Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: A03
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: 108673976
ACGTcount: A:0.31, C:0.17, G:0.16, T:0.31
Warning! 5040000 characters in sequence are not A, C, G, or T
File 40 of 333
Found at i:11361883 original size:19 final size:19
Alignment explanation
Indices: 11361859--11361902 Score: 61
Period size: 19 Copynumber: 2.3 Consensus size: 19
11361849 CTTTCACTTT
11361859 TTTTTTTACTTATTTATTA
1 TTTTTTTACTTATTTATTA
* *
11361878 TTTTTTTAGTTTTTTATTA
1 TTTTTTTACTTATTTATTA
11361897 TCTTTT
1 T-TTTT
11361903 GTCTTTTTTT
Statistics
Matches: 22, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
19 18 0.82
20 4 0.18
ACGTcount: A:0.16, C:0.05, G:0.02, T:0.77
Consensus pattern (19 bp):
TTTTTTTACTTATTTATTA
Found at i:11361909 original size:18 final size:18
Alignment explanation
Indices: 11361888--11361937 Score: 50
Period size: 18 Copynumber: 2.8 Consensus size: 18
11361878 TTTTTTTAGT
11361888 TTTTTATT-ATCTTTTGTC
1 TTTTTATTAAT-TTTTGTC
* *
11361906 TTTTTTTTAATTTTTTTC
1 TTTTTATTAATTTTTGTC
11361924 TTTTT-TTAAGTTTT
1 TTTTTATTAA-TTTT
11361938 ATATTTTTTC
Statistics
Matches: 28, Mismatches: 2, Indels: 4
0.82 0.06 0.12
Matches are distributed among these distances:
17 4 0.14
18 22 0.79
19 2 0.07
ACGTcount: A:0.12, C:0.06, G:0.04, T:0.78
Consensus pattern (18 bp):
TTTTTATTAATTTTTGTC
Found at i:11361944 original size:17 final size:17
Alignment explanation
Indices: 11361907--11361946 Score: 53
Period size: 17 Copynumber: 2.4 Consensus size: 17
11361897 TCTTTTGTCT
* * *
11361907 TTTTTTTAATTTTTTTC
1 TTTTTTTAAGTTTTATA
11361924 TTTTTTTAAGTTTTATA
1 TTTTTTTAAGTTTTATA
11361941 TTTTTT
1 TTTTTT
11361947 CTTATTTTAT
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
17 20 1.00
ACGTcount: A:0.15, C:0.03, G:0.03, T:0.80
Consensus pattern (17 bp):
TTTTTTTAAGTTTTATA
Found at i:11361988 original size:16 final size:18
Alignment explanation
Indices: 11361934--11361979 Score: 62
Period size: 17 Copynumber: 2.7 Consensus size: 18
11361924 TTTTTTTAAG
11361934 TTTTATATTT-TTT-CTTA
1 TTTTAT-TTTGTTTACTTA
11361951 TTTTATTTTGTTTACTTA
1 TTTTATTTTGTTTACTTA
11361969 TTTT-TTTTGTT
1 TTTTATTTTGTT
11361980 ATTAATTTTA
Statistics
Matches: 27, Mismatches: 0, Indels: 4
0.87 0.00 0.13
Matches are distributed among these distances:
16 3 0.11
17 16 0.59
18 8 0.30
ACGTcount: A:0.13, C:0.04, G:0.04, T:0.78
Consensus pattern (18 bp):
TTTTATTTTGTTTACTTA
Found at i:11362492 original size:20 final size:19
Alignment explanation
Indices: 11362457--11362499 Score: 52
Period size: 20 Copynumber: 2.2 Consensus size: 19
11362447 TATTTAAAAG
*
11362457 TTAAAAAATAATATTTTAA
1 TTAAAAAATAATATTTGAA
11362476 TTAAAAAAGTGAA-ATTTGAA
1 TTAAAAAA-T-AATATTTGAA
11362496 TTAA
1 TTAA
11362500 TTAGAAAATA
Statistics
Matches: 21, Mismatches: 1, Indels: 3
0.84 0.04 0.12
Matches are distributed among these distances:
19 8 0.38
20 11 0.52
21 2 0.10
ACGTcount: A:0.56, C:0.00, G:0.07, T:0.37
Consensus pattern (19 bp):
TTAAAAAATAATATTTGAA
Found at i:11362537 original size:19 final size:20
Alignment explanation
Indices: 11362515--11362558 Score: 72
Period size: 19 Copynumber: 2.2 Consensus size: 20
11362505 AAATAAAAAA
*
11362515 TATTTGTTAAAAAA-AGATT
1 TATTTGTTAAAAAATAAATT
11362534 TATTTGTTAAAAAATAAATT
1 TATTTGTTAAAAAATAAATT
11362554 TATTT
1 TATTT
11362559 AAAAATATAT
Statistics
Matches: 23, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
19 14 0.61
20 9 0.39
ACGTcount: A:0.45, C:0.00, G:0.07, T:0.48
Consensus pattern (20 bp):
TATTTGTTAAAAAATAAATT
Found at i:11362546 original size:20 final size:19
Alignment explanation
Indices: 11362515--11362558 Score: 63
Period size: 20 Copynumber: 2.3 Consensus size: 19
11362505 AAATAAAAAA
11362515 TATTTGTTAAAAA-AAGATT
1 TATTTGTTAAAAATAA-ATT
11362534 TATTTGTTAAAAAATAAATT
1 TATTTGTT-AAAAATAAATT
11362554 TATTT
1 TATTT
11362559 AAAAATATAT
Statistics
Matches: 23, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
19 8 0.35
20 13 0.57
21 2 0.09
ACGTcount: A:0.45, C:0.00, G:0.07, T:0.48
Consensus pattern (19 bp):
TATTTGTTAAAAATAAATT
Found at i:11362554 original size:16 final size:16
Alignment explanation
Indices: 11362535--11362584 Score: 55
Period size: 16 Copynumber: 3.1 Consensus size: 16
11362525 AAAAAGATTT
*
11362535 ATTTGTTAAAAAATAA
1 ATTTATTAAAAAATAA
* *
11362551 ATTTATTTAAAAATAT
1 ATTTATTAAAAAATAA
* *
11362567 ATATATTAAAAAGTAA
1 ATTTATTAAAAAATAA
11362583 AT
1 AT
11362585 ATTTAAATTA
Statistics
Matches: 27, Mismatches: 7, Indels: 0
0.79 0.21 0.00
Matches are distributed among these distances:
16 27 1.00
ACGTcount: A:0.56, C:0.00, G:0.04, T:0.40
Consensus pattern (16 bp):
ATTTATTAAAAAATAA
Found at i:11362586 original size:16 final size:15
Alignment explanation
Indices: 11362543--11362591 Score: 55
Period size: 16 Copynumber: 3.2 Consensus size: 15
11362533 TTATTTGTTA
*
11362543 AAAAATAAATTTATTT
1 AAAAATAAATATA-TT
*
11362559 AAAAATATATATATT
1 AAAAATAAATATATT
11362574 AAAAAGTAAATAT-TT
1 AAAAA-TAAATATATT
11362589 AAA
1 AAA
11362592 TTAAAAGTTA
Statistics
Matches: 29, Mismatches: 3, Indels: 3
0.83 0.09 0.09
Matches are distributed among these distances:
15 12 0.41
16 17 0.59
ACGTcount: A:0.61, C:0.00, G:0.02, T:0.37
Consensus pattern (15 bp):
AAAAATAAATATATT
Found at i:11362586 original size:20 final size:21
Alignment explanation
Indices: 11362561--11362619 Score: 61
Period size: 20 Copynumber: 2.9 Consensus size: 21
11362551 ATTTATTTAA
11362561 AAATATATATATTAAAAAG-T
1 AAATATATATATTAAAAAGTT
* *
11362581 AAATATTTAAATT-AAAAGTT
1 AAATATATATATTAAAAAGTT
11362601 AAA-ACTATATATTATAAAA
1 AAATA-TATATATTA-AAAA
11362620 TTACATCATG
Statistics
Matches: 31, Mismatches: 4, Indels: 6
0.76 0.10 0.15
Matches are distributed among these distances:
19 6 0.19
20 21 0.68
22 4 0.13
ACGTcount: A:0.59, C:0.02, G:0.03, T:0.36
Consensus pattern (21 bp):
AAATATATATATTAAAAAGTT
Found at i:11363079 original size:20 final size:20
Alignment explanation
Indices: 11363056--11363120 Score: 62
Period size: 20 Copynumber: 3.2 Consensus size: 20
11363046 ATAATTTTTT
11363056 AATTTTAGTACACATTTATA
1 AATTTTAGTACACATTTATA
* * *
11363076 AATTTATA-TATGA-ATTTTTT
1 AATTT-TAGTA-CACATTTATA
*
11363096 AATTTTAGTACACATTCATA
1 AATTTTAGTACACATTTATA
11363116 AATTT
1 AATTT
11363121 ATGTACTTAA
Statistics
Matches: 34, Mismatches: 7, Indels: 8
0.69 0.14 0.16
Matches are distributed among these distances:
19 3 0.09
20 28 0.82
21 3 0.09
ACGTcount: A:0.38, C:0.08, G:0.05, T:0.49
Consensus pattern (20 bp):
AATTTTAGTACACATTTATA
Found at i:11363280 original size:71 final size:71
Alignment explanation
Indices: 11363193--11363344 Score: 241
Period size: 71 Copynumber: 2.1 Consensus size: 71
11363183 GGTTAATAAC
* * * * *
11363193 TTAAAGAAATTAAATATATTAAAAAATGTTATGTATAGCCAATTTTAAAATTTTAATATATTTAA
1 TTAAA-AAATTAAATATATTAAAAAATGTTAAGTATAACCAATATTAAAATTATAATATATTCAA
11363258 TATATTT
65 TATATTT
11363265 TTAAAAAATTAAATATATTAAAAAATGTTAAGTATAACCAATATTAAAATTATAATATATTCAAT
1 TTAAAAAATTAAATATATTAAAAAATGTTAAGTATAACCAATATTAAAATTATAATATATTCAAT
11363330 ATATTT
66 ATATTT
*
11363336 TTTAAAAAT
1 TTAAAAAAT
11363345 ATATTTTAAA
Statistics
Matches: 74, Mismatches: 6, Indels: 1
0.91 0.07 0.01
Matches are distributed among these distances:
71 69 0.93
72 5 0.07
ACGTcount: A:0.51, C:0.03, G:0.04, T:0.42
Consensus pattern (71 bp):
TTAAAAAATTAAATATATTAAAAAATGTTAAGTATAACCAATATTAAAATTATAATATATTCAAT
ATATTT
Found at i:11363458 original size:16 final size:17
Alignment explanation
Indices: 11363436--11363473 Score: 58
Period size: 17 Copynumber: 2.2 Consensus size: 17
11363426 AAAAACGTAA
*
11363436 AAAAATTTAAATATATT
1 AAAATTTTAAATATATT
*
11363453 AAAATTTTAAATATGTT
1 AAAATTTTAAATATATT
11363470 AAAA
1 AAAA
11363474 GAAAATGTTG
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
17 19 1.00
ACGTcount: A:0.58, C:0.00, G:0.03, T:0.39
Consensus pattern (17 bp):
AAAATTTTAAATATATT
Found at i:11365545 original size:30 final size:30
Alignment explanation
Indices: 11365509--11365611 Score: 134
Period size: 30 Copynumber: 3.4 Consensus size: 30
11365499 CGCAGAGCAA
* * *
11365509 TTCATATCACTCAGACATTGCCGGTTCAAG
1 TTCATATCACCCAGACATAGGCGGTTCAAG
* *
11365539 TTCATATCACCCGGATATAGGCGGTTCAAG
1 TTCATATCACCCAGACATAGGCGGTTCAAG
* *
11365569 TTCATATCACCCAAACATAGGCGGTTCGAG
1 TTCATATCACCCAGACATAGGCGGTTCAAG
*
11365599 TTCATTTCACCCA
1 TTCATATCACCCA
11365612 AAGCAACTAC
Statistics
Matches: 63, Mismatches: 10, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
30 63 1.00
ACGTcount: A:0.27, C:0.27, G:0.17, T:0.28
Consensus pattern (30 bp):
TTCATATCACCCAGACATAGGCGGTTCAAG
Found at i:11369875 original size:16 final size:15
Alignment explanation
Indices: 11369848--11369918 Score: 53
Period size: 13 Copynumber: 4.8 Consensus size: 15
11369838 TCGTTAAAAT
11369848 TAATTTTAAAATTAA
1 TAATTTTAAAATTAA
11369863 TAATTTATAAAATT-A
1 TAATTT-TAAAATTAA
11369878 T-A-TTTAAAATTTAAA
1 TAATTTTAAAA-TT-AA
*
11369893 AAATATTTAAAA-T-A
1 TAAT-TTTAAAATTAA
*
11369907 TAAATTTAAAAT
1 TAATTTTAAAAT
11369919 ATTATAAAAC
Statistics
Matches: 45, Mismatches: 3, Indels: 17
0.69 0.05 0.26
Matches are distributed among these distances:
12 5 0.11
13 11 0.24
14 4 0.09
15 9 0.20
16 9 0.20
18 7 0.16
ACGTcount: A:0.56, C:0.00, G:0.00, T:0.44
Consensus pattern (15 bp):
TAATTTTAAAATTAA
Found at i:11369887 original size:12 final size:13
Alignment explanation
Indices: 11369841--11369888 Score: 55
Period size: 12 Copynumber: 3.6 Consensus size: 13
11369831 TTGAATATCG
11369841 TTAAAATTA-ATT
1 TTAAAATTATATT
11369853 TTAAAATTAATAATT
1 TTAAAATT-AT-ATT
11369868 TATAAAATTATA-T
1 T-TAAAATTATATT
11369881 TTAAAATT
1 TTAAAATT
11369889 TAAAAAATAT
Statistics
Matches: 32, Mismatches: 0, Indels: 8
0.80 0.00 0.20
Matches are distributed among these distances:
12 15 0.47
13 3 0.09
14 1 0.03
15 6 0.19
16 7 0.22
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (13 bp):
TTAAAATTATATT
Found at i:11370155 original size:34 final size:32
Alignment explanation
Indices: 11370120--11370227 Score: 108
Period size: 33 Copynumber: 3.1 Consensus size: 32
11370110 TTAATAGTTA
* *
11370120 AAAAATAATATTTAAATTTTTAAACAATGATTT
1 AAAAATAATATTTAAA-TTTTAAAAAATAATTT
*
11370153 AAAAATAATATTTAAAATTTAGAAAAATAATTT
1 AAAAATAATATTTAAATTTTA-AAAAATAATTT
*
11370186 CAAAAATGTATATTTAAAATTTTAAAAATATATATTAT
1 -AAAAAT-AATATTT-AAATTTTAAAAA-ATA-ATT-T
11370224 AAAA
1 AAAA
11370228 CATTTCAAAT
Statistics
Matches: 63, Mismatches: 5, Indels: 10
0.81 0.06 0.13
Matches are distributed among these distances:
32 4 0.06
33 25 0.40
34 6 0.10
35 10 0.16
36 10 0.16
37 7 0.11
38 1 0.02
ACGTcount: A:0.56, C:0.02, G:0.03, T:0.39
Consensus pattern (32 bp):
AAAAATAATATTTAAATTTTAAAAAATAATTT
Found at i:11370157 original size:33 final size:33
Alignment explanation
Indices: 11370120--11370213 Score: 109
Period size: 33 Copynumber: 2.8 Consensus size: 33
11370110 TTAATAGTTA
* *
11370120 AAAAATAATATTTAAATTTTTAAACAATGATTT-
1 AAAAATAATATTTAAA-TTTTAAAAAATAATTTC
*
11370153 AAAAATAATATTTAAAATTTAGAAAAATAATTTC
1 AAAAATAATATTTAAATTTTA-AAAAATAATTTC
*
11370187 AAAAATGTATATTTAAAATTTTAAAAA
1 AAAAAT-AATATTT-AAATTTTAAAAA
11370214 TATATATTAT
Statistics
Matches: 52, Mismatches: 5, Indels: 6
0.83 0.08 0.10
Matches are distributed among these distances:
32 4 0.08
33 25 0.48
34 6 0.12
35 10 0.19
36 7 0.13
ACGTcount: A:0.56, C:0.02, G:0.03, T:0.38
Consensus pattern (33 bp):
AAAAATAATATTTAAATTTTAAAAAATAATTTC
Found at i:11370185 original size:20 final size:21
Alignment explanation
Indices: 11370149--11370190 Score: 52
Period size: 20 Copynumber: 2.0 Consensus size: 21
11370139 TTAAACAATG
11370149 ATTTAAAAATAATATTT-AAA
1 ATTTAAAAATAATATTTCAAA
*
11370169 ATTTAGAAA-AATAATTTCAAA
1 ATTTAAAAATAAT-ATTTCAAA
11370190 A
1 A
11370191 ATGTATATTT
Statistics
Matches: 19, Mismatches: 1, Indels: 3
0.83 0.04 0.13
Matches are distributed among these distances:
19 3 0.16
20 12 0.63
21 4 0.21
ACGTcount: A:0.60, C:0.02, G:0.02, T:0.36
Consensus pattern (21 bp):
ATTTAAAAATAATATTTCAAA
Found at i:11370206 original size:22 final size:24
Alignment explanation
Indices: 11370181--11370236 Score: 71
Period size: 22 Copynumber: 2.4 Consensus size: 24
11370171 TTAGAAAAAT
*
11370181 AATTTCAAAAATGTATATT-T-AA
1 AATTTCAAAAATATATATTATAAA
*
11370203 AATTTTAAAAATATATATTATAAA
1 AATTTCAAAAATATATATTATAAA
11370227 ACATTTCAAA
1 A-ATTTCAAA
11370237 TATACATTTC
Statistics
Matches: 28, Mismatches: 3, Indels: 3
0.82 0.09 0.09
Matches are distributed among these distances:
22 17 0.61
23 1 0.04
24 3 0.11
25 7 0.25
ACGTcount: A:0.54, C:0.05, G:0.02, T:0.39
Consensus pattern (24 bp):
AATTTCAAAAATATATATTATAAA
Found at i:11370286 original size:4 final size:4
Alignment explanation
Indices: 11370265--11370315 Score: 81
Period size: 4 Copynumber: 13.5 Consensus size: 4
11370255 TAAAATTAAT
11370265 AATA AA-A AAT- AA-A AATA AATA AATA AATA AATA AATA AATA AATA
1 AATA AATA AATA AATA AATA AATA AATA AATA AATA AATA AATA AATA
11370310 AATA AA
1 AATA AA
11370316 GATAAAGACA
Statistics
Matches: 44, Mismatches: 0, Indels: 6
0.88 0.00 0.12
Matches are distributed among these distances:
3 7 0.16
4 37 0.84
ACGTcount: A:0.78, C:0.00, G:0.00, T:0.22
Consensus pattern (4 bp):
AATA
Found at i:11370407 original size:22 final size:23
Alignment explanation
Indices: 11370374--11370422 Score: 64
Period size: 22 Copynumber: 2.2 Consensus size: 23
11370364 AAAAAGATTT
* **
11370374 AAAAATATATATTTAATGTTTAA
1 AAAAATATATATTCAAAATTTAA
11370397 AAAAATA-ATATTCAAAATTTAA
1 AAAAATATATATTCAAAATTTAA
11370419 AAAA
1 AAAA
11370423 TAGTTTAAAA
Statistics
Matches: 23, Mismatches: 3, Indels: 1
0.85 0.11 0.04
Matches are distributed among these distances:
22 16 0.70
23 7 0.30
ACGTcount: A:0.61, C:0.02, G:0.02, T:0.35
Consensus pattern (23 bp):
AAAAATATATATTCAAAATTTAA
Found at i:11370422 original size:21 final size:22
Alignment explanation
Indices: 11370370--11370424 Score: 60
Period size: 22 Copynumber: 2.5 Consensus size: 22
11370360 AAAAAAAAAG
* *
11370370 ATTT-AAAAATATATATTTAAT
1 ATTTAAAAAATATATATTCAAA
*
11370391 GTTTAAAAAA-ATAATATTCAAA
1 ATTTAAAAAATAT-ATATTCAAA
11370413 ATTTAAAAAATA
1 ATTTAAAAAATA
11370425 GTTTAAAAAA
Statistics
Matches: 27, Mismatches: 4, Indels: 4
0.77 0.11 0.11
Matches are distributed among these distances:
21 5 0.19
22 21 0.78
23 1 0.04
ACGTcount: A:0.58, C:0.02, G:0.02, T:0.38
Consensus pattern (22 bp):
ATTTAAAAAATATATATTCAAA
Found at i:11370440 original size:11 final size:11
Alignment explanation
Indices: 11370413--11370443 Score: 53
Period size: 12 Copynumber: 2.7 Consensus size: 11
11370403 AATATTCAAA
11370413 ATTTAAAAAAT
1 ATTTAAAAAAT
11370424 AGTTTAAAAAAT
1 A-TTTAAAAAAT
11370436 ATTTAAAA
1 ATTTAAAA
11370444 TTTTAAAAAT
Statistics
Matches: 19, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
11 8 0.42
12 11 0.58
ACGTcount: A:0.61, C:0.00, G:0.03, T:0.35
Consensus pattern (11 bp):
ATTTAAAAAAT
Found at i:11370499 original size:23 final size:23
Alignment explanation
Indices: 11370437--11370499 Score: 63
Period size: 23 Copynumber: 2.7 Consensus size: 23
11370427 TTAAAAAATA
* *
11370437 TTTAAAATTTTAAAAATATATAT
1 TTTAAAATTTTTAAAATATACAT
* ** *
11370460 TATAAAACATTTCAAATATACAT
1 TTTAAAATTTTTAAAATATACAT
*
11370483 TTTAAATTTTTTAAAAT
1 TTTAAAATTTTTAAAAT
11370500 TAATAACAAA
Statistics
Matches: 29, Mismatches: 11, Indels: 0
0.73 0.28 0.00
Matches are distributed among these distances:
23 29 1.00
ACGTcount: A:0.49, C:0.05, G:0.00, T:0.46
Consensus pattern (23 bp):
TTTAAAATTTTTAAAATATACAT
Found at i:11370551 original size:19 final size:17
Alignment explanation
Indices: 11370508--11370559 Score: 50
Period size: 19 Copynumber: 2.9 Consensus size: 17
11370498 ATTAATAACA
*
11370508 AAAAAAACAAAATAAAAT
1 AAAAAAA-AATATAAAAT
*
11370526 AAGAAAAAATATAAAACTT
1 AAAAAAAAATATAAAA--T
*
11370545 AAAAAAAAATTTAAA
1 AAAAAAAAATATAAA
11370560 GAAAAAGACA
Statistics
Matches: 28, Mismatches: 4, Indels: 3
0.80 0.11 0.09
Matches are distributed among these distances:
17 8 0.29
18 6 0.21
19 14 0.50
ACGTcount: A:0.77, C:0.04, G:0.02, T:0.17
Consensus pattern (17 bp):
AAAAAAAAATATAAAAT
Found at i:11370837 original size:14 final size:15
Alignment explanation
Indices: 11370818--11370850 Score: 59
Period size: 14 Copynumber: 2.3 Consensus size: 15
11370808 ATCTTTAAAA
11370818 ATAATTTAAAA-ATT
1 ATAATTTAAAATATT
11370832 ATAATTTAAAATATT
1 ATAATTTAAAATATT
11370847 ATAA
1 ATAA
11370851 AACAAATTAA
Statistics
Matches: 18, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
14 11 0.61
15 7 0.39
ACGTcount: A:0.58, C:0.00, G:0.00, T:0.42
Consensus pattern (15 bp):
ATAATTTAAAATATT
Found at i:11370954 original size:22 final size:21
Alignment explanation
Indices: 11370908--11370962 Score: 67
Period size: 21 Copynumber: 2.6 Consensus size: 21
11370898 GAAAGTTTAA
*
11370908 AATATTTAAATATTTAAAACAT
1 AATATTTAAA-ATTTAAAAAAT
11370930 AATATTTAAAATTTAAAAAAGT
1 AATATTTAAAATTTAAAAAA-T
*
11370952 AAT-TTCAAAAT
1 AATATTTAAAAT
11370963 ATATATTTAA
Statistics
Matches: 30, Mismatches: 2, Indels: 3
0.86 0.06 0.09
Matches are distributed among these distances:
21 16 0.53
22 14 0.47
ACGTcount: A:0.56, C:0.04, G:0.02, T:0.38
Consensus pattern (21 bp):
AATATTTAAAATTTAAAAAAT
Found at i:11370986 original size:22 final size:24
Alignment explanation
Indices: 11370953--11371009 Score: 73
Period size: 22 Copynumber: 2.4 Consensus size: 24
11370943 TAAAAAAGTA
*
11370953 ATTTCAAAATATATATT-TAAAAT
1 ATTTAAAAATATATATTATAAAAT
11370976 -TTTAAAAATATATATTAATAAAAT
1 ATTTAAAAATATATATT-ATAAAAT
*
11371000 ATTTCAAAAT
1 ATTTAAAAAT
11371010 TTTTAAAGTT
Statistics
Matches: 29, Mismatches: 2, Indels: 4
0.83 0.06 0.11
Matches are distributed among these distances:
22 15 0.52
24 6 0.21
25 8 0.28
ACGTcount: A:0.54, C:0.04, G:0.00, T:0.42
Consensus pattern (24 bp):
ATTTAAAAATATATATTATAAAAT
Found at i:11371033 original size:33 final size:32
Alignment explanation
Indices: 11370930--11371033 Score: 86
Period size: 34 Copynumber: 3.1 Consensus size: 32
11370920 TTTAAAACAT
* *
11370930 AATATTTAAAATTTAAAAAAGTAATTTCAA-AATA
1 AATATTTAAAATTTTAAAAA-T-ATAT-AATAATA
* *
11370964 TATATTTAAAATTTTAAAAATATATATTAATAA
1 AATATTTAAAATTTTAAAAATATATAATAAT-A
* *
11370997 AATATTTCAAAATTTTTAAAGT-TAATAATAATA
1 AATATTT-AAAATTTTAAAAATAT-ATAATAATA
11371030 AATA
1 AATA
11371034 AATAAAATAA
Statistics
Matches: 58, Mismatches: 8, Indels: 9
0.77 0.11 0.12
Matches are distributed among these distances:
31 1 0.02
32 6 0.10
33 14 0.24
34 37 0.64
ACGTcount: A:0.56, C:0.02, G:0.02, T:0.40
Consensus pattern (32 bp):
AATATTTAAAATTTTAAAAATATATAATAATA
Found at i:11371046 original size:14 final size:14
Alignment explanation
Indices: 11371020--11371057 Score: 53
Period size: 14 Copynumber: 2.8 Consensus size: 14
11371010 TTTTAAAGTT
11371020 AATAATAAT-AAATA
1 AATAA-AATAAAATA
11371034 AATAAAATAAAATA
1 AATAAAATAAAATA
11371048 AAT-AAATAAA
1 AATAAAATAAA
11371058 GAAAAAAGAC
Statistics
Matches: 23, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
13 10 0.43
14 13 0.57
ACGTcount: A:0.76, C:0.00, G:0.00, T:0.24
Consensus pattern (14 bp):
AATAAAATAAAATA
Found at i:11371049 original size:18 final size:19
Alignment explanation
Indices: 11371020--11371057 Score: 69
Period size: 18 Copynumber: 2.1 Consensus size: 19
11371010 TTTTAAAGTT
11371020 AATAATAATAAATAAATAA
1 AATAATAATAAATAAATAA
11371039 AATAA-AATAAATAAATAA
1 AATAATAATAAATAAATAA
11371057 A
1 A
11371058 GAAAAAAGAC
Statistics
Matches: 19, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
18 14 0.74
19 5 0.26
ACGTcount: A:0.76, C:0.00, G:0.00, T:0.24
Consensus pattern (19 bp):
AATAATAATAAATAAATAA
Found at i:11376192 original size:38 final size:40
Alignment explanation
Indices: 11376141--11376337 Score: 150
Period size: 38 Copynumber: 4.7 Consensus size: 40
11376131 GAAAAAACAT
11376141 GGTGCTAAGTGGATATACCACGGTTATACA-TG-TAATGA
1 GGTGCTAAGTGGATATACCACGGTTATACATTGATAATGA
* *
11376179 GGTGCTAAGTGGATATACCACGATTACACATATTGATACATGTAACA
1 GGTGCTAAGTGGATATACCACGGTTATAC--ATTGATA-ATG----A
* * * *
11376226 TGGTGCTAAGTGGATATGCCACGGTTACATATATTGATTCATTAACGT
1 -GGTGCTAAGTGGATATACCACGGTT--ATACATTG----A-TAATGA
* *
11376274 GGTGCTAAGTGGATATACCACGGTTAAACA-TGA-AATGT
1 GGTGCTAAGTGGATATACCACGGTTATACATTGATAATGA
*
11376312 GGTGCTAAGTGGATATGCCACGGTTA
1 GGTGCTAAGTGGATATACCACGGTTA
11376338 CATATATTGA
Statistics
Matches: 129, Mismatches: 13, Indels: 34
0.73 0.07 0.19
Matches are distributed among these distances:
38 56 0.43
40 2 0.02
41 2 0.02
42 2 0.02
43 3 0.02
44 2 0.02
45 3 0.02
47 25 0.19
48 27 0.21
50 2 0.02
52 3 0.02
53 2 0.02
ACGTcount: A:0.31, C:0.15, G:0.25, T:0.29
Consensus pattern (40 bp):
GGTGCTAAGTGGATATACCACGGTTATACATTGATAATGA
Found at i:11376222 original size:48 final size:47
Alignment explanation
Indices: 11376166--11376348 Score: 188
Period size: 48 Copynumber: 4.0 Consensus size: 47
11376156 TACCACGGTT
*
11376166 ATACATGTAATGAGGTGCTAAGTGGATATACCACGATTACACATATTG
1 ATACATGTAA-GAGGTGCTAAGTGGATATACCACGGTTACACATATTG
* * *
11376214 ATACATGTAACATGGTGCTAAGTGGATATGCCACGGTTACATATATTG
1 ATACATGTAAGA-GGTGCTAAGTGGATATACCACGGTTACACATATTG
* * *
11376262 ATTCAT-TAACGTGGTGCTAAGTGGATATACCACGGTTA-A-ACA-TG
1 ATACATGTAA-GAGGTGCTAAGTGGATATACCACGGTTACACATATTG
* *
11376306 A-A-ATGT----GGTGCTAAGTGGATATGCCACGGTTACATATATTG
1 ATACATGTAAGAGGTGCTAAGTGGATATACCACGGTTACACATATTG
11376347 AT
1 AT
11376349 TCATTAACGT
Statistics
Matches: 116, Mismatches: 12, Indels: 20
0.78 0.08 0.14
Matches are distributed among these distances:
38 25 0.22
39 1 0.01
40 2 0.02
41 3 0.03
42 2 0.02
43 1 0.01
44 3 0.03
45 2 0.02
46 1 0.01
47 29 0.25
48 47 0.41
ACGTcount: A:0.32, C:0.14, G:0.23, T:0.31
Consensus pattern (47 bp):
ATACATGTAAGAGGTGCTAAGTGGATATACCACGGTTACACATATTG
Found at i:11376328 original size:85 final size:82
Alignment explanation
Indices: 11376226--11376387 Score: 279
Period size: 85 Copynumber: 1.9 Consensus size: 82
11376216 ACATGTAACA
*
11376226 TGGTGCTAAGTGGATATGCCACGGTTACATATATTGATTCATTAACGTGGTGCTAAGTGGATATA
1 TGGTGCTAAGTGGATATGCCACGGTTACATATATTGATTCATTAACGTGGTG---AGTGGACATA
11376291 CCACGGTTAAACATGAAATG
63 CCACGGTTAAACATGAAATG
11376311 TGGTGCTAAGTGGATATGCCACGGTTACATATATTGATTCATTAACGTGGTGAGTGGACATACCA
1 TGGTGCTAAGTGGATATGCCACGGTTACATATATTGATTCATTAACGTGGTGAGTGGACATACCA
*
11376376 TGGTTAAACATG
66 CGGTTAAACATG
11376388 TTAATTTGAA
Statistics
Matches: 75, Mismatches: 2, Indels: 3
0.94 0.03 0.04
Matches are distributed among these distances:
82 23 0.31
85 52 0.69
ACGTcount: A:0.30, C:0.14, G:0.25, T:0.31
Consensus pattern (82 bp):
TGGTGCTAAGTGGATATGCCACGGTTACATATATTGATTCATTAACGTGGTGAGTGGACATACCA
CGGTTAAACATGAAATG
Found at i:11378691 original size:30 final size:31
Alignment explanation
Indices: 11378657--11378716 Score: 86
Period size: 31 Copynumber: 2.0 Consensus size: 31
11378647 TATTTTATTA
11378657 TTAATTTTGTTA-TTATTTTAAAGGAATTTG
1 TTAATTTTGTTATTTATTTTAAAGGAATTTG
* * *
11378687 TTAATTTTTTTATTTATTTTAGAGGCATTT
1 TTAATTTTGTTATTTATTTTAAAGGAATTT
11378717 TCTTGTTAAA
Statistics
Matches: 26, Mismatches: 3, Indels: 1
0.87 0.10 0.03
Matches are distributed among these distances:
30 11 0.42
31 15 0.58
ACGTcount: A:0.27, C:0.02, G:0.12, T:0.60
Consensus pattern (31 bp):
TTAATTTTGTTATTTATTTTAAAGGAATTTG
Found at i:11381095 original size:37 final size:37
Alignment explanation
Indices: 11381052--11381124 Score: 146
Period size: 37 Copynumber: 2.0 Consensus size: 37
11381042 AAAGACTGAT
11381052 GATGCTAAGTATGGTATCTAAAAATGTAAATTAGTAC
1 GATGCTAAGTATGGTATCTAAAAATGTAAATTAGTAC
11381089 GATGCTAAGTATGGTATCTAAAAATGTAAATTAGTA
1 GATGCTAAGTATGGTATCTAAAAATGTAAATTAGTA
11381125 GGATATTATC
Statistics
Matches: 36, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
37 36 1.00
ACGTcount: A:0.41, C:0.07, G:0.19, T:0.33
Consensus pattern (37 bp):
GATGCTAAGTATGGTATCTAAAAATGTAAATTAGTAC
Found at i:11391295 original size:15 final size:15
Alignment explanation
Indices: 11391258--11391333 Score: 57
Period size: 15 Copynumber: 4.9 Consensus size: 15
11391248 ATTATTTAAA
*
11391258 TTTTATTTAGTTTTATG
1 TTTTATTTA-TTTT-TC
11391275 TTTTATTTATTTTTC
1 TTTTATTTATTTTTC
* *
11391290 TTTTATTTCTATTTC
1 TTTTATTTATTTTTC
* *
11391305 TATT-TGTATTTTTTC
1 TTTTATTTA-TTTTTC
11391320 TTGTTA-TTATTTTT
1 TT-TTATTTATTTTT
11391334 TTTATTTTTT
Statistics
Matches: 47, Mismatches: 9, Indels: 8
0.73 0.14 0.12
Matches are distributed among these distances:
14 2 0.04
15 28 0.60
16 8 0.17
17 9 0.19
ACGTcount: A:0.14, C:0.05, G:0.05, T:0.75
Consensus pattern (15 bp):
TTTTATTTATTTTTC
Found at i:11391339 original size:25 final size:25
Alignment explanation
Indices: 11391311--11391400 Score: 76
Period size: 25 Copynumber: 3.3 Consensus size: 25
11391301 TTTCTATTTG
11391311 TATTTTTTCTTGTTATTATTTTTTT
1 TATTTTTTCTTGTTATTATTTTTTT
*
11391336 TATTTTTTAGACTTATATATTTTATTTTATTTT
1 TATTTTTT---CTTGT-TA--TTA-TTT-TTTT
11391369 GTATTTTTTCTTGTTATTA--TTTTT
1 -TATTTTTTCTTGTTATTATTTTTTT
11391393 TATTTTTT
1 TATTTTTT
11391401 AGACTTATAT
Statistics
Matches: 54, Mismatches: 2, Indels: 20
0.71 0.03 0.26
Matches are distributed among these distances:
23 8 0.15
24 4 0.07
25 9 0.17
28 7 0.13
29 2 0.04
30 2 0.04
31 7 0.13
32 3 0.06
33 4 0.07
34 8 0.15
ACGTcount: A:0.17, C:0.03, G:0.04, T:0.76
Consensus pattern (25 bp):
TATTTTTTCTTGTTATTATTTTTTT
Found at i:11391363 original size:5 final size:5
Alignment explanation
Indices: 11391353--11391433 Score: 51
Period size: 5 Copynumber: 15.8 Consensus size: 5
11391343 TAGACTTATA
* * * *
11391353 TATTT TATTT TATTT TGTAT T-TTT TCTTGT TATTAT T-TTT TATTT T-TTA
1 TATTT TATTT TATTT TATTT TATTT TATT-T TATT-T TATTT TATTT TATTT
*
11391402 GACTTAT ATATTT TATTT TATTT TATTT TATT
1 TA-TT-T -TATTT TATTT TATTT TATTT TATT
11391434 ATGTACTTCA
Statistics
Matches: 60, Mismatches: 9, Indels: 14
0.72 0.11 0.17
Matches are distributed among these distances:
4 7 0.12
5 41 0.68
6 9 0.15
7 2 0.03
8 1 0.02
ACGTcount: A:0.20, C:0.02, G:0.04, T:0.74
Consensus pattern (5 bp):
TATTT
Found at i:11391419 original size:57 final size:58
Alignment explanation
Indices: 11391293--11391425 Score: 225
Period size: 57 Copynumber: 2.3 Consensus size: 58
11391283 ATTTTTCTTT
11391293 TATTTCTATTTCTA-TTTGTATTTTTTCTTGTTATTATTTTTTTTATTTTTTAGACTTATA
1 TATTT-TATTT-TATTTTGTATTTTTTCTTGTTATTA-TTTTTTTATTTTTTAGACTTATA
11391353 TATTTTATTTTATTTTGTATTTTTTCTTGTTATTA-TTTTTTATTTTTTAGACTTATA
1 TATTTTATTTTATTTTGTATTTTTTCTTGTTATTATTTTTTTATTTTTTAGACTTATA
11391410 TATTTTATTTTATTTT
1 TATTTTATTTTATTTT
11391426 ATTTTATTAT
Statistics
Matches: 72, Mismatches: 0, Indels: 5
0.94 0.00 0.06
Matches are distributed among these distances:
57 38 0.53
58 2 0.03
59 27 0.38
60 5 0.07
ACGTcount: A:0.19, C:0.05, G:0.05, T:0.72
Consensus pattern (58 bp):
TATTTTATTTTATTTTGTATTTTTTCTTGTTATTATTTTTTTATTTTTTAGACTTATA
Found at i:11395669 original size:41 final size:41
Alignment explanation
Indices: 11395609--11395690 Score: 128
Period size: 41 Copynumber: 2.0 Consensus size: 41
11395599 AAAAAGGCAA
* * *
11395609 AGTTAGTGTTTCCTCGTTATATCTAAAGAATGTCATCCCAT
1 AGTTAGTGTTTCCTCGTTATATATAAAAAATGGCATCCCAT
*
11395650 AGTTAGTGTTTCCTTGTTATATATAAAAAATGGCATCCCAT
1 AGTTAGTGTTTCCTCGTTATATATAAAAAATGGCATCCCAT
11395691 CTTAATAATT
Statistics
Matches: 37, Mismatches: 4, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
41 37 1.00
ACGTcount: A:0.29, C:0.17, G:0.15, T:0.39
Consensus pattern (41 bp):
AGTTAGTGTTTCCTCGTTATATATAAAAAATGGCATCCCAT
Found at i:11404495 original size:24 final size:25
Alignment explanation
Indices: 11404468--11404515 Score: 62
Period size: 26 Copynumber: 1.9 Consensus size: 25
11404458 CTTATTTCAT
11404468 TAAATAAAAAT-TTTAAAAATATAA
1 TAAATAAAAATATTTAAAAATATAA
* *
11404492 TAAATCAAATTCATTTAAAAATAT
1 TAAATAAAAAT-ATTTAAAAATAT
11404516 TAAAACAAAA
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
24 9 0.45
26 11 0.55
ACGTcount: A:0.60, C:0.04, G:0.00, T:0.35
Consensus pattern (25 bp):
TAAATAAAAATATTTAAAAATATAA
Found at i:11405235 original size:11 final size:11
Alignment explanation
Indices: 11405213--11405283 Score: 63
Period size: 11 Copynumber: 6.5 Consensus size: 11
11405203 TAAAACACCA
11405213 CAAAAGTAGCAC
1 CAAAA-TAGCAC
*
11405225 TAAAATAGCAC
1 CAAAATAGCAC
*
11405236 CAAAATAGCAT
1 CAAAATAGCAC
* *
11405247 CAAAACAGCTC
1 CAAAATAGCAC
* * *
11405258 CGAAACAGCAA
1 CAAAATAGCAC
11405269 CAAAATAGCA-
1 CAAAATAGCAC
11405279 CAAAA
1 CAAAA
11405284 AAACAGCACT
Statistics
Matches: 48, Mismatches: 11, Indels: 2
0.79 0.18 0.03
Matches are distributed among these distances:
10 5 0.10
11 39 0.81
12 4 0.08
ACGTcount: A:0.55, C:0.24, G:0.11, T:0.10
Consensus pattern (11 bp):
CAAAATAGCAC
Found at i:11405506 original size:9 final size:9
Alignment explanation
Indices: 11405489--11405537 Score: 62
Period size: 9 Copynumber: 5.4 Consensus size: 9
11405479 ATTGAAGAAA
*
11405489 CATCATCCT
1 CATCGTCCT
11405498 CATCGTCCT
1 CATCGTCCT
*
11405507 CATCATCCT
1 CATCGTCCT
*
11405516 CATCGTCTT
1 CATCGTCCT
*
11405525 CATCGTCAT
1 CATCGTCCT
11405534 CATC
1 CATC
11405538 ATTCTTGCAA
Statistics
Matches: 35, Mismatches: 5, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
9 35 1.00
ACGTcount: A:0.18, C:0.41, G:0.06, T:0.35
Consensus pattern (9 bp):
CATCGTCCT
Found at i:11405512 original size:18 final size:18
Alignment explanation
Indices: 11405489--11405528 Score: 71
Period size: 18 Copynumber: 2.2 Consensus size: 18
11405479 ATTGAAGAAA
11405489 CATCATCCTCATCGTCCT
1 CATCATCCTCATCGTCCT
*
11405507 CATCATCCTCATCGTCTT
1 CATCATCCTCATCGTCCT
11405525 CATC
1 CATC
11405529 GTCATCATCA
Statistics
Matches: 21, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
18 21 1.00
ACGTcount: A:0.17, C:0.42, G:0.05, T:0.35
Consensus pattern (18 bp):
CATCATCCTCATCGTCCT
Found at i:11409028 original size:20 final size:20
Alignment explanation
Indices: 11409003--11409052 Score: 91
Period size: 20 Copynumber: 2.5 Consensus size: 20
11408993 AAAAACCTGC
*
11409003 AAGAAGAAGATGCAGCAGTG
1 AAGAAGAAGATGCAGCAGTA
11409023 AAGAAGAAGATGCAGCAGTA
1 AAGAAGAAGATGCAGCAGTA
11409043 AAGAAGAAGA
1 AAGAAGAAGA
11409053 AGAAGAAGAA
Statistics
Matches: 29, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
20 29 1.00
ACGTcount: A:0.52, C:0.08, G:0.32, T:0.08
Consensus pattern (20 bp):
AAGAAGAAGATGCAGCAGTA
Found at i:11409422 original size:14 final size:14
Alignment explanation
Indices: 11409403--11409429 Score: 54
Period size: 14 Copynumber: 1.9 Consensus size: 14
11409393 AAAAAATATA
11409403 AGTAAAGTTAAAAG
1 AGTAAAGTTAAAAG
11409417 AGTAAAGTTAAAA
1 AGTAAAGTTAAAA
11409430 ATAAAAAATG
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 13 1.00
ACGTcount: A:0.59, C:0.00, G:0.19, T:0.22
Consensus pattern (14 bp):
AGTAAAGTTAAAAG
Found at i:11414061 original size:27 final size:27
Alignment explanation
Indices: 11413992--11414066 Score: 77
Period size: 27 Copynumber: 2.8 Consensus size: 27
11413982 TCTCATCTCT
*
11413992 ATTTTACCT-TCAATAAAA-TTTTGACG
1 ATTTTACCTCT-ATTAAAATTTTTGACG
*
11414018 ATTTTA-CTCT-TGGTAAAATTTTTGATG
1 ATTTTACCTCTAT--TAAAATTTTTGACG
11414045 ATTTTACCTCTATTAAAATTTT
1 ATTTTACCTCTATTAAAATTTT
11414067 GAGAAAATAT
Statistics
Matches: 41, Mismatches: 2, Indels: 11
0.76 0.04 0.20
Matches are distributed among these distances:
25 2 0.05
26 12 0.29
27 22 0.54
28 4 0.10
29 1 0.02
ACGTcount: A:0.31, C:0.12, G:0.08, T:0.49
Consensus pattern (27 bp):
ATTTTACCTCTATTAAAATTTTTGACG
Found at i:11414216 original size:6 final size:6
Alignment explanation
Indices: 11414205--11414235 Score: 53
Period size: 6 Copynumber: 5.2 Consensus size: 6
11414195 TGTAAATGAA
*
11414205 TCATTT TCATTT TCATTT TCATTT CCATTT T
1 TCATTT TCATTT TCATTT TCATTT TCATTT T
11414236 GGAAACCTAC
Statistics
Matches: 23, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
6 23 1.00
ACGTcount: A:0.16, C:0.19, G:0.00, T:0.65
Consensus pattern (6 bp):
TCATTT
Found at i:11417856 original size:17 final size:19
Alignment explanation
Indices: 11417823--11417857 Score: 56
Period size: 17 Copynumber: 1.9 Consensus size: 19
11417813 AAAGTCTTTC
11417823 TCCTTCTTCCGTTCTTCCT
1 TCCTTCTTCCGTTCTTCCT
11417842 TCCTT-TTCC-TTCTTCC
1 TCCTTCTTCCGTTCTTCC
11417858 ATTCTTCATC
Statistics
Matches: 16, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
17 7 0.44
18 4 0.25
19 5 0.31
ACGTcount: A:0.00, C:0.43, G:0.03, T:0.54
Consensus pattern (19 bp):
TCCTTCTTCCGTTCTTCCT
Found at i:11422491 original size:18 final size:18
Alignment explanation
Indices: 11422448--11422500 Score: 61
Period size: 18 Copynumber: 2.9 Consensus size: 18
11422438 ATTTATTTAG
* **
11422448 TAATAGTCAATTATTCGG
1 TAATAATCAATTATTCAA
*
11422466 TAACAATCAATTATTCAA
1 TAATAATCAATTATTCAA
*
11422484 TAATAATCAGTTATTCA
1 TAATAATCAATTATTCA
11422501 GTATCAAATC
Statistics
Matches: 29, Mismatches: 6, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
18 29 1.00
ACGTcount: A:0.42, C:0.13, G:0.08, T:0.38
Consensus pattern (18 bp):
TAATAATCAATTATTCAA
Found at i:11422586 original size:19 final size:19
Alignment explanation
Indices: 11422537--11422588 Score: 61
Period size: 18 Copynumber: 2.8 Consensus size: 19
11422527 AGTAACAGTC
* *
11422537 AATTATTTAGTAAAAATTA
1 AATTATTCAGTAACAATTA
* *
11422556 GA-TATACAGTAACAATTA
1 AATTATTCAGTAACAATTA
11422574 AATTATTCAGTAACA
1 AATTATTCAGTAACA
11422589 GTCGATCTTT
Statistics
Matches: 26, Mismatches: 6, Indels: 2
0.76 0.18 0.06
Matches are distributed among these distances:
18 14 0.54
19 12 0.46
ACGTcount: A:0.50, C:0.08, G:0.08, T:0.35
Consensus pattern (19 bp):
AATTATTCAGTAACAATTA
Found at i:11422769 original size:59 final size:58
Alignment explanation
Indices: 11422702--11422840 Score: 180
Period size: 53 Copynumber: 2.4 Consensus size: 58
11422692 GGCCGAAGCC
* *
11422702 GAAACAGTAACAGTAACAGTAGCAGTACGGTATACAGAGTACCTCATCGGAACAAATCT
1 GAAACAGTAACAGTAACAGTA-CAGTACGGTACACAGAGTACCTCATCAGAACAAATCT
*
11422761 GAAACAGTAACAATAACA-T----TACGGTACACAGAGTACCTCATCAGAACAAATCT
1 GAAACAGTAACAGTAACAGTACAGTACGGTACACAGAGTACCTCATCAGAACAAATCT
* *
11422814 GAAACAGTAATAGTAACGGTAACAGTA
1 GAAACAGTAACAGTAACAGT-ACAGTA
11422841 ACAATATCCG
Statistics
Matches: 68, Mismatches: 6, Indels: 12
0.79 0.07 0.14
Matches are distributed among these distances:
53 47 0.69
54 1 0.01
58 1 0.01
59 19 0.28
ACGTcount: A:0.44, C:0.19, G:0.18, T:0.19
Consensus pattern (58 bp):
GAAACAGTAACAGTAACAGTACAGTACGGTACACAGAGTACCTCATCAGAACAAATCT
Found at i:11422771 original size:53 final size:53
Alignment explanation
Indices: 11422710--11422830 Score: 188
Period size: 53 Copynumber: 2.3 Consensus size: 53
11422700 CCGAAACAGT
* * *
11422710 AACAGTAACAGTAGCAGTACGGTATACAGAGTACCTCATCGGAACAAATCTGA
1 AACAGTAACAGTAACAGTACGGTACACAGAGTACCTCATCAGAACAAATCTGA
* *
11422763 AACAGTAACAATAACATTACGGTACACAGAGTACCTCATCAGAACAAATCTGA
1 AACAGTAACAGTAACAGTACGGTACACAGAGTACCTCATCAGAACAAATCTGA
*
11422816 AACAGTAATAGTAAC
1 AACAGTAACAGTAAC
11422831 GGTAACAGTA
Statistics
Matches: 61, Mismatches: 7, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
53 61 1.00
ACGTcount: A:0.44, C:0.21, G:0.17, T:0.19
Consensus pattern (53 bp):
AACAGTAACAGTAACAGTACGGTACACAGAGTACCTCATCAGAACAAATCTGA
Found at i:11423960 original size:12 final size:12
Alignment explanation
Indices: 11423945--11423982 Score: 51
Period size: 12 Copynumber: 3.2 Consensus size: 12
11423935 CAATTTTCCC
11423945 TTTCTTCTTTCT
1 TTTCTTCTTTCT
*
11423957 TTTCTCCTTTC-
1 TTTCTTCTTTCT
11423968 TTTCTTTCTTTCT
1 TTTC-TTCTTTCT
11423981 TT
1 TT
11423983 CCCTGCTTTT
Statistics
Matches: 22, Mismatches: 2, Indels: 3
0.81 0.07 0.11
Matches are distributed among these distances:
11 4 0.18
12 16 0.73
13 2 0.09
ACGTcount: A:0.00, C:0.26, G:0.00, T:0.74
Consensus pattern (12 bp):
TTTCTTCTTTCT
Found at i:11423980 original size:19 final size:19
Alignment explanation
Indices: 11423938--11423978 Score: 66
Period size: 20 Copynumber: 2.2 Consensus size: 19
11423928 AAACCTTCAA
11423938 TTTTC-CCTTTCTTCTTTC
1 TTTTCTCCTTTCTTCTTTC
11423956 TTTTCTCCTTTCTTTCTTTC
1 TTTTCTCCTTTC-TTCTTTC
11423976 TTT
1 TTT
11423979 CTTTCCCTGC
Statistics
Matches: 21, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
18 5 0.24
19 6 0.29
20 10 0.48
ACGTcount: A:0.00, C:0.29, G:0.00, T:0.71
Consensus pattern (19 bp):
TTTTCTCCTTTCTTCTTTC
Found at i:11426505 original size:16 final size:17
Alignment explanation
Indices: 11426479--11426525 Score: 51
Period size: 20 Copynumber: 2.6 Consensus size: 17
11426469 TGTAAAAACA
*
11426479 ATTTAAAATATAAATTT
1 ATTTAATATATAAATTT
11426496 ATTAATATATATATAAATTT
1 ATT--TA-ATATATAAATTT
11426516 A-TTAATATAT
1 ATTTAATATAT
11426526 GTAAAAACAG
Statistics
Matches: 26, Mismatches: 1, Indels: 7
0.76 0.03 0.21
Matches are distributed among these distances:
16 6 0.23
17 5 0.19
19 3 0.12
20 12 0.46
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (17 bp):
ATTTAATATATAAATTT
Found at i:11426511 original size:20 final size:20
Alignment explanation
Indices: 11426486--11426525 Score: 80
Period size: 20 Copynumber: 2.0 Consensus size: 20
11426476 ACAATTTAAA
11426486 ATATAAATTTATTAATATAT
1 ATATAAATTTATTAATATAT
11426506 ATATAAATTTATTAATATAT
1 ATATAAATTTATTAATATAT
11426526 GTAAAAACAG
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 20 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (20 bp):
ATATAAATTTATTAATATAT
Found at i:11426636 original size:14 final size:14
Alignment explanation
Indices: 11426617--11426654 Score: 58
Period size: 14 Copynumber: 2.7 Consensus size: 14
11426607 CCAGAAAAGT
11426617 AAATCATTTTCCAG
1 AAATCATTTTCCAG
*
11426631 AAATCATTTTCCGG
1 AAATCATTTTCCAG
*
11426645 AAAACATTTT
1 AAATCATTTT
11426655 ACTGGCAAAC
Statistics
Matches: 22, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
14 22 1.00
ACGTcount: A:0.37, C:0.18, G:0.08, T:0.37
Consensus pattern (14 bp):
AAATCATTTTCCAG
Found at i:11427904 original size:16 final size:17
Alignment explanation
Indices: 11427883--11427915 Score: 50
Period size: 17 Copynumber: 2.0 Consensus size: 17
11427873 TGCGTAATAG
*
11427883 AATAAAA-AAAAGCTAA
1 AATAAAAGAAAACCTAA
11427899 AATAAAAGAAAACCTAA
1 AATAAAAGAAAACCTAA
11427916 TGCTAGAATC
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
16 7 0.47
17 8 0.53
ACGTcount: A:0.73, C:0.09, G:0.06, T:0.12
Consensus pattern (17 bp):
AATAAAAGAAAACCTAA
Found at i:11428992 original size:8 final size:8
Alignment explanation
Indices: 11428979--11429004 Score: 52
Period size: 8 Copynumber: 3.2 Consensus size: 8
11428969 AAAATTTCAG
11428979 AATAATAA
1 AATAATAA
11428987 AATAATAA
1 AATAATAA
11428995 AATAATAA
1 AATAATAA
11429003 AA
1 AA
11429005 GCTGATAAAT
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
8 18 1.00
ACGTcount: A:0.77, C:0.00, G:0.00, T:0.23
Consensus pattern (8 bp):
AATAATAA
Found at i:11430385 original size:26 final size:26
Alignment explanation
Indices: 11430351--11430415 Score: 94
Period size: 26 Copynumber: 2.5 Consensus size: 26
11430341 TAATCTTTTG
11430351 AAAAGCCTTTGTGGCATGTCACTTGA
1 AAAAGCCTTTGTGGCATGTCACTTGA
* * * *
11430377 AAAAACCTTTTTGGCATGTCATTTGG
1 AAAAGCCTTTGTGGCATGTCACTTGA
11430403 AAAAGCCTTTGTG
1 AAAAGCCTTTGTG
11430416 CCTAATCTTG
Statistics
Matches: 33, Mismatches: 6, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
26 33 1.00
ACGTcount: A:0.28, C:0.17, G:0.22, T:0.34
Consensus pattern (26 bp):
AAAAGCCTTTGTGGCATGTCACTTGA
Found at i:11434146 original size:19 final size:19
Alignment explanation
Indices: 11434097--11434148 Score: 95
Period size: 19 Copynumber: 2.7 Consensus size: 19
11434087 GCAGGTCATC
*
11434097 GGCCATATTTGATCTCAAT
1 GGCCATATTTGGTCTCAAT
11434116 GGCCATATTTGGTCTCAAT
1 GGCCATATTTGGTCTCAAT
11434135 GGCCATATTTGGTC
1 GGCCATATTTGGTC
11434149 CAACAACTTC
Statistics
Matches: 32, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
19 32 1.00
ACGTcount: A:0.21, C:0.21, G:0.21, T:0.37
Consensus pattern (19 bp):
GGCCATATTTGGTCTCAAT
Found at i:11444894 original size:7 final size:8
Alignment explanation
Indices: 11444852--11444892 Score: 50
Period size: 7 Copynumber: 5.2 Consensus size: 8
11444842 TAAGTATAAG
11444852 ATAT-TTA
1 ATATATTA
11444859 ATATATATA
1 ATATAT-TA
11444868 ATATATTA
1 ATATATTA
*
11444876 TTATATTA
1 ATATATTA
11444884 AT-TATTA
1 ATATATTA
11444891 AT
1 AT
11444893 TAATTGAAAC
Statistics
Matches: 30, Mismatches: 2, Indels: 4
0.83 0.06 0.11
Matches are distributed among these distances:
7 11 0.37
8 11 0.37
9 8 0.27
ACGTcount: A:0.46, C:0.00, G:0.00, T:0.54
Consensus pattern (8 bp):
ATATATTA
Found at i:11452158 original size:23 final size:23
Alignment explanation
Indices: 11452122--11452175 Score: 65
Period size: 23 Copynumber: 2.3 Consensus size: 23
11452112 CTCGGCTCAG
* *
11452122 AACTCGTATTACTT-ATTCGAGTT
1 AACTCGAATAACTTGATTCGA-TT
*
11452145 GACTCGAATAACTTGATTCGATT
1 AACTCGAATAACTTGATTCGATT
11452168 AACTCGAA
1 AACTCGAA
11452176 ATTCAAATTT
Statistics
Matches: 26, Mismatches: 4, Indels: 2
0.81 0.12 0.06
Matches are distributed among these distances:
23 20 0.77
24 6 0.23
ACGTcount: A:0.31, C:0.19, G:0.15, T:0.35
Consensus pattern (23 bp):
AACTCGAATAACTTGATTCGATT
Found at i:11455003 original size:22 final size:20
Alignment explanation
Indices: 11454969--11455008 Score: 53
Period size: 21 Copynumber: 1.9 Consensus size: 20
11454959 CAATTTCTCA
11454969 TTATTTTGTTATACTTTTTTT
1 TTATTTTGTTATA-TTTTTTT
*
11454990 TTATTTTTTCTATATTTTT
1 TTATTTTGT-TATATTTTT
11455009 AATAATTTTA
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
21 13 0.76
22 4 0.24
ACGTcount: A:0.15, C:0.05, G:0.03, T:0.78
Consensus pattern (20 bp):
TTATTTTGTTATATTTTTTT
Found at i:11455016 original size:10 final size:10
Alignment explanation
Indices: 11455003--11455084 Score: 54
Period size: 9 Copynumber: 8.5 Consensus size: 10
11454993 TTTTTTCTAT
11455003 ATTTTTAATA
1 ATTTTTAATA
11455013 A-TTTTAATTTA
1 ATTTTTAA--TA
*
11455024 TGTTTTCTAATA
1 -ATTTT-TAATA
11455036 ATTTTT-ATA
1 ATTTTTAATA
11455045 AGTTTTTAA-A
1 A-TTTTTAATA
11455055 A-TTTT-ATA
1 ATTTTTAATA
11455063 ATTTTT-AT-
1 ATTTTTAATA
11455071 ATTTTTAA-A
1 ATTTTTAATA
11455080 ATTTT
1 ATTTT
11455085 GTGATTAAAT
Statistics
Matches: 59, Mismatches: 2, Indels: 23
0.70 0.02 0.27
Matches are distributed among these distances:
7 1 0.02
8 12 0.20
9 22 0.37
10 9 0.15
11 7 0.12
12 2 0.03
13 3 0.05
14 3 0.05
ACGTcount: A:0.34, C:0.01, G:0.02, T:0.62
Consensus pattern (10 bp):
ATTTTTAATA
Found at i:11455065 original size:8 final size:9
Alignment explanation
Indices: 11455033--11455084 Score: 63
Period size: 9 Copynumber: 5.9 Consensus size: 9
11455023 ATGTTTTCTA
11455033 ATAATTTTT
1 ATAATTTTT
11455042 ATAAGTTTTT
1 ATAA-TTTTT
*
11455052 A-AAATTTT
1 ATAATTTTT
11455060 ATAATTTTT
1 ATAATTTTT
11455069 AT-ATTTTT
1 ATAATTTTT
*
11455077 AAAATTTT
1 ATAATTTT
11455085 GTGATTAAAT
Statistics
Matches: 37, Mismatches: 3, Indels: 6
0.80 0.07 0.13
Matches are distributed among these distances:
8 12 0.32
9 19 0.51
10 6 0.16
ACGTcount: A:0.37, C:0.00, G:0.02, T:0.62
Consensus pattern (9 bp):
ATAATTTTT
Found at i:11455294 original size:27 final size:27
Alignment explanation
Indices: 11455259--11455321 Score: 65
Period size: 28 Copynumber: 2.3 Consensus size: 27
11455249 AAGTTGTCTA
*
11455259 ATAA-TTTTTATCAGTTTTTACATGTTT
1 ATAACTTTTAATCA-TTTTTACATGTTT
* *
11455286 ATAACTTTTAAATCATTTTTATATTTTT
1 ATAACTTTT-AATCATTTTTACATGTTT
*
11455314 AAAACTTT
1 ATAACTTT
11455322 AAAGGTTTAA
Statistics
Matches: 30, Mismatches: 4, Indels: 3
0.81 0.11 0.08
Matches are distributed among these distances:
27 4 0.13
28 22 0.73
29 4 0.13
ACGTcount: A:0.32, C:0.08, G:0.03, T:0.57
Consensus pattern (27 bp):
ATAACTTTTAATCATTTTTACATGTTT
Found at i:11461067 original size:10 final size:11
Alignment explanation
Indices: 11461052--11461102 Score: 65
Period size: 10 Copynumber: 4.9 Consensus size: 11
11461042 TAATTCTAGG
11461052 ATTTAT-TTTA
1 ATTTATCTTTA
11461062 ATTTATCTTTA
1 ATTTATCTTTA
11461073 ATTTATCTTT-
1 ATTTATCTTTA
11461083 ATTTAT-TTGT-
1 ATTTATCTT-TA
11461093 ATTTATCTTT
1 ATTTATCTTT
11461103 TAGAATTTCA
Statistics
Matches: 38, Mismatches: 0, Indels: 6
0.86 0.00 0.14
Matches are distributed among these distances:
9 2 0.05
10 20 0.53
11 16 0.42
ACGTcount: A:0.24, C:0.06, G:0.02, T:0.69
Consensus pattern (11 bp):
ATTTATCTTTA
Found at i:11480365 original size:5 final size:5
Alignment explanation
Indices: 11480355--11480384 Score: 60
Period size: 5 Copynumber: 6.0 Consensus size: 5
11480345 TTCTGAAACT
11480355 TAAAA TAAAA TAAAA TAAAA TAAAA TAAAA
1 TAAAA TAAAA TAAAA TAAAA TAAAA TAAAA
11480385 AGAGAGGGAT
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 25 1.00
ACGTcount: A:0.80, C:0.00, G:0.00, T:0.20
Consensus pattern (5 bp):
TAAAA
Found at i:11481143 original size:26 final size:28
Alignment explanation
Indices: 11481085--11481144 Score: 79
Period size: 26 Copynumber: 2.2 Consensus size: 28
11481075 ATTTTTATTA
*
11481085 TTTTTTATAATTATTTACATATTTGAAT
1 TTTTTTATAATTATTTACATATTTAAAT
* *
11481113 TTTTTTAT-ATT-TTTATATTTTTAAAT
1 TTTTTTATAATTATTTACATATTTAAAT
11481139 TTTTTT
1 TTTTTT
11481145 TTTGTAATTT
Statistics
Matches: 29, Mismatches: 3, Indels: 2
0.85 0.09 0.06
Matches are distributed among these distances:
26 18 0.62
27 3 0.10
28 8 0.28
ACGTcount: A:0.27, C:0.02, G:0.02, T:0.70
Consensus pattern (28 bp):
TTTTTTATAATTATTTACATATTTAAAT
Found at i:11481812 original size:12 final size:12
Alignment explanation
Indices: 11481795--11481820 Score: 52
Period size: 12 Copynumber: 2.2 Consensus size: 12
11481785 AAAATAGGGC
11481795 TTTAGCGGCGTT
1 TTTAGCGGCGTT
11481807 TTTAGCGGCGTT
1 TTTAGCGGCGTT
11481819 TT
1 TT
11481821 ATCAAAAAAC
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:0.08, C:0.15, G:0.31, T:0.46
Consensus pattern (12 bp):
TTTAGCGGCGTT
Found at i:11481918 original size:40 final size:41
Alignment explanation
Indices: 11481874--11481970 Score: 142
Period size: 41 Copynumber: 2.4 Consensus size: 41
11481864 GTGTTTTACC
* *
11481874 AAAAATGCCACTAAAAA-CAGAGCAATAGCGACGCTTTTGG
1 AAAAACGCCGCTAAAAACCAGAGCAATAGCGACGCTTTTGG
* *
11481914 AAAAACGCCGCTAAAAACCAGAGCATTAGCGGCGCTTTTGG
1 AAAAACGCCGCTAAAAACCAGAGCAATAGCGACGCTTTTGG
*
11481955 CAAAACGCCGCTAAAA
1 AAAAACGCCGCTAAAA
11481971 GTCATATAAC
Statistics
Matches: 51, Mismatches: 5, Indels: 1
0.89 0.09 0.02
Matches are distributed among these distances:
40 15 0.29
41 36 0.71
ACGTcount: A:0.40, C:0.24, G:0.21, T:0.15
Consensus pattern (41 bp):
AAAAACGCCGCTAAAAACCAGAGCAATAGCGACGCTTTTGG
Found at i:11482162 original size:21 final size:21
Alignment explanation
Indices: 11482138--11482218 Score: 72
Period size: 21 Copynumber: 3.7 Consensus size: 21
11482128 ATAGTTTATG
*
11482138 GTTTATGGTTTAAGATATATA
1 GTTTAGGGTTTAAGATATATA
* *
11482159 GTTTAGGGTTTAAGATTTTTGA
1 GTTTAGGGTTTAAGATATAT-A
* * *
11482181 GTTAACTATGGTTTAAGATACATG
1 GTT---TAGGGTTTAAGATATATA
11482205 GTTTAGGGTTTAAG
1 GTTTAGGGTTTAAG
11482219 GTTTAGGAGT
Statistics
Matches: 47, Mismatches: 9, Indels: 8
0.73 0.14 0.12
Matches are distributed among these distances:
21 27 0.57
22 4 0.09
24 3 0.06
25 13 0.28
ACGTcount: A:0.28, C:0.02, G:0.25, T:0.44
Consensus pattern (21 bp):
GTTTAGGGTTTAAGATATATA
Found at i:11482209 original size:46 final size:46
Alignment explanation
Indices: 11482141--11482234 Score: 143
Period size: 46 Copynumber: 2.0 Consensus size: 46
11482131 GTTTATGGTT
* **
11482141 TATGGTTTAAGATATATAGTTTAGGGTTTAAGATTTTTGAGTTAAC
1 TATGGTTTAAGATACATAGTTTAGGGTTTAAGATTTAGGAGTTAAC
* *
11482187 TATGGTTTAAGATACATGGTTTAGGGTTTAAGGTTTAGGAGTTAAC
1 TATGGTTTAAGATACATAGTTTAGGGTTTAAGATTTAGGAGTTAAC
11482233 TA
1 TA
11482235 GTATTTGAAG
Statistics
Matches: 43, Mismatches: 5, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
46 43 1.00
ACGTcount: A:0.30, C:0.03, G:0.24, T:0.43
Consensus pattern (46 bp):
TATGGTTTAAGATACATAGTTTAGGGTTTAAGATTTAGGAGTTAAC
Found at i:11482320 original size:21 final size:22
Alignment explanation
Indices: 11482284--11482351 Score: 72
Period size: 21 Copynumber: 3.2 Consensus size: 22
11482274 ATAATTTAGG
*
11482284 GTTTAGGGGTT-AGGG-TTGGA
1 GTTTAAGGGTTAAGGGTTTGGA
*
11482304 GTTTAA-TGTGTAAGGGTTTGG-
1 GTTTAAGGGT-TAAGGGTTTGGA
*
11482325 GGTTAAGGGTTAAGGGTTTGGA
1 GTTTAAGGGTTAAGGGTTTGGA
11482347 GTTTA
1 GTTTA
11482352 GAAAAATAAT
Statistics
Matches: 38, Mismatches: 5, Indels: 8
0.75 0.10 0.16
Matches are distributed among these distances:
19 2 0.05
20 6 0.16
21 20 0.53
22 10 0.26
ACGTcount: A:0.19, C:0.00, G:0.43, T:0.38
Consensus pattern (22 bp):
GTTTAAGGGTTAAGGGTTTGGA
Found at i:11482870 original size:23 final size:23
Alignment explanation
Indices: 11482809--11482871 Score: 67
Period size: 23 Copynumber: 2.7 Consensus size: 23
11482799 TAATATCCTA
* *
11482809 TATATGTAATTGAATTTAAATTT
1 TATATGTAATTGTATTAAAATTT
*
11482832 T-TAATTTATATT-TATTAAAATTT
1 TAT-ATGTA-ATTGTATTAAAATTT
11482855 TATATGTAATTGTATTA
1 TATATGTAATTGTATTA
11482872 GCATTTTTTA
Statistics
Matches: 32, Mismatches: 4, Indels: 8
0.73 0.09 0.18
Matches are distributed among these distances:
22 4 0.12
23 24 0.75
24 4 0.12
ACGTcount: A:0.38, C:0.00, G:0.06, T:0.56
Consensus pattern (23 bp):
TATATGTAATTGTATTAAAATTT
Found at i:11501710 original size:43 final size:43
Alignment explanation
Indices: 11501639--11501828 Score: 263
Period size: 43 Copynumber: 4.4 Consensus size: 43
11501629 TTTAATTTTT
* * * * *
11501639 ATGACATTTAGCGGCGTTTTTCGAAAAAGCGCCGCCAAAGGTC
1 ATGACCTTTAGCGGCGTTTGTGGGAAAAGCGCCGCTAAAGGTC
* *
11501682 CTGACCTTTGGCGGCGTTTGTGGGAAAAGCGCCGCTAAAGGTC
1 ATGACCTTTAGCGGCGTTTGTGGGAAAAGCGCCGCTAAAGGTC
* * **
11501725 ATGGCCTTTGGCGGCGTTTGTGATAAAAGCGCCGCTAAAGGTC
1 ATGACCTTTAGCGGCGTTTGTGGGAAAAGCGCCGCTAAAGGTC
*
11501768 ATGGCCTTTAGCGGCGTTTGTGGGAAAAGCGCCGCTAAAGGTC
1 ATGACCTTTAGCGGCGTTTGTGGGAAAAGCGCCGCTAAAGGTC
*
11501811 AGGACCTTTAGCGGCGTT
1 ATGACCTTTAGCGGCGTT
11501829 GTTTTCAAAT
Statistics
Matches: 131, Mismatches: 16, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
43 131 1.00
ACGTcount: A:0.22, C:0.22, G:0.32, T:0.24
Consensus pattern (43 bp):
ATGACCTTTAGCGGCGTTTGTGGGAAAAGCGCCGCTAAAGGTC
Found at i:11507420 original size:46 final size:46
Alignment explanation
Indices: 11507273--11507401 Score: 222
Period size: 46 Copynumber: 2.8 Consensus size: 46
11507263 TGTAACCCGC
* *
11507273 CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGGGCGTTCGCAT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGACGTTCGCAT
* *
11507319 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCAGACATTCGCAT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGACGTTCGCAT
11507365 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGA
1 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGA
11507402 TGCTCAGCCA
Statistics
Matches: 78, Mismatches: 5, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
46 78 1.00
ACGTcount: A:0.30, C:0.29, G:0.21, T:0.20
Consensus pattern (46 bp):
CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGACGTTCGCAT
Found at i:11509829 original size:30 final size:30
Alignment explanation
Indices: 11509785--11509873 Score: 94
Period size: 30 Copynumber: 3.0 Consensus size: 30
11509775 CAAAGATAAC
11509785 AAGAAAACC-GAATAAAGAAATCCAAGATA
1 AAGAAAACCAGAATAAAGAAATCCAAGATA
* *
11509814 GAGAAACCCAGAATAAAGAAATCC-AGAATA
1 AAGAAAACCAGAATAAAGAAATCCAAG-ATA
* * *
11509844 AAGAGATCCA-AGATAAAGAAACCCAAGATA
1 AAGAAAACCAGA-ATAAAGAAATCCAAGATA
11509874 CGATACTATG
Statistics
Matches: 50, Mismatches: 6, Indels: 7
0.79 0.10 0.11
Matches are distributed among these distances:
29 10 0.20
30 38 0.76
31 2 0.04
ACGTcount: A:0.58, C:0.16, G:0.16, T:0.10
Consensus pattern (30 bp):
AAGAAAACCAGAATAAAGAAATCCAAGATA
Found at i:11509833 original size:15 final size:15
Alignment explanation
Indices: 11509785--11509864 Score: 85
Period size: 15 Copynumber: 5.4 Consensus size: 15
11509775 CAAAGATAAC
*
11509785 AAGAAAACC-GAATA
1 AAGAAATCCAGAATA
11509799 AAGAAATCCA-AGATA
1 AAGAAATCCAGA-ATA
* *
11509814 GAGAAACCCAGAATA
1 AAGAAATCCAGAATA
11509829 AAGAAATCCAGAATA
1 AAGAAATCCAGAATA
*
11509844 AAGAGATCCA-AGATA
1 AAGAAATCCAGA-ATA
11509859 AAGAAA
1 AAGAAA
11509865 CCCAAGATAC
Statistics
Matches: 55, Mismatches: 7, Indels: 7
0.80 0.10 0.10
Matches are distributed among these distances:
14 10 0.18
15 44 0.80
16 1 0.02
ACGTcount: A:0.60, C:0.14, G:0.16, T:0.10
Consensus pattern (15 bp):
AAGAAATCCAGAATA
Found at i:11509869 original size:15 final size:15
Alignment explanation
Indices: 11509796--11509873 Score: 88
Period size: 15 Copynumber: 5.2 Consensus size: 15
11509786 AGAAAACCGA
11509796 ATAAAGAAATCCAAG
1 ATAAAGAAATCCAAG
* *
11509811 ATAGAGAAA-CCCAG
1 ATAAAGAAATCCAAG
11509825 AATAAAGAAATCC-AG
1 -ATAAAGAAATCCAAG
*
11509840 AATAAAGAGATCCAAG
1 -ATAAAGAAATCCAAG
*
11509856 ATAAAGAAACCCAAG
1 ATAAAGAAATCCAAG
11509871 ATA
1 ATA
11509874 CGATACTATG
Statistics
Matches: 54, Mismatches: 6, Indels: 6
0.82 0.09 0.09
Matches are distributed among these distances:
14 4 0.07
15 46 0.85
16 4 0.07
ACGTcount: A:0.58, C:0.15, G:0.15, T:0.12
Consensus pattern (15 bp):
ATAAAGAAATCCAAG
Found at i:11512855 original size:46 final size:46
Alignment explanation
Indices: 11512788--11512913 Score: 200
Period size: 46 Copynumber: 2.7 Consensus size: 46
11512778 TGTAACCCGC
* * *
11512788 CCATAAGTGAACTCGGACTCAACTCAACGAGCTT-GGGCGTTCGCAT
1 CCATAAGTGAACTCGGACTCAACTCAACGAG-TTCAGACATTCGCAT
11512834 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCAGACATTCGCAT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCAGACATTCGCAT
*
11512880 CCATAAATGAACTCGGACTCAACTCAACGAGTTC
1 CCATAAGTGAACTCGGACTCAACTCAACGAGTTC
11512914 GGATGCTCAA
Statistics
Matches: 75, Mismatches: 4, Indels: 2
0.93 0.05 0.02
Matches are distributed among these distances:
45 2 0.03
46 73 0.97
ACGTcount: A:0.31, C:0.29, G:0.19, T:0.21
Consensus pattern (46 bp):
CCATAAGTGAACTCGGACTCAACTCAACGAGTTCAGACATTCGCAT
Found at i:11518456 original size:20 final size:20
Alignment explanation
Indices: 11518429--11518476 Score: 66
Period size: 20 Copynumber: 2.5 Consensus size: 20
11518419 ACAATTTCTT
11518429 TTAA-TTTTTT-AATAATT-
1 TTAACTTTTTTAAATAATTA
11518446 TTATACTTTTTTAAATAATTA
1 TTA-ACTTTTTTAAATAATTA
11518467 TTAACTTTTT
1 TTAACTTTTT
11518477 ATTTTATTTT
Statistics
Matches: 27, Mismatches: 0, Indels: 5
0.84 0.00 0.16
Matches are distributed among these distances:
17 3 0.11
18 1 0.04
19 6 0.22
20 14 0.52
21 3 0.11
ACGTcount: A:0.33, C:0.04, G:0.00, T:0.62
Consensus pattern (20 bp):
TTAACTTTTTTAAATAATTA
Found at i:11528815 original size:33 final size:33
Alignment explanation
Indices: 11528773--11528835 Score: 126
Period size: 33 Copynumber: 1.9 Consensus size: 33
11528763 AGGAAACATT
11528773 ATGATTAAGGGTATTAATAAGATTGACTATATC
1 ATGATTAAGGGTATTAATAAGATTGACTATATC
11528806 ATGATTAAGGGTATTAATAAGATTGACTAT
1 ATGATTAAGGGTATTAATAAGATTGACTAT
11528836 CTTGGGATTA
Statistics
Matches: 30, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
33 30 1.00
ACGTcount: A:0.40, C:0.05, G:0.19, T:0.37
Consensus pattern (33 bp):
ATGATTAAGGGTATTAATAAGATTGACTATATC
Found at i:11528845 original size:33 final size:33
Alignment explanation
Indices: 11528775--11528849 Score: 114
Period size: 33 Copynumber: 2.3 Consensus size: 33
11528765 GAAACATTAT
*
11528775 GATTAAGGGTATTAATAAGATTGACTATATCAT
1 GATTAAGGGTATTAATAAGATTGACTATATCAG
* **
11528808 GATTAAGGGTATTAATAAGATTGACTATCTTGG
1 GATTAAGGGTATTAATAAGATTGACTATATCAG
11528841 GATTAAGGG
1 GATTAAGGG
11528850 AAGCGGTGGT
Statistics
Matches: 38, Mismatches: 4, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
33 38 1.00
ACGTcount: A:0.36, C:0.05, G:0.24, T:0.35
Consensus pattern (33 bp):
GATTAAGGGTATTAATAAGATTGACTATATCAG
Found at i:11529491 original size:25 final size:25
Alignment explanation
Indices: 11529463--11529514 Score: 68
Period size: 25 Copynumber: 2.1 Consensus size: 25
11529453 TTTGGCTTGA
**
11529463 CATTTACTAAGCAATATCGGATATT
1 CATTTACTAAGCAATATCAAATATT
* *
11529488 CATTTATTAGGCAATATCAAATATT
1 CATTTACTAAGCAATATCAAATATT
11529513 CA
1 CA
11529515 AATTATTCTT
Statistics
Matches: 23, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
25 23 1.00
ACGTcount: A:0.38, C:0.15, G:0.10, T:0.37
Consensus pattern (25 bp):
CATTTACTAAGCAATATCAAATATT
Found at i:11530764 original size:11 final size:11
Alignment explanation
Indices: 11530748--11530772 Score: 50
Period size: 11 Copynumber: 2.3 Consensus size: 11
11530738 TTCAGCTGAC
11530748 GAAAATGAAGA
1 GAAAATGAAGA
11530759 GAAAATGAAGA
1 GAAAATGAAGA
11530770 GAA
1 GAA
11530773 TTCTAGATAT
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 14 1.00
ACGTcount: A:0.64, C:0.00, G:0.28, T:0.08
Consensus pattern (11 bp):
GAAAATGAAGA
Found at i:11536364 original size:33 final size:33
Alignment explanation
Indices: 11536322--11536387 Score: 132
Period size: 33 Copynumber: 2.0 Consensus size: 33
11536312 GGACCCATTC
11536322 CTTAGCTTAGTATTAGTTAAAATTTTAATTAAA
1 CTTAGCTTAGTATTAGTTAAAATTTTAATTAAA
11536355 CTTAGCTTAGTATTAGTTAAAATTTTAATTAAA
1 CTTAGCTTAGTATTAGTTAAAATTTTAATTAAA
11536388 TTTTAAAGAA
Statistics
Matches: 33, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
33 33 1.00
ACGTcount: A:0.39, C:0.06, G:0.09, T:0.45
Consensus pattern (33 bp):
CTTAGCTTAGTATTAGTTAAAATTTTAATTAAA
Found at i:11536409 original size:23 final size:23
Alignment explanation
Indices: 11536383--11536427 Score: 63
Period size: 23 Copynumber: 2.0 Consensus size: 23
11536373 AAAATTTTAA
*
11536383 TTAAATTTTAAAGAAAACATAAG
1 TTAAAGTTTAAAGAAAACATAAG
**
11536406 TTAAAGTTTAATTAAAACATAA
1 TTAAAGTTTAAAGAAAACATAA
11536428 AATAAACATG
Statistics
Matches: 19, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
23 19 1.00
ACGTcount: A:0.56, C:0.04, G:0.07, T:0.33
Consensus pattern (23 bp):
TTAAAGTTTAAAGAAAACATAAG
Found at i:11545221 original size:26 final size:26
Alignment explanation
Indices: 11545182--11545315 Score: 241
Period size: 26 Copynumber: 5.2 Consensus size: 26
11545172 TGAAATTCCA
11545182 ATCATGGAACATTTACCTAACCCATT
1 ATCATGGAACATTTACCTAACCCATT
* *
11545208 ATCATGAAAAATTTACCTAACCCATT
1 ATCATGGAACATTTACCTAACCCATT
11545234 ATCATGGAACATTTACCTAACCCATT
1 ATCATGGAACATTTACCTAACCCATT
*
11545260 ATCATGAAACATTTACCTAACCCATT
1 ATCATGGAACATTTACCTAACCCATT
11545286 ATCATGGAACATTTACCTAACCCATT
1 ATCATGGAACATTTACCTAACCCATT
11545312 ATCA
1 ATCA
11545316 ATTTGTATCA
Statistics
Matches: 102, Mismatches: 6, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
26 102 1.00
ACGTcount: A:0.37, C:0.26, G:0.06, T:0.31
Consensus pattern (26 bp):
ATCATGGAACATTTACCTAACCCATT
Found at i:11552826 original size:26 final size:25
Alignment explanation
Indices: 11552797--11552850 Score: 72
Period size: 26 Copynumber: 2.1 Consensus size: 25
11552787 GAAACAAGAA
* *
11552797 AAAGAAACAGAGAAGAAACGAAATAG
1 AAAGAAACAAAGAAGAAAAGAAA-AG
*
11552823 AAAGAAATAAAGAAGAAAAGAAAAG
1 AAAGAAACAAAGAAGAAAAGAAAAG
11552848 AAA
1 AAA
11552851 AAGGAGAAAT
Statistics
Matches: 25, Mismatches: 3, Indels: 1
0.86 0.10 0.03
Matches are distributed among these distances:
25 5 0.20
26 20 0.80
ACGTcount: A:0.72, C:0.04, G:0.20, T:0.04
Consensus pattern (25 bp):
AAAGAAACAAAGAAGAAAAGAAAAG
Found at i:11556650 original size:25 final size:25
Alignment explanation
Indices: 11556620--11556704 Score: 91
Period size: 25 Copynumber: 3.4 Consensus size: 25
11556610 GCCCTCTCTC
11556620 GAGCCATATAATAGGAAGCTCATGT
1 GAGCCATATAATAGGAAGCTCATGT
* ** * *
11556645 GAGCCATGTAACGGGAAGCTTATCT
1 GAGCCATATAATAGGAAGCTCATGT
* **
11556670 GGGCTGTATAATAGGAAGCTCATGT
1 GAGCCATATAATAGGAAGCTCATGT
11556695 GAGCCA-ATAA
1 GAGCCATATAA
11556705 CGGGTAACTC
Statistics
Matches: 44, Mismatches: 16, Indels: 1
0.72 0.26 0.02
Matches are distributed among these distances:
24 4 0.09
25 40 0.91
ACGTcount: A:0.33, C:0.16, G:0.27, T:0.24
Consensus pattern (25 bp):
GAGCCATATAATAGGAAGCTCATGT
Found at i:11566212 original size:12 final size:12
Alignment explanation
Indices: 11566179--11566213 Score: 52
Period size: 13 Copynumber: 2.8 Consensus size: 12
11566169 TGAGACAAGA
11566179 TATTCTTTAAAT
1 TATTCTTTAAAT
*
11566191 TACTCTTTTAAAT
1 TATTC-TTTAAAT
11566204 TATTCTTTAA
1 TATTCTTTAA
11566214 GTAGCATAGA
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
12 9 0.45
13 11 0.55
ACGTcount: A:0.31, C:0.11, G:0.00, T:0.57
Consensus pattern (12 bp):
TATTCTTTAAAT
Found at i:11566362 original size:21 final size:23
Alignment explanation
Indices: 11566316--11566362 Score: 62
Period size: 23 Copynumber: 2.1 Consensus size: 23
11566306 AAATAGGTTG
* *
11566316 TATATTATTTTTTTGTAATATTA
1 TATATTATTTTTATGTAATATCA
11566339 TATATTATTTTTAT-TAAT-TCA
1 TATATTATTTTTATGTAATATCA
11566360 TAT
1 TAT
11566363 TTTAATAATT
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
21 5 0.23
22 4 0.18
23 13 0.59
ACGTcount: A:0.32, C:0.02, G:0.02, T:0.64
Consensus pattern (23 bp):
TATATTATTTTTATGTAATATCA
Found at i:11566701 original size:16 final size:16
Alignment explanation
Indices: 11566666--11566719 Score: 63
Period size: 16 Copynumber: 3.4 Consensus size: 16
11566656 TTGAATTGCT
* **
11566666 ATTACAATTCTATTTT
1 ATTACAACTCTATTCC
11566682 ATTACAACTCTATTCC
1 ATTACAACTCTATTCC
* *
11566698 ATTACAGCCCTATTCC
1 ATTACAACTCTATTCC
11566714 ATTACA
1 ATTACA
11566720 CTGAATCAAA
Statistics
Matches: 33, Mismatches: 5, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
16 33 1.00
ACGTcount: A:0.31, C:0.26, G:0.02, T:0.41
Consensus pattern (16 bp):
ATTACAACTCTATTCC
Found at i:11571415 original size:2 final size:2
Alignment explanation
Indices: 11571408--11571434 Score: 54
Period size: 2 Copynumber: 13.5 Consensus size: 2
11571398 GGTTCAGAGG
11571408 TC TC TC TC TC TC TC TC TC TC TC TC TC T
1 TC TC TC TC TC TC TC TC TC TC TC TC TC T
11571435 TTTTCTTTTT
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 25 1.00
ACGTcount: A:0.00, C:0.48, G:0.00, T:0.52
Consensus pattern (2 bp):
TC
Found at i:11572460 original size:20 final size:18
Alignment explanation
Indices: 11572435--11572482 Score: 51
Period size: 20 Copynumber: 2.4 Consensus size: 18
11572425 AGATTTGAGG
*
11572435 AAGAAAATGCAAAGAAAGTT
1 AAGAAAATG-AAA-AAAATT
11572455 AAGAAAGCATGAAAAAAATT
1 AAGAAA--ATGAAAAAAATT
11572475 AAGAAAAT
1 AAGAAAAT
11572483 TTGGGTTCAT
Statistics
Matches: 25, Mismatches: 1, Indels: 6
0.78 0.03 0.19
Matches are distributed among these distances:
18 2 0.08
20 17 0.68
21 3 0.12
22 3 0.12
ACGTcount: A:0.65, C:0.04, G:0.17, T:0.15
Consensus pattern (18 bp):
AAGAAAATGAAAAAAATT
Found at i:11582528 original size:15 final size:16
Alignment explanation
Indices: 11582493--11582530 Score: 51
Period size: 16 Copynumber: 2.4 Consensus size: 16
11582483 CGTTCTAAAA
*
11582493 AAATTGTTTTATTTTG
1 AAATTTTTTTATTTTG
*
11582509 TAATTTTTTTATTTT-
1 AAATTTTTTTATTTTG
11582524 AAATTTT
1 AAATTTT
11582531 CTTAAATACA
Statistics
Matches: 19, Mismatches: 3, Indels: 1
0.83 0.13 0.04
Matches are distributed among these distances:
15 6 0.32
16 13 0.68
ACGTcount: A:0.26, C:0.00, G:0.05, T:0.68
Consensus pattern (16 bp):
AAATTTTTTTATTTTG
Found at i:11583565 original size:125 final size:126
Alignment explanation
Indices: 11583147--11583589 Score: 451
Period size: 125 Copynumber: 3.5 Consensus size: 126
11583137 AACATAAGGA
* * * *
11583147 AATATCTCGTATTTGGGGAGTTTGAGAGATCGTGCCCAATCGTGCTGGGTTTCGTTCTTTTCATT
1 AATATTTCGTATTT-GGAAGTTTGAGAAATCGTGCCCAATCGTGCTGGGTTTCGAT-TTTTCATT
* *
11583212 CGACTAAAATACGGAATATCC-TTTGAAAATTTCATCCATGTTTTTTTAAAAAAAATAAAATGAG
64 CGACTAAAATACGAAATATCCTTTTGAAAATTTCATCCATG-TTTTCT---AAAAATAAAATGAG
*
11583276 GT
125 GC
* *
11583278 AATATTTCGTATTTGGAGAGTTTGAGAGATCGTGCCCAATCGTGCTGGGTTTCGTTTTTTTCATT
1 AATATTTCGTATTTGGA-AGTTTGAGAAATCGTGCCCAATCGTGCTGGGTTTCG-ATTTTTCATT
* * * * *
11583343 CGACTAAAATATGGAAA-ATCCTTTTTTGAAATTTTCATCCACGTTTTCTTAAAATAAAACGAGG
64 CGACTAAAATA-CGAAATATCC--TTTTGAAAATTTCATCCATGTTTTCTAAAAATAAAATGAGG
*
11583407 G
126 C
** * * * * * *
11583408 AATATTTCGTGCTTGGAAGTTTGGGGAGTCGTGCCCAATCGTGCTGGGCTTCAATTTTCCATTCG
1 AATATTTCGTATTTGGAAGTTTGAGAAATCGTGCCCAATCGTGCTGGGTTTCGATTTTTCATTCG
* * * * *
11583473 ACTAAAATACAAAATATCCTTTTG-AAGTTTCGTCCATGTTTTCTCAAATTAAAATGAGGC
66 ACTAAAATACGAAATATCCTTTTGAAAATTTCATCCATGTTTTCTAAAAATAAAATGAGGC
** * * * * *
11583533 AATGCTACGTATTTGGAAATTCGATAAATCGTGCCTAATCGTGCTGGGTTTCGATTT
1 AATATTTCGTATTTGGAAGTTTGAGAAATCGTGCCCAATCGTGCTGGGTTTCGATTT
11583590 ACCGTTTGGG
Statistics
Matches: 262, Mismatches: 43, Indels: 20
0.81 0.13 0.06
Matches are distributed among these distances:
125 72 0.27
126 5 0.02
127 3 0.01
128 23 0.09
129 30 0.11
130 30 0.11
131 72 0.27
132 5 0.02
133 5 0.02
134 17 0.06
ACGTcount: A:0.28, C:0.16, G:0.20, T:0.37
Consensus pattern (126 bp):
AATATTTCGTATTTGGAAGTTTGAGAAATCGTGCCCAATCGTGCTGGGTTTCGATTTTTCATTCG
ACTAAAATACGAAATATCCTTTTGAAAATTTCATCCATGTTTTCTAAAAATAAAATGAGGC
Found at i:11585008 original size:44 final size:46
Alignment explanation
Indices: 11584960--11585046 Score: 106
Period size: 46 Copynumber: 1.9 Consensus size: 46
11584950 CTAAATATAG
* *
11584960 CAGATCTCATC-CCACTG-GCAGGAGTGGAATAGATCAAATTTCGA
1 CAGATCTCATCTCCACTGAGCAGGAGCGGAACAGATCAAATTTCGA
* * * *
11585004 CAGATCTTATCTTCGCTGAGCAGGAGCGGAGCAGATCAAATTT
1 CAGATCTCATCTCCACTGAGCAGGAGCGGAACAGATCAAATTT
11585047 TGGCGAATCT
Statistics
Matches: 35, Mismatches: 6, Indels: 2
0.81 0.14 0.05
Matches are distributed among these distances:
44 10 0.29
45 4 0.11
46 21 0.60
ACGTcount: A:0.30, C:0.22, G:0.24, T:0.24
Consensus pattern (46 bp):
CAGATCTCATCTCCACTGAGCAGGAGCGGAACAGATCAAATTTCGA
Found at i:11585156 original size:133 final size:133
Alignment explanation
Indices: 11585005--11585714 Score: 1037
Period size: 133 Copynumber: 5.3 Consensus size: 133
11584995 AAATTTCGAC
**
11585005 AGATCTTATCTTCGCTGAGCAGGAGCGGAGCAGATCAAATTTTGGCGAATCTTATCTCCATGTAT
1 AGATCTTATCTTCGCTGAGCAGGAGCAAAGCAGATCAAATTTTGGCGAATCTTATCTCCATGTAT
* *
11585070 CGACATTGGAGCATATTTCAGCCACAAGCCTTATCTTCACTGAGCAGGAGTGGAGCAGGCTAAAT
66 CGGCATTGGAGCAGATTTCAGCCACAAGCCTTATCTTCACTGAGCAGGAGTGGAGCAGGCTAAAT
11585135 ACT
131 ACT
** ** *
11585138 AGATCTTATCTTTACTGAGCAGGAGCGGAGCAGATCAAATTTTGGTGAATCTTATCTCCATGTAT
1 AGATCTTATCTTCGCTGAGCAGGAGCAAAGCAGATCAAATTTTGGCGAATCTTATCTCCATGTAT
* * *
11585203 CGGCAATGGAGCAGATTTCAGCCACCAGGCTTATCTTCACTGAGCAGGAGTGGAGCAGGCTAAAC
66 CGGCATTGGAGCAGATTTCAGCCACAAGCCTTATCTTCACTGAGCAGGAGTGGAGCAGGCT-AA-
*
11585268 ATACC
129 ATACT
* **
11585273 AGATCTTATCTTCTCTGAGCAGGAGTGAAGCAGATCAAATTTTGGC-AAGTCTTATCTCCATGTA
1 AGATCTTATCTTCGCTGAGCAGGAGCAAAGCAGATCAAATTTTGGCGAA-TCTTATCTCCATGTA
* *
11585337 TCGGCATTGGAGCAGATTTCAGCCACCAGCCTTAGCTTCACTGAGCAGGAGTGGAGCAGGCTAAA
65 TCGGCATTGGAGCAGATTTCAGCCACAAGCCTTATCTTCACTGAGCAGGAGTGGAGCAGGCTAAA
11585402 TACT
130 TACT
*
11585406 AGATCTTATCTTCGCTGAGCAGGAGCAGAGCAGATCAAATTTTGGCGAATCTTATCTCCATGTAT
1 AGATCTTATCTTCGCTGAGCAGGAGCAAAGCAGATCAAATTTTGGCGAATCTTATCTCCATGTAT
*
11585471 CGGCATTGGAGCAGATTTCAGCCACAAGCCTTATCTTCACTGAGCAGGAGTGGAGCAGGCTATAT
66 CGGCATTGGAGCAGATTTCAGCCACAAGCCTTATCTTCACTGAGCAGGAGTGGAGCAGGCTAAAT
11585536 ACT
131 ACT
* ** *
11585539 AGATCTTATATTCGCTGAGCAGGAGCAAAGCAGATCAAATTTTGATGAATCTTATCTCTATGTAT
1 AGATCTTATCTTCGCTGAGCAGGAGCAAAGCAGATCAAATTTTGGCGAATCTTATCTCCATGTAT
* * ** * *
11585604 CGGCAATGGAGCAGATTCCAATCATC-AGCCTTATCTTCACTAAGCAGGAGTGGAGTAGGCTAAA
66 CGGCATTGGAGCAGATTTCAGCCA-CAAGCCTTATCTTCACTGAGCAGGAGTGGAGCAGGCT-AA
*
11585668 CATACC
129 -ATACT
* ** *
11585674 AGATCTTATATTTACTGAGCAGGAGTAAAGCAGATCAAATT
1 AGATCTTATCTTCGCTGAGCAGGAGCAAAGCAGATCAAATT
11585715 ATAGTAGATC
Statistics
Matches: 529, Mismatches: 41, Indels: 12
0.91 0.07 0.02
Matches are distributed among these distances:
133 358 0.68
134 10 0.02
135 161 0.30
ACGTcount: A:0.29, C:0.21, G:0.23, T:0.27
Consensus pattern (133 bp):
AGATCTTATCTTCGCTGAGCAGGAGCAAAGCAGATCAAATTTTGGCGAATCTTATCTCCATGTAT
CGGCATTGGAGCAGATTTCAGCCACAAGCCTTATCTTCACTGAGCAGGAGTGGAGCAGGCTAAAT
ACT
Found at i:11585426 original size:268 final size:265
Alignment explanation
Indices: 11585004--11585714 Score: 1073
Period size: 268 Copynumber: 2.7 Consensus size: 265
11584994 CAAATTTCGA
*
11585004 CAGATCTTATCTTCGCTGAGCAGGAGCGGAGCAGATCAAATTTTGGCGAATCTTATCTCCATGTA
1 CAGATCTTATCTTCGCTGAGCAGGAGCGAAGCAGATCAAATTTTGGC-AATCTTATCTCCATGTA
* * *
11585069 TCGACATTGGAGCATATTTCAGCCACAAGCCTTATCTTCACTGAGCAGGAGTGGAGCAGGCTAAA
65 TCGGCATTGGAGCAGATTTCAGCCACCAGCCTTATCTTCACTGAGCAGGAGTGGAGCAGGCTAAA
* *
11585134 TACTAGATCTTATCTTTACTGAGCAGGAGCGGAGCAGATCAAATTTTGGTGAATCTTATCTCCAT
130 TACTAGATCTTATCTTTACTGAGCAGGAGCAGAGCAGATCAAATTTTGGCGAATCTTATCTCCAT
* *
11585199 GTATCGGCAATGGAGCAGATTTCAGCCACCAGGCTTATCTTCACTGAGCAGGAGTGGAGCAGGCT
195 GTATCGGCAATGGAGCAGATTTCAGCCACAAGCCTTATCTTCACTGAGCAGGAGTGGAGCAGGCT
11585264 AAACATAC
260 --ACATAC
* *
11585272 CAGATCTTATCTTCTCTGAGCAGGAGTGAAGCAGATCAAATTTTGGCAAGTCTTATCTCCATGTA
1 CAGATCTTATCTTCGCTGAGCAGGAGCGAAGCAGATCAAATTTTGGCAA-TCTTATCTCCATGTA
*
11585337 TCGGCATTGGAGCAGATTTCAGCCACCAGCCTTAGCTTCACTGAGCAGGAGTGGAGCAGGCTAAA
65 TCGGCATTGGAGCAGATTTCAGCCACCAGCCTTATCTTCACTGAGCAGGAGTGGAGCAGGCTAAA
**
11585402 TACTAGATCTTATCTTCGCTGAGCAGGAGCAGAGCAGATCAAATTTTGGCGAATCTTATCTCCAT
130 TACTAGATCTTATCTTTACTGAGCAGGAGCAGAGCAGATCAAATTTTGGCGAATCTTATCTCCAT
*
11585467 GTATCGGCATTGGAGCAGATTTCAGCCACAAGCCTTATCTTCACTGAGCAGGAGTGGAGCAGGCT
195 GTATCGGCAATGGAGCAGATTTCAGCCACAAGCCTTATCTTCACTGAGCAGGAGTGGAGCAGGCT
*
11585532 ATATAC
260 ACATAC
* * * *
11585538 TAGATCTTATATTCGCTGAGCAGGAGCAAAGCAGATCAAATTTTGATG-AATCTTATCTCTATGT
1 CAGATCTTATCTTCGCTGAGCAGGAGCGAAGCAGATCAAATTTTG--GCAATCTTATCTCCATGT
* * ** * * *
11585602 ATCGGCAATGGAGCAGATTCCAATCATCAGCCTTATCTTCACTAAGCAGGAGTGGAGTAGGCTAA
64 ATCGGCATTGGAGCAGATTTCAGCCACCAGCCTTATCTTCACTGAGCAGGAGTGGAGCAGGCT-A
* * * *
11585667 ACATACCAGATCTTATATTTACTGAGCAGGAGTAAAGCAGATCAAATT
128 A-ATACTAGATCTTATCTTTACTGAGCAGGAGCAGAGCAGATCAAATT
11585715 ATAGTAGATC
Statistics
Matches: 403, Mismatches: 35, Indels: 10
0.90 0.08 0.02
Matches are distributed among these distances:
266 113 0.28
267 6 0.01
268 284 0.70
ACGTcount: A:0.29, C:0.21, G:0.23, T:0.27
Consensus pattern (265 bp):
CAGATCTTATCTTCGCTGAGCAGGAGCGAAGCAGATCAAATTTTGGCAATCTTATCTCCATGTAT
CGGCATTGGAGCAGATTTCAGCCACCAGCCTTATCTTCACTGAGCAGGAGTGGAGCAGGCTAAAT
ACTAGATCTTATCTTTACTGAGCAGGAGCAGAGCAGATCAAATTTTGGCGAATCTTATCTCCATG
TATCGGCAATGGAGCAGATTTCAGCCACAAGCCTTATCTTCACTGAGCAGGAGTGGAGCAGGCTA
CATAC
Found at i:11585960 original size:29 final size:29
Alignment explanation
Indices: 11585927--11585990 Score: 85
Period size: 29 Copynumber: 2.2 Consensus size: 29
11585917 CCAAATTAAA
*
11585927 CACCCCACTAAATCGA-CCACTAACTCTAT
1 CACCCCACTAAA-CCATCCACTAACTCTAT
* *
11585956 CACCCTACTAAACCATCCACTACCTCTAT
1 CACCCCACTAAACCATCCACTAACTCTAT
11585985 CACCCC
1 CACCCC
11585991 CACACCCTAC
Statistics
Matches: 30, Mismatches: 4, Indels: 2
0.83 0.11 0.06
Matches are distributed among these distances:
28 2 0.07
29 28 0.93
ACGTcount: A:0.31, C:0.47, G:0.02, T:0.20
Consensus pattern (29 bp):
CACCCCACTAAACCATCCACTAACTCTAT
Found at i:11586003 original size:37 final size:37
Alignment explanation
Indices: 11585956--11586026 Score: 124
Period size: 37 Copynumber: 1.9 Consensus size: 37
11585946 CTAACTCTAT
*
11585956 CACCCTACTAAACCATCCACTACCTCTATCACCCCCA
1 CACCCTACTAAACCATCCACTACCTCCATCACCCCCA
*
11585993 CACCCTACTAAACCGTCCACTACCTCCATCACCC
1 CACCCTACTAAACCATCCACTACCTCCATCACCC
11586027 TACTTGTTAT
Statistics
Matches: 32, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
37 32 1.00
ACGTcount: A:0.28, C:0.52, G:0.01, T:0.18
Consensus pattern (37 bp):
CACCCTACTAAACCATCCACTACCTCCATCACCCCCA
Found at i:11586470 original size:13 final size:12
Alignment explanation
Indices: 11586443--11586474 Score: 55
Period size: 13 Copynumber: 2.6 Consensus size: 12
11586433 ATGTTTCATA
11586443 TTATTATATTAT
1 TTATTATATTAT
11586455 TTATTATATATAT
1 TTATTATAT-TAT
11586468 TTATTAT
1 TTATTAT
11586475 GTAAATATAT
Statistics
Matches: 19, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
12 9 0.47
13 10 0.53
ACGTcount: A:0.34, C:0.00, G:0.00, T:0.66
Consensus pattern (12 bp):
TTATTATATTAT
Found at i:11587158 original size:126 final size:126
Alignment explanation
Indices: 11586933--11587176 Score: 434
Period size: 126 Copynumber: 1.9 Consensus size: 126
11586923 CATTGATCTT
* *
11586933 CTCTCAAAATTTTTCAAAATAAAGGCAATGTTCGGTATTTAAAGAATTCGAAGAATCGTGCCCTA
1 CTCTCAAAAATTTTCAAAATAAAGGCAATGTTCAGTATTTAAAGAATTCGAAGAATCGTGCCCTA
* * *
11586998 ATGTATTGGGTTTCGTTTTCTTTGTTTGTCTTGAATATTCGAATATCCTCTTACCAGTTCA
66 ACGTACTGGGTTTCGCTTTCTTTGTTTGTCTTGAATATTCGAATATCCTCTTACCAGTTCA
11587059 CTCTCAAAAATTTTCAAAATAAAGGCAATGTTCAGTATTTAAAGAATTCGAAGAATCGTGCCCTA
1 CTCTCAAAAATTTTCAAAATAAAGGCAATGTTCAGTATTTAAAGAATTCGAAGAATCGTGCCCTA
*
11587124 ACGTACTGGGTTTCGCTTTCTTTGTTTGTTTTGAATATTCGAATATCCTCTTA
66 ACGTACTGGGTTTCGCTTTCTTTGTTTGTCTTGAATATTCGAATATCCTCTTA
11587177 AGGCTAAAAC
Statistics
Matches: 112, Mismatches: 6, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
126 112 1.00
ACGTcount: A:0.29, C:0.17, G:0.16, T:0.39
Consensus pattern (126 bp):
CTCTCAAAAATTTTCAAAATAAAGGCAATGTTCAGTATTTAAAGAATTCGAAGAATCGTGCCCTA
ACGTACTGGGTTTCGCTTTCTTTGTTTGTCTTGAATATTCGAATATCCTCTTACCAGTTCA
Found at i:11587775 original size:35 final size:35
Alignment explanation
Indices: 11587732--11587806 Score: 125
Period size: 35 Copynumber: 2.2 Consensus size: 35
11587722 TACAATCCTT
*
11587732 TTAC-TGCATTCATTTTGGTTCAAGTCCCCTTGCA
1 TTACATGCATTCATTTTAGTTCAAGTCCCCTTGCA
*
11587766 TTACATGCATTCATTTTAGTTTAAGTCCCCTTGCA
1 TTACATGCATTCATTTTAGTTCAAGTCCCCTTGCA
11587801 TTACAT
1 TTACAT
11587807 ATTGCATGAC
Statistics
Matches: 38, Mismatches: 2, Indels: 1
0.93 0.05 0.02
Matches are distributed among these distances:
34 4 0.11
35 34 0.89
ACGTcount: A:0.21, C:0.24, G:0.12, T:0.43
Consensus pattern (35 bp):
TTACATGCATTCATTTTAGTTCAAGTCCCCTTGCA
Found at i:11597833 original size:45 final size:45
Alignment explanation
Indices: 11597716--11598711 Score: 367
Period size: 45 Copynumber: 22.3 Consensus size: 45
11597706 GGAGATACAG
* *
11597716 GTCTTATCTTCC-TGAAGTTGCAG-GAAGCAGACTGAAAAGTTAC-A
1 GTCTTATC-TCCATGAAGTTGCAGTGGAGCAGACTGAAAA-TGACAA
* * ***
11597760 GATCTTATCTCTATGTACCGGCTA-TGGAGCAGA-TCGAAAATGACAA
1 G-TCTTATCTCCATGAAGTTGC-AGTGGAGCAGACT-GAAAATGACAA
*
11597806 GTCTTATCTCCTTGAAGTTGCAGTGGAGCAGACTGAAGACA-G-CAA
1 GTCTTATCTCCATGAAGTTGCAGTGGAGCAGACTGAA-A-ATGACAA
* * *
11597851 GTCTTATCTTCC-TGAAGTTGTAG-GAAGCAGACT-AAAAGTTAC-A
1 GTCTTATC-TCCATGAAGTTGCAGTGGAGCAGACTGAAAA-TGACAA
* * * * *
11597894 GATCTTATCTCCATGTA-TCGGCTA-TGGAGTAGA-TCGGAAATGGCAA
1 G-TCTTATCTCCATGAAGT-TGC-AGTGGAGCAGACT-GAAAATGACAA
* *
11597940 GTCTTATCTCCCTGAAGTTGCAGTGGAGCAGACTGAAGAT-AGCAA
1 GTCTTATCTCCATGAAGTTGCAGTGGAGCAGACTGAAAATGA-CAA
* * *
11597985 GTCTTATCTTCC-TGAAGTTGCAG-GAAGCAGACTAAAAATTTAC-A
1 GTCTTATC-TCCATGAAGTTGCAGTGGAGCAGACTGAAAA-TGACAA
* * * * **
11598029 GATCTTATCTCCATGTA-TCGGCTA-TGGAGTAGA-TCAAAAATGATGA
1 G-TCTTATCTCCATGAAGT-TGC-AGTGGAGCAGACT-GAAAATGACAA
11598075 GTCTTATCTCTC-TGAAGTTGCAGTGGAGCAGACTGAAAAT-AGCAA
1 GTCTTATCTC-CATGAAGTTGCAGTGGAGCAGACTGAAAATGA-CAA
* * *
11598120 GTCTTATCTTCC-TGAAGTTGCAG-GAAGCAGACT-AAAATTA-TA
1 GTCTTATC-TCCATGAAGTTGCAGTGGAGCAGACTGAAAATGACAA
* * * * *
11598162 GATCTTATCTCCATGTA-TCGGCTA-TGGAGCAGA-TAAAAAATGGCGA
1 G-TCTTATCTCCATGAAGT-TGC-AGTGGAGCAGACT-GAAAATGACAA
* * * *** *** *
11598208 GTCTTATCTCTATGTA-TCGGCTA-TGGAGCAGA-TTTTAGCCACTA
1 GTCTTATCTCCATGAAGT-TGC-AGTGGAGCAGACTGAAAATGACAA
* * * * *
11598252 GTCTTATCTTCC-TGAAGTTGCA-AGAAGCGGACTGAAAATTTA-TA
1 GTCTTATC-TCCATGAAGTTGCAGTGGAGCAGACTGAAAA-TGACAA
*
11598296 GATCTTATCTCCAT-ATA-TCGACTA-TGGAGCAGA-TCGAAAATGACAA
1 G-TCTTATCTCCATGA-AGTTG-C-AGTGGAGCAGACT-GAAAATGACAA
*
11598342 GTCTTATCTCTC-TGAAGTTGCAGTGGAGCAGACTGAAGAT-AGCAA
1 GTCTTATCTC-CATGAAGTTGCAGTGGAGCAGACTGAAAATGA-CAA
* *
11598387 GTCTTATCTTCC-TGAAGTTGCAG-GAAGCAGACTG-AAATTAC-A
1 GTCTTATC-TCCATGAAGTTGCAGTGGAGCAGACTGAAAATGACAA
* * * * ****
11598429 GATCTCATCTCCATGTA-TCGGCTA-TGGAGCAGA-TCAAAAATGGTGG
1 G-TCTTATCTCCATGAAGT-TGC-AGTGGAGCAGACT-GAAAATGACAA
* * *** ** **
11598475 GTCTTATCTCCATGTA-TCGGCTA-TGGAGCAGA-TTTCAACCACCG
1 GTCTTATCTCCATGAAGT-TGC-AGTGGAGCAGACTGAAAATGACAA
* * * * *
11598519 GCCTTATCTCCCTAAAGTTACAGTGGAGCAGACTGAAGAT-AGCAA
1 GTCTTATCTCCATGAAGTTGCAGTGGAGCAGACTGAAAATGA-CAA
* * *
11598564 GCCTTATCTCCCTGAAGTTGCAGTGGAGCAGACTGAAGAT-AGCAA
1 GTCTTATCTCCATGAAGTTGCAGTGGAGCAGACTGAAAATGA-CAA
* * *
11598609 GTCTTATCTCCCTGAAGTTACAGTGGAGCAGACTGAAGAT-AGCAA
1 GTCTTATCTCCATGAAGTTGCAGTGGAGCAGACTGAAAATGA-CAA
* * * * * *
11598654 GTCTTATCTTCTTGAAGTTGTAG-GAAGTAGACTGAAAATTACAA
1 GTCTTATCTCCATGAAGTTGCAGTGGAGCAGACTGAAAATGACAA
*
11598698 ATCTTATCTCCATG
1 GTCTTATCTCCATG
11598712 TATCAGCTAT
Statistics
Matches: 739, Mismatches: 130, Indels: 166
0.71 0.13 0.16
Matches are distributed among these distances:
41 1 0.00
42 13 0.02
43 50 0.07
44 166 0.22
45 433 0.59
46 75 0.10
47 1 0.00
ACGTcount: A:0.31, C:0.19, G:0.22, T:0.28
Consensus pattern (45 bp):
GTCTTATCTCCATGAAGTTGCAGTGGAGCAGACTGAAAATGACAA
Found at i:11597910 original size:134 final size:134
Alignment explanation
Indices: 11597630--11598777 Score: 1169
Period size: 134 Copynumber: 8.6 Consensus size: 134
11597620 AAATGGTGGG
** *** * *
11597630 TCTTATCTCCATGTATCGGCTATGGAGCAGAT-TTAAGCCACCAGCCTTATCT-CTCTGAAGTTG
1 TCTTATCTCCATGTATCGGCTATGGAGCAGATCGAAAATGACAAGTCTTATCTCCT-TGAAGTTG
* ** * *
11597693 CAG-AGAGCAGGTTGGAGATA-CAGGTCTTATCTTCCTGAAGTTGCAGGAAGCAGACTGAAAAGT
65 CAGTGGAGCAGACTGAAGATAGCAAGTCTTATCTTCCTGAAGTTGCAGGAAGCAGACTGAAAA-T
11597756 TACAGA
129 TACAGA
* *
11597762 TCTTATCTCTATGTACCGGCTATGGAGCAGATCGAAAATGACAAGTCTTATCTCCTTGAAGTTGC
1 TCTTATCTCCATGTATCGGCTATGGAGCAGATCGAAAATGACAAGTCTTATCTCCTTGAAGTTGC
* *
11597827 AGTGGAGCAGACTGAAGACAGCAAGTCTTATCTTCCTGAAGTTGTAGGAAGCAGACT-AAAAGTT
66 AGTGGAGCAGACTGAAGATAGCAAGTCTTATCTTCCTGAAGTTGCAGGAAGCAGACTGAAAA-TT
11597891 ACAGA
130 ACAGA
* * * *
11597896 TCTTATCTCCATGTATCGGCTATGGAGTAGATCGGAAATGGCAAGTCTTATCTCCCTGAAGTTGC
1 TCTTATCTCCATGTATCGGCTATGGAGCAGATCGAAAATGACAAGTCTTATCTCCTTGAAGTTGC
*
11597961 AGTGGAGCAGACTGAAGATAGCAAGTCTTATCTTCCTGAAGTTGCAGGAAGCAGACTAAAAATTT
66 AGTGGAGCAGACTGAAGATAGCAAGTCTTATCTTCCTGAAGTTGCAGGAAGCAGACTGAAAA-TT
11598026 ACAGA
130 ACAGA
* * **
11598031 TCTTATCTCCATGTATCGGCTATGGAGTAGATCAAAAATGATGAGTCTTATCT-CTCTGAAGTTG
1 TCTTATCTCCATGTATCGGCTATGGAGCAGATCGAAAATGACAAGTCTTATCTCCT-TGAAGTTG
*
11598095 CAGTGGAGCAGACTGAAAATAGCAAGTCTTATCTTCCTGAAGTTGCAGGAAGCAGACT-AAAATT
65 CAGTGGAGCAGACTGAAGATAGCAAGTCTTATCTTCCTGAAGTTGCAGGAAGCAGACTGAAAATT
*
11598159 ATAGA
130 ACAGA
** * * * *
11598164 TCTTATCTCCATGTATCGGCTATGGAGCAGATAAAAAATGGCGAGTCTTATCT-CTATGTA-TCG
1 TCTTATCTCCATGTATCGGCTATGGAGCAGATCGAAAATGACAAGTCTTATCTCCT-TGAAGT-T
* ** ** * * *
11598227 GCTA-TGGAGCAGATTTTAGCCA-CTAGTCTTATCTTCCTGAAGTTGCAAGAAGCGGACTGAAAA
64 GC-AGTGGAGCAGACTGAAGATAGCAAGTCTTATCTTCCTGAAGTTGCAGGAAGCAGACTGAAAA
*
11598290 TTTATAGA
128 -TTACAGA
* *
11598298 TCTTATCTCCATATATCGACTATGGAGCAGATCGAAAATGACAAGTCTTATCT-CTCTGAAGTTG
1 TCTTATCTCCATGTATCGGCTATGGAGCAGATCGAAAATGACAAGTCTTATCTCCT-TGAAGTTG
11598362 CAGTGGAGCAGACTGAAGATAGCAAGTCTTATCTTCCTGAAGTTGCAGGAAGCAGACTG-AAATT
65 CAGTGGAGCAGACTGAAGATAGCAAGTCTTATCTTCCTGAAGTTGCAGGAAGCAGACTGAAAATT
11598426 ACAGA
130 ACAGA
* * **** * * *
11598431 TCTCATCTCCATGTATCGGCTATGGAGCAGATCAAAAATGGTGGGTCTTATCTCCATGTA-TCGG
1 TCTTATCTCCATGTATCGGCTATGGAGCAGATCGAAAATGACAAGTCTTATCTCCTTGAAGT-TG
* * ** ** * * * * * *
11598495 CTA-TGGAGCAGATTTCAA-CCA-CCGGCCTTATCTCCCTAAAGTTACAGTGGAGCAGACTGAAG
65 C-AGTGGAGCAGA-CTGAAGATAGCAAGTCTTATCTTCCTGAAGTTGCAG-GAAGCAGACTGAAA
11598557 A-TAGCA-A
127 ATTA-CAGA
* * * * * *
11598564 GCCTTATCTCCCTGAAGT-TGC-AGTGGAGCAGA-CTGAAGAT-AGCAAGTCTTATCTCCCTGAA
1 -TCTTATCTCCATGTA-TCGGCTA-TGGAGCAGATC-GAAAATGA-CAAGTCTTATCTCCTTGAA
* * * *
11598625 GTTACAGTGGAGCAGACTGAAGATAGCAAGTCTTATCTTCTTGAAGTTGTAGGAAGTAGACTGAA
61 GTTGCAGTGGAGCAGACTGAAGATAGCAAGTCTTATCTTCCTGAAGTTGCAGGAAGCAGACTGAA
*
11598690 AATTACAAA
126 AATTACAGA
* * ** ** *
11598699 TCTTATCTCCATGTATCAGCTATTGAGCAGATCTCAGCT-ACTAGTCTTATCTTCC-TGAAGTTG
1 TCTTATCTCCATGTATCGGCTATGGAGCAGATCGAAAATGACAAGTCTTATC-TCCTTGAAGTTG
*
11598762 CAG-GAAGCAGACTGAA
65 CAGTGGAGCAGACTGAA
11598778 AAGTTACAGA
Statistics
Matches: 850, Mismatches: 131, Indels: 70
0.81 0.12 0.07
Matches are distributed among these distances:
132 97 0.11
133 209 0.25
134 326 0.38
135 218 0.26
ACGTcount: A:0.30, C:0.19, G:0.23, T:0.28
Consensus pattern (134 bp):
TCTTATCTCCATGTATCGGCTATGGAGCAGATCGAAAATGACAAGTCTTATCTCCTTGAAGTTGC
AGTGGAGCAGACTGAAGATAGCAAGTCTTATCTTCCTGAAGTTGCAGGAAGCAGACTGAAAATTA
CAGA
Found at i:11598353 original size:267 final size:267
Alignment explanation
Indices: 11597716--11598731 Score: 1300
Period size: 267 Copynumber: 3.8 Consensus size: 267
11597706 GGAGATACAG
* * * *
11597716 GTCTTATCTTCCTGAAGTTGCAGGAAGCAGACTGAAAAGTTACAGATCTTATCTCTATGTACCGG
1 GTCTTATCTTCCTGAAGTTGCAGGAAGCAGACTGAAAATTTACAGATCTTATCTCCATATATCGG
11597781 CTATGGAGCAGATCGAAAATGACAAGTCTTATCTC-CTTGAAGTTGCAGTGGAGCAGACTGAAGA
66 CTATGGAGCAGATCGAAAATGACAAGTCTTATCTCTC-TGAAGTTGCAGTGGAGCAGACTGAAGA
* *
11597845 CAGCAAGTCTTATCTTCCTGAAGTTGTAGGAAGCAGACTAAAAGTTACAGATCTTATCTCCATGT
130 TAGCAAGTCTTATCTTCCTGAAGTTGCAGGAAGCAGACTAAAA-TTACAGATCTTATCTCCATGT
* ** * * * * *
11597910 ATCGGCTATGGAGTAGATCGGAAATGGCAAGTCTTATCTCCCTGAAGT-TGC-AGTGGAGCAGAC
194 ATCGGCTATGGAGCAGATCAAAAATGGCGAGTCTTATCTCCATGTA-TCGGCTA-TGGAGCAGAT
* **
11597973 TGAAGATAGCAA
257 TTAAGCCA-CAA
* *
11597985 GTCTTATCTTCCTGAAGTTGCAGGAAGCAGACTAAAAATTTACAGATCTTATCTCCATGTATCGG
1 GTCTTATCTTCCTGAAGTTGCAGGAAGCAGACTGAAAATTTACAGATCTTATCTCCATATATCGG
* * ** *
11598050 CTATGGAGTAGATCAAAAATGATGAGTCTTATCTCTCTGAAGTTGCAGTGGAGCAGACTGAAAAT
66 CTATGGAGCAGATCGAAAATGACAAGTCTTATCTCTCTGAAGTTGCAGTGGAGCAGACTGAAGAT
*
11598115 AGCAAGTCTTATCTTCCTGAAGTTGCAGGAAGCAGACTAAAATTATAGATCTTATCTCCATGTAT
131 AGCAAGTCTTATCTTCCTGAAGTTGCAGGAAGCAGACTAAAATTACAGATCTTATCTCCATGTAT
* * *
11598180 CGGCTATGGAGCAGATAAAAAATGGCGAGTCTTATCTCTATGTATCGGCTATGGAGCAGATTTTA
196 CGGCTATGGAGCAGATCAAAAATGGCGAGTCTTATCTCCATGTATCGGCTATGGAGCAGATTTAA
*
11598245 GCCACTA
261 GCCACAA
* * * *
11598252 GTCTTATCTTCCTGAAGTTGCAAGAAGCGGACTGAAAATTTATAGATCTTATCTCCATATATCGA
1 GTCTTATCTTCCTGAAGTTGCAGGAAGCAGACTGAAAATTTACAGATCTTATCTCCATATATCGG
11598317 CTATGGAGCAGATCGAAAATGACAAGTCTTATCTCTCTGAAGTTGCAGTGGAGCAGACTGAAGAT
66 CTATGGAGCAGATCGAAAATGACAAGTCTTATCTCTCTGAAGTTGCAGTGGAGCAGACTGAAGAT
* *
11598382 AGCAAGTCTTATCTTCCTGAAGTTGCAGGAAGCAGACTGAAATTACAGATCTCATCTCCATGTAT
131 AGCAAGTCTTATCTTCCTGAAGTTGCAGGAAGCAGACTAAAATTACAGATCTTATCTCCATGTAT
* *
11598447 CGGCTATGGAGCAGATCAAAAATGGTGGGTCTTATCTCCATGTATCGGCTATGGAGCAGATTTCA
196 CGGCTATGGAGCAGATCAAAAATGGCGAGTCTTATCTCCATGTATCGGCTATGGAGCAGATTT-A
**
11598512 A-CCACCG
260 AGCCACAA
* * * * * * * *
11598519 GCCTTATCTCCCTAAAGTTACAGTGGAGCAGACTGAAGA--TAGCA-AGCCTTATCTCCCTGA-A
1 GTCTTATCTTCCTGAAGTTGCAG-GAAGCAGACTGAAAATTTA-CAGA-TCTTATCTCCAT-ATA
* * * *
11598580 GT-TGC-AGTGGAGCAGA-CTGAAGAT-AGCAAGTCTTATCTCCCTGAAGTTACAGTGGAGCAGA
62 -TCGGCTA-TGGAGCAGATC-GAAAATGA-CAAGTCTTATCTCTCTGAAGTTGCAGTGGAGCAGA
* * * *
11598641 CTGAAGATAGCAAGTCTTATCTTCTTGAAGTTGTAGGAAGTAGACTGAAAATTACAAATCTTATC
123 CTGAAGATAGCAAGTCTTATCTTCCTGAAGTTGCAGGAAGCAGACT-AAAATTACAGATCTTATC
* *
11598706 TCCATGTATCAGCTATTGAGCAGATC
187 TCCATGTATCGGCTATGGAGCAGATC
11598732 TCAGCTACTA
Statistics
Matches: 662, Mismatches: 72, Indels: 27
0.87 0.09 0.04
Matches are distributed among these distances:
266 6 0.01
267 368 0.56
268 127 0.19
269 160 0.24
270 1 0.00
ACGTcount: A:0.31, C:0.19, G:0.22, T:0.28
Consensus pattern (267 bp):
GTCTTATCTTCCTGAAGTTGCAGGAAGCAGACTGAAAATTTACAGATCTTATCTCCATATATCGG
CTATGGAGCAGATCGAAAATGACAAGTCTTATCTCTCTGAAGTTGCAGTGGAGCAGACTGAAGAT
AGCAAGTCTTATCTTCCTGAAGTTGCAGGAAGCAGACTAAAATTACAGATCTTATCTCCATGTAT
CGGCTATGGAGCAGATCAAAAATGGCGAGTCTTATCTCCATGTATCGGCTATGGAGCAGATTTAA
GCCACAA
Found at i:11598773 original size:222 final size:222
Alignment explanation
Indices: 11598339--11598777 Score: 496
Period size: 222 Copynumber: 2.0 Consensus size: 222
11598329 TCGAAAATGA
* * *
11598339 CAAGTCTTATCTCTCTGAAGTTGCAGTGGAGCAGACTGAAGATAGCAAGTCTTATCTTCCTGAAG
1 CAAGCCTTATCTCCCTGAAGTTGCAGTGGAGCAGACTGAAGATAGCAAGTCTTATCTCCCTGAAG
* *
11598404 TTGCAGGAAGCAGACTGAAATTACAGATCTCATCTCCATGTATCGGCTATGGAGCAGATCAAAAA
66 TTACAGGAAGCAGACTGAAATTACAGATCTCATCTCCATGAATCGGCTATGGAGCAGATCAAAAA
***** * * *
11598469 TGGTGGGTCTTATCTCCATGTATCGGCTATGGAGCAGATTTCAACCACCGGCCTTATCTCCCTAA
131 TGACAAATCTTATCTCCATGTATCAGCTATGGAGCAGATCTCAACCACCAGCCTTATCTCCCTAA
*
11598534 AGTTACAGTGGAGCAGACTGAAGATAG
196 AGTTACAGTGAAGCAGACTGAAGATAG
11598561 CAAGCCTTATCTCCCTGAAGTTGCAGTGGAGCAGACTGAAGATAGCAAGTCTTATCTCCCTGAAG
1 CAAGCCTTATCTCCCTGAAGTTGCAGTGGAGCAGACTGAAGATAGCAAGTCTTATCTCCCTGAAG
* * * * * *
11598626 TTACAGTGGAGCAGACTGAAGA-TAGCA-AGTCTTATCTTCTTGAAGT-TG-TA-GGAAGTAGA-
66 TTACAG-GAAGCAGACTGAA-ATTA-CAGA-TCTCATCTCCATGAA-TCGGCTATGG-AGCAGAT
* * * * * * *
11598685 CTGAAAATTACAAATCTTATCTCCATGTATCAGCTATTGAGCAGATCTCAGCTACTAGTCTTATC
125 C-AAAAATGACAAATCTTATCTCCATGTATCAGCTATGGAGCAGATCTCAACCACCAGCCTTATC
* * *
11598750 TTCCTGAAGTTGCAG-GAAGCAGACTGAA
189 TCCCTAAAGTTACAGTGAAGCAGACTGAA
11598778 AAGTTACAGA
Statistics
Matches: 180, Mismatches: 30, Indels: 14
0.80 0.13 0.06
Matches are distributed among these distances:
222 82 0.46
223 82 0.46
224 15 0.08
225 1 0.01
ACGTcount: A:0.30, C:0.21, G:0.23, T:0.27
Consensus pattern (222 bp):
CAAGCCTTATCTCCCTGAAGTTGCAGTGGAGCAGACTGAAGATAGCAAGTCTTATCTCCCTGAAG
TTACAGGAAGCAGACTGAAATTACAGATCTCATCTCCATGAATCGGCTATGGAGCAGATCAAAAA
TGACAAATCTTATCTCCATGTATCAGCTATGGAGCAGATCTCAACCACCAGCCTTATCTCCCTAA
AGTTACAGTGAAGCAGACTGAAGATAG
Found at i:11598794 original size:45 final size:42
Alignment explanation
Indices: 11598521--11598795 Score: 153
Period size: 45 Copynumber: 6.2 Consensus size: 42
11598511 AACCACCGGC
* * * * *
11598521 CTTATCTCCCTAAAGTTACAGTGGAGCAGACTGAAGATAGCAAGC
1 CTTATCTTCCTGAAGTTGCAG-GAAGCAGACTGAAGATA-CAA-T
* *
11598566 CTTATCTCCCTGAAGTTGCAGTGGAGCAGACTGAAGATAGCAAGT
1 CTTATCTTCCTGAAGTTGCAG-GAAGCAGACTGAAGATA-CAA-T
* * *
11598611 CTTATCTCCCTGAAGTTACAGTGGAGCAGACTGAAGATAGCAAGT
1 CTTATCTTCCTGAAGTTGCAG-GAAGCAGACTGAAGATA-CAA-T
* * * *
11598656 CTTATCTTCTTGAAGTTGTAGGAAGTAGACTGAAAATTACAAAT
1 CTTATCTTCCTGAAGTTGCAGGAAGCAGACTGAAGA-TAC-AAT
* * * * * *
11598700 CTTATC-TCCATGTA-TCAGCTATTG-AGCAGATCT-CAGCTACTAGT
1 CTTATCTTCC-TGAAGT-TGC-A-GGAAGCAGA-CTGAAGATAC-AAT
*
11598744 CTTATCTTCCTGAAGTTGCAGGAAGCAGACTGAAAAGTTACAGAT
1 CTTATCTTCCTGAAGTTGCAGGAAGCAGACTG--AAGATACA-AT
11598789 CTTATCT
1 CTTATCT
11598796 CCATGTATCG
Statistics
Matches: 188, Mismatches: 28, Indels: 28
0.77 0.11 0.11
Matches are distributed among these distances:
42 3 0.02
43 10 0.05
44 41 0.22
45 131 0.70
46 3 0.02
ACGTcount: A:0.31, C:0.20, G:0.21, T:0.28
Consensus pattern (42 bp):
CTTATCTTCCTGAAGTTGCAGGAAGCAGACTGAAGATACAAT
Found at i:11598810 original size:89 final size:88
Alignment explanation
Indices: 11598566--11598819 Score: 273
Period size: 89 Copynumber: 2.9 Consensus size: 88
11598556 GATAGCAAGC
* * * * * * *
11598566 CTTATCTCCCTGAAGTTGCAGTGGAGCAGACTGAAGA-TAGCAAGTCTTATCTCCCTGAAGTTA-
1 CTTATCTTCCTGAAGTTGCAG-GAAGCAGACTGAAAATTA-CAAATCTTATCTCCATGTA-TCAG
* * *
11598629 C-AGTGGAGCAGA-CTGAAGATAGCAAGT
63 CTA-TGGAGCAGATCT-CAGCTA-CTAGT
* * *
11598656 CTTATCTTCTTGAAGTTGTAGGAAGTAGACTGAAAATTACAAATCTTATCTCCATGTATCAGCTA
1 CTTATCTTCCTGAAGTTGCAGGAAGCAGACTGAAAATTACAAATCTTATCTCCATGTATCAGCTA
*
11598721 TTGAGCAGATCTCAGCTACTAGT
66 TGGAGCAGATCTCAGCTACTAGT
* *
11598744 CTTATCTTCCTGAAGTTGCAGGAAGCAGACTGAAAAGTTACAGATCTTATCTCCATGTATCGGCT
1 CTTATCTTCCTGAAGTTGCAGGAAGCAGACTGAAAA-TTACAAATCTTATCTCCATGTATCAGCT
11598809 ATGGAGCAGAT
65 ATGGAGCAGAT
11598820 TTTAGCCACC
Statistics
Matches: 139, Mismatches: 20, Indels: 11
0.82 0.12 0.06
Matches are distributed among these distances:
88 39 0.28
89 77 0.55
90 23 0.17
ACGTcount: A:0.30, C:0.19, G:0.22, T:0.29
Consensus pattern (88 bp):
CTTATCTTCCTGAAGTTGCAGGAAGCAGACTGAAAATTACAAATCTTATCTCCATGTATCAGCTA
TGGAGCAGATCTCAGCTACTAGT
Found at i:11598849 original size:89 final size:88
Alignment explanation
Indices: 11598668--11598852 Score: 244
Period size: 89 Copynumber: 2.1 Consensus size: 88
11598658 TATCTTCTTG
* * *
11598668 AAGTTGTAGGAAGTAGACTGAAAATTACAAATCTTATCTCCATGTATCAGCTATTGAGCAGATCT
1 AAGTTGCAGGAAGCAGACTGAAAATTACAAATCTTATCTCCATGTATCAGCTATGGAGCAGATCT
* * ** * *
11598733 CAGCTACTAGTCTTATCTTCCTG
66 CAGCCACCAACCTTATCTCCCTA
* * *
11598756 AAGTTGCAGGAAGCAGACTGAAAAGTTACAGATCTTATCTCCATGTATCGGCTATGGAGCAGATT
1 AAGTTGCAGGAAGCAGACTGAAAA-TTACAAATCTTATCTCCATGTATCAGCTATGGAGCAGATC
*
11598821 TTAGCCACCAACCTTATCTCCCTA
65 TCAGCCACCAACCTTATCTCCCTA
11598845 AAGTTGCA
1 AAGTTGCA
11598853 ATGGAGCAGG
Statistics
Matches: 83, Mismatches: 13, Indels: 1
0.86 0.13 0.01
Matches are distributed among these distances:
88 22 0.27
89 61 0.73
ACGTcount: A:0.31, C:0.21, G:0.18, T:0.30
Consensus pattern (88 bp):
AAGTTGCAGGAAGCAGACTGAAAATTACAAATCTTATCTCCATGTATCAGCTATGGAGCAGATCT
CAGCCACCAACCTTATCTCCCTA
Found at i:11601149 original size:125 final size:125
Alignment explanation
Indices: 11600761--11601204 Score: 455
Period size: 132 Copynumber: 3.5 Consensus size: 125
11600751 AACATAAGGA
* * *
11600761 AATATCTCGTATTTGGGGAGTTT-GAGAGATCGTGCCCAATCGTGCTGGGTTTCGTTCTTTTCAT
1 AATATTTCGTATTT-GGAAGTTTGGAGAG-TCGTGCCCAATCGTGCTGGGTTTCGAT-TTTTCAT
* * *
11600825 TCGACTAAAATACGAAATATCCTTTGGAAATTTCGTCCATGTTTTTTTTTAAAAAATTAAAATGA
63 TCGACTAAAATACGAAATATCCTTTTGAAATTTCGTCCACG---TTTTCT--AAAATTAAAATGA
11600890 GGC
123 GGC
* * * * *
11600893 AATATTTCGTATTTGGGGAGTTT-GAGAGATCGTGCCCAATCATGCTGGATTTCGTTTTTTTCGT
1 AATATTTCGTATTT-GGAAGTTTGGAGAG-TCGTGCCCAATCGTGCTGGGTTTCG-ATTTTTCAT
* * * *
11600957 TCGACTAAAATATGGAATATCCTTTTTTGAAATTTTCATCCACGTTTTCTTAAAA-TAAAACGAG
63 TCGACTAAAATACGAAATATCC--TTTTGAAA-TTTCGTCCACGTTTTC-TAAAATTAAAATGAG
11601021 GC
124 GC
** * * * *
11601023 AATATTTCGTGCTTGGAAGTTTGGGGAGTCGTGCCCAATCGTGCTGGGCTTCAATTTTCCATTCG
1 AATATTTCGTATTTGGAAGTTTGGAGAGTCGTGCCCAATCGTGCTGGGTTTCGATTTTTCATTCG
* * *
11601088 ACTAAAATACAAAATATCCTTTTGAAGTTTCGTCCACGTTTTCTGAAATTAAAATGAGGC
66 ACTAAAATACGAAATATCCTTTTGAAATTTCGTCCACGTTTTCTAAAATTAAAATGAGGC
* * * * *
11601148 AATGTTTCGTATTTGGAA-ATTCGATAAATCGTGCCCAATCGTGCTGGGTTTCGATTT
1 AATATTTCGTATTTGGAAGTTTGGA-GAGTCGTGCCCAATCGTGCTGGGTTTCGATTT
11601205 ACCGTTTGGG
Statistics
Matches: 265, Mismatches: 39, Indels: 23
0.81 0.12 0.07
Matches are distributed among these distances:
124 7 0.03
125 68 0.26
126 7 0.03
128 25 0.09
129 28 0.11
130 26 0.10
131 4 0.02
132 81 0.31
133 3 0.01
134 7 0.03
135 9 0.03
ACGTcount: A:0.26, C:0.16, G:0.20, T:0.37
Consensus pattern (125 bp):
AATATTTCGTATTTGGAAGTTTGGAGAGTCGTGCCCAATCGTGCTGGGTTTCGATTTTTCATTCG
ACTAAAATACGAAATATCCTTTTGAAATTTCGTCCACGTTTTCTAAAATTAAAATGAGGC
Found at i:11602163 original size:113 final size:113
Alignment explanation
Indices: 11601965--11602195 Score: 444
Period size: 113 Copynumber: 2.0 Consensus size: 113
11601955 TCACTTTCTT
11601965 TTCATAGTTTACAATATTTTCATTACCTTTTCTTCTTTCTCACTTTATGAACACATTAAAACATA
1 TTCATAGTTTACAATATTTTCATTACCTTTTCTTCTTTCTCACTTTATGAACACATTAAAACATA
*
11602030 ATAAATACTTATACTAAAAATCACGTTCTCATGTTTTTAATAATTGTA
66 ATAAATACTTATACTAAAAATCACGTTCTCATGTTTTTAACAATTGTA
11602078 TTCATAGTTTACAATATTTTCATTACCTTTTCTTCTTTCTCACTTTATGAACACATTAAAACATA
1 TTCATAGTTTACAATATTTTCATTACCTTTTCTTCTTTCTCACTTTATGAACACATTAAAACATA
11602143 ATAAATACTTATACTAAAAATCACGTTCTCATGTTTTTAACAATTGTA
66 ATAAATACTTATACTAAAAATCACGTTCTCATGTTTTTAACAATTGTA
*
11602191 GTCAT
1 TTCAT
11602196 TTCTAATTAT
Statistics
Matches: 116, Mismatches: 2, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
113 116 1.00
ACGTcount: A:0.34, C:0.17, G:0.05, T:0.44
Consensus pattern (113 bp):
TTCATAGTTTACAATATTTTCATTACCTTTTCTTCTTTCTCACTTTATGAACACATTAAAACATA
ATAAATACTTATACTAAAAATCACGTTCTCATGTTTTTAACAATTGTA
Found at i:11608029 original size:18 final size:18
Alignment explanation
Indices: 11607997--11608046 Score: 57
Period size: 18 Copynumber: 2.8 Consensus size: 18
11607987 TTTAATAAGT
**
11607997 TTTTATATTGATAATT-C
1 TTTTATATTTTTAATTAC
*
11608014 ATTTTATCTTTTTAATTAC
1 -TTTTATATTTTTAATTAC
11608033 TTTTATATTTTTAA
1 TTTTATATTTTTAA
11608047 AAAAAATTAA
Statistics
Matches: 27, Mismatches: 4, Indels: 2
0.82 0.12 0.06
Matches are distributed among these distances:
18 26 0.96
19 1 0.04
ACGTcount: A:0.28, C:0.06, G:0.02, T:0.64
Consensus pattern (18 bp):
TTTTATATTTTTAATTAC
Done.