Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Gbar_D07
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: 56457815
ACGTcount: A:0.32, C:0.16, G:0.16, T:0.32
Warning! 1765025 characters in sequence are not A, C, G, or T
File 126 of 189
Found at i:36088466 original size:40 final size:40
Alignment explanation
Indices: 36088416--36088513 Score: 189
Period size: 40 Copynumber: 2.5 Consensus size: 40
36088406 TGTATTACTG
36088416 TAATA-TGTAGCTCAAATTATGTATTGTAGTTAATATTCA
1 TAATATTGTAGCTCAAATTATGTATTGTAGTTAATATTCA
36088455 TAATATTGTAGCTCAAATTATGTATTGTAGTTAATATTCA
1 TAATATTGTAGCTCAAATTATGTATTGTAGTTAATATTCA
36088495 TAATATTGTAGCTCAAATT
1 TAATATTGTAGCTCAAATT
36088514 GTCAATCCGT
Statistics
Matches: 58, Mismatches: 0, Indels: 1
0.98 0.00 0.02
Matches are distributed among these distances:
39 5 0.09
40 53 0.91
ACGTcount: A:0.36, C:0.08, G:0.12, T:0.44
Consensus pattern (40 bp):
TAATATTGTAGCTCAAATTATGTATTGTAGTTAATATTCA
Found at i:36091442 original size:19 final size:21
Alignment explanation
Indices: 36091409--36091451 Score: 63
Period size: 20 Copynumber: 2.1 Consensus size: 21
36091399 AGTGAACAAG
*
36091409 CAAAAAGAAAGGAAAAAAA-A
1 CAAAAACAAAGGAAAAAAAGA
36091429 CAAAAACAAA-GAAAAAAAGA
1 CAAAAACAAAGGAAAAAAAGA
36091449 CAA
1 CAA
36091452 TATATTTGTA
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
19 8 0.38
20 13 0.62
ACGTcount: A:0.79, C:0.09, G:0.12, T:0.00
Consensus pattern (21 bp):
CAAAAACAAAGGAAAAAAAGA
Found at i:36091610 original size:14 final size:13
Alignment explanation
Indices: 36091580--36091624 Score: 54
Period size: 14 Copynumber: 3.2 Consensus size: 13
36091570 TATTCGAAGC
36091580 AAACATAAAAAGAAA
1 AAACA-AAAAA-AAA
36091595 AAACAAAAAAACAA
1 AAACAAAAAAA-AA
*
36091609 AAACAAAAAAAGA
1 AAACAAAAAAAAA
36091622 AAA
1 AAA
36091625 GGTTTTTACC
Statistics
Matches: 28, Mismatches: 1, Indels: 4
0.85 0.03 0.12
Matches are distributed among these distances:
13 5 0.18
14 18 0.64
15 5 0.18
ACGTcount: A:0.84, C:0.09, G:0.04, T:0.02
Consensus pattern (13 bp):
AAACAAAAAAAAA
Found at i:36104474 original size:93 final size:93
Alignment explanation
Indices: 36104221--36104590 Score: 393
Period size: 94 Copynumber: 3.9 Consensus size: 93
36104211 ATGAAACCAT
* * * * *
36104221 AAATCCTATACCCCTAAAGTTGCAGTGGGTCAGATTAAAGCTACAATAGCAAATATTATCTCCCT
1 AAATCCTATACCCCT-AAGTTGTAGTGGGTCGGATTGAAGCTACAATAGCGAATCTTATCTCCCT
* *
36104286 GAAGTTGCAGTGGAGCAAGATAAAGCTAC
65 GAAGTTGTAGTGGAGCAAGATGAAGCTAC
* * * * *
36104315 AAATCTTATACCACATAAGTTGTAGTAGGTCGGATTGAAGCTACAATATCGAATCTTATCTTCCT
1 AAATCCTATACC-CCTAAGTTGTAGTGGGTCGGATTGAAGCTACAATAGCGAATCTTATCTCCCT
*
36104380 GAAGTTATAGTGGAGCAAGATGAAGCTAC
65 GAAGTTGTAGTGGAGCAAGATGAAGCTAC
* *
36104409 AAATTCTATACCCCTGAA-TTGTAGTGGGTCGGATTGAAGCTACGATAGCGAATCTTATCTCCCT
1 AAATCCTATACCCCT-AAGTTGTAGTGGGTCGGATTGAAGCTACAATAGCGAATCTTATCTCCCT
** * *
36104473 GAAGTTGTAGCAGAACAAGATGAGGCTAC
65 GAAGTTGTAGTGGAGCAAGATGAAGCTAC
* * * * * * * * * *
36104502 AAATCCTATATCCTTAAAATTGCAATGGAAT-GGATTGAAACTACAATAGCAAATCTTATCTTCT
1 AAATCCTATACCCCT-AAGTTGTAGTGG-GTCGGATTGAAGCTACAATAGCGAATCTTATCTCCC
* * *
36104566 TGAAGTTGCAATGGAGTAAGATGAA
64 TGAAGTTGTAGTGGAGCAAGATGAA
36104591 ACTGTAACAC
Statistics
Matches: 228, Mismatches: 44, Indels: 8
0.81 0.16 0.03
Matches are distributed among these distances:
93 82 0.36
94 143 0.63
95 3 0.01
ACGTcount: A:0.35, C:0.17, G:0.20, T:0.28
Consensus pattern (93 bp):
AAATCCTATACCCCTAAGTTGTAGTGGGTCGGATTGAAGCTACAATAGCGAATCTTATCTCCCTG
AAGTTGTAGTGGAGCAAGATGAAGCTAC
Found at i:36104559 original size:187 final size:188
Alignment explanation
Indices: 36104221--36104590 Score: 433
Period size: 187 Copynumber: 2.0 Consensus size: 188
36104211 ATGAAACCAT
36104221 AAATCCTATACCCCTAAAGTTGCAGTGGGTCAGATTAAAGCTACAATAGCAAATATTATCTCCCT
1 AAATCCTATACCCCTAAAGTTGCAGTGGGTCAGATTAAAGCTACAATAGCAAATATTATCTCCCT
** * * * * *
36104286 GAAGTTGCAGTGGAGCAAGATAAAGCTACAAATCTTATACCACATAAGTTGTAGTAGGTCGGATT
66 GAAGTTGCAGCAGAACAAGATAAAGCTACAAATCCTATACCACATAAATTGCAATAGGTCGGATT
* * * * *
36104351 GAAGCTACAATATCGAATCTTATCTTCCTGAAGTTATAGTGGAGCAAGATGAAGCTAC
131 GAAACTACAATAGCAAATCTTATCTTCCTGAAGTTACAATGGAGCAAGATGAAGCTAC
* * * * * * * *
36104409 AAATTCTATACCCCTGAA-TTGTAGTGGGTCGGATTGAAGCTACGATAGCGAATCTTATCTCCCT
1 AAATCCTATACCCCTAAAGTTGCAGTGGGTCAGATTAAAGCTACAATAGCAAATATTATCTCCCT
* * * * *
36104473 GAAGTTGTAGCAGAACAAGATGAGGCTACAAATCCTATATC-CTTAAAATTGCAAT-GGAAT-GG
66 GAAGTTGCAGCAGAACAAGATAAAGCTACAAATCCTATACCACAT-AAATTGCAATAGG--TCGG
* * *
36104535 ATTGAAACTACAATAGCAAATCTTATCTTCTTGAAGTTGCAATGGAGTAAGATGAA
128 ATTGAAACTACAATAGCAAATCTTATCTTCCTGAAGTTACAATGGAGCAAGATGAA
36104591 ACTGTAACAC
Statistics
Matches: 151, Mismatches: 28, Indels: 7
0.81 0.15 0.04
Matches are distributed among these distances:
186 4 0.03
187 130 0.86
188 17 0.11
ACGTcount: A:0.35, C:0.17, G:0.20, T:0.28
Consensus pattern (188 bp):
AAATCCTATACCCCTAAAGTTGCAGTGGGTCAGATTAAAGCTACAATAGCAAATATTATCTCCCT
GAAGTTGCAGCAGAACAAGATAAAGCTACAAATCCTATACCACATAAATTGCAATAGGTCGGATT
GAAACTACAATAGCAAATCTTATCTTCCTGAAGTTACAATGGAGCAAGATGAAGCTAC
Found at i:36108380 original size:33 final size:29
Alignment explanation
Indices: 36108342--36108416 Score: 87
Period size: 31 Copynumber: 2.4 Consensus size: 29
36108332 CAACTATAAG
36108342 TGCCGAATGCACATATTCACTTATACCCACCTA
1 TGCCGAATGCACATA-T-A--TATACCCACCTA
*
36108375 TGCCGAATGCATACATATATATATCCACCTA
1 TGCCGAATGC--ACATATATATACCCACCTA
36108406 TGCCGAATGCA
1 TGCCGAATGCA
36108417 TACATATACA
Statistics
Matches: 39, Mismatches: 1, Indels: 8
0.81 0.02 0.17
Matches are distributed among these distances:
29 1 0.03
31 21 0.54
33 11 0.28
34 1 0.03
35 5 0.13
ACGTcount: A:0.32, C:0.29, G:0.12, T:0.27
Consensus pattern (29 bp):
TGCCGAATGCACATATATATACCCACCTA
Found at i:36108406 original size:31 final size:31
Alignment explanation
Indices: 36108363--36108424 Score: 115
Period size: 31 Copynumber: 2.0 Consensus size: 31
36108353 CATATTCACT
36108363 TATACCCACCTATGCCGAATGCATACATATA
1 TATACCCACCTATGCCGAATGCATACATATA
*
36108394 TATATCCACCTATGCCGAATGCATACATATA
1 TATACCCACCTATGCCGAATGCATACATATA
36108425 CACACTTAAA
Statistics
Matches: 30, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
31 30 1.00
ACGTcount: A:0.35, C:0.27, G:0.10, T:0.27
Consensus pattern (31 bp):
TATACCCACCTATGCCGAATGCATACATATA
Found at i:36108677 original size:41 final size:41
Alignment explanation
Indices: 36108619--36108811 Score: 210
Period size: 41 Copynumber: 4.7 Consensus size: 41
36108609 AGATTCACTC
* * * *
36108619 GCACTTCA-CCTGATAGGCTTATAGTCTAATTCTGTTCACCG
1 GCACTT-AGCCTGCTAGGCGTATAGTCTGATTCAGTTCACCG
* * * *
36108660 GCACTTAGCTTGCTAGGCCTATAGCCTGATTTAGTTCACCG
1 GCACTTAGCCTGCTAGGCGTATAGTCTGATTCAGTTCACCG
* * * *
36108701 GCACTTAGCCTGCTAGGCTTGTAGCCTGATCCAGTTCACCG
1 GCACTTAGCCTGCTAGGCGTATAGTCTGATTCAGTTCACCG
* *
36108742 GCACTTAGCCTGCT-GGACGTATAGTCCGATTCAATTCACCG
1 GCACTTAGCCTGCTAGG-CGTATAGTCTGATTCAGTTCACCG
* *
36108783 GCACATAGCCTGCTAGACGTATAGTCTGA
1 GCACTTAGCCTGCTAGGCGTATAGTCTGA
36108812 ACAATTTCAC
Statistics
Matches: 128, Mismatches: 21, Indels: 6
0.83 0.14 0.04
Matches are distributed among these distances:
40 3 0.02
41 124 0.97
42 1 0.01
ACGTcount: A:0.21, C:0.28, G:0.22, T:0.29
Consensus pattern (41 bp):
GCACTTAGCCTGCTAGGCGTATAGTCTGATTCAGTTCACCG
Found at i:36116196 original size:33 final size:29
Alignment explanation
Indices: 36116158--36116228 Score: 83
Period size: 27 Copynumber: 2.4 Consensus size: 29
36116148 CAACTATAAG
36116158 TGCCGAATGCACATATTCACTTATACCCACCTA
1 TGCCGAATGCACATA-T-A--TATACCCACCTA
*
36116191 TGCCGAATG--CATATATATATCCACCTA
1 TGCCGAATGCACATATATATACCCACCTA
36116218 TGCCGAATGCA
1 TGCCGAATGCA
36116229 TACATATACA
Statistics
Matches: 35, Mismatches: 1, Indels: 8
0.80 0.02 0.18
Matches are distributed among these distances:
27 20 0.57
29 1 0.03
30 1 0.03
31 4 0.11
33 9 0.26
ACGTcount: A:0.31, C:0.30, G:0.13, T:0.27
Consensus pattern (29 bp):
TGCCGAATGCACATATATATACCCACCTA
Found at i:36116209 original size:27 final size:27
Alignment explanation
Indices: 36116179--36116237 Score: 100
Period size: 27 Copynumber: 2.2 Consensus size: 27
36116169 CATATTCACT
*
36116179 TATACCCACCTATGCCGAATGCATATA
1 TATACCCACCTATGCCGAATGCATACA
*
36116206 TATATCCACCTATGCCGAATGCATACA
1 TATACCCACCTATGCCGAATGCATACA
36116233 TATAC
1 TATAC
36116238 ACACTTAAAT
Statistics
Matches: 29, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
27 29 1.00
ACGTcount: A:0.34, C:0.29, G:0.10, T:0.27
Consensus pattern (27 bp):
TATACCCACCTATGCCGAATGCATACA
Found at i:36116483 original size:41 final size:41
Alignment explanation
Indices: 36116424--36116623 Score: 249
Period size: 41 Copynumber: 4.9 Consensus size: 41
36116414 TTTAAACAGA
* * * * * *
36116424 TTCACTGGCACTTCGCCTGATAGGCTTATAGTCTAATTCCG
1 TTCACCGGCACTTAGCCTGCTAGGCGTATAGTCTGATTCAG
* * *
36116465 TTCACCGGCACTTAGCCTGCTAGGCCTATAGCCTGATTTAG
1 TTCACCGGCACTTAGCCTGCTAGGCGTATAGTCTGATTCAG
* * *
36116506 TTCACCGGCACTTAGCCTGCTAGGCTTGTAGCCTGATTCAG
1 TTCACCGGCACTTAGCCTGCTAGGCGTATAGTCTGATTCAG
* *
36116547 TTCACCGGCACTTAGCCTGCT-GGACGTATAGTCCGATTCAA
1 TTCACCGGCACTTAGCCTGCTAGG-CGTATAGTCTGATTCAG
*
36116588 TTCACCGGCACTTAGCCTGCTAGACGTATAGTCTGA
1 TTCACCGGCACTTAGCCTGCTAGGCGTATAGTCTGA
36116624 ACAATTTCAC
Statistics
Matches: 139, Mismatches: 18, Indels: 4
0.86 0.11 0.02
Matches are distributed among these distances:
40 2 0.01
41 136 0.98
42 1 0.01
ACGTcount: A:0.20, C:0.28, G:0.22, T:0.29
Consensus pattern (41 bp):
TTCACCGGCACTTAGCCTGCTAGGCGTATAGTCTGATTCAG
Found at i:36121970 original size:26 final size:28
Alignment explanation
Indices: 36121916--36121976 Score: 81
Period size: 28 Copynumber: 2.2 Consensus size: 28
36121906 TATTATCAAG
* *
36121916 AATTTTATGAAATTATATATTATTATTA
1 AATTATATGAAATAATATATTATTATTA
*
36121944 AATTATATGTAATAATA-ATTATT-TTA
1 AATTATATGAAATAATATATTATTATTA
36121970 AATTATA
1 AATTATA
36121977 CAAATTCATA
Statistics
Matches: 30, Mismatches: 3, Indels: 2
0.86 0.09 0.06
Matches are distributed among these distances:
26 10 0.33
27 6 0.20
28 14 0.47
ACGTcount: A:0.46, C:0.00, G:0.03, T:0.51
Consensus pattern (28 bp):
AATTATATGAAATAATATATTATTATTA
Found at i:36122148 original size:121 final size:120
Alignment explanation
Indices: 36122017--36122430 Score: 722
Period size: 120 Copynumber: 3.4 Consensus size: 120
36122007 AATTATTTTA
* * * * *
36122017 AATTTTATTAAATCATATATTTTAATTAAAATATATTTAATATTAATTAT-TTCAAATTATCTTT
1 AATTTTATTAAATTATATATTTTAATTATAATATATTTAATAATAATTATGTT-AATTTATATTT
*
36122081 TATAGTATCATATATTATGATTTGAGTAAATTCATATAAGAATATTAATTATTAAG
65 TATAGTATCATATATTATGATTTGAGTAAATTCATATAAGAATATTGATTATTAAG
36122137 AATTTTTATTAAATTATATATTTTAATTATAATATATTTAATAATAATTATGTTAATTTATATTT
1 AA-TTTTATTAAATTATATATTTTAATTATAATATATTTAATAATAATTATGTTAATTTATATTT
*
36122202 TATAGTATCATATATTATGATTTGAGTAAATTCATATAAGAATATTGATTATTAAT
65 TATAGTATCATATATTATGATTTGAGTAAATTCATATAAGAATATTGATTATTAAG
*
36122258 AATTTTATTAAATTATATATTTTATTTATAATATATTTAATAATAATTATGTTAATTTATATTTT
1 AATTTTATTAAATTATATATTTTAATTATAATATATTTAATAATAATTATGTTAATTTATATTTT
*
36122323 ATAGTATCATATATTATGATTTGAGTAAATTCATATAAGAATATTGATTTTTAAG
66 ATAGTATCATATATTATGATTTGAGTAAATTCATATAAGAATATTGATTATTAAG
36122378 AATTTTATTAAATTATATATTTTAATTATAATATATTTAATAATAATTATGTT
1 AATTTTATTAAATTATATATTTTAATTATAATATATTTAATAATAATTATGTT
36122431 TAAATATGAT
Statistics
Matches: 281, Mismatches: 11, Indels: 4
0.95 0.04 0.01
Matches are distributed among these distances:
120 169 0.60
121 110 0.39
122 2 0.01
ACGTcount: A:0.42, C:0.02, G:0.05, T:0.51
Consensus pattern (120 bp):
AATTTTATTAAATTATATATTTTAATTATAATATATTTAATAATAATTATGTTAATTTATATTTT
ATAGTATCATATATTATGATTTGAGTAAATTCATATAAGAATATTGATTATTAAG
Found at i:36122178 original size:15 final size:15
Alignment explanation
Indices: 36122143--36122194 Score: 56
Period size: 15 Copynumber: 3.6 Consensus size: 15
36122133 TAAGAATTTT
*
36122143 TATTAAATTAT-ATA
1 TATTTAATTATAATA
36122157 T-TTTAATTATAATA
1 TATTTAATTATAATA
*
36122171 TATTTAATAATAAT-
1 TATTTAATTATAATA
36122185 TATGTTAATT
1 TAT-TTAATT
36122195 TATATTTTAT
Statistics
Matches: 32, Mismatches: 3, Indels: 5
0.80 0.08 0.12
Matches are distributed among these distances:
13 8 0.25
14 8 0.25
15 16 0.50
ACGTcount: A:0.44, C:0.00, G:0.02, T:0.54
Consensus pattern (15 bp):
TATTTAATTATAATA
Found at i:36122293 original size:16 final size:17
Alignment explanation
Indices: 36122254--36122295 Score: 52
Period size: 16 Copynumber: 2.6 Consensus size: 17
36122244 TATTGATTAT
36122254 TAATA-ATTTTATTAAA
1 TAATATATTTTATTAAA
* *
36122270 TTATATATTTTATT-TA
1 TAATATATTTTATTAAA
36122286 TAATATATTT
1 TAATATATTT
36122296 AATAATAATT
Statistics
Matches: 22, Mismatches: 3, Indels: 2
0.81 0.11 0.07
Matches are distributed among these distances:
16 14 0.64
17 8 0.36
ACGTcount: A:0.40, C:0.00, G:0.00, T:0.60
Consensus pattern (17 bp):
TAATATATTTTATTAAA
Found at i:36122413 original size:16 final size:16
Alignment explanation
Indices: 36122392--36122433 Score: 52
Period size: 15 Copynumber: 2.7 Consensus size: 16
36122382 TTATTAAATT
*
36122392 ATATATTTTAATTATA
1 ATATATTTTAATAATA
36122408 ATATA-TTTAATAATA
1 ATATATTTTAATAATA
36122423 AT-TATGTTTAA
1 ATATAT-TTTAA
36122434 ATATGATTAA
Statistics
Matches: 23, Mismatches: 1, Indels: 4
0.82 0.04 0.14
Matches are distributed among these distances:
14 2 0.09
15 11 0.48
16 10 0.43
ACGTcount: A:0.45, C:0.00, G:0.02, T:0.52
Consensus pattern (16 bp):
ATATATTTTAATAATA
Found at i:36122418 original size:15 final size:15
Alignment explanation
Indices: 36122383--36122424 Score: 52
Period size: 15 Copynumber: 2.9 Consensus size: 15
36122373 TTAAGAATTT
*
36122383 TATTAAATTAT-ATA
1 TATTTAATTATAATA
36122397 T-TTTAATTATAATA
1 TATTTAATTATAATA
*
36122411 TATTTAATAATAAT
1 TATTTAATTATAAT
36122425 TATGTTTAAA
Statistics
Matches: 24, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
13 8 0.33
14 5 0.21
15 11 0.46
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (15 bp):
TATTTAATTATAATA
Found at i:36122658 original size:45 final size:44
Alignment explanation
Indices: 36122578--36122667 Score: 137
Period size: 45 Copynumber: 2.0 Consensus size: 44
36122568 ACCTCTATTC
36122578 CATTCAACCAAACACAAGATTACTATTACGCCTCTATTCCATTA
1 CATTCAACCAAACACAAGATTACTATTACGCCTCTATTCCATTA
* *
36122622 CATTCAACCAAACA-ATTGATTTGCTATTACGCCTCTATTCCATTA
1 CATTCAACCAAACACA-AGA-TTACTATTACGCCTCTATTCCATTA
36122667 C
1 C
36122668 GCCTCTAATT
Statistics
Matches: 42, Mismatches: 2, Indels: 3
0.89 0.04 0.06
Matches are distributed among these distances:
43 1 0.02
44 16 0.38
45 25 0.60
ACGTcount: A:0.33, C:0.29, G:0.06, T:0.32
Consensus pattern (44 bp):
CATTCAACCAAACACAAGATTACTATTACGCCTCTATTCCATTA
Found at i:36122668 original size:16 final size:16
Alignment explanation
Indices: 36122647--36122711 Score: 96
Period size: 16 Copynumber: 4.1 Consensus size: 16
36122637 TTGATTTGCT
36122647 ATTACGCCTCTATTCC
1 ATTACGCCTCTATTCC
36122663 ATTACGCCTCTAATT-C
1 ATTACGCCTCT-ATTCC
*
36122679 ATTACGCCTCTAATCC
1 ATTACGCCTCTATTCC
*
36122695 ATTACGCCTTTATTCC
1 ATTACGCCTCTATTCC
36122711 A
1 A
36122712 ATACAGCGAA
Statistics
Matches: 44, Mismatches: 3, Indels: 4
0.86 0.06 0.08
Matches are distributed among these distances:
15 2 0.05
16 39 0.89
17 3 0.07
ACGTcount: A:0.23, C:0.34, G:0.06, T:0.37
Consensus pattern (16 bp):
ATTACGCCTCTATTCC
Found at i:36126196 original size:274 final size:278
Alignment explanation
Indices: 36125680--36126210 Score: 697
Period size: 274 Copynumber: 1.9 Consensus size: 278
36125670 GGAACAACCA
* * *
36125680 ATAACATATCATGTATGTTGCATCTAGAGCTTGTATTTTGGTAGTGCTGCAAACAAATTGGTGAC
1 ATAACATATCATGTATGTT-CATCTAGAGCATGAATTTTGGTAGTGCTGCAAACAAATCGGTGAC
* *
36125745 ATTTTAGTAGGGACAGCTCAGGGTACAAAGTTGTATGACCTTTCGGTTTAGCTGCTGGATCATCT
65 ATTTTAGTAGAGACA-CTCAGGGTACAAAGTTGTATGACCTTTCGATTTAGCTGCTGGATCATCT
** * * * *
36125810 TTTTAATCTGCCTTTAAGAATTTTGAGCATGGGTTTGCTGGAATTAGTTTGTGCATTAAAGAGAT
129 TTTTAATCCACCTTTAAGAATTTTGAGCACGGGTTTGCAGGAAGTAGTTTGTACATTAAAGAGAT
* * * * *
36125875 GAGATGGCTAATATTTAGTATTTAGCGTCAAATGGTACTATCAAAGGTTATTATTGATGAAAACA
194 GAGATGGCTAATATTTAGTATTTAGCATCAAAGGGTACAAACAAAGGTTATCATTGATGAAAACA
36125940 TTCACTTCCAGACATCTGAG
259 TTCACTTCCAGACATCTGAG
*
36125960 ATAACATATCATGTA-G-T-ATTTAGAGCATGAATTTTGGTAGTGCTGCAAACAAATCGGTGAC-
1 ATAACATATCATGTATGTTCATCTAGAGCATGAATTTTGGTAGTGCTGCAAACAAATCGGTGACA
* *
36126021 TTTTATTAGAGAC-TTCA-GGTACAAAAGTTGTATGACCTTT-GATTTAGCTGCT-GACTCATC-
66 TTTTAGTAGAGACACTCAGGGTAC-AAAGTTGTATGACCTTTCGATTTAGCTGCTGGA-TCATCT
* * *
36126081 TTTTAATTCCACCTTTAAGAA-TTT-AGCACGGCTAGTTTTGCAGGCAGTATTTTGTACCTTAAA
129 TTTTAA-TCCACCTTTAAGAATTTTGAGCACGG---G-TTTGCAGGAAGTAGTTTGTACATTAAA
*
36126144 GAGATGAGATGGCTAATATTTTGTATTTAGCATCAAAGGGTACAAACAAAGGTTATCATTGATGA
189 GAGATGAGATGGCTAATATTTAGTATTTAGCATCAAAGGGTACAAACAAAGGTTATCATTGATGA
36126209 AA
254 AA
36126211 CCTTACATCT
Statistics
Matches: 221, Mismatches: 23, Indels: 20
0.84 0.09 0.08
Matches are distributed among these distances:
270 6 0.03
271 11 0.05
272 33 0.15
273 21 0.10
274 82 0.37
275 11 0.05
276 40 0.18
278 1 0.00
279 1 0.00
280 15 0.07
ACGTcount: A:0.30, C:0.14, G:0.21, T:0.35
Consensus pattern (278 bp):
ATAACATATCATGTATGTTCATCTAGAGCATGAATTTTGGTAGTGCTGCAAACAAATCGGTGACA
TTTTAGTAGAGACACTCAGGGTACAAAGTTGTATGACCTTTCGATTTAGCTGCTGGATCATCTTT
TTAATCCACCTTTAAGAATTTTGAGCACGGGTTTGCAGGAAGTAGTTTGTACATTAAAGAGATGA
GATGGCTAATATTTAGTATTTAGCATCAAAGGGTACAAACAAAGGTTATCATTGATGAAAACATT
CACTTCCAGACATCTGAG
Found at i:36128750 original size:284 final size:284
Alignment explanation
Indices: 36128238--36128801 Score: 1067
Period size: 284 Copynumber: 2.0 Consensus size: 284
36128228 TACCCGTTGC
36128238 AACTTGATAGTCTGAGTTTCTTTCATGTCAGGAGAAACATAGTTTTCTTACTCATGAAGGATTGC
1 AACTTGATAGTCTGAGTTTCTTTCATGTCAGGAGAAACATAGTTTTCTTACTCATGAAGGATTGC
*
36128303 AAAAGCTTACTGTTACTGCCAACTCTCTATAGTTTAATCTAGTTTTGTAGTTATATTGTTAAAAA
66 AAAAGCTTACTGTTACTGCCAACTCTCTATAGTATAATCTAGTTTTGTAGTTATATTGTTAAAAA
36128368 AAGAGGTATGAATGTTGTCTAAATTAGCTGAAGCTATTTGCAGTTGGTCACCCCATGCATTTTCA
131 AAGAGGTATGAATGTTGTCTAAATTAGCTGAAGCTATTTGCAGTTGGTCACCCCATGCATTTTCA
* *
36128433 TTTCTATTGCCTTGACTTATGCACGTCAACTTCAAGACATGACTTTATCCATCACAAATTCTTGC
196 TTTCTATTGCCATGACTTATGCACGTAAACTTCAAGACATGACTTTATCCATCACAAATTCTTGC
36128498 AGGATGTTTGCTTGTCATCTACAA
261 AGGATGTTTGCTTGTCATCTACAA
36128522 AACTTGATAGTCTGAGTTTCTTTCATGTCAGGAGAAACATAGTTTTCTTACTCATGAAGGATTGC
1 AACTTGATAGTCTGAGTTTCTTTCATGTCAGGAGAAACATAGTTTTCTTACTCATGAAGGATTGC
36128587 AAAAGCTTACTGTTACTTG-CAACTCTCTATAGTATAATCTAGTTTTGTAGTTATATTGTTAAAA
66 AAAAGCTTACTGTTAC-TGCCAACTCTCTATAGTATAATCTAGTTTTGTAGTTATATTGTTAAAA
36128651 AAAGAGGTATGAATGTTGTCTAAATTAGCTGAAGCTATTTGCAGTTGGTCACCCCATGCATTTTC
130 AAAGAGGTATGAATGTTGTCTAAATTAGCTGAAGCTATTTGCAGTTGGTCACCCCATGCATTTTC
* *
36128716 ATTTCTATTGCCATGACTTATGCATGTAAACTTCAGGACATGACTTTATCCATCACAAATTCTTG
195 ATTTCTATTGCCATGACTTATGCACGTAAACTTCAAGACATGACTTTATCCATCACAAATTCTTG
36128781 CAGGATGTTTGCTTGTCATCT
260 CAGGATGTTTGCTTGTCATCT
36128802 GCAAGAGTTG
Statistics
Matches: 274, Mismatches: 5, Indels: 2
0.98 0.02 0.01
Matches are distributed among these distances:
284 272 0.99
285 2 0.01
ACGTcount: A:0.28, C:0.17, G:0.17, T:0.38
Consensus pattern (284 bp):
AACTTGATAGTCTGAGTTTCTTTCATGTCAGGAGAAACATAGTTTTCTTACTCATGAAGGATTGC
AAAAGCTTACTGTTACTGCCAACTCTCTATAGTATAATCTAGTTTTGTAGTTATATTGTTAAAAA
AAGAGGTATGAATGTTGTCTAAATTAGCTGAAGCTATTTGCAGTTGGTCACCCCATGCATTTTCA
TTTCTATTGCCATGACTTATGCACGTAAACTTCAAGACATGACTTTATCCATCACAAATTCTTGC
AGGATGTTTGCTTGTCATCTACAA
Found at i:36134493 original size:71 final size:71
Alignment explanation
Indices: 36134413--36134545 Score: 162
Period size: 71 Copynumber: 1.9 Consensus size: 71
36134403 TTATGAGTTG
* * *
36134413 CAAGTAATTCCTTC-ATGTACTACGAGCTACTTAATTTTTTAGAAGCC-TTTCATATTTTAAGTT
1 CAAGTAATTCCTTCTAT-TACTACAAACTACTTAATTTCTTAGAA-CCTTTTCATATTTTAAGTT
36134476 TTGTATTT
64 TTGTATTT
* * * * *
36134484 CAAGTAATTCTTTCTATTGCTACAAATTAGTTAATTTCTTAGAACCTTTTCATGTTTTAAGT
1 CAAGTAATTCCTTCTATTACTACAAACTACTTAATTTCTTAGAACCTTTTCATATTTTAAGT
36134546 AATTCTTTTA
Statistics
Matches: 52, Mismatches: 8, Indels: 4
0.81 0.12 0.06
Matches are distributed among these distances:
70 2 0.04
71 48 0.92
72 2 0.04
ACGTcount: A:0.28, C:0.15, G:0.11, T:0.47
Consensus pattern (71 bp):
CAAGTAATTCCTTCTATTACTACAAACTACTTAATTTCTTAGAACCTTTTCATATTTTAAGTTTT
GTATTT
Found at i:36134836 original size:57 final size:55
Alignment explanation
Indices: 36134767--36134894 Score: 150
Period size: 56 Copynumber: 2.3 Consensus size: 55
36134757 TTCAAGTTTT
* * *
36134767 AAGTAATTCTTTCATGTATTACT-AATTACTTACTTTCTTAACACTCTTTCATATTTG
1 AAGTAA-TCTTTCATGTATTA-TGAATTA-TTAATTTCTTAAAACTCTTCCATATTTG
* * *
36134824 AAGTAACTCTTTCATGTATTATGGATTATTAATTTCTTAAAACTCTTCCATGTTTT
1 AAGTAA-TCTTTCATGTATTATGAATTATTAATTTCTTAAAACTCTTCCATATTTG
36134880 AAGTAATACTTTCAT
1 AAGTAAT-CTTTCAT
36134895 ATTTTACGAA
Statistics
Matches: 62, Mismatches: 7, Indels: 5
0.84 0.09 0.07
Matches are distributed among these distances:
55 1 0.02
56 37 0.60
57 24 0.39
ACGTcount: A:0.30, C:0.16, G:0.07, T:0.48
Consensus pattern (55 bp):
AAGTAATCTTTCATGTATTATGAATTATTAATTTCTTAAAACTCTTCCATATTTG
Found at i:36134885 original size:56 final size:56
Alignment explanation
Indices: 36134762--36134938 Score: 171
Period size: 57 Copynumber: 3.1 Consensus size: 56
36134752 ACACTTTCAA
* * *
36134762 GTTTTAAGTAATTCTTTCATGTATTACTAATTACTTACTTTCTTAACACTCTTTCAT
1 GTTTTAAGTAA-TCTTTCATGTATTACTAATTACTTAATTTCTTAAAACTCTTCCAT
* * *
36134819 ATTTGAAGTAACTCTTTCATGTATTA-TGGATTA-TTAATTTCTTAAAACTCTTCCAT
1 GTTTTAAGTAA-TCTTTCATGTATTACT-AATTACTTAATTTCTTAAAACTCTTCCAT
* * * * * * *
36134875 GTTTTAAGTAATACTTTCATATTTTACGAATAACTTAATTTATTAGAA-TCATTTCAT
1 GTTTTAAGTAAT-CTTTCATGTATTACTAATTACTTAATTTCTTAAAACTC-TTCCAT
36134932 GTTTTAA
1 GTTTTAA
36134939 TTGTCTTTTT
Statistics
Matches: 98, Mismatches: 17, Indels: 10
0.78 0.14 0.08
Matches are distributed among these distances:
55 1 0.01
56 46 0.47
57 51 0.52
ACGTcount: A:0.31, C:0.14, G:0.07, T:0.49
Consensus pattern (56 bp):
GTTTTAAGTAATCTTTCATGTATTACTAATTACTTAATTTCTTAAAACTCTTCCAT
Found at i:36139901 original size:21 final size:20
Alignment explanation
Indices: 36139877--36139933 Score: 69
Period size: 21 Copynumber: 2.7 Consensus size: 20
36139867 GTGAGGGAGG
36139877 CACACGACCGTGTGTAGGTGA
1 CACA-GACCGTGTGTAGGTGA
*
36139898 CACATACCTGTGTGTAGGTGA
1 CACAGACC-GTGTGTAGGTGA
*
36139919 CACAAGTCCGTGTGT
1 CAC-AGACCGTGTGT
36139934 CTAGGGAACA
Statistics
Matches: 31, Mismatches: 3, Indels: 4
0.82 0.08 0.11
Matches are distributed among these distances:
20 3 0.10
21 25 0.81
22 3 0.10
ACGTcount: A:0.23, C:0.23, G:0.30, T:0.25
Consensus pattern (20 bp):
CACAGACCGTGTGTAGGTGA
Found at i:36143415 original size:16 final size:17
Alignment explanation
Indices: 36143375--36143415 Score: 50
Period size: 15 Copynumber: 2.5 Consensus size: 17
36143365 CATGAGTCGC
36143375 TTATTAAACTAATTTAT
1 TTATTAAACTAATTTAT
*
36143392 TTGTTAAA-TAA-TTAT
1 TTATTAAACTAATTTAT
36143407 TTATATAAA
1 TTAT-TAAA
36143416 ATTGAGTATT
Statistics
Matches: 21, Mismatches: 2, Indels: 3
0.81 0.08 0.12
Matches are distributed among these distances:
15 7 0.33
16 7 0.33
17 7 0.33
ACGTcount: A:0.44, C:0.02, G:0.02, T:0.51
Consensus pattern (17 bp):
TTATTAAACTAATTTAT
Found at i:36147496 original size:15 final size:17
Alignment explanation
Indices: 36147471--36147502 Score: 50
Period size: 16 Copynumber: 2.0 Consensus size: 17
36147461 ACAACATTAC
36147471 ATAATCAAAA-TATGAA
1 ATAATCAAAATTATGAA
36147487 ATAA-CAAAATTATGAA
1 ATAATCAAAATTATGAA
36147503 CAGGTAAACT
Statistics
Matches: 15, Mismatches: 0, Indels: 2
0.88 0.00 0.12
Matches are distributed among these distances:
15 5 0.33
16 10 0.67
ACGTcount: A:0.62, C:0.06, G:0.06, T:0.25
Consensus pattern (17 bp):
ATAATCAAAATTATGAA
Found at i:36165704 original size:19 final size:20
Alignment explanation
Indices: 36165682--36165720 Score: 53
Period size: 19 Copynumber: 2.0 Consensus size: 20
36165672 TTTTTAAAGA
36165682 GTTGCATATT-TTTAATTTT
1 GTTGCATATTGTTTAATTTT
* *
36165701 GTTGGATATTGTTTTATTTT
1 GTTGCATATTGTTTAATTTT
36165721 TAGGCCTAGA
Statistics
Matches: 17, Mismatches: 2, Indels: 1
0.85 0.10 0.05
Matches are distributed among these distances:
19 9 0.53
20 8 0.47
ACGTcount: A:0.18, C:0.03, G:0.15, T:0.64
Consensus pattern (20 bp):
GTTGCATATTGTTTAATTTT
Found at i:36173633 original size:62 final size:63
Alignment explanation
Indices: 36173535--36173671 Score: 199
Period size: 61 Copynumber: 2.2 Consensus size: 63
36173525 GCCTAATAAT
*
36173535 AAATTTATCCCT-TCAATATTTACACATTCTCTCAATTTGATCCTAAATCTAAAAAAATTAAAC
1 AAATTTAGCCCTCTCAATATTTACACATTCTCTCAATTTGATCCTAAAT-TAAAAAAATTAAAC
* * * *
36173598 AAATTTAGCCCTCT-AATGTTT-CACATTCTCTCAATTTGATCGTAAATTTAAAAAATTCAAC
1 AAATTTAGCCCTCTCAATATTTACACATTCTCTCAATTTGATCCTAAATTAAAAAAATTAAAC
36173659 AAATTTAGCCCTC
1 AAATTTAGCCCTC
36173672 AACGTATACA
Statistics
Matches: 68, Mismatches: 5, Indels: 4
0.88 0.06 0.05
Matches are distributed among these distances:
61 25 0.37
62 25 0.37
63 17 0.25
64 1 0.01
ACGTcount: A:0.38, C:0.21, G:0.04, T:0.36
Consensus pattern (63 bp):
AAATTTAGCCCTCTCAATATTTACACATTCTCTCAATTTGATCCTAAATTAAAAAAATTAAAC
Found at i:36174216 original size:9 final size:9
Alignment explanation
Indices: 36174176--36174225 Score: 55
Period size: 9 Copynumber: 5.4 Consensus size: 9
36174166 TTTAAAAATA
36174176 AATTTTTAT
1 AATTTTTAT
*
36174185 AATTTATATT
1 AATTTTTA-T
* * *
36174195 TACTTTTAA
1 AATTTTTAT
36174204 AATTTTTAT
1 AATTTTTAT
36174213 AATTTTTAT
1 AATTTTTAT
36174222 AATT
1 AATT
36174226 AGGACTAAAA
Statistics
Matches: 32, Mismatches: 8, Indels: 2
0.76 0.19 0.05
Matches are distributed among these distances:
9 26 0.81
10 6 0.19
ACGTcount: A:0.36, C:0.02, G:0.00, T:0.62
Consensus pattern (9 bp):
AATTTTTAT
Found at i:36177211 original size:11 final size:11
Alignment explanation
Indices: 36177186--36177225 Score: 55
Period size: 11 Copynumber: 3.7 Consensus size: 11
36177176 ATTTCCCTTA
*
36177186 CTTTCCCTT-C
1 CTTTCCTTTCC
36177196 CTTTCCTTTCC
1 CTTTCCTTTCC
36177207 CTTTCCTTTCC
1 CTTTCCTTTCC
*
36177218 CTCTCCTT
1 CTTTCCTT
36177226 ACCCCAACCA
Statistics
Matches: 27, Mismatches: 2, Indels: 1
0.90 0.07 0.03
Matches are distributed among these distances:
10 8 0.30
11 19 0.70
ACGTcount: A:0.00, C:0.47, G:0.00, T:0.53
Consensus pattern (11 bp):
CTTTCCTTTCC
Found at i:36177225 original size:16 final size:15
Alignment explanation
Indices: 36177186--36177217 Score: 55
Period size: 16 Copynumber: 2.1 Consensus size: 15
36177176 ATTTCCCTTA
36177186 CTTTCCCTTCCTTTC
1 CTTTCCCTTCCTTTC
36177201 CTTTCCCTTTCCTTTC
1 CTTTCCC-TTCCTTTC
36177217 C
1 C
36177218 CTCTCCTTAC
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
15 7 0.44
16 9 0.56
ACGTcount: A:0.00, C:0.47, G:0.00, T:0.53
Consensus pattern (15 bp):
CTTTCCCTTCCTTTC
Found at i:36177560 original size:15 final size:16
Alignment explanation
Indices: 36177523--36177565 Score: 52
Period size: 15 Copynumber: 2.8 Consensus size: 16
36177513 AGTAATATCC
36177523 TATCCAAATCTGAAAT
1 TATCCAAATCTGAAAT
* * *
36177539 TACCCAATTCT-AGAT
1 TATCCAAATCTGAAAT
36177554 TATCCAAATCTG
1 TATCCAAATCTG
36177566 GAAAAAAAAC
Statistics
Matches: 21, Mismatches: 5, Indels: 2
0.75 0.18 0.07
Matches are distributed among these distances:
15 12 0.57
16 9 0.43
ACGTcount: A:0.37, C:0.23, G:0.07, T:0.33
Consensus pattern (16 bp):
TATCCAAATCTGAAAT
Found at i:36183122 original size:14 final size:15
Alignment explanation
Indices: 36183102--36183143 Score: 59
Period size: 15 Copynumber: 2.8 Consensus size: 15
36183092 ATTTTCGGTA
*
36183102 TATTTTTTTT-TTTC
1 TATTTTTTTTCTCTC
36183116 TAGTTTTTTTTCTCTC
1 TA-TTTTTTTTCTCTC
36183132 TATTTTTTTTCT
1 TATTTTTTTTCT
36183144 TTTCGAAGTA
Statistics
Matches: 25, Mismatches: 1, Indels: 3
0.86 0.03 0.10
Matches are distributed among these distances:
14 2 0.08
15 18 0.72
16 5 0.20
ACGTcount: A:0.07, C:0.12, G:0.02, T:0.79
Consensus pattern (15 bp):
TATTTTTTTTCTCTC
Found at i:36183123 original size:16 final size:15
Alignment explanation
Indices: 36183104--36183147 Score: 52
Period size: 16 Copynumber: 2.8 Consensus size: 15
36183094 TTTCGGTATA
36183104 TTTTTTTTTTTCTAGT
1 TTTTTTTTTTTCTA-T
* *
36183120 TTTTTTTCTCTCTAT
1 TTTTTTTTTTTCTAT
36183135 TTTTTTTCTTTTC
1 TTTTTTT-TTTTC
36183148 GAAGTATTTG
Statistics
Matches: 23, Mismatches: 4, Indels: 2
0.79 0.14 0.07
Matches are distributed among these distances:
15 8 0.35
16 15 0.65
ACGTcount: A:0.05, C:0.14, G:0.02, T:0.80
Consensus pattern (15 bp):
TTTTTTTTTTTCTAT
Found at i:36184015 original size:18 final size:19
Alignment explanation
Indices: 36183979--36184025 Score: 78
Period size: 18 Copynumber: 2.5 Consensus size: 19
36183969 TTATAAATAT
36183979 TTATATATATATCATCTTA
1 TTATATATATATCATCTTA
*
36183998 TTATATATTTAT-ATCTTA
1 TTATATATATATCATCTTA
36184016 TTATATATAT
1 TTATATATAT
36184026 CTATATATCT
Statistics
Matches: 26, Mismatches: 2, Indels: 1
0.90 0.07 0.03
Matches are distributed among these distances:
18 15 0.58
19 11 0.42
ACGTcount: A:0.36, C:0.06, G:0.00, T:0.57
Consensus pattern (19 bp):
TTATATATATATCATCTTA
Found at i:36187547 original size:8 final size:8
Alignment explanation
Indices: 36187534--36187562 Score: 51
Period size: 8 Copynumber: 3.8 Consensus size: 8
36187524 CAGACTCAAA
36187534 AAAAAATC
1 AAAAAATC
36187542 AAAAAATC
1 AAAAAATC
36187550 AAAAAAT-
1 AAAAAATC
36187557 AAAAAA
1 AAAAAA
36187563 AAAATCAAGG
Statistics
Matches: 21, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
7 6 0.29
8 15 0.71
ACGTcount: A:0.83, C:0.07, G:0.00, T:0.10
Consensus pattern (8 bp):
AAAAAATC
Found at i:36187553 original size:19 final size:19
Alignment explanation
Indices: 36187529--36187570 Score: 59
Period size: 19 Copynumber: 2.2 Consensus size: 19
36187519 GAGTTCAGAC
*
36187529 TCAAAAAA-AAATCAAAAAA
1 TCAAAAAATAAA-AAAAAAA
36187548 TCAAAAAATAAAAAAAAAA
1 TCAAAAAATAAAAAAAAAA
36187567 TCAA
1 TCAA
36187571 GGTCAAAAAT
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
19 18 0.86
20 3 0.14
ACGTcount: A:0.79, C:0.10, G:0.00, T:0.12
Consensus pattern (19 bp):
TCAAAAAATAAAAAAAAAA
Found at i:36189797 original size:88 final size:88
Alignment explanation
Indices: 36189645--36190419 Score: 1361
Period size: 88 Copynumber: 8.8 Consensus size: 88
36189635 ATCGAAAATA
* * *
36189645 AAACCTTGCCTCTCTCGGTTGTGATGGAGCTGGTTGAAGATAACAGATCTTGCCTTCCTACATTG
1 AAACCTTGCCTCTCTCGGTTGTGATGGAGCTGGTTGAAGACAAAAGATCTTGCCTTCCTGCATTG
*
36189710 ACAGCGAAGCAAGTCGAAGACAC
66 ACAGCGAAGCAGGTCGAAGACAC
* **
36189733 AAACCTTGCTTCTCTCAATTGTGATGGAGCTGGTTGAAGACAAAAGATCTTGCCTTCCTGCATTG
1 AAACCTTGCCTCTCTCGGTTGTGATGGAGCTGGTTGAAGACAAAAGATCTTGCCTTCCTGCATTG
36189798 ACAGCGAAGCAGGTCGAAGACAC
66 ACAGCGAAGCAGGTCGAAGACAC
* *
36189821 AAACCTTGCCTCTCTCAGTTGTGATGGAGCTGGTTGAAGACAAAAGATCTTGCCTTCCTACATTG
1 AAACCTTGCCTCTCTCGGTTGTGATGGAGCTGGTTGAAGACAAAAGATCTTGCCTTCCTGCATTG
36189886 ACAGCGAAGCAGGTCGAAGACAC
66 ACAGCGAAGCAGGTCGAAGACAC
36189909 AAACCTTGCCTCTCTCGGTTGTGATGGAGCTGGTTGAAGACAAAAGATCTTGCCTTCCTGCATTG
1 AAACCTTGCCTCTCTCGGTTGTGATGGAGCTGGTTGAAGACAAAAGATCTTGCCTTCCTGCATTG
36189974 ACAGCGAAGCAGGTCGAAGACAC
66 ACAGCGAAGCAGGTCGAAGACAC
* *
36189997 AAACCTTGCCTCTCTCGGTTGTGATGGAGCTGGTTGAAGACAAAAGATCTTACCTTCCTACATTG
1 AAACCTTGCCTCTCTCGGTTGTGATGGAGCTGGTTGAAGACAAAAGATCTTGCCTTCCTGCATTG
36190062 ACAGCGAAGCAGGTCGAAGACAC
66 ACAGCGAAGCAGGTCGAAGACAC
* *
36190085 AAACCTTGCTTCTCTCAGTTGTGATGGAGCTGGTTGAAGACAAAAGATCTTGCCTTCCTGCATTG
1 AAACCTTGCCTCTCTCGGTTGTGATGGAGCTGGTTGAAGACAAAAGATCTTGCCTTCCTGCATTG
36190150 ACAGCGAAGCAGGTCGAAGACAC
66 ACAGCGAAGCAGGTCGAAGACAC
36190173 AAACCTTGCCTCTCTCGGTTGTGATGGAGCTGGTTGAAGACAAAAGATCTTGCCTTCCTGCATTG
1 AAACCTTGCCTCTCTCGGTTGTGATGGAGCTGGTTGAAGACAAAAGATCTTGCCTTCCTGCATTG
36190238 ACAGCGAAGCAGGTCGAAGACAC
66 ACAGCGAAGCAGGTCGAAGACAC
36190261 AAACCTTGCCTCTCTCGGTTGTGATGGAGCTGGTTGAAGACAAAAGATCTTGCCTTCCTGCATTG
1 AAACCTTGCCTCTCTCGGTTGTGATGGAGCTGGTTGAAGACAAAAGATCTTGCCTTCCTGCATTG
* *
36190326 AAAGTGAAGCAGGTCGAAGACAC
66 ACAGCGAAGCAGGTCGAAGACAC
* * ** * *
36190349 AAACCTTGCCTCTCTCGGTTGTGAGGGAGCTAGTTGAAGACAGTAGATATTGCCTTCCTGCATCG
1 AAACCTTGCCTCTCTCGGTTGTGATGGAGCTGGTTGAAGACAAAAGATCTTGCCTTCCTGCATTG
36190414 ACAGCG
66 ACAGCG
36190420 GGGCAGATCA
Statistics
Matches: 657, Mismatches: 30, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
88 657 1.00
ACGTcount: A:0.27, C:0.23, G:0.25, T:0.25
Consensus pattern (88 bp):
AAACCTTGCCTCTCTCGGTTGTGATGGAGCTGGTTGAAGACAAAAGATCTTGCCTTCCTGCATTG
ACAGCGAAGCAGGTCGAAGACAC
Found at i:36190607 original size:95 final size:95
Alignment explanation
Indices: 36190440--36190668 Score: 404
Period size: 95 Copynumber: 2.4 Consensus size: 95
36190430 AATATGGCAG
36190440 ATAATTCTATCTCCCTGGTTGGCAGTGGAATAGATTGAAAATCGAAGATGACAAATTTTACCTCC
1 ATAATTCTATCTCCCTGGTTGGCAGTGGAATAGATTGAAAATCGAAGATGACAAATTTTACCTCC
*
36190505 CTATGACTACAGTGGAGTACATTGAAGCCA
66 CTATGACTACAGTAGAGTACATTGAAGCCA
* * *
36190535 ATAATTCTTTCTCCCTGGTTGGCAGTGGAATAGATTGAAAATCGAATATGGCAAATTTTACCTCC
1 ATAATTCTATCTCCCTGGTTGGCAGTGGAATAGATTGAAAATCGAAGATGACAAATTTTACCTCC
* *
36190600 CTGTGACTACAGTAGAGTACATTGAAGCCG
66 CTATGACTACAGTAGAGTACATTGAAGCCA
36190630 ATAATTCTATCTCCCTGGTTGGCAGTGGAATAGATTGAA
1 ATAATTCTATCTCCCTGGTTGGCAGTGGAATAGATTGAA
36190669 GATTTCAGAT
Statistics
Matches: 127, Mismatches: 7, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
95 127 1.00
ACGTcount: A:0.31, C:0.18, G:0.21, T:0.30
Consensus pattern (95 bp):
ATAATTCTATCTCCCTGGTTGGCAGTGGAATAGATTGAAAATCGAAGATGACAAATTTTACCTCC
CTATGACTACAGTAGAGTACATTGAAGCCA
Found at i:36190747 original size:44 final size:44
Alignment explanation
Indices: 36190653--36190772 Score: 127
Period size: 44 Copynumber: 2.7 Consensus size: 44
36190643 CCTGGTTGGC
* * *
36190653 AGTGGAATAGATTGAAGATTTCAGATCTTATCTCCCTAAGCAGT
1 AGTGGAGTAGATTGAAGATTGCAGATCTTATCACCCTAAGCAGT
* * *
36190697 AGTGGAGTAGGTTGAAGATTGCAGAT-TCTGTCACCTTAAGCAGT
1 AGTGGAGTAGATTGAAGATTGCAGATCT-TATCACCCTAAGCAGT
* * *
36190741 AGTGGAGCAGATCGAAGATGTGGA-ATCTTATC
1 AGTGGAGTAGATTGAAGAT-TGCAGATCTTATC
36190773 TTCCCAAGGT
Statistics
Matches: 62, Mismatches: 11, Indels: 6
0.78 0.14 0.08
Matches are distributed among these distances:
43 1 0.02
44 57 0.92
45 4 0.06
ACGTcount: A:0.30, C:0.14, G:0.27, T:0.29
Consensus pattern (44 bp):
AGTGGAGTAGATTGAAGATTGCAGATCTTATCACCCTAAGCAGT
Found at i:36191094 original size:25 final size:25
Alignment explanation
Indices: 36191061--36191110 Score: 82
Period size: 25 Copynumber: 2.0 Consensus size: 25
36191051 CCCGGGCCCA
*
36191061 AACCTAAAACAAATTAAACCCAAAC
1 AACCCAAAACAAATTAAACCCAAAC
*
36191086 AACCCAAAACAAATTACACCCAAAC
1 AACCCAAAACAAATTAAACCCAAAC
36191111 CTCAACCCAC
Statistics
Matches: 23, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
25 23 1.00
ACGTcount: A:0.58, C:0.32, G:0.00, T:0.10
Consensus pattern (25 bp):
AACCCAAAACAAATTAAACCCAAAC
Found at i:36192265 original size:3 final size:3
Alignment explanation
Indices: 36192257--36192301 Score: 63
Period size: 3 Copynumber: 14.7 Consensus size: 3
36192247 ACAAATTTCA
* *
36192257 TAT TAT TAT TTT TAT TAT TAT TAT TAT TAAT TAT TAT CAT TAT TA
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT T-AT TAT TAT TAT TAT TA
36192302 GTTTTATTTG
Statistics
Matches: 37, Mismatches: 4, Indels: 2
0.86 0.09 0.05
Matches are distributed among these distances:
3 34 0.92
4 3 0.08
ACGTcount: A:0.33, C:0.02, G:0.00, T:0.64
Consensus pattern (3 bp):
TAT
Found at i:36206264 original size:37 final size:36
Alignment explanation
Indices: 36206218--36206287 Score: 88
Period size: 37 Copynumber: 1.9 Consensus size: 36
36206208 CACTTTAATG
*
36206218 TTAAATTAATA-AAATACTATTAAGATAAGTATTAAAT
1 TTAAATTAATATAAA-ACTATTAAAATAA-TATTAAAT
* *
36206255 TTAATTTAATATTAAACTATTAAAATAATATTA
1 TTAAATTAATATAAAACTATTAAAATAATATTA
36206288 TTTTTGGAAT
Statistics
Matches: 29, Mismatches: 3, Indels: 3
0.83 0.09 0.09
Matches are distributed among these distances:
36 5 0.17
37 22 0.76
38 2 0.07
ACGTcount: A:0.53, C:0.03, G:0.03, T:0.41
Consensus pattern (36 bp):
TTAAATTAATATAAAACTATTAAAATAATATTAAAT
Found at i:36213583 original size:17 final size:17
Alignment explanation
Indices: 36213542--36213575 Score: 50
Period size: 17 Copynumber: 2.0 Consensus size: 17
36213532 TTGTCTCATA
*
36213542 AAAGAGTATACCAAACC
1 AAAGAGTTTACCAAACC
*
36213559 AAACAGTTTACCAAACC
1 AAAGAGTTTACCAAACC
36213576 TTAGAGTTCG
Statistics
Matches: 15, Mismatches: 2, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
17 15 1.00
ACGTcount: A:0.50, C:0.26, G:0.09, T:0.15
Consensus pattern (17 bp):
AAAGAGTTTACCAAACC
Found at i:36218073 original size:53 final size:53
Alignment explanation
Indices: 36217916--36218074 Score: 203
Period size: 53 Copynumber: 3.0 Consensus size: 53
36217906 TTAATTTTCC
* * *
36217916 CCATATGATGCCATAACCCACCAGTTATGATCTTACACGATATGGTCTTATTT
1 CCATATGATGACATAAACCACCAGTTATGATCTTACACGATATGGTCTTCTTT
* * * *
36217969 CCATATGATGACATAAACCACTAGTTATGGTCTTACACGATTTGGTTTTCTTT
1 CCATATGATGACATAAACCACCAGTTATGATCTTACACGATATGGTCTTCTTT
* * * *
36218022 CCATATGGT-ATCATAATCCACCAGTTACGATCTTACATGATATGGTCTTCTTT
1 CCATATGATGA-CATAAACCACCAGTTATGATCTTACACGATATGGTCTTCTTT
36218075 AGTGCCATGG
Statistics
Matches: 90, Mismatches: 15, Indels: 2
0.84 0.14 0.02
Matches are distributed among these distances:
52 1 0.01
53 89 0.99
ACGTcount: A:0.27, C:0.22, G:0.14, T:0.37
Consensus pattern (53 bp):
CCATATGATGACATAAACCACCAGTTATGATCTTACACGATATGGTCTTCTTT
Found at i:36221151 original size:4 final size:4
Alignment explanation
Indices: 36221142--36221168 Score: 54
Period size: 4 Copynumber: 6.8 Consensus size: 4
36221132 TAGCTTGATG
36221142 TTTC TTTC TTTC TTTC TTTC TTTC TTT
1 TTTC TTTC TTTC TTTC TTTC TTTC TTT
36221169 TAATTTGGAC
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
4 23 1.00
ACGTcount: A:0.00, C:0.22, G:0.00, T:0.78
Consensus pattern (4 bp):
TTTC
Found at i:36223088 original size:11 final size:11
Alignment explanation
Indices: 36223072--36223113 Score: 57
Period size: 11 Copynumber: 3.6 Consensus size: 11
36223062 TGGGTGAAAT
36223072 TATTTTAATAA
1 TATTTTAATAA
*
36223083 TATTTTATTAAGA
1 TATTTTAAT-A-A
36223096 TATTTTAATAA
1 TATTTTAATAA
36223107 TATTTTA
1 TATTTTA
36223114 CTTATTTTAG
Statistics
Matches: 27, Mismatches: 2, Indels: 4
0.82 0.06 0.12
Matches are distributed among these distances:
11 16 0.59
12 2 0.07
13 9 0.33
ACGTcount: A:0.40, C:0.00, G:0.02, T:0.57
Consensus pattern (11 bp):
TATTTTAATAA
Found at i:36225332 original size:19 final size:18
Alignment explanation
Indices: 36225286--36225324 Score: 53
Period size: 18 Copynumber: 2.2 Consensus size: 18
36225276 GAGTTAAATG
* *
36225286 GTTCACATAAAATAGATA
1 GTTCGCATAAAATAGACA
36225304 GTTCGCATAAAATA-ACA
1 GTTCGCATAAAATAGACA
36225321 GTTC
1 GTTC
36225325 ATGCATAATA
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
17 6 0.32
18 13 0.68
ACGTcount: A:0.44, C:0.15, G:0.13, T:0.28
Consensus pattern (18 bp):
GTTCGCATAAAATAGACA
Found at i:36225459 original size:23 final size:23
Alignment explanation
Indices: 36225433--36225492 Score: 102
Period size: 23 Copynumber: 2.6 Consensus size: 23
36225423 AACATATAGG
**
36225433 GGACTCTATTGCCACCTATAAGT
1 GGACTCTATCACCACCTATAAGT
36225456 GGACTCTATCACCACCTATAAGT
1 GGACTCTATCACCACCTATAAGT
36225479 GGACTCTATCACCA
1 GGACTCTATCACCA
36225493 TACATTGGAT
Statistics
Matches: 35, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
23 35 1.00
ACGTcount: A:0.28, C:0.30, G:0.15, T:0.27
Consensus pattern (23 bp):
GGACTCTATCACCACCTATAAGT
Found at i:36226191 original size:18 final size:17
Alignment explanation
Indices: 36226150--36226192 Score: 50
Period size: 18 Copynumber: 2.4 Consensus size: 17
36226140 TAACACGGTT
*
36226150 CAAAATATAACACAATA
1 CAAAATATAACACAACA
*
36226167 CACAAATATAATCAGAACA
1 CA-AAATATAA-CACAACA
36226186 CAAAATA
1 CAAAATA
36226193 ACACGGTGCT
Statistics
Matches: 22, Mismatches: 2, Indels: 3
0.81 0.07 0.11
Matches are distributed among these distances:
17 2 0.09
18 13 0.59
19 7 0.32
ACGTcount: A:0.63, C:0.19, G:0.02, T:0.16
Consensus pattern (17 bp):
CAAAATATAACACAACA
Found at i:36228135 original size:13 final size:13
Alignment explanation
Indices: 36228117--36228143 Score: 54
Period size: 13 Copynumber: 2.1 Consensus size: 13
36228107 ATTAATACCA
36228117 TAATTATTTTATT
1 TAATTATTTTATT
36228130 TAATTATTTTATT
1 TAATTATTTTATT
36228143 T
1 T
36228144 TATTTTAATT
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 14 1.00
ACGTcount: A:0.30, C:0.00, G:0.00, T:0.70
Consensus pattern (13 bp):
TAATTATTTTATT
Found at i:36229146 original size:46 final size:46
Alignment explanation
Indices: 36229096--36229183 Score: 167
Period size: 46 Copynumber: 1.9 Consensus size: 46
36229086 AATAGTTGCA
36229096 TAGGAATCAAATTGCTAAAAGATAATATCTAATAATAATATCTTAT
1 TAGGAATCAAATTGCTAAAAGATAATATCTAATAATAATATCTTAT
*
36229142 TAGGAATCAATTTGCTAAAAGATAATATCTAATAATAATATC
1 TAGGAATCAAATTGCTAAAAGATAATATCTAATAATAATATC
36229184 CTAAATTCTC
Statistics
Matches: 41, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
46 41 1.00
ACGTcount: A:0.48, C:0.09, G:0.09, T:0.34
Consensus pattern (46 bp):
TAGGAATCAAATTGCTAAAAGATAATATCTAATAATAATATCTTAT
Found at i:36233893 original size:16 final size:16
Alignment explanation
Indices: 36233872--36233934 Score: 83
Period size: 16 Copynumber: 3.9 Consensus size: 16
36233862 GCAACAACTC
*
36233872 TTGTTTAGAATAGTTG
1 TTGTTTAGAATAATTG
36233888 TTGTTTAGAATAATTG
1 TTGTTTAGAATAATTG
*
36233904 TTGTTTGAGAATAACT-
1 TTGTTT-AGAATAATTG
*
36233920 ATGTTTAGAATAATT
1 TTGTTTAGAATAATT
36233935 ATGTTCAAAA
Statistics
Matches: 42, Mismatches: 4, Indels: 3
0.86 0.08 0.06
Matches are distributed among these distances:
15 8 0.19
16 26 0.62
17 8 0.19
ACGTcount: A:0.32, C:0.02, G:0.19, T:0.48
Consensus pattern (16 bp):
TTGTTTAGAATAATTG
Found at i:36234009 original size:16 final size:16
Alignment explanation
Indices: 36233988--36234042 Score: 65
Period size: 16 Copynumber: 3.4 Consensus size: 16
36233978 TAGTTGTTAT
36233988 TTGAGAACAACTCTTG
1 TTGAGAACAACTCTTG
**
36234004 TTGAGAACAACTAATG
1 TTGAGAACAACTCTTG
* *
36234020 TTTAAAACAACTCTTG
1 TTGAGAACAACTCTTG
*
36234036 TTTAGAA
1 TTGAGAA
36234043 TAATGTCATT
Statistics
Matches: 32, Mismatches: 7, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
16 32 1.00
ACGTcount: A:0.38, C:0.15, G:0.15, T:0.33
Consensus pattern (16 bp):
TTGAGAACAACTCTTG
Found at i:36236318 original size:25 final size:26
Alignment explanation
Indices: 36236262--36236318 Score: 73
Period size: 25 Copynumber: 2.2 Consensus size: 26
36236252 AAAAAAATAT
*
36236262 TTTTTTAATTATTATAAAAATATAAT
1 TTTTTTAATTATTATAAAAATATAAA
36236288 TATTTTTAATT-TT-TAAAAATATAACA
1 T-TTTTTAATTATTATAAAAATATAA-A
36236314 TTTTT
1 TTTTT
36236319 CGTAATTCTT
Statistics
Matches: 28, Mismatches: 1, Indels: 5
0.82 0.03 0.15
Matches are distributed among these distances:
25 15 0.54
26 4 0.14
27 9 0.32
ACGTcount: A:0.42, C:0.02, G:0.00, T:0.56
Consensus pattern (26 bp):
TTTTTTAATTATTATAAAAATATAAA
Found at i:36239758 original size:13 final size:13
Alignment explanation
Indices: 36239736--36239779 Score: 61
Period size: 13 Copynumber: 3.4 Consensus size: 13
36239726 TTTTTTATTA
36239736 CTTTTGAGAAGTG
1 CTTTTGAGAAGTG
* *
36239749 CTTTTCAGAAGTA
1 CTTTTGAGAAGTG
*
36239762 CTTTTGAAAAGTG
1 CTTTTGAGAAGTG
36239775 CTTTT
1 CTTTT
36239780 AAAAAATTTG
Statistics
Matches: 26, Mismatches: 5, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
13 26 1.00
ACGTcount: A:0.25, C:0.11, G:0.20, T:0.43
Consensus pattern (13 bp):
CTTTTGAGAAGTG
Found at i:36240052 original size:8 final size:8
Alignment explanation
Indices: 36240039--36240074 Score: 72
Period size: 8 Copynumber: 4.5 Consensus size: 8
36240029 TATATAAACT
36240039 ATATTTAA
1 ATATTTAA
36240047 ATATTTAA
1 ATATTTAA
36240055 ATATTTAA
1 ATATTTAA
36240063 ATATTTAA
1 ATATTTAA
36240071 ATAT
1 ATAT
36240075 AAAAATTAAA
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
8 28 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (8 bp):
ATATTTAA
Found at i:36240080 original size:16 final size:16
Alignment explanation
Indices: 36240045--36240080 Score: 54
Period size: 16 Copynumber: 2.2 Consensus size: 16
36240035 AACTATATTT
**
36240045 AAATATTTAAATATTT
1 AAATATTTAAATATAA
36240061 AAATATTTAAATATAA
1 AAATATTTAAATATAA
36240077 AAAT
1 AAAT
36240081 TAAATATTTG
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
16 18 1.00
ACGTcount: A:0.58, C:0.00, G:0.00, T:0.42
Consensus pattern (16 bp):
AAATATTTAAATATAA
Found at i:36240414 original size:22 final size:21
Alignment explanation
Indices: 36240389--36240432 Score: 70
Period size: 22 Copynumber: 2.0 Consensus size: 21
36240379 AAGCATATGA
*
36240389 AAATGATTTGGTTATATTCAAT
1 AAATGATTTGGTTA-ATACAAT
36240411 AAATGATTTGGTTAATACAAT
1 AAATGATTTGGTTAATACAAT
36240432 A
1 A
36240433 CTTATATTTG
Statistics
Matches: 21, Mismatches: 1, Indels: 1
0.91 0.04 0.04
Matches are distributed among these distances:
21 7 0.33
22 14 0.67
ACGTcount: A:0.41, C:0.05, G:0.14, T:0.41
Consensus pattern (21 bp):
AAATGATTTGGTTAATACAAT
Found at i:36240682 original size:64 final size:64
Alignment explanation
Indices: 36240604--36240734 Score: 253
Period size: 64 Copynumber: 2.0 Consensus size: 64
36240594 GCAATATACC
*
36240604 AAATTAGTGGACAGTCCACATCATTAACATTGCATACTGTTTTAAGATGAACAAGAATGGAACT
1 AAATTAGTGGACAGTCCACATCATTAACATTGCATACTATTTTAAGATGAACAAGAATGGAACT
36240668 AAATTAGTGGACAGTCCACATCATTAACATTGCATACTATTTTAAGATGAACAAGAATGGAACT
1 AAATTAGTGGACAGTCCACATCATTAACATTGCATACTATTTTAAGATGAACAAGAATGGAACT
36240732 AAA
1 AAA
36240735 GTGTCTACCG
Statistics
Matches: 66, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
64 66 1.00
ACGTcount: A:0.41, C:0.15, G:0.16, T:0.27
Consensus pattern (64 bp):
AAATTAGTGGACAGTCCACATCATTAACATTGCATACTATTTTAAGATGAACAAGAATGGAACT
Found at i:36247288 original size:37 final size:37
Alignment explanation
Indices: 36247220--36247309 Score: 125
Period size: 37 Copynumber: 2.5 Consensus size: 37
36247210 AACTATAAAG
36247220 GCCGAATGC--ACATAT-T-CACTTATACCCACCTAT
1 GCCGAATGCATACATATATACACTTATACCCACCTAT
* *
36247253 GCCGAATGCATACATATATACACTTATATCTACCTAT
1 GCCGAATGCATACATATATACACTTATACCCACCTAT
*
36247290 GCCGAATGCATACAAATATA
1 GCCGAATGCATACATATATA
36247310 TATCCATCTA
Statistics
Matches: 50, Mismatches: 3, Indels: 4
0.88 0.05 0.07
Matches are distributed among these distances:
33 9 0.18
35 6 0.12
36 1 0.02
37 34 0.68
ACGTcount: A:0.36, C:0.27, G:0.10, T:0.28
Consensus pattern (37 bp):
GCCGAATGCATACATATATACACTTATACCCACCTAT
Found at i:36247698 original size:41 final size:41
Alignment explanation
Indices: 36247522--36247690 Score: 275
Period size: 41 Copynumber: 4.1 Consensus size: 41
36247512 AATTCATCAT
* *
36247522 ATTCGGATCACCGGCACTTAGCCTGCTAGGCTTATAGCCTG
1 ATTCAGATCACCGGCACTTAGCCTGCTAGGCTTATAACCTG
*
36247563 ATTCAGATCACCGGCACTTAGCCTGCTAGGTTTATAACCTG
1 ATTCAGATCACCGGCACTTAGCCTGCTAGGCTTATAACCTG
* *
36247604 ATTCATATCACCGGCACTTAGCTTGCTAGGCTTATAACCTG
1 ATTCAGATCACCGGCACTTAGCCTGCTAGGCTTATAACCTG
* *
36247645 ATTCAGATCACCAGCACTTAGCCTGCTAGGTTTATAACCTG
1 ATTCAGATCACCGGCACTTAGCCTGCTAGGCTTATAACCTG
36247686 ATTCA
1 ATTCA
36247691 ATTCACCAAT
Statistics
Matches: 118, Mismatches: 10, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
41 118 1.00
ACGTcount: A:0.24, C:0.27, G:0.19, T:0.30
Consensus pattern (41 bp):
ATTCAGATCACCGGCACTTAGCCTGCTAGGCTTATAACCTG
Found at i:36247952 original size:15 final size:17
Alignment explanation
Indices: 36247911--36247954 Score: 65
Period size: 17 Copynumber: 2.7 Consensus size: 17
36247901 TTGTTCGATC
36247911 CACATATATATATTACA
1 CACATATATATATTACA
*
36247928 CACATATATATATT-CG
1 CACATATATATATTACA
36247944 CACAT-TATATA
1 CACATATATATA
36247955 AACACAACCA
Statistics
Matches: 26, Mismatches: 1, Indels: 2
0.90 0.03 0.07
Matches are distributed among these distances:
15 6 0.23
16 6 0.23
17 14 0.54
ACGTcount: A:0.43, C:0.18, G:0.02, T:0.36
Consensus pattern (17 bp):
CACATATATATATTACA
Found at i:36259320 original size:20 final size:20
Alignment explanation
Indices: 36259295--36259334 Score: 55
Period size: 20 Copynumber: 2.0 Consensus size: 20
36259285 TTGGGTACAC
36259295 TTTATGATTATTT-GTAATCT
1 TTTATGATT-TTTAGTAATCT
*
36259315 TTTATGGTTTTTAGTAATCT
1 TTTATGATTTTTAGTAATCT
36259335 CTCATAATTT
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
19 3 0.17
20 15 0.83
ACGTcount: A:0.23, C:0.05, G:0.12, T:0.60
Consensus pattern (20 bp):
TTTATGATTTTTAGTAATCT
Found at i:36259595 original size:20 final size:20
Alignment explanation
Indices: 36259542--36259596 Score: 65
Period size: 20 Copynumber: 2.7 Consensus size: 20
36259532 CCTCACATTG
*
36259542 TTTTGGTACTCACCTTATAAT
1 TTTTGGTACTC-TCTTATAAT
** *
36259563 TTTTTATATTCTCTTATAAT
1 TTTTGGTACTCTCTTATAAT
36259583 TTTTGGTACTCTCT
1 TTTTGGTACTCTCT
36259597 CAGGTTTTTT
Statistics
Matches: 27, Mismatches: 7, Indels: 1
0.77 0.20 0.03
Matches are distributed among these distances:
20 19 0.70
21 8 0.30
ACGTcount: A:0.20, C:0.16, G:0.07, T:0.56
Consensus pattern (20 bp):
TTTTGGTACTCTCTTATAAT
Found at i:36259647 original size:41 final size:39
Alignment explanation
Indices: 36259542--36259648 Score: 101
Period size: 41 Copynumber: 2.6 Consensus size: 39
36259532 CCTCACATTG
* *
36259542 TTTTGGTACTCACCTTATAATTTTTTATATTCTCTTATAAT
1 TTTTGGTACTC-TCTCATAATTTTTTATATTCTC-TATAAT
***
36259583 TTTTGGTACTCTCTCAGGTTTTTTTAGTACTTCATC-ATAAT
1 TTTTGGTACTCTCTCATAATTTTTTA-TA-TTC-TCTATAAT
36259624 TTTTGGTA-TCCTCTCATAATTTTTT
1 TTTTGGTACT-CTCTCATAATTTTTT
36259649 GCACTATTTC
Statistics
Matches: 54, Mismatches: 8, Indels: 8
0.77 0.11 0.11
Matches are distributed among these distances:
40 11 0.20
41 38 0.70
42 3 0.06
43 2 0.04
ACGTcount: A:0.21, C:0.16, G:0.08, T:0.55
Consensus pattern (39 bp):
TTTTGGTACTCTCTCATAATTTTTTATATTCTCTATAAT
Found at i:36259910 original size:20 final size:20
Alignment explanation
Indices: 36259885--36259923 Score: 62
Period size: 20 Copynumber: 1.9 Consensus size: 20
36259875 ATTGGAGGTC
36259885 CCTCAT-ATTTTTTGATAATT
1 CCTCATAATTTTTT-ATAATT
36259905 CCTCATAATTTTTTATAAT
1 CCTCATAATTTTTTATAAT
36259924 ATCGTATATT
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
20 11 0.61
21 7 0.39
ACGTcount: A:0.28, C:0.15, G:0.03, T:0.54
Consensus pattern (20 bp):
CCTCATAATTTTTTATAATT
Found at i:36260101 original size:21 final size:20
Alignment explanation
Indices: 36260076--36260126 Score: 57
Period size: 21 Copynumber: 2.5 Consensus size: 20
36260066 TCTTTAATGA
*
36260076 AATATTTTATTATTCAAAAAT
1 AATATTTT-TTACTCAAAAAT
*
36260097 AATATATTTTTACTCCAAAAT
1 AATAT-TTTTTACTCAAAAAT
*
36260118 TATATTTTT
1 AATATTTTT
36260127 AGTTTCAAAT
Statistics
Matches: 26, Mismatches: 3, Indels: 3
0.81 0.09 0.09
Matches are distributed among these distances:
20 4 0.15
21 19 0.73
22 3 0.12
ACGTcount: A:0.41, C:0.08, G:0.00, T:0.51
Consensus pattern (20 bp):
AATATTTTTTACTCAAAAAT
Found at i:36260527 original size:20 final size:20
Alignment explanation
Indices: 36260498--36260687 Score: 71
Period size: 20 Copynumber: 9.5 Consensus size: 20
36260488 AAGGTATACT
36260498 AAAATATATGAGGAAGTACAA
1 AAAAT-TATGAGGAAGTACAA
36260519 AAAATTATGAGGGAA-TA-AA
1 AAAATTATGA-GGAAGTACAA
36260538 AAAA--ATGAGGAAGTACTAA
1 AAAATTATGAGGAAGTAC-AA
* * *
36260557 ATATTCTATGA--AAATAACAA
1 AAAAT-TATGAGGAAGT-ACAA
** *
36260577 AAAATTACAAGGGAA-TACCA
1 AAAATTATGA-GGAAGTACAA
* *
36260597 AAAATTACGAGGAAATACCAA
1 AAAATTATGAGGAAGTA-CAA
* *
36260618 AAAA--ACTCGAAGAAGTACCA
1 AAAATTA-T-GAGGAAGTACAA
*
36260638 AAAATTTTGAGAGAA-TACTAA
1 AAAATTATGAG-GAAGTAC-AA
*
36260659 AAAA-TAT-ACGAAAGTACAA
1 AAAATTATGA-GGAAGTACAA
*
36260678 AAAACTATGA
1 AAAATTATGA
36260688 AATGATTACA
Statistics
Matches: 127, Mismatches: 19, Indels: 46
0.66 0.10 0.24
Matches are distributed among these distances:
16 4 0.03
17 6 0.05
19 27 0.21
20 49 0.39
21 35 0.28
22 6 0.05
ACGTcount: A:0.57, C:0.09, G:0.15, T:0.19
Consensus pattern (20 bp):
AAAATTATGAGGAAGTACAA
Found at i:36261015 original size:40 final size:40
Alignment explanation
Indices: 36260970--36261060 Score: 112
Period size: 40 Copynumber: 2.3 Consensus size: 40
36260960 TACCAAGAAT
* * *
36260970 TATGAGGAAGTACCGAAAAA-TACAAGAAAGTATAAAAAAA
1 TATGAGGAAATACC-AAAAATTACAAGAAAATACAAAAAAA
* *
36261010 TATGAGGAAATACCAAAAATTATAAGAAAATACCAAAAAA
1 TATGAGGAAATACCAAAAATTACAAGAAAATACAAAAAAA
*
36261050 TCTGAGGAAAT
1 TATGAGGAAAT
36261061 GCAGAGAGAG
Statistics
Matches: 44, Mismatches: 6, Indels: 2
0.85 0.12 0.04
Matches are distributed among these distances:
39 5 0.11
40 39 0.89
ACGTcount: A:0.58, C:0.09, G:0.15, T:0.18
Consensus pattern (40 bp):
TATGAGGAAATACCAAAAATTACAAGAAAATACAAAAAAA
Found at i:36261027 original size:20 final size:20
Alignment explanation
Indices: 36260958--36261060 Score: 82
Period size: 20 Copynumber: 5.2 Consensus size: 20
36260948 TTTTTGAAAT
* *
36260958 AATACCAAGAATTATGAGGA
1 AATACCAAAAAATATGAGGA
* * * *
36260978 AGTACCGAAAAATA-CAAGA
1 AATACCAAAAAATATGAGGA
**
36260997 AAGTATAAAAAAATATGAGGA
1 AA-TACCAAAAAATATGAGGA
* * *
36261018 AATACCAAAAATTATAAGAA
1 AATACCAAAAAATATGAGGA
*
36261038 AATACCAAAAAATCTGAGGA
1 AATACCAAAAAATATGAGGA
36261058 AAT
1 AAT
36261061 GCAGAGAGAG
Statistics
Matches: 60, Mismatches: 21, Indels: 4
0.71 0.25 0.05
Matches are distributed among these distances:
19 4 0.07
20 51 0.85
21 5 0.08
ACGTcount: A:0.58, C:0.10, G:0.15, T:0.17
Consensus pattern (20 bp):
AATACCAAAAAATATGAGGA
Found at i:36261143 original size:21 final size:21
Alignment explanation
Indices: 36261092--36261191 Score: 84
Period size: 20 Copynumber: 4.9 Consensus size: 21
36261082 AAACCTATGA
*
36261092 AAGTACCAAAAAAA-ATGAGG
1 AAGTATCAAAAAAATATGAGG
* *
36261112 ATGT-TCTAAAAAATATGAGG
1 AAGTATCAAAAAAATATGAGG
* *
36261132 AAGTGTC-AAAAATTATGAAGG
1 AAGTATCAAAAAAATATG-AGG
* *
36261153 AA-TACCAAAAAAATATGATG
1 AAGTATCAAAAAAATATGAGG
36261173 AAGTAT-AAAAAAATTATGA
1 AAGTATCAAAAAAA-TATGA
36261192 AAAAATTACC
Statistics
Matches: 64, Mismatches: 10, Indels: 11
0.75 0.12 0.13
Matches are distributed among these distances:
19 7 0.11
20 34 0.53
21 23 0.36
ACGTcount: A:0.55, C:0.06, G:0.17, T:0.22
Consensus pattern (21 bp):
AAGTATCAAAAAAATATGAGG
Found at i:36263447 original size:26 final size:26
Alignment explanation
Indices: 36263396--36263456 Score: 65
Period size: 26 Copynumber: 2.4 Consensus size: 26
36263386 TCCCGATTTC
*
36263396 AATTCATTTTTTGTAAATTATTTATT
1 AATTCATTTTTTGTAAATTATATATT
36263422 AATTCATTTATTT-TAAACTT-TATATT
1 AATTCATTT-TTTGTAAA-TTATATATT
*
36263448 ACTT-ATTTT
1 AATTCATTTT
36263457 AAATTGTTCT
Statistics
Matches: 31, Mismatches: 2, Indels: 6
0.79 0.05 0.15
Matches are distributed among these distances:
24 1 0.03
25 4 0.13
26 21 0.68
27 5 0.16
ACGTcount: A:0.31, C:0.07, G:0.02, T:0.61
Consensus pattern (26 bp):
AATTCATTTTTTGTAAATTATATATT
Found at i:36263454 original size:21 final size:21
Alignment explanation
Indices: 36263429--36263476 Score: 62
Period size: 21 Copynumber: 2.3 Consensus size: 21
36263419 ATTAATTCAT
36263429 TTATTTTAAACT-TTATATTA
1 TTATTTTAAACTGTTATATTA
* *
36263449 CTTATTTTAAATTGTTCTATTA
1 -TTATTTTAAACTGTTATATTA
36263471 TTATTT
1 TTATTT
36263477 ATTTAAGTTC
Statistics
Matches: 24, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
21 17 0.71
22 7 0.29
ACGTcount: A:0.29, C:0.06, G:0.02, T:0.62
Consensus pattern (21 bp):
TTATTTTAAACTGTTATATTA
Found at i:36263496 original size:24 final size:24
Alignment explanation
Indices: 36263427--36263508 Score: 73
Period size: 24 Copynumber: 3.5 Consensus size: 24
36263417 TTATTAATTC
36263427 ATTTATTTTAAA--CTT-TATATT
1 ATTTATTTTAAATTCTTCTATATT
* *
36263448 ACTTATTTTAAATTGTTCTATTATT
1 ATTTATTTTAAATTCTTCTA-TATT
*
36263473 ATTTA-TTTAAGTTCTTCATATATT
1 ATTTATTTTAAATTCTTC-TATATT
**
36263497 ATGCATTTTAAA
1 ATTTATTTTAAA
36263509 CAATATTAAA
Statistics
Matches: 47, Mismatches: 8, Indels: 8
0.75 0.13 0.13
Matches are distributed among these distances:
21 11 0.23
23 2 0.04
24 19 0.40
25 15 0.32
ACGTcount: A:0.32, C:0.07, G:0.04, T:0.57
Consensus pattern (24 bp):
ATTTATTTTAAATTCTTCTATATT
Found at i:36265577 original size:38 final size:38
Alignment explanation
Indices: 36265535--36265619 Score: 143
Period size: 38 Copynumber: 2.2 Consensus size: 38
36265525 TGTAATAGAA
36265535 CAATTCAACACTAGCAGTCAACATGCTTAACATGTATT
1 CAATTCAACACTAGCAGTCAACATGCTTAACATGTATT
* * *
36265573 CAATTCAATACTAGCTGTTAACATGCTTAACATGTATT
1 CAATTCAACACTAGCAGTCAACATGCTTAACATGTATT
36265611 CAATTCAAC
1 CAATTCAAC
36265620 GCTATGCTTA
Statistics
Matches: 43, Mismatches: 4, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
38 43 1.00
ACGTcount: A:0.36, C:0.22, G:0.09, T:0.32
Consensus pattern (38 bp):
CAATTCAACACTAGCAGTCAACATGCTTAACATGTATT
Found at i:36267255 original size:15 final size:16
Alignment explanation
Indices: 36267212--36267263 Score: 72
Period size: 15 Copynumber: 3.3 Consensus size: 16
36267202 TCCTATAATA
36267212 TCACAA-TCTATAGTTT
1 TCACAAGTCTATAG-TT
*
36267228 TCACAATTCTATAGTT
1 TCACAAGTCTATAGTT
36267244 TCA-AAGTCTATAGTT
1 TCACAAGTCTATAGTT
36267259 TCACA
1 TCACA
36267264 TATAAACAAC
Statistics
Matches: 33, Mismatches: 1, Indels: 4
0.87 0.03 0.11
Matches are distributed among these distances:
15 14 0.42
16 12 0.36
17 7 0.21
ACGTcount: A:0.33, C:0.19, G:0.08, T:0.40
Consensus pattern (16 bp):
TCACAAGTCTATAGTT
Found at i:36271071 original size:20 final size:20
Alignment explanation
Indices: 36271034--36271072 Score: 51
Period size: 20 Copynumber: 1.9 Consensus size: 20
36271024 GAAAGAATAA
***
36271034 AAAAAAGGAAATTGGGAAAG
1 AAAAAAGGAAAAAAGGAAAG
36271054 AAAAAAGGAAAAAAGGAAA
1 AAAAAAGGAAAAAAGGAAA
36271073 ACGAAAGACG
Statistics
Matches: 16, Mismatches: 3, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
20 16 1.00
ACGTcount: A:0.69, C:0.00, G:0.26, T:0.05
Consensus pattern (20 bp):
AAAAAAGGAAAAAAGGAAAG
Found at i:36271093 original size:9 final size:9
Alignment explanation
Indices: 36271079--36271114 Score: 63
Period size: 9 Copynumber: 4.0 Consensus size: 9
36271069 GAAAACGAAA
36271079 GACGACAAC
1 GACGACAAC
36271088 GACGACAAC
1 GACGACAAC
36271097 GACGACAAC
1 GACGACAAC
*
36271106 GACAACAAC
1 GACGACAAC
36271115 AACAACAACA
Statistics
Matches: 26, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
9 26 1.00
ACGTcount: A:0.47, C:0.33, G:0.19, T:0.00
Consensus pattern (9 bp):
GACGACAAC
Found at i:36271113 original size:3 final size:3
Alignment explanation
Indices: 36271101--36271140 Score: 71
Period size: 3 Copynumber: 13.3 Consensus size: 3
36271091 GACAACGACG
*
36271101 ACA ACG ACA ACA ACA ACA ACA ACA ACA ACA ACA ACA ACA A
1 ACA ACA ACA ACA ACA ACA ACA ACA ACA ACA ACA ACA ACA A
36271141 TATGGGAAAT
Statistics
Matches: 35, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
3 35 1.00
ACGTcount: A:0.65, C:0.33, G:0.03, T:0.00
Consensus pattern (3 bp):
ACA
Found at i:36286589 original size:20 final size:20
Alignment explanation
Indices: 36286564--36286602 Score: 62
Period size: 20 Copynumber: 1.9 Consensus size: 20
36286554 TGAGTTATTT
36286564 AAGTAAGCA-AGTAAGTAAAC
1 AAGTAAG-AGAGTAAGTAAAC
36286584 AAGTAAGAGAGTAAGTAAA
1 AAGTAAGAGAGTAAGTAAA
36286603 GAAGAAAGTA
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
19 1 0.06
20 17 0.94
ACGTcount: A:0.56, C:0.05, G:0.23, T:0.15
Consensus pattern (20 bp):
AAGTAAGAGAGTAAGTAAAC
Found at i:36293544 original size:31 final size:31
Alignment explanation
Indices: 36293509--36293684 Score: 237
Period size: 31 Copynumber: 5.7 Consensus size: 31
36293499 GCATATGTTT
* *
36293509 TATACATTGTCAAATTTTATTTGTATATAGA
1 TATACATTGTCGAATTTGATTTGTATATAGA
* *
36293540 TATACATTGTCGAATTTGATTTGTATATGGC
1 TATACATTGTCGAATTTGATTTGTATATAGA
* * *
36293571 TATATATTGTTGAATTTGATTTGTATATGGA
1 TATACATTGTCGAATTTGATTTGTATATAGA
*
36293602 TATTCATTGTCGAATTTGATTTGTATATAGA
1 TATACATTGTCGAATTTGATTTGTATATAGA
*
36293633 TATACATTGCCGAATTTGATTTGTATATAGA
1 TATACATTGTCGAATTTGATTTGTATATAGA
* **
36293664 TATATATTACCGAA-TTGATTT
1 TATACATTGTCGAATTTGATTT
36293685 AAGCATTGGA
Statistics
Matches: 130, Mismatches: 15, Indels: 1
0.89 0.10 0.01
Matches are distributed among these distances:
30 7 0.05
31 123 0.95
ACGTcount: A:0.31, C:0.07, G:0.15, T:0.47
Consensus pattern (31 bp):
TATACATTGTCGAATTTGATTTGTATATAGA
Found at i:36293679 original size:93 final size:92
Alignment explanation
Indices: 36293513--36293684 Score: 263
Period size: 93 Copynumber: 1.9 Consensus size: 92
36293503 ATGTTTTATA
* * * *
36293513 CATTGTCAAATTTTATTTGTATATAGATATACATTGTCGAATTTGATTTGTATATGGCTATATAT
1 CATTGTCAAATTTGATTTGTATATAGATATACATTGCCGAATTTGATTTGTATATAGATATATAT
***
36293578 TGTTGAATTTGATTTGTATATGGATATT
66 TACCGAA-TTGATTTGTATATGGATATT
*
36293606 CATTGTCGAATTTGATTTGTATATAGATATACATTGCCGAATTTGATTTGTATATAGATATATAT
1 CATTGTCAAATTTGATTTGTATATAGATATACATTGCCGAATTTGATTTGTATATAGATATATAT
36293671 TACCGAATTGATTT
66 TACCGAATTGATTT
36293685 AAGCATTGGA
Statistics
Matches: 71, Mismatches: 8, Indels: 1
0.89 0.10 0.01
Matches are distributed among these distances:
92 7 0.10
93 64 0.90
ACGTcount: A:0.30, C:0.07, G:0.16, T:0.47
Consensus pattern (92 bp):
CATTGTCAAATTTGATTTGTATATAGATATACATTGCCGAATTTGATTTGTATATAGATATATAT
TACCGAATTGATTTGTATATGGATATT
Found at i:36294132 original size:16 final size:16
Alignment explanation
Indices: 36294111--36294143 Score: 66
Period size: 16 Copynumber: 2.1 Consensus size: 16
36294101 TTATATGAGT
36294111 TAGTTAAATGTTTATG
1 TAGTTAAATGTTTATG
36294127 TAGTTAAATGTTTATG
1 TAGTTAAATGTTTATG
36294143 T
1 T
36294144 GTTTGAGATT
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:0.30, C:0.00, G:0.18, T:0.52
Consensus pattern (16 bp):
TAGTTAAATGTTTATG
Found at i:36294991 original size:19 final size:18
Alignment explanation
Indices: 36294958--36295005 Score: 51
Period size: 19 Copynumber: 2.6 Consensus size: 18
36294948 TGTTACACGT
*
36294958 AAAGTGCATACTGGCGCAC
1 AAAGTGCAT-CTGGCACAC
*
36294977 AAAGTGCATCTTGGCACAT
1 AAAGTGCATC-TGGCACAC
*
36294996 GAAGTGCATC
1 AAAGTGCATC
36295006 CTAGCACATA
Statistics
Matches: 25, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
18 1 0.04
19 24 0.96
ACGTcount: A:0.31, C:0.23, G:0.25, T:0.21
Consensus pattern (18 bp):
AAAGTGCATCTGGCACAC
Found at i:36295012 original size:19 final size:19
Alignment explanation
Indices: 36294978--36295014 Score: 56
Period size: 19 Copynumber: 1.9 Consensus size: 19
36294968 CTGGCGCACA
* *
36294978 AAGTGCATCTTGGCACATG
1 AAGTGCATCCTAGCACATG
36294997 AAGTGCATCCTAGCACAT
1 AAGTGCATCCTAGCACAT
36295015 AAGGGCATAA
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
19 16 1.00
ACGTcount: A:0.30, C:0.24, G:0.22, T:0.24
Consensus pattern (19 bp):
AAGTGCATCCTAGCACATG
Found at i:36302532 original size:16 final size:16
Alignment explanation
Indices: 36302511--36302553 Score: 50
Period size: 16 Copynumber: 2.6 Consensus size: 16
36302501 TAATTTATAT
* *
36302511 ATTTTAAATTTTTTTA
1 ATTTTAAATATATTTA
*
36302527 ATTTTATATATATTTA
1 ATTTTAAATATATTTA
36302543 ATTTTATAATA
1 ATTTTA-AATA
36302554 ATATAAATAA
Statistics
Matches: 22, Mismatches: 4, Indels: 1
0.81 0.15 0.04
Matches are distributed among these distances:
16 19 0.86
17 3 0.14
ACGTcount: A:0.37, C:0.00, G:0.00, T:0.63
Consensus pattern (16 bp):
ATTTTAAATATATTTA
Found at i:36302555 original size:27 final size:25
Alignment explanation
Indices: 36302481--36302549 Score: 83
Period size: 25 Copynumber: 2.9 Consensus size: 25
36302471 GTAAAAACTT
*
36302481 TTTTTTATATATTT--TTTTATTAA
1 TTTTATATATATTTAATTTTATTAA
*
36302504 -TTTATATAT-TTTAAATTTTTTTAA
1 TTTTATATATATTT-AATTTTATTAA
36302528 TTTTATATATATTTAATTTTAT
1 TTTTATATATATTTAATTTTAT
36302550 AATAATATAA
Statistics
Matches: 38, Mismatches: 3, Indels: 8
0.78 0.06 0.16
Matches are distributed among these distances:
21 3 0.08
22 8 0.21
24 8 0.21
25 16 0.42
26 3 0.08
ACGTcount: A:0.30, C:0.00, G:0.00, T:0.70
Consensus pattern (25 bp):
TTTTATATATATTTAATTTTATTAA
Found at i:36304060 original size:42 final size:42
Alignment explanation
Indices: 36304001--36304086 Score: 154
Period size: 42 Copynumber: 2.0 Consensus size: 42
36303991 TATCTGCATC
36304001 CGCTCTAAATTTGTAATTGATAATAATTTCAAAATCCAAATT
1 CGCTCTAAATTTGTAATTGATAATAATTTCAAAATCCAAATT
* *
36304043 CGCTCTAAATTTGTAATTGATAGTAATTTCGAAATCCAAATT
1 CGCTCTAAATTTGTAATTGATAATAATTTCAAAATCCAAATT
36304085 CG
1 CG
36304087 AATAATACTC
Statistics
Matches: 42, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
42 42 1.00
ACGTcount: A:0.37, C:0.15, G:0.10, T:0.37
Consensus pattern (42 bp):
CGCTCTAAATTTGTAATTGATAATAATTTCAAAATCCAAATT
Found at i:36313190 original size:16 final size:16
Alignment explanation
Indices: 36313171--36313215 Score: 63
Period size: 16 Copynumber: 2.8 Consensus size: 16
36313161 CCTGCATACA
*
36313171 CACTTCAATTCATATT
1 CACTTCAACTCATATT
*
36313187 CACTTTAACTCATATT
1 CACTTCAACTCATATT
*
36313203 CACTTTAACTCAT
1 CACTTCAACTCAT
36313216 TATTAATCCC
Statistics
Matches: 27, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
16 27 1.00
ACGTcount: A:0.31, C:0.27, G:0.00, T:0.42
Consensus pattern (16 bp):
CACTTCAACTCATATT
Found at i:36313455 original size:25 final size:24
Alignment explanation
Indices: 36313415--36313480 Score: 73
Period size: 25 Copynumber: 2.8 Consensus size: 24
36313405 GGCCTGGCCC
* * *
36313415 ATTTTTTGATTGAAATTAAAATTA
1 ATTTTTTTATTAAAATTAAAACTA
36313439 TATTTTTTTATTAAAATTAAAACTA
1 -ATTTTTTTATTAAAATTAAAACTA
*
36313464 A--TTGTTATTAAAATTAA
1 ATTTTTTTATTAAAATTAA
36313481 TTGTTATTAA
Statistics
Matches: 37, Mismatches: 4, Indels: 3
0.84 0.09 0.07
Matches are distributed among these distances:
22 15 0.41
24 1 0.03
25 21 0.57
ACGTcount: A:0.44, C:0.02, G:0.05, T:0.50
Consensus pattern (24 bp):
ATTTTTTTATTAAAATTAAAACTA
Found at i:36313493 original size:16 final size:16
Alignment explanation
Indices: 36313454--36313495 Score: 75
Period size: 16 Copynumber: 2.6 Consensus size: 16
36313444 TTTTATTAAA
*
36313454 ATTAAAACTAATTGTT
1 ATTAAAATTAATTGTT
36313470 ATTAAAATTAATTGTT
1 ATTAAAATTAATTGTT
36313486 ATTAAAATTA
1 ATTAAAATTA
36313496 TATCAAATTA
Statistics
Matches: 25, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
16 25 1.00
ACGTcount: A:0.48, C:0.02, G:0.05, T:0.45
Consensus pattern (16 bp):
ATTAAAATTAATTGTT
Found at i:36315637 original size:47 final size:47
Alignment explanation
Indices: 36315559--36316174 Score: 713
Period size: 47 Copynumber: 12.6 Consensus size: 47
36315549 CCCTTCGGGA
* * * * * *
36315559 CTTATCACATTTATACACTTTCACATCCATCACGTTGGCCACTCGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
* *
36315606 CCTGTCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
36315653 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
36315700 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
* *
36315747 CTTATCACATATATATACACTTTCACATTCATCACATTGGCCATTCGGC
1 CTTATCAC--ATATATACACTTTCACATTCATCACATCGGCCATTAGGC
*
36315796 CTTATCGCATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
36315843 CTTATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCAC--ATATATACACTTTCACATTCATCACATCGGCCATTAGGC
* *
36315892 CTTATCACATATATACACTTTCACATTCATCACATAC--ACTTTCA--C
1 CTTATCACATATATACACTTTCACATTCATCACAT-CGGCCATT-AGGC
* ** **
36315937 ATTCATCACATCGGCCAT-TAGGC-CTTATCACATATATACACTTTCACATTCATCACATCGGCC
1 CTT-ATCACAT-----ATATA--CACTT-TCAC--AT-T-CA---TCACA-TCGGC-CAT---TA
36316000 ATTAGGC
45 ----GGC
*
36316007 CTTATCACATATATACATTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
*
36316054 CTTACCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
* *
36316101 CTTATCTCATATATACACTTTCACATTCATCACATCGGCTATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
36316148 CTTATCACATATATACACTTTCACATT
1 CTTATCACATATATACACTTTCACATT
36316175 TATTCAAATA
Statistics
Matches: 497, Mismatches: 35, Indels: 74
0.82 0.06 0.12
Matches are distributed among these distances:
45 3 0.01
46 10 0.02
47 329 0.66
48 1 0.00
49 91 0.18
50 2 0.00
51 5 0.01
52 5 0.01
54 5 0.01
55 4 0.01
56 7 0.01
59 8 0.02
60 2 0.00
61 2 0.00
62 2 0.00
63 5 0.01
64 4 0.01
65 2 0.00
69 7 0.01
70 3 0.01
ACGTcount: A:0.29, C:0.30, G:0.08, T:0.33
Consensus pattern (47 bp):
CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
Found at i:36315930 original size:21 final size:21
Alignment explanation
Indices: 36315904--36315947 Score: 88
Period size: 21 Copynumber: 2.1 Consensus size: 21
36315894 TATCACATAT
36315904 ATACACTTTCACATTCATCAC
1 ATACACTTTCACATTCATCAC
36315925 ATACACTTTCACATTCATCAC
1 ATACACTTTCACATTCATCAC
36315946 AT
1 AT
36315948 CGGCCATTAG
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
21 23 1.00
ACGTcount: A:0.34, C:0.32, G:0.00, T:0.34
Consensus pattern (21 bp):
ATACACTTTCACATTCATCAC
Found at i:36315939 original size:164 final size:162
Alignment explanation
Indices: 36315761--36316088 Score: 593
Period size: 164 Copynumber: 2.0 Consensus size: 162
36315751 TCACATATAT
* * *
36315761 ATACACTTTCACATTCATCACATTGGCCATTCGGCCTTATCGCATATATACACTTTCACATTCAT
1 ATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATACACTTTCACATTCAT
36315826 CACATCGGCCATTAGGCCTTATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGG
66 CACATCGGCCATTAGGCCTTATCAC--ATATATACACTTTCACATTCATCACATCGGCCATTAGG
*
36315891 CCTTATCACATATATACACTTTCACATTCATCAC
129 CCTTACCACATATATACACTTTCACATTCATCAC
36315925 ATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATACACTTTCACATTCAT
1 ATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATACACTTTCACATTCAT
*
36315990 CACATCGGCCATTAGGCCTTATCACATATATACATTTTCACATTCATCACATCGGCCATTAGGCC
66 CACATCGGCCATTAGGCCTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGCC
36316055 TTACCACATATATACACTTTCACATTCATCAC
131 TTACCACATATATACACTTTCACATTCATCAC
36316087 AT
1 AT
36316089 CGGCCATTAG
Statistics
Matches: 159, Mismatches: 5, Indels: 2
0.96 0.03 0.01
Matches are distributed among these distances:
162 72 0.45
164 87 0.55
ACGTcount: A:0.30, C:0.30, G:0.08, T:0.33
Consensus pattern (162 bp):
ATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATACACTTTCACATTCAT
CACATCGGCCATTAGGCCTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGCC
TTACCACATATATACACTTTCACATTCATCAC
Found at i:36315940 original size:68 final size:68
Alignment explanation
Indices: 36315857--36315994 Score: 276
Period size: 68 Copynumber: 2.0 Consensus size: 68
36315847 TCACATATAT
36315857 ATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATACACTTTCACATTCAT
1 ATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATACACTTTCACATTCAT
36315922 CAC
66 CAC
36315925 ATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATACACTTTCACATTCAT
1 ATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATACACTTTCACATTCAT
36315990 CAC
66 CAC
36315993 AT
1 AT
36315995 CGGCCATTAG
Statistics
Matches: 70, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
68 70 1.00
ACGTcount: A:0.31, C:0.30, G:0.06, T:0.33
Consensus pattern (68 bp):
ATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATACACTTTCACATTCAT
CAC
Found at i:36316017 original size:115 final size:116
Alignment explanation
Indices: 36315808--36316041 Score: 443
Period size: 115 Copynumber: 2.0 Consensus size: 116
36315798 TATCGCATAT
36315808 ATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATATACACTTTCACATTC
1 ATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACA-ATATATACACTTTCACATTC
36315873 ATCACATCGGCCATTAGGCCTTATCACATATATACACTTTCACATTCATCAC
65 ATCACATCGGCCATTAGGCCTTATCACATATATACACTTTCACATTCATCAC
36315925 ATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCAC-ATATATACACTTTCACATTCA
1 ATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACAATATATACACTTTCACATTCA
*
36315989 TCACATCGGCCATTAGGCCTTATCACATATATACATTTTCACATTCATCAC
66 TCACATCGGCCATTAGGCCTTATCACATATATACACTTTCACATTCATCAC
36316040 AT
1 AT
36316042 CGGCCATTAG
Statistics
Matches: 116, Mismatches: 1, Indels: 2
0.97 0.01 0.02
Matches are distributed among these distances:
115 73 0.63
117 43 0.37
ACGTcount: A:0.31, C:0.29, G:0.07, T:0.33
Consensus pattern (116 bp):
ATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACAATATATACACTTTCACATTCA
TCACATCGGCCATTAGGCCTTATCACATATATACACTTTCACATTCATCAC
Found at i:36321589 original size:23 final size:23
Alignment explanation
Indices: 36321556--36321607 Score: 95
Period size: 23 Copynumber: 2.3 Consensus size: 23
36321546 ACATTTTCTT
*
36321556 CACTGATATGTAGCCGAAGCTAC
1 CACTGAAATGTAGCCGAAGCTAC
36321579 CACTGAAATGTAGCCGAAGCTAC
1 CACTGAAATGTAGCCGAAGCTAC
36321602 CACTGA
1 CACTGA
36321608 TCAATAACAC
Statistics
Matches: 28, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
23 28 1.00
ACGTcount: A:0.33, C:0.27, G:0.21, T:0.19
Consensus pattern (23 bp):
CACTGAAATGTAGCCGAAGCTAC
Found at i:36331084 original size:40 final size:40
Alignment explanation
Indices: 36331000--36331221 Score: 278
Period size: 40 Copynumber: 5.7 Consensus size: 40
36330990 TTGAATGATG
* * * *
36331000 TCCGGGCTAAGTCCCGAAGGC-TTTGTGCTAAGTGACCATA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGC-GAGTTACTAAA
* * *
36331040 TCCGGACTAAGAT-CCGAAGGCATTTGTGCGAGATACTAAT
1 TCCGGGCTAAG-TCCCGAAGGCATTTGTGCGAGTTACTAAA
36331080 TCCGGGCTAAG-CCCGAAGGCA-TTGTGCGAGTTACTAAA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAA
*
36331118 TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAA
*
36331158 TCCGGGTTAAGTCCCGAAGGCA-TT-TGCGAGTTACTATAA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTA-AA
*
36331197 -CCGGGCTATGTCCCGAAGGCATTTG
1 TCCGGGCTAAGTCCCGAAGGCATTTG
36331222 AACGAGTAGC
Statistics
Matches: 161, Mismatches: 13, Indels: 16
0.85 0.07 0.08
Matches are distributed among these distances:
38 56 0.35
39 25 0.16
40 72 0.45
41 8 0.05
ACGTcount: A:0.25, C:0.23, G:0.27, T:0.25
Consensus pattern (40 bp):
TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAA
Found at i:36331139 original size:78 final size:79
Alignment explanation
Indices: 36331000--36331221 Score: 290
Period size: 78 Copynumber: 2.8 Consensus size: 79
36330990 TTGAATGATG
* * * * * *
36331000 TCCGGGCTAAGTCCCGAAGGCTTTGTGCTAAGTGACCATATCCGGACTAAGAT-CCGAAGGCATT
1 TCCGGGCTAAGTCCCGAAGGCATTGTGC-GAGTTACTAAATCCGGGCTAAG-TCCCGAAGGCATT
*
36331064 TGTGCGAGATACTAAT
64 TGTGCGAGATACTAAA
*
36331080 TCCGGGCTAAG-CCCGAAGGCATTGTGCGAGTTACTAAATCCGGGTTAAGTCCCGAAGGCATTTG
1 TCCGGGCTAAGTCCCGAAGGCATTGTGCGAGTTACTAAATCCGGGCTAAGTCCCGAAGGCATTTG
*
36331144 TGCGAGTTACTAAA
66 TGCGAGATACTAAA
* *
36331158 TCCGGGTTAAGTCCCGAAGGCATT-TGCGAGTTACTATAA-CCGGGCTATGTCCCGAAGGCATTT
1 TCCGGGCTAAGTCCCGAAGGCATTGTGCGAGTTACTA-AATCCGGGCTAAGTCCCGAAGGCATTT
36331221 G
65 G
36331222 AACGAGTAGC
Statistics
Matches: 127, Mismatches: 12, Indels: 8
0.86 0.08 0.05
Matches are distributed among these distances:
77 1 0.01
78 86 0.68
79 29 0.23
80 11 0.09
ACGTcount: A:0.25, C:0.23, G:0.27, T:0.25
Consensus pattern (79 bp):
TCCGGGCTAAGTCCCGAAGGCATTGTGCGAGTTACTAAATCCGGGCTAAGTCCCGAAGGCATTTG
TGCGAGATACTAAA
Found at i:36331228 original size:118 final size:118
Alignment explanation
Indices: 36331000--36331254 Score: 274
Period size: 118 Copynumber: 2.2 Consensus size: 118
36330990 TTGAATGATG
* *
36331000 TCCGGGCTAAGTCCCGAAGGCTTTGTGCTAAGTGACCATATCCGGACTAAGATCCGAAGGCATTT
1 TCCGGGTTAAGTCCCGAAGGCTTTGTGCTAAGTGACCAAATCCGGACTAAGATCCGAAGGCATTT
*
36331065 GTGCGAGATACTAATTCCGGGCTAAGCCCGAAGGCATTGTGCGAGTTA-CTAAA
66 GTGCGAGATACTAATACCGGGCTAAGCCCGAAGGCATTGTGCGAG-TAGCTAAA
* * * **
36331118 TCCGGGTTAAGTCCCGAAGGCATTTGTGC-GAGTTACTAAATCCGGGTTAAG-TCCCGAAGGCA-
1 TCCGGGTTAAGTCCCGAAGGC-TTTGTGCTAAGTGACCAAATCCGGACTAAGAT-CCGAAGGCAT
* * *
36331180 TT-TGCGAGTTACT-ATAACCGGGCTATGTCCCGAAGGCATT-TGAACGAGTAGCTATA
64 TTGTGCGAGATACTAAT-ACCGGGCTAAG-CCCGAAGGCATTGTG--CGAGTAGCTAAA
* *
36331236 TCC-GGTTAAATTCCGAAGG
1 TCCGGGTTAAGTCCCGAAGG
36331255 TACGTGATTT
Statistics
Matches: 117, Mismatches: 13, Indels: 15
0.81 0.09 0.10
Matches are distributed among these distances:
115 2 0.02
116 21 0.18
117 31 0.26
118 56 0.48
119 7 0.06
ACGTcount: A:0.26, C:0.22, G:0.27, T:0.25
Consensus pattern (118 bp):
TCCGGGTTAAGTCCCGAAGGCTTTGTGCTAAGTGACCAAATCCGGACTAAGATCCGAAGGCATTT
GTGCGAGATACTAATACCGGGCTAAGCCCGAAGGCATTGTGCGAGTAGCTAAA
Found at i:36339084 original size:116 final size:118
Alignment explanation
Indices: 36338858--36339110 Score: 279
Period size: 116 Copynumber: 2.2 Consensus size: 118
36338848 TTGAATGATG
* *
36338858 TCCGGGCTAAGTCCCGAAGGCTTTGTGCTAAGTGACCATATCCGGACTAAGATCCGAAGGCATTT
1 TCCGGGTTAAGTCCCGAAGGCTTTGTGCTAAGTGACCAAATCCGGACTAAGATCCGAAGGCATTT
* **
36338923 GTGCGAGATACTAATTCCGGGCTAAGCCGAAGGCATTTGTGCGAGTTA-CTA-A
66 GTGCGAGATACTAATACCGGGCTAAGCCGAAGGCATTTGAACGAG-TAGCTATA
* * * **
36338975 TCCGGGTTAAG-CCCGAAGGCATTTGTGC-GAGTTACTAAATCCGGGTTAAG-TCCCGAAGGCA-
1 TCCGGGTTAAGTCCCGAAGGC-TTTGTGCTAAGTGACCAAATCCGGACTAAGAT-CCGAAGGCAT
* *
36339036 TTGTGCGAGTTACT-ATAACCGGGCTATGTCCGAAGGCATTTGAACGAGTAGCTATA
64 TTGTGCGAGATACTAAT-ACCGGGCTAAG-CCGAAGGCATTTGAACGAGTAGCTATA
* *
36339092 TCC-GGTTAAATTCCGAAGG
1 TCCGGGTTAAGTCCCGAAGG
36339111 TACGTGATTT
Statistics
Matches: 115, Mismatches: 14, Indels: 14
0.80 0.10 0.10
Matches are distributed among these distances:
114 2 0.02
115 25 0.22
116 60 0.52
117 28 0.24
ACGTcount: A:0.26, C:0.21, G:0.28, T:0.25
Consensus pattern (118 bp):
TCCGGGTTAAGTCCCGAAGGCTTTGTGCTAAGTGACCAAATCCGGACTAAGATCCGAAGGCATTT
GTGCGAGATACTAATACCGGGCTAAGCCGAAGGCATTTGAACGAGTAGCTATA
Found at i:36339091 original size:39 final size:38
Alignment explanation
Indices: 36338859--36339077 Score: 237
Period size: 38 Copynumber: 5.6 Consensus size: 38
36338849 TGAATGATGT
* * * *
36338859 CCGGGCTAAGTCCCGAAGGC-TTTGTGCTAAGTGACCATAT
1 CCGGGCTAAGT-CCGAAGGCATTTGTGC-GAGTTACTA-AA
* * *
36338899 CCGGACTAAGATCCGAAGGCATTTGTGCGAGATACTAATT
1 CCGGGCTAAG-TCCGAAGGCATTTGTGCGAGTTACTAA-A
*
36338939 CCGGGCTAAG-CCGAAGGCATTTGTGCGAGTTACTAAT
1 CCGGGCTAAGTCCGAAGGCATTTGTGCGAGTTACTAAA
* *
36338976 CCGGGTTAAGCCCGAAGGCATTTGTGCGAGTTACTAAA
1 CCGGGCTAAGTCCGAAGGCATTTGTGCGAGTTACTAAA
*
36339014 TCCGGGTTAAGTCCCGAAGGCA-TTGTGCGAGTTACTATAA
1 -CCGGGCTAAGT-CCGAAGGCATTTGTGCGAGTTACTA-AA
*
36339054 CCGGGCTATGTCCGAAGGCATTTG
1 CCGGGCTAAGTCCGAAGGCATTTG
36339078 AACGAGTAGC
Statistics
Matches: 159, Mismatches: 12, Indels: 17
0.85 0.06 0.09
Matches are distributed among these distances:
37 10 0.06
38 60 0.38
39 38 0.24
40 43 0.27
41 8 0.05
ACGTcount: A:0.25, C:0.22, G:0.28, T:0.25
Consensus pattern (38 bp):
CCGGGCTAAGTCCGAAGGCATTTGTGCGAGTTACTAAA
Found at i:36346887 original size:37 final size:37
Alignment explanation
Indices: 36346812--36346920 Score: 118
Period size: 37 Copynumber: 2.9 Consensus size: 37
36346802 CCGAGGCTGG
36346812 GCGAGTT-CT-AATCGGTTAAGTCCCGAAGGCATTGT
1 GCGAGTTACTAAATCGGTTAAGTCCCGAAGGCATTGT
*
36346847 GCGAGTTACTAAATCCGGTTAAG-CCCG-AGGCATTTTT
1 GCGAGTTACTAAAT-CGGTTAAGTCCCGAAGGCA-TTGT
* * *
36346884 GCGAGTTACTATAACCGGGCTATGTCCCGAAGGCATT
1 GCGAGTTACTA-AATC-GGTTAAGTCCCGAAGGCATT
36346921 TGAACGAGTA
Statistics
Matches: 62, Mismatches: 4, Indels: 12
0.79 0.05 0.15
Matches are distributed among these distances:
35 7 0.11
36 7 0.11
37 22 0.35
38 15 0.24
39 6 0.10
40 5 0.08
ACGTcount: A:0.24, C:0.22, G:0.27, T:0.28
Consensus pattern (37 bp):
GCGAGTTACTAAATCGGTTAAGTCCCGAAGGCATTGT
Found at i:36346929 original size:40 final size:37
Alignment explanation
Indices: 36346765--36346922 Score: 111
Period size: 37 Copynumber: 4.3 Consensus size: 37
36346755 CGGACTAAGA
* *
36346765 CGAAGGCATTTGTGCGAGAT-CTAATTCCGGGCTAAG-CC
1 CGAAGGCA-TT-TGCGAGTTACTAAATCC-GGCTAAGTCC
** *
36346803 CG-AGGC-TGGGCGAGTT-CT-AAT-CGGTTAAGTCC
1 CGAAGGCATTTGCGAGTTACTAAATCCGGCTAAGTCC
*
36346835 CGAAGGCATTGTGCGAGTTACTAAATCCGGTTAAG-CC
1 CGAAGGCATT-TGCGAGTTACTAAATCCGGCTAAGTCC
*
36346872 CG-AGGCATTTTTGCGAGTTACTATAA-CCGGGCTATGTCC
1 CGAAGGCA--TTTGCGAGTTACTA-AATCC-GGCTAAGTCC
36346911 CGAAGGCATTTG
1 CGAAGGCATTTG
36346923 AACGAGTAGC
Statistics
Matches: 98, Mismatches: 9, Indels: 26
0.74 0.07 0.20
Matches are distributed among these distances:
31 6 0.06
32 5 0.05
33 6 0.06
34 9 0.09
35 8 0.08
36 7 0.07
37 25 0.26
38 23 0.23
39 4 0.04
40 5 0.05
ACGTcount: A:0.23, C:0.22, G:0.29, T:0.26
Consensus pattern (37 bp):
CGAAGGCATTTGCGAGTTACTAAATCCGGCTAAGTCC
Found at i:36360710 original size:14 final size:14
Alignment explanation
Indices: 36360691--36360720 Score: 60
Period size: 14 Copynumber: 2.1 Consensus size: 14
36360681 CCTCATTCTT
36360691 ATGCCGCCCCTTGC
1 ATGCCGCCCCTTGC
36360705 ATGCCGCCCCTTGC
1 ATGCCGCCCCTTGC
36360719 AT
1 AT
36360721 CCCAAACTCA
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 16 1.00
ACGTcount: A:0.10, C:0.47, G:0.20, T:0.23
Consensus pattern (14 bp):
ATGCCGCCCCTTGC
Found at i:36373318 original size:21 final size:22
Alignment explanation
Indices: 36373289--36373339 Score: 61
Period size: 21 Copynumber: 2.4 Consensus size: 22
36373279 TCTCTCTCGC
*
36373289 TTTCCTTTTCGCCTTTTTCA-T
1 TTTCATTTTCGCCTTTTTCACT
**
36373310 TTTCATTTTCTTCTTTTTCACT
1 TTTCATTTTCGCCTTTTTCACT
36373332 TTT-ATTTT
1 TTTCATTTT
36373340 TCTCGTCTCC
Statistics
Matches: 26, Mismatches: 3, Indels: 2
0.84 0.10 0.06
Matches are distributed among these distances:
21 22 0.85
22 4 0.15
ACGTcount: A:0.08, C:0.22, G:0.02, T:0.69
Consensus pattern (22 bp):
TTTCATTTTCGCCTTTTTCACT
Found at i:36379075 original size:17 final size:17
Alignment explanation
Indices: 36379053--36379098 Score: 74
Period size: 17 Copynumber: 2.7 Consensus size: 17
36379043 CGTGTGGCCA
*
36379053 GGCCATGTGACATACAC
1 GGCCATGTGACACACAC
36379070 GGCCATGTGACACACAC
1 GGCCATGTGACACACAC
*
36379087 GACCATGTGACA
1 GGCCATGTGACA
36379099 GCCCATCTGC
Statistics
Matches: 27, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
17 27 1.00
ACGTcount: A:0.30, C:0.30, G:0.24, T:0.15
Consensus pattern (17 bp):
GGCCATGTGACACACAC
Found at i:36382508 original size:52 final size:53
Alignment explanation
Indices: 36382404--36382508 Score: 140
Period size: 52 Copynumber: 2.0 Consensus size: 53
36382394 CAATTAAGAA
** * * *
36382404 GTCTGACTTAATAACATGCATTGATGTTGTCTGAACTAGAGCATAGTTAATAG
1 GTCTGACTTAATAACATGCATTGATGTTGTCCAAACTAGAACATAATGAATAG
* *
36382457 GTCTGACTTAA-AGCATGCATTGATGTTGTCCAAATTAGAACATAATGAATAG
1 GTCTGACTTAATAACATGCATTGATGTTGTCCAAACTAGAACATAATGAATAG
36382509 ACATAAATCA
Statistics
Matches: 45, Mismatches: 7, Indels: 1
0.85 0.13 0.02
Matches are distributed among these distances:
52 34 0.76
53 11 0.24
ACGTcount: A:0.34, C:0.13, G:0.20, T:0.32
Consensus pattern (53 bp):
GTCTGACTTAATAACATGCATTGATGTTGTCCAAACTAGAACATAATGAATAG
Found at i:36388442 original size:32 final size:32
Alignment explanation
Indices: 36388405--36388466 Score: 115
Period size: 32 Copynumber: 1.9 Consensus size: 32
36388395 GAAGTGAAGA
36388405 AATGAATGGGTTTGAGATGTATTTGAAGTGGG
1 AATGAATGGGTTTGAGATGTATTTGAAGTGGG
*
36388437 AATGAATGGGTTTGAGATGTGTTTGAAGTG
1 AATGAATGGGTTTGAGATGTATTTGAAGTG
36388467 AGTAGCCAAG
Statistics
Matches: 29, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
32 29 1.00
ACGTcount: A:0.27, C:0.00, G:0.37, T:0.35
Consensus pattern (32 bp):
AATGAATGGGTTTGAGATGTATTTGAAGTGGG
Found at i:36391544 original size:42 final size:42
Alignment explanation
Indices: 36391461--36391550 Score: 110
Period size: 42 Copynumber: 2.1 Consensus size: 42
36391451 CGTCATGTGC
***
36391461 CAGACCGTGTAACTCACTGACTTGGTACACATGGTTGTGTCT
1 CAGACCGTGTAACTCACTGACTTGGTACACATGGCCATGTCT
* *
36391503 CAGACCGTGTAATTCATTGACTTGGTACACA-GAGCCATGTCT
1 CAGACCGTGTAACTCACTGACTTGGTACACATG-GCCATGTCT
*
36391545 TAGACC
1 CAGACC
36391551 CTGTGCTAGA
Statistics
Matches: 41, Mismatches: 6, Indels: 2
0.84 0.12 0.04
Matches are distributed among these distances:
41 1 0.02
42 40 0.98
ACGTcount: A:0.24, C:0.24, G:0.22, T:0.29
Consensus pattern (42 bp):
CAGACCGTGTAACTCACTGACTTGGTACACATGGCCATGTCT
Found at i:36393172 original size:21 final size:20
Alignment explanation
Indices: 36393143--36393188 Score: 51
Period size: 21 Copynumber: 2.3 Consensus size: 20
36393133 CGAAATGCAA
36393143 TCAACCTAACA-TGAATTAAAT
1 TCAACCTAA-ATTG-ATTAAAT
*
36393164 TCAAGCTAAATTGATTAAAT
1 TCAACCTAAATTGATTAAAT
36393184 T-AACC
1 TCAACC
36393189 ATTCCAACAA
Statistics
Matches: 22, Mismatches: 2, Indels: 4
0.79 0.07 0.14
Matches are distributed among these distances:
19 3 0.14
20 9 0.41
21 10 0.45
ACGTcount: A:0.46, C:0.17, G:0.07, T:0.30
Consensus pattern (20 bp):
TCAACCTAAATTGATTAAAT
Found at i:36400525 original size:27 final size:27
Alignment explanation
Indices: 36400495--36400548 Score: 81
Period size: 27 Copynumber: 2.0 Consensus size: 27
36400485 AATTTTCACG
*
36400495 AAAAACAACAAATATTAAACAACAAAA
1 AAAAACAACAAACATTAAACAACAAAA
* *
36400522 AAAACCAATAAACATTAAACAACAAAA
1 AAAAACAACAAACATTAAACAACAAAA
36400549 GCAAAAAAAG
Statistics
Matches: 24, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
27 24 1.00
ACGTcount: A:0.72, C:0.17, G:0.00, T:0.11
Consensus pattern (27 bp):
AAAAACAACAAACATTAAACAACAAAA
Found at i:36400780 original size:13 final size:13
Alignment explanation
Indices: 36400762--36400827 Score: 80
Period size: 13 Copynumber: 5.1 Consensus size: 13
36400752 ACTTCTTCAT
36400762 TGCTTTTGAAAAG
1 TGCTTTTGAAAAG
*
36400775 TGCTTTTGAAATG
1 TGCTTTTGAAAAG
*
36400788 TG-TTGTGGAAAAG
1 TGCTT-TTGAAAAG
* *
36400801 TGCTTTTGAGAAC
1 TGCTTTTGAAAAG
36400814 TGCTTTTGAAAAG
1 TGCTTTTGAAAAG
36400827 T
1 T
36400828 TTGGTTTAAA
Statistics
Matches: 43, Mismatches: 8, Indels: 4
0.78 0.15 0.07
Matches are distributed among these distances:
12 2 0.05
13 39 0.91
14 2 0.05
ACGTcount: A:0.27, C:0.08, G:0.26, T:0.39
Consensus pattern (13 bp):
TGCTTTTGAAAAG
Found at i:36406637 original size:80 final size:79
Alignment explanation
Indices: 36406500--36406724 Score: 256
Period size: 80 Copynumber: 2.8 Consensus size: 79
36406490 TTGAATGCTG
* * * * * *
36406500 TCCGGGCTAAGTCCCGAAGGCTTTGTGCTAAGTGAATATATCCGGACTAAGAT-CCGAAGGCATT
1 TCCGGGTTAAGTCCCGAAGGCTTTGTGCGAGGT-ACTAAATCCGGGCTAAG-TCCCGAAGGCATT
36406564 TGTGCGAGATA-CAAA
64 TGTGCGAGATATCAAA
* *
36406579 TTCCGGGTTAAGCCCCGAAGGCCTTTGTGCGAGGTACTAAATCCGGGTTAAGTCCCGAAGGCATT
1 -TCCGGGTTAAGTCCCGAAGG-CTTTGTGCGAGGTACTAAATCCGGGCTAAGTCCCGAAGGCATT
* * *
36406644 CGTGCGAGTTATTAAA
64 TGTGCGAGATATCAAA
* * * * *
36406660 TCCGGGTTAAGTCCCGAAGGCATTGTGTGAGTTACTAAAACCGGGCTATGTCCCGAAGGCATTTG
1 TCCGGGTTAAGTCCCGAAGGCTTTGTGCGAGGTACTAAATCCGGGCTAAGTCCCGAAGGCATTTG
36406725 AACGAGGAGC
Statistics
Matches: 123, Mismatches: 19, Indels: 7
0.83 0.13 0.05
Matches are distributed among these distances:
79 39 0.32
80 70 0.57
81 14 0.11
ACGTcount: A:0.25, C:0.21, G:0.28, T:0.25
Consensus pattern (79 bp):
TCCGGGTTAAGTCCCGAAGGCTTTGTGCGAGGTACTAAATCCGGGCTAAGTCCCGAAGGCATTTG
TGCGAGATATCAAA
Found at i:36406704 original size:39 final size:39
Alignment explanation
Indices: 36406500--36406722 Score: 225
Period size: 40 Copynumber: 5.6 Consensus size: 39
36406490 TTGAATGCTG
* * * * * *
36406500 TCCGGGCTAAGTCCCGAAGGCTTTGTGCTAAGTGAATATA
1 TCCGGGTTAAGTCCCGAAGGCATTGTGC-GAGTTACTAAA
** *
36406540 TCCGGACTAAGAT-CCGAAGGCATTTGTGCGAGATAC-AAA
1 TCCGGGTTAAG-TCCCGAAGGCA-TTGTGCGAGTTACTAAA
* * *
36406579 TTCCGGGTTAAGCCCCGAAGGCCTTTGTGCGAGGTACTAAA
1 -TCCGGGTTAAGTCCCGAAGG-CATTGTGCGAGTTACTAAA
*
36406620 TCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTATTAAA
1 TCCGGGTTAAGTCCCGAAGGCATT-GTGCGAGTTACTAAA
*
36406660 TCCGGGTTAAGTCCCGAAGGCATTGTGTGAGTTACTAAA
1 TCCGGGTTAAGTCCCGAAGGCATTGTGCGAGTTACTAAA
* * *
36406699 ACCGGGCTATGTCCCGAAGGCATT
1 TCCGGGTTAAGTCCCGAAGGCATT
36406723 TGAACGAGGA
Statistics
Matches: 155, Mismatches: 21, Indels: 15
0.81 0.11 0.08
Matches are distributed among these distances:
39 39 0.25
40 105 0.68
41 11 0.07
ACGTcount: A:0.26, C:0.22, G:0.28, T:0.25
Consensus pattern (39 bp):
TCCGGGTTAAGTCCCGAAGGCATTGTGCGAGTTACTAAA
Found at i:36406742 original size:79 final size:80
Alignment explanation
Indices: 36406580--36406757 Score: 200
Period size: 79 Copynumber: 2.2 Consensus size: 80
36406570 AGATACAAAT
* * * *
36406580 TCCGGGTTAAGCCCCGAAGGCCTTTGTGCGAGGTACTAAATCCGGGTTAAGTCCCGAAGGCATTC
1 TCCGGGTTAAGTCCCGAAGGCCATTGTGCGAGGTACTAAAACCGGGCTAAGTCCCGAAGGCATTC
** * *
36406645 GTGCGAGTTATTAAA
66 GAACGAGTGACTAAA
* * * *
36406660 TCCGGGTTAAGTCCCGAAGG-CATTGTGTGAGTTACTAAAACCGGGCTATGTCCCGAAGGCATTT
1 TCCGGGTTAAGTCCCGAAGGCCATTGTGCGAGGTACTAAAACCGGGCTAAGTCCCGAAGGCATTC
*
36406724 GAACGAG-GAGCTATA
66 GAACGAGTGA-CTAAA
*
36406739 TCC-GGTTAAATCCCGAAGG
1 TCCGGGTTAAGTCCCGAAGG
36406758 TACGTGATTT
Statistics
Matches: 83, Mismatches: 14, Indels: 4
0.82 0.14 0.04
Matches are distributed among these distances:
78 16 0.19
79 48 0.58
80 19 0.23
ACGTcount: A:0.25, C:0.22, G:0.29, T:0.24
Consensus pattern (80 bp):
TCCGGGTTAAGTCCCGAAGGCCATTGTGCGAGGTACTAAAACCGGGCTAAGTCCCGAAGGCATTC
GAACGAGTGACTAAA
Found at i:36413690 original size:17 final size:16
Alignment explanation
Indices: 36413640--36413690 Score: 52
Period size: 17 Copynumber: 3.1 Consensus size: 16
36413630 CACTATTCTG
36413640 TAATATAAAATTATGGAA
1 TAATATAAAATTAT--AA
36413658 TAAT-TAAAA-TATTAA
1 TAATATAAAATTA-TAA
36413673 TAATTATAAAATTATAA
1 TAA-TATAAAATTATAA
36413690 T
1 T
36413691 CTCATTTCAT
Statistics
Matches: 29, Mismatches: 0, Indels: 9
0.76 0.00 0.24
Matches are distributed among these distances:
15 5 0.17
16 3 0.10
17 15 0.52
18 6 0.21
ACGTcount: A:0.57, C:0.00, G:0.04, T:0.39
Consensus pattern (16 bp):
TAATATAAAATTATAA
Found at i:36414656 original size:17 final size:18
Alignment explanation
Indices: 36414626--36414663 Score: 60
Period size: 17 Copynumber: 2.2 Consensus size: 18
36414616 AAAAAATCTA
36414626 AAAAATTAAGAATTTTTT
1 AAAAATTAAGAATTTTTT
*
36414644 AAAAATT-ATAATTTTTT
1 AAAAATTAAGAATTTTTT
36414661 AAA
1 AAA
36414664 CTATACAAAT
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
17 12 0.63
18 7 0.37
ACGTcount: A:0.53, C:0.00, G:0.03, T:0.45
Consensus pattern (18 bp):
AAAAATTAAGAATTTTTT
Done.