Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: D12
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: 63843421
ACGTcount: A:0.32, C:0.16, G:0.16, T:0.32
Warning! 1690000 characters in sequence are not A, C, G, or T
File 86 of 214
Found at i:24475973 original size:50 final size:49
Alignment explanation
Indices: 24475893--24476027 Score: 137
Period size: 50 Copynumber: 2.7 Consensus size: 49
24475883 CAATGTCATA
* ** * *
24475893 TCCCAGATATGGTCTTAC-ATGGGAGTTCTCATAACGGTGCCCATGCCATG
1 TCCCAGACAT-GTCTTACGA-GGGACCTCTCATAACGGTGCCAACGCCATG
**
24475943 TCCCAGACATAGTCTTACGAGGGACCTCTCATCTCGGTGCCAACGCCATG
1 TCCCAGACAT-GTCTTACGAGGGACCTCTCATAACGGTGCCAACGCCATG
* * *
24475993 TCCTACACATGATCTTACGTGGGACCTCTCATAAC
1 TCCCAGACATG-TCTTACGAGGGACCTCTCATAAC
24476028 CTCAATAATG
Statistics
Matches: 70, Mismatches: 13, Indels: 4
0.80 0.15 0.05
Matches are distributed among these distances:
49 1 0.01
50 68 0.97
51 1 0.01
ACGTcount: A:0.23, C:0.30, G:0.21, T:0.26
Consensus pattern (49 bp):
TCCCAGACATGTCTTACGAGGGACCTCTCATAACGGTGCCAACGCCATG
Found at i:24481402 original size:13 final size:13
Alignment explanation
Indices: 24481384--24481410 Score: 54
Period size: 13 Copynumber: 2.1 Consensus size: 13
24481374 CGCTCTGCAA
24481384 GCCGAAGACGTAT
1 GCCGAAGACGTAT
24481397 GCCGAAGACGTAT
1 GCCGAAGACGTAT
24481410 G
1 G
24481411 TGAATAGATT
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:0.30, C:0.22, G:0.33, T:0.15
Consensus pattern (13 bp):
GCCGAAGACGTAT
Found at i:24491451 original size:20 final size:20
Alignment explanation
Indices: 24491398--24491451 Score: 67
Period size: 20 Copynumber: 2.8 Consensus size: 20
24491388 TTAAATCAAG
24491398 AAAAAAAAAGAAAAAACAAC
1 AAAAAAAAAGAAAAAACAAC
* *
24491418 GAAACAAAAGAAAAAAC--C
1 AAAAAAAAAGAAAAAACAAC
24491436 AAAAAAAGAAGAAAAA
1 AAAAAAA-AAGAAAAA
24491452 TTAGAGAGAG
Statistics
Matches: 29, Mismatches: 4, Indels: 3
0.81 0.11 0.08
Matches are distributed among these distances:
18 6 0.21
19 8 0.28
20 15 0.52
ACGTcount: A:0.81, C:0.09, G:0.09, T:0.00
Consensus pattern (20 bp):
AAAAAAAAAGAAAAAACAAC
Found at i:24491913 original size:42 final size:42
Alignment explanation
Indices: 24491854--24491990 Score: 195
Period size: 42 Copynumber: 3.3 Consensus size: 42
24491844 AAGGAAAGCA
** *
24491854 TTCATTGCATTTAGAGGCCCAAGCATGTAGGTCCATTTA-TAT
1 TTCATTGCATTTAGAGGCCCAAGTGTGGAGGTCCATTTACT-T
* *
24491896 TTCATTGCATTTAGAGGCCCAAGTGTGGATGTTCATTTACTT
1 TTCATTGCATTTAGAGGCCCAAGTGTGGAGGTCCATTTACTT
* *
24491938 TTCATTGCATTTAGAGGCTCAGGTGTGGAGGTCCATTTACTT
1 TTCATTGCATTTAGAGGCCCAAGTGTGGAGGTCCATTTACTT
24491980 TTCATTGCATT
1 TTCATTGCATT
24491991 GTACACGAAG
Statistics
Matches: 85, Mismatches: 9, Indels: 2
0.89 0.09 0.02
Matches are distributed among these distances:
42 84 0.99
43 1 0.01
ACGTcount: A:0.22, C:0.18, G:0.21, T:0.39
Consensus pattern (42 bp):
TTCATTGCATTTAGAGGCCCAAGTGTGGAGGTCCATTTACTT
Found at i:24492946 original size:53 final size:53
Alignment explanation
Indices: 24492888--24493056 Score: 155
Period size: 53 Copynumber: 3.2 Consensus size: 53
24492878 ACTAAGTTTA
*
24492888 GATTTTTTTTCAACTATTTCGAAATAAAAGTTTTGATTTTTAAGAAAAATAGT
1 GATTTTTTTTCAACTATTTCGAAATAAAAGTTTTGATTTTTAAGAAAAGTAGT
* ** ***** * * **
24492941 GA--TTTTTTAAAAGAAAAAAAAAGAGAAAGTTTAGACTTTTTTAA-AAAAGTTTT
1 GATTTTTTTTCAACTATTTCGAAATA-AAAGTTTTGA--TTTTTAAGAAAAGTAGT
*
24492994 GATTTTTTTTTCAACTATTTCGAAATAAAAGTTTTGATCTTTAAGAAAAGTAGT
1 GA-TTTTTTTTCAACTATTTCGAAATAAAAGTTTTGATTTTTAAGAAAAGTAGT
24493048 GATTTTTTT
1 GATTTTTTT
24493057 AAAGGAAAAA
Statistics
Matches: 83, Mismatches: 26, Indels: 14
0.67 0.21 0.11
Matches are distributed among these distances:
51 13 0.16
52 9 0.11
53 23 0.28
54 16 0.19
55 9 0.11
56 13 0.16
ACGTcount: A:0.39, C:0.05, G:0.12, T:0.44
Consensus pattern (53 bp):
GATTTTTTTTCAACTATTTCGAAATAAAAGTTTTGATTTTTAAGAAAAGTAGT
Found at i:24493024 original size:107 final size:107
Alignment explanation
Indices: 24492881--24493096 Score: 339
Period size: 107 Copynumber: 2.0 Consensus size: 107
24492871 TTTGAAAACT
*
24492881 AAGTTTAGATTTTTTTTCAACTATTTCGAAATAAAAGTTTTGATTTTTAAGAAAAATAGTGA-TT
1 AAGTTTAGATTTTTTTTCAACTATTTCGAAATAAAAGTTTTGATCTTTAAGAAAAATAGTGATTT
*
24492945 TTTTAAA-AGAAAAAAA-AAGAGAAAGTTTAGACTTTTTTAAAA
66 TTTTAAAGAAAAAAAAAGAAGAGAAAGTTTAGA--TTTTTAAAA
* *
24492987 AAGTTTTGATTTTTTTTTCAACTATTTCGAAATAAAAGTTTTGATCTTTAAGAAAAGTAGTGATT
1 AAGTTTAGA-TTTTTTTTCAACTATTTCGAAATAAAAGTTTTGATCTTTAAGAAAAATAGTGATT
24493052 TTTTTAAAGGAAAAAAAAAGAAGAGAAAGTTTAGATTTTTAAAA
65 TTTTTAAA-GAAAAAAAAAGAAGAGAAAGTTTAGATTTTTAAAA
24493096 A
1 A
24493097 TAAAAATTTG
Statistics
Matches: 101, Mismatches: 4, Indels: 7
0.90 0.04 0.06
Matches are distributed among these distances:
106 8 0.08
107 51 0.50
108 9 0.09
109 10 0.10
110 8 0.08
111 15 0.15
ACGTcount: A:0.44, C:0.04, G:0.13, T:0.39
Consensus pattern (107 bp):
AAGTTTAGATTTTTTTTCAACTATTTCGAAATAAAAGTTTTGATCTTTAAGAAAAATAGTGATTT
TTTTAAAGAAAAAAAAAGAAGAGAAAGTTTAGATTTTTAAAA
Found at i:24493051 original size:54 final size:54
Alignment explanation
Indices: 24492890--24493056 Score: 153
Period size: 54 Copynumber: 3.1 Consensus size: 54
24492880 TAAGTTTAGA
*
24492890 TTTTTTTTCAACTATTTCGAAATAAAAGTTTTGATTTTTAAGAAAAATAGTGA-
1 TTTTTTTTCAACTATTTCGAAATAAAAGTTTTGATTTTTAAGAAAAGTAGTGAT
* ** ***** * * **
24492943 --TTTTTTAAAAGAAAAAAAAAGAGAAAGTTTAGACTTTTTTAA-AAAAGTTTTGAT
1 TTTTTTTTCAACTATTTCGAAATA-AAAGTTTTGA--TTTTTAAGAAAAGTAGTGAT
*
24492997 TTTTTTTTCAACTATTTCGAAATAAAAGTTTTGATCTTTAAGAAAAGTAGTGAT
1 TTTTTTTTCAACTATTTCGAAATAAAAGTTTTGATTTTTAAGAAAAGTAGTGAT
24493051 TTTTTT
1 TTTTTT
24493057 AAAGGAAAAA
Statistics
Matches: 81, Mismatches: 26, Indels: 13
0.68 0.22 0.11
Matches are distributed among these distances:
51 13 0.16
52 9 0.11
53 14 0.17
54 23 0.28
55 9 0.11
56 13 0.16
ACGTcount: A:0.39, C:0.05, G:0.12, T:0.44
Consensus pattern (54 bp):
TTTTTTTTCAACTATTTCGAAATAAAAGTTTTGATTTTTAAGAAAAGTAGTGAT
Found at i:24493357 original size:21 final size:21
Alignment explanation
Indices: 24493333--24493390 Score: 64
Period size: 21 Copynumber: 2.7 Consensus size: 21
24493323 ATTTCGAAAT
*
24493333 AAAGCTTTGATTTTT-TTAAGA
1 AAAG-TTTGATTTTTCTAAAGA
*
24493354 AAAGTAGTGATTTTTCTAAAGA
1 AAAGT-TTGATTTTTCTAAAGA
*
24493376 AAATTTTGATTTTTC
1 AAAGTTTGATTTTTC
24493391 AAAATATATA
Statistics
Matches: 31, Mismatches: 4, Indels: 4
0.79 0.10 0.10
Matches are distributed among these distances:
20 1 0.03
21 21 0.68
22 9 0.29
ACGTcount: A:0.34, C:0.05, G:0.14, T:0.47
Consensus pattern (21 bp):
AAAGTTTGATTTTTCTAAAGA
Found at i:24493368 original size:153 final size:153
Alignment explanation
Indices: 24492960--24493378 Score: 531
Period size: 160 Copynumber: 2.7 Consensus size: 153
24492950 AAAGAAAAAA
* *
24492960 AAAGAGAAAGTTTAGACTTTTTTAAAAAAGTTTTGATTTTTTTTTCAACTATTTCGAAATAAAAG
1 AAAGA-AAAGTTTA-AATTTTTAAAAAAAGTTTTGA--TTTTTTTCAACTATTTCGAAATAAAAG
* *
24493025 TTTTGATCTTTAAGAAAAGTAGTGATTTTTTTAAAGGAAAAAAAAAGAAGAGAAAGTTTAGATTT
62 CTTTGATCTTTAAGAAAAGTAGTGATTTTTTTAAAAG-AAAAAAAAGAAGAGAAAGTTTAGATTT
** *
24493090 TTAAAAATAAAAATTTGTTTTATTAGTCATTTT
126 TTAAAAATAAAAA-----TAAATTAGTAATTTT
* * * * *
24493123 AAAGGAAATTTTAAATTTTTAAAATAAAATTTTAATTTTTTTCTACTATTTCGAAATAAAAGCTT
1 AAAGAAAAGTTTAAATTTTTAAAA-AAAGTTTTGATTTTTTTCAACTATTTCGAAATAAAAGCTT
*
24493188 TGATCTTTAAGAAAATTAGTGATTTTTTTAAAAGAAAAAAAA-AAGAGAAAGTTTAGATTTTTAA
65 TGATCTTTAAGAAAAGTAGTGATTTTTTTAAAAGAAAAAAAAGAAGAGAAAGTTTAGATTTTTAA
24493252 AAATAAAAA-AAATTAGTAATTTT
130 AAATAAAAATAAATTAGTAATTTT
*
24493275 CAAGCAAAAGTTTAAATTTTTAAAACAAAGTTTTGATTTTTTTCAACTATTTCGAAAT-AAAGCT
1 AAAG-AAAAGTTTAAATTTTTAAAA-AAAGTTTTGATTTTTTTCAACTATTTCGAAATAAAAGCT
* *
24493339 TTGATTTTTTTAAGAAAAGTAGTGATTTTTCT-AAAGAAAA
64 TTGA--TCTTTAAGAAAAGTAGTGATTTTTTTAAAAGAAAA
24493379 TTTTGATTTT
Statistics
Matches: 229, Mismatches: 23, Indels: 18
0.85 0.09 0.07
Matches are distributed among these distances:
152 24 0.10
153 55 0.24
154 23 0.10
158 31 0.14
159 8 0.03
160 60 0.26
161 9 0.04
162 15 0.07
163 4 0.02
ACGTcount: A:0.44, C:0.05, G:0.11, T:0.40
Consensus pattern (153 bp):
AAAGAAAAGTTTAAATTTTTAAAAAAAGTTTTGATTTTTTTCAACTATTTCGAAATAAAAGCTTT
GATCTTTAAGAAAAGTAGTGATTTTTTTAAAAGAAAAAAAAGAAGAGAAAGTTTAGATTTTTAAA
AATAAAAATAAATTAGTAATTTT
Found at i:24499517 original size:20 final size:20
Alignment explanation
Indices: 24499474--24499560 Score: 56
Period size: 20 Copynumber: 4.3 Consensus size: 20
24499464 CGCTTTTTTG
* * *
24499474 CTCTCAATCCCTTTTTGCTCT
1 CTCTCATTCTCTTTTT-CTTT
24499495 CTCTCATTCTCTTTTTCTTT
1 CTCTCATTCTCTTTTTCTTT
* *
24499515 CTC-GA-TCTCTTTTACTTTTT
1 CTCTCATTCTCTTTT--TCTTT
24499535 CTCTCATT-TCCTTTTT-TCTT
1 CTCTCATTCT-CTTTTTCT-TT
24499555 CTCTCA
1 CTCTCA
24499561 ATTTCATTTA
Statistics
Matches: 54, Mismatches: 6, Indels: 13
0.74 0.08 0.18
Matches are distributed among these distances:
18 8 0.15
19 2 0.04
20 22 0.41
21 16 0.30
22 6 0.11
ACGTcount: A:0.08, C:0.32, G:0.02, T:0.57
Consensus pattern (20 bp):
CTCTCATTCTCTTTTTCTTT
Found at i:24500545 original size:22 final size:21
Alignment explanation
Indices: 24500504--24500554 Score: 59
Period size: 22 Copynumber: 2.4 Consensus size: 21
24500494 CTTTCAAGAC
*
24500504 TTTTTTTTAACTTCATAATAAA
1 TTTTTTTTAACTTCAGAAT-AA
*
24500526 TTTTTTTTATACTTC-GAATAT
1 TTTTTTTTA-ACTTCAGAATAA
24500547 TTTTTTTT
1 TTTTTTTT
24500555 CAATTACAAT
Statistics
Matches: 26, Mismatches: 2, Indels: 3
0.84 0.06 0.10
Matches are distributed among these distances:
21 9 0.35
22 12 0.46
23 5 0.19
ACGTcount: A:0.25, C:0.08, G:0.02, T:0.65
Consensus pattern (21 bp):
TTTTTTTTAACTTCAGAATAA
Found at i:24512886 original size:110 final size:111
Alignment explanation
Indices: 24512674--24512886 Score: 261
Period size: 110 Copynumber: 1.9 Consensus size: 111
24512664 GAATTATAGA
* *
24512674 TAATATAATTCGCTTTGTATATAAAAATATATTTTAATTATTTCTCAGCTAAATTGATACACAAT
1 TAATATAATTCACTTTGTATATAAAAATATATTTTAATTATTTCTCAGCTAAATTAATACACAAT
* * * *
24512739 TTACTCGTAACATCAATTCAATTAGCAACGTAAATATAATACACAT
66 TAACTCGTAAAATCAACTCAATTAACAACGTAAATATAATACACAT
* * * ***
24512785 TAATATAATTTACTTTGTATAT-AAAATAATATTTTAGTTATTT-TTAGCTAAATTAATATTGAA
1 TAATATAATTCACTTTGTATATAAAAAT-ATATTTTAATTATTTCTCAGCTAAATTAATACACAA
* *
24512848 TTAACTCGTAATAAT-AACTCAATTAATAACTTAAATATA
65 TTAACTCGTAA-AATCAACTCAATTAACAACGTAAATATA
24512887 TTATAAAAAT
Statistics
Matches: 86, Mismatches: 14, Indels: 5
0.82 0.13 0.05
Matches are distributed among these distances:
110 50 0.58
111 36 0.42
ACGTcount: A:0.43, C:0.11, G:0.06, T:0.41
Consensus pattern (111 bp):
TAATATAATTCACTTTGTATATAAAAATATATTTTAATTATTTCTCAGCTAAATTAATACACAAT
TAACTCGTAAAATCAACTCAATTAACAACGTAAATATAATACACAT
Found at i:24519275 original size:16 final size:15
Alignment explanation
Indices: 24519236--24519281 Score: 56
Period size: 16 Copynumber: 2.9 Consensus size: 15
24519226 ACTACTCAAG
*
24519236 TATTAAAATTTGTTAT
1 TATT-AAATTTGTTAC
24519252 TATTAAATTGTGTTAC
1 TATTAAATT-TGTTAC
24519268 TATTAAATTCTGTT
1 TATTAAATT-TGTT
24519282 TAGATTATAG
Statistics
Matches: 27, Mismatches: 2, Indels: 2
0.87 0.06 0.06
Matches are distributed among these distances:
15 5 0.19
16 22 0.81
ACGTcount: A:0.33, C:0.04, G:0.09, T:0.54
Consensus pattern (15 bp):
TATTAAATTTGTTAC
Found at i:24522311 original size:21 final size:20
Alignment explanation
Indices: 24522286--24522338 Score: 54
Period size: 20 Copynumber: 2.6 Consensus size: 20
24522276 TTTAATGTTT
24522286 AAAAATTATGAGTGATA-TACC
1 AAAAATTATGAG-GA-AGTACC
* * *
24522307 AAAAAATACGAGGAAGTGCC
1 AAAAATTATGAGGAAGTACC
24522327 AAAAATTATGAG
1 AAAAATTATGAG
24522339 AGAGAACTAA
Statistics
Matches: 26, Mismatches: 5, Indels: 3
0.76 0.15 0.09
Matches are distributed among these distances:
19 1 0.04
20 15 0.58
21 10 0.38
ACGTcount: A:0.51, C:0.09, G:0.19, T:0.21
Consensus pattern (20 bp):
AAAAATTATGAGGAAGTACC
Found at i:24523099 original size:20 final size:20
Alignment explanation
Indices: 24523071--24523312 Score: 164
Period size: 20 Copynumber: 12.2 Consensus size: 20
24523061 AAAAAAATAT
24523071 AAAAA-TATGAGAGAATACA
1 AAAAATTATGAGAGAATACA
* * *
24523090 AAAAATTATGGGAAAATACC
1 AAAAATTATGAGAGAATACA
* *
24523110 AAAAATT-T-AGGGAATACC
1 AAAAATTATGAGAGAATACA
24523128 AAAAATTATGAGAGAATACA
1 AAAAATTATGAGAGAATACA
* *
24523148 AAAATTTATGAGA-AAGTAAAA
1 AAAAATTATGAGAGAA-T-ACA
*
24523169 AAAAATTATGA-AGGAATATA
1 AAAAATTATGAGA-GAATACA
*
24523189 AAAAAATATGAG-GAAGTACA
1 AAAAATTATGAGAGAA-TACA
* * * *
24523209 AAAAAATATGTTG-TAATACC
1 AAAAATTATG-AGAGAATACA
* * *
24523229 AGAAA-TATGAGAAAATACT
1 AAAAATTATGAGAGAATACA
*
24523248 AAAAATTATGAGGGAATATCA
1 AAAAATTATGAGAGAATA-CA
* *
24523269 AAAAATGATGAGGGAATATCA
1 AAAAATTATGAGAGAATA-CA
24523290 AAAAATT-TGAG-GAAGTA-A
1 AAAAATTATGAGAGAA-TACA
24523308 AAAAA
1 AAAAA
24523313 AAAAAGAAAA
Statistics
Matches: 182, Mismatches: 27, Indels: 29
0.76 0.11 0.12
Matches are distributed among these distances:
18 21 0.12
19 28 0.15
20 88 0.48
21 43 0.24
22 2 0.01
ACGTcount: A:0.57, C:0.05, G:0.17, T:0.21
Consensus pattern (20 bp):
AAAAATTATGAGAGAATACA
Found at i:24523107 original size:30 final size:30
Alignment explanation
Indices: 24523035--24523094 Score: 90
Period size: 30 Copynumber: 2.1 Consensus size: 30
24523025 AGTTATGAGC
24523035 AAATATCAAAAAT-TGAGAGGAATTACAAAA
1 AAATAT-AAAAATATGAGAGGAATTACAAAA
24523065 AAATATAAAAATATGAGA-GAA-TACAAAA
1 AAATATAAAAATATGAGAGGAATTACAAAA
24523093 AA
1 AA
24523095 TTATGGGAAA
Statistics
Matches: 29, Mismatches: 0, Indels: 4
0.88 0.00 0.12
Matches are distributed among these distances:
28 9 0.31
29 9 0.31
30 11 0.38
ACGTcount: A:0.65, C:0.05, G:0.12, T:0.18
Consensus pattern (30 bp):
AAATATAAAAATATGAGAGGAATTACAAAA
Found at i:24523107 original size:68 final size:67
Alignment explanation
Indices: 24523002--24523132 Score: 158
Period size: 68 Copynumber: 1.9 Consensus size: 67
24522992 GAAATATAAA
* * * *
24523002 AAAAATTATGAGGAGATACAAACAGTTATGAGCAAATATCAAAAATTGAGAGGAATTACAAAAAA
1 AAAAATTATGAGGAGATACAAAAAATTATGAGAAAATACCAAAAATTGAG-GGAA-TACAAAAAA
24523067 ATAT
64 ATAT
* * *
24523071 AAAAA-TATGA-GAGAATACAAAAAATTATGGGAAAATACCAAAAATTTAGGGAATACCAAAAA
1 AAAAATTATGAGGAG-ATACAAAAAATTATGAGAAAATACCAAAAATTGAGGGAATACAAAAAA
24523133 TTATGAGAGA
Statistics
Matches: 54, Mismatches: 7, Indels: 5
0.82 0.11 0.08
Matches are distributed among these distances:
66 8 0.15
67 7 0.13
68 34 0.63
69 5 0.09
ACGTcount: A:0.57, C:0.08, G:0.15, T:0.20
Consensus pattern (67 bp):
AAAAATTATGAGGAGATACAAAAAATTATGAGAAAATACCAAAAATTGAGGGAATACAAAAAAAT
AT
Found at i:24523140 original size:58 final size:58
Alignment explanation
Indices: 24523071--24523280 Score: 165
Period size: 61 Copynumber: 3.6 Consensus size: 58
24523061 AAAAAAATAT
* *
24523071 AAAAA-TATGAGAGAATACAAAAAATTATGGGAAAATACCAAAAATTTAGGGAATACC
1 AAAAATTATGAGAGAATACAAAAAATTATGAGAAAATACCAAAAATTTAGGGAATACA
* * ** * *
24523128 AAAAATTATGAGAGAATACAAAAATTTATGAGAAAGTAAAAAAAAATTATGAAGGAATATA
1 AAAAATTATGAGAGAATACAAAAAATTATGAGAAAAT-ACCAAAAATT-T-AGGGAATACA
* * * * * * ** *
24523189 AAAAAATATGAG-GAAGTACAAAAAAATATGTTG-TAATACCAGAAATATGAGAAAATACT
1 AAAAATTATGAGAGAA-TACAAAAAATTATG-AGAAAATACCAAAAAT-TTAGGGAATACA
* *
24523248 AAAAATTATGAGGGAATATCAAAAAATGATGAG
1 AAAAATTATGAGAGAATA-CAAAAAATTATGAG
24523281 GGAATATCAA
Statistics
Matches: 117, Mismatches: 27, Indels: 16
0.73 0.17 0.10
Matches are distributed among these distances:
57 5 0.04
58 28 0.24
59 27 0.23
60 23 0.20
61 33 0.28
62 1 0.01
ACGTcount: A:0.57, C:0.05, G:0.16, T:0.21
Consensus pattern (58 bp):
AAAAATTATGAGAGAATACAAAAAATTATGAGAAAATACCAAAAATTTAGGGAATACA
Found at i:24523246 original size:100 final size:101
Alignment explanation
Indices: 24523122--24523314 Score: 257
Period size: 100 Copynumber: 1.9 Consensus size: 101
24523112 AAATTTAGGG
* *
24523122 AATACCAAAAATTATGAGAGAATAC-AAAAATTTATGA-GAAAGTAAAAAAAAATTATGAAGGAA
1 AATACCAAAAATTATGAGAAAATACTAAAAA-TTATGAGGAAA-TAAAAAAAAATGATGAAGGAA
*
24523185 TATAAAAAAATATGAGGAAGTACAAAAAAATATGTTGT
64 TATAAAAAAATATGAGGAAGTAAAAAAAAATATGTTGT
* * ** *
24523223 AATACCAGAAA-TATGAGAAAATACTAAAAATTATGAGGGAATATCAAAAAATGATGAGGGAATA
1 AATACCAAAAATTATGAGAAAATACTAAAAATTATGAGGAAATAAAAAAAAATGATGAAGGAATA
* *
24523287 TCAAAAAATTTGAGGAAGTAAAAAAAAA
66 TAAAAAAATATGAGGAAGTAAAAAAAAA
24523315 AAAGAAAAGA
Statistics
Matches: 80, Mismatches: 10, Indels: 5
0.84 0.11 0.05
Matches are distributed among these distances:
100 62 0.77
101 18 0.22
ACGTcount: A:0.58, C:0.05, G:0.16, T:0.21
Consensus pattern (101 bp):
AATACCAAAAATTATGAGAAAATACTAAAAATTATGAGGAAATAAAAAAAAATGATGAAGGAATA
TAAAAAAATATGAGGAAGTAAAAAAAAATATGTTGT
Found at i:24523280 original size:41 final size:39
Alignment explanation
Indices: 24523071--24523301 Score: 162
Period size: 41 Copynumber: 5.8 Consensus size: 39
24523061 AAAAAAATAT
* * *
24523071 AAAAATATGAGAGAATACAAAAAATTATG-GGAAAATACC
1 AAAAATATGAGAAAATACAAAAAATTATGAGG-GAATACA
* ** * *
24523110 AAAAAT-TTAGGGAATACCAAAAATTATGAGAGAATACA
1 AAAAATATGAGAAAATACAAAAAATTATGAGGGAATACA
* * * * *
24523148 AAAATTTATGAGAAAGTAAAAAAAAATTATGAAGGAATATAA
1 AAAA-ATATGAGAAAAT-ACAAAAAATTATGAGGGAATA-CA
* * * ** * *
24523190 AAAAATATGAGGAAGTACAAAAAAATATGTTGTAATACC
1 AAAAATATGAGAAAATACAAAAAATTATGAGGGAATACA
* *
24523229 AGAAATATGAGAAAATACTAAAAATTATGAGGGAATATCA
1 AAAAATATGAGAAAATACAAAAAATTATGAGGGAATA-CA
**
24523269 AAAAATGATGAGGGAATATCAAAAAATT-TGAGG
1 AAAAAT-ATGAGAAAATA-CAAAAAATTATGAGG
24523302 AAGTAAAAAA
Statistics
Matches: 146, Mismatches: 38, Indels: 14
0.74 0.19 0.07
Matches are distributed among these distances:
38 28 0.19
39 37 0.25
40 27 0.18
41 41 0.28
42 13 0.09
ACGTcount: A:0.56, C:0.05, G:0.17, T:0.22
Consensus pattern (39 bp):
AAAAATATGAGAAAATACAAAAAATTATGAGGGAATACA
Found at i:24524500 original size:9 final size:9
Alignment explanation
Indices: 24524485--24524526 Score: 50
Period size: 9 Copynumber: 4.7 Consensus size: 9
24524475 TGTTCAAATC
24524485 ATAATTATT
1 ATAATTATT
*
24524494 CTAATTA-T
1 ATAATTATT
*
24524502 ATTAATTATG
1 A-TAATTATT
24524512 ATAATTATT
1 ATAATTATT
24524521 ATAATT
1 ATAATT
24524527 GTAATTGTAA
Statistics
Matches: 27, Mismatches: 4, Indels: 4
0.77 0.11 0.11
Matches are distributed among these distances:
8 1 0.04
9 25 0.93
10 1 0.04
ACGTcount: A:0.43, C:0.02, G:0.02, T:0.52
Consensus pattern (9 bp):
ATAATTATT
Found at i:24526060 original size:124 final size:124
Alignment explanation
Indices: 24525766--24526206 Score: 722
Period size: 125 Copynumber: 3.5 Consensus size: 124
24525756 GATAAAATCA
* * * *
24525766 AAGCAGGATGCTTTATTAGAAGAATTTCTGAAATCGCGCCCACGTGGACACGCTTTTGCTACAAT
1 AAGCAGGATGCTTTATCAGAAGAATTTCTAAAATCGCGCCCACGTGGACGCGCTTTTGCTACAGT
*
24525831 AGGTCCTGAAAAAATAATTTCGAGTTGACGTTTTTGAGAAAATAGTATAAAAAATGCTTC
66 AGGTCCTGAAAAAATAATTTCGAGTTGACGTTTCTGA-AAAATAGTATAAAAAATGCTTC
* * *
24525891 AGGCAGGATGCTTTATCAGAAGAATTTCTGAAATCGCGCCCACGTGGACGCGCTTTTGCTATAGT
1 AAGCAGGATGCTTTATCAGAAGAATTTCTAAAATCGCGCCCACGTGGACGCGCTTTTGCTACAGT
*
24525956 AGGTCCTGAAAAAATAATTTCGAGTTGATGTTTCTGAACAAATAGTAT-AAAAATGCTTC
66 AGGTCCTGAAAAAATAATTTCGAGTTGACGTTTCTGAA-AAATAGTATAAAAAATGCTTC
*
24526015 AAGCAGGATGCTTTATCAGAAGAATTTCTAAAATCGCGCCCACGTGGACGCACTTTTGCTACAGT
1 AAGCAGGATGCTTTATCAGAAGAATTTCTAAAATCGCGCCCACGTGGACGCGCTTTTGCTACAGT
* * *
24526080 AGGTCTTGAAAAAATAATTTCGAGTTGACGTTTCTGAGTAAATAGTATAAAAAACGCTTC
66 AGGTCCTGAAAAAATAATTTCGAGTTGACGTTTCTGA-AAAATAGTATAAAAAATGCTTC
*
24526140 AAGCAGGATGCTTTATCAGAAGAATTTCTAAAATCGCGCCCTCGTGGACGCGCTTTTGCTACAGT
1 AAGCAGGATGCTTTATCAGAAGAATTTCTAAAATCGCGCCCACGTGGACGCGCTTTTGCTACAGT
24526205 AG
66 AG
24526207 CATGTTTGGG
Statistics
Matches: 296, Mismatches: 17, Indels: 6
0.93 0.05 0.02
Matches are distributed among these distances:
124 117 0.40
125 179 0.60
ACGTcount: A:0.32, C:0.18, G:0.21, T:0.29
Consensus pattern (124 bp):
AAGCAGGATGCTTTATCAGAAGAATTTCTAAAATCGCGCCCACGTGGACGCGCTTTTGCTACAGT
AGGTCCTGAAAAAATAATTTCGAGTTGACGTTTCTGAAAAATAGTATAAAAAATGCTTC
Found at i:24529272 original size:19 final size:19
Alignment explanation
Indices: 24529248--24529298 Score: 56
Period size: 16 Copynumber: 2.8 Consensus size: 19
24529238 ATCTAACATT
24529248 TTGTTAGTAAAATTATTAA
1 TTGTTAGTAAAATTATTAA
*
24529267 TTG-T--T-AATTGTATTAA
1 TTGTTAGTAAAAT-TATTAA
24529283 TTGTTAGTAAAATTAT
1 TTGTTAGTAAAATTAT
24529299 CAAATTATTA
Statistics
Matches: 25, Mismatches: 2, Indels: 10
0.68 0.05 0.27
Matches are distributed among these distances:
15 3 0.12
16 10 0.40
17 1 0.04
18 1 0.04
19 7 0.28
20 3 0.12
ACGTcount: A:0.37, C:0.00, G:0.12, T:0.51
Consensus pattern (19 bp):
TTGTTAGTAAAATTATTAA
Found at i:24529391 original size:102 final size:102
Alignment explanation
Indices: 24529215--24529408 Score: 343
Period size: 102 Copynumber: 1.9 Consensus size: 102
24529205 TATTTTTTTC
24529215 TACCAATCAAAACATTTTGGAAAATCTAACATTTTGTTAGTAAAATTATTAATTGTTAATTGTAT
1 TACCAATCAAAACATTTTGGAAAATCTAACATTTTGTTAGTAAAATTATTAATTGTTAATTGTAT
24529280 TAATTGTTAGTAAAATTATCAAATTATTAATCGTTAG
66 TAATTGTTAGTAAAATTATCAAATTATTAATCGTTAG
* * * *
24529317 TACCAATCAAAATATTTTGTAAAATCTAACATTTTGTTAGTCAAATTATTAATTTTTAATTGTAT
1 TACCAATCAAAACATTTTGGAAAATCTAACATTTTGTTAGTAAAATTATTAATTGTTAATTGTAT
*
24529382 TAATTGTTAGTAAATTTATCAAATTAT
66 TAATTGTTAGTAAAATTATCAAATTAT
24529409 ATCATATTAG
Statistics
Matches: 87, Mismatches: 5, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
102 87 1.00
ACGTcount: A:0.40, C:0.08, G:0.08, T:0.44
Consensus pattern (102 bp):
TACCAATCAAAACATTTTGGAAAATCTAACATTTTGTTAGTAAAATTATTAATTGTTAATTGTAT
TAATTGTTAGTAAAATTATCAAATTATTAATCGTTAG
Found at i:24529484 original size:15 final size:15
Alignment explanation
Indices: 24529464--24529523 Score: 74
Period size: 15 Copynumber: 4.2 Consensus size: 15
24529454 GGGTTTTAGT
24529464 GTTTTTAAGTTAAGG
1 GTTTTTAAGTTAAGG
24529479 GTTTTTAAGTTAAGG
1 GTTTTTAAGTTAAGG
*
24529494 G---TTACGGTT-AGG
1 GTTTTTA-AGTTAAGG
24529506 GTTTTTAAGTTAAGG
1 GTTTTTAAGTTAAGG
24529521 GTT
1 GTT
24529524 AGGGTTTTTA
Statistics
Matches: 38, Mismatches: 2, Indels: 10
0.76 0.04 0.20
Matches are distributed among these distances:
12 7 0.18
13 3 0.08
14 3 0.08
15 25 0.66
ACGTcount: A:0.23, C:0.02, G:0.30, T:0.45
Consensus pattern (15 bp):
GTTTTTAAGTTAAGG
Found at i:24529507 original size:27 final size:27
Alignment explanation
Indices: 24529476--24529529 Score: 99
Period size: 27 Copynumber: 2.0 Consensus size: 27
24529466 TTTTAAGTTA
24529476 AGGGTTTTTAAGTTAAGGGTTACGGTT
1 AGGGTTTTTAAGTTAAGGGTTACGGTT
*
24529503 AGGGTTTTTAAGTTAAGGGTTAGGGTT
1 AGGGTTTTTAAGTTAAGGGTTACGGTT
24529530 TTTAAGTTAA
Statistics
Matches: 26, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
27 26 1.00
ACGTcount: A:0.22, C:0.02, G:0.35, T:0.41
Consensus pattern (27 bp):
AGGGTTTTTAAGTTAAGGGTTACGGTT
Found at i:24529524 original size:21 final size:21
Alignment explanation
Indices: 24529499--24529735 Score: 390
Period size: 21 Copynumber: 11.4 Consensus size: 21
24529489 TAAGGGTTAC
24529499 GGTTAGGGTTTTTAAGTTAAG
1 GGTTAGGGTTTTTAAGTTAAG
24529520 GGTTAGGGTTTTTAAGTTAAG
1 GGTTAGGGTTTTTAAGTTAAG
* *
24529541 CGTTAAGGTTTTTAAGTTAA-
1 GGTTAGGGTTTTTAAGTTAAG
24529561 GGTTAGGGTTTTTAAGTTAA-
1 GGTTAGGGTTTTTAAGTTAAG
24529581 GGTTAGGGTTTTTAAGTTAAG
1 GGTTAGGGTTTTTAAGTTAAG
24529602 GGTTAGGGTTTTTAAGTTAAG
1 GGTTAGGGTTTTTAAGTTAAG
24529623 GGTTA-GGTTTTTAAGTTAAG
1 GGTTAGGGTTTTTAAGTTAAG
*
24529643 GGTTAGAGTTTTTAAGTTAAG
1 GGTTAGGGTTTTTAAGTTAAG
*
24529664 TGTTAGGGTTTTTAAGTTAAG
1 GGTTAGGGTTTTTAAGTTAAG
24529685 GGTTTAGGGTTTTTAAGTTAAG
1 GG-TTAGGGTTTTTAAGTTAAG
*
24529707 GGTTAGAGTTTTTAAGTTAAG
1 GGTTAGGGTTTTTAAGTTAAG
*
24529728 TGTTAGGG
1 GGTTAGGG
24529736 GGTTAGAGTT
Statistics
Matches: 202, Mismatches: 11, Indels: 6
0.92 0.05 0.03
Matches are distributed among these distances:
20 58 0.29
21 123 0.61
22 21 0.10
ACGTcount: A:0.25, C:0.00, G:0.31, T:0.44
Consensus pattern (21 bp):
GGTTAGGGTTTTTAAGTTAAG
Found at i:24529574 original size:62 final size:63
Alignment explanation
Indices: 24529499--24529735 Score: 399
Period size: 62 Copynumber: 3.8 Consensus size: 63
24529489 TAAGGGTTAC
* * *
24529499 GGTTAGGGTTTTTAAGTTAAGGGTTAGGGTTTTTAAGTTAAGCGTTAAGGTTTTTAAGTTAA-
1 GGTTAGGGTTTTTAAGTTAAGGGTTAGAGTTTTTAAGTTAAGTGTTAGGGTTTTTAAGTTAAG
* *
24529561 GGTTAGGGTTTTTAAGTTAA-GGTTAGGGTTTTTAAGTTAAGGGTTAGGGTTTTTAAGTTAAG
1 GGTTAGGGTTTTTAAGTTAAGGGTTAGAGTTTTTAAGTTAAGTGTTAGGGTTTTTAAGTTAAG
24529623 GGTTA-GGTTTTTAAGTTAAGGGTTAGAGTTTTTAAGTTAAGTGTTAGGGTTTTTAAGTTAAG
1 GGTTAGGGTTTTTAAGTTAAGGGTTAGAGTTTTTAAGTTAAGTGTTAGGGTTTTTAAGTTAAG
24529685 GGTTTAGGGTTTTTAAGTTAAGGGTTAGAGTTTTTAAGTTAAGTGTTAGGG
1 GG-TTAGGGTTTTTAAGTTAAGGGTTAGAGTTTTTAAGTTAAGTGTTAGGG
24529736 GGTTAGAGTT
Statistics
Matches: 167, Mismatches: 4, Indels: 6
0.94 0.02 0.03
Matches are distributed among these distances:
61 53 0.32
62 67 0.40
63 3 0.02
64 44 0.26
ACGTcount: A:0.25, C:0.00, G:0.31, T:0.44
Consensus pattern (63 bp):
GGTTAGGGTTTTTAAGTTAAGGGTTAGAGTTTTTAAGTTAAGTGTTAGGGTTTTTAAGTTAAG
Found at i:24529576 original size:41 final size:42
Alignment explanation
Indices: 24529476--24529735 Score: 366
Period size: 41 Copynumber: 6.1 Consensus size: 42
24529466 TTTTAAGTTA
24529476 AGGGTTTTTAAGTTAAGGGTTACGGTTAGGGTTTTTAAGTTAAGGGTT
1 AGGGTTTTTAAGTTAAGGGTTA-----A-GGTTTTTAAGTTAAGGGTT
*
24529524 AGGGTTTTTAAGTTAAGCGTTAAGGTTTTTAAGTTAA-GGTT
1 AGGGTTTTTAAGTTAAGGGTTAAGGTTTTTAAGTTAAGGGTT
*
24529565 AGGGTTTTTAAGTTAA-GGTTAGGGTTTTTAAGTTAAGGGTT
1 AGGGTTTTTAAGTTAAGGGTTAAGGTTTTTAAGTTAAGGGTT
24529606 AGGGTTTTTAAGTTAAGGGTT-AGGTTTTTAAGTTAAGGGTT
1 AGGGTTTTTAAGTTAAGGGTTAAGGTTTTTAAGTTAAGGGTT
* * *
24529647 AGAGTTTTTAAGTTAAGTGTTAGGGTTTTTAAGTTAAGGGTTT
1 AGGGTTTTTAAGTTAAGGGTTAAGGTTTTTAAGTTAAGGG-TT
*
24529690 AGGGTTTTTAAGTTAAGGGTT-AGAGTTTTTAAGTTAAGTGTT
1 AGGGTTTTTAAGTTAAGGGTTAAG-GTTTTTAAGTTAAGGGTT
24529732 AGGG
1 AGGG
24529736 GGTTAGAGTT
Statistics
Matches: 196, Mismatches: 11, Indels: 16
0.88 0.05 0.07
Matches are distributed among these distances:
40 18 0.09
41 78 0.40
42 42 0.21
43 37 0.19
48 21 0.11
ACGTcount: A:0.25, C:0.01, G:0.31, T:0.43
Consensus pattern (42 bp):
AGGGTTTTTAAGTTAAGGGTTAAGGTTTTTAAGTTAAGGGTT
Found at i:24529777 original size:7 final size:7
Alignment explanation
Indices: 24529765--24529804 Score: 57
Period size: 7 Copynumber: 5.9 Consensus size: 7
24529755 GTTTGTCAAT
24529765 TAAATTA
1 TAAATTA
24529772 TAAATT-
1 TAAATTA
24529778 T-AATTA
1 TAAATTA
24529784 TAAATTA
1 TAAATTA
24529791 TAAATTTA
1 TAAA-TTA
24529799 TAAATT
1 TAAATT
24529805 TTTAATAAAT
Statistics
Matches: 30, Mismatches: 0, Indels: 6
0.83 0.00 0.17
Matches are distributed among these distances:
5 4 0.13
6 2 0.07
7 17 0.57
8 7 0.23
ACGTcount: A:0.53, C:0.00, G:0.00, T:0.47
Consensus pattern (7 bp):
TAAATTA
Found at i:24529777 original size:12 final size:12
Alignment explanation
Indices: 24529762--24529804 Score: 50
Period size: 12 Copynumber: 3.3 Consensus size: 12
24529752 AGGGTTTGTC
24529762 AATTAAATTATA
1 AATTAAATTATA
*
24529774 AATTTAATTATA
1 AATTAAATTATA
24529786 AATTATAAATTTATA
1 AA-T-TAAA-TTATA
24529801 AATT
1 AATT
24529805 TTTAATAAAT
Statistics
Matches: 26, Mismatches: 2, Indels: 5
0.79 0.06 0.15
Matches are distributed among these distances:
12 13 0.50
13 2 0.08
14 4 0.15
15 7 0.27
ACGTcount: A:0.53, C:0.00, G:0.00, T:0.47
Consensus pattern (12 bp):
AATTAAATTATA
Found at i:24530986 original size:7 final size:7
Alignment explanation
Indices: 24530976--24531001 Score: 52
Period size: 7 Copynumber: 3.7 Consensus size: 7
24530966 TTATATACAT
24530976 AATACTA
1 AATACTA
24530983 AATACTA
1 AATACTA
24530990 AATACTA
1 AATACTA
24530997 AATAC
1 AATAC
24531002 CAATCGACTA
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:0.58, C:0.15, G:0.00, T:0.27
Consensus pattern (7 bp):
AATACTA
Found at i:24532171 original size:11 final size:12
Alignment explanation
Indices: 24532155--24532191 Score: 60
Period size: 11 Copynumber: 3.2 Consensus size: 12
24532145 AAAAATAGGG
24532155 ATTTAAGAG-AA
1 ATTTAAGAGCAA
24532166 ATTTAAGAGCAA
1 ATTTAAGAGCAA
24532178 A-TTAAGAGCAA
1 ATTTAAGAGCAA
24532189 ATT
1 ATT
24532192 AAAATTAAAT
Statistics
Matches: 24, Mismatches: 0, Indels: 3
0.89 0.00 0.11
Matches are distributed among these distances:
11 20 0.83
12 4 0.17
ACGTcount: A:0.51, C:0.05, G:0.16, T:0.27
Consensus pattern (12 bp):
ATTTAAGAGCAA
Found at i:24532254 original size:11 final size:11
Alignment explanation
Indices: 24532208--24532268 Score: 70
Period size: 11 Copynumber: 5.5 Consensus size: 11
24532198 AAATATGGAT
24532208 TTGAGAG-AAA
1 TTGAGAGCAAA
* *
24532218 TTTAGAAGGAAA
1 TTGAG-AGCAAA
24532230 TTGAGAGCAAA
1 TTGAGAGCAAA
24532241 TTGAGAGCAAA
1 TTGAGAGCAAA
* *
24532252 TTGATAGGAAA
1 TTGAGAGCAAA
24532263 TTGAGA
1 TTGAGA
24532269 AATTAATTGA
Statistics
Matches: 43, Mismatches: 6, Indels: 3
0.83 0.12 0.06
Matches are distributed among these distances:
10 4 0.09
11 32 0.74
12 7 0.16
ACGTcount: A:0.46, C:0.03, G:0.28, T:0.23
Consensus pattern (11 bp):
TTGAGAGCAAA
Found at i:24534312 original size:62 final size:63
Alignment explanation
Indices: 24534175--24534320 Score: 161
Period size: 62 Copynumber: 2.3 Consensus size: 63
24534165 AAGGTACTTG
* *
24534175 TATGGTGTGGATAAACCACT-AGGTTATGAATGCACAATGGGTCTGCAGATAAAAGCTGCTAA
1 TATGGTGTGGATAAACCACTCAGGTTATGAATGCACAACGAGTCTGCAGATAAAAGCTGCTAA
*** * * * * ** *
24534237 TACAATATAGATAAACCACTCA-GTTGTGAATGCACAACGAGTTTGCAGATAAAATTTGTTAA
1 TATGGTGTGGATAAACCACTCAGGTTATGAATGCACAACGAGTCTGCAGATAAAAGCTGCTAA
*
24534299 TATGGTGTGGATAAATCACTCA
1 TATGGTGTGGATAAACCACTCA
24534321 ACAGTGTGGA
Statistics
Matches: 65, Mismatches: 18, Indels: 2
0.76 0.21 0.02
Matches are distributed among these distances:
62 64 0.98
63 1 0.02
ACGTcount: A:0.36, C:0.14, G:0.21, T:0.28
Consensus pattern (63 bp):
TATGGTGTGGATAAACCACTCAGGTTATGAATGCACAACGAGTCTGCAGATAAAAGCTGCTAA
Found at i:24534341 original size:21 final size:21
Alignment explanation
Indices: 24534303--24534378 Score: 66
Period size: 21 Copynumber: 3.6 Consensus size: 21
24534293 TGTTAATATG
*
24534303 GTGTGGATAAA-TCACTC-AAC
1 GTGTGGATAAACT-GCTCAAAC
24534323 AGTGTGGATAAACTGCTCAAAC
1 -GTGTGGATAAACTGCTCAAAC
** *
24534345 GATGCAGATAAACTGCTCAAAT
1 G-TGTGGATAAACTGCTCAAAC
*
24534367 TTGTGGATAAAC
1 GTGTGGATAAAC
24534379 CAATCAACGG
Statistics
Matches: 45, Mismatches: 7, Indels: 6
0.78 0.12 0.10
Matches are distributed among these distances:
21 24 0.53
22 21 0.47
ACGTcount: A:0.37, C:0.17, G:0.21, T:0.25
Consensus pattern (21 bp):
GTGTGGATAAACTGCTCAAAC
Found at i:24534493 original size:34 final size:34
Alignment explanation
Indices: 24534452--24534531 Score: 92
Period size: 34 Copynumber: 2.4 Consensus size: 34
24534442 GCAATATGAC
*
24534452 ATACTTATAACAGA-TCAATGC-GATAGCAATTAAT
1 ATACTTATAACAGATTCAA-ACAG-TAGCAATTAAT
* * *
24534486 ATGCTTATAACATATTGAAACAGTAGCAATTAAT
1 ATACTTATAACAGATTCAAACAGTAGCAATTAAT
24534520 ATACTTATAACA
1 ATACTTATAACA
24534532 AATTAATTAA
Statistics
Matches: 39, Mismatches: 5, Indels: 4
0.81 0.10 0.08
Matches are distributed among these distances:
34 35 0.90
35 4 0.10
ACGTcount: A:0.45, C:0.14, G:0.10, T:0.31
Consensus pattern (34 bp):
ATACTTATAACAGATTCAAACAGTAGCAATTAAT
Found at i:24534554 original size:34 final size:34
Alignment explanation
Indices: 24534475--24534614 Score: 117
Period size: 34 Copynumber: 4.1 Consensus size: 34
24534465 ATCAATGCGA
* * *
24534475 TAGCAATTAATATGCTTATAACATATTGAA--ACAG
1 TAGCAAATAATATGCTTATAACA-AATCAATTA-AG
* * *
24534509 TAGCAATTAATATACTTATAACAAATTAATTAAG
1 TAGCAAATAATATGCTTATAACAAATCAATTAAG
* * * *
24534543 TACCAAATAATATGCTGTA-ATCAGATCAATTCAG
1 TAGCAAATAATATGCT-TATAACAAATCAATTAAG
*
24534577 TAGCAAATAATATGCTT-TAATCAAATCAATTTAG
1 TAGCAAATAATATGCTTATAA-CAAATCAATTAAG
24534611 TAGC
1 TAGC
24534615 TAACGACATG
Statistics
Matches: 87, Mismatches: 14, Indels: 10
0.78 0.13 0.09
Matches are distributed among these distances:
33 6 0.07
34 78 0.90
35 3 0.03
ACGTcount: A:0.44, C:0.13, G:0.10, T:0.33
Consensus pattern (34 bp):
TAGCAAATAATATGCTTATAACAAATCAATTAAG
Found at i:24535848 original size:34 final size:34
Alignment explanation
Indices: 24535810--24535885 Score: 134
Period size: 34 Copynumber: 2.2 Consensus size: 34
24535800 TAATAATTTT
24535810 TGGAATAAATGCTTATATTAATTTATTTAATTGC
1 TGGAATAAATGCTTATATTAATTTATTTAATTGC
* *
24535844 TGGAATAAATGCTTATCTTAGTTTATTTAATTGC
1 TGGAATAAATGCTTATATTAATTTATTTAATTGC
24535878 TGGAATAA
1 TGGAATAA
24535886 CTTATTGTTA
Statistics
Matches: 40, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
34 40 1.00
ACGTcount: A:0.34, C:0.07, G:0.14, T:0.45
Consensus pattern (34 bp):
TGGAATAAATGCTTATATTAATTTATTTAATTGC
Found at i:24536040 original size:74 final size:74
Alignment explanation
Indices: 24535953--24536101 Score: 253
Period size: 74 Copynumber: 2.0 Consensus size: 74
24535943 TATTAATTAA
* *
24535953 GCTTATTAAGTTTAGTGTGTTAAAATGTGTTTTAATGTGTTTGTTAATAAATGCTTGCAGTTGAC
1 GCTTATTAAGTTTAGTGTGTTAAAATGTGTTTAAATGTGTTTGTTAATAAATGCTTGCAGGTGAC
24536018 TATTTAGTT
66 TATTTAGTT
* *
24536027 GCTTATTAAGTTTAGTGTGTTTAAATGTGTTTAAATGTGTTTGTTAATAAATGCTTGTAGGTGAC
1 GCTTATTAAGTTTAGTGTGTTAAAATGTGTTTAAATGTGTTTGTTAATAAATGCTTGCAGGTGAC
*
24536092 TATTTGGTT
66 TATTTAGTT
24536101 G
1 G
24536102 GAATCAGTTA
Statistics
Matches: 70, Mismatches: 5, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
74 70 1.00
ACGTcount: A:0.25, C:0.05, G:0.22, T:0.48
Consensus pattern (74 bp):
GCTTATTAAGTTTAGTGTGTTAAAATGTGTTTAAATGTGTTTGTTAATAAATGCTTGCAGGTGAC
TATTTAGTT
Found at i:24536057 original size:10 final size:10
Alignment explanation
Indices: 24536042--24536068 Score: 54
Period size: 10 Copynumber: 2.7 Consensus size: 10
24536032 TTAAGTTTAG
24536042 TGTGTTTAAA
1 TGTGTTTAAA
24536052 TGTGTTTAAA
1 TGTGTTTAAA
24536062 TGTGTTT
1 TGTGTTT
24536069 GTTAATAAAT
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
10 17 1.00
ACGTcount: A:0.22, C:0.00, G:0.22, T:0.56
Consensus pattern (10 bp):
TGTGTTTAAA
Found at i:24549221 original size:15 final size:15
Alignment explanation
Indices: 24549201--24549234 Score: 52
Period size: 15 Copynumber: 2.3 Consensus size: 15
24549191 AGTTTCAATC
24549201 ATGTATGATCAA-TAT
1 ATGTATGA-CAAGTAT
24549216 ATGTATGACAAGTAT
1 ATGTATGACAAGTAT
24549231 ATGT
1 ATGT
24549235 GGCATTTTTT
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
14 3 0.17
15 15 0.83
ACGTcount: A:0.38, C:0.06, G:0.18, T:0.38
Consensus pattern (15 bp):
ATGTATGACAAGTAT
Found at i:24553560 original size:64 final size:64
Alignment explanation
Indices: 24553480--24553656 Score: 256
Period size: 64 Copynumber: 2.8 Consensus size: 64
24553470 ATATATATTT
24553480 AAAGTTCTTGAGCTGAATTTAATGTATGAATTTTATATACATATGTGGTTCAAATATAGGTTAC
1 AAAGTTCTTGAGCTGAATTTAATGTATGAATTTTATATACATATGTGGTTCAAATATAGGTTAC
* *
24553544 AAAGTTCTTGAGCTGAATTTAATGTATGAATTTTACATACATATGTGGTTCGAATATAGGTTAC
1 AAAGTTCTTGAGCTGAATTTAATGTATGAATTTTATATACATATGTGGTTCAAATATAGGTTAC
* *
24553608 AAA-TTCTTTGAACTGAATTTTAATGT-TGTAA--AT-TATACATATGTGGTTC
1 AAAGTTC-TTGAGCTGAA-TTTAATGTATG-AATTTTATATACATATGTGGTTC
24553657 GAATGTTTGT
Statistics
Matches: 105, Mismatches: 5, Indels: 8
0.89 0.04 0.07
Matches are distributed among these distances:
62 15 0.14
63 4 0.04
64 76 0.72
65 10 0.10
ACGTcount: A:0.33, C:0.08, G:0.17, T:0.41
Consensus pattern (64 bp):
AAAGTTCTTGAGCTGAATTTAATGTATGAATTTTATATACATATGTGGTTCAAATATAGGTTAC
Found at i:24553841 original size:41 final size:41
Alignment explanation
Indices: 24553775--24554016 Score: 376
Period size: 41 Copynumber: 5.9 Consensus size: 41
24553765 ATTTGAGATT
*
24553775 ATCAGGCTATAAGCCTAGCAGGCTAAGTGCCGGTGAACTGA
1 ATCAGGTTATAAGCCTAGCAGGCTAAGTGCCGGTGAACTGA
* * * *
24553816 ATCGGGTTATAAGCCTAGCATGCTAAGTGCCAGTGATCTGA
1 ATCAGGTTATAAGCCTAGCAGGCTAAGTGCCGGTGAACTGA
24553857 ATCAGGTTATAAGCCTAGCAGGCTAAGTGCCGGTGAACTGA
1 ATCAGGTTATAAGCCTAGCAGGCTAAGTGCCGGTGAACTGA
** *
24553898 ATTGGGTTATAAGCCTAGCAGGCTAAGTGCCGGTGATCTGA
1 ATCAGGTTATAAGCCTAGCAGGCTAAGTGCCGGTGAACTGA
*
24553939 ATCAGGCTATAAGCCTAGCAGGCTAAGTGCCGGTGAACTGA
1 ATCAGGTTATAAGCCTAGCAGGCTAAGTGCCGGTGAACTGA
* * *
24553980 ATCAGGTTATAAGCCTAACAGACTAAGTGCCAGTGAA
1 ATCAGGTTATAAGCCTAGCAGGCTAAGTGCCGGTGAA
24554017 TTTATTTAAA
Statistics
Matches: 181, Mismatches: 20, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
41 181 1.00
ACGTcount: A:0.29, C:0.20, G:0.28, T:0.23
Consensus pattern (41 bp):
ATCAGGTTATAAGCCTAGCAGGCTAAGTGCCGGTGAACTGA
Found at i:24554235 original size:36 final size:36
Alignment explanation
Indices: 24554191--24554287 Score: 92
Period size: 34 Copynumber: 2.8 Consensus size: 36
24554181 GTTGGATATA
*
24554191 TATATATGTATGCATTCGGCATATGTGGATTATAAG
1 TATATATGTATGCATTCGGCATATGTAGATTATAAG
* * *
24554227 TATTTATG--TGCGTTCGGCACT-TGTAGTTTATAAG
1 TATATATGTATGCATTCGGCA-TATGTAGATTATAAG
* * * *
24554261 TATAAATATATGCTTTTGGCATATGTA
1 TATATATGTATGCATTCGGCATATGTA
24554288 TTTGAAAAAT
Statistics
Matches: 48, Mismatches: 9, Indels: 8
0.74 0.14 0.12
Matches are distributed among these distances:
34 26 0.54
35 2 0.04
36 20 0.42
ACGTcount: A:0.28, C:0.09, G:0.21, T:0.42
Consensus pattern (36 bp):
TATATATGTATGCATTCGGCATATGTAGATTATAAG
Found at i:24562881 original size:18 final size:19
Alignment explanation
Indices: 24562847--24562885 Score: 62
Period size: 18 Copynumber: 2.1 Consensus size: 19
24562837 ACGTAACACG
*
24562847 AATTAAATTTAAGCATATT
1 AATTAAATTTAAACATATT
24562866 AATTAAA-TTAAACATATT
1 AATTAAATTTAAACATATT
24562884 AA
1 AA
24562886 CATCACAAAT
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
18 12 0.63
19 7 0.37
ACGTcount: A:0.54, C:0.05, G:0.03, T:0.38
Consensus pattern (19 bp):
AATTAAATTTAAACATATT
Found at i:24563772 original size:22 final size:22
Alignment explanation
Indices: 24563725--24563772 Score: 53
Period size: 22 Copynumber: 2.2 Consensus size: 22
24563715 TGTCGAAAAT
* *
24563725 AATA-AAAATTTATCAAAATTT
1 AATATAAAATTAATCAAAATTC
* *
24563746 GATATAAAATTAATTAAAATTC
1 AATATAAAATTAATCAAAATTC
24563768 AATAT
1 AATAT
24563773 GTTCATAATT
Statistics
Matches: 21, Mismatches: 5, Indels: 1
0.78 0.19 0.04
Matches are distributed among these distances:
21 3 0.14
22 18 0.86
ACGTcount: A:0.56, C:0.04, G:0.02, T:0.38
Consensus pattern (22 bp):
AATATAAAATTAATCAAAATTC
Found at i:24566645 original size:25 final size:26
Alignment explanation
Indices: 24566616--24566671 Score: 73
Period size: 25 Copynumber: 2.2 Consensus size: 26
24566606 TTAATTAGTA
*
24566616 TAAAATATT-AATAATTCAAT-AAAT
1 TAAAATATTAAATAATTAAATAAAAT
24566640 TGAAAA-ATTAAATAATTAAATAAAAT
1 T-AAAATATTAAATAATTAAATAAAAT
24566666 TAAAAT
1 TAAAAT
24566672 TTAGGTGAAA
Statistics
Matches: 27, Mismatches: 1, Indels: 6
0.79 0.03 0.18
Matches are distributed among these distances:
24 4 0.15
25 18 0.67
26 5 0.19
ACGTcount: A:0.62, C:0.02, G:0.02, T:0.34
Consensus pattern (26 bp):
TAAAATATTAAATAATTAAATAAAAT
Found at i:24566809 original size:21 final size:20
Alignment explanation
Indices: 24566780--24566821 Score: 59
Period size: 21 Copynumber: 2.0 Consensus size: 20
24566770 GTGTCTTGAT
24566780 GGTGTGGTGCGA-TAGACAAG
1 GGTGTGGTGCGAGTAG-CAAG
24566800 GGTGTTGGTGCGAGTAGCAAG
1 GGTG-TGGTGCGAGTAGCAAG
24566821 G
1 G
24566822 CGCGGTGTGA
Statistics
Matches: 20, Mismatches: 0, Indels: 3
0.87 0.00 0.13
Matches are distributed among these distances:
20 4 0.20
21 13 0.65
22 3 0.15
ACGTcount: A:0.21, C:0.10, G:0.48, T:0.21
Consensus pattern (20 bp):
GGTGTGGTGCGAGTAGCAAG
Found at i:24567371 original size:22 final size:19
Alignment explanation
Indices: 24567332--24567373 Score: 57
Period size: 22 Copynumber: 2.1 Consensus size: 19
24567322 TGCAAAGTTG
24567332 ATAATAATTAATATATATT
1 ATAATAATTAATATATATT
24567351 ATAATAGATATAATTATATATT
1 ATAATA-AT-TAA-TATATATT
24567373 A
1 A
24567374 ATGATTATCA
Statistics
Matches: 20, Mismatches: 0, Indels: 3
0.87 0.00 0.13
Matches are distributed among these distances:
19 6 0.30
20 2 0.10
21 3 0.15
22 9 0.45
ACGTcount: A:0.52, C:0.00, G:0.02, T:0.45
Consensus pattern (19 bp):
ATAATAATTAATATATATT
Found at i:24567492 original size:29 final size:30
Alignment explanation
Indices: 24567434--24567492 Score: 93
Period size: 30 Copynumber: 2.0 Consensus size: 30
24567424 TCCTTTTAAA
* *
24567434 AATATTTACAAAAAGAGACATCTAATTTTT
1 AATATTTACAAAAAGAGACAACTAAGTTTT
24567464 AATATTTACAAAAAGAG-CAACTAAGTTTT
1 AATATTTACAAAAAGAGACAACTAAGTTTT
24567493 GAAAATAATT
Statistics
Matches: 27, Mismatches: 2, Indels: 1
0.90 0.07 0.03
Matches are distributed among these distances:
29 10 0.37
30 17 0.63
ACGTcount: A:0.47, C:0.10, G:0.08, T:0.34
Consensus pattern (30 bp):
AATATTTACAAAAAGAGACAACTAAGTTTT
Found at i:24570726 original size:21 final size:22
Alignment explanation
Indices: 24570681--24570726 Score: 58
Period size: 21 Copynumber: 2.1 Consensus size: 22
24570671 AGAGAAAAAT
*
24570681 AAAAGTGAAAAAGAAGAAAATG
1 AAAAGTGAAAAAGAAGAAAAGG
**
24570703 AAAA-TGAAAAAGGCGAAAAGG
1 AAAAGTGAAAAAGAAGAAAAGG
24570724 AAA
1 AAA
24570727 GCGAGAGAGA
Statistics
Matches: 21, Mismatches: 3, Indels: 1
0.84 0.12 0.04
Matches are distributed among these distances:
21 17 0.81
22 4 0.19
ACGTcount: A:0.67, C:0.02, G:0.24, T:0.07
Consensus pattern (22 bp):
AAAAGTGAAAAAGAAGAAAAGG
Found at i:24575607 original size:29 final size:29
Alignment explanation
Indices: 24575574--24575629 Score: 103
Period size: 29 Copynumber: 1.9 Consensus size: 29
24575564 GGACTTCCTA
24575574 CTTCTACTTTTGAAGTCTTTGAGGGTATG
1 CTTCTACTTTTGAAGTCTTTGAGGGTATG
*
24575603 CTTCTGCTTTTGAAGTCTTTGAGGGTA
1 CTTCTACTTTTGAAGTCTTTGAGGGTA
24575630 AAGTGTTGGA
Statistics
Matches: 26, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
29 26 1.00
ACGTcount: A:0.16, C:0.14, G:0.25, T:0.45
Consensus pattern (29 bp):
CTTCTACTTTTGAAGTCTTTGAGGGTATG
Found at i:24589563 original size:50 final size:50
Alignment explanation
Indices: 24589435--24589725 Score: 287
Period size: 50 Copynumber: 5.7 Consensus size: 50
24589425 TATAATAACA
* ** * * *
24589435 TGCCAAAGCCATGTCCCAGACATGGTCTTACATGGGATGTTTCATGT-GC
1 TGCCAATGCCATGTCCCAGACATGGTCTTACATGGGACCTCTCATATCGG
* * * * * **
24589484 TACTAATGTCATATCCCAGATATGGTCTTACATGGGAGTTCTCATATCGG
1 TGCCAATGCCATGTCCCAGACATGGTCTTACATGGGACCTCTCATATCGG
* ** *
24589534 TGCCCATGCCATGTCCCAGACATGGTCTTACGGGGGACCTCTCATCTCGG
1 TGCCAATGCCATGTCCCAGACATGGTCTTACATGGGACCTCTCATATCGG
** * * * *
24589584 TGCCAGCGCCATGTCTCAGACATGGTCTTACATTGGACCTCTCGTCTCGG
1 TGCCAATGCCATGTCCCAGACATGGTCTTACATGGGACCTCTCATATCGG
**
24589634 TGCCAACACCATGTCCCAGACATGGTCTTACATGGGACCTCTCATGATCTCAAGGG
1 TGCCAATGCCATGTCCCAGACATGGTCTTACATGGGACCTCTCAT-A--TC---GG
*
24589690 TGCCAATGCCATGTCCCAGACATGGTCTTACTTGGG
1 TGCCAATGCCATGTCCCAGACATGGTCTTACATGGG
24589726 TTCTCTTTAC
Statistics
Matches: 196, Mismatches: 39, Indels: 7
0.81 0.16 0.03
Matches are distributed among these distances:
49 37 0.19
50 122 0.62
53 2 0.01
56 35 0.18
ACGTcount: A:0.21, C:0.28, G:0.23, T:0.27
Consensus pattern (50 bp):
TGCCAATGCCATGTCCCAGACATGGTCTTACATGGGACCTCTCATATCGG
Found at i:24593610 original size:10 final size:10
Alignment explanation
Indices: 24593593--24593641 Score: 57
Period size: 10 Copynumber: 4.8 Consensus size: 10
24593583 AAATATGTGG
24593593 AAAA-TAATC
1 AAAATTAATC
24593602 AAAATTAATC
1 AAAATTAATC
24593612 AAAATTTGATAT-
1 AAAA-TT-A-ATC
24593624 AAAATTAATC
1 AAAATTAATC
24593634 AAAATTAA
1 AAAATTAA
24593642 ACATGTTCAT
Statistics
Matches: 35, Mismatches: 0, Indels: 9
0.80 0.00 0.20
Matches are distributed among these distances:
9 6 0.17
10 18 0.51
11 4 0.11
12 5 0.14
13 2 0.06
ACGTcount: A:0.61, C:0.06, G:0.02, T:0.31
Consensus pattern (10 bp):
AAAATTAATC
Found at i:24594692 original size:26 final size:26
Alignment explanation
Indices: 24594649--24594701 Score: 70
Period size: 26 Copynumber: 2.0 Consensus size: 26
24594639 ATCCCTATTA
*
24594649 TACCCCTAGAAAAATTTTGACAATTT
1 TACCCCTAGAAAAATTTTCACAATTT
* * *
24594675 TACCCCTAGTAAATTTTTCACGATTT
1 TACCCCTAGAAAAATTTTCACAATTT
24594701 T
1 T
24594702 GCCTCTGGTA
Statistics
Matches: 23, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
26 23 1.00
ACGTcount: A:0.32, C:0.21, G:0.08, T:0.40
Consensus pattern (26 bp):
TACCCCTAGAAAAATTTTCACAATTT
Found at i:24600528 original size:15 final size:14
Alignment explanation
Indices: 24600497--24600527 Score: 53
Period size: 14 Copynumber: 2.2 Consensus size: 14
24600487 CTTGCTCCTC
24600497 AAACTTTTTAATTA
1 AAACTTTTTAATTA
*
24600511 AAACTTTTTAGTTA
1 AAACTTTTTAATTA
24600525 AAA
1 AAA
24600528 ATAAAGGGTT
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:0.45, C:0.06, G:0.03, T:0.45
Consensus pattern (14 bp):
AAACTTTTTAATTA
Found at i:24601646 original size:18 final size:18
Alignment explanation
Indices: 24601620--24601659 Score: 62
Period size: 18 Copynumber: 2.2 Consensus size: 18
24601610 TGATATGCTG
* *
24601620 GAAAGTTTTAAAGTTCTT
1 GAAAATTTTAAAGTACTT
24601638 GAAAATTTTAAAGTACTT
1 GAAAATTTTAAAGTACTT
24601656 GAAA
1 GAAA
24601660 TGAACCAAGA
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
18 20 1.00
ACGTcount: A:0.42, C:0.05, G:0.15, T:0.38
Consensus pattern (18 bp):
GAAAATTTTAAAGTACTT
Found at i:24603646 original size:28 final size:28
Alignment explanation
Indices: 24603603--24603657 Score: 83
Period size: 28 Copynumber: 2.0 Consensus size: 28
24603593 ATGTAGTTAC
*
24603603 AGTCTGGGCCTAAGCCCTAAGCAGTAAG
1 AGTCTAGGCCTAAGCCCTAAGCAGTAAG
* *
24603631 AGTCTAGGCCTTAGCCCTAAGTAGTAA
1 AGTCTAGGCCTAAGCCCTAAGCAGTAA
24603658 CAGTGTAATG
Statistics
Matches: 24, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
28 24 1.00
ACGTcount: A:0.29, C:0.24, G:0.25, T:0.22
Consensus pattern (28 bp):
AGTCTAGGCCTAAGCCCTAAGCAGTAAG
Found at i:24604091 original size:27 final size:28
Alignment explanation
Indices: 24604061--24604229 Score: 138
Period size: 27 Copynumber: 6.2 Consensus size: 28
24604051 GGGTGTAACA
* *
24604061 GTCATTTTACCCTAT-AAGGGTATTTTG
1 GTCATTTTACCCTTTCAAGGGTATTTCG
* * *
24604088 GTCATTTTA-CCATTCGAGGGTATTTCA
1 GTCATTTTACCCTTTCAAGGGTATTTCG
* ** *
24604115 ATCATTTTA-CCTTTTGAGGGTATTTTG
1 GTCATTTTACCCTTTCAAGGGTATTTCG
24604142 GTCATTTTA-CCTTTCGAA-GGTATTTCG
1 GTCATTTTACCCTTTC-AAGGGTATTTCG
* *
24604169 GTCATTTTACCC-TTCGAGGGTATTTCA
1 GTCATTTTACCCTTTCAAGGGTATTTCG
* * *
24604196 ATCATTTTACAC-TGCGAA-GGTATTTCG
1 GTCATTTTACCCTTTC-AAGGGTATTTCG
24604223 GTCATTT
1 GTCATTT
24604230 GCCCATGAAT
Statistics
Matches: 115, Mismatches: 22, Indels: 10
0.78 0.15 0.07
Matches are distributed among these distances:
26 4 0.03
27 107 0.93
28 4 0.03
ACGTcount: A:0.21, C:0.17, G:0.18, T:0.44
Consensus pattern (28 bp):
GTCATTTTACCCTTTCAAGGGTATTTCG
Found at i:24604218 original size:81 final size:81
Alignment explanation
Indices: 24604079--24604229 Score: 232
Period size: 81 Copynumber: 1.9 Consensus size: 81
24604069 ACCCTATAAG
* ** * *
24604079 GGTATTTTGGTCATTTTACCATTCGAGGGTATTTCAATCATTTTACCTTTTGAGGGTATTTTGGT
1 GGTATTTCGGTCATTTTACCATTCGAGGGTATTTCAATCATTTTACCTTGCGAAGGTATTTCGGT
24604144 CATTTTACCTTTCGAA
66 CATTTTACCTTTCGAA
*
24604160 GGTATTTCGGTCATTTTACCCTTCGAGGGTATTTCAATCATTTTACAC-TGCGAAGGTATTTCGG
1 GGTATTTCGGTCATTTTACCATTCGAGGGTATTTCAATCATTTTAC-CTTGCGAAGGTATTTCGG
24604224 TCATTT
65 TCATTT
24604230 GCCCATGAAT
Statistics
Matches: 63, Mismatches: 6, Indels: 2
0.89 0.08 0.03
Matches are distributed among these distances:
81 62 0.98
82 1 0.02
ACGTcount: A:0.20, C:0.17, G:0.19, T:0.44
Consensus pattern (81 bp):
GGTATTTCGGTCATTTTACCATTCGAGGGTATTTCAATCATTTTACCTTGCGAAGGTATTTCGGT
CATTTTACCTTTCGAA
Found at i:24604222 original size:54 final size:53
Alignment explanation
Indices: 24604061--24604229 Score: 205
Period size: 54 Copynumber: 3.1 Consensus size: 53
24604051 GGGTGTAACA
* * *
24604061 GTCATTTTACCCTATAAGGGTATTTTGGTCATTTTACCATTCGAGGGTATTTCA
1 GTCATTTTACCCT-TGAGGGTATTTTGGTCATTTTACCATTCGAAGGTATTTCG
* * *
24604115 ATCATTTTACCTTTTGAGGGTATTTTGGTCATTTTACCTTTCGAAGGTATTTCG
1 GTCATTTTACC-CTTGAGGGTATTTTGGTCATTTTACCATTCGAAGGTATTTCG
*** *
24604169 GTCATTTTACCCTTCGAGGGTATTTCAATCATTTTA-CACTGCGAAGGTATTTCG
1 GTCATTTTACCCTT-GAGGGTATTTTGGTCATTTTACCA-TTCGAAGGTATTTCG
24604223 GTCATTT
1 GTCATTT
24604230 GCCCATGAAT
Statistics
Matches: 99, Mismatches: 13, Indels: 6
0.84 0.11 0.05
Matches are distributed among these distances:
53 3 0.03
54 95 0.96
55 1 0.01
ACGTcount: A:0.21, C:0.17, G:0.18, T:0.44
Consensus pattern (53 bp):
GTCATTTTACCCTTGAGGGTATTTTGGTCATTTTACCATTCGAAGGTATTTCG
Found at i:24604940 original size:20 final size:18
Alignment explanation
Indices: 24604907--24604948 Score: 57
Period size: 20 Copynumber: 2.2 Consensus size: 18
24604897 TAGAATGAAG
24604907 AGGAGAAGAAGAGAAGAA
1 AGGAGAAGAAGAGAAGAA
*
24604925 AGGAGAAGAGATGAGAAGAG
1 AGGAGAAGA-A-GAGAAGAA
24604945 AGGA
1 AGGA
24604949 TTCAACAACA
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
18 9 0.43
19 1 0.05
20 11 0.52
ACGTcount: A:0.55, C:0.00, G:0.43, T:0.02
Consensus pattern (18 bp):
AGGAGAAGAAGAGAAGAA
Found at i:24616138 original size:9 final size:9
Alignment explanation
Indices: 24616124--24616159 Score: 54
Period size: 9 Copynumber: 4.0 Consensus size: 9
24616114 ATTTTACAAT
24616124 TCGAATAAC
1 TCGAATAAC
*
24616133 TCGAATAAT
1 TCGAATAAC
24616142 TCGAATAAC
1 TCGAATAAC
*
24616151 TCAAATAAC
1 TCGAATAAC
24616160 AGATTGGTGT
Statistics
Matches: 24, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
9 24 1.00
ACGTcount: A:0.47, C:0.19, G:0.08, T:0.25
Consensus pattern (9 bp):
TCGAATAAC
Found at i:24616144 original size:18 final size:18
Alignment explanation
Indices: 24616121--24616158 Score: 67
Period size: 18 Copynumber: 2.1 Consensus size: 18
24616111 TAAATTTTAC
*
24616121 AATTCGAATAACTCGAAT
1 AATTCGAATAACTCAAAT
24616139 AATTCGAATAACTCAAAT
1 AATTCGAATAACTCAAAT
24616157 AA
1 AA
24616159 CAGATTGGTG
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
18 19 1.00
ACGTcount: A:0.50, C:0.16, G:0.08, T:0.26
Consensus pattern (18 bp):
AATTCGAATAACTCAAAT
Found at i:24626840 original size:28 final size:28
Alignment explanation
Indices: 24626743--24626863 Score: 116
Period size: 30 Copynumber: 4.1 Consensus size: 28
24626733 CATGCAGAAT
* * * *
24626743 CAGTCTGGGCCTGAGCCCTATACAGTAG
1 CAGTGTGGGCCTTAGCCCAATACAGTAA
* * *
24626771 CAGTGTGTCGGCCATAACCTAATACAGTAA
1 CAGTGTG--GGCCTTAGCCCAATACAGTAA
*
24626801 CAGAGTGTGGGCCTTAGCCCAATTCAGTAA
1 C--AGTGTGGGCCTTAGCCCAATACAGTAA
*
24626831 CAGTGTGGGCCTTAGCCCAAAACAGTAA
1 CAGTGTGGGCCTTAGCCCAATACAGTAA
24626859 TCAGT
1 -CAGT
24626864 ACAAATGCAG
Statistics
Matches: 75, Mismatches: 13, Indels: 9
0.77 0.13 0.09
Matches are distributed among these distances:
28 31 0.41
29 4 0.05
30 34 0.45
32 6 0.08
ACGTcount: A:0.28, C:0.25, G:0.25, T:0.22
Consensus pattern (28 bp):
CAGTGTGGGCCTTAGCCCAATACAGTAA
Found at i:24627001 original size:26 final size:26
Alignment explanation
Indices: 24626972--24627072 Score: 130
Period size: 26 Copynumber: 3.9 Consensus size: 26
24626962 ACCAATATCG
*
24626972 CAGCAAAGCTGCCAGTAATAGTAACA
1 CAGCAAAGCTGCCAGTAACAGTAACA
* *
24626998 CAGCAAAGCTGCCAGTAACAATAACG
1 CAGCAAAGCTGCCAGTAACAGTAACA
* * * * *
24627024 CAGCAGAGTTGCTAGTATCAGTAATA
1 CAGCAAAGCTGCCAGTAACAGTAACA
24627050 CAGCAAAGCTGCCAGTAACAGTA
1 CAGCAAAGCTGCCAGTAACAGTA
24627073 TTTGTGGCAA
Statistics
Matches: 61, Mismatches: 14, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
26 61 1.00
ACGTcount: A:0.40, C:0.23, G:0.21, T:0.17
Consensus pattern (26 bp):
CAGCAAAGCTGCCAGTAACAGTAACA
Found at i:24627047 original size:52 final size:52
Alignment explanation
Indices: 24626964--24627069 Score: 151
Period size: 52 Copynumber: 2.0 Consensus size: 52
24626954 GCCAACACAC
*
24626964 CAATATCGCAGCAAAGCTGCCAGTAATAGTAACACAGCAAAGCTGCCAGTAA
1 CAATAACGCAGCAAAGCTGCCAGTAATAGTAACACAGCAAAGCTGCCAGTAA
* * * *
24627016 CAATAACGCAGCAGAGTTGCTAGT-ATCAGTAATACAGCAAAGCTGCCAGTAA
1 CAATAACGCAGCAAAGCTGCCAGTAAT-AGTAACACAGCAAAGCTGCCAGTAA
24627068 CA
1 CA
24627070 GTATTTGTGG
Statistics
Matches: 48, Mismatches: 5, Indels: 2
0.87 0.09 0.04
Matches are distributed among these distances:
51 2 0.04
52 46 0.96
ACGTcount: A:0.40, C:0.24, G:0.20, T:0.17
Consensus pattern (52 bp):
CAATAACGCAGCAAAGCTGCCAGTAATAGTAACACAGCAAAGCTGCCAGTAA
Found at i:24627284 original size:27 final size:27
Alignment explanation
Indices: 24627254--24627501 Score: 256
Period size: 27 Copynumber: 9.3 Consensus size: 27
24627244 TATAACAGTT
24627254 ATTTTACCCTTCGAGGGTATTTTGGTA
1 ATTTTACCCTTCGAGGGTATTTTGGTA
*
24627281 ATTTTACCCTT-TAGGGGTATTTTGGTA
1 ATTTTACCCTTCGA-GGGTATTTTGGTA
* * *
24627308 ATTTTACTCTTCAAGGGTATTTTGATA
1 ATTTTACCCTTCGAGGGTATTTTGGTA
* **
24627335 A-TTTACCCTTCGAAGGTATTTCAGTA
1 ATTTTACCCTTCGAGGGTATTTTGGTA
* **
24627361 ATTTCACCCTTTAAGGGTATTTTGGTA
1 ATTTTACCCTTCGAGGGTATTTTGGTA
* *
24627388 ATTTTACCCTTCGAGGATATTTTAGTA
1 ATTTTACCCTTCGAGGGTATTTTGGTA
* * *
24627415 ATTTTACCCCTCAAGGGTATTTTGGTC
1 ATTTTACCCTTCGAGGGTATTTTGGTA
* * *
24627442 ATTTTACCCTAT--AGGGTATTTCGATC
1 ATTTTACCCT-TCGAGGGTATTTTGGTA
*
24627468 A-TTTACCCTAT-GAGGGTATTTTGGTC
1 ATTTTACCCT-TCGAGGGTATTTTGGTA
24627494 ATTTTACC
1 ATTTTACC
24627502 TTTTTTGGGG
Statistics
Matches: 184, Mismatches: 31, Indels: 12
0.81 0.14 0.05
Matches are distributed among these distances:
25 10 0.05
26 47 0.26
27 125 0.68
28 2 0.01
ACGTcount: A:0.22, C:0.16, G:0.18, T:0.44
Consensus pattern (27 bp):
ATTTTACCCTTCGAGGGTATTTTGGTA
Found at i:24627389 original size:80 final size:81
Alignment explanation
Indices: 24627254--24627462 Score: 273
Period size: 80 Copynumber: 2.6 Consensus size: 81
24627244 TATAACAGTT
* * *
24627254 ATTTTACCCTTCGAGGGTATTTTGGTAATTTTACCCTTTAGGGGTATTTTGGTAATTTTACTCTT
1 ATTTTACCCTTCGAAGGTATTTTGGTAATTTTACCCTTTAAGGGTATTTTGGTAATTTTACCCTT
*
24627319 CAAGGGTATTTT-GATA
66 CAAGGATATTTTAG-TA
** *
24627335 A-TTTACCCTTCGAAGGTATTTCAGTAATTTCACCCTTTAAGGGTATTTTGGTAATTTTACCCTT
1 ATTTTACCCTTCGAAGGTATTTTGGTAATTTTACCCTTTAAGGGTATTTTGGTAATTTTACCCTT
*
24627399 CGAGGATATTTTAGTA
66 CAAGGATATTTTAGTA
* * *
24627415 ATTTTACCCCTC-AAGGGTATTTTGGTCATTTTACCCTAT-AGGGTATTT
1 ATTTTACCCTTCGAA-GGTATTTTGGTAATTTTACCCTTTAAGGGTATTT
24627463 CGATCATTTA
Statistics
Matches: 111, Mismatches: 14, Indels: 7
0.84 0.11 0.05
Matches are distributed among these distances:
80 81 0.73
81 30 0.27
ACGTcount: A:0.22, C:0.15, G:0.18, T:0.44
Consensus pattern (81 bp):
ATTTTACCCTTCGAAGGTATTTTGGTAATTTTACCCTTTAAGGGTATTTTGGTAATTTTACCCTT
CAAGGATATTTTAGTA
Found at i:24627429 original size:107 final size:106
Alignment explanation
Indices: 24627256--24627501 Score: 302
Period size: 107 Copynumber: 2.3 Consensus size: 106
24627246 TAACAGTTAT
* * * * * *
24627256 TTTACCCTTCGAGGGTATTTTGGTAATTTTACCCTTTAGGGGTATTTTGGTAATTTTACTCTTCA
1 TTTACCCTTTGAGGGTATTTTGGTAATTTTACCCTTGAGGGATATTTTAGTAATTTTACCCCTCA
24627321 AGGGTATTTTGAT-AATTTACCCT-TCGAAGGTATTTCAGTAA
66 AGGGTATTTTGATCAATTTACCCTAT--AAGGTATTTCAGTAA
*
24627362 TTTCACCCTTTAAGGGTATTTTGGTAATTTTACCCTTCGA-GGATATTTTAGTAATTTTACCCCT
1 TTT-ACCCTTTGAGGGTATTTTGGTAATTTTACCCTT-GAGGGATATTTTAGTAATTTTACCCCT
* * * *
24627426 CAAGGGTATTTTGGTCATTTTACCCTATAGGGTATTTC-GATCA
64 CAAGGGTATTTTGATCAATTTACCCTATAAGGTATTTCAG-TAA
* *
24627469 TTTACCCTATGAGGGTATTTTGGTCATTTTACC
1 TTTACCCTTTGAGGGTATTTTGGTAATTTTACC
24627502 TTTTTTGGGG
Statistics
Matches: 121, Mismatches: 14, Indels: 10
0.83 0.10 0.07
Matches are distributed among these distances:
106 31 0.26
107 79 0.65
108 10 0.08
109 1 0.01
ACGTcount: A:0.22, C:0.16, G:0.18, T:0.44
Consensus pattern (106 bp):
TTTACCCTTTGAGGGTATTTTGGTAATTTTACCCTTGAGGGATATTTTAGTAATTTTACCCCTCA
AGGGTATTTTGATCAATTTACCCTATAAGGTATTTCAGTAA
Found at i:24631682 original size:20 final size:21
Alignment explanation
Indices: 24631659--24631698 Score: 55
Period size: 20 Copynumber: 2.0 Consensus size: 21
24631649 TTTTATCAAA
24631659 TAATAAAATTAA-TTAAAATC
1 TAATAAAATTAATTTAAAATC
**
24631679 TAATCTAATTAATTTAAAAT
1 TAATAAAATTAATTTAAAAT
24631699 AGTTGGACAT
Statistics
Matches: 17, Mismatches: 2, Indels: 1
0.85 0.10 0.05
Matches are distributed among these distances:
20 10 0.59
21 7 0.41
ACGTcount: A:0.55, C:0.05, G:0.00, T:0.40
Consensus pattern (21 bp):
TAATAAAATTAATTTAAAATC
Found at i:24631985 original size:20 final size:21
Alignment explanation
Indices: 24631962--24632001 Score: 55
Period size: 20 Copynumber: 2.0 Consensus size: 21
24631952 TTTTATCAAA
24631962 TAATAAAATTAA-TTAAAATC
1 TAATAAAATTAATTTAAAATC
**
24631982 TAATCTAATTAATTTAAAAT
1 TAATAAAATTAATTTAAAAT
24632002 AGTTGGACAT
Statistics
Matches: 17, Mismatches: 2, Indels: 1
0.85 0.10 0.05
Matches are distributed among these distances:
20 10 0.59
21 7 0.41
ACGTcount: A:0.55, C:0.05, G:0.00, T:0.40
Consensus pattern (21 bp):
TAATAAAATTAATTTAAAATC
Found at i:24634383 original size:45 final size:45
Alignment explanation
Indices: 24634319--24634410 Score: 184
Period size: 45 Copynumber: 2.0 Consensus size: 45
24634309 TATTTTTTTT
24634319 ATTGATTACCATAATAATTACCGTACTTTCAGATAATACAATTCG
1 ATTGATTACCATAATAATTACCGTACTTTCAGATAATACAATTCG
24634364 ATTGATTACCATAATAATTACCGTACTTTCAGATAATACAATTCG
1 ATTGATTACCATAATAATTACCGTACTTTCAGATAATACAATTCG
24634409 AT
1 AT
24634411 CTTTCATTTT
Statistics
Matches: 47, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
45 47 1.00
ACGTcount: A:0.38, C:0.17, G:0.09, T:0.36
Consensus pattern (45 bp):
ATTGATTACCATAATAATTACCGTACTTTCAGATAATACAATTCG
Found at i:24634893 original size:6 final size:6
Alignment explanation
Indices: 24634882--24634910 Score: 58
Period size: 6 Copynumber: 4.8 Consensus size: 6
24634872 AAGGCATATG
24634882 TTTTTC TTTTTC TTTTTC TTTTTC TTTTT
1 TTTTTC TTTTTC TTTTTC TTTTTC TTTTT
24634911 AATAGGAAAC
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 23 1.00
ACGTcount: A:0.00, C:0.14, G:0.00, T:0.86
Consensus pattern (6 bp):
TTTTTC
Found at i:24642472 original size:20 final size:20
Alignment explanation
Indices: 24642447--24642536 Score: 94
Period size: 20 Copynumber: 4.5 Consensus size: 20
24642437 ACAATTTTAA
*
24642447 AATCAAGTGAAAATAATTTT
1 AATCAAGTCAAAATAATTTT
*
24642467 AATCAAGTCAAAATAATTTC
1 AATCAAGTCAAAATAATTTT
* *
24642487 AATCAAGTTAAAATCATTTT
1 AATCAAGTCAAAATAATTTT
*
24642507 AAT-ATA-TCAAAATGATTTT
1 AATCA-AGTCAAAATAATTTT
*
24642526 CAAACAAGTCA
1 -AATCAAGTCA
24642537 GAATTGCTTC
Statistics
Matches: 58, Mismatches: 8, Indels: 7
0.79 0.11 0.10
Matches are distributed among these distances:
19 12 0.21
20 42 0.72
21 4 0.07
ACGTcount: A:0.49, C:0.11, G:0.07, T:0.33
Consensus pattern (20 bp):
AATCAAGTCAAAATAATTTT
Found at i:24642491 original size:40 final size:40
Alignment explanation
Indices: 24642447--24642534 Score: 108
Period size: 40 Copynumber: 2.2 Consensus size: 40
24642437 ACAATTTTAA
24642447 AATCAAGTGAAAATAATTTTAATCA-AGTCAAAAT-AATTTC
1 AATCAAGTGAAAATAATTTTAAT-ATA-TCAAAATGAATTTC
* * *
24642487 AATCAAGTTAAAATCATTTTAATATATCAAAATGATTTTC
1 AATCAAGTGAAAATAATTTTAATATATCAAAATGAATTTC
*
24642527 AAACAAGT
1 AATCAAGT
24642535 CAGAATTGCT
Statistics
Matches: 42, Mismatches: 4, Indels: 4
0.84 0.08 0.08
Matches are distributed among these distances:
39 8 0.19
40 34 0.81
ACGTcount: A:0.49, C:0.10, G:0.07, T:0.34
Consensus pattern (40 bp):
AATCAAGTGAAAATAATTTTAATATATCAAAATGAATTTC
Found at i:24649342 original size:30 final size:30
Alignment explanation
Indices: 24649307--24649388 Score: 119
Period size: 30 Copynumber: 2.7 Consensus size: 30
24649297 AGCCTCGGCT
* * *
24649307 ATCAAATTATGAAAAGGGATTGTGACTACC
1 ATCAAATAATGAAAAGGGATGGTGACGACC
24649337 ATCAAATAATGAAAAGGGATGGTGACGACC
1 ATCAAATAATGAAAAGGGATGGTGACGACC
* *
24649367 ATCGAACAATGAAAAGGGATGG
1 ATCAAATAATGAAAAGGGATGG
24649389 CTTTAGCTAT
Statistics
Matches: 47, Mismatches: 5, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
30 47 1.00
ACGTcount: A:0.43, C:0.12, G:0.26, T:0.20
Consensus pattern (30 bp):
ATCAAATAATGAAAAGGGATGGTGACGACC
Found at i:24666179 original size:31 final size:31
Alignment explanation
Indices: 24666144--24666206 Score: 76
Period size: 31 Copynumber: 2.0 Consensus size: 31
24666134 AATGTATAAA
*
24666144 ATGTATGGAAT-TGAATCAAAA-TCAAAGTTTC
1 ATGTAT-GAATATAAATCAAAATTC-AAGTTTC
*
24666175 ATGTATGTATATAAATCAAAATTCAAGTTTC
1 ATGTATGAATATAAATCAAAATTCAAGTTTC
24666206 A
1 A
24666207 AGTACATAAT
Statistics
Matches: 28, Mismatches: 2, Indels: 4
0.82 0.06 0.12
Matches are distributed among these distances:
30 3 0.11
31 23 0.82
32 2 0.07
ACGTcount: A:0.43, C:0.10, G:0.13, T:0.35
Consensus pattern (31 bp):
ATGTATGAATATAAATCAAAATTCAAGTTTC
Found at i:24668665 original size:40 final size:40
Alignment explanation
Indices: 24668621--24668710 Score: 94
Period size: 41 Copynumber: 2.2 Consensus size: 40
24668611 TCCTAGAGGG
*
24668621 CGCGATTTCCTTCCACGT--CAGCAAATCGCGCTGACGTGGA
1 CGCGATTTCC-TCCACGTACCCG-AAATCGCGCTGACGTGGA
* * * *
24668661 CGCGAGTTCCTGCGCGTACCCTGACATCGCGCTGACGTGGA
1 CGCGATTTCCTCCACGTACCC-GAAATCGCGCTGACGTGGA
24668702 CGCGATTTC
1 CGCGATTTC
24668711 GCGGTAAATG
Statistics
Matches: 41, Mismatches: 6, Indels: 5
0.79 0.12 0.10
Matches are distributed among these distances:
39 5 0.12
40 9 0.22
41 26 0.63
42 1 0.02
ACGTcount: A:0.17, C:0.33, G:0.28, T:0.22
Consensus pattern (40 bp):
CGCGATTTCCTCCACGTACCCGAAATCGCGCTGACGTGGA
Found at i:24668773 original size:29 final size:29
Alignment explanation
Indices: 24668720--24668781 Score: 81
Period size: 29 Copynumber: 2.1 Consensus size: 29
24668710 CGCGGTAAAT
*
24668720 GGCCCATTCCGGTAAATAATTAAAAAACC
1 GGCCCATTCCGGTAAATAATTAAAAAAAC
* *
24668749 GGCCCATTTCGGTAAAT-TTTGAAAAAAAC
1 GGCCCATTCCGGTAAATAATT-AAAAAAAC
24668778 GGCC
1 GGCC
24668782 TTTTTTGGTT
Statistics
Matches: 29, Mismatches: 3, Indels: 2
0.85 0.09 0.06
Matches are distributed among these distances:
28 2 0.07
29 27 0.93
ACGTcount: A:0.37, C:0.23, G:0.18, T:0.23
Consensus pattern (29 bp):
GGCCCATTCCGGTAAATAATTAAAAAAAC
Found at i:24669522 original size:30 final size:29
Alignment explanation
Indices: 24669488--24669544 Score: 80
Period size: 29 Copynumber: 2.0 Consensus size: 29
24669478 AAAAAGCCCT
24669488 TTTTTTCAA-AATTTACCGAAATGGGCCAC
1 TTTTTT-AATAATTTACCGAAATGGGCCAC
* *
24669517 TTTTTTAATTATTTACCGGAATGGGCCA
1 TTTTTTAATAATTTACCGAAATGGGCCA
24669545 ATTTCGTGAA
Statistics
Matches: 25, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
28 2 0.08
29 23 0.92
ACGTcount: A:0.28, C:0.18, G:0.16, T:0.39
Consensus pattern (29 bp):
TTTTTTAATAATTTACCGAAATGGGCCAC
Found at i:24669778 original size:22 final size:22
Alignment explanation
Indices: 24669752--24669805 Score: 90
Period size: 22 Copynumber: 2.5 Consensus size: 22
24669742 ACAAACGAAT
*
24669752 ATTCTCTTAATTTTCTTCCAAA
1 ATTCTCTTAATTTCCTTCCAAA
*
24669774 ATTCTCTCAATTTCCTTCCAAA
1 ATTCTCTTAATTTCCTTCCAAA
24669796 ATTCTCTTAA
1 ATTCTCTTAA
24669806 ACTCTCAAAT
Statistics
Matches: 29, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
22 29 1.00
ACGTcount: A:0.28, C:0.26, G:0.00, T:0.46
Consensus pattern (22 bp):
ATTCTCTTAATTTCCTTCCAAA
Found at i:24669846 original size:21 final size:22
Alignment explanation
Indices: 24669807--24669859 Score: 72
Period size: 22 Copynumber: 2.4 Consensus size: 22
24669797 TTCTCTTAAA
24669807 CTCTCAAATTCCTTCCAAAATC
1 CTCTCAAATTCCTTCCAAAATC
* *
24669829 CTCTCAATTTCCTTCAAAAAAT-
1 CTCTCAAATTCCTTC-CAAAATC
24669851 CTCTCAAAT
1 CTCTCAAAT
24669860 CCATATTTAA
Statistics
Matches: 27, Mismatches: 3, Indels: 2
0.84 0.09 0.06
Matches are distributed among these distances:
22 22 0.81
23 5 0.19
ACGTcount: A:0.34, C:0.32, G:0.00, T:0.34
Consensus pattern (22 bp):
CTCTCAAATTCCTTCCAAAATC
Found at i:24669927 original size:28 final size:27
Alignment explanation
Indices: 24669891--24669946 Score: 78
Period size: 28 Copynumber: 2.0 Consensus size: 27
24669881 ATTCAATTTC
24669891 ATTTTTTAAGAA-AATTTCAAATATTTTT
1 ATTTTTTAA-AATAATTTCAAA-ATTTTT
*
24669919 ATTTTTTAAAATAATTTTAAAATTTTT
1 ATTTTTTAAAATAATTTCAAAATTTTT
24669946 A
1 A
24669947 ATATTTTCAA
Statistics
Matches: 26, Mismatches: 1, Indels: 3
0.87 0.03 0.10
Matches are distributed among these distances:
27 9 0.35
28 17 0.65
ACGTcount: A:0.41, C:0.02, G:0.02, T:0.55
Consensus pattern (27 bp):
ATTTTTTAAAATAATTTCAAAATTTTT
Found at i:24669953 original size:28 final size:28
Alignment explanation
Indices: 24669894--24669953 Score: 70
Period size: 28 Copynumber: 2.1 Consensus size: 28
24669884 CAATTTCATT
*
24669894 TTTTAAGAAAATTTCAAATATTTTTATT
1 TTTTAAGAAAATTTCAAATATTTTTATA
*
24669922 TTTTAA-AATAATTTTAAA-ATTTTTAATA
1 TTTTAAGAA-AATTTCAAATATTTTT-ATA
24669950 TTTT
1 TTTT
24669954 CAACAATGGC
Statistics
Matches: 28, Mismatches: 2, Indels: 4
0.82 0.06 0.12
Matches are distributed among these distances:
27 8 0.29
28 20 0.71
ACGTcount: A:0.40, C:0.02, G:0.02, T:0.57
Consensus pattern (28 bp):
TTTTAAGAAAATTTCAAATATTTTTATA
Found at i:24670073 original size:14 final size:15
Alignment explanation
Indices: 24670044--24670077 Score: 52
Period size: 15 Copynumber: 2.3 Consensus size: 15
24670034 AAAATTTAAA
24670044 TTTTATTTAAGATAT
1 TTTTATTTAAGATAT
*
24670059 TTTTATTTATG-TAT
1 TTTTATTTAAGATAT
24670073 TTTTA
1 TTTTA
24670078 GATAATTATT
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
14 8 0.44
15 10 0.56
ACGTcount: A:0.26, C:0.00, G:0.06, T:0.68
Consensus pattern (15 bp):
TTTTATTTAAGATAT
Found at i:24670192 original size:15 final size:15
Alignment explanation
Indices: 24670172--24670203 Score: 64
Period size: 15 Copynumber: 2.1 Consensus size: 15
24670162 ACCGTTAGTA
24670172 GAGAACTACCTGCGG
1 GAGAACTACCTGCGG
24670187 GAGAACTACCTGCGG
1 GAGAACTACCTGCGG
24670202 GA
1 GA
24670204 AGCGGGATTT
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 17 1.00
ACGTcount: A:0.28, C:0.25, G:0.34, T:0.12
Consensus pattern (15 bp):
GAGAACTACCTGCGG
Found at i:24671061 original size:7 final size:7
Alignment explanation
Indices: 24671049--24671073 Score: 50
Period size: 7 Copynumber: 3.6 Consensus size: 7
24671039 AGTGGATTGA
24671049 TATTTAG
1 TATTTAG
24671056 TATTTAG
1 TATTTAG
24671063 TATTTAG
1 TATTTAG
24671070 TATT
1 TATT
24671074 ATGTATATAA
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:0.28, C:0.00, G:0.12, T:0.60
Consensus pattern (7 bp):
TATTTAG
Found at i:24672127 original size:125 final size:126
Alignment explanation
Indices: 24671961--24672242 Score: 396
Period size: 125 Copynumber: 2.3 Consensus size: 126
24671951 AAACACCATC
* * *
24671961 GCGATTTGACACTATTTGCTCA-AAAACGTCAAAAAATAATTATTTCCTACATGACCAAATGTAG
1 GCGATTTTATACTATTTGCTCAGAAAACGTCAAAAAATAATTATTTCCTACATGACCAAATGTAC
* **
24672025 CGAAATCGCGTCCACGAGGG-AGCGATTTCACAATTTCTTCTCAT-ATAGCATCCTGGTATCA
66 CGAAATCACGTCCACGAGGGCA-CGATTTCACAATTTCTTCT-ATGATAGCATCCTGGTAGAA
* * *
24672086 GTGATTTTATACTATTTGCTCAGAAAACGTCAAAAAA-AATTATTTCTTACATGACCAACTGTAC
1 GCGATTTTATACTATTTGCTCAGAAAACGTCAAAAAATAATTATTTCCTACATGACCAAATGTAC
* *
24672150 CGAAATCACGTCCACGAGGGCACGATTTCACAATTTCTTCTTTGATAGCATCTTGGTAGAA
66 CGAAATCACGTCCACGAGGGCACGATTTCACAATTTCTTCTATGATAGCATCCTGGTAGAA
24672211 GCGATTTTATACTATTTGACT-AG-AAACGTCAA
1 GCGATTTTATACTATTTG-CTCAGAAAACGTCAA
24672243 CTCGAAATAA
Statistics
Matches: 141, Mismatches: 12, Indels: 9
0.87 0.07 0.06
Matches are distributed among these distances:
124 10 0.07
125 114 0.81
126 17 0.12
ACGTcount: A:0.33, C:0.21, G:0.16, T:0.31
Consensus pattern (126 bp):
GCGATTTTATACTATTTGCTCAGAAAACGTCAAAAAATAATTATTTCCTACATGACCAAATGTAC
CGAAATCACGTCCACGAGGGCACGATTTCACAATTTCTTCTATGATAGCATCCTGGTAGAA
Found at i:24673267 original size:15 final size:15
Alignment explanation
Indices: 24673247--24673276 Score: 60
Period size: 15 Copynumber: 2.0 Consensus size: 15
24673237 TAGTCCCTAT
24673247 TTGTTATTATTATTA
1 TTGTTATTATTATTA
24673262 TTGTTATTATTATTA
1 TTGTTATTATTATTA
24673277 CTATATATAT
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 15 1.00
ACGTcount: A:0.27, C:0.00, G:0.07, T:0.67
Consensus pattern (15 bp):
TTGTTATTATTATTA
Found at i:24673439 original size:17 final size:17
Alignment explanation
Indices: 24673406--24673440 Score: 52
Period size: 17 Copynumber: 2.1 Consensus size: 17
24673396 TATGTACATA
* *
24673406 TATATACATTTATATTT
1 TATATACATATACATTT
24673423 TATATACATATACATTT
1 TATATACATATACATTT
24673440 T
1 T
24673441 GTAACACATT
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
17 16 1.00
ACGTcount: A:0.37, C:0.09, G:0.00, T:0.54
Consensus pattern (17 bp):
TATATACATATACATTT
Found at i:24675191 original size:16 final size:16
Alignment explanation
Indices: 24675166--24675200 Score: 52
Period size: 16 Copynumber: 2.2 Consensus size: 16
24675156 GTGTGTTTTG
*
24675166 TTTTGGCTGCATGACA
1 TTTTGACTGCATGACA
*
24675182 TTTTGACTGCATGGCA
1 TTTTGACTGCATGACA
24675198 TTT
1 TTT
24675201 CATCATAGAA
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
16 17 1.00
ACGTcount: A:0.17, C:0.17, G:0.23, T:0.43
Consensus pattern (16 bp):
TTTTGACTGCATGACA
Found at i:24675650 original size:19 final size:19
Alignment explanation
Indices: 24675626--24675672 Score: 60
Period size: 19 Copynumber: 2.5 Consensus size: 19
24675616 AACGTCTCTT
*
24675626 TTTGCATT-CATTTCATGCA
1 TTTGCATTACATTACAT-CA
24675645 TTTGCATTACATTACATCA
1 TTTGCATTACATTACATCA
*
24675664 TATGCATTA
1 TTTGCATTA
24675673 AACACTGTTA
Statistics
Matches: 25, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
19 18 0.72
20 7 0.28
ACGTcount: A:0.28, C:0.19, G:0.09, T:0.45
Consensus pattern (19 bp):
TTTGCATTACATTACATCA
Found at i:24675734 original size:4 final size:4
Alignment explanation
Indices: 24675725--24675750 Score: 52
Period size: 4 Copynumber: 6.5 Consensus size: 4
24675715 TTAACCTGGA
24675725 AACC AACC AACC AACC AACC AACC AA
1 AACC AACC AACC AACC AACC AACC AA
24675751 ACACCGTTAC
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
4 22 1.00
ACGTcount: A:0.54, C:0.46, G:0.00, T:0.00
Consensus pattern (4 bp):
AACC
Found at i:24677967 original size:102 final size:102
Alignment explanation
Indices: 24677812--24678144 Score: 576
Period size: 102 Copynumber: 3.3 Consensus size: 102
24677802 CCAGTGATTC
* * * *
24677812 GGGGAATCAGCACTTAGCAACCCCTTTCACATTTAAGATACGGTGGGATCAGCACTTAGCAACCA
1 GGGGAATCAACACTTAGCAACCCCCTTCACATTTAAAATACGGTGGAATCAGCACTTAGCAACCA
* *
24677877 CCAATGAGTCGGGAAATCAGCACTTAGCAACCCCTTG
66 CCAATGATTCGGGGAATCAGCACTTAGCAACCCCTTG
* *
24677914 GGGGAATCAACACTTAACAACCCCCTTCACATTTAAAATACGGTGCAATCAGCACTTAGCAACCA
1 GGGGAATCAACACTTAGCAACCCCCTTCACATTTAAAATACGGTGGAATCAGCACTTAGCAACCA
*
24677979 CCAATGATTCGGGGAATCAGCACTTAGCAACCCTTTG
66 CCAATGATTCGGGGAATCAGCACTTAGCAACCCCTTG
24678016 GGGGAATCAACACTTAGCAACCCCCTTCACATTTAAAATACGGTGGAATCAGCACTTAGCAACCA
1 GGGGAATCAACACTTAGCAACCCCCTTCACATTTAAAATACGGTGGAATCAGCACTTAGCAACCA
*
24678081 CCAATGATTCGGGGAATCAACACTTAGCAACCCCTTG
66 CCAATGATTCGGGGAATCAGCACTTAGCAACCCCTTG
24678118 GGGGAATCAACACTTAGCAACCCCCTT
1 GGGGAATCAACACTTAGCAACCCCCTT
24678145 TATATTCAAT
Statistics
Matches: 218, Mismatches: 13, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
102 218 1.00
ACGTcount: A:0.32, C:0.29, G:0.19, T:0.21
Consensus pattern (102 bp):
GGGGAATCAACACTTAGCAACCCCCTTCACATTTAAAATACGGTGGAATCAGCACTTAGCAACCA
CCAATGATTCGGGGAATCAGCACTTAGCAACCCCTTG
Found at i:24685368 original size:33 final size:33
Alignment explanation
Indices: 24685326--24685552 Score: 144
Period size: 33 Copynumber: 6.5 Consensus size: 33
24685316 ATATCAAGGG
24685326 GGTTGCTAAGTGCTGATTCCCCGAATCATTGGT
1 GGTTGCTAAGTGCTGATTCCCCGAATCATTGGT
* *
24685359 GGTTGCTAAGTGCTGATTCCACC-ATATTTTAAATGTGAAGGA
1 GGTTGCTAAGTGCTGATTCC-CCGA-A---T-CAT-T---GGT
* *
24685401 GGTTGCTAAGTACTGATTCCCC----CA-AGG-
1 GGTTGCTAAGTGCTGATTCCCCGAATCATTGGT
24685428 GGTTGCTAAGTGCTGATTCCCCGAATCATTGGT
1 GGTTGCTAAGTGCTGATTCCCCGAATCATTGGT
* * * *
24685461 GGTTGCTAAGTGATGATTCCACCGTATTTTAAATGTGAAGGG
1 GGTTGCTAAGTGCTGATTCC-CCG-A--AT-CAT-T---GGT
*
24685503 GGTTGCTAAGTGCTGATTCCCCGACTCATTGGT
1 GGTTGCTAAGTGCTGATTCCCCGAATCATTGGT
*
24685536 GGTTGCTAAGTACTGAT
1 GGTTGCTAAGTGCTGAT
24685553 CCCACAGTAT
Statistics
Matches: 153, Mismatches: 16, Indels: 50
0.70 0.07 0.23
Matches are distributed among these distances:
27 21 0.14
28 2 0.01
31 2 0.01
32 2 0.01
33 59 0.39
34 6 0.04
35 1 0.01
36 1 0.01
37 4 0.03
38 5 0.03
39 2 0.01
40 1 0.01
41 5 0.03
42 42 0.27
ACGTcount: A:0.22, C:0.19, G:0.27, T:0.33
Consensus pattern (33 bp):
GGTTGCTAAGTGCTGATTCCCCGAATCATTGGT
Found at i:24685435 original size:27 final size:28
Alignment explanation
Indices: 24685396--24685449 Score: 92
Period size: 27 Copynumber: 2.0 Consensus size: 28
24685386 TTTAAATGTG
24685396 AAGGAGGTTGCTAAGTACTGATTCCCCC
1 AAGGAGGTTGCTAAGTACTGATTCCCCC
*
24685424 AAGG-GGTTGCTAAGTGCTGATTCCCC
1 AAGGAGGTTGCTAAGTACTGATTCCCC
24685450 GAATCATTGG
Statistics
Matches: 25, Mismatches: 1, Indels: 1
0.93 0.04 0.04
Matches are distributed among these distances:
27 21 0.84
28 4 0.16
ACGTcount: A:0.22, C:0.24, G:0.28, T:0.26
Consensus pattern (28 bp):
AAGGAGGTTGCTAAGTACTGATTCCCCC
Found at i:24685438 original size:102 final size:102
Alignment explanation
Indices: 24685324--24685524 Score: 366
Period size: 102 Copynumber: 2.0 Consensus size: 102
24685314 GAATATCAAG
*
24685324 GGGGTTGCTAAGTGCTGATTCCCCGAATCATTGGTGGTTGCTAAGTGCTGATTCCACCATATTTT
1 GGGGTTGCTAAGTGCTGATTCCCCGAATCATTGGTGGTTGCTAAGTGATGATTCCACCATATTTT
24685389 AAATGTGAAGGAGGTTGCTAAGTACTGATTCCCCCAA
66 AAATGTGAAGGAGGTTGCTAAGTACTGATTCCCCCAA
*
24685426 GGGGTTGCTAAGTGCTGATTCCCCGAATCATTGGTGGTTGCTAAGTGATGATTCCACCGTATTTT
1 GGGGTTGCTAAGTGCTGATTCCCCGAATCATTGGTGGTTGCTAAGTGATGATTCCACCATATTTT
* *
24685491 AAATGTGAAGGGGGTTGCTAAGTGCTGATTCCCC
66 AAATGTGAAGGAGGTTGCTAAGTACTGATTCCCC
24685525 GACTCATTGG
Statistics
Matches: 95, Mismatches: 4, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
102 95 1.00
ACGTcount: A:0.22, C:0.19, G:0.27, T:0.32
Consensus pattern (102 bp):
GGGGTTGCTAAGTGCTGATTCCCCGAATCATTGGTGGTTGCTAAGTGATGATTCCACCATATTTT
AAATGTGAAGGAGGTTGCTAAGTACTGATTCCCCCAA
Found at i:24685520 original size:42 final size:41
Alignment explanation
Indices: 24685461--24685597 Score: 119
Period size: 42 Copynumber: 3.5 Consensus size: 41
24685451 AATCATTGGT
*
24685461 GGTTGCTAAGTGATGATTCCACCGTATTTTAAATGTGAAGGG
1 GGTTGCTAAGTGCTGATTCCACCGTA-TTTAAATGTGAAGGG
* * *
24685503 GGTTGCTAAGTGCTGATTCC-CCG-A-CT-CAT-T---GGT
1 GGTTGCTAAGTGCTGATTCCACCGTATTTAAATGTGAAGGG
* * * *
24685536 GGTTGCTAAGTACTGATCCCACAGTATCTTAAATGTGAAAGG
1 GGTTGCTAAGTGCTGATTCCACCGTAT-TTAAATGTGAAGGG
*
24685578 GGTTGCTAAGTGTTGATTCC
1 GGTTGCTAAGTGCTGATTCC
24685598 TCGAATCACT
Statistics
Matches: 72, Mismatches: 14, Indels: 18
0.69 0.13 0.17
Matches are distributed among these distances:
33 20 0.28
34 2 0.03
35 1 0.01
36 1 0.01
37 3 0.04
38 3 0.04
39 1 0.01
40 1 0.01
41 3 0.04
42 37 0.51
ACGTcount: A:0.23, C:0.17, G:0.27, T:0.33
Consensus pattern (41 bp):
GGTTGCTAAGTGCTGATTCCACCGTATTTAAATGTGAAGGG
Found at i:24685568 original size:75 final size:75
Alignment explanation
Indices: 24685424--24685626 Score: 300
Period size: 75 Copynumber: 2.7 Consensus size: 75
24685414 TGATTCCCCC
* *
24685424 AAGGGGTTGCTAAGTGCTGATTCCCCGAATCATTGGTGGTTGCTAAGTGA-TGATTCCACCGTAT
1 AAGGGGTTGCTAAGTGCTGATTCCCCGAATCATTGGTGGTTGCTAAGT-ACTGATCCCACAGTAT
*
24685488 TTTAAATGTGA
65 CTTAAATGTGA
* *
24685499 AGGGGGTTGCTAAGTGCTGATTCCCCGACTCATTGGTGGTTGCTAAGTACTGATCCCACAGTATC
1 AAGGGGTTGCTAAGTGCTGATTCCCCGAATCATTGGTGGTTGCTAAGTACTGATCCCACAGTATC
24685564 TTAAATGTGA
66 TTAAATGTGA
* * * * *
24685574 AAGGGGTTGCTAAGTGTTGATTCCTCGAATCACTGGAGGTTGCTAAGTGCTGA
1 AAGGGGTTGCTAAGTGCTGATTCCCCGAATCATTGGTGGTTGCTAAGTACTGA
24685627 ATCCACTGAT
Statistics
Matches: 115, Mismatches: 12, Indels: 2
0.89 0.09 0.02
Matches are distributed among these distances:
74 1 0.01
75 114 0.99
ACGTcount: A:0.23, C:0.17, G:0.28, T:0.32
Consensus pattern (75 bp):
AAGGGGTTGCTAAGTGCTGATTCCCCGAATCATTGGTGGTTGCTAAGTACTGATCCCACAGTATC
TTAAATGTGA
Found at i:24690586 original size:45 final size:45
Alignment explanation
Indices: 24690029--24690585 Score: 727
Period size: 45 Copynumber: 12.4 Consensus size: 45
24690019 GTTGAAAAAC
*
24690029 AGCAGATCTTGTCTTCCCATACTGGTGGCGAAGTAGATCGAAGAT
1 AGCAGATCTTGTCTTCCCATACTGGTGGCGAAGTAGATCAAAGAT
* * *
24690074 AGTAGATCTTGTCTTCCCATACTGGTGGCGAAATAGATCGAAGAT
1 AGCAGATCTTGTCTTCCCATACTGGTGGCGAAGTAGATCAAAGAT
* * ** **
24690119 AACGGATCTTGTCTTCCTGTACTGGCAGCGAAGTAGATCAAAGAT
1 AGCAGATCTTGTCTTCCCATACTGGTGGCGAAGTAGATCAAAGAT
* *
24690164 AGTAGATCTTGTCTTCCCATACTGGTGGCGAAGTAGATCGAAGAT
1 AGCAGATCTTGTCTTCCCATACTGGTGGCGAAGTAGATCAAAGAT
* * ** *
24690209 AACGGATCTTGTCTTCCTGTACTGGTAGCGAAGTAGATCAAAGAT
1 AGCAGATCTTGTCTTCCCATACTGGTGGCGAAGTAGATCAAAGAT
* *
24690254 TGCAGATCTTGTCTTCCCATACTGGTGGCGAAGTAGATCGAAGAT
1 AGCAGATCTTGTCTTCCCATACTGGTGGCGAAGTAGATCAAAGAT
* * *
24690299 AACGGATCTTATCTTCCCATACTGGTGGCGAAGTAGATCAAAGAT
1 AGCAGATCTTGTCTTCCCATACTGGTGGCGAAGTAGATCAAAGAT
* * * ** *
24690344 AACATATTTTGTCTTCCTGTACTGGTAGCGAAGTAGATCAAAGAT
1 AGCAGATCTTGTCTTCCCATACTGGTGGCGAAGTAGATCAAAGAT
* *
24690389 AGCAGATCTTGTCTTCCCATACTGGTGGTGAAGTAGATCGAAGAT
1 AGCAGATCTTGTCTTCCCATACTGGTGGCGAAGTAGATCAAAGAT
* * ** **
24690434 AACGGATCTTGTCTTCCTGTACTGGCAGCGAAGTAGATCAAAGAT
1 AGCAGATCTTGTCTTCCCATACTGGTGGCGAAGTAGATCAAAGAT
*
24690479 AGCAGATCTTGTCTTCCCATACTGGTGGCGAAGTAGATCGAAGAT
1 AGCAGATCTTGTCTTCCCATACTGGTGGCGAAGTAGATCAAAGAT
* * * * *
24690524 AACAGATCTTGTTTTCCTATATTGGTAGCGAAGTAGATCAAAGAT
1 AGCAGATCTTGTCTTCCCATACTGGTGGCGAAGTAGATCAAAGAT
*
24690569 AGCAGATTTTGTCTTCC
1 AGCAGATCTTGTCTTCC
24690586 TGTATCGGCA
Statistics
Matches: 435, Mismatches: 77, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
45 435 1.00
ACGTcount: A:0.28, C:0.18, G:0.24, T:0.29
Consensus pattern (45 bp):
AGCAGATCTTGTCTTCCCATACTGGTGGCGAAGTAGATCAAAGAT
Found at i:24691338 original size:3 final size:3
Alignment explanation
Indices: 24691330--24691365 Score: 54
Period size: 3 Copynumber: 12.0 Consensus size: 3
24691320 TCCCTATTTG
* *
24691330 TTA TTA TTA TTG TTA TTA TTG TTA TTA TTA TTA TTA
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA
24691366 CTATATATAT
Statistics
Matches: 29, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
3 29 1.00
ACGTcount: A:0.28, C:0.00, G:0.06, T:0.67
Consensus pattern (3 bp):
TTA
Found at i:24691529 original size:17 final size:17
Alignment explanation
Indices: 24691496--24691530 Score: 52
Period size: 17 Copynumber: 2.1 Consensus size: 17
24691486 TATACACATA
* *
24691496 TATATACATTTATATTT
1 TATATACATATACATTT
24691513 TATATACATATACATTT
1 TATATACATATACATTT
24691530 T
1 T
24691531 GTAACACATT
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
17 16 1.00
ACGTcount: A:0.37, C:0.09, G:0.00, T:0.54
Consensus pattern (17 bp):
TATATACATATACATTT
Found at i:24698806 original size:29 final size:29
Alignment explanation
Indices: 24698764--24698826 Score: 117
Period size: 29 Copynumber: 2.2 Consensus size: 29
24698754 AATAGATGAA
24698764 AATTTTTACAAAAAATTAATTATTATTTT
1 AATTTTTACAAAAAATTAATTATTATTTT
24698793 AATTTTTACAAAAAATTAATTATTATTTT
1 AATTTTTACAAAAAATTAATTATTATTTT
*
24698822 TATTT
1 AATTT
24698827 AATGTATACA
Statistics
Matches: 33, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
29 33 1.00
ACGTcount: A:0.43, C:0.03, G:0.00, T:0.54
Consensus pattern (29 bp):
AATTTTTACAAAAAATTAATTATTATTTT
Found at i:24699266 original size:17 final size:17
Alignment explanation
Indices: 24699228--24699264 Score: 58
Period size: 17 Copynumber: 2.2 Consensus size: 17
24699218 AAAAAGTATA
*
24699228 TAAATTAATTTTTTAAT
1 TAAATTAAATTTTTAAT
24699245 TAAATTAAATTTTT-AT
1 TAAATTAAATTTTTAAT
24699261 TAAA
1 TAAA
24699265 ATCATCAATT
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
16 6 0.32
17 13 0.68
ACGTcount: A:0.46, C:0.00, G:0.00, T:0.54
Consensus pattern (17 bp):
TAAATTAAATTTTTAAT
Found at i:24699570 original size:15 final size:16
Alignment explanation
Indices: 24699543--24699572 Score: 53
Period size: 15 Copynumber: 1.9 Consensus size: 16
24699533 TAATAGTATA
24699543 AATAAATAAAAAATTT
1 AATAAATAAAAAATTT
24699559 AATAAA-AAAAAATT
1 AATAAATAAAAAATT
24699573 AATTTATTTT
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
15 8 0.57
16 6 0.43
ACGTcount: A:0.73, C:0.00, G:0.00, T:0.27
Consensus pattern (16 bp):
AATAAATAAAAAATTT
Found at i:24708932 original size:15 final size:16
Alignment explanation
Indices: 24708912--24708944 Score: 59
Period size: 15 Copynumber: 2.1 Consensus size: 16
24708902 AATATGTTAA
24708912 CACATAATTCAT-ATT
1 CACATAATTCATAATT
24708927 CACATAATTCATAATT
1 CACATAATTCATAATT
24708943 CA
1 CA
24708945 AATACGTTAC
Statistics
Matches: 17, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
15 12 0.71
16 5 0.29
ACGTcount: A:0.42, C:0.21, G:0.00, T:0.36
Consensus pattern (16 bp):
CACATAATTCATAATT
Found at i:24709178 original size:43 final size:43
Alignment explanation
Indices: 24709077--24709200 Score: 153
Period size: 43 Copynumber: 2.9 Consensus size: 43
24709067 GGCTCGTACA
* * * *
24709077 ATGCCAACGTCTCAGATGTGGTCTTACATGTAATCACATATCG
1 ATGCCAACGTCCCAGATGTGGTCTTACACGTAAACACAAATCG
*
24709120 ATGCC-ACTGTTCCAGATAG-GGTCTTACACGTAAACACAAATCG
1 ATGCCAAC-GTCCCAGAT-GTGGTCTTACACGTAAACACAAATCG
* *
24709163 ATGCCAACGTCCCAGACGTGGTCTTACACGAAAACACA
1 ATGCCAACGTCCCAGATGTGGTCTTACACGTAAACACA
24709201 TATTGAAAAT
Statistics
Matches: 69, Mismatches: 8, Indels: 8
0.81 0.09 0.09
Matches are distributed among these distances:
42 3 0.04
43 63 0.91
44 3 0.04
ACGTcount: A:0.31, C:0.27, G:0.19, T:0.23
Consensus pattern (43 bp):
ATGCCAACGTCCCAGATGTGGTCTTACACGTAAACACAAATCG
Found at i:24709401 original size:22 final size:20
Alignment explanation
Indices: 24709357--24709398 Score: 84
Period size: 20 Copynumber: 2.1 Consensus size: 20
24709347 AAACAATTCA
24709357 ATTTATCACATAACATATAT
1 ATTTATCACATAACATATAT
24709377 ATTTATCACATAACATATAT
1 ATTTATCACATAACATATAT
24709397 AT
1 AT
24709399 ATTCTCAAAT
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 22 1.00
ACGTcount: A:0.45, C:0.14, G:0.00, T:0.40
Consensus pattern (20 bp):
ATTTATCACATAACATATAT
Found at i:24711691 original size:18 final size:19
Alignment explanation
Indices: 24711668--24711705 Score: 51
Period size: 18 Copynumber: 2.1 Consensus size: 19
24711658 GAAAAACCTA
*
24711668 ATGCTTCAAATA-ATTTAG
1 ATGCTTCAAACACATTTAG
*
24711686 ATGCTTTAAACACATTTAG
1 ATGCTTCAAACACATTTAG
24711705 A
1 A
24711706 ATATGTTCAT
Statistics
Matches: 17, Mismatches: 2, Indels: 1
0.85 0.10 0.05
Matches are distributed among these distances:
18 10 0.59
19 7 0.41
ACGTcount: A:0.39, C:0.13, G:0.11, T:0.37
Consensus pattern (19 bp):
ATGCTTCAAACACATTTAG
Found at i:24732546 original size:29 final size:29
Alignment explanation
Indices: 24732504--24732566 Score: 117
Period size: 29 Copynumber: 2.2 Consensus size: 29
24732494 AATAGATGAA
24732504 AATTTTTACAAAAAATTAATTATTATTTT
1 AATTTTTACAAAAAATTAATTATTATTTT
24732533 AATTTTTACAAAAAATTAATTATTATTTT
1 AATTTTTACAAAAAATTAATTATTATTTT
*
24732562 TATTT
1 AATTT
24732567 AATGTATACA
Statistics
Matches: 33, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
29 33 1.00
ACGTcount: A:0.43, C:0.03, G:0.00, T:0.54
Consensus pattern (29 bp):
AATTTTTACAAAAAATTAATTATTATTTT
Found at i:24733006 original size:17 final size:17
Alignment explanation
Indices: 24732968--24733004 Score: 58
Period size: 17 Copynumber: 2.2 Consensus size: 17
24732958 AAAAAGTATA
*
24732968 TAAATTAATTTTTTAAT
1 TAAATTAAATTTTTAAT
24732985 TAAATTAAATTTTT-AT
1 TAAATTAAATTTTTAAT
24733001 TAAA
1 TAAA
24733005 ATCATCAATT
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
16 6 0.32
17 13 0.68
ACGTcount: A:0.46, C:0.00, G:0.00, T:0.54
Consensus pattern (17 bp):
TAAATTAAATTTTTAAT
Found at i:24733310 original size:15 final size:16
Alignment explanation
Indices: 24733283--24733312 Score: 53
Period size: 15 Copynumber: 1.9 Consensus size: 16
24733273 TAATAGTATA
24733283 AATAAATAAAAAATTT
1 AATAAATAAAAAATTT
24733299 AATAAA-AAAAAATT
1 AATAAATAAAAAATT
24733313 AATTTATTTT
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
15 8 0.57
16 6 0.43
ACGTcount: A:0.73, C:0.00, G:0.00, T:0.27
Consensus pattern (16 bp):
AATAAATAAAAAATTT
Found at i:24739079 original size:15 final size:15
Alignment explanation
Indices: 24739030--24739080 Score: 50
Period size: 15 Copynumber: 3.3 Consensus size: 15
24739020 GTAAGACGGA
24739030 AATTTAA-ATTTTGTT
1 AATTTAATATTTT-TT
* * *
24739045 AATTTCAATAATGTTA
1 AATTT-AATATTTTTT
24739061 AATTTAATATTTTTT
1 AATTTAATATTTTTT
24739076 AATTT
1 AATTT
24739081 GAAATTATTT
Statistics
Matches: 28, Mismatches: 6, Indels: 4
0.74 0.16 0.11
Matches are distributed among these distances:
15 17 0.61
16 8 0.29
17 3 0.11
ACGTcount: A:0.37, C:0.02, G:0.04, T:0.57
Consensus pattern (15 bp):
AATTTAATATTTTTT
Found at i:24742658 original size:15 final size:16
Alignment explanation
Indices: 24742638--24742670 Score: 59
Period size: 15 Copynumber: 2.1 Consensus size: 16
24742628 AATATGTTAA
24742638 CACATAATTCAT-ATT
1 CACATAATTCATAATT
24742653 CACATAATTCATAATT
1 CACATAATTCATAATT
24742669 CA
1 CA
24742671 AATACGTTAC
Statistics
Matches: 17, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
15 12 0.71
16 5 0.29
ACGTcount: A:0.42, C:0.21, G:0.00, T:0.36
Consensus pattern (16 bp):
CACATAATTCATAATT
Found at i:24742904 original size:43 final size:43
Alignment explanation
Indices: 24742803--24742926 Score: 153
Period size: 43 Copynumber: 2.9 Consensus size: 43
24742793 GGCTCGTACA
* * * *
24742803 ATGCCAACGTCTCAGATGTGGTCTTACATGTAATCACATATCG
1 ATGCCAACGTCCCAGATGTGGTCTTACACGTAAACACAAATCG
*
24742846 ATGCC-ACTGTTCCAGATAG-GGTCTTACACGTAAACACAAATCG
1 ATGCCAAC-GTCCCAGAT-GTGGTCTTACACGTAAACACAAATCG
* *
24742889 ATGCCAACGTCCCAGACGTGGTCTTACACGAAAACACA
1 ATGCCAACGTCCCAGATGTGGTCTTACACGTAAACACA
24742927 TATTGAAAAT
Statistics
Matches: 69, Mismatches: 8, Indels: 8
0.81 0.09 0.09
Matches are distributed among these distances:
42 3 0.04
43 63 0.91
44 3 0.04
ACGTcount: A:0.31, C:0.27, G:0.19, T:0.23
Consensus pattern (43 bp):
ATGCCAACGTCCCAGATGTGGTCTTACACGTAAACACAAATCG
Found at i:24743127 original size:22 final size:20
Alignment explanation
Indices: 24743083--24743124 Score: 84
Period size: 20 Copynumber: 2.1 Consensus size: 20
24743073 AAACAATTCA
24743083 ATTTATCACATAACATATAT
1 ATTTATCACATAACATATAT
24743103 ATTTATCACATAACATATAT
1 ATTTATCACATAACATATAT
24743123 AT
1 AT
24743125 ATTCTCAAAT
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 22 1.00
ACGTcount: A:0.45, C:0.14, G:0.00, T:0.40
Consensus pattern (20 bp):
ATTTATCACATAACATATAT
Found at i:24745416 original size:18 final size:19
Alignment explanation
Indices: 24745393--24745430 Score: 51
Period size: 18 Copynumber: 2.1 Consensus size: 19
24745383 GAAAAACCTA
*
24745393 ATGCTTCAAATA-ATTTAG
1 ATGCTTCAAACACATTTAG
*
24745411 ATGCTTTAAACACATTTAG
1 ATGCTTCAAACACATTTAG
24745430 A
1 A
24745431 ATATGTTCAT
Statistics
Matches: 17, Mismatches: 2, Indels: 1
0.85 0.10 0.05
Matches are distributed among these distances:
18 10 0.59
19 7 0.41
ACGTcount: A:0.39, C:0.13, G:0.11, T:0.37
Consensus pattern (19 bp):
ATGCTTCAAACACATTTAG
Found at i:24750535 original size:16 final size:16
Alignment explanation
Indices: 24750514--24750545 Score: 64
Period size: 16 Copynumber: 2.0 Consensus size: 16
24750504 AGTTCCAGTA
24750514 GCCTACCATCCATTTC
1 GCCTACCATCCATTTC
24750530 GCCTACCATCCATTTC
1 GCCTACCATCCATTTC
24750546 ACCTTTATTT
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 16 1.00
ACGTcount: A:0.19, C:0.44, G:0.06, T:0.31
Consensus pattern (16 bp):
GCCTACCATCCATTTC
Done.