Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: D11
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: 73211361
ACGTcount: A:0.33, C:0.16, G:0.16, T:0.33
Warning! 1690000 characters in sequence are not A, C, G, or T
File 194 of 240
Found at i:59096037 original size:6 final size:6
Alignment explanation
Indices: 59096026--59096052 Score: 54
Period size: 6 Copynumber: 4.5 Consensus size: 6
59096016 AGAAGGCATC
59096026 AGATAG AGATAG AGATAG AGATAG AGA
1 AGATAG AGATAG AGATAG AGATAG AGA
59096053 AAGGGCAGCT
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 21 1.00
ACGTcount: A:0.52, C:0.00, G:0.33, T:0.15
Consensus pattern (6 bp):
AGATAG
Found at i:59096513 original size:3 final size:3
Alignment explanation
Indices: 59096505--59096530 Score: 52
Period size: 3 Copynumber: 8.7 Consensus size: 3
59096495 TTGATAATCT
59096505 TCA TCA TCA TCA TCA TCA TCA TCA TC
1 TCA TCA TCA TCA TCA TCA TCA TCA TC
59096531 CTTGGTCTAA
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 23 1.00
ACGTcount: A:0.31, C:0.35, G:0.00, T:0.35
Consensus pattern (3 bp):
TCA
Found at i:59096804 original size:2 final size:2
Alignment explanation
Indices: 59096797--59096821 Score: 50
Period size: 2 Copynumber: 12.5 Consensus size: 2
59096787 GTTGTTAATA
59096797 AG AG AG AG AG AG AG AG AG AG AG AG A
1 AG AG AG AG AG AG AG AG AG AG AG AG A
59096822 AAAGGGATAC
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 23 1.00
ACGTcount: A:0.52, C:0.00, G:0.48, T:0.00
Consensus pattern (2 bp):
AG
Found at i:59097169 original size:3 final size:3
Alignment explanation
Indices: 59097136--59097179 Score: 52
Period size: 3 Copynumber: 14.7 Consensus size: 3
59097126 AAGCTGAGAA
* * * *
59097136 TCC TCC ACC TCC ACC TCC ACC TCC ACC TCC TCC TCC TCC TCC TC
1 TCC TCC TCC TCC TCC TCC TCC TCC TCC TCC TCC TCC TCC TCC TC
59097180 ATCATCATCA
Statistics
Matches: 33, Mismatches: 8, Indels: 0
0.80 0.20 0.00
Matches are distributed among these distances:
3 33 1.00
ACGTcount: A:0.09, C:0.66, G:0.00, T:0.25
Consensus pattern (3 bp):
TCC
Found at i:59097179 original size:6 final size:6
Alignment explanation
Indices: 59097137--59097177 Score: 64
Period size: 6 Copynumber: 6.8 Consensus size: 6
59097127 AGCTGAGAAT
* *
59097137 CCTCCA CCTCCA CCTCCA CCTCCA CCTCCT CCTCCT CCTCC
1 CCTCCA CCTCCA CCTCCA CCTCCA CCTCCA CCTCCA CCTCC
59097178 TCATCATCAT
Statistics
Matches: 34, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
6 34 1.00
ACGTcount: A:0.10, C:0.68, G:0.00, T:0.22
Consensus pattern (6 bp):
CCTCCA
Found at i:59116276 original size:75 final size:75
Alignment explanation
Indices: 59116161--59116304 Score: 193
Period size: 75 Copynumber: 1.9 Consensus size: 75
59116151 CAACTTTTAA
* * * *
59116161 ATTTGAATTATAATCACTAGATTATTGCAATTATAGTTACTCCAAATCTAGAATTCAAACTTC-A
1 ATTTGAAATATAATCACTAGATTATTGCAATAATAATTACTCCAAATCTAAAATTCAAAC-TCAA
59116225 GAAAATTCTAG
65 GAAAATTCTAG
** *
59116236 ATTTGAAATATAAT-AGCTAGATTATTGCAATAATAATTACTCTGAATTTAAAATTCAAACTCAA
1 ATTTGAAATATAATCA-CTAGATTATTGCAATAATAATTACTCCAAATCTAAAATTCAAACTCAA
59116300 GAAAA
65 GAAAA
59116305 ATAGATCTTA
Statistics
Matches: 60, Mismatches: 7, Indels: 4
0.85 0.10 0.06
Matches are distributed among these distances:
74 3 0.05
75 57 0.95
ACGTcount: A:0.44, C:0.12, G:0.09, T:0.35
Consensus pattern (75 bp):
ATTTGAAATATAATCACTAGATTATTGCAATAATAATTACTCCAAATCTAAAATTCAAACTCAAG
AAAATTCTAG
Found at i:59120675 original size:22 final size:22
Alignment explanation
Indices: 59120624--59120678 Score: 83
Period size: 22 Copynumber: 2.5 Consensus size: 22
59120614 AGAAATTTAT
*
59120624 TGTTTTGATGTTATTTTTCCAC
1 TGTTTTGTTGTTATTTTTCCAC
* *
59120646 TATTTTGTTGTTGTTTTTCCAC
1 TGTTTTGTTGTTATTTTTCCAC
59120668 TGTTTTGTTGT
1 TGTTTTGTTGT
59120679 CATGTCACTA
Statistics
Matches: 29, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
22 29 1.00
ACGTcount: A:0.09, C:0.11, G:0.16, T:0.64
Consensus pattern (22 bp):
TGTTTTGTTGTTATTTTTCCAC
Found at i:59133225 original size:15 final size:16
Alignment explanation
Indices: 59133200--59133229 Score: 53
Period size: 15 Copynumber: 1.9 Consensus size: 16
59133190 TTGAACTAAT
59133200 TTTATAATTTTTTTAC
1 TTTATAATTTTTTTAC
59133216 TTTA-AATTTTTTTA
1 TTTATAATTTTTTTA
59133230 GAATTTTTAA
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
15 10 0.71
16 4 0.29
ACGTcount: A:0.27, C:0.03, G:0.00, T:0.70
Consensus pattern (16 bp):
TTTATAATTTTTTTAC
Found at i:59133385 original size:20 final size:20
Alignment explanation
Indices: 59133360--59133397 Score: 60
Period size: 20 Copynumber: 1.9 Consensus size: 20
59133350 TCTGAGTTAA
59133360 AAAGTTTCTATACT-ATTTAT
1 AAAGTTT-TATACTGATTTAT
59133380 AAAGTTTTATACTGATTT
1 AAAGTTTTATACTGATTT
59133398 GGTGTCATTC
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
19 6 0.35
20 11 0.65
ACGTcount: A:0.34, C:0.08, G:0.08, T:0.50
Consensus pattern (20 bp):
AAAGTTTTATACTGATTTAT
Found at i:59136096 original size:5 final size:6
Alignment explanation
Indices: 59136066--59136095 Score: 51
Period size: 6 Copynumber: 4.8 Consensus size: 6
59136056 ACATTACAGC
59136066 GAAAAA GAAAAAA GAAAAA GAAAAA GAAAA
1 GAAAAA G-AAAAA GAAAAA GAAAAA GAAAA
59136096 GTTGGCTTGG
Statistics
Matches: 23, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
6 17 0.74
7 6 0.26
ACGTcount: A:0.83, C:0.00, G:0.17, T:0.00
Consensus pattern (6 bp):
GAAAAA
Found at i:59147576 original size:2 final size:2
Alignment explanation
Indices: 59147569--59147606 Score: 76
Period size: 2 Copynumber: 19.0 Consensus size: 2
59147559 CGCCTGCATT
59147569 GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA
1 GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA
59147607 TATGGTGAGT
Statistics
Matches: 36, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 36 1.00
ACGTcount: A:0.50, C:0.00, G:0.50, T:0.00
Consensus pattern (2 bp):
GA
Found at i:59152099 original size:27 final size:27
Alignment explanation
Indices: 59152069--59152126 Score: 89
Period size: 27 Copynumber: 2.1 Consensus size: 27
59152059 CAACACGAAA
* *
59152069 CTAACATAATTAACAATACTTTAAGAC
1 CTAACATAATAAACAATACTTCAAGAC
*
59152096 CTAACATAATAAACAATACTTCAATAC
1 CTAACATAATAAACAATACTTCAAGAC
59152123 CTAA
1 CTAA
59152127 ATTCTATTAA
Statistics
Matches: 28, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
27 28 1.00
ACGTcount: A:0.50, C:0.21, G:0.02, T:0.28
Consensus pattern (27 bp):
CTAACATAATAAACAATACTTCAAGAC
Found at i:59152544 original size:24 final size:25
Alignment explanation
Indices: 59152517--59152573 Score: 89
Period size: 25 Copynumber: 2.3 Consensus size: 25
59152507 ATTATATATT
*
59152517 AAATATATTTTTTTA-TTTTTAATC
1 AAATATATTTTTTAACTTTTTAATC
*
59152541 AAATATACTTTTTAACTTTTTAATC
1 AAATATATTTTTTAACTTTTTAATC
59152566 AAATATAT
1 AAATATAT
59152574 ATTTAGGTTT
Statistics
Matches: 29, Mismatches: 3, Indels: 1
0.88 0.09 0.03
Matches are distributed among these distances:
24 13 0.45
25 16 0.55
ACGTcount: A:0.39, C:0.07, G:0.00, T:0.54
Consensus pattern (25 bp):
AAATATATTTTTTAACTTTTTAATC
Found at i:59152586 original size:25 final size:25
Alignment explanation
Indices: 59152532--59152578 Score: 78
Period size: 25 Copynumber: 1.9 Consensus size: 25
59152522 TATTTTTTTA
*
59152532 TTTTTAATCAAATATACTTTTTAAC
1 TTTTTAATCAAATATACTATTTAAC
59152557 TTTTTAATCAAATATA-TATTTA
1 TTTTTAATCAAATATACTATTTA
59152579 GGTTTTTTTA
Statistics
Matches: 21, Mismatches: 1, Indels: 1
0.91 0.04 0.04
Matches are distributed among these distances:
24 5 0.24
25 16 0.76
ACGTcount: A:0.38, C:0.09, G:0.00, T:0.53
Consensus pattern (25 bp):
TTTTTAATCAAATATACTATTTAAC
Found at i:59153186 original size:31 final size:30
Alignment explanation
Indices: 59153151--59153230 Score: 83
Period size: 31 Copynumber: 2.6 Consensus size: 30
59153141 AGAAAATTTG
59153151 AGGATCAAATTGATAGAATT-TTTA-AATGT
1 AGGATCAAATTGATAGAATTATTTAGAAT-T
* * *
59153180 GAAGGATTAAATTTATTGAATTATTTAGAATT
1 --AGGATCAAATTGATAGAATTATTTAGAATT
*
59153212 CGGATCAAATTGATAGAAT
1 AGGATCAAATTGATAGAAT
59153231 ATGTAAGTAT
Statistics
Matches: 40, Mismatches: 7, Indels: 5
0.77 0.13 0.10
Matches are distributed among these distances:
30 15 0.38
31 17 0.43
32 5 0.12
33 3 0.08
ACGTcount: A:0.41, C:0.04, G:0.17, T:0.38
Consensus pattern (30 bp):
AGGATCAAATTGATAGAATTATTTAGAATT
Found at i:59155274 original size:29 final size:29
Alignment explanation
Indices: 59155211--59155278 Score: 75
Period size: 29 Copynumber: 2.3 Consensus size: 29
59155201 TAATCAACCG
* *
59155211 CGCACACTTAGTGTCATGTACTTTAAACT
1 CGCACACTTAGTGCCATGCACTTTAAACT
* **
59155240 CACACACTTAGTGCCATGCA-TTTCAAGTT
1 CGCACACTTAGTGCCATGCACTTT-AAACT
59155269 CGCACACTTA
1 CGCACACTTA
59155279 CCTTTTCCGC
Statistics
Matches: 32, Mismatches: 6, Indels: 2
0.80 0.15 0.05
Matches are distributed among these distances:
28 3 0.09
29 29 0.91
ACGTcount: A:0.28, C:0.28, G:0.13, T:0.31
Consensus pattern (29 bp):
CGCACACTTAGTGCCATGCACTTTAAACT
Found at i:59155390 original size:174 final size:174
Alignment explanation
Indices: 59155100--59155427 Score: 613
Period size: 174 Copynumber: 1.9 Consensus size: 174
59155090 AACTCAAGGT
* *
59155100 ACTTACCTTTTCCGCTGTCCAAAATTGACTCGGTAAAGTCGCACCCTTCATGTAAATAATTTATA
1 ACTTACCTTTTCCGCTGTCCAAAATCGACTCGGTAAAGTCGCACCCTTAATGTAAATAATTTATA
*
59155165 GAAAATATATATTGGGTTCGCACACATAGTGCTTAATAATCAACCGCGCACACTTAGTGTCATGT
66 GAAAATATATATTGGGTTCGCACACATAGTGCTTAATAATCAACCGCGCACACTTAGTGCCATGT
59155230 ACTTTAAACTCACACACTTAGTGCCATGCATTTCAAGTTCGCAC
131 ACTTTAAACTCACACACTTAGTGCCATGCATTTCAAGTTCGCAC
59155274 ACTTACCTTTTCCGCTGTCCAAAATCGACTCGGTAAA-TGCGCACCCTTAATGTAAATAATTTAT
1 ACTTACCTTTTCCGCTGTCCAAAATCGACTCGGTAAAGT-CGCACCCTTAATGTAAATAATTTAT
59155338 AGAAAATATATATTGGGTTCGCACACATAGTGCTTAATAATCAACCGCGCACACTTAGTGCCATG
65 AGAAAATATATATTGGGTTCGCACACATAGTGCTTAATAATCAACCGCGCACACTTAGTGCCATG
59155403 TACTTTAAACTCACACACTTAGTGC
130 TACTTTAAACTCACACACTTAGTGC
59155428 TGTACAATTT
Statistics
Matches: 150, Mismatches: 3, Indels: 2
0.97 0.02 0.01
Matches are distributed among these distances:
173 1 0.01
174 149 0.99
ACGTcount: A:0.31, C:0.24, G:0.14, T:0.30
Consensus pattern (174 bp):
ACTTACCTTTTCCGCTGTCCAAAATCGACTCGGTAAAGTCGCACCCTTAATGTAAATAATTTATA
GAAAATATATATTGGGTTCGCACACATAGTGCTTAATAATCAACCGCGCACACTTAGTGCCATGT
ACTTTAAACTCACACACTTAGTGCCATGCATTTCAAGTTCGCAC
Found at i:59155421 original size:29 final size:30
Alignment explanation
Indices: 59155387--59155458 Score: 96
Period size: 29 Copynumber: 2.5 Consensus size: 30
59155377 ATCAACCGCG
*
59155387 CACACTTAGTGCCATGTAC-TTTAAACTCA
1 CACACTTAGTGCCATGTACATTTAAACCCA
*
59155416 CACACTTAGTG-C-TGTACAATTTAAACCCG
1 CACACTTAGTGCCATGTAC-ATTTAAACCCA
59155445 CACACTTAGTGCCA
1 CACACTTAGTGCCA
59155459 ATCTCATGAC
Statistics
Matches: 37, Mismatches: 2, Indels: 6
0.82 0.04 0.13
Matches are distributed among these distances:
27 5 0.14
28 1 0.03
29 30 0.81
30 1 0.03
ACGTcount: A:0.31, C:0.29, G:0.12, T:0.28
Consensus pattern (30 bp):
CACACTTAGTGCCATGTACATTTAAACCCA
Found at i:59163426 original size:29 final size:29
Alignment explanation
Indices: 59163363--59163430 Score: 84
Period size: 29 Copynumber: 2.3 Consensus size: 29
59163353 TAATCAACCG
*
59163363 CGCACACTTAGTGCCATGTACTTTAAACT
1 CGCACACTTAGTGCCATGCACTTTAAACT
* **
59163392 CACACACTTAGTGCCATGCA-TTTCAAGTT
1 CGCACACTTAGTGCCATGCACTTT-AAACT
59163421 CGCACACTTA
1 CGCACACTTA
59163431 CCTTTTCCGC
Statistics
Matches: 33, Mismatches: 5, Indels: 2
0.82 0.12 0.05
Matches are distributed among these distances:
28 3 0.09
29 30 0.91
ACGTcount: A:0.28, C:0.29, G:0.13, T:0.29
Consensus pattern (29 bp):
CGCACACTTAGTGCCATGCACTTTAAACT
Found at i:59163542 original size:174 final size:174
Alignment explanation
Indices: 59163252--59163579 Score: 638
Period size: 174 Copynumber: 1.9 Consensus size: 174
59163242 AACTCAAGGT
* *
59163252 ACTTACCTTTTCCGCTGTCCAAAATTGACTCGGTAAAGTCGCACCCTTCATGTAAATAATTTATA
1 ACTTACCTTTTCCGCTGTCCAAAATCGACTCGGTAAAGTCGCACCCTTAATGTAAATAATTTATA
59163317 GAAAATATATATTGGGTTCGCACACATAGTGCTTAATAATCAACCGCGCACACTTAGTGCCATGT
66 GAAAATATATATTGGGTTCGCACACATAGTGCTTAATAATCAACCGCGCACACTTAGTGCCATGT
59163382 ACTTTAAACTCACACACTTAGTGCCATGCATTTCAAGTTCGCAC
131 ACTTTAAACTCACACACTTAGTGCCATGCATTTCAAGTTCGCAC
59163426 ACTTACCTTTTCCGCTGTCCAAAATCGACTCGGTAAAGTCGCACCCTTAATGTAAATAATTTATA
1 ACTTACCTTTTCCGCTGTCCAAAATCGACTCGGTAAAGTCGCACCCTTAATGTAAATAATTTATA
59163491 GAAAATATATATTGGGTTCGCACACATAGTGCTTAATAATCAACCGCGCACACTTAGTGCCATGT
66 GAAAATATATATTGGGTTCGCACACATAGTGCTTAATAATCAACCGCGCACACTTAGTGCCATGT
59163556 ACTTTAAACTCACACACTTAGTGC
131 ACTTTAAACTCACACACTTAGTGC
59163580 TGTACAATTT
Statistics
Matches: 152, Mismatches: 2, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
174 152 1.00
ACGTcount: A:0.31, C:0.24, G:0.14, T:0.30
Consensus pattern (174 bp):
ACTTACCTTTTCCGCTGTCCAAAATCGACTCGGTAAAGTCGCACCCTTAATGTAAATAATTTATA
GAAAATATATATTGGGTTCGCACACATAGTGCTTAATAATCAACCGCGCACACTTAGTGCCATGT
ACTTTAAACTCACACACTTAGTGCCATGCATTTCAAGTTCGCAC
Found at i:59163583 original size:27 final size:30
Alignment explanation
Indices: 59163539--59163609 Score: 87
Period size: 29 Copynumber: 2.5 Consensus size: 30
59163529 ATCAACCGCG
*
59163539 CACACTTAGTGCCATGTAC-TTTAAACTCA
1 CACACTTAGTGCCATGTACATTTAAACCCA
*
59163568 CACACTTAGTG-C-TGTACAATTTAAACCCG
1 CACACTTAGTGCCATGTAC-ATTTAAACCCA
59163597 CACACTTA-TGCCA
1 CACACTTAGTGCCA
59163610 ATCTCATGAC
Statistics
Matches: 36, Mismatches: 2, Indels: 7
0.80 0.04 0.16
Matches are distributed among these distances:
27 5 0.14
28 3 0.08
29 28 0.78
ACGTcount: A:0.31, C:0.30, G:0.11, T:0.28
Consensus pattern (30 bp):
CACACTTAGTGCCATGTACATTTAAACCCA
Found at i:59165596 original size:30 final size:31
Alignment explanation
Indices: 59165545--59165612 Score: 93
Period size: 30 Copynumber: 2.2 Consensus size: 31
59165535 TTTAAATTAG
*
59165545 TAATAAAAATTATACTTTAACCCCTCAAAAA
1 TAATAAAAATTATAATTTAACCCCTCAAAAA
* *
59165576 TAATAAAAATT-TAATTTAACCCTTTAAAAA
1 TAATAAAAATTATAATTTAACCCCTCAAAAA
*
59165606 TGATAAA
1 TAATAAA
59165613 GACAAACTAT
Statistics
Matches: 33, Mismatches: 4, Indels: 1
0.87 0.11 0.03
Matches are distributed among these distances:
30 22 0.67
31 11 0.33
ACGTcount: A:0.53, C:0.13, G:0.01, T:0.32
Consensus pattern (31 bp):
TAATAAAAATTATAATTTAACCCCTCAAAAA
Found at i:59176206 original size:27 final size:27
Alignment explanation
Indices: 59176176--59176279 Score: 82
Period size: 32 Copynumber: 3.5 Consensus size: 27
59176166 GTCTTGAATT
*
59176176 TGTTAGATATTGATTATGTTTTAAGCC
1 TGTTAGATATTGATTATATTTTAAGCC
*
59176203 TGTTAGATATTGAATTTATTATATTTTAAGCT
1 TGTTAGATATTG-----ATTATATTTTAAGCC
*
59176235 TGTTAGATATTGAATTTATTATATTTTAAGCT
1 TGTTAGATATTG-----ATTATATTTTAAGCC
*
59176267 TGTTGGATATTGA
1 TGTTAGATATTGA
59176280 AATGATTGAT
Statistics
Matches: 69, Mismatches: 3, Indels: 10
0.84 0.04 0.12
Matches are distributed among these distances:
27 13 0.19
32 56 0.81
ACGTcount: A:0.29, C:0.04, G:0.16, T:0.51
Consensus pattern (27 bp):
TGTTAGATATTGATTATATTTTAAGCC
Found at i:59176230 original size:32 final size:32
Alignment explanation
Indices: 59176188--59176280 Score: 159
Period size: 32 Copynumber: 2.9 Consensus size: 32
59176178 TTAGATATTG
* *
59176188 ATTATGTTTTAAGCCTGTTAGATATTGAATTT
1 ATTATATTTTAAGCTTGTTAGATATTGAATTT
59176220 ATTATATTTTAAGCTTGTTAGATATTGAATTT
1 ATTATATTTTAAGCTTGTTAGATATTGAATTT
*
59176252 ATTATATTTTAAGCTTGTTGGATATTGAA
1 ATTATATTTTAAGCTTGTTAGATATTGAA
59176281 ATGATTGATA
Statistics
Matches: 58, Mismatches: 3, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
32 58 1.00
ACGTcount: A:0.30, C:0.04, G:0.15, T:0.51
Consensus pattern (32 bp):
ATTATATTTTAAGCTTGTTAGATATTGAATTT
Found at i:59183730 original size:18 final size:18
Alignment explanation
Indices: 59183709--59183751 Score: 77
Period size: 18 Copynumber: 2.4 Consensus size: 18
59183699 ATAATTTAAA
59183709 ATATAAATTTATTAATAT
1 ATATAAATTTATTAATAT
59183727 ATATAAATTTATTAATAT
1 ATATAAATTTATTAATAT
*
59183745 ATGTAAA
1 ATATAAA
59183752 AACAACTTTT
Statistics
Matches: 24, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
18 24 1.00
ACGTcount: A:0.51, C:0.00, G:0.02, T:0.47
Consensus pattern (18 bp):
ATATAAATTTATTAATAT
Found at i:59183872 original size:20 final size:19
Alignment explanation
Indices: 59183827--59183864 Score: 67
Period size: 19 Copynumber: 2.0 Consensus size: 19
59183817 CATCCAAACA
*
59183827 CCAGACAAGTAAATCATTT
1 CCAGAAAAGTAAATCATTT
59183846 CCAGAAAAGTAAATCATTT
1 CCAGAAAAGTAAATCATTT
59183865 TCTAGAAATC
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:0.45, C:0.18, G:0.11, T:0.26
Consensus pattern (19 bp):
CCAGAAAAGTAAATCATTT
Found at i:59185435 original size:17 final size:16
Alignment explanation
Indices: 59185409--59185447 Score: 53
Period size: 17 Copynumber: 2.4 Consensus size: 16
59185399 AATCAATTAA
59185409 ATTAACTAAATTAATTT
1 ATTAACTAAA-TAATTT
*
59185426 ATTAATTAAATAATTT
1 ATTAACTAAATAATTT
59185442 -TTAACT
1 ATTAACT
59185448 CAATTTTTTC
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
15 5 0.25
16 6 0.30
17 9 0.45
ACGTcount: A:0.46, C:0.05, G:0.00, T:0.49
Consensus pattern (16 bp):
ATTAACTAAATAATTT
Found at i:59186115 original size:30 final size:30
Alignment explanation
Indices: 59186079--59186141 Score: 108
Period size: 30 Copynumber: 2.1 Consensus size: 30
59186069 ACTTAACAAG
*
59186079 CAAATGTCTCTAAAATAGTAACAAAATTAA
1 CAAATGTCTCTAAAATAATAACAAAATTAA
*
59186109 CAAATGTCTTTAAAATAATAACAAAATTAA
1 CAAATGTCTCTAAAATAATAACAAAATTAA
59186139 CAA
1 CAA
59186142 TAAAATAAGT
Statistics
Matches: 31, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
30 31 1.00
ACGTcount: A:0.56, C:0.13, G:0.05, T:0.27
Consensus pattern (30 bp):
CAAATGTCTCTAAAATAATAACAAAATTAA
Found at i:59186189 original size:14 final size:14
Alignment explanation
Indices: 59186172--59186202 Score: 53
Period size: 14 Copynumber: 2.2 Consensus size: 14
59186162 ATCCAAACAA
59186172 TAACAACAAAATAG
1 TAACAACAAAATAG
*
59186186 TAACAACATAATAG
1 TAACAACAAAATAG
59186200 TAA
1 TAA
59186203 AATAGTAGTA
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
14 16 1.00
ACGTcount: A:0.61, C:0.13, G:0.06, T:0.19
Consensus pattern (14 bp):
TAACAACAAAATAG
Found at i:59186787 original size:23 final size:23
Alignment explanation
Indices: 59186738--59186787 Score: 66
Period size: 23 Copynumber: 2.2 Consensus size: 23
59186728 CCAACATTTT
*
59186738 TTTTAGGTTTATTATATTATTAT
1 TTTTAGGTTTATTATATTATTAA
*
59186761 TTTTAGTTTTATTATAGTT-TTAA
1 TTTTAGGTTTATTATA-TTATTAA
59186784 TTTT
1 TTTT
59186788 TTTAATTTTA
Statistics
Matches: 24, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
23 22 0.92
24 2 0.08
ACGTcount: A:0.24, C:0.00, G:0.08, T:0.68
Consensus pattern (23 bp):
TTTTAGGTTTATTATATTATTAA
Found at i:59188478 original size:25 final size:26
Alignment explanation
Indices: 59188439--59188488 Score: 75
Period size: 25 Copynumber: 2.0 Consensus size: 26
59188429 GATAGATTTA
*
59188439 AATTATATATTTTTACATATTTTAAT
1 AATTATATATTTTTACAAATTTTAAT
*
59188465 AATT-TATATTTTTATAAATTTTAA
1 AATTATATATTTTTACAAATTTTAA
59188489 AAGTTTAAAT
Statistics
Matches: 22, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
25 18 0.82
26 4 0.18
ACGTcount: A:0.40, C:0.02, G:0.00, T:0.58
Consensus pattern (26 bp):
AATTATATATTTTTACAAATTTTAAT
Found at i:59189367 original size:14 final size:14
Alignment explanation
Indices: 59189348--59189377 Score: 60
Period size: 14 Copynumber: 2.1 Consensus size: 14
59189338 ATTTGAGAGT
59189348 GTATCATCAAATAG
1 GTATCATCAAATAG
59189362 GTATCATCAAATAG
1 GTATCATCAAATAG
59189376 GT
1 GT
59189378 GTGATGTAGT
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 16 1.00
ACGTcount: A:0.40, C:0.13, G:0.17, T:0.30
Consensus pattern (14 bp):
GTATCATCAAATAG
Found at i:59189814 original size:90 final size:90
Alignment explanation
Indices: 59189659--59189957 Score: 354
Period size: 90 Copynumber: 3.3 Consensus size: 90
59189649 ACTACTATTC
* * * **
59189659 AAAATGTTCGTATTATTTTTGTATCCGTAAATCAATTTTAGTCTGTATAATTTATTGGTAAAATT
1 AAAATGTTCGTATTATTTTTGTATCTGTAAATAAATTTTAGTCTGTATTATTTATTGGTCGAATT
*
59189724 TTATATTTTCTTATATCAATTTTGT
66 TTATATTTTCATATATCAATTTTGT
* * *
59189749 AAAATGTTTGTATTATTTTTAG-ATCTGTAAA-AATATTTTAGTTTGTATTATTTGTTGGTCGAA
1 AAAATGTTCGTATTATTTTT-GTATCTGTAAATAA-ATTTTAGTCTGTATTATTTATTGGTCGAA
* * *
59189812 TTTTATATTTTCGTATATCAAGTTTCT
64 TTTTATATTTTCATATATCAATTTTGT
* * *
59189839 AAAATGTTCGTATTATTTTTGTATATGTAAATAAAATTTAGTCAGTATTATTTATTGGTCGAATT
1 AAAATGTTCGTATTATTTTTGTATCTGTAAATAAATTTTAGTCTGTATTATTTATTGGTCGAATT
* * *
59189904 ATATATTTTCATATATTAGTTTTGT
66 TTATATTTTCATATATCAATTTTGT
* * *
59189929 AGAATGCTT-GTATT-TTCTTGTATATGTAA
1 AAAATG-TTCGTATTATTTTTGTATCTGTAA
59189958 TCTTTTTTGT
Statistics
Matches: 179, Mismatches: 25, Indels: 11
0.83 0.12 0.05
Matches are distributed among these distances:
89 16 0.09
90 158 0.88
91 5 0.03
ACGTcount: A:0.30, C:0.06, G:0.12, T:0.52
Consensus pattern (90 bp):
AAAATGTTCGTATTATTTTTGTATCTGTAAATAAATTTTAGTCTGTATTATTTATTGGTCGAATT
TTATATTTTCATATATCAATTTTGT
Found at i:59192709 original size:5 final size:5
Alignment explanation
Indices: 59192699--59192739 Score: 82
Period size: 5 Copynumber: 8.2 Consensus size: 5
59192689 GAGGTAGTAC
59192699 AACAA AACAA AACAA AACAA AACAA AACAA AACAA AACAA A
1 AACAA AACAA AACAA AACAA AACAA AACAA AACAA AACAA A
59192740 GCAGAACAAC
Statistics
Matches: 36, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 36 1.00
ACGTcount: A:0.80, C:0.20, G:0.00, T:0.00
Consensus pattern (5 bp):
AACAA
Found at i:59194021 original size:42 final size:41
Alignment explanation
Indices: 59193974--59194077 Score: 145
Period size: 42 Copynumber: 2.5 Consensus size: 41
59193964 ACAATGAGTT
*
59193974 ACACGGCCTGGACACACGCCAATGTCCTTGCTTGTGTAGCTC
1 ACACGGCCTGGGCACACGCC-ATGTCCTTGCTTGTGTAGCTC
** *
59194016 ACACGGGATGGGCACACGCTCATGTCCTTGCTTGTGTGGCTC
1 ACACGGCCTGGGCACACGC-CATGTCCTTGCTTGTGTAGCTC
*
59194058 ACAAGGCCTGGGCACACGCC
1 ACACGGCCTGGGCACACGCC
59194078 CATATCTCTG
Statistics
Matches: 54, Mismatches: 7, Indels: 3
0.84 0.11 0.05
Matches are distributed among these distances:
41 1 0.02
42 52 0.96
43 1 0.02
ACGTcount: A:0.18, C:0.33, G:0.28, T:0.21
Consensus pattern (41 bp):
ACACGGCCTGGGCACACGCCATGTCCTTGCTTGTGTAGCTC
Found at i:59194028 original size:104 final size:104
Alignment explanation
Indices: 59193803--59194042 Score: 250
Period size: 104 Copynumber: 2.3 Consensus size: 104
59193793 TGTCCATATG
* * * * * *
59193803 GCTCACACGGCCTGGGTACATGCCCATGTCGTCTGCATGTGTGTTTCTAAATCATAAATAGTGAG
1 GCTCACACGGCCTGGGCACATGCCCATGTC-CCTGCATATGTGTTTCTAAAGCATAAACAATGAG
** *
59193868 TTACACGGCCTAGACACACGCTTATATCCTTACTCATGTG
65 TTACACGGCCTAGACACACGCCAATATCCTTACTCATGTA
** *
59193908 GCTCACATAGCCTGGGCACATGCCCATGTCCCTGGCAATATG-G-TTCTAAAGCGTAAACAATGA
1 GCTCACACGGCCTGGGCACATGCCCATGTCCCT-GC-ATATGTGTTTCTAAAGCATAAACAATGA
* * * **
59193971 GTTACACGGCCTGGACACACGCCAATGTCCTTGCTTGTGTA
64 GTTACACGGCCTAGACACACGCCAATATCCTTACTCATGTA
** * *
59194012 GCTCACACGGGATGGGCACACGCTCATGTCC
1 GCTCACACGGCCTGGGCACATGCCCATGTCC
59194043 TTGCTTGTGT
Statistics
Matches: 110, Mismatches: 23, Indels: 5
0.80 0.17 0.04
Matches are distributed among these distances:
104 76 0.69
105 30 0.27
106 4 0.04
ACGTcount: A:0.24, C:0.28, G:0.23, T:0.25
Consensus pattern (104 bp):
GCTCACACGGCCTGGGCACATGCCCATGTCCCTGCATATGTGTTTCTAAAGCATAAACAATGAGT
TACACGGCCTAGACACACGCCAATATCCTTACTCATGTA
Found at i:59199826 original size:52 final size:52
Alignment explanation
Indices: 59199786--59199925 Score: 205
Period size: 51 Copynumber: 2.8 Consensus size: 52
59199776 TGTACCTGTT
*
59199786 TGATAGGCACGAATTAATTTTTTATATTAAAATTTTTTTAATCACGCCTATC
1 TGATAGGCACGAATTAATTTTTTATATTAAAATTTTTTTAATCGCGCCTATC
* *
59199838 TGACAGGCGCGAATT-ATTTTTTATATTAAAATTTTTTTAATCGCGCCTATC
1 TGATAGGCACGAATTAATTTTTTATATTAAAATTTTTTTAATCGCGCCTATC
* * *
59199889 T-ATAGGTATGAATCAATTTTTTATATT-AAATTTTTTT
1 TGATAGGCACGAATTAATTTTTTATATTAAAATTTTTTT
59199926 CTTTTAATAA
Statistics
Matches: 79, Mismatches: 8, Indels: 4
0.87 0.09 0.04
Matches are distributed among these distances:
50 18 0.23
51 48 0.61
52 13 0.16
ACGTcount: A:0.31, C:0.11, G:0.11, T:0.47
Consensus pattern (52 bp):
TGATAGGCACGAATTAATTTTTTATATTAAAATTTTTTTAATCGCGCCTATC
Found at i:59200597 original size:37 final size:38
Alignment explanation
Indices: 59200554--59200640 Score: 115
Period size: 40 Copynumber: 2.3 Consensus size: 38
59200544 TTTTACATTA
* **
59200554 TATTATTGTTAG-T-TATTATTTTTAGTAAAACCCTAAT
1 TATTATTGTTAGTTATATTATTTTGAGTAAAAAACT-AT
59200591 TATTATTGTTAGTTAGTATTATTTTGAGTAAAAAACTAT
1 TATTATTGTTAGTTA-TATTATTTTGAGTAAAAAACTAT
59200630 TATTATTGTTA
1 TATTATTGTTA
59200641 TTGTGTTAGT
Statistics
Matches: 44, Mismatches: 3, Indels: 4
0.86 0.06 0.08
Matches are distributed among these distances:
37 12 0.27
38 1 0.02
39 13 0.30
40 18 0.41
ACGTcount: A:0.33, C:0.05, G:0.10, T:0.52
Consensus pattern (38 bp):
TATTATTGTTAGTTATATTATTTTGAGTAAAAAACTAT
Found at i:59200634 original size:76 final size:76
Alignment explanation
Indices: 59200433--59200640 Score: 215
Period size: 76 Copynumber: 2.6 Consensus size: 76
59200423 TAGTTATTAA
*
59200433 TATTATTTTTACTTAGTATTATTGTTAGTAAAAAACTAATATTATTATTAGAATTAGTTATTAGG
1 TATTA-TTTTAGTTAGTATTATTGTTAGTAAAAAAC---TATTATTATT-G--TTAGTTATTAGG
59200498 ATTAGTAAAAACCCTAAT
59 ATTAGTAAAAACCCTAAT
* *** * * ***
59200516 TATTATTTTAGTTAGTATGATTGTTAGTTTTTACATTA-TATTATTGTTAGTTATTATTTTTAGT
1 TATTATTTTAGTTAGTATTATTGTTAG-TAAAAAACTATTATTATTGTTAGTTATTAGGATTAGT
59200580 -AAAACCCTAAT
65 AAAAACCCTAAT
59200591 TATTATTGTTAGTTAGTATTATT-TTGAGTAAAAAACTATTATTATTGTTA
1 TATTATT-TTAGTTAGTATTATTGTT-AGTAAAAAACTATTATTATTGTTA
59200641 TTGTGTTAGT
Statistics
Matches: 105, Mismatches: 16, Indels: 15
0.77 0.12 0.11
Matches are distributed among these distances:
75 25 0.24
76 42 0.40
78 1 0.01
79 7 0.07
80 2 0.02
82 20 0.19
83 8 0.08
ACGTcount: A:0.35, C:0.05, G:0.11, T:0.50
Consensus pattern (76 bp):
TATTATTTTAGTTAGTATTATTGTTAGTAAAAAACTATTATTATTGTTAGTTATTAGGATTAGTA
AAAACCCTAAT
Found at i:59203826 original size:10 final size:10
Alignment explanation
Indices: 59203800--59203830 Score: 55
Period size: 10 Copynumber: 3.2 Consensus size: 10
59203790 TCAATAAAAA
59203800 TATATTATTT
1 TATATTATTT
59203810 T-TATTATTT
1 TATATTATTT
59203819 TATATTATTT
1 TATATTATTT
59203829 TA
1 TA
59203831 GTACATTATG
Statistics
Matches: 20, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
9 9 0.45
10 11 0.55
ACGTcount: A:0.29, C:0.00, G:0.00, T:0.71
Consensus pattern (10 bp):
TATATTATTT
Found at i:59204020 original size:153 final size:154
Alignment explanation
Indices: 59203571--59204440 Score: 1020
Period size: 153 Copynumber: 5.7 Consensus size: 154
59203561 ACTTCAAAAA
* *
59203571 AAATTTAGTAAAAAACCCTTATTTC-GACGATTTGTTCGTATTTTTTCCCTGAATTTTATTACTT
1 AAATTTAGTAAAAAACCCTTATTTCGGCCCATTTGTTCGTATTTTTTCCC-GAATTTTATTACTT
59203635 T-AAAAAATATACTATTTTA-TAATTTTATTATTTTACATTATTTTAGTACATTATGTTTGAAAT
65 TAAAAAAATATACTA-TTTACTAATTTTATTATTTTACATTATTTTAGTACATTATGTTTGAAAT
*
59203698 TCATTAATTTAGTGTGTTTTTTTAAAT
129 TTATTAATTTAGTGTG-TTTTTTAAAT
* * *
59203725 AAATTTAGAAAAATAACCCTTATTTCGGCCC-TTTGCTCGTATTTTTTTCCCGGATTTTATTACT
1 AAATTTAGTAAAA-AACCCTTATTTCGGCCCATTTGTTCGTA-TTTTTTCCCGAATTTTATTACT
* * *
59203789 TTCAATAAAA-ATA-TA-TTA-T--TTTTATTATTTTATATTATTTTAGTACATTATGTTTAAAA
64 TT-AAAAAAATATACTATTTACTAATTTTATTATTTTACATTATTTTAGTACATTATGTTTGAAA
** * * *
59203848 TAGATTAATTAATTCTGTTTTTTAAA-
128 TTTATTAATTTAGTGTGTTTTTTAAAT
* *
59203874 AATATTTAGTAAAAAACCCTTATTTC-GCCCATTTGTTCGTATTTTCTCCTCGGATTTTATTACT
1 AA-ATTTAGTAAAAAACCCTTATTTCGGCCCATTTGTTCGTATTTTTTCC-CGAATTTTATTACT
59203938 TTAAAAAAATATACTA-TTACTAATTTTATTATTTTACATTATTTTAGTACATTATGTTTGAAAT
64 TTAAAAAAATATACTATTTACTAATTTTATTATTTTACATTATTTTAGTACATTATGTTTGAAAT
59204002 TTATTAATTTAGTGTG-TTTTTAAAT
129 TTATTAATTTAGTGTGTTTTTTAAAT
* * * * * *
59204027 AAATTTAATAAAAAATCCTTATTTCAG-TCATTTGCTCGTATTTTTTTCCGAATTTTATTACTGT
1 AAATTTAGTAAAAAACCCTTATTTCGGCCCATTTGTTCGTATTTTTTCCCGAATTTTATTACT-T
* * * *
59204091 CAATAAAAATATATTATTTTTCGT-ATTTTATTATTTTACATTATTTTAGTACATTATATTTGAA
65 TAA-AAAAATATACTA-TTTAC-TAATTTTATTATTTTACATTATTTTAGTACATTATGTTTGAA
* * * *
59204155 ATGTATTAATTAATTCTGTTTTTT---T
127 ATTTATTAATTTAGTGTGTTTTTTAAAT
** *
59204180 AAATTTAGTAAAAAACTTTTACTTCGGCCC-TTTGTTCGTATTTTTTCTCCGAATTTTATTACTT
1 AAATTTAGTAAAAAACCCTTATTTCGGCCCATTTGTTCGTATTTTTTC-CCGAATTTTATTACTT
* *
59204244 T-AAAAAATATACTATTTTCTAATTTTATTATTTTACATTATTTTAGTACATTATGTCTGAAATT
65 TAAAAAAATATACTATTTACTAATTTTATTATTTTACATTATTTTAGTACATTATGTTTGAAATT
*
59204308 TATTAATTTAGTGTGTTTTTGAAAT
130 TATTAATTTAGTGTGTTTTTTAAAT
* * *
59204333 AAATTTTA-AAAAATAACCCTTATTTC-GCCCATTTATTCGTATTTTTTCCTGAATTTTATTACT
1 AAA-TTTAGTAAAA-AACCCTTATTTCGGCCCATTTGTTCGTATTTTTTCCCGAATTTTATTACT
* *
59204396 TTAAATAAAAGTATA-TATATT--T-ATTTTGTTATTTTACATTTTTTT
64 TTAAA-AAAA-TATACTAT-TTACTAATTTTATTATTTTACATTATTTT
59204441 GGATTTTATT
Statistics
Matches: 617, Mismatches: 65, Indels: 69
0.82 0.09 0.09
Matches are distributed among these distances:
148 17 0.03
149 43 0.07
150 86 0.14
151 75 0.12
152 50 0.08
153 155 0.25
154 60 0.10
155 100 0.16
156 26 0.04
157 5 0.01
ACGTcount: A:0.31, C:0.10, G:0.07, T:0.51
Consensus pattern (154 bp):
AAATTTAGTAAAAAACCCTTATTTCGGCCCATTTGTTCGTATTTTTTCCCGAATTTTATTACTTT
AAAAAAATATACTATTTACTAATTTTATTATTTTACATTATTTTAGTACATTATGTTTGAAATTT
ATTAATTTAGTGTGTTTTTTAAAT
Found at i:59204307 original size:305 final size:300
Alignment explanation
Indices: 59203569--59204440 Score: 1208
Period size: 305 Copynumber: 2.9 Consensus size: 300
59203559 CAACTTCAAA
* **
59203569 AAAAATTTAGTAAAAAACCCTTATTTCGACGATTTGTTCGTATTTTTTCCCTGAATTTTATTACT
1 AAAAATTTAGTAAAAAACCCTTATTTCGGCCCTTTGTTCGTATTTTTTCCC-GAATTTTATTACT
*
59203634 TTAAAAAATATACTATTTTATAATTTTATTATTTTACATTATTTTAGTACATTATGTTTGAAATT
65 TTAAAAAATATACTATTTTCTAATTTTATTATTTTACATTATTTTAGTACATTATGTTTGAAATT
* *
59203699 CATTAATTTAGTGTGTTTTTTTAAATAAATTTAGAAAAATAACCCTTATTTCGGCCCTTTGCTCG
130 TATTAATTTAGTGTG--TTTTTAAATAAATTTA-AAAAATAACCCTTATTTC-GCCATTTGCTCG
* *
59203764 TATTTTTTTCCCGGATTTTATTACTTTCAATAAAAATATATTA---T-TTTTATTATTTTATATT
191 TATTTTTTT-CCGAATTTTATTACTTTCAATAAAAATATATTATTTTATTTTATTATTTTACATT
*
59203825 ATTTTAGTACATTATGTTTAAAATAGATTAATTAATTCTGTTTTTT
255 ATTTTAGTACATTATATTTAAAATAGATTAATTAATTCTGTTTTTT
* *
59203871 AAAAATATTTAGTAAAAAACCCTTATTTC-GCCCATTTGTTCGTATTTTCTCCTCGGATTTTATT
1 -AAAA-ATTTAGTAAAAAACCCTTATTTCGGCCC-TTTGTTCGTATTTTTTCC-CGAATTTTATT
*
59203935 ACTTTAAAAAAATATACTA-TTACTAATTTTATTATTTTACATTATTTTAGTACATTATGTTTGA
62 ACTTT-AAAAAATATACTATTTTCTAATTTTATTATTTTACATTATTTTAGTACATTATGTTTGA
* *
59203999 AATTTATTAATTTAGTGTGTTTTTAAATAAATTTAATAAAA-AATCCTTATTTCAGTCATTTGCT
126 AATTTATTAATTTAGTGTGTTTTTAAATAAATTTAA-AAAATAACCCTTATTTC-GCCATTTGCT
*
59204063 CGTATTTTTTTCCGAATTTTATTACTGTCAATAAAAATATATTATTTTTCGTATTTTATTATTTT
189 CGTATTTTTTTCCGAATTTTATTACTTTCAATAAAAATATATTA--TTT--TATTTTATTATTTT
*
59204128 ACATTATTTTAGTACATTATATTTGAAAT-GTATTAATTAATTCTGTTTTTT
250 ACATTATTTTAGTACATTATATTTAAAATAG-ATTAATTAATTCTGTTTTTT
* ** *
59204179 -TAAATTTAGTAAAAAACTTTTACTTCGGCCCTTTGTTCGTATTTTTTCTCCGAATTTTATTACT
1 AAAAATTTAGTAAAAAACCCTTATTTCGGCCCTTTGTTCGTATTTTTTC-CCGAATTTTATTACT
*
59204243 TTAAAAAATATACTATTTTCTAATTTTATTATTTTACATTATTTTAGTACATTATGTCTGAAATT
65 TTAAAAAATATACTATTTTCTAATTTTATTATTTTACATTATTTTAGTACATTATGTTTGAAATT
**
59204308 TATTAATTTAGTGTGTTTTTGAAATAAATTTTAAAAAATAACCCTTATTTCGCCCATTTATTCGT
130 TATTAATTTAGTGTGTTTTT-AAATAAA-TTTAAAAAATAACCCTTATTTCG-CCATTTGCTCGT
* * *
59204373 A-TTTTTTCCTGAATTTTATTACTTTAAATAAAAGTATA-TATATTTATTTTGTTATTTTACATT
192 ATTTTTTTCC-GAATTTTATTACTTTCAATAAAAATATATTAT-TTTATTTTATTATTTTACATT
*
59204436 TTTTT
255 ATTTT
59204441 GGATTTTATT
Statistics
Matches: 512, Mismatches: 34, Indels: 46
0.86 0.06 0.08
Matches are distributed among these distances:
300 31 0.06
301 31 0.06
302 20 0.04
303 27 0.05
304 129 0.25
305 134 0.26
306 29 0.06
307 53 0.10
308 58 0.11
ACGTcount: A:0.32, C:0.10, G:0.07, T:0.51
Consensus pattern (300 bp):
AAAAATTTAGTAAAAAACCCTTATTTCGGCCCTTTGTTCGTATTTTTTCCCGAATTTTATTACTT
TAAAAAATATACTATTTTCTAATTTTATTATTTTACATTATTTTAGTACATTATGTTTGAAATTT
ATTAATTTAGTGTGTTTTTAAATAAATTTAAAAAATAACCCTTATTTCGCCATTTGCTCGTATTT
TTTTCCGAATTTTATTACTTTCAATAAAAATATATTATTTTATTTTATTATTTTACATTATTTTA
GTACATTATATTTAAAATAGATTAATTAATTCTGTTTTTT
Found at i:59204791 original size:19 final size:18
Alignment explanation
Indices: 59204759--59204826 Score: 63
Period size: 19 Copynumber: 3.9 Consensus size: 18
59204749 TATTTTTCCT
* *
59204759 TCCTTCCCTCTTCTTGTTC
1 TCCTTTCCTTTTCTT-TTC
59204778 TCCTTTCCTTTTC--TT-
1 TCCTTTCCTTTTCTTTTC
*
59204793 T-CTTTCTTTTTCTTTCTC
1 TCCTTTCCTTTTCTTT-TC
59204811 TCCTTTCCTTTTCTTT
1 TCCTTTCCTTTTCTTT
59204827 CTTAATTTCT
Statistics
Matches: 40, Mismatches: 4, Indels: 10
0.74 0.07 0.19
Matches are distributed among these distances:
14 10 0.25
15 1 0.03
16 3 0.08
17 1 0.03
18 1 0.03
19 24 0.60
ACGTcount: A:0.00, C:0.34, G:0.01, T:0.65
Consensus pattern (18 bp):
TCCTTTCCTTTTCTTTTC
Found at i:59204803 original size:14 final size:14
Alignment explanation
Indices: 59204780--59204848 Score: 66
Period size: 14 Copynumber: 4.6 Consensus size: 14
59204770 TCTTGTTCTC
59204780 CTTTCCTTTTCTTT
1 CTTTCCTTTTCTTT
*
59204794 CTTTCTTTTTCTTT
1 CTTTCCTTTTCTTT
* *
59204808 CTCTCCTTTCCTTTT
1 CTTTCCTTTTC-TTT
*
59204823 CTTTCTTAATTTCTTT
1 CTTTCCT--TTTCTTT
59204839 CTTCTCCTTT
1 CTT-TCCTTT
59204849 CCTTCTCCAC
Statistics
Matches: 43, Mismatches: 8, Indels: 7
0.74 0.14 0.12
Matches are distributed among these distances:
14 21 0.49
15 10 0.23
16 6 0.14
17 6 0.14
ACGTcount: A:0.03, C:0.29, G:0.00, T:0.68
Consensus pattern (14 bp):
CTTTCCTTTTCTTT
Found at i:59204806 original size:33 final size:32
Alignment explanation
Indices: 59204769--59204852 Score: 107
Period size: 33 Copynumber: 2.6 Consensus size: 32
59204759 TCCTTCCCTC
**
59204769 TTCTTGTTCTCCTTTCCTTTTCTTTCTTTCTTT
1 TTCTT-TTCTCCTTTCCTTTTCTTTCTTAATTT
59204802 TTCTTTCTCTCCTTTCCTTTTCTTTCTTAATTT
1 TTCTTT-TCTCCTTTCCTTTTCTTTCTTAATTT
*
59204835 CTT-TCTTCTCCTTTCCTT
1 -TTCTTTTCTCCTTTCCTT
59204853 CTCCACCCCA
Statistics
Matches: 46, Mismatches: 3, Indels: 5
0.85 0.06 0.09
Matches are distributed among these distances:
32 13 0.28
33 31 0.67
34 2 0.04
ACGTcount: A:0.02, C:0.30, G:0.01, T:0.67
Consensus pattern (32 bp):
TTCTTTTCTCCTTTCCTTTTCTTTCTTAATTT
Found at i:59204843 original size:19 final size:19
Alignment explanation
Indices: 59204795--59204843 Score: 55
Period size: 19 Copynumber: 2.6 Consensus size: 19
59204785 CTTTTCTTTC
**
59204795 TTTCTTTTTCTTTCTCTCC
1 TTTCTTTTTCTTTCTCTAA
*
59204814 TTTCCTTTTCTTTCT-TAA
1 TTTCTTTTTCTTTCTCTAA
59204832 TTTCTTTCTTCT
1 TTTCTTT-TTCT
59204844 CCTTTCCTTC
Statistics
Matches: 25, Mismatches: 4, Indels: 2
0.81 0.13 0.06
Matches are distributed among these distances:
18 7 0.28
19 18 0.72
ACGTcount: A:0.04, C:0.27, G:0.00, T:0.69
Consensus pattern (19 bp):
TTTCTTTTTCTTTCTCTAA
Found at i:59205021 original size:16 final size:17
Alignment explanation
Indices: 59205000--59205034 Score: 54
Period size: 16 Copynumber: 2.1 Consensus size: 17
59204990 AAAAAAAATA
59205000 TTATTTTGGTATT-TTT
1 TTATTTTGGTATTATTT
*
59205016 TTATTTTTGTATTATTT
1 TTATTTTGGTATTATTT
59205033 TT
1 TT
59205035 GTAAAAGACC
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
16 12 0.71
17 5 0.29
ACGTcount: A:0.14, C:0.00, G:0.09, T:0.77
Consensus pattern (17 bp):
TTATTTTGGTATTATTT
Found at i:59205459 original size:50 final size:50
Alignment explanation
Indices: 59205403--59205510 Score: 180
Period size: 50 Copynumber: 2.1 Consensus size: 50
59205393 TTTATTAAAC
*
59205403 AAAAAAATTTAATATAAAAAATTGATTCGCGCCTGTTAGATAGGCGCGATT
1 AAAAAAA-TTAATATAAAAAATTGATTCGCGCCTGTTAGATAGACGCGATT
* *
59205454 AAAAAAATTAATATAAAAAATTGATTTGCGCTTGTTAGATAGACGCGATT
1 AAAAAAATTAATATAAAAAATTGATTCGCGCCTGTTAGATAGACGCGATT
59205504 AAAAAAA
1 AAAAAAA
59205511 ACATACCATT
Statistics
Matches: 54, Mismatches: 3, Indels: 1
0.93 0.05 0.02
Matches are distributed among these distances:
50 47 0.87
51 7 0.13
ACGTcount: A:0.46, C:0.09, G:0.16, T:0.29
Consensus pattern (50 bp):
AAAAAAATTAATATAAAAAATTGATTCGCGCCTGTTAGATAGACGCGATT
Found at i:59206524 original size:17 final size:15
Alignment explanation
Indices: 59206467--59206541 Score: 55
Period size: 15 Copynumber: 4.9 Consensus size: 15
59206457 TGGTAGTGGC
*
59206467 TTAGGGTTT-TGGGT
1 TTAGGGTTTAGGGGT
**
59206481 TTAAGGGTTTATAGG-
1 TT-AGGGTTTAGGGGT
59206496 TTAGGGGTTTAGGGGCT
1 TTA-GGGTTTAGGGG-T
* *
59206513 TATAGTGTTTAGTGGT
1 T-TAGGGTTTAGGGGT
59206529 TTAGGGTTTAGGG
1 TTAGGGTTTAGGG
59206542 TATAAGGTTT
Statistics
Matches: 48, Mismatches: 7, Indels: 11
0.73 0.11 0.17
Matches are distributed among these distances:
14 3 0.06
15 28 0.58
16 5 0.10
17 10 0.21
18 2 0.04
ACGTcount: A:0.16, C:0.01, G:0.40, T:0.43
Consensus pattern (15 bp):
TTAGGGTTTAGGGGT
Found at i:59206536 original size:7 final size:7
Alignment explanation
Indices: 59206467--59206552 Score: 57
Period size: 7 Copynumber: 11.4 Consensus size: 7
59206457 TGGTAGTGGC
59206467 TTAGGGT
1 TTAGGGT
*
59206474 TTTGGGT
1 TTAGGGT
59206481 TTAAGGGT
1 TT-AGGGT
*
59206489 TTATAGG-
1 TTA-GGGT
59206496 TTAGGGGT
1 TTA-GGGT
59206504 TTAGGGGCT
1 TTA-GGG-T
*
59206513 TATAGTGT
1 T-TAGGGT
59206521 TTAGTGGT
1 TTAG-GGT
59206529 TTAGGGT
1 TTAGGGT
59206536 TTAGGGT
1 TTAGGGT
* *
59206543 ATAAGGT
1 TTAGGGT
59206550 TTA
1 TTA
59206553 AGATTTATGA
Statistics
Matches: 63, Mismatches: 10, Indels: 12
0.74 0.12 0.14
Matches are distributed among these distances:
7 34 0.54
8 23 0.37
9 4 0.06
10 2 0.03
ACGTcount: A:0.19, C:0.01, G:0.37, T:0.43
Consensus pattern (7 bp):
TTAGGGT
Found at i:59206850 original size:23 final size:21
Alignment explanation
Indices: 59206824--59206865 Score: 57
Period size: 21 Copynumber: 1.9 Consensus size: 21
59206814 ATTTAAGGGT
59206824 TATGCTAAAAACATAGAAAAATA
1 TATG-TAAAAA-ATAGAAAAATA
*
59206847 TATGTTAAAAATAGAAAAA
1 TATGTAAAAAATAGAAAAA
59206866 AATAAAATAG
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
21 9 0.50
22 5 0.28
23 4 0.22
ACGTcount: A:0.62, C:0.05, G:0.10, T:0.24
Consensus pattern (21 bp):
TATGTAAAAAATAGAAAAATA
Found at i:59207152 original size:115 final size:112
Alignment explanation
Indices: 59206990--59207446 Score: 402
Period size: 115 Copynumber: 4.0 Consensus size: 112
59206980 TTGTCTAATT
* * * * * * *
59206990 TTTTAGTGGCATTTTTACTAAAATGCCGCAAAAAGAGTTATATTAGTGGCGTTTCTACGAAAAAC
1 TTTTAGTGGCGTTTTTACAAAAACGCCGC-AAAAGTGATGTGTTAGTGGCGTTT-TAC-AAAAAC
* * * *
59207055 GCCGCAATTATATTTTTTTGTCTTTGTTAAACGCTGTCGTTTTTATCTACG
63 GCCGCAATTAT-GTTATTAGTCTTTGTTAAACGTTGTCGTTTTTATCTACG
* * **
59207106 TTTTCAGTGGCGTTTTTGCCAAAACGCCGCAAAA-TGATGTGTTAGTGGCGTTTT-CAGGTAACG
1 TTTT-AGTGGCGTTTTTACAAAAACGCCGCAAAAGTGATGTGTTAGTGGCGTTTTACA-AAAACG
* *
59207169 CCGCAATTATGTTATTAGCCTTT-TGTAAACGTTGTCGTTTTTATCTACA
64 CCGCAATTATGTTATTAGTCTTTGT-TAAACGTTGTCGTTTTTATCTACG
* * * *
59207218 TTATTAGTGGCGTTTTTACAAAAACGCCGCAAAAGGTTATGTGGTAGTGGCGTTTTTATAAAAAT
1 TT-TTAGTGGCGTTTTTACAAAAACGCCGCAAAA-GTGATGTGTTAGTGGCG-TTTTACAAAAAC
* * * *
59207283 GCCGCAATTATGTTATAAGTGTTTGCTAAATGTTGTCGTTTTTATCTACG
63 GCCGCAATTATGTTATTAGTCTTTGTTAAACGTTGTCGTTTTTATCTACG
* * ** * * * *
59207333 TTTTTAGTGGCGTTTGTACTAAAACGCCGGTAAAG-GATATGTTTTAGTAGCGTTTTTATTATAA
1 -TTTTAGTGGCGTTTTTACAAAAACGCCGCAAAAGTG--ATGTGTTAGTGGCG-TTTTA-CAAAA
* * *
59207397 ACACCGCAATTATGTT-TTAAGTGTTTGCTAAACGTTGTCGTTTTCTATCT
61 ACGCCGCAATTATGTTATT-AGTCTTTGTTAAACGTTGTCGTTTT-TATCT
59207447 GGGATTTTTT
Statistics
Matches: 283, Mismatches: 43, Indels: 29
0.80 0.12 0.08
Matches are distributed among these distances:
111 1 0.00
112 61 0.22
113 17 0.06
114 16 0.06
115 109 0.39
116 53 0.19
117 26 0.09
ACGTcount: A:0.25, C:0.15, G:0.20, T:0.40
Consensus pattern (112 bp):
TTTTAGTGGCGTTTTTACAAAAACGCCGCAAAAGTGATGTGTTAGTGGCGTTTTACAAAAACGCC
GCAATTATGTTATTAGTCTTTGTTAAACGTTGTCGTTTTTATCTACG
Found at i:59207633 original size:37 final size:38
Alignment explanation
Indices: 59207585--59207671 Score: 115
Period size: 40 Copynumber: 2.3 Consensus size: 38
59207575 TTTTACATTA
* **
59207585 TATTATTGTTAG-T-TATTATTTTTAGTAAAACCCTAAT
1 TATTATTGTTAGTTATATTATTTTGAGTAAAAAACT-AT
59207622 TATTATTGTTAGTTAGTATTATTTTGAGTAAAAAACTAT
1 TATTATTGTTAGTTA-TATTATTTTGAGTAAAAAACTAT
59207661 TATTATTGTTA
1 TATTATTGTTA
59207672 TTGTGTTAGT
Statistics
Matches: 44, Mismatches: 3, Indels: 4
0.86 0.06 0.08
Matches are distributed among these distances:
37 12 0.27
38 1 0.02
39 13 0.30
40 18 0.41
ACGTcount: A:0.33, C:0.05, G:0.10, T:0.52
Consensus pattern (38 bp):
TATTATTGTTAGTTATATTATTTTGAGTAAAAAACTAT
Found at i:59210857 original size:10 final size:10
Alignment explanation
Indices: 59210831--59210861 Score: 55
Period size: 10 Copynumber: 3.2 Consensus size: 10
59210821 TCAATAAAAA
59210831 TATATTATTT
1 TATATTATTT
59210841 T-TATTATTT
1 TATATTATTT
59210850 TATATTATTT
1 TATATTATTT
59210860 TA
1 TA
59210862 GTACATTATG
Statistics
Matches: 20, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
9 9 0.45
10 11 0.55
ACGTcount: A:0.29, C:0.00, G:0.00, T:0.71
Consensus pattern (10 bp):
TATATTATTT
Found at i:59211218 original size:304 final size:300
Alignment explanation
Indices: 59210600--59211470 Score: 1201
Period size: 304 Copynumber: 2.9 Consensus size: 300
59210590 CAACTTCAAA
* *
59210600 AAAAATTTAGTAAAAAACCCTTATTTCGACGATTTGTTCGTATTTTTTCC-CTGAATTTTATTAC
1 AAAAATTTAGTAAAAAACCCTTATTTCGCCCATTTGTTCGTA-TTTTTCCTC-GAATTTTATTAC
59210664 TTTAAAAAATATACTATTTTA-TAATTTTATTATTTTACATTATTTTAGTACATTATGTTTGAAA
64 TTTAAAAAATATACTA-TTTACTAATTTTATTATTTTACATTATTTTAGTACATTATGTTTGAAA
* *
59210728 TTCATTAATTTAGTGTGTTTTTTTAAATAAATTTAGAAAAATAACCCTTATTTCGGCCCTTTGCT
128 TTTATTAATTTAGTGTG--TTTTTAAATAAATTTA-AAAAATAACCCTTATTTC-GCCATTTGCT
* *
59210793 CGTATTTTTTTCCCGGATTTTATTACTTTCAATAAAAATATATTA---T-TTTTATTATTTTATA
189 CGTATTTTTTT-CCGAATTTTATTACTTTCAATAAAAATATATTATTTTATTTTATTATTTTACA
*
59210854 TTATTTTAGTACATTATGTTTAAAATAGATTAATTAATTCTGTTTTTT
253 TTATTTTAGTACATTATATTTAAAATAGATTAATTAATTCTGTTTTTT
*
59210902 AAAAATATTTAGTAAAAAACCCTTATTTCGCCCATTTGTTCGTATTTTCTCCTCGGATTTTATTA
1 -AAAA-ATTTAGTAAAAAACCCTTATTTCGCCCATTTGTTCGTATTTT-TCCTCGAATTTTATTA
59210967 CTTTAAAAAATATACTA-TTACTAATTTTATTATTTTACATTATTTTAGTACATTATGTTTGAAA
63 CTTTAAAAAATATACTATTTACTAATTTTATTATTTTACATTATTTTAGTACATTATGTTTGAAA
* *
59211031 TTTATTAATTTAGTGTGTTTTTAAATAAATTTAATAAAA-AATCCTTATTTCAGTCATTTGCTCG
128 TTTATTAATTTAGTGTGTTTTTAAATAAATTTAA-AAAATAACCCTTATTTC-GCCATTTGCTCG
*
59211095 TATTTTTTTCCGAATTTTATTACTGTCAATAAAAATATATTATTTTTCGTATTTTATTATTTTAC
191 TATTTTTTTCCGAATTTTATTACTTTCAATAAAAATATATTA--TTT--TATTTTATTATTTTAC
*
59211160 ATTATTTTAGTACATTATATTTGAAAT-GTATTAATTAATTCTGTTTTTT
252 ATTATTTTAGTACATTATATTTAAAATAG-ATTAATTAATTCTGTTTTTT
* ** * *
59211209 -TAAATTTAGTAAAAAACTTTTACTTCGGCCC-TTTGTTCGTATTTTTTCTCCGAATTTTATTAC
1 AAAAATTTAGTAAAAAACCCTTATTTC-GCCCATTTGTTCGTATTTTTCCT-CGAATTTTATTAC
* *
59211272 TTTAAAAAATATACTATTTTCTAATTTTATTATTTTACATTATTTTAGTACATTATGTCTGAAAT
64 TTTAAAAAATATACTATTTACTAATTTTATTATTTTACATTATTTTAGTACATTATGTTTGAAAT
**
59211337 TTATTAATTTAGTGTGTTTTTGAAATAAATTTTAAAAAATAACCCTTATTTCGCCCATTTATTCG
129 TTATTAATTTAGTGTGTTTTT-AAATAAA-TTTAAAAAATAACCCTTATTTCG-CCATTTGCTCG
* * *
59211402 TA-TTTTTTCCTGAATTTTATTACTTTAAATAAAAGTATA-TATATTTATTTTGTTATTTTACAT
191 TATTTTTTTCC-GAATTTTATTACTTTCAATAAAAATATATTAT-TTTATTTTATTATTTTACAT
*
59211465 TTTTTT
254 TATTTT
59211471 GGATTTTATT
Statistics
Matches: 515, Mismatches: 30, Indels: 46
0.87 0.05 0.08
Matches are distributed among these distances:
299 31 0.06
300 31 0.06
301 20 0.04
302 3 0.01
303 92 0.18
304 129 0.25
305 76 0.15
306 24 0.05
307 109 0.21
ACGTcount: A:0.31, C:0.10, G:0.07, T:0.51
Consensus pattern (300 bp):
AAAAATTTAGTAAAAAACCCTTATTTCGCCCATTTGTTCGTATTTTTCCTCGAATTTTATTACTT
TAAAAAATATACTATTTACTAATTTTATTATTTTACATTATTTTAGTACATTATGTTTGAAATTT
ATTAATTTAGTGTGTTTTTAAATAAATTTAAAAAATAACCCTTATTTCGCCATTTGCTCGTATTT
TTTTCCGAATTTTATTACTTTCAATAAAAATATATTATTTTATTTTATTATTTTACATTATTTTA
GTACATTATATTTAAAATAGATTAATTAATTCTGTTTTTT
Found at i:59211383 original size:458 final size:453
Alignment explanation
Indices: 59210602--59211470 Score: 1111
Period size: 458 Copynumber: 1.9 Consensus size: 453
59210592 ACTTCAAAAA
* * *
59210602 AAATTTAGTAAAAAACCCTTATTTCGACGATTTGTTCGTATTTTTTCCCTGAATTTTATTACTTT
1 AAATTTAATAAAAAACCCTTATTTCGACGATTTGCTCGTATTTTTTCCCTGAATTTTATTACTTA
*
59210667 AAAAAATATACTATTTTATAATTTTATTATTTTACATTATTTTAGTACATTATGTTTGAAATTCA
66 AAAAAATATACTATTTTATAATTTTATTATTTTACATTATTTTAGTACATTATATTTGAAATTCA
* * *
59210732 TTAATTTAGTGTGTTTTTTTAAATAAATTTAGAAAAATAACCCTTATTTCGGCCCTTTGCTCGTA
131 TTAATTAAGTCTGTTTTTTT--ATAAATTTAGAAAAATAACCCTTACTTCGGCCCTTTGCTCGTA
* * *
59210797 TTTTTTTCCCGGATTTTATTACTTTCAATAAAAATATATTATTTTTATTATTTTATATTATTTTA
194 TTTTTTTCCCGAATTTTATTACTTTCAATAAAAATATATTAATTTTATTATTTTACATTATTTTA
* * * *
59210862 GTACATTATGTTTAAAATAGATTAATTAATTCTGTTTTTTAAAAATATTTAGTAAAAAACCCTTA
259 GTACATTATGTCTAAAATAGATTAATTAAGTCTGTTTTTAAAAAATATTTAGAAAAAAACCCTTA
* *
59210927 TTTCGCCCATTTGTTCGTATTTTCTCCTCGGATTTTATTACTTT-AA-AAAA-TATACTATTACT
324 TTTCGCCCATTTATTCGTATTTTCTCCT-GAATTTTATTACTTTAAATAAAAGTATA-TA-TACT
59210989 AATTTTATTATTTTACATTATTTTAGTACATTATGTTTGAAATTTATTAATTTAGTGTGTTTTTA
386 AATTTTATTATTTTACATTATTTTAGTACATTATGTTTGAAATTTATTAATTTAGTGTGTTTTTA
59211054 AAT
451 AAT
* * *
59211057 AAATTTAATAAAAAATCCTTATTTCAGTC-ATTTGCTCGTATTTTTTTCC-GAATTTTATTACTG
1 AAATTTAATAAAAAACCCTTATTTC-GACGATTTGCTCGTATTTTTTCCCTGAATTTTATTACT-
* *
59211120 TCAATAAAAATATATTATTTT-TCGTATTTTATTATTTTACATTATTTTAGTACATTATATTTGA
64 T-AA-AAAAATATACTATTTTAT--AATTTTATTATTTTACATTATTTTAGTACATTATATTTGA
* * ** *
59211184 AATGT-ATTAATTAATTCTG-TTTTTT-TAAATTTAGTAAAA-AACTTTTACTTCGGCCCTTTGT
125 AAT-TCATTAATTAAGTCTGTTTTTTTATAAATTTAGAAAAATAACCCTTACTTCGGCCCTTTGC
59211245 TCGTA-TTTTTTCTCCGAATTTTATTACTTT-AA-AAAATATACTATTTTCTAATTTTATTATTT
189 TCGTATTTTTTTC-CCGAATTTTATTACTTTCAATAAAA-ATA-TA---T-TAATTTTATTATTT
* ** * *
59211307 TACATTATTTTAGTACATTATGTCTGAAATTTATTAATTTAGTGTGTTTTTGAAATAAAT-TTTA
247 TACATTATTTTAGTACATTATGTCTAAAATAGATTAATTAAGTCTGTTTTT-AAA-AAATATTTA
*
59211371 -AAAAATAACCCTTATTTCGCCCATTTATTCGTATTTTTTCCTGAATTTTATTACTTTAAATAAA
310 GAAAAA-AACCCTTATTTCGCCCATTTATTCGTATTTTCTCCTGAATTTTATTACTTTAAATAAA
* * * *
59211435 AGTATATATATTTATTTTGTTATTTTACATTTTTTT
374 AGTATATATACTAATTTTATTATTTTACATTATTTT
59211471 GGATTTTATT
Statistics
Matches: 358, Mismatches: 36, Indels: 37
0.83 0.08 0.09
Matches are distributed among these distances:
451 4 0.01
452 12 0.03
453 41 0.11
454 26 0.07
455 42 0.12
456 5 0.01
457 95 0.27
458 118 0.33
459 11 0.03
460 4 0.01
ACGTcount: A:0.31, C:0.10, G:0.07, T:0.51
Consensus pattern (453 bp):
AAATTTAATAAAAAACCCTTATTTCGACGATTTGCTCGTATTTTTTCCCTGAATTTTATTACTTA
AAAAAATATACTATTTTATAATTTTATTATTTTACATTATTTTAGTACATTATATTTGAAATTCA
TTAATTAAGTCTGTTTTTTTATAAATTTAGAAAAATAACCCTTACTTCGGCCCTTTGCTCGTATT
TTTTTCCCGAATTTTATTACTTTCAATAAAAATATATTAATTTTATTATTTTACATTATTTTAGT
ACATTATGTCTAAAATAGATTAATTAAGTCTGTTTTTAAAAAATATTTAGAAAAAAACCCTTATT
TCGCCCATTTATTCGTATTTTCTCCTGAATTTTATTACTTTAAATAAAAGTATATATACTAATTT
TATTATTTTACATTATTTTAGTACATTATGTTTGAAATTTATTAATTTAGTGTGTTTTTAAAT
Found at i:59211818 original size:19 final size:18
Alignment explanation
Indices: 59211786--59211853 Score: 63
Period size: 19 Copynumber: 3.9 Consensus size: 18
59211776 TATTTTTCCT
* *
59211786 TCCTTCCCTCTTCTTGTTC
1 TCCTTTCCTTTTCTT-TTC
59211805 TCCTTTCCTTTTC--TT-
1 TCCTTTCCTTTTCTTTTC
*
59211820 T-CTTTCTTTTTCTTTCTC
1 TCCTTTCCTTTTCTTT-TC
59211838 TCCTTTCCTTTTCTTT
1 TCCTTTCCTTTTCTTT
59211854 CTTAATTTCT
Statistics
Matches: 40, Mismatches: 4, Indels: 10
0.74 0.07 0.19
Matches are distributed among these distances:
14 10 0.25
15 1 0.03
16 3 0.08
17 1 0.03
18 1 0.03
19 24 0.60
ACGTcount: A:0.00, C:0.34, G:0.01, T:0.65
Consensus pattern (18 bp):
TCCTTTCCTTTTCTTTTC
Found at i:59211830 original size:14 final size:14
Alignment explanation
Indices: 59211807--59211875 Score: 66
Period size: 14 Copynumber: 4.6 Consensus size: 14
59211797 TCTTGTTCTC
59211807 CTTTCCTTTTCTTT
1 CTTTCCTTTTCTTT
*
59211821 CTTTCTTTTTCTTT
1 CTTTCCTTTTCTTT
* *
59211835 CTCTCCTTTCCTTTT
1 CTTTCCTTTTC-TTT
*
59211850 CTTTCTTAATTTCTTT
1 CTTTCCT--TTTCTTT
59211866 CTTCTCCTTT
1 CTT-TCCTTT
59211876 CCTTCTCCAC
Statistics
Matches: 43, Mismatches: 8, Indels: 7
0.74 0.14 0.12
Matches are distributed among these distances:
14 21 0.49
15 10 0.23
16 6 0.14
17 6 0.14
ACGTcount: A:0.03, C:0.29, G:0.00, T:0.68
Consensus pattern (14 bp):
CTTTCCTTTTCTTT
Found at i:59211833 original size:33 final size:32
Alignment explanation
Indices: 59211796--59211879 Score: 107
Period size: 33 Copynumber: 2.6 Consensus size: 32
59211786 TCCTTCCCTC
**
59211796 TTCTTGTTCTCCTTTCCTTTTCTTTCTTTCTTT
1 TTCTT-TTCTCCTTTCCTTTTCTTTCTTAATTT
59211829 TTCTTTCTCTCCTTTCCTTTTCTTTCTTAATTT
1 TTCTTT-TCTCCTTTCCTTTTCTTTCTTAATTT
*
59211862 CTT-TCTTCTCCTTTCCTT
1 -TTCTTTTCTCCTTTCCTT
59211880 CTCCACCCCA
Statistics
Matches: 46, Mismatches: 3, Indels: 5
0.85 0.06 0.09
Matches are distributed among these distances:
32 13 0.28
33 31 0.67
34 2 0.04
ACGTcount: A:0.02, C:0.30, G:0.01, T:0.67
Consensus pattern (32 bp):
TTCTTTTCTCCTTTCCTTTTCTTTCTTAATTT
Found at i:59211870 original size:19 final size:19
Alignment explanation
Indices: 59211822--59211870 Score: 55
Period size: 19 Copynumber: 2.6 Consensus size: 19
59211812 CTTTTCTTTC
**
59211822 TTTCTTTTTCTTTCTCTCC
1 TTTCTTTTTCTTTCTCTAA
*
59211841 TTTCCTTTTCTTTCT-TAA
1 TTTCTTTTTCTTTCTCTAA
59211859 TTTCTTTCTTCT
1 TTTCTTT-TTCT
59211871 CCTTTCCTTC
Statistics
Matches: 25, Mismatches: 4, Indels: 2
0.81 0.13 0.06
Matches are distributed among these distances:
18 7 0.28
19 18 0.72
ACGTcount: A:0.04, C:0.27, G:0.00, T:0.69
Consensus pattern (19 bp):
TTTCTTTTTCTTTCTCTAA
Found at i:59212050 original size:17 final size:18
Alignment explanation
Indices: 59212028--59212063 Score: 56
Period size: 17 Copynumber: 2.1 Consensus size: 18
59212018 AAAAAAAATA
59212028 TTATTTTGGTATT-TTTT
1 TTATTTTGGTATTATTTT
*
59212045 TTATTTTTGTATTATTTT
1 TTATTTTGGTATTATTTT
59212063 T
1 T
59212064 GTAAAAGACC
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
17 12 0.71
18 5 0.29
ACGTcount: A:0.14, C:0.00, G:0.08, T:0.78
Consensus pattern (18 bp):
TTATTTTGGTATTATTTT
Found at i:59212489 original size:50 final size:50
Alignment explanation
Indices: 59212433--59212540 Score: 180
Period size: 50 Copynumber: 2.1 Consensus size: 50
59212423 TTTATTAAAC
*
59212433 AAAAAAATTTAATATAAAAAATTGATTCGCGCCTGTTAGATAGGCGCGATT
1 AAAAAAA-TTAATATAAAAAATTGATTCGCGCCTGTTAGATAGACGCGATT
* *
59212484 AAAAAAATTAATATAAAAAATTGATTTGCGCTTGTTAGATAGACGCGATT
1 AAAAAAATTAATATAAAAAATTGATTCGCGCCTGTTAGATAGACGCGATT
59212534 AAAAAAA
1 AAAAAAA
59212541 ACATACCATT
Statistics
Matches: 54, Mismatches: 3, Indels: 1
0.93 0.05 0.02
Matches are distributed among these distances:
50 47 0.87
51 7 0.13
ACGTcount: A:0.46, C:0.09, G:0.16, T:0.29
Consensus pattern (50 bp):
AAAAAAATTAATATAAAAAATTGATTCGCGCCTGTTAGATAGACGCGATT
Found at i:59213554 original size:17 final size:15
Alignment explanation
Indices: 59213497--59213571 Score: 55
Period size: 15 Copynumber: 4.9 Consensus size: 15
59213487 TGGTAGTGGC
*
59213497 TTAGGGTTT-TGGGT
1 TTAGGGTTTAGGGGT
**
59213511 TTAAGGGTTTATAGG-
1 TT-AGGGTTTAGGGGT
59213526 TTAGGGGTTTAGGGGCT
1 TTA-GGGTTTAGGGG-T
* *
59213543 TATAGTGTTTAGTGGT
1 T-TAGGGTTTAGGGGT
59213559 TTAGGGTTTAGGG
1 TTAGGGTTTAGGG
59213572 TATAAGGTTT
Statistics
Matches: 48, Mismatches: 7, Indels: 11
0.73 0.11 0.17
Matches are distributed among these distances:
14 3 0.06
15 28 0.58
16 5 0.10
17 10 0.21
18 2 0.04
ACGTcount: A:0.16, C:0.01, G:0.40, T:0.43
Consensus pattern (15 bp):
TTAGGGTTTAGGGGT
Found at i:59213566 original size:7 final size:7
Alignment explanation
Indices: 59213497--59213582 Score: 57
Period size: 7 Copynumber: 11.4 Consensus size: 7
59213487 TGGTAGTGGC
59213497 TTAGGGT
1 TTAGGGT
*
59213504 TTTGGGT
1 TTAGGGT
59213511 TTAAGGGT
1 TT-AGGGT
*
59213519 TTATAGG-
1 TTA-GGGT
59213526 TTAGGGGT
1 TTA-GGGT
59213534 TTAGGGGCT
1 TTA-GGG-T
*
59213543 TATAGTGT
1 T-TAGGGT
59213551 TTAGTGGT
1 TTAG-GGT
59213559 TTAGGGT
1 TTAGGGT
59213566 TTAGGGT
1 TTAGGGT
* *
59213573 ATAAGGT
1 TTAGGGT
59213580 TTA
1 TTA
59213583 AGATTTATGA
Statistics
Matches: 63, Mismatches: 10, Indels: 12
0.74 0.12 0.14
Matches are distributed among these distances:
7 34 0.54
8 23 0.37
9 4 0.06
10 2 0.03
ACGTcount: A:0.19, C:0.01, G:0.37, T:0.43
Consensus pattern (7 bp):
TTAGGGT
Found at i:59213880 original size:23 final size:21
Alignment explanation
Indices: 59213854--59213895 Score: 57
Period size: 21 Copynumber: 1.9 Consensus size: 21
59213844 ATTTAAGGGT
59213854 TATGCTAAAAACATAGAAAAATA
1 TATG-TAAAAA-ATAGAAAAATA
*
59213877 TATGTTAAAAATAGAAAAA
1 TATGTAAAAAATAGAAAAA
59213896 AATAAAATAG
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
21 9 0.50
22 5 0.28
23 4 0.22
ACGTcount: A:0.62, C:0.05, G:0.10, T:0.24
Consensus pattern (21 bp):
TATGTAAAAAATAGAAAAATA
Found at i:59214182 original size:115 final size:112
Alignment explanation
Indices: 59214020--59214476 Score: 402
Period size: 115 Copynumber: 4.0 Consensus size: 112
59214010 TTGTCTAATT
* * * * * * *
59214020 TTTTAGTGGCATTTTTACTAAAATGCCGCAAAAAGAGTTATATTAGTGGCGTTTCTACGAAAAAC
1 TTTTAGTGGCGTTTTTACAAAAACGCCGC-AAAAGTGATGTGTTAGTGGCGTTT-TAC-AAAAAC
* * * *
59214085 GCCGCAATTATATTTTTTTGTCTTTGTTAAACGCTGTCGTTTTTATCTACG
63 GCCGCAATTAT-GTTATTAGTCTTTGTTAAACGTTGTCGTTTTTATCTACG
* * **
59214136 TTTTCAGTGGCGTTTTTGCCAAAACGCCGCAAAA-TGATGTGTTAGTGGCGTTTT-CAGGTAACG
1 TTTT-AGTGGCGTTTTTACAAAAACGCCGCAAAAGTGATGTGTTAGTGGCGTTTTACA-AAAACG
* *
59214199 CCGCAATTATGTTATTAGCCTTT-TGTAAACGTTGTCGTTTTTATCTACA
64 CCGCAATTATGTTATTAGTCTTTGT-TAAACGTTGTCGTTTTTATCTACG
* * * *
59214248 TTATTAGTGGCGTTTTTACAAAAACGCCGCAAAAGGTTATGTGGTAGTGGCGTTTTTATAAAAAT
1 TT-TTAGTGGCGTTTTTACAAAAACGCCGCAAAA-GTGATGTGTTAGTGGCG-TTTTACAAAAAC
* * * *
59214313 GCCGCAATTATGTTATAAGTGTTTGCTAAATGTTGTCGTTTTTATCTACG
63 GCCGCAATTATGTTATTAGTCTTTGTTAAACGTTGTCGTTTTTATCTACG
* * ** * * * *
59214363 TTTTTAGTGGCGTTTGTACTAAAACGCCGGTAAAG-GATATGTTTTAGTAGCGTTTTTATTATAA
1 -TTTTAGTGGCGTTTTTACAAAAACGCCGCAAAAGTG--ATGTGTTAGTGGCG-TTTTA-CAAAA
* * *
59214427 ACACCGCAATTATGTT-TTAAGTGTTTGCTAAACGTTGTCGTTTTCTATCT
61 ACGCCGCAATTATGTTATT-AGTCTTTGTTAAACGTTGTCGTTTT-TATCT
59214477 GGGATTTTTT
Statistics
Matches: 283, Mismatches: 43, Indels: 29
0.80 0.12 0.08
Matches are distributed among these distances:
111 1 0.00
112 61 0.22
113 17 0.06
114 16 0.06
115 109 0.39
116 53 0.19
117 26 0.09
ACGTcount: A:0.25, C:0.15, G:0.20, T:0.40
Consensus pattern (112 bp):
TTTTAGTGGCGTTTTTACAAAAACGCCGCAAAAGTGATGTGTTAGTGGCGTTTTACAAAAACGCC
GCAATTATGTTATTAGTCTTTGTTAAACGTTGTCGTTTTTATCTACG
Found at i:59216220 original size:21 final size:21
Alignment explanation
Indices: 59216186--59216227 Score: 57
Period size: 21 Copynumber: 2.0 Consensus size: 21
59216176 TGGTTTGCTA
*
59216186 CATTCTTGCAAAAAACGCAAT
1 CATTCGTGCAAAAAACGCAAT
* *
59216207 CATTCGTGCCAAAAATGCAAT
1 CATTCGTGCAAAAAACGCAAT
59216228 AAATTTTGGA
Statistics
Matches: 18, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
21 18 1.00
ACGTcount: A:0.40, C:0.24, G:0.12, T:0.24
Consensus pattern (21 bp):
CATTCGTGCAAAAAACGCAAT
Found at i:59216526 original size:17 final size:18
Alignment explanation
Indices: 59216459--59216535 Score: 59
Period size: 17 Copynumber: 4.1 Consensus size: 18
59216449 TATTACTATA
59216459 AAAT-TTATAAGTTTTCT
1 AAATATTATAAGTTTTCT
* *
59216476 AAATAATTATAAATATTGTTTT
1 AAAT-ATTAT-AA-GTT-TTCT
*
59216498 AATATCTATATAAGTTTTCT
1 AA-ATAT-TATAAGTTTTCT
59216518 AAAT-TTATAAGTTTTCT
1 AAATATTATAAGTTTTCT
59216535 A
1 A
59216536 TATTAGTATT
Statistics
Matches: 48, Mismatches: 5, Indels: 14
0.72 0.07 0.21
Matches are distributed among these distances:
17 17 0.35
18 1 0.02
19 6 0.12
20 7 0.15
21 4 0.08
22 8 0.17
23 5 0.10
ACGTcount: A:0.39, C:0.05, G:0.05, T:0.51
Consensus pattern (18 bp):
AAATATTATAAGTTTTCT
Found at i:59216556 original size:15 final size:15
Alignment explanation
Indices: 59216536--59216629 Score: 68
Period size: 15 Copynumber: 6.2 Consensus size: 15
59216526 AAGTTTTCTA
59216536 TATTAGTATTAAATT
1 TATTAGTATTAAATT
59216551 TATTAGTATTAAATT
1 TATTAGTATTAAATT
* *
59216566 TATAAGTTTTCTAAA-T
1 TATTAG-TAT-TAAATT
* * *
59216582 AAGT-GT-TCTAAACT
1 TATTAGTAT-TAAATT
*
59216596 TATTAGTAATAAAATT
1 TATTAGT-ATTAAATT
*
59216612 TATTAGTATTAATTT
1 TATTAGTATTAAATT
59216627 TAT
1 TAT
59216630 AAGTTTTCTA
Statistics
Matches: 62, Mismatches: 11, Indels: 12
0.73 0.13 0.14
Matches are distributed among these distances:
13 6 0.10
14 4 0.06
15 32 0.52
16 15 0.24
17 5 0.08
ACGTcount: A:0.39, C:0.03, G:0.07, T:0.50
Consensus pattern (15 bp):
TATTAGTATTAAATT
Found at i:59216565 original size:43 final size:46
Alignment explanation
Indices: 59216517--59216614 Score: 130
Period size: 43 Copynumber: 2.2 Consensus size: 46
59216507 ATAAGTTTTC
* * *
59216517 TAAATTTATAAGTTTTCTATATTAGT-AT-TAAATTTATTAGT-AT
1 TAAATTTATAAGTTTTCTAAATAAGTGATCTAAACTTATTAGTAAT
*
59216560 TAAATTTATAAGTTTTCTAAATAAGTGTTCTAAACTTATTAGTAAT
1 TAAATTTATAAGTTTTCTAAATAAGTGATCTAAACTTATTAGTAAT
*
59216606 AAAATTTAT
1 TAAATTTAT
59216615 TAGTATTAAT
Statistics
Matches: 47, Mismatches: 5, Indels: 3
0.85 0.09 0.05
Matches are distributed among these distances:
43 24 0.51
44 1 0.02
45 12 0.26
46 10 0.21
ACGTcount: A:0.40, C:0.04, G:0.07, T:0.49
Consensus pattern (46 bp):
TAAATTTATAAGTTTTCTAAATAAGTGATCTAAACTTATTAGTAAT
Found at i:59216578 original size:60 final size:60
Alignment explanation
Indices: 59216459--59216642 Score: 177
Period size: 61 Copynumber: 3.1 Consensus size: 60
59216449 TATTACTATA
* * * *
59216459 AAATTTATAAGTTTTCTAAATAATTA-TAAA--TATT-GTTTTAATATCTATATAAGTTTTCT
1 AAATTTATAAGTTTTCTATATTAGTATTAAATTTATTAGTATTAA-AT-T-TATAAGTTTTCT
59216518 AAATTTATAAGTTTTCTATATTAGTATTAAATTTATTAGTATTAAATTTATAAGTTTTCT
1 AAATTTATAAGTTTTCTATATTAGTATTAAATTTATTAGTATTAAATTTATAAGTTTTCT
* * *
59216578 -AA---ATAAGTGTTCTAAACTTATTAGTAATAAAATTTATTAGTATTAATTTTATAAGTTTTCT
1 AAATTTATAAGTTTTCT--A--TATTAGT-ATTAAATTTATTAGTATTAAATTTATAAGTTTTCT
59216639 AAAT
1 AAAT
59216643 AATTATATAT
Statistics
Matches: 107, Mismatches: 7, Indels: 18
0.81 0.05 0.14
Matches are distributed among these distances:
56 10 0.09
58 1 0.01
59 25 0.23
60 23 0.21
61 34 0.32
62 8 0.07
63 6 0.06
ACGTcount: A:0.39, C:0.04, G:0.07, T:0.50
Consensus pattern (60 bp):
AAATTTATAAGTTTTCTATATTAGTATTAAATTTATTAGTATTAAATTTATAAGTTTTCT
Found at i:59216662 original size:12 final size:12
Alignment explanation
Indices: 59216645--59216670 Score: 52
Period size: 12 Copynumber: 2.2 Consensus size: 12
59216635 TTCTAAATAA
59216645 TTATATATAAGC
1 TTATATATAAGC
59216657 TTATATATAAGC
1 TTATATATAAGC
59216669 TT
1 TT
59216671 GCATAACTTA
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 14 1.00
ACGTcount: A:0.38, C:0.08, G:0.08, T:0.46
Consensus pattern (12 bp):
TTATATATAAGC
Found at i:59216697 original size:9 final size:9
Alignment explanation
Indices: 59216685--59217355 Score: 374
Period size: 9 Copynumber: 78.7 Consensus size: 9
59216675 AACTTACATA
59216685 ATAACTTAC
1 ATAACTTAC
59216694 ATAACTTAC
1 ATAACTTAC
59216703 ATAACTTAC
1 ATAACTTAC
59216712 ATAA--TAC
1 ATAACTTAC
**
59216719 ACCACTTAC
1 ATAACTTAC
59216728 ATAACTTAC
1 ATAACTTAC
*
59216737 ATAACTTAT
1 ATAACTTAC
59216746 AT-A--TA-
1 ATAACTTAC
*
59216751 ATAACATA-
1 ATAACTTAC
59216759 ATAACTTAC
1 ATAACTTAC
* *
59216768 CTAACTTAT
1 ATAACTTAC
59216777 AT-A--TA-
1 ATAACTTAC
*
59216782 ATAACATA-
1 ATAACTTAC
*
59216790 ATAAATTAC
1 ATAACTTAC
59216799 ATAA--TAC
1 ATAACTTAC
*
59216806 ATAA-TAAC
1 ATAACTTAC
59216814 ATAA--TAC
1 ATAACTTAC
*
59216821 ATAACTTATGT
1 ATAACTTA--C
*
59216832 ATAAGCTTGC
1 ATAA-CTTAC
59216842 ATAACTTAC
1 ATAACTTAC
59216851 ATAATAACTTAC
1 ---ATAACTTAC
59216863 ATAACTTAC
1 ATAACTTAC
*
59216872 ACAACTTAC
1 ATAACTTAC
59216881 ATAA--TAC
1 ATAACTTAC
**
59216888 ACCACTTAC
1 ATAACTTAC
59216897 ATAACTTAC
1 ATAACTTAC
*
59216906 ATAGCTTAC
1 ATAACTTAC
*
59216915 AT-TC-TAC
1 ATAACTTAC
*
59216922 ACAACTTAC
1 ATAACTTAC
*
59216931 ATAACATAC
1 ATAACTTAC
59216940 ATAA--TAC
1 ATAACTTAC
59216947 ATAACTTAC
1 ATAACTTAC
**
59216956 ATAAAATAC
1 ATAACTTAC
59216965 --AACTTAC
1 ATAACTTAC
*
59216972 ATATCTTAC
1 ATAACTTAC
59216981 ATAA--TAC
1 ATAACTTAC
59216988 ATAACTTAC
1 ATAACTTAC
59216997 ATAA--TAC
1 ATAACTTAC
*
59217004 A-ACATTTACAC
1 ATA-ACTT--AC
*
59217015 AAATAACTTAT
1 --ATAACTTAC
*
59217026 ATAACTTGC
1 ATAACTTAC
*
59217035 ATAACTTAT
1 ATAACTTAC
*
59217044 ATAA-TAAC
1 ATAACTTAC
*
59217052 ATAA-TAAC
1 ATAACTTAC
59217060 -TAACATAATAC
1 ATAAC-T--TAC
*
59217071 ATAACCTAC
1 ATAACTTAC
59217080 ATAACTTAC
1 ATAACTTAC
59217089 ATAACTTAC
1 ATAACTTAC
* *
59217098 ATAAATTAA
1 ATAACTTAC
59217107 ATAACTTAC
1 ATAACTTAC
59217116 ATAACTTAC
1 ATAACTTAC
59217125 ATAACTTAC
1 ATAACTTAC
* *
59217134 ATAAATTAA
1 ATAACTTAC
59217143 ATAACTTAC
1 ATAACTTAC
59217152 ATAACTTAC
1 ATAACTTAC
59217161 ATAA--TAC
1 ATAACTTAC
59217168 ATAACCTT-C
1 ATAA-CTTAC
*
59217177 TTAACTTAC
1 ATAACTTAC
*
59217186 ATTA--TAC
1 ATAACTTAC
*
59217193 ACAACTTAC
1 ATAACTTAC
59217202 ATAA-TTA-
1 ATAACTTAC
*
59217209 AT-ATTATAC
1 ATAACT-TAC
*
59217218 ACAACTTAC
1 ATAACTTAC
*
59217227 ATAA--TGC
1 ATAACTTAC
*
59217234 ATTACTTAC
1 ATAACTTAC
59217243 ATAACTTAC
1 ATAACTTAC
*
59217252 ATTACTTAC
1 ATAACTTAC
59217261 AGT-ACTT--
1 A-TAACTTAC
59217268 -T-ACTTAC
1 ATAACTTAC
59217275 AGT-ACTTAC
1 A-TAACTTAC
59217284 ATAA--TAC
1 ATAACTTAC
59217291 ATAA--TAC
1 ATAACTTAC
59217298 ATAACTTAC
1 ATAACTTAC
*
59217307 ATAACTTGC
1 ATAACTTAC
59217316 ATAA--TAC
1 ATAACTTAC
** *
59217323 ATAA-AAAT
1 ATAACTTAC
*
59217331 ATAACATATC
1 ATAACTTA-C
59217341 ATAACTTAC
1 ATAACTTAC
59217350 ATAACT
1 ATAACT
59217356 CATTTATGGT
Statistics
Matches: 522, Mismatches: 75, Indels: 130
0.72 0.10 0.18
Matches are distributed among these distances:
5 9 0.02
6 8 0.02
7 94 0.18
8 51 0.10
9 315 0.60
10 15 0.03
11 9 0.02
12 16 0.03
13 4 0.01
14 1 0.00
ACGTcount: A:0.47, C:0.19, G:0.01, T:0.32
Consensus pattern (9 bp):
ATAACTTAC
Found at i:59216761 original size:8 final size:8
Alignment explanation
Indices: 59216748--59216824 Score: 53
Period size: 8 Copynumber: 10.5 Consensus size: 8
59216738 TAACTTATAT
59216748 ATAATAAC
1 ATAATAAC
59216756 ATAATAAC
1 ATAATAAC
* *
59216764 TTACCTAAC
1 ATA-ATAAC
* *
59216773 -TTAT-AT
1 ATAATAAC
59216779 ATAATAAC
1 ATAATAAC
59216787 ATAATAA-
1 ATAATAAC
59216794 AT--T-AC
1 ATAATAAC
59216799 ATAAT-AC
1 ATAATAAC
59216806 ATAATAAC
1 ATAATAAC
59216814 ATAAT-AC
1 ATAATAAC
59216821 ATAA
1 ATAA
59216825 CTTATGTATA
Statistics
Matches: 55, Mismatches: 7, Indels: 15
0.71 0.09 0.19
Matches are distributed among these distances:
4 1 0.02
5 3 0.05
6 1 0.02
7 20 0.36
8 26 0.47
9 4 0.07
ACGTcount: A:0.56, C:0.13, G:0.00, T:0.31
Consensus pattern (8 bp):
ATAATAAC
Found at i:59216766 original size:31 final size:32
Alignment explanation
Indices: 59216682--59217164 Score: 157
Period size: 34 Copynumber: 14.8 Consensus size: 32
59216672 CATAACTTAC
* *
59216682 ATAATAACTTACATAACTTACATAACTTACAT
1 ATAATAACATACATAACTTACATAACTTATAT
** *
59216714 AATACACCACTTACATAACTTACATAACTTATAT
1 -ATA-ATAACATACATAACTTACATAACTTATAT
*
59216748 ATAATAACATA-ATAACTTACCTAACTTATAT
1 ATAATAACATACATAACTTACATAACTTATAT
* *
59216779 ATAATAACATA-ATAAATTACATAA--TACAT
1 ATAATAACATACATAACTTACATAACTTATAT
* *
59216808 AATAACATA-ATACATAACTTATGTATAAGCTTGCATAACTT
1 -ATAATA-ACATACATAACTTA--CATAA-CTT--AT-A--T
* * *
59216849 ACATAATAACTTACATAACTTACACAACTTACAT
1 --ATAATAACATACATAACTTACATAACTTATAT
** * * *
59216883 AATACACCACTTACATAACTTACATAGCTTACATT
1 -ATA-ATAACATACATAACTTACATAACTTATA-T
* * * * *
59216918 CTACACAACTTACATAACATACATAA--TACAT
1 ATA-ATAACATACATAACTTACATAACTTATAT
* * *
59216949 AACTTACATAAAATAC--AACTTACATATCTTACAT
1 -A--TA-ATAACATACATAACTTACATAACTTATAT
* * * *
59216983 AATACATAACTTACATAA--TACA-ACATTTACAC
1 -ATA-ATAACATACATAACTTACATA-ACTTATAT
* * *
59217015 A-AATAACTTATATAACTTGCATAAC-T-TAT
1 ATAATAACATACATAACTTACATAACTTATAT
* *
59217044 ATAATAACATA-ATAACTAACATAA--TACAT
1 ATAATAACATACATAACTTACATAACTTATAT
*
59217073 AACCTACATAACTTACATAACTTACATAA---AT-T
1 -A--TA-ATAACATACATAACTTACATAACTTATAT
* *
59217105 A-AATAACTTACATAACTTACATAACTTACATAA
1 ATAATAACATACATAACTTACATAACTT--ATAT
*
59217138 ATTAAATAACTTACATAACTTACATAA
1 A-T-AATAACATACATAACTTACATAA
59217165 TACATAACCT
Statistics
Matches: 352, Mismatches: 53, Indels: 87
0.72 0.11 0.18
Matches are distributed among these distances:
27 22 0.06
28 2 0.01
29 31 0.09
30 19 0.05
31 57 0.16
32 43 0.12
33 22 0.06
34 103 0.29
35 1 0.00
36 25 0.07
37 1 0.00
38 1 0.00
39 4 0.01
40 3 0.01
41 2 0.01
42 16 0.05
ACGTcount: A:0.48, C:0.19, G:0.01, T:0.32
Consensus pattern (32 bp):
ATAATAACATACATAACTTACATAACTTATAT
Found at i:59216859 original size:12 final size:12
Alignment explanation
Indices: 59216842--59216866 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
59216832 ATAAGCTTGC
59216842 ATAACTTACATA
1 ATAACTTACATA
59216854 ATAACTTACATA
1 ATAACTTACATA
59216866 A
1 A
59216867 CTTACACAAC
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 13 1.00
ACGTcount: A:0.52, C:0.16, G:0.00, T:0.32
Consensus pattern (12 bp):
ATAACTTACATA
Found at i:59216894 original size:16 final size:17
Alignment explanation
Indices: 59216856--59217205 Score: 106
Period size: 16 Copynumber: 20.6 Consensus size: 17
59216846 CTTACATAAT
59216856 AACTTACATAACTTACAC
1 AACTTACATAAC-TACAC
59216874 AACTTACATAA-TACAC
1 AACTTACATAACTACAC
* *
59216890 CACTTACATAACTTACAT
1 AACTTACATAAC-TACAC
* *
59216908 AGCTTACAT-TCTACAC
1 AACTTACATAACTACAC
*
59216924 AACTTACATAACATACAT
1 AACTTACATAAC-TACAC
*
59216942 AA--TACATAACTTACAT
1 AACTTACATAAC-TACAC
** *
59216958 AAAATAC--AACTTACAT
1 AACTTACATAAC-TACAC
* *
59216974 ATCTTACATAA-TACAT
1 AACTTACATAACTACAC
59216990 AACTTACATAA-TACA-
1 AACTTACATAACTACAC
* * *
59217005 ACATTTAC---AC-AAAT
1 A-ACTTACATAACTACAC
* * *
59217019 AACTTATATAACTTGCAT
1 AACTTACATAAC-TACAC
* *
59217037 AACTTATATAA-TAACATAAT
1 AACTTACATAACT-AC---AC
* *
59217057 AACTAACATAA-TACAT
1 AACTTACATAACTACAC
* *
59217073 AACCTACATAACTTACAT
1 AACTTACATAAC-TACAC
* * *
59217091 AACTTACATAAATTAAAT
1 AACTTACAT-AACTACAC
*
59217109 AACTTACATAACTTACAT
1 AACTTACATAAC-TACAC
* * *
59217127 AACTTACATAAATTAAAT
1 AACTTACAT-AACTACAC
*
59217145 AACTTACATAACTTACAT
1 AACTTACATAAC-TACAC
* **
59217163 AA--TACATAACCTTCTT
1 AACTTACATAA-CTACAC
*
59217179 AACTTACATTA-TACAC
1 AACTTACATAACTACAC
59217195 AACTTACATAA
1 AACTTACATAA
59217206 TTAATATTAT
Statistics
Matches: 262, Mismatches: 41, Indels: 60
0.72 0.11 0.17
Matches are distributed among these distances:
13 7 0.03
14 1 0.00
15 1 0.00
16 117 0.45
17 8 0.03
18 110 0.42
19 6 0.02
20 12 0.05
ACGTcount: A:0.47, C:0.21, G:0.01, T:0.31
Consensus pattern (17 bp):
AACTTACATAACTACAC
Found at i:59216922 original size:25 final size:25
Alignment explanation
Indices: 59216894--59217171 Score: 116
Period size: 25 Copynumber: 11.0 Consensus size: 25
59216884 ATACACCACT
* * **
59216894 TACATAACTTACATAGCTTACATTC
1 TACATAACTTACATAACATACATAA
*
59216919 TACACAACTTACATAACATACATAA
1 TACATAACTTACATAACATACATAA
* *
59216944 TACATAACTTACATAAAATACA-ACT
1 TACATAACTTACATAACATACATA-A
*
59216969 TACATATCTTACAT-A-ATACATAA
1 TACATAACTTACATAACATACATAA
*
59216992 CTTACATAA--TAC--AACATTTACA-CA
1 --TACATAACTTACATAACA--TACATAA
* * *
59217016 -A-ATAACTTATATAACTTGCATAA
1 TACATAACTTACATAACATACATAA
* * *
59217039 CTTATATAA-TAACATAATAACTAACATAA
1 --TACATAACTTACATAA-CA-T-ACATAA
* *
59217068 TACATAACCTACATAACTTACATAA
1 TACATAACTTACATAACATACATAA
* * *
59217093 CTTACATAAATTAAATAACTTACATAA
1 --TACATAACTTACATAACATACATAA
*
59217120 CTTACATAACTTACATAA-ATTAAATAA
1 --TACATAACTTACATAACA-TACATAA
59217147 CTTACATAACTTACAT-A-ATACATAA
1 --TACATAACTTACATAACATACATAA
59217172 CCTTCTTAAC
Statistics
Matches: 195, Mismatches: 34, Indels: 48
0.70 0.12 0.17
Matches are distributed among these distances:
20 4 0.02
21 1 0.01
22 6 0.03
23 10 0.05
24 7 0.04
25 75 0.38
26 10 0.05
27 70 0.36
28 7 0.04
29 5 0.03
ACGTcount: A:0.49, C:0.19, G:0.01, T:0.31
Consensus pattern (25 bp):
TACATAACTTACATAACATACATAA
Found at i:59217243 original size:25 final size:25
Alignment explanation
Indices: 59217188--59217253 Score: 80
Period size: 25 Copynumber: 2.6 Consensus size: 25
59217178 TAACTTACAT
* *
59217188 TATACACAACTTACATAATTAATAT
1 TATACACAACTTACATAATCAATAC
*
59217213 TATACACAACTTACATAATGCATTAC
1 TATACACAACTTACATAAT-CAATAC
*
59217239 T-TACATAACTTACAT
1 TATACACAACTTACAT
59217254 TACTTACAGT
Statistics
Matches: 36, Mismatches: 4, Indels: 2
0.86 0.10 0.05
Matches are distributed among these distances:
25 32 0.89
26 4 0.11
ACGTcount: A:0.44, C:0.20, G:0.02, T:0.35
Consensus pattern (25 bp):
TATACACAACTTACATAATCAATAC
Found at i:59217270 original size:14 final size:14
Alignment explanation
Indices: 59217253--59217281 Score: 58
Period size: 14 Copynumber: 2.1 Consensus size: 14
59217243 ATAACTTACA
59217253 TTACTTACAGTACT
1 TTACTTACAGTACT
59217267 TTACTTACAGTACT
1 TTACTTACAGTACT
59217281 T
1 T
59217282 ACATAATACA
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 15 1.00
ACGTcount: A:0.28, C:0.21, G:0.07, T:0.45
Consensus pattern (14 bp):
TTACTTACAGTACT
Found at i:59220276 original size:229 final size:222
Alignment explanation
Indices: 59219946--59220803 Score: 752
Period size: 229 Copynumber: 3.8 Consensus size: 222
59219936 CGTGAATGAT
* * * * *
59219946 AAACGCCGC-AGAGATATTAAAGC-AGAACGCAGGGTTCGGTGTTGATCAATTGT-TACTTTAGC
1 AAACGCCGCAAAAGATGTTAAAACTA-AACGCAGCGTTCGGTGTTGATCAATTGTGGA-TTTAGC
* * * ** * *
59220008 GGCGCTAATC-TAGAAACGCCGCCAAAGATCGGTATTAACGGCGCTTATA-TACTAAACGCCACA
64 GGCGC-AAACATAAAAACGCCGCTAAAGATCAATATTAACGGCGCTTA-ACGA-TAAACGCCGCA
* * * * *
59220071 GAAAGTTAACCAAAATGCATCGTTTAGCCTCGAGGTATAGTGGCATTTAGGGGCGCTTTAGTTA-
126 GAAAGTTAACCAAAACGCATCGTTTGGCCTTGAGGTATAGTGGCATTTAGCGGCGCTTTA-TAAC
*
59220135 C-AATGCCACTAAAGATCTTCATTAGAGGTGATTTC
190 CGAACGCCACTAAAGATCTTCATTA-AGG-G-TTTC
* * *
59220170 ACCATAGCGCCGCAAAAGATGTTAAAACTAAACGCAACGTTCGGTGTTCATCAATTGTGGCTTTA
1 A--A-A-CGCCGCAAAAGATGTTAAAACTAAACGCAGCGTTCGGTGTTGATCAATTGTGGATTTA
*
59220235 GCGGCGCAAACATAAAAACGCCGCTAAAAATCAATATTAACGGCGCTT-ACTGGATAAACGCCGC
62 GCGGCGCAAACATAAAAACGCCGCTAAAGATCAATATTAACGGCGCTTAAC--GATAAACGCCGC
* * *
59220299 AGAAAGCTAACCAAAACGCATCGTTTGGCCTTGATGTATGGTGGCATTTAGCGGCGCTTT-TAAC
125 AGAAAGTTAACCAAAACGCATCGTTTGGCCTTGAGGTATAGTGGCATTTAGCGGCGCTTTATAAC
*
59220363 CTGAACGCCACTAATGATCTTCATTAACGGCGTTTTC
190 C-GAACGCCACTAAAGATCTTCATTAA-GG-G-TTTC
* * * ** * * * * * *
59220400 GTTAAAATGTCAC-CGAGTCTGTTAAAACTAAATGCAGCGTTTGGTTTTAATCAATTG-CGATTC
1 ----AAACGCCGCAAAAG-ATGTTAAAACTAAACGCAGCGTTCGGTGTTGATCAATTGTGGATT-
* * * * *
59220463 CAGCGGCGCTAATA-AAAAATCGCCGCGAAAGATCAGA-ATTAACGGCGCTTAACGAATAAACAC
60 TAGCGGCGCAAACATAAAAA-CGCCGCTAAAGATCA-ATATTAACGGCGCTTAACG-ATAAACGC
* ** *
59220526 CGCAGAAAGTTAACCAAAACACATCGTTTGGCCTTGATTTATGGTGGCATTTAGCGGCGCTTTA-
122 CGCAGAAAGTTAACCAAAACGCATCGTTTGGCCTTGAGGTATAGTGGCATTTAGCGGCGCTTTAT
59220590 AACCGAACGCCACTAAAGATCTTCATT-A--G----
187 AACCGAACGCCACTAAAGATCTTCATTAAGGGTTTC
* * * *
59220619 AAACGCCGCAAAATATGTTAAAACTAAACGCAGCGTTCGGTTTTGATCAATTCTGGATTTCGCGG
1 AAACGCCGCAAAAGATGTTAAAACTAAACGCAGCGTTCGGTGTTGATCAATTGTGGATTTAGCGG
* * ** * * * *
59220684 CGCTAA-TTAAAAAACGCCGCTAAAGATCGGTATTAACGACGCTTAACTAGTAAACGCCGTAAAA
66 CGCAAACAT-AAAAACGCCGCTAAAGATCAATATTAACGGCGCTTAACGA-TAAACGCCGCAGAA
* *
59220748 AGTTAACCAAAACGCATCGTTTGGCCGTGAGGTATAATGGCATTTAGCGGCGCTTT
129 AGTTAACCAAAACGCATCGTTTGGCCTTGAGGTATAGTGGCATTTAGCGGCGCTTT
59220804 GCCTAAAAAC
Statistics
Matches: 522, Mismatches: 80, Indels: 73
0.77 0.12 0.11
Matches are distributed among these distances:
214 1 0.00
215 139 0.27
216 10 0.02
224 2 0.00
226 1 0.00
227 4 0.01
228 11 0.02
229 174 0.33
230 174 0.33
231 4 0.01
232 1 0.00
234 1 0.00
ACGTcount: A:0.32, C:0.21, G:0.21, T:0.25
Consensus pattern (222 bp):
AAACGCCGCAAAAGATGTTAAAACTAAACGCAGCGTTCGGTGTTGATCAATTGTGGATTTAGCGG
CGCAAACATAAAAACGCCGCTAAAGATCAATATTAACGGCGCTTAACGATAAACGCCGCAGAAAG
TTAACCAAAACGCATCGTTTGGCCTTGAGGTATAGTGGCATTTAGCGGCGCTTTATAACCGAACG
CCACTAAAGATCTTCATTAAGGGTTTC
Found at i:59220608 original size:114 final size:112
Alignment explanation
Indices: 59220251--59220610 Score: 257
Period size: 115 Copynumber: 3.1 Consensus size: 112
59220241 CAAACATAAA
* * * * *
59220251 AACGCCGCTAAAAATCAATATTAACGGCGCTTACTGGATAAACGCCGCAGAAAGCTAACCAAAAC
1 AACGCCACTAAAGATCAA-ATTAACGGCGCTTAC-GAATAAACACCGCAGAAAGTTAACCAAAAC
* *
59220316 GCATCGTTTGGCCTTGATGTATGGTGGCATTTAGCGGCGCTTTTAACCTG
64 GCATCGTTTGGCCTTGATCTATGGTGGCATTTAGCGGCGCTTTAAACC-G
* ** * * * *** * *
59220366 AACGCCACTAATGATCTTCATTAACGGCGTTTTCGTTAA-AATGTCACCG-AGTCTGTTAAAACT
1 AACGCCACTAAAGATC-AAATTAACGGCGCTTACG--AATAA--ACACCGCAGAAAGTT-AACCA
* * ** * * * * *
59220429 AAATGCAGCGTTTGGTTTTAATCAAT--T-GCGATTCCAGCGGCGCTAATAAA--A
60 AAACGCATCGTTTGGCCTTGATCTATGGTGGC-ATT-TAGCGGCGCT-TTAAACCG
* *
59220480 AATCGCCGCGAAAGATCAGAATTAACGGCGCTTAACGAATAAACACCGCAGAAAGTTAACCAAAA
1 AA-CGCCACTAAAGATCA-AATTAACGGCGCTT-ACGAATAAACACCGCAGAAAGTTAACCAAAA
* *
59220545 CACATCGTTTGGCCTTGATTTATGGTGGCATTTAGCGGCGCTTTAAACCG
63 CGCATCGTTTGGCCTTGATCTATGGTGGCATTTAGCGGCGCTTTAAACCG
59220595 AACGCCACTAAAGATC
1 AACGCCACTAAAGATC
59220611 TTCATTAGAA
Statistics
Matches: 173, Mismatches: 53, Indels: 39
0.65 0.20 0.15
Matches are distributed among these distances:
113 30 0.17
114 33 0.19
115 63 0.36
116 18 0.10
117 29 0.17
ACGTcount: A:0.32, C:0.23, G:0.21, T:0.25
Consensus pattern (112 bp):
AACGCCACTAAAGATCAAATTAACGGCGCTTACGAATAAACACCGCAGAAAGTTAACCAAAACGC
ATCGTTTGGCCTTGATCTATGGTGGCATTTAGCGGCGCTTTAAACCG
Found at i:59221003 original size:188 final size:191
Alignment explanation
Indices: 59220619--59221013 Score: 464
Period size: 188 Copynumber: 2.1 Consensus size: 191
59220609 TCTTCATTAG
* * * *
59220619 AAACGCCGCAAAATATGTTAAAACTAAACGCAGCGTTCGGTTTTGATCAATTCTGGATTTCGCGG
1 AAACGCCACTAAAGATGTTAAAACTAAACGCAACGTTCGGTTTTGATCAATTCTGGATTTCGCGG
* * *
59220684 CGCTAATTAAAAAACGCCGCTAAAGATCGGTATTAACGACGCTTAACTAGTAAACGCCGTAAAAA
66 CGCTAAATAAAAAACGCCGCTAAAGATCGGTATTAACGACGCTTAACTAGAAAACGCCGCAAAAA
* * *
59220749 GTTAACCAAAACGCATCGTTTGGCCGTGAGGTATAATGGCATTTAGCGGCGCTTTGCCTAA
131 GTTAACCAAAACGCATCGTTTGGCCGAGAGGTATAATGGCATTTAGCGGCACTTTGACTAA
* * *
59220810 AAACGCCACTAGAGATGTTAAAACTAAATGCAACGTTC-GTTGTTGATC-ATTGTGGCA-TTCGC
1 AAACGCCACTAAAGATGTTAAAACTAAACGCAACGTTCGGTT-TTGATCAATTCTGG-ATTTCGC
* * * *
59220872 GGCGCTAACAT-AAAATCGCCGCTAAATATCGGTATTAACGGCGCTTGAC-A-AAAACGCCGCAA
64 GGCGCTAA-ATAAAAAACGCCGCTAAAGATCGGTATTAACGACGCTTAACTAGAAAACGCCGCAA
** * * * * * *
59220934 GTATTTAACCAAAGCGCATCGTTTTGGCGGAGAGGTAT-ATGGTCA-TTAGTGGCACTTTTATTA
128 AAAGTTAACCAAAACGCATCG-TTTGGCCGAGAGGTATAATGG-CATTTAGCGGCACTTTGACTA
59220997 A
191 A
59220998 AAACGCCACTAAAGAT
1 AAACGCCACTAAAGAT
59221014 CATCATTAGC
Statistics
Matches: 173, Mismatches: 26, Indels: 13
0.82 0.12 0.06
Matches are distributed among these distances:
188 60 0.35
189 17 0.10
190 56 0.32
191 40 0.23
ACGTcount: A:0.32, C:0.21, G:0.22, T:0.26
Consensus pattern (191 bp):
AAACGCCACTAAAGATGTTAAAACTAAACGCAACGTTCGGTTTTGATCAATTCTGGATTTCGCGG
CGCTAAATAAAAAACGCCGCTAAAGATCGGTATTAACGACGCTTAACTAGAAAACGCCGCAAAAA
GTTAACCAAAACGCATCGTTTGGCCGAGAGGTATAATGGCATTTAGCGGCACTTTGACTAA
Found at i:59221494 original size:15 final size:16
Alignment explanation
Indices: 59221460--59221496 Score: 51
Period size: 14 Copynumber: 2.4 Consensus size: 16
59221450 AAAGATTTAG
59221460 GGTATATTTGGGGATT
1 GGTATATTTGGGGATT
*
59221476 -GTAT-TTTGGGGTTT
1 GGTATATTTGGGGATT
59221490 GGTATAT
1 GGTATAT
59221497 ATTGTTGTTA
Statistics
Matches: 18, Mismatches: 1, Indels: 4
0.78 0.04 0.17
Matches are distributed among these distances:
14 9 0.50
15 8 0.44
16 1 0.06
ACGTcount: A:0.16, C:0.00, G:0.35, T:0.49
Consensus pattern (16 bp):
GGTATATTTGGGGATT
Found at i:59221613 original size:15 final size:15
Alignment explanation
Indices: 59221589--59221622 Score: 50
Period size: 15 Copynumber: 2.3 Consensus size: 15
59221579 GGACTTGGAT
59221589 TTTAGGGTTTGGTGG
1 TTTAGGGTTTGGTGG
* *
59221604 TTTAGTGTTTTGTGG
1 TTTAGGGTTTGGTGG
59221619 TTTA
1 TTTA
59221623 TGAGTTTTAT
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
15 17 1.00
ACGTcount: A:0.09, C:0.00, G:0.35, T:0.56
Consensus pattern (15 bp):
TTTAGGGTTTGGTGG
Found at i:59224456 original size:78 final size:77
Alignment explanation
Indices: 59224339--59224492 Score: 238
Period size: 78 Copynumber: 2.0 Consensus size: 77
59224329 TACATACATT
* * *
59224339 ACATAACTTATTAATATATTTATGGATAAATGATACATAACTTACATATCATTTTTAATACATAA
1 ACATAACTTATTAATATATATATGGATAAATGATACATAACTTACATAAC-TTATTAATACATAA
59224404 CTTATATAATACG
65 CTTATATAATACG
**
59224417 ACATAACTTATTAATATATATAT-TTTAAAATGATACATAACTTACATAACTTATTAATACATAA
1 ACATAACTTATTAATATATATATGGAT-AAATGATACATAACTTACATAACTTATTAATACATAA
59224481 CTTATATAATAC
65 CTTATATAATAC
59224493 ATAACTTACA
Statistics
Matches: 70, Mismatches: 5, Indels: 3
0.90 0.06 0.04
Matches are distributed among these distances:
77 26 0.37
78 44 0.63
ACGTcount: A:0.45, C:0.12, G:0.03, T:0.40
Consensus pattern (77 bp):
ACATAACTTATTAATATATATATGGATAAATGATACATAACTTACATAACTTATTAATACATAAC
TTATATAATACG
Found at i:59224464 original size:9 final size:9
Alignment explanation
Indices: 59224450--59224505 Score: 59
Period size: 9 Copynumber: 6.8 Consensus size: 9
59224440 TTTAAAATGA
59224450 TACATAACT
1 TACATAACT
59224459 TACATAACT
1 TACATAACT
*
59224468 TA-TTAA--
1 TACATAACT
59224474 TACATAACT
1 TACATAACT
*
59224483 TATATAA--
1 TACATAACT
59224490 TACATAACT
1 TACATAACT
59224499 TACATAA
1 TACATAA
59224506 TACGACATAA
Statistics
Matches: 38, Mismatches: 4, Indels: 10
0.73 0.08 0.19
Matches are distributed among these distances:
6 2 0.05
7 9 0.24
8 3 0.08
9 24 0.63
ACGTcount: A:0.48, C:0.16, G:0.00, T:0.36
Consensus pattern (9 bp):
TACATAACT
Found at i:59224499 original size:93 final size:93
Alignment explanation
Indices: 59224394--59224686 Score: 491
Period size: 93 Copynumber: 3.2 Consensus size: 93
59224384 ATATCATTTT
*
59224394 TAATACATAACTTATATAATACGACATAACTTATTAATATATATATTTTAAAATGATACATAACT
1 TAATACATAACTTACATAATACGACATAACTTATTAATATATATATTTTAAAATGATACATAACT
59224459 TACATAACTTATTAATACATAACTTATA
66 TACATAACTTATTAATACATAACTTATA
* **
59224487 TAATACATAACTTACATAATACGACATAACTTATTAATATATTTA-TGGATAAATGATACATAAC
1 TAATACATAACTTACATAATACGACATAACTTATTAATATATATATTTTA-AAATGATACATAAC
*
59224551 TTACATAACTTATTAATACATAACATT-TT
65 TTACATAACTTATTAATACATAAC-TTATA
* *
59224580 TAATACATAACTTACATAATACGTCATAACTTATTAATATATATATTTTAAAATAATACATAACT
1 TAATACATAACTTACATAATACGACATAACTTATTAATATATATATTTTAAAATGATACATAACT
59224645 TACATAACTTATTAATACATAACTTATA
66 TACATAACTTATTAATACATAACTTATA
59224673 TAATACATAACTTA
1 TAATACATAACTTA
59224687 TTAATATATT
Statistics
Matches: 185, Mismatches: 11, Indels: 8
0.91 0.05 0.04
Matches are distributed among these distances:
92 4 0.02
93 177 0.96
94 4 0.02
ACGTcount: A:0.47, C:0.13, G:0.02, T:0.38
Consensus pattern (93 bp):
TAATACATAACTTACATAATACGACATAACTTATTAATATATATATTTTAAAATGATACATAACT
TACATAACTTATTAATACATAACTTATA
Found at i:59224514 original size:50 final size:48
Alignment explanation
Indices: 59224394--59225029 Score: 264
Period size: 43 Copynumber: 13.4 Consensus size: 48
59224384 ATATCATTTT
* *
59224394 TAATACATAACTTATATAA-TACGACATAACTTATTAATATATATA-TTT-
1 TAATACATAACTTACATAACT--GACATAACTTATTAATACATA-ACTTTA
* *
59224442 TAA-A-ATGA--TACATAACTTACATAACTTATTAATACATAACTTATA
1 TAATACATAACTTACATAACTGACATAACTTATTAATACATAACTT-TA
59224487 TAATACATAACTTACATAA-TACGACATAACTTATTAAT--AT-A-TTTA
1 TAATACATAACTTACATAACT--GACATAACTTATTAATACATAACTTTA
* * * * *
59224532 TGGATAAATGA--TACATAACTTACATAACTTATTAATACATAACATTTT
1 T-AATACATAACTTACATAACTGACATAACTTATTAATACATAAC-TTTA
* *
59224580 TAATACATAACTTACATAA-TACGTCATAACTTATTAATATATATA-TTT-
1 TAATACATAACTTACATAACT--GACATAACTTATTAATACATA-ACTTTA
*
59224628 TAA-A-ATAA--TACATAACTTACATAACTTATTAATACATAACTTATA
1 TAATACATAACTTACATAACTGACATAACTTATTAATACATAACTT-TA
* * ** * * **
59224673 TAATACATAACTTA-TTAA-T---AT-ATTTATGGATAAATGA-TACA
1 TAATACATAACTTACATAACTGACATAACTTATTAATACATAACTTTA
* * *
59224714 TAAGTTACATAACTTA-TTAA-T-ACATAACATTTTTAATACATAACTTACA
1 TAA--TACATAACTTACATAACTGACATAAC-TTATTAATACATAACTT-TA
* * * * * * *
59224763 TAATACGACATAACTTATTAATATATTTATGGATAAATGATACATAACTTACATAACATTTT
1 TAAT---ACATAACTTA--CATA-ACTGA--CATAACT--TA-TTAA--TACATAAC-TTTA
*
59224825 TAATACATAACTTACATAA-TACGACATAACTTATTAATATATATA-TTT-
1 TAATACATAACTTACATAACT--GACATAACTTATTAATACATA-ACTTTA
* *
59224873 TAA-A-ATGA--TACATAACTTACATAACTTATTAATACATAACTTATA
1 TAATACATAACTTACATAACTGACATAACTTATTAATACATAACTT-TA
*
59224918 TAATACCTAACTTACATAA-TACGACATAACTTATTAAT--AT-A-TTTA
1 TAATACATAACTTACATAACT--GACATAACTTATTAATACATAACTTTA
* * * * *
59224963 TGGATAAATGA--TACATAACTTACATAACTTATTAATACATAACATTTT
1 T-AATACATAACTTACATAACTGACATAACTTATTAATACATAAC-TTTA
59225011 TAATACATAACTTACATAA
1 TAATACATAACTTACATAA
59225030 TACGACATAA
Statistics
Matches: 448, Mismatches: 63, Indels: 153
0.67 0.09 0.23
Matches are distributed among these distances:
41 4 0.01
42 4 0.01
43 119 0.27
44 39 0.09
45 26 0.06
46 31 0.07
47 37 0.08
48 28 0.06
49 41 0.09
50 63 0.14
51 2 0.00
52 3 0.01
53 4 0.01
54 1 0.00
55 7 0.02
56 2 0.00
57 5 0.01
58 4 0.01
59 11 0.02
60 3 0.01
62 12 0.03
63 2 0.00
ACGTcount: A:0.46, C:0.13, G:0.03, T:0.38
Consensus pattern (48 bp):
TAATACATAACTTACATAACTGACATAACTTATTAATACATAACTTTA
Found at i:59224777 original size:93 final size:90
Alignment explanation
Indices: 59224645--59224838 Score: 309
Period size: 93 Copynumber: 2.1 Consensus size: 90
59224635 ATACATAACT
*
59224645 TACATAACTTATTAATACATAACTTATATAATACATAACTTATTAATATATTTATGGATAAATGA
1 TACATAACTTATTAATACATAACTTACATAATACATAACTTATTAATATATTTATGGATAAATGA
*
59224710 TACATAAGTTACATAAC-TTATTAA
66 TACATAACTTACATAACATTATTAA
*
59224734 TACATAACATTTTTAATACATAACTTACATAATACGACATAACTTATTAATATATTTATGGATAA
1 TACATAAC-TTATTAATACATAACTTACATAAT---ACATAACTTATTAATATATTTATGGATAA
*
59224799 ATGATACATAACTTACATAACATTTTTAA
62 ATGATACATAACTTACATAACATTATTAA
59224828 TACATAACTTA
1 TACATAACTTA
59224839 CATAATACGA
Statistics
Matches: 95, Mismatches: 5, Indels: 6
0.90 0.05 0.06
Matches are distributed among these distances:
89 8 0.08
90 22 0.23
93 51 0.54
94 14 0.15
ACGTcount: A:0.45, C:0.12, G:0.04, T:0.39
Consensus pattern (90 bp):
TACATAACTTATTAATACATAACTTACATAATACATAACTTATTAATATATTTATGGATAAATGA
TACATAACTTACATAACATTATTAA
Found at i:59224818 original size:245 final size:251
Alignment explanation
Indices: 59224567--59225039 Score: 760
Period size: 245 Copynumber: 1.9 Consensus size: 251
59224557 AACTTATTAA
*
59224567 TACATAACATTTTTAATACATAACTTACATAATACGTCATAACTTATTAATATATATATTTTAAA
1 TACATAACATTTTTAATACATAACTTACATAATACGACATAACTTATTAATATATATATTTTAAA
59224632 ATAATACATAACTTACATAACTTATTAATACATAAC-T-T-A-T-ATAAT-ACATAACTTATTAA
66 ATAATACATAACTTACATAACTTATTAATACATAACATCTAACTAATAATAACATAACTTATTAA
*
59224691 TATATTTATGGATAAATGATACATAAGTTACATAACTTATTAATACATAACATTTTTAATACATA
131 TATATTTATGGATAAATGATACATAACTTACATAACTTATTAATACATAACATTTTTAATACATA
59224756 ACTTACATAATACGACATAACTTATTAATATATTTATGGATAAATGATACATAACT
196 ACTTACATAATACGACATAACTTATTAATATATTTATGGATAAATGATACATAACT
59224812 TACATAACATTTTTAATACATAACTTACATAATACGACATAACTTATTAATATATATATTTTAAA
1 TACATAACATTTTTAATACATAACTTACATAATACGACATAACTTATTAATATATATATTTTAAA
*
59224877 ATGATACATAACTTACATAACTTATTAATACATAACTTATATAATACCTAACTTACATAATACGA
66 ATAATACATAACTTACATAACTTATTAATACATAAC-------AT--CTAAC-TA-ATAATA--A
59224942 CATAACTTATTAATATATTTATGGATAAATGATACATAACTTACATAACTTATTAATACATAACA
118 CATAACTTATTAATATATTTATGGATAAATGATACATAACTTACATAACTTATTAATACATAACA
59225007 TTTTTAATACATAACTTACATAATACGACATAA
183 TTTTTAATACATAACTTACATAATACGACATAA
59225040 TAACATAAAT
Statistics
Matches: 206, Mismatches: 3, Indels: 19
0.90 0.01 0.08
Matches are distributed among these distances:
245 99 0.48
253 1 0.00
256 1 0.00
257 1 0.00
259 1 0.00
261 5 0.02
264 98 0.48
ACGTcount: A:0.46, C:0.13, G:0.03, T:0.38
Consensus pattern (251 bp):
TACATAACATTTTTAATACATAACTTACATAATACGACATAACTTATTAATATATATATTTTAAA
ATAATACATAACTTACATAACTTATTAATACATAACATCTAACTAATAATAACATAACTTATTAA
TATATTTATGGATAAATGATACATAACTTACATAACTTATTAATACATAACATTTTTAATACATA
ACTTACATAATACGACATAACTTATTAATATATTTATGGATAAATGATACATAACT
Found at i:59224825 original size:78 final size:78
Alignment explanation
Indices: 59224734--59224923 Score: 312
Period size: 78 Copynumber: 2.4 Consensus size: 78
59224724 AACTTATTAA
*
59224734 TACATAACATTTTTAATACATAACTTACATAATACGACATAACTTATTAATATATTTATGGAT-A
1 TACATAACATTTTTAATACATAACTTACATAATACGACATAACTTATTAATATATATAT-GATAA
59224798 AATGATACATAACT
65 AATGATACATAACT
**
59224812 TACATAACATTTTTAATACATAACTTACATAATACGACATAACTTATTAATATATATATTTTAAA
1 TACATAACATTTTTAATACATAACTTACATAATACGACATAACTTATTAATATATATATGATAAA
59224877 ATGATACATAACT
66 ATGATACATAACT
* *
59224890 TACATAAC-TTATTAATACATAACTTATATAATAC
1 TACATAACATTTTTAATACATAACTTACATAATAC
59224924 CTAACTTACA
Statistics
Matches: 106, Mismatches: 5, Indels: 3
0.93 0.04 0.03
Matches are distributed among these distances:
77 25 0.24
78 81 0.76
ACGTcount: A:0.46, C:0.13, G:0.03, T:0.38
Consensus pattern (78 bp):
TACATAACATTTTTAATACATAACTTACATAATACGACATAACTTATTAATATATATATGATAAA
ATGATACATAACT
Found at i:59224895 original size:9 final size:9
Alignment explanation
Indices: 59224881--59224936 Score: 50
Period size: 9 Copynumber: 6.8 Consensus size: 9
59224871 TTTAAAATGA
59224881 TACATAACT
1 TACATAACT
59224890 TACATAACT
1 TACATAACT
*
59224899 TA-TTAA--
1 TACATAACT
59224905 TACATAACT
1 TACATAACT
*
59224914 TATATAA--
1 TACATAACT
*
59224921 TACCTAACT
1 TACATAACT
59224930 TACATAA
1 TACATAA
59224937 TACGACATAA
Statistics
Matches: 36, Mismatches: 6, Indels: 10
0.69 0.12 0.19
Matches are distributed among these distances:
6 2 0.06
7 8 0.22
8 3 0.08
9 23 0.64
ACGTcount: A:0.46, C:0.18, G:0.00, T:0.36
Consensus pattern (9 bp):
TACATAACT
Found at i:59224929 original size:93 final size:93
Alignment explanation
Indices: 59224812--59225039 Score: 379
Period size: 93 Copynumber: 2.5 Consensus size: 93
59224802 ATACATAACT
**
59224812 TACATAACATTTTTAATACATAACTTACATAATACGACATAACTTATTAATATATATAT-TTTAA
1 TACATAACATTTTTAATACATAACTTACATAATACGACATAACTTATTAATATATATATGGAT-A
59224876 AATGATACATAACTTACATAACTTATTAA
65 AATGATACATAACTTACATAACTTATTAA
* * *
59224905 TACATAAC-TTATATAATACCTAACTTACATAATACGACATAACTTATTAATATATTTATGGATA
1 TACATAACATT-TTTAATACATAACTTACATAATACGACATAACTTATTAATATATATATGGATA
59224969 AATGATACATAACTTACATAACTTATTAA
65 AATGATACATAACTTACATAACTTATTAA
59224998 TACATAACATTTTTAATACATAACTTACATAATACGACATAA
1 TACATAACATTTTTAATACATAACTTACATAATACGACATAA
59225040 TAACATAAAT
Statistics
Matches: 125, Mismatches: 7, Indels: 6
0.91 0.05 0.04
Matches are distributed among these distances:
92 2 0.02
93 120 0.96
94 3 0.02
ACGTcount: A:0.46, C:0.14, G:0.03, T:0.37
Consensus pattern (93 bp):
TACATAACATTTTTAATACATAACTTACATAATACGACATAACTTATTAATATATATATGGATAA
ATGATACATAACTTACATAACTTATTAA
Found at i:59225032 original size:16 final size:15
Alignment explanation
Indices: 59224459--59225024 Score: 144
Period size: 16 Copynumber: 36.7 Consensus size: 15
59224449 ATACATAACT
59224459 TACATAACTTATTAA
1 TACATAACTTATTAA
59224474 TACATAACTTATATAA
1 TACATAACTTAT-TAA
*
59224490 TACATAACTTACATAA
1 TACATAACTTA-TTAA
59224506 TACGACATAACTTATTAA
1 T---ACATAACTTATTAA
* **
59224524 T--AT-ATTTATGGA
1 TACATAACTTATTAA
*
59224536 TAAATGATAC--A-TAA
1 TACAT-A-ACTTATTAA
59224550 CTTACATAACTTATTAA
1 --TACATAACTTATTAA
*
59224567 TACATAACATTTTTAA
1 TACATAAC-TTATTAA
*
59224583 TACATAACTTACATAA
1 TACATAACTTA-TTAA
59224599 TACGTCATAACTTATTAA
1 TA---CATAACTTATTAA
*
59224617 TATATATA-TT-TTAA
1 TACATA-ACTTATTAA
*
59224631 -A-ATAA--TACATAA
1 TACATAACTTA-TTAA
59224643 CTTACATAACTTATTAA
1 --TACATAACTTATTAA
59224660 TACATAACTTATATAA
1 TACATAACTTAT-TAA
59224676 TACATAACTTATTAA
1 TACATAACTTATTAA
* **
59224691 T--AT-ATTTATGGA
1 TACATAACTTATTAA
*
59224703 TAAATGATAC--A-TAA
1 TACAT-A-ACTTATTAA
59224717 GTTACATAACTTATTAA
1 --TACATAACTTATTAA
*
59224734 TACATAACATTTTTAA
1 TACATAAC-TTATTAA
*
59224750 TACATAACTTACATAA
1 TACATAACTTA-TTAA
59224766 TACGACATAACTTATTAA
1 T---ACATAACTTATTAA
* **
59224784 T--AT-ATTTATGGA
1 TACATAACTTATTAA
*
59224796 TAAATGATAC--A-TAA
1 TACAT-A-ACTTATTAA
*
59224810 CTTACATAACATTTTTAA
1 --TACATAAC-TTATTAA
*
59224828 TACATAACTTACATAA
1 TACATAACTTA-TTAA
59224844 TACGACATAACTTATTAA
1 T---ACATAACTTATTAA
*
59224862 TATATATA-TT-TTAA
1 TACATA-ACTTATTAA
59224876 -A-ATGATAC--A-TAA
1 TACAT-A-ACTTATTAA
59224888 CTTACATAACTTATTAA
1 --TACATAACTTATTAA
59224905 TACATAACTTATATAA
1 TACATAACTTAT-TAA
* *
59224921 TACCTAACTTACATAA
1 TACATAACTTA-TTAA
59224937 TACGACATAACTTATTAA
1 T---ACATAACTTATTAA
* **
59224955 T--AT-ATTTATGGA
1 TACATAACTTATTAA
*
59224967 TAAATGATAC--A-TAA
1 TACAT-A-ACTTATTAA
59224981 CTTACATAACTTATTAA
1 --TACATAACTTATTAA
*
59224998 TACATAACATTTTTAA
1 TACATAAC-TTATTAA
59225014 TACATAACTTA
1 TACATAACTTA
59225025 CATAATACGA
Statistics
Matches: 412, Mismatches: 52, Indels: 174
0.65 0.08 0.27
Matches are distributed among these distances:
10 1 0.00
11 1 0.00
12 39 0.09
13 13 0.03
14 30 0.07
15 94 0.23
16 141 0.34
17 19 0.05
18 26 0.06
19 48 0.12
ACGTcount: A:0.46, C:0.13, G:0.03, T:0.38
Consensus pattern (15 bp):
TACATAACTTATTAA
Found at i:59225253 original size:9 final size:9
Alignment explanation
Indices: 59225241--59225305 Score: 85
Period size: 9 Copynumber: 7.2 Consensus size: 9
59225231 AATAAATTAA
59225241 ATAACTTAC
1 ATAACTTAC
59225250 ATAACTTAC
1 ATAACTTAC
* *
59225259 ATAAATTAA
1 ATAACTTAC
59225268 ATAACTTAC
1 ATAACTTAC
* *
59225277 ATAAATTAA
1 ATAACTTAC
*
59225286 ATAAATTAC
1 ATAACTTAC
59225295 ATAACTTAC
1 ATAACTTAC
59225304 AT
1 AT
59225306 TACATAATAC
Statistics
Matches: 48, Mismatches: 8, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
9 48 1.00
ACGTcount: A:0.52, C:0.14, G:0.00, T:0.34
Consensus pattern (9 bp):
ATAACTTAC
Found at i:59225262 original size:18 final size:18
Alignment explanation
Indices: 59225231--59225298 Score: 91
Period size: 18 Copynumber: 3.8 Consensus size: 18
59225221 TTTGCATTTC
* * *
59225231 AATAAATTAAATAACTTA
1 AATAACTTACATAAATTA
*
59225249 CATAACTTACATAAATTA
1 AATAACTTACATAAATTA
59225267 AATAACTTACATAAATTA
1 AATAACTTACATAAATTA
*
59225285 AATAAATTACATAA
1 AATAACTTACATAA
59225299 CTTACATTAC
Statistics
Matches: 44, Mismatches: 6, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
18 44 1.00
ACGTcount: A:0.57, C:0.10, G:0.00, T:0.32
Consensus pattern (18 bp):
AATAACTTACATAAATTA
Found at i:59225270 original size:27 final size:27
Alignment explanation
Indices: 59225231--59225305 Score: 123
Period size: 27 Copynumber: 2.8 Consensus size: 27
59225221 TTTGCATTTC
*
59225231 AATAAATTAAATAACTTACATAACTTA
1 AATAAATTAAATAACTTACATAAATTA
*
59225258 CATAAATTAAATAACTTACATAAATTA
1 AATAAATTAAATAACTTACATAAATTA
*
59225285 AATAAATTACATAACTTACAT
1 AATAAATTAAATAACTTACAT
59225306 TACATAATAC
Statistics
Matches: 44, Mismatches: 4, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
27 44 1.00
ACGTcount: A:0.55, C:0.12, G:0.00, T:0.33
Consensus pattern (27 bp):
AATAAATTAAATAACTTACATAAATTA
Found at i:59230856 original size:21 final size:21
Alignment explanation
Indices: 59230826--59230872 Score: 67
Period size: 21 Copynumber: 2.2 Consensus size: 21
59230816 TTACAACTTA
* *
59230826 AAGCAGAGGCGGCAGCGAGGG
1 AAGCAAAGGCGGCAGCGAGAG
*
59230847 AAGCAAAGGCTGCAGCGAGAG
1 AAGCAAAGGCGGCAGCGAGAG
59230868 AAGCA
1 AAGCA
59230873 GAAGTTTAAA
Statistics
Matches: 23, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
21 23 1.00
ACGTcount: A:0.36, C:0.19, G:0.43, T:0.02
Consensus pattern (21 bp):
AAGCAAAGGCGGCAGCGAGAG
Found at i:59231402 original size:42 final size:42
Alignment explanation
Indices: 59231348--59231514 Score: 212
Period size: 42 Copynumber: 4.0 Consensus size: 42
59231338 TTTGTGAAGA
* *
59231348 AAGCGCCGCTAAAGAACATGATCTTTAGCGGCATCTTTTTTT
1 AAGCGCCACTAAAGAACATGACCTTTAGCGGCATCTTTTTTT
* * * *
59231390 AAGCGCCTCTAAAGAACATGATCTTTAGCTGCGTC-TTTTTT
1 AAGCGCCACTAAAGAACATGACCTTTAGCGGCATCTTTTTTT
* * * *
59231431 AAGCGCCACTAAAGAATATGACCTTTGGCGGCGT-TTTTTTCG
1 AAGCGCCACTAAAGAACATGACCTTTAGCGGCATCTTTTTT-T
*
59231473 AAGCGCCACTAAAGAACATGACCTTTAGCGGCATTTTTTTTT
1 AAGCGCCACTAAAGAACATGACCTTTAGCGGCATCTTTTTTT
59231515 CTGTAAACGT
Statistics
Matches: 109, Mismatches: 13, Indels: 6
0.85 0.10 0.05
Matches are distributed among these distances:
41 40 0.37
42 63 0.58
43 6 0.06
ACGTcount: A:0.26, C:0.22, G:0.19, T:0.34
Consensus pattern (42 bp):
AAGCGCCACTAAAGAACATGACCTTTAGCGGCATCTTTTTTT
Found at i:59231446 original size:83 final size:83
Alignment explanation
Indices: 59231348--59231501 Score: 220
Period size: 83 Copynumber: 1.9 Consensus size: 83
59231338 TTTGTGAAGA
* * * * *
59231348 AAGCGCCGCTAAAGAACATGATCTTTAGCGGCATCTTTTTT-TAAGCGCCTCTAAAGAACATGAT
1 AAGCGCCACTAAAGAACATGACCTTTAGCGGCAT-TTTTTTCGAAGCGCCACTAAAGAACATGAC
59231412 CTTTAGCTGCGTCTTTTTT
65 CTTTAGCTGCGTCTTTTTT
* * *
59231431 AAGCGCCACTAAAGAATATGACCTTTGGCGGCGTTTTTTTCGAAGCGCCACTAAAGAACATGACC
1 AAGCGCCACTAAAGAACATGACCTTTAGCGGCATTTTTTTCGAAGCGCCACTAAAGAACATGACC
59231496 TTTAGC
66 TTTAGC
59231502 GGCATTTTTT
Statistics
Matches: 62, Mismatches: 8, Indels: 2
0.86 0.11 0.03
Matches are distributed among these distances:
82 6 0.10
83 56 0.90
ACGTcount: A:0.27, C:0.23, G:0.19, T:0.31
Consensus pattern (83 bp):
AAGCGCCACTAAAGAACATGACCTTTAGCGGCATTTTTTTCGAAGCGCCACTAAAGAACATGACC
TTTAGCTGCGTCTTTTTT
Found at i:59236593 original size:31 final size:29
Alignment explanation
Indices: 59236524--59236595 Score: 81
Period size: 29 Copynumber: 2.4 Consensus size: 29
59236514 ACTTCAGGTT
*
59236524 ACATTTTAGTCACTTATGTTTGAAATGTT
1 ACATTTTAGTCACTTATGTTTGAAATGTA
* ***
59236553 ATATTTTAGTCACTTATGTTAATGTGTTGTA
1 ACATTTTAGTCACTTATGTT--TGAAATGTA
59236584 ACATTTTAGTCA
1 ACATTTTAGTCA
59236596 TTGAACCGTT
Statistics
Matches: 35, Mismatches: 6, Indels: 2
0.81 0.14 0.05
Matches are distributed among these distances:
29 19 0.54
31 16 0.46
ACGTcount: A:0.28, C:0.10, G:0.14, T:0.49
Consensus pattern (29 bp):
ACATTTTAGTCACTTATGTTTGAAATGTA
Found at i:59236717 original size:63 final size:64
Alignment explanation
Indices: 59236644--59236774 Score: 237
Period size: 64 Copynumber: 2.1 Consensus size: 64
59236634 TGACGTGACA
* *
59236644 CGTTAAATCATCATTTCAAAC-AAAATTTTAGTTTAAATTATATAGTTGGTCCCCATATTTTTT
1 CGTTAAATCATCATTTCAAACAAAAATTTTAGGTTAAATTATACAGTTGGTCCCCATATTTTTT
59236707 CGTTAAATCATCATTTCAAACAAAAATTTTAGGTTAAATTATACAGTTGGTCCCCATATTTTTT
1 CGTTAAATCATCATTTCAAACAAAAATTTTAGGTTAAATTATACAGTTGGTCCCCATATTTTTT
59236771 CGTT
1 CGTT
59236775 TTAAACAATT
Statistics
Matches: 65, Mismatches: 2, Indels: 1
0.96 0.03 0.01
Matches are distributed among these distances:
63 21 0.32
64 44 0.68
ACGTcount: A:0.33, C:0.15, G:0.09, T:0.43
Consensus pattern (64 bp):
CGTTAAATCATCATTTCAAACAAAAATTTTAGGTTAAATTATACAGTTGGTCCCCATATTTTTT
Found at i:59236843 original size:26 final size:26
Alignment explanation
Indices: 59236794--59236843 Score: 64
Period size: 26 Copynumber: 1.9 Consensus size: 26
59236784 TTATTTTTTC
* * *
59236794 CTTTTTTTTCTTTTATGTTCATTTAA
1 CTTTCTTTTATTTTATCTTCATTTAA
*
59236820 CTTTCTTTTATTTTATCTTTATTT
1 CTTTCTTTTATTTTATCTTCATTT
59236844 TCTATTCTCT
Statistics
Matches: 20, Mismatches: 4, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
26 20 1.00
ACGTcount: A:0.14, C:0.12, G:0.02, T:0.72
Consensus pattern (26 bp):
CTTTCTTTTATTTTATCTTCATTTAA
Found at i:59236845 original size:21 final size:21
Alignment explanation
Indices: 59236783--59236846 Score: 58
Period size: 21 Copynumber: 3.0 Consensus size: 21
59236773 TTTTAAACAA
* *
59236783 TTTATTTTTTCCTTTTTTTTCT
1 TTTATTTTAT-CTTTATTTTCT
* * *
59236805 TTTATGTTCAT-TTAACTTTCT
1 TTTAT-TTTATCTTTATTTTCT
59236826 TTTATTTTATCTTTATTTTCT
1 TTTATTTTATCTTTATTTTCT
59236847 ATTCTCTTCT
Statistics
Matches: 32, Mismatches: 8, Indels: 5
0.71 0.18 0.11
Matches are distributed among these distances:
20 4 0.12
21 20 0.62
22 5 0.16
23 3 0.09
ACGTcount: A:0.12, C:0.12, G:0.02, T:0.73
Consensus pattern (21 bp):
TTTATTTTATCTTTATTTTCT
Found at i:59243263 original size:5 final size:6
Alignment explanation
Indices: 59243246--59243270 Score: 50
Period size: 6 Copynumber: 4.2 Consensus size: 6
59243236 CAATATTCCC
59243246 ATAAAA ATAAAA ATAAAA ATAAAA A
1 ATAAAA ATAAAA ATAAAA ATAAAA A
59243271 GAAATGAAAA
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 19 1.00
ACGTcount: A:0.84, C:0.00, G:0.00, T:0.16
Consensus pattern (6 bp):
ATAAAA
Found at i:59249492 original size:7 final size:7
Alignment explanation
Indices: 59249480--59249505 Score: 52
Period size: 7 Copynumber: 3.7 Consensus size: 7
59249470 TAGTCGATTC
59249480 GTATTTA
1 GTATTTA
59249487 GTATTTA
1 GTATTTA
59249494 GTATTTA
1 GTATTTA
59249501 GTATT
1 GTATT
59249506 ATGTATATAA
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 19 1.00
ACGTcount: A:0.27, C:0.00, G:0.15, T:0.58
Consensus pattern (7 bp):
GTATTTA
Found at i:59250305 original size:7 final size:7
Alignment explanation
Indices: 59250269--59250301 Score: 57
Period size: 7 Copynumber: 4.7 Consensus size: 7
59250259 TTTTCTTTAA
59250269 AAACCTT
1 AAACCTT
59250276 AAACCTT
1 AAACCTT
59250283 AAACCTT
1 AAACCTT
*
59250290 AAACCCT
1 AAACCTT
59250297 AAACC
1 AAACC
59250302 CTAATCTATT
Statistics
Matches: 25, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
7 25 1.00
ACGTcount: A:0.45, C:0.33, G:0.00, T:0.21
Consensus pattern (7 bp):
AAACCTT
Found at i:59250364 original size:110 final size:108
Alignment explanation
Indices: 59250174--59250396 Score: 315
Period size: 110 Copynumber: 2.0 Consensus size: 108
59250164 TTTTCCTTAA
* *
59250174 AAACCATAAACACTAAACCCTAATCTAATTTTTTAAAATTTATAATTAATTTACTCAAGTAACCC
1 AAACCATAAACACTAAACCCTAATCTAATTTTTTAAAAATTATAATTAATTTACTCAAATAACCC
* *
59250239 TAAACCCTAACTTATTTGATTTTTCTTTAAAAACCTTAAAC-CTT
66 TAAACCCTAACTTATTTGATTTTTCCTT-AAAACCATAAACAC-T
* *
59250283 AAACCTTAAACCCTAAACCCTAATCT-ATTTTTTAAAAAAATTATAATTAATTTACTCAAATAAC
1 AAACCATAAACACTAAACCCTAATCTAATTTTTT--AAAAATTATAATTAATTTACTCAAATAAC
** *
59250347 TTTAAACCCTAATTTATTTGATTTTTCCTTAAAACCATAAACACT
64 CCTAAACCCTAACTTATTTGATTTTTCCTTAAAACCATAAACACT
59250392 AAACC
1 AAACC
59250397 CTAATCTAAT
Statistics
Matches: 102, Mismatches: 9, Indels: 6
0.87 0.08 0.05
Matches are distributed among these distances:
108 7 0.07
109 41 0.40
110 54 0.53
ACGTcount: A:0.42, C:0.20, G:0.01, T:0.37
Consensus pattern (108 bp):
AAACCATAAACACTAAACCCTAATCTAATTTTTTAAAAATTATAATTAATTTACTCAAATAACCC
TAAACCCTAACTTATTTGATTTTTCCTTAAAACCATAAACACT
Found at i:59250464 original size:93 final size:94
Alignment explanation
Indices: 59250279--59250480 Score: 266
Period size: 93 Copynumber: 2.2 Consensus size: 94
59250269 AAACCTTAAA
* * * *
59250279 CCTT-AAACCTTAAACCCTAAACCCTAATCTATTTTTTAAAAAAATTATAATTAATTTACTCAAA
1 CCTTAAAACCATAAACACTAAACCCTAATCTAATTTTT-AAAAAATTATAATTAATTTAATCAAA
* *
59250343 TAACTTTAAACCCTAATTTATTTGATTTTT
65 TAACCTTAAACCCTAATTTATTTAATTTTT
* *
59250373 CCTTAAAACCATAAACACTAAACCCTAATCTAATTTTT-AAAATTTATAATTAATTTAATTAAGA
1 CCTTAAAACCATAAACACTAAACCCTAATCTAATTTTTAAAAAATTATAATTAATTTAATCAA-A
*
59250437 -AACCTTAAACCCTTATTTATTTAATTTTT
65 TAACCTTAAACCCTAATTTATTTAATTTTT
* *
59250466 CTTTAAAACCCTAAA
1 CCTTAAAACCATAAA
59250481 ATTTAAAAAC
Statistics
Matches: 95, Mismatches: 11, Indels: 5
0.86 0.10 0.05
Matches are distributed among these distances:
93 60 0.63
94 5 0.05
95 30 0.32
ACGTcount: A:0.41, C:0.18, G:0.01, T:0.40
Consensus pattern (94 bp):
CCTTAAAACCATAAACACTAAACCCTAATCTAATTTTTAAAAAATTATAATTAATTTAATCAAAT
AACCTTAAACCCTAATTTATTTAATTTTT
Found at i:59250466 original size:203 final size:208
Alignment explanation
Indices: 59250075--59250473 Score: 601
Period size: 203 Copynumber: 1.9 Consensus size: 208
59250065 TTTTCTTTAA
* * * * *
59250075 AAACCCTAAACACTAAATCTTAATCTAATTTTTTTTAAAAATTTATAATTAATTTACTCAAGTAA
1 AAACCCTAAACACTAAACCCTAATCTAATTTTTTTAAAAAAATTATAATTAATTTACTCAAATAA
* *
59250140 CCCTAAGCTCTAATTTATTTGACTTTTTCCTTAAAAACCATAAACACTAAACCCTAATCTAATTT
66 CCCTAAACCCTAATTTATTTGACTTTTTCCTTAAAAACCATAAACACTAAACCCTAATCTAATTT
* * *
59250205 TTTAAAATTTATAATTAATTTACTCAAGTAACCCTAAACCCTAACTTATTTGATTTTTCTTTAAA
131 TTTAAAATTTATAATTAATTTAATCAAGAAACCCTAAACCCTAACTTATTTAATTTTTCTTTAAA
59250270 AACCTTAAACCTT
196 AACCTTAAACCTT
* *
59250283 AAACCTTAAACCCTAAACCCTAATCT-A-TTTTTTAAAAAAATTATAATTAATTTACTCAAATAA
1 AAACCCTAAACACTAAACCCTAATCTAATTTTTTTAAAAAAATTATAATTAATTTACTCAAATAA
**
59250346 CTTTAAACCCTAATTTATTTGA-TTTTTCCTT-AAAACCATAAACACTAAACCCTAATCTAA-TT
66 CCCTAAACCCTAATTTATTTGACTTTTTCCTTAAAAACCATAAACACTAAACCCTAATCTAATTT
* * * *
59250408 TTTAAAATTTATAATTAATTTAATTAAGAAACCTTAAACCCTTATTTATTTAATTTTTCTTTAAA
131 TTTAAAATTTATAATTAATTTAATCAAGAAACCCTAAACCCTAACTTATTTAATTTTTCTTTAAA
59250473 A
196 A
59250474 CCCTAAAATT
Statistics
Matches: 173, Mismatches: 18, Indels: 5
0.88 0.09 0.03
Matches are distributed among these distances:
203 61 0.35
204 29 0.17
205 9 0.05
206 51 0.29
207 1 0.01
208 22 0.13
ACGTcount: A:0.40, C:0.18, G:0.02, T:0.40
Consensus pattern (208 bp):
AAACCCTAAACACTAAACCCTAATCTAATTTTTTTAAAAAAATTATAATTAATTTACTCAAATAA
CCCTAAACCCTAATTTATTTGACTTTTTCCTTAAAAACCATAAACACTAAACCCTAATCTAATTT
TTTAAAATTTATAATTAATTTAATCAAGAAACCCTAAACCCTAACTTATTTAATTTTTCTTTAAA
AACCTTAAACCTT
Found at i:59250497 original size:16 final size:15
Alignment explanation
Indices: 59250467--59250496 Score: 51
Period size: 15 Copynumber: 2.0 Consensus size: 15
59250457 TTAATTTTTC
*
59250467 TTTAAAACCCTAAAA
1 TTTAAAAACCTAAAA
59250482 TTTAAAAACCTAAAA
1 TTTAAAAACCTAAAA
59250497 ACCTAAAAAC
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
15 14 1.00
ACGTcount: A:0.57, C:0.17, G:0.00, T:0.27
Consensus pattern (15 bp):
TTTAAAAACCTAAAA
Found at i:59250752 original size:8 final size:8
Alignment explanation
Indices: 59250732--59250784 Score: 52
Period size: 8 Copynumber: 6.1 Consensus size: 8
59250722 TTCCACGCTA
59250732 AATTTTTT
1 AATTTTTT
59250740 GAATTTTTT
1 -AATTTTTT
59250749 AATTTTTT
1 AATTTTTT
59250757 AATGTGTTTAT
1 AAT-T-TTT-T
*
59250768 AATTTTTA
1 AATTTTTT
*
59250776 AATTATTT
1 AATTTTTT
59250784 A
1 A
59250785 GTTGCGTAAC
Statistics
Matches: 38, Mismatches: 3, Indels: 7
0.79 0.06 0.15
Matches are distributed among these distances:
8 18 0.47
9 12 0.32
10 4 0.11
11 4 0.11
ACGTcount: A:0.30, C:0.00, G:0.06, T:0.64
Consensus pattern (8 bp):
AATTTTTT
Found at i:59250754 original size:17 final size:19
Alignment explanation
Indices: 59250732--59250774 Score: 56
Period size: 17 Copynumber: 2.4 Consensus size: 19
59250722 TTCCACGCTA
59250732 AATTTTTTGAAT-T-TTT-T
1 AATTTTTT-AATGTGTTTAT
59250749 AATTTTTTAATGTGTTTAT
1 AATTTTTTAATGTGTTTAT
59250768 AATTTTT
1 AATTTTT
59250775 AAATTATTTA
Statistics
Matches: 23, Mismatches: 0, Indels: 4
0.85 0.00 0.15
Matches are distributed among these distances:
16 3 0.13
17 9 0.39
18 3 0.13
19 8 0.35
ACGTcount: A:0.26, C:0.00, G:0.07, T:0.67
Consensus pattern (19 bp):
AATTTTTTAATGTGTTTAT
Found at i:59254144 original size:293 final size:293
Alignment explanation
Indices: 59253573--59254134 Score: 714
Period size: 293 Copynumber: 1.9 Consensus size: 293
59253563 TATATACTAA
* * * * * **
59253573 TATTTAAGCTCTTGATTGAGTTGGTATCTCCTTCAACCGAGTCACCAACTCGCTTAAAAAATTAT
1 TATTTAAGCTCCTGAATGAGTTGGTATCACCCTCAACCAAGTCACCAACTCAATTAAAAAATTAT
* *
59253638 AAAAATGCCCTTTCGTAATTAAAATAAATTATATTATTCGAGGTTACTTTAATCTTTTTATATTA
66 AAAAATACCCTTTCGTAATTAAAATAAATTATATTATTCAAGGTTACTTTAATCTTTTTATATTA
* *
59253703 AAAAATAACAAAAATACACATGTGATAAGATTTGAACTCACACCAATTAGATTAGTAAAACCCTT
131 AAAAATAACAAAAATACACATGTGATAAGATTTGAACTCAAACCAATTACATTAGTAAAACCCTT
*
59253768 AATTTACCACTTAACTAAAGTTTGATTTTAATATTTTTATACATTTTAATTTTATTATGTACACT
196 AATTTACCACTTAACTAAAGTTTGATTTTAATATTTTTATACATTTTAATTTTATTATGCACACT
59253833 TTATTACCTCTATCAATTGCATATCTATATTAT
261 TTATTACCTCTATCAATTGCATATCTATATTAT
* * *
59253866 TATTTAAGCTCCT-AATGAGTTGGTGTCACCCTCAACTAAGTCACCAACTCAATTAGGAAAATTA
1 TATTTAAGCTCCTGAATGAGTTGGTATCACCCTCAACCAAGTCACCAACTCAATTA-AAAAATTA
* * *
59253930 TAAAAATATCC-TTCTGTAATTAAAATAAGA-TATATTATTCAAGAG-TACTTTAGTTTTTTTAT
65 TAAAAATACCCTTTC-GTAATTAAAATAA-ATTATATTATTCAAG-GTTACTTTAATCTTTTTAT
** *
59253992 -TTAAAAAA-AGTAATAAA-A-A-ATGTGTATGGTAGAATTTGAAC-CGAAACCAATTACATTAG
127 ATTAAAAAATAACAA-AAATACACATGTG-AT--AAG-ATTTGAACTC-AAACCAATTACATTAG
* ** * *
59254051 TAACACTTTTAATTTTCCACTTAGA-TAAAGTTTTATTTTAATATTTTTATACATTTTAATTTTA
186 TAAAACCCTTAATTTACCACTTA-ACTAAAGTTTGATTTTAATATTTTTATACATTTTAATTTTA
59254115 TTATGCACACTTTATTACCT
250 TTATGCACACTTTATTACCT
59254135 TCGTCAATTG
Statistics
Matches: 232, Mismatches: 26, Indels: 22
0.83 0.09 0.08
Matches are distributed among these distances:
289 5 0.02
290 3 0.01
291 4 0.02
292 51 0.22
293 166 0.72
294 3 0.01
ACGTcount: A:0.37, C:0.14, G:0.09, T:0.40
Consensus pattern (293 bp):
TATTTAAGCTCCTGAATGAGTTGGTATCACCCTCAACCAAGTCACCAACTCAATTAAAAAATTAT
AAAAATACCCTTTCGTAATTAAAATAAATTATATTATTCAAGGTTACTTTAATCTTTTTATATTA
AAAAATAACAAAAATACACATGTGATAAGATTTGAACTCAAACCAATTACATTAGTAAAACCCTT
AATTTACCACTTAACTAAAGTTTGATTTTAATATTTTTATACATTTTAATTTTATTATGCACACT
TTATTACCTCTATCAATTGCATATCTATATTAT
Found at i:59266802 original size:29 final size:29
Alignment explanation
Indices: 59266702--59266803 Score: 73
Period size: 29 Copynumber: 3.5 Consensus size: 29
59266692 TTAATTAGGC
*
59266702 ACTATGTGTCGGTGATTAT-AGTTATCAAGT
1 ACTATGTGTCGGTG-TTATCA-TTATCAGGT
* * * * *
59266732 ACTTTCTATTGGTGTTA-CAATTATCAGGC
1 ACTATGTGTCGGTGTTATC-ATTATCAGGT
* * * *
59266761 ACTCTATGCCGGTGTTATCTTTATCAGGT
1 ACTATGTGTCGGTGTTATCATTATCAGGT
59266790 ACTATGTGTCGGTG
1 ACTATGTGTCGGTG
59266804 GTGGATCTCA
Statistics
Matches: 53, Mismatches: 16, Indels: 7
0.70 0.21 0.09
Matches are distributed among these distances:
29 41 0.77
30 12 0.23
ACGTcount: A:0.22, C:0.16, G:0.23, T:0.40
Consensus pattern (29 bp):
ACTATGTGTCGGTGTTATCATTATCAGGT
Found at i:59272261 original size:46 final size:45
Alignment explanation
Indices: 59272194--59272282 Score: 169
Period size: 46 Copynumber: 2.0 Consensus size: 45
59272184 TTAGGGGTTA
59272194 GGTCTGTTTTGGTCTTGGGTTTGGGCTGGTTCAGATTGGGCTTTG
1 GGTCTGTTTTGGTCTTGGGTTTGGGCTGGTTCAGATTGGGCTTTG
59272239 GGTCTGTTTTGGGTCTTGGGTTTGGGCTGGTTCAGATTGGGCTT
1 GGTCTGTTTT-GGTCTTGGGTTTGGGCTGGTTCAGATTGGGCTT
59272283 GTACAGCTGC
Statistics
Matches: 43, Mismatches: 0, Indels: 1
0.98 0.00 0.02
Matches are distributed among these distances:
45 10 0.23
46 33 0.77
ACGTcount: A:0.04, C:0.11, G:0.40, T:0.44
Consensus pattern (45 bp):
GGTCTGTTTTGGTCTTGGGTTTGGGCTGGTTCAGATTGGGCTTTG
Found at i:59272984 original size:87 final size:87
Alignment explanation
Indices: 59272840--59273137 Score: 354
Period size: 87 Copynumber: 3.4 Consensus size: 87
59272830 AGATAAGATC
*
59272840 CTTTAATCCGCTCCACTGTAACTTC-GGGGGATAAGATAGTGTCTTCGATCTGCTCCGCTGTAAT
1 CTTTAATCCGCTCCACTGTAACTTCAGGGAGATAAGATAGTGTCTTCGATCTGCTCCGCTGTAAT
*
59272904 CTCAGGGAGATAAGATCTCTTA
66 CTCAGGGAGATAAGATCTCTGA
* *
59272926 TTTTAATCCGCTCCACTGTAACTTCAGGGAGATAGGATAGTGTCTTCGATCTGCTCCGCTGTAAT
1 CTTTAATCCGCTCCACTGTAACTTCAGGGAGATAAGATAGTGTCTTCGATCTGCTCCGCTGTAAT
*
59272991 CTCAGGGAGATAAGATCTCTGG
66 CTCAGGGAGATAAGATCTCTGA
* * * * * * * *
59273013 CTTCAATCTGCTCCACTGTAACCTCAGGGAGATAAGAT-CTGAAATTCTTTGGTCTGTTCCACTG
1 CTTTAATCCGCTCCACTGTAACTTCAGGGAGATAAGATAGTG----TCTTCGATCTGCTCCGCTG
59273077 TAATCTCAGGGAGATAAGA-C-CTGA
62 TAATCTCAGGGAGATAAGATCTCTGA
* * ** * *
59273101 -TGTGATCTTCTCTACTGTAACTTCAGAGAGATAAGAT
1 CTTTAATCCGCTCCACTGTAACTTCAGGGAGATAAGAT
59273138 CCTTTAATCC
Statistics
Matches: 184, Mismatches: 23, Indels: 9
0.85 0.11 0.04
Matches are distributed among these distances:
86 26 0.14
87 120 0.65
88 3 0.02
89 1 0.01
90 34 0.18
ACGTcount: A:0.25, C:0.22, G:0.22, T:0.31
Consensus pattern (87 bp):
CTTTAATCCGCTCCACTGTAACTTCAGGGAGATAAGATAGTGTCTTCGATCTGCTCCGCTGTAAT
CTCAGGGAGATAAGATCTCTGA
Found at i:59273088 original size:46 final size:45
Alignment explanation
Indices: 59272881--59273264 Score: 245
Period size: 44 Copynumber: 8.8 Consensus size: 45
59272871 TAAGATAGTG
* * *
59272881 TCTTCGATCTGCTCCGCTGTAATCTCAGGGAGATAAGATCT--CT
1 TCTTTGATCTGCTCCACTGTAATCTCAGGGAGATAAGATCTGAAT
* * * * *
59272924 TATTTTAATCCGCTCCACTGTAA-CTTCAGGGAGATAGGA--T-AGT
1 T-CTTTGATCTGCTCCACTGTAATC-TCAGGGAGATAAGATCTGAAT
* * *
59272967 GTCTTCGATCTGCTCCGCTGTAATCTCAGGGAGATAAGATCT--CT
1 -TCTTTGATCTGCTCCACTGTAATCTCAGGGAGATAAGATCTGAAT
* ** *
59273011 GGCTTCAATCTGCTCCACTGTAACCTCAGGGAGATAAGATCTGAAAT
1 -TCTTTGATCTGCTCCACTGTAATCTCAGGGAGATAAGATCTG-AAT
* * *
59273058 TCTTTGGTCTGTTCCACTGTAATCTCAGGGAGATAAGACCTG-A-
1 TCTTTGATCTGCTCCACTGTAATCTCAGGGAGATAAGATCTGAAT
* * * *
59273101 --TGTGATCTTCTCTACTGTAA-CTTCAGAGAGATAAGATC-----
1 TCTTTGATCTGCTCCACTGTAATC-TCAGGGAGATAAGATCTGAAT
* * * * * * *
59273139 -CTTTAATCCGCTCCATTGTAATCTCAAGGAAATAGGAT-T-ACT
1 TCTTTGATCTGCTCCACTGTAATCTCAGGGAGATAAGATCTGAAT
* *
59273181 ATCCTTGATCTGCTCCGCTGTAATCTC-GGGAGATAAGATCTGAAAT
1 -TCTTTGATCTGCTCCACTGTAATCTCAGGGAGATAAGATCTG-AAT
* *
59273227 TCTTTGGTCTGTTCCACTGTAATCTCAGGGAGATAAGA
1 TCTTTGATCTGCTCCACTGTAATCTCAGGGAGATAAGA
59273265 CCTGTATAAT
Statistics
Matches: 262, Mismatches: 56, Indels: 43
0.73 0.16 0.12
Matches are distributed among these distances:
39 25 0.10
40 2 0.01
41 29 0.11
42 1 0.00
43 41 0.16
44 92 0.35
45 23 0.09
46 48 0.18
47 1 0.00
ACGTcount: A:0.26, C:0.22, G:0.21, T:0.32
Consensus pattern (45 bp):
TCTTTGATCTGCTCCACTGTAATCTCAGGGAGATAAGATCTGAAT
Found at i:59286899 original size:3 final size:3
Alignment explanation
Indices: 59286891--59286925 Score: 63
Period size: 3 Copynumber: 12.0 Consensus size: 3
59286881 AAATAAGTAG
59286891 ATA ATA ATA ATA ATA ATA ATA ATA ATA AT- ATA ATA
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA
59286926 GGACTAAATC
Statistics
Matches: 31, Mismatches: 0, Indels: 2
0.94 0.00 0.06
Matches are distributed among these distances:
2 2 0.06
3 29 0.94
ACGTcount: A:0.66, C:0.00, G:0.00, T:0.34
Consensus pattern (3 bp):
ATA
Done.