACAAATGCCTTCCGGGCTTAGCCCGAAATTAGTATCTCGCA
66 TTTAGTAACTCGCACAAATGCCTT-CGGGCTTAGCCCGAAATTAGTATCTCGCA
* * *
62522660 CAAATGCCTTCGGGTTTAGCCCGAAATTAGAATCTCGCACAAATGCCTTCGGATCTTAGTCCGGA
1 CAAATGCCTTCGGGCTTAGCCCGGAATTAGTATCTCGCACAAATGCCTTCGGATCTTAGTCCGGA
* *
62522725 TATT-GTCACTTAGCAC-AA-GCCTTCGGGACTTAGCCCG
66 T-TTAGTAAC-TCGCACAAATGCCTTCGGG-CTTAGCCCG
62522762 GACATCATTC
Statistics
Matches: 202, Mismatches: 12, Indels: 15
0.88 0.05 0.07
Matches are distributed among these distances:
117 9 0.04
118 75 0.37
119 111 0.55
120 7 0.03
ACGTcount: A:0.25, C:0.27, G:0.21, T:0.26
Consensus pattern (118 bp):
CAAATGCCTTCGGGCTTAGCCCGGAATTAGTATCTCGCACAAATGCCTTCGGATCTTAGTCCGGA
TTTAGTAACTCGCACAAATGCCTTCGGGCTTAGCCCGAAATTAGTATCTCGCA
Found at i:62522763 original size:158 final size:159
Alignment explanation
Indices: 62522422--62522763 Score: 450
Period size: 158 Copynumber: 2.2 Consensus size: 159
62522412 GCTCCTCGTT
*
62522422 CAAATGCCTTCGGGACATAGCCCGG-TTATAGTAATTCGCACAAATGCCTTCGGGACTTAACCCG
1 CAAATGCCTTCGGGACTTAGCCCGGATTATAGTAATTCGCACAAATGCCTTCGGGACTTAACCCG
* * * *
62522486 GATTTAGTAACTCGCACAAATGCCTTCGGGCTTAGCCCGGAATTAGTATCTCGCACAAATGCCTT
66 AAATTAGTAACTCGCACAAATGCCTTCGGGCTTAGCCCGAAATTAGAATCTCGCACAAATGCCTT
*
62522551 CGGGCTTAGCCCGGAATTAGTATCTCGCA
131 CGGGCTTAGCCCGGAATTAGTATCTAGCA
* *
62522580 CAAATGCCTTC-GGATCTTAGTCCGGATT-TAGT-ATCTCGCACAAATGCCTTCCGGG-CTTAGC
1 CAAATGCCTTCGGGA-CTTAGCCCGGATTATAGTAAT-TCGCACAAATGCCTT-CGGGACTTAAC
* *
62522641 CCGAAATTAGTATCTCGCACAAATGCCTTCGGGTTTAGCCCGAAATTAGAATCTCGCACAAATGC
63 CCGAAATTAGTAACTCGCACAAATGCCTTCGGGCTTAGCCCGAAATTAGAATCTCGCACAAATGC
* *
62522706 CTTCGGATCTTAGTCCGGATATT-GTCA-CTTAGCA
128 CTTCGG-GCTTAGCCCGGA-ATTAGT-ATC-TAGCA
62522740 C-AA-GCCTTCGGGACTTAGCCCGGA
1 CAAATGCCTTCGGGACTTAGCCCGGA
62522764 CATCATTCAA
Statistics
Matches: 162, Mismatches: 13, Indels: 18
0.84 0.07 0.09
Matches are distributed among these distances:
157 5 0.03
158 124 0.77
159 24 0.15
160 9 0.06
ACGTcount: A:0.25, C:0.27, G:0.22, T:0.26
Consensus pattern (159 bp):
CAAATGCCTTCGGGACTTAGCCCGGATTATAGTAATTCGCACAAATGCCTTCGGGACTTAACCCG
AAATTAGTAACTCGCACAAATGCCTTCGGGCTTAGCCCGAAATTAGAATCTCGCACAAATGCCTT
CGGGCTTAGCCCGGAATTAGTATCTAGCA
Found at i:62529435 original size:44 final size:44
Alignment explanation
Indices: 62529372--62529520 Score: 226
Period size: 44 Copynumber: 3.4 Consensus size: 44
62529362 CGAATCTAGC
* * *
62529372 AGATTTGGCGTCTCTGTATTGGCAGAAAGCAGATCGAAGATAGA
1 AGATTTGGCATCTCTGTATTGGCGGAGAGCAGATCGAAGATAGA
*
62529416 AGATTTGGCATCTCTGTATTGGCGGAGAGCAGATCGAAGATAGT
1 AGATTTGGCATCTCTGTATTGGCGGAGAGCAGATCGAAGATAGA
* * * *
62529460 AGATTTGGCGTCTCTGTACTGGCGGAGAGTAGATCGAAGATAGC
1 AGATTTGGCATCTCTGTATTGGCGGAGAGCAGATCGAAGATAGA
62529504 AGATTTGGCATCTCTGT
1 AGATTTGGCATCTCTGT
62529521 GTTGATAAAG
Statistics
Matches: 96, Mismatches: 9, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
44 96 1.00
ACGTcount: A:0.27, C:0.15, G:0.31, T:0.28
Consensus pattern (44 bp):
AGATTTGGCATCTCTGTATTGGCGGAGAGCAGATCGAAGATAGA
Found at i:62529551 original size:44 final size:43
Alignment explanation
Indices: 62529503--62529682 Score: 99
Period size: 44 Copynumber: 4.1 Consensus size: 43
62529493 TCGAAGATAG
62529503 CAGATTTGGCATCTCTGTGTTGATAAAGAGAAGATTGGAAATAA
1 CAGATTTGGCATCTCTGTGTT-ATAAAGAGAAGATTGGAAATAA
** * * * * *
62529547 CAGA-TTGGTGT-TCCTGGGTTCTCAAGA-AACGAGTTGCG-GATAGC
1 CAGATTTGGCATCT-CTGTGTTATAAAGAGAA-GA-TTG-GAAATA-A
* * * *
62529591 CA-ATTT-G-AGTCTCTGTATTAT-CAGAGGACAGA-TCGAAGATAG
1 CAGATTTGGCA-TCTCTGTGTTATAAAGA-GA-AGATTGGAA-ATAA
62529633 CAGATTTGGCATCTCTGTGTTGATAAAGAGAAGATTGGAAATAA
1 CAGATTTGGCATCTCTGTGTT-ATAAAGAGAAGATTGGAAATAA
62529677 CAGATT
1 CAGATT
62529683 GGTGTTCCTG
Statistics
Matches: 98, Mismatches: 19, Indels: 38
0.63 0.12 0.25
Matches are distributed among these distances:
41 3 0.03
42 14 0.14
43 33 0.34
44 35 0.36
45 10 0.10
46 3 0.03
ACGTcount: A:0.32, C:0.13, G:0.26, T:0.29
Consensus pattern (43 bp):
CAGATTTGGCATCTCTGTGTTATAAAGAGAAGATTGGAAATAA
Found at i:62529552 original size:88 final size:88
Alignment explanation
Indices: 62529371--62529552 Score: 222
Period size: 88 Copynumber: 2.1 Consensus size: 88
62529361 GCGAATCTAG
*
62529371 CAGATTTGGCGTCTCTGTATTGGCAGAAAGCAGATCGAAGATAGAAGATTTGGCATCTCTGTATT
1 CAGATTTGGCGTCTCTGTACTGGCAGAAAGCAGATCGAAGATAGAAGATTTGGCATCTCTGTATT
* ** * *
62529436 GGCGGAGAGCAGATCGAAGATAG
66 GACAAAGAGAAGATCGAAGATAA
* * * * * *
62529459 TAGATTTGGCGTCTCTGTACTGGCGGAGAGTAGATCGAAGATAGCAGATTTGGCATCTCTGTGTT
1 CAGATTTGGCGTCTCTGTACTGGCAGAAAGCAGATCGAAGATAGAAGATTTGGCATCTCTGTATT
* *
62529524 GATAAAGAGAAGATTGGAA-ATAA
66 GACAAAGAGAAGA-TCGAAGATAA
62529547 CAGATT
1 CAGATT
62529553 GGTGTTCCTG
Statistics
Matches: 78, Mismatches: 15, Indels: 2
0.82 0.16 0.02
Matches are distributed among these distances:
88 74 0.95
89 4 0.05
ACGTcount: A:0.30, C:0.13, G:0.30, T:0.27
Consensus pattern (88 bp):
CAGATTTGGCGTCTCTGTACTGGCAGAAAGCAGATCGAAGATAGAAGATTTGGCATCTCTGTATT
GACAAAGAGAAGATCGAAGATAA
Found at i:62529635 original size:130 final size:130
Alignment explanation
Indices: 62529490--62529728 Score: 478
Period size: 130 Copynumber: 1.8 Consensus size: 130
62529480 GGCGGAGAGT
62529490 AGATCGAAGATAGCAGATTTGGCATCTCTGTGTTGATAAAGAGAAGATTGGAAATAACAGATTGG
1 AGATCGAAGATAGCAGATTTGGCATCTCTGTGTTGATAAAGAGAAGATTGGAAATAACAGATTGG
62529555 TGTTCCTGGGTTCTCAAGAAACGAGTTGCGGATAGCCAATTTGAGTCTCTGTATTATCAGAGGAC
66 TGTTCCTGGGTTCTCAAGAAACGAGTTGCGGATAGCCAATTTGAGTCTCTGTATTATCAGAGGAC
62529620 AGATCGAAGATAGCAGATTTGGCATCTCTGTGTTGATAAAGAGAAGATTGGAAATAACAGATTGG
1 AGATCGAAGATAGCAGATTTGGCATCTCTGTGTTGATAAAGAGAAGATTGGAAATAACAGATTGG
62529685 TGTTCCTGGGTTCTCAAGAAACGAGTTGCGGATAGCCAATTTGA
66 TGTTCCTGGGTTCTCAAGAAACGAGTTGCGGATAGCCAATTTGA
62529729 CACTCCTGAA
Statistics
Matches: 109, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
130 109 1.00
ACGTcount: A:0.31, C:0.13, G:0.27, T:0.28
Consensus pattern (130 bp):
AGATCGAAGATAGCAGATTTGGCATCTCTGTGTTGATAAAGAGAAGATTGGAAATAACAGATTGG
TGTTCCTGGGTTCTCAAGAAACGAGTTGCGGATAGCCAATTTGAGTCTCTGTATTATCAGAGGAC
Found at i:62530899 original size:11 final size:11
Alignment explanation
Indices: 62530883--62530909 Score: 54
Period size: 11 Copynumber: 2.5 Consensus size: 11
62530873 ATTTAAAGAC
62530883 TAAATTTATGT
1 TAAATTTATGT
62530894 TAAATTTATGT
1 TAAATTTATGT
62530905 TAAAT
1 TAAAT
62530910 GTATATATAT
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 16 1.00
ACGTcount: A:0.41, C:0.00, G:0.07, T:0.52
Consensus pattern (11 bp):
TAAATTTATGT
Found at i:62531089 original size:21 final size:21
Alignment explanation
Indices: 62531065--62531139 Score: 51
Period size: 27 Copynumber: 3.2 Consensus size: 21
62531055 CAACATTATC
62531065 TATTTTTAATGTTTTTATATA
1 TATTTTTAATGTTTTTATATA
* *
62531086 TATTATTCATATGTAAACCTTTATATA
1 TATT-TTTA-ATGT----TTTTATATA
*
62531113 TCTATTTTTAATGTTGTTATATA
1 --TATTTTTAATGTTTTTATATA
62531136 TATT
1 TATT
62531140 ATTCATATGT
Statistics
Matches: 41, Mismatches: 5, Indels: 16
0.66 0.08 0.26
Matches are distributed among these distances:
21 8 0.20
22 3 0.07
23 11 0.27
27 12 0.29
28 3 0.07
29 4 0.10
ACGTcount: A:0.31, C:0.05, G:0.05, T:0.59
Consensus pattern (21 bp):
TATTTTTAATGTTTTTATATA
Found at i:62531099 original size:23 final size:23
Alignment explanation
Indices: 62531073--62531149 Score: 59
Period size: 21 Copynumber: 3.2 Consensus size: 23
62531063 TCTATTTTTA
62531073 ATGTTTTTATATATATTATTCAT
1 ATGTTTTTATATATATTATTCAT
* *
62531096 ATGTAAACCTTTATATATCTATT-TTTA-
1 ATGT-----TTT-TATATATATTATTCAT
*
62531123 ATGTTGTTATATATATTATTCAT
1 ATGTTTTTATATATATTATTCAT
62531146 ATGT
1 ATGT
62531150 AAACCTTTAT
Statistics
Matches: 41, Mismatches: 5, Indels: 16
0.66 0.08 0.26
Matches are distributed among these distances:
21 9 0.22
22 5 0.12
23 8 0.20
27 4 0.10
28 6 0.15
29 9 0.22
ACGTcount: A:0.31, C:0.06, G:0.06, T:0.56
Consensus pattern (23 bp):
ATGTTTTTATATATATTATTCAT
Found at i:62531109 original size:27 final size:27
Alignment explanation
Indices: 62531078--62531175 Score: 98
Period size: 27 Copynumber: 3.7 Consensus size: 27
62531068 TTTTAATGTT
62531078 TTTATATATATTATTCATATGTAAACC
1 TTTATATATATTATTCATATGTAAACC
* ***
62531105 TTTATATAT-CTATT--T-T-TAATGT
1 TTTATATATATTATTCATATGTAAACC
62531127 TGTTATATATATTATTCATATGTAAACC
1 T-TTATATATATTATTCATATGTAAACC
*
62531155 TTTATATATATATATACATAT
1 TTTATATATAT-TATTCATAT
62531176 ATATTGTTCC
Statistics
Matches: 55, Mismatches: 9, Indels: 13
0.71 0.12 0.17
Matches are distributed among these distances:
22 4 0.07
23 9 0.16
24 5 0.09
26 5 0.09
27 20 0.36
28 12 0.22
ACGTcount: A:0.36, C:0.08, G:0.04, T:0.52
Consensus pattern (27 bp):
TTTATATATATTATTCATATGTAAACC
Found at i:62531116 original size:50 final size:50
Alignment explanation
Indices: 62531061--62531163 Score: 197
Period size: 50 Copynumber: 2.1 Consensus size: 50
62531051 ATGCCAACAT
*
62531061 TATCTATTTTTAATGTTTTTATATATATTATTCATATGTAAACCTTTATA
1 TATCTATTTTTAATGTTGTTATATATATTATTCATATGTAAACCTTTATA
62531111 TATCTATTTTTAATGTTGTTATATATATTATTCATATGTAAACCTTTATA
1 TATCTATTTTTAATGTTGTTATATATATTATTCATATGTAAACCTTTATA
62531161 TAT
1 TAT
62531164 ATATATACAT
Statistics
Matches: 52, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
50 52 1.00
ACGTcount: A:0.32, C:0.08, G:0.05, T:0.55
Consensus pattern (50 bp):
TATCTATTTTTAATGTTGTTATATATATTATTCATATGTAAACCTTTATA
Found at i:62532355 original size:132 final size:132
Alignment explanation
Indices: 62532153--62532625 Score: 402
Period size: 131 Copynumber: 3.6 Consensus size: 132
62532143 GCAACTCGCG
* * * * *
62532153 GAATAGTGCCCTAACGTGTTGGGTTGCAATTTCGT-GTTTGCTCAAAACAATTGAATATCTCTTC
1 GAATCGTGCCCTAACGTGCTGGGTTGCAATTTC-TCGTTTGCTCAAAACAATCGAAGATCCCTTC
* * **
62532217 AAAATTTCACTCGTACCTTTCAAAAATTCTTCAAAACGAAGGCGATATTCGATACTTGGTAATTC
65 AGAATTTCACTCGTACCTTTCAAAAATCCTTCAAAACGAAGGCGATATTCGATGTTTGGTAATTC
62532282 ATG-
130 -TGA
* *** * *
62532285 GAATCGTGCCCTAACGTGTTGGGTTGCAATTTCTCGTTTGCTCAAAGTTATCGAAGGTCCCTTTA
1 GAATCGTGCCCTAACGTGCTGGGTTGCAATTTCTCGTTTGCTCAAAACAATCGAAGATCCCTTCA
* ** * * * * ***
62532350 GAATTTCACCCGTGTC-TTCTAAAAATCCTTTAAAACGAAGGCAATACTCGGTGTTTAACAATTC
66 GAATTTCACTCGTACCTTTC-AAAAATCCTTCAAAACGAAGGCGATATTCGATGTTTGGTAATTC
62532414 -GA
130 TGA
* * * ** ** * *
62532416 GAATCATGCCCTACCATGCTGGGTTGTGATTTCTCGTTTGCTCAAAACAATCGAATTTTCCTTTA
1 GAATCGTGCCCTAACGTGCTGGGTTGCAATTTCTCGTTTGCTCAAAACAATCGAAGATCCCTTCA
** * ** * *
62532481 GGTTTTCACTCAT-GTTTATTAAAAA-CCTTGCAAAACGAAGGCGATATTCGATGTTTGGTGATT
66 GAATTTCACTCGTACCTT-TCAAAAATCCTT-CAAAACGAAGGCGATATTCGATGTTTGGTAATT
62532544 -TGA
129 CTGA
* * * *** * * *
62532547 GAATCGAGCCCTATCGCGCTGGGTTGTGCTTTCTCTTTTGCTCAAAATAATCGAAGATCCCTTCG
1 GAATCGTGCCCTAACGTGCTGGGTTGCAATTTCTCGTTTGCTCAAAACAATCGAAGATCCCTTCA
62532612 GAATTTCACTCGTA
66 GAATTTCACTCGTA
62532626 TTTTCTAAGG
Statistics
Matches: 267, Mismatches: 66, Indels: 16
0.77 0.19 0.05
Matches are distributed among these distances:
130 5 0.02
131 161 0.60
132 101 0.38
ACGTcount: A:0.27, C:0.21, G:0.19, T:0.34
Consensus pattern (132 bp):
GAATCGTGCCCTAACGTGCTGGGTTGCAATTTCTCGTTTGCTCAAAACAATCGAAGATCCCTTCA
GAATTTCACTCGTACCTTTCAAAAATCCTTCAAAACGAAGGCGATATTCGATGTTTGGTAATTCT
GA
Found at i:62544917 original size:64 final size:64
Alignment explanation
Indices: 62544839--62545030 Score: 305
Period size: 64 Copynumber: 3.0 Consensus size: 64
62544829 TCATTCATAA
*
62544839 CACATCTAGGTAGGAGCATTTGATTCATTTCGATCATAGCATCCTAATTATTTGACATAAGCAT
1 CACATCTAGTTAGGAGCATTTGATTCATTTCGATCATAGCATCCTAATTATTTGACATAAGCAT
* * ** *
62544903 CACATCTAGTTAGGAACATTTTATTCATTTCGATCATAGTGTCCTAATTAGTTGACATAAGCAT
1 CACATCTAGTTAGGAGCATTTGATTCATTTCGATCATAGCATCCTAATTATTTGACATAAGCAT
*
62544967 CACATCTAGTTAGGAGCATTTGATTCATTTTGATCATAGCATCCTAATTATTTCG-CATAAGCAT
1 CACATCTAGTTAGGAGCATTTGATTCATTTCGATCATAGCATCCTAATTATTT-GACATAAGCAT
62545031 GATACATGAA
Statistics
Matches: 115, Mismatches: 12, Indels: 2
0.89 0.09 0.02
Matches are distributed among these distances:
64 114 0.99
65 1 0.01
ACGTcount: A:0.31, C:0.18, G:0.15, T:0.36
Consensus pattern (64 bp):
CACATCTAGTTAGGAGCATTTGATTCATTTCGATCATAGCATCCTAATTATTTGACATAAGCAT
Found at i:62545576 original size:177 final size:177
Alignment explanation
Indices: 62545367--62545982 Score: 828
Period size: 177 Copynumber: 3.5 Consensus size: 177
62545357 AAAATTACAC
* * * **
62545367 ATCTTATCTCCCTAAGCAATAGTGGTGCAGATCGAAGATGGCAAATCTTACCTCCATGTATCGGT
1 ATCTTATCTCCCTAAGCAGTAGTGGAGCAGATCGAAGATGGCAAATCTTATCTCCATGTATCGAC
* *
62545432 AATGGAGTAGATTCT-AGCCACAAGCCTTATCTCTCTGAGGTAGCAAGAGAGTAGGTTGGCGATT
66 AATGGAGCAGATT-TAAGCCACAAGCCTTATCTCTCTGAGGTAGCAAGAGAGCAGGTTGGCGATT
*
62545496 GTAGTCTTATCTTCCTGAGGTAGCAAAGAAGCAGACTGAAGATTGAAG
130 GTAGTCTTATCTTCCTGAGGTAGCAAGGAAGCAGACTGAAGATTGAAG
* * *
62545544 ATCTTATCTCCCTAAGCAGTAGTGGAGCAGATCGAAGGTGGTAAATCTTATCTTCATGTATCGAC
1 ATCTTATCTCCCTAAGCAGTAGTGGAGCAGATCGAAGATGGCAAATCTTATCTCCATGTATCGAC
* * * * *
62545609 AATGGAGCAGATTTAAGCCACCAGCCTTATCTCTCTGAGGTAGTAAGAGAGCAAGTTGGCAATGG
66 AATGGAGCAGATTTAAGCCACAAGCCTTATCTCTCTGAGGTAGCAAGAGAGCAGGTTGGCGATTG
* *
62545674 TAGTCTTATCTTCCCGAGGTAGCAAGGAAGCAGACTAAAGATTGAAG
131 TAGTCTTATCTTCCTGAGGTAGCAAGGAAGCAGACTGAAGATTGAAG
* * * * * *
62545721 ATCGTATCTCCCTAAGCAGCT-GTGGAGCAGATTGAAGATGGCGAGTCTTATCTCTATGTTTC-A
1 ATCTTATCTCCCTAAGCAG-TAGTGGAGCAGATCGAAGATGGCAAATCTTATCTCCATGTATCGA
* * * * *
62545784 GTAATAGAGCAGATTTTAGCCATCAA-CCTTATCTCTCTGAAGTAGCAAGAGAGGAGGTTGGCGA
65 -CAATGGAGCAGATTTAAGCCA-CAAGCCTTATCTCTCTGAGGTAGCAAGAGAGCAGGTTGGCGA
* * *
62545848 TTGTAGTCTTATCTTCTTGAGGTAGCAAGGAAGCAGATTGAAGATTGTAG
128 TTGTAGTCTTATCTTCCTGAGGTAGCAAGGAAGCAGACTGAAGATTGAAG
* * * * *
62545898 ATC-TATTTCCCTAAACAGTTGTGGAGCAGATCGAGGATGGCAAATCTTATCTCCATTTATCGAC
1 ATCTTATCTCCCTAAGCAGTAGTGGAGCAGATCGAAGATGGCAAATCTTATCTCCATGTATCGAC
62545962 AATGGAGCAGATTTAAGCCAC
66 AATGGAGCAGATTTAAGCCAC
62545983 CAGTCCTATT
Statistics
Matches: 379, Mismatches: 54, Indels: 14
0.85 0.12 0.03
Matches are distributed among these distances:
175 2 0.01
176 67 0.18
177 307 0.81
178 3 0.01
ACGTcount: A:0.29, C:0.18, G:0.25, T:0.28
Consensus pattern (177 bp):
ATCTTATCTCCCTAAGCAGTAGTGGAGCAGATCGAAGATGGCAAATCTTATCTCCATGTATCGAC
AATGGAGCAGATTTAAGCCACAAGCCTTATCTCTCTGAGGTAGCAAGAGAGCAGGTTGGCGATTG
TAGTCTTATCTTCCTGAGGTAGCAAGGAAGCAGACTGAAGATTGAAG
Found at i:62546160 original size:15 final size:15
Alignment explanation
Indices: 62546140--62546169 Score: 51
Period size: 15 Copynumber: 2.0 Consensus size: 15
62546130 TCCAAAAAAA
*
62546140 AAACCAGAAATAAAT
1 AAACCAAAAATAAAT
62546155 AAACCAAAAATAAAT
1 AAACCAAAAATAAAT
62546170 TAAAATAAAA
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
15 14 1.00
ACGTcount: A:0.70, C:0.13, G:0.03, T:0.13
Consensus pattern (15 bp):
AAACCAAAAATAAAT
Found at i:62554179 original size:48 final size:48
Alignment explanation
Indices: 62554097--62554246 Score: 147
Period size: 48 Copynumber: 3.1 Consensus size: 48
62554087 CCATGTCCCA
* **
62554097 TCTTACACTGGCACACATATCAATGCCAACGCCATGTCCTAGACATTT
1 TCTTACACTGGCACACATATCAACGCCAACGCCATGTCCTAGACATGG
* *** *
62554145 TCTTACACTGGCAGACATATCAACGTTGATGCCATGTCCTAGACATGG
1 TCTTACACTGGCACACATATCAACGCCAACGCCATGTCCTAGACATGG
* * * * * * * *
62554193 TCTTACACTGGCTCTCATCTCGGATGCCGATGCCATGTCCCAGACATGG
1 TCTTACACTGGCACACATATC-AACGCCAACGCCATGTCCTAGACATGG
62554242 TCTTA
1 TCTTA
62554247 TACGGGATCT
Statistics
Matches: 84, Mismatches: 17, Indels: 1
0.82 0.17 0.01
Matches are distributed among these distances:
48 57 0.68
49 27 0.32
ACGTcount: A:0.25, C:0.29, G:0.18, T:0.28
Consensus pattern (48 bp):
TCTTACACTGGCACACATATCAACGCCAACGCCATGTCCTAGACATGG
Found at i:62554676 original size:3 final size:3
Alignment explanation
Indices: 62554661--62554710 Score: 91
Period size: 3 Copynumber: 16.7 Consensus size: 3
62554651 ATAATATTGC
*
62554661 ATT ATT ATC ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT
1 ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT
62554709 AT
1 AT
62554711 CACAAGAATT
Statistics
Matches: 45, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
3 45 1.00
ACGTcount: A:0.34, C:0.02, G:0.00, T:0.64
Consensus pattern (3 bp):
ATT
Found at i:62563203 original size:21 final size:21
Alignment explanation
Indices: 62563166--62563208 Score: 52
Period size: 21 Copynumber: 2.0 Consensus size: 21
62563156 ATATGAGTTT
62563166 TGAAGGTTGATGATAGA-AAA
1 TGAAGGTTGATGATAGATAAA
* *
62563186 TGAATGGTTGTTGTTAGATAAA
1 TGAA-GGTTGATGATAGATAAA
62563208 T
1 T
62563209 AACTTTTGTA
Statistics
Matches: 19, Mismatches: 2, Indels: 2
0.83 0.09 0.09
Matches are distributed among these distances:
20 4 0.21
21 11 0.58
22 4 0.21
ACGTcount: A:0.37, C:0.00, G:0.28, T:0.35
Consensus pattern (21 bp):
TGAAGGTTGATGATAGATAAA
Done.