Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Gbar_A02
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: 100057689
ACGTcount: A:0.31, C:0.17, G:0.17, T:0.31
Warning! 3589301 characters in sequence are not A, C, G, or T
File 71 of 295
Found at i:21588104 original size:51 final size:50
Alignment explanation
Indices: 21587927--21588179 Score: 240
Period size: 49 Copynumber: 5.1 Consensus size: 50
21587917 CACCCTTGTA
* * * *
21587927 ACCGAAGCTATCTGGTACGCATAGTAGCCTGCACTTAGTACTACACATGCG
1 ACCGAA-CTATCGGGTACACATAGTAGCCTGCACTTAGTACTACACACGTG
* * * * *
21587978 ACC-AACAATCCGGTACACGTAGTAGCCTACACTTAGT-CTACACACATG
1 ACCGAACTATCGGGTACACATAGTAGCCTGCACTTAGTACTACACACGTG
* * * * * *
21588026 ACCTAACGACCTGCTACACTTAGTAGCCTGCACTTAGTACTACACACGTG
1 ACCGAACTATCGGGTACACATAGTAGCCTGCACTTAGTACTACACACGTG
* * * * * * *
21588076 ATCGAAGTTGTCGGGTACGCATAGTAGCCTGCACTTAGTACTACAAATGCG
1 ACCGAA-CTATCGGGTACACATAGTAGCCTGCACTTAGTACTACACACGTG
* * * *
21588127 ACCTAACTATCTGGTACACGTATTAGCCTGCACTTAGTACTACACACGTG
1 ACCGAACTATCGGGTACACATAGTAGCCTGCACTTAGTACTACACACGTG
21588177 ACC
1 ACC
21588180 TAAAACCATC
Statistics
Matches: 160, Mismatches: 39, Indels: 7
0.78 0.19 0.03
Matches are distributed among these distances:
48 11 0.07
49 55 0.34
50 54 0.34
51 40 0.25
ACGTcount: A:0.29, C:0.28, G:0.19, T:0.24
Consensus pattern (50 bp):
ACCGAACTATCGGGTACACATAGTAGCCTGCACTTAGTACTACACACGTG
Found at i:21588157 original size:101 final size:98
Alignment explanation
Indices: 21587934--21588179 Score: 280
Period size: 101 Copynumber: 2.5 Consensus size: 98
21587924 GTAACCGAAG
* * * *
21587934 CTATCTGGTACGCATAGTAGCCTGCACTTAGTACTACACATGCGACCAACAATCCGGTACACGTA
1 CTATCTGGTACACATAGTAGCCTGCACTTAGTACTACACACGTGACCAACAATCCGGTACACATA
21587999 GTAGCCTACACTTAGTCTACACACATGACCTAA
66 GTAGCCTACACTTAGTCTACACACATGACCTAA
* * * * * *** * *
21588032 CGACCTGCTACACTTAGTAGCCTGCACTTAGTACTACACACGTGATCGAAGTTGTCGGGTACGCA
1 CTATCTGGTACACATAGTAGCCTGCACTTAGTACTACACACGTGA-CCAA-CAATCCGGTACACA
*
21588097 TAGTAGCCTGCACTTAGTACTACA-A-ATGCGACCTAA
64 TAGTAGCCTACACTTAGT-CTACACACAT--GACCTAA
* *
21588133 CTATCTGGTACACGTATTAGCCTGCACTTAGTACTACACACGTGACC
1 CTATCTGGTACACATAGTAGCCTGCACTTAGTACTACACACGTGACC
21588180 TAAAACCATC
Statistics
Matches: 122, Mismatches: 21, Indels: 8
0.81 0.14 0.05
Matches are distributed among these distances:
98 38 0.31
99 5 0.04
100 27 0.22
101 52 0.43
ACGTcount: A:0.28, C:0.28, G:0.18, T:0.25
Consensus pattern (98 bp):
CTATCTGGTACACATAGTAGCCTGCACTTAGTACTACACACGTGACCAACAATCCGGTACACATA
GTAGCCTACACTTAGTCTACACACATGACCTAA
Found at i:21590090 original size:13 final size:14
Alignment explanation
Indices: 21590072--21590102 Score: 55
Period size: 13 Copynumber: 2.3 Consensus size: 14
21590062 GGTTGTTTAT
21590072 TAAACTAATT-AAC
1 TAAACTAATTAAAC
21590085 TAAACTAATTAAAC
1 TAAACTAATTAAAC
21590099 TAAA
1 TAAA
21590103 GCAAAGAGAA
Statistics
Matches: 17, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
13 10 0.59
14 7 0.41
ACGTcount: A:0.58, C:0.13, G:0.00, T:0.29
Consensus pattern (14 bp):
TAAACTAATTAAAC
Found at i:21592695 original size:10 final size:9
Alignment explanation
Indices: 21592661--21592694 Score: 59
Period size: 9 Copynumber: 3.8 Consensus size: 9
21592651 TTGGGACCTC
*
21592661 AAAAACATA
1 AAAAAAATA
21592670 AAAAAAATA
1 AAAAAAATA
21592679 AAAAAAATA
1 AAAAAAATA
21592688 AAAAAAA
1 AAAAAAA
21592695 AACAAGAAAA
Statistics
Matches: 24, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
9 24 1.00
ACGTcount: A:0.88, C:0.03, G:0.00, T:0.09
Consensus pattern (9 bp):
AAAAAAATA
Found at i:21597620 original size:56 final size:56
Alignment explanation
Indices: 21597529--21597696 Score: 214
Period size: 56 Copynumber: 3.0 Consensus size: 56
21597519 TCTTACATGT
* * * * *
21597529 AATCACATATCGATGCC-AC-TGTTCTAGACAGGGTCTTACTTGCACACATATATTGA
1 AATCACATATCGATGCCAACAT-AT-TAAACATGGTCTTACTCGCACACATATATCGA
* * *
21597585 AATCACATATTGATGCCAACATATTAAACGTGGTCTTACTCGCACACATATATCGG
1 AATCACATATCGATGCCAACATATTAAACATGGTCTTACTCGCACACATATATCGA
**
21597641 AATCACATATCGATGCCAATGTATTAAACATGGTCTTACTCGCACACATATATCGA
1 AATCACATATCGATGCCAACATATTAAACATGGTCTTACTCGCACACATATATCGA
21597697 TGTCATGGTC
Statistics
Matches: 97, Mismatches: 13, Indels: 4
0.85 0.11 0.04
Matches are distributed among these distances:
56 93 0.96
57 3 0.03
58 1 0.01
ACGTcount: A:0.33, C:0.23, G:0.14, T:0.29
Consensus pattern (56 bp):
AATCACATATCGATGCCAACATATTAAACATGGTCTTACTCGCACACATATATCGA
Found at i:21598331 original size:15 final size:15
Alignment explanation
Indices: 21598307--21598337 Score: 53
Period size: 15 Copynumber: 2.1 Consensus size: 15
21598297 AATAAAAATT
21598307 TTAATACAAAACATA
1 TTAATACAAAACATA
*
21598322 TTAATCCAAAACATA
1 TTAATACAAAACATA
21598337 T
1 T
21598338 CTTTCATAAT
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
15 15 1.00
ACGTcount: A:0.55, C:0.16, G:0.00, T:0.29
Consensus pattern (15 bp):
TTAATACAAAACATA
Found at i:21600608 original size:125 final size:125
Alignment explanation
Indices: 21600386--21600636 Score: 484
Period size: 125 Copynumber: 2.0 Consensus size: 125
21600376 GAAGTTTTAC
21600386 TAGTAATGGCATGTACCTAAGACTAAACAACTAGGAGAGTCTTGTATGATGAGTTAAGTACTTAC
1 TAGTAATGGCATGTACCTAAGACTAAACAACTAGGAGAGTCTTGTATGATGAGTTAAGTACTTAC
21600451 ATAATAGGTTAAATGGGATAAATCATTAGTCAATTATGATGCCTATATAAGTATATATGT
66 ATAATAGGTTAAATGGGATAAATCATTAGTCAATTATGATGCCTATATAAGTATATATGT
*
21600511 TAGTAATGGCATGTACCTAAGACTAAACAACTAGGAGTGTCTTGTATGATGAGTTAAGTACTTAC
1 TAGTAATGGCATGTACCTAAGACTAAACAACTAGGAGAGTCTTGTATGATGAGTTAAGTACTTAC
*
21600576 ATAATAGGTTAAATGGGGTAAATCATTAGTCAATTATGATGCCTATATAAGTATATATGT
66 ATAATAGGTTAAATGGGATAAATCATTAGTCAATTATGATGCCTATATAAGTATATATGT
21600636 T
1 T
21600637 GAATATGTTA
Statistics
Matches: 124, Mismatches: 2, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
125 124 1.00
ACGTcount: A:0.37, C:0.10, G:0.20, T:0.33
Consensus pattern (125 bp):
TAGTAATGGCATGTACCTAAGACTAAACAACTAGGAGAGTCTTGTATGATGAGTTAAGTACTTAC
ATAATAGGTTAAATGGGATAAATCATTAGTCAATTATGATGCCTATATAAGTATATATGT
Found at i:21609339 original size:31 final size:31
Alignment explanation
Indices: 21609241--21609339 Score: 117
Period size: 31 Copynumber: 3.2 Consensus size: 31
21609231 CTGTGTGGGT
* * *
21609241 CACACGGGCTTGTAGGCCCACACAGGTAGTC
1 CACACGGGCGTGTGGGCCCACACGGGTAGTC
** * * *
21609272 CACACAAGCGTGCGAGCCCACACGGATAGTC
1 CACACGGGCGTGTGGGCCCACACGGGTAGTC
*
21609303 TACACGGGCGTGTGGGCCCACACGGGTAGTC
1 CACACGGGCGTGTGGGCCCACACGGGTAGTC
21609334 CACACG
1 CACACG
21609340 TGTAACGCCC
Statistics
Matches: 53, Mismatches: 15, Indels: 0
0.78 0.22 0.00
Matches are distributed among these distances:
31 53 1.00
ACGTcount: A:0.23, C:0.33, G:0.30, T:0.13
Consensus pattern (31 bp):
CACACGGGCGTGTGGGCCCACACGGGTAGTC
Found at i:21610805 original size:92 final size:93
Alignment explanation
Indices: 21610647--21610817 Score: 281
Period size: 92 Copynumber: 1.8 Consensus size: 93
21610637 CGCCCATAAG
* * *
21610647 CGAACTCGGACTCAACTCAATGAGCTCGGGCATTCGCATCCATGAGTGAACTCGGACTCAACTCA
1 CGAACTCGGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCA
21610712 ACGAGTTCGGATGCCTAGTTACATCTCA
66 ACGAGTTCGGATGCCTAGTTACATCTCA
* *
21610740 CGAACTCGGACTCAACTC-ACGAGTTCGGACATTTGCATCCATAAGTGAACTCGGACTCAACTCA
1 CGAACTCGGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCA
*
21610804 ACGAGTTTGGATGC
66 ACGAGTTCGGATGC
21610818 TCAACCATCC
Statistics
Matches: 72, Mismatches: 6, Indels: 1
0.91 0.08 0.01
Matches are distributed among these distances:
92 54 0.75
93 18 0.25
ACGTcount: A:0.27, C:0.28, G:0.22, T:0.23
Consensus pattern (93 bp):
CGAACTCGGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCA
ACGAGTTCGGATGCCTAGTTACATCTCA
Found at i:21610808 original size:46 final size:46
Alignment explanation
Indices: 21610640--21610810 Score: 188
Period size: 46 Copynumber: 3.7 Consensus size: 46
21610630 TGTAACCCGC
* * * *
21610640 CCATAAGCGAACTCGGACTCAACTCAATGAGCTCGGGCATTCGCAT
1 CCATAAGCGAACTCGGACTCAACTCAACGAGTTCGGACATTTGCAT
* * * *
21610686 CCATGAGTGAACTCGGACTCAACTCAACGAGTTCGGATGCCTAGTTACAT
1 CCATAAGCGAACTCGGACTCAACTCAACGAGTTCGGA---C-ATTTGCAT
*
21610736 -C-TCA-CGAACTCGGACTCAACTC-ACGAGTTCGGACATTTGCAT
1 CCATAAGCGAACTCGGACTCAACTCAACGAGTTCGGACATTTGCAT
*
21610778 CCATAAGTGAACTCGGACTCAACTCAACGAGTT
1 CCATAAGCGAACTCGGACTCAACTCAACGAGTT
21610811 TGGATGCTCA
Statistics
Matches: 103, Mismatches: 14, Indels: 16
0.77 0.11 0.12
Matches are distributed among these distances:
42 6 0.06
43 2 0.02
44 2 0.02
45 17 0.17
46 50 0.49
47 17 0.17
48 2 0.02
49 2 0.02
50 5 0.05
ACGTcount: A:0.29, C:0.29, G:0.20, T:0.22
Consensus pattern (46 bp):
CCATAAGCGAACTCGGACTCAACTCAACGAGTTCGGACATTTGCAT
Found at i:21613188 original size:21 final size:22
Alignment explanation
Indices: 21613157--21613197 Score: 66
Period size: 21 Copynumber: 1.9 Consensus size: 22
21613147 ATATTTCTCC
*
21613157 TCTTGAATTATGTTATTTATGT
1 TCTTGAATTATATTATTTATGT
21613179 TCTT-AATTATATTATTTAT
1 TCTTGAATTATATTATTTAT
21613198 ACTTATATTT
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
21 14 0.78
22 4 0.22
ACGTcount: A:0.27, C:0.05, G:0.07, T:0.61
Consensus pattern (22 bp):
TCTTGAATTATATTATTTATGT
Found at i:21615275 original size:37 final size:37
Alignment explanation
Indices: 21615214--21615292 Score: 113
Period size: 37 Copynumber: 2.1 Consensus size: 37
21615204 TTATTACGAA
* * *
21615214 GTCTTACCCGAACATAATCTCCACACGAAGTTATCGG
1 GTCTTACCCGAACAAAATCCCCACACGAAGTCATCGG
* *
21615251 GTCTTACCCGGACAAAATCCCCACACGTAGTCATCGG
1 GTCTTACCCGAACAAAATCCCCACACGAAGTCATCGG
21615288 GTCTT
1 GTCTT
21615293 TAGAGCTCGG
Statistics
Matches: 37, Mismatches: 5, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
37 37 1.00
ACGTcount: A:0.27, C:0.32, G:0.18, T:0.24
Consensus pattern (37 bp):
GTCTTACCCGAACAAAATCCCCACACGAAGTCATCGG
Found at i:21615489 original size:47 final size:47
Alignment explanation
Indices: 21615411--21615841 Score: 691
Period size: 47 Copynumber: 9.1 Consensus size: 47
21615401 CCCTTCGGGA
* * * * * *
21615411 CTTATCACATTTATACACTTTCACATCCATCACGTTGGCCACTCGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
* *
21615458 CCTGTCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
21615505 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
*
21615552 CCTATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCAC--ATATATACACTTTCACATTCATCACATCGGCCATTAGGC
*
21615601 CCTATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCAC--ATATATACACTTTCACATTCATCACATCGGCCATTAGGC
*
21615650 CTTATCACGTATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
*
21615697 CTTATCACGTATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
*
21615744 CTTATCACGTATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
**
21615791 CTTATCATGTATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
21615838 CTTA
1 CTTA
21615842 CTATCATTTC
Statistics
Matches: 368, Mismatches: 14, Indels: 4
0.95 0.04 0.01
Matches are distributed among these distances:
47 273 0.74
49 95 0.26
ACGTcount: A:0.28, C:0.30, G:0.10, T:0.32
Consensus pattern (47 bp):
CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
Found at i:21620512 original size:22 final size:22
Alignment explanation
Indices: 21620484--21620530 Score: 58
Period size: 22 Copynumber: 2.1 Consensus size: 22
21620474 AAAATTTTGA
* *
21620484 ATTGATCCAATATGTTTATTAT
1 ATTGATCCAAAATATTTATTAT
* *
21620506 ATTGATCTAAAATATTTTTTAT
1 ATTGATCCAAAATATTTATTAT
21620528 ATT
1 ATT
21620531 TTTTAATTAT
Statistics
Matches: 21, Mismatches: 4, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
22 21 1.00
ACGTcount: A:0.34, C:0.06, G:0.06, T:0.53
Consensus pattern (22 bp):
ATTGATCCAAAATATTTATTAT
Found at i:21624882 original size:11 final size:12
Alignment explanation
Indices: 21624860--21624888 Score: 51
Period size: 11 Copynumber: 2.5 Consensus size: 12
21624850 TTTTATATAC
21624860 TTTTATAATTAA
1 TTTTATAATTAA
21624872 TTTTA-AATTAA
1 TTTTATAATTAA
21624883 TTTTAT
1 TTTTAT
21624889 TATTTAAATT
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:0.38, C:0.00, G:0.00, T:0.62
Consensus pattern (12 bp):
TTTTATAATTAA
Found at i:21629239 original size:30 final size:30
Alignment explanation
Indices: 21629203--21629287 Score: 143
Period size: 30 Copynumber: 2.8 Consensus size: 30
21629193 CTGGGCATTT
21629203 CCACACAGGTAGGACACACGCCCATGTGTG
1 CCACACAGGTAGGACACACGCCCATGTGTG
* *
21629233 CCACACAAGCAGGACACACGCCCATGTGTG
1 CCACACAGGTAGGACACACGCCCATGTGTG
*
21629263 CCACACAGGTAGGACACATGCCCAT
1 CCACACAGGTAGGACACACGCCCAT
21629288 ATGCCACCTC
Statistics
Matches: 50, Mismatches: 5, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
30 50 1.00
ACGTcount: A:0.29, C:0.35, G:0.24, T:0.12
Consensus pattern (30 bp):
CCACACAGGTAGGACACACGCCCATGTGTG
Found at i:21631324 original size:23 final size:23
Alignment explanation
Indices: 21631291--21631413 Score: 87
Period size: 22 Copynumber: 5.4 Consensus size: 23
21631281 GCTGATGAAT
*
21631291 AGTAAGATCTAATGAGCTGAAAC
1 AGTAAGCTCTAATGAGCTGAAAC
21631314 AGTAAGCTCT-ATCGAGCTG-AAC
1 AGTAAGCTCTAAT-GAGCTGAAAC
* *
21631336 AGTAAGCTCT-ATCAAACTG-AAC
1 AGTAAGCTCTAAT-GAGCTGAAAC
* * *
21631358 AGT-AGGT-TATAGGAGCTGAAAT
1 AGTAAGCTCTA-ATGAGCTGAAAC
* * *
21631380 GGTAAGCTCCAATGAGCTAAAAAC
1 AGTAAGCTCTAATGAGCT-GAAAC
21631404 AGTAAGCTCT
1 AGTAAGCTCT
21631414 TACAAGTTGA
Statistics
Matches: 77, Mismatches: 16, Indels: 13
0.73 0.15 0.12
Matches are distributed among these distances:
20 1 0.01
21 7 0.09
22 33 0.43
23 24 0.31
24 12 0.16
ACGTcount: A:0.38, C:0.17, G:0.22, T:0.23
Consensus pattern (23 bp):
AGTAAGCTCTAATGAGCTGAAAC
Found at i:21631339 original size:22 final size:22
Alignment explanation
Indices: 21631286--21631361 Score: 91
Period size: 22 Copynumber: 3.4 Consensus size: 22
21631276 CCTGAGCTGA
* *
21631286 TGAATAGTAAGATCTAAT-GAGC
1 TGAACAGTAAGCTCT-ATCGAGC
21631308 TGAAACAGTAAGCTCTATCGAGC
1 TG-AACAGTAAGCTCTATCGAGC
* *
21631331 TGAACAGTAAGCTCTATCAAAC
1 TGAACAGTAAGCTCTATCGAGC
21631353 TGAACAGTA
1 TGAACAGTA
21631362 GGTTATAGGA
Statistics
Matches: 48, Mismatches: 4, Indels: 4
0.86 0.07 0.07
Matches are distributed among these distances:
22 31 0.65
23 17 0.35
ACGTcount: A:0.39, C:0.17, G:0.20, T:0.24
Consensus pattern (22 bp):
TGAACAGTAAGCTCTATCGAGC
Found at i:21633223 original size:6 final size:6
Alignment explanation
Indices: 21633214--21633257 Score: 54
Period size: 6 Copynumber: 7.3 Consensus size: 6
21633204 TTAATTTAGC
* *
21633214 TATTTT TA-TTT TATTTT TATATTT TGTTTT TATTTT AATTTT TA
1 TATTTT TATTTT TATTTT TAT-TTT TATTTT TATTTT TATTTT TA
21633258 CATTCTAATT
Statistics
Matches: 32, Mismatches: 4, Indels: 4
0.80 0.10 0.10
Matches are distributed among these distances:
5 5 0.16
6 22 0.69
7 5 0.16
ACGTcount: A:0.20, C:0.00, G:0.02, T:0.77
Consensus pattern (6 bp):
TATTTT
Found at i:21633236 original size:19 final size:18
Alignment explanation
Indices: 21633214--21633257 Score: 56
Period size: 19 Copynumber: 2.4 Consensus size: 18
21633204 TTAATTTAGC
21633214 TATTTTTATTTTATTTTTA
1 TATTTTTATTTTA-TTTTA
21633233 TATTTTGT-TTTTATTTTA
1 TATTTT-TATTTTATTTTA
21633251 -ATTTTTA
1 TATTTTTA
21633258 CATTCTAATT
Statistics
Matches: 23, Mismatches: 0, Indels: 6
0.79 0.00 0.21
Matches are distributed among these distances:
16 1 0.04
17 5 0.22
18 5 0.22
19 11 0.48
20 1 0.04
ACGTcount: A:0.20, C:0.00, G:0.02, T:0.77
Consensus pattern (18 bp):
TATTTTTATTTTATTTTA
Found at i:21636111 original size:14 final size:13
Alignment explanation
Indices: 21636086--21636110 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
21636076 CAAATTAATT
21636086 AAATAAAATTTTA
1 AAATAAAATTTTA
21636099 AAATAAAATTTT
1 AAATAAAATTTT
21636111 TTTGACCCAT
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.60, C:0.00, G:0.00, T:0.40
Consensus pattern (13 bp):
AAATAAAATTTTA
Found at i:21638364 original size:6 final size:6
Alignment explanation
Indices: 21638353--21638377 Score: 50
Period size: 6 Copynumber: 4.2 Consensus size: 6
21638343 TGATATGTTC
21638353 ATACAT ATACAT ATACAT ATACAT A
1 ATACAT ATACAT ATACAT ATACAT A
21638378 AACTTTCTCG
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 19 1.00
ACGTcount: A:0.52, C:0.16, G:0.00, T:0.32
Consensus pattern (6 bp):
ATACAT
Found at i:21641817 original size:20 final size:20
Alignment explanation
Indices: 21641779--21641817 Score: 51
Period size: 20 Copynumber: 1.9 Consensus size: 20
21641769 TCATATATCA
* * *
21641779 TAATTTTCTTGCATTTCATG
1 TAATATTCTTCCATGTCATG
21641799 TAATATTCTTCCATGTCAT
1 TAATATTCTTCCATGTCAT
21641818 ATTTCCACAT
Statistics
Matches: 16, Mismatches: 3, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
20 16 1.00
ACGTcount: A:0.23, C:0.18, G:0.08, T:0.51
Consensus pattern (20 bp):
TAATATTCTTCCATGTCATG
Found at i:21648057 original size:25 final size:26
Alignment explanation
Indices: 21647995--21648057 Score: 76
Period size: 25 Copynumber: 2.4 Consensus size: 26
21647985 TATTTTCTCA
*
21647995 AAAATTTAAAAATTATTAATGATTCAAT
1 AAAA-TTAAAAATTA-TAATGATTAAAT
21648023 -AAATTGAAAAATTA-AATGATTAAAT
1 AAAATT-AAAAATTATAATGATTAAAT
21648048 AAAATTAAAA
1 AAAATTAAAA
21648058 TTTAGGAGAA
Statistics
Matches: 32, Mismatches: 1, Indels: 7
0.80 0.03 0.17
Matches are distributed among these distances:
25 14 0.44
26 7 0.22
27 11 0.34
ACGTcount: A:0.60, C:0.02, G:0.05, T:0.33
Consensus pattern (26 bp):
AAAATTAAAAATTATAATGATTAAAT
Found at i:21648633 original size:17 final size:18
Alignment explanation
Indices: 21648606--21648639 Score: 52
Period size: 17 Copynumber: 1.9 Consensus size: 18
21648596 AATTAAATAT
21648606 ATGCATATTAAATTATTA
1 ATGCATATTAAATTATTA
*
21648624 ATGC-TATTAATTTATT
1 ATGCATATTAAATTATT
21648640 TAAACAAAAA
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
17 11 0.73
18 4 0.27
ACGTcount: A:0.38, C:0.06, G:0.06, T:0.50
Consensus pattern (18 bp):
ATGCATATTAAATTATTA
Found at i:21656657 original size:27 final size:27
Alignment explanation
Indices: 21656627--21656726 Score: 114
Period size: 27 Copynumber: 3.7 Consensus size: 27
21656617 TACCCTACAT
*
21656627 GGGTATTTTTATAATTTTACAAATTGG
1 GGGTATTTTGATAATTTTACAAATTGG
**
21656654 GGGTATTTTGATAATTTTAC-AATTCCA
1 GGGTATTTTGATAATTTTACAAATT-GG
* *
21656681 GGGTA-TTTCAGTAATTTTACAAACTGG
1 GGGTATTTTGA-TAATTTTACAAATTGG
*
21656708 GGGTATTTCGATAATTTTA
1 GGGTATTTTGATAATTTTA
21656727 AACAGTTTGG
Statistics
Matches: 60, Mismatches: 9, Indels: 8
0.78 0.12 0.10
Matches are distributed among these distances:
26 8 0.13
27 46 0.77
28 6 0.10
ACGTcount: A:0.29, C:0.08, G:0.19, T:0.44
Consensus pattern (27 bp):
GGGTATTTTGATAATTTTACAAATTGG
Found at i:21659957 original size:55 final size:53
Alignment explanation
Indices: 21659768--21660022 Score: 213
Period size: 55 Copynumber: 4.8 Consensus size: 53
21659758 ACATGGGTAC
* * * * *
21659768 CTTACCATTGCTATGACTTGTCATGGTCTTACGTGGTATCC-T---TT-TGAAA
1 CTTACCAATGCCATGTCTTGACATGGTCTTACATGGTATCCTTGCCTTATG-AA
* *
21659817 CTTACCATTGCCATGTCTCGACATGGTCTTACATGGTATCCTTGCCTTATGAA
1 CTTACCAATGCCATGTCTTGACATGGTCTTACATGGTATCCTTGCCTTATGAA
* * * * *
21659870 CTCACCAATGACATGCCTTGGCATGGTCTTACATGAG-A-CCTTTTCCTTATAGTAA
1 CTTACCAATGCCATGTCTTGACATGGTCTTACATG-GTATCC-TTGCCTTAT-G-AA
* * *
21659925 CTTATCAATGCCATGTCTTGTCATGGTCTTACATGGTATCCGTGCCTTA-GAAA
1 CTTACCAATGCCATGTCTTGACATGGTCTTACATGGTATCCTTGCCTTATG-AA
* *
21659978 CCTTACCAATTGCCATG-CATTGGCATGGTCTTACATTGTATCCTT
1 -CTTACCAA-TGCCATGTC-TTGACATGGTCTTACATGGTATCCTT
21660023 AAACCCTAAT
Statistics
Matches: 168, Mismatches: 24, Indels: 22
0.79 0.11 0.10
Matches are distributed among these distances:
49 36 0.21
50 1 0.01
52 2 0.01
53 45 0.27
54 13 0.08
55 69 0.41
56 2 0.01
ACGTcount: A:0.22, C:0.24, G:0.17, T:0.36
Consensus pattern (53 bp):
CTTACCAATGCCATGTCTTGACATGGTCTTACATGGTATCCTTGCCTTATGAA
Found at i:21662844 original size:18 final size:17
Alignment explanation
Indices: 21662818--21662851 Score: 50
Period size: 17 Copynumber: 1.9 Consensus size: 17
21662808 CCGCAATACG
21662818 GCCCATGTGGGCCCACAC
1 GCCCATGT-GGCCCACAC
*
21662836 GCCCGTGTGGCCCACA
1 GCCCATGTGGCCCACA
21662852 AAACCCAAAA
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
17 8 0.53
18 7 0.47
ACGTcount: A:0.15, C:0.44, G:0.29, T:0.12
Consensus pattern (17 bp):
GCCCATGTGGCCCACAC
Found at i:21667094 original size:36 final size:36
Alignment explanation
Indices: 21667030--21667100 Score: 99
Period size: 36 Copynumber: 2.0 Consensus size: 36
21667020 TATTCTTAAT
*
21667030 AGTCAATTTATTCAATTACCGTCCGTCGATGCACAG
1 AGTCAATTTATTCAATTACCGTCAGTCGATGCACAG
* *
21667066 AGTCAATTTATTCAATTGTCGGT-AGTCGATGCACA
1 AGTCAATTTATTCAATT-ACCGTCAGTCGATGCACA
21667101 TACACATGGA
Statistics
Matches: 31, Mismatches: 3, Indels: 2
0.86 0.08 0.06
Matches are distributed among these distances:
36 28 0.90
37 3 0.10
ACGTcount: A:0.28, C:0.21, G:0.18, T:0.32
Consensus pattern (36 bp):
AGTCAATTTATTCAATTACCGTCAGTCGATGCACAG
Found at i:21684342 original size:45 final size:44
Alignment explanation
Indices: 21684270--21684424 Score: 166
Period size: 45 Copynumber: 3.4 Consensus size: 44
21684260 GAAGGATCGA
* * *
21684270 ACACTTATATATTATATTTTTTGGTTTCACCGACCAGTGCTGGGC
1 ACACATATATATTATA-TTTGTCGTTTCACCGACCAGTGCTGGGC
* *
21684315 ACACATATATATTATATTTGTCAGTTTCACCGACCAATGCTAGGC
1 ACACATATATATTATATTTGTC-GTTTCACCGACCAGTGCTGGGC
* * *
21684360 ACACCTATATATATTATAGTTGTCGACTTCACCGACCAGTGCAGGGC
1 ACA-C-ATATATATTATATTTGTCG-TTTCACCGACCAGTGCTGGGC
* * *
21684407 ACATATATAAATAATATT
1 ACACATATATATTATATT
21684425 ATTGTCGGTA
Statistics
Matches: 92, Mismatches: 14, Indels: 8
0.81 0.12 0.07
Matches are distributed among these distances:
44 4 0.04
45 49 0.53
46 2 0.02
47 37 0.40
ACGTcount: A:0.30, C:0.21, G:0.15, T:0.34
Consensus pattern (44 bp):
ACACATATATATTATATTTGTCGTTTCACCGACCAGTGCTGGGC
Found at i:21684430 original size:47 final size:47
Alignment explanation
Indices: 21684295--21684431 Score: 147
Period size: 47 Copynumber: 2.9 Consensus size: 47
21684285 ATTTTTTGGT
* * *
21684295 TTCACCGACCAGTGCTGGGCACACATATATATTATAT-TTGTC-AGT
1 TTCACCGACCAGTGCAGGGCACACATATATATAATATATTGTCGAGC
* * *
21684340 TTCACCGACCAATGCTA-GGCACACCTATATATATTATAGTTGTCGA-C
1 TTCACCGACCAGTGC-AGGGCACACATATATATAATATA-TTGTCGAGC
* *
21684387 TTCACCGACCAGTGCAGGGCACATATATAAATAATATTATTGTCG
1 TTCACCGACCAGTGCAGGGCACACATATATATAATA-TATTGTCG
21684432 GTACCACCGA
Statistics
Matches: 75, Mismatches: 11, Indels: 10
0.78 0.11 0.10
Matches are distributed among these distances:
45 31 0.41
46 1 0.01
47 40 0.53
48 3 0.04
ACGTcount: A:0.30, C:0.23, G:0.17, T:0.31
Consensus pattern (47 bp):
TTCACCGACCAGTGCAGGGCACACATATATATAATATATTGTCGAGC
Found at i:21685795 original size:26 final size:27
Alignment explanation
Indices: 21685755--21685809 Score: 85
Period size: 26 Copynumber: 2.1 Consensus size: 27
21685745 ACAATCATAC
* *
21685755 ATCACATAGGGGCATAACAGTCATTTT
1 ATCACATAGGAGCATAAAAGTCATTTT
21685782 ATCACATA-GAGCATAAAAGTCATTTT
1 ATCACATAGGAGCATAAAAGTCATTTT
21685808 AT
1 AT
21685810 AAATTAGGGG
Statistics
Matches: 26, Mismatches: 2, Indels: 1
0.90 0.07 0.03
Matches are distributed among these distances:
26 18 0.69
27 8 0.31
ACGTcount: A:0.38, C:0.16, G:0.15, T:0.31
Consensus pattern (27 bp):
ATCACATAGGAGCATAAAAGTCATTTT
Found at i:21691215 original size:46 final size:45
Alignment explanation
Indices: 21691148--21691322 Score: 181
Period size: 46 Copynumber: 3.8 Consensus size: 45
21691138 TGTAACCCGC
*
21691148 CCATAAGTGAACTTGGACTCAACTCAACGAGCTCGGGCGTTCGCAT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGGGC-TTCGCAT
* * *
21691194 CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGGATGCCTAG-TT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGG--GCTTCGCAT
* *** * * *
21691240 ACATCTCTCGAACTCGGACTCAACTCAACGAGTTCTGACATTCGCAT
1 CCATAAGT-GAACTCGGACTCAACTCAACGAGCTCGGGC-TTCGCAT
* *
21691287 CCATAAGTGAACTCGGACTCAATTCAACGAGTTCGG
1 CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGG
21691323 ATGCCCAAAT
Statistics
Matches: 104, Mismatches: 20, Indels: 10
0.78 0.15 0.07
Matches are distributed among these distances:
45 1 0.01
46 68 0.65
47 33 0.32
48 2 0.02
ACGTcount: A:0.28, C:0.29, G:0.21, T:0.23
Consensus pattern (45 bp):
CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGGGCTTCGCAT
Found at i:21691269 original size:93 final size:93
Alignment explanation
Indices: 21691156--21691327 Score: 281
Period size: 93 Copynumber: 1.8 Consensus size: 93
21691146 GCCCATAAGT
* * *
21691156 GAACTTGGACTCAACTCAACGAGCTCGGGCGTTCGCATCCATAAGTGAACTCGGACTCAACTCAA
1 GAACTCGGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCAA
21691221 CGAGCTCGGATGCCTAGTTACATCTCTC
66 CGAGCTCGGATGCCTAGTTACATCTCTC
* * *
21691249 GAACTCGGACTCAACTCAACGAGTTCTGACATTCGCATCCATAAGTGAACTCGGACTCAATTCAA
1 GAACTCGGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCAA
*
21691314 CGAGTTCGGATGCC
66 CGAGCTCGGATGCC
21691328 CAAATATCCT
Statistics
Matches: 72, Mismatches: 7, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
93 72 1.00
ACGTcount: A:0.27, C:0.29, G:0.21, T:0.23
Consensus pattern (93 bp):
GAACTCGGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCAA
CGAGCTCGGATGCCTAGTTACATCTCTC
Found at i:21695405 original size:46 final size:46
Alignment explanation
Indices: 21695355--21695530 Score: 216
Period size: 46 Copynumber: 3.8 Consensus size: 46
21695345 TGGTTGAGCA
21695355 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
* * *
21695401 TCCGAACTCGTTGAGTTGAGTCCGAGTTC-GTGA--GATG-TAACTAGG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAA-T--G
*
21695446 CATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACG
1 --TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
* * *
21695494 CCCGAGCTCGTTGAGTTGAGTCCGAGTTCGCTTATGG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGG
21695531 GCGGGTTACA
Statistics
Matches: 111, Mismatches: 10, Indels: 18
0.80 0.07 0.13
Matches are distributed among these distances:
42 2 0.02
43 5 0.05
45 3 0.03
46 63 0.57
47 29 0.26
48 3 0.03
50 4 0.04
51 2 0.02
ACGTcount: A:0.20, C:0.21, G:0.30, T:0.29
Consensus pattern (46 bp):
TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
Found at i:21695511 original size:93 final size:93
Alignment explanation
Indices: 21695352--21695523 Score: 317
Period size: 93 Copynumber: 1.8 Consensus size: 93
21695342 GGATGGTTGA
* *
21695352 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATGTCCGAACTCGTTGAGT
1 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAACTCGTTGAGT
21695417 TGAGTCCGAGTTCGTGAGATGTAACTAG
66 TGAGTCCGAGTTCGTGAGATGTAACTAG
*
21695445 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAGCTCGTTGAGT
1 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAACTCGTTGAGT
21695510 TGAGTCCGAGTTCG
66 TGAGTCCGAGTTCG
21695524 CTTATGGGCG
Statistics
Matches: 76, Mismatches: 3, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
93 76 1.00
ACGTcount: A:0.21, C:0.22, G:0.30, T:0.28
Consensus pattern (93 bp):
GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAACTCGTTGAGT
TGAGTCCGAGTTCGTGAGATGTAACTAG
Found at i:21698094 original size:26 final size:26
Alignment explanation
Indices: 21698065--21698117 Score: 106
Period size: 26 Copynumber: 2.0 Consensus size: 26
21698055 AGAGCTGAGA
21698065 AAGAAAAATTTCAGAATGTAAAAGCT
1 AAGAAAAATTTCAGAATGTAAAAGCT
21698091 AAGAAAAATTTCAGAATGTAAAAGCT
1 AAGAAAAATTTCAGAATGTAAAAGCT
21698117 A
1 A
21698118 GTGGTGCAGA
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
26 27 1.00
ACGTcount: A:0.55, C:0.08, G:0.15, T:0.23
Consensus pattern (26 bp):
AAGAAAAATTTCAGAATGTAAAAGCT
Found at i:21702490 original size:30 final size:31
Alignment explanation
Indices: 21702454--21702514 Score: 88
Period size: 30 Copynumber: 2.0 Consensus size: 31
21702444 ATCCCGAGCC
21702454 TAGGGGTAAAAATGTATATATG-CAAAATTT
1 TAGGGGTAAAAATGTATATATGCCAAAATTT
* * *
21702484 TAGGGGTAAAATTGTATTTTTGCCAAAATTT
1 TAGGGGTAAAAATGTATATATGCCAAAATTT
21702515 GAGTTAAGGA
Statistics
Matches: 27, Mismatches: 3, Indels: 1
0.87 0.10 0.03
Matches are distributed among these distances:
30 19 0.70
31 8 0.30
ACGTcount: A:0.38, C:0.05, G:0.20, T:0.38
Consensus pattern (31 bp):
TAGGGGTAAAAATGTATATATGCCAAAATTT
Found at i:21702984 original size:46 final size:46
Alignment explanation
Indices: 21702934--21703109 Score: 189
Period size: 46 Copynumber: 3.8 Consensus size: 46
21702924 TGGTTGAGCA
*
21702934 TCCGAACTCGTTGATTTGAGTCCGAGTTCACTTATGGATGCGAATG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
* * *
21702980 TCCGAACTCGTTGAGTTGAGTCCGAGTTC-GTGA--GATG-TAACTAGG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAA-T--G
* *
21703025 CATCCAAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACG
1 --TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
* * * *
21703073 CCCGAGCTCGTTTAGTTGAGTCCGAGTTCGCTTATGG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGG
21703110 GCGGGTTACA
Statistics
Matches: 107, Mismatches: 14, Indels: 18
0.77 0.10 0.13
Matches are distributed among these distances:
42 2 0.02
43 5 0.05
45 3 0.03
46 60 0.56
47 28 0.26
48 3 0.03
50 4 0.04
51 2 0.02
ACGTcount: A:0.21, C:0.21, G:0.28, T:0.30
Consensus pattern (46 bp):
TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
Found at i:21703090 original size:93 final size:93
Alignment explanation
Indices: 21702931--21703102 Score: 290
Period size: 93 Copynumber: 1.8 Consensus size: 93
21702921 GGATGGTTGA
* * * *
21702931 GCATCCGAACTCGTTGATTTGAGTCCGAGTTCACTTATGGATGCGAATGTCCGAACTCGTTGAGT
1 GCATCCAAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAACTCGTTGAGT
21702996 TGAGTCCGAGTTCGTGAGATGTAACTAG
66 TGAGTCCGAGTTCGTGAGATGTAACTAG
* *
21703024 GCATCCAAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAGCTCGTTTAGT
1 GCATCCAAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAACTCGTTGAGT
21703089 TGAGTCCGAGTTCG
66 TGAGTCCGAGTTCG
21703103 CTTATGGGCG
Statistics
Matches: 73, Mismatches: 6, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
93 73 1.00
ACGTcount: A:0.22, C:0.22, G:0.28, T:0.29
Consensus pattern (93 bp):
GCATCCAAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAACTCGTTGAGT
TGAGTCCGAGTTCGTGAGATGTAACTAG
Found at i:21705477 original size:43 final size:43
Alignment explanation
Indices: 21705429--21705595 Score: 239
Period size: 43 Copynumber: 3.9 Consensus size: 43
21705419 GGTTATCAAG
*
21705429 TTGTGATTACATGTAAGACCATGTCTGGGACATTGGCATTTTA
1 TTGTGATTACGTGTAAGACCATGTCTGGGACATTGGCATTTTA
* *
21705472 TTGTGATTATGTATAAGACCATGTCTGGGACATTGGCATTTTA
1 TTGTGATTACGTGTAAGACCATGTCTGGGACATTGGCATTTTA
* * *
21705515 TTGTGATTATGTATAAGACCATGTCTGGGACATTGGCATTGTA
1 TTGTGATTACGTGTAAGACCATGTCTGGGACATTGGCATTTTA
* *
21705558 TAT-TGATT-CGTGTAAGACCCTGTCTGGGACAGTGGCAT
1 T-TGTGATTACGTGTAAGACCATGTCTGGGACATTGGCAT
21705596 CGATATGTGA
Statistics
Matches: 115, Mismatches: 8, Indels: 3
0.91 0.06 0.02
Matches are distributed among these distances:
42 26 0.23
43 88 0.77
44 1 0.01
ACGTcount: A:0.25, C:0.14, G:0.25, T:0.37
Consensus pattern (43 bp):
TTGTGATTACGTGTAAGACCATGTCTGGGACATTGGCATTTTA
Found at i:21707113 original size:48 final size:48
Alignment explanation
Indices: 21706840--21707109 Score: 398
Period size: 48 Copynumber: 5.6 Consensus size: 48
21706830 ATGTGTAACT
* *
21706840 GTGTAAGACCATATCTGGGATATGGCATCTG-CATTGTTATGTGAGCCA
1 GTGTAAGACCATGTCTGGGACATGGCATC-GACATTGTTATGTGAGCCA
* * * *
21706888 GTGTAAGACCTTGTCTGGGACATGCCATCGACATTGTTACGTGAGTCA
1 GTGTAAGACCATGTCTGGGACATGGCATCGACATTGTTATGTGAGCCA
* * * *
21706936 GTGTAAGACCATGTCTAGGACATCGCATCAACATTATTATGTGAGCCA
1 GTGTAAGACCATGTCTGGGACATGGCATCGACATTGTTATGTGAGCCA
*
21706984 GTGTAAGACTATGTCTGGGACATGGCATCGACATTGTTATGTGAGCCA
1 GTGTAAGACCATGTCTGGGACATGGCATCGACATTGTTATGTGAGCCA
* * *
21707032 GTGTAAGACCATGTCTGGGACATGGTATCGGCATCGTTATGTGAGCCA
1 GTGTAAGACCATGTCTGGGACATGGCATCGACATTGTTATGTGAGCCA
21707080 GTGTAAGACCATGTCTGGGACATGGCATCG
1 GTGTAAGACCATGTCTGGGACATGGCATCG
21707110 GCATGAGGCA
Statistics
Matches: 197, Mismatches: 24, Indels: 2
0.88 0.11 0.01
Matches are distributed among these distances:
47 1 0.01
48 196 0.99
ACGTcount: A:0.25, C:0.19, G:0.28, T:0.28
Consensus pattern (48 bp):
GTGTAAGACCATGTCTGGGACATGGCATCGACATTGTTATGTGAGCCA
Found at i:21728407 original size:43 final size:42
Alignment explanation
Indices: 21728351--21728518 Score: 162
Period size: 43 Copynumber: 4.0 Consensus size: 42
21728341 ATATAGTACA
** *
21728351 ATGCCAACATCCCAAACGTGGTCTTACATGCAATCACATATAG
1 ATGCCAATGTCCCAAACGTGGTCTTACACGCAATCACATAT-G
* *
21728394 ATGCCACTGTCCCAAACAG-GGTCTTACACG-AATCAAATATG
1 ATGCCAATGTCCCAAAC-GTGGTCTTACACGCAATCACATATG
* * * *
21728435 ATGTCAATGTCCCAGACATGGTCTTACACGTAATCACATATCG
1 ATGCCAATGTCCCAAACGTGGTCTTACACGCAATCACATAT-G
* * * *
21728478 ATGCCAATGTCCTAGATGTGGTCTTACAAGACAAT-ACATAT
1 ATGCCAATGTCCCAAACGTGGTCTTACACG-CAATCACATAT
21728519 TGAAAATCTT
Statistics
Matches: 104, Mismatches: 16, Indels: 10
0.80 0.12 0.08
Matches are distributed among these distances:
41 26 0.25
42 18 0.17
43 56 0.54
44 4 0.04
ACGTcount: A:0.33, C:0.25, G:0.16, T:0.26
Consensus pattern (42 bp):
ATGCCAATGTCCCAAACGTGGTCTTACACGCAATCACATATG
Found at i:21728458 original size:41 final size:43
Alignment explanation
Indices: 21728351--21728489 Score: 165
Period size: 43 Copynumber: 3.3 Consensus size: 43
21728341 ATATAGTACA
** * *
21728351 ATGCCAACATCCCAAACGTGGTCTTACATGCAATCACATATAG
1 ATGCCAATGTCCCAAACATGGTCTTACACGCAATCACATATAG
* * *
21728394 ATGCCACTGTCCCAAACAGGGTCTTACACG-AATCAAATAT-G
1 ATGCCAATGTCCCAAACATGGTCTTACACGCAATCACATATAG
* * * *
21728435 ATGTCAATGTCCCAGACATGGTCTTACACGTAATCACATATCG
1 ATGCCAATGTCCCAAACATGGTCTTACACGCAATCACATATAG
21728478 ATGCCAATGTCC
1 ATGCCAATGTCC
21728490 TAGATGTGGT
Statistics
Matches: 81, Mismatches: 13, Indels: 4
0.83 0.13 0.04
Matches are distributed among these distances:
41 27 0.33
42 18 0.22
43 36 0.44
ACGTcount: A:0.32, C:0.27, G:0.16, T:0.24
Consensus pattern (43 bp):
ATGCCAATGTCCCAAACATGGTCTTACACGCAATCACATATAG
Found at i:21745963 original size:49 final size:49
Alignment explanation
Indices: 21745891--21746084 Score: 194
Period size: 50 Copynumber: 3.9 Consensus size: 49
21745881 GCCGAAGCTA
* * * *
21745891 TCTGGTACGCATAGTAGCCTGCACTTAGTCCTACACATGCGACCAACAG
1 TCTGGTACACATAGTAGCCTGCACTTAGTACTACACACGTGACCAACAG
*
21745940 TCTGGTACACGTAGTAGCCTGCACTTAGTACTACACACGTGACCTCAACA-
1 TCTGGTACACATAGTAGCCTGCACTTAGTACTACACACGTGA-C-CAACAG
** * * * * *
21745990 TCTAATACACGTAGTAGGCTGTACTTAGTACTAGACACGTGATCAA-AG
1 TCTGGTACACATAGTAGCCTGCACTTAGTACTACACACGTGACCAACAG
* * *
21746038 TTATTGGGTACGCATAGTAGCCTGCACTTAGTACTACACATGTGACC
1 -T-CT-GGTACACATAGTAGCCTGCACTTAGTACTACACACGTGACC
21746085 TCACAATAGA
Statistics
Matches: 118, Mismatches: 21, Indels: 10
0.79 0.14 0.07
Matches are distributed among these distances:
47 1 0.01
48 3 0.03
49 38 0.32
50 39 0.33
51 37 0.31
ACGTcount: A:0.28, C:0.26, G:0.20, T:0.26
Consensus pattern (49 bp):
TCTGGTACACATAGTAGCCTGCACTTAGTACTACACACGTGACCAACAG
Found at i:21748269 original size:15 final size:15
Alignment explanation
Indices: 21748214--21748277 Score: 55
Period size: 15 Copynumber: 4.4 Consensus size: 15
21748204 TAAAGATAAC
*
21748214 AAGAAAACC-GAATA
1 AAGAAATCCAGAATA
21748228 AAGAAA-CCA-AGATA
1 AAGAAATCCAGA-ATA
* *
21748242 GAA-AAACCCAGAATT
1 -AAGAAATCCAGAATA
21748257 AAGAAATCCAGAATA
1 AAGAAATCCAGAATA
21748272 AAGAAA
1 AAGAAA
21748278 CCCAAGATAC
Statistics
Matches: 41, Mismatches: 3, Indels: 11
0.75 0.05 0.20
Matches are distributed among these distances:
13 3 0.07
14 14 0.34
15 23 0.56
16 1 0.02
ACGTcount: A:0.62, C:0.14, G:0.14, T:0.09
Consensus pattern (15 bp):
AAGAAATCCAGAATA
Found at i:21750279 original size:46 final size:45
Alignment explanation
Indices: 21750229--21750405 Score: 196
Period size: 46 Copynumber: 3.8 Consensus size: 45
21750219 TGGTTGAGCA
*
21750229 TCCGAACTCGTTGAGTTGAGTCTGAGTTCACTTATGGATGCGAATG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAA-G
*** * *
21750275 TCCGAACTCGTTGAGTTGAGTCCGAGTTCGAGAGATGTAACTAG-GCA-
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTC-ACTTATG-GA-T-GCGAAG
* *
21750322 TCCGAGCTCGTTGAGTTGAGTTCGAGTTCACTTATGGATGCGAACG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAA-G
* *
21750368 CCCGAGCTCGTTGAGTTGAGTCCGAGTTCACTTATGGA
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGA
21750406 CGGGTTACAT
Statistics
Matches: 109, Mismatches: 15, Indels: 14
0.79 0.11 0.10
Matches are distributed among these distances:
43 1 0.01
44 3 0.03
45 1 0.01
46 68 0.62
47 31 0.28
48 1 0.01
49 3 0.03
50 1 0.01
ACGTcount: A:0.21, C:0.20, G:0.29, T:0.29
Consensus pattern (45 bp):
TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAAG
Found at i:21750385 original size:93 final size:93
Alignment explanation
Indices: 21750226--21750396 Score: 290
Period size: 93 Copynumber: 1.8 Consensus size: 93
21750216 GGATGGTTGA
* *
21750226 GCATCCGAACTCGTTGAGTTGAGTCTGAGTTCACTTATGGATGCGAATGTCCGAACTCGTTGAGT
1 GCATCCGAACTCGTTGAGTTGAGTCTGAGTTCACTTATGGATGCGAACGCCCGAACTCGTTGAGT
21750291 TGAGTCCGAGTTCGAGAGATGTAACTAG
66 TGAGTCCGAGTTCGAGAGATGTAACTAG
* *
21750319 GCATCCGAGCTCGTTGAGTTGAGT-TCGAGTTCACTTATGGATGCGAACGCCCGAGCTCGTTGAG
1 GCATCCGAACTCGTTGAGTTGAGTCT-GAGTTCACTTATGGATGCGAACGCCCGAACTCGTTGAG
21750383 TTGAGTCCGAGTTC
65 TTGAGTCCGAGTTC
21750397 ACTTATGGAC
Statistics
Matches: 73, Mismatches: 4, Indels: 2
0.92 0.05 0.03
Matches are distributed among these distances:
92 1 0.01
93 72 0.99
ACGTcount: A:0.21, C:0.20, G:0.30, T:0.29
Consensus pattern (93 bp):
GCATCCGAACTCGTTGAGTTGAGTCTGAGTTCACTTATGGATGCGAACGCCCGAACTCGTTGAGT
TGAGTCCGAGTTCGAGAGATGTAACTAG
Found at i:21752211 original size:40 final size:40
Alignment explanation
Indices: 21752132--21752350 Score: 275
Period size: 40 Copynumber: 5.5 Consensus size: 40
21752122 CCAAACCAAG
* * * *
21752132 TGCCTTCGGAATTTAG-CCGGATATAGGT-ACTTGCTCAAA
1 TGCCTTCGGGACTTAGCCCGGATATA-GTAACTCGCACAAA
* *
21752171 TGCCTTCGGGACTTAGCTCGGTTATAGTAACTCGCACAAA
1 TGCCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAA
* * *
21752211 TGCCTTCGGGACATAGCCCGGATATAGTAACTTGCACAAT
1 TGCCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAA
*
21752251 TGCCTTCGGGACTTAGCCCGGATAAAGTAACTCGCACAAA
1 TGCCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAA
* * *
21752291 TGCATTCGGG-CTTAGCCCGGA-ATTAGTCACTAGCACAAA
1 TGCCTTCGGGACTTAGCCCGGATA-TAGTAACTCGCACAAA
21752330 TGCCTTCGGGACTTAGCCCGG
1 TGCCTTCGGGACTTAGCCCGG
21752351 TTATCATCTG
Statistics
Matches: 156, Mismatches: 20, Indels: 7
0.85 0.11 0.04
Matches are distributed among these distances:
38 1 0.01
39 49 0.31
40 106 0.68
ACGTcount: A:0.26, C:0.26, G:0.24, T:0.25
Consensus pattern (40 bp):
TGCCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAA
Found at i:21760206 original size:40 final size:40
Alignment explanation
Indices: 21760088--21760219 Score: 175
Period size: 40 Copynumber: 3.4 Consensus size: 40
21760078 AAACCAAGTA
* *
21760088 CCTTC-GGATTTAG-CCGGATATAGCT-ACT-GCTCAAATG
1 CCTTCGGGACTTAGCCCGGATATAG-TAACTCGCACAAATG
* *
21760125 CCTTCGGGACTTAGCCC-GTTATAGTAACTCGTACAAATG
1 CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATG
*
21760164 CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAATTG
1 CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATG
21760204 CCTTCGGGACTTAGCC
1 CCTTCGGGACTTAGCC
21760220 TAGTTATCAT
Statistics
Matches: 83, Mismatches: 7, Indels: 7
0.86 0.07 0.07
Matches are distributed among these distances:
37 6 0.07
38 16 0.19
39 26 0.31
40 35 0.42
ACGTcount: A:0.23, C:0.27, G:0.22, T:0.27
Consensus pattern (40 bp):
CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATG
Found at i:21764488 original size:30 final size:29
Alignment explanation
Indices: 21764423--21764479 Score: 82
Period size: 30 Copynumber: 2.0 Consensus size: 29
21764413 CATAGTATCG
21764423 TATCTTTGGTTTCTTTATTCTGGATTTCTC
1 TATC-TTGGTTTCTTTATTCTGGATTTCTC
21764453 TATCTTGGATTTCTTTATTC-GG-TTTCT
1 TATCTTGG-TTTCTTTATTCTGGATTTCT
21764480 TGTTATCTTT
Statistics
Matches: 26, Mismatches: 0, Indels: 4
0.87 0.00 0.13
Matches are distributed among these distances:
28 5 0.19
29 6 0.23
30 15 0.58
ACGTcount: A:0.11, C:0.16, G:0.14, T:0.60
Consensus pattern (29 bp):
TATCTTGGTTTCTTTATTCTGGATTTCTC
Found at i:21766890 original size:46 final size:45
Alignment explanation
Indices: 21766840--21767015 Score: 212
Period size: 46 Copynumber: 3.8 Consensus size: 45
21766830 TGGTTGAGCA
21766840 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAA-G
*** * *
21766886 TCCGAACTCGTTGAGTTGAGTCCGAGTTCGAGAGATGTAACTAG-GCA-
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTC-ACTTATG-GA-T-GCGAAG
*
21766933 TCCGAGCTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAA-G
* *
21766979 CCCGAGCTCGTTGAGTTGAGTCCGAGTTCACTTATGG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGG
21767016 GCGGGTTACA
Statistics
Matches: 111, Mismatches: 12, Indels: 14
0.81 0.09 0.10
Matches are distributed among these distances:
43 1 0.01
44 3 0.03
45 1 0.01
46 69 0.62
47 32 0.29
48 1 0.01
49 3 0.03
50 1 0.01
ACGTcount: A:0.21, C:0.21, G:0.30, T:0.28
Consensus pattern (45 bp):
TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAAG
Found at i:21766996 original size:93 final size:93
Alignment explanation
Indices: 21766837--21767007 Score: 306
Period size: 93 Copynumber: 1.8 Consensus size: 93
21766827 GGATGGTTGA
* *
21766837 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATGTCCGAACTCGTTGAGT
1 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAACTCGTTGAGT
21766902 TGAGTCCGAGTTCGAGAGATGTAACTAG
66 TGAGTCCGAGTTCGAGAGATGTAACTAG
* *
21766930 GCATCCGAGCTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAGCTCGTTGAGT
1 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAACTCGTTGAGT
21766995 TGAGTCCGAGTTC
66 TGAGTCCGAGTTC
21767008 ACTTATGGGC
Statistics
Matches: 74, Mismatches: 4, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
93 74 1.00
ACGTcount: A:0.21, C:0.22, G:0.30, T:0.27
Consensus pattern (93 bp):
GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAACTCGTTGAGT
TGAGTCCGAGTTCGAGAGATGTAACTAG
Found at i:21769945 original size:18 final size:18
Alignment explanation
Indices: 21769922--21769958 Score: 65
Period size: 18 Copynumber: 2.1 Consensus size: 18
21769912 GTATCTTGGG
21769922 TTTCTTTATTCTGGATTC
1 TTTCTTTATTCTGGATTC
*
21769940 TTTCTTTATTCTGGTTTC
1 TTTCTTTATTCTGGATTC
21769958 T
1 T
21769959 CTATCTTGGA
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
18 18 1.00
ACGTcount: A:0.08, C:0.16, G:0.11, T:0.65
Consensus pattern (18 bp):
TTTCTTTATTCTGGATTC
Found at i:21769957 original size:14 final size:14
Alignment explanation
Indices: 21769920--21769984 Score: 53
Period size: 14 Copynumber: 4.4 Consensus size: 14
21769910 TCGTATCTTG
21769920 GGTTTCTTTATTCT
1 GGTTTCTTTATTCT
21769934 GGATTCTTTCTTTATTCT
1 GG----TTTCTTTATTCT
*
21769952 GGTTTCTCTA-TCTT
1 GGTTTCTTTATTC-T
21769966 GGATTTCTTTATTC-
1 GG-TTTCTTTATTCT
21769980 GGTTT
1 GGTTT
21769985 TCTTGTTATC
Statistics
Matches: 42, Mismatches: 2, Indels: 15
0.71 0.03 0.25
Matches are distributed among these distances:
13 5 0.12
14 14 0.33
15 7 0.17
16 2 0.05
18 14 0.33
ACGTcount: A:0.09, C:0.15, G:0.15, T:0.60
Consensus pattern (14 bp):
GGTTTCTTTATTCT
Found at i:21773793 original size:28 final size:28
Alignment explanation
Indices: 21773665--21773811 Score: 184
Period size: 28 Copynumber: 5.5 Consensus size: 28
21773655 ATATTAAGTC
* * *
21773665 CGCACACTCA-TGCTATATAATCAACCT
1 CGCACACTTAGTGCTACATAATCAAACT
* *
21773692 C-CACACTTAGTGCTATATAATCAATCT
1 CGCACACTTAGTGCTACATAATCAAACT
*
21773719 CGCACACTTAGTGC-ACATAATCAAGCT
1 CGCACACTTAGTGCTACATAATCAAACT
21773746 -GCA-AC-TA--GCTACATAATCAAACT
1 CGCACACTTAGTGCTACATAATCAAACT
21773769 CGCACACTTAGTGCTACATAATCAAACT
1 CGCACACTTAGTGCTACATAATCAAACT
21773797 CGCACACTTAGTGCT
1 CGCACACTTAGTGCT
21773812 GTACAATTTA
Statistics
Matches: 107, Mismatches: 5, Indels: 15
0.84 0.04 0.12
Matches are distributed among these distances:
22 2 0.02
23 12 0.11
24 5 0.05
25 4 0.04
26 12 0.11
27 29 0.27
28 43 0.40
ACGTcount: A:0.34, C:0.29, G:0.11, T:0.26
Consensus pattern (28 bp):
CGCACACTTAGTGCTACATAATCAAACT
Found at i:21773828 original size:28 final size:28
Alignment explanation
Indices: 21773664--21773835 Score: 110
Period size: 28 Copynumber: 6.4 Consensus size: 28
21773654 TATATTAAGT
* * *
21773664 CCGCACACTCA-TGCTATATAATC-AAC
1 CCGCACACTTAGTGCTACACAATCAAAC
* * *
21773690 CTC-CACACTTAGTGCTATATAATCAATC
1 C-CGCACACTTAGTGCTACACAATCAAAC
* * *
21773718 TCGCACACTTAGTGC-ACATAATC-AAG
1 CCGCACACTTAGTGCTACACAATCAAAC
* *
21773744 CTGCA-AC-TA--GCTACATAATCAAAC
1 CCGCACACTTAGTGCTACACAATCAAAC
* *
21773768 TCGCACACTTAGTGCTACATAATCAAAC
1 CCGCACACTTAGTGCTACACAATCAAAC
* ** **
21773796 TCGCACACTTAGTGCTGTACAATTTAAC
1 CCGCACACTTAGTGCTACACAATCAAAC
21773824 CCGCACACTTAG
1 CCGCACACTTAG
21773836 CGCCAATCTC
Statistics
Matches: 119, Mismatches: 17, Indels: 18
0.77 0.11 0.12
Matches are distributed among these distances:
22 2 0.02
23 8 0.07
24 7 0.06
25 4 0.03
26 14 0.12
27 21 0.18
28 63 0.53
ACGTcount: A:0.34, C:0.30, G:0.11, T:0.26
Consensus pattern (28 bp):
CCGCACACTTAGTGCTACACAATCAAAC
Found at i:21775939 original size:13 final size:13
Alignment explanation
Indices: 21775917--21775946 Score: 51
Period size: 13 Copynumber: 2.3 Consensus size: 13
21775907 AAAATAGTAG
*
21775917 TGATATAATTAGA
1 TGATACAATTAGA
21775930 TGATACAATTAGA
1 TGATACAATTAGA
21775943 TGAT
1 TGAT
21775947 GAATAATATT
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
13 16 1.00
ACGTcount: A:0.43, C:0.03, G:0.17, T:0.37
Consensus pattern (13 bp):
TGATACAATTAGA
Found at i:21785253 original size:28 final size:28
Alignment explanation
Indices: 21785188--21785341 Score: 256
Period size: 28 Copynumber: 5.5 Consensus size: 28
21785178 ATATTAAGTC
* *
21785188 CGCACACTCAGTGCTATATAATC-AACT
1 CGCACACTTAGTGCTACATAATCAAACT
* *
21785215 CGCACACTTAGTGCTATATAATCAATCT
1 CGCACACTTAGTGCTACATAATCAAACT
*
21785243 CGCACACTTAGTGCTACATAATCAAGCT
1 CGCACACTTAGTGCTACATAATCAAACT
21785271 CGCACACTTAGTGCTACATAATCAAACT
1 CGCACACTTAGTGCTACATAATCAAACT
21785299 CGCACACTTAGTGCTACATAATCAAACT
1 CGCACACTTAGTGCTACATAATCAAACT
21785327 CGCACACTTAGTGCT
1 CGCACACTTAGTGCT
21785342 GTACAATTTA
Statistics
Matches: 121, Mismatches: 5, Indels: 1
0.95 0.04 0.01
Matches are distributed among these distances:
27 22 0.18
28 99 0.82
ACGTcount: A:0.32, C:0.29, G:0.12, T:0.27
Consensus pattern (28 bp):
CGCACACTTAGTGCTACATAATCAAACT
Found at i:21787502 original size:13 final size:13
Alignment explanation
Indices: 21787480--21787509 Score: 51
Period size: 13 Copynumber: 2.3 Consensus size: 13
21787470 AAAATAGTAG
*
21787480 TGATATAATTAGA
1 TGATACAATTAGA
21787493 TGATACAATTAGA
1 TGATACAATTAGA
21787506 TGAT
1 TGAT
21787510 GAATAATATA
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
13 16 1.00
ACGTcount: A:0.43, C:0.03, G:0.17, T:0.37
Consensus pattern (13 bp):
TGATACAATTAGA
Found at i:21792008 original size:15 final size:15
Alignment explanation
Indices: 21791988--21792043 Score: 87
Period size: 15 Copynumber: 3.7 Consensus size: 15
21791978 GTATCTTGGG
21791988 TTTCTTTATTCTGGA
1 TTTCTTTATTCTGGA
21792003 TTTCTTTATTCTGGA
1 TTTCTTTATTCTGGA
*
21792018 TTTCTCTA-TCTTGGA
1 TTTCTTTATTC-TGGA
21792033 TTTCTTTATTC
1 TTTCTTTATTC
21792044 GGTTTCCTTG
Statistics
Matches: 37, Mismatches: 2, Indels: 3
0.88 0.05 0.07
Matches are distributed among these distances:
14 2 0.05
15 33 0.89
16 2 0.05
ACGTcount: A:0.12, C:0.16, G:0.11, T:0.61
Consensus pattern (15 bp):
TTTCTTTATTCTGGA
Found at i:21798364 original size:51 final size:50
Alignment explanation
Indices: 21798188--21798466 Score: 242
Period size: 50 Copynumber: 5.6 Consensus size: 50
21798178 ATCTGGTACG
* * * * **
21798188 CATAGTAGCCTGTACTTAGTACTACAAATGCGACC-AA-CAGTCTGGTACA
1 CATAGTAGCCTGCACTTAGTACTACACACGTGACCGAACCA-TCTAATACA
** **
21798237 TGTAGTAGCCTGCACTTAGTACTACACACGTGACCTCACCATCTAATACA
1 CATAGTAGCCTGCACTTAGTACTACACACGTGACCGAACCATCTAATACA
* ** * *
21798287 CATAGTAGCCTGCACTTAGTACTACACACGTGATCGAAGTTAT-TAGGTACG
1 CATAGTAGCCTGCACTTAGTACTACACACGTGACCGAA-CCATCTA-ATACA
* * * **
21798338 CATAGTAGCCTGCACTTAGTATTACACATGCGACCTCACCATCTAATACA
1 CATAGTAGCCTGCACTTAGTACTACACACGTGACCGAACCATCTAATACA
* * ** * *
21798388 CGTAGTAGCCTGCACTTAGTACTACACACGTGATCGAAGTTAT-TAGGTACG
1 CATAGTAGCCTGCACTTAGTACTACACACGTGACCGAA-CCATCTA-ATACA
*
21798439 CATAGTAGCCTGCACTTAGTATTACACA
1 CATAGTAGCCTGCACTTAGTACTACACA
21798467 TGCGACCTCA
Statistics
Matches: 182, Mismatches: 41, Indels: 12
0.77 0.17 0.05
Matches are distributed among these distances:
49 29 0.16
50 81 0.45
51 72 0.40
ACGTcount: A:0.30, C:0.25, G:0.18, T:0.27
Consensus pattern (50 bp):
CATAGTAGCCTGCACTTAGTACTACACACGTGACCGAACCATCTAATACA
Found at i:21798364 original size:101 final size:101
Alignment explanation
Indices: 21798239--21798477 Score: 442
Period size: 101 Copynumber: 2.4 Consensus size: 101
21798229 CTGGTACATG
* * *
21798239 TAGTAGCCTGCACTTAGTACTACACACGTGACCTCACCATCTAATACACATAGTAGCCTGCACTT
1 TAGTAGCCTGCACTTAGTATTACACATGCGACCTCACCATCTAATACACATAGTAGCCTGCACTT
21798304 AGTACTACACACGTGATCGAAGTTATTAGGTACGCA
66 AGTACTACACACGTGATCGAAGTTATTAGGTACGCA
*
21798340 TAGTAGCCTGCACTTAGTATTACACATGCGACCTCACCATCTAATACACGTAGTAGCCTGCACTT
1 TAGTAGCCTGCACTTAGTATTACACATGCGACCTCACCATCTAATACACATAGTAGCCTGCACTT
21798405 AGTACTACACACGTGATCGAAGTTATTAGGTACGCA
66 AGTACTACACACGTGATCGAAGTTATTAGGTACGCA
21798441 TAGTAGCCTGCACTTAGTATTACACATGCGACCTCAC
1 TAGTAGCCTGCACTTAGTATTACACATGCGACCTCAC
21798478 AATAGATCAT
Statistics
Matches: 134, Mismatches: 4, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
101 134 1.00
ACGTcount: A:0.30, C:0.27, G:0.17, T:0.26
Consensus pattern (101 bp):
TAGTAGCCTGCACTTAGTATTACACATGCGACCTCACCATCTAATACACATAGTAGCCTGCACTT
AGTACTACACACGTGATCGAAGTTATTAGGTACGCA
Found at i:21804566 original size:28 final size:28
Alignment explanation
Indices: 21804528--21804630 Score: 170
Period size: 28 Copynumber: 3.7 Consensus size: 28
21804518 GAATCATTCG
*
21804528 ATATTTTGCACACTAAGTGTCATTCTCA
1 ATATTTCGCACACTAAGTGTCATTCTCA
*
21804556 ATATCTCGCACACTAAGTGTCATTCTCA
1 ATATTTCGCACACTAAGTGTCATTCTCA
*
21804584 ATATTTCGTACACTAAGTGTCATTCTCA
1 ATATTTCGCACACTAAGTGTCATTCTCA
*
21804612 ATATTTCGTACACTAAGTG
1 ATATTTCGCACACTAAGTG
21804631 CTATATTTGA
Statistics
Matches: 71, Mismatches: 4, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
28 71 1.00
ACGTcount: A:0.29, C:0.22, G:0.12, T:0.37
Consensus pattern (28 bp):
ATATTTCGCACACTAAGTGTCATTCTCA
Found at i:21817585 original size:18 final size:19
Alignment explanation
Indices: 21817562--21817600 Score: 53
Period size: 21 Copynumber: 2.0 Consensus size: 19
21817552 GTATGGGTAT
21817562 TGTTC-AGCCACCGAGAGG
1 TGTTCAAGCCACCGAGAGG
21817580 TGTTCAGTAGCCACCGAGAGG
1 TGTTCA--AGCCACCGAGAGG
21817601 CCGTGGTCAG
Statistics
Matches: 18, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
18 5 0.28
21 13 0.72
ACGTcount: A:0.23, C:0.26, G:0.33, T:0.18
Consensus pattern (19 bp):
TGTTCAAGCCACCGAGAGG
Found at i:21841918 original size:17 final size:19
Alignment explanation
Indices: 21841882--21841918 Score: 51
Period size: 18 Copynumber: 2.1 Consensus size: 19
21841872 TACACTCATA
21841882 ACATGGCCCATGTAGGCCC
1 ACATGGCCCATGTAGGCCC
*
21841901 ACAT-GCCCGTGT-GGCCC
1 ACATGGCCCATGTAGGCCC
21841918 A
1 A
21841919 ATAAGCCCAA
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
17 6 0.35
18 7 0.41
19 4 0.24
ACGTcount: A:0.19, C:0.38, G:0.27, T:0.16
Consensus pattern (19 bp):
ACATGGCCCATGTAGGCCC
Found at i:21844467 original size:27 final size:26
Alignment explanation
Indices: 21844419--21844470 Score: 68
Period size: 27 Copynumber: 2.0 Consensus size: 26
21844409 GTGAGGCTGC
*
21844419 CAGATATTGTGACGAAGTCACCAGAA
1 CAGATATTGTGACGAAGCCACCAGAA
* *
21844445 CAGATATATGTGGCGAGGCCACCAGA
1 CAGATAT-TGTGACGAAGCCACCAGA
21844471 TTGCAGCGAG
Statistics
Matches: 22, Mismatches: 3, Indels: 1
0.85 0.12 0.04
Matches are distributed among these distances:
26 7 0.32
27 15 0.68
ACGTcount: A:0.35, C:0.21, G:0.27, T:0.17
Consensus pattern (26 bp):
CAGATATTGTGACGAAGCCACCAGAA
Found at i:21845096 original size:26 final size:26
Alignment explanation
Indices: 21845067--21845119 Score: 72
Period size: 26 Copynumber: 2.0 Consensus size: 26
21845057 TCACACAAGT
* *
21845067 TAGTCATTTACGCAC-GAGGGGCAAAA
1 TAGTCATTAACACACTG-GGGGCAAAA
21845093 TAGTCATTAACACACTGGGGGCAAAA
1 TAGTCATTAACACACTGGGGGCAAAA
21845119 T
1 T
21845120 GGTAATTTTA
Statistics
Matches: 24, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
26 23 0.96
27 1 0.04
ACGTcount: A:0.36, C:0.19, G:0.25, T:0.21
Consensus pattern (26 bp):
TAGTCATTAACACACTGGGGGCAAAA
Found at i:21845158 original size:27 final size:27
Alignment explanation
Indices: 21845120--21845292 Score: 204
Period size: 27 Copynumber: 6.4 Consensus size: 27
21845110 GGGGCAAAAT
* * *
21845120 GGTAATTTTACCCCACAAGGGTATCTC
1 GGTAATTCTACCCTACAAGGGTATTTC
*
21845147 GGTAATTCTACCCTAC-AGAGGTATTTT
1 GGTAATTCTACCCTACAAG-GGTATTTC
* *
21845174 GGTATTTCTACCCTATAAGGGTATTTC
1 GGTAATTCTACCCTACAAGGGTATTTC
* * *
21845201 GGTAATTCTACCCTATAGGGGTAGTTC
1 GGTAATTCTACCCTACAAGGGTATTTC
** *
21845228 AATAATTCTACCCTACAGGGGTATTTC
1 GGTAATTCTACCCTACAAGGGTATTTC
* *
21845255 AGTAATTCTACCTTACAAGGGTATTTC
1 GGTAATTCTACCCTACAAGGGTATTTC
21845282 GGTAATTCTAC
1 GGTAATTCTAC
21845293 AACTTATCCA
Statistics
Matches: 126, Mismatches: 18, Indels: 4
0.85 0.12 0.03
Matches are distributed among these distances:
26 2 0.02
27 122 0.97
28 2 0.02
ACGTcount: A:0.26, C:0.20, G:0.18, T:0.35
Consensus pattern (27 bp):
GGTAATTCTACCCTACAAGGGTATTTC
Found at i:21852723 original size:27 final size:27
Alignment explanation
Indices: 21852693--21852865 Score: 213
Period size: 27 Copynumber: 6.4 Consensus size: 27
21852683 GGGGCAAAAT
* * *
21852693 GGTAATTTTACCCCACAAGGGTATCTC
1 GGTAATTCTACCCTACAAGGGTATTTC
*
21852720 GGTAATTCTACCCTACAGGGGTATTTC
1 GGTAATTCTACCCTACAAGGGTATTTC
* *
21852747 GGTATTTCTACCCTACAACGGTATTTC
1 GGTAATTCTACCCTACAAGGGTATTTC
21852774 GGTAATTCTACCCTAC-AGGGATATTTC
1 GGTAATTCTACCCTACAAGGG-TATTTC
** *
21852801 AATAATTCTACCCTACAGGGGTATTTC
1 GGTAATTCTACCCTACAAGGGTATTTC
* * *
21852828 AGTAATTCTACCTTACAGGGGTATTTC
1 GGTAATTCTACCCTACAAGGGTATTTC
*
21852855 GATAATTCTAC
1 GGTAATTCTAC
21852866 AACTTATCCA
Statistics
Matches: 128, Mismatches: 16, Indels: 4
0.86 0.11 0.03
Matches are distributed among these distances:
26 3 0.02
27 122 0.95
28 3 0.02
ACGTcount: A:0.26, C:0.23, G:0.17, T:0.34
Consensus pattern (27 bp):
GGTAATTCTACCCTACAAGGGTATTTC
Found at i:21852776 original size:54 final size:54
Alignment explanation
Indices: 21852695--21852865 Score: 243
Period size: 54 Copynumber: 3.2 Consensus size: 54
21852685 GGCAAAATGG
* * * *
21852695 TAATTTTACCCCACAAGGGTATCTCGGTAATTCTACCCTACAGGGGTATTTCGG
1 TAATTCTACCCTACAAGGGTATTTCGGTAATTCTACCCTACAGGGGTATTTCGA
* * * *
21852749 TATTTCTACCCTACAACGGTATTTCGGTAATTCTACCCTACAGGGATATTTCAA
1 TAATTCTACCCTACAAGGGTATTTCGGTAATTCTACCCTACAGGGGTATTTCGA
* * *
21852803 TAATTCTACCCTACAGGGGTATTTCAGTAATTCTACCTTACAGGGGTATTTCGA
1 TAATTCTACCCTACAAGGGTATTTCGGTAATTCTACCCTACAGGGGTATTTCGA
21852857 TAATTCTAC
1 TAATTCTAC
21852866 AACTTATCCA
Statistics
Matches: 102, Mismatches: 15, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
54 102 1.00
ACGTcount: A:0.26, C:0.23, G:0.16, T:0.35
Consensus pattern (54 bp):
TAATTCTACCCTACAAGGGTATTTCGGTAATTCTACCCTACAGGGGTATTTCGA
Found at i:21854277 original size:43 final size:43
Alignment explanation
Indices: 21854206--21854340 Score: 141
Period size: 43 Copynumber: 3.2 Consensus size: 43
21854196 TCACGCATAC
* *
21854206 CATA-CAATGCCAACGTCCCA-AGCGTGGTCTTACATGCAATCA
1 CATATCAATGCCAACGTCCCAGA-CATGGTCTTACACGCAATCA
* ** *
21854248 CATATCGATGCCATTGTCCCAGACATGGTCTTACACGTAATCA
1 CATATCAATGCCAACGTCCCAGACATGGTCTTACACGCAATCA
** * *
21854291 CATATCAATGCCAACGTCCCAGATGTGATCTTACACG-AGAACA
1 CATATCAATGCCAACGTCCCAGACATGGTCTTACACGCA-ATCA
21854334 CATATCA
1 CATATCA
21854341 GAAATCCTAT
Statistics
Matches: 77, Mismatches: 13, Indels: 5
0.81 0.14 0.05
Matches are distributed among these distances:
42 5 0.06
43 71 0.92
44 1 0.01
ACGTcount: A:0.32, C:0.29, G:0.16, T:0.24
Consensus pattern (43 bp):
CATATCAATGCCAACGTCCCAGACATGGTCTTACACGCAATCA
Found at i:21856787 original size:44 final size:43
Alignment explanation
Indices: 21856724--21856881 Score: 153
Period size: 44 Copynumber: 3.7 Consensus size: 43
21856714 TGTCTTTTCA
*
21856724 TGTAAGACCACGTTTGGGACATTGGCATC-AACTTATGATTTACG
1 TGTAAGACCACGTCTGGGACATTGGCATCGAA-TT-TGATTTACG
* ** *
21856768 TGTAAGACCATGTCTGGGACATCAGCATCGTATTTGATTT-CG
1 TGTAAGACCACGTCTGGGACATTGGCATCGAATTTGATTTACG
* * *
21856810 TGTAAGACC-CTGTCTGGGACAGTGGTATCGATATTTTGA-TTACA
1 TGTAAGACCAC-GTCTGGGACATTGGCATCGA-A-TTTGATTTACG
* *
21856854 TGTAAGACCACGTCTAGGACGTTGGCAT
1 TGTAAGACCACGTCTGGGACATTGGCAT
21856882 TATATGAGCT
Statistics
Matches: 92, Mismatches: 16, Indels: 12
0.77 0.13 0.10
Matches are distributed among these distances:
42 26 0.28
43 9 0.10
44 55 0.60
45 2 0.02
ACGTcount: A:0.25, C:0.18, G:0.25, T:0.32
Consensus pattern (43 bp):
TGTAAGACCACGTCTGGGACATTGGCATCGAATTTGATTTACG
Found at i:21859154 original size:15 final size:16
Alignment explanation
Indices: 21859134--21859167 Score: 52
Period size: 16 Copynumber: 2.2 Consensus size: 16
21859124 TTGTAGTTGT
21859134 TTTAAA-ATTTTATGC
1 TTTAAATATTTTATGC
*
21859149 TTTAAATTTTTTATGC
1 TTTAAATATTTTATGC
21859165 TTT
1 TTT
21859168 TCTTTGATTT
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
15 6 0.35
16 11 0.65
ACGTcount: A:0.26, C:0.06, G:0.06, T:0.62
Consensus pattern (16 bp):
TTTAAATATTTTATGC
Found at i:21864675 original size:47 final size:47
Alignment explanation
Indices: 21864623--21865075 Score: 728
Period size: 47 Copynumber: 9.6 Consensus size: 47
21864613 GATAATTGTG
* *
21864623 ATGTGAATGTATATATATGTGATAAGGCCTAATGGCCGATGTGATGA
1 ATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGA
* *
21864670 ATGTGAAAGTGTATATATGTGATAAGGCCGAATGGCCAATGTGATGA
1 ATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGA
21864717 ATGTGAAAGTGTATATATATGTGATAAGGCCTAATGGCCGATGTGATGA
1 ATGTGAAAGTG--TATATATGTGATAAGGCCTAATGGCCGATGTGATGA
21864766 ATGTGAAAGTGTATATATATGTGATAAGGCCTAATGGCCGATGTGATGA
1 ATGTGAAAGTG--TATATATGTGATAAGGCCTAATGGCCGATGTGATGA
21864815 ATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGA
1 ATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGA
*
21864862 ATGTGAAAGTGTATATATGTGATGAGGCCTAATGGCCGATGTGATGA
1 ATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGA
*
21864909 ATGTGAAAGTGTATATATGTGATAAGGCCTAATAGCCGATGTGATGA
1 ATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGA
*
21864956 ATGTGAAAGTGTATATATGTGATGAGGCCTAATGGCCGATGTGATGA
1 ATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGA
* * * * * *
21865003 ATGTGAAAGTGTATATATGTGA-CAGAGCCGAGTGGCCAACGTGATGG
1 ATGTGAAAGTGTATATATGTGATAAG-GCCTAATGGCCGATGTGATGA
*
21865050 ATGTGAAAGTGTATAAATGTGATAAG
1 ATGTGAAAGTGTATATATGTGATAAG
21865076 TCCCGAAGGG
Statistics
Matches: 383, Mismatches: 19, Indels: 7
0.94 0.05 0.02
Matches are distributed among these distances:
46 2 0.01
47 285 0.74
48 2 0.01
49 94 0.25
ACGTcount: A:0.32, C:0.08, G:0.30, T:0.29
Consensus pattern (47 bp):
ATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGA
Found at i:21869713 original size:40 final size:40
Alignment explanation
Indices: 21869617--21869800 Score: 241
Period size: 40 Copynumber: 4.5 Consensus size: 40
21869607 TATTCGGATG
21869617 ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTAGTTGCT
1 ATATCCGGGCTAAGTCCCGAAGGCATTTGTGC---TAGTTGCT
21869660 ATA-CTCGGGCTAAGTCCCGAAGGCATTTGTGCTAG-TGACT
1 ATATC-CGGGCTAAGTCCCGAAGGCATTTGTGCTAGTTG-CT
**
21869700 ATATCCGGGCTAAGTCCCGAAGGCATTCATGCTAG-TGACT
1 ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCTAGTTG-CT
* *
21869740 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCGAGTTGCT
1 ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCTAGTTGCT
*
21869780 ATATCC-GGCTAAATCCCGAAG
1 ATATCCGGGCTAAGTCCCGAAG
21869801 ATACTTGGGT
Statistics
Matches: 129, Mismatches: 8, Indels: 12
0.87 0.05 0.08
Matches are distributed among these distances:
39 15 0.12
40 80 0.62
41 3 0.02
42 1 0.01
43 30 0.23
ACGTcount: A:0.24, C:0.23, G:0.27, T:0.26
Consensus pattern (40 bp):
ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCTAGTTGCT
Found at i:21871412 original size:27 final size:27
Alignment explanation
Indices: 21871382--21871512 Score: 165
Period size: 27 Copynumber: 4.9 Consensus size: 27
21871372 TGTTTTACAT
*
21871382 TTATGGGGTAAAATGACTATTTTGCCC
1 TTATGAGGTAAAATGACTATTTTGCCC
* *
21871409 TTATAAGGTAAAATGACTATTTTGCCT
1 TTATGAGGTAAAATGACTATTTTGCCC
* *
21871436 TTATGAGGTAAAATGATTGTTTTGCCC
1 TTATGAGGTAAAATGACTATTTTGCCC
**
21871463 TTATGAGGTAAAATGACTGGTTTGCCC
1 TTATGAGGTAAAATGACTATTTTGCCC
* *
21871490 TT-TTATGGTAAGATGACTATTTT
1 TTATGA-GGTAAAATGACTATTTT
21871513 ACCTCTATGT
Statistics
Matches: 90, Mismatches: 13, Indels: 2
0.86 0.12 0.02
Matches are distributed among these distances:
26 2 0.02
27 88 0.98
ACGTcount: A:0.27, C:0.11, G:0.21, T:0.40
Consensus pattern (27 bp):
TTATGAGGTAAAATGACTATTTTGCCC
Found at i:21871860 original size:18 final size:18
Alignment explanation
Indices: 21871837--21871887 Score: 68
Period size: 18 Copynumber: 2.9 Consensus size: 18
21871827 CTTGCATACT
21871837 GTTTACTATTACTGCACC
1 GTTTACTATTACTGCACC
* *
21871855 GTTTACTATTACTACACT
1 GTTTACTATTACTGCACC
*
21871873 G-TTACTGTTACTGCA
1 GTTTACTATTACTGCA
21871888 TTATTTACTG
Statistics
Matches: 29, Mismatches: 4, Indels: 1
0.85 0.12 0.03
Matches are distributed among these distances:
17 12 0.41
18 17 0.59
ACGTcount: A:0.24, C:0.24, G:0.12, T:0.41
Consensus pattern (18 bp):
GTTTACTATTACTGCACC
Found at i:21871884 original size:35 final size:36
Alignment explanation
Indices: 21871834--21871905 Score: 92
Period size: 35 Copynumber: 2.0 Consensus size: 36
21871824 GGACTTGCAT
*
21871834 ACTGTTTACTATTACTGCACCGTTTACTATTACTAC
1 ACTGTTTACTATTACTGCACCATTTACTATTACTAC
* ** *
21871870 ACTG-TTACTGTTACTGCATTATTTACTGTTACTAC
1 ACTGTTTACTATTACTGCACCATTTACTATTACTAC
21871905 A
1 A
21871906 ATGGGCCAAG
Statistics
Matches: 31, Mismatches: 5, Indels: 1
0.84 0.14 0.03
Matches are distributed among these distances:
35 27 0.87
36 4 0.13
ACGTcount: A:0.25, C:0.22, G:0.10, T:0.43
Consensus pattern (36 bp):
ACTGTTTACTATTACTGCACCATTTACTATTACTAC
Found at i:21874463 original size:47 final size:45
Alignment explanation
Indices: 21874389--21874659 Score: 201
Period size: 47 Copynumber: 5.8 Consensus size: 45
21874379 ATTTGTGTGT
* *
21874389 GAGCTAGTGTAATACATGTCTGAGACATGCATCGGCCACATTATGA
1 GAGCTAGTGTAAGACATGTCTGGGACATGCATCGGCCACA-TATGA
* * * *
21874435 GAGCTAATGTAAGACCATGTCTGGGACATGGCATCGG-CATTGAGACGA
1 GAGCTAGTGTAAGA-CATGTCTGGGACAT-GCATCGGCCA--CATATGA
* * * *
21874483 GAGCTAGTGTAAGACATGTCTGGGACATGCATCGACCTCA-AGGC
1 GAGCTAGTGTAAGACATGTCTGGGACATGCATCGGCCACATATGA
* * * *
21874527 GTAAGCCAGTGTAAGACATGTCTGGGACATGCATCAGCTACAAGATGA
1 G--AGCTAGTGTAAGACATGTCTGGGACATGCATCGGCCAC-ATATGA
* * * * *
21874575 TAG-TCAGTGTAAGACCCTGTCTGGGACATGGCATCGACTTGAGATAT--
1 GAGCT-AGTGTAAGA-CATGTCTGGGACAT-GCATCGGC--CACATATGA
21874622 GAGCTAGTGTAAGACCATGTCTGGGACATGACATCGGC
1 GAGCTAGTGTAAGA-CATGTCTGGGACATG-CATCGGC
21874660 ACCTTACCCA
Statistics
Matches: 179, Mismatches: 30, Indels: 31
0.75 0.12 0.13
Matches are distributed among these distances:
44 3 0.02
45 1 0.01
46 63 0.35
47 75 0.42
48 32 0.18
49 4 0.02
50 1 0.01
ACGTcount: A:0.29, C:0.20, G:0.28, T:0.23
Consensus pattern (45 bp):
GAGCTAGTGTAAGACATGTCTGGGACATGCATCGGCCACATATGA
Found at i:21874540 original size:46 final size:47
Alignment explanation
Indices: 21874389--21874657 Score: 210
Period size: 46 Copynumber: 5.7 Consensus size: 47
21874379 ATTTGTGTGT
* * * * * ** *
21874389 GAGCTAGTGTAATA-CATGTCTGAGACATGCATCGGCCACATTATGA
1 GAGCCAGTGTAAGACCATGTCTGGGACATGCATCGACCTCAAGACGA
* * * * **
21874435 GAGCTAATGTAAGACCATGTCTGGGACATGGCATCGGCATTGAGACGA
1 GAGCCAGTGTAAGACCATGTCTGGGACAT-GCATCGACCTCAAGACGA
* *
21874483 GAGCTAGTGTAAGA-CATGTCTGGGACATGCATCGACCTCAAGGCGTA
1 GAGCCAGTGTAAGACCATGTCTGGGACATGCATCGACCTCAAGACG-A
* *
21874530 -AGCCAGTGTAAGA-CATGTCTGGGACATGCATC-AGCTACAAGATGA
1 GAGCCAGTGTAAGACCATGTCTGGGACATGCATCGACCT-CAAGACGA
* * * ** *
21874575 TAGTCAGTGTAAGACCCTGTCTGGGACATGGCATCGA-CTTGAGA-TA
1 GAGCCAGTGTAAGACCATGTCTGGGACAT-GCATCGACCTCAAGACGA
*
21874621 TGAGCTAGTGTAAGACCATGTCTGGGACATGACATCG
1 -GAGCCAGTGTAAGACCATGTCTGGGACATG-CATCG
21874658 GCACCTTACC
Statistics
Matches: 184, Mismatches: 29, Indels: 19
0.79 0.12 0.08
Matches are distributed among these distances:
45 4 0.02
46 74 0.40
47 74 0.40
48 31 0.17
49 1 0.01
ACGTcount: A:0.29, C:0.20, G:0.28, T:0.23
Consensus pattern (47 bp):
GAGCCAGTGTAAGACCATGTCTGGGACATGCATCGACCTCAAGACGA
Found at i:21874646 original size:140 final size:141
Alignment explanation
Indices: 21874394--21874657 Score: 374
Period size: 140 Copynumber: 1.9 Consensus size: 141
21874384 TGTGTGAGCT
* * **
21874394 AGTGTAATACATGTCTGAGACATGCATCGGCCACATTATGAGAGCTAATGTAAGACCATGTCTGG
1 AGTGTAAGACATGTCTGAGACATGCATCAGCCACAAGATGAGAGCTAATGTAAGACCATGTCTGG
*
21874459 GACATGGCATCGGCATTGAGACGAGAGCTAGTGTAAGACATGTCTGGGACATG-CATCGACCTCA
66 GACATGGCATCGACATTGAGACGAGAGCTAGTGTAAGACATGTCTGGGACATGACATCGACCTCA
21874523 AGGCGTAAGCC
131 AGGCGTAAGCC
* * * * *
21874534 AGTGTAAGACATGTCTGGGACATGCATCAGCTACAAGATGATAG-TCAGTGTAAGACCCTGTCTG
1 AGTGTAAGACATGTCTGAGACATGCATCAGCCACAAGATGAGAGCT-AATGTAAGACCATGTCTG
*
21874598 GGACATGGCATCGAC-TTGAGA-TATGAGCTAGTGTAAGACCATGTCTGGGACATGACATCG
65 GGACATGGCATCGACATTGAGACGA-GAGCTAGTGTAAGA-CATGTCTGGGACATGACATCG
21874658 GCACCTTACC
Statistics
Matches: 109, Mismatches: 11, Indels: 7
0.86 0.09 0.06
Matches are distributed among these distances:
138 1 0.01
139 21 0.19
140 82 0.75
141 5 0.05
ACGTcount: A:0.29, C:0.20, G:0.28, T:0.23
Consensus pattern (141 bp):
AGTGTAAGACATGTCTGAGACATGCATCAGCCACAAGATGAGAGCTAATGTAAGACCATGTCTGG
GACATGGCATCGACATTGAGACGAGAGCTAGTGTAAGACATGTCTGGGACATGACATCGACCTCA
AGGCGTAAGCC
Found at i:21877566 original size:49 final size:51
Alignment explanation
Indices: 21877398--21877574 Score: 243
Period size: 51 Copynumber: 3.5 Consensus size: 51
21877388 GGATACCCAA
* * * * *
21877398 TGGCCTGCACATAGTACCACCCTTGT-AGTCAAAGCTACCTTCTTCAAAAAG
1 TGGCCTTCACATAGTACCACACTTGTGA-CCAAAGCTATCTTCTTCACAAAG
21877449 TGGCCTTCACATAGTACCACACTTGTGACCAAAGCTATCTTTCTTCACAAAG
1 TGGCCTTCACATAGTACCACACTTGTGACCAAAGCTATC-TTCTTCACAAAG
* *
21877501 TGGCCTTCACATAGTACCGCACTTGTGACC-AAGCTATC-TCTTCTCAAAG
1 TGGCCTTCACATAGTACCACACTTGTGACCAAAGCTATCTTCTTCACAAAG
*
21877550 TGGCCTTCACACAGTACCACACTTG
1 TGGCCTTCACATAGTACCACACTTG
21877575 AGTCACTAGT
Statistics
Matches: 115, Mismatches: 9, Indels: 6
0.88 0.07 0.05
Matches are distributed among these distances:
49 33 0.29
51 41 0.36
52 41 0.36
ACGTcount: A:0.27, C:0.31, G:0.15, T:0.27
Consensus pattern (51 bp):
TGGCCTTCACATAGTACCACACTTGTGACCAAAGCTATCTTCTTCACAAAG
Found at i:21888437 original size:21 final size:21
Alignment explanation
Indices: 21888411--21888454 Score: 79
Period size: 21 Copynumber: 2.1 Consensus size: 21
21888401 AACACTCTAG
*
21888411 GGTTGCATTAACTCGATTTAT
1 GGTTGCATTAACTCAATTTAT
21888432 GGTTGCATTAACTCAATTTAT
1 GGTTGCATTAACTCAATTTAT
21888453 GG
1 GG
21888455 ATCCCCTTAT
Statistics
Matches: 22, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
21 22 1.00
ACGTcount: A:0.25, C:0.14, G:0.20, T:0.41
Consensus pattern (21 bp):
GGTTGCATTAACTCAATTTAT
Found at i:21890462 original size:50 final size:49
Alignment explanation
Indices: 21890408--21890566 Score: 173
Period size: 49 Copynumber: 3.2 Consensus size: 49
21890398 CATAAGTTCC
**
21890408 GCAGGCTACTACGTGTATCAG-ATGGTTAG-GTCACGTGTGTAGTACTAAGT
1 GCAGGCTACTACGTGTA-CAGAATAATT-GTG-CACGTGTGTAGTACTAAGT
* *
21890458 GCAGGATACTACGTGTACCGAATAATTGTGCACGTGTGTAGTACTAAGT
1 GCAGGCTACTACGTGTACAGAATAATTGTGCACGTGTGTAGTACTAAGT
* * * *
21890507 GCAGGCTACTACATGTACCGGATAATTGTTTGCA--TGTGTAGTACTATGT
1 GCAGGCTACTACGTGTACAGAATAATTG--TGCACGTGTGTAGTACTAAGT
21890556 GCAGGCTACTA
1 GCAGGCTACTA
21890567 TGCGTACTAG
Statistics
Matches: 97, Mismatches: 8, Indels: 9
0.85 0.07 0.08
Matches are distributed among these distances:
49 72 0.74
50 21 0.22
51 4 0.04
ACGTcount: A:0.26, C:0.17, G:0.27, T:0.30
Consensus pattern (49 bp):
GCAGGCTACTACGTGTACAGAATAATTGTGCACGTGTGTAGTACTAAGT
Found at i:21890503 original size:49 final size:50
Alignment explanation
Indices: 21890439--21890566 Score: 190
Period size: 49 Copynumber: 2.6 Consensus size: 50
21890429 ATGGTTAGGT
* *
21890439 CACGTGTGTAGTACTAAGTGCAGGATACTACGTGTACCGAATAATTG-TG
1 CACGTGTGTAGTACTAAGTGCAGGCTACTACATGTACCGAATAATTGTTG
*
21890488 CACGTGTGTAGTACTAAGTGCAGGCTACTACATGTACCGGATAATTGTTTG
1 CACGTGTGTAGTACTAAGTGCAGGCTACTACATGTACCGAATAATTG-TTG
*
21890539 CA--TGTGTAGTACTATGTGCAGGCTACTA
1 CACGTGTGTAGTACTAAGTGCAGGCTACTA
21890567 TGCGTACTAG
Statistics
Matches: 73, Mismatches: 4, Indels: 4
0.90 0.05 0.05
Matches are distributed among these distances:
49 69 0.95
51 4 0.05
ACGTcount: A:0.27, C:0.17, G:0.26, T:0.30
Consensus pattern (50 bp):
CACGTGTGTAGTACTAAGTGCAGGCTACTACATGTACCGAATAATTGTTG
Found at i:21899693 original size:15 final size:16
Alignment explanation
Indices: 21899666--21899695 Score: 53
Period size: 15 Copynumber: 1.9 Consensus size: 16
21899656 AGATATTCCA
21899666 ATTTAGTCCCATTTTT
1 ATTTAGTCCCATTTTT
21899682 ATTTAG-CCCATTTT
1 ATTTAGTCCCATTTT
21899696 GGCAATTTTC
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:0.20, C:0.20, G:0.07, T:0.53
Consensus pattern (16 bp):
ATTTAGTCCCATTTTT
Found at i:21903839 original size:79 final size:82
Alignment explanation
Indices: 21903728--21903912 Score: 229
Period size: 79 Copynumber: 2.3 Consensus size: 82
21903718 GCTACTCGTT
* * *
21903728 CAAATGCCTTCGGGACATAGCCCGG-TTATAGTAACTCGCACAATTGCCTTCGGGA-CTTAACCC
1 CAAATGCCTTCGGGACTTAGCCCGGAATATAGTAACTCGCACAAATGCCTTC-GGATCTTAACCC
* *
21903791 GGATTTAGTAAC-TCGCA
65 GGATATAGTAACTTAGCA
* **
21903808 CAAATGCCTTCGGG-CTTAGCCCGGAAT-TAGTATCTCGCACAAATGCCTTCGGATCTTAGTCCG
1 CAAATGCCTTCGGGACTTAGCCCGGAATATAGTAACTCGCACAAATGCCTTCGGATCTTAACCCG
* *
21903871 GATATGGTCACTTAGCA
66 GATATAGTAACTTAGCA
21903888 CAAA-GCCTTCGGGACTTAGCCCGGA
1 CAAATGCCTTCGGGACTTAGCCCGGA
21903913 CATCATTCAA
Statistics
Matches: 91, Mismatches: 10, Indels: 8
0.83 0.09 0.07
Matches are distributed among these distances:
78 3 0.03
79 54 0.59
80 34 0.37
ACGTcount: A:0.25, C:0.28, G:0.23, T:0.25
Consensus pattern (82 bp):
CAAATGCCTTCGGGACTTAGCCCGGAATATAGTAACTCGCACAAATGCCTTCGGATCTTAACCCG
GATATAGTAACTTAGCA
Found at i:21903912 original size:40 final size:40
Alignment explanation
Indices: 21903709--21903912 Score: 229
Period size: 40 Copynumber: 5.1 Consensus size: 40
21903699 CGGAATTTAA
** *
21903709 CCGGATATAGCT-ACTCGTTCAAATGCCTTCGGGACATAGC
1 CCGGATATAG-TAACTCGCACAAATGCCTTCGGGACTTAGC
* * *
21903749 CCGGTTATAGTAACTCGCACAATTGCCTTCGGGACTTAAC
1 CCGGATATAGTAACTCGCACAAATGCCTTCGGGACTTAGC
*
21903789 CCGGATTTAGTAACTCGCACAAATGCCTTCGGG-CTTAGC
1 CCGGATATAGTAACTCGCACAAATGCCTTCGGGACTTAGC
* *
21903828 CCGGA-ATTAGTATCTCGCACAAATGCCTTC-GGATCTTAGT
1 CCGGATA-TAGTAACTCGCACAAATGCCTTCGGGA-CTTAGC
* * *
21903868 CCGGATATGGTCACTTAGCACAAA-GCCTTCGGGACTTAGC
1 CCGGATATAGTAAC-TCGCACAAATGCCTTCGGGACTTAGC
21903908 CCGGA
1 CCGGA
21903913 CATCATTCAA
Statistics
Matches: 139, Mismatches: 18, Indels: 14
0.81 0.11 0.08
Matches are distributed among these distances:
38 2 0.01
39 33 0.24
40 92 0.66
41 12 0.09
ACGTcount: A:0.25, C:0.27, G:0.23, T:0.25
Consensus pattern (40 bp):
CCGGATATAGTAACTCGCACAAATGCCTTCGGGACTTAGC
Found at i:21908238 original size:29 final size:29
Alignment explanation
Indices: 21908196--21908255 Score: 111
Period size: 29 Copynumber: 2.1 Consensus size: 29
21908186 CAAGGTGAGA
21908196 AACTTGGTCGAGCAAAACCTCTATCCGTC
1 AACTTGGTCGAGCAAAACCTCTATCCGTC
*
21908225 AACTTGGTTGAGCAAAACCTCTATCCGTC
1 AACTTGGTCGAGCAAAACCTCTATCCGTC
21908254 AA
1 AA
21908256 TTCTTGCAAC
Statistics
Matches: 30, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
29 30 1.00
ACGTcount: A:0.30, C:0.28, G:0.17, T:0.25
Consensus pattern (29 bp):
AACTTGGTCGAGCAAAACCTCTATCCGTC
Found at i:21911807 original size:79 final size:82
Alignment explanation
Indices: 21911696--21911880 Score: 229
Period size: 79 Copynumber: 2.3 Consensus size: 82
21911686 GCTACTCGTT
* * *
21911696 CAAATGCCTTCGGGACATAGCCCGG-TTATAGTAACTCGCACAATTGCCTTCGGGA-CTTAACCC
1 CAAATGCCTTCGGGACTTAGCCCGGAATATAGTAACTCGCACAAATGCCTTC-GGATCTTAACCC
* *
21911759 GGATTTAGTAAC-TCGCA
65 GGATATAGTAACTTAGCA
* **
21911776 CAAATGCCTTCGGG-CTTAGCCCGGAAT-TAGTATCTCGCACAAATGCCTTCGGATCTTAGTCCG
1 CAAATGCCTTCGGGACTTAGCCCGGAATATAGTAACTCGCACAAATGCCTTCGGATCTTAACCCG
* *
21911839 GATATGGTCACTTAGCA
66 GATATAGTAACTTAGCA
21911856 CAAA-GCCTTCGGGACTTAGCCCGGA
1 CAAATGCCTTCGGGACTTAGCCCGGA
21911881 CATCATTCAA
Statistics
Matches: 91, Mismatches: 10, Indels: 8
0.83 0.09 0.07
Matches are distributed among these distances:
78 3 0.03
79 54 0.59
80 34 0.37
ACGTcount: A:0.25, C:0.28, G:0.23, T:0.25
Consensus pattern (82 bp):
CAAATGCCTTCGGGACTTAGCCCGGAATATAGTAACTCGCACAAATGCCTTCGGATCTTAACCCG
GATATAGTAACTTAGCA
Found at i:21911880 original size:40 final size:40
Alignment explanation
Indices: 21911677--21911880 Score: 229
Period size: 40 Copynumber: 5.1 Consensus size: 40
21911667 CGGAATTTAA
** *
21911677 CCGGATATAGCT-ACTCGTTCAAATGCCTTCGGGACATAGC
1 CCGGATATAG-TAACTCGCACAAATGCCTTCGGGACTTAGC
* * *
21911717 CCGGTTATAGTAACTCGCACAATTGCCTTCGGGACTTAAC
1 CCGGATATAGTAACTCGCACAAATGCCTTCGGGACTTAGC
*
21911757 CCGGATTTAGTAACTCGCACAAATGCCTTCGGG-CTTAGC
1 CCGGATATAGTAACTCGCACAAATGCCTTCGGGACTTAGC
* *
21911796 CCGGA-ATTAGTATCTCGCACAAATGCCTTC-GGATCTTAGT
1 CCGGATA-TAGTAACTCGCACAAATGCCTTCGGGA-CTTAGC
* * *
21911836 CCGGATATGGTCACTTAGCACAAA-GCCTTCGGGACTTAGC
1 CCGGATATAGTAAC-TCGCACAAATGCCTTCGGGACTTAGC
21911876 CCGGA
1 CCGGA
21911881 CATCATTCAA
Statistics
Matches: 139, Mismatches: 18, Indels: 14
0.81 0.11 0.08
Matches are distributed among these distances:
38 2 0.01
39 33 0.24
40 92 0.66
41 12 0.09
ACGTcount: A:0.25, C:0.27, G:0.23, T:0.25
Consensus pattern (40 bp):
CCGGATATAGTAACTCGCACAAATGCCTTCGGGACTTAGC
Found at i:21914545 original size:51 final size:50
Alignment explanation
Indices: 21914485--21914653 Score: 234
Period size: 51 Copynumber: 3.4 Consensus size: 50
21914475 TTATCACCTG
*
21914485 CACATAGTACCACCCTTGTAATCAAAGCTACCTTCTTCACAAAATGGCCTT
1 CACATAGTACCACACTTGTAA-CAAAGCTACCTTCTTCACAAAATGGCCTT
* *
21914536 CACATAGTACCACGCTTGTAACAAAGCTATCTTTCTTCA-AAAAGTGGCCTT
1 CACATAGTACCACACTTGTAACAAAGCTA-CCTTCTTCACAAAA-TGGCCTT
* * * *
21914587 CACATAGTACCACACTTGTGACCAAGCTATC-TCTTCTCAAAATGGCCTT
1 CACATAGTACCACACTTGTAACAAAGCTACCTTCTTCACAAAATGGCCTT
21914636 CACATAGTACCACACTTG
1 CACATAGTACCACACTTG
21914654 AGTCACTAGT
Statistics
Matches: 107, Mismatches: 8, Indels: 8
0.87 0.07 0.07
Matches are distributed among these distances:
49 30 0.28
50 16 0.15
51 61 0.57
ACGTcount: A:0.31, C:0.30, G:0.12, T:0.28
Consensus pattern (50 bp):
CACATAGTACCACACTTGTAACAAAGCTACCTTCTTCACAAAATGGCCTT
Found at i:21924184 original size:22 final size:21
Alignment explanation
Indices: 21924143--21924184 Score: 50
Period size: 22 Copynumber: 2.0 Consensus size: 21
21924133 ATTATATCTA
*
21924143 TTATAATTTATATATTAATTT
1 TTATAATTTATATATGAATTT
21924164 TTATCAATTTAGTATA-GAATT
1 TTAT-AATTTA-TATATGAATT
21924185 AGTATTAGTT
Statistics
Matches: 18, Mismatches: 1, Indels: 3
0.82 0.05 0.14
Matches are distributed among these distances:
21 4 0.22
22 10 0.56
23 4 0.22
ACGTcount: A:0.38, C:0.02, G:0.05, T:0.55
Consensus pattern (21 bp):
TTATAATTTATATATGAATTT
Found at i:21924825 original size:25 final size:27
Alignment explanation
Indices: 21924797--21924859 Score: 78
Period size: 25 Copynumber: 2.4 Consensus size: 27
21924787 TTCTCCTAAA
*
21924797 TTTT-AATTTTATTTAATCATT-TAAT
1 TTTTAAATTTTATTGAATCATTATAAT
*
21924822 TTTTCAA-TTTATTGAATCATTAATAAT
1 TTTTAAATTTTATTGAATCATT-ATAAT
21924849 TTTTAAATTTT
1 TTTTAAATTTT
21924860 TGAGAAAATA
Statistics
Matches: 32, Mismatches: 2, Indels: 5
0.82 0.05 0.13
Matches are distributed among these distances:
25 17 0.53
26 2 0.06
27 10 0.31
28 3 0.09
ACGTcount: A:0.33, C:0.05, G:0.02, T:0.60
Consensus pattern (27 bp):
TTTTAAATTTTATTGAATCATTATAAT
Found at i:21936309 original size:49 final size:49
Alignment explanation
Indices: 21936256--21936481 Score: 281
Period size: 49 Copynumber: 4.6 Consensus size: 49
21936246 CTGGTACGCA
* *
21936256 TAGTAGCCTGCACTTAGTACTACACATGCGACCAATTATCCGGTACAGG
1 TAGTAGCCTGCACTTAGTACTACACACGCGACCAATTATCCGGTACACG
* * ** * *
21936305 TAGTATCCTGCACTTAGTACTACACACGTGACCTAACCATCTGATACACG
1 TAGTAGCCTGCACTTAGTACTACACACGCGACC-AATTATCCGGTACACG
* * * * *
21936355 TAGTAGCCTGCACTTAGTACTACACACGTGATCAAAGTTATCGGGTACGCA
1 TAGTAGCCTGCACTTAGTACTACACACGCGA-CCAA-TTATCCGGTACACG
* * *
21936406 TAGTAGCCTGCACATAGTACTACACATGCGACCAATTATTCGGTACACG
1 TAGTAGCCTGCACTTAGTACTACACACGCGACCAATTATCCGGTACACG
21936455 TAGTAGCCTGCACTTAGTACTACACAC
1 TAGTAGCCTGCACTTAGTACTACACAC
21936482 ATGACCTCAC
Statistics
Matches: 148, Mismatches: 26, Indels: 6
0.82 0.14 0.03
Matches are distributed among these distances:
49 65 0.44
50 46 0.31
51 37 0.25
ACGTcount: A:0.30, C:0.27, G:0.18, T:0.25
Consensus pattern (49 bp):
TAGTAGCCTGCACTTAGTACTACACACGCGACCAATTATCCGGTACACG
Found at i:21936428 original size:101 final size:98
Alignment explanation
Indices: 21936256--21936481 Score: 285
Period size: 100 Copynumber: 2.3 Consensus size: 98
21936246 CTGGTACGCA
* * * * *
21936256 TAGTAGCCTGCACTTAGTACTACACATGCGACCAATTATCCGGTACAGGTAGTATCCTGCACTTA
1 TAGTAGCCTGCACTTAGTACTACACACGCGACAAATTATCCGGTACAGATAGTAGCCTGCACATA
*
21936321 GTACTACACACGTGACCTAACCA-TCTGATACACG
66 GTACTACACACGCGACC-AACCATTC-GATACACG
* *
21936355 TAGTAGCCTGCACTTAGTACTACACACGTGATCAAAGTTATCGGGTAC-GCATAGTAGCCTGCAC
1 TAGTAGCCTGCACTTAGTACTACACACGCGA-CAAA-TTATCCGGTACAG-ATAGTAGCCTGCAC
* ** *
21936419 ATAGTACTACACATGCGACCAATTATTCGGTACACG
63 ATAGTACTACACACGCGACCAACCATTCGATACACG
21936455 TAGTAGCCTGCACTTAGTACTACACAC
1 TAGTAGCCTGCACTTAGTACTACACAC
21936482 ATGACCTCAC
Statistics
Matches: 111, Mismatches: 12, Indels: 7
0.85 0.09 0.05
Matches are distributed among these distances:
99 29 0.26
100 41 0.37
101 41 0.37
ACGTcount: A:0.30, C:0.27, G:0.18, T:0.25
Consensus pattern (98 bp):
TAGTAGCCTGCACTTAGTACTACACACGCGACAAATTATCCGGTACAGATAGTAGCCTGCACATA
GTACTACACACGCGACCAACCATTCGATACACG
Found at i:21936758 original size:27 final size:27
Alignment explanation
Indices: 21936728--21936781 Score: 72
Period size: 27 Copynumber: 2.0 Consensus size: 27
21936718 TTCATACAAC
* *
21936728 CCATGTAATAGTAATTTAACATTCAAT
1 CCATGTAACAATAATTTAACATTCAAT
**
21936755 CCATGTAACAATAATTTGCCATTCAAT
1 CCATGTAACAATAATTTAACATTCAAT
21936782 TTCACATGAC
Statistics
Matches: 23, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
27 23 1.00
ACGTcount: A:0.39, C:0.19, G:0.07, T:0.35
Consensus pattern (27 bp):
CCATGTAACAATAATTTAACATTCAAT
Found at i:21942347 original size:24 final size:24
Alignment explanation
Indices: 21942311--21942356 Score: 56
Period size: 24 Copynumber: 1.9 Consensus size: 24
21942301 ACGAGCACTA
* * * *
21942311 AATCGGTATACTCTTACGAGCTGT
1 AATCAGTAAACTCATACAAGCTGT
21942335 AATCAGTAAACTCATACAAGCT
1 AATCAGTAAACTCATACAAGCT
21942357 TAGTAACGAT
Statistics
Matches: 18, Mismatches: 4, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
24 18 1.00
ACGTcount: A:0.35, C:0.22, G:0.15, T:0.28
Consensus pattern (24 bp):
AATCAGTAAACTCATACAAGCTGT
Found at i:21944893 original size:27 final size:27
Alignment explanation
Indices: 21944855--21945013 Score: 167
Period size: 27 Copynumber: 5.9 Consensus size: 27
21944845 AACATGTCAA
* **
21944855 GAAAGGAAAGCCTTTGTGGAAAAATAT
1 GAAAGGAAAGCCTTTATGGTGAAATAT
*
21944882 GAAATGAAAGCCTTTATGGTGAAATAT
1 GAAAGGAAAGCCTTTATGGTGAAATAT
* *
21944909 GAAAGGAAATCTTTTATGGTGAAATAT
1 GAAAGGAAAGCCTTTATGGTGAAATAT
*
21944936 GAAAGGAAAGCCTTTTATGGAG-AATCAT
1 GAAAGGAAAGCC-TTTATGGTGAAAT-AT
* * * *
21944964 GAAAGAAAAGCCTTTGTGGCGAATTAT
1 GAAAGGAAAGCCTTTATGGTGAAATAT
* * *
21944991 GAAAGGATAGCATTTGTGGTGAA
1 GAAAGGAAAGCCTTTATGGTGAA
21945014 CCCTGCAATG
Statistics
Matches: 111, Mismatches: 18, Indels: 6
0.82 0.13 0.04
Matches are distributed among these distances:
27 88 0.79
28 23 0.21
ACGTcount: A:0.40, C:0.08, G:0.26, T:0.27
Consensus pattern (27 bp):
GAAAGGAAAGCCTTTATGGTGAAATAT
Found at i:21944992 original size:55 final size:54
Alignment explanation
Indices: 21944855--21944997 Score: 171
Period size: 55 Copynumber: 2.6 Consensus size: 54
21944845 AACATGTCAA
* * *
21944855 GAAAGGAAAGCCTTTGTGGAAAAATATGAAATGAAAGCCTTTATGGTGAAATAT
1 GAAAGGAAAGCCTTTGTGGAGAAATATGAAAGGAAAGCCTTTATGGAGAAATAT
* * * *
21944909 GAAAGGAAATCTTTTATGGTGAAATATGAAAGGAAAGCCTTTTATGGAG-AATCAT
1 GAAAGGAAAGCCTTTGTGGAGAAATATGAAAGGAAAGCC-TTTATGGAGAAAT-AT
* * *
21944964 GAAAGAAAAGCCTTTGTGGCGAATTATGAAAGGA
1 GAAAGGAAAGCCTTTGTGGAGAAATATGAAAGGA
21944998 TAGCATTTGT
Statistics
Matches: 74, Mismatches: 13, Indels: 3
0.82 0.14 0.03
Matches are distributed among these distances:
54 36 0.49
55 38 0.51
ACGTcount: A:0.41, C:0.08, G:0.25, T:0.26
Consensus pattern (54 bp):
GAAAGGAAAGCCTTTGTGGAGAAATATGAAAGGAAAGCCTTTATGGAGAAATAT
Found at i:21945011 original size:82 final size:81
Alignment explanation
Indices: 21944855--21945013 Score: 196
Period size: 82 Copynumber: 2.0 Consensus size: 81
21944845 AACATGTCAA
* * *
21944855 GAAAGGAAAGCCTTTGTGGAAAAATATGAAATGAAAGCCTTTATGGTGAAATATGAAAGGAAATC
1 GAAAGGAAAGCCTTTATGGAAAAATATGAAATGAAAGCCTTTATGGCGAAATATGAAAGGAAAGC
*
21944920 TTTTATGGTGAAATAT
66 ATTTATGGTGAAATAT
* * * *
21944936 GAAAGGAAAGCCTTTTATGG-AGAATCATGAAA-GAAAAGCCTTTGTGGCGAATTATGAAAGGAT
1 GAAAGGAAAGCC-TTTATGGAAAAAT-ATGAAATG-AAAGCCTTTATGGCGAAATATGAAAGGAA
*
21944999 AGCATTTGTGGTGAA
63 AGCATTTATGGTGAA
21945014 CCCTGCAATG
Statistics
Matches: 66, Mismatches: 9, Indels: 5
0.82 0.11 0.06
Matches are distributed among these distances:
81 17 0.26
82 49 0.74
ACGTcount: A:0.40, C:0.08, G:0.26, T:0.27
Consensus pattern (81 bp):
GAAAGGAAAGCCTTTATGGAAAAATATGAAATGAAAGCCTTTATGGCGAAATATGAAAGGAAAGC
ATTTATGGTGAAATAT
Found at i:21950387 original size:14 final size:14
Alignment explanation
Indices: 21950368--21950396 Score: 58
Period size: 14 Copynumber: 2.1 Consensus size: 14
21950358 CACTCAAATT
21950368 TGAGATTTAATTTA
1 TGAGATTTAATTTA
21950382 TGAGATTTAATTTA
1 TGAGATTTAATTTA
21950396 T
1 T
21950397 ATACTTTAAT
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 15 1.00
ACGTcount: A:0.34, C:0.00, G:0.14, T:0.52
Consensus pattern (14 bp):
TGAGATTTAATTTA
Found at i:21950419 original size:15 final size:14
Alignment explanation
Indices: 21950372--21950419 Score: 53
Period size: 14 Copynumber: 3.4 Consensus size: 14
21950362 CAAATTTGAG
*
21950372 ATTTAATTTATGA-G
1 ATTTAATTTAT-ATA
21950386 ATTTAATTTATATA
1 ATTTAATTTATATA
*
21950400 CTTTAATTTGATATA
1 ATTTAATTT-ATATA
21950415 ATTTA
1 ATTTA
21950420 GTACCTTAAC
Statistics
Matches: 29, Mismatches: 3, Indels: 3
0.83 0.09 0.09
Matches are distributed among these distances:
13 1 0.03
14 19 0.66
15 9 0.31
ACGTcount: A:0.38, C:0.02, G:0.06, T:0.54
Consensus pattern (14 bp):
ATTTAATTTATATA
Found at i:21973632 original size:46 final size:46
Alignment explanation
Indices: 21973567--21973699 Score: 221
Period size: 46 Copynumber: 2.9 Consensus size: 46
21973557 TTATCTTTGA
* * *
21973567 CATGATGCCATAGTGTCTTTCAACTATGGTCTTACTCATTTTCTGT
1 CATGTTGCCATGGTATCTTTCAACTATGGTCTTACTCATTTTCTGT
21973613 CATGTTGCCATGGTATCTTTCAACTATGGTCTTACTCATTTTCTGT
1 CATGTTGCCATGGTATCTTTCAACTATGGTCTTACTCATTTTCTGT
* *
21973659 CATGTTGCCATGGTATCTTTCAACCATGGTCTTACACATTT
1 CATGTTGCCATGGTATCTTTCAACTATGGTCTTACTCATTT
21973700 CATTTCAGAG
Statistics
Matches: 82, Mismatches: 5, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
46 82 1.00
ACGTcount: A:0.20, C:0.23, G:0.15, T:0.43
Consensus pattern (46 bp):
CATGTTGCCATGGTATCTTTCAACTATGGTCTTACTCATTTTCTGT
Found at i:21975564 original size:10 final size:11
Alignment explanation
Indices: 21975540--21975597 Score: 55
Period size: 11 Copynumber: 5.2 Consensus size: 11
21975530 CTTTATATAC
21975540 TAATAAAATAA
1 TAATAAAATAA
21975551 TAATAAAA-AA
1 TAATAAAATAA
**
21975561 TAATAAAGTATCT
1 TAATAAA--ATAA
* *
21975574 TATTAAAATAT
1 TAATAAAATAA
21975585 TAATAAAATAA
1 TAATAAAATAA
21975596 TA
1 TA
21975598 TTTATCTAAT
Statistics
Matches: 38, Mismatches: 6, Indels: 6
0.76 0.12 0.12
Matches are distributed among these distances:
10 9 0.24
11 22 0.58
12 1 0.03
13 6 0.16
ACGTcount: A:0.64, C:0.02, G:0.02, T:0.33
Consensus pattern (11 bp):
TAATAAAATAA
Found at i:21976182 original size:48 final size:48
Alignment explanation
Indices: 21976139--21976458 Score: 507
Period size: 48 Copynumber: 6.6 Consensus size: 48
21976129 TCATATCGGT
* *
21976139 GCCGATGCCATGTCCCAGACATGGTCTTACACTAGCACACATATCATC
1 GCCGATGCCATGTCCCAGACATGGTCTTACACTGGCACACATATCAAC
*
21976187 GCCGATGTCATGTCCCA-ATCATGGTCTTACACTGGCACACATATCAAC
1 GCCGATGCCATGTCCCAGA-CATGGTCTTACACTGGCACACATATCAAC
* *
21976235 GCCGATGCTATGTCCCAAACATGGTCTTACACTGGCACACATATCAAC
1 GCCGATGCCATGTCCCAGACATGGTCTTACACTGGCACACATATCAAC
21976283 GCCGATGCCATGTCCCAGACATGGTCTTACACTGGCACACATATCAAC
1 GCCGATGCCATGTCCCAGACATGGTCTTACACTGGCACACATATCAAC
21976331 GCCGATGCCATGTCCCAGACATGGTCTTACACTGGCACACATATCAAC
1 GCCGATGCCATGTCCCAGACATGGTCTTACACTGGCACACATATCAAC
* * ** * * *
21976379 GCCGATGCCATGTCCCAGACATGGTCTTACACTGTCTCTTATCTCGGAT
1 GCCGATGCCATGTCCCAGACATGGTCTTACACTGGCACACATATC-AAC
21976428 GCCGATGCCATGTCCCAGACATGGTCTTACA
1 GCCGATGCCATGTCCCAGACATGGTCTTACA
21976459 TAGGATCTCA
Statistics
Matches: 255, Mismatches: 14, Indels: 5
0.93 0.05 0.02
Matches are distributed among these distances:
47 1 0.00
48 221 0.87
49 33 0.13
ACGTcount: A:0.26, C:0.32, G:0.18, T:0.24
Consensus pattern (48 bp):
GCCGATGCCATGTCCCAGACATGGTCTTACACTGGCACACATATCAAC
Found at i:21979248 original size:28 final size:28
Alignment explanation
Indices: 21979212--21979265 Score: 90
Period size: 28 Copynumber: 1.9 Consensus size: 28
21979202 CTTGATTTTA
21979212 TCTTATATTGAAGTGGTTCATTGATTCC
1 TCTTATATTGAAGTGGTTCATTGATTCC
* *
21979240 TCTTCTATTGAAGTGGTTCCTTGATT
1 TCTTATATTGAAGTGGTTCATTGATT
21979266 TTCGCTTCCC
Statistics
Matches: 24, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
28 24 1.00
ACGTcount: A:0.19, C:0.15, G:0.19, T:0.48
Consensus pattern (28 bp):
TCTTATATTGAAGTGGTTCATTGATTCC
Found at i:21982457 original size:50 final size:50
Alignment explanation
Indices: 21982379--21982477 Score: 180
Period size: 50 Copynumber: 2.0 Consensus size: 50
21982369 GGACTGTATG
*
21982379 AATGTATTTGAATAGTTTTTTATTTGAATGATAATTGATTTTGAAAGGTT
1 AATGTATTTGAATAGTTTTTTATATGAATGATAATTGATTTTGAAAGGTT
*
21982429 AATGTATTTGAATAGTTTTTTATATGAATGATAATTGGTTTTGAAAGGT
1 AATGTATTTGAATAGTTTTTTATATGAATGATAATTGATTTTGAAAGGT
21982478 ATGGTTGTTT
Statistics
Matches: 47, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
50 47 1.00
ACGTcount: A:0.32, C:0.00, G:0.19, T:0.48
Consensus pattern (50 bp):
AATGTATTTGAATAGTTTTTTATATGAATGATAATTGATTTTGAAAGGTT
Found at i:21984975 original size:49 final size:47
Alignment explanation
Indices: 21984906--21985226 Score: 281
Period size: 49 Copynumber: 6.6 Consensus size: 47
21984896 TGTTATGTGT
* * *
21984906 TAGTGTAAGACCTATCTGGGACATGGCATCTACACCGATAGATGAGAG
1 TAGTGTAAGACCTGTCTGGGACATGGCATCGAC-CCGATAGATGAAAG
* * * *
21984954 CTAGTGTAAGACCTGTTTGGGACATGGCATCGGACTCGTTATATGAAAG
1 -TAGTGTAAGACCTGTCTGGGACATGGCATC-GACCCGATAGATGAAAG
* *
21985003 TCAGTGTAAGACCT-TCTGGGACATGGCATCGACACTGATAGATGAGAG
1 T-AGTGTAAGACCTGTCTGGGACATGGCATCGAC-CCGATAGATGAAAG
* * * * *
21985051 CCAGTGTAAGACCTGTTTGGGACATGGCATCGGCCTCGTTATATGAAAG
1 -TAGTGTAAGACCTGTCTGGGACATGGCATCGACC-CGATAGATGAAAG
* *
21985100 TCAGTGTAAGACCTGTCTGGGACATGGCATCGGCCTC-ATTATATGAAAG
1 T-AGTGTAAGACCTGTCTGGGACATGGCATCGACC-CGA-TAGATGAAAG
* * * ** **
21985149 TTGGTGTAAAACCTGTCTAGGACATGGCATCGACTTGAT--ATGTTAG
1 -TAGTGTAAGACCTGTCTGGGACATGGCATCGACCCGATAGATGAAAG
*
21985195 TTAGTGTAACACCATGTCTGGGACATGGCATC
1 -TAGTGTAAGACC-TGTCTGGGACATGGCATC
21985227 AGCGTCTTAT
Statistics
Matches: 227, Mismatches: 34, Indels: 24
0.80 0.12 0.08
Matches are distributed among these distances:
46 16 0.07
47 20 0.09
48 39 0.17
49 149 0.66
50 3 0.01
ACGTcount: A:0.27, C:0.19, G:0.27, T:0.27
Consensus pattern (47 bp):
TAGTGTAAGACCTGTCTGGGACATGGCATCGACCCGATAGATGAAAG
Found at i:21985047 original size:97 final size:98
Alignment explanation
Indices: 21984907--21985226 Score: 416
Period size: 97 Copynumber: 3.3 Consensus size: 98
21984897 GTTATGTGTT
* * *
21984907 AGTGTAAGACCTATCTGGGACATGGCATCTACACCGATAGATGAGAGCTAGTGTAAGACCTGTTT
1 AGTGTAAGACCTGTCTGGGACATGGCATCGACACTGATAGATGAGAGCTAGTGTAAGACCTGTTT
21984972 GGGACATGGCATCGGACTCGTTATATGAAAGTC
66 GGGACATGGCATCGGACTCGTTATATGAAAGTC
*
21985005 AGTGTAAGACCT-TCTGGGACATGGCATCGACACTGATAGATGAGAGCCAGTGTAAGACCTGTTT
1 AGTGTAAGACCTGTCTGGGACATGGCATCGACACTGATAGATGAGAGCTAGTGTAAGACCTGTTT
*
21985069 GGGACATGGCATCGGCCTCGTTATATGAAAGTC
66 GGGACATGGCATCGGACTCGTTATATGAAAGTC
* * * * * * * *
21985102 AGTGTAAGACCTGTCTGGGACATGGCATCGGC-CTCATTATATGAAAGTTGGTGTAAAACCTGTC
1 AGTGTAAGACCTGTCTGGGACATGGCATCGACACTGA-TAGATGAGAGCTAGTGTAAGACCTGTT
* * ** *
21985166 TAGGACATGGCATC-GACT--TGATATGTTAGTT
65 TGGGACATGGCATCGGACTCGTTATATGAAAGTC
*
21985197 AGTGTAACACCATGTCTGGGACATGGCATC
1 AGTGTAAGACC-TGTCTGGGACATGGCATC
21985227 AGCGTCTTAT
Statistics
Matches: 199, Mismatches: 20, Indels: 8
0.88 0.09 0.04
Matches are distributed among these distances:
95 19 0.10
96 18 0.09
97 99 0.50
98 63 0.32
ACGTcount: A:0.27, C:0.19, G:0.28, T:0.27
Consensus pattern (98 bp):
AGTGTAAGACCTGTCTGGGACATGGCATCGACACTGATAGATGAGAGCTAGTGTAAGACCTGTTT
GGGACATGGCATCGGACTCGTTATATGAAAGTC
Found at i:21985106 original size:146 final size:147
Alignment explanation
Indices: 21984907--21985182 Score: 387
Period size: 146 Copynumber: 1.9 Consensus size: 147
21984897 GTTATGTGTT
* * *
21984907 AGTGTAAGACCTATCTGGGACATGGCATCTACACCGATAGATGAGAGCTAGTGTAAGACCTGTTT
1 AGTGTAAGACCTATCTGGGACATGGCATCGACACCGATAGATGAAAGCTAGTGTAAGACCTGTCT
* * *
21984972 GGGACATGGCATCGGACTCGTTATATGAAAGTCAGTGTAAGACCT-TCTGGGACATGGCATCGAC
66 GGGACATGGCATCGGACTCATTATATGAAAGTCAGTGTAAAACCTGTCTAGGACATGGCATCGAC
21985036 ACTGATAGATGAGAGCC
131 ACTGATAGATGAGAGCC
* * * * *
21985053 AGTGTAAGACCTGTTTGGGACATGGCATCGGC-CTCGTTATATGAAAG-TCAGTGTAAGACCTGT
1 AGTGTAAGACCTATCTGGGACATGGCATCGACAC-CGATAGATGAAAGCT-AGTGTAAGACCTGT
* **
21985116 CTGGGACATGGCATCGGCCTCATTATATGAAAGTTGGTGTAAAACCTGTCTAGGACATGGCATCG
64 CTGGGACATGGCATCGGACTCATTATATGAAAGTCAGTGTAAAACCTGTCTAGGACATGGCATCG
21985181 AC
129 AC
21985183 TTGATATGTT
Statistics
Matches: 113, Mismatches: 14, Indels: 5
0.86 0.11 0.04
Matches are distributed among these distances:
145 2 0.02
146 93 0.82
147 18 0.16
ACGTcount: A:0.28, C:0.19, G:0.28, T:0.25
Consensus pattern (147 bp):
AGTGTAAGACCTATCTGGGACATGGCATCGACACCGATAGATGAAAGCTAGTGTAAGACCTGTCT
GGGACATGGCATCGGACTCATTATATGAAAGTCAGTGTAAAACCTGTCTAGGACATGGCATCGAC
ACTGATAGATGAGAGCC
Found at i:21992582 original size:27 final size:27
Alignment explanation
Indices: 21992551--21992891 Score: 421
Period size: 27 Copynumber: 12.6 Consensus size: 27
21992541 TTAGTTTACC
**
21992551 AAATTACCAAAATACCCCTAATTTGTA
1 AAATTACCAAAATACCCCTGGTTTGTA
* * * *
21992578 AAATTACTAAAATACCCTTAGTTTATA
1 AAATTACCAAAATACCCCTGGTTTGTA
* *
21992605 AAATCACCAAAATACCCCTGGTTTTTA
1 AAATTACCAAAATACCCCTGGTTTGTA
* * *
21992632 AAATTACTAAAATACCCTTGGTTTATA
1 AAATTACCAAAATACCCCTGGTTTGTA
* * *
21992659 AAATCACCAAAATACACCTAGTTTGTA
1 AAATTACCAAAATACCCCTGGTTTGTA
* * **
21992686 AAATTACCAAAATACCCTTGATTTACA
1 AAATTACCAAAATACCCCTGGTTTGTA
21992713 AAATTACCAAAATACCCCTGGTTTGTA
1 AAATTACCAAAATACCCCTGGTTTGTA
* * *
21992740 AAATTACTAAAATACCCTTGGTTTATA
1 AAATTACCAAAATACCCCTGGTTTGTA
* *
21992767 AAATTACCAAAATACCCTTAGTTTGTA
1 AAATTACCAAAATACCCCTGGTTTGTA
21992794 AAATTACCAAAATACCCCTGGTTTGTA
1 AAATTACCAAAATACCCCTGGTTTGTA
* * *
21992821 AAATTATCAAAATACCTCTAGTTTGTA
1 AAATTACCAAAATACCCCTGGTTTGTA
* *
21992848 AAATTACCAAAATACCCCTGATTTGTG
1 AAATTACCAAAATACCCCTGGTTTGTA
*
21992875 AAATTACTAAAATACCC
1 AAATTACCAAAATACCC
21992892 TCGACCTGTA
Statistics
Matches: 267, Mismatches: 47, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
27 267 1.00
ACGTcount: A:0.41, C:0.20, G:0.07, T:0.32
Consensus pattern (27 bp):
AAATTACCAAAATACCCCTGGTTTGTA
Found at i:21992616 original size:54 final size:54
Alignment explanation
Indices: 21992551--21992891 Score: 475
Period size: 54 Copynumber: 6.3 Consensus size: 54
21992541 TTAGTTTACC
* * *
21992551 AAATTACCAAAATACCCCTAATTTGTAAAATTACTAAAATACCCTTAGTTTATA
1 AAATTACCAAAATACCCCTAGTTTGTAAAATTACCAAAATACCCTTGGTTTATA
* * * *
21992605 AAATCACCAAAATACCCCTGGTTTTTAAAATTACTAAAATACCCTTGGTTTATA
1 AAATTACCAAAATACCCCTAGTTTGTAAAATTACCAAAATACCCTTGGTTTATA
* * * *
21992659 AAATCACCAAAATACACCTAGTTTGTAAAATTACCAAAATACCCTTGATTTACA
1 AAATTACCAAAATACCCCTAGTTTGTAAAATTACCAAAATACCCTTGGTTTATA
* *
21992713 AAATTACCAAAATACCCCTGGTTTGTAAAATTACTAAAATACCCTTGGTTTATA
1 AAATTACCAAAATACCCCTAGTTTGTAAAATTACCAAAATACCCTTGGTTTATA
* * *
21992767 AAATTACCAAAATACCCTTAGTTTGTAAAATTACCAAAATACCCCTGGTTTGTA
1 AAATTACCAAAATACCCCTAGTTTGTAAAATTACCAAAATACCCTTGGTTTATA
* * * * * *
21992821 AAATTATCAAAATACCTCTAGTTTGTAAAATTACCAAAATACCCCTGATTTGTG
1 AAATTACCAAAATACCCCTAGTTTGTAAAATTACCAAAATACCCTTGGTTTATA
*
21992875 AAATTACTAAAATACCC
1 AAATTACCAAAATACCC
21992892 TCGACCTGTA
Statistics
Matches: 257, Mismatches: 30, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
54 257 1.00
ACGTcount: A:0.41, C:0.20, G:0.07, T:0.32
Consensus pattern (54 bp):
AAATTACCAAAATACCCCTAGTTTGTAAAATTACCAAAATACCCTTGGTTTATA
Found at i:21992733 original size:108 final size:107
Alignment explanation
Indices: 21992551--21992945 Score: 486
Period size: 108 Copynumber: 3.7 Consensus size: 107
21992541 TTAGTTTACC
* * *
21992551 AAATTACCAAAATACCCCTAATTTGTAAAATTACTAAAATACCCTT-AGTTTATAAAATCACCAA
1 AAATTACCAAAATA-CCCTAGTTTGTAAAATTACCAAAATACCCTTGA-TTTATAAAATTACCAA
*
21992615 AATACCCCTGGTTTTTAAAATTACTAAAATACCCTTGGTTTATA
64 AATACCCCTGGTTTGTAAAATTACTAAAATACCCTTGGTTTATA
* *
21992659 AAATCACCAAAATACACCTAGTTTGTAAAATTACCAAAATACCCTTGATTTACAAAATTACCAAA
1 AAATTACCAAAATAC-CCTAGTTTGTAAAATTACCAAAATACCCTTGATTTATAAAATTACCAAA
21992724 ATACCCCTGGTTTGTAAAATTACTAAAATACCCTTGGTTTATA
65 ATACCCCTGGTTTGTAAAATTACTAAAATACCCTTGGTTTATA
* * * *
21992767 AAATTACCAAAATACCCTTAGTTTGTAAAATTACCAAAATACCCCTGGTTTGTAAAATTATCAAA
1 AAATTACCAAAATACCC-TAGTTTGTAAAATTACCAAAATACCCTTGATTTATAAAATTACCAAA
* * * * * * *
21992832 ATACCTCTAGTTTGTAAAATTACCAAAATACCCCTGATTTGTG
65 ATACCCCTGGTTTGTAAAATTACTAAAATACCCTTGGTTTATA
* * ** *** * * *
21992875 AAATTACTAAAATACCCTCGACCTGTAAAATTATTGAAATACCCTCGACTTGTAAAATTACCAAA
1 AAATTACCAAAATACCCTAG-TTTGTAAAATTACCAAAATACCCTTGATTTATAAAATTACCAAA
*
21992940 GTACCC
65 ATACCC
21992946 TTGATTTACA
Statistics
Matches: 250, Mismatches: 33, Indels: 8
0.86 0.11 0.03
Matches are distributed among these distances:
107 5 0.02
108 244 0.98
109 1 0.00
ACGTcount: A:0.41, C:0.21, G:0.08, T:0.31
Consensus pattern (107 bp):
AAATTACCAAAATACCCTAGTTTGTAAAATTACCAAAATACCCTTGATTTATAAAATTACCAAAA
TACCCCTGGTTTGTAAAATTACTAAAATACCCTTGGTTTATA
Found at i:21992902 original size:54 final size:55
Alignment explanation
Indices: 21992551--21992946 Score: 384
Period size: 54 Copynumber: 7.3 Consensus size: 55
21992541 TTAGTTTACC
* * * *
21992551 AAATTACCAAAATACCC-CTAATTTGTAAAATTACTAAAATA-CCCTTAGTTTATA
1 AAATTACCAAAATACCCTCGAGTTTGTAAAATTACCAAAATACCCCTGA-TTTATA
* * * * *
21992605 AAATCACCAAAATACCC-CTG-GTTTTTAAAATTACTAAAATACCCTTGGTTTATA
1 AAATTACCAAAATACCCTC-GAGTTTGTAAAATTACCAAAATACCCCTGATTTATA
* * *
21992659 AAATCACCAAAATACACCT--AGTTTGTAAAATTACCAAAATACCCTTGATTTACA
1 AAATTACCAAAATAC-CCTCGAGTTTGTAAAATTACCAAAATACCCCTGATTTATA
* * *
21992713 AAATTACCAAAATACCC-CTG-GTTTGTAAAATTACTAAAATACCCTTGGTTTATA
1 AAATTACCAAAATACCCTC-GAGTTTGTAAAATTACCAAAATACCCCTGATTTATA
* * *
21992767 AAATTACCAAAATACCCT-TAGTTTGTAAAATTACCAAAATACCCCTGGTTTGTA
1 AAATTACCAAAATACCCTCGAGTTTGTAAAATTACCAAAATACCCCTGATTTATA
* * * *
21992821 AAATTATCAAAATA-CCTCTAGTTTGTAAAATTACCAAAATACCCCTGATTTGTG
1 AAATTACCAAAATACCCTCGAGTTTGTAAAATTACCAAAATACCCCTGATTTATA
* ** *** * *
21992875 AAATTACTAAAATACCCTCGA-CCTGTAAAATTATTGAAATA-CCCTCGACTTGTA
1 AAATTACCAAAATACCCTCGAGTTTGTAAAATTACCAAAATACCCCT-GATTTATA
*
21992929 AAATTACCAAAGTACCCT
1 AAATTACCAAAATACCCT
21992947 TGATTTACAG
Statistics
Matches: 295, Mismatches: 34, Indels: 26
0.83 0.10 0.07
Matches are distributed among these distances:
53 9 0.03
54 276 0.94
55 10 0.03
ACGTcount: A:0.41, C:0.20, G:0.08, T:0.31
Consensus pattern (55 bp):
AAATTACCAAAATACCCTCGAGTTTGTAAAATTACCAAAATACCCCTGATTTATA
Found at i:21992902 original size:81 final size:79
Alignment explanation
Indices: 21992551--21992952 Score: 439
Period size: 81 Copynumber: 5.0 Consensus size: 79
21992541 TTAGTTTACC
** * *
21992551 AAATTACCAAAATACCCCTAATTTGTAAAATTACTAAAATACCCTTAGTTTATAAAATCACCAAA
1 AAATTACCAAAATACCCCTGGTTTGTAAAATTAC-AAAATACCC-TAGTTTGTAAAATTACCAAA
* *
21992616 ATACCCCTGGTTTTTA
64 ATACCCCTGATTTGTA
* * * *
21992632 AAATTACTAAAATACCCTTGGTTTATAAAATCACCAAAATACACCTAGTTTGTAAAATTACCAAA
1 AAATTACCAAAATACCCCTGGTTTGTAAAATTA-CAAAATAC-CCTAGTTTGTAAAATTACCAAA
* **
21992697 ATACCCTTGATTTACA
64 ATACCCCTGATTTGTA
* *
21992713 AAATTACCAAAATACCCCTGGTTTGTAAAATTACTAAAATACCCTTGGTTTATAAAATTACCAAA
1 AAATTACCAAAATACCCCTGGTTTGTAAAATTAC-AAAATACCC-TAGTTTGTAAAATTACCAAA
*
21992778 ATA-CCCTTAGTTTGTA
64 ATACCCCTGA-TTTGTA
21992794 AAATTACCAAAATACCCCTGGTTTGTAAAATTATCAAAATACCTCTAGTTTGTAAAATTACCAAA
1 AAATTACCAAAATACCCCTGGTTTGTAAAATTA-CAAAATACC-CTAGTTTGTAAAATTACCAAA
*
21992859 ATACCCCTGATTTGTG
64 ATACCCCTGATTTGTA
* *** ** * *
21992875 AAATTACTAAAATA-CCCTCGACCTGTAAAATTATTGAAATACCCTCGACTTGTAAAATTACCAA
1 AAATTACCAAAATACCCCT-GGTTTGTAAAATTA-CAAAATACCCTAG-TTTGTAAAATTACCAA
* *
21992939 AGTACCCTTGATTT
63 AATACCCCTGATTT
21992953 ACAGAATTAT
Statistics
Matches: 275, Mismatches: 36, Indels: 20
0.83 0.11 0.06
Matches are distributed among these distances:
80 14 0.05
81 251 0.91
82 10 0.04
ACGTcount: A:0.40, C:0.20, G:0.08, T:0.32
Consensus pattern (79 bp):
AAATTACCAAAATACCCCTGGTTTGTAAAATTACAAAATACCCTAGTTTGTAAAATTACCAAAAT
ACCCCTGATTTGTA
Found at i:21992905 original size:27 final size:27
Alignment explanation
Indices: 21992551--21992952 Score: 345
Period size: 27 Copynumber: 14.9 Consensus size: 27
21992541 TTAGTTTACC
*
21992551 AAATTACCAAAATACCC-CTAATTTGTA
1 AAATTACCAAAATACCCTC-GATTTGTA
* * *
21992578 AAATTACTAAAATACCCT-TAGTTTATA
1 AAATTACCAAAATACCCTCGA-TTTGTA
* * *
21992605 AAATCACCAAAATACCC-CTGGTTTTTA
1 AAATTACCAAAATACCCTC-GATTTGTA
* * * *
21992632 AAATTACTAAAATACCCTTGGTTTATA
1 AAATTACCAAAATACCCTCGATTTGTA
* *
21992659 AAATCACCAAAATACACCTAG-TTTGTA
1 AAATTACCAAAATAC-CCTCGATTTGTA
* **
21992686 AAATTACCAAAATACCCTTGATTTACA
1 AAATTACCAAAATACCCTCGATTTGTA
*
21992713 AAATTACCAAAATACCC-CTGGTTTGTA
1 AAATTACCAAAATACCCTC-GATTTGTA
* * * *
21992740 AAATTACTAAAATACCCTTGGTTTATA
1 AAATTACCAAAATACCCTCGATTTGTA
*
21992767 AAATTACCAAAATACCCT-TAGTTTGTA
1 AAATTACCAAAATACCCTCGA-TTTGTA
*
21992794 AAATTACCAAAATACCC-CTGGTTTGTA
1 AAATTACCAAAATACCCTC-GATTTGTA
* *
21992821 AAATTATCAAAATA-CCTCTAGTTTGTA
1 AAATTACCAAAATACCCTCGA-TTTGTA
*
21992848 AAATTACCAAAATACCC-CTGATTTGTG
1 AAATTACCAAAATACCCTC-GATTTGTA
* **
21992875 AAATTACTAAAATACCCTCGACCTGTA
1 AAATTACCAAAATACCCTCGATTTGTA
*** *
21992902 AAATTATTGAAATACCCTCGACTTGTA
1 AAATTACCAAAATACCCTCGATTTGTA
* *
21992929 AAATTACCAAAGTACCCTTGATTT
1 AAATTACCAAAATACCCTCGATTT
21992953 ACAGAATTAT
Statistics
Matches: 306, Mismatches: 52, Indels: 34
0.78 0.13 0.09
Matches are distributed among these distances:
26 7 0.02
27 291 0.95
28 8 0.03
ACGTcount: A:0.40, C:0.20, G:0.08, T:0.32
Consensus pattern (27 bp):
AAATTACCAAAATACCCTCGATTTGTA
Found at i:21992960 original size:27 final size:26
Alignment explanation
Indices: 21992545--21993002 Score: 177
Period size: 27 Copynumber: 17.0 Consensus size: 26
21992535 AATACTTTAG
* * *
21992545 TTTACCAAATTACCAAAATACCCCTAA
1 TTTACAAAATTACC-AAATACCCTTGA
** *
21992572 TTTGTAAAATTACTAAAATACCCTT-A
1 TTTACAAAATTAC-CAAATACCCTTGA
* * * *
21992598 GTTTATAAAATCACCAAAATACCCCTGG
1 -TTTACAAAATTACC-AAATACCCTTGA
** * *
21992626 TTTTTAAAATTACTAAAATACCCTTGG
1 TTTACAAAATTAC-CAAATACCCTTGA
* * *
21992653 TTTATAAAATCACCAAAATACACCTAG-
1 TTTACAAAATTACC-AAATAC-CCTTGA
**
21992680 TTTGTAAAATTACCAAAATACCCTTGA
1 TTTACAAAATTACC-AAATACCCTTGA
* *
21992707 TTTACAAAATTACCAAAATACCCCTGG
1 TTTACAAAATTACC-AAATACCCTTGA
** * *
21992734 TTTGTAAAATTACTAAAATACCCTTGG
1 TTTACAAAATTAC-CAAATACCCTTGA
*
21992761 TTTATAAAATTACCAAAATACCCTT-A
1 TTTACAAAATTACC-AAATACCCTTGA
** * *
21992787 GTTTGTAAAATTACCAAAATACCCCTGG
1 -TTTACAAAATTACC-AAATACCCTTGA
** * *
21992815 TTTGTAAAATTATCAAAATACCTCTAG-
1 TTTACAAAATTA-CCAAATACC-CTTGA
** *
21992842 TTTGTAAAATTACCAAAATACCCCTGA
1 TTTACAAAATTACC-AAATACCCTTGA
*** * *
21992869 TTTGTGAAATTACTAAAATACCCTCGA
1 TTTACAAAATTAC-CAAATACCCTTGA
** ** ** *
21992896 CCTGTAAAATTATTGAAATACCCTCGA
1 TTTACAAAATTA-CCAAATACCCTTGA
* **
21992923 CTTGTAAAATTACCAAAGTACCCTTGA
1 TTTACAAAATTACCAAA-TACCCTTGA
* **** *
21992950 TTTACAGAATTATCGTTTTACCCTCGA
1 TTTACAAAATTA-CCAAATACCCTTGA
21992977 TTTACAAAATTACCGAAATACCCTTG
1 TTTACAAAATTACC-AAATACCCTTG
21993003 GAGGGTAGAA
Statistics
Matches: 341, Mismatches: 69, Indels: 42
0.75 0.15 0.09
Matches are distributed among these distances:
26 12 0.04
27 321 0.94
28 8 0.02
ACGTcount: A:0.39, C:0.21, G:0.08, T:0.32
Consensus pattern (26 bp):
TTTACAAAATTACCAAATACCCTTGA
Found at i:21993019 original size:27 final size:27
Alignment explanation
Indices: 21992987--21993229 Score: 285
Period size: 27 Copynumber: 9.0 Consensus size: 27
21992977 TTTACAAAAT
*
21992987 TACCGAAATACCCTTGGAGGGTAGAAA
1 TACCGAAATACCCTTGTAGGGTAGAAA
*
21993014 TGCCGAAATACCCTTGTAGGGTAGAAA
1 TACCGAAATACCCTTGTAGGGTAGAAA
*
21993041 TACCAAAATACCCTTGTAGGGTAGAAA
1 TACCGAAATACCCTTGTAGGGTAGAAA
* * * *
21993068 TACCAAAATACCCCTATAGGGTAGAAT
1 TACCGAAATACCCTTGTAGGGTAGAAA
** * *
21993095 TACTAAAATACCCCTGTAGGGTAGAAT
1 TACCGAAATACCCTTGTAGGGTAGAAA
*
21993122 TATCGAAATACCCTTGTAGGGTAGAAA
1 TACCGAAATACCCTTGTAGGGTAGAAA
*
21993149 TACCGAAATA-CCTCTGTAGGGTAGAAT
1 TACCGAAATACCCT-TGTAGGGTAGAAA
* * *
21993176 TACTGAAATACTCC-TGTAAGGTAGAAT
1 TACCGAAATAC-CCTTGTAGGGTAGAAA
* *
21993203 TACCGAGATACCCTTGTGGGGTA-AAA
1 TACCGAAATACCCTTGTAGGGTAGAAA
21993229 T
1 T
21993230 TACCATTTTA
Statistics
Matches: 189, Mismatches: 23, Indels: 9
0.86 0.10 0.04
Matches are distributed among these distances:
26 8 0.04
27 179 0.95
29 2 0.01
ACGTcount: A:0.36, C:0.18, G:0.21, T:0.24
Consensus pattern (27 bp):
TACCGAAATACCCTTGTAGGGTAGAAA
Done.