Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: A03
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: 108673976
ACGTcount: A:0.31, C:0.17, G:0.16, T:0.31
Warning! 5040000 characters in sequence are not A, C, G, or T
File 163 of 333
Found at i:53617598 original size:25 final size:25
Alignment explanation
Indices: 53617565--53617656 Score: 109
Period size: 25 Copynumber: 3.7 Consensus size: 25
53617555 AGTAAATTAG
*
53617565 TTCTTCTATTAAAAATTTCATTCAT
1 TTCTGCTATTAAAAATTTCATTCAT
* *
53617590 TTCTGCTATTAAAAATTTGTCATTTAG
1 TTCTGCTATTAAAAA-TT-TCATTCAT
53617617 TTCTG---TTAAAAATTTCATTCAT
1 TTCTGCTATTAAAAATTTCATTCAT
*
53617639 TTCTGTTATTAAAAATTT
1 TTCTGCTATTAAAAATTT
53617657 TTCATTGTAC
Statistics
Matches: 57, Mismatches: 5, Indels: 10
0.79 0.07 0.14
Matches are distributed among these distances:
22 11 0.19
23 2 0.04
24 7 0.12
25 24 0.42
26 2 0.04
27 11 0.19
ACGTcount: A:0.32, C:0.12, G:0.05, T:0.51
Consensus pattern (25 bp):
TTCTGCTATTAAAAATTTCATTCAT
Found at i:53617626 original size:49 final size:49
Alignment explanation
Indices: 53617568--53617662 Score: 163
Period size: 49 Copynumber: 1.9 Consensus size: 49
53617558 AAATTAGTTC
53617568 TTCTATTAAAAATTTCATTCATTTCTGCTATTAAAAATTTGTCATTTAG
1 TTCTATTAAAAATTTCATTCATTTCTGCTATTAAAAATTTGTCATTTAG
* * *
53617617 TTCTGTTAAAAATTTCATTCATTTCTGTTATTAAAAATTTTTCATT
1 TTCTATTAAAAATTTCATTCATTTCTGCTATTAAAAATTTGTCATT
53617663 GTACGTTAGT
Statistics
Matches: 43, Mismatches: 3, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
49 43 1.00
ACGTcount: A:0.32, C:0.12, G:0.05, T:0.52
Consensus pattern (49 bp):
TTCTATTAAAAATTTCATTCATTTCTGCTATTAAAAATTTGTCATTTAG
Found at i:53617642 original size:22 final size:22
Alignment explanation
Indices: 53617568--53617646 Score: 86
Period size: 22 Copynumber: 3.4 Consensus size: 22
53617558 AAATTAGTTC
*
53617568 TTCTATTAAAAATTTCATTCAT
1 TTCTGTTAAAAATTTCATTCAT
* *
53617590 TTCTGCTATTAAAAATTTGTCATTTAG
1 TTCTG---TTAAAAA-TT-TCATTCAT
53617617 TTCTGTTAAAAATTTCATTCAT
1 TTCTGTTAAAAATTTCATTCAT
53617639 TTCTGTTA
1 TTCTGTTA
53617647 TTAAAAATTT
Statistics
Matches: 47, Mismatches: 5, Indels: 10
0.76 0.08 0.16
Matches are distributed among these distances:
22 18 0.38
23 2 0.04
24 7 0.15
25 7 0.15
26 2 0.04
27 11 0.23
ACGTcount: A:0.30, C:0.13, G:0.06, T:0.51
Consensus pattern (22 bp):
TTCTGTTAAAAATTTCATTCAT
Found at i:53621926 original size:41 final size:41
Alignment explanation
Indices: 53621869--53621951 Score: 166
Period size: 41 Copynumber: 2.0 Consensus size: 41
53621859 GTAAAAGTAC
53621869 TATGAAGATCGTTATATTAGAAGTTAGATTATATTTTATTT
1 TATGAAGATCGTTATATTAGAAGTTAGATTATATTTTATTT
53621910 TATGAAGATCGTTATATTAGAAGTTAGATTATATTTTATTT
1 TATGAAGATCGTTATATTAGAAGTTAGATTATATTTTATTT
53621951 T
1 T
53621952 TTTATTAAAA
Statistics
Matches: 42, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
41 42 1.00
ACGTcount: A:0.34, C:0.02, G:0.14, T:0.49
Consensus pattern (41 bp):
TATGAAGATCGTTATATTAGAAGTTAGATTATATTTTATTT
Found at i:53624403 original size:19 final size:19
Alignment explanation
Indices: 53624379--53624417 Score: 78
Period size: 19 Copynumber: 2.1 Consensus size: 19
53624369 TCTAATCAAG
53624379 TCTAATCCTTAAACTACTT
1 TCTAATCCTTAAACTACTT
53624398 TCTAATCCTTAAACTACTT
1 TCTAATCCTTAAACTACTT
53624417 T
1 T
53624418 GCTGCCCTCT
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
19 20 1.00
ACGTcount: A:0.31, C:0.26, G:0.00, T:0.44
Consensus pattern (19 bp):
TCTAATCCTTAAACTACTT
Found at i:53626194 original size:40 final size:40
Alignment explanation
Indices: 53626150--53626228 Score: 149
Period size: 40 Copynumber: 2.0 Consensus size: 40
53626140 GCGCTAGTAA
53626150 GAAAACGCCGCTAAAGATCGAGCATTAGCGGCACTTTTTT
1 GAAAACGCCGCTAAAGATCGAGCATTAGCGGCACTTTTTT
*
53626190 GAAAACGCCGCTAAAGATCGAGCATTAGCGGCGCTTTTT
1 GAAAACGCCGCTAAAGATCGAGCATTAGCGGCACTTTTT
53626229 AAAAAACGTC
Statistics
Matches: 38, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
40 38 1.00
ACGTcount: A:0.29, C:0.23, G:0.24, T:0.24
Consensus pattern (40 bp):
GAAAACGCCGCTAAAGATCGAGCATTAGCGGCACTTTTTT
Found at i:53626599 original size:14 final size:14
Alignment explanation
Indices: 53626534--53626600 Score: 57
Period size: 14 Copynumber: 4.8 Consensus size: 14
53626524 GGATGTAACT
* *
53626534 TTTATGGTTTATGA
1 TTTAGGGTTTATGG
53626548 TTTAGGGTTTATGG
1 TTTAGGGTTTATGG
* *
53626562 TTT-GAGTTTTTAGG
1 TTTAGGGTTTAT-GG
*
53626576 TTT-GGTGTTTGTGG
1 TTTAGG-GTTTATGG
53626590 TTTAGGGTTTA
1 TTTAGGGTTTA
53626601 ATTTTTAGGA
Statistics
Matches: 43, Mismatches: 7, Indels: 6
0.77 0.12 0.11
Matches are distributed among these distances:
13 6 0.14
14 30 0.70
15 7 0.16
ACGTcount: A:0.13, C:0.00, G:0.31, T:0.55
Consensus pattern (14 bp):
TTTAGGGTTTATGG
Found at i:53627204 original size:7 final size:7
Alignment explanation
Indices: 53627192--53627217 Score: 52
Period size: 7 Copynumber: 3.7 Consensus size: 7
53627182 AATCTTCAAA
53627192 AAAATTG
1 AAAATTG
53627199 AAAATTG
1 AAAATTG
53627206 AAAATTG
1 AAAATTG
53627213 AAAAT
1 AAAAT
53627218 AAAAACTTAA
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 19 1.00
ACGTcount: A:0.62, C:0.00, G:0.12, T:0.27
Consensus pattern (7 bp):
AAAATTG
Found at i:53627230 original size:8 final size:8
Alignment explanation
Indices: 53627217--53627261 Score: 81
Period size: 8 Copynumber: 5.6 Consensus size: 8
53627207 AAATTGAAAA
53627217 TAAAAACT
1 TAAAAACT
53627225 TAAAAACT
1 TAAAAACT
53627233 TAAAAACT
1 TAAAAACT
53627241 TAAAAACT
1 TAAAAACT
*
53627249 TACAAACT
1 TAAAAACT
53627257 TAAAA
1 TAAAA
53627262 TTTTAATATT
Statistics
Matches: 35, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
8 35 1.00
ACGTcount: A:0.62, C:0.13, G:0.00, T:0.24
Consensus pattern (8 bp):
TAAAAACT
Found at i:53627335 original size:23 final size:24
Alignment explanation
Indices: 53627295--53627340 Score: 58
Period size: 23 Copynumber: 2.0 Consensus size: 24
53627285 CATATTTCAG
* * *
53627295 TTAAAAAGATCAATATT-CAAAAT
1 TTAAAAAAATAAAAATTCCAAAAT
53627318 TTAAAAAAATAAAAATTCCAAAA
1 TTAAAAAAATAAAAATTCCAAAA
53627341 AATATAATCT
Statistics
Matches: 19, Mismatches: 3, Indels: 1
0.83 0.13 0.04
Matches are distributed among these distances:
23 14 0.74
24 5 0.26
ACGTcount: A:0.63, C:0.09, G:0.02, T:0.26
Consensus pattern (24 bp):
TTAAAAAAATAAAAATTCCAAAAT
Found at i:53627538 original size:41 final size:41
Alignment explanation
Indices: 53627412--53627538 Score: 150
Period size: 42 Copynumber: 3.1 Consensus size: 41
53627402 CAAAAAAAAT
* * * *
53627412 AAAATTGAGCA-ATAGTGGTGTTTTTAGTGAAAACGCCGCAA
1 AAAATTGAG-ATATAGTGGCGTTTTTAGTAAAAATGCCGTAA
* * * *
53627453 AAAGTTGAGCTATAGTGGCGTTTTTCGTAAAAAATGCCATAA
1 AAAATTGAGATATAGTGGCGTTTTTAGT-AAAAATGCCGTAA
53627495 AAAATTGAGATATAGTGGCGTTTTT-GTAAAAATGCCGTAA
1 AAAATTGAGATATAGTGGCGTTTTTAGTAAAAATGCCGTAA
53627535 AAAA
1 AAAA
53627539 CTTTACATCG
Statistics
Matches: 73, Mismatches: 11, Indels: 5
0.82 0.12 0.06
Matches are distributed among these distances:
40 16 0.22
41 25 0.34
42 32 0.44
ACGTcount: A:0.39, C:0.10, G:0.22, T:0.29
Consensus pattern (41 bp):
AAAATTGAGATATAGTGGCGTTTTTAGTAAAAATGCCGTAA
Found at i:53632877 original size:26 final size:25
Alignment explanation
Indices: 53632848--53632906 Score: 61
Period size: 26 Copynumber: 2.4 Consensus size: 25
53632838 TATTGATATC
53632848 TTTATATTT-AATCTAATATTATTTAT
1 TTTATATTTGAATCTAA-ATT-TTTAT
*
53632874 TTTAGT-TTTGATTCTAAATTTTTAT
1 TTTA-TATTTGAATCTAAATTTTTAT
53632899 TTT-TATTT
1 TTTATATTT
53632907 TAATATTTAA
Statistics
Matches: 29, Mismatches: 1, Indels: 8
0.76 0.03 0.21
Matches are distributed among these distances:
23 1 0.03
24 3 0.10
25 8 0.28
26 10 0.34
27 7 0.24
ACGTcount: A:0.27, C:0.03, G:0.03, T:0.66
Consensus pattern (25 bp):
TTTATATTTGAATCTAAATTTTTAT
Found at i:53633245 original size:122 final size:121
Alignment explanation
Indices: 53633108--53633350 Score: 425
Period size: 122 Copynumber: 2.0 Consensus size: 121
53633098 TATAACTTTT
* *
53633108 AGCGGCATTTGTGGGAAAAGCGCCGCTAAAGGTCATGTTCTTTAGCGGCGTTTTTTCAAATAAAC
1 AGCGGCATTTATGGGAAAAGCGCCGCTAAAGGTCATGTTCTTTAGCGGCGTTTTTTAAAATAAAC
53633173 GCCACAAACTTTAGTGGCGTTATCTATAGCGGCGT-TTTTTTGCGAAATAGTTTTAGC
66 GCCACAAACTTTAGTGGCGTTATCTATAG-GG-GTCTTTTTTGCGAAATAGTTTTAGC
*
53633230 AGCGGCGTTTATGGGAAAAGCGCCGCTAAAGGTCATGTTCTTTAGCGGCGTTTTTTAAAATAAAC
1 AGCGGCATTTATGGGAAAAGCGCCGCTAAAGGTCATGTTCTTTAGCGGCGTTTTTTAAAATAAAC
*
53633295 GCCACAAACTTTAGTGGCGTTATCTATAGTGGTCTTTTTTGCGAAATAGTTTTAGC
66 GCCACAAACTTTAGTGGCGTTATCTATAGGGGTCTTTTTTGCGAAATAGTTTTAGC
53633351 GGCGCTTAAA
Statistics
Matches: 116, Mismatches: 4, Indels: 3
0.94 0.03 0.02
Matches are distributed among these distances:
120 2 0.02
121 23 0.20
122 91 0.78
ACGTcount: A:0.25, C:0.17, G:0.24, T:0.33
Consensus pattern (121 bp):
AGCGGCATTTATGGGAAAAGCGCCGCTAAAGGTCATGTTCTTTAGCGGCGTTTTTTAAAATAAAC
GCCACAAACTTTAGTGGCGTTATCTATAGGGGTCTTTTTTGCGAAATAGTTTTAGC
Found at i:53635490 original size:42 final size:42
Alignment explanation
Indices: 53635382--53635532 Score: 128
Period size: 43 Copynumber: 3.5 Consensus size: 42
53635372 ATCTGTGTTA
* * *
53635382 TCGTATAAGACCATGTTTGGGACGTTGGCATCG-ATTAAT-ATTT
1 TCGTATAAGACCACGTCTGGGACATTGGCATCGTATT--TGA-TT
*
53635425 TACGTATAAGACCACGTCAGGGACATTGGCATCGTATTTGATT
1 T-CGTATAAGACCACGTCTGGGACATTGGCATCGTATTTGATT
* * *
53635468 TCGTGTAAGACC-CTGTCTGGGACAGTGGCATTGATATTTGATT
1 TCGTATAAGACCAC-GTCTGGGACATTGGCATCG-TATTTGATT
* * * *
53635511 ACATGTAACACCACGTCTGGGA
1 TCGTATAAGACCACGTCTGGGA
53635533 TGTGGCATTG
Statistics
Matches: 91, Mismatches: 11, Indels: 12
0.80 0.10 0.11
Matches are distributed among these distances:
41 1 0.01
42 26 0.29
43 31 0.34
44 30 0.33
45 3 0.03
ACGTcount: A:0.26, C:0.18, G:0.25, T:0.32
Consensus pattern (42 bp):
TCGTATAAGACCACGTCTGGGACATTGGCATCGTATTTGATT
Found at i:53635529 original size:43 final size:42
Alignment explanation
Indices: 53635435--53635544 Score: 125
Period size: 42 Copynumber: 2.6 Consensus size: 42
53635425 TACGTATAAG
* * * * * *
53635435 ACCACGTCAGGGACATTGGCATCGTATTTGATTTCGTGTAAG
1 ACCACGTCTGGGACAGTGGCATTGTATTTGATTACATGTAAC
53635477 ACC-CTGTCTGGGACAGTGGCATTGATATTTGATTACATGTAAC
1 ACCAC-GTCTGGGACAGTGGCATTG-TATTTGATTACATGTAAC
*
53635520 ACCACGTCTGGGA-TGTGGCATTGTA
1 ACCACGTCTGGGACAGTGGCATTGTA
53635545 CGATCTTTTC
Statistics
Matches: 58, Mismatches: 7, Indels: 7
0.81 0.10 0.10
Matches are distributed among these distances:
41 3 0.05
42 28 0.48
43 26 0.45
44 1 0.02
ACGTcount: A:0.24, C:0.19, G:0.26, T:0.31
Consensus pattern (42 bp):
ACCACGTCTGGGACAGTGGCATTGTATTTGATTACATGTAAC
Found at i:53635538 original size:42 final size:42
Alignment explanation
Indices: 53635444--53635544 Score: 116
Period size: 43 Copynumber: 2.4 Consensus size: 42
53635434 GACCACGTCA
* * * * *
53635444 GGGACATTGGCATCGTATTTGATTTCGTGTAAGACCCTGTCT
1 GGGACAGTGGCATTGTATTTGATTACATGTAACACCCTGTCT
53635486 GGGACAGTGGCATTGATATTTGATTACATGTAACACCAC-GTCT
1 GGGACAGTGGCATTG-TATTTGATTACATGTAACACC-CTGTCT
*
53635529 GGGA-TGTGGCATTGTA
1 GGGACAGTGGCATTGTA
53635545 CGATCTTTTC
Statistics
Matches: 51, Mismatches: 6, Indels: 5
0.82 0.10 0.08
Matches are distributed among these distances:
41 2 0.04
42 22 0.43
43 26 0.51
44 1 0.02
ACGTcount: A:0.23, C:0.17, G:0.28, T:0.33
Consensus pattern (42 bp):
GGGACAGTGGCATTGTATTTGATTACATGTAACACCCTGTCT
Found at i:53636511 original size:30 final size:30
Alignment explanation
Indices: 53636470--53636526 Score: 87
Period size: 30 Copynumber: 1.9 Consensus size: 30
53636460 TTCTTTGGCC
* * *
53636470 TAGGGGTAAAATGGTTATTTTGTCAAAATT
1 TAGGGGCAAAATGGTCATTTTATCAAAATT
53636500 TAGGGGCAAAATGGTCATTTTATCAAA
1 TAGGGGCAAAATGGTCATTTTATCAAA
53636527 GATATGAATT
Statistics
Matches: 24, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
30 24 1.00
ACGTcount: A:0.35, C:0.07, G:0.23, T:0.35
Consensus pattern (30 bp):
TAGGGGCAAAATGGTCATTTTATCAAAATT
Found at i:53637015 original size:46 final size:46
Alignment explanation
Indices: 53636871--53637041 Score: 170
Period size: 46 Copynumber: 3.7 Consensus size: 46
53636861 TGTGTGGGCT
* * * ** *
53636871 AGTGTAAGACATGTTTGGGACATGCATCAGCCAC--ATTGTGAGAGCC
1 AGTGTAAGACATGTCTGGGACATGCATCGGCCTCGAAACGT-A-AGTC
* * * *
53636917 AGTGTAAGACCATGTTTGGGACATGGCATCGGCATTGAGACG--AGTGC
1 AGTGTAAGA-CATGTCTGGGACAT-GCATCGGCCTCGAAACGTAAGT-C
53636964 TAGTGTAAGACATGTCTGGGACATGCATCGGCCTCGAAACGTAAGTC
1 -AGTGTAAGACATGTCTGGGACATGCATCGGCCTCGAAACGTAAGTC
53637011 AGTGTAAGACATGTCTGGGACATGCATCGGC
1 AGTGTAAGACATGTCTGGGACATGCATCGGC
53637042 TACGAGATGT
Statistics
Matches: 105, Mismatches: 12, Indels: 16
0.79 0.09 0.12
Matches are distributed among these distances:
46 56 0.53
47 29 0.28
48 19 0.18
50 1 0.01
ACGTcount: A:0.27, C:0.19, G:0.30, T:0.23
Consensus pattern (46 bp):
AGTGTAAGACATGTCTGGGACATGCATCGGCCTCGAAACGTAAGTC
Found at i:53640279 original size:61 final size:61
Alignment explanation
Indices: 53640201--53640326 Score: 234
Period size: 61 Copynumber: 2.1 Consensus size: 61
53640191 AATTTTCAAC
*
53640201 TCTGGATCTTTATTATTCAACACAAAAGCAAGATAAGCTTTATATCATTTTCTCAAACATT
1 TCTGGATCTTTAGTATTCAACACAAAAGCAAGATAAGCTTTATATCATTTTCTCAAACATT
*
53640262 TCTGGATCTTTAGTATTCAACACAAAAGCAAGATAAGCTTTATATCCTTTTCTCAAACATT
1 TCTGGATCTTTAGTATTCAACACAAAAGCAAGATAAGCTTTATATCATTTTCTCAAACATT
53640323 TCTG
1 TCTG
53640327 AGCAGACATA
Statistics
Matches: 63, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
61 63 1.00
ACGTcount: A:0.34, C:0.19, G:0.10, T:0.37
Consensus pattern (61 bp):
TCTGGATCTTTAGTATTCAACACAAAAGCAAGATAAGCTTTATATCATTTTCTCAAACATT
Found at i:53641731 original size:52 final size:52
Alignment explanation
Indices: 53641646--53641747 Score: 177
Period size: 52 Copynumber: 2.0 Consensus size: 52
53641636 AACAACTTAG
* *
53641646 TAATATAAGCAAATTAATTAAACTAGTCGAATTATATTATCATTATCCATTC
1 TAATATAAGCAAATTAATTAAACTAGCCAAATTATATTATCATTATCCATTC
*
53641698 TAATATAAGCAAATTGATTAAACTAGCCAAATTATATTATCATTATCCAT
1 TAATATAAGCAAATTAATTAAACTAGCCAAATTATATTATCATTATCCAT
53641748 GCTCAATCTT
Statistics
Matches: 47, Mismatches: 3, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
52 47 1.00
ACGTcount: A:0.43, C:0.14, G:0.06, T:0.37
Consensus pattern (52 bp):
TAATATAAGCAAATTAATTAAACTAGCCAAATTATATTATCATTATCCATTC
Found at i:53642304 original size:43 final size:43
Alignment explanation
Indices: 53642255--53642338 Score: 100
Period size: 43 Copynumber: 2.0 Consensus size: 43
53642245 CAATTCCAAC
*
53642255 GTCCCAGAC-GTGGTCTTA-TATATAACCACATATCGATGCCACT
1 GTCCCAGACAG-GGTCTTACT-CATAACCACATATCGATGCCACT
* * *
53642298 GTCCCAGGCAGGGTCTTACTCGTAAGCACATATCGATGCCA
1 GTCCCAGACAGGGTCTTACTCATAACCACATATCGATGCCA
53642339 TGGTCTTCCT
Statistics
Matches: 35, Mismatches: 4, Indels: 4
0.81 0.09 0.09
Matches are distributed among these distances:
43 33 0.94
44 2 0.06
ACGTcount: A:0.26, C:0.29, G:0.20, T:0.25
Consensus pattern (43 bp):
GTCCCAGACAGGGTCTTACTCATAACCACATATCGATGCCACT
Found at i:53650308 original size:40 final size:39
Alignment explanation
Indices: 53650263--53650486 Score: 204
Period size: 40 Copynumber: 5.6 Consensus size: 39
53650253 CTTGCGCAAG
* *
53650263 GCCTTCGGGTCTTAGCCCGGATGTGGTCATTAGC-CTAAAT
1 GCCTTCGGGTCTTAGCCCGGATATAGTC-TTAGCAC-AAAT
*
53650303 GCCTTCGGGACTTAGCCCGGATATAGT-TGCTAGCACAAAT
1 GCCTTCGGGTCTTAGCCCGGATATAGTCT--TAGCACAAAT
* *
53650343 GCCTTCGGGTTTTAGCCCGGATATAATCTCTAGCACAAAT
1 GCCTTCGGGTCTTAGCCCGGATATAGTCT-TAGCACAAAT
* * *
53650383 GCCTTCGGGTCTTAGCCCGGATATAGTAAC-TCGTACGAAT
1 GCCTTCGGGTCTTAGCCCGGATATAGT--CTTAGCACAAAT
* * * * *
53650423 GCCTTCGGATCTTAGTCCGGTTATAGTCACCTAGCACAAAA
1 GCCTTCGGGTCTTAGCCCGGATATAGT--CTTAGCACAAAT
**
53650464 GCCTTC-GAACTTAGCCCGGATAT
1 GCCTTCGGGTCTTAGCCCGGATAT
53650487 CATTCGAATA
Statistics
Matches: 155, Mismatches: 22, Indels: 14
0.81 0.12 0.07
Matches are distributed among these distances:
38 1 0.01
40 139 0.90
41 14 0.09
42 1 0.01
ACGTcount: A:0.23, C:0.26, G:0.23, T:0.28
Consensus pattern (39 bp):
GCCTTCGGGTCTTAGCCCGGATATAGTCTTAGCACAAAT
Found at i:53650351 original size:80 final size:80
Alignment explanation
Indices: 53650263--53650486 Score: 256
Period size: 80 Copynumber: 2.8 Consensus size: 80
53650253 CTTGCGCAAG
* *
53650263 GCCTTCGGGTCTTAGCCCGGATGTGGTCATTAGC-CTAAATGCCTTCGGGACTTAGCCCGGATAT
1 GCCTTCGGGTCTTAGCCCGGATATAGTCATTAGCAC-AAATGCCTTCGGGACTTAGCCCGGATAT
**
53650327 AGTTGCTAGCACAAAT
65 AGTAACTAGCACAAAT
* * *
53650343 GCCTTCGGGTTTTAGCCCGGATATAATC-TCTAGCACAAATGCCTTCGGGTCTTAGCCCGGATAT
1 GCCTTCGGGTCTTAGCCCGGATATAGTCAT-TAGCACAAATGCCTTCGGGACTTAGCCCGGATAT
* * *
53650407 AGTAACTCGTACGAAT
65 AGTAACTAGCACAAAT
* * * * * *
53650423 GCCTTCGGATCTTAGTCCGGTTATAGTCACCTAGCACAAAAGCCTTC-GAACTTAGCCCGGATAT
1 GCCTTCGGGTCTTAGCCCGGATATAGTCA-TTAGCACAAATGCCTTCGGGACTTAGCCCGGATAT
53650487 CATTCGAATA
Statistics
Matches: 121, Mismatches: 19, Indels: 8
0.82 0.13 0.05
Matches are distributed among these distances:
79 1 0.01
80 104 0.86
81 16 0.13
ACGTcount: A:0.23, C:0.26, G:0.23, T:0.28
Consensus pattern (80 bp):
GCCTTCGGGTCTTAGCCCGGATATAGTCATTAGCACAAATGCCTTCGGGACTTAGCCCGGATATA
GTAACTAGCACAAAT
Found at i:53660357 original size:42 final size:43
Alignment explanation
Indices: 53660302--53660394 Score: 111
Period size: 42 Copynumber: 2.2 Consensus size: 43
53660292 GTTTTACGTA
** * *
53660302 TAAGACCACATCTGGGAC-GTTGGTGTC-ATATTTGATTTCGTG
1 TAAGACCACATCTGGGACAG-TGGCATCGATATTTGATTACATG
53660344 TAAGACC-CTATCTGGGACAGTGGCATCGATATTTGATTACATG
1 TAAGACCAC-ATCTGGGACAGTGGCATCGATATTTGATTACATG
53660387 TAAGACCA
1 TAAGACCA
53660395 TGCTTGGGAC
Statistics
Matches: 43, Mismatches: 4, Indels: 6
0.81 0.08 0.11
Matches are distributed among these distances:
41 1 0.02
42 21 0.49
43 21 0.49
ACGTcount: A:0.27, C:0.18, G:0.24, T:0.31
Consensus pattern (43 bp):
TAAGACCACATCTGGGACAGTGGCATCGATATTTGATTACATG
Found at i:53663801 original size:47 final size:46
Alignment explanation
Indices: 53663600--53663819 Score: 150
Period size: 46 Copynumber: 4.7 Consensus size: 46
53663590 GTAAGGTACC
* * * *
53663600 GATGCCATGTCCCAGACATGGTCTTACACT-G-GCTCATATCTCAAGCC
1 GATG-CATGTCCCAGACAT-GTCTTACACTAGCTCTCATATC-GATGCT
* * * * *
53663647 GATGCATGTCCCTA-ACATGTCTTATC-TTGGCT-TGCGTCTCGA-GGT
1 GATGCATGTCCC-AGACATGTCTTA-CACTAGCTCT-CATATCGATGCT
** * *
53663692 CGATGCATGTCCTGGACATGTCTTACACTAGCACTCATCTCGATGCT
1 -GATGCATGTCCCAGACATGTCTTACACTAGCTCTCATATCGATGCT
* *
53663739 GATGCCATTTCCCAGACATGGTCTTACACTGGCTCTCATAAT-G-TAGCT
1 GATG-CATGTCCCAGACAT-GTCTTACACTAGCTCTCAT-ATCGAT-GCT
53663787 GATGCATGTCCCAGACATGTCTTACACTAGCTC
1 GATGCATGTCCCAGACATGTCTTACACTAGCTC
53663820 ATAATAACCC
Statistics
Matches: 137, Mismatches: 22, Indels: 29
0.73 0.12 0.15
Matches are distributed among these distances:
45 9 0.07
46 65 0.47
47 37 0.27
48 25 0.18
49 1 0.01
ACGTcount: A:0.21, C:0.29, G:0.20, T:0.30
Consensus pattern (46 bp):
GATGCATGTCCCAGACATGTCTTACACTAGCTCTCATATCGATGCT
Found at i:53669605 original size:56 final size:56
Alignment explanation
Indices: 53669531--53669820 Score: 463
Period size: 56 Copynumber: 5.2 Consensus size: 56
53669521 TTGTGATCAT
53669531 GAGTAAGACCACGTTTAATACGTTGGCATCGATATGTGATTCTGATATATGTGTGC
1 GAGTAAGACCACGTTTAATACGTTGGCATCGATATGTGATTCTGATATATGTGTGC
* * * * *
53669587 AAGTAAAACCATGTTTAATACATTGGCATCGATATGTGATTTTGATATATGTGTGC
1 GAGTAAGACCACGTTTAATACGTTGGCATCGATATGTGATTCTGATATATGTGTGC
* *
53669643 GAGTAAGACCACGTTTAATACGTTGGCATCGATATGTGCTTCTGATATATGTGTGT
1 GAGTAAGACCACGTTTAATACGTTGGCATCGATATGTGATTCTGATATATGTGTGC
* * *
53669699 GAGTAAGACCACGTTTAAAACGTTGGCATCGATATGTGATTCTAATATATATGTGC
1 GAGTAAGACCACGTTTAATACGTTGGCATCGATATGTGATTCTGATATATGTGTGC
* *
53669755 GAGTAAGACCACGTTTAATACATTGGCATAGATATGTGATTCTGATATATGTGTGC
1 GAGTAAGACCACGTTTAATACGTTGGCATCGATATGTGATTCTGATATATGTGTGC
*
53669811 GAGCAAGACC
1 GAGTAAGACC
53669821 CTATTTGGGA
Statistics
Matches: 211, Mismatches: 23, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
56 211 1.00
ACGTcount: A:0.30, C:0.14, G:0.23, T:0.33
Consensus pattern (56 bp):
GAGTAAGACCACGTTTAATACGTTGGCATCGATATGTGATTCTGATATATGTGTGC
Found at i:53672604 original size:49 final size:49
Alignment explanation
Indices: 53672544--53673143 Score: 908
Period size: 47 Copynumber: 12.6 Consensus size: 49
53672534 GATAATTGTG
*
53672544 ATGTG-AA-TGTATATATATGTGATAAGGCCGAATGGCCGATGTGATGA
1 ATGTGAAAGTGTATATATATGTGATAAGGCCTAATGGCCGATGTGATGA
53672591 ATGTGAAAGTGTATATATATGTGATAAGGCCTAATGGCCGATGTGATGA
1 ATGTGAAAGTGTATATATATGTGATAAGGCCTAATGGCCGATGTGATGA
*
53672640 ATATGAAAGTGTATATATATGTGATAAGGCCTAATGGCCGATGTGATGA
1 ATGTGAAAGTGTATATATATGTGATAAGGCCTAATGGCCGATGTGATGA
* *
53672689 ATGTGAAAGTG--TATATATGTGATAAGGCCGAATGGCCAATGTGATGA
1 ATGTGAAAGTGTATATATATGTGATAAGGCCTAATGGCCGATGTGATGA
*
53672736 ATGTGAAAGTGTATATATATGTGATAAGGCCTAATCGCCGATGTGATGA
1 ATGTGAAAGTGTATATATATGTGATAAGGCCTAATGGCCGATGTGATGA
* *
53672785 ATGTGAAAGTG--TATATATGTGATAAGGCCGAATGGCCAATGTGATGA
1 ATGTGAAAGTGTATATATATGTGATAAGGCCTAATGGCCGATGTGATGA
53672832 ATGTGAAAGTGTATATATATGTGATAAGGCCTAATGGCCGATGTGATGA
1 ATGTGAAAGTGTATATATATGTGATAAGGCCTAATGGCCGATGTGATGA
53672881 ATGTGAAAGTGTATATATATGTGATAAGGCCTAATGGCCGATGTGATGA
1 ATGTGAAAGTGTATATATATGTGATAAGGCCTAATGGCCGATGTGATGA
* *
53672930 ATGTAAAAGTG--TATATATGTGATAAGGCCTAATAGCCGATGTGATGA
1 ATGTGAAAGTGTATATATATGTGATAAGGCCTAATGGCCGATGTGATGA
*
53672977 ATGTGAAAGTG--TATATATGTGATGAGGCCTAATGGCCGATGTGATGA
1 ATGTGAAAGTGTATATATATGTGATAAGGCCTAATGGCCGATGTGATGA
*
53673024 ATGTGAAAGTGTATATAT-T-TGATGAGGCCTAATGGCCGATGTGATGA
1 ATGTGAAAGTGTATATATATGTGATAAGGCCTAATGGCCGATGTGATGA
* * * * * * * * *
53673071 ATGTGAAAGTG--TATATCTGTCACAGGGCCGAGTGGCCAACGTGATGG
1 ATGTGAAAGTGTATATATATGTGATAAGGCCTAATGGCCGATGTGATGA
53673118 ATGTGAAAGTGTATA-A-ATGTGATAAG
1 ATGTGAAAGTGTATATATATGTGATAAG
53673144 TCCCGAAGGG
Statistics
Matches: 510, Mismatches: 31, Indels: 24
0.90 0.05 0.04
Matches are distributed among these distances:
45 5 0.01
46 1 0.00
47 259 0.51
48 4 0.01
49 241 0.47
ACGTcount: A:0.33, C:0.09, G:0.29, T:0.29
Consensus pattern (49 bp):
ATGTGAAAGTGTATATATATGTGATAAGGCCTAATGGCCGATGTGATGA
Found at i:53672731 original size:96 final size:96
Alignment explanation
Indices: 53672544--53673143 Score: 928
Period size: 96 Copynumber: 6.3 Consensus size: 96
53672534 GATAATTGTG
*
53672544 ATGTG-AA-TGTATATATATGTGATAAGGCCGAATGGCCGATGTGATGAATGTGAAAGTGTATAT
1 ATGTGAAAGTGTATATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTG--TAT
* *
53672607 ATATGTGATAAGGCCTAATGGCCGATGTGATGA
64 ATATGTGATAAGGCCGAATGGCCAATGTGATGA
*
53672640 ATATGAAAGTGTATATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATAT
1 ATGTGAAAGTGTATATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATAT
53672705 ATGTGATAAGGCCGAATGGCCAATGTGATGA
66 ATGTGATAAGGCCGAATGGCCAATGTGATGA
*
53672736 ATGTGAAAGTGTATATATATGTGATAAGGCCTAATCGCCGATGTGATGAATGTGAAAGTGTATAT
1 ATGTGAAAGTGTATATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATAT
53672801 ATGTGATAAGGCCGAATGGCCAATGTGATGA
66 ATGTGATAAGGCCGAATGGCCAATGTGATGA
53672832 ATGTGAAAGTGTATATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATAT
1 ATGTGAAAGTGTATATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTG--TAT
* *
53672897 ATATGTGATAAGGCCTAATGGCCGATGTGATGA
64 ATATGTGATAAGGCCGAATGGCCAATGTGATGA
* *
53672930 ATGTAAAAGTG--TATATATGTGATAAGGCCTAATAGCCGATGTGATGAATGTGAAAGTGTATAT
1 ATGTGAAAGTGTATATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATAT
* * *
53672993 ATGTGATGAGGCCTAATGGCCGATGTGATGA
66 ATGTGATAAGGCCGAATGGCCAATGTGATGA
*
53673024 ATGTGAAAGTGTATATAT-T-TGATGAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATAT
1 ATGTGAAAGTGTATATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATAT
* * * * * * *
53673087 CTGTCACAGGGCCGAGTGGCCAACGTGATGG
66 ATGTGATAAGGCCGAATGGCCAATGTGATGA
53673118 ATGTGAAAGTGTATA-A-ATGTGATAAG
1 ATGTGAAAGTGTATATATATGTGATAAG
53673144 TCCCGAAGGG
Statistics
Matches: 470, Mismatches: 26, Indels: 18
0.91 0.05 0.04
Matches are distributed among these distances:
93 2 0.00
94 129 0.27
95 1 0.00
96 242 0.51
97 2 0.00
98 94 0.20
ACGTcount: A:0.33, C:0.09, G:0.29, T:0.29
Consensus pattern (96 bp):
ATGTGAAAGTGTATATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATAT
ATGTGATAAGGCCGAATGGCCAATGTGATGA
Found at i:53675062 original size:31 final size:32
Alignment explanation
Indices: 53675018--53675077 Score: 86
Period size: 31 Copynumber: 1.9 Consensus size: 32
53675008 ATGCGAAAAT
* *
53675018 GGCTTGTTTATTTTG-TTAAGTTCGGTTACAA
1 GGCTTGATCATTTTGCTTAAGTTCGGTTACAA
*
53675049 GGCTTGATCATTTTGCTTATGTTCGGTTA
1 GGCTTGATCATTTTGCTTAAGTTCGGTTA
53675078 TATTTGACCA
Statistics
Matches: 25, Mismatches: 3, Indels: 1
0.86 0.10 0.03
Matches are distributed among these distances:
31 13 0.52
32 12 0.48
ACGTcount: A:0.17, C:0.12, G:0.23, T:0.48
Consensus pattern (32 bp):
GGCTTGATCATTTTGCTTAAGTTCGGTTACAA
Found at i:53689567 original size:146 final size:146
Alignment explanation
Indices: 53689303--53689581 Score: 391
Period size: 146 Copynumber: 1.9 Consensus size: 146
53689293 TGTGAATTGG
* * * * * *
53689303 TCAACTATTACCCACACTGAATCTGCCTTTGTCGGAGTCGAGGGCAAACCTGAAACAAAGTCCAT
1 TCAACTATTACCCACACTGAATCTGCCTTTGTCAGAGTCAAAGACAAACCTAAAACAAAGTACAT
* * *
53689368 AGTGCTCCTTTCCCACTTCCATTTAGGAATTGGAATCGGTTGCAACAAACTTGAAGGAAACAAAT
66 AGTGATCCTTTCCCACTTCCATTTAGGAATTGAAATCGATTGCAACAAACTTGAAGGAAACAAAT
53689433 GTTTTTTGAGAATCGA
131 GTTTTTTGAGAATCGA
* * * *
53689449 TCAACTATTACCCACATTGAATCTGTCTTTTTCAGAGTCAAAGATAAA-CTCAAAACAAAGTACA
1 TCAACTATTACCCACACTGAATCTGCCTTTGTCAGAGTCAAAGACAAACCT-AAAACAAAGTACA
* *
53689513 TAGTGATCTTTTCCCTA-TTCCATTTAGGAATTGAAATCGATTGCAACAAACTTGAAGGAAACAG
65 TAGTGATCCTTTCCC-ACTTCCATTTAGGAATTGAAATCGATTGCAACAAACTTGAAGGAAACAA
53689577 ATGTT
129 ATGTT
53689582 ATGCCTTTAC
Statistics
Matches: 116, Mismatches: 15, Indels: 4
0.86 0.11 0.03
Matches are distributed among these distances:
145 2 0.02
146 113 0.97
147 1 0.01
ACGTcount: A:0.34, C:0.21, G:0.16, T:0.29
Consensus pattern (146 bp):
TCAACTATTACCCACACTGAATCTGCCTTTGTCAGAGTCAAAGACAAACCTAAAACAAAGTACAT
AGTGATCCTTTCCCACTTCCATTTAGGAATTGAAATCGATTGCAACAAACTTGAAGGAAACAAAT
GTTTTTTGAGAATCGA
Found at i:53693367 original size:28 final size:29
Alignment explanation
Indices: 53693336--53693396 Score: 97
Period size: 29 Copynumber: 2.1 Consensus size: 29
53693326 GTGAGCATGA
*
53693336 ATAT-AAGGTGATTTGGGCCTAACATGCC
1 ATATAAAGGTGATTTGGGCCTAACAGGCC
*
53693364 ATATAAAGGTGATTTGGGCCTAATAGGCC
1 ATATAAAGGTGATTTGGGCCTAACAGGCC
53693393 ATAT
1 ATAT
53693397 GAATATGAAT
Statistics
Matches: 30, Mismatches: 2, Indels: 1
0.91 0.06 0.03
Matches are distributed among these distances:
28 4 0.13
29 26 0.87
ACGTcount: A:0.31, C:0.15, G:0.25, T:0.30
Consensus pattern (29 bp):
ATATAAAGGTGATTTGGGCCTAACAGGCC
Found at i:53693409 original size:29 final size:29
Alignment explanation
Indices: 53693348--53693428 Score: 90
Period size: 29 Copynumber: 2.8 Consensus size: 29
53693338 ATAAGGTGAT
* * * * *
53693348 TTGGGCCTAACATGCCATATAAAGGTGAT
1 TTGGGCCTAATAGGCCATATGAAGATGAA
*
53693377 TTGGGCCTAATAGGCCATATGAATATGAA
1 TTGGGCCTAATAGGCCATATGAAGATGAA
* *
53693406 TTGGGCCTGATGGGCCATATGAA
1 TTGGGCCTAATAGGCCATATGAA
53693429 CGAGATGGAC
Statistics
Matches: 44, Mismatches: 8, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
29 44 1.00
ACGTcount: A:0.30, C:0.16, G:0.27, T:0.27
Consensus pattern (29 bp):
TTGGGCCTAATAGGCCATATGAAGATGAA
Found at i:53694436 original size:15 final size:15
Alignment explanation
Indices: 53694398--53694436 Score: 60
Period size: 15 Copynumber: 2.6 Consensus size: 15
53694388 CCTCAACTAA
53694398 ATTTTTAAGTGACAT
1 ATTTTTAAGTGACAT
*
53694413 ATTTCTAAGTGACAT
1 ATTTTTAAGTGACAT
*
53694428 GTTTTTAAG
1 ATTTTTAAG
53694437 GAGCCTTGTG
Statistics
Matches: 21, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
15 21 1.00
ACGTcount: A:0.31, C:0.08, G:0.15, T:0.46
Consensus pattern (15 bp):
ATTTTTAAGTGACAT
Found at i:53695798 original size:29 final size:28
Alignment explanation
Indices: 53695746--53695838 Score: 125
Period size: 29 Copynumber: 3.3 Consensus size: 28
53695736 ATTGCATGAC
53695746 TATGAATGTGATTGGGCCTAATGGGCCA
1 TATGAATGTGATTGGGCCTAATGGGCCA
*
53695774 TATGAATGTGATTTGGGCCTAATGGGACA
1 TATGAATGTGA-TTGGGCCTAATGGGCCA
* * *
53695803 TATGAAAGAGATT-GGCCTAGTGGGCCA
1 TATGAATGTGATTGGGCCTAATGGGCCA
*
53695830 TATGCATGT
1 TATGAATGT
53695839 ATGTAGACTT
Statistics
Matches: 56, Mismatches: 8, Indels: 3
0.84 0.12 0.04
Matches are distributed among these distances:
27 18 0.32
28 13 0.23
29 25 0.45
ACGTcount: A:0.27, C:0.13, G:0.31, T:0.29
Consensus pattern (28 bp):
TATGAATGTGATTGGGCCTAATGGGCCA
Found at i:53697064 original size:17 final size:18
Alignment explanation
Indices: 53697031--53697064 Score: 52
Period size: 18 Copynumber: 1.9 Consensus size: 18
53697021 TTTAAAGAAG
53697031 GGTTTTCAATGAAAACAA
1 GGTTTTCAATGAAAACAA
*
53697049 GGTTTTCGAT-AAAACA
1 GGTTTTCAATGAAAACA
53697065 CTTCAATATG
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
17 6 0.40
18 9 0.60
ACGTcount: A:0.41, C:0.12, G:0.18, T:0.29
Consensus pattern (18 bp):
GGTTTTCAATGAAAACAA
Found at i:53701438 original size:10 final size:10
Alignment explanation
Indices: 53701423--53701472 Score: 50
Period size: 10 Copynumber: 5.0 Consensus size: 10
53701413 TAATTTTAGG
53701423 ATTTAT-TTT
1 ATTTATCTTT
53701432 CATTTATCTTT
1 -ATTTATCTTT
*
53701443 AATTATCTTT
1 ATTTATCTTT
53701453 ATTTAT-TTGT
1 ATTTATCTT-T
*
53701463 ATTTACCTTT
1 ATTTATCTTT
53701473 TAGAATTTAA
Statistics
Matches: 34, Mismatches: 3, Indels: 6
0.79 0.07 0.14
Matches are distributed among these distances:
9 2 0.06
10 27 0.79
11 5 0.15
ACGTcount: A:0.22, C:0.10, G:0.02, T:0.66
Consensus pattern (10 bp):
ATTTATCTTT
Found at i:53702213 original size:43 final size:37
Alignment explanation
Indices: 53702181--53702252 Score: 117
Period size: 38 Copynumber: 1.9 Consensus size: 37
53702171 TGAAATCCCA
*
53702181 ATCAAAACTTTTAATTCTATTTTATTTTATTCTTTCAG
1 ATCAAAACTTTTAATTCTATTTT-TTTAATTCTTTCAG
*
53702219 ATCAAAACTTTTAATTCTATTTTTTTATTTCTTT
1 ATCAAAACTTTTAATTCTATTTTTTTAATTCTTT
53702253 TCGAGGTATG
Statistics
Matches: 32, Mismatches: 2, Indels: 1
0.91 0.06 0.03
Matches are distributed among these distances:
37 9 0.28
38 23 0.72
ACGTcount: A:0.28, C:0.12, G:0.01, T:0.58
Consensus pattern (37 bp):
ATCAAAACTTTTAATTCTATTTTTTTAATTCTTTCAG
Found at i:53707035 original size:40 final size:38
Alignment explanation
Indices: 53706998--53707213 Score: 191
Period size: 40 Copynumber: 5.4 Consensus size: 38
53706988 ATATCCGGAC
*
53706998 TAAGATCCGAAGGCATTTGTGCGAGATACAAATTCCGGGT
1 TAAG-TCCGAAGGCATTCGTGCGAGATACAAA-TCCGGGT
* * *
53707038 TAAGCCCCGAAGGCCTTTGTGCGAGATACTAAATCCGGGT
1 TAAG-TCCGAAGGCATTCGTGCGAGATAC-AAATCCGGGT
* *
53707078 TAAGTCTCGAAGGCATTCGTGCGAGTTATTAAATCCGGGT
1 TAAGTC-CGAAGGCATTCGTGCGAGATA-CAAATCCGGGT
* **
53707118 TAAGTCCCGAAGGCATTCGTGCGAGTTGTTAAATCCGGGT
1 TAAGT-CCGAAGGCATTCGTGCGAGAT-ACAAATCCGGGT
* * * * *
53707158 TATGTCCCGAAGGCATT-GTGTGAGTTACTAAAACCGGGC
1 TAAGT-CCGAAGGCATTCGTGCGAGATAC-AAATCCGGGT
*
53707197 TATGTCCCGAAGGCATT
1 TAAGT-CCGAAGGCATT
53707214 TGAACGAGGA
Statistics
Matches: 155, Mismatches: 15, Indels: 13
0.85 0.08 0.07
Matches are distributed among these distances:
39 34 0.22
40 117 0.75
41 4 0.03
ACGTcount: A:0.25, C:0.20, G:0.28, T:0.26
Consensus pattern (38 bp):
TAAGTCCGAAGGCATTCGTGCGAGATACAAATCCGGGT
Found at i:53707089 original size:80 final size:80
Alignment explanation
Indices: 53707004--53707213 Score: 228
Period size: 80 Copynumber: 2.6 Consensus size: 80
53706994 GGACTAAGAT
* *
53707004 CCGAAGGCATTTGTGCGAGATA-CAAATTCCGGGTTAAGCCCCGAAGGCCTTTGTGCGAGATACT
1 CCGAAGGCATTTGTGCGAGATATCAAA-TCCGGGTTAAGCCCCGAAGGCATTCGTGCGAGATACT
53707068 AAATCCGGGTTAAGTC
65 AAATCCGGGTTAAGTC
* * * * * * **
53707084 TCGAAGGCATTCGTGCGAGTTATTAAATCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTGTTA
1 CCGAAGGCATTTGTGCGAGATATCAAATCCGGGTTAAGCCCCGAAGGCATTCGTGCGAGATACTA
*
53707149 AATCCGGGTTATGTC
66 AATCCGGGTTAAGTC
* * * * * *
53707164 CCGAAGGCA-TTGTGTGAGTTA-CTAAAACCGGGCTATGTCCCGAAGGCATT
1 CCGAAGGCATTTGTGCGAGATATC-AAATCCGGGTTAAGCCCCGAAGGCATT
53707214 TGAACGAGGA
Statistics
Matches: 110, Mismatches: 18, Indels: 5
0.83 0.14 0.04
Matches are distributed among these distances:
79 34 0.31
80 73 0.66
81 3 0.03
ACGTcount: A:0.25, C:0.21, G:0.28, T:0.26
Consensus pattern (80 bp):
CCGAAGGCATTTGTGCGAGATATCAAATCCGGGTTAAGCCCCGAAGGCATTCGTGCGAGATACTA
AATCCGGGTTAAGTC
Found at i:53707233 original size:79 final size:80
Alignment explanation
Indices: 53707004--53707248 Score: 210
Period size: 80 Copynumber: 3.1 Consensus size: 80
53706994 GGACTAAGAT
* * * * * * * ** *
53707004 CCGAAGGCATTTGTGCGAGATAC-AAATTCCGGGTTAAGCCCCGAAGGCCTTTGTGCGA-GATAC
1 CCGAAGGCATTCGTGCGAGTTACTAAA-ACCGGGCTAAGTCCCGAAGGCATTCGAACGAGGA-GC
53707067 TAAATCCGGGTTAAGTC
64 TAAATCCGGGTTAAGTC
* * * * ** ** *
53707084 TCGAAGGCATTCGTGCGAGTTATTAAATCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTGTTA
1 CCGAAGGCATTCGTGCGAGTTACTAAAACCGGGCTAAGTCCCGAAGGCATTCGAACGAGGAGCTA
*
53707149 AATCCGGGTTATGTC
66 AATCCGGGTTAAGTC
* * *
53707164 CCGAAGGCATT-GTGTGAGTTACTAAAACCGGGCTATGTCCCGAAGGCATTTGAACGAGGAGCTA
1 CCGAAGGCATTCGTGCGAGTTACTAAAACCGGGCTAAGTCCCGAAGGCATTCGAACGAGGAGCTA
* *
53707228 TATCC-GGTTAAATC
66 AATCCGGGTTAAGTC
*
53707242 CAGAAGG
1 CCGAAGG
53707249 TACGTGATTT
Statistics
Matches: 135, Mismatches: 28, Indels: 6
0.80 0.17 0.04
Matches are distributed among these distances:
78 13 0.10
79 46 0.34
80 73 0.54
81 3 0.02
ACGTcount: A:0.26, C:0.20, G:0.28, T:0.25
Consensus pattern (80 bp):
CCGAAGGCATTCGTGCGAGTTACTAAAACCGGGCTAAGTCCCGAAGGCATTCGAACGAGGAGCTA
AATCCGGGTTAAGTC
Found at i:53709314 original size:81 final size:81
Alignment explanation
Indices: 53709179--53709334 Score: 285
Period size: 81 Copynumber: 1.9 Consensus size: 81
53709169 TGGGAAACTG
* *
53709179 ATGGAGGAAGTACTGAAAGTGGCTTGTCCACGTATTGGAGGCTTTGCCTCAACTTACTGATAACT
1 ATGGAGGAAGTACTGAAAGTGGCTTGTCCAAGTACTGGAGGCTTTGCCTCAACTTACTGATAACT
53709244 GAACAGCAATACTGCA
66 GAACAGCAATACTGCA
53709260 ATGGAGGAAGTACTGAAAGTGGCTTGTCCAAGTACTGGAGGCTTTGCCTCAACTTACTGATAACT
1 ATGGAGGAAGTACTGAAAGTGGCTTGTCCAAGTACTGGAGGCTTTGCCTCAACTTACTGATAACT
*
53709325 GAGCAGCAAT
66 GAACAGCAAT
53709335 GTTGTAACTG
Statistics
Matches: 72, Mismatches: 3, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
81 72 1.00
ACGTcount: A:0.29, C:0.19, G:0.26, T:0.26
Consensus pattern (81 bp):
ATGGAGGAAGTACTGAAAGTGGCTTGTCCAAGTACTGGAGGCTTTGCCTCAACTTACTGATAACT
GAACAGCAATACTGCA
Found at i:53714212 original size:19 final size:18
Alignment explanation
Indices: 53714188--53714223 Score: 63
Period size: 19 Copynumber: 1.9 Consensus size: 18
53714178 AACCCAATTT
53714188 TTATTTATTATTATTATTA
1 TTATTTATTATT-TTATTA
53714207 TTATTTATTATTTTATT
1 TTATTTATTATTTTATT
53714224 TTTTGGATAT
Statistics
Matches: 17, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
18 5 0.29
19 12 0.71
ACGTcount: A:0.28, C:0.00, G:0.00, T:0.72
Consensus pattern (18 bp):
TTATTTATTATTTTATTA
Found at i:53715511 original size:96 final size:97
Alignment explanation
Indices: 53715345--53715524 Score: 285
Period size: 96 Copynumber: 1.9 Consensus size: 97
53715335 TAAGAATGTA
*
53715345 TTGGGCTGAGTAACCGGGGTGAGGTGCTTGGCTGTCATCTCTCTTCGTGTCAAAAGGTTCGATAT
1 TTGGGCTGAGTAACCGGGGTGAGGTGCTTGGCTGTCATCTCTCTTCGTGTCAAAAGGTTCAATAT
*
53715410 GTTCTTAAG-AAAAATAAAAATTAGGAGTATG
66 ATTCTTAAGCAAAAATAAAAATTAGGAGTATG
*
53715441 TTGGGCTGAGTAACCGGGGTG-GAGTGCTTGGCTGTCATCTCTTTTCGCT-TCAAAAGGTTCAAT
1 TTGGGCTGAGTAACCGGGGTGAG-GTGCTTGGCTGTCATCTCTCTTCG-TGTCAAAAGGTTCAAT
*
53715504 ATATTCTTAAGCAACAATAAA
64 ATATTCTTAAGCAAAAATAAA
53715525 TAAATAAATA
Statistics
Matches: 77, Mismatches: 4, Indels: 5
0.90 0.05 0.06
Matches are distributed among these distances:
95 1 0.01
96 67 0.87
97 9 0.12
ACGTcount: A:0.27, C:0.16, G:0.26, T:0.32
Consensus pattern (97 bp):
TTGGGCTGAGTAACCGGGGTGAGGTGCTTGGCTGTCATCTCTCTTCGTGTCAAAAGGTTCAATAT
ATTCTTAAGCAAAAATAAAAATTAGGAGTATG
Found at i:53717201 original size:64 final size:68
Alignment explanation
Indices: 53717092--53717268 Score: 195
Period size: 67 Copynumber: 2.6 Consensus size: 68
53717082 CATCATGTGT
** * * *
53717092 ACAAGAGAGCTACGAGATACTATGTGGTAGCTAGGTCACATGTGT-GATAC-GG-GATGTATACC
1 ACAAGAGAGCTACGAGATA--AAAT-GTAGCTAGGTCACATGTGTGGATACAGGTGAAGGACACC
53717154 ATGTAG
63 ATGTAG
* * * *
53717160 ACAAGAGAGCTACGGGAT-AAATGTAGCTAGGTCGCATGTGTGGTTCCAGGTGAAGGACACCATG
1 ACAAGAGAGCTACGAGATAAAATGTAGCTAGGTCACATGTGTGGATACAGGTGAAGGACACCATG
53717224 TAG
66 TAG
*
53717227 ACAAGAGAGCTACGAGATAAAATG--GCTAGGTCACATGGGTGG
1 ACAAGAGAGCTACGAGATAAAATGTAGCTAGGTCACATGTGTGG
53717269 TACTAAGTGT
Statistics
Matches: 93, Mismatches: 12, Indels: 10
0.81 0.10 0.09
Matches are distributed among these distances:
64 18 0.19
65 5 0.05
66 18 0.19
67 30 0.32
68 22 0.24
ACGTcount: A:0.32, C:0.15, G:0.32, T:0.21
Consensus pattern (68 bp):
ACAAGAGAGCTACGAGATAAAATGTAGCTAGGTCACATGTGTGGATACAGGTGAAGGACACCATG
TAG
Found at i:53725192 original size:40 final size:39
Alignment explanation
Indices: 53725161--53725236 Score: 93
Period size: 39 Copynumber: 2.0 Consensus size: 39
53725151 TTAATTTTCA
*
53725161 AAATCTC-A-ATCAAAACTTTTAATTCTGTTTTTATTAT
1 AAATCTCTAGATCAAAACTTTTAATTCTGTTTTTATTTT
** *
53725198 ATTTTTCTAGATCAAAACTTTTAATTCTGTTTTTTATTT
1 AAATCTCTAGATCAAAACTTTTAATTCTG-TTTTTATTT
53725237 CTTTTCCAAG
Statistics
Matches: 32, Mismatches: 4, Indels: 3
0.82 0.10 0.08
Matches are distributed among these distances:
37 4 0.12
38 1 0.03
39 19 0.59
40 8 0.25
ACGTcount: A:0.30, C:0.12, G:0.04, T:0.54
Consensus pattern (39 bp):
AAATCTCTAGATCAAAACTTTTAATTCTGTTTTTATTTT
Found at i:53727607 original size:48 final size:48
Alignment explanation
Indices: 53727462--53727695 Score: 237
Period size: 48 Copynumber: 5.0 Consensus size: 48
53727452 AACATAGTAA
*
53727462 GATGCCAATGCCATATCCCAGATATGGTCTTACATGGGATCACAAATC
1 GATGCCAATGCCATATCCCAGATATGGTCTTACATGGGATCACACATC
* * * * * * ** *
53727510 GAAG-C--TG--ATAGCCCAGCTATGGTCTTACACGATG-TCTCATGTT
1 GATGCCAATGCCATATCCCAGATATGGTCTTACATG-GGATCACACATC
*
53727553 GATGCCAATGCCATATCCCAGATATGGTCTTACATGGGATCACACGTC
1 GATGCCAATGCCATATCCCAGATATGGTCTTACATGGGATCACACATC
* * * * * *
53727601 GGTGCCAATGCCATGTCCCAGACATGGTCTTACATGGGATCTCATACC
1 GATGCCAATGCCATATCCCAGATATGGTCTTACATGGGATCACACATC
* * *
53727649 AATGCCAATGCCATGTCCCAGACATGGTCTTACATGGGATCACACAT
1 GATGCCAATGCCATATCCCAGATATGGTCTTACATGGGATCACACAT
53727696 AACCCTAATG
Statistics
Matches: 150, Mismatches: 29, Indels: 14
0.78 0.15 0.07
Matches are distributed among these distances:
43 29 0.19
44 2 0.01
45 2 0.01
46 2 0.01
47 2 0.01
48 113 0.75
ACGTcount: A:0.27, C:0.26, G:0.21, T:0.26
Consensus pattern (48 bp):
GATGCCAATGCCATATCCCAGATATGGTCTTACATGGGATCACACATC
Found at i:53729209 original size:32 final size:32
Alignment explanation
Indices: 53729168--53729234 Score: 134
Period size: 32 Copynumber: 2.1 Consensus size: 32
53729158 AGCCATTCTA
53729168 ATGGTTAGATTATAAGCATCATTTACATTTAC
1 ATGGTTAGATTATAAGCATCATTTACATTTAC
53729200 ATGGTTAGATTATAAGCATCATTTACATTTAC
1 ATGGTTAGATTATAAGCATCATTTACATTTAC
53729232 ATG
1 ATG
53729235 CCAATATATC
Statistics
Matches: 35, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
32 35 1.00
ACGTcount: A:0.34, C:0.12, G:0.13, T:0.40
Consensus pattern (32 bp):
ATGGTTAGATTATAAGCATCATTTACATTTAC
Found at i:53729389 original size:16 final size:17
Alignment explanation
Indices: 53729368--53729400 Score: 50
Period size: 18 Copynumber: 1.9 Consensus size: 17
53729358 AAATAGGGAA
53729368 ATAAAA-CTTAGTAAGC
1 ATAAAATCTTAGTAAGC
53729384 ATAAAATTCTTAGTAAG
1 ATAAAA-TCTTAGTAAG
53729401 TTCGTATAAC
Statistics
Matches: 15, Mismatches: 0, Indels: 2
0.88 0.00 0.12
Matches are distributed among these distances:
16 6 0.40
18 9 0.60
ACGTcount: A:0.48, C:0.09, G:0.12, T:0.30
Consensus pattern (17 bp):
ATAAAATCTTAGTAAGC
Found at i:53730720 original size:17 final size:19
Alignment explanation
Indices: 53730700--53730737 Score: 62
Period size: 19 Copynumber: 2.1 Consensus size: 19
53730690 CAGGGGAAGG
53730700 AAGAAAG-A-AAAAGAGAA
1 AAGAAAGAAGAAAAGAGAA
53730717 AAGAAAGAAGAAAAGAGAA
1 AAGAAAGAAGAAAAGAGAA
53730736 AA
1 AA
53730738 TTAAAGGTTT
Statistics
Matches: 19, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
17 7 0.37
18 1 0.05
19 11 0.58
ACGTcount: A:0.76, C:0.00, G:0.24, T:0.00
Consensus pattern (19 bp):
AAGAAAGAAGAAAAGAGAA
Found at i:53731481 original size:14 final size:14
Alignment explanation
Indices: 53731462--53731489 Score: 56
Period size: 14 Copynumber: 2.0 Consensus size: 14
53731452 TATATTGCAT
53731462 TTGATGATATTTTA
1 TTGATGATATTTTA
53731476 TTGATGATATTTTA
1 TTGATGATATTTTA
53731490 GTTTATTCAC
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 14 1.00
ACGTcount: A:0.29, C:0.00, G:0.14, T:0.57
Consensus pattern (14 bp):
TTGATGATATTTTA
Found at i:53735526 original size:28 final size:28
Alignment explanation
Indices: 53735467--53735562 Score: 122
Period size: 28 Copynumber: 3.4 Consensus size: 28
53735457 TGAGATTGGT
* * *
53735467 ACTAAGTGTGCGGGTTTAAATTGTACAGC
1 ACTAAGTGTGCGAGTTT-GATTGTATAGC
53735496 ACTAAGTGTGCGAGTTTGATTGTATAGC
1 ACTAAGTGTGCGAGTTTGATTGTATAGC
*
53735524 ACTAAGTGTGCGAG-TTGATTATATAGC
1 ACTAAGTGTGCGAGTTTGATTGTATAGC
* *
53735551 ATTGAGTGTGCG
1 ACTAAGTGTGCG
53735563 GACTTAATAT
Statistics
Matches: 61, Mismatches: 6, Indels: 2
0.88 0.09 0.03
Matches are distributed among these distances:
27 22 0.36
28 23 0.38
29 16 0.26
ACGTcount: A:0.26, C:0.11, G:0.29, T:0.33
Consensus pattern (28 bp):
ACTAAGTGTGCGAGTTTGATTGTATAGC
Found at i:53738141 original size:28 final size:28
Alignment explanation
Indices: 53738101--53738165 Score: 112
Period size: 28 Copynumber: 2.3 Consensus size: 28
53738091 ATGTACTAGA
*
53738101 ATACCCCTATGTATGCAAAATTACCATT
1 ATACCCCTATGTATGCAAAATGACCATT
*
53738129 ATACCCCTATGTATGCAAAATGACCTTT
1 ATACCCCTATGTATGCAAAATGACCATT
53738157 ATACCCCTA
1 ATACCCCTA
53738166 GGGTTAATTT
Statistics
Matches: 35, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
28 35 1.00
ACGTcount: A:0.34, C:0.28, G:0.08, T:0.31
Consensus pattern (28 bp):
ATACCCCTATGTATGCAAAATGACCATT
Found at i:53738372 original size:29 final size:28
Alignment explanation
Indices: 53738271--53738361 Score: 130
Period size: 28 Copynumber: 3.2 Consensus size: 28
53738261 AGGAAGCGTC
*
53738271 CTGGTGGCTA-TGCTACAAATTATCTGTT
1 CTGGTGGC-ACTGCCACAAATTATCTGTT
*
53738299 CTGGTGGCCCTGCCACAAATTATCTGTT
1 CTGGTGGCACTGCCACAAATTATCTGTT
*
53738327 CTGGTGGCACTGCCACAAAATATCTGTAT
1 CTGGTGGCACTGCCACAAATTATCTGT-T
53738356 CTGGTG
1 CTGGTG
53738362 ACTCTGTCAC
Statistics
Matches: 57, Mismatches: 4, Indels: 3
0.89 0.06 0.05
Matches are distributed among these distances:
28 50 0.88
29 7 0.12
ACGTcount: A:0.21, C:0.23, G:0.23, T:0.33
Consensus pattern (28 bp):
CTGGTGGCACTGCCACAAATTATCTGTT
Found at i:53738386 original size:56 final size:55
Alignment explanation
Indices: 53738271--53738386 Score: 128
Period size: 56 Copynumber: 2.1 Consensus size: 55
53738261 AGGAAGCGTC
* * *
53738271 CTGGTGGCTATGCTACAAATTATCTGTTCTGGTGGCCCTGCCACAAATTATCTGTT
1 CTGGTGGCTATGCCACAAAATATCTGTTCTGGTGACCCTGCCAC-AATTATCTGTT
* * *
53738327 CTGGTGGC-ACTGCCACAAAATATCTGTATCTGGTGACTCTGTCAC-ATTTTCTGTAT
1 CTGGTGGCTA-TGCCACAAAATATCTGT-TCTGGTGACCCTGCCACAATTATCTGT-T
53738383 CTGG
1 CTGG
53738387 CAGCCATGCT
Statistics
Matches: 51, Mismatches: 6, Indels: 6
0.81 0.10 0.10
Matches are distributed among these distances:
55 9 0.18
56 28 0.55
57 14 0.27
ACGTcount: A:0.20, C:0.23, G:0.22, T:0.35
Consensus pattern (55 bp):
CTGGTGGCTATGCCACAAAATATCTGTTCTGGTGACCCTGCCACAATTATCTGTT
Found at i:53745750 original size:16 final size:15
Alignment explanation
Indices: 53745724--53745753 Score: 51
Period size: 16 Copynumber: 1.9 Consensus size: 15
53745714 GCTAGATTAG
53745724 CAAAAGCCGAAAAGC
1 CAAAAGCCGAAAAGC
53745739 CAAAATGCCGAAAAG
1 CAAAA-GCCGAAAAG
53745754 TCGGTATTTT
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
15 5 0.36
16 9 0.64
ACGTcount: A:0.53, C:0.23, G:0.20, T:0.03
Consensus pattern (15 bp):
CAAAAGCCGAAAAGC
Found at i:53746043 original size:28 final size:28
Alignment explanation
Indices: 53746003--53746067 Score: 112
Period size: 28 Copynumber: 2.3 Consensus size: 28
53745993 ATGTACTAGA
*
53746003 ATACCCCTATGTATGCAAAATTACCATT
1 ATACCCCTATGTATGCAAAATGACCATT
*
53746031 ATACCCCTATGTATGCAAAATGACCTTT
1 ATACCCCTATGTATGCAAAATGACCATT
53746059 ATACCCCTA
1 ATACCCCTA
53746068 GGGTTAATTT
Statistics
Matches: 35, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
28 35 1.00
ACGTcount: A:0.34, C:0.28, G:0.08, T:0.31
Consensus pattern (28 bp):
ATACCCCTATGTATGCAAAATGACCATT
Found at i:53746229 original size:26 final size:27
Alignment explanation
Indices: 53746173--53746261 Score: 110
Period size: 26 Copynumber: 3.2 Consensus size: 27
53746163 AGGAAGCGTC
*
53746173 CTGGTGGCTA-TGCTACAAATTATCTGTT
1 CTGGTGGC-ACTGCCACAAA-TATCTGTT
*
53746201 CTGGTGGCCCTGCCAC-AATATCTGTT
1 CTGGTGGCACTGCCACAAATATCTGTT
53746227 CTGGTGGCACTGCCACAAAATATCTGTAT
1 CTGGTGGCACTGCCAC-AAATATCTGT-T
53746256 CTGGTG
1 CTGGTG
53746262 ACTCTGTCAC
Statistics
Matches: 54, Mismatches: 3, Indels: 7
0.84 0.05 0.11
Matches are distributed among these distances:
26 23 0.43
27 2 0.04
28 22 0.41
29 7 0.13
ACGTcount: A:0.20, C:0.24, G:0.24, T:0.33
Consensus pattern (27 bp):
CTGGTGGCACTGCCACAAATATCTGTT
Found at i:53749334 original size:90 final size:89
Alignment explanation
Indices: 53749071--53749344 Score: 295
Period size: 90 Copynumber: 3.0 Consensus size: 89
53749061 AACCACAAAA
* * * * * *
53749071 GTTGCAAGTTAATATGTTAGCAGATGGTTGTGAATGCACAACATATTTGCAGATGAGAA-CTACC
1 GTTGCAGGTTAATACGCTAGCAGATGGTTGTGAATACACAACATATTTGCAAATGA-AAGCTTCC
*
53749135 AGAATGTGGGTGGATGAACCACCAGT
65 AGAA-ATGGGTGGATGAACCACCAGT
* * * *
53749161 GTTGCAGGTGAATACACTACCAGATGGTTTTGAATACACAACATATTTGCAGATATG--AG-TTG
1 GTTGCAGGTTAATACGCTAGCAGATGGTTGTGAATACACAACATATTTGCA-A-ATGAAAGCTT-
* * *
53749223 CCAAAAAAGGGGTGGAGGAACCACCAGT
63 CC-AGAAATGGGTGGATGAACCACCAGT
53749251 GTTGCAGGTTAATACGCTAGCAGATGGTTGTGAATACACAACATATTTGCAAATGAAAGCTTCCA
1 GTTGCAGGTTAATACGCTAGCAGATGGTTGTGAATACACAACATATTTGCAAATGAAAGCTTCCA
*** *
53749316 GATAATCCATGGATGAACCACCAGA
66 GA-AATGGGTGGATGAACCACCAGT
53749341 GTTG
1 GTTG
53749345 GAAATTATTA
Statistics
Matches: 150, Mismatches: 25, Indels: 18
0.78 0.13 0.09
Matches are distributed among these distances:
88 3 0.02
89 5 0.03
90 134 0.89
91 5 0.03
92 3 0.02
ACGTcount: A:0.34, C:0.16, G:0.25, T:0.25
Consensus pattern (89 bp):
GTTGCAGGTTAATACGCTAGCAGATGGTTGTGAATACACAACATATTTGCAAATGAAAGCTTCCA
GAAATGGGTGGATGAACCACCAGT
Found at i:53750069 original size:21 final size:20
Alignment explanation
Indices: 53750032--53750073 Score: 50
Period size: 21 Copynumber: 2.0 Consensus size: 20
53750022 GGTTGATTTC
53750032 AAGATTTGACAAAATTTATAA
1 AAGATTTGACAAAATTT-TAA
*
53750053 AAGATTT-ATCAAGATTTTAA
1 AAGATTTGA-CAAAATTTTAA
53750073 A
1 A
53750074 TGGATCGATT
Statistics
Matches: 19, Mismatches: 1, Indels: 3
0.83 0.04 0.13
Matches are distributed among these distances:
20 5 0.26
21 14 0.74
ACGTcount: A:0.50, C:0.05, G:0.10, T:0.36
Consensus pattern (20 bp):
AAGATTTGACAAAATTTTAA
Found at i:53760750 original size:30 final size:29
Alignment explanation
Indices: 53760716--53760779 Score: 101
Period size: 30 Copynumber: 2.2 Consensus size: 29
53760706 ATGAATCGGA
* *
53760716 AGCTTTGGTATTAAGTGTGCGATTTAAACT
1 AGCTTTGGTACTAAGTATGCGATTT-AACT
53760746 AGCTTTGGTACTAAGTATGCGATTTAACT
1 AGCTTTGGTACTAAGTATGCGATTTAACT
53760775 AGCTT
1 AGCTT
53760780 CGGCTACTTG
Statistics
Matches: 32, Mismatches: 2, Indels: 1
0.91 0.06 0.03
Matches are distributed among these distances:
29 9 0.28
30 23 0.72
ACGTcount: A:0.27, C:0.12, G:0.22, T:0.39
Consensus pattern (29 bp):
AGCTTTGGTACTAAGTATGCGATTTAACT
Found at i:53761073 original size:15 final size:15
Alignment explanation
Indices: 53761053--53761082 Score: 60
Period size: 15 Copynumber: 2.0 Consensus size: 15
53761043 TATATGGATT
53761053 GAAATTGTGCAAATA
1 GAAATTGTGCAAATA
53761068 GAAATTGTGCAAATA
1 GAAATTGTGCAAATA
53761083 CTCATAGGTT
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 15 1.00
ACGTcount: A:0.47, C:0.07, G:0.20, T:0.27
Consensus pattern (15 bp):
GAAATTGTGCAAATA
Found at i:53763734 original size:39 final size:39
Alignment explanation
Indices: 53763657--53763755 Score: 119
Period size: 39 Copynumber: 2.5 Consensus size: 39
53763647 GATATAGCTC
*
53763657 CTCGTTCAAATGCCTTCGAGACATAGCCCGGTAATAGTAA
1 CTCGTACAAATGCCTTCG-GACATAGCCCGGTAATAGTAA
* * *
53763697 CTCGTACAAATGCCTTCGGGCTTAGCCCGG-AATTAGTAT
1 CTCGTACAAATGCCTTCGGACATAGCCCGGTAA-TAGTAA
* *
53763736 CTCGCACAAATGCATTCGGA
1 CTCGTACAAATGCCTTCGGA
53763756 TCTTAGTCTG
Statistics
Matches: 51, Mismatches: 7, Indels: 3
0.84 0.11 0.05
Matches are distributed among these distances:
38 2 0.04
39 32 0.63
40 17 0.33
ACGTcount: A:0.27, C:0.26, G:0.21, T:0.25
Consensus pattern (39 bp):
CTCGTACAAATGCCTTCGGACATAGCCCGGTAATAGTAA
Found at i:53771600 original size:39 final size:40
Alignment explanation
Indices: 53771530--53771673 Score: 170
Period size: 40 Copynumber: 3.6 Consensus size: 40
53771520 CTCCTCGTTT
* *
53771530 AAATGCCTTCGGGACATAGCCCGGTTATAGTAACTCGCAC
1 AAATGCCTTCGGGACTTAGCCCGGATATAGTAACTCGCAC
*
53771570 AAATGCCTTCGGG-CTTAGCCCGGA-ATTAGTATCTCGCAC
1 AAATGCCTTCGGGACTTAGCCCGGATA-TAGTAACTCGCAC
* * * *
53771609 AAATGCCTTC-GGATCTTAGTCCGGATATGGTCACTTAGCAC
1 AAATGCCTTCGGGA-CTTAGCCCGGATATAGTAAC-TCGCAC
53771650 AAA-GCCTTCGGGACTTAGCCCGGA
1 AAATGCCTTCGGGACTTAGCCCGGA
53771674 CATCATTCAA
Statistics
Matches: 89, Mismatches: 9, Indels: 12
0.81 0.08 0.11
Matches are distributed among these distances:
38 3 0.03
39 31 0.35
40 43 0.48
41 12 0.13
ACGTcount: A:0.25, C:0.27, G:0.24, T:0.24
Consensus pattern (40 bp):
AAATGCCTTCGGGACTTAGCCCGGATATAGTAACTCGCAC
Found at i:53776337 original size:6 final size:6
Alignment explanation
Indices: 53776319--53776424 Score: 119
Period size: 6 Copynumber: 17.3 Consensus size: 6
53776309 AAGAAACATT
53776319 ATCAGA A-CTAGA ATCAGA ATCAGA ATCAGA ATCAGA ATCAGA ATCAG-
1 ATCAGA ATC-AGA ATCAGA ATCAGA ATCAGA ATCAGA ATCAGA ATCAGA
* * *
53776366 GTGACAGA ATCAGA ATCAGA ATCAGA ATCAGT ATCAGGTA A-CAGA ATCAAA
1 AT--CAGA ATCAGA ATCAGA ATCAGA ATCAGA ATCA-G-A ATCAGA ATCAGA
53776417 ATCAGA AT
1 ATCAGA AT
53776425 GTGAATGCAA
Statistics
Matches: 86, Mismatches: 6, Indels: 16
0.80 0.06 0.15
Matches are distributed among these distances:
5 4 0.05
6 73 0.85
7 7 0.08
8 2 0.02
ACGTcount: A:0.48, C:0.16, G:0.18, T:0.18
Consensus pattern (6 bp):
ATCAGA
Found at i:53776380 original size:37 final size:37
Alignment explanation
Indices: 53776333--53776424 Score: 157
Period size: 37 Copynumber: 2.5 Consensus size: 37
53776323 GAACTAGAAT
*
53776333 CAGAATCAGAATCAGAATCAGAATCAGAATCAGGTGA
1 CAGAATCAGAATCAGAATCAGAATCAGAATCAGGTAA
*
53776370 CAGAATCAGAATCAGAATCAGAATCAGTATCAGGTAA
1 CAGAATCAGAATCAGAATCAGAATCAGAATCAGGTAA
*
53776407 CAGAATCAAAATCAGAAT
1 CAGAATCAGAATCAGAAT
53776425 GTGAATGCAA
Statistics
Matches: 52, Mismatches: 3, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
37 52 1.00
ACGTcount: A:0.48, C:0.16, G:0.18, T:0.17
Consensus pattern (37 bp):
CAGAATCAGAATCAGAATCAGAATCAGAATCAGGTAA
Found at i:53776603 original size:27 final size:26
Alignment explanation
Indices: 53776542--53776661 Score: 150
Period size: 27 Copynumber: 4.5 Consensus size: 26
53776532 CAGCATGGCT
** *
53776542 ACCAGAACAGATAATGTGATAGAGTC
1 ACCAGAACAGATAATGTGGCAGAGCC
*
53776568 ACCAAAACAGATAATCGTGGCAGAGCC
1 ACCAGAACAGATAAT-GTGGCAGAGCC
53776595 ACCAGAACAGATATATGTGGCAGAGCC
1 ACCAGAACAGATA-ATGTGGCAGAGCC
* *
53776622 ACCAGATCAGATAATTGTGGCATAGCC
1 ACCAGAACAGATAA-TGTGGCAGAGCC
*
53776649 ACCAGGACAGATA
1 ACCAGAACAGATA
53776662 TATATATATG
Statistics
Matches: 82, Mismatches: 9, Indels: 5
0.85 0.09 0.05
Matches are distributed among these distances:
26 15 0.18
27 65 0.79
28 2 0.02
ACGTcount: A:0.39, C:0.22, G:0.23, T:0.16
Consensus pattern (26 bp):
ACCAGAACAGATAATGTGGCAGAGCC
Found at i:53776633 original size:54 final size:54
Alignment explanation
Indices: 53776542--53776664 Score: 167
Period size: 54 Copynumber: 2.3 Consensus size: 54
53776532 CAGCATGGCT
* *
53776542 ACCAGAACAGATA-ATGTGATAGAGTCACCAAAACAGATAATCGTGGCAGAGCC
1 ACCAGAACAGATATATGTGACAGAGCCACCAAAACAGATAATCGTGGCAGAGCC
* * * * *
53776595 ACCAGAACAGATATATGTGGCAGAGCCACCAGATCAGATAATTGTGGCATAGCC
1 ACCAGAACAGATATATGTGACAGAGCCACCAAAACAGATAATCGTGGCAGAGCC
*
53776649 ACCAGGACAGATATAT
1 ACCAGAACAGATATAT
53776665 ATATATGTGG
Statistics
Matches: 61, Mismatches: 8, Indels: 1
0.87 0.11 0.01
Matches are distributed among these distances:
53 13 0.21
54 48 0.79
ACGTcount: A:0.39, C:0.21, G:0.23, T:0.17
Consensus pattern (54 bp):
ACCAGAACAGATATATGTGACAGAGCCACCAAAACAGATAATCGTGGCAGAGCC
Found at i:53776962 original size:27 final size:27
Alignment explanation
Indices: 53776932--53777227 Score: 369
Period size: 27 Copynumber: 11.0 Consensus size: 27
53776922 GGGGTAAAAT
* * *
53776932 GGTAATTTTACCCCACAAGGGTATCTC
1 GGTAATTCTACCCTACAAGGGTATTTC
*
53776959 GGTAATTCTACCCTACAGGGGTATTTC
1 GGTAATTCTACCCTACAAGGGTATTTC
** * *
53776986 AATAATTCTACCCTACAGGGGTATTTT
1 GGTAATTCTACCCTACAAGGGTATTTC
* *
53777013 AGTATTTCTACCCTACAAGGGTATTTC
1 GGTAATTCTACCCTACAAGGGTATTTC
* * *
53777040 GGTAATTCTACCCTACATGGGCATTTT
1 GGTAATTCTACCCTACAAGGGTATTTC
* * *
53777067 AGTAATTCTACCTTATAAGGGTATTTC
1 GGTAATTCTACCCTACAAGGGTATTTC
* *
53777094 GGTATTTCTACCCTACAGGGGTATTTC
1 GGTAATTCTACCCTACAAGGGTATTTC
* *
53777121 GGTAATTCTACCCTATAGGGGTATTTC
1 GGTAATTCTACCCTACAAGGGTATTTC
*
53777148 GGTATTTCTACCCTACAAGGGTATTTC
1 GGTAATTCTACCCTACAAGGGTATTTC
* *
53777175 GGTATTTCTACCCTACAAGGGTATTTT
1 GGTAATTCTACCCTACAAGGGTATTTC
*
53777202 GATAATTCTACCCTAC-AGGGTATTTC
1 GGTAATTCTACCCTACAAGGGTATTTC
53777228 AATAATTTTG
Statistics
Matches: 233, Mismatches: 36, Indels: 1
0.86 0.13 0.00
Matches are distributed among these distances:
26 9 0.04
27 224 0.96
ACGTcount: A:0.24, C:0.21, G:0.18, T:0.36
Consensus pattern (27 bp):
GGTAATTCTACCCTACAAGGGTATTTC
Found at i:53777056 original size:81 final size:81
Alignment explanation
Indices: 53776936--53777234 Score: 422
Period size: 81 Copynumber: 3.7 Consensus size: 81
53776926 TAAAATGGTA
* *
53776936 ATTT-TACCCCACAAGGGTATCTCGGTAATTCTACCCTACAGGGGTATTTCAATAATTCTACCCT
1 ATTTCTACCCTACAAGGGTATTTCGGTAATTCTACCCTACAGGGGTATTTCAATAATTCTACCCT
* **
53777000 ACAGGGGTATTTTAGT
66 ACAAGGGTATTTCGGT
* * * * *
53777016 ATTTCTACCCTACAAGGGTATTTCGGTAATTCTACCCTACATGGGCATTTTAGTAATTCTACCTT
1 ATTTCTACCCTACAAGGGTATTTCGGTAATTCTACCCTACAGGGGTATTTCAATAATTCTACCCT
*
53777081 ATAAGGGTATTTCGGT
66 ACAAGGGTATTTCGGT
* * ** *
53777097 ATTTCTACCCTACAGGGGTATTTCGGTAATTCTACCCTATAGGGGTATTTCGGTATTTCTACCCT
1 ATTTCTACCCTACAAGGGTATTTCGGTAATTCTACCCTACAGGGGTATTTCAATAATTCTACCCT
53777162 ACAAGGGTATTTCGGT
66 ACAAGGGTATTTCGGT
* *
53777178 ATTTCTACCCTACAAGGGTATTTTGATAATTCTACCCTACA-GGGTATTTCAATAATT
1 ATTTCTACCCTACAAGGGTATTTCGGTAATTCTACCCTACAGGGGTATTTCAATAATT
53777235 TTGTAAATCG
Statistics
Matches: 191, Mismatches: 27, Indels: 2
0.87 0.12 0.01
Matches are distributed among these distances:
80 17 0.09
81 174 0.91
ACGTcount: A:0.25, C:0.21, G:0.17, T:0.37
Consensus pattern (81 bp):
ATTTCTACCCTACAAGGGTATTTCGGTAATTCTACCCTACAGGGGTATTTCAATAATTCTACCCT
ACAAGGGTATTTCGGT
Found at i:53777304 original size:27 final size:27
Alignment explanation
Indices: 53777283--53777375 Score: 107
Period size: 27 Copynumber: 3.4 Consensus size: 27
53777273 TGGTACTTTG
*
53777283 GTAATTTAACAAGTCGAGGGTATTTCA
1 GTAATTTTACAAGTCGAGGGTATTTCA
*
53777310 ATAATTTTACAAGTCGAGGGTATTTCA
1 GTAATTTTACAAGTCGAGGGTATTTCA
* * * **
53777337 GTAATTTCACAAAT-TAGGGGTATTTTG
1 GTAATTTTACAAGTCGA-GGGTATTTCA
53777364 GTAATTTTACAA
1 GTAATTTTACAA
53777376 ACTAGGGGTA
Statistics
Matches: 56, Mismatches: 9, Indels: 2
0.84 0.13 0.03
Matches are distributed among these distances:
26 1 0.02
27 55 0.98
ACGTcount: A:0.33, C:0.10, G:0.19, T:0.38
Consensus pattern (27 bp):
GTAATTTTACAAGTCGAGGGTATTTCA
Found at i:53777364 original size:81 final size:81
Alignment explanation
Indices: 53777274--53777531 Score: 227
Period size: 81 Copynumber: 3.2 Consensus size: 81
53777264 ATAAATCAAT
* * **
53777274 GGTACTTTGGTAATTTAACAAGTCGA-GGGTATTTCAATAATTTTACAAGTC-GAGGGTATTTCA
1 GGTATTTTGGTAATTTAACAA-ACGAGGGGTATTTCAATAATTTTACAAACCAG-GGGTATTTCA
**
53777337 GTAATTTCACAAATTAGG
64 GTAATTTCACAAACCAGG
* * ** **
53777355 GGTATTTTGGTAATTTTACAAACTAGGGGTATTTTGATAATTTTACAAACCAGGGGTATTTTGGT
1 GGTATTTTGGTAATTTAACAAACGAGGGGTATTTCAATAATTTTACAAACCAGGGGTATTTCAGT
*
53777420 AATTTTACAAACCAGG
66 AATTTCACAAACCAGG
* * * * * * * **
53777436 GGTATTTTGGTGATTTTATAAACCAAGGGTA-TTCTAGTAATTTTACAAACCAAGGGTATTTTGG
1 GGTATTTTGGTAATTTAACAAACGAGGGGTATTTC-AATAATTTTACAAACCAGGGGTATTTCAG
** * *
53777500 TAATTT-GTAAACAAAG
65 TAATTTCACAAACCAGG
53777516 GGTATTTTGGTAATTT
1 GGTATTTTGGTAATTT
53777532 CGTAAACTAA
Statistics
Matches: 148, Mismatches: 26, Indels: 7
0.82 0.14 0.04
Matches are distributed among these distances:
80 25 0.17
81 122 0.82
82 1 0.01
ACGTcount: A:0.31, C:0.09, G:0.21, T:0.38
Consensus pattern (81 bp):
GGTATTTTGGTAATTTAACAAACGAGGGGTATTTCAATAATTTTACAAACCAGGGGTATTTCAGT
AATTTCACAAACCAGG
Found at i:53777376 original size:27 final size:27
Alignment explanation
Indices: 53777327--53777531 Score: 252
Period size: 27 Copynumber: 7.6 Consensus size: 27
53777317 TACAAGTCGA
** * **
53777327 GGGTATTTCAGTAATTTCACAAATTAG
1 GGGTATTTTGGTAATTTTACAAACCAG
*
53777354 GGGTATTTTGGTAATTTTACAAACTAG
1 GGGTATTTTGGTAATTTTACAAACCAG
*
53777381 GGGTATTTTGATAATTTTACAAACCAG
1 GGGTATTTTGGTAATTTTACAAACCAG
53777408 GGGTATTTTGGTAATTTTACAAACCAG
1 GGGTATTTTGGTAATTTTACAAACCAG
* * *
53777435 GGGTATTTTGGTGATTTTATAAACCAA
1 GGGTATTTTGGTAATTTTACAAACCAG
* * *
53777462 GGGTATTCTAGTAATTTTACAAACCAA
1 GGGTATTTTGGTAATTTTACAAACCAG
* *
53777489 GGGTATTTTGGTAATTTGT--AAACAAA
1 GGGTATTTTGGTAATTT-TACAAACCAG
53777515 GGGTATTTTGGTAATTT
1 GGGTATTTTGGTAATTT
53777532 CGTAAACTAA
Statistics
Matches: 160, Mismatches: 17, Indels: 3
0.89 0.09 0.02
Matches are distributed among these distances:
26 23 0.14
27 136 0.85
28 1 0.01
ACGTcount: A:0.31, C:0.09, G:0.21, T:0.39
Consensus pattern (27 bp):
GGGTATTTTGGTAATTTTACAAACCAG
Found at i:53777385 original size:54 final size:54
Alignment explanation
Indices: 53777274--53777531 Score: 252
Period size: 54 Copynumber: 4.8 Consensus size: 54
53777264 ATAAATCAAT
* * ** * *** **
53777274 GGTACTTTGGTAATTTAACAAGTCGAGGGTATTTCAATAATTTTACAAGTC-GAG
1 GGTATTTTGGTAATTTTACAAACCAAGGGTATTTTGGTAATTTTACAAACCAG-G
** * ** * *
53777328 GGTATTTCAGTAATTTCACAAATTAGGGGTATTTTGGTAATTTTACAAACTAGG
1 GGTATTTTGGTAATTTTACAAACCAAGGGTATTTTGGTAATTTTACAAACCAGG
* *
53777382 GGTATTTTGATAATTTTACAAACCAGGGGTATTTTGGTAATTTTACAAACCAGG
1 GGTATTTTGGTAATTTTACAAACCAAGGGTATTTTGGTAATTTTACAAACCAGG
* * * * *
53777436 GGTATTTTGGTGATTTTATAAACCAAGGGTATTCTAGTAATTTTACAAACCAAG
1 GGTATTTTGGTAATTTTACAAACCAAGGGTATTTTGGTAATTTTACAAACCAGG
*
53777490 GGTATTTTGGTAATTTGT--AAACAAAGGGTATTTTGGTAATTT
1 GGTATTTTGGTAATTT-TACAAACCAAGGGTATTTTGGTAATTT
53777532 CGTAAACTAA
Statistics
Matches: 170, Mismatches: 32, Indels: 5
0.82 0.15 0.02
Matches are distributed among these distances:
53 21 0.12
54 147 0.86
55 2 0.01
ACGTcount: A:0.31, C:0.09, G:0.21, T:0.38
Consensus pattern (54 bp):
GGTATTTTGGTAATTTTACAAACCAAGGGTATTTTGGTAATTTTACAAACCAGG
Found at i:53777546 original size:26 final size:25
Alignment explanation
Indices: 53777409--53777547 Score: 86
Period size: 27 Copynumber: 5.2 Consensus size: 25
53777399 ACAAACCAGG
**
53777409 GGTATTTTGGTAATTT-TACAAACCAGG
1 GGTATTTTGGTAATTTGT--AAA-CAAA
* * *
53777436 GGTATTTTGGTGATTTTATAAACCAAG
1 GGTATTTTGGT-AATTTGTAAA-CAAA
* * *
53777463 GGTATTCTAGTAATTT-TACAAACCAAG
1 GGTATTTTGGTAATTTGT--AAA-CAAA
53777490 GGTATTTTGGTAATTTGTAAACAAA
1 GGTATTTTGGTAATTTGTAAACAAA
53777515 GGGTATTTTGGTAATTTCGTAAACTAAA
1 -GGTATTTTGGTAATTT-GTAAAC-AAA
53777543 -GTATT
1 GGTATT
53777548 CTAAACAGGG
Statistics
Matches: 96, Mismatches: 8, Indels: 17
0.79 0.07 0.14
Matches are distributed among these distances:
25 4 0.04
26 28 0.29
27 55 0.57
28 8 0.08
29 1 0.01
ACGTcount: A:0.32, C:0.09, G:0.20, T:0.39
Consensus pattern (25 bp):
GGTATTTTGGTAATTTGTAAACAAA
Found at i:53779491 original size:6 final size:6
Alignment explanation
Indices: 53779480--53779564 Score: 77
Period size: 6 Copynumber: 13.8 Consensus size: 6
53779470 TATCAAAACT
* *
53779480 AGAATC AGAATC AGAATC AGAATC AG-GTGAC AAAATC AGAATC AGAATC
1 AGAATC AGAATC AGAATC AGAATC AGAAT--C AGAATC AGAATC AGAATC
*
53779529 AGAATC A-ATATC AGGTAA-C AGAATC AAAATC AGAAT
1 AGAATC AGA-ATC A-G-AATC AGAATC AGAATC AGAAT
53779565 GTGAATACAA
Statistics
Matches: 65, Mismatches: 6, Indels: 16
0.75 0.07 0.18
Matches are distributed among these distances:
5 4 0.06
6 54 0.83
7 4 0.06
8 2 0.03
9 1 0.02
ACGTcount: A:0.51, C:0.15, G:0.16, T:0.18
Consensus pattern (6 bp):
AGAATC
Found at i:53779492 original size:18 final size:18
Alignment explanation
Indices: 53779482--53779564 Score: 71
Period size: 19 Copynumber: 4.5 Consensus size: 18
53779472 TCAAAACTAG
*
53779482 AATCAGAATCAGAATCAG
1 AATCAGAATCAGAATCAA
* * *
53779500 AATCAG-GTGACAAAATCAG
1 AATCAGAAT--CAGAATCAA
53779519 AATCAGAATCAGAATCAA
1 AATCAGAATCAGAATCAA
*
53779537 TATCAGGTAA-CAGAATCAA
1 AATCA-G-AATCAGAATCAA
53779556 AATCAGAAT
1 AATCAGAAT
53779565 GTGAATACAA
Statistics
Matches: 52, Mismatches: 7, Indels: 12
0.73 0.10 0.17
Matches are distributed among these distances:
17 3 0.06
18 18 0.35
19 28 0.54
20 3 0.06
ACGTcount: A:0.51, C:0.16, G:0.16, T:0.18
Consensus pattern (18 bp):
AATCAGAATCAGAATCAA
Found at i:53779521 original size:37 final size:37
Alignment explanation
Indices: 53779480--53779564 Score: 127
Period size: 37 Copynumber: 2.3 Consensus size: 37
53779470 TATCAAAACT
*
53779480 AGAATCAGAATCAGAATCAGA-ATCAGGTGACAAAATC
1 AGAATCAGAATCAGAATCA-ATATCAGGTAACAAAATC
*
53779517 AGAATCAGAATCAGAATCAATATCAGGTAACAGAATC
1 AGAATCAGAATCAGAATCAATATCAGGTAACAAAATC
*
53779554 AAAATCAGAAT
1 AGAATCAGAAT
53779565 GTGAATACAA
Statistics
Matches: 44, Mismatches: 3, Indels: 2
0.90 0.06 0.04
Matches are distributed among these distances:
36 1 0.02
37 43 0.98
ACGTcount: A:0.51, C:0.15, G:0.16, T:0.18
Consensus pattern (37 bp):
AGAATCAGAATCAGAATCAATATCAGGTAACAAAATC
Found at i:53779745 original size:27 final size:26
Alignment explanation
Indices: 53779683--53779801 Score: 157
Period size: 27 Copynumber: 4.5 Consensus size: 26
53779673 AGCATGGCTG
* * *
53779683 CCAGAACAGATAATGTGACAAAGTCA
1 CCAGAACAGATAATGTGGCAGAGCCA
53779709 CCAGAACAGATAATCGTGGCAGAGCCA
1 CCAGAACAGATAAT-GTGGCAGAGCCA
53779736 CCAGAACAGATATATGTGGCAGAGCCA
1 CCAGAACAGATA-ATGTGGCAGAGCCA
* *
53779763 CCAGATCAGATAATTGTGGCATAGCCA
1 CCAGAACAGATAA-TGTGGCAGAGCCA
*
53779790 CCAGGACAGATA
1 CCAGAACAGATA
53779802 TATATATATG
Statistics
Matches: 83, Mismatches: 7, Indels: 5
0.87 0.07 0.05
Matches are distributed among these distances:
26 15 0.18
27 66 0.80
28 2 0.02
ACGTcount: A:0.39, C:0.23, G:0.24, T:0.15
Consensus pattern (26 bp):
CCAGAACAGATAATGTGGCAGAGCCA
Found at i:53779773 original size:54 final size:54
Alignment explanation
Indices: 53779683--53779804 Score: 174
Period size: 54 Copynumber: 2.3 Consensus size: 54
53779673 AGCATGGCTG
*
53779683 CCAGAACAGATA-ATGTGACAAAGTCACCAGAACAGATAATCGTGGCAGAGCCA
1 CCAGAACAGATATATGTGACAAAGCCACCAGAACAGATAATCGTGGCAGAGCCA
* * * * *
53779736 CCAGAACAGATATATGTGGCAGAGCCACCAGATCAGATAATTGTGGCATAGCCA
1 CCAGAACAGATATATGTGACAAAGCCACCAGAACAGATAATCGTGGCAGAGCCA
*
53779790 CCAGGACAGATATAT
1 CCAGAACAGATATAT
53779805 ATATATGTGG
Statistics
Matches: 61, Mismatches: 7, Indels: 1
0.88 0.10 0.01
Matches are distributed among these distances:
53 12 0.20
54 49 0.80
ACGTcount: A:0.39, C:0.22, G:0.23, T:0.16
Consensus pattern (54 bp):
CCAGAACAGATATATGTGACAAAGCCACCAGAACAGATAATCGTGGCAGAGCCA
Found at i:53780565 original size:27 final size:27
Alignment explanation
Indices: 53780073--53780557 Score: 610
Period size: 27 Copynumber: 18.0 Consensus size: 27
53780063 GGGGTAAAAT
* * ** *
53780073 GGTAATTTTACCCCACAATGGTATCTC
1 GGTAATTCTACCCTACAGGGGTATTTC
*
53780100 GGTAATTCTACCCTACATGGGTATTTC
1 GGTAATTCTACCCTACAGGGGTATTTC
*
53780127 AGTAATTCTACCCTACAGGGGTATTTC
1 GGTAATTCTACCCTACAGGGGTATTTC
* * *
53780154 GGTATTTCTACCTTACAAGGGTATTTC
1 GGTAATTCTACCCTACAGGGGTATTTC
*
53780181 GGTAATTCTACCGTACAGGGGTATTTC
1 GGTAATTCTACCCTACAGGGGTATTTC
* * *
53780208 GGTATTTCTACCTTACAAGGGTATTTC
1 GGTAATTCTACCCTACAGGGGTATTTC
*
53780235 GGTAATTCTACCCTACAGGGGTATTTT
1 GGTAATTCTACCCTACAGGGGTATTTC
* *
53780262 AGTAATTCTACCCTATAGGGGTATTTC
1 GGTAATTCTACCCTACAGGGGTATTTC
* *
53780289 GGTATTTCTACCCTATAGGGGTATTTC
1 GGTAATTCTACCCTACAGGGGTATTTC
* *
53780316 GGTATTTCTATCCTACAGGGGTATTTC
1 GGTAATTCTACCCTACAGGGGTATTTC
* * *
53780343 GATATTTCTACCCTACAAGGGTATTTC
1 GGTAATTCTACCCTACAGGGGTATTTC
* *
53780370 GGGAATTCTACCCTATAGGGGTATTTC
1 GGTAATTCTACCCTACAGGGGTATTTC
53780397 GGTAATTCTACCCTACAGGGGTATTTC
1 GGTAATTCTACCCTACAGGGGTATTTC
* **
53780424 GGTAATTCTACCCTATAACGGTATTTC
1 GGTAATTCTACCCTACAGGGGTATTTC
* * *
53780451 GATATTTCTACCCTACAAGGGTATTTC
1 GGTAATTCTACCCTACAGGGGTATTTC
* * *
53780478 GATATTTCTACCCTACAAGGGTATTTC
1 GGTAATTCTACCCTACAGGGGTATTTC
* * *
53780505 AGTATTTCTACCCTACAAGGGTATTTC
1 GGTAATTCTACCCTACAGGGGTATTTC
* *
53780532 GATAATTCTACCTTACAGGGGTATTT
1 GGTAATTCTACCCTACAGGGGTATTT
53780558 TAATAATTTT
Statistics
Matches: 406, Mismatches: 52, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
27 406 1.00
ACGTcount: A:0.24, C:0.20, G:0.19, T:0.37
Consensus pattern (27 bp):
GGTAATTCTACCCTACAGGGGTATTTC
Found at i:53780580 original size:27 final size:27
Alignment explanation
Indices: 53780550--53780891 Score: 176
Period size: 27 Copynumber: 12.7 Consensus size: 27
53780540 TACCTTACAG
**
53780550 GGGTATTTTAATAATTTTGTAAATCGA
1 GGGTATTTTAATAATTTTACAAATCGA
***** * * *
53780577 GGGTAAAACGATAATTCTATAAATCAA
1 GGGTATTTTAATAATTTTACAAATCGA
* ** *
53780604 GGGTACTTTGGTAATTTTACAAGTCGA
1 GGGTATTTTAATAATTTTACAAATCGA
*
53780631 GGGTATTTTAATAATTTTACAAGTCGA
1 GGGTATTTTAATAATTTTACAAATCGA
* * *
53780658 GGGTATTTCAGTAATTTCACAAATC-A
1 GGGTATTTTAATAATTTTACAAATCGA
** *
53780684 GGGGTATTTTGGTAATTTTACAAA-CTA
1 -GGGTATTTTAATAATTTTACAAATCGA
* *
53780711 GGGGTATTTTGATAATTTTACAAA-CTA
1 -GGGTATTTTAATAATTTTACAAATCGA
** *
53780738 GGGGTATTTTGGTAATTTTACAAAGTAG-
1 -GGGTATTTTAATAATTTTACAAA-TCGA
* * *
53780766 GGGTATTTTGATAATTGTACAAA-CCA
1 GGGTATTTTAATAATTTTACAAATCGA
** *
53780792 GGGGTATTTTGGTAATTTTACAAA-CTA
1 -GGGTATTTTAATAATTTTACAAATCGA
** * * * *
53780819 GGGGTATTTTGGTGATTTTATAAACCAA
1 -GGGTATTTTAATAATTTTACAAATCGA
* * * *
53780847 AGGTATTCTAGTAATTTTACAAA-CAA
1 GGGTATTTTAATAATTTTACAAATCGA
**
53780873 GGGGTATTTTGGTAATTTT
1 -GGGTATTTTAATAATTTT
53780892 GTAAACCAAG
Statistics
Matches: 258, Mismatches: 49, Indels: 16
0.80 0.15 0.05
Matches are distributed among these distances:
26 5 0.02
27 251 0.97
28 2 0.01
ACGTcount: A:0.32, C:0.08, G:0.21, T:0.39
Consensus pattern (27 bp):
GGGTATTTTAATAATTTTACAAATCGA
Found at i:53780673 original size:81 final size:81
Alignment explanation
Indices: 53780548--53780815 Score: 222
Period size: 81 Copynumber: 3.3 Consensus size: 81
53780538 TCTACCTTAC
** *
53780548 AGGGGTATTTTAATAATTTTGTAAATCGAGGGTAAAACGATAA-TTCTATAAATCAAGGGTACTT
1 AGGGGTATTTTAATAATTTTACAAATCGAGGGTAAAACGATAATTTC-ACAAATCAAGGGTACTT
*
53780612 TGGTAATTTTACAAGTCG
65 TGGTAATTTTACAA-ACG
* *** * *
53780630 A-GGGTATTTTAATAATTTTACAAGTCGAGGGTATTTC-AGTAATTTCACAAATCAGGGGTATTT
1 AGGGGTATTTTAATAATTTTACAAATCGAGGGTAAAACGA-TAATTTCACAAATCAAGGGTACTT
*
53780693 TGGTAATTTTACAAACT
65 TGGTAATTTTACAAACG
* * **** * * * *
53780710 AGGGGTATTTTGATAATTTTACAAA-CTAGGGGTATTTTGGTAATTTTACAAAGT-AGGGGTATT
1 AGGGGTATTTTAATAATTTTACAAATCGA-GGGTAAAACGATAATTTCACAAA-TCAAGGGTACT
* * *
53780773 TTGATAATTGTACAAACC
64 TTGGTAATTTTACAAACG
**
53780791 AGGGGTATTTTGGTAATTTTACAAA
1 AGGGGTATTTTAATAATTTTACAAA
53780816 CTAGGGGTAT
Statistics
Matches: 159, Mismatches: 21, Indels: 13
0.82 0.11 0.07
Matches are distributed among these distances:
80 5 0.03
81 149 0.94
82 5 0.03
ACGTcount: A:0.33, C:0.08, G:0.21, T:0.38
Consensus pattern (81 bp):
AGGGGTATTTTAATAATTTTACAAATCGAGGGTAAAACGATAATTTCACAAATCAAGGGTACTTT
GGTAATTTTACAAACG
Found at i:53780897 original size:27 final size:27
Alignment explanation
Indices: 53780604--53780917 Score: 328
Period size: 27 Copynumber: 11.6 Consensus size: 27
53780594 TATAAATCAA
* * *
53780604 GGGTACTTTGGTAATTTTAC-AAGTCG
1 GGGTATTTTGGTAATTTTACAAACTAG
** * *
53780630 AGGGTATTTTAATAATTTTAC-AAGTCG
1 -GGGTATTTTGGTAATTTTACAAACTAG
** *
53780657 AGGGTATTTCAGTAATTTCACAAA-TCAG
1 -GGGTATTTTGGTAATTTTACAAACT-AG
53780685 GGGTATTTTGGTAATTTTACAAACTAG
1 GGGTATTTTGGTAATTTTACAAACTAG
*
53780712 GGGTATTTTGATAATTTTACAAACTAG
1 GGGTATTTTGGTAATTTTACAAACTAG
*
53780739 GGGTATTTTGGTAATTTTACAAAGTAG
1 GGGTATTTTGGTAATTTTACAAACTAG
* * *
53780766 GGGTATTTTGATAATTGTACAAACCAG
1 GGGTATTTTGGTAATTTTACAAACTAG
53780793 GGGTATTTTGGTAATTTTACAAACTAG
1 GGGTATTTTGGTAATTTTACAAACTAG
* * * *
53780820 GGGTATTTTGGTGATTTTATAAACCAA
1 GGGTATTTTGGTAATTTTACAAACTAG
* * * *
53780847 AGGTATTCTAGTAATTTTACAAACAAG
1 GGGTATTTTGGTAATTTTACAAACTAG
** * *
53780874 GGGTATTTTGGTAATTTTGTAAACCAA
1 GGGTATTTTGGTAATTTTACAAACTAG
*
53780901 GGGTAGTTTGGTAATTT
1 GGGTATTTTGGTAATTT
53780918 CCTAAACTAA
Statistics
Matches: 245, Mismatches: 39, Indels: 6
0.84 0.13 0.02
Matches are distributed among these distances:
27 241 0.98
28 4 0.02
ACGTcount: A:0.31, C:0.08, G:0.22, T:0.39
Consensus pattern (27 bp):
GGGTATTTTGGTAATTTTACAAACTAG
Found at i:53783654 original size:57 final size:57
Alignment explanation
Indices: 53783600--53783707 Score: 139
Period size: 57 Copynumber: 1.9 Consensus size: 57
53783590 CTATATATAG
* * *
53783600 CCCACTAGG-CCTAATCTC-TTTCATATGGCCAATGAGGCCCAAATCACATTTATATGA
1 CCCACTAGGCCCAAATCACATTT-ATATGGCC-ATGAGGCCCAAAACACATTTATATGA
* *
53783657 CCCATTAGGCCCAAATCACATTTATATGGCCATTAGGCCCAAAACACATTT
1 CCCACTAGGCCCAAATCACATTTATATGGCCATGAGGCCCAAAACACATTT
53783708 GCAGTCATGC
Statistics
Matches: 44, Mismatches: 5, Indels: 4
0.83 0.09 0.08
Matches are distributed among these distances:
57 26 0.59
58 15 0.34
59 3 0.07
ACGTcount: A:0.31, C:0.29, G:0.13, T:0.27
Consensus pattern (57 bp):
CCCACTAGGCCCAAATCACATTTATATGGCCATGAGGCCCAAAACACATTTATATGA
Found at i:53783698 original size:28 final size:28
Alignment explanation
Indices: 53783622--53783707 Score: 127
Period size: 29 Copynumber: 3.0 Consensus size: 28
53783612 AATCTCTTTC
*
53783622 ATATGGCCAATGAGGCCCAAATCACATTT
1 ATATGGCC-ATTAGGCCCAAATCACATTT
*
53783651 ATATGACCCATTAGGCCCAAATCACATTT
1 ATATG-GCCATTAGGCCCAAATCACATTT
*
53783680 ATATGGCCATTAGGCCCAAAACACATTT
1 ATATGGCCATTAGGCCCAAATCACATTT
53783708 GCAGTCATGC
Statistics
Matches: 52, Mismatches: 4, Indels: 3
0.88 0.07 0.05
Matches are distributed among these distances:
28 21 0.40
29 29 0.56
30 2 0.04
ACGTcount: A:0.35, C:0.26, G:0.14, T:0.26
Consensus pattern (28 bp):
ATATGGCCATTAGGCCCAAATCACATTT
Found at i:53787793 original size:21 final size:21
Alignment explanation
Indices: 53787769--53787816 Score: 78
Period size: 21 Copynumber: 2.3 Consensus size: 21
53787759 TCATCTTCAG
* *
53787769 CAACTTCTTCTTCTTCAGCAA
1 CAACTTCCTCTTCTGCAGCAA
53787790 CAACTTCCTCTTCTGCAGCAA
1 CAACTTCCTCTTCTGCAGCAA
53787811 CAACTT
1 CAACTT
53787817 TGTTCTCAAC
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:0.25, C:0.35, G:0.06, T:0.33
Consensus pattern (21 bp):
CAACTTCCTCTTCTGCAGCAA
Found at i:53787796 original size:18 final size:18
Alignment explanation
Indices: 53787762--53787816 Score: 56
Period size: 21 Copynumber: 2.9 Consensus size: 18
53787752 TTCTTTTTCA
**
53787762 TCTTCAGCAACTTCTTCT
1 TCTTCAGCAACAACTTCT
53787780 TCTTCAGCAACAACTTCCTCT
1 TCTTCAGCAACAAC-T--TCT
*
53787801 TCTGCAGCAACAACTT
1 TCTTCAGCAACAACTT
53787817 TGTTCTCAAC
Statistics
Matches: 31, Mismatches: 3, Indels: 6
0.77 0.08 0.15
Matches are distributed among these distances:
18 13 0.42
19 1 0.03
20 1 0.03
21 16 0.52
ACGTcount: A:0.24, C:0.35, G:0.07, T:0.35
Consensus pattern (18 bp):
TCTTCAGCAACAACTTCT
Found at i:53792222 original size:13 final size:13
Alignment explanation
Indices: 53792204--53792228 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
53792194 TAATGGTATA
53792204 TTGAATCCATGAT
1 TTGAATCCATGAT
53792217 TTGAATCCATGA
1 TTGAATCCATGA
53792229 AAATTTAGTA
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.32, C:0.16, G:0.16, T:0.36
Consensus pattern (13 bp):
TTGAATCCATGAT
Found at i:53793797 original size:47 final size:48
Alignment explanation
Indices: 53793743--53793843 Score: 186
Period size: 49 Copynumber: 2.1 Consensus size: 48
53793733 TATTTGAGTA
53793743 AATGTGAAAGTG-TATATATGTGATAAGGCCTAATGGCCGATGTGATG
1 AATGTGAAAGTGATATATATGTGATAAGGCCTAATGGCCGATGTGATG
53793790 AATGTGAAAGTGTATATATATGTGATAAGGCCTAATGGCCGATGTGATG
1 AATGTGAAAGTG-ATATATATGTGATAAGGCCTAATGGCCGATGTGATG
53793839 AATGT
1 AATGT
53793844 AAGGCCTAAT
Statistics
Matches: 52, Mismatches: 0, Indels: 2
0.96 0.00 0.04
Matches are distributed among these distances:
47 12 0.23
49 40 0.77
ACGTcount: A:0.33, C:0.08, G:0.29, T:0.31
Consensus pattern (48 bp):
AATGTGAAAGTGATATATATGTGATAAGGCCTAATGGCCGATGTGATG
Found at i:53793855 original size:28 final size:28
Alignment explanation
Indices: 53793815--53793871 Score: 114
Period size: 28 Copynumber: 2.0 Consensus size: 28
53793805 ATATATGTGA
53793815 TAAGGCCTAATGGCCGATGTGATGAATG
1 TAAGGCCTAATGGCCGATGTGATGAATG
53793843 TAAGGCCTAATGGCCGATGTGATGAATG
1 TAAGGCCTAATGGCCGATGTGATGAATG
53793871 T
1 T
53793872 GAAAGTGTAT
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
28 29 1.00
ACGTcount: A:0.28, C:0.14, G:0.32, T:0.26
Consensus pattern (28 bp):
TAAGGCCTAATGGCCGATGTGATGAATG
Found at i:53793855 original size:77 final size:75
Alignment explanation
Indices: 53793766--53793918 Score: 279
Period size: 75 Copynumber: 2.0 Consensus size: 75
53793756 ATATATGTGA
53793766 TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATATGTGATAAGGCCTAATGGCCG
1 TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTG--TATATATGTGATAAGGCCTAATGGCCG
*
53793831 ATGTGATGAATG
64 ATGTGAAGAATG
53793843 TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGAT
1 TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGAT
53793908 GTGAAGAATG
66 GTGAAGAATG
53793918 T
1 T
53793919 GAAAGTGTAT
Statistics
Matches: 75, Mismatches: 1, Indels: 2
0.96 0.01 0.03
Matches are distributed among these distances:
75 39 0.52
77 36 0.48
ACGTcount: A:0.31, C:0.10, G:0.30, T:0.28
Consensus pattern (75 bp):
TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGAT
GTGAAGAATG
Found at i:53793896 original size:47 final size:47
Alignment explanation
Indices: 53793843--53794567 Score: 1103
Period size: 47 Copynumber: 15.1 Consensus size: 47
53793833 GTGATGAATG
53793843 TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGA
1 TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGA
*
53793890 TAAGGCCTAATGGCCGATGTGAAGAATGTGAAAGTGTATATATGTGA
1 TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGA
* *
53793937 TAAGGCCTAATAGCCAATGTGATGAATGTGAAAGTGTATATATGTGA
1 TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGA
53793984 TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGA
1 TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGA
*
53794031 TAAGGCCTAATAGCCGATGTGATGAATGTGAAAGTGTATATATGTGA
1 TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGA
* *
53794078 TAAGGCCTAATGGCCGATGTGATGTGGCCGATGTGATGAATGTGAAAGCGTATATATCTGA
1 TAAGGCCTAATGGCC-----GATGT----GA--TG---AATGTGAAAGTGTATATATGTGA
*
53794139 TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGCGTATATATGTGA
1 TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGA
*
53794186 TAAGGCCTAATAGCCGATGTGATGAATGTGAAAGTGTATATATATGTGA
1 TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTG--TATATATGTGA
53794235 TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGA
1 TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGA
*
53794282 TAAGGCCTAATAGCCGATGTGATGAATGTGAAAGTGTATATATGTGA
1 TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGA
53794329 TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGA
1 TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGA
* *
53794376 TAAGGTCTAATAGCCGATGTGATGAATGTGAAAGTGTATATATATGTGA
1 TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTG--TATATATGTGA
53794425 TAAGGCCTAATGGCCGATGTGATGAATGTGAAA--GTATATATGTGA
1 TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGA
53794470 TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGA
1 TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGA
* * * * * * * *
53794517 CAGGGCCGAGTGGCCAACGTGATGGATGTGAAAGTGTATAAATGTGA
1 TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGA
53794564 TAAG
1 TAAG
53794568 TCCCGAAGGG
Statistics
Matches: 628, Mismatches: 30, Indels: 40
0.90 0.04 0.06
Matches are distributed among these distances:
45 44 0.07
47 442 0.70
49 88 0.14
50 2 0.00
52 7 0.01
56 7 0.01
58 2 0.00
61 36 0.06
ACGTcount: A:0.33, C:0.09, G:0.29, T:0.29
Consensus pattern (47 bp):
TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGA
Found at i:53794107 original size:14 final size:14
Alignment explanation
Indices: 53794088--53794115 Score: 56
Period size: 14 Copynumber: 2.0 Consensus size: 14
53794078 TAAGGCCTAA
53794088 TGGCCGATGTGATG
1 TGGCCGATGTGATG
53794102 TGGCCGATGTGATG
1 TGGCCGATGTGATG
53794116 AATGTGAAAG
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 14 1.00
ACGTcount: A:0.14, C:0.14, G:0.43, T:0.29
Consensus pattern (14 bp):
TGGCCGATGTGATG
Found at i:53794117 original size:61 final size:61
Alignment explanation
Indices: 53794043--53794162 Score: 222
Period size: 61 Copynumber: 2.0 Consensus size: 61
53794033 AGGCCTAATA
* *
53794043 GCCGATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGTG
1 GCCGATGTGATGAATGTGAAAGCGTATATATCTGATAAGGCCTAATGGCCGATGTGATGTG
53794104 GCCGATGTGATGAATGTGAAAGCGTATATATCTGATAAGGCCTAATGGCCGATGTGATG
1 GCCGATGTGATGAATGTGAAAGCGTATATATCTGATAAGGCCTAATGGCCGATGTGATG
53794163 AATGTGAAAG
Statistics
Matches: 57, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
61 57 1.00
ACGTcount: A:0.28, C:0.12, G:0.32, T:0.28
Consensus pattern (61 bp):
GCCGATGTGATGAATGTGAAAGCGTATATATCTGATAAGGCCTAATGGCCGATGTGATGTG
Found at i:53794125 original size:108 final size:108
Alignment explanation
Indices: 53793994--53794305 Score: 477
Period size: 108 Copynumber: 3.0 Consensus size: 108
53793984 TAAGGCCTAA
*
53793994 TGGCCGATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATAGCCGATGTGATGAATG
1 TGGCCGATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATG
*
53794059 TGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATG
66 TGAAAGTGTATATATGTGATAAGGCCTAATAGCCGATGTGATG
* *
53794102 TGGCCGATGTGATGAATGTGAAAGCGTATATATCTGATAAGGCCTAATGGCCGATGTGATGAATG
1 TGGCCGATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATG
*
53794167 TGAAAGCGTATATATGTGATAAGGCCTAATAGCCGATGTGA--
66 TGAAAGTGTATATATGTGATAAGGCCTAATAGCCGATGTGATG
* *
53794208 T-G--AATGTGA--AA-GT----GTATATATATGTGATAAGGCCTAATGGCCGATGTGATGAATG
1 TGGCCGATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATG
53794263 TGAAAGTGTATATATGTGATAAGGCCTAATAGCCGATGTGATG
66 TGAAAGTGTATATATGTGATAAGGCCTAATAGCCGATGTGATG
53794306 AATGTGAAAG
Statistics
Matches: 192, Mismatches: 10, Indels: 14
0.89 0.05 0.06
Matches are distributed among these distances:
96 79 0.41
100 2 0.01
101 2 0.01
103 6 0.03
105 1 0.01
106 1 0.01
108 101 0.53
ACGTcount: A:0.31, C:0.10, G:0.29, T:0.29
Consensus pattern (108 bp):
TGGCCGATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATG
TGAAAGTGTATATATGTGATAAGGCCTAATAGCCGATGTGATG
Found at i:53794742 original size:37 final size:37
Alignment explanation
Indices: 53794686--53794756 Score: 115
Period size: 37 Copynumber: 1.9 Consensus size: 37
53794676 CCGAGCTCTA
* *
53794686 AAGACCCGATGACTACGTGTGGAGATTTTGTCTGGGT
1 AAGACCCGATAACTACGTGTGGAGATTTCGTCTGGGT
*
53794723 AAGACCCGATAACTTCGTGTGGAGATTTCGTCTG
1 AAGACCCGATAACTACGTGTGGAGATTTCGTCTG
53794757 AGCTAAAGGT
Statistics
Matches: 31, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
37 31 1.00
ACGTcount: A:0.23, C:0.18, G:0.30, T:0.30
Consensus pattern (37 bp):
AAGACCCGATAACTACGTGTGGAGATTTCGTCTGGGT
Found at i:53795792 original size:44 final size:44
Alignment explanation
Indices: 53795679--53795829 Score: 150
Period size: 44 Copynumber: 3.5 Consensus size: 44
53795669 TATGTGTTTT
* *
53795679 TGTGTAAGACCACGTCTACGACGTT-GCATCGACTTATGATTTA
1 TGTGTAAGACCACGTCTAGGACGTTGGCATCGACTTATAATTTA
** * * * *
53795722 CATGTAAGACCATGTTTGGGATGTTGGCATCGACTTATAATTTA
1 TGTGTAAGACCACGTCTAGGACGTTGGCATCGACTTATAATTTA
*
53795766 TGTGTAAGACCACGCCTAGGACGTTGGCATCGTA-TT-TAATTTCA
1 TGTGTAAGACCACGTCTAGGACGTTGGCATCG-ACTTATAATTT-A
**
53795810 --TGTAAGACCTTGTCTAGGAC
1 TGTGTAAGACCACGTCTAGGAC
53795830 AATAGCGTGA
Statistics
Matches: 87, Mismatches: 18, Indels: 7
0.78 0.16 0.06
Matches are distributed among these distances:
42 17 0.20
43 24 0.28
44 45 0.52
45 1 0.01
ACGTcount: A:0.26, C:0.19, G:0.23, T:0.33
Consensus pattern (44 bp):
TGTGTAAGACCACGTCTAGGACGTTGGCATCGACTTATAATTTA
Found at i:53799576 original size:15 final size:15
Alignment explanation
Indices: 53799556--53799586 Score: 53
Period size: 15 Copynumber: 2.1 Consensus size: 15
53799546 GTAAGAGTTA
53799556 CCATAACAATTGTTG
1 CCATAACAATTGTTG
*
53799571 CCATAATAATTGTTG
1 CCATAACAATTGTTG
53799586 C
1 C
53799587 AGATGTTGTG
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:0.32, C:0.19, G:0.13, T:0.35
Consensus pattern (15 bp):
CCATAACAATTGTTG
Found at i:53802154 original size:15 final size:17
Alignment explanation
Indices: 53802124--53802155 Score: 50
Period size: 15 Copynumber: 2.0 Consensus size: 17
53802114 TTGAAACTTG
53802124 TGAATGTGAGTTTGGTA
1 TGAATGTGAGTTTGGTA
53802141 TGAAT-TGA-TTTGGTA
1 TGAATGTGAGTTTGGTA
53802156 AATTATGCTA
Statistics
Matches: 15, Mismatches: 0, Indels: 2
0.88 0.00 0.12
Matches are distributed among these distances:
15 7 0.47
16 3 0.20
17 5 0.33
ACGTcount: A:0.25, C:0.00, G:0.31, T:0.44
Consensus pattern (17 bp):
TGAATGTGAGTTTGGTA
Found at i:53813057 original size:29 final size:29
Alignment explanation
Indices: 53813018--53813096 Score: 106
Period size: 29 Copynumber: 2.7 Consensus size: 29
53813008 CTTAATAATC
*
53813018 AACCACGCACACTTAGTGCCATGTACTTT-A
1 AACC-CGCACACTTAGTGCCATGCA-TTTCA
*
53813048 AACTCGCACACTTAGTGCCATGCATTTCA
1 AACCCGCACACTTAGTGCCATGCATTTCA
*
53813077 AGCCCGCACACTTAGTGCCA
1 AACCCGCACACTTAGTGCCA
53813097 ATCTCACAAC
Statistics
Matches: 44, Mismatches: 4, Indels: 3
0.86 0.08 0.06
Matches are distributed among these distances:
28 3 0.07
29 38 0.86
30 3 0.07
ACGTcount: A:0.28, C:0.33, G:0.15, T:0.24
Consensus pattern (29 bp):
AACCCGCACACTTAGTGCCATGCATTTCA
Found at i:53820039 original size:33 final size:33
Alignment explanation
Indices: 53820002--53820068 Score: 125
Period size: 33 Copynumber: 2.0 Consensus size: 33
53819992 TTTTCAGCAT
53820002 ATTCATCCATGGAAAAATTTTCATAATTTGATA
1 ATTCATCCATGGAAAAATTTTCATAATTTGATA
*
53820035 ATTCATCCATGGAAAAATTTTCATACTTTGATA
1 ATTCATCCATGGAAAAATTTTCATAATTTGATA
53820068 A
1 A
53820069 CTTTTCAAAT
Statistics
Matches: 33, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
33 33 1.00
ACGTcount: A:0.39, C:0.13, G:0.09, T:0.39
Consensus pattern (33 bp):
ATTCATCCATGGAAAAATTTTCATAATTTGATA
Found at i:53825587 original size:28 final size:29
Alignment explanation
Indices: 53825555--53825669 Score: 137
Period size: 29 Copynumber: 4.0 Consensus size: 29
53825545 TACCTGTATT
* *
53825555 TGGCCCATTAAGCCC-AATCATATTCATA
1 TGGCCCATTAGGCCCAAATCACATTCATA
* *
53825583 TGGCCCATTAGGCCCAAATCACCTGT-AAA
1 TGGCCCATTAGGCCCAAATCACAT-TCATA
*
53825612 TGGCCCATTAGGCCCAAATCACATTTATA
1 TGGCCCATTAGGCCCAAATCACATTCATA
* *
53825641 TGGCCCGTTAGGCCC-AGTCACATTCATA
1 TGGCCCATTAGGCCCAAATCACATTCATA
53825669 T
1 T
53825670 TCATGCTCAC
Statistics
Matches: 75, Mismatches: 9, Indels: 6
0.83 0.10 0.07
Matches are distributed among these distances:
28 27 0.36
29 47 0.63
30 1 0.01
ACGTcount: A:0.29, C:0.30, G:0.16, T:0.26
Consensus pattern (29 bp):
TGGCCCATTAGGCCCAAATCACATTCATA
Found at i:53825617 original size:57 final size:58
Alignment explanation
Indices: 53825546--53825656 Score: 161
Period size: 58 Copynumber: 1.9 Consensus size: 58
53825536 AATTTCACAT
** *
53825546 ACCTGTATTTGGCCCATTAAGCCC-AATCATATTCATATGGCCCATTAGGCCCAAATC
1 ACCTGTAAATGGCCCATTAAGCCCAAATCACATTCATATGGCCCATTAGGCCCAAATC
* * *
53825603 ACCTGTAAATGGCCCATTAGGCCCAAATCACATTTATATGGCCCGTTAGGCCCA
1 ACCTGTAAATGGCCCATTAAGCCCAAATCACATTCATATGGCCCATTAGGCCCA
53825657 GTCACATTCA
Statistics
Matches: 47, Mismatches: 6, Indels: 1
0.87 0.11 0.02
Matches are distributed among these distances:
57 21 0.45
58 26 0.55
ACGTcount: A:0.28, C:0.30, G:0.16, T:0.26
Consensus pattern (58 bp):
ACCTGTAAATGGCCCATTAAGCCCAAATCACATTCATATGGCCCATTAGGCCCAAATC
Found at i:53827165 original size:15 final size:15
Alignment explanation
Indices: 53827145--53827174 Score: 60
Period size: 15 Copynumber: 2.0 Consensus size: 15
53827135 AGTTCAGGAT
53827145 TTCGGGATTTTTGGG
1 TTCGGGATTTTTGGG
53827160 TTCGGGATTTTTGGG
1 TTCGGGATTTTTGGG
53827175 GCGTTACAAC
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 15 1.00
ACGTcount: A:0.07, C:0.07, G:0.40, T:0.47
Consensus pattern (15 bp):
TTCGGGATTTTTGGG
Found at i:53830110 original size:56 final size:56
Alignment explanation
Indices: 53830024--53830143 Score: 231
Period size: 56 Copynumber: 2.1 Consensus size: 56
53830014 ACAAGGGATG
53830024 ATGGGCAAAACATGTCATGAAACATGTTGTGTTAATGGAAAAATAAAATAAGAAGC
1 ATGGGCAAAACATGTCATGAAACATGTTGTGTTAATGGAAAAATAAAATAAGAAGC
*
53830080 ATGGGCAAAACATGTCATGAAACATGTTGTGTTAATGGAAGAATAAAATAAGAAGC
1 ATGGGCAAAACATGTCATGAAACATGTTGTGTTAATGGAAAAATAAAATAAGAAGC
53830136 ATGGGCAA
1 ATGGGCAA
53830144 TAAACTAATA
Statistics
Matches: 63, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
56 63 1.00
ACGTcount: A:0.45, C:0.09, G:0.23, T:0.23
Consensus pattern (56 bp):
ATGGGCAAAACATGTCATGAAACATGTTGTGTTAATGGAAAAATAAAATAAGAAGC
Found at i:53831648 original size:47 final size:47
Alignment explanation
Indices: 53831594--53832047 Score: 696
Period size: 47 Copynumber: 9.6 Consensus size: 47
53831584 TATTTGAATA
53831594 AATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCAATGTGATG
1 AATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCAATGTGATG
53831641 AATGTGAAAGTGTATATATATGTGATAAGGCCTAATGGCCAATGTGATG
1 AATGTGAAAGTG--TATATATGTGATAAGGCCTAATGGCCAATGTGATG
*
53831690 AATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATG
1 AATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCAATGTGATG
*
53831737 AATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATG
1 AATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCAATGTGATG
* *
53831784 AATGTGAAAGTGTATATATATGTGATAACGCCTAATGGCCGATGTGATG
1 AATGTGAAAGTG--TATATATGTGATAAGGCCTAATGGCCAATGTGATG
*
53831833 AATGTGAAAGTGTATATATGTGATAAGGCCGAATGGCCAATGTGATG
1 AATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCAATGTGATG
* * * *
53831880 AATGTGAACA-TGTGTATGTGTGATAAGGTCGAATGGCCAATGTGATG
1 AATGTGAA-AGTGTATATATGTGATAAGGCCTAATGGCCAATGTGATG
* * *
53831927 AATGTGAACA-TGCATATATGAGATAAGGCCGAATGGCCAATGTGATG
1 AATGTGAA-AGTGTATATATGTGATAAGGCCTAATGGCCAATGTGATG
*
53831974 AATGTGAAAGTGTATATATGTGATAAGGCCGAATGGCCAATGTGATG
1 AATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCAATGTGATG
* * *
53832021 GATGTGGAAGTGTATAAATGTGATAAG
1 AATGTGAAAGTGTATATATGTGATAAG
53832048 TCCCGAAGGG
Statistics
Matches: 383, Mismatches: 18, Indels: 12
0.93 0.04 0.03
Matches are distributed among these distances:
46 1 0.00
47 288 0.75
48 1 0.00
49 93 0.24
ACGTcount: A:0.33, C:0.09, G:0.29, T:0.29
Consensus pattern (47 bp):
AATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCAATGTGATG
Found at i:53831852 original size:143 final size:143
Alignment explanation
Indices: 53831594--53832047 Score: 727
Period size: 143 Copynumber: 3.2 Consensus size: 143
53831584 TATTTGAATA
53831594 AATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCAATGTGATGAATGTGAAAGTGTATATA
1 AATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCAATGTGATGAATGTGAAAGTGTATATA
*
53831659 TATGTGATAAGGCCTAATGGCCAATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAAT
66 TATGTGATAAGGCCTAATGGCCAATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCGAAT
*
53831724 GGCCGATGTGATG
131 GGCCAATGTGATG
*
53831737 AATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATA
1 AATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCAATGTGATGAATGTGAAAGTGTATATA
* *
53831802 TATGTGATAACGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCGAAT
66 TATGTGATAAGGCCTAATGGCCAATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCGAAT
53831867 GGCCAATGTGATG
131 GGCCAATGTGATG
* * * * *
53831880 AATGTGAACA-TGTGTATGTGTGATAAGGTCGAATGGCCAATGTGATGAATGTGAACA-TG--CA
1 AATGTGAA-AGTGTATATATGTGATAAGGCCTAATGGCCAATGTGATGAATGTGAA-AGTGTATA
* *
53831941 TATATGAGATAAGGCCGAATGGCCAATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCGA
64 TATATGTGATAAGGCCTAATGGCCAATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCGA
53832006 ATGGCCAATGTGATG
129 ATGGCCAATGTGATG
* * *
53832021 GATGTGGAAGTGTATAAATGTGATAAG
1 AATGTGAAAGTGTATATATGTGATAAG
53832048 TCCCGAAGGG
Statistics
Matches: 288, Mismatches: 20, Indels: 8
0.91 0.06 0.03
Matches are distributed among these distances:
140 1 0.00
141 97 0.34
143 188 0.65
144 2 0.01
ACGTcount: A:0.33, C:0.09, G:0.29, T:0.29
Consensus pattern (143 bp):
AATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCAATGTGATGAATGTGAAAGTGTATATA
TATGTGATAAGGCCTAATGGCCAATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCGAAT
GGCCAATGTGATG
Found at i:53834464 original size:79 final size:81
Alignment explanation
Indices: 53834328--53834511 Score: 225
Period size: 79 Copynumber: 2.3 Consensus size: 81
53834318 TCGAATGATG
* *
53834328 TCCGGGCTAAGTCCCGAAGGC-TTTGTGCTAAGTGACCATATCCGGACTAAGATCCGAAGGCATT
1 TCCGGGCTAAGTCCCGAAGGCATTGGTGCTAAGTGACCAAATCCGGACTAAGATCCGAAGGCATT
*
53834392 TGTGCGAGTTACTA-A
66 TGTACGAGTTACTATA
* * * **
53834407 TTCCGGGCTAAG-CCCGAAGGCATTGGTGC-GAGTTACTAAATCCGGGTTAAG-TCCCGAAGGCA
1 -TCCGGGCTAAGTCCCGAAGGCATTGGTGCTAAGTGACCAAATCCGGACTAAGAT-CCGAAGGCA
53834469 TTTGTACGAGTTACTATA
64 TTTGTACGAGTTACTATA
*
53834487 ACCGGGCTAAGTCCCGAAGAGCATT
1 TCCGGGCTAAGTCCCGAAG-GCATT
53834512 CATGCTAGTG
Statistics
Matches: 90, Mismatches: 9, Indels: 9
0.83 0.08 0.08
Matches are distributed among these distances:
78 1 0.01
79 59 0.66
80 25 0.28
81 5 0.06
ACGTcount: A:0.26, C:0.23, G:0.27, T:0.24
Consensus pattern (81 bp):
TCCGGGCTAAGTCCCGAAGGCATTGGTGCTAAGTGACCAAATCCGGACTAAGATCCGAAGGCATT
TGTACGAGTTACTATA
Found at i:53834558 original size:40 final size:40
Alignment explanation
Indices: 53834328--53834643 Score: 259
Period size: 40 Copynumber: 7.9 Consensus size: 40
53834318 TCGAATGATG
* *
53834328 TCCGGGCTAAGTCCCGAAGGC-TTTGTGCTAAGTGACCATA
1 TCCGGGCTAAGTCCCGAAGGCATTCGTGCT-AGTGACTATA
* * * *
53834368 TCCGGACTAAGAT-CCGAAGGCATTTGTGCGAGTTACTA-A
1 TCCGGGCTAAG-TCCCGAAGGCATTCGTGCTAGTGACTATA
* * * *
53834407 TTCCGGGCTAAG-CCCGAAGGCATTGGTGCGAGTTACTAAA
1 -TCCGGGCTAAGTCCCGAAGGCATTCGTGCTAGTGACTATA
* * * * *
53834447 TCCGGGTTAAGTCCCGAAGGCATTTGTACGAGTTACTATA
1 TCCGGGCTAAGTCCCGAAGGCATTCGTGCTAGTGACTATA
* * *
53834487 ACCGGGCTAAGTCCCGAAGAGCATTCATGCTAGTGA-TGTA
1 TCCGGGCTAAGTCCCGAAG-GCATTCGTGCTAGTGACTATA
*
53834527 TCCGGGCTAAGTTCCGAAGAGCATTCGTGCTAGTGA-TATA
1 TCCGGGCTAAGTCCCGAAG-GCATTCGTGCTAGTGACTATA
** ** * *
53834567 TCCATGCTAAACCCCGAAGAGCATTCGTGCTGGTG-TTATA
1 TCCGGGCTAAGTCCCGAAG-GCATTCGTGCTAGTGACTATA
* * * *
53834607 TCCGGGCTAGGTCCCGAAGAGCAATCATGCTGGTGAC
1 TCCGGGCTAAGTCCCGAAG-GCATTCGTGCTAGTGAC
53834644 GTGTATTCGG
Statistics
Matches: 231, Mismatches: 36, Indels: 17
0.81 0.13 0.06
Matches are distributed among these distances:
39 35 0.15
40 177 0.77
41 19 0.08
ACGTcount: A:0.25, C:0.23, G:0.27, T:0.25
Consensus pattern (40 bp):
TCCGGGCTAAGTCCCGAAGGCATTCGTGCTAGTGACTATA
Found at i:53835994 original size:56 final size:56
Alignment explanation
Indices: 53835908--53836027 Score: 222
Period size: 56 Copynumber: 2.1 Consensus size: 56
53835898 ACAAGGGATG
*
53835908 ATGGGCAAAACATGTCATGAAACATGTTGTGTTAATGGAAAAATAAAATAAGAAGC
1 ATGGGCAAAACATGTCATGAAACATATTGTGTTAATGGAAAAATAAAATAAGAAGC
*
53835964 ATGGGCAAAACATGTCATGAAACATATTGTGTTAATGGAAGAATAAAATAAGAAGC
1 ATGGGCAAAACATGTCATGAAACATATTGTGTTAATGGAAAAATAAAATAAGAAGC
53836020 ATGGGCAA
1 ATGGGCAA
53836028 TAAACTAATA
Statistics
Matches: 62, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
56 62 1.00
ACGTcount: A:0.46, C:0.09, G:0.23, T:0.23
Consensus pattern (56 bp):
ATGGGCAAAACATGTCATGAAACATATTGTGTTAATGGAAAAATAAAATAAGAAGC
Found at i:53837536 original size:47 final size:47
Alignment explanation
Indices: 53837482--53838126 Score: 906
Period size: 47 Copynumber: 13.6 Consensus size: 47
53837472 TATTTGAATA
*
53837482 AATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCAATGTGATG
1 AATGTGAAAGTGTATATATGTGATAAGGCCGAATGGCCAATGTGATG
* *
53837529 AATGTGAAAGTGTATATATATGTGATAAGGCCTAATGGCCGATGTGATG
1 AATGTGAAAGTG--TATATATGTGATAAGGCCGAATGGCCAATGTGATG
* *
53837578 AATGTGAAAGTGTATATATATGTGATAAGG-CTAATGGCCGATGTGATG
1 AATGTGAAAGTG--TATATATGTGATAAGGCCGAATGGCCAATGTGATG
* *
53837626 AATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATG
1 AATGTGAAAGTGTATATATGTGATAAGGCCGAATGGCCAATGTGATG
* * *
53837673 AATGTGAAAGTGTATATATATGTGATAAGGCCTAACGGCCGATGTGATG
1 AATGTGAAAGTG--TATATATGTGATAAGGCCGAATGGCCAATGTGATG
53837722 AATGTGAAAGTGTATATATGTGATAAGGCCGAATGGCCAATGTGATG
1 AATGTGAAAGTGTATATATGTGATAAGGCCGAATGGCCAATGTGATG
53837769 AATGTGAAAGTGTATATATATGTGATAAGGCCGAATGGCCAATGTGATG
1 AATGTGAAAGTG--TATATATGTGATAAGGCCGAATGGCCAATGTGATG
* *
53837818 AATGTGAACA-TGTGTATGTGTGATAAGGCCGAATGGCCAATGTGATG
1 AATGTGAA-AGTGTATATATGTGATAAGGCCGAATGGCCAATGTGATG
* * *
53837865 AATGTGAACA-TGCATATATGAGATAAGGCCGAATGGCCAATGTGAGG
1 AATGTGAA-AGTGTATATATGTGATAAGGCCGAATGGCCAATGTGATG
* * *
53837912 AATGTGAACA-TGTGTATGTGTGATAAGGCCGAAGGGCCAATGTGATG
1 AATGTGAA-AGTGTATATATGTGATAAGGCCGAATGGCCAATGTGATG
* *
53837959 AATGTGAACA-TGTGTATGTGTGATAAGGCCGAATGGCCAATGTGATG
1 AATGTGAA-AGTGTATATATGTGATAAGGCCGAATGGCCAATGTGATG
* *
53838006 AATGTGAACA-TGCATATATGAGATAAGGCCGAATGGCCAATGTGATG
1 AATGTGAA-AGTGTATATATGTGATAAGGCCGAATGGCCAATGTGATG
53838053 AATGTGAAAGTGTATATATGTGATAAGGCCGAATGGCCAATGTGATG
1 AATGTGAAAGTGTATATATGTGATAAGGCCGAATGGCCAATGTGATG
* * *
53838100 GATGTGGAAGTGTATAAATGTGATAAG
1 AATGTGAAAGTGTATATATGTGATAAG
53838127 TCCCGAAGGG
Statistics
Matches: 561, Mismatches: 28, Indels: 18
0.92 0.05 0.03
Matches are distributed among these distances:
46 17 0.03
47 358 0.64
48 30 0.05
49 155 0.28
50 1 0.00
ACGTcount: A:0.33, C:0.09, G:0.30, T:0.28
Consensus pattern (47 bp):
AATGTGAAAGTGTATATATGTGATAAGGCCGAATGGCCAATGTGATG
Found at i:53838004 original size:22 final size:22
Alignment explanation
Indices: 53837977--53838098 Score: 61
Period size: 22 Copynumber: 5.3 Consensus size: 22
53837967 CATGTGTATG
53837977 TGTGATAAGGCCGAATGGCCAA
1 TGTGATAAGGCCGAATGGCCAA
* * *
53837999 TGTGATGAATG-TGAACAT-GCATATA
1 TGTGAT-AAGGCCG-A-ATGGC-CA-A
*
53838024 TGAGATAAGGCCGAATGGCCAA
1 TGTGATAAGGCCGAATGGCCAA
* * ***
53838046 TGTGATGAATG-TGAAAGTGTATATA
1 TGTGAT-AAGGCCG-AA-TGGCCA-A
53838071 TGTGATAAGGCCGAATGGCCAA
1 TGTGATAAGGCCGAATGGCCAA
53838093 TGTGAT
1 TGTGAT
53838099 GGATGTGGAA
Statistics
Matches: 70, Mismatches: 18, Indels: 24
0.62 0.16 0.21
Matches are distributed among these distances:
22 21 0.30
23 17 0.24
24 17 0.24
25 15 0.21
ACGTcount: A:0.34, C:0.11, G:0.30, T:0.25
Consensus pattern (22 bp):
TGTGATAAGGCCGAATGGCCAA
Found at i:53840369 original size:28 final size:29
Alignment explanation
Indices: 53840337--53840451 Score: 146
Period size: 29 Copynumber: 4.0 Consensus size: 29
53840327 TACCTGTATC
* *
53840337 TGGCCCATTAAGCCC-AATCATATTCATA
1 TGGCCCATTAGGCCCAAATCACATTCATA
*
53840365 TGGCCCATTAGGCCCAAATCACCTGT-ATA
1 TGGCCCATTAGGCCCAAATCACAT-TCATA
*
53840394 TGGCCCATTAGGCCCAAATCACATTTATA
1 TGGCCCATTAGGCCCAAATCACATTCATA
* *
53840423 TGGCCCGTTAGGCCC-AGTCACATTCATA
1 TGGCCCATTAGGCCCAAATCACATTCATA
53840451 T
1 T
53840452 TCGTGCTTAC
Statistics
Matches: 77, Mismatches: 7, Indels: 6
0.86 0.08 0.07
Matches are distributed among these distances:
28 27 0.35
29 49 0.64
30 1 0.01
ACGTcount: A:0.28, C:0.30, G:0.16, T:0.27
Consensus pattern (29 bp):
TGGCCCATTAGGCCCAAATCACATTCATA
Found at i:53840398 original size:57 final size:58
Alignment explanation
Indices: 53840328--53840438 Score: 170
Period size: 58 Copynumber: 1.9 Consensus size: 58
53840318 AATTTCACAT
* *
53840328 ACCTGTATCTGGCCCATTAAGCCC-AATCATATTCATATGGCCCATTAGGCCCAAATC
1 ACCTGTATATGGCCCATTAAGCCCAAATCACATTCATATGGCCCATTAGGCCCAAATC
* * *
53840385 ACCTGTATATGGCCCATTAGGCCCAAATCACATTTATATGGCCCGTTAGGCCCA
1 ACCTGTATATGGCCCATTAAGCCCAAATCACATTCATATGGCCCATTAGGCCCA
53840439 GTCACATTCA
Statistics
Matches: 48, Mismatches: 5, Indels: 1
0.89 0.09 0.02
Matches are distributed among these distances:
57 22 0.46
58 26 0.54
ACGTcount: A:0.27, C:0.31, G:0.16, T:0.26
Consensus pattern (58 bp):
ACCTGTATATGGCCCATTAAGCCCAAATCACATTCATATGGCCCATTAGGCCCAAATC
Found at i:53841381 original size:33 final size:33
Alignment explanation
Indices: 53841344--53841418 Score: 132
Period size: 33 Copynumber: 2.3 Consensus size: 33
53841334 AAGAAGCAAG
53841344 GGTTTTCGGCTTTTTGGATCTTGAAGAGAATAA
1 GGTTTTCGGCTTTTTGGATCTTGAAGAGAATAA
* *
53841377 GGTTTTTGGCTTTTTGGATCTTGAAGAGAATAG
1 GGTTTTCGGCTTTTTGGATCTTGAAGAGAATAA
53841410 GGTTTTCGG
1 GGTTTTCGG
53841419 TAGCAAGGTG
Statistics
Matches: 39, Mismatches: 3, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
33 39 1.00
ACGTcount: A:0.20, C:0.08, G:0.31, T:0.41
Consensus pattern (33 bp):
GGTTTTCGGCTTTTTGGATCTTGAAGAGAATAA
Found at i:53842724 original size:477 final size:475
Alignment explanation
Indices: 53842012--53842872 Score: 1364
Period size: 477 Copynumber: 1.8 Consensus size: 475
53842002 ACATTTTCCT
* *
53842012 ATAAATATTTTACCAGAAATTCGAGCTTCTCCCTCTACTTGCTTTTTTTTTACATAATTCCTCAG
1 ATAAATATTTTACCAGAAATTCGAGCTTCTCCCTCTACTTGATTTTTTTTTACATAATTCCTCAA
*
53842077 CTTTGTGTGCTCGATCAACCAAAACCACAAATGTCCTTATTTCAAGAATTCTAATCAATAGCTTA
66 CTTTGTGTGCTCGATCAACCAAAACCACAAATGTCCTTAGTTCAAGAATTCTAATCAATAGCTTA
* * *
53842142 ATATCTTTATTTAAGCCCTCTTCAAAATGTTTACACATATCAGCCTCAGTCAGGACCCATTTTCT
131 ATATCTTCATTTAAGCCCTCTTCAAAACGTTTACACATATCAGCCTCAGTCAGGACCCATTCTCT
* *
53842207 GGCATACTTGCTTAATCGAAGAAATTCCCGCTCGTATTCAGATACAATCATGTTTCCCTATTTAA
196 GGCATACTTGCTGAATCGAACAAATTCCCGCTCGTATTCAGATACAATCATGTTTCCCTATTTAA
* * * * *
53842272 GCTTTAAAAATTCTTTCTTTGTCTGATCCAGAAATCTTTGATTGATATACTTCTTTCTAAATTTA
261 GCTCTAAAAATTCTTTCTTTGTCTGATCCAAAAATCTTTAACTGATATACTTCTTTCTAAATTCA
*
53842337 GTCTAGAAGAATTCCCAAGTAACATTTTCTCTTGGTATTCCACCAATGATAAGCTGTGTACCTCG
326 GTCCAGAAGAATTCCCAAGTAACATTTTCTCTTGGTATTCCACCAATGATAAGCTGTGTACCTCG
53842402 TTCTTTCCTAGAATATCCCATAAAGGTGGCAAAACGATCATGGTACTTCTTTGATTTTTTTAAAG
391 TTCTTTCCTAGAATATCCCATAAAGGTGGCAAAACGATCATGGTACTTCTTTGATTTTTTTAAAG
53842467 CAGATGATTGTGATTTGCCC
456 CAGATGATTGTGATTTGCCC
* * * * * * * *
53842487 ATAAATCTTTTACCAGAAATTTGAGCTTTTCTCTTTGCTTGATTCTTTTCTTTACTTCATTCCTC
1 ATAAATATTTTACCAGAAATTCGAGCTTCTCCCTCTACTTGATT-TTTT-TTTACATAATTCCTC
*
53842552 AACTTTGTGTGCTCGATCAACCAAAACCACAAATTTCCTTAGTTCAAGAATTCTAATCAATAGCT
64 AACTTTGTGTGCTCGATCAACCAAAACCACAAATGTCCTTAGTTCAAGAATTCTAATCAATAGCT
* ** * *
53842617 TGATATCTTCATTTAATTCCTCTTCAAAACGTTTACACATATCAGCCTCAGTCGGGACCTATTCT
129 TAATATCTTCATTTAAGCCCTCTTCAAAACGTTTACACATATCAGCCTCAGTCAGGACCCATTCT
** * ** *
53842682 CTGGCATACTTGCTGAA-CTGAACAAATTTTCGCTCTTATTCAGATACGGTCATGTTTCCCTGTT
194 CTGGCATACTTGCTGAATC-GAACAAATTCCCGCTCGTATTCAGATACAATCATGTTTCCCTATT
*
53842746 TAAGCTCTAAAAATTCTTTCTTTTTCTGATCCAAAAATCTTTAACTGATATACTTCTTTCTAAAT
258 TAAGCTCTAAAAATTCTTTCTTTGTCTGATCCAAAAATCTTTAACTGATATACTTCTTTCTAAAT
*
53842811 TCAGTCCAGAAGAATTCCCAAGTAACATTTTCTCTTGGTATTCCACCAATGATAATCTGTGT
323 TCAGTCCAGAAGAATTCCCAAGTAACATTTTCTCTTGGTATTCCACCAATGATAAGCTGTGT
53842873 CTTTCAGTAA
Statistics
Matches: 347, Mismatches: 36, Indels: 4
0.90 0.09 0.01
Matches are distributed among these distances:
475 37 0.11
476 5 0.01
477 305 0.88
ACGTcount: A:0.28, C:0.22, G:0.12, T:0.38
Consensus pattern (475 bp):
ATAAATATTTTACCAGAAATTCGAGCTTCTCCCTCTACTTGATTTTTTTTTACATAATTCCTCAA
CTTTGTGTGCTCGATCAACCAAAACCACAAATGTCCTTAGTTCAAGAATTCTAATCAATAGCTTA
ATATCTTCATTTAAGCCCTCTTCAAAACGTTTACACATATCAGCCTCAGTCAGGACCCATTCTCT
GGCATACTTGCTGAATCGAACAAATTCCCGCTCGTATTCAGATACAATCATGTTTCCCTATTTAA
GCTCTAAAAATTCTTTCTTTGTCTGATCCAAAAATCTTTAACTGATATACTTCTTTCTAAATTCA
GTCCAGAAGAATTCCCAAGTAACATTTTCTCTTGGTATTCCACCAATGATAAGCTGTGTACCTCG
TTCTTTCCTAGAATATCCCATAAAGGTGGCAAAACGATCATGGTACTTCTTTGATTTTTTTAAAG
CAGATGATTGTGATTTGCCC
Found at i:53847175 original size:40 final size:40
Alignment explanation
Indices: 53847120--53847304 Score: 232
Period size: 40 Copynumber: 4.6 Consensus size: 40
53847110 TATTCGGATG
*
53847120 ATATCCGGGCTAAGTCCCGTAGGCATTTGTGCTAG-TGACT
1 ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCTAGTTG-CT
*
53847160 ATATCCGGGCGAAGTCCCGAAGGCATTTGTGCGAGTAGTTGCT
1 ATATCCGGGCTAAGTCCCGAAGGCATTTGTGC---TAGTTGCT
* *
53847203 ATACCCGAGCTAAGTCCCGAAGGCATTTGTGCTAG-TGACT
1 ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCTAGTTG-CT
* * *
53847243 ATATCCGGGCTAAGACCCGAAGGCATGTGTGCGAGTTGCT
1 ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCTAGTTGCT
*
53847283 ATATCC-GGCTAAATCCCGAAGG
1 ATATCCGGGCTAAGTCCCGAAGG
53847305 TACTTGGGTT
Statistics
Matches: 127, Mismatches: 12, Indels: 13
0.84 0.08 0.09
Matches are distributed among these distances:
39 16 0.13
40 73 0.57
41 2 0.02
43 34 0.27
44 2 0.02
ACGTcount: A:0.23, C:0.23, G:0.29, T:0.25
Consensus pattern (40 bp):
ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCTAGTTGCT
Found at i:53847267 original size:83 final size:79
Alignment explanation
Indices: 53847127--53847304 Score: 266
Period size: 83 Copynumber: 2.2 Consensus size: 79
53847117 ATGATATCCG
* * *
53847127 GGCTAAGTCCCGTAGGCATTTGTGCTAGTGACTATATCCGGGCGAAGTCCCGAAGGCATTTGTGC
1 GGCTAAGTCCCGAAGGCATTTGTGCTAGTGACTATATCCGGGCGAAGACCCGAAGGCATGTGTGC
53847192 GAGTAGTTGCTATACCC
66 --G-AGTTGCTATACCC
*
53847209 GAGCTAAGTCCCGAAGGCATTTGTGCTAGTGACTATATCCGGGCTAAGACCCGAAGGCATGTGTG
1 G-GCTAAGTCCCGAAGGCATTTGTGCTAGTGACTATATCCGGGCGAAGACCCGAAGGCATGTGTG
*
53847274 CGAGTTGCTATATCC
65 CGAGTTGCTATACCC
*
53847289 GGCTAAATCCCGAAGG
1 GGCTAAGTCCCGAAGG
53847305 TACTTGGGTT
Statistics
Matches: 89, Mismatches: 6, Indels: 5
0.89 0.06 0.05
Matches are distributed among these distances:
79 14 0.16
80 13 0.15
81 1 0.01
82 1 0.01
83 60 0.67
ACGTcount: A:0.23, C:0.23, G:0.29, T:0.25
Consensus pattern (79 bp):
GGCTAAGTCCCGAAGGCATTTGTGCTAGTGACTATATCCGGGCGAAGACCCGAAGGCATGTGTGC
GAGTTGCTATACCC
Found at i:53852029 original size:27 final size:27
Alignment explanation
Indices: 53851999--53852060 Score: 72
Period size: 29 Copynumber: 2.2 Consensus size: 27
53851989 TGGTCCACTT
*
53851999 GGCCCATCTC-ATTCATATGGCCTATCA
1 GGCCCAT-TCAATTCATATGGCCCATCA
*
53852026 GGCCCAATTCATATTCATATGGCCCATTA
1 GGCCC-ATTCA-ATTCATATGGCCCATCA
53852055 GGCCCA
1 GGCCCA
53852061 AATCACCTTG
Statistics
Matches: 30, Mismatches: 2, Indels: 5
0.81 0.05 0.14
Matches are distributed among these distances:
27 7 0.23
28 3 0.10
29 20 0.67
ACGTcount: A:0.24, C:0.32, G:0.16, T:0.27
Consensus pattern (27 bp):
GGCCCATTCAATTCATATGGCCCATCA
Found at i:53852074 original size:29 final size:28
Alignment explanation
Indices: 53852013--53852102 Score: 108
Period size: 29 Copynumber: 3.1 Consensus size: 28
53852003 CATCTCATTC
* * * **
53852013 ATATGGCCTATCAGGCCCAATTCATATT
1 ATATGGCCCATTAGGCCCAAATCACCTT
53852041 CATATGGCCCATTAGGCCCAAATCACCTT
1 -ATATGGCCCATTAGGCCCAAATCACCTT
*
53852070 GATATGGCCCGTTAGGCCCAAATCACCTT
1 -ATATGGCCCATTAGGCCCAAATCACCTT
53852099 ATAT
1 ATAT
53852103 TCATGCTCAT
Statistics
Matches: 54, Mismatches: 7, Indels: 1
0.87 0.11 0.02
Matches are distributed among these distances:
28 4 0.07
29 50 0.93
ACGTcount: A:0.28, C:0.29, G:0.16, T:0.28
Consensus pattern (28 bp):
ATATGGCCCATTAGGCCCAAATCACCTT
Done.