Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Dt_chr12
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: 39383930
ACGTcount: A:0.33, C:0.17, G:0.16, T:0.32
Warning! 780790 characters in sequence are not A, C, G, or T
File 52 of 126
Found at i:15112036 original size:12 final size:12
Alignment explanation
Indices: 15111963--15112024 Score: 58
Period size: 12 Copynumber: 5.4 Consensus size: 12
15111953 AGGCAACTTT
*
15111963 TTTTTTTTGCAG
1 TTTTTTTTGCGG
15111975 TTTTTTTTGC-G
1 TTTTTTTTGCGG
* **
15111986 --CTTTTTGCTT
1 TTTTTTTTGCGG
15111996 TTTTTTTTGCGG
1 TTTTTTTTGCGG
*
15112008 TTTTTTTTGCGC
1 TTTTTTTTGCGG
15112020 TTTTT
1 TTTTT
15112025 GCTTTTTTTT
Statistics
Matches: 41, Mismatches: 6, Indels: 6
0.77 0.11 0.11
Matches are distributed among these distances:
9 7 0.17
11 1 0.02
12 33 0.80
ACGTcount: A:0.02, C:0.11, G:0.16, T:0.71
Consensus pattern (12 bp):
TTTTTTTTGCGG
Found at i:15114290 original size:22 final size:23
Alignment explanation
Indices: 15114265--15114309 Score: 65
Period size: 23 Copynumber: 2.0 Consensus size: 23
15114255 AACACAATTC
15114265 ATAAAAAAT-TGAAAAATATAAA
1 ATAAAAAATATGAAAAATATAAA
* *
15114287 ATAAAAAGTATGAAAATTATAAA
1 ATAAAAAATATGAAAAATATAAA
15114310 TTTTTAGTAA
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
22 8 0.40
23 12 0.60
ACGTcount: A:0.69, C:0.00, G:0.07, T:0.24
Consensus pattern (23 bp):
ATAAAAAATATGAAAAATATAAA
Found at i:15114537 original size:39 final size:38
Alignment explanation
Indices: 15114454--15114538 Score: 88
Period size: 39 Copynumber: 2.2 Consensus size: 38
15114444 ATTATATTTG
*
15114454 GAATTTTTTTATATTTGAAAAAGAGATTTATATTTTTT
1 GAATTTTTATATATTTGAAAAAGAGATTTATATTTTTT
15114492 -ATATTTTTATATTATTT-AAAAA-A-ATTTATAATTGCTTTT
1 GA-ATTTTTATA-TATTTGAAAAAGAGATTTAT-ATT--TTTT
15114531 GAATTTTT
1 GAATTTTT
15114539 TGAAATTTTC
Statistics
Matches: 40, Mismatches: 1, Indels: 11
0.77 0.02 0.21
Matches are distributed among these distances:
36 6 0.15
37 5 0.12
38 13 0.32
39 15 0.38
40 1 0.03
ACGTcount: A:0.35, C:0.01, G:0.07, T:0.56
Consensus pattern (38 bp):
GAATTTTTATATATTTGAAAAAGAGATTTATATTTTTT
Found at i:15125953 original size:35 final size:35
Alignment explanation
Indices: 15125913--15125993 Score: 162
Period size: 35 Copynumber: 2.3 Consensus size: 35
15125903 GAGAGCGATT
15125913 GAGCAATACATGTTAGAAAATATAGTAGAAAAGCA
1 GAGCAATACATGTTAGAAAATATAGTAGAAAAGCA
15125948 GAGCAATACATGTTAGAAAATATAGTAGAAAAGCA
1 GAGCAATACATGTTAGAAAATATAGTAGAAAAGCA
15125983 GAGCAATACAT
1 GAGCAATACAT
15125994 AATTGAATCT
Statistics
Matches: 46, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
35 46 1.00
ACGTcount: A:0.51, C:0.10, G:0.20, T:0.20
Consensus pattern (35 bp):
GAGCAATACATGTTAGAAAATATAGTAGAAAAGCA
Found at i:15135930 original size:153 final size:153
Alignment explanation
Indices: 15135757--15136043 Score: 459
Period size: 153 Copynumber: 1.9 Consensus size: 153
15135747 TATTTAAATG
*
15135757 TTTATTTGTTACTTTATAACACCATGGCTAAAATGAACATTTTATTTTTTAAAAGCACTTTTTGA
1 TTTATTTGTTACTTTATAACACCATGGCTAAAATGAACATTTTATTTCTTAAAAGCACTTTTTGA
** * *
15135822 CAACAATACT-AACACTTAAATCTTAAACTGAACTTTTCAAAACTACTCCTCAAAATCATTTTTC
66 CAACAATACTAAACACTTAAATCTTAAACCAAAATTTTCAAAACTACTCCTCAAAATCACTTTT-
15135886 TAAAATACTTTTTAAAATAGGCAT
130 TAAAATACTTTTTAAAATAGGCAT
* * *
15135910 TTTATTTGTTACTTTATAACACCATGTCTAAAATGAGCATTTTATTTCTTAAAATCACTTTTTGA
1 TTTATTTGTTACTTTATAACACCATGGCTAAAATGAACATTTTATTTCTTAAAAGCACTTTTTGA
* * *
15135975 CAGCAATATTAAACACTTAAATCTTAAACCAAAATTTTCAAAACTACTTCTCAAAATCACTTTTT
66 CAACAATACTAAACACTTAAATCTTAAACCAAAATTTTCAAAACTACTCCTCAAAATCACTTTTT
15136040 AAAA
131 AAAA
15136044 GCAGTTTGTC
Statistics
Matches: 122, Mismatches: 11, Indels: 2
0.90 0.08 0.01
Matches are distributed among these distances:
153 74 0.61
154 48 0.39
ACGTcount: A:0.38, C:0.17, G:0.05, T:0.39
Consensus pattern (153 bp):
TTTATTTGTTACTTTATAACACCATGGCTAAAATGAACATTTTATTTCTTAAAAGCACTTTTTGA
CAACAATACTAAACACTTAAATCTTAAACCAAAATTTTCAAAACTACTCCTCAAAATCACTTTTT
AAAATACTTTTTAAAATAGGCAT
Found at i:15138319 original size:285 final size:285
Alignment explanation
Indices: 15137809--15138378 Score: 1140
Period size: 285 Copynumber: 2.0 Consensus size: 285
15137799 ATTCGCCCCC
15137809 ACCTATCTTCGGTGTGAAAATGAGTTCCAAGCAAATTAACCTCGATGATACAATGAAGCCAATGA
1 ACCTATCTTCGGTGTGAAAATGAGTTCCAAGCAAATTAACCTCGATGATACAATGAAGCCAATGA
15137874 CTATTTGCGTTTTGCACTGACGAGAATAGTCCACTATGCACTGAGTAATGTATAACAAGAAACTC
66 CTATTTGCGTTTTGCACTGACGAGAATAGTCCACTATGCACTGAGTAATGTATAACAAGAAACTC
15137939 AATTTCTACAAAAGATTTCTACAGTAATACTTTATAGAATAATCTAATAATATTATAAAATGAAG
131 AATTTCTACAAAAGATTTCTACAGTAATACTTTATAGAATAATCTAATAATATTATAAAATGAAG
15138004 GAAGGAAAGAAAGAATATTAGAATTTGTTGGTATGTTTTCCAAATGAAATCCCATTCCTATTTAT
196 GAAGGAAAGAAAGAATATTAGAATTTGTTGGTATGTTTTCCAAATGAAATCCCATTCCTATTTAT
15138069 ATGAATTTTCATGTCTCTTCATAAA
261 ATGAATTTTCATGTCTCTTCATAAA
15138094 ACCTATCTTCGGTGTGAAAATGAGTTCCAAGCAAATTAACCTCGATGATACAATGAAGCCAATGA
1 ACCTATCTTCGGTGTGAAAATGAGTTCCAAGCAAATTAACCTCGATGATACAATGAAGCCAATGA
15138159 CTATTTGCGTTTTGCACTGACGAGAATAGTCCACTATGCACTGAGTAATGTATAACAAGAAACTC
66 CTATTTGCGTTTTGCACTGACGAGAATAGTCCACTATGCACTGAGTAATGTATAACAAGAAACTC
15138224 AATTTCTACAAAAGATTTCTACAGTAATACTTTATAGAATAATCTAATAATATTATAAAATGAAG
131 AATTTCTACAAAAGATTTCTACAGTAATACTTTATAGAATAATCTAATAATATTATAAAATGAAG
15138289 GAAGGAAAGAAAGAATATTAGAATTTGTTGGTATGTTTTCCAAATGAAATCCCATTCCTATTTAT
196 GAAGGAAAGAAAGAATATTAGAATTTGTTGGTATGTTTTCCAAATGAAATCCCATTCCTATTTAT
15138354 ATGAATTTTCATGTCTCTTCATAAA
261 ATGAATTTTCATGTCTCTTCATAAA
15138379 GACATCTTTC
Statistics
Matches: 285, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
285 285 1.00
ACGTcount: A:0.38, C:0.15, G:0.15, T:0.32
Consensus pattern (285 bp):
ACCTATCTTCGGTGTGAAAATGAGTTCCAAGCAAATTAACCTCGATGATACAATGAAGCCAATGA
CTATTTGCGTTTTGCACTGACGAGAATAGTCCACTATGCACTGAGTAATGTATAACAAGAAACTC
AATTTCTACAAAAGATTTCTACAGTAATACTTTATAGAATAATCTAATAATATTATAAAATGAAG
GAAGGAAAGAAAGAATATTAGAATTTGTTGGTATGTTTTCCAAATGAAATCCCATTCCTATTTAT
ATGAATTTTCATGTCTCTTCATAAA
Found at i:15139362 original size:31 final size:31
Alignment explanation
Indices: 15139327--15139389 Score: 126
Period size: 31 Copynumber: 2.0 Consensus size: 31
15139317 TTATACTTGG
15139327 CTATATGCCTTTACTAGAGTAGCCTCACTAT
1 CTATATGCCTTTACTAGAGTAGCCTCACTAT
15139358 CTATATGCCTTTACTAGAGTAGCCTCACTAT
1 CTATATGCCTTTACTAGAGTAGCCTCACTAT
15139389 C
1 C
15139390 ACAACAGATA
Statistics
Matches: 32, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
31 32 1.00
ACGTcount: A:0.25, C:0.27, G:0.13, T:0.35
Consensus pattern (31 bp):
CTATATGCCTTTACTAGAGTAGCCTCACTAT
Found at i:15143834 original size:54 final size:53
Alignment explanation
Indices: 15143723--15143863 Score: 187
Period size: 54 Copynumber: 2.6 Consensus size: 53
15143713 CATCTCCTAA
* *
15143723 GGTATTTTGGTCATTTTACCCTATGGGGTATTTCGATCATTTTACCCTATAGC
1 GGTATTTCGGTCATTTTATCCTATGGGGTATTTCGATCATTTTACCCTATAGC
* *
15143776 GGTATTTCGATCATTTTATCCTATGAGGGTATTTC-AGTCATTTTACCTTATGAG-
1 GGTATTTCGGTCATTTTATCCTATG-GGGTATTTCGA-TCATTTTACCCTAT-AGC
*
15143830 GGTATTTCGGTCATTTTATCTTATGGCGGTATTT
1 GGTATTTCGGTCATTTTATCCTATGG-GGTATTT
15143864 TTTGTTATTT
Statistics
Matches: 78, Mismatches: 6, Indels: 7
0.86 0.07 0.08
Matches are distributed among these distances:
53 24 0.31
54 52 0.67
55 2 0.03
ACGTcount: A:0.19, C:0.16, G:0.20, T:0.45
Consensus pattern (53 bp):
GGTATTTCGGTCATTTTATCCTATGGGGTATTTCGATCATTTTACCCTATAGC
Found at i:15143854 original size:27 final size:27
Alignment explanation
Indices: 15143723--15143847 Score: 173
Period size: 27 Copynumber: 4.7 Consensus size: 27
15143713 CATCTCCTAA
*
15143723 GGTATTTTGGTCATTTTACCCTATG-G
1 GGTATTTCGGTCATTTTACCCTATGAG
*
15143749 GGTATTTCGATCATTTTACCCTAT-AG
1 GGTATTTCGGTCATTTTACCCTATGAG
* *
15143775 CGGTATTTCGATCATTTTATCCTATGAG
1 -GGTATTTCGGTCATTTTACCCTATGAG
* *
15143803 GGTATTTCAGTCATTTTACCTTATGAG
1 GGTATTTCGGTCATTTTACCCTATGAG
15143830 GGTATTTCGGTCATTTTA
1 GGTATTTCGGTCATTTTA
15143848 TCTTATGGCG
Statistics
Matches: 88, Mismatches: 8, Indels: 5
0.87 0.08 0.05
Matches are distributed among these distances:
26 23 0.26
27 63 0.72
28 2 0.02
ACGTcount: A:0.20, C:0.16, G:0.19, T:0.45
Consensus pattern (27 bp):
GGTATTTCGGTCATTTTACCCTATGAG
Found at i:15143860 original size:27 final size:26
Alignment explanation
Indices: 15143723--15143863 Score: 165
Period size: 27 Copynumber: 5.3 Consensus size: 26
15143713 CATCTCCTAA
*
15143723 GGTATTTTGGTCATTTTACCCTATGG
1 GGTATTTCGGTCATTTTACCCTATGG
* *
15143749 GGTATTTCGATCATTTTACCCTATAGC
1 GGTATTTCGGTCATTTTACCCTAT-GG
* *
15143776 GGTATTTCGATCATTTTATCCTATGAG
1 GGTATTTCGGTCATTTTACCCTATG-G
* *
15143803 GGTATTTCAGTCATTTTACCTTATGAG
1 GGTATTTCGGTCATTTTACCCTATG-G
* *
15143830 GGTATTTCGGTCATTTTATCTTATGG
1 GGTATTTCGGTCATTTTACCCTATGG
15143856 CGGTATTT
1 -GGTATTT
15143864 TTTGTTATTT
Statistics
Matches: 101, Mismatches: 11, Indels: 5
0.86 0.09 0.04
Matches are distributed among these distances:
26 24 0.24
27 77 0.76
ACGTcount: A:0.19, C:0.16, G:0.20, T:0.45
Consensus pattern (26 bp):
GGTATTTCGGTCATTTTACCCTATGG
Found at i:15146506 original size:36 final size:37
Alignment explanation
Indices: 15146457--15146552 Score: 106
Period size: 37 Copynumber: 2.6 Consensus size: 37
15146447 GTCTCCAATT
* * *
15146457 TCACATTTTAATTCAATTTCACTTTTTCACTTTCAA-
1 TCACAATTCAATTCAATTTCACTTTTCCACTTTCAAG
* *
15146493 TCACAATTCAATTCAAAATTCACTTTTCCATTTTCAAG
1 TCACAATTCAATTC-AATTTCACTTTTCCACTTTCAAG
*
15146531 TCA-ATATTCATTTCAATTTCAC
1 TCACA-ATTCAATTCAATTTCAC
15146553 ACATATATTC
Statistics
Matches: 50, Mismatches: 7, Indels: 5
0.81 0.11 0.08
Matches are distributed among these distances:
36 12 0.24
37 27 0.54
38 11 0.22
ACGTcount: A:0.31, C:0.23, G:0.01, T:0.45
Consensus pattern (37 bp):
TCACAATTCAATTCAATTTCACTTTTCCACTTTCAAG
Found at i:15149258 original size:20 final size:20
Alignment explanation
Indices: 15149220--15149261 Score: 57
Period size: 20 Copynumber: 2.1 Consensus size: 20
15149210 AAATAAACAC
**
15149220 ATAACTATTTATTTAATATT
1 ATAACTATTTAAATAATATT
*
15149240 ATAACTATTTAAATGATATT
1 ATAACTATTTAAATAATATT
15149260 AT
1 AT
15149262 TTAAATAGTT
Statistics
Matches: 19, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
20 19 1.00
ACGTcount: A:0.43, C:0.05, G:0.02, T:0.50
Consensus pattern (20 bp):
ATAACTATTTAAATAATATT
Found at i:15152702 original size:4 final size:4
Alignment explanation
Indices: 15152688--15152734 Score: 85
Period size: 4 Copynumber: 11.8 Consensus size: 4
15152678 GATGCACCTG
*
15152688 CATA AATA CATA CATA CATA CATA CATA CATA CATA CATA CATA CAT
1 CATA CATA CATA CATA CATA CATA CATA CATA CATA CATA CATA CAT
15152735 GATCATCTTG
Statistics
Matches: 41, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
4 41 1.00
ACGTcount: A:0.51, C:0.23, G:0.00, T:0.26
Consensus pattern (4 bp):
CATA
Found at i:15157867 original size:24 final size:24
Alignment explanation
Indices: 15157839--15157887 Score: 98
Period size: 24 Copynumber: 2.0 Consensus size: 24
15157829 ACATAACTTA
15157839 CCATTTCATTTGCATAATATAAAG
1 CCATTTCATTTGCATAATATAAAG
15157863 CCATTTCATTTGCATAATATAAAG
1 CCATTTCATTTGCATAATATAAAG
15157887 C
1 C
15157888 ATAAGTATAA
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
24 25 1.00
ACGTcount: A:0.37, C:0.18, G:0.08, T:0.37
Consensus pattern (24 bp):
CCATTTCATTTGCATAATATAAAG
Found at i:15167563 original size:16 final size:17
Alignment explanation
Indices: 15167544--15167575 Score: 57
Period size: 17 Copynumber: 1.9 Consensus size: 17
15167534 TTAGGGAAGA
15167544 GAAATAA-TAGTTGGAT
1 GAAATAATTAGTTGGAT
15167560 GAAATAATTAGTTGGA
1 GAAATAATTAGTTGGA
15167576 ATAGATCCTC
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
16 7 0.47
17 8 0.53
ACGTcount: A:0.44, C:0.00, G:0.25, T:0.31
Consensus pattern (17 bp):
GAAATAATTAGTTGGAT
Found at i:15174314 original size:23 final size:23
Alignment explanation
Indices: 15174288--15174385 Score: 153
Period size: 23 Copynumber: 4.3 Consensus size: 23
15174278 ATAAGTGCCA
15174288 CACTGATATGTAGCCGAAGCTAC
1 CACTGATATGTAGCCGAAGCTAC
15174311 CACTGATATGTAGCCGAAGCTAC
1 CACTGATATGTAGCCGAAGCTAC
* *
15174334 CACTG-GATGTAGCCAAAGCTAC
1 CACTGATATGTAGCCGAAGCTAC
* *
15174356 CACTGAAATGTAGCCGAAGTTAC
1 CACTGATATGTAGCCGAAGCTAC
15174379 CACTGAT
1 CACTGAT
15174386 CAATAACACT
Statistics
Matches: 68, Mismatches: 6, Indels: 2
0.89 0.08 0.03
Matches are distributed among these distances:
22 20 0.29
23 48 0.71
ACGTcount: A:0.32, C:0.26, G:0.21, T:0.21
Consensus pattern (23 bp):
CACTGATATGTAGCCGAAGCTAC
Found at i:15174353 original size:45 final size:45
Alignment explanation
Indices: 15174295--15174383 Score: 151
Period size: 45 Copynumber: 2.0 Consensus size: 45
15174285 CCACACTGAT
* *
15174295 ATGTAGCCGAAGCTACCACTGATATGTAGCCGAAGCTACCACTGG
1 ATGTAGCCAAAGCTACCACTGAAATGTAGCCGAAGCTACCACTGG
*
15174340 ATGTAGCCAAAGCTACCACTGAAATGTAGCCGAAGTTACCACTG
1 ATGTAGCCAAAGCTACCACTGAAATGTAGCCGAAGCTACCACTG
15174384 ATCAATAACA
Statistics
Matches: 41, Mismatches: 3, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
45 41 1.00
ACGTcount: A:0.31, C:0.26, G:0.22, T:0.20
Consensus pattern (45 bp):
ATGTAGCCAAAGCTACCACTGAAATGTAGCCGAAGCTACCACTGG
Found at i:15178337 original size:41 final size:41
Alignment explanation
Indices: 15178280--15178467 Score: 304
Period size: 41 Copynumber: 4.6 Consensus size: 41
15178270 AGTAAGATGA
* * *
15178280 TTCAGACTTTAAGTCTAGCAGGCTTGACGCCGGTGAAATAT
1 TTCAGACTTTACGTCTAGCAGGCTTAATGCCGGTGAAATAT
* *
15178321 TTCAGACTTTACGTCTAGCAGGCTTGATGCCAGTGAAATAT
1 TTCAGACTTTACGTCTAGCAGGCTTAATGCCGGTGAAATAT
*
15178362 TTTAGACTTTACGTCTAGCAGGCTTAATGCCGGTGAAATAT
1 TTCAGACTTTACGTCTAGCAGGCTTAATGCCGGTGAAATAT
*
15178403 TTCTGACTTTACGTCTAGCAGGCTTAATGCCGGTGAAATAT
1 TTCAGACTTTACGTCTAGCAGGCTTAATGCCGGTGAAATAT
*
15178444 TTCTGACTTTACGTCTAGCAGGCT
1 TTCAGACTTTACGTCTAGCAGGCT
15178468 AATTGCTGGT
Statistics
Matches: 139, Mismatches: 8, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
41 139 1.00
ACGTcount: A:0.25, C:0.20, G:0.22, T:0.33
Consensus pattern (41 bp):
TTCAGACTTTACGTCTAGCAGGCTTAATGCCGGTGAAATAT
Found at i:15178503 original size:82 final size:82
Alignment explanation
Indices: 15178283--15178521 Score: 261
Period size: 82 Copynumber: 2.9 Consensus size: 82
15178273 AAGATGATTC
* * * * * * *
15178283 AGACTTTAAGTCTAGCAGGCTTGACGCCGGTGAAATATTTCAGACTTTACGTCTAGCAGGCTTGA
1 AGACTTTACGTCTAGCAGGCTTAATGCCGGTGAAATATATCAGACTTTAAGCCTAGCAGGCTTAA
*
15178348 TGCCAGTGAAATATTTT
66 TGCCGGTGAAATATTTT
* * * *
15178365 AGACTTTACGTCTAGCAGGCTTAATGCCGGTGAAATATTTCTGACTTTACGTCTAGCAGGCTTAA
1 AGACTTTACGTCTAGCAGGCTTAATGCCGGTGAAATATATCAGACTTTAAGCCTAGCAGGCTTAA
15178430 TGCCGGTGAAATATTTCT
66 TGCCGGTGAAATATTT-T
* * * **
15178448 -GACTTTACGTCTAGCAGGC-TAATTGCTGGTGTACTGA-ATCAGGTTTTAAGCCTAGCAGGC-T
1 AGACTTTACGTCTAGCAGGCTTAA-TGCCGGTGAAAT-ATATCAGACTTTAAGCCTAGCAGGCTT
15178509 AAGTGCCGGTGAA
64 AA-TGCCGGTGAA
15178522 TCTGTTTAAA
Statistics
Matches: 138, Mismatches: 15, Indels: 8
0.86 0.09 0.05
Matches are distributed among these distances:
81 6 0.04
82 130 0.94
83 2 0.01
ACGTcount: A:0.26, C:0.19, G:0.24, T:0.31
Consensus pattern (82 bp):
AGACTTTACGTCTAGCAGGCTTAATGCCGGTGAAATATATCAGACTTTAAGCCTAGCAGGCTTAA
TGCCGGTGAAATATTTT
Found at i:15178503 original size:123 final size:123
Alignment explanation
Indices: 15178284--15178521 Score: 293
Period size: 123 Copynumber: 1.9 Consensus size: 123
15178274 AGATGATTCA
* *
15178284 GACTTTAAGTCTAGCAGGCTTGACGCCGGTGAAATATTTCAGACTTTACGTCTAGCAGGCTTGAT
1 GACTTTAAGTCTAGCAGGCTTAACGCCGGTGAAATATTTCAGACTTTACGTCTAGCAGGCTTAAT
* * * *
15178349 GCCAGTGAAATATTTTAGACTTTACGTCTAGCAGGCTTAA-TGCCGGTGAAATATTTCT
66 GCCAGTGAAATATATCAGACTTTAAGCCTAGCAGGC-TAAGTGCCGGTGAAATATTTCT
* * *
15178407 GACTTTACGTCTAGCAGGCTTAATGCCGGTGAAATATTTCTGACTTTACGTCTAGCAGGC-TAAT
1 GACTTTAAGTCTAGCAGGCTTAACGCCGGTGAAATATTTCAGACTTTACGTCTAGCAGGCTTAA-
** * * **
15178471 TGCTGGTGTACTGA-ATCAGGTTTTAAGCCTAGCAGGCTAAGTGCCGGTGAA
65 TGCCAGTGAAAT-ATATCAGACTTTAAGCCTAGCAGGCTAAGTGCCGGTGAA
15178522 TCTGTTTAAA
Statistics
Matches: 97, Mismatches: 15, Indels: 6
0.82 0.13 0.05
Matches are distributed among these distances:
122 5 0.05
123 91 0.94
124 1 0.01
ACGTcount: A:0.25, C:0.19, G:0.24, T:0.32
Consensus pattern (123 bp):
GACTTTAAGTCTAGCAGGCTTAACGCCGGTGAAATATTTCAGACTTTACGTCTAGCAGGCTTAAT
GCCAGTGAAATATATCAGACTTTAAGCCTAGCAGGCTAAGTGCCGGTGAAATATTTCT
Found at i:15181348 original size:22 final size:22
Alignment explanation
Indices: 15181322--15181363 Score: 75
Period size: 22 Copynumber: 1.9 Consensus size: 22
15181312 AATACGAGAA
15181322 AATATGGAACTAAAAAGAAATG
1 AATATGGAACTAAAAAGAAATG
*
15181344 AATATGGAACTAAGAAGAAA
1 AATATGGAACTAAAAAGAAA
15181364 AGTTGTCGAT
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
22 19 1.00
ACGTcount: A:0.60, C:0.05, G:0.19, T:0.17
Consensus pattern (22 bp):
AATATGGAACTAAAAAGAAATG
Found at i:15181993 original size:22 final size:22
Alignment explanation
Indices: 15181966--15182007 Score: 84
Period size: 22 Copynumber: 1.9 Consensus size: 22
15181956 CAAAAGAATA
15181966 ATGATATAAACGTTTATCAATG
1 ATGATATAAACGTTTATCAATG
15181988 ATGATATAAACGTTTATCAA
1 ATGATATAAACGTTTATCAA
15182008 ACTCGTTCAA
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
22 20 1.00
ACGTcount: A:0.43, C:0.10, G:0.12, T:0.36
Consensus pattern (22 bp):
ATGATATAAACGTTTATCAATG
Found at i:15183154 original size:4 final size:4
Alignment explanation
Indices: 15183145--15183306 Score: 61
Period size: 4 Copynumber: 38.8 Consensus size: 4
15183135 GGGAAAGGAG
* *
15183145 AAGA AAGA AAGA AAGAA AAGGA AAGGA GAGGG AAGA AAG- AA-A AAGA
1 AAGA AAGA AAGA AAG-A AA-GA AA-GA -AAGA AAGA AAGA AAGA AAGA
* *
15183191 AGGA AAGAA AAGGA AAGGA GAAGA AA-A AAGA AAGAA AACGA AGGA AAGAA
1 AAGA AAG-A AA-GA AA-GA -AAGA AAGA AAGA AAG-A AA-GA AAGA AAG-A
* **
15183241 AAGGA AAGGA GAAGA AA-A AAAA AAGA AAG- AAG- AAG- AAG- AAGA GGGA
1 AA-GA AA-GA -AAGA AAGA AAGA AAGA AAGA AAGA AAGA AAGA AAGA AAGA
*
15183287 AAGAA AAGA AAGA AAAA AAG
1 AAG-A AAGA AAGA AAGA AAG
15183307 GTAATTTTTG
Statistics
Matches: 126, Mismatches: 15, Indels: 34
0.72 0.09 0.19
Matches are distributed among these distances:
3 22 0.17
4 54 0.43
5 41 0.33
6 9 0.07
ACGTcount: A:0.69, C:0.01, G:0.30, T:0.00
Consensus pattern (4 bp):
AAGA
Found at i:15183168 original size:10 final size:10
Alignment explanation
Indices: 15183147--15183302 Score: 71
Period size: 10 Copynumber: 15.9 Consensus size: 10
15183137 GAAAGGAGAA
15183147 GAAAG-AAA-
1 GAAAGAAAAG
15183155 GAAAGAAAAG
1 GAAAGAAAAG
* *
15183165 GAAAGGAGAG
1 GAAAGAAAAG
*
15183175 GGAAG-AAA-
1 GAAAGAAAAG
15183183 GAAA-AAGAAG
1 GAAAGAA-AAG
15183193 GAAAGAAAAG
1 GAAAGAAAAG
*
15183203 GAAAGGAGAA-
1 GAAA-GAAAAG
* *
15183213 GAAAAAAGAAA
1 GAAAGAA-AAG
*
15183224 GAAA-ACGAAG
1 GAAAGA-AAAG
15183234 GAAAGAAAAG
1 GAAAGAAAAG
*
15183244 GAAAGGAGAAG
1 GAAA-GAAAAG
* * *
15183255 AAAAAAAAAA
1 GAAAGAAAAG
15183265 GAAAGAAGAA-
1 GAAAGAA-AAG
*
15183275 G-AAGAAGAGG
1 GAAAGAA-AAG
15183285 GAAAGAAAA-
1 GAAAGAAAAG
15183294 GAAAGAAAA
1 GAAAGAAAA
15183303 AAAGGTAATT
Statistics
Matches: 113, Mismatches: 20, Indels: 29
0.70 0.12 0.18
Matches are distributed among these distances:
8 9 0.08
9 24 0.21
10 54 0.48
11 26 0.23
ACGTcount: A:0.69, C:0.01, G:0.31, T:0.00
Consensus pattern (10 bp):
GAAAGAAAAG
Found at i:15183222 original size:31 final size:31
Alignment explanation
Indices: 15183184--15183298 Score: 85
Period size: 31 Copynumber: 3.8 Consensus size: 31
15183174 GGGAAGAAAG
15183184 AAAAAGAAGGAAAGAAAAGGAAAGGAGAAGA
1 AAAAAGAAGGAAAGAAAAGGAAAGGAGAAGA
* * *
15183215 AAAAAGAAAGAAA-ACGAAGGAAA-GAAAAGGA
1 AAAAAGAAGGAAAGA-AAAGGAAAGGAGAA-GA
** * * * *
15183246 AAGGAGAAGAAAAAAAAAAGAAAGAAGAAG-
1 AAAAAGAAGGAAAGAAAAGGAAAGGAGAAGA
* *
15183276 AAGAAGAGGGAAAGAAAA-GAAAG
1 AAAAAGAAGGAAAGAAAAGGAAAG
15183299 AAAAAAAGGT
Statistics
Matches: 65, Mismatches: 15, Indels: 10
0.72 0.17 0.11
Matches are distributed among these distances:
29 5 0.08
30 19 0.29
31 37 0.57
32 4 0.06
ACGTcount: A:0.70, C:0.01, G:0.30, T:0.00
Consensus pattern (31 bp):
AAAAAGAAGGAAAGAAAAGGAAAGGAGAAGA
Found at i:15183234 original size:41 final size:41
Alignment explanation
Indices: 15183143--15183275 Score: 182
Period size: 41 Copynumber: 3.3 Consensus size: 41
15183133 GAGGGAAAGG
* **
15183143 AGAAGAAAGAAAGAAAGAAAAGGAAAGGAG-AG--GGAAGAA
1 AGAA-AAAGAAGGAAAGAAAAGGAAAGGAGAAGAAAAAAGAA
15183182 AGAAAAAGAAGGAAAGAAAAGGAAAGGAGAAGAAAAAAGAA
1 AGAAAAAGAAGGAAAGAAAAGGAAAGGAGAAGAAAAAAGAA
* *
15183223 AGAAAACGAAGGAAAGAAAAGGAAAGGAGAAGAAAAAAAAA
1 AGAAAAAGAAGGAAAGAAAAGGAAAGGAGAAGAAAAAAGAA
15183264 AGAAAGAAGAAG
1 AGAAA-AAGAAG
15183276 AAGAAGAGGG
Statistics
Matches: 84, Mismatches: 6, Indels: 5
0.88 0.06 0.05
Matches are distributed among these distances:
38 24 0.29
39 6 0.07
41 49 0.58
42 5 0.06
ACGTcount: A:0.68, C:0.01, G:0.31, T:0.00
Consensus pattern (41 bp):
AGAAAAAGAAGGAAAGAAAAGGAAAGGAGAAGAAAAAAGAA
Found at i:15183256 original size:65 final size:61
Alignment explanation
Indices: 15183136--15183307 Score: 159
Period size: 65 Copynumber: 2.7 Consensus size: 61
15183126 AGAATGAGAG
* **
15183136 GGAAAGGAGAAGAAAGAAAGAAAGAAAAGGAAAGGAGAGGGAA-GAAAGAAAAAGAAGGAAAGAA
1 GGAAAGGAGAAGAAA-AAAGAAAGAAAA-G-AAGGAAAGAAAAGGAAAGAAAAAGAA--AAA-AA
15183200 AA
60 AA
* *
15183202 GGAAAGGAGAAGAAAAAAGAAAGAAAACGAAGGAAAGAAAAGGAAAGGAGAAGAAAAAAAAA
1 GGAAAGGAGAAGAAAAAAGAAAGAAAA-GAAGGAAAGAAAAGGAAAGAAAAAGAAAAAAAAA
* * * *
15183264 AGAAAGAAGAAGAAGAAGAGGGAAAGAAAAGAAAGAAA-AAAAGG
1 GGAAAGGAGAAGAA-AA-A-AGAAAGAAAAGAAGGAAAGAAAAGG
15183308 TAATTTTTGT
Statistics
Matches: 92, Mismatches: 10, Indels: 11
0.81 0.09 0.10
Matches are distributed among these distances:
62 16 0.17
63 11 0.12
64 17 0.18
65 33 0.36
66 15 0.16
ACGTcount: A:0.67, C:0.01, G:0.32, T:0.00
Consensus pattern (61 bp):
GGAAAGGAGAAGAAAAAAGAAAGAAAAGAAGGAAAGAAAAGGAAAGAAAAAGAAAAAAAAA
Found at i:15183288 original size:41 final size:41
Alignment explanation
Indices: 15183143--15183306 Score: 178
Period size: 41 Copynumber: 4.0 Consensus size: 41
15183133 GAGGGAAAGG
* ** *
15183143 AGAAGAAAGAAAGAAAGAAAAGGAAAGGAG-AG--GGAAGAA
1 AGAA-AAAGAAGGAAAGAAAAGGAAAGGAGAAGAAAAAAAAA
*
15183182 AGAAAAAGAAGGAAAGAAAAGGAAAGGAGAAGAAAAAAGAA
1 AGAAAAAGAAGGAAAGAAAAGGAAAGGAGAAGAAAAAAAAA
*
15183223 AGAAAACGAAGGAAAGAAAAGGAAAGGAGAAGAAAAAAAAA
1 AGAAAAAGAAGGAAAGAAAAGGAAAGGAGAAGAAAAAAAAA
* *
15183264 AGAAAGAAGAA-G-AAGAAGAGGGAAA-GAAAAGAAAGAAAAAA
1 AGAAA-AAGAAGGAAAGAA-AAGGAAAGGAGAAGAAA-AAAAAA
15183305 AG
1 AG
15183307 GTAATTTTTG
Statistics
Matches: 111, Mismatches: 8, Indels: 10
0.86 0.06 0.08
Matches are distributed among these distances:
38 24 0.22
39 6 0.05
40 13 0.12
41 64 0.58
42 4 0.04
ACGTcount: A:0.69, C:0.01, G:0.30, T:0.00
Consensus pattern (41 bp):
AGAAAAAGAAGGAAAGAAAAGGAAAGGAGAAGAAAAAAAAA
Found at i:15183841 original size:157 final size:156
Alignment explanation
Indices: 15183671--15184215 Score: 557
Period size: 157 Copynumber: 3.4 Consensus size: 156
15183661 AATTTCAAAC
* * *
15183671 ATAATGTAAAATAATAAAATTA-AAAATTATGGTATTTT-TT-AAAGTAATAAAATGCGAAGAAA
1 ATAATATAAAATAATAAAA-TACAAAATAAT-ATATTTTATTGAAAGTAATAAAATGCG-AGAAA
* *
15183733 A-AATACGAACAAATGGCTGAAGTAAGAGTGTTTTACTAAATTTTTTAAAAGTTTAGAAATAATT
63 ATAATACGAACAAATGGCCGAAGTAAGAGTCTTTTACTAAATTTTTTAAAA--TTAGAAATAATT
*
15183797 AATACAAATATTTCAAAAAAAATGTACTGAA
126 AATACAAATATTTCAAACAAAATGTACTGAA
*
15183828 ATAATATAAAATAATAAAATACGAAAATAATATATTTTTATTGAAAGTAATAAAATTCGAGAAAA
1 ATAATATAAAATAATAAAATAC-AAAATAATATA-TTTTATTGAAAGTAATAAAATGCGAGAAAA
* * * * *
15183893 TAATACGAGCAAAGGGCAGGAA-TAAG-GTTTTTTTTTACACTAAATTAATTTTAAAA--ACACA
64 TAATACGAACAAATGGC-CGAAGTAAGAG---TCTTTT--ACTAAATT--TTTTAAAATTAGA-A
* * *
15183954 CTAAATTAAT---AA-ATTTCAAACATAATGCACTGAA
120 AT-AATTAATACAAATATTTCAAACAAAATGTACTGAA
* * * *
15183988 ATAATTTAAAATTATAAAATTA-GAAATTATGATATTTT-TT-AAAGTAATAAAATGCGGAGAAA
1 ATAATATAAAATAATAAAA-TACAAAATAAT-ATATTTTATTGAAAGTAATAAAATGC-GAGAAA
15184050 A-AATACGAAC-AATGGGCCGAAGTAAGAGTCTTTTACTAAATTTTTTAAAAATTCAGAAATAAT
63 ATAATACGAACAAAT-GGCCGAAGTAAGAGTCTTTTACTAAATTTTTT-AAAATT-AGAAATAAT
*
15184113 GAATACAAATATTTCAAACAAAATGTACTGAA
125 TAATACAAATATTTCAAACAAAATGTACTGAA
*
15184145 ATAATATAAAATAATAAAATACGAAAATAATATATTTTCATTGAAAGTAATAAAATTCGAGAAAA
1 ATAATATAAAATAATAAAATAC-AAAATAATATATTTT-ATTGAAAGTAATAAAATGCGAGAAAA
15184210 TAATAC
64 TAATAC
15184216 AAGCAAAAGA
Statistics
Matches: 320, Mismatches: 32, Indels: 69
0.76 0.08 0.16
Matches are distributed among these distances:
151 4 0.01
152 4 0.01
153 14 0.04
154 2 0.01
155 7 0.02
156 11 0.03
157 93 0.29
158 27 0.08
159 28 0.09
160 91 0.28
161 7 0.02
162 7 0.02
163 2 0.01
164 15 0.05
166 8 0.03
ACGTcount: A:0.51, C:0.07, G:0.11, T:0.31
Consensus pattern (156 bp):
ATAATATAAAATAATAAAATACAAAATAATATATTTTATTGAAAGTAATAAAATGCGAGAAAATA
ATACGAACAAATGGCCGAAGTAAGAGTCTTTTACTAAATTTTTTAAAATTAGAAATAATTAATAC
AAATATTTCAAACAAAATGTACTGAA
Found at i:15183989 original size:160 final size:161
Alignment explanation
Indices: 15183802--15184273 Score: 562
Period size: 157 Copynumber: 3.0 Consensus size: 161
15183792 TAATTAATAC
*
15183802 AAATATTTCAAAAAAAATGTACTGAAATAATATAAAATAATAAAATACGAAAATAATATATTTTT
1 AAATATTTCAAACAAAATGTACTGAAATAATATAAAATAATAAAATACGAAAATAATATATTTTT
15183867 ATTGAAAGTAATAAAATTCGAGAAAATAATACGAGCAAAGGGCAGGAATAAGGTTTTTTTTTACA
66 ATTGAAAGTAATAAAATTCGAGAAAATAATACGAGCAAAGGGCAGGAATAAGG-TTTTTTTTACA
* *
15183932 CTAAATTAATTTTAAAAACAC-ACTAAATTAAT
130 CTAAATTAATTTTAAAAACACAAAT-AATGAAT
* * * * *
15183964 -AA-ATTTCAAACATAATGCACTGAAATAATTTAAAATTATAAAATTA-G-AAATTATGATA-TT
1 AAATATTTCAAACAAAATGTACTGAAATAATATAAAATAATAAAA-TACGAAAATAAT-ATATTT
* * * * *
15184024 TT-TT-AAAGTAATAAAATGCGGAGAAAA-AATACGAACAATGGGC-CGAAGTAAGAG--TCTTT
64 TTATTGAAAGTAATAAAATTC-GAGAAAATAATACGAGCAAAGGGCAGGAA-TAAG-GTTTTTTT
*
15184083 T--ACTAAATT--TTTTAAAAATTCAGAAATAATGAAT
126 TACACTAAATTAATTTTAAAAA--CACAAATAATGAAT
15184117 ACAAATATTTCAAACAAAATGTACTGAAATAATATAAAATAATAAAATACGAAAATAATATATTT
1 --AAATATTTCAAACAAAATGTACTGAAATAATATAAAATAATAAAATACGAAAATAATATATTT
* * * *
15184182 TCATTGAAAGTAATAAAATTCGAGAAAATAATACAAGCAAAAGACAGGAATAAGGGTTTTTTTTA
64 TTATTGAAAGTAATAAAATTCGAGAAAATAATACGAGCAAAGGGCAGGAATAA-GGTTTTTTTTA
15184247 CACTAAATTAATTTTAAAAACACAAAT
128 CACTAAATTAATTTTAAAAACACAAAT
15184274 GTACATTGTA
Statistics
Matches: 255, Mismatches: 29, Indels: 50
0.76 0.09 0.15
Matches are distributed among these distances:
151 9 0.04
153 16 0.06
154 2 0.01
155 5 0.02
156 7 0.03
157 73 0.29
158 19 0.07
159 19 0.07
160 69 0.27
161 8 0.03
162 5 0.02
164 14 0.05
166 9 0.04
ACGTcount: A:0.51, C:0.08, G:0.10, T:0.30
Consensus pattern (161 bp):
AAATATTTCAAACAAAATGTACTGAAATAATATAAAATAATAAAATACGAAAATAATATATTTTT
ATTGAAAGTAATAAAATTCGAGAAAATAATACGAGCAAAGGGCAGGAATAAGGTTTTTTTTACAC
TAAATTAATTTTAAAAACACAAATAATGAAT
Found at i:15184259 original size:317 final size:317
Alignment explanation
Indices: 15183671--15184270 Score: 1040
Period size: 317 Copynumber: 1.9 Consensus size: 317
15183661 AATTTCAAAC
*
15183671 ATAATGTAAAATAATAAAATTAAAAATTATGGTATTTTTTAAAGTAATAAAATGCGAAGAAAAAA
1 ATAATGTAAAATAATAAAATTAAAAATTATGATATTTTTTAAAGTAATAAAATGCGAAGAAAAAA
* * * * *
15183736 TACGAACAAATGGCTGAAGTAAGAGTGTTTTACTAAATTTTTTAAAAGTTTAGAAATAATTAATA
66 TACGAACAAATGGCCGAAGTAAGAGTCTTTTACTAAATTTTTTAAAAATTCAGAAATAATGAATA
15183801 CAAATATTTCAAAAAAAATGTACTGAAATAATATAAAATAATAAAATACGAAAATAATATATTTT
131 CAAATATTTCAAAAAAAATGTACTGAAATAATATAAAATAATAAAATACGAAAATAATATATTTT
* * * * *
15183866 TATTGAAAGTAATAAAATTCGAGAAAATAATACGAGCAAAGGGCAGGAATAAGGTTTTTTTTTAC
196 CATTGAAAGTAATAAAATTCGAGAAAATAATACAAGCAAAAGACAGGAATAAGGGTTTTTTTTAC
15183931 ACTAAATTAATTTTAAAAACACACTAAATTAATAAATTTCAAACATAATGCACTGAA
261 ACTAAATTAATTTTAAAAACACACTAAATTAATAAATTTCAAACATAATGCACTGAA
* * * *
15183988 ATAATTTAAAATTATAAAATTAGAAATTATGATATTTTTTAAAGTAATAAAATGCGGAGAAAAAA
1 ATAATGTAAAATAATAAAATTAAAAATTATGATATTTTTTAAAGTAATAAAATGCGAAGAAAAAA
15184053 TACGAAC-AATGGGCCGAAGTAAGAGTCTTTTACTAAATTTTTTAAAAATTCAGAAATAATGAAT
66 TACGAACAAAT-GGCCGAAGTAAGAGTCTTTTACTAAATTTTTTAAAAATTCAGAAATAATGAAT
*
15184117 ACAAATATTTCAAACAAAATGTACTGAAATAATATAAAATAATAAAATACGAAAATAATATATTT
130 ACAAATATTTCAAAAAAAATGTACTGAAATAATATAAAATAATAAAATACGAAAATAATATATTT
15184182 TCATTGAAAGTAATAAAATTCGAGAAAATAATACAAGCAAAAGACAGGAATAAGGGTTTTTTTTA
195 TCATTGAAAGTAATAAAATTCGAGAAAATAATACAAGCAAAAGACAGGAATAAGGGTTTTTTTTA
15184247 CACTAAATTAATTTTAAAAACACA
260 CACTAAATTAATTTTAAAAACACA
15184271 AATGTACATT
Statistics
Matches: 266, Mismatches: 16, Indels: 2
0.94 0.06 0.01
Matches are distributed among these distances:
316 3 0.01
317 263 0.99
ACGTcount: A:0.51, C:0.07, G:0.11, T:0.31
Consensus pattern (317 bp):
ATAATGTAAAATAATAAAATTAAAAATTATGATATTTTTTAAAGTAATAAAATGCGAAGAAAAAA
TACGAACAAATGGCCGAAGTAAGAGTCTTTTACTAAATTTTTTAAAAATTCAGAAATAATGAATA
CAAATATTTCAAAAAAAATGTACTGAAATAATATAAAATAATAAAATACGAAAATAATATATTTT
CATTGAAAGTAATAAAATTCGAGAAAATAATACAAGCAAAAGACAGGAATAAGGGTTTTTTTTAC
ACTAAATTAATTTTAAAAACACACTAAATTAATAAATTTCAAACATAATGCACTGAA
Found at i:15185008 original size:318 final size:305
Alignment explanation
Indices: 15184406--15185233 Score: 992
Period size: 318 Copynumber: 2.7 Consensus size: 305
15184396 AGGATGTTGT
*
15184406 ATATAAAATTAGAAATTATGATATTTTTTAAAGTAATAAAATGCGGAGAAAAAATACGAACAATG
1 ATATAAAATTAGAAATTATGATATTTTTTAAAGTAATAAAATGCGGAGAAAAAATACGAACAAAG
15184471 GGCCGAAGTAAGAGTCTTTTACTAAATTTTTTAAAAATTCAGAAATAATGAATACAAATATTTCA
66 GGCCGAAGTAAGAGTCTTTTACTAAATTTTTTAAAAATTCAGAAATAATGAATACAAATATTTCA
* * *
15184536 AACAAAATGTACTGAAATAATATAAAATAATAAAATACGAAAATAATATATTTTCATTGAAAGTA
131 AACAAAATGTAATGAAATAATGTAAAATAATAAAATACGAAAATAATATATTTTTATTGAAAGTA
*
15184601 ATAAAATTCGAGAAAATAATACAAGCAAAAGACAGGAATAAGGGTTTTTTTTACACTAAATTAAT
196 ATAAAATTCGAGAAAATAATACAAGCAAAAGACAGGAATAAGGGTGTTTTTTACACTAAATT-AT
* *
15184666 TTTAAAAACACACTAAATTAATAAATTTCA-AACATAATGCACTGAAATAATGTAAAA
260 TTTAAAAACACACTAAAGTAATAAAATTCAGAA-ATAAT----T----T--T-TAAAA
* * *
15184723 TTATAAAATTAGAAATTATGATATTTTTTAAAGTAATAAAATGCGGAGAAAAAAATAAGAATAAA
1 ATATAAAATTAGAAATTATGATATTTTTTAAAGTAATAAAATGCGGAG-AAAAAATACGAACAAA
15184788 GGGCCGAAGTAAGAGTCTTTTACTAAATTTTTTAAAAATTCAGAAATAATGAATACAAATATTTC
65 GGGCCGAAGTAAGAGTCTTTTACTAAATTTTTTAAAAATTCAGAAATAATGAATACAAATATTTC
* * *
15184853 AAACAAAATGTATTGAAATAATGTAAAATAATAAAATACAAAAATAATATATTTTTATTAAAAGT
130 AAACAAAATGTAATGAAATAATGTAAAATAATAAAATACGAAAATAATATATTTTTATTGAAAGT
* * * * * *
15184918 AATAAAATTCGGGAAAATTATACGAGTAAAGGGCAGGAATAAAGGG-GTTTTTTACACTAAA-T-
195 AATAAAATTCGAGAAAATAATACAAGCAAAAGACAGGAAT-AAGGGTGTTTTTTACACTAAATTA
* * *
15184980 TTTTAAAAATTTATATTGAAAGTAATAAAATTCAGAAATAATTTTTAAAA
259 TTTTAAAAA--CACACT-AAAGTAATAAAATTCAGAAATAATTTTTAAAA
* * * * * * *
15185030 ATACAAAAATA-ATATT-T--T-TTATTGAAAGTAATAAAATTCGG-GAAAAAATACGAACAAAT
1 ATATAAAATTAGAAATTATGATATTTTTTAAAGTAATAAAATGCGGAGAAAAAATACGAACAAAG
* * * * * *
15185089 GGCCGAAATAAGGGTTTTTTACTAATTTTTTTTTTGAAAAA---AGAAATAATTAATAC----AC
66 GGCCGAAGTAAGAGTCTTTTACTAA---ATTTTTT-AAAAATTCAGAAATAATGAATACAAATAT
* *
15185147 TTCAAACATAATGTAATAAAATAATGTAAAATAATAAAATACGAAAATAATATATTTTTATTGAA
127 TTCAAACAAAATGTAATGAAATAATGTAAAATAATAAAATACGAAAATAATATATTTTTATTGAA
15185212 AGTAATAAAATTC-AG-AAATAAT
192 AGTAATAAAATTCGAGAAAATAAT
15185234 TTTTAAAAAT
Statistics
Matches: 457, Mismatches: 44, Indels: 42
0.84 0.08 0.08
Matches are distributed among these distances:
295 6 0.01
296 1 0.00
297 74 0.16
300 36 0.08
301 15 0.03
302 20 0.04
303 7 0.02
304 5 0.01
305 1 0.00
306 4 0.01
307 13 0.03
308 1 0.00
310 1 0.00
314 1 0.00
315 9 0.02
317 51 0.11
318 205 0.45
319 7 0.02
ACGTcount: A:0.51, C:0.07, G:0.11, T:0.31
Consensus pattern (305 bp):
ATATAAAATTAGAAATTATGATATTTTTTAAAGTAATAAAATGCGGAGAAAAAATACGAACAAAG
GGCCGAAGTAAGAGTCTTTTACTAAATTTTTTAAAAATTCAGAAATAATGAATACAAATATTTCA
AACAAAATGTAATGAAATAATGTAAAATAATAAAATACGAAAATAATATATTTTTATTGAAAGTA
ATAAAATTCGAGAAAATAATACAAGCAAAAGACAGGAATAAGGGTGTTTTTTACACTAAATTATT
TTAAAAACACACTAAAGTAATAAAATTCAGAAATAATTTTTAAAA
Found at i:15185030 original size:21 final size:22
Alignment explanation
Indices: 15185006--15185047 Score: 59
Period size: 21 Copynumber: 2.0 Consensus size: 22
15184996 TGAAAGTAAT
* *
15185006 AAAATTCAGAAATAAT-TTTTA
1 AAAATACAAAAATAATATTTTA
15185027 AAAATACAAAAATAATATTTT
1 AAAATACAAAAATAATATTTT
15185048 TTATTGAAAG
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
21 14 0.78
22 4 0.22
ACGTcount: A:0.57, C:0.05, G:0.02, T:0.36
Consensus pattern (22 bp):
AAAATACAAAAATAATATTTTA
Found at i:15185243 original size:21 final size:22
Alignment explanation
Indices: 15185218--15185259 Score: 59
Period size: 21 Copynumber: 2.0 Consensus size: 22
15185208 TGAAAGTAAT
* *
15185218 AAAATTCAGAAATAAT-TTTTA
1 AAAATACAAAAATAATATTTTA
15185239 AAAATACAAAAATAATATTTT
1 AAAATACAAAAATAATATTTT
15185260 TTATTGAAAG
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
21 14 0.78
22 4 0.22
ACGTcount: A:0.57, C:0.05, G:0.02, T:0.36
Consensus pattern (22 bp):
AAAATACAAAAATAATATTTTA
Found at i:15190243 original size:20 final size:20
Alignment explanation
Indices: 15190218--15190255 Score: 67
Period size: 20 Copynumber: 1.9 Consensus size: 20
15190208 TTTGATATTA
15190218 ACAATTAAAATAAATAAAGT
1 ACAATTAAAATAAATAAAGT
*
15190238 ACAATTAAAATAATTAAA
1 ACAATTAAAATAAATAAA
15190256 AATATTCTCC
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
20 17 1.00
ACGTcount: A:0.66, C:0.05, G:0.03, T:0.26
Consensus pattern (20 bp):
ACAATTAAAATAAATAAAGT
Found at i:15203013 original size:50 final size:47
Alignment explanation
Indices: 15202912--15203036 Score: 126
Period size: 50 Copynumber: 2.5 Consensus size: 47
15202902 CATAGGGGGT
* *
15202912 CTTATGAAAGGTAATAAAAGCCCTACTCTCAGATGAATGGGGGGAGA
1 CTTATGAAAGGTAATAAAAGCCCTACTCTCAAATGAATGGAGGGAGA
* * *
15202959 CTTATGAAAGGTAATAATAATGACCTTACT-TCCAAATGCATGGAGGGAGG
1 CTTATGAAAGGTAATAA-AA-G-CCCTACTCT-CAAATGAATGGAGGGAGA
*
15203009 CTTATGGAAGGTGGTAATAAAAGCCCTA
1 CTTAT-GAA--AGGTAATAAAAGCCCTA
15203037 TTCCCAGACG
Statistics
Matches: 64, Mismatches: 7, Indels: 11
0.78 0.09 0.13
Matches are distributed among these distances:
47 17 0.27
48 2 0.03
49 2 0.03
50 29 0.45
51 4 0.06
52 2 0.03
53 8 0.12
ACGTcount: A:0.36, C:0.14, G:0.26, T:0.24
Consensus pattern (47 bp):
CTTATGAAAGGTAATAAAAGCCCTACTCTCAAATGAATGGAGGGAGA
Found at i:15204219 original size:17 final size:16
Alignment explanation
Indices: 15204197--15204231 Score: 61
Period size: 17 Copynumber: 2.1 Consensus size: 16
15204187 CATGAATCGC
15204197 TGGTCTAATATACATCA
1 TGGTCTAATATAC-TCA
15204214 TGGTCTAATATACTCA
1 TGGTCTAATATACTCA
15204230 TG
1 TG
15204232 AACAATTTAG
Statistics
Matches: 18, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
16 5 0.28
17 13 0.72
ACGTcount: A:0.31, C:0.17, G:0.14, T:0.37
Consensus pattern (16 bp):
TGGTCTAATATACTCA
Found at i:15208009 original size:43 final size:43
Alignment explanation
Indices: 15207948--15208034 Score: 174
Period size: 43 Copynumber: 2.0 Consensus size: 43
15207938 ATTCGATGTA
15207948 TGATCACCCGATTAAGCCATGATTGTATATGCCAATATAAATG
1 TGATCACCCGATTAAGCCATGATTGTATATGCCAATATAAATG
15207991 TGATCACCCGATTAAGCCATGATTGTATATGCCAATATAAATG
1 TGATCACCCGATTAAGCCATGATTGTATATGCCAATATAAATG
15208034 T
1 T
15208035 ATGAAATGTT
Statistics
Matches: 44, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
43 44 1.00
ACGTcount: A:0.34, C:0.18, G:0.16, T:0.31
Consensus pattern (43 bp):
TGATCACCCGATTAAGCCATGATTGTATATGCCAATATAAATG
Found at i:15223067 original size:18 final size:18
Alignment explanation
Indices: 15223024--15223071 Score: 62
Period size: 18 Copynumber: 2.7 Consensus size: 18
15223014 GGATTGTTCG
*
15223024 TCGCCATATTTGGATTGC
1 TCGCCATATTTGGACTGC
*
15223042 TCGTCATATTTGGACTG-
1 TCGCCATATTTGGACTGC
15223059 TCCGCCATATTTG
1 T-CGCCATATTTG
15223072 ATAGTTTGCC
Statistics
Matches: 26, Mismatches: 3, Indels: 2
0.84 0.10 0.06
Matches are distributed among these distances:
17 1 0.04
18 25 0.96
ACGTcount: A:0.17, C:0.23, G:0.21, T:0.40
Consensus pattern (18 bp):
TCGCCATATTTGGACTGC
Found at i:15228078 original size:13 final size:13
Alignment explanation
Indices: 15228060--15228084 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
15228050 TAATTTATAT
15228060 GTGTGAAAATTTC
1 GTGTGAAAATTTC
15228073 GTGTGAAAATTT
1 GTGTGAAAATTT
15228085 TATTGTTTGT
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:0.32, C:0.04, G:0.24, T:0.40
Consensus pattern (13 bp):
GTGTGAAAATTTC
Found at i:15230506 original size:42 final size:43
Alignment explanation
Indices: 15230378--15230619 Score: 239
Period size: 43 Copynumber: 5.7 Consensus size: 43
15230368 GATATGATTT
*
15230378 CGTGTAAGACCACGTCTGGGATGTTGGCATCGACTTGTGTTTA
1 CGTGTAAGACCACGTCTGGGACGTTGGCATCGACTTGTGTTTA
* * * *
15230421 CATGTAAGACCACGTCTAGGATGTTGGCATCAACTTGTGTTTA
1 CGTGTAAGACCACGTCTGGGACGTTGGCATCGACTTGTGTTTA
15230464 CGTGTAAGACCACGTCTGGGACGTT-GCATCGACTTGTGTTTA
1 CGTGTAAGACCACGTCTGGGACGTTGGCATCGACTTGTGTTTA
* * * * *
15230506 CGTGTAAAACCATGTTTGGGACATTGGCATCGTA-TT-TGATT-
1 CGTGTAAGACCACGTCTGGGACGTTGGCATCG-ACTTGTGTTTA
* * * *
15230547 CAG-GTAAGACC-CTGTCTGGGACAG-TGGAATTGA-TATATGATTA
1 C-GTGTAAGACCAC-GTCTGGGAC-GTTGGCATCGACT-TGTGTTTA
* *
15230590 CATGTAAGACCACGTTTGGGACGTTGGCAT
1 CGTGTAAGACCACGTCTGGGACGTTGGCAT
15230620 TGTACGAGAT
Statistics
Matches: 167, Mismatches: 21, Indels: 22
0.80 0.10 0.10
Matches are distributed among these distances:
40 2 0.01
41 23 0.14
42 48 0.29
43 92 0.55
44 2 0.01
ACGTcount: A:0.24, C:0.18, G:0.27, T:0.31
Consensus pattern (43 bp):
CGTGTAAGACCACGTCTGGGACGTTGGCATCGACTTGTGTTTA
Found at i:15230533 original size:85 final size:86
Alignment explanation
Indices: 15230378--15230536 Score: 239
Period size: 85 Copynumber: 1.9 Consensus size: 86
15230368 GATATGATTT
* * *
15230378 CGTGTAAGACCACGTCTGGGATGTTGGCATCGACTTGTGTTTACATGTAAGACCACGTCTAGGAT
1 CGTGTAAGACCACGTCTGGGACGTTGGCATCGACTTGTGTTTACATGTAAAACCACGTCTAGGAC
*
15230443 GTTGGCATCAACTTGTGTTTA
66 ATTGGCATCAACTTGTGTTTA
* * * *
15230464 CGTGTAAGACCACGTCTGGGACGTT-GCATCGACTTGTGTTTACGTGTAAAACCATGTTTGGGAC
1 CGTGTAAGACCACGTCTGGGACGTTGGCATCGACTTGTGTTTACATGTAAAACCACGTCTAGGAC
15230528 ATTGGCATC
66 ATTGGCATC
15230537 GTATTTGATT
Statistics
Matches: 65, Mismatches: 8, Indels: 1
0.88 0.11 0.01
Matches are distributed among these distances:
85 41 0.63
86 24 0.37
ACGTcount: A:0.22, C:0.19, G:0.27, T:0.31
Consensus pattern (86 bp):
CGTGTAAGACCACGTCTGGGACGTTGGCATCGACTTGTGTTTACATGTAAAACCACGTCTAGGAC
ATTGGCATCAACTTGTGTTTA
Found at i:15230610 original size:43 final size:42
Alignment explanation
Indices: 15230503--15230611 Score: 105
Period size: 41 Copynumber: 2.6 Consensus size: 42
15230493 CGACTTGTGT
* * * * * *
15230503 TTACGTGTAAAACCATGTTTGGGACATTGGCATCGTATTTGA
1 TTACATGTAAGACCACGTTTGGGACAGTGGAATCGTATATGA
* * *
15230545 TT-CAGGTAAGACC-CTGTCTGGGACAGTGGAATTGATATATGA
1 TTACATGTAAGACCAC-GTTTGGGACAGTGGAATCG-TATATGA
15230587 TTACATGTAAGACCACGTTTGGGAC
1 TTACATGTAAGACCACGTTTGGGAC
15230612 GTTGGCATTG
Statistics
Matches: 52, Mismatches: 11, Indels: 7
0.74 0.16 0.10
Matches are distributed among these distances:
41 23 0.44
42 10 0.19
43 18 0.35
44 1 0.02
ACGTcount: A:0.28, C:0.16, G:0.26, T:0.31
Consensus pattern (42 bp):
TTACATGTAAGACCACGTTTGGGACAGTGGAATCGTATATGA
Found at i:15234055 original size:20 final size:20
Alignment explanation
Indices: 15234017--15234055 Score: 53
Period size: 20 Copynumber: 1.9 Consensus size: 20
15234007 ATTTTAACTA
*
15234017 CTTAATTAACTTAATTTAAC
1 CTTAATTAACTTAAATTAAC
15234037 CTTAATTAA-TTAAAATTAA
1 CTTAATTAACTT-AAATTAA
15234056 TCACCATTAA
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
19 2 0.12
20 15 0.88
ACGTcount: A:0.46, C:0.10, G:0.00, T:0.44
Consensus pattern (20 bp):
CTTAATTAACTTAAATTAAC
Found at i:15235757 original size:24 final size:24
Alignment explanation
Indices: 15235729--15235776 Score: 96
Period size: 24 Copynumber: 2.0 Consensus size: 24
15235719 ATTAGGAGAT
15235729 GGTGAATGATGATGACTTTTCCAC
1 GGTGAATGATGATGACTTTTCCAC
15235753 GGTGAATGATGATGACTTTTCCAC
1 GGTGAATGATGATGACTTTTCCAC
15235777 TAAGTATGAT
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
24 24 1.00
ACGTcount: A:0.25, C:0.17, G:0.25, T:0.33
Consensus pattern (24 bp):
GGTGAATGATGATGACTTTTCCAC
Found at i:15235785 original size:24 final size:24
Alignment explanation
Indices: 15235732--15235786 Score: 74
Period size: 24 Copynumber: 2.3 Consensus size: 24
15235722 AGGAGATGGT
**
15235732 GAATGATGATGACTTTTCCACGGT
1 GAATGATGATGACTTTTCCACGAA
*
15235756 GAATGATGATGACTTTTCCACTAA
1 GAATGATGATGACTTTTCCACGAA
*
15235780 GTATGAT
1 GAATGAT
15235787 TAATAATTAT
Statistics
Matches: 27, Mismatches: 4, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
24 27 1.00
ACGTcount: A:0.29, C:0.15, G:0.22, T:0.35
Consensus pattern (24 bp):
GAATGATGATGACTTTTCCACGAA
Found at i:15238292 original size:14 final size:14
Alignment explanation
Indices: 15238273--15238299 Score: 54
Period size: 14 Copynumber: 1.9 Consensus size: 14
15238263 AAAGGGGATG
15238273 AAATCAGTGTAAAA
1 AAATCAGTGTAAAA
15238287 AAATCAGTGTAAA
1 AAATCAGTGTAAA
15238300 GAGAAAAAAT
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 13 1.00
ACGTcount: A:0.56, C:0.07, G:0.15, T:0.22
Consensus pattern (14 bp):
AAATCAGTGTAAAA
Found at i:15239163 original size:24 final size:24
Alignment explanation
Indices: 15239134--15239383 Score: 155
Period size: 24 Copynumber: 10.7 Consensus size: 24
15239124 GTTTATTGTA
*
15239134 TATTATTATTTTAGATTTATCATG
1 TATTATTATTTTAAATTTATCATG
* *
15239158 TTTTATTATTTGT-AATTTATCA-A
1 TATTATTATTT-TAAATTTATCATG
* *
15239181 TATTATTATTTTAAATTCATCGT-
1 TATTATTATTTTAAATTTATCATG
**
15239204 TAACATTATTTTAAATTTATCATG
1 TATTATTATTTTAAATTTATCATG
*
15239228 TA-TATTTATTTCAAATTTATCAT-
1 TATTA-TTATTTTAAATTTATCATG
* * *
15239251 TAATA-T-TTTTAAATTTATTATA
1 TATTATTATTTTAAATTTATCATG
* ** *
15239273 TACTATTATTTTGGATTTATCACG
1 TATTATTATTTTAAATTTATCATG
* *
15239297 TATGATTATTCTAGAA-TTATCAT-
1 TATTATTATTTTA-AATTTATCATG
* * * *
15239320 CA-AAAT-TTTTAAATTTTAT-ATA
1 TATTATTATTTTAAA-TTTATCATG
* *
15239342 TATTATTATTTTAAATTTATTATA
1 TATTATTATTTTAAATTTATCATG
*
15239366 TATTATTTATTGTAAATT
1 TATTA-TTATTTTAAATT
15239384 ATTCAATTCA
Statistics
Matches: 175, Mismatches: 34, Indels: 33
0.72 0.14 0.14
Matches are distributed among these distances:
20 2 0.01
21 19 0.11
22 13 0.07
23 48 0.27
24 80 0.46
25 13 0.07
ACGTcount: A:0.34, C:0.06, G:0.04, T:0.56
Consensus pattern (24 bp):
TATTATTATTTTAAATTTATCATG
Found at i:15239223 original size:46 final size:46
Alignment explanation
Indices: 15239138--15239358 Score: 55
Period size: 45 Copynumber: 4.8 Consensus size: 46
15239128 ATTGTATATT
* * * * * **
15239138 ATTATTTTAGATTTATCATGTTTTATTATTTGT-AATTTATCAATATT
1 ATTATTTTAAATTTATCA-ATATTATTATTT-TAAATTCATCATTAAC
* ** ** *
15239185 ATTATTTTAAATTCATCGTTAACATTATTTTAAATTTATCATGTATA-
1 ATTATTTTAAATTTATCAATATTATTATTTTAAATTCATCAT-TA-AC
* * * * * *
15239232 TTTATTTCAAATTTATCATTAATA-T-TTTTAAATTTATTA-TATAC
1 ATTATTTTAAATTTATCAATATTATTATTTTAAATTCATCATTA-AC
** * * * *
15239276 TATTATTTTGGATTTATCACGTATGATTATTCTAGAATT-ATCATCAA-
1 -ATTATTTTAAATTTATCA-ATATTATTATTTTA-AATTCATCATTAAC
*
15239323 AAT-TTTTAAATTTTAT-ATATATTATTATTTTAAATT
1 ATTATTTTAAA-TTTATCA-ATATTATTATTTTAAATT
15239359 TATTATATAT
Statistics
Matches: 131, Mismatches: 32, Indels: 25
0.70 0.17 0.13
Matches are distributed among these distances:
43 4 0.03
44 4 0.03
45 45 0.34
46 28 0.21
47 37 0.28
48 8 0.06
49 5 0.04
ACGTcount: A:0.34, C:0.06, G:0.05, T:0.55
Consensus pattern (46 bp):
ATTATTTTAAATTTATCAATATTATTATTTTAAATTCATCATTAAC
Found at i:15239306 original size:69 final size:69
Alignment explanation
Indices: 15239100--15239373 Score: 217
Period size: 69 Copynumber: 4.0 Consensus size: 69
15239090 TATTATCATT
* * * * * *
15239100 AAATTAATCATTAATATTATCTAAGTTTAT-TGTATATTATTATTTTAGATTTATCATGTTTTAT
1 AAATTTATCATTAATATT-TTTAAATTTATATATATACTATTATTTTAGATTTATCATG-TATAT
*
15239164 TATTTG
64 TATTTC
* * * * * *
15239170 TAATTTATCAATATTATTATTTTAAATTCATCGT-TA-AC-ATTATTTTAAATTTATCATGTATA
1 AAATTTATCATTAATA-T-TTTTAAATTTAT-ATATATACTATTATTTTAGATTTATCATGTATA
15239232 TTTATTTC
63 -TTATTTC
* *
15239240 AAATTTATCATTAATATTTTTAAATTTAT-TATATACTATTATTTTGGATTTATCACGTATGATT
1 AAATTTATCATTAATATTTTTAAATTTATATATATACTATTATTTTAGATTTATCATGTAT-ATT
15239304 A-TTC
65 ATTTC
* * * * *
15239308 TAGAA-TTATCATCAAAATTTTTAAATTT-TATATATATTATTATTTTAAATTTAT--TATATAT
1 -A-AATTTATCATTAATATTTTTAAATTTATATATATACTATTATTTTAGATTTATCATGTATAT
15239369 TATTT
64 TATTT
15239374 ATTGTAAATT
Statistics
Matches: 166, Mismatches: 25, Indels: 29
0.75 0.11 0.13
Matches are distributed among these distances:
66 5 0.03
67 7 0.04
68 17 0.10
69 70 0.42
70 53 0.32
71 10 0.06
72 3 0.02
73 1 0.01
ACGTcount: A:0.35, C:0.06, G:0.04, T:0.55
Consensus pattern (69 bp):
AAATTTATCATTAATATTTTTAAATTTATATATATACTATTATTTTAGATTTATCATGTATATTA
TTTC
Found at i:15239354 original size:17 final size:18
Alignment explanation
Indices: 15239332--15239369 Score: 51
Period size: 17 Copynumber: 2.2 Consensus size: 18
15239322 AAATTTTTAA
*
15239332 ATTTTATATATATTAT-T
1 ATTTTAAATATATTATAT
*
15239349 ATTTTAAATTTATTATAT
1 ATTTTAAATATATTATAT
15239367 ATT
1 ATT
15239370 ATTTATTGTA
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
17 14 0.78
18 4 0.22
ACGTcount: A:0.37, C:0.00, G:0.00, T:0.63
Consensus pattern (18 bp):
ATTTTAAATATATTATAT
Found at i:15239441 original size:127 final size:127
Alignment explanation
Indices: 15239304--15239563 Score: 477
Period size: 127 Copynumber: 2.1 Consensus size: 127
15239294 ACGTATGATT
*
15239304 ATTC-TAGAATTATCATCAAAATTTTTAAATTTTATATATATTATTATTTTAAATTTATTATATA
1 ATTCATAGAATTATCATCAAAATTTTTAAATTTTATATATATTATTATTTCAAATTTATTATATA
*
15239368 TTATTTATTGTAAATTATTCAATTCATTCCAAATTGTAGATATTATTTGTATTAAATTGTAC
66 TTATTTATTGTAAATTATCCAATTCATTCCAAATTGTAGATATTATTTGTATTAAATTGTAC
*
15239430 ATTCATAGAATTATCATCAAAATTTTTAAATTTTATATGTATTATTATTTCAAATTTATTATATA
1 ATTCATAGAATTATCATCAAAATTTTTAAATTTTATATATATTATTATTTCAAATTTATTATATA
*
15239495 TTATTTATTGTAAATTATCCAATTCATTTCAAATTGTAGATATTATTTGTATTAAATTGTAC
66 TTATTTATTGTAAATTATCCAATTCATTCCAAATTGTAGATATTATTTGTATTAAATTGTAC
15239557 ATTCATA
1 ATTCATA
15239564 TATATTATTT
Statistics
Matches: 129, Mismatches: 4, Indels: 1
0.96 0.03 0.01
Matches are distributed among these distances:
126 4 0.03
127 125 0.97
ACGTcount: A:0.37, C:0.07, G:0.05, T:0.51
Consensus pattern (127 bp):
ATTCATAGAATTATCATCAAAATTTTTAAATTTTATATATATTATTATTTCAAATTTATTATATA
TTATTTATTGTAAATTATCCAATTCATTCCAAATTGTAGATATTATTTGTATTAAATTGTAC
Found at i:15239512 original size:24 final size:23
Alignment explanation
Indices: 15239454--15239512 Score: 59
Period size: 24 Copynumber: 2.4 Consensus size: 23
15239444 CATCAAAATT
15239454 TTTAAATT-TTATATGTATTATTA
1 TTTAAATTATTATA-GTATTATTA
15239477 TTTCAAATTTATTATA-TATTATTTA
1 TTT-AAA-TTATTATAGTATTA-TTA
15239502 TTGTAAATTAT
1 TT-TAAATTAT
15239513 CCAATTCATT
Statistics
Matches: 31, Mismatches: 0, Indels: 9
0.77 0.00 0.22
Matches are distributed among these distances:
23 3 0.10
24 12 0.39
25 10 0.32
26 6 0.19
ACGTcount: A:0.36, C:0.02, G:0.03, T:0.59
Consensus pattern (23 bp):
TTTAAATTATTATAGTATTATTA
Found at i:15249169 original size:18 final size:18
Alignment explanation
Indices: 15249146--15249188 Score: 59
Period size: 18 Copynumber: 2.4 Consensus size: 18
15249136 ACCCAATCCA
*
15249146 AACCCAAGTATACAACCC
1 AACCCAAGTACACAACCC
* *
15249164 AACCCAATTACCCAACCC
1 AACCCAAGTACACAACCC
15249182 AACCCAA
1 AACCCAA
15249189 TCATAAAAAT
Statistics
Matches: 22, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
18 22 1.00
ACGTcount: A:0.44, C:0.44, G:0.02, T:0.09
Consensus pattern (18 bp):
AACCCAAGTACACAACCC
Found at i:15249306 original size:9 final size:9
Alignment explanation
Indices: 15249292--15249376 Score: 89
Period size: 9 Copynumber: 9.4 Consensus size: 9
15249282 GTAGTGATTC
15249292 AATTCGGTT
1 AATTCGGTT
15249301 AATTCGGTT
1 AATTCGGTT
**
15249310 AATTCGGGC
1 AATTCGGTT
15249319 AATTCGGTT
1 AATTCGGTT
* *
15249328 AATTTGGGT
1 AATTCGGTT
* *
15249337 AATCCGATT
1 AATTCGGTT
*
15249346 AATTCGGCT
1 AATTCGGTT
*
15249355 AATTCGGGT
1 AATTCGGTT
*
15249364 AATTCAGTT
1 AATTCGGTT
15249373 AATT
1 AATT
15249377 TTTAACCAAA
Statistics
Matches: 60, Mismatches: 16, Indels: 0
0.79 0.21 0.00
Matches are distributed among these distances:
9 60 1.00
ACGTcount: A:0.26, C:0.13, G:0.22, T:0.39
Consensus pattern (9 bp):
AATTCGGTT
Found at i:15252009 original size:15 final size:14
Alignment explanation
Indices: 15251988--15252023 Score: 54
Period size: 15 Copynumber: 2.5 Consensus size: 14
15251978 ATAATCCTTA
*
15251988 ATAATTATCTTAAT
1 ATAATTATCCTAAT
15252002 ATTAATTATCCTAAT
1 A-TAATTATCCTAAT
15252017 ATAATTA
1 ATAATTA
15252024 AAATAGAGTC
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
14 7 0.35
15 13 0.65
ACGTcount: A:0.44, C:0.08, G:0.00, T:0.47
Consensus pattern (14 bp):
ATAATTATCCTAAT
Found at i:15253280 original size:19 final size:19
Alignment explanation
Indices: 15253229--15253281 Score: 72
Period size: 19 Copynumber: 2.8 Consensus size: 19
15253219 GTAAGTATGA
*
15253229 TTTTTTATTTTATCTTAGT
1 TTTTTTATGTTATCTTAGT
*
15253248 TTTCATTATG-TATCTTAGT
1 TTT-TTTATGTTATCTTAGT
15253267 TTTTTTATGTTATCT
1 TTTTTTATGTTATCT
15253282 CAAGGTAGGG
Statistics
Matches: 29, Mismatches: 3, Indels: 4
0.81 0.08 0.11
Matches are distributed among these distances:
18 5 0.17
19 20 0.69
20 4 0.14
ACGTcount: A:0.17, C:0.08, G:0.08, T:0.68
Consensus pattern (19 bp):
TTTTTTATGTTATCTTAGT
Found at i:15256381 original size:45 final size:45
Alignment explanation
Indices: 15256306--15256391 Score: 136
Period size: 45 Copynumber: 1.9 Consensus size: 45
15256296 TATACGCCTA
*
15256306 AAATGAGTAAGACCATAGCTAAAAGATGCTATTACATCATGATAT
1 AAATGAGTAAGACCATAGCTAAAAGATGCTATGACATCATGATAT
* * *
15256351 AAATGAGTAAGACCATGGCTGAAAGGTGCTATGACATCATG
1 AAATGAGTAAGACCATAGCTAAAAGATGCTATGACATCATG
15256392 TGAAAGTACG
Statistics
Matches: 37, Mismatches: 4, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
45 37 1.00
ACGTcount: A:0.41, C:0.14, G:0.21, T:0.24
Consensus pattern (45 bp):
AAATGAGTAAGACCATAGCTAAAAGATGCTATGACATCATGATAT
Found at i:15256574 original size:27 final size:27
Alignment explanation
Indices: 15256544--15256635 Score: 114
Period size: 27 Copynumber: 3.4 Consensus size: 27
15256534 TCGACGGGAC
*
15256544 GTTAAACACGGGATAGTCTGTTAGGAT
1 GTTAAACACGGGATAGTCTGATAGGAT
* * *
15256571 GTTAAACA-GGGTATAGCCTAATGGGAT
1 GTTAAACACGGG-ATAGTCTGATAGGAT
* *
15256598 GTTAAATACAGGATAGTCTGATAGGAT
1 GTTAAACACGGGATAGTCTGATAGGAT
15256625 GTTAAACACGG
1 GTTAAACACGG
15256636 TGTAGTACTC
Statistics
Matches: 52, Mismatches: 11, Indels: 4
0.78 0.16 0.06
Matches are distributed among these distances:
26 3 0.06
27 47 0.90
28 2 0.04
ACGTcount: A:0.34, C:0.11, G:0.28, T:0.27
Consensus pattern (27 bp):
GTTAAACACGGGATAGTCTGATAGGAT
Found at i:15264159 original size:27 final size:27
Alignment explanation
Indices: 15264129--15264230 Score: 141
Period size: 27 Copynumber: 3.8 Consensus size: 27
15264119 ATCATAGATT
*
15264129 GTCCGATAGGACGTTAAACACGGGATA
1 GTCCGATGGGACGTTAAACACGGGATA
*
15264156 GTCCGATGGGACGTTAAACACGAGATA
1 GTCCGATGGGACGTTAAACACGGGATA
* * * *
15264183 GTCCGACGGGAAGTTAAACATGGCATA
1 GTCCGATGGGACGTTAAACACGGGATA
*
15264210 GTCTGATGGGACGTTAAACAC
1 GTCCGATGGGACGTTAAACAC
15264231 AAGGTAGTCC
Statistics
Matches: 64, Mismatches: 11, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
27 64 1.00
ACGTcount: A:0.32, C:0.19, G:0.29, T:0.20
Consensus pattern (27 bp):
GTCCGATGGGACGTTAAACACGGGATA
Found at i:15265437 original size:13 final size:12
Alignment explanation
Indices: 15265408--15265456 Score: 52
Period size: 11 Copynumber: 4.3 Consensus size: 12
15265398 AGACAAAAAT
15265408 AAAAAC-ACAAG
1 AAAAACTACAAG
15265419 -AAAACTACAGAG
1 AAAAACTACA-AG
15265431 AAAAACTA-AAG
1 AAAAACTACAAG
*
15265442 AAAACCTA-AAG
1 AAAAACTACAAG
15265453 AAAA
1 AAAA
15265457 TGAAAACTAA
Statistics
Matches: 34, Mismatches: 1, Indels: 6
0.83 0.02 0.15
Matches are distributed among these distances:
10 5 0.15
11 19 0.56
12 3 0.09
13 7 0.21
ACGTcount: A:0.69, C:0.14, G:0.10, T:0.06
Consensus pattern (12 bp):
AAAAACTACAAG
Found at i:15267401 original size:9 final size:10
Alignment explanation
Indices: 15267381--15267409 Score: 51
Period size: 9 Copynumber: 3.0 Consensus size: 10
15267371 CATTTATGTT
15267381 TTTCTATTCA
1 TTTCTATTCA
15267391 TTTCT-TTCA
1 TTTCTATTCA
15267400 TTTCTATTCA
1 TTTCTATTCA
15267410 AACACGCAGT
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
9 9 0.50
10 9 0.50
ACGTcount: A:0.17, C:0.21, G:0.00, T:0.62
Consensus pattern (10 bp):
TTTCTATTCA
Found at i:15269196 original size:31 final size:31
Alignment explanation
Indices: 15269149--15269269 Score: 161
Period size: 31 Copynumber: 3.9 Consensus size: 31
15269139 TATGTGATAG
* * *
15269149 TACATGGTATACATATGCAATTATGAATTAT
1 TACAGGGTATAAATATGCAATTATGAATGAT
* * *
15269180 TACAGGGTATAAATATGTAGTTATGAATGGT
1 TACAGGGTATAAATATGCAATTATGAATGAT
*
15269211 TACAGGGTATAAATATACAATTATGAATGAT
1 TACAGGGTATAAATATGCAATTATGAATGAT
* *
15269242 TACAGGGTATGAATATGCAAATATGAAT
1 TACAGGGTATAAATATGCAATTATGAAT
15269270 AGTTGATGGC
Statistics
Matches: 77, Mismatches: 13, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
31 77 1.00
ACGTcount: A:0.40, C:0.07, G:0.19, T:0.34
Consensus pattern (31 bp):
TACAGGGTATAAATATGCAATTATGAATGAT
Found at i:15269254 original size:17 final size:17
Alignment explanation
Indices: 15269201--15269255 Score: 53
Period size: 17 Copynumber: 3.4 Consensus size: 17
15269191 AATATGTAGT
*
15269201 TATGAATGGTTACAGGG
1 TATGAATGATTACAGGG
* **
15269218 TATAAAT-A-TACA-AT
1 TATGAATGATTACAGGG
15269232 TATGAATGATTACAGGG
1 TATGAATGATTACAGGG
15269249 TATGAAT
1 TATGAAT
15269256 ATGCAAATAT
Statistics
Matches: 28, Mismatches: 7, Indels: 6
0.68 0.17 0.15
Matches are distributed among these distances:
14 6 0.21
15 5 0.18
16 4 0.14
17 13 0.46
ACGTcount: A:0.40, C:0.05, G:0.22, T:0.33
Consensus pattern (17 bp):
TATGAATGATTACAGGG
Found at i:15271462 original size:86 final size:86
Alignment explanation
Indices: 15271316--15271487 Score: 335
Period size: 86 Copynumber: 2.0 Consensus size: 86
15271306 TCTATATATG
15271316 ATTGCAACCTATGTGTTTGAAGAATCAACATAACATGTTTTTTCTATAAAAGATAATTACTTTCA
1 ATTGCAACCTATGTGTTTGAAGAATCAACATAACATGTTTTTTCTATAAAAGATAATTACTTTCA
15271381 ACAACTAGTTGGGCTATCTTC
66 ACAACTAGTTGGGCTATCTTC
*
15271402 ATTGCAACCTATGTGTTTGAAGAATCAACATAACATGTTTTTTCTATAAAAGATAGTTACTTTCA
1 ATTGCAACCTATGTGTTTGAAGAATCAACATAACATGTTTTTTCTATAAAAGATAATTACTTTCA
15271467 ACAACTAGTTGGGCTATCTTC
66 ACAACTAGTTGGGCTATCTTC
15271488 TTAGTTGAAA
Statistics
Matches: 85, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
86 85 1.00
ACGTcount: A:0.33, C:0.16, G:0.13, T:0.37
Consensus pattern (86 bp):
ATTGCAACCTATGTGTTTGAAGAATCAACATAACATGTTTTTTCTATAAAAGATAATTACTTTCA
ACAACTAGTTGGGCTATCTTC
Found at i:15271924 original size:9 final size:9
Alignment explanation
Indices: 15271910--15271946 Score: 56
Period size: 9 Copynumber: 4.0 Consensus size: 9
15271900 CAACTAATTA
15271910 TAACAATAT
1 TAACAATAT
*
15271919 TAACAACATT
1 TAACAATA-T
15271929 TAACAATAT
1 TAACAATAT
15271938 TAACAATAT
1 TAACAATAT
15271947 CACTAACTGA
Statistics
Matches: 25, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
9 17 0.68
10 8 0.32
ACGTcount: A:0.54, C:0.14, G:0.00, T:0.32
Consensus pattern (9 bp):
TAACAATAT
Found at i:15273779 original size:24 final size:23
Alignment explanation
Indices: 15273752--15273796 Score: 72
Period size: 24 Copynumber: 1.9 Consensus size: 23
15273742 TTACAAATAG
*
15273752 AAAATAAAGTTAAGTAAGAAATGA
1 AAAATAAAATTAAGTAA-AAATGA
15273776 AAAATAAAATTAAGTAAAAAT
1 AAAATAAAATTAAGTAAAAAT
15273797 TGTCCATAAA
Statistics
Matches: 20, Mismatches: 1, Indels: 1
0.91 0.05 0.05
Matches are distributed among these distances:
23 4 0.20
24 16 0.80
ACGTcount: A:0.67, C:0.00, G:0.11, T:0.22
Consensus pattern (23 bp):
AAAATAAAATTAAGTAAAAATGA
Found at i:15278267 original size:51 final size:51
Alignment explanation
Indices: 15278203--15278387 Score: 237
Period size: 51 Copynumber: 3.6 Consensus size: 51
15278193 TCGGTTCACA
** *
15278203 TAGTAGCCTGCACATAGTACTACACATGTGACTATTACCATCCACTACACG
1 TAGTAGCAAGCACATAGTACTACACACGTGACTATTACCATCCACTACACG
* * * ** * *
15278254 TAGTAGCAAGCACATAGTACTACACACGTGATCGA-AACTATCCGGTACGCA
1 TAGTAGCAAGCACATAGTACTACACACGTGA-CTATTACCATCCACTACACG
** *
15278305 TAGTAGCCTGCACATAGTACTACACATGTGACTATTACCATCCACTACACG
1 TAGTAGCAAGCACATAGTACTACACACGTGACTATTACCATCCACTACACG
15278356 TAGTAGCAAGCACATAGTACTACACACGTGAC
1 TAGTAGCAAGCACATAGTACTACACACGTGAC
15278388 CATCACTTTC
Statistics
Matches: 109, Mismatches: 23, Indels: 4
0.80 0.17 0.03
Matches are distributed among these distances:
50 2 0.02
51 105 0.96
52 2 0.02
ACGTcount: A:0.34, C:0.28, G:0.16, T:0.23
Consensus pattern (51 bp):
TAGTAGCAAGCACATAGTACTACACACGTGACTATTACCATCCACTACACG
Found at i:15278377 original size:102 final size:102
Alignment explanation
Indices: 15278201--15278386 Score: 372
Period size: 102 Copynumber: 1.8 Consensus size: 102
15278191 GTTCGGTTCA
15278201 CATAGTAGCCTGCACATAGTACTACACATGTGACTATTACCATCCACTACACGTAGTAGCAAGCA
1 CATAGTAGCCTGCACATAGTACTACACATGTGACTATTACCATCCACTACACGTAGTAGCAAGCA
15278266 CATAGTACTACACACGTGATCGAAACTATCCGGTACG
66 CATAGTACTACACACGTGATCGAAACTATCCGGTACG
15278303 CATAGTAGCCTGCACATAGTACTACACATGTGACTATTACCATCCACTACACGTAGTAGCAAGCA
1 CATAGTAGCCTGCACATAGTACTACACATGTGACTATTACCATCCACTACACGTAGTAGCAAGCA
15278368 CATAGTACTACACACGTGA
66 CATAGTACTACACACGTGA
15278387 CCATCACTTT
Statistics
Matches: 84, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
102 84 1.00
ACGTcount: A:0.34, C:0.27, G:0.16, T:0.23
Consensus pattern (102 bp):
CATAGTAGCCTGCACATAGTACTACACATGTGACTATTACCATCCACTACACGTAGTAGCAAGCA
CATAGTACTACACACGTGATCGAAACTATCCGGTACG
Found at i:15300116 original size:21 final size:21
Alignment explanation
Indices: 15300070--15300116 Score: 51
Period size: 21 Copynumber: 2.2 Consensus size: 21
15300060 AATTTTCAAT
*
15300070 ATTATTAAATATATATTTATA
1 ATTAATAAATATATATTTATA
* *
15300091 TTTAATAAATTATGTATTT-TA
1 ATTAATAAA-TATATATTTATA
15300112 ATTAA
1 ATTAA
15300117 ATCATTTAAT
Statistics
Matches: 21, Mismatches: 4, Indels: 2
0.78 0.15 0.07
Matches are distributed among these distances:
21 13 0.62
22 8 0.38
ACGTcount: A:0.45, C:0.00, G:0.02, T:0.53
Consensus pattern (21 bp):
ATTAATAAATATATATTTATA
Found at i:15300159 original size:16 final size:18
Alignment explanation
Indices: 15300138--15300174 Score: 60
Period size: 18 Copynumber: 2.2 Consensus size: 18
15300128 TACTAATATT
15300138 ATTAATAA-T-TTTTAAA
1 ATTAATAATTATTTTAAA
15300154 ATTAATAATTATTTTAAA
1 ATTAATAATTATTTTAAA
15300172 ATT
1 ATT
15300175 TAAATAATAT
Statistics
Matches: 19, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
16 8 0.42
17 1 0.05
18 10 0.53
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (18 bp):
ATTAATAATTATTTTAAA
Found at i:15300182 original size:20 final size:18
Alignment explanation
Indices: 15300139--15300195 Score: 64
Period size: 20 Copynumber: 3.1 Consensus size: 18
15300129 ACTAATATTA
15300139 TTAATAAT-TTTTAAAA-
1 TTAATAATATTTTAAAAT
15300155 TTAATAATTATTTTAAAAT
1 TTAATAA-TATTTTAAAAT
*
15300174 TTAAATAATATTCTTAATAT
1 TT-AATAATATT-TTAAAAT
15300194 TT
1 TT
15300196 TATATTAACA
Statistics
Matches: 35, Mismatches: 1, Indels: 6
0.83 0.02 0.14
Matches are distributed among these distances:
16 7 0.20
17 1 0.03
18 8 0.23
19 6 0.17
20 13 0.37
ACGTcount: A:0.46, C:0.02, G:0.00, T:0.53
Consensus pattern (18 bp):
TTAATAATATTTTAAAAT
Found at i:15304757 original size:65 final size:65
Alignment explanation
Indices: 15304677--15304807 Score: 262
Period size: 65 Copynumber: 2.0 Consensus size: 65
15304667 CGACCATGAG
15304677 TAAGCTTCTTCATCCACTTATTCATCCAAAATAGTTATGGTATCATGTAAATTTCCACCCTTTTT
1 TAAGCTTCTTCATCCACTTATTCATCCAAAATAGTTATGGTATCATGTAAATTTCCACCCTTTTT
15304742 TAAGCTTCTTCATCCACTTATTCATCCAAAATAGTTATGGTATCATGTAAATTTCCACCCTTTTT
1 TAAGCTTCTTCATCCACTTATTCATCCAAAATAGTTATGGTATCATGTAAATTTCCACCCTTTTT
15304807 T
1 T
15304808 GTTAAACTCC
Statistics
Matches: 66, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
65 66 1.00
ACGTcount: A:0.27, C:0.23, G:0.08, T:0.42
Consensus pattern (65 bp):
TAAGCTTCTTCATCCACTTATTCATCCAAAATAGTTATGGTATCATGTAAATTTCCACCCTTTTT
Found at i:15306936 original size:41 final size:40
Alignment explanation
Indices: 15306891--15306973 Score: 123
Period size: 41 Copynumber: 2.0 Consensus size: 40
15306881 ATTTTTTTGT
**
15306891 TTAGGGTTTTGTTAAAATAATTTAGGTTTAGGG-TTGTAGGG
1 TTAGGGTTTCATTAAAATAATTTAGGTTT-GGGATT-TAGGG
15306932 TTAGGGTTTCATTAAAATAATTTAGGTTTGGGATTTAGGG
1 TTAGGGTTTCATTAAAATAATTTAGGTTTGGGATTTAGGG
15306972 TT
1 TT
15306974 TAAGAATTTT
Statistics
Matches: 39, Mismatches: 2, Indels: 3
0.89 0.05 0.07
Matches are distributed among these distances:
40 10 0.26
41 29 0.74
ACGTcount: A:0.25, C:0.01, G:0.29, T:0.45
Consensus pattern (40 bp):
TTAGGGTTTCATTAAAATAATTTAGGTTTGGGATTTAGGG
Found at i:15307107 original size:34 final size:34
Alignment explanation
Indices: 15307010--15307108 Score: 96
Period size: 34 Copynumber: 2.9 Consensus size: 34
15307000 TTTAGAGTTA
* * *
15307010 TTTTTAAG-AATTTAATTAAACTAGGTTTTAAGG
1 TTTTTAAGAAAATTAATTAAATTAGGGTTTAAGG
* * **
15307043 GTTTTAA-ATAAATTAATTAATTTAAAGTTT-AGAG
1 TTTTTAAGA-AAATTAATTAAATTAGGGTTTAAG-G
15307077 TTTTTAAGAAAATTAATTAAATTAGGGTTTAA
1 TTTTTAAGAAAATTAATTAAATTAGGGTTTAA
15307109 TTTAAAAAAA
Statistics
Matches: 50, Mismatches: 11, Indels: 8
0.72 0.16 0.12
Matches are distributed among these distances:
33 8 0.16
34 40 0.80
35 2 0.04
ACGTcount: A:0.41, C:0.01, G:0.13, T:0.44
Consensus pattern (34 bp):
TTTTTAAGAAAATTAATTAAATTAGGGTTTAAGG
Found at i:15307205 original size:16 final size:16
Alignment explanation
Indices: 15307184--15307238 Score: 83
Period size: 16 Copynumber: 3.4 Consensus size: 16
15307174 CTCTGGTTCA
*
15307184 CTGTAATGGAATAGGG
1 CTGTAATGGAATAGAG
*
15307200 CTGTAATTGAATAGAG
1 CTGTAATGGAATAGAG
15307216 CTGTAATGGAATAGAG
1 CTGTAATGGAATAGAG
*
15307232 CTATAAT
1 CTGTAAT
15307239 CAGTAATTCA
Statistics
Matches: 35, Mismatches: 4, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
16 35 1.00
ACGTcount: A:0.36, C:0.07, G:0.27, T:0.29
Consensus pattern (16 bp):
CTGTAATGGAATAGAG
Found at i:15307398 original size:6 final size:6
Alignment explanation
Indices: 15307387--15307415 Score: 58
Period size: 6 Copynumber: 4.8 Consensus size: 6
15307377 AGGTAGATGA
15307387 TTATTG TTATTG TTATTG TTATTG TTATT
1 TTATTG TTATTG TTATTG TTATTG TTATT
15307416 AAATTTTAAT
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 23 1.00
ACGTcount: A:0.17, C:0.00, G:0.14, T:0.69
Consensus pattern (6 bp):
TTATTG
Found at i:15307552 original size:58 final size:58
Alignment explanation
Indices: 15307429--15307554 Score: 137
Period size: 58 Copynumber: 2.2 Consensus size: 58
15307419 TTTTAATAAG
* * *
15307429 ATTATTATTAAAAATAATTTAATAAAAATAATAAATAATTTGACCATATTTAAAAATA
1 ATTATTATTAAAAATAATTTAATAAAAATAATAAATAATTTAACAAAATTTAAAAATA
* * * * * * *
15307487 ATAATTATTAAATATATTTTAAT-AAAATAATATATAATTTAATAAAATTCTTAATATA
1 ATTATTATTAAAAATAATTTAATAAAAATAATAAATAATTTAACAAAATT-TAAAAATA
*
15307545 TTTATTATTA
1 ATTATTATTA
15307555 TATGAATTAA
Statistics
Matches: 55, Mismatches: 12, Indels: 2
0.80 0.17 0.03
Matches are distributed among these distances:
57 21 0.38
58 34 0.62
ACGTcount: A:0.53, C:0.02, G:0.01, T:0.44
Consensus pattern (58 bp):
ATTATTATTAAAAATAATTTAATAAAAATAATAAATAATTTAACAAAATTTAAAAATA
Found at i:15310124 original size:126 final size:126
Alignment explanation
Indices: 15309901--15310135 Score: 321
Period size: 126 Copynumber: 1.9 Consensus size: 126
15309891 TTTTCTCTAC
* *
15309901 AGTAGTTTTAGAAAAAATAATTTTGAGAAGATGGTTCTGAAAAGATAATATAAAAAACGCTTCAA
1 AGTAGTTTTAGAAAAAATAATTTTGAGAAGACGGTTCTGAAAAAATAATATAAAAAACGCTTCAA
* * *
15309966 ACAGGATGCACTGTCAGCAAAATTACTAAAAAAAGCTCTCACGTAGACACTTTTTTTATAT
66 ACAAGATGCACTGTCAGCAAAATTACTAAAAAAAACTCCCACGTAGACACTTTTTTTATAT
* * * * *
15310027 AGTAGTTCTT-GAAAAAATAATTTTGAGAAGACGGTTTTGAAAAAATAGTGTCAAAAATGCTTCA
1 AGTAGTT-TTAGAAAAAATAATTTTGAGAAGACGGTTCTGAAAAAATAATATAAAAAACGCTTCA
* * *
15310091 AGCAAGATGCACTGTTAGCAAAATTGA-TGAAAAAAACTCCCACGT
65 AACAAGATGCACTGTCAGCAAAATT-ACTAAAAAAAACTCCCACGT
15310136 GGATGCTCTT
Statistics
Matches: 94, Mismatches: 13, Indels: 4
0.85 0.12 0.04
Matches are distributed among these distances:
126 91 0.97
127 3 0.03
ACGTcount: A:0.43, C:0.13, G:0.17, T:0.28
Consensus pattern (126 bp):
AGTAGTTTTAGAAAAAATAATTTTGAGAAGACGGTTCTGAAAAAATAATATAAAAAACGCTTCAA
ACAAGATGCACTGTCAGCAAAATTACTAAAAAAAACTCCCACGTAGACACTTTTTTTATAT
Found at i:15313508 original size:24 final size:24
Alignment explanation
Indices: 15313476--15313530 Score: 101
Period size: 24 Copynumber: 2.3 Consensus size: 24
15313466 GAATGCGGAA
15313476 GTGTTTGCAACACCCACGGTGGAG
1 GTGTTTGCAACACCCACGGTGGAG
*
15313500 GTGTTTGCATCACCCACGGTGGAG
1 GTGTTTGCAACACCCACGGTGGAG
15313524 GTGTTTG
1 GTGTTTG
15313531 AATCTCATAA
Statistics
Matches: 30, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
24 30 1.00
ACGTcount: A:0.16, C:0.22, G:0.35, T:0.27
Consensus pattern (24 bp):
GTGTTTGCAACACCCACGGTGGAG
Found at i:15313721 original size:18 final size:18
Alignment explanation
Indices: 15313698--15313735 Score: 58
Period size: 18 Copynumber: 2.1 Consensus size: 18
15313688 AGAAAATGAA
* *
15313698 ACATATAAGGGTTAGGAT
1 ACATATAAAGGCTAGGAT
15313716 ACATATAAAGGCTAGGAT
1 ACATATAAAGGCTAGGAT
15313734 AC
1 AC
15313736 GCAGTTGGCA
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
18 18 1.00
ACGTcount: A:0.42, C:0.11, G:0.24, T:0.24
Consensus pattern (18 bp):
ACATATAAAGGCTAGGAT
Found at i:15315522 original size:32 final size:32
Alignment explanation
Indices: 15315486--15315546 Score: 79
Period size: 32 Copynumber: 1.9 Consensus size: 32
15315476 ATTTAATTAA
*
15315486 AGAGA-GCTTTGAGAAATTTAGGGAGAAATTTG
1 AGAGATGCTTTGAGAAATTT-GGAAGAAATTTG
**
15315518 AGAGATTTTTTGAGAAATTTGGAAGAAAT
1 AGAGATGCTTTGAGAAATTTGGAAGAAAT
15315547 GTTGTGTGAA
Statistics
Matches: 25, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
32 13 0.52
33 12 0.48
ACGTcount: A:0.39, C:0.02, G:0.28, T:0.31
Consensus pattern (32 bp):
AGAGATGCTTTGAGAAATTTGGAAGAAATTTG
Found at i:15324242 original size:18 final size:19
Alignment explanation
Indices: 15324214--15324249 Score: 56
Period size: 18 Copynumber: 1.9 Consensus size: 19
15324204 GATTCAAACA
*
15324214 AAAAAATCAAAATCAAAAT
1 AAAAAATCAAAAACAAAAT
15324233 AAAAAA-CAAAAACAAAA
1 AAAAAATCAAAAACAAAA
15324250 AAAGAAGAAA
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
18 10 0.62
19 6 0.38
ACGTcount: A:0.81, C:0.11, G:0.00, T:0.08
Consensus pattern (19 bp):
AAAAAATCAAAAACAAAAT
Found at i:15324319 original size:20 final size:20
Alignment explanation
Indices: 15324294--15324343 Score: 66
Period size: 20 Copynumber: 2.5 Consensus size: 20
15324284 AATGAAAATG
* *
15324294 AAAAAGAGAGAAGAGAAAA-A
1 AAAAAGA-AAAAGAAAAAAGA
15324314 AAAAAGAAAAAGAAAAAAGA
1 AAAAAGAAAAAGAAAAAAGA
15324334 AAAAAGAAAA
1 AAAAAGAAAA
15324344 GGAGAGGCCA
Statistics
Matches: 27, Mismatches: 2, Indels: 2
0.87 0.06 0.06
Matches are distributed among these distances:
19 9 0.33
20 18 0.67
ACGTcount: A:0.82, C:0.00, G:0.18, T:0.00
Consensus pattern (20 bp):
AAAAAGAAAAAGAAAAAAGA
Found at i:15324322 original size:26 final size:24
Alignment explanation
Indices: 15324288--15324344 Score: 69
Period size: 26 Copynumber: 2.2 Consensus size: 24
15324278 TGTCAAAATG
* *
15324288 AAAATGAAAAAGAGAGAAGAGAAAAA
1 AAAAAGAAAAAGA-A-AAAAGAAAAA
15324314 AAAAAGAAAAAGAAAAAAGAAAAA
1 AAAAAGAAAAAGAAAAAAGAAAAA
15324338 AGAAAAG
1 A-AAAAG
15324345 GAGAGGCCAA
Statistics
Matches: 28, Mismatches: 2, Indels: 3
0.85 0.06 0.09
Matches are distributed among these distances:
24 10 0.36
25 6 0.21
26 12 0.43
ACGTcount: A:0.79, C:0.00, G:0.19, T:0.02
Consensus pattern (24 bp):
AAAAAGAAAAAGAAAAAAGAAAAA
Found at i:15324323 original size:6 final size:6
Alignment explanation
Indices: 15324282--15324343 Score: 54
Period size: 6 Copynumber: 9.7 Consensus size: 6
15324272 AATCAATGTC
* *
15324282 AAAATG AAAATG AAAAAG AGAGAAGAG AAAAA- AAAAAG AAAAAG AAAAAAG
1 AAAAAG AAAAAG AAAAAG A-A-AA-AG AAAAAG AAAAAG AAAAAG -AAAAAG
15324333 AAAAAAG AAAA
1 -AAAAAG AAAA
15324344 GGAGAGGCCA
Statistics
Matches: 50, Mismatches: 1, Indels: 10
0.82 0.02 0.16
Matches are distributed among these distances:
5 5 0.10
6 23 0.46
7 16 0.32
8 3 0.06
9 3 0.06
ACGTcount: A:0.79, C:0.00, G:0.18, T:0.03
Consensus pattern (6 bp):
AAAAAG
Found at i:15324323 original size:7 final size:7
Alignment explanation
Indices: 15324294--15324343 Score: 59
Period size: 7 Copynumber: 7.4 Consensus size: 7
15324284 AATGAAAATG
15324294 AAAAAGA
1 AAAAAGA
* *
15324301 GAGAAGA
1 AAAAAGA
*
15324308 GAAAA-A
1 AAAAAGA
15324314 AAAAAG-
1 AAAAAGA
15324320 AAAAAGA
1 AAAAAGA
15324327 AAAAAGA
1 AAAAAGA
15324334 AAAAAGA
1 AAAAAGA
15324341 AAA
1 AAA
15324344 GGAGAGGCCA
Statistics
Matches: 37, Mismatches: 4, Indels: 4
0.82 0.09 0.09
Matches are distributed among these distances:
6 11 0.30
7 26 0.70
ACGTcount: A:0.82, C:0.00, G:0.18, T:0.00
Consensus pattern (7 bp):
AAAAAGA
Found at i:15324329 original size:14 final size:15
Alignment explanation
Indices: 15324312--15324343 Score: 50
Period size: 13 Copynumber: 2.3 Consensus size: 15
15324302 AGAAGAGAAA
15324312 AAAAAAAG-AAAAAG
1 AAAAAAAGAAAAAAG
15324326 -AAAAAAGAAAAAAG
1 AAAAAAAGAAAAAAG
15324340 AAAA
1 AAAA
15324344 GGAGAGGCCA
Statistics
Matches: 16, Mismatches: 0, Indels: 3
0.84 0.00 0.16
Matches are distributed among these distances:
13 7 0.44
14 6 0.38
15 3 0.19
ACGTcount: A:0.88, C:0.00, G:0.12, T:0.00
Consensus pattern (15 bp):
AAAAAAAGAAAAAAG
Found at i:15324683 original size:15 final size:15
Alignment explanation
Indices: 15324663--15324692 Score: 51
Period size: 15 Copynumber: 2.0 Consensus size: 15
15324653 TTGTCACTGT
*
15324663 ATTGCAAAACAATGA
1 ATTGCAAAAAAATGA
15324678 ATTGCAAAAAAATGA
1 ATTGCAAAAAAATGA
15324693 CTGAGACTTA
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
15 14 1.00
ACGTcount: A:0.57, C:0.10, G:0.13, T:0.20
Consensus pattern (15 bp):
ATTGCAAAAAAATGA
Found at i:15325213 original size:7 final size:7
Alignment explanation
Indices: 15325201--15325241 Score: 66
Period size: 7 Copynumber: 6.0 Consensus size: 7
15325191 AAAAAGGGGG
15325201 ATGAAAA
1 ATGAAAA
15325208 ATGAAAA
1 ATGAAAA
*
15325215 ATGAAAC
1 ATGAAAA
15325222 ATG-AAA
1 ATGAAAA
15325228 ATGAAAA
1 ATGAAAA
15325235 ATGAAAA
1 ATGAAAA
15325242 GTAATGACTG
Statistics
Matches: 31, Mismatches: 2, Indels: 2
0.89 0.06 0.06
Matches are distributed among these distances:
6 5 0.16
7 26 0.84
ACGTcount: A:0.68, C:0.02, G:0.15, T:0.15
Consensus pattern (7 bp):
ATGAAAA
Found at i:15326478 original size:216 final size:216
Alignment explanation
Indices: 15326104--15326535 Score: 864
Period size: 216 Copynumber: 2.0 Consensus size: 216
15326094 TATTGTCAGG
15326104 TTCGATTTCAAGGATCTTTTGTTAACCCAACCCAATATTTTGGATCTAGCTCGCAACAATACATG
1 TTCGATTTCAAGGATCTTTTGTTAACCCAACCCAATATTTTGGATCTAGCTCGCAACAATACATG
15326169 CCTTCGGGGAGTTAGGCTCAAGCTGAAGTTCAAAGGTTAAACGACCAGATGGCTTAGATGCAAGC
66 CCTTCGGGGAGTTAGGCTCAAGCTGAAGTTCAAAGGTTAAACGACCAGATGGCTTAGATGCAAGC
15326234 GACCACAGTTGAGGTTCAAAGGAAATATGAAGAACTCCAGCTACAACTTAAAGCAGAGGCTGCAG
131 GACCACAGTTGAGGTTCAAAGGAAATATGAAGAACTCCAGCTACAACTTAAAGCAGAGGCTGCAG
15326299 CGAGGGAAGCAGAGGCGGCAA
196 CGAGGGAAGCAGAGGCGGCAA
15326320 TTCGATTTCAAGGATCTTTTGTTAACCCAACCCAATATTTTGGATCTAGCTCGCAACAATACATG
1 TTCGATTTCAAGGATCTTTTGTTAACCCAACCCAATATTTTGGATCTAGCTCGCAACAATACATG
15326385 CCTTCGGGGAGTTAGGCTCAAGCTGAAGTTCAAAGGTTAAACGACCAGATGGCTTAGATGCAAGC
66 CCTTCGGGGAGTTAGGCTCAAGCTGAAGTTCAAAGGTTAAACGACCAGATGGCTTAGATGCAAGC
15326450 GACCACAGTTGAGGTTCAAAGGAAATATGAAGAACTCCAGCTACAACTTAAAGCAGAGGCTGCAG
131 GACCACAGTTGAGGTTCAAAGGAAATATGAAGAACTCCAGCTACAACTTAAAGCAGAGGCTGCAG
15326515 CGAGGGAAGCAGAGGCGGCAA
196 CGAGGGAAGCAGAGGCGGCAA
15326536 CGAGAGAAGC
Statistics
Matches: 216, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
216 216 1.00
ACGTcount: A:0.32, C:0.21, G:0.25, T:0.22
Consensus pattern (216 bp):
TTCGATTTCAAGGATCTTTTGTTAACCCAACCCAATATTTTGGATCTAGCTCGCAACAATACATG
CCTTCGGGGAGTTAGGCTCAAGCTGAAGTTCAAAGGTTAAACGACCAGATGGCTTAGATGCAAGC
GACCACAGTTGAGGTTCAAAGGAAATATGAAGAACTCCAGCTACAACTTAAAGCAGAGGCTGCAG
CGAGGGAAGCAGAGGCGGCAA
Found at i:15326526 original size:21 final size:21
Alignment explanation
Indices: 15326500--15326549 Score: 73
Period size: 21 Copynumber: 2.4 Consensus size: 21
15326490 CTACAACTTA
* * *
15326500 AAGCAGAGGCTGCAGCGAGGG
1 AAGCAGAGGCGGCAACGAGAG
15326521 AAGCAGAGGCGGCAACGAGAG
1 AAGCAGAGGCGGCAACGAGAG
15326542 AAGCAGAG
1 AAGCAGAG
15326550 TAGAGCAGAA
Statistics
Matches: 26, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
21 26 1.00
ACGTcount: A:0.36, C:0.18, G:0.44, T:0.02
Consensus pattern (21 bp):
AAGCAGAGGCGGCAACGAGAG
Found at i:15326965 original size:43 final size:43
Alignment explanation
Indices: 15326869--15327096 Score: 278
Period size: 43 Copynumber: 5.3 Consensus size: 43
15326859 CGTTTATAGA
* ** * * *
15326869 AAAAACACCGCTAAAAGTCACCAAACAATAGTGGCGTTTGTGGG
1 AAAAACGCCGCTAAAAGTCA-TGATCTATAGCGGCGTTTGTGGG
* *
15326913 AAAAGCGCCGCTAAAAGTCATGATCTATAGCGGCATTTGTGGG
1 AAAAACGCCGCTAAAAGTCATGATCTATAGCGGCGTTTGTGGG
* * *
15326956 AAAAACGCCGCTAAAGGTCATGATCTATAGCGGCATTTGTGAG
1 AAAAACGCCGCTAAAAGTCATGATCTATAGCGGCGTTTGTGGG
* * * *
15326999 ATAAGCGTCGCTAAAAGTCATGATCTATAGCGGCGTTTG-AGG
1 AAAAACGCCGCTAAAAGTCATGATCTATAGCGGCGTTTGTGGG
*
15327041 AAAAATCGCCGCTAAAAGTCATGATCTATAGCCGCGTTTGTGGG
1 AAAAA-CGCCGCTAAAAGTCATGATCTATAGCGGCGTTTGTGGG
*
15327085 AAAAGCGCCGCT
1 AAAAACGCCGCT
15327097 TATTTCTAGA
Statistics
Matches: 158, Mismatches: 24, Indels: 5
0.84 0.13 0.03
Matches are distributed among these distances:
42 4 0.03
43 130 0.82
44 24 0.15
ACGTcount: A:0.32, C:0.20, G:0.26, T:0.22
Consensus pattern (43 bp):
AAAAACGCCGCTAAAAGTCATGATCTATAGCGGCGTTTGTGGG
Found at i:15336284 original size:21 final size:21
Alignment explanation
Indices: 15336255--15336295 Score: 55
Period size: 21 Copynumber: 2.0 Consensus size: 21
15336245 CCTTTGTCAG
* *
15336255 TCAATTCTTGCAACTGCGCTT
1 TCAACTCTTGCAACTCCGCTT
*
15336276 TCAACTCTTGTAACTCCGCT
1 TCAACTCTTGCAACTCCGCT
15336296 AAGGCCATTC
Statistics
Matches: 17, Mismatches: 3, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
21 17 1.00
ACGTcount: A:0.20, C:0.32, G:0.12, T:0.37
Consensus pattern (21 bp):
TCAACTCTTGCAACTCCGCTT
Found at i:15341258 original size:18 final size:17
Alignment explanation
Indices: 15341237--15341272 Score: 54
Period size: 17 Copynumber: 2.1 Consensus size: 17
15341227 AAATAGATTG
15341237 ATGAGATAAAAATAAATA
1 ATGAGA-AAAAATAAATA
*
15341255 ATGAGAATAAATAAATA
1 ATGAGAAAAAATAAATA
15341272 A
1 A
15341273 GTAAAATAAA
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
17 11 0.65
18 6 0.35
ACGTcount: A:0.67, C:0.00, G:0.11, T:0.22
Consensus pattern (17 bp):
ATGAGAAAAAATAAATA
Found at i:15343992 original size:19 final size:18
Alignment explanation
Indices: 15343963--15344014 Score: 61
Period size: 19 Copynumber: 2.8 Consensus size: 18
15343953 GAATGACACA
*
15343963 TTAACAAATATTAATATTTT
1 TTAA-AAATATTAA-ATTAT
15343983 TTAAAAATATTCAAATTAT
1 TTAAAAATATT-AAATTAT
15344002 TTAAAAA-ATTAAA
1 TTAAAAATATTAAA
15344015 AAGTTATTAG
Statistics
Matches: 30, Mismatches: 1, Indels: 5
0.83 0.03 0.14
Matches are distributed among these distances:
17 3 0.10
18 3 0.10
19 18 0.60
20 6 0.20
ACGTcount: A:0.54, C:0.04, G:0.00, T:0.42
Consensus pattern (18 bp):
TTAAAAATATTAAATTAT
Found at i:15349376 original size:41 final size:41
Alignment explanation
Indices: 15349331--15349447 Score: 141
Period size: 41 Copynumber: 2.9 Consensus size: 41
15349321 GTCAGGCTCG
* *
15349331 AAGCCTGATGTAACACACCAGCATAAAGCCTACTAGGCACA
1 AAGCCTGATATAACACACCAGCACAAAGCCTACTAGGCACA
* *
15349372 AAGCCTGATATAATACACCAGCACAAAGCCTGCTAGGCACA
1 AAGCCTGATATAACACACCAGCACAAAGCCTACTAGGCACA
* * * *
15349413 TAGCCTGA-AT-A-TCACCGGCACAAAGCCTGCTAGGC
1 AAGCCTGATATAACACACCAGCACAAAGCCTACTAGGC
15349448 GTAGAGCCCG
Statistics
Matches: 69, Mismatches: 7, Indels: 3
0.87 0.09 0.04
Matches are distributed among these distances:
38 22 0.32
39 1 0.01
40 2 0.03
41 44 0.64
ACGTcount: A:0.36, C:0.30, G:0.19, T:0.15
Consensus pattern (41 bp):
AAGCCTGATATAACACACCAGCACAAAGCCTACTAGGCACA
Found at i:15349443 original size:38 final size:38
Alignment explanation
Indices: 15349346--15349477 Score: 149
Period size: 38 Copynumber: 3.4 Consensus size: 38
15349336 TGATGTAACA
* *
15349346 CACCAGCATAAAGCCTACTAGGCACAAAGCCTGATATAAT
1 CACCAGCACAAAGCCTGCTAGGCACAAAGCCTGA-AT-AT
*
15349386 ACACCAGCACAAAGCCTGCTAGGCACATAGCCTGAATAT
1 -CACCAGCACAAAGCCTGCTAGGCACAAAGCCTGAATAT
* ** * *
15349425 CACCGGCACAAAGCCTGCTAGGCGTAGAGCCCGAATAT
1 CACCAGCACAAAGCCTGCTAGGCACAAAGCCTGAATAT
15349463 CACC-GACACAAAGCC
1 CACCAG-CACAAAGCC
15349478 CAAATAACAA
Statistics
Matches: 82, Mismatches: 8, Indels: 5
0.86 0.08 0.05
Matches are distributed among these distances:
37 1 0.01
38 46 0.56
39 2 0.02
40 2 0.02
41 31 0.38
ACGTcount: A:0.36, C:0.32, G:0.19, T:0.14
Consensus pattern (38 bp):
CACCAGCACAAAGCCTGCTAGGCACAAAGCCTGAATAT
Found at i:15350905 original size:3 final size:3
Alignment explanation
Indices: 15350899--15350932 Score: 68
Period size: 3 Copynumber: 11.3 Consensus size: 3
15350889 CCTCTTATTA
15350899 TTG TTG TTG TTG TTG TTG TTG TTG TTG TTG TTG T
1 TTG TTG TTG TTG TTG TTG TTG TTG TTG TTG TTG T
15350933 GATTTTTCAT
Statistics
Matches: 31, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 31 1.00
ACGTcount: A:0.00, C:0.00, G:0.32, T:0.68
Consensus pattern (3 bp):
TTG
Found at i:15364285 original size:16 final size:16
Alignment explanation
Indices: 15364264--15364294 Score: 62
Period size: 16 Copynumber: 1.9 Consensus size: 16
15364254 TGTATTGAAA
15364264 TAGAGGCGTAATGGAT
1 TAGAGGCGTAATGGAT
15364280 TAGAGGCGTAATGGA
1 TAGAGGCGTAATGGA
15364295 AAGGAGACGT
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 15 1.00
ACGTcount: A:0.32, C:0.06, G:0.39, T:0.23
Consensus pattern (16 bp):
TAGAGGCGTAATGGAT
Found at i:15364558 original size:16 final size:16
Alignment explanation
Indices: 15364521--15364562 Score: 52
Period size: 15 Copynumber: 2.7 Consensus size: 16
15364511 TTAATCATAT
*
15364521 TTAAACATA-ATTATTA
1 TTAAA-ATATATTATAA
15364537 TT-AAATATATTATAA
1 TTAAAATATATTATAA
15364552 TTAAAATATAT
1 TTAAAATATAT
15364563 AATTTAATAA
Statistics
Matches: 23, Mismatches: 1, Indels: 4
0.82 0.04 0.14
Matches are distributed among these distances:
14 3 0.13
15 10 0.43
16 10 0.43
ACGTcount: A:0.52, C:0.02, G:0.00, T:0.45
Consensus pattern (16 bp):
TTAAAATATATTATAA
Found at i:15364569 original size:14 final size:15
Alignment explanation
Indices: 15364530--15364571 Score: 52
Period size: 15 Copynumber: 2.9 Consensus size: 15
15364520 TTTAAACATA
*
15364530 ATTATTATTAAATAT
1 ATTATAATTAAATAT
15364545 ATTATAATTAAA-AT
1 ATTATAATTAAATAT
*
15364559 A-TATAATTTAATA
1 ATTATAATTAAATA
15364572 AAATTCTTAA
Statistics
Matches: 24, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
13 9 0.38
14 4 0.17
15 11 0.46
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (15 bp):
ATTATAATTAAATAT
Found at i:15364689 original size:14 final size:15
Alignment explanation
Indices: 15364640--15364691 Score: 56
Period size: 15 Copynumber: 3.6 Consensus size: 15
15364630 ATAAAATATA
15364640 AATTAACATA-ATTAT
1 AATTAA-ATATATTAT
*
15364655 TATTAAATATATTAT
1 AATTAAATATATTAT
15364670 AATTAAA-ATA-TAT
1 AATTAAATATATTAT
*
15364683 AATTTAATA
1 AATTAAATA
15364692 AAATTCTTAA
Statistics
Matches: 32, Mismatches: 3, Indels: 5
0.80 0.08 0.12
Matches are distributed among these distances:
13 9 0.28
14 7 0.22
15 16 0.50
ACGTcount: A:0.54, C:0.02, G:0.00, T:0.44
Consensus pattern (15 bp):
AATTAAATATATTAT
Found at i:15364802 original size:18 final size:17
Alignment explanation
Indices: 15364781--15364815 Score: 52
Period size: 18 Copynumber: 2.0 Consensus size: 17
15364771 TTATTATTAA
*
15364781 ATATATTTTAATTAAAAT
1 ATATAATTTAA-TAAAAT
15364799 ATATAATTTAATAAAAT
1 ATATAATTTAATAAAAT
15364816 TCTAATAATC
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:15364880 original size:119 final size:120
Alignment explanation
Indices: 15364527--15364935 Score: 714
Period size: 120 Copynumber: 3.4 Consensus size: 120
15364517 ATATTTAAAC
15364527 ATAATTATTATTAAATATATTATAATTAAAATATATAATTTAATAAAATTCTTAATAATCAATAT
1 ATAATTATTATTAAATATATTATAATTAAAATATATAATTTAATAAAATTCTTAATAATCAATAT
*
15364592 TCTTATATGAATTTACTCAAATCATAATATATGATACTATAAAATATAAATT-AA
66 TCTTATATGAATTTACTCAAATCATAATATATGATACTATAAAATATAATTTGAA
15364646 CATAATTATTATTAAATATATTATAATTAAAATATATAATTTAATAAAATTCTTAATAATCAATA
1 -ATAATTATTATTAAATATATTATAATTAAAATATATAATTTAATAAAATTCTTAATAATCAATA
* * *
15364711 ATCTTATATGAATTTACTCAAATCATAATATATTATACTATAAAAGATAATTTGAA
65 TTCTTATATGAATTTACTCAAATCATAATATATGATACTATAAAATATAATTTGAA
*
15364767 ATAATTATTATTAAATATATTTTAATTAAAATATATAATTTAATAAAATTC-TAATAATCAATAT
1 ATAATTATTATTAAATATATTATAATTAAAATATATAATTTAATAAAATTCTTAATAATCAATAT
*
15364831 TCTTATATGAATTTACTAAAATCATAATATATGATACTATAAAATATAATTTGAA
66 TCTTATATGAATTTACTCAAATCATAATATATGATACTATAAAATATAATTTGAA
* * *
15364886 ATAATTAATATTAAATATATTTTAATTAAAATATATGATTTAATAAAATT
1 ATAATTATTATTAAATATATTATAATTAAAATATATAATTTAATAAAATT
15364936 TAAAATAATT
Statistics
Matches: 277, Mismatches: 11, Indels: 3
0.95 0.04 0.01
Matches are distributed among these distances:
119 112 0.40
120 163 0.59
121 2 0.01
ACGTcount: A:0.50, C:0.05, G:0.02, T:0.43
Consensus pattern (120 bp):
ATAATTATTATTAAATATATTATAATTAAAATATATAATTTAATAAAATTCTTAATAATCAATAT
TCTTATATGAATTTACTCAAATCATAATATATGATACTATAAAATATAATTTGAA
Found at i:15369047 original size:28 final size:28
Alignment explanation
Indices: 15369016--15369085 Score: 70
Period size: 29 Copynumber: 2.5 Consensus size: 28
15369006 CATACACAGC
* *
15369016 ATAAATAAATAAAATCACAATATAAAAT
1 ATAAATAAATAAAATAACAATAAAAAAT
** *
15369044 ATAAATGAAATTCAATAATAATAAAAAAT
1 ATAAAT-AAATAAAATAACAATAAAAAAT
15369073 -TAAATTAAATAAA
1 ATAAA-TAAATAAA
15369086 TTAAAACCAC
Statistics
Matches: 33, Mismatches: 7, Indels: 4
0.75 0.16 0.09
Matches are distributed among these distances:
28 15 0.45
29 18 0.55
ACGTcount: A:0.67, C:0.04, G:0.01, T:0.27
Consensus pattern (28 bp):
ATAAATAAATAAAATAACAATAAAAAAT
Found at i:15378814 original size:19 final size:19
Alignment explanation
Indices: 15378790--15378834 Score: 63
Period size: 19 Copynumber: 2.4 Consensus size: 19
15378780 GAGATCTGAA
15378790 TTGTGGAAGCATTCAAACT
1 TTGTGGAAGCATTCAAACT
**
15378809 TTGTGGATTCATTCAAACT
1 TTGTGGAAGCATTCAAACT
*
15378828 TTTTGGA
1 TTGTGGA
15378835 TTCGTAATTA
Statistics
Matches: 23, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
19 23 1.00
ACGTcount: A:0.27, C:0.13, G:0.20, T:0.40
Consensus pattern (19 bp):
TTGTGGAAGCATTCAAACT
Found at i:15378835 original size:19 final size:19
Alignment explanation
Indices: 15378799--15378837 Score: 69
Period size: 19 Copynumber: 2.1 Consensus size: 19
15378789 ATTGTGGAAG
15378799 CATTCAAACTTTGTGGATT
1 CATTCAAACTTTGTGGATT
*
15378818 CATTCAAACTTTTTGGATT
1 CATTCAAACTTTGTGGATT
15378837 C
1 C
15378838 GTAATTAATC
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
19 19 1.00
ACGTcount: A:0.26, C:0.18, G:0.13, T:0.44
Consensus pattern (19 bp):
CATTCAAACTTTGTGGATT
Found at i:15401098 original size:18 final size:18
Alignment explanation
Indices: 15401075--15401109 Score: 52
Period size: 18 Copynumber: 1.9 Consensus size: 18
15401065 CTTGGATTTT
15401075 TAAACCCCCATATTACCC
1 TAAACCCCCATATTACCC
**
15401093 TAAACCTTCATATTACC
1 TAAACCCCCATATTACC
15401110 TAGTCATTAC
Statistics
Matches: 15, Mismatches: 2, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
18 15 1.00
ACGTcount: A:0.34, C:0.37, G:0.00, T:0.29
Consensus pattern (18 bp):
TAAACCCCCATATTACCC
Found at i:15405686 original size:88 final size:88
Alignment explanation
Indices: 15405537--15405713 Score: 302
Period size: 88 Copynumber: 2.0 Consensus size: 88
15405527 TCCTCGGACT
* *
15405537 ACTCACGTACTCCGTTGTAATTATATTACAACTAGGCCTGTATACTTGCTGATACCACCTCATTC
1 ACTCACCTACTCCGTTGTAACTATATTACAACTAGGCCTGTATACTTGCTGATACCACCTCATTC
15405602 ATATATCTTTTACTACAGTATTC
66 ATATATCTTTTACTACAGTATTC
*
15405625 ACTCACCTACTCCGTTGTAACTATATTACAACTCGG-CTCGTATACTTGCTGATACCACCTCATT
1 ACTCACCTACTCCGTTGTAACTATATTACAACTAGGCCT-GTATACTTGCTGATACCACCTCATT
*
15405689 GATATATCTTTTACTACAGTATTC
65 CATATATCTTTTACTACAGTATTC
15405713 A
1 A
15405714 TATTCTGGAC
Statistics
Matches: 84, Mismatches: 4, Indels: 2
0.93 0.04 0.02
Matches are distributed among these distances:
87 2 0.02
88 82 0.98
ACGTcount: A:0.27, C:0.26, G:0.10, T:0.37
Consensus pattern (88 bp):
ACTCACCTACTCCGTTGTAACTATATTACAACTAGGCCTGTATACTTGCTGATACCACCTCATTC
ATATATCTTTTACTACAGTATTC
Found at i:15409941 original size:10 final size:10
Alignment explanation
Indices: 15409926--15410007 Score: 74
Period size: 10 Copynumber: 7.6 Consensus size: 10
15409916 AGCAACATAC
*
15409926 AAATTATAAT
1 AAATTACAAT
15409936 AAATTACAAT
1 AAATTACAAT
15409946 AAATTAGCCCTTAAAT
1 AAATTA---C---AAT
*
15409962 TAATTACAAT
1 AAATTACAAT
*
15409972 TAATTACAAT
1 AAATTACAAT
*
15409982 TAATTACAAT
1 AAATTACAAT
15409992 AAATTACAAT
1 AAATTACAAT
15410002 AAATTA
1 AAATTA
15410008 GCCCTCAAAG
Statistics
Matches: 63, Mismatches: 3, Indels: 12
0.81 0.04 0.15
Matches are distributed among these distances:
10 53 0.84
13 2 0.03
16 8 0.13
ACGTcount: A:0.54, C:0.10, G:0.01, T:0.35
Consensus pattern (10 bp):
AAATTACAAT
Found at i:15413422 original size:23 final size:22
Alignment explanation
Indices: 15413379--15413422 Score: 54
Period size: 23 Copynumber: 1.9 Consensus size: 22
15413369 TTCTAAGTCG
15413379 ATATTCAATTCAATTCCACACCT
1 ATATTCAATTCAATT-CACACCT
15413402 ATATTCATTATTCAATT-ACAC
1 ATATTCA--ATTCAATTCACAC
15413423 TTAGTCAATT
Statistics
Matches: 19, Mismatches: 0, Indels: 4
0.83 0.00 0.17
Matches are distributed among these distances:
23 11 0.58
25 8 0.42
ACGTcount: A:0.36, C:0.25, G:0.00, T:0.39
Consensus pattern (22 bp):
ATATTCAATTCAATTCACACCT
Found at i:15413581 original size:51 final size:50
Alignment explanation
Indices: 15413521--15413706 Score: 221
Period size: 51 Copynumber: 3.7 Consensus size: 50
15413511 TCGGTTCACA
15413521 TAGTAGCCTGCACATAGTACTACACATGTGACCATTACCATCCGATACACG
1 TAGTAGCCTGCACATAGTACTACACATGTGACCA-TACCATCCGATACACG
* * * * * *
15413572 TTGTAGCCTGCACATAGTACTACACACGTGATCAAAACTATCCGATACACA
1 TAGTAGCCTGCACATAGTACTACACATGTGA-CCATACCATCCGATACACG
* * * *
15413623 TGGTAGCCTGCACATAGTATTACACATGCGACC-TATCATTCCGATACACG
1 TAGTAGCCTGCACATAGTACTACACATGTGACCATACCA-TCCGATACACG
* * *
15413673 TAGTAGTCTGTACATAATACTACACATGTGACCA
1 TAGTAGCCTGCACATAGTACTACACATGTGACCA
15413707 CCACTTTCAC
Statistics
Matches: 111, Mismatches: 21, Indels: 6
0.80 0.15 0.04
Matches are distributed among these distances:
49 2 0.02
50 38 0.34
51 69 0.62
52 2 0.02
ACGTcount: A:0.32, C:0.27, G:0.16, T:0.25
Consensus pattern (50 bp):
TAGTAGCCTGCACATAGTACTACACATGTGACCATACCATCCGATACACG
Found at i:15413641 original size:102 final size:101
Alignment explanation
Indices: 15413517--15413703 Score: 268
Period size: 101 Copynumber: 1.8 Consensus size: 101
15413507 ATGTTCGGTT
* *
15413517 CACATAGTAGCCTGCACATAGTACTACACATGTGACCATTACCA-TCCGATACACGTTGTAGCCT
1 CACATAGTAGCCTGCACATAGTACTACACATGCGACC--TACCATTCCGATACACGTAGTAGCCT
*
15413581 GCACATAGTACTACACACGTGATCAAAACTATCCGATA
64 GCACATAATACTACACACGTGATCAAAACTATCCGATA
* * * * *
15413619 CACATGGTAGCCTGCACATAGTATTACACATGCGACCTATCATTCCGATACACGTAGTAGTCTGT
1 CACATAGTAGCCTGCACATAGTACTACACATGCGACCTACCATTCCGATACACGTAGTAGCCTGC
*
15413684 ACATAATACTACACATGTGA
66 ACATAATACTACACACGTGA
15413704 CCACCACTTT
Statistics
Matches: 75, Mismatches: 9, Indels: 3
0.86 0.10 0.03
Matches are distributed among these distances:
100 4 0.05
101 37 0.49
102 34 0.45
ACGTcount: A:0.33, C:0.27, G:0.16, T:0.25
Consensus pattern (101 bp):
CACATAGTAGCCTGCACATAGTACTACACATGCGACCTACCATTCCGATACACGTAGTAGCCTGC
ACATAATACTACACACGTGATCAAAACTATCCGATA
Found at i:15416140 original size:12 final size:13
Alignment explanation
Indices: 15416123--15416151 Score: 51
Period size: 13 Copynumber: 2.3 Consensus size: 13
15416113 GTTTTATCTA
15416123 CTTCCAC-TTTCC
1 CTTCCACATTTCC
15416135 CTTCCACATTTCC
1 CTTCCACATTTCC
15416148 CTTC
1 CTTC
15416152 TTCTTGTAAA
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
12 7 0.44
13 9 0.56
ACGTcount: A:0.10, C:0.48, G:0.00, T:0.41
Consensus pattern (13 bp):
CTTCCACATTTCC
Found at i:15419373 original size:26 final size:26
Alignment explanation
Indices: 15419334--15419392 Score: 100
Period size: 26 Copynumber: 2.3 Consensus size: 26
15419324 TCTTTTCTCG
*
15419334 AAATTTTACTAGGGGCAAAATCATCA
1 AAATTTTACCAGGGGCAAAATCATCA
*
15419360 AAATTTTACCAGGGGTAAAATCATCA
1 AAATTTTACCAGGGGCAAAATCATCA
15419386 AAATTTT
1 AAATTTT
15419393 GTTAAGGGTA
Statistics
Matches: 31, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
26 31 1.00
ACGTcount: A:0.42, C:0.14, G:0.14, T:0.31
Consensus pattern (26 bp):
AAATTTTACCAGGGGCAAAATCATCA
Found at i:15419401 original size:26 final size:26
Alignment explanation
Indices: 15419334--15419406 Score: 83
Period size: 26 Copynumber: 2.8 Consensus size: 26
15419324 TCTTTTCTCG
* * *
15419334 AAATTTTACTAGGGGCAAAATCATCA
1 AAATTTTACCAAGGGTAAAATCATCA
*
15419360 AAATTTTACCAGGGGTAAAATCATCA
1 AAATTTTACCAAGGGTAAAATCATCA
***
15419386 AAATTTTGTTAAGGGTAAAAT
1 AAATTTTACCAAGGGTAAAAT
15419407 AGGGATGAGA
Statistics
Matches: 41, Mismatches: 6, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
26 41 1.00
ACGTcount: A:0.42, C:0.11, G:0.16, T:0.30
Consensus pattern (26 bp):
AAATTTTACCAAGGGTAAAATCATCA
Found at i:15427205 original size:40 final size:39
Alignment explanation
Indices: 15427161--15427295 Score: 121
Period size: 40 Copynumber: 3.4 Consensus size: 39
15427151 ACTAGTTTGG
15427161 CACCCAGTGCCTCATCGGATAATTCGAAGTAATAAGTTGA
1 CACCCAGTGCCTCATCGGATAATTCGAAGTAATAA-TTGA
* * * * * *
15427201 CACCCAGTGTCTCATTGGCTAAATAGAAGT-A-AATTGG
1 CACCCAGTGCCTCATCGGATAATTCGAAGTAATAATTGA
* * * *
15427238 CACCCAGTGCCTCATCGAATTAATCCAAAGTAGTAAATTGA
1 CACCCAGTGCCTCATCGGA-TAATTCGAAGTAAT-AATTGA
* *
15427279 CACCTAGTGTCTCATCG
1 CACCCAGTGCCTCATCG
15427296 ACTCGAAGTC
Statistics
Matches: 73, Mismatches: 18, Indels: 7
0.74 0.18 0.07
Matches are distributed among these distances:
37 18 0.25
38 9 0.12
39 1 0.01
40 25 0.34
41 20 0.27
ACGTcount: A:0.32, C:0.24, G:0.19, T:0.26
Consensus pattern (39 bp):
CACCCAGTGCCTCATCGGATAATTCGAAGTAATAATTGA
Found at i:15428178 original size:17 final size:18
Alignment explanation
Indices: 15428156--15428191 Score: 56
Period size: 17 Copynumber: 2.1 Consensus size: 18
15428146 TCTCCTTTTG
*
15428156 TTTCCTTTTTGTTT-ATT
1 TTTCCTTTCTGTTTCATT
15428173 TTTCCTTTCTGTTTCATT
1 TTTCCTTTCTGTTTCATT
15428191 T
1 T
15428192 CTATCTTGTT
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
17 13 0.76
18 4 0.24
ACGTcount: A:0.06, C:0.17, G:0.06, T:0.72
Consensus pattern (18 bp):
TTTCCTTTCTGTTTCATT
Found at i:15428201 original size:16 final size:18
Alignment explanation
Indices: 15428182--15428226 Score: 51
Period size: 16 Copynumber: 2.6 Consensus size: 18
15428172 TTTTCCTTTC
15428182 TGTTTCATTT-CTA-TCT
1 TGTTTCATTTACTATTCT
*
15428198 TGTTTCTTTTACTATTTCT
1 TGTTTCATTTACTA-TTCT
15428217 T-TTTCATTTA
1 TGTTTCATTTA
15428227 TTTAATTGTT
Statistics
Matches: 24, Mismatches: 2, Indels: 4
0.80 0.07 0.13
Matches are distributed among these distances:
16 9 0.38
17 3 0.12
18 8 0.33
19 4 0.17
ACGTcount: A:0.13, C:0.16, G:0.04, T:0.67
Consensus pattern (18 bp):
TGTTTCATTTACTATTCT
Done.