Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: At_chr9
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: 91122320
ACGTcount: A:0.32, C:0.17, G:0.17, T:0.32
Warning! 2661692 characters in sequence are not A, C, G, or T
File 174 of 279
Found at i:57500050 original size:12 final size:12
Alignment explanation
Indices: 57500035--57500087 Score: 54
Period size: 12 Copynumber: 4.4 Consensus size: 12
57500025 TTTAGGCTCA
*
57500035 GGTTCTGGATAT
1 GGTTCAGGATAT
*
57500047 GGTTCAGGGTAT
1 GGTTCAGGATAT
*
57500059 GGTTCCGGA-AGT
1 GGTTCAGGATA-T
*
57500071 GGCTCAGGATAT
1 GGTTCAGGATAT
57500083 GGTTC
1 GGTTC
57500088 GGGAGCTTAT
Statistics
Matches: 32, Mismatches: 7, Indels: 4
0.74 0.16 0.09
Matches are distributed among these distances:
11 1 0.03
12 30 0.94
13 1 0.03
ACGTcount: A:0.17, C:0.13, G:0.38, T:0.32
Consensus pattern (12 bp):
GGTTCAGGATAT
Found at i:57500128 original size:9 final size:9
Alignment explanation
Indices: 57500110--57500153 Score: 52
Period size: 9 Copynumber: 4.9 Consensus size: 9
57500100 TAGTGGAGGA
*
57500110 GGTGGAGGG
1 GGTGGTGGG
57500119 GGTGGTGGG
1 GGTGGTGGG
*
57500128 GGTGGTGGT
1 GGTGGTGGG
* *
57500137 GGAGGTGGA
1 GGTGGTGGG
57500146 GGTGGTGG
1 GGTGGTGG
57500154 CAGCTCTGGA
Statistics
Matches: 30, Mismatches: 5, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
9 30 1.00
ACGTcount: A:0.07, C:0.00, G:0.73, T:0.20
Consensus pattern (9 bp):
GGTGGTGGG
Found at i:57500131 original size:6 final size:6
Alignment explanation
Indices: 57500107--57500150 Score: 52
Period size: 6 Copynumber: 7.3 Consensus size: 6
57500097 TGGTAGTGGA
* * * *
57500107 GGAGGT GGAGGG GGTGGT GGGGGT GGTGGT GGAGGT GGAGGT GG
1 GGAGGT GGAGGT GGAGGT GGAGGT GGAGGT GGAGGT GGAGGT GG
57500151 TGGCAGCTCT
Statistics
Matches: 32, Mismatches: 6, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
6 32 1.00
ACGTcount: A:0.09, C:0.00, G:0.73, T:0.18
Consensus pattern (6 bp):
GGAGGT
Found at i:57500281 original size:112 final size:112
Alignment explanation
Indices: 57500114--57500378 Score: 424
Period size: 112 Copynumber: 2.3 Consensus size: 112
57500104 GGAGGAGGTG
* * * **
57500114 GAGGGGGTGGTGGGGGTGGTGGTGGAGGTGGAGGTGGTGGCAGCTCTGGATCTGGTAGTGGGTCT
1 GAGGAGGTGGTGGTGGTGGTGGTGGAGGTGGAGGTGGTGCCAGCTCCCGATCTGGTAGTGGGTCT
*
57500179 GGGTATGGGTCAGGATCTGGATCAGGGTATGGGTCTGGTGGTGGGAT
66 GGATATGGGTCAGGATCTGGATCAGGGTATGGGTCTGGTGGTGGGAT
57500226 -AGGAGGTGGTGGTGGTGGTGGTGGCAGGTGGAGGTGGTGCCAGCTCCCGATCTGGTAGTGGGTC
1 GAGGAGGTGGTGGTGGTGGTGGTGG-AGGTGGAGGTGGTGCCAGCTCCCGATCTGGTAGTGGGTC
*
57500290 TGGATATGGGTCTGGATCTGGATCAGGGTATGGGTCTGGTGGTGGGAT
65 TGGATATGGGTCAGGATCTGGATCAGGGTATGGGTCTGGTGGTGGGAT
*
57500338 AGGAGGAGGTGGTGGTGGTGGTGGTGGTGGTGGAGGTGGTG
1 --GAGGAGGTGGTGGTGGTGGTGGTGGAGGTGGAGGTGGTG
57500379 GCAATGGGGG
Statistics
Matches: 141, Mismatches: 8, Indels: 6
0.91 0.05 0.04
Matches are distributed among these distances:
111 22 0.16
112 82 0.58
114 13 0.09
115 24 0.17
ACGTcount: A:0.12, C:0.08, G:0.54, T:0.26
Consensus pattern (112 bp):
GAGGAGGTGGTGGTGGTGGTGGTGGAGGTGGAGGTGGTGCCAGCTCCCGATCTGGTAGTGGGTCT
GGATATGGGTCAGGATCTGGATCAGGGTATGGGTCTGGTGGTGGGAT
Found at i:57500299 original size:12 final size:12
Alignment explanation
Indices: 57500284--57500328 Score: 54
Period size: 12 Copynumber: 3.8 Consensus size: 12
57500274 GATCTGGTAG
57500284 TGGGTCTGGATA
1 TGGGTCTGGATA
*
57500296 TGGGTCTGGATC
1 TGGGTCTGGATA
* * *
57500308 TGGATCAGGGTA
1 TGGGTCTGGATA
57500320 TGGGTCTGG
1 TGGGTCTGG
57500329 TGGTGGGATA
Statistics
Matches: 26, Mismatches: 7, Indels: 0
0.79 0.21 0.00
Matches are distributed among these distances:
12 26 1.00
ACGTcount: A:0.13, C:0.11, G:0.44, T:0.31
Consensus pattern (12 bp):
TGGGTCTGGATA
Found at i:57500351 original size:3 final size:3
Alignment explanation
Indices: 57500345--57500379 Score: 61
Period size: 3 Copynumber: 11.7 Consensus size: 3
57500335 GATAGGAGGA
*
57500345 GGT GGT GGT GGT GGT GGT GGT GGT GGA GGT GGT GG
1 GGT GGT GGT GGT GGT GGT GGT GGT GGT GGT GGT GG
57500380 CAATGGGGGA
Statistics
Matches: 30, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
3 30 1.00
ACGTcount: A:0.03, C:0.00, G:0.69, T:0.29
Consensus pattern (3 bp):
GGT
Found at i:57500471 original size:24 final size:24
Alignment explanation
Indices: 57500444--57500501 Score: 71
Period size: 24 Copynumber: 2.4 Consensus size: 24
57500434 ATACGGAAGT
*
57500444 GGTGGTGGTAGAGGAGGAGGAGGA
1 GGTGGTGGCAGAGGAGGAGGAGGA
* * *
57500468 GGTGGTGGCAGTGGAGGTGGAGGT
1 GGTGGTGGCAGAGGAGGAGGAGGA
*
57500492 GGTGGAGGCA
1 GGTGGTGGCA
57500502 ATGGTTCAGG
Statistics
Matches: 29, Mismatches: 5, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
24 29 1.00
ACGTcount: A:0.19, C:0.03, G:0.62, T:0.16
Consensus pattern (24 bp):
GGTGGTGGCAGAGGAGGAGGAGGA
Found at i:57500526 original size:18 final size:18
Alignment explanation
Indices: 57500501--57500553 Score: 79
Period size: 18 Copynumber: 2.9 Consensus size: 18
57500491 TGGTGGAGGC
57500501 AATGGTTCAGGTTATGGA
1 AATGGTTCAGGTTATGGA
* *
57500519 AGTGGTTCAGGATATGGA
1 AATGGTTCAGGTTATGGA
*
57500537 AATGGGTCAGGTTATGG
1 AATGGTTCAGGTTATGG
57500554 TAGTAGTGGA
Statistics
Matches: 30, Mismatches: 5, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
18 30 1.00
ACGTcount: A:0.26, C:0.06, G:0.38, T:0.30
Consensus pattern (18 bp):
AATGGTTCAGGTTATGGA
Found at i:57505067 original size:108 final size:108
Alignment explanation
Indices: 57504923--57505137 Score: 385
Period size: 108 Copynumber: 2.0 Consensus size: 108
57504913 TAAATAGAGT
** *
57504923 GCATCGCCTGAACCTTCTTTTCTCAACCAACAAAGCTTGTTTTTCGTAGATTTTAAAGCTTGCTT
1 GCATCGCCTGAACCTTCTTTTCTCAACCAACAAAGCTTGTTTCACGTAGATTTGAAAGCTTGCTT
57504988 TTGAGTGTTTGTCTAAGTGCAGTTTGAATATGGGAAGTTCAAA
66 TTGAGTGTTTGTCTAAGTGCAGTTTGAATATGGGAAGTTCAAA
* *
57505031 GCATCGCCTGAACCTTTTTTTCTCAACCAACGAAGCTTGTTTCACGTAGATTTGAAAGCTTGCTT
1 GCATCGCCTGAACCTTCTTTTCTCAACCAACAAAGCTTGTTTCACGTAGATTTGAAAGCTTGCTT
57505096 TTGAGTGTTTGTCTAAGTGCAGTTTGAATATGGGAAGTTCAA
66 TTGAGTGTTTGTCTAAGTGCAGTTTGAATATGGGAAGTTCAA
57505138 GGGTTATTGG
Statistics
Matches: 102, Mismatches: 5, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
108 102 1.00
ACGTcount: A:0.25, C:0.18, G:0.20, T:0.37
Consensus pattern (108 bp):
GCATCGCCTGAACCTTCTTTTCTCAACCAACAAAGCTTGTTTCACGTAGATTTGAAAGCTTGCTT
TTGAGTGTTTGTCTAAGTGCAGTTTGAATATGGGAAGTTCAAA
Found at i:57505233 original size:12 final size:12
Alignment explanation
Indices: 57505206--57505249 Score: 58
Period size: 12 Copynumber: 3.9 Consensus size: 12
57505196 GTTAGGAAAG
57505206 GGAGGTGGT-G-
1 GGAGGTGGTGGC
57505216 GG-GGTGGTGGC
1 GGAGGTGGTGGC
*
57505227 GGAGGTGGAGGC
1 GGAGGTGGTGGC
57505239 GGAGGTGGTGG
1 GGAGGTGGTGG
57505250 AGGCTCTGGA
Statistics
Matches: 29, Mismatches: 2, Indels: 4
0.83 0.06 0.11
Matches are distributed among these distances:
9 6 0.21
10 3 0.10
11 2 0.07
12 18 0.62
ACGTcount: A:0.09, C:0.05, G:0.70, T:0.16
Consensus pattern (12 bp):
GGAGGTGGTGGC
Found at i:57505378 original size:18 final size:18
Alignment explanation
Indices: 57505327--57505372 Score: 65
Period size: 18 Copynumber: 2.6 Consensus size: 18
57505317 GGGATAGGAA
*
57505327 GTGGTGGAGGAGGTGGTG
1 GTGGTGGAGGAGGTGGAG
* *
57505345 GTGGTAGCGGAGGTGGAG
1 GTGGTGGAGGAGGTGGAG
57505363 GTGGTGGAGG
1 GTGGTGGAGG
57505373 CAGTGGCAAT
Statistics
Matches: 23, Mismatches: 5, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
18 23 1.00
ACGTcount: A:0.13, C:0.02, G:0.65, T:0.20
Consensus pattern (18 bp):
GTGGTGGAGGAGGTGGAG
Found at i:57505431 original size:18 final size:18
Alignment explanation
Indices: 57505410--57505444 Score: 70
Period size: 18 Copynumber: 1.9 Consensus size: 18
57505400 TGGGTCTGGA
57505410 TCTGGATATGGAAGTGGG
1 TCTGGATATGGAAGTGGG
57505428 TCTGGATATGGAAGTGG
1 TCTGGATATGGAAGTGG
57505445 AGGTGGTAGA
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:0.23, C:0.06, G:0.43, T:0.29
Consensus pattern (18 bp):
TCTGGATATGGAAGTGGG
Found at i:57505510 original size:18 final size:18
Alignment explanation
Indices: 57505468--57505511 Score: 52
Period size: 18 Copynumber: 2.4 Consensus size: 18
57505458 AGAGGTGGAG
* *
57505468 CCTCCGCCACCGCCACCG
1 CCTCCTCCACCGCCACCA
* *
57505486 CCACCTCCACTGCCACCA
1 CCTCCTCCACCGCCACCA
57505504 CCTCCTCC
1 CCTCCTCC
57505512 TCCACCTCTA
Statistics
Matches: 21, Mismatches: 5, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
18 21 1.00
ACGTcount: A:0.14, C:0.66, G:0.09, T:0.11
Consensus pattern (18 bp):
CCTCCTCCACCGCCACCA
Found at i:57505570 original size:18 final size:18
Alignment explanation
Indices: 57505523--57505583 Score: 70
Period size: 18 Copynumber: 3.4 Consensus size: 18
57505513 CCACCTCTAC
57505523 GAGGAGGTGGTGGCAGTG
1 GAGGAGGTGGTGGCAGTG
* * *
57505541 GAGGTGGCGGTGGCGGTG
1 GAGGAGGTGGTGGCAGTG
*
57505559 GCGGAGGTGGTGGTCA-TG
1 GAGGAGGTGGTGG-CAGTG
57505577 GAGGAGG
1 GAGGAGG
57505584 GTCGGGATAT
Statistics
Matches: 34, Mismatches: 8, Indels: 2
0.77 0.18 0.05
Matches are distributed among these distances:
18 33 0.97
19 1 0.03
ACGTcount: A:0.13, C:0.08, G:0.62, T:0.16
Consensus pattern (18 bp):
GAGGAGGTGGTGGCAGTG
Found at i:57505660 original size:21 final size:21
Alignment explanation
Indices: 57505636--57505682 Score: 60
Period size: 21 Copynumber: 2.2 Consensus size: 21
57505626 GAGTGGAAAT
57505636 GGAGGTGGTAG-AGGTGGAGGA
1 GGAGGTGGTAGCA-GTGGAGGA
* *
57505657 GGAGGTGGTGGCAGTGGAGGT
1 GGAGGTGGTAGCAGTGGAGGA
57505678 GGAGG
1 GGAGG
57505683 AGGCGGAGGT
Statistics
Matches: 23, Mismatches: 2, Indels: 2
0.85 0.07 0.07
Matches are distributed among these distances:
21 22 0.96
22 1 0.04
ACGTcount: A:0.19, C:0.02, G:0.64, T:0.15
Consensus pattern (21 bp):
GGAGGTGGTAGCAGTGGAGGA
Found at i:57509302 original size:26 final size:26
Alignment explanation
Indices: 57509273--57509333 Score: 104
Period size: 26 Copynumber: 2.3 Consensus size: 26
57509263 CTCTTCATGC
*
57509273 ATTTAAAATTTAGATTTCATACTTTT
1 ATTTAAAATTTAAATTTCATACTTTT
57509299 ATTTAAAATTTAAATTTCATACTTTT
1 ATTTAAAATTTAAATTTCATACTTTT
*
57509325 ATTTTAAAT
1 ATTTAAAAT
57509334 AATTTAGTCT
Statistics
Matches: 33, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
26 33 1.00
ACGTcount: A:0.38, C:0.07, G:0.02, T:0.54
Consensus pattern (26 bp):
ATTTAAAATTTAAATTTCATACTTTT
Found at i:57509588 original size:7 final size:8
Alignment explanation
Indices: 57509559--57509588 Score: 53
Period size: 8 Copynumber: 3.9 Consensus size: 8
57509549 TAATACATTA
57509559 AAATATTT
1 AAATATTT
57509567 AAATATTT
1 AAATATTT
57509575 AAATATTT
1 AAATATTT
57509583 -AATATT
1 AAATATT
57509589 AACTTATTTT
Statistics
Matches: 22, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
7 6 0.27
8 16 0.73
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (8 bp):
AAATATTT
Found at i:57512224 original size:18 final size:18
Alignment explanation
Indices: 57512203--57512239 Score: 56
Period size: 18 Copynumber: 2.1 Consensus size: 18
57512193 ATATGGTTTC
57512203 GGGTCAGGATATGGAAGT
1 GGGTCAGGATATGGAAGT
**
57512221 GGGTTTGGATATGGAAGT
1 GGGTCAGGATATGGAAGT
57512239 G
1 G
57512240 AAGGCAATAG
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
18 17 1.00
ACGTcount: A:0.24, C:0.03, G:0.46, T:0.27
Consensus pattern (18 bp):
GGGTCAGGATATGGAAGT
Found at i:57512264 original size:6 final size:6
Alignment explanation
Indices: 57512255--57512294 Score: 53
Period size: 6 Copynumber: 6.7 Consensus size: 6
57512245 AATAGTGCTA
* * *
57512255 GTGGTG GTGGAG GAGGAG GTGGTG GTGGAG GTGGAG GTGG
1 GTGGAG GTGGAG GTGGAG GTGGAG GTGGAG GTGGAG GTGG
57512295 GGGCAGTGGA
Statistics
Matches: 29, Mismatches: 5, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
6 29 1.00
ACGTcount: A:0.12, C:0.00, G:0.68, T:0.20
Consensus pattern (6 bp):
GTGGAG
Found at i:57512276 original size:18 final size:18
Alignment explanation
Indices: 57512255--57512294 Score: 71
Period size: 18 Copynumber: 2.2 Consensus size: 18
57512245 AATAGTGCTA
57512255 GTGGTGGTGGAGGAGGAG
1 GTGGTGGTGGAGGAGGAG
*
57512273 GTGGTGGTGGAGGTGGAG
1 GTGGTGGTGGAGGAGGAG
57512291 GTGG
1 GTGG
57512295 GGGCAGTGGA
Statistics
Matches: 21, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
18 21 1.00
ACGTcount: A:0.12, C:0.00, G:0.68, T:0.20
Consensus pattern (18 bp):
GTGGTGGTGGAGGAGGAG
Found at i:57512291 original size:105 final size:106
Alignment explanation
Indices: 57512203--57512492 Score: 316
Period size: 108 Copynumber: 2.7 Consensus size: 106
57512193 ATATGGTTTC
* * * *
57512203 GGGTCAGGATATGGAAGTGGGTTTGGATATGGAAGTGAAGGCAATAGTGC-TAGTGGTGGTGGAG
1 GGGTCAGGATACGAAAGTGGATCTGGATATGGAAGTGAAGGCAATAGTGCATAGTGGTGGTGGAG
* * * *
57512267 GAGGAGGTGGTGGTGGAGGTGGAGGTGGGGGCAGTGGAAGA
66 GAGGAGGAGGAGGTGGAGGTGGAGGTCGGGACAGTGGAAGA
* * ***
57512308 GGGTCCGGATACGAAAGTGGATCTGGATATGGAAGTGGAGGTGGTAGTGCTAGTAGTGGTGGTGG
1 GGGTCAGGATACGAAAGTGGATCTGGATATGGAAGTGAAGGCAATAGTGC-A-TAGTGGTGGTGG
* * *
57512373 AGGAGGAGGAGGAGGTGGCGGTGGAGGT-GGTGGCAGTGGAGGA
64 AGGAGGAGGAGGAGGTGGAGGTGGAGGTCGG-GACAGTGGAAGA
* * * * *** *
57512416 GGGTCCGGATACGGAAGTGGATCTGGATATAGAAGTGGAGGTGGTAGTGC-TGGTGGTGGTGGAG
1 GGGTCAGGATACGAAAGTGGATCTGGATATGGAAGTGAAGGCAATAGTGCATAGTGGTGGTGGAG
57512480 GAGGAGGAGGAGG
66 GAGGAGGAGGAGG
57512493 AGGTGGCGGT
Statistics
Matches: 165, Mismatches: 16, Indels: 8
0.87 0.08 0.04
Matches are distributed among these distances:
105 67 0.41
107 2 0.01
108 96 0.58
ACGTcount: A:0.22, C:0.06, G:0.52, T:0.20
Consensus pattern (106 bp):
GGGTCAGGATACGAAAGTGGATCTGGATATGGAAGTGAAGGCAATAGTGCATAGTGGTGGTGGAG
GAGGAGGAGGAGGTGGAGGTGGAGGTCGGGACAGTGGAAGA
Found at i:57512404 original size:15 final size:15
Alignment explanation
Indices: 57512380--57512417 Score: 58
Period size: 15 Copynumber: 2.5 Consensus size: 15
57512370 TGGAGGAGGA
*
57512380 GGAGGAGGTGGCGGT
1 GGAGGAGGTGGCAGT
*
57512395 GGAGGTGGTGGCAGT
1 GGAGGAGGTGGCAGT
57512410 GGAGGAGG
1 GGAGGAGG
57512418 GTCCGGATAC
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
15 20 1.00
ACGTcount: A:0.16, C:0.05, G:0.66, T:0.13
Consensus pattern (15 bp):
GGAGGAGGTGGCAGT
Found at i:57512509 original size:93 final size:93
Alignment explanation
Indices: 57512395--57512583 Score: 306
Period size: 93 Copynumber: 2.0 Consensus size: 93
57512385 AGGTGGCGGT
*
57512395 GGAGGTGGTGGCAGTGGAGGAGGGTCCGGATACGGAAGTGGATCTGGATATAGAAGTGGAGGTGG
1 GGAGGAGGTGGCAGTGGAGGAGGGTCCGGATACGGAAGTGGATCTGGATATAGAAGTGGAGGTGG
*
57512460 TAGTGCTGGTGGTGGTGGAGGAGGAGGA
66 TAGTGCTAGTGGTGGTGGAGGAGGAGGA
* * * *
57512488 GGAGGAGGTGGCGGTGGAGGAGGGTTCGGATATGGAAGTGGATCTGGATATGGAAGTGGAGGTGG
1 GGAGGAGGTGGCAGTGGAGGAGGGTCCGGATACGGAAGTGGATCTGGATATAGAAGTGGAGGTGG
* *
57512553 TAGTGCTAGTGGTGGTGGTGGTGGAGGA
66 TAGTGCTAGTGGTGGTGGAGGAGGAGGA
57512581 GGA
1 GGA
57512584 AGTGGAGGAG
Statistics
Matches: 88, Mismatches: 8, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
93 88 1.00
ACGTcount: A:0.21, C:0.05, G:0.53, T:0.21
Consensus pattern (93 bp):
GGAGGAGGTGGCAGTGGAGGAGGGTCCGGATACGGAAGTGGATCTGGATATAGAAGTGGAGGTGG
TAGTGCTAGTGGTGGTGGAGGAGGAGGA
Found at i:57512571 original size:111 final size:110
Alignment explanation
Indices: 57512255--57512775 Score: 369
Period size: 108 Copynumber: 4.7 Consensus size: 110
57512245 AATAGTGCTA
* * * * * * * * *
57512255 GTGGTGGTGGAGGAGGAGGTGGTGGTGGAGGTGGAGGTGGG--GGCA-GTGGAAGAGGGTCCGGA
1 GTGGTGGAGGAGGAGGAGGAGGAGGTGGCGGTGGAGGAGGGTCGG-ATATGGAAGTGGATCTGGA
* ** ** *
57512317 TACGAAAGTGGATCTGGATA-TGGAAGTGGAGGTGGTAGTGCTA-GTA
65 TACGGAAGTGGAGGTGG-TAGTGCTAGTGGAGGTGGTAGTGC-AGGTG
* * * * * * *
57512363 GTGGTGGTGGAGGAGGAGGAGGAGGTGGCGGTGGAGG-TGGT-GGCA-GTGGAGGAGGGTCCGGA
1 GTGGTGGAGGAGGAGGAGGAGGAGGTGGCGGTGGAGGAGGGTCGG-ATATGGAAGTGGATCTGGA
** * *
57512425 TACGGAAGTGGATCTGGATA-TAG-AAGTGGAGGTGGTAGTGCTGGTG
65 TACGGAAGTGGAGGTGG-TAGT-GCTAGTGGAGGTGGTAGTGCAGGTG
57512471 GTGGTGGAGGAGGAGGAGGAGGAGGTGGCGGTGGAGGAGGGTTCGGATATGGAAGTGGATCTGGA
1 GTGGTGGAGGAGGAGGAGGAGGAGGTGGCGGTGGAGGAGGG-TCGGATATGGAAGTGGATCTGGA
* * * * *
57512536 TATGGAAGTGGAGGTGGTAGTGCTAGTGGTGGTGGTGGTGGAGGAGG
65 TACGGAAGTGGAGGTGGTAGTGCTAGTGGAGGTGGTAGTGCAGG-TG
* * * * * *
57512583 AAGTGGAGGAGGAGGTGGCGGTGGAGGTGGTGGCAATGGAGGAGGGTTCGGATACGGAAGTGGAT
1 --GTGGTGGAGGAGGAGGAGGAGGAGGTGGCGG---TGGAGGAGGG-TCGGATATGGAAGTGGAT
* * * * *
57512648 CTGGATATGGAAGTGGAGGTGGTAGTGCTAGTGGTGGTGGTGGTGGAGGAG
60 CTGGATACGGAAGTGGAGGTGGTAGTGCTAGTGGAGGTGGTAGTGCAGGTG
* * * * * ** ***
57512699 GAGGTGGCGGTGGTGGAGGTGGAGGTGGCAATGGAGGAGGGTCAGGATATGGGTTTGGATCTGGA
1 GTGGTGGAGGAGGAGGAGGAGGAGGTGGCGGTGGAGGAGGGTC-GGATATGGAAGTGGATCTGGA
57512764 TACGGAAGTGGA
65 TACGGAAGTGGA
57512776 TCTGGATATG
Statistics
Matches: 353, Mismatches: 44, Indels: 29
0.83 0.10 0.07
Matches are distributed among these distances:
107 2 0.01
108 130 0.37
109 3 0.01
110 7 0.02
111 83 0.24
112 1 0.00
114 49 0.14
116 1 0.00
117 77 0.22
ACGTcount: A:0.20, C:0.05, G:0.54, T:0.20
Consensus pattern (110 bp):
GTGGTGGAGGAGGAGGAGGAGGAGGTGGCGGTGGAGGAGGGTCGGATATGGAAGTGGATCTGGAT
ACGGAAGTGGAGGTGGTAGTGCTAGTGGAGGTGGTAGTGCAGGTG
Found at i:57512605 original size:6 final size:6
Alignment explanation
Indices: 57512561--57512612 Score: 50
Period size: 6 Copynumber: 8.7 Consensus size: 6
57512551 GGTAGTGCTA
* * * * * *
57512561 GTGGTG GTGGTG GTGGAG GAGGAA GTGGAG GAGGAG GTGGCG GTGGAG
1 GTGGAG GTGGAG GTGGAG GTGGAG GTGGAG GTGGAG GTGGAG GTGGAG
57512609 GTGG
1 GTGG
57512613 TGGCAATGGA
Statistics
Matches: 37, Mismatches: 9, Indels: 0
0.80 0.20 0.00
Matches are distributed among these distances:
6 37 1.00
ACGTcount: A:0.15, C:0.02, G:0.65, T:0.17
Consensus pattern (6 bp):
GTGGAG
Found at i:57512608 original size:15 final size:15
Alignment explanation
Indices: 57512566--57512627 Score: 52
Period size: 15 Copynumber: 4.1 Consensus size: 15
57512556 TGCTAGTGGT
*
57512566 GGTGGTGGTGGAGGA
1 GGTGGCGGTGGAGGA
** * *
57512581 GGAAGTGGAGGAGGA
1 GGTGGCGGTGGAGGA
*
57512596 GGTGGCGGTGGAGGT
1 GGTGGCGGTGGAGGA
**
57512611 GGTGGCAATGGAGGA
1 GGTGGCGGTGGAGGA
57512626 GG
1 GG
57512628 GTTCGGATAC
Statistics
Matches: 36, Mismatches: 11, Indels: 0
0.77 0.23 0.00
Matches are distributed among these distances:
15 36 1.00
ACGTcount: A:0.19, C:0.03, G:0.63, T:0.15
Consensus pattern (15 bp):
GGTGGCGGTGGAGGA
Found at i:57512704 original size:18 final size:18
Alignment explanation
Indices: 57512683--57512717 Score: 52
Period size: 18 Copynumber: 1.9 Consensus size: 18
57512673 TGCTAGTGGT
*
57512683 GGTGGTGGTGGAGGAGGA
1 GGTGGCGGTGGAGGAGGA
*
57512701 GGTGGCGGTGGTGGAGG
1 GGTGGCGGTGGAGGAGG
57512718 TGGAGGTGGC
Statistics
Matches: 15, Mismatches: 2, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
18 15 1.00
ACGTcount: A:0.11, C:0.03, G:0.69, T:0.17
Consensus pattern (18 bp):
GGTGGCGGTGGAGGAGGA
Found at i:57512704 original size:21 final size:21
Alignment explanation
Indices: 57512680--57512727 Score: 78
Period size: 21 Copynumber: 2.3 Consensus size: 21
57512670 TAGTGCTAGT
*
57512680 GGTGGTGGTGGTGGAGGAGGA
1 GGTGGCGGTGGTGGAGGAGGA
*
57512701 GGTGGCGGTGGTGGAGGTGGA
1 GGTGGCGGTGGTGGAGGAGGA
57512722 GGTGGC
1 GGTGGC
57512728 AATGGAGGAG
Statistics
Matches: 25, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
21 25 1.00
ACGTcount: A:0.10, C:0.04, G:0.67, T:0.19
Consensus pattern (21 bp):
GGTGGCGGTGGTGGAGGAGGA
Found at i:57512737 original size:21 final size:21
Alignment explanation
Indices: 57512692--57512738 Score: 58
Period size: 21 Copynumber: 2.2 Consensus size: 21
57512682 TGGTGGTGGT
** *
57512692 GGAGGAGGAGGTGGCGGTGGT
1 GGAGGAGGAGGTGGCAATGGA
*
57512713 GGAGGTGGAGGTGGCAATGGA
1 GGAGGAGGAGGTGGCAATGGA
57512734 GGAGG
1 GGAGG
57512739 GTCAGGATAT
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:0.19, C:0.04, G:0.64, T:0.13
Consensus pattern (21 bp):
GGAGGAGGAGGTGGCAATGGA
Found at i:57512764 original size:18 final size:18
Alignment explanation
Indices: 57512754--57512793 Score: 71
Period size: 18 Copynumber: 2.2 Consensus size: 18
57512744 GATATGGGTT
*
57512754 TGGATCTGGATACGGAAG
1 TGGATCTGGATATGGAAG
57512772 TGGATCTGGATATGGAAG
1 TGGATCTGGATATGGAAG
57512790 TGGA
1 TGGA
57512794 GGTAGTGGAA
Statistics
Matches: 21, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
18 21 1.00
ACGTcount: A:0.28, C:0.07, G:0.40, T:0.25
Consensus pattern (18 bp):
TGGATCTGGATATGGAAG
Found at i:57512905 original size:15 final size:15
Alignment explanation
Indices: 57512885--57512915 Score: 53
Period size: 15 Copynumber: 2.1 Consensus size: 15
57512875 GGATATGGAA
*
57512885 GTGGAGGTGGTAGTG
1 GTGGAGGTGGCAGTG
57512900 GTGGAGGTGGCAGTG
1 GTGGAGGTGGCAGTG
57512915 G
1 G
57512916 AGGAAGAGGA
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
15 15 1.00
ACGTcount: A:0.13, C:0.03, G:0.61, T:0.23
Consensus pattern (15 bp):
GTGGAGGTGGCAGTG
Found at i:57512933 original size:18 final size:18
Alignment explanation
Indices: 57512912--57512957 Score: 65
Period size: 18 Copynumber: 2.6 Consensus size: 18
57512902 GGAGGTGGCA
* * *
57512912 GTGGAGGAAGAGGAGGTG
1 GTGGTGGAAGAGGAAGAG
57512930 GTGGTGGAAGAGGAAGAG
1 GTGGTGGAAGAGGAAGAG
57512948 GTGGTGGAAG
1 GTGGTGGAAG
57512958 TAGAGGCAAT
Statistics
Matches: 25, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
18 25 1.00
ACGTcount: A:0.28, C:0.00, G:0.59, T:0.13
Consensus pattern (18 bp):
GTGGTGGAAGAGGAAGAG
Found at i:57512936 original size:21 final size:21
Alignment explanation
Indices: 57512902--57512954 Score: 61
Period size: 21 Copynumber: 2.5 Consensus size: 21
57512892 TGGTAGTGGT
** *
57512902 GGAGGTGGCAGTGGAGGAAGA
1 GGAGGTGGTGGTGGAAGAAGA
*
57512923 GGAGGTGGTGGTGGAAGAGGA
1 GGAGGTGGTGGTGGAAGAAGA
*
57512944 AGAGGTGGTGG
1 GGAGGTGGTGG
57512955 AAGTAGAGGC
Statistics
Matches: 27, Mismatches: 5, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
21 27 1.00
ACGTcount: A:0.25, C:0.02, G:0.60, T:0.13
Consensus pattern (21 bp):
GGAGGTGGTGGTGGAAGAAGA
Found at i:57512962 original size:21 final size:21
Alignment explanation
Indices: 57512924--57512963 Score: 53
Period size: 21 Copynumber: 1.9 Consensus size: 21
57512914 GGAGGAAGAG
**
57512924 GAGGTGGTGGTGGAAGAGGAA
1 GAGGTGGTGGAAGAAGAGGAA
*
57512945 GAGGTGGTGGAAGTAGAGG
1 GAGGTGGTGGAAGAAGAGG
57512964 CAATGACTCA
Statistics
Matches: 16, Mismatches: 3, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
21 16 1.00
ACGTcount: A:0.28, C:0.00, G:0.57, T:0.15
Consensus pattern (21 bp):
GAGGTGGTGGAAGAAGAGGAA
Found at i:57515429 original size:29 final size:29
Alignment explanation
Indices: 57515364--57515450 Score: 102
Period size: 29 Copynumber: 2.9 Consensus size: 29
57515354 CACCACTGAT
** **
57515364 ACATAGTAACTGATAAATATAACACTAGC
1 ACATAGTGCCTGATAAATATAACACCGGC
57515393 ACATAGTGCCTGATAAATATAACACCGGC
1 ACATAGTGCCTGATAAATATAACACCGGC
* *
57515422 ACATAGTGCCTTATACAACATGAACACCG
1 ACATAGTGCCTGATA-AATAT-AACACCG
57515451 TACAAAGTAT
Statistics
Matches: 50, Mismatches: 6, Indels: 2
0.86 0.10 0.03
Matches are distributed among these distances:
29 39 0.78
30 4 0.08
31 7 0.14
ACGTcount: A:0.41, C:0.23, G:0.14, T:0.22
Consensus pattern (29 bp):
ACATAGTGCCTGATAAATATAACACCGGC
Found at i:57524142 original size:21 final size:21
Alignment explanation
Indices: 57524102--57524142 Score: 57
Period size: 21 Copynumber: 2.0 Consensus size: 21
57524092 AAAAAGTCAA
*
57524102 TAACATGAATTTGTCTAACCT
1 TAACATGAATTTGTCGAACCT
57524123 TAACATGAA-TTGATCGAACC
1 TAACATGAATTTG-TCGAACC
57524143 CAAGTTGATC
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
20 3 0.17
21 15 0.83
ACGTcount: A:0.37, C:0.20, G:0.12, T:0.32
Consensus pattern (21 bp):
TAACATGAATTTGTCGAACCT
Found at i:57527516 original size:30 final size:30
Alignment explanation
Indices: 57527482--57527548 Score: 125
Period size: 30 Copynumber: 2.2 Consensus size: 30
57527472 CTCCTAAGTC
*
57527482 ATTTTTATAATTATTTAATTTGTTAGGTTA
1 ATTTTGATAATTATTTAATTTGTTAGGTTA
57527512 ATTTTGATAATTATTTAATTTGTTAGGTTA
1 ATTTTGATAATTATTTAATTTGTTAGGTTA
57527542 ATTTTGA
1 ATTTTGA
57527549 AAAAAAGCTG
Statistics
Matches: 36, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
30 36 1.00
ACGTcount: A:0.30, C:0.00, G:0.12, T:0.58
Consensus pattern (30 bp):
ATTTTGATAATTATTTAATTTGTTAGGTTA
Found at i:57529955 original size:10 final size:10
Alignment explanation
Indices: 57529940--57529972 Score: 57
Period size: 10 Copynumber: 3.2 Consensus size: 10
57529930 ATAACAATCA
57529940 ATCCTAAAAT
1 ATCCTAAAAT
57529950 ATCCTAAAAT
1 ATCCTAAAAT
57529960 ATTCCTAAAAT
1 A-TCCTAAAAT
57529971 AT
1 AT
57529973 AATAATTTTT
Statistics
Matches: 22, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
10 12 0.55
11 10 0.45
ACGTcount: A:0.48, C:0.18, G:0.00, T:0.33
Consensus pattern (10 bp):
ATCCTAAAAT
Found at i:57529967 original size:11 final size:11
Alignment explanation
Indices: 57529941--57529972 Score: 57
Period size: 11 Copynumber: 3.0 Consensus size: 11
57529931 TAACAATCAA
57529941 TCCTAAAATA-
1 TCCTAAAATAT
57529951 TCCTAAAATAT
1 TCCTAAAATAT
57529962 TCCTAAAATAT
1 TCCTAAAATAT
57529973 AATAATTTTT
Statistics
Matches: 21, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
10 10 0.48
11 11 0.52
ACGTcount: A:0.47, C:0.19, G:0.00, T:0.34
Consensus pattern (11 bp):
TCCTAAAATAT
Found at i:57531838 original size:3 final size:3
Alignment explanation
Indices: 57531830--57531854 Score: 50
Period size: 3 Copynumber: 8.3 Consensus size: 3
57531820 TCAACTAATC
57531830 TCT TCT TCT TCT TCT TCT TCT TCT T
1 TCT TCT TCT TCT TCT TCT TCT TCT T
57531855 TTTCAAACTT
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 22 1.00
ACGTcount: A:0.00, C:0.32, G:0.00, T:0.68
Consensus pattern (3 bp):
TCT
Found at i:57537990 original size:16 final size:16
Alignment explanation
Indices: 57537969--57538036 Score: 93
Period size: 16 Copynumber: 4.2 Consensus size: 16
57537959 TTTGGTTCGC
57537969 TGTATTGGATTAGAGA
1 TGTATTGGATTAGAGA
57537985 TGTATTGGATTAGA-A
1 TGTATTGGATTAGAGA
* *
57538000 GTGTATTGGATTATAGG
1 -TGTATTGGATTAGAGA
*
57538017 TGTATTGGATTAGAGG
1 TGTATTGGATTAGAGA
57538033 TGTA
1 TGTA
57538037 ATAGCAAATC
Statistics
Matches: 47, Mismatches: 3, Indels: 4
0.87 0.06 0.07
Matches are distributed among these distances:
15 1 0.02
16 46 0.98
ACGTcount: A:0.28, C:0.00, G:0.32, T:0.40
Consensus pattern (16 bp):
TGTATTGGATTAGAGA
Found at i:57538008 original size:32 final size:32
Alignment explanation
Indices: 57537969--57538036 Score: 109
Period size: 32 Copynumber: 2.1 Consensus size: 32
57537959 TTTGGTTCGC
57537969 TGTATTGGATTAGAGATGTATTGGATTAGAAG
1 TGTATTGGATTAGAGATGTATTGGATTAGAAG
* * *
57538001 TGTATTGGATTATAGGTGTATTGGATTAGAGG
1 TGTATTGGATTAGAGATGTATTGGATTAGAAG
57538033 TGTA
1 TGTA
57538037 ATAGCAAATC
Statistics
Matches: 33, Mismatches: 3, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
32 33 1.00
ACGTcount: A:0.28, C:0.00, G:0.32, T:0.40
Consensus pattern (32 bp):
TGTATTGGATTAGAGATGTATTGGATTAGAAG
Found at i:57538360 original size:157 final size:157
Alignment explanation
Indices: 57538166--57538475 Score: 539
Period size: 157 Copynumber: 2.0 Consensus size: 157
57538156 CCCTTAGCAT
*
57538166 AAATTTATTTTGGTAAATGATTATTGTTATTGTTATTTAAATTTTAATAAGATTATTATTATCAA
1 AAATTTATTTTGGTAAATGATTATTGTTATTGTTATTTAAATTTTAATAAGATTATTAATATCAA
* *
57538231 TAATAAATATTTTAATCATATTTAAACATAATTATTATTAAACATATTTTAATTAAAATATATAA
66 TAATAAATAATTTAATCATATTTAAACATAATTATTATTAAACATATTATAATTAAAATATATAA
57538296 TTTAATAAAATTCTTAATAATTACCAG
131 TTTAATAAAATTCTTAATAATTACCAG
* * * *
57538323 AAATTTGTTTTGGTAAATTATTATTGTTATTGTTATTTAAATTTTGATAAGATTATTAATATGAA
1 AAATTTATTTTGGTAAATGATTATTGTTATTGTTATTTAAATTTTAATAAGATTATTAATATCAA
* *
57538388 TAATAAATAATTTAATCATATTTAAACATAATTATTATTAAATATATTATACTTAAAATATATAA
66 TAATAAATAATTTAATCATATTTAAACATAATTATTATTAAACATATTATAATTAAAATATATAA
57538453 TTTAATAAAATTCTTAATAATTA
131 TTTAATAAAATTCTTAATAATTA
57538476 ATATTCTTAT
Statistics
Matches: 144, Mismatches: 9, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
157 144 1.00
ACGTcount: A:0.44, C:0.04, G:0.05, T:0.47
Consensus pattern (157 bp):
AAATTTATTTTGGTAAATGATTATTGTTATTGTTATTTAAATTTTAATAAGATTATTAATATCAA
TAATAAATAATTTAATCATATTTAAACATAATTATTATTAAACATATTATAATTAAAATATATAA
TTTAATAAAATTCTTAATAATTACCAG
Found at i:57538472 original size:82 final size:81
Alignment explanation
Indices: 57538229--57538478 Score: 186
Period size: 76 Copynumber: 3.1 Consensus size: 81
57538219 TATTATTATC
* * *
57538229 AATAATAAATATTTTAATCATATTTAAACATAATTATTATTAAACATATTTTAATTAAAATATAT
1 AATAATAAATAATTTAATCATATTTAAACATAATTATTATTAAATATATTAT-ATTAAAATATAT
57538294 AATTTAATAAAATTCTT
65 AATTTAATAAAATTCTT
* * * * *
57538311 AATAATTACCAGA-AATTT-GT--T-TTGGT-AA-ATTATTATTGTT--AT-TGTTAT-TTAAAT
1 AATAA-TA--A-ATAATTTAATCATATT--TAAACATAATTATTATTAAATATATTATATTAAAA
* * * * *
57538365 TTTGATAAGATT-AT-TAA-TATG
60 TAT-ATAA-TTTAATAAAATTCTT
57538386 AATAATAAATAATTTAATCATATTTAAACATAATTATTATTAAATATATTATACTTAAAATATAT
1 AATAATAAATAATTTAATCATATTTAAACATAATTATTATTAAATATATTATA-TTAAAATATAT
57538451 AATTTAATAAAATTCTT
65 AATTTAATAAAATTCTT
*
57538468 AATAATTAATA
1 AATAATAAATA
57538479 TTCTTATATG
Statistics
Matches: 121, Mismatches: 24, Indels: 46
0.63 0.13 0.24
Matches are distributed among these distances:
71 1 0.01
72 6 0.05
73 1 0.01
74 3 0.02
75 10 0.08
76 21 0.17
77 6 0.05
78 8 0.07
79 8 0.07
80 6 0.05
81 21 0.17
82 20 0.17
83 3 0.02
84 1 0.01
85 5 0.04
86 1 0.01
ACGTcount: A:0.47, C:0.04, G:0.04, T:0.46
Consensus pattern (81 bp):
AATAATAAATAATTTAATCATATTTAAACATAATTATTATTAAATATATTATATTAAAATATATA
ATTTAATAAAATTCTT
Found at i:57538549 original size:157 final size:155
Alignment explanation
Indices: 57538212--57538533 Score: 349
Period size: 157 Copynumber: 2.0 Consensus size: 155
57538202 TTAAATTTTA
* * * *
57538212 ATAAGATTATTATTATCAATAATAAATATTTTAATCATATTTAAACATAATTATTATTAAACATA
1 ATAAGATTATGAATATGAATAATAAATAATTTAATCATATTTAAACATAATTATTATTAAACATA
* * * * * ** *
57538277 TTTTAATTAAAATATATAATTTAATAAAATTCTTAATAATTACCAGAAATTTGTTTTGGTAAATT
66 TTATAATTAAAATATATAATTTAATAAAATTCTTAATAATTAACACAAATATGATTTACTAAATC
* * * * *
57538342 ATTATTGTTATTGTTATTTAAATTTTG
131 ATAATTATTATTGATATATAAA--TAG
* *
57538369 ATAAGATTATTAATATGAATAATAAATAATTTAATCATATTTAAACATAATTATTATTAAATATA
1 ATAAGATTATGAATATGAATAATAAATAATTTAATCATATTTAAACATAATTATTATTAAACATA
* * **
57538434 TTATACTTAAAATATATAATTTAATAAAATTCTTAATAATTAATATTCTTATATGAATTTACTCA
66 TTATAATTAAAATATATAATTTAATAAAATTCTTAATAATTAACA--CAAATATG-ATTTACT-A
57538499 AATCATAATATATTATATGATACTATAAA-AG
127 AATCATAAT-TATTAT-TGATA-TATAAATAG
57538530 ATAA
1 ATAA
57538534 TTTGAAATAA
Statistics
Matches: 137, Mismatches: 21, Indels: 10
0.82 0.12 0.06
Matches are distributed among these distances:
157 102 0.74
159 4 0.03
160 4 0.03
161 13 0.09
162 5 0.04
163 4 0.03
164 5 0.04
ACGTcount: A:0.46, C:0.05, G:0.04, T:0.45
Consensus pattern (155 bp):
ATAAGATTATGAATATGAATAATAAATAATTTAATCATATTTAAACATAATTATTATTAAACATA
TTATAATTAAAATATATAATTTAATAAAATTCTTAATAATTAACACAAATATGATTTACTAAATC
ATAATTATTATTGATATATAAATAG
Found at i:57539373 original size:13 final size:13
Alignment explanation
Indices: 57539355--57539384 Score: 60
Period size: 13 Copynumber: 2.3 Consensus size: 13
57539345 CAATCAGCTA
57539355 AATTCAGAAAAAC
1 AATTCAGAAAAAC
57539368 AATTCAGAAAAAC
1 AATTCAGAAAAAC
57539381 AATT
1 AATT
57539385 ACATGACAAT
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 17 1.00
ACGTcount: A:0.60, C:0.13, G:0.07, T:0.20
Consensus pattern (13 bp):
AATTCAGAAAAAC
Found at i:57541740 original size:12 final size:12
Alignment explanation
Indices: 57541723--57541749 Score: 54
Period size: 12 Copynumber: 2.2 Consensus size: 12
57541713 TGGCTTAGCC
57541723 AATAATGGGAAG
1 AATAATGGGAAG
57541735 AATAATGGGAAG
1 AATAATGGGAAG
57541747 AAT
1 AAT
57541750 GATTAAGTGT
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 15 1.00
ACGTcount: A:0.52, C:0.00, G:0.30, T:0.19
Consensus pattern (12 bp):
AATAATGGGAAG
Found at i:57543822 original size:132 final size:132
Alignment explanation
Indices: 57543585--57543827 Score: 321
Period size: 132 Copynumber: 1.8 Consensus size: 132
57543575 AACGGAGGCG
* * * * *
57543585 ATGTTTGATGTTTGACAATTCGGGAAATCGTGCCCTACTATGCTGGGTTGCAATTTCTCGTTTGC
1 ATGTTCGATGTTTGACAATTCGGGAAATAGTGCCCTACTATGCTGGGTTGCAATCTCCCATTTGC
* *
57543650 TCAAAATAATCGAATATCTCTTTAGAATTCCATTCATGTTTTCTAAAAACTTTTTAAAATGAAGG
66 TCAAAATAATCGAATATCCCTTGAGAATTCCATTCATGTTTTCTAAAAACTTTTTAAAATGAAGG
57543715 AA
131 AA
* *
57543717 ATGTTCGATGTTT-AGCAATTCGGGGAATAGTGCCCTA-TCGTGCTGGGTTGCAATCTCCCATTT
1 ATGTTCGATGTTTGA-CAATTCGGGAAATAGTGCCCTACT-ATGCTGGGTTGCAATCTCCCATTT
* * * *
57543780 GTTCAAAATAATCGAATATCCCTTCGA-AATTTCGTTCGTGTTTTCTAA
64 GCTCAAAATAATCGAATATCCCTT-GAGAATTCCATTCATGTTTTCTAA
57543828 GGCGAGGCAA
Statistics
Matches: 95, Mismatches: 13, Indels: 6
0.83 0.11 0.05
Matches are distributed among these distances:
131 2 0.02
132 92 0.97
133 1 0.01
ACGTcount: A:0.27, C:0.18, G:0.18, T:0.37
Consensus pattern (132 bp):
ATGTTCGATGTTTGACAATTCGGGAAATAGTGCCCTACTATGCTGGGTTGCAATCTCCCATTTGC
TCAAAATAATCGAATATCCCTTGAGAATTCCATTCATGTTTTCTAAAAACTTTTTAAAATGAAGG
AA
Found at i:57544529 original size:28 final size:26
Alignment explanation
Indices: 57544490--57544541 Score: 61
Period size: 26 Copynumber: 1.9 Consensus size: 26
57544480 TTAAAATCTA
57544490 AATCCATATACTCTTATATTTGAAATTT
1 AATCCATATACT-TT-TATTTGAAATTT
*
57544518 AATCC-TACTACTTTTATTTTAAAT
1 AATCCATA-TACTTTTATTTGAAAT
57544542 AATTTAGTCC
Statistics
Matches: 22, Mismatches: 1, Indels: 4
0.81 0.04 0.15
Matches are distributed among these distances:
26 9 0.41
27 4 0.18
28 9 0.41
ACGTcount: A:0.35, C:0.15, G:0.02, T:0.48
Consensus pattern (26 bp):
AATCCATATACTTTTATTTGAAATTT
Found at i:57547485 original size:132 final size:132
Alignment explanation
Indices: 57547248--57547490 Score: 321
Period size: 132 Copynumber: 1.8 Consensus size: 132
57547238 AACGGAGGCG
* * * * *
57547248 ATGTTTGATGTTTGACAATTCGGGAAATCGTGCCCTACTATGCTGGGTTGCAATTTCTCGTTTGC
1 ATGTTCGATGTTTGACAATTCGGGAAATAGTGCCCTACTATGCTGGGTTGCAATCTCCCATTTGC
* *
57547313 TCAAAATAATCGAATATCTCTTTAGAATTCCATTCATGTTTTCTAAAAACTTTTTAAAATGAAGG
66 TCAAAATAATCGAATATCCCTTGAGAATTCCATTCATGTTTTCTAAAAACTTTTTAAAATGAAGG
57547378 AA
131 AA
* *
57547380 ATGTTCGATGTTT-AGCAATTCGGGGAATAGTGCCCTA-TCGTGCTGGGTTGCAATCTCCCATTT
1 ATGTTCGATGTTTGA-CAATTCGGGAAATAGTGCCCTACT-ATGCTGGGTTGCAATCTCCCATTT
* * * *
57547443 GTTCAAAATAATCGAATATCCCTTCGA-AATTTCGTTCGTGTTTTCTAA
64 GCTCAAAATAATCGAATATCCCTT-GAGAATTCCATTCATGTTTTCTAA
57547491 GGCGAGGCAA
Statistics
Matches: 95, Mismatches: 13, Indels: 6
0.83 0.11 0.05
Matches are distributed among these distances:
131 2 0.02
132 92 0.97
133 1 0.01
ACGTcount: A:0.27, C:0.18, G:0.18, T:0.37
Consensus pattern (132 bp):
ATGTTCGATGTTTGACAATTCGGGAAATAGTGCCCTACTATGCTGGGTTGCAATCTCCCATTTGC
TCAAAATAATCGAATATCCCTTGAGAATTCCATTCATGTTTTCTAAAAACTTTTTAAAATGAAGG
AA
Found at i:57548192 original size:28 final size:26
Alignment explanation
Indices: 57548153--57548204 Score: 61
Period size: 26 Copynumber: 1.9 Consensus size: 26
57548143 TTAAAATCTA
57548153 AATCCATATACTCTTATATTTGAAATTT
1 AATCCATATACT-TT-TATTTGAAATTT
*
57548181 AATCC-TACTACTTTTATTTTAAAT
1 AATCCATA-TACTTTTATTTGAAAT
57548205 AATTTAGTCC
Statistics
Matches: 22, Mismatches: 1, Indels: 4
0.81 0.04 0.15
Matches are distributed among these distances:
26 9 0.41
27 4 0.18
28 9 0.41
ACGTcount: A:0.35, C:0.15, G:0.02, T:0.48
Consensus pattern (26 bp):
AATCCATATACTTTTATTTGAAATTT
Found at i:57550285 original size:45 final size:44
Alignment explanation
Indices: 57550125--57550344 Score: 239
Period size: 44 Copynumber: 4.9 Consensus size: 44
57550115 AAATACTTTA
* * *
57550125 GAAGCCACAATCCTTATCTCTCTGAAGTTGCAGTGGAGTAGATC
1 GAAGTCACAATCCTTATCTCCCTGAAGTTGCAGTGGAGCAGATC
* * * * * *
57550169 GAAGCCACAATGCTTATCTCTCTGAAGTTGTAGTAGAGCAGGATA
1 GAAGTCACAATCCTTATCTCCCTGAAGTTGCAGTGGAGCA-GATC
* * *
57550214 AAATTACCCAAGT-CTTATCTCCCTGAAGTTGCAGTGGAGCAGA-C
1 GAAGT-CACAA-TCCTTATCTCCCTGAAGTTGCAGTGGAGCAGATC
*
57550258 TGAAGTTAGCAGAT-CTTATCTCCCTGAAGTTGCAGTGGAGCAGATC
1 -GAAGTCA-CA-ATCCTTATCTCCCTGAAGTTGCAGTGGAGCAGATC
*
57550304 GAAGTCACAATCCTTATCTCCCTGAAGTTGCAGTGGGGCAG
1 GAAGTCACAATCCTTATCTCCCTGAAGTTGCAGTGGAGCAG
57550345 TTGCAATAGA
Statistics
Matches: 149, Mismatches: 19, Indels: 16
0.81 0.10 0.09
Matches are distributed among these distances:
43 2 0.01
44 66 0.44
45 49 0.33
46 31 0.21
47 1 0.01
ACGTcount: A:0.28, C:0.22, G:0.24, T:0.26
Consensus pattern (44 bp):
GAAGTCACAATCCTTATCTCCCTGAAGTTGCAGTGGAGCAGATC
Found at i:57552077 original size:14 final size:13
Alignment explanation
Indices: 57552046--57552086 Score: 50
Period size: 13 Copynumber: 3.2 Consensus size: 13
57552036 TTATTTTACC
57552046 ATTTTTTTATAAT
1 ATTTTTTTATAAT
57552059 ATTTTGTTTA-AAT
1 ATTTT-TTTATAAT
*
57552072 ATTTTTATAT-AT
1 ATTTTTTTATAAT
57552084 ATT
1 ATT
57552087 GGTAAATATG
Statistics
Matches: 25, Mismatches: 1, Indels: 5
0.81 0.03 0.16
Matches are distributed among these distances:
12 8 0.32
13 13 0.52
14 4 0.16
ACGTcount: A:0.32, C:0.00, G:0.02, T:0.66
Consensus pattern (13 bp):
ATTTTTTTATAAT
Found at i:57555633 original size:17 final size:17
Alignment explanation
Indices: 57555587--57555633 Score: 51
Period size: 17 Copynumber: 2.7 Consensus size: 17
57555577 TTACTCTTCG
57555587 TTTTTTTCTATTTATTTA
1 TTTTTTTCT-TTTATTTA
* *
57555605 TTTGTTTGTTTTATTCT-
1 TTTTTTTCTTTTATT-TA
57555622 TTTTTTTCTTTT
1 TTTTTTTCTTTT
57555634 CTTTTGCAAA
Statistics
Matches: 24, Mismatches: 4, Indels: 3
0.77 0.13 0.10
Matches are distributed among these distances:
17 16 0.67
18 8 0.33
ACGTcount: A:0.09, C:0.06, G:0.04, T:0.81
Consensus pattern (17 bp):
TTTTTTTCTTTTATTTA
Found at i:57564246 original size:44 final size:43
Alignment explanation
Indices: 57564174--57565039 Score: 708
Period size: 44 Copynumber: 19.8 Consensus size: 43
57564164 AACAGGTCCG
* *
57564174 GTCTTCCTATATTGGTAGGAAGTGGATCGACGATGCAGATCTT
1 GTCTTCCTATATTGGTAGGAAGTAGATCGAAGATGCAGATCTT
* * * *
57564217 GTCTTCCCATACTGGTGGCGAAGTAGATCGAAGAAAGCAGATCTT
1 GTCTTCCTATATTGGTAG-GAAGTAGATCGAAG-ATGCAGATCTT
* * * * * *
57564262 ATCTTCATGTATTAGCGT--GAAGTAGATCAAAGATAGTAGGTCTT
1 GTCTTCCTATATT-G-GTAGGAAGTAGATCGAAGAT-GCAGATCTT
*
57564306 GTCTTCCTATATTGGTAGGAAGTGGATCGAAGATGCAGATCTT
1 GTCTTCCTATATTGGTAGGAAGTAGATCGAAGATGCAGATCTT
* *
57564349 GTCTTCCTATATTGGTAGGAAGTAGATCGAAGAAAGCAGATATT
1 GTCTTCCTATATTGGTAGGAAGTAGATCGAAG-ATGCAGATCTT
* * * * * * *
57564393 GTCTTCATGTATTGG-CGTGAAGTAGATCAAATATAGTAGGTCTT
1 GTCTTCCTATATTGGTAG-GAAGTAGATCGAAGAT-GCAGATCTT
*
57564437 GTCTTCCTATATTGGTAGGAAGTGGATCGAAGATGCAGATCTT
1 GTCTTCCTATATTGGTAGGAAGTAGATCGAAGATGCAGATCTT
* *
57564480 GTCTTCCTATATTGGTAGGAAGTAGATCGAAGAAAGCAGATATT
1 GTCTTCCTATATTGGTAGGAAGTAGATCGAAG-ATGCAGATCTT
* * * * * *
57564524 GTCTTCATGTATTAGCGT--GAAGTAGATCAAAGATAACAGGTCCT
1 GTCTTCCTATATT-G-GTAGGAAGTAGATCGAAGAT-GCAGATCTT
* * *
57564568 GTCTTCCTATATTGGTAGGAAGTGGATCGACGATGCAGACCTT
1 GTCTTCCTATATTGGTAGGAAGTAGATCGAAGATGCAGATCTT
* * **
57564611 GTCTTCCCATATTGGTAGCGAAGTAGATCGAAGAAAGTGGATCTT
1 GTCTTCCTATATTGGTAG-GAAGTAGATCGAAG-ATGCAGATCTT
* * * * * * * *
57564656 ATCTTCATGTATTGG-CGTGAAGTAGATCAAAGATAACAGGTCCT
1 GTCTTCCTATATTGGTAG-GAAGTAGATCGAAGAT-GCAGATCTT
* * * ** *
57564700 ATCTTCCTATATTGGTAGGAAATGGATCGAAGAACCAGACCTT
1 GTCTTCCTATATTGGTAGGAAGTAGATCGAAGATGCAGATCTT
* * *
57564743 GTCTTCCCATATTGGTGGCGAAGTAGATCTAAGAAAATG-A-ATCTT
1 GTCTTCCTATATTGGTAG-GAAGTAGATC---GAAGATGCAGATCTT
* * * * * * * *
57564788 ATCTTCATGTATTGG-CGTGAAGTAGATCAAAGATAACAGGTCCT
1 GTCTTCCTATATTGGTAG-GAAGTAGATCGAAGAT-GCAGATCTT
* * *
57564832 ATCTTCCTATATTGGTAGGAAATGGATCGAAGATGCAGATCTT
1 GTCTTCCTATATTGGTAGGAAGTAGATCGAAGATGCAGATCTT
* *
57564875 GTCTTCCTATATTGGTAGGAAGTAGATCGAAGAAAGCAAATCTT
1 GTCTTCCTATATTGGTAGGAAGTAGATCGAAG-ATGCAGATCTT
* * * * * *
57564919 GTCTTCATGTATTGG-CGTGAAGTAGATCGAAGGTAGCAGGTCCT
1 GTCTTCCTATATTGGTAG-GAAGTAGATCGAAGAT-GCAGATCTT
* * * *
57564963 ATCTTCCTATATTGATAGGAAGTGGATCCAAGATGCAGATCTT
1 GTCTTCCTATATTGGTAGGAAGTAGATCGAAGATGCAGATCTT
* *
57565006 GTCTTCCCATATTGGTGGCGAAGTAGATCGAAGA
1 GTCTTCCTATATTGGTAG-GAAGTAGATCGAAGA
57565040 AAGTAANNNN
Statistics
Matches: 638, Mismatches: 151, Indels: 67
0.75 0.18 0.08
Matches are distributed among these distances:
41 4 0.01
42 4 0.01
43 198 0.31
44 366 0.57
45 56 0.09
46 4 0.01
47 6 0.01
ACGTcount: A:0.29, C:0.15, G:0.25, T:0.30
Consensus pattern (43 bp):
GTCTTCCTATATTGGTAGGAAGTAGATCGAAGATGCAGATCTT
Found at i:57564698 original size:132 final size:132
Alignment explanation
Indices: 57564145--57565042 Score: 1365
Period size: 131 Copynumber: 6.8 Consensus size: 132
57564135 NNNNNNNNNN
* *
57564145 CGTGAAGTAGATCAAAGATAACAGGTCCGGTCTTCCTATATTGGTAGGAAGTGGATCGACGATGC
1 CGTGAAGTAGATCAAAGATAACAGGTCCTGTCTTCCTATATTGGTAGGAAGTGGATCGAAGATGC
* *
57564210 AGATCTTGTCTTCCCATACTGGTGGCGAAGTAGATCGAAGAAAGCAGATCTTATCTTCATGTATT
66 AGATCTTGTCTTCCCATATTGGTAGCGAAGTAGATCGAAGAAAGCAGATCTTATCTTCATGTATT
*
57564275 AG
131 GG
** *
57564277 CGTGAAGTAGATCAAAGATAGTAGGTCTTGTCTTCCTATATTGGTAGGAAGTGGATCGAAGATGC
1 CGTGAAGTAGATCAAAGATAACAGGTCCTGTCTTCCTATATTGGTAGGAAGTGGATCGAAGATGC
* * *
57564342 AGATCTTGTCTTCCTATATTGGTAG-GAAGTAGATCGAAGAAAGCAGATATTGTCTTCATGTATT
66 AGATCTTGTCTTCCCATATTGGTAGCGAAGTAGATCGAAGAAAGCAGATCTTATCTTCATGTATT
57564406 GG
131 GG
* ** *
57564408 CGTGAAGTAGATCAAATATAGTAGGTCTTGTCTTCCTATATTGGTAGGAAGTGGATCGAAGATGC
1 CGTGAAGTAGATCAAAGATAACAGGTCCTGTCTTCCTATATTGGTAGGAAGTGGATCGAAGATGC
* * *
57564473 AGATCTTGTCTTCCTATATTGGTAG-GAAGTAGATCGAAGAAAGCAGATATTGTCTTCATGTATT
66 AGATCTTGTCTTCCCATATTGGTAGCGAAGTAGATCGAAGAAAGCAGATCTTATCTTCATGTATT
*
57564537 AG
131 GG
*
57564539 CGTGAAGTAGATCAAAGATAACAGGTCCTGTCTTCCTATATTGGTAGGAAGTGGATCGACGATGC
1 CGTGAAGTAGATCAAAGATAACAGGTCCTGTCTTCCTATATTGGTAGGAAGTGGATCGAAGATGC
* **
57564604 AGACCTTGTCTTCCCATATTGGTAGCGAAGTAGATCGAAGAAAGTGGATCTTATCTTCATGTATT
66 AGATCTTGTCTTCCCATATTGGTAGCGAAGTAGATCGAAGAAAGCAGATCTTATCTTCATGTATT
57564669 GG
131 GG
* * **
57564671 CGTGAAGTAGATCAAAGATAACAGGTCCTATCTTCCTATATTGGTAGGAAATGGATCGAAGAACC
1 CGTGAAGTAGATCAAAGATAACAGGTCCTGTCTTCCTATATTGGTAGGAAGTGGATCGAAGATGC
* * *
57564736 AGACCTTGTCTTCCCATATTGGTGGCGAAGTAGATCTAAGAAA--ATGAATCTTATCTTCATGTA
66 AGATCTTGTCTTCCCATATTGGTAGCGAAGTAGATCGAAGAAAGCA-G-ATCTTATCTTCATGTA
57564799 TTGG
129 TTGG
* *
57564803 CGTGAAGTAGATCAAAGATAACAGGTCCTATCTTCCTATATTGGTAGGAAATGGATCGAAGATGC
1 CGTGAAGTAGATCAAAGATAACAGGTCCTGTCTTCCTATATTGGTAGGAAGTGGATCGAAGATGC
* * *
57564868 AGATCTTGTCTTCCTATATTGGTAG-GAAGTAGATCGAAGAAAGCAAATCTTGTCTTCATGTATT
66 AGATCTTGTCTTCCCATATTGGTAGCGAAGTAGATCGAAGAAAGCAGATCTTATCTTCATGTATT
57564932 GG
131 GG
* * * * * *
57564934 CGTGAAGTAGATCGAAGGTAGCAGGTCCTATCTTCCTATATTGATAGGAAGTGGATCCAAGATGC
1 CGTGAAGTAGATCAAAGATAACAGGTCCTGTCTTCCTATATTGGTAGGAAGTGGATCGAAGATGC
*
57564999 AGATCTTGTCTTCCCATATTGGTGGCGAAGTAGATCGAAGAAAG
66 AGATCTTGTCTTCCCATATTGGTAGCGAAGTAGATCGAAGAAAG
57565043 TAANNNNNNN
Statistics
Matches: 711, Mismatches: 49, Indels: 12
0.92 0.06 0.02
Matches are distributed among these distances:
131 368 0.52
132 342 0.48
133 1 0.00
ACGTcount: A:0.30, C:0.15, G:0.25, T:0.30
Consensus pattern (132 bp):
CGTGAAGTAGATCAAAGATAACAGGTCCTGTCTTCCTATATTGGTAGGAAGTGGATCGAAGATGC
AGATCTTGTCTTCCCATATTGGTAGCGAAGTAGATCGAAGAAAGCAGATCTTATCTTCATGTATT
GG
Found at i:57567107 original size:15 final size:15
Alignment explanation
Indices: 57567087--57567120 Score: 59
Period size: 15 Copynumber: 2.3 Consensus size: 15
57567077 TTACTTTTTG
*
57567087 TTATTTTTGCTCGTA
1 TTATTTTTGCTCGCA
57567102 TTATTTTTGCTCGCA
1 TTATTTTTGCTCGCA
57567117 TTAT
1 TTAT
57567121 CGTAATTGTT
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
15 18 1.00
ACGTcount: A:0.15, C:0.15, G:0.12, T:0.59
Consensus pattern (15 bp):
TTATTTTTGCTCGCA
Found at i:57568925 original size:27 final size:29
Alignment explanation
Indices: 57568893--57568955 Score: 80
Period size: 27 Copynumber: 2.3 Consensus size: 29
57568883 GTATTTTTTT
57568893 TAATTTGACAT-C-TAAATTTTTTT-AGCC
1 TAATTTGA-ATGCTTAAATTTTTTTGAGCC
*
57568920 TAATTTG-ATGCTTAAATTTTTTTGGGCC
1 TAATTTGAATGCTTAAATTTTTTTGAGCC
57568948 TAATTTGA
1 TAATTTGA
57568956 TACTTGAACT
Statistics
Matches: 31, Mismatches: 1, Indels: 6
0.82 0.03 0.16
Matches are distributed among these distances:
25 2 0.06
26 1 0.03
27 18 0.58
28 10 0.32
ACGTcount: A:0.27, C:0.11, G:0.13, T:0.49
Consensus pattern (29 bp):
TAATTTGAATGCTTAAATTTTTTTGAGCC
Found at i:57569461 original size:31 final size:32
Alignment explanation
Indices: 57569405--57569476 Score: 119
Period size: 31 Copynumber: 2.3 Consensus size: 32
57569395 AAAAGATTAT
*
57569405 GTACCAAATTAAGGAAAAAGAGTCAAGTTTAG
1 GTACCAAATTAAGAAAAAAGAGTCAAGTTTAG
*
57569437 GTACCAAATT-AGAAAAAAGTGTCAAGTTTAG
1 GTACCAAATTAAGAAAAAAGAGTCAAGTTTAG
57569468 GTACCAAAT
1 GTACCAAAT
57569477 GTTATATTAA
Statistics
Matches: 38, Mismatches: 2, Indels: 1
0.93 0.05 0.02
Matches are distributed among these distances:
31 28 0.74
32 10 0.26
ACGTcount: A:0.46, C:0.11, G:0.19, T:0.24
Consensus pattern (32 bp):
GTACCAAATTAAGAAAAAAGAGTCAAGTTTAG
Found at i:57571579 original size:22 final size:23
Alignment explanation
Indices: 57571551--57571603 Score: 83
Period size: 22 Copynumber: 2.4 Consensus size: 23
57571541 CATGAAGGAA
57571551 CCCCATACCCT-CACTACAACAG
1 CCCCATACCCTCCACTACAACAG
57571573 CCCCATA-CCTCCACTACAACAG
1 CCCCATACCCTCCACTACAACAG
*
57571595 TCCCATACC
1 CCCCATACC
57571604 GTCTGACACT
Statistics
Matches: 28, Mismatches: 1, Indels: 3
0.88 0.03 0.09
Matches are distributed among these distances:
21 3 0.11
22 24 0.86
23 1 0.04
ACGTcount: A:0.30, C:0.51, G:0.04, T:0.15
Consensus pattern (23 bp):
CCCCATACCCTCCACTACAACAG
Found at i:57573890 original size:12 final size:12
Alignment explanation
Indices: 57573875--57573909 Score: 52
Period size: 12 Copynumber: 2.8 Consensus size: 12
57573865 CTATATCTAT
57573875 TATTATAATATA
1 TATTATAATATA
*
57573887 TATTGTAATATA
1 TATTATAATATA
57573899 TATATATAATA
1 TAT-TATAATA
57573910 GTAGTAAATT
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
12 14 0.70
13 6 0.30
ACGTcount: A:0.49, C:0.00, G:0.03, T:0.49
Consensus pattern (12 bp):
TATTATAATATA
Found at i:57577799 original size:24 final size:24
Alignment explanation
Indices: 57577765--57577818 Score: 99
Period size: 24 Copynumber: 2.2 Consensus size: 24
57577755 AAAGAAAAAG
57577765 AGAGAGGGAAAAAAGGAATAAGTCT
1 AGAG-GGGAAAAAAGGAATAAGTCT
57577790 AGAGGGGAAAAAAGGAATAAGTCT
1 AGAGGGGAAAAAAGGAATAAGTCT
57577814 AGAGG
1 AGAGG
57577819 TTACTATCCC
Statistics
Matches: 29, Mismatches: 0, Indels: 1
0.97 0.00 0.03
Matches are distributed among these distances:
24 25 0.86
25 4 0.14
ACGTcount: A:0.50, C:0.04, G:0.35, T:0.11
Consensus pattern (24 bp):
AGAGGGGAAAAAAGGAATAAGTCT
Found at i:57583438 original size:7 final size:7
Alignment explanation
Indices: 57583369--57583626 Score: 63
Period size: 7 Copynumber: 35.9 Consensus size: 7
57583359 TTTATTTTCT
57583369 TATATTA
1 TATATTA
*
57583376 TATGTTA
1 TATATTA
57583383 TA-ATTA
1 TATATTA
*
57583389 TTTTATTA
1 -TATATTA
* *
57583397 CATGTTA
1 TATATTA
*
57583404 TTTATTTTA
1 --TATATTA
57583413 TATATTA
1 TATATTA
57583420 T-TATTA
1 TATATTA
*
57583426 CATATTA
1 TATATTA
*
57583433 TGTATTA
1 TATATTA
*
57583440 TACATTTTA
1 T--ATATTA
57583449 TATATT-
1 TATATTA
* *
57583455 TTTTTTA
1 TATATTA
*
57583462 T-TATTT
1 TATATTA
57583468 TATATTA
1 TATATTA
57583475 T-TATT-
1 TATATTA
*
57583480 TATATACA
1 TATAT-TA
57583488 TATATTA
1 TATATTA
*
57583495 TTATCCTTA
1 -TAT-ATTA
57583504 -ACTATTA
1 TA-TATTA
*
57583511 TATTTTA
1 TATATTA
57583518 T-TAATTA
1 TAT-ATTA
57583525 -ATTACTTA
1 TA-TA-TTA
*
57583533 TATACTA
1 TATATTA
*
57583540 TATATTG
1 TATATTA
*
57583547 TA-ATTT
1 TATATTA
* *
57583553 TAAACCTA
1 TATA-TTA
*
57583561 TATACTTT
1 TATA-TTA
57583569 TATATTA
1 TATATTA
57583576 TATATTA
1 TATATTA
57583583 TATAATTA
1 TAT-ATTA
*
57583591 TTTTATT-
1 -TATATTA
57583598 TACTATGTA
1 TA-TAT-TA
57583607 TATTATT-
1 TA-TATTA
*
57583614 TATTTTA
1 TATATTA
57583621 TATATT
1 TATATT
57583627 TTTTAAAAAT
Statistics
Matches: 181, Mismatches: 41, Indels: 58
0.65 0.15 0.21
Matches are distributed among these distances:
5 1 0.01
6 33 0.18
7 87 0.48
8 39 0.22
9 21 0.12
ACGTcount: A:0.34, C:0.05, G:0.02, T:0.59
Consensus pattern (7 bp):
TATATTA
Found at i:57583444 original size:45 final size:44
Alignment explanation
Indices: 57583395--57583488 Score: 109
Period size: 45 Copynumber: 2.1 Consensus size: 44
57583385 ATTATTTTAT
*
57583395 TACATGTTATTTATTTTATATATTATTATTACA-TATTATGTATTA
1 TACATGTTATATATTTTATATATTATT-TTACATTATTATGTA-TA
* * * * *
57583440 TACATTTTATATATTTTTTTTATTATTTTATATTATTATTTATA
1 TACATGTTATATATTTTATATATTATTTTACATTATTATGTATA
57583484 TACAT
1 TACAT
57583489 ATATTATTAT
Statistics
Matches: 42, Mismatches: 6, Indels: 3
0.82 0.12 0.06
Matches are distributed among these distances:
44 11 0.26
45 31 0.74
ACGTcount: A:0.32, C:0.04, G:0.02, T:0.62
Consensus pattern (44 bp):
TACATGTTATATATTTTATATATTATTTTACATTATTATGTATA
Found at i:57583449 original size:16 final size:17
Alignment explanation
Indices: 57583413--57583454 Score: 50
Period size: 16 Copynumber: 2.5 Consensus size: 17
57583403 ATTTATTTTA
57583413 TATATTATTATTACATAT
1 TATA-TATTATTACATAT
* *
57583431 TATGTATTA-TACATTT
1 TATATATTATTACATAT
57583447 TATATATT
1 TATATATT
57583455 TTTTTTATTA
Statistics
Matches: 21, Mismatches: 3, Indels: 2
0.81 0.12 0.08
Matches are distributed among these distances:
16 13 0.62
17 5 0.24
18 3 0.14
ACGTcount: A:0.36, C:0.05, G:0.02, T:0.57
Consensus pattern (17 bp):
TATATATTATTACATAT
Found at i:57583449 original size:29 final size:28
Alignment explanation
Indices: 57583370--57583454 Score: 73
Period size: 29 Copynumber: 2.9 Consensus size: 28
57583360 TTATTTTCTT
*
57583370 ATATTATATGTTATAATTATT-TTATTAC
1 ATATTATATATTATAATT-TTATTATTAC
* * * *
57583398 ATGTTATTTATTTTATATATTATTATTAC
1 ATATTATATATTATA-ATTTTATTATTAC
*
57583427 ATATTATGTATTATACATTTTATATATT
1 ATATTATATATTATA-ATTTTAT-TATT
57583455 TTTTTTATTA
Statistics
Matches: 44, Mismatches: 10, Indels: 4
0.76 0.17 0.07
Matches are distributed among these distances:
28 13 0.30
29 27 0.61
30 4 0.09
ACGTcount: A:0.34, C:0.04, G:0.04, T:0.59
Consensus pattern (28 bp):
ATATTATATATTATAATTTTATTATTAC
Found at i:57583475 original size:13 final size:13
Alignment explanation
Indices: 57583401--57583484 Score: 50
Period size: 13 Copynumber: 6.5 Consensus size: 13
57583391 TTATTACATG
57583401 TTAT-TTATT-TT
1 TTATATTATTATT
*
57583412 ATATATTATTATT
1 TTATATTATTATT
**
57583425 ACATATTATGTATT
1 TTATATTAT-TATT
* *
57583439 ATACATTTTATATATT
1 -T-TATATTAT-TATT
*
57583455 TT-TTTTATTATT
1 TTATATTATTATT
57583467 TTATATTATTA-T
1 TTATATTATTATT
57583479 TTATAT
1 TTATAT
57583485 ACATATATTA
Statistics
Matches: 60, Mismatches: 7, Indels: 11
0.77 0.09 0.14
Matches are distributed among these distances:
11 3 0.05
12 18 0.30
13 23 0.38
14 4 0.07
15 1 0.02
16 11 0.18
ACGTcount: A:0.31, C:0.02, G:0.01, T:0.65
Consensus pattern (13 bp):
TTATATTATTATT
Found at i:57583596 original size:25 final size:26
Alignment explanation
Indices: 57583566--57583623 Score: 68
Period size: 25 Copynumber: 2.3 Consensus size: 26
57583556 ACCTATATAC
*
57583566 TTTTATATTA-TATAT-TATATAATTA
1 TTTTATATTACTATGTATAT-TAATTA
*
57583591 TTTTAT-TTACTATGTATATTATTTA
1 TTTTATATTACTATGTATATTAATTA
57583616 TTTTATAT
1 TTTTATAT
57583624 ATTTTTTAAA
Statistics
Matches: 28, Mismatches: 2, Indels: 5
0.80 0.06 0.14
Matches are distributed among these distances:
24 3 0.11
25 21 0.75
26 4 0.14
ACGTcount: A:0.33, C:0.02, G:0.02, T:0.64
Consensus pattern (26 bp):
TTTTATATTACTATGTATATTAATTA
Found at i:57583735 original size:28 final size:30
Alignment explanation
Indices: 57583689--57583744 Score: 71
Period size: 28 Copynumber: 1.9 Consensus size: 30
57583679 TTTTTTATGC
* *
57583689 ATTATTTTATTCTAAATT-ATT-TTTTAAA
1 ATTACTTTATTATAAATTAATTCTTTTAAA
*
57583717 ATTACTTTATTATATATTAATTCTTTTA
1 ATTACTTTATTATAAATTAATTCTTTTA
57583745 TATTTTTTAT
Statistics
Matches: 23, Mismatches: 3, Indels: 2
0.82 0.11 0.07
Matches are distributed among these distances:
28 15 0.65
29 3 0.13
30 5 0.22
ACGTcount: A:0.34, C:0.05, G:0.00, T:0.61
Consensus pattern (30 bp):
ATTACTTTATTATAAATTAATTCTTTTAAA
Found at i:57585004 original size:26 final size:26
Alignment explanation
Indices: 57584930--57585041 Score: 143
Period size: 26 Copynumber: 4.2 Consensus size: 26
57584920 AAGAAAGCCT
* * *
57584930 AAAGAAAAGCATTTGTGGCTTAATAAG
1 AAAG-AAAGCCTTTGTGGCGTAATATG
* * * *
57584957 AAAGAAAAGTCATTGCGACGTAATATG
1 AAAG-AAAGCCTTTGTGGCGTAATATG
57584984 AAAGAAAGCCTTTGTGGCGTAATATG
1 AAAGAAAGCCTTTGTGGCGTAATATG
57585010 AAAGAAAGCCTTTGTGGCGTAATATG
1 AAAGAAAGCCTTTGTGGCGTAATATG
57585036 AAAGAA
1 AAAGAA
57585042 TGTCATTGTG
Statistics
Matches: 74, Mismatches: 11, Indels: 1
0.86 0.13 0.01
Matches are distributed among these distances:
26 50 0.68
27 24 0.32
ACGTcount: A:0.42, C:0.10, G:0.24, T:0.24
Consensus pattern (26 bp):
AAAGAAAGCCTTTGTGGCGTAATATG
Found at i:57585050 original size:26 final size:26
Alignment explanation
Indices: 57584942--57585053 Score: 134
Period size: 26 Copynumber: 4.3 Consensus size: 26
57584932 AGAAAAGCAT
* * *
57584942 TTGTGGCTTAATAAGAAAGAAAAGTCA
1 TTGTGGCGTAATATGAAAG-AAAGCCA
* * *
57584969 TTGCGACGTAATATGAAAGAAAGCCT
1 TTGTGGCGTAATATGAAAGAAAGCCA
*
57584995 TTGTGGCGTAATATGAAAGAAAGCCT
1 TTGTGGCGTAATATGAAAGAAAGCCA
* *
57585021 TTGTGGCGTAATATGAAAGAATGTCA
1 TTGTGGCGTAATATGAAAGAAAGCCA
57585047 TTGTGGC
1 TTGTGGC
57585054 AAACTTCGTA
Statistics
Matches: 74, Mismatches: 11, Indels: 1
0.86 0.13 0.01
Matches are distributed among these distances:
26 59 0.80
27 15 0.20
ACGTcount: A:0.36, C:0.11, G:0.26, T:0.28
Consensus pattern (26 bp):
TTGTGGCGTAATATGAAAGAAAGCCA
Found at i:57589983 original size:16 final size:16
Alignment explanation
Indices: 57589962--57590108 Score: 61
Period size: 16 Copynumber: 8.8 Consensus size: 16
57589952 TTTTATTTTC
57589962 AAATATATAAAATATA
1 AAATATATAAAATATA
*
57589978 AAATATATACAAT-TAA
1 AAATATATAAAATAT-A
*
57589994 AAATATATAGAAA-ACAA
1 AAATATATA-AAATA-TA
*
57590011 ATAATATTTTAAAAATATA
1 A-AATA-TAT-AAAATATA
*
57590030 AAAAAT-TACGAAATATA
1 AAATATATA--AAATATA
*
57590047 ATATATAT-AAATA-A
1 AAATATATAAAATATA
* * *
57590061 AAAAATCTAAAATTTTA
1 AAATATATAAAA-TATA
* *
57590078 TAAATCTATAAAAATGTA
1 -AAATATAT-AAAATATA
57590096 TAAATATATAAAA
1 -AAATATATAAAA
57590109 GAACTAAAAA
Statistics
Matches: 98, Mismatches: 17, Indels: 31
0.67 0.12 0.21
Matches are distributed among these distances:
14 6 0.06
15 10 0.10
16 24 0.24
17 21 0.21
18 24 0.24
19 11 0.11
20 2 0.02
ACGTcount: A:0.63, C:0.03, G:0.02, T:0.31
Consensus pattern (16 bp):
AAATATATAAAATATA
Found at i:57590100 original size:27 final size:27
Alignment explanation
Indices: 57590061--57590135 Score: 73
Period size: 27 Copynumber: 2.8 Consensus size: 27
57590051 ATATAAATAA
* *
57590061 AAAAATCTA-AAATTTTATAAATCTA-T
1 AAAAATCTATAAA-TTTATAAAACAACT
* * *
57590087 AAAAATGTATAAATATATAAAAGAACT
1 AAAAATCTATAAATTTATAAAACAACT
*
57590114 AAAAATTTATAAATTTATAAAA
1 AAAAATCTATAAATTTATAAAA
57590136 AAATATATAA
Statistics
Matches: 40, Mismatches: 7, Indels: 3
0.80 0.14 0.06
Matches are distributed among these distances:
26 16 0.40
27 24 0.60
ACGTcount: A:0.60, C:0.04, G:0.03, T:0.33
Consensus pattern (27 bp):
AAAAATCTATAAATTTATAAAACAACT
Found at i:57590139 original size:20 final size:20
Alignment explanation
Indices: 57590114--57590155 Score: 66
Period size: 20 Copynumber: 2.1 Consensus size: 20
57590104 TAAAAGAACT
* *
57590114 AAAAATTTATAAATTTATAA
1 AAAAATATATAAATATATAA
57590134 AAAAATATATAAATATATAA
1 AAAAATATATAAATATATAA
57590154 AA
1 AA
57590156 TAACTAAAAA
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
20 20 1.00
ACGTcount: A:0.67, C:0.00, G:0.00, T:0.33
Consensus pattern (20 bp):
AAAAATATATAAATATATAA
Found at i:57590155 original size:18 final size:18
Alignment explanation
Indices: 57589962--57590154 Score: 68
Period size: 18 Copynumber: 11.2 Consensus size: 18
57589952 TTTTATTTTC
57589962 AAATATAT-AAAATATA-
1 AAATATATAAAAATATAT
* *
57589978 AAATATAT-ACAAT-TAA
1 AAATATATAAAAATATAT
* *
57589994 AAATATATAGAAAACAAAT
1 AAATATATA-AAAATATAT
*
57590013 -AATATTTTAAAAATATA-
1 AAATA-TATAAAAATATAT
* **
57590030 AAAAAT-TACGAA-ATAT
1 AAATATATAAAAATATAT
*
57590046 -AATATATATAAATA-A-
1 AAATATATAAAAATATAT
* * * *
57590061 AAAAATCTAAAATTTTAT
1 AAATATATAAAAATATAT
* *
57590079 AAATCTATAAAAATGTAT
1 AAATATATAAAAATATAT
*
57590097 AAATATATAAAAGA-ACTAA
1 AAATATATAAAA-ATA-TAT
* ** *
57590116 AAATTTATAAATTTATAA
1 AAATATATAAAAATATAT
* *
57590134 AAAAATATATAAATATAT
1 AAATATATAAAAATATAT
57590152 AAA
1 AAA
57590155 ATAACTAAAA
Statistics
Matches: 126, Mismatches: 36, Indels: 28
0.66 0.19 0.15
Matches are distributed among these distances:
15 9 0.07
16 38 0.30
17 3 0.02
18 58 0.46
19 18 0.14
ACGTcount: A:0.63, C:0.03, G:0.02, T:0.32
Consensus pattern (18 bp):
AAATATATAAAAATATAT
Found at i:57590161 original size:47 final size:44
Alignment explanation
Indices: 57590049--57590165 Score: 148
Period size: 47 Copynumber: 2.6 Consensus size: 44
57590039 GAAATATAAT
* *
57590049 ATATATAAATA-A-AAAAATCTAAAATTTTATAAATCTATAAAA
1 ATATATAAATATATAAAAAACTAAAAATTTATAAATCTATAAAA
* *
57590091 ATGTATAAATATATAAAAGAACTAAAAATTTATAAATTTATAAAAAA
1 ATATATAAATATATAAAA-AACTAAAAATTTATAAATCTAT--AAAA
57590138 ATATATAAATATATAAAATAACTAAAAA
1 ATATATAAATATATAAAA-AACTAAAAA
57590166 ATACATCTAT
Statistics
Matches: 64, Mismatches: 6, Indels: 5
0.85 0.08 0.07
Matches are distributed among these distances:
42 10 0.16
43 1 0.02
44 4 0.06
45 19 0.30
47 30 0.47
ACGTcount: A:0.63, C:0.03, G:0.02, T:0.32
Consensus pattern (44 bp):
ATATATAAATATATAAAAAACTAAAAATTTATAAATCTATAAAA
Found at i:57591673 original size:50 final size:50
Alignment explanation
Indices: 57591598--57591700 Score: 206
Period size: 50 Copynumber: 2.1 Consensus size: 50
57591588 ATGATATTAG
57591598 GTTGTGTTTGTTCTAGGGAAATTGGTAAGAGTGGTTTTATGTTTTCACAA
1 GTTGTGTTTGTTCTAGGGAAATTGGTAAGAGTGGTTTTATGTTTTCACAA
57591648 GTTGTGTTTGTTCTAGGGAAATTGGTAAGAGTGGTTTTATGTTTTCACAA
1 GTTGTGTTTGTTCTAGGGAAATTGGTAAGAGTGGTTTTATGTTTTCACAA
57591698 GTT
1 GTT
57591701 TAAAGAGTAG
Statistics
Matches: 53, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
50 53 1.00
ACGTcount: A:0.21, C:0.06, G:0.28, T:0.45
Consensus pattern (50 bp):
GTTGTGTTTGTTCTAGGGAAATTGGTAAGAGTGGTTTTATGTTTTCACAA
Found at i:57597286 original size:19 final size:20
Alignment explanation
Indices: 57597249--57597289 Score: 57
Period size: 20 Copynumber: 2.1 Consensus size: 20
57597239 CAAATATTGA
*
57597249 TTTATATTTTATACCTTAAT
1 TTTAAATTTTATACCTTAAT
*
57597269 TTTAAATTTTA-ACTTTAAT
1 TTTAAATTTTATACCTTAAT
57597288 TT
1 TT
57597290 ACTTAAACTT
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
19 9 0.47
20 10 0.53
ACGTcount: A:0.32, C:0.07, G:0.00, T:0.61
Consensus pattern (20 bp):
TTTAAATTTTATACCTTAAT
Found at i:57607478 original size:15 final size:15
Alignment explanation
Indices: 57607458--57607489 Score: 64
Period size: 15 Copynumber: 2.1 Consensus size: 15
57607448 TTATTATATG
57607458 TGTACTATAATAAGT
1 TGTACTATAATAAGT
57607473 TGTACTATAATAAGT
1 TGTACTATAATAAGT
57607488 TG
1 TG
57607490 AATATTTGGT
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 17 1.00
ACGTcount: A:0.38, C:0.06, G:0.16, T:0.41
Consensus pattern (15 bp):
TGTACTATAATAAGT
Found at i:57607533 original size:3 final size:3
Alignment explanation
Indices: 57607525--57607561 Score: 74
Period size: 3 Copynumber: 12.3 Consensus size: 3
57607515 ATAGCATGAC
57607525 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA A
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA A
57607562 CTAGAAATTT
Statistics
Matches: 34, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 34 1.00
ACGTcount: A:0.68, C:0.00, G:0.00, T:0.32
Consensus pattern (3 bp):
ATA
Found at i:57608034 original size:3 final size:3
Alignment explanation
Indices: 57608026--57608052 Score: 54
Period size: 3 Copynumber: 9.0 Consensus size: 3
57608016 GTAAAACACT
57608026 TAA TAA TAA TAA TAA TAA TAA TAA TAA
1 TAA TAA TAA TAA TAA TAA TAA TAA TAA
57608053 CGACACGACT
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:0.67, C:0.00, G:0.00, T:0.33
Consensus pattern (3 bp):
TAA
Found at i:57608592 original size:21 final size:21
Alignment explanation
Indices: 57608568--57608611 Score: 79
Period size: 21 Copynumber: 2.1 Consensus size: 21
57608558 TCAATTGATT
57608568 CAACCCTTTTATTCATACTAA
1 CAACCCTTTTATTCATACTAA
*
57608589 CAACCCTTTTATTCATGCTAA
1 CAACCCTTTTATTCATACTAA
57608610 CA
1 CA
57608612 TACCAATCGA
Statistics
Matches: 22, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
21 22 1.00
ACGTcount: A:0.32, C:0.30, G:0.02, T:0.36
Consensus pattern (21 bp):
CAACCCTTTTATTCATACTAA
Found at i:57610156 original size:17 final size:17
Alignment explanation
Indices: 57610134--57610167 Score: 59
Period size: 17 Copynumber: 2.0 Consensus size: 17
57610124 GAAAAAATTG
*
57610134 TATAAAATTTTTAAAAA
1 TATAAAAATTTTAAAAA
57610151 TATAAAAATTTTAAAAA
1 TATAAAAATTTTAAAAA
57610168 GAATATATAA
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:0.62, C:0.00, G:0.00, T:0.38
Consensus pattern (17 bp):
TATAAAAATTTTAAAAA
Found at i:57618335 original size:30 final size:31
Alignment explanation
Indices: 57618301--57618369 Score: 79
Period size: 31 Copynumber: 2.3 Consensus size: 31
57618291 TTCAATCTTC
* *
57618301 AATCTTTC-AATATTCTC-TCAATTTCTCTCA
1 AATCTTTCAAAT-TTCTCTTAAATTCCTCTCA
*
57618331 AATCTCTCAAATTTCTCTTAAATTCCTCTCA
1 AATCTTTCAAATTTCTCTTAAATTCCTCTCA
*
57618362 AAACTTTC
1 AATCTTTC
57618370 GTTAATTTTT
Statistics
Matches: 32, Mismatches: 5, Indels: 3
0.80 0.12 0.08
Matches are distributed among these distances:
30 12 0.38
31 20 0.62
ACGTcount: A:0.29, C:0.28, G:0.00, T:0.43
Consensus pattern (31 bp):
AATCTTTCAAATTTCTCTTAAATTCCTCTCA
Found at i:57618338 original size:11 final size:10
Alignment explanation
Indices: 57618307--57618363 Score: 62
Period size: 11 Copynumber: 5.5 Consensus size: 10
57618297 CTTCAATCTT
57618307 TCAATATTCTC
1 TCAA-ATTCTC
*
57618318 TCAATTTCTC
1 TCAAATTCTC
57618328 TCAAA-TCTC
1 TCAAATTCTC
57618337 TCAAATTTCTC
1 TCAAA-TTCTC
*
57618348 TTAAATTCCTC
1 TCAAATT-CTC
57618359 TCAAA
1 TCAAA
57618364 ACTTTCGTTA
Statistics
Matches: 39, Mismatches: 4, Indels: 6
0.80 0.08 0.12
Matches are distributed among these distances:
9 9 0.23
10 11 0.28
11 19 0.49
ACGTcount: A:0.30, C:0.28, G:0.00, T:0.42
Consensus pattern (10 bp):
TCAAATTCTC
Found at i:57618345 original size:20 final size:21
Alignment explanation
Indices: 57618307--57618363 Score: 73
Period size: 20 Copynumber: 2.7 Consensus size: 21
57618297 CTTCAATCTT
57618307 TCAATATTCTCTC-AATTTCTC
1 TCAA-ATTCTCTCAAATTTCTC
57618328 TCAAA-TCTCTCAAATTTCTC
1 TCAAATTCTCTCAAATTTCTC
*
57618348 TTAAATTCCTCTCAAA
1 TCAAATT-CTCTCAAA
57618364 ACTTTCGTTA
Statistics
Matches: 32, Mismatches: 1, Indels: 5
0.84 0.03 0.13
Matches are distributed among these distances:
19 6 0.19
20 13 0.41
21 5 0.16
22 8 0.25
ACGTcount: A:0.30, C:0.28, G:0.00, T:0.42
Consensus pattern (21 bp):
TCAAATTCTCTCAAATTTCTC
Found at i:57618419 original size:16 final size:15
Alignment explanation
Indices: 57618390--57618420 Score: 53
Period size: 15 Copynumber: 2.1 Consensus size: 15
57618380 TCAAAAAAGC
*
57618390 TCTAATTTTATTTTT
1 TCTAAATTTATTTTT
57618405 TCTAAATTTATTTTT
1 TCTAAATTTATTTTT
57618420 T
1 T
57618421 AAAATAAAAA
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
15 15 1.00
ACGTcount: A:0.23, C:0.06, G:0.00, T:0.71
Consensus pattern (15 bp):
TCTAAATTTATTTTT
Found at i:57622062 original size:126 final size:126
Alignment explanation
Indices: 57621516--57622054 Score: 810
Period size: 126 Copynumber: 4.3 Consensus size: 126
57621506 GCCCAAGTTA
*
57621516 TTTCAGAAACCACTGTAGCAAAAGAGCGTCCACGTGGGAGCTTCTTTCAGTACTTTTGCTGAAAA
1 TTTCAGAGACCACTGTAGCAAAAGAGCGTCCACGTGGGAGCTTCTTTCAGTACTTTTGCTGAAAA
*
57621581 TGCATCCTGCTTGAAGCGTTTTTGACACTATTTATGCAGACACGTCTTCTCAAAATTATTT
66 TGCATCCTGCTTGAAGCGTTTTTGACACTATTTACGCAGACACGTCTTCTCAAAATTATTT
* * * *
57621642 TTTCAGAGACCACTGTAGCAAAAGAGCATCCACGTGGGAGCTTCTTCCAGTAATTTTGCTAAAAA
1 TTTCAGAGACCACTGTAGCAAAAGAGCGTCCACGTGGGAGCTTCTTTCAGTACTTTTGCTGAAAA
* * *
57621707 TGCATCCTACTTGAAGCGTTTTT-ACCATTATTTGCGCAGACACGTCTTCTCAAAATTATTT
66 TGCATCCTGCTTGAAGCGTTTTTGA-CACTATTTACGCAGACACGTCTTCTCAAAATTATTT
* * *
57621768 TTTCAGAGACCACTGTAGCAAAAGAGCATCCGCGTGGGAGCTTCTTTCAGTACTTTTGCTGACAA
1 TTTCAGAGACCACTGTAGCAAAAGAGCGTCCACGTGGGAGCTTCTTTCAGTACTTTTGCTGAAAA
* * * * *
57621833 TACATCCTGCTTGAAGCGTTTTTTACACTATTTGCACAGACACATCTTCTCAAAATTATTT
66 TGCATCCTGCTTGAAGCGTTTTTGACACTATTTACGCAGACACGTCTTCTCAAAATTATTT
* * * ** *
57621894 TTTCAGATACTACTGTAGCAAAAGAGGGTCCACGTGGGAGCTTCTTTTGGTACTTTTGCTGACAA
1 TTTCAGAGACCACTGTAGCAAAAGAGCGTCCACGTGGGAGCTTCTTTCAGTACTTTTGCTGAAAA
* *
57621959 TGCATCCTGCTTGAAGCGTTTTTGACACTATTTATGCAGACACGTCTTCTCAAATTTATTT
66 TGCATCCTGCTTGAAGCGTTTTTGACACTATTTACGCAGACACGTCTTCTCAAAATTATTT
* * *
57622020 TATCAGAGACTACCGTAGCAAAAGAGCGTCCACGT
1 TTTCAGAGACCACTGTAGCAAAAGAGCGTCCACGT
57622055 AGAAGCTTTT
Statistics
Matches: 374, Mismatches: 37, Indels: 4
0.90 0.09 0.01
Matches are distributed among these distances:
125 1 0.00
126 372 0.99
127 1 0.00
ACGTcount: A:0.27, C:0.22, G:0.18, T:0.33
Consensus pattern (126 bp):
TTTCAGAGACCACTGTAGCAAAAGAGCGTCCACGTGGGAGCTTCTTTCAGTACTTTTGCTGAAAA
TGCATCCTGCTTGAAGCGTTTTTGACACTATTTACGCAGACACGTCTTCTCAAAATTATTT
Found at i:57622158 original size:15 final size:15
Alignment explanation
Indices: 57622138--57622167 Score: 51
Period size: 15 Copynumber: 2.0 Consensus size: 15
57622128 TTTCTTAAAT
57622138 ACCCTAAAACCCTAA
1 ACCCTAAAACCCTAA
*
57622153 ACCCTAAAATCCTAA
1 ACCCTAAAACCCTAA
57622168 TCTAATTTTT
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
15 14 1.00
ACGTcount: A:0.47, C:0.37, G:0.00, T:0.17
Consensus pattern (15 bp):
ACCCTAAAACCCTAA
Found at i:57622341 original size:96 final size:97
Alignment explanation
Indices: 57622142--57622347 Score: 265
Period size: 96 Copynumber: 2.1 Consensus size: 97
57622132 TTAAATACCC
* * * **
57622142 TAAAACCCTAAACCCTAAAATCCTAATCTAATTTTTTTAAAATTTATAATTAATTTACTCAAGTA
1 TAAAACCCTAAACACTAAAATCATAATCTAATTTTTTTAAAATTTATAATTAATTTAATCAACAA
* * *
57622207 ACCCTAAACCTTAATTTATTTGATTTTTTCCT
66 ACACTAAACCCTAATTTATTTAATTTTTTCCT
* * *
57622239 TAAAAACCATAAACACTAAACT-ATAATCTAA-TTTTTTAAAA-TTAGTAATTAATTTAATTAAC
1 T-AAAACCCTAAACACTAAAATCATAATCTAATTTTTTTAAAATTTA-TAATTAATTTAATCAAC
57622301 AAACACTAAACCCTAATTTATTTAATTTTTTTCCT
64 AAACACTAAACCCTAATTTATTTAA-TTTTTTCCT
57622336 TAAAACCCTAAA
1 TAAAACCCTAAA
57622348 ATTTAAAAAT
Statistics
Matches: 94, Mismatches: 12, Indels: 7
0.83 0.11 0.06
Matches are distributed among these distances:
95 3 0.03
96 55 0.59
97 19 0.20
98 17 0.18
ACGTcount: A:0.42, C:0.17, G:0.01, T:0.40
Consensus pattern (97 bp):
TAAAACCCTAAACACTAAAATCATAATCTAATTTTTTTAAAATTTATAATTAATTTAATCAACAA
ACACTAAACCCTAATTTATTTAATTTTTTCCT
Found at i:57622498 original size:40 final size:41
Alignment explanation
Indices: 57622423--57622520 Score: 103
Period size: 40 Copynumber: 2.4 Consensus size: 41
57622413 GAAAACGCTT
*
57622423 CCTCAAGGAAGCG-TTT-TGGCTACGTAGACAGAAAGCGCGC
1 CCTCAAGGAAGCGTTTTCTGGCCACGTAGACA-AAAGCGCGC
* * **
57622463 CCTCAAGGAAGCGTTTTCTGTCCACGTAGGC-AAAGCGCTT
1 CCTCAAGGAAGCGTTTTCTGGCCACGTAGACAAAAGCGCGC
**
57622503 CCTTGAGGAAGCGTTTTC
1 CCTCAAGGAAGCGTTTTC
57622521 CTGCTTTTTC
Statistics
Matches: 49, Mismatches: 7, Indels: 4
0.82 0.12 0.07
Matches are distributed among these distances:
40 36 0.73
41 3 0.06
42 10 0.20
ACGTcount: A:0.23, C:0.26, G:0.28, T:0.23
Consensus pattern (41 bp):
CCTCAAGGAAGCGTTTTCTGGCCACGTAGACAAAAGCGCGC
Found at i:57622984 original size:28 final size:28
Alignment explanation
Indices: 57622953--57623010 Score: 82
Period size: 28 Copynumber: 2.1 Consensus size: 28
57622943 AATTAAACAC
*
57622953 CCTATTAAACCGA-CCACTAACTCCATCA
1 CCTACTAAACC-ATCCACTAACTCCATCA
*
57622981 CCTACTAAACCATCCACTACCTCCATCA
1 CCTACTAAACCATCCACTAACTCCATCA
57623009 CC
1 CC
57623011 CCCACACCCT
Statistics
Matches: 27, Mismatches: 2, Indels: 2
0.87 0.06 0.06
Matches are distributed among these distances:
27 1 0.04
28 26 0.96
ACGTcount: A:0.33, C:0.45, G:0.02, T:0.21
Consensus pattern (28 bp):
CCTACTAAACCATCCACTAACTCCATCA
Found at i:57623002 original size:19 final size:19
Alignment explanation
Indices: 57622980--57623039 Score: 54
Period size: 19 Copynumber: 3.2 Consensus size: 19
57622970 TAACTCCATC
57622980 ACCTACTAAACCATCCACT
1 ACCTACTAAACCATCCACT
* * *
57622999 ACCT-CCATCACC-CCCAC-
1 ACCTACTA-AACCATCCACT
57623016 ACCCTACTAAACCATCCACT
1 A-CCTACTAAACCATCCACT
57623036 ACCT
1 ACCT
57623040 TCATCACCCC
Statistics
Matches: 30, Mismatches: 6, Indels: 10
0.65 0.13 0.22
Matches are distributed among these distances:
17 1 0.03
18 12 0.40
19 16 0.53
20 1 0.03
ACGTcount: A:0.32, C:0.50, G:0.00, T:0.18
Consensus pattern (19 bp):
ACCTACTAAACCATCCACT
Found at i:57623466 original size:8 final size:8
Alignment explanation
Indices: 57623453--57623488 Score: 51
Period size: 7 Copynumber: 4.9 Consensus size: 8
57623443 GTTATGTTTC
57623453 ATATTATT
1 ATATTATT
57623461 ATATTATT
1 ATATTATT
57623469 -TATTATT
1 ATATTATT
57623476 ATA-TATT
1 ATATTATT
57623483 -TATTAT
1 ATATTAT
57623489 GTAAATATAT
Statistics
Matches: 26, Mismatches: 0, Indels: 5
0.84 0.00 0.16
Matches are distributed among these distances:
6 2 0.08
7 14 0.54
8 10 0.38
ACGTcount: A:0.36, C:0.00, G:0.00, T:0.64
Consensus pattern (8 bp):
ATATTATT
Found at i:57623483 original size:63 final size:62
Alignment explanation
Indices: 57623346--57623465 Score: 147
Period size: 62 Copynumber: 2.0 Consensus size: 62
57623336 CCTTTTTTTA
* * *
57623346 TTTTTGTTATTTTACTGTTAAATTAATCAATTTGAGCTTTATTCTCATTATTTTTATATTTGT
1 TTTTTATTATTTTACTATTAAATTAATCAATTTGAGC-TTATTCTCATTATTATTATATTTGT
* * *
57623409 TTTTTATTATTTT-CTATTAATTTAATTAATTTGAG-TTATGTTTCA-TATTATTATATT
1 TTTTTATTATTTTACTATTAAATTAATCAATTTGAGCTTAT-TCTCATTATTATTATATT
57623466 ATTTATTATT
Statistics
Matches: 50, Mismatches: 6, Indels: 5
0.82 0.10 0.08
Matches are distributed among these distances:
60 15 0.30
61 4 0.08
62 19 0.38
63 12 0.24
ACGTcount: A:0.26, C:0.06, G:0.07, T:0.62
Consensus pattern (62 bp):
TTTTTATTATTTTACTATTAAATTAATCAATTTGAGCTTATTCTCATTATTATTATATTTGT
Found at i:57623498 original size:17 final size:14
Alignment explanation
Indices: 57623454--57623488 Score: 61
Period size: 14 Copynumber: 2.4 Consensus size: 14
57623444 TTATGTTTCA
57623454 TATTATTATATTATT
1 TATTATTATA-TATT
57623469 TATTATTATATATT
1 TATTATTATATATT
57623483 TATTAT
1 TATTAT
57623489 GTAAATATAT
Statistics
Matches: 20, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
14 10 0.50
15 10 0.50
ACGTcount: A:0.34, C:0.00, G:0.00, T:0.66
Consensus pattern (14 bp):
TATTATTATATATT
Found at i:57624783 original size:11 final size:11
Alignment explanation
Indices: 57624753--57624785 Score: 50
Period size: 11 Copynumber: 3.1 Consensus size: 11
57624743 TTGATATGTT
57624753 AATGAAGAGAA
1 AATGAAGAGAA
57624764 AAT-AAGAGAA
1 AATGAAGAGAA
*
57624774 AGTGAAGAGAA
1 AATGAAGAGAA
57624785 A
1 A
57624786 TAGTGTAGAA
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
10 9 0.45
11 11 0.55
ACGTcount: A:0.64, C:0.00, G:0.27, T:0.09
Consensus pattern (11 bp):
AATGAAGAGAA
Found at i:57627826 original size:126 final size:126
Alignment explanation
Indices: 57627601--57627844 Score: 416
Period size: 126 Copynumber: 1.9 Consensus size: 126
57627591 CATTGATCTT
* * *
57627601 CTCTCAAAATTTTTCAAAATAAAGGCAATGTTCGGTATTAAAAGAATTCGAAGAATCGTGCCCTA
1 CTCTCAAAAATTTTCAAAATAAAGGCAATGTTCGATATTAAAAGAATTCGAAAAATCGTGCCCTA
*
57627666 ATGTACTGGGTTTCGCTTTCTTTGTTTGTCTTGAATATTCGAATATCCTCTTACCAGTTCA
66 ACGTACTGGGTTTCGCTTTCTTTGTTTGTCTTGAATATTCGAATATCCTCTTACCAGTTCA
*
57627727 CTCTCAAAAATTTTCAAAATAAAGGCAATGTTCGATATTTAAAGAATTCGAAAAATCGTGCCCTA
1 CTCTCAAAAATTTTCAAAATAAAGGCAATGTTCGATATTAAAAGAATTCGAAAAATCGTGCCCTA
* * *
57627792 ACGTACTGGGTTTCGGTTTCTTTGTTTGTTTTGAATATTTGAATATCCTCTTA
66 ACGTACTGGGTTTCGCTTTCTTTGTTTGTCTTGAATATTCGAATATCCTCTTA
57627845 AGGCTAAAAC
Statistics
Matches: 110, Mismatches: 8, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
126 110 1.00
ACGTcount: A:0.30, C:0.17, G:0.16, T:0.38
Consensus pattern (126 bp):
CTCTCAAAAATTTTCAAAATAAAGGCAATGTTCGATATTAAAAGAATTCGAAAAATCGTGCCCTA
ACGTACTGGGTTTCGCTTTCTTTGTTTGTCTTGAATATTCGAATATCCTCTTACCAGTTCA
Found at i:57629453 original size:21 final size:21
Alignment explanation
Indices: 57629409--57629453 Score: 56
Period size: 21 Copynumber: 2.1 Consensus size: 21
57629399 AAGGGATAAG
* *
57629409 ATGCTGGAATCCCAGAGAAGC
1 ATGCTAGAATCCCAGAGAAAC
57629430 ATGCTAGAATCCCAGA-ACAAC
1 ATGCTAGAATCCCAGAGA-AAC
57629451 ATG
1 ATG
57629454 ATAAGTCAGC
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
20 1 0.05
21 20 0.95
ACGTcount: A:0.38, C:0.24, G:0.22, T:0.16
Consensus pattern (21 bp):
ATGCTAGAATCCCAGAGAAAC
Found at i:57631136 original size:91 final size:91
Alignment explanation
Indices: 57630981--57631161 Score: 353
Period size: 91 Copynumber: 2.0 Consensus size: 91
57630971 AGCCTAGAGG
*
57630981 CAATAAGAATCCTTTTGTGAAATAGGCTTATGTCTAGCGTCTTTATTTCAATGAAATACATTCTT
1 CAATAAAAATCCTTTTGTGAAATAGGCTTATGTCTAGCGTCTTTATTTCAATGAAATACATTCTT
57631046 TTGTTTCTTATTTCAAACATCTGTTA
66 TTGTTTCTTATTTCAAACATCTGTTA
57631072 CAATAAAAATCCTTTTGTGAAATAGGCTTATGTCTAGCGTCTTTATTTCAATGAAATACATTCTT
1 CAATAAAAATCCTTTTGTGAAATAGGCTTATGTCTAGCGTCTTTATTTCAATGAAATACATTCTT
57631137 TTGTTTCTTATTTCAAACATCTGTT
66 TTGTTTCTTATTTCAAACATCTGTT
57631162 CTTTACCATT
Statistics
Matches: 89, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
91 89 1.00
ACGTcount: A:0.29, C:0.15, G:0.12, T:0.44
Consensus pattern (91 bp):
CAATAAAAATCCTTTTGTGAAATAGGCTTATGTCTAGCGTCTTTATTTCAATGAAATACATTCTT
TTGTTTCTTATTTCAAACATCTGTTA
Found at i:57632148 original size:13 final size:13
Alignment explanation
Indices: 57632132--57632180 Score: 59
Period size: 13 Copynumber: 3.8 Consensus size: 13
57632122 TTTCAAAAAA
57632132 AAAGAGAAAAAGG
1 AAAGAGAAAAAGG
57632145 AAAGAGAAAAAAGG
1 AAAGAG-AAAAAGG
57632159 AAA-AGGAAAAA-G
1 AAAGA-GAAAAAGG
57632171 -AAGAGAAAAA
1 AAAGAGAAAAA
57632181 CAAAAAAGAG
Statistics
Matches: 33, Mismatches: 0, Indels: 8
0.80 0.00 0.20
Matches are distributed among these distances:
11 8 0.24
12 2 0.06
13 12 0.36
14 11 0.33
ACGTcount: A:0.73, C:0.00, G:0.27, T:0.00
Consensus pattern (13 bp):
AAAGAGAAAAAGG
Found at i:57633592 original size:46 final size:46
Alignment explanation
Indices: 57633519--57633772 Score: 159
Period size: 46 Copynumber: 5.7 Consensus size: 46
57633509 GATCTCATCC
**
57633519 CACTG-GCAGGAGTGGAATAGATCAAATTTCGACAGATCTTATCTT
1 CACTGAGCAGGAGTGGAGCAGATCAAATTTCGACAGATCTTATCTT
* * * * * * *
57633564 CGCTGAGCAGGAGTGGAGCAGATTAAATTTTGGCAAATCTTACCTC
1 CACTGAGCAGGAGTGGAGCAGATCAAATTTCGACAGATCTTATCTT
* * *** * * *
57633610 CA-TGTATC-GGCAATGGAGCAGATTTCA--GCCACCAG-CCTTATCTT
1 CACTG-AGCAGG-AGTGGAGCAGATCAAATTTCGA-CAGATCTTATCTT
* * * * * *
57633654 CACTGAGCAGGAGTGAAGCAG-GCTAAATATAG-CAGATCTCATC-C
1 CACTGAGCAGGAGTGGAGCAGATC-AAATTTCGACAGATCTTATCTT
* * *
57633698 CATTG-GCTGGAGTGGAACAGATCAAATTTCGACAGATCTTATCTT
1 CACTGAGCAGGAGTGGAGCAGATCAAATTTCGACAGATCTTATCTT
*
57633743 CGCTGAGCAGGAGTGGAGCAGATCAAATTT
1 CACTGAGCAGGAGTGGAGCAGATCAAATTT
57633773 TGGCGAATCT
Statistics
Matches: 147, Mismatches: 48, Indels: 27
0.66 0.22 0.12
Matches are distributed among these distances:
43 18 0.12
44 37 0.25
45 22 0.15
46 70 0.48
ACGTcount: A:0.30, C:0.20, G:0.24, T:0.26
Consensus pattern (46 bp):
CACTGAGCAGGAGTGGAGCAGATCAAATTTCGACAGATCTTATCTT
Found at i:57633763 original size:89 final size:88
Alignment explanation
Indices: 57633477--57633763 Score: 283
Period size: 89 Copynumber: 3.2 Consensus size: 88
57633467 CCTTATCCCA
* * * *
57633477 CTGAGGAGGAGTGGAACAGGCTAAATATAGCAGATCTCATCCCACTGGCAGGAGTGGAATAGATC
1 CTGAGCAGGAGTGGAGCAGGCTAAATATAGCAGATCTCATCCCA-TGGCTGGAGTGGAACAGATC
57633542 AAATTTCGACAGATCTTATCTTCG
65 AAATTTCGACAGATCTTATCTTCG
** * * * * * ** * *
57633566 CTGAGCAGGAGTGGAGCAGATTAAATTTTGGCAAATCTTACCTCCATGTATCGGCAATGGAGCAG
1 CTGAGCAGGAGTGGAGCAGGCTAAA-TATAGCAGATCTCATC-CCATGGCT-GG-AGTGGAACAG
*** * * * *
57633631 ATTTCA--GCCACCAG-CCTTATCTTCA
62 ATCAAATTTCGA-CAGATCTTATCTTCG
*
57633656 CTGAGCAGGAGTGAAGCAGGCTAAATATAGCAGATCTCATCCCATTGGCTGGAGTGGAACAGATC
1 CTGAGCAGGAGTGGAGCAGGCTAAATATAGCAGATCTCATCCCA-TGGCTGGAGTGGAACAGATC
57633721 AAATTTCGACAGATCTTATCTTCG
65 AAATTTCGACAGATCTTATCTTCG
57633745 CTGAGCAGGAGTGGAGCAG
1 CTGAGCAGGAGTGGAGCAG
57633764 ATCAAATTTT
Statistics
Matches: 147, Mismatches: 42, Indels: 18
0.71 0.20 0.09
Matches are distributed among these distances:
87 11 0.07
88 8 0.05
89 64 0.44
90 46 0.31
91 8 0.05
92 10 0.07
ACGTcount: A:0.30, C:0.21, G:0.26, T:0.24
Consensus pattern (88 bp):
CTGAGCAGGAGTGGAGCAGGCTAAATATAGCAGATCTCATCCCATGGCTGGAGTGGAACAGATCA
AATTTCGACAGATCTTATCTTCG
Found at i:57633775 original size:179 final size:178
Alignment explanation
Indices: 57633463--57633915 Score: 712
Period size: 179 Copynumber: 2.5 Consensus size: 178
57633453 CAGATTTCGG
*
57633463 CAAGCCTTATCCCACTGAGGAGGAGTGGAACAGGCTAAATATAGCAGATCTCATCCCACTGGCAG
1 CAAGCCTTATCCCACTGAGCAGGAGTGGAACAGGCTAAATATAGCAGATCTCATCCCACTGGCAG
* *
57633528 GAGTGGAATAGATCAAATTTCGACAGATCTTATCTTCGCTGAGCAGGAGTGGAGCAGATTAAATT
66 GAGTGGAACAGATCAAATTTCGACAGATCTTATCTTCGCTGAGCAGGAGTGGAGCAGATCAAATT
57633593 TTGGCAAATCTTACCTCCATGTATCGGCAATGGAGCAGATTTCAGCCA
131 TTGGCAAATCTTACCTCCATGTATCGGCAATGGAGCAGATTTCAGCCA
* * *
57633641 CCAGCCTTATCTTCACTGAGCAGGAGT-GAAGCAGGCTAAATATAGCAGATCTCATCCCATTGGC
1 CAAGCCTTATC-CCACTGAGCAGGAGTGGAA-CAGGCTAAATATAGCAGATCTCATCCCACTGGC
*
57633705 TGGAGTGGAACAGATCAAATTTCGACAGATCTTATCTTCGCTGAGCAGGAGTGGAGCAGATCAAA
64 AGGAGTGGAACAGATCAAATTTCGACAGATCTTATCTTCGCTGAGCAGGAGTGGAGCAGATCAAA
* * **
57633770 TTTTGGCGAATCTTATCTCCATGTATCGGCTCTGGAGCAGATTTCAGCCA
129 TTTTGGCAAATCTTACCTCCATGTATCGGCAATGGAGCAGATTTCAGCCA
* * **
57633820 GAAACCTTATCCCACTGAGCAGGAGTGGAACAGATTACAA-ATAGCAGATCTCATCCCACTGGCA
1 CAAGCCTTATCCCACTGAGCAGGAGTGGAACAGGCTA-AATATAGCAGATCTCATCCCACTGGCA
* *
57633884 GGAGTGGAACAGATCAAATTTCAACGGATCTT
65 GGAGTGGAACAGATCAAATTTCGACAGATCTT
57633916 GTCTCCATGT
Statistics
Matches: 250, Mismatches: 21, Indels: 8
0.90 0.08 0.03
Matches are distributed among these distances:
178 84 0.34
179 166 0.66
ACGTcount: A:0.30, C:0.22, G:0.24, T:0.24
Consensus pattern (178 bp):
CAAGCCTTATCCCACTGAGCAGGAGTGGAACAGGCTAAATATAGCAGATCTCATCCCACTGGCAG
GAGTGGAACAGATCAAATTTCGACAGATCTTATCTTCGCTGAGCAGGAGTGGAGCAGATCAAATT
TTGGCAAATCTTACCTCCATGTATCGGCAATGGAGCAGATTTCAGCCA
Found at i:57633915 original size:132 final size:131
Alignment explanation
Indices: 57633749--57634256 Score: 544
Period size: 132 Copynumber: 3.8 Consensus size: 131
57633739 TCTTCGCTGA
* *** **
57633749 GCAGGAGTGGAGCAGATCAAATTTTGGCGAATCTTATCTCCATGTATCGGCTCTGGAGCAGATTT
1 GCAGGAGTGGAACAGATCAAATTTCAACGAATCTTATCTCCATGTATCGGCAATGGAGCAGATTT
** ** **
57633814 CAGCCAGAAACCTTATCCCACTGAGCAGGAGTGGAACAGATTACAAATAGCAGATCTCATCCCAC
66 CAGCCACCAGTCTTATCCCACTGAGCAGGAGTGGAACAGGCTA-AAATAGCAGATCTCATCCCAC
57633879 TG
130 TG
* *
57633881 GCAGGAGTGGAACAGATCAAATTTCAACGGATCTTGTCTCCATGTATCGGCAATGGAGCAGATTT
1 GCAGGAGTGGAACAGATCAAATTTCAACGAATCTTATCTCCATGTATCGGCAATGGAGCAGATTT
* * * * *
57633946 CAGCCACCAGTCTTATCTTCACTGAGCAGGAGTGGAGCAGGCTAAACT--CTAGATCTTATCTTC
66 CAGCCACCAGTCTTATC-CCACTGAGCAGGAGTGGAACAGGCTAAAATAGC-AGATCTCATC-CC
**
57634009 GTTG
128 ACTG
* * * *
57634013 AGCAGGAGTGGAGCAGATCAAAATTT-GACGAATCTTATCTCTATGTATTGGCAATGGAGCAGA-
1 -GCAGGAGTGGAACAGATC-AAATTTCAACGAATCTTATCTCCATGTATCGGCAATGGAGCAGAT
* * *
57634076 TTCAAACCATCAGTGTTATCCCACTGAGCAGGAGTGGAACAGGCTAAATATAGCAGATCTCATCC
64 TTC-AGCCACCAGTCTTATCCCACTGAGCAGGAGTGGAACAGGCTAAA-ATAGCAGATCTCATCC
57634141 CACTG
127 CACTG
* * *
57634146 GCAGGAGTGGAACAGATCAAATTTCAGCCG-ATCTTATCTCCATGTATTGGCAATGGAACAGA-T
1 GCAGGAGTGGAACAGATCAAATTTCA-ACGAATCTTATCTCCATGTATCGGCAATGGAGCAGATT
* * * * *
57634209 TCAAACCACCAGTCTTAACCCCCTAAGCAGTAG-GGTAACAGGCTAAAA
65 TC-AGCCACCAGTCTTATCCCACTGAGCAGGAGTGG-AACAGGCTAAAA
57634257 ACTACAGATC
Statistics
Matches: 316, Mismatches: 48, Indels: 25
0.81 0.12 0.06
Matches are distributed among these distances:
130 1 0.00
131 18 0.06
132 191 0.60
133 90 0.28
134 15 0.05
135 1 0.00
ACGTcount: A:0.31, C:0.22, G:0.23, T:0.24
Consensus pattern (131 bp):
GCAGGAGTGGAACAGATCAAATTTCAACGAATCTTATCTCCATGTATCGGCAATGGAGCAGATTT
CAGCCACCAGTCTTATCCCACTGAGCAGGAGTGGAACAGGCTAAAATAGCAGATCTCATCCCACT
G
Found at i:57634073 original size:265 final size:265
Alignment explanation
Indices: 57633731--57634225 Score: 753
Period size: 265 Copynumber: 1.9 Consensus size: 265
57633721 AAATTTCGAC
* *
57633731 AGATCTTATCTTCGCTGAGCAGGAGTGGAGCAGATCAAATTTTGGCGAATCTTATCTCCATGTAT
1 AGATCTTATCTTCGCTGAGCAGGAGTGGAGCAGATCAAAATTTGACGAATCTTATCTCCATGTAT
** * *
57633796 CGGCTCTGGAGCAGATTTC-AGCCAGAAACCTTATCCCACTGAGCAGGAGTGGAACAGATTACAA
66 CGGCAATGGAGCAGA-TTCAAACCAGAAACCTTATCCCACTGAGCAGGAGTGGAACAGACTA-AA
* *
57633860 -ATAGCAGATCTCATCCCACTGGCAGGAGTGGAACAGATCAAATTTCAACGGATCTTGTCTCCAT
129 TATAGCAGATCTCATCCCACTGGCAGGAGTGGAACAGATCAAATTTCAACCGATCTTATCTCCAT
* *
57633924 GTATCGGCAATGGAGCAGATTTC-AGCCACCAGTCTTATCTTCACTGAGCAGGAGTGGAGCAGGC
194 GTATCGGCAATGGAACAGA-TTCAAACCACCAGTCTTATCTTCACTGAGCAGGAGTGGAGCAGGC
57633988 TAAACTCT
258 TAAACTCT
* *
57633996 AGATCTTATCTTCGTTGAGCAGGAGTGGAGCAGATCAAAATTTGACGAATCTTATCTCTATGTAT
1 AGATCTTATCTTCGCTGAGCAGGAGTGGAGCAGATCAAAATTTGACGAATCTTATCTCCATGTAT
* ** *** *
57634061 TGGCAATGGAGCAGATTCAAACCATCAGTGTTATCCCACTGAGCAGGAGTGGAACAGGCTAAATA
66 CGGCAATGGAGCAGATTCAAACCAGAAACCTTATCCCACTGAGCAGGAGTGGAACAGACTAAATA
*
57634126 TAGCAGATCTCATCCCACTGGCAGGAGTGGAACAGATCAAATTTCAGCCGATCTTATCTCCATGT
131 TAGCAGATCTCATCCCACTGGCAGGAGTGGAACAGATCAAATTTCAACCGATCTTATCTCCATGT
*
57634191 ATTGGCAATGGAACAGATTCAAACCACCAGTCTTA
196 ATCGGCAATGGAACAGATTCAAACCACCAGTCTTA
57634226 ACCCCCTAAG
Statistics
Matches: 206, Mismatches: 21, Indels: 6
0.88 0.09 0.03
Matches are distributed among these distances:
264 8 0.04
265 198 0.96
ACGTcount: A:0.30, C:0.22, G:0.23, T:0.25
Consensus pattern (265 bp):
AGATCTTATCTTCGCTGAGCAGGAGTGGAGCAGATCAAAATTTGACGAATCTTATCTCCATGTAT
CGGCAATGGAGCAGATTCAAACCAGAAACCTTATCCCACTGAGCAGGAGTGGAACAGACTAAATA
TAGCAGATCTCATCCCACTGGCAGGAGTGGAACAGATCAAATTTCAACCGATCTTATCTCCATGT
ATCGGCAATGGAACAGATTCAAACCACCAGTCTTATCTTCACTGAGCAGGAGTGGAGCAGGCTAA
ACTCT
Found at i:57634208 original size:311 final size:306
Alignment explanation
Indices: 57633468--57634189 Score: 693
Period size: 311 Copynumber: 2.3 Consensus size: 306
57633458 TTCGGCAAGC
*
57633468 CTTATCCCACTGAGGAGGAGTGGAACAGGCTAAATATAGCAGATCTCATCCCACTGGCAGGAGTG
1 CTTATCCCACTGAGCAGGAGTGGAACAGGCTAAATATAGCAGATCTCATCCCACTGGCAGGAGTG
* * * **
57633533 GAATAGATCAAATTTC-GACAGATCTTATCTTCGC-TGAGCAGGAGTGGAGCAGATTAAATTTTG
66 GAACAGATCAAATTTCAG-CAGATCTTATC-TC-CAT--G-AGGAGTGGAACAGATCAAATTTCA
*
57633596 GCAAATCTTACCTCCATGTATCGGCAATGGAGCAGATTTCAGCCACCAGCCTTATCTTCACTGAG
125 ACAAATCTTACCTCCATGTATCGGCAATGGAGCAGATTTCAGCCACCAGCCTTATCTTCACTGAG
*
57633661 CAGGAGTGAAGCAGGCTAAATATAGCAGATCTCATCCCATTGGCTGGAGTGGAACAGATCAAATT
190 CAGGAGTGAAGCAGGCTAAATATA--AGATCTCATCCCATTGGCAGGAGTGGAACAGATCAAATT
* * ***
57633726 TCGACAGATCTTATCTTCGCTGAGCAGGAGTGGAGCAGATCAAATTTTGGCGAAT
253 TCGACAGATCTTATCTTCGATGAGCAGGAATGGAGCAGATCAAACCAT-GCGAAT
* ** * ** ** *** * * *
57633781 CTTATCTCCA-TGTATC-GGCTCTGGAGCAGATTTCAGCCAG-AAACCTTATCCCACTGAGCAGG
1 CTTATC-CCACTG-AGCAGG-AGTGGAACAGGCTAAATATAGCAGATCTCATCCCACTG-GCAGG
*
57633843 AGTGGAACAGATTACAAA--T-AGCAGATCTCATC-CCACTGGCAGGAGTGGAACAGATCAAATT
62 AGTGGAACAGA-T-CAAATTTCAGCAGATCTTATCTCCA-T-G-AGGAGTGGAACAGATCAAATT
** ** *
57633904 TCAACGGATCTTGTCTCCATGTATCGGCAATGGAGCAGATTTCAGCCACCAGTCTTATCTTCACT
122 TCAACAAATCTTACCTCCATGTATCGGCAATGGAGCAGATTTCAGCCACCAGCCTTATCTTCACT
* * * * * *
57633969 GAGCAGGAGTGGAGCAGGCTAAACTCT-AGATCTTATCTTCGTTGAGCAGGAGTGGAGCAGATCA
187 GAGCAGGAGTGAAGCAGGCTAAA-TATAAGATCTCATC-CCATTG-GCAGGAGTGGAACAGATC-
* ** *
57634033 AAATTT-GAC-GAATCTTATC-TCTATGTA-TTGGCAATGGAGCAGATTCAAACCAT-C-AGT
248 AAATTTCGACAG-ATCTTATCTTCGATG-AGCAGG-AATGGAGCAGA-TCAAACCATGCGAAT
*
57634090 GTTATCCCACTGAGCAGGAGTGGAACAGGCTAAATATAGCAGATCTCATCCCACTGGCAGGAGTG
1 CTTATCCCACTGAGCAGGAGTGGAACAGGCTAAATATAGCAGATCTCATCCCACTGGCAGGAGTG
*
57634155 GAACAGATCAAATTTCAGCCGATCTTATCTCCATG
66 GAACAGATCAAATTTCAGCAGATCTTATCTCCATG
57634190 TATTGGCAAT
Statistics
Matches: 324, Mismatches: 61, Indels: 53
0.74 0.14 0.12
Matches are distributed among these distances:
306 4 0.01
307 1 0.00
308 34 0.10
309 45 0.14
310 16 0.05
311 139 0.43
312 15 0.05
313 33 0.10
314 32 0.10
315 1 0.00
316 4 0.01
ACGTcount: A:0.30, C:0.22, G:0.24, T:0.25
Consensus pattern (306 bp):
CTTATCCCACTGAGCAGGAGTGGAACAGGCTAAATATAGCAGATCTCATCCCACTGGCAGGAGTG
GAACAGATCAAATTTCAGCAGATCTTATCTCCATGAGGAGTGGAACAGATCAAATTTCAACAAAT
CTTACCTCCATGTATCGGCAATGGAGCAGATTTCAGCCACCAGCCTTATCTTCACTGAGCAGGAG
TGAAGCAGGCTAAATATAAGATCTCATCCCATTGGCAGGAGTGGAACAGATCAAATTTCGACAGA
TCTTATCTTCGATGAGCAGGAATGGAGCAGATCAAACCATGCGAAT
Found at i:57634290 original size:265 final size:265
Alignment explanation
Indices: 57633731--57634296 Score: 725
Period size: 265 Copynumber: 2.1 Consensus size: 265
57633721 AAATTTCGAC
* * *
57633731 AGATCTTATCTTCGC-TGAGCAGGAGTGGAGCAGATCAAATTTTGGCGAATCTTATCTCCATGTA
1 AGATCTTATCTTC-CTTAAGCAGGAGTGGAGCAGATCAAAATTTGACGAATCTTATCTCCATGTA
** * *
57633795 TCGGCTCTGGAGCAGATTTCAGCCAGAAACCTTATCCCACTGAGCAGGAGTGGAACAGATTACAA
65 TCGGCAATGGAGCAGATTTCAACCAGAAACCTTATCCCACTGAGCAGGAGTGGAACAGACTACAA
* *
57633860 ATAGCAGATCTCATCCCACTGGCAGGAGTGGAACAGATCAAATTTCAACGGATCTTGTCTCCATG
130 ATAGCAGATCTCATCCCACTGGCAGGAGTGGAACAGATCAAATTTCAACCGATCTTATCTCCATG
* * * * * *
57633925 TATCGGCAATGGAGCAGATTTCAGCCACCAGTCTTATCTTCACTGAGCAGGAGTGGAGCAGGCTA
195 TATCGGCAATGGAACAGATTTCAACCACCAGTCTTAACTCCACTAAGCAGGAGTGGAACAGGCTA
57633990 AACTCT
260 AACTCT
* * *
57633996 AGATCTTATCTTCGTTGAGCAGGAGTGGAGCAGATCAAAATTTGACGAATCTTATCTCTATGTAT
1 AGATCTTATCTTCCTTAAGCAGGAGTGGAGCAGATCAAAATTTGACGAATCTTATCTCCATGTAT
* ** *** *
57634061 TGGCAATGGAGCAGA-TTCAAACCATCAGTGTTATCCCACTGAGCAGGAGTGGAACAGGCTA-AA
66 CGGCAATGGAGCAGATTTC-AACCAGAAACCTTATCCCACTGAGCAGGAGTGGAACAGACTACAA
*
57634124 TATAGCAGATCTCATCCCACTGGCAGGAGTGGAACAGATCAAATTTCAGCCGATCTTATCTCCAT
130 -ATAGCAGATCTCATCCCACTGGCAGGAGTGGAACAGATCAAATTTCAACCGATCTTATCTCCAT
* * *
57634189 GTATTGGCAATGGAACAGA-TTCAAACCACCAGTCTTAAC-CCCCTAAGCAGTAG-GGTAACAGG
194 GTATCGGCAATGGAACAGATTTC-AACCACCAGTCTTAACTCCACTAAGCAGGAGTGG-AACAGG
57634251 CTAAAAACTAC-
257 CT--AAACT-CT
* *
57634262 AGATCTTGTC-TCCTTAAGCAGTAGTGGAGCAGATC
1 AGATCTTATCTTCCTTAAGCAGGAGTGGAGCAGATC
57634297 GAAGACAGTG
Statistics
Matches: 262, Mismatches: 31, Indels: 16
0.85 0.10 0.05
Matches are distributed among these distances:
263 2 0.01
264 25 0.10
265 220 0.84
266 14 0.05
267 1 0.00
ACGTcount: A:0.30, C:0.22, G:0.23, T:0.25
Consensus pattern (265 bp):
AGATCTTATCTTCCTTAAGCAGGAGTGGAGCAGATCAAAATTTGACGAATCTTATCTCCATGTAT
CGGCAATGGAGCAGATTTCAACCAGAAACCTTATCCCACTGAGCAGGAGTGGAACAGACTACAAA
TAGCAGATCTCATCCCACTGGCAGGAGTGGAACAGATCAAATTTCAACCGATCTTATCTCCATGT
ATCGGCAATGGAACAGATTTCAACCACCAGTCTTAACTCCACTAAGCAGGAGTGGAACAGGCTAA
ACTCT
Found at i:57634651 original size:29 final size:29
Alignment explanation
Indices: 57634617--57634673 Score: 96
Period size: 29 Copynumber: 2.0 Consensus size: 29
57634607 TAAACATCCC
57634617 ACTAAACCAACCACTAACTCCATCACCCT
1 ACTAAACCAACCACTAACTCCATCACCCT
* *
57634646 ACTAAACCATCCACTACCTCCATCACCC
1 ACTAAACCAACCACTAACTCCATCACCC
57634674 CCATACCCTA
Statistics
Matches: 26, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
29 26 1.00
ACGTcount: A:0.35, C:0.47, G:0.00, T:0.18
Consensus pattern (29 bp):
ACTAAACCAACCACTAACTCCATCACCCT
Found at i:57634688 original size:37 final size:38
Alignment explanation
Indices: 57634636--57634713 Score: 149
Period size: 37 Copynumber: 2.1 Consensus size: 38
57634626 ACCACTAACT
57634636 CCATCACCCTACTAAACCATCCACTACCTCCATCACCC
1 CCATCACCCTACTAAACCATCCACTACCTCCATCACCC
57634674 CCAT-ACCCTACTAAACCATCCACTACCTCCATCACCC
1 CCATCACCCTACTAAACCATCCACTACCTCCATCACCC
57634711 CCA
1 CCA
57634714 CTAACTCCAT
Statistics
Matches: 40, Mismatches: 0, Indels: 1
0.98 0.00 0.02
Matches are distributed among these distances:
37 36 0.90
38 4 0.10
ACGTcount: A:0.29, C:0.53, G:0.00, T:0.18
Consensus pattern (38 bp):
CCATCACCCTACTAAACCATCCACTACCTCCATCACCC
Found at i:57634716 original size:18 final size:18
Alignment explanation
Indices: 57634656--57634728 Score: 69
Period size: 18 Copynumber: 4.0 Consensus size: 18
57634646 ACTAAACCAT
57634656 CCACTACCTCCATCACCC
1 CCACTACCTCCATCACCC
* * *
57634674 CCA-TACC-CTACTAAACCAT
1 CCACTACCTCCA-T-CACC-C
57634693 CCACTACCTCCATCACCC
1 CCACTACCTCCATCACCC
*
57634711 CCACTAACTCCATCACCC
1 CCACTACCTCCATCACCC
57634729 TACTTGTTAT
Statistics
Matches: 43, Mismatches: 7, Indels: 10
0.72 0.12 0.17
Matches are distributed among these distances:
16 2 0.05
17 5 0.12
18 23 0.53
19 6 0.14
20 5 0.12
21 2 0.05
ACGTcount: A:0.27, C:0.55, G:0.00, T:0.18
Consensus pattern (18 bp):
CCACTACCTCCATCACCC
Found at i:57635141 original size:19 final size:18
Alignment explanation
Indices: 57635117--57635153 Score: 65
Period size: 19 Copynumber: 2.0 Consensus size: 18
57635107 TTATGTTTCA
57635117 TATTATTATATTATTTATT
1 TATTATTATA-TATTTATT
57635136 TATTATTATATATTTATT
1 TATTATTATATATTTATT
57635154 ATGTAAATAT
Statistics
Matches: 18, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
18 8 0.44
19 10 0.56
ACGTcount: A:0.32, C:0.00, G:0.00, T:0.68
Consensus pattern (18 bp):
TATTATTATATATTTATT
Found at i:57635142 original size:63 final size:63
Alignment explanation
Indices: 57635002--57635144 Score: 159
Period size: 63 Copynumber: 2.3 Consensus size: 63
57634992 TTAACCCATT
* * *
57635002 TTTTTATTTTTGTTATTTTACTGTTAAATTAATCAATTTGAGCTTTATTCTCATTATTTTTATA
1 TTTTTATTTTTATTATTTTACTATTAAATTAATCAATTTGAGC-TTATTCTCATTATTATTATA
* * *
57635066 TTTGTT-TTTTTATTATTTT-CTATTAATTTAATTAATTTGAG-TTATGTTTCA-TATTATTATA
1 TTT-TTATTTTTATTATTTTACTATTAAATTAATCAATTTGAGCTTAT-TCTCATTATTATTATA
57635127 TTATTTATTTATTATTAT
1 TT-TTTATTT-TTATTAT
57635145 ATATTTATTA
Statistics
Matches: 68, Mismatches: 6, Indels: 11
0.80 0.07 0.13
Matches are distributed among these distances:
61 17 0.25
62 8 0.12
63 26 0.38
64 15 0.22
65 2 0.03
ACGTcount: A:0.26, C:0.05, G:0.06, T:0.64
Consensus pattern (63 bp):
TTTTTATTTTTATTATTTTACTATTAAATTAATCAATTTGAGCTTATTCTCATTATTATTATA
Found at i:57635165 original size:17 final size:14
Alignment explanation
Indices: 57635125--57635155 Score: 53
Period size: 14 Copynumber: 2.2 Consensus size: 14
57635115 CATATTATTA
*
57635125 TATTATTTATTTAT
1 TATTATATATTTAT
57635139 TATTATATATTTAT
1 TATTATATATTTAT
57635153 TAT
1 TAT
57635156 GTAAATATAT
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
14 16 1.00
ACGTcount: A:0.32, C:0.00, G:0.00, T:0.68
Consensus pattern (14 bp):
TATTATATATTTAT
Found at i:57635383 original size:21 final size:21
Alignment explanation
Indices: 57635350--57635400 Score: 57
Period size: 21 Copynumber: 2.4 Consensus size: 21
57635340 TATTATCCCC
** *
57635350 CATATTTAATGTTATCGTCAA
1 CATATTTTTTGTTATCATCAA
* *
57635371 CATATTTTTTGTTATTATCAT
1 CATATTTTTTGTTATCATCAA
57635392 CATATTTTT
1 CATATTTTT
57635401 AATATTATTA
Statistics
Matches: 25, Mismatches: 5, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
21 25 1.00
ACGTcount: A:0.27, C:0.12, G:0.06, T:0.55
Consensus pattern (21 bp):
CATATTTTTTGTTATCATCAA
Found at i:57635834 original size:126 final size:126
Alignment explanation
Indices: 57635609--57635852 Score: 443
Period size: 126 Copynumber: 1.9 Consensus size: 126
57635599 CATTGATCTT
57635609 CTCTCAAAAATTTTCAAAATAAAGGCAATGTTCGGTATTCAAAGAATTCGAAGAATCGTGCCCTA
1 CTCTCAAAAATTTTCAAAATAAAGGCAATGTTCGGTATTCAAAGAATTCGAAGAATCGTGCCCTA
*
57635674 ACGTACTAGGTTTCGCTTTCTTTGTTTGTCTTGAATATTCGAATATCCTCTTACCAGTTCA
66 ACGTACTAGGTTTCGCTTTCTTTGTTTGTCTTGAAAATTCGAATATCCTCTTACCAGTTCA
* *
57635735 CTCTCAAAAATTTTCAAAATAAAGGCAATGTTCGGTATTTAAAGAATTCGAAGATTCGTGCCCTA
1 CTCTCAAAAATTTTCAAAATAAAGGCAATGTTCGGTATTCAAAGAATTCGAAGAATCGTGCCCTA
* *
57635800 ACGTACTGGGTTTCGCTTTCTTTGTTTGTTTTGAAAATTCGAATATCCTCTTA
66 ACGTACTAGGTTTCGCTTTCTTTGTTTGTCTTGAAAATTCGAATATCCTCTTA
57635853 AGGCTAAAAC
Statistics
Matches: 113, Mismatches: 5, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
126 113 1.00
ACGTcount: A:0.29, C:0.18, G:0.16, T:0.37
Consensus pattern (126 bp):
CTCTCAAAAATTTTCAAAATAAAGGCAATGTTCGGTATTCAAAGAATTCGAAGAATCGTGCCCTA
ACGTACTAGGTTTCGCTTTCTTTGTTTGTCTTGAAAATTCGAATATCCTCTTACCAGTTCA
Found at i:57637719 original size:19 final size:19
Alignment explanation
Indices: 57637694--57637817 Score: 170
Period size: 19 Copynumber: 6.8 Consensus size: 19
57637684 ATAATCTTCA
57637694 ATGATATGCAATCTTAGAT
1 ATGATATGCAATCTTAGAT
*
57637713 GTGATATGCAATCTTAGAT
1 ATGATATGCAATCTTAGAT
57637732 ATGATA--CAATCTTAGAT
1 ATGATATGCAATCTTAGAT
57637749 ATGAT-TGCAATCTTAGAT
1 ATGATATGCAATCTTAGAT
* *
57637767 AT-A-ATACAATCCTAGAT
1 ATGATATGCAATCTTAGAT
57637784 ATGAT-TGCAATCTTAGAT
1 ATGATATGCAATCTTAGAT
*
57637802 ATGATATACAATCTTA
1 ATGATATGCAATCTTA
57637818 AAAGATATGA
Statistics
Matches: 92, Mismatches: 7, Indels: 12
0.83 0.06 0.11
Matches are distributed among these distances:
17 30 0.33
18 30 0.33
19 32 0.35
ACGTcount: A:0.38, C:0.12, G:0.14, T:0.36
Consensus pattern (19 bp):
ATGATATGCAATCTTAGAT
Found at i:57637734 original size:14 final size:15
Alignment explanation
Indices: 57637715--57637805 Score: 67
Period size: 18 Copynumber: 5.5 Consensus size: 15
57637705 TCTTAGATGT
57637715 GATATG-CAATCTTA
1 GATATGACAATCTTA
57637729 GATATGATACAATCTTA
1 GATATG--ACAATCTTA
57637746 GATATGATTGCAATCTTA
1 GATATGA---CAATCTTA
* *
57637764 GATATAATACAATCCTA
1 GATAT--GACAATCTTA
57637781 GATATGATTGCAATCTTA
1 GATATGA---CAATCTTA
57637799 GATATGA
1 GATATGA
57637806 TATACAATCT
Statistics
Matches: 62, Mismatches: 4, Indels: 18
0.74 0.05 0.21
Matches are distributed among these distances:
14 6 0.10
15 2 0.03
17 26 0.42
18 27 0.44
20 1 0.02
ACGTcount: A:0.38, C:0.12, G:0.14, T:0.35
Consensus pattern (15 bp):
GATATGACAATCTTA
Found at i:57637764 original size:35 final size:35
Alignment explanation
Indices: 57637702--57637817 Score: 178
Period size: 35 Copynumber: 3.2 Consensus size: 35
57637692 CAATGATATG
*
57637702 CAATCTTAGATGTGATATGCAATCTTAGATATGATA
1 CAATCTTAGATATGAT-TGCAATCTTAGATATGATA
*
57637738 CAATCTTAGATATGATTGCAATCTTAGATATAATA
1 CAATCTTAGATATGATTGCAATCTTAGATATGATA
*
57637773 CAATCCTAGATATGATTGCAATCTTAGATATGATATA
1 CAATCTTAGATATGATTGCAATCTTAGATATG--ATA
57637810 CAATCTTA
1 CAATCTTA
57637818 AAAGATATGA
Statistics
Matches: 73, Mismatches: 5, Indels: 3
0.90 0.06 0.04
Matches are distributed among these distances:
35 48 0.66
36 15 0.21
37 10 0.14
ACGTcount: A:0.38, C:0.13, G:0.13, T:0.36
Consensus pattern (35 bp):
CAATCTTAGATATGATTGCAATCTTAGATATGATA
Found at i:57638157 original size:24 final size:25
Alignment explanation
Indices: 57638111--57638157 Score: 62
Period size: 25 Copynumber: 1.9 Consensus size: 25
57638101 TATCTCCTTG
*
57638111 ATTTTTTAATTCACTTTTATATTTT
1 ATTTTTTAATTCAATTTTATATTTT
57638136 ATTTTTTAA-T-AATTTTAGTATT
1 ATTTTTTAATTCAATTTTA-TATT
57638158 ATATCAAATT
Statistics
Matches: 20, Mismatches: 1, Indels: 3
0.83 0.04 0.12
Matches are distributed among these distances:
23 6 0.30
24 5 0.25
25 9 0.45
ACGTcount: A:0.28, C:0.04, G:0.02, T:0.66
Consensus pattern (25 bp):
ATTTTTTAATTCAATTTTATATTTT
Done.