Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: A12
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: 103038859
ACGTcount: A:0.31, C:0.16, G:0.16, T:0.31
Warning! 4950000 characters in sequence are not A, C, G, or T
File 119 of 320
Found at i:38995683 original size:57 final size:57
Alignment explanation
Indices: 38995529--38995717 Score: 220
Period size: 57 Copynumber: 3.3 Consensus size: 57
38995519 GAAACACACT
* * * * *
38995529 TCGCATACACAGTGCC-C-ACTGACTGATTTCGCACACATAGCGCTCAATTAAAGAAC
1 TCGCACACACAGTGCCTCAACT-ACTGATCTCGCACACATAGTGCTCGATTGAAGAAC
* * * **
38995585 TCGCACACATAGTGACTCAATTACCAATCTCGCACACATAGTGCTCGATTGAAGAAC
1 TCGCACACACAGTGCCTCAACTACTGATCTCGCACACATAGTGCTCGATTGAAGAAC
* * * *
38995642 TCGCACACATAGTGCCTCAACTACTGATCTGGCACACATAGTACTCGGTTGAAGAAC
1 TCGCACACACAGTGCCTCAACTACTGATCTCGCACACATAGTGCTCGATTGAAGAAC
*
38995699 TTGCACACACAGTGCCTCA
1 TCGCACACACAGTGCCTCA
38995718 TAACTCCAGC
Statistics
Matches: 112, Mismatches: 19, Indels: 3
0.84 0.14 0.02
Matches are distributed among these distances:
56 13 0.12
57 97 0.87
58 2 0.02
ACGTcount: A:0.31, C:0.30, G:0.17, T:0.22
Consensus pattern (57 bp):
TCGCACACACAGTGCCTCAACTACTGATCTCGCACACATAGTGCTCGATTGAAGAAC
Found at i:38995789 original size:40 final size:40
Alignment explanation
Indices: 38995745--38996076 Score: 592
Period size: 40 Copynumber: 8.3 Consensus size: 40
38995735 CCTTCGAGGT
*
38995745 TTAGCCCGGATATATCACTAGCACGAATGCTCTTCGGAAC
1 TTAGCCCGGATACATCACTAGCACGAATGCTCTTCGGAAC
* *
38995785 TTAGCCCGGATACATTACTAGCATGAATGCTCTTCGGAAC
1 TTAGCCCGGATACATCACTAGCACGAATGCTCTTCGGAAC
* *
38995825 ATAGCCCGGATACATTACTAGCACGAATGCTCTTCGGAAC
1 TTAGCCCGGATACATCACTAGCACGAATGCTCTTCGGAAC
38995865 TTAGCCCGGATACATCACTAGCACGAATGCTCTTCGGAAC
1 TTAGCCCGGATACATCACTAGCACGAATGCTCTTCGGAAC
38995905 TTAGCCCGGATACATCACTAGCACGAATGCTCTTCGGAAC
1 TTAGCCCGGATACATCACTAGCACGAATGCTCTTCGGAAC
38995945 TTAGCCCGGATACATCACTAGCACGAATGCTCTTCGGAAC
1 TTAGCCCGGATACATCACTAGCACGAATGCTCTTCGGAAC
* *
38995985 TTAGCCCGGATTCATCACTAGCACGAATGCTCTTTGGAAC
1 TTAGCCCGGATACATCACTAGCACGAATGCTCTTCGGAAC
*
38996025 TTAGCCCGGATACATCACTAGCACGAATGCTCTTCGGGAC
1 TTAGCCCGGATACATCACTAGCACGAATGCTCTTCGGAAC
38996065 TTAGCCCGGATA
1 TTAGCCCGGATA
38996077 TATATAACTC
Statistics
Matches: 280, Mismatches: 12, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
40 280 1.00
ACGTcount: A:0.27, C:0.28, G:0.20, T:0.24
Consensus pattern (40 bp):
TTAGCCCGGATACATCACTAGCACGAATGCTCTTCGGAAC
Found at i:38998319 original size:28 final size:28
Alignment explanation
Indices: 38998288--38998444 Score: 136
Period size: 28 Copynumber: 5.5 Consensus size: 28
38998278 CTGACTGATT
*
38998288 TCGCACACATAGCGCTCAATTAAAGAAC
1 TCGCACACATAGTGCTCAATTAAAGAAC
* *
38998316 TCGCACACATAGTGACTCAATTACCA-ATC
1 TCGCACACATAGTG-CTCAATTA-AAGAAC
* *
38998345 TCGCACACATAGTGCTCGATTGAAGAAC
1 TCGCACACATAGTGCTCAATTAAAGAAC
* ** *
38998373 TCGCACACATAGTGCCTCAACTACTGATC
1 TCGCACACATAGTG-CTCAATTAAAGAAC
* * ** *
38998402 TGGCACACATAGTACTCGGTTGAAGAAC
1 TCGCACACATAGTGCTCAATTAAAGAAC
* *
38998430 TTGCACACACAGTGC
1 TCGCACACATAGTGC
38998445 CTCATAACTC
Statistics
Matches: 100, Mismatches: 25, Indels: 8
0.75 0.19 0.06
Matches are distributed among these distances:
27 1 0.01
28 54 0.54
29 44 0.44
30 1 0.01
ACGTcount: A:0.32, C:0.29, G:0.17, T:0.22
Consensus pattern (28 bp):
TCGCACACATAGTGCTCAATTAAAGAAC
Found at i:38998347 original size:29 final size:28
Alignment explanation
Indices: 38998288--38998414 Score: 116
Period size: 29 Copynumber: 4.5 Consensus size: 28
38998278 CTGACTGATT
* *
38998288 TCGCACACATAGCGCTCAATTA-AAGAAC
1 TCGCACACATAGTGCTCAATTACAA-ATC
*
38998316 TCGCACACATAGTGACTCAATTACCAATC
1 TCGCACACATAGTG-CTCAATTACAAATC
*
38998345 TCGCACACATAGTGCTCGATTGA-AGAA-C
1 TCGCACACATAGTGCTCAATT-ACA-AATC
* **
38998373 TCGCACACATAGTGCCTCAACTACTGATC
1 TCGCACACATAGTG-CTCAATTACAAATC
*
38998402 TGGCACACATAGT
1 TCGCACACATAGT
38998415 ACTCGGTTGA
Statistics
Matches: 82, Mismatches: 10, Indels: 13
0.78 0.10 0.12
Matches are distributed among these distances:
28 36 0.44
29 45 0.55
30 1 0.01
ACGTcount: A:0.33, C:0.29, G:0.16, T:0.22
Consensus pattern (28 bp):
TCGCACACATAGTGCTCAATTACAAATC
Found at i:38998414 original size:57 final size:57
Alignment explanation
Indices: 38998260--38998448 Score: 220
Period size: 57 Copynumber: 3.3 Consensus size: 57
38998250 GAAACACACT
* * * * *
38998260 TCGCATACACAGTGCC-C-ACTGACTGATTTCGCACACATAGCGCTCAATTAAAGAAC
1 TCGCACACACAGTGCCTCAACT-ACTGATCTCGCACACATAGTGCTCGATTGAAGAAC
* * * **
38998316 TCGCACACATAGTGACTCAATTACCAATCTCGCACACATAGTGCTCGATTGAAGAAC
1 TCGCACACACAGTGCCTCAACTACTGATCTCGCACACATAGTGCTCGATTGAAGAAC
* * * *
38998373 TCGCACACATAGTGCCTCAACTACTGATCTGGCACACATAGTACTCGGTTGAAGAAC
1 TCGCACACACAGTGCCTCAACTACTGATCTCGCACACATAGTGCTCGATTGAAGAAC
*
38998430 TTGCACACACAGTGCCTCA
1 TCGCACACACAGTGCCTCA
38998449 TAACTCCAGC
Statistics
Matches: 112, Mismatches: 19, Indels: 3
0.84 0.14 0.02
Matches are distributed among these distances:
56 13 0.12
57 97 0.87
58 2 0.02
ACGTcount: A:0.31, C:0.30, G:0.17, T:0.22
Consensus pattern (57 bp):
TCGCACACACAGTGCCTCAACTACTGATCTCGCACACATAGTGCTCGATTGAAGAAC
Found at i:38998520 original size:40 final size:40
Alignment explanation
Indices: 38998476--38998807 Score: 592
Period size: 40 Copynumber: 8.3 Consensus size: 40
38998466 CCTTCGAGGT
*
38998476 TTAGCCCGGATATATCACTAGCACGAATGCTCTTCGGAAC
1 TTAGCCCGGATACATCACTAGCACGAATGCTCTTCGGAAC
* *
38998516 TTAGCCCGGATACATTACTAGCATGAATGCTCTTCGGAAC
1 TTAGCCCGGATACATCACTAGCACGAATGCTCTTCGGAAC
* *
38998556 ATAGCCCGGATACATTACTAGCACGAATGCTCTTCGGAAC
1 TTAGCCCGGATACATCACTAGCACGAATGCTCTTCGGAAC
38998596 TTAGCCCGGATACATCACTAGCACGAATGCTCTTCGGAAC
1 TTAGCCCGGATACATCACTAGCACGAATGCTCTTCGGAAC
38998636 TTAGCCCGGATACATCACTAGCACGAATGCTCTTCGGAAC
1 TTAGCCCGGATACATCACTAGCACGAATGCTCTTCGGAAC
38998676 TTAGCCCGGATACATCACTAGCACGAATGCTCTTCGGAAC
1 TTAGCCCGGATACATCACTAGCACGAATGCTCTTCGGAAC
* *
38998716 TTAGCCCGGATTCATCACTAGCACGAATGCTCTTTGGAAC
1 TTAGCCCGGATACATCACTAGCACGAATGCTCTTCGGAAC
*
38998756 TTAGCCCGGATACATCACTAGCACGAATGCTCTTCGGGAC
1 TTAGCCCGGATACATCACTAGCACGAATGCTCTTCGGAAC
38998796 TTAGCCCGGATA
1 TTAGCCCGGATA
38998808 TATATAACTC
Statistics
Matches: 280, Mismatches: 12, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
40 280 1.00
ACGTcount: A:0.27, C:0.28, G:0.20, T:0.24
Consensus pattern (40 bp):
TTAGCCCGGATACATCACTAGCACGAATGCTCTTCGGAAC
Found at i:39016826 original size:55 final size:56
Alignment explanation
Indices: 39016708--39016831 Score: 137
Period size: 55 Copynumber: 2.3 Consensus size: 56
39016698 GACATGGCCG
* * * *
39016708 TGGTCGATCCTGCT-AAACAACACGGGCGTGCGACACGCCCGTGTGGAAGAACCAT
1 TGGTCGAACCTGTTAAAACAACACGGGAGTGCGACACGCCCGTGTGCAAGAACCAT
* * * * * *
39016763 GGGT-GAACCTGTTAAAACAGCACGGGAGTGTGACACGCCCGTGT-CTAGCACCCT
1 TGGTCGAACCTGTTAAAACAACACGGGAGTGCGACACGCCCGTGTGCAAGAACCAT
39016817 TGGTCGAACCTGTTA
1 TGGTCGAACCTGTTA
39016832 GATTGACATG
Statistics
Matches: 56, Mismatches: 11, Indels: 4
0.79 0.15 0.06
Matches are distributed among these distances:
54 16 0.29
55 40 0.71
ACGTcount: A:0.24, C:0.27, G:0.29, T:0.19
Consensus pattern (56 bp):
TGGTCGAACCTGTTAAAACAACACGGGAGTGCGACACGCCCGTGTGCAAGAACCAT
Found at i:39030447 original size:20 final size:21
Alignment explanation
Indices: 39030406--39030451 Score: 60
Period size: 20 Copynumber: 2.3 Consensus size: 21
39030396 AGCACATGTA
* *
39030406 TTCA-TAAAATTTTAGAATTT
1 TTCATTAAAATTTTACAACTT
39030426 TTCATTAAAATTTT-CAACTT
1 TTCATTAAAATTTTACAACTT
39030446 TTCATT
1 TTCATT
39030452 TTAGTCCCTA
Statistics
Matches: 23, Mismatches: 2, Indels: 2
0.85 0.07 0.07
Matches are distributed among these distances:
20 14 0.61
21 9 0.39
ACGTcount: A:0.35, C:0.11, G:0.02, T:0.52
Consensus pattern (21 bp):
TTCATTAAAATTTTACAACTT
Found at i:39036293 original size:32 final size:32
Alignment explanation
Indices: 39036247--39036320 Score: 130
Period size: 32 Copynumber: 2.3 Consensus size: 32
39036237 CATGTAACCG
* *
39036247 AATGGTTATTAGGAGTTAAGTTGAGATAGTGA
1 AATGGTTATGAGGAGTTAAGCTGAGATAGTGA
39036279 AATGGTTATGAGGAGTTAAGCTGAGATAGTGA
1 AATGGTTATGAGGAGTTAAGCTGAGATAGTGA
39036311 AATGGTTATG
1 AATGGTTATG
39036321 TGTTCTTGTG
Statistics
Matches: 40, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
32 40 1.00
ACGTcount: A:0.34, C:0.01, G:0.32, T:0.32
Consensus pattern (32 bp):
AATGGTTATGAGGAGTTAAGCTGAGATAGTGA
Found at i:39036508 original size:38 final size:38
Alignment explanation
Indices: 39036466--39036656 Score: 202
Period size: 38 Copynumber: 5.0 Consensus size: 38
39036456 AGCACTCGAT
* *
39036466 ATATATCCGGGTTAAGTCCCGCATGCTTCGTGCTGGTA
1 ATATATCCGGGTTAAATCCCGCAGGCTTCGTGCTGGTA
* * * *
39036504 ATATATCCGGGTTAAGTCCCTCAAGCTTCGTGCTAGTA
1 ATATATCCGGGTTAAATCCCGCAGGCTTCGTGCTGGTA
**
39036542 ATATATCCATGTTAAATCCCGCAGGCTTCGTGCTGGTA
1 ATATATCCGGGTTAAATCCCGCAGGCTTCGTGCTGGTA
* * * *
39036580 ACATATCCGGGTTAAATCCCACAGGCTTAGTACTGGTA
1 ATATATCCGGGTTAAATCCCGCAGGCTTCGTGCTGGTA
* * * * * *
39036618 TTATATCTGAGCTTAAAGTCTCGCAGGCTTTGTACTGGT
1 ATATATCCG-GGTTAAA-TCCCGCAGGCTTCGTGCTGGT
39036657 GACTGGATTC
Statistics
Matches: 129, Mismatches: 22, Indels: 2
0.84 0.14 0.01
Matches are distributed among these distances:
38 105 0.81
39 6 0.05
40 18 0.14
ACGTcount: A:0.23, C:0.23, G:0.23, T:0.32
Consensus pattern (38 bp):
ATATATCCGGGTTAAATCCCGCAGGCTTCGTGCTGGTA
Found at i:39036956 original size:5 final size:5
Alignment explanation
Indices: 39036946--39036972 Score: 54
Period size: 5 Copynumber: 5.4 Consensus size: 5
39036936 GTATGAGCTA
39036946 TAAAG TAAAG TAAAG TAAAG TAAAG TA
1 TAAAG TAAAG TAAAG TAAAG TAAAG TA
39036973 TGTGCTGAAA
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 22 1.00
ACGTcount: A:0.59, C:0.00, G:0.19, T:0.22
Consensus pattern (5 bp):
TAAAG
Found at i:39042178 original size:26 final size:26
Alignment explanation
Indices: 39042118--39042179 Score: 97
Period size: 26 Copynumber: 2.4 Consensus size: 26
39042108 ACATTTGACA
**
39042118 AATAATTTGGGTACTATTATTTTACT
1 AATAATTTTTGTACTATTATTTTACT
39042144 AATAATTTTTGTACTATTATTTTACT
1 AATAATTTTTGTACTATTATTTTACT
*
39042170 AATATTTTTT
1 AATAATTTTT
39042180 TTTAGTTTTT
Statistics
Matches: 33, Mismatches: 3, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
26 33 1.00
ACGTcount: A:0.31, C:0.06, G:0.06, T:0.56
Consensus pattern (26 bp):
AATAATTTTTGTACTATTATTTTACT
Found at i:39051916 original size:47 final size:47
Alignment explanation
Indices: 39051853--39052311 Score: 812
Period size: 47 Copynumber: 9.7 Consensus size: 47
39051843 ATGATAGTAT
39051853 GGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGATAA
1 GGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGATAA
*
39051900 GGCCTAATGGCCGATGTGATGAATGTTAAAGTGTATATATGTG-TAA
1 GGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGATAA
*
39051946 TGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGATAA
1 GGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGATAA
39051993 GGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGATAA
1 GGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGATAA
39052040 GGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGATAA
1 GGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGATAA
*
39052087 TGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGATAA
1 GGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGATAA
*
39052134 GGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGATAG
1 GGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGATAA
*
39052181 GGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATATGTGATAG
1 GGCCTAATGGCCGATGTGATGAATGTGAAAGTG--TATATATGTGATAA
*
39052230 GGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATATGTGATAG
1 GGCCTAATGGCCGATGTGATGAATGTGAAAGTG--TATATATGTGATAA
39052279 GGCCTAATGGCCGATGTGATGAATGTGATAAGT
1 GGCCTAATGGCCGATGTGATGAATGTGA-AAGT
39052312 CCCAAAGGGC
Statistics
Matches: 401, Mismatches: 7, Indels: 5
0.97 0.02 0.01
Matches are distributed among these distances:
46 44 0.11
47 262 0.65
49 91 0.23
50 4 0.01
ACGTcount: A:0.31, C:0.09, G:0.30, T:0.31
Consensus pattern (47 bp):
GGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGATAA
Found at i:39052485 original size:37 final size:37
Alignment explanation
Indices: 39052429--39052507 Score: 113
Period size: 37 Copynumber: 2.1 Consensus size: 37
39052419 CCGAGCTCTA
* * * *
39052429 AAGACCCGATGACTACGTGTGGGGATTTTGTCCGGGT
1 AAGACCCGATAACTACGTGTGGAGATTATGTCCGGAT
*
39052466 AAGACCCGATAACTTCGTGTGGAGATTATGTCCGGAT
1 AAGACCCGATAACTACGTGTGGAGATTATGTCCGGAT
39052503 AAGAC
1 AAGAC
39052508 TTTGTAATAA
Statistics
Matches: 37, Mismatches: 5, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
37 37 1.00
ACGTcount: A:0.25, C:0.19, G:0.30, T:0.25
Consensus pattern (37 bp):
AAGACCCGATAACTACGTGTGGAGATTATGTCCGGAT
Found at i:39054433 original size:29 final size:29
Alignment explanation
Indices: 39054400--39054469 Score: 97
Period size: 29 Copynumber: 2.4 Consensus size: 29
39054390 GTTGTGAGAT
* *
39054400 TGGCACTAAGTGTGCGGGCTTGAAA-TGCA
1 TGGCACTAAGTGTGCGAG-TTGAAAGTACA
*
39054429 TGGCACTAAGTGTGCGAGTTTAAAGTACA
1 TGGCACTAAGTGTGCGAGTTGAAAGTACA
39054458 TGGCACTAAGTG
1 TGGCACTAAGTG
39054470 CGCGTGGTTG
Statistics
Matches: 37, Mismatches: 3, Indels: 2
0.88 0.07 0.05
Matches are distributed among these distances:
28 5 0.14
29 32 0.86
ACGTcount: A:0.27, C:0.16, G:0.31, T:0.26
Consensus pattern (29 bp):
TGGCACTAAGTGTGCGAGTTGAAAGTACA
Found at i:39054910 original size:40 final size:40
Alignment explanation
Indices: 39054782--39055137 Score: 369
Period size: 40 Copynumber: 8.9 Consensus size: 40
39054772 TCGAATGATG
** *
39054782 TCCGGGCTAAGTCCCGAAG-GC-TTTGTGCTAAGTGACCATA
1 TCCGGGCTAAGTCCCGAAGAGCATTCATGCT-AGTGA-TATA
* ** * * *
39054822 TCCGGACTAAGAT-CCGAAG-GCATTGGTGCGAGTTACTAAA
1 TCCGGGCTAAG-TCCCGAAGAGCATTCATGCTAGTGA-TATA
* * *
39054862 TCCAGGCTAAGTCCCGAAGAGCATTCATGCTAGCGATGTA
1 TCCGGGCTAAGTCCCGAAGAGCATTCATGCTAGTGATATA
*
39054902 TCCGGGCTAAGTCCCGAAGAGCATTCATGCTAGTGATGTA
1 TCCGGGCTAAGTCCCGAAGAGCATTCATGCTAGTGATATA
*
39054942 TCCGGGCTAAGTTCCGAAGAGCATTCATGCTAGTGATATA
1 TCCGGGCTAAGTCCCGAAGAGCATTCATGCTAGTGATATA
* * *
39054982 TCCGGGCTAAGTCCCGAGGAGCATTCGTGCTAGTGATGTA
1 TCCGGGCTAAGTCCCGAAGAGCATTCATGCTAGTGATATA
* *
39055022 TCCGGGCTAAGTTCCGAAGAGCATTCGTGCTAGTGATATA
1 TCCGGGCTAAGTCCCGAAGAGCATTCATGCTAGTGATATA
* ** * * * *
39055062 TCCGTGCTAAACCCCAAAGAGCATTCGTGCTGGTGTTATA
1 TCCGGGCTAAGTCCCGAAGAGCATTCATGCTAGTGATATA
* * * * *
39055102 TCCGGGCTAGGTCCCAAAGAGTAATCATGCTGGTGA
1 TCCGGGCTAAGTCCCGAAGAGCATTCATGCTAGTGA
39055138 CGTGTATTCG
Statistics
Matches: 271, Mismatches: 41, Indels: 8
0.85 0.13 0.03
Matches are distributed among these distances:
39 1 0.00
40 252 0.93
41 18 0.07
ACGTcount: A:0.25, C:0.22, G:0.27, T:0.25
Consensus pattern (40 bp):
TCCGGGCTAAGTCCCGAAGAGCATTCATGCTAGTGATATA
Found at i:39054995 original size:120 final size:120
Alignment explanation
Indices: 39054782--39055132 Score: 413
Period size: 120 Copynumber: 2.9 Consensus size: 120
39054772 TCGAATGATG
* * *
39054782 TCCGGGCTAAGTCCCGAAG-GC-TTTGTGCTAAGTGACCATATCCGGACTAAGATCCGAAG-GCA
1 TCCGGGCTAAGTCCCGAAGAGCATTCGTGCT-AGTGA-TATATCCGGGCTAAGATCCGAAGAGCA
* * * * *
39054844 TTGGTGCGAGTTACTAAATCCAGGCTAAGTCCCGAAGAGCATTCATGCTAGCGATGTA
64 TTCGTGCTAGTGA-TATATCCGGGCTAAGTCCCGAAGAGCATTCATGCTAGCGATGTA
* * *
39054902 TCCGGGCTAAGTCCCGAAGAGCATTCATGCTAGTGATGTATCCGGGCTAAGTTCCGAAGAGCATT
1 TCCGGGCTAAGTCCCGAAGAGCATTCGTGCTAGTGATATATCCGGGCTAAGATCCGAAGAGCATT
* * * *
39054967 CATGCTAGTGATATATCCGGGCTAAGTCCCGAGGAGCATTCGTGCTAGTGATGTA
66 CGTGCTAGTGATATATCCGGGCTAAGTCCCGAAGAGCATTCATGCTAGCGATGTA
* * * *
39055022 TCCGGGCTAAGTTCCGAAGAGCATTCGTGCTAGTGATATATCCGTGCTAA-ACCCCAAAGAGCAT
1 TCCGGGCTAAGTCCCGAAGAGCATTCGTGCTAGTGATATATCCGGGCTAAGA-TCCGAAGAGCAT
* * * * * *
39055086 TCGTGCTGGTGTTATATCCGGGCTAGGTCCCAAAGAGTAATCATGCT
65 TCGTGCTAGTGATATATCCGGGCTAAGTCCCGAAGAGCATTCATGCT
39055133 GGTGACGTGT
Statistics
Matches: 196, Mismatches: 31, Indels: 8
0.83 0.13 0.03
Matches are distributed among these distances:
120 171 0.87
121 19 0.10
122 6 0.03
ACGTcount: A:0.25, C:0.23, G:0.27, T:0.25
Consensus pattern (120 bp):
TCCGGGCTAAGTCCCGAAGAGCATTCGTGCTAGTGATATATCCGGGCTAAGATCCGAAGAGCATT
CGTGCTAGTGATATATCCGGGCTAAGTCCCGAAGAGCATTCATGCTAGCGATGTA
Found at i:39058693 original size:47 final size:47
Alignment explanation
Indices: 39058630--39058899 Score: 486
Period size: 47 Copynumber: 5.7 Consensus size: 47
39058620 ATGATAGTAT
39058630 GGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGATAA
1 GGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGATAA
*
39058677 GGCCTAATGGCCGATGTGATGAATGTGAAAGTCTATATATGTGATAA
1 GGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGATAA
* * *
39058724 TGCCGAATGGCCGATGTGATAAATGTGAAAGTGTATATATGTGATAA
1 GGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGATAA
*
39058771 TGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGATAA
1 GGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGATAA
39058818 GGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGATAA
1 GGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGATAA
*
39058865 TGCCTAATGGCCGATGTGATGAATGTGAAAGTGTA
1 GGCCTAATGGCCGATGTGATGAATGTGAAAGTGTA
39058900 GCCTAATGCG
Statistics
Matches: 214, Mismatches: 9, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
47 214 1.00
ACGTcount: A:0.32, C:0.09, G:0.29, T:0.30
Consensus pattern (47 bp):
GGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGATAA
Found at i:39058796 original size:94 final size:94
Alignment explanation
Indices: 39058630--39059156 Score: 529
Period size: 94 Copynumber: 5.3 Consensus size: 94
39058620 ATGATAGTAT
* *
39058630 GGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTG
1 GGCCGAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGATAATGCCTAATGGCCGATGTG
39058695 ATGAATGTGAAAGTCTATATATGTGATAA
66 ATGAATGTGAAAGTCTATATATGTGATAA
* *
39058724 TGCCGAATGGCCGATGTGATAAATGTGAAAGTGTATATATGTGATAATGCCTAATGGCCGATGTG
1 GGCCGAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGATAATGCCTAATGGCCGATGTG
*
39058789 ATGAATGTGAAAGTGTATATATGTGATAA
66 ATGAATGTGAAAGTCTATATATGTGATAA
*
39058818 GGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGATAATGCCTAATGGCCGATGTG
1 GGCCGAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGATAATGCCTAATGGCCGATGTG
*
39058883 ATGAATGTGAAAGTGTAGCCTAATGCGATGTGATGTGAA
66 ATGAATGTGAAAGTCTA---T-AT---ATGTGA--T-AA
* *** * * ** *
39058922 TGTATATTGTATGCCTAATG-GCCG-ATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCT
1 GGCCGAATG---GCC-GATGTGATGAATGT---------GAAAGTGTATATATGTGATAATGCCT
* * * *
39058985 AATGGCTGATATGATGAATGTGAAAGTGTATATATGAGAT-A
53 AATGGCCGATGTGATGAATGTGAAAGTCTATATATGTGATAA
* * ** *
39059026 GGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATATGTGGTAGGGCCTAATGGCAGATG
1 GGCCGAATGGCCGATGTGATGAATGTGAAAGTG--TATATATGTGATAATGCCTAATGGCCGATG
* *
39059091 TGATGAATGTGAAAGTGTATATATATGTGATAG
64 TGATGAATGTGAAA--GTCTATATATGTGATAA
*
39059124 GGCCTAATGGCCGATGTGATGAATGTGATAAGT
1 GGCCGAATGGCCGATGTGATGAATGTGA-AAGT
39059157 CCCGAAGGGC
Statistics
Matches: 369, Mismatches: 33, Indels: 57
0.80 0.07 0.12
Matches are distributed among these distances:
93 7 0.02
94 168 0.46
95 40 0.11
97 14 0.04
98 30 0.08
99 4 0.01
100 3 0.01
101 11 0.03
102 4 0.01
103 1 0.00
104 13 0.04
106 5 0.01
107 5 0.01
108 8 0.02
111 2 0.01
112 1 0.00
115 53 0.14
ACGTcount: A:0.31, C:0.09, G:0.29, T:0.31
Consensus pattern (94 bp):
GGCCGAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGATAATGCCTAATGGCCGATGTG
ATGAATGTGAAAGTCTATATATGTGATAA
Found at i:39058890 original size:141 final size:141
Alignment explanation
Indices: 39058631--39059156 Score: 521
Period size: 141 Copynumber: 3.6 Consensus size: 141
39058621 TGATAGTATG
39058631 GCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGA
1 GCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGA
* * *
39058696 TGAATGTGAAAGTCTATATATGTGATAATGCCGAATGGCCGATGTGATAAATGTGAAAGTGTATA
66 TGAATGTGAAAGTGTATATATGTGATAATGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATA
39058761 TATGTGATAAT
131 TATGTGATAAT
39058772 GCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGA
1 GCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGA
39058837 TGAATGTGAAAGTGTATATATGTGATAATGCCTAATGGCCGATGTGATGAATGTGAAAGTGTAGC
66 TGAATGTGAAAGTGTATATATGTGATAATGCCTAATGGCCGATGTGATGAATGTGAAAGTGTA--
39058902 CTAATGCGATGTGATGTGAAT
129 -T-AT---ATGTGA--T-AAT
** * * ** *
39058923 GTATATTGTATGCCTAATG-GCCG-ATGTGATGAA-TGTGA-A-A-GTGTATATATGTG-ATAA-
1 GCCTAATG---GCC-GATGTGATGAATGTGA--AAGTGT-ATATATGTG-ATA-A-G-GCCTAAT
* * *
39058980 GGCCTAATGGCTGATATGATGAATGTGAAAGTGTATATATGAGAT-AGGCCTAATGGCCGATGTG
55 GG-C------C-GATGTGATGAATGTGAAAGTGTATATATGTGATAATGCCTAATGGCCGATGTG
* **
39059044 ATGAATGTGAAAGTGTATATATATGTGGTAGG
112 ATGAATGTGAAAGTG--TATATATGTGATAAT
* *
39059076 GCCTAATGGCAGATGTGATGAATGTGAAAGTGTATATATATGTGATAGGGCCTAATGGCCGATGT
1 GCCTAATGGCCGATGTGATGAATGTGAAAGTG--TATATATGTGATAAGGCCTAATGGCCGATGT
39059141 GATGAATGTGATAAGT
64 GATGAATGTGA-AAGT
39059157 CCCGAAGGGC
Statistics
Matches: 317, Mismatches: 26, Indels: 80
0.75 0.06 0.19
Matches are distributed among these distances:
141 125 0.39
144 16 0.05
145 7 0.02
148 6 0.02
149 5 0.02
150 8 0.03
151 20 0.06
152 7 0.02
153 20 0.06
154 16 0.05
155 11 0.03
156 6 0.02
159 2 0.01
160 1 0.00
161 34 0.11
162 31 0.10
163 2 0.01
ACGTcount: A:0.31, C:0.09, G:0.29, T:0.31
Consensus pattern (141 bp):
GCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGA
TGAATGTGAAAGTGTATATATGTGATAATGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATA
TATGTGATAAT
Found at i:39058905 original size:34 final size:35
Alignment explanation
Indices: 39058864--39058968 Score: 146
Period size: 34 Copynumber: 3.1 Consensus size: 35
39058854 ATATGTGATA
39058864 ATGCCTAATGGCCGATGTGATGAATGTGAAAGTGT
1 ATGCCTAATGGCCGATGTGATGAATGTGAAAGTGT
* *
39058899 A-GCCTAAT-G-CGATGTGATGTGAATGT-ATATTGT
1 ATGCCTAATGGCCGATGTGA--TGAATGTGAAAGTGT
39058932 ATGCCTAATGGCCGATGTGATGAATGTGAAAGTGT
1 ATGCCTAATGGCCGATGTGATGAATGTGAAAGTGT
39058967 AT
1 AT
39058969 ATATGTGATA
Statistics
Matches: 60, Mismatches: 4, Indels: 12
0.79 0.05 0.16
Matches are distributed among these distances:
32 8 0.13
33 7 0.12
34 28 0.47
35 9 0.15
36 8 0.13
ACGTcount: A:0.29, C:0.10, G:0.30, T:0.31
Consensus pattern (35 bp):
ATGCCTAATGGCCGATGTGATGAATGTGAAAGTGT
Found at i:39058948 original size:162 final size:161
Alignment explanation
Indices: 39058770--39059060 Score: 537
Period size: 162 Copynumber: 1.8 Consensus size: 161
39058760 ATATGTGATA
*
39058770 ATGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGT
1 ATGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATAT
* *
39058835 GATGAATGTGAAAGTGTATATATGTGATAATGCCTAATGGCCGATGTGATGAATGTGAAAGTGTA
66 GATGAATGTGAAAGTGTATATATGAGAT-AGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTA
39058900 GCCTAATGCGATGTGATGTGAATGTATATTGT
130 GCCTAATGCGATGTGATGTGAATGTATATTGT
*
39058932 ATGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCTGATAT
1 ATGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATAT
39058997 GATGAATGTGAAAGTGTATATATGAGATAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTA
66 GATGAATGTGAAAGTGTATATATGAGATAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTA
39059061 TATATATGTG
Statistics
Matches: 125, Mismatches: 4, Indels: 1
0.96 0.03 0.01
Matches are distributed among these distances:
161 35 0.28
162 90 0.72
ACGTcount: A:0.31, C:0.09, G:0.29, T:0.31
Consensus pattern (161 bp):
ATGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATAT
GATGAATGTGAAAGTGTATATATGAGATAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTAG
CCTAATGCGATGTGATGTGAATGTATATTGT
Found at i:39059031 original size:93 final size:96
Alignment explanation
Indices: 39058934--39059156 Score: 353
Period size: 95 Copynumber: 2.3 Consensus size: 96
39058924 TATATTGTAT
*
39058934 GCCTAATGGCCGATGTGATGAATGTGAAAGTG-TATATATGTGATAAGGCCTAATGGCTGATATG
1 GCCTAATGGCCGATGTGATGAATGTGAAAGTGATATATATGTGATAAGGCCTAATGGCAGATATG
39058998 ATGAATGTGAAAGTG-TATATATGAGATA-G
66 ATGAATGTGAAAGTGATATATATGAGATAGG
* * *
39059027 GCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATATGTGGTAGGGCCTAATGGCAGATGT
1 GCCTAATGGCCGATGTGATGAATGTGAAAGTG-ATATATATGTGATAAGGCCTAATGGCAGATAT
*
39059092 GATGAATGTGAAAGTGTATATATATGTGATAGG
65 GATGAATGTGAAAGTG-ATATATATGAGATAGG
39059125 GCCTAATGGCCGATGTGATGAATGTGATAAGT
1 GCCTAATGGCCGATGTGATGAATGTGA-AAGT
39059157 CCCGAAGGGC
Statistics
Matches: 119, Mismatches: 5, Indels: 6
0.92 0.04 0.05
Matches are distributed among these distances:
93 32 0.27
95 43 0.36
97 12 0.10
98 28 0.24
99 4 0.03
ACGTcount: A:0.31, C:0.08, G:0.30, T:0.30
Consensus pattern (96 bp):
GCCTAATGGCCGATGTGATGAATGTGAAAGTGATATATATGTGATAAGGCCTAATGGCAGATATG
ATGAATGTGAAAGTGATATATATGAGATAGG
Found at i:39059098 original size:49 final size:47
Alignment explanation
Indices: 39058934--39059156 Score: 340
Period size: 49 Copynumber: 4.7 Consensus size: 47
39058924 TATATTGTAT
*
39058934 GCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGATAAG
1 GCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGATAGG
* * *
39058981 GCCTAATGGCTGATATGATGAATGTGAAAGTGTATATATGAGATA-G
1 GCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGATAGG
*
39059027 GCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATATGTGGTAGG
1 GCCTAATGGCCGATGTGATGAATGTGAAAGTG--TATATATGTGATAGG
*
39059076 GCCTAATGGCAGATGTGATGAATGTGAAAGTGTATATATATGTGATAGG
1 GCCTAATGGCCGATGTGATGAATGTGAAAGTG--TATATATGTGATAGG
39059125 GCCTAATGGCCGATGTGATGAATGTGATAAGT
1 GCCTAATGGCCGATGTGATGAATGTGA-AAGT
39059157 CCCGAAGGGC
Statistics
Matches: 162, Mismatches: 10, Indels: 5
0.92 0.06 0.03
Matches are distributed among these distances:
46 31 0.19
47 42 0.26
48 11 0.07
49 74 0.46
50 4 0.02
ACGTcount: A:0.31, C:0.08, G:0.30, T:0.30
Consensus pattern (47 bp):
GCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGATAGG
Found at i:39059330 original size:37 final size:37
Alignment explanation
Indices: 39059274--39059352 Score: 113
Period size: 37 Copynumber: 2.1 Consensus size: 37
39059264 CCGAGCTCTA
* * * *
39059274 AAGACCCGATGACTACGTGTGGGGATTTTGTCCGGGT
1 AAGACCCGATAACTACGTGTGGAGATTATGTCCGGAT
*
39059311 AAGACCCGATAACTTCGTGTGGAGATTATGTCCGGAT
1 AAGACCCGATAACTACGTGTGGAGATTATGTCCGGAT
39059348 AAGAC
1 AAGAC
39059353 TTCGTAATAA
Statistics
Matches: 37, Mismatches: 5, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
37 37 1.00
ACGTcount: A:0.25, C:0.19, G:0.30, T:0.25
Consensus pattern (37 bp):
AAGACCCGATAACTACGTGTGGAGATTATGTCCGGAT
Found at i:39061862 original size:29 final size:29
Alignment explanation
Indices: 39061828--39061923 Score: 72
Period size: 29 Copynumber: 3.2 Consensus size: 29
39061818 TTATGCTTGT
39061828 TGTGGTCGTTTGATGGATGTGTGATGAGA
1 TGTGGTCGTTTGATGGATGTGTGATGAGA
* * * * *
39061857 TGTGGT--TAAT-ATGCAAATGTGTTTATGCTTGT
1 TGTGGTCGT-TTGATG--GATGTG-TGATG--AGA
39061889 TGTGGTCGTTTGATGGATGTGTGATGAGA
1 TGTGGTCGTTTGATGGATGTGTGATGAGA
39061918 TGTGGT
1 TGTGGT
39061924 TAACATGCTA
Statistics
Matches: 48, Mismatches: 10, Indels: 18
0.63 0.13 0.24
Matches are distributed among these distances:
27 4 0.08
28 1 0.02
29 18 0.38
30 4 0.08
31 4 0.08
32 12 0.25
33 1 0.02
34 4 0.08
ACGTcount: A:0.18, C:0.04, G:0.36, T:0.42
Consensus pattern (29 bp):
TGTGGTCGTTTGATGGATGTGTGATGAGA
Found at i:39061900 original size:61 final size:61
Alignment explanation
Indices: 39061805--39061931 Score: 245
Period size: 61 Copynumber: 2.1 Consensus size: 61
39061795 ATTATGCACG
39061805 TATGCAAATGTGTTTATGCTTGTTGTGGTCGTTTGATGGATGTGTGATGAGATGTGGTTAA
1 TATGCAAATGTGTTTATGCTTGTTGTGGTCGTTTGATGGATGTGTGATGAGATGTGGTTAA
39061866 TATGCAAATGTGTTTATGCTTGTTGTGGTCGTTTGATGGATGTGTGATGAGATGTGGTTAA
1 TATGCAAATGTGTTTATGCTTGTTGTGGTCGTTTGATGGATGTGTGATGAGATGTGGTTAA
*
39061927 CATGC
1 TATGC
39061932 TAAAGATATG
Statistics
Matches: 65, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
61 65 1.00
ACGTcount: A:0.20, C:0.06, G:0.32, T:0.42
Consensus pattern (61 bp):
TATGCAAATGTGTTTATGCTTGTTGTGGTCGTTTGATGGATGTGTGATGAGATGTGGTTAA
Found at i:39061909 original size:32 final size:32
Alignment explanation
Indices: 39061812--39061910 Score: 84
Period size: 32 Copynumber: 3.2 Consensus size: 32
39061802 ACGTATGCAA
39061812 ATGTGTTTATGCTTGTTGTGGTCGTTTGATGG
1 ATGTGTTTATGCTTGTTGTGGTCGTTTGATGG
* * * * *
39061844 ATGTG-TGATG--AGATGTGGT--TAAT-ATGCAA
1 ATGTGTTTATGCTTGTTGTGGTCGT-TTGATG--G
39061873 ATGTGTTTATGCTTGTTGTGGTCGTTTGATGG
1 ATGTGTTTATGCTTGTTGTGGTCGTTTGATGG
39061905 ATGTGT
1 ATGTGT
39061911 GATGAGATGT
Statistics
Matches: 48, Mismatches: 10, Indels: 18
0.63 0.13 0.24
Matches are distributed among these distances:
27 4 0.08
28 1 0.02
29 12 0.25
30 4 0.08
31 4 0.08
32 18 0.38
33 1 0.02
34 4 0.08
ACGTcount: A:0.16, C:0.05, G:0.33, T:0.45
Consensus pattern (32 bp):
ATGTGTTTATGCTTGTTGTGGTCGTTTGATGG
Found at i:39064016 original size:24 final size:24
Alignment explanation
Indices: 39063964--39064084 Score: 181
Period size: 24 Copynumber: 5.0 Consensus size: 24
39063954 ACTTTATCAT
*
39063964 ATAACTGGAGGCCT-AGCCTCTTTTA
1 ATAACTGG-GGCATAAGCC-CTTTTA
* *
39063989 ATAACTGGGGCAAAAGCCCTTTTG
1 ATAACTGGGGCATAAGCCCTTTTA
39064013 ATAACTGGGGCATAAGCCCTTTTA
1 ATAACTGGGGCATAAGCCCTTTTA
39064037 ATAACTGGGGCATAAGCCCTTTTTA
1 ATAACTGGGGCATAAGCCC-TTTTA
39064062 ATAACTGGGGCATAAGCCCTTTT
1 ATAACTGGGGCATAAGCCCTTTT
39064085 GCACTTCCTC
Statistics
Matches: 89, Mismatches: 5, Indels: 5
0.90 0.05 0.05
Matches are distributed among these distances:
24 53 0.60
25 36 0.40
ACGTcount: A:0.27, C:0.21, G:0.21, T:0.30
Consensus pattern (24 bp):
ATAACTGGGGCATAAGCCCTTTTA
Found at i:39064067 original size:49 final size:48
Alignment explanation
Indices: 39063964--39064084 Score: 181
Period size: 49 Copynumber: 2.5 Consensus size: 48
39063954 ACTTTATCAT
* *
39063964 ATAACTGGAGGCCT-AGCCTCTTTTAATAACTGGGGCAAAAGCCCTTTTG
1 ATAACTGG-GGCATAAGCC-CTTTTAATAACTGGGGCAAAAGCCCTTTTA
*
39064013 ATAACTGGGGCATAAGCCCTTTTAATAACTGGGGCATAAGCCCTTTTTA
1 ATAACTGGGGCATAAGCCCTTTTAATAACTGGGGCAAAAGCCC-TTTTA
39064062 ATAACTGGGGCATAAGCCCTTTT
1 ATAACTGGGGCATAAGCCCTTTT
39064085 GCACTTCCTC
Statistics
Matches: 67, Mismatches: 3, Indels: 4
0.91 0.04 0.05
Matches are distributed among these distances:
48 28 0.42
49 39 0.58
ACGTcount: A:0.27, C:0.21, G:0.21, T:0.30
Consensus pattern (48 bp):
ATAACTGGGGCATAAGCCCTTTTAATAACTGGGGCAAAAGCCCTTTTA
Found at i:39064159 original size:20 final size:20
Alignment explanation
Indices: 39064134--39064200 Score: 116
Period size: 20 Copynumber: 3.4 Consensus size: 20
39064124 TTATGAATAC
39064134 ATCATGTGCATATCATACAT
1 ATCATGTGCATATCATACAT
39064154 ATCATGTGCATATCATACAT
1 ATCATGTGCATATCATACAT
*
39064174 GTCATGTGCATATCATACAT
1 ATCATGTGCATATCATACAT
*
39064194 ACCATGT
1 ATCATGT
39064201 TTATCAGAAT
Statistics
Matches: 44, Mismatches: 3, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
20 44 1.00
ACGTcount: A:0.33, C:0.21, G:0.12, T:0.34
Consensus pattern (20 bp):
ATCATGTGCATATCATACAT
Found at i:39064165 original size:11 final size:11
Alignment explanation
Indices: 39064134--39064189 Score: 57
Period size: 11 Copynumber: 5.5 Consensus size: 11
39064124 TTATGAATAC
39064134 ATCATGTGCAT
1 ATCATGTGCAT
*
39064145 ATCA--TACAT
1 ATCATGTGCAT
39064154 ATCATGTGCAT
1 ATCATGTGCAT
*
39064165 ATCA--TACAT
1 ATCATGTGCAT
*
39064174 GTCATGTGCAT
1 ATCATGTGCAT
39064185 ATCAT
1 ATCAT
39064190 ACATACCATG
Statistics
Matches: 35, Mismatches: 6, Indels: 8
0.71 0.12 0.16
Matches are distributed among these distances:
9 15 0.43
11 20 0.57
ACGTcount: A:0.32, C:0.20, G:0.12, T:0.36
Consensus pattern (11 bp):
ATCATGTGCAT
Found at i:39064269 original size:25 final size:25
Alignment explanation
Indices: 39064237--39064284 Score: 69
Period size: 25 Copynumber: 1.9 Consensus size: 25
39064227 ATATATAAAC
* * *
39064237 CCTAGGGGTATAATGGTCATTTTTA
1 CCTAGGGGCAAAACGGTCATTTTTA
39064262 CCTAGGGGCAAAACGGTCATTTT
1 CCTAGGGGCAAAACGGTCATTTT
39064285 CATGTTATAA
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
25 20 1.00
ACGTcount: A:0.25, C:0.17, G:0.25, T:0.33
Consensus pattern (25 bp):
CCTAGGGGCAAAACGGTCATTTTTA
Found at i:39069436 original size:29 final size:28
Alignment explanation
Indices: 39069400--39069477 Score: 104
Period size: 29 Copynumber: 2.7 Consensus size: 28
39069390 TCATGAGATT
39069400 GGCACTAAGTGTGCGGGTTTAAATTGTACA
1 GGCACTAAGTGTGCGGGTTTAAA--GTACA
*
39069430 -GCACTAAGTGTGCGAGTTTAAAGTACA
1 GGCACTAAGTGTGCGGGTTTAAAGTACA
39069457 TGGCACTAAGTGTGCGCGGTT
1 -GGCACTAAGTGTGCG-GGTT
39069478 GATTATTAAG
Statistics
Matches: 43, Mismatches: 2, Indels: 6
0.84 0.04 0.12
Matches are distributed among these distances:
27 5 0.12
29 35 0.81
30 3 0.07
ACGTcount: A:0.26, C:0.15, G:0.31, T:0.28
Consensus pattern (28 bp):
GGCACTAAGTGTGCGGGTTTAAAGTACA
Found at i:39069695 original size:174 final size:174
Alignment explanation
Indices: 39069430--39069931 Score: 950
Period size: 174 Copynumber: 2.9 Consensus size: 174
39069420 AAATTGTACA
*
39069430 GCACTAAGTGTGCGAGTTTAAAGTACATGGCACTAAGTGTGCGCGGTTGATTATTAAGCACTATG
1 GCACTAAGTGTGTGAGTTTAAAGTACATGGCACTAAGTGTGCGCGGTTGATTATTAAGCACTATG
39069495 TGTGCGAACCCAATATATATTTTCTATAAATTATTTACATTAAGGGTGCGACTTTACCGAGTCGA
66 TGTGCGAACCCAATATATATTTTCTATAAATTATTTACATTAAGGGTGCGACTTTACCGAGTCGA
39069560 TTTTGGACAGCGGAAAAGGTAAGTGTGCGAACTTGAAATGCATG
131 TTTTGGACAGCGGAAAAGGTAAGTGTGCGAACTTGAAATGCATG
* *
39069604 GCACTAAGTGTGTGAGTTTAAAGTGCATGGCACTAAGTGTGCGCGGTTGATTATTGAGCACTATG
1 GCACTAAGTGTGTGAGTTTAAAGTACATGGCACTAAGTGTGCGCGGTTGATTATTAAGCACTATG
39069669 TGTGCGAACCCAATATATATTTTCTATAAATTATTTACATTAAGGGTGCGACTTTACCGAGTCGA
66 TGTGCGAACCCAATATATATTTTCTATAAATTATTTACATTAAGGGTGCGACTTTACCGAGTCGA
39069734 TTTTGGACAGCGGAAAAGGTAAGTGTGCGAACTTGAAATGCATG
131 TTTTGGACAGCGGAAAAGGTAAGTGTGCGAACTTGAAATGCATG
39069778 GCACTAAGTGTGTGAGTTTAAAGTACATGGCACTAAGTGTGCGCGGTTGATTATTAAGCACTATG
1 GCACTAAGTGTGTGAGTTTAAAGTACATGGCACTAAGTGTGCGCGGTTGATTATTAAGCACTATG
* * *
39069843 TGTGCGAACTCAATATATATTTTCTATAAATTATTTACATGAAGGGTGCGACTTTACCGAGTCAA
66 TGTGCGAACCCAATATATATTTTCTATAAATTATTTACATTAAGGGTGCGACTTTACCGAGTCGA
39069908 TTTTGGACAGCGGAAAAGGTAAGT
131 TTTTGGACAGCGGAAAAGGTAAGT
39069932 ACCTTGAGTT
Statistics
Matches: 320, Mismatches: 8, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
174 320 1.00
ACGTcount: A:0.30, C:0.14, G:0.25, T:0.31
Consensus pattern (174 bp):
GCACTAAGTGTGTGAGTTTAAAGTACATGGCACTAAGTGTGCGCGGTTGATTATTAAGCACTATG
TGTGCGAACCCAATATATATTTTCTATAAATTATTTACATTAAGGGTGCGACTTTACCGAGTCGA
TTTTGGACAGCGGAAAAGGTAAGTGTGCGAACTTGAAATGCATG
Found at i:39076529 original size:48 final size:46
Alignment explanation
Indices: 39076398--39076568 Score: 148
Period size: 46 Copynumber: 3.7 Consensus size: 46
39076388 ACATCATGTA
* ** *
39076398 GCCGATGCATGTTTCAGACATGTTTTACACTGGCT-TACATCTCAAG
1 GCCGATGCATATCCCAGACATGTCTTACACTGGCTCT-CATCTCAAG
* * * ** * *
39076444 GCCGATGCTTGTCCCATACATGTCTTACACTATCTCTCGTCTCAAT
1 GCCGATGCATATCCCAGACATGTCTTACACTGGCTCTCATCTCAAG
* **
39076490 GCCGATGCCATATCCCAGACATGGTCTTACACTGGCTCTCATAAT-GTG
1 GCCGATG-CATATCCCAGACAT-GTCTTACACTGGCTCTCAT-CTCAAG
* *
39076538 GCTGATGCATGTCCCAGACATGTCTTACACT
1 GCCGATGCATATCCCAGACATGTCTTACACT
39076569 AGTACACATA
Statistics
Matches: 100, Mismatches: 21, Indels: 8
0.78 0.16 0.06
Matches are distributed among these distances:
46 52 0.52
47 25 0.25
48 22 0.22
49 1 0.01
ACGTcount: A:0.22, C:0.29, G:0.18, T:0.31
Consensus pattern (46 bp):
GCCGATGCATATCCCAGACATGTCTTACACTGGCTCTCATCTCAAG
Found at i:39077731 original size:34 final size:34
Alignment explanation
Indices: 39077685--39077749 Score: 103
Period size: 34 Copynumber: 1.9 Consensus size: 34
39077675 AGATGCAGTT
* *
39077685 TGGGCCTGAGCCCGTTACAGTATTAGTATCAATG
1 TGGGCCTGAGCCCATTACAGTAATAGTATCAATG
*
39077719 TGGGCCTTAGCCCATTACAGTAATAGTATCA
1 TGGGCCTGAGCCCATTACAGTAATAGTATCA
39077750 GTGCAGTAAT
Statistics
Matches: 28, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
34 28 1.00
ACGTcount: A:0.26, C:0.22, G:0.23, T:0.29
Consensus pattern (34 bp):
TGGGCCTGAGCCCATTACAGTAATAGTATCAATG
Found at i:39078165 original size:26 final size:26
Alignment explanation
Indices: 39078136--39078194 Score: 75
Period size: 27 Copynumber: 2.2 Consensus size: 26
39078126 CATACACATC
39078136 ATAGGGCAAATT-AGTCATTTTACCTT
1 ATAGGG-AAATTAAGTCATTTTACCTT
**
39078162 ATAGGGGTATTACAGTCATTTTACCTT
1 ATAGGGAAATTA-AGTCATTTTACCTT
39078189 ATAGGG
1 ATAGGG
39078195 GTTTTTTGGC
Statistics
Matches: 29, Mismatches: 2, Indels: 3
0.85 0.06 0.09
Matches are distributed among these distances:
25 3 0.10
26 6 0.21
27 20 0.69
ACGTcount: A:0.29, C:0.14, G:0.20, T:0.37
Consensus pattern (26 bp):
ATAGGGAAATTAAGTCATTTTACCTT
Found at i:39078228 original size:27 final size:27
Alignment explanation
Indices: 39078149--39078261 Score: 136
Period size: 27 Copynumber: 4.2 Consensus size: 27
39078139 GGGCAAATTA
***
39078149 GTCATTTTACCTTATAGGGGTATTACA
1 GTCATTTTACCTTATAGGGGTATTTTG
*
39078176 GTCATTTTACCTTATAGGGGTTTTTTG
1 GTCATTTTACCTTATAGGGGTATTTTG
*
39078203 GCCATTTTACCTTATAGGGGTATTTTG
1 GTCATTTTACCTTATAGGGGTATTTTG
* * * * *
39078230 ATTATTTTACCCTCTAGAGGTATTTTG
1 GTCATTTTACCTTATAGGGGTATTTTG
39078257 GTCAT
1 GTCAT
39078262 CATTTCGACC
Statistics
Matches: 72, Mismatches: 14, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
27 72 1.00
ACGTcount: A:0.20, C:0.14, G:0.19, T:0.46
Consensus pattern (27 bp):
GTCATTTTACCTTATAGGGGTATTTTG
Found at i:39084898 original size:65 final size:65
Alignment explanation
Indices: 39084776--39084917 Score: 180
Period size: 65 Copynumber: 2.2 Consensus size: 65
39084766 CAGGGCACTT
* * * * *
39084776 ACAAAGAGTTGCGTTTGTGTCTGCAACATATGTTGGATCACAACCAATTGCATAACAGGACGCTC
1 ACAAAGAGCTGCATTTGTGTCTGCAACATATGTAGAATCACAACCAATTGCATAACAGAACGCTC
* *
39084841 ACATAGAGCTGCATTTGTGTTTGCAACATATGTAGAATCACAACCAA-T-CAATAAACAGAACGC
1 ACAAAGAGCTGCATTTGTGTCTGCAACATATGTAGAATCACAACCAATTGC-AT-AACAGAACGC
*
39084904 TT
64 TC
39084906 ACAAAGAGCTGC
1 ACAAAGAGCTGC
39084918 GGTAATGTGC
Statistics
Matches: 66, Mismatches: 9, Indels: 4
0.84 0.11 0.05
Matches are distributed among these distances:
63 1 0.02
64 3 0.05
65 62 0.94
ACGTcount: A:0.35, C:0.21, G:0.19, T:0.25
Consensus pattern (65 bp):
ACAAAGAGCTGCATTTGTGTCTGCAACATATGTAGAATCACAACCAATTGCATAACAGAACGCTC
Found at i:39087909 original size:24 final size:25
Alignment explanation
Indices: 39087882--39087933 Score: 79
Period size: 25 Copynumber: 2.1 Consensus size: 25
39087872 GCCTAGCCTC
39087882 TTTTAAT-AACTGGGGCAAAGCCCT
1 TTTTAATAAACTGGGGCAAAGCCCT
**
39087906 TTTTGGTAAACTGGGGCAAAGCCCT
1 TTTTAATAAACTGGGGCAAAGCCCT
39087931 TTT
1 TTT
39087934 CGTACTTCCT
Statistics
Matches: 25, Mismatches: 2, Indels: 1
0.89 0.07 0.04
Matches are distributed among these distances:
24 5 0.20
25 20 0.80
ACGTcount: A:0.25, C:0.19, G:0.23, T:0.33
Consensus pattern (25 bp):
TTTTAATAAACTGGGGCAAAGCCCT
Found at i:39088212 original size:53 final size:54
Alignment explanation
Indices: 39088139--39088268 Score: 174
Period size: 53 Copynumber: 2.4 Consensus size: 54
39088129 GGGCAAAATG
* * * *
39088139 GTAATTTTACCCCATAAGGGTATCTCGGTAATTCTACCCTAC-AGAGGTATTTCA
1 GTAATTCTACCCTACAAGGGTATCTCGATAATTCTACCCTACAAG-GGTATTTCA
* *
39088193 GTAATT-TACCTTACAAGGGTATTTCGATAATTCTACCCTACAAGGGTATTTCA
1 GTAATTCTACCCTACAAGGGTATCTCGATAATTCTACCCTACAAGGGTATTTCA
*
39088246 GTAATTCTACCCTACAGGGGTAT
1 GTAATTCTACCCTACAAGGGTAT
39088269 TTTAATAATT
Statistics
Matches: 67, Mismatches: 7, Indels: 4
0.86 0.09 0.05
Matches are distributed among these distances:
53 45 0.67
54 22 0.33
ACGTcount: A:0.28, C:0.21, G:0.17, T:0.34
Consensus pattern (54 bp):
GTAATTCTACCCTACAAGGGTATCTCGATAATTCTACCCTACAAGGGTATTTCA
Found at i:39088277 original size:27 final size:27
Alignment explanation
Indices: 39088140--39088278 Score: 147
Period size: 27 Copynumber: 5.2 Consensus size: 27
39088130 GGCAAAATGG
* * * * **
39088140 TAATTTTACCCCATAAGGGTATCTCGG
1 TAATTCTACCCTACAAGGGTATTTCAA
*
39088167 TAATTCTACCCTAC-AGAGGTATTTCAG
1 TAATTCTACCCTACAAG-GGTATTTCAA
* *
39088194 TAATT-TACCTTACAAGGGTATTTCGA
1 TAATTCTACCCTACAAGGGTATTTCAA
*
39088220 TAATTCTACCCTACAAGGGTATTTCAG
1 TAATTCTACCCTACAAGGGTATTTCAA
* *
39088247 TAATTCTACCCTACAGGGGTATTTTAA
1 TAATTCTACCCTACAAGGGTATTTCAA
39088274 TAATT
1 TAATT
39088279 TTGTAAATCG
Statistics
Matches: 95, Mismatches: 14, Indels: 6
0.83 0.12 0.05
Matches are distributed among these distances:
26 22 0.23
27 73 0.77
ACGTcount: A:0.29, C:0.19, G:0.15, T:0.36
Consensus pattern (27 bp):
TAATTCTACCCTACAAGGGTATTTCAA
Found at i:39088371 original size:27 final size:27
Alignment explanation
Indices: 39088317--39088604 Score: 240
Period size: 27 Copynumber: 10.6 Consensus size: 27
39088307 TGTAAATCCG
* * *
39088317 GGGTACTTTGGTAATTTTTACAAGTCGA
1 GGGTATTTTAGTAA-TTTTACAAATCGA
*
39088345 GGGTATTTCAGTAATTTTACAAATCGA
1 GGGTATTTTAGTAATTTTACAAATCGA
*
39088372 GGGTATTTTAATAATTTTACAAA-CTGA
1 GGGTATTTTAGTAATTTTACAAATC-GA
* * *
39088399 GGGTATTTCAGTAATTTCACAAATCAA
1 GGGTATTTTAGTAATTTTACAAATCGA
* *
39088426 GGGTATTTTGGTAATTTTACAAA-CCA
1 GGGTATTTTAGTAATTTTACAAATCGA
* * ** * *
39088452 GAGGTACTTTGGTAATTTTGTAAACCAA
1 G-GGTATTTTAGTAATTTTACAAATCGA
* * **
39088480 AGGTATTTTGGTAATTTTACTGATCGA
1 GGGTATTTTAGTAATTTTACAAATCGA
* ** **
39088507 GGGTATTTTGGTAATTTTGTAAATTAA
1 GGGTATTTTAGTAATTTTACAAATCGA
* *
39088534 GGGTATTTTGGTAATTTTACAAA-CCA
1 GGGTATTTTAGTAATTTTACAAATCGA
* *
39088560 GGGGCATTTTAGTAATTTTACAAATTGA
1 -GGGTATTTTAGTAATTTTACAAATCGA
* *
39088588 TGGCATTTTAGTAATTT
1 GGGTATTTTAGTAATTT
39088605 GGTAAACTAA
Statistics
Matches: 212, Mismatches: 42, Indels: 13
0.79 0.16 0.05
Matches are distributed among these distances:
26 5 0.02
27 192 0.91
28 15 0.07
ACGTcount: A:0.31, C:0.09, G:0.20, T:0.40
Consensus pattern (27 bp):
GGGTATTTTAGTAATTTTACAAATCGA
Found at i:39088596 original size:54 final size:54
Alignment explanation
Indices: 39088317--39088584 Score: 279
Period size: 54 Copynumber: 4.9 Consensus size: 54
39088307 TGTAAATCCG
* ** * *
39088317 GGGTACTTTGGTAATTTTTACAAGTCGAGGGTATTTCAGTAATTTTACAAATCGA
1 GGGTATTTTGGTAA-TTTTACAAACCGAGGGTATTTTAGTAATTTTACAAATCAA
** * * *
39088372 GGGTATTTTAATAATTTTACAAACTGAGGGTATTTCAGTAATTTCACAAATCAA
1 GGGTATTTTGGTAATTTTACAAACCGAGGGTATTTTAGTAATTTTACAAATCAA
* * ** *
39088426 GGGTATTTTGGTAATTTTACAAACC-AGAGGTACTTTGGTAATTTTGTAAACCAA
1 GGGTATTTTGGTAATTTTACAAACCGAG-GGTATTTTAGTAATTTTACAAATCAA
* ** * * ** *
39088480 AGGTATTTTGGTAATTTTACTGATCGAGGGTATTTTGGTAATTTTGTAAATTAA
1 GGGTATTTTGGTAATTTTACAAACCGAGGGTATTTTAGTAATTTTACAAATCAA
*
39088534 GGGTATTTTGGTAATTTTACAAACC-AGGGGCATTTTAGTAATTTTACAAAT
1 GGGTATTTTGGTAATTTTACAAACCGA-GGGTATTTTAGTAATTTTACAAAT
39088585 TGATGGCATT
Statistics
Matches: 177, Mismatches: 33, Indels: 7
0.82 0.15 0.03
Matches are distributed among these distances:
53 3 0.02
54 161 0.91
55 13 0.07
ACGTcount: A:0.31, C:0.09, G:0.20, T:0.40
Consensus pattern (54 bp):
GGGTATTTTGGTAATTTTACAAACCGAGGGTATTTTAGTAATTTTACAAATCAA
Found at i:39090636 original size:27 final size:27
Alignment explanation
Indices: 39090602--39090779 Score: 182
Period size: 27 Copynumber: 6.6 Consensus size: 27
39090592 TAAATTGTAC
39090602 AGCACTAAGTGTGCGATATGACTATGT
1 AGCACTAAGTGTGCGATATGACTATGT
* * *
39090629 TGCACTAAGTGTGCGAAATGAATATG-
1 AGCACTAAGTGTGCGATATGACTATGT
* *
39090655 ATGCACTAAGTGTGCGA-ATTGACCATGC
1 A-GCACTAAGTGTGCGATA-TGACTATGT
* *
39090683 GGCACTAAGTGTGCGAGTTTGACTATGT
1 AGCACTAAGTGTGCGA-TATGACTATGT
* * *
39090711 AGCACTAAGTGTGCGATTTGATTACGT
1 AGCACTAAGTGTGCGATATGACTATGT
* *
39090738 AGCACTAAGTGTGCGAGT-TGATTATAT
1 AGCACTAAGTGTGCGA-TATGACTATGT
*
39090765 AGCACTGAGTGTGCG
1 AGCACTAAGTGTGCG
39090780 GGCTCAATAT
Statistics
Matches: 129, Mismatches: 16, Indels: 12
0.82 0.10 0.08
Matches are distributed among these distances:
26 1 0.01
27 105 0.81
28 23 0.18
ACGTcount: A:0.28, C:0.15, G:0.28, T:0.29
Consensus pattern (27 bp):
AGCACTAAGTGTGCGATATGACTATGT
Found at i:39090717 original size:82 final size:81
Alignment explanation
Indices: 39090603--39090758 Score: 224
Period size: 82 Copynumber: 1.9 Consensus size: 81
39090593 AAATTGTACA
* *
39090603 GCACTAAGTGTGCGATATGACTATGTTGCACTAAGTGTGCGAAATGAATATG-ATGCACTAAGTG
1 GCACTAAGTGTGCGATATGACTATGTAGCACTAAGTGTGCGAAATGAATACGTA-GCACTAAGTG
39090667 TGCGAATTGACCATGCG
65 TGCGAATTGACCATGCG
* ** *
39090684 GCACTAAGTGTGCGAGTTTGACTATGTAGCACTAAGTGTGCGATTTGATTACGTAGCACTAAGTG
1 GCACTAAGTGTGCGA-TATGACTATGTAGCACTAAGTGTGCGAAATGAATACGTAGCACTAAGTG
*
39090749 TGCGAGTTGA
65 TGCGAATTGA
39090759 TTATATAGCA
Statistics
Matches: 66, Mismatches: 7, Indels: 3
0.87 0.09 0.04
Matches are distributed among these distances:
81 15 0.23
82 50 0.76
83 1 0.02
ACGTcount: A:0.28, C:0.15, G:0.28, T:0.29
Consensus pattern (81 bp):
GCACTAAGTGTGCGATATGACTATGTAGCACTAAGTGTGCGAAATGAATACGTAGCACTAAGTGT
GCGAATTGACCATGCG
Found at i:39090770 original size:82 final size:81
Alignment explanation
Indices: 39090599--39090779 Score: 220
Period size: 82 Copynumber: 2.2 Consensus size: 81
39090589 GATTAAATTG
* *
39090599 TACAGCACTAAGTGTGCGATATGACTATGTTGCACTAAGTGTGCGAAATGAATATGATGCACTAA
1 TACAGCACTAAGTGTGCGATATGACTATGTAGCACTAAGTGTGCGAAATGAATACGATGCACTAA
39090664 GTGTGCGAATTGACCA
66 GTGTGCGAATTGACCA
* * * ** *
39090680 TGCGGCACTAAGTGTGCGAGTTTGACTATGTAGCACTAAGTGTGCGATTTGATTACG-TAGCACT
1 TACAGCACTAAGTGTGCGA-TATGACTATGTAGCACTAAGTGTGCGAAATGAATACGAT-GCACT
* **
39090744 AAGTGTGCGAGTTGATTA
64 AAGTGTGCGAATTGACCA
* *
39090762 TATAGCACTGAGTGTGCG
1 TACAGCACTAAGTGTGCG
39090780 GGCTCAATAT
Statistics
Matches: 83, Mismatches: 15, Indels: 3
0.82 0.15 0.03
Matches are distributed among these distances:
81 18 0.22
82 65 0.78
ACGTcount: A:0.28, C:0.15, G:0.28, T:0.29
Consensus pattern (81 bp):
TACAGCACTAAGTGTGCGATATGACTATGTAGCACTAAGTGTGCGAAATGAATACGATGCACTAA
GTGTGCGAATTGACCA
Found at i:39090790 original size:27 final size:27
Alignment explanation
Indices: 39090684--39090790 Score: 70
Period size: 27 Copynumber: 3.9 Consensus size: 27
39090674 TGACCATGCG
* * * *
39090684 GCACTAAGTGTGCGAGTTTGACTATGTA
1 GCACTAAGTGTGCGAG-CTCAATATATA
** * * **
39090712 GCACTAAGTGTGCGATTTGATTACGTA
1 GCACTAAGTGTGCGAGCTCAATATATA
* * *
39090739 GCACTAAGTGTGCGAGTTGATTATATA
1 GCACTAAGTGTGCGAGCTCAATATATA
* *
39090766 GCACTGAGTGTGCGGGCTCAATATA
1 GCACTAAGTGTGCGAGCTCAATATA
39090791 CATTCGTGAA
Statistics
Matches: 68, Mismatches: 11, Indels: 1
0.85 0.14 0.01
Matches are distributed among these distances:
27 53 0.78
28 15 0.22
ACGTcount: A:0.26, C:0.15, G:0.28, T:0.31
Consensus pattern (27 bp):
GCACTAAGTGTGCGAGCTCAATATATA
Found at i:39098633 original size:27 final size:27
Alignment explanation
Indices: 39098599--39098776 Score: 182
Period size: 27 Copynumber: 6.6 Consensus size: 27
39098589 TAAATTGTAC
39098599 AGCACTAAGTGTGCGATATGACTATGT
1 AGCACTAAGTGTGCGATATGACTATGT
* * *
39098626 TGCACTAAGTGTGCGAAATGAATATG-
1 AGCACTAAGTGTGCGATATGACTATGT
* *
39098652 ATGCACTAAGTGTGCGA-ATTGACCATGC
1 A-GCACTAAGTGTGCGATA-TGACTATGT
* *
39098680 GGCACTAAGTGTGCGAGTTTGACTATGT
1 AGCACTAAGTGTGCGA-TATGACTATGT
* * *
39098708 AGCACTAAGTGTGCGATTTGATTACGT
1 AGCACTAAGTGTGCGATATGACTATGT
* *
39098735 AGCACTAAGTGTGCGAGT-TGATTATAT
1 AGCACTAAGTGTGCGA-TATGACTATGT
*
39098762 AGCACTGAGTGTGCG
1 AGCACTAAGTGTGCG
39098777 GGCTCAATAT
Statistics
Matches: 129, Mismatches: 16, Indels: 12
0.82 0.10 0.08
Matches are distributed among these distances:
26 1 0.01
27 105 0.81
28 23 0.18
ACGTcount: A:0.28, C:0.15, G:0.28, T:0.29
Consensus pattern (27 bp):
AGCACTAAGTGTGCGATATGACTATGT
Found at i:39098714 original size:82 final size:81
Alignment explanation
Indices: 39098600--39098755 Score: 224
Period size: 82 Copynumber: 1.9 Consensus size: 81
39098590 AAATTGTACA
* *
39098600 GCACTAAGTGTGCGATATGACTATGTTGCACTAAGTGTGCGAAATGAATATG-ATGCACTAAGTG
1 GCACTAAGTGTGCGATATGACTATGTAGCACTAAGTGTGCGAAATGAATACGTA-GCACTAAGTG
39098664 TGCGAATTGACCATGCG
65 TGCGAATTGACCATGCG
* ** *
39098681 GCACTAAGTGTGCGAGTTTGACTATGTAGCACTAAGTGTGCGATTTGATTACGTAGCACTAAGTG
1 GCACTAAGTGTGCGA-TATGACTATGTAGCACTAAGTGTGCGAAATGAATACGTAGCACTAAGTG
*
39098746 TGCGAGTTGA
65 TGCGAATTGA
39098756 TTATATAGCA
Statistics
Matches: 66, Mismatches: 7, Indels: 3
0.87 0.09 0.04
Matches are distributed among these distances:
81 15 0.23
82 50 0.76
83 1 0.02
ACGTcount: A:0.28, C:0.15, G:0.28, T:0.29
Consensus pattern (81 bp):
GCACTAAGTGTGCGATATGACTATGTAGCACTAAGTGTGCGAAATGAATACGTAGCACTAAGTGT
GCGAATTGACCATGCG
Found at i:39098767 original size:82 final size:81
Alignment explanation
Indices: 39098596--39098776 Score: 220
Period size: 82 Copynumber: 2.2 Consensus size: 81
39098586 GATTAAATTG
* *
39098596 TACAGCACTAAGTGTGCGATATGACTATGTTGCACTAAGTGTGCGAAATGAATATGATGCACTAA
1 TACAGCACTAAGTGTGCGATATGACTATGTAGCACTAAGTGTGCGAAATGAATACGATGCACTAA
39098661 GTGTGCGAATTGACCA
66 GTGTGCGAATTGACCA
* * * ** *
39098677 TGCGGCACTAAGTGTGCGAGTTTGACTATGTAGCACTAAGTGTGCGATTTGATTACG-TAGCACT
1 TACAGCACTAAGTGTGCGA-TATGACTATGTAGCACTAAGTGTGCGAAATGAATACGAT-GCACT
* **
39098741 AAGTGTGCGAGTTGATTA
64 AAGTGTGCGAATTGACCA
* *
39098759 TATAGCACTGAGTGTGCG
1 TACAGCACTAAGTGTGCG
39098777 GGCTCAATAT
Statistics
Matches: 83, Mismatches: 15, Indels: 3
0.82 0.15 0.03
Matches are distributed among these distances:
81 18 0.22
82 65 0.78
ACGTcount: A:0.28, C:0.15, G:0.28, T:0.29
Consensus pattern (81 bp):
TACAGCACTAAGTGTGCGATATGACTATGTAGCACTAAGTGTGCGAAATGAATACGATGCACTAA
GTGTGCGAATTGACCA
Found at i:39098787 original size:27 final size:27
Alignment explanation
Indices: 39098681--39098787 Score: 70
Period size: 27 Copynumber: 3.9 Consensus size: 27
39098671 TGACCATGCG
* * * *
39098681 GCACTAAGTGTGCGAGTTTGACTATGTA
1 GCACTAAGTGTGCGAG-CTCAATATATA
** * * **
39098709 GCACTAAGTGTGCGATTTGATTACGTA
1 GCACTAAGTGTGCGAGCTCAATATATA
* * *
39098736 GCACTAAGTGTGCGAGTTGATTATATA
1 GCACTAAGTGTGCGAGCTCAATATATA
* *
39098763 GCACTGAGTGTGCGGGCTCAATATA
1 GCACTAAGTGTGCGAGCTCAATATA
39098788 CATTCGTGAA
Statistics
Matches: 68, Mismatches: 11, Indels: 1
0.85 0.14 0.01
Matches are distributed among these distances:
27 53 0.78
28 15 0.22
ACGTcount: A:0.26, C:0.15, G:0.28, T:0.31
Consensus pattern (27 bp):
GCACTAAGTGTGCGAGCTCAATATATA
Found at i:39101735 original size:44 final size:44
Alignment explanation
Indices: 39101681--39101789 Score: 148
Period size: 44 Copynumber: 2.5 Consensus size: 44
39101671 CACTCCACTA
* *
39101681 TAACTTCAGGGAGATAGGATTATC-GGCTTCAATCAGCTCAACTG
1 TAACCTCAGGGAGATAAGATT-TCTGGCTTCAATCAGCTCAACTG
* * *
39101725 TAATCTCAGGGAGATAAGATTTCTGGCTTCAATCTGCTCCACTG
1 TAACCTCAGGGAGATAAGATTTCTGGCTTCAATCAGCTCAACTG
*
39101769 TAACCTTAGGGAGATAAGATT
1 TAACCTCAGGGAGATAAGATT
39101790 CACCATTTTC
Statistics
Matches: 57, Mismatches: 7, Indels: 2
0.86 0.11 0.03
Matches are distributed among these distances:
43 2 0.04
44 55 0.96
ACGTcount: A:0.29, C:0.19, G:0.22, T:0.29
Consensus pattern (44 bp):
TAACCTCAGGGAGATAAGATTTCTGGCTTCAATCAGCTCAACTG
Found at i:39101928 original size:232 final size:232
Alignment explanation
Indices: 39101502--39102190 Score: 838
Period size: 232 Copynumber: 3.1 Consensus size: 232
39101492 CTGTAACGCA
39101502 GGAGATAAGATTTCTGGCTTCAATCTGCTCCACTGTAACCTTAGGGAGATAAGATTCACCATTTT
1 GGAGATAAGATTTCTGGCTTCAATCTGCTCCACTGTAACCTTAGGGAGATAAGATTCACCATTTT
* * *
39101567 TGATTAAGAGTTCTTCGGTCTATTCCACTGTAACTCAGGGAGATAAGACCTGATGCGATCTACTC
66 CGATTAAGAATTCTTCAGTCTATTCCACTGTAACTCAGGGAGATAAGACCTGATGCGATCTACTC
* * *
39101632 TACTGTAATTTCAGAGAGATAAGATCTTTTATTTTAATCCACTCCACTATAACTTCAGGGAGATA
131 TACTGTAATTTCAGAGAGATAAGATCCTTTAGTTTAATCCACTCCACTACAACTTCAGGGAGATA
* ** *
39101697 GGATTATCGGCTTCAATCAGCTCAACTGTAATCTCAG
196 GGATTATCGACTTCAATCAGCTCAACTACAACCTCAG
39101734 GGAGATAAGATTTCTGGCTTCAATCTGCTCCACTGTAACCTTAGGGAGATAAGATTCACCATTTT
1 GGAGATAAGATTTCTGGCTTCAATCTGCTCCACTGTAACCTTAGGGAGATAAGATTCACCATTTT
* *
39101799 CGATTAGGAATTCTTTAGTCTATTCCACTGTAATCTCAGGGAGATAAGACCTGATGCGATCTACT
66 CGATTAAGAATTCTTCAGTCTATTCCACTGTAA-CTCAGGGAGATAAGACCTGATGCGATCTACT
* * *
39101864 CTACTGTAATTTTAGAGAGATAAGATCCTTTAGTTTAATCCGCTCCATTACAACTTCA-GGAGAT
130 CTACTGTAATTTCAGAGAGATAAGATCCTTTAGTTTAATCCACTCCACTACAACTTCAGGGAGAT
* *
39101928 AGGATTATCGACTTCAATCTGCTCCACTACAACCTCAG
195 AGGATTATCGACTTCAATCAGCTCAACTACAACCTCAG
* ** * *
39101966 GGAGATAAGATTTACT-TC-TCGGTCTGCCCCACTGTGA-CTTCAGGG-GATAAG----A-C---
1 GGAGATAAGATTT-CTGGCTTCAATCTGCTCCACTGTAACCTT-AGGGAGATAAGATTCACCATT
* * * *
39102019 TT-G--T-----TTC-TCAGTATGCTT-CACTGCAACCTCAGGGAGATAAGGCCTGATGCGATC-
64 TTCGATTAAGAATTCTTCAGTCT-ATTCCACTGTAA-CTCAGGGAGATAAGACCTGATGCGATCT
* * * *
39102073 CCTCTACTGCAACTTCAGAGAGATAAGAT-CTGTTACTTTAATCCACTCCACTACAACTTCAGGG
127 ACTCTACTGTAATTTCAGAGAGATAAGATCCT-TTAGTTTAATCCACTCCACTACAACTTCAGGG
* *
39102137 AGATAGGATTATCGACTTCAATCTA-CTCCACTGCAACCTCAG
191 AGATAGGATTATCGACTTCAATC-AGCTCAACTACAACCTCAG
39102179 GGAGATAA-ATTT
1 GGAGATAAGATTT
39102191 GCTTCTTCGG
Statistics
Matches: 413, Mismatches: 37, Indels: 34
0.85 0.08 0.07
Matches are distributed among these distances:
211 2 0.00
212 55 0.13
213 87 0.21
214 5 0.01
219 1 0.00
221 1 0.00
222 2 0.00
225 1 0.00
226 1 0.00
230 9 0.02
231 19 0.05
232 145 0.35
233 85 0.21
ACGTcount: A:0.28, C:0.22, G:0.19, T:0.31
Consensus pattern (232 bp):
GGAGATAAGATTTCTGGCTTCAATCTGCTCCACTGTAACCTTAGGGAGATAAGATTCACCATTTT
CGATTAAGAATTCTTCAGTCTATTCCACTGTAACTCAGGGAGATAAGACCTGATGCGATCTACTC
TACTGTAATTTCAGAGAGATAAGATCCTTTAGTTTAATCCACTCCACTACAACTTCAGGGAGATA
GGATTATCGACTTCAATCAGCTCAACTACAACCTCAG
Found at i:39101992 original size:43 final size:43
Alignment explanation
Indices: 39101945--39102059 Score: 124
Period size: 42 Copynumber: 2.7 Consensus size: 43
39101935 TCGACTTCAA
* * *
39101945 TCTGCTCCACTACAACCTCAGGGAGATAAGATTTACTTCTCGG
1 TCTGCTCCACTGCAACCTCAGGGAGATAAGACTTACTTCTCAG
* ** * **
39101988 TCTGCCCCACTGTGACTTCAGGG-GATAAGACTTGTTTCTCAG
1 TCTGCTCCACTGCAACCTCAGGGAGATAAGACTTACTTCTCAG
* *
39102030 TATGCTTCACTGCAACCTCAGGGAGATAAG
1 TCTGCTCCACTGCAACCTCAGGGAGATAAG
39102060 GCCTGATGCG
Statistics
Matches: 56, Mismatches: 15, Indels: 2
0.77 0.21 0.03
Matches are distributed among these distances:
42 32 0.57
43 24 0.43
ACGTcount: A:0.24, C:0.26, G:0.22, T:0.28
Consensus pattern (43 bp):
TCTGCTCCACTGCAACCTCAGGGAGATAAGACTTACTTCTCAG
Found at i:39102133 original size:44 final size:44
Alignment explanation
Indices: 39102082--39102186 Score: 122
Period size: 44 Copynumber: 2.4 Consensus size: 44
39102072 CCCTCTACTG
* * * *
39102082 CAACTTCAGAGAGATAAGATCTGT-TACTTTAATCCACTCCACTA
1 CAACTTCAGGGAGATAAGAT-TATCGACTTCAATCCACTCCACTA
* * *
39102126 CAACTTCAGGGAGATAGGATTATCGACTTCAATCTACTCCACTG
1 CAACTTCAGGGAGATAAGATTATCGACTTCAATCCACTCCACTA
*
39102170 CAACCTCAGGGAGATAA
1 CAACTTCAGGGAGATAA
39102187 ATTTGCTTCT
Statistics
Matches: 51, Mismatches: 9, Indels: 2
0.82 0.15 0.03
Matches are distributed among these distances:
43 2 0.04
44 49 0.96
ACGTcount: A:0.33, C:0.25, G:0.16, T:0.26
Consensus pattern (44 bp):
CAACTTCAGGGAGATAAGATTATCGACTTCAATCCACTCCACTA
Found at i:39102234 original size:212 final size:213
Alignment explanation
Indices: 39101824--39102234 Score: 623
Period size: 213 Copynumber: 1.9 Consensus size: 213
39101814 TAGTCTATTC
* * * * *
39101824 CACTGTAATCTCAGGGAGATAAGACCTGATGCGATCTACTCTACTGTAATTTTAGAGAGATAAGA
1 CACTGCAACCTCAGGGAGATAAGACCTGATGCGATCTACTCTACTGCAACTTCAGAGAGATAAGA
* * * *
39101889 TCCTTTAGTTTAATCCGCTCCATTACAACTTCAGGAGATAGGATTATCGACTTCAATCTGCTCCA
66 TCCTTTACTTTAATCCACTCCACTACAACTTCAGGAGATAGGATTATCGACTTCAATCTACTCCA
* *
39101954 CTACAACCTCAGGGAGATAAGATTTACTTCTCGGTCTGCCCCACTGTGACTTCAGGGGATAAGAC
131 CTACAACCTCAGGGAGATAAGATTTACTTCTCGGTCTGCCCCACTGAGACTTCAGAGGATAAGAC
39102019 TTGTTTCTCAGTATGCTT
196 TTGTTTCTCAGTATGCTT
* *
39102037 CACTGCAACCTCAGGGAGATAAGGCCTGATGCGATC-CCTCTACTGCAACTTCAGAGAGATAAGA
1 CACTGCAACCTCAGGGAGATAAGACCTGATGCGATCTACTCTACTGCAACTTCAGAGAGATAAGA
39102101 T-CTGTTACTTTAATCCACTCCACTACAACTTCAGGGAGATAGGATTATCGACTTCAATCTACTC
66 TCCT-TTACTTTAATCCACTCCACTACAACTTCA-GGAGATAGGATTATCGACTTCAATCTACTC
* * *
39102165 CACTGCAACCTCAGGGAGATAA-ATTTGCTTCTTCGGTCTGCCCCACT-AGACTTCATAGGATAA
129 CACTACAACCTCAGGGAGATAAGATTTACTTC-TCGGTCTGCCCCACTGAGACTTCAGAGGATAA
39102228 GACTTGT
193 GACTTGT
39102235 GGCTTGAATC
Statistics
Matches: 179, Mismatches: 16, Indels: 7
0.89 0.08 0.03
Matches are distributed among these distances:
211 2 0.01
212 79 0.44
213 98 0.55
ACGTcount: A:0.28, C:0.24, G:0.19, T:0.29
Consensus pattern (213 bp):
CACTGCAACCTCAGGGAGATAAGACCTGATGCGATCTACTCTACTGCAACTTCAGAGAGATAAGA
TCCTTTACTTTAATCCACTCCACTACAACTTCAGGAGATAGGATTATCGACTTCAATCTACTCCA
CTACAACCTCAGGGAGATAAGATTTACTTCTCGGTCTGCCCCACTGAGACTTCAGAGGATAAGAC
TTGTTTCTCAGTATGCTT
Found at i:39102474 original size:130 final size:128
Alignment explanation
Indices: 39102228--39102596 Score: 543
Period size: 130 Copynumber: 2.9 Consensus size: 128
39102218 CATAGGATAA
*
39102228 GACTTGTGGCTTGAATCTGCTTTCTTACACTTGAAGATAAGATTT-CCGCTTT-GATCTGCTCCG
1 GACTTGTGGCTTGAATCTGCTTCCTTACACTTGAAGATAAGATTTGCCGCTTTCGATCTGCTCCG
*
39102291 CTACTGC-TAGGGAGACAAGATCTGTAATTTCCAACCTACTCCACTGCTGACCAGGGACATAG
66 CTACTGCTTAGGGAGACAAGATCTGTAATTTCCAACCTATTCCACTGCTGACCAGGGACATAG
39102353 GACTTGTGGCTTGAATCTGCCTTCCTTACACTTGAAGATAAGATTTGCCGCTTTCGATCTGCTCC
1 GACTTGTGGCTTGAATCTG-CTTCCTTACACTTGAAGATAAGATTTGCCGCTTTCGATCTGCTCC
* *
39102418 GCTACTGCTTAGGGAGACAAGATCTGTAATTTCCCAACCTATTCCAGTGCTGACCAGGGATATAG
65 GCTACTGCTTAGGGAGACAAGATCTGTAATTT-CCAACCTATTCCACTGCTGACCAGGGACATAG
* * * *
39102483 GAACTTGTGGCTTAAATCTGCTTCC-TACTC-TGAAGATAAGATTTGTCCG-TCTTCCATCTAAC
1 G-ACTTGTGGCTTGAATCTGCTTCCTTACACTTGAAGATAAGATTTG-CCGCT-TTCGATCT-GC
*
39102545 TCCGCTACACTGCTTAGGGAGACAAGATCTGTGATTTCCAACCTATTCCACT
62 TCCGCT--ACTGCTTAGGGAGACAAGATCTGTAATTTCCAACCTATTCCACT
39102597 ACTGGTCAGA
Statistics
Matches: 223, Mismatches: 10, Indels: 16
0.90 0.04 0.06
Matches are distributed among these distances:
125 19 0.09
126 25 0.11
127 7 0.03
128 34 0.15
129 37 0.17
130 42 0.19
131 31 0.14
132 28 0.13
ACGTcount: A:0.24, C:0.25, G:0.20, T:0.31
Consensus pattern (128 bp):
GACTTGTGGCTTGAATCTGCTTCCTTACACTTGAAGATAAGATTTGCCGCTTTCGATCTGCTCCG
CTACTGCTTAGGGAGACAAGATCTGTAATTTCCAACCTATTCCACTGCTGACCAGGGACATAG
Found at i:39102645 original size:43 final size:43
Alignment explanation
Indices: 39102583--39102789 Score: 335
Period size: 43 Copynumber: 4.8 Consensus size: 43
39102573 CTGTGATTTC
* * *
39102583 CAACCTATTCCACTACTGGTCAGAGAGCTAGATTTGCAATCTT
1 CAACCTATTCCACTGCTGGTCAGGGAGCTAGGTTTGCAATCTT
39102626 CAACCTATTCCACTGCTGGTC-GGGAGCTAGGTTTTGCAATCTT
1 CAACCTATTCCACTGCTGGTCAGGGAGCTAGG-TTTGCAATCTT
*
39102669 CAACCTATTCCACTGCTGGTGAGGGAGCTAGGTTTGCAATCTT
1 CAACCTATTCCACTGCTGGTCAGGGAGCTAGGTTTGCAATCTT
* *
39102712 CTACCTATTCCACTGCTGGTCAGGGAGCTAGGTTTGGAATCTT
1 CAACCTATTCCACTGCTGGTCAGGGAGCTAGGTTTGCAATCTT
*
39102755 CAACCTATTCCACTGCTGGTTAGGGAGCTAGGTTT
1 CAACCTATTCCACTGCTGGTCAGGGAGCTAGGTTT
39102790 TGTGATTCCA
Statistics
Matches: 153, Mismatches: 9, Indels: 4
0.92 0.05 0.02
Matches are distributed among these distances:
42 8 0.05
43 135 0.88
44 10 0.07
ACGTcount: A:0.21, C:0.24, G:0.23, T:0.31
Consensus pattern (43 bp):
CAACCTATTCCACTGCTGGTCAGGGAGCTAGGTTTGCAATCTT
Found at i:39104870 original size:49 final size:49
Alignment explanation
Indices: 39104810--39104917 Score: 132
Period size: 49 Copynumber: 2.2 Consensus size: 49
39104800 TTCCTTTTCC
*
39104810 TTTTTCCTTTTTCTTCTCTTTTTTCATT-TTTATT-TTGACCTTGATTTTGA
1 TTTTT-CTTTTTC-T-TCTTTTTTCATTATTGATTATTGACCTTGATTTTGA
* **
39104860 TTTTTCTTTTTCTTCTTTTTTGATTATTGATTATTGATTTTGATTTTGA
1 TTTTTCTTTTTCTTCTTTTTTCATTATTGATTATTGACCTTGATTTTGA
39104909 TTTTT-TTTT
1 TTTTTCTTTT
39104918 GTTTTTGTTT
Statistics
Matches: 52, Mismatches: 4, Indels: 6
0.84 0.06 0.10
Matches are distributed among these distances:
47 11 0.21
48 10 0.19
49 26 0.50
50 5 0.10
ACGTcount: A:0.11, C:0.10, G:0.07, T:0.71
Consensus pattern (49 bp):
TTTTTCTTTTTCTTCTTTTTTCATTATTGATTATTGACCTTGATTTTGA
Found at i:39104904 original size:6 final size:6
Alignment explanation
Indices: 39104877--39104912 Score: 54
Period size: 6 Copynumber: 5.7 Consensus size: 6
39104867 TTTTCTTCTT
39104877 TTTTGA TTATTGA TTATTGA TTTTGA TTTTGA TTTT
1 TTTTGA TT-TTGA TT-TTGA TTTTGA TTTTGA TTTT
39104913 TTTTTGTTTT
Statistics
Matches: 29, Mismatches: 0, Indels: 2
0.94 0.00 0.06
Matches are distributed among these distances:
6 16 0.55
7 13 0.45
ACGTcount: A:0.19, C:0.00, G:0.14, T:0.67
Consensus pattern (6 bp):
TTTTGA
Found at i:39104923 original size:17 final size:16
Alignment explanation
Indices: 39104897--39104935 Score: 60
Period size: 16 Copynumber: 2.4 Consensus size: 16
39104887 TGATTATTGA
39104897 TTTTGATTTTGATTTTT
1 TTTTGATTTTG-TTTTT
*
39104914 TTTTGTTTTTGTTTTT
1 TTTTGATTTTGTTTTT
39104930 TTTTGA
1 TTTTGA
39104936 GCTCATAGGT
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
16 10 0.50
17 10 0.50
ACGTcount: A:0.08, C:0.00, G:0.13, T:0.79
Consensus pattern (16 bp):
TTTTGATTTTGTTTTT
Found at i:39122165 original size:11 final size:10
Alignment explanation
Indices: 39122131--39122179 Score: 64
Period size: 10 Copynumber: 4.8 Consensus size: 10
39122121 TTTAATATGT
39122131 TTAATTTTAA
1 TTAATTTTAA
39122141 TTAATTTTATA
1 TTAATTTTA-A
39122152 TTAAATTTTAA
1 TT-AATTTTAA
*
39122163 TTAATTTTGA
1 TTAATTTTAA
39122173 -TAATTTT
1 TTAATTTT
39122180 CGACTGAATC
Statistics
Matches: 36, Mismatches: 1, Indels: 5
0.86 0.02 0.12
Matches are distributed among these distances:
9 7 0.19
10 16 0.44
11 6 0.17
12 7 0.19
ACGTcount: A:0.37, C:0.00, G:0.02, T:0.61
Consensus pattern (10 bp):
TTAATTTTAA
Found at i:39139749 original size:20 final size:20
Alignment explanation
Indices: 39139724--39139763 Score: 62
Period size: 20 Copynumber: 2.0 Consensus size: 20
39139714 GTAATAATAG
*
39139724 TAATTCAACCATATTAACAC
1 TAATTCAACCATATAAACAC
*
39139744 TAATTCATCCATATAAACAC
1 TAATTCAACCATATAAACAC
39139764 ATACCTTATT
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
20 18 1.00
ACGTcount: A:0.45, C:0.25, G:0.00, T:0.30
Consensus pattern (20 bp):
TAATTCAACCATATAAACAC
Found at i:39139966 original size:23 final size:23
Alignment explanation
Indices: 39139940--39140000 Score: 65
Period size: 22 Copynumber: 2.7 Consensus size: 23
39139930 CGCTATTGAA
39139940 CTGAAATGGTAAGCTC-TATCAAG
1 CTGAAATGGTAAGCTCATA-CAAG
* *
39139963 CTGAACA--ATAAGCTCATACTAG
1 CTGAA-ATGGTAAGCTCATACAAG
39139985 CTGAAATGGTAAGCTC
1 CTGAAATGGTAAGCTC
39140001 CAATGAGTTG
Statistics
Matches: 31, Mismatches: 3, Indels: 8
0.74 0.07 0.19
Matches are distributed among these distances:
21 1 0.03
22 15 0.48
23 14 0.45
24 1 0.03
ACGTcount: A:0.36, C:0.20, G:0.20, T:0.25
Consensus pattern (23 bp):
CTGAAATGGTAAGCTCATACAAG
Found at i:39142656 original size:43 final size:44
Alignment explanation
Indices: 39142503--39142667 Score: 139
Period size: 43 Copynumber: 3.8 Consensus size: 44
39142493 TTCCAACATG
* * *
39142503 TGATTTCGTGTAAGACCATGTCTGGGA-AGTTGGCATCGACT-TGA
1 TGATTACGTGTAAGACCATGTCTGGGACAGCTGGCATC-AATAT-A
* *
39142547 -GATCTACGTGTAAAACCATGTCTGGGACA--TAGGCATC-GTATA
1 TGAT-TACGTGTAAGACCATGTCTGGGACAGCT-GGCATCAATATA
* * * *
39142589 TGATTTCGTGTATGACCTTGTCTGGGACAG-TGGCATCAATATT
1 TGATTACGTGTAAGACCATGTCTGGGACAGCTGGCATCAATATA
* *
39142632 TGATTACATGTAAGACCACGTCTGGGAC-GCTGGCAT
1 TGATTACGTGTAAGACCATGTCTGGGACAGCTGGCAT
39142668 TGTACAGGCT
Statistics
Matches: 99, Mismatches: 14, Indels: 17
0.76 0.11 0.13
Matches are distributed among these distances:
42 30 0.30
43 41 0.41
44 27 0.27
45 1 0.01
ACGTcount: A:0.25, C:0.18, G:0.27, T:0.30
Consensus pattern (44 bp):
TGATTACGTGTAAGACCATGTCTGGGACAGCTGGCATCAATATA
Found at i:39163834 original size:16 final size:16
Alignment explanation
Indices: 39163802--39163834 Score: 50
Period size: 16 Copynumber: 2.1 Consensus size: 16
39163792 ATTATCTATC
*
39163802 TTATTTTATTTTATTT
1 TTATTTTATTATATTT
39163818 TTATTTTATTA-ATTT
1 TTATTTTATTATATTT
39163833 TT
1 TT
39163835 GAAGATTCTT
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
15 6 0.38
16 10 0.62
ACGTcount: A:0.21, C:0.00, G:0.00, T:0.79
Consensus pattern (16 bp):
TTATTTTATTATATTT
Found at i:39172676 original size:39 final size:39
Alignment explanation
Indices: 39172622--39172701 Score: 151
Period size: 39 Copynumber: 2.1 Consensus size: 39
39172612 ACCAAAATAC
39172622 ATAGATTCAAAAGTACCAAACTGATAGCTTGATAGTGTG
1 ATAGATTCAAAAGTACCAAACTGATAGCTTGATAGTGTG
*
39172661 ATAGATTCAAAAGTACCAAAGTGATAGCTTGATAGTGTG
1 ATAGATTCAAAAGTACCAAACTGATAGCTTGATAGTGTG
39172700 AT
1 AT
39172702 GAGGTCTTCG
Statistics
Matches: 40, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
39 40 1.00
ACGTcount: A:0.39, C:0.11, G:0.21, T:0.29
Consensus pattern (39 bp):
ATAGATTCAAAAGTACCAAACTGATAGCTTGATAGTGTG
Found at i:39176540 original size:47 final size:47
Alignment explanation
Indices: 39176417--39176551 Score: 166
Period size: 47 Copynumber: 2.9 Consensus size: 47
39176407 AATAAAGTAC
* * *
39176417 CAATGCCATGTCCCCGACATGGTCTTACATGAATC-CACATATCATAG
1 CAATGCCATGTCCCAGACATGGTCTTACA-CAAGCACACATATCATAG
* *
39176464 TCAATGCCATGTCCCAGACATGTTTTTACACAAGCACACATATCATTA-
1 -CAATGCCATGTCCCAGACATGGTCTTACACAAGCACACATATCA-TAG
* *
39176512 CGATGCCATGTCCCAGACATGGTCTTACACAGGCACACAT
1 CAATGCCATGTCCCAGACATGGTCTTACACAAGCACACAT
39176552 TAATATGGTG
Statistics
Matches: 76, Mismatches: 9, Indels: 5
0.84 0.10 0.06
Matches are distributed among these distances:
47 39 0.51
48 35 0.46
49 2 0.03
ACGTcount: A:0.30, C:0.30, G:0.15, T:0.25
Consensus pattern (47 bp):
CAATGCCATGTCCCAGACATGGTCTTACACAAGCACACATATCATAG
Found at i:39180480 original size:40 final size:40
Alignment explanation
Indices: 39180298--39180520 Score: 236
Period size: 40 Copynumber: 5.6 Consensus size: 40
39180288 TCCTCGTTCA
* * * * *
39180298 AATGCCTTCGGGACATAGCCCGGTTTTAGTAACTCACAC-
1 AATGCCTTCGGGACTTAACCCGGATTTAATAACTCGCACG
* *
39180337 AATGCCTTCGGGACATAACCCGGATTTAACAACTCGCACG
1 AATGCCTTCGGGACTTAACCCGGATTTAATAACTCGCACG
39180377 AATGCCTTCGGGACTTAACCCGGATTTAATAACTCGCACG
1 AATGCCTTCGGGACTTAACCCGGATTTAATAACTCGCACG
* * *
39180417 AATGCCTTCGGGACTTAACCCGGATTTAGTATCTCGCACA
1 AATGCCTTCGGGACTTAACCCGGATTTAATAACTCGCACG
* ** * * * *
39180457 AAGGCCTTC-GGATCTTAGTCCGGATATATTCACTTAGCAC-
1 AATGCCTTCGGGA-CTTAACCCGGATTTAATAAC-TCGCACG
* *
39180497 AAAGCCTTCGGGACTTAGCCCGGA
1 AATGCCTTCGGGACTTAACCCGGA
39180521 CAGCATTCAA
Statistics
Matches: 160, Mismatches: 20, Indels: 7
0.86 0.11 0.04
Matches are distributed among these distances:
39 37 0.23
40 115 0.72
41 8 0.05
ACGTcount: A:0.26, C:0.28, G:0.21, T:0.25
Consensus pattern (40 bp):
AATGCCTTCGGGACTTAACCCGGATTTAATAACTCGCACG
Found at i:39180529 original size:41 final size:41
Alignment explanation
Indices: 39180452--39180529 Score: 97
Period size: 40 Copynumber: 1.9 Consensus size: 41
39180442 TTAGTATCTC
* * *
39180452 GCACAAAGGCCTTCGGATCTTAGTCCGGATATATTCACTTA
1 GCACAAAGGCCTTCGGATCTTAGCCCGGACACATTCACTTA
39180493 GCACAAA-GCCTTCGGGA-CTTAGCCCGGACAGCATTCA
1 GCACAAAGGCCTTC-GGATCTTAGCCCGGACA-CATTCA
39180530 ATTAATCATG
Statistics
Matches: 32, Mismatches: 3, Indels: 4
0.82 0.08 0.10
Matches are distributed among these distances:
40 17 0.53
41 15 0.47
ACGTcount: A:0.27, C:0.28, G:0.22, T:0.23
Consensus pattern (41 bp):
GCACAAAGGCCTTCGGATCTTAGCCCGGACACATTCACTTA
Found at i:39188381 original size:40 final size:40
Alignment explanation
Indices: 39188199--39188421 Score: 227
Period size: 40 Copynumber: 5.6 Consensus size: 40
39188189 TCCTCGTTCA
* * * * *
39188199 AATGCCTTCGGGACATAGCCCGGTTTTAGTAACTCACAC-
1 AATGCCTTCGGGACTTAACCCGGATTTAATAACTCGCACG
* * *
39188238 AATGCCTTCGGGACATAACCCAGATTTAACAACTCGCACG
1 AATGCCTTCGGGACTTAACCCGGATTTAATAACTCGCACG
39188278 AATGCCTTCGGGACTTAACCCGGATTTAATAACTCGCACG
1 AATGCCTTCGGGACTTAACCCGGATTTAATAACTCGCACG
* * *
39188318 AATGCCTTCGGGACTTAACCCGGATTTAGTATCTCGCACA
1 AATGCCTTCGGGACTTAACCCGGATTTAATAACTCGCACG
* ** * * * *
39188358 AAGGCCTTC-GGATCTTAGTCCGGATATATTCACTTAGCAC-
1 AATGCCTTCGGGA-CTTAACCCGGATTTAATAAC-TCGCACG
* *
39188398 AAAGCCTTCGGGACTTAGCCCGGA
1 AATGCCTTCGGGACTTAACCCGGA
39188422 CAGCATTCAA
Statistics
Matches: 158, Mismatches: 22, Indels: 7
0.84 0.12 0.04
Matches are distributed among these distances:
39 36 0.23
40 114 0.72
41 8 0.05
ACGTcount: A:0.27, C:0.28, G:0.21, T:0.25
Consensus pattern (40 bp):
AATGCCTTCGGGACTTAACCCGGATTTAATAACTCGCACG
Found at i:39188430 original size:41 final size:41
Alignment explanation
Indices: 39188353--39188430 Score: 97
Period size: 40 Copynumber: 1.9 Consensus size: 41
39188343 TTAGTATCTC
* * *
39188353 GCACAAAGGCCTTCGGATCTTAGTCCGGATATATTCACTTA
1 GCACAAAGGCCTTCGGATCTTAGCCCGGACACATTCACTTA
39188394 GCACAAA-GCCTTCGGGA-CTTAGCCCGGACAGCATTCA
1 GCACAAAGGCCTTC-GGATCTTAGCCCGGACA-CATTCA
39188431 ATTAATCATG
Statistics
Matches: 32, Mismatches: 3, Indels: 4
0.82 0.08 0.10
Matches are distributed among these distances:
40 17 0.53
41 15 0.47
ACGTcount: A:0.27, C:0.28, G:0.22, T:0.23
Consensus pattern (41 bp):
GCACAAAGGCCTTCGGATCTTAGCCCGGACACATTCACTTA
Found at i:39193113 original size:27 final size:27
Alignment explanation
Indices: 39192983--39193113 Score: 154
Period size: 27 Copynumber: 4.9 Consensus size: 27
39192973 ATTACCAAAG
* * *
39192983 TACCCCCGATTTACATAATTACCGTTT
1 TACCCTCGATTTACAAAATTACTGTTT
* *
39193010 TACCCTCAATTTACAAAATTACCGTTT
1 TACCCTCGATTTACAAAATTACTGTTT
* * * *
39193037 TACCCTTGATTTATAGAATTACTATTT
1 TACCCTCGATTTACAAAATTACTGTTT
* * *
39193064 TACCCTTGATTTATAGAATTACTGTTT
1 TACCCTCGATTTACAAAATTACTGTTT
39193091 TACCCTCGATTTACAAAATTACT
1 TACCCTCGATTTACAAAATTACT
39193114 AAAATACCCT
Statistics
Matches: 91, Mismatches: 13, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
27 91 1.00
ACGTcount: A:0.30, C:0.22, G:0.07, T:0.41
Consensus pattern (27 bp):
TACCCTCGATTTACAAAATTACTGTTT
Found at i:39193121 original size:27 final size:27
Alignment explanation
Indices: 39193091--39193337 Score: 170
Period size: 27 Copynumber: 9.2 Consensus size: 27
39193081 ATTACTGTTT
*
39193091 TACCCTCGATTTACAAAATTACTAAAA
1 TACCCTCGATTTACAAAATTACCAAAA
* *
39193118 TACCCTTGGTTTACAAAATTACCAAAA
1 TACCCTCGATTTACAAAATTACCAAAA
* *
39193145 TACCCTCGA-TCAGTAAAATTACCAAAA
1 TACCCTCGATTTA-CAAAATTACCAAAA
* * ** * *
39193172 TACCCT-GGTCTGTAAAATTGCTAAAA
1 TACCCTCGATTTACAAAATTACCAAAA
* *
39193198 TACCC-CTGGTTTATAAAATTACCAAAA
1 TACCCTC-GATTTACAAAATTACCAAAA
* **
39193225 TACCC-CTAGTTTGTAAAATTACCAAAA
1 TACCCTCGA-TTTACAAAATTACCAAAA
* * *
39193252 TACCACT-GGTTGT--GAAATTACCGAAA
1 TACC-CTCGATT-TACAAAATTACCAAAA
* **
39193278 TACCCTCAATTTGTAAAATTACCAAAA
1 TACCCTCGATTTACAAAATTACCAAAA
39193305 TACCC-CTGATTTACAAAATTA-CAGAAA
1 TACCCTC-GATTTACAAAATTACCA-AAA
39193332 TACCCT
1 TACCCT
39193338 TGACTTTCTG
Statistics
Matches: 175, Mismatches: 31, Indels: 27
0.75 0.13 0.12
Matches are distributed among these distances:
25 3 0.02
26 40 0.23
27 130 0.74
28 2 0.01
ACGTcount: A:0.40, C:0.23, G:0.09, T:0.28
Consensus pattern (27 bp):
TACCCTCGATTTACAAAATTACCAAAA
Found at i:39193122 original size:54 final size:54
Alignment explanation
Indices: 39193018--39193140 Score: 156
Period size: 54 Copynumber: 2.3 Consensus size: 54
39193008 TTTACCCTCA
* * * ***
39193018 ATTTACAAAATTACCGTTTTACCCTTGATTTATAGAATTACTATTTTACCCTTG
1 ATTTACAAAATTACCGTTTTACCCTCGATTTACAAAATTACTAAAATACCCTTG
* * *
39193072 ATTTATAGAATTACTGTTTTACCCTCGATTTACAAAATTACTAAAATACCCTTG
1 ATTTACAAAATTACCGTTTTACCCTCGATTTACAAAATTACTAAAATACCCTTG
*
39193126 GTTTACAAAATTACC
1 ATTTACAAAATTACC
39193141 AAAATACCCT
Statistics
Matches: 56, Mismatches: 13, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
54 56 1.00
ACGTcount: A:0.33, C:0.19, G:0.07, T:0.41
Consensus pattern (54 bp):
ATTTACAAAATTACCGTTTTACCCTCGATTTACAAAATTACTAAAATACCCTTG
Found at i:39193149 original size:81 final size:81
Alignment explanation
Indices: 39192969--39193247 Score: 222
Period size: 81 Copynumber: 3.5 Consensus size: 81
39192959 CCTCGACTTG
* * * * * **
39192969 TAAAATTACCAAAGTACCCCCGATTTACATAATTACCGTTTTACCCTCAATTTACAAAATTACCG
1 TAAAATTACCAAAATACCCTCGATTTATAAAATTACCGTTTTACCCTCGATTTACAAAATTACTA
*** *
39193034 TTTTACCCTTGATTTA
66 AAATACCCTTGGTTTA
* * *** * * *
39193050 TAGAATTACTATTTTACCCTTGATTTATAGAATTACTGTTTTACCCTCGATTTACAAAATTACTA
1 TAAAATTACCAAAATACCCTCGATTTATAAAATTACCGTTTTACCCTCGATTTACAAAATTACTA
39193115 AAATACCCTTGGTTTA
66 AAATACCCTTGGTTTA
* * **** * * ** *
39193131 CAAAATTACCAAAATACCCTCGA-TCAGTAAAATTACCAAAATACCCT-GGTCTGTAAAATTGCT
1 TAAAATTACCAAAATACCCTCGATTTA-TAAAATTACCGTTTTACCCTCGATTTACAAAATTACT
*
39193194 AAAATACCCCTGGTTTA
65 AAAATACCCTTGGTTTA
* *
39193211 TAAAATTACCAAAATACCC-CTAGTTTGTAAAATTACC
1 TAAAATTACCAAAATACCCTCGA-TTTATAAAATTACC
39193248 AAAATACCAC
Statistics
Matches: 154, Mismatches: 41, Indels: 7
0.76 0.20 0.03
Matches are distributed among these distances:
79 2 0.01
80 57 0.37
81 95 0.62
ACGTcount: A:0.36, C:0.22, G:0.08, T:0.34
Consensus pattern (81 bp):
TAAAATTACCAAAATACCCTCGATTTATAAAATTACCGTTTTACCCTCGATTTACAAAATTACTA
AAATACCCTTGGTTTA
Found at i:39193210 original size:80 final size:80
Alignment explanation
Indices: 39193105--39193310 Score: 247
Period size: 80 Copynumber: 2.6 Consensus size: 80
39193095 CTCGATTTAC
*
39193105 AAAATTACTAAAATACCCTTGGTTTACAAAATTACCAAAATACCCTCGA-TCAGTAAAATTACCA
1 AAAATTACTAAAATACCCCTGGTTTACAAAATTACCAAAATACCC-CGAGTCAGTAAAATTACCA
39193169 AAATACC-CTGGTCTGT
65 AAATACCACTGGT-TGT
* * * **
39193185 AAAATTGCTAAAATACCCCTGGTTTATAAAATTACCAAAATACCCCTAGTTTGTAAAATTACCAA
1 AAAATTACTAAAATACCCCTGGTTTACAAAATTACCAAAATACCCCGAGTCAGTAAAATTACCAA
39193250 AATACCACTGGTTGT
66 AATACCACTGGTTGT
* ** ** **
39193265 GAAATTACCGAAATA-CCCTCAATTTGTAAAATTACCAAAATACCCC
1 AAAATTACTAAAATACCCCT-GGTTTACAAAATTACCAAAATACCCC
39193311 TGATTTACAA
Statistics
Matches: 110, Mismatches: 13, Indels: 6
0.85 0.10 0.05
Matches are distributed among these distances:
79 6 0.05
80 99 0.90
81 5 0.05
ACGTcount: A:0.41, C:0.22, G:0.09, T:0.28
Consensus pattern (80 bp):
AAAATTACTAAAATACCCCTGGTTTACAAAATTACCAAAATACCCCGAGTCAGTAAAATTACCAA
AATACCACTGGTTGT
Found at i:39193215 original size:53 final size:53
Alignment explanation
Indices: 39193100--39193419 Score: 243
Period size: 53 Copynumber: 5.9 Consensus size: 53
39193090 TTACCCTCGA
* * * ** *
39193100 TTTACAAAATTACTAAAATACCCTTGGTTTACAAAATTACCAAAATA-CCCTCG
1 TTTATAAAATTACCAAAATACCC-TAGTTTGTAAAATTACCAAAATACCCCTGG
* * * * * *
39193153 ATCAGTAAAATTACCAAAATACCCTGGTCTGTAAAATTGCTAAAATACCCCTGG
1 TTTA-TAAAATTACCAAAATACCCTAGTTTGTAAAATTACCAAAATACCCCTGG
*
39193207 TTTATAAAATTACCAAAATACCCCTAGTTTGTAAAATTACCAAAATACCACTGG
1 TTTATAAAATTACCAAAATA-CCCTAGTTTGTAAAATTACCAAAATACCCCTGG
* * * * *
39193261 -TTGTGAAATTACCGAAATACCCTCAATTTGTAAAATTACCAAAATACCCCTGA
1 TTTATAAAATTACCAAAATACCCT-AGTTTGTAAAATTACCAAAATACCCCTGG
* * * * **
39193314 TTTACAAAATTA-CAGAAATACCCTTGACTTTCTGAAAATTA-TAGAAATACCTTTGG
1 TTTATAAAATTACCA-AAATACCC-T-AGTTTGT-AAAATTACCA-AAATACCCCTGG
* ** * * * *
39193370 TTTACAAAATTACTGAAATAACCCTGGTTTGTAGATTTACCAAAACACCC
1 TTTATAAAATTACCAAAAT-ACCCTAGTTTGTAAAATTACCAAAATACCC
39193420 TTGTAGGGTG
Statistics
Matches: 211, Mismatches: 44, Indels: 23
0.76 0.16 0.08
Matches are distributed among these distances:
52 4 0.02
53 79 0.37
54 79 0.37
55 12 0.06
56 33 0.16
57 4 0.02
ACGTcount: A:0.40, C:0.21, G:0.09, T:0.30
Consensus pattern (53 bp):
TTTATAAAATTACCAAAATACCCTAGTTTGTAAAATTACCAAAATACCCCTGG
Found at i:39193323 original size:80 final size:80
Alignment explanation
Indices: 39193105--39193337 Score: 235
Period size: 80 Copynumber: 2.9 Consensus size: 80
39193095 CTCGATTTAC
* * ** * *
39193105 AAAATTACTAAAATACCCTTGGTTTACAAAATTACCAAAATA-CCCTCGA-TCAGTAAAATTACC
1 AAAATTACCAAAATACCCCTAATTTATAAAATTACCAAAATACCCCT-GATTTA-TAAAATTACC
39193168 AAAATACCCTGGTCTGT
64 AAAATACCCTGGTCTGT
* * ** *
39193185 AAAATTGCTAAAATACCCCTGGTTTATAAAATTACCAAAATACCCCT-AGTTTGTAAAATTACCA
1 AAAATTACCAAAATACCCCTAATTTATAAAATTACCAAAATACCCCTGA-TTTATAAAATTACCA
39193249 AAATACCACTGGT-TGT
65 AAATACC-CTGGTCTGT
* * * *
39193265 GAAATTACCGAAATA-CCCTCAATTTGTAAAATTACCAAAATACCCCTGATTTACAAAATTA-CA
1 AAAATTACCAAAATACCCCT-AATTTATAAAATTACCAAAATACCCCTGATTTATAAAATTACCA
39193328 GAAATACCCT
65 -AAATACCCT
39193338 TGACTTTCTG
Statistics
Matches: 132, Mismatches: 14, Indels: 15
0.82 0.09 0.09
Matches are distributed among these distances:
79 9 0.07
80 112 0.85
81 11 0.08
ACGTcount: A:0.42, C:0.22, G:0.09, T:0.28
Consensus pattern (80 bp):
AAAATTACCAAAATACCCCTAATTTATAAAATTACCAAAATACCCCTGATTTATAAAATTACCAA
AATACCCTGGTCTGT
Found at i:39193517 original size:27 final size:27
Alignment explanation
Indices: 39193411--39193517 Score: 94
Period size: 27 Copynumber: 3.9 Consensus size: 27
39193401 TAGATTTACC
*
39193411 AAAACACCCTTGTAGGGTGAAATGA-C-T
1 AAAAC-CCC-TGTAGGGTAAAATGACCGT
* *
39193438 AAAATACCCCTATTA-GGTAAAAAGACCGT
1 -AAA-ACCCCT-GTAGGGTAAAATGACCGT
* *
39193467 AAAGCCCCTGTAGGGTAAAGTGACCGT
1 AAAACCCCTGTAGGGTAAAATGACCGT
*
39193494 AAAACCCCTGTATGGTAAAATGAC
1 AAAACCCCTGTAGGGTAAAATGAC
39193518 GAATATGCCC
Statistics
Matches: 64, Mismatches: 10, Indels: 11
0.75 0.12 0.13
Matches are distributed among these distances:
26 2 0.03
27 47 0.73
28 12 0.19
29 3 0.05
ACGTcount: A:0.38, C:0.21, G:0.21, T:0.21
Consensus pattern (27 bp):
AAAACCCCTGTAGGGTAAAATGACCGT
Found at i:39194716 original size:24 final size:24
Alignment explanation
Indices: 39194586--39194715 Score: 206
Period size: 24 Copynumber: 5.4 Consensus size: 24
39194576 CTGGAAGCCT
* *
39194586 AGCCTCTTTTAATTACTGGGGCAAA
1 AGCC-CTTTTAATAACTGGGGCATA
39194611 AGCCCTTTTAATAACTGGGGCATA
1 AGCCCTTTTAATAACTGGGGCATA
39194635 AGCCCTTTTAATAACTGGGGCATA
1 AGCCCTTTTAATAACTGGGGCATA
* *
39194659 AGCCTTTTTAGTAACTGGGGCATA
1 AGCCCTTTTAATAACTGGGGCATA
*
39194683 AGCCCTTTTGATAACTGGGGCATA
1 AGCCCTTTTAATAACTGGGGCATA
39194707 AGCCCTTTT
1 AGCCCTTTT
39194716 GCACTTCCTC
Statistics
Matches: 98, Mismatches: 7, Indels: 1
0.92 0.07 0.01
Matches are distributed among these distances:
24 94 0.96
25 4 0.04
ACGTcount: A:0.26, C:0.21, G:0.22, T:0.32
Consensus pattern (24 bp):
AGCCCTTTTAATAACTGGGGCATA
Found at i:39197790 original size:31 final size:31
Alignment explanation
Indices: 39197755--39197868 Score: 185
Period size: 31 Copynumber: 3.7 Consensus size: 31
39197745 GTTTACAGTA
*
39197755 AAGGCTTCGGCCCAGAGATATGATTTATGAT
1 AAGGCTTCGGCCCAGTGATATGATTTATGAT
39197786 AAGGCTTCGGCCCAGTGATATGATTTATGAT
1 AAGGCTTCGGCCCAGTGATATGATTTATGAT
* * *
39197817 AAGGCTTCGACCCAGTGATGTGATTTATGAA
1 AAGGCTTCGGCCCAGTGATATGATTTATGAT
39197848 AAGGCTTCGGCCCAGT-ATATG
1 AAGGCTTCGGCCCAGTGATATG
39197869 CCAAGACTAA
Statistics
Matches: 77, Mismatches: 6, Indels: 1
0.92 0.07 0.01
Matches are distributed among these distances:
30 4 0.05
31 73 0.95
ACGTcount: A:0.27, C:0.18, G:0.26, T:0.29
Consensus pattern (31 bp):
AAGGCTTCGGCCCAGTGATATGATTTATGAT
Found at i:39200277 original size:27 final size:27
Alignment explanation
Indices: 39200147--39200277 Score: 147
Period size: 27 Copynumber: 4.9 Consensus size: 27
39200137 ATTACCAAAG
* * *
39200147 TACCCCCGATTTACATAATTACCGTTT
1 TACCCTCGATTTACAGAATTACTGTTT
* *
39200174 TACTCTCAATTTACAGAATTA-TCGTTT
1 TACCCTCGATTTACAGAATTACT-GTTT
* * *
39200201 TAACCTCGATTTATAGAATTACTATTT
1 TACCCTCGATTTACAGAATTACTGTTT
* *
39200228 TACCCTTGATTTGCAGAATTACTGTTT
1 TACCCTCGATTTACAGAATTACTGTTT
*
39200255 TACCCTCGATTTACAAAATTACT
1 TACCCTCGATTTACAGAATTACT
39200278 AAAATACCCT
Statistics
Matches: 84, Mismatches: 18, Indels: 4
0.79 0.17 0.04
Matches are distributed among these distances:
27 83 0.99
28 1 0.01
ACGTcount: A:0.29, C:0.21, G:0.08, T:0.41
Consensus pattern (27 bp):
TACCCTCGATTTACAGAATTACTGTTT
Found at i:39200303 original size:54 final size:55
Alignment explanation
Indices: 39200182--39200303 Score: 142
Period size: 54 Copynumber: 2.3 Consensus size: 55
39200172 TTTACTCTCA
* * ***
39200182 ATTTACAGAATTA-TCGTTTTAACCTCGATTTATAGAATTACTATTTTACCCTTG
1 ATTTACAGAATTACTCGTTTTAACCTCGATTTACAAAATTACTAAAATACCCTTG
* *
39200236 ATTTGCAGAATTACT-GTTTTACCCTCGATTTACAAAATTACTAAAATACCCTT-
1 ATTTACAGAATTACTCGTTTTAACCTCGATTTACAAAATTACTAAAATACCCTTG
*
39200289 AGTTTACAAAATTAC
1 A-TTTACAGAATTAC
39200304 CAAAATACCC
Statistics
Matches: 57, Mismatches: 9, Indels: 4
0.81 0.13 0.06
Matches are distributed among these distances:
53 1 0.02
54 55 0.96
55 1 0.02
ACGTcount: A:0.34, C:0.18, G:0.08, T:0.40
Consensus pattern (55 bp):
ATTTACAGAATTACTCGTTTTAACCTCGATTTACAAAATTACTAAAATACCCTTG
Found at i:39200313 original size:54 final size:54
Alignment explanation
Indices: 39200255--39200584 Score: 271
Period size: 53 Copynumber: 6.1 Consensus size: 54
39200245 ATTACTGTTT
**
39200255 TACCCTCGATTTACAAAATTACTAAAATACCCTTAGTTTACAAAATTACCAAAA
1 TACCCTCGATTTACAAAATTACTAAAATACCCTTAGTTTGTAAAATTACCAAAA
* * * * * *
39200309 TACCCTCGA-TCAGTAAAATTACCAAAATACCC-TAGTCTGTAAAATTGCTAAAA
1 TACCCTCGATTTA-CAAAATTACTAAAATACCCTTAGTTTGTAAAATTACCAAAA
* * * * *
39200362 TACCCTTGGTTTATAAAATTACCAAAATACCCCTAGTTTGTAAAATTACCAAAA
1 TACCCTCGATTTACAAAATTACTAAAATACCCTTAGTTTGTAAAATTACCAAAA
* * * * *
39200416 TACCACT-GGTTGT--GAAATTACTGAAATACCCTCAATTTGTAAAATTACCAAAA
1 TACC-CTCGATT-TACAAAATTACTAAAATACCCTTAGTTTGTAAAATTACCAAAA
* * *
39200469 TACCC-CTGATTTACAAAATTAC-AGAAATACCCTTGACTTTCTAAAAATTA-TAGAAA
1 TACCCTC-GATTTACAAAATTACTA-AAATACCCTT-AGTTTGT-AAAATTACCA-AAA
* * * * * * *
39200525 TACCATTGGTTTACAAAATTACTGAAATACCCTTGGTTTGTAGATTTACCAAAA
1 TACCCTCGATTTACAAAATTACTAAAATACCCTTAGTTTGTAAAATTACCAAAA
*
39200579 CACCCT
1 TACCCT
39200585 TGTAAGGTGA
Statistics
Matches: 221, Mismatches: 39, Indels: 32
0.76 0.13 0.11
Matches are distributed among these distances:
52 2 0.01
53 85 0.38
54 82 0.37
55 14 0.06
56 38 0.17
ACGTcount: A:0.40, C:0.21, G:0.08, T:0.30
Consensus pattern (54 bp):
TACCCTCGATTTACAAAATTACTAAAATACCCTTAGTTTGTAAAATTACCAAAA
Found at i:39200407 original size:107 final size:107
Alignment explanation
Indices: 39200255--39200500 Score: 291
Period size: 107 Copynumber: 2.3 Consensus size: 107
39200245 ATTACTGTTT
* * *
39200255 TACCCTCGATTTACAAAATTACTAAAATACCCTTAGTTTACAAAATTACCAAAATACC-CTCGAT
1 TACCCTTGATTTACAAAATTACCAAAATACCCCTAGTTTACAAAATTACCAAAATACCACT-GAT
* * *
39200319 CAGTAAAATTACCAAAATACCCT-AGTCTGTAAAATTGCTAAAA
65 -AGTAAAATTACCAAAATACCCTCAATCTGTAAAATTACCAAAA
* * ** * *
39200362 TACCCTTGGTTTATAAAATTACCAAAATACCCCTAGTTTGTAAAATTACCAAAATACCACTGGTT
1 TACCCTTGATTTACAAAATTACCAAAATACCCCTAGTTTACAAAATTACCAAAATACCACTGATA
* ** *
39200427 GTGAAATTACTGAAATACCCTCAATTTGTAAAATTACCAAAA
66 GTAAAATTACCAAAATACCCTCAATCTGTAAAATTACCAAAA
*
39200469 TACCCCTGATTTACAAAATTA-CAGAAATACCC
1 TACCCTTGATTTACAAAATTACCA-AAATACCC
39200501 TTGACTTTCT
Statistics
Matches: 117, Mismatches: 19, Indels: 6
0.82 0.13 0.04
Matches are distributed among these distances:
106 20 0.17
107 95 0.81
108 2 0.02
ACGTcount: A:0.41, C:0.22, G:0.08, T:0.29
Consensus pattern (107 bp):
TACCCTTGATTTACAAAATTACCAAAATACCCCTAGTTTACAAAATTACCAAAATACCACTGATA
GTAAAATTACCAAAATACCCTCAATCTGTAAAATTACCAAAA
Found at i:39200487 original size:80 final size:80
Alignment explanation
Indices: 39200269--39200501 Score: 278
Period size: 80 Copynumber: 2.9 Consensus size: 80
39200259 CTCGATTTAC
* *
39200269 AAAATTACTAAAATACCCTTAGTTTACAAAATTACCAAAATA-CCCTCGA-TCAGTAAAATTACC
1 AAAATTACTAAAATACCCTTAGTTTATAAAATTACCAAAATACCCCT-GATTTA-TAAAATTACC
39200332 AAAATACCCTAGTCTGT
64 AAAATACCCTAGTCTGT
* * *
39200349 AAAATTGCTAAAATACCCTTGGTTTATAAAATTACCAAAATACCCCT-AGTTTGTAAAATTACCA
1 AAAATTACTAAAATACCCTTAGTTTATAAAATTACCAAAATACCCCTGA-TTTATAAAATTACCA
*
39200413 AAATACCACTGGT-TGT
65 AAATACC-CTAGTCTGT
* * * * * *
39200429 GAAATTACTGAAATACCCTCAATTTGTAAAATTACCAAAATACCCCTGATTTACAAAATTA-CAG
1 AAAATTACTAAAATACCCTTAGTTTATAAAATTACCAAAATACCCCTGATTTATAAAATTACCA-
39200493 AAATACCCT
65 AAATACCCT
39200502 TGACTTTCTA
Statistics
Matches: 132, Mismatches: 15, Indels: 13
0.82 0.09 0.08
Matches are distributed among these distances:
79 5 0.04
80 117 0.89
81 10 0.08
ACGTcount: A:0.42, C:0.21, G:0.08, T:0.29
Consensus pattern (80 bp):
AAAATTACTAAAATACCCTTAGTTTATAAAATTACCAAAATACCCCTGATTTATAAAATTACCAA
AATACCCTAGTCTGT
Found at i:39200551 original size:27 final size:27
Alignment explanation
Indices: 39200255--39200563 Score: 184
Period size: 27 Copynumber: 11.4 Consensus size: 27
39200245 ATTACTGTTT
* *
39200255 TACCCTCGATTTACAAAATTACTAAAA
1 TACCCTTGGTTTACAAAATTACTAAAA
* *
39200282 TACCCTTAGTTTACAAAATTACCAAAA
1 TACCCTTGGTTTACAAAATTACTAAAA
* * * * *
39200309 TACCC-TCGATCAGTAAAATTACCAAAA
1 TACCCTTGGTTTA-CAAAATTACTAAAA
* * ** *
39200336 TACCC-TAGTCTGTAAAATTGCTAAAA
1 TACCCTTGGTTTACAAAATTACTAAAA
* *
39200362 TACCCTTGGTTTATAAAATTACCAAAA
1 TACCCTTGGTTTACAAAATTACTAAAA
* * ** *
39200389 TACCCCTAGTTTGTAAAATTACCAAAA
1 TACCCTTGGTTTACAAAATTACTAAAA
* *
39200416 TACCAC-TGGTTGT--GAAATTACTGAAA
1 TACC-CTTGGTT-TACAAAATTACTAAAA
*** ** *
39200442 TACCCTCAATTTGTAAAATTACCAAAA
1 TACCCTTGGTTTACAAAATTACTAAAA
* *
39200469 TACCCCTGATTTACAAAATTAC-AGAAA
1 TACCCTTGGTTTACAAAATTACTA-AAA
*
39200496 TACCCTTGACTTT-CTAAAAATTA-TAGAAA
1 TACCCTTG-GTTTAC--AAAATTACTA-AAA
* *
39200525 TACCATTGGTTTACAAAATTACTGAAA
1 TACCCTTGGTTTACAAAATTACTAAAA
39200552 TACCCTTGGTTT
1 TACCCTTGGTTT
39200564 GTAGATTTAC
Statistics
Matches: 224, Mismatches: 44, Indels: 28
0.76 0.15 0.09
Matches are distributed among these distances:
25 2 0.01
26 38 0.17
27 155 0.69
28 9 0.04
29 20 0.09
ACGTcount: A:0.40, C:0.20, G:0.08, T:0.31
Consensus pattern (27 bp):
TACCCTTGGTTTACAAAATTACTAAAA
Found at i:39200647 original size:27 final size:26
Alignment explanation
Indices: 39200617--39200676 Score: 66
Period size: 27 Copynumber: 2.3 Consensus size: 26
39200607 ACCCCTATTA
*
39200617 GGTAAAAAGACCGTAAAGCCCCTGTAG
1 GGTAAAAAGACCGTAAA-ACCCTGTAG
*** *
39200644 GGTAAGGTGACCGTAAAACCCTGTAT
1 GGTAAAAAGACCGTAAAACCCTGTAG
39200670 GGTAAAA
1 GGTAAAA
39200677 TGACGAATAT
Statistics
Matches: 26, Mismatches: 7, Indels: 1
0.76 0.21 0.03
Matches are distributed among these distances:
26 12 0.46
27 14 0.54
ACGTcount: A:0.37, C:0.18, G:0.27, T:0.18
Consensus pattern (26 bp):
GGTAAAAAGACCGTAAAACCCTGTAG
Found at i:39200680 original size:26 final size:27
Alignment explanation
Indices: 39200617--39200680 Score: 76
Period size: 26 Copynumber: 2.4 Consensus size: 27
39200607 ACCCCTATTA
* *
39200617 GGTAAAAAGACCGTAAAGCCCCTGTAG
1 GGTAAAATGACCGTAAAGACCCTGTAG
** *
39200644 GGTAAGGTGACCGTAAA-ACCCTGTAT
1 GGTAAAATGACCGTAAAGACCCTGTAG
39200670 GGTAAAATGAC
1 GGTAAAATGAC
39200681 GAATATGCCC
Statistics
Matches: 30, Mismatches: 7, Indels: 1
0.79 0.18 0.03
Matches are distributed among these distances:
26 16 0.53
27 14 0.47
ACGTcount: A:0.36, C:0.19, G:0.27, T:0.19
Consensus pattern (27 bp):
GGTAAAATGACCGTAAAGACCCTGTAG
Found at i:39201535 original size:25 final size:25
Alignment explanation
Indices: 39201489--39201581 Score: 136
Period size: 25 Copynumber: 3.8 Consensus size: 25
39201479 AGGAAGTGCT
*
39201489 AAAAGGGCTATG-CCCAGTTTACCG
1 AAAAGGGCTTTGCCCCAGTTTACCG
*
39201513 AAAAGGGCTTTGCCCCAATTTACCG
1 AAAAGGGCTTTGCCCCAGTTTACCG
*
39201538 AAAAGGGCTTTGCCCCAGTTTATC-
1 AAAAGGGCTTTGCCCCAGTTTACCG
*
39201562 AAAAAGGCTTTGCCCCAGTT
1 AAAAGGGCTTTGCCCCAGTT
39201582 ATTAAAAGAG
Statistics
Matches: 63, Mismatches: 5, Indels: 2
0.90 0.07 0.03
Matches are distributed among these distances:
24 30 0.48
25 33 0.52
ACGTcount: A:0.28, C:0.26, G:0.22, T:0.25
Consensus pattern (25 bp):
AAAAGGGCTTTGCCCCAGTTTACCG
Found at i:39201588 original size:23 final size:24
Alignment explanation
Indices: 39201501--39201594 Score: 100
Period size: 25 Copynumber: 3.8 Consensus size: 24
39201491 AAGGGCTATG
* *
39201501 CCCAGTTTACCGAAAAGGGCTTTGC
1 CCCAGTTTATC-AAAAAGGCTTTGC
* * *
39201526 CCCAATTTACCGAAAAGGGCTTTGC
1 CCCAGTTTATC-AAAAAGGCTTTGC
39201551 CCCAGTTTATCAAAAAGGCTTTGC
1 CCCAGTTTATCAAAAAGGCTTTGC
*
39201575 CCCAG-TTATTAAAAGAGGCT
1 CCCAGTTTATCAAAA-AGGCT
39201595 AGGCCTCTAA
Statistics
Matches: 63, Mismatches: 5, Indels: 3
0.89 0.07 0.04
Matches are distributed among these distances:
23 8 0.13
24 22 0.35
25 33 0.52
ACGTcount: A:0.29, C:0.26, G:0.20, T:0.26
Consensus pattern (24 bp):
CCCAGTTTATCAAAAAGGCTTTGC
Found at i:39201593 original size:24 final size:25
Alignment explanation
Indices: 39201489--39201594 Score: 107
Period size: 24 Copynumber: 4.4 Consensus size: 25
39201479 AGGAAGTGCT
* *
39201489 AAAAG-GGCTATG-CCCAGTTTACC
1 AAAAGAGGCTTTGCCCCAGTTTATC
* *
39201512 GAAAAG-GGCTTTGCCCCAATTTACC
1 -AAAAGAGGCTTTGCCCCAGTTTATC
39201537 GAAAAG-GGCTTTGCCCCAGTTTATC
1 -AAAAGAGGCTTTGCCCCAGTTTATC
*
39201562 AAAA-AGGCTTTGCCCCAG-TTATT
1 AAAAGAGGCTTTGCCCCAGTTTATC
39201585 AAAAGAGGCT
1 AAAAGAGGCT
39201595 AGGCCTCTAA
Statistics
Matches: 74, Mismatches: 5, Indels: 6
0.87 0.06 0.07
Matches are distributed among these distances:
23 8 0.11
24 33 0.45
25 33 0.45
ACGTcount: A:0.30, C:0.24, G:0.22, T:0.25
Consensus pattern (25 bp):
AAAAGAGGCTTTGCCCCAGTTTATC
Found at i:39201836 original size:31 final size:31
Alignment explanation
Indices: 39201801--39201945 Score: 256
Period size: 31 Copynumber: 4.7 Consensus size: 31
39201791 TTTTACAGTA
*
39201801 AAGGCTTCGGCCCAGAGATATGATTTATGAT
1 AAGGCTTCGGCCCAGTGATATGATTTATGAT
39201832 AAGGCTTCGGCCCAGTGATATGATTTATGAT
1 AAGGCTTCGGCCCAGTGATATGATTTATGAT
39201863 AAGGCTTCGGCCCAGTGATATGATTTATGAT
1 AAGGCTTCGGCCCAGTGATATGATTTATGAT
* *
39201894 AAGGCTTCGGCCCAGTGATGTGATTTATGAA
1 AAGGCTTCGGCCCAGTGATATGATTTATGAT
39201925 AAGGCTTCGGCCCAGT-ATATG
1 AAGGCTTCGGCCCAGTGATATG
39201946 CCAAGACTAA
Statistics
Matches: 110, Mismatches: 4, Indels: 1
0.96 0.03 0.01
Matches are distributed among these distances:
30 4 0.04
31 106 0.96
ACGTcount: A:0.26, C:0.17, G:0.27, T:0.30
Consensus pattern (31 bp):
AAGGCTTCGGCCCAGTGATATGATTTATGAT
Found at i:39213287 original size:24 final size:24
Alignment explanation
Indices: 39213259--39213327 Score: 95
Period size: 24 Copynumber: 2.9 Consensus size: 24
39213249 TCAGGAGAAG
39213259 TTTAGGTGCTGATAAGGGAGAGGA
1 TTTAGGTGCTGATAAGGGAGAGGA
*
39213283 TTTAGAAT-CTGATAAGGGAGAGGA
1 TTTAG-GTGCTGATAAGGGAGAGGA
* *
39213307 TTTAGGAGCTGATTAGGGAGA
1 TTTAGGTGCTGATAAGGGAGA
39213328 ACGGTGTTGG
Statistics
Matches: 39, Mismatches: 4, Indels: 4
0.83 0.09 0.09
Matches are distributed among these distances:
24 38 0.97
25 1 0.03
ACGTcount: A:0.32, C:0.04, G:0.38, T:0.26
Consensus pattern (24 bp):
TTTAGGTGCTGATAAGGGAGAGGA
Found at i:39214202 original size:92 final size:92
Alignment explanation
Indices: 39214045--39214236 Score: 357
Period size: 92 Copynumber: 2.1 Consensus size: 92
39214035 TTTATCTTGA
39214045 TGATAGTGTGATATAGAGGCTGCTGATCAAGGACTTGGACAAGGGGAACAACTGGATCTAAATCT
1 TGATAGTGTGATATAGAGGCTGCTGATCAAGGACTTGGACAAGGGGAACAACTGGATCTAAATCT
* *
39214110 AGTTGCTAACTTCGGCAAAGGTAGGAT
66 AGTCGCTAACTTCGACAAAGGTAGGAT
39214137 TGATAGTGTGATATAGAGGCTGCTGATCAAGGACTTGGACAAGGGGAACAACTGGATCTAAATCT
1 TGATAGTGTGATATAGAGGCTGCTGATCAAGGACTTGGACAAGGGGAACAACTGGATCTAAATCT
39214202 AGTCGCTAACTTCGACAAAGGTAGGAT
66 AGTCGCTAACTTCGACAAAGGTAGGAT
*
39214229 TGCTAGTG
1 TGATAGTG
39214237 CCTAAGGTGT
Statistics
Matches: 97, Mismatches: 3, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
92 97 1.00
ACGTcount: A:0.31, C:0.15, G:0.29, T:0.25
Consensus pattern (92 bp):
TGATAGTGTGATATAGAGGCTGCTGATCAAGGACTTGGACAAGGGGAACAACTGGATCTAAATCT
AGTCGCTAACTTCGACAAAGGTAGGAT
Found at i:39214471 original size:17 final size:17
Alignment explanation
Indices: 39214449--39214491 Score: 50
Period size: 17 Copynumber: 2.5 Consensus size: 17
39214439 TTTGGGAACT
39214449 TGGTAGTTAGATGAATG
1 TGGTAGTTAGATGAATG
* * *
39214466 TGGTAGTAATATGATTG
1 TGGTAGTTAGATGAATG
39214483 TAGGTAGTT
1 T-GGTAGTT
39214492 CTTGCGTGGA
Statistics
Matches: 21, Mismatches: 4, Indels: 1
0.81 0.15 0.04
Matches are distributed among these distances:
17 15 0.71
18 6 0.29
ACGTcount: A:0.28, C:0.00, G:0.33, T:0.40
Consensus pattern (17 bp):
TGGTAGTTAGATGAATG
Found at i:39214554 original size:160 final size:160
Alignment explanation
Indices: 39214290--39214610 Score: 588
Period size: 160 Copynumber: 2.0 Consensus size: 160
39214280 AGTTCATTTC
*
39214290 GGTAGTTAGATTAACGTGGTAGTAATATGATTGTAGGTAGTTCGTGCGTGGATCTCGTCAATGAA
1 GGTAGTTAGATGAACGTGGTAGTAATATGATTGTAGGTAGTTCGTGCGTGGATCTCGTCAATGAA
*
39214355 TCGTTGCAAATAGGTGTGTAACTGACACCTCTCATAGACTAGATCGGCGAAAGCCGAAAAGCTGA
66 TCGTTGCAAATAGGTGTATAACTGACACCTCTCATAGACTAGATCGGCGAAAGCCGAAAAGCTGA
*
39214420 AATGCCGAAAAGTCGGTATTTTGGGAACTT
131 AATGCCGAAAAGTCAGTATTTTGGGAACTT
* *
39214450 GGTAGTTAGATGAATGTGGTAGTAATATGATTGTAGGTAGTTCTTGCGTGGATCTCGTCAATGAA
1 GGTAGTTAGATGAACGTGGTAGTAATATGATTGTAGGTAGTTCGTGCGTGGATCTCGTCAATGAA
*
39214515 TCGTTGCAAATAGGTGTATAACTGACACCTCTCATAGACTAGATTGGCGAAAGCCGAAAAGCTGA
66 TCGTTGCAAATAGGTGTATAACTGACACCTCTCATAGACTAGATCGGCGAAAGCCGAAAAGCTGA
39214580 AATGCCGAAAAGTCAGTATTTTGGGAACTT
131 AATGCCGAAAAGTCAGTATTTTGGGAACTT
39214610 G
1 G
39214611 CGAGTGTGCG
Statistics
Matches: 155, Mismatches: 6, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
160 155 1.00
ACGTcount: A:0.30, C:0.14, G:0.27, T:0.29
Consensus pattern (160 bp):
GGTAGTTAGATGAACGTGGTAGTAATATGATTGTAGGTAGTTCGTGCGTGGATCTCGTCAATGAA
TCGTTGCAAATAGGTGTATAACTGACACCTCTCATAGACTAGATCGGCGAAAGCCGAAAAGCTGA
AATGCCGAAAAGTCAGTATTTTGGGAACTT
Found at i:39215096 original size:54 final size:53
Alignment explanation
Indices: 39215011--39215116 Score: 158
Period size: 54 Copynumber: 2.0 Consensus size: 53
39215001 GGAAGCATCC
* * *
39215011 TGGTGGCTGTGCCACAATTATCTGATGTGGTGGCTCTGCCACATATATCTGTTT
1 TGGTGGCTCTGCCACAATTATCTGATCTGGTGACTCTGCCACAT-TATCTGTTT
* *
39215065 TGGTGGCTCTGCCACAATTATCTGTTCTGGTGACTCTGTCACATTATCTGTT
1 TGGTGGCTCTGCCACAATTATCTGATCTGGTGACTCTGCCACATTATCTGTT
39215117 CTAGAAGCCA
Statistics
Matches: 47, Mismatches: 5, Indels: 1
0.89 0.09 0.02
Matches are distributed among these distances:
53 8 0.17
54 39 0.83
ACGTcount: A:0.16, C:0.22, G:0.24, T:0.39
Consensus pattern (53 bp):
TGGTGGCTCTGCCACAATTATCTGATCTGGTGACTCTGCCACATTATCTGTTT
Found at i:39215117 original size:26 final size:26
Alignment explanation
Indices: 39215010--39215118 Score: 137
Period size: 27 Copynumber: 4.1 Consensus size: 26
39215000 AGGAAGCATC
* *
39215010 CTGGTGGCTGTGCCACAATTATCTGAT
1 CTGGTGGCTCTGCCAC-ATTATCTGTT
*
39215037 GTGGTGGCTCTGCCACATATATCTGTT
1 CTGGTGGCTCTGCCACAT-TATCTGTT
*
39215064 TTGGTGGCTCTGCCACAATTATCTGTT
1 CTGGTGGCTCTGCCAC-ATTATCTGTT
* *
39215091 CTGGTGACTCTGTCACATTATCTGTT
1 CTGGTGGCTCTGCCACATTATCTGTT
39215117 CT
1 CT
39215119 AGAAGCCATG
Statistics
Matches: 73, Mismatches: 7, Indels: 5
0.86 0.08 0.06
Matches are distributed among these distances:
26 14 0.19
27 57 0.78
28 2 0.03
ACGTcount: A:0.16, C:0.23, G:0.23, T:0.39
Consensus pattern (26 bp):
CTGGTGGCTCTGCCACATTATCTGTT
Found at i:39218969 original size:27 final size:27
Alignment explanation
Indices: 39218920--39219057 Score: 181
Period size: 27 Copynumber: 5.1 Consensus size: 27
39218910 AGGAAACGTC
* * *
39218920 CTGGTGGCTATGCCA-AAATTATCTGAT
1 CTGGTGGCTCTGCCACATA-TATCTGTT
* *
39218947 CTGATGGCTCTGCCACATATATCTGAT
1 CTGGTGGCTCTGCCACATATATCTGTT
39218974 CTGGTGGCTCTGCCACATATATCTGTT
1 CTGGTGGCTCTGCCACATATATCTGTT
*
39219001 CTGGTGGCTCTGCCACAAATATCTGTT
1 CTGGTGGCTCTGCCACATATATCTGTT
* *
39219028 CTGGTGACTCTGTCACAT-TATCTGTT
1 CTGGTGGCTCTGCCACATATATCTGTT
39219054 CTGG
1 CTGG
39219058 AAGCCATGCT
Statistics
Matches: 101, Mismatches: 9, Indels: 3
0.89 0.08 0.03
Matches are distributed among these distances:
26 12 0.12
27 87 0.86
28 2 0.02
ACGTcount: A:0.19, C:0.24, G:0.22, T:0.36
Consensus pattern (27 bp):
CTGGTGGCTCTGCCACATATATCTGTT
Found at i:39233237 original size:80 final size:79
Alignment explanation
Indices: 39233141--39233310 Score: 207
Period size: 79 Copynumber: 2.1 Consensus size: 79
39233131 GGACTAAGAT
* * *
39233141 CCGAAGGCATTTGTGCGAGATA-CAAATTTCGGGTTAAGCCCCGAAGGCCTTTGTGCGAGATACT
1 CCGAAGGCATTCGTGCGAGATATCAAA-TCCGGGTTAAGCCCCGAAGG-CATTGTGCGAGATACT
* *
39233205 AAATCCGGGTTAAGTC
64 AAAACCGGGCTAAGTC
* * * * * *
39233221 CCGAAGGCATTCGTGCGAGTTATTAAATCCGGGTTATGTCCCGAAGGCATTGTGTGAGTTACTAA
1 CCGAAGGCATTCGTGCGAGATATCAAATCCGGGTTAAGCCCCGAAGGCATTGTGCGAGATACTAA
*
39233286 AACCGGGCTATGTC
66 AACCGGGCTAAGTC
39233300 CCGAAGGCATT
1 CCGAAGGCATT
39233311 TGAACGAGGA
Statistics
Matches: 77, Mismatches: 12, Indels: 3
0.84 0.13 0.03
Matches are distributed among these distances:
79 37 0.48
80 37 0.48
81 3 0.04
ACGTcount: A:0.25, C:0.21, G:0.28, T:0.26
Consensus pattern (79 bp):
CCGAAGGCATTCGTGCGAGATATCAAATCCGGGTTAAGCCCCGAAGGCATTGTGCGAGATACTAA
AACCGGGCTAAGTC
Found at i:39233292 original size:39 final size:39
Alignment explanation
Indices: 39233088--39233310 Score: 207
Period size: 40 Copynumber: 5.6 Consensus size: 39
39233078 TTGAATGCTG
* * * * * *
39233088 TCCGGGCTAAGTCCCGAAGGCTTTGTGCTAAGTGAATATA
1 TCCGGGTTAAGTCCCGAAGGCATTGTGC-GAGTTACTAAA
** *
39233128 TCCGGACTAAGAT-CCGAAGGCATTTGTGCGAGATAC-AAA
1 TCCGGGTTAAG-TCCCGAAGGCA-TTGTGCGAGTTACTAAA
* * * *
39233167 TTTCGGGTTAAGCCCCGAAGGCCTTTGTGCGAGATACTAAA
1 -TCCGGGTTAAGTCCCGAAGG-CATTGTGCGAGTTACTAAA
*
39233208 TCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTATTAAA
1 TCCGGGTTAAGTCCCGAAGGCATT-GTGCGAGTTACTAAA
* *
39233248 TCCGGGTTATGTCCCGAAGGCATTGTGTGAGTTACTAAA
1 TCCGGGTTAAGTCCCGAAGGCATTGTGCGAGTTACTAAA
* * *
39233287 ACCGGGCTATGTCCCGAAGGCATT
1 TCCGGGTTAAGTCCCGAAGGCATT
39233311 TGAACGAGGA
Statistics
Matches: 154, Mismatches: 22, Indels: 15
0.81 0.12 0.08
Matches are distributed among these distances:
39 40 0.26
40 103 0.67
41 11 0.07
ACGTcount: A:0.26, C:0.21, G:0.27, T:0.26
Consensus pattern (39 bp):
TCCGGGTTAAGTCCCGAAGGCATTGTGCGAGTTACTAAA
Found at i:39233330 original size:79 final size:80
Alignment explanation
Indices: 39233170--39233335 Score: 176
Period size: 79 Copynumber: 2.1 Consensus size: 80
39233160 ATACAAATTT
* * * *
39233170 CGGGTTAAGCCCCGAAGGCCTTTGTGCGAGATACTAAATCCGGGTTAAGTCCCGAAGGCATTCGT
1 CGGGTTAAGCCCCGAAGGCCATTGTGCGAGATACTAAAACCGGGCTAAGTCCCGAAGGCATTCGA
* * *
39233235 GCGAGTTATTAAATC
66 ACGAGTGACTAAATC
* * * * * *
39233250 CGGGTTATGTCCCGAAGG-CATTGTGTGAGTTACTAAAACCGGGCTATGTCCCGAAGGCATTTGA
1 CGGGTTAAGCCCCGAAGGCCATTGTGCGAGATACTAAAACCGGGCTAAGTCCCGAAGGCATTCGA
*
39233314 ACGAG-GAGCTATATC
66 ACGAGTGA-CTAAATC
39233329 C-GGTTAA
1 CGGGTTAA
39233336 ATTCCGAAGG
Statistics
Matches: 70, Mismatches: 15, Indels: 4
0.79 0.17 0.04
Matches are distributed among these distances:
78 6 0.09
79 48 0.69
80 16 0.23
ACGTcount: A:0.25, C:0.21, G:0.28, T:0.25
Consensus pattern (80 bp):
CGGGTTAAGCCCCGAAGGCCATTGTGCGAGATACTAAAACCGGGCTAAGTCCCGAAGGCATTCGA
ACGAGTGACTAAATC
Found at i:39243251 original size:38 final size:39
Alignment explanation
Indices: 39243079--39243260 Score: 206
Period size: 40 Copynumber: 4.6 Consensus size: 39
39243069 TTGAATGCTG
* * * * * *
39243079 TCCGGGCTAAGTCCCGAAGGCTTTGTGCTAAGTGAATATA
1 TCCGGGTTAAGTCCCGAAGGCATTGTGC-GAGTTACTAAA
** * *
39243119 TCCGGACTAAGAT-CCGAAGGCCTTTGTGCGAGATACTAAA
1 TCCGGGTTAAG-TCCCGAAGG-CATTGTGCGAGTTACTAAA
*
39243159 TCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTATTAAA
1 TCCGGGTTAAGTCCCGAAGGCATT-GTGCGAGTTACTAAA
39243199 TCCGGGTTAAGTCCCGAAGGCATTGTGCGAGTTACTAAA
1 TCCGGGTTAAGTCCCGAAGGCATTGTGCGAGTTACTAAA
*
39243238 -CCGGGTTATGTCCCGAAGGCATT
1 TCCGGGTTAAGTCCCGAAGGCATT
39243261 TGAACGAGGA
Statistics
Matches: 125, Mismatches: 13, Indels: 10
0.84 0.09 0.07
Matches are distributed among these distances:
38 22 0.18
39 18 0.14
40 76 0.61
41 9 0.07
ACGTcount: A:0.25, C:0.21, G:0.27, T:0.26
Consensus pattern (39 bp):
TCCGGGTTAAGTCCCGAAGGCATTGTGCGAGTTACTAAA
Found at i:39243280 original size:78 final size:80
Alignment explanation
Indices: 39243109--39243295 Score: 204
Period size: 78 Copynumber: 2.4 Consensus size: 80
39243099 CTTTGTGCTA
* ** *
39243109 AGTGAATATATCCGGACTAAGAT-CCGAAGGCCTTTGTGCGAGATACTAAATCCGGGTTAAGTCC
1 AGTGACTATATCCGGGTTAAG-TCCCGAAGGCCATTGTGCGAGATACTAAATCCGGGTTAAGTCC
**
39243173 CGAAGGCATTCGTGCG
65 CGAAGGCATTCGAACG
* * * * *
39243189 AGTTATTAAATCCGGGTTAAGTCCCGAAGG-CATTGTGCGAGTTACTAAA-CCGGGTTATGTCCC
1 AGTGACTATATCCGGGTTAAGTCCCGAAGGCCATTGTGCGAGATACTAAATCCGGGTTAAGTCCC
*
39243252 GAAGGCATTTGAACG
66 GAAGGCATTCGAACG
*
39243267 AG-GAGCTATATCC-GGTTAAATCCCGAAGG
1 AGTGA-CTATATCCGGGTTAAGTCCCGAAGG
39243296 TACGTGATTT
Statistics
Matches: 90, Mismatches: 15, Indels: 7
0.80 0.13 0.06
Matches are distributed among these distances:
77 16 0.18
78 33 0.37
79 18 0.20
80 23 0.26
ACGTcount: A:0.28, C:0.20, G:0.27, T:0.25
Consensus pattern (80 bp):
AGTGACTATATCCGGGTTAAGTCCCGAAGGCCATTGTGCGAGATACTAAATCCGGGTTAAGTCCC
GAAGGCATTCGAACG
Found at i:39244839 original size:46 final size:44
Alignment explanation
Indices: 39244736--39245047 Score: 243
Period size: 46 Copynumber: 6.7 Consensus size: 44
39244726 TGGGTTAAGT
* *
39244736 GCCGATGCCATGTCCCAGACATGGTCTTACACTGTC-TATTATCACTTA
1 GCCGATG-CATGTCCCAGACAT-GTCTTACACTGGCTTATT-T--CTCA
39244784 GCCGATGCATGTCCCAGACATGTCTTACACTGGCTTATTTCTCGA
1 GCCGATGCATGTCCCAGACATGTCTTACACTGGCTTATTTCTC-A
* * * *
39244829 GGCCGGTGCATGTCCCAGACATGTCTTACACTAGCCCT-TGTCTCAA
1 -GCCGATGCATGTCCCAGACATGTCTTACACT-GGCTTATTTCTC-A
* **
39244875 TGCCGATGCCATGTCCCAGACATGGTCTTACACTGGCTCATAGCTCAA
1 -GCCGATG-CATGTCCCAGACAT-GTCTTACACTGGCTTATTTCTC-A
* * * * *
39244923 GTCAATGCCATGTCCTAGACATGGTCTTACACAGACTATCATTTCTTC-
1 GCCGATG-CATGTCCCAGACAT-GTCTTACACTGGCT-T-ATTTC-TCA
* * * * **
39244971 GCCGATGTATGTCCTAGTCATGTCTTAAACTGGCTTACATCTCGA
1 GCCGATGCATGTCCCAGACATGTCTTACACTGGCTTATTTCTC-A
39245016 GGCCGATGCATGTCCCAGACATGTCTTACACT
1 -GCCGATGCATGTCCCAGACATGTCTTACACT
39245048 AGCTCTCGTC
Statistics
Matches: 216, Mismatches: 35, Indels: 28
0.77 0.13 0.10
Matches are distributed among these distances:
43 2 0.01
44 5 0.02
45 2 0.01
46 93 0.43
47 81 0.38
48 28 0.13
49 3 0.01
50 2 0.01
ACGTcount: A:0.22, C:0.29, G:0.19, T:0.29
Consensus pattern (44 bp):
GCCGATGCATGTCCCAGACATGTCTTACACTGGCTTATTTCTCA
Found at i:39245061 original size:187 final size:187
Alignment explanation
Indices: 39244740--39245096 Score: 534
Period size: 187 Copynumber: 1.9 Consensus size: 187
39244730 TTAAGTGCCG
* * *
39244740 ATGCCATGTCCCAGACATGGTCTTACACTGTCTATTATCACTTAGCCGATGCATGTCCCAGACAT
1 ATGCCATGTCCCAGACATGGTCTTACACAGACTATCATCACTTAGCCGATGCATGTCCCAGACAT
* ** * *
39244805 GTCTTACACTGGCTTATTTCTCGAGGCCGGTGCATGTCCCAGACATGTCTTACACTAGCCCTTGT
66 GTCTTAAACTGGCTTACATCTCGAGGCCGATGCATGTCCCAGACATGTCTTACACTAGCCCTCGT
* *
39244870 CTCAATGCCGATGCCATGTCCCAGACATGGTCTTACACTGGCTCATAGCTCAAGTCA
131 CTCAATGCCAATGCCATGTCCCAGACATCGTCTTACACTGGCTCATAGCTCAAGTCA
* ** * * * *
39244927 ATGCCATGTCCTAGACATGGTCTTACACAGACTATCATTTCTTCGCCGATGTATGTCCTAGTCAT
1 ATGCCATGTCCCAGACATGGTCTTACACAGACTATCATCACTTAGCCGATGCATGTCCCAGACAT
*
39244992 GTCTTAAACTGGCTTACATCTCGAGGCCGATGCATGTCCCAGACATGTCTTACACTAGCTCTCGT
66 GTCTTAAACTGGCTTACATCTCGAGGCCGATGCATGTCCCAGACATGTCTTACACTAGCCCTCGT
* *
39245057 CTCAATGTCAATGCCATGTCCCCGACATCGTCTTACACTG
131 CTCAATGCCAATGCCATGTCCCAGACATCGTCTTACACTG
39245097 CTTACACGAG
Statistics
Matches: 150, Mismatches: 20, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
187 150 1.00
ACGTcount: A:0.22, C:0.30, G:0.18, T:0.30
Consensus pattern (187 bp):
ATGCCATGTCCCAGACATGGTCTTACACAGACTATCATCACTTAGCCGATGCATGTCCCAGACAT
GTCTTAAACTGGCTTACATCTCGAGGCCGATGCATGTCCCAGACATGTCTTACACTAGCCCTCGT
CTCAATGCCAATGCCATGTCCCAGACATCGTCTTACACTGGCTCATAGCTCAAGTCA
Found at i:39249624 original size:39 final size:40
Alignment explanation
Indices: 39249579--39249750 Score: 204
Period size: 40 Copynumber: 4.3 Consensus size: 40
39249569 GCTCCTCGTT
* *
39249579 CAAATGCCTTCGGGACATAGCCCGGTTTTAGTAACTCACA
1 CAAATGCCTTCGGGACATAACCCGGATTTAGTAACTCACA
* *
39249619 C-AATGCCTTCGGGACATAACCCGGATTTAATAACTCGCA
1 CAAATGCCTTCGGGACATAACCCGGATTTAGTAACTCACA
* * *
39249658 CGAATGCCTTCGGGACTTAACCCGGATTTAGTATCTCACA
1 CAAATGCCTTCGGGACATAACCCGGATTTAGTAACTCACA
* * * * * *
39249698 CAAAGGCCTTCGGGGCTTAACCCAGAATTT-GTATCTCGCA
1 CAAATGCCTTCGGGACATAACCC-GGATTTAGTAACTCACA
39249738 CAAATGCCTTCGG
1 CAAATGCCTTCGG
39249751 ATCTTAGTCC
Statistics
Matches: 116, Mismatches: 14, Indels: 4
0.87 0.10 0.03
Matches are distributed among these distances:
39 35 0.30
40 76 0.66
41 5 0.04
ACGTcount: A:0.27, C:0.28, G:0.20, T:0.25
Consensus pattern (40 bp):
CAAATGCCTTCGGGACATAACCCGGATTTAGTAACTCACA
Found at i:39249679 original size:40 final size:39
Alignment explanation
Indices: 39249581--39249803 Score: 198
Period size: 40 Copynumber: 5.6 Consensus size: 39
39249571 TCCTCGTTCA
* * * *
39249581 AATGCCTTCGGGACATAGCCCGGTTTTAGTAACTCACAC
1 AATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCAC
* *
39249620 AATGCCTTCGGGACATAACCCGGATTTAATAACTCGCAC
1 AATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCAC
* *
39249659 GAATGCCTTCGGGACTTAACCCGGATTTAGTATCTCACAC
1 -AATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCAC
* * * *
39249699 AAAGGCCTTCGGGGCTTAACCCAGAATTT-GTATCTCGCAC
1 -AATGCCTTCGGGACTTAACCC-GGATTTAGTAACTCGCAC
** * * * *
39249739 AAATGCCTTC-GGATCTTAGTCCGGATATATTCACTTAGCAC
1 -AATGCCTTCGGGA-CTTAACCCGGATTTAGTAAC-TCGCAC
* *
39249780 AAAGCCTTCGGGACTTAGCCCGGA
1 AATGCCTTCGGGACTTAACCCGGA
39249804 CAGCATTCAA
Statistics
Matches: 153, Mismatches: 25, Indels: 11
0.81 0.13 0.06
Matches are distributed among these distances:
39 41 0.27
40 99 0.65
41 13 0.08
ACGTcount: A:0.26, C:0.27, G:0.21, T:0.26
Consensus pattern (39 bp):
AATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCAC
Found at i:39249763 original size:80 final size:79
Alignment explanation
Indices: 39249579--39249793 Score: 227
Period size: 80 Copynumber: 2.7 Consensus size: 79
39249569 GCTCCTCGTT
* * * *
39249579 CAAATGCCTTCGGGACATAGCCCGGTTTTAGTAACTCACACAATGCCTTCGGGACATAACCCGGA
1 CAAATGCCTTCGGGACTTAGCCCGGATTTAGTAACTCACACAAGGCCTTCGGGACATAACCCGAA
39249644 TTTAATAACTCGCA
66 TTTAATAACTCGCA
* * * * *
39249658 CGAATGCCTTCGGGACTTAACCCGGATTTAGTATCTCACACAAAGGCCTTCGGGGCTTAACCCAG
1 CAAATGCCTTCGGGACTTAGCCCGGATTTAGTAACTCACAC-AAGGCCTTCGGGACATAACCC-G
* *
39249723 AATTT-GTATCTCGCA
64 AATTTAATAACTCGCA
* * * * * *
39249738 CAAATGCCTTC-GGATCTTAGTCCGGATATATTCACTTAGCACAAAGCCTTCGGGAC
1 CAAATGCCTTCGGGA-CTTAGCCCGGATTTAGTAACTCA-CACAAGGCCTTCGGGAC
39249794 TTAGCCCGGA
Statistics
Matches: 111, Mismatches: 21, Indels: 7
0.80 0.15 0.05
Matches are distributed among these distances:
79 39 0.35
80 64 0.58
81 8 0.07
ACGTcount: A:0.27, C:0.27, G:0.20, T:0.26
Consensus pattern (79 bp):
CAAATGCCTTCGGGACTTAGCCCGGATTTAGTAACTCACACAAGGCCTTCGGGACATAACCCGAA
TTTAATAACTCGCA
Found at i:39249812 original size:41 final size:41
Alignment explanation
Indices: 39249735--39249812 Score: 97
Period size: 40 Copynumber: 1.9 Consensus size: 41
39249725 TTTGTATCTC
* * *
39249735 GCACAAATGCCTTCGGATCTTAGTCCGGATATATTCACTTA
1 GCACAAATGCCTTCGGATCTTAGCCCGGACACATTCACTTA
39249776 GCACAAA-GCCTTCGGGA-CTTAGCCCGGACAGCATTCA
1 GCACAAATGCCTTC-GGATCTTAGCCCGGACA-CATTCA
39249813 ATTAATCATG
Statistics
Matches: 32, Mismatches: 3, Indels: 4
0.82 0.08 0.10
Matches are distributed among these distances:
40 17 0.53
41 15 0.47
ACGTcount: A:0.27, C:0.28, G:0.21, T:0.24
Consensus pattern (41 bp):
GCACAAATGCCTTCGGATCTTAGCCCGGACACATTCACTTA
Found at i:39263648 original size:44 final size:44
Alignment explanation
Indices: 39263599--39263685 Score: 131
Period size: 44 Copynumber: 2.0 Consensus size: 44
39263589 AGCTTAACTG
*
39263599 ATTTTTACATATAAAATTTATAGA-ACATATATTTCATAAAAATC
1 ATTTTTACATATAAAATTTACA-ACACATATATTTCATAAAAATC
* *
39263643 ATTTTTACATATAACATTTACAACATATATATTTCATAAAAAT
1 ATTTTTACATATAAAATTTACAACACATATATTTCATAAAAAT
39263686 AAGAAATTTT
Statistics
Matches: 39, Mismatches: 3, Indels: 2
0.89 0.07 0.05
Matches are distributed among these distances:
43 1 0.03
44 38 0.97
ACGTcount: A:0.47, C:0.10, G:0.01, T:0.41
Consensus pattern (44 bp):
ATTTTTACATATAAAATTTACAACACATATATTTCATAAAAATC
Found at i:39264274 original size:15 final size:14
Alignment explanation
Indices: 39264249--39264278 Score: 51
Period size: 15 Copynumber: 2.1 Consensus size: 14
39264239 TGAAATTGGT
39264249 AAAATTTTCTTATC
1 AAAATTTTCTTATC
39264263 AAAATCTTTCTTATC
1 AAAAT-TTTCTTATC
39264278 A
1 A
39264279 TAATGTAGAC
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
14 5 0.33
15 10 0.67
ACGTcount: A:0.37, C:0.17, G:0.00, T:0.47
Consensus pattern (14 bp):
AAAATTTTCTTATC
Found at i:39276658 original size:16 final size:16
Alignment explanation
Indices: 39276637--39276667 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
39276627 GTAATGCCCT
39276637 AAAAATCCCGAAATCC
1 AAAAATCCCGAAATCC
*
39276653 AAAAATCCTGAAATC
1 AAAAATCCCGAAATC
39276668 TTGAATTTTT
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
16 14 1.00
ACGTcount: A:0.52, C:0.26, G:0.06, T:0.16
Consensus pattern (16 bp):
AAAAATCCCGAAATCC
Found at i:39280545 original size:8 final size:8
Alignment explanation
Indices: 39280527--39280560 Score: 59
Period size: 8 Copynumber: 4.1 Consensus size: 8
39280517 GTTGTAACAC
39280527 CCCAGAAAT
1 CCCA-AAAT
39280536 CCCAAAAT
1 CCCAAAAT
39280544 CCCAAAAT
1 CCCAAAAT
39280552 CCCAAAAT
1 CCCAAAAT
39280560 C
1 C
39280561 TTGAATTTTT
Statistics
Matches: 25, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
8 21 0.84
9 4 0.16
ACGTcount: A:0.47, C:0.38, G:0.03, T:0.12
Consensus pattern (8 bp):
CCCAAAAT
Found at i:39282040 original size:29 final size:28
Alignment explanation
Indices: 39282007--39282113 Score: 99
Period size: 29 Copynumber: 3.8 Consensus size: 28
39281997 ATAATATGAT
*
39282007 TTGGGCCTAATGGGCCATATCAATGTGAA
1 TTGGGCCTAATGGGCCATATGAAT-TGAA
* *
39282036 TTGGGCCTAGTGGGCCATAAGAATATGAA
1 TTGGGCCTAATGGGCCATATGAAT-TGAA
* * * **
39282065 CTGGGCC-AGATGCGCCATTTGAATAAAA
1 TTGGGCCTA-ATGGGCCATATGAATTGAA
*
39282093 TTGGGCCTAGTGGGCCATATG
1 TTGGGCCTAATGGGCCATATG
39282114 CATGTATGTA
Statistics
Matches: 61, Mismatches: 15, Indels: 5
0.75 0.19 0.06
Matches are distributed among these distances:
28 18 0.30
29 43 0.70
ACGTcount: A:0.27, C:0.18, G:0.30, T:0.25
Consensus pattern (28 bp):
TTGGGCCTAATGGGCCATATGAATTGAA
Found at i:39290306 original size:25 final size:25
Alignment explanation
Indices: 39290260--39290307 Score: 60
Period size: 25 Copynumber: 1.9 Consensus size: 25
39290250 GCACTCTCTC
* **
39290260 GAGCCATATAATAGGATGCTCATGT
1 GAGCCATATAACAGGAAACTCATGT
*
39290285 GAGCCATGTAACAGGAAACTCAT
1 GAGCCATATAACAGGAAACTCAT
39290308 AAGAGTTTAG
Statistics
Matches: 19, Mismatches: 4, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
25 19 1.00
ACGTcount: A:0.35, C:0.19, G:0.23, T:0.23
Consensus pattern (25 bp):
GAGCCATATAACAGGAAACTCATGT
Done.