Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Gbar_A12
Parameters: 2 7 7 80 10 50 1000
Pmatch=0.80,Pindel=0.10
tuple sizes 0,4,5,7
tuple distances 0, 29, 159, 1000
Length: 102106374
ACGTcount: A:0.32, C:0.17, G:0.17, T:0.32
Warning! 3186644 characters in sequence are not A, C, G, or T
File 143 of 311
Found at i:48405290 original size:27 final size:27
Alignment explanation
Indices: 48405268--48405650 Score: 327
Period size: 27 Copynumber: 14.4 Consensus size: 27
48405258 AGAAATTATT
* *
48405268 GAAATACCCTCGACTTGTAAAATTATC
1 GAAATACCCTCGATTTGTAAAATTACC
*
48405295 AAAATACCC-CTGATTTGTAAAATTACC
1 GAAATACCCTC-GATTTGTAAAATTACC
**
48405322 GAAATACCCTCGATTATG--AAATTATT
1 GAAATACCCTCGATT-TGTAAAATTACC
*
48405348 GAAATA-CCTCAATTTGTAAAATTACC
1 GAAATACCCTCGATTTGTAAAATTACC
*
48405374 GAAATACCC-CTGATTTGTGAAATTACC
1 GAAATACCCTC-GATTTGTAAAATTACC
* *
48405401 GAAACACCCTCAATTTGTAAAATTACC
1 GAAATACCCTCGATTTGTAAAATTACC
* *
48405428 GAAATACCCT-AATTTGTAAAATTACT
1 GAAATACCCTCGATTTGTAAAATTACC
* * * **
48405454 AAAATACCATCGA-TTGTGAAATTATT
1 GAAATACCCTCGATTTGTAAAATTACC
* * *
48405480 GAAATACTCTCAATTTGTAAAATTATC
1 GAAATACCCTCGATTTGTAAAATTACC
* * *
48405507 GAAATACCCTCGATTTATGAAATTA-T
1 GAAATACCCTCGATTTGTAAAATTACC
** * * *
48405533 GAACCATCCTCGATGTATAAAATTACC
1 GAAATACCCTCGATTTGTAAAATTACC
* *
48405560 AAAATACCCTCGATTTGTAAAATTACT
1 GAAATACCCTCGATTTGTAAAATTACC
* * *
48405587 AAAACATCCCT-GATTTGTAAAATTATC
1 GAAATA-CCCTCGATTTGTAAAATTACC
* * * *
48405614 GAAATACCC-CTATAGTGTAAAGTTACT
1 GAAATACCCTCGAT-TTGTAAAATTACC
48405641 GAAATACCCT
1 GAAATACCCT
48405651 TGTAGTGTAA
Statistics
Matches: 286, Mismatches: 55, Indels: 29
0.77 0.15 0.08
Matches are distributed among these distances:
24 2 0.01
25 7 0.02
26 94 0.33
27 175 0.61
28 8 0.03
ACGTcount: A:0.39, C:0.19, G:0.10, T:0.31
Consensus pattern (27 bp):
GAAATACCCTCGATTTGTAAAATTACC
Found at i:48405520 original size:53 final size:54
Alignment explanation
Indices: 48405260--48405650 Score: 354
Period size: 53 Copynumber: 7.3 Consensus size: 54
48405250 TAATAAAGAG
* * *
48405260 AAATTATTGAAATACCCTCGACTTGTAAAATTATCAAAATACCC-CTGATTTGTA
1 AAATTACTGAAATACCCTCGATTTGTAAAATTATCGAAATACCCTC-GATTTGTA
* * *
48405314 AAATTACCGAAATACCCTCGATTATG--AAATTATTGAAATA-CCTCAATTTGTA
1 AAATTACTGAAATACCCTCGATT-TGTAAAATTATCGAAATACCCTCGATTTGTA
* * * * *
48405366 AAATTACCGAAATACCC-CTGATTTGTGAAATTACCGAAACACCCTCAATTTGTA
1 AAATTACTGAAATACCCTC-GATTTGTAAAATTATCGAAATACCCTCGATTTGTA
* * * * *
48405420 AAATTACCGAAATACCCT-AATTTGTAAAATTA-CTAAAATACCATCGA-TTGTG
1 AAATTACTGAAATACCCTCGATTTGTAAAATTATC-GAAATACCCTCGATTTGTA
* * * * *
48405472 AAATTATTGAAATACTCTCAATTTGTAAAATTATCGAAATACCCTCGATTTATG
1 AAATTACTGAAATACCCTCGATTTGTAAAATTATCGAAATACCCTCGATTTGTA
** * * * * *
48405526 AAATTA-TGAACCATCCTCGATGTATAAAATTACCAAAATACCCTCGATTTGTA
1 AAATTACTGAAATACCCTCGATTTGTAAAATTATCGAAATACCCTCGATTTGTA
* * * *
48405579 AAATTACTAAAACATCCCT-GATTTGTAAAATTATCGAAATACCC-CTATAGTGTA
1 AAATTACTGAAATA-CCCTCGATTTGTAAAATTATCGAAATACCCTCGAT-TTGTA
*
48405633 AAGTTACTGAAATACCCT
1 AAATTACTGAAATACCCT
48405651 TGTAGTGTAA
Statistics
Matches: 278, Mismatches: 45, Indels: 29
0.79 0.13 0.08
Matches are distributed among these distances:
51 3 0.01
52 50 0.18
53 119 0.43
54 101 0.36
55 5 0.02
ACGTcount: A:0.40, C:0.19, G:0.10, T:0.32
Consensus pattern (54 bp):
AAATTACTGAAATACCCTCGATTTGTAAAATTATCGAAATACCCTCGATTTGTA
Found at i:48405674 original size:27 final size:27
Alignment explanation
Indices: 48405614--48405695 Score: 103
Period size: 27 Copynumber: 3.0 Consensus size: 27
48405604 TAAAATTATC
* *
48405614 GAAATACCCCTATAGTGTAAAGTTACT
1 GAAATACCCCTATAGTGTAAAATGACT
* *
48405641 GAAATACCCTTGTAGTGTAAAATGACT
1 GAAATACCCCTATAGTGTAAAATGACT
*
48405668 -AACATACCCCTATAGGGTAAAATGACT
1 GAA-ATACCCCTATAGTGTAAAATGACT
48405695 G
1 G
48405696 TTTTGCCCTT
Statistics
Matches: 46, Mismatches: 7, Indels: 3
0.82 0.12 0.05
Matches are distributed among these distances:
26 2 0.04
27 44 0.96
ACGTcount: A:0.38, C:0.18, G:0.17, T:0.27
Consensus pattern (27 bp):
GAAATACCCCTATAGTGTAAAATGACT
Found at i:48408363 original size:26 final size:26
Alignment explanation
Indices: 48408334--48408387 Score: 99
Period size: 26 Copynumber: 2.1 Consensus size: 26
48408324 TTAGGTCACG
48408334 TGTGTAGTACTAAGTGCAGGCTACTA
1 TGTGTAGTACTAAGTGCAGGCTACTA
*
48408360 TGTGTAGTACTAAGTGTAGGCTACTA
1 TGTGTAGTACTAAGTGCAGGCTACTA
48408386 TG
1 TG
48408388 CATACCCGAT
Statistics
Matches: 27, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
26 27 1.00
ACGTcount: A:0.26, C:0.13, G:0.28, T:0.33
Consensus pattern (26 bp):
TGTGTAGTACTAAGTGCAGGCTACTA
Found at i:48408376 original size:12 final size:12
Alignment explanation
Indices: 48408335--48408378 Score: 52
Period size: 12 Copynumber: 3.5 Consensus size: 12
48408325 TAGGTCACGT
48408335 GTGTAGTACTAA
1 GTGTAGTACTAA
* *
48408347 GTGCAGGCTACTAT
1 GTGTA-G-TACTAA
48408361 GTGTAGTACTAA
1 GTGTAGTACTAA
48408373 GTGTAG
1 GTGTAG
48408379 GCTACTATGC
Statistics
Matches: 26, Mismatches: 4, Indels: 4
0.76 0.12 0.12
Matches are distributed among these distances:
12 15 0.58
13 2 0.08
14 9 0.35
ACGTcount: A:0.27, C:0.11, G:0.30, T:0.32
Consensus pattern (12 bp):
GTGTAGTACTAA
Found at i:48408544 original size:50 final size:50
Alignment explanation
Indices: 48408358--48408547 Score: 168
Period size: 50 Copynumber: 3.8 Consensus size: 50
48408348 TGCAGGCTAC
* * * * *
48408358 TATGTGTAGTACTAAGTGTAGGCTACTATGCATACCCGATAAT-TTCAA-TTA
1 TATGTGTAGTACTAAGTGTAGGCTACTACGCGTACCAGAT--TGAT-AAGTCA
* * * ** ** *
48408409 TGTGTGTAATACTAAGTGCAGGCTACTACATGTATTAGATGGATAAGTCA
1 TATGTGTAGTACTAAGTGTAGGCTACTACGCGTACCAGATTGATAAGTCA
* * * *
48408459 TGTGTTTAGTACTAAGTGTAGGCTACTACGTGTACCAGATTGATAGGTCA
1 TATGTGTAGTACTAAGTGTAGGCTACTACGCGTACCAGATTGATAAGTCA
* *
48408509 TATGTATAGTACTAAGTGTAGGCTACTATGCGTACCAGA
1 TATGTGTAGTACTAAGTGTAGGCTACTACGCGTACCAGA
48408548 AAGCTTCGGT
Statistics
Matches: 112, Mismatches: 25, Indels: 5
0.79 0.18 0.04
Matches are distributed among these distances:
49 2 0.02
50 80 0.71
51 30 0.27
ACGTcount: A:0.30, C:0.14, G:0.23, T:0.33
Consensus pattern (50 bp):
TATGTGTAGTACTAAGTGTAGGCTACTACGCGTACCAGATTGATAAGTCA
Found at i:48412843 original size:34 final size:34
Alignment explanation
Indices: 48412761--48412857 Score: 108
Period size: 34 Copynumber: 2.8 Consensus size: 34
48412751 CCTTTGTTTT
48412761 CATACTGTATTGAAATGGGCTAAGGCCCAGACTA
1 CATACTGTATTGAAATGGGCTAAGGCCCAGACTA
* * *
48412795 CCT-CTGCTATTGAAATGGGCTCAGGTCCAGACTA
1 CATACTG-TATTGAAATGGGCTAAGGCCCAGACTA
* *
48412829 -ATACTGTTAATGAAAAGGGGCTAAGGCCC
1 CATACTG-TATTG-AAATGGGCTAAGGCCC
48412858 TAACTGGAAC
Statistics
Matches: 51, Mismatches: 9, Indels: 5
0.78 0.14 0.08
Matches are distributed among these distances:
33 4 0.08
34 34 0.67
35 13 0.25
ACGTcount: A:0.30, C:0.22, G:0.25, T:0.24
Consensus pattern (34 bp):
CATACTGTATTGAAATGGGCTAAGGCCCAGACTA
Found at i:48420678 original size:35 final size:33
Alignment explanation
Indices: 48420592--48420678 Score: 86
Period size: 34 Copynumber: 2.5 Consensus size: 33
48420582 CATACTGTAT
* *
48420592 TGAAATGGGCTAAGGCCCAGACTACCTCTGCTAC
1 TGAAAAGGGCTAAGGCCCAGACTA-CTCTGCTAA
* * *
48420626 TGAAATGGGCTCAGGCCCAGACTGA-TACTGTTAA
1 TGAAAAGGGCTAAGGCCCAGACT-ACT-CTGCTAA
48420660 TGTAAAAGGGCTAAGGCCC
1 TG-AAAAGGGCTAAGGCCC
48420679 TAACTAGAAC
Statistics
Matches: 45, Mismatches: 5, Indels: 5
0.82 0.09 0.09
Matches are distributed among these distances:
33 1 0.02
34 29 0.64
35 15 0.33
ACGTcount: A:0.29, C:0.24, G:0.26, T:0.21
Consensus pattern (33 bp):
TGAAAAGGGCTAAGGCCCAGACTACTCTGCTAA
Found at i:48425838 original size:28 final size:28
Alignment explanation
Indices: 48425806--48425877 Score: 99
Period size: 28 Copynumber: 2.6 Consensus size: 28
48425796 CGATATTTCA
* *
48425806 CACACTAAGTGTCGTTCTCAATATCTCG
1 CACACTAAGTGCCATTCTCAATATCTCG
*
48425834 CACACTAAGTGCCATTCTCAATATTTCG
1 CACACTAAGTGCCATTCTCAATATCTCG
* *
48425862 TACACTGAGTGCCATT
1 CACACTAAGTGCCATT
48425878 TTTGATTGCC
Statistics
Matches: 39, Mismatches: 5, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
28 39 1.00
ACGTcount: A:0.26, C:0.28, G:0.14, T:0.32
Consensus pattern (28 bp):
CACACTAAGTGCCATTCTCAATATCTCG
Found at i:48435064 original size:19 final size:19
Alignment explanation
Indices: 48435030--48435066 Score: 56
Period size: 19 Copynumber: 1.9 Consensus size: 19
48435020 AAATGTCGGT
**
48435030 TGTCGACACCTCATGGGCG
1 TGTCGACACCAAATGGGCG
48435049 TGTCGACACCAAATGGGC
1 TGTCGACACCAAATGGGC
48435067 TCAGGCCCAG
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
19 16 1.00
ACGTcount: A:0.22, C:0.30, G:0.30, T:0.19
Consensus pattern (19 bp):
TGTCGACACCAAATGGGCG
Found at i:48445401 original size:39 final size:38
Alignment explanation
Indices: 48445352--48445492 Score: 149
Period size: 39 Copynumber: 3.6 Consensus size: 38
48445342 CTCCTCGTTC
*
48445352 AATGCCTTCGGACATAGCCCGGTTATAGTAACTCGCACA
1 AATGCCTTCGGACTTAGCCCGG-TATAGTAACTCGCACA
* * *
48445391 AATGCCTTCGGGCTTAGCCCGGAATTAGTATCTCGCACA
1 AATGCCTTCGGACTTAGCCCGGTA-TAGTAACTCGCACA
* * * *
48445430 AATGCCTTCGGATCTTAGTCCGGATATGGTCACTTAGCACA
1 AATGCCTTCGGA-CTTAGCCCGG-TATAGTAAC-TCGCACA
48445471 AA-GCCTTCGGGACTTAGCCCGG
1 AATGCCTTC-GGACTTAGCCCGG
48445493 ACATCATTCA
Statistics
Matches: 85, Mismatches: 12, Indels: 9
0.80 0.11 0.08
Matches are distributed among these distances:
38 1 0.01
39 44 0.52
40 28 0.33
41 12 0.14
ACGTcount: A:0.24, C:0.28, G:0.23, T:0.25
Consensus pattern (38 bp):
AATGCCTTCGGACTTAGCCCGGTATAGTAACTCGCACA
Found at i:48452554 original size:39 final size:40
Alignment explanation
Indices: 48452487--48452627 Score: 164
Period size: 40 Copynumber: 3.5 Consensus size: 40
48452477 CTCGTTCAAG
* *
48452487 TGCCTTCGGGACATAGCCCGGTTATAGTAACTCGCACAAA
1 TGCCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAA
*
48452527 TGCCTTCGGG-CTTAGCCCGGA-ATTAGTATCTCGCACAAA
1 TGCCTTCGGGACTTAGCCCGGATA-TAGTAACTCGCACAAA
* * * *
48452566 TGCCTTC-GGATCTTAGTCCGGATATGGTCACTTAGCACAAA
1 TGCCTTCGGGA-CTTAGCCCGGATATAGTAAC-TCGCACAAA
48452607 -GCCTTCGGGACTTAGCCCGGA
1 TGCCTTCGGGACTTAGCCCGGA
48452628 CATCATTCAA
Statistics
Matches: 86, Mismatches: 9, Indels: 12
0.80 0.08 0.11
Matches are distributed among these distances:
38 3 0.03
39 31 0.36
40 40 0.47
41 12 0.14
ACGTcount: A:0.23, C:0.28, G:0.24, T:0.25
Consensus pattern (40 bp):
TGCCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAA
Found at i:48457412 original size:27 final size:27
Alignment explanation
Indices: 48457381--48457558 Score: 205
Period size: 27 Copynumber: 6.6 Consensus size: 27
48457371 TAAATTGTAC
48457381 AGCACTAAGTGTGCGATTTGACTATGT
1 AGCACTAAGTGTGCGATTTGACTATGT
* ** *
48457408 TGCACTAAGTGTGCGAAATGAATATG-
1 AGCACTAAGTGTGCGATTTGACTATGT
* * *
48457434 ATGCACTAAGTGTGCGAATTGACCATGC
1 A-GCACTAAGTGTGCGATTTGACTATGT
*
48457462 GGCACTAAGTGTGCGAGTTTGACTATGT
1 AGCACTAAGTGTGCGA-TTTGACTATGT
* *
48457490 AGCACTAAGTGTGCGATTTGATTACGT
1 AGCACTAAGTGTGCGATTTGACTATGT
* * *
48457517 AGCACTAAGTGTGCGAGTTGATTATAT
1 AGCACTAAGTGTGCGATTTGACTATGT
*
48457544 AGCACTGAGTGTGCG
1 AGCACTAAGTGTGCG
48457559 GACTCAATAT
Statistics
Matches: 129, Mismatches: 19, Indels: 6
0.84 0.12 0.04
Matches are distributed among these distances:
27 106 0.82
28 23 0.18
ACGTcount: A:0.27, C:0.15, G:0.28, T:0.30
Consensus pattern (27 bp):
AGCACTAAGTGTGCGATTTGACTATGT
Found at i:48457495 original size:82 final size:81
Alignment explanation
Indices: 48457382--48457537 Score: 233
Period size: 82 Copynumber: 1.9 Consensus size: 81
48457372 AAATTGTACA
* *
48457382 GCACTAAGTGTGCGATTTGACTATGTTGCACTAAGTGTGCGAAATGAATATG-ATGCACTAAGTG
1 GCACTAAGTGTGCGATTTGACTATGTAGCACTAAGTGTGCGAAATGAATACGTA-GCACTAAGTG
48457446 TGCGAATTGACCATGCG
65 TGCGAATTGACCATGCG
** *
48457463 GCACTAAGTGTGCGAGTTTGACTATGTAGCACTAAGTGTGCGATTTGATTACGTAGCACTAAGTG
1 GCACTAAGTGTGCGA-TTTGACTATGTAGCACTAAGTGTGCGAAATGAATACGTAGCACTAAGTG
*
48457528 TGCGAGTTGA
65 TGCGAATTGA
48457538 TTATATAGCA
Statistics
Matches: 67, Mismatches: 6, Indels: 3
0.88 0.08 0.04
Matches are distributed among these distances:
81 15 0.22
82 51 0.76
83 1 0.01
ACGTcount: A:0.27, C:0.15, G:0.28, T:0.29
Consensus pattern (81 bp):
GCACTAAGTGTGCGATTTGACTATGTAGCACTAAGTGTGCGAAATGAATACGTAGCACTAAGTGT
GCGAATTGACCATGCG
Found at i:48457549 original size:82 final size:81
Alignment explanation
Indices: 48457378--48457558 Score: 229
Period size: 82 Copynumber: 2.2 Consensus size: 81
48457368 GATTAAATTG
* *
48457378 TACAGCACTAAGTGTGCGATTTGACTATGTTGCACTAAGTGTGCGAAATGAATATGATGCACTAA
1 TACAGCACTAAGTGTGCGATTTGACTATGTAGCACTAAGTGTGCGAAATGAATACGATGCACTAA
48457443 GTGTGCGAATTGACCA
66 GTGTGCGAATTGACCA
* * ** *
48457459 TGCGGCACTAAGTGTGCGAGTTTGACTATGTAGCACTAAGTGTGCGATTTGATTACG-TAGCACT
1 TACAGCACTAAGTGTGCGA-TTTGACTATGTAGCACTAAGTGTGCGAAATGAATACGAT-GCACT
* **
48457523 AAGTGTGCGAGTTGATTA
64 AAGTGTGCGAATTGACCA
* *
48457541 TATAGCACTGAGTGTGCG
1 TACAGCACTAAGTGTGCG
48457559 GACTCAATAT
Statistics
Matches: 84, Mismatches: 14, Indels: 3
0.83 0.14 0.03
Matches are distributed among these distances:
81 18 0.21
82 66 0.79
ACGTcount: A:0.27, C:0.15, G:0.28, T:0.30
Consensus pattern (81 bp):
TACAGCACTAAGTGTGCGATTTGACTATGTAGCACTAAGTGTGCGAAATGAATACGATGCACTAA
GTGTGCGAATTGACCA
Found at i:48465379 original size:27 final size:27
Alignment explanation
Indices: 48465348--48465525 Score: 205
Period size: 27 Copynumber: 6.6 Consensus size: 27
48465338 TAAATTGTAC
48465348 AGCACTAAGTGTGCGATTTGACTATGT
1 AGCACTAAGTGTGCGATTTGACTATGT
* ** *
48465375 TGCACTAAGTGTGCGAAATGAATATG-
1 AGCACTAAGTGTGCGATTTGACTATGT
* * *
48465401 ATGCACTAAGTGTGCGAATTGACCATGC
1 A-GCACTAAGTGTGCGATTTGACTATGT
*
48465429 GGCACTAAGTGTGCGAGTTTGACTATGT
1 AGCACTAAGTGTGCGA-TTTGACTATGT
* *
48465457 AGCACTAAGTGTGCGATTTGATTACGT
1 AGCACTAAGTGTGCGATTTGACTATGT
* * *
48465484 AGCACTAAGTGTGCGAGTTGATTATAT
1 AGCACTAAGTGTGCGATTTGACTATGT
*
48465511 AGCACTGAGTGTGCG
1 AGCACTAAGTGTGCG
48465526 GACTCAATAT
Statistics
Matches: 129, Mismatches: 19, Indels: 6
0.84 0.12 0.04
Matches are distributed among these distances:
27 106 0.82
28 23 0.18
ACGTcount: A:0.27, C:0.15, G:0.28, T:0.30
Consensus pattern (27 bp):
AGCACTAAGTGTGCGATTTGACTATGT
Found at i:48465462 original size:82 final size:81
Alignment explanation
Indices: 48465349--48465504 Score: 233
Period size: 82 Copynumber: 1.9 Consensus size: 81
48465339 AAATTGTACA
* *
48465349 GCACTAAGTGTGCGATTTGACTATGTTGCACTAAGTGTGCGAAATGAATATG-ATGCACTAAGTG
1 GCACTAAGTGTGCGATTTGACTATGTAGCACTAAGTGTGCGAAATGAATACGTA-GCACTAAGTG
48465413 TGCGAATTGACCATGCG
65 TGCGAATTGACCATGCG
** *
48465430 GCACTAAGTGTGCGAGTTTGACTATGTAGCACTAAGTGTGCGATTTGATTACGTAGCACTAAGTG
1 GCACTAAGTGTGCGA-TTTGACTATGTAGCACTAAGTGTGCGAAATGAATACGTAGCACTAAGTG
*
48465495 TGCGAGTTGA
65 TGCGAATTGA
48465505 TTATATAGCA
Statistics
Matches: 67, Mismatches: 6, Indels: 3
0.88 0.08 0.04
Matches are distributed among these distances:
81 15 0.22
82 51 0.76
83 1 0.01
ACGTcount: A:0.27, C:0.15, G:0.28, T:0.29
Consensus pattern (81 bp):
GCACTAAGTGTGCGATTTGACTATGTAGCACTAAGTGTGCGAAATGAATACGTAGCACTAAGTGT
GCGAATTGACCATGCG
Found at i:48465516 original size:82 final size:81
Alignment explanation
Indices: 48465345--48465525 Score: 229
Period size: 82 Copynumber: 2.2 Consensus size: 81
48465335 GATTAAATTG
* *
48465345 TACAGCACTAAGTGTGCGATTTGACTATGTTGCACTAAGTGTGCGAAATGAATATGATGCACTAA
1 TACAGCACTAAGTGTGCGATTTGACTATGTAGCACTAAGTGTGCGAAATGAATACGATGCACTAA
48465410 GTGTGCGAATTGACCA
66 GTGTGCGAATTGACCA
* * ** *
48465426 TGCGGCACTAAGTGTGCGAGTTTGACTATGTAGCACTAAGTGTGCGATTTGATTACG-TAGCACT
1 TACAGCACTAAGTGTGCGA-TTTGACTATGTAGCACTAAGTGTGCGAAATGAATACGAT-GCACT
* **
48465490 AAGTGTGCGAGTTGATTA
64 AAGTGTGCGAATTGACCA
* *
48465508 TATAGCACTGAGTGTGCG
1 TACAGCACTAAGTGTGCG
48465526 GACTCAATAT
Statistics
Matches: 84, Mismatches: 14, Indels: 3
0.83 0.14 0.03
Matches are distributed among these distances:
81 18 0.21
82 66 0.79
ACGTcount: A:0.27, C:0.15, G:0.28, T:0.30
Consensus pattern (81 bp):
TACAGCACTAAGTGTGCGATTTGACTATGTAGCACTAAGTGTGCGAAATGAATACGATGCACTAA
GTGTGCGAATTGACCA
Found at i:48468863 original size:49 final size:49
Alignment explanation
Indices: 48468797--48469041 Score: 303
Period size: 49 Copynumber: 4.9 Consensus size: 49
48468787 GTAGCCAAAC
* *
48468797 TATCTGGTACCCATAGTAGCCTGCA-TCTAGTACTACACATGTGACCAAT
1 TATCTGGTACACGTAGTAGCCTGCACT-TAGTACTACACATGTGACCAAT
* * * * *
48468846 TATCTAGTACATGTAGTAGCCTGCACTTAGTACTATACACGTGACCTAAC
1 TATCTGGTACACGTAGTAGCCTGCACTTAGTACTACACATGTGACC-AAT
* * *
48468896 CATCTGATACACGTAGTAGCCTGCACTTAGTACTACACATGTGATCGAAGT
1 TATCTGGTACACGTAGTAGCCTGCACTTAGTACTACACATGTGA-CCAA-T
* * * *
48468947 TATCGGGTACGCATAGTAGCCTGCACTTAGTACTACACATGCGACCAAT
1 TATCTGGTACACGTAGTAGCCTGCACTTAGTACTACACATGTGACCAAT
* *
48468996 AATCTGGTACACGTAGTAGCCTGCACTTAGTACTACACACGTGACC
1 TATCTGGTACACGTAGTAGCCTGCACTTAGTACTACACATGTGACC
48469042 TCACAATAGA
Statistics
Matches: 164, Mismatches: 28, Indels: 8
0.82 0.14 0.04
Matches are distributed among these distances:
49 79 0.48
50 46 0.28
51 39 0.24
ACGTcount: A:0.29, C:0.26, G:0.18, T:0.27
Consensus pattern (49 bp):
TATCTGGTACACGTAGTAGCCTGCACTTAGTACTACACATGTGACCAAT
Found at i:48503294 original size:21 final size:20
Alignment explanation
Indices: 48503270--48503308 Score: 51
Period size: 21 Copynumber: 1.9 Consensus size: 20
48503260 GTGTAAATGT
48503270 AGTAACATAATTGTCATTTTA
1 AGTAACATAATT-TCATTTTA
**
48503291 AGTAATTTAATTTCATTT
1 AGTAACATAATTTCATTT
48503309 ATATGATATG
Statistics
Matches: 16, Mismatches: 2, Indels: 1
0.84 0.11 0.05
Matches are distributed among these distances:
20 6 0.38
21 10 0.62
ACGTcount: A:0.36, C:0.08, G:0.08, T:0.49
Consensus pattern (20 bp):
AGTAACATAATTTCATTTTA
Found at i:48507231 original size:40 final size:40
Alignment explanation
Indices: 48507154--48507368 Score: 255
Period size: 40 Copynumber: 5.5 Consensus size: 40
48507144 AAACCAAGTA
* * *
48507154 CCTTCGAGATTTAG-CCGGATATAGCT-ACTCGCTCAAATG
1 CCTTCGGGACTTAGCCCGGATATAG-TAACTCGCACAAATG
*
48507193 CCTTCGGGACTTAGCCCGGTTATAGTAACTCGCACAAATG
1 CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATG
48507233 CCTTCGGGACTTAG-CC--ATATAGTAACTCGCACAAATG
1 CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATG
* *
48507270 CCTTTGGGACTTAGCTCGGATATAGTAACTCGCACAAATG
1 CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATG
* * *
48507310 CCTTCGGGGA-TTAGCCCAGA-ATTAGTCACTAGCACAAATG
1 CCTTC-GGGACTTAGCCCGGATA-TAGTAACTCGCACAAATG
* *
48507350 TCTTCGGGTCTTAGCCCGG
1 CCTTCGGGACTTAGCCCGG
48507369 TTATCATCCG
Statistics
Matches: 153, Mismatches: 15, Indels: 15
0.84 0.08 0.08
Matches are distributed among these distances:
37 33 0.22
38 1 0.01
39 19 0.12
40 96 0.63
41 4 0.03
ACGTcount: A:0.26, C:0.26, G:0.22, T:0.26
Consensus pattern (40 bp):
CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATG
Found at i:48507283 original size:77 final size:75
Alignment explanation
Indices: 48507154--48507372 Score: 258
Period size: 77 Copynumber: 2.8 Consensus size: 75
48507144 AAACCAAGTA
* *
48507154 CCTTCGAGATTTAGCCGGATATAGCTACTCGCTCAAATGCCTTCGGGACTTAGCCCGGTTATAGT
1 CCTTCGGGA-TTAGCC--ATATAG-TACTCGCACAAATGCCTTCGGGACTTAGCCCGGTTATAGT
48507219 AACTCGCACAAATG
62 AACTCGCACAAATG
* * *
48507233 CCTTCGGGACTTAGCCATATAGTAACTCGCACAAATGCCTTTGGGACTTAGCTCGGATATAGTAA
1 CCTTCGGGA-TTAGCCATATAGT-ACTCGCACAAATGCCTTCGGGACTTAGCCCGGTTATAGTAA
48507298 CTCGCACAAATG
64 CTCGCACAAATG
* * * *
48507310 CCTTCGGGGATTAGCCCAGAATTAGTCACTAGCACAAATGTCTTCGGGTCTTAGCCCGGTTAT
1 CCTTC-GGGATTAG-CCA-TA-TAGT-ACTCGCACAAATGCCTTCGGGACTTAGCCCGGTTAT
48507373 CATCCGAATA
Statistics
Matches: 121, Mismatches: 14, Indels: 9
0.84 0.10 0.06
Matches are distributed among these distances:
76 1 0.01
77 64 0.53
78 7 0.06
79 15 0.12
80 34 0.28
ACGTcount: A:0.26, C:0.26, G:0.22, T:0.27
Consensus pattern (75 bp):
CCTTCGGGATTAGCCATATAGTACTCGCACAAATGCCTTCGGGACTTAGCCCGGTTATAGTAACT
CGCACAAATG
Found at i:48508710 original size:13 final size:13
Alignment explanation
Indices: 48508692--48508716 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
48508682 TTTATTATTC
48508692 CTAACATAAAATA
1 CTAACATAAAATA
48508705 CTAACATAAAAT
1 CTAACATAAAAT
48508717 GTTTATAATA
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:0.60, C:0.16, G:0.00, T:0.24
Consensus pattern (13 bp):
CTAACATAAAATA
Found at i:48515178 original size:40 final size:40
Alignment explanation
Indices: 48515107--48515364 Score: 344
Period size: 40 Copynumber: 6.5 Consensus size: 40
48515097 AAACCAAGTA
* *
48515107 CCTTCGGGATTTAG-CCGGATATAGCT-ACTCGCTCAAATG
1 CCTTCGGGACTTAGCCCGGATATAG-TAACTCGCACAAATG
* * *
48515146 CCTTCAGGACTTAGCCCTGTTATAGTAACTCGCACAAATG
1 CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATG
48515186 CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATG
1 CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATG
48515226 CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATG
1 CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATG
* * * *
48515266 CCTTCGGGGCTTAGACCGGA-ATTAGTCACTAGCACAAATG
1 CCTTCGGGACTTAGCCCGGATA-TAGTAACTCGCACAAATG
* * * *
48515306 CCTTCGGGGCTTAGCCCGGA-ATTAGTCACTAGCACAAATT
1 CCTTCGGGACTTAGCCCGGATA-TAGTAACTCGCACAAATG
48515346 CCTTCGGGACTTAGCCCGG
1 CCTTCGGGACTTAGCCCGG
48515365 TTATCATCCG
Statistics
Matches: 201, Mismatches: 15, Indels: 5
0.91 0.07 0.02
Matches are distributed among these distances:
39 14 0.07
40 187 0.93
ACGTcount: A:0.25, C:0.28, G:0.23, T:0.24
Consensus pattern (40 bp):
CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATG
Found at i:48527439 original size:48 final size:49
Alignment explanation
Indices: 48527278--48527543 Score: 191
Period size: 48 Copynumber: 5.6 Consensus size: 49
48527268 TGTAGTGCCA
* ** * *
48527278 ATGCCATGTCCCAGAGATGGTCTTACACTGGCGCATC-C-ATCAAGT-C-G
1 ATGCCATGTCCCAGACATGGTCTTACACTAACAC-TCTCTAT-ACGTGCTG
* * * ** *
48527325 ATGCCATGTCCCAGACATGGTCTTACACTAGCTCTCACATATTTGTGCAG
1 ATGCCATGTCCCAGACATGGTCTTACACTAACACTCTC-TATACGTGCTG
*
48527375 ATGCCATGTCCTAGACATGGTCTTACACTAACAC-CTCTATACGTGCTG
1 ATGCCATGTCCCAGACATGGTCTTACACTAACACTCTCTATACGTGCTG
* * * * *
48527423 ATGCCATGTCCTAGACATGGTCATACACTGACAC-ATC--T-CGTAGCCG
1 ATGCCATGTCCCAGACATGGTCTTACACTAACACTCTCTATACGT-GCTG
*** *
48527469 ATG-CATGTCCCAGACAT-GTCTTACACCGGCTCTCGTCTCA-A--TGCTG
1 ATGCCATGTCCCAGACATGGTCTTACACTAACACTC-TCT-ATACGTGCTG
48527515 ATGCCATGTCCCAGACATGGTCTTACACT
1 ATGCCATGTCCCAGACATGGTCTTACACT
48527544 GGCTCTCATA
Statistics
Matches: 181, Mismatches: 24, Indels: 27
0.78 0.10 0.12
Matches are distributed among these distances:
44 11 0.06
45 16 0.09
46 17 0.09
47 47 0.26
48 53 0.29
49 5 0.03
50 32 0.18
ACGTcount: A:0.24, C:0.30, G:0.19, T:0.27
Consensus pattern (49 bp):
ATGCCATGTCCCAGACATGGTCTTACACTAACACTCTCTATACGTGCTG
Found at i:48527531 original size:92 final size:93
Alignment explanation
Indices: 48527418--48527588 Score: 247
Period size: 92 Copynumber: 1.8 Consensus size: 93
48527408 CCTCTATACG
*
48527418 TGCTGATGCCATGTCCTAGACATGGTCATACACTGACACATC-T-CGTAGCCGATGCATGTCCCA
1 TGCTGATGCCATGTCCCAGACATGGTCATACACTGACAC-TCATACGTAGCCGATGCATGTCCCA
*
48527481 GACATGTCTTACACCGGCTCTCGTCTCAA
65 AACATGTCTTACACCGGCTCTCGTCTCAA
* * * * *
48527510 TGCTGATGCCATGTCCCAGACATGGTCTTACACTGGCTCTCATAATGTGGCCGATGCATGTCCCA
1 TGCTGATGCCATGTCCCAGACATGGTCATACACTGACACTCAT-ACGTAGCCGATGCATGTCCCA
48527575 AACATGTCTTACAC
65 AACATGTCTTACAC
48527589 TAGCACACAA
Statistics
Matches: 69, Mismatches: 7, Indels: 4
0.86 0.09 0.05
Matches are distributed among these distances:
91 2 0.03
92 36 0.52
94 31 0.45
ACGTcount: A:0.23, C:0.30, G:0.20, T:0.27
Consensus pattern (93 bp):
TGCTGATGCCATGTCCCAGACATGGTCATACACTGACACTCATACGTAGCCGATGCATGTCCCAA
ACATGTCTTACACCGGCTCTCGTCTCAA
Found at i:48527570 original size:47 final size:46
Alignment explanation
Indices: 48527271--48527589 Score: 242
Period size: 47 Copynumber: 6.8 Consensus size: 46
48527261 CATAGGGTGT
* * *
48527271 AGTGCCAATGCCATGTCCCAGAGATGGTCTTACACTGGCGCATCCATCA
1 AGTGCCGATGCCATGTCCCAGACATGGTCTTACACTGGCTC-T-CAT-A
*
48527320 AGT--CGATGCCATGTCCCAGACATGGTCTTACACTAGCTCTCACATA
1 AGTGCCGATGCCATGTCCCAGACATGGTCTTACACTGGCTCT--CATA
* * * ** *
48527366 TTTGTGCAGATGCCATGTCCTAGACATGGTCTTACACTAACACCTCTATA
1 --AGTGCCGATGCCATGTCCCAGACATGGTCTTACACTGGC-TCTC-ATA
* * * * * *
48527416 CGTGCTGATGCCATGTCCTAGACATGGTCATACACTGACACATC-T-
1 AGTGCCGATGCCATGTCCCAGACATGGTCTTACACTGGCTC-TCATA
* * *
48527461 CGTAGCCGATG-CATGTCCCAGACAT-GTCTTACACCGGCTCTCGTCTCA
1 AGT-GCCGATGCCATGTCCCAGACATGGTCTTACACTGGCTCTC--AT-A
*
48527509 A-TGCTGATGCCATGTCCCAGACATGGTCTTACACTGGCTCTCATA
1 AGTGCCGATGCCATGTCCCAGACATGGTCTTACACTGGCTCTCATA
*
48527554 ATGTGGCCGATG-CATGTCCCAAACAT-GTCTTACACT
1 A-GT-GCCGATGCCATGTCCCAGACATGGTCTTACACT
48527590 AGCACACAAA
Statistics
Matches: 224, Mismatches: 27, Indels: 41
0.77 0.09 0.14
Matches are distributed among these distances:
43 2 0.01
44 11 0.05
45 18 0.08
46 27 0.12
47 65 0.29
48 61 0.27
49 4 0.02
50 34 0.15
51 2 0.01
ACGTcount: A:0.24, C:0.30, G:0.19, T:0.27
Consensus pattern (46 bp):
AGTGCCGATGCCATGTCCCAGACATGGTCTTACACTGGCTCTCATA
Found at i:48542038 original size:20 final size:20
Alignment explanation
Indices: 48541990--48542041 Score: 61
Period size: 20 Copynumber: 2.6 Consensus size: 20
48541980 ACTTTCCAGC
*
48541990 ACATCTATTCATAAAATTTT
1 ACATCTTTTCATAAAATTTT
* *
48542010 AGAAT-TTTTCATCAAATTTT
1 A-CATCTTTTCATAAAATTTT
48542030 ACATCTTTTCAT
1 ACATCTTTTCAT
48542042 TTTTGTCCCT
Statistics
Matches: 26, Mismatches: 4, Indels: 4
0.76 0.12 0.12
Matches are distributed among these distances:
19 2 0.08
20 22 0.85
21 2 0.08
ACGTcount: A:0.35, C:0.15, G:0.02, T:0.48
Consensus pattern (20 bp):
ACATCTTTTCATAAAATTTT
Found at i:48545377 original size:15 final size:15
Alignment explanation
Indices: 48545357--48545386 Score: 60
Period size: 15 Copynumber: 2.0 Consensus size: 15
48545347 TCCTTCTTCT
48545357 TTACAAATAGAAGCA
1 TTACAAATAGAAGCA
48545372 TTACAAATAGAAGCA
1 TTACAAATAGAAGCA
48545387 GCGCACCCCA
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:0.53, C:0.13, G:0.13, T:0.20
Consensus pattern (15 bp):
TTACAAATAGAAGCA
Found at i:48546798 original size:46 final size:46
Alignment explanation
Indices: 48546748--48546920 Score: 208
Period size: 46 Copynumber: 3.7 Consensus size: 46
48546738 TTGAGCATCT
* *
48546748 GAACTCGTTGAGTTGAGTCCAAGTTCACTTATGGATGCAAATGTCC
1 GAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAACGTCC
* *
48546794 GAACTCGTTGAGTTGAGTCCGAGTTCA-TGA--GATGTAACTACGCATCC
1 GAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAA--ACG--TCC
* * *
48546841 GAACTCGTTGAGTTGAGTCCGAGTTCACTCATGGATGCGAACGCCC
1 GAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAACGTCC
* *
48546887 GAGCTCGTTGAGTTGAGTCCGAGTTCGCTTATGG
1 GAACTCGTTGAGTTGAGTCCGAGTTCACTTATGG
48546921 GCGGGTTACA
Statistics
Matches: 109, Mismatches: 11, Indels: 14
0.81 0.08 0.10
Matches are distributed among these distances:
43 6 0.06
45 4 0.04
46 59 0.54
47 30 0.28
48 5 0.05
50 5 0.05
ACGTcount: A:0.23, C:0.21, G:0.28, T:0.28
Consensus pattern (46 bp):
GAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAACGTCC
Found at i:48546901 original size:93 final size:93
Alignment explanation
Indices: 48546742--48546912 Score: 279
Period size: 93 Copynumber: 1.8 Consensus size: 93
48546732 GGATGGTTGA
* * * *
48546742 GCATCTGAACTCGTTGAGTTGAGTCCAAGTTCACTTATGGATGCAAATGTCCGAACTCGTTGAGT
1 GCATCCGAACTCGTTGAGTTGAGTCCAAGTTCACTCATGGATGCAAACGCCCGAACTCGTTGAGT
48546807 TGAGTCCGAGTTCATGAGATGTAACTAC
66 TGAGTCCGAGTTCATGAGATGTAACTAC
* * *
48546835 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTCATGGATGCGAACGCCCGAGCTCGTTGAGT
1 GCATCCGAACTCGTTGAGTTGAGTCCAAGTTCACTCATGGATGCAAACGCCCGAACTCGTTGAGT
48546900 TGAGTCCGAGTTC
66 TGAGTCCGAGTTC
48546913 GCTTATGGGC
Statistics
Matches: 71, Mismatches: 7, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
93 71 1.00
ACGTcount: A:0.23, C:0.22, G:0.27, T:0.28
Consensus pattern (93 bp):
GCATCCGAACTCGTTGAGTTGAGTCCAAGTTCACTCATGGATGCAAACGCCCGAACTCGTTGAGT
TGAGTCCGAGTTCATGAGATGTAACTAC
Found at i:48552272 original size:55 final size:55
Alignment explanation
Indices: 48552185--48552441 Score: 243
Period size: 55 Copynumber: 4.8 Consensus size: 55
48552175 ATTAGGGTTT
* * *
48552185 AAGGAGACCATATAAGACCATGCCAAGGCATGGCAATTGGTAAGGTTTCTAAGGC
1 AAGGATACCATGTAAGACCATGCCAAGACATGGCAATTGGTAAGGTTTCTAAGGC
* * * * * * *
48552240 AAGGAAATCATGTAAGACCATGTCAAGACATGGC-ATTGATAAGATACTATAAGGC
1 AAGGATACCATGTAAGACCATGCCAAGACATGGCAATTGGTAAGGT-TTCTAAGGC
* * *
48552295 AAAGG-T-CTCATGTAAGACCATGCCAAGGCATGGC-ATTGGTGA-G-TTCATAAGGT
1 -AAGGATAC-CATGTAAGACCATGCCAAGACATGGCAATTGGTAAGGTTTC-TAAGGC
*
48552348 AAGGATACCATGTAAGACCATGTCAAGACATGGCAA-TGGTAA-GTTTC-AA---
1 AAGGATACCATGTAAGACCATGCCAAGACATGGCAATTGGTAAGGTTTCTAAGGC
* *
48552397 AAGGATACCATGTAAGACCATGACAAGTCATGGCAA-TGGTAAGGT
1 AAGGATACCATGTAAGACCATGCCAAGACATGGCAATTGGTAAGGT
48552442 AGTTGTGTAT
Statistics
Matches: 169, Mismatches: 24, Indels: 23
0.78 0.11 0.11
Matches are distributed among these distances:
49 40 0.24
50 2 0.01
52 7 0.04
53 36 0.21
54 14 0.08
55 66 0.39
56 4 0.02
ACGTcount: A:0.37, C:0.16, G:0.25, T:0.22
Consensus pattern (55 bp):
AAGGATACCATGTAAGACCATGCCAAGACATGGCAATTGGTAAGGTTTCTAAGGC
Found at i:48552528 original size:23 final size:24
Alignment explanation
Indices: 48552491--48552535 Score: 65
Period size: 23 Copynumber: 1.9 Consensus size: 24
48552481 ATTGTAAGGT
**
48552491 AAGGTAAGATGAGTT-ATGCTAAA
1 AAGGTAAGACAAGTTCATGCTAAA
48552514 AAGGTAAGACAAGTTCATGCTA
1 AAGGTAAGACAAGTTCATGCTA
48552536 GAAGAGCAAA
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
23 13 0.68
24 6 0.32
ACGTcount: A:0.42, C:0.09, G:0.24, T:0.24
Consensus pattern (24 bp):
AAGGTAAGACAAGTTCATGCTAAA
Found at i:48558497 original size:16 final size:18
Alignment explanation
Indices: 48558470--48558502 Score: 52
Period size: 17 Copynumber: 1.9 Consensus size: 18
48558460 TAGAATTCGG
48558470 TTGAGAAAATT-ATTTAA
1 TTGAGAAAATTAATTTAA
48558487 TTGAG-AAATTAATTTA
1 TTGAGAAAATTAATTTA
48558503 GTTAGTTTAA
Statistics
Matches: 15, Mismatches: 0, Indels: 2
0.88 0.00 0.12
Matches are distributed among these distances:
16 5 0.33
17 10 0.67
ACGTcount: A:0.45, C:0.00, G:0.12, T:0.42
Consensus pattern (18 bp):
TTGAGAAAATTAATTTAA
Found at i:48558574 original size:24 final size:23
Alignment explanation
Indices: 48558529--48558581 Score: 63
Period size: 23 Copynumber: 2.3 Consensus size: 23
48558519 AAATTAATTG
* *
48558529 AATAAAAAATATTTATTTTTGGT
1 AATAAAAAATATATATTGTTGGT
*
48558552 AATAGAAAATATATATTAGTTGGT
1 AATAAAAAATATATATT-GTTGGT
48558576 -ATAAAA
1 AATAAAA
48558582 TTATAAAGTG
Statistics
Matches: 25, Mismatches: 4, Indels: 2
0.81 0.13 0.06
Matches are distributed among these distances:
23 20 0.80
24 5 0.20
ACGTcount: A:0.49, C:0.00, G:0.11, T:0.40
Consensus pattern (23 bp):
AATAAAAAATATATATTGTTGGT
Found at i:48564087 original size:46 final size:46
Alignment explanation
Indices: 48563940--48564157 Score: 196
Period size: 46 Copynumber: 4.7 Consensus size: 46
48563930 TTATTTGTGT
* *
48563940 GCCAGTGTAAGACATGTCTGGGACATGCATCGACCAT--ATTATGAGA
1 GCCAGTGTAAGACATGTCTGGGACATGCATCGGCC-TCGA-GATGAGA
* * * ** * *
48563986 GCCAATGTAAGACCATGTCTAGGTCATGGCATCGGTATTGAGACGAGA
1 GCCAGTGTAAGA-CATGTCTGGGACAT-GCATCGGCCTCGAGATGAGA
* *
48564034 GCTAGTGTAAGACATGTTTGGGACATGCATCGGCCTCGAGATGTA-A
1 GCCAGTGTAAGACATGTCTGGGACATGCATCGGCCTCGAGATG-AGA
* *
48564080 GCCAGTGTAAGGCATGTCTGGGACATGCATCGG-CTACGAGAT--GT
1 GCCAGTGTAAGACATGTCTGGGACATGCATCGGCCT-CGAGATGAGA
*
48564124 GTCAGTGTAAGACCATGTCTGGGACATGGCATCG
1 GCCAGTGTAAGA-CATGTCTGGGACAT-GCATCG
48564158 ACAAGACCAT
Statistics
Matches: 140, Mismatches: 23, Indels: 18
0.77 0.13 0.10
Matches are distributed among these distances:
44 10 0.07
45 16 0.11
46 67 0.48
47 25 0.18
48 21 0.15
49 1 0.01
ACGTcount: A:0.27, C:0.19, G:0.30, T:0.24
Consensus pattern (46 bp):
GCCAGTGTAAGACATGTCTGGGACATGCATCGGCCTCGAGATGAGA
Found at i:48564172 original size:28 final size:28
Alignment explanation
Indices: 48564132--48564213 Score: 146
Period size: 28 Copynumber: 2.9 Consensus size: 28
48564122 GTGTCAGTGT
48564132 AAGACCATGTCTGGGACATGGCATCGAC
1 AAGACCATGTCTGGGACATGGCATCGAC
*
48564160 AAGACCATGTCTGGGACATGGGATCGAC
1 AAGACCATGTCTGGGACATGGCATCGAC
*
48564188 AAGACCATGTCTTGGACATGGCATCG
1 AAGACCATGTCTGGGACATGGCATCG
48564214 GCATGGATAT
Statistics
Matches: 51, Mismatches: 3, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
28 51 1.00
ACGTcount: A:0.28, C:0.23, G:0.29, T:0.20
Consensus pattern (28 bp):
AAGACCATGTCTGGGACATGGCATCGAC
Found at i:48567173 original size:46 final size:46
Alignment explanation
Indices: 48567106--48567227 Score: 208
Period size: 46 Copynumber: 2.7 Consensus size: 46
48567096 CGCCCCTAAG
* *
48567106 TGAACTCGGACTCAACTCAACGAGCTCGGGCGTTCGCATCCATAAA
1 TGAACTCGGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAA
*
48567152 TGAACTCGGACTCAACTCAACGAGCTCGGACATTTGCATCCATAAA
1 TGAACTCGGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAA
*
48567198 TGAACTCGGACTCAACTCAACGAGTTCGGA
1 TGAACTCGGACTCAACTCAACGAGCTCGGA
48567228 TGCTCAACCA
Statistics
Matches: 72, Mismatches: 4, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
46 72 1.00
ACGTcount: A:0.30, C:0.29, G:0.20, T:0.20
Consensus pattern (46 bp):
TGAACTCGGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAA
Found at i:48568670 original size:40 final size:40
Alignment explanation
Indices: 48568626--48568827 Score: 291
Period size: 40 Copynumber: 5.0 Consensus size: 40
48568616 GATTTAACTT
* * * *
48568626 GATATAGCT-ACTCGCTCGAATGCCTTCAGGACATAGCCCG
1 GATATAG-TAACTCGCACAAATGCCTTCGGGACTTAGCCCG
48568666 GATATAGTAACTCGCACCAAATGCCTTCGGGACTTAGCCCG
1 GATATAGTAACTCGCA-CAAATGCCTTCGGGACTTAGCCCG
48568707 GATATAGTAACTCGCACAAATGCCTTCGGGACTTAGCCCG
1 GATATAGTAACTCGCACAAATGCCTTCGGGACTTAGCCCG
*
48568747 GATATAGTAACTCGCACAAATGCCTTCAGGACTTAGCCCG
1 GATATAGTAACTCGCACAAATGCCTTCGGGACTTAGCCCG
* * *
48568787 GA-ACTAGTCACTAGCGCAAATGCCTTCGGGACTTAGCCCG
1 GATA-TAGTAACTCGCACAAATGCCTTCGGGACTTAGCCCG
48568827 G
1 G
48568828 TTATCATCCA
Statistics
Matches: 150, Mismatches: 9, Indels: 6
0.91 0.05 0.04
Matches are distributed among these distances:
39 2 0.01
40 111 0.74
41 37 0.25
ACGTcount: A:0.27, C:0.29, G:0.23, T:0.22
Consensus pattern (40 bp):
GATATAGTAACTCGCACAAATGCCTTCGGGACTTAGCCCG
Found at i:48576852 original size:40 final size:40
Alignment explanation
Indices: 48576782--48577039 Score: 342
Period size: 40 Copynumber: 6.5 Consensus size: 40
48576772 AAGCCAAGTA
* * * *
48576782 CCTTCGGGATTTA-ACCGGATATAGCT-ACTCGCTCGAATG
1 CCTTCGGGACTTAGCCCGGATATAG-TAACTCGCACAAATG
* * *
48576821 CCTTTGGGACATAGCCCGGATATAGTAACTCGCACCAATG
1 CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATG
*
48576861 CTTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATG
1 CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATG
* *
48576901 CCTTCGGGACTTAGCCCAGATATAGTAACTCACACAAATG
1 CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATG
48576941 CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATG
1 CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATG
* * * * *
48576981 CCTTCGGAACTTAGCCTGGA-ACTAGTCACTAGCGCAAATG
1 CCTTCGGGACTTAGCCCGGATA-TAGTAACTCGCACAAATG
48577021 CCTTCGGGACTTAGCCCGG
1 CCTTCGGGACTTAGCCCGG
48577040 TTATCATCCA
Statistics
Matches: 194, Mismatches: 22, Indels: 5
0.88 0.10 0.02
Matches are distributed among these distances:
39 12 0.06
40 182 0.94
ACGTcount: A:0.26, C:0.28, G:0.22, T:0.24
Consensus pattern (40 bp):
CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATG
Found at i:48593303 original size:49 final size:49
Alignment explanation
Indices: 48593230--48593470 Score: 275
Period size: 49 Copynumber: 4.9 Consensus size: 49
48593220 CGAAGCTATT
* * *
48593230 TGGTACGCATAGTAGCCTGCACTTAGTACTACACATGCGACCAATTATC
1 TGGTACACGTAGTAGCCTGCACTTAGTACTACACACGCGACCAATTATC
* * * **
48593279 CGGTACACGTAGTAGCCTGCACTTAGTACTACACACGTGACCTCACCATC
1 TGGTACACGTAGTAGCCTGCACTTAGTACTACACACGCGACC-AATTATC
* * * * *
48593329 TGATACACGTAGTAGCCTGCACTTAGTAGTACACACGTGATCGAAGTTTTC
1 TGGTACACGTAGTAGCCTGCACTTAGTACTACACACGCGA-CCAA-TTATC
* * * *
48593380 AGGTACGCATAGTAGCCTGCACTTAGTACTACACATGCGACCAATTATC
1 TGGTACACGTAGTAGCCTGCACTTAGTACTACACACGCGACCAATTATC
* * *
48593429 TGGTACGCGTAGTAGCCTACACTTAGTACTACACACGTGACC
1 TGGTACACGTAGTAGCCTGCACTTAGTACTACACACGCGACC
48593471 TCACAATAGC
Statistics
Matches: 159, Mismatches: 30, Indels: 6
0.82 0.15 0.03
Matches are distributed among these distances:
49 78 0.49
50 45 0.28
51 36 0.23
ACGTcount: A:0.28, C:0.27, G:0.20, T:0.25
Consensus pattern (49 bp):
TGGTACACGTAGTAGCCTGCACTTAGTACTACACACGCGACCAATTATC
Found at i:48593408 original size:101 final size:98
Alignment explanation
Indices: 48593239--48593470 Score: 293
Period size: 100 Copynumber: 2.3 Consensus size: 98
48593229 TTGGTACGCA
* * * *
48593239 TAGTAGCCTGCACTTAGTACTACACATGCGACCAATTATCCGGTACACGTAGTAGCCTGCACTTA
1 TAGTAGCCTGCACTTAGTACTACACACGTGACCAATTATCAGGTACACATAGTAGCCTGCACTTA
* *
48593304 GTACTACACACGTGACCTCACCATCTGATACACG
66 GTACTACACACGCGACC-AACCATCTGATACACG
* * * *
48593338 TAGTAGCCTGCACTTAGTAGTACACACGTGATCGAAGTTTTCAGGTACGCATAGTAGCCTGCACT
1 TAGTAGCCTGCACTTAGTACTACACACGTGA-CCAA-TTATCAGGTACACATAGTAGCCTGCACT
* ** * *
48593403 TAGTACTACACATGCGACCAATTATCTGGTACGCG
64 TAGTACTACACACGCGACCAACCATCTGATACACG
*
48593438 TAGTAGCCTACACTTAGTACTACACACGTGACC
1 TAGTAGCCTGCACTTAGTACTACACACGTGACC
48593471 TCACAATAGC
Statistics
Matches: 113, Mismatches: 18, Indels: 4
0.84 0.13 0.03
Matches are distributed among these distances:
99 29 0.26
100 43 0.38
101 41 0.36
ACGTcount: A:0.28, C:0.28, G:0.19, T:0.25
Consensus pattern (98 bp):
TAGTAGCCTGCACTTAGTACTACACACGTGACCAATTATCAGGTACACATAGTAGCCTGCACTTA
GTACTACACACGCGACCAACCATCTGATACACG
Found at i:48603240 original size:8 final size:8
Alignment explanation
Indices: 48603227--48603251 Score: 50
Period size: 8 Copynumber: 3.1 Consensus size: 8
48603217 TTAGAGTAGG
48603227 CCCATGAT
1 CCCATGAT
48603235 CCCATGAT
1 CCCATGAT
48603243 CCCATGAT
1 CCCATGAT
48603251 C
1 C
48603252 TTTTCCCTCT
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
8 17 1.00
ACGTcount: A:0.24, C:0.40, G:0.12, T:0.24
Consensus pattern (8 bp):
CCCATGAT
Found at i:48611102 original size:39 final size:40
Alignment explanation
Indices: 48611002--48611186 Score: 200
Period size: 40 Copynumber: 4.7 Consensus size: 40
48610992 TCGAATGATG
* * * *
48611002 TCCGGGCTAAGTCCTGAAGGC-TTTGTGCTAAGTGAC-CAT
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGC-GAGTTACTAAT
*
48611041 ATCCGGACTAAGAT-CCGAAGGCATTTGTGCGAGTTACTAAT
1 -TCCGGGCTAAG-TCCCGAAGGCATTTGTGCGAGTTACTAAT
* * *
48611082 TCCAGGCTAAG-CCCGAAGGCATTGGTGCGAGTTACTAAA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAT
*
48611121 TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTACT-AT
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAT
* *
48611160 AACCGGGCTATGTCCCGAAGGCATTTG
1 -TCCGGGCTAAGTCCCGAAGGCATTTG
48611187 GACGAGTAGC
Statistics
Matches: 123, Mismatches: 16, Indels: 12
0.81 0.11 0.08
Matches are distributed among these distances:
39 35 0.28
40 78 0.63
41 10 0.08
ACGTcount: A:0.24, C:0.22, G:0.28, T:0.26
Consensus pattern (40 bp):
TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAT
Found at i:48611217 original size:79 final size:79
Alignment explanation
Indices: 48611041--48611219 Score: 197
Period size: 79 Copynumber: 2.3 Consensus size: 79
48611031 AAGTGACCAT
* *
48611041 ATCCGGACTAAGA-TCCGAAGGCATTTGTGCGAGTTACTAATTCCAGGCTAAGCCCGAAGGCATT
1 ATCCGGATTAA-ATTCCGAAGGCATTTGTGCGAGTTACTAATACCAGGCTAAGCCCGAAGGCATT
*
48611105 GGTGCGAGTTACTAA
65 GGTACGAGTTACTAA
* * * * *
48611120 ATCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTACT-ATAACCGGGCTATGTCCCGAAGGCAT
1 ATCCGGATTAAATTCCGAAGGCATTTGTGCGAGTTACTAAT-ACCAGGCTAAG-CCCGAAGGCA-
*
48611184 TTGG-ACGAG-TAGCTAT
63 TTGGTACGAGTTA-CTAA
48611200 ATCC-GATTAAATTCCGAAGG
1 ATCCGGATTAAATTCCGAAGG
48611220 TACGTGATTT
Statistics
Matches: 83, Mismatches: 12, Indels: 10
0.79 0.11 0.10
Matches are distributed among these distances:
78 2 0.02
79 56 0.67
80 21 0.25
81 4 0.05
ACGTcount: A:0.27, C:0.21, G:0.27, T:0.25
Consensus pattern (79 bp):
ATCCGGATTAAATTCCGAAGGCATTTGTGCGAGTTACTAATACCAGGCTAAGCCCGAAGGCATTG
GTACGAGTTACTAA
Found at i:48613248 original size:19 final size:19
Alignment explanation
Indices: 48613233--48613269 Score: 65
Period size: 19 Copynumber: 1.9 Consensus size: 19
48613223 GACACGGGTG
48613233 TGTCAAGGGCACACGGGCA
1 TGTCAAGGGCACACGGGCA
*
48613252 TGTCGAGGGCACACGGGC
1 TGTCAAGGGCACACGGGC
48613270 CTATCTCCTA
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
19 17 1.00
ACGTcount: A:0.22, C:0.27, G:0.41, T:0.11
Consensus pattern (19 bp):
TGTCAAGGGCACACGGGCA
Found at i:48622027 original size:27 final size:27
Alignment explanation
Indices: 48621994--48622187 Score: 221
Period size: 27 Copynumber: 7.2 Consensus size: 27
48621984 AAAGCACTCC
*
48621994 CGATTTATAGAATTACCGTTTTACCCT
1 CGATTTACAGAATTACCGTTTTACCCT
* *
48622021 C-AGTTTACAGAATTACTGTTTTACCCA
1 CGA-TTTACAGAATTACCGTTTTACCCT
*
48622048 CGATTTACAGAATTACCATTTTACCCT
1 CGATTTACAGAATTACCGTTTTACCCT
** * *
48622075 CGATTTGTAAAATTACCATTTTACCCT
1 CGATTTACAGAATTACCGTTTTACCCT
* * *
48622102 TGATTTACAGAATTACTGGTTTACCCT
1 CGATTTACAGAATTACCGTTTTACCCT
* *
48622129 C-AGTTTACAAAATTATCGTTTTACCCT
1 CGA-TTTACAGAATTACCGTTTTACCCT
*
48622156 TGATTTACAGAATTACCGTTTTACCCT
1 CGATTTACAGAATTACCGTTTTACCCT
*
48622183 TGATT
1 CGATT
48622188 GTGAAATTAC
Statistics
Matches: 139, Mismatches: 24, Indels: 8
0.81 0.14 0.05
Matches are distributed among these distances:
26 2 0.01
27 135 0.97
28 2 0.01
ACGTcount: A:0.28, C:0.22, G:0.10, T:0.40
Consensus pattern (27 bp):
CGATTTACAGAATTACCGTTTTACCCT
Found at i:48622080 original size:81 final size:81
Alignment explanation
Indices: 48621994--48622187 Score: 248
Period size: 81 Copynumber: 2.4 Consensus size: 81
48621984 AAAGCACTCC
*
48621994 CGATTTATAGAATTACCGTTTTACCCTCAG-TTTACAGAATTACTGTTTTACCCAC-GATTTACA
1 CGATTTATAGAATTACCGTTTTACCCT-AGATTTACAGAATTACTGGTTTACCCACAG-TTTACA
*
48622057 GAATTACCATTTTACCCT
64 AAATTACCATTTTACCCT
* * * * *
48622075 CGATTTGTAAAATTACCATTTTACCCTTGATTTACAGAATTACTGGTTTACCCTCAGTTTACAAA
1 CGATTTATAGAATTACCGTTTTACCCTAGATTTACAGAATTACTGGTTTACCCACAGTTTACAAA
* *
48622140 ATTATCGTTTTACCCT
66 ATTACCATTTTACCCT
* * *
48622156 TGATTTACAGAATTACCGTTTTACCCTTGATT
1 CGATTTATAGAATTACCGTTTTACCCTAGATT
48622188 GTGAAATTAC
Statistics
Matches: 97, Mismatches: 14, Indels: 4
0.84 0.12 0.03
Matches are distributed among these distances:
80 1 0.01
81 95 0.98
82 1 0.01
ACGTcount: A:0.28, C:0.22, G:0.10, T:0.40
Consensus pattern (81 bp):
CGATTTATAGAATTACCGTTTTACCCTAGATTTACAGAATTACTGGTTTACCCACAGTTTACAAA
ATTACCATTTTACCCT
Found at i:48622222 original size:27 final size:27
Alignment explanation
Indices: 48622192--48622387 Score: 221
Period size: 27 Copynumber: 7.3 Consensus size: 27
48622182 TTGATTGTGA
*
48622192 AATTACTGAAATACCCCTATAGGGTAG
1 AATTACCGAAATACCCCTATAGGGTAG
* *
48622219 AATTTCAGAAATACCCCTATAGGGTAG
1 AATTACCGAAATACCCCTATAGGGTAG
* * *
48622246 AATTACTGAAATACCCTTATAGGATAG
1 AATTACCGAAATACCCCTATAGGGTAG
* *
48622273 AATTACCAAAATACCCCTGTAGGGTAG
1 AATTACCGAAATACCCCTATAGGGTAG
* * *
48622300 AATTATCGAAATACCCTTGTAGGGTAG
1 AATTACCGAAATACCCCTATAGGGTAG
* * *
48622327 AAATACCGAAATACCCCTGTAAGGTAG
1 AATTACCGAAATACCCCTATAGGGTAG
* * * * *
48622354 AATTACCGAGATACCCTTGTGGGGTAA
1 AATTACCGAAATACCCCTATAGGGTAG
48622381 AATTACC
1 AATTACC
48622388 ATTTTGCCCC
Statistics
Matches: 145, Mismatches: 24, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
27 145 1.00
ACGTcount: A:0.37, C:0.19, G:0.19, T:0.26
Consensus pattern (27 bp):
AATTACCGAAATACCCCTATAGGGTAG
Found at i:48622630 original size:27 final size:26
Alignment explanation
Indices: 48622592--48622668 Score: 100
Period size: 27 Copynumber: 2.9 Consensus size: 26
48622582 AAGCGTTCTA
*
48622592 GTGGCTATGCCACAAATATCTGTTATG
1 GTGGCTCTGCCAC-AATATCTGTTATG
*
48622619 GTGGCTCTGCCACAATATCTGTATTTG
1 GTGGCTCTGCCACAATATCTGT-TATG
* *
48622646 GTGACTCTGTCACAATATCTGTT
1 GTGGCTCTGCCACAATATCTGTT
48622669 GACCGATCGA
Statistics
Matches: 45, Mismatches: 4, Indels: 3
0.87 0.08 0.06
Matches are distributed among these distances:
26 10 0.22
27 35 0.78
ACGTcount: A:0.22, C:0.21, G:0.21, T:0.36
Consensus pattern (26 bp):
GTGGCTCTGCCACAATATCTGTTATG
Found at i:48622788 original size:22 final size:22
Alignment explanation
Indices: 48622756--48622814 Score: 64
Period size: 22 Copynumber: 2.7 Consensus size: 22
48622746 CCCGTTATTA
*
48622756 ATGGCTCTGTGCCAACCTAAAT
1 ATGGCTTTGTGCCAACCTAAAT
* * * *
48622778 ATGGCTTTGTGCCATCTTGACT
1 ATGGCTTTGTGCCAACCTAAAT
*
48622800 ATGGCTTCGTGCCAA
1 ATGGCTTTGTGCCAA
48622815 ACGTATTTAC
Statistics
Matches: 30, Mismatches: 7, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
22 30 1.00
ACGTcount: A:0.20, C:0.25, G:0.22, T:0.32
Consensus pattern (22 bp):
ATGGCTTTGTGCCAACCTAAAT
Found at i:48623001 original size:27 final size:27
Alignment explanation
Indices: 48622979--48623052 Score: 98
Period size: 27 Copynumber: 2.8 Consensus size: 27
48622969 TAGGTGGGTT
*
48622979 TGCCACATTATCTG-ATTCTGGTGGCTC
1 TGCCACAATATCTGTA-TCTGGTGGCTC
*
48623006 TGCCACAATATCTGTATCTGGTGACTC
1 TGCCACAATATCTGTATCTGGTGGCTC
*
48623033 TGTCACAATATCTGT-TCTGG
1 TGCCACAATATCTGTATCTGG
48623053 CAGCCATGCT
Statistics
Matches: 43, Mismatches: 3, Indels: 3
0.88 0.06 0.06
Matches are distributed among these distances:
26 5 0.12
27 37 0.86
28 1 0.02
ACGTcount: A:0.19, C:0.24, G:0.20, T:0.36
Consensus pattern (27 bp):
TGCCACAATATCTGTATCTGGTGGCTC
Found at i:48623179 original size:6 final size:6
Alignment explanation
Indices: 48623170--48623356 Score: 174
Period size: 6 Copynumber: 30.8 Consensus size: 6
48623160 TTGCATTCAC
48623170 ATTCTG ATTCTG ATTCTG --TCATG TAATTCTG ATTCTG ATTCTG ATTCTG
1 ATTCTG ATTCTG ATTCTG ATTC-TG --ATTCTG ATTCTG ATTCTG ATTCTG
* *
48623219 -TTACTA ATACTG ATTCTG ATTCTG ATTCTG -TTACTG ATTCTG ATTCTG
1 ATT-CTG ATTCTG ATTCTG ATTCTG ATTCTG ATT-CTG ATTCTG ATTCTG
* * *
48623267 ATTCT- ATCACCTA ATTCTG ATTCTG ATTCTG ATTCTG -TTACTA ATAT-TG
1 ATTCTG AT--TCTG ATTCTG ATTCTG ATTCTG ATTCTG ATT-CTG AT-TCTG
*
48623316 ATTCTG ATTCTG ATTCTG -TTACTG ATTCTG ATTCTA ATTCT
1 ATTCTG ATTCTG ATTCTG ATT-CTG ATTCTG ATTCTG ATTCT
48623357 CATTTTGGTT
Statistics
Matches: 153, Mismatches: 10, Indels: 36
0.77 0.05 0.18
Matches are distributed among these distances:
4 2 0.01
5 13 0.08
6 123 0.80
7 8 0.05
8 5 0.03
9 2 0.01
ACGTcount: A:0.21, C:0.17, G:0.13, T:0.49
Consensus pattern (6 bp):
ATTCTG
Found at i:48623234 original size:30 final size:30
Alignment explanation
Indices: 48623170--48623356 Score: 224
Period size: 30 Copynumber: 6.4 Consensus size: 30
48623160 TTGCATTCAC
* * *
48623170 ATTCTGATTCTGATTCTGTCATGTAATTCTG
1 ATTCTGATTCTGATTCTGTTA-CTAATACTG
48623201 ATTCTGATTCTGATTCTGTTACTAATACTG
1 ATTCTGATTCTGATTCTGTTACTAATACTG
48623231 ATTCTGATTCTGATTCTG----T--TACTG
1 ATTCTGATTCTGATTCTGTTACTAATACTG
* * *
48623255 ATTCTGATTCTGATTCTATCACCTAATTCTG
1 ATTCTGATTCTGATTCTGTTA-CTAATACTG
*
48623286 ATTCTGATTCTGATTCTGTTACTAATATTG
1 ATTCTGATTCTGATTCTGTTACTAATACTG
* *
48623316 ATTCTGATTCTGATTCTGTTACTGATTCTG
1 ATTCTGATTCTGATTCTGTTACTAATACTG
*
48623346 ATTCTAATTCT
1 ATTCTGATTCT
48623357 CATTTTGGTT
Statistics
Matches: 136, Mismatches: 13, Indels: 15
0.83 0.08 0.09
Matches are distributed among these distances:
24 22 0.16
26 1 0.01
29 1 0.01
30 69 0.51
31 43 0.32
ACGTcount: A:0.21, C:0.17, G:0.13, T:0.49
Consensus pattern (30 bp):
ATTCTGATTCTGATTCTGTTACTAATACTG
Found at i:48623310 original size:85 final size:85
Alignment explanation
Indices: 48623170--48623356 Score: 329
Period size: 85 Copynumber: 2.2 Consensus size: 85
48623160 TTGCATTCAC
* **
48623170 ATTCTGATTCTGATTCTGTCATGTAATTCTGATTCTGATTCTGATTCTGTTACTAATACTGATTC
1 ATTCTGATTCTGATTCTATCACCTAATTCTGATTCTGATTCTGATTCTGTTACTAATACTGATTC
48623235 TGATTCTGATTCTGTTACTG
66 TGATTCTGATTCTGTTACTG
*
48623255 ATTCTGATTCTGATTCTATCACCTAATTCTGATTCTGATTCTGATTCTGTTACTAATATTGATTC
1 ATTCTGATTCTGATTCTATCACCTAATTCTGATTCTGATTCTGATTCTGTTACTAATACTGATTC
48623320 TGATTCTGATTCTGTTACTG
66 TGATTCTGATTCTGTTACTG
*
48623340 ATTCTGATTCTAATTCT
1 ATTCTGATTCTGATTCT
48623357 CATTTTGGTT
Statistics
Matches: 97, Mismatches: 5, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
85 97 1.00
ACGTcount: A:0.21, C:0.17, G:0.13, T:0.49
Consensus pattern (85 bp):
ATTCTGATTCTGATTCTATCACCTAATTCTGATTCTGATTCTGATTCTGTTACTAATACTGATTC
TGATTCTGATTCTGTTACTG
Found at i:48624256 original size:16 final size:16
Alignment explanation
Indices: 48624235--48624266 Score: 55
Period size: 16 Copynumber: 2.0 Consensus size: 16
48624225 TGAGTATGTG
48624235 GTAATCATGAGATTTA
1 GTAATCATGAGATTTA
*
48624251 GTAATCATGATATTTA
1 GTAATCATGAGATTTA
48624267 ATGCAAACTG
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
16 15 1.00
ACGTcount: A:0.38, C:0.06, G:0.16, T:0.41
Consensus pattern (16 bp):
GTAATCATGAGATTTA
Found at i:48625614 original size:27 final size:27
Alignment explanation
Indices: 48625584--48625716 Score: 95
Period size: 27 Copynumber: 4.9 Consensus size: 27
48625574 AATGCCCTCA
*
48625584 ATTTGTAAAATTACCAAAGTACCCCCG
1 ATTTGTAAAATTACCAAAATACCCCCG
* * **** **
48625611 ATTTATAGAATTACCGTTTTACCCTTG
1 ATTTGTAAAATTACCAAAATACCCCCG
* ** *
48625638 GTTTACAAAATTACCAAAATACCCTCG
1 ATTTGTAAAATTACCAAAATACCCCCG
** * *
48625665 ATCAGGAAAATTACCAAAATACCCCTG
1 ATTTGTAAAATTACCAAAATACCCCCG
* *
48625692 GTTTGTAAAACTACCAAAATACCCC
1 ATTTGTAAAATTACCAAAATACCCC
48625717 TGTAGGGTAG
Statistics
Matches: 78, Mismatches: 28, Indels: 0
0.74 0.26 0.00
Matches are distributed among these distances:
27 78 1.00
ACGTcount: A:0.38, C:0.25, G:0.10, T:0.28
Consensus pattern (27 bp):
ATTTGTAAAATTACCAAAATACCCCCG
Found at i:48625738 original size:27 final size:27
Alignment explanation
Indices: 48625703--48626030 Score: 449
Period size: 27 Copynumber: 12.1 Consensus size: 27
48625693 TTTGTAAAAC
*
48625703 TACCAAAATACCCCTGTAGGGTAGAAT
1 TACCGAAATACCCCTGTAGGGTAGAAT
* * *
48625730 TACTGAAATACCCTTGTAGGGTAGAAA
1 TACCGAAATACCCCTGTAGGGTAGAAT
*
48625757 TACTGAAATACCCCTGTAGGGTAGAAT
1 TACCGAAATACCCCTGTAGGGTAGAAT
* * * *
48625784 TATCGAAATACCCTTATAGGGTAGAAC
1 TACCGAAATACCCCTGTAGGGTAGAAT
* * *
48625811 TACCGAAATACCCTTGTAGGTTAGAAA
1 TACCGAAATACCCCTGTAGGGTAGAAT
* *
48625838 TACCGAAATACCCTTGTAGGGTAGAAA
1 TACCGAAATACCCCTGTAGGGTAGAAT
*
48625865 TACCGAAATACCCCTGTAGGGTAGAAA
1 TACCGAAATACCCCTGTAGGGTAGAAT
*
48625892 TACTGAAATACCCCTGTAGGGTAGAAT
1 TACCGAAATACCCCTGTAGGGTAGAAT
* *
48625919 TACTGAAATACCCTTGTAGGGTAGAAT
1 TACCGAAATACCCCTGTAGGGTAGAAT
*
48625946 TACCGAAATACCTCTGTAGGGTAGAAT
1 TACCGAAATACCCCTGTAGGGTAGAAT
48625973 TACCGAAATACCCCTGTAGGGTAGAAT
1 TACCGAAATACCCCTGTAGGGTAGAAT
* * * *
48626000 TACCGAGATACCCTTGTGGGGTAAAAT
1 TACCGAAATACCCCTGTAGGGTAGAAT
48626027 TACC
1 TACC
48626031 ATTTTGCCCC
Statistics
Matches: 273, Mismatches: 28, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
27 273 1.00
ACGTcount: A:0.35, C:0.19, G:0.21, T:0.25
Consensus pattern (27 bp):
TACCGAAATACCCCTGTAGGGTAGAAT
Found at i:48626193 original size:16 final size:16
Alignment explanation
Indices: 48626172--48626202 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
48626162 CAAATATGGG
*
48626172 CATGACATTTTGCATA
1 CATGACATGTTGCATA
48626188 CATGACATGTTGCAT
1 CATGACATGTTGCAT
48626203 GGGTTGTGTT
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
16 14 1.00
ACGTcount: A:0.29, C:0.19, G:0.16, T:0.35
Consensus pattern (16 bp):
CATGACATGTTGCATA
Found at i:48626271 original size:25 final size:25
Alignment explanation
Indices: 48626233--48626302 Score: 104
Period size: 25 Copynumber: 2.8 Consensus size: 25
48626223 AGGAAGTGCT
* *
48626233 AAAAGGGCTATGCCCTAGTTTACCG
1 AAAAGGGCTTTGCCCTAGTTTACCA
*
48626258 AAAAGGGCTTTGCCCTAGTTTATCA
1 AAAAGGGCTTTGCCCTAGTTTACCA
*
48626283 AAAAGGGCTTTGCCCCAGTT
1 AAAAGGGCTTTGCCCTAGTT
48626303 ATTAAAAGAG
Statistics
Matches: 41, Mismatches: 4, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
25 41 1.00
ACGTcount: A:0.27, C:0.23, G:0.23, T:0.27
Consensus pattern (25 bp):
AAAAGGGCTTTGCCCTAGTTTACCA
Found at i:48626315 original size:24 final size:24
Alignment explanation
Indices: 48626258--48626329 Score: 67
Period size: 25 Copynumber: 3.0 Consensus size: 24
48626248 TAGTTTACCG
*
48626258 AAAAG-GGCTTTGCCCTAGTTTATC
1 AAAAGAGGCTTTGCCCCAG-TTATC
*
48626282 AAAA-AGGGCTTTGCCCCAGTTATT
1 AAAAGA-GGCTTTGCCCCAGTTATC
**
48626306 AAAAGAGGCTAGGCCTCCAGTTAT
1 AAAAGAGGCTTTGCC-CCAGTTAT
48626330 ATGATAAAGC
Statistics
Matches: 40, Mismatches: 4, Indels: 7
0.78 0.08 0.14
Matches are distributed among these distances:
24 19 0.47
25 21 0.52
ACGTcount: A:0.29, C:0.21, G:0.22, T:0.28
Consensus pattern (24 bp):
AAAAGAGGCTTTGCCCCAGTTATC
Found at i:48628864 original size:12 final size:12
Alignment explanation
Indices: 48628847--48628873 Score: 54
Period size: 12 Copynumber: 2.2 Consensus size: 12
48628837 ATTCCGAAGT
48628847 ATATATATATAC
1 ATATATATATAC
48628859 ATATATATATAC
1 ATATATATATAC
48628871 ATA
1 ATA
48628874 AGTATGCCCA
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 15 1.00
ACGTcount: A:0.52, C:0.07, G:0.00, T:0.41
Consensus pattern (12 bp):
ATATATATATAC
Found at i:48629432 original size:27 final size:28
Alignment explanation
Indices: 48629320--48629445 Score: 191
Period size: 28 Copynumber: 4.5 Consensus size: 28
48629310 CATGAGATTG
* * * *
48629320 GCACTAAGTGTGCGGGTTTAAATTGTACA
1 GCACTAAGTGTGCGAGTTT-GATTATATA
48629349 GCACTAAGTGTGCGAGTTTGATTATATA
1 GCACTAAGTGTGCGAGTTTGATTATATA
48629377 GCACTAAGTGTGCGAGTTTGATTATATA
1 GCACTAAGTGTGCGAGTTTGATTATATA
48629405 GCACTAAGTGTGCGAG-TTGATTATATA
1 GCACTAAGTGTGCGAGTTTGATTATATA
*
48629432 GCACTGAGTGTGCG
1 GCACTAAGTGTGCG
48629446 GACTTAATAT
Statistics
Matches: 92, Mismatches: 5, Indels: 2
0.93 0.05 0.02
Matches are distributed among these distances:
27 24 0.26
28 50 0.54
29 18 0.20
ACGTcount: A:0.27, C:0.13, G:0.28, T:0.33
Consensus pattern (28 bp):
GCACTAAGTGTGCGAGTTTGATTATATA
Found at i:48629442 original size:55 final size:57
Alignment explanation
Indices: 48629320--48629445 Score: 193
Period size: 55 Copynumber: 2.2 Consensus size: 57
48629310 CATGAGATTG
* *
48629320 GCACTAAGTGTGCGGGTTTAAATTGTACAGCACTAAGTGTGCGAGTTTGATTATATA
1 GCACTAAGTGTGCGAGTTTAAATTATACAGCACTAAGTGTGCGAGTTTGATTATATA
* *
48629377 GCACTAAGTGTGCGAGTTT-GATTATATAGCACTAAGTGTGCGAG-TTGATTATATA
1 GCACTAAGTGTGCGAGTTTAAATTATACAGCACTAAGTGTGCGAGTTTGATTATATA
*
48629432 GCACTGAGTGTGCG
1 GCACTAAGTGTGCG
48629446 GACTTAATAT
Statistics
Matches: 64, Mismatches: 5, Indels: 2
0.90 0.07 0.03
Matches are distributed among these distances:
55 24 0.38
56 22 0.34
57 18 0.28
ACGTcount: A:0.27, C:0.13, G:0.28, T:0.33
Consensus pattern (57 bp):
GCACTAAGTGTGCGAGTTTAAATTATACAGCACTAAGTGTGCGAGTTTGATTATATA
Found at i:48629456 original size:27 final size:27
Alignment explanation
Indices: 48629348--48629458 Score: 143
Period size: 28 Copynumber: 4.0 Consensus size: 27
48629338 TAAATTGTAC
*
48629348 AGCACTAAGTGTGCGAGTTTGATTATAT
1 AGCACTAAGTGTGCGA-CTTGATTATAT
*
48629376 AGCACTAAGTGTGCGAGTTTGATTATAT
1 AGCACTAAGTGTGCGA-CTTGATTATAT
*
48629404 AGCACTAAGTGTGCGAGTTGATTATAT
1 AGCACTAAGTGTGCGACTTGATTATAT
* *
48629431 AGCACTGAGTGTGCGGACTT-AATATAT
1 AGCACTAAGTGTGC-GACTTGATTATAT
48629458 A
1 A
48629459 CTTTTGAATC
Statistics
Matches: 78, Mismatches: 4, Indels: 3
0.92 0.05 0.04
Matches are distributed among these distances:
27 30 0.38
28 48 0.62
ACGTcount: A:0.30, C:0.12, G:0.25, T:0.33
Consensus pattern (27 bp):
AGCACTAAGTGTGCGACTTGATTATAT
Found at i:48644636 original size:22 final size:22
Alignment explanation
Indices: 48644608--48644654 Score: 94
Period size: 22 Copynumber: 2.1 Consensus size: 22
48644598 GTTAATATCG
48644608 TAATTTGATAATTATATTAAAT
1 TAATTTGATAATTATATTAAAT
48644630 TAATTTGATAATTATATTAAAT
1 TAATTTGATAATTATATTAAAT
48644652 TAA
1 TAA
48644655 ATAAAACAAA
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
22 25 1.00
ACGTcount: A:0.47, C:0.00, G:0.04, T:0.49
Consensus pattern (22 bp):
TAATTTGATAATTATATTAAAT
Found at i:48645627 original size:25 final size:25
Alignment explanation
Indices: 48645539--48645630 Score: 78
Period size: 25 Copynumber: 3.7 Consensus size: 25
48645529 TACCAATTGT
* *
48645539 AGCTCATGA-GAGCTTACCGATTCTC
1 AGCTCAT-ATGAGCATACCGATTCAC
* * * *
48645564 AGATCATATGAGCTTATCGATTTAC
1 AGCTCATATGAGCATACCGATTCAC
** **
48645589 AGCTTGTAAAAGCATACCGATTCAC
1 AGCTCATATGAGCATACCGATTCAC
48645614 AGCTCATATGAGCATAC
1 AGCTCATATGAGCATAC
48645631 ATGTACATGA
Statistics
Matches: 50, Mismatches: 16, Indels: 2
0.74 0.24 0.03
Matches are distributed among these distances:
24 1 0.02
25 49 0.98
ACGTcount: A:0.32, C:0.23, G:0.17, T:0.28
Consensus pattern (25 bp):
AGCTCATATGAGCATACCGATTCAC
Found at i:48646500 original size:24 final size:24
Alignment explanation
Indices: 48646468--48646516 Score: 98
Period size: 24 Copynumber: 2.0 Consensus size: 24
48646458 GATTGATATG
48646468 AATAAAGTTTATACAAGCTTACTA
1 AATAAAGTTTATACAAGCTTACTA
48646492 AATAAAGTTTATACAAGCTTACTA
1 AATAAAGTTTATACAAGCTTACTA
48646516 A
1 A
48646517 GCATTCATTT
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
24 25 1.00
ACGTcount: A:0.47, C:0.12, G:0.08, T:0.33
Consensus pattern (24 bp):
AATAAAGTTTATACAAGCTTACTA
Found at i:48646784 original size:15 final size:16
Alignment explanation
Indices: 48646764--48646793 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
48646754 TGGTGCCTTG
48646764 TTGAT-ATGTGTTAAT
1 TTGATAATGTGTTAAT
48646779 TTGATAATGTGTTAA
1 TTGATAATGTGTTAA
48646794 AGCATGTTTG
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
15 5 0.36
16 9 0.64
ACGTcount: A:0.30, C:0.00, G:0.20, T:0.50
Consensus pattern (16 bp):
TTGATAATGTGTTAAT
Found at i:48647403 original size:116 final size:116
Alignment explanation
Indices: 48647199--48647433 Score: 452
Period size: 116 Copynumber: 2.0 Consensus size: 116
48647189 TATTATAAAT
*
48647199 GGTCTTTTGATATGTTTGAATGTGGTGAATTGGTATAATTGTTATAGTTGACATGAATGGCTATT
1 GGTCTTTTGATATGTTTGAATGTGGTGAATTGGTATAATTGTTATAGATGACATGAATGGCTATT
48647264 GGTGCTAGATGTAAAATGGCATATTTGGTACTTTTAGTGTGAAATTTGATA
66 GGTGCTAGATGTAAAATGGCATATTTGGTACTTTTAGTGTGAAATTTGATA
48647315 GGTCTTTTGATATGTTTGAATGTGGTGAATTGGTATAATTGTTATAGATGACATGAATGGCTATT
1 GGTCTTTTGATATGTTTGAATGTGGTGAATTGGTATAATTGTTATAGATGACATGAATGGCTATT
*
48647380 GGTGCTAGATGTAAAATGGCATATTTGGTACTTTTGGTGTGAAATTTGATA
66 GGTGCTAGATGTAAAATGGCATATTTGGTACTTTTAGTGTGAAATTTGATA
48647431 GGT
1 GGT
48647434 AAACAAAGTG
Statistics
Matches: 117, Mismatches: 2, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
116 117 1.00
ACGTcount: A:0.26, C:0.05, G:0.27, T:0.42
Consensus pattern (116 bp):
GGTCTTTTGATATGTTTGAATGTGGTGAATTGGTATAATTGTTATAGATGACATGAATGGCTATT
GGTGCTAGATGTAAAATGGCATATTTGGTACTTTTAGTGTGAAATTTGATA
Found at i:48651752 original size:41 final size:43
Alignment explanation
Indices: 48651693--48651789 Score: 108
Period size: 44 Copynumber: 2.3 Consensus size: 43
48651683 GCGAATTGAA
** *
48651693 ATAGCTTCGATTGTATGTG-A-CACTAAGTGTGCGATACCGAG
1 ATAGCTTCGATTCAATGTGAAGCACTAAGTGTGCAATACCGAG
* * **
48651734 ATAGCTTCGATTCAATGTGATAGTACTAAGTGTGCAATATCGTT
1 ATAGCTTCGATTCAATGTGA-AGCACTAAGTGTGCAATACCGAG
48651778 ATAGCTTCGATT
1 ATAGCTTCGATT
48651790 AAACATATAT
Statistics
Matches: 46, Mismatches: 7, Indels: 3
0.82 0.12 0.05
Matches are distributed among these distances:
41 17 0.37
43 1 0.02
44 28 0.61
ACGTcount: A:0.28, C:0.15, G:0.23, T:0.34
Consensus pattern (43 bp):
ATAGCTTCGATTCAATGTGAAGCACTAAGTGTGCAATACCGAG
Found at i:48651806 original size:44 final size:44
Alignment explanation
Indices: 48651713--48651812 Score: 112
Period size: 44 Copynumber: 2.3 Consensus size: 44
48651703 TTGTATGTGA
* * **
48651713 CACTAAGTGTGCGATACCGAGATAGCTTCGATTCAATGTGATAG
1 CACTAAGTGTGCAATACCGAGATAGCTTCGATTAAACATGATAG
* * **
48651757 TACTAAGTGTGCAATATCGTTATAGCTTCGATTAAACAT-ATATG
1 CACTAAGTGTGCAATACCGAGATAGCTTCGATTAAACATGATA-G
48651801 CACTAAGTGTGC
1 CACTAAGTGTGC
48651813 GAGTTCTTAA
Statistics
Matches: 46, Mismatches: 9, Indels: 2
0.81 0.16 0.04
Matches are distributed among these distances:
43 3 0.07
44 43 0.93
ACGTcount: A:0.31, C:0.17, G:0.21, T:0.31
Consensus pattern (44 bp):
CACTAAGTGTGCAATACCGAGATAGCTTCGATTAAACATGATAG
Found at i:48652709 original size:30 final size:30
Alignment explanation
Indices: 48652676--48652772 Score: 115
Period size: 30 Copynumber: 3.2 Consensus size: 30
48652666 TATGTCTCAG
*
48652676 CCGTGTGTGACACATGGTCATGTTACAC-A
1 CCGTGTGCGACACATGGTCATGTTACACGA
* * * *
48652705 GCCGTGTGCGCCACACGGGCATGTTACACGC
1 -CCGTGTGCGACACATGGTCATGTTACACGA
* *
48652736 CCTTATGCGACACATGGTCATGTTACACGA
1 CCGTGTGCGACACATGGTCATGTTACACGA
48652766 CCGTGTG
1 CCGTGTG
48652773 ACCCCTAGAG
Statistics
Matches: 53, Mismatches: 13, Indels: 2
0.78 0.19 0.03
Matches are distributed among these distances:
30 53 1.00
ACGTcount: A:0.21, C:0.29, G:0.27, T:0.24
Consensus pattern (30 bp):
CCGTGTGCGACACATGGTCATGTTACACGA
Found at i:48659125 original size:50 final size:50
Alignment explanation
Indices: 48659064--48659391 Score: 307
Period size: 50 Copynumber: 6.5 Consensus size: 50
48659054 TTACGTCACG
* * *
48659064 TGTGTAGTACTAAGTGTAGGCTACTACGTGTACCAGATTGTTAGGTCGTA
1 TGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGATTGATAGGTCGCA
* * * * * * * ***
48659114 TGTGTAGTACTAAGTGCAAGCTACTATGTGTACCAAATAGTTTCGATCATG
1 TGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGATTG-ATAGGTCGCA
* * *
48659165 TGTGTAGTACTAATTGCAGGCTACTACGTGTACCGGATTGATAAGTCGCA
1 TGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGATTGATAGGTCGCA
* * * * * * * *
48659215 TGTGTAGTACTAAGTGCAGGCTACTATGCGTACC-CATTAACTTCGATCACG
1 TGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGATTGA--TAGGTCGCA
* * * * * *
48659266 TTTGTAGTACTAAGTGCAGGCTACTACGTGTATCAGATGGATAAGTCACG
1 TGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGATTGATAGGTCGCA
* * *
48659316 TGTGTAGTACTAAGTGTAGGCTACTACTTGTACCAGATTGATAGGTTGCA
1 TGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGATTGATAGGTCGCA
* *
48659366 TGTGTAATACTAAGTGCAGGATACTA
1 TGTGTAGTACTAAGTGCAGGCTACTA
48659392 TGCCTACCAG
Statistics
Matches: 220, Mismatches: 54, Indels: 8
0.78 0.19 0.03
Matches are distributed among these distances:
49 4 0.02
50 139 0.63
51 74 0.34
52 3 0.01
ACGTcount: A:0.27, C:0.16, G:0.25, T:0.32
Consensus pattern (50 bp):
TGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGATTGATAGGTCGCA
Found at i:48659218 original size:101 final size:101
Alignment explanation
Indices: 48659059--48659350 Score: 397
Period size: 101 Copynumber: 2.9 Consensus size: 101
48659049 CAGTTTTACG
* * * *
48659059 TCACGTGTGTAGTACTAAGTGTAGGCTACTACGTGTACCAGATTGTTAGGTCGTATGTGTAGTAC
1 TCACGTGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGATTGATAAGTCGCATGTGTAGTAC
* **
48659124 TAAGTGCAAGCTACTATGTGTACCAAATAGTTTCGA
66 TAAGTGCAGGCTACTATGTGTACCAAATAACTTCGA
* * *
48659160 TCATGTGTGTAGTACTAATTGCAGGCTACTACGTGTACCGGATTGATAAGTCGCATGTGTAGTAC
1 TCACGTGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGATTGATAAGTCGCATGTGTAGTAC
* * *
48659225 TAAGTGCAGGCTACTATGCGTACCCATTAACTTCGA
66 TAAGTGCAGGCTACTATGTGTACCAAATAACTTCGA
* * * * *
48659261 TCACGTTTGTAGTACTAAGTGCAGGCTACTACGTGTATCAGATGGATAAGTCACGTGTGTAGTAC
1 TCACGTGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGATTGATAAGTCGCATGTGTAGTAC
*
48659326 TAAGTGTAGGCTACTACT-TGTACCA
66 TAAGTGCAGGCTACTA-TGTGTACCA
48659351 GATTGATAGG
Statistics
Matches: 166, Mismatches: 24, Indels: 2
0.86 0.12 0.01
Matches are distributed among these distances:
101 165 0.99
102 1 0.01
ACGTcount: A:0.26, C:0.18, G:0.24, T:0.32
Consensus pattern (101 bp):
TCACGTGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGATTGATAAGTCGCATGTGTAGTAC
TAAGTGCAGGCTACTATGTGTACCAAATAACTTCGA
Found at i:48659319 original size:151 final size:152
Alignment explanation
Indices: 48659116--48659399 Score: 399
Period size: 151 Copynumber: 1.9 Consensus size: 152
48659106 AGGTCGTATG
* * ** * *
48659116 TGTAGTACTAAGTGCAAGCTACTATGTGTACCAAATAGTTTCGATCATGTGTGTAGTACTAATTG
1 TGTAGTACTAAGTGCAAGCTACTACGTGTACCAAATAGATAAGATCACGTGTGTAGTACTAAGTG
* * * *
48659181 CAGGCTACTACGTGTACCGGATTGATAAGTCGCATGTGTAGTACTAAGTGCAGGCTACTATGCGT
66 CAGGCTACTACGTGTACCAGATTGATAAGTCGCATGTGTAATACTAAGTGCAGGATACTATGCCT
48659246 ACCCATTAACTTCGATCACGTT
131 ACCCATTAACTTCGATCACGTT
* * * *
48659268 TGTAGTACTAAGTGCAGGCTACTACGTGTATCAGATGGATAAG-TCACGTGTGTAGTACTAAGTG
1 TGTAGTACTAAGTGCAAGCTACTACGTGTACCAAATAGATAAGATCACGTGTGTAGTACTAAGTG
* * * *
48659332 TAGGCTACTACTTGTACCAGATTGATAGGTTGCATGTGTAATACTAAGTGCAGGATACTATGCCT
66 CAGGCTACTACGTGTACCAGATTGATAAGTCGCATGTGTAATACTAAGTGCAGGATACTATGCCT
48659397 ACC
131 ACC
48659400 AGAGAGCTTC
Statistics
Matches: 114, Mismatches: 18, Indels: 1
0.86 0.14 0.01
Matches are distributed among these distances:
151 79 0.69
152 35 0.31
ACGTcount: A:0.27, C:0.18, G:0.24, T:0.31
Consensus pattern (152 bp):
TGTAGTACTAAGTGCAAGCTACTACGTGTACCAAATAGATAAGATCACGTGTGTAGTACTAAGTG
CAGGCTACTACGTGTACCAGATTGATAAGTCGCATGTGTAATACTAAGTGCAGGATACTATGCCT
ACCCATTAACTTCGATCACGTT
Found at i:48664118 original size:44 final size:43
Alignment explanation
Indices: 48664051--48664138 Score: 140
Period size: 44 Copynumber: 2.0 Consensus size: 43
48664041 CCCAGTTTCC
* * *
48664051 ATACTTTGATAACTTCTCCGATTAATCCCCAAAATAGATAGATT
1 ATACTTTAATAACTTCTCAGATTAATCCCC-AAATAAATAGATT
48664095 ATACTTTAATAACTTCTCAGATTAATCCCCAAATAAATAGATT
1 ATACTTTAATAACTTCTCAGATTAATCCCCAAATAAATAGATT
48664138 A
1 A
48664139 AGTTATCCCG
Statistics
Matches: 41, Mismatches: 3, Indels: 1
0.91 0.07 0.02
Matches are distributed among these distances:
43 13 0.32
44 28 0.68
ACGTcount: A:0.40, C:0.19, G:0.07, T:0.34
Consensus pattern (43 bp):
ATACTTTAATAACTTCTCAGATTAATCCCCAAATAAATAGATT
Found at i:48671617 original size:27 final size:27
Alignment explanation
Indices: 48671587--48671791 Score: 259
Period size: 27 Copynumber: 7.6 Consensus size: 27
48671577 ATATTGAGTC
* * * *
48671587 CGCACACTCAGTGCTATATAATCAACT
1 CGCACACTTAGTGCTACATAGTCAAAT
* *
48671614 CGCACACTTAGTGCTACGTAATCAAAT
1 CGCACACTTAGTGCTACATAGTCAAAT
48671641 CGCACACTTAGTGCTACATAGTCAAACT
1 CGCACACTTAGTGCTACATAGTCAAA-T
** * *
48671669 CGCACACTTAGTGCCGCATGGTCAATT
1 CGCACACTTAGTGCTACATAGTCAAAT
* **
48671696 CGCACACTTAGTGC-ATCATATTCATTT
1 CGCACACTTAGTGCTA-CATAGTCAAAT
*
48671723 CGCACACTTAGTGCAACATAGTCAAAT
1 CGCACACTTAGTGCTACATAGTCAAAT
48671750 CGCACACTTAGTGCTACATAGTCAAAT
1 CGCACACTTAGTGCTACATAGTCAAAT
48671777 CGCACACTTAGTGCT
1 CGCACACTTAGTGCT
48671792 GTACAATTTA
Statistics
Matches: 157, Mismatches: 18, Indels: 6
0.87 0.10 0.03
Matches are distributed among these distances:
27 133 0.85
28 24 0.15
ACGTcount: A:0.30, C:0.28, G:0.15, T:0.27
Consensus pattern (27 bp):
CGCACACTTAGTGCTACATAGTCAAAT
Found at i:48679729 original size:27 final size:27
Alignment explanation
Indices: 48679699--48679904 Score: 252
Period size: 27 Copynumber: 7.6 Consensus size: 27
48679689 ATATTGAGTC
* * * *
48679699 CGCACACTCAGTGCTATATAATCAACT
1 CGCACACTTAGTGCTACATAGTCAAAT
* *
48679726 CGCACACTTAGTGCTACGTAATCAAAT
1 CGCACACTTAGTGCTACATAGTCAAAT
48679753 CGCACACTTAGTGCTACATAGTCAAACT
1 CGCACACTTAGTGCTACATAGTCAAA-T
** * *
48679781 CGCACACTTAGTGCCGCCATGGTCAATT
1 CGCACACTTAGTG-CTACATAGTCAAAT
* **
48679809 CGCACACTTAGTGC-ATCATATTCATTT
1 CGCACACTTAGTGCTA-CATAGTCAAAT
*
48679836 CGCACACTTAGTGCAACATAGTCAAAT
1 CGCACACTTAGTGCTACATAGTCAAAT
48679863 CGCACACTTAGTGCTACATAGTCAAAT
1 CGCACACTTAGTGCTACATAGTCAAAT
48679890 CGCACACTTAGTGCT
1 CGCACACTTAGTGCT
48679905 GTACAATTTA
Statistics
Matches: 157, Mismatches: 18, Indels: 8
0.86 0.10 0.04
Matches are distributed among these distances:
27 119 0.76
28 29 0.18
29 9 0.06
ACGTcount: A:0.30, C:0.28, G:0.15, T:0.27
Consensus pattern (27 bp):
CGCACACTTAGTGCTACATAGTCAAAT
Found at i:48679820 original size:83 final size:82
Alignment explanation
Indices: 48679699--48679904 Score: 254
Period size: 83 Copynumber: 2.5 Consensus size: 82
48679689 ATATTGAGTC
* * * * * *
48679699 CGCACACTCAGTGCTATATAATCAACTCGCACACTTAGTGCTA-CGTAATCAAATCGCACACTTA
1 CGCACACTTAGTGCGACATAGTCAAATCGCACACTTAGTGCTATCATAATCAAATCGCACACTTA
*
48679763 GTGCTACATAGTCAAACT
66 GTGCAACATAGTCAAA-T
* * * * **
48679781 CGCACACTTAGTGCCGCCATGGTCAATTCGCACACTTAGTGC-ATCATATTCATTTCGCACACTT
1 CGCACACTTAGTG-CGACATAGTCAAATCGCACACTTAGTGCTATCATAATCAAATCGCACACTT
48679845 AGTGCAACATAGTCAAAT
65 AGTGCAACATAGTCAAAT
*
48679863 CGCACACTTAGTGCTACATAGTCAAATCGCACACTTAGTGCT
1 CGCACACTTAGTGCGACATAGTCAAATCGCACACTTAGTGCT
48679905 GTACAATTTA
Statistics
Matches: 105, Mismatches: 16, Indels: 6
0.83 0.13 0.05
Matches are distributed among these distances:
81 24 0.23
82 27 0.26
83 54 0.51
ACGTcount: A:0.30, C:0.28, G:0.15, T:0.27
Consensus pattern (82 bp):
CGCACACTTAGTGCGACATAGTCAAATCGCACACTTAGTGCTATCATAATCAAATCGCACACTTA
GTGCAACATAGTCAAAT
Found at i:48679929 original size:110 final size:109
Alignment explanation
Indices: 48679697--48679903 Score: 301
Period size: 110 Copynumber: 1.9 Consensus size: 109
48679687 GTATATTGAG
* * ** * *
48679697 TCCGCACACTCAGTGCTAT-ATAATCAACTCGCACACTTAGTGCTACGTAATCAAATCGCACACT
1 TCCGCACACTTAGTGC-ATCATATTCATTTCGCACACTTAGTGCAACATAATCAAATCGCACACT
*
48679761 TAGTGCTACATAGTCAAACTCGCACACTTAGTGCCGCCATGGTCAA
65 TAGTGCTACATAGTCAAACTCGCACACTTAGTGCCGCAAT-GTCAA
* *
48679807 TTCGCACACTTAGTGCATCATATTCATTTCGCACACTTAGTGCAACATAGTCAAATCGCACACTT
1 TCCGCACACTTAGTGCATCATATTCATTTCGCACACTTAGTGCAACATAATCAAATCGCACACTT
48679872 AGTGCTACATAGTCAAA-TCGCACACTTAGTGC
66 AGTGCTACATAGTCAAACTCGCACACTTAGTGC
48679904 TGTACAATTT
Statistics
Matches: 88, Mismatches: 8, Indels: 3
0.89 0.08 0.03
Matches are distributed among these distances:
109 17 0.19
110 71 0.81
ACGTcount: A:0.30, C:0.29, G:0.15, T:0.27
Consensus pattern (109 bp):
TCCGCACACTTAGTGCATCATATTCATTTCGCACACTTAGTGCAACATAATCAAATCGCACACTT
AGTGCTACATAGTCAAACTCGCACACTTAGTGCCGCAATGTCAA
Found at i:48690851 original size:19 final size:18
Alignment explanation
Indices: 48690827--48690871 Score: 54
Period size: 18 Copynumber: 2.4 Consensus size: 18
48690817 TATATAATAA
*
48690827 AAATTTTAAGAATAAATTT
1 AAATTTTAACAAT-AATTT
* *
48690846 AAATTTTACCTATAATTT
1 AAATTTTAACAATAATTT
48690864 AAATTTTA
1 AAATTTTA
48690872 CTTATAATTC
Statistics
Matches: 23, Mismatches: 3, Indels: 1
0.85 0.11 0.04
Matches are distributed among these distances:
18 13 0.57
19 10 0.43
ACGTcount: A:0.47, C:0.04, G:0.02, T:0.47
Consensus pattern (18 bp):
AAATTTTAACAATAATTT
Found at i:48690864 original size:18 final size:18
Alignment explanation
Indices: 48690841--48690880 Score: 71
Period size: 18 Copynumber: 2.2 Consensus size: 18
48690831 TTTAAGAATA
48690841 AATTTAAATTTTACCTAT
1 AATTTAAATTTTACCTAT
*
48690859 AATTTAAATTTTACTTAT
1 AATTTAAATTTTACCTAT
48690877 AATT
1 AATT
48690881 CTATTGCATT
Statistics
Matches: 21, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
18 21 1.00
ACGTcount: A:0.40, C:0.07, G:0.00, T:0.53
Consensus pattern (18 bp):
AATTTAAATTTTACCTAT
Found at i:48693615 original size:6 final size:6
Alignment explanation
Indices: 48693604--48693643 Score: 80
Period size: 6 Copynumber: 6.7 Consensus size: 6
48693594 TAGTTTATTA
48693604 CACTTC CACTTC CACTTC CACTTC CACTTC CACTTC CACT
1 CACTTC CACTTC CACTTC CACTTC CACTTC CACTTC CACT
48693644 GATTTTTTTT
Statistics
Matches: 34, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 34 1.00
ACGTcount: A:0.17, C:0.50, G:0.00, T:0.33
Consensus pattern (6 bp):
CACTTC
Found at i:48693923 original size:16 final size:16
Alignment explanation
Indices: 48693885--48693955 Score: 81
Period size: 16 Copynumber: 4.4 Consensus size: 16
48693875 GTTTGGTTTA
*
48693885 CTGTAATAGAATAG-G
1 CTGTAATGGAATAGAG
* *
48693900 ACTATAATTGAATAGAG
1 -CTGTAATGGAATAGAG
*
48693917 CTGTAATGGAATAAAG
1 CTGTAATGGAATAGAG
*
48693933 CTGTAATGGAATAGAA
1 CTGTAATGGAATAGAG
48693949 CTGTAAT
1 CTGTAAT
48693956 CAGTAATTCA
Statistics
Matches: 47, Mismatches: 7, Indels: 2
0.84 0.12 0.04
Matches are distributed among these distances:
16 46 0.98
17 1 0.02
ACGTcount: A:0.42, C:0.07, G:0.23, T:0.28
Consensus pattern (16 bp):
CTGTAATGGAATAGAG
Found at i:48694136 original size:25 final size:26
Alignment explanation
Indices: 48694103--48694152 Score: 75
Period size: 26 Copynumber: 2.0 Consensus size: 26
48694093 TAAGTAGATG
*
48694103 ATTATTGTT-ATTAAATTTTAATAAT
1 ATTATTGTTAAATAAATTTTAATAAT
*
48694128 ATTATTGTTAAATATATTTTAATAA
1 ATTATTGTTAAATAAATTTTAATAA
48694153 AAATAAAAAT
Statistics
Matches: 22, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
25 9 0.41
26 13 0.59
ACGTcount: A:0.42, C:0.00, G:0.04, T:0.54
Consensus pattern (26 bp):
ATTATTGTTAAATAAATTTTAATAAT
Found at i:48694214 original size:61 final size:58
Alignment explanation
Indices: 48694128--48694253 Score: 139
Period size: 57 Copynumber: 2.1 Consensus size: 58
48694118 TTTTAATAAT
* * * *
48694128 ATTATTGTTAAATATATTTTAATAAAAATAAAAATAAATAATTTAATCATATT-TTAACATA
1 ATTATTATTAAATAAATTTTAAT-AAAAT---AATAAATAATTTAATAACATTCTTAACATA
* *
48694189 ATTATTATTAAATACAATTTT-ATAAAATAATATATAATTTAATAACATTCTTAATATA
1 ATTATTATTAAATA-AATTTTAATAAAATAATAAATAATTTAATAACATTCTTAACATA
48694247 ATTATTA
1 ATTATTA
48694254 ATAATATATA
Statistics
Matches: 57, Mismatches: 6, Indels: 7
0.81 0.09 0.10
Matches are distributed among these distances:
57 18 0.32
58 14 0.25
60 5 0.09
61 15 0.26
62 5 0.09
ACGTcount: A:0.51, C:0.04, G:0.01, T:0.44
Consensus pattern (58 bp):
ATTATTATTAAATAAATTTTAATAAAATAATAAATAATTTAATAACATTCTTAACATA
Found at i:48694598 original size:20 final size:20
Alignment explanation
Indices: 48694553--48694598 Score: 58
Period size: 21 Copynumber: 2.2 Consensus size: 20
48694543 CTTTTGGTGA
*
48694553 AATAAAAATCTTCAAATTTT
1 AATAAAAATCTACAAATTTT
48694573 ACATAAAAAT-TACTAAATTTT
1 A-ATAAAAATCTAC-AAATTTT
48694594 AATAA
1 AATAA
48694599 CATTAGTTCT
Statistics
Matches: 23, Mismatches: 1, Indels: 4
0.82 0.04 0.14
Matches are distributed among these distances:
20 7 0.30
21 16 0.70
ACGTcount: A:0.54, C:0.09, G:0.00, T:0.37
Consensus pattern (20 bp):
AATAAAAATCTACAAATTTT
Found at i:48699447 original size:20 final size:20
Alignment explanation
Indices: 48699422--48699463 Score: 84
Period size: 20 Copynumber: 2.1 Consensus size: 20
48699412 TTGTATTAAG
48699422 CTAGCTCAAGTACATTTTCT
1 CTAGCTCAAGTACATTTTCT
48699442 CTAGCTCAAGTACATTTTCT
1 CTAGCTCAAGTACATTTTCT
48699462 CT
1 CT
48699464 TCTTACATGT
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 22 1.00
ACGTcount: A:0.24, C:0.26, G:0.10, T:0.40
Consensus pattern (20 bp):
CTAGCTCAAGTACATTTTCT
Found at i:48705806 original size:101 final size:99
Alignment explanation
Indices: 48705612--48705838 Score: 278
Period size: 101 Copynumber: 2.3 Consensus size: 99
48705602 TATTGTGAGG
* * *
48705612 TCACGTGTGTAGTACTAAGTGCAGG-GAACTACGTGTATCGGATAATTGGTCGCATGTGTAGTAC
1 TCACGTGTGTAGTACTAAGTGCAGGCTAACTACGTGTATCAGATAATTGGTCACATGTGTAGTAC
* * * *
48705676 TAAGTGCAGGCTACTATGCGTGCCTGATAACTTCGA
66 TAAGTGCAGGCTACCACGCGTACCGGATAA-TT-GA
* * ** *
48705712 TCACGTGTGTAGTACTAAGTGTAGGCTAA-TACGTGTTTCAGATGGTTAGGTCACGTGTGTAGTA
1 TCACGTGTGTAGTACTAAGTGCAGGCTAACTACGTGTATCAGATAATT-GGTCACATGTGTAGTA
* *
48705776 CTAAGTGCAGGCTACCACGTGTACCGGATAATTGG
65 CTAAGTGCAGGCTACCACGCGTACCGGATAATTGA
*
48705811 TCACATGTGTAGTACTAAGTGCAGGCTA
1 TCACGTGTGTAGTACTAAGTGCAGGCTA
48705839 CTATGCGTAC
Statistics
Matches: 109, Mismatches: 16, Indels: 5
0.84 0.12 0.04
Matches are distributed among these distances:
99 27 0.25
100 40 0.37
101 42 0.39
ACGTcount: A:0.25, C:0.17, G:0.28, T:0.30
Consensus pattern (99 bp):
TCACGTGTGTAGTACTAAGTGCAGGCTAACTACGTGTATCAGATAATTGGTCACATGTGTAGTAC
TAAGTGCAGGCTACCACGCGTACCGGATAATTGA
Found at i:48705849 original size:49 final size:50
Alignment explanation
Indices: 48705609--48705854 Score: 262
Period size: 49 Copynumber: 4.9 Consensus size: 50
48705599 ATCTATTGTG
** * *
48705609 AGGTCACGTGTGTAGTACTAAGTGCAGGGAACTACGTGTATCGGATAATT
1 AGGTCACGTGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGATAATT
* * * * * *
48705659 -GGTCGCATGTGTAGTACTAAGTGCAGGCTACTATGCGTGCCTGATAACTT
1 AGGTCACGTGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGATAA-TT
* * * * ** **
48705709 CGATCACGTGTGTAGTACTAAGTGTAGGCTAATACGTGTTTCAGATGGTT
1 AGGTCACGTGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGATAATT
* *
48705759 AGGTCACGTGTGTAGTACTAAGTGCAGGCTACCACGTGTACCGGATAATT
1 AGGTCACGTGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGATAATT
* * *
48705809 -GGTCACATGTGTAGTACTAAGTGCAGGCTACTATGCGTACCAGATA
1 AGGTCACGTGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGATA
48705855 GCTTTGGCTA
Statistics
Matches: 158, Mismatches: 36, Indels: 5
0.79 0.18 0.03
Matches are distributed among these distances:
49 79 0.50
50 44 0.28
51 35 0.22
ACGTcount: A:0.26, C:0.17, G:0.28, T:0.29
Consensus pattern (50 bp):
AGGTCACGTGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGATAATT
Found at i:48712740 original size:68 final size:64
Alignment explanation
Indices: 48712617--48712876 Score: 224
Period size: 68 Copynumber: 4.0 Consensus size: 64
48712607 TGGATGATAC
** * * * *
48712617 AGATAGTATGTAGCTAGGTCACATGTATGGTGCTGAGTGCACATCATGTGTACAAGAGAGCTACA
1 AGATA-TATGTAGCTAGGTCACATGGGTGATACTGAGTGTACACCATGTGTACAAGAGAGCTAC-
48712682 AG
64 -G
* * *
48712684 ACATTATGATGTAGCTAGGTCGCATGGGTGATACTGTGTGTACACCATGTAG-ACAAGAGAGCTA
1 AGA-TAT-ATGTAGCTAGGTCACATGGGTGATACTGAGTGTACACCATGT-GTACAAGAGAGCTA
48712748 CG
63 CG
* * * * *
48712750 GGATATATGTAGCTAGGTCGCATGCGTGGCTCCAGGTGAAG-G-ACACCATGTAG-ACAAGAGAG
1 AGATATATGTAGCTAGGTCACATGGGT-GAT--A-CTG-AGTGTACACCATGT-GTACAAGAGAG
48712812 CTACG
60 CTACG
* * *
48712817 AGATAAAT-TGGCTAGGTCACATGGGTGATACTGAGTGTTCACCATGTGTACAAGAGAGCT
1 AGATATATGTAGCTAGGTCACATGGGTGATACTGAGTGTACACCATGTGTACAAGAGAGCT
48712877 GAACTCTATG
Statistics
Matches: 159, Mismatches: 23, Indels: 26
0.76 0.11 0.12
Matches are distributed among these distances:
61 2 0.01
62 4 0.03
63 20 0.13
64 20 0.13
65 7 0.04
66 17 0.11
67 35 0.22
68 52 0.33
69 2 0.01
ACGTcount: A:0.30, C:0.17, G:0.30, T:0.24
Consensus pattern (64 bp):
AGATATATGTAGCTAGGTCACATGGGTGATACTGAGTGTACACCATGTGTACAAGAGAGCTACG
Found at i:48712773 original size:64 final size:64
Alignment explanation
Indices: 48712692--48712876 Score: 212
Period size: 67 Copynumber: 2.9 Consensus size: 64
48712682 AGACATTATG
* *
48712692 ATGTAGCTAGGTCGCATGGGTGATACTGTGTGTACACCATGTAGACAAGAGAGCTACGGGATAT
1 ATGTAGCTAGGTCGCATGGGTGATACTGTGTGTACACCATGTAGACAAGAGAGCTACGAGATAA
* * * * * *
48712756 ATGTAGCTAGGTCGCATGCGTGGCTCCAGGTGAAGGACACCATGTAGACAAGAGAGCTACGAGAT
1 ATGTAGCTAGGTCGCATGGGT-GATAC-TGTG-TGTACACCATGTAGACAAGAGAGCTACGAGAT
48712821 AA
63 AA
* * * *
48712823 AT-TGGCTAGGTCACATGGGTGATACTGAGTGTTCACCATGT-GTACAAGAGAGCT
1 ATGTAGCTAGGTCGCATGGGTGATACTGTGTGTACACCATGTAG-ACAAGAGAGCT
48712877 GAACTCTATG
Statistics
Matches: 99, Mismatches: 18, Indels: 9
0.79 0.14 0.07
Matches are distributed among these distances:
62 1 0.01
63 20 0.20
64 22 0.22
65 6 0.06
66 18 0.18
67 32 0.32
ACGTcount: A:0.29, C:0.17, G:0.31, T:0.23
Consensus pattern (64 bp):
ATGTAGCTAGGTCGCATGGGTGATACTGTGTGTACACCATGTAGACAAGAGAGCTACGAGATAA
Found at i:48721707 original size:18 final size:18
Alignment explanation
Indices: 48721658--48721707 Score: 59
Period size: 19 Copynumber: 2.8 Consensus size: 18
48721648 TACAAAACAG
48721658 ACCCACT-ACCCAAACCT
1 ACCCACTAACCCAAACCT
*
48721675 ACCCAAC-AGACCCAAACTT
1 ACCC-ACTA-ACCCAAACCT
48721694 ACCCACTAACCCAA
1 ACCCACTAACCCAA
48721708 TACTAACCTA
Statistics
Matches: 28, Mismatches: 1, Indels: 7
0.78 0.03 0.19
Matches are distributed among these distances:
17 4 0.14
18 10 0.36
19 14 0.50
ACGTcount: A:0.40, C:0.48, G:0.02, T:0.10
Consensus pattern (18 bp):
ACCCACTAACCCAAACCT
Found at i:48723209 original size:38 final size:37
Alignment explanation
Indices: 48723167--48723241 Score: 91
Period size: 37 Copynumber: 2.1 Consensus size: 37
48723157 ATAACTCATG
* *
48723167 TATATA-CCTTTAATACCA-TATTATTTGTATATTATA
1 TATATATCCTTAAATACCATTATTATTTATATA-TATA
* *
48723203 TATATATTCTTAAATATCATTATTATTTATATATATA
1 TATATATCCTTAAATACCATTATTATTTATATATATA
48723240 TA
1 TA
48723242 CTTTATGTAA
Statistics
Matches: 33, Mismatches: 4, Indels: 3
0.82 0.10 0.08
Matches are distributed among these distances:
36 6 0.18
37 15 0.45
38 12 0.36
ACGTcount: A:0.39, C:0.08, G:0.01, T:0.52
Consensus pattern (37 bp):
TATATATCCTTAAATACCATTATTATTTATATATATA
Found at i:48723779 original size:24 final size:25
Alignment explanation
Indices: 48723751--48723815 Score: 66
Period size: 24 Copynumber: 2.7 Consensus size: 25
48723741 TTTTTATATA
48723751 TATTATTATGTATATATACT-TTAGC
1 TATTATTATGTATATATACTCTTA-C
* *
48723776 -ATTACTAAT-TATATATATTCTTAC
1 TATTA-TTATGTATATATACTCTTAC
48723800 TATT-TTATGTATATAT
1 TATTATTATGTATATAT
48723816 TTCAAATACT
Statistics
Matches: 33, Mismatches: 3, Indels: 9
0.73 0.07 0.20
Matches are distributed among these distances:
23 3 0.09
24 21 0.64
25 9 0.27
ACGTcount: A:0.34, C:0.08, G:0.05, T:0.54
Consensus pattern (25 bp):
TATTATTATGTATATATACTCTTAC
Found at i:48726360 original size:28 final size:27
Alignment explanation
Indices: 48726297--48726449 Score: 234
Period size: 28 Copynumber: 5.6 Consensus size: 27
48726287 ATATTAAGTC
* * *
48726297 CGCACACTCAGTGCTATATAATCAACT
1 CGCACACTTAGTGCTACATAGTCAACT
*
48726324 CGCACACTTAGTGCTACATAATCAAACT
1 CGCACACTTAGTGCTACATAGTC-AACT
48726352 CGCACACTTAGTGCTACATAGTCAACT
1 CGCACACTTAGTGCTACATAGTCAACT
48726379 CGCACAACTTAGTGCTACATAGTCAAACT
1 CGCAC-ACTTAGTGCTACATAGTC-AACT
*
48726408 CGCACACTTAGTGCTACATAGTCAATT
1 CGCACACTTAGTGCTACATAGTCAACT
48726435 CGCACACTTAGTGCT
1 CGCACACTTAGTGCT
48726450 GCACAATTTA
Statistics
Matches: 119, Mismatches: 4, Indels: 6
0.92 0.03 0.05
Matches are distributed among these distances:
27 48 0.40
28 62 0.52
29 9 0.08
ACGTcount: A:0.31, C:0.29, G:0.14, T:0.26
Consensus pattern (27 bp):
CGCACACTTAGTGCTACATAGTCAACT
Found at i:48726468 original size:56 final size:54
Alignment explanation
Indices: 48726296--48726470 Score: 217
Period size: 56 Copynumber: 3.1 Consensus size: 54
48726286 TATATTAAGT
* * * *
48726296 CCGCACACTCAGTGCTATATAATCAACTCGCACACTTAGTGCTACATAATCAAAC
1 CCGCACACTTAGTGCTACATAGTCAACTCGCACACTTAGTGCT-CACAATCAAAC
*
48726351 TCGCACACTTAGTGCTACATAGTCAACTCGCACAACTTAGTGCT-ACATAGTCAAAC
1 CCGCACACTTAGTGCTACATAGTCAACTCGCAC-ACTTAGTGCTCACA-A-TCAAAC
* * *
48726407 TCGCACACTTAGTGCTACATAGTCAATTCGCACACTTAGTGCTGCACAATTTAAAC
1 CCGCACACTTAGTGCTACATAGTCAACTCGCACACTTAGTGCT-CACAA-TCAAAC
48726463 CCGCACAC
1 CCGCACAC
48726471 GTAGCGCCAA
Statistics
Matches: 106, Mismatches: 9, Indels: 9
0.85 0.07 0.07
Matches are distributed among these distances:
54 2 0.02
55 40 0.38
56 61 0.58
57 3 0.03
ACGTcount: A:0.32, C:0.30, G:0.13, T:0.25
Consensus pattern (54 bp):
CCGCACACTTAGTGCTACATAGTCAACTCGCACACTTAGTGCTCACAATCAAAC
Found at i:48736987 original size:107 final size:107
Alignment explanation
Indices: 48736801--48737014 Score: 410
Period size: 107 Copynumber: 2.0 Consensus size: 107
48736791 TGAGAAGAAA
*
48736801 ACCAATTGGCTGATGCTCTGGCCACTTTGGCTTCAATGTTCAAAGCAAACAGAGAAACAGAAATA
1 ACCAATTGGCTGATGCTCTGGCCACTGTGGCTTCAATGTTCAAAGCAAACAGAGAAACAGAAATA
48736866 ATGCCTCTTCAAATGAGCATATATGAAGTCCCTACACATTGT
66 ATGCCTCTTCAAATGAGCATATATGAAGTCCCTACACATTGT
48736908 ACCAATTGGCTGATGCTCTGGCCACTGTGGCTTCAATGTTCAAAGCAAACAGAGAAACAGAAATA
1 ACCAATTGGCTGATGCTCTGGCCACTGTGGCTTCAATGTTCAAAGCAAACAGAGAAACAGAAATA
*
48736973 ATGCCTCTTCAAATGAGCATATATGAAGTCCCTGCACATTGT
66 ATGCCTCTTCAAATGAGCATATATGAAGTCCCTACACATTGT
48737015 TTCAGCATTG
Statistics
Matches: 105, Mismatches: 2, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
107 105 1.00
ACGTcount: A:0.33, C:0.22, G:0.19, T:0.26
Consensus pattern (107 bp):
ACCAATTGGCTGATGCTCTGGCCACTGTGGCTTCAATGTTCAAAGCAAACAGAGAAACAGAAATA
ATGCCTCTTCAAATGAGCATATATGAAGTCCCTACACATTGT
Found at i:48739303 original size:75 final size:74
Alignment explanation
Indices: 48739184--48739657 Score: 413
Period size: 75 Copynumber: 6.2 Consensus size: 74
48739174 TGATGTTTTT
* ** * * * *
48739184 ATTTCTGTTTTC--AAAATTCAACTCATATTGCGAGAAATGGGTTGAGCCTCAATAGACGTTGAG
1 ATTTCTGTTTTCAAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAAGACACGCTGAG
48739247 GTATTTTCA
66 GTATTTTCA
* * *
48739256 ATTTCTGTCTTTCAAAAAAATCAACTCATATTGTGAGAGGTGAGTTGATCCTCAAGACATGCTGA
1 ATTTCTGT-TTTCAAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAAGACACGCTGA
48739321 GGTATTTTCA
65 GGTATTTTCA
* * ** *
48739331 ATTTCTGTTTGTC--AAAAATCAACTCAAATTGCGATAGGTGAGTTGAGCCTCGGGGCACGCTGA
1 ATTTCTGTTT-TCAAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAAGACACGCTGA
48739394 GGTATTTTCA
65 GGTATTTTCA
* * * *
48739404 ATTTTTGTTTTTTAATTTATGTTTCAAAAATCAAATCATATTGCGAGAGGTGAGTTGAGCCTTAA
1 ATTTCTG--TTTTCA---A------AAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAA
* *** *
48739469 GTCATATTGAGGTATTCTCA
55 GACACGCTGAGGTATTTTCA
* ** **
48739489 A-TT-TATCATCAAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTTGGC-TCACACGCT
1 ATTTCTGTTTTCAAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCC-T--CAAGACACGCT
*
48739551 GAGGTATTTTAA
63 GAGGTATTTTCA
* * * *
48739563 ATTTCTACTTTTCAAAAAAAAATCAACTCATATTACGAGAGGTGAGTTGAGCCTCAGGACACACT
1 ATTTCT-GTTTTC--AAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAAGACACGCT
48739628 GAGGTATTTTCA
63 GAGGTATTTTCA
48739640 ATTTCTGTTTGTCAAAAA
1 ATTTCTGTTT-TCAAAAA
48739658 TCAATATTTT
Statistics
Matches: 321, Mismatches: 54, Indels: 51
0.75 0.13 0.12
Matches are distributed among these distances:
72 43 0.13
73 63 0.20
74 17 0.05
75 70 0.22
76 5 0.02
77 28 0.09
78 2 0.01
79 37 0.12
81 3 0.01
83 1 0.00
84 2 0.01
85 50 0.16
ACGTcount: A:0.31, C:0.16, G:0.19, T:0.35
Consensus pattern (74 bp):
ATTTCTGTTTTCAAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAAGACACGCTGAG
GTATTTTCA
Found at i:48739393 original size:73 final size:72
Alignment explanation
Indices: 48739184--48739414 Score: 273
Period size: 73 Copynumber: 3.2 Consensus size: 72
48739174 TGATGTTTTT
* ** * ** * *
48739184 ATTTCTGTTTTCAAAATTCAACTCATATTGCGAGAAATGGGTTGAGCCTCAATAGACGTTGAGGT
1 ATTTCTGTTTTCAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACACGCTGAGGT
48739249 ATTTTCA
66 ATTTTCA
* * * *
48739256 ATTTCTGTCTTTCAAAAAAATCAACTCATATTGTGAGAGGTGAGTTGATCCTCAAGACATGCTGA
1 ATTTCTGT-TTTC--AAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACACGCTGA
48739321 GGTATTTTCA
63 GGTATTTTCA
* * * *
48739331 ATTTCTGTTTGTCAAAAATCAACTCAAATTGCGATAGGTGAGTTGAGCCTCGGGGCACGCTGAGG
1 ATTTCTGTTT-TCAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACACGCTGAGG
48739396 TATTTTCA
65 TATTTTCA
*
48739404 ATTTTTGTTTT
1 ATTTCTGTTTT
48739415 TTAATTTATG
Statistics
Matches: 136, Mismatches: 19, Indels: 8
0.83 0.12 0.05
Matches are distributed among these distances:
72 9 0.07
73 65 0.48
74 2 0.01
75 60 0.44
ACGTcount: A:0.28, C:0.16, G:0.20, T:0.36
Consensus pattern (72 bp):
ATTTCTGTTTTCAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACACGCTGAGGT
ATTTTCA
Found at i:48739533 original size:72 final size:74
Alignment explanation
Indices: 48739429--48739643 Score: 256
Period size: 79 Copynumber: 2.9 Consensus size: 74
48739419 TTTATGTTTC
* * * * *
48739429 AAAAATCAAATCATATTGCGAGAGGTGAGTTGAGCCTTAAGTCATATTGAGGTATTCTCAATTTA
1 AAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTTAGGTCACACTGAGGTATTTTCAATTTA
48739494 -TCATC-AA
66 CTCATCAAA
*
48739501 AAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTT-GGCTCACACGCTGAGGTATTTTAAAT
1 AAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTTAGG-TCACA--CTGAGGTATTTTCAA-
**
48739565 TTCTACTTTTCAAAA
62 TT-TACTCATC-AAA
* * *
48739580 AAAAATCAACTCATATTACGAGAGGTGAGTTGAGCCTCAGGACACACTGAGGTATTTTCAATTT
1 AAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTTAGGTCACACTGAGGTATTTTCAATTT
48739644 CTGTTTGTCA
Statistics
Matches: 122, Mismatches: 12, Indels: 15
0.82 0.08 0.10
Matches are distributed among these distances:
71 1 0.01
72 41 0.34
74 12 0.10
75 3 0.02
76 4 0.03
77 17 0.14
79 42 0.34
80 2 0.02
ACGTcount: A:0.34, C:0.16, G:0.19, T:0.31
Consensus pattern (74 bp):
AAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTTAGGTCACACTGAGGTATTTTCAATTTA
CTCATCAAA
Found at i:48739788 original size:86 final size:87
Alignment explanation
Indices: 48739580--48739927 Score: 379
Period size: 86 Copynumber: 4.0 Consensus size: 87
48739570 CTTTTCAAAA
* *
48739580 AAAAATCAACTCATATTACGAGAGGTGAGTTGAGCCTCAGGACACA--CTGAGGTATTTTCAATT
1 AAAAATCAACTCATATTACGAGAGGTGAGTTGAGCCTCAGGTCACATGCTGAGGTATTTCCAATT
* *
48739643 TCTGTTTGTCAAAAATCAATATTTTTC
66 TCTGTTT-T--AAATTC-AT-GTTTTC
* *
48739670 ATAAATCAACTCATATTACGAGGGGTGAGTTGAGCCTC-GGCTCACATGCTGAGGTATTTCCAAT
1 AAAAATCAACTCATATTACGAGAGGTGAGTTGAGCCTCAGG-TCACATGCTGAGGTATTTCCAAT
* *
48739734 TTCTGTTTT-ACTTCATGTATTC
65 TTCTGTTTTAAATTCATGTTTTC
* ** * *
48739756 AAAAATCAACTCATATTGCGAGAAATGAGTTGAGCCTCAGG--ACACGCTGAGGTATTTTCAATT
1 AAAAATCAACTCATATTACGAGAGGTGAGTTGAGCCTCAGGTCACATGCTGAGGTATTTCCAATT
* *
48739819 TCTGTTTTCAATTTATGTTTTTC
66 TCTGTTTTAAATTCATG-TTTTC
* * *
48739842 AAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCT-TGGCTCACATGCTGAGCTATTTCCAAT
1 AAAAATCAACTCATATTACGAGAGGTGAGTTGAGCCTCAGG-TCACATGCTGAGGTATTTCCAAT
* *
48739906 TTTTGTTTTTAATATC-TGTTTT
65 TTCTGTTTTAAAT-TCATGTTTT
48739928 AAAGAGCCAA
Statistics
Matches: 221, Mismatches: 27, Indels: 23
0.82 0.10 0.08
Matches are distributed among these distances:
84 28 0.13
85 8 0.04
86 76 0.34
87 8 0.04
88 34 0.15
89 3 0.01
90 40 0.18
91 1 0.00
92 23 0.10
ACGTcount: A:0.28, C:0.17, G:0.18, T:0.36
Consensus pattern (87 bp):
AAAAATCAACTCATATTACGAGAGGTGAGTTGAGCCTCAGGTCACATGCTGAGGTATTTCCAATT
TCTGTTTTAAATTCATGTTTTC
Found at i:48739843 original size:14 final size:13
Alignment explanation
Indices: 48739810--48739839 Score: 51
Period size: 13 Copynumber: 2.3 Consensus size: 13
48739800 CGCTGAGGTA
*
48739810 TTTTCAATTTCTG
1 TTTTCAATTTATG
48739823 TTTTCAATTTATG
1 TTTTCAATTTATG
48739836 TTTT
1 TTTT
48739840 TCAAAAATCA
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
13 16 1.00
ACGTcount: A:0.17, C:0.10, G:0.07, T:0.67
Consensus pattern (13 bp):
TTTTCAATTTATG
Found at i:48739905 original size:172 final size:168
Alignment explanation
Indices: 48739501--48739915 Score: 557
Period size: 172 Copynumber: 2.4 Consensus size: 168
48739491 TTATCATCAA
* **
48739501 AAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTTGGCTCACACGCTGAGGTATTTTAAATT
1 AAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTTGGCTCACATGCTGAGGTATTTCCAATT
** **
48739566 TCT-ACTTTTCAAAAAAAAATCAACTCATATTACGAGAGGTGAGTTGAGCCTCAGGACACACTGA
66 TCTGTTTTTTCAAAAAAAAATCAACTCATATTACGAGAAATGAGTTGAGCCTCAGGACACACTGA
48739630 GGTATTTTCAATTTCTGTTTGTCAAAAATCAATATTTTTC
131 GGTATTTTCAATTTCTGTTTGTC--AAATCAATATTTTTC
* * * *
48739670 ATAAATCAACTCATATTACGAGGGGTGAGTTGAGCCTCGGCTCACATGCTGAGGTATTTCCAATT
1 AAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTTGGCTCACATGCTGAGGTATTTCCAATT
** *
48739735 TCTGTTTTACTTCATGTATTCAAAAATCAACTCATATTGCGAGAAATGAGTTGAGCCTCAGGACA
66 TCTGTTTT--TTCA---A-AAAAAAATCAACTCATATTACGAGAAATGAGTTGAGCCTCAGGACA
* ** *
48739800 CGCTGAGGTATTTTCAATTTCTGTTT-TC-AATTTATGTTTTTC
125 CACTGAGGTATTTTCAATTTCTGTTTGTCAAATCAATATTTTTC
*
48739842 AAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTTGGCTCACATGCTGAGCTATTTCCAATT
1 AAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTTGGCTCACATGCTGAGGTATTTCCAATT
*
48739907 TTTGTTTTT
66 TCTGTTTTT
48739916 AATATCTGTT
Statistics
Matches: 215, Mismatches: 24, Indels: 13
0.85 0.10 0.05
Matches are distributed among these distances:
169 61 0.28
170 3 0.01
172 82 0.38
175 3 0.01
176 66 0.31
ACGTcount: A:0.29, C:0.18, G:0.19, T:0.35
Consensus pattern (168 bp):
AAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTTGGCTCACATGCTGAGGTATTTCCAATT
TCTGTTTTTTCAAAAAAAAATCAACTCATATTACGAGAAATGAGTTGAGCCTCAGGACACACTGA
GGTATTTTCAATTTCTGTTTGTCAAATCAATATTTTTC
Found at i:48739969 original size:172 final size:174
Alignment explanation
Indices: 48739609--48739974 Score: 481
Period size: 172 Copynumber: 2.1 Consensus size: 174
48739599 GAGAGGTGAG
*
48739609 TTGAGCCTCAGGACACACTGAGGTATTTTCAATTTCTGTTTGTCAAAAATCAATATTTTTCATAA
1 TTGAGCCTCAGGACACACTGAGGTATTTTCAATTTCTGTTTGTC--AAATCAATATTTTTCAAAA
* *
48739674 ATCAACTCATATTACGAGGGGTGAGTTGAGCCTCGGCTCACATGCTGAGGTATTTCCAATTTCTG
64 ATCAACTCATATTACGAGAGGTGAGTTGAGCCTCGGCTCACATGCTGAGCTATTTCCAATTTCTG
* * * * *
48739739 TTTTACTTCATGTATTCAAAAATCAACTCATATTGCGAGAAATGAG
129 TTTTAATTCATGTATTCAAAAACCAACTCAGATTGCAAGAAATGAA
* ** *
48739785 TTGAGCCTCAGGACACGCTGAGGTATTTTCAATTTCTGTTT-TC-AATTTATGTTTTTCAAAAAT
1 TTGAGCCTCAGGACACACTGAGGTATTTTCAATTTCTGTTTGTCAAATCAATATTTTTCAAAAAT
* * *
48739848 CAACTCATATTGCGAGAGGTGAGTTGAGCCTTGGCTCACATGCTGAGCTATTTCCAATTTTTGTT
66 CAACTCATATTACGAGAGGTGAGTTGAGCCTCGGCTCACATGCTGAGCTATTTCCAATTTCTG-T
* * *
48739913 TTTAATATC-TGT-TTTAAAGAGCCAATTCAGATTGCAAGAAATGAA
130 TTTAAT-TCATGTATTCAAA-AACCAACTCAGATTGCAAGAAATGAA
48739958 TTGAG-CTCAGGATCACA
1 TTGAGCCTCAGGA-CACA
48739975 TGCTGAGTAA
Statistics
Matches: 167, Mismatches: 19, Indels: 11
0.85 0.10 0.06
Matches are distributed among these distances:
172 86 0.51
173 37 0.22
174 2 0.01
175 2 0.01
176 40 0.24
ACGTcount: A:0.29, C:0.17, G:0.18, T:0.36
Consensus pattern (174 bp):
TTGAGCCTCAGGACACACTGAGGTATTTTCAATTTCTGTTTGTCAAATCAATATTTTTCAAAAAT
CAACTCATATTACGAGAGGTGAGTTGAGCCTCGGCTCACATGCTGAGCTATTTCCAATTTCTGTT
TTAATTCATGTATTCAAAAACCAACTCAGATTGCAAGAAATGAA
Found at i:48740596 original size:18 final size:18
Alignment explanation
Indices: 48740547--48740596 Score: 59
Period size: 19 Copynumber: 2.8 Consensus size: 18
48740537 TACAAAACAG
48740547 ACCCACT-ACCCAAACCT
1 ACCCACTAACCCAAACCT
*
48740564 ACCCAAC-AGACCCAAACTT
1 ACCC-ACTA-ACCCAAACCT
48740583 ACCCACTAACCCAA
1 ACCCACTAACCCAA
48740597 TACTAACCTA
Statistics
Matches: 28, Mismatches: 1, Indels: 7
0.78 0.03 0.19
Matches are distributed among these distances:
17 4 0.14
18 10 0.36
19 14 0.50
ACGTcount: A:0.40, C:0.48, G:0.02, T:0.10
Consensus pattern (18 bp):
ACCCACTAACCCAAACCT
Found at i:48742814 original size:41 final size:40
Alignment explanation
Indices: 48742765--48742932 Score: 173
Period size: 41 Copynumber: 4.2 Consensus size: 40
48742755 AGCCCGATCC
* *
48742765 TTAG-CACTGGCTCAAAAGCCCTTTGAGACCAAACTCGGA
1 TTAGACACTGGCTCAAAAGCCCTTCGAGACCAAGCTCGGA
* * *
48742804 TTAGACCACTGGCTCAAAGGCCCTTCG-GAACTAAGTTCGG-
1 TTAGA-CACTGGCTCAAAAGCCCTTCGAG-ACCAAGCTCGGA
* * * *
48742844 TTATGACACTGGCTCTAAAGCCCTTCGAAACTAAGTTCGGTTA
1 TTA-GACACTGGCTCAAAAGCCCTTCGAGACCAAGCTCGG--A
48742887 TTAG-CACTGGCTCAAAAGCCCTTCGAGACCAAGCTCGGA
1 TTAGACACTGGCTCAAAAGCCCTTCGAGACCAAGCTCGGA
48742926 TTTAGAC
1 -TTAGAC
48742933 CCCGATTAGC
Statistics
Matches: 107, Mismatches: 12, Indels: 18
0.78 0.09 0.13
Matches are distributed among these distances:
39 5 0.05
40 38 0.36
41 60 0.56
42 1 0.01
43 3 0.03
ACGTcount: A:0.28, C:0.27, G:0.21, T:0.24
Consensus pattern (40 bp):
TTAGACACTGGCTCAAAAGCCCTTCGAGACCAAGCTCGGA
Found at i:48745052 original size:14 final size:15
Alignment explanation
Indices: 48745035--48745069 Score: 63
Period size: 14 Copynumber: 2.4 Consensus size: 15
48745025 ATTTAAGTTA
48745035 ATTATTTTAGTAT-T
1 ATTATTTTAGTATGT
48745049 ATTATTTTAGTATGT
1 ATTATTTTAGTATGT
48745064 ATTATT
1 ATTATT
48745070 AATGTCATCA
Statistics
Matches: 20, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
14 13 0.65
15 7 0.35
ACGTcount: A:0.29, C:0.00, G:0.09, T:0.63
Consensus pattern (15 bp):
ATTATTTTAGTATGT
Found at i:48746056 original size:24 final size:25
Alignment explanation
Indices: 48746028--48746092 Score: 66
Period size: 24 Copynumber: 2.7 Consensus size: 25
48746018 TTTTTATATA
48746028 TATTATTATGTATATATACT-TTAGC
1 TATTATTATGTATATATACTCTTA-C
* *
48746053 -ATTACTAAT-TATATATATTCTTAC
1 TATTA-TTATGTATATATACTCTTAC
48746077 TATT-TTATGTATATAT
1 TATTATTATGTATATAT
48746093 TTCAAATACT
Statistics
Matches: 33, Mismatches: 3, Indels: 9
0.73 0.07 0.20
Matches are distributed among these distances:
23 3 0.09
24 21 0.64
25 9 0.27
ACGTcount: A:0.34, C:0.08, G:0.05, T:0.54
Consensus pattern (25 bp):
TATTATTATGTATATATACTCTTAC
Found at i:48750341 original size:32 final size:32
Alignment explanation
Indices: 48750295--48750364 Score: 113
Period size: 32 Copynumber: 2.2 Consensus size: 32
48750285 GTTGGCTTTG
* * *
48750295 AAGTTAGAGATGTACACAAAATAACATTCGGT
1 AAGTCAGAGATGTACACAAAAGAACATCCGGT
48750327 AAGTCAGAGATGTACACAAAAGAACATCCGGT
1 AAGTCAGAGATGTACACAAAAGAACATCCGGT
48750359 AAGTCA
1 AAGTCA
48750365 TTCTAGTGGC
Statistics
Matches: 35, Mismatches: 3, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
32 35 1.00
ACGTcount: A:0.44, C:0.16, G:0.20, T:0.20
Consensus pattern (32 bp):
AAGTCAGAGATGTACACAAAAGAACATCCGGT
Found at i:48753199 original size:25 final size:25
Alignment explanation
Indices: 48753167--48753214 Score: 78
Period size: 25 Copynumber: 1.9 Consensus size: 25
48753157 TTATAATATG
*
48753167 AAAATGACCATTTTACCCCTAGGTA
1 AAAATGACCATTATACCCCTAGGTA
*
48753192 AAAATGACTATTATACCCCTAGG
1 AAAATGACCATTATACCCCTAGG
48753215 GTTTAAATAT
Statistics
Matches: 21, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
25 21 1.00
ACGTcount: A:0.38, C:0.23, G:0.12, T:0.27
Consensus pattern (25 bp):
AAAATGACCATTATACCCCTAGGTA
Found at i:48753281 original size:20 final size:20
Alignment explanation
Indices: 48753258--48753295 Score: 67
Period size: 20 Copynumber: 1.9 Consensus size: 20
48753248 TAAACATGGT
*
48753258 ATGTATGATATGCACATGAC
1 ATGTATGATATGAACATGAC
48753278 ATGTATGATATGAACATG
1 ATGTATGATATGAACATG
48753296 GTGTATTCAT
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
20 17 1.00
ACGTcount: A:0.37, C:0.11, G:0.21, T:0.32
Consensus pattern (20 bp):
ATGTATGATATGAACATGAC
Found at i:48753399 original size:23 final size:23
Alignment explanation
Indices: 48753346--48753440 Score: 138
Period size: 23 Copynumber: 4.1 Consensus size: 23
48753336 AGGAAGTGCA
48753346 AAAGGGCTTATGCCCCAATTATT
1 AAAGGGCTTATGCCCCAATTATT
48753369 -AAGGGCTTATGCCCCAATTATT
1 AAAGGGCTTATGCCCCAATTATT
*
48753391 AAAGGGCTTATGCCCCAGTTATT
1 AAAGGGCTTATGCCCCAATTATT
* * *
48753414 AAAAGGGCTTTTGTCCCAGTTATT
1 -AAAGGGCTTATGCCCCAATTATT
48753438 AAA
1 AAA
48753441 AGAGGCTAGG
Statistics
Matches: 67, Mismatches: 3, Indels: 4
0.91 0.04 0.05
Matches are distributed among these distances:
22 22 0.33
23 24 0.36
24 21 0.31
ACGTcount: A:0.29, C:0.20, G:0.19, T:0.32
Consensus pattern (23 bp):
AAAGGGCTTATGCCCCAATTATT
Found at i:48753423 original size:24 final size:24
Alignment explanation
Indices: 48753345--48753461 Score: 143
Period size: 24 Copynumber: 5.0 Consensus size: 24
48753335 GAGGAAGTGC
*
48753345 AAAAGGGCTTATGCCCCAATTATT
1 AAAAGGGCTTATGCCCCAGTTATT
*
48753369 --AAGGGCTTATGCCCCAATTATT
1 AAAAGGGCTTATGCCCCAGTTATT
48753391 -AAAGGGCTTATGCCCCAGTTATT
1 AAAAGGGCTTATGCCCCAGTTATT
* *
48753414 AAAAGGGCTTTTGTCCCAGTTATT
1 AAAAGGGCTTATGCCCCAGTTATT
*
48753438 AAAAGAGGC-TAGGCCTCCAGTTAT
1 AAAAG-GGCTTATGCC-CCAGTTAT
48753462 ATGATAAAGC
Statistics
Matches: 83, Mismatches: 6, Indels: 7
0.86 0.06 0.07
Matches are distributed among these distances:
22 22 0.27
23 21 0.25
24 29 0.35
25 11 0.13
ACGTcount: A:0.29, C:0.21, G:0.21, T:0.30
Consensus pattern (24 bp):
AAAAGGGCTTATGCCCCAGTTATT
Found at i:48753690 original size:31 final size:31
Alignment explanation
Indices: 48753655--48753718 Score: 101
Period size: 31 Copynumber: 2.1 Consensus size: 31
48753645 CATTTACAGT
48753655 AAAGGCTTCGGCCCAATAATATGAAATATGA
1 AAAGGCTTCGGCCCAATAATATGAAATATGA
* **
48753686 AAAGGCTTCGGCCCAGTGTTATGAAATATGA
1 AAAGGCTTCGGCCCAATAATATGAAATATGA
48753717 AA
1 AA
48753719 TATGAAAAGG
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:0.39, C:0.16, G:0.22, T:0.23
Consensus pattern (31 bp):
AAAGGCTTCGGCCCAATAATATGAAATATGA
Found at i:48760212 original size:25 final size:25
Alignment explanation
Indices: 48760184--48760232 Score: 80
Period size: 25 Copynumber: 2.0 Consensus size: 25
48760174 TCGAGCCTTA
*
48760184 TAACAGGAAGCTCATGTGAGCCATG
1 TAACAGGAAGCTCATGAGAGCCATG
*
48760209 TAACGGGAAGCTCATGAGAGCCAT
1 TAACAGGAAGCTCATGAGAGCCAT
48760233 AATCAGGAAG
Statistics
Matches: 22, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
25 22 1.00
ACGTcount: A:0.33, C:0.20, G:0.29, T:0.18
Consensus pattern (25 bp):
TAACAGGAAGCTCATGAGAGCCATG
Found at i:48760282 original size:24 final size:24
Alignment explanation
Indices: 48760225--48760283 Score: 66
Period size: 24 Copynumber: 2.4 Consensus size: 24
48760215 GAAGCTCATG
*
48760225 AGAGCCATAATCAGGAAGTTCACAA
1 AGAGCCAT-ATCAGGAAGCTCACAA
**
48760250 AGAATCATATC-GAGAAGCTCACAA
1 AGAGCCATATCAG-GAAGCTCACAA
48760274 AGAGCCATAT
1 AGAGCCATAT
48760284 AATGGGGGTT
Statistics
Matches: 28, Mismatches: 5, Indels: 3
0.78 0.14 0.08
Matches are distributed among these distances:
23 1 0.04
24 21 0.75
25 6 0.21
ACGTcount: A:0.44, C:0.20, G:0.19, T:0.17
Consensus pattern (24 bp):
AGAGCCATATCAGGAAGCTCACAA
Found at i:48762295 original size:17 final size:16
Alignment explanation
Indices: 48762270--48762317 Score: 62
Period size: 16 Copynumber: 2.9 Consensus size: 16
48762260 AAAAAATATT
48762270 TTAATTTTTTAAAAAA
1 TTAATTTTTTAAAAAA
48762286 TT-ATATTTTTAAAATAA
1 TTAAT-TTTTTAAAA-AA
*
48762303 TTAATATTTTAAAAA
1 TTAATTTTTTAAAAA
48762318 TAAAAATATA
Statistics
Matches: 28, Mismatches: 1, Indels: 6
0.80 0.03 0.17
Matches are distributed among these distances:
15 2 0.07
16 12 0.43
17 12 0.43
18 2 0.07
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (16 bp):
TTAATTTTTTAAAAAA
Found at i:48762317 original size:18 final size:18
Alignment explanation
Indices: 48762270--48762320 Score: 72
Period size: 18 Copynumber: 3.0 Consensus size: 18
48762260 AAAAAATATT
48762270 TTAAT-TTTTTAAAA-AA
1 TTAATATTTTTAAAATAA
48762286 TT-ATATTTTTAAAATAA
1 TTAATATTTTTAAAATAA
*
48762303 TTAATATTTTAAAAATAA
1 TTAATATTTTTAAAATAA
48762321 AAATATAAGA
Statistics
Matches: 31, Mismatches: 1, Indels: 4
0.86 0.03 0.11
Matches are distributed among these distances:
15 2 0.06
16 11 0.35
17 4 0.13
18 14 0.45
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (18 bp):
TTAATATTTTTAAAATAA
Done.