Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: A10
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: 111961792
ACGTcount: A:0.31, C:0.16, G:0.16, T:0.31
Warning! 4980000 characters in sequence are not A, C, G, or T
File 270 of 344
Found at i:90201003 original size:47 final size:46
Alignment explanation
Indices: 90200928--90201145 Score: 159
Period size: 47 Copynumber: 4.7 Consensus size: 46
90200918 AATTTCTTGT
* * *
90200928 GTGCCAGTGGAAGACATGTCAGGGACATGCATC-A-GCCACATTATGA
1 GTGCCAGTGTAAGACATGTCTGGGACATGCATCGACG-CACA-GATGA
* *
90200974 GTGCCAGTGTAAGACCATGTCTGGGACATGGCATCGACGTAGAGATGA
1 GTGCCAGTGTAAGA-CATGTCTGGGACAT-GCATCGACGCACAGATGA
* *
90201022 GTGCCAATGTAAGACATGTCTGGGACATGCATTGGCATCG-ACGAAGAT-A
1 GTGCCAGTGTAAGACATGTCTGGGACATGCA-TCG-A-CGCAC--AGATGA
* *
90201071 -T-CCAGTGTAAGACGTGTCTGGGACATGCATCG--GCTA-AGA-GTT
1 GTGCCAGTGTAAGACATGTCTGGGACATGCATCGACGC-ACAGATG-A
* **
90201113 GTGCTAGTGTAAGACATGTCCAGGACATGCATC
1 GTGCCAGTGTAAGACATGTCTGGGACATGCATC
90201146 AGCACGTATA
Statistics
Matches: 141, Mismatches: 16, Indels: 32
0.75 0.08 0.17
Matches are distributed among these distances:
41 3 0.02
42 1 0.01
43 1 0.01
44 27 0.19
46 18 0.13
47 55 0.39
48 25 0.18
49 6 0.04
50 5 0.04
ACGTcount: A:0.28, C:0.20, G:0.30, T:0.22
Consensus pattern (46 bp):
GTGCCAGTGTAAGACATGTCTGGGACATGCATCGACGCACAGATGA
Found at i:90203663 original size:25 final size:25
Alignment explanation
Indices: 90203588--90203663 Score: 98
Period size: 25 Copynumber: 3.0 Consensus size: 25
90203578 TCATGTACAT
* * *
90203588 GTATGCTCATACGAGCTTTGAATCG
1 GTATGCTCACACGAGCTGTGGATCG
* *
90203613 GTATGCTCACTCGAGCTGTAGATCG
1 GTATGCTCACACGAGCTGTGGATCG
*
90203638 GTATGCTCACACGAGCTGTGGGTCG
1 GTATGCTCACACGAGCTGTGGATCG
90203663 G
1 G
90203664 AACATAGCTG
Statistics
Matches: 43, Mismatches: 8, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
25 43 1.00
ACGTcount: A:0.20, C:0.22, G:0.30, T:0.28
Consensus pattern (25 bp):
GTATGCTCACACGAGCTGTGGATCG
Found at i:90205908 original size:18 final size:18
Alignment explanation
Indices: 90205887--90205930 Score: 63
Period size: 18 Copynumber: 2.4 Consensus size: 18
90205877 TTAATTTAGC
90205887 AATTTTTATTTTTA-TTAT
1 AATTTTTATTTTTAGTT-T
*
90205905 AATTTTTGTTTTTAGTTT
1 AATTTTTATTTTTAGTTT
90205923 AATTTTTA
1 AATTTTTA
90205931 CATTCTAATT
Statistics
Matches: 23, Mismatches: 2, Indels: 2
0.85 0.07 0.07
Matches are distributed among these distances:
18 21 0.91
19 2 0.09
ACGTcount: A:0.25, C:0.00, G:0.05, T:0.70
Consensus pattern (18 bp):
AATTTTTATTTTTAGTTT
Found at i:90209466 original size:10 final size:10
Alignment explanation
Indices: 90209428--90209501 Score: 73
Period size: 10 Copynumber: 7.4 Consensus size: 10
90209418 CCCTTTTACC
*
90209428 TTTTTCTTTA
1 TTTTTATTTA
90209438 -TTTTATTTA
1 TTTTTATTTA
*
90209447 GTTTCT-TTTA
1 -TTTTTATTTA
90209457 TTTTTATTTA
1 TTTTTATTTA
*
90209467 TTTTAATTTA
1 TTTTTATTTA
90209477 TTTATTATTTA
1 TTT-TTATTTA
90209488 TTTATTA-TTA
1 TTT-TTATTTA
90209498 TTTT
1 TTTT
90209502 ACTGATCCAT
Statistics
Matches: 55, Mismatches: 5, Indels: 9
0.80 0.07 0.13
Matches are distributed among these distances:
9 13 0.24
10 26 0.47
11 16 0.29
ACGTcount: A:0.20, C:0.03, G:0.01, T:0.76
Consensus pattern (10 bp):
TTTTTATTTA
Found at i:90209471 original size:25 final size:25
Alignment explanation
Indices: 90209453--90209502 Score: 75
Period size: 25 Copynumber: 2.0 Consensus size: 25
90209443 TTTAGTTTCT
90209453 TTTATT-TTTATTTATTTTAATTTA
1 TTTATTATTTATTTATTTTAATTTA
*
90209477 TTTATTATTTATTTATTATTATTTTA
1 TTTATTATTTATTTATT-TTAATTTA
90209503 CTGATCCATT
Statistics
Matches: 23, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
24 6 0.26
25 10 0.43
26 7 0.30
ACGTcount: A:0.26, C:0.00, G:0.00, T:0.74
Consensus pattern (25 bp):
TTTATTATTTATTTATTTTAATTTA
Found at i:90209476 original size:14 final size:14
Alignment explanation
Indices: 90209434--90209493 Score: 59
Period size: 14 Copynumber: 4.1 Consensus size: 14
90209424 TACCTTTTTC
90209434 TTTATTTT-ATTTA
1 TTTATTTTAATTTA
* *
90209447 GTTTCTTTTATTTTTA
1 -TTTATTTTA-ATTTA
90209463 TTTATTTTAATTTA
1 TTTATTTTAATTTA
*
90209477 TTTATTATTTATTTA
1 TTTATT-TTAATTTA
90209492 TT
1 TT
90209494 ATTATTTTAC
Statistics
Matches: 38, Mismatches: 5, Indels: 5
0.79 0.10 0.10
Matches are distributed among these distances:
14 17 0.45
15 17 0.45
16 4 0.11
ACGTcount: A:0.22, C:0.02, G:0.02, T:0.75
Consensus pattern (14 bp):
TTTATTTTAATTTA
Found at i:90209500 original size:14 final size:14
Alignment explanation
Indices: 90209434--90209500 Score: 54
Period size: 14 Copynumber: 4.9 Consensus size: 14
90209424 TACCTTTTTC
90209434 TTTATT-TTATTTA
1 TTTATTATTATTTA
*
90209447 GTTTCTT-TTA-TT-
1 -TTTATTATTATTTA
*
90209459 TTTATTTATT-TTAA
1 TTTA-TTATTATTTA
90209473 TTTATTTATTATTTA
1 TTTA-TTATTATTTA
90209488 TTTATTATTATTT
1 TTTATTATTATTT
90209501 TACTGATCCA
Statistics
Matches: 44, Mismatches: 4, Indels: 10
0.76 0.07 0.17
Matches are distributed among these distances:
11 3 0.07
12 2 0.05
13 5 0.11
14 27 0.61
15 7 0.16
ACGTcount: A:0.22, C:0.01, G:0.01, T:0.75
Consensus pattern (14 bp):
TTTATTATTATTTA
Found at i:90209705 original size:6 final size:6
Alignment explanation
Indices: 90209664--90209743 Score: 58
Period size: 6 Copynumber: 13.3 Consensus size: 6
90209654 TATCATTGAG
* * * *
90209664 TTTA-T TTTATT TCT-TT TTCATT TTCA-T TTTATT TTTATT TTTATC
1 TTTATT TTTATT TTTATT TTTATT TTTATT TTTATT TTTATT TTTATT
* *
90209709 TATATT TTTATT TTTAGCTGC TTTATT TTTATT TT
1 TTTATT TTTATT TTTA--T-T TTTATT TTTATT TT
90209744 CTTTTACTTA
Statistics
Matches: 59, Mismatches: 10, Indels: 11
0.74 0.12 0.14
Matches are distributed among these distances:
5 11 0.19
6 42 0.71
7 1 0.02
8 1 0.02
9 4 0.07
ACGTcount: A:0.16, C:0.07, G:0.03, T:0.74
Consensus pattern (6 bp):
TTTATT
Found at i:90209705 original size:18 final size:18
Alignment explanation
Indices: 90209693--90209743 Score: 66
Period size: 18 Copynumber: 2.7 Consensus size: 18
90209683 ATTTTCATTT
90209693 TATTTTTATTTTTATCTA
1 TATTTTTATTTTTATCTA
*
90209711 TATTTTTATTTTTAGCTGCTT
1 TATTTTTATTTTTA--T-CTA
90209732 TATTTTTATTTT
1 TATTTTTATTTT
90209744 CTTTTACTTA
Statistics
Matches: 29, Mismatches: 1, Indels: 3
0.88 0.03 0.09
Matches are distributed among these distances:
18 14 0.48
20 1 0.03
21 14 0.48
ACGTcount: A:0.18, C:0.06, G:0.04, T:0.73
Consensus pattern (18 bp):
TATTTTTATTTTTATCTA
Found at i:90215934 original size:39 final size:40
Alignment explanation
Indices: 90215889--90215999 Score: 98
Period size: 40 Copynumber: 2.8 Consensus size: 40
90215879 CGGGGTTTAG
* * *
90215889 CCGGATATAACCACTCGCA-CAAGGCCTTCGGGTCTTAAC
1 CCGGATATAACCACTAGCATAAAGGCCTTCGGGACTTAAC
*** * *
90215928 CCGGATATGGTCACTAGCATAAATGCCTTCGGGACTTAGC
1 CCGGATATAACCACTAGCATAAAGGCCTTCGGGACTTAAC
** * * *
90215968 CCGGATATAGTCGCTAGCACAAATGCCTTCGG
1 CCGGATATAACCACTAGCATAAAGGCCTTCGG
90216000 ATCTTAGTCC
Statistics
Matches: 60, Mismatches: 11, Indels: 1
0.83 0.15 0.01
Matches are distributed among these distances:
39 15 0.25
40 45 0.75
ACGTcount: A:0.25, C:0.29, G:0.23, T:0.23
Consensus pattern (40 bp):
CCGGATATAACCACTAGCATAAAGGCCTTCGGGACTTAAC
Found at i:90215959 original size:40 final size:40
Alignment explanation
Indices: 90215912--90216056 Score: 184
Period size: 40 Copynumber: 3.6 Consensus size: 40
90215902 CTCGCACAAG
* * * * *
90215912 GCCTTCGGGTCTTAACCCGGATATGGTCACTAGCATAAAT
1 GCCTTCGGGACTTAGCCCGGATATAGTCGCTAGCACAAAT
90215952 GCCTTCGGGACTTAGCCCGGATATAGTCGCTAGCACAAAT
1 GCCTTCGGGACTTAGCCCGGATATAGTCGCTAGCACAAAT
* * *
90215992 GCCTTC-GGATCTTAGTCCGGATGTAGTCGCTTAGCACAAAA
1 GCCTTCGGGA-CTTAGCCCGGATATAGTCGC-TAGCACAAAT
*
90216033 GCCTTCGGGACTTAGCCTGGATAT
1 GCCTTCGGGACTTAGCCCGGATAT
90216057 CATTCGAGTA
Statistics
Matches: 91, Mismatches: 11, Indels: 5
0.85 0.10 0.05
Matches are distributed among these distances:
39 3 0.03
40 59 0.65
41 26 0.29
42 3 0.03
ACGTcount: A:0.23, C:0.26, G:0.25, T:0.26
Consensus pattern (40 bp):
GCCTTCGGGACTTAGCCCGGATATAGTCGCTAGCACAAAT
Found at i:90225193 original size:40 final size:40
Alignment explanation
Indices: 90225004--90225229 Score: 280
Period size: 40 Copynumber: 5.7 Consensus size: 40
90224994 TTGAATGGTG
* * * *
90225004 TCCGGGCTAAGTCCCGAAGGC-TTTGTGCTAAGTGACCATA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGC-GAGTTACTAAA
* *
90225044 TCCGGACTAAGAT-CCGAAGGCATTTGTGCGAGATACTAAA
1 TCCGGGCTAAG-TCCCGAAGGCATTTGTGCGAGTTACTAAA
* * *
90225084 TCCGGACTAAGAT-CCGAAGGCATTTGTGCGAGATACTAAT
1 TCCGGGCTAAG-TCCCGAAGGCATTTGTGCGAGTTACTAAA
90225124 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAA
* *
90225164 TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAATTACTATAA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTA-AA
*
90225205 -CCGGGCTATGTCCCGAAGGCATTTG
1 TCCGGGCTAAGTCCCGAAGGCATTTG
90225230 AACGAGGAGC
Statistics
Matches: 168, Mismatches: 14, Indels: 8
0.88 0.07 0.04
Matches are distributed among these distances:
39 1 0.01
40 157 0.93
41 10 0.06
ACGTcount: A:0.26, C:0.22, G:0.27, T:0.25
Consensus pattern (40 bp):
TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAA
Found at i:90227099 original size:39 final size:40
Alignment explanation
Indices: 90227054--90227221 Score: 106
Period size: 40 Copynumber: 4.2 Consensus size: 40
90227044 CGGGGTTTAG
* * *
90227054 CCGGATATAACCACTCGCA-CAAGGCCTTCGGGTCTTAAC
1 CCGGATATAACCACTAGCATAAAGGCCTTCGGGACTTAAC
*** * *
90227093 CCGGATATGGTCACTAGCATAAATGCCTTCGGGACTTAGC
1 CCGGATATAACCACTAGCATAAAGGCCTTCGGGACTTAAC
** * * * **
90227133 CCGGATATAGTCGCTAGCACAAATGCCTTC-GGATCTTAGT
1 CCGGATATAACCACTAGCATAAAGGCCTTCGGGA-CTTAAC
* ** * * * *
90227173 CCGGATGTAGTCGCTTAGCACAAAAGCCTTCGGGACTTAGC
1 CCGGATATAACCAC-TAGCATAAAGGCCTTCGGGACTTAAC
90227214 CCGGATAT
1 CCGGATAT
90227222 CATTCGAGTA
Statistics
Matches: 109, Mismatches: 16, Indels: 6
0.83 0.12 0.05
Matches are distributed among these distances:
39 18 0.17
40 61 0.56
41 27 0.25
42 3 0.03
ACGTcount: A:0.25, C:0.27, G:0.24, T:0.24
Consensus pattern (40 bp):
CCGGATATAACCACTAGCATAAAGGCCTTCGGGACTTAAC
Found at i:90227204 original size:41 final size:40
Alignment explanation
Indices: 90227077--90227221 Score: 193
Period size: 40 Copynumber: 3.6 Consensus size: 40
90227067 CTCGCACAAG
* * * * *
90227077 GCCTTCGGGTCTTAACCCGGATATGGTCACTAGCATAAAT
1 GCCTTCGGGACTTAGCCCGGATATAGTCGCTAGCACAAAT
90227117 GCCTTCGGGACTTAGCCCGGATATAGTCGCTAGCACAAAT
1 GCCTTCGGGACTTAGCCCGGATATAGTCGCTAGCACAAAT
* * *
90227157 GCCTTC-GGATCTTAGTCCGGATGTAGTCGCTTAGCACAAAA
1 GCCTTCGGGA-CTTAGCCCGGATATAGTCGC-TAGCACAAAT
90227198 GCCTTCGGGACTTAGCCCGGATAT
1 GCCTTCGGGACTTAGCCCGGATAT
90227222 CATTCGAGTA
Statistics
Matches: 92, Mismatches: 10, Indels: 5
0.86 0.09 0.05
Matches are distributed among these distances:
39 3 0.03
40 59 0.64
41 27 0.29
42 3 0.03
ACGTcount: A:0.23, C:0.26, G:0.25, T:0.26
Consensus pattern (40 bp):
GCCTTCGGGACTTAGCCCGGATATAGTCGCTAGCACAAAT
Found at i:90243052 original size:27 final size:27
Alignment explanation
Indices: 90243021--90243440 Score: 367
Period size: 27 Copynumber: 15.7 Consensus size: 27
90243011 TAATAAAGAG
*
90243021 AAATTACTGAAATAACCTCGATTTGTA
1 AAATTACTGAAATACCCTCGATTTGTA
* * *
90243048 AAATTACCGAAATACCCCCGATTTATA
1 AAATTACTGAAATACCCTCGATTTGTA
*
90243075 AAATTACTGAAATACCCTCTATTATG--
1 AAATTACTGAAATACCCTCGATT-TGTA
* * *
90243101 AAATTATTGAAATACCATTGATTTGTA
1 AAATTACTGAAATACCCTCGATTTGTA
* * *
90243128 AAACTA-TCGAAATACCCTC-AATTGTG
1 AAATTACT-GAAATACCCTCGATTTGTA
*
90243154 AAATTA-TCGAAATACCCTTGATTTGTA
1 AAATTACT-GAAATACCCTCGATTTGTA
* * * *
90243181 AAATTACCGAAATACCCCCAATTTGTG
1 AAATTACTGAAATACCCTCGATTTGTA
* *
90243208 AAATTACCGAAACACCCTCGATTTGTA
1 AAATTACTGAAATACCCTCGATTTGTA
*
90243235 AAATTA-TCGAAATACCC-CTAATTTGTA
1 AAATTACT-GAAATACCCTC-GATTTGTA
* * *
90243262 AAATTATTGAAATATCCTTGATTTGTA
1 AAATTACTGAAATACCCTCGATTTGTA
* * * *
90243289 AAATTA-TCGATATACCC-CAATTTTTG
1 AAATTACT-GAAATACCCTCGATTTGTA
** *
90243315 AAATTACCAAAACACCCTCGATTTGTA
1 AAATTACTGAAATACCCTCGATTTGTA
*
90243342 AAATTACTGAAACACCCTCGATTTGTA
1 AAATTACTGAAATACCCTCGATTTGTA
*
90243369 AAATTA-TCAAAATACCCTCGATTTGTA
1 AAATTACT-GAAATACCCTCGATTTGTA
* * *
90243396 AAATTACAGAAATACCCTTG-TAGTGTA
1 AAATTACTGAAATACCCTCGAT-TTGTA
* *
90243423 AAATGACTGACATACCCT
1 AAATTACTGAAATACCCT
90243441 TATAGGGTAA
Statistics
Matches: 317, Mismatches: 60, Indels: 32
0.78 0.15 0.08
Matches are distributed among these distances:
25 2 0.01
26 63 0.20
27 250 0.79
28 2 0.01
ACGTcount: A:0.39, C:0.19, G:0.10, T:0.32
Consensus pattern (27 bp):
AAATTACTGAAATACCCTCGATTTGTA
Found at i:90243231 original size:54 final size:54
Alignment explanation
Indices: 90243021--90243413 Score: 425
Period size: 54 Copynumber: 7.3 Consensus size: 54
90243011 TAATAAAGAG
* * * * * * *
90243021 AAATTACTGAAATAACCTCGATTTGTAAAATTACCGAAATACCCCCGATTTATA
1 AAATTACCGAAATACCCTCAATTTGTGAAATTATCGAAATACCCTCGATTTGTA
* * * * * *
90243075 AAATTACTGAAATACCCTCTA-TTATGAAATTATTGAAATACCATTGATTTGTA
1 AAATTACCGAAATACCCTCAATTTGTGAAATTATCGAAATACCCTCGATTTGTA
* * *
90243128 AAACTATCGAAATACCCTCAA-TTGTGAAATTATCGAAATACCCTTGATTTGTA
1 AAATTACCGAAATACCCTCAATTTGTGAAATTATCGAAATACCCTCGATTTGTA
* * *
90243181 AAATTACCGAAATACCCCCAATTTGTGAAATTACCGAAACACCCTCGATTTGTA
1 AAATTACCGAAATACCCTCAATTTGTGAAATTATCGAAATACCCTCGATTTGTA
* * * * *
90243235 AAATTATCGAAATACCC-CTAATTTGTAAAATTATTGAAATATCCTTGATTTGTA
1 AAATTACCGAAATACCCTC-AATTTGTGAAATTATCGAAATACCCTCGATTTGTA
* * * * * *
90243289 AAATTATCGATATACCC-CAATTTTTGAAATTACCAAAACACCCTCGATTTGTA
1 AAATTACCGAAATACCCTCAATTTGTGAAATTATCGAAATACCCTCGATTTGTA
* * * * *
90243342 AAATTACTGAAACACCCTCGATTTGTAAAATTATCAAAATACCCTCGATTTGTA
1 AAATTACCGAAATACCCTCAATTTGTGAAATTATCGAAATACCCTCGATTTGTA
*
90243396 AAATTACAGAAATACCCT
1 AAATTACCGAAATACCCT
90243414 TGTAGTGTAA
Statistics
Matches: 286, Mismatches: 50, Indels: 6
0.84 0.15 0.02
Matches are distributed among these distances:
53 129 0.45
54 157 0.55
ACGTcount: A:0.39, C:0.19, G:0.09, T:0.32
Consensus pattern (54 bp):
AAATTACCGAAATACCCTCAATTTGTGAAATTATCGAAATACCCTCGATTTGTA
Found at i:90243308 original size:107 final size:106
Alignment explanation
Indices: 90243021--90243412 Score: 452
Period size: 107 Copynumber: 3.7 Consensus size: 106
90243011 TAATAAAGAG
* * * * *
90243021 AAATTA-CTGAAATAACCTCGATTTGTAAAATTACCGAAATACCCCCGATTTATAAAATTACTGA
1 AAATTATC-GAAATACCCTCAATTTGTAAAATTATCGAAATACCCTCGATTTGTAAAATTAC-GA
* ** * * *
90243085 AATACCCTCTA-TTATGAAATTATTGAAATACCATTGATTTGTA
64 AATACCC-CAATTTATGAAATTACCGAAACACCCTCGATTTGTA
* * *
90243128 AAACTATCGAAATACCCTCAA-TTGTGAAATTATCGAAATACCCTTGATTTGTAAAATTACCGAA
1 AAATTATCGAAATACCCTCAATTTGTAAAATTATCGAAATACCCTCGATTTGTAAAATTA-CGAA
*
90243192 ATACCCCCAATTTGTGAAATTACCGAAACACCCTCGATTTGTA
65 ATA-CCCCAATTTATGAAATTACCGAAACACCCTCGATTTGTA
* * *
90243235 AAATTATCGAAATACCC-CTAATTTGTAAAATTATTGAAATATCCTTGATTTGTAAAATTATCGA
1 AAATTATCGAAATACCCTC-AATTTGTAAAATTATCGAAATACCCTCGATTTGTAAAATTA-CGA
* * *
90243299 TATACCCCAATTTTTGAAATTACCAAAACACCCTCGATTTGTA
64 AATACCCCAATTTATGAAATTACCGAAACACCCTCGATTTGTA
* * *
90243342 AAATTA-CTGAAACACCCTCGATTTGTAAAATTATCAAAATACCCTCGATTTGTAAAATTACAGA
1 AAATTATC-GAAATACCCTCAATTTGTAAAATTATCGAAATACCCTCGATTTGTAAAATTAC-GA
90243406 AATACCC
64 AATACCC
90243413 TTGTAGTGTA
Statistics
Matches: 246, Mismatches: 30, Indels: 18
0.84 0.10 0.06
Matches are distributed among these distances:
106 44 0.18
107 159 0.65
108 43 0.17
ACGTcount: A:0.39, C:0.19, G:0.09, T:0.32
Consensus pattern (106 bp):
AAATTATCGAAATACCCTCAATTTGTAAAATTATCGAAATACCCTCGATTTGTAAAATTACGAAA
TACCCCAATTTATGAAATTACCGAAACACCCTCGATTTGTA
Found at i:90243439 original size:134 final size:133
Alignment explanation
Indices: 90243021--90243426 Score: 453
Period size: 134 Copynumber: 3.0 Consensus size: 133
90243011 TAATAAAGAG
* * *
90243021 AAATTA-CTGAAATAACCTCGATTTGTAAAATTACCGAAATACCCCCGATTTATAAAATTACTGA
1 AAATTATC-GAAATACCCTCAATTTGTAAAATTACCGAAATACCCCCGATTTGTAAAATTACTGA
* * * * * * **
90243085 AATACCCTCTATTATG--AAATTATTGAAATACCATTGATTTGTAAAACTATCGAAATACCCTCA
65 AACACCCTCGATT-TGTAAAATTATCGAAATACCCTCGATTTGTAAAATTA-CGAAATACCCTTG
*
90243148 ATTGTG
128 ATTGTA
** * * *
90243154 AAATTATCGAAATACCCTTGATTTGTAAAATTACCGAAATACCCCCAATTTGTGAAATTACCGAA
1 AAATTATCGAAATACCCTCAATTTGTAAAATTACCGAAATACCCCCGATTTGTAAAATTACTGAA
* * *
90243219 ACACCCTCGATTTGTAAAATTATCGAAATACCC-CTAATTTGTAAAATTATTGAAATATCCTTGA
66 ACACCCTCGATTTGTAAAATTATCGAAATACCCTC-GATTTGTAAAATTA-CGAAATACCCTTGA
90243283 TTTGTA
129 -TTGTA
* * * * * *
90243289 AAATTATCGATATACCC-CAATTTTTGAAATTACCAAAACACCCTCGATTTGTAAAATTACTGAA
1 AAATTATCGAAATACCCTCAATTTGTAAAATTACCGAAATACCCCCGATTTGTAAAATTACTGAA
*
90243353 ACACCCTCGATTTGTAAAATTATCAAAATACCCTCGATTTGTAAAATTACAGAAATACCCTTGTA
66 ACACCCTCGATTTGTAAAATTATCGAAATACCCTCGATTTGTAAAATTAC-GAAATACCCTTG-A
*
90243418 GTGTA
129 TTGTA
90243423 AAAT
1 AAAT
90243427 GACTGACATA
Statistics
Matches: 231, Mismatches: 34, Indels: 15
0.82 0.12 0.05
Matches are distributed among these distances:
132 2 0.01
133 67 0.29
134 140 0.61
135 22 0.10
ACGTcount: A:0.39, C:0.19, G:0.10, T:0.32
Consensus pattern (133 bp):
AAATTATCGAAATACCCTCAATTTGTAAAATTACCGAAATACCCCCGATTTGTAAAATTACTGAA
ACACCCTCGATTTGTAAAATTATCGAAATACCCTCGATTTGTAAAATTACGAAATACCCTTGATT
GTA
Found at i:90243441 original size:27 final size:27
Alignment explanation
Indices: 90243392--90243458 Score: 89
Period size: 27 Copynumber: 2.5 Consensus size: 27
90243382 ACCCTCGATT
* * *
90243392 TGTAAAATTACAGAAATACCCTTGTAG
1 TGTAAAATGACTGAAATACCCTTATAG
*
90243419 TGTAAAATGACTGACATACCCTTATAG
1 TGTAAAATGACTGAAATACCCTTATAG
*
90243446 GGTAAAATGACTG
1 TGTAAAATGACTG
90243459 TTTTGCCCTT
Statistics
Matches: 35, Mismatches: 5, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
27 35 1.00
ACGTcount: A:0.39, C:0.15, G:0.18, T:0.28
Consensus pattern (27 bp):
TGTAAAATGACTGAAATACCCTTATAG
Found at i:90249014 original size:39 final size:39
Alignment explanation
Indices: 90248954--90249032 Score: 104
Period size: 39 Copynumber: 2.0 Consensus size: 39
90248944 GTGGGGAGGA
* *
90248954 TGAGGGAGCCTTCTTCCTTCTTCTGTGAGACATGTAGAC
1 TGAGGGAACCTTCTTCCTTCTTCTATGAGACATGTAGAC
** * *
90248993 TGAGGGAACCTTCTTTTTTCTTCTATGAGATATGTGGAC
1 TGAGGGAACCTTCTTCCTTCTTCTATGAGACATGTAGAC
90249032 T
1 T
90249033 ATGTCTATGC
Statistics
Matches: 34, Mismatches: 6, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
39 34 1.00
ACGTcount: A:0.19, C:0.19, G:0.24, T:0.38
Consensus pattern (39 bp):
TGAGGGAACCTTCTTCCTTCTTCTATGAGACATGTAGAC
Found at i:90251690 original size:50 final size:50
Alignment explanation
Indices: 90251610--90251765 Score: 199
Period size: 50 Copynumber: 3.1 Consensus size: 50
90251600 TAGAGGACTT
* * *
90251610 GCCACAAAAGCTTTCCAAATAATATGCCACATGGACTTTTCAGATAACTA
1 GCCACAAAGGCTTCCCAAATAATACGCCACATGGACTTTTCAGATAACTA
* * * *
90251660 GCTACAAAGGCTTCCCAAATAACACACCACATAGG-CTTTCCA-AGTAACTA
1 GCCACAAAGGCTTCCCAAATAATACGCCACAT-GGACTTTTCAGA-TAACTA
* *
90251710 GCCACAAAGGCTTCCTAAATAATACGCCACATAGACTTTTCAGATAACTA
1 GCCACAAAGGCTTCCCAAATAATACGCCACATGGACTTTTCAGATAACTA
90251760 GCCACA
1 GCCACA
90251766 TAAGCTTGTT
Statistics
Matches: 89, Mismatches: 13, Indels: 8
0.81 0.12 0.07
Matches are distributed among these distances:
49 2 0.02
50 84 0.94
51 3 0.03
ACGTcount: A:0.38, C:0.28, G:0.12, T:0.22
Consensus pattern (50 bp):
GCCACAAAGGCTTCCCAAATAATACGCCACATGGACTTTTCAGATAACTA
Found at i:90251766 original size:25 final size:25
Alignment explanation
Indices: 90251610--90251772 Score: 120
Period size: 25 Copynumber: 6.5 Consensus size: 25
90251600 TAGAGGACTT
* *
90251610 GCCACAAAAGCTTTCCAAATAA-TA
1 GCCACATAGGCTTTCCAAATAACTA
* *
90251634 TGCCACAT-GGACTTTTCAGATAACTA
1 -GCCACATAGG-CTTTCCAAATAACTA
* * *
90251660 GCTACAAAGGCTTCCCAAATAAC-A
1 GCCACATAGGCTTTCCAAATAACTA
* *
90251684 CACCACATAGGCTTTCCAAGTAACTA
1 -GCCACATAGGCTTTCCAAATAACTA
*
90251710 GCCACAAAGGC-TTCCTAAATAA-TA
1 GCCACATAGGCTTTCC-AAATAACTA
* * *
90251734 CGCCACATAGACTTTTCAGATAACTA
1 -GCCACATAGGCTTTCCAAATAACTA
*
90251760 GCCACATAAGCTT
1 GCCACATAGGCTT
90251773 GTTTTGTTTG
Statistics
Matches: 106, Mismatches: 23, Indels: 18
0.72 0.16 0.12
Matches are distributed among these distances:
24 8 0.08
25 88 0.83
26 10 0.09
ACGTcount: A:0.37, C:0.27, G:0.12, T:0.23
Consensus pattern (25 bp):
GCCACATAGGCTTTCCAAATAACTA
Found at i:90272967 original size:23 final size:23
Alignment explanation
Indices: 90272941--90273033 Score: 105
Period size: 23 Copynumber: 4.0 Consensus size: 23
90272931 CACCGCAAGA
* *
90272941 GCATTACAGAATACACCAAAAAG
1 GCATCACAGAATACACCACAAAG
* ***
90272964 GCATCACAAAATACGGTACAAAG
1 GCATCACAGAATACACCACAAAG
**
90272987 GCATCACAGAATATGCCACAAAG
1 GCATCACAGAATACACCACAAAG
*
90273010 GCATTACAGAATACACCACAAAG
1 GCATCACAGAATACACCACAAAG
90273033 G
1 G
90273034 TTTCCGAGAG
Statistics
Matches: 57, Mismatches: 13, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
23 57 1.00
ACGTcount: A:0.47, C:0.24, G:0.16, T:0.13
Consensus pattern (23 bp):
GCATCACAGAATACACCACAAAG
Found at i:90275667 original size:43 final size:43
Alignment explanation
Indices: 90275606--90275701 Score: 147
Period size: 43 Copynumber: 2.2 Consensus size: 43
90275596 ATGTAATGGT
*
90275606 ACTAAGTGTGAAATACAATTATAGATTCGACTAATTATTTGGC
1 ACTAAGTGTGAAATACAATTATAGATTCGACTAATTAATTGGC
** * *
90275649 ACTAAGTGTGTGATACAATTATAGCTTTGACTAATTAATTGGC
1 ACTAAGTGTGAAATACAATTATAGATTCGACTAATTAATTGGC
90275692 ACTAAGTGTG
1 ACTAAGTGTG
90275702 CGAGTTCATT
Statistics
Matches: 48, Mismatches: 5, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
43 48 1.00
ACGTcount: A:0.34, C:0.11, G:0.19, T:0.35
Consensus pattern (43 bp):
ACTAAGTGTGAAATACAATTATAGATTCGACTAATTAATTGGC
Found at i:90283073 original size:13 final size:13
Alignment explanation
Indices: 90283055--90283083 Score: 58
Period size: 13 Copynumber: 2.2 Consensus size: 13
90283045 AAGAAATCTA
90283055 AAACCTAAGAATG
1 AAACCTAAGAATG
90283068 AAACCTAAGAATG
1 AAACCTAAGAATG
90283081 AAA
1 AAA
90283084 GAAAATAATA
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 16 1.00
ACGTcount: A:0.59, C:0.14, G:0.14, T:0.14
Consensus pattern (13 bp):
AAACCTAAGAATG
Found at i:90295500 original size:5 final size:6
Alignment explanation
Indices: 90295462--90295487 Score: 52
Period size: 6 Copynumber: 4.3 Consensus size: 6
90295452 ATTTACGCTC
90295462 TTATTT TTATTT TTATTT TTATTT TT
1 TTATTT TTATTT TTATTT TTATTT TT
90295488 CTACTTTATT
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 20 1.00
ACGTcount: A:0.15, C:0.00, G:0.00, T:0.85
Consensus pattern (6 bp):
TTATTT
Found at i:90297159 original size:11 final size:12
Alignment explanation
Indices: 90297137--90297169 Score: 50
Period size: 11 Copynumber: 2.8 Consensus size: 12
90297127 TCGGCTGCCC
90297137 ATATTAATTTTT
1 ATATTAATTTTT
90297149 ATATT-ATTTTT
1 ATATTAATTTTT
*
90297160 ATATAAATTT
1 ATATTAATTT
90297170 AAAATATATA
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
11 10 0.53
12 9 0.47
ACGTcount: A:0.36, C:0.00, G:0.00, T:0.64
Consensus pattern (12 bp):
ATATTAATTTTT
Found at i:90300813 original size:47 final size:47
Alignment explanation
Indices: 90300761--90301260 Score: 829
Period size: 47 Copynumber: 10.6 Consensus size: 47
90300751 GATAATTGTG
* *
90300761 ATGTGAATGTATATATATGTGATAAGGCCTAATGGCCGATGTGATGA
1 ATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGA
*
90300808 ATGTGAAAGTGTATATATGTGATAAGCCCTAATGGCCGATGTGATGA
1 ATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGA
90300855 ATGTGAAAGTGTATATATATGTGATAAGGCCTAATGGCCGATGTGATGA
1 ATGTGAAAGTG--TATATATGTGATAAGGCCTAATGGCCGATGTGATGA
90300904 ATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGA
1 ATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGA
*
90300951 ATGTGAAAGTGTATATATGTGATAAGACCTAATGGCCGATGTGATGA
1 ATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGA
*
90300998 ATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATTA
1 ATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGA
90301045 ATGTGAAAGTGTATATATATGTGATAAGGCCTAATGGCCGATGTGATGA
1 ATGTGAAAGTG--TATATATGTGATAAGGCCTAATGGCCGATGTGATGA
*
90301094 ATGTGAAAGTGTATATATGTGATAAGGCCTAATAGCCGATGTGATGA
1 ATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGA
*
90301141 ATGTGAAAGTGTATATATGTGATGAGGCCTAATGGCCGATGTGATGA
1 ATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGA
* * * * * * *
90301188 ATGTGAAAGTGTATATATGTGACAGGGCCGAGTGGCCAACGTGATGG
1 ATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGA
*
90301235 ATGTGAAAGTGTATAAATGTGATAAG
1 ATGTGAAAGTGTATATATGTGATAAG
90301261 TCCCGAAGGG
Statistics
Matches: 427, Mismatches: 22, Indels: 8
0.93 0.05 0.02
Matches are distributed among these distances:
47 335 0.78
49 92 0.22
ACGTcount: A:0.32, C:0.09, G:0.29, T:0.30
Consensus pattern (47 bp):
ATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGA
Found at i:90300910 original size:143 final size:141
Alignment explanation
Indices: 90300761--90301260 Score: 820
Period size: 143 Copynumber: 3.5 Consensus size: 141
90300751 GATAATTGTG
*
90300761 ATGTGAATGTATATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATAT
1 ATGTGAAAGTATATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATAT
*
90300826 GTGATAAGCCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATATGTGATAAGGCCTAATG
66 GTGATAAGACCTAATGGCCGATGTGATGAATGTGAAAGTG--TATATATGTGATAAGGCCTAATG
90300891 GCCGATGTGATGA
129 GCCGATGTGATGA
*
90300904 ATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATAT
1 ATGTGAAAGTATATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATAT
90300969 GTGATAAGACCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGC
66 GTGATAAGACCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGC
*
90301034 CGATGTGATTA
131 CGATGTGATGA
90301045 ATGTGAAAGTGTATATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATAT
1 ATGTGAAA--GTATATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATAT
* * *
90301110 ATGTGATAAGGCCTAATAGCCGATGTGATGAATGTGAAAGTGTATATATGTGATGAGGCCTAATG
64 ATGTGATAAGACCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATG
90301175 GCCGATGTGATGA
129 GCCGATGTGATGA
* * * * * * * * *
90301188 ATGTGAAAGTGTATATATGTGACAGGGCCGAGTGGCCAACGTGATGGATGTGAAAGTGTATAAAT
1 ATGTGAAAGTATATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATAT
90301253 GTGATAAG
66 GTGATAAG
90301261 TCCCGAAGGG
Statistics
Matches: 337, Mismatches: 18, Indels: 6
0.93 0.05 0.02
Matches are distributed among these distances:
141 99 0.29
143 238 0.71
ACGTcount: A:0.32, C:0.09, G:0.29, T:0.30
Consensus pattern (141 bp):
ATGTGAAAGTATATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATAT
GTGATAAGACCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGC
CGATGTGATGA
Found at i:90301050 original size:190 final size:190
Alignment explanation
Indices: 90300761--90301260 Score: 860
Period size: 190 Copynumber: 2.6 Consensus size: 190
90300751 GATAATTGTG
* *
90300761 ATGTGAATGTATATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATAT
1 ATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATAT
*
90300826 GTGATAAGCCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATATGTGATAAGGCCTAATG
66 GTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATATGTGATAAGGCCTAATG
*
90300891 GCCGATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGA
131 GCCGATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATAGCCGATGTGATGA
*
90300951 ATGTGAAAGTGTATATATGTGATAAGACCTAATGGCCGATGTGATGAATGTGAAAGTGTATATAT
1 ATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATAT
*
90301016 GTGATAAGGCCTAATGGCCGATGTGATTAATGTGAAAGTGTATATATATGTGATAAGGCCTAATG
66 GTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATATGTGATAAGGCCTAATG
90301081 GCCGATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATAGCCGATGTGATGA
131 GCCGATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATAGCCGATGTGATGA
*
90301141 ATGTGAAAGTGTATATATGTGATGAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATAT
1 ATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATAT
* * * * * * *
90301206 GTGACAGGGCCGAGTGGCCAACGTGATGGATGTGAAAGTGTATA-A-ATGTGATAAG
66 GTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATATGTGATAAG
90301261 TCCCGAAGGG
Statistics
Matches: 294, Mismatches: 16, Indels: 2
0.94 0.05 0.01
Matches are distributed among these distances:
188 10 0.03
189 1 0.00
190 283 0.96
ACGTcount: A:0.32, C:0.09, G:0.29, T:0.30
Consensus pattern (190 bp):
ATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATAT
GTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATATGTGATAAGGCCTAATG
GCCGATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATAGCCGATGTGATGA
Found at i:90311711 original size:31 final size:31
Alignment explanation
Indices: 90311676--90311739 Score: 119
Period size: 31 Copynumber: 2.1 Consensus size: 31
90311666 CCTAAGACAG
90311676 AGAGGGGAAACTTTAAAGGCCTAATTGGGTA
1 AGAGGGGAAACTTTAAAGGCCTAATTGGGTA
*
90311707 AGAGGGGAAACTTTCAAGGCCTAATTGGGTA
1 AGAGGGGAAACTTTAAAGGCCTAATTGGGTA
90311738 AG
1 AG
90311740 TTCTCTTGTC
Statistics
Matches: 32, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
31 32 1.00
ACGTcount: A:0.34, C:0.11, G:0.33, T:0.22
Consensus pattern (31 bp):
AGAGGGGAAACTTTAAAGGCCTAATTGGGTA
Found at i:90320382 original size:57 final size:56
Alignment explanation
Indices: 90320266--90320403 Score: 165
Period size: 57 Copynumber: 2.4 Consensus size: 56
90320256 CATTAGAGAA
* *
90320266 AGGATTTAGCCTGGACTGGTAATCTTGATATAAGCCCTCTTGAGCATATGTACAGAT
1 AGGATTTAGCCTGGACAGGTAATCTTGATATAAG-CCTCTTGAGCATATGTACAAAT
*
90320323 AGGATTTAGCCCGGACAGGTAATCTTGAT-TAAG-CTCTTGTAAGCATATGTTGA-AAAT
1 AGGATTTAGCCTGGACAGGTAATCTTGATATAAGCCTCTTG--AGCATATG-T-ACAAAT
* *
90320380 AGGATTTAGCTTGGACAAGTAATC
1 AGGATTTAGCCTGGACAGGTAATC
90320404 CTGTTATATG
Statistics
Matches: 71, Mismatches: 6, Indels: 8
0.84 0.07 0.09
Matches are distributed among these distances:
54 6 0.08
56 12 0.17
57 52 0.73
58 1 0.01
ACGTcount: A:0.30, C:0.15, G:0.23, T:0.31
Consensus pattern (56 bp):
AGGATTTAGCCTGGACAGGTAATCTTGATATAAGCCTCTTGAGCATATGTACAAAT
Found at i:90325716 original size:46 final size:46
Alignment explanation
Indices: 90325649--90325826 Score: 196
Period size: 46 Copynumber: 3.8 Consensus size: 46
90325639 TGTAACCCGC
* *
90325649 CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGGGTGTTTGCAT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGGATGTTAGCAT
* *
90325695 CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGGATGCCTAG-TT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGGATG-TTAGCAT
* *** * * * ** *
90325741 ACATCTCTCGAACTCGAACTCAACTCAACGAGTTTGGACATTCGCAT
1 CCATAAGT-GAACTCGGACTCAACTCAACGAGCTCGGATGTTAGCAT
*
90325788 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGATG
1 CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGGATG
90325827 CCCAAATATC
Statistics
Matches: 105, Mismatches: 24, Indels: 6
0.78 0.18 0.04
Matches are distributed among these distances:
46 72 0.69
47 33 0.31
ACGTcount: A:0.29, C:0.28, G:0.21, T:0.23
Consensus pattern (46 bp):
CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGGATGTTAGCAT
Found at i:90325766 original size:93 final size:93
Alignment explanation
Indices: 90325657--90325828 Score: 272
Period size: 93 Copynumber: 1.8 Consensus size: 93
90325647 GCCCATAAGT
* *** *
90325657 GAACTCGGACTCAACTCAACGAGCTCGGGTGTTTGCATCCATAAGTGAACTCGGACTCAACTCAA
1 GAACTCGAACTCAACTCAACGAGCTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCAA
90325722 CGAGCTCGGATGCCTAGTTACATCTCTC
66 CGAGCTCGGATGCCTAGTTACATCTCTC
* *
90325750 GAACTCGAACTCAACTCAACGAGTTTGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCAA
1 GAACTCGAACTCAACTCAACGAGCTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCAA
*
90325815 CGAGTTCGGATGCC
66 CGAGCTCGGATGCC
90325829 CAAATATCCT
Statistics
Matches: 71, Mismatches: 8, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
93 71 1.00
ACGTcount: A:0.28, C:0.28, G:0.21, T:0.23
Consensus pattern (93 bp):
GAACTCGAACTCAACTCAACGAGCTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCAA
CGAGCTCGGATGCCTAGTTACATCTCTC
Found at i:90328194 original size:16 final size:17
Alignment explanation
Indices: 90328173--90328205 Score: 50
Period size: 16 Copynumber: 2.0 Consensus size: 17
90328163 TCTCAAAAGA
*
90328173 ATAAGAATAA-CAAAAC
1 ATAAGAAAAACCAAAAC
90328189 ATAAGAAAAACCAAAAC
1 ATAAGAAAAACCAAAAC
90328206 TCCTGAGGGA
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
16 9 0.60
17 6 0.40
ACGTcount: A:0.70, C:0.15, G:0.06, T:0.09
Consensus pattern (17 bp):
ATAAGAAAAACCAAAAC
Found at i:90331883 original size:32 final size:32
Alignment explanation
Indices: 90331847--90331914 Score: 118
Period size: 32 Copynumber: 2.1 Consensus size: 32
90331837 TAAATGAGTT
* *
90331847 AATTTTTATTTCATATAGATCAAGAAAGAAAG
1 AATTTTGAATTCATATAGATCAAGAAAGAAAG
90331879 AATTTTGAATTCATATAGATCAAGAAAGAAAG
1 AATTTTGAATTCATATAGATCAAGAAAGAAAG
90331911 AATT
1 AATT
90331915 CGGATTTAAA
Statistics
Matches: 34, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
32 34 1.00
ACGTcount: A:0.49, C:0.06, G:0.13, T:0.32
Consensus pattern (32 bp):
AATTTTGAATTCATATAGATCAAGAAAGAAAG
Found at i:90335503 original size:10 final size:10
Alignment explanation
Indices: 90335488--90335512 Score: 50
Period size: 10 Copynumber: 2.5 Consensus size: 10
90335478 CATTTAAAAC
90335488 ATGTCTAAAT
1 ATGTCTAAAT
90335498 ATGTCTAAAT
1 ATGTCTAAAT
90335508 ATGTC
1 ATGTC
90335513 CACTCATTCT
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
10 15 1.00
ACGTcount: A:0.36, C:0.12, G:0.12, T:0.40
Consensus pattern (10 bp):
ATGTCTAAAT
Found at i:90336014 original size:66 final size:65
Alignment explanation
Indices: 90335891--90336027 Score: 168
Period size: 66 Copynumber: 2.1 Consensus size: 65
90335881 CACGGTCTCA
* * *
90335891 CACATGGGCATGTGACTGGCCGTGTGGTACAAGTTAGTATAACCCCTAATTGGCACACGGCCTAG
1 CACACGGGCATGTGACTGGCCGTGTGGCACAAGTTAGTATAACCCCCAATTGGCACACGGCCTAG
* * * * **
90335956 CACACGGGCATGTGACTTGGTCGTGTTGCATAAGTTAGTAT-ACCCTCCATTTTTCACACGGCCT
1 CACACGGGCATGTGAC-TGGCCGTGTGGCACAAGTTAGTATAACCC-CCAATTGGCACACGGCCT
90336020 AG
64 AG
90336022 CACACG
1 CACACG
90336028 AACGTTTCCT
Statistics
Matches: 61, Mismatches: 9, Indels: 3
0.84 0.12 0.04
Matches are distributed among these distances:
65 19 0.31
66 42 0.69
ACGTcount: A:0.23, C:0.26, G:0.25, T:0.26
Consensus pattern (65 bp):
CACACGGGCATGTGACTGGCCGTGTGGCACAAGTTAGTATAACCCCCAATTGGCACACGGCCTAG
Found at i:90337909 original size:15 final size:17
Alignment explanation
Indices: 90337884--90337917 Score: 54
Period size: 16 Copynumber: 2.1 Consensus size: 17
90337874 GCTAAGGACT
90337884 AAATTAGAAAG-TGATA
1 AAATTAGAAAGATGATA
90337900 AAATTA-AAAGATGATA
1 AAATTAGAAAGATGATA
90337916 AA
1 AA
90337918 TAATTAAATA
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
15 4 0.24
16 13 0.76
ACGTcount: A:0.62, C:0.00, G:0.15, T:0.24
Consensus pattern (17 bp):
AAATTAGAAAGATGATA
Found at i:90342544 original size:40 final size:40
Alignment explanation
Indices: 90342453--90342622 Score: 207
Period size: 40 Copynumber: 4.3 Consensus size: 40
90342443 TCCTCGTTCA
* * * * *
90342453 AATGCCTTCGGGACATAGCCCGGTTTTAGTAACTCACAC-
1 AATGCCTTCGGGACTTAACCCGGATTTAATAACTCGCACG
* * *
90342492 CATGCCTTCGGGACGTAACCCGGATTTAACAACTCGCACG
1 AATGCCTTCGGGACTTAACCCGGATTTAATAACTCGCACG
*
90342532 AATGCCTTCGGGACTTAACCCGGCTTTAATAACTCGCACG
1 AATGCCTTCGGGACTTAACCCGGATTTAATAACTCGCACG
* * * *
90342572 AATGCCCTCGGGACTTAACCCGGATTTAGTATCTCGCACA
1 AATGCCTTCGGGACTTAACCCGGATTTAATAACTCGCACG
*
90342612 AAGGCCTTCGG
1 AATGCCTTCGG
90342623 ATCTTAGTCC
Statistics
Matches: 112, Mismatches: 18, Indels: 1
0.85 0.14 0.01
Matches are distributed among these distances:
39 32 0.29
40 80 0.71
ACGTcount: A:0.25, C:0.30, G:0.22, T:0.24
Consensus pattern (40 bp):
AATGCCTTCGGGACTTAACCCGGATTTAATAACTCGCACG
Found at i:90350451 original size:40 final size:40
Alignment explanation
Indices: 90350360--90350529 Score: 207
Period size: 40 Copynumber: 4.3 Consensus size: 40
90350350 TCCTCGTTCA
* * * * *
90350360 AATGCCTTCGGGACATAGCCCGGTTTTAGTAACTCACAC-
1 AATGCCTTCGGGACTTAACCCGGATTTAATAACTCGCACG
* * *
90350399 CATGCCTTCGGGACGTAACCCGGATTTAACAACTCGCACG
1 AATGCCTTCGGGACTTAACCCGGATTTAATAACTCGCACG
*
90350439 AATGCCTTCGGGACTTAACCCGGCTTTAATAACTCGCACG
1 AATGCCTTCGGGACTTAACCCGGATTTAATAACTCGCACG
* * * *
90350479 AATGCCCTCGGGACTTAACCCGGATTTAGTATCTCGCACA
1 AATGCCTTCGGGACTTAACCCGGATTTAATAACTCGCACG
*
90350519 AAGGCCTTCGG
1 AATGCCTTCGG
90350530 ATCTTAGTCC
Statistics
Matches: 112, Mismatches: 18, Indels: 1
0.85 0.14 0.01
Matches are distributed among these distances:
39 32 0.29
40 80 0.71
ACGTcount: A:0.25, C:0.30, G:0.22, T:0.24
Consensus pattern (40 bp):
AATGCCTTCGGGACTTAACCCGGATTTAATAACTCGCACG
Found at i:90353260 original size:42 final size:42
Alignment explanation
Indices: 90353200--90353312 Score: 147
Period size: 43 Copynumber: 2.7 Consensus size: 42
90353190 TTGAGATTAT
*
90353200 GTGTAAGACCATATCTAGGATATGGCATCAATACGAGA-CTTC
1 GTGTAAGACCATATCTAGGATATGGCATCAATACGAGATC-CC
* * * *
90353242 GTGTAAGACCACAGCTAGGCTATTGGCATCAATATGAGATCCC
1 GTGTAAGACCATATCTAGGATA-TGGCATCAATACGAGATCCC
*
90353285 ATGTAAGACCATATCTAGGATATGGCAT
1 GTGTAAGACCATATCTAGGATATGGCAT
90353313 TGGTACGGTA
Statistics
Matches: 60, Mismatches: 9, Indels: 4
0.82 0.12 0.05
Matches are distributed among these distances:
42 25 0.42
43 34 0.57
44 1 0.02
ACGTcount: A:0.33, C:0.19, G:0.22, T:0.26
Consensus pattern (42 bp):
GTGTAAGACCATATCTAGGATATGGCATCAATACGAGATCCC
Found at i:90368094 original size:6 final size:6
Alignment explanation
Indices: 90368083--90368110 Score: 56
Period size: 6 Copynumber: 4.7 Consensus size: 6
90368073 AACATCAACC
90368083 TTCCCT TTCCCT TTCCCT TTCCCT TTCC
1 TTCCCT TTCCCT TTCCCT TTCCCT TTCC
90368111 TACTTTTGTC
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 22 1.00
ACGTcount: A:0.00, C:0.50, G:0.00, T:0.50
Consensus pattern (6 bp):
TTCCCT
Found at i:90371503 original size:18 final size:18
Alignment explanation
Indices: 90371476--90371514 Score: 60
Period size: 18 Copynumber: 2.2 Consensus size: 18
90371466 TCAGTTGTAA
90371476 TTTAGATTTTCTTCTAGT
1 TTTAGATTTTCTTCTAGT
* *
90371494 TTTAGTTTTTCTTTTAGT
1 TTTAGATTTTCTTCTAGT
90371512 TTT
1 TTT
90371515 CTATTTTGTT
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
18 19 1.00
ACGTcount: A:0.13, C:0.08, G:0.10, T:0.69
Consensus pattern (18 bp):
TTTAGATTTTCTTCTAGT
Found at i:90371521 original size:18 final size:19
Alignment explanation
Indices: 90371481--90371526 Score: 51
Period size: 18 Copynumber: 2.5 Consensus size: 19
90371471 TGTAATTTAG
*
90371481 ATTTTCTTCTAGTTTTAGT
1 ATTTTCTTCTAGTTTTACT
*
90371500 -TTTTCTTTTAGTTTT-CT
1 ATTTTCTTCTAGTTTTACT
*
90371517 ATTTTGTTCT
1 ATTTTCTTCT
90371527 TCACGAGGAT
Statistics
Matches: 22, Mismatches: 4, Indels: 3
0.76 0.14 0.10
Matches are distributed among these distances:
17 1 0.05
18 21 0.95
ACGTcount: A:0.11, C:0.11, G:0.09, T:0.70
Consensus pattern (19 bp):
ATTTTCTTCTAGTTTTACT
Found at i:90378976 original size:9 final size:9
Alignment explanation
Indices: 90378962--90378991 Score: 53
Period size: 9 Copynumber: 3.4 Consensus size: 9
90378952 GGAATTTAGA
90378962 AAAATAATT
1 AAAATAATT
90378971 AAAATAATT
1 AAAATAATT
90378980 AAAATAA-T
1 AAAATAATT
90378988 AAAA
1 AAAA
90378992 GATATTAACC
Statistics
Matches: 21, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
8 5 0.24
9 16 0.76
ACGTcount: A:0.73, C:0.00, G:0.00, T:0.27
Consensus pattern (9 bp):
AAAATAATT
Found at i:90385787 original size:24 final size:24
Alignment explanation
Indices: 90385759--90385831 Score: 119
Period size: 24 Copynumber: 3.0 Consensus size: 24
90385749 GGGCCTTGTA
90385759 GGCCCAAAATTAGGACACTACAAT
1 GGCCCAAAATTAGGACACTACAAT
*
90385783 GGCCCAAACTTAGGACACTACAAT
1 GGCCCAAAATTAGGACACTACAAT
* *
90385807 GGCTCAAAATTGGGACACTACAAT
1 GGCCCAAAATTAGGACACTACAAT
90385831 G
1 G
90385832 TTAGTGAGTT
Statistics
Matches: 45, Mismatches: 4, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
24 45 1.00
ACGTcount: A:0.38, C:0.25, G:0.19, T:0.18
Consensus pattern (24 bp):
GGCCCAAAATTAGGACACTACAAT
Found at i:90403845 original size:16 final size:16
Alignment explanation
Indices: 90403820--90403854 Score: 54
Period size: 16 Copynumber: 2.2 Consensus size: 16
90403810 CTAGAAAATT
90403820 AAATAAAATTTAT-GA
1 AAATAAAATTTATGGA
90403835 AAATGAAAATTTATGGA
1 AAAT-AAAATTTATGGA
90403852 AAA
1 AAA
90403855 ATGGTCACAT
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
15 4 0.22
16 9 0.50
17 5 0.28
ACGTcount: A:0.60, C:0.00, G:0.11, T:0.29
Consensus pattern (16 bp):
AAATAAAATTTATGGA
Found at i:90404690 original size:26 final size:25
Alignment explanation
Indices: 90404661--90404712 Score: 70
Period size: 26 Copynumber: 2.0 Consensus size: 25
90404651 ACTTTTGTTA
90404661 AGGGACT-TTTGATGAAAATGTGAAAT
1 AGGGACTATTTG-T-AAAATGTGAAAT
90404687 AGGGACTAATTTGTAAAATGTGAAAT
1 AGGGACT-ATTTGTAAAATGTGAAAT
90404713 TTATGAGTTA
Statistics
Matches: 24, Mismatches: 0, Indels: 4
0.86 0.00 0.14
Matches are distributed among these distances:
26 19 0.79
27 1 0.04
28 4 0.17
ACGTcount: A:0.40, C:0.04, G:0.25, T:0.31
Consensus pattern (25 bp):
AGGGACTATTTGTAAAATGTGAAAT
Found at i:90405238 original size:42 final size:43
Alignment explanation
Indices: 90405191--90405308 Score: 143
Period size: 42 Copynumber: 2.8 Consensus size: 43
90405181 GTACTACCGA
* *
90405191 GATTTCGTATAAGACCATATCTGGGATATGGCATCGATATG-T
1 GATTTCATATAAGACCATATCAGGGATATGGCATCGATATGAT
* * *
90405233 GATTTCATATAAGACCATGTCAGGGACATGGCGTCGATATGAT
1 GATTTCATATAAGACCATATCAGGGATATGGCATCGATATGAT
* *
90405276 G-TTTCATGTAAGACCATATCCGAGG-TATGGCAT
1 GATTTCATATAAGACCATATCAG-GGATATGGCAT
90405309 TGGTACAGTA
Statistics
Matches: 64, Mismatches: 10, Indels: 4
0.82 0.13 0.05
Matches are distributed among these distances:
42 60 0.94
43 4 0.06
ACGTcount: A:0.29, C:0.16, G:0.25, T:0.31
Consensus pattern (43 bp):
GATTTCATATAAGACCATATCAGGGATATGGCATCGATATGAT
Found at i:90421569 original size:32 final size:32
Alignment explanation
Indices: 90421533--90421604 Score: 112
Period size: 32 Copynumber: 2.3 Consensus size: 32
90421523 CCACACGGGT
*
90421533 AGGCACATGGGCGTGTGTCTAGGCCGTATGTG
1 AGGCACACGGGCGTGTGTCTAGGCCGTATGTG
*
90421565 AGGCACACGGGCGTGTGTCTAGGCCGTGTGTG
1 AGGCACACGGGCGTGTGTCTAGGCCGTATGTG
90421597 A--CACACGG
1 AGGCACACGG
90421605 TTTACCACAT
Statistics
Matches: 38, Mismatches: 2, Indels: 2
0.90 0.05 0.05
Matches are distributed among these distances:
30 7 0.18
32 31 0.82
ACGTcount: A:0.17, C:0.22, G:0.40, T:0.21
Consensus pattern (32 bp):
AGGCACACGGGCGTGTGTCTAGGCCGTATGTG
Found at i:90427378 original size:46 final size:48
Alignment explanation
Indices: 90427246--90427516 Score: 217
Period size: 46 Copynumber: 5.7 Consensus size: 48
90427236 TTATGAGATT
* * *
90427246 CAGTGTAAGACCATGTCTAGGACATGGCATCGAC-ATTGAGATG-AGTGC
1 CAGTGTAAGACCATGTCTAGGACATGGCATCGGCTA-CGAGATGTA-AGC
* * * * *
90427294 TAGTGTAAGA-CATGTCTGGGATAT-GCATCAGCCT-CGAGACGTAAGC
1 CAGTGTAAGACCATGTCTAGGACATGGCATC-GGCTACGAGATGTAAGC
*
90427340 CAGTGTAAGA-CATGTCTAGGACAT-GCATCGGCTACGAGATGT--GT
1 CAGTGTAAGACCATGTCTAGGACATGGCATCGGCTACGAGATGTAAGC
* * *
90427384 CAGTGTAAGACCATGTTTGGGACATGGCATCGGC-ACGA-ATAGGCGAGAGC
1 CAGTGTAAGACCATGTCTAGGACATGGCATCGGCTACGAGAT--G-TA-AGC
* * *
90427434 TAGTATAAGACCATGTCTAGCACATGGCATCGGCCT-CGATGATGATAA-C
1 CAGTGTAAGACCATGTCTAGGACATGGCATCGG-CTACGA-GATG-TAAGC
*
90427483 CAGTGTAAGACCATGTCCAGGACATGGCATCGGC
1 CAGTGTAAGACCATGTCTAGGACATGGCATCGGC
90427517 AACTTGCCCC
Statistics
Matches: 179, Mismatches: 28, Indels: 32
0.75 0.12 0.13
Matches are distributed among these distances:
44 13 0.07
45 19 0.11
46 54 0.30
47 15 0.08
48 10 0.06
49 30 0.17
50 30 0.17
51 6 0.03
53 2 0.01
ACGTcount: A:0.28, C:0.21, G:0.29, T:0.22
Consensus pattern (48 bp):
CAGTGTAAGACCATGTCTAGGACATGGCATCGGCTACGAGATGTAAGC
Found at i:90428582 original size:20 final size:21
Alignment explanation
Indices: 90428541--90428582 Score: 77
Period size: 21 Copynumber: 2.0 Consensus size: 21
90428531 TAGAAATTAA
90428541 TTCCACATGGGCGTGTTGCCC
1 TTCCACATGGGCGTGTTGCCC
90428562 TTCCACATGGGCGTG-TGCCC
1 TTCCACATGGGCGTGTTGCCC
90428582 T
1 T
90428583 GTTTTAAAGA
Statistics
Matches: 21, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
20 6 0.29
21 15 0.71
ACGTcount: A:0.10, C:0.33, G:0.29, T:0.29
Consensus pattern (21 bp):
TTCCACATGGGCGTGTTGCCC
Found at i:90434895 original size:97 final size:97
Alignment explanation
Indices: 90434772--90434966 Score: 381
Period size: 97 Copynumber: 2.0 Consensus size: 97
90434762 AAAAGAACCA
90434772 TATTTTGAGTAGCATAAAGTGAATTACTTGCAAACCGACCAACACAGAACCATGTAAGAGAATTG
1 TATTTTGAGTAGCATAAAGTGAATTACTTGCAAACCGACCAACACAGAACCATGTAAGAGAATTG
90434837 TAGGTCAACATTAATGGTTCAAATATAAGCCC
66 TAGGTCAACATTAATGGTTCAAATATAAGCCC
90434869 TATTTTGAGTAGCATAAAGTGAATTACTTGCAAACCGACCAACACAGAACCATGTAAGAGAATTG
1 TATTTTGAGTAGCATAAAGTGAATTACTTGCAAACCGACCAACACAGAACCATGTAAGAGAATTG
*
90434934 TAGGTCAACATTAATGGTTCAAGTATAAGCCC
66 TAGGTCAACATTAATGGTTCAAATATAAGCCC
90434966 T
1 T
90434967 CTAAATTCCA
Statistics
Matches: 97, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
97 97 1.00
ACGTcount: A:0.38, C:0.17, G:0.18, T:0.26
Consensus pattern (97 bp):
TATTTTGAGTAGCATAAAGTGAATTACTTGCAAACCGACCAACACAGAACCATGTAAGAGAATTG
TAGGTCAACATTAATGGTTCAAATATAAGCCC
Found at i:90435599 original size:6 final size:6
Alignment explanation
Indices: 90435588--90435619 Score: 64
Period size: 6 Copynumber: 5.3 Consensus size: 6
90435578 TGGTTGAGTT
90435588 CCAACG CCAACG CCAACG CCAACG CCAACG CC
1 CCAACG CCAACG CCAACG CCAACG CCAACG CC
90435620 TGCATGGCTG
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 26 1.00
ACGTcount: A:0.31, C:0.53, G:0.16, T:0.00
Consensus pattern (6 bp):
CCAACG
Found at i:90436053 original size:16 final size:16
Alignment explanation
Indices: 90436032--90436063 Score: 64
Period size: 16 Copynumber: 2.0 Consensus size: 16
90436022 TAAAAAGTAA
90436032 GCTAAACACATCATAC
1 GCTAAACACATCATAC
90436048 GCTAAACACATCATAC
1 GCTAAACACATCATAC
90436064 TATACCTTAT
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 16 1.00
ACGTcount: A:0.44, C:0.31, G:0.06, T:0.19
Consensus pattern (16 bp):
GCTAAACACATCATAC
Found at i:90436571 original size:14 final size:14
Alignment explanation
Indices: 90436554--90436594 Score: 64
Period size: 14 Copynumber: 2.9 Consensus size: 14
90436544 TTTTATCTTG
*
90436554 AATTTTGGACTTTA
1 AATTTTGAACTTTA
90436568 AATTTTGAACTTTA
1 AATTTTGAACTTTA
*
90436582 AATTTTAAACTTT
1 AATTTTGAACTTT
90436595 GTATCTTGGT
Statistics
Matches: 25, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
14 25 1.00
ACGTcount: A:0.34, C:0.07, G:0.07, T:0.51
Consensus pattern (14 bp):
AATTTTGAACTTTA
Found at i:90437917 original size:29 final size:29
Alignment explanation
Indices: 90437880--90437955 Score: 107
Period size: 29 Copynumber: 2.6 Consensus size: 29
90437870 TGACACAAAT
*
90437880 TCTCAACGAACAAATTCTTCGTCACGAAC
1 TCTCAACGAACAAATTCTTCATCACGAAC
* * *
90437909 TCTTAACGAACAAATTTTTCATCATGAAC
1 TCTCAACGAACAAATTCTTCATCACGAAC
*
90437938 TCTCAACGAACAAGTTCT
1 TCTCAACGAACAAATTCT
90437956 CCACCTCTTC
Statistics
Matches: 40, Mismatches: 7, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
29 40 1.00
ACGTcount: A:0.36, C:0.26, G:0.09, T:0.29
Consensus pattern (29 bp):
TCTCAACGAACAAATTCTTCATCACGAAC
Found at i:90444125 original size:49 final size:48
Alignment explanation
Indices: 90444052--90444235 Score: 211
Period size: 49 Copynumber: 3.9 Consensus size: 48
90444042 TGCTATGTAA
*
90444052 TGCTAAACTTGGTCTTCCATTGTCTACACTCTTATCACTATTTATACAT
1 TGCTAAAC-TGGTCTTCCACTGTCTACACTCTTATCACTATTTATACAT
* * *
90444101 TGCTAAACTGAGTCTTCCACTGTCTACATTCTTATCACTATTTATCCCT
1 TGCTAAACTG-GTCTTCCACTGTCTACACTCTTATCACTATTTATACAT
*
90444150 T-CT----TGGTCTTCCATTGTCTACACTCTTATCACTATTTATACAT
1 TGCTAAACTGGTCTTCCACTGTCTACACTCTTATCACTATTTATACAT
** * *
90444193 TGCTAAACTTAATCTTCCACTATCT--ATTCTTATCACTATTTAT
1 TGCTAAAC-TGGTCTTCCACTGTCTACACTCTTATCACTATTTAT
90444236 CCCTTCTTAA
Statistics
Matches: 115, Mismatches: 13, Indels: 16
0.80 0.09 0.11
Matches are distributed among these distances:
43 35 0.30
44 4 0.03
47 17 0.15
48 4 0.03
49 55 0.48
ACGTcount: A:0.24, C:0.26, G:0.07, T:0.44
Consensus pattern (48 bp):
TGCTAAACTGGTCTTCCACTGTCTACACTCTTATCACTATTTATACAT
Found at i:90444177 original size:43 final size:44
Alignment explanation
Indices: 90444059--90444196 Score: 188
Period size: 43 Copynumber: 3.0 Consensus size: 44
90444049 TAATGCTAAA
90444059 CTTGGTCTTCCATTGTCTACACTCTTATCACTATTTATACATTG
1 CTTGGTCTTCCATTGTCTACACTCTTATCACTATTTATACATTG
* * * *
90444103 CTAAACTGAGTCTTCCACTGTCTACATTCTTATCACTATTTATCCCTT-
1 CT----TG-GTCTTCCATTGTCTACACTCTTATCACTATTTATACATTG
90444151 CTTGGTCTTCCATTGTCTACACTCTTATCACTATTTATACATTG
1 CTTGGTCTTCCATTGTCTACACTCTTATCACTATTTATACATTG
90444195 CT
1 CT
90444197 AAACTTAATC
Statistics
Matches: 80, Mismatches: 8, Indels: 12
0.80 0.08 0.12
Matches are distributed among these distances:
43 35 0.44
44 6 0.08
48 4 0.05
49 35 0.44
ACGTcount: A:0.21, C:0.27, G:0.08, T:0.44
Consensus pattern (44 bp):
CTTGGTCTTCCATTGTCTACACTCTTATCACTATTTATACATTG
Found at i:90444654 original size:30 final size:30
Alignment explanation
Indices: 90444613--90444686 Score: 103
Period size: 30 Copynumber: 2.5 Consensus size: 30
90444603 TGACTTGGAT
* *
90444613 CACACATCCATGTGTGTTGCCCGTGTGTGA
1 CACACACCCATGTGTGTTGCCCGTATGTGA
* *
90444643 CACACGCCCATGTGTGTTGCCTGTATGTGA
1 CACACACCCATGTGTGTTGCCCGTATGTGA
*
90444673 GACACACCCATGTG
1 CACACACCCATGTG
90444687 GCCAAGCTGT
Statistics
Matches: 38, Mismatches: 6, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
30 38 1.00
ACGTcount: A:0.19, C:0.28, G:0.26, T:0.27
Consensus pattern (30 bp):
CACACACCCATGTGTGTTGCCCGTATGTGA
Found at i:90446598 original size:29 final size:29
Alignment explanation
Indices: 90446565--90446620 Score: 103
Period size: 29 Copynumber: 1.9 Consensus size: 29
90446555 TAATACTTAT
90446565 ACTATTCAACAATCTCAACATCTAAAAAA
1 ACTATTCAACAATCTCAACATCTAAAAAA
*
90446594 ACTATTCAACAATGTCAACATCTAAAA
1 ACTATTCAACAATCTCAACATCTAAAA
90446621 TCTTAAACAA
Statistics
Matches: 26, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
29 26 1.00
ACGTcount: A:0.50, C:0.23, G:0.02, T:0.25
Consensus pattern (29 bp):
ACTATTCAACAATCTCAACATCTAAAAAA
Found at i:90446869 original size:25 final size:24
Alignment explanation
Indices: 90446829--90446875 Score: 69
Period size: 25 Copynumber: 1.9 Consensus size: 24
90446819 TTCTGTCCAC
90446829 TTTCTTTCTATTTCTTTATTATGT
1 TTTCTTTCTATTTCTTTATTATGT
90446853 TTTCATTT-TATTATCTTTATTAT
1 TTTC-TTTCTATT-TCTTTATTAT
90446876 TATCATTATT
Statistics
Matches: 21, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
24 8 0.38
25 13 0.62
ACGTcount: A:0.17, C:0.11, G:0.02, T:0.70
Consensus pattern (24 bp):
TTTCTTTCTATTTCTTTATTATGT
Found at i:90446877 original size:12 final size:12
Alignment explanation
Indices: 90446855--90446889 Score: 54
Period size: 12 Copynumber: 3.0 Consensus size: 12
90446845 TATTATGTTT
90446855 TCATT-TTATTA
1 TCATTATTATTA
*
90446866 TCTTTATTATTA
1 TCATTATTATTA
90446878 TCATTATTATTA
1 TCATTATTATTA
90446890 AAGTTACTTT
Statistics
Matches: 21, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
11 4 0.19
12 17 0.81
ACGTcount: A:0.29, C:0.09, G:0.00, T:0.63
Consensus pattern (12 bp):
TCATTATTATTA
Found at i:90454631 original size:12 final size:12
Alignment explanation
Indices: 90454614--90454646 Score: 66
Period size: 12 Copynumber: 2.8 Consensus size: 12
90454604 TTCCCTGTAA
90454614 AATAGTAAAAAT
1 AATAGTAAAAAT
90454626 AATAGTAAAAAT
1 AATAGTAAAAAT
90454638 AATAGTAAA
1 AATAGTAAA
90454647 TGGGAAGTAG
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 21 1.00
ACGTcount: A:0.67, C:0.00, G:0.09, T:0.24
Consensus pattern (12 bp):
AATAGTAAAAAT
Found at i:90455568 original size:10 final size:9
Alignment explanation
Indices: 90455553--90455608 Score: 58
Period size: 10 Copynumber: 5.7 Consensus size: 9
90455543 ATTCTAAAAG
90455553 ATAAATACAA
1 ATAAATA-AA
90455563 ATAAATAAA
1 ATAAATAAA
*
90455572 GATAATTAAAA
1 -ATAAAT-AAA
90455583 ATAAATAAA
1 ATAAATAAA
90455592 GATAAATGAAA
1 -ATAAAT-AAA
90455603 ATAAAT
1 ATAAAT
90455609 CCTAAAATTT
Statistics
Matches: 40, Mismatches: 2, Indels: 8
0.80 0.04 0.16
Matches are distributed among these distances:
9 5 0.12
10 29 0.73
11 6 0.15
ACGTcount: A:0.70, C:0.02, G:0.05, T:0.23
Consensus pattern (9 bp):
ATAAATAAA
Found at i:90455572 original size:20 final size:19
Alignment explanation
Indices: 90455549--90455608 Score: 84
Period size: 20 Copynumber: 3.0 Consensus size: 19
90455539 TGAAATTCTA
90455549 AAAGATAAATACAAATAAAT
1 AAAGATAAATA-AAATAAAT
*
90455569 AAAGATAATTAAAAATAAAT
1 AAAGATAAAT-AAAATAAAT
90455589 AAAGATAAATGAAAATAAAT
1 AAAGATAAAT-AAAATAAAT
90455609 CCTAAAATTT
Statistics
Matches: 36, Mismatches: 3, Indels: 2
0.88 0.07 0.05
Matches are distributed among these distances:
20 35 0.97
21 1 0.03
ACGTcount: A:0.70, C:0.02, G:0.07, T:0.22
Consensus pattern (19 bp):
AAAGATAAATAAAATAAAT
Found at i:90455587 original size:30 final size:31
Alignment explanation
Indices: 90455547--90455606 Score: 81
Period size: 30 Copynumber: 2.0 Consensus size: 31
90455537 AATGAAATTC
90455547 TAAAAGATAAATACAA-ATAAAT-AAAGATAAT
1 TAAAAGATAAATA-AAGATAAATGAAA-ATAAT
90455578 TAAAA-ATAAATAAAGATAAATGAAAATAA
1 TAAAAGATAAATAAAGATAAATGAAAATAA
90455607 ATCCTAAAAT
Statistics
Matches: 27, Mismatches: 0, Indels: 5
0.84 0.00 0.16
Matches are distributed among these distances:
29 2 0.07
30 17 0.63
31 8 0.30
ACGTcount: A:0.70, C:0.02, G:0.07, T:0.22
Consensus pattern (31 bp):
TAAAAGATAAATAAAGATAAATGAAAATAAT
Found at i:90457267 original size:10 final size:9
Alignment explanation
Indices: 90457257--90457317 Score: 56
Period size: 10 Copynumber: 6.7 Consensus size: 9
90457247 ATCTGAAAAT
90457257 AATAAATAA
1 AATAAATAA
*
90457266 TA-AAAT-A
1 AATAAATAA
90457273 -ATAAGATAAA
1 AATAA-ATA-A
90457283 AATAAATAA
1 AATAAATAA
90457292 AATAAAATAA
1 AAT-AAATAA
90457302 AATAAAATAA
1 AAT-AAATAA
90457312 AATAAA
1 AATAAA
90457318 AAATAAAAAT
Statistics
Matches: 45, Mismatches: 1, Indels: 12
0.78 0.02 0.21
Matches are distributed among these distances:
6 1 0.02
7 3 0.07
8 6 0.13
9 8 0.18
10 23 0.51
11 4 0.09
ACGTcount: A:0.77, C:0.00, G:0.02, T:0.21
Consensus pattern (9 bp):
AATAAATAA
Found at i:90457272 original size:15 final size:14
Alignment explanation
Indices: 90457252--90457327 Score: 77
Period size: 15 Copynumber: 5.4 Consensus size: 14
90457242 TTAATATCTG
90457252 AAAATAAT-AAATAA
1 AAAATAATAAAAT-A
*
90457266 TAAAATAATAAGATA
1 -AAAATAATAAAATA
90457281 AAAATAAATAAAATA
1 AAAAT-AATAAAATA
*
90457296 AAATAAAATAAAAT-
1 AAA-ATAATAAAATA
90457310 AAAATAA-AAAATA
1 AAAATAATAAAATA
90457323 AAAAT
1 AAAAT
90457328 TGGGTTGCCT
Statistics
Matches: 53, Mismatches: 4, Indels: 10
0.79 0.06 0.15
Matches are distributed among these distances:
12 5 0.09
13 8 0.15
14 8 0.15
15 28 0.53
16 4 0.08
ACGTcount: A:0.78, C:0.00, G:0.01, T:0.21
Consensus pattern (14 bp):
AAAATAATAAAATA
Found at i:90457281 original size:20 final size:19
Alignment explanation
Indices: 90457257--90457325 Score: 72
Period size: 19 Copynumber: 3.7 Consensus size: 19
90457247 ATCTGAAAAT
90457257 AATAAATAATAAAATAATAA
1 AATAAA-AATAAAATAATAA
* *
90457277 GATAAAAATAAATAAAATAA
1 AATAAAAATAAA-ATAATAA
90457297 AAT-AAAATAAAATAA-AA
1 AATAAAAATAAAATAATAA
*
90457314 TA-AAAAATAAAA
1 AATAAAAATAAAA
90457326 ATTGGGTTGC
Statistics
Matches: 42, Mismatches: 5, Indels: 7
0.78 0.09 0.13
Matches are distributed among these distances:
17 12 0.29
18 3 0.07
19 14 0.33
20 13 0.31
ACGTcount: A:0.78, C:0.00, G:0.01, T:0.20
Consensus pattern (19 bp):
AATAAAAATAAAATAATAA
Found at i:90457325 original size:5 final size:5
Alignment explanation
Indices: 90457264--90457318 Score: 71
Period size: 5 Copynumber: 11.4 Consensus size: 5
90457254 AATAATAAAT
*
90457264 AATAA AAT-- AATAA GATAA AA-ATA AATAA AATAA AATAA AATAA AATAA
1 AATAA AATAA AATAA AATAA AATA-A AATAA AATAA AATAA AATAA AATAA
90457312 AATAA AA
1 AATAA AA
90457319 AATAAAAATT
Statistics
Matches: 44, Mismatches: 2, Indels: 8
0.81 0.04 0.15
Matches are distributed among these distances:
3 3 0.07
4 1 0.02
5 39 0.89
6 1 0.02
ACGTcount: A:0.78, C:0.00, G:0.02, T:0.20
Consensus pattern (5 bp):
AATAA
Found at i:90462209 original size:42 final size:42
Alignment explanation
Indices: 90462149--90462234 Score: 163
Period size: 42 Copynumber: 2.0 Consensus size: 42
90462139 GAAAGCACGC
90462149 AGTTTAATTTGATCCTCAGTTACCCCTTGAGGTTTCATACTA
1 AGTTTAATTTGATCCTCAGTTACCCCTTGAGGTTTCATACTA
*
90462191 AGTTTAATTTGATTCTCAGTTACCCCTTGAGGTTTCATACTA
1 AGTTTAATTTGATCCTCAGTTACCCCTTGAGGTTTCATACTA
90462233 AG
1 AG
90462235 GCAAACCATA
Statistics
Matches: 43, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
42 43 1.00
ACGTcount: A:0.24, C:0.20, G:0.15, T:0.41
Consensus pattern (42 bp):
AGTTTAATTTGATCCTCAGTTACCCCTTGAGGTTTCATACTA
Found at i:90462810 original size:12 final size:12
Alignment explanation
Indices: 90462793--90462826 Score: 68
Period size: 12 Copynumber: 2.8 Consensus size: 12
90462783 TTCCCTGCAA
90462793 AATAGTAAAAAT
1 AATAGTAAAAAT
90462805 AATAGTAAAAAT
1 AATAGTAAAAAT
90462817 AATAGTAAAA
1 AATAGTAAAA
90462827 GGGAAGTAGG
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 22 1.00
ACGTcount: A:0.68, C:0.00, G:0.09, T:0.24
Consensus pattern (12 bp):
AATAGTAAAAAT
Found at i:90463755 original size:10 final size:10
Alignment explanation
Indices: 90463736--90463795 Score: 79
Period size: 10 Copynumber: 6.0 Consensus size: 10
90463726 TGAAATTCTA
90463736 AAAGATAAAT
1 AAAGATAAAT
90463746 ACAA-ATAAAT
1 A-AAGATAAAT
*
90463756 AAAGATAATT
1 AAAGATAAAT
90463766 AAAGATAAAT
1 AAAGATAAAT
90463776 AAAGATAAAT
1 AAAGATAAAT
90463786 GAAA-ATAAAT
1 -AAAGATAAAT
90463796 CCTAAAATTT
Statistics
Matches: 45, Mismatches: 2, Indels: 6
0.85 0.04 0.11
Matches are distributed among these distances:
9 2 0.04
10 38 0.84
11 5 0.11
ACGTcount: A:0.68, C:0.02, G:0.08, T:0.22
Consensus pattern (10 bp):
AAAGATAAAT
Found at i:90465797 original size:14 final size:14
Alignment explanation
Indices: 90465778--90465829 Score: 59
Period size: 14 Copynumber: 3.7 Consensus size: 14
90465768 GTTTGCCATT
*
90465778 AAAATGTTTTCCGA
1 AAAATGATTTCCGA
* *
90465792 AAAATGATTTCTGG
1 AAAATGATTTCCGA
* *
90465806 AAAATGATTTCTGG
1 AAAATGATTTCCGA
90465820 AAAATGATTT
1 AAAATGATTT
90465830 ACTTTTTTTG
Statistics
Matches: 35, Mismatches: 3, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
14 35 1.00
ACGTcount: A:0.38, C:0.08, G:0.17, T:0.37
Consensus pattern (14 bp):
AAAATGATTTCCGA
Found at i:90465961 original size:28 final size:28
Alignment explanation
Indices: 90465930--90466002 Score: 74
Period size: 29 Copynumber: 2.6 Consensus size: 28
90465920 TCGGAAAAGC
*
90465930 TGTTTTTACAAATATTTATATTTTAAAT
1 TGTTTTTACAAATATTTATACTTTAAAT
** *
90465958 TGTTTTTTTAATAAATTTATACTTTAAAT
1 TGTTTTTACAA-ATATTTATACTTTAAAT
* * *
90465987 TATTTCTACATATATT
1 TGTTTTTACAAATATT
90466003 GCAATGATTT
Statistics
Matches: 34, Mismatches: 10, Indels: 2
0.74 0.22 0.04
Matches are distributed among these distances:
28 13 0.38
29 21 0.62
ACGTcount: A:0.34, C:0.05, G:0.03, T:0.58
Consensus pattern (28 bp):
TGTTTTTACAAATATTTATACTTTAAAT
Found at i:90467238 original size:21 final size:21
Alignment explanation
Indices: 90467214--90467255 Score: 59
Period size: 21 Copynumber: 2.0 Consensus size: 21
90467204 TCAATATCAT
90467214 TATCCAACCA-AATAAATTCAA
1 TATCCAA-CATAATAAATTCAA
*
90467235 TATCTAACATAATAAATTCAA
1 TATCCAACATAATAAATTCAA
90467256 CAAGCTTAAA
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
20 2 0.11
21 17 0.89
ACGTcount: A:0.52, C:0.19, G:0.00, T:0.29
Consensus pattern (21 bp):
TATCCAACATAATAAATTCAA
Found at i:90469643 original size:13 final size:13
Alignment explanation
Indices: 90469625--90469650 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
90469615 AAGATTATCC
90469625 TATCCTAATAATA
1 TATCCTAATAATA
90469638 TATCCTAATAATA
1 TATCCTAATAATA
90469651 AATTTGAATT
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.46, C:0.15, G:0.00, T:0.38
Consensus pattern (13 bp):
TATCCTAATAATA
Found at i:90472618 original size:40 final size:40
Alignment explanation
Indices: 90472563--90472644 Score: 164
Period size: 40 Copynumber: 2.0 Consensus size: 40
90472553 TCTGCAAGAA
90472563 TTGTCCGTTCATATTTCGAGACATTTGTTTTCCGGCTGAT
1 TTGTCCGTTCATATTTCGAGACATTTGTTTTCCGGCTGAT
90472603 TTGTCCGTTCATATTTCGAGACATTTGTTTTCCGGCTGAT
1 TTGTCCGTTCATATTTCGAGACATTTGTTTTCCGGCTGAT
90472643 TT
1 TT
90472645 AATGCTATTA
Statistics
Matches: 42, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
40 42 1.00
ACGTcount: A:0.15, C:0.20, G:0.20, T:0.46
Consensus pattern (40 bp):
TTGTCCGTTCATATTTCGAGACATTTGTTTTCCGGCTGAT
Found at i:90484110 original size:31 final size:31
Alignment explanation
Indices: 90484072--90484134 Score: 126
Period size: 31 Copynumber: 2.0 Consensus size: 31
90484062 TGCTCCAAAC
90484072 GGCTTAGCACACGGGTGTGTGACTTGGCCCT
1 GGCTTAGCACACGGGTGTGTGACTTGGCCCT
90484103 GGCTTAGCACACGGGTGTGTGACTTGGCCCT
1 GGCTTAGCACACGGGTGTGTGACTTGGCCCT
90484134 G
1 G
90484135 TGGCATAAGT
Statistics
Matches: 32, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
31 32 1.00
ACGTcount: A:0.13, C:0.25, G:0.37, T:0.25
Consensus pattern (31 bp):
GGCTTAGCACACGGGTGTGTGACTTGGCCCT
Found at i:90485294 original size:16 final size:18
Alignment explanation
Indices: 90485268--90485301 Score: 54
Period size: 16 Copynumber: 2.0 Consensus size: 18
90485258 TATACTTAGA
90485268 TAAATTAATTTTC-CAAT
1 TAAATTAATTTTCTCAAT
90485285 TAAA-TAATTTTCTCAAT
1 TAAATTAATTTTCTCAAT
90485302 CTAATTTTAA
Statistics
Matches: 16, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
16 8 0.50
17 8 0.50
ACGTcount: A:0.41, C:0.12, G:0.00, T:0.47
Consensus pattern (18 bp):
TAAATTAATTTTCTCAAT
Found at i:90491387 original size:46 final size:44
Alignment explanation
Indices: 90491289--90491449 Score: 162
Period size: 46 Copynumber: 3.5 Consensus size: 44
90491279 GTGCCGACGC
90491289 CATGTCCCAAACATGGTCTTACATTGACACATCTCATAGCCGATG
1 CATGTCCCAAACAT-GTCTTACATTGACACATCTCATAGCCGATG
** * *
90491334 CATGTCCCAAACATGTCTTACATTGACTTATGTCCTGAGGCCGATG
1 CATGTCCCAAACATGTCTTACATTGACACATCTCAT-A-GCCGATG
* * * *
90491380 CATGTCCCAGACATGTCTTACACTAGCACTCGTCTCA-ATGCCGATG
1 CATGTCCCAAACATGTCTTACA-TTG-ACACATCTCATA-GCCGATG
*
90491426 CCATGTCCCAGACATGGTCTTACA
1 -CATGTCCCAAACAT-GTCTTACA
90491450 CTAGCTCTCA
Statistics
Matches: 99, Mismatches: 11, Indels: 9
0.83 0.09 0.08
Matches are distributed among these distances:
44 18 0.18
45 15 0.15
46 36 0.36
47 16 0.16
48 14 0.14
ACGTcount: A:0.25, C:0.30, G:0.17, T:0.27
Consensus pattern (44 bp):
CATGTCCCAAACATGTCTTACATTGACACATCTCATAGCCGATG
Found at i:90491471 original size:94 final size:93
Alignment explanation
Indices: 90491372--90491590 Score: 350
Period size: 94 Copynumber: 2.3 Consensus size: 93
90491362 TATGTCCTGA
90491372 GGCCGATGCATGTCCCAGACATGTCTTACACTAGCA-CTCGTCTCAATGCCGATGCCATGTCCCA
1 GGCCGATGCATGTCCCAGACATGTCTTACACTAGCACCT-GTCTCAATGCCGATGCCATGTCCCA
90491436 GACATGGTCTTACACTAGCTCTCATAATGT
65 GACATGGTCTTACACTAGCTC-CATAATGT
* * ***
90491466 GGCCGATGCATGTACCAGACATGTCTTAGACTAGCACCTGTCTCAATGCCGATGCCATGTTGTAG
1 GGCCGATGCATGTCCCAGACATGTCTTACACTAGCACCTGTCTCAATGCCGATGCCATGTCCCAG
90491531 ACATGGTCTTACACTAGCTCCATAATGT
66 ACATGGTCTTACACTAGCTCCATAATGT
* *
90491559 GGTCGATGCATGTCCCAAACATGTCTTACACT
1 GGCCGATGCATGTCCCAGACATGTCTTACACT
90491591 GGCGCACATA
Statistics
Matches: 115, Mismatches: 9, Indels: 3
0.91 0.07 0.02
Matches are distributed among these distances:
93 36 0.31
94 77 0.67
95 2 0.02
ACGTcount: A:0.24, C:0.28, G:0.20, T:0.27
Consensus pattern (93 bp):
GGCCGATGCATGTCCCAGACATGTCTTACACTAGCACCTGTCTCAATGCCGATGCCATGTCCCAG
ACATGGTCTTACACTAGCTCCATAATGT
Found at i:90494021 original size:24 final size:24
Alignment explanation
Indices: 90493951--90494010 Score: 111
Period size: 24 Copynumber: 2.5 Consensus size: 24
90493941 CTGTTAGGAG
90493951 AGGATTTAGGAGTTGATAAGGGAT
1 AGGATTTAGGAGTTGATAAGGGAT
*
90493975 AGGATTTATGAGTTGATAAGGGAT
1 AGGATTTAGGAGTTGATAAGGGAT
90493999 AGGATTTAGGAG
1 AGGATTTAGGAG
90494011 AAGACAAGGG
Statistics
Matches: 34, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
24 34 1.00
ACGTcount: A:0.33, C:0.00, G:0.37, T:0.30
Consensus pattern (24 bp):
AGGATTTAGGAGTTGATAAGGGAT
Found at i:90495497 original size:27 final size:26
Alignment explanation
Indices: 90495439--90495549 Score: 114
Period size: 27 Copynumber: 4.1 Consensus size: 26
90495429 AGGAAGCATC
* * *
90495439 CTGGTGGCTATGCCCCAAATTATCTGAT
1 CTGGTGGCTCTG--CCACATTATCTGTT
90495467 CTGGTGGCTCTGCCACATATATCTGTT
1 CTGGTGGCTCTGCCACAT-TATCTGTT
* *
90495494 CTGGTGGTTCTGCCACGATTATCTATAT
1 CTGGTGGCTCTGCCAC-ATTATCTGT-T
* *
90495522 CTGGTGACTCTGTCACATTATCTGTT
1 CTGGTGGCTCTGCCACATTATCTGTT
90495548 CT
1 CT
90495550 AGCAGCCATG
Statistics
Matches: 71, Mismatches: 9, Indels: 8
0.81 0.10 0.09
Matches are distributed among these distances:
26 8 0.11
27 36 0.51
28 27 0.38
ACGTcount: A:0.17, C:0.24, G:0.21, T:0.38
Consensus pattern (26 bp):
CTGGTGGCTCTGCCACATTATCTGTT
Found at i:90499260 original size:16 final size:16
Alignment explanation
Indices: 90499239--90499273 Score: 61
Period size: 16 Copynumber: 2.2 Consensus size: 16
90499229 TTATACACTT
*
90499239 ATTTAGTCATGAAGTC
1 ATTTAGTCACGAAGTC
90499255 ATTTAGTCACGAAGTC
1 ATTTAGTCACGAAGTC
90499271 ATT
1 ATT
90499274 CCACAATAGT
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
16 18 1.00
ACGTcount: A:0.31, C:0.14, G:0.17, T:0.37
Consensus pattern (16 bp):
ATTTAGTCACGAAGTC
Found at i:90504143 original size:41 final size:40
Alignment explanation
Indices: 90504041--90504149 Score: 137
Period size: 40 Copynumber: 2.7 Consensus size: 40
90504031 AATACTCGAT
* * * *
90504041 ATCTCACACACCAAGTGTCGTACATAGCCGAAGCTATCTC
1 ATCTCACACACTAAGTGCCATATATAGCCGAAGCTATCTC
** *
90504081 AAATCACACACTAAGTGCCATATATAGCCGAAGCTATCTTG
1 ATCTCACACACTAAGTGCCATATATAGCCGAAGCTATC-TC
*
90504122 ATCTCGCACACTAAGTGCCATATATAGC
1 ATCTCACACACTAAGTGCCATATATAGC
90504150 TGATTTCTCA
Statistics
Matches: 58, Mismatches: 10, Indels: 1
0.84 0.14 0.01
Matches are distributed among these distances:
40 32 0.55
41 26 0.45
ACGTcount: A:0.33, C:0.28, G:0.15, T:0.24
Consensus pattern (40 bp):
ATCTCACACACTAAGTGCCATATATAGCCGAAGCTATCTC
Found at i:90505187 original size:13 final size:13
Alignment explanation
Indices: 90505169--90505193 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
90505159 GAAATAGTAT
90505169 GTATGAAAATTTC
1 GTATGAAAATTTC
90505182 GTATGAAAATTT
1 GTATGAAAATTT
90505194 AATCGTTTGT
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.40, C:0.04, G:0.16, T:0.40
Consensus pattern (13 bp):
GTATGAAAATTTC
Found at i:90506401 original size:42 final size:43
Alignment explanation
Indices: 90506341--90506444 Score: 106
Period size: 43 Copynumber: 2.4 Consensus size: 43
90506331 GAATTATGTA
* *
90506341 TAAGACCATGTCTGGGACA-TCAACATC-ATATTTGATTTCGTG
1 TAAGACCATGTCTGGGACAGT-AACATCGATATTTGATTACATG
* **
90506383 TAAGACC-TGGTCTTGGACAGTGGCATCGATATTTGATTACATG
1 TAAGACCAT-GTCTGGGACAGTAACATCGATATTTGATTACATG
* *
90506426 TAAGACCACGTCTAGGACA
1 TAAGACCATGTCTGGGACA
90506445 TTGGAATTGT
Statistics
Matches: 51, Mismatches: 7, Indels: 7
0.78 0.11 0.11
Matches are distributed among these distances:
41 1 0.02
42 20 0.39
43 30 0.59
ACGTcount: A:0.29, C:0.19, G:0.22, T:0.30
Consensus pattern (43 bp):
TAAGACCATGTCTGGGACAGTAACATCGATATTTGATTACATG
Found at i:90506444 original size:43 final size:42
Alignment explanation
Indices: 90506364--90506444 Score: 108
Period size: 43 Copynumber: 1.9 Consensus size: 42
90506354 GGGACATCAA
* * ** *
90506364 CATCATATTTGATTTCGTGTAAGACCTGGTCTTGGACAGTGG
1 CATCATATTTGATTACATGTAAGACCACGTCTAGGACAGTGG
90506406 CATCGATATTTGATTACATGTAAGACCACGTCTAGGACA
1 CATC-ATATTTGATTACATGTAAGACCACGTCTAGGACA
90506445 TTGGAATTGT
Statistics
Matches: 33, Mismatches: 5, Indels: 1
0.85 0.13 0.03
Matches are distributed among these distances:
42 4 0.12
43 29 0.88
ACGTcount: A:0.27, C:0.19, G:0.22, T:0.32
Consensus pattern (42 bp):
CATCATATTTGATTACATGTAAGACCACGTCTAGGACAGTGG
Found at i:90514158 original size:60 final size:61
Alignment explanation
Indices: 90514051--90514168 Score: 148
Period size: 60 Copynumber: 2.0 Consensus size: 61
90514041 TCCAGTAATG
* * * * *
90514051 TGGTCGAGCCACCAGTAATGCAGATAAACTACTAGTAGTGTATACAA-GCTGCCAATATTA
1 TGGTCAAGCCACCAGTAATACAGATAAACTACCAGTAATGTAGACAAGGCTGCCAATATTA
* * * *
90514111 TGGTCAAGTCACCAGTGATACAGATAAACTGCCAGTAATGTAGACAAGGTTGCCAATA
1 TGGTCAAGCCACCAGTAATACAGATAAACTACCAGTAATGTAGACAAGGCTGCCAATA
90514169 CTTCCTCCTT
Statistics
Matches: 48, Mismatches: 9, Indels: 1
0.83 0.16 0.02
Matches are distributed among these distances:
60 39 0.81
61 9 0.19
ACGTcount: A:0.36, C:0.19, G:0.21, T:0.24
Consensus pattern (61 bp):
TGGTCAAGCCACCAGTAATACAGATAAACTACCAGTAATGTAGACAAGGCTGCCAATATTA
Found at i:90516792 original size:519 final size:519
Alignment explanation
Indices: 90515813--90516853 Score: 2001
Period size: 519 Copynumber: 2.0 Consensus size: 519
90515803 CTAACTATTA
90515813 ATGGCACAGTAAAGTCGTGAATATTATACTGCTCAATAGGTTTCTATAATAGTCTACTTCTCTCG
1 ATGGCACAGTAAAGTCGTGAATATTATACTGCTCAATAGGTTTCTATAATAGTCTACTTCTCTCG
*
90515878 AGAGCAAGGCCTTGGGTTACCTCCCTTAGGGCACTATCTGTCTATAGGCTTTAAGTTTGGCTACC
66 AGAGCAAGGCCTTGGGTTACCTCCCTTAGGGCACTATATGTCTATAGGCTTTAAGTTTGGCTACC
90515943 ACTAATATTTCTACCTTCTTTCATATGAGGCAAGGCTCTATGTCTAGAGGTTACTATGAATAAGA
131 ACTAATATTTCTACCTTCTTTCATATGAGGCAAGGCTCTATGTCTAGAGGTTACTATGAATAAGA
90516008 GATTAATCATTCATGCATATCATCCAACTTCTATCTAGTTAACCTAACCCTATCAGAATTAAGTT
196 GATTAATCATTCATGCATATCATCCAACTTCTATCTAGTTAACCTAACCCTATCAGAATTAAGTT
*
90516073 ATCTTTATAAACTTGCTGCATATTGGTTAATGTGCAGCCTGCATATAACATGAAATACCATTGAA
261 ATCTTTATAAACTTGCTGCATATTGGTTAATGTGCAACCTGCATATAACATGAAATACCATTGAA
90516138 TAAAAATGTAGAACAAACCAAAATTAAACTTTAAACATTAATAGAAATAAAGGTTTCATCAAAAT
326 TAAAAATGTAGAACAAACCAAAATTAAACTTTAAACATTAATAGAAATAAAGGTTTCATCAAAAT
* *
90516203 TATCCAGAGTCTAAAAGATTTAGCTCTTGGTTGGGCAAATCAAGTTTTAGTTTAATACGATAACG
391 TATCCAGAGCCTAAAAGATTTAGCTCATGGTTGGGCAAATCAAGTTTTAGTTTAATACGATAACG
*
90516268 AACATCATCAATAACAAATAATCTTTAAAAGAAGCACGATAAGAAACAAAGGAGGAAGTCTGAG
456 AACATCATCAATAACAAATAATCTTTAAAAGAAGCACGATAAGAAACAAAGGAGGAAGTCTAAG
90516332 ATGGCACAGTAAAGTCGTGAATATTATACTGCTCAATAGGTTTCTATAATAGTCTACTTCTCTCG
1 ATGGCACAGTAAAGTCGTGAATATTATACTGCTCAATAGGTTTCTATAATAGTCTACTTCTCTCG
90516397 AGAGCAAGGCCTTGGGTTACCTCCCTTAGGGCACTATATGTCTATAGGCTTTAAGTTTGGCTACC
66 AGAGCAAGGCCTTGGGTTACCTCCCTTAGGGCACTATATGTCTATAGGCTTTAAGTTTGGCTACC
* *
90516462 ATTAATATTTCTACCTTCTTTCATATGAGGCAAGGCTCTATGTCTAGAGGTTGCTATGAATAAGA
131 ACTAATATTTCTACCTTCTTTCATATGAGGCAAGGCTCTATGTCTAGAGGTTACTATGAATAAGA
90516527 GATTAATCATTCATGCATATCATCCAACTTCTATCTAGTTAACCTAACCCTATCAGAATTAAGTT
196 GATTAATCATTCATGCATATCATCCAACTTCTATCTAGTTAACCTAACCCTATCAGAATTAAGTT
90516592 ATCTTTATAAACTTGCTGCATATTGGTTAATGTGCAACCTGCATATAACATGAAATACCATTGAA
261 ATCTTTATAAACTTGCTGCATATTGGTTAATGTGCAACCTGCATATAACATGAAATACCATTGAA
*
90516657 TAAAAATGTAGAACAAACCAAAATTAAACTTTAAACATTAATAGAAATAAAGGTTTCATCAAAGT
326 TAAAAATGTAGAACAAACCAAAATTAAACTTTAAACATTAATAGAAATAAAGGTTTCATCAAAAT
*
90516722 TATCCAGAGCCTAAAAGATTTAGCTCATGGTTGGGCAAATCAAGTTTTAGTTTAATACGATAATG
391 TATCCAGAGCCTAAAAGATTTAGCTCATGGTTGGGCAAATCAAGTTTTAGTTTAATACGATAACG
90516787 AACATCATCAATAACAAATAATCTTTAAAAGAAGCACGATAAGAAACAAAGGAGGAAGTCTAAG
456 AACATCATCAATAACAAATAATCTTTAAAAGAAGCACGATAAGAAACAAAGGAGGAAGTCTAAG
90516851 ATG
1 ATG
90516854 ACAGCTTTCA
Statistics
Matches: 513, Mismatches: 9, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
519 513 1.00
ACGTcount: A:0.36, C:0.17, G:0.16, T:0.31
Consensus pattern (519 bp):
ATGGCACAGTAAAGTCGTGAATATTATACTGCTCAATAGGTTTCTATAATAGTCTACTTCTCTCG
AGAGCAAGGCCTTGGGTTACCTCCCTTAGGGCACTATATGTCTATAGGCTTTAAGTTTGGCTACC
ACTAATATTTCTACCTTCTTTCATATGAGGCAAGGCTCTATGTCTAGAGGTTACTATGAATAAGA
GATTAATCATTCATGCATATCATCCAACTTCTATCTAGTTAACCTAACCCTATCAGAATTAAGTT
ATCTTTATAAACTTGCTGCATATTGGTTAATGTGCAACCTGCATATAACATGAAATACCATTGAA
TAAAAATGTAGAACAAACCAAAATTAAACTTTAAACATTAATAGAAATAAAGGTTTCATCAAAAT
TATCCAGAGCCTAAAAGATTTAGCTCATGGTTGGGCAAATCAAGTTTTAGTTTAATACGATAACG
AACATCATCAATAACAAATAATCTTTAAAAGAAGCACGATAAGAAACAAAGGAGGAAGTCTAAG
Found at i:90522994 original size:46 final size:46
Alignment explanation
Indices: 90522944--90523119 Score: 205
Period size: 46 Copynumber: 3.8 Consensus size: 46
90522934 TGGTTGAGCA
*
90522944 TCCGAACTCGTTGAGTTGAGTCTGAGTTCACTTATGGATGCAAATG
1 TCCGAACTCGTTGAGTTGAGTCTGAGTTCACTTATGGATGCAAACG
* * * * *
90522990 TCCGAACTCGTTGAGTTGAGTCCGAGTTC-GTGA--GATGTAACTAGGCA
1 TCCGAACTCGTTGAGTTGAGTCTGAGTTCACTTATGGATGCAA--A--CG
*
90523037 TCCGAACTCGTTGAGTTGAGTCTGAGTTCACTTATGGATGCGAACG
1 TCCGAACTCGTTGAGTTGAGTCTGAGTTCACTTATGGATGCAAACG
* * *
90523083 CCCGAGCTCGTTGAGTTGAGTCTGAGTTCGCTTATGG
1 TCCGAACTCGTTGAGTTGAGTCTGAGTTCACTTATGG
90523120 GCGGGTTACA
Statistics
Matches: 108, Mismatches: 15, Indels: 14
0.79 0.11 0.10
Matches are distributed among these distances:
43 6 0.06
45 3 0.03
46 63 0.58
47 28 0.26
48 3 0.03
50 5 0.05
ACGTcount: A:0.21, C:0.19, G:0.29, T:0.31
Consensus pattern (46 bp):
TCCGAACTCGTTGAGTTGAGTCTGAGTTCACTTATGGATGCAAACG
Found at i:90523100 original size:93 final size:93
Alignment explanation
Indices: 90522941--90523112 Score: 299
Period size: 93 Copynumber: 1.8 Consensus size: 93
90522931 GGATGGTTGA
* *
90522941 GCATCCGAACTCGTTGAGTTGAGTCTGAGTTCACTTATGGATGCAAATGTCCGAACTCGTTGAGT
1 GCATCCGAACTCGTTGAGTTGAGTCTGAGTTCACTTATGGATGCAAACGCCCGAACTCGTTGAGT
90523006 TGAGTCCGAGTTCGTGAGATGTAACTAG
66 TGAGTCCGAGTTCGTGAGATGTAACTAG
* *
90523034 GCATCCGAACTCGTTGAGTTGAGTCTGAGTTCACTTATGGATGCGAACGCCCGAGCTCGTTGAGT
1 GCATCCGAACTCGTTGAGTTGAGTCTGAGTTCACTTATGGATGCAAACGCCCGAACTCGTTGAGT
*
90523099 TGAGTCTGAGTTCG
66 TGAGTCCGAGTTCG
90523113 CTTATGGGCG
Statistics
Matches: 74, Mismatches: 5, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
93 74 1.00
ACGTcount: A:0.22, C:0.20, G:0.29, T:0.30
Consensus pattern (93 bp):
GCATCCGAACTCGTTGAGTTGAGTCTGAGTTCACTTATGGATGCAAACGCCCGAACTCGTTGAGT
TGAGTCCGAGTTCGTGAGATGTAACTAG
Found at i:90530095 original size:30 final size:30
Alignment explanation
Indices: 90530039--90530095 Score: 78
Period size: 30 Copynumber: 1.9 Consensus size: 30
90530029 ATCCCGAGCC
*
90530039 TAGGGGCAAAAATGTAAATATGCAAAAGTT
1 TAGGGGCAAAAATGTAAATATCCAAAAGTT
* * *
90530069 TAGGGGCAAAATTGTAATTTTCCAAAA
1 TAGGGGCAAAAATGTAAATATCCAAAA
90530096 TTTGAGTTAA
Statistics
Matches: 23, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
30 23 1.00
ACGTcount: A:0.44, C:0.09, G:0.21, T:0.26
Consensus pattern (30 bp):
TAGGGGCAAAAATGTAAATATCCAAAAGTT
Found at i:90530566 original size:46 final size:46
Alignment explanation
Indices: 90530516--90530691 Score: 198
Period size: 46 Copynumber: 3.8 Consensus size: 46
90530506 TGGTTGAGCA
* *
90530516 TCCGAACTCGTTGAGTTGAGTCTGAGTTCACTTATGGATGCAAATG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAACG
* * *
90530562 TCCGAACTCGTTGAGTTGAGTCCGAG-T---TTGTGAGATGTAACTAGGCA
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATG-GATGCAA--A--CG
*
90530609 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAACG
* * *
90530655 CCCGAGCTCGTTGAGTTGAGTCCGAGTTCGCTTATGG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGG
90530692 GCGGGTTACA
Statistics
Matches: 109, Mismatches: 12, Indels: 18
0.78 0.09 0.13
Matches are distributed among these distances:
42 4 0.04
43 6 0.06
45 2 0.02
46 60 0.55
47 26 0.24
48 2 0.02
50 5 0.05
51 4 0.04
ACGTcount: A:0.21, C:0.20, G:0.29, T:0.30
Consensus pattern (46 bp):
TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAACG
Found at i:90530672 original size:93 final size:93
Alignment explanation
Indices: 90530513--90530682 Score: 295
Period size: 93 Copynumber: 1.8 Consensus size: 93
90530503 GGATGGTTGA
* * *
90530513 GCATCCGAACTCGTTGAGTTGAGTCTGAGTTCACTTATGGATGCAAATGTCCGAACTCGTTGAGT
1 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAACGCCCGAACTCGTTGAGT
90530578 TGAGTCCGAGTTTGTGAGATGTAACTAG
66 TGAGTCCGAGTTTGTGAGATGTAACTAG
* *
90530606 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAGCTCGTTGAGT
1 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAACGCCCGAACTCGTTGAGT
90530671 TGAGTCCGAGTT
66 TGAGTCCGAGTT
90530683 CGCTTATGGG
Statistics
Matches: 72, Mismatches: 5, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
93 72 1.00
ACGTcount: A:0.22, C:0.20, G:0.29, T:0.29
Consensus pattern (93 bp):
GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAACGCCCGAACTCGTTGAGT
TGAGTCCGAGTTTGTGAGATGTAACTAG
Found at i:90559103 original size:31 final size:32
Alignment explanation
Indices: 90559042--90559113 Score: 83
Period size: 31 Copynumber: 2.2 Consensus size: 32
90559032 GAAAAAAAAA
*
90559042 TCAAATTTTGAGTTAAACAAATCGAGTTGAGTCT
1 TCAAATTTTGAGTT--ACAAATCGAATTGAGTCT
* *
90559076 TCAAATTTTGAGTT-CGAATCGAATTGAGTTT
1 TCAAATTTTGAGTTACAAATCGAATTGAGTCT
*
90559107 TTAAATT
1 TCAAATT
90559114 CGAATAACTA
Statistics
Matches: 34, Mismatches: 4, Indels: 3
0.83 0.10 0.07
Matches are distributed among these distances:
31 20 0.59
34 14 0.41
ACGTcount: A:0.33, C:0.10, G:0.17, T:0.40
Consensus pattern (32 bp):
TCAAATTTTGAGTTACAAATCGAATTGAGTCT
Found at i:90562889 original size:26 final size:26
Alignment explanation
Indices: 90562860--90562910 Score: 75
Period size: 26 Copynumber: 2.0 Consensus size: 26
90562850 CGCATTTTGA
90562860 TGCGATAATATGATTGAGCACTTCGG
1 TGCGATAATATGATTGAGCACTTCGG
* * *
90562886 TGCGATATTGTGATTGAGCAGTTCG
1 TGCGATAATATGATTGAGCACTTCG
90562911 ATCTGATACT
Statistics
Matches: 22, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
26 22 1.00
ACGTcount: A:0.24, C:0.14, G:0.29, T:0.33
Consensus pattern (26 bp):
TGCGATAATATGATTGAGCACTTCGG
Found at i:90563349 original size:22 final size:20
Alignment explanation
Indices: 90563303--90563350 Score: 51
Period size: 22 Copynumber: 2.3 Consensus size: 20
90563293 TGAGAAGTAT
* *
90563303 TAAAATATACTTAATTGGTG
1 TAAAATATAATTAATTAGTG
*
90563323 AAAAATATATATTATATTAGTG
1 TAAAATATA-ATTA-ATTAGTG
90563345 TAAAAT
1 TAAAAT
90563351 TGATAAAAAG
Statistics
Matches: 22, Mismatches: 4, Indels: 2
0.79 0.14 0.07
Matches are distributed among these distances:
20 8 0.36
21 3 0.14
22 11 0.50
ACGTcount: A:0.48, C:0.02, G:0.10, T:0.40
Consensus pattern (20 bp):
TAAAATATAATTAATTAGTG
Found at i:90568088 original size:48 final size:49
Alignment explanation
Indices: 90567940--90568127 Score: 165
Period size: 48 Copynumber: 3.9 Consensus size: 49
90567930 AGGTTTTGGT
* * * * *
90567940 GATGATATGTGT-ACCAGTGTAAGACCATGTTTGGGACATGGGATCGGC
1 GATGATATGTGTGACCAATGTAAGACCATGTCTAGGACATGGCATCGAC
* * * ** * * * *
90567988 AATGATATATGTGCCCGGTATAAGACCATGTCT-GGGCATGGCAT-TAGT
1 GATGATATGTGTGACCAATGTAAGACCATGTCTAGGACATGGCATCGA-C
90568036 GATGATATGTGTG-CCAATGTAAGACCATGTCTAGGACATGGCATCGAC
1 GATGATATGTGTGACCAATGTAAGACCATGTCTAGGACATGGCATCGAC
*
90568084 GATGATATGTG-GATTC-ATGTAAGACCATGT-TGAGGACATGGCAT
1 GATGATATGTGTGA-CCAATGTAAGACCATGTCT-AGGACATGGCAT
90568128 TGGTACTTTA
Statistics
Matches: 113, Mismatches: 20, Indels: 14
0.77 0.14 0.10
Matches are distributed among these distances:
47 18 0.16
48 77 0.68
49 18 0.16
ACGTcount: A:0.28, C:0.15, G:0.29, T:0.28
Consensus pattern (49 bp):
GATGATATGTGTGACCAATGTAAGACCATGTCTAGGACATGGCATCGAC
Found at i:90573403 original size:103 final size:104
Alignment explanation
Indices: 90573224--90573488 Score: 424
Period size: 103 Copynumber: 2.6 Consensus size: 104
90573214 AACCGTTATT
* * * *
90573224 GGTGGATCTCGCACTTAGCACCACCACTTAATCGGGGAATCAGCACTTAGCAACCCCTTGGGGGA
1 GGTGGATATCGCACTTAGCACCACCAATGAATCGGGGAATCAGCACTTAGCAACCCCTCGGGGGA
** *
90573289 ATCAGCACATAGCAACCCCCTTT-TTATTTCAGAGATAC
66 ATCAGCACATAGCAACCCCCTTTCACATTTCAAAGATAC
*
90573327 GGTGGATATCGCACTTAGCACCACCAATGAACCGGGGAATCAGCACTTAGCAACCCCTCGGGGGA
1 GGTGGATATCGCACTTAGCACCACCAATGAATCGGGGAATCAGCACTTAGCAACCCCTCGGGGGA
90573392 ATCAGCACATAGCAACCCCCTTTCACATTTCAAAGATAC
66 ATCAGCACATAGCAACCCCCTTTCACATTTCAAAGATAC
* **
90573431 GGTGGATATCGCACATAGCACCACCAATGAATCGGGGAATCAGCACACAGCAACCCCT
1 GGTGGATATCGCACTTAGCACCACCAATGAATCGGGGAATCAGCACTTAGCAACCCCT
90573489 TTATGTACAA
Statistics
Matches: 149, Mismatches: 12, Indels: 1
0.92 0.07 0.01
Matches are distributed among these distances:
103 83 0.56
104 66 0.44
ACGTcount: A:0.30, C:0.30, G:0.21, T:0.19
Consensus pattern (104 bp):
GGTGGATATCGCACTTAGCACCACCAATGAATCGGGGAATCAGCACTTAGCAACCCCTCGGGGGA
ATCAGCACATAGCAACCCCCTTTCACATTTCAAAGATAC
Found at i:90575093 original size:42 final size:42
Alignment explanation
Indices: 90575029--90575141 Score: 120
Period size: 42 Copynumber: 2.6 Consensus size: 42
90575019 CCTCGATTGA
* **
90575029 GATTTACGTATAAGACCATGTCTGGGACATCGGCATCG-TATCT
1 GATTT-CGTGTAAGACCATGTCTGGGACAGAGGCATCGATAT-T
*
90575072 GATTTCGTGTAAGACCCTGTCTGGGACAGAGGCATCGATATT
1 GATTTCGTGTAAGACCATGTCTGGGACAGAGGCATCGATATT
* * * *
90575114 GAATTACATGTAAGACCACGTCCGGGAC
1 G-ATTTCGTGTAAGACCATGTCTGGGAC
90575142 GTCAGCGTTG
Statistics
Matches: 59, Mismatches: 9, Indels: 4
0.82 0.12 0.06
Matches are distributed among these distances:
42 30 0.51
43 29 0.49
ACGTcount: A:0.27, C:0.21, G:0.26, T:0.27
Consensus pattern (42 bp):
GATTTCGTGTAAGACCATGTCTGGGACAGAGGCATCGATATT
Found at i:90582348 original size:42 final size:42
Alignment explanation
Indices: 90582269--90582371 Score: 109
Period size: 42 Copynumber: 2.4 Consensus size: 42
90582259 CCTCGATTGA
* ** *
90582269 GATTTACGTATAAGACCATGTCTGGGACATCGGCATCG-TATCT
1 GATTT-CGTGTAAGACCATGTCTGGGACAGAGCCATCGATAT-T
*
90582312 GATTTCGTGTAAGACCCTGTCTGGGACAGAGCCATCGATATT
1 GATTTCGTGTAAGACCATGTCTGGGACAGAGCCATCGATATT
* *
90582354 GAATTACATGTAAGACCA
1 G-ATTTCGTGTAAGACCA
90582372 CGTTCGAGAT
Statistics
Matches: 50, Mismatches: 8, Indels: 4
0.81 0.13 0.06
Matches are distributed among these distances:
42 29 0.58
43 21 0.42
ACGTcount: A:0.28, C:0.20, G:0.23, T:0.28
Consensus pattern (42 bp):
GATTTCGTGTAAGACCATGTCTGGGACAGAGCCATCGATATT
Found at i:90584078 original size:16 final size:16
Alignment explanation
Indices: 90584037--90584078 Score: 50
Period size: 16 Copynumber: 2.7 Consensus size: 16
90584027 ATTTTGACAA
90584037 TTTATCTTGG-ATTTC
1 TTTATCTTGGAATTTC
** *
90584052 TAAATCATGGAATTTC
1 TTTATCTTGGAATTTC
90584068 TTTATCTTGGA
1 TTTATCTTGGA
90584079 TATCTTTGTC
Statistics
Matches: 20, Mismatches: 6, Indels: 1
0.74 0.22 0.04
Matches are distributed among these distances:
15 7 0.35
16 13 0.65
ACGTcount: A:0.24, C:0.12, G:0.14, T:0.50
Consensus pattern (16 bp):
TTTATCTTGGAATTTC
Found at i:90585925 original size:14 final size:15
Alignment explanation
Indices: 90585906--90585937 Score: 57
Period size: 15 Copynumber: 2.2 Consensus size: 15
90585896 TGATAGATAT
90585906 TTATAATA-ATTAAA
1 TTATAATATATTAAA
90585920 TTATAATATATTAAA
1 TTATAATATATTAAA
90585935 TTA
1 TTA
90585938 ATAAAGTAAA
Statistics
Matches: 17, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
14 8 0.47
15 9 0.53
ACGTcount: A:0.53, C:0.00, G:0.00, T:0.47
Consensus pattern (15 bp):
TTATAATATATTAAA
Found at i:90585939 original size:24 final size:25
Alignment explanation
Indices: 90585877--90585939 Score: 60
Period size: 24 Copynumber: 2.6 Consensus size: 25
90585867 TATACATTTG
* *
90585877 TATTATATTATTAATTATATGATAGA
1 TATT-TATAATTAATTAAATGATAGA
*
90585903 TATTTATAA-TAATTAAATTATA-A
1 TATTTATAATTAATTAAATGATAGA
90585926 TATATTA-AATTAAT
1 TAT-TTATAATTAAT
90585940 AAAGTAAATA
Statistics
Matches: 32, Mismatches: 3, Indels: 6
0.78 0.07 0.15
Matches are distributed among these distances:
23 6 0.19
24 18 0.56
25 4 0.12
26 4 0.12
ACGTcount: A:0.48, C:0.00, G:0.03, T:0.49
Consensus pattern (25 bp):
TATTTATAATTAATTAAATGATAGA
Found at i:90586465 original size:17 final size:18
Alignment explanation
Indices: 90586443--90586478 Score: 56
Period size: 18 Copynumber: 2.1 Consensus size: 18
90586433 TAAATGAGTT
90586443 AATTAGGAT-TAAATTGG
1 AATTAGGATATAAATTGG
*
90586460 AATTAGGGTATAAATTGG
1 AATTAGGATATAAATTGG
90586478 A
1 A
90586479 TAGAAATTCA
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
17 8 0.47
18 9 0.53
ACGTcount: A:0.42, C:0.00, G:0.25, T:0.33
Consensus pattern (18 bp):
AATTAGGATATAAATTGG
Found at i:90590067 original size:48 final size:48
Alignment explanation
Indices: 90589968--90590118 Score: 178
Period size: 48 Copynumber: 3.1 Consensus size: 48
90589958 TGTTTTGGCA
* * * *
90589968 ATGATATGTGTACCAGTGTAAGACCATGTTTGGGACATGGCATCGGTG
1 ATGATATATGTCCCAGTGTAAGACCATGTCTGGGACATGGCATCAGTG
* * *
90590016 ATGATATATGTTCCCGGTGTAAGACCATGTCTGGG-CATTGCATTAGTG
1 ATGATATATG-TCCCAGTGTAAGACCATGTCTGGGACATGGCATCAGTG
* * * * *
90590064 ATGATATGTGTGCCAGTGTAAGACCATGTCTAGGACATGGCATCGGCG
1 ATGATATATGTCCCAGTGTAAGACCATGTCTGGGACATGGCATCAGTG
90590112 ATGATAT
1 ATGATAT
90590119 GTGGATTCAT
Statistics
Matches: 86, Mismatches: 15, Indels: 4
0.82 0.14 0.04
Matches are distributed among these distances:
47 21 0.24
48 44 0.51
49 21 0.24
ACGTcount: A:0.25, C:0.16, G:0.29, T:0.30
Consensus pattern (48 bp):
ATGATATATGTCCCAGTGTAAGACCATGTCTGGGACATGGCATCAGTG
Found at i:90590132 original size:48 final size:46
Alignment explanation
Indices: 90589968--90590154 Score: 169
Period size: 48 Copynumber: 3.9 Consensus size: 46
90589958 TGTTTTGGCA
* * *
90589968 ATGATATGTGTACCAGTGTAAGACCATGTTTGGGACATGGCATCGGTG
1 ATGATATGTGT-TCA-TGTAAGACCATGTCTAGGACATGGCATCGGTG
* * * * **
90590016 ATGATATATGTTCCCGGTGTAAGACCATGTCT-GGGCATTGCATTAGTG
1 ATGATATGTGTT--C-ATGTAAGACCATGTCTAGGACATGGCATCGGTG
* *
90590064 ATGATATGTGTGCCAGTGTAAGACCATGTCTAGGACATGGCATCGGCG
1 ATGATATGTGT-TCA-TGTAAGACCATGTCTAGGACATGGCATCGGTG
* *
90590112 ATGATATGTGGATTCATGTAAGACCATGTCGAGGATATGGCAT
1 ATGATATGT-G-TTCATGTAAGACCATGTCTAGGACATGGCAT
90590155 TGGTACTTTA
Statistics
Matches: 112, Mismatches: 19, Indels: 16
0.76 0.13 0.11
Matches are distributed among these distances:
47 16 0.14
48 77 0.69
49 18 0.16
50 1 0.01
ACGTcount: A:0.26, C:0.16, G:0.29, T:0.29
Consensus pattern (46 bp):
ATGATATGTGTTCATGTAAGACCATGTCTAGGACATGGCATCGGTG
Found at i:90590155 original size:96 final size:95
Alignment explanation
Indices: 90589968--90590141 Score: 253
Period size: 96 Copynumber: 1.8 Consensus size: 95
90589958 TGTTTTGGCA
* * * *
90589968 ATGATATGTGTACCAGTGTAAGACCATGTTTGGGACATGGCATCGGTGATGATATATGTTCCCGG
1 ATGATATGTGTACCAGTGTAAGACCATGTCTAGGACATGGCATCGGCGATGATATATGTT-CCGA
90590033 TGTAAGACCATGTCTGGGCATTGCATTAGTG
65 TGTAAGACCATGTCTGGGCATTGCATTAGTG
* *
90590064 ATGATATGTGTGCCAGTGTAAGACCATGTCTAGGACATGGCATCGGCGATGATATGTGGATT-C-
1 ATGATATGTGTACCAGTGTAAGACCATGTCTAGGACATGGCATCGGCGATGATATAT-G-TTCCG
90590127 ATGTAAGACCATGTC
64 ATGTAAGACCATGTC
90590142 GAGGATATGG
Statistics
Matches: 70, Mismatches: 6, Indels: 5
0.86 0.07 0.06
Matches are distributed among these distances:
95 14 0.20
96 53 0.76
97 1 0.01
98 2 0.03
ACGTcount: A:0.25, C:0.16, G:0.29, T:0.30
Consensus pattern (95 bp):
ATGATATGTGTACCAGTGTAAGACCATGTCTAGGACATGGCATCGGCGATGATATATGTTCCGAT
GTAAGACCATGTCTGGGCATTGCATTAGTG
Found at i:90595026 original size:40 final size:40
Alignment explanation
Indices: 90594970--90595241 Score: 436
Period size: 40 Copynumber: 6.8 Consensus size: 40
90594960 AACATTGGAT
90594970 TATATCCGGGCTAAGACCCGAAGGCAATTATGCGAGTTGA
1 TATATCCGGGCTAAGACCCGAAGGCAATTATGCGAGTTGA
*
90595010 CATATCCGGGCTAAGACCCGAAGGCAATTATGCGAGTTGA
1 TATATCCGGGCTAAGACCCGAAGGCAATTATGCGAGTTGA
* *
90595050 TATATCCGGGTTATGACCCGAAGGCAATTATGCGAGTTGA
1 TATATCCGGGCTAAGACCCGAAGGCAATTATGCGAGTTGA
* *
90595090 CATATCCGGGCTAAGACCTGAAGGCAATTATGCGAGTTGA
1 TATATCCGGGCTAAGACCCGAAGGCAATTATGCGAGTTGA
* * *
90595130 TATATCCGGGCTATGACCCGAAGGCAATTATGCGGGATGA
1 TATATCCGGGCTAAGACCCGAAGGCAATTATGCGAGTTGA
*
90595170 TATATCCGGGCTAAGACCCGAAGGCAATTATGCGAGTTCA
1 TATATCCGGGCTAAGACCCGAAGGCAATTATGCGAGTTGA
* * *
90595210 TATGTCCGGGTTAAGACCCGAAGGCAAATATG
1 TATATCCGGGCTAAGACCCGAAGGCAATTATG
90595242 TTTGCGGCTG
Statistics
Matches: 212, Mismatches: 20, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
40 212 1.00
ACGTcount: A:0.29, C:0.20, G:0.28, T:0.23
Consensus pattern (40 bp):
TATATCCGGGCTAAGACCCGAAGGCAATTATGCGAGTTGA
Found at i:90603248 original size:40 final size:40
Alignment explanation
Indices: 90603192--90603463 Score: 436
Period size: 40 Copynumber: 6.8 Consensus size: 40
90603182 AACATTGGAT
90603192 TATATCCGGGCTAAGACCCGAAGGCAATTATGCGAGTTGA
1 TATATCCGGGCTAAGACCCGAAGGCAATTATGCGAGTTGA
*
90603232 CATATCCGGGCTAAGACCCGAAGGCAATTATGCGAGTTGA
1 TATATCCGGGCTAAGACCCGAAGGCAATTATGCGAGTTGA
* * *
90603272 TATATACGGGTTATGACCCGAAGGCAATTATGCGAGTTGA
1 TATATCCGGGCTAAGACCCGAAGGCAATTATGCGAGTTGA
*
90603312 CATATCCGGGCTAAGACCCGAAGGCAATTATGCGAGTTGA
1 TATATCCGGGCTAAGACCCGAAGGCAATTATGCGAGTTGA
* * *
90603352 TATATCCGGGCTATGACCCGAAGGCAATTATGCGGGATGA
1 TATATCCGGGCTAAGACCCGAAGGCAATTATGCGAGTTGA
*
90603392 TATATCCGGGCTAAGACCCGAAGGCAATTATGCGAGTTCA
1 TATATCCGGGCTAAGACCCGAAGGCAATTATGCGAGTTGA
* * *
90603432 TATGTCCGGGTTAAGACCCGAAGGCAAATATG
1 TATATCCGGGCTAAGACCCGAAGGCAATTATG
90603464 TTTGCGGCTG
Statistics
Matches: 212, Mismatches: 20, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
40 212 1.00
ACGTcount: A:0.30, C:0.20, G:0.28, T:0.22
Consensus pattern (40 bp):
TATATCCGGGCTAAGACCCGAAGGCAATTATGCGAGTTGA
Found at i:90609890 original size:25 final size:25
Alignment explanation
Indices: 90609860--90609915 Score: 103
Period size: 25 Copynumber: 2.2 Consensus size: 25
90609850 GTAAATCCTA
90609860 ACTTAGTGAATTTAGATACTTTAAC
1 ACTTAGTGAATTTAGATACTTTAAC
90609885 ACTTAGTGAATTTAGATACTTTAAC
1 ACTTAGTGAATTTAGATACTTTAAC
90609910 ATCTTA
1 A-CTTA
90609916 TTTGGATGCA
Statistics
Matches: 30, Mismatches: 0, Indels: 1
0.97 0.00 0.03
Matches are distributed among these distances:
25 26 0.87
26 4 0.13
ACGTcount: A:0.36, C:0.12, G:0.11, T:0.41
Consensus pattern (25 bp):
ACTTAGTGAATTTAGATACTTTAAC
Found at i:90629465 original size:15 final size:15
Alignment explanation
Indices: 90629445--90629475 Score: 53
Period size: 15 Copynumber: 2.1 Consensus size: 15
90629435 CCATATGTCA
90629445 ACCACATCCAAACAT
1 ACCACATCCAAACAT
*
90629460 ACCACATTCAAACAT
1 ACCACATCCAAACAT
90629475 A
1 A
90629476 TCAAAAGAAC
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
15 15 1.00
ACGTcount: A:0.48, C:0.35, G:0.00, T:0.16
Consensus pattern (15 bp):
ACCACATCCAAACAT
Found at i:90632826 original size:24 final size:24
Alignment explanation
Indices: 90632794--90632862 Score: 111
Period size: 24 Copynumber: 2.9 Consensus size: 24
90632784 GTCAGGAGAG
90632794 GATTTAGGAGTTGATAAGGGATAA
1 GATTTAGGAGTTGATAAGGGATAA
*
90632818 GATTTAGGAGTTGATAAGGGATAG
1 GATTTAGGAGTTGATAAGGGATAA
**
90632842 GATTTAGGAGCAGATAAGGGA
1 GATTTAGGAGTTGATAAGGGA
90632863 GGAAATCTAG
Statistics
Matches: 42, Mismatches: 3, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
24 42 1.00
ACGTcount: A:0.36, C:0.01, G:0.36, T:0.26
Consensus pattern (24 bp):
GATTTAGGAGTTGATAAGGGATAA
Found at i:90632874 original size:48 final size:49
Alignment explanation
Indices: 90632792--90632885 Score: 120
Period size: 48 Copynumber: 1.9 Consensus size: 49
90632782 CTGTCAGGAG
** * * *
90632792 AGGATTTAGGAGTTGATAAGGGATAAGATTTAGGAGTTGAT-AAGGGAT
1 AGGATTTAGGAGCAGATAAGGGAGAAGATCTAGGAGCTGATCAAGGGAT
90632840 AGGATTTAGGAGCAGATAAGGGAGGAA-ATCTAGGAGCTGATCAAGG
1 AGGATTTAGGAGCAGATAAGGGA-GAAGATCTAGGAGCTGATCAAGG
90632886 AACAAGAGGT
Statistics
Matches: 39, Mismatches: 5, Indels: 3
0.83 0.11 0.06
Matches are distributed among these distances:
48 33 0.85
49 6 0.15
ACGTcount: A:0.36, C:0.04, G:0.36, T:0.23
Consensus pattern (49 bp):
AGGATTTAGGAGCAGATAAGGGAGAAGATCTAGGAGCTGATCAAGGGAT
Found at i:90635569 original size:28 final size:26
Alignment explanation
Indices: 90635528--90635640 Score: 120
Period size: 27 Copynumber: 4.2 Consensus size: 26
90635518 AGGAAGCGTC
*
90635528 CTGGTGGCTATGCCACAAATTATCTGAT
1 CTGGTGGCTCTGCCAC--ATTATCTGAT
90635556 CTGGTGGCTCTGCCACATATATCTG-T
1 CTGGTGGCTCTGCCACAT-TATCTGAT
*
90635582 CCTGGTGGTTCTGCCACGATTATCTGTAT
1 -CTGGTGGCTCTGCCAC-ATTATCTG-AT
* * *
90635611 CTGGTGACTCTGTCACATTATCTGTT
1 CTGGTGGCTCTGCCACATTATCTGAT
90635637 CTGG
1 CTGG
90635641 CAGCCATGCT
Statistics
Matches: 74, Mismatches: 6, Indels: 12
0.80 0.07 0.13
Matches are distributed among these distances:
26 8 0.11
27 35 0.47
28 30 0.41
29 1 0.01
ACGTcount: A:0.17, C:0.24, G:0.23, T:0.36
Consensus pattern (26 bp):
CTGGTGGCTCTGCCACATTATCTGAT
Found at i:90635613 original size:55 final size:54
Alignment explanation
Indices: 90635525--90635640 Score: 153
Period size: 55 Copynumber: 2.1 Consensus size: 54
90635515 TGGAGGAAGC
*
90635525 GTCCTGGTGGCTATGCCACAAATTATCTGATCTGGTGGCTCTGCCACATATATCT
1 GTCCTGGTGGCTATGCCACAAATTATCTGATCTGGTGACTCTGCCACAT-TATCT
* * * *
90635580 GTCCTGGTGGTTCTGCCAC-GATTATCTGTATCTGGTGACTCTGTCACATTATCT
1 GTCCTGGTGGCTATGCCACAAATTATCTG-ATCTGGTGACTCTGCCACATTATCT
*
90635634 GTTCTGG
1 GTCCTGG
90635641 CAGCCATGCT
Statistics
Matches: 54, Mismatches: 6, Indels: 3
0.86 0.10 0.05
Matches are distributed among these distances:
54 19 0.35
55 35 0.65
ACGTcount: A:0.16, C:0.24, G:0.23, T:0.36
Consensus pattern (54 bp):
GTCCTGGTGGCTATGCCACAAATTATCTGATCTGGTGACTCTGCCACATTATCT
Done.