Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Chr11 124536837
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: 124536837
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
Warning! 312 characters in sequence are not A, C, G, or T
File 139 of 427
Found at i:37619823 original size:23 final size:24
Alignment explanation
Indices: 37619773--37619942 Score: 239
Period size: 23 Copynumber: 7.4 Consensus size: 24
37619763 CTGGAGGCCT
*
37619773 AGCCTCTTTTAATAACTGGGGCAAA
1 AGCC-CTTTTAATAACTGGGGCATA
37619798 AGCCCTTTTAATAACT-GGGCATA
1 AGCCCTTTTAATAACTGGGGCATA
37619821 AGCCC-TTTAATAACTGGGGCATA
1 AGCCCTTTTAATAACTGGGGCATA
*
37619844 A----TTTTGATAACTGGGGCATA
1 AGCCCTTTTAATAACTGGGGCATA
*
37619864 AGCCC-TTTAATAACTAGGGCATA
1 AGCCCTTTTAATAACTGGGGCATA
*
37619887 AGCCCTTTTGATAACTGGGGCATA
1 AGCCCTTTTAATAACTGGGGCATA
37619911 AGCCC-TTTAATAACTGGGGCATA
1 AGCCCTTTTAATAACTGGGGCATA
37619934 AGCCCTTTT
1 AGCCCTTTT
37619943 GAACTTCCTC
Statistics
Matches: 130, Mismatches: 7, Indels: 17
0.84 0.05 0.11
Matches are distributed among these distances:
20 18 0.14
22 10 0.08
23 62 0.48
24 36 0.28
25 4 0.03
ACGTcount: A:0.29, C:0.21, G:0.21, T:0.29
Consensus pattern (24 bp):
AGCCCTTTTAATAACTGGGGCATA
Found at i:37619914 original size:47 final size:47
Alignment explanation
Indices: 37619780--37619944 Score: 268
Period size: 47 Copynumber: 3.6 Consensus size: 47
37619770 CCTAGCCTCT
* *
37619780 TTTAATAACTGGGGCAAAAGCCCTTTTAATAACT-GGGCATAAGCCC
1 TTTAATAACTGGGGCATAAGCCCTTTTGATAACTGGGGCATAAGCCC
37619826 TTTAATAACTGGGGCATAA----TTTTGATAACTGGGGCATAAGCCC
1 TTTAATAACTGGGGCATAAGCCCTTTTGATAACTGGGGCATAAGCCC
*
37619869 TTTAATAACTAGGGCATAAGCCCTTTTGATAACTGGGGCATAAGCCC
1 TTTAATAACTGGGGCATAAGCCCTTTTGATAACTGGGGCATAAGCCC
37619916 TTTAATAACTGGGGCATAAGCCCTTTTGA
1 TTTAATAACTGGGGCATAAGCCCTTTTGA
37619945 ACTTCCTCCA
Statistics
Matches: 110, Mismatches: 4, Indels: 9
0.89 0.03 0.07
Matches are distributed among these distances:
42 10 0.09
43 30 0.27
46 18 0.16
47 52 0.47
ACGTcount: A:0.30, C:0.19, G:0.21, T:0.29
Consensus pattern (47 bp):
TTTAATAACTGGGGCATAAGCCCTTTTGATAACTGGGGCATAAGCCC
Found at i:37620014 original size:9 final size:9
Alignment explanation
Indices: 37620000--37620056 Score: 51
Period size: 9 Copynumber: 5.9 Consensus size: 9
37619990 ATCTCATGTG
37620000 CATATCATA
1 CATATCATA
*
37620009 CATATCATGTG
1 CATATCA--TA
37620020 CATATCATA
1 CATATCATA
* *
37620029 CATGTCATGTG
1 CATATCA--TA
37620040 CATATCATA
1 CATATCATA
37620049 CATATCAT
1 CATATCAT
37620057 GTTTATCAAA
Statistics
Matches: 38, Mismatches: 6, Indels: 8
0.73 0.12 0.15
Matches are distributed among these distances:
9 23 0.61
11 15 0.39
ACGTcount: A:0.35, C:0.21, G:0.09, T:0.35
Consensus pattern (9 bp):
CATATCATA
Found at i:37620016 original size:20 final size:20
Alignment explanation
Indices: 37619988--37620058 Score: 124
Period size: 20 Copynumber: 3.5 Consensus size: 20
37619978 GCATTTATGA
*
37619988 ACATCTCATGTGCATATCAT
1 ACATATCATGTGCATATCAT
37620008 ACATATCATGTGCATATCAT
1 ACATATCATGTGCATATCAT
*
37620028 ACATGTCATGTGCATATCAT
1 ACATATCATGTGCATATCAT
37620048 ACATATCATGT
1 ACATATCATGT
37620059 TTATCAAAAT
Statistics
Matches: 48, Mismatches: 3, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
20 48 1.00
ACGTcount: A:0.32, C:0.21, G:0.11, T:0.35
Consensus pattern (20 bp):
ACATATCATGTGCATATCAT
Found at i:37620023 original size:11 final size:11
Alignment explanation
Indices: 37619993--37620047 Score: 55
Period size: 11 Copynumber: 5.4 Consensus size: 11
37619983 TATGAACATC
37619993 TCATGTGCATA
1 TCATGTGCATA
*
37620004 TCA--TACATA
1 TCATGTGCATA
37620013 TCATGTGCATA
1 TCATGTGCATA
* *
37620024 TCA--TACATG
1 TCATGTGCATA
37620033 TCATGTGCATA
1 TCATGTGCATA
37620044 TCAT
1 TCAT
37620048 ACATATCATG
Statistics
Matches: 34, Mismatches: 6, Indels: 8
0.71 0.12 0.17
Matches are distributed among these distances:
9 15 0.44
11 19 0.56
ACGTcount: A:0.31, C:0.20, G:0.13, T:0.36
Consensus pattern (11 bp):
TCATGTGCATA
Found at i:37624725 original size:241 final size:241
Alignment explanation
Indices: 37624302--37624788 Score: 938
Period size: 241 Copynumber: 2.0 Consensus size: 241
37624292 ATGAATTAAT
37624302 TTTATTACCATGTAGCTTGCTTGTCCATTAAAATTACAACAATAGCAGACCTTCTCTCCAACCTT
1 TTTATTACCATGTAGCTTGCTTGTCCATTAAAATTACAACAATAGCAGACCTTCTCTCCAACCTT
37624367 ATTTTAAATATTTTAAAGATTCAAAGTATATAGGCTGGAAACCTGACGGGTTGCCTTATATCGAG
66 ATTTTAAATATTTTAAAGATTCAAAGTATATAGGCTGGAAACCTGACGGGTTGCCTTATATCGAG
*
37624432 CTGTAAGATATAATGGATCCTCCCTAGGTGTAACAACGCCATGTATGATGAATCTTAAAAAATTC
131 CTGTAAGATATAATGGATCCTCCCTAGGTGTAACAACGCCACGTATGATGAATCTTAAAAAATTC
37624497 AAAAAGACTTGAAAAAAGTTCTATCGAGATCATTTACTATTGAATA
196 AAAAAGACTTGAAAAAAGTTCTATCGAGATCATTTACTATTGAATA
*
37624543 TTTATTACCATGTAGCTTGCTTGTCCATTAAAATTACAACAATAGCTGACCTTCTCTCCAACCTT
1 TTTATTACCATGTAGCTTGCTTGTCCATTAAAATTACAACAATAGCAGACCTTCTCTCCAACCTT
*
37624608 ATTTTAAATATTTTAAAGATTCAAAGTATATAGGCTGGAAACCTGACGGGTTGCCTTATATCGTG
66 ATTTTAAATATTTTAAAGATTCAAAGTATATAGGCTGGAAACCTGACGGGTTGCCTTATATCGAG
37624673 CTGTAAGATATAATGGATCCTCCCTAGGTGTAACAACGCCACGTATGATGAATCTTAAAAAATTC
131 CTGTAAGATATAATGGATCCTCCCTAGGTGTAACAACGCCACGTATGATGAATCTTAAAAAATTC
*
37624738 AAAAAGACTTGAAAAAAGTTCTATCGAGTTCATTTACTATTGAATA
196 AAAAAGACTTGAAAAAAGTTCTATCGAGATCATTTACTATTGAATA
37624784 TTTAT
1 TTTAT
37624789 ATAACCTTAA
Statistics
Matches: 242, Mismatches: 4, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
241 242 1.00
ACGTcount: A:0.34, C:0.17, G:0.15, T:0.33
Consensus pattern (241 bp):
TTTATTACCATGTAGCTTGCTTGTCCATTAAAATTACAACAATAGCAGACCTTCTCTCCAACCTT
ATTTTAAATATTTTAAAGATTCAAAGTATATAGGCTGGAAACCTGACGGGTTGCCTTATATCGAG
CTGTAAGATATAATGGATCCTCCCTAGGTGTAACAACGCCACGTATGATGAATCTTAAAAAATTC
AAAAAGACTTGAAAAAAGTTCTATCGAGATCATTTACTATTGAATA
Found at i:37625249 original size:9 final size:9
Alignment explanation
Indices: 37625235--37625351 Score: 117
Period size: 9 Copynumber: 12.3 Consensus size: 9
37625225 CTTAAATGAA
37625235 TTACATAAC
1 TTACATAAC
37625244 TTACATAAC
1 TTACATAAC
* *
37625253 TCATATAAC
1 TTACATAAC
*
37625262 TTACATAAT
1 TTACATAAC
37625271 TTACATAACAAC
1 TTACAT---AAC
37625283 TTACATAAC
1 TTACATAAC
*
37625292 TCACATAAC
1 TTACATAAC
*
37625301 TTACATAAT
1 TTACATAAC
37625310 TTACATAAC
1 TTACATAAC
*
37625319 TCACATAAC
1 TTACATAAC
*
37625328 GTACATAACAAC
1 TTACAT---AAC
37625340 TTACATAAC
1 TTACATAAC
37625349 TTA
1 TTA
37625352 ACTAATACAT
Statistics
Matches: 88, Mismatches: 14, Indels: 12
0.77 0.12 0.11
Matches are distributed among these distances:
9 72 0.82
12 16 0.18
ACGTcount: A:0.45, C:0.22, G:0.01, T:0.32
Consensus pattern (9 bp):
TTACATAAC
Found at i:37625293 original size:39 final size:39
Alignment explanation
Indices: 37625241--37625318 Score: 147
Period size: 39 Copynumber: 2.0 Consensus size: 39
37625231 TGAATTACAT
*
37625241 AACTTACATAACTCATATAACTTACATAATTTACATAAC
1 AACTTACATAACTCACATAACTTACATAATTTACATAAC
37625280 AACTTACATAACTCACATAACTTACATAATTTACATAAC
1 AACTTACATAACTCACATAACTTACATAATTTACATAAC
37625319 TCACATAACG
Statistics
Matches: 38, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
39 38 1.00
ACGTcount: A:0.46, C:0.22, G:0.00, T:0.32
Consensus pattern (39 bp):
AACTTACATAACTCACATAACTTACATAATTTACATAAC
Found at i:37625318 original size:57 final size:57
Alignment explanation
Indices: 37625237--37625349 Score: 172
Period size: 57 Copynumber: 2.0 Consensus size: 57
37625227 TAAATGAATT
* * **
37625237 ACATAACTTACATAACTCATATAACTTACATAATTTACATAACAACTTACATAACTC
1 ACATAACTTACATAACTCACATAACTCACATAACGTACATAACAACTTACATAACTC
* *
37625294 ACATAACTTACATAATTTACATAACTCACATAACGTACATAACAACTTACATAACT
1 ACATAACTTACATAACTCACATAACTCACATAACGTACATAACAACTTACATAACT
37625350 TAACTAATAC
Statistics
Matches: 50, Mismatches: 6, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
57 50 1.00
ACGTcount: A:0.46, C:0.23, G:0.01, T:0.30
Consensus pattern (57 bp):
ACATAACTTACATAACTCACATAACTCACATAACGTACATAACAACTTACATAACTC
Found at i:37625341 original size:39 final size:36
Alignment explanation
Indices: 37625236--37625347 Score: 129
Period size: 39 Copynumber: 2.9 Consensus size: 36
37625226 TTAAATGAAT
37625236 TACATAACTTACATAACT-CATATAACTTACATAATT
1 TACATAACTTACATAACTACATA-AACTTACATAATT
37625272 TACATAACAACTTACATAACTCACAT-AACTTACATAATT
1 TACAT---AACTTACATAACT-ACATAAACTTACATAATT
*
37625311 TACATAACTCACATAACGTACATAACAACTTACATAA
1 TACATAACTTACATAAC-TACAT-A-AACTTACATAA
37625348 CTTAACTAAT
Statistics
Matches: 66, Mismatches: 1, Indels: 15
0.80 0.01 0.18
Matches are distributed among these distances:
36 20 0.30
37 1 0.02
39 42 0.64
41 3 0.05
ACGTcount: A:0.46, C:0.22, G:0.01, T:0.30
Consensus pattern (36 bp):
TACATAACTTACATAACTACATAAACTTACATAATT
Found at i:37631297 original size:43 final size:42
Alignment explanation
Indices: 37631216--37631331 Score: 146
Period size: 43 Copynumber: 2.7 Consensus size: 42
37631206 ACTGGGCAAA
* * *
37631216 TTAGCGGCG-TTTTT-AAAAATGCTGCTAAAAGTCTTGGTCT
1 TTAGCGGCGTTTTTTAAAAAACGCCGCTAAAAGTCCTGGTCT
37631256 TTAGCGGCGTTTTTTAAAAAAGCGCCGCTAAAAGTCCTGGTCT
1 TTAGCGGCGTTTTTTAAAAAA-CGCCGCTAAAAGTCCTGGTCT
*
37631299 TTAGCAGCGTTTTTTCCAAACAAACGCCGCTAA
1 TTAGCGGCGTTTTTT--AAA-AAACGCCGCTAA
37631332 TTTTAGCGGC
Statistics
Matches: 66, Mismatches: 4, Indels: 7
0.86 0.05 0.09
Matches are distributed among these distances:
40 9 0.14
41 5 0.08
42 5 0.08
43 32 0.48
45 12 0.18
46 3 0.05
ACGTcount: A:0.27, C:0.21, G:0.21, T:0.32
Consensus pattern (42 bp):
TTAGCGGCGTTTTTTAAAAAACGCCGCTAAAAGTCCTGGTCT
Found at i:37633524 original size:40 final size:39
Alignment explanation
Indices: 37633480--37633661 Score: 222
Period size: 39 Copynumber: 4.6 Consensus size: 39
37633470 GTTCAAAACA
* * ** *
37633480 CCTTCGGGACATAGCCCGGTTATGGTAACCCGCACAAATG
1 CCTTCGGG-CTTAGCCCGGATATCATAACCCGCACAATTG
* * *
37633520 CCTTCGGGACTTAACCCGGATATCACAACTCGCACAATTG
1 CCTTCGGG-CTTAGCCCGGATATCATAACCCGCACAATTG
*
37633560 CCTTCGGGCTTAGCCCGGATATCATAGCTCC-CACAATTG
1 CCTTCGGGCTTAGCCCGGATATCATAAC-CCGCACAATTG
* **
37633599 CCTTCGGGCTTAGCCCGGATATCACAATTCGCACAATTG
1 CCTTCGGGCTTAGCCCGGATATCATAACCCGCACAATTG
37633638 CCTTCGGGCTTAGCCCGGATATCA
1 CCTTCGGGCTTAGCCCGGATATCA
37633662 CTCGAACATT
Statistics
Matches: 124, Mismatches: 16, Indels: 5
0.86 0.11 0.03
Matches are distributed among these distances:
38 1 0.01
39 82 0.66
40 41 0.33
ACGTcount: A:0.23, C:0.32, G:0.21, T:0.24
Consensus pattern (39 bp):
CCTTCGGGCTTAGCCCGGATATCATAACCCGCACAATTG
Found at i:37633595 original size:39 final size:39
Alignment explanation
Indices: 37633510--37633662 Score: 243
Period size: 39 Copynumber: 3.9 Consensus size: 39
37633500 TATGGTAACC
* *
37633510 CGCACAAATGCCTTCGGGACTTAACCCGGATATCACAACT
1 CGCACAATTGCCTTCGGG-CTTAGCCCGGATATCACAACT
* *
37633550 CGCACAATTGCCTTCGGGCTTAGCCCGGATATCATAGCT
1 CGCACAATTGCCTTCGGGCTTAGCCCGGATATCACAACT
* *
37633589 CCCACAATTGCCTTCGGGCTTAGCCCGGATATCACAATT
1 CGCACAATTGCCTTCGGGCTTAGCCCGGATATCACAACT
37633628 CGCACAATTGCCTTCGGGCTTAGCCCGGATATCAC
1 CGCACAATTGCCTTCGGGCTTAGCCCGGATATCAC
37633663 TCGAACATTC
Statistics
Matches: 104, Mismatches: 9, Indels: 1
0.91 0.08 0.01
Matches are distributed among these distances:
39 87 0.84
40 17 0.16
ACGTcount: A:0.24, C:0.33, G:0.20, T:0.24
Consensus pattern (39 bp):
CGCACAATTGCCTTCGGGCTTAGCCCGGATATCACAACT
Found at i:37646305 original size:40 final size:40
Alignment explanation
Indices: 37646194--37646330 Score: 217
Period size: 39 Copynumber: 3.5 Consensus size: 40
37646184 AAACCAAGTA
* * *
37646194 CCTTCGGGATTTAG-CCGGATATAGCT-ACTCGCTCAACTG
1 CCTTCGGGACTTAGCCCGGATATAG-TAACTCGCACAAATG
37646233 CCTTCGGGACTTAGCCC-GATATAGTAACTCGCACAAATG
1 CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATG
37646272 CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATG
1 CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATG
37646312 CCTTCGGGACTTAGCCCGG
1 CCTTCGGGACTTAGCCCGG
37646331 TTATCATCCG
Statistics
Matches: 92, Mismatches: 3, Indels: 5
0.92 0.03 0.05
Matches are distributed among these distances:
38 1 0.01
39 48 0.52
40 43 0.47
ACGTcount: A:0.23, C:0.29, G:0.23, T:0.24
Consensus pattern (40 bp):
CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATG
Found at i:37650164 original size:39 final size:38
Alignment explanation
Indices: 37650079--37650333 Score: 293
Period size: 39 Copynumber: 6.6 Consensus size: 38
37650069 GCTACTCGTT
* **
37650079 CAAATGCCTTCGGGACATAGCCCGGTTATAGTAACTCGCA
1 CAAATGCCTTCGGG-CTTAGCCCGAAT-TAGTAACTCGCA
* * *
37650119 CAAATGCCTTCGGGACTTAACCCGATTTAGTAACTCACA
1 CAAATGCCTTCGGG-CTTAGCCCGAATTAGTAACTCGCA
*
37650158 CCAATGCCTTCGGGCTTAGCCCGGAATTAGTAACTCGCA
1 CAAATGCCTTCGGGCTTAGCCC-GAATTAGTAACTCGCA
*
37650197 CAAATGCCTTCGAGCTTAGCCCGAATTAGTAACTCGCA
1 CAAATGCCTTCGGGCTTAGCCCGAATTAGTAACTCGCA
37650235 CAAATGCCTT-GGGCTTAG-CCGAATTA-TAACTCGCA
1 CAAATGCCTTCGGGCTTAGCCCGAATTAGTAACTCGCA
* * * * *
37650270 CAAATGCCTTCGGATCTTAGTCCGGATATAGTCACTTAGCA
1 CAAATGCCTTCGG-GCTTAGCCCGAAT-TAGTAAC-TCGCA
37650311 CAAA-GCCTTCGGGACTTAGCCCG
1 CAAATGCCTTCGGG-CTTAGCCCG
37650334 GACATCATTC
Statistics
Matches: 190, Mismatches: 17, Indels: 16
0.85 0.08 0.07
Matches are distributed among these distances:
35 19 0.10
36 10 0.05
37 12 0.06
38 38 0.20
39 60 0.32
40 43 0.23
41 8 0.04
ACGTcount: A:0.27, C:0.28, G:0.20, T:0.24
Consensus pattern (38 bp):
CAAATGCCTTCGGGCTTAGCCCGAATTAGTAACTCGCA
Found at i:37658265 original size:38 final size:39
Alignment explanation
Indices: 37658176--37658434 Score: 295
Period size: 37 Copynumber: 6.7 Consensus size: 39
37658166 GCTACTCGTT
*
37658176 CAAATGCCTTCGGGACATAGCCCGG-TTATAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGATT-TAGTAACTC-CA
*
37658216 CAAATGCCTTCGGGACTTAACCCGGATTTAGTAACT-CA
1 CAAATGCCTTCGGGACTTAGCCCGGATTTAGTAACTCCA
*
37658254 CAAATGCCTTCGGG-CTTAGCCCGGAATTAGTAACTCACA
1 CAAATGCCTTCGGGACTTAGCCCGGATTTAGTAACTC-CA
*
37658293 CAAATGCCTTC--GA-TTAGCCCGGAATTAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGATTTAGTAACTC-CA
*
37658330 CAAATGCCTTCGGG-CTTAGCCC-GAATTAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGATTTAGTAACTC-CA
* * * *
37658368 CAAATGCCTTC-GGATCTTAGTCCGGATATAGTCACTTAGCA
1 CAAATGCCTTCGGGA-CTTAGCCCGGATTTAGTAAC-T-CCA
37658409 CAAA-GCCTTCGGGACTTAGCCCGGAT
1 CAAATGCCTTCGGGACTTAGCCCGGAT
37658435 ATCATTCGAA
Statistics
Matches: 195, Mismatches: 11, Indels: 26
0.84 0.05 0.11
Matches are distributed among these distances:
37 56 0.29
38 43 0.22
39 28 0.14
40 56 0.29
41 12 0.06
ACGTcount: A:0.27, C:0.27, G:0.21, T:0.24
Consensus pattern (39 bp):
CAAATGCCTTCGGGACTTAGCCCGGATTTAGTAACTCCA
Found at i:37658370 original size:114 final size:117
Alignment explanation
Indices: 37658176--37658433 Score: 316
Period size: 114 Copynumber: 2.2 Consensus size: 117
37658166 GCTACTCGTT
* *
37658176 CAAATGCCTTCGGGACATAGCCCGG-TTATAGTAACTCGCACAAATGCCTTCGGGACTTAACCCG
1 CAAA-GCCTTC-GGACTTAGCCCGGAAT-TAGTAACTCGCACAAATGCCTTCGGGACTTAACCCG
*
37658240 GATTTAGTAACTCACAAATGCCTTCGG-GCTTAGCCCGGA-ATTAGTAACTCA-CA
63 GAATTAGTAACTCACAAATGCCTTCGGAGCTTAGCCCGGATA-TAGTAACTCAGCA
*
37658293 CAAATGCCTTC-GA-TTAGCCCGGAATTAGTAACTCGCACAAATGCCTTCGGG-CTTAGCCC-GA
1 CAAA-GCCTTCGGACTTAGCCCGGAATTAGTAACTCGCACAAATGCCTTCGGGACTTAACCCGGA
* * * *
37658354 ATTAGTAACTCGCACAAATGCCTTCGGATCTTAGTCCGGATATAGTCACTTAGCA
65 ATTAGTAACT--CACAAATGCCTTCGGAGCTTAGCCCGGATATAGTAACTCAGCA
37658409 CAAAGCCTTCGGGACTTAGCCCGGA
1 CAAAGCCTTC-GGACTTAGCCCGGA
37658434 TATCATTCGA
Statistics
Matches: 124, Mismatches: 8, Indels: 17
0.83 0.05 0.11
Matches are distributed among these distances:
112 11 0.09
113 7 0.06
114 49 0.40
115 27 0.22
116 7 0.06
117 13 0.10
118 10 0.08
ACGTcount: A:0.28, C:0.28, G:0.21, T:0.24
Consensus pattern (117 bp):
CAAAGCCTTCGGACTTAGCCCGGAATTAGTAACTCGCACAAATGCCTTCGGGACTTAACCCGGAA
TTAGTAACTCACAAATGCCTTCGGAGCTTAGCCCGGATATAGTAACTCAGCA
Found at i:37658433 original size:40 final size:40
Alignment explanation
Indices: 37658157--37658436 Score: 325
Period size: 40 Copynumber: 7.2 Consensus size: 40
37658147 CGGAATTTAA
** *
37658157 CCGGATATAGCT-ACTCGTTCAAATGCCTTCGGGACATAGC
1 CCGGATATAG-TAACTCGCACAAATGCCTTCGGGACTTAGC
* *
37658197 CCGGTTATAGTAACTCGCACAAATGCCTTCGGGACTTAAC
1 CCGGATATAGTAACTCGCACAAATGCCTTCGGGACTTAGC
*
37658237 CCGGATTTAGTAACT--CACAAATGCCTTCGGG-CTTAGC
1 CCGGATATAGTAACTCGCACAAATGCCTTCGGGACTTAGC
*
37658274 CCGGA-ATTAGTAACTCACACAAATGCCTTC--GA-TTAGC
1 CCGGATA-TAGTAACTCGCACAAATGCCTTCGGGACTTAGC
37658311 CCGGA-ATTAGTAACTCGCACAAATGCCTTCGGG-CTTAGC
1 CCGGATA-TAGTAACTCGCACAAATGCCTTCGGGACTTAGC
* *
37658350 CCGAAT-TAGTAACTCGCACAAATGCCTTC-GGATCTTAGT
1 CCGGATATAGTAACTCGCACAAATGCCTTCGGGA-CTTAGC
* *
37658389 CCGGATATAGTCACTTAGCACAAA-GCCTTCGGGACTTAGC
1 CCGGATATAGTAAC-TCGCACAAATGCCTTCGGGACTTAGC
37658429 CCGGATAT
1 CCGGATAT
37658437 CATTCGAATA
Statistics
Matches: 210, Mismatches: 16, Indels: 28
0.83 0.06 0.11
Matches are distributed among these distances:
37 55 0.26
38 39 0.19
39 34 0.16
40 71 0.34
41 11 0.05
ACGTcount: A:0.27, C:0.27, G:0.21, T:0.25
Consensus pattern (40 bp):
CCGGATATAGTAACTCGCACAAATGCCTTCGGGACTTAGC
Found at i:37678491 original size:611 final size:611
Alignment explanation
Indices: 37677328--37678547 Score: 2242
Period size: 611 Copynumber: 2.0 Consensus size: 611
37677318 GCTATATACC
* *
37677328 AAGCCATTTTACCACCCTTTTATGTACACACCTACACAACACAACATAGCACCAATTTATGCATA
1 AAGCCATTTTACCACCCTTTTATGCACACACCTACACAACACAACATAGCACCAATTCATGCATA
37677393 TATATACAACCAAATCAGCCACAACAAATACATCAACACCACATTCACATGTTACCAACTAACAT
66 TATATACAACCAAATCAGCCACAACAAATACATCAACACCACATTCACATGTTACCAACTAACAT
*
37677458 ACATAAACATTACATACACATCAACTCAAATTATGTAAATTTCCAATCCATGAAAGACATCATTA
131 ACATAAACATTACATACACATCAACTCAAATTATGTAAATTTCCAATCCATGAAAGACATCATCA
37677523 TCTAAATTACTTATACCAATAGTAGACAATTTCAAATGGCCTTATACAGAATGAACTTTCAACCA
196 TCTAAATTACTTATACCAATAGTAGACAATTTCAAATGGCCTTATACAGAATGAACTTTCAACCA
* *
37677588 ATATAAGCCAACATATTTGGCCAAATCAATTAAGACACATAACAAAATAACTAAGTCCCCTATAC
261 ATATAAGCCAACACATTTGGCCAAATCAATTAAGACACATAACAAAATAACCAAGTCCCCTATAC
37677653 ATGCCATAACTCAAAAATGTTGAAATCATTGGTACCAAAATAATTGTTGATAGTGTGAGTGGATC
326 ATGCCATAACTCAAAAATGTTGAAATCATTGGTACCAAAATAATTGTTGATAGTGTGAGTGGATC
* * * *
37677718 TCCGACAGTCTCCGATCCCCAAGCTAGCTTGGTGACGCTATAAAATAAAGGAAAGAAAGGGGAGT
391 TCCGACAGTCTCCGATCCCCAAGCTAGCTTAGTGACACTATAAAACAAAGAAAAGAAAGGGGAGT
*
37677783 AAGCTTTACCACTTAGTAAGTTCCTATGCAAATAATAGGTATTATAATCACACATTAAACGTACA
456 AAGCTTTACCACTTAGTAAGTTCCTATGCAAATAATAGGTATTATAATCACACATTAAACATACA
*
37677848 ATTAGCATGATAAAAATCTTTAGCAAGGGTTCATCACTTATCGAGCTCATTACGTATGAGTTTTA
521 ATTAGCATGATAAAAATCTTTACCAAGGGTTCATCACTTATCGAGCTCATTACGTATGAGTTTTA
*
37677913 CGTACATACCTGTACCAACTCGTACT
586 CGTACATACCTATACCAACTCGTACT
*
37677939 AAGCCATTTTACCACCCTTTTATGCACACACCTACACAACACAACATATCACCAATTCATGCATA
1 AAGCCATTTTACCACCCTTTTATGCACACACCTACACAACACAACATAGCACCAATTCATGCATA
* *
37678004 TATATAGAACCAAATCAGCCACAACAAATACATCAACACCATATTCACATGTTACCAACTAACAT
66 TATATACAACCAAATCAGCCACAACAAATACATCAACACCACATTCACATGTTACCAACTAACAT
37678069 ACATAAACATTACATACACATCAACTCAAATTATGTAAATTTCCAATCCATGAAAGACATCATCA
131 ACATAAACATTACATACACATCAACTCAAATTATGTAAATTTCCAATCCATGAAAGACATCATCA
* *
37678134 TCTAAATTACTTATACCAATAGTAGCCAATTTTAAATGGCCTTATACAGAATGAACTTTCAACCA
196 TCTAAATTACTTATACCAATAGTAGACAATTTCAAATGGCCTTATACAGAATGAACTTTCAACCA
37678199 ATATAAGCCAACACATTTGGCCAAATCAATTAAGACACATAACAAAATAACCAAGTCCCCTATAC
261 ATATAAGCCAACACATTTGGCCAAATCAATTAAGACACATAACAAAATAACCAAGTCCCCTATAC
37678264 ATGCCATAACTCAAAAATGTTGAAATCATTGGTACCAAAATAATTGTTGATAGTGTGAGTGGATC
326 ATGCCATAACTCAAAAATGTTGAAATCATTGGTACCAAAATAATTGTTGATAGTGTGAGTGGATC
* *
37678329 TCTGACAGTCTCCGATCCCCGAGCTAGCTTAGTGACACTATAAAACAAAGAAAAGAAAGGGGAGT
391 TCCGACAGTCTCCGATCCCCAAGCTAGCTTAGTGACACTATAAAACAAAGAAAAGAAAGGGGAGT
*
37678394 AAGCTTTACCGCTTAGTAAGTTCCTATGCAAATAATAGGTATTATAATCACACATTAAACATACA
456 AAGCTTTACCACTTAGTAAGTTCCTATGCAAATAATAGGTATTATAATCACACATTAAACATACA
* *
37678459 ATTAGCATGATAAAATTCTTTACCGAGGGTTCATCACTTATCGAGCTCATTACGTATGAGTTTTA
521 ATTAGCATGATAAAAATCTTTACCAAGGGTTCATCACTTATCGAGCTCATTACGTATGAGTTTTA
37678524 CGTACATACCTATACCAACTCGTA
586 CGTACATACCTATACCAACTCGTA
37678548 ACATAGCACA
Statistics
Matches: 587, Mismatches: 22, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
611 587 1.00
ACGTcount: A:0.39, C:0.22, G:0.11, T:0.27
Consensus pattern (611 bp):
AAGCCATTTTACCACCCTTTTATGCACACACCTACACAACACAACATAGCACCAATTCATGCATA
TATATACAACCAAATCAGCCACAACAAATACATCAACACCACATTCACATGTTACCAACTAACAT
ACATAAACATTACATACACATCAACTCAAATTATGTAAATTTCCAATCCATGAAAGACATCATCA
TCTAAATTACTTATACCAATAGTAGACAATTTCAAATGGCCTTATACAGAATGAACTTTCAACCA
ATATAAGCCAACACATTTGGCCAAATCAATTAAGACACATAACAAAATAACCAAGTCCCCTATAC
ATGCCATAACTCAAAAATGTTGAAATCATTGGTACCAAAATAATTGTTGATAGTGTGAGTGGATC
TCCGACAGTCTCCGATCCCCAAGCTAGCTTAGTGACACTATAAAACAAAGAAAAGAAAGGGGAGT
AAGCTTTACCACTTAGTAAGTTCCTATGCAAATAATAGGTATTATAATCACACATTAAACATACA
ATTAGCATGATAAAAATCTTTACCAAGGGTTCATCACTTATCGAGCTCATTACGTATGAGTTTTA
CGTACATACCTATACCAACTCGTACT
Found at i:37680473 original size:25 final size:25
Alignment explanation
Indices: 37680445--37680532 Score: 124
Period size: 25 Copynumber: 3.5 Consensus size: 25
37680435 CATGCAATAC
**
37680445 GCCACAAAAACTTTACTGATAACTT
1 GCCACAAAGGCTTTACTGATAACTT
*
37680470 GCCACAAAGGCTTTAATGATAA-TT
1 GCCACAAAGGCTTTACTGATAACTT
*
37680494 CGCCACAAAGGCTTTACAGATAACTT
1 -GCCACAAAGGCTTTACTGATAACTT
37680520 GCCACAAAGGCTT
1 GCCACAAAGGCTT
37680533 GGTTTGATTT
Statistics
Matches: 56, Mismatches: 5, Indels: 4
0.86 0.08 0.06
Matches are distributed among these distances:
24 2 0.04
25 52 0.93
26 2 0.04
ACGTcount: A:0.36, C:0.24, G:0.15, T:0.25
Consensus pattern (25 bp):
GCCACAAAGGCTTTACTGATAACTT
Found at i:37683668 original size:67 final size:67
Alignment explanation
Indices: 37683560--37683685 Score: 234
Period size: 67 Copynumber: 1.9 Consensus size: 67
37683550 CCATTACAGG
* *
37683560 TAGTTTACTATTATTTCAATCGCATGATACCCCCGATCAGGGCATTCCACTCATACCCTTCTACT
1 TAGTTTACTATTATTTCAATCGCACGATACCCCCGAGCAGGGCATTCCACTCATACCCTTCTACT
37683625 CT
66 CT
37683627 TAGTTTACTATTATTTCAATCGCACGATACCCCCGAGCAGGGCATTCCACTCATACCCT
1 TAGTTTACTATTATTTCAATCGCACGATACCCCCGAGCAGGGCATTCCACTCATACCCT
37683686 ACTGTTCTTA
Statistics
Matches: 57, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
67 57 1.00
ACGTcount: A:0.25, C:0.32, G:0.12, T:0.32
Consensus pattern (67 bp):
TAGTTTACTATTATTTCAATCGCACGATACCCCCGAGCAGGGCATTCCACTCATACCCTTCTACT
CT
Found at i:37687823 original size:12 final size:11
Alignment explanation
Indices: 37687806--37687843 Score: 51
Period size: 11 Copynumber: 3.5 Consensus size: 11
37687796 TCAATTGGGG
37687806 ATTTTATTTGTT
1 ATTTTATTT-TT
37687818 ATTTTA-TTTT
1 ATTTTATTTTT
*
37687828 ACTTTATTTTT
1 ATTTTATTTTT
37687839 ATTTT
1 ATTTT
37687844 CTTTCCCAAA
Statistics
Matches: 23, Mismatches: 2, Indels: 3
0.82 0.07 0.11
Matches are distributed among these distances:
10 7 0.30
11 10 0.43
12 6 0.26
ACGTcount: A:0.18, C:0.03, G:0.03, T:0.76
Consensus pattern (11 bp):
ATTTTATTTTT
Found at i:37691662 original size:49 final size:49
Alignment explanation
Indices: 37691546--37691678 Score: 148
Period size: 47 Copynumber: 2.8 Consensus size: 49
37691536 TAGGATATAA
* * *
37691546 TGCCGATGCCATGTCCTAGATATGGTCTTACACT-AGCTCTCACGTTAAG
1 TGCCGATGCCATGTCCCAGACATGGTCTTACACTGA-CTCCCACGTTAAG
* * **
37691595 T--CAATGCCATGTCTCAGACATGGTCTTACACTGACTCCCAC-TATCCG
1 TGCCGATGCCATGTCCCAGACATGGTCTTACACTGACTCCCACGT-TAAG
*
37691642 TGCCGATGCCATGTCCCAGACATGGTCTTATACTGAC
1 TGCCGATGCCATGTCCCAGACATGGTCTTACACTGAC
37691679 ACATCATGAA
Statistics
Matches: 70, Mismatches: 10, Indels: 8
0.80 0.11 0.09
Matches are distributed among these distances:
46 1 0.01
47 36 0.51
48 1 0.01
49 32 0.46
ACGTcount: A:0.23, C:0.30, G:0.19, T:0.29
Consensus pattern (49 bp):
TGCCGATGCCATGTCCCAGACATGGTCTTACACTGACTCCCACGTTAAG
Found at i:37693131 original size:2 final size:2
Alignment explanation
Indices: 37693126--37693156 Score: 62
Period size: 2 Copynumber: 15.5 Consensus size: 2
37693116 AGCTAAGCTG
37693126 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
37693157 AGATAGTGCG
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 29 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:37701921 original size:93 final size:93
Alignment explanation
Indices: 37701762--37701931 Score: 250
Period size: 93 Copynumber: 1.8 Consensus size: 93
37701752 CCATAAGTGC
* * ** * *
37701762 ACTCGGACTCAACTCAATGAGCTCGGGTGTTCTCATCCATAAGTGAACTCGGACTCAACTCAACG
1 ACTCGAACTCAACTCAACGAGCTCGGACGTTCGCATCCATAAGTGAACTCAGACTCAACTCAACG
*
37701827 AGCTCGGATGCCTAGTTACATCTCACGA
66 AGCTCAGATGCCTAGTTACATCTCACGA
* *
37701855 ACTCGAACTCAACTCAACGAGTTCGGACGTTCGCATCTATAAGTGAACTCAGACTCAACTCAACG
1 ACTCGAACTCAACTCAACGAGCTCGGACGTTCGCATCCATAAGTGAACTCAGACTCAACTCAACG
*
37701920 AGTTCAGATGCC
66 AGCTCAGATGCC
37701932 CAAATATCTG
Statistics
Matches: 67, Mismatches: 10, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
93 67 1.00
ACGTcount: A:0.29, C:0.29, G:0.19, T:0.23
Consensus pattern (93 bp):
ACTCGAACTCAACTCAACGAGCTCGGACGTTCGCATCCATAAGTGAACTCAGACTCAACTCAACG
AGCTCAGATGCCTAGTTACATCTCACGA
Found at i:37701924 original size:46 final size:45
Alignment explanation
Indices: 37701753--37701921 Score: 155
Period size: 46 Copynumber: 3.7 Consensus size: 45
37701743 GTAACCCGCC
* * ** *
37701753 CATAAGTGCACTCGGACTCAACTCAATGAGCTCGGGTGTTCTCAT
1 CATAAGTGAACTCGGACTCAACTCAACGAGCTCGGACGTTCACAT
37701798 CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGGATGCCTAGTT-ACAT
1 -CATAAGTGAACTCGGACTCAACTCAACGAGCTCGGA---C--GTTCACAT
* * * * *
37701848 C-TCA-CGAACTCGAACTCAACTCAACGAGTTCGGACGTTCGCAT
1 CATAAGTGAACTCGGACTCAACTCAACGAGCTCGGACGTTCACAT
*
37701891 CTATAAGTGAACTCAGACTCAACTCAACGAG
1 C-ATAAGTGAACTCGGACTCAACTCAACGAG
37701922 TTCAGATGCC
Statistics
Matches: 100, Mismatches: 14, Indels: 18
0.76 0.11 0.14
Matches are distributed among these distances:
42 3 0.03
43 4 0.04
44 1 0.01
45 2 0.02
46 54 0.54
47 27 0.27
48 2 0.02
49 1 0.01
50 3 0.03
51 3 0.03
ACGTcount: A:0.30, C:0.28, G:0.20, T:0.22
Consensus pattern (45 bp):
CATAAGTGAACTCGGACTCAACTCAACGAGCTCGGACGTTCACAT
Found at i:37705280 original size:20 final size:19
Alignment explanation
Indices: 37705257--37705315 Score: 55
Period size: 20 Copynumber: 3.0 Consensus size: 19
37705247 TAATTTTATT
37705257 TTAATAGTTTTAATATTAAA
1 TTAATA-TTTTAATATTAAA
* * *
37705277 TTAAATATCTTGATAGTAAA
1 TT-AATATTTTAATATTAAA
* *
37705297 TTATTAATTTAATATTAAA
1 TTAATATTTTAATATTAAA
37705316 GTGATTACCT
Statistics
Matches: 30, Mismatches: 8, Indels: 3
0.73 0.20 0.07
Matches are distributed among these distances:
19 12 0.40
20 14 0.47
21 4 0.13
ACGTcount: A:0.46, C:0.02, G:0.05, T:0.47
Consensus pattern (19 bp):
TTAATATTTTAATATTAAA
Found at i:37709958 original size:15 final size:15
Alignment explanation
Indices: 37709938--37709967 Score: 60
Period size: 15 Copynumber: 2.0 Consensus size: 15
37709928 CTCTCAAATA
37709938 GTATCATACTTTATG
1 GTATCATACTTTATG
37709953 GTATCATACTTTATG
1 GTATCATACTTTATG
37709968 ATATAGTGCA
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:0.27, C:0.13, G:0.13, T:0.47
Consensus pattern (15 bp):
GTATCATACTTTATG
Found at i:37711000 original size:16 final size:17
Alignment explanation
Indices: 37710979--37711010 Score: 57
Period size: 16 Copynumber: 1.9 Consensus size: 17
37710969 ACCATAATGA
37710979 TAAAAATAT-TTTATAT
1 TAAAAATATATTTATAT
37710995 TAAAAATATATTTATA
1 TAAAAATATATTTATA
37711011 AAAATGGGTG
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
16 9 0.60
17 6 0.40
ACGTcount: A:0.53, C:0.00, G:0.00, T:0.47
Consensus pattern (17 bp):
TAAAAATATATTTATAT
Found at i:37711454 original size:72 final size:72
Alignment explanation
Indices: 37711337--37711481 Score: 272
Period size: 72 Copynumber: 2.0 Consensus size: 72
37711327 TACTTTCAAG
37711337 TCGGTCTCCCTAATTGGTAACAATTCTTCTTTTCTTTTCAAGCTTTATGGATTAATCTCTAAAAC
1 TCGGTCTCCCTAATTGGTAACAATTCTTCTTTTCTTTTCAAGCTTTATGGATTAATCTCTAAAAC
37711402 ATTAGAA
66 ATTAGAA
* *
37711409 TCGGTCTTCCTAATTGGTAACAATTCTTCTTTTCTTTTCAAGCTTTATGGATTAATCTCTAGAAC
1 TCGGTCTCCCTAATTGGTAACAATTCTTCTTTTCTTTTCAAGCTTTATGGATTAATCTCTAAAAC
37711474 ATTAGAA
66 ATTAGAA
37711481 T
1 T
37711482 TGTGACTTTT
Statistics
Matches: 71, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
72 71 1.00
ACGTcount: A:0.27, C:0.19, G:0.12, T:0.43
Consensus pattern (72 bp):
TCGGTCTCCCTAATTGGTAACAATTCTTCTTTTCTTTTCAAGCTTTATGGATTAATCTCTAAAAC
ATTAGAA
Found at i:37712072 original size:106 final size:106
Alignment explanation
Indices: 37711946--37712158 Score: 372
Period size: 106 Copynumber: 2.0 Consensus size: 106
37711936 AACCAATATG
*
37711946 GAAAAAAAAGTCAAACAAGTCAAGTTTAGCATTTAAATCCTTCTAGTCACTCAATGATTTAGAGC
1 GAAAAAAAAGTCAAACAAGTCAAGTTTAGCATTTAAATCCTTCTAGTCACTCAATGATTTAGAGA
37712011 TAAGATTACAAATTATCATCCAAATAATAGAGATAATATAA
66 TAAGATTACAAATTATCATCCAAATAATAGAGATAATATAA
* * * *
37712052 GAAAAAAATGTCAAATAAGTCAAGTTTAGCCTTTAAATCCTTCTAGTCATTCAATGATTTAGAGA
1 GAAAAAAAAGTCAAACAAGTCAAGTTTAGCATTTAAATCCTTCTAGTCACTCAATGATTTAGAGA
*
37712117 TAAGATTACAAATTATCATCCAAATGATAGAGATAATATAA
66 TAAGATTACAAATTATCATCCAAATAATAGAGATAATATAA
37712158 G
1 G
37712159 TAAAGCATAT
Statistics
Matches: 101, Mismatches: 6, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
106 101 1.00
ACGTcount: A:0.45, C:0.13, G:0.12, T:0.30
Consensus pattern (106 bp):
GAAAAAAAAGTCAAACAAGTCAAGTTTAGCATTTAAATCCTTCTAGTCACTCAATGATTTAGAGA
TAAGATTACAAATTATCATCCAAATAATAGAGATAATATAA
Found at i:37715666 original size:79 final size:79
Alignment explanation
Indices: 37715533--37715763 Score: 336
Period size: 79 Copynumber: 2.9 Consensus size: 79
37715523 TCACATGCAC
*
37715533 GGTTATAAATCAGAATCAGTAATAATCAGTCTAACATGTTCAGATATCGCATATTCTTCATCAAC
1 GGTTATAAATCAGAATAAGTAATAATCAGTCTAACATGTTCAGATATCGCATATTCTTCATCAAC
37715598 AAAGTAACGTAGAG
66 AAAGTAACGTAGAG
* * * * *
37715612 GGTTATAAATTAGAATTAGTAACAATCAGTCTAACATGTTCAGATATCGTATATTCCTCATCAAC
1 GGTTATAAATCAGAATAAGTAATAATCAGTCTAACATGTTCAGATATCGCATATTCTTCATCAAC
37715677 AAAGTAACGTAGAG
66 AAAGTAACGTAGAG
* * ** * * *
37715691 GGTTATAAATCAGAATAAATAATAATCAATCTAACATAATCATATATCACATATTCTTTATCAAC
1 GGTTATAAATCAGAATAAGTAATAATCAGTCTAACATGTTCAGATATCGCATATTCTTCATCAAC
*
37715756 AGAGTAAC
66 AAAGTAAC
37715764 ATAAAGGCAT
Statistics
Matches: 134, Mismatches: 18, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
79 134 1.00
ACGTcount: A:0.42, C:0.16, G:0.13, T:0.30
Consensus pattern (79 bp):
GGTTATAAATCAGAATAAGTAATAATCAGTCTAACATGTTCAGATATCGCATATTCTTCATCAAC
AAAGTAACGTAGAG
Found at i:37717512 original size:22 final size:22
Alignment explanation
Indices: 37717477--37717518 Score: 57
Period size: 22 Copynumber: 1.9 Consensus size: 22
37717467 TTTATATGAA
** *
37717477 ATATGATATGCTCTGTTATGGG
1 ATATGATAACCTCTGATATGGG
37717499 ATATGATAACCTCTGATATG
1 ATATGATAACCTCTGATATG
37717519 TTATAGGATA
Statistics
Matches: 17, Mismatches: 3, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
22 17 1.00
ACGTcount: A:0.29, C:0.12, G:0.21, T:0.38
Consensus pattern (22 bp):
ATATGATAACCTCTGATATGGG
Found at i:37722294 original size:3 final size:3
Alignment explanation
Indices: 37722288--37722313 Score: 52
Period size: 3 Copynumber: 8.7 Consensus size: 3
37722278 ATGATGATGA
37722288 TGG TGG TGG TGG TGG TGG TGG TGG TG
1 TGG TGG TGG TGG TGG TGG TGG TGG TG
37722314 ACAAGGTCAA
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 23 1.00
ACGTcount: A:0.00, C:0.00, G:0.65, T:0.35
Consensus pattern (3 bp):
TGG
Found at i:37723730 original size:19 final size:20
Alignment explanation
Indices: 37723699--37723736 Score: 69
Period size: 19 Copynumber: 1.9 Consensus size: 20
37723689 GGTCGTGTGG
37723699 CTACCCACACACCCGTACGA
1 CTACCCACACACCCGTACGA
37723719 CTACCC-CACACCCGTACG
1 CTACCCACACACCCGTACG
37723737 GTTACTCCAT
Statistics
Matches: 18, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
19 12 0.67
20 6 0.33
ACGTcount: A:0.26, C:0.53, G:0.11, T:0.11
Consensus pattern (20 bp):
CTACCCACACACCCGTACGA
Found at i:37726660 original size:50 final size:50
Alignment explanation
Indices: 37726500--37726822 Score: 267
Period size: 50 Copynumber: 6.7 Consensus size: 50
37726490 TGACATGTGT
* * * *
37726500 GCTAATGTAAGA-CATGTCTGGGACAT-GAATCGGCCAC-A-TTATGAGA
1 GCTAGTGTAAGACCATGTCTGGGACATGGCATCGGCCCCGAGATATGAGA
* *** *
37726546 G-TCAGTGTAAGACCATGTCTGGAACATGGCATCGGCATTGAG--ACGAGA
1 GCT-AGTGTAAGACCATGTCTGGGACATGGCATCGGCCCCGAGATATGAGA
* * *
37726594 GCTAGTGTAAGGCCATGTTTGGGACATGGCATCGGCCCCGAGATATGAAA
1 GCTAGTGTAAGACCATGTCTGGGACATGGCATCGGCCCCGAGATATGAGA
* ** *
37726644 GCTAGTGTAAGACCATGTCTGGGGCATGGCATCGG---CTTGATATGTG-
1 GCTAGTGTAAGACCATGTCTGGGACATGGCATCGGCCCCGAGATATGAGA
* * * * * *
37726690 TC-AGTGTAAGACCCTGTCTGGGACATGGCATCAGCACCGACAGATGTA-A
1 GCTAGTGTAAGACCATGTCTGGGACATGGCATCGGCCCCGAGATATG-AGA
* * * * *
37726739 GCCAGTGTAAGACCATGTTTGGGACATGGCTTCGGCCTCGATATATGAGA
1 GCTAGTGTAAGACCATGTCTGGGACATGGCATCGGCCCCGAGATATGAGA
* * *
37726789 GTTAGTGTAAGAGCATGTTTGGGACATGGCATCG
1 GCTAGTGTAAGACCATGTCTGGGACATGGCATCG
37726823 ACTTTGATGT
Statistics
Matches: 218, Mismatches: 44, Indels: 26
0.76 0.15 0.09
Matches are distributed among these distances:
45 30 0.14
46 10 0.05
47 20 0.09
48 51 0.23
49 4 0.02
50 103 0.47
ACGTcount: A:0.26, C:0.19, G:0.31, T:0.24
Consensus pattern (50 bp):
GCTAGTGTAAGACCATGTCTGGGACATGGCATCGGCCCCGAGATATGAGA
Found at i:37726750 original size:95 final size:98
Alignment explanation
Indices: 37726548--37726821 Score: 293
Period size: 95 Copynumber: 2.8 Consensus size: 98
37726538 TTATGAGAGT
* * *
37726548 CAGTGTAAGACCATGTCTGGAACATGGCATCGGCATTGAGACGAGAGCTAGTGTAAGGCCATGTT
1 CAGTGTAAGACCATGTCTGGGACATGGCATCGGCATTGAGACGAGAGCTAGTGTAAGACCATGTC
* * * *
37726613 TGGGACATGGCATCGGCCCCGAGATATGAAAGC
66 TGGGACATGGCATCAGCACCGACAGATGAAAGC
* * * * * * *
37726646 TAGTGTAAGACCATGTCTGGGGCATGGCATCGGC-TTGATATGTG-TC-AGTGTAAGACCCTGTC
1 CAGTGTAAGACCATGTCTGGGACATGGCATCGGCATTGAGACGAGAGCTAGTGTAAGACCATGTC
*
37726708 TGGGACATGGCATCAGCACCGACAGATGTAAGC
66 TGGGACATGGCATCAGCACCGACAGATGAAAGC
* * * * * * * *
37726741 CAGTGTAAGACCATGTTTGGGACATGGCTTCGGCCTCGATATATGAGAGTTAGTGTAAGAGCATG
1 CAGTGTAAGACCATGTCTGGGACATGGCATCGGCATTG--AGACGAGAGCTAGTGTAAGACCATG
*
37726806 TTTGGGACATGGCATC
64 TCTGGGACATGGCATC
37726822 GACTTTGATG
Statistics
Matches: 145, Mismatches: 26, Indels: 8
0.81 0.15 0.04
Matches are distributed among these distances:
95 71 0.49
96 3 0.02
97 7 0.05
98 37 0.26
100 27 0.19
ACGTcount: A:0.26, C:0.19, G:0.31, T:0.24
Consensus pattern (98 bp):
CAGTGTAAGACCATGTCTGGGACATGGCATCGGCATTGAGACGAGAGCTAGTGTAAGACCATGTC
TGGGACATGGCATCAGCACCGACAGATGAAAGC
Found at i:37726775 original size:145 final size:145
Alignment explanation
Indices: 37726545--37726871 Score: 399
Period size: 145 Copynumber: 2.2 Consensus size: 145
37726535 ACATTATGAG
* * ** * *
37726545 AGTCAGTGTAAGACCATGTCTGGAACATGGCATCGGCATTGAGACGAGAGCTAGTGTAAGGCCAT
1 AGTCAGTGTAAGACCATGTCTGGGACATGGCATCAGCACCGAGACGAGAGCCAGTGTAAGACCAT
*
37726610 GTTTGGGACATGGCATCGGCCCCGAGATATGAAAGCTAGTGTAAGACCATGTCTGGGGCATGGCA
66 GTTTGGGACATGGCATCGGCCCCGAGATATGAAAGCTAGTGTAAGACCATGTCTGGGACATGGCA
*
37726675 TCGGC-TTGATATGT
131 TCGACTTTGATATGT
* *
37726689 -GTCAGTGTAAGACCCTGTCTGGGACATGGCATCAGCACCGACA-GATGTAAGCCAGTGTAAGAC
1 AGTCAGTGTAAGACCATGTCTGGGACATGGCATCAGCACCGAGACGA-G--AGCCAGTGTAAGAC
* * * * * * *
37726752 CATGTTTGGGACATGGCTTCGGCCTCGATATATGAGAGTTAGTGTAAGAGCATGTTTGGGACATG
63 CATGTTTGGGACATGGCATCGGCCCCGAGATATGAAAGCTAGTGTAAGACCATGTCTGGGACATG
*
37726817 GCATCGACTTTGATGTGT
128 GCATCGACTTTGATATGT
* * * *
37726835 GAGCCAATGTAAGACCATGCCTGGGACATGGCGTCAG
1 -AGTCAGTGTAAGACCATGTCTGGGACATGGCATCAG
37726872 TATCTTACCC
Statistics
Matches: 154, Mismatches: 23, Indels: 8
0.83 0.12 0.04
Matches are distributed among these distances:
142 2 0.01
143 38 0.25
145 76 0.49
146 8 0.05
148 30 0.19
ACGTcount: A:0.25, C:0.19, G:0.31, T:0.24
Consensus pattern (145 bp):
AGTCAGTGTAAGACCATGTCTGGGACATGGCATCAGCACCGAGACGAGAGCCAGTGTAAGACCAT
GTTTGGGACATGGCATCGGCCCCGAGATATGAAAGCTAGTGTAAGACCATGTCTGGGACATGGCA
TCGACTTTGATATGT
Found at i:37738479 original size:12 final size:12
Alignment explanation
Indices: 37738462--37738486 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
37738452 CTTGAGTTAC
37738462 AAGTCATTTGCT
1 AAGTCATTTGCT
37738474 AAGTCATTTGCT
1 AAGTCATTTGCT
37738486 A
1 A
37738487 CCCTTATTCA
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 13 1.00
ACGTcount: A:0.28, C:0.16, G:0.16, T:0.40
Consensus pattern (12 bp):
AAGTCATTTGCT
Found at i:37739923 original size:42 final size:42
Alignment explanation
Indices: 37739810--37739929 Score: 143
Period size: 43 Copynumber: 2.8 Consensus size: 42
37739800 AGTATCGTAC
** *
37739810 CAATGCCATATCGTAGATATGGTCTTACATATAATCTCATAT
1 CAATGCCATATCCCAGATATGGTCTTACACATAATCTCATAT
* * *
37739852 CGATGCCAATAACCCAGCTATGGTCTTACACA-AAGTCTCATAT
1 CAATGCC-ATATCCCAGATATGGTCTTACACATAA-TCTCATAT
* *
37739895 CAATGCCATATCCCAGGTATGGTCTTACACGTAAT
1 CAATGCCATATCCCAGATATGGTCTTACACATAAT
37739930 ATTAGTAACC
Statistics
Matches: 65, Mismatches: 10, Indels: 6
0.80 0.12 0.07
Matches are distributed among these distances:
42 30 0.46
43 35 0.54
ACGTcount: A:0.32, C:0.24, G:0.14, T:0.30
Consensus pattern (42 bp):
CAATGCCATATCCCAGATATGGTCTTACACATAATCTCATAT
Found at i:37748223 original size:30 final size:30
Alignment explanation
Indices: 37748189--37748256 Score: 84
Period size: 31 Copynumber: 2.2 Consensus size: 30
37748179 AATCTGATAA
*
37748189 ATAAAAACTAAATTATTAAA-AATAAAAAAT
1 ATAAAAACTAAATT-TTAAATAACAAAAAAT
* *
37748219 ATAAAAATTAAATTTTAAATTTACAAAAAAT
1 ATAAAAACTAAATTTTAAA-TAACAAAAAAT
37748250 ATAAAAA
1 ATAAAAA
37748257 ATTATAGCAT
Statistics
Matches: 33, Mismatches: 3, Indels: 3
0.85 0.08 0.08
Matches are distributed among these distances:
29 5 0.15
30 13 0.39
31 15 0.45
ACGTcount: A:0.68, C:0.03, G:0.00, T:0.29
Consensus pattern (30 bp):
ATAAAAACTAAATTTTAAATAACAAAAAAT
Found at i:37754840 original size:14 final size:14
Alignment explanation
Indices: 37754821--37754848 Score: 56
Period size: 14 Copynumber: 2.0 Consensus size: 14
37754811 TTGATTTTTA
37754821 TCCTTAGTTTATTT
1 TCCTTAGTTTATTT
37754835 TCCTTAGTTTATTT
1 TCCTTAGTTTATTT
37754849 ATTTTCGTTA
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 14 1.00
ACGTcount: A:0.14, C:0.14, G:0.07, T:0.64
Consensus pattern (14 bp):
TCCTTAGTTTATTT
Found at i:37754851 original size:18 final size:17
Alignment explanation
Indices: 37754828--37754865 Score: 58
Period size: 18 Copynumber: 2.2 Consensus size: 17
37754818 TTATCCTTAG
37754828 TTTATTTTCCTTAGTTTA
1 TTTATTTTCCTTA-TTTA
*
37754846 TTTATTTTCGTTATTTA
1 TTTATTTTCCTTATTTA
37754863 TTT
1 TTT
37754866 TTATCTCAAT
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
17 7 0.37
18 12 0.63
ACGTcount: A:0.16, C:0.08, G:0.05, T:0.71
Consensus pattern (17 bp):
TTTATTTTCCTTATTTA
Found at i:37757929 original size:24 final size:24
Alignment explanation
Indices: 37757893--37758026 Score: 119
Period size: 24 Copynumber: 5.6 Consensus size: 24
37757883 AGGGGTAGGA
* *
37757893 TCTGTAACTGTATCTACATCTATG
1 TCTGTATCAGTATCTACATCTATG
* * *
37757917 TCTGTATCAGTATCTATATATGTG
1 TCTGTATCAGTATCTACATCTATG
* * * *
37757941 TTTGTATCAGTACCTACAACTATA
1 TCTGTATCAGTATCTACATCTATG
* * *
37757965 TTTGTAATCA-TATTTACATCTGTG
1 TCTGT-ATCAGTATCTACATCTATG
* *
37757989 -CTGTATCAGTATCTGCATCTAAG
1 TCTGTATCAGTATCTACATCTATG
37758012 TCTGTATCAGTATCT
1 TCTGTATCAGTATCT
37758027 GCAACTGTAT
Statistics
Matches: 85, Mismatches: 22, Indels: 6
0.75 0.19 0.05
Matches are distributed among these distances:
22 4 0.05
23 13 0.15
24 64 0.75
25 4 0.05
ACGTcount: A:0.26, C:0.18, G:0.13, T:0.43
Consensus pattern (24 bp):
TCTGTATCAGTATCTACATCTATG
Found at i:37758018 original size:71 final size:72
Alignment explanation
Indices: 37757907--37758041 Score: 164
Period size: 71 Copynumber: 1.9 Consensus size: 72
37757897 TAACTGTATC
* ** * *
37757907 TACATCTATGTCTGTATCAGTATCTATATATGTGTTTGTATCAGTACCTACAACTATATTTGTAA
1 TACATCTATGTCTGTATCAGTATCTACATATAAGTCTGTATCAGTACCTACAACTATATCTGTAA
37757972 TCATATT
66 TCATATT
* * * * * *
37757979 TACATCTGTG-CTGTATCAGTATCTGCATCTAAGTCTGTATCAGTATCTGCAACTGTATCTGTA
1 TACATCTATGTCTGTATCAGTATCTACATATAAGTCTGTATCAGTACCTACAACTATATCTGTA
37758042 TCTGAACTGC
Statistics
Matches: 52, Mismatches: 11, Indels: 1
0.81 0.17 0.02
Matches are distributed among these distances:
71 43 0.83
72 9 0.17
ACGTcount: A:0.27, C:0.18, G:0.14, T:0.41
Consensus pattern (72 bp):
TACATCTATGTCTGTATCAGTATCTACATATAAGTCTGTATCAGTACCTACAACTATATCTGTAA
TCATATT
Found at i:37758034 original size:18 final size:17
Alignment explanation
Indices: 37758013--37758050 Score: 58
Period size: 18 Copynumber: 2.2 Consensus size: 17
37758003 GCATCTAAGT
37758013 CTGTATCAGTATCTGCAA
1 CTGTATCAGTATCTG-AA
*
37758031 CTGTATCTGTATCTGAA
1 CTGTATCAGTATCTGAA
37758048 CTG
1 CTG
37758051 CATATGTTGA
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
17 5 0.26
18 14 0.74
ACGTcount: A:0.24, C:0.21, G:0.18, T:0.37
Consensus pattern (17 bp):
CTGTATCAGTATCTGAA
Found at i:37760126 original size:42 final size:42
Alignment explanation
Indices: 37760079--37760170 Score: 132
Period size: 42 Copynumber: 2.2 Consensus size: 42
37760069 TGGCCCATAG
* *
37760079 GCCCATTTCAATATCACATGTAATGTCAATGG-ATGTATGCAA
1 GCCCATTTCAATATCACATGAAAT-ACAATGGAATGTATGCAA
* *
37760121 GCCCATTTCAATATCATATGAAATACCATGGAATGTATGCAA
1 GCCCATTTCAATATCACATGAAATACAATGGAATGTATGCAA
37760163 GCCCATTT
1 GCCCATTT
37760171 GGGGAGACTA
Statistics
Matches: 45, Mismatches: 4, Indels: 2
0.88 0.08 0.04
Matches are distributed among these distances:
41 5 0.11
42 40 0.89
ACGTcount: A:0.34, C:0.21, G:0.15, T:0.30
Consensus pattern (42 bp):
GCCCATTTCAATATCACATGAAATACAATGGAATGTATGCAA
Found at i:37760387 original size:26 final size:26
Alignment explanation
Indices: 37760303--37760438 Score: 190
Period size: 26 Copynumber: 5.3 Consensus size: 26
37760293 CTGGAGGCCT
37760303 AGCCTCTTTT-AAT-AACTGGGGCA-A
1 AGCC-CTTTTCAATAAACTGGGGCATA
**
37760327 AGCCCTTTTCGGTAAACTGGGGCA-A
1 AGCCCTTTTCAATAAACTGGGGCATA
37760352 AGCCCTTTTCAATAAACTGGGGCATA
1 AGCCCTTTTCAATAAACTGGGGCATA
**
37760378 AGCCCTTTTCGGTAAACTGGGGCATA
1 AGCCCTTTTCAATAAACTGGGGCATA
*
37760404 AGCCATTTTCAATAAACTGGGGCATA
1 AGCCCTTTTCAATAAACTGGGGCATA
37760430 AGCCCTTTT
1 AGCCCTTTT
37760439 GCACTTCCTC
Statistics
Matches: 99, Mismatches: 10, Indels: 4
0.88 0.09 0.04
Matches are distributed among these distances:
23 5 0.05
24 5 0.05
25 33 0.33
26 56 0.57
ACGTcount: A:0.27, C:0.23, G:0.22, T:0.28
Consensus pattern (26 bp):
AGCCCTTTTCAATAAACTGGGGCATA
Found at i:37760428 original size:52 final size:51
Alignment explanation
Indices: 37760309--37760438 Score: 221
Period size: 52 Copynumber: 2.6 Consensus size: 51
37760299 GCCTAGCCTC
*
37760309 TTTT-AAT-AACTGGGGCA-AAGCCCTTTTCGGTAAACTGGGGCAAAGCCC
1 TTTTCAATAAACTGGGGCATAAGCCCTTTTCGGTAAACTGGGGCAAAGCCA
37760357 TTTTCAATAAACTGGGGCATAAGCCCTTTTCGGTAAACTGGGGCATAAGCCA
1 TTTTCAATAAACTGGGGCATAAGCCCTTTTCGGTAAACTGGGGCA-AAGCCA
37760409 TTTTCAATAAACTGGGGCATAAGCCCTTTT
1 TTTTCAATAAACTGGGGCATAAGCCCTTTT
37760439 GCACTTCCTC
Statistics
Matches: 77, Mismatches: 1, Indels: 4
0.94 0.01 0.05
Matches are distributed among these distances:
48 4 0.05
49 3 0.04
50 10 0.13
51 25 0.32
52 35 0.45
ACGTcount: A:0.28, C:0.22, G:0.22, T:0.28
Consensus pattern (51 bp):
TTTTCAATAAACTGGGGCATAAGCCCTTTTCGGTAAACTGGGGCAAAGCCA
Found at i:37760512 original size:20 final size:20
Alignment explanation
Indices: 37760487--37760554 Score: 75
Period size: 20 Copynumber: 3.4 Consensus size: 20
37760477 TTATGAATAC
37760487 ATCATGTACATTTCATACAT
1 ATCATGTACATTTCATACAT
* **
37760507 ATCATGTGCATTTTGTACAT
1 ATCATGTACATTTCATACAT
* *
37760527 ATCATGTGCATATCATATCA-
1 ATCATGTACATTTCATA-CAT
37760547 ATCATGTA
1 ATCATGTA
37760555 TATCATATCC
Statistics
Matches: 40, Mismatches: 7, Indels: 2
0.82 0.14 0.04
Matches are distributed among these distances:
20 38 0.95
21 2 0.05
ACGTcount: A:0.32, C:0.18, G:0.10, T:0.40
Consensus pattern (20 bp):
ATCATGTACATTTCATACAT
Found at i:37761321 original size:27 final size:27
Alignment explanation
Indices: 37761260--37761324 Score: 78
Period size: 27 Copynumber: 2.4 Consensus size: 27
37761250 GGCGTATTCA
*
37761260 TCATTTTACCATACAAGGGTATTACGG
1 TCATTTTACCTTACAAGGGTATTACGG
* *
37761287 TCACTTTACCTTACAGGGGCT-TTACGG
1 TCATTTTACCTTACAAGGG-TATTACGG
*
37761314 TCTTTTTACCT
1 TCATTTTACCT
37761325 ATTAGGGGTA
Statistics
Matches: 32, Mismatches: 5, Indels: 2
0.82 0.13 0.05
Matches are distributed among these distances:
27 31 0.97
28 1 0.03
ACGTcount: A:0.22, C:0.23, G:0.17, T:0.38
Consensus pattern (27 bp):
TCATTTTACCTTACAAGGGTATTACGG
Found at i:37761384 original size:27 final size:27
Alignment explanation
Indices: 37761354--37761534 Score: 172
Period size: 27 Copynumber: 6.7 Consensus size: 27
37761344 TTTCATCCTA
* * *
37761354 CAAGGGTGTTTTGGTAAATCTACAAAT
1 CAAGGGTATTTTGGTAATTTTACAAAT
**
37761381 CAAGGGTATTTCT-GTAATTTTGTAAAT
1 CAAGGGTATTT-TGGTAATTTTACAAAT
37761408 CAAGGGTATTTTGGTAATTTTACAAAT
1 CAAGGGTATTTTGGTAATTTTACAAAT
** *
37761435 TGAGGGTATTTCGGTAATTTTACAAA-
1 CAAGGGTATTTTGGTAATTTTACAAAT
* *
37761461 CCAGTGGTATTTTGGTAATTTTACTAA-
1 CAAG-GGTATTTTGGTAATTTTACAAAT
* *
37761488 CTAGGGGTGTTTTGGTAATTTTACAAA-
1 C-AAGGGTATTTTGGTAATTTTACAAAT
* *
37761515 CTAGGGGTATTGTGGTAATT
1 C-AAGGGTATTTTGGTAATT
37761535 CTATCCTACA
Statistics
Matches: 130, Mismatches: 20, Indels: 8
0.82 0.13 0.05
Matches are distributed among these distances:
26 3 0.02
27 125 0.96
28 2 0.02
ACGTcount: A:0.29, C:0.08, G:0.23, T:0.40
Consensus pattern (27 bp):
CAAGGGTATTTTGGTAATTTTACAAAT
Found at i:37761553 original size:81 final size:81
Alignment explanation
Indices: 37761411--37761562 Score: 186
Period size: 81 Copynumber: 1.9 Consensus size: 81
37761401 TGTAAATCAA
* * *
37761411 GGGTATTTTGGTAATTTTACAAATTGAGGGTATTTCGGTAATTTTACAAACCAGTGGTATTTTGG
1 GGGTATTTTGGTAATTTTACAAATAGAGGGTATTTCGGTAATTCTACAAACCAGTGGTATTTTAG
37761476 TAATTTTACTAACTAG
66 TAATTTTACTAACTAG
* **
37761492 GGGTGTTTTGGTAATTTTACAAACTAG-GGGTATTGT-GGTAATTCTATCCTA-CAG-GGATATT
1 GGGTATTTTGGTAATTTTACAAA-TAGAGGGTATT-TCGGTAATTCTA-CAAACCAGTGG-TATT
37761553 TTAGTAATTT
62 TTAGTAATTT
37761563 CACAATCGAG
Statistics
Matches: 61, Mismatches: 6, Indels: 8
0.81 0.08 0.11
Matches are distributed among these distances:
80 2 0.03
81 54 0.89
82 5 0.08
ACGTcount: A:0.27, C:0.09, G:0.22, T:0.42
Consensus pattern (81 bp):
GGGTATTTTGGTAATTTTACAAATAGAGGGTATTTCGGTAATTCTACAAACCAGTGGTATTTTAG
TAATTTTACTAACTAG
Found at i:37761560 original size:54 final size:54
Alignment explanation
Indices: 37761411--37761567 Score: 149
Period size: 54 Copynumber: 2.9 Consensus size: 54
37761401 TGTAAATCAA
* * * **
37761411 GGGTATTTTGGTAATTTTACAAATTGAGGG-TATTTCGGTAATTTTACAAACCAG
1 GGGTATTGTGGTAATTTTACTAACT-AGGGATATTTTAGTAATTTTACAAACCAG
* * * * * *
37761465 TGGTATTTTGGTAATTTTACTAACTAGGGGTGTTTTGGTAATTTTACAAACTAG
1 GGGTATTGTGGTAATTTTACTAACTAGGGATATTTTAGTAATTTTACAAACCAG
* *
37761519 GGGTATTGTGGTAATTCTATCCT-AC-AGGGATATTTTAGTAATTTCACAA
1 GGGTATTGTGGTAATT-T-TACTAACTAGGGATATTTTAGTAATTTTACAA
37761568 TCGAGGGTAA
Statistics
Matches: 87, Mismatches: 13, Indels: 6
0.82 0.12 0.06
Matches are distributed among these distances:
53 4 0.05
54 77 0.89
55 3 0.03
56 3 0.03
ACGTcount: A:0.28, C:0.10, G:0.22, T:0.41
Consensus pattern (54 bp):
GGGTATTGTGGTAATTTTACTAACTAGGGATATTTTAGTAATTTTACAAACCAG
Found at i:37761600 original size:27 final size:27
Alignment explanation
Indices: 37761566--37761738 Score: 213
Period size: 27 Copynumber: 6.4 Consensus size: 27
37761556 GTAATTTCAC
37761566 AATCGAGGGTAAAACGGTAATTTTATA
1 AATCGAGGGTAAAACGGTAATTTTATA
* *
37761593 AA-CTGAGGGTAAAATGGTAATTTTGTA
1 AATC-GAGGGTAAAACGGTAATTTTATA
* * *
37761620 AATTGAGGGTAAAACGATAATTTTGTA
1 AATCGAGGGTAAAACGGTAATTTTATA
*
37761647 AATCGAGGGTAAAACGGTAATTTTGTA
1 AATCGAGGGTAAAACGGTAATTTTATA
* *
37761674 AATCGAGGGTGAAACGGTAATTCTATA
1 AATCGAGGGTAAAACGGTAATTTTATA
* * * *
37761701 AATCAAGGGTAAAATGGTAATTCTACA
1 AATCGAGGGTAAAACGGTAATTTTATA
*
37761728 AATTGAGGGTA
1 AATCGAGGGTA
37761739 TTTCAGTAAT
Statistics
Matches: 128, Mismatches: 16, Indels: 4
0.86 0.11 0.03
Matches are distributed among these distances:
26 1 0.01
27 127 0.99
ACGTcount: A:0.39, C:0.07, G:0.24, T:0.29
Consensus pattern (27 bp):
AATCGAGGGTAAAACGGTAATTTTATA
Found at i:37766578 original size:12 final size:12
Alignment explanation
Indices: 37766561--37766596 Score: 63
Period size: 12 Copynumber: 3.0 Consensus size: 12
37766551 TAGGTTTCCC
37766561 AAAATGGAAATG
1 AAAATGGAAATG
*
37766573 AAAATGAAAATG
1 AAAATGGAAATG
37766585 AAAATGGAAATG
1 AAAATGGAAATG
37766597 GAATCTTGCA
Statistics
Matches: 22, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
12 22 1.00
ACGTcount: A:0.61, C:0.00, G:0.22, T:0.17
Consensus pattern (12 bp):
AAAATGGAAATG
Found at i:37766599 original size:6 final size:6
Alignment explanation
Indices: 37766561--37766596 Score: 54
Period size: 6 Copynumber: 6.0 Consensus size: 6
37766551 TAGGTTTCCC
* *
37766561 AAAATG GAAATG AAAATG AAAATG AAAATG GAAATG
1 AAAATG AAAATG AAAATG AAAATG AAAATG AAAATG
37766597 GAATCTTGCA
Statistics
Matches: 27, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
6 27 1.00
ACGTcount: A:0.61, C:0.00, G:0.22, T:0.17
Consensus pattern (6 bp):
AAAATG
Found at i:37766812 original size:25 final size:26
Alignment explanation
Indices: 37766765--37766813 Score: 82
Period size: 25 Copynumber: 1.9 Consensus size: 26
37766755 GGGAATCGTT
*
37766765 AAAATTTTACTATGGGTAAAATTGTC
1 AAAATTTTACTAGGGGTAAAATTGTC
37766791 AAAATTTTACT-GGGGTAAAATTG
1 AAAATTTTACTAGGGGTAAAATTG
37766814 AGGTGAAAAT
Statistics
Matches: 22, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
25 11 0.50
26 11 0.50
ACGTcount: A:0.39, C:0.06, G:0.18, T:0.37
Consensus pattern (26 bp):
AAAATTTTACTAGGGGTAAAATTGTC
Found at i:37777825 original size:18 final size:17
Alignment explanation
Indices: 37777782--37777827 Score: 58
Period size: 16 Copynumber: 2.6 Consensus size: 17
37777772 TTTTTAAAGG
37777782 AAAATAAATGAATCTTAA
1 AAAAT-AATGAATCTTAA
*
37777800 AAAA-AATGAGTCTTAA
1 AAAATAATGAATCTTAA
37777816 AAAATTAATGAA
1 AAAA-TAATGAA
37777828 AGAAAAAGAA
Statistics
Matches: 24, Mismatches: 2, Indels: 4
0.80 0.07 0.13
Matches are distributed among these distances:
16 15 0.62
18 9 0.38
ACGTcount: A:0.61, C:0.04, G:0.09, T:0.26
Consensus pattern (17 bp):
AAAATAATGAATCTTAA
Found at i:37779016 original size:35 final size:35
Alignment explanation
Indices: 37778970--37779039 Score: 140
Period size: 35 Copynumber: 2.0 Consensus size: 35
37778960 ACCTGTGCCA
37778970 ACATCAATGATAGTTTTAGCAGTTGCTAAAAAGGG
1 ACATCAATGATAGTTTTAGCAGTTGCTAAAAAGGG
37779005 ACATCAATGATAGTTTTAGCAGTTGCTAAAAAGGG
1 ACATCAATGATAGTTTTAGCAGTTGCTAAAAAGGG
37779040 CCTTCCTAGG
Statistics
Matches: 35, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
35 35 1.00
ACGTcount: A:0.37, C:0.11, G:0.23, T:0.29
Consensus pattern (35 bp):
ACATCAATGATAGTTTTAGCAGTTGCTAAAAAGGG
Found at i:37782860 original size:28 final size:29
Alignment explanation
Indices: 37782822--37783060 Score: 124
Period size: 28 Copynumber: 8.6 Consensus size: 29
37782812 CCCTACTTTC
* *
37782822 CAAAATTTACAATTTTGCCCT-TGTTTTA
1 CAAATTTTACAATTTTGCCCTATATTTTA
* **
37782850 CAAATTTTACAGTTTTGGGACTAT-TTTT-
1 CAAATTTTACAATTTT-GCCCTATATTTTA
* * *
37782878 CAAATTTTAC-ACTTTG-CCTCTGTTTTA
1 CAAATTTTACAATTTTGCCCTATATTTTA
* * *
37782905 CCAATTTTATAGTTTTGCGCCTAT-TTTT-
1 CAAATTTTACAATTTTGC-CCTATATTTTA
* * *
37782933 CAAAATTTACAATTTTG-TCTCTATTTTA
1 CAAATTTTACAATTTTGCCCTATATTTTA
* * *
37782961 CAAATTTTACAATTCTCCCCT-TATTTTT
1 CAAATTTTACAATTTTGCCCTATATTTTA
* * * * *
37782989 TAAATTTAATAATTTTACCCCTATTTTTTA
1 CAAATTTTACAATTTT-GCCCTATATTTTA
* * * * *
37783019 GATA-TTT-CAATTTTTCCC-CTATTTTG
1 CAAATTTTACAATTTTGCCCTATATTTTA
37783045 CAAATTTTACAATTTT
1 CAAATTTTACAATTTT
37783061 ACCCAAAAAT
Statistics
Matches: 157, Mismatches: 40, Indels: 28
0.70 0.18 0.12
Matches are distributed among these distances:
25 3 0.02
26 15 0.10
27 21 0.13
28 86 0.55
29 20 0.13
30 12 0.08
ACGTcount: A:0.26, C:0.17, G:0.06, T:0.51
Consensus pattern (29 bp):
CAAATTTTACAATTTTGCCCTATATTTTA
Found at i:37782911 original size:55 final size:56
Alignment explanation
Indices: 37782822--37782971 Score: 196
Period size: 55 Copynumber: 2.7 Consensus size: 56
37782812 CCCTACTTTC
* *
37782822 CAAAATTTACAATTTTGCC-CTTGTTTTACAAATTTTACAGTTTTGGGACTATTTTT
1 CAAAATTTACAACTTTGCCTC-TGTTTTACAAATTTTACAGTTTTGCGACTATTTTT
* * * *
37782878 CAAATTTTAC-ACTTTGCCTCTGTTTTACCAATTTTATAGTTTTGCGCCTATTTTT
1 CAAAATTTACAACTTTGCCTCTGTTTTACAAATTTTACAGTTTTGCGACTATTTTT
* * *
37782933 CAAAATTTACAATTTTGTCTCTATTTTACAAATTTTACA
1 CAAAATTTACAACTTTGCCTCTGTTTTACAAATTTTACA
37782972 ATTCTCCCCT
Statistics
Matches: 80, Mismatches: 12, Indels: 4
0.83 0.12 0.04
Matches are distributed among these distances:
55 47 0.59
56 33 0.41
ACGTcount: A:0.27, C:0.17, G:0.08, T:0.49
Consensus pattern (56 bp):
CAAAATTTACAACTTTGCCTCTGTTTTACAAATTTTACAGTTTTGCGACTATTTTT
Found at i:37784224 original size:186 final size:186
Alignment explanation
Indices: 37783910--37784286 Score: 745
Period size: 186 Copynumber: 2.0 Consensus size: 186
37783900 TTGAAATCGG
37783910 TAAAATGTAAAGTACTACCCCATCATTTACTAATCTCTTAATGCTTTCAATGGAGATGTGCCCTA
1 TAAAATGTAAAGTACTACCCCATCATTTACTAATCTCTTAATGCTTTCAATGGAGATGTGCCCTA
37783975 TTCTCCGGTGCCATAATATAGAAGAGTCTTCATTTGTAACACAATGTTTAGTACCAATTTGAACA
66 TTCTCCGGTGCCATAATATAGAAGAGTCTTCATTTGTAACACAATGTTTAGTACCAATTTGAACA
*
37784040 TGCATAACATTGTGAGTGACATTATTTTGCAAATTAAGAGAATAAAGACCATTAGA
131 TGCATAACACTGTGAGTGACATTATTTTGCAAATTAAGAGAATAAAGACCATTAGA
37784096 TAAAATGTAAAGTACTACCCCATCATTTACTAATCTCTTAATGCTTTCAATGGAGATGTGCCCTA
1 TAAAATGTAAAGTACTACCCCATCATTTACTAATCTCTTAATGCTTTCAATGGAGATGTGCCCTA
37784161 TTCTCCGGTGCCATAATATAGAAGAGTCTTCATTTGTAACACAATGTTTAGTACCAATTTGAACA
66 TTCTCCGGTGCCATAATATAGAAGAGTCTTCATTTGTAACACAATGTTTAGTACCAATTTGAACA
37784226 TGCATAACACTGTGAGTGACATTATTTTGCAAATTAAGAGAATAAAGACCATTAGA
131 TGCATAACACTGTGAGTGACATTATTTTGCAAATTAAGAGAATAAAGACCATTAGA
37784282 TAAAA
1 TAAAA
37784287 CACCATTTCC
Statistics
Matches: 190, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
186 190 1.00
ACGTcount: A:0.36, C:0.17, G:0.15, T:0.32
Consensus pattern (186 bp):
TAAAATGTAAAGTACTACCCCATCATTTACTAATCTCTTAATGCTTTCAATGGAGATGTGCCCTA
TTCTCCGGTGCCATAATATAGAAGAGTCTTCATTTGTAACACAATGTTTAGTACCAATTTGAACA
TGCATAACACTGTGAGTGACATTATTTTGCAAATTAAGAGAATAAAGACCATTAGA
Found at i:37787331 original size:93 final size:93
Alignment explanation
Indices: 37787219--37787390 Score: 317
Period size: 93 Copynumber: 1.8 Consensus size: 93
37787209 GCCCATAAGT
* *
37787219 GAACTCGGACTCAACTCAACGAGCTCGGGCGTTCGCATCCATAAGTGAACTCGGACTCAACTCAA
1 GAACTCGGACTCAACTCAACGAGCTCGGACGCTCGCATCCATAAGTGAACTCGGACTCAACTCAA
37787284 CGAGTTCGGATGCCTAGTTACATCTCAC
66 CGAGTTCGGATGCCTAGTTACATCTCAC
*
37787312 GAACTCGGACTCAACTCAACGAGTTCGGACGCTCGCATCCATAAGTGAACTCGGACTCAACTCAA
1 GAACTCGGACTCAACTCAACGAGCTCGGACGCTCGCATCCATAAGTGAACTCGGACTCAACTCAA
37787377 CGAGTTCGGATGCC
66 CGAGTTCGGATGCC
37787391 CAAATATCCA
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:0.27, C:0.30, G:0.22, T:0.20
Consensus pattern (93 bp):
GAACTCGGACTCAACTCAACGAGCTCGGACGCTCGCATCCATAAGTGAACTCGGACTCAACTCAA
CGAGTTCGGATGCCTAGTTACATCTCAC
Found at i:37787386 original size:46 final size:46
Alignment explanation
Indices: 37787211--37787386 Score: 232
Period size: 46 Copynumber: 3.8 Consensus size: 46
37787201 TGTAACCCGC
* * *
37787211 CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGGGCGTTCGCAT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGACGCTCGCAT
* *
37787257 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGATGCCTAGTTACAT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGACG-CTCG---CAT
* *
37787307 -C-TCA-CGAACTCGGACTCAACTCAACGAGTTCGGACGCTCGCAT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGACGCTCGCAT
37787350 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGA
1 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGA
37787387 TGCCCAAATA
Statistics
Matches: 112, Mismatches: 11, Indels: 14
0.82 0.08 0.10
Matches are distributed among these distances:
43 3 0.03
44 1 0.01
45 2 0.02
46 68 0.61
47 32 0.29
48 2 0.02
49 1 0.01
50 3 0.03
ACGTcount: A:0.28, C:0.30, G:0.22, T:0.20
Consensus pattern (46 bp):
CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGACGCTCGCAT
Found at i:37789794 original size:29 final size:29
Alignment explanation
Indices: 37789755--37789842 Score: 97
Period size: 29 Copynumber: 3.0 Consensus size: 29
37789745 CAAAGATAAC
*
37789755 AAGAAAACCGAATAAAGAAATCCAAGATA
1 AAGAAACCCGAATAAAGAAATCCAAGATA
*
37789784 GAGAAACCCGAATAAAGAAATCC-AGAATA
1 AAGAAACCCGAATAAAGAAATCCAAG-ATA
* * * *
37789813 AAGAGATCCAGGATAAAGAAACCCAAGATA
1 AAGA-AACCCGAATAAAGAAATCCAAGATA
37789843 CGATACTATG
Statistics
Matches: 49, Mismatches: 7, Indels: 5
0.80 0.11 0.08
Matches are distributed among these distances:
28 2 0.04
29 27 0.55
30 18 0.37
31 2 0.04
ACGTcount: A:0.57, C:0.16, G:0.17, T:0.10
Consensus pattern (29 bp):
AAGAAACCCGAATAAAGAAATCCAAGATA
Found at i:37789813 original size:15 final size:15
Alignment explanation
Indices: 37789755--37789833 Score: 83
Period size: 15 Copynumber: 5.4 Consensus size: 15
37789745 CAAAGATAAC
*
37789755 AAGAAAACC-GAATA
1 AAGAAATCCAGAATA
37789769 AAGAAATCCA-AGATA
1 AAGAAATCCAGA-ATA
* *
37789784 GAGAAA-CCCGAATA
1 AAGAAATCCAGAATA
37789798 AAGAAATCCAGAATA
1 AAGAAATCCAGAATA
* *
37789813 AAGAGATCCAGGATA
1 AAGAAATCCAGAATA
37789828 AAGAAA
1 AAGAAA
37789834 CCCAAGATAC
Statistics
Matches: 53, Mismatches: 8, Indels: 7
0.78 0.12 0.10
Matches are distributed among these distances:
14 19 0.36
15 34 0.64
ACGTcount: A:0.58, C:0.14, G:0.18, T:0.10
Consensus pattern (15 bp):
AAGAAATCCAGAATA
Found at i:37789842 original size:15 final size:15
Alignment explanation
Indices: 37789766--37789842 Score: 77
Period size: 15 Copynumber: 5.2 Consensus size: 15
37789756 AGAAAACCGA
37789766 ATAAAGAAATCCAAG
1 ATAAAGAAATCCAAG
* * *
37789781 ATAGAGAAACCCGA-
1 ATAAAGAAATCCAAG
37789795 ATAAAGAAATCC-AG
1 ATAAAGAAATCCAAG
* *
37789809 AATAAAGAGATCCAGG
1 -ATAAAGAAATCCAAG
*
37789825 ATAAAGAAACCCAAG
1 ATAAAGAAATCCAAG
37789840 ATA
1 ATA
37789843 CGATACTATG
Statistics
Matches: 49, Mismatches: 10, Indels: 6
0.75 0.15 0.09
Matches are distributed among these distances:
13 1 0.02
14 10 0.20
15 37 0.76
16 1 0.02
ACGTcount: A:0.56, C:0.16, G:0.17, T:0.12
Consensus pattern (15 bp):
ATAAAGAAATCCAAG
Found at i:37792903 original size:93 final size:93
Alignment explanation
Indices: 37792791--37792962 Score: 308
Period size: 93 Copynumber: 1.8 Consensus size: 93
37792781 GCCCATAAGT
* *
37792791 GAACTCGGACTCAACTCAACGAGCTCGGGCGTTCGCATCCATAAGTGAACTCGGACTCAACTCAA
1 GAACTCGGACTCAACTCAACGAGCTCGGACGCTCGCATCCATAAGTGAACTCGGACTCAACTCAA
37792856 CGAGTTCGGATGCCTAGTTACATCTCAC
66 CGAGTTCGGATGCCTAGTTACATCTCAC
* *
37792884 GAACTCGGACTCAACTCAACGAGTTCGGACGCTCGCATCCATAAGTGAACTCGGACTCAACTTAA
1 GAACTCGGACTCAACTCAACGAGCTCGGACGCTCGCATCCATAAGTGAACTCGGACTCAACTCAA
37792949 CGAGTTCGGATGCC
66 CGAGTTCGGATGCC
37792963 CAAATATCCA
Statistics
Matches: 75, Mismatches: 4, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
93 75 1.00
ACGTcount: A:0.27, C:0.30, G:0.22, T:0.21
Consensus pattern (93 bp):
GAACTCGGACTCAACTCAACGAGCTCGGACGCTCGCATCCATAAGTGAACTCGGACTCAACTCAA
CGAGTTCGGATGCCTAGTTACATCTCAC
Found at i:37792958 original size:46 final size:46
Alignment explanation
Indices: 37792783--37792958 Score: 223
Period size: 46 Copynumber: 3.8 Consensus size: 46
37792773 TGTAACCCGC
* * *
37792783 CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGGGCGTTCGCAT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGACGCTCGCAT
* *
37792829 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGATGCCTAGTTACAT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGACG-CTCG---CAT
* *
37792879 -C-TCA-CGAACTCGGACTCAACTCAACGAGTTCGGACGCTCGCAT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGACGCTCGCAT
*
37792922 CCATAAGTGAACTCGGACTCAACTTAACGAGTTCGGA
1 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGA
37792959 TGCCCAAATA
Statistics
Matches: 111, Mismatches: 12, Indels: 14
0.81 0.09 0.10
Matches are distributed among these distances:
43 3 0.03
44 1 0.01
45 2 0.02
46 67 0.60
47 32 0.29
48 2 0.02
49 1 0.01
50 3 0.03
ACGTcount: A:0.28, C:0.29, G:0.22, T:0.21
Consensus pattern (46 bp):
CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGACGCTCGCAT
Found at i:37804286 original size:37 final size:37
Alignment explanation
Indices: 37804236--37804310 Score: 150
Period size: 37 Copynumber: 2.0 Consensus size: 37
37804226 GTCTGTTGAC
37804236 TTAGTTAACTAGTTTACTATTACCCAAAATGAATATT
1 TTAGTTAACTAGTTTACTATTACCCAAAATGAATATT
37804273 TTAGTTAACTAGTTTACTATTACCCAAAATGAATATT
1 TTAGTTAACTAGTTTACTATTACCCAAAATGAATATT
37804310 T
1 T
37804311 CTTAGTTGGT
Statistics
Matches: 38, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
37 38 1.00
ACGTcount: A:0.37, C:0.13, G:0.08, T:0.41
Consensus pattern (37 bp):
TTAGTTAACTAGTTTACTATTACCCAAAATGAATATT
Found at i:37810839 original size:20 final size:20
Alignment explanation
Indices: 37810798--37810844 Score: 60
Period size: 20 Copynumber: 2.4 Consensus size: 20
37810788 CGGCAATGTT
*
37810798 TAAGTTGTGAAAGACTATGG
1 TAAGTTGTGAAAGACTAAGG
*
37810818 TATGTTGTGAAAGA-TCAAGG
1 TAAGTTGTGAAAGACT-AAGG
37810838 TAAGTTG
1 TAAGTTG
37810845 CAAGTTGGTA
Statistics
Matches: 23, Mismatches: 3, Indels: 2
0.82 0.11 0.07
Matches are distributed among these distances:
19 1 0.04
20 22 0.96
ACGTcount: A:0.34, C:0.04, G:0.30, T:0.32
Consensus pattern (20 bp):
TAAGTTGTGAAAGACTAAGG
Found at i:37811335 original size:2 final size:2
Alignment explanation
Indices: 37811328--37811358 Score: 62
Period size: 2 Copynumber: 15.5 Consensus size: 2
37811318 ATTGGTTAGG
37811328 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
37811359 GCAATGATGA
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 29 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Found at i:37815407 original size:16 final size:15
Alignment explanation
Indices: 37815381--37815412 Score: 55
Period size: 16 Copynumber: 2.1 Consensus size: 15
37815371 ACTAGATCGG
37815381 CAAAAGCTGAAAAGC
1 CAAAAGCTGAAAAGC
37815396 CAAAATGCTGAAAAGC
1 CAAAA-GCTGAAAAGC
37815412 C
1 C
37815413 GGTATTTTGA
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
15 5 0.31
16 11 0.69
ACGTcount: A:0.50, C:0.22, G:0.19, T:0.09
Consensus pattern (15 bp):
CAAAAGCTGAAAAGC
Found at i:37815914 original size:54 final size:53
Alignment explanation
Indices: 37815828--37815938 Score: 159
Period size: 54 Copynumber: 2.1 Consensus size: 53
37815818 AGGAAGCGTC
*
37815828 CTGGTGGCTATGCCACAATTATCTGATATGGTGGCTATGCCACATATATCTGTT
1 CTGGTGGCTATGCCACAATTATCTGATATGGTGACTATGCCACAT-TATCTGTT
* * * * *
37815882 CTGGTGGCTCTGCCACAATTATCTGTTCTGGTGACTCTGTCACATTATCTGTT
1 CTGGTGGCTATGCCACAATTATCTGATATGGTGACTATGCCACATTATCTGTT
37815935 CTGG
1 CTGG
37815939 CAGCCATGCT
Statistics
Matches: 51, Mismatches: 6, Indels: 1
0.88 0.10 0.02
Matches are distributed among these distances:
53 12 0.24
54 39 0.76
ACGTcount: A:0.18, C:0.23, G:0.23, T:0.37
Consensus pattern (53 bp):
CTGGTGGCTATGCCACAATTATCTGATATGGTGACTATGCCACATTATCTGTT
Found at i:37815935 original size:26 final size:26
Alignment explanation
Indices: 37815828--37815938 Score: 141
Period size: 27 Copynumber: 4.2 Consensus size: 26
37815818 AGGAAGCGTC
* *
37815828 CTGGTGGCTATGCCACAATTATCTGAT
1 CTGGTGGCTCTGCCAC-ATTATCTGTT
* *
37815855 ATGGTGGCTATGCCACATATATCTGTT
1 CTGGTGGCTCTGCCACAT-TATCTGTT
37815882 CTGGTGGCTCTGCCACAATTATCTGTT
1 CTGGTGGCTCTGCCAC-ATTATCTGTT
* *
37815909 CTGGTGACTCTGTCACATTATCTGTT
1 CTGGTGGCTCTGCCACATTATCTGTT
37815935 CTGG
1 CTGG
37815939 CAGCCATGCT
Statistics
Matches: 76, Mismatches: 6, Indels: 5
0.87 0.07 0.06
Matches are distributed among these distances:
26 16 0.21
27 58 0.76
28 2 0.03
ACGTcount: A:0.18, C:0.23, G:0.23, T:0.37
Consensus pattern (26 bp):
CTGGTGGCTCTGCCACATTATCTGTT
Found at i:37822259 original size:24 final size:24
Alignment explanation
Indices: 37822232--37822292 Score: 113
Period size: 24 Copynumber: 2.5 Consensus size: 24
37822222 GTAAGGAGGG
37822232 GATAAGGGAGAAGATTTAGGAGCT
1 GATAAGGGAGAAGATTTAGGAGCT
37822256 GATAAGGGAGAAGATTTAGGAGCT
1 GATAAGGGAGAAGATTTAGGAGCT
37822280 GATAAGGGGAGAA
1 GATAA-GGGAGAA
37822293 AATAAAAGAA
Statistics
Matches: 36, Mismatches: 0, Indels: 1
0.97 0.00 0.03
Matches are distributed among these distances:
24 29 0.81
25 7 0.19
ACGTcount: A:0.39, C:0.03, G:0.39, T:0.18
Consensus pattern (24 bp):
GATAAGGGAGAAGATTTAGGAGCT
Found at i:37823778 original size:27 final size:26
Alignment explanation
Indices: 37823740--37823850 Score: 150
Period size: 27 Copynumber: 4.2 Consensus size: 26
37823730 AGGAAGCATC
*
37823740 CTGGTGGCTATGCCACAATTATCTGAT
1 CTGGTGGCTATGCCAC-ATTATCTGTT
37823767 CTGGTGGCTATGCCACATATATCTGTT
1 CTGGTGGCTATGCCACAT-TATCTGTT
*
37823794 CTGGTGGCTCTGCCACAATTATCTGTT
1 CTGGTGGCTATGCCAC-ATTATCTGTT
* * *
37823821 CTGGTGACTCTGTCACATTATCTGTT
1 CTGGTGGCTATGCCACATTATCTGTT
37823847 CTGG
1 CTGG
37823851 CAGCCTTGCT
Statistics
Matches: 78, Mismatches: 4, Indels: 5
0.90 0.05 0.06
Matches are distributed among these distances:
26 16 0.21
27 60 0.77
28 2 0.03
ACGTcount: A:0.17, C:0.23, G:0.23, T:0.37
Consensus pattern (26 bp):
CTGGTGGCTATGCCACATTATCTGTT
Found at i:37823824 original size:54 final size:53
Alignment explanation
Indices: 37823740--37823850 Score: 168
Period size: 54 Copynumber: 2.1 Consensus size: 53
37823730 AGGAAGCATC
*
37823740 CTGGTGGCTATGCCACAATTATCTGATCTGGTGGCTATGCCACATATATCTGTT
1 CTGGTGGCTATGCCACAATTATCTGATCTGGTGACTATGCCACAT-TATCTGTT
* * * *
37823794 CTGGTGGCTCTGCCACAATTATCTGTTCTGGTGACTCTGTCACATTATCTGTT
1 CTGGTGGCTATGCCACAATTATCTGATCTGGTGACTATGCCACATTATCTGTT
37823847 CTGG
1 CTGG
37823851 CAGCCTTGCT
Statistics
Matches: 52, Mismatches: 5, Indels: 1
0.90 0.09 0.02
Matches are distributed among these distances:
53 12 0.23
54 40 0.77
ACGTcount: A:0.17, C:0.23, G:0.23, T:0.37
Consensus pattern (53 bp):
CTGGTGGCTATGCCACAATTATCTGATCTGGTGACTATGCCACATTATCTGTT
Found at i:37825594 original size:29 final size:28
Alignment explanation
Indices: 37825562--37825664 Score: 116
Period size: 29 Copynumber: 3.6 Consensus size: 28
37825552 GTGACGAGAT
* *
37825562 TGGCACTGAGTGTGCGAGCTTGTAATGTA
1 TGGCACTAAGTGTGCGAGCTTG-AATATA
* *
37825591 TGGCACTAAGTGTGCGAGTTTGGACTATA
1 TGGCACTAAGTGTGCGAGCTT-GAATATA
* * *
37825620 TGGCACTATGTGTGCGGGCTTGAATCACA
1 TGGCACTAAGTGTGCGAGCTTGAAT-ATA
37825649 TGGCACTAAGTGTGCG
1 TGGCACTAAGTGTGCG
37825665 TGATTGAGTA
Statistics
Matches: 62, Mismatches: 10, Indels: 4
0.82 0.13 0.05
Matches are distributed among these distances:
28 3 0.05
29 58 0.94
30 1 0.02
ACGTcount: A:0.21, C:0.17, G:0.33, T:0.29
Consensus pattern (28 bp):
TGGCACTAAGTGTGCGAGCTTGAATATA
Found at i:37833015 original size:29 final size:28
Alignment explanation
Indices: 37832983--37833085 Score: 116
Period size: 29 Copynumber: 3.6 Consensus size: 28
37832973 GTGACGAGAT
* *
37832983 TGGCACTGAGTGTGCGAGCTTGTAATGTA
1 TGGCACTAAGTGTGCGAGCTTG-AATATA
* *
37833012 TGGCACTAAGTGTGCGAGTTTGGACTATA
1 TGGCACTAAGTGTGCGAGCTT-GAATATA
* * *
37833041 TGGCACTATGTGTGCGGGCTTGAATCACA
1 TGGCACTAAGTGTGCGAGCTTGAAT-ATA
37833070 TGGCACTAAGTGTGCG
1 TGGCACTAAGTGTGCG
37833086 TGATTGAGTA
Statistics
Matches: 62, Mismatches: 10, Indels: 4
0.82 0.13 0.05
Matches are distributed among these distances:
28 3 0.05
29 58 0.94
30 1 0.02
ACGTcount: A:0.21, C:0.17, G:0.33, T:0.29
Consensus pattern (28 bp):
TGGCACTAAGTGTGCGAGCTTGAATATA
Found at i:37836409 original size:27 final size:26
Alignment explanation
Indices: 37836371--37836481 Score: 150
Period size: 27 Copynumber: 4.2 Consensus size: 26
37836361 AGGAAGCGTC
*
37836371 CTGGTGGCTATGCCACAATTATCTGAT
1 CTGGTGGCTATGCCAC-ATTATCTGTT
37836398 CTGGTGGCTATGCCACATATATCTGTT
1 CTGGTGGCTATGCCACAT-TATCTGTT
*
37836425 CTGGTGGCTCTGCCACAATTATCTGTT
1 CTGGTGGCTATGCCAC-ATTATCTGTT
* * *
37836452 CTGGTGACTCTGTCACATTATCTGTT
1 CTGGTGGCTATGCCACATTATCTGTT
37836478 CTGG
1 CTGG
37836482 CAGCCATGCT
Statistics
Matches: 78, Mismatches: 4, Indels: 5
0.90 0.05 0.06
Matches are distributed among these distances:
26 16 0.21
27 60 0.77
28 2 0.03
ACGTcount: A:0.17, C:0.23, G:0.23, T:0.37
Consensus pattern (26 bp):
CTGGTGGCTATGCCACATTATCTGTT
Found at i:37836455 original size:54 final size:53
Alignment explanation
Indices: 37836371--37836481 Score: 168
Period size: 54 Copynumber: 2.1 Consensus size: 53
37836361 AGGAAGCGTC
*
37836371 CTGGTGGCTATGCCACAATTATCTGATCTGGTGGCTATGCCACATATATCTGTT
1 CTGGTGGCTATGCCACAATTATCTGATCTGGTGACTATGCCACAT-TATCTGTT
* * * *
37836425 CTGGTGGCTCTGCCACAATTATCTGTTCTGGTGACTCTGTCACATTATCTGTT
1 CTGGTGGCTATGCCACAATTATCTGATCTGGTGACTATGCCACATTATCTGTT
37836478 CTGG
1 CTGG
37836482 CAGCCATGCT
Statistics
Matches: 52, Mismatches: 5, Indels: 1
0.90 0.09 0.02
Matches are distributed among these distances:
53 12 0.23
54 40 0.77
ACGTcount: A:0.17, C:0.23, G:0.23, T:0.37
Consensus pattern (53 bp):
CTGGTGGCTATGCCACAATTATCTGATCTGGTGACTATGCCACATTATCTGTT
Found at i:37839098 original size:40 final size:40
Alignment explanation
Indices: 37839032--37839198 Score: 160
Period size: 40 Copynumber: 4.2 Consensus size: 40
37839022 AAATTGAATG
* * *
37839032 ATATCCGGGCTAAG-CCCGAAGACAATTATGCTGGAAATT
1 ATATCCGGGCTAAGACCCGAAGGCAATTGTGCTGGTAATT
* * ***
37839071 ATATCCGGGTTAAGACCCGAAGGCAATTGTGCTAGTGGCT
1 ATATCCGGGCTAAGACCCGAAGGCAATTGTGCTGGTAATT
* *
37839111 ATATCCGGGCTAAGGCCCGAAGGC-ATTCGTGC-GAGTTATT
1 ATATCCGGGCTAAGACCCGAAGGCAATT-GTGCTG-GTAATT
* * ** *
37839151 CTATCCGGGCTAAGACCCGAAGGCATTTGTGCACGTGATT
1 ATATCCGGGCTAAGACCCGAAGGCAATTGTGCTGGTAATT
37839191 ATATCCGG
1 ATATCCGG
37839199 TTATATTCCG
Statistics
Matches: 103, Mismatches: 20, Indels: 9
0.78 0.15 0.07
Matches are distributed among these distances:
39 16 0.16
40 85 0.83
41 2 0.02
ACGTcount: A:0.26, C:0.22, G:0.28, T:0.25
Consensus pattern (40 bp):
ATATCCGGGCTAAGACCCGAAGGCAATTGTGCTGGTAATT
Found at i:37846395 original size:40 final size:40
Alignment explanation
Indices: 37846267--37846379 Score: 145
Period size: 40 Copynumber: 2.8 Consensus size: 40
37846257 TGCTGGAAAT
* * * * *
37846267 TATATCCGGGTTAAGACCCGAAGGCAATTGTCCTAGTGGC
1 TATATCCGGGCTAAGACCCGAAGGCATTTGTGCGAGTGAC
* * *
37846307 TATATCCGGGCTAAGGCCCGAAGGCATTCGTGCGAGTTAC
1 TATATCCGGGCTAAGACCCGAAGGCATTTGTGCGAGTGAC
*
37846347 TCTATCCGGGCTAAGACCCGAAGGCATTTGTGC
1 TATATCCGGGCTAAGACCCGAAGGCATTTGTGC
37846380 ACGTGATTAA
Statistics
Matches: 62, Mismatches: 11, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
40 62 1.00
ACGTcount: A:0.23, C:0.25, G:0.28, T:0.24
Consensus pattern (40 bp):
TATATCCGGGCTAAGACCCGAAGGCATTTGTGCGAGTGAC
Found at i:37861270 original size:12 final size:12
Alignment explanation
Indices: 37861253--37861277 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
37861243 TTTTAAGAAG
37861253 ATTTAATATTAA
1 ATTTAATATTAA
37861265 ATTTAATATTAA
1 ATTTAATATTAA
37861277 A
1 A
37861278 GTGATTAAGT
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 13 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (12 bp):
ATTTAATATTAA
Found at i:37863677 original size:21 final size:21
Alignment explanation
Indices: 37863631--37863670 Score: 80
Period size: 21 Copynumber: 1.9 Consensus size: 21
37863621 TTTGGGATAT
37863631 ATTTTATTAATTAGGTTTTAC
1 ATTTTATTAATTAGGTTTTAC
37863652 ATTTTATTAATTAGGTTTT
1 ATTTTATTAATTAGGTTTT
37863671 CTTTTTTTTT
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
21 19 1.00
ACGTcount: A:0.28, C:0.03, G:0.10, T:0.60
Consensus pattern (21 bp):
ATTTTATTAATTAGGTTTTAC
Found at i:37864424 original size:11 final size:11
Alignment explanation
Indices: 37864410--37864455 Score: 60
Period size: 11 Copynumber: 4.4 Consensus size: 11
37864400 GTCCTCTCAC
37864410 AATTCTCTCTA
1 AATTCTCTCTA
*
37864421 AATTCTTTCTA
1 AATTCTCTCTA
37864432 AATTCTCTC-A
1 AATTCTCTCTA
*
37864442 AATT-TCTCTC
1 AATTCTCTCTA
37864452 AATT
1 AATT
37864456 TTTGTCAAAG
Statistics
Matches: 31, Mismatches: 3, Indels: 3
0.84 0.08 0.08
Matches are distributed among these distances:
9 4 0.13
10 9 0.29
11 18 0.58
ACGTcount: A:0.28, C:0.24, G:0.00, T:0.48
Consensus pattern (11 bp):
AATTCTCTCTA
Found at i:37864463 original size:21 final size:22
Alignment explanation
Indices: 37864439--37864482 Score: 65
Period size: 22 Copynumber: 2.0 Consensus size: 22
37864429 CTAAATTCTC
37864439 TCAAA-TT-TCTCTCAATTTTTG
1 TCAAAGTTGTCTCT-AATTTTTG
37864460 TCAAAGTTGTCTCTAATTTTTG
1 TCAAAGTTGTCTCTAATTTTTG
37864482 T
1 T
37864483 AAAAAAGCTC
Statistics
Matches: 21, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
21 5 0.24
22 11 0.52
23 5 0.24
ACGTcount: A:0.23, C:0.16, G:0.09, T:0.52
Consensus pattern (22 bp):
TCAAAGTTGTCTCTAATTTTTG
Found at i:37865641 original size:7 final size:7
Alignment explanation
Indices: 37865621--37865670 Score: 82
Period size: 7 Copynumber: 7.0 Consensus size: 7
37865611 CATAATAAAA
37865621 TAGTCATT
1 TAGT-ATT
*
37865629 TCGTATT
1 TAGTATT
37865636 TAGTATT
1 TAGTATT
37865643 TAGTATT
1 TAGTATT
37865650 TAGTATT
1 TAGTATT
37865657 TAGTATT
1 TAGTATT
37865664 TAGTATT
1 TAGTATT
37865671 ACCTATATAA
Statistics
Matches: 40, Mismatches: 2, Indels: 1
0.93 0.05 0.02
Matches are distributed among these distances:
7 37 0.93
8 3 0.08
ACGTcount: A:0.26, C:0.04, G:0.14, T:0.56
Consensus pattern (7 bp):
TAGTATT
Found at i:37866595 original size:22 final size:21
Alignment explanation
Indices: 37866563--37866613 Score: 68
Period size: 21 Copynumber: 2.4 Consensus size: 21
37866553 CCAACACCCA
*
37866563 CAACCA-AATCCCCTGCCGAAG
1 CAACCACAATCCCC-ACCGAAG
*
37866584 GAACCACAATCCCCACCGAAG
1 CAACCACAATCCCCACCGAAG
37866605 CAACCACAA
1 CAACCACAA
37866614 CCCTTGCTAG
Statistics
Matches: 26, Mismatches: 3, Indels: 2
0.84 0.10 0.06
Matches are distributed among these distances:
21 19 0.73
22 7 0.27
ACGTcount: A:0.39, C:0.43, G:0.12, T:0.06
Consensus pattern (21 bp):
CAACCACAATCCCCACCGAAG
Found at i:37866951 original size:150 final size:151
Alignment explanation
Indices: 37866679--37866980 Score: 588
Period size: 150 Copynumber: 2.0 Consensus size: 151
37866669 CATGTGGCAT
37866679 TGATTTCGACCGACACCAACATTGATTTTTTTTAATATATTTGTAGAAACTTTTTTTATATAGTT
1 TGATTTCGACCGACACCAACATTGATTTTTTTTAATATATTTGTAGAAACTTTTTTTATATAGTT
37866744 TCATATAATAAAATAAAAGTTATTTTTAATATTTTAATTGTACGTTACTTTTTTTTTAATTTTAT
66 TCATATAATAAAATAAAAGTTATTTTTAATATTTTAATTGTACGTTACTTTTTTTTTAATTTTAT
37866809 TAAAATAAATGTTCTTTTAAA
131 TAAAATAAATGTTCTTTTAAA
*
37866830 TGATTTCGACCGGCACCAACATTGA-TTTTTTTAATATATTTGTAGAAACTTTTTTTATATAGTT
1 TGATTTCGACCGACACCAACATTGATTTTTTTTAATATATTTGTAGAAACTTTTTTTATATAGTT
37866894 TCATATAATAAAATAAAAGTTATTTTTAATATTTTAATTGTACGTTACTTTTTTTTTAATTTTAT
66 TCATATAATAAAATAAAAGTTATTTTTAATATTTTAATTGTACGTTACTTTTTTTTTAATTTTAT
37866959 TAAAATAAATGTTCTTTTAAA
131 TAAAATAAATGTTCTTTTAAA
37866980 T
1 T
37866981 TAGCATTTTT
Statistics
Matches: 150, Mismatches: 1, Indels: 1
0.99 0.01 0.01
Matches are distributed among these distances:
150 126 0.84
151 24 0.16
ACGTcount: A:0.34, C:0.08, G:0.08, T:0.50
Consensus pattern (151 bp):
TGATTTCGACCGACACCAACATTGATTTTTTTTAATATATTTGTAGAAACTTTTTTTATATAGTT
TCATATAATAAAATAAAAGTTATTTTTAATATTTTAATTGTACGTTACTTTTTTTTTAATTTTAT
TAAAATAAATGTTCTTTTAAA
Found at i:37867188 original size:128 final size:129
Alignment explanation
Indices: 37866881--37867251 Score: 578
Period size: 127 Copynumber: 2.9 Consensus size: 129
37866871 GTAGAAACTT
* * *
37866881 TTTTTATATAG-TTTCATATAATAAAATAAAAGTTATTTTTAATATTTTAATTGTACGTTACTTT
1 TTTTTATATAGTTTTAAT-TAATAAAATAAAAGTTGTTTTTAATATTTTAATTGTACTTTAC-TT
37866945 TTTTTTAATTTTATTAAAATAAATGTTCTTTTAAATTAG-C---ATTTTTATTATTTTTATATTT
64 TTTTTTAATTTTATT-AAATAAATGTTCTTTTAAATTAGCCAATATTTTTATTATTTTTATATTT
37867006 AC
128 AC
* *
37867008 TTTTTATATAGTTTTAATTAATAAAATAAAATTTG-TTTTAATATTTTAATTGTACTTTAC-CTT
1 TTTTTATATAGTTTTAATTAATAAAATAAAAGTTGTTTTTAATATTTTAATTGTACTTTACTTTT
*
37867071 TTTTAATTTTATTGAAATAAATGTTCTTTTAAATTGGCCAATATTTTTATTATTTTTATATTTA-
66 TTTTAATTTTATT-AAATAAATGTTCTTTTAAATTAGCCAATATTTTTATTATTTTTATATTTAC
37867135 TTTTTATATAGTTTTAATTAATAAAATAAAAGTTGTTTTTAATATTTTAATTGTACTTTACTTTT
1 TTTTTATATAGTTTTAATTAATAAAATAAAAGTTGTTTTTAATATTTTAATTGTACTTTACTTTT
*
37867200 TTTTAATTTTAATACAATAAATGTTCTTTTAAATTAGCCAATATTTTTATTA
66 TTTTAATTTTATTA-AATAAATGTTCTTTTAAATTAGCCAATATTTTTATTA
37867252 AAATAAATGT
Statistics
Matches: 225, Mismatches: 11, Indels: 14
0.90 0.04 0.06
Matches are distributed among these distances:
124 37 0.16
125 1 0.00
126 24 0.11
127 60 0.27
128 53 0.24
129 50 0.22
ACGTcount: A:0.34, C:0.05, G:0.05, T:0.56
Consensus pattern (129 bp):
TTTTTATATAGTTTTAATTAATAAAATAAAAGTTGTTTTTAATATTTTAATTGTACTTTACTTTT
TTTTAATTTTATTAAATAAATGTTCTTTTAAATTAGCCAATATTTTTATTATTTTTATATTTAC
Found at i:37867257 original size:38 final size:38
Alignment explanation
Indices: 37867206--37867289 Score: 107
Period size: 38 Copynumber: 2.2 Consensus size: 38
37867196 TTTTTTTTAA
* *
37867206 TTTTAATACAATAAATGTTCTTTTAAATTA-GCCAATAT
1 TTTTAATAAAATAAATGTTATTTTAAA-TACGCCAATAT
* * *
37867244 TTTTATTAAAATAAATGTTATTTTGAATACGGCAATAT
1 TTTTAATAAAATAAATGTTATTTTAAATACGCCAATAT
37867282 TTTTAATA
1 TTTTAATA
37867290 TTTTTATATT
Statistics
Matches: 39, Mismatches: 6, Indels: 2
0.83 0.13 0.04
Matches are distributed among these distances:
37 2 0.05
38 37 0.95
ACGTcount: A:0.39, C:0.07, G:0.07, T:0.46
Consensus pattern (38 bp):
TTTTAATAAAATAAATGTTATTTTAAATACGCCAATAT
Found at i:37867293 original size:8 final size:9
Alignment explanation
Indices: 37867277--37867306 Score: 53
Period size: 9 Copynumber: 3.4 Consensus size: 9
37867267 TGAATACGGC
37867277 AATATTTTT
1 AATATTTTT
37867286 AATATTTTT
1 AATATTTTT
37867295 -ATATTTTT
1 AATATTTTT
37867303 AATA
1 AATA
37867307 AAATATAAAT
Statistics
Matches: 20, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
8 8 0.40
9 12 0.60
ACGTcount: A:0.37, C:0.00, G:0.00, T:0.63
Consensus pattern (9 bp):
AATATTTTT
Found at i:37870579 original size:127 final size:126
Alignment explanation
Indices: 37870322--37870630 Score: 476
Period size: 126 Copynumber: 2.5 Consensus size: 126
37870312 AGTCTAAGGC
* *
37870322 TTTTTTAGATACTACTGTAGCAAAAGGGTGTCCACGTGGGAGCTTTTTTTCCGTAATTTTGCTGA
1 TTTTTTAGATACTACTGTAGCAAAAGAGCGTCCACGTGGGAGCTTTTTTT-CGTAATTTTGCTGA
* *
37870387 TAGTGCATCCTTCTTAAAGAGTTTTTGACACTATTTGTTCAAAAACATCTTTTCAAAATTAT
65 TAATGCATCCTTCTTAAAGAGTTTTTGACACTATTTGTTCAAAAACATCTTCTCAAAATTAT
*
37870449 TTTTTTAGATACTACTGTAGCAAAAGAGCGTCCACGTGGGAGCTTTTTTTCGTAATTTTTCTGAT
1 TTTTTTAGATACTACTGTAGCAAAAGAGCGTCCACGTGGGAGCTTTTTTTCGTAATTTTGCTGAT
* * * *
37870514 AATGCATCCTTCTTGAAGCGTTTTTGACACTATTTGTTCAGAAACATCTTCTCATAATTAT
66 AATGCATCCTTCTTAAAGAGTTTTTGACACTATTTGTTCAAAAACATCTTCTCAAAATTAT
* * * * *
37870575 TTTTTCAAATACTACTGTAGTAAAAGAGCGTCCACATAGGAGC-TTTTTTCGTAATT
1 TTTTTTAGATACTACTGTAGCAAAAGAGCGTCCACGTGGGAGCTTTTTTTCGTAATT
37870631 AACAATTAAT
Statistics
Matches: 168, Mismatches: 14, Indels: 2
0.91 0.08 0.01
Matches are distributed among these distances:
125 13 0.08
126 107 0.64
127 48 0.29
ACGTcount: A:0.27, C:0.17, G:0.16, T:0.40
Consensus pattern (126 bp):
TTTTTTAGATACTACTGTAGCAAAAGAGCGTCCACGTGGGAGCTTTTTTTCGTAATTTTGCTGAT
AATGCATCCTTCTTAAAGAGTTTTTGACACTATTTGTTCAAAAACATCTTCTCAAAATTAT
Found at i:37870815 original size:15 final size:16
Alignment explanation
Indices: 37870795--37870827 Score: 50
Period size: 15 Copynumber: 2.1 Consensus size: 16
37870785 TAAAACAATC
37870795 AAAAACCCT-AACCCT
1 AAAAACCCTAAACCCT
*
37870810 AAAAACCTTAAACCCT
1 AAAAACCCTAAACCCT
37870826 AA
1 AA
37870828 TTTAATTGAT
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
15 8 0.50
16 8 0.50
ACGTcount: A:0.52, C:0.33, G:0.00, T:0.15
Consensus pattern (16 bp):
AAAAACCCTAAACCCT
Found at i:37870926 original size:24 final size:24
Alignment explanation
Indices: 37870899--37870948 Score: 75
Period size: 24 Copynumber: 2.1 Consensus size: 24
37870889 TTAATTTTTC
37870899 CCTTAAAAACACTAAAACC-CTAAA
1 CCTTAAAAAC-CTAAAACCACTAAA
*
37870923 CCTTAAAAACCTTAAACCACTAAA
1 CCTTAAAAACCTAAAACCACTAAA
37870947 CC
1 CC
37870949 CTAACCCTAA
Statistics
Matches: 24, Mismatches: 1, Indels: 2
0.89 0.04 0.07
Matches are distributed among these distances:
23 7 0.29
24 17 0.71
ACGTcount: A:0.50, C:0.32, G:0.00, T:0.18
Consensus pattern (24 bp):
CCTTAAAAACCTAAAACCACTAAA
Found at i:37870950 original size:31 final size:32
Alignment explanation
Indices: 37870899--37870960 Score: 83
Period size: 30 Copynumber: 2.0 Consensus size: 32
37870889 TTAATTTTTC
*
37870899 CCTTAAAAACACTAAAACCCTAAACCTTAAAAA
1 CCTTAAAAACACTAAAACCCT-AACCCTAAAAA
*
37870932 CCTT-AAACCACT-AAACCCTAACCCTAAAA
1 CCTTAAAAACACTAAAACCCTAACCCTAAAA
37870961 TAATCAAAAA
Statistics
Matches: 27, Mismatches: 2, Indels: 3
0.84 0.06 0.09
Matches are distributed among these distances:
30 9 0.33
31 7 0.26
32 7 0.26
33 4 0.15
ACGTcount: A:0.50, C:0.32, G:0.00, T:0.18
Consensus pattern (32 bp):
CCTTAAAAACACTAAAACCCTAACCCTAAAAA
Found at i:37871030 original size:172 final size:174
Alignment explanation
Indices: 37870757--37871160 Score: 681
Period size: 172 Copynumber: 2.3 Consensus size: 174
37870747 AAAAAACACC
* *
37870757 AAAACCCTAAACCACTAAATCCTAACCCTAAAACAATCAAAAACCCTAACCCT-AAAAACCTTAA
1 AAAACCCTAAACCACTAAACCCTAACCCTAAAATAATCAAAAACCCTAACCCTAAAAAACCTTAA
** *
37870821 ACCCTAATTTAATTGATTTTTTTAATTTCATAGTTAATTTAATTAATTAATTCTCAACTCTAATT
66 ACCCTAATTTAATTGATTTTTTTAATTTCATAGTTAATTTAATTAATTAACCCTAAACTCTAATT
37870886 AAATTAA-TTTTTCCCTT-AAAAACACTAAAACCCTAAA-CCTTA
131 AAATTAATTTTTTCCCTTAAAAAACACTAAAACCCTAAAGCC-TA
* * *
37870928 AAAACCTTAAACCACTAAACCCTAACCCTAAAATAATCAAAAACCCTAACCTTAAAAAACTTTAA
1 AAAACCCTAAACCACTAAACCCTAACCCTAAAATAATCAAAAACCCTAACCCTAAAAAACCTTAA
37870993 ACCCTAATTTAATTGATTTTTTTAATTTCATAGTTAATTTAATTAATTAACCCTAAACTCTAATT
66 ACCCTAATTTAATTGATTTTTTTAATTTCATAGTTAATTTAATTAATTAACCCTAAACTCTAATT
37871058 AAATTAATTTTTTCCCTTAAAAAACACTAAAACCCTAAAGCCTA
131 AAATTAATTTTTTCCCTTAAAAAACACTAAAACCCTAAAGCCTA
**
37871102 AAAACCCTAAACCACTAAACTTTAACCCTAAAATAATCAAAAACCCTAACCCTAAAAAA
1 AAAACCCTAAACCACTAAACCCTAACCCTAAAATAATCAAAAACCCTAACCCTAAAAAA
37871161 GGGGCAAAAC
Statistics
Matches: 217, Mismatches: 12, Indels: 5
0.93 0.05 0.02
Matches are distributed among these distances:
171 49 0.23
172 79 0.36
173 10 0.05
174 77 0.35
175 2 0.01
ACGTcount: A:0.45, C:0.23, G:0.01, T:0.30
Consensus pattern (174 bp):
AAAACCCTAAACCACTAAACCCTAACCCTAAAATAATCAAAAACCCTAACCCTAAAAAACCTTAA
ACCCTAATTTAATTGATTTTTTTAATTTCATAGTTAATTTAATTAATTAACCCTAAACTCTAATT
AAATTAATTTTTTCCCTTAAAAAACACTAAAACCCTAAAGCCTA
Found at i:37873175 original size:54 final size:54
Alignment explanation
Indices: 37873074--37873180 Score: 135
Period size: 54 Copynumber: 2.0 Consensus size: 54
37873064 AGGCTGTATA
* * *
37873074 ACTCTCTGACTTGATACATAAGGCCATGTCACAAACCGTGTGCCAAACCATGTG
1 ACTCACTGACTTGATACACAAGGCCATGTCACAAACCGTGTGCCAAACAATGTG
* * **
37873128 ACTCACTGACTTGATACACATGGCCATGTCATAGGCCGTGT-CTCAAACAATGT
1 ACTCACTGACTTGATACACAAGGCCATGTCACAAACCGTGTGC-CAAACAATGT
37873181 ATGGCACACA
Statistics
Matches: 45, Mismatches: 7, Indels: 2
0.83 0.13 0.04
Matches are distributed among these distances:
53 1 0.02
54 44 0.98
ACGTcount: A:0.29, C:0.27, G:0.19, T:0.25
Consensus pattern (54 bp):
ACTCACTGACTTGATACACAAGGCCATGTCACAAACCGTGTGCCAAACAATGTG
Found at i:37876853 original size:13 final size:13
Alignment explanation
Indices: 37876835--37876859 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
37876825 GTAAGTGATT
37876835 TTGATGATTTTTC
1 TTGATGATTTTTC
37876848 TTGATGATTTTT
1 TTGATGATTTTT
37876860 TGCATTTTTA
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.16, C:0.04, G:0.16, T:0.64
Consensus pattern (13 bp):
TTGATGATTTTTC
Found at i:37877680 original size:47 final size:46
Alignment explanation
Indices: 37877564--37877827 Score: 193
Period size: 46 Copynumber: 5.7 Consensus size: 46
37877554 CTATTTGTGT
* * ***
37877564 GCTAGTGTAAGA-CATGTCTAGGACATGCATCGACCACATTG-TGAGA
1 GCTAGTGTAAGACCATGTCTGGGACATGCATCGGCTTGA--GATGAGA
* * *
37877610 GCCAGTGTAAGACCATGTTTGGGACATGGCATCGGCATTGAGACGAGA
1 GCTAGTGTAAGACCATGTCTGGGACAT-GCATCGGC-TTGAGATGAGA
* *
37877658 GCTAGTGTAAGA-CATGTCTGGGACATGCATCAGCCTCGAGATGTA-A
1 GCTAGTGTAAGACCATGTCTGGGACATGCATC-GGCTTGAGATG-AGA
* * ** * *
37877704 GCTAGTGTACGA-CATATCTGGGACATGCATCGGCTACAAAATGTG-
1 GCTAGTGTAAGACCATGTCTGGGACATGCATCGGCT-TGAGATGAGA
* * * *
37877749 TC-AGTGTAAGACCATGTCTGGGACATGGCATTGACTTGATA-GATGA
1 GCTAGTGTAAGACCATGTCTGGGACAT-GCATCGGCTTGAGATGA-GA
*
37877795 GCCAGTGTAAGACCATGTCTGGGACATGGCATC
1 GCTAGTGTAAGACCATGTCTGGGACAT-GCATC
37877828 AACATTATAC
Statistics
Matches: 175, Mismatches: 30, Indels: 25
0.76 0.13 0.11
Matches are distributed among these distances:
44 9 0.05
45 20 0.11
46 65 0.37
47 58 0.33
48 22 0.13
49 1 0.01
ACGTcount: A:0.28, C:0.19, G:0.29, T:0.24
Consensus pattern (46 bp):
GCTAGTGTAAGACCATGTCTGGGACATGCATCGGCTTGAGATGAGA
Found at i:37877802 original size:91 final size:91
Alignment explanation
Indices: 37877567--37877827 Score: 216
Period size: 94 Copynumber: 2.8 Consensus size: 91
37877557 TTTGTGTGCT
* * * *
37877567 AGTGTAAGACATGTCTAGGACATGCATC-GAC-C-ACATTGTGAGAGCCAGTGTAAGACCATGTT
1 AGTGTAAGACATGTCTGGGACATGCATCAGACTCGAGA---TGA-AGCCAGTGTAAGACCATATC
* ** *
37877629 TGGGACATGGCATCGGCATTGAGACGA-GAG-C
62 TGGGACATGGCATCGGC--T-ACAAAATGTGTC
* * *
37877660 TAGTGTAAGACATGTCTGGGACATGCATCAGCCTCGAGATGTAAGCTAGTGTACGA-CATATCTG
1 -AGTGTAAGACATGTCTGGGACATGCATCAGACTCGAGATG-AAGCCAGTGTAAGACCATATCTG
37877724 GGACAT-GCATCGGCTACAAAATGTGTC
64 GGACATGGCATCGGCTACAAAATGTGTC
* * *
37877751 AGTGTAAGACCATGTCTGGGACATGGCAT-TGACTTGATAGATG-AGCCAGTGTAAGACCATGTC
1 AGTGTAAGA-CATGTCTGGGACAT-GCATCAGACTCG--AGATGAAGCCAGTGTAAGACCATATC
37877814 TGGGACATGGCATC
62 TGGGACATGGCATC
37877828 AACATTATAC
Statistics
Matches: 138, Mismatches: 17, Indels: 25
0.77 0.09 0.14
Matches are distributed among these distances:
89 3 0.02
90 12 0.09
91 30 0.22
92 25 0.18
93 22 0.16
94 40 0.29
95 3 0.02
96 1 0.01
97 2 0.01
ACGTcount: A:0.28, C:0.19, G:0.29, T:0.24
Consensus pattern (91 bp):
AGTGTAAGACATGTCTGGGACATGCATCAGACTCGAGATGAAGCCAGTGTAAGACCATATCTGGG
ACATGGCATCGGCTACAAAATGTGTC
Found at i:37883803 original size:24 final size:24
Alignment explanation
Indices: 37883771--37883818 Score: 96
Period size: 24 Copynumber: 2.0 Consensus size: 24
37883761 AAAAAGGGTA
37883771 TAAATCCTACCTAACATTTGTGTT
1 TAAATCCTACCTAACATTTGTGTT
37883795 TAAATCCTACCTAACATTTGTGTT
1 TAAATCCTACCTAACATTTGTGTT
37883819 GAACACTAAA
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
24 24 1.00
ACGTcount: A:0.29, C:0.21, G:0.08, T:0.42
Consensus pattern (24 bp):
TAAATCCTACCTAACATTTGTGTT
Found at i:37888014 original size:47 final size:47
Alignment explanation
Indices: 37887898--37888167 Score: 193
Period size: 46 Copynumber: 5.8 Consensus size: 47
37887888 TTATTTGTGT
* * *
37887898 GCTAGTGTAAGA-CATGTCTGAGACATGCATTGGCCA-T-ATTATGAGA
1 GCTAGTGTAAGACCATGTCTGGGACATGCATCGG-CATTGA-GATGAGA
* * *
37887944 GCCAGTGTAAGACCATGTATGGGACATGGCATCGGCATTGAGACGAGA
1 GCTAGTGTAAGACCATGTCTGGGACAT-GCATCGGCATTGAGATGAGA
* * * *
37887992 GCTAGTGTAAGA-CATGTCTGGGACATACATCAGCCTCGAGATGTA-A
1 GCTAGTGTAAGACCATGTCTGGGACATGCATCGGCATTGAGATG-AGA
* * ** * *
37888038 GCTAGTGTACGA-CATATCTGGGACATGCATCGGC-TACAAAATGTG-
1 GCTAGTGTAAGACCATGTCTGGGACATGCATCGGCAT-TGAGATGAGA
* * * *
37888083 TC-AGTGTAAGACCATGTCTGGGACATGGCATTGAC-TTGATA-GATGA
1 GCTAGTGTAAGACCATGTCTGGGACAT-GCATCGGCATTGAGATGA-GA
* *
37888129 GCCAGTGTAAGACCATGTCTGGGACATGACATCAGCATT
1 GCTAGTGTAAGACCATGTCTGGGACATG-CATCGGCATT
37888168 ATACCCTATG
Statistics
Matches: 177, Mismatches: 33, Indels: 26
0.75 0.14 0.11
Matches are distributed among these distances:
44 9 0.05
45 18 0.10
46 68 0.38
47 56 0.32
48 25 0.14
49 1 0.01
ACGTcount: A:0.29, C:0.19, G:0.28, T:0.24
Consensus pattern (47 bp):
GCTAGTGTAAGACCATGTCTGGGACATGCATCGGCATTGAGATGAGA
Found at i:37888908 original size:16 final size:16
Alignment explanation
Indices: 37888883--37888913 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
37888873 GCCGTGTGTG
37888883 ACACACGGCCAGCCCA
1 ACACACGGCCAGCCCA
*
37888899 ACACATGGCCAGCCC
1 ACACACGGCCAGCCC
37888914 CATGGGCGTG
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
16 14 1.00
ACGTcount: A:0.29, C:0.48, G:0.19, T:0.03
Consensus pattern (16 bp):
ACACACGGCCAGCCCA
Found at i:37895164 original size:7 final size:7
Alignment explanation
Indices: 37895147--37895182 Score: 54
Period size: 7 Copynumber: 5.0 Consensus size: 7
37895137 ATTATTTATA
37895147 ATTATTTT
1 ATTA-TTT
37895155 ATTATTT
1 ATTATTT
*
37895162 ATTGTTT
1 ATTATTT
37895169 ATTATTT
1 ATTATTT
37895176 ATTATTT
1 ATTATTT
37895183 TTAATTGTCT
Statistics
Matches: 26, Mismatches: 2, Indels: 1
0.90 0.07 0.03
Matches are distributed among these distances:
7 22 0.85
8 4 0.15
ACGTcount: A:0.25, C:0.00, G:0.03, T:0.72
Consensus pattern (7 bp):
ATTATTT
Found at i:37899795 original size:26 final size:29
Alignment explanation
Indices: 37899766--37899829 Score: 80
Period size: 30 Copynumber: 2.2 Consensus size: 29
37899756 AATCAATAAA
37899766 ATAATATT-ATA-ATATATAACTATTA-C
1 ATAATATTAATACATATATAACTATTATC
*
37899792 ATAAAATATTAATACATATATAACTATTATT
1 AT--AATATTAATACATATATAACTATTATC
37899823 ATAATAT
1 ATAATAT
37899830 AGATTGCAAT
Statistics
Matches: 32, Mismatches: 1, Indels: 7
0.80 0.03 0.17
Matches are distributed among these distances:
26 2 0.06
28 6 0.19
29 8 0.25
30 14 0.44
31 2 0.06
ACGTcount: A:0.52, C:0.06, G:0.00, T:0.42
Consensus pattern (29 bp):
ATAATATTAATACATATATAACTATTATC
Found at i:37899796 original size:31 final size:30
Alignment explanation
Indices: 37899744--37899820 Score: 86
Period size: 31 Copynumber: 2.5 Consensus size: 30
37899734 TATAATAAAT
* * *
37899744 TAATATATTACTAAT-CAATAAAATAATATTA
1 TAATATATAACTATTACAATAAAAT-AT-TAA
37899775 TAATATATAACTATTAC-ATAAAATATTAA
1 TAATATATAACTATTACAATAAAATATTAA
37899804 TACATATATAACTATTA
1 TA-ATATATAACTATTA
37899821 TTATAATATA
Statistics
Matches: 41, Mismatches: 3, Indels: 5
0.84 0.06 0.10
Matches are distributed among these distances:
29 4 0.10
30 16 0.39
31 20 0.49
32 1 0.02
ACGTcount: A:0.53, C:0.08, G:0.00, T:0.39
Consensus pattern (30 bp):
TAATATATAACTATTACAATAAAATATTAA
Found at i:37899928 original size:16 final size:15
Alignment explanation
Indices: 37899885--37899933 Score: 53
Period size: 16 Copynumber: 3.1 Consensus size: 15
37899875 ATCATCGATG
*
37899885 TATATATATAAATTA
1 TATATATATATATTA
*
37899900 TAAATATATTATATTA
1 TATATATA-TATATTA
*
37899916 TATATATCATATAATA
1 TATATAT-ATATATTA
37899932 TA
1 TA
37899934 ATAGGAGAGT
Statistics
Matches: 28, Mismatches: 4, Indels: 3
0.80 0.11 0.09
Matches are distributed among these distances:
15 7 0.25
16 20 0.71
17 1 0.04
ACGTcount: A:0.51, C:0.02, G:0.00, T:0.47
Consensus pattern (15 bp):
TATATATATATATTA
Found at i:37900258 original size:238 final size:242
Alignment explanation
Indices: 37899807--37900595 Score: 743
Period size: 238 Copynumber: 3.2 Consensus size: 242
37899797 ATATTAATAC
* ** *
37899807 ATATATAACTATTATTATAATATAGATTGCAATAAAAGATATA-ATATTACATGATATTATAATG
1 ATATATAACTATTATTATATTATAGATTATAATAAAAGATATAGCTATTACATGATATTATAATG
* * * ** * * * * * *
37899871 TCTAATCATCGATGTATATATATAAATTATAAATATATTATATTATATATATCATATAATATAAT
66 TTTAATCATTGATGCATATATATAAACAATTAATATATGATATGATATACATTATATAATATAGT
* * *
37899936 AGGAGAGTTAACTTTTAAATGTA-AGAAGAGTATAGAGATTCA-AAGCATATTTTAACTAGTATA
131 AGGAGAGTTAACTTTCAAATGTACA-AAGAATATAGAGATT-AGAA-CATATTTCAACTAGTATA
*
37899999 ATAATAAACAATAAT-ATATATAATAAGTAAAATATAATGTACTACTATT
193 ATAATAAACAATAATAATATATAATAAGTAATATATAATGTACTACTATT
*
37900048 ATATATAACTATTA-T-TA-TATAGATTGTAATAAAAGATATAGCT-TTACATGATATTATAATG
1 ATATATAACTATTATTATATTATAGATTATAATAAAAGATATAGCTATTACATGATATTATAATG
* * *
37900109 TTTAATCATTTATGCATATCTATAAACAATTAATATATGATATGATATAGCATTATAAAATATAG
66 TTTAATCATTGATGCATATATATAAACAATTAATATATGATATGATATA-CATTATATAATATAG
* * * *
37900174 TAGGAGAGCTAACTTTCAAATGCACAAAGAATATAGTGACTTAGAACATATTTCAATTAGTATAA
130 TAGGAGAGTTAACTTTCAAATGTACAAAGAATATAGAGA-TTAGAACATATTTCAACTAGTAT--
* * *
37900239 GAATAAAAAAATAATATATAATATATAATAATATGTAATATATAATGTATTACTATT
192 -AAT-AATAAACAATA-ATAATATATAAT-A-A-GTAATATATAATGTACTACTATT
* * * *
37900296 ATATATCAA-TATTATTATATTATAGATTATAATAAAAGATATAAC-ATTACATAATGTGATAAT
1 ATATAT-AACTATTATTATATTATAGATTATAATAAAAGATATAGCTATTACATGATATTATAAT
*
37900359 CTTTAA-CATTGATGCATATATATAAAATTTTCATATATTATATACTATATGATATGATATAACA
65 GTTTAATCATTGATGCATATATAT-AAA----C--A-A-T-TA-A-TATATGATATGATAT-ACA
* * * * * **
37900423 TTATATAATATAGTAGAAGGGTTAACTTTCAAGTGTACAAAAAATAAAGAGAATTAGTGCATATT
117 TTATATAATATAGTAGGAGAGTTAACTTTCAAATGTACAAAGAATATAGAG-ATTAGAACATATT
* * * * * *
37900488 TCAACCA--AT-ATAAT-AAC-A-AACAACA-CTAATAATTAATATATAATGTACTAATATT
181 TCAACTAGTATAATAATAAACAATAATAATATATAATAAGTAATATATAATGTACTACTATT
* *
37900543 ATATATAACTATAATTATATTATAGATTATAATAAAATATATAG-TATTACATG
1 ATATATAACTATTATTATATTATAGATTATAATAAAAGATATAGCTATTACATG
37900596 TGTCACTTCC
Statistics
Matches: 453, Mismatches: 60, Indels: 64
0.79 0.10 0.11
Matches are distributed among these distances:
238 79 0.17
239 62 0.14
240 6 0.01
241 14 0.03
242 3 0.01
243 9 0.02
244 2 0.00
245 9 0.02
246 3 0.01
247 66 0.15
248 33 0.07
249 4 0.01
250 21 0.05
251 49 0.11
252 1 0.00
253 1 0.00
254 2 0.00
255 3 0.01
256 2 0.00
257 1 0.00
258 1 0.00
259 1 0.00
260 4 0.01
261 1 0.00
262 74 0.16
263 2 0.00
ACGTcount: A:0.47, C:0.07, G:0.09, T:0.37
Consensus pattern (242 bp):
ATATATAACTATTATTATATTATAGATTATAATAAAAGATATAGCTATTACATGATATTATAATG
TTTAATCATTGATGCATATATATAAACAATTAATATATGATATGATATACATTATATAATATAGT
AGGAGAGTTAACTTTCAAATGTACAAAGAATATAGAGATTAGAACATATTTCAACTAGTATAATA
ATAAACAATAATAATATATAATAAGTAATATATAATGTACTACTATT
Found at i:37900270 original size:17 final size:17
Alignment explanation
Indices: 37900248--37900284 Score: 65
Period size: 17 Copynumber: 2.2 Consensus size: 17
37900238 AGAATAAAAA
37900248 AATAATATATAATATAT
1 AATAATATATAATATAT
*
37900265 AATAATATGTAATATAT
1 AATAATATATAATATAT
37900282 AAT
1 AAT
37900285 GTATTACTAT
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
17 19 1.00
ACGTcount: A:0.57, C:0.00, G:0.03, T:0.41
Consensus pattern (17 bp):
AATAATATATAATATAT
Found at i:37901496 original size:34 final size:34
Alignment explanation
Indices: 37901409--37901532 Score: 176
Period size: 34 Copynumber: 3.6 Consensus size: 34
37901399 TATTTATGGC
*
37901409 AGGTACATGCGAACTGTATATGTGTGCAAACCCT
1 AGGTACATGCGAACTGTATATGTGTGCGAACCCT
* * *
37901443 AGGTGACATGTGAATTGTATATGTGTGCGAACTCT
1 AGGT-ACATGCGAACTGTATATGTGTGCGAACCCT
* *
37901478 AGGTACATGTGAACTGTATATGTGTACGAACCCT
1 AGGTACATGCGAACTGTATATGTGTGCGAACCCT
*
37901512 AGGTATATGCGAACTGTATAT
1 AGGTACATGCGAACTGTATAT
37901533 ATATATGTGA
Statistics
Matches: 80, Mismatches: 9, Indels: 2
0.88 0.10 0.02
Matches are distributed among these distances:
34 50 0.62
35 30 0.38
ACGTcount: A:0.29, C:0.15, G:0.25, T:0.31
Consensus pattern (34 bp):
AGGTACATGCGAACTGTATATGTGTGCGAACCCT
Found at i:37901545 original size:36 final size:34
Alignment explanation
Indices: 37901409--37901562 Score: 137
Period size: 34 Copynumber: 4.4 Consensus size: 34
37901399 TATTTATGGC
* * * * *
37901409 AGGTACATGCGAACTGTATATGTGTGCAAACCCT
1 AGGTACATGTGAACTGTATATATATACGAACCCT
* * * * *
37901443 AGGTGACATGTGAATTGTATATGTGTGCGAACTCT
1 AGGT-ACATGTGAACTGTATATATATACGAACCCT
* *
37901478 AGGTACATGTGAACTGTATATGTGTACGAACCCT
1 AGGTACATGTGAACTGTATATATATACGAACCCT
* * *
37901512 AGGTATATGCGAACTGTATATATATATGTGAACCCT
1 AGGTACATGTGAACTGTATATATATA--CGAACCCT
*
37901548 ATGTACATGTGAACT
1 AGGTACATGTGAACT
37901563 ATGCAAAACC
Statistics
Matches: 102, Mismatches: 15, Indels: 4
0.84 0.12 0.03
Matches are distributed among these distances:
34 53 0.52
35 30 0.29
36 19 0.19
ACGTcount: A:0.30, C:0.16, G:0.23, T:0.31
Consensus pattern (34 bp):
AGGTACATGTGAACTGTATATATATACGAACCCT
Found at i:37901881 original size:34 final size:34
Alignment explanation
Indices: 37901843--37902001 Score: 183
Period size: 35 Copynumber: 4.6 Consensus size: 34
37901833 TATTTATGGC
*
37901843 AGGTACATGCAAACTGTATATGTATGCGAACCCT
1 AGGTACATGCAAACTGTATATGTGTGCGAACCCT
** **
37901877 AGGTAACATGTGAACTGTATATGTGTATGAACCCT
1 AGGT-ACATGCAAACTGTATATGTGTGCGAACCCT
***
37901912 AGGTAACATGTGGACTGTATATGTGTGCGAACCCT
1 AGGT-ACATGCAAACTGTATATGTGTGCGAACCCT
*
37901947 AGGTATATGCAAACTGTATATGTGTGCGAACCCT
1 AGGTACATGCAAACTGTATATGTGTGCGAACCCT
* * * *
37901981 AGATATATGCTAACTATATAT
1 AGGTACATGCAAACTGTATAT
37902002 ATATATATAT
Statistics
Matches: 109, Mismatches: 15, Indels: 2
0.87 0.12 0.02
Matches are distributed among these distances:
34 48 0.44
35 61 0.56
ACGTcount: A:0.31, C:0.16, G:0.22, T:0.30
Consensus pattern (34 bp):
AGGTACATGCAAACTGTATATGTGTGCGAACCCT
Found at i:37901893 original size:35 final size:35
Alignment explanation
Indices: 37901854--37901982 Score: 188
Period size: 35 Copynumber: 3.7 Consensus size: 35
37901844 GGTACATGCA
*
37901854 AACTGTATATGTATGCGAACCCTAGGTAACATGTG
1 AACTGTATATGTGTGCGAACCCTAGGTAACATGTG
**
37901889 AACTGTATATGTGTATGAACCCTAGGTAACATGTG
1 AACTGTATATGTGTGCGAACCCTAGGTAACATGTG
* * **
37901924 GACTGTATATGTGTGCGAACCCTAGGT-ATATGCA
1 AACTGTATATGTGTGCGAACCCTAGGTAACATGTG
37901958 AACTGTATATGTGTGCGAACCCTAG
1 AACTGTATATGTGTGCGAACCCTAG
37901983 ATATATGCTA
Statistics
Matches: 84, Mismatches: 10, Indels: 1
0.88 0.11 0.01
Matches are distributed among these distances:
34 28 0.33
35 56 0.67
ACGTcount: A:0.29, C:0.17, G:0.24, T:0.29
Consensus pattern (35 bp):
AACTGTATATGTGTGCGAACCCTAGGTAACATGTG
Found at i:37902003 original size:70 final size:70
Alignment explanation
Indices: 37901854--37902001 Score: 167
Period size: 69 Copynumber: 2.1 Consensus size: 70
37901844 GGTACATGCA
* ** * *
37901854 AACTGTATATGTATGCGAACCCTAGGTAACATGTGAACTGTATATGTGTATGAACCCTAGGTAAC
1 AACTATATATGTATGCGAACCCTAGGTAACATGCAAACTGTATATGTGTACGAACCCTAGATAAC
37901919 ATGTG
66 ATGTG
* * * * * *
37901924 GACTGTATATGTGTGCGAACCCTAGGT-ATATGCAAACTGTATATGTGTGCGAACCCTAGAT-AT
1 AACTATATATGTATGCGAACCCTAGGTAACATGCAAACTGTATATGTGTACGAACCCTAGATAAC
37901987 ATGCT-
66 ATG-TG
37901992 AACTATATAT
1 AACTATATAT
37902002 ATATATATAT
Statistics
Matches: 66, Mismatches: 11, Indels: 4
0.81 0.14 0.05
Matches are distributed among these distances:
68 12 0.18
69 29 0.44
70 25 0.38
ACGTcount: A:0.31, C:0.16, G:0.22, T:0.31
Consensus pattern (70 bp):
AACTATATATGTATGCGAACCCTAGGTAACATGCAAACTGTATATGTGTACGAACCCTAGATAAC
ATGTG
Found at i:37903690 original size:40 final size:40
Alignment explanation
Indices: 37903641--37903848 Score: 222
Period size: 40 Copynumber: 5.2 Consensus size: 40
37903631 TCTTCGGAAT
* *
37903641 TTAG-CCGGATATAACCACAAGCACAATTGCCTTCGGGTC
1 TTAGCCCGGATATAACCACTAGCACAAATGCCTTCGGGTC
* **** *
37903680 TTAACCCGGAT-TTGGTATCTTGCACAAATGCCTTCGGGTC
1 TTAGCCCGGATATAACCA-CTAGCACAAATGCCTTCGGGTC
* * * *
37903720 TTAGCCCGGATATGACAACTCGCACGAATGCCTTCGGGTC
1 TTAGCCCGGATATAACCACTAGCACAAATGCCTTCGGGTC
* * *
37903760 TTAGCCCGGATATAATCACTAGCATAAATGCCTTCGGGAC
1 TTAGCCCGGATATAACCACTAGCACAAATGCCTTCGGGTC
** * *
37903800 TTAGCCCGGATATATTCACTAGCATAAATGCCTTCGGGAC
1 TTAGCCCGGATATAACCACTAGCACAAATGCCTTCGGGTC
37903840 TTAGCCCGG
1 TTAGCCCGG
37903849 GTATCATTCA
Statistics
Matches: 143, Mismatches: 23, Indels: 5
0.84 0.13 0.03
Matches are distributed among these distances:
39 5 0.03
40 136 0.95
41 2 0.01
ACGTcount: A:0.25, C:0.27, G:0.22, T:0.26
Consensus pattern (40 bp):
TTAGCCCGGATATAACCACTAGCACAAATGCCTTCGGGTC
Found at i:37911793 original size:40 final size:40
Alignment explanation
Indices: 37911744--37911951 Score: 222
Period size: 40 Copynumber: 5.2 Consensus size: 40
37911734 TCTTCGGAAT
* *
37911744 TTAG-CCGGATATAACCACAAGCACAATTGCCTTCGGGTC
1 TTAGCCCGGATATAACCACTAGCACAAATGCCTTCGGGTC
* **** *
37911783 TTAACCCGGAT-TTGGTATCTTGCACAAATGCCTTCGGGTC
1 TTAGCCCGGATATAACCA-CTAGCACAAATGCCTTCGGGTC
* * * *
37911823 TTAGCCCGGATATGACAACTCGCACGAATGCCTTCGGGTC
1 TTAGCCCGGATATAACCACTAGCACAAATGCCTTCGGGTC
* * *
37911863 TTAGCCCGGATATAATCACTAGCATAAATGCCTTCGGGAC
1 TTAGCCCGGATATAACCACTAGCACAAATGCCTTCGGGTC
** * *
37911903 TTAGCCCGGATATATTCACTAGCATAAATGCCTTCGGGAC
1 TTAGCCCGGATATAACCACTAGCACAAATGCCTTCGGGTC
37911943 TTAGCCCGG
1 TTAGCCCGG
37911952 GTATCATTCA
Statistics
Matches: 143, Mismatches: 23, Indels: 5
0.84 0.13 0.03
Matches are distributed among these distances:
39 5 0.03
40 136 0.95
41 2 0.01
ACGTcount: A:0.25, C:0.27, G:0.22, T:0.26
Consensus pattern (40 bp):
TTAGCCCGGATATAACCACTAGCACAAATGCCTTCGGGTC
Done.