Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Gbar_A05
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: 102776486
ACGTcount: A:0.32, C:0.17, G:0.17, T:0.32
Warning! 2328156 characters in sequence are not A, C, G, or T
File 167 of 325
Found at i:52861445 original size:21 final size:21
Alignment explanation
Indices: 52861388--52861455 Score: 61
Period size: 21 Copynumber: 3.2 Consensus size: 21
52861378 CTCTTGCCTC
* *
52861388 TCTTTTCTTTT-TATTTCATTT
1 TCTTTTCTTTTCT-TTGCTTTT
*
52861409 TCTTTT-TCTTCTTTTGCTTTT
1 TCTTTTCTTTTC-TTTGCTTTT
52861430 TCTTTTCTTTTCTTTG-TTTT
1 TCTTTTCTTTTCTTTGCTTTT
52861450 CTCTTT
1 -TCTTT
52861456 ACAAGAATGT
Statistics
Matches: 39, Mismatches: 4, Indels: 8
0.76 0.08 0.16
Matches are distributed among these distances:
20 7 0.18
21 27 0.69
22 5 0.13
ACGTcount: A:0.03, C:0.18, G:0.03, T:0.76
Consensus pattern (21 bp):
TCTTTTCTTTTCTTTGCTTTT
Found at i:52864065 original size:30 final size:30
Alignment explanation
Indices: 52863980--52864076 Score: 97
Period size: 30 Copynumber: 3.2 Consensus size: 30
52863970 TAAACTAAAA
* *
52863980 TGAGCTAAGCTTTAGCTCGTGAGCTAAAGT
1 TGAGCTAAGGTTTAGCTCGTGAGCTGAAGT
* * * * * *
52864010 TGAGCTGAGGCTAAACTCCTAAGCTGAAGT
1 TGAGCTAAGGTTTAGCTCGTGAGCTGAAGT
*
52864040 TGAGCTAAGGTTTAGCTTGTGAGCTGAA-T
1 TGAGCTAAGGTTTAGCTCGTGAGCTGAAGT
52864069 ATGAGCTA
1 -TGAGCTA
52864077 GGAGTGAGCT
Statistics
Matches: 51, Mismatches: 15, Indels: 2
0.75 0.22 0.03
Matches are distributed among these distances:
29 1 0.02
30 50 0.98
ACGTcount: A:0.28, C:0.15, G:0.28, T:0.29
Consensus pattern (30 bp):
TGAGCTAAGGTTTAGCTCGTGAGCTGAAGT
Found at i:52873366 original size:28 final size:27
Alignment explanation
Indices: 52873330--52873416 Score: 68
Period size: 28 Copynumber: 3.0 Consensus size: 27
52873320 AAGTTAACTG
*
52873330 GGCCTTAGCCCATATCAGTATTAATCTA
1 GGCC-TAGCCCATATCAGTATAAATCTA
*
52873358 GGCCATAGCCCCT-TACAGTATCAGAATATACTA
1 GGCC-TAGCCCATAT-CAGTAT---AA-AT-CTA
*
52873391 GGCCTAGCCCATATCAGTATCAATCT
1 GGCCTAGCCCATATCAGTATAAATCT
52873417 GGGCTGTAGC
Statistics
Matches: 47, Mismatches: 5, Indels: 15
0.70 0.07 0.22
Matches are distributed among these distances:
27 3 0.06
28 19 0.40
29 1 0.02
31 1 0.02
32 15 0.32
33 8 0.17
ACGTcount: A:0.30, C:0.28, G:0.15, T:0.28
Consensus pattern (27 bp):
GGCCTAGCCCATATCAGTATAAATCTA
Found at i:52874969 original size:25 final size:22
Alignment explanation
Indices: 52874915--52874969 Score: 56
Period size: 25 Copynumber: 2.3 Consensus size: 22
52874905 TTTCGGCTAG
52874915 AGAAGAAAAGAAGGAGAAAAGA
1 AGAAGAAAAGAAGGAGAAAAGA
* *
52874937 AAATAGAAGAAGAGAGGAGAAGAGA
1 AGA-AGAA-AAGA-AGGAGAAAAGA
52874962 AGGAAGAA
1 A-GAAGAA
52874970 TTCGGCACTC
Statistics
Matches: 26, Mismatches: 3, Indels: 5
0.76 0.09 0.15
Matches are distributed among these distances:
22 2 0.08
23 4 0.15
24 4 0.15
25 15 0.58
26 1 0.04
ACGTcount: A:0.64, C:0.00, G:0.35, T:0.02
Consensus pattern (22 bp):
AGAAGAAAAGAAGGAGAAAAGA
Found at i:52877058 original size:55 final size:53
Alignment explanation
Indices: 52876993--52877124 Score: 147
Period size: 53 Copynumber: 2.5 Consensus size: 53
52876983 GCAAGGAAAT
* * *
52876993 CATGTAAGACCATGTCAAGACATGGCATTGATAAACTACTATAAGGCAAGGATCC
1 CATGTAAGACCATGTCAAGACATGGCAATGAT-AACT-CTATAAGGCAAGCATAC
* * * * * *
52877048 CATGTAAGACCATGCCAAGGCATGGCAATGGTGAGTTTATAAGGCAAGCATAC
1 CATGTAAGACCATGTCAAGACATGGCAATGATAACTCTATAAGGCAAGCATAC
**
52877101 CACATAAGACCATGTCAAGACATG
1 CATGTAAGACCATGTCAAGACATG
52877125 AAAATGGTAA
Statistics
Matches: 64, Mismatches: 13, Indels: 2
0.81 0.16 0.03
Matches are distributed among these distances:
53 34 0.53
54 2 0.03
55 28 0.44
ACGTcount: A:0.37, C:0.20, G:0.22, T:0.20
Consensus pattern (53 bp):
CATGTAAGACCATGTCAAGACATGGCAATGATAACTCTATAAGGCAAGCATAC
Found at i:52877112 original size:53 final size:53
Alignment explanation
Indices: 52877032--52877139 Score: 135
Period size: 53 Copynumber: 2.0 Consensus size: 53
52877022 GATAAACTAC
* * ** * ** *
52877032 TATAAGGCAAGGATCCCATGTAAGACCATGCCAAGGCATGGCAATGGTGAGTT
1 TATAAGGCAAGCATACCACATAAGACCATGCCAAGACATGAAAATGGTAAGTT
*
52877085 TATAAGGCAAGCATACCACATAAGACCATGTCAAGACATGAAAATGGTAAGTT
1 TATAAGGCAAGCATACCACATAAGACCATGCCAAGACATGAAAATGGTAAGTT
52877138 TA
1 TA
52877140 GAAAGGAAAG
Statistics
Matches: 46, Mismatches: 9, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
53 46 1.00
ACGTcount: A:0.38, C:0.18, G:0.23, T:0.21
Consensus pattern (53 bp):
TATAAGGCAAGCATACCACATAAGACCATGCCAAGACATGAAAATGGTAAGTT
Found at i:52884267 original size:12 final size:12
Alignment explanation
Indices: 52884252--52884296 Score: 81
Period size: 12 Copynumber: 3.8 Consensus size: 12
52884242 TTATTTTTTT
52884252 ATTTTTTTTCGA
1 ATTTTTTTTCGA
52884264 ATTTTTTTTCGA
1 ATTTTTTTTCGA
*
52884276 ATTTTTTTTTGA
1 ATTTTTTTTCGA
52884288 ATTTTTTTT
1 ATTTTTTTT
52884297 AACTTGTATA
Statistics
Matches: 32, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
12 32 1.00
ACGTcount: A:0.16, C:0.04, G:0.07, T:0.73
Consensus pattern (12 bp):
ATTTTTTTTCGA
Found at i:52887400 original size:13 final size:12
Alignment explanation
Indices: 52887369--52887423 Score: 51
Period size: 12 Copynumber: 4.6 Consensus size: 12
52887359 TGTGAAACAG
*
52887369 AAAAGAAATTGA
1 AAAAGAAGTTGA
52887381 AAAAGAAGTTGA
1 AAAAGAAGTTGA
*
52887393 AGAAAGAAG-AGA
1 A-AAAGAAGTTGA
*
52887405 AAATG-AGTTAGA
1 AAAAGAAGTT-GA
52887417 AAAAGAA
1 AAAAGAA
52887424 ACAAAAGAAA
Statistics
Matches: 34, Mismatches: 5, Indels: 7
0.74 0.11 0.15
Matches are distributed among these distances:
10 2 0.06
11 3 0.09
12 21 0.62
13 8 0.24
ACGTcount: A:0.64, C:0.00, G:0.24, T:0.13
Consensus pattern (12 bp):
AAAAGAAGTTGA
Found at i:52893082 original size:30 final size:30
Alignment explanation
Indices: 52893048--52893144 Score: 106
Period size: 30 Copynumber: 3.2 Consensus size: 30
52893038 TAAACTAAAA
*
52893048 TGAGCTAAGTTTTAGCTCGTGAGCTAAAGT
1 TGAGCTAAGGTTTAGCTCGTGAGCTAAAGT
* * * * * * *
52893078 TGAGCTGAGGCTAAACTCCTAAGCTGAAGT
1 TGAGCTAAGGTTTAGCTCGTGAGCTAAAGT
52893108 TGAGCTAAGGTTTAGCTCGTGAGCTAAA-T
1 TGAGCTAAGGTTTAGCTCGTGAGCTAAAGT
52893137 ATGAGCTA
1 -TGAGCTA
52893145 GGAGTGAGCT
Statistics
Matches: 51, Mismatches: 15, Indels: 2
0.75 0.22 0.03
Matches are distributed among these distances:
29 1 0.02
30 50 0.98
ACGTcount: A:0.29, C:0.15, G:0.27, T:0.29
Consensus pattern (30 bp):
TGAGCTAAGGTTTAGCTCGTGAGCTAAAGT
Found at i:52895293 original size:12 final size:12
Alignment explanation
Indices: 52895255--52895286 Score: 57
Period size: 12 Copynumber: 2.8 Consensus size: 12
52895245 CACTCTCAAA
52895255 TTTC-TTTTCAT
1 TTTCTTTTTCAT
52895266 TTTCTTTTTCAT
1 TTTCTTTTTCAT
52895278 TTTCTTTTT
1 TTTCTTTTT
52895287 GCTTTTCAAA
Statistics
Matches: 20, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
11 4 0.20
12 16 0.80
ACGTcount: A:0.06, C:0.16, G:0.00, T:0.78
Consensus pattern (12 bp):
TTTCTTTTTCAT
Found at i:52895304 original size:12 final size:12
Alignment explanation
Indices: 52895289--52895319 Score: 62
Period size: 12 Copynumber: 2.6 Consensus size: 12
52895279 TTCTTTTTGC
52895289 TTTTCAAAGGCT
1 TTTTCAAAGGCT
52895301 TTTTCAAAGGCT
1 TTTTCAAAGGCT
52895313 TTTTCAA
1 TTTTCAA
52895320 GTTCTCTCAA
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 19 1.00
ACGTcount: A:0.26, C:0.16, G:0.13, T:0.45
Consensus pattern (12 bp):
TTTTCAAAGGCT
Found at i:52895376 original size:5 final size:5
Alignment explanation
Indices: 52895366--52895438 Score: 53
Period size: 5 Copynumber: 14.0 Consensus size: 5
52895356 CTCTTGCCTC
* *
52895366 TCTTT TCTTT T-TATT TCATTT TCTTT T-TCT TCTCTT GCTTTT TCTTTT
1 TCTTT TCTTT TCT-TT TC-TTT TCTTT TCTTT TCT-TT TC-TTT TC-TTT
52895414 TCTTT TCTTT TCTTT T-TTT CTCTTT
1 TCTTT TCTTT TCTTT TCTTT -TCTTT
52895439 ACAAGAATGT
Statistics
Matches: 56, Mismatches: 4, Indels: 15
0.75 0.05 0.20
Matches are distributed among these distances:
4 7 0.12
5 29 0.52
6 18 0.32
7 2 0.04
ACGTcount: A:0.03, C:0.19, G:0.01, T:0.77
Consensus pattern (5 bp):
TCTTT
Found at i:52895395 original size:6 final size:6
Alignment explanation
Indices: 52895379--52895430 Score: 54
Period size: 6 Copynumber: 8.5 Consensus size: 6
52895369 TTTCTTTTTA
*
52895379 TTTCAT TTTCTT TTTCTT CTCTTGCTT TTTCTT TTTC-T TTTC-T TTTCTT
1 TTTCTT TTTCTT TTTCTT -T-TT-CTT TTTCTT TTTCTT TTTCTT TTTCTT
52895428 TTT
1 TTT
52895431 TTCTCTTTAC
Statistics
Matches: 41, Mismatches: 1, Indels: 8
0.82 0.02 0.16
Matches are distributed among these distances:
5 10 0.24
6 22 0.54
7 3 0.07
8 3 0.07
9 3 0.07
ACGTcount: A:0.02, C:0.19, G:0.02, T:0.77
Consensus pattern (6 bp):
TTTCTT
Found at i:52895425 original size:37 final size:36
Alignment explanation
Indices: 52895368--52895437 Score: 106
Period size: 37 Copynumber: 1.9 Consensus size: 36
52895358 CTTGCCTCTC
52895368 TTTTCTTTTTATTTCATTTTCTTTTTCTTCTCTTGCT
1 TTTTCTTTTTATTTCATTTTCTTTTT-TTCTCTTGCT
*
52895405 TTTTCTTTTTCTTTTC-TTTTCTTTTTTTCTCTT
1 TTTTCTTTTT-ATTTCATTTTCTTTTTTTCTCTT
52895438 TACAAGAATG
Statistics
Matches: 31, Mismatches: 1, Indels: 3
0.89 0.03 0.09
Matches are distributed among these distances:
36 7 0.23
37 20 0.65
38 4 0.13
ACGTcount: A:0.03, C:0.19, G:0.01, T:0.77
Consensus pattern (36 bp):
TTTTCTTTTTATTTCATTTTCTTTTTTTCTCTTGCT
Found at i:52896309 original size:11 final size:11
Alignment explanation
Indices: 52896293--52896333 Score: 55
Period size: 11 Copynumber: 3.6 Consensus size: 11
52896283 TATACTTCGA
52896293 TTTTTTTAATT
1 TTTTTTTAATT
**
52896304 TTTTTTCGATT
1 TTTTTTTAATT
52896315 TTTTTTTAAATT
1 TTTTTTT-AATT
52896327 TTTTTTT
1 TTTTTTT
52896334 TCGAATTTCC
Statistics
Matches: 25, Mismatches: 4, Indels: 1
0.83 0.13 0.03
Matches are distributed among these distances:
11 15 0.60
12 10 0.40
ACGTcount: A:0.15, C:0.02, G:0.02, T:0.80
Consensus pattern (11 bp):
TTTTTTTAATT
Found at i:52896317 original size:12 final size:12
Alignment explanation
Indices: 52896293--52896333 Score: 50
Period size: 12 Copynumber: 3.6 Consensus size: 12
52896283 TATACTTCGA
52896293 TTTTTTT-AA-T
1 TTTTTTTAAATT
**
52896303 TTTTTTTCGATT
1 TTTTTTTAAATT
52896315 TTTTTTTAAATT
1 TTTTTTTAAATT
52896327 TTTTTTT
1 TTTTTTT
52896334 TCGAATTTCC
Statistics
Matches: 26, Mismatches: 3, Indels: 2
0.84 0.10 0.06
Matches are distributed among these distances:
10 7 0.27
11 1 0.04
12 18 0.69
ACGTcount: A:0.15, C:0.02, G:0.02, T:0.80
Consensus pattern (12 bp):
TTTTTTTAAATT
Found at i:52898072 original size:30 final size:30
Alignment explanation
Indices: 52898038--52898134 Score: 115
Period size: 30 Copynumber: 3.2 Consensus size: 30
52898028 TAAACTAAAA
*
52898038 TGAGCTAAGTTTTAGCTCGTGAGCTAAAGT
1 TGAGCTAAGGTTTAGCTCGTGAGCTAAAGT
* * * * * *
52898068 TGAGCTGAGGCTAAACTCCTAAGCTAAAGT
1 TGAGCTAAGGTTTAGCTCGTGAGCTAAAGT
52898098 TGAGCTAAGGTTTAGCTCGTGAGCTAAA-T
1 TGAGCTAAGGTTTAGCTCGTGAGCTAAAGT
52898127 ATGAGCTA
1 -TGAGCTA
52898135 GGAGTGAGCT
Statistics
Matches: 53, Mismatches: 13, Indels: 2
0.78 0.19 0.03
Matches are distributed among these distances:
29 1 0.02
30 52 0.98
ACGTcount: A:0.30, C:0.15, G:0.26, T:0.29
Consensus pattern (30 bp):
TGAGCTAAGGTTTAGCTCGTGAGCTAAAGT
Found at i:52900176 original size:39 final size:39
Alignment explanation
Indices: 52900125--52900319 Score: 241
Period size: 39 Copynumber: 5.0 Consensus size: 39
52900115 TGAGGTCCGC
52900125 AGGC-TTTATGCTGGTATTATATCCGGGCAAAGTCCCGA
1 AGGCATTTATGCTGGTATTATATCCGGGCAAAGTCCCGA
* * *
52900163 AGGCATTTGTGCTGGTGTTATATCCGGGCTAAGTCCCGA
1 AGGCATTTATGCTGGTATTATATCCGGGCAAAGTCCCGA
* * * *
52900202 AGGCATTTGTGCTGGTGTTATATCCAGGCTAAGTCCCGA
1 AGGCATTTATGCTGGTATTATATCCGGGCAAAGTCCCGA
* * *
52900241 AGGCATTTATGCTGGTATTATATCTGGGCTAGAGTCCCGC
1 AGGCATTTATGCTGGTATTATATCCGGGC-AAAGTCCCGA
* *
52900281 AGGC-TTTATGTTGGTATTATATCTGGGCTTAAAGTCCCG
1 AGGCATTTATGCTGGTATTATATCCGGGC--AAAGTCCCG
52900320 CATGCTTTCT
Statistics
Matches: 141, Mismatches: 13, Indels: 4
0.89 0.08 0.03
Matches are distributed among these distances:
38 4 0.03
39 117 0.83
40 20 0.14
ACGTcount: A:0.21, C:0.19, G:0.28, T:0.32
Consensus pattern (39 bp):
AGGCATTTATGCTGGTATTATATCCGGGCAAAGTCCCGA
Found at i:52900472 original size:18 final size:18
Alignment explanation
Indices: 52900449--52900484 Score: 72
Period size: 18 Copynumber: 2.0 Consensus size: 18
52900439 AAGTTGGTCA
52900449 GGTATGTATTATATACTT
1 GGTATGTATTATATACTT
52900467 GGTATGTATTATATACTT
1 GGTATGTATTATATACTT
52900485 TTATATGTTA
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
18 18 1.00
ACGTcount: A:0.28, C:0.06, G:0.17, T:0.50
Consensus pattern (18 bp):
GGTATGTATTATATACTT
Found at i:52906255 original size:39 final size:39
Alignment explanation
Indices: 52906204--52906388 Score: 284
Period size: 39 Copynumber: 4.8 Consensus size: 39
52906194 TGAGGTCCGC
52906204 AGGC-TTTATGCTGGTATTATATCCGGGCTAAGTCCCGA
1 AGGCATTTATGCTGGTATTATATCCGGGCTAAGTCCCGA
* * *
52906242 AGGCATTTGTGCTGGTGTTATATCTGGGCTAAGTCCCGA
1 AGGCATTTATGCTGGTATTATATCCGGGCTAAGTCCCGA
* * *
52906281 AGGCATTTGTGCTGGTGTTATATCCGGGCTAAGTCCCTA
1 AGGCATTTATGCTGGTATTATATCCGGGCTAAGTCCCGA
*
52906320 AGGCATTTATGCTGGTATTATATCCGGGCTAGAGTCCCGC
1 AGGCATTTATGCTGGTATTATATCCGGGCTA-AGTCCCGA
52906360 AGGC-TTTATGCTGGTATTATATCCGGGCT
1 AGGCATTTATGCTGGTATTATATCCGGGCT
52906389 TAAAGTCCTG
Statistics
Matches: 136, Mismatches: 9, Indels: 3
0.92 0.06 0.02
Matches are distributed among these distances:
38 4 0.03
39 122 0.90
40 10 0.07
ACGTcount: A:0.19, C:0.20, G:0.28, T:0.33
Consensus pattern (39 bp):
AGGCATTTATGCTGGTATTATATCCGGGCTAAGTCCCGA
Found at i:52906555 original size:18 final size:18
Alignment explanation
Indices: 52906532--52906566 Score: 70
Period size: 18 Copynumber: 1.9 Consensus size: 18
52906522 AGTTGGTCAA
52906532 GTATGTATTATATACTTG
1 GTATGTATTATATACTTG
52906550 GTATGTATTATATACTT
1 GTATGTATTATATACTT
52906567 TTATATGTTA
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
18 17 1.00
ACGTcount: A:0.29, C:0.06, G:0.14, T:0.51
Consensus pattern (18 bp):
GTATGTATTATATACTTG
Found at i:52909765 original size:29 final size:29
Alignment explanation
Indices: 52909732--52909791 Score: 84
Period size: 29 Copynumber: 2.1 Consensus size: 29
52909722 ATAACCAAAC
* * *
52909732 CTACAAAAACTTTATATCCATAAATCCAT
1 CTACAAAAACATCATATCCATAAACCCAT
*
52909761 CTACATAAACATCATATCCATAAACCCAT
1 CTACAAAAACATCATATCCATAAACCCAT
52909790 CT
1 CT
52909792 TTGAATCCTT
Statistics
Matches: 27, Mismatches: 4, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
29 27 1.00
ACGTcount: A:0.43, C:0.28, G:0.00, T:0.28
Consensus pattern (29 bp):
CTACAAAAACATCATATCCATAAACCCAT
Found at i:52919587 original size:29 final size:28
Alignment explanation
Indices: 52919551--52919628 Score: 104
Period size: 29 Copynumber: 2.7 Consensus size: 28
52919541 TCATGAGATT
52919551 GGCACTAAGTGTGCGGGTTTAAATTGTACA
1 GGCACTAAGTGTGCGGGTTTAAA--GTACA
*
52919581 -GCACTAAGTGTGCGAGTTTAAAGTACA
1 GGCACTAAGTGTGCGGGTTTAAAGTACA
52919608 TGGCACTAAGTGTGCGCGGTT
1 -GGCACTAAGTGTGCG-GGTT
52919629 GATTATTAAG
Statistics
Matches: 43, Mismatches: 2, Indels: 6
0.84 0.04 0.12
Matches are distributed among these distances:
27 5 0.12
29 35 0.81
30 3 0.07
ACGTcount: A:0.26, C:0.15, G:0.31, T:0.28
Consensus pattern (28 bp):
GGCACTAAGTGTGCGGGTTTAAAGTACA
Found at i:52919902 original size:173 final size:174
Alignment explanation
Indices: 52919581--52919907 Score: 566
Period size: 173 Copynumber: 1.9 Consensus size: 174
52919571 AAATTGTACA
* *
52919581 GCACTAAGTGTGCGAGTTTAAAGTACATGGCACTAAGTGTGCGCGGTTGATTATTAAGCACTATG
1 GCACTAAGTGTGCGAGTTTAAAGTACATGGCACTAAGTGTGCGCGGTTGATTACTAAACACTATG
* *
52919646 TGTGCGAACCCAATATATATTTTCTATAAATTATTTACATTAAGGGTGCGACTTTACCGAGTCGA
66 TGTGCGAACCCAATATATATTTTCTATAAATTATTTACATGAAGGGTGCGACTTTACCGAGTCAA
52919711 TTTTGGACAGCGGAAAAGGTAAGTGTGCGAACTTGAAATGCATG
131 TTTTGGACAGCGGAAAAGGTAAGTGTGCGAACTTGAAATGCATG
* * * *
52919755 GCACTAAGTGTGTGAGTTTAAAGTGCATGGCACTAAGTGTGCGTGGTTGATTACTAAACATTATG
1 GCACTAAGTGTGCGAGTTTAAAGTACATGGCACTAAGTGTGCGCGGTTGATTACTAAACACTATG
*
52919820 TGTGC-AACCCAGTATATATTTTCTATAAATTATTTACATGAAGGGTGCGACTTTACCGAGTCAA
66 TGTGCGAACCCAATATATATTTTCTATAAATTATTTACATGAAGGGTGCGACTTTACCGAGTCAA
52919884 TTTTGGACAGCGGAAAAGGTAAGT
131 TTTTGGACAGCGGAAAAGGTAAGT
52919908 ACCTTGAGTT
Statistics
Matches: 144, Mismatches: 9, Indels: 1
0.94 0.06 0.01
Matches are distributed among these distances:
173 80 0.56
174 64 0.44
ACGTcount: A:0.30, C:0.14, G:0.24, T:0.31
Consensus pattern (174 bp):
GCACTAAGTGTGCGAGTTTAAAGTACATGGCACTAAGTGTGCGCGGTTGATTACTAAACACTATG
TGTGCGAACCCAATATATATTTTCTATAAATTATTTACATGAAGGGTGCGACTTTACCGAGTCAA
TTTTGGACAGCGGAAAAGGTAAGTGTGCGAACTTGAAATGCATG
Found at i:52927633 original size:40 final size:39
Alignment explanation
Indices: 52927585--52927769 Score: 198
Period size: 40 Copynumber: 4.7 Consensus size: 39
52927575 GCTACTCGTT
*
52927585 CAAATGCCTTCGGGACATAGCCCGG-TTACAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGATT--AGTAACTCGCA
* *
52927625 CAATTGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGA-TTAGTAACTCGCA
*
52927665 CAAATGCCTTCGGG-CTTAGCCCGGAATTAGTATCTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGG-ATTAGTAACTCGCA
* * ** *
52927704 CAAATGCCTTC-GGATCTTAGTCCGGATATGGTCAGTTAGCA
1 CAAATGCCTTCGGGA-CTTAGCCCGGAT-TAGT-AACTCGCA
52927745 CAAA-GCCTTCGGGACTTAGCCCGGA
1 CAAATGCCTTCGGGACTTAGCCCGGA
52927770 CATCATTCAA
Statistics
Matches: 125, Mismatches: 12, Indels: 16
0.82 0.08 0.10
Matches are distributed among these distances:
38 2 0.02
39 34 0.27
40 75 0.60
41 12 0.10
42 2 0.02
ACGTcount: A:0.25, C:0.28, G:0.23, T:0.24
Consensus pattern (39 bp):
CAAATGCCTTCGGGACTTAGCCCGGATTAGTAACTCGCA
Found at i:52927702 original size:79 final size:81
Alignment explanation
Indices: 52927552--52927769 Score: 211
Period size: 79 Copynumber: 2.8 Consensus size: 81
52927542 AAATCACGTA
* * ** *
52927552 CCTTCGGAAT-TTAA-CCGGATATAG-CTACTCGTTCAAATGCCTTCGGGACATAGCCCGG-TTA
1 CCTTCGG-ATCTTAACCCGGATATAGTCAACTAGCACAAATGCCTTCGGGACTTAGCCCGGATTA
*
52927613 CAGTAACTCGCACAATTG
65 -AGTAACTCGCACAAATG
* *
52927631 CCTTCGGGA-CTTAACCCGGATTTAGT-AACTCGCACAAATGCCTTCGGG-CTTAGCCCGGAATT
1 CCTTC-GGATCTTAACCCGGATATAGTCAACTAGCACAAATGCCTTCGGGACTTAGCCCGG-ATT
*
52927693 -AGTATCTCGCACAAATG
64 AAGTAACTCGCACAAATG
** * **
52927710 CCTTCGGATCTTAGTCCGGATATGGTCAGTTAGCACAAA-GCCTTCGGGACTTAGCCCGGA
1 CCTTCGGATCTTAACCCGGATATAGTCAACTAGCACAAATGCCTTCGGGACTTAGCCCGGA
52927770 CATCATTCAA
Statistics
Matches: 116, Mismatches: 14, Indels: 18
0.78 0.09 0.12
Matches are distributed among these distances:
78 3 0.03
79 62 0.53
80 49 0.42
81 2 0.02
ACGTcount: A:0.25, C:0.27, G:0.22, T:0.26
Consensus pattern (81 bp):
CCTTCGGATCTTAACCCGGATATAGTCAACTAGCACAAATGCCTTCGGGACTTAGCCCGGATTAA
GTAACTCGCACAAATG
Found at i:52934266 original size:16 final size:16
Alignment explanation
Indices: 52934245--52934277 Score: 57
Period size: 16 Copynumber: 2.1 Consensus size: 16
52934235 TCGGCAAATC
*
52934245 CCGAAATGCCGATAAG
1 CCGAAATGCCGAAAAG
52934261 CCGAAATGCCGAAAAG
1 CCGAAATGCCGAAAAG
52934277 C
1 C
52934278 TAAAATTTTG
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
16 16 1.00
ACGTcount: A:0.39, C:0.27, G:0.24, T:0.09
Consensus pattern (16 bp):
CCGAAATGCCGAAAAG
Found at i:52934549 original size:29 final size:29
Alignment explanation
Indices: 52934500--52934580 Score: 110
Period size: 29 Copynumber: 2.8 Consensus size: 29
52934490 GGCTATGTAA
*
52934500 GTGATTTGGGCCTAATAGGCCATACGAAT
1 GTGATTTGGGCCTAATGGGCCATACGAAT
* *
52934529 GTGATTTGGGCCCAATGGGCCATATGAAT
1 GTGATTTGGGCCTAATGGGCCATACGAAT
* *
52934558 GAGA-TTGGGCCTAGTGGGCCATA
1 GTGATTTGGGCCTAATGGGCCATA
52934581 TATATGTATG
Statistics
Matches: 46, Mismatches: 6, Indels: 1
0.87 0.11 0.02
Matches are distributed among these distances:
28 17 0.37
29 29 0.63
ACGTcount: A:0.25, C:0.17, G:0.32, T:0.26
Consensus pattern (29 bp):
GTGATTTGGGCCTAATGGGCCATACGAAT
Found at i:52947800 original size:28 final size:29
Alignment explanation
Indices: 52947725--52947803 Score: 88
Period size: 29 Copynumber: 2.8 Consensus size: 29
52947715 TATGTATGTA
* * * *
52947725 ATTTCGGCCTAATGGGCAATACGAATGTG
1 ATTTGGGCCTAATGGGCCATATGAATGAG
* *
52947754 ATTTGGGCCCAATGTGCCATATGAATGAG
1 ATTTGGGCCTAATGGGCCATATGAATGAG
*
52947783 A-TTGGGCCTAGTGGGCCATAT
1 ATTTGGGCCTAATGGGCCATAT
52947804 ACATGTATGT
Statistics
Matches: 41, Mismatches: 9, Indels: 1
0.80 0.18 0.02
Matches are distributed among these distances:
28 17 0.41
29 24 0.59
ACGTcount: A:0.25, C:0.18, G:0.29, T:0.28
Consensus pattern (29 bp):
ATTTGGGCCTAATGGGCCATATGAATGAG
Found at i:52948949 original size:17 final size:18
Alignment explanation
Indices: 52948914--52948949 Score: 56
Period size: 18 Copynumber: 2.1 Consensus size: 18
52948904 ATTCTAAGGA
52948914 AAGGTTTTCAATGAAAAC
1 AAGGTTTTCAATGAAAAC
*
52948932 AAGGTTTTCGAT-AAAAC
1 AAGGTTTTCAATGAAAAC
52948949 A
1 A
52948950 CTTCAATGTG
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
17 6 0.35
18 11 0.65
ACGTcount: A:0.44, C:0.11, G:0.17, T:0.28
Consensus pattern (18 bp):
AAGGTTTTCAATGAAAAC
Found at i:52949108 original size:30 final size:30
Alignment explanation
Indices: 52949074--52949134 Score: 113
Period size: 30 Copynumber: 2.0 Consensus size: 30
52949064 TCATAGCTTC
52949074 AGTCGAAACACACTCTCGGGCATATCAACT
1 AGTCGAAACACACTCTCGGGCATATCAACT
*
52949104 AGTCGAAACACACTCTCGGGTATATCAACT
1 AGTCGAAACACACTCTCGGGCATATCAACT
52949134 A
1 A
52949135 AGTCTCACAA
Statistics
Matches: 30, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
30 30 1.00
ACGTcount: A:0.34, C:0.28, G:0.16, T:0.21
Consensus pattern (30 bp):
AGTCGAAACACACTCTCGGGCATATCAACT
Found at i:52950122 original size:32 final size:32
Alignment explanation
Indices: 52950072--52950163 Score: 130
Period size: 32 Copynumber: 2.9 Consensus size: 32
52950062 TAACCCATCA
* *
52950072 CAATATCAATTGGGCCTAGCCCATCTCAGAAT
1 CAATATCAATTGGGCCTAGCCCATATCAGAAC
** * *
52950104 CAATATCAGCTGGACCTAGCCCATATTAGAAC
1 CAATATCAATTGGGCCTAGCCCATATCAGAAC
52950136 CAATATCAATTGGGCCTAGCCCATATCA
1 CAATATCAATTGGGCCTAGCCCATATCA
52950164 ATATCAAACC
Statistics
Matches: 50, Mismatches: 10, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
32 50 1.00
ACGTcount: A:0.33, C:0.28, G:0.15, T:0.24
Consensus pattern (32 bp):
CAATATCAATTGGGCCTAGCCCATATCAGAAC
Found at i:52956692 original size:28 final size:28
Alignment explanation
Indices: 52956648--52956746 Score: 144
Period size: 28 Copynumber: 3.5 Consensus size: 28
52956638 CATGACTATA
* * *
52956648 AATGTGATTGGGTCTGACGGACCATATG
1 AATGTGATTGGGCCTGATGGGCCATATG
*
52956676 AAAGTGATTGGGCCTGATGGGCCATATG
1 AATGTGATTGGGCCTGATGGGCCATATG
*
52956704 AATGTGATTGGGCCCGATGGGCCATATG
1 AATGTGATTGGGCCTGATGGGCCATATG
*
52956732 AATGAGATTGGGCCT
1 AATGTGATTGGGCCT
52956747 AAAGGGGCCA
Statistics
Matches: 63, Mismatches: 8, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
28 63 1.00
ACGTcount: A:0.24, C:0.15, G:0.34, T:0.26
Consensus pattern (28 bp):
AATGTGATTGGGCCTGATGGGCCATATG
Found at i:52964601 original size:56 final size:56
Alignment explanation
Indices: 52964541--52964675 Score: 182
Period size: 56 Copynumber: 2.4 Consensus size: 56
52964531 TCCCAGACAG
* *
52964541 GGTCTTACTCGCACACATATATCAGAGTCACATATCGATGCCAACGTATAAAATAT
1 GGTCTTACTCGCACACATATATCAGAGTCACATATCGATACCAACGTATAAAACAT
* * *
52964597 GGTCTTACAT-GCACACATATATCGGAGTCACATATCGATACCAATGTATAAAACGT
1 GGTCTTAC-TCGCACACATATATCAGAGTCACATATCGATACCAACGTATAAAACAT
* **
52964653 GGTCCTACTCATACACATATATC
1 GGTCTTACTCGCACACATATATC
52964676 GATGACATGG
Statistics
Matches: 69, Mismatches: 8, Indels: 4
0.85 0.10 0.05
Matches are distributed among these distances:
55 1 0.01
56 67 0.97
57 1 0.01
ACGTcount: A:0.35, C:0.24, G:0.14, T:0.27
Consensus pattern (56 bp):
GGTCTTACTCGCACACATATATCAGAGTCACATATCGATACCAACGTATAAAACAT
Found at i:52966039 original size:10 final size:10
Alignment explanation
Indices: 52966026--52966051 Score: 52
Period size: 10 Copynumber: 2.6 Consensus size: 10
52966016 AGCTTAGTTC
52966026 AGCTCAATTA
1 AGCTCAATTA
52966036 AGCTCAATTA
1 AGCTCAATTA
52966046 AGCTCA
1 AGCTCA
52966052 TCTCTACTTC
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
10 16 1.00
ACGTcount: A:0.38, C:0.23, G:0.12, T:0.27
Consensus pattern (10 bp):
AGCTCAATTA
Found at i:52968742 original size:15 final size:16
Alignment explanation
Indices: 52968712--52968743 Score: 57
Period size: 16 Copynumber: 2.1 Consensus size: 16
52968702 GAATGGAGTA
52968712 AGTGAAATTATGTAAT
1 AGTGAAATTATGTAAT
52968728 AGTGAAATT-TGTAAT
1 AGTGAAATTATGTAAT
52968743 A
1 A
52968744 AAATAGTTTT
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
15 7 0.44
16 9 0.56
ACGTcount: A:0.44, C:0.00, G:0.19, T:0.38
Consensus pattern (16 bp):
AGTGAAATTATGTAAT
Found at i:52976420 original size:13 final size:13
Alignment explanation
Indices: 52976402--52976430 Score: 58
Period size: 13 Copynumber: 2.2 Consensus size: 13
52976392 GGTTAAAGTG
52976402 ATAATATAATTGT
1 ATAATATAATTGT
52976415 ATAATATAATTGT
1 ATAATATAATTGT
52976428 ATA
1 ATA
52976431 CAAATGTATA
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 16 1.00
ACGTcount: A:0.48, C:0.00, G:0.07, T:0.45
Consensus pattern (13 bp):
ATAATATAATTGT
Found at i:52991223 original size:16 final size:16
Alignment explanation
Indices: 52991202--52991233 Score: 64
Period size: 16 Copynumber: 2.0 Consensus size: 16
52991192 TGTTCTAATG
52991202 CAGGAAGGCAGAGTGA
1 CAGGAAGGCAGAGTGA
52991218 CAGGAAGGCAGAGTGA
1 CAGGAAGGCAGAGTGA
52991234 TAGCTTATGC
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 16 1.00
ACGTcount: A:0.38, C:0.12, G:0.44, T:0.06
Consensus pattern (16 bp):
CAGGAAGGCAGAGTGA
Found at i:52993875 original size:18 final size:17
Alignment explanation
Indices: 52993830--52993868 Score: 62
Period size: 17 Copynumber: 2.3 Consensus size: 17
52993820 TTTGAAAAGG
52993830 AAAACAAATGAA-TCTTA
1 AAAACAAAT-AAGTCTTA
52993847 AAAACAAATAAGTCTTA
1 AAAACAAATAAGTCTTA
52993864 AAAAC
1 AAAAC
52993869 TTAATAAAAG
Statistics
Matches: 21, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
16 2 0.10
17 19 0.90
ACGTcount: A:0.62, C:0.13, G:0.05, T:0.21
Consensus pattern (17 bp):
AAAACAAATAAGTCTTA
Found at i:52997953 original size:14 final size:13
Alignment explanation
Indices: 52997930--52997961 Score: 55
Period size: 14 Copynumber: 2.4 Consensus size: 13
52997920 GGGATATCAA
52997930 AACAATAATTAAG
1 AACAATAATTAAG
52997943 AACATATAATTAAG
1 AACA-ATAATTAAG
52997957 AACAA
1 AACAA
52997962 GTTAAATATT
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
13 5 0.28
14 13 0.72
ACGTcount: A:0.62, C:0.09, G:0.06, T:0.22
Consensus pattern (13 bp):
AACAATAATTAAG
Found at i:53014681 original size:39 final size:40
Alignment explanation
Indices: 53014556--53014740 Score: 189
Period size: 40 Copynumber: 4.7 Consensus size: 40
53014546 GCTACTCGTT
* * *
53014556 CAAATGCCTTCGGGACATAGCCCGG-TTATAGTTACTCGCA
1 CAAATGCCTTCGGGACTTAACCCGGATT-TAGTAACTCGCA
*
53014596 CAAATGCCTTCGGGACTTAACCCAGATTTAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCA
* * *
53014636 CCAATGCCTTCGGG-CTTATCCCGGAATTAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCA
** * * * *
53014675 CAAATGCCTTC-GGATCTTAGTCCGGATATGGTCACTTAGCA
1 CAAATGCCTTCGGGA-CTTAACCCGGATTTAGTAAC-TCGCA
*
53014716 CAAA-GCCTTCGGGACTTAGCCCGGA
1 CAAATGCCTTCGGGACTTAACCCGGA
53014741 CATCATTCGA
Statistics
Matches: 123, Mismatches: 17, Indels: 10
0.82 0.11 0.07
Matches are distributed among these distances:
38 2 0.02
39 32 0.26
40 76 0.62
41 13 0.11
ACGTcount: A:0.25, C:0.28, G:0.22, T:0.25
Consensus pattern (40 bp):
CAAATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCA
Found at i:53014724 original size:79 final size:80
Alignment explanation
Indices: 53014556--53014740 Score: 198
Period size: 79 Copynumber: 2.3 Consensus size: 80
53014546 GCTACTCGTT
* * *
53014556 CAAATGCCTTCGGGACATAGCCCGG-TTATAGTTACTCGCACAAATGCCTTCGGGACTTAACCCA
1 CAAA-GCCTTCGGGACTTAGCCCGGAAT-TAGTAACTCGCACAAATGCCTTCGGGACTTAACCCA
* *
53014620 GATTTAGTAACTCGCAC
64 GATATAGTAACTAGCAC
* * ** *
53014637 CAATGCCTTCGGG-CTTATCCCGGAATTAGTAACTCGCACAAATGCCTTC-GGATCTTAGTCCGG
1 CAAAGCCTTCGGGACTTAGCCCGGAATTAGTAACTCGCACAAATGCCTTCGGGA-CTTAACCCAG
* *
53014700 ATATGGTCACTTAGCA-
65 ATATAGTAAC-TAGCAC
53014716 CAAAGCCTTCGGGACTTAGCCCGGA
1 CAAAGCCTTCGGGACTTAGCCCGGA
53014741 CATCATTCGA
Statistics
Matches: 86, Mismatches: 14, Indels: 9
0.79 0.13 0.08
Matches are distributed among these distances:
78 3 0.03
79 56 0.65
80 24 0.28
81 3 0.03
ACGTcount: A:0.25, C:0.28, G:0.22, T:0.25
Consensus pattern (80 bp):
CAAAGCCTTCGGGACTTAGCCCGGAATTAGTAACTCGCACAAATGCCTTCGGGACTTAACCCAGA
TATAGTAACTAGCAC
Found at i:53020382 original size:55 final size:56
Alignment explanation
Indices: 53020317--53020431 Score: 137
Period size: 55 Copynumber: 2.1 Consensus size: 56
53020307 AGCATGGCTG
* *
53020317 CCAGATACAGA-AAATGTGACAGAGTCACCAAATACAGATATTTTGTGGCAGT-GCCA
1 CCAGATACAGATAAATGTGACAGAGCCACCAAA-ACAGATAATTTGTGGCA-TAGCCA
* * * *
53020373 CCAGA-ACAGATATATGTGGCAGGGCCACCAGAACAGATAATTTGTGGCATAGCCA
1 CCAGATACAGATAAATGTGACAGAGCCACCAAAACAGATAATTTGTGGCATAGCCA
53020428 CCAG
1 CCAG
53020432 GACGCTTCCT
Statistics
Matches: 51, Mismatches: 6, Indels: 5
0.82 0.10 0.08
Matches are distributed among these distances:
54 1 0.02
55 29 0.57
56 21 0.41
ACGTcount: A:0.36, C:0.22, G:0.23, T:0.19
Consensus pattern (56 bp):
CCAGATACAGATAAATGTGACAGAGCCACCAAAACAGATAATTTGTGGCATAGCCA
Found at i:53020394 original size:27 final size:27
Alignment explanation
Indices: 53020350--53020431 Score: 112
Period size: 27 Copynumber: 3.0 Consensus size: 27
53020340 GTCACCAAAT
53020350 ACAGATATTTTGTGGCAGTGCCACCAGA
1 ACAGATA-TTTGTGGCAGTGCCACCAGA
* *
53020378 ACAGATATATGTGGCAGGGCCACCAGA
1 ACAGATATTTGTGGCAGTGCCACCAGA
53020405 ACAGATAATTTGTGGCA-TAGCCACCAG
1 ACAGAT-ATTTGTGGCAGT-GCCACCAG
53020432 GACGCTTCCT
Statistics
Matches: 48, Mismatches: 4, Indels: 4
0.86 0.07 0.07
Matches are distributed among these distances:
27 24 0.50
28 24 0.50
ACGTcount: A:0.32, C:0.22, G:0.26, T:0.21
Consensus pattern (27 bp):
ACAGATATTTGTGGCAGTGCCACCAGA
Found at i:53020687 original size:95 final size:95
Alignment explanation
Indices: 53020524--53020713 Score: 362
Period size: 95 Copynumber: 2.0 Consensus size: 95
53020514 TGCTTTTCAG
*
53020524 ACAAAATTAACCCTAGGGGTATAAAGGTCATTTTGCATACATAGGGGTATAATAGTACATCTAAC
1 ACAAAAATAACCCTAGGGGTATAAAGGTCATTTTGCATACATAGGGGTATAATAGTACATCTAAC
53020589 TATTTCTAAGGTTTCCATGCATATCGTAGC
66 TATTTCTAAGGTTTCCATGCATATCGTAGC
53020619 ACAAAAATAACCCTAGGGGTATAAAGGTCATTTTGCATACATAGGGGTATAATAGTACATCTAAC
1 ACAAAAATAACCCTAGGGGTATAAAGGTCATTTTGCATACATAGGGGTATAATAGTACATCTAAC
*
53020684 TATTTCTAAGGTTTCCATGCATGTCGTAGC
66 TATTTCTAAGGTTTCCATGCATATCGTAGC
53020714 CATTACGTTT
Statistics
Matches: 93, Mismatches: 2, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
95 93 1.00
ACGTcount: A:0.34, C:0.17, G:0.18, T:0.31
Consensus pattern (95 bp):
ACAAAAATAACCCTAGGGGTATAAAGGTCATTTTGCATACATAGGGGTATAATAGTACATCTAAC
TATTTCTAAGGTTTCCATGCATATCGTAGC
Found at i:53023484 original size:56 final size:56
Alignment explanation
Indices: 53023424--53023560 Score: 202
Period size: 56 Copynumber: 2.4 Consensus size: 56
53023414 TCCCAGACAG
* * *
53023424 GGTCTTACTCGCACATATATATTGGAGTCACATATCGATGCCAACGTATAAAACGT
1 GGTCTTACTCGCACACATATATCGAAGTCACATATCGATGCCAACGTATAAAACGT
* *
53023480 GGTCTTACTCGTACACATATATCGAAGTCACATATCGATGCCAACGTATAAAACTT
1 GGTCTTACTCGCACACATATATCGAAGTCACATATCGATGCCAACGTATAAAACGT
* * *
53023536 GGTCTTACTCACAAACATGTATCGA
1 GGTCTTACTCGCACACATATATCGA
53023561 TGCTATGGTC
Statistics
Matches: 72, Mismatches: 9, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
56 72 1.00
ACGTcount: A:0.33, C:0.23, G:0.16, T:0.28
Consensus pattern (56 bp):
GGTCTTACTCGCACACATATATCGAAGTCACATATCGATGCCAACGTATAAAACGT
Found at i:53024723 original size:14 final size:15
Alignment explanation
Indices: 53024706--53024734 Score: 51
Period size: 14 Copynumber: 2.0 Consensus size: 15
53024696 GCACGAAAAT
53024706 TTCACACA-TATAAA
1 TTCACACATTATAAA
53024720 TTCACACATTATAAA
1 TTCACACATTATAAA
53024735 CACAGAAAAT
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
14 8 0.57
15 6 0.43
ACGTcount: A:0.48, C:0.21, G:0.00, T:0.31
Consensus pattern (15 bp):
TTCACACATTATAAA
Found at i:53028907 original size:39 final size:39
Alignment explanation
Indices: 53028862--53028969 Score: 162
Period size: 39 Copynumber: 2.8 Consensus size: 39
53028852 CCCGAAATAT
* * * *
53028862 TTCCAGCACGTAGCCTACAGACCTTAAGTCCGGTTATAA
1 TTCCAGCACATAGCCTGCGGACCTTAAGTCCGGATATAA
53028901 TTCCAGCACATAGCCTGCGGACCTTAAGTCCGGATATAA
1 TTCCAGCACATAGCCTGCGGACCTTAAGTCCGGATATAA
* *
53028940 TTCTAGCACATAGCCTGCGGACCCTAAGTC
1 TTCCAGCACATAGCCTGCGGACCTTAAGTC
53028970 TAGATAAACA
Statistics
Matches: 63, Mismatches: 6, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
39 63 1.00
ACGTcount: A:0.27, C:0.30, G:0.19, T:0.24
Consensus pattern (39 bp):
TTCCAGCACATAGCCTGCGGACCTTAAGTCCGGATATAA
Found at i:53034640 original size:6 final size:6
Alignment explanation
Indices: 53034622--53034740 Score: 113
Period size: 6 Copynumber: 19.3 Consensus size: 6
53034612 AAGAAACATT
53034622 ATCAGA A-CTAGA ATCAGA ATCAGA ATCAGA ATCAGGTA A-CAGA ATCAGA
1 ATCAGA ATC-AGA ATCAGA ATCAGA ATCAGA ATCA-G-A ATCAGA ATCAGA
* *
53034671 ATCAGA A-CTAGA ATCAGA ATTAGGTA A-CAGA ATCAGA ATCAGT ATCAGGTA
1 ATCAGA ATC-AGA ATCAGA ATCA-G-A ATCAGA ATCAGA ATCAGA ATCA-G-A
53034722 AT-AGA ATCAGA ATCAGA AT
1 ATCAGA ATCAGA ATCAGA AT
53034741 ATGAATGTAA
Statistics
Matches: 96, Mismatches: 4, Indels: 26
0.76 0.03 0.21
Matches are distributed among these distances:
5 9 0.09
6 72 0.75
7 9 0.09
8 6 0.06
ACGTcount: A:0.48, C:0.14, G:0.18, T:0.19
Consensus pattern (6 bp):
ATCAGA
Found at i:53034666 original size:19 final size:19
Alignment explanation
Indices: 53034642--53034712 Score: 110
Period size: 19 Copynumber: 3.8 Consensus size: 19
53034632 GAATCAGAAT
53034642 CAGAATCAGAATCAGGTAA
1 CAGAATCAGAATCAGGTAA
53034661 CAGAATCAGAATCA-G-AA
1 CAGAATCAGAATCAGGTAA
*
53034678 CTAGAATCAGAATTAGGTAA
1 C-AGAATCAGAATCAGGTAA
53034698 CAGAATCAGAATCAG
1 CAGAATCAGAATCAG
53034713 TATCAGGTAA
Statistics
Matches: 47, Mismatches: 2, Indels: 6
0.85 0.04 0.11
Matches are distributed among these distances:
17 3 0.06
18 13 0.28
19 28 0.60
20 3 0.06
ACGTcount: A:0.48, C:0.15, G:0.20, T:0.17
Consensus pattern (19 bp):
CAGAATCAGAATCAGGTAA
Found at i:53034669 original size:31 final size:31
Alignment explanation
Indices: 53034630--53034740 Score: 140
Period size: 31 Copynumber: 3.6 Consensus size: 31
53034620 TTATCAGAAC
53034630 TAGAATCAGAATCAGAATCAGAATCAGGTAA
1 TAGAATCAGAATCAGAATCAGAATCAGGTAA
*
53034661 CAGAATCAGAATCAGAA-CTAGAATCA-G-AA
1 TAGAATCAGAATCAGAATC-AGAATCAGGTAA
*
53034690 TTAGGTAA-CAGAATCAGAATCAGTATCAGGTAA
1 -TA-G-AATCAGAATCAGAATCAGAATCAGGTAA
53034723 TAGAATCAGAATCAGAAT
1 TAGAATCAGAATCAGAAT
53034741 ATGAATGTAA
Statistics
Matches: 69, Mismatches: 3, Indels: 16
0.78 0.03 0.18
Matches are distributed among these distances:
29 2 0.03
30 5 0.07
31 54 0.78
32 6 0.09
33 2 0.03
ACGTcount: A:0.48, C:0.14, G:0.19, T:0.20
Consensus pattern (31 bp):
TAGAATCAGAATCAGAATCAGAATCAGGTAA
Found at i:53034672 original size:37 final size:37
Alignment explanation
Indices: 53034631--53034731 Score: 143
Period size: 37 Copynumber: 2.7 Consensus size: 37
53034621 TATCAGAACT
53034631 AGAATCAGAATCAGAATCAGAATCAGGTAACAGAATC
1 AGAATCAGAATCAGAATCAGAATCAGGTAACAGAATC
*
53034668 AGAATCAGAA-CTAGAATCAGAATTAGGTAACAGAATC
1 AGAATCAGAATC-AGAATCAGAATCAGGTAACAGAATC
*
53034705 AGAATCAGTATCAGGTAAT-AGAATCAG
1 AGAATCAGAATCA-G-AATCAGAATCAG
53034732 AATCAGAATA
Statistics
Matches: 57, Mismatches: 3, Indels: 7
0.85 0.04 0.10
Matches are distributed among these distances:
36 1 0.02
37 44 0.77
38 9 0.16
39 3 0.05
ACGTcount: A:0.48, C:0.14, G:0.20, T:0.19
Consensus pattern (37 bp):
AGAATCAGAATCAGAATCAGAATCAGGTAACAGAATC
Found at i:53034731 original size:19 final size:19
Alignment explanation
Indices: 53034631--53034712 Score: 91
Period size: 19 Copynumber: 4.4 Consensus size: 19
53034621 TATCAGAACT
53034631 AGAATCA-G-AATCAGAATC
1 AGAATCAGGTAAT-AGAATC
*
53034649 AGAATCAGGTAACAGAATC
1 AGAATCAGGTAATAGAATC
53034668 AGAATCA-G-AACTAGAATC
1 AGAATCAGGTAA-TAGAATC
* *
53034686 AGAATTAGGTAACAGAATC
1 AGAATCAGGTAATAGAATC
53034705 AGAATCAG
1 AGAATCAG
53034713 TATCAGGTAA
Statistics
Matches: 54, Mismatches: 5, Indels: 9
0.79 0.07 0.13
Matches are distributed among these distances:
17 2 0.04
18 20 0.37
19 28 0.52
20 4 0.07
ACGTcount: A:0.49, C:0.15, G:0.20, T:0.17
Consensus pattern (19 bp):
AGAATCAGGTAATAGAATC
Found at i:53035243 original size:27 final size:27
Alignment explanation
Indices: 53035187--53035623 Score: 509
Period size: 27 Copynumber: 16.3 Consensus size: 27
53035177 GGGGCAAAAT
* * * *
53035187 GGTAATTTTACCCCACA-AGGTATCTC
1 GGTAATTCTACCCTACAGGGGTATTTC
*
53035213 GGTAATTTTACCCTACAGGGGTATTTC
1 GGTAATTCTACCCTACAGGGGTATTTC
* * **
53035240 GGTATTTCTACCGTACAACGGTATTTC
1 GGTAATTCTACCCTACAGGGGTATTTC
*
53035267 AGTAATTCTACCCTACAGGGGTATTTC
1 GGTAATTCTACCCTACAGGGGTATTTC
* * *
53035294 AGTAA-TCTACCCTATAGTGGTATTTC
1 GGTAATTCTACCCTACAGGGGTATTTC
* *
53035320 GATAATTCTACCCTACAGTGGTATTTC
1 GGTAATTCTACCCTACAGGGGTATTTC
* * *
53035347 GATAATTTTACCCTACAGTGGTATTTC
1 GGTAATTCTACCCTACAGGGGTATTTC
* * * *
53035374 GATAATTCTACCCTATAGGGATATTTT
1 GGTAATTCTACCCTACAGGGGTATTTC
*
53035401 GGTAATTCTACCCTACAGGAGTATTTC
1 GGTAATTCTACCCTACAGGGGTATTTC
*
53035428 GGTAATTCTACCCTACAGGGGTATTCC
1 GGTAATTCTACCCTACAGGGGTATTTC
* * *
53035455 AGTAATTCTACCCTACAAGGGTATTCC
1 GGTAATTCTACCCTACAGGGGTATTTC
* *
53035482 GGTAATTCTACCCTACAAGGATATTTC
1 GGTAATTCTACCCTACAGGGGTATTTC
* * *
53035509 GGTAATTCTAGCATACAGGGGTATTGC
1 GGTAATTCTACCCTACAGGGGTATTTC
*
53035536 GATAATTCTACCCTACAGGGGTATTTC
1 GGTAATTCTACCCTACAGGGGTATTTC
* *
53035563 GGTATTTCTACCCTACAAGGGTATTTC
1 GGTAATTCTACCCTACAGGGGTATTTC
* * **
53035590 GGTATTTCTACCATACAAAGGTATTTC
1 GGTAATTCTACCCTACAGGGGTATTTC
53035617 GGTAATT
1 GGTAATT
53035624 TTATAAATCG
Statistics
Matches: 358, Mismatches: 51, Indels: 3
0.87 0.12 0.01
Matches are distributed among these distances:
26 38 0.11
27 320 0.89
ACGTcount: A:0.26, C:0.21, G:0.18, T:0.35
Consensus pattern (27 bp):
GGTAATTCTACCCTACAGGGGTATTTC
Found at i:53035639 original size:27 final size:27
Alignment explanation
Indices: 53035609--53035920 Score: 206
Period size: 27 Copynumber: 11.6 Consensus size: 27
53035599 ACCATACAAA
* *
53035609 GGTATTTCGGTAATTTTATAAATCGAG
1 GGTATTTTGGTAATTTTACAAATCGAG
**** * ** *
53035636 GGTAAAACGATAATTTTGTACATC-AG
1 GGTATTTTGGTAATTTTACAAATCGAG
* * * *
53035662 GGGTACTTTGGCAATTTTACAAGTTGAG
1 -GGTATTTTGGTAATTTTACAAATCGAG
*** **
53035690 GGTATTTCAATAATTTTACAGGTCGAG
1 GGTATTTTGGTAATTTTACAAATCGAG
* * *
53035717 GGTATTTTAGAAATTTCACAAATC-AGG
1 GGTATTTTGGTAATTTTACAAATCGA-G
* *
53035744 GGTATTTTGATAATTTTACAAA-CTAGG
1 GGTATTTTGGTAATTTTACAAATCGA-G
*
53035771 GGTATTTTGGTAATTTTACAAA-CTAG
1 GGTATTTTGGTAATTTTACAAATCGAG
* **
53035797 GGTATTTTGGTAATTTTATAAATAAAG
1 GGTATTTTGGTAATTTTACAAATCGAG
*
53035824 GGTATTTTAGTAATTTTACAAA-CTG-G
1 GGTATTTTGGTAATTTTACAAATC-GAG
** * *
53035850 GGATATTTTGGTAATTTTGTAAACCAAG
1 GG-TATTTTGGTAATTTTACAAATCGAG
* *
53035878 GGTATTTCGGTAATTTTACAAA-CCAGG
1 GGTATTTTGGTAATTTTACAAATCGA-G
53035905 GGTATTTTGGTAATTT
1 GGTATTTTGGTAATTT
53035921 GGTAAACTAA
Statistics
Matches: 224, Mismatches: 51, Indels: 20
0.76 0.17 0.07
Matches are distributed among these distances:
26 31 0.14
27 187 0.83
28 6 0.03
ACGTcount: A:0.31, C:0.08, G:0.21, T:0.39
Consensus pattern (27 bp):
GGTATTTTGGTAATTTTACAAATCGAG
Found at i:53035774 original size:54 final size:53
Alignment explanation
Indices: 53035715--53035939 Score: 258
Period size: 54 Copynumber: 4.2 Consensus size: 53
53035705 TTACAGGTCG
* * * *
53035715 AGGGTATTTTAGAAATTTCACAAATCAGGGGTATTTTGATAATTTTACAAACTA
1 AGGGTATTTTAGTAATTTTACAAA-CAGGGGTATTTTGGTAATTTTATAAACTA
* *
53035769 GGGGTATTTTGGTAATTTTACAAACTA-GGGTATTTTGGTAATTTTATAAA-TAA
1 AGGGTATTTTAGTAATTTTACAAAC-AGGGGTATTTTGGTAATTTTATAAACT-A
* * *
53035822 AGGGTATTTTAGTAATTTTACAAACTGGGGATATTTTGGTAATTTTGTAAACCA
1 AGGGTATTTTAGTAATTTTACAAACAGGGG-TATTTTGGTAATTTTATAAACTA
** **
53035876 AGGGTATTTCGGTAATTTTACAAACCAGGGGTATTTTGGTAATTTGGTAAACTA
1 AGGGTATTTTAGTAATTTTACAAA-CAGGGGTATTTTGGTAATTTTATAAACTA
*
53035930 A-AGTATTTTA
1 AGGGTATTTTA
53035940 AATAGGGATA
Statistics
Matches: 146, Mismatches: 19, Indels: 13
0.82 0.11 0.07
Matches are distributed among these distances:
52 1 0.01
53 55 0.38
54 85 0.58
55 5 0.03
ACGTcount: A:0.33, C:0.07, G:0.20, T:0.40
Consensus pattern (53 bp):
AGGGTATTTTAGTAATTTTACAAACAGGGGTATTTTGGTAATTTTATAAACTA
Found at i:53035838 original size:80 final size:80
Alignment explanation
Indices: 53035715--53035920 Score: 263
Period size: 80 Copynumber: 2.5 Consensus size: 80
53035705 TTACAGGTCG
* * *
53035715 AGGGTATTTTAGAAATTTCACAAATCAGGGGTATTTTGATAATTTTACAAACTAGGGG-TATTTT
1 AGGGTATTTTGGTAATTTTACAAATCAGGGGTATTTTG-TAATTTTACAAACT-GGGGATATTTT
*
53035779 GGTAATTTTACAAA-CT
64 GGTAATTTTACAAACCA
* * *
53035795 AGGGTATTTTGGTAATTTTATAAATAAAGGGTATTTTAGTAATTTTACAAACTGGGGATATTTTG
1 AGGGTATTTTGGTAATTTTACAAATCAGGGGTATTTT-GTAATTTTACAAACTGGGGATATTTTG
**
53035860 GTAATTTTGTAAACCA
65 GTAATTTTACAAACCA
* *
53035876 AGGGTATTTCGGTAATTTTACAAACCAGGGGTATTTTGGTAATTT
1 AGGGTATTTTGGTAATTTTACAAATCAGGGGTATTTT-GTAATTT
53035921 GGTAAACTAA
Statistics
Matches: 108, Mismatches: 15, Indels: 5
0.84 0.12 0.04
Matches are distributed among these distances:
79 4 0.04
80 63 0.58
81 41 0.38
ACGTcount: A:0.32, C:0.07, G:0.20, T:0.40
Consensus pattern (80 bp):
AGGGTATTTTGGTAATTTTACAAATCAGGGGTATTTTGTAATTTTACAAACTGGGGATATTTTGG
TAATTTTACAAACCA
Found at i:53035927 original size:27 final size:27
Alignment explanation
Indices: 53035716--53035920 Score: 207
Period size: 27 Copynumber: 7.6 Consensus size: 27
53035706 TACAGGTCGA
* * * * *
53035716 GGGTATTTTAGAAATTTCACAAATCAG
1 GGGTATTTTGGTAATTTTATAAACCAG
* * *
53035743 GGGTATTTTGATAATTTTACAAACTAG
1 GGGTATTTTGGTAATTTTATAAACCAG
* *
53035770 GGGTATTTTGGTAATTTTACAAACTA-
1 GGGTATTTTGGTAATTTTATAAACCAG
** *
53035796 GGGTATTTTGGTAATTTTATAAATAAA
1 GGGTATTTTGGTAATTTTATAAACCAG
* * *
53035823 GGGTATTTTAGTAATTTTACAAA-CTG
1 GGGTATTTTGGTAATTTTATAAACCAG
* *
53035849 GGGATATTTTGGTAATTTTGTAAACCAA
1 GGG-TATTTTGGTAATTTTATAAACCAG
* *
53035877 GGGTATTTCGGTAATTTTACAAACCAG
1 GGGTATTTTGGTAATTTTATAAACCAG
53035904 GGGTATTTTGGTAATTT
1 GGGTATTTTGGTAATTT
53035921 GGTAAACTAA
Statistics
Matches: 150, Mismatches: 25, Indels: 6
0.83 0.14 0.03
Matches are distributed among these distances:
26 26 0.17
27 120 0.80
28 4 0.03
ACGTcount: A:0.32, C:0.07, G:0.20, T:0.40
Consensus pattern (27 bp):
GGGTATTTTGGTAATTTTATAAACCAG
Found at i:53035936 original size:107 final size:106
Alignment explanation
Indices: 53035717--53035939 Score: 288
Period size: 107 Copynumber: 2.1 Consensus size: 106
53035707 ACAGGTCGAG
* * *
53035717 GGTATTTTAGAAATTTCACAAATCAGGGGTATTTTGATAATTTTACAAACTAGGGGTATTTTGGT
1 GGTATTTTAGAAATTTCACAAATCAGGGGTATTTTGATAATTTTACAAACCAAGGGTATTTCGGT
* *
53035782 AATTTTACAAACTAGGGTATTTTGGTAATTTTATAAATAAA
66 AATTTTACAAACCAGGGTATTTTGGTAATTTGATAAATAAA
* * * * **
53035823 GGGTATTTTAGTAATTTTACAAA-CTGGGGATATTTTGGTAATTTTGTAAACCAAGGGTATTTCG
1 -GGTATTTTAGAAATTTCACAAATCAGGGG-TATTTTGATAATTTTACAAACCAAGGGTATTTCG
*
53035887 GTAATTTTACAAACCAGGGGTATTTTGGTAATTTGGTAAACTAAA
64 GTAATTTTACAAACCA-GGGTATTTTGGTAATTTGATAAA-TAAA
53035932 -GTATTTTA
1 GGTATTTTA
53035940 AATAGGGATA
Statistics
Matches: 101, Mismatches: 12, Indels: 6
0.85 0.10 0.05
Matches are distributed among these distances:
106 5 0.05
107 71 0.70
108 21 0.21
109 4 0.04
ACGTcount: A:0.33, C:0.07, G:0.20, T:0.40
Consensus pattern (106 bp):
GGTATTTTAGAAATTTCACAAATCAGGGGTATTTTGATAATTTTACAAACCAAGGGTATTTCGGT
AATTTTACAAACCAGGGTATTTTGGTAATTTGATAAATAAA
Found at i:53037914 original size:6 final size:6
Alignment explanation
Indices: 53037871--53037983 Score: 72
Period size: 6 Copynumber: 18.3 Consensus size: 6
53037861 AAGAAACATT
* * *
53037871 ATCAGA A-CTAGA ATCAAA ATCAAA ATCAAGTA AT-AGA ATCAGA ATCAAA
1 ATCAGA ATC-AGA ATCAGA ATCAGA ATC-AG-A ATCAGA ATCAGA ATCAGA
* * * *
53037920 ACCAGA ATCAGA ATTAGGTA A-AAGA ATCAGA ATCAGT ATCAGGTA A-CAGA
1 ATCAGA ATCAGA ATCA-G-A ATCAGA ATCAGA ATCAGA ATCA-G-A ATCAGA
53037970 ATCAGA ATCAGA AT
1 ATCAGA ATCAGA AT
53037984 GTGAATGCAA
Statistics
Matches: 85, Mismatches: 11, Indels: 22
0.72 0.09 0.19
Matches are distributed among these distances:
5 8 0.09
6 64 0.75
7 7 0.08
8 6 0.07
ACGTcount: A:0.52, C:0.14, G:0.15, T:0.19
Consensus pattern (6 bp):
ATCAGA
Found at i:53037916 original size:19 final size:19
Alignment explanation
Indices: 53037888--53037954 Score: 66
Period size: 19 Copynumber: 3.6 Consensus size: 19
53037878 CTAGAATCAA
* *
53037888 AATCAAAATCAAGTAATAG
1 AATCAGAATCAAGTAAAAG
*
53037907 AATCAGAATCAA--AACCAG
1 AATCAGAATCAAGTAA-AAG
* *
53037925 AATCAGAATTAGGTAAAAG
1 AATCAGAATCAAGTAAAAG
53037944 AATCAGAATCA
1 AATCAGAATCA
53037955 GTATCAGGTA
Statistics
Matches: 39, Mismatches: 6, Indels: 6
0.76 0.12 0.12
Matches are distributed among these distances:
17 2 0.05
18 12 0.31
19 23 0.59
20 2 0.05
ACGTcount: A:0.55, C:0.13, G:0.13, T:0.18
Consensus pattern (19 bp):
AATCAGAATCAAGTAAAAG
Found at i:53037951 original size:25 final size:25
Alignment explanation
Indices: 53037922--53037983 Score: 97
Period size: 25 Copynumber: 2.5 Consensus size: 25
53037912 GAATCAAAAC
*
53037922 CAGAATCAGAATTAGGTAAAAGAAT
1 CAGAATCAGAATCAGGTAAAAGAAT
* *
53037947 CAGAATCAGTATCAGGTAACAGAAT
1 CAGAATCAGAATCAGGTAAAAGAAT
53037972 CAGAATCAGAAT
1 CAGAATCAGAAT
53037984 GTGAATGCAA
Statistics
Matches: 33, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
25 33 1.00
ACGTcount: A:0.48, C:0.13, G:0.19, T:0.19
Consensus pattern (25 bp):
CAGAATCAGAATCAGGTAAAAGAAT
Found at i:53038461 original size:27 final size:27
Alignment explanation
Indices: 53038431--53038760 Score: 383
Period size: 27 Copynumber: 12.2 Consensus size: 27
53038421 GGGCAAAATT
* * * *
53038431 GTAATTTTACCCCACAAGGGTATCTCG
1 GTAATTCTACCCTACAGGGGTATTTCG
* * *
53038458 GTAATTTTACCTTATAGGGGTATTTCG
1 GTAATTCTACCCTACAGGGGTATTTCG
* * **
53038485 TTATTTCTACCCTACAGGGGTATTTTA
1 GTAATTCTACCCTACAGGGGTATTTCG
*
53038512 GTAATTCTACCCTACAGGGGTATTTTG
1 GTAATTCTACCCTACAGGGGTATTTCG
53038539 GTAATTCTACCCTACAGGGGTATTTCG
1 GTAATTCTACCCTACAGGGGTATTTCG
* *
53038566 ATAATTCTACCCTATAGGGGTATTTCG
1 GTAATTCTACCCTACAGGGGTATTTCG
*
53038593 GTAATTCTACCCTACAAGGGTA-TTCTG
1 GTAATTCTACCCTACAGGGGTATTTC-G
* **
53038620 ATAATTCTACCCTACAGGGGTACGTCG
1 GTAATTCTACCCTACAGGGGTATTTCG
* * * *
53038647 ATAATTCTACCATACAGGGGTACTGCG
1 GTAATTCTACCCTACAGGGGTATTTCG
* *
53038674 ATAATTCTACCCTACAGGGGTATTCCG
1 GTAATTCTACCCTACAGGGGTATTTCG
* *
53038701 GTATTTCTACCCTACAAGGGTATTTCG
1 GTAATTCTACCCTACAGGGGTATTTCG
* * *
53038728 GTATTTCAACCCTACAAGGGTATTTCG
1 GTAATTCTACCCTACAGGGGTATTTCG
53038755 GTAATT
1 GTAATT
53038761 TTGTAAATCG
Statistics
Matches: 265, Mismatches: 36, Indels: 4
0.87 0.12 0.01
Matches are distributed among these distances:
26 3 0.01
27 260 0.98
28 2 0.01
ACGTcount: A:0.25, C:0.21, G:0.20, T:0.35
Consensus pattern (27 bp):
GTAATTCTACCCTACAGGGGTATTTCG
Found at i:53038774 original size:27 final size:27
Alignment explanation
Indices: 53038742--53039055 Score: 252
Period size: 27 Copynumber: 11.6 Consensus size: 27
53038732 TTCAACCCTA
* **
53038742 CAAGGGTATTTCGGTAATTTTGTAAAT
1 CAAGGGTATTTTGGTAATTTTACAAAT
* *** * * * *
53038769 CGAGGGTAAAATGATAACTCTATAAAT
1 CAAGGGTATTTTGGTAATTTTACAAAT
* * *
53038796 CAGGGGTACTTTGGTAATTTTACAAGT
1 CAAGGGTATTTTGGTAATTTTACAAAT
* *** **
53038823 CGAGGGTATTTCAATAATTTTACAGGT
1 CAAGGGTATTTTGGTAATTTTACAAAT
* ** * *
53038850 CGAGGGTATTTCAGTAATTTCACAGAT
1 CAAGGGTATTTTGGTAATTTTACAAAT
* * * *
53038877 CAGGGGTATTTTGATAATTGTACAAAC
1 CAAGGGTATTTTGGTAATTTTACAAAT
*
53038904 CAGGGGTATTTTGGTAATTTTACAAAT
1 CAAGGGTATTTTGGTAATTTTACAAAT
* * *
53038931 TAGGGGTATTTTGGTAATTTTATAAAT
1 CAAGGGTATTTTGGTAATTTTACAAAT
* *
53038958 AAAGGGTATTTTAGTAATTTTACAAA-
1 CAAGGGTATTTTGGTAATTTTACAAAT
**
53038984 CTAAGGGTATTTTGGTAATTTTGTAAAT
1 C-AAGGGTATTTTGGTAATTTTACAAAT
*
53039012 CAAGGGTATTTTGGTAATTTTACAAAC
1 CAAGGGTATTTTGGTAATTTTACAAAT
* *
53039039 CAGGGGTATTTCGGTAA
1 CAAGGGTATTTTGGTAA
53039056 CTTGGTAAAC
Statistics
Matches: 229, Mismatches: 56, Indels: 4
0.79 0.19 0.01
Matches are distributed among these distances:
27 228 1.00
28 1 0.00
ACGTcount: A:0.32, C:0.09, G:0.22, T:0.38
Consensus pattern (27 bp):
CAAGGGTATTTTGGTAATTTTACAAAT
Found at i:53041040 original size:6 final size:6
Alignment explanation
Indices: 53041031--53041109 Score: 81
Period size: 6 Copynumber: 13.0 Consensus size: 6
53041021 AATCAAGTAA
* *
53041031 CAGAAT CAGAAT CAGAAC CAGAAT CAGAAT TAGGTAA- CAGAAT CAGAAT
1 CAGAAT CAGAAT CAGAAT CAGAAT CAGAAT CA-G-AAT CAGAAT CAGAAT
* *
53041080 CAGTAT CATGTA- CAGAAT CAGAAT CAGAAT
1 CAGAAT CA-GAAT CAGAAT CAGAAT CAGAAT
53041110 GTGAATGTAA
Statistics
Matches: 62, Mismatches: 6, Indels: 10
0.79 0.08 0.13
Matches are distributed among these distances:
5 4 0.06
6 51 0.82
7 5 0.08
8 2 0.03
ACGTcount: A:0.47, C:0.16, G:0.18, T:0.19
Consensus pattern (6 bp):
CAGAAT
Found at i:53041043 original size:19 final size:19
Alignment explanation
Indices: 53041015--53041081 Score: 84
Period size: 19 Copynumber: 3.6 Consensus size: 19
53041005 CTAGAATCCA
*
53041015 AATCAAAATCAAGTAACAG
1 AATCAGAATCAAGTAACAG
53041034 AATCAGAATC-AG-AACCAG
1 AATCAGAATCAAGTAA-CAG
* *
53041052 AATCAGAATTAGGTAACAG
1 AATCAGAATCAAGTAACAG
53041071 AATCAGAATCA
1 AATCAGAATCA
53041082 GTATCATGTA
Statistics
Matches: 41, Mismatches: 4, Indels: 6
0.80 0.08 0.12
Matches are distributed among these distances:
17 2 0.05
18 14 0.34
19 23 0.56
20 2 0.05
ACGTcount: A:0.52, C:0.16, G:0.15, T:0.16
Consensus pattern (19 bp):
AATCAGAATCAAGTAACAG
Found at i:53041056 original size:37 final size:37
Alignment explanation
Indices: 53040998--53041082 Score: 111
Period size: 37 Copynumber: 2.3 Consensus size: 37
53040988 AAGAAACATT
53040998 ATCAGAA-CTAGAATCCAAATCAAAATCAAGTAACAGA
1 ATCAGAATC-AGAATCCAAATCAAAATCAAGTAACAGA
* * *
53041035 ATCAGAATCAGAA-CCAGAATCAGAATTAGGTAACAGA
1 ATCAGAATCAGAATCCA-AATCAAAATCAAGTAACAGA
53041072 ATCAGAATCAG
1 ATCAGAATCAG
53041083 TATCATGTAC
Statistics
Matches: 43, Mismatches: 3, Indels: 4
0.86 0.06 0.08
Matches are distributed among these distances:
36 3 0.07
37 39 0.91
38 1 0.02
ACGTcount: A:0.51, C:0.18, G:0.15, T:0.16
Consensus pattern (37 bp):
ATCAGAATCAGAATCCAAATCAAAATCAAGTAACAGA
Found at i:53041303 original size:29 final size:27
Alignment explanation
Indices: 53041228--53041309 Score: 85
Period size: 27 Copynumber: 3.0 Consensus size: 27
53041218 GCGAGGTTGC
** *
53041228 CAGATATTGTAACGAAGTCACCAGATA
1 CAGATATTGTGGCGAAGCCACCAGATA
* *
53041255 CAGATATTGTGGCTAGGCCACCAGA-A
1 CAGATATTGTGGCGAAGCCACCAGATA
53041281 CAGATATATATGTGGCGAAGCCACCAGAT
1 CAG--ATAT-TGTGGCGAAGCCACCAGAT
53041310 TGCAGTGAGG
Statistics
Matches: 44, Mismatches: 7, Indels: 5
0.79 0.12 0.09
Matches are distributed among these distances:
26 4 0.09
27 20 0.45
28 4 0.09
29 16 0.36
ACGTcount: A:0.35, C:0.21, G:0.23, T:0.21
Consensus pattern (27 bp):
CAGATATTGTGGCGAAGCCACCAGATA
Found at i:53041586 original size:27 final size:27
Alignment explanation
Indices: 53041556--53041937 Score: 432
Period size: 27 Copynumber: 14.2 Consensus size: 27
53041546 GGCAAAATGG
* * *
53041556 TAATTTTACCCCACAAGGGTATCTCGA
1 TAATTCTACCCTACAAGGGTATTTCGA
*
53041583 TAATTCTACCCTACAGGGGTATTTC-A
1 TAATTCTACCCTACAAGGGTATTTCGA
* *
53041609 GTAATTTTACCCTACAA-GGTATTTGGA
1 -TAATTCTACCCTACAAGGGTATTTCGA
*
53041636 TAATTCTATCCTACAAGGGTATTTCGA
1 TAATTCTACCCTACAAGGGTATTTCGA
* * *
53041663 TAATTCTACCCTATAAAGGTATTTCGG
1 TAATTCTACCCTACAAGGGTATTTCGA
* * * *
53041690 TAATTTTACCCTACAGGGGTATTTTGG
1 TAATTCTACCCTACAAGGGTATTTCGA
*
53041717 TAATTCTACCCTACAGGGGTATTTCGA
1 TAATTCTACCCTACAAGGGTATTTCGA
* * *
53041744 TAATTCTACCCTATAGGGGTATTTCGG
1 TAATTCTACCCTACAAGGGTATTTCGA
53041771 TAATTCTACCCTACAAGGGTATTGT-GA
1 TAATTCTACCCTACAAGGGTATT-TCGA
* *
53041798 TAATTCTACCCTACAGGGGTACTTT-GG
1 TAATTCTACCCTACAAGGGTA-TTTCGA
* * *
53041825 TAATTCTACCATACAGGGGTATTGCGA
1 TAATTCTACCCTACAAGGGTATTTCGA
*
53041852 TAATTCTACCCTACAGGGGTA-TTCTGA
1 TAATTCTACCCTACAAGGGTATTTC-GA
* *
53041879 TATTTCTACCCTACAAGGGTATTTCGG
1 TAATTCTACCCTACAAGGGTATTTCGA
* * *
53041906 TATTTCAACCCTACAAGGGTATTTCGG
1 TAATTCTACCCTACAAGGGTATTTCGA
53041933 TAATT
1 TAATT
53041938 TTGTAAATCG
Statistics
Matches: 308, Mismatches: 39, Indels: 16
0.85 0.11 0.04
Matches are distributed among these distances:
26 26 0.08
27 276 0.90
28 6 0.02
ACGTcount: A:0.27, C:0.20, G:0.18, T:0.35
Consensus pattern (27 bp):
TAATTCTACCCTACAAGGGTATTTCGA
Found at i:53041752 original size:81 final size:81
Alignment explanation
Indices: 53041553--53041939 Score: 483
Period size: 81 Copynumber: 4.8 Consensus size: 81
53041543 AGGGGCAAAA
* * * *
53041553 TGGTAATTTTACCCCACAAGGGTATCTCGATAATTCTACCCTACAGGGGTATTTCAGTAATTTTA
1 TGGTAATTCTACCCTACAAGGGTATTTCGATAATTCTACCCTACAGGGGTATTTCGGTAATTTTA
*
53041618 CCCTACA-AGGTA-TT
66 CCCTACAGGGGTATTT
* * **
53041632 TGGATAATTCTATCCTACAAGGGTATTTCGATAATTCTACCCTATAAAGGTATTTCGGTAATTTT
1 TGG-TAATTCTACCCTACAAGGGTATTTCGATAATTCTACCCTACAGGGGTATTTCGGTAATTTT
53041697 ACCCTACAGGGGTATTT
65 ACCCTACAGGGGTATTT
* * *
53041714 TGGTAATTCTACCCTACAGGGGTATTTCGATAATTCTACCCTATAGGGGTATTTCGGTAATTCTA
1 TGGTAATTCTACCCTACAAGGGTATTTCGATAATTCTACCCTACAGGGGTATTTCGGTAATTTTA
* *
53041779 CCCTACAAGGGTATTG
66 CCCTACAGGGGTATTT
* * * * * * *
53041795 TGATAATTCTACCCTACAGGGGTACTTT-GGTAATTCTACCATACAGGGGTATTGCGATAATTCT
1 TGGTAATTCTACCCTACAAGGGTA-TTTCGATAATTCTACCCTACAGGGGTATTTCGGTAATTTT
*
53041859 ACCCTACAGGGGTATTC
65 ACCCTACAGGGGTATTT
* * * * * *
53041876 TGATATTTCTACCCTACAAGGGTATTTCGGTATTTCAACCCTACAAGGGTATTTCGGTAATTTT
1 TGGTAATTCTACCCTACAAGGGTATTTCGATAATTCTACCCTACAGGGGTATTTCGGTAATTTT
53041940 GTAAATCGAG
Statistics
Matches: 270, Mismatches: 33, Indels: 8
0.87 0.11 0.03
Matches are distributed among these distances:
79 3 0.01
80 64 0.24
81 195 0.72
82 8 0.03
ACGTcount: A:0.26, C:0.20, G:0.19, T:0.35
Consensus pattern (81 bp):
TGGTAATTCTACCCTACAAGGGTATTTCGATAATTCTACCCTACAGGGGTATTTCGGTAATTTTA
CCCTACAGGGGTATTT
Found at i:53042242 original size:27 final size:27
Alignment explanation
Indices: 53041974--53042235 Score: 244
Period size: 27 Copynumber: 9.7 Consensus size: 27
53041964 TCTATAAGTC
* * *
53041974 AGGGGTACTTTGGTAAATTTACAAGTCA
1 AGGGGTATTTTGGTAATTTTACAA-ACA
** ** *
53042002 A-GGGTATTTTAATAATTTTACAGGTCG
1 AGGGGTATTTTGGTAATTTTACA-AACA
** *
53042029 A-GGGTATTTCAGTAATTTCACAAATC-
1 AGGGGTATTTTGGTAATTTTACAAA-CA
* * *
53042055 ACGGGTATTTTGATAATTTTACAAACC
1 AGGGGTATTTTGGTAATTTTACAAACA
*
53042082 AGGGGTATTTTGGTAATTTTACAAACT
1 AGGGGTATTTTGGTAATTTTACAAACA
* * * *
53042109 GGGGGTATTTTTGTAATTTTATAAATA
1 AGGGGTATTTTGGTAATTTTACAAACA
* * *
53042136 AAGGGTATTTTAGTAATTTTACAAACT
1 AGGGGTATTTTGGTAATTTTACAAACA
*
53042163 AGGGGTATTTTGGTAATTTTATAAACCA
1 AGGGGTATTTTGGTAATTTTACAAA-CA
*
53042191 AGGGCT-TTTTGGTAATTTTACAAACA
1 AGGGGTATTTTGGTAATTTTACAAACA
53042217 AGGGGTATTTTGGTAATTT
1 AGGGGTATTTTGGTAATTT
53042236 GGTAAACTAA
Statistics
Matches: 192, Mismatches: 36, Indels: 13
0.80 0.15 0.05
Matches are distributed among these distances:
26 9 0.05
27 176 0.92
28 7 0.04
ACGTcount: A:0.31, C:0.08, G:0.21, T:0.40
Consensus pattern (27 bp):
AGGGGTATTTTGGTAATTTTACAAACA
Found at i:53044123 original size:18 final size:17
Alignment explanation
Indices: 53044095--53044128 Score: 50
Period size: 18 Copynumber: 1.9 Consensus size: 17
53044085 GGCTTTAGCC
53044095 CATTACAGAATAAGAAA
1 CATTACAGAATAAGAAA
*
53044112 CATTATCAGAATCAGAA
1 CATTA-CAGAATAAGAA
53044129 TCAGAATCAG
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
17 5 0.33
18 10 0.67
ACGTcount: A:0.53, C:0.15, G:0.12, T:0.21
Consensus pattern (17 bp):
CATTACAGAATAAGAAA
Found at i:53044125 original size:6 final size:6
Alignment explanation
Indices: 53044116--53044217 Score: 118
Period size: 6 Copynumber: 16.7 Consensus size: 6
53044106 AAGAAACATT
*
53044116 ATCAGA ATCAGA ATCAGA ATCAGA ATCAGA ATCAGA ATCAGA ACCAGA
1 ATCAGA ATCAGA ATCAGA ATCAGA ATCAGA ATCAGA ATCAGA ATCAGA
* * *
53044164 ATCAGA ATTAGGTA A-CAGA ATTAGA ATCAGA ATTAGGTA A-CAGA ATCAGA
1 ATCAGA ATCA-G-A ATCAGA ATCAGA ATCAGA ATCA-G-A ATCAGA ATCAGA
53044214 ATCA
1 ATCA
53044218 AAATGTGAAT
Statistics
Matches: 82, Mismatches: 8, Indels: 12
0.80 0.08 0.12
Matches are distributed among these distances:
5 4 0.05
6 70 0.85
7 4 0.05
8 4 0.05
ACGTcount: A:0.49, C:0.15, G:0.18, T:0.19
Consensus pattern (6 bp):
ATCAGA
Found at i:53044184 original size:13 final size:13
Alignment explanation
Indices: 53044166--53044209 Score: 65
Period size: 13 Copynumber: 3.5 Consensus size: 13
53044156 GAACCAGAAT
53044166 CAGAATTAGGTAA
1 CAGAATTAGGTAA
53044179 CAGAATTA-G-AA
1 CAGAATTAGGTAA
53044190 TCAGAATTAGGTAA
1 -CAGAATTAGGTAA
53044204 CAGAAT
1 CAGAAT
53044210 CAGAATCAAA
Statistics
Matches: 28, Mismatches: 0, Indels: 6
0.82 0.00 0.18
Matches are distributed among these distances:
11 2 0.07
12 9 0.32
13 15 0.54
14 2 0.07
ACGTcount: A:0.48, C:0.09, G:0.20, T:0.23
Consensus pattern (13 bp):
CAGAATTAGGTAA
Found at i:53044189 original size:25 final size:25
Alignment explanation
Indices: 53044130--53044217 Score: 126
Period size: 25 Copynumber: 3.6 Consensus size: 25
53044120 GAATCAGAAT
*
53044130 CAGAATCAGAATCAGAATCA-G-AA
1 CAGAATCAGAATCAGAATTAGGTAA
*
53044153 TCAGAACCAGAATCAGAATTAGGTAA
1 -CAGAATCAGAATCAGAATTAGGTAA
*
53044179 CAGAATTAGAATCAGAATTAGGTAA
1 CAGAATCAGAATCAGAATTAGGTAA
53044204 CAGAATCAGAATCA
1 CAGAATCAGAATCA
53044218 AAATGTGAAT
Statistics
Matches: 57, Mismatches: 5, Indels: 3
0.88 0.08 0.05
Matches are distributed among these distances:
24 18 0.32
25 37 0.65
26 2 0.04
ACGTcount: A:0.49, C:0.15, G:0.18, T:0.18
Consensus pattern (25 bp):
CAGAATCAGAATCAGAATTAGGTAA
Found at i:53044388 original size:27 final size:27
Alignment explanation
Indices: 53044335--53044399 Score: 69
Period size: 27 Copynumber: 2.4 Consensus size: 27
53044325 TTGTAGCGAG
*
53044335 GCTACCAGATATTGTGACGAAGTCACCA
1 GCTA-CAGATATTGTGACGAAGCCACCA
* * *
53044363 GCTACAGATATTGTGGCTAGGCCACCA
1 GCTACAGATATTGTGACGAAGCCACCA
*
53044390 G-AACAGATAT
1 GCTACAGATAT
53044400 ATATATGTGG
Statistics
Matches: 32, Mismatches: 5, Indels: 2
0.82 0.13 0.05
Matches are distributed among these distances:
26 8 0.25
27 20 0.62
28 4 0.12
ACGTcount: A:0.32, C:0.23, G:0.23, T:0.22
Consensus pattern (27 bp):
GCTACAGATATTGTGACGAAGCCACCA
Found at i:53044699 original size:27 final size:27
Alignment explanation
Indices: 53044667--53045051 Score: 486
Period size: 27 Copynumber: 14.3 Consensus size: 27
53044657 GGGGCAAAAT
* * * *
53044667 GGTAATTTTACCCCACAAGGGTATCTC
1 GGTAATTCTACCCTACAGGGGTATTTC
*
53044694 GATAATTCTACCCTACAGGGGTATTTC
1 GGTAATTCTACCCTACAGGGGTATTTC
* * *
53044721 GGTATTTCTACCCTAGAAGGGTATTTC
1 GGTAATTCTACCCTACAGGGGTATTTC
* *
53044748 GGTAA-TCTACGCTACAGGGGTATTTA
1 GGTAATTCTACCCTACAGGGGTATTTC
* *
53044774 AGTAATTCTACCCTATAGGGGTATTTC
1 GGTAATTCTACCCTACAGGGGTATTTC
*
53044801 GATAATTCTACCCTACAGGGGTATTTC
1 GGTAATTCTACCCTACAGGGGTATTTC
* *
53044828 AGTAATTCTACCTTACAGGGGTATTTC
1 GGTAATTCTACCCTACAGGGGTATTTC
53044855 GGTAATTCTACCCTACAGGGGTATTTC
1 GGTAATTCTACCCTACAGGGGTATTTC
* *
53044882 GGTAATTCTACCCTATAAGGGTA-TTC
1 GGTAATTCTACCCTACAGGGGTATTTC
53044908 TGGTAATTCTACCCTACAGGGGTATTTC
1 -GGTAATTCTACCCTACAGGGGTATTTC
* * *
53044936 GGTAATTCTACCATATAGGGGTATTGC
1 GGTAATTCTACCCTACAGGGGTATTTC
* *
53044963 GATAATTCTACCCTACAGGGGTATTCC
1 GGTAATTCTACCCTACAGGGGTATTTC
* *
53044990 GGTATTTCTACCCCTACAAGGGTATTTC
1 GGTAATTCTA-CCCTACAGGGGTATTTC
* * *
53045018 GGTATTTCTACCCAACAAGGGTATTTC
1 GGTAATTCTACCCTACAGGGGTATTTC
*
53045045 AGTAATT
1 GGTAATT
53045052 TTGTAAATCG
Statistics
Matches: 310, Mismatches: 44, Indels: 8
0.86 0.12 0.02
Matches are distributed among these distances:
26 24 0.08
27 258 0.83
28 28 0.09
ACGTcount: A:0.25, C:0.21, G:0.20, T:0.34
Consensus pattern (27 bp):
GGTAATTCTACCCTACAGGGGTATTTC
Found at i:53045120 original size:27 final size:27
Alignment explanation
Indices: 53045087--53045320 Score: 251
Period size: 27 Copynumber: 8.7 Consensus size: 27
53045077 TTCTGTATAT
* **
53045087 CAGGGGTACTTTGGTAATTTTACAAGT
1 CAGGGGTATTTTGGTAATTTTACAAAC
*** **
53045114 C-GAGGGTATTTCAATAATTTTAC-AGG
1 CAG-GGGTATTTTGGTAATTTTACAAAC
* ** * *
53045140 TAGAGGGTATTTCAGTAATTTCACAAAT
1 CAG-GGGTATTTTGGTAATTTTACAAAC
* *
53045168 CAGGGGTATTTTGATAATTTTACAAGC
1 CAGGGGTATTTTGGTAATTTTACAAAC
53045195 CAGGGGTATTTTGGTAA--TTACAAAC
1 CAGGGGTATTTTGGTAATTTTACAAAC
53045220 CAGGGGTATTTTGGTAATTTTACAAAC
1 CAGGGGTATTTTGGTAATTTTACAAAC
**
53045247 CAGGGGTATTTTGGTAATTTTGTAAAC
1 CAGGGGTATTTTGGTAATTTTACAAAC
*
53045274 CAAGGGTATTTTGGTAATTTTACAAAC
1 CAGGGGTATTTTGGTAATTTTACAAAC
*
53045301 TAGGGGTATTTTGGTAATTT
1 CAGGGGTATTTTGGTAATTT
53045321 AGTAAACTAA
Statistics
Matches: 176, Mismatches: 26, Indels: 10
0.83 0.12 0.05
Matches are distributed among these distances:
25 24 0.14
26 3 0.02
27 146 0.83
28 3 0.02
ACGTcount: A:0.29, C:0.10, G:0.23, T:0.38
Consensus pattern (27 bp):
CAGGGGTATTTTGGTAATTTTACAAAC
Found at i:53045256 original size:79 final size:80
Alignment explanation
Indices: 53045144--53045320 Score: 248
Period size: 79 Copynumber: 2.2 Consensus size: 80
53045134 TACAGGTAGA
** * * *
53045144 GGGTATTTCAGTAATTTCACAAATCAGGGGTATTTTGATAATTTTACAAGCCAGGGGTATTTTGG
1 GGGTATTTTGGTAATTTCACAAACCAGGGGTATTTTGATAATTTTACAAACCAAGGGTATTTTGG
53045209 TAA-TTACAAACCAG
66 TAATTTACAAACCAG
* * **
53045223 GGGTATTTTGGTAATTTTACAAACCAGGGGTATTTTGGTAATTTTGTAAACCAAGGGTATTTTGG
1 GGGTATTTTGGTAATTTCACAAACCAGGGGTATTTTGATAATTTTACAAACCAAGGGTATTTTGG
*
53045288 TAATTTTACAAACTAG
66 TAA-TTTACAAACCAG
53045304 GGGTATTTTGGTAATTT
1 GGGTATTTTGGTAATTT
53045321 AGTAAACTAA
Statistics
Matches: 86, Mismatches: 10, Indels: 2
0.88 0.10 0.02
Matches are distributed among these distances:
79 59 0.69
81 27 0.31
ACGTcount: A:0.29, C:0.10, G:0.23, T:0.38
Consensus pattern (80 bp):
GGGTATTTTGGTAATTTCACAAACCAGGGGTATTTTGATAATTTTACAAACCAAGGGTATTTTGG
TAATTTACAAACCAG
Found at i:53051416 original size:32 final size:32
Alignment explanation
Indices: 53051379--53051443 Score: 121
Period size: 32 Copynumber: 2.0 Consensus size: 32
53051369 ATCAATCACA
53051379 ATCGAGTTTTCAGGAGTAATCTTCAACGATCT
1 ATCGAGTTTTCAGGAGTAATCTTCAACGATCT
*
53051411 ATCGAGTTTTCAGGAGTAATCTTCGACGATCT
1 ATCGAGTTTTCAGGAGTAATCTTCAACGATCT
53051443 A
1 A
53051444 GTTCTTTTGC
Statistics
Matches: 32, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
32 32 1.00
ACGTcount: A:0.28, C:0.18, G:0.20, T:0.34
Consensus pattern (32 bp):
ATCGAGTTTTCAGGAGTAATCTTCAACGATCT
Found at i:53064089 original size:40 final size:40
Alignment explanation
Indices: 53064034--53064229 Score: 313
Period size: 40 Copynumber: 4.9 Consensus size: 40
53064024 GGATATAGCT
*
53064034 ACTCGCTCAAATGCCTTCGGGACTTAGCCCGGTTATAGTA
1 ACTCGCACAAATGCCTTCGGGACTTAGCCCGGTTATAGTA
*
53064074 ACTCGCACAATTGCCTTCGGGACTTAGCCCGGTTATAGTA
1 ACTCGCACAAATGCCTTCGGGACTTAGCCCGGTTATAGTA
53064114 ACTCGCACAAATGCCTTCGGGACTTAGCCCGGTTATAGTA
1 ACTCGCACAAATGCCTTCGGGACTTAGCCCGGTTATAGTA
* * *
53064154 ACTCGCACAAATGCCTTTGGGACTTAGCCCGG-AATTAGTC
1 ACTCGCACAAATGCCTTCGGGACTTAGCCCGGTTA-TAGTA
* *
53064194 ATTAGCACAAATGCCTTCGGGACTTAGCCCGGTTAT
1 ACTCGCACAAATGCCTTCGGGACTTAGCCCGGTTAT
53064230 CATCCGAATA
Statistics
Matches: 144, Mismatches: 10, Indels: 4
0.91 0.06 0.03
Matches are distributed among these distances:
39 1 0.01
40 142 0.99
41 1 0.01
ACGTcount: A:0.24, C:0.27, G:0.22, T:0.27
Consensus pattern (40 bp):
ACTCGCACAAATGCCTTCGGGACTTAGCCCGGTTATAGTA
Found at i:53072185 original size:40 final size:40
Alignment explanation
Indices: 53072080--53072266 Score: 220
Period size: 40 Copynumber: 4.7 Consensus size: 40
53072070 CATTCCCAAC
* ** * *
53072080 CAAATACCTTCGGGGTTTAG-CCGGATATAGCT-ACTCGCT
1 CAAATGCCTTCGGGACTTAGCCCGGTTATAG-TAACTCGCA
53072119 CAAATGCCTTC-GGACTTAGCCCGGTTATAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGTTATAGTAACTCGCA
*
53072158 CAATTGCCTTCGGGACTTAGCCCGGTTATAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGTTATAGTAACTCGCA
* * * * *
53072198 CAAATGCCTTTGGGACTTAGCCCGG-AATTAGTCATTAGCA
1 CAAATGCCTTCGGGACTTAGCCCGGTTA-TAGTAACTCGCA
*
53072238 CAAATGCCTTCGGGACTTAGCCTGGTTAT
1 CAAATGCCTTCGGGACTTAGCCCGGTTAT
53072267 CATCCGAATA
Statistics
Matches: 128, Mismatches: 15, Indels: 9
0.84 0.10 0.06
Matches are distributed among these distances:
38 7 0.05
39 36 0.28
40 84 0.66
41 1 0.01
ACGTcount: A:0.24, C:0.26, G:0.22, T:0.28
Consensus pattern (40 bp):
CAAATGCCTTCGGGACTTAGCCCGGTTATAGTAACTCGCA
Found at i:53086444 original size:325 final size:325
Alignment explanation
Indices: 53085839--53087173 Score: 1849
Period size: 325 Copynumber: 4.1 Consensus size: 325
53085829 NNATTTATAT
* * * *
53085839 AAAAAAACCACTTTCAATTCTCTCTCAATATACTTGTATAGTAAATTCGTAAATATTTAATAAAA
1 AAAAAAATCTCTTTCAATTCTCTCTCAATATACCTGTATAGTAAATCCGTAAATATTTAATAAAA
* * * * *
53085904 ATATTTTTTTTGCTTAGTTTACAGAAACAAGGTTCCGATATCTCATTTCTCGAAACCACTTGACT
66 ATA-TTTTTTTGCTCAGTTTACAGAAACGAGGTCCCGAAATCTCATTTCACGAAACCACTTGACT
*
53085969 TTCGGGATGAACCTCTTGTACTTAACTATTTGTTCAATTAGCAAAAAATTATCAAATAAAAGATT
130 TTCGGGATGAACCTCTTGTACTTAACTATTTGTTCAATTAGCAAAAAATTATCAAATAAAAGTTT
* *
53086034 ACTAGAAACTATATTTAACTCGTATAAAATAAATAATAATTACGGAATCATTATTAGAATTGTGG
195 ACTAGAAACTATATTTAACTCGTATAAAATAAATAATAATTACAGAATCATTGTTAGAATTGTGG
* * * * * * *
53086099 TTCTGAAACCATTATTTTCAACTCTATTGAAAATGACCTGTTACATCACTCTCAATTCTTTAT-G
260 TCCTAAAACCACTGTTTTCAACTCCATT-AAAATGACCTGTTAGATCACTCTCAATTCTTTATCA
53086163 AA
324 AA
* ** * *
53086165 AAAAATATCAATTTCAATTCTCTCTCAACATACCGGTATAGTAAATCCGTAAATATTTAATAAAA
1 AAAAAAATCTCTTTCAATTCTCTCTCAATATACCTGTATAGTAAATCCGTAAATATTTAATAAAA
* * *
53086230 ATATTTTTTTGCTTAGTTTACAGAAATGATGTCCCGAAATCTCATTTGC-CGAAACCACTTGACT
66 ATATTTTTTTGCTCAGTTTACAGAAACGAGGTCCCGAAATCTCATTT-CACGAAACCACTTGACT
** * * * *
53086294 TTCAAGATGAACCTCATGTACTTAACAATTTGTTCAATTAGCAAAAAGTTATAAAATAAAAGTTT
130 TTCGGGATGAACCTCTTGTACTTAACTATTTGTTCAATTAGCAAAAAATTATCAAATAAAAGTTT
* * * * *
53086359 ACTAGAAACTATATATAACTCGTATAAATTAAATAATAATTATAGAATTATTGTCAGAATTGTGG
195 ACTAGAAACTATATTTAACTCGTATAAAATAAATAATAATTACAGAATCATTGTTAGAATTGTGG
* * *
53086424 TCCTGAAACCACTGTTTTCAACTCCATTAAAATGACATGGTAGATCACTCTCAATTCTTTATCAA
260 TCCTAAAACCACTGTTTTCAACTCCATTAAAATGACCTGTTAGATCACTCTCAATTCTTTATC-A
53086489 AA
324 AA
*
53086491 AAAAAGAATC-CTTTCAATTCTCTCTCAATATACTTGTATAGTAAATCCGTAAATATTTAATAAA
1 AAAAA-AATCTCTTTCAATTCTCTCTCAATATACCTGTATAGTAAATCCGTAAATATTTAATAAA
* * *
53086555 AATATTTTTTTGCTCAGTTTACAGAAACGAGGTCCC-AATATCTCATTTCACGAAACGACATGAG
65 AATATTTTTTTGCTCAGTTTACAGAAACGAGGTCCCGAA-ATCTCATTTCACGAAACCACTTGAC
* * *
53086619 TTTTGGGATGACCCTCTTGTACTTAACTATTTGTTCAATTAGAAAAAAAAATTATCAAATCAAAA
129 TTTCGGGATGAACCTCTTGTACTTAACTATTTGTTCAATTAG--CAAAAAATTATCAAAT-AAAA
* * * * * *
53086684 -TTTACTAAAAACCATATTTAGCTCATATAAAATAACTAATAATTACGGAATCATTGTTAGAATT
191 GTTTACTAGAAACTATATTTAACTCGTATAAAATAAATAATAATTACAGAATCATTGTTAGAATT
* * *
53086748 GTGGTCCTAAAACTACTGTTTTCAACTCCATTGAAATGACCTGTTAGATCACTCTCAATTTTTTA
256 GTGGTCCTAAAACCACTGTTTTCAACTCCATTAAAATGACCTGTTAGATCACTCTCAATTCTTTA
53086813 T-AAA
321 TCAAA
* * *
53086817 AAAATAATCTCTTTCAATTCTATCTCAATATACCTATATAGTAAATCCGTAAATATTTAATAAAA
1 AAAAAAATCTCTTTCAATTCTCTCTCAATATACCTGTATAGTAAATCCGTAAATATTTAATAAAA
* * ** *
53086882 ATA-TTTTTTGCTCAGTTTACAGAAACGAGGTCCCGATATCTCATTTCCCGAAATGACTTAACTT
66 ATATTTTTTTGCTCAGTTTACAGAAACGAGGTCCCGAAATCTCATTTCACGAAACCACTTGACTT
* * * * *
53086946 CCCGGACGAACCTCTTGTACTTAATTATTTGTTCAATTAGCAAATAAA-TATCAAATCAAAGTTT
131 TCGGGATGAACCTCTTGTACTTAACTATTTGTTCAATTAGCAAA-AAATTATCAAATAAAAGTTT
* * *
53087010 ACTAGAAACTATATCTAACTCGTATAAAATAAATAATAACTATAGAATCATTGTTAGAATTGTGG
195 ACTAGAAACTATATTTAACTCGTATAAAATAAATAATAATTACAGAATCATTGTTAGAATTGTGG
*
53087075 TCCTAAAACCACTGTTTTCAACTCCACTAAAATGACCTGTTAGATCACTCTCAATTCTTTATCAA
260 TCCTAAAACCACTGTTTTCAACTCCATTAAAATGACCTGTTAGATCACTCTCAATTCTTTATCAA
53087140 CA
325 -A
53087142 AAAAAAATCTCTTTCAATTCTCTCTCAATATA
1 AAAAAAATCTCTTTCAATTCTCTCTCAATATA
53087174 TCCGTAATGT
Statistics
Matches: 890, Mismatches: 104, Indels: 31
0.87 0.10 0.03
Matches are distributed among these distances:
322 3 0.00
323 128 0.14
324 36 0.04
325 319 0.36
326 271 0.30
327 3 0.00
328 126 0.14
329 4 0.00
ACGTcount: A:0.38, C:0.17, G:0.10, T:0.35
Consensus pattern (325 bp):
AAAAAAATCTCTTTCAATTCTCTCTCAATATACCTGTATAGTAAATCCGTAAATATTTAATAAAA
ATATTTTTTTGCTCAGTTTACAGAAACGAGGTCCCGAAATCTCATTTCACGAAACCACTTGACTT
TCGGGATGAACCTCTTGTACTTAACTATTTGTTCAATTAGCAAAAAATTATCAAATAAAAGTTTA
CTAGAAACTATATTTAACTCGTATAAAATAAATAATAATTACAGAATCATTGTTAGAATTGTGGT
CCTAAAACCACTGTTTTCAACTCCATTAAAATGACCTGTTAGATCACTCTCAATTCTTTATCAAA
Found at i:53086978 original size:651 final size:652
Alignment explanation
Indices: 53085839--53087173 Score: 2000
Period size: 651 Copynumber: 2.0 Consensus size: 652
53085829 NNATTTATAT
* * *
53085839 AAAAAAACCACTTTCAATTCTCTCTCAATATACTTGTATAGTAAATTCGTAAATATTTAATAAAA
1 AAAAAAATCTCTTTCAATTCTCTCTCAATATACTTGTATAGTAAATCCGTAAATATTTAATAAAA
* * * * *
53085904 ATATTTTTTTTGCTTAGTTTACAGAAACAAGGTTCCGATATCTCATTTCTCGAAACCACTTGACT
66 ATATTTTTTTTGCTCAGTTTACAGAAACAAGGTCCCAATATCTCATTTCACGAAACCACATGACT
*
53085969 TTCGGGATGAACCTCTTGTACTTAACTATTTGTTCAATTAGCAAAAAATTATCAAATAAAAGATT
131 TTCGGGATGAACCTCTTGTACTTAACTATTTGTTCAATTAGAAAAAAATTATCAAATAAAAGATT
* * *
53086034 ACTAGAAACTATATTTAACTCGTATAAAATAAATAATAATTACGGAATCATTATTAGAATTGTGG
196 ACTAAAAACCATATTTAACTCATATAAAATAAATAATAATTACGGAATCATTATTAGAATTGTGG
* * * *
53086099 TTCTGAAACCATTATTTTCAACTCTATTGAAAATGACCTGTTACATCACTCTCAATTCTTTATGA
261 TCCTAAAACCACTATTTTCAACTCCATTGAAAATGACCTGTTACATCACTCTCAATTCTTTATGA
* *
53086164 AAAAAATATCAATTTCAATTCTCTCTCAACATACCGGTATAGTAAATCCGTAAATATTTAATAAA
326 AAAAAATATCAATTTCAATTCTATCTCAACATACCGATATAGTAAATCCGTAAATATTTAATAAA
* * * * *
53086229 AATATTTTTTTGCTTAGTTTACAGAAATGATGTCCCGAAATCTCATTTGCCGAAACCACTTGACT
391 AATATTTTTTTGCTCAGTTTACAGAAACGAGGTCCCGAAATCTCATTTCCCGAAACCACTTAACT
* * *
53086294 TTCAAGATGAACCTCATGTACTTAACAATTTGTTCAATTAGCAAA-AAGTTATAAAATAAAAGTT
456 TCCAAGACGAACCTCATGTACTTAACAATTTGTTCAATTAGCAAATAA-ATATAAAATAAAAGTT
* * *
53086358 TACTAGAAACTATATATAACTCGTATAAATTAAATAATAATTATAGAATTATTGTCAGAATTGTG
520 TACTAGAAACTATATATAACTCGTATAAAATAAATAATAACTATAGAATCATTGTCAGAATTGTG
* *
53086423 GTCCTGAAACCACTGTTTTCAACTCCATTAAAATGACATGGTAGATCACTCTCAATTCTTTATCA
585 GTCCTAAAACCACTGTTTTCAACTCCACTAAAATGACATGGTAGATCACTCTCAATTCTTTATCA
53086488 AAA
650 AAA
53086491 AAAAAGAATC-CTTTCAATTCTCTCTCAATATACTTGTATAGTAAATCCGTAAATATTTAATAAA
1 AAAAA-AATCTCTTTCAATTCTCTCTCAATATACTTGTATAGTAAATCCGTAAATATTTAATAAA
* * *
53086555 AATA-TTTTTTTGCTCAGTTTACAGAAACGAGGTCCCAATATCTCATTTCACGAAACGACATGAG
65 AATATTTTTTTTGCTCAGTTTACAGAAACAAGGTCCCAATATCTCATTTCACGAAACCACATGAC
* *
53086619 TTTTGGGATGACCCTCTTGTACTTAACTATTTGTTCAATTAGAAAAAAAAATTATCAAATCAAAA
130 TTTCGGGATGAACCTCTTGTACTTAACTATTTGTTCAATTAG--AAAAAAATTATCAAAT-AAAA
* * * *
53086684 -TTTACTAAAAACCATATTTAGCTCATATAAAATAACTAATAATTACGGAATCATTGTTAGAATT
192 GATTACTAAAAACCATATTTAACTCATATAAAATAAATAATAATTACGGAATCATTATTAGAATT
* * * *
53086748 GTGGTCCTAAAACTACTGTTTTCAACTCCATTG-AAATGACCTGTTAGATCACTCTCAATTTTTT
257 GTGGTCCTAAAACCACTATTTTCAACTCCATTGAAAATGACCTGTTACATCACTCTCAATTCTTT
** * *
53086812 AT-AAAAAAATAATCTCTTTCAATTCTATCTCAATATACCTATATAGTAAATCCGTAAATATTTA
322 ATGAAAAAAAT-ATCAATTTCAATTCTATCTCAACATACCGATATAGTAAATCCGTAAATATTTA
* **
53086876 ATAAAAATA-TTTTTTGCTCAGTTTACAGAAACGAGGTCCCGATATCTCATTTCCCGAAATGACT
386 ATAAAAATATTTTTTTGCTCAGTTTACAGAAACGAGGTCCCGAAATCTCATTTCCCGAAACCACT
** * ** * *
53086940 TAACTTCCCGGACGAACCTCTTGTACTTAATTATTTGTTCAATTAGCAAATAAATATCAAATCAA
451 TAACTTCCAAGACGAACCTCATGTACTTAACAATTTGTTCAATTAGCAAATAAATATAAAATAAA
* *
53087005 AGTTTACTAGAAACTATATCTAACTCGTATAAAATAAATAATAACTATAGAATCATTGTTAGAAT
516 AGTTTACTAGAAACTATATATAACTCGTATAAAATAAATAATAACTATAGAATCATTGTCAGAAT
* *
53087070 TGTGGTCCTAAAACCACTGTTTTCAACTCCACTAAAATGACCTGTTAGATCACTCTCAATTCTTT
581 TGTGGTCCTAAAACCACTGTTTTCAACTCCACTAAAATGACATGGTAGATCACTCTCAATTCTTT
*
53087135 ATCAACA
646 ATCAAAA
53087142 AAAAAAATCTCTTTCAATTCTCTCTCAATATA
1 AAAAAAATCTCTTTCAATTCTCTCTCAATATA
53087174 TCCGTAATGT
Statistics
Matches: 614, Mismatches: 62, Indels: 15
0.89 0.09 0.02
Matches are distributed among these distances:
650 4 0.01
651 353 0.57
652 151 0.25
653 102 0.17
654 4 0.01
ACGTcount: A:0.38, C:0.17, G:0.10, T:0.35
Consensus pattern (652 bp):
AAAAAAATCTCTTTCAATTCTCTCTCAATATACTTGTATAGTAAATCCGTAAATATTTAATAAAA
ATATTTTTTTTGCTCAGTTTACAGAAACAAGGTCCCAATATCTCATTTCACGAAACCACATGACT
TTCGGGATGAACCTCTTGTACTTAACTATTTGTTCAATTAGAAAAAAATTATCAAATAAAAGATT
ACTAAAAACCATATTTAACTCATATAAAATAAATAATAATTACGGAATCATTATTAGAATTGTGG
TCCTAAAACCACTATTTTCAACTCCATTGAAAATGACCTGTTACATCACTCTCAATTCTTTATGA
AAAAAATATCAATTTCAATTCTATCTCAACATACCGATATAGTAAATCCGTAAATATTTAATAAA
AATATTTTTTTGCTCAGTTTACAGAAACGAGGTCCCGAAATCTCATTTCCCGAAACCACTTAACT
TCCAAGACGAACCTCATGTACTTAACAATTTGTTCAATTAGCAAATAAATATAAAATAAAAGTTT
ACTAGAAACTATATATAACTCGTATAAAATAAATAATAACTATAGAATCATTGTCAGAATTGTGG
TCCTAAAACCACTGTTTTCAACTCCACTAAAATGACATGGTAGATCACTCTCAATTCTTTATCAA
AA
Found at i:53088127 original size:20 final size:21
Alignment explanation
Indices: 53088083--53088133 Score: 68
Period size: 21 Copynumber: 2.5 Consensus size: 21
53088073 TTGAAGTGTT
* **
53088083 AAAAAAAAGTTCAAAATTTGC
1 AAAAAAAAGTACAAAATTTAA
53088104 AAAAAAAAGTACAAAA-TTAA
1 AAAAAAAAGTACAAAATTTAA
53088124 AAAAAAAAGT
1 AAAAAAAAGT
53088134 GAATTAGTGT
Statistics
Matches: 27, Mismatches: 3, Indels: 1
0.87 0.10 0.03
Matches are distributed among these distances:
20 12 0.44
21 15 0.56
ACGTcount: A:0.69, C:0.06, G:0.08, T:0.18
Consensus pattern (21 bp):
AAAAAAAAGTACAAAATTTAA
Found at i:53090683 original size:17 final size:17
Alignment explanation
Indices: 53090663--53090695 Score: 57
Period size: 17 Copynumber: 1.9 Consensus size: 17
53090653 AAAAGAGTGT
53090663 GAAAGAAAAAAAGAAAA
1 GAAAGAAAAAAAGAAAA
*
53090680 GAAAGAAAAAGAGAAA
1 GAAAGAAAAAAAGAAA
53090696 GACTGTGAAA
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
17 15 1.00
ACGTcount: A:0.79, C:0.00, G:0.21, T:0.00
Consensus pattern (17 bp):
GAAAGAAAAAAAGAAAA
Found at i:53090727 original size:19 final size:19
Alignment explanation
Indices: 53090704--53090748 Score: 65
Period size: 20 Copynumber: 2.3 Consensus size: 19
53090694 AAGACTGTGA
53090704 AAAAAGAAAAA-GAGAATGTG
1 AAAAAGAAAAATGA-AAT-TG
53090724 AAAAAGAAAAATGAAATTG
1 AAAAAGAAAAATGAAATTG
53090743 AAAAAG
1 AAAAAG
53090749 TATAAGAATC
Statistics
Matches: 24, Mismatches: 0, Indels: 3
0.89 0.00 0.11
Matches are distributed among these distances:
19 8 0.33
20 14 0.58
21 2 0.08
ACGTcount: A:0.69, C:0.00, G:0.20, T:0.11
Consensus pattern (19 bp):
AAAAAGAAAAATGAAATTG
Found at i:53094535 original size:30 final size:30
Alignment explanation
Indices: 53094501--53094597 Score: 106
Period size: 30 Copynumber: 3.2 Consensus size: 30
53094491 AGCTCACTCC
53094501 TAGCTCATA-TTCAGCTCACGAGCTAAACCT
1 TAGCTCA-ACTTCAGCTCACGAGCTAAACCT
* * * * *
53094531 TAGCTCAACTTCAGCTTAGGAGTTTAGCCT
1 TAGCTCAACTTCAGCTCACGAGCTAAACCT
* * *
53094561 CAGCTCAACTTTAGCTCACGAGCTAAAGCT
1 TAGCTCAACTTCAGCTCACGAGCTAAACCT
53094591 TAGCTCA
1 TAGCTCA
53094598 TTTTAGTTTA
Statistics
Matches: 52, Mismatches: 14, Indels: 2
0.76 0.21 0.03
Matches are distributed among these distances:
29 1 0.02
30 51 0.98
ACGTcount: A:0.28, C:0.28, G:0.16, T:0.28
Consensus pattern (30 bp):
TAGCTCAACTTCAGCTCACGAGCTAAACCT
Found at i:53097693 original size:17 final size:18
Alignment explanation
Indices: 53097656--53097693 Score: 51
Period size: 17 Copynumber: 2.2 Consensus size: 18
53097646 GATTGAGAGT
* *
53097656 GAAAAGGAATGTGAAACA
1 GAAAAGAAATGTGAAAAA
53097674 GAAAAGAAAT-TGAAAAA
1 GAAAAGAAATGTGAAAAA
53097691 GAA
1 GAA
53097694 GTTGAAGAAA
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
17 9 0.50
18 9 0.50
ACGTcount: A:0.63, C:0.03, G:0.24, T:0.11
Consensus pattern (18 bp):
GAAAAGAAATGTGAAAAA
Found at i:53097706 original size:13 final size:12
Alignment explanation
Indices: 53097675--53097729 Score: 51
Period size: 12 Copynumber: 4.6 Consensus size: 12
53097665 TGTGAAACAG
*
53097675 AAAAGAAATTGA
1 AAAAGAAGTTGA
53097687 AAAAGAAGTTGA
1 AAAAGAAGTTGA
*
53097699 AGAAAGAAG-AGA
1 A-AAAGAAGTTGA
*
53097711 AAATGAA-TTAGA
1 AAAAGAAGTT-GA
53097723 AAAAGAA
1 AAAAGAA
53097730 ACAAAAGAAA
Statistics
Matches: 35, Mismatches: 5, Indels: 6
0.76 0.11 0.13
Matches are distributed among these distances:
11 5 0.14
12 23 0.66
13 7 0.20
ACGTcount: A:0.65, C:0.00, G:0.22, T:0.13
Consensus pattern (12 bp):
AAAAGAAGTTGA
Found at i:53101082 original size:12 final size:13
Alignment explanation
Indices: 53101065--53101106 Score: 54
Period size: 11 Copynumber: 3.4 Consensus size: 13
53101055 TATACAAGTC
53101065 AAAAAAA-TCAAA
1 AAAAAAATTCAAA
53101077 AAAAAAATTC--A
1 AAAAAAATTCAAA
53101088 AAAAAAATTCGAAA
1 AAAAAAATTC-AAA
53101102 AAAAA
1 AAAAA
53101107 TCTGGAAAAA
Statistics
Matches: 26, Mismatches: 0, Indels: 6
0.81 0.00 0.19
Matches are distributed among these distances:
11 11 0.42
12 7 0.27
13 2 0.08
14 6 0.23
ACGTcount: A:0.79, C:0.07, G:0.02, T:0.12
Consensus pattern (13 bp):
AAAAAAATTCAAA
Found at i:53101083 original size:13 final size:13
Alignment explanation
Indices: 53101065--53101094 Score: 51
Period size: 13 Copynumber: 2.3 Consensus size: 13
53101055 TATACAAGTC
53101065 AAAAAAATCAAAA
1 AAAAAAATCAAAA
*
53101078 AAAAAATTCAAAA
1 AAAAAAATCAAAA
53101091 AAAA
1 AAAA
53101095 TTCGAAAAAA
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:0.83, C:0.07, G:0.00, T:0.10
Consensus pattern (13 bp):
AAAAAAATCAAAA
Found at i:53101103 original size:13 final size:12
Alignment explanation
Indices: 53101065--53101107 Score: 54
Period size: 12 Copynumber: 3.7 Consensus size: 12
53101055 TATACAAGTC
53101065 AAAAAAA-TCAAA
1 AAAAAAATTC-AA
53101077 AAAAAAATTC-A
1 AAAAAAATTCAA
*
53101088 AAAAAAATTCGA
1 AAAAAAATTCAA
53101100 AAAAAAAT
1 AAAAAAAT
53101108 CTGGAAAAAA
Statistics
Matches: 29, Mismatches: 0, Indels: 4
0.88 0.00 0.12
Matches are distributed among these distances:
11 11 0.38
12 16 0.55
13 2 0.07
ACGTcount: A:0.77, C:0.07, G:0.02, T:0.14
Consensus pattern (12 bp):
AAAAAAATTCAA
Found at i:53101114 original size:13 final size:12
Alignment explanation
Indices: 53101076--53101118 Score: 61
Period size: 11 Copynumber: 3.6 Consensus size: 12
53101066 AAAAAATCAA
53101076 AAAAAAAATTC-
1 AAAAAAAATTCG
53101087 AAAAAAAATTCG
1 AAAAAAAATTCG
*
53101099 AAAAAAAATCTGG
1 AAAAAAAAT-TCG
53101112 AAAAAAA
1 AAAAAAA
53101119 GTGTTTAATG
Statistics
Matches: 29, Mismatches: 1, Indels: 2
0.91 0.03 0.06
Matches are distributed among these distances:
11 11 0.38
12 9 0.31
13 9 0.31
ACGTcount: A:0.72, C:0.07, G:0.07, T:0.14
Consensus pattern (12 bp):
AAAAAAAATTCG
Found at i:53102179 original size:30 final size:31
Alignment explanation
Indices: 53102145--53102215 Score: 85
Period size: 30 Copynumber: 2.4 Consensus size: 31
53102135 AAAAGAAAAA
**
53102145 GAAAAAGAAA-ATGAGATTGAAAAAGAGAG-T
1 GAAAAAGAAATATGAGAGAGAAAAAGA-AGTT
*
53102175 G-AAAAGAAATTTGAGAGAGAAAAAGAAGTT
1 GAAAAAGAAATATGAGAGAGAAAAAGAAGTT
53102205 GAAAAAGAAAT
1 GAAAAAGAAAT
53102216 TGAAATAAAA
Statistics
Matches: 35, Mismatches: 3, Indels: 5
0.81 0.07 0.12
Matches are distributed among these distances:
29 10 0.29
30 16 0.46
31 9 0.26
ACGTcount: A:0.61, C:0.00, G:0.25, T:0.14
Consensus pattern (31 bp):
GAAAAAGAAATATGAGAGAGAAAAAGAAGTT
Found at i:53104340 original size:30 final size:30
Alignment explanation
Indices: 53104306--53104402 Score: 83
Period size: 30 Copynumber: 3.2 Consensus size: 30
53104296 TGAGCTAAAC
53104306 CGAGCT-CACTCCTAGCTCATA-TTCAGCTCA
1 CGAGCTACAC-CCTAGCTCA-ACTTCAGCTCA
* *
53104336 CGAGCTACACCTTAGCTCAACTTCAGCTTA
1 CGAGCTACACCCTAGCTCAACTTCAGCTCA
* ** * *
53104366 GGAG-TTTAGCCTCAGCTCAACTTTAGCTCA
1 CGAGCTACACCCT-AGCTCAACTTCAGCTCA
53104396 CGAGCTA
1 CGAGCTA
53104403 AAGCTTAGTT
Statistics
Matches: 52, Mismatches: 11, Indels: 7
0.74 0.16 0.10
Matches are distributed among these distances:
29 5 0.10
30 43 0.83
31 4 0.08
ACGTcount: A:0.25, C:0.32, G:0.16, T:0.27
Consensus pattern (30 bp):
CGAGCTACACCCTAGCTCAACTTCAGCTCA
Found at i:53106657 original size:20 final size:20
Alignment explanation
Indices: 53106610--53106657 Score: 51
Period size: 20 Copynumber: 2.4 Consensus size: 20
53106600 AGTAAGCTCG
53106610 GTTGAGCTCAAACGAGCTGA
1 GTTGAGCTCAAACGAGCTGA
**** *
53106630 AACAAGCTCAAATGAGCTGA
1 GTTGAGCTCAAACGAGCTGA
53106650 GTTGAGCT
1 GTTGAGCT
53106658 GGACGGTGCT
Statistics
Matches: 19, Mismatches: 9, Indels: 0
0.68 0.32 0.00
Matches are distributed among these distances:
20 19 1.00
ACGTcount: A:0.33, C:0.19, G:0.27, T:0.21
Consensus pattern (20 bp):
GTTGAGCTCAAACGAGCTGA
Found at i:53108327 original size:11 final size:12
Alignment explanation
Indices: 53108297--53108328 Score: 55
Period size: 12 Copynumber: 2.7 Consensus size: 12
53108287 TTTCACTCTT
53108297 CTCTTTTTCAAA
1 CTCTTTTTCAAA
53108309 CTCTTTTTCAAA
1 CTCTTTTTCAAA
*
53108321 TTCTTTTT
1 CTCTTTTT
53108329 TCGCTTTTTC
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
12 19 1.00
ACGTcount: A:0.19, C:0.22, G:0.00, T:0.59
Consensus pattern (12 bp):
CTCTTTTTCAAA
Found at i:53108340 original size:27 final size:27
Alignment explanation
Indices: 53108310--53108371 Score: 74
Period size: 27 Copynumber: 2.3 Consensus size: 27
53108300 TTTTTCAAAC
*
53108310 TCTTTTTCAAATTCTT-TTTTC-GCTTTT
1 TCTTTTTC-AATT-TTCTTTTCTGCATTT
*
53108337 TCTTTTTCAATTTTCTTTTCTTCATTT
1 TCTTTTTCAATTTTCTTTTCTGCATTT
53108364 TCTTTTTC
1 TCTTTTTC
53108372 TCTCTCTTTT
Statistics
Matches: 31, Mismatches: 2, Indels: 4
0.84 0.05 0.11
Matches are distributed among these distances:
25 2 0.06
26 9 0.29
27 20 0.65
ACGTcount: A:0.10, C:0.19, G:0.02, T:0.69
Consensus pattern (27 bp):
TCTTTTTCAATTTTCTTTTCTGCATTT
Found at i:53108363 original size:14 final size:14
Alignment explanation
Indices: 53108312--53108370 Score: 52
Period size: 14 Copynumber: 4.3 Consensus size: 14
53108302 TTTCAAACTC
*
53108312 TTTTTCAA-ATTCT
1 TTTTTCAATTTTCT
**
53108325 TTTTTCGCTTTT-T
1 TTTTTCAATTTTCT
53108338 CTTTTTCAATTTTCT
1 -TTTTTCAATTTTCT
53108353 TTTCTTC-ATTTTCT
1 TTT-TTCAATTTTCT
53108367 TTTT
1 TTTT
53108371 CTCTCTCTTT
Statistics
Matches: 37, Mismatches: 5, Indels: 8
0.74 0.10 0.16
Matches are distributed among these distances:
13 8 0.22
14 25 0.68
15 4 0.11
ACGTcount: A:0.10, C:0.17, G:0.02, T:0.71
Consensus pattern (14 bp):
TTTTTCAATTTTCT
Found at i:53109520 original size:14 final size:15
Alignment explanation
Indices: 53109483--53109534 Score: 54
Period size: 15 Copynumber: 3.5 Consensus size: 15
53109473 TTTAACTTGA
53109483 TTTTTTTTTGCTCAC
1 TTTTTTTTTGCTCAC
**
53109498 TTTTTTTTT-CTTTC
1 TTTTTTTTTGCTCAC
53109512 TTTTTTTTTTGCTCGA-
1 -TTTTTTTTTGCTC-AC
53109528 TTTTTTT
1 TTTTTTT
53109535 CACTTCTTTT
Statistics
Matches: 30, Mismatches: 4, Indels: 6
0.75 0.10 0.15
Matches are distributed among these distances:
14 3 0.10
15 25 0.83
16 2 0.07
ACGTcount: A:0.04, C:0.13, G:0.06, T:0.77
Consensus pattern (15 bp):
TTTTTTTTTGCTCAC
Found at i:53109541 original size:29 final size:29
Alignment explanation
Indices: 53109464--53109546 Score: 87
Period size: 30 Copynumber: 2.8 Consensus size: 29
53109454 GCAAGACTTT
**
53109464 TCACTTTTTTTTAACTTGATTTTTTTTTGC
1 TCAC-TTTTTTTAACTTCTTTTTTTTTTGC
**
53109494 TCACTTTTTTTTTCTTTCTTTTTTTTTTGC
1 TCACTTTTTTTAAC-TTCTTTTTTTTTTGC
*
53109524 TCGA-TTTTTTTCACTTCTTTTTT
1 TC-ACTTTTTTTAACTTCTTTTTT
53109547 GAATTTTTTT
Statistics
Matches: 45, Mismatches: 6, Indels: 5
0.80 0.11 0.09
Matches are distributed among these distances:
29 17 0.38
30 27 0.60
31 1 0.02
ACGTcount: A:0.08, C:0.16, G:0.05, T:0.71
Consensus pattern (29 bp):
TCACTTTTTTTAACTTCTTTTTTTTTTGC
Found at i:53114011 original size:30 final size:30
Alignment explanation
Indices: 53113977--53114073 Score: 106
Period size: 30 Copynumber: 3.2 Consensus size: 30
53113967 AGCTCACTCC
*
53113977 TAGCTC-ACTTTCAACTCACGAGCTAAACCT
1 TAGCTCAACTTT-AGCTCACGAGCTAAACCT
* * * * *
53114007 TAGCTCAACTTTAGCTTAGGAGTTTAGCCT
1 TAGCTCAACTTTAGCTCACGAGCTAAACCT
* *
53114037 TAGCTCAACTTTAGCTCACAAGCTAAAGCT
1 TAGCTCAACTTTAGCTCACGAGCTAAACCT
53114067 TAGCTCA
1 TAGCTCA
53114074 TTTTAGTTTA
Statistics
Matches: 53, Mismatches: 13, Indels: 2
0.78 0.19 0.03
Matches are distributed among these distances:
30 48 0.91
31 5 0.09
ACGTcount: A:0.29, C:0.27, G:0.14, T:0.30
Consensus pattern (30 bp):
TAGCTCAACTTTAGCTCACGAGCTAAACCT
Found at i:53115794 original size:11 final size:11
Alignment explanation
Indices: 53115778--53115818 Score: 55
Period size: 11 Copynumber: 3.5 Consensus size: 11
53115768 TATACAAGTC
53115778 AAAAAATTCAA
1 AAAAAATTCAA
53115789 AAAAAATTCAA
1 AAAAAATTCAA
*
53115800 AAAAATTTCGAA
1 AAAAAATTC-AA
53115812 AAGAAAA
1 AA-AAAA
53115819 AAAAATCTGA
Statistics
Matches: 26, Mismatches: 2, Indels: 2
0.87 0.07 0.07
Matches are distributed among these distances:
11 19 0.73
12 4 0.15
13 3 0.12
ACGTcount: A:0.71, C:0.07, G:0.05, T:0.17
Consensus pattern (11 bp):
AAAAAATTCAA
Found at i:53115835 original size:17 final size:19
Alignment explanation
Indices: 53115798--53115835 Score: 53
Period size: 19 Copynumber: 2.1 Consensus size: 19
53115788 AAAAAAATTC
*
53115798 AAAAAAATTTCGAAAAGAA
1 AAAAAAATCTCGAAAAGAA
53115817 AAAAAAATCT-GAAAA-AA
1 AAAAAAATCTCGAAAAGAA
53115834 AA
1 AA
53115836 TGTGTTTAAT
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
17 4 0.22
18 5 0.28
19 9 0.50
ACGTcount: A:0.74, C:0.05, G:0.08, T:0.13
Consensus pattern (19 bp):
AAAAAAATCTCGAAAAGAA
Found at i:53116766 original size:21 final size:20
Alignment explanation
Indices: 53116732--53116799 Score: 66
Period size: 21 Copynumber: 3.2 Consensus size: 20
53116722 ACATTCTTGT
53116732 AAAGAGAAAA-CAAAGAAAAGA
1 AAAGA-AAAAGCAAA-AAAAGA
*
53116753 AAAGAAAAAGCAAAAGAAGAA
1 AAAGAAAAAGCAAAAAAAG-A
* *
53116774 AAAGAAAACGAAATAAAAAGA
1 AAAGAAAAAGCAA-AAAAAGA
53116795 AAAGA
1 AAAGA
53116800 GAGGCAAGAG
Statistics
Matches: 40, Mismatches: 4, Indels: 6
0.80 0.08 0.12
Matches are distributed among these distances:
20 8 0.20
21 27 0.68
22 5 0.12
ACGTcount: A:0.76, C:0.04, G:0.18, T:0.01
Consensus pattern (20 bp):
AAAGAAAAAGCAAAAAAAGA
Found at i:53116767 original size:6 final size:5
Alignment explanation
Indices: 53116743--53116799 Score: 55
Period size: 5 Copynumber: 11.0 Consensus size: 5
53116733 AAGAGAAAAC
*
53116743 AAAGA AAAGA AAAGAA AAAGCA AAAGA AGA-A AAAGA AAACGA AATA-A
1 AAAGA AAAGA AAAG-A AAAG-A AAAGA AAAGA AAAGA AAA-GA AA-AGA
53116790 AAAGA AAAGA
1 AAAGA AAAGA
53116800 GAGGCAAGAG
Statistics
Matches: 44, Mismatches: 3, Indels: 10
0.77 0.05 0.18
Matches are distributed among these distances:
4 4 0.09
5 25 0.57
6 14 0.32
7 1 0.02
ACGTcount: A:0.77, C:0.04, G:0.18, T:0.02
Consensus pattern (5 bp):
AAAGA
Found at i:53116774 original size:15 final size:14
Alignment explanation
Indices: 53116743--53116799 Score: 60
Period size: 16 Copynumber: 3.7 Consensus size: 14
53116733 AAGAGAAAAC
53116743 AAAGAAAAGAAAAGAA
1 AAAGAAAAG--AAGAA
53116759 AAAGCAAAAGAAGAA
1 AAAG-AAAAGAAGAA
*
53116774 AAAGAAAACGAAATAA
1 AAAGAAAA-G-AAGAA
53116790 AAAGAAAAGA
1 AAAGAAAAGA
53116800 GAGGCAAGAG
Statistics
Matches: 37, Mismatches: 1, Indels: 8
0.80 0.02 0.17
Matches are distributed among these distances:
14 5 0.14
15 11 0.30
16 16 0.43
17 5 0.14
ACGTcount: A:0.77, C:0.04, G:0.18, T:0.02
Consensus pattern (14 bp):
AAAGAAAAGAAGAA
Found at i:53116876 original size:12 final size:12
Alignment explanation
Indices: 53116868--53116892 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
53116858 TTTGAAAAGC
53116868 AAAAAGAAAATG
1 AAAAAGAAAATG
53116880 AAAAAGAAAATG
1 AAAAAGAAAATG
53116892 A
1 A
53116893 GATTGAAAAA
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 13 1.00
ACGTcount: A:0.76, C:0.00, G:0.16, T:0.08
Consensus pattern (12 bp):
AAAAAGAAAATG
Found at i:53116889 original size:18 final size:18
Alignment explanation
Indices: 53116862--53116917 Score: 51
Period size: 18 Copynumber: 3.1 Consensus size: 18
53116852 AAAGCCTTTG
53116862 AAAAGCAAAAAGAAAATGA
1 AAAAG-AAAAAGAAAATGA
* * *
53116881 AAAAGAAAATGAGATTGA
1 AAAAGAAAAAGAAAATGA
* *
53116899 AAAAGAGAACGAAAA-GA
1 AAAAGAAAAAGAAAATGA
53116916 AA
1 AA
53116918 TTTGAGAGTG
Statistics
Matches: 30, Mismatches: 7, Indels: 2
0.77 0.18 0.05
Matches are distributed among these distances:
17 4 0.13
18 21 0.70
19 5 0.17
ACGTcount: A:0.70, C:0.04, G:0.20, T:0.07
Consensus pattern (18 bp):
AAAAGAAAAAGAAAATGA
Found at i:53116902 original size:30 final size:31
Alignment explanation
Indices: 53116868--53116949 Score: 105
Period size: 30 Copynumber: 2.7 Consensus size: 31
53116858 TTTGAAAAGC
*
53116868 AAAAAGAAAATGAAAAAGAAA-ATGAGATTG
1 AAAAAGAAAATGAAAAAGAAATATGAGAGTG
* * *
53116898 AAAAAGAGAACG-AAAAGAAATTTGAGAGTG
1 AAAAAGAAAATGAAAAAGAAATATGAGAGTG
*
53116928 AAAAAGAAGATGAAAAAGAAAT
1 AAAAAGAAAATGAAAAAGAAAT
53116950 TGAAACAAAA
Statistics
Matches: 43, Mismatches: 7, Indels: 3
0.81 0.13 0.06
Matches are distributed among these distances:
29 8 0.19
30 26 0.60
31 9 0.21
ACGTcount: A:0.65, C:0.01, G:0.22, T:0.12
Consensus pattern (31 bp):
AAAAAGAAAATGAAAAAGAAATATGAGAGTG
Found at i:53120090 original size:30 final size:31
Alignment explanation
Indices: 53120056--53120152 Score: 101
Period size: 30 Copynumber: 3.2 Consensus size: 31
53120046 AGCTCACTCC
*
53120056 TAGCTC-ACTTTCAACTCACGAGCTAAACCT
1 TAGCTCAACTTTCAGCTCACGAGCTAAACCT
* * * * *
53120086 TAGCTCAAC-TTCAGCTTAGGAGTTTAGCCT
1 TAGCTCAACTTTCAGCTCACGAGCTAAACCT
* *
53120116 CAGCTCAACTTT-AGCTCACGAGCTAAAGCT
1 TAGCTCAACTTTCAGCTCACGAGCTAAACCT
53120146 TAGCTCA
1 TAGCTCA
53120153 TTTTAGTTTA
Statistics
Matches: 51, Mismatches: 14, Indels: 4
0.74 0.20 0.06
Matches are distributed among these distances:
30 47 0.92
31 4 0.08
ACGTcount: A:0.28, C:0.29, G:0.15, T:0.28
Consensus pattern (31 bp):
TAGCTCAACTTTCAGCTCACGAGCTAAACCT
Found at i:53125780 original size:21 final size:21
Alignment explanation
Indices: 53125751--53125806 Score: 51
Period size: 21 Copynumber: 2.7 Consensus size: 21
53125741 CAAGCTCGCT
*
53125751 TTCAATTTCTTTTTTCGCTTT-
1 TTCATTTTCTTTTTTC-CTTTC
* ** *
53125772 TTCTTTTTCAATTTTCTTTTC
1 TTCATTTTCTTTTTTCCTTTC
53125793 TTCATTTTCTTTTT
1 TTCATTTTCTTTTT
53125807 CTCTCACTTT
Statistics
Matches: 26, Mismatches: 8, Indels: 2
0.72 0.22 0.06
Matches are distributed among these distances:
20 3 0.12
21 23 0.88
ACGTcount: A:0.09, C:0.18, G:0.02, T:0.71
Consensus pattern (21 bp):
TTCATTTTCTTTTTTCCTTTC
Found at i:53125799 original size:14 final size:14
Alignment explanation
Indices: 53125750--53125806 Score: 57
Period size: 14 Copynumber: 4.1 Consensus size: 14
53125740 TCAAGCTCGC
53125750 TTTCAA-TTTCTTT
1 TTTCAATTTTCTTT
**
53125763 TTTCGCTTTT-TCTT
1 TTTCAATTTTCT-TT
53125777 TTTCAATTTTCTTT
1 TTTCAATTTTCTTT
53125791 TCTTC-ATTTTCTTT
1 T-TTCAATTTTCTTT
53125805 TT
1 TT
53125807 CTCTCACTTT
Statistics
Matches: 36, Mismatches: 4, Indels: 8
0.75 0.08 0.17
Matches are distributed among these distances:
13 6 0.17
14 26 0.72
15 4 0.11
ACGTcount: A:0.09, C:0.18, G:0.02, T:0.72
Consensus pattern (14 bp):
TTTCAATTTTCTTT
Found at i:53125834 original size:18 final size:18
Alignment explanation
Indices: 53125768--53125882 Score: 76
Period size: 18 Copynumber: 6.4 Consensus size: 18
53125758 TCTTTTTTCG
53125768 CTTTTTCTTTTTCAATTTT
1 CTTTTTCTTTTTCAA-TTT
* **
53125787 CTTTTCTTCATTTTCTTTTT
1 C-TTT-TTCTTTTTCAATTT
* ** **
53125807 CTCTCACTTTTTTGATTT
1 CTTTTTCTTTTTCAATTT
*
53125825 CTTTTTCTTTTGCAATTT
1 CTTTTTCTTTTTCAATTT
53125843 CTTTTTCTTTTTC--TTT
1 CTTTTTCTTTTTCAATTT
*
53125859 -TTGTTT-TCTTTCAATTT
1 CTT-TTTCTTTTTCAATTT
53125876 CTTTTTC
1 CTTTTTC
53125883 AATCTCTTTT
Statistics
Matches: 71, Mismatches: 18, Indels: 15
0.68 0.17 0.14
Matches are distributed among these distances:
15 7 0.10
16 6 0.08
17 6 0.08
18 34 0.48
19 3 0.04
20 7 0.10
21 8 0.11
ACGTcount: A:0.08, C:0.18, G:0.03, T:0.71
Consensus pattern (18 bp):
CTTTTTCTTTTTCAATTT
Found at i:53125882 original size:6 final size:6
Alignment explanation
Indices: 53125768--53125869 Score: 64
Period size: 6 Copynumber: 16.7 Consensus size: 6
53125758 TCTTTTTTCG
* * * **
53125768 CTTTTT CTTTTT CAATTTT CTTTTCTT CATTTT CTTTTT CTCTCA CTTTTT
1 CTTTTT CTTTTT C-TTTTT C-TTT-TT CTTTTT CTTTTT CTTTTT CTTTTT
* * ** *
53125819 -TGATTT CTTTTT CTTTTG CAATTT CTTTTT CTTTTT CTTTTT -GTTTT
1 CT-TTTT CTTTTT CTTTTT CTTTTT CTTTTT CTTTTT CTTTTT CTTTTT
53125866 CTTT
1 CTTT
53125870 CAATTTCTTT
Statistics
Matches: 70, Mismatches: 21, Indels: 10
0.69 0.21 0.10
Matches are distributed among these distances:
5 5 0.07
6 52 0.74
7 10 0.14
8 3 0.04
ACGTcount: A:0.07, C:0.18, G:0.03, T:0.73
Consensus pattern (6 bp):
CTTTTT
Found at i:53125882 original size:12 final size:12
Alignment explanation
Indices: 53125828--53125894 Score: 59
Period size: 12 Copynumber: 5.8 Consensus size: 12
53125818 TTGATTTCTT
*
53125828 TTTCTTTTGCAA
1 TTTCTTTTTCAA
**
53125840 TTTCTTTTTCTT
1 TTTCTTTTTCAA
*
53125852 TTTCTTTTT--G
1 TTTCTTTTTCAA
*
53125862 TTT-TCTTTCAA
1 TTTCTTTTTCAA
53125873 TTTCTTTTTCAA
1 TTTCTTTTTCAA
*
53125885 TCTCTTTTTC
1 TTTCTTTTTC
53125895 CTTTTCTCGC
Statistics
Matches: 44, Mismatches: 8, Indels: 6
0.76 0.14 0.10
Matches are distributed among these distances:
9 4 0.09
10 3 0.07
11 3 0.07
12 34 0.77
ACGTcount: A:0.09, C:0.18, G:0.03, T:0.70
Consensus pattern (12 bp):
TTTCTTTTTCAA
Found at i:53126952 original size:30 final size:29
Alignment explanation
Indices: 53126902--53126967 Score: 80
Period size: 30 Copynumber: 2.2 Consensus size: 29
53126892 TTAAACTTGA
**
53126902 TTTTTTTTTGCTCACCTTTTTTTTCTTTT
1 TTTTTTTTTGCTCACCTTTTTTCACTTTT
*
53126931 CTTTTTTTTTGCTCGA-TTTTTTTCACTTTT
1 -TTTTTTTTTGCTC-ACCTTTTTTCACTTTT
53126961 TTTTTTT
1 TTTTTTT
53126968 GAATTTTTTT
Statistics
Matches: 32, Mismatches: 3, Indels: 3
0.84 0.08 0.08
Matches are distributed among these distances:
29 7 0.22
30 24 0.75
31 1 0.03
ACGTcount: A:0.05, C:0.15, G:0.05, T:0.76
Consensus pattern (29 bp):
TTTTTTTTTGCTCACCTTTTTTCACTTTT
Found at i:53126964 original size:14 final size:14
Alignment explanation
Indices: 53126947--53127007 Score: 59
Period size: 14 Copynumber: 4.4 Consensus size: 14
53126937 TTTTGCTCGA
*
53126947 TTTTTTTCACTTTT
1 TTTTTTTCAATTTT
*
53126961 TTTTTTTGAATTTT
1 TTTTTTTCAATTTT
*** *
53126975 TTTCAATCAAATTT
1 TTTTTTTCAATTTT
*
53126989 TTTTTTTCGATTTT
1 TTTTTTTCAATTTT
53127003 TTTTT
1 TTTTT
53127008 GATTTTTTTG
Statistics
Matches: 35, Mismatches: 12, Indels: 0
0.74 0.26 0.00
Matches are distributed among these distances:
14 35 1.00
ACGTcount: A:0.15, C:0.08, G:0.03, T:0.74
Consensus pattern (14 bp):
TTTTTTTCAATTTT
Found at i:53130836 original size:30 final size:30
Alignment explanation
Indices: 53130741--53130837 Score: 83
Period size: 30 Copynumber: 3.2 Consensus size: 30
53130731 AGCTCACTCC
*
53130741 TAGCTC-ACTTTCAACTCACGAGCTAAA-CTT
1 TAGCTCAACTTT-AGCTCACGAGCTAAAGC-T
* * * **
53130771 TAGCTCAACTTCAGCTTAGGAG-TTTAGCCT
1 TAGCTCAACTTTAGCTCACGAGCTAAAG-CT
*
53130801 CAGCTCAACTTTAGCTCACGAGCTAAAGCT
1 TAGCTCAACTTTAGCTCACGAGCTAAAGCT
53130831 TAGCTCA
1 TAGCTCA
53130838 TTTTAGTTTA
Statistics
Matches: 50, Mismatches: 13, Indels: 8
0.70 0.18 0.11
Matches are distributed among these distances:
29 2 0.04
30 40 0.80
31 8 0.16
ACGTcount: A:0.28, C:0.28, G:0.15, T:0.29
Consensus pattern (30 bp):
TAGCTCAACTTTAGCTCACGAGCTAAAGCT
Done.