Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: A08
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: 123748673
ACGTcount: A:0.31, C:0.17, G:0.17, T:0.31
Warning! 5630000 characters in sequence are not A, C, G, or T
File 209 of 373
Found at i:71004655 original size:12 final size:12
Alignment explanation
Indices: 71004620--71004656 Score: 56
Period size: 12 Copynumber: 3.0 Consensus size: 12
71004610 AAAAATATAT
71004620 AATGTATAATAA
1 AATGTATAATAA
*
71004632 AATTTATAAATAA
1 AATGTAT-AATAA
71004645 AATGTATAATAA
1 AATGTATAATAA
71004657 TAAAAATAAT
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
12 11 0.50
13 11 0.50
ACGTcount: A:0.59, C:0.00, G:0.05, T:0.35
Consensus pattern (12 bp):
AATGTATAATAA
Found at i:71004665 original size:25 final size:24
Alignment explanation
Indices: 71004612--71004679 Score: 59
Period size: 25 Copynumber: 2.8 Consensus size: 24
71004602 ATATAGTAAA
*
71004612 AAAT-ATATAATGTATAATAAAAT
1 AAATAATAAAATGTATAATAAAAT
**
71004635 TTATAAATAAAATGTATAATAATAA-
1 AAAT-AATAAAATGTATAATAA-AAT
* *
71004660 AAATAATATAATGGATAATA
1 AAATAATAAAATGTATAATA
71004680 TGTAAATAAA
Statistics
Matches: 35, Mismatches: 7, Indels: 5
0.74 0.15 0.11
Matches are distributed among these distances:
23 2 0.06
24 14 0.40
25 17 0.49
26 2 0.06
ACGTcount: A:0.60, C:0.00, G:0.06, T:0.34
Consensus pattern (24 bp):
AAATAATAAAATGTATAATAAAAT
Found at i:71006272 original size:44 final size:44
Alignment explanation
Indices: 71006219--71006377 Score: 264
Period size: 44 Copynumber: 3.6 Consensus size: 44
71006209 ACTCAGGAAC
* *
71006219 GCCAGATCTGTTATCTTCGATCTGCTCTCTGACAATACAGAGAT
1 GCCAAATCTGCTATCTTCGATCTGCTCTCTGACAATACAGAGAT
* * *
71006263 GCCAAATCTGCTATCTTCGATCTACCCTCTGACAATACCGAGAT
1 GCCAAATCTGCTATCTTCGATCTGCTCTCTGACAATACAGAGAT
*
71006307 GCCAAATCTGCTATCTTCGATCTGCTCTCTGACAATACAGAGAC
1 GCCAAATCTGCTATCTTCGATCTGCTCTCTGACAATACAGAGAT
71006351 GCCAAATCTGCTATCTTCGATCTGCTC
1 GCCAAATCTGCTATCTTCGATCTGCTC
71006378 CTTGTAAACG
Statistics
Matches: 106, Mismatches: 9, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
44 106 1.00
ACGTcount: A:0.25, C:0.30, G:0.16, T:0.30
Consensus pattern (44 bp):
GCCAAATCTGCTATCTTCGATCTGCTCTCTGACAATACAGAGAT
Found at i:71006396 original size:88 final size:86
Alignment explanation
Indices: 71006184--71006402 Score: 271
Period size: 88 Copynumber: 2.5 Consensus size: 86
71006174 TGTCAAATTG
* * * * * *
71006184 GCTATCTTCAACCTGCTTCTTGCAAACTCAGGAACGCCAGATCTGTTATCTTCGATCTGCTCTCT
1 GCTATCTTCGATCTGCTCCTTGCAAAC-CAGG-ATGCCAAATCTGCTATCTTCGATCTGCTCTCT
*
71006249 GACAATACAGAGATGCCAAATCT
64 GACAATACAGAGACGCCAAATCT
*
71006272 GCTATCTTCGATCTAC-CCTCTGACAATACC-GAGATGCCAAATCTGCTATCTTCGATCTGCTCT
1 GCTATCTTCGATCTGCTCCT-TG-CAA-ACCAG-GATGCCAAATCTGCTATCTTCGATCTGCTCT
71006335 CTGACAATACAGAGACGCCAAATCT
62 CTGACAATACAGAGACGCCAAATCT
*
71006360 GCTATCTTCGATCTGCTCCTTGTAAACGCAAGGATGCCAAATC
1 GCTATCTTCGATCTGCTCCTTGCAAAC-C-AGGATGCCAAATC
71006403 ATCTTGGATC
Statistics
Matches: 113, Mismatches: 10, Indels: 16
0.81 0.07 0.12
Matches are distributed among these distances:
86 2 0.02
87 5 0.04
88 95 0.84
89 9 0.08
90 2 0.02
ACGTcount: A:0.26, C:0.29, G:0.16, T:0.28
Consensus pattern (86 bp):
GCTATCTTCGATCTGCTCCTTGCAAACCAGGATGCCAAATCTGCTATCTTCGATCTGCTCTCTGA
CAATACAGAGACGCCAAATCT
Found at i:71006399 original size:44 final size:42
Alignment explanation
Indices: 71006184--71006402 Score: 162
Period size: 44 Copynumber: 5.0 Consensus size: 42
71006174 TGTCAAATTG
* * * * *
71006184 GCTATCTTCAACCTGCTTCT-TGCAAACTCAGGAACGCCAGATCT
1 GCTATCTTCGATCTGCTCCTCTG-AAAC-CAGG-ATGCCAAATCT
* *
71006228 GTTATCTTCGATCTGCT-CTCTGACAATACAGAGATGCCAAATCT
1 GCTATCTTCGATCTGCTCCTCTGA-AA-CCAG-GATGCCAAATCT
*
71006272 GCTATCTTCGATCTAC-CCTCTGACAATACC-GAGATGCCAAATCT
1 GCTATCTTCGATCTGCTCCTCTG--AA-ACCAG-GATGCCAAATCT
* *
71006316 GCTATCTTCGATCTGCT-CTCTGACAATACAGAGACGCCAAATCT
1 GCTATCTTCGATCTGCTCCTCTGA-AA-CCAG-GATGCCAAATCT
71006360 GCTATCTTCGATCTGCTCCT-TGTAAACGCAAGGATGCCAAATC
1 GCTATCTTCGATCTGCTCCTCTG-AAAC-C-AGGATGCCAAATC
71006403 ATCTTGGATC
Statistics
Matches: 145, Mismatches: 14, Indels: 32
0.76 0.07 0.17
Matches are distributed among these distances:
42 2 0.01
43 5 0.03
44 128 0.88
45 8 0.06
46 2 0.01
ACGTcount: A:0.26, C:0.29, G:0.16, T:0.28
Consensus pattern (42 bp):
GCTATCTTCGATCTGCTCCTCTGAAACCAGGATGCCAAATCT
Found at i:71006619 original size:220 final size:220
Alignment explanation
Indices: 71006232--71007023 Score: 1100
Period size: 220 Copynumber: 3.6 Consensus size: 220
71006222 AGATCTGTTA
* * * * * ***
71006232 TCTTCGATCTGCTCTCTGAC-AATACAGAGATGCCAAATCTGCTATCTTCGATCTACCCTCTGAC
1 TCTTCGATCTGCTCTCCGTCGAATATAGAGATGCCAAATCTG-TTTCTTCGATTTGTTCTCTGAC
** * * * *
71006296 AATACCGAGATGCCAAATCTGCTATCTTCGATCTGCTCTCTGAC--AATACA-GAG-ACGCCAAA
65 AATATAGAGATGCCAAA--T-C-ATCTTAGATCTGCT-TCAG-CGTAA-ACACGTGAAAGCCAAA
*
71006357 TCTGCTA--TCTTCGATCTGCTCCTTGTAAACGCAAGGATGCCAAATCATCTTGGATCTGCTTCG
123 TCTGCTATGTCTTCGATCTGCTCCTTGTAAACGCAAGGATGCCAAATCATCTTGGATCTACTTCG
** *
71006420 ATGCAAAAACATCCAAAAGTTAGATCTGCTATG
188 ATGTGAAAACATCCAAAGGTTAGATCTGCTATG
*
71006453 TCTTCGATCTGCTCTCCG-CTGAATATGGAGATGCCAAATCTGTTTCTTCGATTTGTTCTCTGAC
1 TCTTCGATCTGCTCTCCGTC-GAATATAGAGATGCCAAATCTGTTTCTTCGATTTGTTCTCTGAC
*
71006517 AATATAGAGATGTCAAATCATCTTAGATCTGCTTCAGCGTAAACACGTGAAAGCCAAATCTGCTA
65 AATATAGAGATGCCAAATCATCTTAGATCTGCTTCAGCGTAAACACGTGAAAGCCAAATCTGCTA
*
71006582 TGTCTTCGATTTGCTCCTTGTAAACGCAAGGATGCCAAATCATCTTGGATCTACTTCGATGTGAA
130 TGTCTTCGATCTGCTCCTTGTAAACGCAAGGATGCCAAATCATCTTGGATCTACTTCGATGTGAA
**
71006647 AACATCTGAAGGTTAGATCTGCTATG
195 AACATCCAAAGGTTAGATCTGCTATG
*
71006673 TCTTTGATCTGCTCTCCGTCGAATATAGAGATGCCAAATCTGTTTCTTCGATTTGTTCTCTGACA
1 TCTTCGATCTGCTCTCCGTCGAATATAGAGATGCCAAATCTGTTTCTTCGATTTGTTCTCTGACA
*
71006738 ATATAGAGATGCCAAATCATCTTAGATCTGCTTCAGCGTAAACACGTGAAAGCCAAATCTGTTAT
66 ATATAGAGATGCCAAATCATCTTAGATCTGCTTCAGCGTAAACACGTGAAAGCCAAATCTGCTAT
* * *
71006803 GTCTTTGATCTACTCCTTGTAAACGCAAGGATGCCAAATCATCTTGAATCTACTTCGATGTGAAA
131 GTCTTCGATCTGCTCCTTGTAAACGCAAGGATGCCAAATCATCTTGGATCTACTTCGATGTGAAA
71006868 ACA-CTCAAAGGTTAGATCTGCTATG
196 ACATC-CAAAGGTTAGATCTGCTATG
71006893 TCTTCGATCTGCTCTCCGTCGAATATAGAGATGCCAAATCTGTTTCTTCGATTTGTTCTCTGACA
1 TCTTCGATCTGCTCTCCGTCGAATATAGAGATGCCAAATCTGTTTCTTCGATTTGTTCTCTGACA
* * * * * * *
71006958 ATACATAGACGCCAAATCATCTT-GTATCTGCTTCAGCGTAAACACCTGAAGGTCAGATCTGCTA
66 ATATAGAGATGCCAAATCATCTTAG-ATCTGCTTCAGCGTAAACACGTGAAAGCCAAATCTGCTA
71007022 TG
130 TG
71007024 CTTTAGCCTG
Statistics
Matches: 519, Mismatches: 41, Indels: 23
0.89 0.07 0.04
Matches are distributed among these distances:
215 1 0.00
216 6 0.01
217 17 0.03
218 15 0.03
219 3 0.01
220 409 0.79
221 49 0.09
222 19 0.04
ACGTcount: A:0.27, C:0.23, G:0.18, T:0.32
Consensus pattern (220 bp):
TCTTCGATCTGCTCTCCGTCGAATATAGAGATGCCAAATCTGTTTCTTCGATTTGTTCTCTGACA
ATATAGAGATGCCAAATCATCTTAGATCTGCTTCAGCGTAAACACGTGAAAGCCAAATCTGCTAT
GTCTTCGATCTGCTCCTTGTAAACGCAAGGATGCCAAATCATCTTGGATCTACTTCGATGTGAAA
ACATCCAAAGGTTAGATCTGCTATG
Found at i:71019153 original size:17 final size:16
Alignment explanation
Indices: 71019133--71019179 Score: 55
Period size: 15 Copynumber: 3.1 Consensus size: 16
71019123 ATAAGGAGTA
71019133 ATATATAATAAAATAT
1 ATATATAATAAAATAT
*
71019149 GATATGTAAT--AATAT
1 -ATATATAATAAAATAT
71019164 ATATA-AATAAAATAT
1 ATATATAATAAAATAT
71019179 A
1 A
71019180 ATGAAATATA
Statistics
Matches: 26, Mismatches: 2, Indels: 6
0.76 0.06 0.18
Matches are distributed among these distances:
13 3 0.12
14 4 0.15
15 11 0.42
17 8 0.31
ACGTcount: A:0.60, C:0.00, G:0.04, T:0.36
Consensus pattern (16 bp):
ATATATAATAAAATAT
Found at i:71019296 original size:21 final size:21
Alignment explanation
Indices: 71019268--71019317 Score: 59
Period size: 21 Copynumber: 2.4 Consensus size: 21
71019258 AATTAATGAA
* *
71019268 TAAAAAAATAAT-ACATAATT
1 TAAAAAAATAATAAAAGAATT
71019288 TATAAAAAA-AATAAAAGAATT
1 TA-AAAAAATAATAAAAGAATT
71019309 TAAAAAAAT
1 TAAAAAAAT
71019318 GCAAGGAATA
Statistics
Matches: 25, Mismatches: 2, Indels: 5
0.78 0.06 0.16
Matches are distributed among these distances:
20 11 0.44
21 14 0.56
ACGTcount: A:0.70, C:0.02, G:0.02, T:0.26
Consensus pattern (21 bp):
TAAAAAAATAATAAAAGAATT
Found at i:71019314 original size:20 final size:23
Alignment explanation
Indices: 71019269--71019316 Score: 66
Period size: 23 Copynumber: 2.2 Consensus size: 23
71019259 ATTAATGAAT
*
71019269 AAAAAAATAATACATAATTTATA
1 AAAAAAATAATACAGAATTTATA
71019292 AAAAAAATAA-A-AGAATTTA-A
1 AAAAAAATAATACAGAATTTATA
71019312 AAAAA
1 AAAAA
71019317 TGCAAGGAAT
Statistics
Matches: 24, Mismatches: 1, Indels: 3
0.86 0.04 0.11
Matches are distributed among these distances:
20 6 0.25
21 7 0.29
22 1 0.04
23 10 0.42
ACGTcount: A:0.73, C:0.02, G:0.02, T:0.23
Consensus pattern (23 bp):
AAAAAAATAATACAGAATTTATA
Found at i:71019368 original size:12 final size:12
Alignment explanation
Indices: 71019344--71019385 Score: 57
Period size: 12 Copynumber: 3.4 Consensus size: 12
71019334 ATAGTAAAAC
*
71019344 AATATAATGTAT
1 AATAAAATGTAT
*
71019356 AATAAAATTTAT
1 AATAAAATGTAT
71019368 AAATAAAATGTAT
1 -AATAAAATGTAT
71019381 AATAA
1 AATAA
71019386 TAAAAATAAT
Statistics
Matches: 26, Mismatches: 3, Indels: 2
0.84 0.10 0.06
Matches are distributed among these distances:
12 15 0.58
13 11 0.42
ACGTcount: A:0.60, C:0.00, G:0.05, T:0.36
Consensus pattern (12 bp):
AATAAAATGTAT
Found at i:71019374 original size:13 final size:13
Alignment explanation
Indices: 71019344--71019382 Score: 53
Period size: 13 Copynumber: 3.1 Consensus size: 13
71019334 ATAGTAAAAC
*
71019344 AATATAATGTAT-
1 AATAAAATGTATA
*
71019356 AATAAAATTTATA
1 AATAAAATGTATA
71019369 AATAAAATGTATA
1 AATAAAATGTATA
71019382 A
1 A
71019383 TAATAAAAAT
Statistics
Matches: 23, Mismatches: 3, Indels: 1
0.85 0.11 0.04
Matches are distributed among these distances:
12 10 0.43
13 13 0.57
ACGTcount: A:0.59, C:0.00, G:0.05, T:0.36
Consensus pattern (13 bp):
AATAAAATGTATA
Found at i:71019394 original size:25 final size:24
Alignment explanation
Indices: 71019344--71019408 Score: 69
Period size: 25 Copynumber: 2.7 Consensus size: 24
71019334 ATAGTAAAAC
**
71019344 AATATAATGTATAATAAAATTTAT
1 AATATAATGTATAATAAAATAAAT
*
71019368 AAATAAAATGTATAATAATAA-AAAT
1 -AATATAATGTATAATAA-AATAAAT
*
71019393 AATATAATGGATAATA
1 AATATAATGTATAATA
71019409 TGTAAATAAA
Statistics
Matches: 34, Mismatches: 5, Indels: 3
0.81 0.12 0.07
Matches are distributed among these distances:
24 14 0.41
25 18 0.53
26 2 0.06
ACGTcount: A:0.60, C:0.00, G:0.06, T:0.34
Consensus pattern (24 bp):
AATATAATGTATAATAAAATAAAT
Found at i:71019486 original size:36 final size:35
Alignment explanation
Indices: 71019404--71019489 Score: 147
Period size: 35 Copynumber: 2.5 Consensus size: 35
71019394 ATATAATGGA
*
71019404 TAATATGT-AAATAAAAAAAACTATTTTATACAAC
1 TAATATTTAAAATAAAAAAAACTATTTTATACAAC
71019438 TAATATTTAAAATAAAAAAAACTATTTTATACAAC
1 TAATATTTAAAATAAAAAAAACTATTTTATACAAC
71019473 TAATATTTAAAAATAAA
1 TAATATTT-AAAATAAA
71019490 TAATATATAA
Statistics
Matches: 49, Mismatches: 1, Indels: 2
0.94 0.02 0.04
Matches are distributed among these distances:
34 7 0.14
35 34 0.69
36 8 0.16
ACGTcount: A:0.58, C:0.07, G:0.01, T:0.34
Consensus pattern (35 bp):
TAATATTTAAAATAAAAAAAACTATTTTATACAAC
Found at i:71021338 original size:43 final size:43
Alignment explanation
Indices: 71021252--71021338 Score: 99
Period size: 43 Copynumber: 2.0 Consensus size: 43
71021242 AAATCGTACA
**
71021252 ATGCCAACGTCCTAGACGTGGTCTTACATGTAGCCACAAATCG
1 ATGCCAACGTCCTAGACGTGGTCTTACATGTAAACACAAATCG
*
71021295 ATGCC-ACTGTCCTAGACAG-GGTCTTAC-TCGTAAACACATATCG
1 ATGCCAAC-GTCCTAGAC-GTGGTCTTACAT-GTAAACACAAATCG
71021338 A
1 A
71021339 AACCACATAT
Statistics
Matches: 38, Mismatches: 3, Indels: 6
0.81 0.06 0.13
Matches are distributed among these distances:
42 3 0.08
43 34 0.89
44 1 0.03
ACGTcount: A:0.29, C:0.28, G:0.20, T:0.24
Consensus pattern (43 bp):
ATGCCAACGTCCTAGACGTGGTCTTACATGTAAACACAAATCG
Found at i:71025721 original size:483 final size:482
Alignment explanation
Indices: 71024815--71025783 Score: 1884
Period size: 483 Copynumber: 2.0 Consensus size: 482
71024805 AGGTACTCGA
71024815 TCGGAACAATCGGCCTTCACTAATGTAAGATAATCAGTTTGAAGAAAAACAAGATGAAGAGAAAA
1 TCGGAACAATCGGCCTTCACTAATGTAAGATAATCAGTTTGAAGAAAAACAAGATGAAGAGAAAA
71024880 GGTCACTAAGGTATTCTGCCAAAAAGAGAAATCAAGAGATTGAGAAAAGTTTATAGGAGTATTCG
66 GGTCACTAAGGTATTCTGCCAAAAAGAGAAATCAAGAGATTGAGAAAAGTTTATAGGAGTATTCG
71024945 ATTAAAGCAAATAAAACAAAAGAAATGAAGCTGCCAACCTGAGATATTGAGAACGAAGTCGACAC
131 ATTAAAGCAAATAAAACAAAAGAAATGAAGCTGCCAACCTGAGATATTGAGAACGAAGTCGACAC
*
71025010 TCAGTTAGCTAATACACAAATCGGCACCCAAAGTAGAACCAATTTCGGCACCCATTTACTATAGC
196 TCAGTTAGCTAATACACAAATCGGCACCCAAAGTAGAACCAATTTCAGCACCCATTTACTATAGC
71025075 CGAATTTTTTACCAAATGAACTCACCAGATTCGGTTAGCCTTCAACACACTAAACACCTCCCCAA
261 CGAATTTTTTACCAAATGAACTCACCAGATTCGGTTAGCCTTCAACACACTAAACACCTCCCCAA
* *
71025140 CACTCCTACACAACTGAAACACTAAGAGCCAGAGTTCAAACCCTACATGACTCTCCTCCAAATTC
326 CACTCCTACACAACCGAAACACTAAGAGCCAGAGTTCAAACCCGACATGACTCTCCTCCAAATTC
71025205 GAACTTACTCGATTTCCTCCTTAATTTTCTCCTAAGAACCCTCCTACTCACAAACCTCAACAACT
391 GAACTTACTCGATTTCCTCCTTAATTTTCTCCTAAGAACCCTCCTACTCACAAACCTCAACAACT
71025270 GAAAATCCCCCCTTTTTACTCCCCAAAT
456 GAAAAT-CCCCCTTTTTACTCCCCAAAT
*
71025298 TCGGAACAATCGGCCTTCACTAATGTCAGATAATCAGTTTGAAGAAAAACAAGATGAAGAGAAAA
1 TCGGAACAATCGGCCTTCACTAATGTAAGATAATCAGTTTGAAGAAAAACAAGATGAAGAGAAAA
*
71025363 GGTCACTAAGGTATTCTGCCAAAAAGAGAAATTAAGAGATTGAGAAAAGTTTATAGGAGTATTCG
66 GGTCACTAAGGTATTCTGCCAAAAAGAGAAATCAAGAGATTGAGAAAAGTTTATAGGAGTATTCG
71025428 ATTAAAGCAAATAAAACAAAAGAAATGAAGCTGCCAACCTGAGATATTGAGAACGAAGTCGACAC
131 ATTAAAGCAAATAAAACAAAAGAAATGAAGCTGCCAACCTGAGATATTGAGAACGAAGTCGACAC
71025493 TCAGTTAGCTAATACACAAATCGGCACCCAAAGTAGAACCAATTTCAGCACCCATTTACTATAGC
196 TCAGTTAGCTAATACACAAATCGGCACCCAAAGTAGAACCAATTTCAGCACCCATTTACTATAGC
71025558 CGAATTTTTTACCAAATGAACTCACCAGATTCGGTTAGCCTTCAACACACTAAACACCTCCCCAA
261 CGAATTTTTTACCAAATGAACTCACCAGATTCGGTTAGCCTTCAACACACTAAACACCTCCCCAA
71025623 CACTCCTACACAACCGAAACACTAAGAGCCAGAGTTCAAACCCGACATGACTCTCCTCCAAATTC
326 CACTCCTACACAACCGAAACACTAAGAGCCAGAGTTCAAACCCGACATGACTCTCCTCCAAATTC
71025688 GAACTTACTCGATTTCCTCCTTAATTTTCTCCTAAGAACCCTCCTACTCACAAACCTCAACAACT
391 GAACTTACTCGATTTCCTCCTTAATTTTCTCCTAAGAACCCTCCTACTCACAAACCTCAACAACT
71025753 GAAAATCCCCCTTTTTACTCCCCAAAT
456 GAAAATCCCCCTTTTTACTCCCCAAAT
71025780 TCGG
1 TCGG
71025784 CTAACAACAA
Statistics
Matches: 481, Mismatches: 5, Indels: 1
0.99 0.01 0.00
Matches are distributed among these distances:
482 25 0.05
483 456 0.95
ACGTcount: A:0.38, C:0.25, G:0.14, T:0.23
Consensus pattern (482 bp):
TCGGAACAATCGGCCTTCACTAATGTAAGATAATCAGTTTGAAGAAAAACAAGATGAAGAGAAAA
GGTCACTAAGGTATTCTGCCAAAAAGAGAAATCAAGAGATTGAGAAAAGTTTATAGGAGTATTCG
ATTAAAGCAAATAAAACAAAAGAAATGAAGCTGCCAACCTGAGATATTGAGAACGAAGTCGACAC
TCAGTTAGCTAATACACAAATCGGCACCCAAAGTAGAACCAATTTCAGCACCCATTTACTATAGC
CGAATTTTTTACCAAATGAACTCACCAGATTCGGTTAGCCTTCAACACACTAAACACCTCCCCAA
CACTCCTACACAACCGAAACACTAAGAGCCAGAGTTCAAACCCGACATGACTCTCCTCCAAATTC
GAACTTACTCGATTTCCTCCTTAATTTTCTCCTAAGAACCCTCCTACTCACAAACCTCAACAACT
GAAAATCCCCCTTTTTACTCCCCAAAT
Found at i:71026474 original size:10 final size:10
Alignment explanation
Indices: 71026461--71026485 Score: 50
Period size: 10 Copynumber: 2.5 Consensus size: 10
71026451 GGGATGAGGG
71026461 ATGGTTAGGA
1 ATGGTTAGGA
71026471 ATGGTTAGGA
1 ATGGTTAGGA
71026481 ATGGT
1 ATGGT
71026486 GAAATGAAGT
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
10 15 1.00
ACGTcount: A:0.28, C:0.00, G:0.40, T:0.32
Consensus pattern (10 bp):
ATGGTTAGGA
Found at i:71027579 original size:31 final size:32
Alignment explanation
Indices: 71027544--71027629 Score: 81
Period size: 31 Copynumber: 2.7 Consensus size: 32
71027534 ATGATGCTAG
*
71027544 AGATATTATGA-TATTTTA-TAATTA-TTTAATT
1 AGATATTAT-ATTATTTTATTAA-TACTTTAATA
*
71027575 AGATA-AATATTATTTTATTAATACTTTAATA
1 AGATATTATATTATTTTATTAATACTTTAATA
71027606 AGATATTTTATTATTATTTTATTA
1 AGATA--TTA-TATTATTTTATTA
71027630 GTATATAAAG
Statistics
Matches: 45, Mismatches: 3, Indels: 10
0.78 0.05 0.17
Matches are distributed among these distances:
29 1 0.02
30 11 0.24
31 19 0.42
34 1 0.02
35 13 0.29
ACGTcount: A:0.40, C:0.01, G:0.05, T:0.55
Consensus pattern (32 bp):
AGATATTATATTATTTTATTAATACTTTAATA
Found at i:71029822 original size:46 final size:46
Alignment explanation
Indices: 71029755--71030065 Score: 390
Period size: 46 Copynumber: 7.0 Consensus size: 46
71029745 AGTGTGCTCT
71029755 CTGATATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAAC
1 CTGATATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAAC
*
71029801 CTGATATGAAATGTGTAAGACCTTGGTTGAAAGATACCATGGCAAC
1 CTGATATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAAC
*
71029847 C----A-G---TGTGTGAGACCATGGTTGAAAGATACCATGGCAAC
1 CTGATATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAAC
*
71029885 TTGAT-TGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAAC
1 CTGATATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAAC
*
71029930 CTGATATGAGATGTGTAAGACCATGGTTGAAAGATACCATGGCAAC
1 CTGATATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAAC
* * * ** * *
71029976 GTGACATGAAAAGAATAAAACCATGGTTGAAAGATACCATAGCAAC
1 CTGATATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAAC
* * * * * *
71030022 ATGACA-GAAAATGAGTAAGACCATAGTTGAAAGACACTATGGCA
1 CTGATATG-AAATGTGTAAGACCATGGTTGAAAGATACCATGGCA
71030066 TCACGTCAAA
Statistics
Matches: 232, Mismatches: 23, Indels: 20
0.84 0.08 0.07
Matches are distributed among these distances:
38 33 0.14
41 1 0.00
42 2 0.01
45 39 0.17
46 157 0.68
ACGTcount: A:0.38, C:0.15, G:0.24, T:0.23
Consensus pattern (46 bp):
CTGATATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAAC
Found at i:71030371 original size:23 final size:25
Alignment explanation
Indices: 71030327--71030372 Score: 60
Period size: 23 Copynumber: 1.9 Consensus size: 25
71030317 ATAAATACAT
*
71030327 ATAAAATATATGGAAATGATGAAGC
1 ATAAAATATATGGAAATAATGAAGC
*
71030352 ATAAAATAT-T-GATATAATGAA
1 ATAAAATATATGGAAATAATGAA
71030373 ATGAATGATA
Statistics
Matches: 19, Mismatches: 2, Indels: 2
0.83 0.09 0.09
Matches are distributed among these distances:
23 9 0.47
24 1 0.05
25 9 0.47
ACGTcount: A:0.54, C:0.02, G:0.15, T:0.28
Consensus pattern (25 bp):
ATAAAATATATGGAAATAATGAAGC
Found at i:71038910 original size:54 final size:54
Alignment explanation
Indices: 71038821--71039011 Score: 215
Period size: 54 Copynumber: 3.5 Consensus size: 54
71038811 GACCCCAATT
* * * * *
71038821 TGATGAAATGACTATTTTGCCCTTATGTGGAAAAATGATTGTTTTGTCCTTATA
1 TGATAAAATGACTATTTTGCCCTTATGTGGTAAAATGACTATTTTGCCCTTATA
* * * *
71038875 TGGTAAAATGATTGTTTTGCCCTTATGTGGTAAAATGACTATTTTGCCCTTATG
1 TGATAAAATGACTATTTTGCCCTTATGTGGTAAAATGACTATTTTGCCCTTATA
* * * *
71038929 TGATAAAATGACAATTTTGCCCTTATGAGGTGAAATGACTATTTTG-CCTCCA-A
1 TGATAAAATGACTATTTTGCCCTTATGTGGTAAAATGACTATTTTGCCCT-TATA
* *
71038982 CTGATAAAATGGCTATTTTGCCCCTATGTG
1 -TGATAAAATGACTATTTTGCCCTTATGTG
71039012 ATATTTGTTT
Statistics
Matches: 114, Mismatches: 21, Indels: 4
0.82 0.15 0.03
Matches are distributed among these distances:
53 3 0.03
54 111 0.97
ACGTcount: A:0.27, C:0.15, G:0.19, T:0.39
Consensus pattern (54 bp):
TGATAAAATGACTATTTTGCCCTTATGTGGTAAAATGACTATTTTGCCCTTATA
Found at i:71038965 original size:81 final size:81
Alignment explanation
Indices: 71038821--71039014 Score: 214
Period size: 81 Copynumber: 2.4 Consensus size: 81
71038811 GACCCCAATT
* *** *
71038821 TGATGAAATGACTATTTTGCCCTTATGTGGA-AAAATGATTGTTTTGTCCTTATATGGTAAAATG
1 TGATAAAATGACTATTTTGCCCTTATGT-GATAAAATGACAATTTTGCCCTTATATGGTAAAATG
* * * **
71038885 ATTGTTTTGCC-CTTATG
65 ACTATTTTGCCTC-CAAC
* *
71038902 TGGTAAAATGACTATTTTGCCCTTATGTGATAAAATGACAATTTTGCCCTTATGA-GGTGAAATG
1 TGATAAAATGACTATTTTGCCCTTATGTGATAAAATGACAATTTTGCCCTTAT-ATGGTAAAATG
71038966 ACTATTTTGCCTCCAAC
65 ACTATTTTGCCTCCAAC
* *
71038983 TGATAAAATGGCTATTTTGCCCCTATGTGATA
1 TGATAAAATGACTATTTTGCCCTTATGTGATA
71039015 TTTGTTTATA
Statistics
Matches: 95, Mismatches: 15, Indels: 6
0.82 0.13 0.05
Matches are distributed among these distances:
80 2 0.02
81 91 0.96
82 2 0.02
ACGTcount: A:0.28, C:0.14, G:0.19, T:0.39
Consensus pattern (81 bp):
TGATAAAATGACTATTTTGCCCTTATGTGATAAAATGACAATTTTGCCCTTATATGGTAAAATGA
CTATTTTGCCTCCAAC
Found at i:71039013 original size:27 final size:27
Alignment explanation
Indices: 71038821--71039014 Score: 194
Period size: 27 Copynumber: 7.2 Consensus size: 27
71038811 GACCCCAATT
*
71038821 TGATGAAATGACTATTTTGCCCTTATG
1 TGATAAAATGACTATTTTGCCCTTATG
* * * *
71038848 TGGA-AAAATGATTGTTTTGTCCTTATA
1 T-GATAAAATGACTATTTTGCCCTTATG
* * *
71038875 TGGTAAAATGATTGTTTTGCCCTTATG
1 TGATAAAATGACTATTTTGCCCTTATG
*
71038902 TGGTAAAATGACTATTTTGCCCTTATG
1 TGATAAAATGACTATTTTGCCCTTATG
*
71038929 TGATAAAATGACAATTTTGCCCTTATG
1 TGATAAAATGACTATTTTGCCCTTATG
* * * * **
71038956 AGGTGAAATGACTATTTTG-CCTCCAAC
1 TGATAAAATGACTATTTTGCCCT-TATG
* *
71038983 TGATAAAATGGCTATTTTGCCCCTATG
1 TGATAAAATGACTATTTTGCCCTTATG
71039010 TGATA
1 TGATA
71039015 TTTGTTTATA
Statistics
Matches: 136, Mismatches: 27, Indels: 8
0.80 0.16 0.05
Matches are distributed among these distances:
26 4 0.03
27 128 0.94
28 4 0.03
ACGTcount: A:0.28, C:0.14, G:0.19, T:0.39
Consensus pattern (27 bp):
TGATAAAATGACTATTTTGCCCTTATG
Found at i:71041156 original size:23 final size:23
Alignment explanation
Indices: 71041111--71041157 Score: 67
Period size: 23 Copynumber: 2.0 Consensus size: 23
71041101 TCAAAGAATG
* *
71041111 ATTGTTACGCCATTGACAGGGAA
1 ATTGTTACACCATTGACAAGGAA
*
71041134 ATTGTTACACCATTGATAAGGAA
1 ATTGTTACACCATTGACAAGGAA
71041157 A
1 A
71041158 CTTTGAAGCC
Statistics
Matches: 21, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
23 21 1.00
ACGTcount: A:0.36, C:0.15, G:0.21, T:0.28
Consensus pattern (23 bp):
ATTGTTACACCATTGACAAGGAA
Found at i:71049545 original size:40 final size:40
Alignment explanation
Indices: 71049489--71049680 Score: 244
Period size: 40 Copynumber: 4.8 Consensus size: 40
71049479 TATAACTACA
* * * * *
71049489 AGCACAATTGCCTTCGGGTCTTAACCCGGGT-ATAGCAACT
1 AGCACAAATGCCTTCGGGTCTTAGCCCGGATAAAATC-ACT
* *
71049529 CGCACAAATGCCTTCGGGTCTTAGCCCGGAT-ATATCAACT
1 AGCACAAATGCCTTCGGGTCTTAGCCCGGATAAAATC-ACT
*
71049569 CGCACAAATGCCTTCGGGTCTTAGCCCGGATAAAATCACT
1 AGCACAAATGCCTTCGGGTCTTAGCCCGGATAAAATCACT
* *
71049609 AGCATAAATGCCTTCGGGACTTAGCCCGGATAAAATCACT
1 AGCACAAATGCCTTCGGGTCTTAGCCCGGATAAAATCACT
* *
71049649 AGCATAAATGCCTTCGGGACTTAGCCCGGATA
1 AGCACAAATGCCTTCGGGTCTTAGCCCGGATA
71049681 TCATTCAAAT
Statistics
Matches: 142, Mismatches: 9, Indels: 2
0.93 0.06 0.01
Matches are distributed among these distances:
40 138 0.97
41 4 0.03
ACGTcount: A:0.28, C:0.28, G:0.21, T:0.23
Consensus pattern (40 bp):
AGCACAAATGCCTTCGGGTCTTAGCCCGGATAAAATCACT
Found at i:71057673 original size:40 final size:40
Alignment explanation
Indices: 71057621--71057772 Score: 189
Period size: 40 Copynumber: 3.8 Consensus size: 40
71057611 ATAACCACAA
* * *
71057621 GCACAATTGCCTTCGGGTCTTAACCCGGGTATAGCAACTC
1 GCACAAATGCCTTCGGGTCTTAGCCCGGATATAGCAACTC
* *
71057661 GTACAAATGCCTTCGGGTCTTAGCCCGGATATATCAACTC
1 GCACAAATGCCTTCGGGTCTTAGCCCGGATATAGCAACTC
* * * *
71057701 GCACAAATGCCTTCGGGACTTAGCCCGGATAAAATC-ACTA
1 GCACAAATGCCTTCGGGTCTTAGCCCGGAT-ATAGCAACTC
* *
71057741 GCATAAATGCCTTCGGGACTTAGCCCGGATAT
1 GCACAAATGCCTTCGGGTCTTAGCCCGGATAT
71057773 CATTCAAATG
Statistics
Matches: 100, Mismatches: 11, Indels: 3
0.88 0.10 0.03
Matches are distributed among these distances:
39 1 0.01
40 95 0.95
41 4 0.04
ACGTcount: A:0.26, C:0.28, G:0.22, T:0.24
Consensus pattern (40 bp):
GCACAAATGCCTTCGGGTCTTAGCCCGGATATAGCAACTC
Found at i:71063009 original size:23 final size:23
Alignment explanation
Indices: 71062980--71063028 Score: 89
Period size: 23 Copynumber: 2.1 Consensus size: 23
71062970 CACTACCAAT
71062980 ACCACCACACTAAGATCTAAAGC
1 ACCACCACACTAAGATCTAAAGC
*
71063003 ACCACCACACTGAGATCTAAAGC
1 ACCACCACACTAAGATCTAAAGC
71063026 ACC
1 ACC
71063029 TATGACTGCA
Statistics
Matches: 25, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
23 25 1.00
ACGTcount: A:0.41, C:0.37, G:0.10, T:0.12
Consensus pattern (23 bp):
ACCACCACACTAAGATCTAAAGC
Found at i:71067481 original size:17 final size:17
Alignment explanation
Indices: 71067459--71067492 Score: 68
Period size: 17 Copynumber: 2.0 Consensus size: 17
71067449 TGAGATGTGA
71067459 TTACATGTAAGACCATG
1 TTACATGTAAGACCATG
71067476 TTACATGTAAGACCATG
1 TTACATGTAAGACCATG
71067493 CCTGAGGCAT
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
17 17 1.00
ACGTcount: A:0.35, C:0.18, G:0.18, T:0.29
Consensus pattern (17 bp):
TTACATGTAAGACCATG
Found at i:71067557 original size:43 final size:43
Alignment explanation
Indices: 71067481--71067575 Score: 127
Period size: 43 Copynumber: 2.2 Consensus size: 43
71067471 CCATGTTACA
* * * *
71067481 TGTAAGACCATGCCTGAGGCATTTGCATTGTATTGTGAGTACG
1 TGTAAGACCATGCCTGAGACATTGGCATCGTATTATGAGTACG
* * *
71067524 TGTAAGACCATGTCTGAGACATTGGCATCGTATTATGATTTCG
1 TGTAAGACCATGCCTGAGACATTGGCATCGTATTATGAGTACG
71067567 TGTAAGACC
1 TGTAAGACC
71067576 CTATTTGGGA
Statistics
Matches: 45, Mismatches: 7, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
43 45 1.00
ACGTcount: A:0.25, C:0.17, G:0.25, T:0.33
Consensus pattern (43 bp):
TGTAAGACCATGCCTGAGACATTGGCATCGTATTATGAGTACG
Found at i:71072335 original size:28 final size:27
Alignment explanation
Indices: 71072289--71072341 Score: 81
Period size: 28 Copynumber: 1.9 Consensus size: 27
71072279 AAATCATATT
71072289 TTTGCAAAATTACAATTTTGCCCCTAAA
1 TTTGCAAAATTACAATTTT-CCCCTAAA
71072317 TTTGTCAAAATTAC-ATTTTCCCCTA
1 TTTG-CAAAATTACAATTTTCCCCTA
71072342 GGCTCGTAAA
Statistics
Matches: 24, Mismatches: 0, Indels: 3
0.89 0.00 0.11
Matches are distributed among these distances:
27 6 0.25
28 9 0.38
29 9 0.38
ACGTcount: A:0.32, C:0.23, G:0.06, T:0.40
Consensus pattern (27 bp):
TTTGCAAAATTACAATTTTCCCCTAAA
Found at i:71087759 original size:93 final size:94
Alignment explanation
Indices: 71087552--71087759 Score: 213
Period size: 93 Copynumber: 2.2 Consensus size: 94
71087542 TGTCATTTTG
*
71087552 CAAAGTTATAAGGTAAACACCCCAAGAGGAGACTTCTCACTAAGTTTAATAGAAGAACCACTTAT
1 CAAAGTTATAAAGTAAACACCCCAAGAGGAGACTTCTCACTAAGTTTAATAGAAGAACCACTTAT
** ** ***
71087617 AGCCTCATAAGGCACTTAGCTTTATTTTG
66 AGCCTCATAAGGCACTTAAATAAATTCAA
* * * * ** ** *
71087646 CATAGTTACAAAGCAAACACCTCAAGAGGAGA-TTGCTTGCTAA-TTTAATAGAAGAACTGCTTC
1 CAAAGTTATAAAGTAAACACCCCAAGAGGAGACTT-CTCACTAAGTTTAATAGAAGAACCACTTA
* *
71087709 TAGTCTCTTAAGGCACTTAAATAAATTCAA
65 TAGCCTCATAAGGCACTTAAATAAATTCAA
*
71087739 CAAAGTTATAAAGTAGACACC
1 CAAAGTTATAAAGTAAACACC
71087760 GAGAGGAAAT
Statistics
Matches: 90, Mismatches: 23, Indels: 3
0.78 0.20 0.03
Matches are distributed among these distances:
93 57 0.63
94 33 0.37
ACGTcount: A:0.38, C:0.19, G:0.15, T:0.27
Consensus pattern (94 bp):
CAAAGTTATAAAGTAAACACCCCAAGAGGAGACTTCTCACTAAGTTTAATAGAAGAACCACTTAT
AGCCTCATAAGGCACTTAAATAAATTCAA
Found at i:71088816 original size:14 final size:14
Alignment explanation
Indices: 71088797--71088831 Score: 52
Period size: 14 Copynumber: 2.5 Consensus size: 14
71088787 GATTATTTAT
71088797 TTTCCTCCTCAAAA
1 TTTCCTCCTCAAAA
* *
71088811 TTTCCTCCTCGAAT
1 TTTCCTCCTCAAAA
71088825 TTTCCTC
1 TTTCCTC
71088832 TAAACCAAAC
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
14 19 1.00
ACGTcount: A:0.17, C:0.37, G:0.03, T:0.43
Consensus pattern (14 bp):
TTTCCTCCTCAAAA
Found at i:71092810 original size:214 final size:214
Alignment explanation
Indices: 71092441--71092868 Score: 856
Period size: 214 Copynumber: 2.0 Consensus size: 214
71092431 TGCAAAGATG
71092441 TTGCCTTATGGAACCAGCACTCTTCTGGTTGTTAGTGGCTGCTAGTTAAGTTAGGGGAGAATATT
1 TTGCCTTATGGAACCAGCACTCTTCTGGTTGTTAGTGGCTGCTAGTTAAGTTAGGGGAGAATATT
71092506 GCAGAAATTCAGATCTTATGATTCATTCTATACTTGTACAAAAAGAAAAATGAGACAAAGCAGAA
66 GCAGAAATTCAGATCTTATGATTCATTCTATACTTGTACAAAAAGAAAAATGAGACAAAGCAGAA
71092571 AGTATCATGCATTTACCAAGCAATTGTTTTCATGTTAAGGGTTAGTTTGTCTACACTAGCATACA
131 AGTATCATGCATTTACCAAGCAATTGTTTTCATGTTAAGGGTTAGTTTGTCTACACTAGCATACA
71092636 TCATACATGTCTTATGAAT
196 TCATACATGTCTTATGAAT
71092655 TTGCCTTATGGAACCAGCACTCTTCTGGTTGTTAGTGGCTGCTAGTTAAGTTAGGGGAGAATATT
1 TTGCCTTATGGAACCAGCACTCTTCTGGTTGTTAGTGGCTGCTAGTTAAGTTAGGGGAGAATATT
71092720 GCAGAAATTCAGATCTTATGATTCATTCTATACTTGTACAAAAAGAAAAATGAGACAAAGCAGAA
66 GCAGAAATTCAGATCTTATGATTCATTCTATACTTGTACAAAAAGAAAAATGAGACAAAGCAGAA
71092785 AGTATCATGCATTTACCAAGCAATTGTTTTCATGTTAAGGGTTAGTTTGTCTACACTAGCATACA
131 AGTATCATGCATTTACCAAGCAATTGTTTTCATGTTAAGGGTTAGTTTGTCTACACTAGCATACA
71092850 TCATACATGTCTTATGAAT
196 TCATACATGTCTTATGAAT
71092869 GAAATTGCCA
Statistics
Matches: 214, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
214 214 1.00
ACGTcount: A:0.32, C:0.15, G:0.19, T:0.33
Consensus pattern (214 bp):
TTGCCTTATGGAACCAGCACTCTTCTGGTTGTTAGTGGCTGCTAGTTAAGTTAGGGGAGAATATT
GCAGAAATTCAGATCTTATGATTCATTCTATACTTGTACAAAAAGAAAAATGAGACAAAGCAGAA
AGTATCATGCATTTACCAAGCAATTGTTTTCATGTTAAGGGTTAGTTTGTCTACACTAGCATACA
TCATACATGTCTTATGAAT
Found at i:71093514 original size:13 final size:13
Alignment explanation
Indices: 71093496--71093520 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
71093486 ACCAAATATT
71093496 ACAATAAATAAAA
1 ACAATAAATAAAA
71093509 ACAATAAATAAA
1 ACAATAAATAAA
71093521 TAAAAGTTAT
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.76, C:0.08, G:0.00, T:0.16
Consensus pattern (13 bp):
ACAATAAATAAAA
Found at i:71098357 original size:32 final size:30
Alignment explanation
Indices: 71098294--71098362 Score: 84
Period size: 32 Copynumber: 2.2 Consensus size: 30
71098284 AGTCGAGTCA
* **
71098294 AAAAAATAATTTAATATTTTTTCTGTGTTT
1 AAAATATAATTTAATATTTTTTCCATGTTT
*
71098324 AAAATATAATTTAATATTATTTTTCCATTTTT
1 AAAATATAATTTAATA-T-TTTTTCCATGTTT
71098356 AAAATAT
1 AAAATAT
71098363 GTGAACTGAT
Statistics
Matches: 33, Mismatches: 4, Indels: 2
0.85 0.10 0.05
Matches are distributed among these distances:
30 15 0.45
31 1 0.03
32 17 0.52
ACGTcount: A:0.41, C:0.04, G:0.03, T:0.52
Consensus pattern (30 bp):
AAAATATAATTTAATATTTTTTCCATGTTT
Found at i:71100191 original size:28 final size:28
Alignment explanation
Indices: 71100151--71100229 Score: 122
Period size: 28 Copynumber: 2.8 Consensus size: 28
71100141 GCAATCAAAT
* *
71100151 ATGACACTCAGTGTACGAAATATTGAGA
1 ATGACACTTAGTGTGCGAAATATTGAGA
*
71100179 ATGACACTTAGTGTGCGAGATATTGAGA
1 ATGACACTTAGTGTGCGAAATATTGAGA
*
71100207 ATGACACTTAGTGTGCAAAATAT
1 ATGACACTTAGTGTGCGAAATAT
71100230 CGAATGATTC
Statistics
Matches: 46, Mismatches: 5, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
28 46 1.00
ACGTcount: A:0.37, C:0.13, G:0.23, T:0.28
Consensus pattern (28 bp):
ATGACACTTAGTGTGCGAAATATTGAGA
Found at i:71100651 original size:21 final size:22
Alignment explanation
Indices: 71100620--71100663 Score: 72
Period size: 21 Copynumber: 2.0 Consensus size: 22
71100610 GAATGTATTG
*
71100620 TGATGTATGTGGAAATGAAATA
1 TGATGTATGTGCAAATGAAATA
71100642 TGAT-TATGTGCAAATGAAATA
1 TGATGTATGTGCAAATGAAATA
71100663 T
1 T
71100664 AAATGAATGA
Statistics
Matches: 21, Mismatches: 1, Indels: 1
0.91 0.04 0.04
Matches are distributed among these distances:
21 17 0.81
22 4 0.19
ACGTcount: A:0.41, C:0.02, G:0.23, T:0.34
Consensus pattern (22 bp):
TGATGTATGTGCAAATGAAATA
Found at i:71103024 original size:43 final size:43
Alignment explanation
Indices: 71102867--71103025 Score: 164
Period size: 43 Copynumber: 3.7 Consensus size: 43
71102857 ATATACCGTA
* * * *
71102867 CAATGCCAACGTCCCAGACGTGGTATTACATGCT-ATCATATAT
1 CAATGCCAACGTCCCAGACATGGTCTTACACG-TAATCAAATAT
* * *
71102910 CGATGCC-ACTGTCCCAGACAGGGTCTTACAC-AAATCAAATAT
1 CAATGCCAAC-GTCCCAGACATGGTCTTACACGTAATCAAATAT
* * * *
71102952 -GATGCCGATGTCCCAGACATGGTCTTACACGTAATCACATAT
1 CAATGCCAACGTCCCAGACATGGTCTTACACGTAATCAAATAT
*
71102994 CAATGCCAACGTCCCAGACATGGTTTTACACG
1 CAATGCCAACGTCCCAGACATGGTCTTACACG
71103026 AGAACAGATA
Statistics
Matches: 96, Mismatches: 15, Indels: 10
0.79 0.12 0.08
Matches are distributed among these distances:
41 26 0.27
42 20 0.21
43 50 0.52
ACGTcount: A:0.30, C:0.28, G:0.18, T:0.25
Consensus pattern (43 bp):
CAATGCCAACGTCCCAGACATGGTCTTACACGTAATCAAATAT
Found at i:71105444 original size:39 final size:40
Alignment explanation
Indices: 71105228--71105434 Score: 305
Period size: 40 Copynumber: 5.2 Consensus size: 40
71105218 GGATTGATAC
* * *
71105228 CCGGGCTAAGTCCCGAAGGCATTTGTGCTAGTGAC-AAATT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATA-T
71105268 CCGGGCTAAG-CCCGAAGGCATTTGTGCGAGTTACTATAT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAT
*
71105307 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAA
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAT
*
71105347 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAA
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAT
* *
71105387 CCGGGCTAAGTCCCGAAGGCATTTGAGCTAG-TAGCTATAT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTA-CTATAT
71105427 CC-GGCTAA
1 CCGGGCTAA
71105435 ACTCCGAAGG
Statistics
Matches: 157, Mismatches: 7, Indels: 7
0.92 0.04 0.04
Matches are distributed among these distances:
39 41 0.26
40 116 0.74
ACGTcount: A:0.25, C:0.23, G:0.28, T:0.25
Consensus pattern (40 bp):
CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAT
Found at i:71107227 original size:56 final size:56
Alignment explanation
Indices: 71107161--71107297 Score: 238
Period size: 56 Copynumber: 2.4 Consensus size: 56
71107151 GACCATGGCA
71107161 TCGATATATGTGTGCGAGTAAGACCACATTTTATACGTTGGCATCGATATCTGACT
1 TCGATATATGTGTGCGAGTAAGACCACATTTTATACGTTGGCATCGATATCTGACT
* *
71107217 TCGATATATGTGTGCGAGTAAGACCACGTTTTATACGTTGGCATCGATATTTGACT
1 TCGATATATGTGTGCGAGTAAGACCACATTTTATACGTTGGCATCGATATCTGACT
* *
71107273 CCGATATATGTGTGTGAGTAAGACC
1 TCGATATATGTGTGCGAGTAAGACC
71107298 CTGTCTGGGA
Statistics
Matches: 77, Mismatches: 4, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
56 77 1.00
ACGTcount: A:0.26, C:0.17, G:0.23, T:0.34
Consensus pattern (56 bp):
TCGATATATGTGTGCGAGTAAGACCACATTTTATACGTTGGCATCGATATCTGACT
Found at i:71107315 original size:56 final size:56
Alignment explanation
Indices: 71107162--71107322 Score: 182
Period size: 56 Copynumber: 2.9 Consensus size: 56
71107152 ACCATGGCAT
* * * * *
71107162 CGATATATGTGTGCGAGTAAGACCACATTTTATACGTTGGCATCGATATCTGACTT
1 CGATATATGTGTGCGAGTAAGACCACGTCTGAGACGTTGGCATCGATATCTGACTC
* * * *
71107218 CGATATATGTGTGCGAGTAAGACCACGTTTTATACGTTGGCATCGATATTTGACTC
1 CGATATATGTGTGCGAGTAAGACCACGTCTGAGACGTTGGCATCGATATCTGACTC
* * *
71107274 CGATATATGTGTGTGAGTAAGACC-CTGTCTGGGACAG-TGGCATCAATAT
1 CGATATATGTGTGCGAGTAAGACCAC-GTCTGAGAC-GTTGGCATCGATAT
71107323 GTGATTACAT
Statistics
Matches: 94, Mismatches: 9, Indels: 4
0.88 0.08 0.04
Matches are distributed among these distances:
55 1 0.01
56 92 0.98
57 1 0.01
ACGTcount: A:0.26, C:0.17, G:0.24, T:0.32
Consensus pattern (56 bp):
CGATATATGTGTGCGAGTAAGACCACGTCTGAGACGTTGGCATCGATATCTGACTC
Found at i:71112822 original size:28 final size:28
Alignment explanation
Indices: 71112789--71112892 Score: 136
Period size: 28 Copynumber: 3.7 Consensus size: 28
71112779 ACTCAATGCT
71112789 TCGCACACTAAGTGCCATACTCAATATC
1 TCGCACACTAAGTGCCATACTCAATATC
* * * **
71112817 TTGCACATTAAGTGCCACACTCGGTATC
1 TCGCACACTAAGTGCCATACTCAATATC
* *
71112845 TCGCACACTAAGTGCCACACTCGATATC
1 TCGCACACTAAGTGCCATACTCAATATC
*
71112873 TCACACACTAAGTGCCATAC
1 TCGCACACTAAGTGCCATAC
71112893 ATAGCCGAAG
Statistics
Matches: 66, Mismatches: 10, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
28 66 1.00
ACGTcount: A:0.30, C:0.33, G:0.13, T:0.24
Consensus pattern (28 bp):
TCGCACACTAAGTGCCATACTCAATATC
Found at i:71112922 original size:40 final size:40
Alignment explanation
Indices: 71112873--71112980 Score: 162
Period size: 40 Copynumber: 2.7 Consensus size: 40
71112863 ACTCGATATC
*
71112873 TCACACACTAAGTGCCATACATAGCCGAAGCTATCTCAAA
1 TCACACACTAAGTGCCATAAATAGCCGAAGCTATCTCAAA
** * *
71112913 TCGTACACTAAGTGCCATATATAGCCGAAGCTATGTCAAA
1 TCACACACTAAGTGCCATAAATAGCCGAAGCTATCTCAAA
*
71112953 TCACACACTAAGTGCCACAAATAGCCGA
1 TCACACACTAAGTGCCATAAATAGCCGA
71112981 TTTTTTGTCG
Statistics
Matches: 60, Mismatches: 8, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
40 60 1.00
ACGTcount: A:0.37, C:0.28, G:0.15, T:0.20
Consensus pattern (40 bp):
TCACACACTAAGTGCCATAAATAGCCGAAGCTATCTCAAA
Found at i:71115725 original size:12 final size:12
Alignment explanation
Indices: 71115708--71115734 Score: 54
Period size: 12 Copynumber: 2.2 Consensus size: 12
71115698 TCCGAAGTAT
71115708 ATATATATATAC
1 ATATATATATAC
71115720 ATATATATATAC
1 ATATATATATAC
71115732 ATA
1 ATA
71115735 AGTATGCCAT
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 15 1.00
ACGTcount: A:0.52, C:0.07, G:0.00, T:0.41
Consensus pattern (12 bp):
ATATATATATAC
Found at i:71116244 original size:27 final size:27
Alignment explanation
Indices: 71116213--71116389 Score: 203
Period size: 27 Copynumber: 6.5 Consensus size: 27
71116203 TAAATTGTAC
71116213 AGCACTAAGTGTGCGATTTGACTATGT
1 AGCACTAAGTGTGCGATTTGACTATGT
* ** *
71116240 TGCACTAAGTGTGCGAAATGAATATG-
1 AGCACTAAGTGTGCGATTTGACTATGT
* * *
71116266 ATGCACTAAGTGTGCGAATTGACCATGC
1 A-GCACTAAGTGTGCGATTTGACTATGT
*
71116294 GGCACTAAGTGTGCGAGTTTGACTATGT
1 AGCACTAAGTGTGCGA-TTTGACTATGT
* *
71116322 AGCACTAAGTGTGCGATTTGATTACGT
1 AGCACTAAGTGTGCGATTTGACTATGT
* * *
71116349 AGCACTAAGTGTGCGAGTTGATTATAT
1 AGCACTAAGTGTGCGATTTGACTATGT
*
71116376 AGCACTGAGTGTGC
1 AGCACTAAGTGTGC
71116390 AGACTCAATA
Statistics
Matches: 128, Mismatches: 19, Indels: 6
0.84 0.12 0.04
Matches are distributed among these distances:
27 105 0.82
28 23 0.18
ACGTcount: A:0.27, C:0.15, G:0.28, T:0.30
Consensus pattern (27 bp):
AGCACTAAGTGTGCGATTTGACTATGT
Found at i:71116327 original size:82 final size:81
Alignment explanation
Indices: 71116214--71116369 Score: 233
Period size: 82 Copynumber: 1.9 Consensus size: 81
71116204 AAATTGTACA
* *
71116214 GCACTAAGTGTGCGATTTGACTATGTTGCACTAAGTGTGCGAAATGAATATG-ATGCACTAAGTG
1 GCACTAAGTGTGCGATTTGACTATGTAGCACTAAGTGTGCGAAATGAATACGTA-GCACTAAGTG
71116278 TGCGAATTGACCATGCG
65 TGCGAATTGACCATGCG
** *
71116295 GCACTAAGTGTGCGAGTTTGACTATGTAGCACTAAGTGTGCGATTTGATTACGTAGCACTAAGTG
1 GCACTAAGTGTGCGA-TTTGACTATGTAGCACTAAGTGTGCGAAATGAATACGTAGCACTAAGTG
*
71116360 TGCGAGTTGA
65 TGCGAATTGA
71116370 TTATATAGCA
Statistics
Matches: 67, Mismatches: 6, Indels: 3
0.88 0.08 0.04
Matches are distributed among these distances:
81 15 0.22
82 51 0.76
83 1 0.01
ACGTcount: A:0.27, C:0.15, G:0.28, T:0.29
Consensus pattern (81 bp):
GCACTAAGTGTGCGATTTGACTATGTAGCACTAAGTGTGCGAAATGAATACGTAGCACTAAGTGT
GCGAATTGACCATGCG
Found at i:71116381 original size:82 final size:81
Alignment explanation
Indices: 71116210--71116389 Score: 227
Period size: 82 Copynumber: 2.2 Consensus size: 81
71116200 GATTAAATTG
* *
71116210 TACAGCACTAAGTGTGCGATTTGACTATGTTGCACTAAGTGTGCGAAATGAATATGATGCACTAA
1 TACAGCACTAAGTGTGCGATTTGACTATGTAGCACTAAGTGTGCGAAATGAATACGATGCACTAA
71116275 GTGTGCGAATTGACCA
66 GTGTGCGAATTGACCA
* * ** *
71116291 TGCGGCACTAAGTGTGCGAGTTTGACTATGTAGCACTAAGTGTGCGATTTGATTACG-TAGCACT
1 TACAGCACTAAGTGTGCGA-TTTGACTATGTAGCACTAAGTGTGCGAAATGAATACGAT-GCACT
* **
71116355 AAGTGTGCGAGTTGATTA
64 AAGTGTGCGAATTGACCA
* *
71116373 TATAGCACTGAGTGTGC
1 TACAGCACTAAGTGTGC
71116390 AGACTCAATA
Statistics
Matches: 83, Mismatches: 14, Indels: 3
0.83 0.14 0.03
Matches are distributed among these distances:
81 18 0.22
82 65 0.78
ACGTcount: A:0.27, C:0.16, G:0.27, T:0.30
Consensus pattern (81 bp):
TACAGCACTAAGTGTGCGATTTGACTATGTAGCACTAAGTGTGCGAAATGAATACGATGCACTAA
GTGTGCGAATTGACCA
Found at i:71134132 original size:39 final size:39
Alignment explanation
Indices: 71134089--71134218 Score: 197
Period size: 39 Copynumber: 3.3 Consensus size: 39
71134079 TCTTTAACCT
* ** * *
71134089 GGATATTTTTCCAGCACGTAGCCTGCGGATCTCAAGTCC
1 GGATATATTTCCAGCATATAGCCTGCGGACCTCATGTCC
71134128 GGATATATTTCCAGCATATAGCCTGCGGACCTCATGTCC
1 GGATATATTTCCAGCATATAGCCTGCGGACCTCATGTCC
*
71134167 GGATATATTTCTAGCATATAGCCTGCGGACCTCATGTCC
1 GGATATATTTCCAGCATATAGCCTGCGGACCTCATGTCC
*
71134206 GAATATATTTCCA
1 GGATATATTTCCA
71134219 ATCTCATATA
Statistics
Matches: 83, Mismatches: 8, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
39 83 1.00
ACGTcount: A:0.24, C:0.26, G:0.20, T:0.30
Consensus pattern (39 bp):
GGATATATTTCCAGCATATAGCCTGCGGACCTCATGTCC
Found at i:71140411 original size:21 final size:20
Alignment explanation
Indices: 71140374--71140413 Score: 53
Period size: 21 Copynumber: 1.9 Consensus size: 20
71140364 CTCTTGAAAT
* *
71140374 AGGGCACACGCCTGTGTGAA
1 AGGGCACACACCCGTGTGAA
71140394 AGGGCAACACACCCGTGTGA
1 AGGGC-ACACACCCGTGTGA
71140414 TCATTATAAC
Statistics
Matches: 17, Mismatches: 2, Indels: 1
0.85 0.10 0.05
Matches are distributed among these distances:
20 5 0.29
21 12 0.71
ACGTcount: A:0.28, C:0.28, G:0.33, T:0.12
Consensus pattern (20 bp):
AGGGCACACACCCGTGTGAA
Found at i:71141685 original size:49 final size:48
Alignment explanation
Indices: 71141611--71141781 Score: 193
Period size: 49 Copynumber: 3.5 Consensus size: 48
71141601 ATGCCGACGC
*
71141611 CATGTCCCAGACATGGTCTTACACTGGCTTTCATATAGCGAGGCCAATG
1 CATGTCCCAGACA-GGTCTTACACTGGCTTTCATATAGCGAGGCCGATG
* * * *
71141660 CTATGTCCCAGACAGGTCTTACACTGGCTCTCATCTATCG-GTGTCGATG
1 C-ATGTCCCAGACAGGTCTTACACTGGCTTTCATATAGCGAG-GCCGATG
* * * *
71141709 CCATGTCCTAGACAGGTCTTACACTAGCTTGT-ATATCGCAAGGCCGATG
1 -CATGTCCCAGACAGGTCTTACACTGGCTT-TCATATAGCGAGGCCGATG
*
71141758 CATGTCCCAGACATGTCTTACACT
1 CATGTCCCAGACAGGTCTTACACT
71141782 AGCTCTCGTA
Statistics
Matches: 102, Mismatches: 15, Indels: 11
0.80 0.12 0.09
Matches are distributed among these distances:
48 23 0.23
49 64 0.63
50 15 0.15
ACGTcount: A:0.23, C:0.28, G:0.21, T:0.28
Consensus pattern (48 bp):
CATGTCCCAGACAGGTCTTACACTGGCTTTCATATAGCGAGGCCGATG
Found at i:71141777 original size:97 final size:99
Alignment explanation
Indices: 71141609--71141788 Score: 267
Period size: 98 Copynumber: 1.8 Consensus size: 99
71141599 AGATGCCGAC
* *
71141609 GCCATGTCCCAGACATGGTCTTACACTGGCTTTCATATAGCGAGGCCAATGCTATGTCCCAGACA
1 GCCATGTCCCAGACATGGTCTTACACTAGCTTTCATATAGCAAGGCCAATGCTATGTCCCAGACA
*
71141674 GGTCTTACACTGGCTCTCATCTATCGGTGTCGAT
66 GGTCTTACACTAGCTCTCATCTATCGGTGTCGAT
* * *
71141708 GCCATGTCCTAGACA-GGTCTTACACTAGCTTGT-ATATCGCAAGGCCGATGC-ATGTCCCAGAC
1 GCCATGTCCCAGACATGGTCTTACACTAGCTT-TCATATAGCAAGGCCAATGCTATGTCCCAGAC
*
71141770 ATGTCTTACACTAGCTCTC
65 AGGTCTTACACTAGCTCTC
71141789 GTATCAATGC
Statistics
Matches: 73, Mismatches: 7, Indels: 4
0.87 0.08 0.05
Matches are distributed among these distances:
97 28 0.38
98 30 0.41
99 15 0.21
ACGTcount: A:0.22, C:0.29, G:0.21, T:0.28
Consensus pattern (99 bp):
GCCATGTCCCAGACATGGTCTTACACTAGCTTTCATATAGCAAGGCCAATGCTATGTCCCAGACA
GGTCTTACACTAGCTCTCATCTATCGGTGTCGAT
Found at i:71143508 original size:27 final size:26
Alignment explanation
Indices: 71143460--71143511 Score: 68
Period size: 27 Copynumber: 2.0 Consensus size: 26
71143450 GCAAGGCTGC
*
71143460 CAGATATTGTGACGAAGTCACCAGAA
1 CAGATATTGTGACGAAGCCACCAGAA
* *
71143486 CAGATATATGTGGCGAGGCCACCAGA
1 CAGATAT-TGTGACGAAGCCACCAGA
71143512 TTGCAGCGAG
Statistics
Matches: 22, Mismatches: 3, Indels: 1
0.85 0.12 0.04
Matches are distributed among these distances:
26 7 0.32
27 15 0.68
ACGTcount: A:0.35, C:0.21, G:0.27, T:0.17
Consensus pattern (26 bp):
CAGATATTGTGACGAAGCCACCAGAA
Found at i:71144196 original size:26 final size:26
Alignment explanation
Indices: 71144159--71144325 Score: 178
Period size: 26 Copynumber: 6.4 Consensus size: 26
71144149 GGGGCAAAAT
* *
71144159 GGTAATTTTACCCACAAGGGTATCTC
1 GGTAATTCTACCCACAAGGGTATTTC
* *
71144185 GGTAATTCTACCTACAGGGGTATTTC
1 GGTAATTCTACCCACAAGGGTATTTC
*
71144211 GGTATTTCTACCCTACAAGGGTATTTC
1 GGTAATTCTACCC-ACAAGGGTATTTC
* * *
71144238 GGCAATTCTATCTAC-AGTGGTATTTC
1 GGTAATTCTACCCACAAG-GGTATTTC
*
71144264 -GTAAGTCTACCCTAC-AGGGTATTTC
1 GGTAATTCTACCC-ACAAGGGTATTTC
* * *
71144289 GATAATTCTACCTACAGGGGTATTTC
1 GGTAATTCTACCCACAAGGGTATTTC
71144315 GGTAATTCTAC
1 GGTAATTCTAC
71144326 AACTTATCCA
Statistics
Matches: 116, Mismatches: 20, Indels: 10
0.79 0.14 0.07
Matches are distributed among these distances:
25 20 0.17
26 75 0.65
27 21 0.18
ACGTcount: A:0.25, C:0.21, G:0.20, T:0.35
Consensus pattern (26 bp):
GGTAATTCTACCCACAAGGGTATTTC
Found at i:71156813 original size:26 final size:27
Alignment explanation
Indices: 71156784--71156837 Score: 74
Period size: 27 Copynumber: 2.0 Consensus size: 27
71156774 TCACACTAGT
*
71156784 TAGTCATTT-ACGCACGAGGGGCAAAA
1 TAGTCATTTAACACACGAGGGGCAAAA
* *
71156810 TAGTCATTTAACACCCTAGGGGCAAAA
1 TAGTCATTTAACACACGAGGGGCAAAA
71156837 T
1 T
71156838 GGTAATTTTA
Statistics
Matches: 24, Mismatches: 3, Indels: 1
0.86 0.11 0.04
Matches are distributed among these distances:
26 9 0.38
27 15 0.62
ACGTcount: A:0.35, C:0.20, G:0.22, T:0.22
Consensus pattern (27 bp):
TAGTCATTTAACACACGAGGGGCAAAA
Found at i:71156886 original size:27 final size:27
Alignment explanation
Indices: 71156856--71157037 Score: 247
Period size: 27 Copynumber: 6.7 Consensus size: 27
71156846 TACGCCATAA
* *
71156856 GGGTATCTAGGTAATTCTACCCTACAG
1 GGGTATTTCGGTAATTCTACCCTACAG
* * * *
71156883 GGGTATTTCAGTATTTCTATCCTACAA
1 GGGTATTTCGGTAATTCTACCCTACAG
*
71156910 GGGTATTTCGGTAATTCTATCCTACAG
1 GGGTATTTCGGTAATTCTACCCTACAG
*
71156937 GGGTATTTCGGTAATTCTACCCTACAA
1 GGGTATTTCGGTAATTCTACCCTACAG
** *
71156964 GGGTATTTCAATAATTCTACGCTACAG
1 GGGTATTTCGGTAATTCTACCCTACAG
**
71156991 GGGTATTTCGGTAATTCTACATTACAG
1 GGGTATTTCGGTAATTCTACCCTACAG
71157018 GGGTATTTCGGTAATTCTAC
1 GGGTATTTCGGTAATTCTAC
71157038 AACTTATCCA
Statistics
Matches: 136, Mismatches: 19, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
27 136 1.00
ACGTcount: A:0.25, C:0.19, G:0.20, T:0.36
Consensus pattern (27 bp):
GGGTATTTCGGTAATTCTACCCTACAG
Found at i:71164958 original size:21 final size:19
Alignment explanation
Indices: 71164919--71164963 Score: 54
Period size: 20 Copynumber: 2.3 Consensus size: 19
71164909 CAGGACTAAA
* *
71164919 TCAAAAACATATAAAATTTT
1 TCAAAAAAAGATAAAA-TTT
71164939 TCAAAAAAAGATAAACATTT
1 TCAAAAAAAGATAAA-ATTT
71164959 TCAAA
1 TCAAA
71164964 TTGTAGGGGT
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
20 21 0.95
21 1 0.05
ACGTcount: A:0.58, C:0.11, G:0.02, T:0.29
Consensus pattern (19 bp):
TCAAAAAAAGATAAAATTT
Found at i:71166215 original size:30 final size:30
Alignment explanation
Indices: 71166174--71166236 Score: 83
Period size: 30 Copynumber: 2.1 Consensus size: 30
71166164 TTTACCAATC
* *
71166174 GATAGCTGAAGCTAAG-TTATTTCATAATTT
1 GATAGCCGAAGCTAAGCCT-TTTCATAATTT
*
71166204 GATAGCCGAAGCTATGCCTTTTCATAATTT
1 GATAGCCGAAGCTAAGCCTTTTCATAATTT
71166234 GAT
1 GAT
71166237 TGTCGTCACC
Statistics
Matches: 29, Mismatches: 3, Indels: 2
0.85 0.09 0.06
Matches are distributed among these distances:
30 28 0.97
31 1 0.03
ACGTcount: A:0.30, C:0.14, G:0.17, T:0.38
Consensus pattern (30 bp):
GATAGCCGAAGCTAAGCCTTTTCATAATTT
Found at i:71166254 original size:30 final size:30
Alignment explanation
Indices: 71166220--71166293 Score: 116
Period size: 29 Copynumber: 2.5 Consensus size: 30
71166210 CGAAGCTATG
*
71166220 CCTTTTCATAATTTGATTGTCGTCACCATC
1 CCTTTTCATAATTTGATGGTCGTCACCATC
71166250 CCTTTTCAT--TGTTGATGGTCGTCACCATC
1 CCTTTTCATAAT-TTGATGGTCGTCACCATC
71166279 CCTTTTCATAATTTG
1 CCTTTTCATAATTTG
71166294 GTAGTCGAAG
Statistics
Matches: 40, Mismatches: 1, Indels: 6
0.85 0.02 0.13
Matches are distributed among these distances:
28 1 0.03
29 26 0.65
30 12 0.30
31 1 0.03
ACGTcount: A:0.18, C:0.26, G:0.12, T:0.45
Consensus pattern (30 bp):
CCTTTTCATAATTTGATGGTCGTCACCATC
Found at i:71166311 original size:29 final size:30
Alignment explanation
Indices: 71166193--71166434 Score: 147
Period size: 30 Copynumber: 8.1 Consensus size: 30
71166183 AGCTAAGTTA
* *
71166193 TTTCATAATTTGATAGCCGAAGCTATGCCT
1 TTTCATAATTTGATAGTCGAAGCTATCCCT
* * *
71166223 TTTCATAATTTGATTGTCGTCA-CCATCCCT
1 TTTCATAATTTGATAGTCG-AAGCTATCCCT
* * *
71166253 TTTCAT--TGTTGATGGTCGTCA-CCATCCCT
1 TTTCATAAT-TTGATAGTCG-AAGCTATCCCT
* *
71166282 TTTCATAATTTGGTAGTCGAAGCTATCCTT
1 TTTCATAATTTGATAGTCGAAGCTATCCCT
** *
71166312 TTTCATAATTCAATA-TCCGAAGCTATCTCT
1 TTTCATAATTTGATAGT-CGAAGCTATCCCT
** * ** *
71166342 TTTCATTGTTTGATGGTCTTCA-CCATCCCT
1 TTTCATAATTTGATAGTC-GAAGCTATCCCT
* * *
71166372 TTTCACAACTTGATAG-CTGAGGCTATCCCT
1 TTTCATAATTTGATAGTC-GAAGCTATCCCT
* * *
71166402 TTTCATTAATTTCATAGCCAAAGCTATCCCT
1 TTTCA-TAATTTGATAGTCGAAGCTATCCCT
71166433 TT
1 TT
71166435 CCATTAGCCA
Statistics
Matches: 162, Mismatches: 39, Indels: 21
0.73 0.18 0.09
Matches are distributed among these distances:
28 1 0.01
29 30 0.19
30 106 0.65
31 24 0.15
32 1 0.01
ACGTcount: A:0.22, C:0.24, G:0.13, T:0.41
Consensus pattern (30 bp):
TTTCATAATTTGATAGTCGAAGCTATCCCT
Found at i:71166397 original size:90 final size:90
Alignment explanation
Indices: 71166247--71166439 Score: 248
Period size: 90 Copynumber: 2.1 Consensus size: 90
71166237 TGTCGTCACC
* * * *
71166247 ATCCCTTTTCATTGTTGATGGTCGTCACCATCCCTTTTCATAATTTGGTAGTCGAAGCTATCCTT
1 ATCCCTTTTCATTGTTGATGGTCGTCACCATCCCTTTTCACAACTTGATAGTCGAAGCTATCCCT
* *
71166312 TTTCA-TAA-TTCAATATCCGAAGCT
66 TTTCATTAATTTC-ATAGCCAAAGCT
* * *
71166336 ATCTCTTTTCATTGTTTGATGGTCTTCACCATCCCTTTTCACAACTTGATAG-CTGAGGCTATCC
1 ATCCCTTTTCATTG-TTGATGGTCGTCACCATCCCTTTTCACAACTTGATAGTC-GAAGCTATCC
71166400 CTTTTCATTAATTTCATAGCCAAAGCT
64 CTTTTCATTAATTTCATAGCCAAAGCT
*
71166427 ATCCCTTTCCATT
1 ATCCCTTTTCATT
71166440 AGCCAATGAT
Statistics
Matches: 89, Mismatches: 11, Indels: 6
0.84 0.10 0.06
Matches are distributed among these distances:
89 14 0.16
90 48 0.54
91 24 0.27
92 3 0.03
ACGTcount: A:0.22, C:0.25, G:0.12, T:0.41
Consensus pattern (90 bp):
ATCCCTTTTCATTGTTGATGGTCGTCACCATCCCTTTTCACAACTTGATAGTCGAAGCTATCCCT
TTTCATTAATTTCATAGCCAAAGCT
Found at i:71179521 original size:20 final size:21
Alignment explanation
Indices: 71179489--71179528 Score: 57
Period size: 20 Copynumber: 2.0 Consensus size: 21
71179479 CTATAAAAGT
71179489 TAGTTAAGTTTTA-GTTTGAC
1 TAGTTAAGTTTTATGTTTGAC
71179509 TAGTTAA-TGTTTATGTTTGA
1 TAGTTAAGT-TTTATGTTTGA
71179529 ATTCTAGTTC
Statistics
Matches: 18, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
19 1 0.06
20 11 0.61
21 6 0.33
ACGTcount: A:0.25, C:0.03, G:0.20, T:0.53
Consensus pattern (21 bp):
TAGTTAAGTTTTATGTTTGAC
Found at i:71185040 original size:40 final size:40
Alignment explanation
Indices: 71184985--71185165 Score: 276
Period size: 40 Copynumber: 4.5 Consensus size: 40
71184975 TATTCGGATG
* *
71184985 ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCAAGTTACT
1 ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCTAGTGACT
71185025 ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCTAGTGACT
1 ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCTAGTGACT
**
71185065 ATATCCGGGCTAAGTCCCGAAGGCATTCATGCTAGTGACT
1 ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCTAGTGACT
* *
71185105 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCGAGTTG-CT
1 ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCTAG-TGACT
*
71185145 ATATCC-GGCTAAATCCCGAAG
1 ATATCCGGGCTAAGTCCCGAAG
71185166 ATACTTGGGT
Statistics
Matches: 130, Mismatches: 10, Indels: 3
0.91 0.07 0.02
Matches are distributed among these distances:
39 13 0.10
40 115 0.88
41 2 0.02
ACGTcount: A:0.25, C:0.24, G:0.26, T:0.25
Consensus pattern (40 bp):
ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCTAGTGACT
Found at i:71189337 original size:21 final size:22
Alignment explanation
Indices: 71189311--71189351 Score: 66
Period size: 22 Copynumber: 1.9 Consensus size: 22
71189301 CTCTTAACAC
*
71189311 AGGGGC-ACACGCCCGTGTGGG
1 AGGGGCAACACACCCGTGTGGG
71189332 AGGGGCAACACACCCGTGTG
1 AGGGGCAACACACCCGTGTG
71189352 ACATTTCAAC
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
21 6 0.33
22 12 0.67
ACGTcount: A:0.20, C:0.29, G:0.41, T:0.10
Consensus pattern (22 bp):
AGGGGCAACACACCCGTGTGGG
Found at i:71193588 original size:27 final size:27
Alignment explanation
Indices: 71193558--71193735 Score: 169
Period size: 27 Copynumber: 6.6 Consensus size: 27
71193548 ATATTGAGTC
* *
71193558 CGCACACTCAGTGCTATATAATCAACT
1 CGCACACTTAGTGCTACATAATCAACT
* *
71193585 CGCACACTTAGTGCTACGTAATCAAAT
1 CGCACACTTAGTGCTACATAATCAACT
*
71193612 CGCACACTTAGTGCTACATAGTCAAACT
1 CGCACACTTAGTGCTACATAATC-AACT
** ** *
71193640 CGCACACTTAGTGCCGCATGGTCAATT
1 CGCACACTTAGTGCTACATAATCAACT
* ***
71193667 CGCACACTTAGTGC-ATCATATTCGTTT
1 CGCACACTTAGTGCTA-CATAATCAACT
* * *
71193694 CGCACACTTAGTGCAACATAGTCAAAT
1 CGCACACTTAGTGCTACATAATCAACT
*
71193721 CACACACTTAGTGCT
1 CGCACACTTAGTGCT
71193736 GTACAATTTA
Statistics
Matches: 126, Mismatches: 22, Indels: 6
0.82 0.14 0.04
Matches are distributed among these distances:
27 102 0.81
28 24 0.19
ACGTcount: A:0.30, C:0.28, G:0.15, T:0.27
Consensus pattern (27 bp):
CGCACACTTAGTGCTACATAATCAACT
Found at i:71205193 original size:10 final size:10
Alignment explanation
Indices: 71205167--71205218 Score: 65
Period size: 10 Copynumber: 5.5 Consensus size: 10
71205157 ATCACCCTTT
71205167 TTATT-TTTA
1 TTATTATTTA
71205176 TT-TTATTTA
1 TTATTATTTA
71205185 TTATTATTTA
1 TTATTATTTA
* *
71205195 TTTTTTTTTA
1 TTATTATTTA
71205205 TT-TTATTTA
1 TTATTATTTA
71205214 TTATT
1 TTATT
71205219 TTATACTTGT
Statistics
Matches: 37, Mismatches: 3, Indels: 5
0.82 0.07 0.11
Matches are distributed among these distances:
8 2 0.05
9 16 0.43
10 19 0.51
ACGTcount: A:0.21, C:0.00, G:0.00, T:0.79
Consensus pattern (10 bp):
TTATTATTTA
Found at i:71205220 original size:19 final size:19
Alignment explanation
Indices: 71205165--71205220 Score: 69
Period size: 19 Copynumber: 2.8 Consensus size: 19
71205155 TAATCACCCT
71205165 TTTTATTT-TTATTTTATTTA
1 TTTTATTTATTA-TTT-TTTA
*
71205185 TTATTATTTATTTTTTTTTA
1 TT-TTATTTATTATTTTTTA
71205205 TTTTATTTATTATTTT
1 TTTTATTTATTATTTT
71205221 ATACTTGTAT
Statistics
Matches: 32, Mismatches: 2, Indels: 5
0.82 0.05 0.13
Matches are distributed among these distances:
19 13 0.41
20 8 0.25
21 9 0.28
22 2 0.06
ACGTcount: A:0.20, C:0.00, G:0.00, T:0.80
Consensus pattern (19 bp):
TTTTATTTATTATTTTTTA
Found at i:71205772 original size:13 final size:13
Alignment explanation
Indices: 71205754--71205780 Score: 54
Period size: 13 Copynumber: 2.1 Consensus size: 13
71205744 TTTGTGATTA
71205754 TCATTGATGTGTT
1 TCATTGATGTGTT
71205767 TCATTGATGTGTT
1 TCATTGATGTGTT
71205780 T
1 T
71205781 TAGATTAAAT
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:0.15, C:0.07, G:0.22, T:0.56
Consensus pattern (13 bp):
TCATTGATGTGTT
Found at i:71207223 original size:30 final size:30
Alignment explanation
Indices: 71207183--71207239 Score: 96
Period size: 30 Copynumber: 1.9 Consensus size: 30
71207173 AAGACCATTT
*
71207183 CCACACGGGCTGAGCACACGCCCATGTGAG
1 CCACACGGGCTGACCACACGCCCATGTGAG
*
71207213 CCACATGGGCTGACCACACGCCCATGT
1 CCACACGGGCTGACCACACGCCCATGT
71207240 AACAGCCCGT
Statistics
Matches: 25, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
30 25 1.00
ACGTcount: A:0.23, C:0.39, G:0.26, T:0.12
Consensus pattern (30 bp):
CCACACGGGCTGACCACACGCCCATGTGAG
Found at i:71211083 original size:6 final size:6
Alignment explanation
Indices: 71211067--71211120 Score: 92
Period size: 6 Copynumber: 9.0 Consensus size: 6
71211057 TATAAATTAA
71211067 TATAA- TATAAT TATAAT ATATAAT TATAAT TATAAT TATAAT TATAAT
1 TATAAT TATAAT TATAAT -TATAAT TATAAT TATAAT TATAAT TATAAT
71211115 TATAAT
1 TATAAT
71211121 AAATAAAAAT
Statistics
Matches: 47, Mismatches: 0, Indels: 3
0.94 0.00 0.06
Matches are distributed among these distances:
5 5 0.11
6 36 0.77
7 6 0.13
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (6 bp):
TATAAT
Found at i:71211089 original size:18 final size:19
Alignment explanation
Indices: 71211066--71211126 Score: 99
Period size: 18 Copynumber: 3.3 Consensus size: 19
71211056 ATATAAATTA
71211066 ATATAA-TATAATTATAAT
1 ATATAATTATAATTATAAT
71211084 ATATAATTATAATTATAAT
1 ATATAATTATAATTATAAT
71211103 -TATAATTATAATTATAAT
1 ATATAATTATAATTATAAT
*
71211121 AAATAA
1 ATATAA
71211127 AAATTGACCT
Statistics
Matches: 40, Mismatches: 1, Indels: 3
0.91 0.02 0.07
Matches are distributed among these distances:
18 24 0.60
19 16 0.40
ACGTcount: A:0.56, C:0.00, G:0.00, T:0.44
Consensus pattern (19 bp):
ATATAATTATAATTATAAT
Found at i:71211548 original size:24 final size:23
Alignment explanation
Indices: 71211495--71211549 Score: 58
Period size: 23 Copynumber: 2.3 Consensus size: 23
71211485 ATAAATTATT
* *
71211495 TTCTTTTGTTTTTATTTATTTTA
1 TTCTTTTATTTTTATTTAGTTTA
*
71211518 TTATTTTATTTTCTA-TTAGTTTA
1 TTCTTTTATTTT-TATTTAGTTTA
71211541 TGTCTTTTA
1 T-TCTTTTA
71211550 CCACTAATAT
Statistics
Matches: 26, Mismatches: 4, Indels: 3
0.79 0.12 0.09
Matches are distributed among these distances:
23 18 0.69
24 8 0.31
ACGTcount: A:0.16, C:0.05, G:0.05, T:0.73
Consensus pattern (23 bp):
TTCTTTTATTTTTATTTAGTTTA
Found at i:71211983 original size:10 final size:10
Alignment explanation
Indices: 71211968--71212148 Score: 51
Period size: 9 Copynumber: 18.4 Consensus size: 10
71211958 GGCATATGAC
71211968 AAAAAATTAT
1 AAAAAATTAT
**
71211978 AAAAAAAAAAT
1 -AAAAAATTAT
71211989 AAATAAAAGTTAT
1 -AA-AAAA-TTAT
71212002 -AAAAATTAT
1 AAAAAATTAT
* **
71212011 TAAATTTTAAT
1 AAAAAATT-AT
71212022 AAAAATATT-T
1 AAAAA-ATTAT
*
71212032 AAAAATTTAT
1 AAAAAATTAT
** *
71212042 -TGAAATTAG
1 AAAAAATTAT
71212051 AAAAAA-TAT
1 AAAAAATTAT
*
71212060 -AAAAATCAT
1 AAAAAATTAT
*
71212069 AAAAATTTAT
1 AAAAAATTAT
*
71212079 AAAAAAACTAT
1 -AAAAAATTAT
*
71212090 -AAAATTTAT
1 AAAAAATTAT
* *
71212099 -AAAAGTTGT
1 AAAAAATTAT
71212108 --AAAATTAT
1 AAAAAATTAT
*
71212116 -TAAAA-TAT
1 AAAAAATTAT
* *
71212124 ATAGAATATAT
1 AAAAAAT-TAT
71212135 AAAAAATTAT
1 AAAAAATTAT
71212145 AAAA
1 AAAA
71212149 TTTTATAAAG
Statistics
Matches: 125, Mismatches: 31, Indels: 29
0.68 0.17 0.16
Matches are distributed among these distances:
8 14 0.11
9 37 0.30
10 33 0.26
11 33 0.26
12 6 0.05
13 2 0.02
ACGTcount: A:0.64, C:0.01, G:0.03, T:0.32
Consensus pattern (10 bp):
AAAAAATTAT
Found at i:71212003 original size:9 final size:9
Alignment explanation
Indices: 71211991--71212148 Score: 77
Period size: 9 Copynumber: 16.7 Consensus size: 9
71211981 AAAAAAATAA
*
71211991 ATAAAAGTT
1 ATAAAAATT
71212000 ATAAAAATT
1 ATAAAAATT
**
71212009 ATTAAATTTT
1 A-TAAAAATT
71212019 AATAAAAATAT
1 -ATAAAAAT-T
*
71212030 TTAAAAATTT
1 ATAAAAA-TT
**
71212040 ATTGAAATT
1 ATAAAAATT
* *
71212049 AGAAAAAAT
1 ATAAAAATT
*
71212058 ATAAAAATC
1 ATAAAAATT
71212067 ATAAAAATTT
1 ATAAAAA-TT
*
71212077 ATAAAAAAACT
1 AT--AAAAATT
*
71212088 ATAAAATTT
1 ATAAAAATT
*
71212097 ATAAAAGTT
1 ATAAAAATT
*
71212106 GT-AAAATT
1 ATAAAAATT
*
71212114 ATTAAAA-T
1 ATAAAAATT
*
71212122 ATATAGAATAT
1 ATA-AAAAT-T
71212133 ATAAAAAATT
1 AT-AAAAATT
71212143 ATAAAA
1 ATAAAA
71212149 TTTTATAAAG
Statistics
Matches: 110, Mismatches: 27, Indels: 24
0.68 0.17 0.15
Matches are distributed among these distances:
8 9 0.08
9 54 0.49
10 28 0.25
11 13 0.12
12 6 0.05
ACGTcount: A:0.61, C:0.01, G:0.04, T:0.34
Consensus pattern (9 bp):
ATAAAAATT
Found at i:71212154 original size:10 final size:9
Alignment explanation
Indices: 71212087--71212157 Score: 54
Period size: 9 Copynumber: 7.7 Consensus size: 9
71212077 ATAAAAAAAC
71212087 TATAAAATT
1 TATAAAATT
*
71212096 TATAAAAGT
1 TATAAAATT
*
71212105 TGTAAAA-T
1 TATAAAATT
*
71212113 TATTAAAATA
1 TA-TAAAATT
* *
71212123 TATAGAATA
1 TATAAAATT
*
71212132 TATAAAAAAT
1 TAT-AAAATT
71212142 TATAAAATTT
1 TATAAAA-TT
71212152 TATAAA
1 TATAAA
71212158 GTCGTAAGAA
Statistics
Matches: 49, Mismatches: 9, Indels: 7
0.75 0.14 0.11
Matches are distributed among these distances:
8 2 0.04
9 32 0.65
10 15 0.31
ACGTcount: A:0.58, C:0.00, G:0.04, T:0.38
Consensus pattern (9 bp):
TATAAAATT
Found at i:71212155 original size:20 final size:19
Alignment explanation
Indices: 71211991--71212157 Score: 87
Period size: 18 Copynumber: 8.7 Consensus size: 19
71211981 AAAAAAATAA
*
71211991 ATAAAAGTTAT-AAAAATT
1 ATAAAATTTATAAAAAATT
*
71212009 ATTAAATTTTAATAAAAATATT
1 A-TAAAATTT-ATAAAAA-ATT
**
71212031 -TAAAAATTTAT-TGAAATT
1 AT-AAAATTTATAAAAAATT
* ** *
71212049 AGAAAAAATAT-AAAAATC
1 ATAAAATTTATAAAAAATT
*
71212067 ATAAAAATTTATAAAAAAACT
1 AT-AAAATTTAT-AAAAAATT
*
71212088 ATAAAATTTAT-AAAAGTT
1 ATAAAATTTATAAAAAATT
* *
71212106 GTAAAA-TTAT-TAAAATAT
1 ATAAAATTTATAAAAAAT-T
* *
71212124 ATAGAATATATAAAAAATT
1 ATAAAATTTATAAAAAATT
71212143 ATAAAATTTTATAAA
1 ATAAAA-TTTATAAA
71212158 GTCGTAAGAA
Statistics
Matches: 109, Mismatches: 27, Indels: 24
0.68 0.17 0.15
Matches are distributed among these distances:
17 8 0.07
18 31 0.28
19 24 0.22
20 26 0.24
21 17 0.16
22 3 0.03
ACGTcount: A:0.60, C:0.01, G:0.04, T:0.35
Consensus pattern (19 bp):
ATAAAATTTATAAAAAATT
Found at i:71212411 original size:9 final size:9
Alignment explanation
Indices: 71212397--71212545 Score: 91
Period size: 9 Copynumber: 16.4 Consensus size: 9
71212387 TTTTGATGCA
71212397 TTTTATAAT
1 TTTTATAAT
*
71212406 TTTTATGAT
1 TTTTATAAT
*
71212415 TTTTATAAAA
1 TTTTAT-AAT
* *
71212425 TGTTACAAATTT
1 TTTTA-TAA--T
71212437 TTTTATAATT
1 TTTTATAA-T
*
71212447 TTTTCTAA-
1 TTTTATAAT
71212455 TTTTA-AAT
1 TTTTATAAT
71212463 ATTTTAT-AT
1 -TTTTATAAT
71212472 TTTTATTAAAT
1 TTTTA-T-AAT
71212483 TTTTATAAT
1 TTTTATAAT
71212492 TTTT-T-AT
1 TTTTATAAT
*
71212499 TTTTATTAAAA
1 TTTTA-T-AAT
71212510 TTTTATAA-
1 TTTTATAAT
71212518 TTTTAT-A-
1 TTTTATAAT
71212525 TTTTATAA-
1 TTTTATAAT
71212533 TTTTATAAT
1 TTTTATAAT
71212542 TTTT
1 TTTT
71212546 TTGTCATATG
Statistics
Matches: 113, Mismatches: 11, Indels: 32
0.72 0.07 0.21
Matches are distributed among these distances:
7 15 0.13
8 25 0.22
9 36 0.32
10 18 0.16
11 15 0.13
12 4 0.04
ACGTcount: A:0.33, C:0.01, G:0.01, T:0.64
Consensus pattern (9 bp):
TTTTATAAT
Found at i:71212475 original size:8 final size:8
Alignment explanation
Indices: 71212436--71212545 Score: 53
Period size: 8 Copynumber: 12.6 Consensus size: 8
71212426 GTTACAAATT
71212436 TTTTTATAA
1 TTTTTAT-A
*
71212445 TTTTTTCTA
1 -TTTTTATA
* *
71212454 ATTTTAAA
1 TTTTTATA
71212462 TATTTTATA
1 T-TTTTATA
71212471 TTTTTATTAAA
1 TTTTTA-T--A
71212482 TTTTTATAA
1 TTTTTAT-A
71212491 TTTTT-TA
1 TTTTTATA
71212498 TTTTTATTAAA
1 TTTTTA-T--A
*
71212509 ATTTTATA
1 TTTTTATA
*
71212517 ATTTTATA
1 TTTTTATA
71212525 -TTTTATA
1 TTTTTATA
*
71212532 ATTTTATAA
1 TTTTTAT-A
71212541 TTTTT
1 TTTTT
71212546 TTGTCATATG
Statistics
Matches: 82, Mismatches: 8, Indels: 21
0.74 0.07 0.19
Matches are distributed among these distances:
7 13 0.16
8 26 0.32
9 22 0.27
10 8 0.10
11 13 0.16
ACGTcount: A:0.32, C:0.01, G:0.00, T:0.67
Consensus pattern (8 bp):
TTTTTATA
Found at i:71212475 original size:17 final size:18
Alignment explanation
Indices: 71212436--71212545 Score: 59
Period size: 17 Copynumber: 6.8 Consensus size: 18
71212426 GTTACAAATT
* *
71212436 TTTTTATAATTTTTTCTA
1 TTTTTATAATATTTTATA
*
71212454 ATTTTA-AATATTTTATA
1 TTTTTATAATATTTTATA
71212471 TTTTTAT--TA----A-A
1 TTTTTATAATATTTTATA
71212482 TTTTTATAAT-TTTT-TA
1 TTTTTATAATATTTTATA
*
71212498 TTTTTATTAAAATTTTATA
1 TTTTTA-TAATATTTTATA
*
71212517 -ATTT-T-ATATTTTATA
1 TTTTTATAATATTTTATA
*
71212532 ATTTTATAAT-TTTT
1 TTTTTATAATATTTT
71212546 TTGTCATATG
Statistics
Matches: 70, Mismatches: 8, Indels: 29
0.65 0.07 0.27
Matches are distributed among these distances:
11 8 0.11
12 1 0.01
13 1 0.01
15 9 0.13
16 13 0.19
17 22 0.31
18 14 0.20
19 2 0.03
ACGTcount: A:0.32, C:0.01, G:0.00, T:0.67
Consensus pattern (18 bp):
TTTTTATAATATTTTATA
Found at i:71212486 original size:19 final size:21
Alignment explanation
Indices: 71212457--71212495 Score: 64
Period size: 20 Copynumber: 2.0 Consensus size: 21
71212447 TTTTCTAATT
71212457 TTAAATATTTTAT-ATTTTTA
1 TTAAATATTTTATAATTTTTA
71212477 TTAAAT-TTTTATAATTTTT
1 TTAAATATTTTATAATTTTT
71212496 TATTTTTATT
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
19 6 0.33
20 12 0.67
ACGTcount: A:0.33, C:0.00, G:0.00, T:0.67
Consensus pattern (21 bp):
TTAAATATTTTATAATTTTTA
Found at i:71212494 original size:46 final size:50
Alignment explanation
Indices: 71212436--71212546 Score: 135
Period size: 46 Copynumber: 2.3 Consensus size: 50
71212426 GTTACAAATT
*
71212436 TTTTTATAATTTTTTCTAATT-TTAAATATTTTAT-ATTTT-TA-TTA-AA
1 TTTTTATAATTTTTTATAATTATTAAA-ATTTTATAATTTTATATTTATAA
**
71212482 TTTTTATAATTTTTTATTTTTATTAAAATTTTATAATTTTATATTTTATAA
1 TTTTTATAATTTTTTATAATTATTAAAATTTTATAATTTTATA-TTTATAA
71212533 -TTTTATAATTTTTT
1 TTTTTATAATTTTTT
71212547 TGTCATATGT
Statistics
Matches: 56, Mismatches: 3, Indels: 8
0.84 0.04 0.12
Matches are distributed among these distances:
46 25 0.45
47 10 0.18
48 2 0.04
50 17 0.30
51 2 0.04
ACGTcount: A:0.32, C:0.01, G:0.00, T:0.68
Consensus pattern (50 bp):
TTTTTATAATTTTTTATAATTATTAAAATTTTATAATTTTATATTTATAA
Found at i:71219660 original size:28 final size:28
Alignment explanation
Indices: 71219620--71219711 Score: 89
Period size: 28 Copynumber: 3.3 Consensus size: 28
71219610 AAACGAAATC
*
71219620 CGCACACACATTGCCCACTGACCGATCT
1 CGCACACACATTGCCCACTAACCGATCT
* *** *
71219648 CGCACACATATTGCTCGGTTAA-AGAAT-T
1 CGCACACACATTGC-CCACTAACCG-ATCT
*
71219676 CGCACACACAGTGCCCACTAACCGATCT
1 CGCACACACATTGCCCACTAACCGATCT
71219704 CGCACACA
1 CGCACACA
71219712 TAGTGCTCGG
Statistics
Matches: 48, Mismatches: 12, Indels: 8
0.71 0.18 0.12
Matches are distributed among these distances:
27 6 0.12
28 37 0.77
29 5 0.10
ACGTcount: A:0.29, C:0.37, G:0.15, T:0.18
Consensus pattern (28 bp):
CGCACACACATTGCCCACTAACCGATCT
Found at i:71219681 original size:56 final size:56
Alignment explanation
Indices: 71219620--71219746 Score: 227
Period size: 56 Copynumber: 2.3 Consensus size: 56
71219610 AAACGAAATC
* * *
71219620 CGCACACACATTGCCCACTGACCGATCTCGCACACATATTGCTCGGTTAAAGAATT
1 CGCACACACAGTGCCCACTAACCGATCTCGCACACATAGTGCTCGGTTAAAGAATT
71219676 CGCACACACAGTGCCCACTAACCGATCTCGCACACATAGTGCTCGGTTAAAGAATT
1 CGCACACACAGTGCCCACTAACCGATCTCGCACACATAGTGCTCGGTTAAAGAATT
71219732 CGCACACACAGTGCC
1 CGCACACACAGTGCC
71219747 TCAATTCATT
Statistics
Matches: 68, Mismatches: 3, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
56 68 1.00
ACGTcount: A:0.29, C:0.34, G:0.17, T:0.20
Consensus pattern (56 bp):
CGCACACACAGTGCCCACTAACCGATCTCGCACACATAGTGCTCGGTTAAAGAATT
Found at i:71219734 original size:28 final size:28
Alignment explanation
Indices: 71219647--71219745 Score: 103
Period size: 28 Copynumber: 3.5 Consensus size: 28
71219637 CTGACCGATC
* *
71219647 TCGCACACATATTGCTCGGTTAAAGAAT
1 TCGCACACACAGTGCTCGGTTAAAGAAT
*** *
71219675 TCGCACACACAGTGC-CCACTAACCG-AT
1 TCGCACACACAGTGCTCGGTTAA-AGAAT
*
71219702 CTCGCACACATAGTGCTCGGTTAAAGAAT
1 -TCGCACACACAGTGCTCGGTTAAAGAAT
71219731 TCGCACACACAGTGC
1 TCGCACACACAGTGC
71219746 CTCAATTCAT
Statistics
Matches: 55, Mismatches: 12, Indels: 8
0.73 0.16 0.11
Matches are distributed among these distances:
27 6 0.11
28 43 0.78
29 6 0.11
ACGTcount: A:0.30, C:0.30, G:0.18, T:0.21
Consensus pattern (28 bp):
TCGCACACACAGTGCTCGGTTAAAGAAT
Found at i:71219769 original size:25 final size:25
Alignment explanation
Indices: 71219729--71219783 Score: 76
Period size: 25 Copynumber: 2.2 Consensus size: 25
71219719 CGGTTAAAGA
71219729 ATTCGCACACACAGTGCCTCA-ATTC
1 ATTCGCACACACAGTGCCT-ATATTC
* *
71219754 ATTCGCACCCATAGTGCCTATATTC
1 ATTCGCACACACAGTGCCTATATTC
71219779 ATTCG
1 ATTCG
71219784 TTATTACACA
Statistics
Matches: 27, Mismatches: 2, Indels: 2
0.87 0.06 0.06
Matches are distributed among these distances:
24 1 0.04
25 26 0.96
ACGTcount: A:0.25, C:0.33, G:0.13, T:0.29
Consensus pattern (25 bp):
ATTCGCACACACAGTGCCTATATTC
Found at i:71219963 original size:43 final size:43
Alignment explanation
Indices: 71219914--71220044 Score: 190
Period size: 43 Copynumber: 3.0 Consensus size: 43
71219904 CACCGGTATT
* *
71219914 AAGCCTGCTAGGCACGAAGACCCAAATACACATCACCGGCACG
1 AAGCCTGCTAGGCACGAAGGCCCGAATACACATCACCGGCACG
* * *
71219957 AAGCCTGCTAGGAACGAAGGCCCGAATACACATCACCAGCACA
1 AAGCCTGCTAGGCACGAAGGCCCGAATACACATCACCGGCACG
* * *
71220000 AAGCCTGCTAGGCATGAAGGCCTGATTACACATCACCGGCACG
1 AAGCCTGCTAGGCACGAAGGCCCGAATACACATCACCGGCACG
71220043 AA
1 AA
71220045 TGCCCTTCAG
Statistics
Matches: 77, Mismatches: 11, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
43 77 1.00
ACGTcount: A:0.34, C:0.32, G:0.22, T:0.11
Consensus pattern (43 bp):
AAGCCTGCTAGGCACGAAGGCCCGAATACACATCACCGGCACG
Found at i:71220098 original size:40 final size:40
Alignment explanation
Indices: 71220033--71220193 Score: 259
Period size: 40 Copynumber: 4.0 Consensus size: 40
71220023 GATTACACAT
* * * *
71220033 CACCGGCACGAATGCCCTTCAGGACTTACCCCGGATATAA
1 CACCAGCACGAATGCTCTTCGGGACTTAGCCCGGATATAA
*
71220073 CACCAGCATGAATGCTCTTCGGGACTTAGCCCGGATATAA
1 CACCAGCACGAATGCTCTTCGGGACTTAGCCCGGATATAA
*
71220113 CACCAGCACAAATGCTCTTCGGGACTTAGCCCGGATATAA
1 CACCAGCACGAATGCTCTTCGGGACTTAGCCCGGATATAA
*
71220153 CACCAGCACGAATGCTCTTCGGTACTTAGCCCGGATATAA
1 CACCAGCACGAATGCTCTTCGGGACTTAGCCCGGATATAA
71220193 C
1 C
71220194 TCTCAATTCT
Statistics
Matches: 112, Mismatches: 9, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
40 112 1.00
ACGTcount: A:0.28, C:0.31, G:0.20, T:0.20
Consensus pattern (40 bp):
CACCAGCACGAATGCTCTTCGGGACTTAGCCCGGATATAA
Found at i:71225435 original size:27 final size:27
Alignment explanation
Indices: 71225405--71225641 Score: 249
Period size: 27 Copynumber: 8.7 Consensus size: 27
71225395 GGATGTCACA
*
71225405 AATTCTGTCAATCGAGGGTAAAACGGT
1 AATTCTGTAAATCGAGGGTAAAACGGT
*
71225432 AATTCTGTAAATCGAGGGTAAAACAGT
1 AATTCTGTAAATCGAGGGTAAAACGGT
* * *
71225459 AATTTTGTAAATCGAGGATAAAATGGT
1 AATTCTGTAAATCGAGGGTAAAACGGT
* * ***
71225486 AATTCTATAAATCGAGGCTAAAATAAT
1 AATTCTGTAAATCGAGGGTAAAACGGT
* *
71225513 AATTCTATAAATCGAGGGTAAAATGGT
1 AATTCTGTAAATCGAGGGTAAAACGGT
* ** *
71225540 AATTTTGTAAATTAAGGGTAAAACGAT
1 AATTCTGTAAATCGAGGGTAAAACGGT
* * **
71225567 AATTTTATAAATCGAGGGTAAAATAGT
1 AATTCTGTAAATCGAGGGTAAAACGGT
**
71225594 AATTCTGTAAATCGAGGGTAAAACAAT
1 AATTCTGTAAATCGAGGGTAAAACGGT
* *
71225621 AATTTTTGTAATTCGAGGGTA
1 AA-TTCTGTAAATCGAGGGTA
71225642 CTTTGATAAT
Statistics
Matches: 177, Mismatches: 32, Indels: 1
0.84 0.15 0.00
Matches are distributed among these distances:
27 161 0.91
28 16 0.09
ACGTcount: A:0.41, C:0.08, G:0.20, T:0.31
Consensus pattern (27 bp):
AATTCTGTAAATCGAGGGTAAAACGGT
Found at i:71225481 original size:54 final size:54
Alignment explanation
Indices: 71225405--71225641 Score: 312
Period size: 54 Copynumber: 4.4 Consensus size: 54
71225395 GGATGTCACA
* * * *
71225405 AATTCTGTCAATCGAGGGTAAAACGGTAATTCTGTAAATCGAGGGTAAAACAGT
1 AATTTTGTAAATCGAGGGTAAAATGGTAATTCTGTAAATCGAGGGTAAAACAAT
* * * *
71225459 AATTTTGTAAATCGAGGATAAAATGGTAATTCTATAAATCGAGGCTAAAATAAT
1 AATTTTGTAAATCGAGGGTAAAATGGTAATTCTGTAAATCGAGGGTAAAACAAT
* * * ** *
71225513 AATTCTATAAATCGAGGGTAAAATGGTAATTTTGTAAATTAAGGGTAAAACGAT
1 AATTTTGTAAATCGAGGGTAAAATGGTAATTCTGTAAATCGAGGGTAAAACAAT
* *
71225567 AATTTTATAAATCGAGGGTAAAATAGTAATTCTGTAAATCGAGGGTAAAACAAT
1 AATTTTGTAAATCGAGGGTAAAATGGTAATTCTGTAAATCGAGGGTAAAACAAT
*
71225621 AATTTTTGTAATTCGAGGGTA
1 AA-TTTTGTAAATCGAGGGTA
71225642 CTTTGATAAT
Statistics
Matches: 156, Mismatches: 26, Indels: 1
0.85 0.14 0.01
Matches are distributed among these distances:
54 140 0.90
55 16 0.10
ACGTcount: A:0.41, C:0.08, G:0.20, T:0.31
Consensus pattern (54 bp):
AATTTTGTAAATCGAGGGTAAAATGGTAATTCTGTAAATCGAGGGTAAAACAAT
Found at i:71225542 original size:81 final size:81
Alignment explanation
Indices: 71225431--71225631 Score: 285
Period size: 81 Copynumber: 2.5 Consensus size: 81
71225421 GGTAAAACGG
* * *
71225431 TAATTCTGTAAATCGAGGGTAAAACAGTAATTTTGTAAATCGAGGATAAAATGGTAATTCTATAA
1 TAATTCTGTAAATCGAGGGTAAAACAGTAATTTTGTAAATCAAGGATAAAACGATAATTCTATAA
71225496 ATCGAGGCTAAAATAA
66 ATCGAGGCTAAAATAA
* ** * * *
71225512 TAATTCTATAAATCGAGGGTAAAATGGTAATTTTGTAAATTAAGGGTAAAACGATAATTTTATAA
1 TAATTCTGTAAATCGAGGGTAAAACAGTAATTTTGTAAATCAAGGATAAAACGATAATTCTATAA
* *
71225577 ATCGAGGGTAAAATAG
66 ATCGAGGCTAAAATAA
*
71225593 TAATTCTGTAAATCGAGGGTAAAACAATAATTTTTGTAA
1 TAATTCTGTAAATCGAGGGTAAAACAGTAA-TTTTGTAA
71225632 TTCGAGGGTA
Statistics
Matches: 104, Mismatches: 15, Indels: 1
0.87 0.12 0.01
Matches are distributed among these distances:
81 96 0.92
82 8 0.08
ACGTcount: A:0.43, C:0.07, G:0.18, T:0.32
Consensus pattern (81 bp):
TAATTCTGTAAATCGAGGGTAAAACAGTAATTTTGTAAATCAAGGATAAAACGATAATTCTATAA
ATCGAGGCTAAAATAA
Found at i:71225693 original size:27 final size:27
Alignment explanation
Indices: 71225663--71225787 Score: 121
Period size: 27 Copynumber: 4.7 Consensus size: 27
71225653 TTACATGTCA
* *
71225663 AGGGTATTTCAGTAATTTTGCAAACTG
1 AGGGTATTTCGGTAATTTTACAAACTG
*
71225690 AGGGTATTTCGGTAATTTTAC-AATTCG
1 AGGGTATTTCGGTAATTTTACAAACT-G
* * * *
71225717 AGGATATTTGGGTAATTTTATAAACCG
1 AGGGTATTTCGGTAATTTTACAAACTG
*
71225744 GGGGTACTTT-GGTAATTTTAC-AACTG
1 AGGGTA-TTTCGGTAATTTTACAAACTG
* *
71225770 GGGGTATTTCTGTAATTT
1 AGGGTATTTCGGTAATTT
71225788 GGTAAACTGA
Statistics
Matches: 81, Mismatches: 13, Indels: 9
0.79 0.13 0.09
Matches are distributed among these distances:
25 3 0.04
26 20 0.25
27 53 0.65
28 5 0.06
ACGTcount: A:0.26, C:0.10, G:0.24, T:0.40
Consensus pattern (27 bp):
AGGGTATTTCGGTAATTTTACAAACTG
Found at i:71225766 original size:54 final size:55
Alignment explanation
Indices: 71225634--71225766 Score: 155
Period size: 54 Copynumber: 2.5 Consensus size: 55
71225624 TTTTGTAATT
* * *
71225634 CGAGGGTACTTTGATAATTTTAC-ATGTCAAGGGTATTTCAGTAATTTTGCAAAC
1 CGAGGGTACTTTGGTAATTTTACAATGTCAAGGATATTTCAGTAATTTTACAAAC
* * ** *
71225688 TGAGGGTA-TTTCGGTAATTTTACAAT-TCGAGGATATTTGGGTAATTTTATAAAC
1 CGAGGGTACTTT-GGTAATTTTACAATGTCAAGGATATTTCAGTAATTTTACAAAC
*
71225742 CGGGGGTACTTTGGTAATTTTACAA
1 CGAGGGTACTTTGGTAATTTTACAA
71225767 CTGGGGGTAT
Statistics
Matches: 66, Mismatches: 10, Indels: 6
0.80 0.12 0.07
Matches are distributed among these distances:
53 3 0.05
54 58 0.88
55 5 0.08
ACGTcount: A:0.29, C:0.11, G:0.23, T:0.38
Consensus pattern (55 bp):
CGAGGGTACTTTGGTAATTTTACAATGTCAAGGATATTTCAGTAATTTTACAAAC
Found at i:71232530 original size:38 final size:38
Alignment explanation
Indices: 71232487--71232562 Score: 152
Period size: 38 Copynumber: 2.0 Consensus size: 38
71232477 TTCATCCTTT
71232487 TTCATTTCTTTTGGCCGAAAATTCTAAGGAAGGAGGAA
1 TTCATTTCTTTTGGCCGAAAATTCTAAGGAAGGAGGAA
71232525 TTCATTTCTTTTGGCCGAAAATTCTAAGGAAGGAGGAA
1 TTCATTTCTTTTGGCCGAAAATTCTAAGGAAGGAGGAA
71232563 GGAGTTCTTG
Statistics
Matches: 38, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
38 38 1.00
ACGTcount: A:0.32, C:0.13, G:0.24, T:0.32
Consensus pattern (38 bp):
TTCATTTCTTTTGGCCGAAAATTCTAAGGAAGGAGGAA
Found at i:71233843 original size:40 final size:40
Alignment explanation
Indices: 71233749--71233893 Score: 175
Period size: 40 Copynumber: 3.6 Consensus size: 40
71233739 TACTCGAATG
* *
71233749 ATATCCGGGCTAAGTCCCGAAGGCTTTTGTACTAAGCGACT
1 ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCT-AGCGACT
* **
71233790 ACATCCGCACTAAGAT-CCGAAGGCATTTGTGCTAGCGACT
1 ATATCCGGGCTAAG-TCCCGAAGGCATTTGTGCTAGCGACT
* * *
71233830 ATATCCGGGCTAAGTCCCGAAGGCATTTATGCTAGTGACC
1 ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCTAGCGACT
* *
71233870 ATATCCGGGTTAAGACCCGAAGGC
1 ATATCCGGGCTAAGTCCCGAAGGC
71233894 CTTGTGCGAG
Statistics
Matches: 89, Mismatches: 13, Indels: 5
0.83 0.12 0.05
Matches are distributed among these distances:
39 1 0.01
40 61 0.69
41 26 0.29
42 1 0.01
ACGTcount: A:0.26, C:0.26, G:0.25, T:0.23
Consensus pattern (40 bp):
ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCTAGCGACT
Found at i:71241827 original size:40 final size:40
Alignment explanation
Indices: 71241733--71241877 Score: 202
Period size: 40 Copynumber: 3.6 Consensus size: 40
71241723 TACTCGAATG
*
71241733 ATATCCGGGCTAAGTCCCGAAGGCTTTTGTGCTAAGCGACT
1 ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCT-AGCGACT
*
71241774 ATATCCGGACTAAGAT-CCGAAGGCATTTGTGCTAGCGACT
1 ATATCCGGGCTAAG-TCCCGAAGGCATTTGTGCTAGCGACT
* * *
71241814 ATATCCGGGCTAAGTCCCGAAGGCATTTATGCTAGTGACC
1 ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCTAGCGACT
* *
71241854 ATATCCGGGTTAAGACCCGAAGGC
1 ATATCCGGGCTAAGTCCCGAAGGC
71241878 CTTGTGCGAG
Statistics
Matches: 94, Mismatches: 8, Indels: 5
0.88 0.07 0.05
Matches are distributed among these distances:
39 1 0.01
40 63 0.67
41 29 0.31
42 1 0.01
ACGTcount: A:0.26, C:0.24, G:0.26, T:0.24
Consensus pattern (40 bp):
ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCTAGCGACT
Found at i:71243515 original size:22 final size:24
Alignment explanation
Indices: 71243490--71243535 Score: 62
Period size: 22 Copynumber: 2.0 Consensus size: 24
71243480 ATTCTATGCT
71243490 AATTGATAA-AGAT-TAA-TATATA
1 AATT-ATAATAGATATAATTATATA
71243512 AATTATAATAGATATAATTATATA
1 AATTATAATAGATATAATTATATA
71243536 TTAAAGATTA
Statistics
Matches: 21, Mismatches: 0, Indels: 4
0.84 0.00 0.16
Matches are distributed among these distances:
21 4 0.19
22 8 0.38
23 3 0.14
24 6 0.29
ACGTcount: A:0.54, C:0.00, G:0.07, T:0.39
Consensus pattern (24 bp):
AATTATAATAGATATAATTATATA
Found at i:71254970 original size:24 final size:24
Alignment explanation
Indices: 71254938--71254984 Score: 94
Period size: 24 Copynumber: 2.0 Consensus size: 24
71254928 TGATTGACTA
71254938 TCATCTAGGGAAAGCAAACGTAGC
1 TCATCTAGGGAAAGCAAACGTAGC
71254962 TCATCTAGGGAAAGCAAACGTAG
1 TCATCTAGGGAAAGCAAACGTAG
71254985 TTGCTGATGC
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
24 23 1.00
ACGTcount: A:0.38, C:0.19, G:0.26, T:0.17
Consensus pattern (24 bp):
TCATCTAGGGAAAGCAAACGTAGC
Found at i:71282134 original size:30 final size:30
Alignment explanation
Indices: 71282100--71282160 Score: 77
Period size: 30 Copynumber: 2.0 Consensus size: 30
71282090 TCCTTAACTC
71282100 AAACTTTGGAAAAATTACAATTTTGCCCCT
1 AAACTTTGGAAAAATTACAATTTTGCCCCT
* * * * *
71282130 AAACTTTTGCATATTTACACTTTTGCCCCT
1 AAACTTTGGAAAAATTACAATTTTGCCCCT
71282160 A
1 A
71282161 GGCTCGGGAA
Statistics
Matches: 26, Mismatches: 5, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
30 26 1.00
ACGTcount: A:0.31, C:0.23, G:0.08, T:0.38
Consensus pattern (30 bp):
AAACTTTGGAAAAATTACAATTTTGCCCCT
Found at i:71289409 original size:17 final size:17
Alignment explanation
Indices: 71289389--71289427 Score: 60
Period size: 17 Copynumber: 2.3 Consensus size: 17
71289379 CTTTTATTAA
71289389 GTTTTTAAGATTCATTC
1 GTTTTTAAGATTCATTC
* *
71289406 GTTTTTAAGATTTATTT
1 GTTTTTAAGATTCATTC
71289423 GTTTT
1 GTTTT
71289428 CTTTTTCCAA
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
17 20 1.00
ACGTcount: A:0.21, C:0.05, G:0.13, T:0.62
Consensus pattern (17 bp):
GTTTTTAAGATTCATTC
Found at i:71291380 original size:40 final size:40
Alignment explanation
Indices: 71291320--71291502 Score: 217
Period size: 40 Copynumber: 4.6 Consensus size: 40
71291310 TATTCGAATG
* *
71291320 ATATCCGGGCTAAGTCCCGAAGGCTTTTATGCTAGTGACT
1 ATATCCGGGCTAAGACCCGAAGGCATTTATGCTAGTGACT
* * * * *
71291360 ATATCCGGACTGAGATCCGAAGGCATTTGTGCGAGTTG-CT
1 ATATCCGGGCTAAGACCCGAAGGCATTTATGCTAG-TGACT
* * ** *
71291400 ATATCTGGGCTAAGACCCGAAGGCATTTGT-CTAGCAATT
1 ATATCCGGGCTAAGACCCGAAGGCATTTATGCTAGTGACT
* *
71291439 ATATCCGGGCTAAGTCCCGAAGGCATTTATGCTAGTGACC
1 ATATCCGGGCTAAGACCCGAAGGCATTTATGCTAGTGACT
71291479 ATATCCGGGCTAAGACCCGAAGGC
1 ATATCCGGGCTAAGACCCGAAGGC
71291503 CTTGTGCGAG
Statistics
Matches: 117, Mismatches: 23, Indels: 6
0.80 0.16 0.04
Matches are distributed among these distances:
39 31 0.26
40 84 0.72
41 2 0.02
ACGTcount: A:0.25, C:0.23, G:0.26, T:0.26
Consensus pattern (40 bp):
ATATCCGGGCTAAGACCCGAAGGCATTTATGCTAGTGACT
Found at i:71291520 original size:79 final size:78
Alignment explanation
Indices: 71291320--71291538 Score: 219
Period size: 79 Copynumber: 2.8 Consensus size: 78
71291310 TATTCGAATG
* * * * *
71291320 ATATCCGGGCTAAGTCCCGAAGGCTTTTATGCTAGTGACTATATCCGGACTGAGAT-CCGAAGGC
1 ATATCCGGGCTAAGACCCGAAGGC-ATT-TGCTAGTGATTATATCCGGGCTAAG-TCCCGAAGGC
* *
71291384 ATTTGTGCGAGTTGCT
63 ATTTATGCGAGTTGCC
* **
71291400 ATATCTGGGCTAAGACCCGAAGGCATTTGTCTAGCAATTATATCCGGGCTAAGTCCCGAAGGCAT
1 ATATCCGGGCTAAGACCCGAAGGCATTTG-CTAGTGATTATATCCGGGCTAAGTCCCGAAGGCAT
*
71291465 TTATGCTAG-TGACC
65 TTATGCGAGTTG-CC
* * * * *
71291479 ATATCCGGGCTAAGACCCGAAGGCCTTGTGCGAGTGGTTATATCC-GGCTAAATCTCGAAG
1 ATATCCGGGCTAAGACCCGAAGGCATT-TGCTAGTGATTATATCCGGGCTAAGTCCCGAAG
71291539 ATACTTGGGT
Statistics
Matches: 116, Mismatches: 19, Indels: 10
0.80 0.13 0.07
Matches are distributed among these distances:
78 18 0.16
79 74 0.64
80 24 0.21
ACGTcount: A:0.25, C:0.22, G:0.26, T:0.26
Consensus pattern (78 bp):
ATATCCGGGCTAAGACCCGAAGGCATTTGCTAGTGATTATATCCGGGCTAAGTCCCGAAGGCATT
TATGCGAGTTGCC
Found at i:71304060 original size:54 final size:54
Alignment explanation
Indices: 71303996--71304104 Score: 200
Period size: 54 Copynumber: 2.0 Consensus size: 54
71303986 TTTGAGAGAC
71303996 TGGTTCAGAATGACTACGTGATCCCCTATTCTGACTTGGAAAAATAATTAACAA
1 TGGTTCAGAATGACTACGTGATCCCCTATTCTGACTTGGAAAAATAATTAACAA
* *
71304050 TGGTTCAGAATGACTACGTGATCCCCTGTTCTGACTTGGAAAAATCATTAACAA
1 TGGTTCAGAATGACTACGTGATCCCCTATTCTGACTTGGAAAAATAATTAACAA
71304104 T
1 T
71304105 TGTAAAAAAA
Statistics
Matches: 53, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
54 53 1.00
ACGTcount: A:0.33, C:0.19, G:0.17, T:0.30
Consensus pattern (54 bp):
TGGTTCAGAATGACTACGTGATCCCCTATTCTGACTTGGAAAAATAATTAACAA
Found at i:71307601 original size:27 final size:27
Alignment explanation
Indices: 71307571--71307748 Score: 155
Period size: 27 Copynumber: 6.6 Consensus size: 27
71307561 ATATTGAGTC
* * *
71307571 CGCACACTCAGTGCTATATAATGAACT
1 CGCACACTTAGTGCTACATAATAAACT
71307598 CGCACACTTAGTGCTACATAATCAAA-T
1 CGCACACTTAGTGCTACATAAT-AAACT
*
71307625 CGCACACTTAGTGCTACATAGTCAAACT
1 CGCACACTTAGTGCTACATAAT-AAACT
** ** * *
71307653 CGCACACTTAGTGCCGCATGGTCAATT
1 CGCACACTTAGTGCTACATAATAAACT
* * **
71307680 CGCACACTTAGTGC-ATCATATTCATTT
1 CGCACACTTAGTGCTA-CATAATAAACT
* *
71307707 CGCACACTTAGTGCAACATAGTCAAA-T
1 CGCACACTTAGTGCTACATAAT-AAACT
71307734 CGCACACTTAGTGCT
1 CGCACACTTAGTGCT
71307749 GTACAATTTA
Statistics
Matches: 129, Mismatches: 17, Indels: 10
0.83 0.11 0.06
Matches are distributed among these distances:
27 105 0.81
28 24 0.19
ACGTcount: A:0.30, C:0.28, G:0.15, T:0.27
Consensus pattern (27 bp):
CGCACACTTAGTGCTACATAATAAACT
Found at i:71307710 original size:82 final size:81
Alignment explanation
Indices: 71307597--71307747 Score: 241
Period size: 82 Copynumber: 1.9 Consensus size: 81
71307587 TATAATGAAC
*
71307597 TCGCACACTTAGTGCTACATAATCAAATCGCACACTTAGTGCTACATAGTCAAACTCGCACACTT
1 TCGCACACTTAGTGCTACATAATCAAATCGCACACTTAGTGCAACATAGTCAAA-TCGCACACTT
71307662 AGTGCCGCATGGTCAAT
65 AGTGCCGCATGGTCAAT
* **
71307679 TCGCACACTTAGTGC-ATCATATTCATTTCGCACACTTAGTGCAACATAGTCAAATCGCACACTT
1 TCGCACACTTAGTGCTA-CATAATCAAATCGCACACTTAGTGCAACATAGTCAAATCGCACACTT
71307743 AGTGC
65 AGTGC
71307748 TGTACAATTT
Statistics
Matches: 64, Mismatches: 4, Indels: 3
0.90 0.06 0.04
Matches are distributed among these distances:
81 16 0.25
82 48 0.75
ACGTcount: A:0.30, C:0.28, G:0.15, T:0.27
Consensus pattern (81 bp):
TCGCACACTTAGTGCTACATAATCAAATCGCACACTTAGTGCAACATAGTCAAATCGCACACTTA
GTGCCGCATGGTCAAT
Found at i:71309615 original size:7 final size:8
Alignment explanation
Indices: 71309603--71309633 Score: 53
Period size: 8 Copynumber: 3.8 Consensus size: 8
71309593 CTAAATTTGC
71309603 TAAAAAAA
1 TAAAAAAA
71309611 TAAAAAAA
1 TAAAAAAA
71309619 TAAAAAAAA
1 T-AAAAAAA
71309628 TAAAAA
1 TAAAAA
71309634 GTAGTTTGAA
Statistics
Matches: 22, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
8 14 0.64
9 8 0.36
ACGTcount: A:0.87, C:0.00, G:0.00, T:0.13
Consensus pattern (8 bp):
TAAAAAAA
Found at i:71309616 original size:9 final size:9
Alignment explanation
Indices: 71309604--71309633 Score: 53
Period size: 9 Copynumber: 3.4 Consensus size: 9
71309594 TAAATTTGCT
71309604 AAAAAAAT-
1 AAAAAAATA
71309612 AAAAAAATA
1 AAAAAAATA
71309621 AAAAAAATA
1 AAAAAAATA
71309630 AAAA
1 AAAA
71309634 GTAGTTTGAA
Statistics
Matches: 21, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
8 8 0.38
9 13 0.62
ACGTcount: A:0.90, C:0.00, G:0.00, T:0.10
Consensus pattern (9 bp):
AAAAAAATA
Found at i:71313857 original size:13 final size:13
Alignment explanation
Indices: 71313839--71313867 Score: 58
Period size: 13 Copynumber: 2.2 Consensus size: 13
71313829 GGTTGTTTAT
71313839 TAAACTAATTAAC
1 TAAACTAATTAAC
71313852 TAAACTAATTAAC
1 TAAACTAATTAAC
71313865 TAA
1 TAA
71313868 TTAAACTAAA
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 16 1.00
ACGTcount: A:0.55, C:0.14, G:0.00, T:0.31
Consensus pattern (13 bp):
TAAACTAATTAAC
Found at i:71336934 original size:42 final size:42
Alignment explanation
Indices: 71336875--71336959 Score: 161
Period size: 42 Copynumber: 2.0 Consensus size: 42
71336865 ATCATATGGA
*
71336875 GAAAGGACTCTTTACCTCCTTCTCCTCTACTAACAGTTTCGG
1 GAAAGGACTCTCTACCTCCTTCTCCTCTACTAACAGTTTCGG
71336917 GAAAGGACTCTCTACCTCCTTCTCCTCTACTAACAGTTTCGG
1 GAAAGGACTCTCTACCTCCTTCTCCTCTACTAACAGTTTCGG
71336959 G
1 G
71336960 TCTACTCTCA
Statistics
Matches: 42, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
42 42 1.00
ACGTcount: A:0.21, C:0.32, G:0.15, T:0.32
Consensus pattern (42 bp):
GAAAGGACTCTCTACCTCCTTCTCCTCTACTAACAGTTTCGG
Found at i:71339005 original size:44 final size:44
Alignment explanation
Indices: 71338940--71339023 Score: 123
Period size: 44 Copynumber: 1.9 Consensus size: 44
71338930 CATGTATCAT
**
71338940 ATCCATAATGAACACGGACCAACTCAACAAGCTCAAATGCTTGC
1 ATCCATAATGAACACAAACCAACTCAACAAGCTCAAATGCTTGC
* * *
71338984 ATCCATAATGAACTCAAACCAACTCAACGAGCTCAGATGC
1 ATCCATAATGAACACAAACCAACTCAACAAGCTCAAATGC
71339024 CTTATACATA
Statistics
Matches: 35, Mismatches: 5, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
44 35 1.00
ACGTcount: A:0.39, C:0.30, G:0.13, T:0.18
Consensus pattern (44 bp):
ATCCATAATGAACACAAACCAACTCAACAAGCTCAAATGCTTGC
Found at i:71346217 original size:38 final size:38
Alignment explanation
Indices: 71346166--71346391 Score: 301
Period size: 38 Copynumber: 5.9 Consensus size: 38
71346156 GTATGTGGTG
71346166 TATCCGGGTTAAATCCCGCAGG-TTCCGTGCTGGTATTA
1 TATCCGGGTTAAATCCCGCAGGCTT-CGTGCTGGTATTA
* * *
71346204 TATCCAGGTTAAATCGCGTAGGCTTCGTGCTGGTATTA
1 TATCCGGGTTAAATCCCGCAGGCTTCGTGCTGGTATTA
* *
71346242 TATCCGGGTTAAATCCCGCAAGCTTCATGCTGGTATTA
1 TATCCGGGTTAAATCCCGCAGGCTTCGTGCTGGTATTA
*
71346280 TATCCGGGTTAAATCCTGCAGGCTTCGTGCTGGTATTA
1 TATCCGGGTTAAATCCCGCAGGCTTCGTGCTGGTATTA
* * *
71346318 TATCCGGGTTAAATCTCACAGGCTTAGTGCTGGTATTA
1 TATCCGGGTTAAATCCCGCAGGCTTCGTGCTGGTATTA
* * * *
71346356 TATTCGAGCTTAAAGTCCCGCAGGTTTTGTGCTGGT
1 TATCCG-GGTTAAA-TCCCGCAGGCTTCGTGCTGGT
71346392 GACTAGATTC
Statistics
Matches: 164, Mismatches: 21, Indels: 4
0.87 0.11 0.02
Matches are distributed among these distances:
38 139 0.85
39 8 0.05
40 17 0.10
ACGTcount: A:0.20, C:0.21, G:0.25, T:0.34
Consensus pattern (38 bp):
TATCCGGGTTAAATCCCGCAGGCTTCGTGCTGGTATTA
Found at i:71346711 original size:45 final size:44
Alignment explanation
Indices: 71346552--71346818 Score: 247
Period size: 44 Copynumber: 6.0 Consensus size: 44
71346542 TATCAAAGAG
* * *
71346552 CGATATATGTGATTTTCGTGTAAGACCACGTCTAGGACGTTAGCAG
1 CGATATA-GTGA-TTTCGTGTAAGACCACGTCTGGGACGTTGGCAT
* * **
71346598 CGATATACGTGATTTCGTGTAAGACCGCATCTGGGATATTGGCAT
1 CGATATA-GTGATTTCGTGTAAGACCACGTCTGGGACGTTGGCAT
* * *
71346643 CAAT-TAGTGATTTTCGTGTAAGACCACGTTTGGGACGTTGGCAA
1 CGATATAGTGA-TTTCGTGTAAGACCACGTCTGGGACGTTGGCAT
**
71346687 CGATATACGTGATTTCGTGTAAGACCGA-GTCTGGGATATTGGCAT
1 CGATATA-GTGATTTCGTGTAAGACC-ACGTCTGGGACGTTGGCAT
* * *
71346732 CGAT-TAGTGATTTACGCGTAAGACCATGTTTGGGACAG-TGGCAT
1 CGATATAGTGATTT-CGTGTAAGACCACGTCTGGGAC-GTTGGCAT
* * ** *
71346776 CGATAT-TTGATTACACGTAAGACCATGTCTGGGACGTTGGCAT
1 CGATATAGTGATTTCGTGTAAGACCACGTCTGGGACGTTGGCAT
71346819 TGTACGAGCT
Statistics
Matches: 184, Mismatches: 28, Indels: 21
0.79 0.12 0.09
Matches are distributed among these distances:
42 1 0.01
43 38 0.21
44 66 0.36
45 63 0.34
46 16 0.09
ACGTcount: A:0.25, C:0.17, G:0.27, T:0.31
Consensus pattern (44 bp):
CGATATAGTGATTTCGTGTAAGACCACGTCTGGGACGTTGGCAT
Found at i:71346711 original size:89 final size:89
Alignment explanation
Indices: 71346560--71346781 Score: 331
Period size: 89 Copynumber: 2.5 Consensus size: 89
71346550 AGCGATATAT
* * * *
71346560 GTGATTTTCGTGTAAGACCACGTCTAGGACGTTAGCAGCGATATACGTGATTTCGTGTAAGACCG
1 GTGATTTTCGTGTAAGACCACGTTTGGGACGTTGGCAACGATATACGTGATTTCGTGTAAGACCG
71346625 CA-TCTGGGATATTGGCATCAATTA
66 -AGTCTGGGATATTGGCATCAATTA
71346649 GTGATTTTCGTGTAAGACCACGTTTGGGACGTTGGCAACGATATACGTGATTTCGTGTAAGACCG
1 GTGATTTTCGTGTAAGACCACGTTTGGGACGTTGGCAACGATATACGTGATTTCGTGTAAGACCG
*
71346714 AGTCTGGGATATTGGCATCGATTA
66 AGTCTGGGATATTGGCATCAATTA
* * * *
71346738 GTGATTTACGCGTAAGACCATGTTTGGGACAG-TGGCATCGATAT
1 GTGATTTTCGTGTAAGACCACGTTTGGGAC-GTTGGCAACGATAT
71346782 TTGATTACAC
Statistics
Matches: 122, Mismatches: 9, Indels: 4
0.90 0.07 0.03
Matches are distributed among these distances:
88 1 0.01
89 120 0.98
90 1 0.01
ACGTcount: A:0.25, C:0.17, G:0.28, T:0.31
Consensus pattern (89 bp):
GTGATTTTCGTGTAAGACCACGTTTGGGACGTTGGCAACGATATACGTGATTTCGTGTAAGACCG
AGTCTGGGATATTGGCATCAATTA
Found at i:71349918 original size:28 final size:27
Alignment explanation
Indices: 71349886--71349987 Score: 80
Period size: 28 Copynumber: 3.5 Consensus size: 27
71349876 ACTTGTAATA
71349886 GGGCTACGGCCCAGATTGATACTGATAT
1 GGGCTA-GGCCCAGATTGATACTGATAT
* *
71349914 GGGCTAGGCCCAATATACTCTGATACTG-TAAG
1 GGGCTAGGCCC---AGA-T-TGATACTGAT-AT
* *
71349946 GGGCTATGGCCCAGATTAATATTGATAT
1 GGGCTA-GGCCCAGATTGATACTGATAT
71349974 GGGCTAAGGCCCAG
1 GGGCT-AGGCCCAG
71349988 TTAACACTGA
Statistics
Matches: 59, Mismatches: 6, Indels: 18
0.71 0.07 0.22
Matches are distributed among these distances:
27 5 0.08
28 25 0.42
29 3 0.05
30 4 0.07
31 2 0.03
32 15 0.25
33 5 0.08
ACGTcount: A:0.26, C:0.21, G:0.28, T:0.25
Consensus pattern (27 bp):
GGGCTAGGCCCAGATTGATACTGATAT
Found at i:71349926 original size:60 final size:59
Alignment explanation
Indices: 71349851--71349986 Score: 168
Period size: 60 Copynumber: 2.3 Consensus size: 59
71349841 ACTATGTTAC
* *
71349851 TATGGGCAAGGCCCAATATA-TCTTGACT-TGTAATAGGGCTACGGCCCAGATTGATACTGA
1 TATGGGCTAGGCCCAATATACTC-TGA-TATGTAA-AGGGCTACGGCCCAGATTAATACTGA
* * *
71349911 TATGGGCTAGGCCCAATATACTCTGATACTGTAAGGGGCTATGGCCCAGATTAATATTGA
1 TATGGGCTAGGCCCAATATACTCTGATA-TGTAAAGGGCTACGGCCCAGATTAATACTGA
71349971 TATGGGCTAAGGCCCA
1 TATGGGCT-AGGCCCA
71349987 GTTAACACTG
Statistics
Matches: 67, Mismatches: 5, Indels: 7
0.85 0.06 0.09
Matches are distributed among these distances:
59 1 0.01
60 52 0.78
61 14 0.21
ACGTcount: A:0.28, C:0.20, G:0.26, T:0.26
Consensus pattern (59 bp):
TATGGGCTAGGCCCAATATACTCTGATATGTAAAGGGCTACGGCCCAGATTAATACTGA
Found at i:71353931 original size:20 final size:19
Alignment explanation
Indices: 71353906--71353947 Score: 57
Period size: 20 Copynumber: 2.2 Consensus size: 19
71353896 CTTTTCTATC
71353906 CTTCTCTCATCTCTTCCCCT
1 CTTCTCTCATCT-TTCCCCT
* *
71353926 CTTCTCTCTTCTTTCTCCT
1 CTTCTCTCATCTTTCCCCT
71353945 CTT
1 CTT
71353948 GCCGATTCTC
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
19 9 0.45
20 11 0.55
ACGTcount: A:0.02, C:0.45, G:0.00, T:0.52
Consensus pattern (19 bp):
CTTCTCTCATCTTTCCCCT
Found at i:71355298 original size:28 final size:27
Alignment explanation
Indices: 71355262--71355368 Score: 74
Period size: 28 Copynumber: 3.7 Consensus size: 27
71355252 TCTTGACTTG
71355262 TAATA-GGGCTACGGCCCAGATTGATAC
1 TAATATGGGCTA-GGCCCAGATTGATAC
71355289 TAATATGGGCTAGGCCCAAGATACTCTGATAC
1 TAATATGGGCTAGGCCC-AG--A-T-TGATAC
* * * *
71355321 T-GTAAGGGGCTATGGCCCAGATTAATAT
1 TAAT-ATGGGCTA-GGCCCAGATTGATAC
*
71355349 TGATATGGGCTAAGGCCCAG
1 TAATATGGGCT-AGGCCCAG
71355369 TTAACACTGA
Statistics
Matches: 64, Mismatches: 6, Indels: 19
0.72 0.07 0.21
Matches are distributed among these distances:
27 10 0.16
28 26 0.41
29 3 0.05
30 2 0.03
31 2 0.03
32 16 0.25
33 5 0.08
ACGTcount: A:0.29, C:0.20, G:0.27, T:0.24
Consensus pattern (27 bp):
TAATATGGGCTAGGCCCAGATTGATAC
Found at i:71355307 original size:60 final size:59
Alignment explanation
Indices: 71355232--71355367 Score: 150
Period size: 60 Copynumber: 2.3 Consensus size: 59
71355222 ACTATGTTAC
* * *
71355232 TATGGGCAAGGCCCAATATA-TCTTGACT-TGTAATAGGGCTACGGCCCAGATTGATACTAA
1 TATGGGCTAGGCCCAAGATACTC-TGA-TATGTAA-AGGGCTACGGCCCAGATTAATACTAA
* * * *
71355292 TATGGGCTAGGCCCAAGATACTCTGATACTGTAAGGGGCTATGGCCCAGATTAATATTGA
1 TATGGGCTAGGCCCAAGATACTCTGATA-TGTAAAGGGCTACGGCCCAGATTAATACTAA
71355352 TATGGGCTAAGGCCCA
1 TATGGGCT-AGGCCCA
71355368 GTTAACACTG
Statistics
Matches: 65, Mismatches: 7, Indels: 7
0.82 0.09 0.09
Matches are distributed among these distances:
59 1 0.02
60 50 0.77
61 14 0.22
ACGTcount: A:0.29, C:0.20, G:0.26, T:0.26
Consensus pattern (59 bp):
TATGGGCTAGGCCCAAGATACTCTGATATGTAAAGGGCTACGGCCCAGATTAATACTAA
Found at i:71357184 original size:19 final size:20
Alignment explanation
Indices: 71357162--71357199 Score: 51
Period size: 19 Copynumber: 1.9 Consensus size: 20
71357152 ACGAACATGT
*
71357162 ACATAATCATTTAA-CATAC
1 ACATAATAATTTAATCATAC
*
71357181 ACATCATAATTTAATCATA
1 ACATAATAATTTAATCATA
71357200 TTGTCCCTCA
Statistics
Matches: 16, Mismatches: 2, Indels: 1
0.84 0.11 0.05
Matches are distributed among these distances:
19 12 0.75
20 4 0.25
ACGTcount: A:0.47, C:0.18, G:0.00, T:0.34
Consensus pattern (20 bp):
ACATAATAATTTAATCATAC
Found at i:71360684 original size:27 final size:27
Alignment explanation
Indices: 71360653--71360830 Score: 205
Period size: 27 Copynumber: 6.6 Consensus size: 27
71360643 TAAATTGTAC
71360653 AGCACTAAGTGTGCGATTTGACTATGT
1 AGCACTAAGTGTGCGATTTGACTATGT
* ** *
71360680 TGCACTAAGTGTGCGAAATGAATATG-
1 AGCACTAAGTGTGCGATTTGACTATGT
* * *
71360706 ATGCACTAAGTGTGCGAATTGACCATGC
1 A-GCACTAAGTGTGCGATTTGACTATGT
*
71360734 GGCACTAAGTGTGCGAGTTTGACTATGT
1 AGCACTAAGTGTGCGA-TTTGACTATGT
* *
71360762 AGCACTAAGTGTGCGATTTGATTACGT
1 AGCACTAAGTGTGCGATTTGACTATGT
* * *
71360789 AGCACTAAGTGTGCGAGTTGATTATAT
1 AGCACTAAGTGTGCGATTTGACTATGT
*
71360816 AGCACTGAGTGTGCG
1 AGCACTAAGTGTGCG
71360831 GACTCGATAT
Statistics
Matches: 129, Mismatches: 19, Indels: 6
0.84 0.12 0.04
Matches are distributed among these distances:
27 106 0.82
28 23 0.18
ACGTcount: A:0.27, C:0.15, G:0.28, T:0.30
Consensus pattern (27 bp):
AGCACTAAGTGTGCGATTTGACTATGT
Found at i:71360767 original size:82 final size:81
Alignment explanation
Indices: 71360654--71360809 Score: 233
Period size: 82 Copynumber: 1.9 Consensus size: 81
71360644 AAATTGTACA
* *
71360654 GCACTAAGTGTGCGATTTGACTATGTTGCACTAAGTGTGCGAAATGAATATG-ATGCACTAAGTG
1 GCACTAAGTGTGCGATTTGACTATGTAGCACTAAGTGTGCGAAATGAATACGTA-GCACTAAGTG
71360718 TGCGAATTGACCATGCG
65 TGCGAATTGACCATGCG
** *
71360735 GCACTAAGTGTGCGAGTTTGACTATGTAGCACTAAGTGTGCGATTTGATTACGTAGCACTAAGTG
1 GCACTAAGTGTGCGA-TTTGACTATGTAGCACTAAGTGTGCGAAATGAATACGTAGCACTAAGTG
*
71360800 TGCGAGTTGA
65 TGCGAATTGA
71360810 TTATATAGCA
Statistics
Matches: 67, Mismatches: 6, Indels: 3
0.88 0.08 0.04
Matches are distributed among these distances:
81 15 0.22
82 51 0.76
83 1 0.01
ACGTcount: A:0.27, C:0.15, G:0.28, T:0.29
Consensus pattern (81 bp):
GCACTAAGTGTGCGATTTGACTATGTAGCACTAAGTGTGCGAAATGAATACGTAGCACTAAGTGT
GCGAATTGACCATGCG
Found at i:71360821 original size:82 final size:81
Alignment explanation
Indices: 71360650--71360830 Score: 229
Period size: 82 Copynumber: 2.2 Consensus size: 81
71360640 GATTAAATTG
* *
71360650 TACAGCACTAAGTGTGCGATTTGACTATGTTGCACTAAGTGTGCGAAATGAATATGATGCACTAA
1 TACAGCACTAAGTGTGCGATTTGACTATGTAGCACTAAGTGTGCGAAATGAATACGATGCACTAA
71360715 GTGTGCGAATTGACCA
66 GTGTGCGAATTGACCA
* * ** *
71360731 TGCGGCACTAAGTGTGCGAGTTTGACTATGTAGCACTAAGTGTGCGATTTGATTACG-TAGCACT
1 TACAGCACTAAGTGTGCGA-TTTGACTATGTAGCACTAAGTGTGCGAAATGAATACGAT-GCACT
* **
71360795 AAGTGTGCGAGTTGATTA
64 AAGTGTGCGAATTGACCA
* *
71360813 TATAGCACTGAGTGTGCG
1 TACAGCACTAAGTGTGCG
71360831 GACTCGATAT
Statistics
Matches: 84, Mismatches: 14, Indels: 3
0.83 0.14 0.03
Matches are distributed among these distances:
81 18 0.21
82 66 0.79
ACGTcount: A:0.27, C:0.15, G:0.28, T:0.30
Consensus pattern (81 bp):
TACAGCACTAAGTGTGCGATTTGACTATGTAGCACTAAGTGTGCGAAATGAATACGATGCACTAA
GTGTGCGAATTGACCA
Found at i:71362895 original size:39 final size:40
Alignment explanation
Indices: 71362850--71363021 Score: 222
Period size: 40 Copynumber: 4.3 Consensus size: 40
71362840 GCTCCTCGTT
* * *
71362850 CAAATGCCTTCGGGACATAGCCCGGTTTTAGTAACTCACA
1 CAAATGCCTTCGGGACATAACCCGGATTTAGTAACTCGCA
*
71362890 C-AATGCCTTCGGGACATAACCCGGATTTAATAACTCGCA
1 CAAATGCCTTCGGGACATAACCCGGATTTAGTAACTCGCA
* * *
71362929 CGAATGCCTTCGGGACTTAACCCGGATTTAGTATCTCGCA
1 CAAATGCCTTCGGGACATAACCCGGATTTAGTAACTCGCA
* * * *
71362969 CAAAGGCCTTCGGGGCTTAACCCGGAATTT-GTATCTCGCA
1 CAAATGCCTTCGGGACATAACCCGG-ATTTAGTAACTCGCA
71363009 CAAATGCCTTCGG
1 CAAATGCCTTCGG
71363022 ATCTTAGTCC
Statistics
Matches: 119, Mismatches: 11, Indels: 4
0.89 0.08 0.03
Matches are distributed among these distances:
39 35 0.29
40 80 0.67
41 4 0.03
ACGTcount: A:0.26, C:0.28, G:0.22, T:0.25
Consensus pattern (40 bp):
CAAATGCCTTCGGGACATAACCCGGATTTAGTAACTCGCA
Done.