Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: VEPZ01008912.1 Hibiscus syriacus cultivar Beakdansim tig00112215_pilon, whole genome shotgun sequence
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: 3753803
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
File 2 of 18
Found at i:161580 original size:122 final size:123
Alignment explanation
Indices: 161367--161590 Score: 290
Period size: 122 Copynumber: 1.8 Consensus size: 123
161357 TACTACTCTG
* * * *
161367 TTGCGGCGTTTGTTAAAAATGCCATAATATATGAACCCTATTACGACATTTTTATAAAAACACCG
1 TTGCGGCGTTTGTTAAAAACGCCATAATAGATGAACCCTATTACGACATTTGTATAAAAACACCA
** *
161432 CTAAAGTACTACTATGTTACGGCG-TTTGTTTAAAAAATGCCATTATGGATGAACATA
66 CTAAAGTACTACTATGTTACAACGTTTTGTATAAAAAATGCCATTATGGATGAACATA
* * * * * *
161489 TTGCGGCGTTTGTATAAAAACGCCATTATGGATGAA-CCTATTGCGGCGTTTGTATAAAAACGCC
1 TTGCGGCGTTTGT-TAAAAACGCCATAATAGATGAACCCTATTACGACATTTGTATAAAAACACC
* *
161553 ACTAAAGTACTACTCTGTTGCAACGTTTTGTATAAAAA
65 ACTAAAGTACTACTATGTTACAACGTTTTGTATAAAAA
161591 CACGGCTAAA
Statistics
Matches: 85, Mismatches: 15, Indels: 3
0.83 0.15 0.03
Matches are distributed among these distances:
122 56 0.66
123 29 0.34
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.32
Consensus pattern (123 bp):
TTGCGGCGTTTGTTAAAAACGCCATAATAGATGAACCCTATTACGACATTTGTATAAAAACACCA
CTAAAGTACTACTATGTTACAACGTTTTGTATAAAAAATGCCATTATGGATGAACATA
Found at i:165116 original size:58 final size:58
Alignment explanation
Indices: 165041--165152 Score: 152
Period size: 58 Copynumber: 1.9 Consensus size: 58
165031 AGTGGTAATA
* **
165041 GTATCATCACCAGAAACATTGACAGGCATGTTCCAAATGTGTCTGGTTGTGCACAGTG
1 GTATCATCACCAGAAACATTAACAGGCATGTTCCAAATGCATCTGGTTGTGCACAGTG
* * * * *
165099 GTATCATCGCCATAAACATTAACATGCATGTTCTAAATGCATTTGGTTGTGCAC
1 GTATCATCACCAGAAACATTAACAGGCATGTTCCAAATGCATCTGGTTGTGCAC
165153 TTTAAGTGAC
Statistics
Matches: 46, Mismatches: 8, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
58 46 1.00
ACGTcount: A:0.29, C:0.21, G:0.21, T:0.30
Consensus pattern (58 bp):
GTATCATCACCAGAAACATTAACAGGCATGTTCCAAATGCATCTGGTTGTGCACAGTG
Found at i:166392 original size:2 final size:2
Alignment explanation
Indices: 166385--166454 Score: 140
Period size: 2 Copynumber: 35.0 Consensus size: 2
166375 ATGAATGAAG
166385 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
166427 TA TA TA TA TA TA TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA
166455 AGTTTCAATT
Statistics
Matches: 68, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 68 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
TA
Found at i:168906 original size:19 final size:18
Alignment explanation
Indices: 168882--168923 Score: 57
Period size: 18 Copynumber: 2.3 Consensus size: 18
168872 TTCGAACACC
168882 TAAAATCATGTAATTTTAA
1 TAAAAT-ATGTAATTTTAA
* *
168901 TAAAATATTTTATTTTAA
1 TAAAATATGTAATTTTAA
168919 TAAAA
1 TAAAA
168924 ATATTGATTT
Statistics
Matches: 21, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
18 15 0.71
19 6 0.29
ACGTcount: A:0.50, C:0.02, G:0.02, T:0.45
Consensus pattern (18 bp):
TAAAATATGTAATTTTAA
Found at i:168933 original size:18 final size:18
Alignment explanation
Indices: 168894--168934 Score: 57
Period size: 18 Copynumber: 2.3 Consensus size: 18
168884 AAATCATGTA
*
168894 ATTTTAATAAAATATTTT
1 ATTTTAATAAAATATTTG
168912 ATTTTAATAAAA-ATATTG
1 ATTTTAATAAAATAT-TTG
168930 ATTTT
1 ATTTT
168935 TTGTCTACAA
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
17 2 0.10
18 19 0.90
ACGTcount: A:0.44, C:0.00, G:0.02, T:0.54
Consensus pattern (18 bp):
ATTTTAATAAAATATTTG
Found at i:173410 original size:36 final size:37
Alignment explanation
Indices: 173370--173537 Score: 146
Period size: 35 Copynumber: 4.5 Consensus size: 37
173360 AAGGAAAATG
* *
173370 TCTCAAGTGAGACAAAATTTGATTTT-TG-AAAAACAA
1 TCTCAAGTGAGATAAAATTTG-TTTTAAGAAAAAACAA
* * * * ** *
173406 TCTCAGGTAAAACAAAATTCATTTTGAGAAAAAAAAACAA
1 TCTCAAGTGAGATAAAATTTGTTTT---AAGAAAAAACAA
* *
173446 TCTTAAGTGAGATAAAATTTGTTTGAAG-AAAAA-AA
1 TCTCAAGTGAGATAAAATTTGTTTTAAGAAAAAACAA
* *
173481 TCTTAAGTAAGATAAAATTTGTTTTAAGAAAAAACAA
1 TCTCAAGTGAGATAAAATTTGTTTTAAGAAAAAACAA
*
173518 TCTCCAGTGAGATAAAATTT
1 TCTCAAGTGAGATAAAATTT
173538 TGAGTGAAAT
Statistics
Matches: 104, Mismatches: 21, Indels: 13
0.75 0.15 0.09
Matches are distributed among these distances:
35 32 0.31
36 26 0.25
37 21 0.20
40 25 0.24
ACGTcount: A:0.48, C:0.09, G:0.13, T:0.30
Consensus pattern (37 bp):
TCTCAAGTGAGATAAAATTTGTTTTAAGAAAAAACAA
Found at i:173531 original size:37 final size:37
Alignment explanation
Indices: 173437--173537 Score: 152
Period size: 35 Copynumber: 2.8 Consensus size: 37
173427 TTTTGAGAAA
173437 AAAAAACAATCTTAAGTGAGATAAAATTTGTTTGAAG
1 AAAAAACAATCTTAAGTGAGATAAAATTTGTTTGAAG
* *
173474 -AAAAA-AATCTTAAGTAAGATAAAATTTGTTTTAAG
1 AAAAAACAATCTTAAGTGAGATAAAATTTGTTTGAAG
**
173509 AAAAAACAATCTCCAGTGAGATAAAATTT
1 AAAAAACAATCTTAAGTGAGATAAAATTT
173538 TGAGTGAAAT
Statistics
Matches: 57, Mismatches: 5, Indels: 4
0.86 0.08 0.06
Matches are distributed among these distances:
35 28 0.49
36 10 0.18
37 19 0.33
ACGTcount: A:0.50, C:0.07, G:0.13, T:0.30
Consensus pattern (37 bp):
AAAAAACAATCTTAAGTGAGATAAAATTTGTTTGAAG
Found at i:173653 original size:44 final size:44
Alignment explanation
Indices: 173590--173744 Score: 177
Period size: 44 Copynumber: 3.5 Consensus size: 44
173580 GAGATGACGC
*
173590 TGATCCAACTCCTTATGTGATGAAATCGAGCGAAATATTGGTGT
1 TGATCAAACTCCTTATGTGATGAAATCGAGCGAAATATTGGTGT
* * *
173634 TGATCAAACTTCTTATGTGAT-AGAATCGAGCGAAATGTTGTTGT
1 TGATCAAACTCCTTATGTGATGA-AATCGAGCGAAATATTGGTGT
* * * * * *
173678 TGATCAAACTCTTTATGTGATGGAATCAAGCAAAAAGAATGGTGT
1 TGATCAAACTCCTTATGTGATGAAATCGAGC-GAAATATTGGTGT
* *
173723 TGATCCAACTCCTTATGGGATG
1 TGATCAAACTCCTTATGTGATG
173745 GACGAGCTAA
Statistics
Matches: 92, Mismatches: 16, Indels: 5
0.81 0.14 0.04
Matches are distributed among these distances:
43 1 0.01
44 64 0.70
45 27 0.29
ACGTcount: A:0.31, C:0.14, G:0.23, T:0.32
Consensus pattern (44 bp):
TGATCAAACTCCTTATGTGATGAAATCGAGCGAAATATTGGTGT
Found at i:174334 original size:42 final size:42
Alignment explanation
Indices: 174288--174426 Score: 163
Period size: 42 Copynumber: 3.3 Consensus size: 42
174278 AAATGGCCCA
* * *
174288 AAGGATTTAATCATCATGCTTGAAAGACTTACTGATGACCCG
1 AAGGACTTAATCATCATGCTCGAAAGACTTACTGATGACCTG
* *
174330 AAGGACTT-ATCATCTTGCTCGAAAGACTTACAGATGACCTG
1 AAGGACTTAATCATCATGCTCGAAAGACTTACTGATGACCTG
* * * * * *
174371 GAGGATTTTATCATCATGCTCGGAAGACATACTGATGGCCTG
1 AAGGACTTAATCATCATGCTCGAAAGACTTACTGATGACCTG
*
174413 AAGGACTTACTCAT
1 AAGGACTTAATCAT
174427 TTTGGAAATA
Statistics
Matches: 80, Mismatches: 16, Indels: 2
0.82 0.16 0.02
Matches are distributed among these distances:
41 35 0.44
42 45 0.56
ACGTcount: A:0.31, C:0.20, G:0.21, T:0.28
Consensus pattern (42 bp):
AAGGACTTAATCATCATGCTCGAAAGACTTACTGATGACCTG
Found at i:174354 original size:41 final size:41
Alignment explanation
Indices: 174251--174426 Score: 156
Period size: 42 Copynumber: 4.2 Consensus size: 41
174241 GGCCTAACGA
* * * * * *
174251 ACTTATTATCTTGCTCGAAAGACTGA-TAAATGGCCCAAAGG
1 ACTTATCATCATGCTCGAAAGACTTACT-GATGACCCGAAGG
* *
174292 ATTTAATCATCATGCTTGAAAGACTTACTGATGACCCGAAGG
1 ACTT-ATCATCATGCTCGAAAGACTTACTGATGACCCGAAGG
* * * *
174334 ACTTATCATCTTGCTCGAAAGACTTACAGATGACCTGGAGG
1 ACTTATCATCATGCTCGAAAGACTTACTGATGACCCGAAGG
* * * * *
174375 ATTTTATCATCATGCTCGGAAGACATACTGATGGCCTGAAGG
1 A-CTTATCATCATGCTCGAAAGACTTACTGATGACCCGAAGG
174417 ACTTACTCAT
1 ACTTA-TCAT
174427 TTTGGAAATA
Statistics
Matches: 109, Mismatches: 22, Indels: 7
0.79 0.16 0.05
Matches are distributed among these distances:
41 39 0.36
42 69 0.63
43 1 0.01
ACGTcount: A:0.31, C:0.20, G:0.20, T:0.28
Consensus pattern (41 bp):
ACTTATCATCATGCTCGAAAGACTTACTGATGACCCGAAGG
Found at i:174390 original size:83 final size:83
Alignment explanation
Indices: 174251--174426 Score: 217
Period size: 83 Copynumber: 2.1 Consensus size: 83
174241 GGCCTAACGA
* * * *
174251 ACTTATTATCTTGCTCGAAAGACTGATAAATGGCCCAAAGGATTTAATCATCATGCTTGAAAGAC
1 ACTTATCATCTTGCTCGAAAGACTGACAAATGACCCAAAGGATTTAATCATCATGCTCGAAAGAC
*
174316 TTACTGATGACCCGAAGG
66 ATACTGATGACCCGAAGG
* * *** * *
174334 ACTTATCATCTTGCTCGAAAGACTTACAGATGACCTGGAGGATTTTATCATCATGCTCGGAAGAC
1 ACTTATCATCTTGCTCGAAAGACTGACAAATGACCCAAAGGATTTAATCATCATGCTCGAAAGAC
* *
174399 ATACTGATGGCCTGAAGG
66 ATACTGATGACCCGAAGG
174417 ACTTACTCAT
1 ACTTA-TCAT
174427 TTTGGAAATA
Statistics
Matches: 78, Mismatches: 14, Indels: 1
0.84 0.15 0.01
Matches are distributed among these distances:
83 74 0.95
84 4 0.05
ACGTcount: A:0.31, C:0.20, G:0.20, T:0.28
Consensus pattern (83 bp):
ACTTATCATCTTGCTCGAAAGACTGACAAATGACCCAAAGGATTTAATCATCATGCTCGAAAGAC
ATACTGATGACCCGAAGG
Found at i:176220 original size:39 final size:39
Alignment explanation
Indices: 176177--176252 Score: 100
Period size: 39 Copynumber: 1.9 Consensus size: 39
176167 AACCTGGGAA
176177 TTATCACCCTTATTGAACTCATA-ATCCTCAACTTAGGTG
1 TTATCACCCTTATTGAACTCA-ACATCCTCAACTTAGGTG
* ** *
176216 TTATCACCTTTATTTCACTCAACATCCTCACCTTAGG
1 TTATCACCCTTATTGAACTCAACATCCTCAACTTAGG
176253 CATTACTGCC
Statistics
Matches: 32, Mismatches: 4, Indels: 2
0.84 0.11 0.05
Matches are distributed among these distances:
38 1 0.03
39 31 0.97
ACGTcount: A:0.26, C:0.29, G:0.08, T:0.37
Consensus pattern (39 bp):
TTATCACCCTTATTGAACTCAACATCCTCAACTTAGGTG
Found at i:176265 original size:39 final size:39
Alignment explanation
Indices: 176216--176314 Score: 137
Period size: 39 Copynumber: 2.5 Consensus size: 39
176206 AACTTAGGTG
* * *
176216 TTATCACCTTTATTTCACTCAACATCCTCACCTTAGGCA
1 TTATCGCCTTTATTACACTCAACATCCTCACATTAGGCA
* *
176255 TTA-CTGCCTTTATTACACTTATCATCCTCACATTAGGCA
1 TTATC-GCCTTTATTACACTCAACATCCTCACATTAGGCA
176294 TTATCGCCTTTATTACACTCA
1 TTATCGCCTTTATTACACTCA
176315 CCTAATAATG
Statistics
Matches: 52, Mismatches: 6, Indels: 4
0.84 0.10 0.06
Matches are distributed among these distances:
38 1 0.02
39 50 0.96
40 1 0.02
ACGTcount: A:0.25, C:0.30, G:0.06, T:0.38
Consensus pattern (39 bp):
TTATCGCCTTTATTACACTCAACATCCTCACATTAGGCA
Found at i:179249 original size:3 final size:3
Alignment explanation
Indices: 179241--179323 Score: 157
Period size: 3 Copynumber: 27.3 Consensus size: 3
179231 TTTGTCCCAG
179241 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTTA
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA -TTA
179287 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA T
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA T
179324 AAAAAATAAT
Statistics
Matches: 79, Mismatches: 0, Indels: 2
0.98 0.00 0.02
Matches are distributed among these distances:
3 76 0.96
4 3 0.04
ACGTcount: A:0.33, C:0.00, G:0.00, T:0.67
Consensus pattern (3 bp):
TTA
Found at i:180587 original size:26 final size:28
Alignment explanation
Indices: 180523--180590 Score: 81
Period size: 26 Copynumber: 2.5 Consensus size: 28
180513 TTAATTTACA
180523 TATTTTA--TATTTTAATCTTATAATTT
1 TATTTTATTTATTTTAATCTTATAATTT
* *
180549 TAATTTTCTTTATTTTAGTCTT-T-ATTT
1 T-ATTTTATTTATTTTAATCTTATAATTT
180576 TATTTTATTTATTTT
1 TATTTTATTTATTTT
180591 TATTATTACC
Statistics
Matches: 36, Mismatches: 3, Indels: 6
0.80 0.07 0.13
Matches are distributed among these distances:
26 14 0.39
27 10 0.28
28 1 0.03
29 11 0.31
ACGTcount: A:0.24, C:0.04, G:0.01, T:0.71
Consensus pattern (28 bp):
TATTTTATTTATTTTAATCTTATAATTT
Found at i:184427 original size:177 final size:177
Alignment explanation
Indices: 184136--184818 Score: 1060
Period size: 177 Copynumber: 3.9 Consensus size: 177
184126 CCTTCGGGAC
* *
184136 ATCCATAAGACCTTCAGTGCAAGATGTTTTCAAATGAGATTTTAGAAACTAAGACTTCGGGGGTT
1 ATCCATAAGACCTTCAGTGCAAGATGTTTTCAAATGAGATTTTAGAAACCAAGCCTTCGGGGGTT
* * *
184201 TCCTAATTATCTCAAAATAGTTGTTAAAGGAAGCTAAGCCTAACAAAGGGGTTCCTTGACAACTA
66 TACTAATTATCTCAAAAGAGCTGTTAAAGGAAGCTAAGCCTAACAAAGGGGTTCCTTGACAACTA
*
184266 AGAAACTAAGCCTTCGAGGGTTTCTTGATTTGTAAGTCCTACGGG-A
131 AGAAACTAAGCCTTCGGGGGTTTCTTGATTTGTAAGTCCTACGGGCA
* * **
184312 CATCCATAAGACCTTCAGTTC-AGAATGTTTTCAAATGAGATTTTAAAAACCAAGCCTTTAGGGG
1 -ATCCATAAGACCTTCAGTGCAAG-ATGTTTTCAAATGAGATTTTAGAAACCAAGCCTTCGGGGG
* * * *
184376 TTTACTAATTATCTCAAAAGAGATGTTAAAGGAAGCTGAGCCTAGCAAAGGGGTTCCTTGACAAT
64 TTTACTAATTATCTCAAAAGAGCTGTTAAAGGAAGCTAAGCCTAACAAAGGGGTTCCTTGACAAC
*
184441 TAAGAAACTAAGACTTCGGGGGTTTCTTGATTTGTAAGTCCTACGGGCA
129 TAAGAAACTAAGCCTTCGGGGGTTTCTTGATTTGTAAGTCCTACGGGCA
*
184490 ATCCATAAGACCTTCAGTGCATGATGTTTTCAAATGAGATTTTAGAAACCAAGCCTTCGGGGGTT
1 ATCCATAAGACCTTCAGTGCAAGATGTTTTCAAATGAGATTTTAGAAACCAAGCCTTCGGGGGTT
184555 TACTAATTATCTCAAAAGAGCTGTTAAAGGAAGCTAAGCCTAACAAAGGGGTTCCTTGACAACTA
66 TACTAATTATCTCAAAAGAGCTGTTAAAGGAAGCTAAGCCTAACAAAGGGGTTCCTTGACAACTA
* *
184620 AGAAACTAAGCCTTCGGGGGTTTC------T-TAAGTCCTTCGGGCT
131 AGAAACTAAGCCTTCGGGGGTTTCTTGATTTGTAAGTCCTACGGGCA
* * *
184660 ATCCATAAAACCTTCAGTGCAAGATGTTTTCAAATGAGATTTTAGAAATCAAGCCTTCGGGCGTT
1 ATCCATAAGACCTTCAGTGCAAGATGTTTTCAAATGAGATTTTAGAAACCAAGCCTTCGGGGGTT
* * *
184725 TACTAATTATCTCAAAAGAGCTATTAAAGGAAGCTAAGCCTAACAAAGGGGTTCATTGATAACTA
66 TACTAATTATCTCAAAAGAGCTGTTAAAGGAAGCTAAGCCTAACAAAGGGGTTCCTTGACAACTA
*
184790 AGAAACTAAGCCTTTGGGGGTTTCTTGAT
131 AGAAACTAAGCCTTCGGGGGTTTCTTGAT
184819 CTAAGGAGAT
Statistics
Matches: 464, Mismatches: 34, Indels: 18
0.90 0.07 0.03
Matches are distributed among these distances:
170 159 0.34
171 1 0.00
176 2 0.00
177 300 0.65
178 2 0.00
ACGTcount: A:0.33, C:0.17, G:0.21, T:0.29
Consensus pattern (177 bp):
ATCCATAAGACCTTCAGTGCAAGATGTTTTCAAATGAGATTTTAGAAACCAAGCCTTCGGGGGTT
TACTAATTATCTCAAAAGAGCTGTTAAAGGAAGCTAAGCCTAACAAAGGGGTTCCTTGACAACTA
AGAAACTAAGCCTTCGGGGGTTTCTTGATTTGTAAGTCCTACGGGCA
Found at i:185280 original size:123 final size:123
Alignment explanation
Indices: 184821--185418 Score: 781
Period size: 123 Copynumber: 4.9 Consensus size: 123
184811 TTCTTGATCT
* * ** *
184821 AAGGAGATAGAGTAGCATCAATATTTCTAGAAGGAGTTCGTAATAAGAAGAACTTGTCTAAAGAG
1 AAGGAGATAGAGCAGCATCAACATTTCTAGAAGGAGTTCGTAATAAGAAGAACTCATCTGAAGAG
* *
184886 GAAGAAGAAGTTCATAATTTGAAGAACTTATTCAACCTTTTTTGTTTGACTCTATCGCAG
66 GAAGAAGAAGTTCATAATCTGAAGAACTTATTCAACC--TTTTGCTTGACTCTATCGCAG
* * ** * * ** *
184946 AAGGAGATATAGTAGCATCGTCATTTCCAGACAGGAGTTCATAATCTGAATAACTCATCTGAAGA
1 AAGGAGATAGAGCAGCATCAACATTTCTAGA-AGGAGTTCGTAATAAGAAGAACTCATCTGAAGA
* *
185011 GAAAGAAGAAGTTCATAATCTGAAGAACTTATTCAACCTTTTTGCTTGACTCTATCGTAG
65 GGAAGAAGAAGTTCATAATCTGAAGAACTTATTCAACC-TTTTGCTTGACTCTATCGCAG
* * * *
185071 AAGGAGATAGAGCAGCAT-AATATTTCTAGAATGAGTTCG--A-AATAAGAACTCATATGAAGAG
1 AAGGAGATAGAGCAGCATCAACATTTCTAGAAGGAGTTCGTAATAAGAAGAACTCATCTGAAGAG
* * *
185132 GAAGAAAAAGTTCATAATCTGAAGAACGTATTCAACCTTTTGCTTGACTCTATCACAG
66 GAAGAAGAAGTTCATAATCTGAAGAACTTATTCAACCTTTTGCTTGACTCTATCGCAG
* * *
185190 AAGGAGATAGAGCAGCATCAACATTTCCAGAAGGAGTTCGTAATAAGAAGAACTCGTCTAAAGAG
1 AAGGAGATAGAGCAGCATCAACATTTCTAGAAGGAGTTCGTAATAAGAAGAACTCATCTGAAGAG
* *
185255 GAAGAAGGAGTTCATAATCTGAAGAACTTATTCAACCTTTTGCTTAACTCTATCGCAG
66 GAAGAAGAAGTTCATAATCTGAAGAACTTATTCAACCTTTTGCTTGACTCTATCGCAG
* * * * *
185313 AAGGAGATAGAGCAGCATCAACGTTTCTAGAAGGAGTTCATAATAAGAAGAACTCATCCGATGAA
1 AAGGAGATAGAGCAGCATCAACATTTCTAGAAGGAGTTCGTAATAAGAAGAACTCATCTGAAGAG
** * *
185378 GAAGAAGAAGTTCATAATAAGAAGAACTTGTTCAACATTTT
66 GAAGAAGAAGTTCATAATCTGAAGAACTTATTCAACCTTTT
185419 CATCTTAATC
Statistics
Matches: 409, Mismatches: 59, Indels: 12
0.85 0.12 0.03
Matches are distributed among these distances:
119 37 0.09
120 68 0.17
121 1 0.00
122 1 0.00
123 170 0.42
124 8 0.02
125 62 0.15
126 62 0.15
ACGTcount: A:0.38, C:0.15, G:0.20, T:0.27
Consensus pattern (123 bp):
AAGGAGATAGAGCAGCATCAACATTTCTAGAAGGAGTTCGTAATAAGAAGAACTCATCTGAAGAG
GAAGAAGAAGTTCATAATCTGAAGAACTTATTCAACCTTTTGCTTGACTCTATCGCAG
Found at i:185410 original size:20 final size:19
Alignment explanation
Indices: 185348--185411 Score: 51
Period size: 17 Copynumber: 3.3 Consensus size: 19
185338 TCTAGAAGGA
185348 GTTCATAATAAGAAGAACT
1 GTTCATAATAAGAAGAACT
* * *
185367 CATCCGATGAAGAAGAAGAA--
1 -GTTC-AT-AATAAGAAGAACT
185387 GTTCATAATAAGAAGAACTT
1 GTTCATAATAAGAAGAAC-T
185407 GTTCA
1 GTTCA
185412 ACATTTTCAT
Statistics
Matches: 33, Mismatches: 6, Indels: 10
0.67 0.12 0.20
Matches are distributed among these distances:
17 10 0.30
18 2 0.06
19 2 0.06
20 7 0.21
21 2 0.06
22 10 0.30
ACGTcount: A:0.45, C:0.12, G:0.19, T:0.23
Consensus pattern (19 bp):
GTTCATAATAAGAAGAACT
Found at i:186858 original size:62 final size:62
Alignment explanation
Indices: 186737--186858 Score: 142
Period size: 62 Copynumber: 2.0 Consensus size: 62
186727 TTTAGCACTA
* * * *
186737 TTATTTTACATATTTTATATTTTAATCTTATAATTTTAATTTTCTTTATTTTGGTCTTTATT
1 TTATTTTACATATTTTATATTTTAACCTTATAATTTTAATATTCTTTAATTTAGTCTTTATT
**
186799 TTATTTTATTTATTTT-TATTATTACACCTT-TAATTTTAATATT-TTTAATTTAGTACTTTA
1 TTATTTTACATATTTTATATT-TTA-ACCTTATAATTTTAATATTCTTTAATTTAGT-CTTTA
186859 ATAATTTTAT
Statistics
Matches: 51, Mismatches: 6, Indels: 6
0.81 0.10 0.10
Matches are distributed among these distances:
61 13 0.25
62 34 0.67
63 4 0.08
ACGTcount: A:0.26, C:0.07, G:0.02, T:0.65
Consensus pattern (62 bp):
TTATTTTACATATTTTATATTTTAACCTTATAATTTTAATATTCTTTAATTTAGTCTTTATT
Found at i:195815 original size:20 final size:20
Alignment explanation
Indices: 195792--195847 Score: 62
Period size: 19 Copynumber: 2.9 Consensus size: 20
195782 AATAGGAAGG
**
195792 GTTCATAATGAGAAGAAATC
1 GTTCATAATGAGAAGAAAAA
*
195812 GTTC--AATGAGGGAGAAAAA
1 GTTCATAATGA-GAAGAAAAA
195831 GTTCATAATGAGAAGAA
1 GTTCATAATGAGAAGAA
195848 CTTATTCAAA
Statistics
Matches: 29, Mismatches: 4, Indels: 6
0.74 0.10 0.15
Matches are distributed among these distances:
18 5 0.17
19 10 0.34
20 9 0.31
21 5 0.17
ACGTcount: A:0.46, C:0.07, G:0.25, T:0.21
Consensus pattern (20 bp):
GTTCATAATGAGAAGAAAAA
Found at i:195962 original size:115 final size:115
Alignment explanation
Indices: 195779--196114 Score: 395
Period size: 116 Copynumber: 2.9 Consensus size: 115
195769 ACCATTCACG
* * *
195779 TCCAATAGGAAGGGTTCATAATGAGAAGAAATCGTTCAATGAGGGAGAAAAAGTTCATAATGAGA
1 TCCAAT-GGAAGGGTTCATAATGAGAAGAACTTGTT-GATGAGGGAGAAAAAGTTCATAATGAGA
* * * * *
195844 AGAACTTATTCAAACTTGGCTCGTCCATCACAGAAGGAGGT-GATCAATATT
64 AGAATTTGTTCAACCTTGGCTCATCCATCACAGAAGGAGGTGGATCAACATT
* * * *
195895 TCTAATGGAATGGTTCAAAATGAGAAGAACTTGTATGATGAGGGAGAATAAGTTCATAATGAGAA
1 TCCAATGGAAGGGTTCATAATGAGAAGAACTTGT-TGATGAGGGAGAAAAAGTTCATAATGAGAA
* * * * *
195960 GAATTTGTTCATCCTTAGCTCATCCATCATAGAATGAGGTGGATCAGCATT
65 GAATTTGTTCAACCTTGGCTCATCCATCACAGAAGGAGGTGGATCAACATT
* * * * *
196011 TCCAGTGGAAGGGTTCATATTGAGAAGAACTTATCTGATGAGGGGGAAGAAGTTCATAATGAGAA
1 TCCAATGGAAGGGTTCATAATGAGAAGAACTTGT-TGATGAGGGAGAAAAAGTTCATAATGAGAA
* * * *
196076 GAATTTGTTTAACCTTGACTCATCCATTACATAAGGAGG
65 GAATTTGTTCAACCTTGGCTCATCCATCACAGAAGGAGG
196115 ATGACATTCA
Statistics
Matches: 184, Mismatches: 34, Indels: 4
0.83 0.15 0.02
Matches are distributed among these distances:
115 83 0.45
116 101 0.55
ACGTcount: A:0.36, C:0.13, G:0.24, T:0.27
Consensus pattern (115 bp):
TCCAATGGAAGGGTTCATAATGAGAAGAACTTGTTGATGAGGGAGAAAAAGTTCATAATGAGAAG
AATTTGTTCAACCTTGGCTCATCCATCACAGAAGGAGGTGGATCAACATT
Found at i:195969 original size:20 final size:20
Alignment explanation
Indices: 195907--195971 Score: 53
Period size: 20 Copynumber: 3.3 Consensus size: 20
195897 TAATGGAATG
* *
195907 GTTCAAAATGAGAAGAACTT
1 GTTCATAATGAGAAGAATTT
* * **
195927 G-T-ATGATGAGGGAGAATAA
1 GTTCATAATGA-GAAGAATTT
195946 GTTCATAATGAGAAGAATTT
1 GTTCATAATGAGAAGAATTT
195966 GTTCAT
1 GTTCAT
195972 CCTTAGCTCA
Statistics
Matches: 32, Mismatches: 10, Indels: 6
0.67 0.21 0.12
Matches are distributed among these distances:
18 5 0.16
19 7 0.22
20 14 0.44
21 6 0.19
ACGTcount: A:0.40, C:0.06, G:0.25, T:0.29
Consensus pattern (20 bp):
GTTCATAATGAGAAGAATTT
Found at i:196189 original size:44 final size:44
Alignment explanation
Indices: 196123--196258 Score: 175
Period size: 44 Copynumber: 3.1 Consensus size: 44
196113 GGATGACATT
*
196123 CATCATCCTTTTTACTCGATTTCATCACAAAAGGAGATGGATCAA
1 CATCA-CCTTTTTGCTCGATTTCATCACAAAAGGAGATGGATCAA
* *
196168 CATCACCTTTTTGCTCAATTTCATCACATAAA-GAGTTGGATCAA
1 CATCACCTTTTTGCTCGATTTCATCACA-AAAGGAGATGGATCAA
* * * * *
196212 CATTACCCTTTTGCTTGATTTCATCACATAAGGAGATGAATCAA
1 CATCACCTTTTTGCTCGATTTCATCACAAAAGGAGATGGATCAA
196256 CAT
1 CAT
196259 AGATATTTCA
Statistics
Matches: 79, Mismatches: 10, Indels: 5
0.84 0.11 0.05
Matches are distributed among these distances:
43 2 0.03
44 69 0.87
45 8 0.10
ACGTcount: A:0.32, C:0.22, G:0.12, T:0.33
Consensus pattern (44 bp):
CATCACCTTTTTGCTCGATTTCATCACAAAAGGAGATGGATCAA
Found at i:196572 original size:37 final size:38
Alignment explanation
Indices: 196531--196608 Score: 106
Period size: 37 Copynumber: 2.1 Consensus size: 38
196521 GTAAAAGACC
196531 AAATTTTAT-TGCACTTGAGACAATTTT-CCTTGAAATA
1 AAATTTTATCT-CACTTGAGACAATTTTCCCTTGAAATA
* * *
196568 AAATTTTGTCTCACTTGGGACAGTTTTCCCTTGAAATA
1 AAATTTTATCTCACTTGAGACAATTTTCCCTTGAAATA
196606 AAA
1 AAA
196609 AATTTGAGAT
Statistics
Matches: 36, Mismatches: 3, Indels: 3
0.86 0.07 0.07
Matches are distributed among these distances:
37 22 0.61
38 14 0.39
ACGTcount: A:0.33, C:0.15, G:0.13, T:0.38
Consensus pattern (38 bp):
AAATTTTATCTCACTTGAGACAATTTTCCCTTGAAATA
Found at i:196729 original size:36 final size:35
Alignment explanation
Indices: 196652--196760 Score: 94
Period size: 36 Copynumber: 3.0 Consensus size: 35
196642 TTATATAACT
* * * * * *
196652 TGAGATTATTTTTCCTAAAACATATTTCATCTTAC
1 TGAGATTGTTTTTCTTAGAACAAATTTAATCTCAC
196687 ATGAGATTGTTTTTCTTAGAACAAATTTAATCTCAC
1 -TGAGATTGTTTTTCTTAGAACAAATTTAATCTCAC
** *
196723 TGGAGATTGTTTCCCTT-GAAACCAAATTTTATCTCAC
1 T-GAGATTGTTTTTCTTAG-AA-CAAATTTAATCTCAC
196760 T
1 T
196761 TGAGGTAGTT
Statistics
Matches: 61, Mismatches: 9, Indels: 5
0.81 0.12 0.07
Matches are distributed among these distances:
35 2 0.03
36 44 0.72
37 15 0.25
ACGTcount: A:0.30, C:0.17, G:0.10, T:0.42
Consensus pattern (35 bp):
TGAGATTGTTTTTCTTAGAACAAATTTAATCTCAC
Found at i:196757 original size:37 final size:37
Alignment explanation
Indices: 196708--196781 Score: 112
Period size: 37 Copynumber: 2.0 Consensus size: 37
196698 TTTCTTAGAA
*
196708 CAAATTTAATCTCACTGGAGATTGTTTCCCTTGAAAC
1 CAAATTTAATCTCACTGGAGATAGTTTCCCTTGAAAC
* * *
196745 CAAATTTTATCTCACTTGAGGTAGTTTCCCTTGAAAC
1 CAAATTTAATCTCACTGGAGATAGTTTCCCTTGAAAC
196782 ATAAACTTAC
Statistics
Matches: 33, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
37 33 1.00
ACGTcount: A:0.28, C:0.22, G:0.14, T:0.36
Consensus pattern (37 bp):
CAAATTTAATCTCACTGGAGATAGTTTCCCTTGAAAC
Found at i:203451 original size:21 final size:21
Alignment explanation
Indices: 203400--203457 Score: 62
Period size: 21 Copynumber: 2.8 Consensus size: 21
203390 AGCTGACTCG
*
203400 AATGTCCATTTACAATAAATA
1 AATGTCCATTCACAATAAATA
*** *
203421 AATAAACATTCCCAATAAATA
1 AATGTCCATTCACAATAAATA
*
203442 AATGTCCATTTACAAT
1 AATGTCCATTCACAAT
203458 TTTAACCTTA
Statistics
Matches: 27, Mismatches: 10, Indels: 0
0.73 0.27 0.00
Matches are distributed among these distances:
21 27 1.00
ACGTcount: A:0.48, C:0.17, G:0.03, T:0.31
Consensus pattern (21 bp):
AATGTCCATTCACAATAAATA
Found at i:219561 original size:16 final size:16
Alignment explanation
Indices: 219540--219572 Score: 66
Period size: 16 Copynumber: 2.1 Consensus size: 16
219530 TAATAAATAA
219540 ACGAACATAAACGAAC
1 ACGAACATAAACGAAC
219556 ACGAACATAAACGAAC
1 ACGAACATAAACGAAC
219572 A
1 A
219573 AATTTTTTTT
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 17 1.00
ACGTcount: A:0.58, C:0.24, G:0.12, T:0.06
Consensus pattern (16 bp):
ACGAACATAAACGAAC
Found at i:219664 original size:16 final size:16
Alignment explanation
Indices: 219643--219701 Score: 91
Period size: 16 Copynumber: 3.7 Consensus size: 16
219633 TAATAAATAA
219643 ACGAACATAAACGAAC
1 ACGAACATAAACGAAC
*
219659 ACGAACATAAACAAAC
1 ACGAACATAAACGAAC
* *
219675 ACAAACATAAATGAAC
1 ACGAACATAAACGAAC
219691 ACGAACATAAA
1 ACGAACATAAA
219702 AGTTGGAGAC
Statistics
Matches: 38, Mismatches: 5, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
16 38 1.00
ACGTcount: A:0.61, C:0.22, G:0.08, T:0.08
Consensus pattern (16 bp):
ACGAACATAAACGAAC
Found at i:220817 original size:38 final size:38
Alignment explanation
Indices: 220775--220851 Score: 102
Period size: 38 Copynumber: 2.0 Consensus size: 38
220765 AGATTGGGTT
* *
220775 AAACATAAATGAATGAAAAT-AAACGAACATAACCGAAC
1 AAACATAAACGAA-CAAAATCAAACGAACATAACCGAAC
* *
220813 AAACATAAACGAACATAATCGAACGAACATAACCGAAC
1 AAACATAAACGAACAAAATCAAACGAACATAACCGAAC
220851 A
1 A
220852 TTCACGAACG
Statistics
Matches: 34, Mismatches: 4, Indels: 2
0.85 0.10 0.05
Matches are distributed among these distances:
37 4 0.12
38 30 0.88
ACGTcount: A:0.58, C:0.19, G:0.10, T:0.12
Consensus pattern (38 bp):
AAACATAAACGAACAAAATCAAACGAACATAACCGAAC
Found at i:220861 original size:24 final size:24
Alignment explanation
Indices: 220776--220852 Score: 93
Period size: 24 Copynumber: 3.2 Consensus size: 24
220766 GATTGGGTTA
* *
220776 AACATAAAT-GAATGAAAATAAACG
1 AACAT-AATCGAACGAACATAAACG
* *
220800 AACATAACCGAACAAACATAAACG
1 AACATAATCGAACGAACATAAACG
*
220824 AACATAATCGAACGAACATAACCG
1 AACATAATCGAACGAACATAAACG
220848 AACAT
1 AACAT
220853 TCACGAACGT
Statistics
Matches: 45, Mismatches: 7, Indels: 2
0.83 0.13 0.04
Matches are distributed among these distances:
23 2 0.04
24 43 0.96
ACGTcount: A:0.57, C:0.19, G:0.10, T:0.13
Consensus pattern (24 bp):
AACATAATCGAACGAACATAAACG
Found at i:222454 original size:21 final size:22
Alignment explanation
Indices: 222428--222470 Score: 61
Period size: 22 Copynumber: 2.0 Consensus size: 22
222418 CCACATCAAC
* *
222428 TCTTCTTC-TTTTTTTCTTCTT
1 TCTTCTTCATCTTTTTATTCTT
222449 TCTTCTTCATCTTTTTATTCTT
1 TCTTCTTCATCTTTTTATTCTT
222471 CTAACAATGT
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
21 8 0.42
22 11 0.58
ACGTcount: A:0.05, C:0.23, G:0.00, T:0.72
Consensus pattern (22 bp):
TCTTCTTCATCTTTTTATTCTT
Found at i:225254 original size:19 final size:22
Alignment explanation
Indices: 225222--225269 Score: 66
Period size: 19 Copynumber: 2.3 Consensus size: 22
225212 TTAAAATAAA
*
225222 AAAAAATAAGTTTTATTTT-CT
1 AAAAAATAAGTTTTATTTTAAT
225243 AAAAAAT-A-TTTTATTTTAAT
1 AAAAAATAAGTTTTATTTTAAT
225263 AAAAAAT
1 AAAAAAT
225270 CTAATAATAA
Statistics
Matches: 25, Mismatches: 1, Indels: 3
0.86 0.03 0.10
Matches are distributed among these distances:
19 9 0.36
20 9 0.36
21 7 0.28
ACGTcount: A:0.52, C:0.02, G:0.02, T:0.44
Consensus pattern (22 bp):
AAAAAATAAGTTTTATTTTAAT
Found at i:226104 original size:124 final size:124
Alignment explanation
Indices: 225806--226105 Score: 413
Period size: 124 Copynumber: 2.4 Consensus size: 124
225796 GGAAAGCCCC
* * *
225806 TTCGTTGTGAAGTTGAGCTTTGAATTGGATATCCTTCGTTGTGAAGTTGAAATCCAATCTAGAGT
1 TTCGTTGTGAAGTTGAGCTTTGAATTGGATATCCTTCGTCGTGAAGTTGAAATCAAATCTAGAGA
* * * * * *
225871 TGTATGTTGCTTGTGGGCACGATATCCTTCGTCGTGAAGTTGAAATCATGGATGGTTCC
66 TGGATATTGCTTGAGGACACGATATCCTTCGTCGTGAAGTTGAAATCATGGATGGCTCA
* * * ** *
225930 TTCATTGTGAAGTTGAGCCTTGAATTGGAGATCCTTTTTCGTGAAATTGAAATCAAATCTAGAGA
1 TTCGTTGTGAAGTTGAGCTTTGAATTGGATATCCTTCGTCGTGAAGTTGAAATCAAATCTAGAGA
* *
225995 TGGATATTGTTTGAGGACACGATATCC-TCTGTCGTGAAGTTGAAATCGTGGATGGCTCA
66 TGGATATTGCTTGAGGACACGATATCCTTC-GTCGTGAAGTTGAAATCATGGATGGCTCA
* *
226054 TTCGTTGTGAAGTTGAGCTTTGAATTAGATATCCTTCGTCATGAAGTTGAAA
1 TTCGTTGTGAAGTTGAGCTTTGAATTGGATATCCTTCGTCGTGAAGTTGAAA
226106 CCCAAGTATT
Statistics
Matches: 150, Mismatches: 25, Indels: 2
0.85 0.14 0.01
Matches are distributed among these distances:
123 2 0.01
124 148 0.99
ACGTcount: A:0.25, C:0.14, G:0.25, T:0.36
Consensus pattern (124 bp):
TTCGTTGTGAAGTTGAGCTTTGAATTGGATATCCTTCGTCGTGAAGTTGAAATCAAATCTAGAGA
TGGATATTGCTTGAGGACACGATATCCTTCGTCGTGAAGTTGAAATCATGGATGGCTCA
Found at i:231915 original size:19 final size:19
Alignment explanation
Indices: 231887--231928 Score: 59
Period size: 19 Copynumber: 2.3 Consensus size: 19
231877 AAAAACAAAA
*
231887 CCCC-AGGGGGTATCGATT
1 CCCCTAGGGGGAATCGATT
*
231905 CCCCTAGGGGGAATCGGTT
1 CCCCTAGGGGGAATCGATT
231924 CCCCT
1 CCCCT
231929 TCAAGGAGGT
Statistics
Matches: 21, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
18 4 0.19
19 17 0.81
ACGTcount: A:0.14, C:0.33, G:0.31, T:0.21
Consensus pattern (19 bp):
CCCCTAGGGGGAATCGATT
Found at i:242262 original size:14 final size:14
Alignment explanation
Indices: 242243--242273 Score: 53
Period size: 14 Copynumber: 2.2 Consensus size: 14
242233 GACTCACCTT
242243 CATTGCATCCACTC
1 CATTGCATCCACTC
*
242257 CATTGCATCTACTC
1 CATTGCATCCACTC
242271 CAT
1 CAT
242274 AATAGTCATG
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
14 16 1.00
ACGTcount: A:0.23, C:0.39, G:0.06, T:0.32
Consensus pattern (14 bp):
CATTGCATCCACTC
Found at i:246153 original size:14 final size:14
Alignment explanation
Indices: 246106--246196 Score: 82
Period size: 14 Copynumber: 6.6 Consensus size: 14
246096 GATAATGGAA
246106 AAAAATAAAGTAAAT
1 AAAAATAAAG-AAAT
* * *
246121 -GAAATAAAGATAC
1 AAAAATAAAGAAAT
*
246134 AGAAATAAAGAAAT
1 AAAAATAAAGAAAT
246148 AAAAATAAA-AATAT
1 AAAAATAAAGAA-AT
246162 AAAAAT-AA-AAAT
1 AAAAATAAAGAAAT
246174 AAAAATAAAGAAAAT
1 AAAAATAAAG-AAAT
*
246189 AATAATAA
1 AAAAATAA
246197 TATACGTAAA
Statistics
Matches: 64, Mismatches: 7, Indels: 10
0.79 0.09 0.12
Matches are distributed among these distances:
12 8 0.12
13 10 0.16
14 35 0.55
15 11 0.17
ACGTcount: A:0.75, C:0.01, G:0.07, T:0.18
Consensus pattern (14 bp):
AAAAATAAAGAAAT
Found at i:246155 original size:6 final size:6
Alignment explanation
Indices: 246144--246182 Score: 60
Period size: 6 Copynumber: 6.2 Consensus size: 6
246134 AGAAATAAAG
246144 AAATAA AAATAAA AATATAA AAATAA AAATAA AAATAA A
1 AAATAA AAAT-AA AA-ATAA AAATAA AAATAA AAATAA A
246183 GAAAATAATA
Statistics
Matches: 31, Mismatches: 0, Indels: 4
0.89 0.00 0.11
Matches are distributed among these distances:
6 21 0.68
7 8 0.26
8 2 0.06
ACGTcount: A:0.82, C:0.00, G:0.00, T:0.18
Consensus pattern (6 bp):
AAATAA
Found at i:246167 original size:20 final size:19
Alignment explanation
Indices: 246122--246196 Score: 78
Period size: 20 Copynumber: 3.6 Consensus size: 19
246112 AAAGTAAATG
*
246122 AAATAAAGATACAGAAATAAA
1 AAATAAAAATA-A-AAATAAA
246143 GAAATAAAAATAAAAATATAA
1 -AAATAAAAATAAAAATA-AA
246164 AAATAAAAATAAAAATAAAGA
1 AAATAAAAATAAAAAT-AA-A
*
246185 AAATAATAATAA
1 AAATAAAAATAA
246197 TATACGTAAA
Statistics
Matches: 48, Mismatches: 2, Indels: 7
0.84 0.04 0.12
Matches are distributed among these distances:
20 22 0.46
21 16 0.33
22 10 0.21
ACGTcount: A:0.76, C:0.01, G:0.05, T:0.17
Consensus pattern (19 bp):
AAATAAAAATAAAAATAAA
Found at i:246242 original size:4 final size:4
Alignment explanation
Indices: 246233--246261 Score: 58
Period size: 4 Copynumber: 7.2 Consensus size: 4
246223 AATAAAGATA
246233 AAAT AAAT AAAT AAAT AAAT AAAT AAAT A
1 AAAT AAAT AAAT AAAT AAAT AAAT AAAT A
246262 GGATGGATAA
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
4 25 1.00
ACGTcount: A:0.76, C:0.00, G:0.00, T:0.24
Consensus pattern (4 bp):
AAAT
Found at i:246403 original size:9 final size:9
Alignment explanation
Indices: 246389--246420 Score: 64
Period size: 9 Copynumber: 3.6 Consensus size: 9
246379 TATATATATA
246389 TAAAAGAAT
1 TAAAAGAAT
246398 TAAAAGAAT
1 TAAAAGAAT
246407 TAAAAGAAT
1 TAAAAGAAT
246416 TAAAA
1 TAAAA
246421 AAAGAAATCA
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
9 23 1.00
ACGTcount: A:0.69, C:0.00, G:0.09, T:0.22
Consensus pattern (9 bp):
TAAAAGAAT
Found at i:247845 original size:21 final size:21
Alignment explanation
Indices: 247794--247846 Score: 63
Period size: 21 Copynumber: 2.5 Consensus size: 21
247784 ATTATGACTA
247794 TCGCAATGCGATTTTCCAATT
1 TCGCAATGCGATTTTCCAATT
* **
247815 TCTCGTTGCGATTTTCCCAA-T
1 TCGCAATGCGATTTT-CCAATT
247836 TCGCAATGCGA
1 TCGCAATGCGA
247847 ATTTGGAAAA
Statistics
Matches: 25, Mismatches: 6, Indels: 2
0.76 0.18 0.06
Matches are distributed among these distances:
21 21 0.84
22 4 0.16
ACGTcount: A:0.21, C:0.26, G:0.17, T:0.36
Consensus pattern (21 bp):
TCGCAATGCGATTTTCCAATT
Found at i:247887 original size:20 final size:20
Alignment explanation
Indices: 247864--247985 Score: 165
Period size: 20 Copynumber: 6.0 Consensus size: 20
247854 AAATCGTAAT
*
247864 GCGATACTGACTATCGCAAC
1 GCGATACTGACTTTCGCAAC
* **
247884 GCGATAAT-ACAAAATCGCAAC
1 GCGATACTGAC--TTTCGCAAC
247905 GCGATACTGACTTTCGCAAC
1 GCGATACTGACTTTCGCAAC
247925 GCGATACTGACTTTCGCAAC
1 GCGATACTGACTTTCGCAAC
*
247945 GCGATTCTGACTTTCGCAAC
1 GCGATACTGACTTTCGCAAC
*
247965 GCGATTCTGACTTTCGCAAC
1 GCGATACTGACTTTCGCAAC
247985 G
1 G
247986 AGATTATGAA
Statistics
Matches: 93, Mismatches: 6, Indels: 6
0.89 0.06 0.06
Matches are distributed among these distances:
19 2 0.02
20 74 0.80
21 15 0.16
22 2 0.02
ACGTcount: A:0.28, C:0.29, G:0.20, T:0.24
Consensus pattern (20 bp):
GCGATACTGACTTTCGCAAC
Found at i:247898 original size:41 final size:41
Alignment explanation
Indices: 247853--247969 Score: 139
Period size: 41 Copynumber: 2.9 Consensus size: 41
247843 GCGAATTTGG
* *
247853 AAAATCGTAATGCGATACTGACTATCGCAACGCGATAATAC
1 AAAATCGCAACGCGATACTGACTATCGCAACGCGATAATAC
* *
247894 AAAATCGCAACGCGATACTGACTTTCGCAACGCGATACTGAC
1 AAAATCGCAACGCGATACTGACTATCGCAACGCGATAAT-AC
** * *
247936 --TTTCGCAACGCGATTCTGACTTTCGCAACGCGAT
1 AAAATCGCAACGCGATACTGACTATCGCAACGCGAT
247970 TCTGACTTTC
Statistics
Matches: 68, Mismatches: 7, Indels: 3
0.87 0.09 0.04
Matches are distributed among these distances:
40 31 0.46
41 35 0.51
42 2 0.03
ACGTcount: A:0.32, C:0.26, G:0.19, T:0.23
Consensus pattern (41 bp):
AAAATCGCAACGCGATACTGACTATCGCAACGCGATAATAC
Found at i:248002 original size:40 final size:40
Alignment explanation
Indices: 247918--248003 Score: 118
Period size: 40 Copynumber: 2.1 Consensus size: 40
247908 ATACTGACTT
* * ***
247918 TCGCAACGCGATACTGACTTTCGCAACGCGATTCTGACTT
1 TCGCAACGCGATACTGACTTTCGCAACGAGATTATGAAAA
*
247958 TCGCAACGCGATTCTGACTTTCGCAACGAGATTATGAAAA
1 TCGCAACGCGATACTGACTTTCGCAACGAGATTATGAAAA
247998 TCGCAA
1 TCGCAA
248004 TCATCTTCAA
Statistics
Matches: 40, Mismatches: 6, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
40 40 1.00
ACGTcount: A:0.28, C:0.27, G:0.20, T:0.26
Consensus pattern (40 bp):
TCGCAACGCGATACTGACTTTCGCAACGAGATTATGAAAA
Found at i:248246 original size:20 final size:20
Alignment explanation
Indices: 248221--248272 Score: 77
Period size: 20 Copynumber: 2.6 Consensus size: 20
248211 GGGGAAATTG
248221 CAACGCGAAAATGACTATCA
1 CAACGCGAAAATGACTATCA
* *
248241 CAACGCGAAAATGGCTATCG
1 CAACGCGAAAATGACTATCA
*
248261 CAACGAGAAAAT
1 CAACGCGAAAAT
248273 CGCTATGCGA
Statistics
Matches: 29, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
20 29 1.00
ACGTcount: A:0.44, C:0.23, G:0.19, T:0.13
Consensus pattern (20 bp):
CAACGCGAAAATGACTATCA
Found at i:248277 original size:20 final size:19
Alignment explanation
Indices: 248220--248278 Score: 73
Period size: 20 Copynumber: 2.9 Consensus size: 19
248210 CGGGGAAATT
248220 GCAACGCGAAAATGACTATC
1 GCAACGCGAAAATG-CTATC
*
248240 ACAACGCGAAAATGGCTATC
1 GCAACGCGAAAAT-GCTATC
*
248260 GCAACGAGAAAATCGCTAT
1 GCAACGCGAAAAT-GCTAT
248279 GCGAAATGAA
Statistics
Matches: 34, Mismatches: 4, Indels: 2
0.85 0.10 0.05
Matches are distributed among these distances:
20 33 0.97
21 1 0.03
ACGTcount: A:0.41, C:0.24, G:0.20, T:0.15
Consensus pattern (19 bp):
GCAACGCGAAAATGCTATC
Found at i:248332 original size:19 final size:19
Alignment explanation
Indices: 248291--248355 Score: 86
Period size: 19 Copynumber: 3.7 Consensus size: 19
248281 GAAATGAAAA
248291 TCGCATTGCGATTTTC---
1 TCGCATTGCGATTTTCATT
*
248307 TCG--TTGCGATTTTTATT
1 TCGCATTGCGATTTTCATT
248324 TCGCATTGCGATTTTCATT
1 TCGCATTGCGATTTTCATT
248343 TCGCATTGCGATT
1 TCGCATTGCGATT
248356 CTCTCGTTGC
Statistics
Matches: 42, Mismatches: 2, Indels: 7
0.82 0.04 0.14
Matches are distributed among these distances:
14 10 0.24
16 3 0.07
17 3 0.07
19 26 0.62
ACGTcount: A:0.14, C:0.20, G:0.18, T:0.48
Consensus pattern (19 bp):
TCGCATTGCGATTTTCATT
Found at i:249996 original size:41 final size:42
Alignment explanation
Indices: 249942--250033 Score: 141
Period size: 42 Copynumber: 2.2 Consensus size: 42
249932 CCTCTTCGAC
* *
249942 GATGACAGTGGCCTCTTGAACG-GTGGGGGGGACTCTTGAGG
1 GATGACAGGGGCCTCTTGAACGAGTGGAGGGGACTCTTGAGG
* *
249983 GATGATAGGGGCCTCTTGAACGATTGGAGGGGACTCTTGAGG
1 GATGACAGGGGCCTCTTGAACGAGTGGAGGGGACTCTTGAGG
250025 GATGACAGG
1 GATGACAGG
250034 TGAGTCGGGC
Statistics
Matches: 45, Mismatches: 5, Indels: 1
0.88 0.10 0.02
Matches are distributed among these distances:
41 20 0.44
42 25 0.56
ACGTcount: A:0.21, C:0.15, G:0.42, T:0.22
Consensus pattern (42 bp):
GATGACAGGGGCCTCTTGAACGAGTGGAGGGGACTCTTGAGG
Found at i:249998 original size:21 final size:21
Alignment explanation
Indices: 249969--250029 Score: 70
Period size: 21 Copynumber: 2.9 Consensus size: 21
249959 GAACGGTGGG
*
249969 GGGGACTCTTGAGGGATGATA
1 GGGGACTCTTGAGGGATGAGA
* **
249990 GGGGCCTCTTGAACGATTG-GA
1 GGGGACTCTTGAGGGA-TGAGA
250011 GGGGACTCTTGAGGGATGA
1 GGGGACTCTTGAGGGATGA
250030 CAGGTGAGTC
Statistics
Matches: 31, Mismatches: 7, Indels: 4
0.74 0.17 0.10
Matches are distributed among these distances:
20 2 0.06
21 27 0.87
22 2 0.06
ACGTcount: A:0.21, C:0.13, G:0.43, T:0.23
Consensus pattern (21 bp):
GGGGACTCTTGAGGGATGAGA
Found at i:250390 original size:20 final size:20
Alignment explanation
Indices: 250365--250403 Score: 69
Period size: 20 Copynumber: 1.9 Consensus size: 20
250355 GAAGAATAGT
250365 TTACTTTCGCAACACGAAAC
1 TTACTTTCGCAACACGAAAC
*
250385 TTACTTTCGCAACGCGAAA
1 TTACTTTCGCAACACGAAA
250404 ATGGCTATCG
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
20 18 1.00
ACGTcount: A:0.33, C:0.28, G:0.13, T:0.26
Consensus pattern (20 bp):
TTACTTTCGCAACACGAAAC
Found at i:250414 original size:20 final size:20
Alignment explanation
Indices: 250391--250443 Score: 97
Period size: 20 Copynumber: 2.6 Consensus size: 20
250381 AAACTTACTT
250391 TCGCAACGCGAAAATGGCTA
1 TCGCAACGCGAAAATGGCTA
250411 TCGCAACGCGAAAATGGCTA
1 TCGCAACGCGAAAATGGCTA
*
250431 TCGCAATGCGAAA
1 TCGCAACGCGAAA
250444 TGAAAATCGC
Statistics
Matches: 32, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
20 32 1.00
ACGTcount: A:0.36, C:0.25, G:0.25, T:0.15
Consensus pattern (20 bp):
TCGCAACGCGAAAATGGCTA
Found at i:250505 original size:19 final size:19
Alignment explanation
Indices: 250483--250566 Score: 79
Period size: 19 Copynumber: 4.6 Consensus size: 19
250473 GAAACACAAA
250483 TCGCATTGCGATTTTCATT
1 TCGCATTGCGATTTTCATT
* *
250502 TCGCGTTGCGA-TTT--TG
1 TCGCATTGCGATTTTCATT
250518 TCG--TTGCGATTTTCATT
1 TCGCATTGCGATTTTCATT
* * *
250535 TCTCATTGCGATATCCATT
1 TCGCATTGCGATTTTCATT
250554 TCCGCATTGCGAT
1 T-CGCATTGCGAT
250567 AGTCATTTTC
Statistics
Matches: 52, Mismatches: 7, Indels: 11
0.74 0.10 0.16
Matches are distributed among these distances:
14 6 0.12
15 3 0.06
16 4 0.08
17 3 0.06
18 3 0.06
19 23 0.44
20 10 0.19
ACGTcount: A:0.14, C:0.23, G:0.19, T:0.44
Consensus pattern (19 bp):
TCGCATTGCGATTTTCATT
Found at i:251149 original size:18 final size:18
Alignment explanation
Indices: 251126--251173 Score: 87
Period size: 18 Copynumber: 2.7 Consensus size: 18
251116 CGGGTCGATC
251126 AGGTGATGGCTCTGGGTG
1 AGGTGATGGCTCTGGGTG
*
251144 AGGTGATAGCTCTGGGTG
1 AGGTGATGGCTCTGGGTG
251162 AGGTGATGGCTC
1 AGGTGATGGCTC
251174 CCGAAGTGGA
Statistics
Matches: 28, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
18 28 1.00
ACGTcount: A:0.15, C:0.12, G:0.46, T:0.27
Consensus pattern (18 bp):
AGGTGATGGCTCTGGGTG
Found at i:252541 original size:20 final size:20
Alignment explanation
Indices: 252493--252551 Score: 73
Period size: 20 Copynumber: 3.0 Consensus size: 20
252483 AATAGTTTCT
* *
252493 GAAAATGAAAATCGCAACAC
1 GAAAATGACAATCGCAACGC
252513 GAAAATGACAATCGCAACGC
1 GAAAATGACAATCGCAACGC
** *
252533 GAATTTGACTATCGCAACG
1 GAAAATGACAATCGCAACG
252552 AGAGAATAAA
Statistics
Matches: 34, Mismatches: 5, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
20 34 1.00
ACGTcount: A:0.44, C:0.22, G:0.19, T:0.15
Consensus pattern (20 bp):
GAAAATGACAATCGCAACGC
Found at i:253063 original size:20 final size:20
Alignment explanation
Indices: 253035--253189 Score: 204
Period size: 20 Copynumber: 7.7 Consensus size: 20
253025 GATTATGTAT
* *
253035 TATCTCGTTGCGAAAGTCAG
1 TATCGCGTTGCGATAGTCAG
* *
253055 TATCGCGTTGCGAAAGTAAG
1 TATCGCGTTGCGATAGTCAG
*
253075 TATCGCGTTGCGAAAGTCAG
1 TATCGCGTTGCGATAGTCAG
* *
253095 TATCGCGTTGCGATTTTGT-AT
1 TATCGCGTTGCGA--TAGTCAG
253116 TATCGCGTTGCGATAGTCAG
1 TATCGCGTTGCGATAGTCAG
253136 TATCGCGTTGCGATAGTCAG
1 TATCGCGTTGCGATAGTCAG
*
253156 TATCGTGTTGCGATAGTCAG
1 TATCGCGTTGCGATAGTCAG
*
253176 TATCGTGTTGCGAT
1 TATCGCGTTGCGAT
253190 TTTCCAAATT
Statistics
Matches: 123, Mismatches: 9, Indels: 6
0.89 0.07 0.04
Matches are distributed among these distances:
19 3 0.02
20 104 0.85
21 14 0.11
22 2 0.02
ACGTcount: A:0.21, C:0.17, G:0.28, T:0.33
Consensus pattern (20 bp):
TATCGCGTTGCGATAGTCAG
Found at i:253090 original size:40 final size:39
Alignment explanation
Indices: 253015--253189 Score: 206
Period size: 40 Copynumber: 4.3 Consensus size: 39
253005 CGCTTTGAAA
* * *
253015 ATCGCATTGCGATTATGTATTATCTCGTTGCGAAAGTCAGT
1 ATCGCGTTGCGA-TA-GTAGTATCGCGTTGCGAAAGTCAGT
*
253056 ATCGCGTTGCGAAAGTAAGTATCGCGTTGCGAAAGTCAGT
1 ATCGCGTTGCGATAGT-AGTATCGCGTTGCGAAAGTCAGT
* * *
253096 ATCGCGTTGCGATTTTGTATTATCGCGTTGCGATAGTCAGT
1 ATCGCGTTGCGA--TAGTAGTATCGCGTTGCGAAAGTCAGT
* *
253137 ATCGCGTTGCGATAGTCAGTATCGTGTTGCGATAGTCAGT
1 ATCGCGTTGCGATAGT-AGTATCGCGTTGCGAAAGTCAGT
*
253177 ATCGTGTTGCGAT
1 ATCGCGTTGCGAT
253190 TTTCCAAATT
Statistics
Matches: 118, Mismatches: 12, Indels: 9
0.85 0.09 0.06
Matches are distributed among these distances:
39 5 0.04
40 67 0.57
41 44 0.37
42 2 0.02
ACGTcount: A:0.22, C:0.17, G:0.27, T:0.34
Consensus pattern (39 bp):
ATCGCGTTGCGATAGTAGTATCGCGTTGCGAAAGTCAGT
Found at i:253120 original size:61 final size:61
Alignment explanation
Indices: 253055--253169 Score: 194
Period size: 61 Copynumber: 1.9 Consensus size: 61
253045 CGAAAGTCAG
253055 TATCGCGTTGCGAAAGTAAGTATCGCGTTGCGAAAGTCAGTATCGCGTTGCGATTTTGTAT
1 TATCGCGTTGCGAAAGTAAGTATCGCGTTGCGAAAGTCAGTATCGCGTTGCGATTTTGTAT
* * * *
253116 TATCGCGTTGCGATAGTCAGTATCGCGTTGCGATAGTCAGTATCGTGTTGCGAT
1 TATCGCGTTGCGAAAGTAAGTATCGCGTTGCGAAAGTCAGTATCGCGTTGCGAT
253170 AGTCAGTATC
Statistics
Matches: 50, Mismatches: 4, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
61 50 1.00
ACGTcount: A:0.21, C:0.17, G:0.29, T:0.33
Consensus pattern (61 bp):
TATCGCGTTGCGAAAGTAAGTATCGCGTTGCGAAAGTCAGTATCGCGTTGCGATTTTGTAT
Found at i:253158 original size:81 final size:81
Alignment explanation
Indices: 253015--253192 Score: 275
Period size: 81 Copynumber: 2.2 Consensus size: 81
253005 CGCTTTGAAA
* * *
253015 ATCGCATTGCGATTATGTATTATCTCGTTGCGAAAGTCAGTATCGCGTTGCGAAAGTAAGTATCG
1 ATCGCGTTGCGATTTTGTATTATCGCGTTGCGAAAGTCAGTATCGCGTTGCGAAAGTAAGTATCG
253080 CGTTGCGAAAGTCAGT
66 CGTTGCGAAAGTCAGT
* * *
253096 ATCGCGTTGCGATTTTGTATTATCGCGTTGCGATAGTCAGTATCGCGTTGCGATAGTCAGTATCG
1 ATCGCGTTGCGATTTTGTATTATCGCGTTGCGAAAGTCAGTATCGCGTTGCGAAAGTAAGTATCG
* *
253161 TGTTGCGATAGTCAGT
66 CGTTGCGAAAGTCAGT
*
253177 ATCGTGTTGCGATTTT
1 ATCGCGTTGCGATTTT
253193 CCAAATTCGC
Statistics
Matches: 88, Mismatches: 9, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
81 88 1.00
ACGTcount: A:0.21, C:0.17, G:0.27, T:0.35
Consensus pattern (81 bp):
ATCGCGTTGCGATTTTGTATTATCGCGTTGCGAAAGTCAGTATCGCGTTGCGAAAGTAAGTATCG
CGTTGCGAAAGTCAGT
Found at i:253208 original size:81 final size:81
Alignment explanation
Indices: 253042--253210 Score: 232
Period size: 81 Copynumber: 2.1 Consensus size: 81
253032 TATTATCTCG
*
253042 TTGCGAAAGTCAGTATCGCGTTGCGAAAGTAAGTATCGCGTTGCGAAAGTCAGTATCGCGTTGCG
1 TTGCGATAGTCAGTATCGCGTTGCGAAAGTAAGTATCGCGTTGCGAAAGTCAGTATCGCGTTGCG
** * *
253107 ATTTTGTATTATCGCG
66 ATTTTCAAATATCGCA
* * * * *
253123 TTGCGATAGTCAGTATCGCGTTGCGATAGTCAGTATCGTGTTGCGATAGTCAGTATCGTGTTGCG
1 TTGCGATAGTCAGTATCGCGTTGCGAAAGTAAGTATCGCGTTGCGAAAGTCAGTATCGCGTTGCG
253188 ATTTTCCAAAT-TCGCA
66 ATTTT-CAAATATCGCA
253204 TTGCGAT
1 TTGCGAT
253211 TTTCCAAATT
Statistics
Matches: 77, Mismatches: 10, Indels: 2
0.87 0.11 0.02
Matches are distributed among these distances:
81 75 0.97
82 2 0.03
ACGTcount: A:0.22, C:0.18, G:0.27, T:0.33
Consensus pattern (81 bp):
TTGCGATAGTCAGTATCGCGTTGCGAAAGTAAGTATCGCGTTGCGAAAGTCAGTATCGCGTTGCG
ATTTTCAAATATCGCA
Found at i:253209 original size:21 final size:21
Alignment explanation
Indices: 253183--253250 Score: 102
Period size: 21 Copynumber: 3.3 Consensus size: 21
253173 CAGTATCGTG
253183 TTGCGATTTTCCAAATTCGCA
1 TTGCGATTTTCCAAATTCGCA
253204 TTGCGATTTTCCAAATTCGCA
1 TTGCGATTTTCCAAATTCGCA
* **
253225 TTGCGA-TTTACTTATTCGCA
1 TTGCGATTTTCCAAATTCGCA
253245 TTGCGA
1 TTGCGA
253251 ATTGGGAAAA
Statistics
Matches: 44, Mismatches: 3, Indels: 1
0.92 0.06 0.02
Matches are distributed among these distances:
20 17 0.39
21 27 0.61
ACGTcount: A:0.22, C:0.22, G:0.16, T:0.40
Consensus pattern (21 bp):
TTGCGATTTTCCAAATTCGCA
Found at i:253292 original size:21 final size:22
Alignment explanation
Indices: 253240--253292 Score: 74
Period size: 21 Copynumber: 2.5 Consensus size: 22
253230 ATTTACTTAT
253240 TCGCATTGCG-AATTGGGAAAA
1 TCGCATTGCGAAATTGGGAAAA
**
253261 TCGCAACGCGAAATT-GGAAAA
1 TCGCATTGCGAAATTGGGAAAA
253282 TCGCATTGCGA
1 TCGCATTGCGA
253293 TAGTCATAAT
Statistics
Matches: 27, Mismatches: 4, Indels: 2
0.82 0.12 0.06
Matches are distributed among these distances:
21 23 0.85
22 4 0.15
ACGTcount: A:0.34, C:0.19, G:0.26, T:0.21
Consensus pattern (22 bp):
TCGCATTGCGAAATTGGGAAAA
Found at i:253541 original size:2 final size:2
Alignment explanation
Indices: 253458--253524 Score: 97
Period size: 2 Copynumber: 35.5 Consensus size: 2
253448 TTATTTTCTC
*
253458 AT AT AT AT AT AT A- AT -T A- AT A- AT AT AC AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
253496 AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
253525 AGTATAAAAT
Statistics
Matches: 59, Mismatches: 2, Indels: 8
0.86 0.03 0.12
Matches are distributed among these distances:
1 4 0.07
2 55 0.93
ACGTcount: A:0.52, C:0.01, G:0.00, T:0.46
Consensus pattern (2 bp):
AT
Found at i:253985 original size:3 final size:3
Alignment explanation
Indices: 253977--254021 Score: 90
Period size: 3 Copynumber: 15.0 Consensus size: 3
253967 ATATTTCAAG
253977 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA
254022 AGCTTATGGT
Statistics
Matches: 42, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 42 1.00
ACGTcount: A:0.33, C:0.00, G:0.00, T:0.67
Consensus pattern (3 bp):
TTA
Found at i:254346 original size:31 final size:31
Alignment explanation
Indices: 254288--254347 Score: 75
Period size: 31 Copynumber: 1.9 Consensus size: 31
254278 TTTATTTATT
* *
254288 TAAAAAATTTAAATTTATTTTTGAAAAATTA
1 TAAAAAAATTAAATATATTTTTGAAAAATTA
* *
254319 TAAAAAAATTATATATATATTTTAAAAAA
1 TAAAAAAATTAAATATAT-TTTTGAAAAA
254348 AATTAAATAT
Statistics
Matches: 24, Mismatches: 4, Indels: 1
0.83 0.14 0.03
Matches are distributed among these distances:
31 15 0.62
32 9 0.38
ACGTcount: A:0.57, C:0.00, G:0.02, T:0.42
Consensus pattern (31 bp):
TAAAAAAATTAAATATATTTTTGAAAAATTA
Found at i:254432 original size:15 final size:15
Alignment explanation
Indices: 254412--254441 Score: 60
Period size: 15 Copynumber: 2.0 Consensus size: 15
254402 AATAGTTAAG
254412 ATTTAACAATTGAAA
1 ATTTAACAATTGAAA
254427 ATTTAACAATTGAAA
1 ATTTAACAATTGAAA
254442 TTCAATAAAA
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 15 1.00
ACGTcount: A:0.53, C:0.07, G:0.07, T:0.33
Consensus pattern (15 bp):
ATTTAACAATTGAAA
Found at i:254945 original size:5 final size:5
Alignment explanation
Indices: 254935--254960 Score: 52
Period size: 5 Copynumber: 5.2 Consensus size: 5
254925 ATATATTTTT
254935 TCGGG TCGGG TCGGG TCGGG TCGGG T
1 TCGGG TCGGG TCGGG TCGGG TCGGG T
254961 TTAAATGTCC
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 21 1.00
ACGTcount: A:0.00, C:0.19, G:0.58, T:0.23
Consensus pattern (5 bp):
TCGGG
Found at i:256149 original size:14 final size:15
Alignment explanation
Indices: 256111--256155 Score: 65
Period size: 16 Copynumber: 3.0 Consensus size: 15
256101 TTAAAAAATA
256111 TTATAATTTTATAATT
1 TTATAATTTTATAA-T
256127 TTATAATTTTATAAT
1 TTATAATTTTATAAT
*
256142 TT-TAATTTCATAAT
1 TTATAATTTTATAAT
256156 ATAATATTTT
Statistics
Matches: 28, Mismatches: 1, Indels: 2
0.90 0.03 0.06
Matches are distributed among these distances:
14 11 0.39
15 3 0.11
16 14 0.50
ACGTcount: A:0.38, C:0.02, G:0.00, T:0.60
Consensus pattern (15 bp):
TTATAATTTTATAAT
Found at i:256155 original size:8 final size:8
Alignment explanation
Indices: 256111--256145 Score: 70
Period size: 8 Copynumber: 4.4 Consensus size: 8
256101 TTAAAAAATA
256111 TTATAATT
1 TTATAATT
256119 TTATAATT
1 TTATAATT
256127 TTATAATT
1 TTATAATT
256135 TTATAATT
1 TTATAATT
256143 TTA
1 TTA
256146 ATTTCATAAT
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
8 27 1.00
ACGTcount: A:0.37, C:0.00, G:0.00, T:0.63
Consensus pattern (8 bp):
TTATAATT
Found at i:256552 original size:2 final size:2
Alignment explanation
Indices: 256547--256579 Score: 66
Period size: 2 Copynumber: 16.5 Consensus size: 2
256537 TTTAAAGTGA
256547 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
256580 ATTTATTAAA
Statistics
Matches: 31, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 31 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:257593 original size:30 final size:30
Alignment explanation
Indices: 257557--257617 Score: 122
Period size: 30 Copynumber: 2.0 Consensus size: 30
257547 TCGTAAAAAG
257557 CTTAAACTTGGTTCTCTTCCTCTTCTTCTT
1 CTTAAACTTGGTTCTCTTCCTCTTCTTCTT
257587 CTTAAACTTGGTTCTCTTCCTCTTCTTCTT
1 CTTAAACTTGGTTCTCTTCCTCTTCTTCTT
257617 C
1 C
257618 CCGACGTCCC
Statistics
Matches: 31, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
30 31 1.00
ACGTcount: A:0.10, C:0.31, G:0.07, T:0.52
Consensus pattern (30 bp):
CTTAAACTTGGTTCTCTTCCTCTTCTTCTT
Found at i:257950 original size:42 final size:42
Alignment explanation
Indices: 257903--257988 Score: 172
Period size: 42 Copynumber: 2.0 Consensus size: 42
257893 TTTGAAAAAT
257903 TGGTGTGATTCTTAGTTTTGAGTGTTCTTTTGAGATTTTAGA
1 TGGTGTGATTCTTAGTTTTGAGTGTTCTTTTGAGATTTTAGA
257945 TGGTGTGATTCTTAGTTTTGAGTGTTCTTTTGAGATTTTAGA
1 TGGTGTGATTCTTAGTTTTGAGTGTTCTTTTGAGATTTTAGA
257987 TG
1 TG
257989 TTATAAGAAG
Statistics
Matches: 44, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
42 44 1.00
ACGTcount: A:0.16, C:0.05, G:0.27, T:0.52
Consensus pattern (42 bp):
TGGTGTGATTCTTAGTTTTGAGTGTTCTTTTGAGATTTTAGA
Found at i:259147 original size:138 final size:138
Alignment explanation
Indices: 258895--259149 Score: 397
Period size: 138 Copynumber: 1.8 Consensus size: 138
258885 GTATATAATG
* *
258895 GTTATCGATCAATTTTGTGTAATGCATAATGGTGCATTTTCGTATTAGTACTATGTGTACTTTCG
1 GTTATCGATCAATTTTGTGTAATGCATAATGGTGCATTTTCGTATCAGTACTATATGTACTTTCG
258960 GCACTAGATGTACAACCATGGTATTTATAATGAGTTTGTGAATTACCATTTCAACATACAATTAT
66 GCACTAGATGTACAACCATGGTATTTATAATGAGTTTGTGAATTACCATTTCAACATACAATTAT
259025 GTGTAAAA
131 GTGTAAAA
* * *
259033 GTTATCGATCGATTTTGTTTAATGCATAATGGTGCATTTTCGTATCAGTACTATATGTACTTTTG
1 GTTATCGATCAATTTTGTGTAATGCATAATGGTGCATTTTCGTATCAGTACTATATGTACTTTCG
* * * *
259098 GCACTTTG-TGTTCATCCAT-GTATTTCATAATGAGTTTGTGAATTTCCATTTC
66 GCAC-TAGATGTACAACCATGGTATTT-ATAATGAGTTTGTGAATTACCATTTC
259150 GGCACTTAGG
Statistics
Matches: 106, Mismatches: 9, Indels: 4
0.89 0.08 0.03
Matches are distributed among these distances:
137 6 0.06
138 98 0.92
139 2 0.02
ACGTcount: A:0.27, C:0.14, G:0.17, T:0.42
Consensus pattern (138 bp):
GTTATCGATCAATTTTGTGTAATGCATAATGGTGCATTTTCGTATCAGTACTATATGTACTTTCG
GCACTAGATGTACAACCATGGTATTTATAATGAGTTTGTGAATTACCATTTCAACATACAATTAT
GTGTAAAA
Found at i:267132 original size:23 final size:23
Alignment explanation
Indices: 267099--267148 Score: 82
Period size: 23 Copynumber: 2.2 Consensus size: 23
267089 TTTAGAGTAT
267099 GAACTGCTCTAAAATGAATAGAA
1 GAACTGCTCTAAAATGAATAGAA
* *
267122 GAACTGTTCTAAAATGAATAGAT
1 GAACTGCTCTAAAATGAATAGAA
267145 GAAC
1 GAAC
267149 ATTTATGTTG
Statistics
Matches: 25, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
23 25 1.00
ACGTcount: A:0.46, C:0.12, G:0.18, T:0.24
Consensus pattern (23 bp):
GAACTGCTCTAAAATGAATAGAA
Found at i:271769 original size:37 final size:37
Alignment explanation
Indices: 271728--271800 Score: 112
Period size: 37 Copynumber: 2.0 Consensus size: 37
271718 TTGTTTTCAC
* *
271728 CACCAATCAA-ATAGACATGCAACAAATTGCTTGTTTT
1 CACCAATCAAGA-AGACACGCAACAAACTGCTTGTTTT
271765 CACCAATCAAGAAGACACGCAACAAACTGCTTGTTT
1 CACCAATCAAGAAGACACGCAACAAACTGCTTGTTT
271801 GAATAATCTT
Statistics
Matches: 33, Mismatches: 2, Indels: 2
0.89 0.05 0.05
Matches are distributed among these distances:
37 32 0.97
38 1 0.03
ACGTcount: A:0.38, C:0.25, G:0.12, T:0.25
Consensus pattern (37 bp):
CACCAATCAAGAAGACACGCAACAAACTGCTTGTTTT
Found at i:274891 original size:18 final size:18
Alignment explanation
Indices: 274868--274909 Score: 66
Period size: 18 Copynumber: 2.3 Consensus size: 18
274858 ATCTTACACG
* *
274868 GGCTTTGTTGGCCTTAGC
1 GGCTTTATTGGCCCTAGC
274886 GGCTTTATTGGCCCTAGC
1 GGCTTTATTGGCCCTAGC
274904 GGCTTT
1 GGCTTT
274910 TTTGCCGGCT
Statistics
Matches: 22, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
18 22 1.00
ACGTcount: A:0.07, C:0.24, G:0.31, T:0.38
Consensus pattern (18 bp):
GGCTTTATTGGCCCTAGC
Found at i:282163 original size:20 final size:20
Alignment explanation
Indices: 282138--282177 Score: 55
Period size: 20 Copynumber: 2.0 Consensus size: 20
282128 TATTGATACT
282138 CTATTC-TTAGAGTATCGATA
1 CTATTCATT-GAGTATCGATA
*
282158 CTATTCATTGTGTATCGATA
1 CTATTCATTGAGTATCGATA
282178 TCTAAGGGTG
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
20 16 0.89
21 2 0.11
ACGTcount: A:0.28, C:0.15, G:0.15, T:0.42
Consensus pattern (20 bp):
CTATTCATTGAGTATCGATA
Found at i:284385 original size:55 final size:55
Alignment explanation
Indices: 284315--284774 Score: 515
Period size: 55 Copynumber: 8.4 Consensus size: 55
284305 TTACAATTAC
*
284315 CGTATTGACACTATGTGTGCAACCCCAAGAAATTCATAATGAGTTTATGAATTTT
1 CGTATTGGCACTATGTGTGCAACCCCAAGAAATTCATAATGAGTTTATGAATTTT
*
284370 CGTATTGGCATTATGTGTGCAACCCCACA-AAATTCATAATGAGTTTATGAATTTT
1 CGTATTGGCACTATGTGTGCAACCCCA-AGAAATTCATAATGAGTTTATGAATTTT
* * * *
284425 TGTATTGGTACTATGTGTGCAACCCCACGAAATTCATAATGAGTTTATGAATTTC
1 CGTATTGGCACTATGTGTGCAACCCCAAGAAATTCATAATGAGTTTATGAATTTT
* * * *
284480 CTTATTGGCATTATGTGTGCAACCACAAGAAATTCATAATGCGTTTATGAA-TTT
1 CGTATTGGCACTATGTGTGCAACCCCAAGAAATTCATAATGAGTTTATGAATTTT
* * * * *
284534 CTGTATTGACACTATGTGTTCAACTCCACGAAATTCAT-A-GAGTTTTTGAATTTT
1 C-GTATTGGCACTATGTGTGCAACCCCAAGAAATTCATAATGAGTTTATGAATTTT
* * * * *
284588 CGTATTGACACTATGTGTGTAACCCCATGAAATACATAATGAGTTTATGATTTTTT
1 CGTATTGGCACTATGTGTGCAACCCCAAGAAATTCATAATGAGTTTATGA-ATTTT
* * * * *
284644 CGTATTGGCACTATGTGTGTAA-CCTAAGTAATTCATAATGAGTTTGTGAA-TTA
1 CGTATTGGCACTATGTGTGCAACCCCAAGAAATTCATAATGAGTTTATGAATTTT
* * * * * **
284697 CTATATTGGCACTATGTGCGCAA-CCCAA-ATAATTCATATTGATTTTGTGAATTAC
1 C-GTATTGGCACTATGTGTGCAACCCCAAGA-AATTCATAATGAGTTTATGAATTTT
*
284752 CGTATTGTCACTATGT-TGCAACC
1 CGTATTGGCACTATGTGTGCAACC
284775 TACATAATTC
Statistics
Matches: 343, Mismatches: 51, Indels: 23
0.82 0.12 0.06
Matches are distributed among these distances:
53 47 0.14
54 64 0.19
55 206 0.60
56 26 0.08
ACGTcount: A:0.30, C:0.16, G:0.17, T:0.37
Consensus pattern (55 bp):
CGTATTGGCACTATGTGTGCAACCCCAAGAAATTCATAATGAGTTTATGAATTTT
Found at i:284706 original size:218 final size:219
Alignment explanation
Indices: 284309--284774 Score: 611
Period size: 218 Copynumber: 2.1 Consensus size: 219
284299 TATATGTTAC
284309 AATTACCGTATTGACACTATGTGTGCAACCCCAAGAAATTCATAATGAGTTTATGAATTTTCGTA
1 AATTACCGTATTGACACTATGTGTGCAACCCCAAGAAATTCATAATGAGTTTATGAATTTTCGTA
* * * *
284374 TTGGCATTATGTGTGCAACCCCACAAAATTCATAATGAGTTTATGAATTTTTGTATTGGTACTAT
66 TTGACACTATGTGTGCAACCCCACAAAATACATAATGAGTTTATGAATTTTTGTATTGGCACTAT
* * * *
284439 GTGTGCAACCCCACGAAATTCATAATGAGTTTATGAATTTCCTTATTGGCATTATGTGTGCAACC
131 GTGTGCAACCCCAAGAAATTCATAATGAGTTTATGAATTTACTTATTGGCACTATGTGCGCAACC
*
284504 ACAAGA-AATTCATAATGCGTTTATG
196 -CAA-ATAATTCATAATGAGTTTATG
* * * * * *
284529 AATTTCTGTATTGACACTATGTGTTCAACTCCACGAAATTCAT-A-GAGTTTTTGAATTTTCGTA
1 AATTACCGTATTGACACTATGTGTGCAACCCCAAGAAATTCATAATGAGTTTATGAATTTTCGTA
* ** *
284592 TTGACACTATGTGTGTAACCCCATGAAATACATAATGAGTTTATGATTTTTTCGTATTGGCACTA
66 TTGACACTATGTGTGCAACCCCACAAAATACATAATGAGTTTATGAATTTTT-GTATTGGCACTA
* * * *
284657 TGTGTGTAA-CCTAAGTAATTCATAATGAGTTTGTGAA-TTACTATATTGGCACTATGTGCGCAA
130 TGTGTGCAACCCCAAGAAATTCATAATGAGTTTATGAATTTACT-TATTGGCACTATGTGCGCAA
* * *
284720 CCCAAATAATTCATATTGATTTTGTG
194 CCCAAATAATTCATAATGAGTTTATG
*
284746 AATTACCGTATTGTCACTATGT-TGCAACC
1 AATTACCGTATTGACACTATGTGTGCAACC
284775 TACATAATTC
Statistics
Matches: 212, Mismatches: 31, Indels: 10
0.84 0.12 0.04
Matches are distributed among these distances:
216 6 0.03
217 41 0.19
218 107 0.50
219 20 0.09
220 38 0.18
ACGTcount: A:0.30, C:0.16, G:0.17, T:0.37
Consensus pattern (219 bp):
AATTACCGTATTGACACTATGTGTGCAACCCCAAGAAATTCATAATGAGTTTATGAATTTTCGTA
TTGACACTATGTGTGCAACCCCACAAAATACATAATGAGTTTATGAATTTTTGTATTGGCACTAT
GTGTGCAACCCCAAGAAATTCATAATGAGTTTATGAATTTACTTATTGGCACTATGTGCGCAACC
CAAATAATTCATAATGAGTTTATG
Found at i:290784 original size:95 final size:95
Alignment explanation
Indices: 290611--290832 Score: 304
Period size: 95 Copynumber: 2.3 Consensus size: 95
290601 ACCGACGAGG
* * *
290611 TAGTATCGATACCATGATAAGGGTATTGATACTAGGAAACATCGAATCTAAAATTGGTATAGATA
1 TAGTATCGATACCATGGTAAGGGTATCGATACCAGGAAACATCGAATCTAAAATTGGTATAGATA
* *
290676 CCGGAAGAGGGTATCGGTACCATAGTATAA
66 CCAGAAGAGGGTATCCGTACCATAGTATAA
* * *
290706 TAGTATCGATACCATGGTAAGGGTATCGTTACCAGGCAACATC-AACTCTAAAATTGGTATCGAT
1 TAGTATCGATACCATGGTAAGGGTATCGATACCAGGAAACATCGAA-TCTAAAATTGGTATAGAT
* **
290770 ATCAGAA-AGTGGTATCCGTACCATAGTATGG
65 ACCAGAAGAG-GGTATCCGTACCATAGTATAA
*
290801 TAGTATCGATACCATGGTAGGGGTATCGATAC
1 TAGTATCGATACCATGGTAAGGGTATCGATAC
290833 TGAAGAGCCA
Statistics
Matches: 112, Mismatches: 13, Indels: 4
0.87 0.10 0.03
Matches are distributed among these distances:
94 4 0.04
95 108 0.96
ACGTcount: A:0.34, C:0.15, G:0.23, T:0.27
Consensus pattern (95 bp):
TAGTATCGATACCATGGTAAGGGTATCGATACCAGGAAACATCGAATCTAAAATTGGTATAGATA
CCAGAAGAGGGTATCCGTACCATAGTATAA
Found at i:291545 original size:218 final size:217
Alignment explanation
Indices: 291155--291580 Score: 708
Period size: 218 Copynumber: 2.0 Consensus size: 217
291145 ATTTCCAAAT
*
291155 AGGCATTATGTGTGCAAACCCACGGAATTCATCATGAGTTGATGAATAACTGTACAAGCACTACC
1 AGGCACTATGTGTGCAAACCCACGGAATTCATCATGAGTTGATGAATAACTGTACAAGCACTACC
*
291220 TGTGCAACCCATGAAATTCATCATGAGTTGATGAATAACCGTACAGGCACTATGTGTGCAACCCA
66 TGTGCAACCCATGAAATTCATCATGAGTTGATGAATAACCGTACAAGCACTATGTGTGCAACCCA
* * * *
291285 CTGAATTCATCATGAGTTGATGAATAGCCGTACAAACACTATGTGTGCAAACCCACGGAATTCAT
131 CGGAATTCAACATGAGTTGATGAATAACCGTACAAACACTATGTGTAC-AACCCACGGAATTCAT
291350 CATGAGTTAATGAATAACCGTAC
195 CATGAGTTAATGAATAACCGTAC
* * **
291373 AGGCACTATGTGTGTAAACCCACGGAATTCATCATGAGTTGATGAATAACTGTACAGGCACTATG
1 AGGCACTATGTGTGCAAACCCACGGAATTCATCATGAGTTGATGAATAACTGTACAAGCACTACC
*
291438 TGTGCAACCCATGAAATTCATCATGAGTTGATGAATAATCGTACAAGCACTATGTGTGCAACCCA
66 TGTGCAACCCATGAAATTCATCATGAGTTGATGAATAACCGTACAAGCACTATGTGTGCAACCCA
* **
291503 CGGAATTCAACATGAGTTGATGAATAACCGTATATGCACTATGTGTACAACCCACGGAATTCATC
131 CGGAATTCAACATGAGTTGATGAATAACCGTACAAACACTATGTGTACAACCCACGGAATTCATC
*
291568 ATGAGTTGATGAA
196 ATGAGTTAATGAA
291581 CTACTATATA
Statistics
Matches: 193, Mismatches: 15, Indels: 1
0.92 0.07 0.00
Matches are distributed among these distances:
217 29 0.15
218 164 0.85
ACGTcount: A:0.34, C:0.20, G:0.20, T:0.26
Consensus pattern (217 bp):
AGGCACTATGTGTGCAAACCCACGGAATTCATCATGAGTTGATGAATAACTGTACAAGCACTACC
TGTGCAACCCATGAAATTCATCATGAGTTGATGAATAACCGTACAAGCACTATGTGTGCAACCCA
CGGAATTCAACATGAGTTGATGAATAACCGTACAAACACTATGTGTACAACCCACGGAATTCATC
ATGAGTTAATGAATAACCGTAC
Found at i:291597 original size:54 final size:54
Alignment explanation
Indices: 291155--291580 Score: 627
Period size: 54 Copynumber: 7.8 Consensus size: 54
291145 ATTTCCAAAT
* *
291155 AGGCATTATGTGTGCAAACCCACGGAATTCATCATGAGTTGATGAATAACTGTAC
1 AGGCACTATGTGTGC-AACCCACGGAATTCATCATGAGTTGATGAATAACCGTAC
* ** * *
291210 AAGCACTACCTGTGCAACCCATGAAATTCATCATGAGTTGATGAATAACCGTAC
1 AGGCACTATGTGTGCAACCCACGGAATTCATCATGAGTTGATGAATAACCGTAC
* *
291264 AGGCACTATGTGTGCAACCCACTGAATTCATCATGAGTTGATGAATAGCCGTAC
1 AGGCACTATGTGTGCAACCCACGGAATTCATCATGAGTTGATGAATAACCGTAC
** *
291318 AAACACTATGTGTGCAAACCCACGGAATTCATCATGAGTTAATGAATAACCGTAC
1 AGGCACTATGTGTGC-AACCCACGGAATTCATCATGAGTTGATGAATAACCGTAC
* *
291373 AGGCACTATGTGTGTAAACCCACGGAATTCATCATGAGTTGATGAATAACTGTAC
1 AGGCACTATGTGTG-CAACCCACGGAATTCATCATGAGTTGATGAATAACCGTAC
* * *
291428 AGGCACTATGTGTGCAACCCATGAAATTCATCATGAGTTGATGAATAATCGTAC
1 AGGCACTATGTGTGCAACCCACGGAATTCATCATGAGTTGATGAATAACCGTAC
* * *
291482 AAGCACTATGTGTGCAACCCACGGAATTCAACATGAGTTGATGAATAACCGTAT
1 AGGCACTATGTGTGCAACCCACGGAATTCATCATGAGTTGATGAATAACCGTAC
* *
291536 ATGCACTATGTGTACAACCCACGGAATTCATCATGAGTTGATGAA
1 AGGCACTATGTGTGCAACCCACGGAATTCATCATGAGTTGATGAA
291581 CTACTATATA
Statistics
Matches: 331, Mismatches: 38, Indels: 5
0.89 0.10 0.01
Matches are distributed among these distances:
54 221 0.67
55 110 0.33
ACGTcount: A:0.34, C:0.20, G:0.20, T:0.26
Consensus pattern (54 bp):
AGGCACTATGTGTGCAACCCACGGAATTCATCATGAGTTGATGAATAACCGTAC
Found at i:291845 original size:80 final size:81
Alignment explanation
Indices: 291741--291915 Score: 221
Period size: 81 Copynumber: 2.2 Consensus size: 81
291731 AATTCAAAAA
* *
291741 TAAAAGATAAATGGCCTAATTGTG-CATTGACAGAAATGTGTCAATTATG-CTAGT-TAGATGAA
1 TAAAAGATAAATGGCCTAACTGTGCCATTGACAGAAAGGTGTCAATTATGAC-A-TCTAGATGAA
* * *
291803 TGGTTAAGTACCGTTGAG
64 AGGCTAAATACCGTTGAG
* * *
291821 TAAAAGATTAATGGCCTAGCTGTGCCTTTGACAGAAAGGTGTCAATTATGACATCTAGATGAAAG
1 TAAAAGATAAATGGCCTAACTGTGCCATTGACAGAAAGGTGTCAATTATGACATCTAGATGAAAG
*
291886 GCTAAATACCTTTGAG
66 GCTAAATACCGTTGAG
291902 TAAAAGACTAAATG
1 TAAAAGA-TAAATG
291916 TATAACAATG
Statistics
Matches: 81, Mismatches: 10, Indels: 6
0.84 0.10 0.06
Matches are distributed among these distances:
80 22 0.27
81 53 0.65
82 6 0.07
ACGTcount: A:0.37, C:0.12, G:0.22, T:0.29
Consensus pattern (81 bp):
TAAAAGATAAATGGCCTAACTGTGCCATTGACAGAAAGGTGTCAATTATGACATCTAGATGAAAG
GCTAAATACCGTTGAG
Found at i:292112 original size:45 final size:47
Alignment explanation
Indices: 291911--292099 Score: 235
Period size: 47 Copynumber: 4.1 Consensus size: 47
291901 GTAAAAGACT
* * **
291911 AAATGTATAACAATGTATAAAAA--GCATGAAAGGATATCATAAATG
1 AAATGTATAATAGTGTATAAAAAGGGCATGAAAGGATGCCATAAATG
* *
291956 AAATGTATAATAGTATCTAAAAAGGGCATG-AAGTGATGCCATAAATG
1 AAATGTATAATAGTGTATAAAAAGGGCATGAAAG-GATGCCATAAATG
* * *
292003 AAATGTATAATAGTATCTAAAAAGGGCATGAAGGGATGCCATAAATG
1 AAATGTATAATAGTGTATAAAAAGGGCATGAAAGGATGCCATAAATG
* *
292050 AAATGTATAATAGTGTAT-AAAA-TGCATGAAAGGATGCCATAATTG
1 AAATGTATAATAGTGTATAAAAAGGGCATGAAAGGATGCCATAAATG
292095 AAATG
1 AAATG
292100 CATATTTGTG
Statistics
Matches: 128, Mismatches: 12, Indels: 8
0.86 0.08 0.05
Matches are distributed among these distances:
45 44 0.34
46 7 0.05
47 75 0.59
48 2 0.02
ACGTcount: A:0.47, C:0.07, G:0.20, T:0.25
Consensus pattern (47 bp):
AAATGTATAATAGTGTATAAAAAGGGCATGAAAGGATGCCATAAATG
Found at i:292181 original size:19 final size:19
Alignment explanation
Indices: 292159--292198 Score: 55
Period size: 19 Copynumber: 2.1 Consensus size: 19
292149 CATAATGACT
292159 AAAAAGATAAATGA-AAAAG
1 AAAAAGATAAAT-ATAAAAG
*
292178 AAAAATATAAATATAAAAG
1 AAAAAGATAAATATAAAAG
292197 AA
1 AA
292199 GATAGGTATG
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
18 1 0.05
19 18 0.95
ACGTcount: A:0.75, C:0.00, G:0.10, T:0.15
Consensus pattern (19 bp):
AAAAAGATAAATATAAAAG
Found at i:296185 original size:20 final size:21
Alignment explanation
Indices: 296135--296191 Score: 71
Period size: 22 Copynumber: 2.7 Consensus size: 21
296125 TTACCGGAAG
*
296135 AGGGTATCGGTACCATAGTAT
1 AGGGTATCGATACCATAGTAT
* *
296156 AGTAGTATCGATACCATTGTA-
1 AG-GGTATCGATACCATAGTAT
296177 AGGGTATCGATACCA
1 AGGGTATCGATACCA
296192 GGTATCATCG
Statistics
Matches: 31, Mismatches: 4, Indels: 3
0.82 0.11 0.08
Matches are distributed among these distances:
20 12 0.39
21 4 0.13
22 15 0.48
ACGTcount: A:0.32, C:0.16, G:0.25, T:0.28
Consensus pattern (21 bp):
AGGGTATCGATACCATAGTAT
Found at i:296276 original size:94 final size:95
Alignment explanation
Indices: 296061--296283 Score: 342
Period size: 95 Copynumber: 2.4 Consensus size: 95
296051 GTACTGACGA
* * * *
296061 GGTAGTATCGATACCATGATAAGGGTATCAAAACTAGGAAACATCGAATCTAAAATTGGTATCAT
1 GGTAGTATCGATACCATGGTAAGGGTATCGATACCAGGAAACATCGAATCTAAAATTGGTATCAT
296126 TACCGGAAGAGGGTATCGGTACCATAGTAT
66 TACCGGAAGAGGGTATCGGTACCATAGTAT
* * * *
296156 AGTAGTATCGATACCATTGTAAGGGTATCGATACCAGGTATCATCGAATCTAAAATTGGTATCGA
1 GGTAGTATCGATACCATGGTAAGGGTATCGATACCAGGAAACATCGAATCTAAAATTGGTATC-A
296221 -TACCGGAAG-GGGTATCGGTACCATAGTAT
65 TTACCGGAAGAGGGTATCGGTACCATAGTAT
*
296250 GGTAGTATCGATACCATGGTAGGGGTATCGATAC
1 GGTAGTATCGATACCATGGTAAGGGTATCGATAC
296284 TGAAGAGCCA
Statistics
Matches: 116, Mismatches: 11, Indels: 3
0.89 0.08 0.02
Matches are distributed among these distances:
94 51 0.44
95 64 0.55
96 1 0.01
ACGTcount: A:0.33, C:0.15, G:0.25, T:0.26
Consensus pattern (95 bp):
GGTAGTATCGATACCATGGTAAGGGTATCGATACCAGGAAACATCGAATCTAAAATTGGTATCAT
TACCGGAAGAGGGTATCGGTACCATAGTAT
Found at i:296690 original size:54 final size:55
Alignment explanation
Indices: 296606--296940 Score: 480
Period size: 54 Copynumber: 6.1 Consensus size: 55
296596 ATTTACAAAT
* * *
296606 AGGCACTATGTGTGCAAACCCACAGAATTCATCATGAGTTGATGAATAACCATAT
1 AGGCACTATGTGTGCAAACCCACGGAATTCATCATGAGTTGATGAATAACCGTAC
* * *
296661 ATGCACTATGTATGC-AACCCACGGAATTCATCATGAGTTGATGAATAACCATAC
1 AGGCACTATGTGTGCAAACCCACGGAATTCATCATGAGTTGATGAATAACCGTAC
* *
296715 AGACACTATGTGTGC-AACCCACGAAATTCATCATGAGTTGATGAATAACCGTAC
1 AGGCACTATGTGTGCAAACCCACGGAATTCATCATGAGTTGATGAATAACCGTAC
*
296769 AGGCACTATGTGTGCAAACCCACGGAATTCATCATGAGTTAATGAATAACCGTAC
1 AGGCACTATGTGTGCAAACCCACGGAATTCATCATGAGTTGATGAATAACCGTAC
* * * *
296824 ATGCACTTTGTGTGC-AACCCACGGTATTCATCATGAGTTGATGAATAATCGTAC
1 AGGCACTATGTGTGCAAACCCACGGAATTCATCATGAGTTGATGAATAACCGTAC
* * * *
296878 AGGCACTATGTGTGCAAACCCACGGAATTCATCATGAATTAATGAACT-ACTGTAT
1 AGGCACTATGTGTGCAAACCCACGGAATTCATCATGAGTTGATGAA-TAACCGTAC
296933 AGGCACTA
1 AGGCACTA
296941 CATGTGTATC
Statistics
Matches: 252, Mismatches: 25, Indels: 6
0.89 0.09 0.02
Matches are distributed among these distances:
54 149 0.59
55 102 0.40
56 1 0.00
ACGTcount: A:0.34, C:0.21, G:0.19, T:0.26
Consensus pattern (55 bp):
AGGCACTATGTGTGCAAACCCACGGAATTCATCATGAGTTGATGAATAACCGTAC
Found at i:296887 original size:163 final size:164
Alignment explanation
Indices: 296606--296940 Score: 512
Period size: 163 Copynumber: 2.0 Consensus size: 164
296596 ATTTACAAAT
* *
296606 AGGCACTATGTGTGCAAACCCACAGAATTCATCATGAGTTGATGAATAACCATATATGCACTATG
1 AGGCACTATGTGTGCAAACCCACAGAATTCATCATGAGTTAATGAATAACCATACATGCACTATG
296671 TATGCAACCCACGGAATTCATCATGAGTTGATGAATAACCATACAGACACTATGTGTGC-AACCC
66 TATGCAACCCACGGAATTCATCATGAGTTGATGAATAACCATACAGACACTATGTGTGCAAACCC
* *
296735 ACGAAATTCATCATGAGTTGATGAA-TAACCGTAC
131 ACGAAATTCATCATGAATTAATGAACT-ACCGTAC
* * *
296769 AGGCACTATGTGTGCAAACCCACGGAATTCATCATGAGTTAATGAATAACCGTACATGCACTTTG
1 AGGCACTATGTGTGCAAACCCACAGAATTCATCATGAGTTAATGAATAACCATACATGCACTATG
* * * * *
296834 TGTGCAACCCACGGTATTCATCATGAGTTGATGAATAATCGTACAGGCACTATGTGTGCAAACCC
66 TATGCAACCCACGGAATTCATCATGAGTTGATGAATAACCATACAGACACTATGTGTGCAAACCC
* * *
296899 ACGGAATTCATCATGAATTAATGAACTACTGTAT
131 ACGAAATTCATCATGAATTAATGAACTACCGTAC
296933 AGGCACTA
1 AGGCACTA
296941 CATGTGTATC
Statistics
Matches: 155, Mismatches: 15, Indels: 3
0.90 0.09 0.02
Matches are distributed among these distances:
163 114 0.74
164 40 0.26
165 1 0.01
ACGTcount: A:0.34, C:0.21, G:0.19, T:0.26
Consensus pattern (164 bp):
AGGCACTATGTGTGCAAACCCACAGAATTCATCATGAGTTAATGAATAACCATACATGCACTATG
TATGCAACCCACGGAATTCATCATGAGTTGATGAATAACCATACAGACACTATGTGTGCAAACCC
ACGAAATTCATCATGAATTAATGAACTACCGTAC
Found at i:296939 original size:109 final size:109
Alignment explanation
Indices: 296606--296940 Score: 494
Period size: 109 Copynumber: 3.1 Consensus size: 109
296596 ATTTACAAAT
* * * *
296606 AGGCACTATGTGTGCAAACCCACAGAATTCATCATGAGTTGATGAATAACCATATATGCACTATG
1 AGGCACTATGTGTGC-AACCCACGGAATTCATCATGAGTTGATGAATAACCGTACAGGCACTATG
* * *
296671 TATGC-AACCCACGGAATTCATCATGAGTTGATGAATAACCATAC
65 TGTGCAAACCCACGGAATTCATCATGAGTTAATGAATAACCGTAC
* *
296715 AGACACTATGTGTGCAACCCACGAAATTCATCATGAGTTGATGAATAACCGTACAGGCACTATGT
1 AGGCACTATGTGTGCAACCCACGGAATTCATCATGAGTTGATGAATAACCGTACAGGCACTATGT
296780 GTGCAAACCCACGGAATTCATCATGAGTTAATGAATAACCGTAC
66 GTGCAAACCCACGGAATTCATCATGAGTTAATGAATAACCGTAC
* * * *
296824 ATGCACTTTGTGTGCAACCCACGGTATTCATCATGAGTTGATGAATAATCGTACAGGCACTATGT
1 AGGCACTATGTGTGCAACCCACGGAATTCATCATGAGTTGATGAATAACCGTACAGGCACTATGT
* * *
296889 GTGCAAACCCACGGAATTCATCATGAATTAATGAACT-ACTGTAT
66 GTGCAAACCCACGGAATTCATCATGAGTTAATGAA-TAACCGTAC
296933 AGGCACTA
1 AGGCACTA
296941 CATGTGTATC
Statistics
Matches: 204, Mismatches: 20, Indels: 4
0.89 0.09 0.02
Matches are distributed among these distances:
108 48 0.24
109 155 0.76
110 1 0.00
ACGTcount: A:0.34, C:0.21, G:0.19, T:0.26
Consensus pattern (109 bp):
AGGCACTATGTGTGCAACCCACGGAATTCATCATGAGTTGATGAATAACCGTACAGGCACTATGT
GTGCAAACCCACGGAATTCATCATGAGTTAATGAATAACCGTAC
Found at i:297247 original size:81 final size:78
Alignment explanation
Indices: 297093--297251 Score: 194
Period size: 81 Copynumber: 2.0 Consensus size: 78
297083 ACAAAAGACA
* *
297093 AATGGCCTAACTGTGGATTGACAGAAAGGTGTCAATTATGCCAGTTAGAAAAACGGTTAAGTACC
1 AATGGCCTAACTGTGCATTGACAGAAAGGTGTCAATTATGCCAGTTAGAAAAA--GTTAAATACC
297158 GTTCAGTAAAAGATT
64 GTTCAGTAAAAGATT
* * *
297173 AATGGCCTAGCTGTGCCTTTGACAGAAAGGTGTCAATTATGCTAGTTAAATGAAAAA-TTAAATA
1 AATGGCCTAACTGTG-CATTGACAGAAAGGTGTCAATTATGCCAGTT--A-GAAAAAGTTAAATA
* *
297237 CCTTTGAGTAAAAGA
62 CCGTTCAGTAAAAGA
297252 CTAAATGTAT
Statistics
Matches: 68, Mismatches: 7, Indels: 7
0.83 0.09 0.09
Matches are distributed among these distances:
80 14 0.21
81 47 0.69
83 1 0.01
84 6 0.09
ACGTcount: A:0.37, C:0.13, G:0.22, T:0.28
Consensus pattern (78 bp):
AATGGCCTAACTGTGCATTGACAGAAAGGTGTCAATTATGCCAGTTAGAAAAAGTTAAATACCGT
TCAGTAAAAGATT
Found at i:297357 original size:47 final size:45
Alignment explanation
Indices: 297272--297385 Score: 111
Period size: 47 Copynumber: 2.5 Consensus size: 45
297262 AAAACACATA
** * * *
297272 AAAGGATATCATACATGAAGTGTATAATAATATCTAAAAAGGGCATG
1 AAAGGATGCCATAAATGAAATGTATAATAATATAT-AAAA-GGCATG
** * * *
297319 ACGGGATGCCATAAATGAAATGTATAATAGTGTATAAAATGCATG
1 AAAGGATGCCATAAATGAAATGTATAATAATATATAAAAGGCATG
*
297364 AAAGGATGCCATAATTGAAATG
1 AAAGGATGCCATAAATGAAATG
297386 CATATATGTG
Statistics
Matches: 54, Mismatches: 13, Indels: 2
0.78 0.19 0.03
Matches are distributed among these distances:
45 24 0.44
46 4 0.07
47 26 0.48
ACGTcount: A:0.45, C:0.09, G:0.21, T:0.25
Consensus pattern (45 bp):
AAAGGATGCCATAAATGAAATGTATAATAATATATAAAAGGCATG
Found at i:298653 original size:55 final size:55
Alignment explanation
Indices: 298560--299121 Score: 691
Period size: 55 Copynumber: 10.3 Consensus size: 55
298550 TATATGTTGC
* * * * *
298560 AATTACCGTATTGGCACTATTTGTGCAACCCCATGAAATTCATAATAAGATTATG
1 AATTTCCGTATTGGCACTATGTGTGCAACCCCACGAAATTCATAATGAGTTTATG
* * *
298615 AATTTCCATATTGACACTATGTGTGCAACCCCACGAAATTCATAAGGAGTTTATG
1 AATTTCCGTATTGGCACTATGTGTGCAACCCCACGAAATTCATAATGAGTTTATG
* *
298670 AATTTCCGTATTGGCACTATGTGTACAACCCCACTAAATTCATAATGAGTTTATG
1 AATTTCCGTATTGGCACTATGTGTGCAACCCCACGAAATTCATAATGAGTTTATG
*
298725 AATTTCCGTATTGGCACTATGTGTGCAACCCCACGAAATTTATAATGAGTTTATG
1 AATTTCCGTATTGGCACTATGTGTGCAACCCCACGAAATTCATAATGAGTTTATG
* *
298780 AATTTTCGTATTGGCACTATGTGTGCAACCCCAAGAAATTCATAATGAGTTTATG
1 AATTTCCGTATTGGCACTATGTGTGCAACCCCACGAAATTCATAATGAGTTTATG
* * * * *
298835 AATTTTCGTATTGGGACTATGTGTACAACCCAACGAAATTCGTAATGAGTTTATG
1 AATTTCCGTATTGGCACTATGTGTGCAACCCCACGAAATTCATAATGAGTTTATG
* *
298890 AATTTCCGTATTGGCACTATGTGTGCAACCCCACGAAATTCATATTGAGTTTGTG
1 AATTTCCGTATTGGCACTATGTGTGCAACCCCACGAAATTCATAATGAGTTTATG
* * * * * *
298945 AATTACCATATTAGCACTATGTGTGCAA-CACACGTAATTCATAATGAGTTTGTG
1 AATTTCCGTATTGGCACTATGTGTGCAACCCCACGAAATTCATAATGAGTTTATG
* * * * * *
298999 AATTACTGTATTGGCACTATGTGTGCAA-CCTACGTAATTCACAAAT-AGTTTGTG
1 AATTTCCGTATTGGCACTATGTGTGCAACCCCACGAAATTCA-TAATGAGTTTATG
** ** * * * * * *
299053 AATGACCGTATCAGCACTATATGTGC-ACCCCAAGGATTTCAAAAATGAGTTTGTG
1 AATTTCCGTATTGGCACTATGTGTGCAACCCCACGAAATTC-ATAATGAGTTTATG
*
299108 AATTTCCATATTGG
1 AATTTCCGTATTGG
299122 TACTTAGGTG
Statistics
Matches: 446, Mismatches: 57, Indels: 8
0.87 0.11 0.02
Matches are distributed among these distances:
53 1 0.00
54 100 0.22
55 345 0.77
ACGTcount: A:0.31, C:0.18, G:0.18, T:0.33
Consensus pattern (55 bp):
AATTTCCGTATTGGCACTATGTGTGCAACCCCACGAAATTCATAATGAGTTTATG
Found at i:302837 original size:29 final size:29
Alignment explanation
Indices: 302798--302865 Score: 86
Period size: 29 Copynumber: 2.4 Consensus size: 29
302788 TTAGGGTTTT
302798 TTTA-TTTAGTCCATGTA-CTTTTTGTCA
1 TTTATTTTAGTCCATGTATCTTTTTGTCA
* * *
302825 CTTTATTTTAGTCCTTGTATTTTTTTGTTA
1 -TTTATTTTAGTCCATGTATCTTTTTGTCA
302855 TTTATTTTAGT
1 TTTATTTTAGT
302866 TATTTTTTTT
Statistics
Matches: 35, Mismatches: 3, Indels: 3
0.85 0.07 0.07
Matches are distributed among these distances:
28 4 0.11
29 23 0.66
30 8 0.23
ACGTcount: A:0.16, C:0.10, G:0.10, T:0.63
Consensus pattern (29 bp):
TTTATTTTAGTCCATGTATCTTTTTGTCA
Found at i:302867 original size:13 final size:12
Alignment explanation
Indices: 302842--302874 Score: 50
Period size: 12 Copynumber: 2.8 Consensus size: 12
302832 TTAGTCCTTG
302842 TATTTTTTT-GT
1 TATTTTTTTAGT
302853 TATTTATTTTAGT
1 TATTT-TTTTAGT
302866 TATTTTTTT
1 TATTTTTTT
302875 TATATATATT
Statistics
Matches: 20, Mismatches: 0, Indels: 3
0.87 0.00 0.13
Matches are distributed among these distances:
11 5 0.25
12 8 0.40
13 7 0.35
ACGTcount: A:0.15, C:0.00, G:0.06, T:0.79
Consensus pattern (12 bp):
TATTTTTTTAGT
Found at i:302875 original size:13 final size:13
Alignment explanation
Indices: 302844--302876 Score: 50
Period size: 13 Copynumber: 2.6 Consensus size: 13
302834 AGTCCTTGTA
302844 TTTTTTT-GTTAT
1 TTTTTTTAGTTAT
*
302856 TTATTTTAGTTAT
1 TTTTTTTAGTTAT
302869 TTTTTTTA
1 TTTTTTTA
302877 TATATATTTG
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
12 6 0.33
13 12 0.67
ACGTcount: A:0.15, C:0.00, G:0.06, T:0.79
Consensus pattern (13 bp):
TTTTTTTAGTTAT
Found at i:302884 original size:24 final size:25
Alignment explanation
Indices: 302842--302898 Score: 66
Period size: 24 Copynumber: 2.3 Consensus size: 25
302832 TTAGTCCTTG
*
302842 TATTTTTTTGTTATTTATTT-TAGT-
1 TATTTTTTTGTTATATATTTGTA-TA
302866 TATTTTTTT-TATATATATTTGTATA
1 TATTTTTTTGT-TATATATTTGTATA
302891 TATTTTTT
1 TATTTTTT
302899 AAGTGATGTT
Statistics
Matches: 29, Mismatches: 1, Indels: 5
0.83 0.03 0.14
Matches are distributed among these distances:
23 1 0.03
24 18 0.62
25 10 0.34
ACGTcount: A:0.21, C:0.00, G:0.05, T:0.74
Consensus pattern (25 bp):
TATTTTTTTGTTATATATTTGTATA
Found at i:307325 original size:2 final size:2
Alignment explanation
Indices: 307314--307371 Score: 109
Period size: 2 Copynumber: 29.5 Consensus size: 2
307304 AAGTCATTAT
307314 TA TA TA -A TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
307355 TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA T
307372 TGGAGGACAT
Statistics
Matches: 55, Mismatches: 0, Indels: 2
0.96 0.00 0.04
Matches are distributed among these distances:
1 1 0.02
2 54 0.98
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
TA
Found at i:309789 original size:2 final size:2
Alignment explanation
Indices: 309771--309808 Score: 51
Period size: 2 Copynumber: 19.5 Consensus size: 2
309761 ATTTTCGTCC
* *
309771 AT AT AT TT AT AT TT AT AT AT AT AT AT AT AT AT A- AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
309809 GTTTCCAAAC
Statistics
Matches: 31, Mismatches: 4, Indels: 2
0.84 0.11 0.05
Matches are distributed among these distances:
1 1 0.03
2 30 0.97
ACGTcount: A:0.47, C:0.00, G:0.00, T:0.53
Consensus pattern (2 bp):
AT
Found at i:309869 original size:37 final size:36
Alignment explanation
Indices: 309839--310206 Score: 292
Period size: 37 Copynumber: 9.6 Consensus size: 36
309829 AAATACGTAT
309839 TATATAGTTTTTAAAACATTTTTGAAAAAATATATAA
1 TATATAGTTTTTAAAACA-TTTTGAAAAAATATATAA
*
309876 TATATAGTTTTTTAAAACATTTTAGAAAATATATATAA
1 TATATAG-TTTTTAAAACATTTT-GAAAAAATATATAA
309914 TATATAGTTTTTAAAATCATTTTGAAAACATTTTGGAAAATATATATAA
1 TATATAGTTTTTAAAA-CATTTTG-----A------AAAA-ATATATAA
* **
309963 TATATAGGTTTTAAAATCATTTTGAAAACTTATATAA
1 TATATAGTTTTTAAAA-CATTTTGAAAAAATATATAA
* * * *
310000 TATATGGTTTTGAAAACATTTTGAAAACATTTATATAT
1 TATATAGTTTTTAAAACATTTTGAAAA-A-ATATATAA
* * *
310038 TATATAGTTTTTAAAAAACATTTTGAAAATATCTAAAA
1 TATATAGTTTTT--AAAACATTTTGAAAAAATATATAA
* *
310076 TATATAGTTTTTTTAAAATATTTTTG--AAAATATATAT
1 TATATAG--TTTTTAAAACA-TTTTGAAAAAATATATAA
* *
310113 TATATAGTTTTTAAAATATTTTTAAAAACATATATAA
1 TATATAGTTTTTAAAACATTTTGAAAAA-ATATATAA
* ** *
310150 TATATA-TTTTTAAAATATTTTGAAAATTTATATAT
1 TATATAGTTTTTAAAACATTTTGAAAAAATATATAA
* *
310185 TATATGGTTTTTGAAAATATTT
1 TATATAGTTTTT-AAAACATTT
310207 GTATATTATT
Statistics
Matches: 275, Mismatches: 29, Indels: 54
0.77 0.08 0.15
Matches are distributed among these distances:
34 4 0.01
35 22 0.08
36 38 0.14
37 77 0.28
38 73 0.27
39 5 0.02
40 20 0.07
42 1 0.00
44 1 0.00
48 3 0.01
49 31 0.11
ACGTcount: A:0.44, C:0.03, G:0.07, T:0.46
Consensus pattern (36 bp):
TATATAGTTTTTAAAACATTTTGAAAAAATATATAA
Found at i:309945 original size:49 final size:49
Alignment explanation
Indices: 309884--309991 Score: 189
Period size: 49 Copynumber: 2.2 Consensus size: 49
309874 AATATATAGT
* *
309884 TTTTTAAAACATTTTAGAAAATATATATAATATATAGTTTTTAAAATCA
1 TTTTGAAAACATTTTAGAAAATATATATAATATATAGGTTTTAAAATCA
*
309933 TTTTGAAAACATTTTGGAAAATATATATAATATATAGGTTTTAAAATCA
1 TTTTGAAAACATTTTAGAAAATATATATAATATATAGGTTTTAAAATCA
309982 TTTTGAAAAC
1 TTTTGAAAAC
309992 TTATATAATA
Statistics
Matches: 56, Mismatches: 3, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
49 56 1.00
ACGTcount: A:0.45, C:0.05, G:0.07, T:0.43
Consensus pattern (49 bp):
TTTTGAAAACATTTTAGAAAATATATATAATATATAGGTTTTAAAATCA
Found at i:310023 original size:11 final size:11
Alignment explanation
Indices: 310007--310031 Score: 50
Period size: 11 Copynumber: 2.3 Consensus size: 11
309997 TAATATATGG
310007 TTTTGAAAACA
1 TTTTGAAAACA
310018 TTTTGAAAACA
1 TTTTGAAAACA
310029 TTT
1 TTT
310032 ATATATTATA
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 14 1.00
ACGTcount: A:0.40, C:0.08, G:0.08, T:0.44
Consensus pattern (11 bp):
TTTTGAAAACA
Found at i:310325 original size:18 final size:18
Alignment explanation
Indices: 310310--310351 Score: 84
Period size: 18 Copynumber: 2.3 Consensus size: 18
310300 ACCAAGCATA
310310 CAAGCCTGACCCAGCAAG
1 CAAGCCTGACCCAGCAAG
310328 CAAGCCTGACCCAGCAAG
1 CAAGCCTGACCCAGCAAG
310346 CAAGCC
1 CAAGCC
310352 CGGTGGGAGG
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
18 24 1.00
ACGTcount: A:0.33, C:0.40, G:0.21, T:0.05
Consensus pattern (18 bp):
CAAGCCTGACCCAGCAAG
Found at i:311671 original size:33 final size:33
Alignment explanation
Indices: 311649--311719 Score: 81
Period size: 33 Copynumber: 2.1 Consensus size: 33
311639 TTCTTTATTA
* *
311649 TTATTTTTGTTTTATTTCTTTGTTATTTATTTAT
1 TTATTATT-TTTTATTTATTTGTTATTTATTTAT
* *
311683 TTATTATTTTTTATTTGATATATT-TTTATTTAT
1 TTATTATTTTTTATTT-ATTTGTTATTTATTTAT
311716 TTAT
1 TTAT
311720 CTTTTATTTG
Statistics
Matches: 32, Mismatches: 4, Indels: 3
0.82 0.10 0.08
Matches are distributed among these distances:
33 21 0.66
34 11 0.34
ACGTcount: A:0.20, C:0.01, G:0.04, T:0.75
Consensus pattern (33 bp):
TTATTATTTTTTATTTATTTGTTATTTATTTAT
Found at i:311679 original size:15 final size:15
Alignment explanation
Indices: 311631--311691 Score: 51
Period size: 15 Copynumber: 4.4 Consensus size: 15
311621 TAAATTTTCT
*
311631 TTATTTGTTTCTTTA
1 TTATTTATTTCTTTA
311646 TTA-TTA-TT-TTT-
1 TTATTTATTTCTTTA
* *
311657 GT-TTTATTTCTTTG
1 TTATTTATTTCTTTA
*
311671 TTATTTATTTATTTA
1 TTATTTATTTCTTTA
311686 TTATTT
1 TTATTT
311692 TTTATTTGAT
Statistics
Matches: 36, Mismatches: 5, Indels: 10
0.71 0.10 0.20
Matches are distributed among these distances:
11 4 0.11
12 5 0.14
13 5 0.14
14 3 0.08
15 19 0.53
ACGTcount: A:0.16, C:0.03, G:0.05, T:0.75
Consensus pattern (15 bp):
TTATTTATTTCTTTA
Found at i:311687 original size:37 final size:37
Alignment explanation
Indices: 311630--311733 Score: 102
Period size: 37 Copynumber: 2.7 Consensus size: 37
311620 TTAAATTTTC
* * * * * *
311630 TTTATTTGTTTCTTTATTATTATTTTTGTTTTATTTCTT
1 TTTATTTATTTATTTATTA-T-TTTTTATTTGATATATT
311669 TGTTATTTATTTATTTATTATTTTTTATTTGATATATT
1 T-TTATTTATTTATTTATTATTTTTTATTTGATATATT
*
311707 TTTATTTATTTATCTT-TTATTTGTTAT
1 TTTATTTATTTAT-TTATTATTTTTTAT
311734 GTTTTTACAC
Statistics
Matches: 56, Mismatches: 7, Indels: 6
0.81 0.10 0.09
Matches are distributed among these distances:
37 22 0.39
38 16 0.29
39 2 0.04
40 16 0.29
ACGTcount: A:0.18, C:0.03, G:0.05, T:0.74
Consensus pattern (37 bp):
TTTATTTATTTATTTATTATTTTTTATTTGATATATT
Found at i:311727 original size:30 final size:29
Alignment explanation
Indices: 311678--311740 Score: 90
Period size: 30 Copynumber: 2.1 Consensus size: 29
311668 TTGTTATTTA
*
311678 TTTATTTATTATTTTTTATTTGATATATT
1 TTTATTTATTATCTTTTATTTGATATATT
* *
311707 TTTATTTATTTATCTTTTATTTGTTATGTT
1 TTTATTTA-TTATCTTTTATTTGATATATT
311737 TTTA
1 TTTA
311741 CACTTTGATT
Statistics
Matches: 30, Mismatches: 3, Indels: 1
0.88 0.09 0.03
Matches are distributed among these distances:
29 8 0.27
30 22 0.73
ACGTcount: A:0.21, C:0.02, G:0.05, T:0.73
Consensus pattern (29 bp):
TTTATTTATTATCTTTTATTTGATATATT
Found at i:311739 original size:15 final size:14
Alignment explanation
Indices: 311654--311740 Score: 77
Period size: 15 Copynumber: 6.0 Consensus size: 14
311644 TATTATTATT
* *
311654 TTTGTT-TTATTTC
1 TTTGTTATTTTTTA
311667 TTTGTTATTTATTTA
1 TTTGTTATTT-TTTA
*
311682 TTTATTATTTTTTA
1 TTTGTTATTTTTTA
*
311696 TTTGATATATTTTTA
1 TTTGTTAT-TTTTTA
* *
311711 TTTATTTATCTTTTA
1 TTT-GTTATTTTTTA
311726 TTTGTTATGTTTTTA
1 TTTGTTAT-TTTTTA
311741 CACTTTGATT
Statistics
Matches: 59, Mismatches: 10, Indels: 8
0.77 0.13 0.10
Matches are distributed among these distances:
13 6 0.10
14 16 0.27
15 34 0.58
16 3 0.05
ACGTcount: A:0.18, C:0.02, G:0.06, T:0.74
Consensus pattern (14 bp):
TTTGTTATTTTTTA
Found at i:314348 original size:95 final size:95
Alignment explanation
Indices: 314196--314459 Score: 325
Period size: 95 Copynumber: 2.7 Consensus size: 95
314186 TAATTATAAT
* *
314196 ATTATATATATACAATAAAGCTTGAGTTGTCCCTCTAAAGTAATTGGTTAAACGCCCCGGATTTA
1 ATTATA-ATATACAATAAAGCTTGAGTTGTCCCTCTAGAGCAATTGGTTAAACGCCCCGGATTTA
*
314261 TGGATAAGATTCAGCTAGCCTAATAAAGGTG
65 TGGATAAGATTCAGCCAGCCTAATAAAGGTG
* *
314292 ATTATAATATACAATAAAGCTTGAGTTGTCCCTCTAGAGCAAATGGTTAAATGCCCC-GACTTTA
1 ATTATAATATACAATAAAGCTTGAGTTGTCCCTCTAGAGCAATTGGTTAAACGCCCCGGA-TTTA
* * * *
314356 TAGATTAATATTCAGCCAGCCTGATAAATGTG
65 TGGA-TAAGATTCAGCCAGCCTAATAAAGGTG
* * * * *
314388 ATTATAATAT-CTATACAATGATATTAGGTTGTCCCTCTAGAGCAATTCGTTAAACGCCCCGGTT
1 ATTATAATATACAATA-AA-GCT-TGA-GTTGTCCCTCTAGAGCAATTGGTTAAACGCCCCGGAT
314452 TTATGGAT
62 TTATGGAT
314460 TCAGCTAGCC
Statistics
Matches: 144, Mismatches: 17, Indels: 12
0.83 0.10 0.07
Matches are distributed among these distances:
94 2 0.01
95 58 0.40
96 41 0.28
97 2 0.01
98 3 0.02
99 37 0.26
100 1 0.01
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
Consensus pattern (95 bp):
ATTATAATATACAATAAAGCTTGAGTTGTCCCTCTAGAGCAATTGGTTAAACGCCCCGGATTTAT
GGATAAGATTCAGCCAGCCTAATAAAGGTG
Found at i:315742 original size:84 final size:83
Alignment explanation
Indices: 315592--315992 Score: 479
Period size: 84 Copynumber: 4.8 Consensus size: 83
315582 GAAACTATCG
* * * * *
315592 GCAGTATAACTCAAGGCTAGAAGGGTTATCTGGCAACAAAAGACCTTCGAGTTTGATTACACTCA
1 GCAGCATAACTCAAGG-TAGAAGGGTTATCTGCCAACAAAAGACCTTCGAGTTCGACTACGCTCA
*
315657 GCTCAAAGGCACATCATTT
65 GCTCCAAGGCACATCATTT
* * *
315676 GCAGCATAGCTCAAGGTGAGAAGGGTTATCTACCAACAAAAGACCTTCGAATTCGACTACGCTCA
1 GCAGCATAACTCAAGGT-AGAAGGGTTATCTGCCAACAAAAGACCTTCGAGTTCGACTACGCTCA
315741 GCTCCAAGGCACATCATTT
65 GCTCCAAGGCACATCATTT
* * * *
315760 GCAACATAACTCAAGCCTAGAAGGGTTATCTGCCAA-AACAAGACCTTCGAGTTTGGCTACGCTC
1 GCAGCATAACTCAAG-GTAGAAGGGTTATCTGCCAACAA-AAGACCTTCGAGTTCGACTACGCTC
*
315824 AGCTCTAAGGCACATCATTT
64 AGCTCCAAGGCACATCATTT
* ** * * *
315844 GCATCATAGGTCAAGGTTAGAAGGGTTATCTTCCATCAAAAGACCTTCGAGTTCGACTATGCTCA
1 GCAGCATAACTCAAGG-TAGAAGGGTTATCTGCCAACAAAAGACCTTCGAGTTCGACTACGCTCA
*
315909 ACTCCAAGGCACATCATTT
65 GCTCCAAGGCACATCATTT
* * * * *
315928 GCAGCATAACTCAAGGCGAGAAGGGTTATATG-C--C-AAAGACCTTCGAGTTTGATTACACTCA
1 GCAGCATAACTCAAGG-TAGAAGGGTTATCTGCCAACAAAAGACCTTCGAGTTCGACTACGCTCA
315989 GCTC
65 GCTC
315993 AGAGGCAAAT
Statistics
Matches: 272, Mismatches: 40, Indels: 14
0.83 0.12 0.04
Matches are distributed among these distances:
80 26 0.10
81 1 0.00
83 4 0.01
84 238 0.88
85 3 0.01
ACGTcount: A:0.31, C:0.24, G:0.20, T:0.24
Consensus pattern (83 bp):
GCAGCATAACTCAAGGTAGAAGGGTTATCTGCCAACAAAAGACCTTCGAGTTCGACTACGCTCAG
CTCCAAGGCACATCATTT
Found at i:315886 original size:168 final size:167
Alignment explanation
Indices: 315597--316023 Score: 608
Period size: 168 Copynumber: 2.6 Consensus size: 167
315587 TATCGGCAGT
*
315597 ATAACTCAAGGCTAGAAGGGTTATCTGGCAACAAAAGACCTTCGAGTTTGATTACACTCAGCTCA
1 ATAACTCAAGGCTAGAAGGGTTATCTGCCAA-AAAAGACCTTCGAGTTTGATTACACTCAGCTCA
315662 AAGGCACATCATTTGCAGCATAGCTCAAGGTGAGAAGGGTTATCTACCAACAAAAGACCTTCGAA
65 AAGGCACATCATTTGCAGCATAGCTCAAGGTGAGAAGGGTTATCTACCAACAAAAGACCTTCGAA
*
315727 TTCGACTACGCTCAGCTCCAAGGCACATCATTTGCAAC
130 TTCGACTACGCTCAACTCCAAGGCACATCATTTGCAAC
* ** * *
315765 ATAACTCAAGCCTAGAAGGGTTATCTGCCAAAACAAGACCTTCGAGTTTGGCTACGCTCAGCTCT
1 ATAACTCAAGGCTAGAAGGGTTATCTGCCAAAA-AAGACCTTCGAGTTTGATTACACTCAGCTCA
* * * * * *
315830 AAGGCACATCATTTGCATCATAGGTCAAGGTTAGAAGGGTTATCTTCCATCAAAAGACCTTCGAG
65 AAGGCACATCATTTGCAGCATAGCTCAAGGTGAGAAGGGTTATCTACCAACAAAAGACCTTCGAA
* *
315895 TTCGACTATGCTCAACTCCAAGGCACATCATTTGCAGC
130 TTCGACTACGCTCAACTCCAAGGCACATCATTTGCAAC
* * *
315933 ATAACTCAAGGCGAGAAGGGTTATATGCC---AAAGACCTTCGAGTTTGATTACACTCAGCTCAG
1 ATAACTCAAGGCTAGAAGGGTTATCTGCCAAAAAAGACCTTCGAGTTTGATTACACTCAGCTCAA
* * *
315995 AGGCAAATCAAATTTACAACATAGCTCAA
66 AGGCACATC--ATTTGCAGCATAGCTCAA
316024 AGCAAGAAGG
Statistics
Matches: 229, Mismatches: 27, Indels: 8
0.87 0.10 0.03
Matches are distributed among these distances:
164 35 0.15
165 1 0.00
166 15 0.07
167 2 0.01
168 176 0.77
ACGTcount: A:0.33, C:0.24, G:0.19, T:0.24
Consensus pattern (167 bp):
ATAACTCAAGGCTAGAAGGGTTATCTGCCAAAAAAGACCTTCGAGTTTGATTACACTCAGCTCAA
AGGCACATCATTTGCAGCATAGCTCAAGGTGAGAAGGGTTATCTACCAACAAAAGACCTTCGAAT
TCGACTACGCTCAACTCCAAGGCACATCATTTGCAAC
Found at i:316295 original size:80 final size:80
Alignment explanation
Indices: 316180--316595 Score: 454
Period size: 80 Copynumber: 5.1 Consensus size: 80
316170 TGTTTTCTGG
* * * * *
316180 CAGCATAGCTTAAGGCAATAAGGGCTATCTTCCAAAGACCTTCCAATTTGATTACACTCAGCTCA
1 CAGCATAGCTCAAGGCAAGAAGGGCTATCTGCCAAAGACCTTCGAGTTTGATTACACTCAGCTCA
*
316245 AAGGCACATCATTTG
66 AAGGCACATCATTTA
* * * * * *
316260 TAGCATAACTCAAGGCTAGAAGGGTTATCTGCCAAAGACCTTCGAGTTTGATTCCATTCAGCTCA
1 CAGCATAGCTCAAGGCAAGAAGGGCTATCTGCCAAAGACCTTCGAGTTTGATTACACTCAGCTCA
* *
316325 AAGGCGCATCATTTG
66 AAGGCACATCATTTA
* *
316340 CAGCATAGCTTAAGGCAAGAAGGACTATCTGCCAAAGACCTTCGAGTTTGATTACACTCAGCTCA
1 CAGCATAGCTCAAGGCAAGAAGGGCTATCTGCCAAAGACCTTCGAGTTTGATTACACTCAGCTCA
*
316405 AAGGCATATCATTTA
66 AAGGCACATCATTTA
* * * * * * ** * *
316420 TAGCATAACTCAAGTCTAGAAGGGTTATCTTCCAAAGACCTTCGAGTTCAATTACATTCAGCTCC
1 CAGCATAGCTCAAGGCAAGAAGGGCTATCTGCCAAAGACCTTCGAGTTTGATTACACTCAGCTCA
316485 AAGGCACATCATTTA
66 AAGGCACATCATTTA
* * * * * * *
316500 CAGCATAGCTCAGGGCGAGAAGGGCTATTTGTCACCACAAGACATTCGAGTTCGATTACATTCAT
1 CAGCATAGCTCAAGGCAAGAAGGGCTATCTG---CCA-AAGACCTTCGAGTTTGATTACACTCAG
*
316565 CTCAAAGGCATATCAAATTTA
62 CTCAAAGGCACATC--ATTTA
*
316586 CAACATAGCT
1 CAGCATAGCT
316596 TAATTCGAGA
Statistics
Matches: 280, Mismatches: 50, Indels: 6
0.83 0.15 0.02
Matches are distributed among these distances:
80 227 0.81
83 3 0.01
84 36 0.13
86 14 0.05
ACGTcount: A:0.32, C:0.23, G:0.18, T:0.26
Consensus pattern (80 bp):
CAGCATAGCTCAAGGCAAGAAGGGCTATCTGCCAAAGACCTTCGAGTTTGATTACACTCAGCTCA
AAGGCACATCATTTA
Found at i:316379 original size:160 final size:160
Alignment explanation
Indices: 316179--316527 Score: 536
Period size: 160 Copynumber: 2.2 Consensus size: 160
316169 CTGTTTTCTG
* *
316179 GCAGCATAGCTTAAGGCAATAAGGGCTATCTTCCAAAGACCTTCCAATTTGATTACACTCAGCTC
1 GCAGCATAGCTTAAGGCAAGAAGGGCTATCTGCCAAAGACCTTCCAATTTGATTACACTCAGCTC
* *
316244 AAAGGCACATCATTTGTAGCATAACTCAAGGCTAGAAGGGTTATCTGCCAAAGACCTTCGAGTTT
66 AAAGGCACATCATTTATAGCATAACTCAAGGCTAGAAGGGTTATCTGCCAAAGACCTTCGAGTTC
* * *
316309 GATTCCATTCAGCTCAAAGGCGCATCATTT
131 AATTACATTCAGCTCAAAGGCACATCATTT
* * *
316339 GCAGCATAGCTTAAGGCAAGAAGGACTATCTGCCAAAGACCTTCGAGTTTGATTACACTCAGCTC
1 GCAGCATAGCTTAAGGCAAGAAGGGCTATCTGCCAAAGACCTTCCAATTTGATTACACTCAGCTC
* * *
316404 AAAGGCATATCATTTATAGCATAACTCAAGTCTAGAAGGGTTATCTTCCAAAGACCTTCGAGTTC
66 AAAGGCACATCATTTATAGCATAACTCAAGGCTAGAAGGGTTATCTGCCAAAGACCTTCGAGTTC
*
316469 AATTACATTCAGCTCCAAGGCACATCATTT
131 AATTACATTCAGCTCAAAGGCACATCATTT
* * * *
316499 ACAGCATAGCTCAGGGCGAGAAGGGCTAT
1 GCAGCATAGCTTAAGGCAAGAAGGGCTAT
316528 TTGTCACCAC
Statistics
Matches: 170, Mismatches: 19, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
160 170 1.00
ACGTcount: A:0.32, C:0.23, G:0.19, T:0.26
Consensus pattern (160 bp):
GCAGCATAGCTTAAGGCAAGAAGGGCTATCTGCCAAAGACCTTCCAATTTGATTACACTCAGCTC
AAAGGCACATCATTTATAGCATAACTCAAGGCTAGAAGGGTTATCTGCCAAAGACCTTCGAGTTC
AATTACATTCAGCTCAAAGGCACATCATTT
Found at i:317032 original size:2 final size:2
Alignment explanation
Indices: 317027--317060 Score: 52
Period size: 2 Copynumber: 17.5 Consensus size: 2
317017 ACACACACAC
*
317027 AT AT AT AT AT AT AT AT GT AT AT AT AT AT AT -T AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
317061 GTTTGCAAAC
Statistics
Matches: 29, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
1 1 0.03
2 28 0.97
ACGTcount: A:0.47, C:0.00, G:0.03, T:0.50
Consensus pattern (2 bp):
AT
Found at i:317124 original size:37 final size:35
Alignment explanation
Indices: 317094--317449 Score: 374
Period size: 37 Copynumber: 9.6 Consensus size: 35
317084 AAATACGTAT
317094 TATATAGTTTTTAAAACATTTTGAAAAAAATATATAA
1 TATATAGTTTTTAAAACATTTTG--AAAAATATATAA
*
317131 TATATAGTTTTTTTAAAACATTTTTGAAAACTATATAA
1 TATATAG--TTTTTAAAACA-TTTTGAAAAATATATAA
317169 TATATAGTTTTTAAAACATTTTAGAAAATATATATAA
1 TATATAGTTTTTAAAACATTTT-GAAAA-ATATATAA
*
317206 TATATAGTTTTTAAAATCATTTTGAAAACTTATATAA
1 TATATAGTTTTTAAAA-CATTTTGAAAA-ATATATAA
* * *
317243 TATATAGTTTTGAAAACATTTTAAAAACATTTATATAT
1 TATATAGTTTTTAAAACATTTTGAAAA-A--TATATAA
* *
317281 TATATAGTTTTAAAAAAACATTTTGAAAATATCTATAA
1 TATATAGTTTT--TAAAACATTTTGAAAA-ATATATAA
*
317319 TATATAGTTTTTTTAAAACATTTTTG-AAAATATATAT
1 TATATAG--TTTTTAAAACA-TTTTGAAAAATATATAA
*
317356 TATATAGTTTTTAAAACATTTTTAAAAACATATATAA
1 TATATAGTTTTTAAAACA-TTTTGAAAA-ATATATAA
* * *
317393 TATATA-ATTTTAAAACATTTTGAAAATTTATATAT
1 TATATAGTTTTTAAAACATTTTGAAAA-ATATATAA
* *
317428 TATATGGTTTTTGAAAATATTT
1 TATATAGTTTTT-AAAACATTT
317450 GTATATTATT
Statistics
Matches: 276, Mismatches: 26, Indels: 34
0.82 0.08 0.10
Matches are distributed among these distances:
35 39 0.14
36 44 0.16
37 91 0.33
38 62 0.22
39 16 0.06
40 24 0.09
ACGTcount: A:0.45, C:0.04, G:0.05, T:0.46
Consensus pattern (35 bp):
TATATAGTTTTTAAAACATTTTGAAAAATATATAA
Found at i:317325 original size:150 final size:147
Alignment explanation
Indices: 317094--317438 Score: 459
Period size: 150 Copynumber: 2.3 Consensus size: 147
317084 AAATACGTAT
* * ***
317094 TATATAGTTTTTAAAACATTTTGAAAAAA-ATATATAATATATAGTTTTTTTAAAACATTTTTGA
1 TATATAG-TTTTAAAACATTTT-AAAAAATTTATATATTATATAGTTTTAAAAAAACATTTTTGA
317158 AAACTATATAATATATAG-TTTTTAAAACATTTTAGAAAATATATATAATATATAGTTTTTAAAA
64 AAACTATATAATATATAGTTTTTTAAAACATTTTAGAAAATATATAT--TATATAGTTTTTAAAA
* *
317222 TCA-TTTTGAAAACTTATATAA
127 -CATTTTTAAAAACATATATAA
317243 TATATAGTTTTGAAAACATTTTAAAAACATTTATATATTATATAGTTTTAAAAAAACA-TTTTGA
1 TATATAGTTTT-AAAACATTTTAAAAA-ATTTATATATTATATAGTTTTAAAAAAACATTTTTGA
*
317307 AAA-TATCTATAATATATAGTTTTTTTAAAACATTTTTGAAAATATATATTATATAGTTTTTAAA
64 AAACTA--TATAATATATAG-TTTTTTAAAACATTTTAGAAAATATATATTATATAGTTTTTAAA
317371 ACATTTTTAAAAACATATATAA
126 ACATTTTTAAAAACATATATAA
* * *
317393 TATATAATTTTAAAACATTTT-GAAAATTTATATATTATATGGTTTT
1 TATATAGTTTTAAAACATTTTAAAAAATTTATATATTATATAGTTTT
317439 TGAAAATATT
Statistics
Matches: 177, Mismatches: 11, Indels: 18
0.86 0.05 0.09
Matches are distributed among these distances:
147 20 0.11
148 14 0.08
149 39 0.22
150 77 0.44
152 27 0.15
ACGTcount: A:0.45, C:0.04, G:0.05, T:0.46
Consensus pattern (147 bp):
TATATAGTTTTAAAACATTTTAAAAAATTTATATATTATATAGTTTTAAAAAAACATTTTTGAAA
ACTATATAATATATAGTTTTTTAAAACATTTTAGAAAATATATATTATATAGTTTTTAAAACATT
TTTAAAAACATATATAA
Found at i:318928 original size:4 final size:4
Alignment explanation
Indices: 318919--318975 Score: 57
Period size: 4 Copynumber: 14.5 Consensus size: 4
318909 TATTTCTTTG
*
318919 TTAT TTAT TTAT TTAT TTATT TTAT TTGAT ATA- TT-T TTAT TTAT TTAT
1 TTAT TTAT TTAT TTAT TTA-T TTAT TT-AT TTAT TTAT TTAT TTAT TTAT
*
318967 CT-T TTAT TT
1 TTAT TTAT TT
318976 GTTATGTTTT
Statistics
Matches: 44, Mismatches: 4, Indels: 10
0.76 0.07 0.17
Matches are distributed among these distances:
3 5 0.11
4 32 0.73
5 7 0.16
ACGTcount: A:0.23, C:0.02, G:0.02, T:0.74
Consensus pattern (4 bp):
TTAT
Found at i:318946 original size:28 final size:29
Alignment explanation
Indices: 318915--318986 Score: 94
Period size: 28 Copynumber: 2.5 Consensus size: 29
318905 GTTCTATTTC
318915 TTTGTTAT-TTATTTATTTATTTA-TTTTA
1 TTTGTTATATT-TTTATTTATTTACTTTTA
*
318943 TTTGATATATTTTTATTTATTTATCTTTTA
1 TTTGTTATATTTTTATTTATTTA-CTTTTA
*
318973 TTTGTTATGTTTTT
1 TTTGTTATATTTTT
318987 GCACTTTGAT
Statistics
Matches: 38, Mismatches: 3, Indels: 4
0.84 0.07 0.09
Matches are distributed among these distances:
28 19 0.50
29 2 0.05
30 17 0.45
ACGTcount: A:0.19, C:0.01, G:0.06, T:0.74
Consensus pattern (29 bp):
TTTGTTATATTTTTATTTATTTACTTTTA
Found at i:318973 original size:43 final size:44
Alignment explanation
Indices: 318926--319023 Score: 114
Period size: 43 Copynumber: 2.3 Consensus size: 44
318916 TTGTTATTTA
* *
318926 TTTATTTATTTATTTTATTTG-A-TAT-ATTTTTATTTATTTATCT
1 TTTATTTATTTATGTT-TTTGCACTATGATTTCTATTTA-TTATCT
* *
318969 TTTATTT-GTTATGTTTTTGCACTTTGATTTCTATTTATTATCT
1 TTTATTTATTTATGTTTTTGCACTATGATTTCTATTTATTATCT
319012 TTTATTTATTTA
1 TTTATTTATTTA
319024 ATATTTTTTT
Statistics
Matches: 46, Mismatches: 5, Indels: 7
0.79 0.09 0.12
Matches are distributed among these distances:
41 4 0.09
42 7 0.15
43 22 0.48
44 13 0.28
ACGTcount: A:0.20, C:0.05, G:0.05, T:0.69
Consensus pattern (44 bp):
TTTATTTATTTATGTTTTTGCACTATGATTTCTATTTATTATCT
Found at i:319109 original size:12 final size:13
Alignment explanation
Indices: 319087--319115 Score: 51
Period size: 12 Copynumber: 2.3 Consensus size: 13
319077 GAATCGGGTG
319087 TTTTAAATTTTAA
1 TTTTAAATTTTAA
319100 TTTT-AATTTTAA
1 TTTTAAATTTTAA
319112 TTTT
1 TTTT
319116 CGCAATGAAA
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
12 12 0.75
13 4 0.25
ACGTcount: A:0.31, C:0.00, G:0.00, T:0.69
Consensus pattern (13 bp):
TTTTAAATTTTAA
Done.