Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Chr11 124536837
Parameters: 2 7 7 80 10 50 1000
Pmatch=0.80,Pindel=0.10
tuple sizes 0,4,5,7
tuple distances 0, 29, 159, 1000
Length: 124536837
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
Warning! 312 characters in sequence are not A, C, G, or T
File 166 of 427
Found at i:46246980 original size:6 final size:6
Alignment explanation
Indices: 46246943--46247079 Score: 66
Period size: 6 Copynumber: 22.3 Consensus size: 6
46246933 TTGCATTCAC
* * * * *
46246943 ATTCTA ATTTTG ATTCTG -TTACCTG ATACTG ATTCTG ATTCTA ATTCTA
1 ATTCTG ATTCTG ATTCTG ATT--CTG ATTCTG ATTCTG ATTCTG ATTCTG
* * * * *
46246992 ATTCTG -TCACCTA ATTCTA ATTCTG GTTCTG ATTCTG ATTCTG -TCACCTG
1 ATTCTG AT--TCTG ATTCTG ATTCTG ATTCTG ATTCTG ATTCTG AT--TCTG
* * *
46247042 ATTCTA ATTCTG ATTCTC ATTTTG ATTCT- AGTTCTG AT
1 ATTCTG ATTCTG ATTCTG ATTCTG ATTCTG A-TTCTG AT
46247080 AATGTTTCTT
Statistics
Matches: 99, Mismatches: 21, Indels: 22
0.70 0.15 0.15
Matches are distributed among these distances:
5 5 0.05
6 82 0.83
7 9 0.09
8 3 0.03
ACGTcount: A:0.21, C:0.19, G:0.12, T:0.48
Consensus pattern (6 bp):
ATTCTG
Found at i:46246996 original size:37 final size:37
Alignment explanation
Indices: 46246943--46247070 Score: 166
Period size: 37 Copynumber: 3.5 Consensus size: 37
46246933 TTGCATTCAC
* * * *
46246943 ATTCTAATTTTGATTCTGTTACCTGATACTGATTCTG
1 ATTCTAATTCTGATTCTGTCACCTGATTCTAATTCTG
* *
46246980 ATTCTAATTCTAATTCTGTCACCTAATTCTAATTCTG
1 ATTCTAATTCTGATTCTGTCACCTGATTCTAATTCTG
* *
46247017 GTTCTGATTCTGATTCTGTCACCTGATTCTAATTCTG
1 ATTCTAATTCTGATTCTGTCACCTGATTCTAATTCTG
* *
46247054 ATTCTCATTTTGATTCT
1 ATTCTAATTCTGATTCT
46247071 AGTTCTGATA
Statistics
Matches: 78, Mismatches: 13, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
37 78 1.00
ACGTcount: A:0.21, C:0.20, G:0.11, T:0.48
Consensus pattern (37 bp):
ATTCTAATTCTGATTCTGTCACCTGATTCTAATTCTG
Found at i:46248100 original size:30 final size:30
Alignment explanation
Indices: 46248064--46248125 Score: 115
Period size: 30 Copynumber: 2.1 Consensus size: 30
46248054 AAGTTCTAGT
*
46248064 TGAAGTGTGATAGTGATAGTAGGATCAGAG
1 TGAAGTGTGATAGTGATAGTACGATCAGAG
46248094 TGAAGTGTGATAGTGATAGTACGATCAGAG
1 TGAAGTGTGATAGTGATAGTACGATCAGAG
46248124 TG
1 TG
46248126 CGCAGTAGTA
Statistics
Matches: 31, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
30 31 1.00
ACGTcount: A:0.32, C:0.05, G:0.35, T:0.27
Consensus pattern (30 bp):
TGAAGTGTGATAGTGATAGTACGATCAGAG
Found at i:46249307 original size:27 final size:27
Alignment explanation
Indices: 46249277--46249633 Score: 410
Period size: 27 Copynumber: 13.2 Consensus size: 27
46249267 ATTACCAAAG
* * *
46249277 TACCCTCAATTTACAGAAGTACCATTT
1 TACCCTCGATTTACAGAATTACCGTTT
**
46249304 TACCCTCGATTTTACAGAATTACTATTT
1 TACCCTCGA-TTTACAGAATTACCGTTT
* *
46249332 TACCTTCGATTTACAGAATTATCGTTT
1 TACCCTCGATTTACAGAATTACCGTTT
*
46249359 TACCCTCGATTTACAGAATTACTGTTT
1 TACCCTCGATTTACAGAATTACCGTTT
*
46249386 TACCCTC-ATTTTACAGAATTACTGTTT
1 TACCCTCGA-TTTACAGAATTACCGTTT
*
46249413 TACCCTCGATTTACAAAATTACCGTTT
1 TACCCTCGATTTACAGAATTACCGTTT
* *
46249440 TACCTTCGATTTACAGAATTATCGTTT
1 TACCCTCGATTTACAGAATTACCGTTT
* * *
46249467 TACCCTTGATTTACAAAATTATCGTTT
1 TACCCTCGATTTACAGAATTACCGTTT
* * **
46249494 TACCATCGATTTACAAAATTACTATTT
1 TACCCTCGATTTACAGAATTACCGTTT
* *
46249521 TACCCTTGATTTATAGAATTACCGTTT
1 TACCCTCGATTTACAGAATTACCGTTT
* *
46249548 TACCCTCGATTTATAGAATTACTGTTT
1 TACCCTCGATTTACAGAATTACCGTTT
* * *
46249575 TACCCTCAATTTACAAAATTACTGTTT
1 TACCCTCGATTTACAGAATTACCGTTT
** * * *
46249602 TACCCTTAATTTATAAAATTACCATTT
1 TACCCTCGATTTACAGAATTACCGTTT
46249629 TACCC
1 TACCC
46249634 CGAGGGTGTT
Statistics
Matches: 289, Mismatches: 38, Indels: 6
0.87 0.11 0.02
Matches are distributed among these distances:
26 1 0.00
27 263 0.91
28 25 0.09
ACGTcount: A:0.29, C:0.21, G:0.08, T:0.42
Consensus pattern (27 bp):
TACCCTCGATTTACAGAATTACCGTTT
Found at i:46249938 original size:2 final size:2
Alignment explanation
Indices: 46249931--46249968 Score: 76
Period size: 2 Copynumber: 19.0 Consensus size: 2
46249921 GTGGCTTCGC
46249931 CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA
1 CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA
46249969 TATATATATA
Statistics
Matches: 36, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 36 1.00
ACGTcount: A:0.50, C:0.50, G:0.00, T:0.00
Consensus pattern (2 bp):
CA
Found at i:46249973 original size:2 final size:2
Alignment explanation
Indices: 46249968--46249999 Score: 64
Period size: 2 Copynumber: 16.0 Consensus size: 2
46249958 ACACACACAC
46249968 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
46250000 GTGTGTTCTG
Statistics
Matches: 30, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 30 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:46250036 original size:27 final size:27
Alignment explanation
Indices: 46250006--46250057 Score: 68
Period size: 27 Copynumber: 1.9 Consensus size: 27
46249996 ATATGTGTGT
*
46250006 TCTGGTGGCCTAGCCACAATATCTGTA
1 TCTGGTGACCTAGCCACAATATCTGTA
* * *
46250033 TCTGGTGACTTCGTCACAATATCTG
1 TCTGGTGACCTAGCCACAATATCTG
46250058 GCAGCCTCGC
Statistics
Matches: 21, Mismatches: 4, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
27 21 1.00
ACGTcount: A:0.21, C:0.25, G:0.21, T:0.33
Consensus pattern (27 bp):
TCTGGTGACCTAGCCACAATATCTGTA
Found at i:46250238 original size:37 final size:37
Alignment explanation
Indices: 46250197--46250284 Score: 140
Period size: 37 Copynumber: 2.4 Consensus size: 37
46250187 ATTCTGTTAC
* *
46250197 CTGATACTAATTCTGATTCTAATTCTGTCACCTAATT
1 CTGATTCTGATTCTGATTCTAATTCTGTCACCTAATT
* *
46250234 CTGATTCTGATTCTGATTCTGATTCTGTCACCTGATT
1 CTGATTCTGATTCTGATTCTAATTCTGTCACCTAATT
46250271 CTGATTCTGATTCT
1 CTGATTCTGATTCT
46250285 CATTTTGATT
Statistics
Matches: 47, Mismatches: 4, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
37 47 1.00
ACGTcount: A:0.20, C:0.22, G:0.12, T:0.45
Consensus pattern (37 bp):
CTGATTCTGATTCTGATTCTAATTCTGTCACCTAATT
Found at i:46250240 original size:6 final size:6
Alignment explanation
Indices: 46250176--46250305 Score: 90
Period size: 6 Copynumber: 21.3 Consensus size: 6
46250166 TTGCATTCAC
* * *
46250176 ATTCTG ATT-TG ATTCTG -TTACCTG ATACTA ATTCTG ATTCTA ATTCTG
1 ATTCTG ATTCTG ATTCTG ATT--CTG ATTCTG ATTCTG ATTCTG ATTCTG
* * *
46250224 -TCACCTA ATTCTG ATTCTG ATTCTG ATTCTG ATTCTG -TCACCTG ATTCTG
1 AT--TCTG ATTCTG ATTCTG ATTCTG ATTCTG ATTCTG AT--TCTG ATTCTG
* *
46250274 ATTCTG ATTCTC ATTTTG ATTCT- AGTTCTG AT
1 ATTCTG ATTCTG ATTCTG ATTCTG A-TTCTG AT
46250306 AATGTTTCTT
Statistics
Matches: 96, Mismatches: 16, Indels: 24
0.71 0.12 0.18
Matches are distributed among these distances:
5 10 0.10
6 74 0.77
7 9 0.09
8 3 0.03
ACGTcount: A:0.20, C:0.19, G:0.13, T:0.48
Consensus pattern (6 bp):
ATTCTG
Found at i:46250241 original size:31 final size:31
Alignment explanation
Indices: 46250176--46250284 Score: 112
Period size: 31 Copynumber: 3.4 Consensus size: 31
46250166 TTGCATTCAC
* * * *
46250176 ATTCTGATT-TGATTCTGTTACCTGATACTA
1 ATTCTGATTCTAATTCTGTCACCTGATTCTG
46250206 ATTCTGATTCTAATTCTGTCACCTAATTCTGATTCTG
1 ATTCTGATTCTAATTCTGTCA-C-----CTGATTCTG
*
46250243 ATTCTGATTCTGATTCTGTCACCTGATTCTG
1 ATTCTGATTCTAATTCTGTCACCTGATTCTG
46250274 ATTCTGATTCT
1 ATTCTGATTCT
46250285 CATTTTGATT
Statistics
Matches: 67, Mismatches: 5, Indels: 13
0.79 0.06 0.15
Matches are distributed among these distances:
30 9 0.13
31 29 0.43
32 1 0.01
36 1 0.01
37 27 0.40
ACGTcount: A:0.20, C:0.20, G:0.13, T:0.47
Consensus pattern (31 bp):
ATTCTGATTCTAATTCTGTCACCTGATTCTG
Found at i:46250294 original size:37 final size:36
Alignment explanation
Indices: 46250183--46250296 Score: 130
Period size: 37 Copynumber: 3.2 Consensus size: 36
46250173 CACATTCTGA
* * *
46250183 TTTGATTCTGTTACCTGATACTAATTCTGATTCTA-
1 TTTGATTCTGTCACCTGATTCTGATTCTGATTCTAT
*
46250218 ----ATTCTGTCACCTAATTCTGATTCTGATTCTGAT
1 TTTGATTCTGTCACCTGATTCTGATTCTGATTCT-AT
*
46250251 TCTGATTCTGTCACCTGATTCTGATTCTGATTCTCAT
1 TTTGATTCTGTCACCTGATTCTGATTCTGATTCT-AT
46250288 TTTGATTCT
1 TTTGATTCT
46250297 AGTTCTGATA
Statistics
Matches: 66, Mismatches: 7, Indels: 10
0.80 0.08 0.12
Matches are distributed among these distances:
31 26 0.39
32 1 0.02
37 39 0.59
ACGTcount: A:0.19, C:0.20, G:0.12, T:0.48
Consensus pattern (36 bp):
TTTGATTCTGTCACCTGATTCTGATTCTGATTCTAT
Found at i:46288519 original size:17 final size:18
Alignment explanation
Indices: 46288477--46288525 Score: 50
Period size: 17 Copynumber: 2.8 Consensus size: 18
46288467 AGTTGAAAAG
46288477 GAGCATGATTGTCATACTT
1 GAGCATGA-TGTCATACTT
*
46288496 G-GCCATGATG-CATTCTT
1 GAG-CATGATGTCATACTT
46288513 GAGCATGAT-TCAT
1 GAGCATGATGTCAT
46288526 GCTTCTTGCA
Statistics
Matches: 26, Mismatches: 1, Indels: 8
0.74 0.03 0.23
Matches are distributed among these distances:
17 16 0.62
18 4 0.15
19 6 0.23
ACGTcount: A:0.24, C:0.18, G:0.22, T:0.35
Consensus pattern (18 bp):
GAGCATGATGTCATACTT
Found at i:46289413 original size:40 final size:40
Alignment explanation
Indices: 46289347--46289513 Score: 169
Period size: 40 Copynumber: 4.2 Consensus size: 40
46289337 AAATTGAATG
* * *
46289347 ATATCCGGGCTAAG-CCCGAAGACAATTATGCTGGAAATT
1 ATATCCGGGCTAAGACCCGAAGGCAATTGTGCTGGTAATT
* * **
46289386 ATATCCGGGTTAAGACCCGAAGGCAATTGTGCTAGTGGTT
1 ATATCCGGGCTAAGACCCGAAGGCAATTGTGCTGGTAATT
* *
46289426 ATATCCGGGCTAAGGCCCGAAGGC-ATTCGTGC-GAGTTATT
1 ATATCCGGGCTAAGACCCGAAGGCAATT-GTGCTG-GTAATT
* * ** *
46289466 CTATCCGGGCTAAGACCCGAAGGCATTTGTGCACGTGATT
1 ATATCCGGGCTAAGACCCGAAGGCAATTGTGCTGGTAATT
46289506 ATATCCGG
1 ATATCCGG
46289514 TTATATTCCG
Statistics
Matches: 105, Mismatches: 18, Indels: 9
0.80 0.14 0.07
Matches are distributed among these distances:
39 16 0.15
40 87 0.83
41 2 0.02
ACGTcount: A:0.26, C:0.22, G:0.28, T:0.25
Consensus pattern (40 bp):
ATATCCGGGCTAAGACCCGAAGGCAATTGTGCTGGTAATT
Found at i:46294622 original size:48 final size:48
Alignment explanation
Indices: 46294551--46294724 Score: 170
Period size: 48 Copynumber: 3.6 Consensus size: 48
46294541 GGTAAATTGT
* *
46294551 CGATGCCATGTCCCAGACATGGTCTTACACTGGCTCACATGTTGAGGC
1 CGATGCCATGTCCCAAACATGGTCTTACACTGGCTCACATATTGAGGC
* * * ** *
46294599 CGATGCCATGTCCCAAACATGGTCTTACACTAGG-TCTCGTCTCAATGC
1 CGATGCCATGTCCCAAACATGGTCTTACACT-GGCTCACATATTGAGGC
* * **** * *
46294647 GGATGCCATGTCCCAAACATGGTCTTACACTAGCTTGTTTAATGTGGC
1 CGATGCCATGTCCCAAACATGGTCTTACACTGGCTCACATATTGAGGC
* *
46294695 CGATTCCATGTCCCAGACATGGTCTTACAC
1 CGATGCCATGTCCCAAACATGGTCTTACAC
46294725 CAACACACAT
Statistics
Matches: 102, Mismatches: 22, Indels: 4
0.80 0.17 0.03
Matches are distributed among these distances:
47 1 0.01
48 99 0.97
49 2 0.02
ACGTcount: A:0.22, C:0.29, G:0.21, T:0.28
Consensus pattern (48 bp):
CGATGCCATGTCCCAAACATGGTCTTACACTGGCTCACATATTGAGGC
Found at i:46296696 original size:38 final size:38
Alignment explanation
Indices: 46296654--46296747 Score: 188
Period size: 38 Copynumber: 2.5 Consensus size: 38
46296644 CCTTAGCATA
46296654 GATGTGTATGTTCGGCCACATGAATGAGTACATAAGTT
1 GATGTGTATGTTCGGCCACATGAATGAGTACATAAGTT
46296692 GATGTGTATGTTCGGCCACATGAATGAGTACATAAGTT
1 GATGTGTATGTTCGGCCACATGAATGAGTACATAAGTT
46296730 GATGTGTATGTTCGGCCA
1 GATGTGTATGTTCGGCCA
46296748 TAGGTAAGCA
Statistics
Matches: 56, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
38 56 1.00
ACGTcount: A:0.27, C:0.14, G:0.28, T:0.32
Consensus pattern (38 bp):
GATGTGTATGTTCGGCCACATGAATGAGTACATAAGTT
Found at i:46297403 original size:40 final size:38
Alignment explanation
Indices: 46297346--46297530 Score: 174
Period size: 40 Copynumber: 4.7 Consensus size: 38
46297336 TCGAATGATG
46297346 TCCGGGCTAAGTCCCGAAGGC-TTTGTGCTAAGTGACTATA
1 TCCGGGCTAAGT-CCGAAGGCATTTGTGC-AAGTGACTA-A
* * *
46297386 TCCGGACTAAGATCCGAAGGCATTTGTGCGAGTTACTAA
1 TCCGGGCTAAG-TCCGAAGGCATTTGTGCAAGTGACTAA
* * *
46297425 TCCCGGGCTAAGCCCGAAGGCATTTGTGCGAGTTACTAAA
1 T-CCGGGCTAAGTCCGAAGGCATTTGTGCAAGTGACT-AA
* * * *
46297465 TCCGGGTTAAGTCCCGAAGGCATTTATGCGAGTTACTATA
1 TCCGGGCTAAGT-CCGAAGGCATTTGTGCAAGTGACTA-A
* *
46297505 ACCGGGCTATGTCCCGAAGGCATTTG
1 TCCGGGCTAAGT-CCGAAGGCATTTG
46297531 AATGAGTAGT
Statistics
Matches: 127, Mismatches: 12, Indels: 12
0.84 0.08 0.08
Matches are distributed among these distances:
39 36 0.28
40 83 0.65
41 8 0.06
ACGTcount: A:0.24, C:0.23, G:0.27, T:0.26
Consensus pattern (38 bp):
TCCGGGCTAAGTCCGAAGGCATTTGTGCAAGTGACTAA
Found at i:46297482 original size:79 final size:81
Alignment explanation
Indices: 46297347--46297530 Score: 243
Period size: 79 Copynumber: 2.3 Consensus size: 81
46297337 CGAATGATGT
*
46297347 CCGGGCTAAGTCCCGAAGGC-TTTGTGCTAAGTGACTATATCCGGACTAAGATCCGAAGGCATTT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCTAAGTGACTAAATCCGGACTAAGATCCGAAGGCATTT
* *
46297411 GTGCGAGTTACTA-ATC
66 ATGCGAGTTACTATA-A
* * **
46297427 CCGGGCTAAG-CCCGAAGGCATTTGTGC-GAGTTACTAAATCCGGGTTAAG-TCCCGAAGGCATT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCTAAGTGACTAAATCCGGACTAAGAT-CCGAAGGCATT
46297489 TATGCGAGTTACTATAA
65 TATGCGAGTTACTATAA
*
46297506 CCGGGCTATGTCCCGAAGGCATTTG
1 CCGGGCTAAGTCCCGAAGGCATTTG
46297531 AATGAGTAGT
Statistics
Matches: 92, Mismatches: 8, Indels: 8
0.85 0.07 0.07
Matches are distributed among these distances:
78 1 0.01
79 59 0.64
80 32 0.35
ACGTcount: A:0.24, C:0.23, G:0.27, T:0.26
Consensus pattern (81 bp):
CCGGGCTAAGTCCCGAAGGCATTTGTGCTAAGTGACTAAATCCGGACTAAGATCCGAAGGCATTT
ATGCGAGTTACTATAA
Found at i:46297552 original size:79 final size:74
Alignment explanation
Indices: 46297347--46297563 Score: 188
Period size: 79 Copynumber: 2.7 Consensus size: 74
46297337 CGAATGATGT
*
46297347 CCGGGCTAAGTCCCGAAGGC-TTTGTGCTA-AGTGACTATATCCGGACTAAGATCCGAAGGCATT
1 CCGGGCTAAG-CCCGAAGGCATTTGTG--AGAGT---TATATCCGG-TTAAG-TCCGAAGGCATT
* *
46297410 TGTGCGAGTTACTAATC
58 TATGCGAGTTACTAATA
*
46297427 CCGGGCTAAGCCCGAAGGCATTTGTGCGAGTTACTAAATCCGGGTTAAGTCCCGAAGGCATTTAT
1 CCGGGCTAAGCCCGAAGGCATTTGTGAGAGTTA-T--ATCC-GGTTAAGT-CCGAAGGCATTTAT
46297492 GCGAGTTACT-ATAA
61 GCGAGTTACTAAT-A
* *
46297506 CCGGGCTATGTCCCGAAGGCATTTGAATGAGTAGTTATATCCGGTTAAATTCCGAAGG
1 CCGGGCTAAG-CCCGAAGGCATTTG--TGAG-AGTTATATCCGGTT-AAGTCCGAAGG
46297564 TACGTGATTT
Statistics
Matches: 117, Mismatches: 7, Indels: 27
0.77 0.05 0.18
Matches are distributed among these distances:
76 2 0.02
77 1 0.01
78 3 0.03
79 63 0.54
80 39 0.33
82 4 0.03
83 5 0.04
ACGTcount: A:0.26, C:0.21, G:0.27, T:0.26
Consensus pattern (74 bp):
CCGGGCTAAGCCCGAAGGCATTTGTGAGAGTTATATCCGGTTAAGTCCGAAGGCATTTATGCGAG
TTACTAATA
Found at i:46300407 original size:29 final size:29
Alignment explanation
Indices: 46300375--46300504 Score: 201
Period size: 29 Copynumber: 4.5 Consensus size: 29
46300365 ATAGTGAATC
46300375 CGCACACTTAGTGCTATATATTTTCAGCT
1 CGCACACTTAGTGCTATATATTTTCAGCT
*
46300404 CGCACACTTAGTGCTATATAATTTCAGCT
1 CGCACACTTAGTGCTATATATTTTCAGCT
46300433 CGCACACTTAGTGCTATATATTTTCAGCT
1 CGCACACTTAGTGCTATATATTTTCAGCT
* * *
46300462 CACACACTTAGTGCTATATA--ATCAAACT
1 CGCACACTTAGTGCTATATATTTTC-AGCT
46300490 CGCACACTTAGTGCT
1 CGCACACTTAGTGCT
46300505 GTACAATTTT
Statistics
Matches: 94, Mismatches: 6, Indels: 3
0.91 0.06 0.03
Matches are distributed among these distances:
27 2 0.02
28 17 0.18
29 75 0.80
ACGTcount: A:0.28, C:0.25, G:0.13, T:0.34
Consensus pattern (29 bp):
CGCACACTTAGTGCTATATATTTTCAGCT
Found at i:46300526 original size:58 final size:57
Alignment explanation
Indices: 46300375--46300533 Score: 196
Period size: 58 Copynumber: 2.8 Consensus size: 57
46300365 ATAGTGAATC
* * *
46300375 CGCACACTTAGTGCTATATATTTTCAGCTCGCACACTTAGTGCTATATAATTTCAGCT
1 CGCACACTTAGTGCTATAAATTTTAAGCTCGCACACTTAGTGCTATATAA-TTCAACT
* * *
46300433 CGCACACTTAGTGCTATATATTTTCAGCTCACACACTTAGTGCTATATAA-TCAAACT
1 CGCACACTTAGTGCTATAAATTTTAAGCTCGCACACTTAGTGCTATATAATTC-AACT
* *
46300490 CGCACACTTAGTGCTGTACAATTTTAA-ATCCGCACACTTAGTGC
1 CGCACACTTAGTGCTATA-AATTTTAAGCT-CGCACACTTAGTGC
46300534 CAATCTTGTC
Statistics
Matches: 91, Mismatches: 7, Indels: 6
0.88 0.07 0.06
Matches are distributed among these distances:
56 2 0.02
57 21 0.23
58 68 0.75
ACGTcount: A:0.28, C:0.25, G:0.13, T:0.33
Consensus pattern (57 bp):
CGCACACTTAGTGCTATAAATTTTAAGCTCGCACACTTAGTGCTATATAATTCAACT
Found at i:46306364 original size:39 final size:39
Alignment explanation
Indices: 46306310--46306423 Score: 174
Period size: 39 Copynumber: 2.9 Consensus size: 39
46306300 GAATGTTCGA
46306310 GTGATATCCGGGCTAAGCCCGAAGGCAATTGTGCGAATT
1 GTGATATCCGGGCTAAGCCCGAAGGCAATTGTGCGAATT
*
46306349 GTGATATCCGGGCTAAGCCCGAAGGCAATTGTGCGAGTT
1 GTGATATCCGGGCTAAGCCCGAAGGCAATTGTGCGAATT
* * * *
46306388 GTGATATCCGGGTTATGTCTCGAAGGCATTTGTGCG
1 GTGATATCCGGGCTAAG-CCCGAAGGCAATTGTGCG
46306424 GGTTACCATA
Statistics
Matches: 69, Mismatches: 5, Indels: 1
0.92 0.07 0.01
Matches are distributed among these distances:
39 53 0.77
40 16 0.23
ACGTcount: A:0.22, C:0.19, G:0.32, T:0.26
Consensus pattern (39 bp):
GTGATATCCGGGCTAAGCCCGAAGGCAATTGTGCGAATT
Found at i:46306439 original size:40 final size:40
Alignment explanation
Indices: 46306317--46306453 Score: 125
Period size: 39 Copynumber: 3.5 Consensus size: 40
46306307 CGAGTGATAT
* * *** *
46306317 CCGGGCTAAG-CCCGAAGGCAATTGTGCGAATTGTGATAT
1 CCGGGCTATGTCCCGAAGGCAATTGTGCGAGTTACCATAA
* *** *
46306356 CCGGGCTAAG-CCCGAAGGCAATTGTGCGAGTTGTGATAT
1 CCGGGCTATGTCCCGAAGGCAATTGTGCGAGTTACCATAA
* * * *
46306395 CCGGGTTATGTCTCGAAGGCATTTGTGCGGGTTACCATAA
1 CCGGGCTATGTCCCGAAGGCAATTGTGCGAGTTACCATAA
46306435 CCGGGCTATGTCCCGAAGG
1 CCGGGCTATGTCCCGAAGG
46306454 TGTTTTGAAC
Statistics
Matches: 85, Mismatches: 12, Indels: 1
0.87 0.12 0.01
Matches are distributed among these distances:
39 46 0.54
40 39 0.46
ACGTcount: A:0.22, C:0.22, G:0.32, T:0.24
Consensus pattern (40 bp):
CCGGGCTATGTCCCGAAGGCAATTGTGCGAGTTACCATAA
Found at i:46310882 original size:64 final size:64
Alignment explanation
Indices: 46310801--46310921 Score: 190
Period size: 64 Copynumber: 1.9 Consensus size: 64
46310791 CATTAGTTAT
* *
46310801 ATATGTACTTACCATACATGCAATATTAAAGCCTTTAAAATATG-GTACATATTGCATAATTTGC
1 ATATGAACTTACCATACATGCAATATTAAAGCATTTAAAATA-GAGTACATATTGCATAATTTGC
* *
46310865 ATATGAACTTACTATACATGCAATATTTAAGCATTTAAAATAGAGTACATATTGCAT
1 ATATGAACTTACCATACATGCAATATTAAAGCATTTAAAATAGAGTACATATTGCAT
46310922 TACTCGCATA
Statistics
Matches: 52, Mismatches: 4, Indels: 2
0.90 0.07 0.03
Matches are distributed among these distances:
63 1 0.02
64 51 0.98
ACGTcount: A:0.40, C:0.14, G:0.11, T:0.36
Consensus pattern (64 bp):
ATATGAACTTACCATACATGCAATATTAAAGCATTTAAAATAGAGTACATATTGCATAATTTGC
Found at i:46312714 original size:43 final size:43
Alignment explanation
Indices: 46312666--46312780 Score: 169
Period size: 43 Copynumber: 2.7 Consensus size: 43
46312656 ATGTGATTAA
*
46312666 ATGTAAGACCATGTCTGGGACATTGGTATCGTTATTCAAT-TT
1 ATGTAAGACCATGTCTGGGACATTGGCATCGTTATTCAATCTT
* *
46312708 CGTGTAAGACCATGTCTGGGACATTGGCATCGTTATTCGATCTT
1 -ATGTAAGACCATGTCTGGGACATTGGCATCGTTATTCAATCTT
* *
46312752 ATGTAAGACCTTGTCTGGGACAGTGGCAT
1 ATGTAAGACCATGTCTGGGACATTGGCAT
46312781 TGATATGTGA
Statistics
Matches: 65, Mismatches: 6, Indels: 2
0.89 0.08 0.03
Matches are distributed among these distances:
43 63 0.97
44 2 0.03
ACGTcount: A:0.23, C:0.17, G:0.25, T:0.34
Consensus pattern (43 bp):
ATGTAAGACCATGTCTGGGACATTGGCATCGTTATTCAATCTT
Found at i:46312799 original size:43 final size:43
Alignment explanation
Indices: 46312666--46312814 Score: 147
Period size: 43 Copynumber: 3.5 Consensus size: 43
46312656 ATGTGATTAA
* * * * **
46312666 ATGTAAGACCATGTCTGGGACATTGGTATCGTTATTCAATTTC
1 ATGTAAGACCATGTCTGGGACAGTGGCATCGATATTCGATCAC
* * * **
46312709 GTGTAAGACCATGTCTGGGACATTGGCATCGTTATTCGATCTT
1 ATGTAAGACCATGTCTGGGACAGTGGCATCGATATTCGATCAC
* * *
46312752 ATGTAAGACCTTGTCTGGGACAGTGGCATTGATATGT-GATGAC
1 ATGTAAGACCATGTCTGGGACAGTGGCATCGATAT-TCGATCAC
*
46312795 ATGTAAGACCATATCTGGGA
1 ATGTAAGACCATGTCTGGGA
46312815 TATGACTTTG
Statistics
Matches: 90, Mismatches: 15, Indels: 2
0.84 0.14 0.02
Matches are distributed among these distances:
43 89 0.99
44 1 0.01
ACGTcount: A:0.26, C:0.16, G:0.26, T:0.33
Consensus pattern (43 bp):
ATGTAAGACCATGTCTGGGACAGTGGCATCGATATTCGATCAC
Found at i:46314307 original size:18 final size:19
Alignment explanation
Indices: 46314264--46314307 Score: 54
Period size: 18 Copynumber: 2.4 Consensus size: 19
46314254 TTATATTAAT
* *
46314264 ATTTATGTGAAATTGAATC
1 ATTTATGAGAAATTGAATA
*
46314283 ATGTATGAGAAA-TGAATA
1 ATTTATGAGAAATTGAATA
46314301 ATTTATG
1 ATTTATG
46314308 TTGTGTTTGA
Statistics
Matches: 21, Mismatches: 4, Indels: 1
0.81 0.15 0.04
Matches are distributed among these distances:
18 11 0.52
19 10 0.48
ACGTcount: A:0.41, C:0.02, G:0.18, T:0.39
Consensus pattern (19 bp):
ATTTATGAGAAATTGAATA
Found at i:46315846 original size:42 final size:42
Alignment explanation
Indices: 46315783--46315946 Score: 195
Period size: 42 Copynumber: 3.7 Consensus size: 42
46315773 CTTCGTTTTC
** *
46315783 TCGATGCCATAGTTCAACTATGGTCTTACACATCTTCACATAA
1 TCGATGCCATAGCCCAGCTATGGTCTTACACATCTTCACAT-A
* *
46315826 T-GATGCCATAGCCCAGCTATGGTCTTACACATATTCATATA
1 TCGATGCCATAGCCCAGCTATGGTCTTACACATCTTCACATA
*
46315867 TCGATGCCATAGCCCAGCTATGGTCTTACATGTAATCACATATCACATA
1 TCGATGCCATAGCCCAGCTATGGTCTTACA---CAT--C-T-TCACATA
46315916 TCGATGCCATAGCCCAGCTATGGTCTTACAC
1 TCGATGCCATAGCCCAGCTATGGTCTTACAC
46315947 GAATCACATA
Statistics
Matches: 104, Mismatches: 9, Indels: 13
0.83 0.07 0.10
Matches are distributed among these distances:
41 2 0.02
42 62 0.60
43 1 0.01
45 2 0.02
48 1 0.01
49 36 0.35
ACGTcount: A:0.29, C:0.27, G:0.15, T:0.30
Consensus pattern (42 bp):
TCGATGCCATAGCCCAGCTATGGTCTTACACATCTTCACATA
Found at i:46315926 original size:49 final size:47
Alignment explanation
Indices: 46315866--46316035 Score: 186
Period size: 47 Copynumber: 3.6 Consensus size: 47
46315856 ATATTCATAT
*
46315866 ATCGATGCCATAGCCCAGCTATGGTCTTACATGTAATCACATATCACA
1 ATCGATGCCATAGCCCAGATATGGTCTTACA-GTAATCACATATCACA
* *
46315914 TATCGATGCCATAGCCCAGCTATGGTCTTACACG-AATCACATATCTCA
1 -ATCGATGCCATAGCCCAGATATGGTCTTACA-GTAATCACATATCACA
* * * *
46315962 CT-GATGCCATATCCCAGATATGGTCTTATACAGT-AGCATATATCAC-
1 ATCGATGCCATAGCCCAGATATGGTC-T-TACAGTAATCACATATCACA
* *
46316008 ACCGATGCCATATCCCAGATATGGTCTT
1 ATCGATGCCATAGCCCAGATATGGTCTT
46316036 GTACGGAAAT
Statistics
Matches: 107, Mismatches: 10, Indels: 12
0.83 0.08 0.09
Matches are distributed among these distances:
45 1 0.01
46 22 0.21
47 35 0.33
48 17 0.16
49 32 0.30
ACGTcount: A:0.29, C:0.27, G:0.15, T:0.28
Consensus pattern (47 bp):
ATCGATGCCATAGCCCAGATATGGTCTTACAGTAATCACATATCACA
Found at i:46316048 original size:95 final size:94
Alignment explanation
Indices: 46315827--46316035 Score: 236
Period size: 91 Copynumber: 2.3 Consensus size: 94
46315817 TTCACATAAT
* * * *
46315827 GATGCCATAGCCCAGCTATGGTCTTACAC-ATAT-TCATATAT--C-GATGCCATAGCCCAGCTA
1 GATGCCATAGCCCAGATATGGTCTTACACGA-ATCACATATCTCACTGATGCCATAGCCCAGATA
* *
46315887 TGGTCTTACATGTAATCACATATCACATATC
65 TGGTCTTACATGTAAGCACATATCACA-ACC
* *
46315918 GATGCCATAGCCCAGCTATGGTCTTACACGAATCACATATCTCACTGATGCCATATCCCAGATAT
1 GATGCCATAGCCCAGATATGGTCTTACACGAATCACATATCTCACTGATGCCATAGCCCAGATAT
*
46315983 GGTCTTATACA-GT-AGCATATATCAC-ACC
66 GGTC-T-TACATGTAAGCACATATCACAACC
*
46316011 GATGCCATATCCCAGATATGGTCTT
1 GATGCCATAGCCCAGATATGGTCTT
46316036 GTACGGAAAT
Statistics
Matches: 102, Mismatches: 9, Indels: 12
0.83 0.07 0.10
Matches are distributed among these distances:
91 31 0.30
92 7 0.07
93 25 0.25
94 1 0.01
95 31 0.30
96 3 0.03
97 4 0.04
ACGTcount: A:0.29, C:0.27, G:0.15, T:0.29
Consensus pattern (94 bp):
GATGCCATAGCCCAGATATGGTCTTACACGAATCACATATCTCACTGATGCCATAGCCCAGATAT
GGTCTTACATGTAAGCACATATCACAACC
Found at i:46316103 original size:31 final size:31
Alignment explanation
Indices: 46316066--46316175 Score: 177
Period size: 31 Copynumber: 3.5 Consensus size: 31
46316056 TTGTAGCCAA
*
46316066 AGCTACCACTATTCACTGATCAGGTAGTCGG
1 AGCTACCACTTTTCACTGATCAGGTAGTCGG
46316097 TA-CTACCACTTTTCACTGATCAGGTAGTCGG
1 -AGCTACCACTTTTCACTGATCAGGTAGTCGG
* *
46316128 AGCTACCACTTTTCACTGATCAGGTAGCCGA
1 AGCTACCACTTTTCACTGATCAGGTAGTCGG
46316159 AGCTACCACTTTTCACT
1 AGCTACCACTTTTCACT
46316176 TGTCATTTGT
Statistics
Matches: 74, Mismatches: 3, Indels: 3
0.93 0.04 0.04
Matches are distributed among these distances:
30 1 0.01
31 72 0.97
32 1 0.01
ACGTcount: A:0.25, C:0.28, G:0.18, T:0.29
Consensus pattern (31 bp):
AGCTACCACTTTTCACTGATCAGGTAGTCGG
Found at i:46316262 original size:50 final size:50
Alignment explanation
Indices: 46316151--46316327 Score: 284
Period size: 50 Copynumber: 3.5 Consensus size: 50
46316141 CACTGATCAG
* *
46316151 GTAGCCGAAGCTACCACTTTTCACTTGTCA-TTTGTCATTGATCAGATAAGT
1 GTAGCCGAAGCTACCACTTATCACTT-TCACTTT-TCCTTGATCAGATAAGT
46316202 GTAGCCGAAGCTACCACTTATCACTTTCACTTTTCCTTGATCAGATAAGT
1 GTAGCCGAAGCTACCACTTATCACTTTCACTTTTCCTTGATCAGATAAGT
* *
46316252 GTAGCCGAAGCTATCACTTATCACTTTCACTTTTCCTTGATCAGAAAAGT
1 GTAGCCGAAGCTACCACTTATCACTTTCACTTTTCCTTGATCAGATAAGT
*
46316302 GTAGCCGAAGCTATCACTTATCACTT
1 GTAGCCGAAGCTACCACTTATCACTT
46316328 GTTGCCATGG
Statistics
Matches: 121, Mismatches: 4, Indels: 3
0.95 0.03 0.02
Matches are distributed among these distances:
50 93 0.77
51 28 0.23
ACGTcount: A:0.27, C:0.24, G:0.15, T:0.34
Consensus pattern (50 bp):
GTAGCCGAAGCTACCACTTATCACTTTCACTTTTCCTTGATCAGATAAGT
Found at i:46321022 original size:39 final size:40
Alignment explanation
Indices: 46320967--46321136 Score: 215
Period size: 39 Copynumber: 4.3 Consensus size: 40
46320957 GGACTAAGAT
* *
46320967 CCGAAGGCGTTCGTGCGAGTTAATAAATCCGGGTTAAG-C
1 CCGAAGGCATTTGTGCGAGTTAATAAATCCGGGTTAAGTC
46321006 CCGAAGGCATTTGTGCGAGTTAATAAATCCGGGTTAAG-C
1 CCGAAGGCATTTGTGCGAGTTAATAAATCCGGGTTAAGTC
* * *
46321045 TCGAAGGCATTT-TGCGAGTTACTAAACCCGGGTTAAGTC
1 CCGAAGGCATTTGTGCGAGTTAATAAATCCGGGTTAAGTC
* * *
46321084 CCGAAGGCATTCGTGCGAGTTACTATAA-CCGGGGTT-TGTC
1 CCGAAGGCATTTGTGCGAGTTAATA-AATCC-GGGTTAAGTC
46321124 CCGAAGGCATTTG
1 CCGAAGGCATTTG
46321137 AGCTAGTCGT
Statistics
Matches: 118, Mismatches: 9, Indels: 7
0.88 0.07 0.05
Matches are distributed among these distances:
38 23 0.19
39 59 0.50
40 29 0.25
41 7 0.06
ACGTcount: A:0.25, C:0.21, G:0.29, T:0.26
Consensus pattern (40 bp):
CCGAAGGCATTTGTGCGAGTTAATAAATCCGGGTTAAGTC
Found at i:46328261 original size:33 final size:34
Alignment explanation
Indices: 46328192--46328262 Score: 90
Period size: 33 Copynumber: 2.1 Consensus size: 34
46328182 AACAGTGCAT
* * *
46328192 ACAGTAACGGTCTGGGCCTAAGCCCTATTCATTA
1 ACAGTAACAGTCTGGGCCTAAGCCCTATGCAGTA
* *
46328226 ACAGT-ACAGTCTTGGCCTAAGCCCTCTGCAGTA
1 ACAGTAACAGTCTGGGCCTAAGCCCTATGCAGTA
46328259 ACAG
1 ACAG
46328263 AGTTGGCCTA
Statistics
Matches: 32, Mismatches: 5, Indels: 1
0.84 0.13 0.03
Matches are distributed among these distances:
33 27 0.84
34 5 0.16
ACGTcount: A:0.27, C:0.28, G:0.21, T:0.24
Consensus pattern (34 bp):
ACAGTAACAGTCTGGGCCTAAGCCCTATGCAGTA
Found at i:46329733 original size:28 final size:27
Alignment explanation
Indices: 46329702--46329783 Score: 103
Period size: 27 Copynumber: 3.0 Consensus size: 27
46329692 CCAACCACAT
46329702 ACAGATATTTTGTGGCAGTGCCACCAGA
1 ACAGATA-TTTGTGGCAGTGCCACCAGA
** *
46329730 ACAGATATACGTGGCAGGGCCACCAGA
1 ACAGATATTTGTGGCAGTGCCACCAGA
46329757 ACAGATAATTTGTGGCA-TAGCCACCAG
1 ACAGAT-ATTTGTGGCAGT-GCCACCAG
46329784 GATGCTTCCT
Statistics
Matches: 46, Mismatches: 6, Indels: 4
0.82 0.11 0.07
Matches are distributed among these distances:
27 23 0.50
28 23 0.50
ACGTcount: A:0.32, C:0.23, G:0.26, T:0.20
Consensus pattern (27 bp):
ACAGATATTTGTGGCAGTGCCACCAGA
Found at i:46329936 original size:28 final size:28
Alignment explanation
Indices: 46329889--46329953 Score: 105
Period size: 28 Copynumber: 2.3 Consensus size: 28
46329879 AAATTAACCC
*
46329889 TAGGGGTATAGAGGTCATTTTGCATACA
1 TAGGGGTATAGAGGTAATTTTGCATACA
46329917 TAGGGGTATA-ATGGTAATTTTGCATACA
1 TAGGGGTATAGA-GGTAATTTTGCATACA
46329945 TAGGGGTAT
1 TAGGGGTAT
46329954 TCTAGTAAAT
Statistics
Matches: 35, Mismatches: 1, Indels: 2
0.92 0.03 0.05
Matches are distributed among these distances:
27 1 0.03
28 34 0.97
ACGTcount: A:0.29, C:0.08, G:0.29, T:0.34
Consensus pattern (28 bp):
TAGGGGTATAGAGGTAATTTTGCATACA
Found at i:46331041 original size:12 final size:13
Alignment explanation
Indices: 46331022--46331054 Score: 50
Period size: 12 Copynumber: 2.6 Consensus size: 13
46331012 GGGTTCGGCT
46331022 ATGGAGAAGGAAG
1 ATGGAGAAGGAAG
*
46331035 A-GGAGAAGGTAG
1 ATGGAGAAGGAAG
46331047 ATGGAGAA
1 ATGGAGAA
46331055 AAAGAAATAA
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
12 11 0.61
13 7 0.39
ACGTcount: A:0.45, C:0.00, G:0.45, T:0.09
Consensus pattern (13 bp):
ATGGAGAAGGAAG
Found at i:46334140 original size:55 final size:56
Alignment explanation
Indices: 46334075--46334189 Score: 137
Period size: 55 Copynumber: 2.1 Consensus size: 56
46334065 AGCATGGCTG
* * *
46334075 CCAGATACAGA-AAATGTGACAGAGTCACCAGATACAGATATTTTGTGGCAGT-GCCA
1 CCAGATACAGATAAACGTGACAGAGCCACCAGA-ACAGATAATTTGTGGCA-TAGCCA
* * *
46334131 CCAGA-ACAGATATACGTGGCAGGGCCACCAGAACAGATAATTTGTGGCATAGCCA
1 CCAGATACAGATAAACGTGACAGAGCCACCAGAACAGATAATTTGTGGCATAGCCA
46334186 CCAG
1 CCAG
46334190 GACGCTTCCT
Statistics
Matches: 51, Mismatches: 6, Indels: 5
0.82 0.10 0.08
Matches are distributed among these distances:
54 1 0.02
55 29 0.57
56 21 0.41
ACGTcount: A:0.35, C:0.23, G:0.24, T:0.18
Consensus pattern (56 bp):
CCAGATACAGATAAACGTGACAGAGCCACCAGAACAGATAATTTGTGGCATAGCCA
Found at i:46334186 original size:28 final size:27
Alignment explanation
Indices: 46334100--46334189 Score: 101
Period size: 27 Copynumber: 3.2 Consensus size: 27
46334090 GTGACAGAGT
*
46334100 CACCAGATACAGATATTTTGTGGCAGTGC
1 CACCAGA-ACAGATAATTTGTGGCA-TGC
** *
46334129 CACCAGAACAGAT-ATACGTGGCAGGGC
1 CACCAGAACAGATAATTTGTGGCA-TGC
46334156 CACCAGAACAGATAATTTGTGGCATAGC
1 CACCAGAACAGATAATTTGTGGCAT-GC
46334184 CACCAG
1 CACCAG
46334190 GACGCTTCCT
Statistics
Matches: 52, Mismatches: 7, Indels: 5
0.81 0.11 0.08
Matches are distributed among these distances:
27 23 0.44
28 22 0.42
29 7 0.13
ACGTcount: A:0.32, C:0.24, G:0.24, T:0.19
Consensus pattern (27 bp):
CACCAGAACAGATAATTTGTGGCATGC
Found at i:46334342 original size:28 final size:28
Alignment explanation
Indices: 46334295--46334355 Score: 97
Period size: 28 Copynumber: 2.2 Consensus size: 28
46334285 AAATTAACCC
*
46334295 TAGGGGTATAGAGGTCATTTTGCATACA
1 TAGGGGTATAGAGGTAATTTTGCATACA
46334323 TAGGGGTATA-ATGGTAATTTTGCATACA
1 TAGGGGTATAGA-GGTAATTTTGCATACA
46334351 TAGGG
1 TAGGG
46334356 TATTCTAGTA
Statistics
Matches: 31, Mismatches: 1, Indels: 2
0.91 0.03 0.06
Matches are distributed among these distances:
27 1 0.03
28 30 0.97
ACGTcount: A:0.30, C:0.08, G:0.30, T:0.33
Consensus pattern (28 bp):
TAGGGGTATAGAGGTAATTTTGCATACA
Found at i:46343073 original size:40 final size:39
Alignment explanation
Indices: 46343028--46343235 Score: 218
Period size: 40 Copynumber: 5.2 Consensus size: 39
46343018 CGGAATACAA
*
46343028 CCGGATATAACCACATGCACGAATGCCTTCGGGTCTTAGC
1 CCGGATATAACCAC-TGCACAAATGCCTTCGGGTCTTAGC
* * *
46343068 CCGGATAGAACGACTTGCACAAATGCCTTCGGGTATTAGC
1 CCGGATATAACCAC-TGCACAAATGCCTTCGGGTCTTAGC
* * *
46343108 CCGGATTTAACAACTTGCACGAATGCCTTCGGGTCTTAGC
1 CCGGATATAACCAC-TGCACAAATGCCTTCGGGTCTTAGC
* ** * *
46343148 CCGGATGTAGTCACTAGCACAATTGCCTTCGGGTCTTAAC
1 CCGGATATAACCACT-GCACAAATGCCTTCGGGTCTTAGC
** * * *
46343188 CCGGATATAATTACTAGCATAAATGTCTTCGGGACTTAGC
1 CCGGATATAACCACT-GCACAAATGCCTTCGGGTCTTAGC
46343228 CCGGATAT
1 CCGGATAT
46343236 CATTCAATTG
Statistics
Matches: 142, Mismatches: 25, Indels: 2
0.84 0.15 0.01
Matches are distributed among these distances:
39 1 0.01
40 141 0.99
ACGTcount: A:0.25, C:0.26, G:0.23, T:0.26
Consensus pattern (39 bp):
CCGGATATAACCACTGCACAAATGCCTTCGGGTCTTAGC
Found at i:46343168 original size:80 final size:81
Alignment explanation
Indices: 46343028--46343233 Score: 247
Period size: 80 Copynumber: 2.6 Consensus size: 81
46343018 CGGAATACAA
* * *
46343028 CCGGATATAACCACATGCACGAATGCCTTCGGGTCTTAGCCCGGA-TAGAACGACTTGCACAAAT
1 CCGGATATAACAACTTGCACGAATGCCTTCGGGTCTTAGCCCGGATTAGAACGACTAGCACAAAT
*
46343092 GCCTTCGGGTATTAGC
66 GCCTTCGGGTATTAAC
* * *
46343108 CCGGATTTAACAACTTGCACGAATGCCTTCGGGTCTTAGCCCGGATGTAG-TC-ACTAGCACAAT
1 CCGGATATAACAACTTGCACGAATGCCTTCGGGTCTTAGCCCGGAT-TAGAACGACTAGCACAAA
*
46343171 TGCCTTCGGGTCTTAAC
65 TGCCTTCGGGTATTAAC
** * ** * *
46343188 CCGGATATAATTACTAGCATAAATGTCTTCGGGACTTAGCCCGGAT
1 CCGGATATAACAACTTGCACGAATGCCTTCGGGTCTTAGCCCGGAT
46343234 ATCATTCAAT
Statistics
Matches: 108, Mismatches: 16, Indels: 4
0.84 0.12 0.03
Matches are distributed among these distances:
80 104 0.96
81 1 0.01
82 3 0.03
ACGTcount: A:0.25, C:0.26, G:0.23, T:0.26
Consensus pattern (81 bp):
CCGGATATAACAACTTGCACGAATGCCTTCGGGTCTTAGCCCGGATTAGAACGACTAGCACAAAT
GCCTTCGGGTATTAAC
Found at i:46347783 original size:16 final size:16
Alignment explanation
Indices: 46347762--46347804 Score: 59
Period size: 16 Copynumber: 2.7 Consensus size: 16
46347752 GTAGATCGGC
*
46347762 AAAAGCCGAAATGCCG
1 AAAAGCCGAAATGCCA
* *
46347778 AAAAGCCAAAATGTCA
1 AAAAGCCGAAATGCCA
46347794 AAAAGCCGAAA
1 AAAAGCCGAAA
46347805 GTTTGACTAT
Statistics
Matches: 23, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
16 23 1.00
ACGTcount: A:0.53, C:0.21, G:0.19, T:0.07
Consensus pattern (16 bp):
AAAAGCCGAAATGCCA
Found at i:46348101 original size:28 final size:28
Alignment explanation
Indices: 46348017--46348106 Score: 110
Period size: 29 Copynumber: 3.1 Consensus size: 28
46348007 TGAGTATGAC
*
46348017 TATAAATGTGAATTGGG-CTTGATGGGCCA
1 TATAAATGTG-ATTGGGCCTAG-TGGGCCA
* * *
46348046 TATAAACGTGATTTGGGCCTAATAGGCCA
1 TATAAATGTGA-TTGGGCCTAGTGGGCCA
46348075 TATAAATGTGATTGGGCCTAGTGGGCCA
1 TATAAATGTGATTGGGCCTAGTGGGCCA
46348103 TATA
1 TATA
46348107 CAAGTATGTG
Statistics
Matches: 52, Mismatches: 7, Indels: 5
0.81 0.11 0.08
Matches are distributed among these distances:
28 20 0.38
29 30 0.58
30 2 0.04
ACGTcount: A:0.29, C:0.13, G:0.28, T:0.30
Consensus pattern (28 bp):
TATAAATGTGATTGGGCCTAGTGGGCCA
Found at i:46353682 original size:12 final size:12
Alignment explanation
Indices: 46353667--46353692 Score: 52
Period size: 12 Copynumber: 2.2 Consensus size: 12
46353657 GTAATAGACA
46353667 TTGGACATTTAT
1 TTGGACATTTAT
46353679 TTGGACATTTAT
1 TTGGACATTTAT
46353691 TT
1 TT
46353693 TGGTGATGTG
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 14 1.00
ACGTcount: A:0.23, C:0.08, G:0.15, T:0.54
Consensus pattern (12 bp):
TTGGACATTTAT
Found at i:46355202 original size:15 final size:15
Alignment explanation
Indices: 46355165--46355207 Score: 50
Period size: 16 Copynumber: 2.8 Consensus size: 15
46355155 ACAGTAGACA
* *
46355165 GTGAAACTTTACATT
1 GTGAAACTATAGATT
*
46355180 TTGAAAACTATAGATT
1 GTG-AAACTATAGATT
46355196 GTGAAACTATAG
1 GTGAAACTATAG
46355208 TGAAACTGTG
Statistics
Matches: 23, Mismatches: 4, Indels: 2
0.79 0.14 0.07
Matches are distributed among these distances:
15 11 0.48
16 12 0.52
ACGTcount: A:0.40, C:0.09, G:0.16, T:0.35
Consensus pattern (15 bp):
GTGAAACTATAGATT
Found at i:46356212 original size:22 final size:22
Alignment explanation
Indices: 46356184--46356228 Score: 90
Period size: 22 Copynumber: 2.0 Consensus size: 22
46356174 TTTAGCATGG
46356184 AAGTGTTATTGCAGTCACTAAC
1 AAGTGTTATTGCAGTCACTAAC
46356206 AAGTGTTATTGCAGTCACTAAC
1 AAGTGTTATTGCAGTCACTAAC
46356228 A
1 A
46356229 TTGGAAAATG
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
22 23 1.00
ACGTcount: A:0.33, C:0.18, G:0.18, T:0.31
Consensus pattern (22 bp):
AAGTGTTATTGCAGTCACTAAC
Found at i:46362525 original size:25 final size:25
Alignment explanation
Indices: 46362496--46362543 Score: 69
Period size: 25 Copynumber: 1.9 Consensus size: 25
46362486 TTATAATATG
* * *
46362496 AAAATGACCGTTTTGCCCCTAGGTA
1 AAAATGACCATTATACCCCTAGGTA
46362521 AAAATGACCATTATACCCCTAGG
1 AAAATGACCATTATACCCCTAGG
46362544 GTTTATATAT
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:0.33, C:0.25, G:0.17, T:0.25
Consensus pattern (25 bp):
AAAATGACCATTATACCCCTAGGTA
Found at i:46362627 original size:11 final size:11
Alignment explanation
Indices: 46362591--46362646 Score: 57
Period size: 11 Copynumber: 5.5 Consensus size: 11
46362581 CATGGTATGT
46362591 ATGATATGCAC
1 ATGATATGCAC
* *
46362602 ATGAAATG--T
1 ATGATATGCAC
46362611 ATGATATGCAC
1 ATGATATGCAC
*
46362622 ATGATATG--T
1 ATGATATGCAC
46362631 ATGATATGCAC
1 ATGATATGCAC
46362642 ATGAT
1 ATGAT
46362647 GTATTCATAA
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:0.38, C:0.11, G:0.20, T:0.32
Consensus pattern (11 bp):
ATGATATGCAC
Found at i:46362646 original size:20 final size:20
Alignment explanation
Indices: 46362580--46362646 Score: 116
Period size: 20 Copynumber: 3.4 Consensus size: 20
46362570 ATTTTGATAA
*
46362580 ACATGGTATGTATGATATGC
1 ACATGATATGTATGATATGC
*
46362600 ACATGAAATGTATGATATGC
1 ACATGATATGTATGATATGC
46362620 ACATGATATGTATGATATGC
1 ACATGATATGTATGATATGC
46362640 ACATGAT
1 ACATGAT
46362647 GTATTCATAA
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:0.36, C:0.10, G:0.21, T:0.33
Consensus pattern (20 bp):
ACATGATATGTATGATATGC
Found at i:46362723 original size:24 final size:24
Alignment explanation
Indices: 46362696--46362802 Score: 133
Period size: 24 Copynumber: 4.4 Consensus size: 24
46362686 GAGGAAGTGC
*
46362696 AAAAGGGCTTATGCCCCAGTTACT
1 AAAAGGGCTTATGCCCCAATTACT
* *
46362720 AAAAAGAGCTTATGCCCCAATTACC
1 -AAAAGGGCTTATGCCCCAATTACT
*
46362745 AAAAGGGCTTATGCCCCAATTATT
1 AAAAGGGCTTATGCCCCAATTACT
* * *
46362769 AAAAGGGCTTTTGCCCCATTTATT
1 AAAAGGGCTTATGCCCCAATTACT
46362793 AAAAGAGGCT
1 AAAAG-GGCT
46362803 AGGCCTCCAG
Statistics
Matches: 73, Mismatches: 8, Indels: 2
0.88 0.10 0.02
Matches are distributed among these distances:
24 48 0.66
25 25 0.34
ACGTcount: A:0.34, C:0.22, G:0.18, T:0.26
Consensus pattern (24 bp):
AAAAGGGCTTATGCCCCAATTACT
Found at i:46371304 original size:31 final size:31
Alignment explanation
Indices: 46371266--46371344 Score: 149
Period size: 31 Copynumber: 2.5 Consensus size: 31
46371256 TTTAACGGTT
46371266 ACTGGGCCGAAGCCTTTTCATAAATCATATC
1 ACTGGGCCGAAGCCTTTTCATAAATCATATC
46371297 ACTGGGCCGAAGCCTTTTCATAAATCATATC
1 ACTGGGCCGAAGCCTTTTCATAAATCATATC
*
46371328 ATTGGGCCGAAGCCTTT
1 ACTGGGCCGAAGCCTTT
46371345 ACTGTAAACG
Statistics
Matches: 47, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
31 47 1.00
ACGTcount: A:0.27, C:0.25, G:0.19, T:0.29
Consensus pattern (31 bp):
ACTGGGCCGAAGCCTTTTCATAAATCATATC
Found at i:46371415 original size:42 final size:42
Alignment explanation
Indices: 46371368--46371459 Score: 139
Period size: 42 Copynumber: 2.2 Consensus size: 42
46371358 TGGCCCTTAG
* ** *
46371368 GCCCATTTCAATATCACATGTAATGTCAATGGATGTATGCAA
1 GCCCATTTCAATATCACATGAAATACCAATGAATGTATGCAA
46371410 GCCCATTTCAATATCACATGAAATACCAATGAATGTATGCAA
1 GCCCATTTCAATATCACATGAAATACCAATGAATGTATGCAA
*
46371452 TCCCATTT
1 GCCCATTT
46371460 GGGGAGACTA
Statistics
Matches: 45, Mismatches: 5, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
42 45 1.00
ACGTcount: A:0.35, C:0.22, G:0.13, T:0.30
Consensus pattern (42 bp):
GCCCATTTCAATATCACATGAAATACCAATGAATGTATGCAA
Found at i:46371675 original size:26 final size:26
Alignment explanation
Indices: 46371604--46371752 Score: 248
Period size: 26 Copynumber: 5.8 Consensus size: 26
46371594 CCTCTTTAAT
**
46371604 AACTGGGGCA-AAGCCCTTTTCGGTA
1 AACTGGGGCATAAGCCCTTTTCAATA
46371629 AACTGGGGCA-AAGCCCTTTTCAATA
1 AACTGGGGCATAAGCCCTTTTCAATA
*
46371654 AACTAGGGCATAAGCCCTTTTCAATA
1 AACTGGGGCATAAGCCCTTTTCAATA
*
46371680 AACTGGGGCATAAGCCCTTTTCAGTA
1 AACTGGGGCATAAGCCCTTTTCAATA
46371706 AACTGGGGCATAAGCCCTTTTCAATA
1 AACTGGGGCATAAGCCCTTTTCAATA
46371732 AACTGGGGCATAAGCCCTTTT
1 AACTGGGGCATAAGCCCTTTT
46371753 GCACTTCCTC
Statistics
Matches: 117, Mismatches: 6, Indels: 1
0.94 0.05 0.01
Matches are distributed among these distances:
25 32 0.27
26 85 0.73
ACGTcount: A:0.29, C:0.23, G:0.21, T:0.26
Consensus pattern (26 bp):
AACTGGGGCATAAGCCCTTTTCAATA
Found at i:46372616 original size:27 final size:27
Alignment explanation
Indices: 46372555--46372618 Score: 76
Period size: 27 Copynumber: 2.4 Consensus size: 27
46372545 GGCATATTTT
*
46372555 TCATTTTACCATACAGGGGTATTACGG
1 TCATTTTACCATACAGGGCTATTACGG
* *
46372582 TCACTTTACCCTACAAGGGCT-TTACGG
1 TCATTTTACCATAC-AGGGCTATTACGG
*
46372609 TCTTTTTACC
1 TCATTTTACC
46372619 TAATAGGGGT
Statistics
Matches: 31, Mismatches: 5, Indels: 2
0.82 0.13 0.05
Matches are distributed among these distances:
27 26 0.84
28 5 0.16
ACGTcount: A:0.22, C:0.25, G:0.17, T:0.36
Consensus pattern (27 bp):
TCATTTTACCATACAGGGCTATTACGG
Found at i:46372702 original size:27 final size:27
Alignment explanation
Indices: 46372657--46372954 Score: 163
Period size: 27 Copynumber: 11.0 Consensus size: 27
46372647 TACAATGGTG
* * *
46372657 TTTTGGTAAATCTACAAACCAAGGGTA
1 TTTTGGTAATTTTATAAACCAAGGGTA
** * *
46372684 TTTCAGTAATTTTGTAAACCAATGGTA
1 TTTTGGTAATTTTATAAACCAAGGGTA
*** * **
46372711 TTTCCATAATTTTTAGAAAGTTAAGGGTA
1 TTTTGGTAA-TTTTATAAA-CCAAGGGTA
* * ** *
46372740 TTTCT-GTAACTTTGTAAATTAGGGGTA
1 TTT-TGGTAATTTTATAAACCAAGGGTA
* ***
46372767 TTTTGGTAATTTTAAAAATTGAGGGTA
1 TTTTGGTAATTTTATAAACCAAGGGTA
* * * *
46372794 TTTCGGTAATTTCACAAACCAATGGTA
1 TTTTGGTAATTTTATAAACCAAGGGTA
*
46372821 TTTTGGTAATTTTACAAACC-AGTGGTA
1 TTTTGGTAATTTTATAAACCAAG-GGTA
* * * * *
46372848 TTTTAGCAATTTTACAGA-CTAGGGTA
1 TTTTGGTAATTTTATAAACCAAGGGTA
* * *
46372874 TTTTGGTAATTTTACT-GATCGAGGGTA
1 TTTTGGTAATTTTA-TAAACCAAGGGTA
*
46372901 TTTTGGTAATTTTGTAAACCAAGGGTA
1 TTTTGGTAATTTTATAAACCAAGGGTA
* * * *
46372928 TTTTAGTAATTTTGTAAATCGAGGGTA
1 TTTTGGTAATTTTATAAACCAAGGGTA
46372955 AAACGGTAAT
Statistics
Matches: 213, Mismatches: 49, Indels: 18
0.76 0.17 0.06
Matches are distributed among these distances:
26 22 0.10
27 166 0.78
28 13 0.06
29 12 0.06
ACGTcount: A:0.31, C:0.09, G:0.20, T:0.40
Consensus pattern (27 bp):
TTTTGGTAATTTTATAAACCAAGGGTA
Found at i:46372742 original size:56 final size:54
Alignment explanation
Indices: 46372677--46372823 Score: 141
Period size: 56 Copynumber: 2.7 Consensus size: 54
46372667 TCTACAAACC
*
46372677 AAGGGTATTTCAGTAATTTTGTAAACCAATGGTATTTCCATAATTTTTAGAAAGTT
1 AAGGGTATTTCAGTAATTTTGTAAACCAATGGTATTTCCATAA-TTTTA-AAAATT
* * ** ** ***
46372733 AAGGGTATTTCTGTAACTTTGTAAATTAGGGGTATTTTGGTAATTTTAAAAATT
1 AAGGGTATTTCAGTAATTTTGTAAACCAATGGTATTTCCATAATTTTAAAAATT
* * ***
46372787 GAGGGTATTTCGGTAATTTCACAAACCAATGGTATTT
1 AAGGGTATTTCAGTAATTTTGTAAACCAATGGTATTT
46372824 TGGTAATTTT
Statistics
Matches: 71, Mismatches: 20, Indels: 2
0.76 0.22 0.02
Matches are distributed among these distances:
54 32 0.45
55 5 0.07
56 34 0.48
ACGTcount: A:0.32, C:0.08, G:0.19, T:0.41
Consensus pattern (54 bp):
AAGGGTATTTCAGTAATTTTGTAAACCAATGGTATTTCCATAATTTTAAAAATT
Found at i:46372821 original size:54 final size:54
Alignment explanation
Indices: 46372762--46372954 Score: 210
Period size: 54 Copynumber: 3.6 Consensus size: 54
46372752 TGTAAATTAG
* * * *
46372762 GGGTATTTTGGTAATTTTAAAAATTGAGGGTATTTCGGTAATTTCACAAACCAA
1 GGGTATTTTGGTAATTTTACAAATCGAGGGTATTTTGGTAATTTTACAAACCAA
* * * * * *
46372816 TGGTATTTTGGTAATTTTACAAA-CCAGTGGTATTTTAGCAATTTTACAGA-CTA
1 GGGTATTTTGGTAATTTTACAAATCGAG-GGTATTTTGGTAATTTTACAAACCAA
** **
46372869 GGGTATTTTGGTAATTTTACTGATCGAGGGTATTTTGGTAATTTTGTAAACCAA
1 GGGTATTTTGGTAATTTTACAAATCGAGGGTATTTTGGTAATTTTACAAACCAA
* **
46372923 GGGTATTTTAGTAATTTTGTAAATCGAGGGTA
1 GGGTATTTTGGTAATTTTACAAATCGAGGGTA
46372955 AAACGGTAAT
Statistics
Matches: 111, Mismatches: 25, Indels: 6
0.78 0.18 0.04
Matches are distributed among these distances:
53 41 0.37
54 70 0.63
ACGTcount: A:0.30, C:0.08, G:0.22, T:0.40
Consensus pattern (54 bp):
GGGTATTTTGGTAATTTTACAAATCGAGGGTATTTTGGTAATTTTACAAACCAA
Found at i:46373016 original size:27 final size:27
Alignment explanation
Indices: 46372734--46373021 Score: 163
Period size: 27 Copynumber: 10.7 Consensus size: 27
46372724 TAGAAAGTTA
* *
46372734 AGGGTATTTCT-GTAACTTTGTAAAT-T
1 AGGGTATTT-TGGTAATTTTGTAAATCG
** *
46372760 AGGGGTATTTTGGTAATTTTAAAAATTG
1 A-GGGTATTTTGGTAATTTTGTAAATCG
* *** * *
46372788 AGGGTATTTCGGTAATTTCACAAACCA
1 AGGGTATTTTGGTAATTTTGTAAATCG
* ** *
46372815 ATGGTATTTTGGTAATTTTACAAA-CC
1 AGGGTATTTTGGTAATTTTGTAAATCG
* * ** * *
46372841 AGTGGTATTTTAGCAATTTTACAGA-CT
1 AG-GGTATTTTGGTAATTTTGTAAATCG
* *
46372868 AGGGTATTTTGGTAATTTTACT-GATCG
1 AGGGTATTTTGGTAATTTT-GTAAATCG
* *
46372895 AGGGTATTTTGGTAATTTTGTAAACCA
1 AGGGTATTTTGGTAATTTTGTAAATCG
*
46372922 AGGGTATTTTAGTAATTTTGTAAATCG
1 AGGGTATTTTGGTAATTTTGTAAATCG
**** *
46372949 AGGGTAAAACGGTAATTCTGTAAATCG
1 AGGGTATTTTGGTAATTTTGTAAATCG
**** * *
46372976 AGGGTAAAACGGTAATTCTATAAATCG
1 AGGGTATTTTGGTAATTTTGTAAATCG
*
46373003 AGGGTACTTTGGTAATTTT
1 AGGGTATTTTGGTAATTTT
46373022 ACAATTTGAG
Statistics
Matches: 212, Mismatches: 43, Indels: 13
0.79 0.16 0.05
Matches are distributed among these distances:
26 22 0.10
27 189 0.89
28 1 0.00
ACGTcount: A:0.31, C:0.09, G:0.22, T:0.39
Consensus pattern (27 bp):
AGGGTATTTTGGTAATTTTGTAAATCG
Found at i:46378936 original size:38 final size:38
Alignment explanation
Indices: 46378877--46378953 Score: 136
Period size: 38 Copynumber: 2.0 Consensus size: 38
46378867 GGTCACACCC
*
46378877 TATGGTTGAAACAAATTGAATCCAAATATAGTTGGCAT
1 TATGGTTGAAACAAATGGAATCCAAATATAGTTGGCAT
*
46378915 TATGGTTGAAACGAATGGAATCCAAATATAGTTGGCAT
1 TATGGTTGAAACAAATGGAATCCAAATATAGTTGGCAT
46378953 T
1 T
46378954 GTTTTTAGTT
Statistics
Matches: 37, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
38 37 1.00
ACGTcount: A:0.38, C:0.10, G:0.21, T:0.31
Consensus pattern (38 bp):
TATGGTTGAAACAAATGGAATCCAAATATAGTTGGCAT
Found at i:46380812 original size:18 final size:18
Alignment explanation
Indices: 46380786--46380820 Score: 52
Period size: 18 Copynumber: 1.9 Consensus size: 18
46380776 ACGATGTGCC
*
46380786 AAACTATTTTCATGCTTG
1 AAACCATTTTCATGCTTG
*
46380804 AAACCATTTTGATGCTT
1 AAACCATTTTCATGCTT
46380821 TCTGTTCTTG
Statistics
Matches: 15, Mismatches: 2, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
18 15 1.00
ACGTcount: A:0.29, C:0.17, G:0.11, T:0.43
Consensus pattern (18 bp):
AAACCATTTTCATGCTTG
Found at i:46386259 original size:43 final size:42
Alignment explanation
Indices: 46386130--46386283 Score: 211
Period size: 42 Copynumber: 3.6 Consensus size: 42
46386120 TGAGACTATG
*
46386130 TGTAAGACCATATCTGGGATATGGCATCAATATGAGA-CTTCA
1 TGTAAGACCATATCTGGGATATGGCATCAATACGAGATC-TCA
* * *
46386172 TGTAAGACCATATCTGGGATATGGCATCGATGCGAGATTTCA
1 TGTAAGACCATATCTGGGATATGGCATCAATACGAGATCTCA
* * *
46386214 TGTAAGACCATAGCTGGGCTATTGGCATCAATACGAGATCCCA
1 TGTAAGACCATATCTGGGATA-TGGCATCAATACGAGATCTCA
*
46386257 TGTAAGACCATATATGGGATATGGCAT
1 TGTAAGACCATATCTGGGATATGGCAT
46386284 TGGTATCGTA
Statistics
Matches: 97, Mismatches: 13, Indels: 4
0.85 0.11 0.04
Matches are distributed among these distances:
42 62 0.64
43 35 0.36
ACGTcount: A:0.31, C:0.18, G:0.24, T:0.27
Consensus pattern (42 bp):
TGTAAGACCATATCTGGGATATGGCATCAATACGAGATCTCA
Found at i:46388086 original size:28 final size:26
Alignment explanation
Indices: 46388021--46388086 Score: 71
Period size: 28 Copynumber: 2.4 Consensus size: 26
46388011 CAGCAAAGTT
46388021 ACTAATAACAGTAAACGTGGCAAAGCC
1 ACTAAT-ACAGTAAACGTGGCAAAGCC
* *
46388048 ACCAGA-GCAGTAATTACGTGGCAAAGCC
1 ACTA-ATACAGTAA--ACGTGGCAAAGCC
46388076 ACTAATACAGT
1 ACTAATACAGT
46388087 GCTTCCTCCA
Statistics
Matches: 31, Mismatches: 4, Indels: 7
0.74 0.10 0.17
Matches are distributed among these distances:
26 6 0.19
27 4 0.13
28 21 0.68
ACGTcount: A:0.41, C:0.23, G:0.20, T:0.17
Consensus pattern (26 bp):
ACTAATACAGTAAACGTGGCAAAGCC
Found at i:46399093 original size:13 final size:13
Alignment explanation
Indices: 46399075--46399103 Score: 58
Period size: 13 Copynumber: 2.2 Consensus size: 13
46399065 TCTGCAACAG
46399075 CCAGGACTTGAAC
1 CCAGGACTTGAAC
46399088 CCAGGACTTGAAC
1 CCAGGACTTGAAC
46399101 CCA
1 CCA
46399104 CGAGCGTGTG
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:0.31, C:0.34, G:0.21, T:0.14
Consensus pattern (13 bp):
CCAGGACTTGAAC
Found at i:46403106 original size:17 final size:17
Alignment explanation
Indices: 46403084--46403140 Score: 64
Period size: 17 Copynumber: 3.4 Consensus size: 17
46403074 AAGGGACATT
46403084 ATGAATGAATTCAGAAA
1 ATGAATGAATTCAGAAA
**
46403101 ATGAATAGTAATTC--ATT
1 ATGAAT-G-AATTCAGAAA
46403118 ATGAATGAATTCAGAAA
1 ATGAATGAATTCAGAAA
46403135 ATGAAT
1 ATGAAT
46403141 AGTAATTGAC
Statistics
Matches: 32, Mismatches: 4, Indels: 8
0.73 0.09 0.18
Matches are distributed among these distances:
15 5 0.16
16 1 0.03
17 20 0.62
18 1 0.03
19 5 0.16
ACGTcount: A:0.49, C:0.05, G:0.16, T:0.30
Consensus pattern (17 bp):
ATGAATGAATTCAGAAA
Found at i:46403123 original size:34 final size:34
Alignment explanation
Indices: 46403080--46403147 Score: 136
Period size: 34 Copynumber: 2.0 Consensus size: 34
46403070 ATTTAAGGGA
46403080 CATTATGAATGAATTCAGAAAATGAATAGTAATT
1 CATTATGAATGAATTCAGAAAATGAATAGTAATT
46403114 CATTATGAATGAATTCAGAAAATGAATAGTAATT
1 CATTATGAATGAATTCAGAAAATGAATAGTAATT
46403148 GACTTGAAAT
Statistics
Matches: 34, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
34 34 1.00
ACGTcount: A:0.47, C:0.06, G:0.15, T:0.32
Consensus pattern (34 bp):
CATTATGAATGAATTCAGAAAATGAATAGTAATT
Found at i:46403480 original size:29 final size:31
Alignment explanation
Indices: 46403434--46403494 Score: 90
Period size: 29 Copynumber: 2.0 Consensus size: 31
46403424 AAAAAAATAC
*
46403434 AATTTAATTTCAGTTTTAAAATCAAA-TTAA
1 AATTTAATTTCAGCTTTAAAATCAAACTTAA
*
46403464 AATTTGATTT-AGCTTTAAAATCAAACTTAA
1 AATTTAATTTCAGCTTTAAAATCAAACTTAA
46403494 A
1 A
46403495 GACTAATGTA
Statistics
Matches: 28, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
29 14 0.50
30 14 0.50
ACGTcount: A:0.46, C:0.08, G:0.05, T:0.41
Consensus pattern (31 bp):
AATTTAATTTCAGCTTTAAAATCAAACTTAA
Found at i:46403507 original size:30 final size:29
Alignment explanation
Indices: 46403448--46403513 Score: 71
Period size: 30 Copynumber: 2.2 Consensus size: 29
46403438 TAATTTCAGT
* * *
46403448 TTTAAAATCAAATTAAAATTTGATTTAGC
1 TTTAAAATCAAATTAAAATCTAATGTAGC
46403477 TTTAAAATCAAACTTAAAGA-CTAATGTAGC
1 TTTAAAATCAAA-TTAAA-ATCTAATGTAGC
*
46403507 TTGAAAA
1 TTTAAAA
46403514 AGCCTATATA
Statistics
Matches: 31, Mismatches: 4, Indels: 3
0.82 0.11 0.08
Matches are distributed among these distances:
29 12 0.39
30 18 0.58
31 1 0.03
ACGTcount: A:0.47, C:0.09, G:0.09, T:0.35
Consensus pattern (29 bp):
TTTAAAATCAAATTAAAATCTAATGTAGC
Found at i:46404219 original size:9 final size:9
Alignment explanation
Indices: 46404207--46404271 Score: 66
Period size: 9 Copynumber: 7.7 Consensus size: 9
46404197 TTGCCCTAAT
46404207 TGTTTTACA
1 TGTTTTACA
*
46404216 TGTTTTA-T
1 TGTTTTACA
46404224 TGTTTTAC-
1 TGTTTTACA
46404232 -GTTTTACA
1 TGTTTTACA
*
46404240 TGTGTTACA
1 TGTTTTACA
*
46404249 TGTTTTA-T
1 TGTTTTACA
*
46404257 TGTTATACA
1 TGTTTTACA
46404266 TGTTTT
1 TGTTTT
46404272 TATGATAAAT
Statistics
Matches: 45, Mismatches: 7, Indels: 8
0.75 0.12 0.13
Matches are distributed among these distances:
7 7 0.16
8 13 0.29
9 25 0.56
ACGTcount: A:0.18, C:0.08, G:0.14, T:0.60
Consensus pattern (9 bp):
TGTTTTACA
Found at i:46404227 original size:17 final size:17
Alignment explanation
Indices: 46404205--46404271 Score: 84
Period size: 17 Copynumber: 4.0 Consensus size: 17
46404195 AATTGCCCTA
46404205 ATTGTTTTACATGTTTT
1 ATTGTTTTACATGTTTT
46404222 ATTGTTTTAC--GTTTT
1 ATTGTTTTACATGTTTT
* *
46404237 ACATGTGTTACATGTTTT
1 A-TTGTTTTACATGTTTT
*
46404255 ATTGTTATACATGTTTT
1 ATTGTTTTACATGTTTT
46404272 TATGATAAAT
Statistics
Matches: 42, Mismatches: 5, Indels: 6
0.79 0.09 0.11
Matches are distributed among these distances:
15 6 0.14
16 7 0.17
17 23 0.55
18 6 0.14
ACGTcount: A:0.19, C:0.07, G:0.13, T:0.60
Consensus pattern (17 bp):
ATTGTTTTACATGTTTT
Found at i:46404235 original size:24 final size:26
Alignment explanation
Indices: 46404208--46404271 Score: 78
Period size: 24 Copynumber: 2.5 Consensus size: 26
46404198 TGCCCTAATT
*
46404208 GTTTTACATGTTTTA-TTGTTTTA-C
1 GTTTTACATGTTTTACATGTTTTATC
* *
46404232 GTTTTACATGTGTTACATGTTTTATT
1 GTTTTACATGTTTTACATGTTTTATC
*
46404258 GTTATACATGTTTT
1 GTTTTACATGTTTT
46404272 TATGATAAAT
Statistics
Matches: 33, Mismatches: 5, Indels: 2
0.82 0.12 0.05
Matches are distributed among these distances:
24 14 0.42
25 7 0.21
26 12 0.36
ACGTcount: A:0.19, C:0.08, G:0.14, T:0.59
Consensus pattern (26 bp):
GTTTTACATGTTTTACATGTTTTATC
Found at i:46404589 original size:37 final size:37
Alignment explanation
Indices: 46404548--46404623 Score: 152
Period size: 37 Copynumber: 2.1 Consensus size: 37
46404538 CTAAATTGGG
46404548 TTACAAAGCATTACCGTAAAAGCATAACTTGAATACA
1 TTACAAAGCATTACCGTAAAAGCATAACTTGAATACA
46404585 TTACAAAGCATTACCGTAAAAGCATAACTTGAATACA
1 TTACAAAGCATTACCGTAAAAGCATAACTTGAATACA
46404622 TT
1 TT
46404624 CATTTCCAAA
Statistics
Matches: 39, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
37 39 1.00
ACGTcount: A:0.45, C:0.18, G:0.11, T:0.26
Consensus pattern (37 bp):
TTACAAAGCATTACCGTAAAAGCATAACTTGAATACA
Found at i:46404979 original size:12 final size:12
Alignment explanation
Indices: 46404962--46404991 Score: 51
Period size: 12 Copynumber: 2.5 Consensus size: 12
46404952 TCTCACATGC
46404962 CCGTGTGCCAGG
1 CCGTGTGCCAGG
*
46404974 CCGTGTGCTAGG
1 CCGTGTGCCAGG
46404986 CCGTGT
1 CCGTGT
46404992 AACTTTCGAA
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
12 17 1.00
ACGTcount: A:0.07, C:0.30, G:0.40, T:0.23
Consensus pattern (12 bp):
CCGTGTGCCAGG
Found at i:46405625 original size:17 final size:17
Alignment explanation
Indices: 46405603--46405642 Score: 64
Period size: 17 Copynumber: 2.4 Consensus size: 17
46405593 GGTCTCCAAT
46405603 GAGCTTCTCAA-TCGAAC
1 GAGCTTCTCAACT-GAAC
46405620 GAGCTTCTCAACTGAAC
1 GAGCTTCTCAACTGAAC
46405637 GAGCTT
1 GAGCTT
46405643 TTGATTATCT
Statistics
Matches: 22, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
17 21 0.95
18 1 0.05
ACGTcount: A:0.28, C:0.28, G:0.20, T:0.25
Consensus pattern (17 bp):
GAGCTTCTCAACTGAAC
Found at i:46407794 original size:27 final size:27
Alignment explanation
Indices: 46407454--46407793 Score: 368
Period size: 27 Copynumber: 12.6 Consensus size: 27
46407444 AAAGTACTCC
46407454 CGATTTACAGAATTACCGTTTTACCCT
1 CGATTTACAGAATTACCGTTTTACCCT
* *
46407481 C-AGGTTATAGAATTACCGTTTTACCCT
1 CGA-TTTACAGAATTACCGTTTTACCCT
* *
46407508 CAATTCGTA-A-AATTACCATTTTACCCT
1 CGATT--TACAGAATTACCGTTTTACCCT
*
46407535 CTATTTACAGAATTACCGTTTTACCCT
1 CGATTTACAGAATTACCGTTTTACCCT
** *
46407562 C-AGTTTACAGAATTACTATTTTACCTT
1 CGA-TTTACAGAATTACCGTTTTACCCT
* *
46407589 CGATTTATAGAATTACCATTTTACCC-
1 CGATTTACAGAATTACCGTTTTACCCT
* * *
46407615 CTAATTTACATAATTACCATTTTACCC-
1 C-GATTTACAGAATTACCGTTTTACCCT
* *
46407642 CTGATTTACATAATTATCGTTTTACCCT
1 C-GATTTACAGAATTACCGTTTTACCCT
*
46407670 CGATTTATAGAATTACCGTTTTACCCT
1 CGATTTACAGAATTACCGTTTTACCCT
* *
46407697 CGATTTACAAAATTACCATTTTACCCT
1 CGATTTACAGAATTACCGTTTTACCCT
* * *
46407724 CGATTTATAGAATTACTGTTTCACCCT
1 CGATTTACAGAATTACCGTTTTACCCT
* *
46407751 TGATTTACAGAATTACTGTTTTACCCT
1 CGATTTACAGAATTACCGTTTTACCCT
*
46407778 CGATTTACAAAATTAC
1 CGATTTACAGAATTAC
46407794 TAAAATACCC
Statistics
Matches: 269, Mismatches: 34, Indels: 20
0.83 0.11 0.06
Matches are distributed among these distances:
25 2 0.01
26 4 0.01
27 257 0.96
28 4 0.01
29 2 0.01
ACGTcount: A:0.29, C:0.23, G:0.08, T:0.40
Consensus pattern (27 bp):
CGATTTACAGAATTACCGTTTTACCCT
Found at i:46407831 original size:81 final size:80
Alignment explanation
Indices: 46407583--46407837 Score: 192
Period size: 81 Copynumber: 3.1 Consensus size: 80
46407573 ATTACTATTT
* * * * * ***
46407583 TACCTTCGATTTATAGAATTACCATTTTACCC-CTAATTTACATAATTACCATTTTACCC-CTGA
1 TACCCTCGATTTACAGAATTACCGTTTTACCCTC-GATTTACAAAATTACCAAAATACCCTC-GA
* * * **
46407646 TTTACATAATTATCGTTT
64 TTTATAGAATTACCG-AA
* ***
46407664 TACCCTCGATTTATAGAATTACCGTTTTACCCTCGATTTACAAAATTACCATTTTACCCTCGATT
1 TACCCTCGATTTACAGAATTACCGTTTTACCCTCGATTTACAAAATTACCAAAATACCCTCGATT
* **
46407729 TATAGAATTACTGTT
66 TATAGAATTACCGAA
* * * * *
46407744 TCACCCTTGATTTACAGAATTACTGTTTTACCCTCGATTTACAAAATTACTAAAATACCCTTGGT
1 T-ACCCTCGATTTACAGAATTACCGTTTTACCCTCGATTTACAAAATTACCAAAATACCCTCGAT
*
46407809 TTGT-GAAATTACCGCAA
65 TTATAG-AATTACCG-AA
*
46407826 TACCCTCAATTT
1 TACCCTCGATTT
46407838 GTAAAACTAC
Statistics
Matches: 146, Mismatches: 23, Indels: 10
0.82 0.13 0.06
Matches are distributed among these distances:
80 4 0.03
81 139 0.95
82 3 0.02
ACGTcount: A:0.30, C:0.23, G:0.08, T:0.40
Consensus pattern (80 bp):
TACCCTCGATTTACAGAATTACCGTTTTACCCTCGATTTACAAAATTACCAAAATACCCTCGATT
TATAGAATTACCGAA
Found at i:46409129 original size:9 final size:9
Alignment explanation
Indices: 46409117--46409173 Score: 51
Period size: 9 Copynumber: 5.9 Consensus size: 9
46409107 TTTGATAAAC
46409117 ATGATATGT
1 ATGATATGT
*
46409126 ATGATATGCAC
1 ATGATATG--T
*
46409137 ATGACATGT
1 ATGATATGT
*
46409146 ATGATATGCAC
1 ATGATATG--T
46409157 ATGATATGT
1 ATGATATGT
46409166 ATGATATG
1 ATGATATG
46409174 CACACGAGCT
Statistics
Matches: 38, Mismatches: 6, Indels: 8
0.73 0.12 0.15
Matches are distributed among these distances:
9 23 0.61
11 15 0.39
ACGTcount: A:0.35, C:0.09, G:0.21, T:0.35
Consensus pattern (9 bp):
ATGATATGT
Found at i:46409140 original size:20 final size:20
Alignment explanation
Indices: 46409115--46409177 Score: 117
Period size: 20 Copynumber: 3.1 Consensus size: 20
46409105 ATTTTGATAA
46409115 ACATGATATGTATGATATGC
1 ACATGATATGTATGATATGC
*
46409135 ACATGACATGTATGATATGC
1 ACATGATATGTATGATATGC
46409155 ACATGATATGTATGATATGC
1 ACATGATATGTATGATATGC
46409175 ACA
1 ACA
46409178 CGAGCTGTTC
Statistics
Matches: 41, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
20 41 1.00
ACGTcount: A:0.37, C:0.13, G:0.19, T:0.32
Consensus pattern (20 bp):
ACATGATATGTATGATATGC
Found at i:46409288 original size:24 final size:24
Alignment explanation
Indices: 46409232--46409374 Score: 218
Period size: 24 Copynumber: 6.0 Consensus size: 24
46409222 GAGGAAGTGA
46409232 AAAAGGGCTTATGCCCCAGTTAT-
1 AAAAGGGCTTATGCCCCAGTTATC
*
46409255 TAAAGGGCTTATGCCCCAGTTATC
1 AAAAGGGCTTATGCCCCAGTTATC
46409279 AAAAGGGCTTATGCCCCAGTTATC
1 AAAAGGGCTTATGCCCCAGTTATC
46409303 AAAAGGGCTTATGCCCCAGTTATC
1 AAAAGGGCTTATGCCCCAGTTATC
* *
46409327 AAAAGGGCTTACGCCCCAGTTATT
1 AAAAGGGCTTATGCCCCAGTTATC
*
46409351 AAAAGAGGC-TAGGCCTCCAGTTAT
1 AAAAG-GGCTTATGCC-CCAGTTAT
46409375 ATGATAAAGC
Statistics
Matches: 112, Mismatches: 5, Indels: 4
0.93 0.04 0.03
Matches are distributed among these distances:
23 22 0.20
24 79 0.71
25 11 0.10
ACGTcount: A:0.29, C:0.24, G:0.22, T:0.25
Consensus pattern (24 bp):
AAAAGGGCTTATGCCCCAGTTATC
Found at i:46409601 original size:31 final size:31
Alignment explanation
Indices: 46409566--46409629 Score: 101
Period size: 31 Copynumber: 2.1 Consensus size: 31
46409556 CGTTTACCGT
*
46409566 AAAGGCTTCGGCCCAGTAATATGAAATTTGA
1 AAAGGCTTCGGCCCAGTAATATGAAATATGA
**
46409597 AAAGGCTTCGGCCCAGTGTTATGAAATATGA
1 AAAGGCTTCGGCCCAGTAATATGAAATATGA
46409628 AA
1 AA
46409630 TATTAAAAGG
Statistics
Matches: 30, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
31 30 1.00
ACGTcount: A:0.36, C:0.16, G:0.23, T:0.25
Consensus pattern (31 bp):
AAAGGCTTCGGCCCAGTAATATGAAATATGA
Found at i:46411905 original size:44 final size:43
Alignment explanation
Indices: 46411855--46411970 Score: 119
Period size: 44 Copynumber: 2.7 Consensus size: 43
46411845 ATGTGATATT
**
46411855 GTGTAAGACCACGTCTGGGACATTGGCATCGACT-TCTATTTTAC
1 GTGTAAGACCACGTCTGGGACATTGGCATCGA-TGT-TAGATTAC
* * *
46411899 GTGTAAGACC-CTCTCTGGGACAGTGGCATCGATGTTGGATTAC
1 GTGTAAGACCAC-GTCTGGGACATTGGCATCGATGTTAGATTAC
* * *
46411942 ATGTAAGACCACGTCTGGAACGTTGGCAT
1 GTGTAAGACCACGTCTGGGACATTGGCAT
46411971 TGTATATGCT
Statistics
Matches: 59, Mismatches: 10, Indels: 7
0.78 0.13 0.09
Matches are distributed among these distances:
43 29 0.49
44 30 0.51
ACGTcount: A:0.23, C:0.22, G:0.27, T:0.28
Consensus pattern (43 bp):
GTGTAAGACCACGTCTGGGACATTGGCATCGATGTTAGATTAC
Found at i:46411969 original size:43 final size:44
Alignment explanation
Indices: 46411856--46411970 Score: 112
Period size: 43 Copynumber: 2.6 Consensus size: 44
46411846 TGTGATATTG
* ** *
46411856 TGTAAGACCACGTCTGGGACATTGGCATCGACTTCTATTTTACG
1 TGTAAGACCACGTCTGGGACGTTGGCATCGACTTCTAGATTACA
* *
46411900 TGTAAGACC-CTCTCTGGGACAG-TGGCATCGA-TGT-TGGATTACA
1 TGTAAGACCAC-GTCTGGGAC-GTTGGCATCGACT-TCTAGATTACA
*
46411943 TGTAAGACCACGTCTGGAACGTTGGCAT
1 TGTAAGACCACGTCTGGGACGTTGGCAT
46411971 TGTATATGCT
Statistics
Matches: 58, Mismatches: 8, Indels: 11
0.75 0.10 0.14
Matches are distributed among these distances:
42 1 0.02
43 29 0.50
44 28 0.48
ACGTcount: A:0.23, C:0.22, G:0.26, T:0.29
Consensus pattern (44 bp):
TGTAAGACCACGTCTGGGACGTTGGCATCGACTTCTAGATTACA
Found at i:46418922 original size:15 final size:15
Alignment explanation
Indices: 46418902--46418937 Score: 72
Period size: 15 Copynumber: 2.4 Consensus size: 15
46418892 GAATTTTTGA
46418902 TTGAATAAATTAAAT
1 TTGAATAAATTAAAT
46418917 TTGAATAAATTAAAT
1 TTGAATAAATTAAAT
46418932 TTGAAT
1 TTGAAT
46418938 TTATATAGAT
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 21 1.00
ACGTcount: A:0.50, C:0.00, G:0.08, T:0.42
Consensus pattern (15 bp):
TTGAATAAATTAAAT
Found at i:46422977 original size:25 final size:25
Alignment explanation
Indices: 46422943--46422992 Score: 100
Period size: 25 Copynumber: 2.0 Consensus size: 25
46422933 AATCAGTGCA
46422943 TGTATAATCATCTAAGGTAGCTGAG
1 TGTATAATCATCTAAGGTAGCTGAG
46422968 TGTATAATCATCTAAGGTAGCTGAG
1 TGTATAATCATCTAAGGTAGCTGAG
46422993 AGTTAAATTA
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
25 25 1.00
ACGTcount: A:0.32, C:0.12, G:0.24, T:0.32
Consensus pattern (25 bp):
TGTATAATCATCTAAGGTAGCTGAG
Found at i:46427588 original size:2 final size:2
Alignment explanation
Indices: 46427581--46427610 Score: 60
Period size: 2 Copynumber: 15.0 Consensus size: 2
46427571 ACATTCGGTC
46427581 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
46427611 GCATGTGTGA
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 28 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:46428127 original size:29 final size:29
Alignment explanation
Indices: 46428066--46428164 Score: 168
Period size: 28 Copynumber: 3.5 Consensus size: 29
46428056 AATGAGATTG
46428066 GCACTAAGTGTGCGAGTTT-AATTGTATA
1 GCACTAAGTGTGCGAGTTTGAATTGTATA
46428094 GCACTAAGTGTGCGAGTTTGAATTGTATA
1 GCACTAAGTGTGCGAGTTTGAATTGTATA
46428123 GCACTAAGTGTGCGAGTTTGAATAT-TA-A
1 GCACTAAGTGTGCGAGTTTGAAT-TGTATA
46428151 GCACTAAGTGTGCG
1 GCACTAAGTGTGCG
46428165 GACTTACTGT
Statistics
Matches: 69, Mismatches: 0, Indels: 4
0.95 0.00 0.05
Matches are distributed among these distances:
28 34 0.49
29 34 0.49
30 1 0.01
ACGTcount: A:0.28, C:0.12, G:0.27, T:0.32
Consensus pattern (29 bp):
GCACTAAGTGTGCGAGTTTGAATTGTATA
Found at i:46433099 original size:20 final size:20
Alignment explanation
Indices: 46433075--46433123 Score: 71
Period size: 20 Copynumber: 2.5 Consensus size: 20
46433065 GAACCACTCT
46433075 ATTTACTTACTTACCATTCC
1 ATTTACTTACTTACCATTCC
* * *
46433095 GTTTACTTACTTTCCATTTC
1 ATTTACTTACTTACCATTCC
46433115 ATTTACTTA
1 ATTTACTTA
46433124 GCATAAGCTT
Statistics
Matches: 25, Mismatches: 4, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
20 25 1.00
ACGTcount: A:0.22, C:0.24, G:0.02, T:0.51
Consensus pattern (20 bp):
ATTTACTTACTTACCATTCC
Found at i:46438303 original size:35 final size:35
Alignment explanation
Indices: 46438261--46438333 Score: 137
Period size: 35 Copynumber: 2.1 Consensus size: 35
46438251 TAAAGCCGAA
46438261 TGGCTAATGTGAAATATGTATGAGATATGTATAAG
1 TGGCTAATGTGAAATATGTATGAGATATGTATAAG
*
46438296 TGGCTAATGTGAAATATGTATGAGATATGTATATG
1 TGGCTAATGTGAAATATGTATGAGATATGTATAAG
46438331 TGG
1 TGG
46438334 TAAAGCCGAA
Statistics
Matches: 37, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
35 37 1.00
ACGTcount: A:0.34, C:0.03, G:0.27, T:0.36
Consensus pattern (35 bp):
TGGCTAATGTGAAATATGTATGAGATATGTATAAG
Found at i:46438351 original size:48 final size:48
Alignment explanation
Indices: 46438296--46438664 Score: 657
Period size: 48 Copynumber: 7.6 Consensus size: 48
46438286 TATGTATAAG
46438296 TGGCTAATGTGAAATATGTATGAGATATGTATATGTGGTAAAGCCGAA
1 TGGCTAATGTGAAATATGTATGAGATATGTATATGTGGTAAAGCCGAA
*
46438344 TGGCTAATGTGAAATATATATGAGATATGTATATGTGGTAAAGCCGAA
1 TGGCTAATGTGAAATATGTATGAGATATGTATATGTGGTAAAGCCGAA
* *
46438392 TGGCTAATGTGAAATATGTATGAGAAATGTATATATGTGGTAAAGTCGAA
1 TGGCTAATGTGAAATATGTATGAGATATG--TATATGTGGTAAAGCCGAA
* *
46438442 TGGCTAATGTGAAATATGTATGAGAAATGTATATATGTGGTAAAGCCAAA
1 TGGCTAATGTGAAATATGTATGAGATATG--TATATGTGGTAAAGCCGAA
46438492 TGGCTAATGTGAAATATGTATGAGATATGTATATGTGGTAAAGCCGAA
1 TGGCTAATGTGAAATATGTATGAGATATGTATATGTGGTAAAGCCGAA
46438540 TGGCTAATGTGAAATATGTATGAGATATGTATATGTGGTAAAGCCGAA
1 TGGCTAATGTGAAATATGTATGAGATATGTATATGTGGTAAAGCCGAA
46438588 TGGCTAATGTGAAATATGTATGAGATATGTATATGTGGTAAAGCCGAA
1 TGGCTAATGTGAAATATGTATGAGATATGTATATGTGGTAAAGCCGAA
46438636 TGGCTAATGTGAAATATGTATGAGATATG
1 TGGCTAATGTGAAATATGTATGAGATATG
46438665 GCTAATGTGA
Statistics
Matches: 311, Mismatches: 8, Indels: 4
0.96 0.02 0.01
Matches are distributed among these distances:
48 217 0.70
50 94 0.30
ACGTcount: A:0.37, C:0.06, G:0.26, T:0.31
Consensus pattern (48 bp):
TGGCTAATGTGAAATATGTATGAGATATGTATATGTGGTAAAGCCGAA
Found at i:46438366 original size:83 final size:83
Alignment explanation
Indices: 46438224--46438381 Score: 280
Period size: 83 Copynumber: 1.9 Consensus size: 83
46438214 TGTACAAGAT
*
46438224 AAATATATATGAGATATGTATATGCGGTAAAGCCGAATGGCTAATGTGAAATATGTATGAGATAT
1 AAATATATATGAGATATGTATATGCGGTAAAGCCGAATGGCTAATGTGAAATATATATGAGATAT
46438289 GTATAAGTGGCTAATGTG
66 GTATAAGTGGCTAATGTG
* *
46438307 AAATATGTATGAGATATGTATATGTGGTAAAGCCGAATGGCTAATGTGAAATATATATGAGATAT
1 AAATATATATGAGATATGTATATGCGGTAAAGCCGAATGGCTAATGTGAAATATATATGAGATAT
*
46438372 GTATATGTGG
66 GTATAAGTGG
46438382 TAAAGCCGAA
Statistics
Matches: 71, Mismatches: 4, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
83 71 1.00
ACGTcount: A:0.37, C:0.05, G:0.25, T:0.32
Consensus pattern (83 bp):
AAATATATATGAGATATGTATATGCGGTAAAGCCGAATGGCTAATGTGAAATATATATGAGATAT
GTATAAGTGGCTAATGTG
Found at i:46438665 original size:27 final size:27
Alignment explanation
Indices: 46438635--46438691 Score: 114
Period size: 27 Copynumber: 2.1 Consensus size: 27
46438625 GTAAAGCCGA
46438635 ATGGCTAATGTGAAATATGTATGAGAT
1 ATGGCTAATGTGAAATATGTATGAGAT
46438662 ATGGCTAATGTGAAATATGTATGAGAT
1 ATGGCTAATGTGAAATATGTATGAGAT
46438689 ATG
1 ATG
46438692 TATATGTGGT
Statistics
Matches: 30, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
27 30 1.00
ACGTcount: A:0.37, C:0.04, G:0.26, T:0.33
Consensus pattern (27 bp):
ATGGCTAATGTGAAATATGTATGAGAT
Found at i:46438673 original size:75 final size:75
Alignment explanation
Indices: 46438587--46438730 Score: 270
Period size: 75 Copynumber: 1.9 Consensus size: 75
46438577 GTAAAGCCGA
*
46438587 ATGGCTAATGTGAAATATGTATGAGATATGTATATGTGGTAAAGCCGAATGGCTAATGTGAAATA
1 ATGGCTAATGTGAAATATGTATGAGATATGTATATGTGGTAAACCCGAATGGCTAATGTGAAATA
46438652 TGTATGAGAT
66 TGTATGAGAT
*
46438662 ATGGCTAATGTGAAATATGTATGAGATATGTATATGTGGTAAACCCGAATGGCTAGTGTGAAATA
1 ATGGCTAATGTGAAATATGTATGAGATATGTATATGTGGTAAACCCGAATGGCTAATGTGAAATA
46438727 TGTA
66 TGTA
46438731 GAAGATGTGT
Statistics
Matches: 67, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
75 67 1.00
ACGTcount: A:0.35, C:0.06, G:0.26, T:0.32
Consensus pattern (75 bp):
ATGGCTAATGTGAAATATGTATGAGATATGTATATGTGGTAAACCCGAATGGCTAATGTGAAATA
TGTATGAGAT
Found at i:46445421 original size:65 final size:65
Alignment explanation
Indices: 46445314--46445469 Score: 231
Period size: 65 Copynumber: 2.4 Consensus size: 65
46445304 GGCGCTTACT
* ** *
46445314 GCATGTATAAGGCCTATGGCAGTTGATGGGAATAGTGTAACTTATGCGACTAACTAGCGCGTATA
1 GCATGTATAAGGCCCATGATAGTTGATGGGAATAGTGAAACTTATGCGACTAACTAGCGCGTATA
* * * *
46445379 GCATGTATAAGGCCCATGATTGTTGATGGGGATAGTGAAACTTGTGCGACTAACTAGCGCGTATT
1 GCATGTATAAGGCCCATGATAGTTGATGGGAATAGTGAAACTTATGCGACTAACTAGCGCGTATA
*
46445444 GCATGTATAATGCCCATGATAGTTGA
1 GCATGTATAAGGCCCATGATAGTTGA
46445470 CTTGAACTCA
Statistics
Matches: 81, Mismatches: 10, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
65 81 1.00
ACGTcount: A:0.28, C:0.15, G:0.28, T:0.29
Consensus pattern (65 bp):
GCATGTATAAGGCCCATGATAGTTGATGGGAATAGTGAAACTTATGCGACTAACTAGCGCGTATA
Found at i:46448396 original size:40 final size:40
Alignment explanation
Indices: 46448332--46448471 Score: 203
Period size: 40 Copynumber: 3.5 Consensus size: 40
46448322 AACCCAAGTA
* *
46448332 CCTTTGGGATTTAG-CCGGATATAGCAACTCGCACAAATG
1 CCTTCGGGACTTAGCCCGGATATAGCAACTCGCACAAATG
46448371 CCTTCGGGACTTAGCCCGGATATAGCAACTCGCACAAATG
1 CCTTCGGGACTTAGCCCGGATATAGCAACTCGCACAAATG
* *
46448411 CCTTCGGGACTTAGCCAGGATATAGTC-ACTAGCACAAATG
1 CCTTCGGGACTTAGCCCGGATATAG-CAACTCGCACAAATG
* *
46448451 CCTTCGAGAATTAGCCCGGAT
1 CCTTCGGGACTTAGCCCGGAT
46448472 GCCTTCGAGA
Statistics
Matches: 92, Mismatches: 7, Indels: 3
0.90 0.07 0.03
Matches are distributed among these distances:
39 12 0.13
40 79 0.86
41 1 0.01
ACGTcount: A:0.28, C:0.26, G:0.23, T:0.23
Consensus pattern (40 bp):
CCTTCGGGACTTAGCCCGGATATAGCAACTCGCACAAATG
Found at i:46448473 original size:22 final size:22
Alignment explanation
Indices: 46448448--46448493 Score: 92
Period size: 22 Copynumber: 2.1 Consensus size: 22
46448438 ACTAGCACAA
46448448 ATGCCTTCGAGAATTAGCCCGG
1 ATGCCTTCGAGAATTAGCCCGG
46448470 ATGCCTTCGAGAATTAGCCCGG
1 ATGCCTTCGAGAATTAGCCCGG
46448492 AT
1 AT
46448494 ATAGTCACTA
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
22 24 1.00
ACGTcount: A:0.24, C:0.26, G:0.26, T:0.24
Consensus pattern (22 bp):
ATGCCTTCGAGAATTAGCCCGG
Found at i:46448505 original size:62 final size:62
Alignment explanation
Indices: 46448408--46448533 Score: 216
Period size: 62 Copynumber: 2.0 Consensus size: 62
46448398 ACTCGCACAA
* *
46448408 ATGCCTTCGGGACTTAGCCAGGATATAGTCACTAGCACAAATGCCTTCGAGAATTAGCCCGG
1 ATGCCTTCGAGAATTAGCCAGGATATAGTCACTAGCACAAATGCCTTCGAGAATTAGCCCGG
* *
46448470 ATGCCTTCGAGAATTAGCCCGGATATAGTCACTAGCACAAATGCCTTCGGGAATTAGCCCGG
1 ATGCCTTCGAGAATTAGCCAGGATATAGTCACTAGCACAAATGCCTTCGAGAATTAGCCCGG
46448532 AT
1 AT
46448534 ATAGTCACTA
Statistics
Matches: 60, Mismatches: 4, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
62 60 1.00
ACGTcount: A:0.28, C:0.25, G:0.24, T:0.23
Consensus pattern (62 bp):
ATGCCTTCGAGAATTAGCCAGGATATAGTCACTAGCACAAATGCCTTCGAGAATTAGCCCGG
Found at i:46448525 original size:40 final size:40
Alignment explanation
Indices: 46448470--46448559 Score: 171
Period size: 40 Copynumber: 2.2 Consensus size: 40
46448460 ATTAGCCCGG
*
46448470 ATGCCTTCGAGAATTAGCCCGGATATAGTCACTAGCACAA
1 ATGCCTTCGGGAATTAGCCCGGATATAGTCACTAGCACAA
46448510 ATGCCTTCGGGAATTAGCCCGGATATAGTCACTAGCACAA
1 ATGCCTTCGGGAATTAGCCCGGATATAGTCACTAGCACAA
46448550 ATGCCTTCGG
1 ATGCCTTCGG
46448560 ATCTTAGTCC
Statistics
Matches: 49, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
40 49 1.00
ACGTcount: A:0.29, C:0.26, G:0.22, T:0.23
Consensus pattern (40 bp):
ATGCCTTCGGGAATTAGCCCGGATATAGTCACTAGCACAA
Found at i:46448544 original size:102 final size:102
Alignment explanation
Indices: 46448368--46448558 Score: 321
Period size: 102 Copynumber: 1.9 Consensus size: 102
46448358 ACTCGCACAA
* * * *
46448368 ATGCCTTCGGGACTTAGCCCGGATATAGCAACTCGCACAAATGCCTTCGGGACTTAGCCAGGATA
1 ATGCCTTCGAGAATTAGCCCGGATATAGCAACTAGCACAAATGCCTTCGGGAATTAGCCAGGATA
46448433 TAGTCACTAGCACAAATGCCTTCGAGAATTAGCCCGG
66 TAGTCACTAGCACAAATGCCTTCGAGAATTAGCCCGG
*
46448470 ATGCCTTCGAGAATTAGCCCGGATATAGTC-ACTAGCACAAATGCCTTCGGGAATTAGCCCGGAT
1 ATGCCTTCGAGAATTAGCCCGGATATAG-CAACTAGCACAAATGCCTTCGGGAATTAGCCAGGAT
46448534 ATAGTCACTAGCACAAATGCCTTCG
65 ATAGTCACTAGCACAAATGCCTTCG
46448559 GATCTTAGTC
Statistics
Matches: 83, Mismatches: 5, Indels: 2
0.92 0.06 0.02
Matches are distributed among these distances:
102 82 0.99
103 1 0.01
ACGTcount: A:0.28, C:0.27, G:0.23, T:0.23
Consensus pattern (102 bp):
ATGCCTTCGAGAATTAGCCCGGATATAGCAACTAGCACAAATGCCTTCGGGAATTAGCCAGGATA
TAGTCACTAGCACAAATGCCTTCGAGAATTAGCCCGG
Found at i:46456259 original size:15 final size:15
Alignment explanation
Indices: 46456239--46456268 Score: 60
Period size: 15 Copynumber: 2.0 Consensus size: 15
46456229 CTTCACGCTT
46456239 CAACCATTATATTCA
1 CAACCATTATATTCA
46456254 CAACCATTATATTCA
1 CAACCATTATATTCA
46456269 TACACTCAGG
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 15 1.00
ACGTcount: A:0.40, C:0.27, G:0.00, T:0.33
Consensus pattern (15 bp):
CAACCATTATATTCA
Found at i:46456508 original size:40 final size:40
Alignment explanation
Indices: 46456444--46456608 Score: 246
Period size: 40 Copynumber: 4.2 Consensus size: 40
46456434 AACCCAAGTA
* *
46456444 CCTTCGGGATTTAG-CCGGATATAG-CAACTCGCACAAATG
1 CCTTCGGGACTTAGCCCGGATATAGTC-ACTAGCACAAATG
* *
46456483 CCTTTGGGACTTAGCCCGGATATAG-CAACTCGCACAAATG
1 CCTTCGGGACTTAGCCCGGATATAGTC-ACTAGCACAAATG
46456523 CCTTCGGGACTTAGCCCGGATATAGTCACTAGCACAAATG
1 CCTTCGGGACTTAGCCCGGATATAGTCACTAGCACAAATG
*
46456563 CCTTCGGGAATTAGCCCGGATATAGTCACTAGCACAAATG
1 CCTTCGGGACTTAGCCCGGATATAGTCACTAGCACAAATG
46456603 CCTTCG
1 CCTTCG
46456609 AATCTTAGTC
Statistics
Matches: 119, Mismatches: 5, Indels: 3
0.94 0.04 0.02
Matches are distributed among these distances:
39 12 0.10
40 106 0.89
41 1 0.01
ACGTcount: A:0.27, C:0.27, G:0.22, T:0.23
Consensus pattern (40 bp):
CCTTCGGGACTTAGCCCGGATATAGTCACTAGCACAAATG
Found at i:46460542 original size:17 final size:18
Alignment explanation
Indices: 46460501--46460543 Score: 61
Period size: 19 Copynumber: 2.3 Consensus size: 18
46460491 CAAAAAGTTC
46460501 AAAAAAAAAGAGAAAAAT
1 AAAAAAAAAGAGAAAAAT
46460519 AAGAAAAAAAGA-AAACAAT
1 AA-AAAAAAAGAGAAA-AAT
46460538 AAAAAA
1 AAAAAA
46460544 TATTTTGCAG
Statistics
Matches: 23, Mismatches: 0, Indels: 4
0.85 0.00 0.15
Matches are distributed among these distances:
18 9 0.39
19 14 0.61
ACGTcount: A:0.84, C:0.02, G:0.09, T:0.05
Consensus pattern (18 bp):
AAAAAAAAAGAGAAAAAT
Found at i:46464584 original size:40 final size:41
Alignment explanation
Indices: 46464513--46464604 Score: 111
Period size: 40 Copynumber: 2.3 Consensus size: 41
46464503 CACATTTAAA
* *
46464513 CCGAAGCTA-TCTCAGTATCGCACACTTAGTGCCTCA-TATAG
1 CCGAAGCTATTCTCAATATCGCACACTAAGTG-CT-ATTATAG
46464554 CCGAAGCTATTC-CAAT-TCGCACACTAAGTGCTATTTATAG
1 CCGAAGCTATTCTCAATATCGCACACTAAGTGCTA-TTATAG
46464594 CCGAAGCTATT
1 CCGAAGCTATT
46464605 TTGAAACGCA
Statistics
Matches: 46, Mismatches: 2, Indels: 7
0.84 0.04 0.13
Matches are distributed among these distances:
38 1 0.02
39 2 0.04
40 29 0.63
41 12 0.26
42 2 0.04
ACGTcount: A:0.28, C:0.27, G:0.16, T:0.28
Consensus pattern (41 bp):
CCGAAGCTATTCTCAATATCGCACACTAAGTGCTATTATAG
Found at i:46464615 original size:40 final size:40
Alignment explanation
Indices: 46464549--46464624 Score: 100
Period size: 40 Copynumber: 1.9 Consensus size: 40
46464539 TAGTGCCTCA
* *
46464549 TATAGCCGAAGCTATTCCAATTCGCACACTAAGTGCTATT
1 TATAGCCGAAGCTATTCCAATACGCACAATAAGTGCTATT
**
46464589 TATAGCCGAAGCTATTTTGAA-ACGCACAATAAGTGC
1 TATAGCCGAAGCTA-TTCCAATACGCACAATAAGTGC
46464625 CAAACATAGT
Statistics
Matches: 31, Mismatches: 4, Indels: 2
0.84 0.11 0.05
Matches are distributed among these distances:
40 27 0.87
41 4 0.13
ACGTcount: A:0.33, C:0.22, G:0.17, T:0.28
Consensus pattern (40 bp):
TATAGCCGAAGCTATTCCAATACGCACAATAAGTGCTATT
Found at i:46465099 original size:29 final size:29
Alignment explanation
Indices: 46465035--46465100 Score: 71
Period size: 29 Copynumber: 2.3 Consensus size: 29
46465025 CTTTCATTTA
* *
46465035 TTTCACAATTTAACCCCTCAATTTACACT
1 TTTCTCAATTTAACCCCTCAATATACACT
* * *
46465064 TTTCTCAATTTAATCCCT-AATATGCATT
1 TTTCTCAATTTAACCCCTCAATATACACT
46465092 TTTACTCAA
1 TTT-CTCAA
46465101 AATCACTTTA
Statistics
Matches: 31, Mismatches: 5, Indels: 2
0.82 0.13 0.05
Matches are distributed among these distances:
28 10 0.32
29 21 0.68
ACGTcount: A:0.30, C:0.26, G:0.02, T:0.42
Consensus pattern (29 bp):
TTTCTCAATTTAACCCCTCAATATACACT
Found at i:46467997 original size:33 final size:33
Alignment explanation
Indices: 46467954--46468129 Score: 298
Period size: 33 Copynumber: 5.3 Consensus size: 33
46467944 ATAACATAGC
*
46467954 ATCAGCACAGTCTGGGCCAAAGCCCTACTCAGT
1 ATCAGCACAGTCTGGGCCAAAGCCCTATTCAGT
*
46467987 ATCAGTACAGTCTGGGCCAAAGCCCTATTCAGT
1 ATCAGCACAGTCTGGGCCAAAGCCCTATTCAGT
*
46468020 ATCAGCACAGTCTGGGCCAAAGCCCTACTCAGT
1 ATCAGCACAGTCTGGGCCAAAGCCCTATTCAGT
* *
46468053 ATCAGTATAGTCTGGGCCAAAGCCCTATTCAGT
1 ATCAGCACAGTCTGGGCCAAAGCCCTATTCAGT
46468086 ATCAGCACAGTCTGGGCCAAAGCCCTATTCAGT
1 ATCAGCACAGTCTGGGCCAAAGCCCTATTCAGT
*
46468119 ATCAGTACAGT
1 ATCAGCACAGT
46468130 GCAAAATGCA
Statistics
Matches: 133, Mismatches: 10, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
33 133 1.00
ACGTcount: A:0.28, C:0.29, G:0.21, T:0.22
Consensus pattern (33 bp):
ATCAGCACAGTCTGGGCCAAAGCCCTATTCAGT
Found at i:46468034 original size:66 final size:66
Alignment explanation
Indices: 46467954--46468129 Score: 334
Period size: 66 Copynumber: 2.7 Consensus size: 66
46467944 ATAACATAGC
46467954 ATCAGCACAGTCTGGGCCAAAGCCCTACTCAGTATCAGTACAGTCTGGGCCAAAGCCCTATTCAG
1 ATCAGCACAGTCTGGGCCAAAGCCCTACTCAGTATCAGTACAGTCTGGGCCAAAGCCCTATTCAG
46468019 T
66 T
*
46468020 ATCAGCACAGTCTGGGCCAAAGCCCTACTCAGTATCAGTATAGTCTGGGCCAAAGCCCTATTCAG
1 ATCAGCACAGTCTGGGCCAAAGCCCTACTCAGTATCAGTACAGTCTGGGCCAAAGCCCTATTCAG
46468085 T
66 T
*
46468086 ATCAGCACAGTCTGGGCCAAAGCCCTATTCAGTATCAGTACAGT
1 ATCAGCACAGTCTGGGCCAAAGCCCTACTCAGTATCAGTACAGT
46468130 GCAAAATGCA
Statistics
Matches: 107, Mismatches: 3, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
66 107 1.00
ACGTcount: A:0.28, C:0.29, G:0.21, T:0.22
Consensus pattern (66 bp):
ATCAGCACAGTCTGGGCCAAAGCCCTACTCAGTATCAGTACAGTCTGGGCCAAAGCCCTATTCAG
T
Found at i:46473021 original size:17 final size:18
Alignment explanation
Indices: 46472979--46473027 Score: 50
Period size: 17 Copynumber: 2.8 Consensus size: 18
46472969 AGTTGAAAAG
46472979 GAGCATGATTGTCATACTT
1 GAGCATGA-TGTCATACTT
*
46472998 G-GCCATGATG-CATTCTT
1 GAG-CATGATGTCATACTT
46473015 GAGCATGAT-TCAT
1 GAGCATGATGTCAT
46473028 GCTTCTTGCA
Statistics
Matches: 26, Mismatches: 1, Indels: 8
0.74 0.03 0.23
Matches are distributed among these distances:
17 16 0.62
18 4 0.15
19 6 0.23
ACGTcount: A:0.24, C:0.18, G:0.22, T:0.35
Consensus pattern (18 bp):
GAGCATGATGTCATACTT
Found at i:46473916 original size:40 final size:40
Alignment explanation
Indices: 46473850--46474016 Score: 169
Period size: 40 Copynumber: 4.2 Consensus size: 40
46473840 AAATTGAATG
* * *
46473850 ATATCCGGGCTAAG-CCCGAAGACAATTATGCTGGAAATT
1 ATATCCGGGCTAAGACCCGAAGGCAATTGTGCTGGTAATT
* * **
46473889 ATATCCGGGTTAAGACCCGAAGGCAATTGTGCTAGTGGTT
1 ATATCCGGGCTAAGACCCGAAGGCAATTGTGCTGGTAATT
* *
46473929 ATATCCGGGCTAAGGCCCGAAGGC-ATTCGTGC-GAGTTATT
1 ATATCCGGGCTAAGACCCGAAGGCAATT-GTGCTG-GTAATT
* * ** *
46473969 CTATCCGGGCTAAGACCCGAAGGCATTTGTGCACGTGATT
1 ATATCCGGGCTAAGACCCGAAGGCAATTGTGCTGGTAATT
46474009 ATATCCGG
1 ATATCCGG
46474017 TTATATTCCG
Statistics
Matches: 105, Mismatches: 18, Indels: 9
0.80 0.14 0.07
Matches are distributed among these distances:
39 16 0.15
40 87 0.83
41 2 0.02
ACGTcount: A:0.26, C:0.22, G:0.28, T:0.25
Consensus pattern (40 bp):
ATATCCGGGCTAAGACCCGAAGGCAATTGTGCTGGTAATT
Found at i:46480542 original size:30 final size:31
Alignment explanation
Indices: 46480482--46480544 Score: 101
Period size: 31 Copynumber: 2.1 Consensus size: 31
46480472 CGTTTACAGT
46480482 AAAGGCTTCGGCCCAGTAATATGAAATATGA
1 AAAGGCTTCGGCCCAGTAATATGAAATATGA
**
46480513 AAAGGCTTCGGCCCAGTGTTATG-AATATGA
1 AAAGGCTTCGGCCCAGTAATATGAAATATGA
46480543 AA
1 AA
46480545 TATGAAAAGG
Statistics
Matches: 30, Mismatches: 2, Indels: 1
0.91 0.06 0.03
Matches are distributed among these distances:
30 9 0.30
31 21 0.70
ACGTcount: A:0.37, C:0.16, G:0.24, T:0.24
Consensus pattern (31 bp):
AAAGGCTTCGGCCCAGTAATATGAAATATGA
Found at i:46483403 original size:27 final size:27
Alignment explanation
Indices: 46483327--46483416 Score: 119
Period size: 27 Copynumber: 3.3 Consensus size: 27
46483317 TTTAGTTTAC
* *
46483327 TAAAATTACCGAAATACCCTTAG-TTTG
1 TAAAATTACTGAAATA-CCTTCGATTTG
* *
46483354 TAAAAATACTGAAATACCCTCGATTTG
1 TAAAATTACTGAAATACCTTCGATTTG
*
46483381 TAAAATTACTGAAATACCTTCGACTTG
1 TAAAATTACTGAAATACCTTCGATTTG
46483408 TAAAATTAC
1 TAAAATTAC
46483417 CAAAGTACCC
Statistics
Matches: 55, Mismatches: 7, Indels: 2
0.86 0.11 0.03
Matches are distributed among these distances:
26 4 0.07
27 51 0.93
ACGTcount: A:0.40, C:0.18, G:0.10, T:0.32
Consensus pattern (27 bp):
TAAAATTACTGAAATACCTTCGATTTG
Found at i:46483426 original size:54 final size:54
Alignment explanation
Indices: 46483327--46483433 Score: 128
Period size: 54 Copynumber: 2.0 Consensus size: 54
46483317 TTTAGTTTAC
* * *
46483327 TAAAATTACCGAAATACCCTTAGTTTGTAAAAATACTGAAATACCCTCGATTTG
1 TAAAATTACCGAAATACCCTTAGCTTGTAAAAATACTCAAATACCCCCGATTTG
* * *
46483381 TAAAATTACTGAAATA-CCTTCGACTTGTAAAATTAC-CAAAGTACCCCCGATTT
1 TAAAATTACCGAAATACCCTTAG-CTTGTAAAAATACTCAAA-TACCCCCGATTT
46483434 ACAGAATTAT
Statistics
Matches: 45, Mismatches: 6, Indels: 4
0.82 0.11 0.07
Matches are distributed among these distances:
53 8 0.18
54 37 0.82
ACGTcount: A:0.38, C:0.21, G:0.10, T:0.31
Consensus pattern (54 bp):
TAAAATTACCGAAATACCCTTAGCTTGTAAAAATACTCAAATACCCCCGATTTG
Found at i:46483452 original size:27 final size:26
Alignment explanation
Indices: 46483422--46483631 Score: 253
Period size: 27 Copynumber: 7.8 Consensus size: 26
46483412 ATTACCAAAG
*
46483422 TACCCCCGATTTACAGAATTATCGTTT
1 TACCCTCGATTTACAGAATTA-CGTTT
*
46483449 TACCC-CGATTTACATAATTACCGTTT
1 TACCCTCGATTTACAGAATTA-CGTTT
*
46483475 TACCC-CTGATTTACATAATTATCGTTT
1 TACCCTC-GATTTACAGAATTA-CGTTT
*
46483502 TACCCTCGACTTACAGAATTACCGTTT
1 TACCCTCGATTTACAGAATTA-CGTTT
46483529 TACCCTCGATTTACAGAATTACAGTTT
1 TACCCTCGATTTACAGAATTAC-GTTT
* *
46483556 TACCCTCGATTTATAGAATTACTATTT
1 TACCCTCGATTTACAGAATTAC-GTTT
* *
46483583 TACCCTTGATTTACAGAATTACTATTT
1 TACCCTCGATTTACAGAATTAC-GTTT
*
46483610 TACCCTCGATTTACAAAATTAC
1 TACCCTCGATTTACAGAATTAC
46483632 TAAAATACCC
Statistics
Matches: 166, Mismatches: 14, Indels: 6
0.89 0.08 0.03
Matches are distributed among these distances:
26 26 0.16
27 139 0.84
28 1 0.01
ACGTcount: A:0.29, C:0.24, G:0.09, T:0.39
Consensus pattern (26 bp):
TACCCTCGATTTACAGAATTACGTTT
Found at i:46483640 original size:27 final size:27
Alignment explanation
Indices: 46483529--46483779 Score: 118
Period size: 27 Copynumber: 9.2 Consensus size: 27
46483519 ATTACCGTTT
* ***
46483529 TACCCTCGATTTACAGAATTAC-AGTTT
1 TACCCTCGATTTACAAAATTACTA-AAA
* * ***
46483556 TACCCTCGATTTATAGAATTACTATTT
1 TACCCTCGATTTACAAAATTACTAAAA
* * ***
46483583 TACCCTTGATTTACAGAATTACTATTT
1 TACCCTCGATTTACAAAATTACTAAAA
46483610 TACCCTCGATTTACAAAATTACTAAAA
1 TACCCTCGATTTACAAAATTACTAAAA
* *** **
46483637 TACCCT-TAGTTTGTGAAATTACCGAAA
1 TACCCTCGA-TTTACAAAATTACTAAAA
* ** *
46483664 TACCCTCAATTTGTAAAATTACCAAAA
1 TACCCTCGATTTACAAAATTACTAAAA
*
46483691 TACCC-CTGATTTACAAAGTTAC-AGAAA
1 TACCCTC-GATTTACAAAATTACTA-AAA
*
46483718 TACCCTTGACTTT-CTAAAAATTA-TAGAAA
1 TACCCTCGA-TTTAC--AAAATTACTA-AAA
* * * *
46483747 TACCATTGGTTTACAAAATTACTGAAA
1 TACCCTCGATTTACAAAATTACTAAAA
46483774 TACCCT
1 TACCCT
46483780 TGGTTTGTAG
Statistics
Matches: 185, Mismatches: 27, Indels: 24
0.78 0.11 0.10
Matches are distributed among these distances:
26 3 0.02
27 154 0.83
28 9 0.05
29 19 0.10
ACGTcount: A:0.37, C:0.20, G:0.08, T:0.35
Consensus pattern (27 bp):
TACCCTCGATTTACAAAATTACTAAAA
Found at i:46483641 original size:81 final size:81
Alignment explanation
Indices: 46483368--46483642 Score: 218
Period size: 81 Copynumber: 3.4 Consensus size: 81
46483358 AATACTGAAA
** * * * * * *** *
46483368 TACCCTCGATTTGTAAAATTACTGAAATACCTTCGACTTGTAAAATTACCAAAGTACCCCCGATT
1 TACCCTCGATTTACAAAATTACTAAAATACCCTCGATTTATAAAATTACTATTTTACCCTCGATT
46483433 TACAGAATTA-TCGTTT
66 TACAGAATTACT-GTTT
* ***** * * *
46483449 TACCC-CGATTTACATAATTACCGTTTTACCC-CTGATTTACATAATTA-TCGTTTTACCCTCGA
1 TACCCTCGATTTACAAAATTACTAAAATACCCTC-GATTTATAAAATTACT-ATTTTACCCTCGA
* *
46483511 CTTACAGAATTACCGTTT
64 TTTACAGAATTACTGTTT
* *** * *
46483529 TACCCTCGATTTACAGAATTAC-AGTTTTACCCTCGATTTATAGAATTACTATTTTACCCTTGAT
1 TACCCTCGATTTACAAAATTACTA-AAATACCCTCGATTTATAAAATTACTATTTTACCCTCGAT
*
46483593 TTACAGAATTACTATTT
65 TTACAGAATTACTGTTT
46483610 TACCCTCGATTTACAAAATTACTAAAATACCCT
1 TACCCTCGATTTACAAAATTACTAAAATACCCT
46483643 TAGTTTGTGA
Statistics
Matches: 153, Mismatches: 33, Indels: 16
0.76 0.16 0.08
Matches are distributed among these distances:
79 1 0.01
80 56 0.37
81 93 0.61
82 3 0.02
ACGTcount: A:0.31, C:0.23, G:0.09, T:0.37
Consensus pattern (81 bp):
TACCCTCGATTTACAAAATTACTAAAATACCCTCGATTTATAAAATTACTATTTTACCCTCGATT
TACAGAATTACTGTTT
Found at i:46483785 original size:27 final size:27
Alignment explanation
Indices: 46483583--46483781 Score: 136
Period size: 27 Copynumber: 7.3 Consensus size: 27
46483573 ATTACTATTT
* **
46483583 TACCCTTGATTTACAGAATTACT-ATTT
1 TACCCTTGATTTACAAAATTACTGA-AA
* *
46483610 TACCCTCGATTTACAAAATTACTAAAA
1 TACCCTTGATTTACAAAATTACTGAAA
*** *
46483637 TACCCTT-AGTTTGTGAAATTACCGAAA
1 TACCCTTGA-TTTACAAAATTACTGAAA
** ** **
46483664 TACCCTCAATTTGTAAAATTACCAAAA
1 TACCCTTGATTTACAAAATTACTGAAA
* * *
46483691 TACCCCTGATTTACAAAGTTACAGAAA
1 TACCCTTGATTTACAAAATTACTGAAA
46483718 TACCCTTGACTTT-CTAAAAATTA-TAGAAA
1 TACCCTTGA-TTTAC--AAAATTACT-GAAA
* *
46483747 TACCATTGGTTTACAAAATTACTGAAA
1 TACCCTTGATTTACAAAATTACTGAAA
46483774 TACCCTTG
1 TACCCTTG
46483782 GTTTGTAGAT
Statistics
Matches: 136, Mismatches: 27, Indels: 18
0.75 0.15 0.10
Matches are distributed among these distances:
26 1 0.01
27 108 0.79
28 9 0.07
29 18 0.13
ACGTcount: A:0.38, C:0.20, G:0.09, T:0.33
Consensus pattern (27 bp):
TACCCTTGATTTACAAAATTACTGAAA
Found at i:46483903 original size:27 final size:26
Alignment explanation
Indices: 46483826--46483903 Score: 86
Period size: 27 Copynumber: 2.9 Consensus size: 26
46483816 AAATGACTAA
*
46483826 AATACCCCTACTAGGTAAAAAGACCGT
1 AATACCCCTA-TAGGTAAAATGACCGT
* *
46483853 AA-AGCCCCTGTAGGGTAAAGTGACCGT
1 AATA-CCCCTATA-GGTAAAATGACCGT
46483880 AATACCCCTATATGGTAAAATGAC
1 AATACCCCTATA-GGTAAAATGAC
46483904 GAATATGCCC
Statistics
Matches: 42, Mismatches: 6, Indels: 6
0.78 0.11 0.11
Matches are distributed among these distances:
26 3 0.07
27 38 0.90
28 1 0.02
ACGTcount: A:0.37, C:0.23, G:0.19, T:0.21
Consensus pattern (26 bp):
AATACCCCTATAGGTAAAATGACCGT
Found at i:46485168 original size:20 final size:20
Alignment explanation
Indices: 46485143--46485185 Score: 86
Period size: 20 Copynumber: 2.1 Consensus size: 20
46485133 ATTTTGATAA
46485143 ACATGATATGTATGATATGC
1 ACATGATATGTATGATATGC
46485163 ACATGATATGTATGATATGC
1 ACATGATATGTATGATATGC
46485183 ACA
1 ACA
46485186 CGAGATGTTC
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 23 1.00
ACGTcount: A:0.37, C:0.12, G:0.19, T:0.33
Consensus pattern (20 bp):
ACATGATATGTATGATATGC
Found at i:46485193 original size:20 final size:20
Alignment explanation
Indices: 46485150--46485193 Score: 70
Period size: 20 Copynumber: 2.2 Consensus size: 20
46485140 TAAACATGAT
* *
46485150 ATGTATGATATGCACATGAT
1 ATGTATGATATGCACACGAG
46485170 ATGTATGATATGCACACGAG
1 ATGTATGATATGCACACGAG
46485190 ATGT
1 ATGT
46485194 TCGTAAATGC
Statistics
Matches: 22, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
20 22 1.00
ACGTcount: A:0.34, C:0.11, G:0.23, T:0.32
Consensus pattern (20 bp):
ATGTATGATATGCACACGAG
Found at i:46485294 original size:24 final size:24
Alignment explanation
Indices: 46485239--46485427 Score: 269
Period size: 24 Copynumber: 8.0 Consensus size: 24
46485229 GAGGAAGTGA
46485239 AAAAGGGCTTATG-CCCAGTTAT-
1 AAAAGGGCTTATGCCCCAGTTATC
*
46485261 TAAAGGGCTTATGCCCCAGTTATC
1 AAAAGGGCTTATGCCCCAGTTATC
46485285 AAAAGGGCTTATGCCCCAGTTATC
1 AAAAGGGCTTATGCCCCAGTTATC
46485309 AAAAGGGCTTATGCCCCAGTTATC
1 AAAAGGGCTTATGCCCCAGTTATC
*
46485333 AAAAGGGCTTACGCCCCAGTTAT-
1 AAAAGGGCTTATGCCCCAGTTATC
* *
46485356 TAAAGGGCTTATGCCCCAGTTATA
1 AAAAGGGCTTATGCCCCAGTTATC
* *
46485380 AAAAGGGCTTTTGCCCCAGTTATT
1 AAAAGGGCTTATGCCCCAGTTATC
*
46485404 AAAAGAGGC-TAGGCCTCCAGTTAT
1 AAAAG-GGCTTATGCC-CCAGTTAT
46485428 ATGATAAAGC
Statistics
Matches: 152, Mismatches: 10, Indels: 7
0.90 0.06 0.04
Matches are distributed among these distances:
22 12 0.08
23 30 0.20
24 99 0.65
25 11 0.07
ACGTcount: A:0.29, C:0.23, G:0.22, T:0.26
Consensus pattern (24 bp):
AAAAGGGCTTATGCCCCAGTTATC
Found at i:46485368 original size:71 final size:71
Alignment explanation
Indices: 46485238--46485427 Score: 269
Period size: 71 Copynumber: 2.7 Consensus size: 71
46485228 GGAGGAAGTG
* *
46485238 AAAAAGGGCTTATG-CCCAGTTATTAAAGGGCTTATGCCCCAGTTATCAAAAGGGCTTATGCCCC
1 AAAAAGGGCTTATGCCCCAGTTATAAAAGGGCTTACGCCCCAGTTATCAAAAGGGCTTATGCCCC
46485302 AGTTAT
66 AGTTAT
* *
46485308 CAAAAGGGCTTATGCCCCAGTTATCAAAAGGGCTTACGCCCCAGTTAT-TAAAGGGCTTATGCCC
1 AAAAAGGGCTTATGCCCCAGTTAT-AAAAGGGCTTACGCCCCAGTTATCAAAAGGGCTTATGCCC
46485372 CAGTTAT
65 CAGTTAT
* *
46485379 AAAAAGGGCTTTTGCCCCAGTTATTAAAAGAGGC-TAGGCCTCCAGTTAT
1 AAAAAGGGCTTATGCCCCAGTTA-TAAAAG-GGCTTACGCC-CCAGTTAT
46485428 ATGATAAAGC
Statistics
Matches: 108, Mismatches: 7, Indels: 8
0.88 0.06 0.07
Matches are distributed among these distances:
70 13 0.12
71 62 0.57
72 33 0.31
ACGTcount: A:0.29, C:0.23, G:0.22, T:0.26
Consensus pattern (71 bp):
AAAAAGGGCTTATGCCCCAGTTATAAAAGGGCTTACGCCCCAGTTATCAAAAGGGCTTATGCCCC
AGTTAT
Found at i:46485654 original size:31 final size:31
Alignment explanation
Indices: 46485619--46485682 Score: 92
Period size: 31 Copynumber: 2.1 Consensus size: 31
46485609 CGTTTACAGT
*
46485619 AAAGGCTTCGGCCCAGTAATATGAAATATGA
1 AAAGGCTTCAGCCCAGTAATATGAAATATGA
** *
46485650 AAAGGCTTCAGCCCAGTGTTATGAATTATGA
1 AAAGGCTTCAGCCCAGTAATATGAAATATGA
46485681 AA
1 AA
46485683 TATTGAAAGG
Statistics
Matches: 29, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
31 29 1.00
ACGTcount: A:0.38, C:0.16, G:0.22, T:0.25
Consensus pattern (31 bp):
AAAGGCTTCAGCCCAGTAATATGAAATATGA
Done.