Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Chr08 129432109
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: 129432109
ACGTcount: A:0.32, C:0.18, G:0.18, T:0.32
Warning! 350 characters in sequence are not A, C, G, or T
File 10 of 425
Found at i:2775672 original size:54 final size:54
Alignment explanation
Indices: 2775593--2775829 Score: 408
Period size: 54 Copynumber: 4.4 Consensus size: 54
2775583 GAAAAGTAGA
2775593 TTTTGAAAAACA-AACATTAAAAGGCTCAACTCACCTCTCGCAATATGAGTTGAT
1 TTTTGAAAAACAGAA-ATTAAAAGGCTCAACTCACCTCTCGCAATATGAGTTGAT
2775647 TTTTGAAAAACAGAAATTAAAAGGCTCAACTCACCTCTCGCAATATGAGTTGAT
1 TTTTGAAAAACAGAAATTAAAAGGCTCAACTCACCTCTCGCAATATGAGTTGAT
**
2775701 TTTTGAAAAACAGAAATTAAAATACTCAACTCACCTCTCGCAATATGAGTTGAT
1 TTTTGAAAAACAGAAATTAAAAGGCTCAACTCACCTCTCGCAATATGAGTTGAT
2775755 TTTTGAAAAACAGAAATTAAAAGGCTCAACTCACCTCTCGCAATATGAGTTGAT
1 TTTTGAAAAACAGAAATTAAAAGGCTCAACTCACCTCTCGCAATATGAGTTGAT
*
2775809 TCTTTG--AAACAGACATTAAAA
1 T-TTTGAAAAACAGAAATTAAAA
2775830 ACAGAAATTG
Statistics
Matches: 176, Mismatches: 5, Indels: 5
0.95 0.03 0.03
Matches are distributed among these distances:
53 14 0.08
54 156 0.89
55 6 0.03
ACGTcount: A:0.40, C:0.19, G:0.13, T:0.28
Consensus pattern (54 bp):
TTTTGAAAAACAGAAATTAAAAGGCTCAACTCACCTCTCGCAATATGAGTTGAT
Found at i:2776018 original size:14 final size:14
Alignment explanation
Indices: 2775985--2776018 Score: 52
Period size: 13 Copynumber: 2.5 Consensus size: 14
2775975 AGTTAATTTT
2775985 TTGAAAAACAGAAA
1 TTGAAAAACAGAAA
*
2775999 TT-AAAAACAGGAA
1 TTGAAAAACAGAAA
2776012 TTGAAAA
1 TTGAAAA
2776019 TACCTCAGTG
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
13 12 0.67
14 6 0.33
ACGTcount: A:0.62, C:0.06, G:0.15, T:0.18
Consensus pattern (14 bp):
TTGAAAAACAGAAA
Found at i:2776054 original size:87 final size:85
Alignment explanation
Indices: 2775776--2776093 Score: 369
Period size: 87 Copynumber: 3.7 Consensus size: 85
2775766 AGAAATTAAA
* * * *
2775776 AGGCTCAACTCACCTCTCGCAATATGAGTTGATTCTTTG-AAACAGACATTAAAAACAGAAATTG
1 AGGCTCAACTCACCTCTCGCAATATGAGTTAATTTTTTGAAAACAGAAATTAAAAACAGGAATTG
** *
2775840 AAAATAGTTCAGTGCGTGAGCCA
66 AAAATACCTCAGT--GTGA-CCG
* **
2775863 AGGCGCAACTCACCTCTCGCAATATGAGTT-GGTTTTTGAAAACATG-AATT-AAAACA-GAATG
1 AGGCTCAACTCACCTCTCGCAATATGAGTTAATTTTTTGAAAACA-GAAATTAAAAACAGGAAT-
*
2775924 TGAAAATACCTCGGCATGTGACCCG
64 TGAAAATACCTCAG--TGTGA-CCG
2775949 AGGCTCAACTCACCTCTCGCAATATGAGTTAATTTTTTGAAAAACAGAAATTAAAAACAGGAATT
1 AGGCTCAACTCACCTCTCGCAATATGAGTTAATTTTTTG-AAAACAGAAATTAAAAACAGGAATT
*
2776014 GAAAATACCTCAGTGTGTCCTG
65 GAAAATACCTCAGTGTGACC-G
* *
2776036 AGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTTTGAAAACA-AAAATAAAAACA
1 AGGCTCAACTCACCTCTCGCAATATGAGTT-AATTTTTTGAAAACAGAAATTAAAAACA
2776094 TCAAAATACC
Statistics
Matches: 201, Mismatches: 18, Indels: 25
0.82 0.07 0.10
Matches are distributed among these distances:
85 3 0.01
86 70 0.35
87 85 0.42
88 20 0.10
89 19 0.09
90 4 0.02
ACGTcount: A:0.37, C:0.19, G:0.17, T:0.26
Consensus pattern (85 bp):
AGGCTCAACTCACCTCTCGCAATATGAGTTAATTTTTTGAAAACAGAAATTAAAAACAGGAATTG
AAAATACCTCAGTGTGACCG
Found at i:2783118 original size:6 final size:6
Alignment explanation
Indices: 2783107--2783144 Score: 76
Period size: 6 Copynumber: 6.3 Consensus size: 6
2783097 AACGATTTTT
2783107 CATTCC CATTCC CATTCC CATTCC CATTCC CATTCC CA
1 CATTCC CATTCC CATTCC CATTCC CATTCC CATTCC CA
2783145 CCCCAGGTTT
Statistics
Matches: 32, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 32 1.00
ACGTcount: A:0.18, C:0.50, G:0.00, T:0.32
Consensus pattern (6 bp):
CATTCC
Found at i:2783685 original size:4 final size:4
Alignment explanation
Indices: 2783639--2783666 Score: 56
Period size: 4 Copynumber: 7.0 Consensus size: 4
2783629 TAGGATATGC
2783639 AATG AATG AATG AATG AATG AATG AATG
1 AATG AATG AATG AATG AATG AATG AATG
2783667 CATAAATTTC
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
4 24 1.00
ACGTcount: A:0.50, C:0.00, G:0.25, T:0.25
Consensus pattern (4 bp):
AATG
Found at i:2787692 original size:22 final size:22
Alignment explanation
Indices: 2787664--2787719 Score: 67
Period size: 24 Copynumber: 2.5 Consensus size: 22
2787654 AAATAATAAA
2787664 AGAAATATATAACAAATAACAT
1 AGAAATATATAACAAATAACAT
**
2787686 AGAAATATATGTATGAAATAACAT
1 AGAAATATA--TAACAAATAACAT
*
2787710 AAAAATATAT
1 AGAAATATAT
2787720 GAATAGCGCA
Statistics
Matches: 29, Mismatches: 3, Indels: 4
0.81 0.08 0.11
Matches are distributed among these distances:
22 10 0.34
24 19 0.66
ACGTcount: A:0.61, C:0.05, G:0.07, T:0.27
Consensus pattern (22 bp):
AGAAATATATAACAAATAACAT
Found at i:2788012 original size:25 final size:25
Alignment explanation
Indices: 2787975--2788058 Score: 73
Period size: 27 Copynumber: 3.2 Consensus size: 25
2787965 TTATAAGAAA
*
2787975 ATATAACTAATAATATTGAAAATATAT
1 ATATAAC--ATAATATTAAAAATATAT
*
2788002 ATATAACATAATATTTAAAACACATAT
1 ATATAACATAATA-TTAAAA-ATATAT
**
2788029 ATATATGAT-ATA-TAAAAATTATAT
1 ATATAACATAATATTAAAAA-TATAT
2788053 ATATAA
1 ATATAA
2788059 TACACTATAT
Statistics
Matches: 48, Mismatches: 6, Indels: 9
0.76 0.10 0.14
Matches are distributed among these distances:
23 1 0.02
24 14 0.29
25 6 0.12
26 8 0.17
27 19 0.40
ACGTcount: A:0.56, C:0.05, G:0.02, T:0.37
Consensus pattern (25 bp):
ATATAACATAATATTAAAAATATAT
Found at i:2790080 original size:21 final size:21
Alignment explanation
Indices: 2790056--2790097 Score: 66
Period size: 21 Copynumber: 2.0 Consensus size: 21
2790046 AAAGAAATTC
* *
2790056 ATTATATTAAATTAAAAATAA
1 ATTAAATTAAACTAAAAATAA
2790077 ATTAAATTAAACTAAAAATAA
1 ATTAAATTAAACTAAAAATAA
2790098 CTGAACATTT
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
21 19 1.00
ACGTcount: A:0.64, C:0.02, G:0.00, T:0.33
Consensus pattern (21 bp):
ATTAAATTAAACTAAAAATAA
Found at i:2790358 original size:33 final size:33
Alignment explanation
Indices: 2790312--2790374 Score: 94
Period size: 33 Copynumber: 1.9 Consensus size: 33
2790302 GACCCGACAA
2790312 AAGCTTATGTACCAAATT-AGACAAAAAAATAAG
1 AAGCTTATGTACCAAATTAAGA-AAAAAAATAAG
2790345 AAGCTTA-GATACCAAATTAAGAAAAAAAAT
1 AAGCTTATG-TACCAAATTAAGAAAAAAAAT
2790375 GTCTTAAGTT
Statistics
Matches: 28, Mismatches: 0, Indels: 4
0.88 0.00 0.12
Matches are distributed among these distances:
32 1 0.04
33 24 0.86
34 3 0.11
ACGTcount: A:0.57, C:0.11, G:0.11, T:0.21
Consensus pattern (33 bp):
AAGCTTATGTACCAAATTAAGAAAAAAAATAAG
Found at i:2795256 original size:28 final size:28
Alignment explanation
Indices: 2795224--2795278 Score: 101
Period size: 28 Copynumber: 2.0 Consensus size: 28
2795214 GTAACTCGCG
*
2795224 CATTTCTATGCTCGGATGTCATCACGGC
1 CATTTCTATGCTCAGATGTCATCACGGC
2795252 CATTTCTATGCTCAGATGTCATCACGG
1 CATTTCTATGCTCAGATGTCATCACGG
2795279 GCTTCATGGT
Statistics
Matches: 26, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
28 26 1.00
ACGTcount: A:0.20, C:0.27, G:0.20, T:0.33
Consensus pattern (28 bp):
CATTTCTATGCTCAGATGTCATCACGGC
Found at i:2800414 original size:14 final size:14
Alignment explanation
Indices: 2800395--2800421 Score: 54
Period size: 14 Copynumber: 1.9 Consensus size: 14
2800385 TTTTATTTTA
2800395 TTTTATTTTTTATC
1 TTTTATTTTTTATC
2800409 TTTTATTTTTTAT
1 TTTTATTTTTTAT
2800422 TTAAAAATCA
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 13 1.00
ACGTcount: A:0.15, C:0.04, G:0.00, T:0.81
Consensus pattern (14 bp):
TTTTATTTTTTATC
Found at i:2801347 original size:20 final size:21
Alignment explanation
Indices: 2801311--2801352 Score: 68
Period size: 20 Copynumber: 2.0 Consensus size: 21
2801301 TACACATTGT
2801311 TTATTTTAAACTTATTATATA
1 TTATTTTAAACTTATTATATA
*
2801332 TTATTTT-AAGTTATTATATA
1 TTATTTTAAACTTATTATATA
2801352 T
1 T
2801353 ATTATCTATT
Statistics
Matches: 20, Mismatches: 1, Indels: 1
0.91 0.05 0.05
Matches are distributed among these distances:
20 13 0.65
21 7 0.35
ACGTcount: A:0.36, C:0.02, G:0.02, T:0.60
Consensus pattern (21 bp):
TTATTTTAAACTTATTATATA
Found at i:2801379 original size:25 final size:24
Alignment explanation
Indices: 2801311--2801411 Score: 84
Period size: 25 Copynumber: 4.1 Consensus size: 24
2801301 TACACATTGT
2801311 TTATTTTAAAC-TTAT-TATA-TA
1 TTATTTTAAACTTTATATATATTA
**
2801332 TTATTTTAAGTTATTATATATATTA
1 TTATTTTAAACT-TTATATATATTA
2801357 TCTATTTTAAACTTTATATATA-TA
1 T-TATTTTAAACTTTATATATATTA
*
2801381 TTAGTTAGTCTAAACTGTTATATATGTTA
1 TTA-TT--T-TAAACT-TTATATATATTA
2801410 TT
1 TT
2801412 CTAAAATTCG
Statistics
Matches: 64, Mismatches: 5, Indels: 14
0.77 0.06 0.17
Matches are distributed among these distances:
21 9 0.14
23 6 0.09
24 9 0.14
25 12 0.19
26 10 0.16
27 6 0.09
28 8 0.12
29 4 0.06
ACGTcount: A:0.35, C:0.05, G:0.05, T:0.55
Consensus pattern (24 bp):
TTATTTTAAACTTTATATATATTA
Found at i:2801394 original size:27 final size:28
Alignment explanation
Indices: 2801341--2801405 Score: 80
Period size: 27 Copynumber: 2.3 Consensus size: 28
2801331 ATTATTTTAA
* *
2801341 GTTATTATATATATTATCTATTTTAAACT
1 GTTA-TATATATATTATCTAGTCTAAACT
2801370 -TTATATATATATTAGT-TAGTCTAAACT
1 GTTATATATATATTA-TCTAGTCTAAACT
2801397 GTTATATAT
1 GTTATATAT
2801406 GTTATTCTAA
Statistics
Matches: 32, Mismatches: 2, Indels: 5
0.82 0.05 0.13
Matches are distributed among these distances:
27 20 0.62
28 12 0.38
ACGTcount: A:0.35, C:0.06, G:0.06, T:0.52
Consensus pattern (28 bp):
GTTATATATATATTATCTAGTCTAAACT
Found at i:2801589 original size:24 final size:22
Alignment explanation
Indices: 2801532--2801589 Score: 53
Period size: 24 Copynumber: 2.5 Consensus size: 22
2801522 GGTTACTTAG
*
2801532 TAAACTGTTTTATATGTTTTTT
1 TAAACTGTTTCATATGTTTTTT
**
2801554 TAAAAAGGGTTTCATATTGTTTATTT
1 T--AAACTGTTTCATA-TGTTT-TTT
2801580 TAAACTGTTT
1 TAAACTGTTT
2801590 TTTTAATTAT
Statistics
Matches: 27, Mismatches: 5, Indels: 6
0.71 0.13 0.16
Matches are distributed among these distances:
22 1 0.04
24 17 0.63
25 5 0.19
26 4 0.15
ACGTcount: A:0.28, C:0.05, G:0.12, T:0.55
Consensus pattern (22 bp):
TAAACTGTTTCATATGTTTTTT
Found at i:2804174 original size:2 final size:2
Alignment explanation
Indices: 2804167--2804200 Score: 68
Period size: 2 Copynumber: 17.0 Consensus size: 2
2804157 AGACATTAAG
2804167 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
2804201 ATAAAGTTTG
Statistics
Matches: 32, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 32 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
TA
Found at i:2804441 original size:21 final size:22
Alignment explanation
Indices: 2804415--2804469 Score: 80
Period size: 21 Copynumber: 2.6 Consensus size: 22
2804405 TGATATTACA
2804415 TTATTATTATTTTCTTT-CTAT
1 TTATTATTATTTTCTTTCCTAT
*
2804436 TTATTATTATTTT-TTTCCTTT
1 TTATTATTATTTTCTTTCCTAT
2804457 TTATT-TTATTTTC
1 TTATTATTATTTTC
2804470 GAATTTGCTT
Statistics
Matches: 31, Mismatches: 1, Indels: 4
0.86 0.03 0.11
Matches are distributed among these distances:
20 10 0.32
21 21 0.68
ACGTcount: A:0.16, C:0.09, G:0.00, T:0.75
Consensus pattern (22 bp):
TTATTATTATTTTCTTTCCTAT
Found at i:2804446 original size:24 final size:25
Alignment explanation
Indices: 2804414--2804462 Score: 73
Period size: 24 Copynumber: 2.0 Consensus size: 25
2804404 GTGATATTAC
2804414 ATTATTATTATTTT-CTTTCTATTT
1 ATTATTATTATTTTCCTTTCTATTT
* *
2804438 ATTATTATTTTTTTCCTTTTTATTT
1 ATTATTATTATTTTCCTTTCTATTT
2804463 TATTTTCGAA
Statistics
Matches: 22, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
24 13 0.59
25 9 0.41
ACGTcount: A:0.18, C:0.08, G:0.00, T:0.73
Consensus pattern (25 bp):
ATTATTATTATTTTCCTTTCTATTT
Found at i:2805169 original size:2 final size:2
Alignment explanation
Indices: 2805162--2805205 Score: 65
Period size: 2 Copynumber: 23.0 Consensus size: 2
2805152 TTGTTATACT
*
2805162 TA TA TA TA TA TA TA TA TA TA TA TG TA TA T- TA TA TA TA T- TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
2805202 TA TA
1 TA TA
2805206 GTATTATTAA
Statistics
Matches: 38, Mismatches: 2, Indels: 4
0.86 0.05 0.09
Matches are distributed among these distances:
1 2 0.05
2 36 0.95
ACGTcount: A:0.45, C:0.00, G:0.02, T:0.52
Consensus pattern (2 bp):
TA
Found at i:2805547 original size:17 final size:17
Alignment explanation
Indices: 2805525--2805587 Score: 54
Period size: 17 Copynumber: 3.5 Consensus size: 17
2805515 TTAAATATTG
2805525 TATTTTTATTATGTATA
1 TATTTTTATTATGTATA
* * *
2805542 TATTTTTAATACGGATA
1 TATTTTTATTATGTATA
*
2805559 CATTTTTTATTACTCGTATA
1 TA-TTTTTATTA-T-GTATA
2805579 TATATTTTA
1 TAT-TTTTA
2805588 ATATTATTTT
Statistics
Matches: 34, Mismatches: 8, Indels: 5
0.72 0.17 0.11
Matches are distributed among these distances:
17 15 0.44
18 8 0.24
19 1 0.03
20 10 0.29
ACGTcount: A:0.30, C:0.06, G:0.06, T:0.57
Consensus pattern (17 bp):
TATTTTTATTATGTATA
Found at i:2805670 original size:24 final size:24
Alignment explanation
Indices: 2805624--2805670 Score: 60
Period size: 23 Copynumber: 2.0 Consensus size: 24
2805614 CTTTAATACT
* *
2805624 ATATCATTTTTATTTTTATTTTTC
1 ATATCATTCTTATGTTTATTTTTC
2805648 ATATCA-TCTTATGTTTATGTTTT
1 ATATCATTCTTATGTTTAT-TTTT
2805671 TCAAACTATA
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
23 10 0.50
24 10 0.50
ACGTcount: A:0.21, C:0.09, G:0.04, T:0.66
Consensus pattern (24 bp):
ATATCATTCTTATGTTTATTTTTC
Found at i:2805938 original size:3 final size:3
Alignment explanation
Indices: 2805930--2805980 Score: 59
Period size: 3 Copynumber: 17.3 Consensus size: 3
2805920 AATTTTACTT
* * * *
2805930 TTA TTA TTA CTA CTA -TA TTA TTA TTA TTA TCA TTA TCA TTA TTA TTA
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA
2805977 TTA T
1 TTA T
2805981 CATATTTATA
Statistics
Matches: 42, Mismatches: 5, Indels: 2
0.86 0.10 0.04
Matches are distributed among these distances:
2 2 0.05
3 40 0.95
ACGTcount: A:0.33, C:0.08, G:0.00, T:0.59
Consensus pattern (3 bp):
TTA
Found at i:2806201 original size:3 final size:3
Alignment explanation
Indices: 2806193--2806246 Score: 60
Period size: 3 Copynumber: 18.3 Consensus size: 3
2806183 TATCTCTAAC
2806193 TAT TAT TAT TAT T-T TA- TAT ATAT TAT TAT CTA- TAT TAT TAT TAT
1 TAT TAT TAT TAT TAT TAT TAT -TAT TAT TAT -TAT TAT TAT TAT TAT
*
2806237 TAC TAT TAT T
1 TAT TAT TAT T
2806247 CTTTATTGTC
Statistics
Matches: 44, Mismatches: 2, Indels: 10
0.79 0.04 0.18
Matches are distributed among these distances:
2 6 0.14
3 33 0.75
4 5 0.11
ACGTcount: A:0.33, C:0.04, G:0.00, T:0.63
Consensus pattern (3 bp):
TAT
Found at i:2808919 original size:21 final size:21
Alignment explanation
Indices: 2808873--2808919 Score: 67
Period size: 21 Copynumber: 2.2 Consensus size: 21
2808863 TTTACTCATT
2808873 CTTTTGGTCAAAATCAAAATG
1 CTTTTGGTCAAAATCAAAATG
* **
2808894 ATTTTGGTCAAAATCAGCATG
1 CTTTTGGTCAAAATCAAAATG
2808915 CTTTT
1 CTTTT
2808920 AGACCACATT
Statistics
Matches: 22, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
21 22 1.00
ACGTcount: A:0.32, C:0.15, G:0.15, T:0.38
Consensus pattern (21 bp):
CTTTTGGTCAAAATCAAAATG
Found at i:2815562 original size:133 final size:132
Alignment explanation
Indices: 2815385--2815950 Score: 593
Period size: 133 Copynumber: 4.3 Consensus size: 132
2815375 CTATGTCAAG
* * *
2815385 TTTAAGTCTTTTGTTCCAATGGTTTCTAAGTTTTTCTTCCTTTTTTGTTGGCTCCTATGTTCTTT
1 TTTAAGTCTTTTGCTCCAATGGGTTCTAAGTTTTTCTTCCTTTTTTGTTGGCTCGTATGTTCTTT
* * * * **
2815450 GTTATAATTGTGCTTTGCTGTAATGTTTATCTTCAAGTCTATTGAATTTTTGAGCTTTTGTTGAA
66 GTTATAATTATACTTTGCCGTAATGTGTAGATTCAAGTCTATT-AATTTTTGAGCTTTTGTTGAA
2815515 AGT
130 AGT
* * * * *
2815518 TTTAACTCTTTTCCTCCAGTGGGTTCCAAGTTTTTCTTCCTTTTTTGTTGGTTCGTATGTTCTTT
1 TTTAAGTCTTTTGCTCCAATGGGTTCTAAGTTTTTCTTCCTTTTTTGTTGGCTCGTATGTTCTTT
* * * * *
2815583 GTTATAATTATACTTTGCCGTAATATGTAGATTCAAGTCTACTAAAATTTTGAACTTTTTTTGAA
66 GTTATAATTATACTTTGCCGTAATGTGTAGATTCAAGTCTA-TTAATTTTTGAGCTTTTGTTGAA
2815648 A-T
130 AGT
* * * * * *
2815650 TTCATGTCGTTTGCTCCAATGGGTTCTAAGTTTTTCTTCC-TTTTTGTTGGTTAGTATGTTCTCT
1 TTTAAGTCTTTTGCTCCAATGGGTTCTAAGTTTTTCTTCCTTTTTTGTTGGCTCGTATGTTCTTT
** * *
2815714 GTCGTAAATATACTTTGCCGTAATGTGTAGATTCAAGTCTATTAAGTTTTTGAGTTTTTTGTTGA
66 GTTATAATTATACTTTGCCGTAATGTGTAGATTCAAGTCTATTAA-TTTTTGAG-CTTTTGTTGA
2815779 AAGT
129 AAGT
** * * ** *
2815783 TTTAAGTCTTTTGCTTTAATGGGTTCTAACTCTCACTTCCTTTTTTGTTGGCTGGTATGTTCTTT
1 TTTAAGTCTTTTGCTCCAATGGGTTCTAAGTTTTTCTTCCTTTTTTGTTGGCTCGTATGTTC-TT
* * * * * * * * *
2815848 GTGTTATAATTGTAATCT-CCTGAAATGGGTAGCTTC-TGTTCTTTTAAATTTTTGAGCTTTTCT
65 -TGTTATAATTATACTTTGCC-GTAATGTGTAGATTCAAG-TCTATT-AATTTTTGAGCTTTTGT
2815911 TGAAA-T
126 TGAAAGT
* *
2815917 TTGATGTCTTTTGCTCCAATGGGTTCTAAGTTTT
1 TTTAAGTCTTTTGCTCCAATGGGTTCTAAGTTTT
2815951 CCTTATCATT
Statistics
Matches: 354, Mismatches: 69, Indels: 19
0.80 0.16 0.04
Matches are distributed among these distances:
130 3 0.01
131 65 0.18
132 44 0.12
133 142 0.40
134 48 0.14
135 14 0.04
136 36 0.10
137 2 0.01
ACGTcount: A:0.18, C:0.14, G:0.17, T:0.51
Consensus pattern (132 bp):
TTTAAGTCTTTTGCTCCAATGGGTTCTAAGTTTTTCTTCCTTTTTTGTTGGCTCGTATGTTCTTT
GTTATAATTATACTTTGCCGTAATGTGTAGATTCAAGTCTATTAATTTTTGAGCTTTTGTTGAAA
GT
Found at i:2821323 original size:102 final size:106
Alignment explanation
Indices: 2821098--2821343 Score: 279
Period size: 102 Copynumber: 2.3 Consensus size: 106
2821088 AATGTTGGAG
* ** * *
2821098 CATGATGCTTGGGAGAGTGTGCAGGTGATGCAGATGATTGTTTAGGAGGTTCAGCTACATGTGGT
1 CATGATGCTTGGGAGAGTGTGCTGGCCATGGAGATGATTGTTTAGGAGGTTCAGCTA-ATGAGGT
* *
2821163 GGTGGTGGATATGTAGGAGCCAAAACTGGCCCTGCAACCGGAC
65 GATGGTAGATA-GTAGGAGCCAAAACTGGCCCTGCAACCGGAC
* * * *
2821206 CATGATGCTTTGGAGAGTATGCTGGCCCTGGGGATGATTGTTTAGGAGGTTCAGCT-A-GAGGTG
1 CATGATGCTTGGGAGAGTGTGCTGGCCATGGAGATGATTGTTTAGGAGGTTCAGCTAATGAGGTG
** * *
2821269 ATGG-AGAT-G-ATGGAGCCAAGGCTGGTCCTGCAACATGG-C
66 ATGGTAGATAGTA-GGAGCCAAAACTGGCCCTGCAAC-CGGAC
2821308 CATGATGCTTGGGAGAGTGTGCTGGCCATGGAGATG
1 CATGATGCTTGGGAGAGTGTGCTGGCCATGGAGATG
2821344 GTCCAGGTAA
Statistics
Matches: 117, Mismatches: 19, Indels: 10
0.80 0.13 0.07
Matches are distributed among these distances:
101 1 0.01
102 54 0.46
103 2 0.02
104 3 0.03
105 8 0.07
106 1 0.01
108 48 0.41
ACGTcount: A:0.22, C:0.15, G:0.37, T:0.25
Consensus pattern (106 bp):
CATGATGCTTGGGAGAGTGTGCTGGCCATGGAGATGATTGTTTAGGAGGTTCAGCTAATGAGGTG
ATGGTAGATAGTAGGAGCCAAAACTGGCCCTGCAACCGGAC
Found at i:2821446 original size:117 final size:121
Alignment explanation
Indices: 2821238--2821455 Score: 279
Period size: 117 Copynumber: 1.8 Consensus size: 121
2821228 TGGCCCTGGG
* * *
2821238 GATGATTGTTTAGGAGGTTCAGCTAGAGGTGATGGAGATGATGGAGCCAAGGCTGGTCCTGCAAC
1 GATGATTGTTTAGGAGGCTCAACTACAGGTGATGGAGATGATGGAGCCAAGGCTGGTCCTGCAAC
* *
2821303 ATGGCCATGATGCTTGGGAGAGTGTGCTGG-CCATGGAGATGGTCCAGGTAAGACA
66 ATGACCATGATGATTGGGAGAGTGTGCTGGTCCATGGAGATGGTCCAGGTAAGACA
* * *
2821358 GATGATTGTTTAGGAGGCTCAACTACA-G-G-TGGTGATG-TAGGAGCCATGGTTGG-CCTAGCA
1 GATGATTGTTTAGGAGGCTCAACTACAGGTGATGGAGATGAT-GGAGCCAAGGCTGGTCCT-GCA
*
2821418 AC-TGAACCATGATGATTGGGAGATTGTGCTGGTCCATG
64 ACATG-ACCATGATGATTGGGAGAGTGTGCTGGTCCATG
2821456 CAAAACAGAC
Statistics
Matches: 85, Mismatches: 9, Indels: 10
0.82 0.09 0.10
Matches are distributed among these distances:
116 6 0.07
117 48 0.56
118 6 0.07
119 1 0.01
120 24 0.28
ACGTcount: A:0.24, C:0.15, G:0.36, T:0.25
Consensus pattern (121 bp):
GATGATTGTTTAGGAGGCTCAACTACAGGTGATGGAGATGATGGAGCCAAGGCTGGTCCTGCAAC
ATGACCATGATGATTGGGAGAGTGTGCTGGTCCATGGAGATGGTCCAGGTAAGACA
Found at i:2822285 original size:24 final size:24
Alignment explanation
Indices: 2822257--2822305 Score: 73
Period size: 24 Copynumber: 2.1 Consensus size: 24
2822247 TATTATTTTG
*
2822257 ATTTAATAT-TTAAAAATTTATAT
1 ATTTTATATATTAAAAATTTATAT
*
2822280 ATTTTATTTATTAAAAATTTATAT
1 ATTTTATATATTAAAAATTTATAT
2822304 AT
1 AT
2822306 AATTATCTTA
Statistics
Matches: 23, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
23 7 0.30
24 16 0.70
ACGTcount: A:0.45, C:0.00, G:0.00, T:0.55
Consensus pattern (24 bp):
ATTTTATATATTAAAAATTTATAT
Found at i:2825724 original size:16 final size:16
Alignment explanation
Indices: 2825705--2825739 Score: 54
Period size: 16 Copynumber: 2.2 Consensus size: 16
2825695 TGAAATATTA
2825705 AATAATTTAT-TTAAAT
1 AATAATTTATATT-AAT
2825721 AATAATTTATATTAAT
1 AATAATTTATATTAAT
2825737 AAT
1 AAT
2825740 TTATATGATT
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
16 16 0.89
17 2 0.11
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (16 bp):
AATAATTTATATTAAT
Found at i:2825736 original size:13 final size:13
Alignment explanation
Indices: 2825720--2825745 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
2825710 TTTATTTAAA
2825720 TAATAATTTATAT
1 TAATAATTTATAT
2825733 TAATAATTTATAT
1 TAATAATTTATAT
2825746 GATTAGATAT
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.46, C:0.00, G:0.00, T:0.54
Consensus pattern (13 bp):
TAATAATTTATAT
Found at i:2826022 original size:23 final size:23
Alignment explanation
Indices: 2825995--2826042 Score: 96
Period size: 23 Copynumber: 2.1 Consensus size: 23
2825985 TCTTTCTGGT
2825995 AAAATGACTTACATTTAAAAAAA
1 AAAATGACTTACATTTAAAAAAA
2826018 AAAATGACTTACATTTAAAAAAA
1 AAAATGACTTACATTTAAAAAAA
2826041 AA
1 AA
2826043 TTCTAAGTCA
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
23 25 1.00
ACGTcount: A:0.62, C:0.08, G:0.04, T:0.25
Consensus pattern (23 bp):
AAAATGACTTACATTTAAAAAAA
Found at i:2834654 original size:16 final size:15
Alignment explanation
Indices: 2834633--2834686 Score: 60
Period size: 16 Copynumber: 3.7 Consensus size: 15
2834623 TTTAAAATAT
2834633 TTATATTTATATTATA
1 TTATATTTATATT-TA
*
2834649 TTATATTAATATTTAA
1 TTATATTTATATTT-A
2834665 TTAT-TTTAT-TTTA
1 TTATATTTATATTTA
2834678 TT-TATTTAT
1 TTATATTTAT
2834687 TGAAAGTTTT
Statistics
Matches: 34, Mismatches: 2, Indels: 7
0.79 0.05 0.16
Matches are distributed among these distances:
12 1 0.03
13 8 0.24
14 3 0.09
15 5 0.15
16 17 0.50
ACGTcount: A:0.33, C:0.00, G:0.00, T:0.67
Consensus pattern (15 bp):
TTATATTTATATTTA
Found at i:2835463 original size:23 final size:24
Alignment explanation
Indices: 2835410--2835475 Score: 66
Period size: 24 Copynumber: 2.8 Consensus size: 24
2835400 TATAATAGAC
2835410 TTAAA-AATATTAAAATAAATATT
1 TTAAATAATATTAAAATAAATATT
*
2835433 TTCTAATAAT-TTAAAA-AAATATAT
1 TT-AAATAATATTAAAATAAATAT-T
**
2835457 TTAAATAACGTTAAAATAA
1 TTAAATAATATTAAAATAA
2835476 GTATAACTTA
Statistics
Matches: 35, Mismatches: 3, Indels: 8
0.76 0.07 0.17
Matches are distributed among these distances:
23 13 0.37
24 17 0.49
25 5 0.14
ACGTcount: A:0.58, C:0.03, G:0.02, T:0.38
Consensus pattern (24 bp):
TTAAATAATATTAAAATAAATATT
Found at i:2835624 original size:22 final size:22
Alignment explanation
Indices: 2835594--2835635 Score: 66
Period size: 22 Copynumber: 1.9 Consensus size: 22
2835584 AAATAATAAC
2835594 AAAACAGTGAGAAAACAACAGT
1 AAAACAGTGAGAAAACAACAGT
* *
2835616 AAAATAGTGGGAAAACAACA
1 AAAACAGTGAGAAAACAACA
2835636 TATTTTTTCT
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
22 18 1.00
ACGTcount: A:0.60, C:0.12, G:0.19, T:0.10
Consensus pattern (22 bp):
AAAACAGTGAGAAAACAACAGT
Found at i:2840117 original size:23 final size:24
Alignment explanation
Indices: 2840079--2840130 Score: 88
Period size: 23 Copynumber: 2.2 Consensus size: 24
2840069 ATTTAAATTA
2840079 ATAATGGAATATTATTAATTTTTT
1 ATAATGGAATATTATTAATTTTTT
*
2840103 ATAATGTAA-ATTATTAATTTTTT
1 ATAATGGAATATTATTAATTTTTT
2840126 ATAAT
1 ATAAT
2840131 AATTATAAAT
Statistics
Matches: 27, Mismatches: 1, Indels: 1
0.93 0.03 0.03
Matches are distributed among these distances:
23 19 0.70
24 8 0.30
ACGTcount: A:0.40, C:0.00, G:0.06, T:0.54
Consensus pattern (24 bp):
ATAATGGAATATTATTAATTTTTT
Found at i:2840134 original size:20 final size:22
Alignment explanation
Indices: 2840089--2840142 Score: 76
Period size: 23 Copynumber: 2.5 Consensus size: 22
2840079 ATAATGGAAT
2840089 ATTATTAATTTTTTATAATGTAA
1 ATTATTAATTTTTTATAA-GTAA
2840112 ATTATTAATTTTTTATAA-T-A
1 ATTATTAATTTTTTATAAGTAA
*
2840132 ATTATAAATTT
1 ATTATTAATTT
2840143 AATTTAATTT
Statistics
Matches: 30, Mismatches: 1, Indels: 3
0.88 0.03 0.09
Matches are distributed among these distances:
20 11 0.37
21 1 0.03
23 18 0.60
ACGTcount: A:0.41, C:0.00, G:0.02, T:0.57
Consensus pattern (22 bp):
ATTATTAATTTTTTATAAGTAA
Found at i:2848966 original size:21 final size:21
Alignment explanation
Indices: 2848937--2848993 Score: 55
Period size: 20 Copynumber: 2.8 Consensus size: 21
2848927 AAAAATAGTT
*
2848937 AAAATTTATTAAAAGTTAG-AA
1 AAAAATTATTAAAAGTT-GTAA
*
2848958 AAAAATTA-TAAAAATTGTAA
1 AAAAATTATTAAAAGTTGTAA
* *
2848978 AAAAAATATAAAAAGT
1 AAAAATTATTAAAAGT
2848994 ATTAAATATA
Statistics
Matches: 29, Mismatches: 5, Indels: 4
0.76 0.13 0.11
Matches are distributed among these distances:
19 1 0.03
20 16 0.55
21 12 0.41
ACGTcount: A:0.65, C:0.00, G:0.07, T:0.28
Consensus pattern (21 bp):
AAAAATTATTAAAAGTTGTAA
Found at i:2851495 original size:18 final size:18
Alignment explanation
Indices: 2851472--2851507 Score: 72
Period size: 18 Copynumber: 2.0 Consensus size: 18
2851462 AACAGTTAAA
2851472 TTCAATTACTAGTATTAT
1 TTCAATTACTAGTATTAT
2851490 TTCAATTACTAGTATTAT
1 TTCAATTACTAGTATTAT
2851508 ACTATGTATA
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:0.33, C:0.11, G:0.06, T:0.50
Consensus pattern (18 bp):
TTCAATTACTAGTATTAT
Found at i:2857886 original size:30 final size:29
Alignment explanation
Indices: 2857794--2857889 Score: 77
Period size: 30 Copynumber: 3.2 Consensus size: 29
2857784 TTCCCTTGAA
* ** *
2857794 AATTGTTAAAAATTTTAATTTGGCC-TCC
1 AATTTTTAAAAATTTTAATTAAGCCTTCT
* * *
2857822 AATTTTTTTAAAAATTTTCATTATGCCTTTT
1 AA--TTTTTAAAAATTTTAATTAAGCCTTCT
* *
2857853 AATTTTTGAAAATTTTAATTAAAGTCTTCT
1 AATTTTTAAAAATTTTAATT-AAGCCTTCT
2857883 AATTTTT
1 AATTTTT
2857890 TTTCCGAAAT
Statistics
Matches: 53, Mismatches: 11, Indels: 6
0.76 0.16 0.09
Matches are distributed among these distances:
28 2 0.04
29 16 0.30
30 32 0.60
31 3 0.06
ACGTcount: A:0.32, C:0.09, G:0.06, T:0.52
Consensus pattern (29 bp):
AATTTTTAAAAATTTTAATTAAGCCTTCT
Found at i:2858494 original size:14 final size:14
Alignment explanation
Indices: 2858475--2858508 Score: 68
Period size: 14 Copynumber: 2.4 Consensus size: 14
2858465 TTTCATCCTT
2858475 CTCCCTCTATTTTC
1 CTCCCTCTATTTTC
2858489 CTCCCTCTATTTTC
1 CTCCCTCTATTTTC
2858503 CTCCCT
1 CTCCCT
2858509 TCTCCATTAC
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 20 1.00
ACGTcount: A:0.06, C:0.47, G:0.00, T:0.47
Consensus pattern (14 bp):
CTCCCTCTATTTTC
Found at i:2868550 original size:22 final size:23
Alignment explanation
Indices: 2868522--2868565 Score: 81
Period size: 22 Copynumber: 2.0 Consensus size: 23
2868512 GATATGATAC
2868522 AATCTTAGATATGAT-TGCAATT
1 AATCTTAGATATGATATGCAATT
2868544 AATCTTAGATATGATATGCAAT
1 AATCTTAGATATGATATGCAAT
2868566 CTTAGAAGAT
Statistics
Matches: 21, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
22 15 0.71
23 6 0.29
ACGTcount: A:0.39, C:0.09, G:0.14, T:0.39
Consensus pattern (23 bp):
AATCTTAGATATGATATGCAATT
Found at i:2868575 original size:22 final size:23
Alignment explanation
Indices: 2868550--2868594 Score: 65
Period size: 23 Copynumber: 2.0 Consensus size: 23
2868540 AATTAATCTT
2868550 AGATATGA-TATGCAATCTTAGA
1 AGATATGATTATGCAATCTTAGA
* *
2868572 AGATATGATTTTGTAATCTTAGA
1 AGATATGATTATGCAATCTTAGA
2868595 GATTTAATTT
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
22 8 0.40
23 12 0.60
ACGTcount: A:0.38, C:0.07, G:0.18, T:0.38
Consensus pattern (23 bp):
AGATATGATTATGCAATCTTAGA
Found at i:2868578 original size:17 final size:19
Alignment explanation
Indices: 2868479--2868571 Score: 115
Period size: 17 Copynumber: 4.9 Consensus size: 19
2868469 ATAATCTTCA
2868479 ATGATATGCAATCTTAGAT
1 ATGATATGCAATCTTAGAT
2868498 ATGATA--CAATCTTAGAT
1 ATGATATGCAATCTTAGAT
2868515 ATGATA--CAATCTTAGAT
1 ATGATATGCAATCTTAGAT
2868532 ATGAT-TGCAATTAATCTTAGAT
1 ATGATATGC----AATCTTAGAT
2868554 ATGATATGCAATCTTAGA
1 ATGATATGCAATCTTAGA
2868572 AGATATGATT
Statistics
Matches: 67, Mismatches: 0, Indels: 14
0.83 0.00 0.17
Matches are distributed among these distances:
17 33 0.49
18 1 0.01
19 15 0.22
22 15 0.22
23 3 0.04
ACGTcount: A:0.39, C:0.11, G:0.14, T:0.37
Consensus pattern (19 bp):
ATGATATGCAATCTTAGAT
Found at i:2868597 original size:22 final size:21
Alignment explanation
Indices: 2868543--2868597 Score: 60
Period size: 22 Copynumber: 2.6 Consensus size: 21
2868533 TGATTGCAAT
2868543 TAATCTT--AGATATGATATG
1 TAATCTTAGAGATATGATATG
* *
2868562 CAATCTTAGAAGATATGATTTTG
1 TAATCTTAG-AGATATGA-TATG
2868585 TAATCTTAGAGAT
1 TAATCTTAGAGAT
2868598 TTAATTTGTA
Statistics
Matches: 29, Mismatches: 3, Indels: 5
0.78 0.08 0.14
Matches are distributed among these distances:
19 6 0.21
22 12 0.41
23 11 0.38
ACGTcount: A:0.36, C:0.07, G:0.16, T:0.40
Consensus pattern (21 bp):
TAATCTTAGAGATATGATATG
Found at i:2873002 original size:39 final size:39
Alignment explanation
Indices: 2872959--2873137 Score: 304
Period size: 39 Copynumber: 4.6 Consensus size: 39
2872949 GCTCTGATGA
2872959 GCTTCAGTTAGCCTTCGGGCTTCCGTTTAGCACTTATGT
1 GCTTCAGTTAGCCTTCGGGCTTCCGTTTAGCACTTATGT
* **
2872998 GCTTCAGTTAGCCTCCGGGCTTTTGTTTAGCACTTATGT
1 GCTTCAGTTAGCCTTCGGGCTTCCGTTTAGCACTTATGT
2873037 GCTTCAGTTAGCCTTCGGGCTTCCGTTTAGCACTTATGT
1 GCTTCAGTTAGCCTTCGGGCTTCCGTTTAGCACTTATGT
2873076 GCTTCAGTTAGCCTTCGGGCTTCCGTTTAGCACTTATGT
1 GCTTCAGTTAGCCTTCGGGCTTCCGTTTAGCACTTATGT
* **
2873115 GCTTCAGCTAGATTTCGGGCTTC
1 GCTTCAGTTAGCCTTCGGGCTTC
2873138 AGATCACGAT
Statistics
Matches: 131, Mismatches: 9, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
39 131 1.00
ACGTcount: A:0.13, C:0.25, G:0.23, T:0.39
Consensus pattern (39 bp):
GCTTCAGTTAGCCTTCGGGCTTCCGTTTAGCACTTATGT
Found at i:2877488 original size:17 final size:17
Alignment explanation
Indices: 2877462--2877495 Score: 59
Period size: 17 Copynumber: 2.0 Consensus size: 17
2877452 TATATAATTG
*
2877462 AAATATGTTATAATATA
1 AAATAAGTTATAATATA
2877479 AAATAAGTTATAATATA
1 AAATAAGTTATAATATA
2877496 TTAAGTGGGG
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
17 16 1.00
ACGTcount: A:0.56, C:0.00, G:0.06, T:0.38
Consensus pattern (17 bp):
AAATAAGTTATAATATA
Found at i:2878817 original size:24 final size:24
Alignment explanation
Indices: 2878785--2878874 Score: 137
Period size: 24 Copynumber: 3.8 Consensus size: 24
2878775 ATGACATTGA
2878785 CACTATGTGTGCGGATTTGAATGG
1 CACTATGTGTGCGGATTTGAATGG
2878809 CACTATGTGTGCGGATTTGAATGG
1 CACTATGTGTGCGGATTTGAATGG
* *
2878833 CACTACGTGTGCGGATTAGCAA-GG
1 CACTATGTGTGCGGATTTG-AATGG
*
2878857 CACTATGTGTGCGAATTT
1 CACTATGTGTGCGGATTT
2878875 CCTTAAACGA
Statistics
Matches: 60, Mismatches: 5, Indels: 2
0.90 0.07 0.03
Matches are distributed among these distances:
24 58 0.97
25 2 0.03
ACGTcount: A:0.22, C:0.16, G:0.31, T:0.31
Consensus pattern (24 bp):
CACTATGTGTGCGGATTTGAATGG
Found at i:2884781 original size:78 final size:78
Alignment explanation
Indices: 2884673--2885123 Score: 672
Period size: 78 Copynumber: 5.8 Consensus size: 78
2884663 CGAAGAAACA
** * * **
2884673 GATTTGGCATCTCCATATTCGACGGAGAGCAGATCGAAGACATAGCAGATCTGACCTTTTTTGAA
1 GATTTGGCATCTCTGTATTAGACGGGGAGCAGATCGAAGACATAGCAGATCTGACCTTCATTGAA
2884738 GCAGATCCAAGAT
66 GCAGATCCAAGAT
*
2884751 GATTTGGCATCTCTGTATTAGACGGGGAGCAGATCGAAGACAAAGCAGAT-TGGACCTTCATTGA
1 GATTTGGCATCTCTGTATTAGACGGGGAGCAGATCGAAGACATAGCAGATCT-GACCTTCATTGA
*
2884815 AGTAGATCCAAGAT
65 AGCAGATCCAAGAT
** * * *
2884829 GATTTGGCATCTCCATATTCGACGGAGAGCAGATCGAAGACATAGCAGATTTGACCTTCATTGAA
1 GATTTGGCATCTCTGTATTAGACGGGGAGCAGATCGAAGACATAGCAGATCTGACCTTCATTGAA
2884894 GCAGATCCAAGAT
66 GCAGATCCAAGAT
* * *
2884907 GATTTGGCATCTCTGTATTAGATGGGGAGTAGATCGAAGACACAGCAGATCTGACCTTCATTGAA
1 GATTTGGCATCTCTGTATTAGACGGGGAGCAGATCGAAGACATAGCAGATCTGACCTTCATTGAA
*
2884972 GTAGATCCAAGAT
66 GCAGATCCAAGAT
* * * * *
2884985 GATTTGGCATCTCTGTATTATACAGGGAGCAGATCAAAGACATAACAGAT-TGGATCTTCATTGA
1 GATTTGGCATCTCTGTATTAGACGGGGAGCAGATCGAAGACATAGCAGATCT-GACCTTCATTGA
2885049 AGCAGATCCAAGAT
65 AGCAGATCCAAGAT
2885063 GATTTGGCATCTCTGTATTAGACGGGGAGCAGATCGAAGACATAGCAGATCTGACCTTCAT
1 GATTTGGCATCTCTGTATTAGACGGGGAGCAGATCGAAGACATAGCAGATCTGACCTTCAT
2885124 GTGTTTACAT
Statistics
Matches: 332, Mismatches: 37, Indels: 8
0.88 0.10 0.02
Matches are distributed among these distances:
77 2 0.01
78 328 0.99
79 2 0.01
ACGTcount: A:0.31, C:0.18, G:0.24, T:0.26
Consensus pattern (78 bp):
GATTTGGCATCTCTGTATTAGACGGGGAGCAGATCGAAGACATAGCAGATCTGACCTTCATTGAA
GCAGATCCAAGAT
Found at i:2885186 original size:45 final size:45
Alignment explanation
Indices: 2885063--2885284 Score: 213
Period size: 45 Copynumber: 4.9 Consensus size: 45
2885053 GATCCAAGAT
2885063 GATTTGGCATCTCTGTATTAGACGGGGAGCAGATCGAAGACAT-AGCA
1 GATTTGGCATCTCTGTATTAGACGGGGAGCAGATCGAAG--ATGA-CA
* * * * * * *
2885110 GATCTGACCT-TCATGTGTTTACATC--GAAGCAGATCTAAGATGACA
1 GATTTGGCATCTC-TGT-ATTAGA-CGGGGAGCAGATCGAAGATGACA
* *
2885155 GATTTGGCATCTCTGTATTAGACGGGGAGCAGATTGAAGAAG-CA
1 GATTTGGCATCTCTGTATTAGACGGGGAGCAGATCGAAGATGACA
* * *
2885199 GATTTGGCGTCTCTGTTTTAGACGGGGAGCAGATCGAAGATAACA
1 GATTTGGCATCTCTGTATTAGACGGGGAGCAGATCGAAGATGACA
* *
2885244 GATTTGG-AGTCTCTGTATTAGACGAGGAGCAGATCAAAGAT
1 GATTTGGCA-TCTCTGTATTAGACGGGGAGCAGATCGAAGAT
2885285 AGCAGATATC
Statistics
Matches: 141, Mismatches: 25, Indels: 20
0.76 0.13 0.11
Matches are distributed among these distances:
43 1 0.01
44 43 0.30
45 65 0.46
46 5 0.04
47 22 0.16
48 4 0.03
49 1 0.01
ACGTcount: A:0.30, C:0.16, G:0.28, T:0.26
Consensus pattern (45 bp):
GATTTGGCATCTCTGTATTAGACGGGGAGCAGATCGAAGATGACA
Found at i:2885257 original size:89 final size:90
Alignment explanation
Indices: 2885063--2885291 Score: 279
Period size: 89 Copynumber: 2.5 Consensus size: 90
2885053 GATCCAAGAT
2885063 GATTTGGCATCTCTGTATTAGACGGGGAGCAGATCGAAGACATAGCAGATCTGACCTTCATGTGT
1 GATTTGGCATCTCTGTATTAGACGGGGAGCAGATCGAAG--ATAGCAGATCTGACCTTCATGTGT
* *
2885128 TTACATCGAAGCAGATCTAAGATGACA
64 TTACATCGAAGCAGATCGAAGATAACA
* * * *
2885155 GATTTGGCATCTCTGTATTAGACGGGGAGCAGATTGAAGA-AGCAGATTTGGCGTCTC-TGT-TT
1 GATTTGGCATCTCTGTATTAGACGGGGAGCAGATCGAAGATAGCAGATCTGACCT-TCATGTGTT
* *
2885217 TAGA-CGGGGAGCAGATCGAAGATAACA
65 TACATC--GAAGCAGATCGAAGATAACA
* *
2885244 GATTTGG-AGTCTCTGTATTAGACGAGGAGCAGATCAAAGATAGCAGAT
1 GATTTGGCA-TCTCTGTATTAGACGGGGAGCAGATCGAAGATAGCAGAT
2885292 ATCGCCTTCC
Statistics
Matches: 121, Mismatches: 11, Indels: 12
0.84 0.08 0.08
Matches are distributed among these distances:
87 1 0.01
88 6 0.05
89 66 0.55
90 10 0.08
92 38 0.31
ACGTcount: A:0.30, C:0.16, G:0.28, T:0.26
Consensus pattern (90 bp):
GATTTGGCATCTCTGTATTAGACGGGGAGCAGATCGAAGATAGCAGATCTGACCTTCATGTGTTT
ACATCGAAGCAGATCGAAGATAACA
Found at i:2885319 original size:89 final size:87
Alignment explanation
Indices: 2885063--2885326 Score: 248
Period size: 89 Copynumber: 2.9 Consensus size: 87
2885053 GATCCAAGAT
* *
2885063 GATTTGGCATCTCTGTATTAGACGGGGAGCAGATCGAAGACATAGCAGATCTGACCTTCATGTGT
1 GATTTGGCATCTCTGTATTAGACGGGGAGCAGATC-AA-AGATAGCAGAT-TG-CCTTCCTGTG-
* * *
2885128 TTACA-TCGAAGCAGATCTAAGATGACA
61 TTGCAGT-GAAGCAGATCGAAGATAACA
** * * *
2885155 GATTTGGCATCTCTGTATTAGACGGGGAGCAGATTGAAGA-AGCAGATTTGGCGTCTCTGTTTTA
1 GATTTGGCATCTCTGTATTAGACGGGGAGCAGATCAAAGATAGCAGA-TTGCCTTC-CTGTGTT-
* *
2885219 G-ACGGGGAGCAGATCGAAGATAACA
63 GCA-GTGAAGCAGATCGAAGATAACA
* *
2885244 GATTTGG-AGTCTCTGTATTAGACGAGGAGCAGATCAAAGATAGCAGATATCGCCTTCCTGAGTT
1 GATTTGGCA-TCTCTGTATTAGACGGGGAGCAGATCAAAGATAGCAGAT-T-GCCTTCCTGTGTT
*
2885308 GCAGTGAAGCAGATTGAAG
63 GCAGTGAAGCAGATCGAAG
2885327 TCATCAAGAG
Statistics
Matches: 140, Mismatches: 22, Indels: 23
0.76 0.12 0.12
Matches are distributed among these distances:
88 7 0.05
89 78 0.56
90 16 0.11
91 5 0.04
92 34 0.24
ACGTcount: A:0.30, C:0.16, G:0.28, T:0.26
Consensus pattern (87 bp):
GATTTGGCATCTCTGTATTAGACGGGGAGCAGATCAAAGATAGCAGATTGCCTTCCTGTGTTGCA
GTGAAGCAGATCGAAGATAACA
Found at i:2885666 original size:19 final size:19
Alignment explanation
Indices: 2885642--2885751 Score: 181
Period size: 19 Copynumber: 5.9 Consensus size: 19
2885632 ATAATCTTCA
2885642 ATGATATGCAATCTTAGAT
1 ATGATATGCAATCTTAGAT
2885661 ATGATA--CAATCTTAGAT
1 ATGATATGCAATCTTAGAT
*
2885678 ATGATATGCAGTCTTAGAT
1 ATGATATGCAATCTTAGAT
*
2885697 ATGATACGCAATCTTAGAT
1 ATGATATGCAATCTTAGAT
2885716 ATGAT-TGCAATCTTAGAT
1 ATGATATGCAATCTTAGAT
2885734 ATGATATGCAATCTTAGA
1 ATGATATGCAATCTTAGA
2885752 AGATATGATT
Statistics
Matches: 84, Mismatches: 4, Indels: 6
0.89 0.04 0.06
Matches are distributed among these distances:
17 17 0.20
18 17 0.20
19 50 0.60
ACGTcount: A:0.36, C:0.12, G:0.16, T:0.35
Consensus pattern (19 bp):
ATGATATGCAATCTTAGAT
Found at i:2885739 original size:37 final size:37
Alignment explanation
Indices: 2885642--2885758 Score: 179
Period size: 37 Copynumber: 3.2 Consensus size: 37
2885632 ATAATCTTCA
2885642 ATGATATGCAATCTTAGATATGATA-CAATCTTAGAT
1 ATGATATGCAATCTTAGATATGATAGCAATCTTAGAT
*
2885678 ATGATATGCAGTCTTAGATATGATACGCAATCTTAGAT
1 ATGATATGCAATCTTAGATATGATA-GCAATCTTAGAT
2885716 ATGAT-TGCAATCTTAGATATGATATGCAATCTTAGA-
1 ATGATATGCAATCTTAGATATGATA-GCAATCTTAGAT
2885752 A-GATATG
1 ATGATATG
2885759 ATTTTGTAAT
Statistics
Matches: 75, Mismatches: 3, Indels: 6
0.89 0.04 0.07
Matches are distributed among these distances:
35 3 0.04
36 27 0.36
37 29 0.39
38 16 0.21
ACGTcount: A:0.37, C:0.11, G:0.17, T:0.35
Consensus pattern (37 bp):
ATGATATGCAATCTTAGATATGATAGCAATCTTAGAT
Found at i:2885749 original size:56 final size:55
Alignment explanation
Indices: 2885642--2885751 Score: 184
Period size: 56 Copynumber: 2.0 Consensus size: 55
2885632 ATAATCTTCA
* *
2885642 ATGATATGCAATCTTAGATATGATACAATCTTAGATATGATATGCAGTCTTAGAT
1 ATGATACGCAATCTTAGATATGATACAATCTTAGATATGATATGCAATCTTAGAT
*
2885697 ATGATACGCAATCTTAGATATGATTGCAATCTTAGATATGATATGCAATCTTAGA
1 ATGATACGCAATCTTAGATATGA-TACAATCTTAGATATGATATGCAATCTTAGA
2885752 AGATATGATT
Statistics
Matches: 51, Mismatches: 3, Indels: 1
0.93 0.05 0.02
Matches are distributed among these distances:
55 22 0.43
56 29 0.57
ACGTcount: A:0.36, C:0.12, G:0.16, T:0.35
Consensus pattern (55 bp):
ATGATACGCAATCTTAGATATGATACAATCTTAGATATGATATGCAATCTTAGAT
Found at i:2889887 original size:6 final size:6
Alignment explanation
Indices: 2889876--2889902 Score: 54
Period size: 6 Copynumber: 4.5 Consensus size: 6
2889866 AAACTACCCA
2889876 AGCATG AGCATG AGCATG AGCATG AGC
1 AGCATG AGCATG AGCATG AGCATG AGC
2889903 CACCTTTGAC
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 21 1.00
ACGTcount: A:0.33, C:0.19, G:0.33, T:0.15
Consensus pattern (6 bp):
AGCATG
Found at i:2892315 original size:22 final size:22
Alignment explanation
Indices: 2892289--2892336 Score: 96
Period size: 22 Copynumber: 2.2 Consensus size: 22
2892279 CAAGCTGAAA
2892289 TTCTTAGCACAGTCATATAAAT
1 TTCTTAGCACAGTCATATAAAT
2892311 TTCTTAGCACAGTCATATAAAT
1 TTCTTAGCACAGTCATATAAAT
2892333 TTCT
1 TTCT
2892337 GAAGAGATTA
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
22 26 1.00
ACGTcount: A:0.33, C:0.19, G:0.08, T:0.40
Consensus pattern (22 bp):
TTCTTAGCACAGTCATATAAAT
Found at i:2893655 original size:26 final size:26
Alignment explanation
Indices: 2893626--2893733 Score: 162
Period size: 26 Copynumber: 4.2 Consensus size: 26
2893616 TGATAAAAAT
* *
2893626 TGATAATGGGTTAGGTAAATGTTTCA
1 TGATAATGGGTTAGGTAAATATTCCA
2893652 TGATAATGGGTTAGGTAAATATTCCA
1 TGATAATGGGTTAGGTAAATATTCCA
* *
2893678 TGATAATAGTTTAGGTAAATATTCCA
1 TGATAATGGGTTAGGTAAATATTCCA
* *
2893704 TGATAATGGTTTAGGTAAATGTTCCA
1 TGATAATGGGTTAGGTAAATATTCCA
2893730 TGAT
1 TGAT
2893734 GGTCATTTCA
Statistics
Matches: 76, Mismatches: 6, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
26 76 1.00
ACGTcount: A:0.33, C:0.06, G:0.22, T:0.38
Consensus pattern (26 bp):
TGATAATGGGTTAGGTAAATATTCCA
Found at i:2895282 original size:546 final size:546
Alignment explanation
Indices: 2894250--2895347 Score: 2151
Period size: 546 Copynumber: 2.0 Consensus size: 546
2894240 ACATGCATGC
*
2894250 AAGTTATGTGTGAAAGAGTGAATTTGGTAATAAATCTGCTTGGGACAGCAGCAGTAACGTGATTT
1 AAGTTATGTGTGAAAGAGTGAATTTGGTAATAAATCTGCTTGGGACAGCAGCAGTAACGTAATTT
2894315 TGGAAAATCACCATAAATTGTGGGAGATGAGTTAGAAGCTGAATAAATTATGTAATTAAATATTA
66 TGGAAAATCACCATAAATTGTGGGAGATGAGTTAGAAGCTGAATAAATTATGTAATTAAATATTA
2894380 ATGAGTCTAGTTTCAAATGAAATAAACCAGAACATATTTTGAATTTTGTACAATGAGAAATTTGA
131 ATGAGTCTAGTTTCAAATGAAATAAACCAGAACATATTTTGAATTTTGTACAATGAGAAATTTGA
2894445 TTCGTCATGAAGAGTGGTCAGATTAGTCAAACAGTGAAACATGGGAAACTTTAAGAAAAATCTGG
196 TTCGTCATGAAGAGTGGTCAGATTAGTCAAACAGTGAAACATGGGAAACTTTAAGAAAAATCTGG
2894510 TATTGATTGGCTAAACCAAAAATTCTGAAAATTTTATGGATAGAAGATATATGAGTCTATTTTCA
261 TATTGATTGGCTAAACCAAAAATTCTGAAAATTTTATGGATAGAAGATATATGAGTCTATTTTCA
*
2894575 GGGAAAATTAACGGCACTTGATTTGGAGTTTCGTAGCTCTAGTTATAAACGATTTAGTGACTGTT
326 GGGAAAATTAACGGCACTTGATTTGGAGTTTCGTAGCTCTAATTATAAACGATTTAGTGACTGTT
2894640 GCTCAGGAAGACAGCTTGCAGTGAAATTATGATTATGTGGTAAACATTGACAAATTTGTTAATGA
391 GCTCAGGAAGACAGCTTGCAGTGAAATTATGATTATGTGGTAAACATTGACAAATTTGTTAATGA
2894705 ATTGCTTATTGATTTCTTATAAGCTTACTATGATCTGTAGGTGTGGTTGGCCGAATATTGTAAGG
456 ATTGCTTATTGATTTCTTATAAGCTTACTATGATCTGTAGGTGTGGTTGGCCGAATATTGTAAGG
2894770 GGTTAATACGTAGTTCGTATTTGAAT
521 GGTTAATACGTAGTTCGTATTTGAAT
2894796 AAGTTATGTGTGAAAGAGTGAATTTGGTAATAAATCTGCTTGGGACAGCAGCAGTAACGTAATTT
1 AAGTTATGTGTGAAAGAGTGAATTTGGTAATAAATCTGCTTGGGACAGCAGCAGTAACGTAATTT
2894861 TGGAAAATCACCATAAATTGTGGGAGATGAGTTAGAAGCTGAATAAATTATGTAATTAAATATTA
66 TGGAAAATCACCATAAATTGTGGGAGATGAGTTAGAAGCTGAATAAATTATGTAATTAAATATTA
2894926 ATGAGTCTAGTTTCAAATGAAATAAACCAGAACATATTTTGAATTTTGTACAATGAGAAATTTGA
131 ATGAGTCTAGTTTCAAATGAAATAAACCAGAACATATTTTGAATTTTGTACAATGAGAAATTTGA
2894991 TTCGTCATGAAGAGTGGTCAGATTAGTCAAACAGTGAAACATGGGAAACTTTAAGAAAAATCTGG
196 TTCGTCATGAAGAGTGGTCAGATTAGTCAAACAGTGAAACATGGGAAACTTTAAGAAAAATCTGG
2895056 TATTGATTGGCTAAACCAAAAATTCTGAAAATTTTATGGATAGAAGATATATGAGTCTATTTTCA
261 TATTGATTGGCTAAACCAAAAATTCTGAAAATTTTATGGATAGAAGATATATGAGTCTATTTTCA
* *
2895121 GGGAAAATTAACGGTACTTGATTTGGAGTTTCGTAGCTCTAATTATAAATGATTTAGTGACTGTT
326 GGGAAAATTAACGGCACTTGATTTGGAGTTTCGTAGCTCTAATTATAAACGATTTAGTGACTGTT
*
2895186 GCTCAGGAAGATAGCTTGCAGTGAAATTATGATTATGTGGTAAACATTGACAAATTTGTTAATGA
391 GCTCAGGAAGACAGCTTGCAGTGAAATTATGATTATGTGGTAAACATTGACAAATTTGTTAATGA
2895251 ATTGCTTATTGATTTCTTATAAGCTTACTATGATCTGTAGGTGTGGTTGGCCGAATATTGTAAGG
456 ATTGCTTATTGATTTCTTATAAGCTTACTATGATCTGTAGGTGTGGTTGGCCGAATATTGTAAGG
2895316 GGTTAATACGTAGTTCGTATTTGAAT
521 GGTTAATACGTAGTTCGTATTTGAAT
2895342 AAGTTA
1 AAGTTA
2895348 GATTAACGTG
Statistics
Matches: 547, Mismatches: 5, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
546 547 1.00
ACGTcount: A:0.35, C:0.10, G:0.22, T:0.34
Consensus pattern (546 bp):
AAGTTATGTGTGAAAGAGTGAATTTGGTAATAAATCTGCTTGGGACAGCAGCAGTAACGTAATTT
TGGAAAATCACCATAAATTGTGGGAGATGAGTTAGAAGCTGAATAAATTATGTAATTAAATATTA
ATGAGTCTAGTTTCAAATGAAATAAACCAGAACATATTTTGAATTTTGTACAATGAGAAATTTGA
TTCGTCATGAAGAGTGGTCAGATTAGTCAAACAGTGAAACATGGGAAACTTTAAGAAAAATCTGG
TATTGATTGGCTAAACCAAAAATTCTGAAAATTTTATGGATAGAAGATATATGAGTCTATTTTCA
GGGAAAATTAACGGCACTTGATTTGGAGTTTCGTAGCTCTAATTATAAACGATTTAGTGACTGTT
GCTCAGGAAGACAGCTTGCAGTGAAATTATGATTATGTGGTAAACATTGACAAATTTGTTAATGA
ATTGCTTATTGATTTCTTATAAGCTTACTATGATCTGTAGGTGTGGTTGGCCGAATATTGTAAGG
GGTTAATACGTAGTTCGTATTTGAAT
Found at i:2900721 original size:26 final size:26
Alignment explanation
Indices: 2900670--2900723 Score: 65
Period size: 26 Copynumber: 2.1 Consensus size: 26
2900660 AATATTTATA
*
2900670 TTATATTATTTTAATATTTAATAATT
1 TTATATTATTTTAATATTGAATAATT
* *
2900696 TTATATTTTTTTATTTATTGAA-AATT
1 TTATATTATTTTA-ATATTGAATAATT
2900722 TT
1 TT
2900724 TTATATAGTG
Statistics
Matches: 24, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
26 18 0.75
27 6 0.25
ACGTcount: A:0.33, C:0.00, G:0.02, T:0.65
Consensus pattern (26 bp):
TTATATTATTTTAATATTGAATAATT
Found at i:2901779 original size:18 final size:18
Alignment explanation
Indices: 2901756--2901794 Score: 51
Period size: 18 Copynumber: 2.2 Consensus size: 18
2901746 CAACCTCAAA
*
2901756 TTTTTTCCTACTTTGATT
1 TTTTTTCCAACTTTGATT
* *
2901774 TTTTTTTCAACTTTTATT
1 TTTTTTCCAACTTTGATT
2901792 TTT
1 TTT
2901795 AATTTTTTTT
Statistics
Matches: 18, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
18 18 1.00
ACGTcount: A:0.13, C:0.13, G:0.03, T:0.72
Consensus pattern (18 bp):
TTTTTTCCAACTTTGATT
Found at i:2901799 original size:25 final size:25
Alignment explanation
Indices: 2901771--2901821 Score: 77
Period size: 25 Copynumber: 2.0 Consensus size: 25
2901761 TCCTACTTTG
2901771 ATTTTTTTTT-CAACTTTTATTTTTA
1 ATTTTTTTTTCCAAC-TTTATTTTTA
*
2901796 ATTTTTTTTTCCAACTTTCTTTTTA
1 ATTTTTTTTTCCAACTTTATTTTTA
2901821 A
1 A
2901822 GGTGATTCTT
Statistics
Matches: 24, Mismatches: 1, Indels: 2
0.89 0.04 0.07
Matches are distributed among these distances:
25 20 0.83
26 4 0.17
ACGTcount: A:0.20, C:0.12, G:0.00, T:0.69
Consensus pattern (25 bp):
ATTTTTTTTTCCAACTTTATTTTTA
Found at i:2902394 original size:101 final size:101
Alignment explanation
Indices: 2902219--2902427 Score: 310
Period size: 101 Copynumber: 2.1 Consensus size: 101
2902209 TCCTTTGTGA
* * * * *
2902219 ATCTTGAGTAGTGTCCAATTGGTTGATTGTAATTAGTCGTCAAAATAATTTGACAATAGCAATGC
1 ATCTTTAGTAATGTCCAATTAGTTGATCGGAATTAGTCGTCAAAATAATTTGACAATAGCAATGC
* * * *
2902284 TAAGTTGCCAGTATTGATGATTGATCTAGGTGATGC
66 TAAGATGCCAGTATTAATGATTCATCTAAGTGATGC
* *
2902320 ATCTTTAGTAATGTCCAATTAGTTGATCGGAATTTGTCGTTAAAATAATTTGACAATAGCAATGC
1 ATCTTTAGTAATGTCCAATTAGTTGATCGGAATTAGTCGTCAAAATAATTTGACAATAGCAATGC
*
2902385 TAAGATGCCATTATTAATGATTCATCTAAGTGATGC
66 TAAGATGCCAGTATTAATGATTCATCTAAGTGATGC
2902421 ATCTTTA
1 ATCTTTA
2902428 ATATAATATT
Statistics
Matches: 96, Mismatches: 12, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
101 96 1.00
ACGTcount: A:0.32, C:0.12, G:0.19, T:0.37
Consensus pattern (101 bp):
ATCTTTAGTAATGTCCAATTAGTTGATCGGAATTAGTCGTCAAAATAATTTGACAATAGCAATGC
TAAGATGCCAGTATTAATGATTCATCTAAGTGATGC
Found at i:2905424 original size:14 final size:15
Alignment explanation
Indices: 2905393--2905426 Score: 52
Period size: 14 Copynumber: 2.3 Consensus size: 15
2905383 AAAATGCAAA
2905393 AAAAACAAATTAAAT
1 AAAAACAAATTAAAT
*
2905408 AAAAACAAA-TAATT
1 AAAAACAAATTAAAT
2905422 AAAAA
1 AAAAA
2905427 GAATATGAAA
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
14 9 0.50
15 9 0.50
ACGTcount: A:0.76, C:0.06, G:0.00, T:0.18
Consensus pattern (15 bp):
AAAAACAAATTAAAT
Found at i:2911827 original size:21 final size:20
Alignment explanation
Indices: 2911789--2911839 Score: 68
Period size: 21 Copynumber: 2.5 Consensus size: 20
2911779 GACTTTATAA
*
2911789 AATTTTATA-ATTTTTTTCT
1 AATTTTAAATATTTTTTTCT
2911808 AATTTTAAATATTGTTTTTCT
1 AATTTTAAATATT-TTTTTCT
*
2911829 AATTTTTAATA
1 AATTTTAAATA
2911840 AAAGCATGGG
Statistics
Matches: 28, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
19 8 0.29
20 3 0.11
21 17 0.61
ACGTcount: A:0.31, C:0.04, G:0.02, T:0.63
Consensus pattern (20 bp):
AATTTTAAATATTTTTTTCT
Found at i:2913205 original size:16 final size:16
Alignment explanation
Indices: 2913175--2913217 Score: 70
Period size: 16 Copynumber: 2.8 Consensus size: 16
2913165 AAAAAGTTCT
*
2913175 AATATAATA-TTTAAA
1 AATATAACATTTTAAA
2913190 AATATAACATTTTAAA
1 AATATAACATTTTAAA
2913206 AATATAACATTT
1 AATATAACATTT
2913218 ACCGAAAAAT
Statistics
Matches: 26, Mismatches: 1, Indels: 1
0.93 0.04 0.04
Matches are distributed among these distances:
15 8 0.31
16 18 0.69
ACGTcount: A:0.56, C:0.05, G:0.00, T:0.40
Consensus pattern (16 bp):
AATATAACATTTTAAA
Found at i:2913330 original size:32 final size:31
Alignment explanation
Indices: 2913250--2913330 Score: 83
Period size: 32 Copynumber: 2.5 Consensus size: 31
2913240 AAGACGTCAC
* *
2913250 ATCATTTTATAATTATTATCAATTATTTAAT
1 ATCATTTTATAATTTTTATCAATTATTGAAT
* * *
2913281 GTCATTTTAATATTTTTTAT-TATTATTGACAT
1 ATCATTTT-ATAATTTTTATCAATTATTGA-AT
2913313 ATCATTTTGATAATTTTT
1 ATCATTTT-ATAATTTTT
2913331 TAAATTAAAA
Statistics
Matches: 40, Mismatches: 8, Indels: 3
0.78 0.16 0.06
Matches are distributed among these distances:
31 14 0.35
32 26 0.65
ACGTcount: A:0.32, C:0.06, G:0.04, T:0.58
Consensus pattern (31 bp):
ATCATTTTATAATTTTTATCAATTATTGAAT
Found at i:2913471 original size:13 final size:14
Alignment explanation
Indices: 2913453--2913485 Score: 59
Period size: 13 Copynumber: 2.4 Consensus size: 14
2913443 AGAGTTCAAT
2913453 ATTTAATGTCCAA-
1 ATTTAATGTCCAAG
2913466 ATTTAATGTCCAAG
1 ATTTAATGTCCAAG
2913480 ATTTAA
1 ATTTAA
2913486 GTTTTAAGAT
Statistics
Matches: 19, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
13 13 0.68
14 6 0.32
ACGTcount: A:0.39, C:0.12, G:0.09, T:0.39
Consensus pattern (14 bp):
ATTTAATGTCCAAG
Found at i:2917541 original size:10 final size:10
Alignment explanation
Indices: 2917526--2917566 Score: 55
Period size: 10 Copynumber: 4.0 Consensus size: 10
2917516 ATAAAAATAT
2917526 TATATATAAA
1 TATATATAAA
*
2917536 TATATATACA
1 TATATATAAA
*
2917546 TATATATACA
1 TATATATAAA
2917556 TATATAATAAA
1 TATAT-ATAAA
2917567 AACATACATT
Statistics
Matches: 28, Mismatches: 2, Indels: 1
0.90 0.06 0.03
Matches are distributed among these distances:
10 24 0.86
11 4 0.14
ACGTcount: A:0.56, C:0.05, G:0.00, T:0.39
Consensus pattern (10 bp):
TATATATAAA
Found at i:2917674 original size:44 final size:45
Alignment explanation
Indices: 2917624--2917710 Score: 113
Period size: 44 Copynumber: 2.0 Consensus size: 45
2917614 GTAACAATAC
* * *
2917624 TAATATATTAAGTTACAAAAGTAAAATAATAA-TAATGATAATGA
1 TAATATATCAAGTAACAAAAGTAAAATAATAAGTAATAATAATGA
* * *
2917668 TAATATATCAGGTAACTATAGTAAAATAATAAGTAATAATAAT
1 TAATATATCAAGTAACAAAAGTAAAATAATAAGTAATAATAAT
2917711 AACGTGTAAA
Statistics
Matches: 36, Mismatches: 6, Indels: 1
0.84 0.14 0.02
Matches are distributed among these distances:
44 27 0.75
45 9 0.25
ACGTcount: A:0.55, C:0.03, G:0.09, T:0.32
Consensus pattern (45 bp):
TAATATATCAAGTAACAAAAGTAAAATAATAAGTAATAATAATGA
Found at i:2918458 original size:131 final size:131
Alignment explanation
Indices: 2918248--2918704 Score: 358
Period size: 131 Copynumber: 3.5 Consensus size: 131
2918238 AGGGATCTTT
* * * * *
2918248 GATTGTTTTGAGCAAATGAAAAAGCGCAACCCAGCACGATAGGGC-TCGATTCTCAAATTGCCAA
1 GATTGTTTTGAGCAAATGAGAAATCGCAACCCAGCACGATAGGGCAT-GATTCCCGAATTACCAA
** * *
2918312 ACATTGAACGTCGCCTTCGTTTTGAAAA-TTTTTTA-ATAAACATGAGTGAAAACCTAAAG-GAA
65 ACACCGAACATCGCCTTCGTTTT-AAAAGATTTTTAGA-AAACATGAGTGAAAACCTAAAGTG-A
2918374 TATTC
127 TATTC
* *
2918379 GATTGTTTTGAGCAAATGAGAAATCACAACCCAGCACGATAGGGCATGATTCCCGAATTATCAAA
1 GATTGTTTTGAGCAAATGAGAAATCGCAACCCAGCACGATAGGGCATGATTCCCGAATTACCAAA
** * * * *** *
2918444 CACCGAGTATCGCCTTTGTTTTAAAAGATTTTTAGAAGACATGAGTGGAATTTTGAAGTGATATT
66 CACCGAACATCGCCTTCGTTTTAAAAGATTTTTAGAAAACATGAGTGAAAACCTAAAGTGATATT
2918509 C
131 C
* * * * * * *
2918510 GATTATTTTGAGCAAATGCGAAATTGCAACCCAACACGTTAGGGCACGATTCCGCGAATTGCCAA
1 GATTGTTTTGAGCAAATGAGAAATCGCAACCCAGCACGATAGGGCATGATTCC-CGAATTACCAA
* * * ** * ** *
2918575 ACATCAAATC-TCGTCTTCG-TTTAAGGGA-TTTTA-AAAGATATGAGTG-AAATTTGAAGTGAT
65 ACACCGAA-CATCGCCTTCGTTTTAAAAGATTTTTAGAAA-ACATGAGTGAAAACCTAAAGTGAT
2918635 ATTC
128 ATTC
* * * * * * * * *
2918639 GATTATTTCGAGC-AATCGCGAAATTGCAACCCAACACGTTAGGGCACGATTCTGCGAATTGCCA
1 GATTGTTTTGAGCAAAT-GAGAAATCGCAACCCAGCACGATAGGGCATGATTC-CCGAATTACCA
2918703 AA
64 AA
2918705 TATCGAATCT
Statistics
Matches: 275, Mismatches: 42, Indels: 20
0.82 0.12 0.06
Matches are distributed among these distances:
128 3 0.01
129 78 0.28
130 17 0.06
131 153 0.56
132 24 0.09
ACGTcount: A:0.34, C:0.18, G:0.20, T:0.28
Consensus pattern (131 bp):
GATTGTTTTGAGCAAATGAGAAATCGCAACCCAGCACGATAGGGCATGATTCCCGAATTACCAAA
CACCGAACATCGCCTTCGTTTTAAAAGATTTTTAGAAAACATGAGTGAAAACCTAAAGTGATATT
C
Found at i:2918662 original size:129 final size:130
Alignment explanation
Indices: 2918373--2918721 Score: 425
Period size: 129 Copynumber: 2.7 Consensus size: 130
2918363 ACCTAAAGGA
* * * ** * * *
2918373 ATATTCGATTGTTTTGAGCAAATGAGAAATCACAACCCAGCACGATAGGGCATGATTCC-CGAAT
1 ATATTCGATTATTTCGAGCAAATGCGAAATTGCAACCCAACACGTTAGGGCACGATTCCGCGAAT
** * * * * * * ** * *
2918437 TATCAAACACCGAGTATCGCCTTTGTTTTAAAAGATTTTTAGAAGACATGAGTGGAATTTTGAAG
66 TGCCAAACATCAAATCTCGTCTTCG-TTTAAGGGA-TTTTAAAAGACATGAGTGGAAATTTGAAG
2918502 TG
129 TG
*
2918504 ATATTCGATTATTTTGAGCAAATGCGAAATTGCAACCCAACACGTTAGGGCACGATTCCGCGAAT
1 ATATTCGATTATTTCGAGCAAATGCGAAATTGCAACCCAACACGTTAGGGCACGATTCCGCGAAT
*
2918569 TGCCAAACATCAAATCTCGTCTTCGTTTAAGGGATTTTAAAAGATATGAGT-GAAATTTGAAGTG
66 TGCCAAACATCAAATCTCGTCTTCGTTTAAGGGATTTTAAAAGACATGAGTGGAAATTTGAAGTG
*
2918633 ATATTCGATTATTTCGAGC-AATCGCGAAATTGCAACCCAACACGTTAGGGCACGATTCTGCGAA
1 ATATTCGATTATTTCGAGCAAAT-GCGAAATTGCAACCCAACACGTTAGGGCACGATTCCGCGAA
* *
2918697 TTGCCAAATATCGAATCTCGTCTTC
65 TTGCCAAACATCAAATCTCGTCTTC
2918722 ATTTTAAAGA
Statistics
Matches: 192, Mismatches: 24, Indels: 6
0.86 0.11 0.03
Matches are distributed among these distances:
128 3 0.02
129 93 0.48
130 15 0.08
131 59 0.31
132 22 0.11
ACGTcount: A:0.32, C:0.19, G:0.20, T:0.29
Consensus pattern (130 bp):
ATATTCGATTATTTCGAGCAAATGCGAAATTGCAACCCAACACGTTAGGGCACGATTCCGCGAAT
TGCCAAACATCAAATCTCGTCTTCGTTTAAGGGATTTTAAAAGACATGAGTGGAAATTTGAAGTG
Found at i:2919221 original size:24 final size:25
Alignment explanation
Indices: 2919194--2919242 Score: 64
Period size: 25 Copynumber: 2.0 Consensus size: 25
2919184 CTTTTTTTAT
*
2919194 TAAATAAAAAAC-TTTAAAATATAA
1 TAAATAAAAAACATTTAAAACATAA
* *
2919218 TAAATCAAATACATTTAAAACATAA
1 TAAATAAAAAACATTTAAAACATAA
2919243 AAACAAATAT
Statistics
Matches: 21, Mismatches: 3, Indels: 1
0.84 0.12 0.04
Matches are distributed among these distances:
24 10 0.48
25 11 0.52
ACGTcount: A:0.63, C:0.08, G:0.00, T:0.29
Consensus pattern (25 bp):
TAAATAAAAAACATTTAAAACATAA
Found at i:2919235 original size:25 final size:23
Alignment explanation
Indices: 2919206--2919270 Score: 66
Period size: 25 Copynumber: 2.9 Consensus size: 23
2919196 AATAAAAAAC
*
2919206 TTTAAAATATAATAAATCAAATACA
1 TTTAAAACATAA-AAA-CAAATACA
2919231 TTTAAAACATAAAAACAAAT--A
1 TTTAAAACATAAAAACAAATACA
*
2919252 -TTAAAACA-AAAAATAAATA
1 TTTAAAACATAAAAACAAATA
2919271 AATAATGGGA
Statistics
Matches: 37, Mismatches: 2, Indels: 7
0.80 0.04 0.15
Matches are distributed among these distances:
19 9 0.24
20 8 0.22
21 1 0.03
23 5 0.14
24 3 0.08
25 11 0.30
ACGTcount: A:0.66, C:0.08, G:0.00, T:0.26
Consensus pattern (23 bp):
TTTAAAACATAAAAACAAATACA
Found at i:2919269 original size:19 final size:20
Alignment explanation
Indices: 2919232--2919270 Score: 62
Period size: 19 Copynumber: 2.0 Consensus size: 20
2919222 TCAAATACAT
2919232 TTAAAACATAAAAACAAATA
1 TTAAAACATAAAAACAAATA
*
2919252 TTAAAACA-AAAAATAAATA
1 TTAAAACATAAAAACAAATA
2919271 AATAATGGGA
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
19 10 0.56
20 8 0.44
ACGTcount: A:0.72, C:0.08, G:0.00, T:0.21
Consensus pattern (20 bp):
TTAAAACATAAAAACAAATA
Found at i:2920457 original size:20 final size:20
Alignment explanation
Indices: 2920432--2920473 Score: 84
Period size: 20 Copynumber: 2.1 Consensus size: 20
2920422 ACCCATTTAC
2920432 ACCCTTGACCCATTACAATT
1 ACCCTTGACCCATTACAATT
2920452 ACCCTTGACCCATTACAATT
1 ACCCTTGACCCATTACAATT
2920472 AC
1 AC
2920474 AAAATAGACC
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 22 1.00
ACGTcount: A:0.31, C:0.36, G:0.05, T:0.29
Consensus pattern (20 bp):
ACCCTTGACCCATTACAATT
Found at i:2922091 original size:18 final size:18
Alignment explanation
Indices: 2922047--2922097 Score: 56
Period size: 18 Copynumber: 3.1 Consensus size: 18
2922037 TTTAACTCAC
2922047 ACTATATATT-TTTA-TT
1 ACTATATATTATTTATTT
*
2922063 AAT-TA-ATTATTTATTT
1 ACTATATATTATTTATTT
*
2922079 ACTATATATTATTTTTTT
1 ACTATATATTATTTATTT
2922097 A
1 A
2922098 AAACTAATAT
Statistics
Matches: 28, Mismatches: 3, Indels: 6
0.76 0.08 0.16
Matches are distributed among these distances:
14 3 0.11
15 6 0.21
16 6 0.21
17 2 0.07
18 11 0.39
ACGTcount: A:0.33, C:0.04, G:0.00, T:0.63
Consensus pattern (18 bp):
ACTATATATTATTTATTT
Found at i:2935100 original size:46 final size:45
Alignment explanation
Indices: 2934998--2935167 Score: 191
Period size: 46 Copynumber: 3.7 Consensus size: 45
2934988 GAGATTTGTG
* * * * *
2934998 TGCCAGTGTAAGACCATGTATGAGACATGGCATCGGCATTGAGACGA
1 TGCCAGTGTAAGA-CATGTCTGGGACAT-GCATCGGCCTCGAGATGA
* *
2935045 GGGCTAGTGTAAGACATGTCTGGGACATGCATCGGCCTCGAGATGA
1 -TGCCAGTGTAAGACATGTCTGGGACATGCATCGGCCTCGAGATGA
* *
2935091 TAGCCAGTGTCAGACATGTCTGGGACATGCGTCGG-CTACGAGATG-
1 T-GCCAGTGTAAGACATGTCTGGGACATGCATCGGCCT-CGAGATGA
*
2935136 TGCTAGTGTAAGACATGTCTGGGACATGCATC
1 TGCCAGTGTAAGACATGTCTGGGACATGCATC
2935168 AGCACGGTTA
Statistics
Matches: 106, Mismatches: 14, Indels: 8
0.83 0.11 0.06
Matches are distributed among these distances:
44 28 0.26
45 3 0.03
46 52 0.49
47 12 0.11
48 11 0.10
ACGTcount: A:0.25, C:0.20, G:0.32, T:0.23
Consensus pattern (45 bp):
TGCCAGTGTAAGACATGTCTGGGACATGCATCGGCCTCGAGATGA
Found at i:2935159 original size:44 final size:44
Alignment explanation
Indices: 2935047--2935207 Score: 184
Period size: 46 Copynumber: 3.6 Consensus size: 44
2935037 TGAGACGAGG
2935047 GCTAGTGTAAGACATGTCTGGGACATGCATCGGCCT-CGAGATGAT
1 GCTAGTGTAAGACATGTCTGGGACATGCATCGG-CTACGAGATG-T
* * *
2935092 AGCCAGTGTCAGACATGTCTGGGACATGCGTCGGCTACGAGATGT
1 -GCTAGTGTAAGACATGTCTGGGACATGCATCGGCTACGAGATGT
* *
2935137 GCTAGTGTAAGACATGTCTGGGACATGCATCAGC-ACGGTTACATGT
1 GCTAGTGTAAGACATGTCTGGGACATGCATCGGCTAC-G--AGATGT
*
2935183 G-TCAGTGTAAGACCTGTCTGGGACA
1 GCT-AGTGTAAGACATGTCTGGGACA
2935208 CGGCATCGAC
Statistics
Matches: 101, Mismatches: 9, Indels: 10
0.84 0.08 0.08
Matches are distributed among these distances:
43 2 0.02
44 31 0.31
45 4 0.04
46 64 0.63
ACGTcount: A:0.24, C:0.20, G:0.31, T:0.24
Consensus pattern (44 bp):
GCTAGTGTAAGACATGTCTGGGACATGCATCGGCTACGAGATGT
Found at i:2938002 original size:20 final size:18
Alignment explanation
Indices: 2937977--2938013 Score: 56
Period size: 20 Copynumber: 1.9 Consensus size: 18
2937967 ATTGCTAAGT
2937977 TGTAAAATGAGTTGTAAATG
1 TGTAAAAT-AGTTG-AAATG
2937997 TGTAAAATAGTTGAAAT
1 TGTAAAATAGTTGAAAT
2938014 TATGAGTTGC
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
18 4 0.24
19 5 0.29
20 8 0.47
ACGTcount: A:0.43, C:0.00, G:0.22, T:0.35
Consensus pattern (18 bp):
TGTAAAATAGTTGAAATG
Found at i:2938625 original size:47 final size:46
Alignment explanation
Indices: 2938571--2938747 Score: 209
Period size: 47 Copynumber: 3.8 Consensus size: 46
2938561 TGGTTGAGCA
2938571 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGTGGAATG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGT-GAATG
* *
2938618 TCCGAACTCGTTGAGTTGAGTCCGAGTTC-GTGA--GATGT-AACTAGG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGTGAA-T--G
* * *
2938663 CATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTACGGATGCGAACG
1 --TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGTGAATG
* *
2938711 CCCGAGCTCGTTGAGTTGAGTCCGAGTTCACTTATGG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGG
2938748 GCGGGTTACA
Statistics
Matches: 112, Mismatches: 9, Indels: 19
0.80 0.06 0.14
Matches are distributed among these distances:
42 2 0.02
43 1 0.01
44 5 0.04
45 1 0.01
46 36 0.32
47 58 0.52
48 3 0.03
50 4 0.04
51 2 0.02
ACGTcount: A:0.21, C:0.21, G:0.29, T:0.29
Consensus pattern (46 bp):
TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGTGAATG
Found at i:2941292 original size:46 final size:45
Alignment explanation
Indices: 2941190--2941359 Score: 191
Period size: 46 Copynumber: 3.7 Consensus size: 45
2941180 GAGATTTGTG
* * * * *
2941190 TGCCAGTGTAAGACCATGTATGAGACATGGCATCGGCATTGAGACGA
1 TGCCAGTGTAAGA-CATGTCTGGGACAT-GCATCGGCCTCGAGATGA
* *
2941237 GGGCTAGTGTAAGACATGTCTGGGACATGCATCGGCCTCGAGATGA
1 -TGCCAGTGTAAGACATGTCTGGGACATGCATCGGCCTCGAGATGA
* *
2941283 TAGCCAGTGTCAGACATGTCTGGGACATGCGTCGG-CTACGAGATG-
1 T-GCCAGTGTAAGACATGTCTGGGACATGCATCGGCCT-CGAGATGA
*
2941328 TGCTAGTGTAAGACATGTCTGGGACATGCATC
1 TGCCAGTGTAAGACATGTCTGGGACATGCATC
2941360 AGCACGGTTA
Statistics
Matches: 106, Mismatches: 14, Indels: 8
0.83 0.11 0.06
Matches are distributed among these distances:
44 28 0.26
45 3 0.03
46 52 0.49
47 12 0.11
48 11 0.10
ACGTcount: A:0.25, C:0.20, G:0.32, T:0.23
Consensus pattern (45 bp):
TGCCAGTGTAAGACATGTCTGGGACATGCATCGGCCTCGAGATGA
Found at i:2941351 original size:44 final size:44
Alignment explanation
Indices: 2941239--2941399 Score: 184
Period size: 46 Copynumber: 3.6 Consensus size: 44
2941229 TGAGACGAGG
2941239 GCTAGTGTAAGACATGTCTGGGACATGCATCGGCCT-CGAGATGAT
1 GCTAGTGTAAGACATGTCTGGGACATGCATCGG-CTACGAGATG-T
* * *
2941284 AGCCAGTGTCAGACATGTCTGGGACATGCGTCGGCTACGAGATGT
1 -GCTAGTGTAAGACATGTCTGGGACATGCATCGGCTACGAGATGT
* *
2941329 GCTAGTGTAAGACATGTCTGGGACATGCATCAGC-ACGGTTACATGT
1 GCTAGTGTAAGACATGTCTGGGACATGCATCGGCTAC-G--AGATGT
*
2941375 G-TCAGTGTAAGACCTGTCTGGGACA
1 GCT-AGTGTAAGACATGTCTGGGACA
2941400 CGGCATCGAC
Statistics
Matches: 101, Mismatches: 9, Indels: 10
0.84 0.08 0.08
Matches are distributed among these distances:
43 2 0.02
44 31 0.31
45 4 0.04
46 64 0.63
ACGTcount: A:0.24, C:0.20, G:0.31, T:0.24
Consensus pattern (44 bp):
GCTAGTGTAAGACATGTCTGGGACATGCATCGGCTACGAGATGT
Found at i:2944194 original size:20 final size:18
Alignment explanation
Indices: 2944169--2944205 Score: 56
Period size: 20 Copynumber: 1.9 Consensus size: 18
2944159 ATTGCTAAGT
2944169 TGTAAAATGAGTTGTAAATG
1 TGTAAAAT-AGTTG-AAATG
2944189 TGTAAAATAGTTGAAAT
1 TGTAAAATAGTTGAAAT
2944206 TATGAGTTGC
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
18 4 0.24
19 5 0.29
20 8 0.47
ACGTcount: A:0.43, C:0.00, G:0.22, T:0.35
Consensus pattern (18 bp):
TGTAAAATAGTTGAAATG
Found at i:2944817 original size:47 final size:46
Alignment explanation
Indices: 2944763--2944939 Score: 209
Period size: 47 Copynumber: 3.8 Consensus size: 46
2944753 TGGTTGAGCA
2944763 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGTGGAATG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGT-GAATG
* *
2944810 TCCGAACTCGTTGAGTTGAGTCCGAGTTC-GTGA--GATGT-AACTAGG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGTGAA-T--G
* * *
2944855 CATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTACGGATGCGAACG
1 --TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGTGAATG
* *
2944903 CCCGAGCTCGTTGAGTTGAGTCCGAGTTCACTTATGG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGG
2944940 GCGGGTTACA
Statistics
Matches: 112, Mismatches: 9, Indels: 19
0.80 0.06 0.14
Matches are distributed among these distances:
42 2 0.02
43 1 0.01
44 5 0.04
45 1 0.01
46 36 0.32
47 58 0.52
48 3 0.03
50 4 0.04
51 2 0.02
ACGTcount: A:0.21, C:0.21, G:0.29, T:0.29
Consensus pattern (46 bp):
TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGTGAATG
Found at i:2946911 original size:22 final size:22
Alignment explanation
Indices: 2946886--2946928 Score: 59
Period size: 22 Copynumber: 2.0 Consensus size: 22
2946876 TATCCAAAAA
2946886 ATAACAACAAAATAGTAGCAAT
1 ATAACAACAAAATAGTAGCAAT
* **
2946908 ATAATAGTAAAATAGTAGCAA
1 ATAACAACAAAATAGTAGCAA
2946929 AATAGAAAGA
Statistics
Matches: 18, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
22 18 1.00
ACGTcount: A:0.58, C:0.09, G:0.12, T:0.21
Consensus pattern (22 bp):
ATAACAACAAAATAGTAGCAAT
Found at i:2946932 original size:11 final size:11
Alignment explanation
Indices: 2946893--2946933 Score: 55
Period size: 11 Copynumber: 3.7 Consensus size: 11
2946883 AAAATAACAA
2946893 CAAAATAGTAG
1 CAAAATAGTAG
* *
2946904 CAATATAATAG
1 CAAAATAGTAG
*
2946915 TAAAATAGTAG
1 CAAAATAGTAG
2946926 CAAAATAG
1 CAAAATAG
2946934 AAAGAAATTA
Statistics
Matches: 24, Mismatches: 6, Indels: 0
0.80 0.20 0.00
Matches are distributed among these distances:
11 24 1.00
ACGTcount: A:0.56, C:0.07, G:0.15, T:0.22
Consensus pattern (11 bp):
CAAAATAGTAG
Found at i:2955018 original size:19 final size:20
Alignment explanation
Indices: 2954977--2955021 Score: 58
Period size: 19 Copynumber: 2.3 Consensus size: 20
2954967 CCTTTAGATT
*
2954977 TTTTCTTTTATGTTTTTTAA
1 TTTTCTTTTATCTTTTTTAA
2954997 TTTTCTTTT-TCTTTTTCT-A
1 TTTTCTTTTATCTTTTT-TAA
2955016 TTTTCT
1 TTTTCT
2955022 ATCTTCTTCT
Statistics
Matches: 23, Mismatches: 1, Indels: 3
0.85 0.04 0.11
Matches are distributed among these distances:
19 13 0.57
20 10 0.43
ACGTcount: A:0.09, C:0.11, G:0.02, T:0.78
Consensus pattern (20 bp):
TTTTCTTTTATCTTTTTTAA
Found at i:2962330 original size:22 final size:22
Alignment explanation
Indices: 2962291--2962349 Score: 70
Period size: 21 Copynumber: 2.8 Consensus size: 22
2962281 GTTTTAAGAA
*
2962291 TTGTTTTAGTA-TTATTTTTAT
1 TTGTTTTAATATTTATTTTTAT
2962312 TTGTTTTAATATTTATTTTTAT
1 TTGTTTTAATATTTATTTTTAT
* *
2962334 GT-TTTTAA-ATATATTT
1 TTGTTTTAATATTTATTT
2962350 GATTTATTAT
Statistics
Matches: 34, Mismatches: 3, Indels: 3
0.85 0.08 0.08
Matches are distributed among these distances:
20 7 0.21
21 16 0.47
22 11 0.32
ACGTcount: A:0.24, C:0.00, G:0.07, T:0.69
Consensus pattern (22 bp):
TTGTTTTAATATTTATTTTTAT
Found at i:2962366 original size:26 final size:24
Alignment explanation
Indices: 2962320--2962379 Score: 75
Period size: 26 Copynumber: 2.4 Consensus size: 24
2962310 ATTTGTTTTA
*
2962320 ATATTTATTTTTATGTTTTTAAAT
1 ATATTTATTTTTATATTTTTAAAT
2962344 ATATTTGATTTATTATATTTTTAAAT
1 ATATTT-ATTT-TTATATTTTTAAAT
* *
2962370 TTTTTTATTT
1 ATATTTATTT
2962380 AATGAAATAA
Statistics
Matches: 31, Mismatches: 3, Indels: 3
0.84 0.08 0.08
Matches are distributed among these distances:
24 6 0.19
25 8 0.26
26 17 0.55
ACGTcount: A:0.28, C:0.00, G:0.03, T:0.68
Consensus pattern (24 bp):
ATATTTATTTTTATATTTTTAAAT
Found at i:2966728 original size:3 final size:3
Alignment explanation
Indices: 2966722--2966748 Score: 54
Period size: 3 Copynumber: 9.0 Consensus size: 3
2966712 ATGAAGCTGG
2966722 TCA TCA TCA TCA TCA TCA TCA TCA TCA
1 TCA TCA TCA TCA TCA TCA TCA TCA TCA
2966749 ACAGCATCAA
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 24 1.00
ACGTcount: A:0.33, C:0.33, G:0.00, T:0.33
Consensus pattern (3 bp):
TCA
Found at i:2968953 original size:16 final size:17
Alignment explanation
Indices: 2968932--2968964 Score: 50
Period size: 16 Copynumber: 2.0 Consensus size: 17
2968922 TTATGACATA
*
2968932 TATTAACCTTA-ATTAT
1 TATTAACATTAGATTAT
2968948 TATTAACATTAGATTAT
1 TATTAACATTAGATTAT
2968965 CACATTCTCA
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
16 10 0.67
17 5 0.33
ACGTcount: A:0.39, C:0.09, G:0.03, T:0.48
Consensus pattern (17 bp):
TATTAACATTAGATTAT
Found at i:2971827 original size:34 final size:34
Alignment explanation
Indices: 2971789--2971856 Score: 127
Period size: 34 Copynumber: 2.0 Consensus size: 34
2971779 TATCATTGCA
*
2971789 CCAGATACTATTAGAATCTCTCTCTCTCACACAT
1 CCAGATACTATTACAATCTCTCTCTCTCACACAT
2971823 CCAGATACTATTACAATCTCTCTCTCTCACACAT
1 CCAGATACTATTACAATCTCTCTCTCTCACACAT
2971857 ACATACACAA
Statistics
Matches: 33, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
34 33 1.00
ACGTcount: A:0.29, C:0.34, G:0.04, T:0.32
Consensus pattern (34 bp):
CCAGATACTATTACAATCTCTCTCTCTCACACAT
Found at i:2974613 original size:16 final size:17
Alignment explanation
Indices: 2974581--2974613 Score: 59
Period size: 17 Copynumber: 2.0 Consensus size: 17
2974571 TTAATTGAAC
2974581 TTATGTAGTACTTTTAA
1 TTATGTAGTACTTTTAA
2974598 TTATGTAGTA-TTTTAA
1 TTATGTAGTACTTTTAA
2974614 GACTTGAAAC
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
16 6 0.38
17 10 0.62
ACGTcount: A:0.30, C:0.03, G:0.12, T:0.55
Consensus pattern (17 bp):
TTATGTAGTACTTTTAA
Found at i:2983383 original size:23 final size:23
Alignment explanation
Indices: 2983357--2983400 Score: 63
Period size: 23 Copynumber: 1.9 Consensus size: 23
2983347 ATTACAAATG
2983357 AAAATATATATTATT-TTTAATAT
1 AAAATATATATT-TTATTTAATAT
*
2983380 AAAATATTTATTTTATTTAAT
1 AAAATATATATTTTATTTAAT
2983401 TTTAACTTTA
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
22 2 0.11
23 17 0.89
ACGTcount: A:0.45, C:0.00, G:0.00, T:0.55
Consensus pattern (23 bp):
AAAATATATATTTTATTTAATAT
Found at i:2987609 original size:9 final size:9
Alignment explanation
Indices: 2987595--2987635 Score: 73
Period size: 9 Copynumber: 4.6 Consensus size: 9
2987585 AACTGGTCAT
*
2987595 TCCACCATC
1 TCCACCACC
2987604 TCCACCACC
1 TCCACCACC
2987613 TCCACCACC
1 TCCACCACC
2987622 TCCACCACC
1 TCCACCACC
2987631 TCCAC
1 TCCAC
2987636 AGCCAAGGCA
Statistics
Matches: 31, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
9 31 1.00
ACGTcount: A:0.22, C:0.63, G:0.00, T:0.15
Consensus pattern (9 bp):
TCCACCACC
Found at i:2997495 original size:42 final size:42
Alignment explanation
Indices: 2997416--2997496 Score: 117
Period size: 43 Copynumber: 1.9 Consensus size: 42
2997406 TAGTATTGTC
2997416 TCTAATTTATAATTAATTTATTTTGAATAAAATTTTTTATTA
1 TCTAATTTATAATTAATTTATTTTGAATAAAATTTTTTATTA
* ** *
2997458 TCTAATTTATGATTAAATTTATTTTTTATAATATTTTTT
1 TCTAATTTATAATT-AATTTATTTTGAATAAAATTTTTT
2997497 GGCCAAATAT
Statistics
Matches: 34, Mismatches: 4, Indels: 1
0.87 0.10 0.03
Matches are distributed among these distances:
42 13 0.38
43 21 0.62
ACGTcount: A:0.35, C:0.02, G:0.02, T:0.60
Consensus pattern (42 bp):
TCTAATTTATAATTAATTTATTTTGAATAAAATTTTTTATTA
Found at i:2997839 original size:26 final size:25
Alignment explanation
Indices: 2997785--2997839 Score: 67
Period size: 27 Copynumber: 2.2 Consensus size: 25
2997775 TACTTATATT
* *
2997785 TTTTTATTAATTTGACTTTTATTCA
1 TTTTTATTAATTTGACATTTAATCA
2997810 TTTTTAGTTAAATTTGACATTTAATC-
1 TTTTTA-TT-AATTTGACATTTAATCA
2997836 TTTT
1 TTTT
2997840 AAAAAGAATC
Statistics
Matches: 26, Mismatches: 2, Indels: 3
0.84 0.06 0.10
Matches are distributed among these distances:
25 6 0.23
26 6 0.23
27 14 0.54
ACGTcount: A:0.25, C:0.07, G:0.05, T:0.62
Consensus pattern (25 bp):
TTTTTATTAATTTGACATTTAATCA
Found at i:3002016 original size:30 final size:30
Alignment explanation
Indices: 3001980--3002040 Score: 122
Period size: 30 Copynumber: 2.0 Consensus size: 30
3001970 CGAGCAGTAC
3001980 GAAGCTCAATACTCCTTAAGTTAGGTCCCG
1 GAAGCTCAATACTCCTTAAGTTAGGTCCCG
3002010 GAAGCTCAATACTCCTTAAGTTAGGTCCCG
1 GAAGCTCAATACTCCTTAAGTTAGGTCCCG
3002040 G
1 G
3002041 TTTCAAGTCT
Statistics
Matches: 31, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
30 31 1.00
ACGTcount: A:0.26, C:0.26, G:0.21, T:0.26
Consensus pattern (30 bp):
GAAGCTCAATACTCCTTAAGTTAGGTCCCG
Found at i:3006522 original size:26 final size:27
Alignment explanation
Indices: 3006486--3006572 Score: 86
Period size: 26 Copynumber: 3.2 Consensus size: 27
3006476 ACATGTAACA
3006486 AAAAATTATAAAAAATA-AAAATTAAT
1 AAAAATTATAAAAAATATAAAATTAAT
* * * *
3006512 AAAAGTTATAAAAATTATAAATTTTAT
1 AAAAATTATAAAAAATATAAAATTAAT
* **
3006539 AAAAATCATAAAAAAATTATAAAATGCAT
1 AAAAATTAT-AAAAAA-TATAAAATTAAT
3006568 AAAAA
1 AAAAA
3006573 AAGCCCTTTA
Statistics
Matches: 48, Mismatches: 10, Indels: 3
0.79 0.16 0.05
Matches are distributed among these distances:
26 15 0.31
27 14 0.29
28 5 0.10
29 14 0.29
ACGTcount: A:0.67, C:0.02, G:0.02, T:0.29
Consensus pattern (27 bp):
AAAAATTATAAAAAATATAAAATTAAT
Found at i:3006549 original size:9 final size:9
Alignment explanation
Indices: 3006486--3006562 Score: 77
Period size: 9 Copynumber: 8.4 Consensus size: 9
3006476 ACATGTAACA
3006486 AAAAATTAT
1 AAAAATTAT
3006495 AAAAA--AT
1 AAAAATTAT
3006502 AAAAATTAAT
1 AAAAATT-AT
*
3006512 AAAAGTTAT
1 AAAAATTAT
3006521 AAAAATTAT
1 AAAAATTAT
**
3006530 AAATTTTAT
1 AAAAATTAT
*
3006539 AAAAATCATAA
1 AAAAAT--TAT
3006550 AAAAATTAT
1 AAAAATTAT
3006559 AAAA
1 AAAA
3006563 TGCATAAAAA
Statistics
Matches: 55, Mismatches: 8, Indels: 10
0.75 0.11 0.14
Matches are distributed among these distances:
7 7 0.13
9 32 0.58
10 8 0.15
11 8 0.15
ACGTcount: A:0.68, C:0.01, G:0.01, T:0.30
Consensus pattern (9 bp):
AAAAATTAT
Found at i:3006560 original size:20 final size:20
Alignment explanation
Indices: 3006535--3006574 Score: 64
Period size: 20 Copynumber: 2.0 Consensus size: 20
3006525 ATTATAAATT
3006535 TTATAAAAAT-CATAAAAAAA
1 TTAT-AAAATGCATAAAAAAA
3006555 TTATAAAATGCATAAAAAAA
1 TTATAAAATGCATAAAAAAA
3006575 GCCCTTTAAC
Statistics
Matches: 19, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
19 5 0.26
20 14 0.74
ACGTcount: A:0.68, C:0.05, G:0.03, T:0.25
Consensus pattern (20 bp):
TTATAAAATGCATAAAAAAA
Found at i:3006672 original size:20 final size:20
Alignment explanation
Indices: 3006649--3006705 Score: 62
Period size: 19 Copynumber: 2.8 Consensus size: 20
3006639 TAATTTTTTC
3006649 TATATTTTTATAAAAAAATT
1 TATATTTTTATAAAAAAATT
* *
3006669 TATAATTTT-TAATAAAATT
1 TATATTTTTATAAAAAAATT
3006688 TAAATATTTTTATTAAAA
1 T--ATATTTTTA-TAAAA
3006706 GTTAATATTT
Statistics
Matches: 29, Mismatches: 4, Indels: 5
0.76 0.11 0.13
Matches are distributed among these distances:
19 10 0.34
20 8 0.28
21 7 0.24
23 4 0.14
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (20 bp):
TATATTTTTATAAAAAAATT
Found at i:3006698 original size:21 final size:20
Alignment explanation
Indices: 3006650--3006719 Score: 72
Period size: 20 Copynumber: 3.5 Consensus size: 20
3006640 AATTTTTTCT
*
3006650 ATATTTTTATAAAAAAATTT-
1 ATATTTTT-TAATAAAATTTA
*
3006670 ATAATTTTTAATAAAATTTA
1 ATATTTTTTAATAAAATTTA
* *
3006690 A-ATATTTTTATTAAAAGTTA
1 ATAT-TTTTTAATAAAATTTA
3006710 ATATTTTTTA
1 ATATTTTTTA
3006720 TTTTTATCAT
Statistics
Matches: 42, Mismatches: 5, Indels: 6
0.79 0.09 0.11
Matches are distributed among these distances:
19 11 0.26
20 29 0.69
21 2 0.05
ACGTcount: A:0.46, C:0.00, G:0.01, T:0.53
Consensus pattern (20 bp):
ATATTTTTTAATAAAATTTA
Found at i:3008586 original size:2 final size:2
Alignment explanation
Indices: 3008579--3008615 Score: 74
Period size: 2 Copynumber: 18.5 Consensus size: 2
3008569 TTTACGGCAC
3008579 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
3008616 TTAACATGTA
Statistics
Matches: 35, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 35 1.00
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (2 bp):
TA
Found at i:3010996 original size:14 final size:14
Alignment explanation
Indices: 3010979--3011005 Score: 54
Period size: 14 Copynumber: 1.9 Consensus size: 14
3010969 AAAGTGATAG
3010979 CAAAAAATTAACCC
1 CAAAAAATTAACCC
3010993 CAAAAAATTAACC
1 CAAAAAATTAACC
3011006 AGGAGAAATT
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 13 1.00
ACGTcount: A:0.59, C:0.26, G:0.00, T:0.15
Consensus pattern (14 bp):
CAAAAAATTAACCC
Found at i:3011434 original size:6 final size:6
Alignment explanation
Indices: 3011423--3011451 Score: 58
Period size: 6 Copynumber: 4.8 Consensus size: 6
3011413 TCGGATATTA
3011423 AAAAAG AAAAAG AAAAAG AAAAAG AAAAA
1 AAAAAG AAAAAG AAAAAG AAAAAG AAAAA
3011452 AAAGGCATGT
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 23 1.00
ACGTcount: A:0.86, C:0.00, G:0.14, T:0.00
Consensus pattern (6 bp):
AAAAAG
Found at i:3017087 original size:56 final size:54
Alignment explanation
Indices: 3017019--3017132 Score: 131
Period size: 56 Copynumber: 2.1 Consensus size: 54
3017009 CCAAAAAGGT
** *
3017019 AAAAATTAAATAGTTAAATGGTCATTTTGTAACTT-TTCATAGTTAAATGACCAA
1 AAAAATTAAATAGTTAAATAATCATTTTGTAA-TTCTTCATAGATAAATGACCAA
* * * *
3017073 AAAAATTACTAATAGTTAAGTAATTATTTTGTAATTCTTCATAGATAAGTGACCAG
1 AAAAATTA--AATAGTTAAATAATCATTTTGTAATTCTTCATAGATAAATGACCAA
3017129 AAAA
1 AAAA
3017133 TGAAAAAGAC
Statistics
Matches: 50, Mismatches: 7, Indels: 4
0.82 0.11 0.07
Matches are distributed among these distances:
54 8 0.16
55 2 0.04
56 40 0.80
ACGTcount: A:0.44, C:0.09, G:0.11, T:0.36
Consensus pattern (54 bp):
AAAAATTAAATAGTTAAATAATCATTTTGTAATTCTTCATAGATAAATGACCAA
Found at i:3020845 original size:35 final size:35
Alignment explanation
Indices: 3020801--3020967 Score: 201
Period size: 35 Copynumber: 4.6 Consensus size: 35
3020791 TCCTCATTGA
** *
3020801 AATACCATACCTACATTTTTCAACTCGGTATGGGA-
1 AATACCATACCTACATTTCACAACTCAGTAT-GGAT
* **
3020836 AATGCCATACCTACATTTCTTAACTCAGTATGGATTTGAT
1 AATACCATACCTACATTTCACAACTCAGTAT-G----GAT
*
3020876 AATACCATACCTACATTTCACAGCTCAGTATGGAT
1 AATACCATACCTACATTTCACAACTCAGTATGGAT
3020911 AATACCATACCTACATTTCACAACTCAGTATGGAT
1 AATACCATACCTACATTTCACAACTCAGTATGGAT
*
3020946 GATACCATACCTACATTTCACA
1 AATACCATACCTACATTTCACA
3020968 CTTTGCCATG
Statistics
Matches: 117, Mismatches: 10, Indels: 10
0.85 0.07 0.07
Matches are distributed among these distances:
35 87 0.74
39 3 0.03
40 27 0.23
ACGTcount: A:0.34, C:0.25, G:0.11, T:0.31
Consensus pattern (35 bp):
AATACCATACCTACATTTCACAACTCAGTATGGAT
Found at i:3020907 original size:75 final size:73
Alignment explanation
Indices: 3020796--3020967 Score: 226
Period size: 75 Copynumber: 2.4 Consensus size: 73
3020786 GGTTTTCCTC
** * * **
3020796 ATTGAAATACCATACCTACATTTTTCAACTCGGTATGGGA-AATGCCATACCTACATTTCTTAAC
1 ATTGAAATACCATACCTACATTTCACAACTCAGTAT-GGATAATACCATACCTACATTTCACAAC
3020860 TCAGTATGG
65 TCAGTATGG
*
3020869 ATTTGATAATACCATACCTACATTTCACAGCTCAGTATGGATAATACCATACCTACATTTCACAA
1 A-TTGA-AATACCATACCTACATTTCACAACTCAGTATGGATAATACCATACCTACATTTCACAA
3020934 CTCAGTATGG
64 CTCAGTATGG
3020944 A-TG--ATACCATACCTACATTTCACA
1 ATTGAAATACCATACCTACATTTCACA
3020968 CTTTGCCATG
Statistics
Matches: 89, Mismatches: 7, Indels: 9
0.85 0.07 0.09
Matches are distributed among these distances:
70 21 0.24
73 3 0.03
74 7 0.08
75 58 0.65
ACGTcount: A:0.34, C:0.24, G:0.11, T:0.31
Consensus pattern (73 bp):
ATTGAAATACCATACCTACATTTCACAACTCAGTATGGATAATACCATACCTACATTTCACAACT
CAGTATGG
Found at i:3024298 original size:2 final size:2
Alignment explanation
Indices: 3024291--3024319 Score: 58
Period size: 2 Copynumber: 14.5 Consensus size: 2
3024281 GGGCAGTTGT
3024291 TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
3024320 TTAATTATAA
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 27 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Found at i:3037006 original size:18 final size:17
Alignment explanation
Indices: 3036968--3037025 Score: 55
Period size: 18 Copynumber: 3.4 Consensus size: 17
3036958 TTGTGTGTGT
* *
3036968 TATTTTAAGATTTTTGC
1 TATTTTAATATTTTTTC
3036985 -ATTTTAATTATTTTTTC
1 TATTTTAA-TATTTTTTC
* *
3037002 TATTTTACCTATTTTTTG
1 TATTTTA-ATATTTTTTC
3037020 TATTTT
1 TATTTT
3037026 TAAATTGAAA
Statistics
Matches: 34, Mismatches: 4, Indels: 5
0.79 0.09 0.12
Matches are distributed among these distances:
16 7 0.21
17 7 0.21
18 20 0.59
ACGTcount: A:0.21, C:0.07, G:0.05, T:0.67
Consensus pattern (17 bp):
TATTTTAATATTTTTTC
Found at i:3042544 original size:14 final size:14
Alignment explanation
Indices: 3042521--3042550 Score: 51
Period size: 14 Copynumber: 2.1 Consensus size: 14
3042511 TTGAAAATAT
3042521 GTTGAATTGGATTG
1 GTTGAATTGGATTG
*
3042535 GTTGATTTGGATTG
1 GTTGAATTGGATTG
3042549 GT
1 GT
3042551 CTCGATATAA
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
14 15 1.00
ACGTcount: A:0.17, C:0.00, G:0.37, T:0.47
Consensus pattern (14 bp):
GTTGAATTGGATTG
Found at i:3045439 original size:14 final size:15
Alignment explanation
Indices: 3045411--3045439 Score: 51
Period size: 15 Copynumber: 2.0 Consensus size: 15
3045401 AACCCATTAT
3045411 CATTTAAATATTTTA
1 CATTTAAATATTTTA
3045426 CATTTAAA-ATTTTA
1 CATTTAAATATTTTA
3045440 AAAATTACAT
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
14 6 0.43
15 8 0.57
ACGTcount: A:0.41, C:0.07, G:0.00, T:0.52
Consensus pattern (15 bp):
CATTTAAATATTTTA
Found at i:3045514 original size:14 final size:14
Alignment explanation
Indices: 3045480--3045521 Score: 50
Period size: 14 Copynumber: 3.1 Consensus size: 14
3045470 ATCTCACAAA
* *
3045480 AAATTAAATATACC
1 AAATTAAATTTAAC
3045494 AAA-TAAATTTAAC
1 AAATTAAATTTAAC
*
3045507 AAATTAAATTCAAC
1 AAATTAAATTTAAC
3045521 A
1 A
3045522 CTCCTTAAAC
Statistics
Matches: 24, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
13 11 0.46
14 13 0.54
ACGTcount: A:0.60, C:0.12, G:0.00, T:0.29
Consensus pattern (14 bp):
AAATTAAATTTAAC
Found at i:3047891 original size:6 final size:6
Alignment explanation
Indices: 3047833--3047888 Score: 103
Period size: 6 Copynumber: 9.3 Consensus size: 6
3047823 GAGTTTATGG
3047833 ATATAC ATATAC ATATAC ATATAC ATATAC ATATAC ATATAC ATATAC
1 ATATAC ATATAC ATATAC ATATAC ATATAC ATATAC ATATAC ATATAC
*
3047881 ATGTAC AT
1 ATATAC AT
3047889 GTATAACTTG
Statistics
Matches: 49, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
6 49 1.00
ACGTcount: A:0.48, C:0.16, G:0.02, T:0.34
Consensus pattern (6 bp):
ATATAC
Found at i:3049528 original size:31 final size:30
Alignment explanation
Indices: 3049478--3049545 Score: 93
Period size: 30 Copynumber: 2.3 Consensus size: 30
3049468 TATATTAACT
*
3049478 ATAAT-AAAATTATATTTTAATCTTTTAAAA
1 ATAATAAAAATTATAATTTAAT-TTTTAAAA
*
3049508 ATAATAAAAATTCTAATTTAATTTTTAAAA
1 ATAATAAAAATTATAATTTAATTTTTAAAA
*
3049538 ATTATAAA
1 ATAATAAA
3049546 TATTTTTACT
Statistics
Matches: 34, Mismatches: 3, Indels: 2
0.87 0.08 0.05
Matches are distributed among these distances:
30 20 0.59
31 14 0.41
ACGTcount: A:0.53, C:0.03, G:0.00, T:0.44
Consensus pattern (30 bp):
ATAATAAAAATTATAATTTAATTTTTAAAA
Found at i:3052148 original size:28 final size:31
Alignment explanation
Indices: 3052083--3052147 Score: 91
Period size: 31 Copynumber: 2.2 Consensus size: 31
3052073 TTCAAAAATT
3052083 ATTTTTATTTAATTACAATATATATTTTAAA
1 ATTTTTATTTAATTACAATATATATTTTAAA
*
3052114 ATTTTTATTTTATTA-AA-AT-TATTTATAAA
1 ATTTTTATTTAATTACAATATATATTT-TAAA
3052143 ATTTT
1 ATTTT
3052148 ACAAATAGAA
Statistics
Matches: 32, Mismatches: 1, Indels: 4
0.86 0.03 0.11
Matches are distributed among these distances:
28 5 0.16
29 11 0.34
30 2 0.06
31 14 0.44
ACGTcount: A:0.40, C:0.02, G:0.00, T:0.58
Consensus pattern (31 bp):
ATTTTTATTTAATTACAATATATATTTTAAA
Found at i:3055494 original size:21 final size:19
Alignment explanation
Indices: 3055468--3055528 Score: 54
Period size: 21 Copynumber: 3.1 Consensus size: 19
3055458 CTCAACCCAA
3055468 TTATAAAAAATACAAATAAT
1 TTATAAAAAA-ACAAATAAT
*
3055488 TTAATAAATAAAA-ATAAAAAT
1 TT-ATAAA-AAAACA-AATAAT
*
3055509 CTA-AAAAAAACAAATAAT
1 TTATAAAAAAACAAATAAT
3055527 TT
1 TT
3055529 TATACAAATA
Statistics
Matches: 33, Mismatches: 4, Indels: 10
0.70 0.09 0.21
Matches are distributed among these distances:
18 10 0.30
19 4 0.12
20 4 0.12
21 12 0.36
22 3 0.09
ACGTcount: A:0.67, C:0.05, G:0.00, T:0.28
Consensus pattern (19 bp):
TTATAAAAAAACAAATAAT
Found at i:3055587 original size:9 final size:9
Alignment explanation
Indices: 3055537--3055586 Score: 64
Period size: 9 Copynumber: 5.6 Consensus size: 9
3055527 TTTATACAAA
3055537 TAATTCGGT
1 TAATTCGGT
*
3055546 TAATTCGGG
1 TAATTCGGT
*
3055555 TAATTCAGT
1 TAATTCGGT
*
3055564 TAATTCGAT
1 TAATTCGGT
*
3055573 TAATTTGGT
1 TAATTCGGT
3055582 TAATT
1 TAATT
3055587 TTATACTTAT
Statistics
Matches: 34, Mismatches: 7, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
9 34 1.00
ACGTcount: A:0.28, C:0.08, G:0.18, T:0.46
Consensus pattern (9 bp):
TAATTCGGT
Found at i:3068902 original size:9 final size:9
Alignment explanation
Indices: 3068888--3068912 Score: 50
Period size: 9 Copynumber: 2.8 Consensus size: 9
3068878 TTATCCTCTC
3068888 CTCCACCTT
1 CTCCACCTT
3068897 CTCCACCTT
1 CTCCACCTT
3068906 CTCCACC
1 CTCCACC
3068913 GTCGGCAACT
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
9 16 1.00
ACGTcount: A:0.12, C:0.60, G:0.00, T:0.28
Consensus pattern (9 bp):
CTCCACCTT
Done.