Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: At_chr10
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: 95480121
ACGTcount: A:0.32, C:0.17, G:0.17, T:0.31
Warning! 2980117 characters in sequence are not A, C, G, or T
File 48 of 284
Found at i:17106287 original size:93 final size:93
Alignment explanation
Indices: 17106174--17106345 Score: 317
Period size: 93 Copynumber: 1.8 Consensus size: 93
17106164 CGCCCATAAG
* *
17106174 CGAACTCGGACTCAACTCAACGAGCTCGGGCGTTCGCATCCATAAGTGAACTCGGACTCAACTCA
1 CGAACTCGGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCA
17106239 ACGAGTTCGGATGCCTAGTTACATCTCA
66 ACGAGTTCGGATGCCTAGTTACATCTCA
*
17106267 CGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCA
1 CGAACTCGGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCA
17106332 ACGAGTTCGGATGC
66 ACGAGTTCGGATGC
17106346 TCAACCATCC
Statistics
Matches: 76, Mismatches: 3, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
93 76 1.00
ACGTcount: A:0.28, C:0.30, G:0.22, T:0.21
Consensus pattern (93 bp):
CGAACTCGGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCA
ACGAGTTCGGATGCCTAGTTACATCTCA
Found at i:17106342 original size:46 final size:46
Alignment explanation
Indices: 17106167--17106342 Score: 216
Period size: 46 Copynumber: 3.8 Consensus size: 46
17106157 TGTAACCCGC
* * *
17106167 CCATAAGCGAACTCGGACTCAACTCAACGAGCTCGGGCGTTCGCAT
1 CCATAAGCGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCAT
* *
17106213 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGATGCCTAGTT-ACAT
1 CCATAAGCGAACTCGGACTCAACTCAACGAGTTCGGA---C-A-TTCGCAT
*
17106263 -C-TCA-CGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCAT
1 CCATAAGCGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCAT
*
17106306 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGA
1 CCATAAGCGAACTCGGACTCAACTCAACGAGTTCGGA
17106343 TGCTCAACCA
Statistics
Matches: 111, Mismatches: 10, Indels: 18
0.80 0.07 0.13
Matches are distributed among these distances:
42 2 0.02
43 4 0.04
44 2 0.02
45 2 0.02
46 63 0.57
47 29 0.26
48 2 0.02
49 2 0.02
50 3 0.03
51 2 0.02
ACGTcount: A:0.29, C:0.30, G:0.21, T:0.20
Consensus pattern (46 bp):
CCATAAGCGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCAT
Found at i:17112124 original size:28 final size:28
Alignment explanation
Indices: 17112077--17112142 Score: 105
Period size: 28 Copynumber: 2.4 Consensus size: 28
17112067 AAATTAACCC
* *
17112077 TAGGGGTATAAAGGTCATTTTGCATACA
1 TAGGGGTATTAAGGTAATTTTGCATACA
*
17112105 TAGGGGTATTATGGTAATTTTGCATACA
1 TAGGGGTATTAAGGTAATTTTGCATACA
17112133 TAGGGGTATT
1 TAGGGGTATT
17112143 CTAGTACATC
Statistics
Matches: 35, Mismatches: 3, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
28 35 1.00
ACGTcount: A:0.29, C:0.08, G:0.27, T:0.36
Consensus pattern (28 bp):
TAGGGGTATTAAGGTAATTTTGCATACA
Found at i:17112404 original size:8 final size:8
Alignment explanation
Indices: 17112388--17112419 Score: 55
Period size: 8 Copynumber: 4.0 Consensus size: 8
17112378 CCCAAAATAC
17112388 CGGCTTTT
1 CGGCTTTT
*
17112396 CGGCATTT
1 CGGCTTTT
17112404 CGGCTTTT
1 CGGCTTTT
17112412 CGGCTTTT
1 CGGCTTTT
17112420 GCCGATCTAG
Statistics
Matches: 22, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
8 22 1.00
ACGTcount: A:0.03, C:0.25, G:0.25, T:0.47
Consensus pattern (8 bp):
CGGCTTTT
Found at i:17122568 original size:18 final size:17
Alignment explanation
Indices: 17122529--17122569 Score: 55
Period size: 17 Copynumber: 2.3 Consensus size: 17
17122519 GAGTCCAGAT
*
17122529 TTTTTTTTTAAAACTGA
1 TTTTTTTTTAAAACTCA
17122546 TTTTTTTTTAAAATCTTCA
1 TTTTTTTTTAAAA-C-TCA
17122565 TTTTT
1 TTTTT
17122570 GTAAACCAAT
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
17 13 0.62
18 1 0.05
19 7 0.33
ACGTcount: A:0.24, C:0.07, G:0.02, T:0.66
Consensus pattern (17 bp):
TTTTTTTTTAAAACTCA
Found at i:17134253 original size:22 final size:21
Alignment explanation
Indices: 17134197--17134299 Score: 89
Period size: 22 Copynumber: 4.6 Consensus size: 21
17134187 CTGAGCTGAC
*
17134197 GAACAGTAAGCTATAATGAGCT
1 GAACAGTAAGCTCT-ATGAGCT
* *
17134219 GAAACGGTAAGCTCTGTCGAGCT
1 G-AACAGTAAGCTCTAT-GAGCT
17134242 GAACAGTAAGCTCTATTGAGCT
1 GAACAGTAAGCTCTA-TGAGCT
* *
17134264 GAACAATAAGCTCATACGAGCT
1 GAACAGTAAGCTC-TATGAGCT
* *
17134286 AAAACGGTAAGCTC
1 -GAACAGTAAGCTC
17134300 AAACGAGCTG
Statistics
Matches: 66, Mismatches: 10, Indels: 9
0.78 0.12 0.11
Matches are distributed among these distances:
22 36 0.55
23 30 0.45
ACGTcount: A:0.36, C:0.19, G:0.23, T:0.21
Consensus pattern (21 bp):
GAACAGTAAGCTCTATGAGCT
Found at i:17134307 original size:67 final size:68
Alignment explanation
Indices: 17134197--17134333 Score: 163
Period size: 67 Copynumber: 2.0 Consensus size: 68
17134187 CTGAGCTGAC
* * * ***
17134197 GAACAGTAAGCTATAATGAGCTGAAACGGTAAGCTCTGTCGAGCT-GAACAGTAAGCTCTAT-TG
1 GAACAATAAGCTATAACGAGCTAAAACGGTAAGCTCAAACGAGCTAGAACAGTAAGCT-TATATG
17134260 AGCT
65 AGCT
*
17134264 GAACAATAAGCTCAT-ACGAGCTAAAACGGTAAGCTCAAACGAGCTGAGAACAGTTAGCTTATAT
1 GAACAATAAGCT-ATAACGAGCTAAAACGGTAAGCTCAAACGAGCT-AGAACAGTAAGCTTATAT
17134328 GAGCT
64 GAGCT
17134333 G
1 G
17134334 TGGTGAGTCC
Statistics
Matches: 59, Mismatches: 7, Indels: 6
0.82 0.10 0.08
Matches are distributed among these distances:
67 36 0.61
68 5 0.08
69 18 0.31
ACGTcount: A:0.36, C:0.18, G:0.24, T:0.22
Consensus pattern (68 bp):
GAACAATAAGCTATAACGAGCTAAAACGGTAAGCTCAAACGAGCTAGAACAGTAAGCTTATATGA
GCT
Found at i:17146441 original size:42 final size:42
Alignment explanation
Indices: 17146389--17146483 Score: 109
Period size: 42 Copynumber: 2.3 Consensus size: 42
17146379 TAGCCTAGCT
* ** * * *
17146389 ATGGTCTTACACAAAATTTTGTATCGATGCCATGTCCCAGAC
1 ATGGTCTTACACAAAATATCATACCGATGCCATATCCAAGAC
** *
17146431 ATGGTCTTACACGTAATATCATACCGATGCCATATCCAAGAT
1 ATGGTCTTACACAAAATATCATACCGATGCCATATCCAAGAC
17146473 ATGGTCTTACA
1 ATGGTCTTACA
17146484 TGTATTCTCA
Statistics
Matches: 44, Mismatches: 9, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
42 44 1.00
ACGTcount: A:0.31, C:0.23, G:0.16, T:0.31
Consensus pattern (42 bp):
ATGGTCTTACACAAAATATCATACCGATGCCATATCCAAGAC
Found at i:17150304 original size:43 final size:43
Alignment explanation
Indices: 17150257--17150361 Score: 210
Period size: 43 Copynumber: 2.4 Consensus size: 43
17150247 AAATCAGACT
17150257 TCTCAACGAGCTCGGATGCTTGCATCCATAATGAACTCGAACC
1 TCTCAACGAGCTCGGATGCTTGCATCCATAATGAACTCGAACC
17150300 TCTCAACGAGCTCGGATGCTTGCATCCATAATGAACTCGAACC
1 TCTCAACGAGCTCGGATGCTTGCATCCATAATGAACTCGAACC
17150343 TCTCAACGAGCTCGGATGC
1 TCTCAACGAGCTCGGATGC
17150362 CACATATCTC
Statistics
Matches: 62, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
43 62 1.00
ACGTcount: A:0.27, C:0.30, G:0.20, T:0.23
Consensus pattern (43 bp):
TCTCAACGAGCTCGGATGCTTGCATCCATAATGAACTCGAACC
Found at i:17158221 original size:43 final size:43
Alignment explanation
Indices: 17158160--17158241 Score: 146
Period size: 43 Copynumber: 1.9 Consensus size: 43
17158150 ACATGTAACT
17158160 CATCCATAACGAACTCAGACCTCTCAACGAGCTCGGATGGTTA
1 CATCCATAACGAACTCAGACCTCTCAACGAGCTCGGATGGTTA
* *
17158203 CATCCATAATGAACTCAGACCTCTCAGCGAGCTCGGATG
1 CATCCATAACGAACTCAGACCTCTCAACGAGCTCGGATG
17158242 CCACATGTCC
Statistics
Matches: 37, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
43 37 1.00
ACGTcount: A:0.29, C:0.30, G:0.20, T:0.21
Consensus pattern (43 bp):
CATCCATAACGAACTCAGACCTCTCAACGAGCTCGGATGGTTA
Found at i:17162738 original size:24 final size:24
Alignment explanation
Indices: 17162704--17162749 Score: 74
Period size: 24 Copynumber: 1.9 Consensus size: 24
17162694 ATTCATGCCA
* *
17162704 CAAAATTTACCAATTCATCATCAT
1 CAAAATGTACCAACTCATCATCAT
17162728 CAAAATGTACCAACTCATCATC
1 CAAAATGTACCAACTCATCATC
17162750 CTTATACCAT
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
24 20 1.00
ACGTcount: A:0.41, C:0.28, G:0.02, T:0.28
Consensus pattern (24 bp):
CAAAATGTACCAACTCATCATCAT
Found at i:17163731 original size:42 final size:42
Alignment explanation
Indices: 17163684--17163848 Score: 172
Period size: 42 Copynumber: 3.9 Consensus size: 42
17163674 AAGTCCTAAA
17163684 ATGCCATATCCCAGATATGGTCTTACATATAATCTCATATCG
1 ATGCCATATCCCAGATATGGTCTTACATATAATCTCATATCG
* * * ** *
17163726 ATGCCAATAGCCCAGCTATGGTCTTACATGA-AATTTTGTGTCG
1 ATGCC-ATATCCCAGATATGGTCTTACAT-ATAATCTCATATCG
* * *
17163769 ATGCCATGTCCCAGACATGGTCTTACATATAATATCATA-CTG
1 ATGCCATATCCCAGATATGGTCTTACATATAATCTCATATC-G
* * * *
17163811 ATACCATATCCCAGATAAGGTCTTACATGTATTCTCAT
1 ATGCCATATCCCAGATATGGTCTTACATATAATCTCAT
17163849 CTCAGTAACC
Statistics
Matches: 98, Mismatches: 21, Indels: 8
0.77 0.17 0.06
Matches are distributed among these distances:
41 2 0.02
42 61 0.62
43 34 0.35
44 1 0.01
ACGTcount: A:0.30, C:0.23, G:0.15, T:0.33
Consensus pattern (42 bp):
ATGCCATATCCCAGATATGGTCTTACATATAATCTCATATCG
Found at i:17164039 original size:22 final size:22
Alignment explanation
Indices: 17163986--17164029 Score: 88
Period size: 22 Copynumber: 2.0 Consensus size: 22
17163976 AATAATAAAT
17163986 AAGCATTTATAACACAATTTAA
1 AAGCATTTATAACACAATTTAA
17164008 AAGCATTTATAACACAATTTAA
1 AAGCATTTATAACACAATTTAA
17164030 GTACATTTAT
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
22 22 1.00
ACGTcount: A:0.50, C:0.14, G:0.05, T:0.32
Consensus pattern (22 bp):
AAGCATTTATAACACAATTTAA
Found at i:17166388 original size:54 final size:54
Alignment explanation
Indices: 17166305--17166411 Score: 169
Period size: 54 Copynumber: 2.0 Consensus size: 54
17166295 CAAGATTACC
* * *
17166305 AGTATAAACTCATAGAACAATGTCAGGATTACTAGTCTAGGCTAAATCCCCTGT
1 AGTATAAACTCATAGAACAATGTCAGGATTACCAATCCAGGCTAAATCCCCTGT
* *
17166359 AGTATAAACTCATAGAGCAATGTCGGGATTACCAATCCAGGCTAAATCCCCTG
1 AGTATAAACTCATAGAACAATGTCAGGATTACCAATCCAGGCTAAATCCCCTG
17166412 CAACGAGAAT
Statistics
Matches: 48, Mismatches: 5, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
54 48 1.00
ACGTcount: A:0.35, C:0.22, G:0.18, T:0.25
Consensus pattern (54 bp):
AGTATAAACTCATAGAACAATGTCAGGATTACCAATCCAGGCTAAATCCCCTGT
Found at i:17169358 original size:15 final size:15
Alignment explanation
Indices: 17169340--17169369 Score: 60
Period size: 15 Copynumber: 2.0 Consensus size: 15
17169330 ACCAGAATAA
17169340 AGAAATCCAAGATAT
1 AGAAATCCAAGATAT
17169355 AGAAATCCAAGATAT
1 AGAAATCCAAGATAT
17169370 CATATCAAAA
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:0.53, C:0.13, G:0.13, T:0.20
Consensus pattern (15 bp):
AGAAATCCAAGATAT
Found at i:17172275 original size:38 final size:38
Alignment explanation
Indices: 17172224--17172323 Score: 148
Period size: 38 Copynumber: 2.6 Consensus size: 38
17172214 ATGGAAAAAC
17172224 GTGGTGCTAAGTGGATATACCACGGTTATACGTG-TAA
1 GTGGTGCTAAGTGGATATACCACGGTTATACGTGTTAA
* * *
17172261 TGTGGTGCTAAGTGGATATACGACAGTTATATGTGTTAA
1 -GTGGTGCTAAGTGGATATACCACGGTTATACGTGTTAA
*
17172300 GTGGTGTTAAGTGGATATACCACG
1 GTGGTGCTAAGTGGATATACCACG
17172324 ATTACACATA
Statistics
Matches: 55, Mismatches: 6, Indels: 2
0.87 0.10 0.03
Matches are distributed among these distances:
38 52 0.95
39 3 0.05
ACGTcount: A:0.27, C:0.11, G:0.30, T:0.32
Consensus pattern (38 bp):
GTGGTGCTAAGTGGATATACCACGGTTATACGTGTTAA
Found at i:17172386 original size:48 final size:47
Alignment explanation
Indices: 17172307--17172427 Score: 170
Period size: 47 Copynumber: 2.6 Consensus size: 47
17172297 TAAGTGGTGT
17172307 TAAGTGGATATACCACGATTACACATATTGATACATGTAACGTGCTGC
1 TAAGTGGATATACCACGATTACACATATTGATACAT-TAACGTGCTGC
* * * * *
17172355 TAAGTGGATATGCCACGATTACATATTTTGATTCATTAACGTGGTGC
1 TAAGTGGATATACCACGATTACACATATTGATACATTAACGTGCTGC
* *
17172402 TAAGTGGATATACCACGGTTAAACAT
1 TAAGTGGATATACCACGATTACACAT
17172428 GCAACGTGGT
Statistics
Matches: 64, Mismatches: 9, Indels: 1
0.86 0.12 0.01
Matches are distributed among these distances:
47 32 0.50
48 32 0.50
ACGTcount: A:0.32, C:0.17, G:0.20, T:0.31
Consensus pattern (47 bp):
TAAGTGGATATACCACGATTACACATATTGATACATTAACGTGCTGC
Found at i:17172418 original size:47 final size:47
Alignment explanation
Indices: 17172296--17172427 Score: 176
Period size: 48 Copynumber: 2.8 Consensus size: 47
17172286 GTTATATGTG
*
17172296 TTAA-GTGGTGTTAAGTGGATATACCACGATTACACATATTGATACA
1 TTAACGTGGTGCTAAGTGGATATACCACGATTACACATATTGATACA
* * * * *
17172342 TGTAACGTGCTGCTAAGTGGATATGCCACGATTACATATTTTGATTCA
1 T-TAACGTGGTGCTAAGTGGATATACCACGATTACACATATTGATACA
* *
17172390 TTAACGTGGTGCTAAGTGGATATACCACGGTTAAACAT
1 TTAACGTGGTGCTAAGTGGATATACCACGATTACACAT
17172428 GCAACGTGGT
Statistics
Matches: 73, Mismatches: 11, Indels: 3
0.84 0.13 0.03
Matches are distributed among these distances:
46 1 0.01
47 35 0.48
48 37 0.51
ACGTcount: A:0.31, C:0.15, G:0.21, T:0.33
Consensus pattern (47 bp):
TTAACGTGGTGCTAAGTGGATATACCACGATTACACATATTGATACA
Found at i:17172466 original size:38 final size:38
Alignment explanation
Indices: 17172392--17172466 Score: 114
Period size: 38 Copynumber: 2.0 Consensus size: 38
17172382 TTGATTCATT
*
17172392 AACGTGGTGCTAAGTGGATATACCACGGTTAAACATGC
1 AACGTGGTGCTAAGTGGATATACCACAGTTAAACATGC
* * *
17172430 AACGTGGTGCTAAGTGGATATGCCGCAGTTATACATG
1 AACGTGGTGCTAAGTGGATATACCACAGTTAAACATG
17172467 TTAATTTGAA
Statistics
Matches: 33, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
38 33 1.00
ACGTcount: A:0.29, C:0.17, G:0.28, T:0.25
Consensus pattern (38 bp):
AACGTGGTGCTAAGTGGATATACCACAGTTAAACATGC
Found at i:17174663 original size:26 final size:26
Alignment explanation
Indices: 17174596--17174682 Score: 131
Period size: 27 Copynumber: 3.3 Consensus size: 26
17174586 ATGGAGGAAG
17174596 TGTTCTGGTGGCTCTGCCACAAATATC
1 TGTTCTGGTGGCTCTGCCAC-AATATC
17174623 TGTTCTGGTGGCTCTGCCACAA-ATC
1 TGTTCTGGTGGCTCTGCCACAATATC
* *
17174648 TGTATCTGGTGACTCTGTCACAATATC
1 TGT-TCTGGTGGCTCTGCCACAATATC
17174675 TGTTCTGG
1 TGTTCTGG
17174683 CAGCCATGCT
Statistics
Matches: 56, Mismatches: 2, Indels: 5
0.89 0.03 0.08
Matches are distributed among these distances:
25 6 0.11
26 24 0.43
27 26 0.46
ACGTcount: A:0.17, C:0.24, G:0.23, T:0.36
Consensus pattern (26 bp):
TGTTCTGGTGGCTCTGCCACAATATC
Found at i:17174698 original size:52 final size:54
Alignment explanation
Indices: 17174599--17174703 Score: 126
Period size: 52 Copynumber: 2.0 Consensus size: 54
17174589 GAGGAAGTGT
* **
17174599 TCTGGTGGCTCTGCCACAAATATCTGTTCTGGTGGCTCTGCCACAAA-TCTGTA
1 TCTGGTGACTCTGCCACAAATATCTGTTCTGGCAGCTCTGCCACAAATTCTGTA
* **
17174652 TCTGGTGACTCTGTCAC-AATATCTGTTCTGGCAGC-CATGCTGCAAATTCTGT
1 TCTGGTGACTCTGCCACAAATATCTGTTCTGGCAGCTC-TGCCACAAATTCTGT
17174704 GACGTGTAGT
Statistics
Matches: 44, Mismatches: 6, Indels: 4
0.81 0.11 0.07
Matches are distributed among these distances:
51 1 0.02
52 23 0.52
53 20 0.45
ACGTcount: A:0.19, C:0.26, G:0.22, T:0.33
Consensus pattern (54 bp):
TCTGGTGACTCTGCCACAAATATCTGTTCTGGCAGCTCTGCCACAAATTCTGTA
Found at i:17175696 original size:326 final size:325
Alignment explanation
Indices: 17175103--17175753 Score: 1293
Period size: 326 Copynumber: 2.0 Consensus size: 325
17175093 AAGTTGTAAT
17175103 GTGGCCACTTTAATTATTTTTAATTGCTTTAGTATGATTATTAGCTTAGGCATGATATGGACTTA
1 GTGGCCACTTTAATTATTTTTAATTGCTTTAGTATGATTATTAGCTTAGGCATGATATGGACTTA
17175168 AATGTTTGAAATTGAATAGCTCTAGGGCACGTTTTTAAAAGAAATTACCTGATTTCAAAATATCG
66 AATGTTTGAAATTGAATAGCTCTAGGGCACGTTTTTAAAAGAAATTACCTGATTTCAAAATATCG
17175233 TGAAACAAGACAAAGCTTCCGAAATGAAAACGTTTTCTAAAATTAATAAGTGCTTTCAAAGGCTT
131 TGAAACAAGACAAAGCTTCCGAAATGAAAACGTTTTCTAAAATTAATAAGTGCTTTCAAAGGCTT
17175298 AAAACGAAATGGTTTTTCCTGAACAACCACTCAGTTAAAGTGTGGTAATGGTTGTGAGCATGTCT
196 AAAACGAAATGGTTTTTCCTGAACAACCACTCAGTTAAAGTGTGGTAATGGTTGTGAGCATGTCT
17175363 AGGAGTGGAGCCGTGGAGAGCTTGGTACTTAAGCAGTCTAATAGACTCACCTCCTCTTTTTCTGC
261 AGGAGTGGAGCCGTGGAGAGCTTGGTACTTAAGCAGTCTAATAGACTCACCTCCTCTTTTTCTGC
17175428 NGTGGCCACTTTAATTATTTTTAATTGCTTTAGTATGATTATTAGCTTAGGCATGATATGGACTT
1 -GTGGCCACTTTAATTATTTTTAATTGCTTTAGTATGATTATTAGCTTAGGCATGATATGGACTT
17175493 AAATGTTTGAAATTGAATAGCTCTAGGGCACGTTTTTAAAAGAAATTACCTGATTTCAAAATATC
65 AAATGTTTGAAATTGAATAGCTCTAGGGCACGTTTTTAAAAGAAATTACCTGATTTCAAAATATC
17175558 GTGAAACAAGACAAAGCTTCCGAAATGAAAACGTTTTCTAAAATTAATAAGTGCTTTCAAAGGCT
130 GTGAAACAAGACAAAGCTTCCGAAATGAAAACGTTTTCTAAAATTAATAAGTGCTTTCAAAGGCT
17175623 TAAAACGAAATGGTTTTTCCTGAACAACCACTCAGTTAAAGTGTGGTAATGGTTGTGAGCATGTC
195 TAAAACGAAATGGTTTTTCCTGAACAACCACTCAGTTAAAGTGTGGTAATGGTTGTGAGCATGTC
17175688 TAGGAGTGGAGCCGTGGAGAGCTTGGTACTTAAGCAGTCTAATAGACTCACCTCCTCTTTTTCTG
260 TAGGAGTGGAGCCGTGGAGAGCTTGGTACTTAAGCAGTCTAATAGACTCACCTCCTCTTTTTCTG
17175753 C
325 C
17175754 TATTCTACCT
Statistics
Matches: 325, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
326 325 1.00
ACGTcount: A:0.31, C:0.15, G:0.20, T:0.33
Consensus pattern (325 bp):
GTGGCCACTTTAATTATTTTTAATTGCTTTAGTATGATTATTAGCTTAGGCATGATATGGACTTA
AATGTTTGAAATTGAATAGCTCTAGGGCACGTTTTTAAAAGAAATTACCTGATTTCAAAATATCG
TGAAACAAGACAAAGCTTCCGAAATGAAAACGTTTTCTAAAATTAATAAGTGCTTTCAAAGGCTT
AAAACGAAATGGTTTTTCCTGAACAACCACTCAGTTAAAGTGTGGTAATGGTTGTGAGCATGTCT
AGGAGTGGAGCCGTGGAGAGCTTGGTACTTAAGCAGTCTAATAGACTCACCTCCTCTTTTTCTGC
Found at i:17176105 original size:19 final size:20
Alignment explanation
Indices: 17176081--17176120 Score: 55
Period size: 21 Copynumber: 2.0 Consensus size: 20
17176071 CCCTATTCTT
17176081 AATTGT-AAAAATAATTAAA
1 AATTGTCAAAAATAATTAAA
*
17176100 AATTGTGCAAAAATAGTTAAA
1 AATTGT-CAAAAATAATTAAA
17176121 GAACATAATT
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
19 6 0.33
21 12 0.67
ACGTcount: A:0.57, C:0.03, G:0.10, T:0.30
Consensus pattern (20 bp):
AATTGTCAAAAATAATTAAA
Found at i:17176248 original size:19 final size:19
Alignment explanation
Indices: 17176224--17176262 Score: 60
Period size: 19 Copynumber: 2.1 Consensus size: 19
17176214 ATTTTAGTAA
*
17176224 AGAGTGGTCAAAGCTGCTG
1 AGAGTGGTCAAAGCTACTG
*
17176243 AGAGTGGTCAGAGCTACTG
1 AGAGTGGTCAAAGCTACTG
17176262 A
1 A
17176263 TGCGTGAAAC
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
19 18 1.00
ACGTcount: A:0.28, C:0.15, G:0.36, T:0.21
Consensus pattern (19 bp):
AGAGTGGTCAAAGCTACTG
Found at i:17188249 original size:27 final size:27
Alignment explanation
Indices: 17188219--17188429 Score: 296
Period size: 27 Copynumber: 7.8 Consensus size: 27
17188209 ATTACCAAAG
17188219 TACCCTCGATTTATAGAATTACCATTT
1 TACCCTCGATTTATAGAATTACCATTT
*
17188246 TACCCTCGATTTATAGAATTACCGTTT
1 TACCCTCGATTTATAGAATTACCATTT
* * * **
17188273 TACCCTCAATTTACAAAATTACTGTTT
1 TACCCTCGATTTATAGAATTACCATTT
17188300 TACCCTCGATTTATAGAATTACCATTT
1 TACCCTCGATTTATAGAATTACCATTT
* *
17188327 TACCCTCAATTTATAGAATTATCATTT
1 TACCCTCGATTTATAGAATTACCATTT
* *
17188354 TACCCTCGATTTACAGAATTACCGTTT
1 TACCCTCGATTTATAGAATTACCATTT
*
17188381 TACCCTCGATTTATAGAATTCCCATTT
1 TACCCTCGATTTATAGAATTACCATTT
* * *
17188408 TACCCTTGATTTACAAAATTAC
1 TACCCTCGATTTATAGAATTAC
17188430 TAAAATACCC
Statistics
Matches: 161, Mismatches: 23, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
27 161 1.00
ACGTcount: A:0.30, C:0.23, G:0.07, T:0.40
Consensus pattern (27 bp):
TACCCTCGATTTATAGAATTACCATTT
Found at i:17188316 original size:81 final size:81
Alignment explanation
Indices: 17188219--17188429 Score: 332
Period size: 81 Copynumber: 2.6 Consensus size: 81
17188209 ATTACCAAAG
*
17188219 TACCCTCGATTTATAGAATTACCATTTTACCCTCGATTTATAGAATTACCGTTTTACCCTCAATT
1 TACCCTCGATTTATAGAATTACCATTTTACCCTCGATTTATAGAATTACCATTTTACCCTCAATT
*
17188284 TACAAAATTACTGTTT
66 TACAAAATTACCGTTT
* * *
17188300 TACCCTCGATTTATAGAATTACCATTTTACCCTCAATTTATAGAATTATCATTTTACCCTCGATT
1 TACCCTCGATTTATAGAATTACCATTTTACCCTCGATTTATAGAATTACCATTTTACCCTCAATT
*
17188365 TACAGAATTACCGTTT
66 TACAAAATTACCGTTT
* * * *
17188381 TACCCTCGATTTATAGAATTCCCATTTTACCCTTGATTTACAAAATTAC
1 TACCCTCGATTTATAGAATTACCATTTTACCCTCGATTTATAGAATTAC
17188430 TAAAATACCC
Statistics
Matches: 118, Mismatches: 12, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
81 118 1.00
ACGTcount: A:0.30, C:0.23, G:0.07, T:0.40
Consensus pattern (81 bp):
TACCCTCGATTTATAGAATTACCATTTTACCCTCGATTTATAGAATTACCATTTTACCCTCAATT
TACAAAATTACCGTTT
Found at i:17188438 original size:27 final size:27
Alignment explanation
Indices: 17188417--17188526 Score: 157
Period size: 27 Copynumber: 4.1 Consensus size: 27
17188407 TTACCCTTGA
* * *
17188417 TTTACAAAATTACTAAAATACCCTTGG
1 TTTACAAAATTACCAAAATACCCCTAG
17188444 TTTACAAAATTACCAAAATACCCCTAG
1 TTTACAAAATTACCAAAATACCCCTAG
**
17188471 TTTGTAAAATTACCAAAATACCCCTAG
1 TTTACAAAATTACCAAAATACCCCTAG
**
17188498 TTTGTAAAATTACCAAAATACCCCTAG
1 TTTACAAAATTACCAAAATACCCCTAG
17188525 TT
1 TT
17188527 GTAATACCCC
Statistics
Matches: 78, Mismatches: 5, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
27 78 1.00
ACGTcount: A:0.41, C:0.22, G:0.06, T:0.31
Consensus pattern (27 bp):
TTTACAAAATTACCAAAATACCCCTAG
Found at i:17188439 original size:81 final size:81
Alignment explanation
Indices: 17188219--17188457 Score: 327
Period size: 81 Copynumber: 3.0 Consensus size: 81
17188209 ATTACCAAAG
** *
17188219 TACCCTCGATTTATAGAATTACCATTTTACCCTCGATTTATAGAATTACCGTTTTACCCTCAATT
1 TACCCTCGATTTATAGAATTACCATTTTACCCTCGATTTATAGAATTACTATTTTACCCTCGATT
*
17188284 TACAAAATTACTGTTT
66 TACAAAATTACCGTTT
*
17188300 TACCCTCGATTTATAGAATTACCATTTTACCCTCAATTTATAGAATTA-TCATTTTACCCTCGAT
1 TACCCTCGATTTATAGAATTACCATTTTACCCTCGATTTATAGAATTACT-ATTTTACCCTCGAT
*
17188364 TTACAGAATTACCGTTT
65 TTACAAAATTACCGTTT
* * * * *** * *
17188381 TACCCTCGATTTATAGAATTCCCATTTTACCCTTGATTTACAAAATTACTAAAATACCCTTGGTT
1 TACCCTCGATTTATAGAATTACCATTTTACCCTCGATTTATAGAATTACTATTTTACCCTCGATT
17188446 TACAAAATTACC
66 TACAAAATTACC
17188458 AAAATACCCC
Statistics
Matches: 139, Mismatches: 17, Indels: 4
0.87 0.11 0.03
Matches are distributed among these distances:
81 138 0.99
82 1 0.01
ACGTcount: A:0.31, C:0.23, G:0.07, T:0.39
Consensus pattern (81 bp):
TACCCTCGATTTATAGAATTACCATTTTACCCTCGATTTATAGAATTACTATTTTACCCTCGATT
TACAAAATTACCGTTT
Found at i:17188842 original size:24 final size:24
Alignment explanation
Indices: 17188810--17188856 Score: 60
Period size: 24 Copynumber: 2.0 Consensus size: 24
17188800 CAATTTACCA
**
17188810 AAAAGGGCTTTGCCT-CAGTTATT
1 AAAAGGGCTAGGCCTCCAGTTATT
17188833 AAAAGAGGCTAGGCCTCCAGTTAT
1 AAAAG-GGCTAGGCCTCCAGTTAT
17188857 ATGATAAAGC
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
23 5 0.25
24 8 0.40
25 7 0.35
ACGTcount: A:0.30, C:0.19, G:0.23, T:0.28
Consensus pattern (24 bp):
AAAAGGGCTAGGCCTCCAGTTATT
Found at i:17189862 original size:14 final size:15
Alignment explanation
Indices: 17189837--17189865 Score: 51
Period size: 14 Copynumber: 2.0 Consensus size: 15
17189827 ATTTTTTGTG
17189837 TTTATAATGTGTGAA
1 TTTATAATGTGTGAA
17189852 TTTAT-ATGTGTGAA
1 TTTATAATGTGTGAA
17189866 ATATTCGTGT
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
14 9 0.64
15 5 0.36
ACGTcount: A:0.31, C:0.00, G:0.21, T:0.48
Consensus pattern (15 bp):
TTTATAATGTGTGAA
Found at i:17190636 original size:15 final size:15
Alignment explanation
Indices: 17190616--17190648 Score: 66
Period size: 15 Copynumber: 2.2 Consensus size: 15
17190606 AAATGGTAAT
17190616 TTACCCATTTATGTG
1 TTACCCATTTATGTG
17190631 TTACCCATTTATGTG
1 TTACCCATTTATGTG
17190646 TTA
1 TTA
17190649 TTGGACTAAA
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 18 1.00
ACGTcount: A:0.21, C:0.18, G:0.12, T:0.48
Consensus pattern (15 bp):
TTACCCATTTATGTG
Found at i:17191061 original size:42 final size:43
Alignment explanation
Indices: 17191002--17191168 Score: 193
Period size: 42 Copynumber: 4.0 Consensus size: 43
17190992 AGGATTTCCG
* * *
17191002 ATATGTGTTTTCGTGTAAGACCACATCTGGGACGTTGGC-TCT
1 ATATGTGATTACGTGTAAGACCACGTCTGGGACGTTGGCATCT
* * *
17191044 ATATGTGATTACGTGTAAGACCATGTCTGGGACATCGGCATCGT
1 ATATGTGATTACGTGTAAGACCACGTCTGGGACGTTGGCATC-T
*
17191088 AT-T-TGATT-CGTGTAAGACC-CTGTCTGGGACAG-TGGCATCG
1 ATATGTGATTACGTGTAAGACCAC-GTCTGGGAC-GTTGGCATCT
*
17191128 ATATGTGATTACATGTAAGACCACGTCTGGGACGTTGGCAT
1 ATATGTGATTACGTGTAAGACCACGTCTGGGACGTTGGCAT
17191169 TGTACGATAT
Statistics
Matches: 105, Mismatches: 11, Indels: 17
0.79 0.08 0.13
Matches are distributed among these distances:
40 2 0.02
41 27 0.26
42 44 0.42
43 28 0.27
44 4 0.04
ACGTcount: A:0.23, C:0.19, G:0.28, T:0.31
Consensus pattern (43 bp):
ATATGTGATTACGTGTAAGACCACGTCTGGGACGTTGGCATCT
Found at i:17197906 original size:27 final size:27
Alignment explanation
Indices: 17197875--17198052 Score: 205
Period size: 27 Copynumber: 6.6 Consensus size: 27
17197865 TAAATTGTAC
17197875 AGCACTAAGTGTGCGATTTGACTATGT
1 AGCACTAAGTGTGCGATTTGACTATGT
* ** *
17197902 TGCACTAAGTGTGCGAAATGAATATG-
1 AGCACTAAGTGTGCGATTTGACTATGT
* * *
17197928 ATGCACTAAGTGTGCGAATTGACCATGC
1 A-GCACTAAGTGTGCGATTTGACTATGT
*
17197956 GGCACTAAGTGTGCGAGTTTGACTATGT
1 AGCACTAAGTGTGCGA-TTTGACTATGT
* *
17197984 AGCACTAAGTGTGCGATTTGATTACGT
1 AGCACTAAGTGTGCGATTTGACTATGT
* * *
17198011 AGCACTAAGTGTGCGAGTTGATTATAT
1 AGCACTAAGTGTGCGATTTGACTATGT
*
17198038 AGCACTGAGTGTGCG
1 AGCACTAAGTGTGCG
17198053 GACTCAATAT
Statistics
Matches: 129, Mismatches: 19, Indels: 6
0.84 0.12 0.04
Matches are distributed among these distances:
27 106 0.82
28 23 0.18
ACGTcount: A:0.27, C:0.15, G:0.28, T:0.30
Consensus pattern (27 bp):
AGCACTAAGTGTGCGATTTGACTATGT
Found at i:17197989 original size:82 final size:81
Alignment explanation
Indices: 17197876--17198031 Score: 233
Period size: 82 Copynumber: 1.9 Consensus size: 81
17197866 AAATTGTACA
* *
17197876 GCACTAAGTGTGCGATTTGACTATGTTGCACTAAGTGTGCGAAATGAATATG-ATGCACTAAGTG
1 GCACTAAGTGTGCGATTTGACTATGTAGCACTAAGTGTGCGAAATGAATACGTA-GCACTAAGTG
17197940 TGCGAATTGACCATGCG
65 TGCGAATTGACCATGCG
** *
17197957 GCACTAAGTGTGCGAGTTTGACTATGTAGCACTAAGTGTGCGATTTGATTACGTAGCACTAAGTG
1 GCACTAAGTGTGCGA-TTTGACTATGTAGCACTAAGTGTGCGAAATGAATACGTAGCACTAAGTG
*
17198022 TGCGAGTTGA
65 TGCGAATTGA
17198032 TTATATAGCA
Statistics
Matches: 67, Mismatches: 6, Indels: 3
0.88 0.08 0.04
Matches are distributed among these distances:
81 15 0.22
82 51 0.76
83 1 0.01
ACGTcount: A:0.27, C:0.15, G:0.28, T:0.29
Consensus pattern (81 bp):
GCACTAAGTGTGCGATTTGACTATGTAGCACTAAGTGTGCGAAATGAATACGTAGCACTAAGTGT
GCGAATTGACCATGCG
Found at i:17198043 original size:82 final size:81
Alignment explanation
Indices: 17197872--17198052 Score: 229
Period size: 82 Copynumber: 2.2 Consensus size: 81
17197862 GATTAAATTG
* *
17197872 TACAGCACTAAGTGTGCGATTTGACTATGTTGCACTAAGTGTGCGAAATGAATATGATGCACTAA
1 TACAGCACTAAGTGTGCGATTTGACTATGTAGCACTAAGTGTGCGAAATGAATACGATGCACTAA
17197937 GTGTGCGAATTGACCA
66 GTGTGCGAATTGACCA
* * ** *
17197953 TGCGGCACTAAGTGTGCGAGTTTGACTATGTAGCACTAAGTGTGCGATTTGATTACG-TAGCACT
1 TACAGCACTAAGTGTGCGA-TTTGACTATGTAGCACTAAGTGTGCGAAATGAATACGAT-GCACT
* **
17198017 AAGTGTGCGAGTTGATTA
64 AAGTGTGCGAATTGACCA
* *
17198035 TATAGCACTGAGTGTGCG
1 TACAGCACTAAGTGTGCG
17198053 GACTCAATAT
Statistics
Matches: 84, Mismatches: 14, Indels: 3
0.83 0.14 0.03
Matches are distributed among these distances:
81 18 0.21
82 66 0.79
ACGTcount: A:0.27, C:0.15, G:0.28, T:0.30
Consensus pattern (81 bp):
TACAGCACTAAGTGTGCGATTTGACTATGTAGCACTAAGTGTGCGAAATGAATACGATGCACTAA
GTGTGCGAATTGACCA
Found at i:17205969 original size:27 final size:27
Alignment explanation
Indices: 17205938--17206115 Score: 205
Period size: 27 Copynumber: 6.6 Consensus size: 27
17205928 TAAATTGTAC
17205938 AGCACTAAGTGTGCGATTTGACTATGT
1 AGCACTAAGTGTGCGATTTGACTATGT
* ** *
17205965 TGCACTAAGTGTGCGAAATGAATATG-
1 AGCACTAAGTGTGCGATTTGACTATGT
* * *
17205991 ATGCACTAAGTGTGCGAATTGACCATGC
1 A-GCACTAAGTGTGCGATTTGACTATGT
*
17206019 GGCACTAAGTGTGCGAGTTTGACTATGT
1 AGCACTAAGTGTGCGA-TTTGACTATGT
* *
17206047 AGCACTAAGTGTGCGATTTGATTACGT
1 AGCACTAAGTGTGCGATTTGACTATGT
* * *
17206074 AGCACTAAGTGTGCGAGTTGATTATAT
1 AGCACTAAGTGTGCGATTTGACTATGT
*
17206101 AGCACTGAGTGTGCG
1 AGCACTAAGTGTGCG
17206116 GACTCAATAT
Statistics
Matches: 129, Mismatches: 19, Indels: 6
0.84 0.12 0.04
Matches are distributed among these distances:
27 106 0.82
28 23 0.18
ACGTcount: A:0.27, C:0.15, G:0.28, T:0.30
Consensus pattern (27 bp):
AGCACTAAGTGTGCGATTTGACTATGT
Found at i:17206052 original size:82 final size:81
Alignment explanation
Indices: 17205939--17206094 Score: 233
Period size: 82 Copynumber: 1.9 Consensus size: 81
17205929 AAATTGTACA
* *
17205939 GCACTAAGTGTGCGATTTGACTATGTTGCACTAAGTGTGCGAAATGAATATG-ATGCACTAAGTG
1 GCACTAAGTGTGCGATTTGACTATGTAGCACTAAGTGTGCGAAATGAATACGTA-GCACTAAGTG
17206003 TGCGAATTGACCATGCG
65 TGCGAATTGACCATGCG
** *
17206020 GCACTAAGTGTGCGAGTTTGACTATGTAGCACTAAGTGTGCGATTTGATTACGTAGCACTAAGTG
1 GCACTAAGTGTGCGA-TTTGACTATGTAGCACTAAGTGTGCGAAATGAATACGTAGCACTAAGTG
*
17206085 TGCGAGTTGA
65 TGCGAATTGA
17206095 TTATATAGCA
Statistics
Matches: 67, Mismatches: 6, Indels: 3
0.88 0.08 0.04
Matches are distributed among these distances:
81 15 0.22
82 51 0.76
83 1 0.01
ACGTcount: A:0.27, C:0.15, G:0.28, T:0.29
Consensus pattern (81 bp):
GCACTAAGTGTGCGATTTGACTATGTAGCACTAAGTGTGCGAAATGAATACGTAGCACTAAGTGT
GCGAATTGACCATGCG
Found at i:17206106 original size:82 final size:81
Alignment explanation
Indices: 17205935--17206115 Score: 229
Period size: 82 Copynumber: 2.2 Consensus size: 81
17205925 GATTAAATTG
* *
17205935 TACAGCACTAAGTGTGCGATTTGACTATGTTGCACTAAGTGTGCGAAATGAATATGATGCACTAA
1 TACAGCACTAAGTGTGCGATTTGACTATGTAGCACTAAGTGTGCGAAATGAATACGATGCACTAA
17206000 GTGTGCGAATTGACCA
66 GTGTGCGAATTGACCA
* * ** *
17206016 TGCGGCACTAAGTGTGCGAGTTTGACTATGTAGCACTAAGTGTGCGATTTGATTACG-TAGCACT
1 TACAGCACTAAGTGTGCGA-TTTGACTATGTAGCACTAAGTGTGCGAAATGAATACGAT-GCACT
* **
17206080 AAGTGTGCGAGTTGATTA
64 AAGTGTGCGAATTGACCA
* *
17206098 TATAGCACTGAGTGTGCG
1 TACAGCACTAAGTGTGCG
17206116 GACTCAATAT
Statistics
Matches: 84, Mismatches: 14, Indels: 3
0.83 0.14 0.03
Matches are distributed among these distances:
81 18 0.21
82 66 0.79
ACGTcount: A:0.27, C:0.15, G:0.28, T:0.30
Consensus pattern (81 bp):
TACAGCACTAAGTGTGCGATTTGACTATGTAGCACTAAGTGTGCGAAATGAATACGATGCACTAA
GTGTGCGAATTGACCA
Found at i:17209748 original size:26 final size:26
Alignment explanation
Indices: 17209713--17209763 Score: 86
Period size: 26 Copynumber: 2.0 Consensus size: 26
17209703 TCATACATCC
17209713 CATAAGGGCATAATAGTCACTTTACCT
1 CATAAGGGCATAATAGTCA-TTTACCT
17209740 CATAA-GGCATAATAGTCATTTACC
1 CATAAGGGCATAATAGTCATTTACC
17209764 AATATTGTGG
Statistics
Matches: 24, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
25 6 0.25
26 13 0.54
27 5 0.21
ACGTcount: A:0.35, C:0.22, G:0.14, T:0.29
Consensus pattern (26 bp):
CATAAGGGCATAATAGTCATTTACCT
Found at i:17222530 original size:76 final size:76
Alignment explanation
Indices: 17222404--17222554 Score: 284
Period size: 76 Copynumber: 2.0 Consensus size: 76
17222394 TTGCGCTTCA
*
17222404 GATCCGCATACGACTTCTGTCTATCGGATGCCTCCTTTAACCGATCCCTTATCAGCCTAACCTTG
1 GATCCGCATACGACTTCTGTCTATCGGATGCCTCCTTTAACCAATCCCTTATCAGCCTAACCTTG
17222469 CTTTCAGTGTT
66 CTTTCAGTGTT
*
17222480 GATCCGCATACGACTTCTGTCTATTGGATGCCTCCTTTAACCAATCCCTTATCAGCCTAACCTTG
1 GATCCGCATACGACTTCTGTCTATCGGATGCCTCCTTTAACCAATCCCTTATCAGCCTAACCTTG
17222545 CTTTCAGTGT
66 CTTTCAGTGT
17222555 CTGCCACCAA
Statistics
Matches: 73, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
76 73 1.00
ACGTcount: A:0.19, C:0.31, G:0.15, T:0.34
Consensus pattern (76 bp):
GATCCGCATACGACTTCTGTCTATCGGATGCCTCCTTTAACCAATCCCTTATCAGCCTAACCTTG
CTTTCAGTGTT
Found at i:17226945 original size:161 final size:160
Alignment explanation
Indices: 17226680--17227000 Score: 597
Period size: 161 Copynumber: 2.0 Consensus size: 160
17226670 TCAGAGTTAT
17226680 TTTCGAGCAATCAGAATTTAGCTACGGTCCCAGTTTTGTAGCCCTAATACTACATTATCAATAGC
1 TTTCGAGCAATCAGAATTTAGCTACGGTCCCAGTTTTGTAGCCCTAATACTACATTATCAATAGC
* *
17226745 ACTATCTCTAAGGCTCAGTACTATCTACAGTATTATTTCCAGTCCAGTTCCATATAAATATTTAA
66 ACTATCTCTAAAGCTCAGTACTATCTACAGTATTATTTCCAATCCAGTTCCATATAAATATTTAA
17226810 AGCAGAAAAAGAACACTTACAGACTTGGTG
131 AGCAGAAAAAGAACACTTACAGACTTGGTG
17226840 NTTTCGAGCAATCAGAATTTAGCTACGGTCCCAGTTTTGTAGCCCTAATACTACATTATCAATAG
1 -TTTCGAGCAATCAGAATTTAGCTACGGTCCCAGTTTTGTAGCCCTAATACTACATTATCAATAG
*
17226905 CACTATCTCTAAAGCTCAGTACTATCTACAGTATTATTTCCAATCCAGTTCCATATAAATATTTG
65 CACTATCTCTAAAGCTCAGTACTATCTACAGTATTATTTCCAATCCAGTTCCATATAAATATTTA
*
17226970 AAGTAGAAAAAGAACACTTACAGACTTGGTG
130 AAGCAGAAAAAGAACACTTACAGACTTGGTG
17227001 CCGGGGATTC
Statistics
Matches: 156, Mismatches: 4, Indels: 0
0.98 0.03 0.00
Matches are distributed among these distances:
161 156 1.00
ACGTcount: A:0.33, C:0.21, G:0.14, T:0.31
Consensus pattern (160 bp):
TTTCGAGCAATCAGAATTTAGCTACGGTCCCAGTTTTGTAGCCCTAATACTACATTATCAATAGC
ACTATCTCTAAAGCTCAGTACTATCTACAGTATTATTTCCAATCCAGTTCCATATAAATATTTAA
AGCAGAAAAAGAACACTTACAGACTTGGTG
Found at i:17230986 original size:40 final size:40
Alignment explanation
Indices: 17230892--17231116 Score: 258
Period size: 40 Copynumber: 5.6 Consensus size: 40
17230882 TATTCGAATG
*
17230892 ATATCCGGGCTAAG-TCCCGAAGGCTTTTGTGCTAGGTGACT
1 ATATCCGGGCTAAGAT-CCGAAGGCATTTGTGCTA-GTGACT
* * * *
17230933 ATAACCGGACTAAGATCCGAAGGCATTCGTGCGAGTTG-CT
1 ATATCCGGGCTAAGATCCGAAGGCATTTGTGCTAG-TGACT
* * *
17230973 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCTAGCGATT
1 ATATCCGGGCTAAGATCCGAAGGCATTTGTGCTAGTGACT
* * *
17231013 ATATCCGGGCTAAAACCCGAAGGCATTTGTGCTAGCGACT
1 ATATCCGGGCTAAGATCCGAAGGCATTTGTGCTAGTGACT
* *
17231053 ATATCCGGGCTAAG-TCCCGAAGGCATTTATGCTAGTGACC
1 ATATCCGGGCTAAGAT-CCGAAGGCATTTGTGCTAGTGACT
* *
17231093 ACATCCGGGCTAAGACCCGAAGGC
1 ATATCCGGGCTAAGATCCGAAGGC
17231117 CTTGTGCAAG
Statistics
Matches: 158, Mismatches: 21, Indels: 11
0.83 0.11 0.06
Matches are distributed among these distances:
39 1 0.01
40 127 0.80
41 29 0.18
42 1 0.01
ACGTcount: A:0.25, C:0.24, G:0.27, T:0.23
Consensus pattern (40 bp):
ATATCCGGGCTAAGATCCGAAGGCATTTGTGCTAGTGACT
Found at i:17231072 original size:80 final size:80
Alignment explanation
Indices: 17230892--17231152 Score: 312
Period size: 80 Copynumber: 3.3 Consensus size: 80
17230882 TATTCGAATG
* * * *
17230892 ATATCCGGGCTAAGTCCCGAAGGCTTTTGTGCTAGGTGACTATAACCGGACTAAGATCCGAAGGC
1 ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCTA-GTGACTATATCCGGGCTAAGACCCGAAGGC
*
17230957 ATTCGTGCGAGTTGCT
65 ATTCGTGCGAGTCGCT
* * * *
17230973 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCTAGCGATTATATCCGGGCTAAAACCCGAAGGCA
1 ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCTAGTGACTATATCCGGGCTAAGACCCGAAGGCA
* *
17231038 TTTGTGCTAG-CGACT
66 TTCGTGCGAGTCG-CT
* * * *
17231053 ATATCCGGGCTAAGTCCCGAAGGCATTTATGCTAGTGACCACATCCGGGCTAAGACCCGAAGGCC
1 ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCTAGTGACTATATCCGGGCTAAGACCCGAAGGCA
* * *
17231118 TT-GTGCAAGTAGTT
66 TTCGTGCGAGTCGCT
*
17231132 ATATCC-GGCTAAATCCCGAAG
1 ATATCCGGGCTAAGTCCCGAAG
17231153 ATTTCTTGAG
Statistics
Matches: 155, Mismatches: 23, Indels: 7
0.84 0.12 0.04
Matches are distributed among these distances:
78 14 0.09
79 14 0.09
80 95 0.61
81 32 0.21
ACGTcount: A:0.26, C:0.24, G:0.26, T:0.24
Consensus pattern (80 bp):
ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCTAGTGACTATATCCGGGCTAAGACCCGAAGGCA
TTCGTGCGAGTCGCT
Found at i:17231106 original size:120 final size:120
Alignment explanation
Indices: 17230892--17231152 Score: 325
Period size: 120 Copynumber: 2.2 Consensus size: 120
17230882 TATTCGAATG
* * *
17230892 ATATCCGGGCTAAGTCCCGAAGGCTTTTGTGCTAGGTGACTATAACCGGACTAAGATCCGAAGGC
1 ATATCCGGGCTAAATCCCGAAGGCATTTGTGCTAGGCGACTATAACCGGACTAAGATCCGAAGGC
* * * * *
17230957 ATTCGTGCGAGTTGCTATATCCGGGCTAAGACCCGAAGGCATTTGTGCTAGCGA-TT
66 ATTCATGCGAGTTGCCACATCCGGGCTAAGACCCGAAGGC-CTTGTGCAAG-GAGTT
* * *
17231013 ATATCCGGGCTAAAACCCGAAGGCATTTGTGCTA-GCGACTATATCCGGGCTAAG-TCCCGAAGG
1 ATATCCGGGCTAAATCCCGAAGGCATTTGTGCTAGGCGACTATAACCGGACTAAGAT-CCGAAGG
* * *
17231076 CATTTATGCTAG-TGACCACATCCGGGCTAAGACCCGAAGGCCTTGTGCAAGTAGTT
65 CATTCATGCGAGTTG-CCACATCCGGGCTAAGACCCGAAGGCCTTGTGCAAGGAGTT
17231132 ATATCC-GGCTAAATCCCGAAG
1 ATATCCGGGCTAAATCCCGAAG
17231153 ATTTCTTGAG
Statistics
Matches: 122, Mismatches: 15, Indels: 9
0.84 0.10 0.06
Matches are distributed among these distances:
118 15 0.12
119 19 0.16
120 57 0.47
121 31 0.25
ACGTcount: A:0.26, C:0.24, G:0.26, T:0.24
Consensus pattern (120 bp):
ATATCCGGGCTAAATCCCGAAGGCATTTGTGCTAGGCGACTATAACCGGACTAAGATCCGAAGGC
ATTCATGCGAGTTGCCACATCCGGGCTAAGACCCGAAGGCCTTGTGCAAGGAGTT
Found at i:17234151 original size:27 final size:27
Alignment explanation
Indices: 17234121--17234347 Score: 348
Period size: 27 Copynumber: 8.4 Consensus size: 27
17234111 ATTACCAAAG
* *
17234121 TACCCTCAATTTATAGAATTACCGTTT
1 TACCCTCGATTTACAGAATTACCGTTT
*
17234148 TACCCTCGATTTATAGAATTACCGTTT
1 TACCCTCGATTTACAGAATTACCGTTT
17234175 TACCCTCGATTTACAGAATTACCGTTT
1 TACCCTCGATTTACAGAATTACCGTTT
*
17234202 TACCCTC-AGTTTACAGAATTACTGTTT
1 TACCCTCGA-TTTACAGAATTACCGTTT
*
17234229 TACCCTCGATTTATAGAATTACCGTTT
1 TACCCTCGATTTACAGAATTACCGTTT
* *
17234256 TACCCTCAATTTACAGAATTACTGTTT
1 TACCCTCGATTTACAGAATTACCGTTT
17234283 TACCCTCGATTTACAGAATTACCGTTT
1 TACCCTCGATTTACAGAATTACCGTTT
* * *
17234310 TACCCTCGATTTACAAAATTACTGATT
1 TACCCTCGATTTACAGAATTACCGTTT
17234337 TACCCTCGATT
1 TACCCTCGATT
17234348 GTGAAAATAC
Statistics
Matches: 185, Mismatches: 13, Indels: 4
0.92 0.06 0.02
Matches are distributed among these distances:
26 1 0.01
27 183 0.99
28 1 0.01
ACGTcount: A:0.27, C:0.24, G:0.10, T:0.39
Consensus pattern (27 bp):
TACCCTCGATTTACAGAATTACCGTTT
Found at i:17234690 original size:27 final size:28
Alignment explanation
Indices: 17234379--17234692 Score: 416
Period size: 27 Copynumber: 11.6 Consensus size: 28
17234369 TACAGGGTAG
*
17234379 AATTACCAAAATACCC-CTAGTTTGTAA
1 AATTACCAAAATACCCTCTGGTTTGTAA
17234406 AATTACCAAAATACCC-CTGGTTTGTAA
1 AATTACCAAAATACCCTCTGGTTTGTAA
17234433 AATTACCAAAATACCC-CTGGTTTGTAA
1 AATTACCAAAATACCCTCTGGTTTGTAA
17234460 AATTACCAAAATACCC-CTGGTTTGTAA
1 AATTACCAAAATACCCTCTGGTTTGTAA
17234487 AATTACCAAAATACCCT-TGGTTTGTAA
1 AATTACCAAAATACCCTCTGGTTTGTAA
17234514 AATTACCAAAATACCCT-TGGTTTGTAA
1 AATTACCAAAATACCCTCTGGTTTGTAA
17234541 AATTACCAAAATACCC-CTGGTTTGTAA
1 AATTACCAAAATACCCTCTGGTTTGTAA
*
17234568 AATTACCAAAATACCCT-TAGTTTGTAA
1 AATTACCAAAATACCCTCTGGTTTGTAA
* *
17234595 AATTACCAAAATACCC-CTGATTTGTGA
1 AATTACCAAAATACCCTCTGGTTTGTAA
** ***
17234622 AATTACTGAAATACCCTC-GACCTGTAA
1 AATTACCAAAATACCCTCTGGTTTGTAA
*** **
17234649 AATTATGGAAATACCCTC-GACTTGTAA
1 AATTACCAAAATACCCTCTGGTTTGTAA
*
17234676 AATTACCAAAGTACCCT
1 AATTACCAAAATACCCT
17234693 TGCTTTACAG
Statistics
Matches: 265, Mismatches: 17, Indels: 10
0.91 0.06 0.03
Matches are distributed among these distances:
27 264 1.00
28 1 0.00
ACGTcount: A:0.38, C:0.22, G:0.11, T:0.30
Consensus pattern (28 bp):
AATTACCAAAATACCCTCTGGTTTGTAA
Found at i:17234706 original size:27 final size:26
Alignment explanation
Indices: 17234674--17234744 Score: 79
Period size: 27 Copynumber: 2.6 Consensus size: 26
17234664 CTCGACTTGT
*
17234674 AAAATTACCAAAGTACCCTTGCTTTAC
1 AAAATTACCAAA-TACCCTTGATTTAC
* **
17234701 AGAATTACCATTTTACCCTTGATTTAC
1 AAAATTACCA-AATACCCTTGATTTAC
17234728 AAAATTACCGAAATACC
1 AAAATTACC-AAATACC
17234745 TCTGTGGGGT
Statistics
Matches: 35, Mismatches: 7, Indels: 4
0.76 0.15 0.09
Matches are distributed among these distances:
27 34 0.97
28 1 0.03
ACGTcount: A:0.38, C:0.24, G:0.07, T:0.31
Consensus pattern (26 bp):
AAAATTACCAAATACCCTTGATTTAC
Found at i:17234760 original size:27 final size:27
Alignment explanation
Indices: 17234730--17234978 Score: 320
Period size: 27 Copynumber: 9.3 Consensus size: 27
17234720 TGATTTACAA
* *
17234730 AATTACCGAAATACCTCTGTGGGGTAG
1 AATTACCGAAATACCCCTGTAGGGTAG
** *
17234757 AATTACTAAAATACCCTTGTAGGGTAG
1 AATTACCGAAATACCCCTGTAGGGTAG
*
17234784 AATTACCGAAATACCCCTATAGGGTAG
1 AATTACCGAAATACCCCTGTAGGGTAG
17234811 AATTACCGAAATACCCCTGTAGGGTAG
1 AATTACCGAAATACCCCTGTAGGGTAG
*
17234838 AATTACCGAAATACCCCTGTAGGGTAC
1 AATTACCGAAATACCCCTGTAGGGTAG
* * * *
17234865 AATTATCGCAATACCGCTATAGGGTAG
1 AATTACCGAAATACCCCTGTAGGGTAG
*
17234892 AATTACCGAAATACCCATGTAGGGTAG
1 AATTACCGAAATACCCCTGTAGGGTAG
** * *
17234919 AATTACTAAAACACCCCTGTAGGGTGG
1 AATTACCGAAATACCCCTGTAGGGTAG
* * *
17234946 AATTACCGAGATA-CCTTGTAGGGTAA
1 AATTACCGAAATACCCCTGTAGGGTAG
17234972 AATTACC
1 AATTACC
17234979 ATTTTGCCCC
Statistics
Matches: 189, Mismatches: 33, Indels: 1
0.85 0.15 0.00
Matches are distributed among these distances:
26 17 0.09
27 172 0.91
ACGTcount: A:0.35, C:0.20, G:0.21, T:0.24
Consensus pattern (27 bp):
AATTACCGAAATACCCCTGTAGGGTAG
Found at i:17235458 original size:22 final size:23
Alignment explanation
Indices: 17235407--17235469 Score: 67
Period size: 22 Copynumber: 2.8 Consensus size: 23
17235397 AAAGCCTTCT
* *
17235407 GATTATGGCTTTGTGTCAACCTA
1 GATTATGGCTCTGTGCCAACCTA
* *
17235430 CA-CATGGCTCTGTGCCAACC-A
1 GATTATGGCTCTGTGCCAACCTA
*
17235451 GATTATGGCTGTGTGCCAA
1 GATTATGGCTCTGTGCCAA
17235470 ACATATTTTC
Statistics
Matches: 32, Mismatches: 7, Indels: 3
0.76 0.17 0.07
Matches are distributed among these distances:
21 2 0.06
22 29 0.91
23 1 0.03
ACGTcount: A:0.22, C:0.24, G:0.24, T:0.30
Consensus pattern (23 bp):
GATTATGGCTCTGTGCCAACCTA
Found at i:17235658 original size:27 final size:27
Alignment explanation
Indices: 17235628--17235729 Score: 116
Period size: 27 Copynumber: 3.8 Consensus size: 27
17235618 ATTCTGTTAA
* * *
17235628 GTGGCTTTGCTACATTATCTGTTTCTG
1 GTGGCTATGCCACAATATCTGTTTCTG
17235655 GTGGCTATGCCACAAATATCTG-TTCTG
1 GTGGCTATGCCAC-AATATCTGTTTCTG
* *
17235682 GTGGCTCTGCCACAATATCTGTATCTG
1 GTGGCTATGCCACAATATCTGTTTCTG
* * *
17235709 GTGACTCTGTCACAATATCTG
1 GTGGCTATGCCACAATATCTG
17235730 ATAACTGAGC
Statistics
Matches: 66, Mismatches: 7, Indels: 4
0.86 0.09 0.05
Matches are distributed among these distances:
26 8 0.12
27 51 0.77
28 7 0.11
ACGTcount: A:0.19, C:0.23, G:0.22, T:0.37
Consensus pattern (27 bp):
GTGGCTATGCCACAATATCTGTTTCTG
Found at i:17235686 original size:54 final size:53
Alignment explanation
Indices: 17235628--17235729 Score: 132
Period size: 54 Copynumber: 1.9 Consensus size: 53
17235618 ATTCTGTTAA
* * * * *
17235628 GTGGCTTTGCTACATTATCTGTTTCTGGTGGCTATGCCACAAATATCTGTTCTG
1 GTGGCTCTGCCACAATATCTGTATCTGGTGACTATGCCAC-AATATCTGTTCTG
* *
17235682 GTGGCTCTGCCACAATATCTGTATCTGGTGACTCTGTCACAATATCTG
1 GTGGCTCTGCCACAATATCTGTATCTGGTGACTATGCCACAATATCTG
17235730 ATAACTGAGC
Statistics
Matches: 41, Mismatches: 7, Indels: 1
0.84 0.14 0.02
Matches are distributed among these distances:
53 8 0.20
54 33 0.80
ACGTcount: A:0.19, C:0.23, G:0.22, T:0.37
Consensus pattern (53 bp):
GTGGCTCTGCCACAATATCTGTATCTGGTGACTATGCCACAATATCTGTTCTG
Found at i:17235905 original size:6 final size:6
Alignment explanation
Indices: 17235894--17236015 Score: 99
Period size: 6 Copynumber: 19.8 Consensus size: 6
17235884 TTACCTAATA
* * * *
17235894 CTGATT CTGATT TTGATT CTG-TT ACCTGATA CTGATT TTGATT TTGATT
1 CTGATT CTGATT CTGATT CTGATT --CTGATT CTGATT CTGATT CTGATT
* *
17235943 CTG-TT ACCTGATA CTGATT CTGATT CTGATT CTG-TCAC CTGATT CTGATT
1 CTGATT --CTGATT CTGATT CTGATT CTGATT CTGAT--T CTGATT CTGATT
17235993 CTGATT CTGATT CT-AGTT CTGAT
1 CTGATT CTGATT CTGA-TT CTGAT
17236016 AATGTTTCTT
Statistics
Matches: 95, Mismatches: 10, Indels: 22
0.75 0.08 0.17
Matches are distributed among these distances:
5 6 0.06
6 76 0.80
7 10 0.11
8 3 0.03
ACGTcount: A:0.18, C:0.17, G:0.16, T:0.48
Consensus pattern (6 bp):
CTGATT
Found at i:17235916 original size:31 final size:31
Alignment explanation
Indices: 17235865--17236006 Score: 212
Period size: 31 Copynumber: 4.5 Consensus size: 31
17235855 TTGCATTCAC
* *
17235865 ATTCTGATTTTTTATTCTGTTACCTAATACTG
1 ATTCTGA-TTTTGATTCTGTTACCTGATACTG
17235897 ATTCTGATTTTGATTCTGTTACCTGATACTG
1 ATTCTGATTTTGATTCTGTTACCTGATACTG
*
17235928 ATTTTGATTTTGATTCTGTTACCTGATACTG
1 ATTCTGATTTTGATTCTGTTACCTGATACTG
* * *
17235959 ATTCTGATTCTGATTCTGTCACCTGATTCTG
1 ATTCTGATTTTGATTCTGTTACCTGATACTG
*
17235990 ATTCTGATTCTGATTCT
1 ATTCTGATTTTGATTCT
17236007 AGTTCTGATA
Statistics
Matches: 103, Mismatches: 7, Indels: 1
0.93 0.06 0.01
Matches are distributed among these distances:
31 96 0.93
32 7 0.07
ACGTcount: A:0.19, C:0.17, G:0.14, T:0.50
Consensus pattern (31 bp):
ATTCTGATTTTGATTCTGTTACCTGATACTG
Found at i:17237154 original size:15 final size:15
Alignment explanation
Indices: 17237134--17237169 Score: 63
Period size: 15 Copynumber: 2.4 Consensus size: 15
17237124 ACACCCTGAA
*
17237134 TTTGGGGCTAGAAGT
1 TTTGGGCCTAGAAGT
17237149 TTTGGGCCTAGAAGT
1 TTTGGGCCTAGAAGT
17237164 TTTGGG
1 TTTGGG
17237170 TTTTGAGCAT
Statistics
Matches: 20, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
15 20 1.00
ACGTcount: A:0.17, C:0.08, G:0.39, T:0.36
Consensus pattern (15 bp):
TTTGGGCCTAGAAGT
Found at i:17237682 original size:34 final size:34
Alignment explanation
Indices: 17237643--17237711 Score: 120
Period size: 34 Copynumber: 2.0 Consensus size: 34
17237633 GGCCATTCGT
17237643 ATTGTTATCCCTATTTAGAATACTTTAGTTTACC
1 ATTGTTATCCCTATTTAGAATACTTTAGTTTACC
* *
17237677 ATTGTTATCCTTGTTTAGAATACTTTAGTTTACC
1 ATTGTTATCCCTATTTAGAATACTTTAGTTTACC
17237711 A
1 A
17237712 ACTTACCAAA
Statistics
Matches: 33, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
34 33 1.00
ACGTcount: A:0.26, C:0.16, G:0.10, T:0.48
Consensus pattern (34 bp):
ATTGTTATCCCTATTTAGAATACTTTAGTTTACC
Found at i:17238058 original size:27 final size:27
Alignment explanation
Indices: 17237714--17238054 Score: 378
Period size: 27 Copynumber: 12.6 Consensus size: 27
17237704 GTTTACCAAC
*
17237714 TTACCAAAATACCCCTGGTTTGTAAAA
1 TTACCAAAATACCCTTGGTTTGTAAAA
* * *
17237741 TTACTAAAATACCCTTGGTTTATACAA
1 TTACCAAAATACCCTTGGTTTGTAAAA
* *
17237768 TCACCAAAATACCCCTGGTTTGTAAAA
1 TTACCAAAATACCCTTGGTTTGTAAAA
**
17237795 TTACCAAAATACCCTTGGTTTACAAAA
1 TTACCAAAATACCCTTGGTTTGTAAAA
17237822 TTACCAAAATACCCTTGGTTTGTAAAA
1 TTACCAAAATACCCTTGGTTTGTAAAA
* * * *
17237849 TTACTAAAATACCATTTGTTTATAAAA
1 TTACCAAAATACCCTTGGTTTGTAAAA
*
17237876 TTACCAAAATACCAC-TAGTTTGTAAAA
1 TTACCAAAATACC-CTTGGTTTGTAAAA
*
17237903 TTACCAAAATACCCCTGGTTTGTAAAA
1 TTACCAAAATACCCTTGGTTTGTAAAA
** *
17237930 TTATGAAAATACCCTTAGTTTGTAAAA
1 TTACCAAAATACCCTTGGTTTGTAAAA
* * * *
17237957 TTACAAAAATACCCCTGATTTGTGAAA
1 TTACCAAAATACCCTTGGTTTGTAAAA
* * ***
17237984 TTACTAAAATACCCTCGACCTGTAAAA
1 TTACCAAAATACCCTTGGTTTGTAAAA
*** * *
17238011 TTATGGAAATACCCTCGATTTGTAAAA
1 TTACCAAAATACCCTTGGTTTGTAAAA
*
17238038 TTACCAAAGTACCCTTG
1 TTACCAAAATACCCTTG
17238055 ATTTACAGAA
Statistics
Matches: 262, Mismatches: 50, Indels: 4
0.83 0.16 0.01
Matches are distributed among these distances:
26 1 0.00
27 261 1.00
ACGTcount: A:0.39, C:0.20, G:0.10, T:0.32
Consensus pattern (27 bp):
TTACCAAAATACCCTTGGTTTGTAAAA
Found at i:17238104 original size:27 final size:27
Alignment explanation
Indices: 17238007--17238105 Score: 83
Period size: 27 Copynumber: 3.7 Consensus size: 27
17237997 CTCGACCTGT
* **
17238007 AAAATTATGGAAATACCCTCGATTTGT
1 AAAATTATCGAAATACCCTCGATTTAC
* *
17238034 AAAATTA-CCAAAGTACCCTTGATTTAC
1 AAAATTATCGAAA-TACCCTCGATTTAC
* * *** *
17238061 AGAATTACCGTTTTACCCTCAATTTAC
1 AAAATTATCGAAATACCCTCGATTTAC
17238088 AAAATTATCGAAATACCC
1 AAAATTATCGAAATACCC
17238106 CTGTAGGGTA
Statistics
Matches: 53, Mismatches: 17, Indels: 4
0.72 0.23 0.05
Matches are distributed among these distances:
26 3 0.06
27 49 0.92
28 1 0.02
ACGTcount: A:0.38, C:0.21, G:0.09, T:0.31
Consensus pattern (27 bp):
AAAATTATCGAAATACCCTCGATTTAC
Found at i:17238120 original size:27 final size:27
Alignment explanation
Indices: 17238090--17238457 Score: 378
Period size: 27 Copynumber: 13.3 Consensus size: 27
17238080 CAATTTACAA
*
17238090 AATTATCGAAATACCCCTGTAGGGTAG
1 AATTACCGAAATACCCCTGTAGGGTAG
* *
17238117 AATTACCAAAATACCCCTATAGGGTAG
1 AATTACCGAAATACCCCTGTAGGGTAG
* *
17238144 AATTACCGAAGTACCCCTATAGGGTAG
1 AATTACCGAAATACCCCTGTAGGGTAG
* *
17238171 AATTACCGAAATACCTCTGTAAGGTAG
1 AATTACCGAAATACCCCTGTAGGGTAG
** *
17238198 AATTANGGTAGAATTACCGAAGTACCCCTATAGGGTAG
1 AATTA---CCG----A---AA-TACCCCTGTAGGGTAG
* *
17238236 AATTACCGAAATACCTCTGTAAGGTAG
1 AATTACCGAAATACCCCTGTAGGGTAG
*
17238263 AATTACCGAAATACCCATGTAGGGTAG
1 AATTACCGAAATACCCCTGTAGGGTAG
* *
17238290 AATTTCTGAAATACCCCTGTAGGGTAG
1 AATTACCGAAATACCCCTGTAGGGTAG
17238317 AATTACCGAAATACCCCTGTAGGGTAG
1 AATTACCGAAATACCCCTGTAGGGTAG
* * *
17238344 AATTATCGCAATACCCTTGTAGGGTAG
1 AATTACCGAAATACCCCTGTAGGGTAG
* *
17238371 AATTAGCGAAATACCCTTGTAGGGTAG
1 AATTACCGAAATACCCCTGTAGGGTAG
** * *
17238398 AATTACTAAAATACCCCTATAGGGTGG
1 AATTACCGAAATACCCCTGTAGGGTAG
* * * *
17238425 AATTACCGAGATA-CCTTGTGGGGTAA
1 AATTACCGAAATACCCCTGTAGGGTAG
17238451 AATTACC
1 AATTACC
17238458 ATTTTGCCCC
Statistics
Matches: 284, Mismatches: 46, Indels: 23
0.80 0.13 0.07
Matches are distributed among these distances:
26 15 0.05
27 243 0.86
28 2 0.01
30 1 0.00
31 1 0.00
34 1 0.00
35 1 0.00
37 2 0.01
38 18 0.06
ACGTcount: A:0.35, C:0.19, G:0.21, T:0.25
Consensus pattern (27 bp):
AATTACCGAAATACCCCTGTAGGGTAG
Found at i:17238217 original size:38 final size:37
Alignment explanation
Indices: 17238166--17238240 Score: 105
Period size: 38 Copynumber: 2.0 Consensus size: 37
17238156 ACCCCTATAG
* *
17238166 GGTAGAATTACCGAAATACCTCTGTAAGGTAGAATTA
1 GGTAGAATTACCGAAATACCCCTATAAGGTAGAATTA
* *
17238203 NGGTAGAATTACCGAAGTACCCCTATAGGGTAGAATTA
1 -GGTAGAATTACCGAAATACCCCTATAAGGTAGAATTA
17238241 CCGAAATACC
Statistics
Matches: 33, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
38 33 1.00
ACGTcount: A:0.36, C:0.15, G:0.23, T:0.25
Consensus pattern (37 bp):
GGTAGAATTACCGAAATACCCCTATAAGGTAGAATTA
Found at i:17238243 original size:65 final size:64
Alignment explanation
Indices: 17238139--17238267 Score: 249
Period size: 65 Copynumber: 2.0 Consensus size: 64
17238129 ACCCCTATAG
17238139 GGTAGAATTACCGAAGTACCCCTATAGGGTAGAATTACCGAAATACCTCTGTAAGGTAGAATTA
1 GGTAGAATTACCGAAGTACCCCTATAGGGTAGAATTACCGAAATACCTCTGTAAGGTAGAATTA
17238203 NGGTAGAATTACCGAAGTACCCCTATAGGGTAGAATTACCGAAATACCTCTGTAAGGTAGAATTA
1 -GGTAGAATTACCGAAGTACCCCTATAGGGTAGAATTACCGAAATACCTCTGTAAGGTAGAATTA
17238268 CCGAAATACC
Statistics
Matches: 64, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
65 64 1.00
ACGTcount: A:0.36, C:0.17, G:0.22, T:0.25
Consensus pattern (64 bp):
GGTAGAATTACCGAAGTACCCCTATAGGGTAGAATTACCGAAATACCTCTGTAAGGTAGAATTA
Found at i:17238936 original size:22 final size:22
Alignment explanation
Indices: 17238884--17238948 Score: 78
Period size: 22 Copynumber: 3.0 Consensus size: 22
17238874 TTAAAGCCTT
* *
17238884 CTGATTATGGCTTTGTGTCAAC
1 CTGATTATGGCTCTGTGCCAAC
*
17238906 CT-ACATATGGCTCTGTGCCAAC
1 CTGA-TTATGGCTCTGTGCCAAC
*
17238928 CTGATTATGGCTGTGTGCCAA
1 CTGATTATGGCTCTGTGCCAA
17238949 ACGTATTTGC
Statistics
Matches: 36, Mismatches: 5, Indels: 4
0.80 0.11 0.09
Matches are distributed among these distances:
21 1 0.03
22 34 0.94
23 1 0.03
ACGTcount: A:0.20, C:0.23, G:0.23, T:0.34
Consensus pattern (22 bp):
CTGATTATGGCTCTGTGCCAAC
Found at i:17239143 original size:26 final size:27
Alignment explanation
Indices: 17239106--17239180 Score: 107
Period size: 27 Copynumber: 2.8 Consensus size: 27
17239096 TATTCTGTTA
* *
17239106 AGTGGCTTTGCCACATTATCTGT-TCT
1 AGTGGCTCTGCCACAATATCTGTATCT
17239132 AGTGGCTCTGCCACAATATCTGTATCT
1 AGTGGCTCTGCCACAATATCTGTATCT
* *
17239159 GGTGGCTCTGTCACAATATCTG
1 AGTGGCTCTGCCACAATATCTG
17239181 ATAACTGAGC
Statistics
Matches: 44, Mismatches: 4, Indels: 1
0.90 0.08 0.02
Matches are distributed among these distances:
26 21 0.48
27 23 0.52
ACGTcount: A:0.19, C:0.24, G:0.21, T:0.36
Consensus pattern (27 bp):
AGTGGCTCTGCCACAATATCTGTATCT
Found at i:17239357 original size:6 final size:6
Alignment explanation
Indices: 17239346--17239458 Score: 97
Period size: 6 Copynumber: 18.3 Consensus size: 6
17239336 TTACCTAATA
* * * *
17239346 CTGATT CTGATT TTGATT CTG-TT ACCTGATA CTGATT CTGATT TTAATT
1 CTGATT CTGATT CTGATT CTGATT --CTGATT CTGATT CTGATT CTGATT
* *
17239395 CTG-TT ACCTGATA CTGATT CTGATT CTGATT CTG-TCAC CTGATT CTGATT
1 CTGATT --CTGATT CTGATT CTGATT CTGATT CTGAT--T CTGATT CTGATT
17239445 CTGATT CTGATT CT
1 CTGATT CTGATT CT
17239459 AGTTCTAATA
Statistics
Matches: 86, Mismatches: 12, Indels: 18
0.74 0.10 0.16
Matches are distributed among these distances:
5 5 0.06
6 69 0.80
7 9 0.10
8 3 0.03
ACGTcount: A:0.19, C:0.19, G:0.15, T:0.48
Consensus pattern (6 bp):
CTGATT
Found at i:17239372 original size:31 final size:31
Alignment explanation
Indices: 17239317--17239458 Score: 203
Period size: 31 Copynumber: 4.5 Consensus size: 31
17239307 TTGCATTCAC
* * *
17239317 ATTCTGATTTTTTATTATGTTACCTAATACTG
1 ATTCTGA-TTTTGATTCTGTTACCTGATACTG
17239349 ATTCTGATTTTGATTCTGTTACCTGATACTG
1 ATTCTGATTTTGATTCTGTTACCTGATACTG
*
17239380 ATTCTGATTTTAATTCTGTTACCTGATACTG
1 ATTCTGATTTTGATTCTGTTACCTGATACTG
* * *
17239411 ATTCTGATTCTGATTCTGTCACCTGATTCTG
1 ATTCTGATTTTGATTCTGTTACCTGATACTG
*
17239442 ATTCTGATTCTGATTCT
1 ATTCTGATTTTGATTCT
17239459 AGTTCTAATA
Statistics
Matches: 102, Mismatches: 8, Indels: 1
0.92 0.07 0.01
Matches are distributed among these distances:
31 95 0.93
32 7 0.07
ACGTcount: A:0.20, C:0.17, G:0.13, T:0.49
Consensus pattern (31 bp):
ATTCTGATTTTGATTCTGTTACCTGATACTG
Found at i:17239458 original size:62 final size:62
Alignment explanation
Indices: 17239334--17239483 Score: 196
Period size: 62 Copynumber: 2.4 Consensus size: 62
17239324 TTTTTTATTA
* * *
17239334 TGTTACCTAATACTGATTCTGATTTTGATTCTGTTACCTGATACTGATTCTGATTTTAATTC
1 TGTTACCTAATACTGATTCTGATTCTGATTCTGTCACCTGATACTGATTCTGATTCTAATTC
* * *
17239396 TGTTACCTGATACTGATTCTGATTCTGATTCTGTCACCTGATTCTGATTCTGATTCTGATTC
1 TGTTACCTAATACTGATTCTGATTCTGATTCTGTCACCTGATACTGATTCTGATTCTAATTC
* * *
17239458 TAGTT--CTAATAATGTTTCTTATTCTG
1 T-GTTACCTAATACTGATTCTGATTCTG
17239484 TAATGGGTTA
Statistics
Matches: 77, Mismatches: 10, Indels: 3
0.86 0.11 0.03
Matches are distributed among these distances:
61 17 0.22
62 57 0.74
63 3 0.04
ACGTcount: A:0.21, C:0.17, G:0.14, T:0.48
Consensus pattern (62 bp):
TGTTACCTAATACTGATTCTGATTCTGATTCTGTCACCTGATACTGATTCTGATTCTAATTC
Found at i:17240101 original size:6 final size:6
Alignment explanation
Indices: 17240090--17240211 Score: 99
Period size: 6 Copynumber: 19.8 Consensus size: 6
17240080 TTACCTAATA
* * * *
17240090 CTGATT CTGATT TTGATT CTG-TT ACCTGATA CTGATT CTGATT TTAATT
1 CTGATT CTGATT CTGATT CTGATT --CTGATT CTGATT CTGATT CTGATT
* *
17240139 CTG-TT ACCTGATA CTGATT CTGATT CTGATT CTG-TCAC CTGATT CTGATT
1 CTGATT --CTGATT CTGATT CTGATT CTGATT CTGAT--T CTGATT CTGATT
17240189 CTGATT CTGATT CT-AGTT CTGAT
1 CTGATT CTGATT CTGA-TT CTGAT
17240212 AATGTTTCTT
Statistics
Matches: 93, Mismatches: 12, Indels: 22
0.73 0.09 0.17
Matches are distributed among these distances:
5 6 0.06
6 74 0.80
7 10 0.11
8 3 0.03
ACGTcount: A:0.19, C:0.18, G:0.16, T:0.48
Consensus pattern (6 bp):
CTGATT
Found at i:17240116 original size:31 final size:31
Alignment explanation
Indices: 17240062--17240202 Score: 201
Period size: 31 Copynumber: 4.5 Consensus size: 31
17240052 TTCAATGTGN
* * *
17240062 TTCTGATTTTTTATTATGTTACCTAATACTGA
1 TTCTGA-TTTTGATTCTGTTACCTGATACTGA
17240094 TTCTGATTTTGATTCTGTTACCTGATACTGA
1 TTCTGATTTTGATTCTGTTACCTGATACTGA
*
17240125 TTCTGATTTTAATTCTGTTACCTGATACTGA
1 TTCTGATTTTGATTCTGTTACCTGATACTGA
* * *
17240156 TTCTGATTCTGATTCTGTCACCTGATTCTGA
1 TTCTGATTTTGATTCTGTTACCTGATACTGA
*
17240187 TTCTGATTCTGATTCT
1 TTCTGATTTTGATTCT
17240203 AGTTCTGATA
Statistics
Matches: 101, Mismatches: 8, Indels: 1
0.92 0.07 0.01
Matches are distributed among these distances:
31 95 0.94
32 6 0.06
ACGTcount: A:0.20, C:0.17, G:0.13, T:0.50
Consensus pattern (31 bp):
TTCTGATTTTGATTCTGTTACCTGATACTGA
Found at i:17240202 original size:62 final size:62
Alignment explanation
Indices: 17240078--17240227 Score: 196
Period size: 62 Copynumber: 2.4 Consensus size: 62
17240068 TTTTTTATTA
* * * *
17240078 TGTTACCTAATACTGATTCTGATTTTGATTCTGTTACCTGATACTGATTCTGATTTTAATTC
1 TGTTACCTGATACTGATTCTGATTCTGATTCTGTCACCTGATACTGATTCTGATTCTAATTC
* *
17240140 TGTTACCTGATACTGATTCTGATTCTGATTCTGTCACCTGATTCTGATTCTGATTCTGATTC
1 TGTTACCTGATACTGATTCTGATTCTGATTCTGTCACCTGATACTGATTCTGATTCTAATTC
* * *
17240202 TAGTT--CTGATAATGTTTCTTATTCTG
1 T-GTTACCTGATACTGATTCTGATTCTG
17240228 TAATGGGTTA
Statistics
Matches: 78, Mismatches: 9, Indels: 3
0.87 0.10 0.03
Matches are distributed among these distances:
61 18 0.23
62 57 0.73
63 3 0.04
ACGTcount: A:0.20, C:0.17, G:0.15, T:0.48
Consensus pattern (62 bp):
TGTTACCTGATACTGATTCTGATTCTGATTCTGTCACCTGATACTGATTCTGATTCTAATTC
Found at i:17240744 original size:744 final size:743
Alignment explanation
Indices: 17239318--17240804 Score: 2931
Period size: 744 Copynumber: 2.0 Consensus size: 743
17239308 TGCATTCACA
17239318 TTCTGATTTTTTATTATGTTACCTAATACTGATTCTGATTTTGATTCTGTTACCTGATACTGATT
1 TTCTGATTTTTTATTATGTTACCTAATACTGATTCTGATTTTGATTCTGTTACCTGATACTGATT
17239383 CTGATTTTAATTCTGTTACCTGATACTGATTCTGATTCTGATTCTGTCACCTGATTCTGATTCTG
66 CTGATTTTAATTCTGTTACCTGATACTGATTCTGATTCTGATTCTGTCACCTGATTCTGATTCTG
17239448 ATTCTGATTCTAGTTCTAATAATGTTTCTTATTCTGTAATGGGTTAAAGCCCATCTGGTACTGTC
131 ATTCTGATTCTAGTTCTAATAATGTTTCTTATTCTGTAATGGGTTAAAGCCCATCTGGTACTGTC
17239513 TGTTATAGTGGGCTAAGGCCCAATTGATACTGAAACTGTAAGTAAGGTTGGGGCCAGACTTTTAA
196 TGTTATAGTGGGCTAAGGCCCAATTGATACTGAAACTGTAAGTAAGGTTGGGGCCAGACTTTTAA
17239578 TTCTTTTATATGACTGACTGTTCCTTTTATAGTAGGGGATTTCACACTGAGTTTTCATAAACTCA
261 TTCTTTTATATGACTGACTGTTCCTTTTATAGTAGGGGATTTCACACTGAGTTTTCATAAACTCA
17239643 CCCCGTTTATTAACCTTTCAGTTAATTTTCAGCCTTAGACGGATCGAGGCTACGAGAGGCTTAGA
326 CCCCGTTTATTAACCTTTCAGTTAATTTTCAGCCTTAGACGGATCGAGGCTACGAGAGGCTTAGA
17239708 GGAAGCCATACACAATGTTTATGTTACAATTTTGATAATTACTTTTAAATGTTTTATGTGGGTTG
391 GGAAGCCATACACAATGTTTATGTTACAATTTTGATAATTACTTTTAAATGTTTTATGTGGGTTG
17239773 TAGTAAAGCCGTTGCAATTTTTTGGATTTCAAATTTGAAATTTTATTTATTATTCTTATAATTGC
456 TAGTAAAGCCGTTGCAATTTTTTGGATTTCAAATTTGAAATTTTATTTATTATTCTTATAATTGC
17239838 TAGTATTAGAACACGGTTTTCCAAAGCAACTACTGTTGTTCAAAACATCACGTAACCGCAATTGT
521 TAGTATTAGAACACGGTTTTCCAAAGCAACTACTGTTGTTCAAAACATCACGTAACCGCAATTGT
17239903 TTTTAAATTAAGCTTCCGCAACTGCCAGGATTTTTACAAAGTTGTTAAGAATGTTATTCAGCTAA
586 TTTTAAATTAAGCTTCCGCAACTGCCAGGATTTTTACAAAGTTGTTAAGAATGTTATTCAGCTAA
*
17239968 GGTTTTCTAACAAGGTTTAAAAAGGGTATAAGTTTTTAATTATTAAGAAGGGTTTTTAATGGAAA
651 GGTTTTCTAACAAGGTTTAAAAAGGGTATAAGTTTTTAATTATTAAGAAGAGTTTTTAATGGAAA
17240033 CATGGTTTTCGAAAAACACTTCAATGTG
716 CATGGTTTTCGAAAAACACTTCAATGTG
17240061 NTTCTGATTTTTTATTATGTTACCTAATACTGATTCTGATTTTGATTCTGTTACCTGATACTGAT
1 -TTCTGATTTTTTATTATGTTACCTAATACTGATTCTGATTTTGATTCTGTTACCTGATACTGAT
17240126 TCTGATTTTAATTCTGTTACCTGATACTGATTCTGATTCTGATTCTGTCACCTGATTCTGATTCT
65 TCTGATTTTAATTCTGTTACCTGATACTGATTCTGATTCTGATTCTGTCACCTGATTCTGATTCT
*
17240191 GATTCTGATTCTAGTTCTGATAATGTTTCTTATTCTGTAATGGGTTAAAGCCCATCTGGTACTGT
130 GATTCTGATTCTAGTTCTAATAATGTTTCTTATTCTGTAATGGGTTAAAGCCCATCTGGTACTGT
17240256 CTGTTATAGTGGGCTAAGGCCCAATTGATACTGAAACTGTAAGTAAGGTTGGGGCCAGACTTTTA
195 CTGTTATAGTGGGCTAAGGCCCAATTGATACTGAAACTGTAAGTAAGGTTGGGGCCAGACTTTTA
17240321 ATTCTTTTATATGACTGACTGTTCCTTTTATAGTAGGGGATTTCACACTGAGTTTTCATAAACTC
260 ATTCTTTTATATGACTGACTGTTCCTTTTATAGTAGGGGATTTCACACTGAGTTTTCATAAACTC
17240386 ACCCCGTTTATTAACCTTTCAGTTAATTTTCAGCCTTAGACGGATCGAGGCTACGAGAGGCTTAG
325 ACCCCGTTTATTAACCTTTCAGTTAATTTTCAGCCTTAGACGGATCGAGGCTACGAGAGGCTTAG
17240451 AGGAAGCCATACACAATGTTTATGTTACAATTTTGATAATTACTTTTAAATGTTTTATGTGGGTT
390 AGGAAGCCATACACAATGTTTATGTTACAATTTTGATAATTACTTTTAAATGTTTTATGTGGGTT
17240516 GTAGTAAAGCCGTTGCAATTTTTTGGATTTCAAATTTTG-AATTTTATTTATTATTCTTATAATT
455 GTAGTAAAGCCGTTGCAATTTTTTGGATTTCAAA-TTTGAAATTTTATTTATTATTCTTATAATT
17240580 GCTAGTATTAGAACACGGTTTTCCAAAGCAACTACTGTTGTTCAAAACATCACGTAACCGCAATT
519 GCTAGTATTAGAACACGGTTTTCCAAAGCAACTACTGTTGTTCAAAACATCACGTAACCGCAATT
17240645 GTTTTTAAATTAAGCTTCCGCAACTGCCAGGATTTTTACAAAGTTGTTAAGAATGTTATTCAGCT
584 GTTTTTAAATTAAGCTTCCGCAACTGCCAGGATTTTTACAAAGTTGTTAAGAATGTTATTCAGCT
17240710 AAGGTTTTCTAACAAGGTTTAAAAAGGGTATAAGTTTTTAATTATTAAGAAGAGTTTTTAATGGA
649 AAGGTTTTCTAACAAGGTTTAAAAAGGGTATAAGTTTTTAATTATTAAGAAGAGTTTTTAATGGA
17240775 AACATGGTTTTCGAAAAACACTTCAATGTG
714 AACATGGTTTTCGAAAAACACTTCAATGTG
17240805 ACACGCCAGA
Statistics
Matches: 740, Mismatches: 2, Indels: 2
0.99 0.00 0.00
Matches are distributed among these distances:
744 736 0.99
745 4 0.01
ACGTcount: A:0.28, C:0.15, G:0.17, T:0.40
Consensus pattern (743 bp):
TTCTGATTTTTTATTATGTTACCTAATACTGATTCTGATTTTGATTCTGTTACCTGATACTGATT
CTGATTTTAATTCTGTTACCTGATACTGATTCTGATTCTGATTCTGTCACCTGATTCTGATTCTG
ATTCTGATTCTAGTTCTAATAATGTTTCTTATTCTGTAATGGGTTAAAGCCCATCTGGTACTGTC
TGTTATAGTGGGCTAAGGCCCAATTGATACTGAAACTGTAAGTAAGGTTGGGGCCAGACTTTTAA
TTCTTTTATATGACTGACTGTTCCTTTTATAGTAGGGGATTTCACACTGAGTTTTCATAAACTCA
CCCCGTTTATTAACCTTTCAGTTAATTTTCAGCCTTAGACGGATCGAGGCTACGAGAGGCTTAGA
GGAAGCCATACACAATGTTTATGTTACAATTTTGATAATTACTTTTAAATGTTTTATGTGGGTTG
TAGTAAAGCCGTTGCAATTTTTTGGATTTCAAATTTGAAATTTTATTTATTATTCTTATAATTGC
TAGTATTAGAACACGGTTTTCCAAAGCAACTACTGTTGTTCAAAACATCACGTAACCGCAATTGT
TTTTAAATTAAGCTTCCGCAACTGCCAGGATTTTTACAAAGTTGTTAAGAATGTTATTCAGCTAA
GGTTTTCTAACAAGGTTTAAAAAGGGTATAAGTTTTTAATTATTAAGAAGAGTTTTTAATGGAAA
CATGGTTTTCGAAAAACACTTCAATGTG
Found at i:17249816 original size:30 final size:30
Alignment explanation
Indices: 17249782--17249842 Score: 86
Period size: 30 Copynumber: 2.0 Consensus size: 30
17249772 TTCCCGAGCC
*
17249782 TAGGGGCAAAAGTGTAAATATGCAAAAGTT
1 TAGGGGCAAAAGTGTAAATATACAAAAGTT
* * *
17249812 TAGGGGCAAAATTGTAATTTTACAAAAGTT
1 TAGGGGCAAAAGTGTAAATATACAAAAGTT
17249842 T
1 T
17249843 GAGTTAAGGA
Statistics
Matches: 27, Mismatches: 4, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
30 27 1.00
ACGTcount: A:0.41, C:0.07, G:0.23, T:0.30
Consensus pattern (30 bp):
TAGGGGCAAAAGTGTAAATATACAAAAGTT
Found at i:17256387 original size:34 final size:34
Alignment explanation
Indices: 17256340--17256415 Score: 98
Period size: 34 Copynumber: 2.2 Consensus size: 34
17256330 TTTGCATTTT
* *
17256340 TGATACTGTTACTGTAACGAGCTAAGGCCCACAC
1 TGATACTGCTACTGTAACGAGCTAAGGCCAACAC
* * *
17256374 TGATATTGCTACTGTAATGGGCTAAGGCCAACAC
1 TGATACTGCTACTGTAACGAGCTAAGGCCAACAC
*
17256408 TAATACTG
1 TGATACTG
17256416 GACTGTCACT
Statistics
Matches: 35, Mismatches: 7, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
34 35 1.00
ACGTcount: A:0.30, C:0.22, G:0.21, T:0.26
Consensus pattern (34 bp):
TGATACTGCTACTGTAACGAGCTAAGGCCAACAC
Found at i:17260177 original size:79 final size:81
Alignment explanation
Indices: 17260041--17260223 Score: 223
Period size: 79 Copynumber: 2.3 Consensus size: 81
17260031 TCGAATGATG
* *
17260041 TCCGGGCTAAGTCCCGAAGGC-TTTGTGCTAAGTGACCATATCCGGACTAAGATCCGAAGGCATT
1 TCCGGGCTAAGTCCCGAAGGCATTGGTGCTAAGTGACCAAATCCGGACTAAGATCCGAAGGCATT
17260105 TGTGCGAGATACTA-A
66 TGTGCGAGATACTATA
* * * **
17260120 TTCCGGGCTAAG-CCCGAAGGCATTGGTGC-GAGTTACTAAATCCGGGTTAAG-TCCCGAAGGCA
1 -TCCGGGCTAAGTCCCGAAGGCATTGGTGCTAAGTGACCAAATCCGGACTAAGAT-CCGAAGGCA
*
17260182 TTTGTGCGAGTTACTATA
64 TTTGTGCGAGATACTATA
* *
17260200 ACCGGGCTATGTCCCGAAGGCATT
1 TCCGGGCTAAGTCCCGAAGGCATT
17260224 TGAACGAGTA
Statistics
Matches: 89, Mismatches: 10, Indels: 8
0.83 0.09 0.07
Matches are distributed among these distances:
78 1 0.01
79 58 0.65
80 30 0.34
ACGTcount: A:0.25, C:0.23, G:0.28, T:0.25
Consensus pattern (81 bp):
TCCGGGCTAAGTCCCGAAGGCATTGGTGCTAAGTGACCAAATCCGGACTAAGATCCGAAGGCATT
TGTGCGAGATACTATA
Found at i:17260239 original size:40 final size:40
Alignment explanation
Indices: 17260042--17260225 Score: 207
Period size: 40 Copynumber: 4.6 Consensus size: 40
17260032 CGAATGATGT
* * * *
17260042 CCGGGCTAAGTCCCGAAGGC-TTTGTGCTAAGTGACCATAT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGC-GAGTTACTATAA
* * *
17260082 CCGGACTAAGAT-CCGAAGGCATTTGTGCGAGATACTA-ATT
1 CCGGGCTAAG-TCCCGAAGGCATTTGTGCGAGTTACTATA-A
*
17260122 CCGGGCTAAG-CCCGAAGGCATTGGTGCGAGTTACTA-AA
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAA
*
17260160 TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAA
1 -CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAA
*
17260201 CCGGGCTATGTCCCGAAGGCATTTG
1 CCGGGCTAAGTCCCGAAGGCATTTG
17260226 AACGAGTAGC
Statistics
Matches: 124, Mismatches: 13, Indels: 14
0.82 0.09 0.09
Matches are distributed among these distances:
39 34 0.27
40 80 0.65
41 10 0.08
ACGTcount: A:0.24, C:0.23, G:0.28, T:0.24
Consensus pattern (40 bp):
CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAA
Found at i:17260247 original size:79 final size:79
Alignment explanation
Indices: 17260094--17260258 Score: 201
Period size: 79 Copynumber: 2.1 Consensus size: 79
17260084 GGACTAAGAT
* **
17260094 CCGAAGGCATTTGTGCGAGATACTAATTCCGGGCTAAGCCCGAAGGCATTGGTGCGAGTTACTAA
1 CCGAAGGCATTTGTGCGAGATACTAATACCGGGCTAAGCCCGAAGGCATTGGAACGAGTTACTAA
*
17260159 ATCCGGGTTAAGTC
66 ATCCGGGTTAAATC
* * *
17260173 CCGAAGGCATTTGTGCGAGTTACT-ATAACCGGGCTATGTCCCGAAGGCATTTGAACGAG-TAGC
1 CCGAAGGCATTTGTGCGAGATACTAAT-ACCGGGCTAAG-CCCGAAGGCATTGGAACGAGTTA-C
* *
17260236 TATATCC-GGTTAAATT
63 TAAATCCGGGTTAAATC
17260252 CCGAAGG
1 CCGAAGG
17260259 TACGTGATTT
Statistics
Matches: 74, Mismatches: 9, Indels: 6
0.83 0.10 0.07
Matches are distributed among these distances:
78 2 0.03
79 48 0.65
80 24 0.32
ACGTcount: A:0.26, C:0.21, G:0.28, T:0.25
Consensus pattern (79 bp):
CCGAAGGCATTTGTGCGAGATACTAATACCGGGCTAAGCCCGAAGGCATTGGAACGAGTTACTAA
ATCCGGGTTAAATC
Found at i:17265083 original size:20 final size:20
Alignment explanation
Indices: 17265036--17265073 Score: 76
Period size: 20 Copynumber: 1.9 Consensus size: 20
17265026 ATCCACACAG
17265036 GTGTGTGGTAGGTTACACTA
1 GTGTGTGGTAGGTTACACTA
17265056 GTGTGTGGTAGGTTACAC
1 GTGTGTGGTAGGTTACAC
17265074 AGGCATGTGG
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 18 1.00
ACGTcount: A:0.18, C:0.11, G:0.37, T:0.34
Consensus pattern (20 bp):
GTGTGTGGTAGGTTACACTA
Found at i:17265652 original size:9 final size:9
Alignment explanation
Indices: 17265633--17265688 Score: 55
Period size: 9 Copynumber: 6.3 Consensus size: 9
17265623 TTGGTTCCTC
17265633 TTTCATTTAT
1 TTTC-TTTAT
17265643 TTTCTTTAT
1 TTTCTTTAT
17265652 TTTCTTTA-
1 TTTCTTTAT
*
17265660 TTCCTTT-T
1 TTTCTTTAT
*
17265668 TAT-TTTAT
1 TTTCTTTAT
17265676 TTTACTTTAT
1 TTT-CTTTAT
17265686 TTT
1 TTT
17265689 AGTTTAATTC
Statistics
Matches: 38, Mismatches: 4, Indels: 8
0.76 0.08 0.16
Matches are distributed among these distances:
7 3 0.08
8 10 0.26
9 13 0.34
10 12 0.32
ACGTcount: A:0.14, C:0.11, G:0.00, T:0.75
Consensus pattern (9 bp):
TTTCTTTAT
Found at i:17267427 original size:6 final size:6
Alignment explanation
Indices: 17267418--17267443 Score: 52
Period size: 6 Copynumber: 4.3 Consensus size: 6
17267408 TTTATTATTA
17267418 TTAATT TTAATT TTAATT TTAATT TT
1 TTAATT TTAATT TTAATT TTAATT TT
17267444 CTTTTATTTA
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 20 1.00
ACGTcount: A:0.31, C:0.00, G:0.00, T:0.69
Consensus pattern (6 bp):
TTAATT
Found at i:17270881 original size:255 final size:255
Alignment explanation
Indices: 17270430--17270939 Score: 1020
Period size: 255 Copynumber: 2.0 Consensus size: 255
17270420 TGTGATGAGT
17270430 CTGTTTAAGTGATTTGATGAAATACAAATTATGTTCATTATGTTATATGTATGTTTAATACTTGT
1 CTGTTTAAGTGATTTGATGAAATACAAATTATGTTCATTATGTTATATGTATGTTTAATACTTGT
17270495 TTAGATAGCATGATATTTTCATATGGACTTACTAATCTTTAATGCTTACCCCCCTTCCTTTCCAC
66 TTAGATAGCATGATATTTTCATATGGACTTACTAATCTTTAATGCTTACCCCCCTTCCTTTCCAC
17270560 CTTTTATAGTGTTGCCAAGCTAGCTCGGGGATCGAAGAACGTCGGAGACTCGATCACACTATCAA
131 CTTTTATAGTGTTGCCAAGCTAGCTCGGGGATCGAAGAACGTCGGAGACTCGATCACACTATCAA
17270625 TTGGACATTTGAGTATAGTTAGTCTCAACATTTTGAGTATGACATGTATAGGGGACTTGG
196 TTGGACATTTGAGTATAGTTAGTCTCAACATTTTGAGTATGACATGTATAGGGGACTTGG
17270685 CTGTTTAAGTGATTTGATGAAATACAAATTATGTTCATTATGTTATATGTATGTTTAATACTTGT
1 CTGTTTAAGTGATTTGATGAAATACAAATTATGTTCATTATGTTATATGTATGTTTAATACTTGT
17270750 TTAGATAGCATGATATTTTCATATGGACTTACTAATCTTTAATGCTTACCCCCCTTCCTTTCCAC
66 TTAGATAGCATGATATTTTCATATGGACTTACTAATCTTTAATGCTTACCCCCCTTCCTTTCCAC
17270815 CTTTTATAGTGTTGCCAAGCTAGCTCGGGGATCGAAGAACGTCGGAGACTCGATCACACTATCAA
131 CTTTTATAGTGTTGCCAAGCTAGCTCGGGGATCGAAGAACGTCGGAGACTCGATCACACTATCAA
17270880 TTGGACATTTGAGTATAGTTAGTCTCAACATTTTGAGTATGACATGTATAGGGGACTTGG
196 TTGGACATTTGAGTATAGTTAGTCTCAACATTTTGAGTATGACATGTATAGGGGACTTGG
17270940 TCATTTTGTT
Statistics
Matches: 255, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
255 255 1.00
ACGTcount: A:0.27, C:0.16, G:0.19, T:0.37
Consensus pattern (255 bp):
CTGTTTAAGTGATTTGATGAAATACAAATTATGTTCATTATGTTATATGTATGTTTAATACTTGT
TTAGATAGCATGATATTTTCATATGGACTTACTAATCTTTAATGCTTACCCCCCTTCCTTTCCAC
CTTTTATAGTGTTGCCAAGCTAGCTCGGGGATCGAAGAACGTCGGAGACTCGATCACACTATCAA
TTGGACATTTGAGTATAGTTAGTCTCAACATTTTGAGTATGACATGTATAGGGGACTTGG
Found at i:17281248 original size:17 final size:17
Alignment explanation
Indices: 17281226--17281259 Score: 59
Period size: 17 Copynumber: 2.0 Consensus size: 17
17281216 CTGTTATCAC
*
17281226 TATTATTTTTATATTAT
1 TATTATTGTTATATTAT
17281243 TATTATTGTTATATTAT
1 TATTATTGTTATATTAT
17281260 ATTTAGTTTT
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
17 16 1.00
ACGTcount: A:0.29, C:0.00, G:0.03, T:0.68
Consensus pattern (17 bp):
TATTATTGTTATATTAT
Found at i:17281435 original size:11 final size:12
Alignment explanation
Indices: 17281407--17281448 Score: 50
Period size: 13 Copynumber: 3.4 Consensus size: 12
17281397 TCATTTCTAA
17281407 TATATGTATATAT
1 TATATGTAT-TAT
17281420 TATATGTATT-T
1 TATATGTATTAT
*
17281431 TATATATATTAT
1 TATATGTATTAT
17281443 GTATAT
1 -TATAT
17281449 ATTTTTAATG
Statistics
Matches: 26, Mismatches: 1, Indels: 4
0.84 0.03 0.13
Matches are distributed among these distances:
11 10 0.38
12 2 0.08
13 14 0.54
ACGTcount: A:0.36, C:0.00, G:0.07, T:0.57
Consensus pattern (12 bp):
TATATGTATTAT
Found at i:17281464 original size:23 final size:23
Alignment explanation
Indices: 17281438--17281569 Score: 87
Period size: 23 Copynumber: 5.6 Consensus size: 23
17281428 TTTTATATAT
*
17281438 ATTATGTATATATTTTTAATGCC
1 ATTATGTATATATTTTTAATACC
*
17281461 ATTA-GTTATATATTTCTT-ATACT
1 ATTATG-TATATATTT-TTAATACC
* *
17281484 ATTCCATGTATGTA-TTTT-ATATC
1 ATT--ATGTATATATTTTTAATACC
* *
17281507 ATCTTATGTATATATTCTTAAATACT
1 A--TTATGTATATATT-TTTAATACC
17281533 ATTA--TATATATTTTTAATACC
1 ATTATGTATATATTTTTAATACC
17281554 ATACTATGTATATATT
1 AT--TATGTATATATT
17281570 ATTATTTTAT
Statistics
Matches: 84, Mismatches: 11, Indels: 26
0.69 0.09 0.21
Matches are distributed among these distances:
21 9 0.11
22 9 0.11
23 35 0.42
24 8 0.10
25 18 0.21
26 5 0.06
ACGTcount: A:0.33, C:0.10, G:0.05, T:0.52
Consensus pattern (23 bp):
ATTATGTATATATTTTTAATACC
Found at i:17281563 original size:70 final size:69
Alignment explanation
Indices: 17281422--17281574 Score: 175
Period size: 70 Copynumber: 2.2 Consensus size: 69
17281412 GTATATATTA
* * * *
17281422 TATGTATTTTATATATATTATGTATATATTTTTAATGCCATTAGTTATATATTTCTTATACTATT
1 TATGTATTTTATATATATTATGTATATATTTTAAATACCATTAG-TATATATTTCTTATACCATA
17281487 CCATG
65 CCATG
* *
17281492 TATGTATTTTATATCATCTTATGTATATATTCTTAAATACTATTA-TATATATTT-TTAATACCA
1 TATGTATTTTATAT-ATATTATGTATATATT-TTAAATACCATTAGTATATATTTCTT-ATACCA
*
17281555 TACTATG
63 TACCATG
*
17281562 TATATATTATTAT
1 TATGTATT-TTAT
17281575 TTTATTTATT
Statistics
Matches: 71, Mismatches: 8, Indels: 7
0.83 0.09 0.08
Matches are distributed among these distances:
69 2 0.03
70 40 0.56
71 19 0.27
72 10 0.14
ACGTcount: A:0.33, C:0.08, G:0.05, T:0.54
Consensus pattern (69 bp):
TATGTATTTTATATATATTATGTATATATTTTAAATACCATTAGTATATATTTCTTATACCATAC
CATG
Found at i:17281777 original size:3 final size:3
Alignment explanation
Indices: 17281769--17281798 Score: 51
Period size: 3 Copynumber: 10.0 Consensus size: 3
17281759 ATACATCCTT
*
17281769 TTA TTA TTA CTA TTA TTA TTA TTA TTA TTA
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA
17281799 GTATATATAT
Statistics
Matches: 25, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
3 25 1.00
ACGTcount: A:0.33, C:0.03, G:0.00, T:0.63
Consensus pattern (3 bp):
TTA
Found at i:17281883 original size:15 final size:15
Alignment explanation
Indices: 17281865--17281910 Score: 67
Period size: 15 Copynumber: 3.1 Consensus size: 15
17281855 ATGTTCATTT
17281865 TATATATA-TTATGTA
1 TATATATATTTA-GTA
17281880 TATATATATTTAGTA
1 TATATATATTTAGTA
*
17281895 TGTATATATTTAGTA
1 TATATATATTTAGTA
17281910 T
1 T
17281911 TGTTATGCGT
Statistics
Matches: 29, Mismatches: 1, Indels: 2
0.91 0.03 0.06
Matches are distributed among these distances:
15 26 0.90
16 3 0.10
ACGTcount: A:0.37, C:0.00, G:0.09, T:0.54
Consensus pattern (15 bp):
TATATATATTTAGTA
Found at i:17286148 original size:30 final size:30
Alignment explanation
Indices: 17286114--17286229 Score: 98
Period size: 30 Copynumber: 3.9 Consensus size: 30
17286104 TTATATTAAG
*
17286114 TTATAATAAAATAT-TTAAAATATTTTATTT
1 TTATATTAAAATATATTAAAATATTTTA-TT
* *
17286144 TTATATTTTCTAAA-AT-TTAGAAATA--ATATT
1 TTATA--TT-AAAATATATTA-AAATATTTTATT
* *
17286174 TTATATTAAATTATATTAAAAGATTTTATT
1 TTATATTAAAATATATTAAAATATTTTATT
*
17286204 TTATATTAAATTATATTAAAATATTT
1 TTATATTAAAATATATTAAAATATTT
17286230 AAAATATTAA
Statistics
Matches: 70, Mismatches: 8, Indels: 16
0.74 0.09 0.17
Matches are distributed among these distances:
27 2 0.03
28 8 0.11
29 3 0.04
30 41 0.59
31 2 0.03
32 6 0.09
33 8 0.11
ACGTcount: A:0.45, C:0.01, G:0.02, T:0.53
Consensus pattern (30 bp):
TTATATTAAAATATATTAAAATATTTTATT
Found at i:17286189 original size:10 final size:10
Alignment explanation
Indices: 17286174--17286232 Score: 57
Period size: 10 Copynumber: 6.0 Consensus size: 10
17286164 AAATAATATT
17286174 TTATATTAAA
1 TTATATTAAA
17286184 TTATATTAAA
1 TTATATTAAA
** * **
17286194 AGATTTTATT
1 TTATATTAAA
17286204 TTATATTAAA
1 TTATATTAAA
17286214 TTATATTAAA
1 TTATATTAAA
*
17286224 ATAT-TTAAA
1 TTATATTAAA
17286233 ATATTAATAT
Statistics
Matches: 38, Mismatches: 11, Indels: 1
0.76 0.22 0.02
Matches are distributed among these distances:
9 5 0.13
10 33 0.87
ACGTcount: A:0.47, C:0.00, G:0.02, T:0.51
Consensus pattern (10 bp):
TTATATTAAA
Found at i:17288098 original size:30 final size:30
Alignment explanation
Indices: 17288040--17288099 Score: 93
Period size: 30 Copynumber: 2.0 Consensus size: 30
17288030 TTATCGAGCC
*
17288040 TAGGGGCAAAAGTGTAATTATGCTAAAGTT
1 TAGGGGCAAAAGTGTAATTATGCCAAAGTT
* *
17288070 TAGGGGCAAAAGTGTAATTTTTCCAAAGTT
1 TAGGGGCAAAAGTGTAATTATGCCAAAGTT
17288100 CGTATTAAAT
Statistics
Matches: 27, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
30 27 1.00
ACGTcount: A:0.35, C:0.08, G:0.25, T:0.32
Consensus pattern (30 bp):
TAGGGGCAAAAGTGTAATTATGCCAAAGTT
Found at i:17288578 original size:46 final size:46
Alignment explanation
Indices: 17288528--17288700 Score: 201
Period size: 46 Copynumber: 3.7 Consensus size: 46
17288518 TTGAGCATCT
17288528 GAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATGTCC
1 GAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATGTCC
* * * * *
17288574 GAACTCGTTGAGTTGAGTCCAAGTTC-GTGA--AATG-TAACTAGGCATCC
1 GAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAA-T--G--TCC
* *
17288621 GAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCC
1 GAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATGTCC
*
17288667 GAGCTCGTTGAGTTGAGTCCGAGTTCACTTATGG
1 GAACTCGTTGAGTTGAGTCCGAGTTCACTTATGG
17288701 GCGGGTTACA
Statistics
Matches: 105, Mismatches: 13, Indels: 18
0.77 0.10 0.13
Matches are distributed among these distances:
42 2 0.02
43 4 0.04
45 3 0.03
46 60 0.57
47 28 0.27
48 3 0.03
50 3 0.03
51 2 0.02
ACGTcount: A:0.23, C:0.20, G:0.28, T:0.29
Consensus pattern (46 bp):
GAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATGTCC
Found at i:17288659 original size:93 final size:93
Alignment explanation
Indices: 17288522--17288692 Score: 297
Period size: 93 Copynumber: 1.8 Consensus size: 93
17288512 GGATGGTTGA
* * *
17288522 GCATCTGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATGTCCGAACTCGTTGAGT
1 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAACTCGTTGAGT
17288587 TGAGTCCAAGTTCGTGAAATGTAACTAG
66 TGAGTCCAAGTTCGTGAAATGTAACTAG
*
17288615 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAGCTCGTTGAGT
1 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAACTCGTTGAGT
*
17288680 TGAGTCCGAGTTC
66 TGAGTCCAAGTTC
17288693 ACTTATGGGC
Statistics
Matches: 73, Mismatches: 5, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
93 73 1.00
ACGTcount: A:0.22, C:0.21, G:0.28, T:0.29
Consensus pattern (93 bp):
GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAACTCGTTGAGT
TGAGTCCAAGTTCGTGAAATGTAACTAG
Found at i:17298410 original size:40 final size:41
Alignment explanation
Indices: 17298355--17298451 Score: 128
Period size: 40 Copynumber: 2.4 Consensus size: 41
17298345 CGATTATGTT
*
17298355 TGGCACTAAGTGTGCG-GTTTGAAATAGCTTTGGCTACA-AA
1 TGGCACTAAGTGTGCGAG-TTGAAATAGCTTCGGCTACATAA
* * *
17298395 TGGCACTAACTGTGCGAGTTGGAATAGCTTCGGCTATATAA
1 TGGCACTAAGTGTGCGAGTTGAAATAGCTTCGGCTACATAA
17298436 -GGCACTAAGTGTGCGA
1 TGGCACTAAGTGTGCGA
17298452 TACCAAGTTA
Statistics
Matches: 50, Mismatches: 5, Indels: 4
0.85 0.08 0.07
Matches are distributed among these distances:
40 47 0.94
41 3 0.06
ACGTcount: A:0.27, C:0.16, G:0.29, T:0.28
Consensus pattern (41 bp):
TGGCACTAAGTGTGCGAGTTGAAATAGCTTCGGCTACATAA
Found at i:17302342 original size:27 final size:27
Alignment explanation
Indices: 17302323--17302396 Score: 121
Period size: 27 Copynumber: 2.7 Consensus size: 27
17302313 GGGTATTTCA
17302323 GTCATCTTATCACATAAGGGAAAAATC
1 GTCATCTTATCACATAAGGGAAAAATC
*
17302350 GTCATTTTATCACATAAGGGAAAAATC
1 GTCATCTTATCACATAAGGGAAAAATC
* *
17302377 GTCATTTTATCATATAAGGG
1 GTCATCTTATCACATAAGGG
17302397 TTCAGGTACG
Statistics
Matches: 45, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
27 45 1.00
ACGTcount: A:0.38, C:0.15, G:0.16, T:0.31
Consensus pattern (27 bp):
GTCATCTTATCACATAAGGGAAAAATC
Found at i:17323773 original size:39 final size:39
Alignment explanation
Indices: 17323719--17323862 Score: 200
Period size: 39 Copynumber: 3.7 Consensus size: 39
17323709 TTCAGTGATG
17323719 TATATCCGGACTTAAGGTCCGCAGGCTATGTGCTGGAAT
1 TATATCCGGACTTAAGGTCCGCAGGCTATGTGCTGGAAT
*
17323758 TATATCCGAACTTAAGGTCCGCAGGCTATGTGCTGGAAT
1 TATATCCGGACTTAAGGTCCGCAGGCTATGTGCTGGAAT
* ** *
17323797 TATAACCGGACTTAAGGTCCGCAGGCTACATGCTGGAAA
1 TATATCCGGACTTAAGGTCCGCAGGCTATGTGCTGGAAT
* * *
17323836 TATGTCCGGGC-TAAAGTCCCGCAGGCT
1 TATATCCGGACTTAAGGT-CCGCAGGCT
17323863 TCGAGCTGGT
Statistics
Matches: 94, Mismatches: 10, Indels: 2
0.89 0.09 0.02
Matches are distributed among these distances:
38 5 0.05
39 89 0.95
ACGTcount: A:0.25, C:0.23, G:0.27, T:0.25
Consensus pattern (39 bp):
TATATCCGGACTTAAGGTCCGCAGGCTATGTGCTGGAAT
Found at i:17323871 original size:78 final size:78
Alignment explanation
Indices: 17323719--17323882 Score: 199
Period size: 78 Copynumber: 2.1 Consensus size: 78
17323709 TTCAGTGATG
* ** * *
17323719 TATATCCGGACTTAAGGTCCGCAGGCTATGTGCTGGAATTATATCCGAACTTAAGGTCCGCAGGC
1 TATAACCGGACTTAAGGTCCGCAGGCTACATGCTGGAAATATATCCGAACTTAAAGTCCGCAGGC
*
17323784 TATGTGCTGGAAT
66 TATGAGCTGGAAT
* **
17323797 TATAACCGGACTTAAGGTCCGCAGGCTACATGCTGGAAATATGTCCGGGC-TAAAGTCCCGCAGG
1 TATAACCGGACTTAAGGTCCGCAGGCTACATGCTGGAAATATATCCGAACTTAAAGT-CCGCAGG
*
17323861 CT-TCGAGCTGGTAT
65 CTAT-GAGCTGGAAT
17323875 TAT-ACCGG
1 TATAACCGG
17323883 GTACTTATTA
Statistics
Matches: 74, Mismatches: 10, Indels: 5
0.83 0.11 0.06
Matches are distributed among these distances:
77 11 0.15
78 63 0.85
ACGTcount: A:0.24, C:0.23, G:0.27, T:0.26
Consensus pattern (78 bp):
TATAACCGGACTTAAGGTCCGCAGGCTACATGCTGGAAATATATCCGAACTTAAAGTCCGCAGGC
TATGAGCTGGAAT
Found at i:17330500 original size:60 final size:60
Alignment explanation
Indices: 17330407--17330533 Score: 202
Period size: 60 Copynumber: 2.1 Consensus size: 60
17330397 ATGATAGATC
* *
17330407 AAAGTGTAGTACAATACAACAATGCGATAAACACAATATCAATGATAAATAAAATAACAT
1 AAAGTCTAGTACAATACAACAATACGATAAACACAATATCAATGATAAATAAAATAACAT
* *
17330467 AAAGTCTAGTACAATACAA-ATATACGATAAACACAATATTAATGATAAATAAAATATCAT
1 AAAGTCTAGTACAATACAACA-ATACGATAAACACAATATCAATGATAAATAAAATAACAT
17330527 AAAGTCT
1 AAAGTCT
17330534 TTCAAACAAC
Statistics
Matches: 62, Mismatches: 4, Indels: 2
0.91 0.06 0.03
Matches are distributed among these distances:
59 1 0.02
60 61 0.98
ACGTcount: A:0.54, C:0.13, G:0.09, T:0.24
Consensus pattern (60 bp):
AAAGTCTAGTACAATACAACAATACGATAAACACAATATCAATGATAAATAAAATAACAT
Found at i:17339536 original size:93 final size:93
Alignment explanation
Indices: 17339428--17339599 Score: 299
Period size: 93 Copynumber: 1.8 Consensus size: 93
17339418 CGCCCATAAG
* * *
17339428 CGAACTCAGACTCAACTCAACGAGCTCGGGCGTTCGCATGCATAAGTGAACTCGGACTCAACTCA
1 CGAACTCAGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCA
17339493 ACGAGTTCGGATGCCTAGTTACATCTCA
66 ACGAGTTCGGATGCCTAGTTACATCTCA
* *
17339521 CGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCA
1 CGAACTCAGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCA
17339586 ACGAGTTCGGATGC
66 ACGAGTTCGGATGC
17339600 TCAACCATCC
Statistics
Matches: 74, Mismatches: 5, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
93 74 1.00
ACGTcount: A:0.28, C:0.29, G:0.22, T:0.21
Consensus pattern (93 bp):
CGAACTCAGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCA
ACGAGTTCGGATGCCTAGTTACATCTCA
Found at i:17339596 original size:46 final size:46
Alignment explanation
Indices: 17339421--17339596 Score: 198
Period size: 46 Copynumber: 3.8 Consensus size: 46
17339411 TGTAACCCGC
* * * *
17339421 CCATAAGCGAACTCAGACTCAACTCAACGAGCTCGGGCGTTCGCAT
1 CCATAAGCGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCAT
* * *
17339467 GCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGATGCCTAGTT-ACAT
1 CCATAAGCGAACTCGGACTCAACTCAACGAGTTCGGA---C-A-TTCGCAT
*
17339517 -C-TCA-CGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCAT
1 CCATAAGCGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCAT
*
17339560 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGA
1 CCATAAGCGAACTCGGACTCAACTCAACGAGTTCGGA
17339597 TGCTCAACCA
Statistics
Matches: 109, Mismatches: 12, Indels: 18
0.78 0.09 0.13
Matches are distributed among these distances:
42 2 0.02
43 4 0.04
44 2 0.02
45 2 0.02
46 61 0.56
47 29 0.27
48 2 0.02
49 2 0.02
50 3 0.03
51 2 0.02
ACGTcount: A:0.30, C:0.29, G:0.21, T:0.20
Consensus pattern (46 bp):
CCATAAGCGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCAT
Found at i:17339615 original size:46 final size:44
Alignment explanation
Indices: 17339472--17339615 Score: 141
Period size: 46 Copynumber: 3.1 Consensus size: 44
17339462 CGCATGCATA
17339472 AGTGAACTCGGACTCAACTCAACGAGTTCGGATGCCTAGTTA-CATCT
1 AGTGAACTCGGACTCAACTCAACGAGTTCGGATGCC-A---ACCATCT
* * * *
17339519 CA-CGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCATCCAT-A
1 -AGTGAACTCGGACTCAACTCAACGAGTTCGG--ATGC-CAACCATCT
17339565 AGTGAACTCGGACTCAACTCAACGAGTTCGGATGCTCAACCATCCT
1 AGTGAACTCGGACTCAACTCAACGAGTTCGGATGC-CAACCAT-CT
17339611 AGTGA
1 AGTGA
17339616 CATGTCACTT
Statistics
Matches: 80, Mismatches: 9, Indels: 16
0.76 0.09 0.15
Matches are distributed among these distances:
44 9 0.11
45 1 0.01
46 33 0.41
47 31 0.39
48 1 0.01
49 4 0.05
50 1 0.01
ACGTcount: A:0.29, C:0.28, G:0.20, T:0.22
Consensus pattern (44 bp):
AGTGAACTCGGACTCAACTCAACGAGTTCGGATGCCAACCATCT
Found at i:17343823 original size:20 final size:20
Alignment explanation
Indices: 17343798--17343838 Score: 82
Period size: 20 Copynumber: 2.0 Consensus size: 20
17343788 ACAAAATAGT
17343798 AGGAATTAGACCTAATCGTC
1 AGGAATTAGACCTAATCGTC
17343818 AGGAATTAGACCTAATCGTC
1 AGGAATTAGACCTAATCGTC
17343838 A
1 A
17343839 ATAACCTTGT
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 21 1.00
ACGTcount: A:0.37, C:0.20, G:0.20, T:0.24
Consensus pattern (20 bp):
AGGAATTAGACCTAATCGTC
Found at i:17348956 original size:16 final size:16
Alignment explanation
Indices: 17348919--17348959 Score: 55
Period size: 16 Copynumber: 2.6 Consensus size: 16
17348909 AAAGAGAAGT
* *
17348919 TAAAACAAATTAAAAT
1 TAAAATAAATTAAAAA
17348935 TAAAATAAATTAAAAA
1 TAAAATAAATTAAAAA
*
17348951 TCAAATAAA
1 TAAAATAAA
17348960 AATAAAAATT
Statistics
Matches: 22, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
16 22 1.00
ACGTcount: A:0.71, C:0.05, G:0.00, T:0.24
Consensus pattern (16 bp):
TAAAATAAATTAAAAA
Found at i:17360960 original size:47 final size:47
Alignment explanation
Indices: 17360901--17361022 Score: 217
Period size: 47 Copynumber: 2.6 Consensus size: 47
17360891 GCATTGGCAC
17360901 TAAGACAAGGATACCATGTAAGACCATGTTTGGAACATGGCATTTGG
1 TAAGACAAGGATACCATGTAAGACCATGTTTGGAACATGGCATTTGG
*
17360948 TAAGACAAGGATACCATGTAAGGCCATGTTTGGAACATGGCATTTGG
1 TAAGACAAGGATACCATGTAAGACCATGTTTGGAACATGGCATTTGG
* *
17360995 TAAGATAAGGATATCATGTAAGACCATG
1 TAAGACAAGGATACCATGTAAGACCATG
17361023 CCAAGGCATG
Statistics
Matches: 71, Mismatches: 4, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
47 71 1.00
ACGTcount: A:0.35, C:0.14, G:0.25, T:0.25
Consensus pattern (47 bp):
TAAGACAAGGATACCATGTAAGACCATGTTTGGAACATGGCATTTGG
Found at i:17361065 original size:54 final size:53
Alignment explanation
Indices: 17361001--17361209 Score: 240
Period size: 53 Copynumber: 3.9 Consensus size: 53
17360991 TTGGTAAGAT
* *
17361001 AAGGATATCATGTAAGACCATGCCAAGGCATGGCATTGATAAGTTCTATAAGGC
1 AAGGATACCATGTAAGACCATGCCAAGACATGGCATTGATAAGTTC-ATAAGGC
* * * *
17361055 AAGGAAATCATGTAAGACCATGTCAAGACATGGCATTGATGAGTTACAATAAGGC
1 AAGGATACCATGTAAGACCATGCCAAGACATGGCATTGATAAGTT-C-ATAAGGC
* * * *
17361110 AAAGG-TCCCATGTAAGACCATGCCAAGGCATGGCATTGGTGAGTTCATAAGGC
1 -AAGGATACCATGTAAGACCATGCCAAGACATGGCATTGATAAGTTCATAAGGC
* * * * *
17361163 AATGATACCACGTAAGACCATGTCAAGACATGGCAATGGTAAGTTCA
1 AAGGATACCATGTAAGACCATGCCAAGACATGGCATTGATAAGTTCA
17361210 AAAAGGAAAA
Statistics
Matches: 134, Mismatches: 18, Indels: 7
0.84 0.11 0.04
Matches are distributed among these distances:
52 3 0.02
53 43 0.32
54 42 0.31
55 42 0.31
56 4 0.03
ACGTcount: A:0.36, C:0.18, G:0.24, T:0.22
Consensus pattern (53 bp):
AAGGATACCATGTAAGACCATGCCAAGACATGGCATTGATAAGTTCATAAGGC
Found at i:17361130 original size:55 final size:53
Alignment explanation
Indices: 17361009--17361197 Score: 227
Period size: 55 Copynumber: 3.5 Consensus size: 53
17360999 ATAAGGATAT
* * * *
17361009 CATGTAAGACCATGCCAAGGCATGGCATTGATAAGTTCTATAAGGC-AAGGAAAT
1 CATGTAAGACCATGCCAAGACATGGCATTGATGAGTTC-ATAAGGCAAAGG-TAC
* *
17361063 CATGTAAGACCATGTCAAGACATGGCATTGATGAGTTACAATAAGGCAAAGGTCC
1 CATGTAAGACCATGCCAAGACATGGCATTGATGAGTT-C-ATAAGGCAAAGGTAC
* * * *
17361118 CATGTAAGACCATGCCAAGGCATGGCATTGGTGAGTTCATAAGGCAATGATAC
1 CATGTAAGACCATGCCAAGACATGGCATTGATGAGTTCATAAGGCAAAGGTAC
* *
17361171 CACGTAAGACCATGTCAAGACATGGCA
1 CATGTAAGACCATGCCAAGACATGGCA
17361198 ATGGTAAGTT
Statistics
Matches: 117, Mismatches: 16, Indels: 5
0.85 0.12 0.04
Matches are distributed among these distances:
53 36 0.31
54 35 0.30
55 42 0.36
56 4 0.03
ACGTcount: A:0.35, C:0.19, G:0.24, T:0.21
Consensus pattern (53 bp):
CATGTAAGACCATGCCAAGACATGGCATTGATGAGTTCATAAGGCAAAGGTAC
Found at i:17361183 original size:53 final size:54
Alignment explanation
Indices: 17361004--17361220 Score: 238
Period size: 54 Copynumber: 4.0 Consensus size: 54
17360994 GTAAGATAAG
* * * *
17361004 GATATCATGTAAGACCATGCCAAGGCATGGCATTGATAAGTTCTATAAGGCAAG
1 GATACCATGTAAGACCATGCCAAGACATGGCATTGATAAGTTCAATAAGGCAAA
* * * *
17361058 GAAATCATGTAAGACCATGTCAAGACATGGCATTGATGAGTTACAATAAGGCAAA
1 GATACCATGTAAGACCATGCCAAGACATGGCATTGATAAGTT-CAATAAGGCAAA
* * * * * *
17361113 GGTCCCATGTAAGACCATGCCAAGGCATGGCATTGGTGAGTTC-ATAAGGCAAT
1 GATACCATGTAAGACCATGCCAAGACATGGCATTGATAAGTTCAATAAGGCAAA
* * * * * *
17361166 GATACCACGTAAGACCATGTCAAGACATGGCAATGGTAAGTTCAAAAAGGAAAA
1 GATACCATGTAAGACCATGCCAAGACATGGCATTGATAAGTTCAATAAGGCAAA
17361220 G
1 G
17361221 GTTCTCGAGT
Statistics
Matches: 137, Mismatches: 24, Indels: 4
0.83 0.15 0.02
Matches are distributed among these distances:
53 45 0.33
54 47 0.34
55 45 0.33
ACGTcount: A:0.37, C:0.17, G:0.24, T:0.21
Consensus pattern (54 bp):
GATACCATGTAAGACCATGCCAAGACATGGCATTGATAAGTTCAATAAGGCAAA
Found at i:17369301 original size:41 final size:41
Alignment explanation
Indices: 17369244--17369325 Score: 137
Period size: 41 Copynumber: 2.0 Consensus size: 41
17369234 TGCCTTTATT
**
17369244 GCTTCAAACGAGCGTCGTAGCGGTGCTTCGTTGCTTCCTTG
1 GCTTCAAACGAGCGTCGTAGCGGCACTTCGTTGCTTCCTTG
*
17369285 GCTTCAAACGAGCGTCGTGGCGGCACTTCGTTGCTTCCTTG
1 GCTTCAAACGAGCGTCGTAGCGGCACTTCGTTGCTTCCTTG
17369326 TATAGGCACG
Statistics
Matches: 38, Mismatches: 3, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
41 38 1.00
ACGTcount: A:0.12, C:0.28, G:0.29, T:0.30
Consensus pattern (41 bp):
GCTTCAAACGAGCGTCGTAGCGGCACTTCGTTGCTTCCTTG
Found at i:17378503 original size:15 final size:15
Alignment explanation
Indices: 17378483--17378514 Score: 64
Period size: 15 Copynumber: 2.1 Consensus size: 15
17378473 GAAATGGCCT
17378483 CACACACCCTTGTGC
1 CACACACCCTTGTGC
17378498 CACACACCCTTGTGC
1 CACACACCCTTGTGC
17378513 CA
1 CA
17378515 GGCCATGTGC
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 17 1.00
ACGTcount: A:0.22, C:0.47, G:0.12, T:0.19
Consensus pattern (15 bp):
CACACACCCTTGTGC
Found at i:17381315 original size:41 final size:41
Alignment explanation
Indices: 17381258--17381340 Score: 166
Period size: 41 Copynumber: 2.0 Consensus size: 41
17381248 CTCGGAACAC
17381258 TTCTTTTTTTGTTGTAATAATCTATATTACAACCTAACCTG
1 TTCTTTTTTTGTTGTAATAATCTATATTACAACCTAACCTG
17381299 TTCTTTTTTTGTTGTAATAATCTATATTACAACCTAACCTG
1 TTCTTTTTTTGTTGTAATAATCTATATTACAACCTAACCTG
17381340 T
1 T
17381341 ATACTTACAA
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:0.27, C:0.17, G:0.07, T:0.49
Consensus pattern (41 bp):
TTCTTTTTTTGTTGTAATAATCTATATTACAACCTAACCTG
Found at i:17382534 original size:30 final size:30
Alignment explanation
Indices: 17382500--17382571 Score: 76
Period size: 30 Copynumber: 2.4 Consensus size: 30
17382490 ATATGAATTT
17382500 TAAGCAAAATTGATTAGAATTATA-ATTAA-A
1 TAAGCAAAATTGATTA-AA-TATAGATTAAGA
* *
17382530 TAAGCTAAATTTGATTACATATAGATTAAGA
1 TAAGC-AAAATTGATTAAATATAGATTAAGA
*
17382561 AAAGCAAAATT
1 TAAGCAAAATT
17382572 CAGATTTAGA
Statistics
Matches: 35, Mismatches: 4, Indels: 6
0.78 0.09 0.13
Matches are distributed among these distances:
29 4 0.11
30 16 0.46
31 15 0.43
ACGTcount: A:0.51, C:0.06, G:0.11, T:0.32
Consensus pattern (30 bp):
TAAGCAAAATTGATTAAATATAGATTAAGA
Found at i:17382571 original size:31 final size:31
Alignment explanation
Indices: 17382501--17382571 Score: 76
Period size: 31 Copynumber: 2.3 Consensus size: 31
17382491 TATGAATTTT
*
17382501 AAGCAAAA-TTGATTAGAATTATAATTAAAT
1 AAGCAAAATTTGATTAGAATTATAATTAAAA
* *
17382531 AAGCTAAATTTGATTA-CA-TATAGATTAAGAA
1 AAGCAAAATTTGATTAGAATTATA-ATTAA-AA
17382562 AAGCAAAATT
1 AAGCAAAATT
17382572 CAGATTTAGA
Statistics
Matches: 34, Mismatches: 4, Indels: 5
0.79 0.09 0.12
Matches are distributed among these distances:
29 4 0.12
30 13 0.38
31 17 0.50
ACGTcount: A:0.52, C:0.06, G:0.11, T:0.31
Consensus pattern (31 bp):
AAGCAAAATTTGATTAGAATTATAATTAAAA
Found at i:17383560 original size:25 final size:24
Alignment explanation
Indices: 17383516--17383566 Score: 59
Period size: 25 Copynumber: 2.1 Consensus size: 24
17383506 AAAGGCCATT
* *
17383516 TTTATATGTTGTGTATAATTGTCA
1 TTTATATGTTGTGTAGAATTGGCA
17383540 TTTATATGCTTGTTGT-GAATTGGCA
1 TTTATATG-TTG-TGTAGAATTGGCA
17383565 TT
1 TT
17383567 ATGGATACCA
Statistics
Matches: 23, Mismatches: 2, Indels: 3
0.82 0.07 0.11
Matches are distributed among these distances:
24 8 0.35
25 12 0.52
26 3 0.13
ACGTcount: A:0.22, C:0.06, G:0.20, T:0.53
Consensus pattern (24 bp):
TTTATATGTTGTGTAGAATTGGCA
Found at i:17400150 original size:18 final size:19
Alignment explanation
Indices: 17400115--17400150 Score: 56
Period size: 19 Copynumber: 1.9 Consensus size: 19
17400105 ATAATTTTCA
*
17400115 TTTTTTTTCATGTTCAAGT
1 TTTTTTTTCATGTACAAGT
17400134 TTTTTTTTCAT-TACAAG
1 TTTTTTTTCATGTACAAG
17400151 ATTTCTTTAC
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
18 5 0.31
19 11 0.69
ACGTcount: A:0.19, C:0.11, G:0.08, T:0.61
Consensus pattern (19 bp):
TTTTTTTTCATGTACAAGT
Found at i:17400422 original size:40 final size:40
Alignment explanation
Indices: 17400367--17400477 Score: 150
Period size: 40 Copynumber: 2.8 Consensus size: 40
17400357 TGATAGTTGT
* *
17400367 GGCTAAGTCCCGAAGAGCATTCATGCTGGTGTTATATCCG
1 GGCTAAGTCCCGAAGAGCATTCGTGCTGGTGTTACATCCG
* * *
17400407 GGCTAAGTCCCGAAGAGCATTCGCGCTGATGTTACATCTG
1 GGCTAAGTCCCGAAGAGCATTCGTGCTGGTGTTACATCCG
* * *
17400447 GGCTAAGTCCTGAAGGGCATTCGTGCCGGTG
1 GGCTAAGTCCCGAAGAGCATTCGTGCTGGTG
17400478 ATGTGTAATC
Statistics
Matches: 61, Mismatches: 10, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
40 61 1.00
ACGTcount: A:0.21, C:0.23, G:0.31, T:0.25
Consensus pattern (40 bp):
GGCTAAGTCCCGAAGAGCATTCGTGCTGGTGTTACATCCG
Found at i:17400680 original size:25 final size:25
Alignment explanation
Indices: 17400640--17400695 Score: 87
Period size: 25 Copynumber: 2.2 Consensus size: 25
17400630 ATGTGTAATA
17400640 ACGAATGAATGTAGGCACTATGTGT
1 ACGAATGAATGTAGGCACTATGTGT
*
17400665 GCGAATGAAT-TGAGGCACTATGTGT
1 ACGAATGAATGT-AGGCACTATGTGT
17400690 ACGAAT
1 ACGAAT
17400696 TCTTTAAACC
Statistics
Matches: 28, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
24 1 0.04
25 27 0.96
ACGTcount: A:0.32, C:0.12, G:0.29, T:0.27
Consensus pattern (25 bp):
ACGAATGAATGTAGGCACTATGTGT
Found at i:17402673 original size:132 final size:132
Alignment explanation
Indices: 17402508--17402772 Score: 494
Period size: 132 Copynumber: 2.0 Consensus size: 132
17402498 TAGAGAGATA
* *
17402508 TTTAAAGTTGTGTGTGACAGTGTCAGAATGAATCTGAAATCCCCTGTTCTGTTTTTAGAAAATCA
1 TTTAAAGTTGTGTGTGACAGTGTCAGAATGAATCTAAAATCCCCTGTTCTATTTTTAGAAAATCA
17402573 TTATAAATAGTAAAAAAATTGTTATAAGATAAAATTTATATTCTTAGACTCCTTAATGAGTCTAG
66 TTATAAATAGTAAAAAAATTGTTATAAGATAAAATTTATATTCTTAGACTCCTTAATGAGTCTAG
17402638 TT
131 TT
17402640 TTTAAAGTTGTGTGTGACAGTGTCAGAATGAATCTAAAATCCCCTGTTCTATTTTTAGAAAATCA
1 TTTAAAGTTGTGTGTGACAGTGTCAGAATGAATCTAAAATCCCCTGTTCTATTTTTAGAAAATCA
* *
17402705 TTATAAATAGTACAAAAATTTTTATAAGATAAAATTTATATTCTTAGACTCCTTAATGAGTCTAG
66 TTATAAATAGTAAAAAAATTGTTATAAGATAAAATTTATATTCTTAGACTCCTTAATGAGTCTAG
17402770 TT
131 TT
17402772 T
1 T
17402773 CAAATGAAAT
Statistics
Matches: 129, Mismatches: 4, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
132 129 1.00
ACGTcount: A:0.36, C:0.11, G:0.14, T:0.39
Consensus pattern (132 bp):
TTTAAAGTTGTGTGTGACAGTGTCAGAATGAATCTAAAATCCCCTGTTCTATTTTTAGAAAATCA
TTATAAATAGTAAAAAAATTGTTATAAGATAAAATTTATATTCTTAGACTCCTTAATGAGTCTAG
TT
Found at i:17405191 original size:17 final size:17
Alignment explanation
Indices: 17405169--17405202 Score: 68
Period size: 17 Copynumber: 2.0 Consensus size: 17
17405159 TATTAAACCT
17405169 ACTTCTTATTTTTATTA
1 ACTTCTTATTTTTATTA
17405186 ACTTCTTATTTTTATTA
1 ACTTCTTATTTTTATTA
17405203 TATTTTAGAA
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
17 17 1.00
ACGTcount: A:0.24, C:0.12, G:0.00, T:0.65
Consensus pattern (17 bp):
ACTTCTTATTTTTATTA
Found at i:17405912 original size:34 final size:34
Alignment explanation
Indices: 17405869--17405940 Score: 144
Period size: 34 Copynumber: 2.1 Consensus size: 34
17405859 AATTCACAAG
17405869 TTTTAAACATCAAAAAGCCATAATTTTTGTGAGA
1 TTTTAAACATCAAAAAGCCATAATTTTTGTGAGA
17405903 TTTTAAACATCAAAAAGCCATAATTTTTGTGAGA
1 TTTTAAACATCAAAAAGCCATAATTTTTGTGAGA
17405937 TTTT
1 TTTT
17405941 TGAGCCTTTT
Statistics
Matches: 38, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
34 38 1.00
ACGTcount: A:0.39, C:0.11, G:0.11, T:0.39
Consensus pattern (34 bp):
TTTTAAACATCAAAAAGCCATAATTTTTGTGAGA
Found at i:17427645 original size:12 final size:13
Alignment explanation
Indices: 17427609--17427646 Score: 51
Period size: 14 Copynumber: 2.9 Consensus size: 13
17427599 AAATATTTGA
17427609 CTTGTTCTTAATT
1 CTTGTTCTTAATT
*
17427622 ATGTGTTCTTAATT
1 CT-TGTTCTTAATT
17427636 CTTG-TCTTAAT
1 CTTGTTCTTAAT
17427647 ATTCTAGGAT
Statistics
Matches: 22, Mismatches: 2, Indels: 3
0.81 0.07 0.11
Matches are distributed among these distances:
12 7 0.32
13 3 0.14
14 12 0.55
ACGTcount: A:0.18, C:0.13, G:0.11, T:0.58
Consensus pattern (13 bp):
CTTGTTCTTAATT
Found at i:17432932 original size:27 final size:26
Alignment explanation
Indices: 17432915--17432984 Score: 95
Period size: 27 Copynumber: 2.6 Consensus size: 26
17432905 ATATTAAGTC
17432915 CGCACACTCAGTGCTATATAATCAACT
1 CGCACACTCAGTGCTATAT-ATCAACT
*
17432942 CGCACACTTAGTGCTATATAATCAAACT
1 CGCACACTCAGTGCTATAT-ATC-AACT
*
17432970 CGCACACTTAGTGCT
1 CGCACACTCAGTGCT
17432985 GTACAATTTA
Statistics
Matches: 41, Mismatches: 1, Indels: 1
0.95 0.02 0.02
Matches are distributed among these distances:
27 22 0.54
28 19 0.46
ACGTcount: A:0.31, C:0.29, G:0.13, T:0.27
Consensus pattern (26 bp):
CGCACACTCAGTGCTATATATCAACT
Found at i:17432978 original size:28 final size:28
Alignment explanation
Indices: 17432915--17433012 Score: 135
Period size: 28 Copynumber: 3.5 Consensus size: 28
17432905 ATATTAAGTC
*
17432915 CGCACACTCAGTGCTATATAATC-AACT
1 CGCACACTTAGTGCTATATAATCAAACT
17432942 CGCACACTTAGTGCTATATAATCAAACT
1 CGCACACTTAGTGCTATATAATCAAACT
* * * *
17432970 CGCACACTTAGTGCTGTACAATTTAAACC
1 CGCACACTTAGTGCTATATAA-TCAAACT
17432999 CGCACACTTAGTGC
1 CGCACACTTAGTGC
17433013 CAATCTCATG
Statistics
Matches: 64, Mismatches: 5, Indels: 2
0.90 0.07 0.03
Matches are distributed among these distances:
27 22 0.34
28 23 0.36
29 19 0.30
ACGTcount: A:0.32, C:0.29, G:0.13, T:0.27
Consensus pattern (28 bp):
CGCACACTTAGTGCTATATAATCAAACT
Found at i:17433476 original size:12 final size:12
Alignment explanation
Indices: 17433459--17433484 Score: 52
Period size: 12 Copynumber: 2.2 Consensus size: 12
17433449 TGGGCATACT
17433459 TATGTATATATA
1 TATGTATATATA
17433471 TATGTATATATA
1 TATGTATATATA
17433483 TA
1 TA
17433485 CTTCGGAATG
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 14 1.00
ACGTcount: A:0.42, C:0.00, G:0.08, T:0.50
Consensus pattern (12 bp):
TATGTATATATA
Found at i:17440105 original size:48 final size:48
Alignment explanation
Indices: 17440049--17440433 Score: 653
Period size: 48 Copynumber: 8.0 Consensus size: 48
17440039 CAAGATAAAT
17440049 ATATGTATATGTGGTAAAGCCGAATGGCTAATGTGAAATATGTATGAG
1 ATATGTATATGTGGTAAAGCCGAATGGCTAATGTGAAATATGTATGAG
*
17440097 ATATGTATATGTGGTAAAGCCGAATGGCTAATCTGAAATATGTATGAG
1 ATATGTATATGTGGTAAAGCCGAATGGCTAATGTGAAATATGTATGAG
17440145 ATATGTATATGTGGTAAAGCCGAATGGCTAATGTGAAATATGTATGAG
1 ATATGTATATGTGGTAAAGCCGAATGGCTAATGTGAAATATGTATGAG
* * *
17440193 ATATGTATATTTGATAAAGCCGAATGGCTAATGTGAAATATATATGAG
1 ATATGTATATGTGGTAAAGCCGAATGGCTAATGTGAAATATGTATGAG
17440241 ATATGTATATGTGGTAAAGCCGAATGGCTAATGTGAAATATGTATGAG
1 ATATGTATATGTGGTAAAGCCGAATGGCTAATGTGAAATATGTATGAG
* * *
17440289 ATATGTATATTTGATAAAGCCGAATGGCTAATGTGAAATATATATGAG
1 ATATGTATATGTGGTAAAGCCGAATGGCTAATGTGAAATATGTATGAG
* *
17440337 ATATGTATATGTGGTAAAGCCGAATGCCTAGTGTGAAATATGTATGAG
1 ATATGTATATGTGGTAAAGCCGAATGGCTAATGTGAAATATGTATGAG
* * * *
17440385 ATACGTATATGTGGTAAAGCCGAAGGGCTAGTGTGAAATATGTAGGAG
1 ATATGTATATGTGGTAAAGCCGAATGGCTAATGTGAAATATGTATGAG
17440433 A
1 A
17440434 CGTGTGTATA
Statistics
Matches: 317, Mismatches: 20, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
48 317 1.00
ACGTcount: A:0.36, C:0.07, G:0.26, T:0.31
Consensus pattern (48 bp):
ATATGTATATGTGGTAAAGCCGAATGGCTAATGTGAAATATGTATGAG
Done.