Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Chr05 97880472
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: 97880472
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
Warning! 192 characters in sequence are not A, C, G, or T
File 224 of 335
Found at i:67401905 original size:24 final size:24
Alignment explanation
Indices: 67401852--67401906 Score: 60
Period size: 24 Copynumber: 2.3 Consensus size: 24
67401842 TATATATTAT
67401852 TTTTATTTAAATGTTATTTTATCA
1 TTTTATTTAAATGTTATTTTATCA
* *
67401876 TATTATTTATAT-TTCATTTATAT-A
1 TTTTATTTAAATGTT-ATTT-TATCA
67401900 TTTTATT
1 TTTTATT
67401907 ACATATCATA
Statistics
Matches: 26, Mismatches: 3, Indels: 4
0.79 0.09 0.12
Matches are distributed among these distances:
23 2 0.08
24 21 0.81
25 3 0.12
ACGTcount: A:0.29, C:0.04, G:0.02, T:0.65
Consensus pattern (24 bp):
TTTTATTTAAATGTTATTTTATCA
Found at i:67401919 original size:17 final size:17
Alignment explanation
Indices: 67401897--67401929 Score: 57
Period size: 17 Copynumber: 1.9 Consensus size: 17
67401887 TTTCATTTAT
67401897 ATATTTTATTACATATC
1 ATATTTTATTACATATC
*
67401914 ATATTTTATTATATAT
1 ATATTTTATTACATAT
67401930 TATTCCCTAT
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
17 15 1.00
ACGTcount: A:0.36, C:0.06, G:0.00, T:0.58
Consensus pattern (17 bp):
ATATTTTATTACATATC
Found at i:67414792 original size:44 final size:44
Alignment explanation
Indices: 67414107--67414777 Score: 948
Period size: 44 Copynumber: 15.2 Consensus size: 44
67414097 ATAGATCACT
* *
67414107 GATAGCAGATTTGGCATCTCTGTATTGTCAGAGAGCAGATCGAA
1 GATAACAGATTTGGCATCTCTGTATTGACAGAGAGCAGATCGAA
* * *
67414151 GATGACAGATTTGGCATTTATGTATTGACAGAGAGCAGATCGAA
1 GATAACAGATTTGGCATCTCTGTATTGACAGAGAGCAGATCGAA
*
67414195 GATAACAAATTTGGCATCTCTGTATTGACAGAGAGCAGATCGAA
1 GATAACAGATTTGGCATCTCTGTATTGACAGAGAGCAGATCGAA
* * *
67414239 GATAATAGATTTGGCGTCTCTGTATTGACAGAGAGTAGATCGAA
1 GATAACAGATTTGGCATCTCTGTATTGACAGAGAGCAGATCGAA
* * *
67414283 GATAACAGATTTGACATATCTGTATTGTCAGAGAGCAGATCGAA
1 GATAACAGATTTGGCATCTCTGTATTGACAGAGAGCAGATCGAA
* ** * *
67414327 GATAACAGATTTGGCGTCTCTACATTGACGGAGAGTAGATCGAA
1 GATAACAGATTTGGCATCTCTGTATTGACAGAGAGCAGATCGAA
* *
67414371 GATAACAGATTTGGCATCTCTGTATTGTCAGGGAGCAGATCGAA
1 GATAACAGATTTGGCATCTCTGTATTGACAGAGAGCAGATCGAA
* * * *
67414415 GATAACAGATTTGACATCTCTATATTGTCAGTGAGCAGATCGAA
1 GATAACAGATTTGGCATCTCTGTATTGACAGAGAGCAGATCGAA
* * *
67414459 GATAACAGATTTGGCGTCTCTGTATTGTCAGAGAGCAGATTGAA
1 GATAACAGATTTGGCATCTCTGTATTGACAGAGAGCAGATCGAA
* *
67414503 GATAAAAGATTTGGCGTCTCTGTATTGACAGAGAGCAGATCGAA
1 GATAACAGATTTGGCATCTCTGTATTGACAGAGAGCAGATCGAA
* * * * * *
67414547 GATAATAGGTTTGGCGTCTCTGTATTGGCAGAGAGCAGATTGGA
1 GATAACAGATTTGGCATCTCTGTATTGACAGAGAGCAGATCGAA
*
67414591 GATAGCAGATTTGGCATCTCTGTATTGACAGAGAGCAGATCGAA
1 GATAACAGATTTGGCATCTCTGTATTGACAGAGAGCAGATCGAA
* * *
67414635 GATAACAGATTTGGCGTCTCTGTATTGACAAAGAGCAAATCGAA
1 GATAACAGATTTGGCATCTCTGTATTGACAGAGAGCAGATCGAA
* * *
67414679 GATAACAGGTTTGGCGTCTCTATATTGACAGAGAGCAGATCGAA
1 GATAACAGATTTGGCATCTCTGTATTGACAGAGAGCAGATCGAA
67414723 GATAACAGATTTGGCATCTCTGTATTGACAGAG-GACAGATCGAA
1 GATAACAGATTTGGCATCTCTGTATTGACAGAGAG-CAGATCGAA
*
67414767 GATGACAGATT
1 GATAACAGATT
67414778 CGCCCTCTTC
Statistics
Matches: 557, Mismatches: 69, Indels: 2
0.89 0.11 0.00
Matches are distributed among these distances:
43 1 0.00
44 556 1.00
ACGTcount: A:0.32, C:0.14, G:0.26, T:0.27
Consensus pattern (44 bp):
GATAACAGATTTGGCATCTCTGTATTGACAGAGAGCAGATCGAA
Found at i:67415065 original size:4 final size:4
Alignment explanation
Indices: 67415056--67415081 Score: 52
Period size: 4 Copynumber: 6.5 Consensus size: 4
67415046 GGGCCCAGTA
67415056 AAAT AAAT AAAT AAAT AAAT AAAT AA
1 AAAT AAAT AAAT AAAT AAAT AAAT AA
67415082 TTATCAAATA
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
4 22 1.00
ACGTcount: A:0.77, C:0.00, G:0.00, T:0.23
Consensus pattern (4 bp):
AAAT
Found at i:67416472 original size:24 final size:24
Alignment explanation
Indices: 67416419--67416473 Score: 60
Period size: 24 Copynumber: 2.3 Consensus size: 24
67416409 TATATATTAT
67416419 TTTTATTTAAATGTTATTTTATCA
1 TTTTATTTAAATGTTATTTTATCA
* *
67416443 TATTATTTATAT-TTCATTTATAT-A
1 TTTTATTTAAATGTT-ATTT-TATCA
67416467 TTTTATT
1 TTTTATT
67416474 ACATATCATA
Statistics
Matches: 26, Mismatches: 3, Indels: 4
0.79 0.09 0.12
Matches are distributed among these distances:
23 2 0.08
24 21 0.81
25 3 0.12
ACGTcount: A:0.29, C:0.04, G:0.02, T:0.65
Consensus pattern (24 bp):
TTTTATTTAAATGTTATTTTATCA
Found at i:67416486 original size:17 final size:17
Alignment explanation
Indices: 67416464--67416496 Score: 57
Period size: 17 Copynumber: 1.9 Consensus size: 17
67416454 TTTCATTTAT
67416464 ATATTTTATTACATATC
1 ATATTTTATTACATATC
*
67416481 ATATTTTATTATATAT
1 ATATTTTATTACATAT
67416497 TATTCCCTAT
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
17 15 1.00
ACGTcount: A:0.36, C:0.06, G:0.00, T:0.58
Consensus pattern (17 bp):
ATATTTTATTACATATC
Found at i:67418170 original size:32 final size:32
Alignment explanation
Indices: 67418092--67418177 Score: 93
Period size: 31 Copynumber: 2.7 Consensus size: 32
67418082 AGCCCTTCCT
* * *
67418092 GCATTAAAATCCAACCAAATACAACAAATATA
1 GCATAAAAATACAACCAAAAACAACAAATATA
* * * * *
67418124 GTAT-AAAATGCAACCAAAAATAGCAAATTTA
1 GCATAAAAATACAACCAAAAACAACAAATATA
67418155 GCATAAAAATACAACCAAAAACA
1 GCATAAAAATACAACCAAAAACA
67418178 TTAATTCTAA
Statistics
Matches: 44, Mismatches: 9, Indels: 2
0.80 0.16 0.04
Matches are distributed among these distances:
31 25 0.57
32 19 0.43
ACGTcount: A:0.58, C:0.19, G:0.06, T:0.17
Consensus pattern (32 bp):
GCATAAAAATACAACCAAAAACAACAAATATA
Found at i:67418422 original size:21 final size:20
Alignment explanation
Indices: 67418398--67418455 Score: 55
Period size: 21 Copynumber: 2.8 Consensus size: 20
67418388 TTTTGCTCTG
67418398 CTCTGCTACCATCGCT-GCTGC
1 CTCTGCT-CCATCGCTCG-TGC
*
67418419 CTCTGCCTCCCTCGCTCGTGC
1 CTCTG-CTCCATCGCTCGTGC
*
67418440 CTCTGCCTCCTTCGCT
1 CTCTG-CTCCATCGCT
67418456 GTTGCCGCTG
Statistics
Matches: 33, Mismatches: 2, Indels: 4
0.85 0.05 0.10
Matches are distributed among these distances:
21 30 0.91
22 3 0.09
ACGTcount: A:0.03, C:0.48, G:0.17, T:0.31
Consensus pattern (20 bp):
CTCTGCTCCATCGCTCGTGC
Found at i:67418461 original size:21 final size:21
Alignment explanation
Indices: 67418409--67418505 Score: 117
Period size: 21 Copynumber: 4.6 Consensus size: 21
67418399 TCTGCTACCA
67418409 TCGCTGCTGCCTCTGCCTCCC
1 TCGCTGCTGCCTCTGCCTCCC
*
67418430 TCGCT-CGTGCCTCTGCCTCCT
1 TCGCTGC-TGCCTCTGCCTCCC
* *
67418451 TCGCTGTTGCCGCTGCCTCCC
1 TCGCTGCTGCCTCTGCCTCCC
*
67418472 TCACTGCTG-CTGCTGCCTCCC
1 TCGCTGCTGCCT-CTGCCTCCC
*
67418493 TCTCTGCTGCCTC
1 TCGCTGCTGCCTC
67418506 CGCTCTAAGT
Statistics
Matches: 64, Mismatches: 8, Indels: 8
0.80 0.10 0.10
Matches are distributed among these distances:
20 2 0.03
21 60 0.94
22 2 0.03
ACGTcount: A:0.01, C:0.48, G:0.20, T:0.31
Consensus pattern (21 bp):
TCGCTGCTGCCTCTGCCTCCC
Found at i:67424141 original size:9 final size:9
Alignment explanation
Indices: 67424080--67424439 Score: 113
Period size: 9 Copynumber: 41.1 Consensus size: 9
67424070 TATGTATTAC
*
67424080 GTAAGTTAA
1 GTAAGTTAT
*
67424089 GTAAGTTTT
1 GTAAGTTAT
*
67424098 GTAAGTTTT
1 GTAAGTTAT
*
67424107 GTAAGTTTT
1 GTAAGTTAT
*
67424116 GTAAGTTTT
1 GTAAGTTAT
67424125 GTAAGTTAT
1 GTAAGTTAT
67424134 GTAAGTTAT
1 GTAAGTTAT
* * *
67424143 AATATGATAT
1 -GTAAGTTAT
* *
67424153 -AAACTTAT
1 GTAAGTTAT
* *
67424161 GTAAGGTGT
1 GTAAGTTAT
67424170 GTAAGTTAT
1 GTAAGTTAT
*
67424179 GTAAATTAT
1 GTAAGTTAT
* *
67424188 -TATA-TGAA
1 GTA-AGTTAT
* *
67424196 ATATATTTAT
1 GTA-AGTTAT
* *
67424206 -TTA-TTAC
1 GTAAGTTAT
67424213 GTAAGTTAT
1 GTAAGTTAT
* *
67424222 AT-ATTTAT
1 GTAAGTTAT
67424230 GT-A-TTAT
1 GTAAGTTAT
*
67424237 GTAAGTTTT
1 GTAAGTTAT
67424246 GTAAGTTAT
1 GTAAGTTAT
67424255 GTAAGTTAT
1 GTAAGTTAT
* *
67424264 GATATGATAT
1 G-TAAGTTAT
* *
67424274 -AAATTTAT
1 GTAAGTTAT
**
67424282 GTAAGGAAT
1 GTAAGTTAT
67424291 GTAAGTTAT
1 GTAAGTTAT
*
67424300 GTAAATTAT
1 GTAAGTTAT
* **
67424309 GATATGAAAT
1 G-TAAGTTAT
* *
67424319 AT-ATTTAT
1 GTAAGTTAT
* *
67424327 -TTA-TTAC
1 GTAAGTTAT
67424334 GTAAGTTAT
1 GTAAGTTAT
67424343 GTAAGTTAT
1 GTAAGTTAT
* *
67424352 AT-ATTTAT
1 GTAAGTTAT
*
67424360 AT-A-TTAT
1 GTAAGTTAT
*
67424367 GTAAGTTTT
1 GTAAGTTAT
67424376 GTAAGTTAT
1 GTAAGTTAT
*
67424385 GTGAGTTAT
1 GTAAGTTAT
* *
67424394 GATATGATAT
1 G-TAAGTTAT
* *
67424404 -AAATTTAT
1 GTAAGTTAT
** *
67424412 GTAAGGAAG
1 GTAAGTTAT
67424421 GTAAGTTAT
1 GTAAGTTAT
*
67424430 GTAAATTAT
1 GTAAGTTAT
67424439 G
1 G
67424440 ATATCAAATA
Statistics
Matches: 255, Mismatches: 77, Indels: 38
0.69 0.21 0.10
Matches are distributed among these distances:
7 18 0.07
8 41 0.16
9 173 0.68
10 23 0.09
ACGTcount: A:0.36, C:0.01, G:0.17, T:0.46
Consensus pattern (9 bp):
GTAAGTTAT
Found at i:67424228 original size:24 final size:24
Alignment explanation
Indices: 67424196--67424243 Score: 78
Period size: 24 Copynumber: 2.0 Consensus size: 24
67424186 ATTATATGAA
*
67424196 ATATATTTATTTATTACGTAAGTT
1 ATATATTTATGTATTACGTAAGTT
*
67424220 ATATATTTATGTATTATGTAAGTT
1 ATATATTTATGTATTACGTAAGTT
67424244 TTGTAAGTTA
Statistics
Matches: 22, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
24 22 1.00
ACGTcount: A:0.33, C:0.02, G:0.10, T:0.54
Consensus pattern (24 bp):
ATATATTTATGTATTACGTAAGTT
Found at i:67424260 original size:130 final size:129
Alignment explanation
Indices: 67424115--67424540 Score: 654
Period size: 130 Copynumber: 3.3 Consensus size: 129
67424105 TTGTAAGTTT
* * *
67424115 TGTAAGTTTTGTAAGTTATGTAAGTTATAATATGATATAAACTTATGTAAGGTGTGTAAGTTATG
1 TGTAAGTTTTGTAAGTTATGTAAGTTATGATATGATATAAATTTATGTAAGGAGTGTAAGTTATG
* * *
67424180 TAAATTATTATATGAAATATATTTATTTATTACGTAAGTTA--T-A--TAT-T-TATGT-ATTA
66 TAAATTATGATATGAAATATATTTATTTATTACGTAAGTTATGTAAGTTATATATTTATAATTA
*
67424236 TGTAAGTTTTGTAAGTTATGTAAGTTATGATATGATATAAATTTATGTAAGGAATGTAAGTTATG
1 TGTAAGTTTTGTAAGTTATGTAAGTTATGATATGATATAAATTTATGTAAGGAGTGTAAGTTATG
67424301 TAAATTATGATATGAAATATATTTATTTATTACGTAAGTTATGTAAGTTATATATTTATATATTA
66 TAAATTATGATATGAAATATATTTATTTATTACGTAAGTTATGTAAGTTATATATTTATA-ATTA
*
67424366 TGTAAGTTTTGTAAGTTATGTGAGTTATGATATGATATAAATTTATGTAAGGAAG-GTAAGTTAT
1 TGTAAGTTTTGTAAGTTATGTAAGTTATGATATGATATAAATTTATGTAAGG-AGTGTAAGTTAT
*
67424430 GTAAATTATGATATCAAATATATTTATTTATTACGTAAGTTATGTAAGTTATATATTTATAAATT
65 GTAAATTATGATATGAAATATATTTATTTATTACGTAAGTTATGTAAGTTATATATTTAT-AATT
67424495 A
129 A
* * *
67424496 TGTAAGTTTTGTAAGTTTTGTAAATTATGATATGATATATATTTA
1 TGTAAGTTTTGTAAGTTATGTAAGTTATGATATGATATAAATTTA
67424541 ACATTAAGAT
Statistics
Matches: 280, Mismatches: 14, Indels: 13
0.91 0.05 0.04
Matches are distributed among these distances:
121 101 0.36
123 1 0.00
124 1 0.00
126 3 0.01
127 1 0.00
128 3 0.01
130 168 0.60
131 2 0.01
ACGTcount: A:0.37, C:0.01, G:0.15, T:0.46
Consensus pattern (129 bp):
TGTAAGTTTTGTAAGTTATGTAAGTTATGATATGATATAAATTTATGTAAGGAGTGTAAGTTATG
TAAATTATGATATGAAATATATTTATTTATTACGTAAGTTATGTAAGTTATATATTTATAATTA
Found at i:67426337 original size:20 final size:20
Alignment explanation
Indices: 67426314--67426368 Score: 53
Period size: 19 Copynumber: 2.9 Consensus size: 20
67426304 AAAAAACAGC
67426314 ATAAAAAGTATTAAAAAAAT
1 ATAAAAAGTATTAAAAAAAT
* *
67426334 AT-AAATGCTATT-AAAAAGT
1 ATAAAAAG-TATTAAAAAAAT
*
67426353 ATAAATA-TATTAAAAA
1 ATAAAAAGTATTAAAAA
67426369 TCATATCTTC
Statistics
Matches: 28, Mismatches: 4, Indels: 7
0.72 0.10 0.18
Matches are distributed among these distances:
18 4 0.14
19 16 0.57
20 8 0.29
ACGTcount: A:0.64, C:0.02, G:0.05, T:0.29
Consensus pattern (20 bp):
ATAAAAAGTATTAAAAAAAT
Found at i:67426363 original size:18 final size:19
Alignment explanation
Indices: 67426322--67426368 Score: 60
Period size: 19 Copynumber: 2.5 Consensus size: 19
67426312 GCATAAAAAG
*
67426322 TATTAAAAAAATATAAATGC
1 TATT-AAAAAATATAAATGA
*
67426342 TATTAAAAAGTATAAAT-A
1 TATTAAAAAATATAAATGA
67426360 TATTAAAAA
1 TATTAAAAA
67426369 TCATATCTTC
Statistics
Matches: 25, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
18 9 0.36
19 12 0.48
20 4 0.16
ACGTcount: A:0.62, C:0.02, G:0.04, T:0.32
Consensus pattern (19 bp):
TATTAAAAAATATAAATGA
Found at i:67428242 original size:26 final size:27
Alignment explanation
Indices: 67428213--67428269 Score: 82
Period size: 26 Copynumber: 2.1 Consensus size: 27
67428203 AAGAATTAGA
67428213 TAAAATTTGAAATATTGAAA-ATTATT-
1 TAAAATTTGAAATATT-AAATATTATTC
*
67428239 TAAAATTTGAAATCTTAAATATTATTC
1 TAAAATTTGAAATATTAAATATTATTC
67428266 TAAA
1 TAAA
67428270 TTCAAAATCT
Statistics
Matches: 28, Mismatches: 1, Indels: 3
0.88 0.03 0.09
Matches are distributed among these distances:
25 3 0.11
26 21 0.75
27 4 0.14
ACGTcount: A:0.49, C:0.04, G:0.05, T:0.42
Consensus pattern (27 bp):
TAAAATTTGAAATATTAAATATTATTC
Found at i:67428477 original size:38 final size:38
Alignment explanation
Indices: 67428403--67428477 Score: 91
Period size: 38 Copynumber: 2.0 Consensus size: 38
67428393 TTAATTACCT
* * *
67428403 TAAACCCCTAACCCCTATCCCTTTAATCCTATAACTCC
1 TAAACCCCTAACACCTATCCATTTAACCCTATAACTCC
67428441 TAAA-CCCTCAACACCTATCCATTTAAGCCCTA-AACTC
1 TAAACCCCT-AACACCTATCCATTTAA-CCCTATAACTC
67428478 ATAACTCATA
Statistics
Matches: 32, Mismatches: 3, Indels: 4
0.82 0.08 0.10
Matches are distributed among these distances:
37 4 0.12
38 24 0.75
39 4 0.12
ACGTcount: A:0.32, C:0.40, G:0.01, T:0.27
Consensus pattern (38 bp):
TAAACCCCTAACACCTATCCATTTAACCCTATAACTCC
Found at i:67428554 original size:15 final size:15
Alignment explanation
Indices: 67428526--67428570 Score: 56
Period size: 15 Copynumber: 3.1 Consensus size: 15
67428516 CTATACCATT
67428526 TAAACCCC-AAACCA
1 TAAACCCCTAAACCA
67428540 TAAACCCCTAAACCA
1 TAAACCCCTAAACCA
* * *
67428555 TGAATCCTTAAACCA
1 TAAACCCCTAAACCA
67428570 T
1 T
67428571 GAATAAGCAC
Statistics
Matches: 27, Mismatches: 3, Indels: 1
0.87 0.10 0.03
Matches are distributed among these distances:
14 8 0.30
15 19 0.70
ACGTcount: A:0.44, C:0.36, G:0.02, T:0.18
Consensus pattern (15 bp):
TAAACCCCTAAACCA
Found at i:67428606 original size:21 final size:20
Alignment explanation
Indices: 67428582--67428640 Score: 57
Period size: 21 Copynumber: 2.8 Consensus size: 20
67428572 AATAAGCACT
*
67428582 AACCTCTAAACCTTAAAGCC-C
1 AACC-CTAAACCTTAAA-CCAA
*
67428603 AACCCTTAAACCATAAACCAA
1 AACCC-TAAACCTTAAACCAA
67428624 AATCCCTAAACCTTAAA
1 AA-CCCTAAACCTTAAA
67428641 ACATTAACTC
Statistics
Matches: 32, Mismatches: 3, Indels: 6
0.78 0.07 0.15
Matches are distributed among these distances:
20 3 0.09
21 26 0.81
22 3 0.09
ACGTcount: A:0.46, C:0.34, G:0.02, T:0.19
Consensus pattern (20 bp):
AACCCTAAACCTTAAACCAA
Found at i:67428662 original size:7 final size:7
Alignment explanation
Indices: 67428609--67428664 Score: 51
Period size: 7 Copynumber: 7.9 Consensus size: 7
67428599 GCCCAACCCT
67428609 TAAACCA
1 TAAACCA
67428616 TAAACCA
1 TAAACCA
*
67428623 -AAATCCC
1 TAAA-CCA
*
67428630 TAAACCT
1 TAAACCA
*
67428637 TAAAACA
1 TAAACCA
*
67428644 TTAACTCA
1 TAAAC-CA
67428652 TAAACCA
1 TAAACCA
67428659 TAAACC
1 TAAACC
67428665 CTTTTCCCAT
Statistics
Matches: 39, Mismatches: 7, Indels: 6
0.75 0.13 0.12
Matches are distributed among these distances:
6 3 0.08
7 27 0.69
8 9 0.23
ACGTcount: A:0.52, C:0.29, G:0.00, T:0.20
Consensus pattern (7 bp):
TAAACCA
Found at i:67428768 original size:29 final size:28
Alignment explanation
Indices: 67428702--67428789 Score: 88
Period size: 29 Copynumber: 3.1 Consensus size: 28
67428692 TTAAACCGGC
* * *
67428702 CCTT-AACCCCTAACCCCTATCCCTTTAA
1 CCTTAAACCCATAACCCATAACCC-TTAA
*
67428730 CCATTAAACCCGTAACCCATAACCCTTAA
1 CC-TTAAACCCATAACCCATAACCCTTAA
**
67428759 TCCTTAAACCCATAATACATAACCCTTAA
1 -CCTTAAACCCATAACCCATAACCCTTAA
67428788 CC
1 CC
67428790 CTTTAACCAC
Statistics
Matches: 51, Mismatches: 6, Indels: 6
0.81 0.10 0.10
Matches are distributed among these distances:
28 4 0.08
29 29 0.57
30 18 0.35
ACGTcount: A:0.34, C:0.40, G:0.01, T:0.25
Consensus pattern (28 bp):
CCTTAAACCCATAACCCATAACCCTTAA
Found at i:67428797 original size:8 final size:7
Alignment explanation
Indices: 67428701--67428797 Score: 59
Period size: 7 Copynumber: 13.3 Consensus size: 7
67428691 ATTAAACCGG
67428701 CCCTTAA
1 CCCTTAA
*
67428708 CCCCTAA
1 CCCTTAA
* *
67428715 CCCCTAT
1 CCCTTAA
67428722 CCCTTTAA
1 CCC-TTAA
*
67428730 CCATTAAA
1 CCCTT-AA
*
67428738 CCCGTAA
1 CCCTTAA
*
67428745 CCCATAA
1 CCCTTAA
67428752 CCCTTAA
1 CCCTTAA
*
67428759 TCCTTAAA
1 CCCTT-AA
*
67428767 CCCATAA
1 CCCTTAA
** *
67428774 TACATAA
1 CCCTTAA
67428781 CCCTTAA
1 CCCTTAA
67428788 CCCTTTAA
1 CCC-TTAA
67428796 CC
1 CC
67428798 ACTAATCCCT
Statistics
Matches: 69, Mismatches: 17, Indels: 7
0.74 0.18 0.08
Matches are distributed among these distances:
7 49 0.71
8 20 0.29
ACGTcount: A:0.33, C:0.40, G:0.01, T:0.26
Consensus pattern (7 bp):
CCCTTAA
Found at i:67428803 original size:29 final size:29
Alignment explanation
Indices: 67428726--67428797 Score: 90
Period size: 29 Copynumber: 2.5 Consensus size: 29
67428716 CCCTATCCCT
* * **
67428726 TTAACCATTAAACCCGTAACCCATAACCC
1 TTAACCCTTAAACCCATAATACATAACCC
*
67428755 TTAATCCTTAAACCCATAATACATAACCC
1 TTAACCCTTAAACCCATAATACATAACCC
*
67428784 TTAACCCTTTAACC
1 TTAACCCTTAAACC
67428798 ACTAATCCCT
Statistics
Matches: 36, Mismatches: 7, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
29 36 1.00
ACGTcount: A:0.38, C:0.35, G:0.01, T:0.26
Consensus pattern (29 bp):
TTAACCCTTAAACCCATAATACATAACCC
Found at i:67428832 original size:21 final size:21
Alignment explanation
Indices: 67428790--67428832 Score: 52
Period size: 21 Copynumber: 2.0 Consensus size: 21
67428780 ACCCTTAACC
* *
67428790 CTTTAACCACTAATCCCTAAA
1 CTTTAACCACTAACCCCCAAA
67428811 CTTTAAACCAC-AACCCCCAAA
1 CTTT-AACCACTAACCCCCAAA
67428832 C
1 C
67428833 CCATAATCCC
Statistics
Matches: 19, Mismatches: 2, Indels: 2
0.83 0.09 0.09
Matches are distributed among these distances:
21 13 0.68
22 6 0.32
ACGTcount: A:0.40, C:0.40, G:0.00, T:0.21
Consensus pattern (21 bp):
CTTTAACCACTAACCCCCAAA
Found at i:67429197 original size:28 final size:29
Alignment explanation
Indices: 67429157--67429211 Score: 69
Period size: 28 Copynumber: 1.9 Consensus size: 29
67429147 AATAAATTGT
*
67429157 ATTTTAATCAATATAA-ATATAAATAAACC
1 ATTTAAATCAATA-AATATATAAATAAACC
*
67429186 ATTTAAAT-AATAAATATATACATAAA
1 ATTTAAATCAATAAATATATAAATAAA
67429212 ATACTTTTTG
Statistics
Matches: 23, Mismatches: 2, Indels: 3
0.82 0.07 0.11
Matches are distributed among these distances:
27 2 0.09
28 14 0.61
29 7 0.30
ACGTcount: A:0.58, C:0.07, G:0.00, T:0.35
Consensus pattern (29 bp):
ATTTAAATCAATAAATATATAAATAAACC
Found at i:67429548 original size:40 final size:38
Alignment explanation
Indices: 67429501--67429610 Score: 107
Period size: 40 Copynumber: 2.8 Consensus size: 38
67429491 TATAAAAGCA
*
67429501 CCGCTAATGCTCGATCTATAGCGGCGCTTTTAGAAAAACG
1 CCGCTAATGCTCGATCTATAGCGGCGTTTTTAG--AAACG
* * *
67429541 CCGCTAATG-TCCTATCTATTGTGGCGTTTGTTTAGAAACG
1 CCGCTAATGCT-CGATCTATAGCGGCG-TT-TTTAGAAACG
* *
67429581 CCGCTAATGCT-GAACTCTAGCGGCGTTTTT
1 CCGCTAATGCTCGATCTATAGCGGCGTTTTT
67429611 TGTTCAAACG
Statistics
Matches: 57, Mismatches: 9, Indels: 11
0.74 0.12 0.14
Matches are distributed among these distances:
37 3 0.05
38 2 0.04
39 10 0.18
40 35 0.61
41 2 0.04
42 5 0.09
ACGTcount: A:0.22, C:0.24, G:0.23, T:0.32
Consensus pattern (38 bp):
CCGCTAATGCTCGATCTATAGCGGCGTTTTTAGAAACG
Found at i:67431948 original size:2 final size:2
Alignment explanation
Indices: 67431941--67431973 Score: 66
Period size: 2 Copynumber: 16.5 Consensus size: 2
67431931 CAAAATCGAT
67431941 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
67431974 CAATTAATAA
Statistics
Matches: 31, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 31 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Found at i:67433231 original size:14 final size:15
Alignment explanation
Indices: 67433212--67433252 Score: 75
Period size: 14 Copynumber: 2.8 Consensus size: 15
67433202 GTAAAGAGGG
67433212 AAAAGCAAAAGGC-A
1 AAAAGCAAAAGGCAA
67433226 AAAAGCAAAAGGCAA
1 AAAAGCAAAAGGCAA
67433241 AAAAGCAAAAGG
1 AAAAGCAAAAGG
67433253 GTGAAGGGTG
Statistics
Matches: 26, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
14 13 0.50
15 13 0.50
ACGTcount: A:0.66, C:0.12, G:0.22, T:0.00
Consensus pattern (15 bp):
AAAAGCAAAAGGCAA
Found at i:67435372 original size:5 final size:5
Alignment explanation
Indices: 67435362--67435391 Score: 60
Period size: 5 Copynumber: 6.0 Consensus size: 5
67435352 GAGAAGACCC
67435362 AGGGG AGGGG AGGGG AGGGG AGGGG AGGGG
1 AGGGG AGGGG AGGGG AGGGG AGGGG AGGGG
67435392 GATATGTTAA
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 25 1.00
ACGTcount: A:0.20, C:0.00, G:0.80, T:0.00
Consensus pattern (5 bp):
AGGGG
Found at i:67437145 original size:22 final size:21
Alignment explanation
Indices: 67437100--67437145 Score: 56
Period size: 21 Copynumber: 2.1 Consensus size: 21
67437090 GACTGCCTTC
* *
67437100 GATGTCGTGACATAGATTAAA
1 GATGTCGCGACATACATTAAA
*
67437121 GATGTCGCGACATACCTCTAAA
1 GATGTCGCGACATACAT-TAAA
67437143 GAT
1 GAT
67437146 AACCCAAGAG
Statistics
Matches: 21, Mismatches: 3, Indels: 1
0.84 0.12 0.04
Matches are distributed among these distances:
21 14 0.67
22 7 0.33
ACGTcount: A:0.35, C:0.17, G:0.22, T:0.26
Consensus pattern (21 bp):
GATGTCGCGACATACATTAAA
Found at i:67447195 original size:34 final size:34
Alignment explanation
Indices: 67447150--67447216 Score: 100
Period size: 34 Copynumber: 2.0 Consensus size: 34
67447140 TGGATTGTAC
*
67447150 TGAACCTAAATTACTT-GATATCAATTGAGGAACA
1 TGAACCCAAATTACTTGGAT-TCAATTGAGGAACA
*
67447184 TGAACCCAAATTACTTGGCTTCAATTGAGGAAC
1 TGAACCCAAATTACTTGGATTCAATTGAGGAAC
67447217 TTTCAAATAT
Statistics
Matches: 30, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
34 28 0.93
35 2 0.07
ACGTcount: A:0.37, C:0.18, G:0.16, T:0.28
Consensus pattern (34 bp):
TGAACCCAAATTACTTGGATTCAATTGAGGAACA
Found at i:67447254 original size:2 final size:2
Alignment explanation
Indices: 67447247--67447282 Score: 63
Period size: 2 Copynumber: 18.0 Consensus size: 2
67447237 CCTTTGTTAC
*
67447247 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT TT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
67447283 TTTTTATAAG
Statistics
Matches: 32, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
2 32 1.00
ACGTcount: A:0.47, C:0.00, G:0.00, T:0.53
Consensus pattern (2 bp):
AT
Found at i:67456902 original size:40 final size:40
Alignment explanation
Indices: 67456842--67457007 Score: 199
Period size: 40 Copynumber: 4.2 Consensus size: 40
67456832 TGAAAAAGTG
* * *
67456842 CCCCTGAATGCACATTTGTGCCCATGTTTGTACTTCGGTA
1 CCCCTGAATGCACATCTGTGCCCTTGTTTGTACTTTGGTA
* * *
67456882 CCCTTGAATGCACATCTGTGCCCTTGTTTATACTTTAGTA
1 CCCCTGAATGCACATCTGTGCCCTTGTTTGTACTTTGGTA
* * *
67456922 CCCCTGAATGTACATCTGTGCCCTTGTTTGCACTTTGGTG
1 CCCCTGAATGCACATCTGTGCCCTTGTTTGTACTTTGGTA
* * * *
67456962 CCCCTGATTGCACAT-TCGTGCTCTTGATTGCACTTTGGTA
1 CCCCTGAATGCACATCT-GTGCCCTTGTTTGTACTTTGGTA
67457002 CCCCTG
1 CCCCTG
67457008 TTATACATCT
Statistics
Matches: 108, Mismatches: 17, Indels: 2
0.85 0.13 0.02
Matches are distributed among these distances:
39 1 0.01
40 107 0.99
ACGTcount: A:0.16, C:0.28, G:0.19, T:0.37
Consensus pattern (40 bp):
CCCCTGAATGCACATCTGTGCCCTTGTTTGTACTTTGGTA
Found at i:67456907 original size:20 final size:20
Alignment explanation
Indices: 67456839--67456907 Score: 57
Period size: 20 Copynumber: 3.5 Consensus size: 20
67456829 AAATGAAAAA
* *
67456839 GTGCCCCTGAATGCACATTT
1 GTGCCCTTGAATGCACATCT
* ** * * *
67456859 GTGCCCATGTTTGTACTTCG
1 GTGCCCTTGAATGCACATCT
*
67456879 GTACCCTTGAATGCACATCT
1 GTGCCCTTGAATGCACATCT
67456899 GTGCCCTTG
1 GTGCCCTTG
67456908 TTTATACTTT
Statistics
Matches: 34, Mismatches: 15, Indels: 0
0.69 0.31 0.00
Matches are distributed among these distances:
20 34 1.00
ACGTcount: A:0.16, C:0.29, G:0.22, T:0.33
Consensus pattern (20 bp):
GTGCCCTTGAATGCACATCT
Found at i:67456964 original size:20 final size:20
Alignment explanation
Indices: 67456939--67457000 Score: 79
Period size: 20 Copynumber: 3.1 Consensus size: 20
67456929 ATGTACATCT
*
67456939 GTGCCCTTGTTTGCACTTTG
1 GTGCCCTTGATTGCACTTTG
* * *
67456959 GTGCCCCTGATTGCACATTC
1 GTGCCCTTGATTGCACTTTG
*
67456979 GTGCTCTTGATTGCACTTTG
1 GTGCCCTTGATTGCACTTTG
67456999 GT
1 GT
67457001 ACCCCTGTTA
Statistics
Matches: 34, Mismatches: 8, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
20 34 1.00
ACGTcount: A:0.10, C:0.26, G:0.24, T:0.40
Consensus pattern (20 bp):
GTGCCCTTGATTGCACTTTG
Found at i:67458331 original size:34 final size:31
Alignment explanation
Indices: 67458260--67458331 Score: 144
Period size: 31 Copynumber: 2.3 Consensus size: 31
67458250 CTCCCCACCC
67458260 CTCCACCACCGACGCCTGCAAGTGGCCTCTG
1 CTCCACCACCGACGCCTGCAAGTGGCCTCTG
67458291 CTCCACCACCGACGCCTGCAAGTGGCCTCTG
1 CTCCACCACCGACGCCTGCAAGTGGCCTCTG
67458322 CTCCACCACC
1 CTCCACCACC
67458332 CATTTTCCTA
Statistics
Matches: 41, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
31 41 1.00
ACGTcount: A:0.17, C:0.49, G:0.19, T:0.15
Consensus pattern (31 bp):
CTCCACCACCGACGCCTGCAAGTGGCCTCTG
Found at i:67459249 original size:3 final size:3
Alignment explanation
Indices: 67459241--67459387 Score: 66
Period size: 3 Copynumber: 49.3 Consensus size: 3
67459231 TCCCATTTCT
* * * * * *
67459241 TTA TTA TTA CTA TTA TCA TTA TTA TTTG TTGC TTA ATA -TA TTA TTG
1 TTA TTA TTA TTA TTA TTA TTA TTA -TTA TT-A TTA TTA TTA TTA TTA
* ** * * *
67459287 TTA TTA TTT TTA TCC TCA TCA TTA TTA TTA TTA TTA TTA TTA TTA CTA
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA
* * * * * * **
67459335 TTA TT- TGA -TA CTA TCA TTA CTA TTA TTA TTC TAA TTA CCA TTA TTA
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA
*
67459381 CTA TTA T
1 TTA TTA T
67459388 ATATATACAT
Statistics
Matches: 104, Mismatches: 35, Indels: 10
0.70 0.23 0.07
Matches are distributed among these distances:
2 4 0.04
3 96 0.92
4 4 0.04
ACGTcount: A:0.30, C:0.10, G:0.03, T:0.57
Consensus pattern (3 bp):
TTA
Found at i:67459448 original size:87 final size:86
Alignment explanation
Indices: 67459317--67459549 Score: 287
Period size: 87 Copynumber: 2.7 Consensus size: 86
67459307 ATTATTATTA
* * * *
67459317 TTATTATTATT-AT-TAC-TATTATTTGATACTATCATTACTATTATTATTCTAATTACCA-TT-
1 TTATTATTATTCATGTACATA-TATTTTA-AATATTATTACCATTATTATT-T--TTACCACTTA
*
67459377 ATTACTATTATATATATACATACCTT
61 ATGACTATTATATATATACATACCTT
* *
67459403 TTATTATTATTCATGTACATATATTTTAAATATTATTACCATTATTATTTTTATCACTTACATGG
1 TTATTATTATTCATGTACATATATTTTAAATATTATTACCATTATTATTTTTACCACTTA-ATGA
*
67459468 TTATTATATATATACATACCTT
65 CTATTATATATATACATACCTT
* *
67459490 TTACTATTATTCATGTACATATATTTTAAATATTATTACCATTATTATTTTTATCACTTA
1 TTATTATTATTCATGTACATATATTTTAAATATTATTACCATTATTATTTTTACCACTTA
67459550 CATGGTTATT
Statistics
Matches: 132, Mismatches: 9, Indels: 11
0.87 0.06 0.07
Matches are distributed among these distances:
84 5 0.04
85 2 0.02
86 12 0.09
87 102 0.77
88 9 0.07
89 2 0.02
ACGTcount: A:0.33, C:0.12, G:0.02, T:0.52
Consensus pattern (86 bp):
TTATTATTATTCATGTACATATATTTTAAATATTATTACCATTATTATTTTTACCACTTAATGAC
TATTATATATATACATACCTT
Found at i:67459550 original size:87 final size:87
Alignment explanation
Indices: 67459382--67459561 Score: 351
Period size: 87 Copynumber: 2.1 Consensus size: 87
67459372 CCATTATTAC
*
67459382 TATTATATATATACATACCTTTTATTATTATTCATGTACATATATTTTAAATATTATTACCATTA
1 TATTATATATATACATACCTTTTACTATTATTCATGTACATATATTTTAAATATTATTACCATTA
67459447 TTATTTTTATCACTTACATGGT
66 TTATTTTTATCACTTACATGGT
67459469 TATTATATATATACATACCTTTTACTATTATTCATGTACATATATTTTAAATATTATTACCATTA
1 TATTATATATATACATACCTTTTACTATTATTCATGTACATATATTTTAAATATTATTACCATTA
67459534 TTATTTTTATCACTTACATGGT
66 TTATTTTTATCACTTACATGGT
67459556 TATTAT
1 TATTAT
67459562 TATTCTATTA
Statistics
Matches: 92, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
87 92 1.00
ACGTcount: A:0.33, C:0.12, G:0.03, T:0.52
Consensus pattern (87 bp):
TATTATATATATACATACCTTTTACTATTATTCATGTACATATATTTTAAATATTATTACCATTA
TTATTTTTATCACTTACATGGT
Found at i:67472788 original size:81 final size:81
Alignment explanation
Indices: 67472667--67473098 Score: 395
Period size: 81 Copynumber: 5.4 Consensus size: 81
67472657 TAAAAATTAA
* ** * * * *
67472667 AATTGAATAAAATCTATTTCGGGCGTTATTCCCTTCGTTCAATAGATTTT-TTCCTTTTTTATTT
1 AATTGAAT-AATTCTATTTCGGGATTTATTCCC-ACATTCAACAGATTTTATTCCATTTTTATTT
67472731 TGTTTCTAAACAAGAATT
64 TGTTTCTAAACAAGAATT
* * * * * *
67472749 AATTGAATAATTTTGTTTCGGTATTTATTCCTACAGTTCAATAGATTTTATTCCTTTTTTATTTT
1 AATTGAATAATTCTATTTCGGGATTTATTCCCACA-TTCAACAGATTTTATTCCATTTTTATTTT
**
67472814 -TTT-TAAATGAGAATT
65 GTTTCTAAACAAGAATT
*
67472829 AA-TGAATAATTCTATTTCGGGATTTATTCCCACCATTCAACAGATTTTATTCCATTTTAATTTT
1 AATTGAATAATTCTATTTCGGGATTTATTCCCA-CATTCAACAGATTTTATTCCATTTTTATTTT
**
67472893 GTTTC-AAATGAGAATT
65 GTTTCTAAACAAGAATT
* **
67472909 AATTGAATAAATCTATTTCGGGATTTATTCTCGC-CATTCAACAGATTTTATTTGATTTTTATTT
1 AATTGAATAATTCTATTTCGGGATTTATTC-C-CACATTCAACAGATTTTATTCCATTTTTATTT
*
67472973 TGTTTCCAAACGAA-AATTT
64 TGTTTCTAAAC-AAGAA-TT
* * * * **
67472992 AATT-ATATAATTCTATTTCGGGATTTATTCCCCTCGTTTAACATA-TTTA----ATTTTGGTTT
1 AATTGA-ATAATTCTATTTCGGGATTTATT-CCCACATTCAACAGATTTTATTCCATTTTTATTT
* *
67473051 TGTTTCCAAACAAGATTT
64 TGTTTCTAAACAAGAATT
* *
67473069 AATTAAATAATTCTATTTCGGAATTTATTC
1 AATTGAATAATTCTATTTCGGGATTTATTC
67473099 TCATCGTTTA
Statistics
Matches: 302, Mismatches: 32, Indels: 38
0.81 0.09 0.10
Matches are distributed among these distances:
76 1 0.00
77 30 0.10
78 21 0.07
79 52 0.17
80 31 0.10
81 92 0.30
82 35 0.12
83 39 0.13
84 1 0.00
ACGTcount: A:0.29, C:0.13, G:0.10, T:0.48
Consensus pattern (81 bp):
AATTGAATAATTCTATTTCGGGATTTATTCCCACATTCAACAGATTTTATTCCATTTTTATTTTG
TTTCTAAACAAGAATT
Found at i:67472937 original size:160 final size:163
Alignment explanation
Indices: 67472670--67473100 Score: 423
Period size: 160 Copynumber: 2.7 Consensus size: 163
67472660 AAATTAAAAT
* ** ** * * * *
67472670 TGAATAAAATCTATTTCGGGCGTTATTCCCTTCGTTCAATAGATTTTTTCCTTTTTTATTTTGTT
1 TGAAT-AATTCTATTTCGGGATTTATTCCCACCATTCAACAGATTTTTTCCATTTTAATTTTGTT
* * * * * *
67472735 TCTAAACAAGAATTAATTGAATAATTTTGTTTCGGTATTTATTC-CTACAGTTCAATAGATTTTA
65 TCTAAACAAGAATTAATTGAATAAATCTATTTCGGGATTTATTCTCGACA-TTCAACAGATTTTA
* * * *
67472799 TTCCTTTTTTATTTT-TTT-TAAATGAGAA-TTAA
129 TTCCATTTTTATTTTGTTTCCAAACGAAAATTTAA
67472831 TGAATAATTCTATTTCGGGATTTATTCCCACCATTCAACAGATTTTATTCCATTTTAATTTTGTT
1 TGAATAATTCTATTTCGGGATTTATTCCCACCATTCAACAGATTTT-TTCCATTTTAATTTTGTT
** *
67472896 TC-AAATGAGAATTAATTGAATAAATCTATTTCGGGATTTATTCTCGCCATTCAACAGATTTTAT
65 TCTAAACAAGAATTAATTGAATAAATCTATTTCGGGATTTATTCTCGACATTCAACAGATTTTAT
**
67472960 TTGATTTTTATTTTGTTTCCAAACGAAAATTTAA
130 TCCATTTTTATTTTGTTTCCAAACGAAAATTTAA
* * * * * **
67472994 TTATATAATTCTATTTCGGGATTTATTCCC-CTCGTTTAAC--A-TATTT-AATTTTGGTTTTGT
1 TGA-ATAATTCTATTTCGGGATTTATTCCCAC-CATTCAACAGATTTTTTCCATTTTAATTTTGT
* * * * *
67473054 TTCCAAACAAGATTTAATTAAATAATTCTATTTCGGAATTTATTCTC
64 TTCTAAACAAGAATTAATTGAATAAATCTATTTCGGGATTTATTCTC
67473101 ATCGTTTAAC
Statistics
Matches: 225, Mismatches: 37, Indels: 17
0.81 0.13 0.06
Matches are distributed among these distances:
159 14 0.06
160 133 0.59
161 31 0.14
162 8 0.04
163 7 0.03
164 32 0.14
ACGTcount: A:0.29, C:0.13, G:0.10, T:0.48
Consensus pattern (163 bp):
TGAATAATTCTATTTCGGGATTTATTCCCACCATTCAACAGATTTTTTCCATTTTAATTTTGTTT
CTAAACAAGAATTAATTGAATAAATCTATTTCGGGATTTATTCTCGACATTCAACAGATTTTATT
CCATTTTTATTTTGTTTCCAAACGAAAATTTAA
Found at i:67473089 original size:77 final size:76
Alignment explanation
Indices: 67472833--67473170 Score: 300
Period size: 77 Copynumber: 4.3 Consensus size: 76
67472823 AGAATTAATG
* *
67472833 AATAATTCTATTTCGGGATTTATTCCCACCATTCAACAGATTTTATTCCATTTTAATTTTGTTT-
1 AATAATTCTATTTCGGGATTTATTCCC-CCATTCAACATA-TTTA----ATTTTGATTTTGTTTC
** * *
67472897 CAAATGAGAATTAATTG
60 CAAACAAGATTTAATTA
* * * *
67472914 AATAAATCTATTTCGGGATTTATTCTCGCCATTCAACAGATTTTATTTGATTTTTATTTTGTTTC
1 AATAATTCTATTTCGGGATTTATTC-CCCCATTCAAC--A---TATTTAATTTTGATTTTGTTTC
*
67472979 CAAACGAAAATTTAATTA
60 CAAAC-AAGATTTAATTA
* * * *
67472997 TATAATTCTATTTCGGGATTTATTCCCCTCGTTTAACATATTTAATTTTGGTTTTGTTTCCAAAC
1 AATAATTCTATTTCGGGATTTATTCCCC-CATTCAACATATTTAATTTTGATTTTGTTTCCAAAC
67473062 AAGATTTAATTA
65 AAGATTTAATTA
* ** * * * * * *
67473074 AATAATTCTATTTCGGAATTTATTCTCATCGTTTAACATATTTTATTTTGGTTTTATTTCCAAAT
1 AATAATTCTATTTCGGGATTTATTC-CCCCATTCAACATATTTAATTTTGATTTTGTTTCCAAAC
67473139 AAGATTTAATTA
65 AAGATTTAATTA
* *
67473151 AATAATTTTGTTTCGGGATT
1 AATAATTCTATTTCGGGATT
67473171 CAATCCTGTC
Statistics
Matches: 218, Mismatches: 29, Indels: 24
0.80 0.11 0.09
Matches are distributed among these distances:
77 96 0.44
78 25 0.11
81 48 0.22
82 7 0.03
83 38 0.17
85 3 0.01
86 1 0.00
ACGTcount: A:0.30, C:0.13, G:0.10, T:0.47
Consensus pattern (76 bp):
AATAATTCTATTTCGGGATTTATTCCCCCATTCAACATATTTAATTTTGATTTTGTTTCCAAACA
AGATTTAATTA
Found at i:67473183 original size:77 final size:76
Alignment explanation
Indices: 67472970--67473210 Score: 275
Period size: 77 Copynumber: 3.1 Consensus size: 76
67472960 TTGATTTTTA
* * * **
67472970 TTTTGTTTCCAAACGAAAATTTAATTATATAATTCTATTTCGGGATTTATTCCCCTCGTTTAACA
1 TTTTGTTTCCAAAC-AAGATTTAATTAAATAATTCTATTTCGGGA-TTAATCCTATCGTTTAACA
67473035 TATTTAATTTTGG
64 TATTTAATTTTGG
* * *
67473048 TTTTGTTTCCAAACAAGATTTAATTAAATAATTCTATTTCGGAATTTATTCTCATCGTTTAACAT
1 TTTTGTTTCCAAACAAGATTTAATTAAATAATTCTATTTCGGGATTAATCCT-ATCGTTTAACAT
*
67473113 ATTTTATTTTGG
65 ATTTAATTTTGG
* * * * * * *
67473125 TTTTATTTCCAAATAAGATTTAATTAAATAATTTTGTTTCGGGATTCAATCCTGTCGTTCAACAG
1 TTTTGTTTCCAAACAAGATTTAATTAAATAATTCTATTTCGGGATT-AATCCTATCGTTTAACAT
* * *
67473190 AATTGATTTTGA
65 ATTTAATTTTGG
67473202 TTTTGTTTC
1 TTTTGTTTC
67473211 AGAATTGTAA
Statistics
Matches: 138, Mismatches: 23, Indels: 5
0.83 0.14 0.03
Matches are distributed among these distances:
76 4 0.03
77 116 0.84
78 18 0.13
ACGTcount: A:0.29, C:0.12, G:0.11, T:0.48
Consensus pattern (76 bp):
TTTTGTTTCCAAACAAGATTTAATTAAATAATTCTATTTCGGGATTAATCCTATCGTTTAACATA
TTTAATTTTGG
Found at i:67474547 original size:21 final size:21
Alignment explanation
Indices: 67474521--67474568 Score: 69
Period size: 21 Copynumber: 2.3 Consensus size: 21
67474511 CAGGGCTCAT
**
67474521 ACGCCCGTGTGATTCAAGGAC
1 ACGCCCGTGTGACCCAAGGAC
*
67474542 ACGCCCGTGTGACCCTAGGAC
1 ACGCCCGTGTGACCCAAGGAC
67474563 ACGCCC
1 ACGCCC
67474569 ATGTTGCAGG
Statistics
Matches: 24, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
21 24 1.00
ACGTcount: A:0.21, C:0.38, G:0.27, T:0.15
Consensus pattern (21 bp):
ACGCCCGTGTGACCCAAGGAC
Found at i:67480158 original size:29 final size:29
Alignment explanation
Indices: 67480125--67480284 Score: 180
Period size: 29 Copynumber: 5.5 Consensus size: 29
67480115 GTGACGAGAT
67480125 TGGCACTAAGTGTGCATGCTGGAAATATA
1 TGGCACTAAGTGTGCATGCTGGAAATATA
67480154 TGGCACTAAGTGTGCATGCTGGAAATATA
1 TGGCACTAAGTGTGCATGCTGGAAATATA
67480183 TGGCACTAAGTGTGCATGCTGGAAATATA
1 TGGCACTAAGTGTGCATGCTGGAAATATA
* ** * ***
67480212 CGGCACTGGGTGTGCGA-GCTCGAAGGGTA
1 TGGCACTAAGTGTGC-ATGCTGGAAATATA
* ** * *
67480241 TGGCACTATGTGTGCGGGCT-TAAATCACA
1 TGGCACTAAGTGTGCATGCTGGAAAT-ATA
67480270 TGGCACTAAGTGTGC
1 TGGCACTAAGTGTGC
67480285 GAAATCGAGT
Statistics
Matches: 111, Mismatches: 17, Indels: 6
0.83 0.13 0.04
Matches are distributed among these distances:
28 2 0.02
29 108 0.97
30 1 0.01
ACGTcount: A:0.26, C:0.17, G:0.31, T:0.26
Consensus pattern (29 bp):
TGGCACTAAGTGTGCATGCTGGAAATATA
Found at i:67488117 original size:29 final size:29
Alignment explanation
Indices: 67488084--67488243 Score: 180
Period size: 29 Copynumber: 5.5 Consensus size: 29
67488074 GTGACGAGAT
67488084 TGGCACTAAGTGTGCATGCTGGAAATATA
1 TGGCACTAAGTGTGCATGCTGGAAATATA
67488113 TGGCACTAAGTGTGCATGCTGGAAATATA
1 TGGCACTAAGTGTGCATGCTGGAAATATA
67488142 TGGCACTAAGTGTGCATGCTGGAAATATA
1 TGGCACTAAGTGTGCATGCTGGAAATATA
* ** * ***
67488171 CGGCACTGGGTGTGCGA-GCTCGAAGGGTA
1 TGGCACTAAGTGTGC-ATGCTGGAAATATA
* ** * *
67488200 TGGCACTATGTGTGCGGGCT-TAAATCACA
1 TGGCACTAAGTGTGCATGCTGGAAAT-ATA
67488229 TGGCACTAAGTGTGC
1 TGGCACTAAGTGTGC
67488244 GAAATCGAGT
Statistics
Matches: 111, Mismatches: 17, Indels: 6
0.83 0.13 0.04
Matches are distributed among these distances:
28 2 0.02
29 108 0.97
30 1 0.01
ACGTcount: A:0.26, C:0.17, G:0.31, T:0.26
Consensus pattern (29 bp):
TGGCACTAAGTGTGCATGCTGGAAATATA
Found at i:67494861 original size:40 final size:40
Alignment explanation
Indices: 67494824--67494996 Score: 181
Period size: 40 Copynumber: 4.3 Consensus size: 40
67494814 GCTACTCGTT
*
67494824 CAAATGCCTTCGGGAAATAGCCCGG-TTATAGTAACTCGCA
1 CAAATGCCTTCGGGAAATAACCCGGATT-TAGTAACTCGCA
**
67494864 CAAATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCA
1 CAAATGCCTTCGGGAAATAACCCGGATTTAGTAACTCGCA
** **
67494904 CAAATGCCTTC-GGATCTTAGTCCGGATTTAGTAACTCGCA
1 CAAATGCCTTCGGGA-AATAACCCGGATTTAGTAACTCGCA
* ** **
67494944 CAAATGCCTTC-AGATCTTAGTCCGGATTTAGTAACTCGCA
1 CAAATGCCTTCGGGA-AATAACCCGGATTTAGTAACTCGCA
*
67494984 CGAATGCCTTCGG
1 CAAATGCCTTCGG
67494997 ATCTTAGTCC
Statistics
Matches: 122, Mismatches: 8, Indels: 5
0.90 0.06 0.04
Matches are distributed among these distances:
39 3 0.02
40 117 0.96
41 2 0.02
ACGTcount: A:0.27, C:0.26, G:0.21, T:0.27
Consensus pattern (40 bp):
CAAATGCCTTCGGGAAATAACCCGGATTTAGTAACTCGCA
Found at i:67494936 original size:80 final size:80
Alignment explanation
Indices: 67494845--67495049 Score: 306
Period size: 80 Copynumber: 2.6 Consensus size: 80
67494835 GGGAAATAGC
* *
67494845 CCGGTTATAGTAACTCGCACAAATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCACAAATG
1 CCGGATATAGTAACTCGCACAAATGCCTTCGGGACTTAGCCCGGATTTAGTAACTCGCACAAATG
67494910 CCTTCGGATCTTAGT
66 CCTTCGGATCTTAGT
* * * *
67494925 CCGGATTTAGTAACTCGCACAAATGCCTTC-AGATCTTAGTCCGGATTTAGTAACTCGCACGAAT
1 CCGGATATAGTAACTCGCACAAATGCCTTCGGGA-CTTAGCCCGGATTTAGTAACTCGCACAAAT
67494989 GCCTTCGGATCTTAGT
65 GCCTTCGGATCTTAGT
* *
67495005 CCGGATATAGTCACTTAGCACAAA-GCCTTCGGGACTTAGCCCGGA
1 CCGGATATAGTAAC-TCGCACAAATGCCTTCGGGACTTAGCCCGGA
67495050 CATCATTCGA
Statistics
Matches: 111, Mismatches: 11, Indels: 6
0.87 0.09 0.05
Matches are distributed among these distances:
79 2 0.02
80 99 0.89
81 10 0.09
ACGTcount: A:0.26, C:0.26, G:0.21, T:0.27
Consensus pattern (80 bp):
CCGGATATAGTAACTCGCACAAATGCCTTCGGGACTTAGCCCGGATTTAGTAACTCGCACAAATG
CCTTCGGATCTTAGT
Found at i:67495000 original size:40 final size:40
Alignment explanation
Indices: 67494852--67495049 Score: 276
Period size: 40 Copynumber: 5.0 Consensus size: 40
67494842 AGCCCGGTTA
**
67494852 TAGTAACTCGCACAAATGCCTTCGGGA-CTTAACCCGGATT
1 TAGTAACTCGCACAAATGCCTTC-GGATCTTAGTCCGGATT
67494892 TAGTAACTCGCACAAATGCCTTCGGATCTTAGTCCGGATT
1 TAGTAACTCGCACAAATGCCTTCGGATCTTAGTCCGGATT
*
67494932 TAGTAACTCGCACAAATGCCTTCAGATCTTAGTCCGGATT
1 TAGTAACTCGCACAAATGCCTTCGGATCTTAGTCCGGATT
* *
67494972 TAGTAACTCGCACGAATGCCTTCGGATCTTAGTCCGGATA
1 TAGTAACTCGCACAAATGCCTTCGGATCTTAGTCCGGATT
* * *
67495012 TAGTCACTTAGCACAAA-GCCTTCGGGA-CTTAGCCCGGA
1 TAGTAAC-TCGCACAAATGCCTTC-GGATCTTAGTCCGGA
67495050 CATCATTCGA
Statistics
Matches: 145, Mismatches: 10, Indels: 6
0.90 0.06 0.04
Matches are distributed among these distances:
39 3 0.02
40 132 0.91
41 10 0.07
ACGTcount: A:0.26, C:0.26, G:0.21, T:0.27
Consensus pattern (40 bp):
TAGTAACTCGCACAAATGCCTTCGGATCTTAGTCCGGATT
Found at i:67511739 original size:40 final size:40
Alignment explanation
Indices: 67511665--67511842 Score: 191
Period size: 40 Copynumber: 4.5 Consensus size: 40
67511655 GAGTCACGTA
** *
67511665 CCTTCGGGAT-TTAA-CCGGATATAACCACAAGCACAATTG
1 CCTTCGGG-TCTTAACCCGGATATAATAACTAGCACAATTG
* * *
67511704 CCTTCGGGTCTTAACCCGGATTTAGTAACTTGCACAATTG
1 CCTTCGGGTCTTAACCCGGATATAATAACTAGCACAATTG
* *
67511744 CCTTCGGGTCTTAACCCGGATATAACAACTCGCACGAA-TG
1 CCTTCGGGTCTTAACCCGGATATAATAACTAGCAC-AATTG
* * * *
67511784 CCTTCGGGTCTTAGCCCGGATATAATCACTAGCATAAATG
1 CCTTCGGGTCTTAACCCGGATATAATAACTAGCACAATTG
* *
67511824 CCTTCGGGACTTAGCCCGG
1 CCTTCGGGTCTTAACCCGG
67511843 GTATCATTCA
Statistics
Matches: 119, Mismatches: 16, Indels: 7
0.84 0.11 0.05
Matches are distributed among these distances:
38 1 0.01
39 14 0.12
40 102 0.86
41 2 0.02
ACGTcount: A:0.26, C:0.28, G:0.21, T:0.26
Consensus pattern (40 bp):
CCTTCGGGTCTTAACCCGGATATAATAACTAGCACAATTG
Found at i:67519855 original size:40 final size:40
Alignment explanation
Indices: 67519781--67519958 Score: 191
Period size: 40 Copynumber: 4.5 Consensus size: 40
67519771 GAGTCACGTA
** *
67519781 CCTTCGGGAT-TTAA-CCGGATATAACCACAAGCACAATTG
1 CCTTCGGG-TCTTAACCCGGATATAATAACTAGCACAATTG
* * *
67519820 CCTTCGGGTCTTAACCCGGATTTAGTAACTTGCACAATTG
1 CCTTCGGGTCTTAACCCGGATATAATAACTAGCACAATTG
* *
67519860 CCTTCGGGTCTTAACCCGGATATAACAACTCGCACGAA-TG
1 CCTTCGGGTCTTAACCCGGATATAATAACTAGCAC-AATTG
* * * *
67519900 CCTTCGGGTCTTAGCCCGGATATAATCACTAGCATAAATG
1 CCTTCGGGTCTTAACCCGGATATAATAACTAGCACAATTG
* *
67519940 CCTTCGGGACTTAGCCCGG
1 CCTTCGGGTCTTAACCCGG
67519959 GTATCATTCA
Statistics
Matches: 119, Mismatches: 16, Indels: 7
0.84 0.11 0.05
Matches are distributed among these distances:
38 1 0.01
39 14 0.12
40 102 0.86
41 2 0.02
ACGTcount: A:0.26, C:0.28, G:0.21, T:0.26
Consensus pattern (40 bp):
CCTTCGGGTCTTAACCCGGATATAATAACTAGCACAATTG
Found at i:67523043 original size:100 final size:99
Alignment explanation
Indices: 67522863--67523059 Score: 283
Period size: 100 Copynumber: 2.0 Consensus size: 99
67522853 CAATTCTTTT
* *
67522863 TTAATCGAAATTAACCACAAGAACCACCTAACAATTAAGCCTTATCAAACAAATAGCCCCAAAAT
1 TTAATCGAAATTAACCACAAGAAACACATAACAATTAAGCCTTATCAAACAAATAGCCCCAAAAT
*
67522928 TTTCTTCCATGGTTTAATCCTTCTAG-AACCTTCC
66 TTGCTTCCATGGTTTAATCCTTCT-GCAACCTTCC
* **
67522962 TTAATCGTAAATTAACCAC-AGAAAACACATGACAATTAAGCCTTATCAAACAAATAGCCCTGGA
1 TTAATCG-AAATTAACCACAAG-AAACACATAACAATTAAGCCTTATCAAACAAATAGCCC-CAA
67523026 AA-TTGCTTCCATGGTTTAATCCTTCTGCAACCTT
63 AATTTGCTTCCATGGTTTAATCCTTCTGCAACCTT
67523060 GCGAACTAGA
Statistics
Matches: 88, Mismatches: 6, Indels: 7
0.87 0.06 0.07
Matches are distributed among these distances:
99 10 0.11
100 75 0.85
101 3 0.03
ACGTcount: A:0.37, C:0.25, G:0.09, T:0.28
Consensus pattern (99 bp):
TTAATCGAAATTAACCACAAGAAACACATAACAATTAAGCCTTATCAAACAAATAGCCCCAAAAT
TTGCTTCCATGGTTTAATCCTTCTGCAACCTTCC
Found at i:67535307 original size:29 final size:29
Alignment explanation
Indices: 67535268--67535342 Score: 107
Period size: 29 Copynumber: 2.6 Consensus size: 29
67535258 GGTTGAGAGA
* *
67535268 ATGGCACTAAGTGTGCGGGCTTGAAA-TGC
1 ATGGCACTAAGTGTGCGAG-TTGAAAGTAC
*
67535297 ATGGCACTAAGTGTGCGAGTTTAAAGTAC
1 ATGGCACTAAGTGTGCGAGTTGAAAGTAC
67535326 ATGGCACTAAGTGTGCG
1 ATGGCACTAAGTGTGCG
67535343 TGGTTGATTT
Statistics
Matches: 42, Mismatches: 3, Indels: 2
0.89 0.06 0.04
Matches are distributed among these distances:
28 5 0.12
29 37 0.88
ACGTcount: A:0.27, C:0.16, G:0.32, T:0.25
Consensus pattern (29 bp):
ATGGCACTAAGTGTGCGAGTTGAAAGTAC
Found at i:67537676 original size:17 final size:18
Alignment explanation
Indices: 67537634--67537682 Score: 50
Period size: 17 Copynumber: 2.8 Consensus size: 18
67537624 AGTTGAAAAG
67537634 GAGCATGATTGTCATACTT
1 GAGCATGA-TGTCATACTT
*
67537653 G-GCCATGATG-CATTCTT
1 GAG-CATGATGTCATACTT
67537670 GAGCATGAT-TCAT
1 GAGCATGATGTCAT
67537683 GCTTCTTGCA
Statistics
Matches: 26, Mismatches: 1, Indels: 8
0.74 0.03 0.23
Matches are distributed among these distances:
17 16 0.62
18 4 0.15
19 6 0.23
ACGTcount: A:0.24, C:0.18, G:0.22, T:0.35
Consensus pattern (18 bp):
GAGCATGATGTCATACTT
Found at i:67538571 original size:40 final size:40
Alignment explanation
Indices: 67538505--67538671 Score: 176
Period size: 40 Copynumber: 4.2 Consensus size: 40
67538495 AAATTGAATG
* * *
67538505 ATATCCGGGCTAAG-CCCGAAGACAATTATGCTGGAAATT
1 ATATCCGGGCTAAGACCCGAAGGCAATTGTGCTGGTAATT
* * **
67538544 ATATCCGGGTTAAGACCCGAAGGCAATTGTGCTAGTGGTT
1 ATATCCGGGCTAAGACCCGAAGGCAATTGTGCTGGTAATT
* * *
67538584 ATATCCGGGCTAAGGCCCGAAGGCATTTGTGC-GAGTTATT
1 ATATCCGGGCTAAGACCCGAAGGCAATTGTGCTG-GTAATT
* * ** *
67538624 CTATCCGGGCTAAGACCCGAAGGCATTTGTGCACGTGATT
1 ATATCCGGGCTAAGACCCGAAGGCAATTGTGCTGGTAATT
67538664 ATATCCGG
1 ATATCCGG
67538672 TTATATTCCG
Statistics
Matches: 107, Mismatches: 18, Indels: 5
0.82 0.14 0.04
Matches are distributed among these distances:
39 13 0.12
40 94 0.88
ACGTcount: A:0.26, C:0.21, G:0.28, T:0.26
Consensus pattern (40 bp):
ATATCCGGGCTAAGACCCGAAGGCAATTGTGCTGGTAATT
Found at i:67538638 original size:80 final size:79
Alignment explanation
Indices: 67538505--67538671 Score: 212
Period size: 80 Copynumber: 2.1 Consensus size: 79
67538495 AAATTGAATG
*
67538505 ATATCCGGGCTAAGCCCGAAGACAATTATGCTGGAAATTATATCCGGGTTAAGACCCGAAGGCAA
1 ATATCCGGGCTAAGCCCGAAGACAATTATGCTGGAAATTATATCCGGGCTAAGACCCGAAGGCAA
*
67538570 TTGTGCTA-GTGGTT
66 TTGTGC-ACGTGATT
* * * ** *
67538584 ATATCCGGGCTAAGGCCCGAAGGCATTTGTGC-GAGTTATTCTATCCGGGCTAAGACCCGAAGGC
1 ATATCCGGGCTAA-GCCCGAAGACAATTATGCTG-GAAATTATATCCGGGCTAAGACCCGAAGGC
*
67538648 ATTTGTGCACGTGATT
64 AATTGTGCACGTGATT
67538664 ATATCCGG
1 ATATCCGG
67538672 TTATATTCCG
Statistics
Matches: 76, Mismatches: 9, Indels: 5
0.84 0.10 0.06
Matches are distributed among these distances:
79 15 0.20
80 61 0.80
ACGTcount: A:0.26, C:0.21, G:0.28, T:0.26
Consensus pattern (79 bp):
ATATCCGGGCTAAGCCCGAAGACAATTATGCTGGAAATTATATCCGGGCTAAGACCCGAAGGCAA
TTGTGCACGTGATT
Found at i:67540043 original size:52 final size:52
Alignment explanation
Indices: 67539986--67540087 Score: 168
Period size: 52 Copynumber: 2.0 Consensus size: 52
67539976 CTTGGCTTGC
* *
67539986 TAACCCCTCGTGTCCGACACCGGCGATGGTCTCGGGTTCGGGGTGTTACAGT
1 TAACCCCTCGTGTCCGACACCGGCGACGGTCTCGGGTACGGGGTGTTACAGT
* *
67540038 TAACCCCTCGTGTCCGACCCCGGTGACGGTCTCGGGTACGGGGTGTTACA
1 TAACCCCTCGTGTCCGACACCGGCGACGGTCTCGGGTACGGGGTGTTACA
67540088 TTGAACCAGA
Statistics
Matches: 46, Mismatches: 4, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
52 46 1.00
ACGTcount: A:0.14, C:0.30, G:0.32, T:0.24
Consensus pattern (52 bp):
TAACCCCTCGTGTCCGACACCGGCGACGGTCTCGGGTACGGGGTGTTACAGT
Found at i:67542355 original size:16 final size:18
Alignment explanation
Indices: 67542324--67542356 Score: 52
Period size: 16 Copynumber: 1.9 Consensus size: 18
67542314 AACTCGTCAC
67542324 ACTATCTATCATTTTGGT
1 ACTATCTATCATTTTGGT
67542342 ACTA-CTAT-ATTTTGG
1 ACTATCTATCATTTTGG
67542357 ACCTAGTATG
Statistics
Matches: 15, Mismatches: 0, Indels: 2
0.88 0.00 0.12
Matches are distributed among these distances:
16 7 0.47
17 4 0.27
18 4 0.27
ACGTcount: A:0.24, C:0.15, G:0.12, T:0.48
Consensus pattern (18 bp):
ACTATCTATCATTTTGGT
Found at i:67550256 original size:16 final size:18
Alignment explanation
Indices: 67550225--67550257 Score: 52
Period size: 16 Copynumber: 1.9 Consensus size: 18
67550215 AACTCGTCAC
67550225 ACTATCTATCATTTTGGT
1 ACTATCTATCATTTTGGT
67550243 ACTA-CTAT-ATTTTGG
1 ACTATCTATCATTTTGG
67550258 AGCTAGTATG
Statistics
Matches: 15, Mismatches: 0, Indels: 2
0.88 0.00 0.12
Matches are distributed among these distances:
16 7 0.47
17 4 0.27
18 4 0.27
ACGTcount: A:0.24, C:0.15, G:0.12, T:0.48
Consensus pattern (18 bp):
ACTATCTATCATTTTGGT
Found at i:67557582 original size:40 final size:40
Alignment explanation
Indices: 67557537--67557704 Score: 160
Period size: 40 Copynumber: 4.2 Consensus size: 40
67557527 CGGAATATAA
67557537 CCGGATATAATCACGT-GCACAAATGCCTTCGGGTCTTAGC
1 CCGGATATAATCAC-TAGCACAAATGCCTTCGGGTCTTAGC
* ** * *
67557577 CCGGATAGAATGTCTCGCACGAATGCCTTCGGGTCTTAGC
1 CCGGATATAATCACTAGCACAAATGCCTTCGGGTCTTAGC
* ** * *
67557617 CCGGATGTAGCCACTAGCACAATTGCCTTCGGGTCTTAAC
1 CCGGATATAATCACTAGCACAAATGCCTTCGGGTCTTAGC
** * * * *
67557657 CCGGATATAATTTCCAGCATAATTGTCTTCGGGAT-TTAGC
1 CCGGATATAATCACTAGCACAAATGCCTTCGGG-TCTTAGC
67557697 CCGGATAT
1 CCGGATAT
67557705 CATTCAATTT
Statistics
Matches: 103, Mismatches: 23, Indels: 4
0.79 0.18 0.03
Matches are distributed among these distances:
39 1 0.01
40 101 0.98
41 1 0.01
ACGTcount: A:0.23, C:0.26, G:0.23, T:0.27
Consensus pattern (40 bp):
CCGGATATAATCACTAGCACAAATGCCTTCGGGTCTTAGC
Found at i:67557687 original size:80 final size:80
Alignment explanation
Indices: 67557553--67557702 Score: 198
Period size: 80 Copynumber: 1.9 Consensus size: 80
67557543 ATAATCACGT
*
67557553 GCACAAATGCCTTCGGGTCTTAGCCCGGATAGAATGTCTCGCACGAATGCCTTCGGG-TCTTAGC
1 GCACAAATGCCTTCGGGTCTTAACCCGGATAGAATGTCTCGCACGAATGCCTTCGGGAT-TTAGC
67557617 CCGGATGTAGCCACTA
65 CCGGATGTAGCCACTA
* * * * *
67557633 GCACAATTGCCTTCGGGTCTTAACCCGGATATAATTTC-CAGCA-TAATTGTCTTCGGGATTTAG
1 GCACAAATGCCTTCGGGTCTTAACCCGGATAGAATGTCTC-GCACGAA-TGCCTTCGGGATTTAG
67557696 CCCGGAT
64 CCCGGAT
67557703 ATCATTCAAT
Statistics
Matches: 61, Mismatches: 6, Indels: 6
0.84 0.08 0.08
Matches are distributed among these distances:
79 3 0.05
80 57 0.93
81 1 0.02
ACGTcount: A:0.22, C:0.27, G:0.24, T:0.27
Consensus pattern (80 bp):
GCACAAATGCCTTCGGGTCTTAACCCGGATAGAATGTCTCGCACGAATGCCTTCGGGATTTAGCC
CGGATGTAGCCACTA
Found at i:67568442 original size:30 final size:29
Alignment explanation
Indices: 67568348--67568449 Score: 109
Period size: 28 Copynumber: 3.5 Consensus size: 29
67568338 TATAGTGAAT
* * *
67568348 CCGCACACTTAGTGCTATATATTTTCAGC
1 CCGCACACTTAGTGCTATAAATTTTAAAC
* *
67568377 TCGCACACTTAGTGCTATAGAA--TCAAAC
1 CCGCACACTTAGTGCTATA-AATTTTAAAC
* *
67568405 TCGCACACTTAGTGCTGTACAATTTTAAAC
1 CCGCACACTTAGTGCTATA-AATTTTAAAC
67568435 CCGCACACTTAGTGC
1 CCGCACACTTAGTGC
67568450 CAATCTTGTC
Statistics
Matches: 61, Mismatches: 9, Indels: 5
0.81 0.12 0.07
Matches are distributed among these distances:
28 23 0.38
29 18 0.30
30 20 0.33
ACGTcount: A:0.28, C:0.27, G:0.15, T:0.29
Consensus pattern (29 bp):
CCGCACACTTAGTGCTATAAATTTTAAAC
Found at i:67576291 original size:30 final size:29
Alignment explanation
Indices: 67576197--67576298 Score: 109
Period size: 28 Copynumber: 3.5 Consensus size: 29
67576187 TATAGTGAAT
* * *
67576197 CCGCACACTTAGTGCTATATATTTTCAGC
1 CCGCACACTTAGTGCTATAAATTTTAAAC
* *
67576226 TCGCACACTTAGTGCTATAGAA--TCAAAC
1 CCGCACACTTAGTGCTATA-AATTTTAAAC
* *
67576254 TCGCACACTTAGTGCTGTACAATTTTAAAC
1 CCGCACACTTAGTGCTATA-AATTTTAAAC
67576284 CCGCACACTTAGTGC
1 CCGCACACTTAGTGC
67576299 CAATCTTGTC
Statistics
Matches: 61, Mismatches: 9, Indels: 5
0.81 0.12 0.07
Matches are distributed among these distances:
28 23 0.38
29 18 0.30
30 20 0.33
ACGTcount: A:0.28, C:0.27, G:0.15, T:0.29
Consensus pattern (29 bp):
CCGCACACTTAGTGCTATAAATTTTAAAC
Found at i:67579128 original size:27 final size:28
Alignment explanation
Indices: 67579098--67579197 Score: 89
Period size: 27 Copynumber: 3.7 Consensus size: 28
67579088 TTTAGTTTAC
67579098 TAAAATTACCAAAATACCCTTAG-TTTG
1 TAAAATTACCAAAATACCCTTAGATTTG
* ** *
67579125 TAAAAATACTGAAATACCC-TCGATTTG
1 TAAAATTACCAAAATACCCTTAGATTTG
* * * *
67579152 TAAATTTACCGAAATA-CCTTCGACTTG
1 TAAAATTACCAAAATACCCTTAGATTTG
* *
67579179 TAAAATTACTAAAGTACCC
1 TAAAATTACCAAAATACCC
67579198 CTGATTTACA
Statistics
Matches: 58, Mismatches: 12, Indels: 5
0.77 0.16 0.07
Matches are distributed among these distances:
26 4 0.07
27 52 0.90
28 2 0.03
ACGTcount: A:0.40, C:0.20, G:0.09, T:0.31
Consensus pattern (28 bp):
TAAAATTACCAAAATACCCTTAGATTTG
Found at i:67579223 original size:27 final size:27
Alignment explanation
Indices: 67579193--67579673 Score: 560
Period size: 27 Copynumber: 17.8 Consensus size: 27
67579183 ATTACTAAAG
67579193 TACCCCTGATTTACAGAATTACCGTTT
1 TACCCCTGATTTACAGAATTACCGTTT
* *
67579220 TACCCCTAATTTACATAATTACCGTTT
1 TACCCCTGATTTACAGAATTACCGTTT
* *
67579247 TACCCCTGATTTACATAATTATCGTTT
1 TACCCCTGATTTACAGAATTACCGTTT
*
67579274 TA-CCCTCGACTTACAGAATTACCGTTT
1 TACCCCT-GATTTACAGAATTACCGTTT
* * *
67579301 TACCCCTAATTTACATAATTACCATTT
1 TACCCCTGATTTACAGAATTACCGTTT
* *
67579328 TACCCCTGATTTACATAATTATCGTTT
1 TACCCCTGATTTACAGAATTACCGTTT
*
67579355 TA-CCCTCGACTTACAGAATTACCGTTT
1 TACCCCT-GATTTACAGAATTACCGTTT
* *
67579382 TACCCCTAATTTACATAATTACCGTTT
1 TACCCCTGATTTACAGAATTACCGTTT
* *
67579409 TACCCCTGATTTACATAATTATCGTTT
1 TACCCCTGATTTACAGAATTACCGTTT
*
67579436 TA-CCCTCGACTTACAGAATTACCGTTT
1 TACCCCT-GATTTACAGAATTACCGTTT
* *
67579463 TACCCCTAATTTACATAATTACCGTTT
1 TACCCCTGATTTACAGAATTACCGTTT
* * *
67579490 TACCCCTAATTTACATAATTATCGTTT
1 TACCCCTGATTTACAGAATTACCGTTT
*
67579517 TA-CCCTCGACTTACAGAATTACCGTTT
1 TACCCCT-GATTTACAGAATTACCGTTT
* *
67579544 TA-CCCTCGATTTACTGAATTACTGTTT
1 TACCCCT-GATTTACAGAATTACCGTTT
* * **
67579571 TACCCTTGATTTATAGAATTACTATTT
1 TACCCCTGATTTACAGAATTACCGTTT
* * *
67579598 TACCCTTGATTTATAGAATTACTGTTT
1 TACCCCTGATTTACAGAATTACCGTTT
* *
67579625 TACCCTTGATTTACAGAATTACTGTTT
1 TACCCCTGATTTACAGAATTACCGTTT
*
67579652 TA-CCCTCGATTTACAAAATTAC
1 TACCCCT-GATTTACAGAATTAC
67579674 TAAAATACCC
Statistics
Matches: 401, Mismatches: 44, Indels: 18
0.87 0.10 0.04
Matches are distributed among these distances:
26 19 0.05
27 367 0.92
28 15 0.04
ACGTcount: A:0.28, C:0.24, G:0.08, T:0.41
Consensus pattern (27 bp):
TACCCCTGATTTACAGAATTACCGTTT
Found at i:67579682 original size:27 final size:27
Alignment explanation
Indices: 67579571--67579822 Score: 116
Period size: 27 Copynumber: 9.3 Consensus size: 27
67579561 ATTACTGTTT
* * ***
67579571 TACCCTTGATTTATAGAATTACTATTT
1 TACCCTTGATTTACAAAATTACTAAAA
* * ****
67579598 TACCCTTGATTTATAGAATTACTGTTT
1 TACCCTTGATTTACAAAATTACTAAAA
* ****
67579625 TACCCTTGATTTACAGAATTACTGTTT
1 TACCCTTGATTTACAAAATTACTAAAA
*
67579652 TACCCTCGATTTACAAAATTACTAAAA
1 TACCCTTGATTTACAAAATTACTAAAA
* *** *
67579679 TACCCTTGGTTTGTGAAATTACCGAAAA
1 TACCCTTGATTTACAAAATTA-CTAAAA
** ** *
67579707 -ACCCTCAATTTGTAAAATTACCAAAA
1 TACCCTTGATTTACAAAATTACTAAAA
* * * *
67579733 TACCCCTAATTTACAAAGTT-CCAGAAA
1 TACCCTTGATTTACAAAATTACTA-AAA
67579760 TACCCTTGACTTT-CTAAAAATTA-TAGAAA
1 TACCCTTGA-TTTAC--AAAATTACTA-AAA
* * *
67579789 TACCATTGGTTTACAAAATTACTGAAA
1 TACCCTTGATTTACAAAATTACTAAAA
67579816 TACCCTT
1 TACCCTT
67579823 AGTTTGTAGA
Statistics
Matches: 184, Mismatches: 32, Indels: 18
0.79 0.14 0.08
Matches are distributed among these distances:
26 8 0.04
27 146 0.79
28 12 0.07
29 18 0.10
ACGTcount: A:0.36, C:0.19, G:0.09, T:0.36
Consensus pattern (27 bp):
TACCCTTGATTTACAAAATTACTAAAA
Found at i:67579686 original size:81 final size:81
Alignment explanation
Indices: 67579203--67579672 Score: 723
Period size: 81 Copynumber: 5.8 Consensus size: 81
67579193 TACCCCTGAT
67579203 TTACAGAATTACCGTTTTACCCCTAATTTACATAATTACCGTTTTACCCCTGATTTACATAATTA
1 TTACAGAATTACCGTTTTACCCCTAATTTACATAATTACCGTTTTACCCCTGATTTACATAATTA
67579268 TCGTTTTACCCTCGAC
66 TCGTTTTACCCTCGAC
*
67579284 TTACAGAATTACCGTTTTACCCCTAATTTACATAATTACCATTTTACCCCTGATTTACATAATTA
1 TTACAGAATTACCGTTTTACCCCTAATTTACATAATTACCGTTTTACCCCTGATTTACATAATTA
67579349 TCGTTTTACCCTCGAC
66 TCGTTTTACCCTCGAC
67579365 TTACAGAATTACCGTTTTACCCCTAATTTACATAATTACCGTTTTACCCCTGATTTACATAATTA
1 TTACAGAATTACCGTTTTACCCCTAATTTACATAATTACCGTTTTACCCCTGATTTACATAATTA
67579430 TCGTTTTACCCTCGAC
66 TCGTTTTACCCTCGAC
*
67579446 TTACAGAATTACCGTTTTACCCCTAATTTACATAATTACCGTTTTACCCCTAATTTACATAATTA
1 TTACAGAATTACCGTTTTACCCCTAATTTACATAATTACCGTTTTACCCCTGATTTACATAATTA
67579511 TCGTTTTACCCTCGAC
66 TCGTTTTACCCTCGAC
* * * * *
67579527 TTACAGAATTACCGTTTTA-CCCTCGATTTAC-TGAATTACTGTTTTACCCTTGATTTATAGAAT
1 TTACAGAATTACCGTTTTACCCCT-AATTTACAT-AATTACCGTTTTACCCCTGATTTACATAAT
* * *
67579590 TA-CTATTTTACCCTTGAT
64 TATC-GTTTTACCCTCGAC
* * * * * * *
67579608 TTATAGAATTACTGTTTTACCCTTGATTTACAGAATTACTGTTTTA-CCCTCGATTTACAAAATT
1 TTACAGAATTACCGTTTTACCCCTAATTTACATAATTACCGTTTTACCCCT-GATTTACATAATT
67579672 A
65 A
67579673 CTAAAATACC
Statistics
Matches: 364, Mismatches: 19, Indels: 12
0.92 0.05 0.03
Matches are distributed among these distances:
80 9 0.02
81 352 0.97
82 3 0.01
ACGTcount: A:0.28, C:0.24, G:0.08, T:0.41
Consensus pattern (81 bp):
TTACAGAATTACCGTTTTACCCCTAATTTACATAATTACCGTTTTACCCCTGATTTACATAATTA
TCGTTTTACCCTCGAC
Found at i:67579711 original size:81 final size:81
Alignment explanation
Indices: 67579545--67579717 Score: 186
Period size: 81 Copynumber: 2.1 Consensus size: 81
67579535 TTACCGTTTT
* * * * ***
67579545 ACCCTCGATTTACTGAATTACTGTTTTACCCTTGATTTATAGAATTACTATTTTACCCTTGATTT
1 ACCCTCGATTTACAGAATTACTGTTTTACCCTCGATTTACAAAATTACTAAAATACCCTTGATTT
* ****
67579610 ATAGAATTACTGTTTT
66 ATAGAATTACCGAAAA
* *
67579626 ACCCTTGATTTACAGAATTACTGTTTTACCCTCGATTTACAAAATTACTAAAATACCCTTGGTTT
1 ACCCTCGATTTACAGAATTACTGTTTTACCCTCGATTTACAAAATTACTAAAATACCCTTGATTT
*
67579691 GT-GAAATTACCGAAAA
66 ATAG-AATTACCGAAAA
*
67579707 ACCCTCAATTT
1 ACCCTCGATTT
67579718 GTAAAATTAC
Statistics
Matches: 74, Mismatches: 17, Indels: 2
0.80 0.18 0.02
Matches are distributed among these distances:
80 1 0.01
81 73 0.99
ACGTcount: A:0.30, C:0.20, G:0.10, T:0.40
Consensus pattern (81 bp):
ACCCTCGATTTACAGAATTACTGTTTTACCCTCGATTTACAAAATTACTAAAATACCCTTGATTT
ATAGAATTACCGAAAA
Found at i:67579945 original size:27 final size:27
Alignment explanation
Indices: 67579881--67579945 Score: 87
Period size: 27 Copynumber: 2.4 Consensus size: 27
67579871 ATCCCTATTA
*
67579881 GGTAAAAAGACCGTAAAGCCCCTGTAG
1 GGTAAAATGACCGTAAAGCCCCTGTAG
* *
67579908 GGTAAAGTGACCGTAATA-CCCCTGTAT
1 GGTAAAATGACCGTAA-AGCCCCTGTAG
67579935 GGTAAAATGAC
1 GGTAAAATGAC
67579946 GAATATGCCT
Statistics
Matches: 33, Mismatches: 4, Indels: 2
0.85 0.10 0.05
Matches are distributed among these distances:
27 32 0.97
28 1 0.03
ACGTcount: A:0.35, C:0.20, G:0.25, T:0.20
Consensus pattern (27 bp):
GGTAAAATGACCGTAAAGCCCCTGTAG
Found at i:67581101 original size:25 final size:25
Alignment explanation
Indices: 67581072--67581119 Score: 69
Period size: 25 Copynumber: 1.9 Consensus size: 25
67581062 TTATAATATG
* * *
67581072 AAAATGACCGTTTTGCCCCTAGGTA
1 AAAATGACCATTATACCCCTAGGTA
67581097 AAAATGACCATTATACCCCTAGG
1 AAAATGACCATTATACCCCTAGG
67581120 GTTTATGTAT
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
25 20 1.00
ACGTcount: A:0.33, C:0.25, G:0.17, T:0.25
Consensus pattern (25 bp):
AAAATGACCATTATACCCCTAGGTA
Found at i:67581188 original size:20 final size:20
Alignment explanation
Indices: 67581163--67581221 Score: 100
Period size: 20 Copynumber: 3.0 Consensus size: 20
67581153 TAAATATGGT
67581163 ATGTATGATATGCACATGAA
1 ATGTATGATATGCACATGAA
* *
67581183 ATGTATGCTATGCACATGAT
1 ATGTATGATATGCACATGAA
67581203 ATGTATGATATGCACATGA
1 ATGTATGATATGCACATGA
67581222 GGTAATCATA
Statistics
Matches: 36, Mismatches: 3, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
20 36 1.00
ACGTcount: A:0.36, C:0.12, G:0.20, T:0.32
Consensus pattern (20 bp):
ATGTATGATATGCACATGAA
Found at i:67581299 original size:24 final size:24
Alignment explanation
Indices: 67581272--67581390 Score: 170
Period size: 24 Copynumber: 5.0 Consensus size: 24
67581262 GAGGAAGTGA
*
67581272 AAAAGGGCTTATGCCCCAGTTATC
1 AAAAGGGCTTATGCCCCAGTTATT
67581296 AAAAGGGCTTATGCCCCAGTTA-T
1 AAAAGGGCTTATGCCCCAGTTATT
67581319 AAAAGGGCTTATGCCCCAGTTATT
1 AAAAGGGCTTATGCCCCAGTTATT
* *
67581343 GAAAGGGCTTTTGCCCCAGTTATT
1 AAAAGGGCTTATGCCCCAGTTATT
*
67581367 AAAAGAGGC-TAGGCCTCCAGTTAT
1 AAAAG-GGCTTATGCC-CCAGTTAT
67581391 ATGATAAAGC
Statistics
Matches: 86, Mismatches: 6, Indels: 5
0.89 0.06 0.05
Matches are distributed among these distances:
23 22 0.26
24 53 0.62
25 11 0.13
ACGTcount: A:0.29, C:0.22, G:0.23, T:0.27
Consensus pattern (24 bp):
AAAAGGGCTTATGCCCCAGTTATT
Found at i:67581341 original size:47 final size:48
Alignment explanation
Indices: 67581272--67581390 Score: 170
Period size: 47 Copynumber: 2.5 Consensus size: 48
67581262 GAGGAAGTGA
67581272 AAAAGGGCTTATGCCCCAGTTATCAAAAGGGCTTATGCCCCAGTTA-T
1 AAAAGGGCTTATGCCCCAGTTATCAAAAGGGCTTATGCCCCAGTTATT
** *
67581319 AAAAGGGCTTATGCCCCAGTTATTGAAAGGGCTTTTGCCCCAGTTATT
1 AAAAGGGCTTATGCCCCAGTTATCAAAAGGGCTTATGCCCCAGTTATT
*
67581367 AAAAGAGGC-TAGGCCTCCAGTTAT
1 AAAAG-GGCTTATGCC-CCAGTTAT
67581391 ATGATAAAGC
Statistics
Matches: 65, Mismatches: 4, Indels: 4
0.89 0.05 0.05
Matches are distributed among these distances:
47 43 0.66
48 11 0.17
49 11 0.17
ACGTcount: A:0.29, C:0.22, G:0.23, T:0.27
Consensus pattern (48 bp):
AAAAGGGCTTATGCCCCAGTTATCAAAAGGGCTTATGCCCCAGTTATT
Found at i:67581617 original size:31 final size:31
Alignment explanation
Indices: 67581582--67581676 Score: 181
Period size: 31 Copynumber: 3.1 Consensus size: 31
67581572 CGTTTACAGT
67581582 AAAGGCTTCGGCCCAGTAATATGAAATATGA
1 AAAGGCTTCGGCCCAGTAATATGAAATATGA
67581613 AAAGGCTTCGGCCCAGTAATATGAAATATGA
1 AAAGGCTTCGGCCCAGTAATATGAAATATGA
*
67581644 AAAGGCTTCGGCCCAGTATTATGAAATATGA
1 AAAGGCTTCGGCCCAGTAATATGAAATATGA
67581675 AA
1 AA
67581677 TATGAAAAGG
Statistics
Matches: 63, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
31 63 1.00
ACGTcount: A:0.39, C:0.16, G:0.22, T:0.23
Consensus pattern (31 bp):
AAAGGCTTCGGCCCAGTAATATGAAATATGA
Found at i:67584103 original size:27 final size:28
Alignment explanation
Indices: 67584073--67584172 Score: 89
Period size: 27 Copynumber: 3.7 Consensus size: 28
67584063 TTTAGTTTAC
67584073 TAAAATTACCAAAATACCCTTAG-TTTG
1 TAAAATTACCAAAATACCCTTAGATTTG
* ** *
67584100 TAAAAATACTGAAATACCC-TCGATTTG
1 TAAAATTACCAAAATACCCTTAGATTTG
* * * *
67584127 TAAATTTACCGAAATA-CCTTCGACTTG
1 TAAAATTACCAAAATACCCTTAGATTTG
* *
67584154 TAAAATTACTAAAGTACCC
1 TAAAATTACCAAAATACCC
67584173 CTGATTTACA
Statistics
Matches: 58, Mismatches: 12, Indels: 5
0.77 0.16 0.07
Matches are distributed among these distances:
26 4 0.07
27 52 0.90
28 2 0.03
ACGTcount: A:0.40, C:0.20, G:0.09, T:0.31
Consensus pattern (28 bp):
TAAAATTACCAAAATACCCTTAGATTTG
Found at i:67584198 original size:27 final size:27
Alignment explanation
Indices: 67584168--67584648 Score: 560
Period size: 27 Copynumber: 17.8 Consensus size: 27
67584158 ATTACTAAAG
67584168 TACCCCTGATTTACAGAATTACCGTTT
1 TACCCCTGATTTACAGAATTACCGTTT
* *
67584195 TACCCCTAATTTACATAATTACCGTTT
1 TACCCCTGATTTACAGAATTACCGTTT
* *
67584222 TACCCCTGATTTACATAATTATCGTTT
1 TACCCCTGATTTACAGAATTACCGTTT
*
67584249 TA-CCCTCGACTTACAGAATTACCGTTT
1 TACCCCT-GATTTACAGAATTACCGTTT
* * *
67584276 TACCCCTAATTTACATAATTACCATTT
1 TACCCCTGATTTACAGAATTACCGTTT
* *
67584303 TACCCCTGATTTACATAATTATCGTTT
1 TACCCCTGATTTACAGAATTACCGTTT
*
67584330 TA-CCCTCGACTTACAGAATTACCGTTT
1 TACCCCT-GATTTACAGAATTACCGTTT
* *
67584357 TACCCCTAATTTACATAATTACCGTTT
1 TACCCCTGATTTACAGAATTACCGTTT
* *
67584384 TACCCCTGATTTACATAATTATCGTTT
1 TACCCCTGATTTACAGAATTACCGTTT
*
67584411 TA-CCCTCGACTTACAGAATTACCGTTT
1 TACCCCT-GATTTACAGAATTACCGTTT
* *
67584438 TACCCCTAATTTACATAATTACCGTTT
1 TACCCCTGATTTACAGAATTACCGTTT
* * *
67584465 TACCCCTAATTTACATAATTATCGTTT
1 TACCCCTGATTTACAGAATTACCGTTT
*
67584492 TA-CCCTCGACTTACAGAATTACCGTTT
1 TACCCCT-GATTTACAGAATTACCGTTT
* *
67584519 TA-CCCTCGATTTACTGAATTACTGTTT
1 TACCCCT-GATTTACAGAATTACCGTTT
* * **
67584546 TACCCTTGATTTATAGAATTACTATTT
1 TACCCCTGATTTACAGAATTACCGTTT
* * *
67584573 TACCCTTGATTTATAGAATTACTGTTT
1 TACCCCTGATTTACAGAATTACCGTTT
* *
67584600 TACCCTTGATTTACAGAATTACTGTTT
1 TACCCCTGATTTACAGAATTACCGTTT
*
67584627 TA-CCCTCGATTTACAAAATTAC
1 TACCCCT-GATTTACAGAATTAC
67584649 TAAAATACCC
Statistics
Matches: 401, Mismatches: 44, Indels: 18
0.87 0.10 0.04
Matches are distributed among these distances:
26 19 0.05
27 367 0.92
28 15 0.04
ACGTcount: A:0.28, C:0.24, G:0.08, T:0.41
Consensus pattern (27 bp):
TACCCCTGATTTACAGAATTACCGTTT
Found at i:67584657 original size:27 final size:27
Alignment explanation
Indices: 67584546--67584797 Score: 125
Period size: 27 Copynumber: 9.3 Consensus size: 27
67584536 ATTACTGTTT
* * ***
67584546 TACCCTTGATTTATAGAATTACTATTT
1 TACCCTTGATTTACAAAATTACTAAAA
* * ****
67584573 TACCCTTGATTTATAGAATTACTGTTT
1 TACCCTTGATTTACAAAATTACTAAAA
* ****
67584600 TACCCTTGATTTACAGAATTACTGTTT
1 TACCCTTGATTTACAAAATTACTAAAA
*
67584627 TACCCTCGATTTACAAAATTACTAAAA
1 TACCCTTGATTTACAAAATTACTAAAA
* *** *
67584654 TACCCTTGGTTTGTGAAATTACCGAAAA
1 TACCCTTGATTTACAAAATTA-CTAAAA
** ** *
67584682 -ACCCTCAATTTGTAAAATTACCAAAA
1 TACCCTTGATTTACAAAATTACTAAAA
* * *
67584708 TACCCCTAATTTACAAAGTTAC-AGAAA
1 TACCCTTGATTTACAAAATTACTA-AAA
67584735 TACCCTTGACTTT-CTAAAAATTA-TAGAAA
1 TACCCTTGA-TTTAC--AAAATTACTA-AAA
* * *
67584764 TACCATTGGTTTACAAAATTACTGAAA
1 TACCCTTGATTTACAAAATTACTAAAA
67584791 TACCCTT
1 TACCCTT
67584798 AGTTTGTAGA
Statistics
Matches: 185, Mismatches: 31, Indels: 18
0.79 0.13 0.08
Matches are distributed among these distances:
26 6 0.03
27 148 0.80
28 12 0.06
29 19 0.10
ACGTcount: A:0.36, C:0.19, G:0.09, T:0.36
Consensus pattern (27 bp):
TACCCTTGATTTACAAAATTACTAAAA
Found at i:67584661 original size:81 final size:81
Alignment explanation
Indices: 67584178--67584647 Score: 723
Period size: 81 Copynumber: 5.8 Consensus size: 81
67584168 TACCCCTGAT
67584178 TTACAGAATTACCGTTTTACCCCTAATTTACATAATTACCGTTTTACCCCTGATTTACATAATTA
1 TTACAGAATTACCGTTTTACCCCTAATTTACATAATTACCGTTTTACCCCTGATTTACATAATTA
67584243 TCGTTTTACCCTCGAC
66 TCGTTTTACCCTCGAC
*
67584259 TTACAGAATTACCGTTTTACCCCTAATTTACATAATTACCATTTTACCCCTGATTTACATAATTA
1 TTACAGAATTACCGTTTTACCCCTAATTTACATAATTACCGTTTTACCCCTGATTTACATAATTA
67584324 TCGTTTTACCCTCGAC
66 TCGTTTTACCCTCGAC
67584340 TTACAGAATTACCGTTTTACCCCTAATTTACATAATTACCGTTTTACCCCTGATTTACATAATTA
1 TTACAGAATTACCGTTTTACCCCTAATTTACATAATTACCGTTTTACCCCTGATTTACATAATTA
67584405 TCGTTTTACCCTCGAC
66 TCGTTTTACCCTCGAC
*
67584421 TTACAGAATTACCGTTTTACCCCTAATTTACATAATTACCGTTTTACCCCTAATTTACATAATTA
1 TTACAGAATTACCGTTTTACCCCTAATTTACATAATTACCGTTTTACCCCTGATTTACATAATTA
67584486 TCGTTTTACCCTCGAC
66 TCGTTTTACCCTCGAC
* * * * *
67584502 TTACAGAATTACCGTTTTA-CCCTCGATTTAC-TGAATTACTGTTTTACCCTTGATTTATAGAAT
1 TTACAGAATTACCGTTTTACCCCT-AATTTACAT-AATTACCGTTTTACCCCTGATTTACATAAT
* * *
67584565 TA-CTATTTTACCCTTGAT
64 TATC-GTTTTACCCTCGAC
* * * * * * *
67584583 TTATAGAATTACTGTTTTACCCTTGATTTACAGAATTACTGTTTTA-CCCTCGATTTACAAAATT
1 TTACAGAATTACCGTTTTACCCCTAATTTACATAATTACCGTTTTACCCCT-GATTTACATAATT
67584647 A
65 A
67584648 CTAAAATACC
Statistics
Matches: 364, Mismatches: 19, Indels: 12
0.92 0.05 0.03
Matches are distributed among these distances:
80 9 0.02
81 352 0.97
82 3 0.01
ACGTcount: A:0.28, C:0.24, G:0.08, T:0.41
Consensus pattern (81 bp):
TTACAGAATTACCGTTTTACCCCTAATTTACATAATTACCGTTTTACCCCTGATTTACATAATTA
TCGTTTTACCCTCGAC
Found at i:67584686 original size:81 final size:81
Alignment explanation
Indices: 67584520--67584692 Score: 186
Period size: 81 Copynumber: 2.1 Consensus size: 81
67584510 TTACCGTTTT
* * * * ***
67584520 ACCCTCGATTTACTGAATTACTGTTTTACCCTTGATTTATAGAATTACTATTTTACCCTTGATTT
1 ACCCTCGATTTACAGAATTACTGTTTTACCCTCGATTTACAAAATTACTAAAATACCCTTGATTT
* ****
67584585 ATAGAATTACTGTTTT
66 ATAGAATTACCGAAAA
* *
67584601 ACCCTTGATTTACAGAATTACTGTTTTACCCTCGATTTACAAAATTACTAAAATACCCTTGGTTT
1 ACCCTCGATTTACAGAATTACTGTTTTACCCTCGATTTACAAAATTACTAAAATACCCTTGATTT
*
67584666 GT-GAAATTACCGAAAA
66 ATAG-AATTACCGAAAA
*
67584682 ACCCTCAATTT
1 ACCCTCGATTT
67584693 GTAAAATTAC
Statistics
Matches: 74, Mismatches: 17, Indels: 2
0.80 0.18 0.02
Matches are distributed among these distances:
80 1 0.01
81 73 0.99
ACGTcount: A:0.30, C:0.20, G:0.10, T:0.40
Consensus pattern (81 bp):
ACCCTCGATTTACAGAATTACTGTTTTACCCTCGATTTACAAAATTACTAAAATACCCTTGATTT
ATAGAATTACCGAAAA
Found at i:67584920 original size:27 final size:27
Alignment explanation
Indices: 67584856--67584920 Score: 87
Period size: 27 Copynumber: 2.4 Consensus size: 27
67584846 ATCCCTATTA
*
67584856 GGTAAAAAGACCGTAAAGCCCCTGTAG
1 GGTAAAATGACCGTAAAGCCCCTGTAG
* *
67584883 GGTAAAGTGACCGTAATA-CCCCTGTAT
1 GGTAAAATGACCGTAA-AGCCCCTGTAG
67584910 GGTAAAATGAC
1 GGTAAAATGAC
67584921 GAATATGCCT
Statistics
Matches: 33, Mismatches: 4, Indels: 2
0.85 0.10 0.05
Matches are distributed among these distances:
27 32 0.97
28 1 0.03
ACGTcount: A:0.35, C:0.20, G:0.25, T:0.20
Consensus pattern (27 bp):
GGTAAAATGACCGTAAAGCCCCTGTAG
Found at i:67586076 original size:25 final size:25
Alignment explanation
Indices: 67586047--67586094 Score: 69
Period size: 25 Copynumber: 1.9 Consensus size: 25
67586037 TTATAATATG
* * *
67586047 AAAATGACCGTTTTGCCCCTAGGTA
1 AAAATGACCATTATACCCCTAGGTA
67586072 AAAATGACCATTATACCCCTAGG
1 AAAATGACCATTATACCCCTAGG
67586095 GTTTATGTAT
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
25 20 1.00
ACGTcount: A:0.33, C:0.25, G:0.17, T:0.25
Consensus pattern (25 bp):
AAAATGACCATTATACCCCTAGGTA
Found at i:67586163 original size:20 final size:20
Alignment explanation
Indices: 67586138--67586196 Score: 100
Period size: 20 Copynumber: 3.0 Consensus size: 20
67586128 TAAATATGGT
67586138 ATGTATGATATGCACATGAA
1 ATGTATGATATGCACATGAA
* *
67586158 ATGTATGCTATGCACATGAT
1 ATGTATGATATGCACATGAA
67586178 ATGTATGATATGCACATGA
1 ATGTATGATATGCACATGA
67586197 GGTAATCATA
Statistics
Matches: 36, Mismatches: 3, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
20 36 1.00
ACGTcount: A:0.36, C:0.12, G:0.20, T:0.32
Consensus pattern (20 bp):
ATGTATGATATGCACATGAA
Found at i:67586274 original size:24 final size:24
Alignment explanation
Indices: 67586247--67586365 Score: 170
Period size: 24 Copynumber: 5.0 Consensus size: 24
67586237 GAGGAAGTGA
*
67586247 AAAAGGGCTTATGCCCCAGTTATC
1 AAAAGGGCTTATGCCCCAGTTATT
67586271 AAAAGGGCTTATGCCCCAGTTA-T
1 AAAAGGGCTTATGCCCCAGTTATT
67586294 AAAAGGGCTTATGCCCCAGTTATT
1 AAAAGGGCTTATGCCCCAGTTATT
* *
67586318 GAAAGGGCTTTTGCCCCAGTTATT
1 AAAAGGGCTTATGCCCCAGTTATT
*
67586342 AAAAGAGGC-TAGGCCTCCAGTTAT
1 AAAAG-GGCTTATGCC-CCAGTTAT
67586366 ATGATAAAGC
Statistics
Matches: 86, Mismatches: 6, Indels: 5
0.89 0.06 0.05
Matches are distributed among these distances:
23 22 0.26
24 53 0.62
25 11 0.13
ACGTcount: A:0.29, C:0.22, G:0.23, T:0.27
Consensus pattern (24 bp):
AAAAGGGCTTATGCCCCAGTTATT
Found at i:67586316 original size:47 final size:48
Alignment explanation
Indices: 67586247--67586365 Score: 170
Period size: 47 Copynumber: 2.5 Consensus size: 48
67586237 GAGGAAGTGA
67586247 AAAAGGGCTTATGCCCCAGTTATCAAAAGGGCTTATGCCCCAGTTA-T
1 AAAAGGGCTTATGCCCCAGTTATCAAAAGGGCTTATGCCCCAGTTATT
** *
67586294 AAAAGGGCTTATGCCCCAGTTATTGAAAGGGCTTTTGCCCCAGTTATT
1 AAAAGGGCTTATGCCCCAGTTATCAAAAGGGCTTATGCCCCAGTTATT
*
67586342 AAAAGAGGC-TAGGCCTCCAGTTAT
1 AAAAG-GGCTTATGCC-CCAGTTAT
67586366 ATGATAAAGC
Statistics
Matches: 65, Mismatches: 4, Indels: 4
0.89 0.05 0.05
Matches are distributed among these distances:
47 43 0.66
48 11 0.17
49 11 0.17
ACGTcount: A:0.29, C:0.22, G:0.23, T:0.27
Consensus pattern (48 bp):
AAAAGGGCTTATGCCCCAGTTATCAAAAGGGCTTATGCCCCAGTTATT
Found at i:67586592 original size:31 final size:31
Alignment explanation
Indices: 67586557--67586651 Score: 181
Period size: 31 Copynumber: 3.1 Consensus size: 31
67586547 CGTTTACAGT
67586557 AAAGGCTTCGGCCCAGTAATATGAAATATGA
1 AAAGGCTTCGGCCCAGTAATATGAAATATGA
67586588 AAAGGCTTCGGCCCAGTAATATGAAATATGA
1 AAAGGCTTCGGCCCAGTAATATGAAATATGA
*
67586619 AAAGGCTTCGGCCCAGTATTATGAAATATGA
1 AAAGGCTTCGGCCCAGTAATATGAAATATGA
67586650 AA
1 AA
67586652 TATGAAAAGG
Statistics
Matches: 63, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
31 63 1.00
ACGTcount: A:0.39, C:0.16, G:0.22, T:0.23
Consensus pattern (31 bp):
AAAGGCTTCGGCCCAGTAATATGAAATATGA
Found at i:67593189 original size:44 final size:44
Alignment explanation
Indices: 67593133--67593391 Score: 177
Period size: 44 Copynumber: 5.6 Consensus size: 44
67593123 TTTGTGCGCC
*
67593133 AGTGTAAGACATGTCTGGGACACGCATCGGCTAAGAGTTGTGCT
1 AGTGTAAGACATGTCTGGGACATGCATCGGCTAAGAGTTGTGCT
* * * *
67593177 AGTGTAAGACATGTCTGGTACATGCATCAGC-AAGCA-TAAATGAAAGCC
1 AGTGTAAGACATGTCTGGGACATGCATCGGCTAAG-AGT---TG--TGCT
* * *
67593225 AGTGTAAGACCATGTCTGGGACATGGCATCGAC-ACAGAGATGAGTGCC
1 AGTGTAAGA-CATGTCTGGGACAT-GCATCGGCTA-AGAG-T-TGTGCT
* * *
67593273 AGAGTAAGACATGTCTGGGACATGCATCGGCCTCAACAGAGATAG-CCT
1 AGTGTAAGACATGTCTGGGACATGCATCGG-CT--A-AGAG-TTGTGCT
* * ** * * *
67593321 -GTGTAAGACTTGTCTTGGACACACATTGGTTAAGAGTTGTGAT
1 AGTGTAAGACATGTCTGGGACATGCATCGGCTAAGAGTTGTGCT
67593364 AGTGTAAGACATGTCTGGGACATGCATC
1 AGTGTAAGACATGTCTGGGACATGCATC
67593392 AGCACGCATA
Statistics
Matches: 168, Mismatches: 30, Indels: 34
0.72 0.13 0.15
Matches are distributed among these distances:
42 2 0.01
43 9 0.05
44 52 0.31
46 9 0.05
47 38 0.23
48 23 0.14
49 15 0.09
50 17 0.10
51 2 0.01
52 1 0.01
ACGTcount: A:0.30, C:0.19, G:0.28, T:0.24
Consensus pattern (44 bp):
AGTGTAAGACATGTCTGGGACATGCATCGGCTAAGAGTTGTGCT
Found at i:67593327 original size:47 final size:44
Alignment explanation
Indices: 67593130--67593443 Score: 175
Period size: 44 Copynumber: 6.8 Consensus size: 44
67593120 TAATTTGTGC
* * *
67593130 GCCAGTGTAAGACATGTCTGGGACACGCATCGGCT-AAGAGTTGT
1 GCCAGTGTAAGACATGTCTGGGACATGCATCGGCTCAAGAGAT-A
* * * * * *
67593174 GCTAGTGTAAGACATGTCTGGTACATGCATCAGCAAGCATAAATGAAA
1 GCCAGTGTAAGACATGTCTGGGACATGCATCGGC--TCA-AGA-GATA
* *
67593222 GCCAGTGTAAGACCATGTCTGGGACATGGCATCGACAC-AGAGATGA
1 GCCAGTGTAAGA-CATGTCTGGGACAT-GCATCGGCTCAAGAGAT-A
*
67593268 GTGCCAGAGTAAGACATGTCTGGGACATGCATCGGCCTCAACAGAGATA
1 --GCCAGTGTAAGACATGTCTGGGACATGCATCGG-CTC-A-AGAGATA
* * * ** * * * *
67593317 GCCTGTGTAAGACTTGTCTTGGACACACATTGG-TTAAGAGTTGT
1 GCCAGTGTAAGACATGTCTGGGACATGCATCGGCTCAAGAGAT-A
** * * * *
67593361 GATAGTGTAAGACATGTCTGGGACATGCATCAGCACGCATATATGAGA
1 GCCAGTGTAAGACATGTCTGGGACATGCATC-G-GCTCA-AGA-GATA
*
67593409 GCCAGTGTAAAACCATGTCTGGGACATGGCATCGG
1 GCCAGTGTAAGA-CATGTCTGGGACAT-GCATCGG
67593444 TAATATATCC
Statistics
Matches: 200, Mismatches: 48, Indels: 40
0.69 0.17 0.14
Matches are distributed among these distances:
43 5 0.03
44 54 0.27
45 4 0.02
46 9 0.05
47 44 0.22
48 36 0.18
49 31 0.16
50 17 0.09
ACGTcount: A:0.30, C:0.19, G:0.28, T:0.23
Consensus pattern (44 bp):
GCCAGTGTAAGACATGTCTGGGACATGCATCGGCTCAAGAGATA
Found at i:67602090 original size:22 final size:22
Alignment explanation
Indices: 67602065--67602110 Score: 92
Period size: 22 Copynumber: 2.1 Consensus size: 22
67602055 TTGAAATGAT
67602065 TGAATATGATTTAAGTTTCATA
1 TGAATATGATTTAAGTTTCATA
67602087 TGAATATGATTTAAGTTTCATA
1 TGAATATGATTTAAGTTTCATA
67602109 TG
1 TG
67602111 TTTTCAAATT
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
22 24 1.00
ACGTcount: A:0.35, C:0.04, G:0.15, T:0.46
Consensus pattern (22 bp):
TGAATATGATTTAAGTTTCATA
Found at i:67613985 original size:40 final size:40
Alignment explanation
Indices: 67613940--67614107 Score: 185
Period size: 40 Copynumber: 4.2 Consensus size: 40
67613930 CGGAATATAA
67613940 CCGGATATAATCACGT-GCACAAATGCCTTCGGGTCTTAGC
1 CCGGATATAATCAC-TAGCACAAATGCCTTCGGGTCTTAGC
* * * *
67613980 CCGGATAGAATAACTCGCACGAATGCCTTCGGGTCTTAGC
1 CCGGATATAATCACTAGCACAAATGCCTTCGGGTCTTAGC
** * *
67614020 CCGGATATAGCCACTAGCACAATTGCCTTCGGGTCTTAAC
1 CCGGATATAATCACTAGCACAAATGCCTTCGGGTCTTAGC
** * * * * *
67614060 CCGGATATAATTTCCAGCATAATTGTCTTCGGGGCTTAGC
1 CCGGATATAATCACTAGCACAAATGCCTTCGGGTCTTAGC
67614100 CCGGATAT
1 CCGGATAT
67614108 CATTCAATTT
Statistics
Matches: 107, Mismatches: 20, Indels: 2
0.83 0.16 0.02
Matches are distributed among these distances:
39 1 0.01
40 106 0.99
ACGTcount: A:0.24, C:0.27, G:0.23, T:0.26
Consensus pattern (40 bp):
CCGGATATAATCACTAGCACAAATGCCTTCGGGTCTTAGC
Found at i:67617509 original size:22 final size:22
Alignment explanation
Indices: 67617471--67617518 Score: 62
Period size: 22 Copynumber: 2.1 Consensus size: 22
67617461 AGAAATTAAG
67617471 TAGAAAAGAAGTATGAATTGAGT
1 TAGAAAAGAAG-ATGAATTGAGT
*
67617494 TAGAAAAGTAAG-TGAATTTAGT
1 TAGAAAAG-AAGATGAATTGAGT
67617516 TAG
1 TAG
67617519 GATTAAATTG
Statistics
Matches: 23, Mismatches: 1, Indels: 3
0.85 0.04 0.11
Matches are distributed among these distances:
22 12 0.52
23 8 0.35
24 3 0.13
ACGTcount: A:0.46, C:0.00, G:0.25, T:0.29
Consensus pattern (22 bp):
TAGAAAAGAAGATGAATTGAGT
Found at i:67617744 original size:19 final size:18
Alignment explanation
Indices: 67617703--67617749 Score: 51
Period size: 19 Copynumber: 2.6 Consensus size: 18
67617693 TGTATTACTA
*
67617703 TAATT-AATGTTATTTTT
1 TAATTAAATGTTAATTTT
*
67617720 TTATTAAATGTTAAATTTT
1 TAATTAAATGTT-AATTTT
*
67617739 TAATTATATGT
1 TAATTAAATGT
67617750 ATGATAAGTA
Statistics
Matches: 24, Mismatches: 4, Indels: 2
0.80 0.13 0.07
Matches are distributed among these distances:
17 4 0.17
18 6 0.25
19 14 0.58
ACGTcount: A:0.34, C:0.00, G:0.06, T:0.60
Consensus pattern (18 bp):
TAATTAAATGTTAATTTT
Found at i:67617857 original size:28 final size:28
Alignment explanation
Indices: 67617788--67617864 Score: 79
Period size: 28 Copynumber: 2.8 Consensus size: 28
67617778 ATTACAGAAT
67617788 TGAAAAG-GAAATTGAATTGATGATGGA
1 TGAAAAGTGAAATTGAATTGATGATGGA
* * * *
67617815 T-AAGTATTGATATTGAATTGTAT-ATTGA
1 TGAA-AAGTGAAATTGAATTG-ATGATGGA
67617843 TGAAAAGTGAAATTGAATTGAT
1 TGAAAAGTGAAATTGAATTGAT
67617865 TCGTAAATGA
Statistics
Matches: 39, Mismatches: 7, Indels: 8
0.72 0.13 0.15
Matches are distributed among these distances:
26 2 0.05
27 4 0.10
28 29 0.74
29 4 0.10
ACGTcount: A:0.42, C:0.00, G:0.23, T:0.35
Consensus pattern (28 bp):
TGAAAAGTGAAATTGAATTGATGATGGA
Found at i:67622151 original size:42 final size:42
Alignment explanation
Indices: 67622104--67622252 Score: 255
Period size: 42 Copynumber: 3.5 Consensus size: 42
67622094 TATTGGTCTC
* *
67622104 GGCACTAAGTGTGTGGGTATAAATGGACACAGTGACAAGATT
1 GGCACTAAGTGTGCGGGTATAAATGGACACGGTGACAAGATT
67622146 GGCACTAAGTGTGCGGGTATAAATGGACACGGTGACAAGATT
1 GGCACTAAGTGTGCGGGTATAAATGGACACGGTGACAAGATT
67622188 GGCACTAAGTGTGCGGGTATAAATGGACACGGTGACAAGATT
1 GGCACTAAGTGTGCGGGTATAAATGGACACGGTGACAAGATT
*
67622230 GGCACTACA-TGTGCGGGTTTAAA
1 GGCACTA-AGTGTGCGGGTATAAA
67622253 ATTGTACAGC
Statistics
Matches: 103, Mismatches: 3, Indels: 2
0.95 0.03 0.02
Matches are distributed among these distances:
42 102 0.99
43 1 0.01
ACGTcount: A:0.31, C:0.14, G:0.32, T:0.23
Consensus pattern (42 bp):
GGCACTAAGTGTGCGGGTATAAATGGACACGGTGACAAGATT
Found at i:67622317 original size:27 final size:28
Alignment explanation
Indices: 67622260--67622329 Score: 97
Period size: 27 Copynumber: 2.5 Consensus size: 28
67622250 AAAATTGTAC
**
67622260 AGCACTAAGTGTGCGAATTTGATTATAT
1 AGCACTAAGTGTGCGAAGCTGATTATAT
* *
67622288 AGCACTATGTGTGCG-AGCTGATTTTAT
1 AGCACTAAGTGTGCGAAGCTGATTATAT
67622315 AGCACTAAGTGTGCG
1 AGCACTAAGTGTGCG
67622330 GATTCACTAT
Statistics
Matches: 37, Mismatches: 5, Indels: 1
0.86 0.12 0.02
Matches are distributed among these distances:
27 23 0.62
28 14 0.38
ACGTcount: A:0.27, C:0.14, G:0.26, T:0.33
Consensus pattern (28 bp):
AGCACTAAGTGTGCGAAGCTGATTATAT
Found at i:67631538 original size:38 final size:38
Alignment explanation
Indices: 67631495--67631570 Score: 143
Period size: 38 Copynumber: 2.0 Consensus size: 38
67631485 AGAAAGAAAG
67631495 AAAAAAATAAAAGTAACATACAAGAAGAAAATAAAAAC
1 AAAAAAATAAAAGTAACATACAAGAAGAAAATAAAAAC
*
67631533 AAAAAAATAAAAGTAACGTACAAGAAGAAAATAAAAAC
1 AAAAAAATAAAAGTAACATACAAGAAGAAAATAAAAAC
67631571 TTTCAGACTC
Statistics
Matches: 37, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
38 37 1.00
ACGTcount: A:0.72, C:0.08, G:0.09, T:0.11
Consensus pattern (38 bp):
AAAAAAATAAAAGTAACATACAAGAAGAAAATAAAAAC
Found at i:67644245 original size:12 final size:12
Alignment explanation
Indices: 67644228--67644252 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
67644218 GATCTTCCAT
67644228 TTGCTGTTGTTG
1 TTGCTGTTGTTG
67644240 TTGCTGTTGTTG
1 TTGCTGTTGTTG
67644252 T
1 T
67644253 ACATGATTTC
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 13 1.00
ACGTcount: A:0.00, C:0.08, G:0.32, T:0.60
Consensus pattern (12 bp):
TTGCTGTTGTTG
Found at i:67645540 original size:47 final size:47
Alignment explanation
Indices: 67645471--67645567 Score: 194
Period size: 47 Copynumber: 2.1 Consensus size: 47
67645461 AAGGCGTGCT
67645471 AACTCGATACTAGTCTCTGTACTACTACACAGTGAGTTTGATGTTGC
1 AACTCGATACTAGTCTCTGTACTACTACACAGTGAGTTTGATGTTGC
67645518 AACTCGATACTAGTCTCTGTACTACTACACAGTGAGTTTGATGTTGC
1 AACTCGATACTAGTCTCTGTACTACTACACAGTGAGTTTGATGTTGC
67645565 AAC
1 AAC
67645568 ATAGGGAGCA
Statistics
Matches: 50, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
47 50 1.00
ACGTcount: A:0.27, C:0.22, G:0.19, T:0.33
Consensus pattern (47 bp):
AACTCGATACTAGTCTCTGTACTACTACACAGTGAGTTTGATGTTGC
Found at i:67655758 original size:19 final size:20
Alignment explanation
Indices: 67655714--67655758 Score: 56
Period size: 19 Copynumber: 2.3 Consensus size: 20
67655704 CAAAAATGTC
* *
67655714 AAAATAATTTTCAAATATTC
1 AAAATAATTTTCAAAGATTA
*
67655734 AAAATAATTTT-TAAGATTA
1 AAAATAATTTTCAAAGATTA
67655753 AAAATA
1 AAAATA
67655759 TTTATAAAAA
Statistics
Matches: 22, Mismatches: 3, Indels: 1
0.85 0.12 0.04
Matches are distributed among these distances:
19 11 0.50
20 11 0.50
ACGTcount: A:0.56, C:0.04, G:0.02, T:0.38
Consensus pattern (20 bp):
AAAATAATTTTCAAAGATTA
Found at i:67655811 original size:20 final size:20
Alignment explanation
Indices: 67655783--67655820 Score: 58
Period size: 20 Copynumber: 1.9 Consensus size: 20
67655773 AAAATTTATA
*
67655783 TTTTTAAAAAATTATAAAAC
1 TTTTAAAAAAATTATAAAAC
*
67655803 TTTTAAAAAAATTCTAAA
1 TTTTAAAAAAATTATAAA
67655821 GAATACATAA
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
20 16 1.00
ACGTcount: A:0.55, C:0.05, G:0.00, T:0.39
Consensus pattern (20 bp):
TTTTAAAAAAATTATAAAAC
Found at i:67655851 original size:20 final size:21
Alignment explanation
Indices: 67655788--67655854 Score: 59
Period size: 20 Copynumber: 3.2 Consensus size: 21
67655778 TTATATTTTT
*
67655788 AAAAAATTATAAAA-CTTTTA
1 AAAAAATTATAAAATCTTTAA
* *
67655808 AAAAAATTCTAAAGAATAC-ATAA
1 AAAAAATTAT-AA-AAT-CTTTAA
67655831 AAAAAATT-TAAAATCTTTAA
1 AAAAAATTATAAAATCTTTAA
67655851 AAAA
1 AAAA
67655855 GTTAAAATAA
Statistics
Matches: 38, Mismatches: 4, Indels: 10
0.73 0.08 0.19
Matches are distributed among these distances:
19 1 0.03
20 19 0.50
21 4 0.11
22 3 0.08
23 10 0.26
24 1 0.03
ACGTcount: A:0.64, C:0.06, G:0.01, T:0.28
Consensus pattern (21 bp):
AAAAAATTATAAAATCTTTAA
Found at i:67665297 original size:59 final size:59
Alignment explanation
Indices: 67665205--67665349 Score: 254
Period size: 59 Copynumber: 2.4 Consensus size: 59
67665195 ATTGATTTAT
*
67665205 TTTTGAATATTTTTGTACAAATTGTTTTTATATTGTTTCATTTAATAAAATAGAAGTTC
1 TTTTGAATATTTTTGTACAAATTATTTTTATATTGTTTCATTTAATAAAATAGAAGTTC
* *
67665264 TTTTGAATATTTTTGTACTAATTATTTTTATATTGTTTCATTTAATAAAATATAAGTTC
1 TTTTGAATATTTTTGTACAAATTATTTTTATATTGTTTCATTTAATAAAATAGAAGTTC
67665323 TTTTGAATATTTTTGTACAAATATATT
1 TTTTGAATATTTTTGTACAAAT-TATT
67665350 ACTGACGTGC
Statistics
Matches: 81, Mismatches: 4, Indels: 1
0.94 0.05 0.01
Matches are distributed among these distances:
59 77 0.95
60 4 0.05
ACGTcount: A:0.32, C:0.05, G:0.08, T:0.54
Consensus pattern (59 bp):
TTTTGAATATTTTTGTACAAATTATTTTTATATTGTTTCATTTAATAAAATAGAAGTTC
Found at i:67666946 original size:7 final size:7
Alignment explanation
Indices: 67666936--67666960 Score: 50
Period size: 7 Copynumber: 3.6 Consensus size: 7
67666926 AAATTAACTA
67666936 TTAAATT
1 TTAAATT
67666943 TTAAATT
1 TTAAATT
67666950 TTAAATT
1 TTAAATT
67666957 TTAA
1 TTAA
67666961 TTAATTATGC
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 18 1.00
ACGTcount: A:0.44, C:0.00, G:0.00, T:0.56
Consensus pattern (7 bp):
TTAAATT
Found at i:67676347 original size:19 final size:19
Alignment explanation
Indices: 67676310--67676348 Score: 53
Period size: 19 Copynumber: 2.1 Consensus size: 19
67676300 TCATATGTTC
*
67676310 ATATGATATGGAAAGATGA
1 ATATGATATAGAAAGATGA
67676329 ATATGCATATAGAAA-ATGA
1 ATATG-ATATAGAAAGATGA
67676348 A
1 A
67676349 AATGGATGAT
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
19 10 0.56
20 8 0.44
ACGTcount: A:0.51, C:0.03, G:0.21, T:0.26
Consensus pattern (19 bp):
ATATGATATAGAAAGATGA
Found at i:67682921 original size:29 final size:29
Alignment explanation
Indices: 67682882--67682955 Score: 105
Period size: 29 Copynumber: 2.6 Consensus size: 29
67682872 GGTTGAGAGA
* *
67682882 ATGGCACTAAGTGTGCGGGCTTGAAA-TGC
1 ATGGCACTAAGTGTGCGAG-TTGAAAGTAC
*
67682911 ATGGCACTAAGTGTGCGAGTTTAAAGTAC
1 ATGGCACTAAGTGTGCGAGTTGAAAGTAC
67682940 ATGGCACTAAGTGTGC
1 ATGGCACTAAGTGTGC
67682956 ATAGTTGATT
Statistics
Matches: 41, Mismatches: 3, Indels: 2
0.89 0.07 0.04
Matches are distributed among these distances:
28 5 0.12
29 36 0.88
ACGTcount: A:0.27, C:0.16, G:0.31, T:0.26
Consensus pattern (29 bp):
ATGGCACTAAGTGTGCGAGTTGAAAGTAC
Found at i:67683009 original size:12 final size:12
Alignment explanation
Indices: 67682992--67683018 Score: 54
Period size: 12 Copynumber: 2.2 Consensus size: 12
67682982 GCGAACCCAC
67682992 TATATAAATATA
1 TATATAAATATA
67683004 TATATAAATATA
1 TATATAAATATA
67683016 TAT
1 TAT
67683019 TTTCTATCAA
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:0.56, C:0.00, G:0.00, T:0.44
Consensus pattern (12 bp):
TATATAAATATA
Found at i:67691322 original size:65 final size:65
Alignment explanation
Indices: 67691240--67691370 Score: 235
Period size: 65 Copynumber: 2.0 Consensus size: 65
67691230 AATTTGAGAT
*
67691240 AGCGCAAGTGGCTTGAGTTATTGAAAGATTATGATTTGGTTATAGACGATTATCTGGGAAAAGAC
1 AGCGCAAGTGGCTTGAGTTATTGAAAGATTATGATTTGGTTATAGACGATTATCCGGGAAAAGAC
* *
67691305 AGCGCAGGTGGCTTGAGTTATTGAAAGATTATGATTTGGTTATAGACTATTATCCGGGAAAAGAC
1 AGCGCAAGTGGCTTGAGTTATTGAAAGATTATGATTTGGTTATAGACGATTATCCGGGAAAAGAC
67691370 A
1 A
67691371 ATGTAGTTAC
Statistics
Matches: 63, Mismatches: 3, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
65 63 1.00
ACGTcount: A:0.32, C:0.10, G:0.27, T:0.31
Consensus pattern (65 bp):
AGCGCAAGTGGCTTGAGTTATTGAAAGATTATGATTTGGTTATAGACGATTATCCGGGAAAAGAC
Found at i:67698085 original size:30 final size:30
Alignment explanation
Indices: 67698023--67698085 Score: 76
Period size: 30 Copynumber: 2.1 Consensus size: 30
67698013 TCGAATATGT
*
67698023 ATTATGATACATAAATTTTGATTTGATACA
1 ATTATGATACATAAATTTTGATTTAATACA
*
67698053 ATTAT-ATACATAAACTTTT-ATTTTAATTCA
1 ATTATGATACATAAA-TTTTGA-TTTAATACA
67698083 ATT
1 ATT
67698086 CTACATATTT
Statistics
Matches: 29, Mismatches: 2, Indels: 4
0.83 0.06 0.11
Matches are distributed among these distances:
29 10 0.34
30 19 0.66
ACGTcount: A:0.40, C:0.08, G:0.05, T:0.48
Consensus pattern (30 bp):
ATTATGATACATAAATTTTGATTTAATACA
Found at i:67699279 original size:1 final size:1
Alignment explanation
Indices: 67699273--67699298 Score: 52
Period size: 1 Copynumber: 26.0 Consensus size: 1
67699263 TCAATTTACC
67699273 TTTTTTTTTTTTTTTTTTTTTTTTTT
1 TTTTTTTTTTTTTTTTTTTTTTTTTT
67699299 GGAGGGTTAG
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
1 25 1.00
ACGTcount: A:0.00, C:0.00, G:0.00, T:1.00
Consensus pattern (1 bp):
T
Found at i:67701622 original size:22 final size:22
Alignment explanation
Indices: 67701572--67701622 Score: 52
Period size: 22 Copynumber: 2.4 Consensus size: 22
67701562 TCCTTTTTAT
* *
67701572 AATC-CAAGCTTAATTCCTATC
1 AATCTCAAGCCTAATTCCAATC
*
67701593 AATTTCAAGCCTAATT-CAATC
1 AATCTCAAGCCTAATTCCAATC
67701614 AAATCTCAA
1 -AATCTCAA
67701623 TCATGAAAAC
Statistics
Matches: 24, Mismatches: 4, Indels: 3
0.77 0.13 0.10
Matches are distributed among these distances:
21 7 0.29
22 17 0.71
ACGTcount: A:0.39, C:0.25, G:0.04, T:0.31
Consensus pattern (22 bp):
AATCTCAAGCCTAATTCCAATC
Found at i:67705531 original size:30 final size:33
Alignment explanation
Indices: 67705495--67705560 Score: 111
Period size: 30 Copynumber: 2.1 Consensus size: 33
67705485 ATAGTTTATA
67705495 TTTTTATAATTTTTAG-AGGATT-AAAT-TAAT
1 TTTTTATAATTTTTAGAAGGATTAAAATATAAT
67705525 TTTTTATAATTTTTAGAAGGATTAAAATATAAT
1 TTTTTATAATTTTTAGAAGGATTAAAATATAAT
67705558 TTT
1 TTT
67705561 ATCATTACAA
Statistics
Matches: 33, Mismatches: 0, Indels: 3
0.92 0.00 0.08
Matches are distributed among these distances:
30 16 0.48
31 6 0.18
32 4 0.12
33 7 0.21
ACGTcount: A:0.38, C:0.00, G:0.09, T:0.53
Consensus pattern (33 bp):
TTTTTATAATTTTTAGAAGGATTAAAATATAAT
Found at i:67707533 original size:22 final size:22
Alignment explanation
Indices: 67707508--67707549 Score: 75
Period size: 22 Copynumber: 1.9 Consensus size: 22
67707498 ATTTAAATTG
*
67707508 GTTACATTAATTATTAATTTTA
1 GTTACATTAATTATCAATTTTA
67707530 GTTACATTAATTATCAATTT
1 GTTACATTAATTATCAATTT
67707550 AGGTTTTGGG
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
22 19 1.00
ACGTcount: A:0.36, C:0.07, G:0.05, T:0.52
Consensus pattern (22 bp):
GTTACATTAATTATCAATTTTA
Found at i:67708901 original size:14 final size:13
Alignment explanation
Indices: 67708869--67708911 Score: 50
Period size: 13 Copynumber: 3.2 Consensus size: 13
67708859 TGTTACGAAA
67708869 TTAATTAATTAAT
1 TTAATTAATTAAT
* *
67708882 TAAATTGAATTGAT
1 TTAATT-AATTAAT
*
67708896 TTAATTATTTAAT
1 TTAATTAATTAAT
67708909 TTA
1 TTA
67708912 TTTTTAATTT
Statistics
Matches: 24, Mismatches: 5, Indels: 2
0.77 0.16 0.06
Matches are distributed among these distances:
13 13 0.54
14 11 0.46
ACGTcount: A:0.42, C:0.00, G:0.05, T:0.53
Consensus pattern (13 bp):
TTAATTAATTAAT
Found at i:67711923 original size:15 final size:15
Alignment explanation
Indices: 67711905--67711933 Score: 58
Period size: 15 Copynumber: 1.9 Consensus size: 15
67711895 AGTGTTTAGT
67711905 ATTAGGGTTTATGGA
1 ATTAGGGTTTATGGA
67711920 ATTAGGGTTTATGG
1 ATTAGGGTTTATGG
67711934 TTTTTTTTTT
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 14 1.00
ACGTcount: A:0.24, C:0.00, G:0.34, T:0.41
Consensus pattern (15 bp):
ATTAGGGTTTATGGA
Found at i:67717308 original size:23 final size:23
Alignment explanation
Indices: 67717280--67717325 Score: 92
Period size: 23 Copynumber: 2.0 Consensus size: 23
67717270 TCCCAAAGTT
67717280 GTAAAATTTTCTTCTAATTCAAA
1 GTAAAATTTTCTTCTAATTCAAA
67717303 GTAAAATTTTCTTCTAATTCAAA
1 GTAAAATTTTCTTCTAATTCAAA
67717326 TGCTATTTGA
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
23 23 1.00
ACGTcount: A:0.39, C:0.13, G:0.04, T:0.43
Consensus pattern (23 bp):
GTAAAATTTTCTTCTAATTCAAA
Found at i:67719089 original size:16 final size:18
Alignment explanation
Indices: 67719068--67719105 Score: 53
Period size: 16 Copynumber: 2.2 Consensus size: 18
67719058 ATTTGAATAT
*
67719068 TAATTTTAAT-ATATTA-
1 TAATTTAAATAATATTAC
67719084 TAATTTAAATAATATTAC
1 TAATTTAAATAATATTAC
67719102 TAAT
1 TAAT
67719106 AATTCTTTAC
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
16 9 0.47
17 6 0.32
18 4 0.21
ACGTcount: A:0.47, C:0.03, G:0.00, T:0.50
Consensus pattern (18 bp):
TAATTTAAATAATATTAC
Found at i:67719403 original size:13 final size:14
Alignment explanation
Indices: 67719376--67719408 Score: 50
Period size: 13 Copynumber: 2.4 Consensus size: 14
67719366 TATTTAACAT
67719376 ATAAAAAGTTATAA
1 ATAAAAAGTTATAA
*
67719390 ATAAAAA-TTTTAA
1 ATAAAAAGTTATAA
67719403 ATAAAA
1 ATAAAA
67719409 GACATGGAAT
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
13 11 0.61
14 7 0.39
ACGTcount: A:0.67, C:0.00, G:0.03, T:0.30
Consensus pattern (14 bp):
ATAAAAAGTTATAA
Found at i:67720293 original size:13 final size:14
Alignment explanation
Indices: 67720274--67720308 Score: 54
Period size: 13 Copynumber: 2.6 Consensus size: 14
67720264 TGTTTTCTTA
*
67720274 ATTTAATTATATTT
1 ATTTAATTAAATTT
67720288 -TTTAATTAAATTT
1 ATTTAATTAAATTT
67720301 ATTTAATT
1 ATTTAATT
67720309 TGTTGGATTC
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
13 12 0.63
14 7 0.37
ACGTcount: A:0.37, C:0.00, G:0.00, T:0.63
Consensus pattern (14 bp):
ATTTAATTAAATTT
Found at i:67720294 original size:18 final size:18
Alignment explanation
Indices: 67720266--67720304 Score: 53
Period size: 18 Copynumber: 2.2 Consensus size: 18
67720256 ATCCTTATTG
*
67720266 TTTTCTTAATTTAATTATA
1 TTTTCTTAATTAAATT-TA
67720285 TTTT-TTAATTAAATTTA
1 TTTTCTTAATTAAATTTA
67720302 TTT
1 TTT
67720305 AATTTGTTGG
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
17 5 0.26
18 10 0.53
19 4 0.21
ACGTcount: A:0.31, C:0.03, G:0.00, T:0.67
Consensus pattern (18 bp):
TTTTCTTAATTAAATTTA
Found at i:67720449 original size:18 final size:20
Alignment explanation
Indices: 67720426--67720464 Score: 64
Period size: 19 Copynumber: 2.0 Consensus size: 20
67720416 TATATAAATA
67720426 TAAATA-TAAAATAA-TTTT
1 TAAATACTAAAATAAGTTTT
67720444 TAAATACTAAAATAAGTTTT
1 TAAATACTAAAATAAGTTTT
67720464 T
1 T
67720465 TCGAAATTGA
Statistics
Matches: 19, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
18 6 0.32
19 8 0.42
20 5 0.26
ACGTcount: A:0.51, C:0.03, G:0.03, T:0.44
Consensus pattern (20 bp):
TAAATACTAAAATAAGTTTT
Found at i:67723397 original size:21 final size:21
Alignment explanation
Indices: 67723354--67723398 Score: 54
Period size: 21 Copynumber: 2.1 Consensus size: 21
67723344 CACATGCCAT
*
67723354 TGTGGCCAGGGGACACACTCG
1 TGTGGCCAGGGGACACACCCG
* * *
67723375 TGTGGCTATGGGACACGCCCG
1 TGTGGCCAGGGGACACACCCG
67723396 TGT
1 TGT
67723399 TTTAGGCCGT
Statistics
Matches: 20, Mismatches: 4, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
21 20 1.00
ACGTcount: A:0.16, C:0.27, G:0.38, T:0.20
Consensus pattern (21 bp):
TGTGGCCAGGGGACACACCCG
Found at i:67728656 original size:19 final size:18
Alignment explanation
Indices: 67728632--67728667 Score: 54
Period size: 19 Copynumber: 1.9 Consensus size: 18
67728622 TTATCATATA
*
67728632 TTTTAAATTTTCTAATTTT
1 TTTTAAATATT-TAATTTT
67728651 TTTTAAATATTTAATTT
1 TTTTAAATATTTAATTT
67728668 AAAACATAAT
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
18 6 0.38
19 10 0.62
ACGTcount: A:0.31, C:0.03, G:0.00, T:0.67
Consensus pattern (18 bp):
TTTTAAATATTTAATTTT
Done.