Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Chr08 129432109
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: 129432109
ACGTcount: A:0.32, C:0.18, G:0.18, T:0.32
Warning! 350 characters in sequence are not A, C, G, or T
File 288 of 425
Found at i:89315170 original size:29 final size:29
Alignment explanation
Indices: 89315138--89315215 Score: 102
Period size: 29 Copynumber: 2.7 Consensus size: 29
89315128 ATACCCTCCG
** *
89315138 AGCTCGCACACCCAGTGCCGTATTTTTCC
1 AGCTCGCACACTTAGTGCCGTATATTTCC
* *
89315167 AGCTTGCACACTTAGTGCCATATATTTCC
1 AGCTCGCACACTTAGTGCCGTATATTTCC
*
89315196 AGCACGCACACTTAGTGCCG
1 AGCTCGCACACTTAGTGCCG
89315216 ATCTCGTCAC
Statistics
Matches: 41, Mismatches: 8, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
29 41 1.00
ACGTcount: A:0.22, C:0.33, G:0.18, T:0.27
Consensus pattern (29 bp):
AGCTCGCACACTTAGTGCCGTATATTTCC
Found at i:89319607 original size:40 final size:41
Alignment explanation
Indices: 89319562--89319728 Score: 164
Period size: 40 Copynumber: 4.2 Consensus size: 41
89319552 CGGAATATAA
*
89319562 CCGGATATAATCAAGT-GCACAAATGCCTTCGGGTCTTAGC
1 CCGGATATAATCAACTAGCACAAATGCCTTCGGGTCTTAGC
* * *
89319602 CCGGATAGAAT-AACTCGCACGAATGCCTTCGGGTCTTAGC
1 CCGGATATAATCAACTAGCACAAATGCCTTCGGGTCTTAGC
* * * * *
89319642 CCGGATGT-AGCCACTAGCACAATTGCCTTCGGGTCTTAAC
1 CCGGATATAATCAACTAGCACAAATGCCTTCGGGTCTTAGC
** * * * *
89319682 CCGGATATAAT-TTCCAGCATAATTGTCTTCGGG-CTTAGC
1 CCGGATATAATCAACTAGCACAAATGCCTTCGGGTCTTAGC
89319721 CCGGATAT
1 CCGGATAT
89319729 CATTCAATTT
Statistics
Matches: 105, Mismatches: 19, Indels: 7
0.80 0.15 0.05
Matches are distributed among these distances:
39 17 0.16
40 87 0.83
41 1 0.01
ACGTcount: A:0.25, C:0.26, G:0.23, T:0.26
Consensus pattern (41 bp):
CCGGATATAATCAACTAGCACAAATGCCTTCGGGTCTTAGC
Found at i:89324596 original size:29 final size:29
Alignment explanation
Indices: 89324563--89324636 Score: 139
Period size: 29 Copynumber: 2.6 Consensus size: 29
89324553 GTGACGAGAT
89324563 TGGCACTAAGTGTGCGTGCTGGAAATATA
1 TGGCACTAAGTGTGCGTGCTGGAAATATA
*
89324592 TGGCACTAAGTGTGCATGCTGGAAATATA
1 TGGCACTAAGTGTGCGTGCTGGAAATATA
89324621 TGGCACTAAGTGTGCG
1 TGGCACTAAGTGTGCG
89324637 AGCTCGAAGG
Statistics
Matches: 43, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
29 43 1.00
ACGTcount: A:0.27, C:0.15, G:0.31, T:0.27
Consensus pattern (29 bp):
TGGCACTAAGTGTGCGTGCTGGAAATATA
Found at i:89324652 original size:29 final size:28
Alignment explanation
Indices: 89324620--89324694 Score: 87
Period size: 28 Copynumber: 2.6 Consensus size: 28
89324610 CTGGAAATAT
* *
89324620 ATGGCACTAAGTGTGCGAGCTCGAAGGGC
1 ATGGCACTAAGTGTGCGAGCT-AAAGCGC
** * *
89324649 ATGGCACTGTGTGTGCGGGCTAAATCGC
1 ATGGCACTAAGTGTGCGAGCTAAAGCGC
89324677 ATGGCACTAAGTGTGCGA
1 ATGGCACTAAGTGTGCGA
89324695 AATCGAGTAT
Statistics
Matches: 37, Mismatches: 9, Indels: 1
0.79 0.19 0.02
Matches are distributed among these distances:
28 19 0.51
29 18 0.49
ACGTcount: A:0.23, C:0.20, G:0.36, T:0.21
Consensus pattern (28 bp):
ATGGCACTAAGTGTGCGAGCTAAAGCGC
Found at i:89324663 original size:58 final size:57
Alignment explanation
Indices: 89324563--89324694 Score: 131
Period size: 58 Copynumber: 2.3 Consensus size: 57
89324553 GTGACGAGAT
* * * * * *
89324563 TGGCACTAAGTGTGCGTGCTGGAAATATATGGCACTAAGTGTGCATGCTGGAAAT-ATA
1 TGGCACTAAGTGTGCGAGCTCGAAAGACATGGCACTAAGTGTGCAGGCT--AAATCACA
* * ** * *
89324621 TGGCACTAAGTGTGCGAGCTCGAAGGGCATGGCACTGTGTGTGCGGGCTAAATCGCA
1 TGGCACTAAGTGTGCGAGCTCGAAAGACATGGCACTAAGTGTGCAGGCTAAATCACA
89324678 TGGCACTAAGTGTGCGA
1 TGGCACTAAGTGTGCGA
89324695 AATCGAGTAT
Statistics
Matches: 61, Mismatches: 12, Indels: 3
0.80 0.16 0.04
Matches are distributed among these distances:
56 4 0.07
57 18 0.30
58 39 0.64
ACGTcount: A:0.25, C:0.17, G:0.33, T:0.24
Consensus pattern (57 bp):
TGGCACTAAGTGTGCGAGCTCGAAAGACATGGCACTAAGTGTGCAGGCTAAATCACA
Found at i:89332473 original size:29 final size:29
Alignment explanation
Indices: 89332440--89332513 Score: 139
Period size: 29 Copynumber: 2.6 Consensus size: 29
89332430 GTGACGAGAT
89332440 TGGCACTAAGTGTGCGTGCTGGAAATATA
1 TGGCACTAAGTGTGCGTGCTGGAAATATA
*
89332469 TGGCACTAAGTGTGCATGCTGGAAATATA
1 TGGCACTAAGTGTGCGTGCTGGAAATATA
89332498 TGGCACTAAGTGTGCG
1 TGGCACTAAGTGTGCG
89332514 AGCTCGAAGG
Statistics
Matches: 43, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
29 43 1.00
ACGTcount: A:0.27, C:0.15, G:0.31, T:0.27
Consensus pattern (29 bp):
TGGCACTAAGTGTGCGTGCTGGAAATATA
Found at i:89332529 original size:29 final size:28
Alignment explanation
Indices: 89332497--89332571 Score: 87
Period size: 28 Copynumber: 2.6 Consensus size: 28
89332487 CTGGAAATAT
* *
89332497 ATGGCACTAAGTGTGCGAGCTCGAAGGGC
1 ATGGCACTAAGTGTGCGAGCT-AAAGCGC
** * *
89332526 ATGGCACTGTGTGTGCGGGCTAAATCGC
1 ATGGCACTAAGTGTGCGAGCTAAAGCGC
89332554 ATGGCACTAAGTGTGCGA
1 ATGGCACTAAGTGTGCGA
89332572 AATCGAGTAT
Statistics
Matches: 37, Mismatches: 9, Indels: 1
0.79 0.19 0.02
Matches are distributed among these distances:
28 19 0.51
29 18 0.49
ACGTcount: A:0.23, C:0.20, G:0.36, T:0.21
Consensus pattern (28 bp):
ATGGCACTAAGTGTGCGAGCTAAAGCGC
Found at i:89332540 original size:58 final size:57
Alignment explanation
Indices: 89332440--89332571 Score: 131
Period size: 58 Copynumber: 2.3 Consensus size: 57
89332430 GTGACGAGAT
* * * * * *
89332440 TGGCACTAAGTGTGCGTGCTGGAAATATATGGCACTAAGTGTGCATGCTGGAAAT-ATA
1 TGGCACTAAGTGTGCGAGCTCGAAAGACATGGCACTAAGTGTGCAGGCT--AAATCACA
* * ** * *
89332498 TGGCACTAAGTGTGCGAGCTCGAAGGGCATGGCACTGTGTGTGCGGGCTAAATCGCA
1 TGGCACTAAGTGTGCGAGCTCGAAAGACATGGCACTAAGTGTGCAGGCTAAATCACA
89332555 TGGCACTAAGTGTGCGA
1 TGGCACTAAGTGTGCGA
89332572 AATCGAGTAT
Statistics
Matches: 61, Mismatches: 12, Indels: 3
0.80 0.16 0.04
Matches are distributed among these distances:
56 4 0.07
57 18 0.30
58 39 0.64
ACGTcount: A:0.25, C:0.17, G:0.33, T:0.24
Consensus pattern (57 bp):
TGGCACTAAGTGTGCGAGCTCGAAAGACATGGCACTAAGTGTGCAGGCTAAATCACA
Found at i:89333410 original size:17 final size:16
Alignment explanation
Indices: 89333388--89333421 Score: 50
Period size: 17 Copynumber: 2.1 Consensus size: 16
89333378 AAATCACTAA
89333388 AAATAGTAAGTAGAATT
1 AAATAGTAAGTA-AATT
*
89333405 AAATAGTGAGTAAATT
1 AAATAGTAAGTAAATT
89333421 A
1 A
89333422 TGGAACTGAT
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
16 5 0.31
17 11 0.69
ACGTcount: A:0.53, C:0.00, G:0.18, T:0.29
Consensus pattern (16 bp):
AAATAGTAAGTAAATT
Found at i:89334392 original size:27 final size:27
Alignment explanation
Indices: 89334362--89334423 Score: 99
Period size: 27 Copynumber: 2.3 Consensus size: 27
89334352 TTTAAAACCC
89334362 TAGGGGTATATCGGTAATTTTGCTCTT
1 TAGGGGTATATCGGTAATTTTGCTCTT
*
89334389 TA-GGGTAATTTCGGTAATTTTGCTCTT
1 TAGGGGT-ATATCGGTAATTTTGCTCTT
89334416 TAGGGGTA
1 TAGGGGTA
89334424 ATTTCGTGAT
Statistics
Matches: 32, Mismatches: 1, Indels: 4
0.86 0.03 0.11
Matches are distributed among these distances:
26 4 0.12
27 24 0.75
28 4 0.12
ACGTcount: A:0.19, C:0.10, G:0.27, T:0.44
Consensus pattern (27 bp):
TAGGGGTATATCGGTAATTTTGCTCTT
Found at i:89335134 original size:54 final size:54
Alignment explanation
Indices: 89335067--89335217 Score: 248
Period size: 54 Copynumber: 2.8 Consensus size: 54
89335057 TACCCTACAA
* *
89335067 GGGTATTTCGGTAATTTTATAAACAAAGGGTATTTTAGTAATTTTACAAACCAG
1 GGGTATTTTGGTAATTTTATAAACCAAGGGTATTTTAGTAATTTTACAAACCAG
* *
89335121 GGGTATTTTGGTAATTTTGTAAACCAAGGGTATTTTAGTAATTTTACAAACTAG
1 GGGTATTTTGGTAATTTTATAAACCAAGGGTATTTTAGTAATTTTACAAACCAG
* *
89335175 GGGTATTTTGGTGATTTTATAAACCAAGGGTATTTTGGTAATT
1 GGGTATTTTGGTAATTTTATAAACCAAGGGTATTTTAGTAATT
89335218 CTGTAAATTG
Statistics
Matches: 90, Mismatches: 7, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
54 90 1.00
ACGTcount: A:0.31, C:0.07, G:0.21, T:0.40
Consensus pattern (54 bp):
GGGTATTTTGGTAATTTTATAAACCAAGGGTATTTTAGTAATTTTACAAACCAG
Found at i:89335155 original size:81 final size:81
Alignment explanation
Indices: 89335064--89335224 Score: 232
Period size: 81 Copynumber: 2.0 Consensus size: 81
89335054 TTCTACCCTA
* * *
89335064 CAAGGGTATTTCGGTAATTTTATAAACAAAGGGTATTTTAGTAATTTTACAAACCAGGGGTATTT
1 CAAGGGTATTTCAGTAATTTTACAAACAAAGGGTATTTTAGTAATTTTACAAACCAAGGGTATTT
*
89335129 TGGTAATTTTGTAAAC
66 TGGTAATTCTGTAAAC
* * * * * *
89335145 CAAGGGTATTTTAGTAATTTTACAAACTAGGGGTATTTTGGTGATTTTATAAACCAAGGGTATTT
1 CAAGGGTATTTCAGTAATTTTACAAACAAAGGGTATTTTAGTAATTTTACAAACCAAGGGTATTT
89335210 TGGTAATTCTGTAAA
66 TGGTAATTCTGTAAA
89335225 TTGAAGGTAA
Statistics
Matches: 70, Mismatches: 10, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
81 70 1.00
ACGTcount: A:0.32, C:0.08, G:0.20, T:0.39
Consensus pattern (81 bp):
CAAGGGTATTTCAGTAATTTTACAAACAAAGGGTATTTTAGTAATTTTACAAACCAAGGGTATTT
TGGTAATTCTGTAAAC
Found at i:89335224 original size:27 final size:27
Alignment explanation
Indices: 89335064--89335217 Score: 209
Period size: 27 Copynumber: 5.7 Consensus size: 27
89335054 TTCTACCCTA
*
89335064 CAAGGGTATTTCGGTAATTTTATAAAC
1 CAAGGGTATTTTGGTAATTTTATAAAC
* * *
89335091 AAAGGGTATTTTAGTAATTTTACAAAC
1 CAAGGGTATTTTGGTAATTTTATAAAC
* *
89335118 CAGGGGTATTTTGGTAATTTTGTAAAC
1 CAAGGGTATTTTGGTAATTTTATAAAC
* *
89335145 CAAGGGTATTTTAGTAATTTTACAAAC
1 CAAGGGTATTTTGGTAATTTTATAAAC
* * *
89335172 TAGGGGTATTTTGGTGATTTTATAAAC
1 CAAGGGTATTTTGGTAATTTTATAAAC
89335199 CAAGGGTATTTTGGTAATT
1 CAAGGGTATTTTGGTAATT
89335218 CTGTAAATTG
Statistics
Matches: 106, Mismatches: 21, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
27 106 1.00
ACGTcount: A:0.32, C:0.08, G:0.21, T:0.40
Consensus pattern (27 bp):
CAAGGGTATTTTGGTAATTTTATAAAC
Found at i:89335243 original size:81 final size:81
Alignment explanation
Indices: 89335075--89335244 Score: 189
Period size: 81 Copynumber: 2.1 Consensus size: 81
89335065 AAGGGTATTT
* * *
89335075 CGGTAATTTTATAAACAAAGGGTATTTTAGTAATTTTACAAACCAGGGGTATTTTGGTAATTTTG
1 CGGTAATTTTACAAACAAAGGGTATTTTAGTAATTTTACAAACCAAGGGTATTTTGGTAATTCTG
***
89335140 TAAACCAAGGGTATTT
66 TAAACCAAGGGTAAAA
** * * * * *
89335156 TAGTAATTTTACAAACTAGGGGTATTTTGGTGATTTTATAAACCAAGGGTATTTTGGTAATTCTG
1 CGGTAATTTTACAAACAAAGGGTATTTTAGTAATTTTACAAACCAAGGGTATTTTGGTAATTCTG
**
89335221 TAAATTGAA-GGTAAAA
66 TAAA-CCAAGGGTAAAA
89335237 CGGTAATT
1 CGGTAATT
89335245 CTGTAAACTG
Statistics
Matches: 71, Mismatches: 17, Indels: 2
0.79 0.19 0.02
Matches are distributed among these distances:
81 69 0.97
82 2 0.03
ACGTcount: A:0.34, C:0.08, G:0.21, T:0.38
Consensus pattern (81 bp):
CGGTAATTTTACAAACAAAGGGTATTTTAGTAATTTTACAAACCAAGGGTATTTTGGTAATTCTG
TAAACCAAGGGTAAAA
Found at i:89335252 original size:54 final size:54
Alignment explanation
Indices: 89335211--89335458 Score: 369
Period size: 54 Copynumber: 4.6 Consensus size: 54
89335201 AGGGTATTTT
* **
89335211 GGTAATTCTGTAAATTGAAGGTAAAACGGTAATTCTGTAAACTGAGGGTAAAAC
1 GGTAATTCTGTAAATCGAAGGTAAAATAGTAATTCTGTAAACTGAGGGTAAAAC
* * *
89335265 GGTAATTCTATAAATCGAGGGTAAAATAGTAATTCTGTAAACTGAGGGGAAAAC
1 GGTAATTCTGTAAATCGAAGGTAAAATAGTAATTCTGTAAACTGAGGGTAAAAC
*
89335319 AGTAATTCTGTAAATCG-AGGATAAAATAGTAATTCTGTAAACTGAGGGTAAAAC
1 GGTAATTCTGTAAATCGAAGG-TAAAATAGTAATTCTGTAAACTGAGGGTAAAAC
*
89335373 GGTAATTCTGTAAATCGAGGGTAAAATAGTAATTCTGTAAACTGAGGG-AAAA-
1 GGTAATTCTGTAAATCGAAGGTAAAATAGTAATTCTGTAAACTGAGGGTAAAAC
*
89335425 AGTAATTCTGTAAATCG-AGGATAAAATAGTAATT
1 GGTAATTCTGTAAATCGAAGG-TAAAATAGTAATT
89335459 TTACAAGTCG
Statistics
Matches: 177, Mismatches: 14, Indels: 8
0.89 0.07 0.04
Matches are distributed among these distances:
51 2 0.01
52 29 0.16
53 6 0.03
54 138 0.78
55 2 0.01
ACGTcount: A:0.41, C:0.08, G:0.23, T:0.28
Consensus pattern (54 bp):
GGTAATTCTGTAAATCGAAGGTAAAATAGTAATTCTGTAAACTGAGGGTAAAAC
Found at i:89335471 original size:27 final size:27
Alignment explanation
Indices: 89335212--89335458 Score: 256
Period size: 27 Copynumber: 9.2 Consensus size: 27
89335202 GGGTATTTTG
* **
89335212 GTAATTCTGTAAATTGAAGG-TAAAACG
1 GTAATTCTGTAAATCG-AGGATAAAATA
* **
89335239 GTAATTCTGTAAA-CTGAGGGTAAAACG
1 GTAATTCTGTAAATC-GAGGATAAAATA
* *
89335266 GTAATTCTATAAATCGAGGGTAAAATA
1 GTAATTCTGTAAATCGAGGATAAAATA
** *
89335293 GTAATTCTGTAAA-CTGAGGGGAAAACA
1 GTAATTCTGTAAATC-GAGGATAAAATA
89335320 GTAATTCTGTAAATCGAGGATAAAATA
1 GTAATTCTGTAAATCGAGGATAAAATA
* **
89335347 GTAATTCTGTAAA-CTGAGGGTAAAACG
1 GTAATTCTGTAAATC-GAGGATAAAATA
*
89335374 GTAATTCTGTAAATCGAGGGTAAAATA
1 GTAATTCTGTAAATCGAGGATAAAATA
*
89335401 GTAATTCTGTAAA-CTGAGG-GAAAA-A
1 GTAATTCTGTAAATC-GAGGATAAAATA
89335426 GTAATTCTGTAAATCGAGGATAAAATA
1 GTAATTCTGTAAATCGAGGATAAAATA
89335453 GTAATT
1 GTAATT
89335459 TTACAAGTCG
Statistics
Matches: 192, Mismatches: 17, Indels: 22
0.83 0.07 0.10
Matches are distributed among these distances:
25 18 0.09
26 15 0.08
27 156 0.81
28 3 0.02
ACGTcount: A:0.41, C:0.09, G:0.22, T:0.28
Consensus pattern (27 bp):
GTAATTCTGTAAATCGAGGATAAAATA
Found at i:89338327 original size:27 final size:27
Alignment explanation
Indices: 89338297--89338356 Score: 84
Period size: 28 Copynumber: 2.2 Consensus size: 27
89338287 AAAACCCTAG
*
89338297 GGGTATATCGGTAATTTTGCTCTTTAA
1 GGGTATATCAGTAATTTTGCTCTTTAA
* *
89338324 GGGTAATTTCAGTAATTTTGCTCTTTAG
1 GGGT-ATATCAGTAATTTTGCTCTTTAA
89338352 GGGTA
1 GGGTA
89338357 ATTTCGTGAT
Statistics
Matches: 29, Mismatches: 3, Indels: 2
0.85 0.09 0.06
Matches are distributed among these distances:
27 5 0.17
28 24 0.83
ACGTcount: A:0.22, C:0.10, G:0.25, T:0.43
Consensus pattern (27 bp):
GGGTATATCAGTAATTTTGCTCTTTAA
Found at i:89338339 original size:28 final size:28
Alignment explanation
Indices: 89338307--89338361 Score: 101
Period size: 28 Copynumber: 2.0 Consensus size: 28
89338297 GGGTATATCG
89338307 GTAATTTTGCTCTTTAAGGGTAATTTCA
1 GTAATTTTGCTCTTTAAGGGTAATTTCA
*
89338335 GTAATTTTGCTCTTTAGGGGTAATTTC
1 GTAATTTTGCTCTTTAAGGGTAATTTC
89338362 GTGATCTACG
Statistics
Matches: 26, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
28 26 1.00
ACGTcount: A:0.22, C:0.11, G:0.20, T:0.47
Consensus pattern (28 bp):
GTAATTTTGCTCTTTAAGGGTAATTTCA
Found at i:89339066 original size:54 final size:54
Alignment explanation
Indices: 89338999--89339149 Score: 248
Period size: 54 Copynumber: 2.8 Consensus size: 54
89338989 TACCCTACAA
* *
89338999 GGGTATTTCGGTAATTTTATAAACAAAGGGTATTTTAGTAATTTTACAAACCAG
1 GGGTATTTTGGTAATTTTATAAACCAAGGGTATTTTAGTAATTTTACAAACCAG
* *
89339053 GGGTATTTTGGTAATTTTGTAAACCAAGGGTATTTTAGTAATTTTACAAACTAG
1 GGGTATTTTGGTAATTTTATAAACCAAGGGTATTTTAGTAATTTTACAAACCAG
* *
89339107 GGGTATTTTGGTGATTTTATAAACCAAGGGTATTTTGGTAATT
1 GGGTATTTTGGTAATTTTATAAACCAAGGGTATTTTAGTAATT
89339150 CTGTAAATTG
Statistics
Matches: 90, Mismatches: 7, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
54 90 1.00
ACGTcount: A:0.31, C:0.07, G:0.21, T:0.40
Consensus pattern (54 bp):
GGGTATTTTGGTAATTTTATAAACCAAGGGTATTTTAGTAATTTTACAAACCAG
Found at i:89339087 original size:81 final size:81
Alignment explanation
Indices: 89338996--89339156 Score: 232
Period size: 81 Copynumber: 2.0 Consensus size: 81
89338986 TTCTACCCTA
* * *
89338996 CAAGGGTATTTCGGTAATTTTATAAACAAAGGGTATTTTAGTAATTTTACAAACCAGGGGTATTT
1 CAAGGGTATTTCAGTAATTTTACAAACAAAGGGTATTTTAGTAATTTTACAAACCAAGGGTATTT
*
89339061 TGGTAATTTTGTAAAC
66 TGGTAATTCTGTAAAC
* * * * * *
89339077 CAAGGGTATTTTAGTAATTTTACAAACTAGGGGTATTTTGGTGATTTTATAAACCAAGGGTATTT
1 CAAGGGTATTTCAGTAATTTTACAAACAAAGGGTATTTTAGTAATTTTACAAACCAAGGGTATTT
89339142 TGGTAATTCTGTAAA
66 TGGTAATTCTGTAAA
89339157 TTGAAGGTAA
Statistics
Matches: 70, Mismatches: 10, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
81 70 1.00
ACGTcount: A:0.32, C:0.08, G:0.20, T:0.39
Consensus pattern (81 bp):
CAAGGGTATTTCAGTAATTTTACAAACAAAGGGTATTTTAGTAATTTTACAAACCAAGGGTATTT
TGGTAATTCTGTAAAC
Found at i:89339156 original size:27 final size:27
Alignment explanation
Indices: 89338996--89339149 Score: 209
Period size: 27 Copynumber: 5.7 Consensus size: 27
89338986 TTCTACCCTA
*
89338996 CAAGGGTATTTCGGTAATTTTATAAAC
1 CAAGGGTATTTTGGTAATTTTATAAAC
* * *
89339023 AAAGGGTATTTTAGTAATTTTACAAAC
1 CAAGGGTATTTTGGTAATTTTATAAAC
* *
89339050 CAGGGGTATTTTGGTAATTTTGTAAAC
1 CAAGGGTATTTTGGTAATTTTATAAAC
* *
89339077 CAAGGGTATTTTAGTAATTTTACAAAC
1 CAAGGGTATTTTGGTAATTTTATAAAC
* * *
89339104 TAGGGGTATTTTGGTGATTTTATAAAC
1 CAAGGGTATTTTGGTAATTTTATAAAC
89339131 CAAGGGTATTTTGGTAATT
1 CAAGGGTATTTTGGTAATT
89339150 CTGTAAATTG
Statistics
Matches: 106, Mismatches: 21, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
27 106 1.00
ACGTcount: A:0.32, C:0.08, G:0.21, T:0.40
Consensus pattern (27 bp):
CAAGGGTATTTTGGTAATTTTATAAAC
Found at i:89339173 original size:27 final size:27
Alignment explanation
Indices: 89339144--89339391 Score: 300
Period size: 27 Copynumber: 9.2 Consensus size: 27
89339134 GGGTATTTTG
* *
89339144 GTAATTCTGTAAATTGAAGGTAAAACG
1 GTAATTCTGTAAATTGAGGGTAAAACA
* * *
89339171 GTAATTCAGTAAACTGAGGGTAAAACG
1 GTAATTCTGTAAATTGAGGGTAAAACA
* * *
89339198 GTAATTCTATAAATCGAGGGTAAAATA
1 GTAATTCTGTAAATTGAGGGTAAAACA
* *
89339225 GTAATTCTGTAAACTGAGGGGAAAACA
1 GTAATTCTGTAAATTGAGGGTAAAACA
* * *
89339252 GTAATTCTGTAAATCGAGGATAAAATA
1 GTAATTCTGTAAATTGAGGGTAAAACA
* *
89339279 GTAATTCTGTAAACTGAGGGTAAAACG
1 GTAATTCTGTAAATTGAGGGTAAAACA
* *
89339306 GTAATTCTGTAAATCGAGGGTAAAATA
1 GTAATTCTGTAAATTGAGGGTAAAACA
*
89339333 GTAATTCTGTAAACTGAGGG-AAAACA
1 GTAATTCTGTAAATTGAGGGTAAAACA
* * *
89339359 GTAATTCTGTAAATCGAGGATAAAATA
1 GTAATTCTGTAAATTGAGGGTAAAACA
89339386 GTAATT
1 GTAATT
89339392 TTACAAGTCG
Statistics
Matches: 185, Mismatches: 35, Indels: 2
0.83 0.16 0.01
Matches are distributed among these distances:
26 22 0.12
27 163 0.88
ACGTcount: A:0.42, C:0.09, G:0.22, T:0.27
Consensus pattern (27 bp):
GTAATTCTGTAAATTGAGGGTAAAACA
Found at i:89339175 original size:81 final size:81
Alignment explanation
Indices: 89339007--89339176 Score: 189
Period size: 81 Copynumber: 2.1 Consensus size: 81
89338997 AAGGGTATTT
* * *
89339007 CGGTAATTTTATAAACAAAGGGTATTTTAGTAATTTTACAAACCAGGGGTATTTTGGTAATTTTG
1 CGGTAATTTTACAAACAAAGGGTATTTTAGTAATTTTACAAACCAAGGGTATTTTGGTAATTCTG
***
89339072 TAAACCAAGGGTATTT
66 TAAACCAAGGGTAAAA
** * * * * *
89339088 TAGTAATTTTACAAACTAGGGGTATTTTGGTGATTTTATAAACCAAGGGTATTTTGGTAATTCTG
1 CGGTAATTTTACAAACAAAGGGTATTTTAGTAATTTTACAAACCAAGGGTATTTTGGTAATTCTG
**
89339153 TAAATTGAA-GGTAAAA
66 TAAA-CCAAGGGTAAAA
89339169 CGGTAATT
1 CGGTAATT
89339177 CAGTAAACTG
Statistics
Matches: 71, Mismatches: 17, Indels: 2
0.79 0.19 0.02
Matches are distributed among these distances:
81 69 0.97
82 2 0.03
ACGTcount: A:0.34, C:0.08, G:0.21, T:0.38
Consensus pattern (81 bp):
CGGTAATTTTACAAACAAAGGGTATTTTAGTAATTTTACAAACCAAGGGTATTTTGGTAATTCTG
TAAACCAAGGGTAAAA
Found at i:89343191 original size:43 final size:42
Alignment explanation
Indices: 89343125--89343289 Score: 147
Period size: 43 Copynumber: 3.9 Consensus size: 42
89343115 AGCTCGTACA
* * *
89343125 ATGCCAACGTCCCAGACATGGTCTTACATGTAATCAAATATCG
1 ATGCCAACGTCCCAGACAGGGTCTTACACGAAATCAAATAT-G
*
89343168 ATGCC-ACTGTCCTAGACAGGGTCTTACACGAAATCAAATATG
1 ATGCCAAC-GTCCCAGACAGGGTCTTACACGAAATCAAATATG
* * * * * * *
89343210 ATGTCGATGTCCCAAACAGGATTTTTCACGTAAATCTCAAAT-TG
1 ATGCCAACGTCCCAGACAGGGTCTTACACG-AAA--TCAAATATG
*
89343254 ATGCCAACGTCCCA-AGCATGGTCTTACACGAAATCA
1 ATGCCAACGTCCCAGA-CAGGGTCTTACACGAAATCA
89343290 CATTTCGGAA
Statistics
Matches: 98, Mismatches: 18, Indels: 14
0.75 0.14 0.11
Matches are distributed among these distances:
41 3 0.03
42 24 0.24
43 42 0.43
44 23 0.23
45 6 0.06
ACGTcount: A:0.33, C:0.25, G:0.17, T:0.25
Consensus pattern (42 bp):
ATGCCAACGTCCCAGACAGGGTCTTACACGAAATCAAATATG
Found at i:89344465 original size:2 final size:2
Alignment explanation
Indices: 89344458--89344494 Score: 74
Period size: 2 Copynumber: 18.5 Consensus size: 2
89344448 GAGACTAGTC
89344458 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
89344495 CATGTCATGA
Statistics
Matches: 35, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 35 1.00
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (2 bp):
AT
Found at i:89346527 original size:30 final size:30
Alignment explanation
Indices: 89346493--89346553 Score: 77
Period size: 30 Copynumber: 2.0 Consensus size: 30
89346483 TCCTTAACTC
89346493 AAACTTTGGAAAAATTACAATTTTGCCCCT
1 AAACTTTGGAAAAATTACAATTTTGCCCCT
* * * * *
89346523 AAACTTTTGCATATTTACACTTTTGCCCCT
1 AAACTTTGGAAAAATTACAATTTTGCCCCT
89346553 A
1 A
89346554 GGCTCGGGAA
Statistics
Matches: 26, Mismatches: 5, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
30 26 1.00
ACGTcount: A:0.31, C:0.23, G:0.08, T:0.38
Consensus pattern (30 bp):
AAACTTTGGAAAAATTACAATTTTGCCCCT
Found at i:89347870 original size:50 final size:49
Alignment explanation
Indices: 89347795--89347969 Score: 210
Period size: 50 Copynumber: 3.5 Consensus size: 49
89347785 TGAATACACG
* *
89347795 TGTGTAGTACTAAGTGTAGGCTACTACGTGTATCATACTGTTAAATCGCA
1 TGTGTAGTACTAAGTGCAGGCTACTACGTGTATCATA-TGTTAGATCGCA
* * * * *
89347845 TGTGTAGTACTAAGTGCAGGCTACTACGTGTATCAGATGATGAGGTCACG
1 TGTGTAGTACTAAGTGCAGGCTACTACGTGTATCATATG-TTAGATCGCA
* *
89347895 TGTGTAGTACTAAGTGCAGGCTACTATGTGTACTGGAT-TGTT-GATCGCA
1 TGTGTAGTACTAAGTGCAGGCTACTACGTGTA-T-CATATGTTAGATCGCA
*
89347944 TGTGTAGTACTAAGTGTAGGCTACTA
1 TGTGTAGTACTAAGTGCAGGCTACTA
89347970 TGCATATCAA
Statistics
Matches: 107, Mismatches: 15, Indels: 7
0.83 0.12 0.05
Matches are distributed among these distances:
49 31 0.29
50 72 0.67
51 3 0.03
52 1 0.01
ACGTcount: A:0.26, C:0.15, G:0.27, T:0.33
Consensus pattern (49 bp):
TGTGTAGTACTAAGTGCAGGCTACTACGTGTATCATATGTTAGATCGCA
Found at i:89348098 original size:27 final size:26
Alignment explanation
Indices: 89348068--89348119 Score: 61
Period size: 25 Copynumber: 2.0 Consensus size: 26
89348058 GGGAAAATCG
89348068 ATAAAGTGGTAATATGTG-AAAGTTATT
1 ATAAAGT-G-AATATGTGCAAAGTTATT
* *
89348095 ATAAGGTGAATATGTGCAAATTTAT
1 ATAAAGTGAATATGTGCAAAGTTAT
89348120 GTTTATGAAA
Statistics
Matches: 22, Mismatches: 2, Indels: 3
0.81 0.07 0.11
Matches are distributed among these distances:
25 8 0.36
26 8 0.36
27 6 0.27
ACGTcount: A:0.40, C:0.02, G:0.21, T:0.37
Consensus pattern (26 bp):
ATAAAGTGAATATGTGCAAAGTTATT
Found at i:89353129 original size:21 final size:20
Alignment explanation
Indices: 89353092--89353130 Score: 51
Period size: 21 Copynumber: 1.9 Consensus size: 20
89353082 TCTTGAAAAT
* *
89353092 AGGGCACATGGCTGTGTGAA
1 AGGGCACATGCCCGTGTGAA
89353112 AGGGCAACATGCCCGTGTG
1 AGGGC-ACATGCCCGTGTG
89353131 GTGGTCATTA
Statistics
Matches: 16, Mismatches: 2, Indels: 1
0.84 0.11 0.05
Matches are distributed among these distances:
20 5 0.31
21 11 0.69
ACGTcount: A:0.23, C:0.21, G:0.38, T:0.18
Consensus pattern (20 bp):
AGGGCACATGCCCGTGTGAA
Found at i:89353417 original size:20 final size:20
Alignment explanation
Indices: 89353383--89353433 Score: 86
Period size: 20 Copynumber: 2.6 Consensus size: 20
89353373 AAGAGGCACA
*
89353383 TGGCCA-AGGCACACGTCTG
1 TGGCCATAGGCCCACGTCTG
89353402 TGGCCATAGGCCCACGTCTG
1 TGGCCATAGGCCCACGTCTG
89353422 TGGCCATAGGCC
1 TGGCCATAGGCC
89353434 GTGTCCTCCA
Statistics
Matches: 30, Mismatches: 1, Indels: 1
0.94 0.03 0.03
Matches are distributed among these distances:
19 6 0.20
20 24 0.80
ACGTcount: A:0.18, C:0.33, G:0.31, T:0.18
Consensus pattern (20 bp):
TGGCCATAGGCCCACGTCTG
Found at i:89354447 original size:49 final size:47
Alignment explanation
Indices: 89354327--89354547 Score: 170
Period size: 49 Copynumber: 4.7 Consensus size: 47
89354317 GTATAATGCC
* *
89354327 GATGCCATGTCCCAGACATGGTCTTACACTGGCTCATCCATCAAGTA
1 GATGCCATGTCCCAGACATGGTCTTACACTGACTCATCAATCAAGTA
* * *
89354374 GATGCCATGTCCCAGACATGGTCTTACACTGACT-ATCAAAATTGAGGTT
1 GATGCCATGTCCCAGACATGGTCTTACACTGACTCATC--AA-TCAAGTA
* ** * * *
89354423 GATGCCATGTCCCAGACATTGTCTTACTTTAGTTCTCA-CATATC-CGTGCC
1 GATGCCATGTCCCAGACATGGTCTTACACT-G-ACTCATCA-ATCAAGT--A
**
89354473 GATGCCATGTCCCAGACATGGTCTTACACTGAAACATC--TCATAGCT-
1 GATGCCATGTCCCAGACATGGTCTTACACTGACTCATCAATCA-AG-TA
*
89354519 GATG-CATGTCCCGGACAT-GTCTTACACTG
1 GATGCCATGTCCCAGACATGGTCTTACACTG
89354548 GCCTACATCT
Statistics
Matches: 141, Mismatches: 20, Indels: 29
0.74 0.11 0.15
Matches are distributed among these distances:
44 11 0.08
45 13 0.09
46 9 0.06
47 33 0.23
48 6 0.04
49 36 0.26
50 29 0.21
51 3 0.02
52 1 0.01
ACGTcount: A:0.25, C:0.28, G:0.19, T:0.29
Consensus pattern (47 bp):
GATGCCATGTCCCAGACATGGTCTTACACTGACTCATCAATCAAGTA
Found at i:89354728 original size:46 final size:47
Alignment explanation
Indices: 89354324--89354735 Score: 216
Period size: 46 Copynumber: 8.8 Consensus size: 47
89354314 AGGGTATAAT
*
89354324 GCCGATGCCATGTCCCAGACATGGTCTTACACTGGCTCATC-CATCA-A
1 GCCGATGCCATGTCCCAGACATGGTCTTACACTGGCTC-TCACAT-ATG
** * * *
89354371 GTAGATGCCATGTCCCAGACATGGTCTTACACTGACTATCA-AAATTGAG
1 GCCGATGCCATGTCCCAGACATGGTCTTACACTGGCTCTCACATA-T--G
** * ** * *
89354420 GTTGATGCCATGTCCCAGACATTGTCTTACTTTAGTTCTCACATATCCG
1 GCCGATGCCATGTCCCAGACATGGTCTTACACTGGCTCTCACATAT--G
*** *
89354469 TGCCGATGCCATGTCCCAGACATGGTCTTACACTGAAACATCTCATA--
1 -GCCGATGCCATGTCCCAGACATGGTCTTACACTGGCTC-TCACATATG
* * *
89354516 GCTGATG-CATGTCCCGGACAT-GTCTTACACTGGC-CT-ACATCTCGAG
1 GCCGATGCCATGTCCCAGACATGGTCTTACACTGGCTCTCACATAT---G
* * * * *
89354562 GTCGTTG-CATGTCCCAAACAT-GTCTTACACTAGCTCTTATC-TCAAT-
1 GCCGATGCCATGTCCCAGACATGGTCTTACACTGGCTCTCA-CAT--ATG
* * * *
89354608 GCCAAAGCCATGTCCCAAACATGGTCTTACTAGATCTTGC-CTCA-ATA--
1 GCCGATGCCATGTCCCAGACATGGTCTTAC---A-CTGGCTCTCACATATG
* * *
89354655 -CTGATGCTATGTCCCAGACATCGTCTTACACTGGCTCTCACAATATG
1 GCCGATGCCATGTCCCAGACATGGTCTTACACTGGCTCTCAC-ATATG
89354702 GCCGATG-CATGTCCCAGACAT-GTCTTACACTGGC
1 GCCGATGCCATGTCCCAGACATGGTCTTACACTGGC
89354736 ACACAACTAA
Statistics
Matches: 279, Mismatches: 55, Indels: 63
0.70 0.14 0.16
Matches are distributed among these distances:
41 3 0.01
42 5 0.02
43 6 0.02
44 11 0.04
45 17 0.06
46 76 0.27
47 63 0.23
48 15 0.05
49 36 0.13
50 33 0.12
51 10 0.04
52 4 0.01
ACGTcount: A:0.25, C:0.29, G:0.18, T:0.28
Consensus pattern (47 bp):
GCCGATGCCATGTCCCAGACATGGTCTTACACTGGCTCTCACATATG
Found at i:89359762 original size:39 final size:40
Alignment explanation
Indices: 89359661--89359762 Score: 143
Period size: 40 Copynumber: 2.6 Consensus size: 40
89359651 TATTCAGATG
89359661 ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCCAGTAACT
1 ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCCAGTAACT
* * * **
89359701 GTATCCGGGCTAAGACCCGAAGGCATTTGTGCGAGTTGCT
1 ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCCAGTAACT
*
89359741 ATATCC-GGCTAATTCCCGAAGG
1 ATATCCGGGCTAAGTCCCGAAGG
89359763 TACTTGGGTT
Statistics
Matches: 54, Mismatches: 8, Indels: 1
0.86 0.13 0.02
Matches are distributed among these distances:
39 14 0.26
40 40 0.74
ACGTcount: A:0.24, C:0.25, G:0.27, T:0.25
Consensus pattern (40 bp):
ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCCAGTAACT
Found at i:89367577 original size:40 final size:40
Alignment explanation
Indices: 89367492--89367578 Score: 120
Period size: 40 Copynumber: 2.2 Consensus size: 40
89367482 TATTCGGATG
* *
89367492 ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCCAGTAACT
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCAAGTAACT
* * **
89367532 GTATCCGGGCTAAGACCCGAAGGCATTTGTGTAAGTTGCT
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCAAGTAACT
89367572 ATATCCG
1 ATATCCG
89367579 ACTAATTCCC
Statistics
Matches: 40, Mismatches: 7, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
40 40 1.00
ACGTcount: A:0.24, C:0.23, G:0.26, T:0.26
Consensus pattern (40 bp):
ATATCCGGGCTAAGACCCGAAGGCATTTGTGCAAGTAACT
Found at i:89375618 original size:13 final size:13
Alignment explanation
Indices: 89375608--89375645 Score: 76
Period size: 13 Copynumber: 2.9 Consensus size: 13
89375598 ACACGGGCAT
89375608 GTCATACGGGCGC
1 GTCATACGGGCGC
89375621 GTCATACGGGCGC
1 GTCATACGGGCGC
89375634 GTCATACGGGCG
1 GTCATACGGGCG
89375646 TGTCCCTGCC
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 25 1.00
ACGTcount: A:0.16, C:0.29, G:0.39, T:0.16
Consensus pattern (13 bp):
GTCATACGGGCGC
Found at i:89379375 original size:37 final size:37
Alignment explanation
Indices: 89379325--89379398 Score: 148
Period size: 37 Copynumber: 2.0 Consensus size: 37
89379315 TCACGCTACT
89379325 TAGTATTTTCCCATATGGTACAGTCGAGGTAATTCAC
1 TAGTATTTTCCCATATGGTACAGTCGAGGTAATTCAC
89379362 TAGTATTTTCCCATATGGTACAGTCGAGGTAATTCAC
1 TAGTATTTTCCCATATGGTACAGTCGAGGTAATTCAC
89379399 ACCAAATTTG
Statistics
Matches: 37, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
37 37 1.00
ACGTcount: A:0.27, C:0.19, G:0.19, T:0.35
Consensus pattern (37 bp):
TAGTATTTTCCCATATGGTACAGTCGAGGTAATTCAC
Found at i:89382418 original size:29 final size:29
Alignment explanation
Indices: 89382354--89382443 Score: 128
Period size: 29 Copynumber: 3.1 Consensus size: 29
89382344 CACATACCTA
* *
89382354 TATATGGCCCACTAGGCCC-AATTACATT
1 TATATGGCCCATTAGGCCCAAATCACATT
*
89382382 TATATGGCCTATTAGGCCCAAATCACATT
1 TATATGGCCCATTAGGCCCAAATCACATT
* *
89382411 TATATGGCCCATCAGGCCCAATTCACATT
1 TATATGGCCCATTAGGCCCAAATCACATT
89382440 TATA
1 TATA
89382444 GTCATGCTTA
Statistics
Matches: 55, Mismatches: 6, Indels: 1
0.89 0.10 0.02
Matches are distributed among these distances:
28 17 0.31
29 38 0.69
ACGTcount: A:0.30, C:0.27, G:0.13, T:0.30
Consensus pattern (29 bp):
TATATGGCCCATTAGGCCCAAATCACATT
Found at i:89385470 original size:27 final size:26
Alignment explanation
Indices: 89385391--89385475 Score: 70
Period size: 27 Copynumber: 3.2 Consensus size: 26
89385381 TTTAAAACTT
*
89385391 TTTTATTTATTAT-TTTTATT-TTCAC
1 TTTTATTTATTTTCTTTTATTATT-AC
*
89385416 TTTTATCTTTATTTATCTTATT-TAATTAC
1 TTTTA--TTTATTT-TCTT-TTATTATTAC
89385445 TTTTATTTCATTTTCTTTTATTATTA-
1 TTTTATTT-ATTTTCTTTTATTATTAC
89385471 TTTTA
1 TTTTA
89385476 ATTTTAGTTT
Statistics
Matches: 49, Mismatches: 3, Indels: 15
0.73 0.04 0.22
Matches are distributed among these distances:
25 5 0.10
26 7 0.14
27 18 0.37
28 5 0.10
29 10 0.20
30 4 0.08
ACGTcount: A:0.21, C:0.08, G:0.00, T:0.71
Consensus pattern (26 bp):
TTTTATTTATTTTCTTTTATTATTAC
Found at i:89391295 original size:15 final size:15
Alignment explanation
Indices: 89391275--89391304 Score: 60
Period size: 15 Copynumber: 2.0 Consensus size: 15
89391265 AGAAAAAGAG
89391275 TTAACCTTTACTTGC
1 TTAACCTTTACTTGC
89391290 TTAACCTTTACTTGC
1 TTAACCTTTACTTGC
89391305 GTACAACAGA
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 15 1.00
ACGTcount: A:0.20, C:0.27, G:0.07, T:0.47
Consensus pattern (15 bp):
TTAACCTTTACTTGC
Found at i:89404696 original size:30 final size:31
Alignment explanation
Indices: 89404609--89404740 Score: 168
Period size: 30 Copynumber: 4.5 Consensus size: 31
89404599 GACAAGATTG
* * * * *
89404609 GCACTAAGTGTGCGGGTTTTAAAATTGTACA
1 GCACTAAGTGTGCGAGTCTGAAAATTATATA
*
89404640 GCACTAAGTGTGCGAGTTTG---ATTATATA
1 GCACTAAGTGTGCGAGTCTGAAAATTATATA
89404668 GCACTAAGTGTGCGAG-CTGAAAATTATATA
1 GCACTAAGTGTGCGAGTCTGAAAATTATATA
89404698 GCACTAAGTGTGCGAG-CTGAAAA-TATATA
1 GCACTAAGTGTGCGAGTCTGAAAATTATATA
89404727 GCACTAAGTGTGCG
1 GCACTAAGTGTGCG
89404741 GATTCACTAT
Statistics
Matches: 93, Mismatches: 5, Indels: 8
0.88 0.05 0.08
Matches are distributed among these distances:
27 2 0.02
28 22 0.24
29 20 0.22
30 31 0.33
31 18 0.19
ACGTcount: A:0.32, C:0.14, G:0.26, T:0.29
Consensus pattern (31 bp):
GCACTAAGTGTGCGAGTCTGAAAATTATATA
Found at i:89404725 original size:59 final size:59
Alignment explanation
Indices: 89404609--89404740 Score: 169
Period size: 59 Copynumber: 2.2 Consensus size: 59
89404599 GACAAGATTG
* * * * * *
89404609 GCACTAAGTGTGCGGGTTTTAAAATTGTACAGCACTAAGTGTGCGAGTTTGATTATATA
1 GCACTAAGTGTGCGAGTCTGAAAATTATACAGCACTAAGTGTGCGAGTCTGAATATATA
*
89404668 GCACTAAGTGTGCGAG-CTGAAAATTATATAGCACTAAGTGTGCGAG-CTGAAAATATATA
1 GCACTAAGTGTGCGAGTCTGAAAATTATACAGCACTAAGTGTGCGAGTCTG--AATATATA
89404727 GCACTAAGTGTGCG
1 GCACTAAGTGTGCG
89404741 GATTCACTAT
Statistics
Matches: 64, Mismatches: 7, Indels: 4
0.85 0.09 0.05
Matches are distributed among these distances:
57 2 0.03
58 26 0.41
59 36 0.56
ACGTcount: A:0.32, C:0.14, G:0.26, T:0.29
Consensus pattern (59 bp):
GCACTAAGTGTGCGAGTCTGAAAATTATACAGCACTAAGTGTGCGAGTCTGAATATATA
Found at i:89407365 original size:29 final size:29
Alignment explanation
Indices: 89407332--89407406 Score: 141
Period size: 29 Copynumber: 2.6 Consensus size: 29
89407322 CCTTCGAGCT
89407332 CGCACACTTAGTGCCATATATTTCCAGCA
1 CGCACACTTAGTGCCATATATTTCCAGCA
*
89407361 TGCACACTTAGTGCCATATATTTCCAGCA
1 CGCACACTTAGTGCCATATATTTCCAGCA
89407390 CGCACACTTAGTGCCAT
1 CGCACACTTAGTGCCAT
89407407 CTCGTCACCG
Statistics
Matches: 44, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
29 44 1.00
ACGTcount: A:0.27, C:0.31, G:0.15, T:0.28
Consensus pattern (29 bp):
CGCACACTTAGTGCCATATATTTCCAGCA
Found at i:89407366 original size:58 final size:58
Alignment explanation
Indices: 89407273--89407406 Score: 135
Period size: 58 Copynumber: 2.3 Consensus size: 58
89407263 ATACTCGATT
* * * * *
89407273 TCGCACACTTAGTGCCATGCGATTTAAGCCCGCACACACAGTGCCATGCCCTTCGAGC
1 TCGCACACTTAGTGCCATGAGATTTAAGCACGCACACACAGTGCCATACACTTCCAGC
* * * ** * *
89407331 TCGCACACTTAGTGCCAT-ATATTTCCAGCATGCACACTTAGTGCCATATATTTCCAGC
1 TCGCACACTTAGTGCCATGAGATTT-AAGCACGCACACACAGTGCCATACACTTCCAGC
*
89407389 ACGCACACTTAGTGCCAT
1 TCGCACACTTAGTGCCAT
89407407 CTCGTCACCG
Statistics
Matches: 62, Mismatches: 13, Indels: 2
0.81 0.17 0.03
Matches are distributed among these distances:
57 4 0.06
58 58 0.94
ACGTcount: A:0.25, C:0.33, G:0.17, T:0.25
Consensus pattern (58 bp):
TCGCACACTTAGTGCCATGAGATTTAAGCACGCACACACAGTGCCATACACTTCCAGC
Found at i:89411559 original size:108 final size:108
Alignment explanation
Indices: 89411397--89411645 Score: 437
Period size: 108 Copynumber: 2.3 Consensus size: 108
89411387 CGACTTGTAA
89411397 AATTACTATTTTATCCTCGATTTACAGAATTACTGTTTTCCCCTCAGTTTACAGAATTACTATTT
1 AATTACTATTTTATCCTCGATTTACAGAATTACTGTTTTCCCCTCAGTTTACAGAATTACTATTT
*
89411462 TACCCTCGATTTACAGAATTATCGTTTTACCCTCAGTTTACAG
66 TACCCTCGATTTACAGAATTACCGTTTTACCCTCAGTTTACAG
89411505 AATTACTATTTTATCCTCGATTTACAGAATTACTGTTTTCCCCTCAGTTTACAGAATTACTATTT
1 AATTACTATTTTATCCTCGATTTACAGAATTACTGTTTTCCCCTCAGTTTACAGAATTACTATTT
*
89411570 TACCCTCGATTTATAGAATTACCGTTTTACCCTCAGTTTACAG
66 TACCCTCGATTTACAGAATTACCGTTTTACCCTCAGTTTACAG
** *
89411613 AATTACCGTTTTA-CCTTCAATTTACAGAATTAC
1 AATTACTATTTTATCC-TCGATTTACAGAATTAC
89411646 CAAAATACCC
Statistics
Matches: 135, Mismatches: 5, Indels: 2
0.95 0.04 0.01
Matches are distributed among these distances:
107 2 0.01
108 133 0.99
ACGTcount: A:0.28, C:0.22, G:0.09, T:0.41
Consensus pattern (108 bp):
AATTACTATTTTATCCTCGATTTACAGAATTACTGTTTTCCCCTCAGTTTACAGAATTACTATTT
TACCCTCGATTTACAGAATTACCGTTTTACCCTCAGTTTACAG
Found at i:89411646 original size:27 final size:27
Alignment explanation
Indices: 89411397--89411645 Score: 302
Period size: 27 Copynumber: 9.2 Consensus size: 27
89411387 CGACTTGTAA
* * *
89411397 AATTACTATTTTATCCTCGATTTACAG
1 AATTACTGTTTTACCCTCAATTTACAG
* *
89411424 AATTACTGTTTTCCCCTCAGTTTACAG
1 AATTACTGTTTTACCCTCAATTTACAG
* *
89411451 AATTACTATTTTACCCTCGATTTACAG
1 AATTACTGTTTTACCCTCAATTTACAG
*
89411478 AATTA-TCGTTTTACCCTCAGTTTACAG
1 AATTACT-GTTTTACCCTCAATTTACAG
* * *
89411505 AATTACTATTTTATCCTCGATTTACAG
1 AATTACTGTTTTACCCTCAATTTACAG
* *
89411532 AATTACTGTTTTCCCCTCAGTTTACAG
1 AATTACTGTTTTACCCTCAATTTACAG
* * *
89411559 AATTACTATTTTACCCTCGATTTATAG
1 AATTACTGTTTTACCCTCAATTTACAG
* *
89411586 AATTACCGTTTTACCCTCAGTTTACAG
1 AATTACTGTTTTACCCTCAATTTACAG
* *
89411613 AATTACCGTTTTACCTTCAATTTACAG
1 AATTACTGTTTTACCCTCAATTTACAG
89411640 AATTAC
1 AATTAC
89411646 CAAAATACCC
Statistics
Matches: 187, Mismatches: 33, Indels: 4
0.83 0.15 0.02
Matches are distributed among these distances:
26 1 0.01
27 185 0.99
28 1 0.01
ACGTcount: A:0.28, C:0.22, G:0.09, T:0.41
Consensus pattern (27 bp):
AATTACTGTTTTACCCTCAATTTACAG
Found at i:89411654 original size:27 final size:27
Alignment explanation
Indices: 89411437--89411736 Score: 80
Period size: 27 Copynumber: 11.1 Consensus size: 27
89411427 TACTGTTTTC
* * ***
89411437 CCCTCAGTTTACAGAATTACTATTTTA
1 CCCTCAATTTACAGAATTACCAAAATA
* * ****
89411464 CCCTCGATTTACAGAATTATCGTTTTA
1 CCCTCAATTTACAGAATTACCAAAATA
* * ***
89411491 CCCTCAGTTTACAGAATTACTATTTTA
1 CCCTCAATTTACAGAATTACCAAAATA
* * ***** *
89411518 TCCTCGATTTACAGAATTACTGTTTTC
1 CCCTCAATTTACAGAATTACCAAAATA
* * ***
89411545 CCCTCAGTTTACAGAATTACTATTTTA
1 CCCTCAATTTACAGAATTACCAAAATA
* * ****
89411572 CCCTCGATTTATAGAATTACCGTTTTA
1 CCCTCAATTTACAGAATTACCAAAATA
* ****
89411599 CCCTCAGTTTACAGAATTACCGTTTTA
1 CCCTCAATTTACAGAATTACCAAAATA
*
89411626 CCTTCAATTTACAGAATTACCAAAATA
1 CCCTCAATTTACAGAATTACCAAAATA
*** * * *
89411653 CCCTTGGTTTATAAAATCACCAAAATA
1 CCCTCAATTTACAGAATTACCAAAATA
* ** * *
89411680 CCC-CTAGTTTGTAAAATTACTAAAATA
1 CCCTC-AATTTACAGAATTACCAAAATA
*** *
89411707 CCCTTGGTTTACAAAATTACCAAAATA
1 CCCTCAATTTACAGAATTACCAAAATA
89411734 CCC
1 CCC
89411737 CTGGTTTGTA
Statistics
Matches: 220, Mismatches: 51, Indels: 4
0.80 0.19 0.01
Matches are distributed among these distances:
27 220 1.00
ACGTcount: A:0.32, C:0.23, G:0.08, T:0.37
Consensus pattern (27 bp):
CCCTCAATTTACAGAATTACCAAAATA
Found at i:89411663 original size:54 final size:54
Alignment explanation
Indices: 89411397--89411646 Score: 392
Period size: 54 Copynumber: 4.6 Consensus size: 54
89411387 CGACTTGTAA
* * *
89411397 AATTACTATTTTATCCTCGATTTACAGAATTACTGTTTTCCCCTCAGTTTACAG
1 AATTACTATTTTACCCTCGATTTACAGAATTACCGTTTTACCCTCAGTTTACAG
*
89411451 AATTACTATTTTACCCTCGATTTACAGAATTATCGTTTTACCCTCAGTTTACAG
1 AATTACTATTTTACCCTCGATTTACAGAATTACCGTTTTACCCTCAGTTTACAG
* * *
89411505 AATTACTATTTTATCCTCGATTTACAGAATTACTGTTTTCCCCTCAGTTTACAG
1 AATTACTATTTTACCCTCGATTTACAGAATTACCGTTTTACCCTCAGTTTACAG
*
89411559 AATTACTATTTTACCCTCGATTTATAGAATTACCGTTTTACCCTCAGTTTACAG
1 AATTACTATTTTACCCTCGATTTACAGAATTACCGTTTTACCCTCAGTTTACAG
** * *
89411613 AATTACCGTTTTACCTTCAATTTACAGAATTACC
1 AATTACTATTTTACCCTCGATTTACAGAATTACC
89411647 AAAATACCCT
Statistics
Matches: 179, Mismatches: 17, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
54 179 1.00
ACGTcount: A:0.28, C:0.22, G:0.09, T:0.41
Consensus pattern (54 bp):
AATTACTATTTTACCCTCGATTTACAGAATTACCGTTTTACCCTCAGTTTACAG
Found at i:89411682 original size:81 final size:81
Alignment explanation
Indices: 89411437--89411682 Score: 172
Period size: 81 Copynumber: 3.0 Consensus size: 81
89411427 TACTGTTTTC
** * * ****
89411437 CCCTCAGTTTACAGAATTACTATTTTACCCTCGATTTACAGAATTATCGTTTTACCCTC-AGTTT
1 CCCTCAGTTTACAGAATTACCGTTTTACCCTCAATTTACAGAATTACCAAAATACCCTCGA-TTT
* * * * ***
89411501 ACAGAATTACTATTTTA
65 ATAAAATCACCAAAATA
* * * * * ***
89411518 TCCTC-GATTTACAGAATTACTGTTTTCCCCTCAGTTTACAGAATTACTATTTTACCCTCGATTT
1 CCCTCAG-TTTACAGAATTACCGTTTTACCCTCAATTTACAGAATTACCAAAATACCCTCGATTT
* * ****
89411582 ATAGAATTACCGTTTTA
65 ATAAAATCACCAAAATA
* * *
89411599 CCCTCAGTTTACAGAATTACCGTTTTACCTTCAATTTACAGAATTACCAAAATACCCTTGGTTTA
1 CCCTCAGTTTACAGAATTACCGTTTTACCCTCAATTTACAGAATTACCAAAATACCCTCGATTTA
89411664 TAAAATCACCAAAATA
66 TAAAATCACCAAAATA
89411680 CCC
1 CCC
89411683 CTAGTTTGTA
Statistics
Matches: 134, Mismatches: 28, Indels: 6
0.80 0.17 0.04
Matches are distributed among these distances:
80 1 0.01
81 131 0.98
82 2 0.01
ACGTcount: A:0.30, C:0.24, G:0.09, T:0.38
Consensus pattern (81 bp):
CCCTCAGTTTACAGAATTACCGTTTTACCCTCAATTTACAGAATTACCAAAATACCCTCGATTTA
TAAAATCACCAAAATA
Found at i:89411741 original size:27 final size:27
Alignment explanation
Indices: 89411640--89411793 Score: 209
Period size: 27 Copynumber: 5.7 Consensus size: 27
89411630 CAATTTACAG
89411640 AATTACCAAAATACCCTTGGTTTATAA
1 AATTACCAAAATACCCTTGGTTTATAA
* * * *
89411667 AATCACCAAAATACCCCTAGTTTGTAA
1 AATTACCAAAATACCCTTGGTTTATAA
* *
89411694 AATTACTAAAATACCCTTGGTTTACAA
1 AATTACCAAAATACCCTTGGTTTATAA
* *
89411721 AATTACCAAAATACCCCTGGTTTGTAA
1 AATTACCAAAATACCCTTGGTTTATAA
* *
89411748 AATTACTAAAATACCCTTTGTTTATAA
1 AATTACCAAAATACCCTTGGTTTATAA
*
89411775 AATTACCGAAATACCCTTG
1 AATTACCAAAATACCCTTG
89411794 TAGGGTAGAA
Statistics
Matches: 106, Mismatches: 21, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
27 106 1.00
ACGTcount: A:0.40, C:0.21, G:0.08, T:0.32
Consensus pattern (27 bp):
AATTACCAAAATACCCTTGGTTTATAA
Found at i:89411793 original size:81 final size:81
Alignment explanation
Indices: 89411633--89411793 Score: 232
Period size: 81 Copynumber: 2.0 Consensus size: 81
89411623 TTACCTTCAA
* * *
89411633 TTTACAGAATTACCAAAATACCCTTGGTTTATAAAATCACCAAAATACCCCTAGTTTGTAAAATT
1 TTTACAAAATTACCAAAATACCCCTGGTTTATAAAATCACCAAAATACCCCTAGTTTATAAAATT
*
89411698 ACTAAAATACCCTTGG
66 ACCAAAATACCCTTGG
* * * * *
89411714 TTTACAAAATTACCAAAATACCCCTGGTTTGTAAAATTACTAAAATACCCTTTGTTTATAAAATT
1 TTTACAAAATTACCAAAATACCCCTGGTTTATAAAATCACCAAAATACCCCTAGTTTATAAAATT
*
89411779 ACCGAAATACCCTTG
66 ACCAAAATACCCTTG
89411794 TAGGGTAGAA
Statistics
Matches: 70, Mismatches: 10, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
81 70 1.00
ACGTcount: A:0.39, C:0.20, G:0.08, T:0.32
Consensus pattern (81 bp):
TTTACAAAATTACCAAAATACCCCTGGTTTATAAAATCACCAAAATACCCCTAGTTTATAAAATT
ACCAAAATACCCTTGG
Found at i:89411807 original size:54 final size:54
Alignment explanation
Indices: 89411640--89411790 Score: 248
Period size: 54 Copynumber: 2.8 Consensus size: 54
89411630 CAATTTACAG
* *
89411640 AATTACCAAAATACCCTTGGTTTATAAAATCACCAAAATACCCCTAGTTTGTAA
1 AATTACTAAAATACCCTTGGTTTATAAAATTACCAAAATACCCCTAGTTTGTAA
* *
89411694 AATTACTAAAATACCCTTGGTTTACAAAATTACCAAAATACCCCTGGTTTGTAA
1 AATTACTAAAATACCCTTGGTTTATAAAATTACCAAAATACCCCTAGTTTGTAA
* *
89411748 AATTACTAAAATACCCTTTGTTTATAAAATTACCGAAATACCC
1 AATTACTAAAATACCCTTGGTTTATAAAATTACCAAAATACCC
89411791 TTGTAGGGTA
Statistics
Matches: 90, Mismatches: 7, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
54 90 1.00
ACGTcount: A:0.40, C:0.21, G:0.07, T:0.31
Consensus pattern (54 bp):
AATTACTAAAATACCCTTGGTTTATAAAATTACCAAAATACCCCTAGTTTGTAA
Found at i:89412460 original size:28 final size:28
Alignment explanation
Indices: 89412428--89412496 Score: 122
Period size: 28 Copynumber: 2.5 Consensus size: 28
89412418 GCGTAGATCA
89412428 CGAAATTACCCCTAAAGAGCAAAATTAC
1 CGAAATTACCCCTAAAGAGCAAAATTAC
89412456 CGAAATTACCCCTAAAGAGCAAAATTAC
1 CGAAATTACCCCTAAAGAGCAAAATTAC
*
89412484 CGATA-TACCCCTA
1 CGAAATTACCCCTA
89412497 GGGTTTTAAA
Statistics
Matches: 40, Mismatches: 1, Indels: 1
0.95 0.02 0.02
Matches are distributed among these distances:
27 8 0.20
28 32 0.80
ACGTcount: A:0.43, C:0.28, G:0.10, T:0.19
Consensus pattern (28 bp):
CGAAATTACCCCTAAAGAGCAAAATTAC
Found at i:89415684 original size:48 final size:48
Alignment explanation
Indices: 89415460--89415751 Score: 189
Period size: 48 Copynumber: 6.1 Consensus size: 48
89415450 CCATGGCAAC
* * * *
89415460 ATGTGATATGTGATTTTAGTATAAGACTATAGCTGGGCTATGGCATCGGAGAG
1 ATGTGATATGT-ACTCT-GTATAAGACCATAGCTGGGCTATGGCATC---GAT
* * * *
89415513 ATGTGATTATGTACTTCCGTATAAGACCATATCTGGGATATGCCATCG--
1 ATGTGA-TATGTAC-TCTGTATAAGACCATAGCTGGGCTATGGCATCGAT
* * ** *
89415561 GTGTGATATATACTACTGTATAAGACCATATATGGGATATGGCATC-A-
1 ATGTGATATGTACT-CTGTATAAGACCATAGCTGGGCTATGGCATCGAT
* * * *
89415608 GTGAGATATATGATTC-GTGA-AAGACCATAGCTGGGCTATGGCATCGAT
1 ATGTGATATGT-ACTCTGT-ATAAGACCATAGCTGGGCTATGGCATCGAT
* *
89415656 ATGTGATATGTGA-TCTGTGTAAGACCATAGTTGGGCTATGGCATCGAT
1 ATGTGATATGT-ACTCTGTATAAGACCATAGCTGGGCTATGGCATCGAT
* *
89415704 ATATGA-A--TA---TGTGTAAGACCATAGCTGGGCTATGGCATC-ATT
1 ATGTGATATGTACTCTGTATAAGACCATAGCTGGGCTATGGCATCGA-T
89415746 ATGTGA
1 ATGTGA
89415752 AGATGTGTAA
Statistics
Matches: 203, Mismatches: 25, Indels: 33
0.78 0.10 0.13
Matches are distributed among these distances:
41 1 0.00
42 35 0.17
44 1 0.00
45 1 0.00
46 25 0.12
47 50 0.25
48 51 0.25
50 1 0.00
53 32 0.16
54 6 0.03
ACGTcount: A:0.29, C:0.13, G:0.26, T:0.32
Consensus pattern (48 bp):
ATGTGATATGTACTCTGTATAAGACCATAGCTGGGCTATGGCATCGAT
Found at i:89415718 original size:42 final size:43
Alignment explanation
Indices: 89415628--89415786 Score: 171
Period size: 42 Copynumber: 3.6 Consensus size: 43
89415618 TGATTCGTGA
* *
89415628 AAGACCATAGCTGGGCTATGGCATCGATATGTGATATG-TGATCTGTGT
1 AAGACCATAGTTGGGCTATGGCATCG--AT-T-ATATGAAGA--TGTGT
*
89415676 AAGACCATAGTTGGGCTATGGCATCGA-TATATGAATATGTGT
1 AAGACCATAGTTGGGCTATGGCATCGATTATATGAAGATGTGT
* *
89415718 AAGACCATAGCTGGGCTATGGCATC-ATTATGTGAAGATGTGT
1 AAGACCATAGTTGGGCTATGGCATCGATTATATGAAGATGTGT
* **
89415760 AAAACCATAGTTGAACTATGGCATCGA
1 AAGACCATAGTTGGGCTATGGCATCGA
89415787 GAAAACGAAG
Statistics
Matches: 98, Mismatches: 10, Indels: 11
0.82 0.08 0.09
Matches are distributed among these distances:
41 1 0.01
42 63 0.64
43 6 0.06
44 2 0.02
46 1 0.01
48 25 0.26
ACGTcount: A:0.30, C:0.14, G:0.26, T:0.29
Consensus pattern (43 bp):
AAGACCATAGTTGGGCTATGGCATCGATTATATGAAGATGTGT
Found at i:89422016 original size:32 final size:33
Alignment explanation
Indices: 89421975--89422036 Score: 101
Period size: 32 Copynumber: 1.9 Consensus size: 33
89421965 TGTAAGACCA
89421975 TGTCTGGGACA-TAGGCATCG-TATTTGATTTCG
1 TGTCTGGGACAGT-GGCATCGATATTTGATTTCG
89422007 TGTCTGGGACAGTGGCATCGATATTTGATT
1 TGTCTGGGACAGTGGCATCGATATTTGATT
89422037 ACATGTAATA
Statistics
Matches: 28, Mismatches: 0, Indels: 3
0.90 0.00 0.10
Matches are distributed among these distances:
32 18 0.64
33 10 0.36
ACGTcount: A:0.19, C:0.15, G:0.29, T:0.37
Consensus pattern (33 bp):
TGTCTGGGACAGTGGCATCGATATTTGATTTCG
Found at i:89424401 original size:25 final size:25
Alignment explanation
Indices: 89424343--89424412 Score: 97
Period size: 24 Copynumber: 2.8 Consensus size: 25
89424333 GAGAAAGTGC
* *
89424343 AAAAGGGCTATGCCCCAG-TTACCG
1 AAAAGGGCTTTGCCCCAGTTTACCA
*
89424367 AAAAGGGCTTTGCCCCAGTTTATCA
1 AAAAGGGCTTTGCCCCAGTTTACCA
89424392 AAAAGGGCTTTTGCCCCAGTT
1 AAAAGGGC-TTTGCCCCAGTT
89424413 ATTAAAAGAG
Statistics
Matches: 41, Mismatches: 3, Indels: 2
0.89 0.07 0.04
Matches are distributed among these distances:
24 17 0.41
25 12 0.29
26 12 0.29
ACGTcount: A:0.27, C:0.26, G:0.23, T:0.24
Consensus pattern (25 bp):
AAAAGGGCTTTGCCCCAGTTTACCA
Found at i:89424414 original size:25 final size:24
Alignment explanation
Indices: 89424343--89424419 Score: 100
Period size: 25 Copynumber: 3.1 Consensus size: 24
89424333 GAGAAAGTGC
* * *
89424343 AAAAGGGCTATGCCCCAGTTACCG
1 AAAAGGGCTTTGCCCCAGTTATCA
89424367 AAAAGGGCTTTGCCCCAGTTTATCA
1 AAAAGGGCTTTGCCCCAG-TTATCA
*
89424392 AAAAGGGCTTTTGCCCCAGTTATTA
1 AAAAGGGC-TTTGCCCCAGTTATCA
89424417 AAA
1 AAA
89424420 GAGGCTAGGC
Statistics
Matches: 47, Mismatches: 4, Indels: 3
0.87 0.07 0.06
Matches are distributed among these distances:
24 17 0.36
25 20 0.43
26 10 0.21
ACGTcount: A:0.31, C:0.23, G:0.21, T:0.25
Consensus pattern (24 bp):
AAAAGGGCTTTGCCCCAGTTATCA
Found at i:89432320 original size:11 final size:10
Alignment explanation
Indices: 89432288--89432341 Score: 58
Period size: 11 Copynumber: 5.4 Consensus size: 10
89432278 CATGAGATAT
89432288 TGATAT-ACA
1 TGATATGACA
*
89432297 TGATTTGACA
1 TGATATGACA
89432307 TGATATGCACA
1 TGATATG-ACA
*
89432318 TGATATG-TA
1 TGATATGACA
89432327 TGATATGCACA
1 TGATATG-ACA
89432338 TGAT
1 TGAT
89432342 GCATTCATTT
Statistics
Matches: 37, Mismatches: 4, Indels: 6
0.79 0.09 0.13
Matches are distributed among these distances:
9 13 0.35
10 9 0.24
11 15 0.41
ACGTcount: A:0.35, C:0.11, G:0.19, T:0.35
Consensus pattern (10 bp):
TGATATGACA
Found at i:89432456 original size:26 final size:25
Alignment explanation
Indices: 89432387--89432457 Score: 92
Period size: 24 Copynumber: 2.9 Consensus size: 25
89432377 GGAGGAAGTA
*
89432387 CAAAAA-GGCTATGCCCCAG-TTAC
1 CAAAAAGGGCTTTGCCCCAGTTTAC
* *
89432410 CGAAAAGGGCTTTGCCCCAGTTTAT
1 CAAAAAGGGCTTTGCCCCAGTTTAC
89432435 CAAAAAGGGCTTTTGCCCCAGTT
1 CAAAAAGGGC-TTTGCCCCAGTT
89432458 ATTAAAAGAG
Statistics
Matches: 41, Mismatches: 4, Indels: 3
0.85 0.08 0.06
Matches are distributed among these distances:
23 5 0.12
24 12 0.29
25 12 0.29
26 12 0.29
ACGTcount: A:0.28, C:0.27, G:0.21, T:0.24
Consensus pattern (25 bp):
CAAAAAGGGCTTTGCCCCAGTTTAC
Found at i:89432459 original size:25 final size:24
Alignment explanation
Indices: 89432387--89432464 Score: 95
Period size: 25 Copynumber: 3.2 Consensus size: 24
89432377 GGAGGAAGTA
* *
89432387 CAAAAA-GGCTATGCCCCAGTTAC
1 CAAAAAGGGCTTTGCCCCAGTTAT
*
89432410 CGAAAAGGGCTTTGCCCCAGTTTAT
1 CAAAAAGGGCTTTGCCCCAG-TTAT
89432435 CAAAAAGGGCTTTTGCCCCAGTTAT
1 CAAAAAGGGC-TTTGCCCCAGTTAT
*
89432460 TAAAA
1 CAAAA
89432465 GAGGCTAGGC
Statistics
Matches: 47, Mismatches: 5, Indels: 4
0.84 0.09 0.07
Matches are distributed among these distances:
23 5 0.11
24 12 0.26
25 20 0.43
26 10 0.21
ACGTcount: A:0.32, C:0.24, G:0.19, T:0.24
Consensus pattern (24 bp):
CAAAAAGGGCTTTGCCCCAGTTAT
Found at i:89432724 original size:31 final size:31
Alignment explanation
Indices: 89432677--89432760 Score: 125
Period size: 31 Copynumber: 2.7 Consensus size: 31
89432667 TTGTTACAGT
*
89432677 AAAGACTTCGGCCCAGTGATATGAATAATGA
1 AAAGGCTTCGGCCCAGTGATATGAATAATGA
* *
89432708 AAAGGCTTCGGGCCAGTGATATGAATAATGT
1 AAAGGCTTCGGCCCAGTGATATGAATAATGA
*
89432739 AAAGGCTTCGACCCAGT-ATATG
1 AAAGGCTTCGGCCCAGTGATATG
89432761 CTGAGACTGA
Statistics
Matches: 48, Mismatches: 5, Indels: 1
0.89 0.09 0.02
Matches are distributed among these distances:
30 5 0.10
31 43 0.90
ACGTcount: A:0.35, C:0.17, G:0.25, T:0.24
Consensus pattern (31 bp):
AAAGGCTTCGGCCCAGTGATATGAATAATGA
Found at i:89443392 original size:46 final size:46
Alignment explanation
Indices: 89443342--89443514 Score: 201
Period size: 46 Copynumber: 3.7 Consensus size: 46
89443332 TGGTTGAGCA
*
89443342 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAATG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAACG
* * * *
89443388 TCCGAACTCGTTGAGTTGAGTCCGAGTTC-GTGA--GATGTAACTAGGCA
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAA--A--CG
* *
89443435 TCCGAACTCGTTGAGTTGAGTCCGAGTTCATTTATGGATGCGAACG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAACG
*
89443481 -CCCAAGCTCGTTGAGTTGAGTCCGAGTTCACTTA
1 TCCGAA-CTCGTTGAGTTGAGTCCGAGTTCACTTA
89443515 GGGGCGGGTT
Statistics
Matches: 107, Mismatches: 12, Indels: 16
0.79 0.09 0.12
Matches are distributed among these distances:
43 6 0.06
45 7 0.07
46 57 0.53
47 29 0.27
48 3 0.03
50 5 0.05
ACGTcount: A:0.23, C:0.21, G:0.27, T:0.29
Consensus pattern (46 bp):
TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAACG
Found at i:89443498 original size:93 final size:93
Alignment explanation
Indices: 89443339--89443509 Score: 290
Period size: 93 Copynumber: 1.8 Consensus size: 93
89443329 GGATGGTTGA
* *
89443339 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAATGTCCGAACTCGTTGAGT
1 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAACGTCCCAACTCGTTGAGT
89443404 TGAGTCCGAGTTCGTGAGATGTAACTAG
66 TGAGTCCGAGTTCGTGAGATGTAACTAG
* *
89443432 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCATTTATGGATGCGAACG-CCCAAGCTCGTTGAG
1 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAACGTCCCAA-CTCGTTGAG
89443496 TTGAGTCCGAGTTC
65 TTGAGTCCGAGTTC
89443510 ACTTAGGGGC
Statistics
Matches: 73, Mismatches: 4, Indels: 2
0.92 0.05 0.03
Matches are distributed among these distances:
92 4 0.05
93 69 0.95
ACGTcount: A:0.22, C:0.21, G:0.28, T:0.29
Consensus pattern (93 bp):
GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAACGTCCCAACTCGTTGAGT
TGAGTCCGAGTTCGTGAGATGTAACTAG
Found at i:89446680 original size:28 final size:27
Alignment explanation
Indices: 89446620--89446688 Score: 84
Period size: 28 Copynumber: 2.5 Consensus size: 27
89446610 TATATAAATG
** * *
89446620 GCACTTAGTGTGCAAAGTATCGAGGAT
1 GCACTTAGTGTGCAAAACATCCAGAAT
89446647 GACACTTAGTGTGCAAAACATCCAGAAT
1 G-CACTTAGTGTGCAAAACATCCAGAAT
89446675 AGCACTTAGTGTGC
1 -GCACTTAGTGTGC
89446689 GAGGTATTGA
Statistics
Matches: 36, Mismatches: 4, Indels: 3
0.84 0.09 0.07
Matches are distributed among these distances:
27 1 0.03
28 34 0.94
29 1 0.03
ACGTcount: A:0.32, C:0.19, G:0.25, T:0.25
Consensus pattern (27 bp):
GCACTTAGTGTGCAAAACATCCAGAAT
Found at i:89453191 original size:40 final size:40
Alignment explanation
Indices: 89453141--89453233 Score: 123
Period size: 40 Copynumber: 2.3 Consensus size: 40
89453131 AGCGACTCCT
* * *
89453141 CAAAAGCCTTCGGGACATAGCCCGGTTATAATAGCTCGCA
1 CAAATGCCTTCGGGACATAACCCGGTTATAATAACTCGCA
* * **
89453181 CAAATGCCTTCGGGACTTAACCCGGTTTTGGTAACTCGCA
1 CAAATGCCTTCGGGACATAACCCGGTTATAATAACTCGCA
89453221 CAAATGCCTTCGG
1 CAAATGCCTTCGG
89453234 AATTGACCCG
Statistics
Matches: 46, Mismatches: 7, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
40 46 1.00
ACGTcount: A:0.26, C:0.28, G:0.23, T:0.24
Consensus pattern (40 bp):
CAAATGCCTTCGGGACATAACCCGGTTATAATAACTCGCA
Found at i:89453262 original size:40 final size:39
Alignment explanation
Indices: 89453178--89453287 Score: 112
Period size: 40 Copynumber: 2.7 Consensus size: 39
89453168 ATAATAGCTC
* * * *
89453178 GCACAAATGCCTTCGGGACTTAACCCGGTTTTGGTAACTC
1 GCACAAATGCCTTC-GGAATTAACCCGGATTTAGTAACTA
* *
89453218 GCACAAATGCCTTCGGAATTGACCCGGATTTAGTCACTTA
1 GCACAAATGCCTTCGGAATTAACCCGGATTTAGTAAC-TA
* * *
89453258 GCACAAAAGCCTTCGGGACTTAGCCCGGAT
1 GCACAAATGCCTTC-GGAATTAACCCGGAT
89453288 ACCATTCGAA
Statistics
Matches: 58, Mismatches: 10, Indels: 3
0.82 0.14 0.04
Matches are distributed among these distances:
39 18 0.31
40 28 0.48
41 12 0.21
ACGTcount: A:0.25, C:0.27, G:0.23, T:0.25
Consensus pattern (39 bp):
GCACAAATGCCTTCGGAATTAACCCGGATTTAGTAACTA
Found at i:89461195 original size:40 final size:40
Alignment explanation
Indices: 89461139--89461238 Score: 128
Period size: 40 Copynumber: 2.5 Consensus size: 40
89461129 GGATATAGCG
* * *
89461139 ACTCGCTCAAAAGCCTTCGGGACATAGCCCGGTTATAATA
1 ACTCGCACAAATGCCTTCGGGACATAACCCGGTTATAATA
* * * **
89461179 GCTCGCACAAATGCCTTCGGGACTTAACCCGGTTTTGGTA
1 ACTCGCACAAATGCCTTCGGGACATAACCCGGTTATAATA
89461219 ACTCGCACAAATGCCTTCGG
1 ACTCGCACAAATGCCTTCGG
89461239 AATTGACCCG
Statistics
Matches: 51, Mismatches: 9, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
40 51 1.00
ACGTcount: A:0.25, C:0.29, G:0.22, T:0.24
Consensus pattern (40 bp):
ACTCGCACAAATGCCTTCGGGACATAACCCGGTTATAATA
Found at i:89461267 original size:40 final size:39
Alignment explanation
Indices: 89461183--89461292 Score: 112
Period size: 40 Copynumber: 2.7 Consensus size: 39
89461173 ATAATAGCTC
* * * *
89461183 GCACAAATGCCTTCGGGACTTAACCCGGTTTTGGTAACTC
1 GCACAAATGCCTTC-GGAATTAACCCGGATTTAGTAACTA
* *
89461223 GCACAAATGCCTTCGGAATTGACCCGGATTTAGTCACTTA
1 GCACAAATGCCTTCGGAATTAACCCGGATTTAGTAAC-TA
* * *
89461263 GCACAAAAGCCTTCGGGACTTAGCCCGGAT
1 GCACAAATGCCTTC-GGAATTAACCCGGAT
89461293 ACCATTCGAA
Statistics
Matches: 58, Mismatches: 10, Indels: 3
0.82 0.14 0.04
Matches are distributed among these distances:
39 18 0.31
40 28 0.48
41 12 0.21
ACGTcount: A:0.25, C:0.27, G:0.23, T:0.25
Consensus pattern (39 bp):
GCACAAATGCCTTCGGAATTAACCCGGATTTAGTAACTA
Found at i:89464350 original size:39 final size:39
Alignment explanation
Indices: 89464296--89464463 Score: 257
Period size: 39 Copynumber: 4.3 Consensus size: 39
89464286 ACTCAGTGAT
*
89464296 GAATTATATCCGGACTTAAGGTCCGCAGGCTATGTGCTA
1 GAATTATATCCGGACTTAAGGTCCGCAGGCTATGTGCTG
*
89464335 GAATTATATCCGGACTTAAGGTCTGCAGGCTATGTGCTG
1 GAATTATATCCGGACTTAAGGTCCGCAGGCTATGTGCTG
89464374 GAATTATATCCGGACTTAAGGTCCGCAGGCTATGTGCTG
1 GAATTATATCCGGACTTAAGGTCCGCAGGCTATGTGCTG
* * * *
89464413 GAATTATAACCAGACTTAAGGTCCACAGG-TACGTGCTG
1 GAATTATATCCGGACTTAAGGTCCGCAGGCTATGTGCTG
* *
89464451 GAAATATGTCCGG
1 GAATTATATCCGG
89464464 GCTAAAGTAT
Statistics
Matches: 118, Mismatches: 11, Indels: 1
0.91 0.08 0.01
Matches are distributed among these distances:
38 17 0.14
39 101 0.86
ACGTcount: A:0.26, C:0.20, G:0.27, T:0.27
Consensus pattern (39 bp):
GAATTATATCCGGACTTAAGGTCCGCAGGCTATGTGCTG
Found at i:89466587 original size:28 final size:29
Alignment explanation
Indices: 89466525--89466588 Score: 85
Period size: 29 Copynumber: 2.2 Consensus size: 29
89466515 GTGACGAGAT
** *
89466525 CGGCACTAAGTGTGCGTGCTGGAAATATA
1 CGGCACTAAGTGTGCAAGCTGGAAAAATA
*
89466554 TGGCACTAAGTGTGCAAGCT-GAAAAATA
1 CGGCACTAAGTGTGCAAGCTGGAAAAATA
89466582 CGGCACT
1 CGGCACT
89466589 GGGTGTGCGA
Statistics
Matches: 30, Mismatches: 5, Indels: 1
0.83 0.14 0.03
Matches are distributed among these distances:
28 13 0.43
29 17 0.57
ACGTcount: A:0.31, C:0.19, G:0.28, T:0.22
Consensus pattern (29 bp):
CGGCACTAAGTGTGCAAGCTGGAAAAATA
Found at i:89468180 original size:14 final size:14
Alignment explanation
Indices: 89468161--89468189 Score: 58
Period size: 14 Copynumber: 2.1 Consensus size: 14
89468151 AAACTTGCTA
89468161 AGCTTTGAAAGCTT
1 AGCTTTGAAAGCTT
89468175 AGCTTTGAAAGCTT
1 AGCTTTGAAAGCTT
89468189 A
1 A
89468190 CTCTATTCTT
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:0.31, C:0.14, G:0.21, T:0.34
Consensus pattern (14 bp):
AGCTTTGAAAGCTT
Found at i:89475184 original size:37 final size:36
Alignment explanation
Indices: 89475137--89475224 Score: 106
Period size: 38 Copynumber: 2.4 Consensus size: 36
89475127 CAGACTTAAG
* * *
89475137 GTCCACAGGCTAT-GCTGGAAATATGTCCGGGCTAAA
1 GTCCGCAGGCT-TCGCTAGAAATATGTCCAGGCTAAA
*
89475173 GTACCGTAGGCTTCGGCTAGAAATATGTCCAGGCTAAA
1 GT-CCGCAGGCTTC-GCTAGAAATATGTCCAGGCTAAA
89475211 GTCCGCAGGCTTCG
1 GTCCGCAGGCTTCG
89475225 AGCTGGTATT
Statistics
Matches: 44, Mismatches: 5, Indels: 6
0.80 0.09 0.11
Matches are distributed among these distances:
36 4 0.09
37 17 0.39
38 23 0.52
ACGTcount: A:0.25, C:0.24, G:0.28, T:0.23
Consensus pattern (36 bp):
GTCCGCAGGCTTCGCTAGAAATATGTCCAGGCTAAA
Found at i:89475242 original size:37 final size:38
Alignment explanation
Indices: 89475150--89475272 Score: 99
Period size: 38 Copynumber: 3.2 Consensus size: 38
89475140 CACAGGCTAT
* * * *
89475150 GCTGGAAATATGTCCGGGCTAAAGTACCGTAGGCTTCG
1 GCTGGTAATATGACCAGGCTAAAGTACCGCAGGCTTCG
* * *
89475188 GCTAGAAATATGTCCAGGCTAAAGT-CCGCAGGCTTCG
1 GCTGGTAATATGACCAGGCTAAAGTACCGCAGGCTTCG
* * * *
89475225 AGCTGGTATTAT-ACCAGGTTTAAATTCCCGCAGGCTT-G
1 -GCTGGTAATATGACCAGG-CTAAAGTACCGCAGGCTTCG
89475263 TGCTGGTAAT
1 -GCTGGTAAT
89475273 TAGTTTCAAG
Statistics
Matches: 71, Mismatches: 11, Indels: 6
0.81 0.12 0.07
Matches are distributed among these distances:
37 16 0.23
38 45 0.63
39 10 0.14
ACGTcount: A:0.24, C:0.21, G:0.28, T:0.27
Consensus pattern (38 bp):
GCTGGTAATATGACCAGGCTAAAGTACCGCAGGCTTCG
Found at i:89475906 original size:27 final size:27
Alignment explanation
Indices: 89475874--89475940 Score: 116
Period size: 28 Copynumber: 2.4 Consensus size: 27
89475864 TTACTNAGAT
*
89475874 TGGCACTAAGTGCGTGCTGGAAATATA
1 TGGCACTAAGTGCATGCTGGAAATATA
89475901 TGGCACTAAGGTGCATGCTGGAAATATA
1 TGGCACTAA-GTGCATGCTGGAAATATA
89475929 TGGCACTAAGTG
1 TGGCACTAAGTG
89475941 TGCGAGCTCG
Statistics
Matches: 38, Mismatches: 1, Indels: 2
0.93 0.02 0.05
Matches are distributed among these distances:
27 12 0.32
28 26 0.68
ACGTcount: A:0.30, C:0.15, G:0.30, T:0.25
Consensus pattern (27 bp):
TGGCACTAAGTGCATGCTGGAAATATA
Found at i:89483772 original size:29 final size:29
Alignment explanation
Indices: 89483739--89483812 Score: 139
Period size: 29 Copynumber: 2.6 Consensus size: 29
89483729 GTGACGAGAT
89483739 TGGCACTAAGTGTGCGTGCTGGAAATATA
1 TGGCACTAAGTGTGCGTGCTGGAAATATA
*
89483768 TGGCACTAAGTGTGCATGCTGGAAATATA
1 TGGCACTAAGTGTGCGTGCTGGAAATATA
89483797 TGGCACTAAGTGTGCG
1 TGGCACTAAGTGTGCG
89483813 AGCTCGAAGG
Statistics
Matches: 43, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
29 43 1.00
ACGTcount: A:0.27, C:0.15, G:0.31, T:0.27
Consensus pattern (29 bp):
TGGCACTAAGTGTGCGTGCTGGAAATATA
Found at i:89483828 original size:29 final size:29
Alignment explanation
Indices: 89483796--89483871 Score: 89
Period size: 29 Copynumber: 2.6 Consensus size: 29
89483786 CTGGAAATAT
* *
89483796 ATGGCACTAAGTGTGCGAGCTCGAAGGGC
1 ATGGCACTAAGTGTGCGAGCTCAAAGCGC
** * * *
89483825 ATGGCACTGTGTGTGCGGGCTTAAATCGC
1 ATGGCACTAAGTGTGCGAGCTCAAAGCGC
89483854 ATGGCACTAAGTGTGCGA
1 ATGGCACTAAGTGTGCGA
89483872 AATCGAGTAT
Statistics
Matches: 37, Mismatches: 10, Indels: 0
0.79 0.21 0.00
Matches are distributed among these distances:
29 37 1.00
ACGTcount: A:0.22, C:0.20, G:0.36, T:0.22
Consensus pattern (29 bp):
ATGGCACTAAGTGTGCGAGCTCAAAGCGC
Found at i:89483839 original size:58 final size:58
Alignment explanation
Indices: 89483739--89483871 Score: 133
Period size: 58 Copynumber: 2.3 Consensus size: 58
89483729 GTGACGAGAT
* * * * * *
89483739 TGGCACTAAGTGTGCGTGCTGGAAATATATGGCACTAAGTGTGCATGCTGGAAAT-ATA
1 TGGCACTAAGTGTGCGAGCTCGAAAGACATGGCACTAAGTGTGCAGGCT-GAAATCACA
* * ** * * *
89483797 TGGCACTAAGTGTGCGAGCTCGAAGGGCATGGCACTGTGTGTGCGGGCTTAAATCGCA
1 TGGCACTAAGTGTGCGAGCTCGAAAGACATGGCACTAAGTGTGCAGGCTGAAATCACA
89483855 TGGCACTAAGTGTGCGA
1 TGGCACTAAGTGTGCGA
89483872 AATCGAGTAT
Statistics
Matches: 61, Mismatches: 13, Indels: 2
0.80 0.17 0.03
Matches are distributed among these distances:
57 4 0.07
58 57 0.93
ACGTcount: A:0.25, C:0.17, G:0.33, T:0.25
Consensus pattern (58 bp):
TGGCACTAAGTGTGCGAGCTCGAAAGACATGGCACTAAGTGTGCAGGCTGAAATCACA
Found at i:89485337 original size:40 final size:40
Alignment explanation
Indices: 89485292--89485652 Score: 483
Period size: 40 Copynumber: 9.1 Consensus size: 40
89485282 GGGTGTTACA
* *
89485292 TGTTATGTCCGGGCTAAGTCCCGAAGAGCATTCGTACTGG
1 TGTTATATCCGGGCTAAGTCCCGAAGAGCATTCGTGCTGG
*
89485332 TGTTATGTCCGGGCTAAGTCCCGAAGAGCATTCGTGCTGG
1 TGTTATATCCGGGCTAAGTCCCGAAGAGCATTCGTGCTGG
* **
89485372 TGTTATATCCGGGCTCAGTCAAGAAGAGCATTCGTGCTGG
1 TGTTATATCCGGGCTAAGTCCCGAAGAGCATTCGTGCTGG
* * *
89485412 T-TTATATCTGGGCTAAGTCTCCG-AGAGGATTCGTGCTAG
1 TGTTATATCCGGGCTAAGTC-CCGAAGAGCATTCGTGCTGG
* * *
89485451 AGTTATATCAGGGTTAAGTCCCGAAGAGCATTCGTGCTGG
1 TGTTATATCCGGGCTAAGTCCCGAAGAGCATTCGTGCTGG
89485491 TGTTATATCCGGGCTAAGTCCCGAAGAGCATTCGTGCTGG
1 TGTTATATCCGGGCTAAGTCCCGAAGAGCATTCGTGCTGG
* ** *
89485531 TGTTATATCCAGGCTAAGTTTCGGAGAGCATTCGTGCTGG
1 TGTTATATCCGGGCTAAGTCCCGAAGAGCATTCGTGCTGG
* ** *
89485571 AGTTATATTAGGGTTAAGTCCCGAAGAGCATTCGTGCTGG
1 TGTTATATCCGGGCTAAGTCCCGAAGAGCATTCGTGCTGG
* * * *
89485611 TGTTATATCCAGGCTAGGTCCCGAAGAGCAATCATGCTGG
1 TGTTATATCCGGGCTAAGTCCCGAAGAGCATTCGTGCTGG
89485651 TG
1 TG
89485653 ATGTGTATTC
Statistics
Matches: 279, Mismatches: 39, Indels: 6
0.86 0.12 0.02
Matches are distributed among these distances:
39 33 0.12
40 246 0.88
ACGTcount: A:0.22, C:0.20, G:0.30, T:0.29
Consensus pattern (40 bp):
TGTTATATCCGGGCTAAGTCCCGAAGAGCATTCGTGCTGG
Found at i:89485866 original size:25 final size:25
Alignment explanation
Indices: 89485816--89485866 Score: 59
Period size: 25 Copynumber: 2.0 Consensus size: 25
89485806 TGTGTAACAA
* *
89485816 CAAATGAATAGGGGCACTATATGTG
1 CAAATGAATAGAGGCACTAGATGTG
*
89485841 CAAATGATTAGAGGCACTGAGA-GTG
1 CAAATGAATAGAGGCACT-AGATGTG
89485866 C
1 C
89485867 GAGTTCTTCA
Statistics
Matches: 22, Mismatches: 3, Indels: 2
0.81 0.11 0.07
Matches are distributed among these distances:
25 20 0.91
26 2 0.09
ACGTcount: A:0.35, C:0.14, G:0.29, T:0.22
Consensus pattern (25 bp):
CAAATGAATAGAGGCACTAGATGTG
Found at i:89489582 original size:47 final size:47
Alignment explanation
Indices: 89489528--89489717 Score: 274
Period size: 47 Copynumber: 4.1 Consensus size: 47
89489518 GATTTTATGA
** * * *
89489528 GATGAATGTGAATGTGTATATATGAGATAAGGCCTAATGGCCAATGT
1 GATGAATGTGAACATGCATATATGTGATAAGGCCGAATGGCCAATGT
*
89489575 GATGAATGTGAACATGCATATGTGTGATAAGGCCGAATGGCCAATGT
1 GATGAATGTGAACATGCATATATGTGATAAGGCCGAATGGCCAATGT
*
89489622 GATGAATGTGAACATGCATATCTGTGATAAGGCCGAAT-GCCAATGT
1 GATGAATGTGAACATGCATATATGTGATAAGGCCGAATGGCCAATGT
* ** *
89489668 GATGAATGTGAACATGCATATGTGTGATAAGGTAGAATGGCTAATGT
1 GATGAATGTGAACATGCATATATGTGATAAGGCCGAATGGCCAATGT
89489715 GAT
1 GAT
89489718 AAACGTGGAA
Statistics
Matches: 131, Mismatches: 11, Indels: 2
0.91 0.08 0.01
Matches are distributed among these distances:
46 43 0.33
47 88 0.67
ACGTcount: A:0.33, C:0.11, G:0.28, T:0.28
Consensus pattern (47 bp):
GATGAATGTGAACATGCATATATGTGATAAGGCCGAATGGCCAATGT
Found at i:89489688 original size:93 final size:94
Alignment explanation
Indices: 89489528--89489717 Score: 292
Period size: 93 Copynumber: 2.0 Consensus size: 94
89489518 GATTTTATGA
** * *
89489528 GATGAATGTGAATGTGTATATATGAGATAAGGCCTAATGGCCAATGTGATGAATGTGAACATGCA
1 GATGAATGTGAACATGCATATATGAGATAAGGCCGAATGGCCAATGTGATGAATGTGAACATGCA
*
89489593 TATGTGTGATAAGGCCGAATGGCCAATGT
66 TATGTGTGATAAGGCAGAATGGCCAATGT
* *
89489622 GATGAATGTGAACATGCATATCTGTGATAAGGCCGAAT-GCCAATGTGATGAATGTGAACATGCA
1 GATGAATGTGAACATGCATATATGAGATAAGGCCGAATGGCCAATGTGATGAATGTGAACATGCA
* *
89489686 TATGTGTGATAAGGTAGAATGGCTAATGT
66 TATGTGTGATAAGGCAGAATGGCCAATGT
89489715 GAT
1 GAT
89489718 AAACGTGGAA
Statistics
Matches: 87, Mismatches: 9, Indels: 1
0.90 0.09 0.01
Matches are distributed among these distances:
93 55 0.63
94 32 0.37
ACGTcount: A:0.33, C:0.11, G:0.28, T:0.28
Consensus pattern (94 bp):
GATGAATGTGAACATGCATATATGAGATAAGGCCGAATGGCCAATGTGATGAATGTGAACATGCA
TATGTGTGATAAGGCAGAATGGCCAATGT
Found at i:89489752 original size:93 final size:94
Alignment explanation
Indices: 89489545--89489763 Score: 264
Period size: 93 Copynumber: 2.3 Consensus size: 94
89489535 GTGAATGTGT
* * * *
89489545 ATATATGAGATAAGGCCTAATGGCCAATGTGATGAATGTGAACATGCATATGTGTGATAAGGCCG
1 ATATATGTGAGAAGGCCGAATGGCCAATGTGATGAATGTGAACATGCATATGTGTGATAAGGCAG
* *
89489610 AATGGCCAATGTGATGAATGTGAACATGC
66 AATGGCCAATGTGATAAACGTGAACATGC
* * *
89489639 ATATCTGTGATAAGGCCGAAT-GCCAATGTGATGAATGTGAACATGCATATGTGTGATAAGGTAG
1 ATATATGTGAGAAGGCCGAATGGCCAATGTGATGAATGTGAACATGCATATGTGTGATAAGGCAG
* * *
89489703 AATGGCTAATGTGATAAACGTGGAA-GTGT
66 AATGGCCAATGTGATAAACGT-GAACATGC
* * *
89489732 ATATATGTGGCGAA-GTCGAATGGCTAATGTGA
1 ATATATGT-GAGAAGGCCGAATGGCCAATGTGA
89489764 GATATGTATG
Statistics
Matches: 107, Mismatches: 15, Indels: 6
0.84 0.12 0.05
Matches are distributed among these distances:
93 74 0.69
94 33 0.31
ACGTcount: A:0.33, C:0.11, G:0.29, T:0.27
Consensus pattern (94 bp):
ATATATGTGAGAAGGCCGAATGGCCAATGTGATGAATGTGAACATGCATATGTGTGATAAGGCAG
AATGGCCAATGTGATAAACGTGAACATGC
Found at i:89491801 original size:48 final size:48
Alignment explanation
Indices: 89491749--89492050 Score: 297
Period size: 48 Copynumber: 6.3 Consensus size: 48
89491739 ATGTTAACCT
*
89491749 GCACACATAATGCCTTAGTAATTCACATACATATTGACATTCAAATCC
1 GCACACATAGTGCCTTAGTAATTCACATACATATTGACATTCAAATCC
* * ** * * *
89491797 GCACACATAGTGCCATA-TAAATC-CGCACATATAGTGCCATACAAATTC
1 GCACACATAGTGCCTTAGTAATTCACATACATAT--TGACATTCAAATCC
89491845 GCACACATAGTGCCTTAGTAATTCACATACATATTGACATTCAAATCC
1 GCACACATAGTGCCTTAGTAATTCACATACATATTGACATTCAAATCC
* * * ** * * *
89491893 ACACACATAGTGCCATA-TAAATC-CGCACATATAGTGCCATACAAATTC
1 GCACACATAGTGCCTTAGTAATTCACATACATAT--TGACATTCAAATCC
89491941 GCACACATAGTGCCTTAGTAATTCACATACATATTGACATTCAAATCC
1 GCACACATAGTGCCTTAGTAATTCACATACATATTGACATTCAAATCC
* * ** ** * * * **
89491989 ACACACATAGTGCCATACAAATTCGTACACATAGTGCCATTCAAATTA
1 GCACACATAGTGCCTTAGTAATTCACATACATATTGACATTCAAATCC
89492037 GCACACATAGTGCC
1 GCACACATAGTGCC
89492051 AAAGTCATTT
Statistics
Matches: 203, Mismatches: 43, Indels: 16
0.77 0.16 0.06
Matches are distributed among these distances:
46 14 0.07
47 10 0.05
48 155 0.76
49 10 0.05
50 14 0.07
ACGTcount: A:0.37, C:0.26, G:0.11, T:0.26
Consensus pattern (48 bp):
GCACACATAGTGCCTTAGTAATTCACATACATATTGACATTCAAATCC
Found at i:89491804 original size:24 final size:24
Alignment explanation
Indices: 89491768--89492051 Score: 238
Period size: 24 Copynumber: 11.8 Consensus size: 24
89491758 ATGCCTTAGT
* * * *
89491768 AATTCACATACATATTGACATTCA
1 AATTCGCACACATAGTGCCATTCA
*
89491792 AATCCGCACACATAGTGCCATAT-A
1 AATTCGCACACATAGTGCCAT-TCA
* * *
89491816 AATCCGCACATATAGTGCCATACA
1 AATTCGCACACATAGTGCCATTCA
89491840 AATTCGCACACATAGTGCC-TT-A
1 AATTCGCACACATAGTGCCATTCA
* * * *
89491862 GTAATTCACATACATATTGACATTCA
1 --AATTCGCACACATAGTGCCATTCA
* *
89491888 AATCCACACACATAGTGCCATAT-A
1 AATTCGCACACATAGTGCCAT-TCA
* * *
89491912 AATCCGCACATATAGTGCCATACA
1 AATTCGCACACATAGTGCCATTCA
89491936 AATTCGCACACATAGTGCC-TT-A
1 AATTCGCACACATAGTGCCATTCA
* * * *
89491958 GTAATTCACATACATATTGACATTCA
1 --AATTCGCACACATAGTGCCATTCA
* * *
89491984 AATCCACACACATAGTGCCATACA
1 AATTCGCACACATAGTGCCATTCA
*
89492008 AATTCGTACACATAGTGCCATTCA
1 AATTCGCACACATAGTGCCATTCA
*
89492032 AATTAGCACACATAGTGCCA
1 AATTCGCACACATAGTGCCA
89492052 AAGTCATTTC
Statistics
Matches: 209, Mismatches: 39, Indels: 24
0.77 0.14 0.09
Matches are distributed among these distances:
22 2 0.01
23 2 0.01
24 197 0.94
25 6 0.03
26 2 0.01
ACGTcount: A:0.38, C:0.26, G:0.11, T:0.26
Consensus pattern (24 bp):
AATTCGCACACATAGTGCCATTCA
Found at i:89491836 original size:96 final size:96
Alignment explanation
Indices: 89491749--89492050 Score: 532
Period size: 96 Copynumber: 3.1 Consensus size: 96
89491739 ATGTTAACCT
* *
89491749 GCACACATAATGCCTTAGTAATTCACATACATATTGACATTCAAATCCGCACACATAGTGCCATA
1 GCACACATAGTGCCTTAGTAATTCACATACATATTGACATTCAAATCCACACACATAGTGCCATA
89491814 TAAATCCGCACATATAGTGCCATACAAATTC
66 TAAATCCGCACATATAGTGCCATACAAATTC
89491845 GCACACATAGTGCCTTAGTAATTCACATACATATTGACATTCAAATCCACACACATAGTGCCATA
1 GCACACATAGTGCCTTAGTAATTCACATACATATTGACATTCAAATCCACACACATAGTGCCATA
89491910 TAAATCCGCACATATAGTGCCATACAAATTC
66 TAAATCCGCACATATAGTGCCATACAAATTC
89491941 GCACACATAGTGCCTTAGTAATTCACATACATATTGACATTCAAATCCACACACATAGTGCCATA
1 GCACACATAGTGCCTTAGTAATTCACATACATATTGACATTCAAATCCACACACATAGTGCCATA
* * * * * *
89492006 CAAATTCGTACACATAGTGCCATTCAAATTA
66 TAAATCCGCACATATAGTGCCATACAAATTC
89492037 GCACACATAGTGCC
1 GCACACATAGTGCC
89492051 AAAGTCATTT
Statistics
Matches: 198, Mismatches: 8, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
96 198 1.00
ACGTcount: A:0.37, C:0.26, G:0.11, T:0.26
Consensus pattern (96 bp):
GCACACATAGTGCCTTAGTAATTCACATACATATTGACATTCAAATCCACACACATAGTGCCATA
TAAATCCGCACATATAGTGCCATACAAATTC
Found at i:89491844 original size:72 final size:72
Alignment explanation
Indices: 89491719--89491853 Score: 155
Period size: 72 Copynumber: 1.9 Consensus size: 72
89491709 TCAAGCAAGG
* * * * * ** *
89491719 AAATTCGCACCCATAGTGCCATGTTAACCTGCACACATAATGCCTTAGTAATTCACATACATATT
1 AAATCCGCACACATAGTGCCATATAAACCTGCACACATAATGCCATACAAATTCACACACATATT
89491784 GACATTC
66 GACATTC
* * *
89491791 AAATCCGCACACATAGTGCCATATAAATCC-GCACATATAGTGCCATACAAATTCGCACACATA
1 AAATCCGCACACATAGTGCCATATAAA-CCTGCACACATAATGCCATACAAATTCACACACATA
89491854 GTGCCTTAGT
Statistics
Matches: 51, Mismatches: 11, Indels: 2
0.80 0.17 0.03
Matches are distributed among these distances:
72 49 0.96
73 2 0.04
ACGTcount: A:0.36, C:0.27, G:0.11, T:0.25
Consensus pattern (72 bp):
AAATCCGCACACATAGTGCCATATAAACCTGCACACATAATGCCATACAAATTCACACACATATT
GACATTC
Found at i:89492499 original size:16 final size:16
Alignment explanation
Indices: 89492478--89492509 Score: 55
Period size: 16 Copynumber: 2.0 Consensus size: 16
89492468 ATCACTTCAA
89492478 ATAAACACACATATAT
1 ATAAACACACATATAT
*
89492494 ATAAACACATATATAT
1 ATAAACACACATATAT
89492510 TTTTGTACAT
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
16 15 1.00
ACGTcount: A:0.56, C:0.16, G:0.00, T:0.28
Consensus pattern (16 bp):
ATAAACACACATATAT
Found at i:89494502 original size:18 final size:18
Alignment explanation
Indices: 89494446--89494502 Score: 62
Period size: 18 Copynumber: 3.2 Consensus size: 18
89494436 AGCTATAGAG
89494446 GAAAAGAAGAAGAAGAGAA
1 GAAAAGAAGAAG-AGAGAA
* * *
89494465 -AATAGATGAAGAGAGGA
1 GAAAAGAAGAAGAGAGAA
*
89494482 GAAAAGAAGAAGAGAAAA
1 GAAAAGAAGAAGAGAGAA
89494500 GAA
1 GAA
89494503 TTTTCAAAAA
Statistics
Matches: 30, Mismatches: 7, Indels: 3
0.75 0.17 0.08
Matches are distributed among these distances:
17 5 0.17
18 25 0.83
ACGTcount: A:0.65, C:0.00, G:0.32, T:0.04
Consensus pattern (18 bp):
GAAAAGAAGAAGAGAGAA
Found at i:89496430 original size:43 final size:43
Alignment explanation
Indices: 89496374--89496501 Score: 154
Period size: 43 Copynumber: 3.0 Consensus size: 43
89496364 ATATCGTACA
* * * *
89496374 ATGCCAACATCCTAGATGTGGTCTTACATGTA-ATCACATATCG
1 ATGCCAACGTCCTAGAAGTGGTCTTACACG-AGAACACATATCG
89496417 ATGCC-ACTGTCCTAGACAG-GGTCTTACACGAGAACACATATCG
1 ATGCCAAC-GTCCTAGA-AGTGGTCTTACACGAGAACACATATCG
* *
89496460 ATGCCAACGTCCCAGACGTGGTCTTACACGAGAACACATATC
1 ATGCCAACGTCCTAGAAGTGGTCTTACACGAGAACACATATC
89496502 AAAAATTCTA
Statistics
Matches: 74, Mismatches: 6, Indels: 10
0.82 0.07 0.11
Matches are distributed among these distances:
42 4 0.05
43 67 0.91
44 3 0.04
ACGTcount: A:0.30, C:0.27, G:0.19, T:0.23
Consensus pattern (43 bp):
ATGCCAACGTCCTAGAAGTGGTCTTACACGAGAACACATATCG
Found at i:89498282 original size:11 final size:11
Alignment explanation
Indices: 89498257--89498289 Score: 50
Period size: 10 Copynumber: 3.0 Consensus size: 11
89498247 AGACTAAACT
89498257 AAAAATTTTAG
1 AAAAATTTTAG
89498268 -AAAATTTTAG
1 AAAAATTTTAG
89498278 AAAAATTATTAG
1 AAAAATT-TTAG
89498290 CGTTATGCCT
Statistics
Matches: 20, Mismatches: 0, Indels: 3
0.87 0.00 0.13
Matches are distributed among these distances:
10 10 0.50
11 6 0.30
12 4 0.20
ACGTcount: A:0.55, C:0.00, G:0.09, T:0.36
Consensus pattern (11 bp):
AAAAATTTTAG
Found at i:89511978 original size:46 final size:46
Alignment explanation
Indices: 89511926--89512189 Score: 388
Period size: 46 Copynumber: 5.7 Consensus size: 46
89511916 TGTCATAGTG
* * *
89511926 TCTTTCAACTATGGTCTTACTCATTTTC-TGTCATGTTGCCATGGTA
1 TCTTTCAACCATGGTCTTACTCA-TTTCATATCAGGTTGCCATGGTA
* *
89511972 TCTTTCAACCATGGTCTTGCTCATTTCATATCACGTTGCCATGGTA
1 TCTTTCAACCATGGTCTTACTCATTTCATATCAGGTTGCCATGGTA
*
89512018 TCTTTCAACCATGGTCTTACACATTTCATATCAGGTTGCCATGGTA
1 TCTTTCAACCATGGTCTTACTCATTTCATATCAGGTTGCCATGGTA
* * *
89512064 TCTTTCAACCATGATCTTACACATTTCATATCAGGCTGCCATGGTA
1 TCTTTCAACCATGGTCTTACTCATTTCATATCAGGTTGCCATGGTA
*
89512110 TCTTTCAACCATGGTCTTA-TACATTTCATATCAGGCTGCCATGGTA
1 TCTTTCAACCATGGTCTTACT-CATTTCATATCAGGTTGCCATGGTA
* *
89512156 TCTTTCAACCATGGTCTTACACTTTTCATATCAG
1 TCTTTCAACCATGGTCTTACTCATTTCATATCAG
89512190 AGAGCACACT
Statistics
Matches: 202, Mismatches: 13, Indels: 6
0.91 0.06 0.03
Matches are distributed among these distances:
45 4 0.02
46 198 0.98
ACGTcount: A:0.22, C:0.25, G:0.14, T:0.39
Consensus pattern (46 bp):
TCTTTCAACCATGGTCTTACTCATTTCATATCAGGTTGCCATGGTA
Found at i:89517350 original size:18 final size:18
Alignment explanation
Indices: 89517327--89517363 Score: 74
Period size: 18 Copynumber: 2.1 Consensus size: 18
89517317 CGATACAAAT
89517327 GAACTATTATGAGGTCAC
1 GAACTATTATGAGGTCAC
89517345 GAACTATTATGAGGTCAC
1 GAACTATTATGAGGTCAC
89517363 G
1 G
89517364 TGTATAGTAC
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
18 19 1.00
ACGTcount: A:0.32, C:0.16, G:0.24, T:0.27
Consensus pattern (18 bp):
GAACTATTATGAGGTCAC
Found at i:89517437 original size:49 final size:49
Alignment explanation
Indices: 89517368--89517547 Score: 227
Period size: 49 Copynumber: 3.6 Consensus size: 49
89517358 GTCACGTGTA
*
89517368 TAGTACTAAGTGCAGGCTACTACGTGTACCGGATAATTGGTCGCATGTG
1 TAGTACTAAGTGCAGGCTACTACGTGTACCAGATAATTGGTCGCATGTG
* * * * * * *
89517417 TAGTACTAAGTGCAAGCTACTATGCGTACCCA-AAAACTGTGATCACGTGTG
1 TAGTACTAAGTGCAGGCTACTACGTGTA-CCAGATAA-T-TGGTCGCATGTG
*
89517468 TAGTACTAAGTGCAGGCTACTACGTGTACCAGATTATTGGTCGCATGTG
1 TAGTACTAAGTGCAGGCTACTACGTGTACCAGATAATTGGTCGCATGTG
* *
89517517 TAGTACTAAGTGCAGGCTACTATGCGTACCA
1 TAGTACTAAGTGCAGGCTACTACGTGTACCA
89517548 AATAGCTTCG
Statistics
Matches: 109, Mismatches: 18, Indels: 8
0.81 0.13 0.06
Matches are distributed among these distances:
49 66 0.61
50 7 0.06
51 36 0.33
ACGTcount: A:0.27, C:0.20, G:0.25, T:0.28
Consensus pattern (49 bp):
TAGTACTAAGTGCAGGCTACTACGTGTACCAGATAATTGGTCGCATGTG
Found at i:89517536 original size:100 final size:100
Alignment explanation
Indices: 89517359--89517546 Score: 340
Period size: 100 Copynumber: 1.9 Consensus size: 100
89517349 TATTATGAGG
*
89517359 TCACGTGTATAGTACTAAGTGCAGGCTACTACGTGTACCGGATAATTGGTCGCATGTGTAGTACT
1 TCACGTGTATAGTACTAAGTGCAGGCTACTACGTGTACCAGATAATTGGTCGCATGTGTAGTACT
89517424 AAGTGCAAGCTACTATGCGTACCCAAAAACTGTGA
66 AAGTGCAAGCTACTATGCGTACCCAAAAACTGTGA
* *
89517459 TCACGTGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGATTATTGGTCGCATGTGTAGTACT
1 TCACGTGTATAGTACTAAGTGCAGGCTACTACGTGTACCAGATAATTGGTCGCATGTGTAGTACT
*
89517524 AAGTGCAGGCTACTATGCGTACC
66 AAGTGCAAGCTACTATGCGTACC
89517547 AAATAGCTTC
Statistics
Matches: 84, Mismatches: 4, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
100 84 1.00
ACGTcount: A:0.27, C:0.20, G:0.25, T:0.28
Consensus pattern (100 bp):
TCACGTGTATAGTACTAAGTGCAGGCTACTACGTGTACCAGATAATTGGTCGCATGTGTAGTACT
AAGTGCAAGCTACTATGCGTACCCAAAAACTGTGA
Found at i:89519673 original size:42 final size:42
Alignment explanation
Indices: 89519626--89519732 Score: 196
Period size: 42 Copynumber: 2.5 Consensus size: 42
89519616 TATTGGTCTC
89519626 GGCACTAAGTGTGCGGGTATAAATGGACACGGTGACAAGATT
1 GGCACTAAGTGTGCGGGTATAAATGGACACGGTGACAAGATT
89519668 GGCACTAAGTGTGCGGGTATAAATGGACACGGTGACAAGATT
1 GGCACTAAGTGTGCGGGTATAAATGGACACGGTGACAAGATT
* *
89519710 GGCACTACGTGTGCGGGTTTAAA
1 GGCACTAAGTGTGCGGGTATAAA
89519733 ATTGTACAGC
Statistics
Matches: 63, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
42 63 1.00
ACGTcount: A:0.29, C:0.15, G:0.34, T:0.22
Consensus pattern (42 bp):
GGCACTAAGTGTGCGGGTATAAATGGACACGGTGACAAGATT
Found at i:89519797 original size:27 final size:28
Alignment explanation
Indices: 89519740--89519809 Score: 97
Period size: 27 Copynumber: 2.5 Consensus size: 28
89519730 AAAATTGTAC
**
89519740 AGCACTAAGTGTGCGAATTTGATTATAT
1 AGCACTAAGTGTGCGAAGCTGATTATAT
* *
89519768 AGCACTATGTGTGCG-AGCTGATTTTAT
1 AGCACTAAGTGTGCGAAGCTGATTATAT
89519795 AGCACTAAGTGTGCG
1 AGCACTAAGTGTGCG
89519810 GATTCACTAT
Statistics
Matches: 37, Mismatches: 5, Indels: 1
0.86 0.12 0.02
Matches are distributed among these distances:
27 23 0.62
28 14 0.38
ACGTcount: A:0.27, C:0.14, G:0.26, T:0.33
Consensus pattern (28 bp):
AGCACTAAGTGTGCGAAGCTGATTATAT
Found at i:89522034 original size:42 final size:43
Alignment explanation
Indices: 89521988--89522082 Score: 97
Period size: 43 Copynumber: 2.2 Consensus size: 43
89521978 TGTTACATCT
* * **
89521988 GGACATTGGCATCG-TATCTG-ATTTCGTGTAAGACC-CTGTCTG
1 GGACATTGGCATCGATA-CTGAATTACATGTAAGACCAC-GTCCA
**
89522030 GGACAGAGGCATCGATACTGAATTACATGTAAGACCACGTCCA
1 GGACATTGGCATCGATACTGAATTACATGTAAGACCACGTCCA
89522073 GGACATTGGC
1 GGACATTGGC
89522083 GTTGTACCCG
Statistics
Matches: 42, Mismatches: 8, Indels: 5
0.76 0.15 0.09
Matches are distributed among these distances:
42 15 0.36
43 26 0.62
44 1 0.02
ACGTcount: A:0.26, C:0.22, G:0.26, T:0.25
Consensus pattern (43 bp):
GGACATTGGCATCGATACTGAATTACATGTAAGACCACGTCCA
Found at i:89527837 original size:51 final size:50
Alignment explanation
Indices: 89527717--89527911 Score: 241
Period size: 49 Copynumber: 3.9 Consensus size: 50
89527707 TAGCCAAAGC
* * *
89527717 TATCTGGTACGCATAGTAGCTTGCACTTAGTACTACACATGCGACCAA-T
1 TATCTGGTACACATAGTAGCCTGCACTTAGTACTACACATGTGACCAAGT
* * * *
89527766 TATCCGGTACACGTAGTAGCCTGCACTTAGTACTACACACGTGATCGAAGT
1 TATCTGGTACACATAGTAGCCTGCACTTAGTACTACACATGTGA-CCAAGT
* * *
89527817 TATCGGGTACGCATAGTAGCCTGCACTTAGTACTACACATGAGACCAAG-
1 TATCTGGTACACATAGTAGCCTGCACTTAGTACTACACATGTGACCAAGT
* * * *
89527866 TATCTAGTACACGTAGTAGCCGGCATTTAGTACTACACATGTGACC
1 TATCTGGTACACATAGTAGCCTGCACTTAGTACTACACATGTGACC
89527912 TCACAATAGA
Statistics
Matches: 124, Mismatches: 20, Indels: 4
0.84 0.14 0.03
Matches are distributed among these distances:
49 77 0.62
50 7 0.06
51 40 0.32
ACGTcount: A:0.29, C:0.25, G:0.21, T:0.26
Consensus pattern (50 bp):
TATCTGGTACACATAGTAGCCTGCACTTAGTACTACACATGTGACCAAGT
Found at i:89527857 original size:100 final size:100
Alignment explanation
Indices: 89527717--89527909 Score: 305
Period size: 100 Copynumber: 1.9 Consensus size: 100
89527707 TAGCCAAAGC
* * * * *
89527717 TATCTGGTACGCATAGTAGCTTGCACTTAGTACTACACATGCGACCAATTATCCGGTACACGTAG
1 TATCGGGTACGCATAGTAGCCTGCACTTAGTACTACACATGAGACCAAGTATCCAGTACACGTAG
*
89527782 TAGCCTGCACTTAGTACTACACACGTGATCGAAGT
66 TAGCCGGCACTTAGTACTACACACGTGATCGAAGT
*
89527817 TATCGGGTACGCATAGTAGCCTGCACTTAGTACTACACATGAGACCAAGTATCTAGTACACGTAG
1 TATCGGGTACGCATAGTAGCCTGCACTTAGTACTACACATGAGACCAAGTATCCAGTACACGTAG
* *
89527882 TAGCCGGCATTTAGTACTACACATGTGA
66 TAGCCGGCACTTAGTACTACACACGTGA
89527910 CCTCACAATA
Statistics
Matches: 84, Mismatches: 9, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
100 84 1.00
ACGTcount: A:0.29, C:0.24, G:0.21, T:0.26
Consensus pattern (100 bp):
TATCGGGTACGCATAGTAGCCTGCACTTAGTACTACACATGAGACCAAGTATCCAGTACACGTAG
TAGCCGGCACTTAGTACTACACACGTGATCGAAGT
Found at i:89529683 original size:14 final size:14
Alignment explanation
Indices: 89529664--89529702 Score: 62
Period size: 14 Copynumber: 2.8 Consensus size: 14
89529654 GTGTAAATAT
89529664 GCAAAAGTT-TAGGG
1 GCAAAA-TTATAGGG
89529678 GCAAAATTATAGGG
1 GCAAAATTATAGGG
89529692 GCAAAATTATA
1 GCAAAATTATA
89529703 ATTTTGCCAA
Statistics
Matches: 24, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
13 2 0.08
14 22 0.92
ACGTcount: A:0.44, C:0.08, G:0.26, T:0.23
Consensus pattern (14 bp):
GCAAAATTATAGGG
Found at i:89530500 original size:68 final size:65
Alignment explanation
Indices: 89530428--89530599 Score: 177
Period size: 67 Copynumber: 2.6 Consensus size: 65
89530418 CATCATGTGT
* * *
89530428 ACAAGAGAGCTACAAGACATTATGATGTAGCTAGGTCGCATGGGTGATACTACGT-GTACACCAT
1 ACAAGAGAGCTAC--GACA-TAT-ATGTAGCTAGGTCGCATGCGTGATACCACGTAGGACACCAT
89530492 GTAG
62 GTAG
* * * *
89530496 ACAAGAGAGCTACGAGATATATGTAGCTAGGTCGCATGCGTGGTTCCAGGTGAAGGACACCATGT
1 ACAAGAGAGCTACGACATATATGTAGCTAGGTCGCATGCGTGATACCACGT--AGGACACCATGT
89530561 AG
64 AG
* * * *
89530563 ACAAGAGAGCTACGAGATAAAT-TGGCTAGGTCACATG
1 ACAAGAGAGCTACGACATATATGTAGCTAGGTCGCATG
89530600 GGTGGTACTG
Statistics
Matches: 91, Mismatches: 10, Indels: 8
0.83 0.09 0.07
Matches are distributed among these distances:
64 26 0.29
65 3 0.03
66 16 0.18
67 33 0.36
68 13 0.14
ACGTcount: A:0.33, C:0.17, G:0.28, T:0.22
Consensus pattern (65 bp):
ACAAGAGAGCTACGACATATATGTAGCTAGGTCGCATGCGTGATACCACGTAGGACACCATGTAG
Found at i:89536120 original size:49 final size:50
Alignment explanation
Indices: 89536063--89536307 Score: 237
Period size: 49 Copynumber: 4.9 Consensus size: 50
89536053 TAGCCAAAGC
* *
89536063 TATCTGGTACGCATAGTAGCTTGCACTTAGTACTACACATGCG-CCCAAT
1 TATCTGGTACACATAGTAGCTTGCACTTAGTACTACACACGCGACCCAAT
* * * *
89536112 TATCTGGTACACGTAGTAG-TCTGCACTTAGTACTACACACGTGACCTAAC
1 TATCTGGTACACATAGTAGCT-TGCACTTAGTACTACACACGCGACCCAAT
* * * * * * *
89536162 CATCTGATACACGTAGTAGCCTGCACTTAGTACTACACACGTGATCGAAGT
1 TATCTGGTACACATAGTAGCTTGCACTTAGTACTACACACGCGACCCAA-T
* * * * *
89536213 TATCGGGTACGCATAGTAGCATGCTCTTAGTACTACACATGCGA-CCAAT
1 TATCTGGTACACATAGTAGCTTGCACTTAGTACTACACACGCGACCCAAT
** * *
89536262 TATCCAGTACACATAGTAGC-TGACACTTAGTACTAGACACGAGACC
1 TATCTGGTACACATAGTAGCTTG-CACTTAGTACTACACACGCGACC
89536308 TCACAATAGA
Statistics
Matches: 161, Mismatches: 29, Indels: 11
0.80 0.14 0.05
Matches are distributed among these distances:
48 3 0.02
49 72 0.45
50 51 0.32
51 35 0.22
ACGTcount: A:0.29, C:0.26, G:0.19, T:0.26
Consensus pattern (50 bp):
TATCTGGTACACATAGTAGCTTGCACTTAGTACTACACACGCGACCCAAT
Found at i:89536186 original size:50 final size:50
Alignment explanation
Indices: 89536076--89536205 Score: 181
Period size: 50 Copynumber: 2.6 Consensus size: 50
89536066 CTGGTACGCA
* * * ** *
89536076 TAGTAGCTTGCACTTAGTACTACACATGCG-CCCAATTATCTGGTACACG
1 TAGTAGCCTGCACTTAGTACTACACACGTGACCCAACCATCTGATACACG
* *
89536125 TAGTAGTCTGCACTTAGTACTACACACGTGACCTAACCATCTGATACACG
1 TAGTAGCCTGCACTTAGTACTACACACGTGACCCAACCATCTGATACACG
89536175 TAGTAGCCTGCACTTAGTACTACACACGTGA
1 TAGTAGCCTGCACTTAGTACTACACACGTGA
89536206 TCGAAGTTAT
Statistics
Matches: 71, Mismatches: 9, Indels: 1
0.88 0.11 0.01
Matches are distributed among these distances:
49 26 0.37
50 45 0.63
ACGTcount: A:0.28, C:0.27, G:0.18, T:0.27
Consensus pattern (50 bp):
TAGTAGCCTGCACTTAGTACTACACACGTGACCCAACCATCTGATACACG
Found at i:89554826 original size:11 final size:11
Alignment explanation
Indices: 89554810--89554835 Score: 52
Period size: 11 Copynumber: 2.4 Consensus size: 11
89554800 TCAGACCTAT
89554810 ATCGTCGAAGC
1 ATCGTCGAAGC
89554821 ATCGTCGAAGC
1 ATCGTCGAAGC
89554832 ATCG
1 ATCG
89554836 ATGAAAAACG
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 15 1.00
ACGTcount: A:0.27, C:0.27, G:0.27, T:0.19
Consensus pattern (11 bp):
ATCGTCGAAGC
Found at i:89560863 original size:29 final size:29
Alignment explanation
Indices: 89560830--89560903 Score: 139
Period size: 29 Copynumber: 2.6 Consensus size: 29
89560820 CCTTCGAGCT
89560830 CGCACACTTAGTGCCATATATTTCCAGCA
1 CGCACACTTAGTGCCATATATTTCCAGCA
*
89560859 TGCACACTTAGTGCCATATATTTCCAGCA
1 CGCACACTTAGTGCCATATATTTCCAGCA
89560888 CGCACACTTAGTGCCA
1 CGCACACTTAGTGCCA
89560904 ATCTCGTCAC
Statistics
Matches: 43, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
29 43 1.00
ACGTcount: A:0.27, C:0.31, G:0.15, T:0.27
Consensus pattern (29 bp):
CGCACACTTAGTGCCATATATTTCCAGCA
Found at i:89560864 original size:58 final size:58
Alignment explanation
Indices: 89560771--89560903 Score: 133
Period size: 58 Copynumber: 2.3 Consensus size: 58
89560761 ATACTCGATT
* * * * *
89560771 TCGCACACTTAGTGCCATGCGATTTAAGCCCGCACACACAGTGCCATGCCCTTCGAGC
1 TCGCACACTTAGTGCCATGAGATTTAAGCACGCACACACAGTGCCATACACTTCCAGC
* * * ** * *
89560829 TCGCACACTTAGTGCCAT-ATATTTCCAGCATGCACACTTAGTGCCATATATTTCCAGC
1 TCGCACACTTAGTGCCATGAGATTT-AAGCACGCACACACAGTGCCATACACTTCCAGC
*
89560887 ACGCACACTTAGTGCCA
1 TCGCACACTTAGTGCCA
89560904 ATCTCGTCAC
Statistics
Matches: 61, Mismatches: 13, Indels: 2
0.80 0.17 0.03
Matches are distributed among these distances:
57 4 0.07
58 57 0.93
ACGTcount: A:0.25, C:0.33, G:0.17, T:0.25
Consensus pattern (58 bp):
TCGCACACTTAGTGCCATGAGATTTAAGCACGCACACACAGTGCCATACACTTCCAGC
Found at i:89564101 original size:22 final size:22
Alignment explanation
Indices: 89564074--89564195 Score: 63
Period size: 22 Copynumber: 5.3 Consensus size: 22
89564064 GTTCACATTC
89564074 ATCACATTGGCCATTCGGCCTT
1 ATCACATTGGCCATTCGGCCTT
* * *
89564096 ATCACACGTGTG-CATGTTC-ACATT
1 ATCACA-TTG-GCCA--TTCGGCCTT
*
89564120 CATCACATTGGCCATTCGGGCTT
1 -ATCACATTGGCCATTCGGCCTT
* * *
89564143 ATCACATATATG-CATGTTC-ACATT
1 ATCACAT-T-GGCCA--TTCGGCCTT
89564167 CATCACATTGGCCATTCGGCCTT
1 -ATCACATTGGCCATTCGGCCTT
89564190 ATCACA
1 ATCACA
89564196 CATATGCATG
Statistics
Matches: 72, Mismatches: 14, Indels: 28
0.63 0.12 0.25
Matches are distributed among these distances:
22 25 0.35
23 14 0.19
24 14 0.19
25 19 0.26
ACGTcount: A:0.24, C:0.29, G:0.16, T:0.32
Consensus pattern (22 bp):
ATCACATTGGCCATTCGGCCTT
Found at i:89564257 original size:94 final size:94
Alignment explanation
Indices: 89564027--89564264 Score: 323
Period size: 94 Copynumber: 2.5 Consensus size: 94
89564017 TTCCACGTTT
* *** * * **
89564027 ATCACATTAGCCATTCTACCTTATCACACATATGCATGTTCACATTCATCACATTGGCCATTCGG
1 ATCACATTGGCCATTAGGCCTTATCACATATATACACATTCACATTCATCACATTGGCCATTCGG
* *
89564092 CCTTATCACACGTGTGCATGTTCACATTC
66 CCTTATCACACATATGCATGTTCACATTC
* * * **
89564121 ATCACATTGGCCATTCGGGCTTATCACATATATGCATGTTCACATTCATCACATTGGCCATTCGG
1 ATCACATTGGCCATTAGGCCTTATCACATATATACACATTCACATTCATCACATTGGCCATTCGG
89564186 CCTTATCACACATATGCATGTTCACATTC
66 CCTTATCACACATATGCATGTTCACATTC
* *
89564215 ATCACATTGGCCATTAGGCCTTATCTCATATATACACATTCACAATCATC
1 ATCACATTGGCCATTAGGCCTTATCACATATATACACATTCACATTCATC
89564265 TCATAAAATC
Statistics
Matches: 130, Mismatches: 14, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
94 130 1.00
ACGTcount: A:0.27, C:0.29, G:0.12, T:0.33
Consensus pattern (94 bp):
ATCACATTGGCCATTAGGCCTTATCACATATATACACATTCACATTCATCACATTGGCCATTCGG
CCTTATCACACATATGCATGTTCACATTC
Found at i:89564264 original size:47 final size:47
Alignment explanation
Indices: 89564027--89564239 Score: 354
Period size: 47 Copynumber: 4.5 Consensus size: 47
89564017 TTCCACGTTT
* **
89564027 ATCACATTAGCCATTCTACCTTATCACACATATGCATGTTCACATTC
1 ATCACATTGGCCATTCGGCCTTATCACACATATGCATGTTCACATTC
* *
89564074 ATCACATTGGCCATTCGGCCTTATCACACGTGTGCATGTTCACATTC
1 ATCACATTGGCCATTCGGCCTTATCACACATATGCATGTTCACATTC
* *
89564121 ATCACATTGGCCATTCGGGCTTATCACATATATGCATGTTCACATTC
1 ATCACATTGGCCATTCGGCCTTATCACACATATGCATGTTCACATTC
89564168 ATCACATTGGCCATTCGGCCTTATCACACATATGCATGTTCACATTC
1 ATCACATTGGCCATTCGGCCTTATCACACATATGCATGTTCACATTC
*
89564215 ATCACATTGGCCATTAGGCCTTATC
1 ATCACATTGGCCATTCGGCCTTATC
89564240 TCATATATAC
Statistics
Matches: 154, Mismatches: 12, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
47 154 1.00
ACGTcount: A:0.25, C:0.29, G:0.13, T:0.33
Consensus pattern (47 bp):
ATCACATTGGCCATTCGGCCTTATCACACATATGCATGTTCACATTC
Found at i:89568182 original size:40 final size:40
Alignment explanation
Indices: 89568138--89568536 Score: 564
Period size: 40 Copynumber: 10.0 Consensus size: 40
89568128 GAATACACAT
* * *
89568138 CACCAGCATGATTGCTCTTCGGGACCTAGCCCGGATATAA
1 CACCAGCACGAATGCTCTTCGGGACTTAGCCCGGATATAA
* * *
89568178 CACCAGCACGAATGCTCTTTGGGACTTAACCCTGATATAA
1 CACCAGCACGAATGCTCTTCGGGACTTAGCCCGGATATAA
* * *
89568218 CTCTAGCACGAATGCTCTTCGAGACTTAGCCCGGATATAA
1 CACCAGCACGAATGCTCTTCGGGACTTAGCCCGGATATAA
* *
89568258 CACCAACACGAATGCTCTTCGGGACTTAGCACGGATATAA
1 CACCAGCACGAATGCTCTTCGGGACTTAGCCCGGATATAA
* **
89568298 CACCAGCACGAATGCTCTTCGGGACTTAACCCTAATATAA
1 CACCAGCACGAATGCTCTTCGGGACTTAGCCCGGATATAA
* * * *
89568338 CTCTAGCACGAATGCTCTCCGAGACTTAGCCCGGATATAA
1 CACCAGCACGAATGCTCTTCGGGACTTAGCCCGGATATAA
*
89568378 CACCAGCACGAATGCTCTTCGGGACTAAGCCCGGATATAA
1 CACCAGCACGAATGCTCTTCGGGACTTAGCCCGGATATAA
* * *
89568418 CACCAGCACGAATGCTTTTCAGGACTTAGCCCGGACATAA
1 CACCAGCACGAATGCTCTTCGGGACTTAGCCCGGATATAA
*
89568458 CACCAGCACGAATGCTCTTCGGGACTTAGCCCGGACATAA
1 CACCAGCACGAATGCTCTTCGGGACTTAGCCCGGATATAA
* * *
89568498 CACCAGCATGAATGCTCATCGGGACTTAGCCCGGCTATA
1 CACCAGCACGAATGCTCTTCGGGACTTAGCCCGGATATA
89568537 TAACTCTCAA
Statistics
Matches: 315, Mismatches: 44, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
40 315 1.00
ACGTcount: A:0.29, C:0.30, G:0.20, T:0.21
Consensus pattern (40 bp):
CACCAGCACGAATGCTCTTCGGGACTTAGCCCGGATATAA
Found at i:89570022 original size:2 final size:2
Alignment explanation
Indices: 89570015--89570039 Score: 50
Period size: 2 Copynumber: 12.5 Consensus size: 2
89570005 TTTGGCCATA
89570015 AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT A
89570040 CAAATCTCAT
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 23 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:89570318 original size:93 final size:94
Alignment explanation
Indices: 89570102--89570320 Score: 352
Period size: 93 Copynumber: 2.4 Consensus size: 94
89570092 CTTCCAGTTT
* ** *
89570102 ATCACATTAGCCATTCTACCTTATCACACATATGCATGTTCACATTCATCACATTGGCCATTCGG
1 ATCACATTGGCCATTCGGCCTTATCACATATATGCATGTTCACATTCATCACATTGGCCATTCGG
* *
89570167 CCTTATCACACGTGTGCATGTTCACATTC
66 CCTTATCACACATATGCATGTTCACATTC
89570196 ATCACATTGGCCATTCGG-CTTATCACATATATGCATGTTCACATTCATCACATTGGCCATTCGG
1 ATCACATTGGCCATTCGGCCTTATCACATATATGCATGTTCACATTCATCACATTGGCCATTCGG
89570260 CCTTATCACACATATGCATGTTCACA-TC
66 CCTTATCACACATATGCATGTTCACATTC
* *
89570288 ATCACATTGGCCATTAGGCCTTATCTCATATAT
1 ATCACATTGGCCATTCGGCCTTATCACATATAT
89570321 ACACATTCAC
Statistics
Matches: 116, Mismatches: 8, Indels: 3
0.91 0.06 0.02
Matches are distributed among these distances:
92 19 0.16
93 82 0.71
94 15 0.13
ACGTcount: A:0.26, C:0.28, G:0.12, T:0.33
Consensus pattern (94 bp):
ATCACATTGGCCATTCGGCCTTATCACATATATGCATGTTCACATTCATCACATTGGCCATTCGG
CCTTATCACACATATGCATGTTCACATTC
Found at i:89570336 original size:46 final size:47
Alignment explanation
Indices: 89570102--89570312 Score: 345
Period size: 47 Copynumber: 4.5 Consensus size: 47
89570092 CTTCCAGTTT
* **
89570102 ATCACATTAGCCATTCTACCTTATCACACATATGCATGTTCACATTC
1 ATCACATTGGCCATTCGGCCTTATCACACATATGCATGTTCACATTC
* *
89570149 ATCACATTGGCCATTCGGCCTTATCACACGTGTGCATGTTCACATTC
1 ATCACATTGGCCATTCGGCCTTATCACACATATGCATGTTCACATTC
*
89570196 ATCACATTGGCCATTCGG-CTTATCACATATATGCATGTTCACATTC
1 ATCACATTGGCCATTCGGCCTTATCACACATATGCATGTTCACATTC
89570242 ATCACATTGGCCATTCGGCCTTATCACACATATGCATGTTCACA-TC
1 ATCACATTGGCCATTCGGCCTTATCACACATATGCATGTTCACATTC
*
89570288 ATCACATTGGCCATTAGGCCTTATC
1 ATCACATTGGCCATTCGGCCTTATC
89570313 TCATATATAC
Statistics
Matches: 153, Mismatches: 10, Indels: 3
0.92 0.06 0.02
Matches are distributed among these distances:
46 69 0.45
47 84 0.55
ACGTcount: A:0.26, C:0.29, G:0.13, T:0.33
Consensus pattern (47 bp):
ATCACATTGGCCATTCGGCCTTATCACACATATGCATGTTCACATTC
Found at i:89574253 original size:40 final size:40
Alignment explanation
Indices: 89574221--89574607 Score: 603
Period size: 40 Copynumber: 9.7 Consensus size: 40
89574211 CCAGCGTGAT
* *
89574221 TGCTCTTTGGGACCTAGCCCGGATATAACACCAGCACGAA
1 TGCTCTTCGGGACTTAGCCCGGATATAACACCAGCACGAA
* * * *
89574261 TGCTCTTCGGGACTTAACCCTGATATAACTCTAGCACGAA
1 TGCTCTTCGGGACTTAGCCCGGATATAACACCAGCACGAA
* *
89574301 TGCTCTCCGAGACTTAGCCCGGATATAACACCAGCACGAA
1 TGCTCTTCGGGACTTAGCCCGGATATAACACCAGCACGAA
89574341 TGCTCTTCGGGACTTAGCCCGGATATAACACCAGCACGAA
1 TGCTCTTCGGGACTTAGCCCGGATATAACACCAGCACGAA
* * * *
89574381 TGCTCTTCGGGACTTAACCCTGATATAACTCTAGCACGAA
1 TGCTCTTCGGGACTTAGCCCGGATATAACACCAGCACGAA
* *
89574421 TGCTCTCCGAGACTTAGCCCGGATATAACACCAGCACGAA
1 TGCTCTTCGGGACTTAGCCCGGATATAACACCAGCACGAA
*
89574461 TGCTCTTCGGGACTGAGCCCGGATATAACACCAGCACGAA
1 TGCTCTTCGGGACTTAGCCCGGATATAACACCAGCACGAA
* *
89574501 TGCTCTTTGGGACTTAGCCCGGACATAACACCAGCACGAA
1 TGCTCTTCGGGACTTAGCCCGGATATAACACCAGCACGAA
*
89574541 TGCTCTTCGGGACTTAGCCCGGACATAACACCAGCACGAA
1 TGCTCTTCGGGACTTAGCCCGGATATAACACCAGCACGAA
*
89574581 TGCTCTTCGGGACTTAGCCCGGCTATA
1 TGCTCTTCGGGACTTAGCCCGGATATA
89574608 TAACTCTCAA
Statistics
Matches: 314, Mismatches: 33, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
40 314 1.00
ACGTcount: A:0.27, C:0.30, G:0.21, T:0.21
Consensus pattern (40 bp):
TGCTCTTCGGGACTTAGCCCGGATATAACACCAGCACGAA
Found at i:89576210 original size:47 final size:47
Alignment explanation
Indices: 89576120--89576331 Score: 239
Period size: 47 Copynumber: 4.5 Consensus size: 47
89576110 CATACATATC
** * * *
89576120 TCACATTAGCCATTCGG-CTTCGCCACATATATACACT-TCCACGTTTA
1 TCACATTAGCCATTCGGCCTT-ATCACACATATGCA-TGTTCACGTTTA
* **
89576167 TCACAGTAGCCATTCTACCTTATCACACATATGCATGTTCACGTTTA
1 TCACATTAGCCATTCGGCCTTATCACACATATGCATGTTCACGTTTA
* *
89576214 TCACATTAGCCATTCGGCCTTATCACACATATGCATGTTCACATTCA
1 TCACATTAGCCATTCGGCCTTATCACACATATGCATGTTCACGTTTA
* * * *
89576261 TCACATTGGCCATTCGGCCTTATCACATATATGCATGTTCACATTCA
1 TCACATTAGCCATTCGGCCTTATCACACATATGCATGTTCACGTTTA
* * *
89576308 TTACATTGGCCATTAGGCCTTATC
1 TCACATTAGCCATTCGGCCTTATC
89576332 TCATATATAC
Statistics
Matches: 146, Mismatches: 17, Indels: 4
0.87 0.10 0.02
Matches are distributed among these distances:
46 1 0.01
47 142 0.97
48 3 0.02
ACGTcount: A:0.26, C:0.29, G:0.12, T:0.33
Consensus pattern (47 bp):
TCACATTAGCCATTCGGCCTTATCACACATATGCATGTTCACGTTTA
Found at i:89576239 original size:22 final size:22
Alignment explanation
Indices: 89576211--89576288 Score: 61
Period size: 22 Copynumber: 3.4 Consensus size: 22
89576201 ATGTTCACGT
89576211 TTATCACATTAGCCATTCGGCC
1 TTATCACATTAGCCATTCGGCC
* * *
89576233 TTATCACACATATG-CATGTTC-ACA
1 TTATCACA-TTA-GCCA--TTCGGCC
*
89576257 TTCATCACATTGGCCATTCGGCC
1 TT-ATCACATTAGCCATTCGGCC
89576280 TTATCACAT
1 TTATCACAT
89576289 ATATGCATGT
Statistics
Matches: 42, Mismatches: 7, Indels: 14
0.67 0.11 0.22
Matches are distributed among these distances:
22 18 0.43
23 8 0.19
24 7 0.17
25 9 0.21
ACGTcount: A:0.26, C:0.29, G:0.12, T:0.33
Consensus pattern (22 bp):
TTATCACATTAGCCATTCGGCC
Found at i:89576339 original size:47 final size:47
Alignment explanation
Indices: 89576166--89576331 Score: 242
Period size: 47 Copynumber: 3.5 Consensus size: 47
89576156 TTCCACGTTT
* * ** * *
89576166 ATCACAGTAGCCATTCTACCTTATCACACATATGCATGTTCACGTTT
1 ATCACATTGGCCATTCGGCCTTATCACACATATGCATGTTCACATTC
*
89576213 ATCACATTAGCCATTCGGCCTTATCACACATATGCATGTTCACATTC
1 ATCACATTGGCCATTCGGCCTTATCACACATATGCATGTTCACATTC
*
89576260 ATCACATTGGCCATTCGGCCTTATCACATATATGCATGTTCACATTC
1 ATCACATTGGCCATTCGGCCTTATCACACATATGCATGTTCACATTC
* *
89576307 ATTACATTGGCCATTAGGCCTTATC
1 ATCACATTGGCCATTCGGCCTTATC
89576332 TCATATATAC
Statistics
Matches: 110, Mismatches: 9, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
47 110 1.00
ACGTcount: A:0.27, C:0.28, G:0.12, T:0.34
Consensus pattern (47 bp):
ATCACATTGGCCATTCGGCCTTATCACACATATGCATGTTCACATTC
Found at i:89577352 original size:23 final size:24
Alignment explanation
Indices: 89577277--89577537 Score: 388
Period size: 24 Copynumber: 11.0 Consensus size: 24
89577267 GCTTTATCAT
*
89577277 ATAACTGGAGGCCT-AGCCTCTTTTA
1 ATAACTGG-GGCATAAGCC-CTTTTA
*
89577302 ATAACTGGGGCAAAAGCCCTTTTA
1 ATAACTGGGGCATAAGCCCTTTTA
89577326 ATAACTGGGGCATAAGCCC-TTTA
1 ATAACTGGGGCATAAGCCCTTTTA
*
89577349 ATAACTGGGGCATAAGCCCTTTTG
1 ATAACTGGGGCATAAGCCCTTTTA
*
89577373 ATAATTGGGGCATAAGCCC-TTTA
1 ATAACTGGGGCATAAGCCCTTTTA
*
89577396 ATAACTGGGGCATAAGCCCTTTTG
1 ATAACTGGGGCATAAGCCCTTTTA
* *
89577420 ATAACTGGGGCATAAACCCTTTTG
1 ATAACTGGGGCATAAGCCCTTTTA
89577444 ATAACTGGGGCATAAGCCC-TTTA
1 ATAACTGGGGCATAAGCCCTTTTA
*
89577467 ATAACTGGGGCATAAGCCCTTTTTG
1 ATAACTGGGGCATAAGCCC-TTTTA
89577492 ATAACTGGGGCATAAGCCC-TTTA
1 ATAACTGGGGCATAAGCCCTTTTA
89577515 ATAACTGGGGCATAAGCCCTTTT
1 ATAACTGGGGCATAAGCCCTTTT
89577538 GCACTTCCTC
Statistics
Matches: 217, Mismatches: 13, Indels: 13
0.89 0.05 0.05
Matches are distributed among these distances:
23 88 0.41
24 95 0.44
25 34 0.16
ACGTcount: A:0.28, C:0.21, G:0.22, T:0.29
Consensus pattern (24 bp):
ATAACTGGGGCATAAGCCCTTTTA
Found at i:89577352 original size:47 final size:47
Alignment explanation
Indices: 89577298--89577536 Score: 374
Period size: 47 Copynumber: 5.1 Consensus size: 47
89577288 CCTAGCCTCT
*
89577298 TTTAATAACTGGGGCAAAAGCCCTTTTAATAACTGGGGCATAAGCCC
1 TTTAATAACTGGGGCATAAGCCCTTTTAATAACTGGGGCATAAGCCC
* *
89577345 TTTAATAACTGGGGCATAAGCCCTTTTGATAATTGGGGCATAAGCCC
1 TTTAATAACTGGGGCATAAGCCCTTTTAATAACTGGGGCATAAGCCC
* *
89577392 TTTAATAACTGGGGCATAAGCCCTTTTGATAACTGGGGCATAAACCC
1 TTTAATAACTGGGGCATAAGCCCTTTTAATAACTGGGGCATAAGCCC
*
89577439 TTTTGATAACTGGGGCATAAGCCC-TTTAATAACTGGGGCATAAGCCC
1 -TTTAATAACTGGGGCATAAGCCCTTTTAATAACTGGGGCATAAGCCC
*
89577486 TTTTTGATAACTGGGGCATAAGCCC-TTTAATAACTGGGGCATAAGCCC
1 --TTTAATAACTGGGGCATAAGCCCTTTTAATAACTGGGGCATAAGCCC
89577534 TTT
1 TTT
89577537 TGCACTTCCT
Statistics
Matches: 182, Mismatches: 8, Indels: 5
0.93 0.04 0.03
Matches are distributed among these distances:
46 3 0.02
47 110 0.60
48 69 0.38
ACGTcount: A:0.28, C:0.21, G:0.22, T:0.29
Consensus pattern (47 bp):
TTTAATAACTGGGGCATAAGCCCTTTTAATAACTGGGGCATAAGCCC
Found at i:89577382 original size:71 final size:71
Alignment explanation
Indices: 89577277--89577536 Score: 400
Period size: 71 Copynumber: 3.6 Consensus size: 71
89577267 GCTTTATCAT
* *
89577277 ATAACTGGAGGCCT-AGCCTCTTTTAATAACTGGGGCAAAAGCCCTTTTAATAACTGGGGCATAA
1 ATAACTGG-GGCATAAGCC-CTTTTAATAACTGGGGCATAAGCCC-TTTAATAACTGGGGCATAA
*
89577341 GCCC-TTTA
63 GCCCTTTTG
* *
89577349 ATAACTGGGGCATAAGCCCTTTTGATAATTGGGGCATAAGCCCTTTAATAACTGGGGCATAAGCC
1 ATAACTGGGGCATAAGCCCTTTTAATAACTGGGGCATAAGCCCTTTAATAACTGGGGCATAAGCC
89577414 CTTTTG
66 CTTTTG
* *
89577420 ATAACTGGGGCATAAACCCTTTTGATAACTGGGGCATAAGCCCTTTAATAACTGGGGCATAAGCC
1 ATAACTGGGGCATAAGCCCTTTTAATAACTGGGGCATAAGCCCTTTAATAACTGGGGCATAAGCC
89577485 CTTTTTG
66 C-TTTTG
89577492 ATAACTGGGGCATAAGCCC-TTTAATAACTGGGGCATAAGCCCTTT
1 ATAACTGGGGCATAAGCCCTTTTAATAACTGGGGCATAAGCCCTTT
89577537 TGCACTTCCT
Statistics
Matches: 176, Mismatches: 9, Indels: 7
0.92 0.05 0.04
Matches are distributed among these distances:
70 23 0.13
71 118 0.67
72 35 0.20
ACGTcount: A:0.28, C:0.21, G:0.22, T:0.28
Consensus pattern (71 bp):
ATAACTGGGGCATAAGCCCTTTTAATAACTGGGGCATAAGCCCTTTAATAACTGGGGCATAAGCC
CTTTTG
Done.