Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Chr3
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: 26558743
ACGTcount: A:0.32, C:0.16, G:0.16, T:0.32
Warning! 1281270 characters in sequence are not A, C, G, or T
File 70 of 79
Found at i:23075749 original size:14 final size:14
Alignment explanation
Indices: 23075730--23075757 Score: 56
Period size: 14 Copynumber: 2.0 Consensus size: 14
23075720 TACAGAAATG
23075730 TTTAATTTTTTACT
1 TTTAATTTTTTACT
23075744 TTTAATTTTTTACT
1 TTTAATTTTTTACT
23075758 CTAAATTTAC
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 14 1.00
ACGTcount: A:0.21, C:0.07, G:0.00, T:0.71
Consensus pattern (14 bp):
TTTAATTTTTTACT
Found at i:23076350 original size:10 final size:8
Alignment explanation
Indices: 23076315--23076347 Score: 59
Period size: 8 Copynumber: 4.2 Consensus size: 8
23076305 TTTATAAATG
23076315 TTATA-TT
1 TTATATTT
23076322 TTATATTT
1 TTATATTT
23076330 TTATATTT
1 TTATATTT
23076338 TTATATTT
1 TTATATTT
23076346 TT
1 TT
23076348 TTAACTTGAT
Statistics
Matches: 25, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
7 5 0.20
8 20 0.80
ACGTcount: A:0.24, C:0.00, G:0.00, T:0.76
Consensus pattern (8 bp):
TTATATTT
Found at i:23077087 original size:23 final size:22
Alignment explanation
Indices: 23077046--23077088 Score: 59
Period size: 23 Copynumber: 1.9 Consensus size: 22
23077036 CAAATGTGTT
*
23077046 AAAATAATTAATTAAAAATAAA
1 AAAATAACTAATTAAAAATAAA
*
23077068 AAAATAAACTAATTACAAATA
1 AAAAT-AACTAATTAAAAATA
23077089 TTTAATGGTT
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
22 5 0.28
23 13 0.72
ACGTcount: A:0.70, C:0.05, G:0.00, T:0.26
Consensus pattern (22 bp):
AAAATAACTAATTAAAAATAAA
Found at i:23077398 original size:13 final size:13
Alignment explanation
Indices: 23077382--23077434 Score: 63
Period size: 13 Copynumber: 4.1 Consensus size: 13
23077372 TTTAAACCAA
23077382 ACTTTTCAAAAGC
1 ACTTTTCAAAAGC
*
23077395 ACTTCTCAAAAGC
1 ACTTTTCAAAAGC
* *
23077408 ACTTTTTCACAA-T
1 AC-TTTTCAAAAGC
23077421 ACTTTTCAAAAGC
1 ACTTTTCAAAAGC
23077434 A
1 A
23077435 TTGTCAAACT
Statistics
Matches: 32, Mismatches: 6, Indels: 4
0.76 0.14 0.10
Matches are distributed among these distances:
12 8 0.25
13 17 0.53
14 7 0.22
ACGTcount: A:0.38, C:0.25, G:0.06, T:0.32
Consensus pattern (13 bp):
ACTTTTCAAAAGC
Found at i:23080032 original size:27 final size:27
Alignment explanation
Indices: 23079985--23080048 Score: 94
Period size: 27 Copynumber: 2.4 Consensus size: 27
23079975 AAATATTCTC
*
23079985 TAAATTAAT-AAATATTAATTTATCGA
1 TAAATTAATAAAATATTAATTTATCAA
*
23080011 TAAATTAATAAAATATTCATTTATCAA
1 TAAATTAATAAAATATTAATTTATCAA
*
23080038 TAAACTAATAA
1 TAAATTAATAA
23080049 CCTCAATAAA
Statistics
Matches: 34, Mismatches: 3, Indels: 1
0.89 0.08 0.03
Matches are distributed among these distances:
26 9 0.26
27 25 0.74
ACGTcount: A:0.53, C:0.06, G:0.02, T:0.39
Consensus pattern (27 bp):
TAAATTAATAAAATATTAATTTATCAA
Found at i:23080056 original size:17 final size:17
Alignment explanation
Indices: 23080034--23080066 Score: 57
Period size: 17 Copynumber: 1.9 Consensus size: 17
23080024 TATTCATTTA
*
23080034 TCAATAAACTAATAACC
1 TCAATAAAATAATAACC
23080051 TCAATAAAATAATAAC
1 TCAATAAAATAATAAC
23080067 TTTTTTGGGT
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
17 15 1.00
ACGTcount: A:0.58, C:0.18, G:0.00, T:0.24
Consensus pattern (17 bp):
TCAATAAAATAATAACC
Found at i:23089708 original size:24 final size:26
Alignment explanation
Indices: 23089681--23089735 Score: 69
Period size: 25 Copynumber: 2.2 Consensus size: 26
23089671 GCTTTATATA
*
23089681 TTTTTGTT-AATTTGATATTT-ATTT
1 TTTTTATTAAATTTGATATTTAATTT
* *
23089705 TTTTAATTAAATTTGATTTTTAATTT
1 TTTTTATTAAATTTGATATTTAATTT
23089731 TTTTT
1 TTTTT
23089736 CAAATTTAAT
Statistics
Matches: 25, Mismatches: 4, Indels: 2
0.81 0.13 0.06
Matches are distributed among these distances:
24 6 0.24
25 11 0.44
26 8 0.32
ACGTcount: A:0.24, C:0.00, G:0.05, T:0.71
Consensus pattern (26 bp):
TTTTTATTAAATTTGATATTTAATTT
Found at i:23089740 original size:24 final size:25
Alignment explanation
Indices: 23089689--23089756 Score: 70
Period size: 24 Copynumber: 2.8 Consensus size: 25
23089679 TATTTTTGTT
*
23089689 AATTTGATATTT-ATTTTTTTAATTA
1 AATTTGATATTTAATTTTTTT-ATCA
*
23089714 AATTTGATTTTTAATTTTTTT-TCA
1 AATTTGATATTTAATTTTTTTATCA
*
23089738 AATTTAATCA-TTAATTTTT
1 AATTTGAT-ATTTAATTTTT
23089757 GAAAAATAGT
Statistics
Matches: 37, Mismatches: 4, Indels: 5
0.80 0.09 0.11
Matches are distributed among these distances:
24 18 0.49
25 11 0.30
26 8 0.22
ACGTcount: A:0.31, C:0.03, G:0.03, T:0.63
Consensus pattern (25 bp):
AATTTGATATTTAATTTTTTTATCA
Found at i:23089865 original size:19 final size:19
Alignment explanation
Indices: 23089840--23089882 Score: 63
Period size: 19 Copynumber: 2.3 Consensus size: 19
23089830 TATTTCATGC
23089840 TAATTTTTTTA-ATTTTTA
1 TAATTTTTTTATATTTTTA
23089858 TGAA-TTTTTTATATTTTTA
1 T-AATTTTTTTATATTTTTA
23089877 TAATTT
1 TAATTT
23089883 ATATTTTTTA
Statistics
Matches: 22, Mismatches: 0, Indels: 5
0.81 0.00 0.19
Matches are distributed among these distances:
18 10 0.45
19 12 0.55
ACGTcount: A:0.28, C:0.00, G:0.02, T:0.70
Consensus pattern (19 bp):
TAATTTTTTTATATTTTTA
Found at i:23089867 original size:18 final size:18
Alignment explanation
Indices: 23089844--23089882 Score: 62
Period size: 18 Copynumber: 2.2 Consensus size: 18
23089834 TCATGCTAAT
23089844 TTTTTTA-ATTTTTATGAA
1 TTTTTTATATTTTTAT-AA
23089862 TTTTTTATATTTTTATAA
1 TTTTTTATATTTTTATAA
23089880 TTT
1 TTT
23089883 ATATTTTTTA
Statistics
Matches: 20, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
18 12 0.60
19 8 0.40
ACGTcount: A:0.26, C:0.00, G:0.03, T:0.72
Consensus pattern (18 bp):
TTTTTTATATTTTTATAA
Found at i:23089885 original size:15 final size:15
Alignment explanation
Indices: 23089865--23089909 Score: 58
Period size: 15 Copynumber: 3.1 Consensus size: 15
23089855 TTATGAATTT
23089865 TTTATATTTTTATAA
1 TTTATATTTTTATAA
23089880 TTTATATTTTT-T-A
1 TTTATATTTTTATAA
*
23089893 TTTAAATATTTTATAA
1 TTTATAT-TTTTATAA
23089909 T
1 T
23089910 ATTTAGATTA
Statistics
Matches: 26, Mismatches: 1, Indels: 5
0.81 0.03 0.16
Matches are distributed among these distances:
13 7 0.27
14 5 0.19
15 12 0.46
16 2 0.08
ACGTcount: A:0.33, C:0.00, G:0.00, T:0.67
Consensus pattern (15 bp):
TTTATATTTTTATAA
Found at i:23093848 original size:13 final size:14
Alignment explanation
Indices: 23093822--23093854 Score: 59
Period size: 13 Copynumber: 2.4 Consensus size: 14
23093812 CATTAATTAA
23093822 AACTAAAGTTAACT
1 AACTAAAGTTAACT
23093836 AACTAAA-TTAACT
1 AACTAAAGTTAACT
23093849 AACTAA
1 AACTAA
23093855 TGCATTAAAG
Statistics
Matches: 19, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
13 12 0.63
14 7 0.37
ACGTcount: A:0.55, C:0.15, G:0.03, T:0.27
Consensus pattern (14 bp):
AACTAAAGTTAACT
Found at i:23095680 original size:19 final size:20
Alignment explanation
Indices: 23095656--23095707 Score: 70
Period size: 20 Copynumber: 2.6 Consensus size: 20
23095646 AATTTGTTTG
23095656 AAAATAATTTTGA-TGTATT
1 AAAATAATTTTGACTGTATT
* *
23095675 AAAATAATTTTAACTTTATT
1 AAAATAATTTTGACTGTATT
*
23095695 GAAATAATTTTGA
1 AAAATAATTTTGA
23095708 ATTGGTTAAA
Statistics
Matches: 28, Mismatches: 4, Indels: 1
0.85 0.12 0.03
Matches are distributed among these distances:
19 12 0.43
20 16 0.57
ACGTcount: A:0.44, C:0.02, G:0.08, T:0.46
Consensus pattern (20 bp):
AAAATAATTTTGACTGTATT
Found at i:23095719 original size:20 final size:20
Alignment explanation
Indices: 23095656--23095740 Score: 68
Period size: 20 Copynumber: 4.2 Consensus size: 20
23095646 AATTTGTTTG
23095656 AAAATAATTTTG-A-TGTATT
1 AAAATAATTTTGAATTG-ATT
*
23095675 AAAATAATTTT-AACTTTATT
1 AAAATAATTTTGAA-TTGATT
* *
23095695 GAAATAATTTTGAATTGGTT
1 AAAATAATTTTGAATTGATT
* * *
23095715 AAAATCATTTTCACTTGATTT
1 AAAATAATTTTGAATTGA-TT
23095736 AAAAT
1 AAAAT
23095741 TGTTTCAAAA
Statistics
Matches: 52, Mismatches: 9, Indels: 8
0.75 0.13 0.12
Matches are distributed among these distances:
19 12 0.23
20 30 0.58
21 10 0.19
ACGTcount: A:0.41, C:0.05, G:0.08, T:0.46
Consensus pattern (20 bp):
AAAATAATTTTGAATTGATT
Found at i:23096445 original size:92 final size:92
Alignment explanation
Indices: 23096288--23096459 Score: 308
Period size: 92 Copynumber: 1.9 Consensus size: 92
23096278 ATATGACCCG
* *
23096288 ACGTCATCTTTAGCTACGTACAATAATTCAATTATAGAAACGATATTAGTTTTCACCCGATCACA
1 ACGTCATCTTTAGCTACGTACAATAATTCAAGTATAGAAACGATATTAGTTTTCACCCAATCACA
23096353 TGAAAAACACATAATTAGGATGAACCA
66 TGAAAAACACATAATTAGGATGAACCA
* *
23096380 ACGTCATCTTTAGCTACGTACGATAATTCAAGTATAGAAATGATATTAGTTTTCACCCAATCACA
1 ACGTCATCTTTAGCTACGTACAATAATTCAAGTATAGAAACGATATTAGTTTTCACCCAATCACA
23096445 TGAAAAACACATAAT
66 TGAAAAACACATAAT
23096460 CATGAAAACA
Statistics
Matches: 76, Mismatches: 4, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
92 76 1.00
ACGTcount: A:0.40, C:0.19, G:0.12, T:0.29
Consensus pattern (92 bp):
ACGTCATCTTTAGCTACGTACAATAATTCAAGTATAGAAACGATATTAGTTTTCACCCAATCACA
TGAAAAACACATAATTAGGATGAACCA
Found at i:23105152 original size:30 final size:32
Alignment explanation
Indices: 23105104--23105162 Score: 86
Period size: 30 Copynumber: 1.9 Consensus size: 32
23105094 AATAGGGCCA
23105104 TATGACTGTAGCCAAGTATGAACGAGAATTTG
1 TATGACTGTAGCCAAGTATGAACGAGAATTTG
**
23105136 TATGACT-TAG-CAAGTATGCTCGAGAAT
1 TATGACTGTAGCCAAGTATGAACGAGAAT
23105163 GTATACCATC
Statistics
Matches: 25, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
30 15 0.60
31 3 0.12
32 7 0.28
ACGTcount: A:0.34, C:0.14, G:0.24, T:0.29
Consensus pattern (32 bp):
TATGACTGTAGCCAAGTATGAACGAGAATTTG
Found at i:23115107 original size:14 final size:14
Alignment explanation
Indices: 23115088--23115114 Score: 54
Period size: 14 Copynumber: 1.9 Consensus size: 14
23115078 CATTTCTTGG
23115088 TCGGTTCAGTTCAC
1 TCGGTTCAGTTCAC
23115102 TCGGTTCAGTTCA
1 TCGGTTCAGTTCA
23115115 ACTGGACCAC
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:0.15, C:0.26, G:0.22, T:0.37
Consensus pattern (14 bp):
TCGGTTCAGTTCAC
Found at i:23115185 original size:22 final size:22
Alignment explanation
Indices: 23115164--23115204 Score: 57
Period size: 22 Copynumber: 1.9 Consensus size: 22
23115154 TAACCCAAAT
*
23115164 TTAATTGGA-TATAAATTAAAA
1 TTAATTAGATTATAAATTAAAA
*
23115185 TTAATTATATTATAAATTAA
1 TTAATTAGATTATAAATTAA
23115205 TACATATAAT
Statistics
Matches: 17, Mismatches: 2, Indels: 1
0.85 0.10 0.05
Matches are distributed among these distances:
21 7 0.41
22 10 0.59
ACGTcount: A:0.51, C:0.00, G:0.05, T:0.44
Consensus pattern (22 bp):
TTAATTAGATTATAAATTAAAA
Found at i:23118658 original size:51 final size:50
Alignment explanation
Indices: 23118597--23118707 Score: 159
Period size: 51 Copynumber: 2.2 Consensus size: 50
23118587 ATAACATCCA
* * * * *
23118597 AGAATACACCTGGGCACTGAGTGCCAAGCCCGTAGGCTATACATCCCTCT
1 AGAACACACCTGAGCACTGAGTGCCAAGCCCGTAGGCTACACATCCCCCC
*
23118647 AGAAACACACCTGAGCACTGAGTGCCAAGCCTGTAGGCTACACATCCCCCC
1 AG-AACACACCTGAGCACTGAGTGCCAAGCCCGTAGGCTACACATCCCCCC
23118698 AGAACACACC
1 AGAACACACC
23118708 AGAATCTCCG
Statistics
Matches: 54, Mismatches: 6, Indels: 2
0.87 0.10 0.03
Matches are distributed among these distances:
50 10 0.19
51 44 0.81
ACGTcount: A:0.30, C:0.35, G:0.20, T:0.15
Consensus pattern (50 bp):
AGAACACACCTGAGCACTGAGTGCCAAGCCCGTAGGCTACACATCCCCCC
Found at i:23124579 original size:22 final size:20
Alignment explanation
Indices: 23124549--23124623 Score: 78
Period size: 22 Copynumber: 3.5 Consensus size: 20
23124539 AATATGAACA
*
23124549 TGATAAATTTTAATTAATTT
1 TGATTAATTTTAATTAATTT
* * *
23124569 TATAGTTAATTTTGACTAATTT
1 T-GA-TTAATTTTAATTAATTT
23124591 TGATTAATTTTATAGTTAATTT
1 TGATTAATTTTA-A-TTAATTT
23124613 TGATTAATTTT
1 TGATTAATTTT
23124624 GACTATTTTT
Statistics
Matches: 44, Mismatches: 7, Indels: 6
0.77 0.12 0.11
Matches are distributed among these distances:
20 9 0.20
21 3 0.07
22 32 0.73
ACGTcount: A:0.33, C:0.01, G:0.08, T:0.57
Consensus pattern (20 bp):
TGATTAATTTTAATTAATTT
Found at i:23124600 original size:42 final size:42
Alignment explanation
Indices: 23124549--23124635 Score: 115
Period size: 42 Copynumber: 2.1 Consensus size: 42
23124539 AATATGAACA
*
23124549 TGATAAATTTTA-A-TTAATTTTATAGTTAATTTTGACTAATTT
1 TGATAAATTTTATAGTTAATTTT-GA-TTAATTTTGACTAATTT
* *
23124591 TGATTAATTTTATAGTTAATTTTGATTAATTTTGACTATTTT
1 TGATAAATTTTATAGTTAATTTTGATTAATTTTGACTAATTT
23124633 TGA
1 TGA
23124636 CAGATTCGCA
Statistics
Matches: 40, Mismatches: 3, Indels: 4
0.85 0.06 0.09
Matches are distributed among these distances:
42 30 0.75
43 2 0.05
44 8 0.20
ACGTcount: A:0.32, C:0.02, G:0.09, T:0.56
Consensus pattern (42 bp):
TGATAAATTTTATAGTTAATTTTGATTAATTTTGACTAATTT
Found at i:23124624 original size:10 final size:10
Alignment explanation
Indices: 23124549--23124635 Score: 75
Period size: 10 Copynumber: 8.3 Consensus size: 10
23124539 AATATGAACA
*
23124549 TGATAAATTT
1 TGATTAATTT
*
23124559 TAATTAATTT
1 TGATTAATTT
*
23124569 TATAGTTAATTT
1 T-GA-TTAATTT
*
23124581 TGACTAATTT
1 TGATTAATTT
23124591 TGATTAATTT
1 TGATTAATTT
*
23124601 TATAGTTAATTT
1 T-GA-TTAATTT
23124613 TGATTAATTT
1 TGATTAATTT
* *
23124623 TGACTATTTT
1 TGATTAATTT
23124633 TGA
1 TGA
23124636 CAGATTCGCA
Statistics
Matches: 63, Mismatches: 10, Indels: 8
0.78 0.12 0.10
Matches are distributed among these distances:
10 43 0.68
11 4 0.06
12 16 0.25
ACGTcount: A:0.32, C:0.02, G:0.09, T:0.56
Consensus pattern (10 bp):
TGATTAATTT
Found at i:23124624 original size:32 final size:32
Alignment explanation
Indices: 23124549--23124625 Score: 127
Period size: 32 Copynumber: 2.4 Consensus size: 32
23124539 AATATGAACA
* *
23124549 TGATAAATTTTAATTAATTTTATAGTTAATTT
1 TGATTAATTTTGATTAATTTTATAGTTAATTT
*
23124581 TGACTAATTTTGATTAATTTTATAGTTAATTT
1 TGATTAATTTTGATTAATTTTATAGTTAATTT
23124613 TGATTAATTTTGA
1 TGATTAATTTTGA
23124626 CTATTTTTGA
Statistics
Matches: 41, Mismatches: 4, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
32 41 1.00
ACGTcount: A:0.34, C:0.01, G:0.09, T:0.56
Consensus pattern (32 bp):
TGATTAATTTTGATTAATTTTATAGTTAATTT
Found at i:23131568 original size:21 final size:21
Alignment explanation
Indices: 23131544--23131596 Score: 63
Period size: 21 Copynumber: 2.5 Consensus size: 21
23131534 GATTGTTGTA
*
23131544 GATGCTTCTGA-TTCTGGTGTG
1 GATGCATCTGACTT-TGGTGTG
* *
23131565 GATGCATCTAACTTTGTTGTG
1 GATGCATCTGACTTTGGTGTG
23131586 GATGCATCTGA
1 GATGCATCTGA
23131597 GTGTGCTAAT
Statistics
Matches: 27, Mismatches: 4, Indels: 2
0.82 0.12 0.06
Matches are distributed among these distances:
21 25 0.93
22 2 0.07
ACGTcount: A:0.17, C:0.15, G:0.28, T:0.40
Consensus pattern (21 bp):
GATGCATCTGACTTTGGTGTG
Found at i:23140175 original size:25 final size:25
Alignment explanation
Indices: 23140146--23140225 Score: 79
Period size: 25 Copynumber: 3.2 Consensus size: 25
23140136 ATAACACACA
* *
23140146 ACAAAGGTTTTCCAAAGAATTCTCC
1 ACAAAGGTGTTCCAAAGAATTCGCC
* *
23140171 ACAAAGGTGTTCCAGAGGATTCGCC
1 ACAAAGGTGTTCCAAAGAATTCGCC
** * * *
23140196 ACAAAGGCATTTCAGAGAATTTGCC
1 ACAAAGGTGTTCCAAAGAATTCGCC
23140221 ACAAA
1 ACAAA
23140226 TGCGTTTACT
Statistics
Matches: 46, Mismatches: 9, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
25 46 1.00
ACGTcount: A:0.36, C:0.23, G:0.19, T:0.23
Consensus pattern (25 bp):
ACAAAGGTGTTCCAAAGAATTCGCC
Found at i:23152913 original size:34 final size:34
Alignment explanation
Indices: 23152875--23152987 Score: 86
Period size: 34 Copynumber: 3.2 Consensus size: 34
23152865 CCTTACATGT
23152875 ATATAAAGATTTGGCCAAGCTATTTAATGTGCCA
1 ATATAAAGATTTGGCCAAGCTATTTAATGTGCCA
* * ** * ** **
23152909 ATATAAAGGTTTAG-CTTG-GATTGGTAACCTTACA
1 ATATAAAGATTTGGCCAAGCTATT--TAATGTGCCA
23152943 TGTATATAAAGATTTGGCCAAGCTATTTAATGTGCCA
1 ---ATATAAAGATTTGGCCAAGCTATTTAATGTGCCA
23152980 ATATAAAG
1 ATATAAAG
23152988 GTTTAGCTTG
Statistics
Matches: 54, Mismatches: 18, Indels: 14
0.63 0.21 0.16
Matches are distributed among these distances:
32 3 0.06
33 2 0.04
34 26 0.48
37 18 0.33
38 2 0.04
39 3 0.06
ACGTcount: A:0.35, C:0.12, G:0.19, T:0.34
Consensus pattern (34 bp):
ATATAAAGATTTGGCCAAGCTATTTAATGTGCCA
Found at i:23152957 original size:71 final size:71
Alignment explanation
Indices: 23152841--23153021 Score: 317
Period size: 71 Copynumber: 2.5 Consensus size: 71
23152831 ATTGTCGTTT
*
23152841 TAAAGGTTTAGCTTGGATTAGTAACCTTACATGTATATAAAGATTTGGCCAAGCTATTTAATGTG
1 TAAAGGTTTAGCTTGGATTGGTAACCTTACATGTATATAAAGATTTGGCCAAGCTATTTAATGTG
23152906 CCAATA
66 CCAATA
23152912 TAAAGGTTTAGCTTGGATTGGTAACCTTACATGTATATAAAGATTTGGCCAAGCTATTTAATGTG
1 TAAAGGTTTAGCTTGGATTGGTAACCTTACATGTATATAAAGATTTGGCCAAGCTATTTAATGTG
23152977 CCAATA
66 CCAATA
** * *
23152983 TAAAGGTTTAGCTTGGACAGGTAACCTGACATGAATATA
1 TAAAGGTTTAGCTTGGATTGGTAACCTTACATGTATATA
23153022 TGATCAGCTC
Statistics
Matches: 105, Mismatches: 5, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
71 105 1.00
ACGTcount: A:0.34, C:0.13, G:0.20, T:0.34
Consensus pattern (71 bp):
TAAAGGTTTAGCTTGGATTGGTAACCTTACATGTATATAAAGATTTGGCCAAGCTATTTAATGTG
CCAATA
Found at i:23165288 original size:22 final size:22
Alignment explanation
Indices: 23165263--23165317 Score: 101
Period size: 22 Copynumber: 2.5 Consensus size: 22
23165253 ATTTTATTCT
23165263 AATTGTGATTCGTTATATGATA
1 AATTGTGATTCGTTATATGATA
*
23165285 AATTGTGAATCGTTATATGATA
1 AATTGTGATTCGTTATATGATA
23165307 AATTGTGATTC
1 AATTGTGATTC
23165318 TAAATGACTA
Statistics
Matches: 31, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
22 31 1.00
ACGTcount: A:0.33, C:0.05, G:0.18, T:0.44
Consensus pattern (22 bp):
AATTGTGATTCGTTATATGATA
Found at i:23168142 original size:223 final size:224
Alignment explanation
Indices: 23167754--23168203 Score: 893
Period size: 223 Copynumber: 2.0 Consensus size: 224
23167744 ATATGAGAAG
23167754 AAAATAAACCTAATAGGCTTTAAAAGTTCGTTCTCTTTTGTAATTTTATTTTCAAATTTTATATA
1 AAAATAAACCTAATAGGCTTTAAAAGTTCGTTCTCTTTTGTAATTTTATTTTCAAATTTTATATA
23167819 TTCTTTCAATAATTTTTTTTAGAAACCTTAAGTAACTATTCAAATTTTTCTCAAAAGATGCATGG
66 TTCTTTCAATAATTTTTTTTAGAAACCTTAAGTAACTATTCAAATTTTTCTCAAAAGATGCATGG
23167884 ATTAGTAAAAAAATTTATTTTTGAAAAATTATATATAAAGTTTATATATTATCTTTTGAATAATT
131 ATTAGTAAAAAAATTTATTTTTGAAAAATTATATATAAAGTTTATATATTATCTTTTGAATAATT
23167949 TAAATTATAATGATAA-TTTATACATTAA
196 TAAATTATAATGATAATTTTATACATTAA
23167977 AAAATAAACCTAATAGGCTTTAAAAGTTCGTTCTCTTTTGTAATTTTATTTTCAAATTTTATATA
1 AAAATAAACCTAATAGGCTTTAAAAGTTCGTTCTCTTTTGTAATTTTATTTTCAAATTTTATATA
23168042 TTCTTTCAATAATTTTTTTTAGAAACCTTAAGTAACTATTCAAATTTTTCTCAAAAGATGCATGG
66 TTCTTTCAATAATTTTTTTTAGAAACCTTAAGTAACTATTCAAATTTTTCTCAAAAGATGCATGG
23168107 ATTAGTAAAAAAATTTATTTTTGAAAAATTATATATAAAGTTTATATATTATCTTTTGAATAATT
131 ATTAGTAAAAAAATTTATTTTTGAAAAATTATATATAAAGTTTATATATTATCTTTTGAATAATT
23168172 TAAATTATAATGATAATTTTATACATTAA
196 TAAATTATAATGATAATTTTATACATTAA
23168201 AAA
1 AAA
23168204 TTAATATATT
Statistics
Matches: 226, Mismatches: 0, Indels: 1
1.00 0.00 0.00
Matches are distributed among these distances:
223 211 0.93
224 15 0.07
ACGTcount: A:0.40, C:0.08, G:0.07, T:0.45
Consensus pattern (224 bp):
AAAATAAACCTAATAGGCTTTAAAAGTTCGTTCTCTTTTGTAATTTTATTTTCAAATTTTATATA
TTCTTTCAATAATTTTTTTTAGAAACCTTAAGTAACTATTCAAATTTTTCTCAAAAGATGCATGG
ATTAGTAAAAAAATTTATTTTTGAAAAATTATATATAAAGTTTATATATTATCTTTTGAATAATT
TAAATTATAATGATAATTTTATACATTAA
Found at i:23177057 original size:5 final size:5
Alignment explanation
Indices: 23177047--23177076 Score: 60
Period size: 5 Copynumber: 6.0 Consensus size: 5
23177037 ATTTATAATG
23177047 ATAAA ATAAA ATAAA ATAAA ATAAA ATAAA
1 ATAAA ATAAA ATAAA ATAAA ATAAA ATAAA
23177077 GTTCAAGAGA
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):
ATAAA
Found at i:23179700 original size:29 final size:29
Alignment explanation
Indices: 23179663--23179723 Score: 86
Period size: 29 Copynumber: 2.1 Consensus size: 29
23179653 ACGGCTTGGG
23179663 ACACAGGCTATCACACGGCCATGTGTCAC
1 ACACAGGCTATCACACGGCCATGTGTCAC
* * * *
23179692 ACACGGGCTGTTACACGGTCATGTGTCAC
1 ACACAGGCTATCACACGGCCATGTGTCAC
23179721 ACA
1 ACA
23179724 TGGGTAGCCC
Statistics
Matches: 28, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
29 28 1.00
ACGTcount: A:0.26, C:0.31, G:0.23, T:0.20
Consensus pattern (29 bp):
ACACAGGCTATCACACGGCCATGTGTCAC
Found at i:23179881 original size:19 final size:20
Alignment explanation
Indices: 23179859--23179934 Score: 63
Period size: 19 Copynumber: 4.0 Consensus size: 20
23179849 GCACACAGGC
23179859 GTGTGAGG-TAGCCACACAG
1 GTGTGAGGATAGCCACACAG
*
23179878 GTGT-AGGATAGCCACACAACC
1 GTGTGAGGATAGCCACAC-A-G
* **
23179899 ATGTTTGG--AGCCACACAG
1 GTGTGAGGATAGCCACACAG
23179917 GTGTG-GGATAGCCACACA
1 GTGTGAGGATAGCCACACA
23179935 ACCAAGTATT
Statistics
Matches: 45, Mismatches: 6, Indels: 12
0.71 0.10 0.19
Matches are distributed among these distances:
17 2 0.04
18 6 0.13
19 23 0.51
20 9 0.20
21 3 0.07
22 2 0.04
ACGTcount: A:0.29, C:0.24, G:0.30, T:0.17
Consensus pattern (20 bp):
GTGTGAGGATAGCCACACAG
Found at i:23185116 original size:16 final size:15
Alignment explanation
Indices: 23185093--23185126 Score: 59
Period size: 16 Copynumber: 2.2 Consensus size: 15
23185083 GTAAATGGCA
23185093 AAATAGTAATTAAAC
1 AAATAGTAATTAAAC
23185108 AAATAAGTAATTAAAC
1 AAAT-AGTAATTAAAC
23185124 AAA
1 AAA
23185127 AAGATAAAAA
Statistics
Matches: 18, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
15 4 0.22
16 14 0.78
ACGTcount: A:0.65, C:0.06, G:0.06, T:0.24
Consensus pattern (15 bp):
AAATAGTAATTAAAC
Found at i:23186387 original size:21 final size:21
Alignment explanation
Indices: 23186358--23186423 Score: 87
Period size: 21 Copynumber: 3.1 Consensus size: 21
23186348 CAGTTTCTCC
23186358 CCCTCGTTCTTGCTGGTTTCT
1 CCCTCGTTCTTGCTGGTTTCT
* * *
23186379 CCCTTGTTCTTACTGGTTTAT
1 CCCTCGTTCTTGCTGGTTTCT
* *
23186400 CCCTCGTTTTTGCTAGTTTCT
1 CCCTCGTTCTTGCTGGTTTCT
23186421 CCC
1 CCC
23186424 CTATTTTTTG
Statistics
Matches: 37, Mismatches: 8, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
21 37 1.00
ACGTcount: A:0.05, C:0.32, G:0.15, T:0.48
Consensus pattern (21 bp):
CCCTCGTTCTTGCTGGTTTCT
Found at i:23189451 original size:17 final size:17
Alignment explanation
Indices: 23189426--23189460 Score: 61
Period size: 17 Copynumber: 2.1 Consensus size: 17
23189416 TGGGACTTTG
*
23189426 ATCGGTGGAAGAGGGGA
1 ATCGATGGAAGAGGGGA
23189443 ATCGATGGAAGAGGGGA
1 ATCGATGGAAGAGGGGA
23189460 A
1 A
23189461 ATGGGAATGG
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
17 17 1.00
ACGTcount: A:0.34, C:0.06, G:0.49, T:0.11
Consensus pattern (17 bp):
ATCGATGGAAGAGGGGA
Found at i:23189630 original size:29 final size:29
Alignment explanation
Indices: 23189548--23189704 Score: 251
Period size: 30 Copynumber: 5.2 Consensus size: 29
23189538 CATTGTATTT
23189548 GTGTATTTTAAAAATAAAGAAATATATGTA
1 GTGTATTTTAAAAATAAA-AAATATATGTA
23189578 GTGTATTTTAAAAATAAAAAAATATATGTA
1 GTGTATTTTAAAAAT-AAAAAATATATGTA
23189608 GTGTATTTTAAAAATAAAAAATATATGTA
1 GTGTATTTTAAAAATAAAAAATATATGTA
23189637 GTGTATTTTAAAAATAAAAATATATATGTA
1 GTGTATTTTAAAAATAAAAA-ATATATGTA
* *
23189667 GTTTATTTGAAAAATAAAAAATATATATGTA
1 GTGTATTTTAAAAAT-AAAAA-ATATATGTA
23189698 GTGTATT
1 GTGTATT
23189705 CGGTTTATTC
Statistics
Matches: 121, Mismatches: 3, Indels: 5
0.94 0.02 0.04
Matches are distributed among these distances:
29 34 0.28
30 63 0.52
31 24 0.20
ACGTcount: A:0.50, C:0.00, G:0.11, T:0.39
Consensus pattern (29 bp):
GTGTATTTTAAAAATAAAAAATATATGTA
Found at i:23189643 original size:59 final size:59
Alignment explanation
Indices: 23189548--23189704 Score: 260
Period size: 59 Copynumber: 2.6 Consensus size: 59
23189538 CATTGTATTT
23189548 GTGTATTTTAAAAATAAAGAAATATATGTAGTGTATTTTAAAAATAAAAAAATATATGTA
1 GTGTATTTTAAAAATAAA-AAATATATGTAGTGTATTTTAAAAATAAAAAAATATATGTA
*
23189608 GTGTATTTTAAAAATAAAAAATATATGTAGTGTATTTTAAAAATAAAAATATATATGTA
1 GTGTATTTTAAAAATAAAAAATATATGTAGTGTATTTTAAAAATAAAAAAATATATGTA
* *
23189667 GTTTATTTGAAAAATAAAAAATATATATGTAGTGTATT
1 GTGTATTTTAAAAAT-AAAAA-ATATATGTAGTGTATT
23189705 CGGTTTATTC
Statistics
Matches: 92, Mismatches: 3, Indels: 3
0.94 0.03 0.03
Matches are distributed among these distances:
59 53 0.58
60 23 0.25
61 16 0.17
ACGTcount: A:0.50, C:0.00, G:0.11, T:0.39
Consensus pattern (59 bp):
GTGTATTTTAAAAATAAAAAATATATGTAGTGTATTTTAAAAATAAAAAAATATATGTA
Found at i:23190059 original size:39 final size:39
Alignment explanation
Indices: 23190016--23190096 Score: 153
Period size: 39 Copynumber: 2.1 Consensus size: 39
23190006 CCTAAAGTGA
*
23190016 AAAGAAAACAATAGTTTAAGTAAAGCTTTAAAGATGAAC
1 AAAGAAAACAATAGTTCAAGTAAAGCTTTAAAGATGAAC
23190055 AAAGAAAACAATAGTTCAAGTAAAGCTTTAAAGATGAAC
1 AAAGAAAACAATAGTTCAAGTAAAGCTTTAAAGATGAAC
23190094 AAA
1 AAA
23190097 TCGATTGCAT
Statistics
Matches: 41, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
39 41 1.00
ACGTcount: A:0.56, C:0.09, G:0.15, T:0.21
Consensus pattern (39 bp):
AAAGAAAACAATAGTTCAAGTAAAGCTTTAAAGATGAAC
Found at i:23193405 original size:21 final size:21
Alignment explanation
Indices: 23193358--23193412 Score: 74
Period size: 21 Copynumber: 2.6 Consensus size: 21
23193348 ACCATTGTTT
** *
23193358 CTAATCTCACCGCTACAGTAT
1 CTAATCTCACCGCTACAACAA
*
23193379 CCAATCTCACCGCTACAACAA
1 CTAATCTCACCGCTACAACAA
23193400 CTAATCTCACCGC
1 CTAATCTCACCGC
23193413 CACTACTATT
Statistics
Matches: 29, Mismatches: 5, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
21 29 1.00
ACGTcount: A:0.31, C:0.40, G:0.07, T:0.22
Consensus pattern (21 bp):
CTAATCTCACCGCTACAACAA
Found at i:23210000 original size:18 final size:18
Alignment explanation
Indices: 23209954--23210011 Score: 64
Period size: 18 Copynumber: 3.2 Consensus size: 18
23209944 ACAGGTGTAT
* *
23209954 GAAGAACAAGAAGAAAAA
1 GAAGAAGAAGAAGATAAA
23209972 GAAGAAGAAGAAGATAAA
1 GAAGAAGAAGAAGATAAA
* *
23209990 GGA-AAGAAAGAAGATGAA
1 GAAGAAG-AAGAAGATAAA
23210008 GAAG
1 GAAG
23210012 GAAAATAAGC
Statistics
Matches: 33, Mismatches: 5, Indels: 3
0.80 0.12 0.07
Matches are distributed among these distances:
17 3 0.09
18 30 0.91
ACGTcount: A:0.66, C:0.02, G:0.29, T:0.03
Consensus pattern (18 bp):
GAAGAAGAAGAAGATAAA
Found at i:23215620 original size:25 final size:26
Alignment explanation
Indices: 23215572--23215625 Score: 65
Period size: 25 Copynumber: 2.1 Consensus size: 26
23215562 CATAATTGAA
* * *
23215572 ATGAAATGGATTGATTTTGTATAT-T
1 ATGAAATAGATTGATTATGAATATAT
*
23215597 ATGAAATATATTGATTATGAATATAT
1 ATGAAATAGATTGATTATGAATATAT
23215623 ATG
1 ATG
23215626 TATTAAGAAA
Statistics
Matches: 24, Mismatches: 4, Indels: 1
0.83 0.14 0.03
Matches are distributed among these distances:
25 20 0.83
26 4 0.17
ACGTcount: A:0.39, C:0.00, G:0.17, T:0.44
Consensus pattern (26 bp):
ATGAAATAGATTGATTATGAATATAT
Found at i:23215630 original size:17 final size:15
Alignment explanation
Indices: 23215593--23215635 Score: 50
Period size: 17 Copynumber: 2.7 Consensus size: 15
23215583 TGATTTTGTA
23215593 TATTATGAAATATAT
1 TATTATGAAATATAT
23215608 TGATTATGAATATATAT
1 T-ATTATGAA-ATATAT
*
23215625 GTATTAAGAAA
1 -TATTATGAAA
23215636 AATGTGATGA
Statistics
Matches: 24, Mismatches: 1, Indels: 5
0.80 0.03 0.17
Matches are distributed among these distances:
15 1 0.04
16 9 0.38
17 13 0.54
18 1 0.04
ACGTcount: A:0.47, C:0.00, G:0.12, T:0.42
Consensus pattern (15 bp):
TATTATGAAATATAT
Found at i:23219157 original size:43 final size:41
Alignment explanation
Indices: 23219095--23219176 Score: 119
Period size: 43 Copynumber: 2.0 Consensus size: 41
23219085 TTTATCCTAG
* *
23219095 AAAAAAATTAAAAAGAGGAGAAGATAATCTTGGGTTGTTTA
1 AAAAAAATTAAAAAGAGGAGAAGATAAACATGGGTTGTTTA
*
23219136 AAAAAGAATTTAAAAATAGGAGAAGATAAACATGGGTTGTT
1 AAAAA-AA-TTAAAAAGAGGAGAAGATAAACATGGGTTGTT
23219177 GGATATACCT
Statistics
Matches: 36, Mismatches: 3, Indels: 2
0.88 0.07 0.05
Matches are distributed among these distances:
41 5 0.14
42 2 0.06
43 29 0.81
ACGTcount: A:0.50, C:0.02, G:0.22, T:0.26
Consensus pattern (41 bp):
AAAAAAATTAAAAAGAGGAGAAGATAAACATGGGTTGTTTA
Found at i:23222088 original size:43 final size:43
Alignment explanation
Indices: 23222027--23222111 Score: 134
Period size: 43 Copynumber: 2.0 Consensus size: 43
23222017 TTTATCCTAG
* * *
23222027 AAAAAATAATTTAAAAAGAGGAGAAGATAATCTTGGGTTGTTC
1 AAAAAAGAATTTAAAAAGAGGAGAAGATAAACATGGGTTGTTC
*
23222070 AAAAAAGAATTTAAAAAGAGGAGAATATAAACATGGGTTGTT
1 AAAAAAGAATTTAAAAAGAGGAGAAGATAAACATGGGTTGTT
23222112 GGATTTACCC
Statistics
Matches: 38, Mismatches: 4, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
43 38 1.00
ACGTcount: A:0.49, C:0.04, G:0.21, T:0.26
Consensus pattern (43 bp):
AAAAAAGAATTTAAAAAGAGGAGAAGATAAACATGGGTTGTTC
Found at i:23232806 original size:19 final size:19
Alignment explanation
Indices: 23232782--23232835 Score: 99
Period size: 19 Copynumber: 2.8 Consensus size: 19
23232772 NNNNNNNNNN
23232782 TCTAAGATTGCATATCATA
1 TCTAAGATTGCATATCATA
*
23232801 TCTAAGATTACATATCATA
1 TCTAAGATTGCATATCATA
23232820 TCTAAGATTGCATATC
1 TCTAAGATTGCATATC
23232836 CTTGAATATT
Statistics
Matches: 33, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
19 33 1.00
ACGTcount: A:0.37, C:0.17, G:0.09, T:0.37
Consensus pattern (19 bp):
TCTAAGATTGCATATCATA
Found at i:23233679 original size:32 final size:31
Alignment explanation
Indices: 23233637--23233722 Score: 109
Period size: 32 Copynumber: 2.7 Consensus size: 31
23233627 AACATGACCA
23233637 TGTGGCCCACACGGCCCAAATATCCCAAATCG
1 TGTGGCCCACAC-GCCCAAATATCCCAAATCG
* ** *
23233669 TGTGGTCCACACATCCAGAATATCCCAGATCG
1 TGTGGCCCACACGCCCA-AATATCCCAAATCG
23233701 TGTGGCCCACACAGCCCAAATA
1 TGTGGCCCACAC-GCCCAAATA
23233723 GCCTAGACCG
Statistics
Matches: 45, Mismatches: 7, Indels: 4
0.80 0.12 0.07
Matches are distributed among these distances:
31 3 0.07
32 39 0.87
33 3 0.07
ACGTcount: A:0.29, C:0.35, G:0.19, T:0.17
Consensus pattern (31 bp):
TGTGGCCCACACGCCCAAATATCCCAAATCG
Found at i:23239565 original size:3 final size:3
Alignment explanation
Indices: 23239557--23239584 Score: 56
Period size: 3 Copynumber: 9.3 Consensus size: 3
23239547 CAAGGGTTTT
23239557 ATA ATA ATA ATA ATA ATA ATA ATA ATA A
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA A
23239585 AAGCTATTTA
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 25 1.00
ACGTcount: A:0.68, C:0.00, G:0.00, T:0.32
Consensus pattern (3 bp):
ATA
Found at i:23240123 original size:18 final size:18
Alignment explanation
Indices: 23240100--23240134 Score: 61
Period size: 18 Copynumber: 1.9 Consensus size: 18
23240090 TATTTAAAAT
23240100 ATTTTTTAATAATTTTAC
1 ATTTTTTAATAATTTTAC
*
23240118 ATTTTTTTATAATTTTA
1 ATTTTTTAATAATTTTA
23240135 AAATTATTTT
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
18 16 1.00
ACGTcount: A:0.31, C:0.03, G:0.00, T:0.66
Consensus pattern (18 bp):
ATTTTTTAATAATTTTAC
Found at i:23240144 original size:19 final size:20
Alignment explanation
Indices: 23240087--23240145 Score: 68
Period size: 19 Copynumber: 2.9 Consensus size: 20
23240077 TTTTTCAACC
23240087 TAATATTTAAAATATTTTTTAA
1 TAAT-TTTAAAAT-TTTTTTAA
*
23240109 TAATTTT-ACATTTTTTT-A
1 TAATTTTAAAATTTTTTTAA
23240127 TAATTTTAAAATTATTTTT
1 TAATTTTAAAATT-TTTTT
23240146 TTAATTTTTT
Statistics
Matches: 33, Mismatches: 2, Indels: 6
0.80 0.05 0.15
Matches are distributed among these distances:
18 8 0.24
19 10 0.30
20 8 0.24
21 3 0.09
22 4 0.12
ACGTcount: A:0.37, C:0.02, G:0.00, T:0.61
Consensus pattern (20 bp):
TAATTTTAAAATTTTTTTAA
Found at i:23240721 original size:3 final size:3
Alignment explanation
Indices: 23240713--23240748 Score: 72
Period size: 3 Copynumber: 12.0 Consensus size: 3
23240703 NNNNNNNNNN
23240713 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA
1 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA
23240749 AAGCTATTTA
Statistics
Matches: 33, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 33 1.00
ACGTcount: A:0.67, C:0.00, G:0.00, T:0.33
Consensus pattern (3 bp):
TAA
Found at i:23243056 original size:106 final size:106
Alignment explanation
Indices: 23242871--23243188 Score: 582
Period size: 106 Copynumber: 3.0 Consensus size: 106
23242861 CATACGTAAT
* *
23242871 TTGCAACCTGCAAGTTAGTGGCAATGGTTTATCTTCCTGGAATGCAAGGGGTAAGAACAACAAAT
1 TTGCAACCTGCAAGTTAGTGGCAACGGTTCATCTTCCTGGAATGCAAGGGGTAAGAACAACAAAT
23242936 AGAAAAATGACGAGCAAGAATAATTTAAAATCATGCAATGG
66 AGAAAAATGACGAGCAAGAATAATTTAAAATCATGCAATGG
23242977 TTGCAACCTGCAAGTTAGTGGCAACGGTTCATCTTCCTGGAATGCAAGGGGTAAGAACAACAAAT
1 TTGCAACCTGCAAGTTAGTGGCAACGGTTCATCTTCCTGGAATGCAAGGGGTAAGAACAACAAAT
23243042 AGAAAAATGACGAGCAAGAATAATTTAAAATCATGCAATGG
66 AGAAAAATGACGAGCAAGAATAATTTAAAATCATGCAATGG
23243083 TTGCAACCTGCAAGTTAGTGGCAACGGTTCATCTTCCTGGAATGCAAGGGGTAAGAACAACAAAT
1 TTGCAACCTGCAAGTTAGTGGCAACGGTTCATCTTCCTGGAATGCAAGGGGTAAGAACAACAAAT
* * * *
23243148 AGAAAAACGACAAGCAAGAATCATATAAAATCATGCAATGG
66 AGAAAAATGACGAGCAAGAATAATTTAAAATCATGCAATGG
23243189 CAAATGTGAT
Statistics
Matches: 206, Mismatches: 6, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
106 206 1.00
ACGTcount: A:0.40, C:0.16, G:0.22, T:0.22
Consensus pattern (106 bp):
TTGCAACCTGCAAGTTAGTGGCAACGGTTCATCTTCCTGGAATGCAAGGGGTAAGAACAACAAAT
AGAAAAATGACGAGCAAGAATAATTTAAAATCATGCAATGG
Found at i:23246941 original size:97 final size:95
Alignment explanation
Indices: 23246788--23246980 Score: 343
Period size: 97 Copynumber: 2.0 Consensus size: 95
23246778 TGAGCAGACA
23246788 CTAGCTCATATTGGAGAAGTAAAGTTTCAGTAAAAAAATGAAAAATTAAAGATTCTTAAAGTAGC
1 CTAGCTCATATTGGAGAAGTAAAGTTTCAGTAAAAAAATGAAAAATTAAAGATTCTTAAAGTAGC
23246853 AAAAAAAGGAAATCCTACAGAAATAGGGCC
66 AAAAAAAGGAAATCCTACAGAAATAGGGCC
*
23246883 CTAGCTCATATTGGAGGAGAGGTAAAGTTTCAGT-AAAAAATGAAAAATTGAAGATTCTTAAAGT
1 CTAGCTCATATTGGA-GA-A-GTAAAGTTTCAGTAAAAAAATGAAAAATTAAAGATTCTTAAAGT
23246947 AGCAAAAAAAGGAAATCCTACAGAAATAGGGCC
63 AGCAAAAAAAGGAAATCCTACAGAAATAGGGCC
23246980 C
1 C
23246981 CCTAAAAACA
Statistics
Matches: 94, Mismatches: 1, Indels: 4
0.95 0.01 0.04
Matches are distributed among these distances:
95 15 0.16
96 2 0.02
97 64 0.68
98 13 0.14
ACGTcount: A:0.47, C:0.12, G:0.20, T:0.22
Consensus pattern (95 bp):
CTAGCTCATATTGGAGAAGTAAAGTTTCAGTAAAAAAATGAAAAATTAAAGATTCTTAAAGTAGC
AAAAAAAGGAAATCCTACAGAAATAGGGCC
Found at i:23251703 original size:196 final size:194
Alignment explanation
Indices: 23251369--23251759 Score: 554
Period size: 196 Copynumber: 2.0 Consensus size: 194
23251359 TACAACCACC
*
23251369 CTAGAGAAAATTAATAAAATGCAGAACAAAAGCACAAACCAAATAAGCAACAAAAACTTAAAATG
1 CTAGAGAAAATTAATAAAATGCAGAACAAAAGCACAAACCAAATAAACAACAAAAACTTAAAATG
* *
23251434 CAGAAGTTTAATGCACTTCATTATCTTATGACTTAAGAGAAGGGGGACTTCTAATAAATTGTACC
66 CAGAAGTTTAATGCACTTCATTATCTTATGACTTAAGAAAAAGGGGACTTCTAATAAATTGTACC
* * *
23251499 AACAGATTCACATTTCAAAAAGGATCAATTTAC-AGGATTAG-CCTTTGGATAGAAGATTAAGCT
131 AACAGATTCACATTTCAAAAAGGATCAATTTACTAGAATT-GCCCCTTGAATAGAAGATTAAGCT
* * ** *
23251562 CTAGAGAGAATTAATAAAATGTAGAACAACAAAAGTGCAAACCAAATAAACGAA-AAAAACTTGA
1 CTAGAGAAAATTAATAAAATGCAG---AACAAAAGCACAAACCAAATAAAC-AACAAAAACTTAA
* * *
23251626 TATTCAGAAGTTTAATGTACTTCATTATCTTATGACTTAAGAAAAAGGGGACTTCTAATAAATTG
62 AATGCAGAAGTTTAATGCACTTCATTATCTTATGACTTAAGAAAAAGGGGACTTCTAATAAATTG
*** *
23251691 TACGTCCAGATTCACATTTCAAAAAGGATCAATTTACTTGAATTGCCCCTTGAATAGAAGATTAA
127 TACCAACAGATTCACATTTCAAAAAGGATCAATTTACTAGAATTGCCCCTTGAATAGAAGATTAA
23251756 GCT
192 GCT
23251759 C
1 C
23251760 CATAGTTGCA
Statistics
Matches: 174, Mismatches: 18, Indels: 8
0.87 0.09 0.04
Matches are distributed among these distances:
193 22 0.13
196 125 0.72
197 27 0.16
ACGTcount: A:0.44, C:0.15, G:0.15, T:0.26
Consensus pattern (194 bp):
CTAGAGAAAATTAATAAAATGCAGAACAAAAGCACAAACCAAATAAACAACAAAAACTTAAAATG
CAGAAGTTTAATGCACTTCATTATCTTATGACTTAAGAAAAAGGGGACTTCTAATAAATTGTACC
AACAGATTCACATTTCAAAAAGGATCAATTTACTAGAATTGCCCCTTGAATAGAAGATTAAGCT
Found at i:23252998 original size:35 final size:36
Alignment explanation
Indices: 23252959--23253028 Score: 106
Period size: 36 Copynumber: 2.0 Consensus size: 36
23252949 CTAGGGATTT
23252959 GGACTACCACTTAAG-GCCATAATTAGAGAGGTAAC
1 GGACTACCACTTAAGAGCCATAATTAGAGAGGTAAC
* * *
23252994 GGACTACCACTTAAGAGCCGTGATTAGGGAGGTAA
1 GGACTACCACTTAAGAGCCATAATTAGAGAGGTAA
23253029 TGGAGTTTAA
Statistics
Matches: 31, Mismatches: 3, Indels: 1
0.89 0.09 0.03
Matches are distributed among these distances:
35 15 0.48
36 16 0.52
ACGTcount: A:0.34, C:0.19, G:0.27, T:0.20
Consensus pattern (36 bp):
GGACTACCACTTAAGAGCCATAATTAGAGAGGTAAC
Found at i:23257608 original size:16 final size:16
Alignment explanation
Indices: 23257587--23257656 Score: 95
Period size: 16 Copynumber: 4.4 Consensus size: 16
23257577 TTTGGTTCGC
*
23257587 TGTAATGAAATGGAGG
1 TGTAATGAAATAGAGG
*
23257603 TGTAATGGAATAGAGG
1 TGTAATGAAATAGAGG
* *
23257619 TGTAATGGAATAGAGC
1 TGTAATGAAATAGAGG
23257635 TGTAATGAAATAGAGG
1 TGTAATGAAATAGAGG
*
23257651 CGTAAT
1 TGTAAT
23257657 AGTAATTCAA
Statistics
Matches: 48, Mismatches: 6, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
16 48 1.00
ACGTcount: A:0.39, C:0.03, G:0.33, T:0.26
Consensus pattern (16 bp):
TGTAATGAAATAGAGG
Found at i:23261390 original size:21 final size:18
Alignment explanation
Indices: 23261345--23261403 Score: 100
Period size: 18 Copynumber: 3.3 Consensus size: 18
23261335 ATGCTAACTC
*
23261345 ATGTTATTCTGCGAACCT
1 ATGTTATTATGCGAACCT
23261363 ATGTTATTATGCGAACCT
1 ATGTTATTATGCGAACCT
*
23261381 ATGTTATTATGCGAACCC
1 ATGTTATTATGCGAACCT
23261399 ATGTT
1 ATGTT
23261404 GTATGTTATC
Statistics
Matches: 39, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
18 39 1.00
ACGTcount: A:0.25, C:0.19, G:0.17, T:0.39
Consensus pattern (18 bp):
ATGTTATTATGCGAACCT
Found at i:23261408 original size:25 final size:25
Alignment explanation
Indices: 23261380--23261430 Score: 66
Period size: 25 Copynumber: 2.0 Consensus size: 25
23261370 TATGCGAACC
* *
23261380 TATGTTATTATGCGAACCCATGTTG
1 TATGTTATCACGCGAACCCATGTTG
* *
23261405 TATGTTATCACGTGAACCTATGTTG
1 TATGTTATCACGCGAACCCATGTTG
23261430 T
1 T
23261431 TGTGCAAACT
Statistics
Matches: 22, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
25 22 1.00
ACGTcount: A:0.24, C:0.16, G:0.20, T:0.41
Consensus pattern (25 bp):
TATGTTATCACGCGAACCCATGTTG
Found at i:23261839 original size:20 final size:20
Alignment explanation
Indices: 23261779--23261840 Score: 72
Period size: 20 Copynumber: 3.1 Consensus size: 20
23261769 GGGCATCTAA
* *
23261779 TTGCACATTTGTGCCTCTGC
1 TTGCACATTCGTGCCTCTGT
* *
23261799 TTGCACATTCATGCCTTTGT
1 TTGCACATTCGTGCCTCTGT
23261819 TTGCAC-TTCGGTGCCTCTGT
1 TTGCACATTC-GTGCCTCTGT
23261839 TT
1 TT
23261841 AACATTTCGA
Statistics
Matches: 35, Mismatches: 6, Indels: 2
0.81 0.14 0.05
Matches are distributed among these distances:
19 3 0.09
20 32 0.91
ACGTcount: A:0.10, C:0.27, G:0.19, T:0.44
Consensus pattern (20 bp):
TTGCACATTCGTGCCTCTGT
Found at i:23262165 original size:45 final size:44
Alignment explanation
Indices: 23262080--23262245 Score: 173
Period size: 43 Copynumber: 3.8 Consensus size: 44
23262070 TAAAATATAT
* * * *
23262080 GATGATGCACTGTG--TGTGCCAATATATTTGCTTTGGTTTATCC
1 GATGATGCACTGTGTATGTGCCAGTATAGTTGC-TTCGTTTATTC
*
23262123 AATGATGCACTGTGTATGTGCCAGTATAGTTGCTTCGATTTATTC
1 GATGATGCACTGTGTATGTGCCAGTATAGTTGCTTCG-TTTATTC
*
23262168 GATGATGCA-T-TGTATGTGTCAGTATAGTTGCTTCTGTTTATTC
1 GATGATGCACTGTGTATGTGCCAGTATAGTTGCTTC-GTTTATTC
* * * *
23262211 GATGATGCAC-AT-TATGTGCTAGTATAATTACTTCG
1 GATGATGCACTGTGTATGTGCCAGTATAGTTGCTTCG
23262246 GTTTTACCCG
Statistics
Matches: 106, Mismatches: 11, Indels: 13
0.82 0.08 0.10
Matches are distributed among these distances:
42 1 0.01
43 70 0.66
44 6 0.06
45 29 0.27
ACGTcount: A:0.22, C:0.14, G:0.22, T:0.42
Consensus pattern (44 bp):
GATGATGCACTGTGTATGTGCCAGTATAGTTGCTTCGTTTATTC
Found at i:23268150 original size:18 final size:19
Alignment explanation
Indices: 23268114--23268150 Score: 67
Period size: 19 Copynumber: 2.0 Consensus size: 19
23268104 AAATGCAAAA
23268114 TTGGTATCAATATAAATTT
1 TTGGTATCAATATAAATTT
23268133 TTGGTATCAATA-AAATTT
1 TTGGTATCAATATAAATTT
23268151 AATTAGTATC
Statistics
Matches: 18, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
18 6 0.33
19 12 0.67
ACGTcount: A:0.38, C:0.05, G:0.11, T:0.46
Consensus pattern (19 bp):
TTGGTATCAATATAAATTT
Found at i:23268564 original size:22 final size:22
Alignment explanation
Indices: 23268539--23268585 Score: 76
Period size: 22 Copynumber: 2.1 Consensus size: 22
23268529 TAGTTCAATA
*
23268539 GAACAGTAAAATTCTCTTGCAT
1 GAACAGTAAAATTCTCTGGCAT
*
23268561 GAACAGTGAAATTCTCTGGCAT
1 GAACAGTAAAATTCTCTGGCAT
23268583 GAA
1 GAA
23268586 TAGAGAAGAT
Statistics
Matches: 23, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
22 23 1.00
ACGTcount: A:0.36, C:0.17, G:0.19, T:0.28
Consensus pattern (22 bp):
GAACAGTAAAATTCTCTGGCAT
Found at i:23268600 original size:23 final size:22
Alignment explanation
Indices: 23268549--23268643 Score: 111
Period size: 23 Copynumber: 4.2 Consensus size: 22
23268539 GAACAGTAAA
*
23268549 ATTCTCTTGCATGAACAGTGAA-
1 ATTCTC-TGCATGAATAGTGAAG
*
23268571 ATTCTCTGGCATGAATAGAGAAG
1 ATTCTCT-GCATGAATAGTGAAG
23268594 ATTCTCTGCAATGAATAGTGAAG
1 ATTCTCTGC-ATGAATAGTGAAG
* *
23268617 ATTCTCTACAATGGATAGTGAAG
1 ATTCTCTGC-ATGAATAGTGAAG
23268640 ATTC
1 ATTC
23268644 CTTGAAAAAA
Statistics
Matches: 65, Mismatches: 5, Indels: 5
0.87 0.07 0.07
Matches are distributed among these distances:
21 1 0.02
22 20 0.31
23 44 0.68
ACGTcount: A:0.34, C:0.15, G:0.21, T:0.31
Consensus pattern (22 bp):
ATTCTCTGCATGAATAGTGAAG
Found at i:23278546 original size:45 final size:45
Alignment explanation
Indices: 23278482--23278571 Score: 171
Period size: 45 Copynumber: 2.0 Consensus size: 45
23278472 CTCTAGAGTT
23278482 AGATTGTATTCATGATGTGTTTCACGTCTCTATGTTGAGATAGTA
1 AGATTGTATTCATGATGTGTTTCACGTCTCTATGTTGAGATAGTA
*
23278527 AGATTGTATTCATGATGTGTTTCACGTCTCTATGTTGAGGTAGTA
1 AGATTGTATTCATGATGTGTTTCACGTCTCTATGTTGAGATAGTA
23278572 CCAGTCAGAC
Statistics
Matches: 44, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
45 44 1.00
ACGTcount: A:0.23, C:0.11, G:0.23, T:0.42
Consensus pattern (45 bp):
AGATTGTATTCATGATGTGTTTCACGTCTCTATGTTGAGATAGTA
Found at i:23285497 original size:7 final size:7
Alignment explanation
Indices: 23285485--23285510 Score: 52
Period size: 7 Copynumber: 3.7 Consensus size: 7
23285475 TTCATTAAAT
23285485 ATTTAAC
1 ATTTAAC
23285492 ATTTAAC
1 ATTTAAC
23285499 ATTTAAC
1 ATTTAAC
23285506 ATTTA
1 ATTTA
23285511 CTAATATCTT
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 19 1.00
ACGTcount: A:0.42, C:0.12, G:0.00, T:0.46
Consensus pattern (7 bp):
ATTTAAC
Found at i:23301103 original size:20 final size:20
Alignment explanation
Indices: 23301080--23301125 Score: 56
Period size: 20 Copynumber: 2.3 Consensus size: 20
23301070 TAGAGAGCCT
* **
23301080 GCACTGGTATATGCGGCTAG
1 GCACCGGTATATGCAACTAG
*
23301100 GCACCGGTATCTGCAACTAG
1 GCACCGGTATATGCAACTAG
23301120 GCACCG
1 GCACCG
23301126 TGAGGACAAA
Statistics
Matches: 22, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
20 22 1.00
ACGTcount: A:0.22, C:0.28, G:0.30, T:0.20
Consensus pattern (20 bp):
GCACCGGTATATGCAACTAG
Found at i:23305172 original size:16 final size:16
Alignment explanation
Indices: 23305148--23305185 Score: 58
Period size: 16 Copynumber: 2.4 Consensus size: 16
23305138 TTCAAGTTTT
*
23305148 TGTTGTCGAATTCTTC
1 TGTTTTCGAATTCTTC
23305164 TGTTTTCGAATTCTTC
1 TGTTTTCGAATTCTTC
*
23305180 TATTTT
1 TGTTTT
23305186 AACTTCGGTG
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
16 20 1.00
ACGTcount: A:0.13, C:0.16, G:0.13, T:0.58
Consensus pattern (16 bp):
TGTTTTCGAATTCTTC
Found at i:23315213 original size:13 final size:14
Alignment explanation
Indices: 23315181--23315217 Score: 58
Period size: 15 Copynumber: 2.6 Consensus size: 14
23315171 GCCATACAAT
23315181 TTATGATATATGTA
1 TTATGATATATGTA
23315195 TGTATGATATATG-A
1 T-TATGATATATGTA
23315209 TTATGATAT
1 TTATGATAT
23315218 GCTTGTGTTT
Statistics
Matches: 22, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
13 8 0.36
14 3 0.14
15 11 0.50
ACGTcount: A:0.35, C:0.00, G:0.16, T:0.49
Consensus pattern (14 bp):
TTATGATATATGTA
Found at i:23315485 original size:25 final size:25
Alignment explanation
Indices: 23315443--23315490 Score: 69
Period size: 25 Copynumber: 1.9 Consensus size: 25
23315433 GGTAGGACAT
* *
23315443 GATATGACATGTTTTGTTATGATTC
1 GATATGACATGATATGTTATGATTC
*
23315468 GATATGATATGATATGTTATGAT
1 GATATGACATGATATGTTATGAT
23315491 ACATTATAAT
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
25 20 1.00
ACGTcount: A:0.29, C:0.04, G:0.21, T:0.46
Consensus pattern (25 bp):
GATATGACATGATATGTTATGATTC
Found at i:23315491 original size:20 final size:20
Alignment explanation
Indices: 23315468--23315515 Score: 53
Period size: 20 Copynumber: 2.4 Consensus size: 20
23315458 GTTATGATTC
* *
23315468 GATATGATATGATATGTTAT
1 GATATGATATAATATGTTAA
*
23315488 GATA-CATTATAATATGTTAA
1 GATATGA-TATAATATGTTAA
23315508 GATATGAT
1 GATATGAT
23315516 CTATATGGAA
Statistics
Matches: 22, Mismatches: 4, Indels: 4
0.73 0.13 0.13
Matches are distributed among these distances:
19 1 0.05
20 20 0.91
21 1 0.05
ACGTcount: A:0.40, C:0.02, G:0.17, T:0.42
Consensus pattern (20 bp):
GATATGATATAATATGTTAA
Found at i:23317177 original size:18 final size:18
Alignment explanation
Indices: 23317156--23317190 Score: 52
Period size: 18 Copynumber: 1.9 Consensus size: 18
23317146 TGCATTTGTA
* *
23317156 TCTGAATTTGATTATGCG
1 TCTGAATCTGAATATGCG
23317174 TCTGAATCTGAATATGC
1 TCTGAATCTGAATATGC
23317191 ATATGTATCC
Statistics
Matches: 15, Mismatches: 2, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
18 15 1.00
ACGTcount: A:0.26, C:0.14, G:0.20, T:0.40
Consensus pattern (18 bp):
TCTGAATCTGAATATGCG
Found at i:23321138 original size:18 final size:17
Alignment explanation
Indices: 23321115--23321170 Score: 58
Period size: 18 Copynumber: 3.1 Consensus size: 17
23321105 CGTTTGCATT
23321115 TGTATCTGACTCTGATTA
1 TGTATCTGA-TCTGATTA
* *
23321133 TGTATCTGAATCTAAATA
1 TGTATCTG-ATCTGATTA
*
23321151 TGCATCTGTATCTGATTA
1 TGTATCTG-ATCTGATTA
23321169 TG
1 TG
23321171 AAATACATCT
Statistics
Matches: 31, Mismatches: 6, Indels: 2
0.79 0.15 0.05
Matches are distributed among these distances:
18 30 0.97
19 1 0.03
ACGTcount: A:0.27, C:0.14, G:0.16, T:0.43
Consensus pattern (17 bp):
TGTATCTGATCTGATTA
Found at i:23324461 original size:41 final size:41
Alignment explanation
Indices: 23324404--23324596 Score: 151
Period size: 41 Copynumber: 4.7 Consensus size: 41
23324394 AATATAACTT
* *
23324404 ACCTGATACAATACATCGACACAAAGACTGCTAGGCTCAAG
1 ACCTGATACAATACATCGACACAAAGCCTGCTAGGCTCAAA
* * * *
23324445 ACCTGATACAACACATCGGCACGAAA-CCTGCTAGACACAAA
1 ACCTGATACAATACATCGACAC-AAAGCCTGCTAGGCTCAAA
* * *
23324486 ACCTGATATAATACA-CCAGCACGAAGCCTGCTAGGCTCAAA
1 ACCTGATACAATACATCGA-CACAAAGCCTGCTAGGCTCAAA
* ** * * * *
23324527 GCCT-ATTACGGTACACCGGCACGAAGCCTGCTAGGCACAAA
1 ACCTGA-TACAATACATCGACACAAAGCCTGCTAGGCTCAAA
* * *
23324568 GCCAGATATAATACA-CTGACACAAAGCCT
1 ACCTGATACAATACATC-GACACAAAGCCT
23324597 ACTAAGCAAA
Statistics
Matches: 119, Mismatches: 26, Indels: 14
0.75 0.16 0.09
Matches are distributed among these distances:
40 5 0.04
41 109 0.92
42 5 0.04
ACGTcount: A:0.37, C:0.30, G:0.18, T:0.16
Consensus pattern (41 bp):
ACCTGATACAATACATCGACACAAAGCCTGCTAGGCTCAAA
Found at i:23324595 original size:82 final size:82
Alignment explanation
Indices: 23324408--23324596 Score: 206
Period size: 82 Copynumber: 2.3 Consensus size: 82
23324398 TAACTTACCT
* * *
23324408 GATACAATACA-TCGACACAAAGACTGCTAGGCTCAAGACCTGATACAACACATCGGCACGAAAC
1 GATATAATACACT-GACACAAAGCCTGCTAGGCTCAAGACCTGATACAACACACCGGCACGAAAC
*
23324472 CTGCTAGACACAAAACCT
65 CTGCTAGACACAAAACCA
* * ***
23324490 GATATAATACAC-CAGCACGAAGCCTGCTAGGCTCAA-AGCCT-ATTACGGTACACCGGCACGAA
1 GATATAATACACTGA-CACAAAGCCTGCTAGGCTCAAGA-CCTGA-TACAACACACCGGCACGAA
* * *
23324552 GCCTGCTAGGCACAAAGCCA
63 ACCTGCTAGACACAAAACCA
23324572 GATATAATACACTGACACAAAGCCT
1 GATATAATACACTGACACAAAGCCT
23324597 ACTAAGCAAA
Statistics
Matches: 88, Mismatches: 14, Indels: 10
0.79 0.12 0.09
Matches are distributed among these distances:
81 3 0.03
82 84 0.95
83 1 0.01
ACGTcount: A:0.38, C:0.29, G:0.18, T:0.15
Consensus pattern (82 bp):
GATATAATACACTGACACAAAGCCTGCTAGGCTCAAGACCTGATACAACACACCGGCACGAAACC
TGCTAGACACAAAACCA
Found at i:23324610 original size:82 final size:81
Alignment explanation
Indices: 23324461--23324639 Score: 198
Period size: 82 Copynumber: 2.2 Consensus size: 81
23324451 TACAACACAT
* * * * * **
23324461 CGGCACGAAACCTGCTAGACACAAAACCTGATATAATACACCAGCACGAAGCCTGCTAGGCTCAA
1 CGGCACGAAGCCTGCTAGACACAAAACCAGATATAATACACCAGCACAAAGCCTACTAAGCAAAA
* * *
23324526 AGCCTATTACGGTACA
66 AGCCTAATAAGATACA
* * *
23324542 CCGGCACGAAGCCTGCTAGGCACAAAGCCAGATATAATACA-CTGACACAAAGCCTACTAAGCAA
1 -CGGCACGAAGCCTGCTAGACACAAAACCAGATATAATACACCAG-CACAAAGCCTACTAAGCAA
*
23324606 AAAGCCTAATAATATACA
64 AAAGCCTAATAAGATACA
*
23324624 CTGCACGAAGCCTGCT
1 CGGCACGAAGCCTGCT
23324640 GGATTCAAGG
Statistics
Matches: 81, Mismatches: 15, Indels: 3
0.82 0.15 0.03
Matches are distributed among these distances:
81 17 0.21
82 64 0.79
ACGTcount: A:0.37, C:0.29, G:0.18, T:0.16
Consensus pattern (81 bp):
CGGCACGAAGCCTGCTAGACACAAAACCAGATATAATACACCAGCACAAAGCCTACTAAGCAAAA
AGCCTAATAAGATACA
Found at i:23331022 original size:7 final size:7
Alignment explanation
Indices: 23331007--23331039 Score: 50
Period size: 7 Copynumber: 4.7 Consensus size: 7
23330997 ACTTATATTC
23331007 AAAAA-A
1 AAAAAGA
23331013 AAAAAGA
1 AAAAAGA
23331020 AAAAAGA
1 AAAAAGA
23331027 AAAAACGA
1 AAAAA-GA
23331035 AAAAA
1 AAAAA
23331040 AGATGGGACT
Statistics
Matches: 25, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
6 5 0.20
7 13 0.52
8 7 0.28
ACGTcount: A:0.88, C:0.03, G:0.09, T:0.00
Consensus pattern (7 bp):
AAAAAGA
Found at i:23332843 original size:7 final size:7
Alignment explanation
Indices: 23332828--23332860 Score: 50
Period size: 7 Copynumber: 4.7 Consensus size: 7
23332818 ACTTATATTC
23332828 AAAAA-A
1 AAAAAGA
23332834 AAAAAGA
1 AAAAAGA
23332841 AAAAAGA
1 AAAAAGA
23332848 AAAAACGA
1 AAAAA-GA
23332856 AAAAA
1 AAAAA
23332861 AGATGGGACT
Statistics
Matches: 25, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
6 5 0.20
7 13 0.52
8 7 0.28
ACGTcount: A:0.88, C:0.03, G:0.09, T:0.00
Consensus pattern (7 bp):
AAAAAGA
Found at i:23342651 original size:22 final size:23
Alignment explanation
Indices: 23342625--23342669 Score: 56
Period size: 22 Copynumber: 2.0 Consensus size: 23
23342615 CATGATAGTG
*
23342625 GTATCATGACACCC-TTACAATA
1 GTATCATGACACCCATGACAATA
* *
23342647 GTATCGTGAGACCCATGACAATA
1 GTATCATGACACCCATGACAATA
23342670 TGGAATTAAG
Statistics
Matches: 19, Mismatches: 3, Indels: 1
0.83 0.13 0.04
Matches are distributed among these distances:
22 12 0.63
23 7 0.37
ACGTcount: A:0.36, C:0.24, G:0.16, T:0.24
Consensus pattern (23 bp):
GTATCATGACACCCATGACAATA
Found at i:23353188 original size:3 final size:3
Alignment explanation
Indices: 23353180--23353204 Score: 50
Period size: 3 Copynumber: 8.3 Consensus size: 3
23353170 GCTACTCAAC
23353180 CTA CTA CTA CTA CTA CTA CTA CTA C
1 CTA CTA CTA CTA CTA CTA CTA CTA C
23353205 AGTGGAGTGC
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 22 1.00
ACGTcount: A:0.32, C:0.36, G:0.00, T:0.32
Consensus pattern (3 bp):
CTA
Found at i:23383929 original size:20 final size:21
Alignment explanation
Indices: 23383906--23383944 Score: 53
Period size: 20 Copynumber: 1.9 Consensus size: 21
23383896 TTATGATGTT
23383906 ATAAAATGTTTA-ATGTGATA
1 ATAAAATGTTTATATGTGATA
**
23383926 ATAATGTGTTTATATGTGA
1 ATAAAATGTTTATATGTGA
23383945 GCAAACTACT
Statistics
Matches: 16, Mismatches: 2, Indels: 1
0.84 0.11 0.05
Matches are distributed among these distances:
20 10 0.62
21 6 0.38
ACGTcount: A:0.38, C:0.00, G:0.18, T:0.44
Consensus pattern (21 bp):
ATAAAATGTTTATATGTGATA
Found at i:23395222 original size:19 final size:20
Alignment explanation
Indices: 23395190--23395227 Score: 51
Period size: 19 Copynumber: 1.9 Consensus size: 20
23395180 AATGATAATA
*
23395190 AAAGAATAAG-AAAATAAAG
1 AAAGAAGAAGAAAAATAAAG
*
23395209 AAAGAAGAATAAAAATAAA
1 AAAGAAGAAGAAAAATAAA
23395228 CAAGAAATCA
Statistics
Matches: 16, Mismatches: 2, Indels: 1
0.84 0.11 0.05
Matches are distributed among these distances:
19 8 0.50
20 8 0.50
ACGTcount: A:0.76, C:0.00, G:0.13, T:0.11
Consensus pattern (20 bp):
AAAGAAGAAGAAAAATAAAG
Found at i:23398773 original size:41 final size:41
Alignment explanation
Indices: 23398565--23398773 Score: 310
Period size: 41 Copynumber: 5.1 Consensus size: 41
23398555 AAGTGTAACC
*
23398565 GGGGCACGTAAGTGCAATTCAGGGGTACCGAAGTACAAATA
1 GGGGCACGTAAGTGCAATTCAGGGGTACCAAAGTACAAATA
* * * ** *
23398606 AGGGCATGTAAGTGCAATTTAGCAGTACCAAAGTACAAACA
1 GGGGCACGTAAGTGCAATTCAGGGGTACCAAAGTACAAATA
*
23398647 GGGACACGTAAGTGCAATTCAGGGGTACCAAAGTACAAATA
1 GGGGCACGTAAGTGCAATTCAGGGGTACCAAAGTACAAATA
* *
23398688 GGGGCACATAAATGCAATTCAGGGGTACCAAAGTACAAATA
1 GGGGCACGTAAGTGCAATTCAGGGGTACCAAAGTACAAATA
* *
23398729 GGGGCACGTAAGTGCAATTCAGGGGTACCGAAGTACAAACA
1 GGGGCACGTAAGTGCAATTCAGGGGTACCAAAGTACAAATA
23398770 GGGG
1 GGGG
23398774 ATAATTAACA
Statistics
Matches: 147, Mismatches: 21, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
41 147 1.00
ACGTcount: A:0.37, C:0.17, G:0.29, T:0.17
Consensus pattern (41 bp):
GGGGCACGTAAGTGCAATTCAGGGGTACCAAAGTACAAATA
Found at i:23412855 original size:32 final size:32
Alignment explanation
Indices: 23412810--23412878 Score: 113
Period size: 32 Copynumber: 2.2 Consensus size: 32
23412800 TGTCCCTGCT
*
23412810 TTGT-AAGGATGTTGAGTATTGGGGTTCATAC
1 TTGTCAAGGATGTTGAGAATTGGGGTTCATAC
*
23412841 TTGTCAAGGATGTTGAGAATTGGGGTTCATAT
1 TTGTCAAGGATGTTGAGAATTGGGGTTCATAC
23412873 TTGTCA
1 TTGTCA
23412879 CTCATTATGT
Statistics
Matches: 35, Mismatches: 2, Indels: 1
0.92 0.05 0.03
Matches are distributed among these distances:
31 4 0.11
32 31 0.89
ACGTcount: A:0.23, C:0.07, G:0.30, T:0.39
Consensus pattern (32 bp):
TTGTCAAGGATGTTGAGAATTGGGGTTCATAC
Found at i:23416864 original size:22 final size:22
Alignment explanation
Indices: 23416839--23416884 Score: 83
Period size: 22 Copynumber: 2.1 Consensus size: 22
23416829 TCTGCTATTG
23416839 TTTGTTGTTGTTTTGCTGCCAT
1 TTTGTTGTTGTTTTGCTGCCAT
*
23416861 TTTGTTGTTGTTTTGCTGTCAT
1 TTTGTTGTTGTTTTGCTGCCAT
23416883 TT
1 TT
23416885 CACTATTATA
Statistics
Matches: 23, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
22 23 1.00
ACGTcount: A:0.04, C:0.11, G:0.22, T:0.63
Consensus pattern (22 bp):
TTTGTTGTTGTTTTGCTGCCAT
Found at i:23418311 original size:19 final size:19
Alignment explanation
Indices: 23418284--23418322 Score: 51
Period size: 19 Copynumber: 2.1 Consensus size: 19
23418274 TATTATATGT
*
23418284 TATTTTAAAAATGTACTTG
1 TATTCTAAAAATGTACTTG
* *
23418303 TATTCTAAATATGTAGTTG
1 TATTCTAAAAATGTACTTG
23418322 T
1 T
23418323 CATTGATAAA
Statistics
Matches: 17, Mismatches: 3, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
19 17 1.00
ACGTcount: A:0.33, C:0.05, G:0.13, T:0.49
Consensus pattern (19 bp):
TATTCTAAAAATGTACTTG
Found at i:23418465 original size:6 final size:7
Alignment explanation
Indices: 23418450--23418474 Score: 50
Period size: 7 Copynumber: 3.6 Consensus size: 7
23418440 ATTTCTTTTA
23418450 TTTTCTT
1 TTTTCTT
23418457 TTTTCTT
1 TTTTCTT
23418464 TTTTCTT
1 TTTTCTT
23418471 TTTT
1 TTTT
23418475 ATCATTTTAA
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 18 1.00
ACGTcount: A:0.00, C:0.12, G:0.00, T:0.88
Consensus pattern (7 bp):
TTTTCTT
Found at i:23422142 original size:136 final size:136
Alignment explanation
Indices: 23421982--23422531 Score: 967
Period size: 136 Copynumber: 4.0 Consensus size: 136
23421972 ACATAGATAA
23421982 AATTAATATATGAATTTGATTCATACAAAATATTAATTGTATATATTTTACCGAATTTATTAATA
1 AATTAATATATGAATTTGATTCATACAAAATATTAATTGTATATATTTTACCGAATTTATTAATA
23422047 AAAAATTATATTAATTAATTTTGGTCAAAATATAAAAGACATAGAAACTAATATTATTTCGGAAT
66 AAAAATTATATTAATTAATTTTGGTCAAAATATAAAAGACATAGAAACTAATATTATTTCGGAAT
23422112 GAATAT
131 GAATAT
23422118 AATTAATATATGAATTTGATTCATACAAAATATTAATTGTATATATTTTACCGAATTTATTAATA
1 AATTAATATATGAATTTGATTCATACAAAATATTAATTGTATATATTTTACCGAATTTATTAATA
23422183 AAAAATTATATTAATTAATTTTGGTCAAAATATAAAAGACATAGAAACTAATATTATTTCGGAAT
66 AAAAATTATATTAATTAATTTTGGTCAAAATATAAAAGACATAGAAACTAATATTATTTCGGAAT
23422248 GAATAT
131 GAATAT
23422254 AATTAATATATGAATTTGATTCATACAAAATATTAATTGTATATATTTTACCGAATTTATTAATA
1 AATTAATATATGAATTTGATTCATACAAAATATTAATTGTATATATTTTACCGAATTTATTAATA
23422319 AAAAATTATATTAATTAATTTTGGTCAAAATATAAAAGACATAGAAACTAATATTATTTCGGAAT
66 AAAAATTATATTAATTAATTTTGGTCAAAATATAAAAGACATAGAAACTAATATTATTTCGGAAT
23422384 GAATAT
131 GAATAT
23422390 AATTAATATATGAATTTGATTCATACAAAATATTAATTGTATATATTTTACCGAATTTATTAATA
1 AATTAATATATGAATTTGATTCATACAAAATATTAATTGTATATATTTTACCGAATTTATTAATA
* * * * * * * * **
23422455 TAAACAGTTATATTAATAAATTTCGATCAAAATAAAAAAGATAT-GAAAATTAATATTCTTTTAG
66 -AAA-AATTATATTAATTAATTTTGGTCAAAATATAAAAGACATAG-AAACTAATATTATTTCGG
*
23422519 AAAGAATAT
128 AATGAATAT
23422528 AATT
1 AATT
23422532 CATTTTTCTA
Statistics
Matches: 400, Mismatches: 11, Indels: 4
0.96 0.03 0.01
Matches are distributed among these distances:
136 337 0.84
137 4 0.01
138 59 0.15
ACGTcount: A:0.47, C:0.06, G:0.08, T:0.40
Consensus pattern (136 bp):
AATTAATATATGAATTTGATTCATACAAAATATTAATTGTATATATTTTACCGAATTTATTAATA
AAAAATTATATTAATTAATTTTGGTCAAAATATAAAAGACATAGAAACTAATATTATTTCGGAAT
GAATAT
Found at i:23422147 original size:71 final size:71
Alignment explanation
Indices: 23422072--23422422 Score: 228
Period size: 71 Copynumber: 5.1 Consensus size: 71
23422062 TAATTTTGGT
23422072 CAAAATATAAAAGACATAGAAACTAATATTATTTCGGAATGAATATAATTAATATATGAATTTGA
1 CAAAATATAAAAGACATAGAAACTAATATTATTTCGGAATGAATATAATTAATATATGAATTTGA
23422137 TTCATA
66 TTCATA
** * ** * * *
23422143 CAAAATATTAATTGTATATATTTTACCGAAT-TTA-TT---AAT-AA-AAAATT-ATAT-T-AA-
1 CAAAATA-TAAAAG-ACATA--GAAACTAATATTATTTCGGAATGAATATAATTAATATATGAAT
* * *
23422197 TTAATT-TTGGT
62 TTGATTCAT--A
23422208 CAAAATATAAAAGACATAGAAACTAATATTATTTCGGAATGAATATAATTAATATATGAATTTGA
1 CAAAATATAAAAGACATAGAAACTAATATTATTTCGGAATGAATATAATTAATATATGAATTTGA
23422273 TTCATA
66 TTCATA
** * ** * * *
23422279 CAAAATATTAATTGTATATATTTTACCGAAT-TTA-TT---AAT-AA-AAAATT-ATAT-T-AA-
1 CAAAATA-TAAAAG-ACATA--GAAACTAATATTATTTCGGAATGAATATAATTAATATATGAAT
* * *
23422333 TTAATT-TTGGT
62 TTGATTCAT--A
23422344 CAAAATATAAAAGACATAGAAACTAATATTATTTCGGAATGAATATAATTAATATATGAATTTGA
1 CAAAATATAAAAGACATAGAAACTAATATTATTTCGGAATGAATATAATTAATATATGAATTTGA
23422409 TTCATA
66 TTCATA
23422415 CAAAATAT
1 CAAAATAT
23422423 TAATTGTATA
Statistics
Matches: 200, Mismatches: 44, Indels: 72
0.63 0.14 0.23
Matches are distributed among these distances:
61 10 0.05
62 6 0.03
63 14 0.07
64 18 0.09
65 18 0.09
66 8 0.04
67 12 0.06
68 20 0.10
69 12 0.06
70 8 0.04
71 26 0.13
72 18 0.09
73 14 0.07
74 6 0.03
75 10 0.05
ACGTcount: A:0.47, C:0.06, G:0.08, T:0.38
Consensus pattern (71 bp):
CAAAATATAAAAGACATAGAAACTAATATTATTTCGGAATGAATATAATTAATATATGAATTTGA
TTCATA
Found at i:23422634 original size:75 final size:75
Alignment explanation
Indices: 23422507--23422653 Score: 235
Period size: 75 Copynumber: 2.0 Consensus size: 75
23422497 ATGAAAATTA
*
23422507 ATATTCTTTTAGAAAGAATATAATTCATTTTTCTAACTTTCCTTTTGTCTTCTCTATTAAT-AAG
1 ATATTCTTTTAGAAAGAATATAATTCATTTTTCTAACTTTCCTTTTGCCTTCTCTATTAATAAAG
23422571 GAAATAATGCT
66 G-AATAATGCT
* *
23422582 ATATTCTTTTGGAAAGAATATAATTCCTTTTTCTAACTTTCCATTTT-CCTTCTCTATTAATAAA
1 ATATTCTTTTAGAAAGAATATAATTCATTTTTCTAACTTTCC-TTTTGCCTTCTCTATTAATAAA
23422646 GGAATAAT
65 GGAATAAT
23422654 CCTGGTTTTC
Statistics
Matches: 67, Mismatches: 3, Indels: 4
0.91 0.04 0.05
Matches are distributed among these distances:
75 59 0.88
76 8 0.12
ACGTcount: A:0.32, C:0.14, G:0.07, T:0.46
Consensus pattern (75 bp):
ATATTCTTTTAGAAAGAATATAATTCATTTTTCTAACTTTCCTTTTGCCTTCTCTATTAATAAAG
GAATAATGCT
Found at i:23423226 original size:17 final size:17
Alignment explanation
Indices: 23423204--23423236 Score: 50
Period size: 17 Copynumber: 1.9 Consensus size: 17
23423194 ATGAATGAAA
23423204 AAATGTTAG-GGCAATTG
1 AAATGTT-GTGGCAATTG
23423221 AAATGTTGTGGCAATT
1 AAATGTTGTGGCAATT
23423237 CTCAAAGAAT
Statistics
Matches: 15, Mismatches: 0, Indels: 2
0.88 0.00 0.12
Matches are distributed among these distances:
16 1 0.07
17 14 0.93
ACGTcount: A:0.33, C:0.06, G:0.27, T:0.33
Consensus pattern (17 bp):
AAATGTTGTGGCAATTG
Found at i:23426243 original size:30 final size:30
Alignment explanation
Indices: 23426209--23426307 Score: 85
Period size: 30 Copynumber: 3.3 Consensus size: 30
23426199 TCGATCTATC
*
23426209 AAAAGGGATAGCT-TCGACTATCAAATTATG
1 AAAAGGGAT-GCTAACGACTATCAAATTATG
* * * * *
23426239 AAAAGAGATGGTGACGAC-ACTCGAATAATG
1 AAAAGGGATGCTAACGACTA-TCAAATTATG
* * *
23426269 TAAAGGGATGGTAACGACCATCAAATTATG
1 AAAAGGGATGCTAACGACTATCAAATTATG
23426299 AAAAGGGAT
1 AAAAGGGAT
23426308 AACTTTGGTT
Statistics
Matches: 55, Mismatches: 11, Indels: 6
0.76 0.15 0.08
Matches are distributed among these distances:
29 3 0.05
30 51 0.93
31 1 0.02
ACGTcount: A:0.42, C:0.12, G:0.24, T:0.21
Consensus pattern (30 bp):
AAAAGGGATGCTAACGACTATCAAATTATG
Found at i:23437731 original size:27 final size:25
Alignment explanation
Indices: 23437701--23437768 Score: 73
Period size: 25 Copynumber: 2.6 Consensus size: 25
23437691 GTTCCAACCT
* *
23437701 ACAGCTTGTGTGAGCAGGCCCATTTTC
1 ACAGCTCGTGTGAGCAGACCCA--TTC
* * *
23437728 ACAGCTCATGTGAGCATACCGATTC
1 ACAGCTCGTGTGAGCAGACCCATTC
23437753 ACAGCTCGTGTGAGCA
1 ACAGCTCGTGTGAGCA
23437769 TACATGTACA
Statistics
Matches: 35, Mismatches: 6, Indels: 2
0.81 0.14 0.05
Matches are distributed among these distances:
25 18 0.51
27 17 0.49
ACGTcount: A:0.24, C:0.26, G:0.25, T:0.25
Consensus pattern (25 bp):
ACAGCTCGTGTGAGCAGACCCATTC
Found at i:23451250 original size:24 final size:22
Alignment explanation
Indices: 23451198--23451250 Score: 61
Period size: 24 Copynumber: 2.3 Consensus size: 22
23451188 AACTTTACAT
23451198 CTCAAAAAATTATAAAAAAAAA
1 CTCAAAAAATTATAAAAAAAAA
* * *
23451220 CTTAAAAATATATATAAAAGAATA
1 CTCAAAAA-AT-TATAAAAAAAAA
23451244 CTCAAAA
1 CTCAAAA
23451251 CCCTACACAA
Statistics
Matches: 25, Mismatches: 4, Indels: 2
0.81 0.13 0.06
Matches are distributed among these distances:
22 7 0.28
23 2 0.08
24 16 0.64
ACGTcount: A:0.66, C:0.09, G:0.02, T:0.23
Consensus pattern (22 bp):
CTCAAAAAATTATAAAAAAAAA
Found at i:23456231 original size:18 final size:17
Alignment explanation
Indices: 23456191--23456238 Score: 71
Period size: 18 Copynumber: 2.8 Consensus size: 17
23456181 TATTATTAAG
*
23456191 TTTA-TATAAGATATTA
1 TTTATTATAAAATATTA
23456207 TTTATTATAAAATATTA
1 TTTATTATAAAATATTA
23456224 TCTTATTATAAAATA
1 T-TTATTATAAAATA
23456239 AATTTTGATT
Statistics
Matches: 29, Mismatches: 1, Indels: 2
0.91 0.03 0.06
Matches are distributed among these distances:
16 4 0.14
17 12 0.41
18 13 0.45
ACGTcount: A:0.46, C:0.02, G:0.02, T:0.50
Consensus pattern (17 bp):
TTTATTATAAAATATTA
Found at i:23461512 original size:3 final size:3
Alignment explanation
Indices: 23461504--23461533 Score: 60
Period size: 3 Copynumber: 10.0 Consensus size: 3
23461494 TTTGCTTTTA
23461504 CTT CTT CTT CTT CTT CTT CTT CTT CTT CTT
1 CTT CTT CTT CTT CTT CTT CTT CTT CTT CTT
23461534 TTTCCTTGTG
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 27 1.00
ACGTcount: A:0.00, C:0.33, G:0.00, T:0.67
Consensus pattern (3 bp):
CTT
Found at i:23467789 original size:19 final size:18
Alignment explanation
Indices: 23467767--23467808 Score: 50
Period size: 19 Copynumber: 2.3 Consensus size: 18
23467757 AAATAAAGTT
23467767 TGATTAATAATTTATTAAA
1 TGATTAATAATTTA-TAAA
* *
23467786 TGATTACTTATTTATAAA
1 TGATTAATAATTTATAAA
23467804 T-ATTA
1 TGATTA
23467809 TATATTATAA
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
17 4 0.19
18 5 0.24
19 12 0.57
ACGTcount: A:0.43, C:0.02, G:0.05, T:0.50
Consensus pattern (18 bp):
TGATTAATAATTTATAAA
Found at i:23471264 original size:29 final size:30
Alignment explanation
Indices: 23471230--23471292 Score: 85
Period size: 30 Copynumber: 2.1 Consensus size: 30
23471220 TTTAATGTGC
*
23471230 AATTTTAT-TCATG-AATTTTGATTTTATAT
1 AATTTTATAT-ATGAAATTTTGATTTGATAT
*
23471259 AATTTTATATATGAAATTTTGATTTGATTT
1 AATTTTATATATGAAATTTTGATTTGATAT
23471289 AATT
1 AATT
23471293 CTCACAAATT
Statistics
Matches: 30, Mismatches: 2, Indels: 3
0.86 0.06 0.09
Matches are distributed among these distances:
29 11 0.37
30 19 0.63
ACGTcount: A:0.33, C:0.02, G:0.08, T:0.57
Consensus pattern (30 bp):
AATTTTATATATGAAATTTTGATTTGATAT
Found at i:23473796 original size:549 final size:549
Alignment explanation
Indices: 23472758--23474402 Score: 3263
Period size: 549 Copynumber: 3.0 Consensus size: 549
23472748 ATTCTTAAAA
23472758 AAATTAAGGTGATATCAAAGTTGGAAACCAATTTAGGAAATTATGAATGTGAAATGTAGAAAAAT
1 AAATTAAGGTGATATCAAAGTTGGAAACCAATTTAGGAAATTATGAATGTGAAATGTAGAAAAAT
23472823 GACCTTATCATAAATCTAAAAAAAGTTGGAGGACTAAAATATTATTTGACCAAATTGAGAGGATA
66 GACCTTATCATAAATCTAAAAAAAGTTGGAGGACTAAAATATTATTTGACCAAATTGAGAGGATA
23472888 TGAGGTATTGATGATTATTTGGCATGAGAATGACTTGAAATATGAATTAGTGTGGTAAAAATTAC
131 TGAGGTATTGATGATTATTTGGCATGAGAATGACTTGAAATATGAATTAGTGTGGTAAAAATTAC
23472953 TTTTGGTGTAAATTGGAAAAGATTGGAAAGTACATGGATTAAATTGCAATTTCACCATTTTACCG
196 TTTTGGTGTAAATTGGAAAAGATTGGAAAGTACATGGATTAAATTGCAATTTCACCATTTTACCG
*
23473018 TAAAATGGGTATATTTGTAATTTTCACCACCAATAAACATATATTATATTATAAAGTAAATATTA
261 TAAAATGGGTATATTTGTAATTTTCACCACCAATAAACATATATTATATTATAAAGTAAATATGA
23473083 TTTGTGAAGTTTGGGTTTGATAAGTGTTAATTTGTGGTGAAGAAAGTGTAATAAGAGGTAAAAAC
326 TTTGTGAAGTTTGGGTTTGATAAGTGTTAATTTGTGGTGAAGAAAGTGTAATAAGAGGTAAAAAC
23473148 GGGTTAAAATGCATTTTTTCCATAAAAGAGTATTTTGGTTGTTTCGAATGAATTTTATATTAGAA
391 GGGTTAAAATGCATTTTTTCCATAAAAGAGTATTTTGGTTGTTTCGAATGAATTTTATATTAGAA
23473213 TTATTATTTTTATGAGATACAATTTATTTAGATTAATTTTAAGTCGTTGCATGAGGATATAGAAA
456 TTATTATTTTTATGAGATACAATTTATTTAGATTAATTTTAAGTCGTTGCATGAGGATATAGAAA
23473278 GGTGATTAAATGTGGCTAACACATTTAGG
521 GGTGATTAAATGTGGCTAACACATTTAGG
23473307 AAATTAAGGTGATATCAAAGTTGGAAACCAATTTAGGAAATTATGAATGTGAAATGTAGAAAAAT
1 AAATTAAGGTGATATCAAAGTTGGAAACCAATTTAGGAAATTATGAATGTGAAATGTAGAAAAAT
23473372 GACCTTATCATAAATCTAAAAAAAGTTGGAGGACTAAAATATTATTTGACCAAATTGAGAGGATA
66 GACCTTATCATAAATCTAAAAAAAGTTGGAGGACTAAAATATTATTTGACCAAATTGAGAGGATA
23473437 TGAGGTATTGATGATTATTTGGCATGAGAATGACTTGAAATATGAATTAGTGTGGTAAAAATTAC
131 TGAGGTATTGATGATTATTTGGCATGAGAATGACTTGAAATATGAATTAGTGTGGTAAAAATTAC
23473502 TTTTGGTGTAAATTGGAAAAGATTGGAAAGTACATGGATTAAATTGCAATTTCACCATTTTACCG
196 TTTTGGTGTAAATTGGAAAAGATTGGAAAGTACATGGATTAAATTGCAATTTCACCATTTTACCG
23473567 TAAAATGGGTATATTTGTAATTTTCACCACCAATAAACATATATTATATTATAAAGTAAATATGA
261 TAAAATGGGTATATTTGTAATTTTCACCACCAATAAACATATATTATATTATAAAGTAAATATGA
23473632 TTTGTGAAGTTTGGGTTTGATAAGTGTTAATTTGTGGTGAAGAAAGTGTAATAAGAGGTAAAAAC
326 TTTGTGAAGTTTGGGTTTGATAAGTGTTAATTTGTGGTGAAGAAAGTGTAATAAGAGGTAAAAAC
23473697 GGGTTAAAATGCATTTTTTCCATAAAAGAGTATTTTGGTTGTTTCGAATGAATTTTATATTAGAA
391 GGGTTAAAATGCATTTTTTCCATAAAAGAGTATTTTGGTTGTTTCGAATGAATTTTATATTAGAA
23473762 TTATTATTTTTATGAGATACAATTTATTTAGATTAATTTTAAGTCGTTGCATGAGGATATAGAAA
456 TTATTATTTTTATGAGATACAATTTATTTAGATTAATTTTAAGTCGTTGCATGAGGATATAGAAA
23473827 GGTGATTAAATGTGGCTAACACATTTAGG
521 GGTGATTAAATGTGGCTAACACATTTAGG
23473856 AAATTAAGGTGATATCAAAGTTGGAAACCAATTTAGGAAATTATGAATGTGAAATGTAGAAAAAT
1 AAATTAAGGTGATATCAAAGTTGGAAACCAATTTAGGAAATTATGAATGTGAAATGTAGAAAAAT
23473921 GACCTTATCATAAATCTAAAAAAAGTTGGAGGACTAAAATATTATTTGACCAAATTGAGAGGATA
66 GACCTTATCATAAATCTAAAAAAAGTTGGAGGACTAAAATATTATTTGACCAAATTGAGAGGATA
23473986 TGAGGTATTGATGATTATTTGGCATGAGAATGACTTGAAATATGAATTAGTGTGGTAAAAATTAC
131 TGAGGTATTGATGATTATTTGGCATGAGAATGACTTGAAATATGAATTAGTGTGGTAAAAATTAC
23474051 TTTTGGTGTAAATTGGAAAAGATTGGAAAGTACATGGATTAAATTGCAATTTCACCATTTTACCG
196 TTTTGGTGTAAATTGGAAAAGATTGGAAAGTACATGGATTAAATTGCAATTTCACCATTTTACCG
23474116 TAAAATGGGTATATTTGTAATTTTCACCACCAATAAACATATATTATATTATAAAGTAAATATGA
261 TAAAATGGGTATATTTGTAATTTTCACCACCAATAAACATATATTATATTATAAAGTAAATATGA
23474181 TTTGTGAAGTTTGGGTTTGATAAGTGTTAATTTGTGGTGAAGAAAGTGTAATAAGAGGTAAAAAC
326 TTTGTGAAGTTTGGGTTTGATAAGTGTTAATTTGTGGTGAAGAAAGTGTAATAAGAGGTAAAAAC
23474246 GGGTTAAAATGCATTTTTTCCATAAAAGAGTATTTTGGTTGTTTCGAATGAATTTTATATTAGAA
391 GGGTTAAAATGCATTTTTTCCATAAAAGAGTATTTTGGTTGTTTCGAATGAATTTTATATTAGAA
*
23474311 TTATTATTTTTATGAGATACAATTTATTTAGATTAATTTTAAGTCGTTGCATGAGGATATAGCAA
456 TTATTATTTTTATGAGATACAATTTATTTAGATTAATTTTAAGTCGTTGCATGAGGATATAGAAA
*
23474376 GCTGATTAAATGTGGCTAACACATTTA
521 GGTGATTAAATGTGGCTAACACATTTA
23474403 CGTTTGACTC
Statistics
Matches: 1093, Mismatches: 3, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
549 1093 1.00
ACGTcount: A:0.38, C:0.07, G:0.19, T:0.36
Consensus pattern (549 bp):
AAATTAAGGTGATATCAAAGTTGGAAACCAATTTAGGAAATTATGAATGTGAAATGTAGAAAAAT
GACCTTATCATAAATCTAAAAAAAGTTGGAGGACTAAAATATTATTTGACCAAATTGAGAGGATA
TGAGGTATTGATGATTATTTGGCATGAGAATGACTTGAAATATGAATTAGTGTGGTAAAAATTAC
TTTTGGTGTAAATTGGAAAAGATTGGAAAGTACATGGATTAAATTGCAATTTCACCATTTTACCG
TAAAATGGGTATATTTGTAATTTTCACCACCAATAAACATATATTATATTATAAAGTAAATATGA
TTTGTGAAGTTTGGGTTTGATAAGTGTTAATTTGTGGTGAAGAAAGTGTAATAAGAGGTAAAAAC
GGGTTAAAATGCATTTTTTCCATAAAAGAGTATTTTGGTTGTTTCGAATGAATTTTATATTAGAA
TTATTATTTTTATGAGATACAATTTATTTAGATTAATTTTAAGTCGTTGCATGAGGATATAGAAA
GGTGATTAAATGTGGCTAACACATTTAGG
Found at i:23474929 original size:21 final size:22
Alignment explanation
Indices: 23474905--23474961 Score: 66
Period size: 21 Copynumber: 2.7 Consensus size: 22
23474895 ACATAGGTTG
23474905 CAAGTCTCGAGACTTAGG-C-AA
1 CAAGTCTCGAGACTT-GGCCTAA
* *
23474926 CAAGTATCAAGACTTGGCCTAA
1 CAAGTCTCGAGACTTGGCCTAA
23474948 -AAGTCTCGAGACTT
1 CAAGTCTCGAGACTT
23474962 CGACTATAAG
Statistics
Matches: 30, Mismatches: 4, Indels: 4
0.79 0.11 0.11
Matches are distributed among these distances:
20 2 0.07
21 26 0.87
22 2 0.07
ACGTcount: A:0.33, C:0.23, G:0.21, T:0.23
Consensus pattern (22 bp):
CAAGTCTCGAGACTTGGCCTAA
Found at i:23474972 original size:21 final size:21
Alignment explanation
Indices: 23474906--23474974 Score: 59
Period size: 21 Copynumber: 3.3 Consensus size: 21
23474896 CATAGGTTGC
*
23474906 AAGTCTCGAGACTTAGGC-AA
1 AAGTCTCGAGACTTAGACTAA
* * * *
23474926 CAAGTATCAAGACTTGGCCTAA
1 -AAGTCTCGAGACTTAGACTAA
* *
23474948 AAGTCTCGAGACTTCGACTAT
1 AAGTCTCGAGACTTAGACTAA
23474969 AAGTCT
1 AAGTCT
23474975 TTATACTTAG
Statistics
Matches: 38, Mismatches: 9, Indels: 2
0.78 0.18 0.04
Matches are distributed among these distances:
21 36 0.95
22 2 0.05
ACGTcount: A:0.33, C:0.22, G:0.20, T:0.25
Consensus pattern (21 bp):
AAGTCTCGAGACTTAGACTAA
Found at i:23477501 original size:20 final size:21
Alignment explanation
Indices: 23477478--23477533 Score: 55
Period size: 20 Copynumber: 2.7 Consensus size: 21
23477468 TTAAAATTAA
*
23477478 TAAAACTTGATTAA-TTAAAT
1 TAAAACTTAATTAACTTAAAT
*
23477498 TAAACCTTAATTAACTT-AAT
1 TAAAACTTAATTAACTTAAAT
23477518 GCT-AAACTTAATTAAC
1 --TAAAACTTAATTAAC
23477534 CAAATGTTAG
Statistics
Matches: 30, Mismatches: 3, Indels: 5
0.79 0.08 0.13
Matches are distributed among these distances:
20 15 0.50
21 14 0.47
22 1 0.03
ACGTcount: A:0.46, C:0.12, G:0.04, T:0.38
Consensus pattern (21 bp):
TAAAACTTAATTAACTTAAAT
Found at i:23477539 original size:21 final size:22
Alignment explanation
Indices: 23477498--23477539 Score: 59
Period size: 21 Copynumber: 2.0 Consensus size: 22
23477488 TTAATTAAAT
**
23477498 TAAACCTTAATTAACTTAATGC
1 TAAACCTTAATTAACCAAATGC
23477520 TAAA-CTTAATTAACCAAATG
1 TAAACCTTAATTAACCAAATG
23477540 TTAGTGGAAT
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
21 14 0.78
22 4 0.22
ACGTcount: A:0.45, C:0.17, G:0.05, T:0.33
Consensus pattern (22 bp):
TAAACCTTAATTAACCAAATGC
Found at i:23483933 original size:15 final size:16
Alignment explanation
Indices: 23483913--23483945 Score: 59
Period size: 15 Copynumber: 2.1 Consensus size: 16
23483903 GCAATAAAAA
23483913 TTCAGTACTT-AATTT
1 TTCAGTACTTAAATTT
23483928 TTCAGTACTTAAATTT
1 TTCAGTACTTAAATTT
23483944 TT
1 TT
23483946 AGTTTATCAA
Statistics
Matches: 17, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
15 10 0.59
16 7 0.41
ACGTcount: A:0.27, C:0.12, G:0.06, T:0.55
Consensus pattern (16 bp):
TTCAGTACTTAAATTT
Found at i:23494852 original size:22 final size:21
Alignment explanation
Indices: 23494824--23494865 Score: 66
Period size: 22 Copynumber: 2.0 Consensus size: 21
23494814 TGAATGGGGA
*
23494824 AGTGGAAGGATGGAAAGAGTAG
1 AGTGGAAAGATGGAAA-AGTAG
23494846 AGTGGAAAGATGGAAAAGTA
1 AGTGGAAAGATGGAAAAGTA
23494866 ATAAATTTTA
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
21 4 0.21
22 15 0.79
ACGTcount: A:0.45, C:0.00, G:0.40, T:0.14
Consensus pattern (21 bp):
AGTGGAAAGATGGAAAAGTAG
Found at i:23510596 original size:21 final size:21
Alignment explanation
Indices: 23510558--23510597 Score: 62
Period size: 21 Copynumber: 1.9 Consensus size: 21
23510548 GCCAAGCCGT
**
23510558 TTTAGGATTTTAGTTTAGTAG
1 TTTAGGATTTTAAATTAGTAG
23510579 TTTAGGATTTTAAATTAGT
1 TTTAGGATTTTAAATTAGT
23510598 TATATTTTAT
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
21 17 1.00
ACGTcount: A:0.28, C:0.00, G:0.20, T:0.53
Consensus pattern (21 bp):
TTTAGGATTTTAAATTAGTAG
Found at i:23514929 original size:14 final size:15
Alignment explanation
Indices: 23514910--23514944 Score: 54
Period size: 14 Copynumber: 2.4 Consensus size: 15
23514900 ATTTGGTCCC
23514910 TTTTTATTCTTTT-T
1 TTTTTATTCTTTTAT
*
23514924 TTTTTATTTTTTTAT
1 TTTTTATTCTTTTAT
23514939 TTTTTA
1 TTTTTA
23514945 ATTAAATGGT
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
14 12 0.63
15 7 0.37
ACGTcount: A:0.11, C:0.03, G:0.00, T:0.86
Consensus pattern (15 bp):
TTTTTATTCTTTTAT
Found at i:23519616 original size:6 final size:6
Alignment explanation
Indices: 23519605--23519644 Score: 64
Period size: 6 Copynumber: 6.8 Consensus size: 6
23519595 TGAAAGTGAT
*
23519605 AAAAAG AAAAAG AAAAAG AAAAAG AAAAAG -GAAAG AAAAA
1 AAAAAG AAAAAG AAAAAG AAAAAG AAAAAG AAAAAG AAAAA
23519645 TGGTTAGGCC
Statistics
Matches: 31, Mismatches: 2, Indels: 2
0.89 0.06 0.06
Matches are distributed among these distances:
5 4 0.13
6 27 0.87
ACGTcount: A:0.82, C:0.00, G:0.17, T:0.00
Consensus pattern (6 bp):
AAAAAG
Found at i:23521060 original size:88 final size:88
Alignment explanation
Indices: 23520909--23521486 Score: 852
Period size: 88 Copynumber: 6.6 Consensus size: 88
23520899 GTGAAGATAA
* * ** * *
23520909 CAGATCTTGCCTTCCTGTACTGGTAGCGAAGCAGATCAAAGACACCAGCCTTGCCTCCTTGGGTT
1 CAGATCTTGCCTTCCTGCACCGACAGCGAAGCAGATCGAAGACACCAGCCTTGCCTCCCTGGGTT
23520974 GCAGCGGAGCAGGCTAAAAATAG
66 GCAGCGGAGCAGGCTAAAAATAG
*
23520997 CAGATCTTGCCTTCCTGCACCGACAGCGAAGCAGATCGAAGACACCAGCCTTGCTTCCCTGGGTT
1 CAGATCTTGCCTTCCTGCACCGACAGCGAAGCAGATCGAAGACACCAGCCTTGCCTCCCTGGGTT
*
23521062 GTAGCGGAGCAGGCTAAAAATAG
66 GCAGCGGAGCAGGCTAAAAATAG
* * * *
23521085 CAGATCTTACCTTCCTGCACCTACAACGAAGCAGATCGAA-ATCGCCAGCCTTGCCTCCCTGGGT
1 CAGATCTTGCCTTCCTGCACCGACAGCGAAGCAGATCGAAGA-CACCAGCCTTGCCTCCCTGGGT
*
23521149 TGCAACGGAGCAGGCTAAAAATAG
65 TGCAGCGGAGCAGGCTAAAAATAG
* * *
23521173 CAGATCTTGCCTTCCTACACCGACAGCGAAGCAGATCGAAGACACCAGCATTGCCTCCCTAGGTT
1 CAGATCTTGCCTTCCTGCACCGACAGCGAAGCAGATCGAAGACACCAGCCTTGCCTCCCTGGGTT
23521238 GCAGCGGAGCAGGCTAAAAATAG
66 GCAGCGGAGCAGGCTAAAAATAG
* * * *
23521261 CAGATCTTACCTACCTGCACCGACAGCGAAGCAGATCAAATACACCAGCCTTGCCTCCCTGGGTT
1 CAGATCTTGCCTTCCTGCACCGACAGCGAAGCAGATCGAAGACACCAGCCTTGCCTCCCTGGGTT
*
23521326 GCAGTGGAGCAGGCTAAAAATAG
66 GCAGCGGAGCAGGCTAAAAATAG
* * *
23521349 CAGATCTTGCCTTCCTGCATCAACAGCGAAGCAGATCGAAGACACCAGCCTTGCCTCACTGGGTT
1 CAGATCTTGCCTTCCTGCACCGACAGCGAAGCAGATCGAAGACACCAGCCTTGCCTCCCTGGGTT
* * *
23521414 GCAGCGGAGCGGGTTAAAAGTAG
66 GCAGCGGAGCAGGCTAAAAATAG
* * * * *
23521437 CAGATCTTGCATTCCTACACCGACAGCGAAGCAGATTGATGACCCCAGCC
1 CAGATCTTGCCTTCCTGCACCGACAGCGAAGCAGATCGAAGACACCAGCC
23521487 CTATCTCCCT
Statistics
Matches: 439, Mismatches: 49, Indels: 4
0.89 0.10 0.01
Matches are distributed among these distances:
87 1 0.00
88 437 1.00
89 1 0.00
ACGTcount: A:0.28, C:0.29, G:0.24, T:0.19
Consensus pattern (88 bp):
CAGATCTTGCCTTCCTGCACCGACAGCGAAGCAGATCGAAGACACCAGCCTTGCCTCCCTGGGTT
GCAGCGGAGCAGGCTAAAAATAG
Found at i:23521549 original size:44 final size:44
Alignment explanation
Indices: 23521486--23521944 Score: 498
Period size: 44 Copynumber: 10.7 Consensus size: 44
23521476 TGACCCCAGC
*
23521486 CCTATCTCCCTAGTCAGCAGTGGAATAGGTTAAAGATTGTGAAT
1 CCTATCTCCCTGGTCAGCAGTGGAATAGGTTAAAGATTGTGAAT
* * *
23521530 CCTATCTCCCTGGACAGCAGTGGAATAGGTTGAAGATTGAGAAT
1 CCTATCTCCCTGGTCAGCAGTGGAATAGGTTAAAGATTGTGAAT
* * *
23521574 TCTATCTCCCTGGGCAGCAGTGGAATAGATTAAAGA----G--T
1 CCTATCTCCCTGGTCAGCAGTGGAATAGGTTAAAGATTGTGAAT
*
23521612 CCTATCTCCCTGGTCAGCAGTGGAATAGGTTAAATATTGTGAAT
1 CCTATCTCCCTGGTCAGCAGTGGAATAGGTTAAAGATTGTGAAT
*
23521656 CCTATCTCCCTGGTCAGCAGTGGAATAGGTTAAAGATTGAGAAT
1 CCTATCTCCCTGGTCAGCAGTGGAATAGGTTAAAGATTGTGAAT
* * ** * *
23521700 TCTATTTCCCTGGGAAGTAGTGGAATAGATT-AA-A----GAAT
1 CCTATCTCCCTGGTCAGCAGTGGAATAGGTTAAAGATTGTGAAT
** *
23521738 CCTATCTCTTTGGACAGCAGTGGAATAGGTTAAAGATTGTGAAT
1 CCTATCTCCCTGGTCAGCAGTGGAATAGGTTAAAGATTGTGAAT
* *
23521782 CCTATCTCCCTGGTCAGCAGTGGAATAGGTTGAAGATTGAGAAT
1 CCTATCTCCCTGGTCAGCAGTGGAATAGGTTAAAGATTGTGAAT
* * * ** * * *
23521826 TCTATCTCCCTGGGCAGCAGTGGATTAAATTGAAGATCGT-AGGT
1 CCTATCTCCCTGGTCAGCAGTGGAATAGGTTAAAGATTGTGA-AT
* * *
23521870 CCTATTTCCCTGGTCAGCAGTGGAATAGGTTGAAA-ATCGTGAAC
1 CCTATCTCCCTGGTCAGCAGTGGAATAGGTT-AAAGATTGTGAAT
*
23521914 CCTATCTCCCTGAG-CAGCAGTGGAGTAGGTT
1 CCTATCTCCCTG-GTCAGCAGTGGAATAGGTT
23521945 GAAAATAGCA
Statistics
Matches: 347, Mismatches: 52, Indels: 32
0.81 0.12 0.07
Matches are distributed among these distances:
38 60 0.17
39 2 0.01
40 2 0.01
42 2 0.01
43 3 0.01
44 274 0.79
45 4 0.01
ACGTcount: A:0.28, C:0.18, G:0.25, T:0.29
Consensus pattern (44 bp):
CCTATCTCCCTGGTCAGCAGTGGAATAGGTTAAAGATTGTGAAT
Found at i:23521711 original size:126 final size:126
Alignment explanation
Indices: 23521486--23521947 Score: 685
Period size: 126 Copynumber: 3.6 Consensus size: 126
23521476 TGACCCCAGC
* *
23521486 CCTATCTCCCTAGTCAGCAGTGGAATAGGTTAAAGATTGTGAATCCTATCTCCCTGGACAGCAGT
1 CCTATCTCCCTGGTCAGCAGTGGAATAGGTTAAAGATTGTGAATCCTATCTCCCTGGTCAGCAGT
23521551 GGAATAGGTTGAAGATTGAGAATTCTATCTCCCTGGGCAGCAGTGGAATAGATTAAAGAGT
66 GGAATAGGTTGAAGATTGAGAATTCTATCTCCCTGGGCAGCAGTGGAATAGATTAAAGAGT
*
23521612 CCTATCTCCCTGGTCAGCAGTGGAATAGGTTAAATATTGTGAATCCTATCTCCCTGGTCAGCAGT
1 CCTATCTCCCTGGTCAGCAGTGGAATAGGTTAAAGATTGTGAATCCTATCTCCCTGGTCAGCAGT
* * * * *
23521677 GGAATAGGTTAAAGATTGAGAATTCTATTTCCCTGGGAAGTAGTGGAATAGATTAAAGAAT
66 GGAATAGGTTGAAGATTGAGAATTCTATCTCCCTGGGCAGCAGTGGAATAGATTAAAGAGT
** *
23521738 CCTATCTCTTTGGACAGCAGTGGAATAGGTTAAAGATTGTGAATCCTATCTCCCTGGTCAGCAGT
1 CCTATCTCCCTGGTCAGCAGTGGAATAGGTTAAAGATTGTGAATCCTATCTCCCTGGTCAGCAGT
* *
23521803 GGAATAGGTTGAAGATTGAGAATTCTATCTCCCTGGGCAGCAGTGGATTAAATTGAAGATCGTAG
66 GGAATAGGTTGAAGATTGAGAATTCTATCTCCCTGGGCAGCAGTGGAATAGATT-AA-A--G-A-
23521868 GT
125 GT
* * *
23521870 CCTATTTCCCTGGTCAGCAGTGGAATAGGTTGAAA-ATCGTGAACCCTATCTCCCTGAG-CAGCA
1 CCTATCTCCCTGGTCAGCAGTGGAATAGGTT-AAAGATTGTGAATCCTATCTCCCTG-GTCAGCA
*
23521933 GTGGAGTAGGTTGAA
64 GTGGAATAGGTTGAA
23521948 AATAGCAGGT
Statistics
Matches: 302, Mismatches: 26, Indels: 10
0.89 0.08 0.03
Matches are distributed among these distances:
126 227 0.75
127 2 0.01
128 1 0.00
130 1 0.00
131 1 0.00
132 66 0.22
133 4 0.01
ACGTcount: A:0.28, C:0.18, G:0.26, T:0.28
Consensus pattern (126 bp):
CCTATCTCCCTGGTCAGCAGTGGAATAGGTTAAAGATTGTGAATCCTATCTCCCTGGTCAGCAGT
GGAATAGGTTGAAGATTGAGAATTCTATCTCCCTGGGCAGCAGTGGAATAGATTAAAGAGT
Found at i:23523833 original size:12 final size:11
Alignment explanation
Indices: 23523816--23523851 Score: 54
Period size: 12 Copynumber: 3.1 Consensus size: 11
23523806 ATTTGGTCCC
23523816 TTTTTATTTCTT
1 TTTTTATTT-TT
23523828 TTTTTATTTTT
1 TTTTTATTTTT
23523839 TTATTTATTTTT
1 TT-TTTATTTTT
23523851 T
1 T
23523852 AATTAAATGG
Statistics
Matches: 23, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
11 4 0.17
12 19 0.83
ACGTcount: A:0.11, C:0.03, G:0.00, T:0.86
Consensus pattern (11 bp):
TTTTTATTTTT
Found at i:23524891 original size:97 final size:98
Alignment explanation
Indices: 23524718--23524910 Score: 352
Period size: 97 Copynumber: 2.0 Consensus size: 98
23524708 AAAGTATTGG
23524718 ATGTGACACGTTGATTTCTCGAGATAAAGATTTAAAAAAAAAAGGGAATATTGAATGTTTGAGAT
1 ATGTGACACGTTGATTTCTCGAGATAAAGATTT-AAAAAAAAAGGGAATATTGAATGTTTGAGAT
23524783 TTTAAGAAATCGTGCCCTAACATATTGGGCAGCA
65 TTTAAGAAATCGTGCCCTAACATATTGGGCAGCA
*
23524817 ATGTGACACGTTGATTTCTCGAGATAAAGATTT-AAAAAAAAGGGAATATTGAATGTTTGGGATT
1 ATGTGACACGTTGATTTCTCGAGATAAAGATTTAAAAAAAAAGGGAATATTGAATGTTTGAGATT
*
23524881 TTAAGAAATCGTGCCCTAACGTATTGGGCA
66 TTAAGAAATCGTGCCCTAACATATTGGGCA
23524911 ACGATTTCTT
Statistics
Matches: 92, Mismatches: 2, Indels: 2
0.96 0.02 0.02
Matches are distributed among these distances:
97 59 0.64
99 33 0.36
ACGTcount: A:0.37, C:0.11, G:0.22, T:0.30
Consensus pattern (98 bp):
ATGTGACACGTTGATTTCTCGAGATAAAGATTTAAAAAAAAAGGGAATATTGAATGTTTGAGATT
TTAAGAAATCGTGCCCTAACATATTGGGCAGCA
Found at i:23543563 original size:17 final size:17
Alignment explanation
Indices: 23543514--23543551 Score: 67
Period size: 17 Copynumber: 2.2 Consensus size: 17
23543504 CATGGGATGG
*
23543514 CACATGGGCGTGTGGCT
1 CACATAGGCGTGTGGCT
23543531 CACATAGGCGTGTGGCT
1 CACATAGGCGTGTGGCT
23543548 CACA
1 CACA
23543552 CGGACGTGTG
Statistics
Matches: 20, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
17 20 1.00
ACGTcount: A:0.18, C:0.26, G:0.34, T:0.21
Consensus pattern (17 bp):
CACATAGGCGTGTGGCT
Found at i:23545079 original size:44 final size:43
Alignment explanation
Indices: 23545029--23545143 Score: 103
Period size: 44 Copynumber: 2.7 Consensus size: 43
23545019 TGTGTTATCT
*
23545029 TGTAAGACCACGTATGGGACATTGGCATCGACT-TGCGACTTACG
1 TGTAAGACCACGTATGGGACATTGGCATCGA-TATGCGA-TTACA
* * *
23545073 TGTAAGACTCTATC-TA--GGACAGTGCCATCGATATGTGATTACA
1 TGTAAGAC-C-A-CGTATGGGACATTGGCATCGATATGCGATTACA
* *
23545116 TGTAAGACCACGTCTGGGACGTTGGCAT
1 TGTAAGACCACGTATGGGACATTGGCAT
23545144 TGTACGAGAT
Statistics
Matches: 56, Mismatches: 8, Indels: 15
0.71 0.10 0.19
Matches are distributed among these distances:
40 1 0.02
41 2 0.04
42 1 0.02
43 22 0.39
44 25 0.45
45 1 0.02
46 3 0.05
47 1 0.02
ACGTcount: A:0.26, C:0.21, G:0.26, T:0.27
Consensus pattern (43 bp):
TGTAAGACCACGTATGGGACATTGGCATCGATATGCGATTACA
Found at i:23547148 original size:18 final size:19
Alignment explanation
Indices: 23547113--23547150 Score: 60
Period size: 18 Copynumber: 2.1 Consensus size: 19
23547103 TGAAAATGAA
*
23547113 TCATTTCTCATTTTCATTT
1 TCATTTCTCATTTCCATTT
23547132 TCATTTC-CATTTCCATTT
1 TCATTTCTCATTTCCATTT
23547150 T
1 T
23547151 GAGAAAACCA
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
18 11 0.61
19 7 0.39
ACGTcount: A:0.16, C:0.24, G:0.00, T:0.61
Consensus pattern (19 bp):
TCATTTCTCATTTCCATTT
Found at i:23547268 original size:19 final size:19
Alignment explanation
Indices: 23547233--23547271 Score: 60
Period size: 19 Copynumber: 2.1 Consensus size: 19
23547223 CAACGTCTAG
*
23547233 AGTGTGAATACCGCAACTA
1 AGTGTGAATACCACAACTA
*
23547252 AGTGTGAATACTACAACTA
1 AGTGTGAATACCACAACTA
23547271 A
1 A
23547272 ATATATGAAT
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
19 18 1.00
ACGTcount: A:0.41, C:0.18, G:0.18, T:0.23
Consensus pattern (19 bp):
AGTGTGAATACCACAACTA
Found at i:23549217 original size:43 final size:43
Alignment explanation
Indices: 23549170--23549253 Score: 114
Period size: 43 Copynumber: 2.0 Consensus size: 43
23549160 TATGTGATTG
*
23549170 ATATTGAAATGGAAAAGATAAAAAATGAATACGAGATGAGAAA
1 ATATTGAAATAGAAAAGATAAAAAATGAATACGAGATGAGAAA
* * * * *
23549213 ATATTGAAATAGAAAATATGATAAATGATTATGAGATGAGA
1 ATATTGAAATAGAAAAGATAAAAAATGAATACGAGATGAGA
23549254 TATGAAATGA
Statistics
Matches: 35, Mismatches: 6, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
43 35 1.00
ACGTcount: A:0.55, C:0.01, G:0.20, T:0.24
Consensus pattern (43 bp):
ATATTGAAATAGAAAAGATAAAAAATGAATACGAGATGAGAAA
Found at i:23550611 original size:49 final size:49
Alignment explanation
Indices: 23550557--23550657 Score: 157
Period size: 49 Copynumber: 2.1 Consensus size: 49
23550547 TCTAGAGAGG
** * *
23550557 ATAAATAATGATAAGATTGTAGACAGTGGAAGACTAAGTTTAGCAATGT
1 ATAAATAATGATAAGAGAGTAGACAGTGGAAGACCAAGTTTAGAAATGT
*
23550606 ATAAATAGTGATAAGAGAGTAGACAGTGGAAGACCAAGTTTAGAAATGT
1 ATAAATAATGATAAGAGAGTAGACAGTGGAAGACCAAGTTTAGAAATGT
23550655 ATA
1 ATA
23550658 GCATAATTTA
Statistics
Matches: 47, Mismatches: 5, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
49 47 1.00
ACGTcount: A:0.45, C:0.06, G:0.24, T:0.26
Consensus pattern (49 bp):
ATAAATAATGATAAGAGAGTAGACAGTGGAAGACCAAGTTTAGAAATGT
Found at i:23562093 original size:11 final size:12
Alignment explanation
Indices: 23562071--23562099 Score: 51
Period size: 11 Copynumber: 2.5 Consensus size: 12
23562061 TGCAAAAGAA
23562071 AGAAAGAAAAAG
1 AGAAAGAAAAAG
23562083 AGAAA-AAAAAG
1 AGAAAGAAAAAG
23562094 AGAAAG
1 AGAAAG
23562100 TCACGCACCG
Statistics
Matches: 16, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
11 11 0.69
12 5 0.31
ACGTcount: A:0.76, C:0.00, G:0.24, T:0.00
Consensus pattern (12 bp):
AGAAAGAAAAAG
Found at i:23564029 original size:30 final size:29
Alignment explanation
Indices: 23564006--23564124 Score: 172
Period size: 30 Copynumber: 4.1 Consensus size: 29
23563996 GTATATGTTT
*
23564006 TATATATTGCCGAATTGA-TTGTATATGGG
1 TATACATTGCCGAATTGATTTGTATAT-GG
23564035 TATACATTGCCGAATTGATTTGTATATGG
1 TATACATTGCCGAATTGATTTGTATATGG
*
23564064 ATATACATTGCCGAATTGATTTTTATATGG
1 -TATACATTGCCGAATTGATTTGTATATGG
*
23564094 -ATATATTGCCGAATTGATTTGTATAT-G
1 TATACATTGCCGAATTGATTTGTATATGG
23564121 TATA
1 TATA
23564125 TGTATACATA
Statistics
Matches: 83, Mismatches: 4, Indels: 7
0.88 0.04 0.07
Matches are distributed among these distances:
27 1 0.01
28 27 0.33
29 19 0.23
30 36 0.43
ACGTcount: A:0.29, C:0.08, G:0.19, T:0.43
Consensus pattern (29 bp):
TATACATTGCCGAATTGATTTGTATATGG
Found at i:23564112 original size:58 final size:59
Alignment explanation
Indices: 23564006--23564125 Score: 181
Period size: 58 Copynumber: 2.1 Consensus size: 59
23563996 GTATATGTTT
*
23564006 TATATATTGCCGAATTGATTGTATATGGGTATACATTGCCGAATTGATTTGTATATGGA
1 TATACATTGCCGAATTGATTGTATATGGGTATACATTGCCGAATTGATTTGTATATGGA
* * *
23564065 TATACATTGCCGAATTGATTTTTATAT-GG-ATATATTGCCGAATTGATTTGTATATGTA
1 TATACATTGCCGAATTGA-TTGTATATGGGTATACATTGCCGAATTGATTTGTATATGGA
23564123 TAT
1 TAT
23564126 GTATACATAT
Statistics
Matches: 56, Mismatches: 4, Indels: 3
0.89 0.06 0.05
Matches are distributed among these distances:
58 30 0.54
59 19 0.34
60 7 0.12
ACGTcount: A:0.29, C:0.08, G:0.19, T:0.43
Consensus pattern (59 bp):
TATACATTGCCGAATTGATTGTATATGGGTATACATTGCCGAATTGATTTGTATATGGA
Done.