Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Chr13
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: 46006518
ACGTcount: A:0.32, C:0.16, G:0.16, T:0.32
Warning! 2011935 characters in sequence are not A, C, G, or T
File 117 of 141
Found at i:37433867 original size:12 final size:12
Alignment explanation
Indices: 37433852--37433882 Score: 53
Period size: 12 Copynumber: 2.6 Consensus size: 12
37433842 AATTTGAATT
*
37433852 TTATTAGGATTA
1 TTATTAAGATTA
37433864 TTATTAAGATTA
1 TTATTAAGATTA
37433876 TTATTAA
1 TTATTAA
37433883 TATTTAATTT
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
12 18 1.00
ACGTcount: A:0.39, C:0.00, G:0.10, T:0.52
Consensus pattern (12 bp):
TTATTAAGATTA
Found at i:37436295 original size:34 final size:34
Alignment explanation
Indices: 37436224--37436296 Score: 85
Period size: 34 Copynumber: 2.2 Consensus size: 34
37436214 AATGTGCTTG
* *
37436224 ATTT-CCAACAGCAGATACAACAAAAAACTATTG
1 ATTTCCCAACAGCAAATACAACAAAAAACTATTA
*** *
37436257 ATTTCCCAACAGCAAATACAACGGCAAACTCTTA
1 ATTTCCCAACAGCAAATACAACAAAAAACTATTA
37436291 ATTTCC
1 ATTTCC
37436297 AAAAAGAAAC
Statistics
Matches: 33, Mismatches: 6, Indels: 1
0.82 0.15 0.03
Matches are distributed among these distances:
33 4 0.12
34 29 0.88
ACGTcount: A:0.42, C:0.26, G:0.08, T:0.23
Consensus pattern (34 bp):
ATTTCCCAACAGCAAATACAACAAAAAACTATTA
Found at i:37437697 original size:10 final size:11
Alignment explanation
Indices: 37437682--37437730 Score: 52
Period size: 10 Copynumber: 4.7 Consensus size: 11
37437672 CAACCTAATT
37437682 TTTATTTTT-C
1 TTTATTTTTAC
*
37437692 TTTATTTTTAT
1 TTTATTTTTAC
37437703 TTTA-TTTTA-
1 TTTATTTTTAC
37437712 -TTATTTATTAC
1 TTTATTT-TTAC
37437723 TTTATTTT
1 TTTATTTT
37437731 ATTTGGATAT
Statistics
Matches: 33, Mismatches: 1, Indels: 9
0.77 0.02 0.21
Matches are distributed among these distances:
8 3 0.09
9 2 0.06
10 17 0.52
11 5 0.15
12 6 0.18
ACGTcount: A:0.18, C:0.04, G:0.00, T:0.78
Consensus pattern (11 bp):
TTTATTTTTAC
Found at i:37437700 original size:16 final size:16
Alignment explanation
Indices: 37437679--37437734 Score: 60
Period size: 16 Copynumber: 3.2 Consensus size: 16
37437669 AGGCAACCTA
37437679 ATTTTTATTTT-TCTTT
1 ATTTTTATTTTAT-TTT
37437695 ATTTTTATTTTATTTT
1 ATTTTTATTTTATTTT
37437711 ATTATTTATTACTTTATTTT
1 ATT-TTTA-T--TTTATTTT
37437731 ATTT
1 ATTT
37437735 GGATATTAAT
Statistics
Matches: 35, Mismatches: 0, Indels: 7
0.83 0.00 0.17
Matches are distributed among these distances:
16 17 0.49
17 5 0.14
18 1 0.03
19 1 0.03
20 11 0.31
ACGTcount: A:0.20, C:0.04, G:0.00, T:0.77
Consensus pattern (16 bp):
ATTTTTATTTTATTTT
Found at i:37437726 original size:20 final size:19
Alignment explanation
Indices: 37437693--37437733 Score: 64
Period size: 20 Copynumber: 2.1 Consensus size: 19
37437683 TTATTTTTCT
*
37437693 TTATTTTTATTTTATTTTA
1 TTATTTTTACTTTATTTTA
37437712 TTATTTATTACTTTATTTTA
1 TTATTT-TTACTTTATTTTA
37437732 TT
1 TT
37437734 TGGATATTAA
Statistics
Matches: 20, Mismatches: 1, Indels: 1
0.91 0.05 0.05
Matches are distributed among these distances:
19 6 0.30
20 14 0.70
ACGTcount: A:0.22, C:0.02, G:0.00, T:0.76
Consensus pattern (19 bp):
TTATTTTTACTTTATTTTA
Found at i:37437908 original size:19 final size:19
Alignment explanation
Indices: 37437884--37437930 Score: 85
Period size: 19 Copynumber: 2.5 Consensus size: 19
37437874 AAATATGCAT
37437884 CCAAACACCTACCCTATAG
1 CCAAACACCTACCCTATAG
*
37437903 CCAAACACCTACCTTATAG
1 CCAAACACCTACCCTATAG
37437922 CCAAACACC
1 CCAAACACC
37437931 CTTTCTTCTA
Statistics
Matches: 27, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
19 27 1.00
ACGTcount: A:0.38, C:0.43, G:0.04, T:0.15
Consensus pattern (19 bp):
CCAAACACCTACCCTATAG
Found at i:37439784 original size:10 final size:10
Alignment explanation
Indices: 37439769--37439797 Score: 58
Period size: 10 Copynumber: 2.9 Consensus size: 10
37439759 ATTTTTAGCT
37439769 TTTATCTTTA
1 TTTATCTTTA
37439779 TTTATCTTTA
1 TTTATCTTTA
37439789 TTTATCTTT
1 TTTATCTTT
37439798 TAGAATTGAG
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
10 19 1.00
ACGTcount: A:0.17, C:0.10, G:0.00, T:0.72
Consensus pattern (10 bp):
TTTATCTTTA
Found at i:37442366 original size:10 final size:11
Alignment explanation
Indices: 37442343--37442368 Score: 52
Period size: 11 Copynumber: 2.4 Consensus size: 11
37442333 TTTAAAAACC
37442343 TTTTATTTATT
1 TTTTATTTATT
37442354 TTTTATTTATT
1 TTTTATTTATT
37442365 TTTT
1 TTTT
37442369 CCTTTGAAAT
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 15 1.00
ACGTcount: A:0.15, C:0.00, G:0.00, T:0.85
Consensus pattern (11 bp):
TTTTATTTATT
Found at i:37443648 original size:23 final size:23
Alignment explanation
Indices: 37443599--37443655 Score: 69
Period size: 23 Copynumber: 2.5 Consensus size: 23
37443589 GGACAGCTCT
*
37443599 TATACATCAAATTAAACAACAAA
1 TATACACCAAATTAAACAACAAA
* * **
37443622 TATATACCAAATTAAACAGCATT
1 TATACACCAAATTAAACAACAAA
37443645 TATACACCAAA
1 TATACACCAAA
37443656 ATTTGGACAG
Statistics
Matches: 28, Mismatches: 6, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
23 28 1.00
ACGTcount: A:0.54, C:0.19, G:0.02, T:0.25
Consensus pattern (23 bp):
TATACACCAAATTAAACAACAAA
Found at i:37443674 original size:71 final size:70
Alignment explanation
Indices: 37443586--37443726 Score: 171
Period size: 70 Copynumber: 2.0 Consensus size: 70
37443576 ATCTACCTTG
* *
37443586 TTTGGACAGCTCTTATACATCAAAT-TAAACAACAAATATATACCAAATTAAACAGCA-TTTATA
1 TTTGGACAGCTCTTATACAACAAATGT--ACAACAAATACATACCAAATTAAACAGCACTTT-TA
37443649 CACCAAAA
63 CACCAAAA
* * * *
37443657 TTTGGACAGCT-TATATACAACAAATGTGCAGCATATACATACCAAATTTAACAGCACTTTTACA
1 TTTGGACAGCTCT-TATACAACAAATGTACAACAAATACATACCAAATTAAACAGCACTTTTACA
37443721 CCAAAA
65 CCAAAA
37443727 CAATCTTTGA
Statistics
Matches: 61, Mismatches: 6, Indels: 7
0.82 0.08 0.09
Matches are distributed among these distances:
70 35 0.57
71 25 0.41
72 1 0.02
ACGTcount: A:0.45, C:0.21, G:0.08, T:0.27
Consensus pattern (70 bp):
TTTGGACAGCTCTTATACAACAAATGTACAACAAATACATACCAAATTAAACAGCACTTTTACAC
CAAAA
Found at i:37445219 original size:159 final size:160
Alignment explanation
Indices: 37444821--37445440 Score: 989
Period size: 159 Copynumber: 3.9 Consensus size: 160
37444811 ATACCCTCAT
* *
37444821 TCCCAAAGCTTGGGGCGCTTCCTCCACTTCCTACCATATTTCCAAGTGGACCAAAGGCCACACTG
1 TCCCAAAGCCTGGGGCACTTCCTCCACTTCCTACCATATTTCCAAGTGGACCAAAGGCCACACTG
* *
37444886 CCCCCTCTGCCAAGCATTCCCTCAGTCCCCAGAATCCCAACTGCAATTCCCTCTATTGCTAATT-
66 CCCCCTCTGCCAAGCATTCCCTCAGTCCCCACAATCCCAACTGCAATTCCCTCTATTCCT--TTC
* * *
37444950 TATTTTCTCCATCATTTCCATCTTTCCCTAATC
129 T-CTTTCTCCACCATTGCCATCTTTCCCTAATC
*
37444983 TCCCAAAGCCTGGGGCACTACCTCCACTTCCTACCATATTTCCAAGTGGACCAAAGGCCACACTG
1 TCCCAAAGCCTGGGGCACTTCCTCCACTTCCTACCATATTTCCAAGTGGACCAAAGGCCACACTG
* * *
37445048 CCCCCTCTGCCAAGCATTCCCTCAATCCCCACATTCCCAACTGCAATTCCCTCGATTCCTTTCTC
66 CCCCCTCTGCCAAGCATTCCCTCAGTCCCCACAATCCCAACTGCAATTCCCTCTATTCCTTTCTC
37445113 TTT-TCCACCATTGCCATCTTTCCCTAATC
131 TTTCTCCACCATTGCCATCTTTCCCTAATC
* * *
37445142 TCCCAAATCCTGGGGCGCTTCCTCCACTTCCTACCATATTTCCAAGTGGACCAAGGGCCACACTG
1 TCCCAAAGCCTGGGGCACTTCCTCCACTTCCTACCATATTTCCAAGTGGACCAAAGGCCACACTG
37445207 CCCCCTCTGCCAAGCATTCCCGT-AGTCCCCACAATCCCAACTGCAATTCCCTCTATTCCTTTCT
66 CCCCCTCTGCCAAGCATTCCC-TCAGTCCCCACAATCCCAACTGCAATTCCCTCTATTCCTTTCT
37445271 C-TTCTCCACCATTGCCATCTTTCCCTAATC
130 CTTTCTCCACCATTGCCATCTTTCCCTAATC
* * *
37445301 TCCCAAACCCTGGGGCACTTCCTCCACTTTCTACCATATTTCCAAGTGGACCAAGGGCCACACTG
1 TCCCAAAGCCTGGGGCACTTCCTCCACTTCCTACCATATTTCCAAGTGGACCAAAGGCCACACTG
* * *
37445366 CCCCCTCTGCCAAGCATTCCCTCAGTCCCCATAATCCCAACTGTAATTCCTTCTATTCCTTTCT-
66 CCCCCTCTGCCAAGCATTCCCTCAGTCCCCACAATCCCAACTGCAATTCCCTCTATTCCTTTCTC
37445430 TTTCTCCACCA
131 TTTCTCCACCA
37445441 CGTTCTCGTT
Statistics
Matches: 429, Mismatches: 24, Indels: 13
0.92 0.05 0.03
Matches are distributed among these distances:
158 3 0.01
159 302 0.70
160 6 0.01
161 1 0.00
162 117 0.27
ACGTcount: A:0.21, C:0.40, G:0.11, T:0.28
Consensus pattern (160 bp):
TCCCAAAGCCTGGGGCACTTCCTCCACTTCCTACCATATTTCCAAGTGGACCAAAGGCCACACTG
CCCCCTCTGCCAAGCATTCCCTCAGTCCCCACAATCCCAACTGCAATTCCCTCTATTCCTTTCTC
TTTCTCCACCATTGCCATCTTTCCCTAATC
Found at i:37446425 original size:23 final size:24
Alignment explanation
Indices: 37446376--37446424 Score: 98
Period size: 24 Copynumber: 2.0 Consensus size: 24
37446366 TATTTCTTAA
37446376 TTATTTACTATTATGCTAAAAATT
1 TTATTTACTATTATGCTAAAAATT
37446400 TTATTTACTATTATGCTAAAAATT
1 TTATTTACTATTATGCTAAAAATT
37446424 T
1 T
37446425 AATTGAAACG
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
24 25 1.00
ACGTcount: A:0.37, C:0.08, G:0.04, T:0.51
Consensus pattern (24 bp):
TTATTTACTATTATGCTAAAAATT
Found at i:37446715 original size:20 final size:20
Alignment explanation
Indices: 37446690--37446728 Score: 69
Period size: 20 Copynumber: 1.9 Consensus size: 20
37446680 TGTTGAGCTT
*
37446690 ATTAATGAGTAATTTATATA
1 ATTAATGACTAATTTATATA
37446710 ATTAATGACTAATTTATAT
1 ATTAATGACTAATTTATAT
37446729 TTGAAATTTA
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
20 18 1.00
ACGTcount: A:0.44, C:0.03, G:0.08, T:0.46
Consensus pattern (20 bp):
ATTAATGACTAATTTATATA
Found at i:37453402 original size:23 final size:25
Alignment explanation
Indices: 37453376--37453428 Score: 67
Period size: 25 Copynumber: 2.2 Consensus size: 25
37453366 AAGTTCAAGC
37453376 GAGCC-ATATTAGGAA-GCTCAT-AA
1 GAGCCTATATT-GGAACGCTCATAAA
37453399 GAGCCTTATATTGGAACGCTCATAAA
1 GAGCC-TATATTGGAACGCTCATAAA
37453425 GAGC
1 GAGC
37453429 TGTGGTATGT
Statistics
Matches: 26, Mismatches: 0, Indels: 5
0.84 0.00 0.16
Matches are distributed among these distances:
23 5 0.19
24 4 0.15
25 11 0.42
26 6 0.23
ACGTcount: A:0.36, C:0.19, G:0.23, T:0.23
Consensus pattern (25 bp):
GAGCCTATATTGGAACGCTCATAAA
Found at i:37455291 original size:9 final size:9
Alignment explanation
Indices: 37455266--37455322 Score: 57
Period size: 9 Copynumber: 6.6 Consensus size: 9
37455256 AAATGCTAAG
37455266 TAATAAAAA
1 TAATAAAAA
*
37455275 -ACTAAAAAA
1 TAAT-AAAAA
37455284 TAATAAAAA
1 TAATAAAAA
37455293 T-A-AAAAA
1 TAATAAAAA
* *
37455300 TAGTAATAA
1 TAATAAAAA
37455309 TAATAAAAA
1 TAATAAAAA
37455318 TAATA
1 TAATA
37455323 GTAAATGAAT
Statistics
Matches: 38, Mismatches: 6, Indels: 8
0.73 0.12 0.15
Matches are distributed among these distances:
7 6 0.16
8 3 0.08
9 27 0.71
10 2 0.05
ACGTcount: A:0.74, C:0.02, G:0.02, T:0.23
Consensus pattern (9 bp):
TAATAAAAA
Found at i:37455298 original size:25 final size:25
Alignment explanation
Indices: 37455270--37455320 Score: 68
Period size: 25 Copynumber: 2.0 Consensus size: 25
37455260 GCTAAGTAAT
37455270 AAAAA-ACTAAAAAATAATAAAAATA
1 AAAAATACT-AAAAATAATAAAAATA
* *
37455295 AAAAATAGTAATAATAATAAAAATA
1 AAAAATACTAAAAATAATAAAAATA
37455320 A
1 A
37455321 TAGTAAATGA
Statistics
Matches: 23, Mismatches: 2, Indels: 2
0.85 0.07 0.07
Matches are distributed among these distances:
25 21 0.91
26 2 0.09
ACGTcount: A:0.76, C:0.02, G:0.02, T:0.20
Consensus pattern (25 bp):
AAAAATACTAAAAATAATAAAAATA
Found at i:37455310 original size:16 final size:16
Alignment explanation
Indices: 37455267--37455384 Score: 69
Period size: 16 Copynumber: 7.1 Consensus size: 16
37455257 AATGCTAAGT
*
37455267 AATAA-AAAACTAAAA
1 AATAATAAAAATAAAA
37455282 AATAATAAAAATAAAA
1 AATAATAAAAATAAAA
* *
37455298 AATAGTAATAATAATAAA
1 AATAATAAAAAT-A-AAA
* *
37455316 AATAATAGTAAATGAATA
1 AATAATA-AAAAT-AAAA
* * *
37455334 AATACTAAAAGT-AAG
1 AATAATAAAAATAAAA
* *
37455349 AATAAGATAAATAAATA
1 AATAATAAAAATAAA-A
37455366 AATAATAAATAAATAAAA
1 AATAAT-AA-AAATAAAA
37455384 A
1 A
37455385 GAAAAGGGCA
Statistics
Matches: 75, Mismatches: 20, Indels: 13
0.69 0.19 0.12
Matches are distributed among these distances:
15 14 0.19
16 21 0.28
17 9 0.12
18 20 0.27
19 11 0.15
ACGTcount: A:0.71, C:0.02, G:0.05, T:0.22
Consensus pattern (16 bp):
AATAATAAAAATAAAA
Found at i:37455364 original size:4 final size:4
Alignment explanation
Indices: 37455349--37455382 Score: 52
Period size: 4 Copynumber: 8.5 Consensus size: 4
37455339 TAAAAGTAAG
37455349 AATA AGATA AATA AATA AAT- AATA AATA AATA AA
1 AATA A-ATA AATA AATA AATA AATA AATA AATA AA
37455383 AAGAAAAGGG
Statistics
Matches: 28, Mismatches: 0, Indels: 4
0.88 0.00 0.12
Matches are distributed among these distances:
3 3 0.11
4 21 0.75
5 4 0.14
ACGTcount: A:0.74, C:0.00, G:0.03, T:0.24
Consensus pattern (4 bp):
AATA
Found at i:37455375 original size:15 final size:15
Alignment explanation
Indices: 37455267--37455382 Score: 57
Period size: 15 Copynumber: 7.7 Consensus size: 15
37455257 AATGCTAAGT
*
37455267 AATAAA-AAACTAAAA
1 AATAAATAAA-TAATA
37455282 AAT-AATAAA-AATA
1 AATAAATAAATAATA
37455295 AA-AAATAGTAATAAT-
1 AATAAATA--AATAATA
* *
37455310 AATAAAAATAATAGTA
1 AATAAATA-AATAATA
* *
37455326 AATGAATAAATACTAA
1 AATAAATAAATAAT-A
*
37455342 AAGTAAGA-ATAA-GATA
1 AA-TAA-ATA-AATAATA
37455358 AATAAATAAATAATA
1 AATAAATAAATAATA
37455373 AATAAATAAA
1 AATAAATAAA
37455383 AAGAAAAGGG
Statistics
Matches: 78, Mismatches: 10, Indels: 26
0.68 0.09 0.23
Matches are distributed among these distances:
13 9 0.12
14 5 0.06
15 38 0.49
16 19 0.24
17 4 0.05
18 3 0.04
ACGTcount: A:0.71, C:0.02, G:0.05, T:0.22
Consensus pattern (15 bp):
AATAAATAAATAATA
Found at i:37455379 original size:19 final size:19
Alignment explanation
Indices: 37455266--37455382 Score: 64
Period size: 20 Copynumber: 5.8 Consensus size: 19
37455256 AAATGCTAAG
37455266 TAATAAA-AAACTAAA-AAA
1 TAATAAATAAA-TAAATAAA
37455284 TAATAAAAATAAA-AAATAGTAA
1 TAAT--AAATAAATAAATA--AA
*
37455306 TAATAATAAAAATAATAGTAAA
1 TAATAA-ATAAATAA-A-TAAA
*
37455328 TGAATAAAT-ACTAAA-AGTAA
1 T-AATAAATAAATAAATA--AA
*
37455348 GAATAAGATAAATAAATAAA
1 TAATAA-ATAAATAAATAAA
37455368 TAATAAATAAATAAA
1 TAATAAATAAATAAA
37455383 AAGAAAAGGG
Statistics
Matches: 77, Mismatches: 6, Indels: 31
0.68 0.05 0.27
Matches are distributed among these distances:
18 5 0.06
19 17 0.22
20 18 0.23
21 16 0.21
22 13 0.17
23 6 0.08
24 2 0.03
ACGTcount: A:0.70, C:0.02, G:0.05, T:0.23
Consensus pattern (19 bp):
TAATAAATAAATAAATAAA
Found at i:37467275 original size:21 final size:20
Alignment explanation
Indices: 37467247--37467301 Score: 67
Period size: 21 Copynumber: 2.8 Consensus size: 20
37467237 CCTTGGATCC
*
37467247 TAAAGTTTAAGGTTTGGGATT
1 TAAAGTTTAAGGTTTGAG-TT
* *
37467268 TAAGGTTTAAGATTTGAGTT
1 TAAAGTTTAAGGTTTGAGTT
37467288 TAAAG-TTAAGGTTT
1 TAAAGTTTAAGGTTT
37467302 TGTGGTTATG
Statistics
Matches: 29, Mismatches: 5, Indels: 2
0.81 0.14 0.06
Matches are distributed among these distances:
19 8 0.28
20 6 0.21
21 15 0.52
ACGTcount: A:0.31, C:0.00, G:0.25, T:0.44
Consensus pattern (20 bp):
TAAAGTTTAAGGTTTGAGTT
Found at i:37467281 original size:14 final size:14
Alignment explanation
Indices: 37467252--37467301 Score: 50
Period size: 14 Copynumber: 3.7 Consensus size: 14
37467242 GATCCTAAAG
**
37467252 TTTAAGGTTTGGGA
1 TTTAAGGTTTAAGA
37467266 TTTAAGGTTTAAGA
1 TTTAAGGTTTAAGA
*
37467280 TTTGA-GTTTAA-A
1 TTTAAGGTTTAAGA
*
37467292 GTTAAGGTTT
1 TTTAAGGTTT
37467302 TGTGGTTATG
Statistics
Matches: 30, Mismatches: 5, Indels: 3
0.79 0.13 0.08
Matches are distributed among these distances:
12 4 0.13
13 10 0.33
14 16 0.53
ACGTcount: A:0.28, C:0.00, G:0.26, T:0.46
Consensus pattern (14 bp):
TTTAAGGTTTAAGA
Found at i:37467421 original size:21 final size:22
Alignment explanation
Indices: 37467397--37467454 Score: 59
Period size: 21 Copynumber: 2.8 Consensus size: 22
37467387 GGATTTAGGG
* *
37467397 TTTAGTGTTTATGG-TTTAATA
1 TTTAGTGGTTATGGCTTTAAGA
*
37467418 TTTAG-GGTTATGGCTTTAAGG
1 TTTAGTGGTTATGGCTTTAAGA
*
37467439 TTTAGTGATTA-GGCTT
1 TTTAGTGGTTATGGCTT
37467455 CTATGTTTAT
Statistics
Matches: 31, Mismatches: 4, Indels: 4
0.79 0.10 0.10
Matches are distributed among these distances:
20 7 0.23
21 20 0.65
22 4 0.13
ACGTcount: A:0.21, C:0.03, G:0.26, T:0.50
Consensus pattern (22 bp):
TTTAGTGGTTATGGCTTTAAGA
Found at i:37467531 original size:13 final size:15
Alignment explanation
Indices: 37467502--37467539 Score: 53
Period size: 14 Copynumber: 2.7 Consensus size: 15
37467492 GGGTTTATAA
*
37467502 TTTAAAGGTTTAGGG
1 TTTAAAGTTTTAGGG
37467517 TTT-AAGTTTTA-GG
1 TTTAAAGTTTTAGGG
37467530 TTTAAAGTTT
1 TTTAAAGTTT
37467540 AGATTTTATA
Statistics
Matches: 21, Mismatches: 1, Indels: 3
0.84 0.04 0.12
Matches are distributed among these distances:
13 5 0.24
14 13 0.62
15 3 0.14
ACGTcount: A:0.26, C:0.00, G:0.24, T:0.50
Consensus pattern (15 bp):
TTTAAAGTTTTAGGG
Found at i:37467705 original size:7 final size:7
Alignment explanation
Indices: 37467682--37467788 Score: 60
Period size: 7 Copynumber: 15.3 Consensus size: 7
37467672 TGATTCTAGA
*
37467682 TTTAAGG
1 TTTATGG
*
37467689 TTAATGG
1 TTTATGG
37467696 TTTATGG
1 TTTATGG
37467703 TTTA-GG
1 TTTATGG
*
37467709 TTTAGGG
1 TTTATGG
* *
37467716 TTGACGG
1 TTTATGG
37467723 -TTATGTG
1 TTTATG-G
*
37467730 ATTGA-GG
1 -TTTATGG
37467737 TTTTATGG
1 -TTTATGG
*
37467745 TTTATTG
1 TTTATGG
*
37467752 TTTATTG
1 TTTATGG
37467759 TTTA-GG
1 TTTATGG
*
37467765 TTTAGGG
1 TTTATGG
*
37467772 TTTAAGTG
1 TTTATG-G
37467780 TTTATGG
1 TTTATGG
37467787 TT
1 TT
37467789 AGATGTTTGA
Statistics
Matches: 79, Mismatches: 14, Indels: 14
0.74 0.13 0.13
Matches are distributed among these distances:
6 14 0.18
7 54 0.68
8 9 0.11
9 2 0.03
ACGTcount: A:0.18, C:0.01, G:0.30, T:0.51
Consensus pattern (7 bp):
TTTATGG
Found at i:37467892 original size:27 final size:28
Alignment explanation
Indices: 37467848--37467912 Score: 89
Period size: 27 Copynumber: 2.4 Consensus size: 28
37467838 GTGATTCTAA
*
37467848 ATTTATGGTTTATAGTTTTATGTTTAAG
1 ATTTAGGGTTTATAGTTTTATGTTTAAG
*
37467876 -TTTAGGGTTT-TAGGTTTTATGTTTTAG
1 ATTTAGGGTTTATA-GTTTTATGTTTAAG
37467903 ATTTAGGGTT
1 ATTTAGGGTT
37467913 CGAGATTTTA
Statistics
Matches: 33, Mismatches: 2, Indels: 4
0.85 0.05 0.10
Matches are distributed among these distances:
26 2 0.06
27 22 0.67
28 9 0.27
ACGTcount: A:0.20, C:0.00, G:0.23, T:0.57
Consensus pattern (28 bp):
ATTTAGGGTTTATAGTTTTATGTTTAAG
Found at i:37467921 original size:28 final size:27
Alignment explanation
Indices: 37467863--37467922 Score: 75
Period size: 28 Copynumber: 2.2 Consensus size: 27
37467853 TGGTTTATAG
** *
37467863 TTTTATGTTTAAGTTTAGGGTTTTAGG
1 TTTTATGTTTAAGTTTAGGGTTCGAGA
*
37467890 TTTTATGTTTTAGATTTAGGGTTCGAGA
1 TTTTATGTTTAAG-TTTAGGGTTCGAGA
37467918 TTTTA
1 TTTTA
37467923 GATTTAAAGT
Statistics
Matches: 28, Mismatches: 4, Indels: 1
0.85 0.12 0.03
Matches are distributed among these distances:
27 12 0.43
28 16 0.57
ACGTcount: A:0.20, C:0.02, G:0.23, T:0.55
Consensus pattern (27 bp):
TTTTATGTTTAAGTTTAGGGTTCGAGA
Found at i:37468174 original size:13 final size:14
Alignment explanation
Indices: 37468156--37468184 Score: 51
Period size: 14 Copynumber: 2.1 Consensus size: 14
37468146 TTTTCTAGGT
37468156 TTTGGG-TTTATGG
1 TTTGGGATTTATGG
37468169 TTTGGGATTTATGG
1 TTTGGGATTTATGG
37468183 TT
1 TT
37468185 ATTAGTCTAA
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
13 6 0.40
14 9 0.60
ACGTcount: A:0.10, C:0.00, G:0.34, T:0.55
Consensus pattern (14 bp):
TTTGGGATTTATGG
Found at i:37468678 original size:20 final size:20
Alignment explanation
Indices: 37468643--37468684 Score: 59
Period size: 20 Copynumber: 2.1 Consensus size: 20
37468633 AGGCTTATGA
*
37468643 TTTAGGGTTATGGGTTCGAG
1 TTTAGGGTTATGGGTTCAAG
37468663 TTTAGGGTTTAT-GGTTCAAG
1 TTTAGGG-TTATGGGTTCAAG
37468683 TT
1 TT
37468685 CTAGATTTAG
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
20 16 0.80
21 4 0.20
ACGTcount: A:0.17, C:0.05, G:0.33, T:0.45
Consensus pattern (20 bp):
TTTAGGGTTATGGGTTCAAG
Found at i:37468678 original size:27 final size:27
Alignment explanation
Indices: 37468643--37468856 Score: 78
Period size: 27 Copynumber: 8.1 Consensus size: 27
37468633 AGGCTTATGA
* *
37468643 TTTAGGGTTATGGGTTCGAGTTTAGGG
1 TTTATGGTTATGGGTTCTAGTTTAGGG
* *
37468670 TTTATGGTTCA--AGTTCTAGATTTAGGA
1 TTTATGGTT-ATGGGTTCTAG-TTTAGGG
* *
37468697 TTTA-GTGTTATGGGTTCTAATTTATGG
1 TTTATG-GTTATGGGTTCTAGTTTAGGG
*
37468724 TTTATTGTTAT--G-T-T-GTTTAGGG
1 TTTATGGTTATGGGTTCTAGTTTAGGG
* *
37468746 -TT-TGGTTA-GGGTTATATTTGTAGGG
1 TTTATGGTTATGGGTTCTAGTT-TAGGG
* * * *
37468771 TATATGGTT-TAAGATT-TAGGGTTTATGG
1 TTTATGGTTAT-GGGTTCTA--GTTTAGGG
* * *
37468799 TTTAGGGTT-TGAGATTCTAGATTTAGTG
1 TTTATGGTTATG-GGTTCTAG-TTTAGGG
* * *
37468827 TTCATGGTTATGTGTTCGAGTTTAGGG
1 TTTATGGTTATGGGTTCTAGTTTAGGG
37468854 TTT
1 TTT
37468857 CAATTTCTAG
Statistics
Matches: 135, Mismatches: 30, Indels: 44
0.65 0.14 0.21
Matches are distributed among these distances:
20 5 0.04
21 3 0.02
22 7 0.05
23 2 0.01
24 3 0.02
25 6 0.04
26 9 0.07
27 51 0.38
28 43 0.32
29 6 0.04
ACGTcount: A:0.19, C:0.03, G:0.30, T:0.48
Consensus pattern (27 bp):
TTTATGGTTATGGGTTCTAGTTTAGGG
Found at i:37468795 original size:14 final size:14
Alignment explanation
Indices: 37468776--37468814 Score: 51
Period size: 14 Copynumber: 2.8 Consensus size: 14
37468766 TAGGGTATAT
37468776 GGTTTAAGATTTAG
1 GGTTTAAGATTTAG
* *
37468790 GGTTTATGGTTTAG
1 GGTTTAAGATTTAG
*
37468804 GGTTTGAGATT
1 GGTTTAAGATT
37468815 CTAGATTTAG
Statistics
Matches: 20, Mismatches: 5, Indels: 0
0.80 0.20 0.00
Matches are distributed among these distances:
14 20 1.00
ACGTcount: A:0.21, C:0.00, G:0.33, T:0.46
Consensus pattern (14 bp):
GGTTTAAGATTTAG
Found at i:37468870 original size:21 final size:22
Alignment explanation
Indices: 37468846--37468898 Score: 58
Period size: 21 Copynumber: 2.5 Consensus size: 22
37468836 ATGTGTTCGA
37468846 GTTTAGGGTTTC-A-ATTTCTAG
1 GTTTAGGGTTTCGAGA-TTCTAG
*
37468867 GTTTTGGG-TTCGAGATTCTAG
1 GTTTAGGGTTTCGAGATTCTAG
*
37468888 GTTTAGTGTTT
1 GTTTAGGGTTT
37468899 GTGGTAAAAA
Statistics
Matches: 26, Mismatches: 3, Indels: 5
0.76 0.09 0.15
Matches are distributed among these distances:
20 3 0.12
21 20 0.77
22 3 0.12
ACGTcount: A:0.15, C:0.08, G:0.28, T:0.49
Consensus pattern (22 bp):
GTTTAGGGTTTCGAGATTCTAG
Found at i:37469250 original size:14 final size:14
Alignment explanation
Indices: 37469231--37469275 Score: 56
Period size: 14 Copynumber: 3.3 Consensus size: 14
37469221 TAAACTTTAG
37469231 GGTTTAGGGTTCAA
1 GGTTTAGGGTTCAA
* *
37469245 GGTTTAAGGTTCAT
1 GGTTTAGGGTTCAA
*
37469259 GGTTT-GAGTTCAA
1 GGTTTAGGGTTCAA
37469272 GGTT
1 GGTT
37469276 CAGGATTTTT
Statistics
Matches: 26, Mismatches: 5, Indels: 1
0.81 0.16 0.03
Matches are distributed among these distances:
13 9 0.35
14 17 0.65
ACGTcount: A:0.20, C:0.07, G:0.33, T:0.40
Consensus pattern (14 bp):
GGTTTAGGGTTCAA
Found at i:37470427 original size:12 final size:12
Alignment explanation
Indices: 37470410--37470434 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
37470400 GGTGTTCATT
37470410 CGGTTAACCGAC
1 CGGTTAACCGAC
37470422 CGGTTAACCGAC
1 CGGTTAACCGAC
37470434 C
1 C
37470435 CGAAATAACA
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:0.24, C:0.36, G:0.24, T:0.16
Consensus pattern (12 bp):
CGGTTAACCGAC
Found at i:37470611 original size:9 final size:9
Alignment explanation
Indices: 37470597--37470681 Score: 91
Period size: 9 Copynumber: 9.4 Consensus size: 9
37470587 TTTGGTTAAA
37470597 AATTAACCG
1 AATTAACCG
*
37470606 AATTAATCG
1 AATTAACCG
*
37470615 AATTAATCG
1 AATTAACCG
*
37470624 AATTAACCA
1 AATTAACCG
* *
37470633 AACTACCCG
1 AATTAACCG
37470642 AATTAACCG
1 AATTAACCG
*
37470651 AATT-ACCAA
1 AATTAACC-G
37470660 AATTAACCG
1 AATTAACCG
*
37470669 AATTACCCG
1 AATTAACCG
37470678 AATT
1 AATT
37470682 GAATCACTAC
Statistics
Matches: 63, Mismatches: 11, Indels: 4
0.81 0.14 0.05
Matches are distributed among these distances:
8 3 0.05
9 57 0.90
10 3 0.05
ACGTcount: A:0.45, C:0.22, G:0.08, T:0.25
Consensus pattern (9 bp):
AATTAACCG
Found at i:37470830 original size:18 final size:18
Alignment explanation
Indices: 37470790--37470833 Score: 61
Period size: 18 Copynumber: 2.4 Consensus size: 18
37470780 AATTTTTATG
**
37470790 ATTGGGTTGGGTTGGGTA
1 ATTGGGTTGGGTTGAATA
37470808 ATTGGGTTGGGTTGAATA
1 ATTGGGTTGGGTTGAATA
*
37470826 CTTGGGTT
1 ATTGGGTT
37470834 TCCGACCGGT
Statistics
Matches: 23, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
18 23 1.00
ACGTcount: A:0.14, C:0.02, G:0.43, T:0.41
Consensus pattern (18 bp):
ATTGGGTTGGGTTGAATA
Found at i:37474704 original size:24 final size:24
Alignment explanation
Indices: 37474677--37474722 Score: 65
Period size: 24 Copynumber: 1.9 Consensus size: 24
37474667 CGAAGGCATG
* *
37474677 CTTGGTAGAGGGGGCAATGTGGCC
1 CTTGGTACAGGAGGCAATGTGGCC
*
37474701 CTTGGTACAGTAGGCAATGTGG
1 CTTGGTACAGGAGGCAATGTGG
37474723 GCAAAGCAGG
Statistics
Matches: 19, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
24 19 1.00
ACGTcount: A:0.20, C:0.15, G:0.41, T:0.24
Consensus pattern (24 bp):
CTTGGTACAGGAGGCAATGTGGCC
Found at i:37475666 original size:31 final size:32
Alignment explanation
Indices: 37475630--37475709 Score: 99
Period size: 31 Copynumber: 2.5 Consensus size: 32
37475620 TTCGAGCTCT
***
37475630 AATCATTTTAAATTTTGGTTATTTAGAATT-A
1 AATCATTTTAAATTTAAATTATTTAGAATTCA
* *
37475661 AATCATTTTAAATTTAAATTGTTTTGAATTCA
1 AATCATTTTAAATTTAAATTATTTAGAATTCA
*
37475693 AATCAATTTAAATTTAA
1 AATCATTTTAAATTTAA
37475710 GTTGAAGAAA
Statistics
Matches: 42, Mismatches: 6, Indels: 1
0.86 0.12 0.02
Matches are distributed among these distances:
31 25 0.60
32 17 0.40
ACGTcount: A:0.40, C:0.05, G:0.06, T:0.49
Consensus pattern (32 bp):
AATCATTTTAAATTTAAATTATTTAGAATTCA
Found at i:37478354 original size:5 final size:5
Alignment explanation
Indices: 37478339--37478573 Score: 461
Period size: 5 Copynumber: 46.8 Consensus size: 5
37478329 AAATTCATAA
37478339 GCCCGG GCCCG GCCCG GCCCG GCCCG GCCCG GCCCG GCCCG GCCCG GCCCG
1 GCCC-G GCCCG GCCCG GCCCG GCCCG GCCCG GCCCG GCCCG GCCCG GCCCG
37478390 GCCCG GCCCG GCCCG GCCCG GCCCG GCCCG GCCCG GCCCG GCCCG GCCCG
1 GCCCG GCCCG GCCCG GCCCG GCCCG GCCCG GCCCG GCCCG GCCCG GCCCG
37478440 GCCCG GCCCG GCCCG GCCCG GCCCG GCCCG GCCCG GCCCG GCCCG GCCCG
1 GCCCG GCCCG GCCCG GCCCG GCCCG GCCCG GCCCG GCCCG GCCCG GCCCG
37478490 GCCCG GCCCG GCCCG GCCCG GCCCG GCCCG GCCCG GCCCG GCCCG GCCCG
1 GCCCG GCCCG GCCCG GCCCG GCCCG GCCCG GCCCG GCCCG GCCCG GCCCG
37478540 GCCCG GCCCG GCCCG GCCCG GCCCG GCCCG GCCC
1 GCCCG GCCCG GCCCG GCCCG GCCCG GCCCG GCCC
37478574 ATGAGCAGCT
Statistics
Matches: 229, Mismatches: 0, Indels: 1
1.00 0.00 0.00
Matches are distributed among these distances:
5 225 0.98
6 4 0.02
ACGTcount: A:0.00, C:0.60, G:0.40, T:0.00
Consensus pattern (5 bp):
GCCCG
Found at i:37479004 original size:7 final size:7
Alignment explanation
Indices: 37478953--37478985 Score: 57
Period size: 7 Copynumber: 4.7 Consensus size: 7
37478943 ATAGTTTAGG
*
37478953 GGTTTAT
1 GGTTTAA
37478960 GGTTTAA
1 GGTTTAA
37478967 GGTTTAA
1 GGTTTAA
37478974 GGTTTAA
1 GGTTTAA
37478981 GGTTT
1 GGTTT
37478986 TTTATATTTT
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:0.21, C:0.00, G:0.30, T:0.48
Consensus pattern (7 bp):
GGTTTAA
Found at i:37483831 original size:16 final size:16
Alignment explanation
Indices: 37483812--37483850 Score: 53
Period size: 15 Copynumber: 2.5 Consensus size: 16
37483802 AGCTCTAATC
* *
37483812 ATTTTAAATTTAGATT
1 ATTTTAAAGTTAAATT
37483828 A-TTTAAAGTTAAATT
1 ATTTTAAAGTTAAATT
37483843 ATTTTAAA
1 ATTTTAAA
37483851 ATTATTTTAA
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
15 13 0.65
16 7 0.35
ACGTcount: A:0.44, C:0.00, G:0.05, T:0.51
Consensus pattern (16 bp):
ATTTTAAAGTTAAATT
Found at i:37495914 original size:26 final size:28
Alignment explanation
Indices: 37495881--37495935 Score: 78
Period size: 27 Copynumber: 2.0 Consensus size: 28
37495871 TAATGTAATG
37495881 ATTTTCAT-TATGATTTAATAT-AATAT
1 ATTTTCATATATGATTTAATATAAATAT
* *
37495907 ATTTTCATATATTATTTAATTTAAATAT
1 ATTTTCATATATGATTTAATATAAATAT
37495935 A
1 A
37495936 GTATAAGTAN
Statistics
Matches: 25, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
26 8 0.32
27 11 0.44
28 6 0.24
ACGTcount: A:0.40, C:0.04, G:0.02, T:0.55
Consensus pattern (28 bp):
ATTTTCATATATGATTTAATATAAATAT
Found at i:37497701 original size:24 final size:24
Alignment explanation
Indices: 37497674--37497719 Score: 65
Period size: 24 Copynumber: 1.9 Consensus size: 24
37497664 CGAAGGCATG
* *
37497674 CTTGGTAGAGGGGGCAATGTGGCC
1 CTTGGTACAGGAGGCAATGTGGCC
*
37497698 CTTGGTACAGTAGGCAATGTGG
1 CTTGGTACAGGAGGCAATGTGG
37497720 GCAAAGCAGG
Statistics
Matches: 19, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
24 19 1.00
ACGTcount: A:0.20, C:0.15, G:0.41, T:0.24
Consensus pattern (24 bp):
CTTGGTACAGGAGGCAATGTGGCC
Found at i:37498336 original size:2 final size:2
Alignment explanation
Indices: 37498329--37498355 Score: 54
Period size: 2 Copynumber: 13.5 Consensus size: 2
37498319 CAAAGTTGAT
37498329 TA TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA T
37498356 TTAGAATTAG
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:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Found at i:37499275 original size:20 final size:22
Alignment explanation
Indices: 37499250--37499290 Score: 68
Period size: 20 Copynumber: 2.0 Consensus size: 22
37499240 ATTATTCAAG
37499250 TATACATATTT-TTTA-AAATA
1 TATACATATTTATTTATAAATA
37499270 TATACATATTTATTTATAAAT
1 TATACATATTTATTTATAAAT
37499291 TTAAAATTTG
Statistics
Matches: 19, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
20 11 0.58
21 4 0.21
22 4 0.21
ACGTcount: A:0.44, C:0.05, G:0.00, T:0.51
Consensus pattern (22 bp):
TATACATATTTATTTATAAATA
Found at i:37499673 original size:21 final size:20
Alignment explanation
Indices: 37499633--37499673 Score: 55
Period size: 20 Copynumber: 2.0 Consensus size: 20
37499623 TTAATGGTAT
* *
37499633 GGACGAGAATGATTAAGAAA
1 GGACGAGAAGGATAAAGAAA
37499653 GGACGAGAAGGACTAAAGAAA
1 GGACGAGAAGGA-TAAAGAAA
37499674 AAACTAACGA
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
20 11 0.61
21 7 0.39
ACGTcount: A:0.51, C:0.07, G:0.32, T:0.10
Consensus pattern (20 bp):
GGACGAGAAGGATAAAGAAA
Found at i:37506995 original size:20 final size:20
Alignment explanation
Indices: 37506970--37507008 Score: 62
Period size: 20 Copynumber: 1.9 Consensus size: 20
37506960 GGGTTTAAGG
37506970 TTTAAGGTTTTTT-TATATTT
1 TTTAA-GTTTTTTCTATATTT
37506990 TTTAAGTTTTTTCTATATT
1 TTTAAGTTTTTTCTATATT
37507009 CGGTATACTT
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
19 7 0.39
20 11 0.61
ACGTcount: A:0.21, C:0.03, G:0.08, T:0.69
Consensus pattern (20 bp):
TTTAAGTTTTTTCTATATTT
Found at i:37510857 original size:16 final size:17
Alignment explanation
Indices: 37510818--37510850 Score: 50
Period size: 16 Copynumber: 1.9 Consensus size: 17
37510808 AAAGTTTAGG
37510818 GGGGAAATAATAAGTTTT
1 GGGG-AATAATAAGTTTT
37510836 GGGGAATAA-AAGTTT
1 GGGGAATAATAAGTTT
37510851 GAGGGAAAGT
Statistics
Matches: 15, Mismatches: 0, Indels: 2
0.88 0.00 0.12
Matches are distributed among these distances:
16 6 0.40
17 5 0.33
18 4 0.27
ACGTcount: A:0.39, C:0.00, G:0.30, T:0.30
Consensus pattern (17 bp):
GGGGAATAATAAGTTTT
Found at i:37512257 original size:18 final size:17
Alignment explanation
Indices: 37512235--37512278 Score: 54
Period size: 18 Copynumber: 2.5 Consensus size: 17
37512225 TAAAAAAACT
37512235 TTTTGAAATTGAATAATGA
1 TTTTGAAA-TGAATAAT-A
37512254 -TTTGTAAATGAATAATA
1 TTTTG-AAATGAATAATA
37512271 TTTTGAAA
1 TTTTGAAA
37512279 ACGAACGACA
Statistics
Matches: 23, Mismatches: 0, Indels: 6
0.79 0.00 0.21
Matches are distributed among these distances:
17 4 0.17
18 16 0.70
19 3 0.13
ACGTcount: A:0.43, C:0.00, G:0.14, T:0.43
Consensus pattern (17 bp):
TTTTGAAATGAATAATA
Found at i:37512625 original size:25 final size:25
Alignment explanation
Indices: 37512597--37512662 Score: 71
Period size: 25 Copynumber: 2.6 Consensus size: 25
37512587 ACTGAAACTA
* *
37512597 AAACTATCATTGATAGTATATCCTG
1 AAACTATCATAGATAGTATATACTG
*
37512622 AAACT-GCTATAGATAGTATATACTG
1 AAACTATC-ATAGATAGTATATACTG
* *
37512647 AGACTATTATAGATAG
1 AAACTATCATAGATAG
37512663 ACTATATTGA
Statistics
Matches: 33, Mismatches: 6, Indels: 4
0.77 0.14 0.09
Matches are distributed among these distances:
24 1 0.03
25 32 0.97
ACGTcount: A:0.39, C:0.12, G:0.15, T:0.33
Consensus pattern (25 bp):
AAACTATCATAGATAGTATATACTG
Found at i:37517278 original size:22 final size:22
Alignment explanation
Indices: 37517248--37517302 Score: 56
Period size: 22 Copynumber: 2.5 Consensus size: 22
37517238 ATTGGCTAAG
* * *
37517248 AGCCGTAAATAGGATAGCTATA
1 AGCCATAAATAGAATAGCTACA
* * *
37517270 AGCTATAAACAGAATGGCTACA
1 AGCCATAAATAGAATAGCTACA
37517292 AGCCATAAATA
1 AGCCATAAATA
37517303 TAGCAATATG
Statistics
Matches: 25, Mismatches: 8, Indels: 0
0.76 0.24 0.00
Matches are distributed among these distances:
22 25 1.00
ACGTcount: A:0.45, C:0.16, G:0.18, T:0.20
Consensus pattern (22 bp):
AGCCATAAATAGAATAGCTACA
Found at i:37517380 original size:32 final size:33
Alignment explanation
Indices: 37517307--37517428 Score: 146
Period size: 32 Copynumber: 3.8 Consensus size: 33
37517297 TAAATATAGC
* *
37517307 AATATGATTGGCCCAAAGCCATCAGT-A-GAGT
1 AATATGATCGGCACAAAGCCATCAGTAACGAGT
* *
37517338 GATATGATCGGCACACAGCCATCAGTAACGA-T
1 AATATGATCGGCACAAAGCCATCAGTAACGAGT
37517370 AATATGATCGG-ATCAAAGCCATCAGTAAC-AGT
1 AATATGATCGGCA-CAAAGCCATCAGTAACGAGT
* *
37517402 GATATGATCGGCACACAGCCATCAGTA
1 AATATGATCGGCACAAAGCCATCAGTA
37517429 GTATCGCAGC
Statistics
Matches: 78, Mismatches: 8, Indels: 9
0.82 0.08 0.09
Matches are distributed among these distances:
31 24 0.31
32 51 0.65
33 3 0.04
ACGTcount: A:0.36, C:0.22, G:0.21, T:0.20
Consensus pattern (33 bp):
AATATGATCGGCACAAAGCCATCAGTAACGAGT
Found at i:37517656 original size:24 final size:24
Alignment explanation
Indices: 37517625--37517686 Score: 72
Period size: 24 Copynumber: 2.6 Consensus size: 24
37517615 TTCATAGGAA
37517625 AAAT-AGTCATTTAAATCACAGAC
1 AAATCAGTCATTTAAATCACAGAC
** **
37517648 AAATCAGTCATTTTCATCATGGAC
1 AAATCAGTCATTTAAATCACAGAC
*
37517672 AAATCAATCATTTAA
1 AAATCAGTCATTTAA
37517687 CCTCGAGGGG
Statistics
Matches: 31, Mismatches: 7, Indels: 1
0.79 0.18 0.03
Matches are distributed among these distances:
23 4 0.13
24 27 0.87
ACGTcount: A:0.44, C:0.18, G:0.08, T:0.31
Consensus pattern (24 bp):
AAATCAGTCATTTAAATCACAGAC
Found at i:37520635 original size:22 final size:22
Alignment explanation
Indices: 37520610--37520680 Score: 63
Period size: 22 Copynumber: 3.2 Consensus size: 22
37520600 AAAGCTACTA
*
37520610 GTAATCAGAATGGCTA-AGAGCC
1 GTAAACAGAATGGCTATA-AGCC
* * *
37520632 GTAAGCAGAATAGCTATAAGCT
1 GTAAACAGAATGGCTATAAGCC
* *
37520654 ATAAACAGAATGGCTACAAGCC
1 GTAAACAGAATGGCTATAAGCC
*
37520676 ATAAA
1 GTAAA
37520681 TACAGCAATA
Statistics
Matches: 40, Mismatches: 8, Indels: 2
0.80 0.16 0.04
Matches are distributed among these distances:
22 39 0.98
23 1 0.03
ACGTcount: A:0.44, C:0.17, G:0.21, T:0.18
Consensus pattern (22 bp):
GTAAACAGAATGGCTATAAGCC
Found at i:37520726 original size:32 final size:32
Alignment explanation
Indices: 37520688--37520810 Score: 99
Period size: 32 Copynumber: 3.8 Consensus size: 32
37520678 AAATACAGCA
*
37520688 ATATGATTAGCCCAAAGCCATCAGTAGCAGTG
1 ATATGATTAGCACAAAGCCATCAGTAGCAGTG
** * *
37520720 ATATGATCGGCACACAA-CCATCAGTAAC-GATA
1 ATATGATTAGCACA-AAGCCATCAGTAGCAG-TG
* *
37520752 ATATGA-TCGAATCAAAGCCATCAGTAGCAGTG
1 ATATGATTAGCA-CAAAGCCATCAGTAGCAGTG
*** *
37520784 ATATGACCGGCACACAGCCATCAGTAG
1 ATATGATTAGCACAAAGCCATCAGTAG
37520811 TATCGCAATA
Statistics
Matches: 71, Mismatches: 14, Indels: 12
0.73 0.14 0.12
Matches are distributed among these distances:
31 5 0.07
32 61 0.86
33 5 0.07
ACGTcount: A:0.37, C:0.24, G:0.20, T:0.20
Consensus pattern (32 bp):
ATATGATTAGCACAAAGCCATCAGTAGCAGTG
Found at i:37521047 original size:24 final size:24
Alignment explanation
Indices: 37521020--37521065 Score: 74
Period size: 24 Copynumber: 1.9 Consensus size: 24
37521010 AGTCATTTAA
*
37521020 ATCACAGATAAATCAATCATTTTC
1 ATCACAGACAAATCAATCATTTTC
*
37521044 ATCACGGACAAATCAATCATTT
1 ATCACAGACAAATCAATCATTT
37521066 AACCTCGAAG
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
24 20 1.00
ACGTcount: A:0.41, C:0.22, G:0.07, T:0.30
Consensus pattern (24 bp):
ATCACAGACAAATCAATCATTTTC
Found at i:37521171 original size:27 final size:27
Alignment explanation
Indices: 37521089--37521202 Score: 92
Period size: 27 Copynumber: 4.2 Consensus size: 27
37521079 AAAATAGTCA
* * *
37521089 TTTACCCTTTAGGGG-CATTACGGTCAT
1 TTTACCCTTAAGGGGTAATT-CGATCAT
* * * *
37521116 TTTA-CCTTACAGGGGTATTTTGGTTAT
1 TTTACCCTTA-AGGGGTAATTCGATCAT
37521143 TTTACCC-TAAGAGGGT-ATCTCGATCAT
1 TTTACCCTTAAG-GGGTAAT-TCGATCAT
*
37521170 TTTACCCTTCAGGGGTAATTCGATCAT
1 TTTACCCTTAAGGGGTAATTCGATCAT
37521197 TTTACC
1 TTTACC
37521203 ACGTATCGCA
Statistics
Matches: 70, Mismatches: 10, Indels: 14
0.74 0.11 0.15
Matches are distributed among these distances:
26 7 0.10
27 54 0.77
28 9 0.13
ACGTcount: A:0.21, C:0.20, G:0.19, T:0.39
Consensus pattern (27 bp):
TTTACCCTTAAGGGGTAATTCGATCAT
Found at i:37526235 original size:24 final size:24
Alignment explanation
Indices: 37526208--37526253 Score: 65
Period size: 24 Copynumber: 1.9 Consensus size: 24
37526198 CGAAGGCATG
* *
37526208 CTTGGTAGAGGGGGCAATGTGGCC
1 CTTGGTACAGGAGGCAATGTGGCC
*
37526232 CTTGGTACAGTAGGCAATGTGG
1 CTTGGTACAGGAGGCAATGTGG
37526254 GCAAAGCAGG
Statistics
Matches: 19, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
24 19 1.00
ACGTcount: A:0.20, C:0.15, G:0.41, T:0.24
Consensus pattern (24 bp):
CTTGGTACAGGAGGCAATGTGGCC
Found at i:37527200 original size:15 final size:15
Alignment explanation
Indices: 37527180--37527220 Score: 55
Period size: 15 Copynumber: 2.7 Consensus size: 15
37527170 GTGTAATCAT
* *
37527180 TTTAAATTTAGATTA
1 TTTAAAATTAAATTA
37527195 TTTAAAATTAAATTA
1 TTTAAAATTAAATTA
37527210 TTTCAAAATTA
1 TTT-AAAATTA
37527221 TTTTAAATTC
Statistics
Matches: 23, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
15 16 0.70
16 7 0.30
ACGTcount: A:0.46, C:0.02, G:0.02, T:0.49
Consensus pattern (15 bp):
TTTAAAATTAAATTA
Found at i:37532750 original size:41 final size:41
Alignment explanation
Indices: 37532685--37532919 Score: 253
Period size: 41 Copynumber: 5.7 Consensus size: 41
37532675 AAATGTTTTT
* * *
37532685 GCGGCGCTTTTTGAAAAGCGCCGCTAAAGCCCTGAGCATTA
1 GCGGCGCTTTTTCAAAAACGCCGCTAAAGCTCTGAGCATTA
* * *
37532726 GCGGCGCTTTTTCGAAAACTCCGCTAAAGGTCTGAGCATTA
1 GCGGCGCTTTTTCAAAAACGCCGCTAAAGCTCTGAGCATTA
* * *
37532767 GCGGCGCTTTTTCAAAAACACCACTAAAGGTCTGAGCATTA
1 GCGGCGCTTTTTCAAAAACGCCGCTAAAGCTCTGAGCATTA
* * *
37532808 GCGGCGC-ATTCCTAAAAACGCCGCTAAAGCTCTGTGCATTA
1 GCGGCGCTTTTTC-AAAAACGCCGCTAAAGCTCTGAGCATTA
* *
37532849 GCGACGCTTTATT-AAAAACGCCGCTAAAAGCT-AGAGCATTA
1 GCGGCGCTTT-TTCAAAAACGCCGCT-AAAGCTCTGAGCATTA
* * *
37532890 GCGGCAC-TTTTGAGAAAACGCCACTAAAGC
1 GCGGCGCTTTTTCA-AAAACGCCGCTAAAGC
37532920 CCCAAAAGGT
Statistics
Matches: 165, Mismatches: 23, Indels: 13
0.82 0.11 0.06
Matches are distributed among these distances:
39 2 0.01
40 11 0.07
41 144 0.87
42 7 0.04
43 1 0.01
ACGTcount: A:0.29, C:0.26, G:0.23, T:0.23
Consensus pattern (41 bp):
GCGGCGCTTTTTCAAAAACGCCGCTAAAGCTCTGAGCATTA
Found at i:37536017 original size:20 final size:18
Alignment explanation
Indices: 37535980--37536018 Score: 51
Period size: 19 Copynumber: 2.1 Consensus size: 18
37535970 AATGCACTTG
*
37535980 ATTTTTATTTTGTTTAAA
1 ATTTTTATTCTGTTTAAA
*
37535998 ATTTATTATTCTGTTTTAA
1 ATTT-TTATTCTGTTTAAA
37536017 AT
1 AT
37536019 ATATATATAC
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
18 4 0.22
19 14 0.78
ACGTcount: A:0.28, C:0.03, G:0.05, T:0.64
Consensus pattern (18 bp):
ATTTTTATTCTGTTTAAA
Found at i:37538704 original size:16 final size:17
Alignment explanation
Indices: 37538678--37538709 Score: 57
Period size: 16 Copynumber: 1.9 Consensus size: 17
37538668 CCTAACTTGA
37538678 AGTTGAAAAAAAAAATT
1 AGTTGAAAAAAAAAATT
37538695 AGTT-AAAAAAAAAAT
1 AGTTGAAAAAAAAAAT
37538710 CATTGTTGCC
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
16 11 0.73
17 4 0.27
ACGTcount: A:0.69, C:0.00, G:0.09, T:0.22
Consensus pattern (17 bp):
AGTTGAAAAAAAAAATT
Found at i:37544866 original size:29 final size:31
Alignment explanation
Indices: 37544788--37544870 Score: 89
Period size: 31 Copynumber: 2.7 Consensus size: 31
37544778 TTAAAGTTTC
* *
37544788 AAGTTTCAAGTATACATTTGAACCACAATTA
1 AAGTTTCAAGTATACAATTGCACCACAATTA
* * * *
37544819 GAGTTTCACGTGTATAATTGCACCA-AATTA
1 AAGTTTCAAGTATACAATTGCACCACAATTA
*
37544849 AAG-TTCATGTATACAATTGCAC
1 AAGTTTCAAGTATACAATTGCAC
37544871 ATTATAATTT
Statistics
Matches: 42, Mismatches: 10, Indels: 2
0.78 0.19 0.04
Matches are distributed among these distances:
29 16 0.38
30 7 0.17
31 19 0.45
ACGTcount: A:0.37, C:0.17, G:0.13, T:0.33
Consensus pattern (31 bp):
AAGTTTCAAGTATACAATTGCACCACAATTA
Found at i:37544909 original size:19 final size:20
Alignment explanation
Indices: 37544885--37544923 Score: 62
Period size: 19 Copynumber: 2.0 Consensus size: 20
37544875 TAATTTTAAA
37544885 AGATTTTCCAT-TATTGTGT
1 AGATTTTCCATGTATTGTGT
*
37544904 AGATTTTCGATGTATTGTGT
1 AGATTTTCCATGTATTGTGT
37544924 TATGAAATTT
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
19 10 0.56
20 8 0.44
ACGTcount: A:0.21, C:0.08, G:0.21, T:0.51
Consensus pattern (20 bp):
AGATTTTCCATGTATTGTGT
Found at i:37549956 original size:17 final size:17
Alignment explanation
Indices: 37549930--37549967 Score: 58
Period size: 17 Copynumber: 2.2 Consensus size: 17
37549920 TTCAGTTCCC
37549930 TTTTTCCTTTTTCCTTT
1 TTTTTCCTTTTTCCTTT
* *
37549947 TTTTTTCTTTTTTCTTT
1 TTTTTCCTTTTTCCTTT
37549964 TTTT
1 TTTT
37549968 AATGGAAGAA
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:0.00, C:0.16, G:0.00, T:0.84
Consensus pattern (17 bp):
TTTTTCCTTTTTCCTTT
Found at i:37554451 original size:53 final size:52
Alignment explanation
Indices: 37554392--37554543 Score: 196
Period size: 53 Copynumber: 2.9 Consensus size: 52
37554382 TACTAAAAAA
* *
37554392 AATTAAACGATTTTGTTTAAGACCGACAACATTGTGTCTTACAAATAATACAT
1 AATTAAA-GATTTTGTTTAAGACCGACAACATTGTATCTTACAAATAAAACAT
* * * *
37554445 AATTAAATGATTTTATTTAAGACTGACATCATTCTATCTTACAAATAAAACAT
1 AATTAAA-GATTTTGTTTAAGACCGACAACATTGTATCTTACAAATAAAACAT
* * *
37554498 AATTAAATAGTTTTGTTCAAGACCAACAACATTGTATCTTACAAAT
1 AATTAAAGA-TTTTGTTTAAGACCGACAACATTGTATCTTACAAAT
37554544 TGAAAAATAC
Statistics
Matches: 84, Mismatches: 14, Indels: 2
0.84 0.14 0.02
Matches are distributed among these distances:
52 1 0.01
53 83 0.99
ACGTcount: A:0.41, C:0.14, G:0.09, T:0.36
Consensus pattern (52 bp):
AATTAAAGATTTTGTTTAAGACCGACAACATTGTATCTTACAAATAAAACAT
Found at i:37556196 original size:26 final size:26
Alignment explanation
Indices: 37556142--37556198 Score: 64
Period size: 26 Copynumber: 2.2 Consensus size: 26
37556132 TTTTTTAAAT
* *
37556142 AAAT-AATTAATAGAATCAATTGGTT
1 AAATCAATTAATAGAATCAATTAGTC
*
37556167 AAATCAATTCATAGAATCAGA-TAGTC
1 AAATCAATTAATAGAATCA-ATTAGTC
37556193 AAATCA
1 AAATCA
37556199 GTCACTGCAA
Statistics
Matches: 27, Mismatches: 3, Indels: 3
0.82 0.09 0.09
Matches are distributed among these distances:
25 4 0.15
26 22 0.81
27 1 0.04
ACGTcount: A:0.49, C:0.11, G:0.11, T:0.30
Consensus pattern (26 bp):
AAATCAATTAATAGAATCAATTAGTC
Found at i:37558054 original size:60 final size:61
Alignment explanation
Indices: 37557988--37558105 Score: 166
Period size: 63 Copynumber: 1.9 Consensus size: 61
37557978 AATCACTTTA
* *
37557988 ATATTAAATTAATATAATACTTATC-AAGATAAATATCATATTAAATCTAATATTATATAT
1 ATATTAAATTAATAGAATACTTATCTAAGATAAATATCAAATTAAATCTAATATTATATAT
* * *
37558048 ATATTAAATTAATAGAATATTTATCTATAAGATAAATATTAAATTAAATTTAATATTA
1 ATATTAAATTAATAGAATACTTATC--TAAGATAAATATCAAATTAAATCTAATATTA
37558106 ACACTATTAA
Statistics
Matches: 50, Mismatches: 5, Indels: 3
0.86 0.09 0.05
Matches are distributed among these distances:
60 23 0.46
63 27 0.54
ACGTcount: A:0.51, C:0.04, G:0.03, T:0.42
Consensus pattern (61 bp):
ATATTAAATTAATAGAATACTTATCTAAGATAAATATCAAATTAAATCTAATATTATATAT
Found at i:37558067 original size:22 final size:24
Alignment explanation
Indices: 37558020--37558067 Score: 64
Period size: 22 Copynumber: 2.1 Consensus size: 24
37558010 ATCAAGATAA
**
37558020 ATATCATATTAAATCTAATATTAT
1 ATATCATATTAAATCTAATAGAAT
37558044 ATAT-ATATTAAAT-TAATAGAAT
1 ATATCATATTAAATCTAATAGAAT
37558066 AT
1 AT
37558068 TTATCTATAA
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
22 9 0.41
23 9 0.41
24 4 0.18
ACGTcount: A:0.50, C:0.04, G:0.02, T:0.44
Consensus pattern (24 bp):
ATATCATATTAAATCTAATAGAAT
Found at i:37559619 original size:9 final size:9
Alignment explanation
Indices: 37559602--37559647 Score: 83
Period size: 9 Copynumber: 5.1 Consensus size: 9
37559592 TGAGTTTTCG
37559602 AATTCGAAT
1 AATTCGAAT
*
37559611 AACTCGAAT
1 AATTCGAAT
37559620 AATTCGAAT
1 AATTCGAAT
37559629 AATTCGAAT
1 AATTCGAAT
37559638 AATTCGAAT
1 AATTCGAAT
37559647 A
1 A
37559648 TCAAACTATA
Statistics
Matches: 35, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
9 35 1.00
ACGTcount: A:0.46, C:0.13, G:0.11, T:0.30
Consensus pattern (9 bp):
AATTCGAAT
Found at i:37563350 original size:67 final size:67
Alignment explanation
Indices: 37563267--37563404 Score: 258
Period size: 67 Copynumber: 2.1 Consensus size: 67
37563257 TGTGATGTTC
*
37563267 TTTAAGGGTTAATGTAGGATTTTGTGTTTTGATTGAATATTCTTTTTGGTTTCTATGTGCTGTTT
1 TTTAAGGGTTAATGTAGGATTCTGTGTTTTGATTGAATATTCTTTTTGGTTTCTATGTGCTGTTT
37563332 TT
66 TT
*
37563334 TTTAAGGGTTAATGTAGGATTCTGTGTTTTGATTGAATTTTCTTTTTGGTTTCTATGTGCTGTTT
1 TTTAAGGGTTAATGTAGGATTCTGTGTTTTGATTGAATATTCTTTTTGGTTTCTATGTGCTGTTT
37563399 TT
66 TT
37563401 TTTA
1 TTTA
37563405 TTTTTATTTT
Statistics
Matches: 69, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
67 69 1.00
ACGTcount: A:0.16, C:0.05, G:0.22, T:0.57
Consensus pattern (67 bp):
TTTAAGGGTTAATGTAGGATTCTGTGTTTTGATTGAATATTCTTTTTGGTTTCTATGTGCTGTTT
TT
Found at i:37569603 original size:29 final size:29
Alignment explanation
Indices: 37569548--37569604 Score: 78
Period size: 29 Copynumber: 2.0 Consensus size: 29
37569538 ATAAACGTAA
*
37569548 CAAAAGGTAAAGCAATAGTGGTATTTTTG
1 CAAAAGGTAAAGCAATAGTGGCATTTTTG
* * *
37569577 CAAAAGGTAAGGCATTAGTGGCGTTTTT
1 CAAAAGGTAAAGCAATAGTGGCATTTTT
37569605 CTCATAAATG
Statistics
Matches: 24, Mismatches: 4, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
29 24 1.00
ACGTcount: A:0.33, C:0.09, G:0.26, T:0.32
Consensus pattern (29 bp):
CAAAAGGTAAAGCAATAGTGGCATTTTTG
Found at i:37569620 original size:70 final size:70
Alignment explanation
Indices: 37569506--37569636 Score: 217
Period size: 70 Copynumber: 1.9 Consensus size: 70
37569496 GAAAAACGCC
* *
37569506 GCAAAAGGTAAGGCATTAGTGACTTTTTTCTCATAAACGTAACAAAAGGTAAAGCAATAGTGGTA
1 GCAAAAGGTAAGGCATTAGTGACGTTTTTCTCATAAACGCAACAAAAGGTAAAGCAATAGTGGTA
37569571 TTTTT
66 TTTTT
* * *
37569576 GCAAAAGGTAAGGCATTAGTGGCGTTTTTCTCATAAATGCAACAAAAGGTAAATCAATAGT
1 GCAAAAGGTAAGGCATTAGTGACGTTTTTCTCATAAACGCAACAAAAGGTAAAGCAATAGT
37569637 AGCGTTAGCA
Statistics
Matches: 56, Mismatches: 5, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
70 56 1.00
ACGTcount: A:0.38, C:0.12, G:0.21, T:0.29
Consensus pattern (70 bp):
GCAAAAGGTAAGGCATTAGTGACGTTTTTCTCATAAACGCAACAAAAGGTAAAGCAATAGTGGTA
TTTTT
Found at i:37573790 original size:3 final size:3
Alignment explanation
Indices: 37573777--37573815 Score: 71
Period size: 3 Copynumber: 13.3 Consensus size: 3
37573767 AGCCCTTCTG
37573777 TTA TT- TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA T
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA T
37573816 ACTTATACAT
Statistics
Matches: 35, Mismatches: 0, Indels: 2
0.95 0.00 0.05
Matches are distributed among these distances:
2 2 0.06
3 33 0.94
ACGTcount: A:0.31, C:0.00, G:0.00, T:0.69
Consensus pattern (3 bp):
TTA
Found at i:37574118 original size:15 final size:15
Alignment explanation
Indices: 37574098--37574128 Score: 53
Period size: 15 Copynumber: 2.1 Consensus size: 15
37574088 TTATTTTTTA
37574098 TACTTTATCTTTATT
1 TACTTTATCTTTATT
*
37574113 TACTTTATTTTTATT
1 TACTTTATCTTTATT
37574128 T
1 T
37574129 TGTAAATATA
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
15 15 1.00
ACGTcount: A:0.19, C:0.10, G:0.00, T:0.71
Consensus pattern (15 bp):
TACTTTATCTTTATT
Found at i:37583150 original size:3 final size:3
Alignment explanation
Indices: 37583142--37583167 Score: 52
Period size: 3 Copynumber: 8.7 Consensus size: 3
37583132 GGTTAAATAA
37583142 ATT ATT ATT ATT ATT ATT ATT ATT AT
1 ATT ATT ATT ATT ATT ATT ATT ATT AT
37583168 CAATTTTGCA
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:0.35, C:0.00, G:0.00, T:0.65
Consensus pattern (3 bp):
ATT
Found at i:37588171 original size:79 final size:78
Alignment explanation
Indices: 37588013--37588171 Score: 219
Period size: 79 Copynumber: 2.0 Consensus size: 78
37588003 ATGATCGAAA
*
37588013 GATTGTTTTTAAAAGATGATAAAGAAATATAAATTATGATATTAAATTTTTAAATTTTTCTATAA
1 GATTGTTTTTAAAAGATGATAAAGAAATATAAATTATGATATTAAATTTTTAAAATTTTCTATAA
*
37588078 ACTCATATTGTGT
66 ACTCACATTGTGT
* * * **
37588091 GATTGTTTTTAATAGATGATGAAGCAATATAATATTATGATATTATTTTTTTAAAATTTTCTATA
1 GATTGTTTTTAAAAGATGATAAAGAAATATAA-ATTATGATATTAAATTTTTAAAATTTTCTATA
** *
37588156 AGTTCACATTTTGT
65 AACTCACATTGTGT
37588170 GA
1 GA
37588172 AGTAAACACT
Statistics
Matches: 70, Mismatches: 10, Indels: 1
0.86 0.12 0.01
Matches are distributed among these distances:
78 29 0.41
79 41 0.59
ACGTcount: A:0.38, C:0.04, G:0.11, T:0.47
Consensus pattern (78 bp):
GATTGTTTTTAAAAGATGATAAAGAAATATAAATTATGATATTAAATTTTTAAAATTTTCTATAA
ACTCACATTGTGT
Found at i:37594434 original size:5 final size:5
Alignment explanation
Indices: 37594413--37594458 Score: 53
Period size: 5 Copynumber: 9.4 Consensus size: 5
37594403 TTATTTAAGT
37594413 TATACA TATATA TATAA TATAA TAT-A -ATAA TATAA T-TAA TATAA TA
1 TATA-A TATA-A TATAA TATAA TATAA TATAA TATAA TATAA TATAA TA
37594459 CTTATTTATT
Statistics
Matches: 36, Mismatches: 1, Indels: 7
0.82 0.02 0.16
Matches are distributed among these distances:
3 2 0.06
4 6 0.17
5 19 0.53
6 9 0.25
ACGTcount: A:0.57, C:0.02, G:0.00, T:0.41
Consensus pattern (5 bp):
TATAA
Found at i:37594492 original size:28 final size:28
Alignment explanation
Indices: 37594424--37594492 Score: 72
Period size: 28 Copynumber: 2.5 Consensus size: 28
37594414 ATACATATAT
* *
37594424 ATATAATATA-ATATAATAATATAATTA
1 ATATAATATATATTTAATAATATAATAA
*
37594451 ATATAATACT-TATTTATTAAGTA-AATAA
1 ATATAATA-TATATTTAATAA-TATAATAA
37594479 ATATAATATATATT
1 ATATAATATATATT
37594493 AACTAAAATA
Statistics
Matches: 35, Mismatches: 3, Indels: 7
0.78 0.07 0.16
Matches are distributed among these distances:
27 9 0.26
28 24 0.69
29 2 0.06
ACGTcount: A:0.54, C:0.01, G:0.01, T:0.43
Consensus pattern (28 bp):
ATATAATATATATTTAATAATATAATAA
Found at i:37596474 original size:17 final size:18
Alignment explanation
Indices: 37596447--37596480 Score: 52
Period size: 17 Copynumber: 1.9 Consensus size: 18
37596437 ATAAATGATT
*
37596447 TAATATAATATTTTATAA
1 TAATATAATATCTTATAA
37596465 TAAT-TAATATCTTATA
1 TAATATAATATCTTATA
37596481 TAAACTTAAT
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
17 11 0.73
18 4 0.27
ACGTcount: A:0.47, C:0.03, G:0.00, T:0.50
Consensus pattern (18 bp):
TAATATAATATCTTATAA
Found at i:37596659 original size:19 final size:19
Alignment explanation
Indices: 37596635--37596675 Score: 57
Period size: 19 Copynumber: 2.2 Consensus size: 19
37596625 ATTTATTATT
37596635 TAATATTTAAA-ATTATTAC
1 TAATA-TTAAACATTATTAC
*
37596654 TAATATTAAACTTTATTAC
1 TAATATTAAACATTATTAC
37596673 TAA
1 TAA
37596676 AATAAAAATT
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
18 5 0.25
19 15 0.75
ACGTcount: A:0.46, C:0.07, G:0.00, T:0.46
Consensus pattern (19 bp):
TAATATTAAACATTATTAC
Found at i:37600440 original size:62 final size:62
Alignment explanation
Indices: 37600353--37600470 Score: 218
Period size: 62 Copynumber: 1.9 Consensus size: 62
37600343 AAAAATAACC
*
37600353 AAATTAGAGTATAAGTACACATAGTGAAATGACAAACAGCAGAATTTGACATATATTAAACT
1 AAATTAGAGTATAAGGACACATAGTGAAATGACAAACAGCAGAATTTGACATATATTAAACT
*
37600415 AAATTAGAGTATAAGGACACATAGTGCAATGACAAACAGCAGAATTTGACATATAT
1 AAATTAGAGTATAAGGACACATAGTGAAATGACAAACAGCAGAATTTGACATATAT
37600471 AAATAATACT
Statistics
Matches: 54, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
62 54 1.00
ACGTcount: A:0.47, C:0.12, G:0.16, T:0.25
Consensus pattern (62 bp):
AAATTAGAGTATAAGGACACATAGTGAAATGACAAACAGCAGAATTTGACATATATTAAACT
Found at i:37611848 original size:45 final size:45
Alignment explanation
Indices: 37611780--37611869 Score: 144
Period size: 45 Copynumber: 2.0 Consensus size: 45
37611770 ACAACTACCG
* *
37611780 ATATTCACAGACAAGTTGCCATGTAGGTTGTAGACGAAGTCACCA
1 ATATTCACAGACAAGCTGCCATGTAGGTTGTAGACGAAGCCACCA
* *
37611825 ATATTCACAGATAAGCTGTCATGTAGGTTGTAGACGAAGCCACCA
1 ATATTCACAGACAAGCTGCCATGTAGGTTGTAGACGAAGCCACCA
37611870 TGTATGTTGT
Statistics
Matches: 41, Mismatches: 4, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
45 41 1.00
ACGTcount: A:0.33, C:0.20, G:0.22, T:0.24
Consensus pattern (45 bp):
ATATTCACAGACAAGCTGCCATGTAGGTTGTAGACGAAGCCACCA
Found at i:37615826 original size:22 final size:22
Alignment explanation
Indices: 37615718--37615831 Score: 63
Period size: 22 Copynumber: 4.9 Consensus size: 22
37615708 GGACTCACCA
*
37615718 CAGCTCGTATGAGCTTACCGATATAT
1 CAGCTCGTATGAGCCTA-C--TAT-T
* *
37615744 CAGCTCGTAAGAGCCTACTGTTTT
1 CAGCTCGTATGAGCCTAC--TATT
* *
37615768 CAGCTCAT-TGGAGCTTACCGT-TT
1 CAGCTCGTAT-GAGCCTA-C-TATT
*
37615791 CAGCTCGTATGAGCTTACTATT
1 CAGCTCGTATGAGCCTACTATT
37615813 CAGCTCGTCA-GAGCCTACT
1 CAGCTCGT-ATGAGCCTACT
37615832 GTTTATTAGG
Statistics
Matches: 73, Mismatches: 10, Indels: 14
0.75 0.10 0.14
Matches are distributed among these distances:
21 1 0.01
22 19 0.26
23 17 0.23
24 17 0.23
25 4 0.05
26 15 0.21
ACGTcount: A:0.22, C:0.26, G:0.20, T:0.32
Consensus pattern (22 bp):
CAGCTCGTATGAGCCTACTATT
Found at i:37616027 original size:20 final size:20
Alignment explanation
Indices: 37616002--37616069 Score: 66
Period size: 20 Copynumber: 3.4 Consensus size: 20
37615992 ATAAGATATG
*
37616002 TGTTTATATGGATGAATTAT
1 TGTTTATATGGATGAATTAA
* **
37616022 TGTTTATACGGATGAACCAA
1 TGTTTATATGGATGAATTAA
* *
37616042 TGGTTATATGAATGAATTACA
1 TGTTTATATGGATGAATTA-A
37616063 -GTTTATA
1 TGTTTATA
37616070 CGAATAGAAA
Statistics
Matches: 37, Mismatches: 10, Indels: 2
0.76 0.20 0.04
Matches are distributed among these distances:
20 36 0.97
21 1 0.03
ACGTcount: A:0.34, C:0.06, G:0.19, T:0.41
Consensus pattern (20 bp):
TGTTTATATGGATGAATTAA
Found at i:37616425 original size:2 final size:2
Alignment explanation
Indices: 37616418--37616442 Score: 50
Period size: 2 Copynumber: 12.5 Consensus size: 2
37616408 AAAATGATGA
37616418 AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT A
37616443 GGAATTACTA
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:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:37617016 original size:13 final size:13
Alignment explanation
Indices: 37616998--37617022 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
37616988 ATATGTTTGG
37616998 ATATGAAATTGAT
1 ATATGAAATTGAT
37617011 ATATGAAATTGA
1 ATATGAAATTGA
37617023 CATTGAATTT
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.48, C:0.00, G:0.16, T:0.36
Consensus pattern (13 bp):
ATATGAAATTGAT
Found at i:37619563 original size:21 final size:21
Alignment explanation
Indices: 37619539--37619599 Score: 95
Period size: 21 Copynumber: 2.8 Consensus size: 21
37619529 CGATACATAA
37619539 GTGCCTGAAACGACACACGAG
1 GTGCCTGAAACGACACACGAG
*
37619560 GTGCCTGATACGACACACGAG
1 GTGCCTGAAACGACACACGAG
37619581 GTGCCTGAAATGCGACACA
1 GTGCCTGAAA--CGACACA
37619600 TAAAGTGCCT
Statistics
Matches: 36, Mismatches: 2, Indels: 2
0.90 0.05 0.05
Matches are distributed among these distances:
21 29 0.81
23 7 0.19
ACGTcount: A:0.31, C:0.28, G:0.28, T:0.13
Consensus pattern (21 bp):
GTGCCTGAAACGACACACGAG
Found at i:37619635 original size:23 final size:23
Alignment explanation
Indices: 37619581--37619635 Score: 74
Period size: 23 Copynumber: 2.4 Consensus size: 23
37619571 GACACACGAG
* * *
37619581 GTGCCTGAAATGCGACACATAAA
1 GTGCCTGATATACAACACATAAA
*
37619604 GTGCCTGATATACAACACATATA
1 GTGCCTGATATACAACACATAAA
37619627 GTGCCTGAT
1 GTGCCTGAT
37619636 CGGCAAAGCT
Statistics
Matches: 28, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
23 28 1.00
ACGTcount: A:0.35, C:0.22, G:0.20, T:0.24
Consensus pattern (23 bp):
GTGCCTGATATACAACACATAAA
Found at i:37620337 original size:11 final size:11
Alignment explanation
Indices: 37620321--37620345 Score: 50
Period size: 11 Copynumber: 2.3 Consensus size: 11
37620311 TTAAATTTTC
37620321 CTATTCAATTT
1 CTATTCAATTT
37620332 CTATTCAATTT
1 CTATTCAATTT
37620343 CTA
1 CTA
37620346 CCGTAAATTC
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:0.28, C:0.20, G:0.00, T:0.52
Consensus pattern (11 bp):
CTATTCAATTT
Found at i:37621153 original size:12 final size:13
Alignment explanation
Indices: 37621133--37621164 Score: 50
Period size: 12 Copynumber: 2.6 Consensus size: 13
37621123 TCTTTTCTTC
37621133 TTTGTTTTGTTTG
1 TTTGTTTTGTTTG
37621146 TTTG-TTTGTTTG
1 TTTGTTTTGTTTG
37621158 TTT-TTTT
1 TTTGTTTT
37621165 ATTTTACTTT
Statistics
Matches: 18, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
12 14 0.78
13 4 0.22
ACGTcount: A:0.00, C:0.00, G:0.19, T:0.81
Consensus pattern (13 bp):
TTTGTTTTGTTTG
Found at i:37621238 original size:14 final size:14
Alignment explanation
Indices: 37621202--37621234 Score: 50
Period size: 13 Copynumber: 2.4 Consensus size: 14
37621192 ATTAGTTAAC
37621202 AATAATAATAATGAT
1 AATAAT-ATAATGAT
37621217 AATAATATAAT-AT
1 AATAATATAATGAT
37621230 AATAA
1 AATAA
37621235 ATATCTATTT
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
13 7 0.39
14 5 0.28
15 6 0.33
ACGTcount: A:0.64, C:0.00, G:0.03, T:0.33
Consensus pattern (14 bp):
AATAATATAATGAT
Found at i:37622293 original size:25 final size:25
Alignment explanation
Indices: 37622237--37622298 Score: 72
Period size: 25 Copynumber: 2.5 Consensus size: 25
37622227 AGCCCTATCA
*
37622237 AGCTTTCCGTTATATGGTTCATGAG
1 AGCTTCCCGTTATATGGTTCATGAG
* *
37622262 AGTTTCCCGTTATATGGTT-ATTGCG
1 AGCTTCCCGTTATATGGTTCA-TGAG
*
37622287 CGCTTCCCGTTA
1 AGCTTCCCGTTA
37622299 ATAGCTCTTC
Statistics
Matches: 31, Mismatches: 5, Indels: 2
0.82 0.13 0.05
Matches are distributed among these distances:
24 1 0.03
25 30 0.97
ACGTcount: A:0.16, C:0.21, G:0.23, T:0.40
Consensus pattern (25 bp):
AGCTTCCCGTTATATGGTTCATGAG
Found at i:37622411 original size:26 final size:26
Alignment explanation
Indices: 37622362--37622439 Score: 70
Period size: 26 Copynumber: 3.0 Consensus size: 26
37622352 ACCGCAACTC
* *
37622362 TTATGAGCGTCCCGA-TATATGGCT-T
1 TTATGAGCTTCCCGATTA-AAGGCTCT
37622387 TTCATGAGCTTCCCGATTAAAGGCTCT
1 TT-ATGAGCTTCCCGATTAAAGGCTCT
* * * *
37622414 TTGTGAGCTTTCTGATTAAAAGCTCT
1 TTATGAGCTTCCCGATTAAAGGCTCT
37622440 CCGGAGCTTC
Statistics
Matches: 44, Mismatches: 6, Indels: 5
0.80 0.11 0.09
Matches are distributed among these distances:
25 2 0.05
26 37 0.84
27 5 0.11
ACGTcount: A:0.22, C:0.21, G:0.21, T:0.37
Consensus pattern (26 bp):
TTATGAGCTTCCCGATTAAAGGCTCT
Found at i:37628526 original size:47 final size:47
Alignment explanation
Indices: 37628475--37628658 Score: 368
Period size: 47 Copynumber: 3.9 Consensus size: 47
37628465 TTGAACAAAG
37628475 ATACGGTTTGAACTAATTAATAACACATAAAATATGTACCACAAAAA
1 ATACGGTTTGAACTAATTAATAACACATAAAATATGTACCACAAAAA
37628522 ATACGGTTTGAACTAATTAATAACACATAAAATATGTACCACAAAAA
1 ATACGGTTTGAACTAATTAATAACACATAAAATATGTACCACAAAAA
37628569 ATACGGTTTGAACTAATTAATAACACATAAAATATGTACCACAAAAA
1 ATACGGTTTGAACTAATTAATAACACATAAAATATGTACCACAAAAA
37628616 ATACGGTTTGAACTAATTAATAACACATAAAATATGTACCACA
1 ATACGGTTTGAACTAATTAATAACACATAAAATATGTACCACA
37628659 TTAAAATAAA
Statistics
Matches: 137, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
47 137 1.00
ACGTcount: A:0.50, C:0.15, G:0.09, T:0.26
Consensus pattern (47 bp):
ATACGGTTTGAACTAATTAATAACACATAAAATATGTACCACAAAAA
Found at i:37630066 original size:13 final size:13
Alignment explanation
Indices: 37630048--37630074 Score: 54
Period size: 13 Copynumber: 2.1 Consensus size: 13
37630038 TAAATAGAAA
37630048 ATATCATCATTTT
1 ATATCATCATTTT
37630061 ATATCATCATTTT
1 ATATCATCATTTT
37630074 A
1 A
37630075 GAGAAGAAAG
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 14 1.00
ACGTcount: A:0.33, C:0.15, G:0.00, T:0.52
Consensus pattern (13 bp):
ATATCATCATTTT
Found at i:37631274 original size:23 final size:22
Alignment explanation
Indices: 37631221--37631279 Score: 57
Period size: 22 Copynumber: 2.6 Consensus size: 22
37631211 TAAATATTAG
*
37631221 TTTATTAATATTTTAATTTGAT
1 TTTATTAATATATTAATTTGAT
* *
37631243 TTTTTTAATGATATT-ATTTTAT
1 TTTATTAAT-ATATTAATTTGAT
*
37631265 TGTTATTAATTTATT
1 T-TTATTAATATATT
37631280 TAGTATATAT
Statistics
Matches: 30, Mismatches: 5, Indels: 4
0.77 0.13 0.10
Matches are distributed among these distances:
22 19 0.63
23 11 0.37
ACGTcount: A:0.29, C:0.00, G:0.05, T:0.66
Consensus pattern (22 bp):
TTTATTAATATATTAATTTGAT
Found at i:37633246 original size:25 final size:25
Alignment explanation
Indices: 37633217--37633265 Score: 98
Period size: 25 Copynumber: 2.0 Consensus size: 25
37633207 TGTGATGTGA
37633217 GTTGTGTTTGCATGATACATGATGG
1 GTTGTGTTTGCATGATACATGATGG
37633242 GTTGTGTTTGCATGATACATGATG
1 GTTGTGTTTGCATGATACATGATG
37633266 AGTTATGGGA
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
25 24 1.00
ACGTcount: A:0.20, C:0.08, G:0.31, T:0.41
Consensus pattern (25 bp):
GTTGTGTTTGCATGATACATGATGG
Found at i:37635441 original size:43 final size:43
Alignment explanation
Indices: 37635372--37635524 Score: 209
Period size: 43 Copynumber: 3.6 Consensus size: 43
37635362 ATCACATACA
* * * * *
37635372 ATGCC-ATATCCCAGATATGGTCTTACATGTTATCACATATCG
1 ATGCCAATGTCCCAGACATGGTCTTACACGTAATCTCATATCG
* * *
37635414 ATGCCACTGTCCTAGACAGGGTCTTACACGTAATCTCATATCG
1 ATGCCAATGTCCCAGACATGGTCTTACACGTAATCTCATATCG
* *
37635457 ATGCCAATGTCCCGGACATGGTCTTACACGTAATCTTATATCG
1 ATGCCAATGTCCCAGACATGGTCTTACACGTAATCTCATATCG
37635500 ATGCCAATGTCCCAGACATGGTCTT
1 ATGCCAATGTCCCAGACATGGTCTT
37635525 GCACAAAACC
Statistics
Matches: 96, Mismatches: 14, Indels: 1
0.86 0.13 0.01
Matches are distributed among these distances:
42 5 0.05
43 91 0.95
ACGTcount: A:0.26, C:0.26, G:0.18, T:0.30
Consensus pattern (43 bp):
ATGCCAATGTCCCAGACATGGTCTTACACGTAATCTCATATCG
Found at i:37641822 original size:3 final size:3
Alignment explanation
Indices: 37641816--37641861 Score: 56
Period size: 3 Copynumber: 15.3 Consensus size: 3
37641806 GAGTACAGAA
* * * *
37641816 GAT GAT GAA GAT GGT GAT TAT GAA GAT GAT GAT GAT GAT GAT GAT G
1 GAT GAT GAT GAT GAT GAT GAT GAT GAT GAT GAT GAT GAT GAT GAT G
37641862 TTGCAGAAGA
Statistics
Matches: 35, Mismatches: 8, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
3 35 1.00
ACGTcount: A:0.35, C:0.00, G:0.35, T:0.30
Consensus pattern (3 bp):
GAT
Found at i:37645344 original size:2 final size:2
Alignment explanation
Indices: 37645337--37645363 Score: 54
Period size: 2 Copynumber: 13.5 Consensus size: 2
37645327 GTAACTTACT
37645337 TA TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA T
37645364 GAGGATTGTA
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:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Found at i:37648873 original size:23 final size:23
Alignment explanation
Indices: 37648846--37648917 Score: 62
Period size: 23 Copynumber: 3.2 Consensus size: 23
37648836 ACAGCAAGAT
37648846 AAGAAAAACCAACAGTAGATGTG
1 AAGAAAAACCAACAGTAGATGTG
* * * *
37648869 AAGAAGAAGC-AC--TCGCAAGAT-
1 AAGAAAAACCAACAGTAG-ATG-TG
37648890 AAGAAAAACCAACAGTAGATGTG
1 AAGAAAAACCAACAGTAGATGTG
37648913 AAGAA
1 AAGAA
37648918 GAAGCACTCT
Statistics
Matches: 35, Mismatches: 8, Indels: 12
0.64 0.15 0.22
Matches are distributed among these distances:
20 2 0.06
21 10 0.29
22 6 0.17
23 15 0.43
24 2 0.06
ACGTcount: A:0.53, C:0.14, G:0.22, T:0.11
Consensus pattern (23 bp):
AAGAAAAACCAACAGTAGATGTG
Found at i:37648902 original size:44 final size:44
Alignment explanation
Indices: 37648839--37648926 Score: 176
Period size: 44 Copynumber: 2.0 Consensus size: 44
37648829 ACTAAAAACA
37648839 GCAAGATAAGAAAAACCAACAGTAGATGTGAAGAAGAAGCACTC
1 GCAAGATAAGAAAAACCAACAGTAGATGTGAAGAAGAAGCACTC
37648883 GCAAGATAAGAAAAACCAACAGTAGATGTGAAGAAGAAGCACTC
1 GCAAGATAAGAAAAACCAACAGTAGATGTGAAGAAGAAGCACTC
37648927 TTATTGAATT
Statistics
Matches: 44, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
44 44 1.00
ACGTcount: A:0.50, C:0.16, G:0.23, T:0.11
Consensus pattern (44 bp):
GCAAGATAAGAAAAACCAACAGTAGATGTGAAGAAGAAGCACTC
Found at i:37650723 original size:345 final size:345
Alignment explanation
Indices: 37650092--37650781 Score: 1353
Period size: 345 Copynumber: 2.0 Consensus size: 345
37650082 CTAGTAACAA
37650092 ATCATTCGCTTGTTTTTTAAGATAAAGAGTAGGTTCATTTTCACTTCTAACAAAACCTGAATTTT
1 ATCATTCGCTTGTTTTTTAAGATAAAGAGTAGGTTCATTTTCACTTCTAACAAAACCTGAATTTT
*
37650157 GAAAATAAGCATCAATCTTACTGTACCAGGCTCGCGGCGCTTGCTTCAAGCTGTAAAGAGCCTTT
66 GAAAATAAGCATCAATCTTACTGTACCAGGCTCGCGGCGCTTGCTTCAAGCCGTAAAGAGCCTTT
37650222 TTCAGCTTGTATACCTTACTCTCCTTGCCTTTGATTACAAACCCATCTGGCTGTGACACTAAAAC
131 TTCAGCTTGTATACCTTACTCTCCTTGCCTTTGATTACAAACCCATCTGGCTGTGACACTAAAAC
37650287 CTCTTCCTTCAACTCACCGTTTAAAAACGCTGACTTCACATCAAATTGAAAAACAGGCCATTTCA
196 CTCTTCCTTCAACTCACCGTTTAAAAACGCTGACTTCACATCAAATTGAAAAACAGGCCATTTCA
37650352 ATTGAGCGGCCAATGCTAGAGCAATTCTGACTGTTTCAAAACGTACCACAGGAGAAAACGTTTCT
261 ATTGAGCGGCCAATGCTAGAGCAATTCTGACTGTTTCAAAACGTACCACAGGAGAAAACGTTTCT
37650417 TCATAATCAATTCCTTGTTG
326 TCATAATCAATTCCTTGTTG
37650437 ATCATTCGCTTGTTTTTTAAGATAAAGAGTAGGTTCATTTTCACTTCTAACAAAACCTGAATTTT
1 ATCATTCGCTTGTTTTTTAAGATAAAGAGTAGGTTCATTTTCACTTCTAACAAAACCTGAATTTT
* *
37650502 GAAAATAAGCATCAATCTTACTGTACCAGGCTCGCGGTGCTTGCTTTAAGCCGTAAAGAGCCTTT
66 GAAAATAAGCATCAATCTTACTGTACCAGGCTCGCGGCGCTTGCTTCAAGCCGTAAAGAGCCTTT
37650567 TTCAGCTTGTATACCTTACTCTCCTTGCCTTTGATTACAAACCCATCTGGCTGTGACACTAAAAC
131 TTCAGCTTGTATACCTTACTCTCCTTGCCTTTGATTACAAACCCATCTGGCTGTGACACTAAAAC
37650632 CTCTTCCTTCAACTCACCGTTTAAAAACGCTGACTTCACATCAAATTGAAAAACAGGCCATTTCA
196 CTCTTCCTTCAACTCACCGTTTAAAAACGCTGACTTCACATCAAATTGAAAAACAGGCCATTTCA
37650697 ATTGAGCGGCCAATGCTAGAGCAATTCTGACTGTTTCAAAACGTACCACAGGAGAAAACGTTTCT
261 ATTGAGCGGCCAATGCTAGAGCAATTCTGACTGTTTCAAAACGTACCACAGGAGAAAACGTTTCT
37650762 TCATAATCAATTCCTTGTTG
326 TCATAATCAATTCCTTGTTG
37650782 TTGGCGGTAC
Statistics
Matches: 342, Mismatches: 3, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
345 342 1.00
ACGTcount: A:0.30, C:0.24, G:0.15, T:0.32
Consensus pattern (345 bp):
ATCATTCGCTTGTTTTTTAAGATAAAGAGTAGGTTCATTTTCACTTCTAACAAAACCTGAATTTT
GAAAATAAGCATCAATCTTACTGTACCAGGCTCGCGGCGCTTGCTTCAAGCCGTAAAGAGCCTTT
TTCAGCTTGTATACCTTACTCTCCTTGCCTTTGATTACAAACCCATCTGGCTGTGACACTAAAAC
CTCTTCCTTCAACTCACCGTTTAAAAACGCTGACTTCACATCAAATTGAAAAACAGGCCATTTCA
ATTGAGCGGCCAATGCTAGAGCAATTCTGACTGTTTCAAAACGTACCACAGGAGAAAACGTTTCT
TCATAATCAATTCCTTGTTG
Found at i:37655480 original size:21 final size:21
Alignment explanation
Indices: 37655456--37655510 Score: 83
Period size: 21 Copynumber: 2.6 Consensus size: 21
37655446 TGTTTACCTC
*
37655456 CGGTGAGATTAGTTACTGTAG
1 CGGTGAGATTAGATACTGTAG
*
37655477 CGGTGAGATTGGATACTGTAG
1 CGGTGAGATTAGATACTGTAG
*
37655498 CGGTGAAATTAGA
1 CGGTGAGATTAGA
37655511 AACAATGGTG
Statistics
Matches: 30, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
21 30 1.00
ACGTcount: A:0.27, C:0.09, G:0.35, T:0.29
Consensus pattern (21 bp):
CGGTGAGATTAGATACTGTAG
Found at i:37658074 original size:70 final size:70
Alignment explanation
Indices: 37657957--37658093 Score: 247
Period size: 70 Copynumber: 2.0 Consensus size: 70
37657947 ATGACTTCTT
* *
37657957 ATCTTTCCATTGGCACAATTAGATTCTAGATTTTGTAGCTATGAACAAAATGGAATCCGTTTCTT
1 ATCTTTCCATTGACACAATTAGATTCTAGATTTTGTAGCTATCAACAAAATGGAATCCGTTTCTT
37658022 TGTTC
66 TGTTC
*
37658027 ATCTTTCCATTGACACAATTAGATTCTAGATTTTGTAGCTATCAACAAAATGGAATCCTTTTCTT
1 ATCTTTCCATTGACACAATTAGATTCTAGATTTTGTAGCTATCAACAAAATGGAATCCGTTTCTT
37658092 TG
66 TG
37658094 ATTTTGTAGC
Statistics
Matches: 64, Mismatches: 3, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
70 64 1.00
ACGTcount: A:0.28, C:0.18, G:0.14, T:0.40
Consensus pattern (70 bp):
ATCTTTCCATTGACACAATTAGATTCTAGATTTTGTAGCTATCAACAAAATGGAATCCGTTTCTT
TGTTC
Found at i:37658097 original size:38 final size:38
Alignment explanation
Indices: 37658055--37658131 Score: 154
Period size: 38 Copynumber: 2.0 Consensus size: 38
37658045 TTAGATTCTA
37658055 GATTTTGTAGCTATCAACAAAATGGAATCCTTTTCTTT
1 GATTTTGTAGCTATCAACAAAATGGAATCCTTTTCTTT
37658093 GATTTTGTAGCTATCAACAAAATGGAATCCTTTTCTTT
1 GATTTTGTAGCTATCAACAAAATGGAATCCTTTTCTTT
37658131 G
1 G
37658132 TTTATCTTTC
Statistics
Matches: 39, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
38 39 1.00
ACGTcount: A:0.29, C:0.16, G:0.14, T:0.42
Consensus pattern (38 bp):
GATTTTGTAGCTATCAACAAAATGGAATCCTTTTCTTT
Found at i:37658185 original size:108 final size:108
Alignment explanation
Indices: 37657985--37658202 Score: 341
Period size: 108 Copynumber: 2.0 Consensus size: 108
37657975 TTAGATTCTA
*
37657985 GATTTTGTAGCTATGAACAAAATGGAATCCGTTTCTTTGTTCATCTTTCCATTGACACAATTAGA
1 GATTTTGTAGCTATCAACAAAATGGAATCCGTTTCTTTGTTCATCTTTCCATTGACACAATTAGA
* *
37658050 TTCTAGATTTTGTAGCTATCAACAAAATGGAATCCTTTTCTTT
66 TTCTAGATTTTGTAGCTATCAACAAAATGGAAGCCATTTCTTT
* * *
37658093 GATTTTGTAGCTATCAACAAAATGGAATCCTTTTCTTTGTTTATCTTTCCATTG-CTGCAATTAG
1 GATTTTGTAGCTATCAACAAAATGGAATCCGTTTCTTTGTTCATCTTTCCATTGAC-ACAATTAG
*
37658157 ATTCTAG-TTTTGTAGCTATTAACAAAAATGGAAGCCATTTCTTT
65 ATTCTAGATTTTGTAGCTATCAAC-AAAATGGAAGCCATTTCTTT
37658201 GA
1 GA
37658203 ACCAGTTTAG
Statistics
Matches: 101, Mismatches: 7, Indels: 4
0.90 0.06 0.04
Matches are distributed among these distances:
107 16 0.16
108 85 0.84
ACGTcount: A:0.28, C:0.16, G:0.14, T:0.41
Consensus pattern (108 bp):
GATTTTGTAGCTATCAACAAAATGGAATCCGTTTCTTTGTTCATCTTTCCATTGACACAATTAGA
TTCTAGATTTTGTAGCTATCAACAAAATGGAAGCCATTTCTTT
Found at i:37664211 original size:13 final size:13
Alignment explanation
Indices: 37664193--37664218 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
37664183 TCTTTCCTTC
37664193 CCCCCCCCCCCCA
1 CCCCCCCCCCCCA
37664206 CCCCCCCCCCCCA
1 CCCCCCCCCCCCA
37664219 ACCCTCTCCC
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.08, C:0.92, G:0.00, T:0.00
Consensus pattern (13 bp):
CCCCCCCCCCCCA
Found at i:37664211 original size:14 final size:14
Alignment explanation
Indices: 37664192--37664222 Score: 53
Period size: 14 Copynumber: 2.2 Consensus size: 14
37664182 CTCTTTCCTT
*
37664192 CCCCCCCCCCCCCA
1 CCCCCCCCCCCCAA
37664206 CCCCCCCCCCCCAA
1 CCCCCCCCCCCCAA
37664220 CCC
1 CCC
37664223 TCTCCCTTCA
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:0.10, C:0.90, G:0.00, T:0.00
Consensus pattern (14 bp):
CCCCCCCCCCCCAA
Found at i:37669826 original size:114 final size:114
Alignment explanation
Indices: 37669626--37669855 Score: 424
Period size: 114 Copynumber: 2.0 Consensus size: 114
37669616 CATCTTGTGA
37669626 CTGATTCTTTAAGGAAGATTTGTTTTGTTTATACTTTTTCACTCCATTTATTACAATTCCCCTAG
1 CTGATTCTTTAAGGAAGATTTGTTTTGTTTATACTTTTTCACTCCATTTATTACAATTCCCCTAG
*
37669691 GGCATGGGTGACTTTCCTGGGAGGTCAATTCAACCCCATAGAGCTGCTT
66 GGCATGGGTGACTTTCCTGGGAGGTCAATTCAACCCCATAGAGCAGCTT
* * *
37669740 CTGATTCTTTAGGGAAGATTTGTTTTGTTTATACTTTTTCACTTCTTTTATTACAATTCCCCTAG
1 CTGATTCTTTAAGGAAGATTTGTTTTGTTTATACTTTTTCACTCCATTTATTACAATTCCCCTAG
37669805 GGCATGGGTGACTTTCCTGGGAGGTCAATTCAACCCCATAGAGCAGCTT
66 GGCATGGGTGACTTTCCTGGGAGGTCAATTCAACCCCATAGAGCAGCTT
37669854 CT
1 CT
37669856 TTAAACCGAT
Statistics
Matches: 112, Mismatches: 4, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
114 112 1.00
ACGTcount: A:0.21, C:0.21, G:0.19, T:0.39
Consensus pattern (114 bp):
CTGATTCTTTAAGGAAGATTTGTTTTGTTTATACTTTTTCACTCCATTTATTACAATTCCCCTAG
GGCATGGGTGACTTTCCTGGGAGGTCAATTCAACCCCATAGAGCAGCTT
Found at i:37674058 original size:17 final size:17
Alignment explanation
Indices: 37674036--37674092 Score: 64
Period size: 17 Copynumber: 3.5 Consensus size: 17
37674026 CCAAATCTGC
* * *
37674036 TTTGGGCTTCTGTTTGG
1 TTTGGGCCTCAGTTAGG
37674053 TTTGGGCCTCAGTTAGG
1 TTTGGGCCTCAGTTAGG
*
37674070 TTTGGGCCACA--TAGG
1 TTTGGGCCTCAGTTAGG
37674085 TTTGGGCC
1 TTTGGGCC
37674093 ACCTCGGGCC
Statistics
Matches: 36, Mismatches: 4, Indels: 2
0.86 0.10 0.05
Matches are distributed among these distances:
15 12 0.33
17 24 0.67
ACGTcount: A:0.09, C:0.18, G:0.35, T:0.39
Consensus pattern (17 bp):
TTTGGGCCTCAGTTAGG
Found at i:37674086 original size:15 final size:16
Alignment explanation
Indices: 37674051--37674094 Score: 63
Period size: 15 Copynumber: 2.8 Consensus size: 16
37674041 GCTTCTGTTT
*
37674051 GGTTTGGGCCTCAGTTA
1 GGTTTGGGCCACAG-TA
37674068 GGTTTGGGCCACA-TA
1 GGTTTGGGCCACAGTA
37674083 GGTTTGGGCCAC
1 GGTTTGGGCCAC
37674095 CTCGGGCCCT
Statistics
Matches: 26, Mismatches: 1, Indels: 2
0.90 0.03 0.07
Matches are distributed among these distances:
15 14 0.54
17 12 0.46
ACGTcount: A:0.14, C:0.20, G:0.36, T:0.30
Consensus pattern (16 bp):
GGTTTGGGCCACAGTA
Found at i:37675845 original size:34 final size:35
Alignment explanation
Indices: 37675801--37675867 Score: 100
Period size: 34 Copynumber: 1.9 Consensus size: 35
37675791 CAATAAAATA
*
37675801 TTTTCCGTAAAATGATTT-CGGGAAAATGTTTTAC
1 TTTTCCGTAAAATGATTTACGGGAAAATATTTTAC
* *
37675835 TTTTCTGTAAAATGATTTACTGGAAAATATTTT
1 TTTTCCGTAAAATGATTTACGGGAAAATATTTT
37675868 CTGGTGTTTG
Statistics
Matches: 29, Mismatches: 3, Indels: 1
0.88 0.09 0.03
Matches are distributed among these distances:
34 17 0.59
35 12 0.41
ACGTcount: A:0.31, C:0.09, G:0.15, T:0.45
Consensus pattern (35 bp):
TTTTCCGTAAAATGATTTACGGGAAAATATTTTAC
Found at i:37682192 original size:18 final size:18
Alignment explanation
Indices: 37682157--37682192 Score: 54
Period size: 18 Copynumber: 2.0 Consensus size: 18
37682147 GCATAAATGT
* *
37682157 TATGACTAATTGTTAAAA
1 TATGACTAACTGTCAAAA
37682175 TATGACTAACTGTCAAAA
1 TATGACTAACTGTCAAAA
37682193 AGAAGTCATC
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
18 16 1.00
ACGTcount: A:0.44, C:0.11, G:0.11, T:0.33
Consensus pattern (18 bp):
TATGACTAACTGTCAAAA
Found at i:37686941 original size:14 final size:15
Alignment explanation
Indices: 37686922--37686962 Score: 57
Period size: 14 Copynumber: 2.7 Consensus size: 15
37686912 TTTTAATTTT
37686922 AATAATAATAA-CAG
1 AATAATAATAATCAG
37686936 AATAATAATAATCAG
1 AATAATAATAATCAG
*
37686951 AAAAATATATAA
1 AATAATA-ATAA
37686963 AATTTAAAAT
Statistics
Matches: 24, Mismatches: 1, Indels: 2
0.89 0.04 0.07
Matches are distributed among these distances:
14 11 0.46
15 9 0.38
16 4 0.17
ACGTcount: A:0.66, C:0.05, G:0.05, T:0.24
Consensus pattern (15 bp):
AATAATAATAATCAG
Found at i:37687032 original size:28 final size:28
Alignment explanation
Indices: 37686965--37687063 Score: 119
Period size: 28 Copynumber: 3.4 Consensus size: 28
37686955 ATATATAAAA
37686965 TTTAAAATTTACATTTTGACC-CCTAATTTT
1 TTTAAAA-TTACATTTTGACCTCC-AA-TTT
*
37686995 TTTAAAATTATATTTTGACCTCCAATTT
1 TTTAAAATTACATTTTGACCTCCAATTT
**
37687023 TTTAAAATTACATTTTGACCTTAAATTT
1 TTTAAAATTACATTTTGACCTCCAATTT
*
37687051 TCCTAAAATTACA
1 T-TTAAAATTACA
37687064 ATTCAACCTT
Statistics
Matches: 62, Mismatches: 5, Indels: 5
0.86 0.07 0.07
Matches are distributed among these distances:
28 29 0.47
29 24 0.39
30 9 0.15
ACGTcount: A:0.34, C:0.15, G:0.03, T:0.47
Consensus pattern (28 bp):
TTTAAAATTACATTTTGACCTCCAATTT
Found at i:37687072 original size:29 final size:30
Alignment explanation
Indices: 37687025--37687081 Score: 80
Period size: 29 Copynumber: 1.9 Consensus size: 30
37687015 TCCAATTTTT
* **
37687025 TAAAATTACATTTTGACCTTA-AATTTTCC
1 TAAAATTACAATTCAACCTTAGAATTTTCC
37687054 TAAAATTACAATTCAACCTTAGAATTTT
1 TAAAATTACAATTCAACCTTAGAATTTT
37687082 TGCGTCCTCT
Statistics
Matches: 24, Mismatches: 3, Indels: 1
0.86 0.11 0.04
Matches are distributed among these distances:
29 18 0.75
30 6 0.25
ACGTcount: A:0.39, C:0.16, G:0.04, T:0.42
Consensus pattern (30 bp):
TAAAATTACAATTCAACCTTAGAATTTTCC
Found at i:37687484 original size:10 final size:10
Alignment explanation
Indices: 37687451--37687527 Score: 50
Period size: 12 Copynumber: 7.4 Consensus size: 10
37687441 AGGGGCTTTC
37687451 GAGAAGAAAA
1 GAGAAGAAAA
*
37687461 GAAACAAGAAAA
1 G--AGAAGAAAA
*
37687473 GAGAAGAGAA
1 GAGAAGAAAA
37687483 GAG-AGAAAA
1 GAGAAGAAAA
*
37687492 -AAAAGAAAA
1 GAGAAGAAAA
*
37687501 AAGAAGAGAGAA
1 GAGAAGA-A-AA
*
37687513 GAGAAAAGAAA
1 GAGAAGA-AAA
37687524 GAGA
1 GAGA
37687528 GAATAGAAAG
Statistics
Matches: 53, Mismatches: 8, Indels: 11
0.74 0.11 0.15
Matches are distributed among these distances:
8 1 0.02
9 11 0.21
10 16 0.30
11 7 0.13
12 18 0.34
ACGTcount: A:0.70, C:0.01, G:0.29, T:0.00
Consensus pattern (10 bp):
GAGAAGAAAA
Found at i:37687505 original size:28 final size:28
Alignment explanation
Indices: 37687451--37687525 Score: 91
Period size: 28 Copynumber: 2.6 Consensus size: 28
37687441 AGGGGCTTTC
*
37687451 GAGAAGA-AAAGAAACAAGAAAAGAGAAGA
1 GAGAAGAGAAA-AAA-AAGAAAAAAGAAGA
37687480 GA-AGAGAGAAAAAAAAGAAAAAAGAAGA
1 GAGA-AGAGAAAAAAAAGAAAAAAGAAGA
*
37687508 GAGAAGAGAAAAGAAAGA
1 GAGAAGAGAAAAAAAAGA
37687526 GAGAATAGAA
Statistics
Matches: 41, Mismatches: 2, Indels: 7
0.82 0.04 0.14
Matches are distributed among these distances:
28 29 0.71
29 9 0.22
30 3 0.07
ACGTcount: A:0.71, C:0.01, G:0.28, T:0.00
Consensus pattern (28 bp):
GAGAAGAGAAAAAAAAGAAAAAAGAAGA
Done.