Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: A07
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: 93829987
ACGTcount: A:0.31, C:0.16, G:0.16, T:0.31
Warning! 4250000 characters in sequence are not A, C, G, or T
File 217 of 295
Found at i:69184390 original size:15 final size:16
Alignment explanation
Indices: 69184370--69184402 Score: 50
Period size: 17 Copynumber: 2.1 Consensus size: 16
69184360 TATATATTTT
69184370 TTATTTT-ATTTTTAA
1 TTATTTTAATTTTTAA
69184385 TTATTTTAAATTTTTAA
1 TTATTTT-AATTTTTAA
69184402 T
1 T
69184403 ATAACCATTT
Statistics
Matches: 16, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
15 7 0.44
17 9 0.56
ACGTcount: A:0.30, C:0.00, G:0.00, T:0.70
Consensus pattern (16 bp):
TTATTTTAATTTTTAA
Found at i:69184486 original size:33 final size:35
Alignment explanation
Indices: 69184423--69184488 Score: 91
Period size: 33 Copynumber: 1.9 Consensus size: 35
69184413 TTTATTATAT
*
69184423 TATTAATTTGTGTATTGTTTTAAGAATTGTTTTAG
1 TATTAATTTGTATATTGTTTTAAGAATTGTTTTAG
* *
69184458 TATTAATTT-TAT-TTGTTTTAATATTTGTTTT
1 TATTAATTTGTATATTGTTTTAAGAATTGTTTT
69184489 TATGTTTTTA
Statistics
Matches: 28, Mismatches: 3, Indels: 2
0.85 0.09 0.06
Matches are distributed among these distances:
33 17 0.61
34 2 0.07
35 9 0.32
ACGTcount: A:0.24, C:0.00, G:0.12, T:0.64
Consensus pattern (35 bp):
TATTAATTTGTATATTGTTTTAAGAATTGTTTTAG
Found at i:69184488 original size:21 final size:20
Alignment explanation
Indices: 69184449--69184496 Score: 51
Period size: 21 Copynumber: 2.4 Consensus size: 20
69184439 GTTTTAAGAA
*
69184449 TTGTTTTAGTATTAATTTTAT
1 TTGTTTTAATATTAATTTT-T
**
69184470 TTGTTTTAATATTTGTTTTT
1 TTGTTTTAATATTAATTTTT
*
69184490 ATGTTTT
1 TTGTTTT
69184497 TAAATATATT
Statistics
Matches: 23, Mismatches: 4, Indels: 1
0.82 0.14 0.04
Matches are distributed among these distances:
20 7 0.30
21 16 0.70
ACGTcount: A:0.19, C:0.00, G:0.10, T:0.71
Consensus pattern (20 bp):
TTGTTTTAATATTAATTTTT
Found at i:69184522 original size:26 final size:24
Alignment explanation
Indices: 69184478--69184527 Score: 73
Period size: 26 Copynumber: 2.0 Consensus size: 24
69184468 ATTTGTTTTA
*
69184478 ATATTTGTTTTTATGTTTTTAAAT
1 ATATTTGTTTTTATATTTTTAAAT
69184502 ATATTTGATTTATTATATTTTTAAAT
1 ATATTTG-TTT-TTATATTTTTAAAT
69184528 TTTTTATTTA
Statistics
Matches: 23, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
24 7 0.30
25 3 0.13
26 13 0.57
ACGTcount: A:0.30, C:0.00, G:0.06, T:0.64
Consensus pattern (24 bp):
ATATTTGTTTTTATATTTTTAAAT
Found at i:69194967 original size:79 final size:81
Alignment explanation
Indices: 69194866--69195050 Score: 218
Period size: 79 Copynumber: 2.3 Consensus size: 81
69194856 GCTACTCGTT
* * *
69194866 CAAATGCCTTCGGGACATAGCCCGG-TTATAGTAACTCGCACAAATGCCTTCGGGA-CTTAACCC
1 CAAATGCCTTCGGGACTTAGCCCGGAAT-TAGTAACTCACACAAATGCCTTC-GGATCTTAACCC
* *
69194929 AGATTTAGTAAC-TCGCA
64 AGATATAGTAACTTAGCA
* ** *
69194946 CAAATGCCTTCGGG-CTTAGCCCGGAATTAGTATCTCACACAAATGCCTTCGGATCTTAGTCCGG
1 CAAATGCCTTCGGGACTTAGCCCGGAATTAGTAACTCACACAAATGCCTTCGGATCTTAACCCAG
* *
69195010 ATATGGTCACTTAGCA
66 ATATAGTAACTTAGCA
69195026 CAAA-GCCTTCGGGACTTAGCCCGGA
1 CAAATGCCTTCGGGACTTAGCCCGGA
69195051 CATCATTCAA
Statistics
Matches: 90, Mismatches: 11, Indels: 8
0.83 0.10 0.07
Matches are distributed among these distances:
78 3 0.03
79 53 0.59
80 34 0.38
ACGTcount: A:0.26, C:0.28, G:0.22, T:0.24
Consensus pattern (81 bp):
CAAATGCCTTCGGGACTTAGCCCGGAATTAGTAACTCACACAAATGCCTTCGGATCTTAACCCAG
ATATAGTAACTTAGCA
Found at i:69195050 original size:40 final size:40
Alignment explanation
Indices: 69194866--69195050 Score: 200
Period size: 40 Copynumber: 4.7 Consensus size: 40
69194856 GCTACTCGTT
* * *
69194866 CAAATGCCTTCGGGACATAGCCCGGTTATAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGATATAGTAACTAGCA
* * * *
69194906 CAAATGCCTTCGGGACTTAACCCAGATTTAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGATATAGTAACTAGCA
*
69194946 CAAATGCCTTCGGG-CTTAGCCCGGA-ATTAGTATCTCA-CA
1 CAAATGCCTTCGGGACTTAGCCCGGATA-TAGTAACT-AGCA
* * *
69194985 CAAATGCCTTC-GGATCTTAGTCCGGATATGGTCACTTAGCA
1 CAAATGCCTTCGGGA-CTTAGCCCGGATATAGTAAC-TAGCA
69195026 CAAA-GCCTTCGGGACTTAGCCCGGA
1 CAAATGCCTTCGGGACTTAGCCCGGA
69195051 CATCATTCAA
Statistics
Matches: 122, Mismatches: 15, Indels: 16
0.80 0.10 0.10
Matches are distributed among these distances:
38 2 0.02
39 29 0.24
40 80 0.66
41 11 0.09
ACGTcount: A:0.26, C:0.28, G:0.22, T:0.24
Consensus pattern (40 bp):
CAAATGCCTTCGGGACTTAGCCCGGATATAGTAACTAGCA
Found at i:69197496 original size:28 final size:28
Alignment explanation
Indices: 69197464--69197528 Score: 103
Period size: 28 Copynumber: 2.3 Consensus size: 28
69197454 ATTTACTAGA
*
69197464 ATACCCCTATGTATGCAAAATTACCATT
1 ATACCCCTATGTATGCAAAATGACCATT
* *
69197492 ATACCCCTATGTATGCTAAATGACCTTT
1 ATACCCCTATGTATGCAAAATGACCATT
69197520 ATACCCCTA
1 ATACCCCTA
69197529 GGGTTAATTT
Statistics
Matches: 34, Mismatches: 3, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
28 34 1.00
ACGTcount: A:0.32, C:0.28, G:0.08, T:0.32
Consensus pattern (28 bp):
ATACCCCTATGTATGCAAAATGACCATT
Found at i:69198195 original size:19 final size:19
Alignment explanation
Indices: 69198159--69198197 Score: 51
Period size: 19 Copynumber: 2.1 Consensus size: 19
69198149 TTTTGATTAT
*
69198159 TTTTATGATTTTGCTTTAC
1 TTTTATGATTTTACTTTAC
* *
69198178 TTTTATTATTTTATTTTAC
1 TTTTATGATTTTACTTTAC
69198197 T
1 T
69198198 ATGATGAAAA
Statistics
Matches: 17, Mismatches: 3, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
19 17 1.00
ACGTcount: A:0.18, C:0.08, G:0.05, T:0.69
Consensus pattern (19 bp):
TTTTATGATTTTACTTTAC
Found at i:69198811 original size:11 final size:10
Alignment explanation
Indices: 69198783--69198816 Score: 50
Period size: 10 Copynumber: 3.3 Consensus size: 10
69198773 AGCCTGTTAG
69198783 TATTCTGAAT
1 TATTCTGAAT
*
69198793 TTTTCTGAAT
1 TATTCTGAAT
69198803 ATATTCTGAAT
1 -TATTCTGAAT
69198814 TAT
1 TAT
69198817 CTGTCTCTAC
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
10 12 0.57
11 9 0.43
ACGTcount: A:0.29, C:0.09, G:0.09, T:0.53
Consensus pattern (10 bp):
TATTCTGAAT
Found at i:69205334 original size:28 final size:28
Alignment explanation
Indices: 69205297--69205357 Score: 95
Period size: 28 Copynumber: 2.2 Consensus size: 28
69205287 TACTAGAATA
*
69205297 CCCTATGTATGCAAAATTACCATTATAC
1 CCCTATGTATGCAAAATGACCATTATAC
* *
69205325 CCCTATGTATGCTAAATGACCTTTATAC
1 CCCTATGTATGCAAAATGACCATTATAC
69205353 CCCTA
1 CCCTA
69205358 GGGTTAATTT
Statistics
Matches: 30, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
28 30 1.00
ACGTcount: A:0.31, C:0.28, G:0.08, T:0.33
Consensus pattern (28 bp):
CCCTATGTATGCAAAATGACCATTATAC
Found at i:69205503 original size:28 final size:29
Alignment explanation
Indices: 69205462--69205524 Score: 94
Period size: 28 Copynumber: 2.2 Consensus size: 29
69205452 AGGAAGCGTC
*
69205462 CTGGTGGCTATGCCACAAATTATCTGT-T
1 CTGGTGGCTATGCCACAAAATATCTGTAT
69205490 CTGGTGGC-ACTGCCACAAAATATCTGTAT
1 CTGGTGGCTA-TGCCACAAAATATCTGTAT
69205519 CTGGTG
1 CTGGTG
69205525 ACTCTATCAC
Statistics
Matches: 32, Mismatches: 1, Indels: 3
0.89 0.03 0.08
Matches are distributed among these distances:
27 1 0.03
28 24 0.75
29 7 0.22
ACGTcount: A:0.22, C:0.22, G:0.24, T:0.32
Consensus pattern (29 bp):
CTGGTGGCTATGCCACAAAATATCTGTAT
Found at i:69205535 original size:29 final size:28
Alignment explanation
Indices: 69205474--69205535 Score: 70
Period size: 28 Copynumber: 2.2 Consensus size: 28
69205464 GGTGGCTATG
* * *
69205474 CCACAAATTATCTGTTCTGGTGGCACTG
1 CCACAAAATATCTGTTCTGGTGACACTA
*
69205502 CCACAAAATATCTGTATCTGGTGACTCTA
1 CCACAAAATATCTGT-TCTGGTGACACTA
*
69205531 TCACA
1 CCACA
69205536 TTTTCTGTAT
Statistics
Matches: 28, Mismatches: 5, Indels: 1
0.82 0.15 0.03
Matches are distributed among these distances:
28 14 0.50
29 14 0.50
ACGTcount: A:0.27, C:0.26, G:0.16, T:0.31
Consensus pattern (28 bp):
CCACAAAATATCTGTTCTGGTGACACTA
Found at i:69206010 original size:19 final size:19
Alignment explanation
Indices: 69205986--69206024 Score: 51
Period size: 19 Copynumber: 2.1 Consensus size: 19
69205976 TTTTAATTAT
* *
69205986 TTTTATGGTTTTGTTTTAC
1 TTTTATGATTTTATTTTAC
*
69206005 TTTTATTATTTTATTTTAC
1 TTTTATGATTTTATTTTAC
69206024 T
1 T
69206025 ATGATGAAAA
Statistics
Matches: 17, Mismatches: 3, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
19 17 1.00
ACGTcount: A:0.15, C:0.05, G:0.08, T:0.72
Consensus pattern (19 bp):
TTTTATGATTTTATTTTAC
Found at i:69211879 original size:21 final size:21
Alignment explanation
Indices: 69211853--69211894 Score: 84
Period size: 21 Copynumber: 2.0 Consensus size: 21
69211843 GATGATAAAA
69211853 GAAATCATCTTATTTTATGTG
1 GAAATCATCTTATTTTATGTG
69211874 GAAATCATCTTATTTTATGTG
1 GAAATCATCTTATTTTATGTG
69211895 ATCTTAAACC
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
21 21 1.00
ACGTcount: A:0.29, C:0.10, G:0.14, T:0.48
Consensus pattern (21 bp):
GAAATCATCTTATTTTATGTG
Found at i:69212203 original size:20 final size:20
Alignment explanation
Indices: 69212178--69212222 Score: 63
Period size: 20 Copynumber: 2.2 Consensus size: 20
69212168 TGGGACTAAA
* *
69212178 ATGAAAAGTTGTAAAATTTG
1 ATGAAAAATTATAAAATTTG
*
69212198 ATGAAAAATTATAAAATTTT
1 ATGAAAAATTATAAAATTTG
69212218 ATGAA
1 ATGAA
69212223 TACATGTGCT
Statistics
Matches: 22, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
20 22 1.00
ACGTcount: A:0.51, C:0.00, G:0.13, T:0.36
Consensus pattern (20 bp):
ATGAAAAATTATAAAATTTG
Found at i:69214639 original size:25 final size:25
Alignment explanation
Indices: 69214605--69214656 Score: 95
Period size: 25 Copynumber: 2.1 Consensus size: 25
69214595 ATGGTTTACA
69214605 TAGTACCTGAGAGCAAACCCTACTG
1 TAGTACCTGAGAGCAAACCCTACTG
*
69214630 TAGTACCTGAGAGCAAACCCTGCTG
1 TAGTACCTGAGAGCAAACCCTACTG
69214655 TA
1 TA
69214657 CAACGACCTC
Statistics
Matches: 26, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
25 26 1.00
ACGTcount: A:0.31, C:0.27, G:0.21, T:0.21
Consensus pattern (25 bp):
TAGTACCTGAGAGCAAACCCTACTG
Found at i:69222718 original size:37 final size:37
Alignment explanation
Indices: 69222668--69222746 Score: 115
Period size: 37 Copynumber: 2.1 Consensus size: 37
69222658 TTATTACGAA
* *
69222668 GTCTTACCCGGACATAA-TCTCCACACGAAGTTATCGG
1 GTCTTACCCGGACAAAATTC-CCACACGAAGTCATCGG
*
69222705 GTCTTACCCGGACAAAATTCCCACACGTAGTCATCGG
1 GTCTTACCCGGACAAAATTCCCACACGAAGTCATCGG
69222742 GTCTT
1 GTCTT
69222747 TAGAGCTCGG
Statistics
Matches: 38, Mismatches: 3, Indels: 2
0.88 0.07 0.05
Matches are distributed among these distances:
37 36 0.95
38 2 0.05
ACGTcount: A:0.25, C:0.30, G:0.19, T:0.25
Consensus pattern (37 bp):
GTCTTACCCGGACAAAATTCCCACACGAAGTCATCGG
Found at i:69222952 original size:47 final size:47
Alignment explanation
Indices: 69222865--69223888 Score: 1724
Period size: 47 Copynumber: 21.4 Consensus size: 47
69222855 CCCTTCGGGA
* * * * * * * *
69222865 CTTATCACATTTATGCACTTTCACATCCGTCACGTTGGCCACTCGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
* *
69222912 CCTGTCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
69222959 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
*
69223006 CTTATCCCATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
*
69223053 CTTATCACATATATACACTTTCACATTCATCACATCGGCTATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
* *
69223100 CTTATCACATATATACACTTTCACATTCATTACATCGGCTATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
69223147 CTTATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCAC--ATATATACACTTTCACATTCATCACATCGGCCATTAGGC
69223196 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
*
69223243 CTTATCACATATATACACTTTCACATTCATCACATCGGCGATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
*
69223290 CTTATCACATATATACACTTTCACATTCATCACATCGGCTATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
69223337 CTTATCACATATATACACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATAT--ACACTTTCACATTCATCACATCGGCCATTAGGC
69223386 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
*
69223433 CTTATCACATATATACACTTTCACATTCATCACATCGGCTATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
69223480 CTTATCACATATATACACACTTATACACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCAC----AT----A--TAT--ACACTTTCACATTCATCACATCGGCCATTAGGC
69223539 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
*
69223586 CTTATCACATATTTACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
69223633 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
69223680 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
69223727 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
69223774 CTTATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCAC--ATATATACACTTTCACATTCATCACATCGGCCATTAGGC
69223823 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
69223870 CTTATCACATATATACACT
1 CTTATCACATATATACACT
69223889 GTCTTGGCTG
Statistics
Matches: 934, Mismatches: 25, Indels: 36
0.94 0.03 0.04
Matches are distributed among these distances:
47 744 0.80
49 141 0.15
51 3 0.00
55 3 0.00
57 3 0.00
59 40 0.04
ACGTcount: A:0.29, C:0.29, G:0.09, T:0.32
Consensus pattern (47 bp):
CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
Found at i:69223234 original size:190 final size:188
Alignment explanation
Indices: 69222865--69223888 Score: 1724
Period size: 190 Copynumber: 5.4 Consensus size: 188
69222855 CCCTTCGGGA
* * * * * * * * * *
69222865 CTTATCACATTTATGCACTTTCACATCCGTCACGTTGGCCACTCGGCCCTGTCACATATATACAC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATACAC
69222930 TTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATACACTTTCACATTCATCACATC
66 TTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATACACTTTCACATTCATCACATC
*
69222995 GGCCATTAGGCCTTATCCCATATATACACTTTCACATTCATCACATCGGCCATTAGGC
131 GGCCATTAGGCCTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
*
69223053 CTTATCACATATATACACTTTCACATTCATCACATCGGCTATTAGGCCTTATCACATATATACAC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATACAC
* *
69223118 TTTCACATTCATTACATCGGCTATTAGGCCTTATCACATATATATACACTTTCACATTCATCACA
66 TTTCACATTCATCACATCGGCCATTAGGCCTTATCAC--ATATATACACTTTCACATTCATCACA
69223183 TCGGCCATTAGGCCTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
129 TCGGCCATTAGGCCTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
*
69223243 CTTATCACATATATACACTTTCACATTCATCACATCGGCGATTAGGCCTTATCACATATATACAC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATACAC
*
69223308 TTTCACATTCATCACATCGGCTATTAGGCCTTATCACATATATACACACTTTCACATTCATCACA
66 TTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATAT--ACACTTTCACATTCATCACA
69223373 TCGGCCATTAGGCCTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
129 TCGGCCATTAGGCCTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
*
69223433 CTTATCACATATATACACTTTCACATTCATCACATCGGCTATTAGGCCTTATCACATATATACAC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCAC----AT----
69223498 ACTTATACACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATACACTTTCAC
58 A--TAT--ACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATACACTTTCAC
*
69223563 ATTCATCACATCGGCCATTAGGCCTTATCACATATTTACACTTTCACATTCATCACATCGGCCAT
119 ATTCATCACATCGGCCATTAGGCCTTATCACATATATACACTTTCACATTCATCACATCGGCCAT
69223628 TAGGC
184 TAGGC
69223633 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATACAC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATACAC
69223698 TTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATACACTTTCACATTCATCACATC
66 TTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATACACTTTCACATTCATCACATC
69223763 GGCCATTAGGCCTTATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGC
131 GGCCATTAGGCCTTATCAC--ATATATACACTTTCACATTCATCACATCGGCCATTAGGC
69223823 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATACAC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATACAC
69223888 T
66 T
69223889 GTCTTGGCTG
Statistics
Matches: 797, Mismatches: 21, Indels: 34
0.94 0.02 0.04
Matches are distributed among these distances:
188 183 0.23
190 426 0.53
192 1 0.00
194 2 0.00
196 2 0.00
198 1 0.00
200 136 0.17
202 46 0.06
ACGTcount: A:0.29, C:0.29, G:0.09, T:0.32
Consensus pattern (188 bp):
CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATACAC
TTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATACACTTTCACATTCATCACATC
GGCCATTAGGCCTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
Found at i:69226875 original size:9 final size:9
Alignment explanation
Indices: 69226861--69226885 Score: 50
Period size: 9 Copynumber: 2.8 Consensus size: 9
69226851 ACTGGGCTGG
69226861 AATGGGCTA
1 AATGGGCTA
69226870 AATGGGCTA
1 AATGGGCTA
69226879 AATGGGC
1 AATGGGC
69226886 CTGACAAGTC
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
9 16 1.00
ACGTcount: A:0.32, C:0.12, G:0.36, T:0.20
Consensus pattern (9 bp):
AATGGGCTA
Found at i:69227045 original size:28 final size:29
Alignment explanation
Indices: 69226987--69227052 Score: 98
Period size: 28 Copynumber: 2.3 Consensus size: 29
69226977 GGGCCGGATA
** *
69226987 GGCCATATGAATGTTATTTGGGCCTATTG
1 GGCCATATGAATGAGATTTGGGCCTAGTG
69227016 GGCCATATGAATGAGA-TTGGGCCTAGTG
1 GGCCATATGAATGAGATTTGGGCCTAGTG
69227044 GGCCATATG
1 GGCCATATG
69227053 CATGTATGTA
Statistics
Matches: 34, Mismatches: 3, Indels: 1
0.89 0.08 0.03
Matches are distributed among these distances:
28 20 0.59
29 14 0.41
ACGTcount: A:0.23, C:0.15, G:0.32, T:0.30
Consensus pattern (29 bp):
GGCCATATGAATGAGATTTGGGCCTAGTG
Found at i:69232340 original size:33 final size:31
Alignment explanation
Indices: 69232303--69232415 Score: 113
Period size: 33 Copynumber: 3.5 Consensus size: 31
69232293 TACCTAAAAG
69232303 GTACAATTGGAAAAGGAAATGTACACTGTGTGT
1 GTACAATT-GAAAAGGAAATGTACACT-TGTGT
**
69232336 GTACAACTT-AAAGAGGAAACATACACTTTGTGT
1 GTACAA-TTGAAA-AGGAAATGTACAC-TTGTGT
*
69232369 GTACACTTGAAAAGGAAATGTATGC-CTTGTGT
1 GTACAATTGAAAAGGAAATGTA--CACTTGTGT
69232401 GTACAATGTGAAAAG
1 GTACAAT-TGAAAAG
69232416 TGGTAGCTTC
Statistics
Matches: 67, Mismatches: 6, Indels: 14
0.77 0.07 0.16
Matches are distributed among these distances:
32 25 0.37
33 38 0.57
34 4 0.06
ACGTcount: A:0.37, C:0.12, G:0.24, T:0.27
Consensus pattern (31 bp):
GTACAATTGAAAAGGAAATGTACACTTGTGT
Found at i:69232445 original size:31 final size:31
Alignment explanation
Indices: 69232408--69232588 Score: 170
Period size: 31 Copynumber: 5.8 Consensus size: 31
69232398 TGTGTACAAT
*
69232408 GTGAAAAGTGGTAGCTTCAACTACCTGATCA
1 GTGAAAAGTGGTAGCTTCAGCTACCTGATCA
*
69232439 GTGAAAAGTGGTAGCTTCAGCTACCTAATCA
1 GTGAAAAGTGGTAGCTTCAGCTACCTGATCA
* * * *
69232470 GTGAAAAGTAGTAGCTTCGGCTACTTGATTA
1 GTGAAAAGTGGTAGCTTCAGCTACCTGATCA
* *
69232501 GTGAAAAATGGTAGC-TCTAGGTACCTGAGT-A
1 GTGAAAAGTGGTAGCTTC-AGCTACCTGA-TCA
* ** *
69232532 GTGAATAGTGGTAGCTTTGGCTACAAGTGA-CAA
1 GTGAAAAGTGGTAGCTTCAGCTAC--CTGATC-A
* *
69232565 GTGATAAGTGGTAGCTTTAGCTAC
1 GTGAAAAGTGGTAGCTTCAGCTAC
69232589 ACTTATCTGA
Statistics
Matches: 122, Mismatches: 21, Indels: 12
0.79 0.14 0.08
Matches are distributed among these distances:
30 2 0.02
31 93 0.76
32 2 0.02
33 25 0.20
ACGTcount: A:0.30, C:0.15, G:0.27, T:0.28
Consensus pattern (31 bp):
GTGAAAAGTGGTAGCTTCAGCTACCTGATCA
Found at i:69232676 original size:27 final size:27
Alignment explanation
Indices: 69232645--69232696 Score: 86
Period size: 27 Copynumber: 1.9 Consensus size: 27
69232635 TAGTTGAACT
*
69232645 ATGGCAAAGTGATAAAGTTTGCCAATA
1 ATGGCAAAGTGATAAAGTGTGCCAATA
*
69232672 ATGGCAAAGTGATATAGTGTGCCAA
1 ATGGCAAAGTGATAAAGTGTGCCAA
69232697 ACATAGCAAA
Statistics
Matches: 23, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
27 23 1.00
ACGTcount: A:0.38, C:0.12, G:0.25, T:0.25
Consensus pattern (27 bp):
ATGGCAAAGTGATAAAGTGTGCCAATA
Found at i:69232705 original size:27 final size:27
Alignment explanation
Indices: 69232648--69232706 Score: 75
Period size: 27 Copynumber: 2.2 Consensus size: 27
69232638 TTGAACTATG
* *
69232648 GCAAAGTGATAAAGTTTGCCAATAATG
1 GCAAAGTGATAAAGTGTGCCAATAATA
*
69232675 GCAAAGTGATATAGTGTGCCAA-ACATA
1 GCAAAGTGATAAAGTGTGCCAATA-ATA
69232702 GCAAA
1 GCAAA
69232707 ATGTTTAGTG
Statistics
Matches: 28, Mismatches: 3, Indels: 2
0.85 0.09 0.06
Matches are distributed among these distances:
26 1 0.04
27 27 0.96
ACGTcount: A:0.42, C:0.14, G:0.22, T:0.22
Consensus pattern (27 bp):
GCAAAGTGATAAAGTGTGCCAATAATA
Found at i:69232836 original size:34 final size:34
Alignment explanation
Indices: 69232764--69232837 Score: 94
Period size: 34 Copynumber: 2.2 Consensus size: 34
69232754 CATGGCAAAG
* *
69232764 TGTGAAACGTAGGTATGGTATTTCCATACCGAGC
1 TGTGAAACATAGGTATGGTATTTCCATACCAAGC
* * * *
69232798 TGTGAAATATAGGTATGGTGTTTCCATACTAAGT
1 TGTGAAACATAGGTATGGTATTTCCATACCAAGC
69232832 TGTGAA
1 TGTGAA
69232838 TCCTGGCACT
Statistics
Matches: 34, Mismatches: 6, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
34 34 1.00
ACGTcount: A:0.28, C:0.12, G:0.26, T:0.34
Consensus pattern (34 bp):
TGTGAAACATAGGTATGGTATTTCCATACCAAGC
Found at i:69237495 original size:16 final size:16
Alignment explanation
Indices: 69237472--69237544 Score: 55
Period size: 16 Copynumber: 4.6 Consensus size: 16
69237462 GGCCAATGTG
69237472 ATGAATGTGAAAGTGT
1 ATGAATGTGAAAGTGT
*
69237488 ATGTATGTGATAAG-G-
1 ATGAATGTGA-AAGTGT
* *
69237503 CTGAATG-GCCAA-TGT
1 ATGAATGTG-AAAGTGT
69237518 GATGAATGTGAAAGTGT
1 -ATGAATGTGAAAGTGT
*
69237535 ATGTATGTGA
1 ATGAATGTGA
69237545 TAAGGCCGAA
Statistics
Matches: 43, Mismatches: 7, Indels: 14
0.67 0.11 0.22
Matches are distributed among these distances:
14 4 0.09
15 5 0.12
16 27 0.63
17 7 0.16
ACGTcount: A:0.33, C:0.04, G:0.32, T:0.32
Consensus pattern (16 bp):
ATGAATGTGAAAGTGT
Found at i:69237495 original size:25 final size:25
Alignment explanation
Indices: 69237467--69237545 Score: 78
Period size: 25 Copynumber: 3.3 Consensus size: 25
69237457 CGAATGGCCA
69237467 ATGTGATGAATGTGAAAGTGTATGT
1 ATGTGATGAATGTGAAAGTGTATGT
* * *
69237492 ATGTGAT-AAGGCTGAATG-GCCA---
1 ATGTGATGAATG-TGAAAGTG-TATGT
69237514 ATGTGATGAATGTGAAAGTGTATGT
1 ATGTGATGAATGTGAAAGTGTATGT
69237539 ATGTGAT
1 ATGTGAT
69237546 AAGGCCGAAT
Statistics
Matches: 41, Mismatches: 6, Indels: 14
0.67 0.10 0.23
Matches are distributed among these distances:
22 13 0.32
23 4 0.10
24 4 0.10
25 20 0.49
ACGTcount: A:0.32, C:0.04, G:0.32, T:0.33
Consensus pattern (25 bp):
ATGTGATGAATGTGAAAGTGTATGT
Found at i:69237513 original size:47 final size:47
Alignment explanation
Indices: 69237422--69237821 Score: 660
Period size: 47 Copynumber: 8.4 Consensus size: 47
69237412 ATTTTGTTAC
69237422 GATGAATGTGAAAGTGTATGTATATGTGATAAGGCCGAATGGCCAATGT
1 GATGAATGTGAAAGTGTATG--TATGTGATAAGGCCGAATGGCCAATGT
*
69237471 GATGAATGTGAAAGTGTATGTATGTGATAAGGCTGAATGGCCAATGT
1 GATGAATGTGAAAGTGTATGTATGTGATAAGGCCGAATGGCCAATGT
69237518 GATGAATGTGAAAGTGTATGTATGTGATAAGGCCGAATGGCCAATGT
1 GATGAATGTGAAAGTGTATGTATGTGATAAGGCCGAATGGCCAATGT
69237565 GATGAATGTGAAAGTGTATGTATATGTGATAAGGCCGAATGGCCAATGT
1 GATGAATGTGAAAGTGTATG--TATGTGATAAGGCCGAATGGCCAATGT
69237614 GATGAATGTGAAAGTGTATGTATATGTGATAAGGCC-AATGGCCAATGT
1 GATGAATGTGAAAGTGTATG--TATGTGATAAGGCCGAATGGCCAATGT
69237662 GATGAATGTGAAAGTGTATGTATGTGATAAGGCCGAATGGCCAATGT
1 GATGAATGTGAAAGTGTATGTATGTGATAAGGCCGAATGGCCAATGT
69237709 GATGAATGTGAAAGTGTATGTATGTGATAAGGCCGAATGGCCAATGT
1 GATGAATGTGAAAGTGTATGTATGTGATAAGGCCGAATGGCCAATGT
* * * * *
69237756 GATGAATGTGAAAGTATATATATATGATAAGGCCGAATGGTCAATGG
1 GATGAATGTGAAAGTGTATGTATGTGATAAGGCCGAATGGCCAATGT
*
69237803 GATGGAA-GTGGAAGTGTAT
1 GAT-GAATGTGAAAGTGTAT
69237822 AACTGTGATA
Statistics
Matches: 338, Mismatches: 9, Indels: 10
0.95 0.03 0.03
Matches are distributed among these distances:
46 14 0.04
47 206 0.61
48 35 0.10
49 83 0.25
ACGTcount: A:0.33, C:0.07, G:0.31, T:0.28
Consensus pattern (47 bp):
GATGAATGTGAAAGTGTATGTATGTGATAAGGCCGAATGGCCAATGT
Found at i:69237686 original size:25 final size:25
Alignment explanation
Indices: 69237658--69237736 Score: 69
Period size: 25 Copynumber: 3.3 Consensus size: 25
69237648 CCAATGGCCA
69237658 ATGTGATGAATGTGAAAGTGTATGT
1 ATGTGATGAATGTGAAAGTGTATGT
* * * *
69237683 ATGTGAT-AAGGCCGAATG-GCCA---
1 ATGTGATGAATG-TGAAAGTG-TATGT
69237705 ATGTGATGAATGTGAAAGTGTATGT
1 ATGTGATGAATGTGAAAGTGTATGT
69237730 ATGTGAT
1 ATGTGAT
69237737 AAGGCCGAAT
Statistics
Matches: 39, Mismatches: 8, Indels: 14
0.64 0.13 0.23
Matches are distributed among these distances:
22 12 0.31
23 4 0.10
24 4 0.10
25 19 0.49
ACGTcount: A:0.32, C:0.05, G:0.32, T:0.32
Consensus pattern (25 bp):
ATGTGATGAATGTGAAAGTGTATGT
Found at i:69237747 original size:191 final size:190
Alignment explanation
Indices: 69237422--69237821 Score: 705
Period size: 191 Copynumber: 2.1 Consensus size: 190
69237412 ATTTTGTTAC
69237422 GATGAATGTGAAAGTGTATGTATATGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAAAGTG
1 GATGAATGTGAAAGTGTATGTATATGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAAAGTG
*
69237487 TATGTATGTGATAAGGCTGAATGGCCAATGTGATGAATGTGAAAGTGTATGTATGTGATAAGGCC
66 TATGTATGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAAAGTGTATGTATGTGATAAGGCC
* * *
69237552 GAATGGCCAATGTGATGAATGTGAAAGTGTATGTATATGTGATAAGGCCGAATGGCCAATGT
131 GAATGGCCAATGTGATGAATGTGAAA--GTATATATATATGATAAGGCCGAATGGCCAATGG
69237614 GATGAATGTGAAAGTGTATGTATATGTGATAAGGCC-AATGGCCAATGTGATGAATGTGAAAGTG
1 GATGAATGTGAAAGTGTATGTATATGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAAAGTG
69237678 TATGTATGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAAAGTGTATGTATGTGATAAGGCC
66 TATGTATGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAAAGTGTATGTATGTGATAAGGCC
*
69237743 GAATGGCCAATGTGATGAATGTGAAAGTATATATATATGATAAGGCCGAATGGTCAATGG
131 GAATGGCCAATGTGATGAATGTGAAAGTATATATATATGATAAGGCCGAATGGCCAATGG
*
69237803 GATGGAA-GTGGAAGTGTAT
1 GAT-GAATGTGAAAGTGTAT
69237822 AACTGTGATA
Statistics
Matches: 201, Mismatches: 6, Indels: 5
0.95 0.03 0.02
Matches are distributed among these distances:
189 44 0.22
190 3 0.01
191 118 0.59
192 36 0.18
ACGTcount: A:0.33, C:0.07, G:0.31, T:0.28
Consensus pattern (190 bp):
GATGAATGTGAAAGTGTATGTATATGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAAAGTG
TATGTATGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAAAGTGTATGTATGTGATAAGGCC
GAATGGCCAATGTGATGAATGTGAAAGTATATATATATGATAAGGCCGAATGGCCAATGG
Found at i:69239121 original size:29 final size:29
Alignment explanation
Indices: 69239079--69239140 Score: 83
Period size: 29 Copynumber: 2.2 Consensus size: 29
69239069 ACATGGCTTG
69239079 GAAT-TGATTCGGG-CTAGATGGACCATAT
1 GAATGTGATTCGGGCCTA-ATGGACCATAT
* *
69239107 GAATGTGATTTGGGCCTAATGGGCCATAT
1 GAATGTGATTCGGGCCTAATGGACCATAT
69239136 GAATG
1 GAATG
69239141 AAATTGGACC
Statistics
Matches: 30, Mismatches: 2, Indels: 3
0.86 0.06 0.09
Matches are distributed among these distances:
28 4 0.13
29 23 0.77
30 3 0.10
ACGTcount: A:0.27, C:0.13, G:0.31, T:0.29
Consensus pattern (29 bp):
GAATGTGATTCGGGCCTAATGGACCATAT
Found at i:69239157 original size:28 final size:29
Alignment explanation
Indices: 69239092--69239170 Score: 88
Period size: 28 Copynumber: 2.7 Consensus size: 29
69239082 TTGATTCGGG
* * * *
69239092 CTAGATGGACCATATGAATGTGATTTGGGC
1 CTAG-TGGGCCATATGAATGTAAATTGGAC
*
69239122 CTAATGGGCCATATGAATG-AAATTGGAC
1 CTAGTGGGCCATATGAATGTAAATTGGAC
*
69239150 CTAGTGGGCCATATGCATGTA
1 CTAGTGGGCCATATGAATGTA
69239171 TGTAACACCC
Statistics
Matches: 41, Mismatches: 7, Indels: 3
0.80 0.14 0.06
Matches are distributed among these distances:
28 23 0.56
29 15 0.37
30 3 0.07
ACGTcount: A:0.29, C:0.15, G:0.28, T:0.28
Consensus pattern (29 bp):
CTAGTGGGCCATATGAATGTAAATTGGAC
Found at i:69243099 original size:27 final size:27
Alignment explanation
Indices: 69243068--69243400 Score: 152
Period size: 27 Copynumber: 12.6 Consensus size: 27
69243058 TTAGTTTACC
* *
69243068 AAATTACTAAAATACCCTCGACTTGTA
1 AAATTACCAAAATACCCTCGATTTGTA
* *
69243095 AAATTACCAAAGTAACCC-CGATTTATA
1 AAATTACCAAAAT-ACCCTCGATTTGTA
* *
69243122 AAATTACCCAAATATCCTCGATTTGTA
1 AAATTACCAAAATACCCTCGATTTGTA
*** *
69243149 AAATTATTGAAATA----AGA----TA
1 AAATTACCAAAATACCCTCGATTTGTA
* *** **
69243168 GAATT-CGCATTTTACCCTCGATTTACA
1 AAATTAC-CAAAATACCCTCGATTTGTA
* *** *
69243195 GAATTACCATTTTACCCTCGATTTATA
1 AAATTACCAAAATACCCTCGATTTGTA
* * * **
69243222 AAATTACTAAAATACCCTTGGTTTACA
1 AAATTACCAAAATACCCTCGATTTGTA
* ***
69243249 AAATTACCCAAATACCCTCGATCAATA
1 AAATTACCAAAATACCCTCGATTTGTA
* *
69243276 AAATTACCAAAATACCC-CTGGTTTATA
1 AAATTACCAAAATACCCTC-GATTTGTA
* * * *
69243303 AAATTACTAAAATACCCTTGGTTTATA
1 AAATTACCAAAATACCCTCGATTTGTA
* *
69243330 AAATTACCAAAATACCC-CTAGTTTATA
1 AAATTACCAAAATACCCTCGA-TTTGTA
* * *
69243357 AAATTACAAAAATACCC-CTAATTTGTG
1 AAATTACCAAAATACCCTC-GATTTGTA
*
69243384 AAATTACCGAAATACCC
1 AAATTACCAAAATACCC
69243401 CTATAGGGTA
Statistics
Matches: 237, Mismatches: 53, Indels: 32
0.74 0.16 0.10
Matches are distributed among these distances:
19 8 0.03
23 4 0.02
26 4 0.02
27 215 0.91
28 6 0.03
ACGTcount: A:0.41, C:0.21, G:0.07, T:0.31
Consensus pattern (27 bp):
AAATTACCAAAATACCCTCGATTTGTA
Found at i:69243265 original size:54 final size:54
Alignment explanation
Indices: 69243207--69243402 Score: 241
Period size: 54 Copynumber: 3.6 Consensus size: 54
69243197 ATTACCATTT
* * * **
69243207 TACCCTCGATTTATAAAATTACTAAAATACCCTTGGTTTACAAAATTACCCAAA
1 TACCCTCGATTTATAAAATTACCAAAATACCCCTGGTTTATAAAATTACAAAAA
** *
69243261 TACCCTCGATCAATAAAATTACCAAAATACCCCTGGTTTATAAAATTACTAAAA
1 TACCCTCGATTTATAAAATTACCAAAATACCCCTGGTTTATAAAATTACAAAAA
* * *
69243315 TACCCTTGGTTTATAAAATTACCAAAATACCCCTAGTTTATAAAATTACAAAAA
1 TACCCTCGATTTATAAAATTACCAAAATACCCCTGGTTTATAAAATTACAAAAA
* * * *
69243369 TACCC-CTAATTTGTGAAATTACCGAAATACCCCT
1 TACCCTC-GATTTATAAAATTACCAAAATACCCCT
69243403 ATAGGGTAGA
Statistics
Matches: 122, Mismatches: 19, Indels: 2
0.85 0.13 0.01
Matches are distributed among these distances:
54 122 1.00
ACGTcount: A:0.41, C:0.22, G:0.06, T:0.30
Consensus pattern (54 bp):
TACCCTCGATTTATAAAATTACCAAAATACCCCTGGTTTATAAAATTACAAAAA
Found at i:69243283 original size:81 final size:81
Alignment explanation
Indices: 69243209--69243400 Score: 251
Period size: 81 Copynumber: 2.4 Consensus size: 81
69243199 TACCATTTTA
*
69243209 CCCTCGATTTATAAAATTACTAAAATACCCTTGGTTTACAAAATTACCCAAATACCCTCGATCAA
1 CCCT-GATTTATAAAATTACTAAAATACCCTTGGTTTACAAAATTACCAAAATACCCTCGATCAA
69243274 TAAAATTACCAAAATAC
65 TAAAATTACCAAAATAC
* * * **
69243291 CCCTGGTTTATAAAATTACTAAAATACCCTTGGTTTATAAAATTACCAAAATACCC-CTAGTTTA
1 CCCTGATTTATAAAATTACTAAAATACCCTTGGTTTACAAAATTACCAAAATACCCTCGA-TCAA
*
69243355 TAAAATTACAAAAATAC
65 TAAAATTACCAAAATAC
* * * **
69243372 CCCTAATTTGTGAAATTACCGAAATACCC
1 CCCTGATTTATAAAATTACTAAAATACCC
69243401 CTATAGGGTA
Statistics
Matches: 96, Mismatches: 13, Indels: 3
0.86 0.12 0.03
Matches are distributed among these distances:
80 2 0.02
81 90 0.94
82 4 0.04
ACGTcount: A:0.42, C:0.22, G:0.06, T:0.30
Consensus pattern (81 bp):
CCCTGATTTATAAAATTACTAAAATACCCTTGGTTTACAAAATTACCAAAATACCCTCGATCAAT
AAAATTACCAAAATAC
Found at i:69243401 original size:27 final size:27
Alignment explanation
Indices: 69243216--69243403 Score: 207
Period size: 27 Copynumber: 7.0 Consensus size: 27
69243206 TTACCCTCGA
* * *
69243216 TTTATAAAATTACTAAAATACCCTTGG
1 TTTATAAAATTACCAAAATACCCCTAG
* * *
69243243 TTTACAAAATTACCCAAATA-CCCTCG
1 TTTATAAAATTACCAAAATACCCCTAG
** *
69243269 ATCAATAAAATTACCAAAATACCCCTGG
1 -TTTATAAAATTACCAAAATACCCCTAG
* * *
69243297 TTTATAAAATTACTAAAATACCCTTGG
1 TTTATAAAATTACCAAAATACCCCTAG
69243324 TTTATAAAATTACCAAAATACCCCTAG
1 TTTATAAAATTACCAAAATACCCCTAG
* *
69243351 TTTATAAAATTACAAAAATACCCCTAA
1 TTTATAAAATTACCAAAATACCCCTAG
* * *
69243378 TTTGTGAAATTACCGAAATACCCCTA
1 TTTATAAAATTACCAAAATACCCCTA
69243404 TAGGGTAGAA
Statistics
Matches: 136, Mismatches: 23, Indels: 4
0.83 0.14 0.02
Matches are distributed among these distances:
26 4 0.03
27 127 0.93
28 5 0.04
ACGTcount: A:0.43, C:0.21, G:0.06, T:0.30
Consensus pattern (27 bp):
TTTATAAAATTACCAAAATACCCCTAG
Found at i:69243415 original size:27 final size:27
Alignment explanation
Indices: 69243385--69243549 Score: 212
Period size: 27 Copynumber: 6.3 Consensus size: 27
69243375 TAATTTGTGA
*
69243385 AATTACCGAAATACCCCTATAGGGTAG
1 AATTACCGAAATACCCCTGTAGGGTAG
*
69243412 AATTACCGGAATA-CCCTGTAGGGTAG
1 AATTACCGAAATACCCCTGTAGGGTAG
*
69243438 AATTACCGAAATACCCCTTTAGGGTAG
1 AATTACCGAAATACCCCTGTAGGGTAG
69243465 AATTACCGAAATACCCCTGTAGGGTAG
1 AATTACCGAAATACCCCTGTAGGGTAG
* * *
69243492 AATTACCAAAATA-CCCTGTAGGATGG
1 AATTACCGAAATACCCCTGTAGGGTAG
* * * *
69243518 AATTA-CGAGATA-CCTTGTAGGGAAA
1 AATTACCGAAATACCCCTGTAGGGTAG
69243543 AATTACC
1 AATTACC
69243550 ATTTTGCCCC
Statistics
Matches: 121, Mismatches: 15, Indels: 5
0.86 0.11 0.04
Matches are distributed among these distances:
25 18 0.15
26 41 0.34
27 62 0.51
ACGTcount: A:0.36, C:0.20, G:0.21, T:0.24
Consensus pattern (27 bp):
AATTACCGAAATACCCCTGTAGGGTAG
Found at i:69243461 original size:53 final size:53
Alignment explanation
Indices: 69243385--69243549 Score: 210
Period size: 53 Copynumber: 3.1 Consensus size: 53
69243375 TAATTTGTGA
69243385 AATTACCGAAATACCCCTATAGGGTAGAATTACCGGAATACCCTGTAGGGTAG
1 AATTACCGAAATACCCCTATAGGGTAGAATTACCGGAATACCCTGTAGGGTAG
* *
69243438 AATTACCGAAATACCCCTTTAGGGTAGAATTACCGAAATACCCCTGTAGGGTAG
1 AATTACCGAAATACCCCTATAGGGTAGAATTACCGGAATA-CCCTGTAGGGTAG
* * * * * * *
69243492 AATTACCAAAATA-CCCTGTAGGATGGAATTA-C-GAGATACCTTGTAGGGAAA
1 AATTACCGAAATACCCCTATAGGGTAGAATTACCGGA-ATACCCTGTAGGGTAG
69243543 AATTACC
1 AATTACC
69243550 ATTTTGCCCC
Statistics
Matches: 100, Mismatches: 10, Indels: 6
0.86 0.09 0.05
Matches are distributed among these distances:
51 18 0.18
52 4 0.04
53 53 0.53
54 25 0.25
ACGTcount: A:0.36, C:0.20, G:0.21, T:0.24
Consensus pattern (53 bp):
AATTACCGAAATACCCCTATAGGGTAGAATTACCGGAATACCCTGTAGGGTAG
Found at i:69243471 original size:80 final size:79
Alignment explanation
Indices: 69243385--69243531 Score: 231
Period size: 80 Copynumber: 1.8 Consensus size: 79
69243375 TAATTTGTGA
** *
69243385 AATTACCGAAATACCCCTATAGGGTAGAATTACCGGAATACCCTGTAGGGTAGAATTACCGAAAT
1 AATTACCGAAATACCCCTATAGGGTAGAATTACCAAAATACCCTGTAGGATAGAATTA-CGAAAT
69243450 ACCCCTTTAGGGTAG
65 ACCCCTTTAGGGTAG
* * *
69243465 AATTACCGAAATACCCCTGTAGGGTAGAATTACCAAAATACCCTGTAGGATGGAATTACGAGATA
1 AATTACCGAAATACCCCTATAGGGTAGAATTACCAAAATACCCTGTAGGATAGAATTACGAAATA
69243530 CC
66 CC
69243532 TTGTAGGGAA
Statistics
Matches: 61, Mismatches: 6, Indels: 1
0.90 0.09 0.01
Matches are distributed among these distances:
79 8 0.13
80 53 0.87
ACGTcount: A:0.35, C:0.21, G:0.20, T:0.23
Consensus pattern (79 bp):
AATTACCGAAATACCCCTATAGGGTAGAATTACCAAAATACCCTGTAGGATAGAATTACGAAATA
CCCCTTTAGGGTAG
Found at i:69244028 original size:22 final size:22
Alignment explanation
Indices: 69243976--69244040 Score: 78
Period size: 22 Copynumber: 3.0 Consensus size: 22
69243966 TTAAAGCCTT
* *
69243976 CTGATTATGGCTTTGTGTCAAC
1 CTGATTATGGCTCTGTGCCAAC
*
69243998 CT-ACATATGGCTCTGTGCCAAC
1 CTGA-TTATGGCTCTGTGCCAAC
*
69244020 CTGATTATGGCTGTGTGCCAA
1 CTGATTATGGCTCTGTGCCAA
69244041 ACGTATTTGC
Statistics
Matches: 36, Mismatches: 5, Indels: 4
0.80 0.11 0.09
Matches are distributed among these distances:
21 1 0.03
22 34 0.94
23 1 0.03
ACGTcount: A:0.20, C:0.23, G:0.23, T:0.34
Consensus pattern (22 bp):
CTGATTATGGCTCTGTGCCAAC
Found at i:69244235 original size:26 final size:27
Alignment explanation
Indices: 69244199--69244272 Score: 96
Period size: 27 Copynumber: 2.8 Consensus size: 27
69244189 ATTTTGTTAA
* * *
69244199 GTGGCTTTGCCACATTATCTGT-TTTG
1 GTGGCTCTGCCACAATATCTGTATCTG
69244225 GTGGCTCTGCCACAATATCTGTATCTG
1 GTGGCTCTGCCACAATATCTGTATCTG
* *
69244252 GTGACTCTGTCACAATATCTG
1 GTGGCTCTGCCACAATATCTG
69244273 ATACTGAGCA
Statistics
Matches: 42, Mismatches: 5, Indels: 1
0.88 0.10 0.02
Matches are distributed among these distances:
26 20 0.48
27 22 0.52
ACGTcount: A:0.18, C:0.23, G:0.22, T:0.38
Consensus pattern (27 bp):
GTGGCTCTGCCACAATATCTGTATCTG
Found at i:69244421 original size:6 final size:6
Alignment explanation
Indices: 69244412--69244526 Score: 103
Period size: 6 Copynumber: 18.7 Consensus size: 6
69244402 ATTCACATTT
* *
69244412 TGATTC TGATTC TG-TTACC TGATAC TGATTC TGATTT TGATTC TG-TTACC
1 TGATTC TGATTC TGATT--C TGATTC TGATTC TGATTC TGATTC TGATT--C
* *
69244462 TGATAC TGATTC TGATTC TGATTC TG-TCACC TGATTC TGATTC TGATTC
1 TGATTC TGATTC TGATTC TGATTC TGAT--TC TGATTC TGATTC TGATTC
69244511 TGATTC T-AGTTC TGAT
1 TGATTC TGA-TTC TGAT
69244527 AATGTTTCTT
Statistics
Matches: 90, Mismatches: 8, Indels: 22
0.75 0.07 0.18
Matches are distributed among these distances:
5 6 0.07
6 71 0.79
7 10 0.11
8 3 0.03
ACGTcount: A:0.18, C:0.18, G:0.17, T:0.47
Consensus pattern (6 bp):
TGATTC
Found at i:69244439 original size:19 final size:19
Alignment explanation
Indices: 69244412--69244475 Score: 61
Period size: 19 Copynumber: 3.7 Consensus size: 19
69244402 ATTCACATTT
*
69244412 TGATTCTGATTCTGTTACC
1 TGATACTGATTCTGTTACC
69244431 TGATACTGATTCTG--A--
1 TGATACTGATTCTGTTACC
*
69244446 T--T-TTGATTCTGTTACC
1 TGATACTGATTCTGTTACC
69244462 TGATACTGATTCTG
1 TGATACTGATTCTG
69244476 ATTCTGATTC
Statistics
Matches: 35, Mismatches: 3, Indels: 14
0.67 0.06 0.27
Matches are distributed among these distances:
12 8 0.23
13 1 0.03
14 1 0.03
15 1 0.03
16 1 0.03
17 1 0.03
18 1 0.03
19 21 0.60
ACGTcount: A:0.19, C:0.17, G:0.17, T:0.47
Consensus pattern (19 bp):
TGATACTGATTCTGTTACC
Found at i:69244440 original size:25 final size:25
Alignment explanation
Indices: 69244412--69244506 Score: 88
Period size: 25 Copynumber: 3.6 Consensus size: 25
69244402 ATTCACATTT
69244412 TGATTCTGATTCTGTTACCTGATAC
1 TGATTCTGATTCTGTTACCTGATAC
69244437 TGATTCTGATTTTGATTCTGTTACCTGATAC
1 TGATTC------TGATTCTGTTACCTGATAC
69244468 TGATTCTGATTCTGATT--CTG-TCACC
1 TGATTCTGATTCTG-TTACCTGAT-A-C
69244493 TGATTCTGATTCTG
1 TGATTCTGATTCTG
69244507 ATTCTGATTC
Statistics
Matches: 61, Mismatches: 0, Indels: 18
0.77 0.00 0.23
Matches are distributed among these distances:
23 1 0.02
24 4 0.07
25 29 0.48
26 2 0.03
31 25 0.41
ACGTcount: A:0.18, C:0.19, G:0.17, T:0.46
Consensus pattern (25 bp):
TGATTCTGATTCTGTTACCTGATAC
Found at i:69244453 original size:31 final size:31
Alignment explanation
Indices: 69244412--69244542 Score: 185
Period size: 31 Copynumber: 4.3 Consensus size: 31
69244402 ATTCACATTT
69244412 TGATTCTGATTCTGTTACCTGATACTGATTC
1 TGATTCTGATTCTGTTACCTGATACTGATTC
*
69244443 TGATTTTGATTCTGTTACCTGATACTGATTC
1 TGATTCTGATTCTGTTACCTGATACTGATTC
* *
69244474 TGATTCTGATTCTGTCACCTGATTCTGATTC
1 TGATTCTGATTCTGTTACCTGATACTGATTC
* *
69244505 TGATTCTGATTCTAGTT--CTGATAATGTTTC
1 TGATTCTGATTCT-GTTACCTGATACTGATTC
*
69244535 TTATTCTG
1 TGATTCTG
69244543 TAATGGGTTA
Statistics
Matches: 90, Mismatches: 9, Indels: 3
0.88 0.09 0.03
Matches are distributed among these distances:
30 17 0.19
31 71 0.79
32 2 0.02
ACGTcount: A:0.18, C:0.18, G:0.16, T:0.48
Consensus pattern (31 bp):
TGATTCTGATTCTGTTACCTGATACTGATTC
Found at i:69246440 original size:20 final size:21
Alignment explanation
Indices: 69246414--69246460 Score: 60
Period size: 21 Copynumber: 2.3 Consensus size: 21
69246404 TAGGGACTAA
*
69246414 AATGAAAAGTTAT-AAAATTT
1 AATGAAAAATTATAAAAATTT
* *
69246434 GATGAAAAATTCTAAAAATTT
1 AATGAAAAATTATAAAAATTT
69246455 AATGAA
1 AATGAA
69246461 TACATGTGCT
Statistics
Matches: 22, Mismatches: 4, Indels: 1
0.81 0.15 0.04
Matches are distributed among these distances:
20 10 0.45
21 12 0.55
ACGTcount: A:0.55, C:0.02, G:0.11, T:0.32
Consensus pattern (21 bp):
AATGAAAAATTATAAAAATTT
Found at i:69247127 original size:57 final size:58
Alignment explanation
Indices: 69246992--69247140 Score: 160
Period size: 57 Copynumber: 2.6 Consensus size: 58
69246982 CCATTGACCT
* * * * *
69246992 TGTTATAAAAAGGATTTAG-CTCGGACGGGTAATCCTGATATAATACCTCTCGAGCATA
1 TGTTATATAAAGGATTTAGCCT-GGACTGGTAATCCTAATAGAACACCTCTCGAGCATA
* * * * * *
69247050 CGTTATGAT-TAGGGTTTAGCCTGGACTGGTAATCCTAATCGAGCCCCTCT-GAGCATA
1 TGTTAT-ATAAAGGATTTAGCCTGGACTGGTAATCCTAATAGAACACCTCTCGAGCATA
69247107 TGTTATATAAAGGATTTAGCCTGGACTGGTAATC
1 TGTTATATAAAGGATTTAGCCTGGACTGGTAATC
69247141 GTATTATATG
Statistics
Matches: 74, Mismatches: 14, Indels: 7
0.78 0.15 0.07
Matches are distributed among these distances:
56 2 0.03
57 35 0.47
58 34 0.46
59 3 0.04
ACGTcount: A:0.28, C:0.18, G:0.23, T:0.31
Consensus pattern (58 bp):
TGTTATATAAAGGATTTAGCCTGGACTGGTAATCCTAATAGAACACCTCTCGAGCATA
Found at i:69249355 original size:94 final size:94
Alignment explanation
Indices: 69249248--69249423 Score: 289
Period size: 94 Copynumber: 1.9 Consensus size: 94
69249238 ATTAAATTCT
* * * *
69249248 ATTTTAATTATTATTTATCTAAAACTCTTGTAAATAGTAATTAAATTGTATTTCCTTATTTGATA
1 ATTTTAATTATTATTTATCTAAAACTATTGTAAATAATAATTAAATTCTATTTACTTATTTGATA
* *
69249313 AGCAATATATCAAATCCTTTTGATTTTGA
66 AGAAACATATCAAATCCTTTTGATTTTGA
*
69249342 ATTTTAATTATTATTTATCTAAAACTATTTTAAATAATAATTAAATTCTATTTACTTATTTGATA
1 ATTTTAATTATTATTTATCTAAAACTATTGTAAATAATAATTAAATTCTATTTACTTATTTGATA
69249407 AGAAACATATCAAATCC
66 AGAAACATATCAAATCC
69249424 CCTTTTTATC
Statistics
Matches: 75, Mismatches: 7, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
94 75 1.00
ACGTcount: A:0.39, C:0.10, G:0.05, T:0.47
Consensus pattern (94 bp):
ATTTTAATTATTATTTATCTAAAACTATTGTAAATAATAATTAAATTCTATTTACTTATTTGATA
AGAAACATATCAAATCCTTTTGATTTTGA
Found at i:69251642 original size:41 final size:42
Alignment explanation
Indices: 69251558--69251745 Score: 181
Period size: 41 Copynumber: 4.6 Consensus size: 42
69251548 ACAAATCAAT
* * * * * *
69251558 TATATGTGGTACTTAGTGTGCGA-TTCGACATAGCTT-TAGC
1 TATATATGGCACTTAGTGTGAGAGATCGAGATAGCTTCGAGC
*
69251598 TATACATGGCACTTAGTGTGAGAGATCGAGATAGCTTCGA-C
1 TATATATGGCACTTAGTGTGAGAGATCGAGATAGCTTCGAGC
* *
69251639 TATATATGGCACTTAGTGTGCGAGATCGAGATAGCTT-TAGC
1 TATATATGGCACTTAGTGTGAGAGATCGAGATAGCTTCGAGC
* * * *
69251680 TATATATAGCACTTAGTGTGTGA-TTTGAGATAGCTTC-AGC
1 TATATATGGCACTTAGTGTGAGAGATCGAGATAGCTTCGAGC
* * * *
69251720 TATGTACGACACTTAGTGTGCGAGAT
1 TATATATGGCACTTAGTGTGAGAGAT
69251746 ATCGAGTATT
Statistics
Matches: 123, Mismatches: 20, Indels: 9
0.81 0.13 0.06
Matches are distributed among these distances:
40 52 0.42
41 70 0.57
42 1 0.01
ACGTcount: A:0.27, C:0.15, G:0.26, T:0.33
Consensus pattern (42 bp):
TATATATGGCACTTAGTGTGAGAGATCGAGATAGCTTCGAGC
Found at i:69251657 original size:81 final size:81
Alignment explanation
Indices: 69251558--69251745 Score: 236
Period size: 81 Copynumber: 2.3 Consensus size: 81
69251548 ACAAATCAAT
* * * *
69251558 TATATGTGGTACTTAGTGTGCGA-TTCGACATAGCTTTAGCTATACATGGCACTTAGTGTGAGAG
1 TATATATGGCACTTAGTGTGCGAGATCGACATAGCTTTAGCTATACATAGCACTTAGTGTGAGA-
69251622 ATCGAGATAGCTTC-GAC
65 ATCGAGATAGCTTCAG-C
* * * *
69251639 TATATATGGCACTTAGTGTGCGAGATCGAGATAGCTTTAGCTATATATAGCACTTAGTGTGTGAT
1 TATATATGGCACTTAGTGTGCGAGATCGACATAGCTTTAGCTATACATAGCACTTAGTGTGAGAA
*
69251704 TTGAGATAGCTTCAGC
66 TCGAGATAGCTTCAGC
* * *
69251720 TATGTACGACACTTAGTGTGCGAGAT
1 TATATATGGCACTTAGTGTGCGAGAT
69251746 ATCGAGTATT
Statistics
Matches: 93, Mismatches: 12, Indels: 4
0.85 0.11 0.04
Matches are distributed among these distances:
81 57 0.61
82 36 0.39
ACGTcount: A:0.27, C:0.15, G:0.26, T:0.33
Consensus pattern (81 bp):
TATATATGGCACTTAGTGTGCGAGATCGACATAGCTTTAGCTATACATAGCACTTAGTGTGAGAA
TCGAGATAGCTTCAGC
Found at i:69253518 original size:43 final size:43
Alignment explanation
Indices: 69253415--69253519 Score: 147
Period size: 43 Copynumber: 2.4 Consensus size: 43
69253405 GTTATCTAGA
* *
69253415 TATGATTACATGTAAGACCATGTCTGGGACATTGGCATTGTAT
1 TATGATTACGTGTAAGACCATGTCTGGGACATTGGCATCGTAT
* * * *
69253458 TAAGATGACGTGGAAGACCATGTTTGGGACATTGGCATCGTAT
1 TATGATTACGTGTAAGACCATGTCTGGGACATTGGCATCGTAT
*
69253501 TATGATTTCGTGTAAGACC
1 TATGATTACGTGTAAGACC
69253520 CTTGGTGTGA
Statistics
Matches: 52, Mismatches: 10, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
43 52 1.00
ACGTcount: A:0.28, C:0.14, G:0.26, T:0.32
Consensus pattern (43 bp):
TATGATTACGTGTAAGACCATGTCTGGGACATTGGCATCGTAT
Found at i:69256561 original size:46 final size:46
Alignment explanation
Indices: 69256508--69256683 Score: 162
Period size: 46 Copynumber: 3.8 Consensus size: 46
69256498 TATCTGGGCA
*
69256508 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAATG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAACG
* * * * *
69256554 TCCGAACTCGTTGAATTGAGTCCGAGTTC-GTGA--GATGTAACTAGGCA
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAA--A--CG
** * * *
69256601 TCCGAACTCGTTGAGTTGAGTCTAATTTCACTCATGGATGCGAACG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAACG
* *
69256647 -CCCAAGCTCGTTGAGTTGAGTTCGAGTTCACTTATGG
1 TCCGAA-CTCGTTGAGTTGAGTCCGAGTTCACTTATGG
69256684 GCGGGTTACA
Statistics
Matches: 101, Mismatches: 21, Indels: 16
0.73 0.15 0.12
Matches are distributed among these distances:
43 6 0.06
45 7 0.07
46 55 0.54
47 25 0.25
48 3 0.03
50 5 0.05
ACGTcount: A:0.23, C:0.20, G:0.26, T:0.30
Consensus pattern (46 bp):
TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAACG
Found at i:69256666 original size:93 final size:93
Alignment explanation
Indices: 69256504--69256675 Score: 247
Period size: 93 Copynumber: 1.8 Consensus size: 93
69256494 GGGATATCTG
* * * *
69256504 GGCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAATGTCCGAACTCGTTGAA
1 GGCATCCGAACTCGTTGAGTTGAGTCCAAGTTCACTCATGGATGCAAACGTCCCAACTCGTTGAA
69256569 TTGAGTCCGAGTTCGTGAGATGTAACTA
66 TTGAGTCCGAGTTCGTGAGATGTAACTA
* * *
69256597 GGCATCCGAACTCGTTGAGTTGAGTCTAATTTCACTCATGGATGCGAACG-CCCAAGCTCGTTGA
1 GGCATCCGAACTCGTTGAGTTGAGTCCAAGTTCACTCATGGATGCAAACGTCCCAA-CTCGTTGA
* *
69256661 GTTGAGTTCGAGTTC
65 ATTGAGTCCGAGTTC
69256676 ACTTATGGGC
Statistics
Matches: 69, Mismatches: 9, Indels: 2
0.86 0.11 0.03
Matches are distributed among these distances:
92 4 0.06
93 65 0.94
ACGTcount: A:0.23, C:0.21, G:0.27, T:0.29
Consensus pattern (93 bp):
GGCATCCGAACTCGTTGAGTTGAGTCCAAGTTCACTCATGGATGCAAACGTCCCAACTCGTTGAA
TTGAGTCCGAGTTCGTGAGATGTAACTA
Found at i:69262259 original size:16 final size:15
Alignment explanation
Indices: 69262238--69262267 Score: 51
Period size: 16 Copynumber: 1.9 Consensus size: 15
69262228 TAAAATTTTA
69262238 TTCATATTTCAAAGCG
1 TTCATATTT-AAAGCG
69262254 TTCATATTTAAAGC
1 TTCATATTTAAAGC
69262268 TAGATCATAT
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
15 5 0.36
16 9 0.64
ACGTcount: A:0.33, C:0.17, G:0.10, T:0.40
Consensus pattern (15 bp):
TTCATATTTAAAGCG
Found at i:69270851 original size:40 final size:40
Alignment explanation
Indices: 69270796--69270937 Score: 234
Period size: 40 Copynumber: 3.6 Consensus size: 40
69270786 TATTCGAATG
69270796 ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCTAGTGACT
1 ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCTAGTGACT
69270836 ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCTAGTGACT
1 ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCTAGTGACT
* *
69270876 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCGAGTTG-CT
1 ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCTAG-TGACT
*
69270916 ATATCC-GGCTAAATCCCGAAGG
1 ATATCCGGGCTAAGTCCCGAAGG
69270938 TACTTGGGTT
Statistics
Matches: 97, Mismatches: 4, Indels: 3
0.93 0.04 0.03
Matches are distributed among these distances:
39 14 0.14
40 81 0.84
41 2 0.02
ACGTcount: A:0.24, C:0.23, G:0.27, T:0.25
Consensus pattern (40 bp):
ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCTAGTGACT
Found at i:69275273 original size:37 final size:37
Alignment explanation
Indices: 69275232--69275339 Score: 153
Period size: 37 Copynumber: 2.9 Consensus size: 37
69275222 ACCTTTAGCT
* * * * * *
69275232 CGGACGTAATCTACACACGAAGTTATTGGGTCTTACC
1 CGGACATAATCTCCACACGTAGTCATCGGGTCTTACA
*
69275269 CGGACAAAATCTCCACACGTAGTCATCGGGTCTTACA
1 CGGACATAATCTCCACACGTAGTCATCGGGTCTTACA
69275306 CGGACATAATCTCCACACGTAGTCATCGGGTCTT
1 CGGACATAATCTCCACACGTAGTCATCGGGTCTT
69275340 TAGAGCTCGG
Statistics
Matches: 63, Mismatches: 8, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
37 63 1.00
ACGTcount: A:0.27, C:0.28, G:0.20, T:0.25
Consensus pattern (37 bp):
CGGACATAATCTCCACACGTAGTCATCGGGTCTTACA
Found at i:69275528 original size:49 final size:49
Alignment explanation
Indices: 69275458--69276146 Score: 1136
Period size: 47 Copynumber: 14.3 Consensus size: 49
69275448 CCCTTCGGGA
*
69275458 CTTATCACAT-T-TATACACTTTCTCATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGC
* *
69275505 CTTATCACATATATATACACTTTCACATTCATCACATTGGCCATTCGGC
1 CTTATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGC
69275554 CTTATCAC--ATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGC
69275601 CTTATCAC--ATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGC
* *
69275648 CTTATCACATATATATACACTTTCACATTCATCACATTGGCCATTCGGC
1 CTTATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGC
69275697 CTTATCAC--ATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGC
*
69275744 CTTATCACATATATATATACACTTTCACATTCATCACATCGGCCATTAGGT
1 CTTATCAC--ATATATATACACTTTCACATTCATCACATCGGCCATTAGGC
* *
69275795 CTTATCACATATATATACACTTTCACATTCATCACATTGGCCATTCGGC
1 CTTATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGC
69275844 CTTATCAC--ATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGC
*
69275891 CTTATCACATATATATACACTTTCACATTCATCACATTGGCCATTAGGC
1 CTTATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGC
* *
69275940 CTTATCACATATATATACACTTTCACATTCATCACATTGGCCATTCGGC
1 CTTATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGC
*
69275989 CTTAT-A-ACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGC
* *
69276036 CTTATCACATATATATACACTTTCACATTCATCACATTGGCCATTCGGC
1 CTTATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGC
69276085 CTTATCAC--ATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGC
69276132 CTTATCACATATATA
1 CTTATCACATATATA
69276147 CTATCATGTA
Statistics
Matches: 603, Mismatches: 25, Indels: 26
0.92 0.04 0.04
Matches are distributed among these distances:
47 280 0.46
48 3 0.00
49 274 0.45
51 46 0.08
ACGTcount: A:0.30, C:0.28, G:0.08, T:0.34
Consensus pattern (49 bp):
CTTATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGC
Found at i:69275662 original size:96 final size:96
Alignment explanation
Indices: 69275458--69276146 Score: 1138
Period size: 96 Copynumber: 7.2 Consensus size: 96
69275448 CCCTTCGGGA
*
69275458 CTTATCACAT-T-TATACACTTTCTCATTCATCACATCGGCCATTAGGCCTTATCACATATATAT
1 CTTATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCAC--ATATAT
* *
69275521 ACACTTTCACATTCATCACATTGGCCATTCGGC
64 ACACTTTCACATTCATCACATCGGCCATTAGGC
69275554 CTTATCAC--ATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATAC
1 CTTATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATAC
69275617 ACTTTCACATTCATCACATCGGCCATTAGGC
66 ACTTTCACATTCATCACATCGGCCATTAGGC
* *
69275648 CTTATCACATATATATACACTTTCACATTCATCACATTGGCCATTCGGCCTTATCACATATATAC
1 CTTATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATAC
69275713 ACTTTCACATTCATCACATCGGCCATTAGGC
66 ACTTTCACATTCATCACATCGGCCATTAGGC
*
69275744 CTTATCACATATATATATACACTTTCACATTCATCACATCGGCCATTAGGTCTTATCACATATAT
1 CTTATCAC--ATATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCAC--ATAT
* *
69275809 ATACACTTTCACATTCATCACATTGGCCATTCGGC
62 ATACACTTTCACATTCATCACATCGGCCATTAGGC
69275844 CTTATCAC--ATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATAT
1 CTTATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCAC--ATATAT
*
69275907 ACACTTTCACATTCATCACATTGGCCATTAGGC
64 ACACTTTCACATTCATCACATCGGCCATTAGGC
* * *
69275940 CTTATCACATATATATACACTTTCACATTCATCACATTGGCCATTCGGCCTTATAACATATATAC
1 CTTATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATAC
69276005 ACTTTCACATTCATCACATCGGCCATTAGGC
66 ACTTTCACATTCATCACATCGGCCATTAGGC
* *
69276036 CTTATCACATATATATACACTTTCACATTCATCACATTGGCCATTCGGCCTTATCACATATATAC
1 CTTATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATAC
69276101 ACTTTCACATTCATCACATCGGCCATTAGGC
66 ACTTTCACATTCATCACATCGGCCATTAGGC
69276132 CTTATCACATATATA
1 CTTATCACATATATA
69276147 CTATCATGTA
Statistics
Matches: 566, Mismatches: 17, Indels: 20
0.94 0.03 0.03
Matches are distributed among these distances:
94 45 0.08
95 1 0.00
96 385 0.68
98 90 0.16
100 45 0.08
ACGTcount: A:0.30, C:0.28, G:0.08, T:0.34
Consensus pattern (96 bp):
CTTATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATAC
ACTTTCACATTCATCACATCGGCCATTAGGC
Found at i:69279646 original size:40 final size:40
Alignment explanation
Indices: 69279589--69280073 Score: 794
Period size: 40 Copynumber: 12.1 Consensus size: 40
69279579 CGAATACACG
* * * *
69279589 TCACTAGCATGATTGCTCTTC-AGGACCTAGCCCGGATATA
1 TCACTAGCACGAATGCTCTTCGA-GACTTAGCCCGGATACA
* * * * ** * *
69279629 ACACCAGCACGAATGCTCTTTGGGGTTTAGCACGGATATA
1 TCACTAGCACGAATGCTCTTCGAGACTTAGCCCGGATACA
*
69279669 TCACTAGCACGAATGCTCTTCG-GAACTTAGTCCGGATACA
1 TCACTAGCACGAATGCTCTTCGAG-ACTTAGCCCGGATACA
69279709 TCACTAGCACGAATGCTCTTCGAGACTTAGCCCGGATACA
1 TCACTAGCACGAATGCTCTTCGAGACTTAGCCCGGATACA
* *
69279749 TCACTAGCACGAATGCTCTTCGAAACTTAGCCCAGATACA
1 TCACTAGCACGAATGCTCTTCGAGACTTAGCCCGGATACA
69279789 TCACTAGCACGAATGCTCTTCGAGACTTAGCCCGGATACA
1 TCACTAGCACGAATGCTCTTCGAGACTTAGCCCGGATACA
69279829 TCACTAGCACGAATGCTCTTCGAGACTTAGCCCGGATACA
1 TCACTAGCACGAATGCTCTTCGAGACTTAGCCCGGATACA
69279869 TCACTAGCACGAATGCTCTTCGAGACTTAGCCCGGATACA
1 TCACTAGCACGAATGCTCTTCGAGACTTAGCCCGGATACA
69279909 TCACTAGCACGAATGCTCTTCGAGACTTAGCCCGGATACA
1 TCACTAGCACGAATGCTCTTCGAGACTTAGCCCGGATACA
69279949 TCACTAGCACGAATGCTCTTCGAGACTTAGCCCGGATACA
1 TCACTAGCACGAATGCTCTTCGAGACTTAGCCCGGATACA
69279989 TCACTAGCACGAATGCTCTTCGAGACTTAGCCCGGATACA
1 TCACTAGCACGAATGCTCTTCGAGACTTAGCCCGGATACA
*
69280029 TCACTAGCACGAATGCTCTTCGGGACTTAGCCCGGATACA
1 TCACTAGCACGAATGCTCTTCGAGACTTAGCCCGGATACA
69280069 TCACT
1 TCACT
69280074 CTCAATTCTC
Statistics
Matches: 418, Mismatches: 24, Indels: 6
0.93 0.05 0.01
Matches are distributed among these distances:
39 1 0.00
40 416 1.00
41 1 0.00
ACGTcount: A:0.27, C:0.29, G:0.20, T:0.24
Consensus pattern (40 bp):
TCACTAGCACGAATGCTCTTCGAGACTTAGCCCGGATACA
Found at i:69281386 original size:37 final size:37
Alignment explanation
Indices: 69281343--69281443 Score: 166
Period size: 37 Copynumber: 2.7 Consensus size: 37
69281333 GCTCGGACGT
* *
69281343 AATCTCCACACGAAGTTATCGGGTCTTACCCGGACAA
1 AATCTCCACACGTAGTCATCGGGTCTTACCCGGACAA
*
69281380 AATCTCCACACGTAGTCATCGGGTCTTACCCGGACAT
1 AATCTCCACACGTAGTCATCGGGTCTTACCCGGACAA
*
69281417 AATCCCCACACGTAGTCATCGGGTCTT
1 AATCTCCACACGTAGTCATCGGGTCTT
69281444 TAGAGATCGG
Statistics
Matches: 60, Mismatches: 4, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
37 60 1.00
ACGTcount: A:0.26, C:0.32, G:0.19, T:0.24
Consensus pattern (37 bp):
AATCTCCACACGTAGTCATCGGGTCTTACCCGGACAA
Found at i:69281632 original size:49 final size:49
Alignment explanation
Indices: 69281562--69282250 Score: 1109
Period size: 47 Copynumber: 14.3 Consensus size: 49
69281552 CCCTTCGGGA
69281562 CTTATCACAT-T-TATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGC
* *
69281609 CTTATCACATATATATACACTTTCACATTCATCACATTGGCCATTCGGC
1 CTTATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGC
69281658 CTTATCAC--ATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGC
69281705 CTTATCAC--ATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGC
* *
69281752 CTTATCACATATATATACACTTTCACATTCATCACATTGGCCATTCGGC
1 CTTATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGC
*
69281801 CTTATCAC--ATATATACACTTTCACATTCATCACATCGGCCATTAGGG
1 CTTATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGC
*
69281848 CTTATCACATATATATATACACTTTCACATTCATCACATTGGCCATTAGGC
1 CTTATCAC--ATATATATACACTTTCACATTCATCACATCGGCCATTAGGC
* * *
69281899 CTTATCACATATATATACACTTTCACATTCATGACATTGGCCATTCGGC
1 CTTATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGC
69281948 CTTATCAC--ATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGC
*
69281995 CTTATCACATATATATACACTTTCACATTCATCACATTGGCCATTAGGC
1 CTTATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGC
* * *
69282044 CTTATCACATATATATATACTTTCACATTCATCACATTGGCCATTCGGC
1 CTTATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGC
*
69282093 CTTATCAC--ATATATACACTTTCACATTCACCACATCGGCCATTAGGC
1 CTTATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGC
* *
69282140 CTTATCACATATATATACACTTTCACATTCATCACATTGGCCATTTGGC
1 CTTATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGC
*
69282189 CTTATTAC--ATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGC
69282236 CTTATCACATATATA
1 CTTATCACATATATA
69282251 CTATCATGTA
Statistics
Matches: 598, Mismatches: 30, Indels: 26
0.91 0.05 0.04
Matches are distributed among these distances:
47 277 0.46
48 1 0.00
49 275 0.46
51 45 0.08
ACGTcount: A:0.30, C:0.28, G:0.08, T:0.34
Consensus pattern (49 bp):
CTTATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGC
Found at i:69281766 original size:96 final size:96
Alignment explanation
Indices: 69281562--69282250 Score: 1120
Period size: 96 Copynumber: 7.2 Consensus size: 96
69281552 CCCTTCGGGA
*
69281562 CTTATCACAT-T-TATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATAT
1 CTTATCACATATATATACACTTTCACATTCATCACATTGGCCATTAGGCCTTATCAC--ATATAT
* *
69281625 ACACTTTCACATTCATCACATTGGCCATTCGGC
64 ACACTTTCACATTCATCACATCGGCCATTAGGC
*
69281658 CTTATCAC--ATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATAC
1 CTTATCACATATATATACACTTTCACATTCATCACATTGGCCATTAGGCCTTATCACATATATAC
69281721 ACTTTCACATTCATCACATCGGCCATTAGGC
66 ACTTTCACATTCATCACATCGGCCATTAGGC
*
69281752 CTTATCACATATATATACACTTTCACATTCATCACATTGGCCATTCGGCCTTATCACATATATAC
1 CTTATCACATATATATACACTTTCACATTCATCACATTGGCCATTAGGCCTTATCACATATATAC
*
69281817 ACTTTCACATTCATCACATCGGCCATTAGGG
66 ACTTTCACATTCATCACATCGGCCATTAGGC
69281848 CTTATCACATATATATATACACTTTCACATTCATCACATTGGCCATTAGGCCTTATCACATATAT
1 CTTATCAC--ATATATATACACTTTCACATTCATCACATTGGCCATTAGGCCTTATCAC--ATAT
* * *
69281913 ATACACTTTCACATTCATGACATTGGCCATTCGGC
62 ATACACTTTCACATTCATCACATCGGCCATTAGGC
*
69281948 CTTATCAC--ATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATAT
1 CTTATCACATATATATACACTTTCACATTCATCACATTGGCCATTAGGCCTTATCAC--ATATAT
*
69282011 ACACTTTCACATTCATCACATTGGCCATTAGGC
64 ACACTTTCACATTCATCACATCGGCCATTAGGC
* *
69282044 CTTATCACATATATATATACTTTCACATTCATCACATTGGCCATTCGGCCTTATCACATATATAC
1 CTTATCACATATATATACACTTTCACATTCATCACATTGGCCATTAGGCCTTATCACATATATAC
*
69282109 ACTTTCACATTCACCACATCGGCCATTAGGC
66 ACTTTCACATTCATCACATCGGCCATTAGGC
* *
69282140 CTTATCACATATATATACACTTTCACATTCATCACATTGGCCATTTGGCCTTATTACATATATAC
1 CTTATCACATATATATACACTTTCACATTCATCACATTGGCCATTAGGCCTTATCACATATATAC
69282205 ACTTTCACATTCATCACATCGGCCATTAGGC
66 ACTTTCACATTCATCACATCGGCCATTAGGC
69282236 CTTATCACATATATA
1 CTTATCACATATATA
69282251 CTATCATGTA
Statistics
Matches: 561, Mismatches: 22, Indels: 20
0.93 0.04 0.03
Matches are distributed among these distances:
94 45 0.08
95 1 0.00
96 380 0.68
98 92 0.16
100 43 0.08
ACGTcount: A:0.30, C:0.28, G:0.08, T:0.34
Consensus pattern (96 bp):
CTTATCACATATATATACACTTTCACATTCATCACATTGGCCATTAGGCCTTATCACATATATAC
ACTTTCACATTCATCACATCGGCCATTAGGC
Found at i:69289182 original size:33 final size:34
Alignment explanation
Indices: 69289137--69289241 Score: 133
Period size: 33 Copynumber: 3.0 Consensus size: 34
69289127 TTCGAATGAT
*
69289137 ATCCGGGCTAAGTCCCGAAGGCATTTGTGCTAG-
1 ATCCGGGGTAAGTCCCGAAGGCATTTGTGCTAGA
69289170 ATCCGGGGTAAGTCCCGAAGGCATTTGTGCTAGTGACTA
1 ATCCGGGGTAAGTCCCGAAGGCATTTGTGCTA--G---A
69289209 TATCC-GGGTAAGTCCCGAAGGCATTTGTGCTAG
1 -ATCCGGGGTAAGTCCCGAAGGCATTTGTGCTAG
69289242 TGACTATATC
Statistics
Matches: 64, Mismatches: 1, Indels: 10
0.85 0.01 0.13
Matches are distributed among these distances:
33 31 0.48
35 1 0.02
37 1 0.02
39 27 0.42
40 4 0.06
ACGTcount: A:0.22, C:0.22, G:0.30, T:0.26
Consensus pattern (34 bp):
ATCCGGGGTAAGTCCCGAAGGCATTTGTGCTAGA
Found at i:69289289 original size:40 final size:40
Alignment explanation
Indices: 69289170--69289308 Score: 194
Period size: 39 Copynumber: 3.5 Consensus size: 40
69289160 TTTGTGCTAG
*
69289170 ATCCGGGGTAAGTCCCGAAGGCATTTGTGCTAGTGACTAT
1 ATCCGGGCTAAGTCCCGAAGGCATTTGTGCTAGTGACTAT
69289210 ATCCGGG-TAAGTCCCGAAGGCATTTGTGCTAGTGACTAT
1 ATCCGGGCTAAGTCCCGAAGGCATTTGTGCTAGTGACTAT
** * *
69289249 ATCCGGGCTAAGAACCGAAGGCATTTGTCCGAGTTG-CTAT
1 ATCCGGGCTAAGTCCCGAAGGCATTTGTGCTAG-TGACTAT
*
69289289 ATCC-GGCTAAATCCCGAAGG
1 ATCCGGGCTAAGTCCCGAAGG
69289309 TACTTGGGTT
Statistics
Matches: 90, Mismatches: 7, Indels: 5
0.88 0.07 0.05
Matches are distributed among these distances:
39 52 0.58
40 36 0.40
41 2 0.02
ACGTcount: A:0.24, C:0.22, G:0.28, T:0.25
Consensus pattern (40 bp):
ATCCGGGCTAAGTCCCGAAGGCATTTGTGCTAGTGACTAT
Found at i:69296104 original size:71 final size:64
Alignment explanation
Indices: 69295955--69296105 Score: 153
Period size: 71 Copynumber: 2.3 Consensus size: 64
69295945 TACTTTAACA
*** * *
69295955 ATTT-ATGCAAATATAATATAGAAAATGGTAAATAACGACATAAATTACATAATATACATTATC
1 ATTTCATGCAAATATAATATAGAAAACAATAAATAACAACATAAATTACATAATATACATAATC
* *
69296018 ATTTCATGCAGATATAATCATAGAAAACAATGAATATAACAATATAAATTACATAATATATATAC
1 ATTTCATGCAAATATAAT-ATAGAAAACAAT-AA-ATAACAACATAAATTAC---ATA-ATATAC
69296083 AATAAT-
59 -ATAATC
69296089 ATTTCATGCAAATATAA
1 ATTTCATGCAAATATAA
69296106 CTTAAAATAA
Statistics
Matches: 71, Mismatches: 8, Indels: 10
0.80 0.09 0.11
Matches are distributed among these distances:
63 4 0.06
64 12 0.17
65 9 0.13
66 2 0.03
67 15 0.21
70 3 0.04
71 22 0.31
72 4 0.06
ACGTcount: A:0.52, C:0.10, G:0.07, T:0.32
Consensus pattern (64 bp):
ATTTCATGCAAATATAATATAGAAAACAATAAATAACAACATAAATTACATAATATACATAATC
Found at i:69296419 original size:20 final size:18
Alignment explanation
Indices: 69296374--69296428 Score: 56
Period size: 19 Copynumber: 2.9 Consensus size: 18
69296364 TTAGAAACGA
69296374 TTAATATATATATAAAAC
1 TTAATATATATATAAAAC
* * *
69296392 ATACTATATGGTATAATAAC
1 TTAATATAT-ATATAA-AAC
*
69296412 TTAATATATTTATAAAA
1 TTAATATATATATAAAA
69296429 ATAATAATAT
Statistics
Matches: 29, Mismatches: 6, Indels: 4
0.74 0.15 0.10
Matches are distributed among these distances:
18 9 0.31
19 10 0.34
20 10 0.34
ACGTcount: A:0.51, C:0.05, G:0.04, T:0.40
Consensus pattern (18 bp):
TTAATATATATATAAAAC
Found at i:69296571 original size:7 final size:7
Alignment explanation
Indices: 69296559--69296594 Score: 54
Period size: 7 Copynumber: 5.0 Consensus size: 7
69296549 TTATATGTAC
69296559 TAATAAA
1 TAATAAA
69296566 TAATAAA
1 TAATAAA
69296573 TAATAAAA
1 TAAT-AAA
*
69296581 TAATATA
1 TAATAAA
69296588 TAATAAA
1 TAATAAA
69296595 AGCTATAAAT
Statistics
Matches: 26, Mismatches: 2, Indels: 2
0.87 0.07 0.07
Matches are distributed among these distances:
7 19 0.73
8 7 0.27
ACGTcount: A:0.69, C:0.00, G:0.00, T:0.31
Consensus pattern (7 bp):
TAATAAA
Found at i:69296583 original size:15 final size:15
Alignment explanation
Indices: 69296559--69296595 Score: 58
Period size: 15 Copynumber: 2.5 Consensus size: 15
69296549 TTATATGTAC
69296559 TAAT-AAATAATAAA
1 TAATAAAATAATAAA
*
69296573 TAATAAAATAATATA
1 TAATAAAATAATAAA
69296588 TAATAAAA
1 TAATAAAA
69296596 GCTATAAATA
Statistics
Matches: 21, Mismatches: 1, Indels: 1
0.91 0.04 0.04
Matches are distributed among these distances:
14 4 0.19
15 17 0.81
ACGTcount: A:0.70, C:0.00, G:0.00, T:0.30
Consensus pattern (15 bp):
TAATAAAATAATAAA
Found at i:69296614 original size:13 final size:13
Alignment explanation
Indices: 69296574--69296616 Score: 50
Period size: 13 Copynumber: 3.2 Consensus size: 13
69296564 AATAATAAAT
69296574 AATAAAATAATATA
1 AATAAAAT-ATATA
**
69296588 TAATAAAAGCTATA
1 -AATAAAATATATA
69296602 AATAAAATATATA
1 AATAAAATATATA
69296615 AA
1 AA
69296617 ATATAAATTT
Statistics
Matches: 24, Mismatches: 4, Indels: 2
0.80 0.13 0.07
Matches are distributed among these distances:
13 13 0.54
14 4 0.17
15 7 0.29
ACGTcount: A:0.67, C:0.02, G:0.02, T:0.28
Consensus pattern (13 bp):
AATAAAATATATA
Found at i:69296621 original size:20 final size:21
Alignment explanation
Indices: 69296565--69296624 Score: 61
Period size: 23 Copynumber: 2.8 Consensus size: 21
69296555 GTACTAATAA
*
69296565 ATAAT-AAATAATAAAATAATAT
1 ATAATAAAAT-AT-AAATAAAAT
69296587 ATAATAAAAGCTATAAATAAAAT
1 ATAATAAAA--TATAAATAAAAT
69296610 AT-ATAAAATATAAAT
1 ATAATAAAATATAAAT
69296625 TTCATGATAA
Statistics
Matches: 34, Mismatches: 1, Indels: 8
0.79 0.02 0.19
Matches are distributed among these distances:
20 7 0.21
22 11 0.32
23 13 0.38
24 2 0.06
25 1 0.03
ACGTcount: A:0.67, C:0.02, G:0.02, T:0.30
Consensus pattern (21 bp):
ATAATAAAATATAAATAAAAT
Found at i:69296682 original size:47 final size:43
Alignment explanation
Indices: 69296599--69296687 Score: 108
Period size: 45 Copynumber: 2.0 Consensus size: 43
69296589 AATAAAAGCT
69296599 ATAAATAAAATATATAAAATATAAATTTCATGATAAATAATAC
1 ATAAATAAAATATATAAAATATAAATTTCATGATAAATAATAC
* *
69296642 ATAAATAAAAATATTATATACA-ATAATTTTACATGTATAAATAATA
1 ATAAAT-AAAATA-TATA-AAATATAAATTT-CATG-ATAAATAATA
69296688 TTTATAAAAA
Statistics
Matches: 39, Mismatches: 2, Indels: 6
0.83 0.04 0.13
Matches are distributed among these distances:
43 6 0.15
44 6 0.15
45 11 0.28
46 6 0.15
47 10 0.26
ACGTcount: A:0.58, C:0.04, G:0.02, T:0.35
Consensus pattern (43 bp):
ATAAATAAAATATATAAAATATAAATTTCATGATAAATAATAC
Found at i:69296695 original size:49 final size:45
Alignment explanation
Indices: 69296598--69296714 Score: 114
Period size: 51 Copynumber: 2.5 Consensus size: 45
69296588 TAATAAAAGC
69296598 TATAAAT-AAAATATATA-AAATATAAATTTCATGATAAATAATA
1 TATAAATAAAAATATATATAAATATAAATTTCATGATAAATAATA
* * *
69296641 CATAAATAAAAATATTATATACA-ATAATTTTACATGTATAAATAATA
1 TATAAATAAAAATA-TATATAAATATAAATTT-CATG-ATAAATAATA
69296688 TTTATAAAAATAAATAATATATATAAA
1 --TAT--AAATAAA-AATATATATAAA
69296715 ATATTTAAAA
Statistics
Matches: 59, Mismatches: 5, Indels: 12
0.78 0.07 0.16
Matches are distributed among these distances:
43 6 0.10
44 6 0.10
45 11 0.19
46 6 0.10
47 10 0.17
49 2 0.03
51 14 0.24
52 4 0.07
ACGTcount: A:0.59, C:0.03, G:0.02, T:0.36
Consensus pattern (45 bp):
TATAAATAAAAATATATATAAATATAAATTTCATGATAAATAATA
Found at i:69296700 original size:19 final size:19
Alignment explanation
Indices: 69296678--69296715 Score: 67
Period size: 19 Copynumber: 2.0 Consensus size: 19
69296668 TTTTACATGT
*
69296678 ATAAATAATATTTATAAAA
1 ATAAATAATATATATAAAA
69296697 ATAAATAATATATATAAAA
1 ATAAATAATATATATAAAA
69296716 TATTTAAAAT
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
19 18 1.00
ACGTcount: A:0.66, C:0.00, G:0.00, T:0.34
Consensus pattern (19 bp):
ATAAATAATATATATAAAA
Found at i:69296733 original size:31 final size:28
Alignment explanation
Indices: 69296684--69296745 Score: 88
Period size: 29 Copynumber: 2.1 Consensus size: 28
69296674 ATGTATAAAT
*
69296684 AATATTTATAAAAATAAATAATATATATAA
1 AATATTTAAAAAAATAAAT--TATATATAA
69296714 AATATTTAAAATAAATAAATTATATATAA
1 AATATTTAAAA-AAATAAATTATATATAA
69296743 AAT
1 AAT
69296746 GTATACATAT
Statistics
Matches: 30, Mismatches: 1, Indels: 3
0.88 0.03 0.09
Matches are distributed among these distances:
29 12 0.40
30 10 0.33
31 8 0.27
ACGTcount: A:0.63, C:0.00, G:0.00, T:0.37
Consensus pattern (28 bp):
AATATTTAAAAAAATAAATTATATATAA
Found at i:69301458 original size:26 final size:26
Alignment explanation
Indices: 69301429--69301478 Score: 91
Period size: 26 Copynumber: 1.9 Consensus size: 26
69301419 AATAAAAGAA
69301429 AACATTCAATATTTCAATTTAATTCT
1 AACATTCAATATTTCAATTTAATTCT
*
69301455 AACATTCAATATTTCAGTTTAATT
1 AACATTCAATATTTCAATTTAATT
69301479 AGCATTAATT
Statistics
Matches: 23, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
26 23 1.00
ACGTcount: A:0.38, C:0.14, G:0.02, T:0.46
Consensus pattern (26 bp):
AACATTCAATATTTCAATTTAATTCT
Found at i:69302960 original size:19 final size:19
Alignment explanation
Indices: 69302936--69302997 Score: 97
Period size: 19 Copynumber: 3.2 Consensus size: 19
69302926 AATCTTTAAG
69302936 GATATGCAATCTTAGATAT
1 GATATGCAATCTTAGATAT
*
69302955 GATATGCAATCTTTGATAT
1 GATATGCAATCTTAGATAT
69302974 GATATGCAATCTTGAAGATAT
1 GATATGCAATCTT--AGATAT
69302995 GAT
1 GAT
69302998 CTTGTAATCT
Statistics
Matches: 39, Mismatches: 2, Indels: 2
0.91 0.05 0.05
Matches are distributed among these distances:
19 31 0.79
21 8 0.21
ACGTcount: A:0.35, C:0.10, G:0.18, T:0.37
Consensus pattern (19 bp):
GATATGCAATCTTAGATAT
Found at i:69308140 original size:225 final size:225
Alignment explanation
Indices: 69307749--69308188 Score: 790
Period size: 225 Copynumber: 2.0 Consensus size: 225
69307739 CAAGGATCTT
* * * *
69307749 CTGACAATGTGCTACATGGTACTGTCATTGGCAACAAAGTATGCCATCCAAAGAATAATGATTTT
1 CTGACAATGTGCTACATGGTACTGTCATTGACAACAAAGTATGCCATCCAAAAAACAACGATTTT
*
69307814 TACCTTGGTACCCATGCTGGAATGATTGGAATCACGAGGCAGACCCACTATCATGTTTTCTTAGA
66 TACCTTGGTACCCATGCTGGAATGATTGGAATCACGAGGCAGACCCACTATCATGTTCTCTTAGA
* * *
69307879 CCAGGCTGGGTTTTCGGCTGATGATCTATAAGAGTTTGTTCATTCTCTGTCCTATATGTATCAAA
131 CCAGGCTGGATTTTCGGCTGATGATCTACAAGAGTTTGTTCATTCTCTATCCTATATGTATCAAA
69307944 GGAGCACCACAACCATATTTTTCGTGGCTC
196 GGAGCACCACAACCATATTTTTCGTGGCTC
69307974 CTGACAATGTGCTACATGGTACTGTCATTGACAACAAAGTATGCCATCCAAAAAACAACGATTTT
1 CTGACAATGTGCTACATGGTACTGTCATTGACAACAAAGTATGCCATCCAAAAAACAACGATTTT
69308039 TACCTTGGTACCCATGCTGGAATGATTGGAATCACGAGGCAGACCCACTATCATGTTCTCTTAGA
66 TACCTTGGTACCCATGCTGGAATGATTGGAATCACGAGGCAGACCCACTATCATGTTCTCTTAGA
*
69308104 CCAGGCTGGATTTTCGGCTGATGATCTGCAAGAGTTTGTTCATTCTCTATCCTATATGTATCAAA
131 CCAGGCTGGATTTTCGGCTGATGATCTACAAGAGTTTGTTCATTCTCTATCCTATATGTATCAAA
*
69308169 GGAGCACCACAGCCATATTT
196 GGAGCACCACAACCATATTT
69308189 GTTGTGTCTC
Statistics
Matches: 205, Mismatches: 10, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
225 205 1.00
ACGTcount: A:0.28, C:0.22, G:0.20, T:0.30
Consensus pattern (225 bp):
CTGACAATGTGCTACATGGTACTGTCATTGACAACAAAGTATGCCATCCAAAAAACAACGATTTT
TACCTTGGTACCCATGCTGGAATGATTGGAATCACGAGGCAGACCCACTATCATGTTCTCTTAGA
CCAGGCTGGATTTTCGGCTGATGATCTACAAGAGTTTGTTCATTCTCTATCCTATATGTATCAAA
GGAGCACCACAACCATATTTTTCGTGGCTC
Found at i:69308852 original size:7 final size:7
Alignment explanation
Indices: 69308835--69308891 Score: 53
Period size: 7 Copynumber: 7.9 Consensus size: 7
69308825 TCTATTTCAA
69308835 AAAAAATG
1 AAAAAA-G
69308843 AAAAAAG
1 AAAAAAG
* *
69308850 AAAATAT
1 AAAAAAG
*
69308857 AAAGAGAAA
1 AAA-A-AAG
69308866 AAAAAAG
1 AAAAAAG
69308873 -AAAAAG
1 AAAAAAG
69308879 AAAAAAG
1 AAAAAAG
69308886 AAAAAA
1 AAAAAA
69308892 TAGAGAGGCC
Statistics
Matches: 41, Mismatches: 5, Indels: 7
0.77 0.09 0.13
Matches are distributed among these distances:
6 6 0.15
7 23 0.56
8 8 0.20
9 4 0.10
ACGTcount: A:0.82, C:0.00, G:0.12, T:0.05
Consensus pattern (7 bp):
AAAAAAG
Found at i:69308882 original size:13 final size:12
Alignment explanation
Indices: 69308843--69308891 Score: 55
Period size: 12 Copynumber: 4.1 Consensus size: 12
69308833 AAAAAAAATG
69308843 AAAAAAG-AAAA
1 AAAAAAGAAAAA
* * *
69308854 TATAAAGAGAAA
1 AAAAAAGAAAAA
69308866 AAAAAAGAAAAA
1 AAAAAAGAAAAA
69308878 GAAAAAAGAAAAA
1 -AAAAAAGAAAAA
69308891 A
1 A
69308892 TAGAGAGGCC
Statistics
Matches: 30, Mismatches: 6, Indels: 3
0.77 0.15 0.08
Matches are distributed among these distances:
11 5 0.17
12 13 0.43
13 12 0.40
ACGTcount: A:0.84, C:0.00, G:0.12, T:0.04
Consensus pattern (12 bp):
AAAAAAGAAAAA
Found at i:69308887 original size:23 final size:23
Alignment explanation
Indices: 69308843--69308891 Score: 64
Period size: 23 Copynumber: 2.1 Consensus size: 23
69308833 AAAAAAAATG
* *
69308843 AAAAAAGAAAATATAAAGAGAAA
1 AAAAAAGAAAATAAAAAAAGAAA
69308866 AAAAAAGAAAA-AGAAAAAAGAAA
1 AAAAAAGAAAATA-AAAAAAGAAA
69308889 AAA
1 AAA
69308892 TAGAGAGGCC
Statistics
Matches: 23, Mismatches: 2, Indels: 2
0.85 0.07 0.07
Matches are distributed among these distances:
22 1 0.04
23 22 0.96
ACGTcount: A:0.84, C:0.00, G:0.12, T:0.04
Consensus pattern (23 bp):
AAAAAAGAAAATAAAAAAAGAAA
Found at i:69309982 original size:43 final size:42
Alignment explanation
Indices: 69309849--69310072 Score: 144
Period size: 43 Copynumber: 5.3 Consensus size: 42
69309839 TGCCTTAATC
* *
69309849 CCCTAAGCAGTAGGATAACAGGTTAAATTTACAGATTTTATCT
1 CCCTAAGCAGTAGGGTAACAGGTTAAATTT-CAGATCTTATCT
* * * * * * *
69309892 CCCTACGCAGTAGTGG-AGCTGATCGAAGA-CTC-G-CCTTAATC-
1 CCCTAAGCAGTAG-GGTAACAGGT-TAA-ATTTCAGATCTT-ATCT
69309933 CCCTAAGCAGTAGGGTAACAGGTTAAATTTGCAGATCTTATCT
1 CCCTAAGCAGTAGGGTAACAGGTTAAATTT-CAGATCTTATCT
* * * * *
69309976 CCCTAAGCAGTAGTGG-AGCAGATCGAAGA-CTC-G-CCTTAATC-
1 CCCTAAGCAGTAG-GGTAACAGGT-TAA-ATTTCAGATCTT-ATCT
*
69310017 CCCTAAGCAATAGGGTAACAGGTTAAATTTGCAGATCTTATCT
1 CCCTAAGCAGTAGGGTAACAGGTTAAATTT-CAGATCTTATCT
69310060 CCCTAAGCAGTAG
1 CCCTAAGCAGTAG
69310073 TGGAGTAGAT
Statistics
Matches: 133, Mismatches: 28, Indels: 40
0.66 0.14 0.20
Matches are distributed among these distances:
39 2 0.02
40 10 0.08
41 40 0.30
42 16 0.12
43 54 0.41
44 9 0.07
45 2 0.02
ACGTcount: A:0.30, C:0.22, G:0.21, T:0.26
Consensus pattern (42 bp):
CCCTAAGCAGTAGGGTAACAGGTTAAATTTCAGATCTTATCT
Found at i:69309986 original size:84 final size:84
Alignment explanation
Indices: 69309840--69310113 Score: 469
Period size: 84 Copynumber: 3.3 Consensus size: 84
69309830 AAAATTCAGT
* * * *
69309840 GCCTTAATCCCCTAAGCAGTAGGATAACAGGTTAAATTTACAGATTTTATCTCCCTACGCAGTAG
1 GCCTTAATCCCCTAAGCAGTAGGGTAACAGGTTAAATTTGCAGATCTTATCTCCCTAAGCAGTAG
69309905 TGGAGCTGATCGAAGACTC
66 TGGAGCTGATCGAAGACTC
69309924 GCCTTAATCCCCTAAGCAGTAGGGTAACAGGTTAAATTTGCAGATCTTATCTCCCTAAGCAGTAG
1 GCCTTAATCCCCTAAGCAGTAGGGTAACAGGTTAAATTTGCAGATCTTATCTCCCTAAGCAGTAG
*
69309989 TGGAGCAGATCGAAGACTC
66 TGGAGCTGATCGAAGACTC
*
69310008 GCCTTAATCCCCTAAGCAATAGGGTAACAGGTTAAATTTGCAGATCTTATCTCCCTAAGCAGTAG
1 GCCTTAATCCCCTAAGCAGTAGGGTAACAGGTTAAATTTGCAGATCTTATCTCCCTAAGCAGTAG
69310073 TGGAG-TAGATCGAAGACTC
66 TGGAGCT-GATCGAAGACTC
*
69310092 GCTTTAATCCCCTAAGCAGTAG
1 GCCTTAATCCCCTAAGCAGTAG
69310114 TGGAGTAGAT
Statistics
Matches: 180, Mismatches: 9, Indels: 2
0.94 0.05 0.01
Matches are distributed among these distances:
84 180 1.00
ACGTcount: A:0.30, C:0.23, G:0.21, T:0.26
Consensus pattern (84 bp):
GCCTTAATCCCCTAAGCAGTAGGGTAACAGGTTAAATTTGCAGATCTTATCTCCCTAAGCAGTAG
TGGAGCTGATCGAAGACTC
Found at i:69310129 original size:125 final size:125
Alignment explanation
Indices: 69309976--69310238 Score: 427
Period size: 125 Copynumber: 2.1 Consensus size: 125
69309966 GATCTTATCT
*
69309976 CCCTAAGCAGTAGTGGAGCAGATCGAAGACTCGCCTTAATCCCCTAAGCAATAGGGTAACAGGTT
1 CCCTAAGCAGTAGTGGAGCAGATCGAAGACTCGCCTTAATCCCCTAAACAATAGGGTAACAGGTT
* * *
69310041 AAATTTGCAGATCTTATCTCCCTAAGCAGTAGTGGAGTAGATCGAAGACTCGCTTTAATC
66 AAATTTGCAGAACTTATCTCCCTAAGCAGTAGTGGAGCAGATCGAAGACTCGCCTTAATC
* * * **
69310101 CCCTAAGCAGTAGTGGAGTAGATCGAAGACTCGCCTTAATCTCTTAAACGGTAGGGTAACAGGTT
1 CCCTAAGCAGTAGTGGAGCAGATCGAAGACTCGCCTTAATCCCCTAAACAATAGGGTAACAGGTT
*
69310166 AAATTTGTAGAACTTATCTCCCTAAGCAGTAGTGGAGCAGATCGAAGACTCGCCTTAATC
66 AAATTTGCAGAACTTATCTCCCTAAGCAGTAGTGGAGCAGATCGAAGACTCGCCTTAATC
*
69310226 CCCTAAGTAGTAG
1 CCCTAAGCAGTAG
69310239 GGTAACAGGT
Statistics
Matches: 127, Mismatches: 11, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
125 127 1.00
ACGTcount: A:0.30, C:0.22, G:0.23, T:0.25
Consensus pattern (125 bp):
CCCTAAGCAGTAGTGGAGCAGATCGAAGACTCGCCTTAATCCCCTAAACAATAGGGTAACAGGTT
AAATTTGCAGAACTTATCTCCCTAAGCAGTAGTGGAGCAGATCGAAGACTCGCCTTAATC
Found at i:69311421 original size:41 final size:41
Alignment explanation
Indices: 69311372--69311509 Score: 113
Period size: 41 Copynumber: 3.3 Consensus size: 41
69311362 GATCTTATCT
69311372 CCCTAAGCAGTAGTGGAGCAGATCGAAGACT-CACCTTAATC
1 CCCTAAGCAGTAGTGGAGCAGATCGAAGA-TGCACCTTAATC
* * * * * *
69311413 CCCTAAGCAATAG-GGTAACAGGTC-AAAATTGTGGATCTT-ATC
1 CCCTAAGCAGTAGTGG-AGCAGATCGAAGA---TGCACCTTAATC
* * *
69311455 TCCCTAAGTAGTAGTGGAGCAGATCGAAGATGCGCCTTAACC
1 -CCCTAAGCAGTAGTGGAGCAGATCGAAGATGCACCTTAATC
69311497 CCCTAAGCAGTAG
1 CCCTAAGCAGTAG
69311510 GGTAACAGGT
Statistics
Matches: 72, Mismatches: 17, Indels: 16
0.69 0.16 0.15
Matches are distributed among these distances:
40 5 0.07
41 35 0.49
42 6 0.08
43 21 0.29
44 5 0.07
ACGTcount: A:0.31, C:0.24, G:0.23, T:0.22
Consensus pattern (41 bp):
CCCTAAGCAGTAGTGGAGCAGATCGAAGATGCACCTTAATC
Found at i:69311458 original size:84 final size:84
Alignment explanation
Indices: 69311293--69311519 Score: 314
Period size: 84 Copynumber: 2.7 Consensus size: 84
69311283 TGGGGTGTTA
* * *
69311293 CAGTAGCGGAGCAGATCGACGACGACTCGCCTTAATCCCCTAAGCAAT-GGGTAACAGGTTAAAT
1 CAGTAGTGGAGCAGATCGA--A-GACTCGCCTTAATCCCCTAAGCAATAGGGTAACAGGTCAAAA
69311357 TTACAGATCTTATCTCCCTAAG
63 TTACAGATCTTATCTCCCTAAG
* *
69311379 CAGTAGTGGAGCAGATCGAAGACTCACCTTAATCCCCTAAGCAATAGGGTAACAGGTCAAAATTG
1 CAGTAGTGGAGCAGATCGAAGACTCGCCTTAATCCCCTAAGCAATAGGGTAACAGGTCAAAATTA
**
69311444 TGGATCTTATCTCCCTAAG
66 CAGATCTTATCTCCCTAAG
* * *
69311463 TAGTAGTGGAGCAGATCGAAGA-TGCGCCTTAACCCCCTAAGCAGTAGGGTAACAGGT
1 CAGTAGTGGAGCAGATCGAAGACT-CGCCTTAATCCCCTAAGCAATAGGGTAACAGGT
69311520 TAAAGTATAG
Statistics
Matches: 128, Mismatches: 11, Indels: 6
0.88 0.08 0.04
Matches are distributed among these distances:
83 25 0.20
84 85 0.66
86 18 0.14
ACGTcount: A:0.31, C:0.23, G:0.23, T:0.22
Consensus pattern (84 bp):
CAGTAGTGGAGCAGATCGAAGACTCGCCTTAATCCCCTAAGCAATAGGGTAACAGGTCAAAATTA
CAGATCTTATCTCCCTAAG
Found at i:69311791 original size:87 final size:87
Alignment explanation
Indices: 69311526--69311799 Score: 229
Period size: 87 Copynumber: 3.1 Consensus size: 87
69311516 AGGTTAAAGT
** * * *
69311526 ATAGCAGATCTGGCCTTCAGGTGTTCACGCTGAAGCAGATCCAAGATGATTTGGCATTCTTGTGT
1 ATAGCAGATCTAACCTTCAGATGTTCTCACTGAAGCAGATCCAAGATGATTTGGCATTCTTGTGT
* * *
69311591 TTACAAGGATCAAATCGAAGAC
66 TTACAGGGAACAGATCGAAGAC
* * ** * *
69311613 ATAGCAGATCTGACTTTTGGATGTTCTCACATCAAAGCAGATCCAAGATAATAGATCTGGCATCT
1 ATAGCAGATCTAACCTTCAGATGTTCTCAC-T-GAAGCAGATCCAAG---AT-GATTTGGCAT-T
* * ** *
69311678 CCATAT-TCGAC-GGAGAGCAGAT-----AC
59 -CTTGTGTTTACAGG-GAACAGATCGAAGAC
* *
69311702 ATAGCAGATCTAACCTTCAGATGTTTTTACTGAAGCAGATCCAAGATGATTTGGCATTCTTGTGT
1 ATAGCAGATCTAACCTTCAGATGTTCTCACTGAAGCAGATCCAAGATGATTTGGCATTCTTGTGT
69311767 TTACAGGGAACAGATCGAAGAC
66 TTACAGGGAACAGATCGAAGAC
69311789 ATAGCAGATCT
1 ATAGCAGATCT
69311800 GACATTCCTG
Statistics
Matches: 142, Mismatches: 29, Indels: 32
0.70 0.14 0.16
Matches are distributed among these distances:
81 3 0.02
82 11 0.08
83 11 0.08
84 2 0.01
87 49 0.35
88 2 0.01
89 39 0.27
92 2 0.01
93 10 0.07
94 10 0.07
95 3 0.02
ACGTcount: A:0.31, C:0.19, G:0.22, T:0.28
Consensus pattern (87 bp):
ATAGCAGATCTAACCTTCAGATGTTCTCACTGAAGCAGATCCAAGATGATTTGGCATTCTTGTGT
TTACAGGGAACAGATCGAAGAC
Found at i:69312434 original size:16 final size:19
Alignment explanation
Indices: 69312376--69312436 Score: 104
Period size: 19 Copynumber: 3.1 Consensus size: 19
69312366 AATCTTAAAT
69312376 ATATGCAATCTTAGATATG
1 ATATGCAATCTTAGATATG
69312395 ATATGCAATCTTAGATATG
1 ATATGCAATCTTAGATATG
69312414 ATATGCAATCTTGAAGATATG
1 ATATGCAATCTT--AGATATG
69312435 AT
1 AT
69312437 CTTGTAATCT
Statistics
Matches: 40, Mismatches: 0, Indels: 2
0.95 0.00 0.05
Matches are distributed among these distances:
19 31 0.77
21 9 0.22
ACGTcount: A:0.38, C:0.10, G:0.16, T:0.36
Consensus pattern (19 bp):
ATATGCAATCTTAGATATG
Found at i:69314657 original size:26 final size:26
Alignment explanation
Indices: 69314628--69314678 Score: 77
Period size: 26 Copynumber: 2.0 Consensus size: 26
69314618 AATAAAAGAA
*
69314628 AACATTCAATATTTCTA-TTTAATTAT
1 AACATTCAACATTTC-AGTTTAATTAT
69314654 AACATTCAACATTTCAGTTTAATTA
1 AACATTCAACATTTCAGTTTAATTA
69314679 GTATTAATTT
Statistics
Matches: 23, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
25 1 0.04
26 22 0.96
ACGTcount: A:0.39, C:0.14, G:0.02, T:0.45
Consensus pattern (26 bp):
AACATTCAACATTTCAGTTTAATTAT
Found at i:69316773 original size:26 final size:26
Alignment explanation
Indices: 69316744--69316795 Score: 95
Period size: 26 Copynumber: 2.0 Consensus size: 26
69316734 AATAAAAGAA
69316744 AACATTCAATATTTCAATTTAATTAG
1 AACATTCAATATTTCAATTTAATTAG
*
69316770 AACATTCAATATTTCAGTTTAATTAG
1 AACATTCAATATTTCAATTTAATTAG
69316796 CATTAATTTT
Statistics
Matches: 25, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
26 25 1.00
ACGTcount: A:0.40, C:0.12, G:0.06, T:0.42
Consensus pattern (26 bp):
AACATTCAATATTTCAATTTAATTAG
Found at i:69318901 original size:25 final size:26
Alignment explanation
Indices: 69318850--69318901 Score: 88
Period size: 26 Copynumber: 2.0 Consensus size: 26
69318840 AATAAAAGAA
69318850 AACATTCAATATTTCAATTTAATTAG
1 AACATTCAATATTTCAATTTAATTAG
*
69318876 AACATTCAATATTT-AGTTTAATTAG
1 AACATTCAATATTTCAATTTAATTAG
69318901 A
1 A
69318902 TTAATTTTTA
Statistics
Matches: 25, Mismatches: 1, Indels: 1
0.93 0.04 0.04
Matches are distributed among these distances:
25 11 0.44
26 14 0.56
ACGTcount: A:0.42, C:0.10, G:0.06, T:0.42
Consensus pattern (26 bp):
AACATTCAATATTTCAATTTAATTAG
Found at i:69320985 original size:26 final size:26
Alignment explanation
Indices: 69320956--69321005 Score: 91
Period size: 26 Copynumber: 1.9 Consensus size: 26
69320946 AATAAAAGAA
69320956 AACATTCAATATTTCAATTTAATTCT
1 AACATTCAATATTTCAATTTAATTCT
*
69320982 AACATTCAATATTTCAGTTTAATT
1 AACATTCAATATTTCAATTTAATT
69321006 AGCATTAATT
Statistics
Matches: 23, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
26 23 1.00
ACGTcount: A:0.38, C:0.14, G:0.02, T:0.46
Consensus pattern (26 bp):
AACATTCAATATTTCAATTTAATTCT
Found at i:69339381 original size:43 final size:43
Alignment explanation
Indices: 69339212--69339382 Score: 161
Period size: 43 Copynumber: 4.0 Consensus size: 43
69339202 ATAGGATTCT
* * *
69339212 GATATGTGATTTCATGTAAGACCATGTCTGGGATGTTGGCATC
1 GATATTTGATTTCATGTAAGACCACGTCTGGGACGTTGGCATC
* * ***
69339255 GAT-TTTATATTTGCATGTAAGACCATGTCTGGGACACCGGCATC
1 GATATTT-GATTT-CATGTAAGACCACGTCTGGGACGTTGGCATC
* * * *
69339299 G-TATTTGATTTCGTGTAAGACC-CTTTCTAGAACAG-TGGCATC
1 GATATTTGATTTCATGTAAGACCAC-GTCTGGGAC-GTTGGCATC
*
69339341 GATATTTGATTACATGTAAGACCACGTCTGGGACGTTGGCAT
1 GATATTTGATTTCATGTAAGACCACGTCTGGGACGTTGGCAT
69339383 TGTACGAGCT
Statistics
Matches: 101, Mismatches: 19, Indels: 16
0.74 0.14 0.12
Matches are distributed among these distances:
42 26 0.26
43 43 0.43
44 32 0.32
ACGTcount: A:0.25, C:0.18, G:0.25, T:0.33
Consensus pattern (43 bp):
GATATTTGATTTCATGTAAGACCACGTCTGGGACGTTGGCATC
Found at i:69361350 original size:15 final size:16
Alignment explanation
Indices: 69361330--69361363 Score: 52
Period size: 15 Copynumber: 2.2 Consensus size: 16
69361320 AAAGTTGAAC
*
69361330 CTTTCCATT-TATTTA
1 CTTTCCATTGCATTTA
69361345 CTTTCCATTGCATTTA
1 CTTTCCATTGCATTTA
69361361 CTT
1 CTT
69361364 ACTTTAGCTT
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
15 9 0.53
16 8 0.47
ACGTcount: A:0.18, C:0.24, G:0.03, T:0.56
Consensus pattern (16 bp):
CTTTCCATTGCATTTA
Found at i:69361557 original size:16 final size:18
Alignment explanation
Indices: 69361530--69361562 Score: 52
Period size: 17 Copynumber: 1.9 Consensus size: 18
69361520 TTACCATTTT
69361530 TCATTACCTTTT-CATAC
1 TCATTACCTTTTGCATAC
69361547 TCATT-CCTTTTGCATA
1 TCATTACCTTTTGCATA
69361563 ATAAAAGACA
Statistics
Matches: 15, Mismatches: 0, Indels: 2
0.88 0.00 0.12
Matches are distributed among these distances:
16 6 0.40
17 9 0.60
ACGTcount: A:0.21, C:0.27, G:0.03, T:0.48
Consensus pattern (18 bp):
TCATTACCTTTTGCATAC
Found at i:69363228 original size:48 final size:48
Alignment explanation
Indices: 69363157--69363253 Score: 194
Period size: 48 Copynumber: 2.0 Consensus size: 48
69363147 CAAAATTAAA
69363157 AGAAATTAAAGCATCCAACCATCCCACTATCTTTAGGATGGCTAATTT
1 AGAAATTAAAGCATCCAACCATCCCACTATCTTTAGGATGGCTAATTT
69363205 AGAAATTAAAGCATCCAACCATCCCACTATCTTTAGGATGGCTAATTT
1 AGAAATTAAAGCATCCAACCATCCCACTATCTTTAGGATGGCTAATTT
69363253 A
1 A
69363254 CTCAATAAGG
Statistics
Matches: 49, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
48 49 1.00
ACGTcount: A:0.36, C:0.23, G:0.12, T:0.29
Consensus pattern (48 bp):
AGAAATTAAAGCATCCAACCATCCCACTATCTTTAGGATGGCTAATTT
Found at i:69371203 original size:78 final size:79
Alignment explanation
Indices: 69371062--69371323 Score: 277
Period size: 78 Copynumber: 3.3 Consensus size: 79
69371052 TTGAATGCTG
* * *
69371062 TCCGGGCTAAGTCCCGAAGGC--TTGTGCTA-AGTGAC-AATATCTGGACTAAGATCCGAAGGCA
1 TCCGGGCTAAG-CCCGAAGGCATTTGTGCGAGA-T-ACTAAT-TCTGGGCTAAGACCCGAAGGCA
*
69371123 TTTGTACGAGATGCTAAT
62 TTTGTACGAGATACTAAT
69371141 TCCGGGCTAAGCCCGAAGGCATTTGTGCGAGATACTAATTCTGGGCTAAG-CCCGAAGGCATTTG
1 TCCGGGCTAAGCCCGAAGGCATTTGTGCGAGATACTAATTCTGGGCTAAGACCCGAAGGCATTTG
*
69371205 TGCGAGATACTAAT
66 TACGAGATACTAAT
* * * * * *
69371219 TCCGGGCTAAGCCCGAAGGCATTTGTGCGAGTTACTAAATCCGGGTTAAGTCCCAAAGGCATTTG
1 TCCGGGCTAAGCCCGAAGGCATTTGTGCGAGATACTAATTCTGGGCTAAGACCCGAAGGCATTTG
*
69371284 TGCGA-ATTACT-AT
66 TACGAGA-TACTAAT
* * *
69371297 AACCGGGTTATGTCCCGAAGGCATTTG
1 -TCCGGGCTAAG-CCCGAAGGCATTTG
69371324 AACGAGGAGC
Statistics
Matches: 162, Mismatches: 13, Indels: 15
0.85 0.07 0.08
Matches are distributed among these distances:
78 83 0.51
79 53 0.33
80 25 0.15
81 1 0.01
ACGTcount: A:0.26, C:0.21, G:0.27, T:0.26
Consensus pattern (79 bp):
TCCGGGCTAAGCCCGAAGGCATTTGTGCGAGATACTAATTCTGGGCTAAGACCCGAAGGCATTTG
TACGAGATACTAAT
Found at i:69371288 original size:40 final size:39
Alignment explanation
Indices: 69371114--69371323 Score: 280
Period size: 39 Copynumber: 5.3 Consensus size: 39
69371104 GGACTAAGAT
* *
69371114 CCGAAGGCATTTGTACGAGATGCTAATTCCGGGCTAAGC
1 CCGAAGGCATTTGTGCGAGATACTAATTCCGGGCTAAGC
*
69371153 CCGAAGGCATTTGTGCGAGATACTAATTCTGGGCTAAGC
1 CCGAAGGCATTTGTGCGAGATACTAATTCCGGGCTAAGC
69371192 CCGAAGGCATTTGTGCGAGATACTAATTCCGGGCTAAGC
1 CCGAAGGCATTTGTGCGAGATACTAATTCCGGGCTAAGC
* * *
69371231 CCGAAGGCATTTGTGCGAGTTACTAAATCCGGGTTAAGTC
1 CCGAAGGCATTTGTGCGAGATACTAATTCCGGGCTAAG-C
* * * *
69371271 CCAAAGGCATTTGTGCGA-ATTACT-ATAACCGGGTTATGTC
1 CCGAAGGCATTTGTGCGAGA-TACTAAT-TCCGGGCTAAG-C
69371311 CCGAAGGCATTTG
1 CCGAAGGCATTTG
69371324 AACGAGGAGC
Statistics
Matches: 155, Mismatches: 13, Indels: 5
0.90 0.08 0.03
Matches are distributed among these distances:
39 110 0.71
40 45 0.29
ACGTcount: A:0.26, C:0.21, G:0.27, T:0.26
Consensus pattern (39 bp):
CCGAAGGCATTTGTGCGAGATACTAATTCCGGGCTAAGC
Found at i:69379170 original size:39 final size:39
Alignment explanation
Indices: 69379082--69379342 Score: 311
Period size: 39 Copynumber: 6.6 Consensus size: 39
69379072 TTGAATGCTG
*
69379082 TCCGGGCTAAGTCCCGAAGGC--TTGTGCTA-AGTGAC-AAT
1 TCCGGGCTAAG-CCCGAAGGCATTTGTGCGAGA-T-ACTAAT
* * *
69379120 ATCCGGACTAAGATCCGAAGGCATTTGTGTGAGATACTAAT
1 -TCCGGGCTAAG-CCCGAAGGCATTTGTGCGAGATACTAAT
69379161 T-CGGGCTAAGCCCGAAGGCATTTGTGCGAGATACTAAT
1 TCCGGGCTAAGCCCGAAGGCATTTGTGCGAGATACTAAT
69379199 TCCGGGCTAAGCCCGAAGGCATTTGTGCGAGATACTAAT
1 TCCGGGCTAAGCCCGAAGGCATTTGTGCGAGATACTAAT
* *
69379238 TCCGGGCTAAGCCCGAAGGCATTTGTGCGAGTTACTAAA
1 TCCGGGCTAAGCCCGAAGGCATTTGTGCGAGATACTAAT
*
69379277 TCCGGGTTAAGTCCCGAAGGCATTTGTGCGA-ATTACT-AT
1 TCCGGGCTAAG-CCCGAAGGCATTTGTGCGAGA-TACTAAT
* *
69379316 AACCGGGCTATGTCCCGAAGGCATTTG
1 -TCCGGGCTAAG-CCCGAAGGCATTTG
69379343 AACGAGGAGC
Statistics
Matches: 198, Mismatches: 16, Indels: 15
0.86 0.07 0.07
Matches are distributed among these distances:
38 27 0.14
39 111 0.56
40 49 0.25
41 10 0.05
42 1 0.01
ACGTcount: A:0.26, C:0.22, G:0.28, T:0.25
Consensus pattern (39 bp):
TCCGGGCTAAGCCCGAAGGCATTTGTGCGAGATACTAAT
Found at i:69383656 original size:26 final size:26
Alignment explanation
Indices: 69383627--69383685 Score: 66
Period size: 26 Copynumber: 2.3 Consensus size: 26
69383617 TGCTCAATAC
*
69383627 AGTCA-TACATCTCATAAGGGCATAAT
1 AGTCATTACACCTCAT-AGGGCATAAT
**
69383653 AGTCATTTTACCTCATAGGGCATAAT
1 AGTCATTACACCTCATAGGGCATAAT
*
69383679 AGACATT
1 AGTCATT
69383686 TATAAAATCT
Statistics
Matches: 28, Mismatches: 4, Indels: 2
0.82 0.12 0.06
Matches are distributed among these distances:
26 21 0.75
27 7 0.25
ACGTcount: A:0.36, C:0.19, G:0.15, T:0.31
Consensus pattern (26 bp):
AGTCATTACACCTCATAGGGCATAAT
Found at i:69385409 original size:56 final size:56
Alignment explanation
Indices: 69385357--69385666 Score: 462
Period size: 56 Copynumber: 5.6 Consensus size: 56
69385347 TTTTACTTGT
* * *
69385357 ACACATATATCAGAATCACATATCGATGCCAACGTATTAAATGTGGTA-TTACTCAC
1 ACACATATATCAGAGTCACATATCGATGCCAACGTATAAAATGTGG-ACTTACTCGC
* * * * *
69385413 ACATATATATCAGAGTCACATATTGATACCAACGTAGAAAATGTGGACTTACTCAC
1 ACACATATATCAGAGTCACATATCGATGCCAACGTATAAAATGTGGACTTACTCGC
* * * **
69385469 ACATATATATC-GGGTCACATATTGATGCCAACGTATAAAACATGGACTTACTCGC
1 ACACATATATCAGAGTCACATATCGATGCCAACGTATAAAATGTGGACTTACTCGC
*
69385524 ACACATATATCAGAGTCACATATCGATGCCAACATATAAAATGTGGACTTACTCGC
1 ACACATATATCAGAGTCACATATCGATGCCAACGTATAAAATGTGGACTTACTCGC
*
69385580 ACACATATATCAGAGTCACATATCGATGCCAACATATAAAATGTGGACTTACTCGC
1 ACACATATATCAGAGTCACATATCGATGCCAACGTATAAAATGTGGACTTACTCGC
69385636 ACACATATATCAGAGTCACATATCGATGCCA
1 ACACATATATCAGAGTCACATATCGATGCCA
69385667 CAAATACTTC
Statistics
Matches: 234, Mismatches: 18, Indels: 4
0.91 0.07 0.02
Matches are distributed among these distances:
55 49 0.21
56 185 0.79
ACGTcount: A:0.37, C:0.22, G:0.14, T:0.26
Consensus pattern (56 bp):
ACACATATATCAGAGTCACATATCGATGCCAACGTATAAAATGTGGACTTACTCGC
Found at i:69385502 original size:111 final size:112
Alignment explanation
Indices: 69385357--69385662 Score: 454
Period size: 111 Copynumber: 2.7 Consensus size: 112
69385347 TTTTACTTGT
* * * *
69385357 ACACATATATCAGAATCACATATCGATGCCAACGTATTAAATGTGGTA-TTACTCACACATATAT
1 ACACATATATCAGAGTCACATATCGATGCCAACGTATAAAATGTGG-ACTTACTCGCACACATAT
* *
69385421 ATCAGAGTCACATATTGATACCAACGTAGAAAATGTGGACTTACTCAC
65 ATCAGAGTCACATATCGATACCAACATAGAAAATGTGGACTTACTCAC
* * * **
69385469 ACATATATATC-GGGTCACATATTGATGCCAACGTATAAAACATGGACTTACTCGCACACATATA
1 ACACATATATCAGAGTCACATATCGATGCCAACGTATAAAATGTGGACTTACTCGCACACATATA
* * *
69385533 TCAGAGTCACATATCGATGCCAACATATAAAATGTGGACTTACTCGC
66 TCAGAGTCACATATCGATACCAACATAGAAAATGTGGACTTACTCAC
*
69385580 ACACATATATCAGAGTCACATATCGATGCCAACATATAAAATGTGGACTTACTCGCACACATATA
1 ACACATATATCAGAGTCACATATCGATGCCAACGTATAAAATGTGGACTTACTCGCACACATATA
69385645 TCAGAGTCACATATCGAT
66 TCAGAGTCACATATCGAT
69385663 GCCACAAATA
Statistics
Matches: 172, Mismatches: 20, Indels: 4
0.88 0.10 0.02
Matches are distributed among these distances:
110 1 0.01
111 95 0.55
112 76 0.44
ACGTcount: A:0.38, C:0.22, G:0.14, T:0.26
Consensus pattern (112 bp):
ACACATATATCAGAGTCACATATCGATGCCAACGTATAAAATGTGGACTTACTCGCACACATATA
TCAGAGTCACATATCGATACCAACATAGAAAATGTGGACTTACTCAC
Found at i:69385585 original size:27 final size:27
Alignment explanation
Indices: 69385555--69385644 Score: 71
Period size: 27 Copynumber: 3.3 Consensus size: 27
69385545 ATCGATGCCA
69385555 ACATATAAAATGTGGACTTACTCGCAC
1 ACATATAAAATGTGGACTTACTCGCAC
* * *
69385582 ACATATATCAGA-GT-CACATA-TCG-ATGCC
1 ACATATA--AAATGTGGACTTACTCGCA---C
69385610 AACATATAAAATGTGGACTTACTCGCAC
1 -ACATATAAAATGTGGACTTACTCGCAC
69385638 ACATATA
1 ACATATA
69385645 TCAGAGTCAC
Statistics
Matches: 47, Mismatches: 6, Indels: 20
0.64 0.08 0.27
Matches are distributed among these distances:
25 1 0.02
26 3 0.06
27 20 0.43
28 6 0.13
29 13 0.28
30 3 0.06
31 1 0.02
ACGTcount: A:0.39, C:0.22, G:0.13, T:0.26
Consensus pattern (27 bp):
ACATATAAAATGTGGACTTACTCGCAC
Found at i:69385592 original size:167 final size:168
Alignment explanation
Indices: 69385357--69385666 Score: 480
Period size: 167 Copynumber: 1.9 Consensus size: 168
69385347 TTTTACTTGT
* * *
69385357 ACACATATATCAGAATCACATATCGATGCCAACGTATTAAATGTGGTATTACTCACACATATATA
1 ACACATATATCAGAATCACATATCGATGCCAACATATAAAATGTGGTATTACTCACACACATATA
* * * *
69385422 TCAGAGTCACATATTGATACCAACGTAGAAAATGTGGACTTACTCACACATATATATC-GGGTCA
66 TCAGAGTCACATATCGATACCAACATAGAAAATGTGGACTTACTCACACACATATATCAGAGTCA
*
69385486 CATATTGATGCCAACGTATAAAACATGGACTTACTCGC
131 CATATCGATGCCAACGTATAAAACATGGACTTACTCGC
* *
69385524 ACACATATATCAGAGTCACATATCGATGCCAACATATAAAATGTGG-ACTTACTCGCACACATAT
1 ACACATATATCAGAATCACATATCGATGCCAACATATAAAATGTGGTA-TTACTCACACACATAT
* * *
69385588 ATCAGAGTCACATATCGATGCCAACATATAAAATGTGGACTTACTCGCACACATATATCAGAGTC
65 ATCAGAGTCACATATCGATACCAACATAGAAAATGTGGACTTACTCACACACATATATCAGAGTC
69385653 ACATATCGATGCCA
130 ACATATCGATGCCA
69385667 CAAATACTTC
Statistics
Matches: 128, Mismatches: 13, Indels: 3
0.89 0.09 0.02
Matches are distributed among these distances:
166 1 0.01
167 110 0.86
168 17 0.13
ACGTcount: A:0.37, C:0.22, G:0.14, T:0.26
Consensus pattern (168 bp):
ACACATATATCAGAATCACATATCGATGCCAACATATAAAATGTGGTATTACTCACACACATATA
TCAGAGTCACATATCGATACCAACATAGAAAATGTGGACTTACTCACACACATATATCAGAGTCA
CATATCGATGCCAACGTATAAAACATGGACTTACTCGC
Found at i:69390761 original size:21 final size:21
Alignment explanation
Indices: 69390736--69390776 Score: 57
Period size: 20 Copynumber: 2.0 Consensus size: 21
69390726 ACAAGTATGA
* *
69390736 TTTTTGATTTTATCT-AAGTT
1 TTTTTTATGTTATCTCAAGTT
69390756 TTTTTTATGTTATCTCAAGTT
1 TTTTTTATGTTATCTCAAGTT
69390777 ATGTAATGCT
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
20 13 0.72
21 5 0.28
ACGTcount: A:0.20, C:0.07, G:0.10, T:0.63
Consensus pattern (21 bp):
TTTTTTATGTTATCTCAAGTT
Found at i:69393157 original size:42 final size:41
Alignment explanation
Indices: 69393077--69393226 Score: 162
Period size: 41 Copynumber: 3.6 Consensus size: 41
69393067 GAGCTTGGTC
69393077 TCGAAGGGCTTTTGAGCCAGTGCTAATAACCGAACTTAGTT
1 TCGAAGGGCTTTTGAGCCAGTGCTAATAACCGAACTTAGTT
* *
69393118 TCGAAGGGCTTTTTAGAGCCAGTG-TCATAACCGGACTTAGTT
1 TCGAAGGGC-TTTT-GAGCCAGTGCTAATAACCGAACTTAGTT
* * * * * *
69393160 CCGAAGGGCCTTCGAGCCAGTAGTCTAAT--CCGAGCTTGGTC
1 TCGAAGGGCTTTTGAGCCAGT-G-CTAATAACCGAACTTAGTT
*
69393201 TCGAAGGGCTTTTGAGCCGGTGCTAA
1 TCGAAGGGCTTTTGAGCCAGTGCTAA
69393227 GAGTCGGACT
Statistics
Matches: 90, Mismatches: 14, Indels: 12
0.78 0.12 0.10
Matches are distributed among these distances:
39 4 0.04
40 9 0.10
41 37 0.41
42 28 0.31
43 12 0.13
ACGTcount: A:0.23, C:0.22, G:0.28, T:0.27
Consensus pattern (41 bp):
TCGAAGGGCTTTTGAGCCAGTGCTAATAACCGAACTTAGTT
Found at i:69393209 original size:41 final size:40
Alignment explanation
Indices: 69393057--69393226 Score: 161
Period size: 41 Copynumber: 4.2 Consensus size: 40
69393047 GCTAATCAGG
*
69393057 GTCTAAATCCGAGCTTGGTCTCGAAGGGCTTTTGAGCCAGT
1 GTCT-AATCCGAGCTTAGTCTCGAAGGGCTTTTGAGCCAGT
* *
69393098 G-CTAATAACCGAACTTAGTTTCGAAGGGCTTTTTAGAGCCAGT
1 GTCTAAT--CCGAGCTTAGTCTCGAAGGGC-TTTT-GAGCCAGT
* *
69393141 GTCATAA-CCG-GACTTAGT-TCCGAAGGGCCTTCGAGCCAGT
1 GTC-TAATCCGAG-CTTAGTCT-CGAAGGGCTTTTGAGCCAGT
* *
69393181 AGTCTAATCCGAGCTTGGTCTCGAAGGGCTTTTGAGCCGGT
1 -GTCTAATCCGAGCTTAGTCTCGAAGGGCTTTTGAGCCAGT
69393222 G-CTAA
1 GTCTAA
69393227 GAGTCGGACT
Statistics
Matches: 107, Mismatches: 10, Indels: 26
0.75 0.07 0.18
Matches are distributed among these distances:
39 7 0.07
40 14 0.13
41 50 0.47
42 23 0.21
43 9 0.08
44 1 0.01
45 3 0.03
ACGTcount: A:0.22, C:0.22, G:0.28, T:0.28
Consensus pattern (40 bp):
GTCTAATCCGAGCTTAGTCTCGAAGGGCTTTTGAGCCAGT
Found at i:69396640 original size:28 final size:28
Alignment explanation
Indices: 69396608--69396664 Score: 114
Period size: 28 Copynumber: 2.0 Consensus size: 28
69396598 CACAGTACTT
69396608 AATTAGAACATGTTTAATCATCTAAGGA
1 AATTAGAACATGTTTAATCATCTAAGGA
69396636 AATTAGAACATGTTTAATCATCTAAGGA
1 AATTAGAACATGTTTAATCATCTAAGGA
69396664 A
1 A
69396665 GCTAAGGTTT
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
28 29 1.00
ACGTcount: A:0.44, C:0.11, G:0.14, T:0.32
Consensus pattern (28 bp):
AATTAGAACATGTTTAATCATCTAAGGA
Found at i:69407405 original size:24 final size:24
Alignment explanation
Indices: 69407355--69407408 Score: 67
Period size: 24 Copynumber: 2.2 Consensus size: 24
69407345 AATCGAATTT
*
69407355 GCACACATAGTGCTCGTCACACTC
1 GCACACATAGTGCTAGTCACACTC
69407379 GCACACATAGTGCCATAGT-ACAC-C
1 GCACACATAGTG-C-TAGTCACACTC
69407403 GCACAC
1 GCACAC
69407409 TCAGTGCATT
Statistics
Matches: 27, Mismatches: 1, Indels: 4
0.84 0.03 0.12
Matches are distributed among these distances:
24 19 0.70
25 5 0.19
26 3 0.11
ACGTcount: A:0.30, C:0.37, G:0.17, T:0.17
Consensus pattern (24 bp):
GCACACATAGTGCTAGTCACACTC
Found at i:69417600 original size:28 final size:28
Alignment explanation
Indices: 69417518--69417607 Score: 119
Period size: 29 Copynumber: 3.1 Consensus size: 28
69417508 TGAGCATGAC
* *
69417518 TATAAATGTGAGTTGTGCAT-GATGGGCCA
1 TATAAATGTGA-TTGGGCCTAG-TGGGCCA
*
69417547 TATAAATGTGATCTGGGCCTAATGGGCCA
1 TATAAATGTGAT-TGGGCCTAGTGGGCCA
69417576 TATAAATGTGATTGGGCCTAGTGGGCCA
1 TATAAATGTGATTGGGCCTAGTGGGCCA
69417604 TATA
1 TATA
69417608 CAGGTATGTG
Statistics
Matches: 55, Mismatches: 4, Indels: 5
0.86 0.06 0.08
Matches are distributed among these distances:
28 20 0.36
29 35 0.64
ACGTcount: A:0.28, C:0.13, G:0.29, T:0.30
Consensus pattern (28 bp):
TATAAATGTGATTGGGCCTAGTGGGCCA
Found at i:69421471 original size:25 final size:25
Alignment explanation
Indices: 69421443--69421492 Score: 91
Period size: 25 Copynumber: 2.0 Consensus size: 25
69421433 AAAAATCGAG
*
69421443 GATGTATTGGTACGTGTAGAAAAAT
1 GATGTATTGGTACATGTAGAAAAAT
69421468 GATGTATTGGTACATGTAGAAAAAT
1 GATGTATTGGTACATGTAGAAAAAT
69421493 TTATCTTTCC
Statistics
Matches: 24, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
25 24 1.00
ACGTcount: A:0.38, C:0.04, G:0.26, T:0.32
Consensus pattern (25 bp):
GATGTATTGGTACATGTAGAAAAAT
Found at i:69425166 original size:46 final size:46
Alignment explanation
Indices: 69425116--69425215 Score: 148
Period size: 46 Copynumber: 2.2 Consensus size: 46
69425106 CCGATTATCC
* * * *
69425116 CTTCTCCTCTTTCTCAAATGGTTTA-TCCTTGAACCAATTGCTTTTT
1 CTTCTCCTCTCTCTCAAACGGTTTACTCCTT-AACCAATTACTTTTA
69425162 CTTCTCCTCTCTCTCAAACGGTTTACTCCTTAACCAATTACTTTTA
1 CTTCTCCTCTCTCTCAAACGGTTTACTCCTTAACCAATTACTTTTA
69425208 CTTCTCCT
1 CTTCTCCT
69425216 GCCCTCACTG
Statistics
Matches: 49, Mismatches: 4, Indels: 2
0.89 0.07 0.04
Matches are distributed among these distances:
46 44 0.90
47 5 0.10
ACGTcount: A:0.18, C:0.31, G:0.06, T:0.45
Consensus pattern (46 bp):
CTTCTCCTCTCTCTCAAACGGTTTACTCCTTAACCAATTACTTTTA
Found at i:69428775 original size:16 final size:15
Alignment explanation
Indices: 69428754--69428783 Score: 51
Period size: 16 Copynumber: 1.9 Consensus size: 15
69428744 TGCTATTAAT
69428754 TTATTAAAATAAAAGC
1 TTATTAAAA-AAAAGC
69428770 TTATTAAAAAAAAG
1 TTATTAAAAAAAAG
69428784 ATGATGCTAA
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
15 5 0.36
16 9 0.64
ACGTcount: A:0.60, C:0.03, G:0.07, T:0.30
Consensus pattern (15 bp):
TTATTAAAAAAAAGC
Found at i:69428854 original size:22 final size:19
Alignment explanation
Indices: 69428815--69428856 Score: 57
Period size: 22 Copynumber: 2.1 Consensus size: 19
69428805 TGCAAAGTTG
69428815 ATAATAATTAATATATATT
1 ATAATAATTAATATATATT
69428834 ATAATAGATATAATTATATATT
1 ATAATA-AT-TAA-TATATATT
69428856 A
1 A
69428857 AAAATAACCA
Statistics
Matches: 20, Mismatches: 0, Indels: 3
0.87 0.00 0.13
Matches are distributed among these distances:
19 6 0.30
20 2 0.10
21 3 0.15
22 9 0.45
ACGTcount: A:0.52, C:0.00, G:0.02, T:0.45
Consensus pattern (19 bp):
ATAATAATTAATATATATT
Found at i:69433183 original size:64 final size:64
Alignment explanation
Indices: 69433078--69433285 Score: 188
Period size: 67 Copynumber: 3.2 Consensus size: 64
69433068 CATCATGTGT
*
69433078 ACAAGAGAGCTACAAGACATTATGATGTAGCTAGGTCGCATGGGTGATACTATGTGTACACCATG
1 ACAAGAGAGCTACAAG--A-TA-AATGTAGCTAGGTCGCATGGGTGATACTATGTGTACACCATG
69433143 TAG
62 TAG
** * * * * * * *
69433146 ACAAGAGAGCTACGGGATATATGTAGCTAGGTCGCATGCGTGGTTCCAAGTGAAGGACACCATGT
1 ACAAGAGAGCTACAAGATAAATGTAGCTAGGTCGCATGGGT-GATACTA-TG-TGTACACCATGT
69433211 AG
63 AG
* * * *
69433213 ACAAGAGAGCTACAAGATAAACTG--GCTAGGTCACATGGGTGGTACTAAGTGTTCACCATGT-G
1 ACAAGAGAGCTACAAGATAAA-TGTAGCTAGGTCGCATGGGTGATACTATGTGTACACCATGTAG
69433275 TACAAGAGAGC
1 -ACAAGAGAGC
69433286 CGAACTATAT
Statistics
Matches: 114, Mismatches: 21, Indels: 15
0.76 0.14 0.10
Matches are distributed among these distances:
62 1 0.01
63 19 0.17
64 21 0.18
65 10 0.09
66 17 0.15
67 30 0.26
68 16 0.14
ACGTcount: A:0.32, C:0.17, G:0.28, T:0.22
Consensus pattern (64 bp):
ACAAGAGAGCTACAAGATAAATGTAGCTAGGTCGCATGGGTGATACTATGTGTACACCATGTAG
Found at i:69435320 original size:15 final size:17
Alignment explanation
Indices: 69435300--69435332 Score: 52
Period size: 16 Copynumber: 2.1 Consensus size: 17
69435290 ATAAGAATTC
69435300 GTGAT-ATATGT-ATAT
1 GTGATAATATGTGATAT
69435315 GTGATAATATGTGATAT
1 GTGATAATATGTGATAT
69435332 G
1 G
69435333 AAAGTTTATA
Statistics
Matches: 16, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
15 5 0.31
16 6 0.38
17 5 0.31
ACGTcount: A:0.33, C:0.00, G:0.24, T:0.42
Consensus pattern (17 bp):
GTGATAATATGTGATAT
Found at i:69437701 original size:66 final size:66
Alignment explanation
Indices: 69437573--69437701 Score: 152
Period size: 67 Copynumber: 1.9 Consensus size: 66
69437563 TACTATGTGT
* *** * * *
69437573 ACACCATGTAGACAAGAGCGCTATGGGATATATGTAGCTAGGTCGCATGCGTGGTTCCAAGTGAA
1 ACACCATGTAGACAAGAGAGCTACAAGATAAATG-AGCTAGGTCACATGCGTGGTACCAAGTGAA
69437638 GG
65 GG
* *
69437640 ACACCATGTAGACAAGAGAGCTACAAGATAAACTG-GCTAGGTCACATGGGTGGTACTAAGTG
1 ACACCATGTAGACAAGAGAGCTACAAGATAAA-TGAGCTAGGTCACATGCGTGGTACCAAGTG
69437702 TTCACCATGT
Statistics
Matches: 52, Mismatches: 9, Indels: 3
0.81 0.14 0.05
Matches are distributed among these distances:
66 23 0.44
67 27 0.52
68 2 0.04
ACGTcount: A:0.32, C:0.18, G:0.29, T:0.21
Consensus pattern (66 bp):
ACACCATGTAGACAAGAGAGCTACAAGATAAATGAGCTAGGTCACATGCGTGGTACCAAGTGAAG
G
Found at i:69455487 original size:29 final size:27
Alignment explanation
Indices: 69455455--69455514 Score: 77
Period size: 29 Copynumber: 2.1 Consensus size: 27
69455445 ATAGATGATC
*
69455455 TATGAAAAC-TTGTCATTTAAAAATTGAGT
1 TATGAAAACGTAGT-ATTTAAAAA-T-AGT
69455484 TATGAAAACGTAGTATTTAAAAATAGT
1 TATGAAAACGTAGTATTTAAAAATAGT
69455511 TATG
1 TATG
69455515 GTTTTAAGAA
Statistics
Matches: 29, Mismatches: 1, Indels: 4
0.85 0.03 0.12
Matches are distributed among these distances:
27 7 0.24
28 1 0.03
29 18 0.62
30 3 0.10
ACGTcount: A:0.43, C:0.05, G:0.15, T:0.37
Consensus pattern (27 bp):
TATGAAAACGTAGTATTTAAAAATAGT
Found at i:69456595 original size:28 final size:28
Alignment explanation
Indices: 69456543--69456652 Score: 112
Period size: 28 Copynumber: 3.9 Consensus size: 28
69456533 CATATTCGTT
* * * *
69456543 TGGCCCTATTAGGCCTAATCTCATTCATT
1 TGGCCC-ATCAGGCCCAATCACATTCATA
**
69456572 TGGCCCATTGGGCCCAATCACATTCATA
1 TGGCCCATCAGGCCCAATCACATTCATA
* * * *
69456600 TAGCTCATCAGGCCCAACCACTTTCATA
1 TGGCCCATCAGGCCCAATCACATTCATA
*
69456628 TGGCCCGTCAGGCCCAATCACATTC
1 TGGCCCATCAGGCCCAATCACATTC
69456653 GTAGTCATTC
Statistics
Matches: 66, Mismatches: 15, Indels: 1
0.80 0.18 0.01
Matches are distributed among these distances:
28 60 0.91
29 6 0.09
ACGTcount: A:0.24, C:0.34, G:0.15, T:0.27
Consensus pattern (28 bp):
TGGCCCATCAGGCCCAATCACATTCATA
Found at i:69460095 original size:43 final size:43
Alignment explanation
Indices: 69460011--69460168 Score: 135
Period size: 43 Copynumber: 3.7 Consensus size: 43
69460001 TCTGTGACAT
* * * *
69460011 CGTGTAAGACCGTGTCTGGGACA-CAGTCCTCGAT-TGAGATTTA
1 CGTGTAAGACCATGTCTGGGACATC-GGCATCGATAT-TGATTTA
* *
69460054 CGTATAAGACCATGTTTGGGACATCGGCATCG-TATCTGATTT-
1 CGTGTAAGACCATGTCTGGGACATCGGCATCGATAT-TGATTTA
* ** *
69460096 CGTGTAAGACCTTGTCTGGGACAGAGGCATCGATATTGAATTA
1 CGTGTAAGACCATGTCTGGGACATCGGCATCGATATTGATTTA
* * * *
69460139 CATGTAATACCACGTCTGGGACGTCGGCAT
1 CGTGTAAGACCATGTCTGGGACATCGGCAT
69460169 TGTTCTTGAT
Statistics
Matches: 91, Mismatches: 20, Indels: 8
0.76 0.17 0.07
Matches are distributed among these distances:
42 33 0.36
43 57 0.63
44 1 0.01
ACGTcount: A:0.25, C:0.20, G:0.27, T:0.28
Consensus pattern (43 bp):
CGTGTAAGACCATGTCTGGGACATCGGCATCGATATTGATTTA
Done.