Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: A01
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: 104050246
ACGTcount: A:0.31, C:0.17, G:0.17, T:0.31
Warning! 4660000 characters in sequence are not A, C, G, or T
File 127 of 316
Found at i:40225200 original size:40 final size:40
Alignment explanation
Indices: 40225145--40225231 Score: 138
Period size: 40 Copynumber: 2.2 Consensus size: 40
40225135 ATTTGATGTG
*
40225145 TATCCAGGCTTAAAGACCCGCAGGCTATAAGCTGGAATTA
1 TATCCAGGCTTAAAGACCCACAGGCTATAAGCTGGAATTA
* *
40225185 TATCCGGGCTTAAAGACCCACAGGCTATATGCTGGAATTA
1 TATCCAGGCTTAAAGACCCACAGGCTATAAGCTGGAATTA
*
40225225 TACCCAG
1 TATCCAG
40225232 AAGGTCCGCA
Statistics
Matches: 42, Mismatches: 5, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
40 42 1.00
ACGTcount: A:0.31, C:0.24, G:0.22, T:0.23
Consensus pattern (40 bp):
TATCCAGGCTTAAAGACCCACAGGCTATAAGCTGGAATTA
Found at i:40225253 original size:35 final size:37
Alignment explanation
Indices: 40225205--40225295 Score: 114
Period size: 39 Copynumber: 2.5 Consensus size: 37
40225195 TAAAGACCCA
*
40225205 CAGGCTATATGCTGGAATTAT-ACC-CAGAAGGTCCG
1 CAGGCTATGTGCTGGAATTATAACCGCAGAAGGTCCG
*
40225240 CAGGCTATGTGCTGGAATTATAACCGGACTGAAGGTCCG
1 CAGGCTATGTGCTGGAATTATAACC-G-CAGAAGGTCCG
* *
40225279 CAGGCTACGCGCTGGAA
1 CAGGCTATGTGCTGGAA
40225296 ATATGTCCGG
Statistics
Matches: 48, Mismatches: 4, Indels: 4
0.86 0.07 0.07
Matches are distributed among these distances:
35 20 0.42
36 3 0.06
39 25 0.52
ACGTcount: A:0.26, C:0.23, G:0.30, T:0.21
Consensus pattern (37 bp):
CAGGCTATGTGCTGGAATTATAACCGCAGAAGGTCCG
Found at i:40225282 original size:39 final size:38
Alignment explanation
Indices: 40225162--40225285 Score: 128
Period size: 35 Copynumber: 3.3 Consensus size: 38
40225152 GCTTAAAGAC
* * * **
40225162 CCGCAGGCTATAAGCTGGAATTATATCCGGGCTTAAAGAC
1 CCGCAGGCTATATGCTGGAATTATAACC-GGC-TGAAGGT
* *
40225202 CCACAGGCTATATGCTGGAATTAT-ACC--CAGAAGGT
1 CCGCAGGCTATATGCTGGAATTATAACCGGCTGAAGGT
*
40225237 CCGCAGGCTATGTGCTGGAATTATAACCGGACTGAAGGT
1 CCGCAGGCTATATGCTGGAATTATAACCGG-CTGAAGGT
40225276 CCGCAGGCTA
1 CCGCAGGCTA
40225286 CGCGCTGGAA
Statistics
Matches: 70, Mismatches: 10, Indels: 9
0.79 0.11 0.10
Matches are distributed among these distances:
35 25 0.36
36 4 0.06
39 19 0.27
40 22 0.31
ACGTcount: A:0.28, C:0.23, G:0.27, T:0.22
Consensus pattern (38 bp):
CCGCAGGCTATATGCTGGAATTATAACCGGCTGAAGGT
Found at i:40233098 original size:40 final size:40
Alignment explanation
Indices: 40233043--40233174 Score: 176
Period size: 40 Copynumber: 3.3 Consensus size: 40
40233033 ATTTGATGTG
*
40233043 TATCCGGGCTTAAAGACCCGCAGGCTATATGCTGGAATTA
1 TATCCGGACTTAAAGACCCGCAGGCTATATGCTGGAATTA
* *
40233083 TATCCGGGCTTAAAGACCCACAGGCTATATGCTGGAATTA
1 TATCCGGACTTAAAGACCCGCAGGCTATATGCTGGAATTA
* ** * *
40233123 TACCCGGACTT-AAGGTCCGCAGGCTATGTGCTGAAATTA
1 TATCCGGACTTAAAGACCCGCAGGCTATATGCTGGAATTA
*
40233162 TAACCGGACTTAA
1 TATCCGGACTTAA
40233175 GGTCCGTAGG
Statistics
Matches: 82, Mismatches: 9, Indels: 2
0.88 0.10 0.02
Matches are distributed among these distances:
39 33 0.40
40 49 0.60
ACGTcount: A:0.29, C:0.23, G:0.23, T:0.25
Consensus pattern (40 bp):
TATCCGGACTTAAAGACCCGCAGGCTATATGCTGGAATTA
Found at i:40233161 original size:39 final size:39
Alignment explanation
Indices: 40233060--40233187 Score: 166
Period size: 39 Copynumber: 3.3 Consensus size: 39
40233050 GCTTAAAGAC
* * **
40233060 CCGCAGGCTATATGCTGGAATTATATCCGGGCTTAAAGAC
1 CCGCAGGCTATATGCTGGAATTATAACCGGACTT-AAGGT
* *
40233100 CCACAGGCTATATGCTGGAATTATACCCGGACTTAAGGT
1 CCGCAGGCTATATGCTGGAATTATAACCGGACTTAAGGT
* *
40233139 CCGCAGGCTATGTGCTGAAATTATAACCGGACTTAAGGT
1 CCGCAGGCTATATGCTGGAATTATAACCGGACTTAAGGT
*
40233178 CCGTAGGCTA
1 CCGCAGGCTA
40233188 CGCGTTGGAA
Statistics
Matches: 78, Mismatches: 10, Indels: 1
0.88 0.11 0.01
Matches are distributed among these distances:
39 47 0.60
40 31 0.40
ACGTcount: A:0.27, C:0.23, G:0.25, T:0.25
Consensus pattern (39 bp):
CCGCAGGCTATATGCTGGAATTATAACCGGACTTAAGGT
Found at i:40242536 original size:40 final size:40
Alignment explanation
Indices: 40242486--40242748 Score: 325
Period size: 40 Copynumber: 6.6 Consensus size: 40
40242476 TTGAATGCTG
* * * * *
40242486 TCCGGGTTAAGTCCCGAAGGC-TTTGTGCTAAGTGAATATA
1 TCCGGGTTAAGTCCCGAAGGCATTCGTGC-GAGTTATTAAA
* * * * *
40242526 TCCGGATTAAGAT-CCGAAGGCCTTTGTGCGAGATACTAAA
1 TCCGGGTTAAG-TCCCGAAGGCATTCGTGCGAGTTATTAAA
*
40242566 TCCGGGTTAAGTCCCGAAGGCATTCATGCGAGTTATTAAA
1 TCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTATTAAA
40242606 TCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTATTAAA
1 TCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTATTAAA
*
40242646 TCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTGTTAAA
1 TCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTATTAAA
* * *
40242686 TCCGGGTTATGTCCCGAAGGCATT-GTGTGAGTTACTAAA
1 TCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTATTAAA
* * *
40242725 ACCGGGCTATGTCCCGAAGGCATT
1 TCCGGGTTAAGTCCCGAAGGCATT
40242749 TGAACGAGGA
Statistics
Matches: 200, Mismatches: 20, Indels: 7
0.88 0.09 0.03
Matches are distributed among these distances:
39 35 0.17
40 157 0.79
41 8 0.04
ACGTcount: A:0.25, C:0.20, G:0.27, T:0.27
Consensus pattern (40 bp):
TCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTATTAAA
Found at i:40242768 original size:79 final size:80
Alignment explanation
Indices: 40242525--40242783 Score: 249
Period size: 80 Copynumber: 3.3 Consensus size: 80
40242515 AAGTGAATAT
* * * * * *
40242525 ATCCGGATTAAGAT-CCGAAGGCCTTTGTGCGAGATACTAAATCCGGGTTAAGTCCCGAAGGCAT
1 ATCCGGGTTAAG-TCCCGAAGGCATTCGTGCGAGTTACTAAAACCGGGCTAAGTCCCGAAGGCAT
* * *
40242589 TC-ATGCGAGTTA-TTAA
65 TCGA-ACGAG-GAGCTAA
* * *
40242605 ATCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTATTAAATCCGGGTTAAGTCCCGAAGGCATT
1 ATCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTACTAAAACCGGGCTAAGTCCCGAAGGCATT
** ** *
40242670 CGTGCGAGTTGTTAA
66 CGAACGAGGAGCTAA
* * *
40242685 ATCCGGGTTATGTCCCGAAGGCATT-GTGTGAGTTACTAAAACCGGGCTATGTCCCGAAGGCATT
1 ATCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTACTAAAACCGGGCTAAGTCCCGAAGGCATT
* *
40242749 TGAACGAGGAGCTAT
66 CGAACGAGGAGCTAA
*
40242764 ATCC-GGTTAAATCCCGAAGG
1 ATCCGGGTTAAGTCCCGAAGG
40242784 TACGTGAATT
Statistics
Matches: 154, Mismatches: 22, Indels: 8
0.84 0.12 0.04
Matches are distributed among these distances:
78 14 0.09
79 48 0.31
80 92 0.60
ACGTcount: A:0.26, C:0.20, G:0.27, T:0.26
Consensus pattern (80 bp):
ATCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTACTAAAACCGGGCTAAGTCCCGAAGGCATT
CGAACGAGGAGCTAA
Found at i:40247471 original size:22 final size:19
Alignment explanation
Indices: 40247446--40247487 Score: 57
Period size: 22 Copynumber: 2.1 Consensus size: 19
40247436 TGATAATCAT
40247446 TAATATATAATTATATCTATTA
1 TAATATAT-ATTA-AT-TATTA
40247468 TAATATATATTAATTATTA
1 TAATATATATTAATTATTA
40247487 T
1 T
40247488 CAACTTTGCA
Statistics
Matches: 20, Mismatches: 0, Indels: 3
0.87 0.00 0.13
Matches are distributed among these distances:
19 6 0.30
20 2 0.10
21 4 0.20
22 8 0.40
ACGTcount: A:0.45, C:0.02, G:0.00, T:0.52
Consensus pattern (19 bp):
TAATATATATTAATTATTA
Found at i:40249174 original size:13 final size:13
Alignment explanation
Indices: 40249156--40249182 Score: 54
Period size: 13 Copynumber: 2.1 Consensus size: 13
40249146 TTCTACAATA
40249156 ATGAGTTGAAGAG
1 ATGAGTTGAAGAG
40249169 ATGAGTTGAAGAG
1 ATGAGTTGAAGAG
40249182 A
1 A
40249183 GCGAGGATCT
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 14 1.00
ACGTcount: A:0.41, C:0.00, G:0.37, T:0.22
Consensus pattern (13 bp):
ATGAGTTGAAGAG
Found at i:40263095 original size:40 final size:41
Alignment explanation
Indices: 40263036--40263267 Score: 303
Period size: 40 Copynumber: 5.8 Consensus size: 41
40263026 CATTTGAATG
* * * *
40263036 ATATCCAGGCTAAGTCCCGAAGGCAATTGTGCTAG-TGATT
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCGAGTTGATT
* * *
40263076 TTATCCGGGCCAAGACCCGAAGGCATTTGTGCGAGTTG-CT
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCGAGTTGATT
* * * *
40263116 ATACCCGGGATAAGACCCGAAGGCAATTGTGCTAG-TGATT
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCGAGTTGATT
*
40263156 TTATCCGGGCTAAGACCCGAAGGCATTTGTGCGAGTTGA-T
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCGAGTTGATT
40263196 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCGAGTTGA-T
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCGAGTTGATT
* *
40263236 ATATCCGGGATAAGACCCGAGGGCATTTGTGC
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGC
40263268 TTGTGGTTAT
Statistics
Matches: 167, Mismatches: 22, Indels: 6
0.86 0.11 0.03
Matches are distributed among these distances:
39 2 0.01
40 160 0.96
41 5 0.03
ACGTcount: A:0.25, C:0.21, G:0.29, T:0.25
Consensus pattern (41 bp):
ATATCCGGGCTAAGACCCGAAGGCATTTGTGCGAGTTGATT
Found at i:40263250 original size:120 final size:119
Alignment explanation
Indices: 40263036--40263287 Score: 362
Period size: 120 Copynumber: 2.1 Consensus size: 119
40263026 CATTTGAATG
* * *
40263036 ATATCCAGGCTAAGTCCCGAAGGCAATTGTGCTAGTGATTTTATCCGGGCCAAGACCCGAAGGCA
1 ATATCC-GGCTAAGACCCGAAGGCAATTGTGCGAGTGATTATATCCGGGCCAAGACCCGAAGGCA
*
40263101 TTTGTGCGAGTTGCTATACCCGGGATAAGACCCGAAGGCAATTGTGCTAGTGATT
65 TTTGTGCGAGTTGATATACCCGGGATAAGACCCGAAGGCAATTGTGCTAGTGATT
* * *
40263156 TTATCCGGGCTAAGACCCGAAGGCATTTGTGCGAGTTGA-TATATCCGGGCTAAGACCCGAAGGC
1 ATATCC-GGCTAAGACCCGAAGGCAATTGTGCGAG-TGATTATATCCGGGCCAAGACCCGAAGGC
* * * * *
40263220 ATTTGTGCGAGTTGATATATCCGGGATAAGACCCGAGGGCATTTGTGCTTGTGGTT
64 ATTTGTGCGAGTTGATATACCCGGGATAAGACCCGAAGGCAATTGTGCTAGTGATT
40263276 ATATCCGGCTAA
1 ATATCCGGCTAA
40263288 ATTCCTAAGA
Statistics
Matches: 117, Mismatches: 14, Indels: 3
0.87 0.10 0.02
Matches are distributed among these distances:
119 6 0.05
120 108 0.92
121 3 0.03
ACGTcount: A:0.25, C:0.21, G:0.29, T:0.26
Consensus pattern (119 bp):
ATATCCGGCTAAGACCCGAAGGCAATTGTGCGAGTGATTATATCCGGGCCAAGACCCGAAGGCAT
TTGTGCGAGTTGATATACCCGGGATAAGACCCGAAGGCAATTGTGCTAGTGATT
Found at i:40263283 original size:80 final size:80
Alignment explanation
Indices: 40263036--40263267 Score: 349
Period size: 80 Copynumber: 2.9 Consensus size: 80
40263026 CATTTGAATG
* * *
40263036 ATATCCAGGCTAAGTCCCGAAGGCAATTGTGCTAGTGATTTTATCCGGGCCAAGACCCGAAGGCA
1 ATATCCGGGCTAAGACCCGAAGGCAATTGTGCTAGTGATTTTATCCGGGCTAAGACCCGAAGGCA
*
40263101 TTTGTGCGAGTTGCT
66 TTTGTGCGAGTTGAT
* *
40263116 ATACCCGGGATAAGACCCGAAGGCAATTGTGCTAGTGATTTTATCCGGGCTAAGACCCGAAGGCA
1 ATATCCGGGCTAAGACCCGAAGGCAATTGTGCTAGTGATTTTATCCGGGCTAAGACCCGAAGGCA
40263181 TTTGTGCGAGTTGAT
66 TTTGTGCGAGTTGAT
* * * * *
40263196 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCGAGTTGA-TATATCCGGGATAAGACCCGAGGGC
1 ATATCCGGGCTAAGACCCGAAGGCAATTGTGCTAG-TGATTTTATCCGGGCTAAGACCCGAAGGC
40263260 ATTTGTGC
65 ATTTGTGC
40263268 TTGTGGTTAT
Statistics
Matches: 138, Mismatches: 13, Indels: 2
0.90 0.08 0.01
Matches are distributed among these distances:
80 135 0.98
81 3 0.02
ACGTcount: A:0.25, C:0.21, G:0.29, T:0.25
Consensus pattern (80 bp):
ATATCCGGGCTAAGACCCGAAGGCAATTGTGCTAGTGATTTTATCCGGGCTAAGACCCGAAGGCA
TTTGTGCGAGTTGAT
Found at i:40271215 original size:40 final size:41
Alignment explanation
Indices: 40271156--40271407 Score: 295
Period size: 40 Copynumber: 6.3 Consensus size: 41
40271146 CATTTGAATG
* * *
40271156 ATATCCAGGCTAAGTCCCGAAGGCAATTGTGCTAG-TGATT
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCTAGTTGATT
* * * *
40271196 TTATCCGGGCCAAGACCCGAAGGCATTTGTGCGAGTTG-CT
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCTAGTTGATT
* * *
40271236 ATACCCGGGATAAGACCCGAAGGCAATTGTGCTAG-TGATT
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCTAGTTGATT
*
40271276 TTATCCGGGCTAAGACCCGAAGGCATTTGTG-TGAGTTGA-T
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCT-AGTTGATT
*
40271316 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCGAGTTGA-T
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCTAGTTGATT
* * * *
40271356 ATATCCGGGCTAAGACTCGAGGGCATTTGTGCTTG-TGGTT
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCTAGTTGATT
40271396 ATATCC-GGCTAA
1 ATATCCGGGCTAA
40271408 ATTCCGAAGA
Statistics
Matches: 181, Mismatches: 25, Indels: 13
0.83 0.11 0.06
Matches are distributed among these distances:
39 11 0.06
40 165 0.91
41 5 0.03
ACGTcount: A:0.24, C:0.20, G:0.29, T:0.27
Consensus pattern (41 bp):
ATATCCGGGCTAAGACCCGAAGGCATTTGTGCTAGTTGATT
Found at i:40271370 original size:120 final size:119
Alignment explanation
Indices: 40271156--40271407 Score: 337
Period size: 120 Copynumber: 2.1 Consensus size: 119
40271146 CATTTGAATG
* *
40271156 ATATCCAGGCTAAGTCCCGAAGGCAATTGTGCTAGTGATTTTATCCGGGCCAAGACCCGAAGGCA
1 ATATCC-GGCTAAGACCCGAAGGCAATTGTGCTAGTGATTATATCCGGGCCAAGACCCGAAGGCA
*
40271221 TTTGTGCGAGTTGCTATACCCGGGATAAGACCCGAAGGCAATTGTGCTAGTGATT
65 TTTGTGCGAGTTGATATACCCGGGATAAGACCCGAAGGCAATTGTGCTAGTGATT
* * *
40271276 TTATCCGGGCTAAGACCCGAAGGCATTTGTG-TGAGTTGA-TATATCCGGGCTAAGACCCGAAGG
1 ATATCC-GGCTAAGACCCGAAGGCAATTGTGCT-AG-TGATTATATCCGGGCCAAGACCCGAAGG
* * * * * * *
40271339 CATTTGTGCGAGTTGATATATCCGGGCTAAGACTCGAGGGCATTTGTGCTTGTGGTT
63 CATTTGTGCGAGTTGATATACCCGGGATAAGACCCGAAGGCAATTGTGCTAGTGATT
40271396 ATATCCGGCTAA
1 ATATCCGGCTAA
40271408 ATTCCGAAGA
Statistics
Matches: 115, Mismatches: 15, Indels: 5
0.85 0.11 0.04
Matches are distributed among these distances:
119 7 0.06
120 105 0.91
121 3 0.03
ACGTcount: A:0.24, C:0.20, G:0.29, T:0.27
Consensus pattern (119 bp):
ATATCCGGCTAAGACCCGAAGGCAATTGTGCTAGTGATTATATCCGGGCCAAGACCCGAAGGCAT
TTGTGCGAGTTGATATACCCGGGATAAGACCCGAAGGCAATTGTGCTAGTGATT
Found at i:40271399 original size:80 final size:80
Alignment explanation
Indices: 40271156--40271407 Score: 330
Period size: 80 Copynumber: 3.2 Consensus size: 80
40271146 CATTTGAATG
* * *
40271156 ATATCCAGGCTAAGTCCCGAAGGCAATTGTGCTAGTGATTTTATCCGGGCCAAGACCCGAAGGCA
1 ATATCCGGGCTAAGACCCGAAGGCAATTGTGCTAGTGATTTTATCCGGGCTAAGACCCGAAGGCA
* *
40271221 TTTGTGCGAGTTGCT
66 TTTGTGCTAGTTGAT
* *
40271236 ATACCCGGGATAAGACCCGAAGGCAATTGTGCTAGTGATTTTATCCGGGCTAAGACCCGAAGGCA
1 ATATCCGGGCTAAGACCCGAAGGCAATTGTGCTAGTGATTTTATCCGGGCTAAGACCCGAAGGCA
40271301 TTTGTG-TGAGTTGAT
66 TTTGTGCT-AGTTGAT
* * * * *
40271316 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCGAGTTGA-TATATCCGGGCTAAGACTCGAGGGC
1 ATATCCGGGCTAAGACCCGAAGGCAATTGTGCTAG-TGATTTTATCCGGGCTAAGACCCGAAGGC
* * *
40271380 ATTTGTGCTTGTGGTT
65 ATTTGTGCTAGTTGAT
40271396 ATATCC-GGCTAA
1 ATATCCGGGCTAA
40271408 ATTCCGAAGA
Statistics
Matches: 152, Mismatches: 17, Indels: 7
0.86 0.10 0.04
Matches are distributed among these distances:
79 6 0.04
80 142 0.93
81 4 0.03
ACGTcount: A:0.24, C:0.20, G:0.29, T:0.27
Consensus pattern (80 bp):
ATATCCGGGCTAAGACCCGAAGGCAATTGTGCTAGTGATTTTATCCGGGCTAAGACCCGAAGGCA
TTTGTGCTAGTTGAT
Found at i:40275615 original size:47 final size:47
Alignment explanation
Indices: 40275561--40275892 Score: 504
Period size: 47 Copynumber: 7.1 Consensus size: 47
40275551 TTAGGATTTT
** * *
40275561 ATGTGATGAATGTGAATGTGTATATATGAGATAAGGCCGAATGGCCA
1 ATGTGATGAATGTGAACATGCATATATGTGATAAGGCCGAATGGCCA
40275608 ATGTGATGAATGTGAACATGCATATATGTGATAAGGCCGAATGGCCA
1 ATGTGATGAATGTGAACATGCATATATGTGATAAGGCCGAATGGCCA
*
40275655 ATGTGATGAATGTGAACATGCATATGTGTGATAAGGCCGAATGGCCA
1 ATGTGATGAATGTGAACATGCATATATGTGATAAGGCCGAATGGCCA
* *
40275702 ATGTGATGAATGTGAACATGCATATGTGTGATAAGGCCGAATAGCCA
1 ATGTGATGAATGTGAACATGCATATATGTGATAAGGCCGAATGGCCA
40275749 ATGTGATGAATGTGAACATGCATATATGTGATAAGGCCGAATGGCCA
1 ATGTGATGAATGTGAACATGCATATATGTGATAAGGCCGAATGGCCA
* *
40275796 ATGTGATGAATGTGAACATGCATATATGTGACAAGGCAGAATGGCCA
1 ATGTGATGAATGTGAACATGCATATATGTGATAAGGCCGAATGGCCA
* * * * * * *
40275843 ATGTGATGAACGTGGAA-GTGTATATATGTGGTAAAGCCGAACGGCTA
1 ATGTGATGAATGT-GAACATGCATATATGTGATAAGGCCGAATGGCCA
40275890 ATG
1 ATG
40275893 CGAAACGTGT
Statistics
Matches: 265, Mismatches: 19, Indels: 2
0.93 0.07 0.01
Matches are distributed among these distances:
47 262 0.99
48 3 0.01
ACGTcount: A:0.34, C:0.12, G:0.29, T:0.26
Consensus pattern (47 bp):
ATGTGATGAATGTGAACATGCATATATGTGATAAGGCCGAATGGCCA
Found at i:40275953 original size:46 final size:46
Alignment explanation
Indices: 40275868--40275956 Score: 115
Period size: 46 Copynumber: 1.9 Consensus size: 46
40275858 AAGTGTATAT
* * *
40275868 ATGTGGTAAAGCCGAACGGCTAATGCGAAACGTGTATGAGATGGAC
1 ATGTGGTAAAGCCAAACGGCTAATGCGAAACATGGATGAGATGGAC
* * * *
40275914 ATGTGGTAAAGCCAAATGGCTAATGTGAGATATGGATGAGATG
1 ATGTGGTAAAGCCAAACGGCTAATGCGAAACATGGATGAGATG
40275957 TGTATATATA
Statistics
Matches: 36, Mismatches: 7, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
46 36 1.00
ACGTcount: A:0.34, C:0.11, G:0.33, T:0.22
Consensus pattern (46 bp):
ATGTGGTAAAGCCAAACGGCTAATGCGAAACATGGATGAGATGGAC
Found at i:40278536 original size:48 final size:48
Alignment explanation
Indices: 40278477--40278713 Score: 282
Period size: 48 Copynumber: 5.2 Consensus size: 48
40278467 AGGGTTACGA
* *
40278477 GAGCTAGTGTAAGACCATGTCTGGGACATGACATCGGCCTTAATATGT
1 GAGCCAGTGTAAGACCATGTCTGGGACATGACATCGGCCTCAATATGT
* *
40278525 GAGCCAGTGTAAGACCTTGT-TTGG--AT--CAT-GGCCTCAATATGT
1 GAGCCAGTGTAAGACCATGTCTGGGACATGACATCGGCCTCAATATGT
** *
40278567 GAGCCAGTGTAAGATTATGTCTGGGACATGATATCGGCCTCAATATGT
1 GAGCCAGTGTAAGACCATGTCTGGGACATGACATCGGCCTCAATATGT
* *
40278615 GAGCCAGTGTAAGACCTTGT-TTGG--AT--CAT-GGCCTCAATATGT
1 GAGCCAGTGTAAGACCATGTCTGGGACATGACATCGGCCTCAATATGT
* **
40278657 GAGCCAATGTAAGATTATGTCTGGGACATGACATCGGCCTCAATATGT
1 GAGCCAGTGTAAGACCATGTCTGGGACATGACATCGGCCTCAATATGT
40278705 GAGCCAGTG
1 GAGCCAGTG
40278714 GTATCAGAGC
Statistics
Matches: 157, Mismatches: 20, Indels: 24
0.78 0.10 0.12
Matches are distributed among these distances:
42 58 0.37
43 11 0.07
45 8 0.05
47 11 0.07
48 69 0.44
ACGTcount: A:0.26, C:0.19, G:0.27, T:0.28
Consensus pattern (48 bp):
GAGCCAGTGTAAGACCATGTCTGGGACATGACATCGGCCTCAATATGT
Found at i:40278571 original size:42 final size:42
Alignment explanation
Indices: 40278512--40278670 Score: 203
Period size: 42 Copynumber: 3.6 Consensus size: 42
40278502 ACATGACATC
*
40278512 GGCCTTAATATGTGAGCCAGTGTAAGACCTTGTTTGGATCAT
1 GGCCTCAATATGTGAGCCAGTGTAAGACCTTGTTTGGATCAT
* * *
40278554 GGCCTCAATATGTGAGCCAGTGTAAGA-TTATGTCTGGGACATGATAT
1 GGCCTCAATATGTGAGCCAGTGTAAGACCT-TGT-TTGG--AT--CAT
40278601 CGGCCTCAATATGTGAGCCAGTGTAAGACCTTGTTTGGATCAT
1 -GGCCTCAATATGTGAGCCAGTGTAAGACCTTGTTTGGATCAT
*
40278644 GGCCTCAATATGTGAGCCAATGTAAGA
1 GGCCTCAATATGTGAGCCAGTGTAAGA
40278671 TTATGTCTGG
Statistics
Matches: 101, Mismatches: 8, Indels: 16
0.81 0.06 0.13
Matches are distributed among these distances:
41 1 0.01
42 55 0.54
43 5 0.05
45 4 0.04
47 5 0.05
48 30 0.30
49 1 0.01
ACGTcount: A:0.26, C:0.18, G:0.26, T:0.30
Consensus pattern (42 bp):
GGCCTCAATATGTGAGCCAGTGTAAGACCTTGTTTGGATCAT
Found at i:40278635 original size:90 final size:90
Alignment explanation
Indices: 40278477--40278713 Score: 420
Period size: 90 Copynumber: 2.6 Consensus size: 90
40278467 AGGGTTACGA
* ** *
40278477 GAGCTAGTGTAAGACCATGTCTGGGACATGACATCGGCCTTAATATGTGAGCCAGTGTAAGACCT
1 GAGCCAGTGTAAGATTATGTCTGGGACATGACATCGGCCTCAATATGTGAGCCAGTGTAAGACCT
40278542 TGTTTGGATCATGGCCTCAATATGT
66 TGTTTGGATCATGGCCTCAATATGT
*
40278567 GAGCCAGTGTAAGATTATGTCTGGGACATGATATCGGCCTCAATATGTGAGCCAGTGTAAGACCT
1 GAGCCAGTGTAAGATTATGTCTGGGACATGACATCGGCCTCAATATGTGAGCCAGTGTAAGACCT
40278632 TGTTTGGATCATGGCCTCAATATGT
66 TGTTTGGATCATGGCCTCAATATGT
*
40278657 GAGCCAATGTAAGATTATGTCTGGGACATGACATCGGCCTCAATATGTGAGCCAGTG
1 GAGCCAGTGTAAGATTATGTCTGGGACATGACATCGGCCTCAATATGTGAGCCAGTG
40278714 GTATCAGAGC
Statistics
Matches: 140, Mismatches: 7, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
90 140 1.00
ACGTcount: A:0.26, C:0.19, G:0.27, T:0.28
Consensus pattern (90 bp):
GAGCCAGTGTAAGATTATGTCTGGGACATGACATCGGCCTCAATATGTGAGCCAGTGTAAGACCT
TGTTTGGATCATGGCCTCAATATGT
Found at i:40284550 original size:49 final size:47
Alignment explanation
Indices: 40284331--40284585 Score: 366
Period size: 47 Copynumber: 5.4 Consensus size: 47
40284321 CTTCGGGACT
* * * *
40284331 TATCACATTTATACACTTTCACATCCATCACATTGGCCATTCGGCCT
1 TATCACATATATACACTTTCACATTCATCACATTGGCCACTCGGCCC
* * * *
40284378 TATCACATATATACACTTTCACATTCATCACATTGGCCATTAGGTCT
1 TATCACATATATACACTTTCACATTCATCACATTGGCCACTCGGCCC
* * *
40284425 TATCTCATATATACACTTTCACATTCATCACGTTGGTCACTCGGCCC
1 TATCACATATATACACTTTCACATTCATCACATTGGCCACTCGGCCC
*
40284472 TATCACATATATACACTTTCACATTCATCACGTTGGCCACTCGGCCC
1 TATCACATATATACACTTTCACATTCATCACATTGGCCACTCGGCCC
*
40284519 TATCACATATATATATACTTTCACATTCATCACATTGGCCACTCGGCCC
1 TATCAC--ATATATACACTTTCACATTCATCACATTGGCCACTCGGCCC
*
40284568 TATCACATATATATACTT
1 TATCACATATATACACTT
40284586 GTACATCAAT
Statistics
Matches: 191, Mismatches: 15, Indels: 4
0.91 0.07 0.02
Matches are distributed among these distances:
47 146 0.76
49 45 0.24
ACGTcount: A:0.27, C:0.30, G:0.09, T:0.34
Consensus pattern (47 bp):
TATCACATATATACACTTTCACATTCATCACATTGGCCACTCGGCCC
Found at i:40287713 original size:8 final size:8
Alignment explanation
Indices: 40287698--40287738 Score: 66
Period size: 8 Copynumber: 5.2 Consensus size: 8
40287688 ATGAATCGGC
40287698 AAGCCGAA
1 AAGCCGAA
*
40287706 ATGCCGAA
1 AAGCCGAA
40287714 AAGCCGAA
1 AAGCCGAA
40287722 AAGCCGAA
1 AAGCCGAA
40287730 AAGCC-AA
1 AAGCCGAA
40287737 AA
1 AA
40287739 TACTGAAAAG
Statistics
Matches: 31, Mismatches: 2, Indels: 1
0.91 0.06 0.03
Matches are distributed among these distances:
7 4 0.13
8 27 0.87
ACGTcount: A:0.51, C:0.24, G:0.22, T:0.02
Consensus pattern (8 bp):
AAGCCGAA
Found at i:40287719 original size:16 final size:16
Alignment explanation
Indices: 40287698--40287754 Score: 69
Period size: 16 Copynumber: 3.6 Consensus size: 16
40287688 ATGAATCGGC
40287698 AAGCCGAAATGCCGAA
1 AAGCCGAAATGCCGAA
*
40287714 AAGCCGAAAAGCCGAA
1 AAGCCGAAATGCCGAA
* * *
40287730 AAGCCAAAATACTGAA
1 AAGCCGAAATGCCGAA
*
40287746 AAGTCGAAA
1 AAGCCGAAA
40287755 GTTAGGCTAC
Statistics
Matches: 34, Mismatches: 7, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
16 34 1.00
ACGTcount: A:0.51, C:0.21, G:0.21, T:0.07
Consensus pattern (16 bp):
AAGCCGAAATGCCGAA
Found at i:40287896 original size:18 final size:19
Alignment explanation
Indices: 40287861--40287898 Score: 60
Period size: 19 Copynumber: 2.1 Consensus size: 19
40287851 CGAATTGGCC
40287861 AAATGGGCCAGAATGGGCT
1 AAATGGGCCAGAATGGGCT
*
40287880 AAATGGGCCCG-ATGGGCT
1 AAATGGGCCAGAATGGGCT
40287898 A
1 A
40287899 TTGGGCCCAT
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
18 8 0.44
19 10 0.56
ACGTcount: A:0.29, C:0.18, G:0.37, T:0.16
Consensus pattern (19 bp):
AAATGGGCCAGAATGGGCT
Found at i:40288010 original size:29 final size:29
Alignment explanation
Indices: 40287965--40288041 Score: 111
Period size: 29 Copynumber: 2.7 Consensus size: 29
40287955 GTGAGCATGA
* *
40287965 ATATGCATGTGATTTGGGCCTGATGGGCC
1 ATATGAATGTGAATTGGGCCTGATGGGCC
40287994 ATATGAATGTGAATTGGGCCTGATGGGCC
1 ATATGAATGTGAATTGGGCCTGATGGGCC
* *
40288023 ATATAAATGAG-ATTGGGCC
1 ATATGAATGTGAATTGGGCC
40288042 AAGTGGGTCA
Statistics
Matches: 44, Mismatches: 4, Indels: 1
0.90 0.08 0.02
Matches are distributed among these distances:
28 8 0.18
29 36 0.82
ACGTcount: A:0.25, C:0.14, G:0.32, T:0.29
Consensus pattern (29 bp):
ATATGAATGTGAATTGGGCCTGATGGGCC
Found at i:40290873 original size:96 final size:96
Alignment explanation
Indices: 40290709--40291039 Score: 446
Period size: 96 Copynumber: 3.4 Consensus size: 96
40290699 ATACTAGGGT
* * *** *
40290709 TATGAGAGCTAGTGTAAGACCATGTCTGGGAAATGACATTAACCTTAATATATGAGCCAGTGTAA
1 TATGAGAGCTAGTGTAAGACCATGTCTGGGACATGGCATCGGCCTCAATATATGAGCCAGTGTAA
* * *
40290774 GACCATTTTTGGAGCATGGCATCGGCACTGA
66 GACCATGTTTGGAACATGGCATCGGCATTGA
* * *
40290805 TATGAGAGCTAGTGTAAGACCATGTCTGGGACATGGCATCGGCCTCAATATGTGATCCAGTATAA
1 TATGAGAGCTAGTGTAAGACCATGTCTGGGACATGGCATCGGCCTCAATATATGAGCCAGTGTAA
*
40290870 GACCATGTTTGGAACATGGCATCGACATTGA
66 GACCATGTTTGGAACATGGCATCGGCATTGA
* * *
40290901 TATGAGAGCTAGTGTAAGATCATGTCTGGGACATGGCATTGGCCTCAATATATGAGCCAGCGTAA
1 TATGAGAGCTAGTGTAAGACCATGTCTGGGACATGGCATCGGCCTCAATATATGAGCCAGTGTAA
* * * *
40290966 GTCCATGTTTGGAACATGCCATCAGCATTGT
66 GACCATGTTTGGAACATGGCATCGGCATTGA
* * * *
40290997 TATGTGAGCCAGTGCAAGACCATGTCCGGGACATGGCATCGGC
1 TATGAGAGCTAGTGTAAGACCATGTCTGGGACATGGCATCGGC
40291040 ATTTCACCTT
Statistics
Matches: 205, Mismatches: 30, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
96 205 1.00
ACGTcount: A:0.28, C:0.19, G:0.27, T:0.26
Consensus pattern (96 bp):
TATGAGAGCTAGTGTAAGACCATGTCTGGGACATGGCATCGGCCTCAATATATGAGCCAGTGTAA
GACCATGTTTGGAACATGGCATCGGCATTGA
Found at i:40291042 original size:48 final size:48
Alignment explanation
Indices: 40290709--40291042 Score: 292
Period size: 48 Copynumber: 7.0 Consensus size: 48
40290699 ATACTAGGGT
* * * * *** * *
40290709 TATGAGAGCTAGTGTAAGACCATGTCTGGGAAATGACATTAACCTTAA
1 TATGTGAGCCAGTGTAAGACCATGTCTGGGACATGGCATCGGCATTGA
* * * *
40290757 TATATGAGCCAGTGTAAGACCAT-TTTTGGAGCATGGCATCGGCACTGA
1 TATGTGAGCCAGTGTAAGACCATGTCTGGGA-CATGGCATCGGCATTGA
* * * **
40290805 TATGAGAGCTAGTGTAAGACCATGTCTGGGACATGGCATCGGCCTCAA
1 TATGTGAGCCAGTGTAAGACCATGTCTGGGACATGGCATCGGCATTGA
* * * * *
40290853 TATGTGATCCAGTATAAGACCATGTTTGGAACATGGCATCGACATTGA
1 TATGTGAGCCAGTGTAAGACCATGTCTGGGACATGGCATCGGCATTGA
* * * * * **
40290901 TATGAGAGCTAGTGTAAGATCATGTCTGGGACATGGCATTGGCCTCAA
1 TATGTGAGCCAGTGTAAGACCATGTCTGGGACATGGCATCGGCATTGA
* * * * * * * *
40290949 TATATGAGCCAGCGTAAGTCCATGTTTGGAACATGCCATCAGCATTGT
1 TATGTGAGCCAGTGTAAGACCATGTCTGGGACATGGCATCGGCATTGA
* *
40290997 TATGTGAGCCAGTGCAAGACCATGTCCGGGACATGGCATCGGCATT
1 TATGTGAGCCAGTGTAAGACCATGTCTGGGACATGGCATCGGCATT
40291043 TCACCTTTTT
Statistics
Matches: 216, Mismatches: 68, Indels: 4
0.75 0.24 0.01
Matches are distributed among these distances:
47 5 0.02
48 206 0.95
49 5 0.02
ACGTcount: A:0.28, C:0.19, G:0.26, T:0.26
Consensus pattern (48 bp):
TATGTGAGCCAGTGTAAGACCATGTCTGGGACATGGCATCGGCATTGA
Found at i:40292973 original size:19 final size:19
Alignment explanation
Indices: 40292946--40292984 Score: 60
Period size: 19 Copynumber: 2.1 Consensus size: 19
40292936 AACTCCCTCA
*
40292946 ACCCGATCCAATTAACTGG
1 ACCCAATCCAATTAACTGG
*
40292965 ACCCAATCCAATTAATTGG
1 ACCCAATCCAATTAACTGG
40292984 A
1 A
40292985 TCCAGATCTT
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
19 18 1.00
ACGTcount: A:0.36, C:0.28, G:0.13, T:0.23
Consensus pattern (19 bp):
ACCCAATCCAATTAACTGG
Found at i:40293090 original size:60 final size:60
Alignment explanation
Indices: 40292997--40293117 Score: 242
Period size: 60 Copynumber: 2.0 Consensus size: 60
40292987 CAGATCTTGG
40292997 ATATTACCACATGAACACAGACACAAGTTTAATCTACTTATACAATCTACAGTTAATTAA
1 ATATTACCACATGAACACAGACACAAGTTTAATCTACTTATACAATCTACAGTTAATTAA
40293057 ATATTACCACATGAACACAGACACAAGTTTAATCTACTTATACAATCTACAGTTAATTAA
1 ATATTACCACATGAACACAGACACAAGTTTAATCTACTTATACAATCTACAGTTAATTAA
40293117 A
1 A
40293118 CTAACTTAAT
Statistics
Matches: 61, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
60 61 1.00
ACGTcount: A:0.44, C:0.20, G:0.07, T:0.30
Consensus pattern (60 bp):
ATATTACCACATGAACACAGACACAAGTTTAATCTACTTATACAATCTACAGTTAATTAA
Found at i:40295477 original size:24 final size:24
Alignment explanation
Indices: 40295449--40295547 Score: 75
Period size: 24 Copynumber: 4.3 Consensus size: 24
40295439 AGCTCCTATA
40295449 TCAGCTCGTAAGAGCTTACCGTTT
1 TCAGCTCGTAAGAGCTTACCGTTT
* **
40295473 TCAGCTCATTGGAGCTTACCGTTT
1 TCAGCTCGTAAGAGCTTACCGTTT
* * *
40295497 T-AACTCTTATGAGCTTA---TTAT
1 TCAGCTCGTAAGAGCTTACCGTT-T
*
40295518 TCAGCTCG-ATAGAGCTTACGGTTT
1 TCAGCTCGTA-AGAGCTTACCGTTT
40295542 T-AGCTC
1 TCAGCTC
40295548 AATAAAGTTT
Statistics
Matches: 59, Mismatches: 10, Indels: 13
0.72 0.12 0.16
Matches are distributed among these distances:
20 2 0.03
21 3 0.05
22 11 0.19
23 17 0.29
24 24 0.41
25 2 0.03
ACGTcount: A:0.21, C:0.22, G:0.19, T:0.37
Consensus pattern (24 bp):
TCAGCTCGTAAGAGCTTACCGTTT
Found at i:40303660 original size:43 final size:43
Alignment explanation
Indices: 40303511--40303665 Score: 120
Period size: 43 Copynumber: 3.6 Consensus size: 43
40303501 GATTACCGAG
* * **
40303511 ATGAGATTACATGTAAGATCATGTCTGGGACATTGGCATTCTTT
1 ATGAGATTACATATAAGACCATGTCTGGGACATTGGCA-TCGAT
* ** * *
40303555 A-GTGATTACGCATAA-ACCATGTCTGGGACATT-TCTATCGGT
1 ATGAGATTACATATAAGACCATGTCTGGGACATTGGC-ATCGAT
* * * *
40303596 AT-ATGATTTCGTGTAACACCATGTCTGGGACATTGGCATCGAT
1 ATGA-GATTACATATAAGACCATGTCTGGGACATTGGCATCGAT
* *
40303639 ATGAGATAACATATAAGACCATATCTG
1 ATGAGATTACATATAAGACCATGTCTG
40303666 AGATATGGCA
Statistics
Matches: 85, Mismatches: 20, Indels: 13
0.72 0.17 0.11
Matches are distributed among these distances:
41 5 0.06
42 26 0.31
43 51 0.60
44 3 0.04
ACGTcount: A:0.30, C:0.17, G:0.21, T:0.32
Consensus pattern (43 bp):
ATGAGATTACATATAAGACCATGTCTGGGACATTGGCATCGAT
Found at i:40307425 original size:47 final size:47
Alignment explanation
Indices: 40307348--40307800 Score: 717
Period size: 47 Copynumber: 9.6 Consensus size: 47
40307338 TTAAACCCAT
40307348 ATGTGAAAGTGTATATATATGTGATAAGGCCTAATGGCCGATGTGATGA
1 ATGTGAAAGTG--TATATATGTGATAAGGCCTAATGGCCGATGTGATGA
40307397 ATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGA
1 ATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGA
40307444 ATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGA
1 ATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGA
40307491 ATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGA
1 ATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGA
* *
40307538 ATGTGAAAGTGTATATGTGTGATAAGGCCTAATAGCCGATGTGATGA
1 ATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGA
*
40307585 ATGTGAAAGTGTATATATATGTGATAAGGCTTAATGGCCGATGTGATGA
1 ATGTGAAAGTG--TATATATGTGATAAGGCCTAATGGCCGATGTGATGA
** *
40307634 ATGTGAAAGTGTATATGCGTGATAAGGCTTAATGGCCGATGTGATGA
1 ATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGA
** *
40307681 ATGTGAAAGTGTATATGCGTGATAAGGCTTAATGGCCGATGTGATGA
1 ATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGA
* * * * * *
40307728 ATGTGAAAGTGTATATATGTGACAGGGCCGAGTGGCCAATGTGATGG
1 ATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGA
* *
40307775 ATGTGAAAGTGCATAAATGTGATAAG
1 ATGTGAAAGTGTATATATGTGATAAG
40307801 TCCCGAAGGG
Statistics
Matches: 382, Mismatches: 20, Indels: 6
0.94 0.05 0.01
Matches are distributed among these distances:
47 327 0.86
49 55 0.14
ACGTcount: A:0.32, C:0.08, G:0.30, T:0.30
Consensus pattern (47 bp):
ATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGA
Found at i:40307772 original size:237 final size:237
Alignment explanation
Indices: 40307348--40307800 Score: 762
Period size: 237 Copynumber: 1.9 Consensus size: 237
40307338 TTAAACCCAT
40307348 ATGTGAAAGTGTATATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATAT
1 ATGTGAAAGTGTATATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATAT
* *
40307413 ATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATG
66 ACGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATACGTGATAAGGCCTAATG
* * *
40307478 GCCGATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTG
131 GCCGATGTGATGAATGTGAAAGTGTATATATGTGACAAGGCCGAATGGCCAATGTGATGAATGTG
* **
40307543 AAAGTGTATATGTGTGATAAGGCCTAATAGCCGATGTGATGA
196 AAAGTGCATAAATGTGATAAGGCCTAATAGCCGATGTGATGA
*
40307585 ATGTGAAAGTGTATATATATGTGATAAGGCTTAATGGCCGATGTGATGAATGTGAAAGTGTATAT
1 ATGTGAAAGTGTATATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATAT
* * * *
40307650 GCGTGATAAGGCTTAATGGCCGATGTGATGAATGTGAAAGTGTATATGCGTGATAAGGCTTAATG
66 ACGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATACGTGATAAGGCCTAATG
* * *
40307715 GCCGATGTGATGAATGTGAAAGTGTATATATGTGACAGGGCCGAGTGGCCAATGTGATGGATGTG
131 GCCGATGTGATGAATGTGAAAGTGTATATATGTGACAAGGCCGAATGGCCAATGTGATGAATGTG
40307780 AAAGTGCATAAATGTGATAAG
196 AAAGTGCATAAATGTGATAAG
40307801 TCCCGAAGGG
Statistics
Matches: 200, Mismatches: 16, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
237 200 1.00
ACGTcount: A:0.32, C:0.08, G:0.30, T:0.30
Consensus pattern (237 bp):
ATGTGAAAGTGTATATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATAT
ACGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATACGTGATAAGGCCTAATG
GCCGATGTGATGAATGTGAAAGTGTATATATGTGACAAGGCCGAATGGCCAATGTGATGAATGTG
AAAGTGCATAAATGTGATAAGGCCTAATAGCCGATGTGATGA
Found at i:40307975 original size:37 final size:37
Alignment explanation
Indices: 40307921--40307996 Score: 107
Period size: 37 Copynumber: 2.1 Consensus size: 37
40307911 GAGTTCTAAG
* * * *
40307921 GACCCGATGACTACGTGTGGGGATTTTGTCCTGGTAA
1 GACCCGATAACTACGTGTGGAGATTATGTCCGGGTAA
*
40307958 GACCCGATAACTTCGTGTGGAGATTATGTCCGGGTAA
1 GACCCGATAACTACGTGTGGAGATTATGTCCGGGTAA
40307995 GA
1 GA
40307997 TTTCGTAATA
Statistics
Matches: 34, Mismatches: 5, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
37 34 1.00
ACGTcount: A:0.22, C:0.18, G:0.32, T:0.28
Consensus pattern (37 bp):
GACCCGATAACTACGTGTGGAGATTATGTCCGGGTAA
Found at i:40309994 original size:43 final size:43
Alignment explanation
Indices: 40309849--40309991 Score: 277
Period size: 43 Copynumber: 3.3 Consensus size: 43
40309839 TTGGTTTTCA
40309849 GCACTAAGTGTGCGAGCAATAAGTGTTCACGGTTGTGAGATTG
1 GCACTAAGTGTGCGAGCAATAAGTGTTCACGGTTGTGAGATTG
40309892 GCACTAAGTGTGCGAGCAATAAGTGTTCACGGTTGTGAGATTG
1 GCACTAAGTGTGCGAGCAATAAGTGTTCACGGTTGTGAGATTG
*
40309935 GCACTAAGTGTGCGGGCAATAAGTGTTCACGGTTGTGAGATTG
1 GCACTAAGTGTGCGAGCAATAAGTGTTCACGGTTGTGAGATTG
40309978 GCACTAAGTGTGCG
1 GCACTAAGTGTGCG
40309992 GGCTTGAAAT
Statistics
Matches: 99, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
43 99 1.00
ACGTcount: A:0.24, C:0.15, G:0.34, T:0.27
Consensus pattern (43 bp):
GCACTAAGTGTGCGAGCAATAAGTGTTCACGGTTGTGAGATTG
Found at i:40310011 original size:29 final size:29
Alignment explanation
Indices: 40309976--40310049 Score: 105
Period size: 29 Copynumber: 2.6 Consensus size: 29
40309966 GTTGTGAGAT
* *
40309976 TGGCACTAAGTGTGCGGGCTTGAAA-TGCA
1 TGGCACTAAGTGTGCGAG-TTGAAAGTACA
*
40310005 TGGCACTAAGTGTGCGAGTTTAAAGTACA
1 TGGCACTAAGTGTGCGAGTTGAAAGTACA
40310034 TGGCACTAAGTGTGCG
1 TGGCACTAAGTGTGCG
40310050 TGGTTGATTA
Statistics
Matches: 41, Mismatches: 3, Indels: 2
0.89 0.07 0.04
Matches are distributed among these distances:
28 5 0.12
29 36 0.88
ACGTcount: A:0.26, C:0.16, G:0.32, T:0.26
Consensus pattern (29 bp):
TGGCACTAAGTGTGCGAGTTGAAAGTACA
Found at i:40310388 original size:40 final size:40
Alignment explanation
Indices: 40310344--40310569 Score: 199
Period size: 40 Copynumber: 5.7 Consensus size: 40
40310334 CATTTGAATG
* *
40310344 ATATCCGGGCTAAGTCCTGAAG-GCAATT-GAGCTAGTGATT
1 ATATCCGGGCTAAGTCCCGAAGAGC-ATTCGTGCTAGTGA-T
* * * *
40310384 ATATCCGGTCTAAGACCCGAAG-GCATTTGTGCAAGTTGAT
1 ATATCCGGGCTAAGTCCCGAAGAGCATTCGTGCTAG-TGAT
* * * *
40310424 ATATCCGGGCTAAGACCCGAAG-GCATTGGTGCGAGTTACT
1 ATATCCGGGCTAAGTCCCGAAGAGCATTCGTGCTAGTGA-T
* * * * *
40310464 AAATCCGGGCTAAATTCTGAAGAGCATTCGTGCTAGTGAG
1 ATATCCGGGCTAAGTCCCGAAGAGCATTCGTGCTAGTGAT
* * * * *
40310504 GTATCCGGACTAAGTTCCGAAGAGCATTCGTGCTGGTGTT
1 ATATCCGGGCTAAGTCCCGAAGAGCATTCGTGCTAGTGAT
*
40310544 ATATCCGGGCTAGGTCCCGAAGAGCA
1 ATATCCGGGCTAAGTCCCGAAGAGCA
40310570 ATCATGCTGG
Statistics
Matches: 152, Mismatches: 30, Indels: 8
0.80 0.16 0.04
Matches are distributed among these distances:
39 5 0.03
40 131 0.86
41 16 0.11
ACGTcount: A:0.26, C:0.20, G:0.28, T:0.25
Consensus pattern (40 bp):
ATATCCGGGCTAAGTCCCGAAGAGCATTCGTGCTAGTGAT
Found at i:40310578 original size:40 final size:40
Alignment explanation
Indices: 40310505--40310581 Score: 109
Period size: 40 Copynumber: 1.9 Consensus size: 40
40310495 GCTAGTGAGG
* * *
40310505 TATCCGGACTAAGTTCCGAAGAGCATTCGTGCTGGTGTTA
1 TATCCGGACTAAGTCCCGAAGAGCAATCATGCTGGTGTTA
* *
40310545 TATCCGGGCTAGGTCCCGAAGAGCAATCATGCTGGTG
1 TATCCGGACTAAGTCCCGAAGAGCAATCATGCTGGTG
40310582 ACATGTATTC
Statistics
Matches: 32, Mismatches: 5, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
40 32 1.00
ACGTcount: A:0.22, C:0.22, G:0.30, T:0.26
Consensus pattern (40 bp):
TATCCGGACTAAGTCCCGAAGAGCAATCATGCTGGTGTTA
Found at i:40314100 original size:47 final size:47
Alignment explanation
Indices: 40313964--40314514 Score: 832
Period size: 47 Copynumber: 11.6 Consensus size: 47
40313954 TTAAACCCAT
40313964 ATGTGAAAGTGTATATATATGTGATAAGGCCTAATGGCCGATGTGATGA
1 ATGTGAAAGTG--TATATATGTGATAAGGCCTAATGGCCGATGTGATGA
40314013 ATGTGAAAGTGTATATATATGTGATAAGGCCTAATGGCCGATGTGATGA
1 ATGTGAAAGTG--TATATATGTGATAAGGCCTAATGGCCGATGTGATGA
* *
40314062 ATGTGAAAGTGTATATGTGTGATAAGGCCTAATAGCCGATGTGATGA
1 ATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGA
* *
40314109 ATGTGAAAGTGTATATATATGTGACAAGGCTTAATGGCCGATGTGATGA
1 ATGTGAAAGTG--TATATATGTGATAAGGCCTAATGGCCGATGTGATGA
40314158 ATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGA
1 ATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGA
40314205 ATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGA
1 ATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGA
* *
40314252 ATGTGAAAGTGTATATGTGTGATAAGGCCTAATAGCCGATGTGATGA
1 ATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGA
* *
40314299 ATGTGAAAGTGTATATATATGTGACAAGGCTTAATGGCCGATGTGATGA
1 ATGTGAAAGTG--TATATATGTGATAAGGCCTAATGGCCGATGTGATGA
** *
40314348 ATGTGAAAGTGTATATGCGTGATAAGGCTTAATGGCCGATGTGATGA
1 ATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGA
** *
40314395 ATGTGAAAGTGTATATGCGTGATAAGGCTTAATGGCCGATGTGATGA
1 ATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGA
* * * * * *
40314442 ATGTGAAAGTGTATATATGTGACAGGGCCGAGTGGCCAATGTGATGG
1 ATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGA
* *
40314489 ATGTGAAAGTGCATAAATGTGATAAG
1 ATGTGAAAGTGTATATATGTGATAAG
40314515 TCCCGAAGGG
Statistics
Matches: 468, Mismatches: 30, Indels: 10
0.92 0.06 0.02
Matches are distributed among these distances:
47 322 0.69
49 146 0.31
ACGTcount: A:0.32, C:0.08, G:0.30, T:0.30
Consensus pattern (47 bp):
ATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGA
Found at i:40314235 original size:143 final size:142
Alignment explanation
Indices: 40313964--40314514 Score: 836
Period size: 143 Copynumber: 3.9 Consensus size: 142
40313954 TTAAACCCAT
40313964 ATGTGAAAGTGTATATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATAT
1 ATGTGAAAGTG--TATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTG-ATAT
* *
40314029 ATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATGTGTGATAAGGCCTAA
63 ATATGTGACAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAA
*
40314094 TAGCCGATGTGATGA
128 TGGCCGATGTGATGA
* *
40314109 ATGTGAAAGTGTATATATATGTGACAAGGCTTAATGGCCGATGTGATGAATGTGAAAGTG-TATA
1 ATGTGAAAGTG--TATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGATATA
*
40314173 TATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAAT
64 TATGTGACAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAAT
40314238 GGCCGATGTGATGA
129 GGCCGATGTGATGA
* *
40314252 ATGTGAAAGTGTATATGTGTGATAAGGCCTAATAGCCGATGTGATGAATGTGAAAGTGTATATAT
1 ATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTG-ATATAT
* ** *
40314317 ATGTGACAAGGCTTAATGGCCGATGTGATGAATGTGAAAGTGTATATGCGTGATAAGGCTTAATG
65 ATGTGACAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATG
40314382 GCCGATGTGATGA
130 GCCGATGTGATGA
** *
40314395 ATGTGAAAGTGTATATGCGTGATAAGGCTTAATGGCCGATGTGATGAATGTGAAAGTG-TATATA
1 ATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGATATATA
* * * * * * *
40314459 TGTGACAGGGCCGAGTGGCCAATGTGATGGATGTGAAAGTGCATAAATGTGATAAG
66 TGTGACAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGATAAG
40314515 TCCCGAAGGG
Statistics
Matches: 378, Mismatches: 26, Indels: 8
0.92 0.06 0.02
Matches are distributed among these distances:
141 95 0.25
143 225 0.60
145 58 0.15
ACGTcount: A:0.32, C:0.08, G:0.30, T:0.30
Consensus pattern (142 bp):
ATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGATATATA
TGTGACAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGG
CCGATGTGATGA
Found at i:40314291 original size:190 final size:190
Alignment explanation
Indices: 40313964--40314499 Score: 910
Period size: 190 Copynumber: 2.8 Consensus size: 190
40313954 TTAAACCCAT
40313964 ATGTGAAAGTGTATATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATAT
1 ATGTGAAAGTG--TATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTG--TAT
40314029 ATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATGTGTGATAAGGCCTAA
62 ATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATGTGTGATAAGGCCTAA
40314094 TAGCCGATGTGATGAATGTGAAAGTGTATATATATGTGACAAGGCTTAATGGCCGATGTGATGA
127 TAGCCGATGTGATGAATGTGAAAGTGTATATATATGTGACAAGGCTTAATGGCCGATGTGATGA
40314158 ATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATAT
1 ATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATAT
40314223 GTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATGTGTGATAAGGCCTAATAGC
66 GTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATGTGTGATAAGGCCTAATAGC
40314288 CGATGTGATGAATGTGAAAGTGTATATATATGTGACAAGGCTTAATGGCCGATGTGATGA
131 CGATGTGATGAATGTGAAAGTGTATATATATGTGACAAGGCTTAATGGCCGATGTGATGA
** * **
40314348 ATGTGAAAGTGTATATGCGTGATAAGGCTTAATGGCCGATGTGATGAATGTGAAAGTGTATATGC
1 ATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATAT
* * * * * * *
40314413 GTGATAAGGCTTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGACAGGGCCGAGTGGC
66 GTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATGTGTGATAAGGCCTAATAGC
* *
40314478 CAATGTGATGGATGTGAAAGTG
131 CGATGTGATGAATGTGAAAGTG
40314500 CATAAATGTG
Statistics
Matches: 328, Mismatches: 14, Indels: 4
0.95 0.04 0.01
Matches are distributed among these distances:
190 270 0.82
192 47 0.14
194 11 0.03
ACGTcount: A:0.32, C:0.08, G:0.30, T:0.30
Consensus pattern (190 bp):
ATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATAT
GTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATGTGTGATAAGGCCTAATAGC
CGATGTGATGAATGTGAAAGTGTATATATATGTGACAAGGCTTAATGGCCGATGTGATGA
Found at i:40314689 original size:37 final size:37
Alignment explanation
Indices: 40314635--40314710 Score: 125
Period size: 37 Copynumber: 2.1 Consensus size: 37
40314625 GAGTTCTAAG
* *
40314635 GACCCGATGACTACGTGTGGGGATTTTGTCCGGGTAA
1 GACCCGATAACTACGTGTGGGGATTATGTCCGGGTAA
*
40314672 GACCCGATAACTTCGTGTGGGGATTATGTCCGGGTAA
1 GACCCGATAACTACGTGTGGGGATTATGTCCGGGTAA
40314709 GA
1 GA
40314711 TTTCGTAATA
Statistics
Matches: 36, Mismatches: 3, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
37 36 1.00
ACGTcount: A:0.21, C:0.18, G:0.34, T:0.26
Consensus pattern (37 bp):
GACCCGATAACTACGTGTGGGGATTATGTCCGGGTAA
Found at i:40320486 original size:90 final size:90
Alignment explanation
Indices: 40320333--40320520 Score: 367
Period size: 90 Copynumber: 2.1 Consensus size: 90
40320323 GAATGCCAGT
*
40320333 CAGGCTGGTACACAGCCTAGCACACAGTCTGGCACAGGGGCGTGTGTAGCTATTTTGAGAGTTAC
1 CAGGCTGGTACACAGCCTAGCACACAGTCTGGCACAAGGGCGTGTGTAGCTATTTTGAGAGTTAC
40320398 ACGGCCTGGCACACGAGTGACGACA
66 ACGGCCTGGCACACGAGTGACGACA
40320423 CAGGCTGGTACACAGCCTAGCACACAGTCTGGCACAAGGGCGTGTGTAGCTATTTTGAGAGTTAC
1 CAGGCTGGTACACAGCCTAGCACACAGTCTGGCACAAGGGCGTGTGTAGCTATTTTGAGAGTTAC
40320488 ACGGCCTGGCACACGAGTGACGACA
66 ACGGCCTGGCACACGAGTGACGACA
40320513 CAGGCTGG
1 CAGGCTGG
40320521 GACATGGTCG
Statistics
Matches: 97, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
90 97 1.00
ACGTcount: A:0.24, C:0.26, G:0.31, T:0.19
Consensus pattern (90 bp):
CAGGCTGGTACACAGCCTAGCACACAGTCTGGCACAAGGGCGTGTGTAGCTATTTTGAGAGTTAC
ACGGCCTGGCACACGAGTGACGACA
Found at i:40321300 original size:30 final size:30
Alignment explanation
Indices: 40321256--40321313 Score: 98
Period size: 30 Copynumber: 1.9 Consensus size: 30
40321246 ACTTAACAAG
40321256 CAAATGCCTCTAAAATAATAACAAAATTTA
1 CAAATGCCTCTAAAATAATAACAAAATTTA
* *
40321286 CAAATGTCTTTAAAATAATAACAAAATT
1 CAAATGCCTCTAAAATAATAACAAAATT
40321314 AATAATAAAA
Statistics
Matches: 26, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
30 26 1.00
ACGTcount: A:0.53, C:0.14, G:0.03, T:0.29
Consensus pattern (30 bp):
CAAATGCCTCTAAAATAATAACAAAATTTA
Found at i:40323584 original size:19 final size:19
Alignment explanation
Indices: 40323545--40323584 Score: 62
Period size: 19 Copynumber: 2.1 Consensus size: 19
40323535 TTTGGGCTCC
*
40323545 CATGTCCAATTTACAATTT
1 CATGTCCAATTTACAAGTT
*
40323564 CATGTCCAATTTTCAAGTT
1 CATGTCCAATTTACAAGTT
40323583 CA
1 CA
40323585 ATTACCCATT
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
19 19 1.00
ACGTcount: A:0.30, C:0.23, G:0.07, T:0.40
Consensus pattern (19 bp):
CATGTCCAATTTACAAGTT
Found at i:40331084 original size:21 final size:21
Alignment explanation
Indices: 40331060--40331108 Score: 80
Period size: 21 Copynumber: 2.3 Consensus size: 21
40331050 ACGACCTGTA
*
40331060 GCACGGGTGTGCTTTAGGGTC
1 GCACGGGTGTGCCTTAGGGTC
40331081 GCACGGGTGTGCCTTAGGGTC
1 GCACGGGTGTGCCTTAGGGTC
*
40331102 ACACGGG
1 GCACGGG
40331109 CGTGTCCCTA
Statistics
Matches: 26, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
21 26 1.00
ACGTcount: A:0.12, C:0.22, G:0.43, T:0.22
Consensus pattern (21 bp):
GCACGGGTGTGCCTTAGGGTC
Found at i:40342087 original size:27 final size:27
Alignment explanation
Indices: 40341982--40342088 Score: 94
Period size: 27 Copynumber: 4.0 Consensus size: 27
40341972 ATTTTTTGGC
*
40341982 GCAATATGAAAGGAAAGCCTTTGT-GG
1 GCAATATGAAAGGAATGCCTTTGTAGG
* * * *
40342008 TGCAATATAAAAGAAATGTC-TT-TATG
1 -GCAATATGAAAGGAATGCCTTTGTAGG
* *
40342034 GCAATTTATTAAAGGAATGCTTTTGTAGG
1 GCAA--TATGAAAGGAATGCCTTTGTAGG
*
40342063 GCAATATGAAAGGAACGCCTTTGTAG
1 GCAATATGAAAGGAATGCCTTTGTAG
40342089 TGAATCATGA
Statistics
Matches: 62, Mismatches: 13, Indels: 10
0.73 0.15 0.12
Matches are distributed among these distances:
25 5 0.08
26 3 0.05
27 45 0.73
28 2 0.03
29 7 0.11
ACGTcount: A:0.36, C:0.10, G:0.24, T:0.30
Consensus pattern (27 bp):
GCAATATGAAAGGAATGCCTTTGTAGG
Found at i:40352836 original size:47 final size:47
Alignment explanation
Indices: 40352767--40352862 Score: 183
Period size: 47 Copynumber: 2.0 Consensus size: 47
40352757 CGAGTCCTCA
40352767 AGCTCTGTGAGACAGGGAAAAAGAGAGGGGTAAGCATTTACATGCTT
1 AGCTCTGTGAGACAGGGAAAAAGAGAGGGGTAAGCATTTACATGCTT
*
40352814 AGCTCTGTGAGACAGGGAAAAAGAGAGGGGTAAGCATTTACATTCTT
1 AGCTCTGTGAGACAGGGAAAAAGAGAGGGGTAAGCATTTACATGCTT
40352861 AG
1 AG
40352863 TAAGCTCAAA
Statistics
Matches: 48, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
47 48 1.00
ACGTcount: A:0.34, C:0.12, G:0.31, T:0.22
Consensus pattern (47 bp):
AGCTCTGTGAGACAGGGAAAAAGAGAGGGGTAAGCATTTACATGCTT
Found at i:40360613 original size:40 final size:40
Alignment explanation
Indices: 40360558--40360708 Score: 146
Period size: 40 Copynumber: 3.8 Consensus size: 40
40360548 GGATATAGCT
*
40360558 ACTCGCTCAAATGCCTTCGGGACATAGCCCGG-TTAGAGTA
1 ACTCGCACAAATGCCTTCGGGACATAGCCCGGATT-GAGTA
* * *
40360598 ACTCGCACAATTGCCTTCGGGACTTAGCCCGGATTTAGTA
1 ACTCGCACAAATGCCTTCGGGACATAGCCCGGATTGAGTA
* * * * *
40360638 ACTCACACAAATGCCTTCGGGAC-TTGCCTGGAACT-AGTC
1 ACTCGCACAAATGCCTTCGGGACATAGCCCGG-ATTGAGTA
* * * *
40360677 ACTAGCGCAGATGCCTTCGGGACTTAGCCCGG
1 ACTCGCACAAATGCCTTCGGGACATAGCCCGG
40360709 TTATCGTCCA
Statistics
Matches: 92, Mismatches: 16, Indels: 6
0.81 0.14 0.05
Matches are distributed among these distances:
39 28 0.30
40 62 0.67
41 2 0.02
ACGTcount: A:0.23, C:0.29, G:0.25, T:0.23
Consensus pattern (40 bp):
ACTCGCACAAATGCCTTCGGGACATAGCCCGGATTGAGTA
Found at i:40368530 original size:40 final size:40
Alignment explanation
Indices: 40368471--40368698 Score: 348
Period size: 40 Copynumber: 5.7 Consensus size: 40
40368461 GAGCATTGGA
*
40368471 ATATATCCGGGCTAAGACCCGAAGGCAATTACGCGAGTTG
1 ATATATCCGGGCTAAGACCCGAAGGCAATTATGCGAGTTG
* *
40368511 ATATATCCGGGCTATGACCCGAAGGCAATTACGCGAGTTG
1 ATATATCCGGGCTAAGACCCGAAGGCAATTATGCGAGTTG
* * *
40368551 ATATGTCCGGACTATGACCCGAAGGCAATTATGCGAGTTG
1 ATATATCCGGGCTAAGACCCGAAGGCAATTATGCGAGTTG
* *
40368591 ATATATCTGGGCTAAGACCCGAAGGCAATTATGCAAGTTG
1 ATATATCCGGGCTAAGACCCGAAGGCAATTATGCGAGTTG
*
40368631 ATATATCCGGGCTAAGACCCGAAGGCAATTATGCAAGTTG
1 ATATATCCGGGCTAAGACCCGAAGGCAATTATGCGAGTTG
* * *
40368671 ATATGTCTGGGTTAAGACCCGAAGGCAA
1 ATATATCCGGGCTAAGACCCGAAGGCAA
40368699 ATGTGTTTGC
Statistics
Matches: 175, Mismatches: 13, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
40 175 1.00
ACGTcount: A:0.30, C:0.20, G:0.27, T:0.23
Consensus pattern (40 bp):
ATATATCCGGGCTAAGACCCGAAGGCAATTATGCGAGTTG
Found at i:40377119 original size:40 final size:40
Alignment explanation
Indices: 40377060--40377246 Score: 313
Period size: 40 Copynumber: 4.7 Consensus size: 40
40377050 GAGCATTGGA
* *
40377060 ATATATCCGGGCTAAGACCCGAAGGCAATTACGCGAGTTG
1 ATATATCCGGGCTAAGACCCGAAGGCAATTATGCAAGTTG
* *
40377100 ATATATCCGGGCTATGACCCGAAGGCAATTATGCGAGTTG
1 ATATATCCGGGCTAAGACCCGAAGGCAATTATGCAAGTTG
40377140 ATATATCCGGGCTAAGACCCGAAGGCAATTATGCAAGTTG
1 ATATATCCGGGCTAAGACCCGAAGGCAATTATGCAAGTTG
40377180 ATATAT-CGGGCTAAGACCCGAAGGCAATTATGCAAGTTG
1 ATATATCCGGGCTAAGACCCGAAGGCAATTATGCAAGTTG
* *
40377219 ATATGTCCGGGTTAAGACCCGAAGGCAA
1 ATATATCCGGGCTAAGACCCGAAGGCAA
40377247 ATGTGTTTGC
Statistics
Matches: 140, Mismatches: 6, Indels: 2
0.95 0.04 0.01
Matches are distributed among these distances:
39 38 0.27
40 102 0.73
ACGTcount: A:0.31, C:0.20, G:0.27, T:0.22
Consensus pattern (40 bp):
ATATATCCGGGCTAAGACCCGAAGGCAATTATGCAAGTTG
Found at i:40377235 original size:79 final size:80
Alignment explanation
Indices: 40377060--40377246 Score: 313
Period size: 79 Copynumber: 2.4 Consensus size: 80
40377050 GAGCATTGGA
* *
40377060 ATATATCCGGGCTAAGACCCGAAGGCAATTACGCGAGTTGATATATCCGGGCTATGACCCGAAGG
1 ATATATCCGGGCTAAGACCCGAAGGCAATTACGCAAGTTGATATATCCGGGCTAAGACCCGAAGG
*
40377125 CAATTATGCGAGTTG
66 CAATTATGCAAGTTG
*
40377140 ATATATCCGGGCTAAGACCCGAAGGCAATTATGCAAGTTGATATAT-CGGGCTAAGACCCGAAGG
1 ATATATCCGGGCTAAGACCCGAAGGCAATTACGCAAGTTGATATATCCGGGCTAAGACCCGAAGG
40377204 CAATTATGCAAGTTG
66 CAATTATGCAAGTTG
* *
40377219 ATATGTCCGGGTTAAGACCCGAAGGCAA
1 ATATATCCGGGCTAAGACCCGAAGGCAA
40377247 ATGTGTTTGC
Statistics
Matches: 101, Mismatches: 6, Indels: 1
0.94 0.06 0.01
Matches are distributed among these distances:
79 57 0.56
80 44 0.44
ACGTcount: A:0.31, C:0.20, G:0.27, T:0.22
Consensus pattern (80 bp):
ATATATCCGGGCTAAGACCCGAAGGCAATTACGCAAGTTGATATATCCGGGCTAAGACCCGAAGG
CAATTATGCAAGTTG
Found at i:40385590 original size:40 final size:40
Alignment explanation
Indices: 40385531--40385758 Score: 366
Period size: 40 Copynumber: 5.7 Consensus size: 40
40385521 GAGCATTGGA
*
40385531 ATATATCCGGGCTAAGACCCGAAGGCAATTACGCGAGTTG
1 ATATATCCGGGCTAAGACCCGAAGGCAATTATGCGAGTTG
* *
40385571 ATATATCCGGGCTATGACCCGAAGGCAATTACGCGAGTTG
1 ATATATCCGGGCTAAGACCCGAAGGCAATTATGCGAGTTG
* *
40385611 ATATGTCCGGGCTATGACCCGAAGGCAATTATGCGAGTTG
1 ATATATCCGGGCTAAGACCCGAAGGCAATTATGCGAGTTG
*
40385651 ATATATCCGGGCTAAGACCCGAAGGCAATTATGCAAGTTG
1 ATATATCCGGGCTAAGACCCGAAGGCAATTATGCGAGTTG
*
40385691 ATATATCCGGGCTAAGACCCGAAGGCAATTATGCAAGTTG
1 ATATATCCGGGCTAAGACCCGAAGGCAATTATGCGAGTTG
* * *
40385731 ATATGTCTGGGTTAAGACCCGAAGGCAA
1 ATATATCCGGGCTAAGACCCGAAGGCAA
40385759 ATGTGTTTGC
Statistics
Matches: 179, Mismatches: 9, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
40 179 1.00
ACGTcount: A:0.30, C:0.21, G:0.27, T:0.22
Consensus pattern (40 bp):
ATATATCCGGGCTAAGACCCGAAGGCAATTATGCGAGTTG
Found at i:40389462 original size:40 final size:40
Alignment explanation
Indices: 40389407--40389561 Score: 190
Period size: 40 Copynumber: 3.9 Consensus size: 40
40389397 GGATATTGCT
* * *
40389407 ACTCGCTCAAATGCCTTCGGGACATAGCCCGGTTAGAGTA
1 ACTCGCACAAATGCCTTCGGGACTTAGCCCGGTTATAGTA
*
40389447 ACTCGCACAATTGCCTTCGGGACTTAGCCCGGATT-TAGTA
1 ACTCGCACAAATGCCTTCGGGACTTAGCCCGG-TTATAGTA
* *
40389487 ACTCGCACAAATGCCTTCGGGACTT-GCCCGG-AACTAGTC
1 ACTCGCACAAATGCCTTCGGGACTTAGCCCGGTTA-TAGTA
* * *
40389526 ACTAGCGCAGATGCCTTCGGGACTTAGCCCGGTTAT
1 ACTCGCACAAATGCCTTCGGGACTTAGCCCGGTTAT
40389562 CATCCAAATA
Statistics
Matches: 99, Mismatches: 11, Indels: 10
0.82 0.09 0.08
Matches are distributed among these distances:
39 32 0.32
40 64 0.65
41 3 0.03
ACGTcount: A:0.23, C:0.29, G:0.25, T:0.24
Consensus pattern (40 bp):
ACTCGCACAAATGCCTTCGGGACTTAGCCCGGTTATAGTA
Found at i:40394839 original size:42 final size:42
Alignment explanation
Indices: 40394713--40394841 Score: 109
Period size: 43 Copynumber: 3.0 Consensus size: 42
40394703 TTCTAAAGAA
* * *
40394713 ACATTGACATC-TATCTGAGATATCGTGTAAGACCGTGTCTGGG
1 ACATTGGCATCATATCT--GATTTCGTGTAAGACCATGTCTGGG
* ** * * * *
40394756 AAACAGGCCTCA-ATTCAGATTTATGTATAAGACCATGTCTGGG
1 ACATTGGCATCATA-TCTGATTT-CGTGTAAGACCATGTCTGGG
*
40394799 ACATTGGCATCATATCTGATTTCGTGTAAGACCCTGTCTGGG
1 ACATTGGCATCATATCTGATTTCGTGTAAGACCATGTCTGGG
40394841 A
1 A
40394842 TAGAGGCATC
Statistics
Matches: 64, Mismatches: 18, Indels: 9
0.70 0.20 0.10
Matches are distributed among these distances:
42 22 0.34
43 39 0.61
44 3 0.05
ACGTcount: A:0.27, C:0.19, G:0.23, T:0.30
Consensus pattern (42 bp):
ACATTGGCATCATATCTGATTTCGTGTAAGACCATGTCTGGG
Found at i:40394850 original size:42 final size:42
Alignment explanation
Indices: 40394735--40394875 Score: 115
Period size: 43 Copynumber: 3.3 Consensus size: 42
40394725 ATCTGAGATA
* * *
40394735 TCGTGTAAGACCGTGTCTGGGAAACAGGCCTCA-ATTCAGATT
1 TCGTGTAAGACCATGTCTGGGAAACAGGCATCATA-TCTGATT
* * * **
40394777 TATGTATAAGACCATGTCTGGGACATTGGCATCATATCTGATT
1 T-CGTGTAAGACCATGTCTGGGAAACAGGCATCATATCTGATT
* * *
40394820 TCGTGTAAGACCCTGTCTGGGATAGAGGCATCGATAT-TGAATT
1 TCGTGTAAGACCATGTCTGGGAAACAGGCATC-ATATCTG-ATT
* *
40394863 ACATGTAAGACCA
1 TCGTGTAAGACCA
40394876 CGCCCAGGAC
Statistics
Matches: 78, Mismatches: 17, Indels: 7
0.76 0.17 0.07
Matches are distributed among these distances:
42 28 0.36
43 49 0.63
44 1 0.01
ACGTcount: A:0.28, C:0.18, G:0.24, T:0.29
Consensus pattern (42 bp):
TCGTGTAAGACCATGTCTGGGAAACAGGCATCATATCTGATT
Found at i:40418336 original size:40 final size:40
Alignment explanation
Indices: 40418281--40418435 Score: 190
Period size: 40 Copynumber: 3.9 Consensus size: 40
40418271 GGATATTGCT
* * *
40418281 ACTCGCTCAAATGCCTTCGGGACATAGCCCGGTTAGAGTA
1 ACTCGCACAAATGCCTTCGGGACTTAGCCCGGTTATAGTA
*
40418321 ACTCGCACAATTGCCTTCGGGACTTAGCCCGGATT-TAGTA
1 ACTCGCACAAATGCCTTCGGGACTTAGCCCGG-TTATAGTA
* *
40418361 ACTCGCACAAATGCCTTCGGGACTT-GCCCGG-AACTAGTC
1 ACTCGCACAAATGCCTTCGGGACTTAGCCCGGTTA-TAGTA
* * *
40418400 ACTAGCGCAGATGCCTTCGGGACTTAGCCCGGTTAT
1 ACTCGCACAAATGCCTTCGGGACTTAGCCCGGTTAT
40418436 CATCCAAATA
Statistics
Matches: 99, Mismatches: 11, Indels: 10
0.82 0.09 0.08
Matches are distributed among these distances:
39 32 0.32
40 64 0.65
41 3 0.03
ACGTcount: A:0.23, C:0.29, G:0.25, T:0.24
Consensus pattern (40 bp):
ACTCGCACAAATGCCTTCGGGACTTAGCCCGGTTATAGTA
Found at i:40423709 original size:42 final size:42
Alignment explanation
Indices: 40423583--40423711 Score: 109
Period size: 43 Copynumber: 3.0 Consensus size: 42
40423573 TTCTAAAGAA
* * *
40423583 ACATTGACATC-TATCTGAGATATCGTGTAAGACCGTGTCTGGG
1 ACATTGGCATCATATCT--GATTTCGTGTAAGACCATGTCTGGG
* ** * * * *
40423626 AAACAGGCCTCA-ATTCAGATTTATGTATAAGACCATGTCTGGG
1 ACATTGGCATCATA-TCTGATTT-CGTGTAAGACCATGTCTGGG
*
40423669 ACATTGGCATCATATCTGATTTCGTGTAAGACCCTGTCTGGG
1 ACATTGGCATCATATCTGATTTCGTGTAAGACCATGTCTGGG
40423711 A
1 A
40423712 TAGAGGCATC
Statistics
Matches: 64, Mismatches: 18, Indels: 9
0.70 0.20 0.10
Matches are distributed among these distances:
42 22 0.34
43 39 0.61
44 3 0.05
ACGTcount: A:0.27, C:0.19, G:0.23, T:0.30
Consensus pattern (42 bp):
ACATTGGCATCATATCTGATTTCGTGTAAGACCATGTCTGGG
Found at i:40423720 original size:42 final size:42
Alignment explanation
Indices: 40423605--40423745 Score: 115
Period size: 43 Copynumber: 3.3 Consensus size: 42
40423595 ATCTGAGATA
* * *
40423605 TCGTGTAAGACCGTGTCTGGGAAACAGGCCTCA-ATTCAGATT
1 TCGTGTAAGACCATGTCTGGGAAACAGGCATCATA-TCTGATT
* * * **
40423647 TATGTATAAGACCATGTCTGGGACATTGGCATCATATCTGATT
1 T-CGTGTAAGACCATGTCTGGGAAACAGGCATCATATCTGATT
* * *
40423690 TCGTGTAAGACCCTGTCTGGGATAGAGGCATCGATAT-TGAATT
1 TCGTGTAAGACCATGTCTGGGAAACAGGCATC-ATATCTG-ATT
* *
40423733 ACATGTAAGACCA
1 TCGTGTAAGACCA
40423746 CGCCCAGGAC
Statistics
Matches: 78, Mismatches: 17, Indels: 7
0.76 0.17 0.07
Matches are distributed among these distances:
42 28 0.36
43 49 0.63
44 1 0.01
ACGTcount: A:0.28, C:0.18, G:0.24, T:0.29
Consensus pattern (42 bp):
TCGTGTAAGACCATGTCTGGGAAACAGGCATCATATCTGATT
Found at i:40435485 original size:42 final size:43
Alignment explanation
Indices: 40435424--40435533 Score: 125
Period size: 42 Copynumber: 2.6 Consensus size: 43
40435414 GACTTATGAT
*
40435424 TTACGTGTAAGACCATGTCTGGGACA-TCGACATCG-TATTTGA
1 TTACATGTAAGACCATGTCTGGGACAGT-GACATCGATATTTGA
* * * * *
40435466 TTTCATTTAAGACCCTGTCTGGGACAGTGGCATCGATGTTTGA
1 TTACATGTAAGACCATGTCTGGGACAGTGACATCGATATTTGA
* *
40435509 TTACATGTAAGACCACGCCTGGGAC
1 TTACATGTAAGACCATGTCTGGGAC
40435534 GTTGGCATTG
Statistics
Matches: 55, Mismatches: 11, Indels: 3
0.80 0.16 0.04
Matches are distributed among these distances:
42 28 0.51
43 27 0.49
ACGTcount: A:0.25, C:0.21, G:0.25, T:0.30
Consensus pattern (43 bp):
TTACATGTAAGACCATGTCTGGGACAGTGACATCGATATTTGA
Found at i:40435540 original size:43 final size:42
Alignment explanation
Indices: 40435385--40435541 Score: 140
Period size: 43 Copynumber: 3.7 Consensus size: 42
40435375 TGTGTTTTCG
* * * *
40435385 TGTAAGACCACATCTAGGACGTTGGCATCGACTTATGATTTACG
1 TGTAAGACCACGTCTGGGACGTTGGCATCGA-TTTTGA-TTACA
* * * * *
40435429 TGTAAGACCATGTCTGGGACATCGACATCG-TATTTGATTTCA
1 TGTAAGACCACGTCTGGGACGTTGGCATCGAT-TTTGATTACA
*
40435471 TTTAAGACC-CTGTCTGGGACAG-TGGCATCGATGTTTGATTACA
1 TGTAAGACCAC-GTCTGGGAC-GTTGGCATCGAT-TTTGATTACA
*
40435514 TGTAAGACCACGCCTGGGACGTTGGCAT
1 TGTAAGACCACGTCTGGGACGTTGGCAT
40435542 TGTATGAGCT
Statistics
Matches: 89, Mismatches: 18, Indels: 13
0.74 0.15 0.11
Matches are distributed among these distances:
42 28 0.31
43 36 0.40
44 25 0.28
ACGTcount: A:0.25, C:0.20, G:0.25, T:0.30
Consensus pattern (42 bp):
TGTAAGACCACGTCTGGGACGTTGGCATCGATTTTGATTACA
Found at i:40437585 original size:27 final size:27
Alignment explanation
Indices: 40437554--40437731 Score: 205
Period size: 27 Copynumber: 6.6 Consensus size: 27
40437544 TAAATTGTAC
40437554 AGCACTAAGTGTGCGATTTGACTATGT
1 AGCACTAAGTGTGCGATTTGACTATGT
* ** *
40437581 TGCACTAAGTGTGCGAAATGAATATG-
1 AGCACTAAGTGTGCGATTTGACTATGT
* * *
40437607 ATGCACTAAGTGTGCGAATTGACCATGC
1 A-GCACTAAGTGTGCGATTTGACTATGT
*
40437635 GGCACTAAGTGTGCGAGTTTGACTATGT
1 AGCACTAAGTGTGCGA-TTTGACTATGT
* *
40437663 AGCACTAAGTGTGCGATTTGATTACGT
1 AGCACTAAGTGTGCGATTTGACTATGT
* * *
40437690 AGCACTAAGTGTGCGAGTTGATTATAT
1 AGCACTAAGTGTGCGATTTGACTATGT
*
40437717 AGCACTGAGTGTGCG
1 AGCACTAAGTGTGCG
40437732 GACTCAATAT
Statistics
Matches: 129, Mismatches: 19, Indels: 6
0.84 0.12 0.04
Matches are distributed among these distances:
27 106 0.82
28 23 0.18
ACGTcount: A:0.27, C:0.15, G:0.28, T:0.30
Consensus pattern (27 bp):
AGCACTAAGTGTGCGATTTGACTATGT
Found at i:40437668 original size:82 final size:81
Alignment explanation
Indices: 40437555--40437710 Score: 233
Period size: 82 Copynumber: 1.9 Consensus size: 81
40437545 AAATTGTACA
* *
40437555 GCACTAAGTGTGCGATTTGACTATGTTGCACTAAGTGTGCGAAATGAATATG-ATGCACTAAGTG
1 GCACTAAGTGTGCGATTTGACTATGTAGCACTAAGTGTGCGAAATGAATACGTA-GCACTAAGTG
40437619 TGCGAATTGACCATGCG
65 TGCGAATTGACCATGCG
** *
40437636 GCACTAAGTGTGCGAGTTTGACTATGTAGCACTAAGTGTGCGATTTGATTACGTAGCACTAAGTG
1 GCACTAAGTGTGCGA-TTTGACTATGTAGCACTAAGTGTGCGAAATGAATACGTAGCACTAAGTG
*
40437701 TGCGAGTTGA
65 TGCGAATTGA
40437711 TTATATAGCA
Statistics
Matches: 67, Mismatches: 6, Indels: 3
0.88 0.08 0.04
Matches are distributed among these distances:
81 15 0.22
82 51 0.76
83 1 0.01
ACGTcount: A:0.27, C:0.15, G:0.28, T:0.29
Consensus pattern (81 bp):
GCACTAAGTGTGCGATTTGACTATGTAGCACTAAGTGTGCGAAATGAATACGTAGCACTAAGTGT
GCGAATTGACCATGCG
Found at i:40437722 original size:82 final size:81
Alignment explanation
Indices: 40437551--40437731 Score: 229
Period size: 82 Copynumber: 2.2 Consensus size: 81
40437541 GATTAAATTG
* *
40437551 TACAGCACTAAGTGTGCGATTTGACTATGTTGCACTAAGTGTGCGAAATGAATATGATGCACTAA
1 TACAGCACTAAGTGTGCGATTTGACTATGTAGCACTAAGTGTGCGAAATGAATACGATGCACTAA
40437616 GTGTGCGAATTGACCA
66 GTGTGCGAATTGACCA
* * ** *
40437632 TGCGGCACTAAGTGTGCGAGTTTGACTATGTAGCACTAAGTGTGCGATTTGATTACG-TAGCACT
1 TACAGCACTAAGTGTGCGA-TTTGACTATGTAGCACTAAGTGTGCGAAATGAATACGAT-GCACT
* **
40437696 AAGTGTGCGAGTTGATTA
64 AAGTGTGCGAATTGACCA
* *
40437714 TATAGCACTGAGTGTGCG
1 TACAGCACTAAGTGTGCG
40437732 GACTCAATAT
Statistics
Matches: 84, Mismatches: 14, Indels: 3
0.83 0.14 0.03
Matches are distributed among these distances:
81 18 0.21
82 66 0.79
ACGTcount: A:0.27, C:0.15, G:0.28, T:0.30
Consensus pattern (81 bp):
TACAGCACTAAGTGTGCGATTTGACTATGTAGCACTAAGTGTGCGAAATGAATACGATGCACTAA
GTGTGCGAATTGACCA
Found at i:40445524 original size:27 final size:27
Alignment explanation
Indices: 40445493--40445669 Score: 196
Period size: 27 Copynumber: 6.6 Consensus size: 27
40445483 TAAATTGTAC
40445493 AGCACTAAGTGTGCGATTTGACTATGT
1 AGCACTAAGTGTGCGATTTGACTATGT
* ** *
40445520 TGCACTAAGTGTGCGAAATGAATATG-
1 AGCACTAAGTGTGCGATTTGACTATGT
* * *
40445546 ATGCACTAAGTGTGCGAATTGACCATGC
1 A-GCACTAAGTGTGCGATTTGACTATGT
*
40445574 GGCACTAAGTGTGCGAGTTTGACTATGT
1 AGCACTAAGTGTGCGA-TTTGACTATGT
* *
40445602 AGCACTAAGTGTGCGATTTGATTACGT
1 AGCACTAAGTGTGCGATTTGACTATGT
* * *
40445629 AGCACTAAGTGTG-GAGTTGATTATAT
1 AGCACTAAGTGTGCGATTTGACTATGT
*
40445655 AGCACTGAGTGTGCG
1 AGCACTAAGTGTGCG
40445670 GACTCATTAT
Statistics
Matches: 127, Mismatches: 19, Indels: 8
0.82 0.12 0.05
Matches are distributed among these distances:
26 22 0.17
27 82 0.65
28 23 0.18
ACGTcount: A:0.27, C:0.15, G:0.28, T:0.30
Consensus pattern (27 bp):
AGCACTAAGTGTGCGATTTGACTATGT
Found at i:40450714 original size:27 final size:27
Alignment explanation
Indices: 40450676--40450753 Score: 95
Period size: 27 Copynumber: 2.9 Consensus size: 27
40450666 ATTGTCGTTC
*
40450676 TGGTG-AATTATGAAAGGAACGTCTTTG
1 TGGTGCAA-TATGAAAGGAACGCCTTTG
* *
40450703 TGGTGCAATATGAAAGGAAAGCCTTTT
1 TGGTGCAATATGAAAGGAACGCCTTTG
* *
40450730 TGGCGCAACATGAAAGGAACGCCT
1 TGGTGCAATATGAAAGGAACGCCT
40450754 CTATAGAGAA
Statistics
Matches: 44, Mismatches: 6, Indels: 2
0.85 0.12 0.04
Matches are distributed among these distances:
27 42 0.95
28 2 0.05
ACGTcount: A:0.32, C:0.14, G:0.28, T:0.26
Consensus pattern (27 bp):
TGGTGCAATATGAAAGGAACGCCTTTG
Found at i:40455393 original size:24 final size:24
Alignment explanation
Indices: 40455339--40455394 Score: 67
Period size: 24 Copynumber: 2.3 Consensus size: 24
40455329 TCCTCATATT
* * *
40455339 CTTCATCTTCATTTTTACCTTGAG
1 CTTCATCTTCATCTTTACCTTCAC
* *
40455363 CTCCATCTTCATCTTTATCTTCAC
1 CTTCATCTTCATCTTTACCTTCAC
40455387 CTTCATCT
1 CTTCATCT
40455395 CGTTCCTCCA
Statistics
Matches: 26, Mismatches: 6, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
24 26 1.00
ACGTcount: A:0.16, C:0.32, G:0.04, T:0.48
Consensus pattern (24 bp):
CTTCATCTTCATCTTTACCTTCAC
Found at i:40456790 original size:42 final size:42
Alignment explanation
Indices: 40456741--40456848 Score: 137
Period size: 43 Copynumber: 2.5 Consensus size: 42
40456731 TGAGATTACG
* *
40456741 TGTAAGACTATATCTGGGATATGATATCGATATGAGA-CTTCA
1 TGTAAGACCATATCTGGGATATGACATCGATATGAGATC-TCA
* * * *
40456783 TGTAAGACCATAGCTGGGCTATTGCCATCTATATGAGATCTCA
1 TGTAAGACCATATCTGGGATA-TGACATCGATATGAGATCTCA
40456826 TGTAAGACCATATCTGGGATATG
1 TGTAAGACCATATCTGGGATATG
40456849 TCATTGGTAT
Statistics
Matches: 56, Mismatches: 8, Indels: 4
0.82 0.12 0.06
Matches are distributed among these distances:
42 20 0.36
43 35 0.62
44 1 0.02
ACGTcount: A:0.31, C:0.16, G:0.22, T:0.31
Consensus pattern (42 bp):
TGTAAGACCATATCTGGGATATGACATCGATATGAGATCTCA
Found at i:40464360 original size:41 final size:41
Alignment explanation
Indices: 40464299--40464419 Score: 145
Period size: 42 Copynumber: 2.9 Consensus size: 41
40464289 TGGGGTTATT
40464299 TGAGATTACGTGTAAGACCATATCTGGGATATGGCATCGATA
1 TGAGATTA-GTGTAAGACCATATCTGGGATATGGCATCGATA
* * *
40464341 TGAGATTAGTGTAAAACCATAGCTGGGCTATTGGCATCGATA
1 TGAGATTAGTGTAAGACCATATCTGGGATA-TGGCATCGATA
* * *
40464383 TGAGATCCCA-TTTAAGACCATATTTGGGATATGGCAT
1 TGAGAT--TAGTGTAAGACCATATCTGGGATATGGCAT
40464420 TTGTATGGTA
Statistics
Matches: 67, Mismatches: 9, Indels: 6
0.82 0.11 0.07
Matches are distributed among these distances:
41 19 0.28
42 31 0.46
43 16 0.24
44 1 0.01
ACGTcount: A:0.31, C:0.15, G:0.25, T:0.30
Consensus pattern (41 bp):
TGAGATTAGTGTAAGACCATATCTGGGATATGGCATCGATA
Found at i:40464599 original size:15 final size:15
Alignment explanation
Indices: 40464579--40464610 Score: 64
Period size: 15 Copynumber: 2.1 Consensus size: 15
40464569 AGCTAGATAT
40464579 GTGATGAATCCCTCG
1 GTGATGAATCCCTCG
40464594 GTGATGAATCCCTCG
1 GTGATGAATCCCTCG
40464609 GT
1 GT
40464611 AAGGTTATGT
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 17 1.00
ACGTcount: A:0.19, C:0.25, G:0.28, T:0.28
Consensus pattern (15 bp):
GTGATGAATCCCTCG
Found at i:40466267 original size:68 final size:64
Alignment explanation
Indices: 40466151--40466410 Score: 226
Period size: 68 Copynumber: 4.0 Consensus size: 64
40466141 TGGATGATAC
** * * *
40466151 AGATAGTATGTAGCTAGGTCACATGTATGGTGCTGAGTGCACATCATGT-GTACAAGAGAGCTAC
1 AGATA-TATGTAGCTAGGTCACATGGGTGGTACTGAGTGTACACCATGTAG-ACAAGAGAGCTAC
40466215 A
64 A
*
40466216 AGACATTATGATGTAGCTAGGTCACATGGGTGATACT-ATGTGTACACCATGTAGACAAGAGAGC
1 AG--A-TAT-ATGTAGCTAGGTCACATGGGTGGTACTGA-GTGTACACCATGTAGACAAGAGAGC
*
40466280 TACG
61 TACA
* * * * *
40466284 GGATATATGTATCTAGGTCGCATGCGTGGTTCCAGGTGAAG-G-ACACCATGTAGACAAGAGAGC
1 AGATATATGTAGCTAGGTCACATGGGTGG-T--A-CTG-AGTGTACACCATGTAGACAAGAGAGC
40466347 TACA
61 TACA
* * *
40466351 AGATAAAT-TGGCTAGGTCACATGGGTGGTACTGAGTGTTCACCATGT-GTACAAGAGAGCT
1 AGATATATGTAGCTAGGTCACATGGGTGGTACTGAGTGTACACCATGTAG-ACAAGAGAGCT
40466411 GAACTATATG
Statistics
Matches: 158, Mismatches: 22, Indels: 32
0.75 0.10 0.15
Matches are distributed among these distances:
61 2 0.01
62 4 0.03
63 20 0.13
64 19 0.12
65 7 0.04
66 17 0.11
67 34 0.22
68 52 0.33
69 2 0.01
70 1 0.01
ACGTcount: A:0.30, C:0.16, G:0.28, T:0.25
Consensus pattern (64 bp):
AGATATATGTAGCTAGGTCACATGGGTGGTACTGAGTGTACACCATGTAGACAAGAGAGCTACA
Found at i:40468708 original size:17 final size:17
Alignment explanation
Indices: 40468688--40468721 Score: 68
Period size: 17 Copynumber: 2.0 Consensus size: 17
40468678 TGCCTTGTTT
40468688 GTGGCTGAGTGAGTTGA
1 GTGGCTGAGTGAGTTGA
40468705 GTGGCTGAGTGAGTTGA
1 GTGGCTGAGTGAGTTGA
40468722 ATGTATATGC
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
17 17 1.00
ACGTcount: A:0.18, C:0.06, G:0.47, T:0.29
Consensus pattern (17 bp):
GTGGCTGAGTGAGTTGA
Found at i:40479531 original size:41 final size:41
Alignment explanation
Indices: 40479486--40479568 Score: 123
Period size: 41 Copynumber: 2.0 Consensus size: 41
40479476 CTCATTTGAC
*
40479486 TTTTGATTTAATTAAATTATTA-AAAGGTTTGATGATAAGGT
1 TTTTGATTTAATTAAATTATTACAAA-GTTTCATGATAAGGT
* *
40479527 TTTTGATTTAATTTATTTATTACAAAGTTTCATGATAAGGT
1 TTTTGATTTAATTAAATTATTACAAAGTTTCATGATAAGGT
40479568 T
1 T
40479569 GACAGAGATA
Statistics
Matches: 38, Mismatches: 3, Indels: 2
0.88 0.07 0.05
Matches are distributed among these distances:
41 35 0.92
42 3 0.08
ACGTcount: A:0.34, C:0.02, G:0.14, T:0.49
Consensus pattern (41 bp):
TTTTGATTTAATTAAATTATTACAAAGTTTCATGATAAGGT
Found at i:40483063 original size:17 final size:17
Alignment explanation
Indices: 40483041--40483079 Score: 60
Period size: 17 Copynumber: 2.3 Consensus size: 17
40483031 AAGTTAGATA
*
40483041 AAATAATTAAAATAAAT
1 AAATAACTAAAATAAAT
*
40483058 AAATAACTAAGATAAAT
1 AAATAACTAAAATAAAT
40483075 AAATA
1 AAATA
40483080 GAACAATAAA
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
17 20 1.00
ACGTcount: A:0.69, C:0.03, G:0.03, T:0.26
Consensus pattern (17 bp):
AAATAACTAAAATAAAT
Found at i:40483547 original size:8 final size:8
Alignment explanation
Indices: 40483534--40483558 Score: 50
Period size: 8 Copynumber: 3.1 Consensus size: 8
40483524 TAAAAAGTTG
40483534 AAATAATA
1 AAATAATA
40483542 AAATAATA
1 AAATAATA
40483550 AAATAATA
1 AAATAATA
40483558 A
1 A
40483559 GAGCTGATAA
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
8 17 1.00
ACGTcount: A:0.76, C:0.00, G:0.00, T:0.24
Consensus pattern (8 bp):
AAATAATA
Found at i:40486127 original size:34 final size:34
Alignment explanation
Indices: 40486089--40486165 Score: 86
Period size: 33 Copynumber: 2.3 Consensus size: 34
40486079 GACAGTATTC
*
40486089 TAATTTTTTGTACATAATTAACTATTT-TAATTTT
1 TAATTTTTTGTACATAATTAAATATTTGT-ATTTT
**
40486123 TAA-TTTTTGTAGTTAATTAAATATTTGTATTTT
1 TAATTTTTTGTACATAATTAAATATTTGTATTTT
*
40486156 AAATATTTTT
1 TAAT-TTTTT
40486166 ACTTACCTTG
Statistics
Matches: 36, Mismatches: 4, Indels: 5
0.80 0.09 0.11
Matches are distributed among these distances:
33 27 0.75
34 4 0.11
35 5 0.14
ACGTcount: A:0.32, C:0.03, G:0.05, T:0.60
Consensus pattern (34 bp):
TAATTTTTTGTACATAATTAAATATTTGTATTTT
Found at i:40495587 original size:27 final size:27
Alignment explanation
Indices: 40495545--40495609 Score: 69
Period size: 27 Copynumber: 2.4 Consensus size: 27
40495535 ACCCCTAATA
* *
40495545 GGTAAAAAGACCGTAA-AGCCCCTGTAG
1 GGTAAAATGACTGTAATA-CCCCTGTAG
* * *
40495572 GGTAAAGTGACTGTAATACCCTTGTAT
1 GGTAAAATGACTGTAATACCCCTGTAG
40495599 GGTAAAATGAC
1 GGTAAAATGAC
40495610 GAATATGCCC
Statistics
Matches: 31, Mismatches: 6, Indels: 2
0.79 0.15 0.05
Matches are distributed among these distances:
27 30 0.97
28 1 0.03
ACGTcount: A:0.35, C:0.17, G:0.25, T:0.23
Consensus pattern (27 bp):
GGTAAAATGACTGTAATACCCCTGTAG
Found at i:40496452 original size:25 final size:25
Alignment explanation
Indices: 40496419--40496488 Score: 104
Period size: 25 Copynumber: 2.8 Consensus size: 25
40496409 AGGAAGTGCT
*
40496419 AAAAGGGCTCTGCCCCAGTTTACCA
1 AAAAGGGCTTTGCCCCAGTTTACCA
*
40496444 AAAAGGGCTTTGCCCCAGTTTATCA
1 AAAAGGGCTTTGCCCCAGTTTACCA
* *
40496469 GAAAGAGCTTTGCCCCAGTT
1 AAAAGGGCTTTGCCCCAGTT
40496489 ATTAAAAGAG
Statistics
Matches: 41, Mismatches: 4, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
25 41 1.00
ACGTcount: A:0.27, C:0.27, G:0.21, T:0.24
Consensus pattern (25 bp):
AAAAGGGCTTTGCCCCAGTTTACCA
Found at i:40502661 original size:88 final size:89
Alignment explanation
Indices: 40502558--40502735 Score: 322
Period size: 89 Copynumber: 2.0 Consensus size: 89
40502548 TTATAAACCG
*
40502558 TAACTCATCCGTATAACATTATTTGTG-CCGTTGAACCTATTAGAAATTCAAAGGATACTGGGGT
1 TAACTCATCCCTATAACATTATTTGTGCCCGTTGAACCTATTAGAAATTCAAAGGATACTGGGGT
40502622 AAATAATATCAGTAATCCGTCAAT
66 AAATAATATCAGTAATCCGTCAAT
*
40502646 TAACTCATCCCTATAACATTATTTGTGCCCGTTGAACCTATTAGAAATTCAAAGGATACTTGGGT
1 TAACTCATCCCTATAACATTATTTGTGCCCGTTGAACCTATTAGAAATTCAAAGGATACTGGGGT
*
40502711 GAATAATATCAGTAATCCGTCAAT
66 AAATAATATCAGTAATCCGTCAAT
40502735 T
1 T
40502736 CATTATCGTT
Statistics
Matches: 86, Mismatches: 3, Indels: 1
0.96 0.03 0.01
Matches are distributed among these distances:
88 26 0.30
89 60 0.70
ACGTcount: A:0.34, C:0.18, G:0.15, T:0.33
Consensus pattern (89 bp):
TAACTCATCCCTATAACATTATTTGTGCCCGTTGAACCTATTAGAAATTCAAAGGATACTGGGGT
AAATAATATCAGTAATCCGTCAAT
Found at i:40503911 original size:27 final size:27
Alignment explanation
Indices: 40503880--40503974 Score: 111
Period size: 27 Copynumber: 3.5 Consensus size: 27
40503870 TTAGTTTACC
** *
40503880 AAATTACTGAAATACCCTCGACTTGTA
1 AAATTACCCAAATACCCTCGATTTGTA
* *
40503907 AAATTA-CCAAAGTACCCCCGATTTATA
1 AAATTACCCAAA-TACCCTCGATTTGTA
*
40503934 AAATTACCCAAATATCCTCGATTTGTA
1 AAATTACCCAAATACCCTCGATTTGTA
*
40503961 AAATTACCGAAATA
1 AAATTACCCAAATA
40503975 AGATAGAATT
Statistics
Matches: 57, Mismatches: 9, Indels: 4
0.81 0.13 0.06
Matches are distributed among these distances:
26 3 0.05
27 49 0.86
28 5 0.09
ACGTcount: A:0.41, C:0.22, G:0.08, T:0.28
Consensus pattern (27 bp):
AAATTACCCAAATACCCTCGATTTGTA
Found at i:40504009 original size:27 final size:27
Alignment explanation
Indices: 40503979--40504040 Score: 106
Period size: 27 Copynumber: 2.3 Consensus size: 27
40503969 GAAATAAGAT
*
40503979 AGAATTACCATTTTACCCTCGATTTAC
1 AGAATTACCATTTTACCATCGATTTAC
40504006 AGAATTACCATTTTACCATCGATTTAC
1 AGAATTACCATTTTACCATCGATTTAC
*
40504033 AAAATTAC
1 AGAATTAC
40504041 TGAAATACCA
Statistics
Matches: 33, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
27 33 1.00
ACGTcount: A:0.35, C:0.23, G:0.06, T:0.35
Consensus pattern (27 bp):
AGAATTACCATTTTACCATCGATTTAC
Found at i:40504116 original size:27 final size:26
Alignment explanation
Indices: 40504086--40504185 Score: 119
Period size: 27 Copynumber: 3.7 Consensus size: 26
40504076 CCTCGATCAA
40504086 TAAAATTACCAAAATACCCCTGGTTTG
1 TAAAATTACCAAAATACCCCT-GTTTG
*
40504113 TAAAATTACCAAAATACCCCTAATTTG
1 TAAAATTACCAAAATACCCCT-GTTTG
* * **
40504140 TGAAATTACCGAAATACCCCTGTAGGG
1 TAAAATTACCAAAATACCCCTGT-TTG
*
40504167 TAGAATTACCAAAATACCC
1 TAAAATTACCAAAATACCC
40504186 TTGTAGGGTA
Statistics
Matches: 62, Mismatches: 10, Indels: 2
0.84 0.14 0.03
Matches are distributed among these distances:
26 1 0.02
27 61 0.98
ACGTcount: A:0.40, C:0.23, G:0.11, T:0.26
Consensus pattern (26 bp):
TAAAATTACCAAAATACCCCTGTTTG
Found at i:40504190 original size:27 final size:27
Alignment explanation
Indices: 40504143--40504284 Score: 212
Period size: 27 Copynumber: 5.3 Consensus size: 27
40504133 TAATTTGTGA
*
40504143 AATTACCGAAATACCCCTGTAGGGTAG
1 AATTACCGAAATACCCTTGTAGGGTAG
*
40504170 AATTACCAAAATACCCTTGTAGGGTAG
1 AATTACCGAAATACCCTTGTAGGGTAG
* * *
40504197 AGTTACTGAAATACCCCTGTAGGGTAG
1 AATTACCGAAATACCCTTGTAGGGTAG
40504224 AATTACCGAAATACCCTTGTAGGGTAG
1 AATTACCGAAATACCCTTGTAGGGTAG
* * *
40504251 AATTACCGAGATACCCTTGTGGGGTAA
1 AATTACCGAAATACCCTTGTAGGGTAG
40504278 AATTACC
1 AATTACC
40504285 ATTTTGCCCC
Statistics
Matches: 103, Mismatches: 12, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
27 103 1.00
ACGTcount: A:0.33, C:0.20, G:0.22, T:0.25
Consensus pattern (27 bp):
AATTACCGAAATACCCTTGTAGGGTAG
Found at i:40504710 original size:6 final size:6
Alignment explanation
Indices: 40504683--40504741 Score: 59
Period size: 6 Copynumber: 9.7 Consensus size: 6
40504673 ATTCACATTT
* *
40504683 TGATTT TGATTC TG-TTACC TGATAC TGATTC TGATTC TGATTC TGATTC
1 TGATTC TGATTC TGATT--C TGATTC TGATTC TGATTC TGATTC TGATTC
40504732 T-AGTTC TGAT
1 TGA-TTC TGAT
40504742 AATGTTTCTT
Statistics
Matches: 45, Mismatches: 3, Indels: 10
0.78 0.05 0.17
Matches are distributed among these distances:
5 3 0.07
6 37 0.82
7 4 0.09
8 1 0.02
ACGTcount: A:0.19, C:0.15, G:0.17, T:0.49
Consensus pattern (6 bp):
TGATTC
Found at i:40512695 original size:89 final size:89
Alignment explanation
Indices: 40512539--40512717 Score: 272
Period size: 89 Copynumber: 2.0 Consensus size: 89
40512529 TTATAAACCG
* * *
40512539 TAACTCATCCGTATAACATTATTTGTGCATGTTGAACCTATTAGAAATTCAAAGGATACTGGGGT
1 TAACTCATCCGTATAACATTATTTGTACATGTTGAACCTATTAGAAATTCAAAGGATACTCGAGT
40512604 GAATAAT-ATCAGTAATCCGTCAAT
66 GAATAATAATC-GTAATCCGTCAAT
* * *
40512628 TAACTCATCTGTATAACATTATTTGTAC-TCGTTGTACCTATTTGAAATTCAAAGGATACTCGAG
1 TAACTCATCCGTATAACATTATTTGTACAT-GTTGAACCTATTAGAAATTCAAAGGATACTCGAG
40512692 TGAATAATAATCGTAATCCGTCAAT
65 TGAATAATAATCGTAATCCGTCAAT
40512717 T
1 T
40512718 CATTATCGTT
Statistics
Matches: 82, Mismatches: 6, Indels: 4
0.89 0.07 0.04
Matches are distributed among these distances:
88 1 0.01
89 78 0.95
90 3 0.04
ACGTcount: A:0.34, C:0.16, G:0.15, T:0.35
Consensus pattern (89 bp):
TAACTCATCCGTATAACATTATTTGTACATGTTGAACCTATTAGAAATTCAAAGGATACTCGAGT
GAATAATAATCGTAATCCGTCAAT
Found at i:40514538 original size:26 final size:26
Alignment explanation
Indices: 40514508--40514560 Score: 97
Period size: 26 Copynumber: 2.0 Consensus size: 26
40514498 ATATATTAGG
*
40514508 AACACTCGATTTTTATTACTTTAGCC
1 AACACTCAATTTTTATTACTTTAGCC
40514534 AACACTCAATTTTTATTACTTTAGCC
1 AACACTCAATTTTTATTACTTTAGCC
40514560 A
1 A
40514561 TTTTACTTTT
Statistics
Matches: 26, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
26 26 1.00
ACGTcount: A:0.30, C:0.23, G:0.06, T:0.42
Consensus pattern (26 bp):
AACACTCAATTTTTATTACTTTAGCC
Found at i:40517297 original size:40 final size:40
Alignment explanation
Indices: 40517240--40517457 Score: 298
Period size: 40 Copynumber: 5.5 Consensus size: 40
40517230 CGGATGATAA
* *
40517240 CCGGGCTAAGTCCCGAAGGCATTTGTGCTAGTGACTA-ATT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATA-T
**
40517280 CCGGGCTAAGTAGCGAAGGCATTTGTGCGAGTTACTATAT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAT
* *
40517320 CCAGGCTAAGTCCCGAAGGCATTTGTGCAAGTTACTATAT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAT
* *
40517360 CCGGGCTAGGTCCCGAAGGCATTTGTGCGAGTTACTATAA
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAT
* *
40517400 CCGGGCTAAGTCTCGAAGGCATTTGAGCGAG-TAGCTATAT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTA-CTATAT
*
40517440 CC-GGCTAAATCCCGAAGG
1 CCGGGCTAAGTCCCGAAGG
40517458 TACTTGGTTC
Statistics
Matches: 158, Mismatches: 18, Indels: 5
0.87 0.10 0.03
Matches are distributed among these distances:
39 16 0.10
40 141 0.89
41 1 0.01
ACGTcount: A:0.25, C:0.22, G:0.28, T:0.25
Consensus pattern (40 bp):
CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAT
Found at i:40525565 original size:40 final size:40
Alignment explanation
Indices: 40525473--40525687 Score: 332
Period size: 40 Copynumber: 5.5 Consensus size: 40
40525463 CGGATGATAA
* *
40525473 CCGGGCTAAGTCCCGAAGGCATTTGTGCTAGTGACTA-AT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAT
40525512 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAT
40525552 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAT
* *
40525592 CCGGGCTAGGTCCCGAAGGCATTTGTGCGAGTTACTATAA
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAT
*
40525632 CCGGGCTAAGTCCC-AAGGCATTTGAGCGAG-TAGCTATAT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTA-CTATAT
*
40525671 CC-GGCTAAATCCC-AAGG
1 CCGGGCTAAGTCCCGAAGG
40525688 TACTTGGTTT
Statistics
Matches: 166, Mismatches: 8, Indels: 5
0.93 0.04 0.03
Matches are distributed among these distances:
38 16 0.10
39 57 0.34
40 93 0.56
ACGTcount: A:0.24, C:0.24, G:0.28, T:0.25
Consensus pattern (40 bp):
CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAT
Found at i:40525650 original size:79 final size:80
Alignment explanation
Indices: 40525469--40525687 Score: 340
Period size: 79 Copynumber: 2.8 Consensus size: 80
40525459 TATCCGGATG
* *
40525469 ATAACCGGGCTAAGTCCCGAAGGCATTTGTGCTAGTGACTA-ATCCGGGCTAAGTCCCGAAGGCA
1 ATAACCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATATCCGGGCTAAGTCCCGAAGGCA
40525533 TTTGTGCGAGTTACT
66 TTTGTGCGAGTTACT
* *
40525548 ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATATCCGGGCTAGGTCCCGAAGGCA
1 ATAACCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATATCCGGGCTAAGTCCCGAAGGCA
40525613 TTTGTGCGAGTTACT
66 TTTGTGCGAGTTACT
* *
40525628 ATAACCGGGCTAAGTCCC-AAGGCATTTGAGCGAG-TAGCTATATCC-GGCTAAATCCC-AAGG
1 ATAACCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTA-CTATATCCGGGCTAAGTCCCGAAGG
40525688 TACTTGGTTT
Statistics
Matches: 130, Mismatches: 8, Indels: 6
0.90 0.06 0.04
Matches are distributed among these distances:
77 4 0.03
78 11 0.08
79 61 0.47
80 54 0.42
ACGTcount: A:0.25, C:0.23, G:0.27, T:0.25
Consensus pattern (80 bp):
ATAACCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATATCCGGGCTAAGTCCCGAAGGCA
TTTGTGCGAGTTACT
Found at i:40527700 original size:37 final size:37
Alignment explanation
Indices: 40527647--40527718 Score: 135
Period size: 37 Copynumber: 1.9 Consensus size: 37
40527637 GGTAGTTGGA
*
40527647 TAAGATGATTTTAGAAAGACCACCAGGAAGTTTACGC
1 TAAGATGATTTCAGAAAGACCACCAGGAAGTTTACGC
40527684 TAAGATGATTTCAGAAAGACCACCAGGAAGTTTAC
1 TAAGATGATTTCAGAAAGACCACCAGGAAGTTTAC
40527719 CTAGTAACAC
Statistics
Matches: 34, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
37 34 1.00
ACGTcount: A:0.39, C:0.17, G:0.21, T:0.24
Consensus pattern (37 bp):
TAAGATGATTTCAGAAAGACCACCAGGAAGTTTACGC
Found at i:40532257 original size:6 final size:6
Alignment explanation
Indices: 40532246--40532280 Score: 52
Period size: 6 Copynumber: 5.8 Consensus size: 6
40532236 TGTTTTACTA
* *
40532246 TTATTT TTATTT TTATCT TTATTT CTATTT TTATT
1 TTATTT TTATTT TTATTT TTATTT TTATTT TTATT
40532281 CCATTGTCTC
Statistics
Matches: 25, Mismatches: 4, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
6 25 1.00
ACGTcount: A:0.17, C:0.06, G:0.00, T:0.77
Consensus pattern (6 bp):
TTATTT
Found at i:40534182 original size:61 final size:61
Alignment explanation
Indices: 40534056--40534182 Score: 132
Period size: 61 Copynumber: 2.1 Consensus size: 61
40534046 ATGTGAAATC
* * * * *
40534056 AACACGGCCTGGACTTCCATACATGGGCAAACCACACGCCTGTGTAGTTCTAGCAGGCTTT
1 AACACGACCTGGACTTCCATACATGGGCAAACCACACGCCTGTCTAGTTCTAACAGCCTTG
* * * * *
40534117 AACACGACTTGGACTTCCTTACATGGGTAGATCACACGCCCGTGTCTA-TT-TAACAGCCTTG
1 AACACGACCTGGACTTCCATACATGGGCAAACCACACG-CC-TGTCTAGTTCTAACAGCCTTG
40534178 AACAC
1 AACAC
40534183 AGATTGAAGA
Statistics
Matches: 54, Mismatches: 10, Indels: 4
0.79 0.15 0.06
Matches are distributed among these distances:
61 45 0.83
62 4 0.07
63 5 0.09
ACGTcount: A:0.26, C:0.29, G:0.20, T:0.24
Consensus pattern (61 bp):
AACACGACCTGGACTTCCATACATGGGCAAACCACACGCCTGTCTAGTTCTAACAGCCTTG
Found at i:40535980 original size:17 final size:18
Alignment explanation
Indices: 40535947--40535980 Score: 61
Period size: 18 Copynumber: 1.9 Consensus size: 18
40535937 GTGCCTTACA
40535947 TGTATGGCCCTACATGCC
1 TGTATGGCCCTACATGCC
40535965 TGTATGGCCC-ACATGC
1 TGTATGGCCCTACATGC
40535981 TCGTGTGGCT
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
17 6 0.38
18 10 0.62
ACGTcount: A:0.18, C:0.32, G:0.24, T:0.26
Consensus pattern (18 bp):
TGTATGGCCCTACATGCC
Found at i:40539764 original size:40 final size:40
Alignment explanation
Indices: 40539572--40539757 Score: 207
Period size: 40 Copynumber: 4.7 Consensus size: 40
40539562 TTGAATGATG
* * * * *
40539572 TCCGGGCTAAGTCCCGAAGG-ATTTGTGCTAAGTGACCATA
1 TCCGGGTTAAGTCCCGAAGGCATTTGTGC-GAGTTACTAAA
* **
40539612 TCCAGACTAAGAT-CCGAAGGCATTTGTGCGAGTTACTAAA
1 TCCGGGTTAAG-TCCCGAAGGCATTTGTGCGAGTTACTAAA
*
40539652 TCCAGGTTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAA
1 TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAA
* *
40539692 TCTGGGTTAAGTCCCGAAGGCAATTGTGCGAGTTACTATAA
1 TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTACTA-AA
* *
40539733 -CCGGGCTATGTCCCGAAGGCATTTG
1 TCCGGGTTAAGTCCCGAAGGCATTTG
40539758 AACGAGTAGC
Statistics
Matches: 127, Mismatches: 15, Indels: 8
0.85 0.10 0.05
Matches are distributed among these distances:
39 1 0.01
40 115 0.91
41 11 0.09
ACGTcount: A:0.26, C:0.21, G:0.26, T:0.26
Consensus pattern (40 bp):
TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAA
Found at i:40545852 original size:40 final size:40
Alignment explanation
Indices: 40545790--40545885 Score: 124
Period size: 40 Copynumber: 2.5 Consensus size: 40
40545780 CCATCTCCGT
* * *
40545790 CCAACCCAACACACC-A-TGTGGGGATAAGATCAACCCAC
1 CCAACCCTACACACCAAGTATGGGGATAAAATCAACCCAC
* * *
40545828 CCAGCCCTACACATCAAGTATGGGGATAAAATCAACCCAT
1 CCAACCCTACACACCAAGTATGGGGATAAAATCAACCCAC
40545868 CCAACCCTACACACCAAG
1 CCAACCCTACACACCAAG
40545886 AGATACCGTA
Statistics
Matches: 48, Mismatches: 8, Indels: 2
0.83 0.14 0.03
Matches are distributed among these distances:
38 12 0.25
39 1 0.02
40 35 0.73
ACGTcount: A:0.38, C:0.36, G:0.14, T:0.12
Consensus pattern (40 bp):
CCAACCCTACACACCAAGTATGGGGATAAAATCAACCCAC
Found at i:40547623 original size:25 final size:26
Alignment explanation
Indices: 40547563--40547611 Score: 75
Period size: 26 Copynumber: 2.0 Consensus size: 26
40547553 ATTTGTTTTA
*
40547563 ATATTTG-TTT-TTATGTTTTTAAAT
1 ATATTTGATTTATTATATTTTTAAAT
40547587 ATATTTGATTTATTATATTTTTAAA
1 ATATTTGATTTATTATATTTTTAAA
40547612 ATTTTTTATT
Statistics
Matches: 22, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
24 7 0.32
25 3 0.14
26 12 0.55
ACGTcount: A:0.31, C:0.00, G:0.06, T:0.63
Consensus pattern (26 bp):
ATATTTGATTTATTATATTTTTAAAT
Found at i:40548024 original size:23 final size:23
Alignment explanation
Indices: 40547990--40548128 Score: 95
Period size: 24 Copynumber: 6.0 Consensus size: 23
40547980 CGAGCTAATG
40547990 AACAGTAAGCTCTATTGAGCTGA
1 AACAGTAAGCTCTATTGAGCTGA
* * *
40548013 AACGGTAAGCTCTATCGAGTTG-
1 AACAGTAAGCTCTATTGAGCTGA
* * *
40548035 AACAATAAGC-CCATACGAGCTGA
1 AACAGTAAGCTCTAT-TGAGCTGA
** * * * *
40548058 AATGGTAAGCTCCAATAAGCTAA
1 AACAGTAAGCTCTATTGAGCTGA
* *
40548081 TAACAGTAAGCTCTAATGAGCTAAA
1 -AACAGTAAGCTCTATTGAGCT-GA
40548106 AACAGTAAGCTCT-TATGAGCTGA
1 AACAGTAAGCTCTAT-TGAGCTGA
40548129 TATATCGGTC
Statistics
Matches: 90, Mismatches: 20, Indels: 12
0.74 0.16 0.10
Matches are distributed among these distances:
21 3 0.03
22 14 0.16
23 32 0.36
24 39 0.43
25 2 0.02
ACGTcount: A:0.38, C:0.19, G:0.20, T:0.23
Consensus pattern (23 bp):
AACAGTAAGCTCTATTGAGCTGA
Found at i:40571518 original size:16 final size:18
Alignment explanation
Indices: 40571497--40571529 Score: 52
Period size: 16 Copynumber: 1.9 Consensus size: 18
40571487 CCCAAAATTA
40571497 CATCAAA-CGGT-AAAAG
1 CATCAAATCGGTCAAAAG
40571513 CATCAAATCGGTCAAAA
1 CATCAAATCGGTCAAAA
40571530 AACTGTAACC
Statistics
Matches: 15, Mismatches: 0, Indels: 2
0.88 0.00 0.12
Matches are distributed among these distances:
16 7 0.47
17 4 0.27
18 4 0.27
ACGTcount: A:0.48, C:0.21, G:0.15, T:0.15
Consensus pattern (18 bp):
CATCAAATCGGTCAAAAG
Found at i:40575513 original size:28 final size:28
Alignment explanation
Indices: 40575450--40575547 Score: 135
Period size: 28 Copynumber: 3.5 Consensus size: 28
40575440 ATATTAAGTC
*
40575450 CGCACACTCAGTGCTATATAATC-AACT
1 CGCACACTTAGTGCTATATAATCAAACT
40575477 CGCACACTTAGTGCTATATAATCAAACT
1 CGCACACTTAGTGCTATATAATCAAACT
* * * *
40575505 CGCACACTTAGTGCTGTACAATTTAAACC
1 CGCACACTTAGTGCTATATAA-TCAAACT
40575534 CGCACACTTAGTGC
1 CGCACACTTAGTGC
40575548 CAATCTCATG
Statistics
Matches: 64, Mismatches: 5, Indels: 2
0.90 0.07 0.03
Matches are distributed among these distances:
27 22 0.34
28 23 0.36
29 19 0.30
ACGTcount: A:0.32, C:0.29, G:0.13, T:0.27
Consensus pattern (28 bp):
CGCACACTTAGTGCTATATAATCAAACT
Found at i:40583796 original size:28 final size:28
Alignment explanation
Indices: 40583733--40583830 Score: 135
Period size: 28 Copynumber: 3.5 Consensus size: 28
40583723 ATATTAAGTC
*
40583733 CGCACACTCAGTGCTATATAATC-AACT
1 CGCACACTTAGTGCTATATAATCAAACT
40583760 CGCACACTTAGTGCTATATAATCAAACT
1 CGCACACTTAGTGCTATATAATCAAACT
* * * *
40583788 CGCACACTTAGTGCTGTACAATTTAAACC
1 CGCACACTTAGTGCTATATAA-TCAAACT
40583817 CGCACACTTAGTGC
1 CGCACACTTAGTGC
40583831 CAATCTCATG
Statistics
Matches: 64, Mismatches: 5, Indels: 2
0.90 0.07 0.03
Matches are distributed among these distances:
27 22 0.34
28 23 0.36
29 19 0.30
ACGTcount: A:0.32, C:0.29, G:0.13, T:0.27
Consensus pattern (28 bp):
CGCACACTTAGTGCTATATAATCAAACT
Found at i:40588219 original size:50 final size:49
Alignment explanation
Indices: 40588100--40588418 Score: 275
Period size: 50 Copynumber: 6.6 Consensus size: 49
40588090 TAAGATGCCA
* * * * * *
40588100 ATGCCATGTCCCGGACATGGTCTTACACTA-GCTCACACATCAAGGTCG
1 ATGCCATGTCCCAGACATGGTCTTACACTACTCTCATATATCGAGGCCG
** * *
40588148 ATTG-CATGTCCTTGACTTGGTCTTACACTGACTCTCATATATCGAGGCCA
1 A-TGCCATGTCCCAGACATGGTCTTACACT-ACTCTCATATATCGAGGCCG
* * * *
40588198 ATGCCATGTCCCAGACATGGTCTTACACTGGCTCTCATCTGTCG-GTGTCG
1 ATGCCATGTCCCAGACATGGTCTTACACT-ACTCTCATATATCGAG-GCCG
* * *
40588248 ATGCCATGTCCCAGACATGGTCTTACACTGA----CACATATC-AAGCTG
1 ATGCCATGTCCCAGACATGGTCTTACACT-ACTCTCATATATCGAGGCCG
* ** * * *
40588293 ATGACATGTCTTAGACATGGTCTTACACTAGCTTTCATATCTCGAGGCTG
1 ATGCCATGTCCCAGACATGGTCTTACACTA-CTCTCATATATCGAGGCCG
*
40588343 ATGCCATGTCCCAGACATGGTCTTACACTAGCTCTCATA-AT-GTGGCCG
1 ATGCCATGTCCCAGACATGGTCTTACACTA-CTCTCATATATCGAGGCCG
40588391 ATG-CATGTCCCAGACAT-GTCTTACACTA
1 ATGCCATGTCCCAGACATGGTCTTACACTA
40588419 GCACACATGT
Statistics
Matches: 222, Mismatches: 37, Indels: 26
0.78 0.13 0.09
Matches are distributed among these distances:
44 1 0.00
45 28 0.13
46 16 0.07
47 14 0.06
48 31 0.14
49 13 0.06
50 119 0.54
ACGTcount: A:0.24, C:0.28, G:0.20, T:0.29
Consensus pattern (49 bp):
ATGCCATGTCCCAGACATGGTCTTACACTACTCTCATATATCGAGGCCG
Found at i:40588366 original size:145 final size:146
Alignment explanation
Indices: 40588100--40588426 Score: 429
Period size: 145 Copynumber: 2.3 Consensus size: 146
40588090 TAAGATGCCA
* * * * *
40588100 ATGCCATGTCCCGGACATGGTCTTACACTAGCTCACACATCAAGGTCGATTGCATGTCCTTGACT
1 ATGCCATGTCCCAGACATGGTCTTACACTAGCACACATATCAAGCTCGATTGCATGTCCTTGACA
*
40588165 TGGTCTTACACTGACTCTCATATATCGAGGCCAATGCCATGTCCCAGACATGGTCTTACACTGGC
66 TGGTCTTACACTGACTCTCATATATCGAGGCCAATGCCATGTCCCAGACATGGTCTTACACTAGC
* *
40588230 TCTCAT-CTGTCGGTGTCG
131 TCTCATAATGT--G-GCCG
40588248 ATGCCATGTCCCAGACATGGTCTTACACT-G-ACACATATCAAGCT-GA-TGACATGT-CTTAGA
1 ATGCCATGTCCCAGACATGGTCTTACACTAGCACACATATCAAGCTCGATTG-CATGTCCTT-GA
* * **
40588308 CATGGTCTTACACT-AGCTTTCATATCTCGAGGCTGATGCCATGTCCCAGACATGGTCTTACACT
64 CATGGTCTTACACTGA-CTCTCATATATCGAGGCCAATGCCATGTCCCAGACATGGTCTTACACT
40588372 AGCTCTCATAATGTGGCCG
128 AGCTCTCATAATGTGGCCG
40588391 ATG-CATGTCCCAGACAT-GTCTTACACTAGCACACAT
1 ATGCCATGTCCCAGACATGGTCTTACACTAGCACACAT
40588427 GTCACCCAAA
Statistics
Matches: 161, Mismatches: 12, Indels: 17
0.85 0.06 0.09
Matches are distributed among these distances:
141 10 0.06
142 15 0.09
143 12 0.07
144 7 0.04
145 74 0.46
146 14 0.09
147 1 0.01
148 28 0.17
ACGTcount: A:0.24, C:0.28, G:0.20, T:0.28
Consensus pattern (146 bp):
ATGCCATGTCCCAGACATGGTCTTACACTAGCACACATATCAAGCTCGATTGCATGTCCTTGACA
TGGTCTTACACTGACTCTCATATATCGAGGCCAATGCCATGTCCCAGACATGGTCTTACACTAGC
TCTCATAATGTGGCCG
Found at i:40590420 original size:22 final size:19
Alignment explanation
Indices: 40590395--40590436 Score: 57
Period size: 22 Copynumber: 2.1 Consensus size: 19
40590385 TGATAATCAT
40590395 TAATATATAATTATATCTATTA
1 TAATATAT-ATTA-AT-TATTA
40590417 TAATATATATTAATTATTA
1 TAATATATATTAATTATTA
40590436 T
1 T
40590437 CAACTTTCTA
Statistics
Matches: 20, Mismatches: 0, Indels: 3
0.87 0.00 0.13
Matches are distributed among these distances:
19 6 0.30
20 2 0.10
21 4 0.20
22 8 0.40
ACGTcount: A:0.45, C:0.02, G:0.00, T:0.52
Consensus pattern (19 bp):
TAATATATATTAATTATTA
Found at i:40592289 original size:37 final size:37
Alignment explanation
Indices: 40592236--40592338 Score: 197
Period size: 37 Copynumber: 2.8 Consensus size: 37
40592226 TCGAATAGTC
*
40592236 CCACACGTAGTTATCGGGTCTTACCCGGACAAAATCT
1 CCACACGTAGTCATCGGGTCTTACCCGGACAAAATCT
40592273 CCACACGTAGTCATCGGGTCTTACCCGGACAAAATCT
1 CCACACGTAGTCATCGGGTCTTACCCGGACAAAATCT
40592310 CCACACGTAGTCATCGGGTCTTACCCGGA
1 CCACACGTAGTCATCGGGTCTTACCCGGA
40592339 ATATATTTCC
Statistics
Matches: 65, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
37 65 1.00
ACGTcount: A:0.25, C:0.32, G:0.20, T:0.22
Consensus pattern (37 bp):
CCACACGTAGTCATCGGGTCTTACCCGGACAAAATCT
Found at i:40592537 original size:48 final size:48
Alignment explanation
Indices: 40592479--40592812 Score: 505
Period size: 48 Copynumber: 7.0 Consensus size: 48
40592469 ATATACACAC
* * *
40592479 ATCTCCTACATATTTCACATTAGCCATTCGGCTTTACCAAATATACAT
1 ATCTCATACATATTTCACACTAGCCATTCGGCTTTACCACATATACAT
40592527 ATCTCATACATATTTCACACTAGCCATTCGGCTTTACCACATATACAT
1 ATCTCATACATATTTCACACTAGCCATTCGGCTTTACCACATATACAT
*
40592575 ATCTCATACATATTTCACACTAGCCATTCGGCTTTACCACA-ATACAA
1 ATCTCATACATATTTCACACTAGCCATTCGGCTTTACCACATATACAT
* * * *
40592622 ATCTCATATATAATTCACATTAGCCATTC-GCTTTACCACATATATAT
1 ATCTCATACATATTTCACACTAGCCATTCGGCTTTACCACATATACAT
* * *
40592669 ATCTCATACATA-TTCATATTAGCCATTC-GCTTTACCACATATAGAT
1 ATCTCATACATATTTCACACTAGCCATTCGGCTTTACCACATATACAT
*
40592715 ATCTCATACATATTTCACACTAGCCATTCAGCTTTACCACATATACAT
1 ATCTCATACATATTTCACACTAGCCATTCGGCTTTACCACATATACAT
* * *
40592763 ATCTCATACATATTTCACACTATCCATTCGGCTTTACCACACATATAT
1 ATCTCATACATATTTCACACTAGCCATTCGGCTTTACCACATATACAT
40592811 AT
1 AT
40592813 TTATCTTGTA
Statistics
Matches: 264, Mismatches: 19, Indels: 6
0.91 0.07 0.02
Matches are distributed among these distances:
46 55 0.21
47 60 0.23
48 149 0.56
ACGTcount: A:0.33, C:0.27, G:0.05, T:0.35
Consensus pattern (48 bp):
ATCTCATACATATTTCACACTAGCCATTCGGCTTTACCACATATACAT
Found at i:40596834 original size:40 final size:40
Alignment explanation
Indices: 40596805--40597034 Score: 361
Period size: 40 Copynumber: 5.7 Consensus size: 40
40596795 GCATGATTGT
* * * *
40596805 TCTTCGAGACCTAGCCCGGATATAACACCAGCACGAATGC
1 TCTTCGGGACTTAGCCCGGATATATCACTAGCACGAATGC
* * * *
40596845 TCTTCGGGACTTAACCCTGATATAACTCTAGCACGAATGC
1 TCTTCGGGACTTAGCCCGGATATATCACTAGCACGAATGC
* *
40596885 TCTTTCGAGACTTAGCCCGGGTATATCACTAGCACGAATGC
1 TC-TTCGGGACTTAGCCCGGATATATCACTAGCACGAATGC
40596926 TCTTCGGGACTTAGCCCGGATATATCACTAGCACGAATGC
1 TCTTCGGGACTTAGCCCGGATATATCACTAGCACGAATGC
40596966 TCTTCGGGACTTAGCCCGGATATATCACTAGCACGAATGC
1 TCTTCGGGACTTAGCCCGGATATATCACTAGCACGAATGC
40597006 TCTTCGGGACTTAGCCCGGATATATCACT
1 TCTTCGGGACTTAGCCCGGATATATCACT
40597035 CTCAATTCTC
Statistics
Matches: 175, Mismatches: 14, Indels: 2
0.92 0.07 0.01
Matches are distributed among these distances:
40 141 0.81
41 34 0.19
ACGTcount: A:0.26, C:0.28, G:0.21, T:0.25
Consensus pattern (40 bp):
TCTTCGGGACTTAGCCCGGATATATCACTAGCACGAATGC
Found at i:40597002 original size:121 final size:120
Alignment explanation
Indices: 40596805--40597034 Score: 361
Period size: 121 Copynumber: 1.9 Consensus size: 120
40596795 GCATGATTGT
*
40596805 TCTTCGAGACCTAGCCCGGATATAACACCAGCACGAATGCTCTTCGGGACTTAACCCTGATATAA
1 TCTTCGAGACCTAGCCCGGATATAACACCAGCACGAATGCTCTTCGGGACTTAACCCGGATATAA
* *
40596870 CTCTAGCACGAATGCTCTTTCGAGACTTAGCCCGGGTATATCACTAGCACGAATGC
66 CACTAGCACGAATGCTC-TTCGAGACTTAGCCCGGATATATCACTAGCACGAATGC
* * * * * *
40596926 TCTTCGGGACTTAGCCCGGATATATCACTAGCACGAATGCTCTTCGGGACTTAGCCCGGATATAT
1 TCTTCGAGACCTAGCCCGGATATAACACCAGCACGAATGCTCTTCGGGACTTAACCCGGATATAA
*
40596991 CACTAGCACGAATGCTCTTCGGGACTTAGCCCGGATATATCACT
66 CACTAGCACGAATGCTCTTCGAGACTTAGCCCGGATATATCACT
40597035 CTCAATTCTC
Statistics
Matches: 99, Mismatches: 10, Indels: 1
0.90 0.09 0.01
Matches are distributed among these distances:
120 25 0.25
121 74 0.75
ACGTcount: A:0.26, C:0.28, G:0.21, T:0.25
Consensus pattern (120 bp):
TCTTCGAGACCTAGCCCGGATATAACACCAGCACGAATGCTCTTCGGGACTTAACCCGGATATAA
CACTAGCACGAATGCTCTTCGAGACTTAGCCCGGATATATCACTAGCACGAATGC
Found at i:40597019 original size:80 final size:80
Alignment explanation
Indices: 40596805--40597034 Score: 370
Period size: 81 Copynumber: 2.9 Consensus size: 80
40596795 GCATGATTGT
* * * * * *
40596805 TCTTCGAGACCTAGCCCGGATATAACACCAGCACGAATGCTCTTCGGGACTTAACCCTGATATAA
1 TCTTCGAGACTTAGCCCGGATATATCACTAGCACGAATGCTCTTCGGGACTTAGCCCGGATATAT
*
40596870 CTCTAGCACGAATGC
66 CACTAGCACGAATGC
*
40596885 TCTTTCGAGACTTAGCCCGGGTATATCACTAGCACGAATGCTCTTCGGGACTTAGCCCGGATATA
1 TC-TTCGAGACTTAGCCCGGATATATCACTAGCACGAATGCTCTTCGGGACTTAGCCCGGATATA
40596950 TCACTAGCACGAATGC
65 TCACTAGCACGAATGC
*
40596966 TCTTCGGGACTTAGCCCGGATATATCACTAGCACGAATGCTCTTCGGGACTTAGCCCGGATATAT
1 TCTTCGAGACTTAGCCCGGATATATCACTAGCACGAATGCTCTTCGGGACTTAGCCCGGATATAT
40597031 CACT
66 CACT
40597035 CTCAATTCTC
Statistics
Matches: 139, Mismatches: 10, Indels: 2
0.92 0.07 0.01
Matches are distributed among these distances:
80 67 0.48
81 72 0.52
ACGTcount: A:0.26, C:0.28, G:0.21, T:0.25
Consensus pattern (80 bp):
TCTTCGAGACTTAGCCCGGATATATCACTAGCACGAATGCTCTTCGGGACTTAGCCCGGATATAT
CACTAGCACGAATGC
Found at i:40598370 original size:37 final size:37
Alignment explanation
Indices: 40598312--40598414 Score: 170
Period size: 37 Copynumber: 2.8 Consensus size: 37
40598302 CGAATAGTCC
* *
40598312 CCACACGTAGTTATCGTGTCTTACCCGGACAAAATCT
1 CCACACGTAGTCATCGGGTCTTACCCGGACAAAATCT
40598349 CCACACGTAGTCATCGGGTCTTACCCGGACAAAATCT
1 CCACACGTAGTCATCGGGTCTTACCCGGACAAAATCT
**
40598386 CCACACGTAGTCATTAGGTCTTACCCGGA
1 CCACACGTAGTCATCGGGTCTTACCCGGA
40598415 ATATATTTCC
Statistics
Matches: 62, Mismatches: 4, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
37 62 1.00
ACGTcount: A:0.26, C:0.31, G:0.18, T:0.24
Consensus pattern (37 bp):
CCACACGTAGTCATCGGGTCTTACCCGGACAAAATCT
Found at i:40598613 original size:48 final size:48
Alignment explanation
Indices: 40598555--40598796 Score: 412
Period size: 48 Copynumber: 5.0 Consensus size: 48
40598545 ATATACACAC
* * * *
40598555 ATCTCCTACATATTTCACATTAGCCATTCGACTTTACCAAATATACAT
1 ATCTCATACATATTTCACACTAGCCATTCGGCTTTACCACATATACAT
40598603 ATCTCATACATATTTCACACTAGCCATTCGGCTTTACCACATATACAT
1 ATCTCATACATATTTCACACTAGCCATTCGGCTTTACCACATATACAT
*
40598651 ATCTCATACATATTTCACACTAGCCATTCGGCTTTACTACATATACAT
1 ATCTCATACATATTTCACACTAGCCATTCGGCTTTACCACATATACAT
40598699 ATCTCATACATATTTCACACTAGCCATTCGGCTTTACCACATATACAT
1 ATCTCATACATATTTCACACTAGCCATTCGGCTTTACCACATATACAT
* * *
40598747 ATCTCATACATATTTCACACGAGCCATTCGGCTTTACCACACATATAT
1 ATCTCATACATATTTCACACTAGCCATTCGGCTTTACCACATATACAT
40598795 AT
1 AT
40598797 TTATCTTGTA
Statistics
Matches: 185, Mismatches: 9, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
48 185 1.00
ACGTcount: A:0.32, C:0.28, G:0.06, T:0.34
Consensus pattern (48 bp):
ATCTCATACATATTTCACACTAGCCATTCGGCTTTACCACATATACAT
Found at i:40626680 original size:20 final size:20
Alignment explanation
Indices: 40626657--40626694 Score: 58
Period size: 20 Copynumber: 1.9 Consensus size: 20
40626647 AAAATGAATA
*
40626657 GTAATTGTCATGAATTATCT
1 GTAAATGTCATGAATTATCT
*
40626677 GTAAATGTTATGAATTAT
1 GTAAATGTCATGAATTAT
40626695 ACAGTAATGC
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
20 16 1.00
ACGTcount: A:0.34, C:0.05, G:0.16, T:0.45
Consensus pattern (20 bp):
GTAAATGTCATGAATTATCT
Found at i:40626703 original size:20 final size:19
Alignment explanation
Indices: 40626656--40626703 Score: 51
Period size: 20 Copynumber: 2.4 Consensus size: 19
40626646 GAAAATGAAT
40626656 AGTAATTGTCATGAATTATC
1 AGTAA-TGTCATGAATTATC
* *
40626676 TGTAAATGTTATGAATTATAC
1 AGT-AATGTCATGAATTAT-C
40626697 AGTAATG
1 AGTAATG
40626704 CTCCCCTGTT
Statistics
Matches: 23, Mismatches: 3, Indels: 4
0.77 0.10 0.13
Matches are distributed among these distances:
20 18 0.78
21 5 0.22
ACGTcount: A:0.38, C:0.06, G:0.17, T:0.40
Consensus pattern (19 bp):
AGTAATGTCATGAATTATC
Found at i:40628598 original size:52 final size:52
Alignment explanation
Indices: 40628533--40628679 Score: 231
Period size: 52 Copynumber: 2.8 Consensus size: 52
40628523 TATCTGACTT
* *
40628533 GGGTCACATGGCCAAGTCACACGCTCGTGTGCTAGGCCGTGTGTAGGTACAG
1 GGGTCACACGGCCAAGTCACACGCCCGTGTGCTAGGCCGTGTGTAGGTACAG
*
40628585 GGGTCACACGGCCAAGTCACACGCCCATGTGCTAGGCCGTGTGTAGGTACAG
1 GGGTCACACGGCCAAGTCACACGCCCGTGTGCTAGGCCGTGTGTAGGTACAG
* ** *
40628637 GGGTCACACAGCCAAACCACACGCCCGTGTGCCAGGCCGTGTG
1 GGGTCACACGGCCAAGTCACACGCCCGTGTGCTAGGCCGTGTG
40628680 AAAAATCTTA
Statistics
Matches: 87, Mismatches: 8, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
52 87 1.00
ACGTcount: A:0.20, C:0.30, G:0.33, T:0.17
Consensus pattern (52 bp):
GGGTCACACGGCCAAGTCACACGCCCGTGTGCTAGGCCGTGTGTAGGTACAG
Found at i:40630132 original size:128 final size:128
Alignment explanation
Indices: 40629941--40630173 Score: 324
Period size: 128 Copynumber: 1.8 Consensus size: 128
40629931 TTTAAATAAT
* * * *
40629941 TTTTAGAAGATATGAATGAAGTCTTGAAGGGATATTTGATTATTTTAAACAATCGAAATTGCAAC
1 TTTTAAAAGACATGAATGAAATCTTGAAGGGATATTTGATTATTTTAAACAAACGAAATTGCAAC
* *
40630006 CCAACACGTTAGGGCAGGATTCCACAAATTGCCAAATATCGCGTATCACTTTCGCTCAAGGGA
66 CCAACACGTAAGGGCAAGATTCCACAAATTGCCAAATATCGCGTATCACTTTCGCTCAAGGGA
* * * * * *
40630069 TTTTAAAAGACATGAGTGAAATTTTGAAGTGATATTTGATTATTTTGAGCAAACGCGAA-TGCAA
1 TTTTAAAAGACATGAATGAAATCTTGAAGGGATATTTGATTATTTTAAACAAACG-AAATTGCAA
* *
40630133 CCCAACACGTAAGGGCAAGATTCCGCAAATTGTCAAATATC
65 CCCAACACGTAAGGGCAAGATTCCACAAATTGCCAAATATC
40630174 AAATCTCGTC
Statistics
Matches: 90, Mismatches: 14, Indels: 2
0.85 0.13 0.02
Matches are distributed among these distances:
128 88 0.98
129 2 0.02
ACGTcount: A:0.36, C:0.16, G:0.19, T:0.29
Consensus pattern (128 bp):
TTTTAAAAGACATGAATGAAATCTTGAAGGGATATTTGATTATTTTAAACAAACGAAATTGCAAC
CCAACACGTAAGGGCAAGATTCCACAAATTGCCAAATATCGCGTATCACTTTCGCTCAAGGGA
Found at i:40631750 original size:26 final size:26
Alignment explanation
Indices: 40631721--40631776 Score: 112
Period size: 26 Copynumber: 2.2 Consensus size: 26
40631711 TGATACAAAT
40631721 TGATAATGGGTTAGGTAAATGTTCCA
1 TGATAATGGGTTAGGTAAATGTTCCA
40631747 TGATAATGGGTTAGGTAAATGTTCCA
1 TGATAATGGGTTAGGTAAATGTTCCA
40631773 TGAT
1 TGAT
40631777 GGGAATTTCA
Statistics
Matches: 30, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
26 30 1.00
ACGTcount: A:0.30, C:0.07, G:0.27, T:0.36
Consensus pattern (26 bp):
TGATAATGGGTTAGGTAAATGTTCCA
Found at i:40638771 original size:26 final size:26
Alignment explanation
Indices: 40638742--40638797 Score: 103
Period size: 26 Copynumber: 2.2 Consensus size: 26
40638732 AGATACAAAT
*
40638742 TGATAATGGGTTAGGTAAATGTTTCA
1 TGATAATGGGTTAGGTAAATGTTCCA
40638768 TGATAATGGGTTAGGTAAATGTTCCA
1 TGATAATGGGTTAGGTAAATGTTCCA
40638794 TGAT
1 TGAT
40638798 GGGAATTTCA
Statistics
Matches: 29, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
26 29 1.00
ACGTcount: A:0.30, C:0.05, G:0.27, T:0.38
Consensus pattern (26 bp):
TGATAATGGGTTAGGTAAATGTTCCA
Found at i:40643045 original size:47 final size:47
Alignment explanation
Indices: 40642988--40643291 Score: 437
Period size: 47 Copynumber: 6.4 Consensus size: 47
40642978 ATTGATGTAC
* * *
40642988 AAGTATATATATGTGATAGGGCCGAGTGGCCAATGTGATGAATGTGA
1 AAGTGTATATATGTGATAAGGCCGAATGGCCAATGTGATGAATGTGA
* * * *
40643035 AAGTATATATATATGTGATAGGGCCGAGTGGCCAACGTGATGAATGTGA
1 AAG--TGTATATATGTGATAAGGCCGAATGGCCAATGTGATGAATGTGA
* * * * *
40643084 AAGTGTATATATGTGATAGGGTCGAGTGACCAACGTGATGAATGTGA
1 AAGTGTATATATGTGATAAGGCCGAATGGCCAATGTGATGAATGTGA
40643131 AAGTGTATATATGTGATAAGGCCGAATGGCCAATGTGATGAATGTGA
1 AAGTGTATATATGTGATAAGGCCGAATGGCCAATGTGATGAATGTGA
* * *
40643178 AAGTGTATATATGAGATAAGACCTAATGGCCAATGTGATGAATGTGA
1 AAGTGTATATATGTGATAAGGCCGAATGGCCAATGTGATGAATGTGA
*
40643225 AAGTGTATATATGTGATAAGGCCGAATGGCCAATGTGATGGATGTGA
1 AAGTGTATATATGTGATAAGGCCGAATGGCCAATGTGATGAATGTGA
*
40643272 AAGTGTATAAATGTGATAAG
1 AAGTGTATATATGTGATAAG
40643292 TCCCGAAGGG
Statistics
Matches: 238, Mismatches: 17, Indels: 4
0.92 0.07 0.02
Matches are distributed among these distances:
47 192 0.81
49 46 0.19
ACGTcount: A:0.34, C:0.08, G:0.30, T:0.28
Consensus pattern (47 bp):
AAGTGTATATATGTGATAAGGCCGAATGGCCAATGTGATGAATGTGA
Found at i:40649027 original size:7 final size:7
Alignment explanation
Indices: 40649015--40649046 Score: 64
Period size: 7 Copynumber: 4.6 Consensus size: 7
40649005 ACTTTTTCAA
40649015 TCATCCC
1 TCATCCC
40649022 TCATCCC
1 TCATCCC
40649029 TCATCCC
1 TCATCCC
40649036 TCATCCC
1 TCATCCC
40649043 TCAT
1 TCAT
40649047 TCATTCATCA
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 25 1.00
ACGTcount: A:0.16, C:0.53, G:0.00, T:0.31
Consensus pattern (7 bp):
TCATCCC
Found at i:40652783 original size:38 final size:38
Alignment explanation
Indices: 40652714--40652789 Score: 125
Period size: 38 Copynumber: 2.0 Consensus size: 38
40652704 AGGTGAAGAA
* *
40652714 AACATGGCTGTGATAGAAGCCAACCTAAGGAATTTTAT
1 AACATGGCTGTGATAGAAGCCAACCCAAGGAAATTTAT
*
40652752 AACATGGCTGTGATAGAAGCCAACCCGAGGAAATTTAT
1 AACATGGCTGTGATAGAAGCCAACCCAAGGAAATTTAT
40652790 TCAATCCACA
Statistics
Matches: 35, Mismatches: 3, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
38 35 1.00
ACGTcount: A:0.37, C:0.17, G:0.22, T:0.24
Consensus pattern (38 bp):
AACATGGCTGTGATAGAAGCCAACCCAAGGAAATTTAT
Found at i:40661071 original size:17 final size:18
Alignment explanation
Indices: 40661044--40661077 Score: 52
Period size: 17 Copynumber: 1.9 Consensus size: 18
40661034 AATTAAATAT
40661044 ATGCATATTAAATTATTA
1 ATGCATATTAAATTATTA
*
40661062 ATGC-TATTAATTTATT
1 ATGCATATTAAATTATT
40661078 TAAACAAAAA
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
17 11 0.73
18 4 0.27
ACGTcount: A:0.38, C:0.06, G:0.06, T:0.50
Consensus pattern (18 bp):
ATGCATATTAAATTATTA
Done.