Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: At_chr6
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: 56482370
ACGTcount: A:0.32, C:0.17, G:0.17, T:0.32
Warning! 1659275 characters in sequence are not A, C, G, or T
File 30 of 172
Found at i:9343057 original size:18 final size:18
Alignment explanation
Indices: 9343034--9343077 Score: 79
Period size: 18 Copynumber: 2.4 Consensus size: 18
9343024 TATTCACTAA
9343034 GTCAAATTTACCACATAT
1 GTCAAATTTACCACATAT
9343052 GTCAAATTTACCACATAT
1 GTCAAATTTACCACATAT
9343070 GTCCAAAT
1 GT-CAAAT
9343078 CATTTCAATT
Statistics
Matches: 25, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
18 20 0.80
19 5 0.20
ACGTcount: A:0.39, C:0.23, G:0.07, T:0.32
Consensus pattern (18 bp):
GTCAAATTTACCACATAT
Found at i:9347034 original size:31 final size:31
Alignment explanation
Indices: 9346965--9347035 Score: 81
Period size: 31 Copynumber: 2.3 Consensus size: 31
9346955 CTTAACAGCC
9346965 TAGTGACTTAAATAAAAATTTTCAAATAGTT
1 TAGTGACTTAAATAAAAATTTTCAAATAGTT
* * * * *
9346996 CAATGACTTAAATGAAAACTTTT-GAATATTT
1 TAGTGACTTAAAT-AAAAATTTTCAAATAGTT
9347027 TAGTGACTT
1 TAGTGACTT
9347036 TTTTGTATTT
Statistics
Matches: 32, Mismatches: 7, Indels: 2
0.78 0.17 0.05
Matches are distributed among these distances:
31 24 0.75
32 8 0.25
ACGTcount: A:0.41, C:0.08, G:0.11, T:0.39
Consensus pattern (31 bp):
TAGTGACTTAAATAAAAATTTTCAAATAGTT
Found at i:9352640 original size:26 final size:26
Alignment explanation
Indices: 9352611--9352670 Score: 66
Period size: 28 Copynumber: 2.2 Consensus size: 26
9352601 TCCCTTTGAA
* * *
9352611 TCATTCGATATTTTGCACAATAAGTG
1 TCATTCAATATCTCGCACAATAAGTG
*
9352637 TCATTCTCAATATCTCGCACACTAAGTG
1 TCA-T-TCAATATCTCGCACAATAAGTG
9352665 TCATTC
1 TCATTC
9352671 TCAATATTTC
Statistics
Matches: 28, Mismatches: 4, Indels: 4
0.78 0.11 0.11
Matches are distributed among these distances:
26 5 0.18
27 2 0.07
28 21 0.75
ACGTcount: A:0.28, C:0.23, G:0.12, T:0.37
Consensus pattern (26 bp):
TCATTCAATATCTCGCACAATAAGTG
Found at i:9352686 original size:28 final size:28
Alignment explanation
Indices: 9352625--9352687 Score: 99
Period size: 28 Copynumber: 2.2 Consensus size: 28
9352615 TCGATATTTT
*
9352625 GCACAATAAGTGTCATTCTCAATATCTC
1 GCACACTAAGTGTCATTCTCAATATCTC
*
9352653 GCACACTAAGTGTCATTCTCAATATTTC
1 GCACACTAAGTGTCATTCTCAATATCTC
*
9352681 GTACACT
1 GCACACT
9352688 GAGTACCATA
Statistics
Matches: 32, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
28 32 1.00
ACGTcount: A:0.30, C:0.25, G:0.11, T:0.33
Consensus pattern (28 bp):
GCACACTAAGTGTCATTCTCAATATCTC
Found at i:9356287 original size:17 final size:17
Alignment explanation
Indices: 9356265--9356309 Score: 83
Period size: 17 Copynumber: 2.7 Consensus size: 17
9356255 TGTTTTACAT
9356265 ATATATATAATAATATA
1 ATATATATAATAATATA
9356282 ATATATATAATAATATA
1 ATATATATAATAATATA
9356299 ATATA-ATAATA
1 ATATATATAATA
9356310 TAAATTAATA
Statistics
Matches: 28, Mismatches: 0, Indels: 1
0.97 0.00 0.03
Matches are distributed among these distances:
16 6 0.21
17 22 0.79
ACGTcount: A:0.60, C:0.00, G:0.00, T:0.40
Consensus pattern (17 bp):
ATATATATAATAATATA
Found at i:9356318 original size:13 final size:13
Alignment explanation
Indices: 9356279--9356319 Score: 50
Period size: 13 Copynumber: 3.2 Consensus size: 13
9356269 ATATAATAAT
*
9356279 ATAATATATA-TA
1 ATAATATAAATTA
9356291 ATAATAT-AATATA
1 ATAATATAAAT-TA
9356304 ATAATATAAATTA
1 ATAATATAAATTA
9356317 ATA
1 ATA
9356320 TATTACTTAT
Statistics
Matches: 25, Mismatches: 1, Indels: 5
0.81 0.03 0.16
Matches are distributed among these distances:
11 1 0.04
12 7 0.28
13 14 0.56
14 3 0.12
ACGTcount: A:0.61, C:0.00, G:0.00, T:0.39
Consensus pattern (13 bp):
ATAATATAAATTA
Found at i:9356324 original size:8 final size:9
Alignment explanation
Indices: 9356265--9356322 Score: 77
Period size: 8 Copynumber: 6.7 Consensus size: 9
9356255 TGTTTTACAT
9356265 ATATATATA
1 ATATATATA
9356274 ATA-ATATA
1 ATATATATA
9356282 ATATATATA
1 ATATATATA
9356291 ATA-ATATA
1 ATATATATA
9356299 ATATA-ATA
1 ATATATATA
*
9356307 ATATAAATTA
1 ATATATA-TA
9356317 ATATAT
1 ATATAT
9356323 TACTTATTTA
Statistics
Matches: 44, Mismatches: 1, Indels: 7
0.85 0.02 0.13
Matches are distributed among these distances:
8 24 0.55
9 13 0.30
10 7 0.16
ACGTcount: A:0.59, C:0.00, G:0.00, T:0.41
Consensus pattern (9 bp):
ATATATATA
Found at i:9357114 original size:114 final size:114
Alignment explanation
Indices: 9356911--9357135 Score: 360
Period size: 114 Copynumber: 2.0 Consensus size: 114
9356901 AACAATTAGA
* * * *
9356911 AGGCTGCACATAAATGTTTAATTGTGCAAGAAAGTGACAAAACTGTGTGTCTGCGTTAGTGGTTA
1 AGGCTGCACATAAATGTTTAATTGTACAAGAAAGTGACAAAACTGTATGTCTGCCTCAGTGGTTA
* * *
9356976 AGTGTTCTGGGAAGTGTCTAAGAAGTCTTGGGTTCAAGCCTAGGCACGG
66 AGTGTTCTGGAAAATGTCTAAGAAGTCTTGGGTTCAAACCTAGGCACGG
*
9357025 AGGCTGCACATAAATGTTTAATTGTACAAGAAAGTGACATAACTGTATGTCTGCCTCAGTGGTTA
1 AGGCTGCACATAAATGTTTAATTGTACAAGAAAGTGACAAAACTGTATGTCTGCCTCAGTGGTTA
* *
9357090 AGTGTTCTGGAAAATGTCTGAGAAGTCTTGGGTTCAAACCTGGGCA
66 AGTGTTCTGGAAAATGTCTAAGAAGTCTTGGGTTCAAACCTAGGCA
9357136 TGTGCAAAAG
Statistics
Matches: 101, Mismatches: 10, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
114 101 1.00
ACGTcount: A:0.28, C:0.15, G:0.28, T:0.29
Consensus pattern (114 bp):
AGGCTGCACATAAATGTTTAATTGTACAAGAAAGTGACAAAACTGTATGTCTGCCTCAGTGGTTA
AGTGTTCTGGAAAATGTCTAAGAAGTCTTGGGTTCAAACCTAGGCACGG
Found at i:9357675 original size:18 final size:18
Alignment explanation
Indices: 9357648--9357724 Score: 73
Period size: 18 Copynumber: 4.1 Consensus size: 18
9357638 GGACTTACAT
* *
9357648 ACTGTCTACTGTTACGGC
1 ACTGTTTACTGTTACTGC
*
9357666 ACTGTTTACTATTACTGC
1 ACTGTTTACTGTTACTGC
* *
9357684 ACTATTACTGTACTGTTATTGC
1 ACT-GT--T-TACTGTTACTGC
9357706 ACTGTTTACTGTTACTGC
1 ACTGTTTACTGTTACTGC
9357724 A
1 A
9357725 ATGGGCCAAA
Statistics
Matches: 47, Mismatches: 8, Indels: 8
0.75 0.13 0.13
Matches are distributed among these distances:
18 30 0.64
19 2 0.04
21 2 0.04
22 13 0.28
ACGTcount: A:0.21, C:0.22, G:0.16, T:0.42
Consensus pattern (18 bp):
ACTGTTTACTGTTACTGC
Found at i:9357706 original size:22 final size:24
Alignment explanation
Indices: 9357666--9357722 Score: 64
Period size: 22 Copynumber: 2.4 Consensus size: 24
9357656 CTGTTACGGC
*
9357666 ACTGTTTACTATTACTGCACT-ATT
1 ACTG-TTACTGTTACTGCACTGATT
* *
9357690 ACTG-TACTGTTATTGCACTGTTT
1 ACTGTTACTGTTACTGCACTGATT
9357713 ACTGTTACTG
1 ACTGTTACTG
9357723 CAATGGGCCA
Statistics
Matches: 28, Mismatches: 3, Indels: 4
0.80 0.09 0.11
Matches are distributed among these distances:
22 13 0.46
23 6 0.21
24 9 0.32
ACGTcount: A:0.21, C:0.19, G:0.14, T:0.46
Consensus pattern (24 bp):
ACTGTTACTGTTACTGCACTGATT
Found at i:9359142 original size:46 final size:46
Alignment explanation
Indices: 9359089--9359264 Score: 207
Period size: 46 Copynumber: 3.8 Consensus size: 46
9359079 TGGTTGAGCA
9359089 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
* * *
9359135 TCCGAACTCGTTGAGTTGAGTCCGAGTTC-GTGA--GATG-TAACTAGG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAA-T--G
*
9359180 CATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACG
1 --TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
* * * *
9359228 CCCGAGCTCGTTGAGTTGAGTCCGAATTCGCTTATGG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGG
9359265 GCGGGTTACA
Statistics
Matches: 110, Mismatches: 11, Indels: 18
0.79 0.08 0.13
Matches are distributed among these distances:
42 2 0.02
43 5 0.05
45 3 0.03
46 62 0.56
47 29 0.26
48 3 0.03
50 4 0.04
51 2 0.02
ACGTcount: A:0.21, C:0.21, G:0.29, T:0.29
Consensus pattern (46 bp):
TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
Found at i:9359245 original size:93 final size:93
Alignment explanation
Indices: 9359086--9359257 Score: 308
Period size: 93 Copynumber: 1.8 Consensus size: 93
9359076 GAATGGTTGA
* *
9359086 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATGTCCGAACTCGTTGAGT
1 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAACTCGTTGAGT
*
9359151 TGAGTCCGAGTTCGTGAGATGTAACTAG
66 TGAGTCCGAATTCGTGAGATGTAACTAG
*
9359179 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAGCTCGTTGAGT
1 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAACTCGTTGAGT
9359244 TGAGTCCGAATTCG
66 TGAGTCCGAATTCG
9359258 CTTATGGGCG
Statistics
Matches: 75, Mismatches: 4, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
93 75 1.00
ACGTcount: A:0.22, C:0.22, G:0.29, T:0.28
Consensus pattern (93 bp):
GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAACTCGTTGAGT
TGAGTCCGAATTCGTGAGATGTAACTAG
Found at i:9368268 original size:20 final size:20
Alignment explanation
Indices: 9368231--9368268 Score: 51
Period size: 20 Copynumber: 1.9 Consensus size: 20
9368221 TATAACAGTA
*
9368231 TCATTAAAATCAATATCAAT
1 TCATTAAAATCAAAATCAAT
9368251 TCATGTAAAAT-AAAATCA
1 TCAT-TAAAATCAAAATCA
9368269 TGCATTATTC
Statistics
Matches: 16, Mismatches: 1, Indels: 2
0.84 0.05 0.11
Matches are distributed among these distances:
20 10 0.62
21 6 0.38
ACGTcount: A:0.53, C:0.13, G:0.03, T:0.32
Consensus pattern (20 bp):
TCATTAAAATCAAAATCAAT
Found at i:9373729 original size:26 final size:26
Alignment explanation
Indices: 9373693--9373984 Score: 539
Period size: 26 Copynumber: 11.2 Consensus size: 26
9373683 CATGAAATTC
* *
9373693 TTATCATGAAACATTTACCTAACCCA
1 TTATCATGGAACATTTACCTAACCTA
* *
9373719 TTATCATGAAACATTTACCTAACCCA
1 TTATCATGGAACATTTACCTAACCTA
9373745 TTATCATGGAACATTTACCTAACCTA
1 TTATCATGGAACATTTACCTAACCTA
9373771 TTATCATGGAACATTTACCTAACCTA
1 TTATCATGGAACATTTACCTAACCTA
9373797 TTATCATGGAACATTTACCTAACCTA
1 TTATCATGGAACATTTACCTAACCTA
9373823 TTATCATGGAACATTTACCTAACCTA
1 TTATCATGGAACATTTACCTAACCTA
9373849 TTATCATGGAACATTTACCTAACCTA
1 TTATCATGGAACATTTACCTAACCTA
9373875 TTATCATGGAACATTTACCTAACCTA
1 TTATCATGGAACATTTACCTAACCTA
*
9373901 TTATCATGGAACATTTACCTAACCCA
1 TTATCATGGAACATTTACCTAACCTA
9373927 TTATCATGGAACATTTACCTAACCTA
1 TTATCATGGAACATTTACCTAACCTA
9373953 TTATCATGGAACATTTACCTAACCTA
1 TTATCATGGAACATTTACCTAACCTA
9373979 TTATCA
1 TTATCA
9373985 ATTTGTATCA
Statistics
Matches: 262, Mismatches: 4, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
26 262 1.00
ACGTcount: A:0.35, C:0.24, G:0.07, T:0.34
Consensus pattern (26 bp):
TTATCATGGAACATTTACCTAACCTA
Found at i:9377540 original size:37 final size:37
Alignment explanation
Indices: 9377490--9377560 Score: 115
Period size: 37 Copynumber: 1.9 Consensus size: 37
9377480 ATCCGAGTAG
* *
9377490 CCGGGTAAGACCCGATGACTACGTGTGGAGATTTTGT
1 CCGGGTAAGACCCGATAACTACATGTGGAGATTTTGT
*
9377527 CCGGGTAAGACCCGATAACTTCATGTGGAGATTT
1 CCGGGTAAGACCCGATAACTACATGTGGAGATTT
9377561 CGTCTGAGCT
Statistics
Matches: 31, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
37 31 1.00
ACGTcount: A:0.24, C:0.20, G:0.30, T:0.27
Consensus pattern (37 bp):
CCGGGTAAGACCCGATAACTACATGTGGAGATTTTGT
Found at i:9378698 original size:30 final size:31
Alignment explanation
Indices: 9378658--9378715 Score: 109
Period size: 30 Copynumber: 1.9 Consensus size: 31
9378648 AAGTGATGCA
9378658 ATTTTGAAAGAGTGTTATGACTATAAATGTT
1 ATTTTGAAAGAGTGTTATGACTATAAATGTT
9378689 ATTTT-AAAGAGTGTTATGACTATAAAT
1 ATTTTGAAAGAGTGTTATGACTATAAAT
9378716 CTGATTTTTG
Statistics
Matches: 27, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
30 22 0.81
31 5 0.19
ACGTcount: A:0.38, C:0.03, G:0.17, T:0.41
Consensus pattern (31 bp):
ATTTTGAAAGAGTGTTATGACTATAAATGTT
Found at i:9378723 original size:30 final size:31
Alignment explanation
Indices: 9378658--9378723 Score: 107
Period size: 30 Copynumber: 2.2 Consensus size: 31
9378648 AAGTGATGCA
* *
9378658 ATTTTGAAAGAGTGTTATGACTATAAATGTT
1 ATTTTGAAAGAGTGTTATGACTATAAATCTG
9378689 ATTTT-AAAGAGTGTTATGACTATAAATCTG
1 ATTTTGAAAGAGTGTTATGACTATAAATCTG
9378719 ATTTT
1 ATTTT
9378724 TGTATGTGGC
Statistics
Matches: 33, Mismatches: 2, Indels: 1
0.92 0.06 0.03
Matches are distributed among these distances:
30 28 0.85
31 5 0.15
ACGTcount: A:0.35, C:0.05, G:0.17, T:0.44
Consensus pattern (31 bp):
ATTTTGAAAGAGTGTTATGACTATAAATCTG
Found at i:9379047 original size:40 final size:40
Alignment explanation
Indices: 9378844--9379035 Score: 303
Period size: 40 Copynumber: 4.8 Consensus size: 40
9378834 GAGAATTGAG
* *
9378844 AGTGATATATCCGGGCTAAGTCCTGAAGAGCATTCGTGCT
1 AGTGATATATCCGGGCTAAGTCCCGAGGAGCATTCGTGCT
9378884 AGTGATATATCCGGGCTAAGTCCCGAGGAGCATTCGTGCT
1 AGTGATATATCCGGGCTAAGTCCCGAGGAGCATTCGTGCT
*
9378924 AGTGATATATCTGGGCTAAGTCCCGAGGAGCATTCGTGCT
1 AGTGATATATCCGGGCTAAGTCCCGAGGAGCATTCGTGCT
* *
9378964 AGTGACATATCCAGGCTAAGTCCCGAGGAGCATTCGTGCT
1 AGTGATATATCCGGGCTAAGTCCCGAGGAGCATTCGTGCT
* * * *
9379004 GGTGTTATATCCGGGCTAGGTCCCGAAGAGCA
1 AGTGATATATCCGGGCTAAGTCCCGAGGAGCA
9379036 ATCATGCTGG
Statistics
Matches: 140, Mismatches: 12, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
40 140 1.00
ACGTcount: A:0.23, C:0.22, G:0.30, T:0.25
Consensus pattern (40 bp):
AGTGATATATCCGGGCTAAGTCCCGAGGAGCATTCGTGCT
Found at i:9381129 original size:53 final size:53
Alignment explanation
Indices: 9381049--9381153 Score: 201
Period size: 53 Copynumber: 2.0 Consensus size: 53
9381039 TACCTAGCCC
*
9381049 ATGGTTTAAATCTTGCTATGTGATGAAGATGATACTCGGCCATGGGTGTTGTT
1 ATGGTTTAAATCTTGCTATGTGATGAAGATGATACTCGACCATGGGTGTTGTT
9381102 ATGGTTTAAATCTTGCTATGTGATGAAGATGATACTCGACCATGGGTGTTGT
1 ATGGTTTAAATCTTGCTATGTGATGAAGATGATACTCGACCATGGGTGTTGT
9381154 GTTCTTGGTT
Statistics
Matches: 51, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
53 51 1.00
ACGTcount: A:0.24, C:0.11, G:0.28, T:0.37
Consensus pattern (53 bp):
ATGGTTTAAATCTTGCTATGTGATGAAGATGATACTCGACCATGGGTGTTGTT
Found at i:9382398 original size:51 final size:51
Alignment explanation
Indices: 9382311--9382419 Score: 148
Period size: 51 Copynumber: 2.1 Consensus size: 51
9382301 TCTTATAAAA
* *
9382311 GAGACCGTGTAAGCAAAGAAATTCCCTATAAAGAGATA-TTAAAAGTTGTGT
1 GAGACAGTGTAAGCAAAGAAATTCCCGATAAAGAGATACTT-AAAGTTGTGT
* * * *
9382362 GGGACAGTGTAAGCAAAGGAATTTCCGATAATGAGATACTTAAAGTTGTGT
1 GAGACAGTGTAAGCAAAGAAATTCCCGATAAAGAGATACTTAAAGTTGTGT
9382413 GAGACAG
1 GAGACAG
9382420 CGCAGAATGA
Statistics
Matches: 50, Mismatches: 7, Indels: 2
0.85 0.12 0.03
Matches are distributed among these distances:
51 48 0.96
52 2 0.04
ACGTcount: A:0.39, C:0.11, G:0.26, T:0.25
Consensus pattern (51 bp):
GAGACAGTGTAAGCAAAGAAATTCCCGATAAAGAGATACTTAAAGTTGTGT
Found at i:9383072 original size:47 final size:47
Alignment explanation
Indices: 9383021--9383315 Score: 356
Period size: 47 Copynumber: 6.1 Consensus size: 47
9383011 TTAGGATTTT
* * *
9383021 ATGTGATGGATGTGAACATGCGTATGTGTGATAGGGCCGAATGGCCA
1 ATGTGATGAATGTGAACATGCATATGTGTGATAAGGCCGAATGGCCA
**
9383068 ATGTGATGAATGTGAACCCGTATATATATGTGTGATAAGGCCGAATGGCCA
1 ATGTGATGAATGTGAA--C--ATGCATATGTGTGATAAGGCCGAATGGCCA
* *
9383119 ATGTGATGAATGTGAACATGCGTATGCGTGATAAGGCCGAATGGCCA
1 ATGTGATGAATGTGAACATGCATATGTGTGATAAGGCCGAATGGCCA
** *
9383166 ATGTGATGAATGTGAACCTGTATATATATATGCGTGATAAGGCCGAATGGCCA
1 ATGTGATGAATGTGAA-C-----ATGCATATGTGTGATAAGGCCGAATGGCCA
* *
9383219 ATGTGATGAATGTGAACATGCATATATGAGATAAGGCCGAATGGCCA
1 ATGTGATGAATGTGAACATGCATATGTGTGATAAGGCCGAATGGCCA
* * * *
9383266 ATGTGATGAATGTGAACATGAATATATGTGGTAAGGCCGAATGGCTA
1 ATGTGATGAATGTGAACATGCATATGTGTGATAAGGCCGAATGGCCA
9383313 ATG
1 ATG
9383316 CGAAACGTGT
Statistics
Matches: 217, Mismatches: 21, Indels: 20
0.84 0.08 0.08
Matches are distributed among these distances:
47 128 0.59
48 1 0.00
49 2 0.01
51 42 0.19
52 1 0.00
53 43 0.20
ACGTcount: A:0.32, C:0.13, G:0.30, T:0.26
Consensus pattern (47 bp):
ATGTGATGAATGTGAACATGCATATGTGTGATAAGGCCGAATGGCCA
Found at i:9383132 original size:98 final size:98
Alignment explanation
Indices: 9383021--9383315 Score: 454
Period size: 100 Copynumber: 3.0 Consensus size: 98
9383011 TTAGGATTTT
* *
9383021 ATGTGATGGATGTGAACATGCGTATGTGTGATAGGGCCGAATGGCCAATGTGATGAATGTGAACC
1 ATGTGATGAATGTGAACATGCGTATGTGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAACC
*
9383086 CGTATATATATGTGTGATAAGGCCGAATGGCCA
66 TGTATATATATGTGTGATAAGGCCGAATGGCCA
*
9383119 ATGTGATGAATGTGAACATGCGTATGCGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAACC
1 ATGTGATGAATGTGAACATGCGTATGTGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAACC
*
9383184 TGTATATATATATGCGTGATAAGGCCGAATGGCCA
66 TG--TATATATATGTGTGATAAGGCCGAATGGCCA
* * * *
9383219 ATGTGATGAATGTGAACATGCATATATGAGATAAGGCCGAATGGCCAATGTGATGAATGTGAACA
1 ATGTGATGAATGTGAACATGCGTATGTGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAACC
*
9383284 TG-A-ATATATGTG-G-TAAGGCCGAATGGCTA
66 TGTATATATATGTGTGATAAGGCCGAATGGCCA
9383313 ATG
1 ATG
9383316 CGAAACGTGT
Statistics
Matches: 183, Mismatches: 12, Indels: 8
0.90 0.06 0.04
Matches are distributed among these distances:
94 18 0.10
95 1 0.01
96 8 0.04
97 1 0.01
98 63 0.34
100 92 0.50
ACGTcount: A:0.32, C:0.13, G:0.30, T:0.26
Consensus pattern (98 bp):
ATGTGATGAATGTGAACATGCGTATGTGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAACC
TGTATATATATGTGTGATAAGGCCGAATGGCCA
Found at i:9383301 original size:147 final size:149
Alignment explanation
Indices: 9383043--9383315 Score: 406
Period size: 147 Copynumber: 1.8 Consensus size: 149
9383033 TGAACATGCG
* * * * *
9383043 TATGTGTGATAGGGCCGAATGGCCAATGTGATGAATGTGAACCCGTATATATATGTGTGATAAGG
1 TATGCGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAA-CCG-ATACATATATGAGATAAGG
** *
9383108 CCGAATGGCCAATGTGATGAATGTGAACATGCGTATGCGTGATAAGGCCGAATGGCCAATGTGAT
64 CCGAATGGCCAATGTGATGAATGTGAACATGAATATACGTGATAAGGCCGAATGGCCAATGTGAT
9383173 GAATGTGAACCTGTATATATA
129 GAATGTGAACCTGTATATATA
*
9383194 TATGCGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAA-C-ATGCATATATGAGATAAGGCC
1 TATGCGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAACCGATACATATATGAGATAAGGCC
* * *
9383257 GAATGGCCAATGTGATGAATGTGAACATGAATATATGTGGTAAGGCCGAATGGCTAATG
66 GAATGGCCAATGTGATGAATGTGAACATGAATATACGTGATAAGGCCGAATGGCCAATG
9383316 CGAAACGTGT
Statistics
Matches: 110, Mismatches: 12, Indels: 4
0.87 0.10 0.03
Matches are distributed among these distances:
147 70 0.64
149 1 0.01
151 39 0.35
ACGTcount: A:0.32, C:0.13, G:0.29, T:0.26
Consensus pattern (149 bp):
TATGCGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAACCGATACATATATGAGATAAGGCC
GAATGGCCAATGTGATGAATGTGAACATGAATATACGTGATAAGGCCGAATGGCCAATGTGATGA
ATGTGAACCTGTATATATA
Found at i:9383378 original size:46 final size:46
Alignment explanation
Indices: 9383289--9383379 Score: 119
Period size: 46 Copynumber: 2.0 Consensus size: 46
9383279 GAACATGAAT
* * * *
9383289 ATATGTGGTAAGGCCGAATGGCTAATGCGAAACGTGTATGAGATGG
1 ATATGTGGTAAAGCCAAATGGCTAATGCGAAACATGTACGAGATGG
* * *
9383335 ATATGTGGTAAAGCCAAATGGCTAATGTGAGATATGTACGAGATG
1 ATATGTGGTAAAGCCAAATGGCTAATGCGAAACATGTACGAGATG
9383380 TGTATATATA
Statistics
Matches: 38, Mismatches: 7, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
46 38 1.00
ACGTcount: A:0.33, C:0.10, G:0.32, T:0.25
Consensus pattern (46 bp):
ATATGTGGTAAAGCCAAATGGCTAATGCGAAACATGTACGAGATGG
Found at i:9383574 original size:37 final size:37
Alignment explanation
Indices: 9383524--9384372 Score: 1662
Period size: 37 Copynumber: 22.9 Consensus size: 37
9383514 GGAAATATAT
9383524 TCCGGGTAAGACCCGATGACTACGTGTGGAGATTTTG
1 TCCGGGTAAGACCCGATGACTACGTGTGGAGATTTTG
9383561 TCCGGGTAAGACCCGATGACTACGTGTGGAGATTTTG
1 TCCGGGTAAGACCCGATGACTACGTGTGGAGATTTTG
9383598 TCCGGGTAAGACCCGATGACTACGTGTGGAGATTTTG
1 TCCGGGTAAGACCCGATGACTACGTGTGGAGATTTTG
9383635 TCCGGGTAAGACCCGATGACTACGTGTGGAGATTTTG
1 TCCGGGTAAGACCCGATGACTACGTGTGGAGATTTTG
9383672 TCCGGGTAAGACCCGATGACTACGTGTGGAGATTTTG
1 TCCGGGTAAGACCCGATGACTACGTGTGGAGATTTTG
9383709 TCCGGGTAAGACCCGATGACTACGTGTGGAGATTTTG
1 TCCGGGTAAGACCCGATGACTACGTGTGGAGATTTTG
9383746 TCCGGGTAAGACCCGATGACTACGTGTGGAGATTTTG
1 TCCGGGTAAGACCCGATGACTACGTGTGGAGATTTTG
9383783 TCCGGGTAAGACCCGATGACTACGTGTGGAGATTTTG
1 TCCGGGTAAGACCCGATGACTACGTGTGGAGATTTTG
9383820 TCCGGGTAAGACCCGATGACTACGTGTGGAGATTTTG
1 TCCGGGTAAGACCCGATGACTACGTGTGGAGATTTTG
9383857 TCCGGGTAAGACCCGATGACTACGTGTGGAGATTTTG
1 TCCGGGTAAGACCCGATGACTACGTGTGGAGATTTTG
9383894 TCCGGGTAAGACCCGATGACTACGTGTGGAGATTTTG
1 TCCGGGTAAGACCCGATGACTACGTGTGGAGATTTTG
9383931 TCCGGGTAAGACCCGATGACTACGTGTGGAGATTTTG
1 TCCGGGTAAGACCCGATGACTACGTGTGGAGATTTTG
9383968 TCCGGGTAAGACCCGATGACTACGTGTGGAGATTTTG
1 TCCGGGTAAGACCCGATGACTACGTGTGGAGATTTTG
9384005 TCCGGGTAAGACCCGATGACTACGTGTGGAGATTTTG
1 TCCGGGTAAGACCCGATGACTACGTGTGGAGATTTTG
9384042 TCCGGGTAAGACCCGATGACTACGTGTGGAGATTTTG
1 TCCGGGTAAGACCCGATGACTACGTGTGGAGATTTTG
9384079 TCCGGGTAAGACCCGATGACTACGTGTGGAGATTTTG
1 TCCGGGTAAGACCCGATGACTACGTGTGGAGATTTTG
9384116 TCCGGGTAAGACCCGATGACTACGTGTGGAGATTTTG
1 TCCGGGTAAGACCCGATGACTACGTGTGGAGATTTTG
9384153 TCCGGGTAAGACCCGATGACTACGTGTGGAGATTTTG
1 TCCGGGTAAGACCCGATGACTACGTGTGGAGATTTTG
9384190 TCCGGGTAAGACCCGATGACTACGTGTGGAGATTTTG
1 TCCGGGTAAGACCCGATGACTACGTGTGGAGATTTTG
9384227 TCCGGGTAAGACCCGATGACTACGTGTGGAGATTTTG
1 TCCGGGTAAGACCCGATGACTACGTGTGGAGATTTTG
*
9384264 TCCGGGTAAGACCCGATGACTACGTGTGGAGATTATG
1 TCCGGGTAAGACCCGATGACTACGTGTGGAGATTTTG
9384301 TCCGGGTAAGACCCGATGACTACGTGTGGAGATTTTG
1 TCCGGGTAAGACCCGATGACTACGTGTGGAGATTTTG
* * *
9384338 TCCGGGTAAGACCCGATAACTTCATGTGGAGATTT
1 TCCGGGTAAGACCCGATGACTACGTGTGGAGATTT
9384373 CGTCTGAGCT
Statistics
Matches: 807, Mismatches: 5, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
37 807 1.00
ACGTcount: A:0.22, C:0.19, G:0.32, T:0.27
Consensus pattern (37 bp):
TCCGGGTAAGACCCGATGACTACGTGTGGAGATTTTG
Found at i:9385216 original size:16 final size:16
Alignment explanation
Indices: 9385192--9385222 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
9385182 ACAATATGGG
9385192 TTAAGGGTTAAGGGGT
1 TTAAGGGTTAAGGGGT
*
9385208 TTAATGGTTAAGGGG
1 TTAAGGGTTAAGGGG
9385223 ACATGGGTAA
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
16 14 1.00
ACGTcount: A:0.26, C:0.00, G:0.42, T:0.32
Consensus pattern (16 bp):
TTAAGGGTTAAGGGGT
Found at i:9385304 original size:7 final size:7
Alignment explanation
Indices: 9385235--9385367 Score: 52
Period size: 7 Copynumber: 17.9 Consensus size: 7
9385225 ATGGGTAAAG
9385235 GGTTTAT
1 GGTTTAT
*
9385242 GGCTTAT
1 GGTTTAT
*
9385249 GAGTTAAT
1 G-GTTTAT
* *
9385257 GTTTTAA
1 GGTTTAT
9385264 GGTTTAT
1 GGTTTAT
* *
9385271 TGATTAT
1 GGTTTAT
**
9385278 GGGTTTCG
1 -GGTTTAT
9385286 GGATTT-T
1 GG-TTTAT
9385293 GGTTTAT
1 GGTTTAT
*
9385300 GGTTTAA
1 GGTTTAT
*
9385307 GGTTTAG
1 GGTTTAT
*
9385314 GGGTTAGT
1 GGTTTA-T
9385322 GGTTAATTAT
1 GG-T--TTAT
*
9385332 GGTTTAA
1 GGTTTAT
9385339 GGTTTTAT
1 GG-TTTAT
*
9385347 GGTTTAGG
1 GGTTTA-T
*
9385355 GGTTTAA
1 GGTTTAT
9385362 GGTTTA
1 GGTTTA
9385368 AGATTTTGAG
Statistics
Matches: 92, Mismatches: 24, Indels: 20
0.68 0.18 0.15
Matches are distributed among these distances:
6 3 0.03
7 57 0.62
8 25 0.27
9 1 0.01
10 3 0.03
11 3 0.03
ACGTcount: A:0.20, C:0.02, G:0.31, T:0.48
Consensus pattern (7 bp):
GGTTTAT
Found at i:9385348 original size:15 final size:15
Alignment explanation
Indices: 9385295--9385374 Score: 63
Period size: 15 Copynumber: 5.2 Consensus size: 15
9385285 GGGATTTTGG
9385295 TTTATGGTTTAAGG-
1 TTTATGGTTTAAGGT
* * *
9385309 TTTAGGGGTTAGTGGT
1 TTTATGGTTTA-AGGT
9385325 TAATTATGGTTTAAGGT
1 T--TTATGGTTTAAGGT
* *
9385342 TTTATGGTTTAGGGG
1 TTTATGGTTTAAGGT
* *
9385357 TTTAAGGTTTAAGAT
1 TTTATGGTTTAAGGT
9385372 TTT
1 TTT
9385375 GAGGGTATGG
Statistics
Matches: 50, Mismatches: 12, Indels: 7
0.72 0.17 0.10
Matches are distributed among these distances:
14 9 0.18
15 28 0.56
16 1 0.02
17 4 0.08
18 8 0.16
ACGTcount: A:0.21, C:0.00, G:0.30, T:0.49
Consensus pattern (15 bp):
TTTATGGTTTAAGGT
Found at i:9386861 original size:32 final size:32
Alignment explanation
Indices: 9386820--9386884 Score: 130
Period size: 32 Copynumber: 2.0 Consensus size: 32
9386810 ATATGCACAG
9386820 TAGTGCATTGGTCTCTATTCTAAATTCTTTCA
1 TAGTGCATTGGTCTCTATTCTAAATTCTTTCA
9386852 TAGTGCATTGGTCTCTATTCTAAATTCTTTCA
1 TAGTGCATTGGTCTCTATTCTAAATTCTTTCA
9386884 T
1 T
9386885 CTGTTTAACT
Statistics
Matches: 33, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
32 33 1.00
ACGTcount: A:0.22, C:0.18, G:0.12, T:0.48
Consensus pattern (32 bp):
TAGTGCATTGGTCTCTATTCTAAATTCTTTCA
Found at i:9388428 original size:9 final size:9
Alignment explanation
Indices: 9388416--9388559 Score: 77
Period size: 9 Copynumber: 16.6 Consensus size: 9
9388406 TATATCATAT
9388416 CATAACTTA
1 CATAACTTA
9388425 CATAACTTA
1 CATAACTTA
*
9388434 CAAAACTTA
1 CATAACTTA
9388443 CATAA--TA
1 CATAACTTA
*
9388450 CATAA-ATA
1 CATAACTTA
*
9388458 TATAACTTA
1 CATAACTTA
9388467 CATAACTTA
1 CATAACTTA
*
9388476 CGTAA--TA
1 CATAACTTA
* *
9388483 AATAA-ATA
1 CATAACTTA
* ** *
9388491 TATTTCATA
1 CATAACTTA
*
9388500 TCATAATTTA
1 -CATAACTTA
9388510 CATAACTTA
1 CATAACTTA
*
9388519 CATACCTTA
1 CATAACTTA
*
9388528 CATAAATT-
1 CATAACTTA
* * *
9388536 TATATCATA
1 CATAACTTA
9388545 TCATAACTTA
1 -CATAACTTA
9388555 CATAA
1 CATAA
9388560 TACATAAATA
Statistics
Matches: 101, Mismatches: 27, Indels: 14
0.71 0.19 0.10
Matches are distributed among these distances:
7 12 0.12
8 14 0.14
9 65 0.64
10 10 0.10
ACGTcount: A:0.47, C:0.17, G:0.01, T:0.35
Consensus pattern (9 bp):
CATAACTTA
Found at i:9388463 original size:33 final size:33
Alignment explanation
Indices: 9388426--9388493 Score: 109
Period size: 33 Copynumber: 2.1 Consensus size: 33
9388416 CATAACTTAC
*
9388426 ATAACTTACAAAACTTACATAATACATAAATAT
1 ATAACTTACAAAACTTACATAATAAATAAATAT
* *
9388459 ATAACTTACATAACTTACGTAATAAATAAATAT
1 ATAACTTACAAAACTTACATAATAAATAAATAT
9388492 AT
1 AT
9388494 TTCATATCAT
Statistics
Matches: 32, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
33 32 1.00
ACGTcount: A:0.53, C:0.13, G:0.01, T:0.32
Consensus pattern (33 bp):
ATAACTTACAAAACTTACATAATAAATAAATAT
Found at i:9388502 original size:85 final size:88
Alignment explanation
Indices: 9388400--9388559 Score: 236
Period size: 85 Copynumber: 1.9 Consensus size: 88
9388390 ATCTTAATGT
9388400 TAAATATATATCATATCATAACTTACATAACTTACAAAACTTACAT-AATACATA-AATAT-ATA
1 TAAATATATATCATATCATAACTTACATAACTTACAAAACTTACATAAATACATATAATATCATA
9388462 ACTTACATAACTTACGTAATAAA
66 ACTTACATAACTTACGTAATAAA
* * * * ** *
9388485 TAAATATATTTCATATCATAATTTACATAACTTACATACCTTACATAAATTTATATCATATCATA
1 TAAATATATATCATATCATAACTTACATAACTTACAAAACTTACATAAATACATATAATATCATA
9388550 ACTTACATAA
66 ACTTACATAA
9388560 TACATAAATA
Statistics
Matches: 65, Mismatches: 7, Indels: 3
0.87 0.09 0.04
Matches are distributed among these distances:
85 42 0.65
86 6 0.09
87 4 0.06
88 13 0.20
ACGTcount: A:0.47, C:0.16, G:0.01, T:0.36
Consensus pattern (88 bp):
TAAATATATATCATATCATAACTTACATAACTTACAAAACTTACATAAATACATATAATATCATA
ACTTACATAACTTACGTAATAAA
Found at i:9390234 original size:26 final size:26
Alignment explanation
Indices: 9390205--9390312 Score: 189
Period size: 26 Copynumber: 4.2 Consensus size: 26
9390195 TGGTACAAAT
9390205 TGATAATGGGTTAGGTAAATGTTCCA
1 TGATAATGGGTTAGGTAAATGTTCCA
* *
9390231 TGATAATGGATTAGGTAAATATTCCA
1 TGATAATGGGTTAGGTAAATGTTCCA
9390257 TGATAATGGGTTAGGTAAATGTTCCA
1 TGATAATGGGTTAGGTAAATGTTCCA
*
9390283 TGATAATGGTTTAGGTAAATGTTCCA
1 TGATAATGGGTTAGGTAAATGTTCCA
9390309 TGAT
1 TGAT
9390313 GGCCATTTCA
Statistics
Matches: 77, Mismatches: 5, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
26 77 1.00
ACGTcount: A:0.32, C:0.07, G:0.24, T:0.36
Consensus pattern (26 bp):
TGATAATGGGTTAGGTAAATGTTCCA
Found at i:9400796 original size:14 final size:15
Alignment explanation
Indices: 9400772--9400800 Score: 51
Period size: 14 Copynumber: 2.0 Consensus size: 15
9400762 TTTTAAGCTA
9400772 AGAATAAAGAACAAT
1 AGAATAAAGAACAAT
9400787 AGAA-AAAGAACAAT
1 AGAATAAAGAACAAT
9400801 GGACACATGA
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
14 10 0.71
15 4 0.29
ACGTcount: A:0.69, C:0.07, G:0.14, T:0.10
Consensus pattern (15 bp):
AGAATAAAGAACAAT
Found at i:9401688 original size:20 final size:20
Alignment explanation
Indices: 9401659--9401709 Score: 57
Period size: 20 Copynumber: 2.5 Consensus size: 20
9401649 TCACTTCTCC
* **
9401659 CACGCTCGTGTAACCTTCCA
1 CACGCCCGTGTAACCTAACA
*
9401679 CACGCCCGTGTGACCTAACA
1 CACGCCCGTGTAACCTAACA
*
9401699 CACGGCCGTGT
1 CACGCCCGTGT
9401710 GCCTTGCTCG
Statistics
Matches: 26, Mismatches: 5, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
20 26 1.00
ACGTcount: A:0.20, C:0.39, G:0.22, T:0.20
Consensus pattern (20 bp):
CACGCCCGTGTAACCTAACA
Found at i:9407267 original size:23 final size:23
Alignment explanation
Indices: 9407236--9407284 Score: 64
Period size: 23 Copynumber: 2.1 Consensus size: 23
9407226 CGTAAGAAAT
*
9407236 GTTGTTTGAATTGGATCTGAT-CG
1 GTTGGTTGAATTGGAT-TGATACG
*
9407259 GTTGGTTGAATTGTATTGATACG
1 GTTGGTTGAATTGGATTGATACG
9407282 GTT
1 GTT
9407285 AAAATGATTA
Statistics
Matches: 23, Mismatches: 2, Indels: 2
0.85 0.07 0.07
Matches are distributed among these distances:
22 4 0.17
23 19 0.83
ACGTcount: A:0.18, C:0.06, G:0.31, T:0.45
Consensus pattern (23 bp):
GTTGGTTGAATTGGATTGATACG
Found at i:9411667 original size:21 final size:22
Alignment explanation
Indices: 9411641--9411681 Score: 66
Period size: 21 Copynumber: 1.9 Consensus size: 22
9411631 TCTCCGGAAC
9411641 AACTGACCTATATCT-TGAAAA
1 AACTGACCTATATCTCTGAAAA
*
9411662 AACTGATCTATATCTCTGAA
1 AACTGACCTATATCTCTGAA
9411682 TCTTTAACCA
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
21 14 0.78
22 4 0.22
ACGTcount: A:0.39, C:0.20, G:0.10, T:0.32
Consensus pattern (22 bp):
AACTGACCTATATCTCTGAAAA
Found at i:9417070 original size:10 final size:10
Alignment explanation
Indices: 9417051--9417110 Score: 79
Period size: 10 Copynumber: 6.0 Consensus size: 10
9417041 TGAAATTCTA
9417051 AAAGATAAAT
1 AAAGATAAAT
9417061 ACAA-ATAAAT
1 A-AAGATAAAT
*
9417071 AAAGATAATT
1 AAAGATAAAT
9417081 AAAGATAAAT
1 AAAGATAAAT
9417091 AAAGATAAAT
1 AAAGATAAAT
9417101 GAAA-ATAAAT
1 -AAAGATAAAT
9417111 TCTTAATAAT
Statistics
Matches: 45, Mismatches: 2, Indels: 6
0.85 0.04 0.11
Matches are distributed among these distances:
9 2 0.04
10 38 0.84
11 5 0.11
ACGTcount: A:0.68, C:0.02, G:0.08, T:0.22
Consensus pattern (10 bp):
AAAGATAAAT
Found at i:9424105 original size:76 final size:75
Alignment explanation
Indices: 9424017--9424246 Score: 282
Period size: 76 Copynumber: 3.0 Consensus size: 75
9424007 GTAATTGCCA
* * * *
9424017 ATATTAATTGTGTGGCCAGCACCAGTCAAATAAATAGATAAAGATTTACACCCAGTGCTAGTTGG
1 ATATTAATTGTGTGACCAGCACTAGTCGAATAAATCGATAAAGATTTACACCCAGTGCTAGTTGG
9424082 ATAAATCGACG
66 ATAAA-CGACG
* * * **
9424093 ATATTAATTGTGTGCCCAGCACTAGTCGAATAAATCGATAAAGATTTGCCCCCAGTGCTAGTCAG
1 ATATTAATTGTGTGACCAGCACTAGTCGAATAAATCGATAAAGATTTACACCCAGTGCTAGTTGG
9424158 ATAAACTGACG
66 ATAAAC-GACG
* * * * * *
9424169 ATATTAAGTGTGTGACCATCACTAGTCGAATAAATCGACAAAGATTTGA-GCTCAGCGCTAGTTG
1 ATATTAATTGTGTGACCAGCACTAGTCGAATAAATCGATAAAGATTT-ACACCCAGTGCTAGTTG
9424233 GATAAACCGACG
65 GATAAA-CGACG
9424245 AT
1 AT
9424247 CGCATATGTA
Statistics
Matches: 133, Mismatches: 18, Indels: 6
0.85 0.11 0.04
Matches are distributed among these distances:
75 1 0.01
76 131 0.98
77 1 0.01
ACGTcount: A:0.35, C:0.19, G:0.20, T:0.26
Consensus pattern (75 bp):
ATATTAATTGTGTGACCAGCACTAGTCGAATAAATCGATAAAGATTTACACCCAGTGCTAGTTGG
ATAAACGACG
Found at i:9424156 original size:152 final size:152
Alignment explanation
Indices: 9423964--9424246 Score: 354
Period size: 152 Copynumber: 1.9 Consensus size: 152
9423954 TGCCTTGCAA
** * * *
9423964 AGTCGAATAAATCAACAAAAATTTGTGCCCAATGCTAGTCAGAGT-AATTGCCAATATTAATTGT
1 AGTCGAATAAATCAACAAAAATTTGCCCCCAATGCTAGTCAGA-TAAACTGACAATATTAAGTGT
* * * *
9424028 GTGGCCAGCACCAGTCAAATAAATAGATAAAGATTT-ACACCCAGTGCTAGTTGGATAAATCGAC
65 GTGACCAGCACCAGTCAAATAAATAGACAAAGATTTGA-ACCCAGCGCTAGTTGGATAAACCGAC
9424092 GATATTAATTGTGTGCCCAGCACT
129 GATATTAATTGTGTGCCCAGCACT
* * * * *
9424116 AGTCGAATAAATCGATAAAGATTTGCCCCCAGTGCTAGTCAGATAAACTGACGATATTAAGTGTG
1 AGTCGAATAAATCAACAAAAATTTGCCCCCAATGCTAGTCAGATAAACTGACAATATTAAGTGTG
* * * * * *
9424181 TGACCATCACTAGTCGAATAAATCGACAAAGATTTGAGCTCAGCGCTAGTTGGATAAACCGACGA
66 TGACCAGCACCAGTCAAATAAATAGACAAAGATTTGAACCCAGCGCTAGTTGGATAAACCGACGA
9424246 T
131 T
9424247 CGCATATGTA
Statistics
Matches: 109, Mismatches: 20, Indels: 4
0.82 0.15 0.03
Matches are distributed among these distances:
151 1 0.01
152 107 0.98
153 1 0.01
ACGTcount: A:0.36, C:0.19, G:0.20, T:0.26
Consensus pattern (152 bp):
AGTCGAATAAATCAACAAAAATTTGCCCCCAATGCTAGTCAGATAAACTGACAATATTAAGTGTG
TGACCAGCACCAGTCAAATAAATAGACAAAGATTTGAACCCAGCGCTAGTTGGATAAACCGACGA
TATTAATTGTGTGCCCAGCACT
Found at i:9428287 original size:144 final size:144
Alignment explanation
Indices: 9428050--9428474 Score: 629
Period size: 144 Copynumber: 3.0 Consensus size: 144
9428040 CTTATTGGAG
* * * * * *
9428050 GATAGATCCAGTGTAACCAAA-TTCGTTAGCCTACCAATGTCTTGTGGAATGGATCCATTAAGTT
1 GATAGAGCCAATGTAATCAAATTTC-TTAGTCTCCCAATTTCTTGTGGAATGGATCCATTAAGTT
* ** * ** *
9428114 GGTTGTGC-TGAAGGAGCAACGACCCTAGATTGGTTACATTGCTGATAGAAGATGGGATTGGACC
65 GGTTG-CCTTGAAGGAGCAACGACTGTAGATTAGTTAGGTTGGTGATAGAAGATGGGATTGGACC
9428178 AACAAGCATATTAAAC
129 AACAAGCATATTAAAC
*
9428194 GATAGAGCCAATGTAATCAAATTTCTTAGTCTCCCAATTTCTTGTGGAATGGGTCCATTAAGTTG
1 GATAGAGCCAATGTAATCAAATTTCTTAGTCTCCCAATTTCTTGTGGAATGGATCCATTAAGTTG
* *
9428259 GTTGCCTTGAAGGAGCAACGATTGTAGATTAGTTAGGTTGGTAATAGAAGATGGGATTGGACCAA
66 GTTGCCTTGAAGGAGCAACGACTGTAGATTAGTTAGGTTGGTGATAGAAGATGGGATTGGACCAA
*
9428324 CAAGCATATTAGAC
131 CAAGCATATTAAAC
* * * *
9428338 GATAGAGCCAATGTAATCAAATTTGTCAATCTCCCAATTTCTCGTGGAATGGATCCATTAAGTTG
1 GATAGAGCCAATGTAATCAAATTTCTTAGTCTCCCAATTTCTTGTGGAATGGATCCATTAAGTTG
9428403 GTTGCCTTGAAGGAGCAACGACTGTAGATTAGTTAGGTTGGTGATAGAAGATGGGATTGGACCAA
66 GTTGCCTTGAAGGAGCAACGACTGTAGATTAGTTAGGTTGGTGATAGAAGATGGGATTGGACCAA
9428468 CAAGCAT
131 CAAGCAT
9428475 GTTGCTTGAG
Statistics
Matches: 255, Mismatches: 24, Indels: 4
0.90 0.08 0.01
Matches are distributed among these distances:
143 1 0.00
144 251 0.98
145 3 0.01
ACGTcount: A:0.31, C:0.16, G:0.25, T:0.29
Consensus pattern (144 bp):
GATAGAGCCAATGTAATCAAATTTCTTAGTCTCCCAATTTCTTGTGGAATGGATCCATTAAGTTG
GTTGCCTTGAAGGAGCAACGACTGTAGATTAGTTAGGTTGGTGATAGAAGATGGGATTGGACCAA
CAAGCATATTAAAC
Found at i:9431631 original size:40 final size:41
Alignment explanation
Indices: 9431513--9431625 Score: 149
Period size: 40 Copynumber: 2.8 Consensus size: 41
9431503 CGTTTTCAAT
* **
9431513 AAAACGCCGCTAAAAACAGAGCAATAGCGGCGTTTTTTATCC
1 AAAACGCCGCTAAAAACTGAGCAATAGCGGCG-TTTTTGGCC
*
9431555 -AAACGCTGCT-AAAACTGAGCAATAGCGGCGTTTTTGGCC
1 AAAACGCCGCTAAAAACTGAGCAATAGCGGCGTTTTTGGCC
* *
9431594 AAAACGCCGCTAAAAACTGAACAACAGCGGCG
1 AAAACGCCGCTAAAAACTGAGCAATAGCGGCG
9431626 CTTTGGGAAA
Statistics
Matches: 62, Mismatches: 7, Indels: 5
0.84 0.09 0.07
Matches are distributed among these distances:
39 7 0.11
40 28 0.45
41 27 0.44
ACGTcount: A:0.35, C:0.25, G:0.22, T:0.18
Consensus pattern (41 bp):
AAAACGCCGCTAAAAACTGAGCAATAGCGGCGTTTTTGGCC
Found at i:9431643 original size:40 final size:41
Alignment explanation
Indices: 9431513--9431645 Score: 110
Period size: 40 Copynumber: 3.3 Consensus size: 41
9431503 CGTTTTCAAT
* * * * **
9431513 AAAACGCCGCTAAAAACAGAGCAATAGCGGCGTTTTTTATC-
1 AAAACGCCGCTAAAAACTGAACAACAGCGGCG-TCTTTGGCA
* * * * * *
9431554 CAAACGCTGCT-AAAACTGAGCAATAGCGGCGTTTTTGGCC
1 AAAACGCCGCTAAAAACTGAACAACAGCGGCGTCTTTGGCA
*
9431594 AAAACGCCGCTAAAAACTGAACAACAGCGGCG-CTTTGGGA
1 AAAACGCCGCTAAAAACTGAACAACAGCGGCGTCTTTGGCA
*
9431634 AAAATGCCGCTA
1 AAAACGCCGCTA
9431646 TAGGTCGAGG
Statistics
Matches: 77, Mismatches: 13, Indels: 5
0.81 0.14 0.05
Matches are distributed among these distances:
39 6 0.08
40 44 0.57
41 27 0.35
ACGTcount: A:0.35, C:0.24, G:0.23, T:0.19
Consensus pattern (41 bp):
AAAACGCCGCTAAAAACTGAACAACAGCGGCGTCTTTGGCA
Found at i:9432015 original size:18 final size:18
Alignment explanation
Indices: 9431987--9432036 Score: 66
Period size: 18 Copynumber: 2.7 Consensus size: 18
9431977 TCCATTGTTA
9431987 TATATATATATATTAA-ACT
1 TATA-ATATATATTAAGA-T
*
9432006 TCTAATATATATTAAGAT
1 TATAATATATATTAAGAT
9432024 TATAATATATATT
1 TATAATATATATT
9432037 TAGGGTGTAA
Statistics
Matches: 28, Mismatches: 2, Indels: 3
0.85 0.06 0.09
Matches are distributed among these distances:
18 24 0.86
19 4 0.14
ACGTcount: A:0.46, C:0.04, G:0.02, T:0.48
Consensus pattern (18 bp):
TATAATATATATTAAGAT
Found at i:9432475 original size:15 final size:15
Alignment explanation
Indices: 9432455--9432486 Score: 55
Period size: 15 Copynumber: 2.1 Consensus size: 15
9432445 TTTAATGTAG
*
9432455 AAGATAAATGTATAT
1 AAGATAAATATATAT
9432470 AAGATAAATATATAT
1 AAGATAAATATATAT
9432485 AA
1 AA
9432487 ATTATTATTT
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
15 16 1.00
ACGTcount: A:0.59, C:0.00, G:0.09, T:0.31
Consensus pattern (15 bp):
AAGATAAATATATAT
Found at i:9432525 original size:24 final size:23
Alignment explanation
Indices: 9432458--9432525 Score: 64
Period size: 24 Copynumber: 2.8 Consensus size: 23
9432448 AATGTAGAAG
* *
9432458 ATAAATGTATATAAGATAAATATAT
1 ATAAAT-TATATATGA-AAAAATAT
* *
9432483 ATAAATTATTATTTTAAAAAATAT
1 ATAAATTA-TATATGAAAAAATAT
9432507 ATAAATATATATATGAAAA
1 ATAAAT-TATATATGAAAA
9432526 GTGGTTTAGT
Statistics
Matches: 35, Mismatches: 6, Indels: 5
0.76 0.13 0.11
Matches are distributed among these distances:
24 23 0.66
25 12 0.34
ACGTcount: A:0.57, C:0.00, G:0.04, T:0.38
Consensus pattern (23 bp):
ATAAATTATATATGAAAAAATAT
Found at i:9438974 original size:18 final size:18
Alignment explanation
Indices: 9438951--9439007 Score: 87
Period size: 18 Copynumber: 3.2 Consensus size: 18
9438941 CCCAACTACT
*
9438951 GTATACGTGAACAGTACC
1 GTATACGTGAATAGTACC
*
9438969 GTATACGTGAATAGTGCC
1 GTATACGTGAATAGTACC
*
9438987 GTATACATGAATAGTACC
1 GTATACGTGAATAGTACC
9439005 GTA
1 GTA
9439008 AACGGTCGTA
Statistics
Matches: 35, Mismatches: 4, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
18 35 1.00
ACGTcount: A:0.33, C:0.18, G:0.23, T:0.26
Consensus pattern (18 bp):
GTATACGTGAATAGTACC
Found at i:9439684 original size:20 final size:20
Alignment explanation
Indices: 9439659--9439698 Score: 71
Period size: 20 Copynumber: 2.0 Consensus size: 20
9439649 ACATGGCTGA
*
9439659 TTTGATGCTTATGTGATCCC
1 TTTGATGCTTATATGATCCC
9439679 TTTGATGCTTATATGATCCC
1 TTTGATGCTTATATGATCCC
9439699 CTGCAAGATC
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
20 19 1.00
ACGTcount: A:0.17, C:0.20, G:0.17, T:0.45
Consensus pattern (20 bp):
TTTGATGCTTATATGATCCC
Found at i:9440480 original size:62 final size:62
Alignment explanation
Indices: 9440383--9440506 Score: 239
Period size: 62 Copynumber: 2.0 Consensus size: 62
9440373 TACTTACTGT
*
9440383 CTTTCCTTAGAATTTTAACTATGATTTTTAGTGGAAAATCCGGCAACTTCGGTTATTCCAAC
1 CTTTCCCTAGAATTTTAACTATGATTTTTAGTGGAAAATCCGGCAACTTCGGTTATTCCAAC
9440445 CTTTCCCTAGAATTTTAACTATGATTTTTAGTGGAAAATCCGGCAACTTCGGTTATTCCAAC
1 CTTTCCCTAGAATTTTAACTATGATTTTTAGTGGAAAATCCGGCAACTTCGGTTATTCCAAC
9440507 AAAACCAGCC
Statistics
Matches: 61, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
62 61 1.00
ACGTcount: A:0.27, C:0.20, G:0.15, T:0.38
Consensus pattern (62 bp):
CTTTCCCTAGAATTTTAACTATGATTTTTAGTGGAAAATCCGGCAACTTCGGTTATTCCAAC
Found at i:9443112 original size:9 final size:9
Alignment explanation
Indices: 9443089--9443216 Score: 112
Period size: 9 Copynumber: 13.6 Consensus size: 9
9443079 ATTGATCATT
*
9443089 ACTTAAATA
1 ACTTACATA
*
9443098 AATTACATA
1 ACTTACATA
9443107 ACTTACATA
1 ACTTACATA
* *
9443116 ACTCATATA
1 ACTTACATA
9443125 ACTTACATA
1 ACTTACATA
*
9443134 ATTTACATAA
1 ACTTACAT-A
9443144 CCACTTACATA
1 --ACTTACATA
*
9443155 ACTCACATA
1 ACTTACATA
9443164 ACTTACATA
1 ACTTACATA
*
9443173 ATTTACATA
1 ACTTACATA
*
9443182 ACTCACATA
1 ACTTACATA
* *
9443191 ACGTCCATAACA
1 ACTTACAT---A
9443203 ACTTACATA
1 ACTTACATA
9443212 ACTTA
1 ACTTA
9443217 ACTAATACAT
Statistics
Matches: 94, Mismatches: 19, Indels: 12
0.75 0.15 0.10
Matches are distributed among these distances:
9 78 0.83
10 1 0.01
11 1 0.01
12 14 0.15
ACGTcount: A:0.45, C:0.23, G:0.01, T:0.31
Consensus pattern (9 bp):
ACTTACATA
Found at i:9443159 original size:39 final size:39
Alignment explanation
Indices: 9443107--9443183 Score: 145
Period size: 39 Copynumber: 2.0 Consensus size: 39
9443097 AAATTACATA
*
9443107 ACTTACATAACTCATATAACTTACATAATTTACATAACC
1 ACTTACATAACTCACATAACTTACATAATTTACATAACC
9443146 ACTTACATAACTCACATAACTTACATAATTTACATAAC
1 ACTTACATAACTCACATAACTTACATAATTTACATAAC
9443184 TCACATAACG
Statistics
Matches: 37, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
39 37 1.00
ACGTcount: A:0.44, C:0.23, G:0.00, T:0.32
Consensus pattern (39 bp):
ACTTACATAACTCACATAACTTACATAATTTACATAACC
Found at i:9443183 original size:57 final size:57
Alignment explanation
Indices: 9443102--9443214 Score: 154
Period size: 57 Copynumber: 2.0 Consensus size: 57
9443092 TAAATAAATT
* * ** *
9443102 ACATAACTTACATAACTCATATAACTTACATAATTTACATAACCACTTACATAACTC
1 ACATAACTTACATAACTCACATAACTCACATAACGTACATAACAACTTACATAACTC
* * *
9443159 ACATAACTTACATAATTTACATAACTCACATAACGTCCATAACAACTTACATAACT
1 ACATAACTTACATAACTCACATAACTCACATAACGTACATAACAACTTACATAACT
9443215 TAACTAATAC
Statistics
Matches: 48, Mismatches: 8, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
57 48 1.00
ACGTcount: A:0.44, C:0.25, G:0.01, T:0.30
Consensus pattern (57 bp):
ACATAACTTACATAACTCACATAACTCACATAACGTACATAACAACTTACATAACTC
Found at i:9447144 original size:14 final size:14
Alignment explanation
Indices: 9447107--9447144 Score: 51
Period size: 14 Copynumber: 2.7 Consensus size: 14
9447097 CAATTTTTTA
9447107 ATTATATGTACTAT
1 ATTATATGTACTAT
*
9447121 TTTATATGTACTACT
1 ATTATATGTACTA-T
9447136 ATTAT-TGTA
1 ATTATATGTA
9447145 ATTTGTTACT
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
14 16 0.76
15 5 0.24
ACGTcount: A:0.32, C:0.08, G:0.08, T:0.53
Consensus pattern (14 bp):
ATTATATGTACTAT
Found at i:9449089 original size:33 final size:33
Alignment explanation
Indices: 9449047--9449128 Score: 96
Period size: 31 Copynumber: 2.5 Consensus size: 33
9449037 TTAGAATTAA
* *
9449047 TGTTTTTGGTTGTATTTTTTATGTTAAATTTGC
1 TGTTTTTGGTTGCATTTTTTATATTAAATTTGC
* *
9449080 TGTTTTTGGTTGCA--TTTTATATTATATTTGT
1 TGTTTTTGGTTGCATTTTTTATATTAAATTTGC
* *
9449111 TGTATTTGGTTGGATTTT
1 TGTTTTTGGTTGCATTTT
9449129 AATGCAGGAA
Statistics
Matches: 41, Mismatches: 6, Indels: 4
0.80 0.12 0.08
Matches are distributed among these distances:
31 26 0.63
33 15 0.37
ACGTcount: A:0.15, C:0.02, G:0.20, T:0.63
Consensus pattern (33 bp):
TGTTTTTGGTTGCATTTTTTATATTAAATTTGC
Found at i:9449257 original size:43 final size:43
Alignment explanation
Indices: 9449205--9449368 Score: 276
Period size: 43 Copynumber: 3.8 Consensus size: 43
9449195 TAAAAAAAAG
9449205 CGCCGCTAAAAGGCTTGACCTTTAGCGGCGCTTTTCCCACAAA
1 CGCCGCTAAAAGGCTTGACCTTTAGCGGCGCTTTTCCCACAAA
9449248 CGCCGCTAAAAGGCTTGACCTTTAGCGGCGCTTTTCCCACAAA
1 CGCCGCTAAAAGGCTTGACCTTTAGCGGCGCTTTTCCCACAAA
*
9449291 TGCCGCTAAAAGGCTTGACCTTTAGCGGCGC-TTTCACCACAAA
1 CGCCGCTAAAAGGCTTGACCTTTAGCGGCGCTTTTC-CCACAAA
** *
9449334 CGCCGCTAAAAACCTTGACCTTTAGCGGCGTTTTT
1 CGCCGCTAAAAGGCTTGACCTTTAGCGGCGCTTTT
9449369 TTCCAATAAA
Statistics
Matches: 114, Mismatches: 5, Indels: 3
0.93 0.04 0.02
Matches are distributed among these distances:
42 4 0.04
43 107 0.94
44 3 0.03
ACGTcount: A:0.23, C:0.31, G:0.21, T:0.25
Consensus pattern (43 bp):
CGCCGCTAAAAGGCTTGACCTTTAGCGGCGCTTTTCCCACAAA
Found at i:9450106 original size:55 final size:56
Alignment explanation
Indices: 9450015--9450136 Score: 167
Period size: 55 Copynumber: 2.2 Consensus size: 56
9450005 TTGCTAAAAT
* * *
9450015 ATAATATCCTATAATATCCCTTCAGGAATCAAATTGCTAAGAGATAGTAT-CCACA
1 ATAATATCCTATAATATCCATTCAGGAATCAAATTGCTAAAAGATAATATCCCACA
* * *
9450070 ATAGTATCCTATAATATCTCATT-AGGAATCAGATTGCTAAAAGATAATATCCCATA
1 ATAATATCCTATAATATC-CATTCAGGAATCAAATTGCTAAAAGATAATATCCCACA
9450126 ATAATATCCTA
1 ATAATATCCTA
9450137 ACAGACTTAC
Statistics
Matches: 58, Mismatches: 7, Indels: 3
0.85 0.10 0.04
Matches are distributed among these distances:
55 41 0.71
56 17 0.29
ACGTcount: A:0.41, C:0.18, G:0.10, T:0.31
Consensus pattern (56 bp):
ATAATATCCTATAATATCCATTCAGGAATCAAATTGCTAAAAGATAATATCCCACA
Found at i:9457592 original size:9 final size:9
Alignment explanation
Indices: 9457578--9457614 Score: 58
Period size: 9 Copynumber: 4.2 Consensus size: 9
9457568 TGCATTGACA
9457578 TTCTTTTCT
1 TTCTTTTCT
9457587 TTC-TTTCT
1 TTCTTTTCT
*
9457595 TTATTTTCT
1 TTCTTTTCT
9457604 TTCTTTTCT
1 TTCTTTTCT
9457613 TT
1 TT
9457615 TGATTAATGT
Statistics
Matches: 25, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
8 7 0.28
9 18 0.72
ACGTcount: A:0.03, C:0.19, G:0.00, T:0.78
Consensus pattern (9 bp):
TTCTTTTCT
Found at i:9457596 original size:13 final size:13
Alignment explanation
Indices: 9457578--9457614 Score: 58
Period size: 13 Copynumber: 2.8 Consensus size: 13
9457568 TGCATTGACA
9457578 TTCTTTTCTTTCT
1 TTCTTTTCTTTCT
9457591 TTCTTTAT-TTTCT
1 TTCTTT-TCTTTCT
9457604 TTCTTTTCTTT
1 TTCTTTTCTTT
9457615 TGATTAATGT
Statistics
Matches: 22, Mismatches: 0, Indels: 4
0.85 0.00 0.15
Matches are distributed among these distances:
12 1 0.05
13 20 0.91
14 1 0.05
ACGTcount: A:0.03, C:0.19, G:0.00, T:0.78
Consensus pattern (13 bp):
TTCTTTTCTTTCT
Found at i:9458252 original size:16 final size:16
Alignment explanation
Indices: 9458217--9458257 Score: 50
Period size: 16 Copynumber: 2.6 Consensus size: 16
9458207 GACGTTCCTC
*
9458217 TTCTTCTTTCTTTTTA
1 TTCTTCTTTATTTTTA
9458233 TTCTTCTTTATTATTT-
1 TTCTTCTTTATT-TTTA
9458249 TTC-TCTTTA
1 TTCTTCTTTA
9458258 AAAAAAGGGT
Statistics
Matches: 23, Mismatches: 1, Indels: 3
0.85 0.04 0.11
Matches are distributed among these distances:
15 6 0.26
16 14 0.61
17 3 0.13
ACGTcount: A:0.10, C:0.17, G:0.00, T:0.73
Consensus pattern (16 bp):
TTCTTCTTTATTTTTA
Found at i:9458942 original size:21 final size:21
Alignment explanation
Indices: 9458918--9458987 Score: 63
Period size: 21 Copynumber: 3.3 Consensus size: 21
9458908 CACACGGGCG
9458918 TGTGCCTCAGTCACACAACCA
1 TGTGCCTCAGTCACACAACCA
* *
9458939 TGTGTCTCTC-TTCACACCAA-CG
1 TGTG-C-CTCAGTCACA-CAACCA
* *
9458961 TGTGCCTCAGTCACACAGCTA
1 TGTGCCTCAGTCACACAACCA
9458982 TGTGCC
1 TGTGCC
9458988 CCTCTTCACT
Statistics
Matches: 38, Mismatches: 6, Indels: 10
0.70 0.11 0.19
Matches are distributed among these distances:
20 5 0.13
21 16 0.42
22 11 0.29
23 6 0.16
ACGTcount: A:0.21, C:0.36, G:0.17, T:0.26
Consensus pattern (21 bp):
TGTGCCTCAGTCACACAACCA
Found at i:9459312 original size:48 final size:48
Alignment explanation
Indices: 9459258--9459354 Score: 158
Period size: 48 Copynumber: 2.0 Consensus size: 48
9459248 GCGTGTCTAC
* * **
9459258 TTCCATTTGATTGTCCGTTGATGTGTACAATATTTCTGTGGATTTGTA
1 TTCCATTTGATTATCCATTGACATGTACAATATTTCTGTGGATTTGTA
9459306 TTCCATTTGATTATCCATTGACATGTACAATATTTCTGTGGATTTGTA
1 TTCCATTTGATTATCCATTGACATGTACAATATTTCTGTGGATTTGTA
9459354 T
1 T
9459355 GCATACATAC
Statistics
Matches: 45, Mismatches: 4, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
48 45 1.00
ACGTcount: A:0.22, C:0.13, G:0.18, T:0.47
Consensus pattern (48 bp):
TTCCATTTGATTATCCATTGACATGTACAATATTTCTGTGGATTTGTA
Found at i:9466404 original size:42 final size:42
Alignment explanation
Indices: 9466336--9466417 Score: 103
Period size: 42 Copynumber: 2.0 Consensus size: 42
9466326 ACAGTGAGTT
* * *
9466336 ACACGGCCTAGATACACGCTCATGT-CCTTGCCTGTGTGGTTC
1 ACACGGCCTAGATACAAGCCCATGTCCCTGGCC-GTGTGGTTC
* *
9466378 ACACGGCCTAGGTACAAGCCCGTGTCCCTGGCCGTGTGGT
1 ACACGGCCTAGATACAAGCCCATGTCCCTGGCCGTGTGGT
9466418 CCTAGATCAT
Statistics
Matches: 34, Mismatches: 5, Indels: 2
0.83 0.12 0.05
Matches are distributed among these distances:
42 28 0.82
43 6 0.18
ACGTcount: A:0.16, C:0.32, G:0.28, T:0.24
Consensus pattern (42 bp):
ACACGGCCTAGATACAAGCCCATGTCCCTGGCCGTGTGGTTC
Found at i:9467625 original size:19 final size:18
Alignment explanation
Indices: 9467588--9467630 Score: 61
Period size: 19 Copynumber: 2.4 Consensus size: 18
9467578 ATTGCTGAAG
*
9467588 AAAAAG-AGGAAAATGCA
1 AAAAAGTAGAAAAATGCA
9467605 AAAAAGTAGAAAAAGTGCA
1 AAAAAGTAGAAAAA-TGCA
9467624 AAAAAGT
1 AAAAAGT
9467631 GGGATTTCAA
Statistics
Matches: 23, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
17 6 0.26
18 6 0.26
19 11 0.48
ACGTcount: A:0.65, C:0.05, G:0.21, T:0.09
Consensus pattern (18 bp):
AAAAAGTAGAAAAATGCA
Found at i:9469069 original size:24 final size:24
Alignment explanation
Indices: 9469040--9469087 Score: 62
Period size: 25 Copynumber: 2.0 Consensus size: 24
9469030 ATCAAATATA
9469040 TATTTA-AAAATTATAAAAATAAAT
1 TATTTAGAAAATTA-AAAAATAAAT
*
9469064 TATTTAGTAAACTTAAAAAATAAA
1 TATTTAG-AAAATTAAAAAATAAA
9469088 CAAGTAAAAT
Statistics
Matches: 21, Mismatches: 1, Indels: 3
0.84 0.04 0.12
Matches are distributed among these distances:
24 6 0.29
25 9 0.43
26 6 0.29
ACGTcount: A:0.60, C:0.02, G:0.02, T:0.35
Consensus pattern (24 bp):
TATTTAGAAAATTAAAAAATAAAT
Found at i:9487444 original size:13 final size:13
Alignment explanation
Indices: 9487426--9487454 Score: 58
Period size: 13 Copynumber: 2.2 Consensus size: 13
9487416 AATCAATATT
9487426 TTAAAATTATAAA
1 TTAAAATTATAAA
9487439 TTAAAATTATAAA
1 TTAAAATTATAAA
9487452 TTA
1 TTA
9487455 TAAAAATTAT
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:0.59, C:0.00, G:0.00, T:0.41
Consensus pattern (13 bp):
TTAAAATTATAAA
Found at i:9487447 original size:6 final size:7
Alignment explanation
Indices: 9487429--9487458 Score: 53
Period size: 7 Copynumber: 4.4 Consensus size: 7
9487419 CAATATTTTA
9487429 AAATTAT
1 AAATTAT
9487436 AAATTA-
1 AAATTAT
9487442 AAATTAT
1 AAATTAT
9487449 AAATTAT
1 AAATTAT
9487456 AAA
1 AAA
9487459 AATTATAAAA
Statistics
Matches: 22, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
6 6 0.27
7 16 0.73
ACGTcount: A:0.63, C:0.00, G:0.00, T:0.37
Consensus pattern (7 bp):
AAATTAT
Found at i:9491597 original size:13 final size:13
Alignment explanation
Indices: 9491576--9491618 Score: 59
Period size: 13 Copynumber: 3.3 Consensus size: 13
9491566 TGACGAGATA
*
9491576 CAAATGTGCAAAC
1 CAAAAGTGCAAAC
9491589 CAAAAGTGCAAAC
1 CAAAAGTGCAAAC
* *
9491602 CAAAAATGTAAAC
1 CAAAAGTGCAAAC
9491615 CAAA
1 CAAA
9491619 GTGACGGACA
Statistics
Matches: 27, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
13 27 1.00
ACGTcount: A:0.56, C:0.21, G:0.12, T:0.12
Consensus pattern (13 bp):
CAAAAGTGCAAAC
Found at i:9491672 original size:29 final size:29
Alignment explanation
Indices: 9491614--9491678 Score: 69
Period size: 29 Copynumber: 2.2 Consensus size: 29
9491604 AAAATGTAAA
* * *
9491614 CCAAAGTGACGGACAAGCCAAAGAATAAG
1 CCAAAGTGACGAACAAACCAAAGAACAAG
*
9491643 CCAAAGTGGCGAACAAACCAAA-AGACAAG
1 CCAAAGTGACGAACAAACCAAAGA-ACAAG
*
9491672 CTAAAGT
1 CCAAAGT
9491679 ACTACAAGAA
Statistics
Matches: 30, Mismatches: 5, Indels: 2
0.81 0.14 0.05
Matches are distributed among these distances:
28 1 0.03
29 29 0.97
ACGTcount: A:0.49, C:0.22, G:0.22, T:0.08
Consensus pattern (29 bp):
CCAAAGTGACGAACAAACCAAAGAACAAG
Found at i:9491809 original size:28 final size:28
Alignment explanation
Indices: 9491777--9491832 Score: 103
Period size: 28 Copynumber: 2.0 Consensus size: 28
9491767 GCAAGTTGTC
*
9491777 AACTTGTTAGAAAAAGTTGTCAAATTAT
1 AACTTGCTAGAAAAAGTTGTCAAATTAT
9491805 AACTTGCTAGAAAAAGTTGTCAAATTAT
1 AACTTGCTAGAAAAAGTTGTCAAATTAT
9491833 TTATCTTCAT
Statistics
Matches: 27, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
28 27 1.00
ACGTcount: A:0.43, C:0.09, G:0.14, T:0.34
Consensus pattern (28 bp):
AACTTGCTAGAAAAAGTTGTCAAATTAT
Found at i:9493486 original size:3 final size:3
Alignment explanation
Indices: 9493478--9493542 Score: 62
Period size: 3 Copynumber: 21.7 Consensus size: 3
9493468 CTTTATTAAA
* * * *
9493478 TAT TAT TAT TAT TAT T-T CTAA TAT TAT TAA TAT TAT AAA TAT TAT
1 TAT TAT TAT TAT TAT TAT -TAT TAT TAT TAT TAT TAT TAT TAT TAT
9493523 TAT TAT TAT T-T TAT ATAT TA
1 TAT TAT TAT TAT TAT -TAT TA
9493543 GTGTATGTTT
Statistics
Matches: 50, Mismatches: 8, Indels: 8
0.76 0.12 0.12
Matches are distributed among these distances:
2 3 0.06
3 44 0.88
4 3 0.06
ACGTcount: A:0.38, C:0.02, G:0.00, T:0.60
Consensus pattern (3 bp):
TAT
Found at i:9493500 original size:21 final size:20
Alignment explanation
Indices: 9493476--9493542 Score: 84
Period size: 21 Copynumber: 3.4 Consensus size: 20
9493466 TTCTTTATTA
9493476 AATATTATTATTATTATTTCT
1 AATATTATTATTATTATTT-T
* *
9493497 AATATTATTAATATTA--TA
1 AATATTATTATTATTATTTT
9493515 AATATTATTATTATTATTTT
1 AATATTATTATTATTATTTT
9493535 ATATATTA
1 A-ATATTA
9493543 GTGTATGTTT
Statistics
Matches: 39, Mismatches: 4, Indels: 6
0.80 0.08 0.12
Matches are distributed among these distances:
18 15 0.38
19 1 0.03
20 2 0.05
21 21 0.54
ACGTcount: A:0.40, C:0.01, G:0.00, T:0.58
Consensus pattern (20 bp):
AATATTATTATTATTATTTT
Found at i:9493504 original size:18 final size:18
Alignment explanation
Indices: 9493474--9493531 Score: 71
Period size: 18 Copynumber: 3.1 Consensus size: 18
9493464 GCTTCTTTAT
9493474 TAAATATTATTATTATTA
1 TAAATATTATTATTATTA
* *
9493492 TTTCTAATATTATTAATATTA
1 --T-AAATATTATTATTATTA
9493513 TAAATATTATTATTATTA
1 TAAATATTATTATTATTA
9493531 T
1 T
9493532 TTTATATATT
Statistics
Matches: 33, Mismatches: 4, Indels: 4
0.80 0.10 0.10
Matches are distributed among these distances:
18 16 0.48
19 1 0.03
20 1 0.03
21 15 0.45
ACGTcount: A:0.41, C:0.02, G:0.00, T:0.57
Consensus pattern (18 bp):
TAAATATTATTATTATTA
Found at i:9493643 original size:19 final size:18
Alignment explanation
Indices: 9493621--9493659 Score: 51
Period size: 19 Copynumber: 2.1 Consensus size: 18
9493611 TTTCATATTG
*
9493621 TTATTTTTAGTATTAAATA
1 TTATATTTAGTATT-AATA
*
9493640 TTATATTTATTATTAATA
1 TTATATTTAGTATTAATA
9493658 TT
1 TT
9493660 GGTATATATT
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
18 6 0.33
19 12 0.67
ACGTcount: A:0.36, C:0.00, G:0.03, T:0.62
Consensus pattern (18 bp):
TTATATTTAGTATTAATA
Found at i:9493653 original size:12 final size:12
Alignment explanation
Indices: 9493638--9493746 Score: 56
Period size: 12 Copynumber: 9.3 Consensus size: 12
9493628 TAGTATTAAA
9493638 TATTATATTTAT
1 TATTATATTTAT
9493650 TATTAATATTGGTA-
1 TATT-ATATT--TAT
9493664 TA-TAT-TTTAT
1 TATTATATTTAT
*
9493674 TA-TATATGTA-
1 TATTATATTTAT
*
9493684 TATATACACTTT-T
1 TAT-TATA-TTTAT
*
9493697 TA-TATA-GTAT
1 TATTATATTTAT
*
9493707 TATCAT-TTCTAT
1 TATTATATT-TAT
9493719 TATTATATTTAT
1 TATTATATTTAT
*
9493731 TATTATGTTTAT
1 TATTATATTTAT
9493743 TATT
1 TATT
9493747 TTCACTATTA
Statistics
Matches: 74, Mismatches: 9, Indels: 28
0.67 0.08 0.25
Matches are distributed among these distances:
9 3 0.04
10 10 0.14
11 10 0.14
12 35 0.47
13 12 0.16
14 2 0.03
15 2 0.03
ACGTcount: A:0.32, C:0.04, G:0.05, T:0.60
Consensus pattern (12 bp):
TATTATATTTAT
Found at i:9493755 original size:21 final size:21
Alignment explanation
Indices: 9493718--9493757 Score: 55
Period size: 21 Copynumber: 1.9 Consensus size: 21
9493708 ATCATTTCTA
*
9493718 TTATTATATTTATTATTATGT
1 TTATTATATTTACTATTATGT
9493739 TTATTAT-TTTCACTATTAT
1 TTATTATATTT-ACTATTAT
9493758 TATTTTTTAT
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
20 3 0.18
21 14 0.82
ACGTcount: A:0.28, C:0.05, G:0.03, T:0.65
Consensus pattern (21 bp):
TTATTATATTTACTATTATGT
Found at i:9493949 original size:26 final size:26
Alignment explanation
Indices: 9493920--9493991 Score: 83
Period size: 25 Copynumber: 2.8 Consensus size: 26
9493910 CATATATTTT
9493920 ATTATGTATATATTTTTAATAACTAC
1 ATTATGTATATATTTTTAATAACTAC
* * * *
9493946 ATTATGTATGTATTTGTAA-CACTAT
1 ATTATGTATATATTTTTAATAACTAC
* *
9493971 ATTATGTACATACTTTTAATA
1 ATTATGTATATATTTTTAATA
9493992 TTATTATGTA
Statistics
Matches: 36, Mismatches: 9, Indels: 2
0.77 0.19 0.04
Matches are distributed among these distances:
25 19 0.53
26 17 0.47
ACGTcount: A:0.36, C:0.08, G:0.07, T:0.49
Consensus pattern (26 bp):
ATTATGTATATATTTTTAATAACTAC
Found at i:9493975 original size:25 final size:26
Alignment explanation
Indices: 9493919--9494013 Score: 85
Period size: 26 Copynumber: 3.8 Consensus size: 26
9493909 TCATATATTT
*
9493919 TATTATGTATATATTTTTAATAACTA
1 TATTATGTATATATTTGTAATAACTA
* * *
9493945 CATTATGTATGTATTTGTAA-CACTA
1 TATTATGTATATATTTGTAATAACTA
*
9493970 TATTATGTACATACTTT-TAAT-A-T-
1 TATTATGTATATA-TTTGTAATAACTA
*
9493993 TATTATGTATTTATTT-TAATA
1 TATTATGTATATATTTGTAATA
9494014 TATATGTACA
Statistics
Matches: 57, Mismatches: 9, Indels: 9
0.76 0.12 0.12
Matches are distributed among these distances:
22 7 0.12
23 11 0.19
24 1 0.02
25 18 0.32
26 20 0.35
ACGTcount: A:0.35, C:0.06, G:0.06, T:0.53
Consensus pattern (26 bp):
TATTATGTATATATTTGTAATAACTA
Found at i:9494027 original size:20 final size:21
Alignment explanation
Indices: 9493968--9494028 Score: 79
Period size: 20 Copynumber: 2.9 Consensus size: 21
9493958 TTTGTAACAC
9493968 TATATTATGTACATACTTTTAA
1 TATATTATGTACATA-TTTTAA
**
9493990 TATTATTATGTATTTATTTTAA
1 TA-TATTATGTACATATTTTAA
9494012 TATA-TATGTACATATTT
1 TATATTATGTACATATTT
9494029 ATGTAGTATT
Statistics
Matches: 34, Mismatches: 4, Indels: 4
0.81 0.10 0.10
Matches are distributed among these distances:
20 11 0.32
21 2 0.06
22 10 0.29
23 11 0.32
ACGTcount: A:0.34, C:0.05, G:0.05, T:0.56
Consensus pattern (21 bp):
TATATTATGTACATATTTTAA
Found at i:9494027 original size:24 final size:24
Alignment explanation
Indices: 9493984--9494105 Score: 99
Period size: 26 Copynumber: 5.0 Consensus size: 24
9493974 ATGTACATAC
*
9493984 TTTTAATAT-TAT-TATGTATTTA
1 TTTTAATATATATGTATATATTTA
*
9494006 TTTTAATATATATGTACATATTTA
1 TTTTAATATATATGTATATATTTA
* * *
9494030 -TGTAGTAT-TATATATATATTAGTA
1 TTTTAATATATATGTATATATT--TA
* *
9494054 TTTCTAATATATATTGTATATGTTCA
1 TTT-TAATATATA-TGTATATATTTA
9494080 TTTTATATATATTATGTATATATTTA
1 TTTTA-ATATA-TATGTATATATTTA
9494106 ATATTATTAT
Statistics
Matches: 77, Mismatches: 13, Indels: 16
0.73 0.12 0.15
Matches are distributed among these distances:
22 19 0.25
23 9 0.12
24 10 0.13
25 3 0.04
26 24 0.31
27 4 0.05
28 8 0.10
ACGTcount: A:0.34, C:0.02, G:0.07, T:0.57
Consensus pattern (24 bp):
TTTTAATATATATGTATATATTTA
Found at i:9494113 original size:21 final size:22
Alignment explanation
Indices: 9494041--9494120 Score: 69
Period size: 24 Copynumber: 3.7 Consensus size: 22
9494031 GTAGTATTAT
*
9494041 ATATATATTA-GTAT-T-TCTA
1 ATATATATTATGTATATATTTA
* * * *
9494060 ATATATATTGTATATGTTCATTTT
1 ATATATATTATGTAT-AT-ATTTA
9494084 ATATATATTATGTATATATTTA
1 ATATATATTATGTATATATTTA
9494106 ATAT-TATTATGTATA
1 ATATATATTATGTATA
9494121 CACTTTTCAT
Statistics
Matches: 48, Mismatches: 8, Indels: 8
0.75 0.12 0.12
Matches are distributed among these distances:
19 9 0.19
20 3 0.06
21 11 0.23
22 9 0.19
23 1 0.02
24 15 0.31
ACGTcount: A:0.36, C:0.03, G:0.06, T:0.55
Consensus pattern (22 bp):
ATATATATTATGTATATATTTA
Found at i:9497334 original size:45 final size:44
Alignment explanation
Indices: 9497268--9497362 Score: 118
Period size: 45 Copynumber: 2.1 Consensus size: 44
9497258 GGATTAGAGG
* * *
9497268 TGTAATGGAATAGATGTGTAATAGCAAATCAACTGTTTGGTTGAA
1 TGTAATGGAATAGAGGCGTAATAGCAAAGC-ACTGTTTGGTTGAA
* * **
9497313 TGTAATGGAATATAGGCGTAATAGTAAAGCTGTGTTTGGTTGAA
1 TGTAATGGAATAGAGGCGTAATAGCAAAGCACTGTTTGGTTGAA
9497357 TGTAAT
1 TGTAAT
9497363 AGAGGTGTAA
Statistics
Matches: 43, Mismatches: 7, Indels: 1
0.84 0.14 0.02
Matches are distributed among these distances:
44 18 0.42
45 25 0.58
ACGTcount: A:0.34, C:0.05, G:0.26, T:0.35
Consensus pattern (44 bp):
TGTAATGGAATAGAGGCGTAATAGCAAAGCACTGTTTGGTTGAA
Found at i:9497545 original size:18 final size:17
Alignment explanation
Indices: 9497524--9497558 Score: 52
Period size: 18 Copynumber: 2.0 Consensus size: 17
9497514 TTATTATTTA
*
9497524 ATATATTTTAATTAAAAT
1 ATATAATTTAA-TAAAAT
9497542 ATATAATTTAATAAAAT
1 ATATAATTTAATAAAAT
9497559 TCTTAATAAT
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
17 6 0.38
18 10 0.62
ACGTcount: A:0.54, C:0.00, G:0.00, T:0.46
Consensus pattern (17 bp):
ATATAATTTAATAAAAT
Found at i:9497552 original size:28 final size:27
Alignment explanation
Indices: 9497482--9497554 Score: 76
Period size: 27 Copynumber: 2.7 Consensus size: 27
9497472 TTTATTATCA
*
9497482 AAAATAAATAATTTAATCATATTTAAAC
1 AAAATATATAATTTAAT-ATATTTAAAC
* * **
9497510 ATAAT-TATTATTTAATATATTTTAATT
1 AAAATATATAATTTAATATA-TTTAAAC
9497537 AAAATATATAATTTAATA
1 AAAATATATAATTTAATA
9497555 AAATTCTTAA
Statistics
Matches: 36, Mismatches: 7, Indels: 4
0.77 0.15 0.09
Matches are distributed among these distances:
26 3 0.08
27 18 0.50
28 15 0.42
ACGTcount: A:0.52, C:0.03, G:0.00, T:0.45
Consensus pattern (27 bp):
AAAATATATAATTTAATATATTTAAAC
Found at i:9499130 original size:71 final size:71
Alignment explanation
Indices: 9499014--9499262 Score: 498
Period size: 71 Copynumber: 3.5 Consensus size: 71
9499004 TCTGATATGT
9499014 ATGCAGCTAGTAGTATTTTTAGAGGTTATATATATACAGTCAAAAACACTAGCTGATCTCCATGA
1 ATGCAGCTAGTAGTATTTTTAGAGGTTATATATATACAGTCAAAAACACTAGCTGATCTCCATGA
9499079 ATGCCA
66 ATGCCA
9499085 ATGCAGCTAGTAGTATTTTTAGAGGTTATATATATACAGTCAAAAACACTAGCTGATCTCCATGA
1 ATGCAGCTAGTAGTATTTTTAGAGGTTATATATATACAGTCAAAAACACTAGCTGATCTCCATGA
9499150 ATGCCA
66 ATGCCA
9499156 ATGCAGCTAGTAGTATTTTTAGAGGTTATATATATACAGTCAAAAACACTAGCTGATCTCCATGA
1 ATGCAGCTAGTAGTATTTTTAGAGGTTATATATATACAGTCAAAAACACTAGCTGATCTCCATGA
9499221 ATGCCA
66 ATGCCA
9499227 ATGCAGCTAGTAGTATTTTTAGAGGTTATATATATA
1 ATGCAGCTAGTAGTATTTTTAGAGGTTATATATATA
9499263 TATATACGGC
Statistics
Matches: 178, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
71 178 1.00
ACGTcount: A:0.35, C:0.15, G:0.17, T:0.33
Consensus pattern (71 bp):
ATGCAGCTAGTAGTATTTTTAGAGGTTATATATATACAGTCAAAAACACTAGCTGATCTCCATGA
ATGCCA
Found at i:9501669 original size:72 final size:72
Alignment explanation
Indices: 9501590--9501746 Score: 190
Period size: 72 Copynumber: 2.2 Consensus size: 72
9501580 TTTGATTAAA
* *
9501590 GGATAAGTCCAACAAATCCAAATTGGTTAAGTT-GCCTAATGTAGAAGGGACAGGACCAATAATT
1 GGATAAGTCCAACAAATCCAAATTGGTTAAGTTGGCC-AAGGTAGAAGGGACAGGACCAAGAATT
*
9501654 TGGTTTTT
65 TGGTTATT
* ** ** * * *
9501662 GGATAAGTTCAACATTTTTAAATTGGTTAAGTTGGCCAAGGTAGGAGGGATAGGACCACGAATTT
1 GGATAAGTCCAACAAATCCAAATTGGTTAAGTTGGCCAAGGTAGAAGGGACAGGACCAAGAATTT
9501727 GGTTATT
66 GGTTATT
*
9501734 GGATAGGTCCAAC
1 GGATAAGTCCAAC
9501747 TGTTTCAACC
Statistics
Matches: 71, Mismatches: 13, Indels: 2
0.83 0.15 0.02
Matches are distributed among these distances:
72 68 0.96
73 3 0.04
ACGTcount: A:0.32, C:0.13, G:0.25, T:0.29
Consensus pattern (72 bp):
GGATAAGTCCAACAAATCCAAATTGGTTAAGTTGGCCAAGGTAGAAGGGACAGGACCAAGAATTT
GGTTATT
Found at i:9513127 original size:94 final size:98
Alignment explanation
Indices: 9512923--9513157 Score: 275
Period size: 94 Copynumber: 2.4 Consensus size: 98
9512913 AAAAGATGTG
* * *
9512923 ATATGTG-TTCCCGTATAAGACCATAGCTGGGCTATGGCATCGGTGTGATGTGATAAGGTGCTTC
1 ATATGTGCTT-CCGTATAAGACCATATCTGGGATATGGCATC-GTGTGA-GTGATAAGGAGCTTC
*
9512987 CGTATAAGACCATGTCTGGGACATGACATCGGTATC
63 CGTATAAGACCATATCTGGGACATGACATCGGTATC
* * *
9513023 ATATGAGCTTCCGTATAAGACCATATCTGGGATATGGCATC-TGTGA-T-AT-ATGAGCTTTCGT
1 ATATGTGCTTCCGTATAAGACCATATCTGGGATATGGCATCGTGTGAGTGATAAGGAGCTTCCGT
* * *
9513084 ATAAGACCATATCTGGGATAT-AGCATCGGTGTT
66 ATAAGACCATATCTGGGACATGA-CATCGGTATC
* * *
9513117 ATATGTGCTTCTGTGTAAGAACATATCTGGGATATGGCATC
1 ATATGTGCTTCCGTATAAGACCATATCTGGGATATGGCATC
9513158 AATATGATAT
Statistics
Matches: 119, Mismatches: 14, Indels: 10
0.83 0.10 0.07
Matches are distributed among these distances:
93 1 0.01
94 73 0.61
95 2 0.02
96 1 0.01
98 5 0.04
100 35 0.29
101 2 0.02
ACGTcount: A:0.26, C:0.17, G:0.26, T:0.31
Consensus pattern (98 bp):
ATATGTGCTTCCGTATAAGACCATATCTGGGATATGGCATCGTGTGAGTGATAAGGAGCTTCCGT
ATAAGACCATATCTGGGACATGACATCGGTATC
Found at i:9513168 original size:47 final size:46
Alignment explanation
Indices: 9512980--9513186 Score: 227
Period size: 47 Copynumber: 4.4 Consensus size: 46
9512970 ATGTGATAAG
* * *
9512980 GTGCTTCCGTATAAGACCATGTCTGGGACATGACATCGGTATCATAT
1 GTGCTTCCGTATAAGACCATATCTGGGATATGGCATCGGTAT-ATAT
* *
9513027 GAGCTTCCGTATAAGACCATATCTGGGATATGGCATCTGTGATATAT
1 GTGCTTCCGTATAAGACCATATCTGGGATATGGCATCGGT-ATATAT
* * * *
9513074 GAGCTTTCGTATAAGACCATATCTGGGATATAGCATCGGTGTTATAT
1 GTGCTTCCGTATAAGACCATATCTGGGATATGGCATCGGT-ATATAT
* * * **
9513121 GTGCTTCTGTGTAAGAACATATCTGGGATATGGCATCAATATGATAT
1 GTGCTTCCGTATAAGACCATATCTGGGATATGGCATCGGTAT-ATAT
* *
9513168 GTG-ATCCGTGTAAGACCAT
1 GTGCTTCCGTATAAGACCAT
9513187 GGCTAGGCTA
Statistics
Matches: 137, Mismatches: 21, Indels: 5
0.84 0.13 0.03
Matches are distributed among these distances:
46 14 0.10
47 121 0.88
48 2 0.01
ACGTcount: A:0.28, C:0.17, G:0.24, T:0.32
Consensus pattern (46 bp):
GTGCTTCCGTATAAGACCATATCTGGGATATGGCATCGGTATATAT
Found at i:9513355 original size:42 final size:42
Alignment explanation
Indices: 9513308--9513393 Score: 154
Period size: 42 Copynumber: 2.0 Consensus size: 42
9513298 ATGAAAGTAA
9513308 ATGAAAAATAGGCCCAAGAGTTCTAAAATTTGGTGAATAATG
1 ATGAAAAATAGGCCCAAGAGTTCTAAAATTTGGTGAATAATG
* *
9513350 ATGAAAAATGGGCCCAAGAGTTCTAAAATTTGGTGAATAGTG
1 ATGAAAAATAGGCCCAAGAGTTCTAAAATTTGGTGAATAATG
9513392 AT
1 AT
9513394 ATCGAAATCA
Statistics
Matches: 42, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
42 42 1.00
ACGTcount: A:0.41, C:0.09, G:0.23, T:0.27
Consensus pattern (42 bp):
ATGAAAAATAGGCCCAAGAGTTCTAAAATTTGGTGAATAATG
Found at i:9520791 original size:41 final size:43
Alignment explanation
Indices: 9520687--9520854 Score: 123
Period size: 41 Copynumber: 3.9 Consensus size: 43
9520677 TTGCACAATA
* * *
9520687 CCAATGTCCCAGATGTGGTCTTACA-TATGATCAAATATCTATG
1 CCAATGTCCCAGATATGGTCTTACACGA-GATCAAATATCGATG
* * * * *
9520730 CCACTGTCCCTGACAGGGTCTTACACGA-ATCATATA-CGATG
1 CCAATGTCCCAGATATGGTCTTACACGAGATCAAATATCGATG
* *
9520771 CCAATGTCCCAGATATGGTCTTACACATACATCTCAAATA--GATG
1 CCAATGTCCCAGATATGGTCTTACAC-GAGA--TCAAATATCGATG
* * * *
9520815 CCAACGTCCCAG-TCGTGGTCTTACACGAAATCACATATCG
1 CCAATGTCCCAGAT-ATGGTCTTACACGAGATCAAATATCG
9520855 GAATCCTATG
Statistics
Matches: 98, Mismatches: 19, Indels: 16
0.74 0.14 0.12
Matches are distributed among these distances:
41 32 0.33
42 8 0.08
43 25 0.26
44 27 0.28
45 6 0.06
ACGTcount: A:0.30, C:0.27, G:0.17, T:0.27
Consensus pattern (43 bp):
CCAATGTCCCAGATATGGTCTTACACGAGATCAAATATCGATG
Found at i:9523907 original size:18 final size:18
Alignment explanation
Indices: 9523884--9523945 Score: 65
Period size: 18 Copynumber: 3.4 Consensus size: 18
9523874 TCAAAATATT
9523884 AAAATTATAAAAATACAA
1 AAAATTATAAAAATACAA
*
9523902 AAAATTATAAAATATA-GA
1 AAAATTATAAAA-ATACAA
* *
9523920 AAATTTATAAAGAAT-CAT
1 AAAATTATAAA-AATACAA
9523938 AAAATTAT
1 AAAATTAT
9523946 TAGACATATA
Statistics
Matches: 36, Mismatches: 5, Indels: 6
0.77 0.11 0.13
Matches are distributed among these distances:
18 32 0.89
19 4 0.11
ACGTcount: A:0.65, C:0.03, G:0.03, T:0.29
Consensus pattern (18 bp):
AAAATTATAAAAATACAA
Found at i:9523930 original size:36 final size:34
Alignment explanation
Indices: 9523876--9523945 Score: 88
Period size: 36 Copynumber: 2.0 Consensus size: 34
9523866 TTGAATATTC
*
9523876 AAAATATTAAAATTATAAA-AATACAAAAAATTAT
1 AAAATATGAAAATTATAAAGAAT-CAAAAAATTAT
*
9523910 AAAATATAGAAAATTTATAAAGAATCATAAAATTAT
1 AAAATAT-GAAAA-TTATAAAGAATCAAAAAATTAT
9523946 TAGACATATA
Statistics
Matches: 31, Mismatches: 2, Indels: 4
0.84 0.05 0.11
Matches are distributed among these distances:
34 7 0.23
35 4 0.13
36 17 0.55
37 3 0.10
ACGTcount: A:0.64, C:0.03, G:0.03, T:0.30
Consensus pattern (34 bp):
AAAATATGAAAATTATAAAGAATCAAAAAATTAT
Found at i:9527909 original size:72 final size:71
Alignment explanation
Indices: 9527749--9527917 Score: 180
Period size: 72 Copynumber: 2.3 Consensus size: 71
9527739 TACCCCAGTG
* * * * *
9527749 ATTTGATTAAAGGATAAGTCCAAC-TGTTTTAAATTGGTTAATTTGCCTAAGGTAGAAGGGAAAG
1 ATTTGATT-ATGGATAGGTCCAACAT-TTTTAAAGTGGTTAAGTTGCCCAAGGTAGAAGGGAAAG
9527813 GACCACTA
64 GACCACTA
* * * *
9527821 ATTTGGTTTTTGGATAGGTTCAACATTTTTAAAGTGGTTAAGTTGCCCAAGGTAGAAGGGATAGG
1 ATTT-GATTATGGATAGGTCCAACATTTTTAAAGTGGTTAAGTTGCCCAAGGTAGAAGGGAAAGG
* *
9527886 GCCAGTA
65 ACCACTA
9527893 ATTCT-ATTATGCGATAGGTCCAACA
1 ATT-TGATTATG-GATAGGTCCAACA
9527918 GCTTCAAACT
Statistics
Matches: 79, Mismatches: 14, Indels: 8
0.78 0.14 0.08
Matches are distributed among these distances:
71 4 0.05
72 70 0.89
73 5 0.06
ACGTcount: A:0.32, C:0.12, G:0.24, T:0.32
Consensus pattern (71 bp):
ATTTGATTATGGATAGGTCCAACATTTTTAAAGTGGTTAAGTTGCCCAAGGTAGAAGGGAAAGGA
CCACTA
Found at i:9528753 original size:16 final size:15
Alignment explanation
Indices: 9528722--9528752 Score: 53
Period size: 15 Copynumber: 2.1 Consensus size: 15
9528712 TTTGATTTGT
*
9528722 ATTTTTTTATTGAAA
1 ATTTTTCTATTGAAA
9528737 ATTTTTCTATTGAAA
1 ATTTTTCTATTGAAA
9528752 A
1 A
9528753 AATATATAAA
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
15 15 1.00
ACGTcount: A:0.35, C:0.03, G:0.06, T:0.55
Consensus pattern (15 bp):
ATTTTTCTATTGAAA
Found at i:9529456 original size:17 final size:19
Alignment explanation
Indices: 9529424--9529463 Score: 57
Period size: 18 Copynumber: 2.2 Consensus size: 19
9529414 AAATGTGAAA
9529424 AATAACAACAAAATTA-AC
1 AATAACAACAAAATTATAC
*
9529442 AATAA-AACAAGATTATAC
1 AATAACAACAAAATTATAC
9529460 AATA
1 AATA
9529464 TTCAAATAAT
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
17 9 0.45
18 11 0.55
ACGTcount: A:0.65, C:0.12, G:0.03, T:0.20
Consensus pattern (19 bp):
AATAACAACAAAATTATAC
Found at i:9530271 original size:29 final size:30
Alignment explanation
Indices: 9530239--9530297 Score: 75
Period size: 31 Copynumber: 2.0 Consensus size: 30
9530229 TCACGTGTAT
*
9530239 AATT-ATATCAAATTAAAATTCATATATAC
1 AATTAATATCAAATCAAAATTCATATATAC
* *
9530268 AATTACATATTAGATCAAAATTCATATATA
1 AATTA-ATATCAAATCAAAATTCATATATA
9530298 ATTTTAATAT
Statistics
Matches: 25, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
29 4 0.16
31 21 0.84
ACGTcount: A:0.51, C:0.10, G:0.02, T:0.37
Consensus pattern (30 bp):
AATTAATATCAAATCAAAATTCATATATAC
Found at i:9537361 original size:43 final size:43
Alignment explanation
Indices: 9537304--9537390 Score: 165
Period size: 43 Copynumber: 2.0 Consensus size: 43
9537294 TTTTACTTTT
9537304 TCCCCCAAAACTTTTTTTTTTTGCTTTCTCCCAAAACTTTTAC
1 TCCCCCAAAACTTTTTTTTTTTGCTTTCTCCCAAAACTTTTAC
*
9537347 TCCCCCAAACCTTTTTTTTTTTGCTTTCTCCCAAAACTTTTAC
1 TCCCCCAAAACTTTTTTTTTTTGCTTTCTCCCAAAACTTTTAC
9537390 T
1 T
9537391 TCCTCCTAAA
Statistics
Matches: 43, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
43 43 1.00
ACGTcount: A:0.20, C:0.31, G:0.02, T:0.47
Consensus pattern (43 bp):
TCCCCCAAAACTTTTTTTTTTTGCTTTCTCCCAAAACTTTTAC
Found at i:9537411 original size:44 final size:43
Alignment explanation
Indices: 9537320--9537412 Score: 116
Period size: 43 Copynumber: 2.1 Consensus size: 43
9537310 AAAACTTTTT
****
9537320 TTTTTTGCTTTCTCCCAAAACTTTTACTCCCCCAAACCTTTTT
1 TTTTTTGCTTTCTCCCAAAACTTTTACTCCCCCAAACCTCGAA
*
9537363 TTTTTTGCTTTCTCCCAAAACTTTTACTTCCTCCTAAACC-CGAA
1 TTTTTTGCTTTCTCCCAAAACTTTTAC-TCC-CCCAAACCTCGAA
9537407 TTTTTT
1 TTTTTT
9537413 TAATTTATCT
Statistics
Matches: 43, Mismatches: 5, Indels: 3
0.84 0.10 0.06
Matches are distributed among these distances:
43 27 0.63
44 9 0.21
45 7 0.16
ACGTcount: A:0.19, C:0.30, G:0.03, T:0.47
Consensus pattern (43 bp):
TTTTTTGCTTTCTCCCAAAACTTTTACTCCCCCAAACCTCGAA
Found at i:9537596 original size:18 final size:17
Alignment explanation
Indices: 9537575--9537608 Score: 50
Period size: 18 Copynumber: 1.9 Consensus size: 17
9537565 TTAAAAAATC
*
9537575 ATATTTTTTTTATATTTA
1 ATATATTTTTTA-ATTTA
9537593 ATATATTTTTTAATTT
1 ATATATTTTTTAATTT
9537609 CAAAATATAT
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
17 4 0.27
18 11 0.73
ACGTcount: A:0.29, C:0.00, G:0.00, T:0.71
Consensus pattern (17 bp):
ATATATTTTTTAATTTA
Found at i:9537616 original size:18 final size:18
Alignment explanation
Indices: 9537580--9537621 Score: 50
Period size: 18 Copynumber: 2.3 Consensus size: 18
9537570 AAATCATATT
*
9537580 TTTTTTATATTTAATATA
1 TTTTTTATATTTAAAATA
9537598 TTTTTTA-ATTTCAAAATA
1 TTTTTTATATTT-AAAATA
9537616 TATTTT
1 T-TTTT
9537622 GACAAGAATC
Statistics
Matches: 21, Mismatches: 1, Indels: 3
0.84 0.04 0.12
Matches are distributed among these distances:
17 4 0.19
18 13 0.62
19 4 0.19
ACGTcount: A:0.33, C:0.02, G:0.00, T:0.64
Consensus pattern (18 bp):
TTTTTTATATTTAAAATA
Found at i:9545973 original size:52 final size:53
Alignment explanation
Indices: 9545906--9546010 Score: 131
Period size: 53 Copynumber: 2.0 Consensus size: 53
9545896 GTCCTCAATA
* *
9545906 AATTTCATTCCTATTGCA-TTGCTATCTTTGATTAACTTATTCATTTTGAGTT
1 AATTTCATTCCTATTGCATTTGCAATCTTTGATTAACTTATTCATTTCGAGTT
* * * * * *
9545958 AATTTCCTTCTTATTGTATTTTCAATCTTTGATTGATTTATTCATTTCGAGTT
1 AATTTCATTCCTATTGCATTTGCAATCTTTGATTAACTTATTCATTTCGAGTT
9546011 TTGCTCTCAA
Statistics
Matches: 44, Mismatches: 8, Indels: 1
0.83 0.15 0.02
Matches are distributed among these distances:
52 15 0.34
53 29 0.66
ACGTcount: A:0.22, C:0.14, G:0.10, T:0.54
Consensus pattern (53 bp):
AATTTCATTCCTATTGCATTTGCAATCTTTGATTAACTTATTCATTTCGAGTT
Found at i:9546848 original size:131 final size:131
Alignment explanation
Indices: 9546510--9546852 Score: 463
Period size: 131 Copynumber: 2.6 Consensus size: 131
9546500 ATCGGTAATT
* * *
9546510 TTGCAGATCTTGCCTCCCTGAAGTTGCAGTGGAACAGATCGAAGACGACGAATCTTGTCTCTCTG
1 TTGCAGATCTTGTCTCCCTGAAGTTGCAGTGGAACAGATCGAAGACGACGAATCTTATCTC-CCG
* * *
9546575 AAGTTGCAGTGGAGCAGATTTAAGCCACCATCCTATCTCCCTAAGCAGTAGTGGAGTAGGCTGAA
65 AAGTTGCAGTGGAGCAAATTTAAGCCACCATCCTATCTCCCTAAGAAGTAGTGGAGTAGGCTAAA
9546640 GA
130 GA
* * * * *
9546642 TTGCAGATCTTGTCTCTCTGAAGTTGCAGTGGAAAAAATCGAAGACGGCGAATCTTATCTCCCTA
1 TTGCAGATCTTGTCTCCCTGAAGTTGCAGTGGAACAGATCGAAGACGACGAATCTTATCTCCCGA
*** * *
9546707 ACCAGTAGTGGAGCAAATTTAAGCCACCATCCTATCTTCCTAAGAAGTAGTGGAGTAGGCTAAAG
66 AGTTGCAGTGGAGCAAATTTAAGCCACCATCCTATCTCCCTAAGAAGTAGTGGAGTAGGCTAAAG
9546772 A
131 A
* * * * * *
9546773 TTGTAGATCTTGTCTCCCTGAAGTTGCAGTGGAGCAGATTGAAG-CCACTAACCTTATCTTCCCG
1 TTGCAGATCTTGTCTCCCTGAAGTTGCAGTGGAACAGATCGAAGACGACGAATCTTATC-TCCCG
9546837 AAGTTGCAGTGGAGCA
65 AAGTTGCAGTGGAGCA
9546853 GGTTGAAGTT
Statistics
Matches: 179, Mismatches: 31, Indels: 3
0.84 0.15 0.01
Matches are distributed among these distances:
130 10 0.06
131 114 0.64
132 55 0.31
ACGTcount: A:0.28, C:0.22, G:0.24, T:0.26
Consensus pattern (131 bp):
TTGCAGATCTTGTCTCCCTGAAGTTGCAGTGGAACAGATCGAAGACGACGAATCTTATCTCCCGA
AGTTGCAGTGGAGCAAATTTAAGCCACCATCCTATCTCCCTAAGAAGTAGTGGAGTAGGCTAAAG
A
Found at i:9546884 original size:44 final size:43
Alignment explanation
Indices: 9546779--9546894 Score: 126
Period size: 44 Copynumber: 2.6 Consensus size: 43
9546769 AAGATTGTAG
*
9546779 ATCTTGTCTCCCTGAAGTTGCAGTGGAGCAGATTGAAGCCACTA
1 ATCTTATCT-CCTGAAGTTGCAGTGGAGCAGATTGAAGCCACTA
* * * **
9546823 ACCTTATCTTCCCGAAGTTGCAGTGGAGCAGGTTGAAGTTAC-A
1 ATCTTATC-TCCTGAAGTTGCAGTGGAGCAGATTGAAGCCACTA
*
9546866 AGTCTTATCTCCTTGAAGTTGTAGTGGAG
1 A-TCTTATCTCC-TGAAGTTGCAGTGGAG
9546895 TAGACTCATG
Statistics
Matches: 60, Mismatches: 9, Indels: 6
0.80 0.12 0.08
Matches are distributed among these distances:
43 5 0.08
44 54 0.90
45 1 0.02
ACGTcount: A:0.24, C:0.20, G:0.26, T:0.30
Consensus pattern (43 bp):
ATCTTATCTCCTGAAGTTGCAGTGGAGCAGATTGAAGCCACTA
Found at i:9548023 original size:25 final size:24
Alignment explanation
Indices: 9547978--9548033 Score: 62
Period size: 25 Copynumber: 2.2 Consensus size: 24
9547968 AACGAACAAG
9547978 AAGACAAAAACAATAGCAAACA-AC
1 AAGA-AAAAACAATAGCAAACAGAC
9548002 AAAGAAAAAACAATGAAG-AAACAGAC
1 -AAGAAAAAACAAT--AGCAAACAGAC
9548028 AAGAAA
1 AAGAAA
9548034 TAGAAACAAA
Statistics
Matches: 28, Mismatches: 0, Indels: 6
0.82 0.00 0.18
Matches are distributed among these distances:
24 9 0.32
25 15 0.54
26 4 0.14
ACGTcount: A:0.70, C:0.14, G:0.12, T:0.04
Consensus pattern (24 bp):
AAGAAAAAACAATAGCAAACAGAC
Found at i:9548117 original size:19 final size:18
Alignment explanation
Indices: 9548088--9548137 Score: 55
Period size: 19 Copynumber: 2.7 Consensus size: 18
9548078 GTATATATTT
9548088 TAAATTTATTTAGGTAAA
1 TAAATTTATTTAGGTAAA
* *
9548106 TAAATCTTATTTGGGTAGA
1 TAAAT-TTATTTAGGTAAA
*
9548125 TAAGTTTTATTTA
1 TAA-ATTTATTTA
9548138 TATTCTAGAA
Statistics
Matches: 26, Mismatches: 4, Indels: 3
0.79 0.12 0.09
Matches are distributed among these distances:
18 5 0.19
19 20 0.77
20 1 0.04
ACGTcount: A:0.36, C:0.02, G:0.14, T:0.48
Consensus pattern (18 bp):
TAAATTTATTTAGGTAAA
Found at i:9548204 original size:43 final size:43
Alignment explanation
Indices: 9548157--9548241 Score: 143
Period size: 43 Copynumber: 2.0 Consensus size: 43
9548147 AATTTTTTTA
9548157 TTTTATCTTTTAGTAGTTTACTAGAATAAGGGAACTATTTTCT
1 TTTTATCTTTTAGTAGTTTACTAGAATAAGGGAACTATTTTCT
* * *
9548200 TTTTATGTTTTAGTAGTTTATTAGAATAATGGAACTATTTTC
1 TTTTATCTTTTAGTAGTTTACTAGAATAAGGGAACTATTTTC
9548242 CTAATTAGGA
Statistics
Matches: 39, Mismatches: 3, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
43 39 1.00
ACGTcount: A:0.28, C:0.07, G:0.14, T:0.51
Consensus pattern (43 bp):
TTTTATCTTTTAGTAGTTTACTAGAATAAGGGAACTATTTTCT
Found at i:9551718 original size:43 final size:43
Alignment explanation
Indices: 9551657--9551743 Score: 138
Period size: 43 Copynumber: 2.0 Consensus size: 43
9551647 ATGTGATATA
*
9551657 CTTGGAAAATCTGAAATACTACCGAGTATCGGTATCGGCATTC
1 CTTGGAAAATCTGAAATACTACCGAGTATCAGTATCGGCATTC
* * *
9551700 CTTGGAAAATGTGAAATACTACCGAGTATTAGTATTGGCATTC
1 CTTGGAAAATCTGAAATACTACCGAGTATCAGTATCGGCATTC
9551743 C
1 C
9551744 GTAGAAGATG
Statistics
Matches: 40, Mismatches: 4, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
43 40 1.00
ACGTcount: A:0.31, C:0.18, G:0.21, T:0.30
Consensus pattern (43 bp):
CTTGGAAAATCTGAAATACTACCGAGTATCAGTATCGGCATTC
Found at i:9551894 original size:46 final size:45
Alignment explanation
Indices: 9551841--9552016 Score: 178
Period size: 46 Copynumber: 3.8 Consensus size: 45
9551831 TATTTGGGCA
9551841 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGACGCGAATG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGACGCGAA-G
*** * *
9551887 TCCGAACTCGTTGAGTTGAGTCCGAGTTCGAAAGATGTAACTAG-GCA-
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTC-ACTTATG-GAC--GCGAAG
* * *
9551934 TCCGAGCTCGTTGAGTTGAGTCCGAGCTCACTTATGGATGCGAACG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGACGCGAA-G
* *
9551980 -CCTGAGCTCGTTGAGTTGAGTCCGAGTTCGCTTATGG
1 TCC-GAACTCGTTGAGTTGAGTCCGAGTTCACTTATGG
9552017 GCAGGTTACA
Statistics
Matches: 107, Mismatches: 15, Indels: 16
0.78 0.11 0.12
Matches are distributed among these distances:
43 1 0.01
44 2 0.02
45 3 0.03
46 65 0.61
47 31 0.29
48 2 0.02
49 2 0.02
50 1 0.01
ACGTcount: A:0.21, C:0.22, G:0.30, T:0.28
Consensus pattern (45 bp):
TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGACGCGAAG
Found at i:9551996 original size:93 final size:93
Alignment explanation
Indices: 9551837--9552009 Score: 285
Period size: 93 Copynumber: 1.9 Consensus size: 93
9551827 GGGATATTTG
* *
9551837 GGCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGACGCGAATGTCCGAACTCGTTGAG
1 GGCATCCGAACTCGTTGAGTTGAGTCCGAGCTCACTTATGGACGCGAACGTCCGAACTCGTTGAG
9551902 TTGAGTCCGAGTTCGAAAGATGTAACTA
66 TTGAGTCCGAGTTCGAAAGATGTAACTA
* * *
9551930 GGCATCCGAGCTCGTTGAGTTGAGTCCGAGCTCACTTATGGATGCGAACG-CCTGAGCTCGTTGA
1 GGCATCCGAACTCGTTGAGTTGAGTCCGAGCTCACTTATGGACGCGAACGTCC-GAACTCGTTGA
9551994 GTTGAGTCCGAGTTCG
65 GTTGAGTCCGAGTTCG
9552010 CTTATGGGCA
Statistics
Matches: 74, Mismatches: 5, Indels: 2
0.91 0.06 0.02
Matches are distributed among these distances:
92 2 0.03
93 72 0.97
ACGTcount: A:0.21, C:0.22, G:0.30, T:0.27
Consensus pattern (93 bp):
GGCATCCGAACTCGTTGAGTTGAGTCCGAGCTCACTTATGGACGCGAACGTCCGAACTCGTTGAG
TTGAGTCCGAGTTCGAAAGATGTAACTA
Found at i:9555694 original size:19 final size:19
Alignment explanation
Indices: 9555648--9555695 Score: 62
Period size: 19 Copynumber: 2.6 Consensus size: 19
9555638 GTATATATTT
9555648 TAAA-TTTATTTAGGTAGA
1 TAAATTTTATTTAGGTAGA
* *
9555666 TAAATCTTATTTGGGTAGA
1 TAAATTTTATTTAGGTAGA
*
9555685 TAAGTTTTATT
1 TAAATTTTATT
9555696 CATATTCTAG
Statistics
Matches: 25, Mismatches: 4, Indels: 1
0.83 0.13 0.03
Matches are distributed among these distances:
18 4 0.16
19 21 0.84
ACGTcount: A:0.33, C:0.02, G:0.17, T:0.48
Consensus pattern (19 bp):
TAAATTTTATTTAGGTAGA
Found at i:9558326 original size:15 final size:17
Alignment explanation
Indices: 9558281--9558334 Score: 53
Period size: 15 Copynumber: 3.3 Consensus size: 17
9558271 TATATTATAC
9558281 ATTATAA-GATTA-TTTT
1 ATTATAATG-TTATTTTT
9558297 ATTATAAATGTTATTTTT
1 ATTAT-AATGTTATTTTT
*
9558315 ATTAT-ATG-TATTATT
1 ATTATAATGTTATTTTT
9558330 ATTAT
1 ATTAT
9558335 CTAATATTTT
Statistics
Matches: 34, Mismatches: 1, Indels: 7
0.81 0.02 0.17
Matches are distributed among these distances:
15 11 0.32
16 8 0.24
17 5 0.15
18 10 0.29
ACGTcount: A:0.35, C:0.00, G:0.06, T:0.59
Consensus pattern (17 bp):
ATTATAATGTTATTTTT
Found at i:9558562 original size:25 final size:25
Alignment explanation
Indices: 9558489--9558562 Score: 66
Period size: 27 Copynumber: 3.0 Consensus size: 25
9558479 ATTTCCCATA
*
9558489 TATTTTAT-TATATA-ACAT-TTAT
1 TATTTTATATATATATATATATTAT
* *
9558511 TATGTTT-TATCTTTATATATTACTTAT
1 TAT-TTTATATATATATATA-TA-TTAT
9558538 TATTTTATATATATATATATATTAT
1 TATTTTATATATATATATATATTAT
9558563 CACATATTAC
Statistics
Matches: 40, Mismatches: 5, Indels: 11
0.71 0.09 0.20
Matches are distributed among these distances:
22 4 0.10
23 7 0.17
24 2 0.05
25 5 0.12
26 5 0.12
27 17 0.43
ACGTcount: A:0.34, C:0.04, G:0.01, T:0.61
Consensus pattern (25 bp):
TATTTTATATATATATATATATTAT
Found at i:9558677 original size:4 final size:4
Alignment explanation
Indices: 9558670--9558710 Score: 55
Period size: 4 Copynumber: 9.5 Consensus size: 4
9558660 ATACATTTCA
9558670 TTAT TTAT TTAT TTAT TTAT TTAT TATAT ATTAT TTCAT TT
1 TTAT TTAT TTAT TTAT TTAT TTAT T-TAT -TTAT TT-AT TT
9558711 TAAATTAATA
Statistics
Matches: 34, Mismatches: 0, Indels: 5
0.87 0.00 0.13
Matches are distributed among these distances:
4 23 0.68
5 10 0.29
6 1 0.03
ACGTcount: A:0.27, C:0.02, G:0.00, T:0.71
Consensus pattern (4 bp):
TTAT
Found at i:9562321 original size:25 final size:25
Alignment explanation
Indices: 9562293--9562342 Score: 100
Period size: 25 Copynumber: 2.0 Consensus size: 25
9562283 CTACTATTTA
9562293 AGAAAAGAGTATGACAAGTGAAGAC
1 AGAAAAGAGTATGACAAGTGAAGAC
9562318 AGAAAAGAGTATGACAAGTGAAGAC
1 AGAAAAGAGTATGACAAGTGAAGAC
9562343 TAAGTCTAGT
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
25 25 1.00
ACGTcount: A:0.52, C:0.08, G:0.28, T:0.12
Consensus pattern (25 bp):
AGAAAAGAGTATGACAAGTGAAGAC
Found at i:9568000 original size:9 final size:9
Alignment explanation
Indices: 9567986--9568015 Score: 60
Period size: 9 Copynumber: 3.3 Consensus size: 9
9567976 ATAGTTCAAT
9567986 AATAATTTA
1 AATAATTTA
9567995 AATAATTTA
1 AATAATTTA
9568004 AATAATTTA
1 AATAATTTA
9568013 AAT
1 AAT
9568016 CTTATAAAAA
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
9 21 1.00
ACGTcount: A:0.57, C:0.00, G:0.00, T:0.43
Consensus pattern (9 bp):
AATAATTTA
Found at i:9568678 original size:6 final size:6
Alignment explanation
Indices: 9568667--9568694 Score: 56
Period size: 6 Copynumber: 4.7 Consensus size: 6
9568657 AATTGAAAGC
9568667 TCTCTT TCTCTT TCTCTT TCTCTT TCTC
1 TCTCTT TCTCTT TCTCTT TCTCTT TCTC
9568695 ATCTACAGTT
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 22 1.00
ACGTcount: A:0.00, C:0.36, G:0.00, T:0.64
Consensus pattern (6 bp):
TCTCTT
Found at i:9568952 original size:31 final size:30
Alignment explanation
Indices: 9568917--9569013 Score: 140
Period size: 31 Copynumber: 3.1 Consensus size: 30
9568907 AACAACCCAA
9568917 TGACTTAAATAAAAACTTTTTAATAGTTTAG
1 TGACTTAAAT-AAAACTTTTTAATAGTTTAG
**
9568948 TGACTTAAATAAATTTTTTTGAATAGTTTAG
1 TGACTTAAATAAAACTTTTT-AATAGTTTAG
*
9568979 TGACTTAAATGAAAACTTTTGAATAGTTTAG
1 TGACTTAAAT-AAAACTTTTTAATAGTTTAG
9569010 TGAC
1 TGAC
9569014 CAAATTGTAA
Statistics
Matches: 59, Mismatches: 5, Indels: 4
0.87 0.07 0.06
Matches are distributed among these distances:
30 8 0.14
31 44 0.75
32 7 0.12
ACGTcount: A:0.38, C:0.06, G:0.13, T:0.42
Consensus pattern (30 bp):
TGACTTAAATAAAACTTTTTAATAGTTTAG
Found at i:9569074 original size:34 final size:34
Alignment explanation
Indices: 9569036--9569100 Score: 121
Period size: 34 Copynumber: 1.9 Consensus size: 34
9569026 TTTTCTAGTT
9569036 AAATGACCAAAACAAAAACTTACTCATAATTAAG
1 AAATGACCAAAACAAAAACTTACTCATAATTAAG
*
9569070 AAATGACCAAAATAAAAACTTACTCATAATT
1 AAATGACCAAAACAAAAACTTACTCATAATT
9569101 TAGTGACTAA
Statistics
Matches: 30, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
34 30 1.00
ACGTcount: A:0.55, C:0.17, G:0.05, T:0.23
Consensus pattern (34 bp):
AAATGACCAAAACAAAAACTTACTCATAATTAAG
Found at i:9571665 original size:2 final size:2
Alignment explanation
Indices: 9571660--9572444 Score: 1561
Period size: 2 Copynumber: 392.5 Consensus size: 2
9571650 CTCTTTCTCT
9571660 AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC
1 AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC
9571702 AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC
1 AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC
9571744 AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC
1 AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC
9571786 AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC
1 AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC
9571828 AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC
1 AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC
9571870 AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC
1 AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC
9571912 AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC
1 AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC
9571954 AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC
1 AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC
9571996 AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC
1 AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC
9572038 AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC
1 AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC
9572080 AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC
1 AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC
9572122 AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC
1 AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC
9572164 AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC
1 AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC
9572206 AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC
1 AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC
9572248 AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC
1 AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC
9572290 AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC
1 AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC
9572332 AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC
1 AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC
9572374 AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC
1 AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC
*
9572416 AC AC AC AC AC AC AC AC AC AC AC AG AC AC A
1 AC AC AC AC AC AC AC AC AC AC AC AC AC AC A
9572445 TATAGACCAG
Statistics
Matches: 781, Mismatches: 2, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 781 1.00
ACGTcount: A:0.50, C:0.50, G:0.00, T:0.00
Consensus pattern (2 bp):
AC
Found at i:9579660 original size:10 final size:10
Alignment explanation
Indices: 9579621--9579670 Score: 59
Period size: 10 Copynumber: 5.0 Consensus size: 10
9579611 TGAAATTCTA
9579621 AAAGATAAAT
1 AAAGATAAAT
*
9579631 ACAA-ATAAAA
1 A-AAGATAAAT
9579641 AAAGATAAAT
1 AAAGATAAAT
9579651 AAAGATAAAT
1 AAAGATAAAT
9579661 GAAA-ATAAAT
1 -AAAGATAAAT
9579671 CCTAAAATTA
Statistics
Matches: 35, Mismatches: 2, Indels: 6
0.81 0.05 0.14
Matches are distributed among these distances:
9 2 0.06
10 28 0.80
11 5 0.14
ACGTcount: A:0.72, C:0.02, G:0.08, T:0.18
Consensus pattern (10 bp):
AAAGATAAAT
Found at i:9580538 original size:41 final size:40
Alignment explanation
Indices: 9580430--9580539 Score: 93
Period size: 41 Copynumber: 2.8 Consensus size: 40
9580420 TCTGATAATT
* *
9580430 CGAAGTAACAGTTTGACACCCAGTGTCTCATCGGCCATGC
1 CGAAGTAACAATTTGACACCCAGTGTCTCATCAGCCATGC
** ** ***
9580470 CGAAGT---AATTTGGTACCCAGTACCTCATCAAATTTAT-C
1 CGAAGTAACAATTTGACACCCAGTGTCTCATC--AGCCATGC
9580508 CGAAGTAACAATTTGACACCCAGTGTCTCATC
1 CGAAGTAACAATTTGACACCCAGTGTCTCATC
9580540 GACTCGAGGT
Statistics
Matches: 52, Mismatches: 13, Indels: 9
0.70 0.18 0.12
Matches are distributed among these distances:
37 18 0.35
38 7 0.13
39 2 0.04
40 6 0.12
41 19 0.37
ACGTcount: A:0.29, C:0.27, G:0.17, T:0.26
Consensus pattern (40 bp):
CGAAGTAACAATTTGACACCCAGTGTCTCATCAGCCATGC
Done.