Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Chr14
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: 244914714
ACGTcount: A:0.31, C:0.18, G:0.18, T:0.31
Warning! 4503000 characters in sequence are not A, C, G, or T
File 549 of 770
Found at i:170693156 original size:24 final size:24
Alignment explanation
Indices: 170693100--170693288 Score: 269
Period size: 24 Copynumber: 8.0 Consensus size: 24
170693090 GAGGAAGTGA
170693100 AAAAGGGCTTATGCCCCAGTTAT-
1 AAAAGGGCTTATGCCCCAGTTATC
*
170693123 TAAAGGGCTTATGCCCCAGTTATC
1 AAAAGGGCTTATGCCCCAGTTATC
170693147 AAAAGGGCTTATGCCCCAGTTATC
1 AAAAGGGCTTATGCCCCAGTTATC
170693171 AAAAGGGCTTATGCCCCAGTTATC
1 AAAAGGGCTTATGCCCCAGTTATC
*
170693195 AAAAGGGCTTACG-CCCAGTTAT-
1 AAAAGGGCTTATGCCCCAGTTATC
* *
170693217 TAAAGGGCTTATGCCCCAGTTATA
1 AAAAGGGCTTATGCCCCAGTTATC
* *
170693241 AAAAGGGCTTTTGCCCCAGTTATT
1 AAAAGGGCTTATGCCCCAGTTATC
*
170693265 AAAAGAGGC-TAGGCCTCCAGTTAT
1 AAAAG-GGCTTATGCC-CCAGTTAT
170693289 ATGATAAAGC
Statistics
Matches: 151, Mismatches: 10, Indels: 8
0.89 0.06 0.05
Matches are distributed among these distances:
22 11 0.07
23 40 0.26
24 89 0.59
25 11 0.07
ACGTcount: A:0.29, C:0.23, G:0.22, T:0.26
Consensus pattern (24 bp):
AAAAGGGCTTATGCCCCAGTTATC
Found at i:170693169 original size:47 final size:47
Alignment explanation
Indices: 170693100--170693267 Score: 284
Period size: 47 Copynumber: 3.6 Consensus size: 47
170693090 GAGGAAGTGA
170693100 AAAAGGGCTTATGCCCCAGTTATTAAAGGGCTTATGCCCCAGTTATC
1 AAAAGGGCTTATGCCCCAGTTATTAAAGGGCTTATGCCCCAGTTATC
*
170693147 AAAAGGGCTTATGCCCCAGTTATCAAAAGGGCTTATGCCCCAGTTATC
1 AAAAGGGCTTATGCCCCAGTTAT-TAAAGGGCTTATGCCCCAGTTATC
* *
170693195 AAAAGGGCTTACG-CCCAGTTATTAAAGGGCTTATGCCCCAGTTATA
1 AAAAGGGCTTATGCCCCAGTTATTAAAGGGCTTATGCCCCAGTTATC
*
170693241 AAAAGGGCTTTTGCCCCAGTTATTAAA
1 AAAAGGGCTTATGCCCCAGTTATTAAA
170693268 AGAGGCTAGG
Statistics
Matches: 113, Mismatches: 6, Indels: 4
0.92 0.05 0.03
Matches are distributed among these distances:
46 33 0.29
47 45 0.40
48 35 0.31
ACGTcount: A:0.30, C:0.23, G:0.21, T:0.27
Consensus pattern (47 bp):
AAAAGGGCTTATGCCCCAGTTATTAAAGGGCTTATGCCCCAGTTATC
Found at i:170693227 original size:94 final size:96
Alignment explanation
Indices: 170693100--170693288 Score: 303
Period size: 94 Copynumber: 2.0 Consensus size: 96
170693090 GAGGAAGTGA
* *
170693100 AAAAGGGCTTATGCCCCAGTTATTAAAGGGCTTATGCCCCAGTTATCAAAAGGGCTTATGCCCCA
1 AAAAGGGCTTACGCCCCAGTTATTAAAGGGCTTATGCCCCAGTTATAAAAAGGGCTTATGCCCCA
*
170693165 GTTATCAAAAG-GGCTTATGCC-CCAGTTATC
66 GTTATCAAAAGAGGC-TAGGCCTCCAGTTATC
*
170693195 AAAAGGGCTTACG-CCCAGTTATTAAAGGGCTTATGCCCCAGTTATAAAAAGGGCTTTTGCCCCA
1 AAAAGGGCTTACGCCCCAGTTATTAAAGGGCTTATGCCCCAGTTATAAAAAGGGCTTATGCCCCA
*
170693259 GTTATTAAAAGAGGCTAGGCCTCCAGTTAT
66 GTTATCAAAAGAGGCTAGGCCTCCAGTTAT
170693289 ATGATAAAGC
Statistics
Matches: 87, Mismatches: 5, Indels: 4
0.91 0.05 0.04
Matches are distributed among these distances:
94 64 0.74
95 23 0.26
ACGTcount: A:0.29, C:0.23, G:0.22, T:0.26
Consensus pattern (96 bp):
AAAAGGGCTTACGCCCCAGTTATTAAAGGGCTTATGCCCCAGTTATAAAAAGGGCTTATGCCCCA
GTTATCAAAAGAGGCTAGGCCTCCAGTTATC
Found at i:170693517 original size:31 final size:31
Alignment explanation
Indices: 170693482--170693545 Score: 101
Period size: 31 Copynumber: 2.1 Consensus size: 31
170693472 CGTTTACCGT
*
170693482 AAAGGCTTCGGCCCAGTAATATGAAATTTGA
1 AAAGGCTTCGGCCCAGTAATATGAAATATGA
**
170693513 AAAGGCTTCGGCCCAGTGTTATGAAATATGA
1 AAAGGCTTCGGCCCAGTAATATGAAATATGA
170693544 AA
1 AA
170693546 TATGAAAAGG
Statistics
Matches: 30, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
31 30 1.00
ACGTcount: A:0.36, C:0.16, G:0.23, T:0.25
Consensus pattern (31 bp):
AAAGGCTTCGGCCCAGTAATATGAAATATGA
Found at i:170695876 original size:6 final size:6
Alignment explanation
Indices: 170695846--170695914 Score: 61
Period size: 6 Copynumber: 11.3 Consensus size: 6
170695836 ACGAAACATT
* * * *
170695846 ATCAGA A-CTAGA ATCAAA ATGAGA ATCAGA ATTCGGTG A-CAGA ATCAGA
1 ATCAGA ATC-AGA ATCAGA ATCAGA ATCAGA A-TCAG-A ATCAGA ATCAGA
170695895 ATCAGA ATCAGA ATCAGA AT
1 ATCAGA ATCAGA ATCAGA AT
170695915 TAGGTGACAG
Statistics
Matches: 50, Mismatches: 8, Indels: 10
0.74 0.12 0.15
Matches are distributed among these distances:
5 2 0.04
6 43 0.86
7 4 0.08
8 1 0.02
ACGTcount: A:0.48, C:0.14, G:0.19, T:0.19
Consensus pattern (6 bp):
ATCAGA
Found at i:170695889 original size:37 final size:36
Alignment explanation
Indices: 170695848--170695948 Score: 121
Period size: 37 Copynumber: 2.7 Consensus size: 36
170695838 GAAACATTAT
* *
170695848 CAGAACTAGAATCAAAATGAGAATCAGAATTCGGTGA
1 CAGAA-TAGAATCAAAATCAGAATCAGAATTAGGTGA
*
170695885 CAGAATCAGAATCAGAATCAGAATCAGAATTAGGTGA
1 CAGAAT-AGAATCAAAATCAGAATCAGAATTAGGTGA
* * *
170695922 CAGAATTTGAATCAGAATCAGTATCAG
1 CAGAA-TAGAATCAAAATCAGAATCAG
170695949 GTAACGGAAT
Statistics
Matches: 57, Mismatches: 5, Indels: 4
0.86 0.08 0.06
Matches are distributed among these distances:
36 1 0.02
37 55 0.96
38 1 0.02
ACGTcount: A:0.45, C:0.14, G:0.21, T:0.21
Consensus pattern (36 bp):
CAGAATAGAATCAAAATCAGAATCAGAATTAGGTGA
Found at i:170695926 original size:31 final size:31
Alignment explanation
Indices: 170695891--170695970 Score: 88
Period size: 31 Copynumber: 2.6 Consensus size: 31
170695881 GTGACAGAAT
* *
170695891 CAGAATCAGAATCAGAATCAGAATTAGGTGA
1 CAGAATCAGAATCAGAATCAGAATCAGGTAA
** *
170695922 CAGAATTTGAATCAGAATCAGTATCAGGTAA
1 CAGAATCAGAATCAGAATCAGAATCAGGTAA
* * *
170695953 CGGAATCAAAATTAGAAT
1 CAGAATCAGAATCAGAAT
170695971 GTGAATGCAA
Statistics
Matches: 39, Mismatches: 10, Indels: 0
0.80 0.20 0.00
Matches are distributed among these distances:
31 39 1.00
ACGTcount: A:0.45, C:0.12, G:0.20, T:0.23
Consensus pattern (31 bp):
CAGAATCAGAATCAGAATCAGAATCAGGTAA
Found at i:170696137 original size:27 final size:26
Alignment explanation
Indices: 170696089--170696148 Score: 66
Period size: 27 Copynumber: 2.3 Consensus size: 26
170696079 GCGAGGCTGC
* *
170696089 CAGATATTGTGACGAAGTCACCAGATA
1 CAGATATTGTGACGAAGCCACCA-AAA
* * *
170696116 CAGATATTGTGGCTAGGCCACCAAAA
1 CAGATATTGTGACGAAGCCACCAAAA
170696142 CAGATAT
1 CAGATAT
170696149 ATATATGTGG
Statistics
Matches: 28, Mismatches: 5, Indels: 1
0.82 0.15 0.03
Matches are distributed among these distances:
26 9 0.32
27 19 0.68
ACGTcount: A:0.37, C:0.20, G:0.22, T:0.22
Consensus pattern (26 bp):
CAGATATTGTGACGAAGCCACCAAAA
Found at i:170696191 original size:71 final size:67
Alignment explanation
Indices: 170696116--170696255 Score: 172
Period size: 67 Copynumber: 2.0 Consensus size: 67
170696106 TCACCAGATA
* * * *
170696116 CAGATATTGTGGCTAGGCCACCAAAACAGATATATATATGTGGCGAAGCCACCAAATTGTAGCGA
1 CAGATATTGTGACGAAGCCACCAAAACAG--ATAT-T-TGTGGCGAAGCCACCAAATTGCAGCGA
170696181 GGCTGC
62 GGCTGC
* * * *
170696187 CAGATATTGTGACGAAGTCACCAGAACAGATATTTGTGGCGAGGCCACCAGATTGCAGCGAGGCT
1 CAGATATTGTGACGAAGCCACCAAAACAGATATTTGTGGCGAAGCCACCAAATTGCAGCGAGGCT
170696252 GC
66 GC
170696254 CA
1 CA
170696256 AATGCTTCCT
Statistics
Matches: 61, Mismatches: 8, Indels: 4
0.84 0.11 0.05
Matches are distributed among these distances:
67 32 0.52
68 1 0.02
69 4 0.07
71 24 0.39
ACGTcount: A:0.31, C:0.22, G:0.27, T:0.20
Consensus pattern (67 bp):
CAGATATTGTGACGAAGCCACCAAAACAGATATTTGTGGCGAAGCCACCAAATTGCAGCGAGGCT
GC
Found at i:170696235 original size:27 final size:26
Alignment explanation
Indices: 170696187--170696238 Score: 68
Period size: 27 Copynumber: 2.0 Consensus size: 26
170696177 GCGAGGCTGC
*
170696187 CAGATATTGTGACGAAGTCACCAGAA
1 CAGATATTGTGACGAAGCCACCAGAA
* *
170696213 CAGATATTTGTGGCGAGGCCACCAGA
1 CAGATA-TTGTGACGAAGCCACCAGA
170696239 TTGCAGCGAG
Statistics
Matches: 22, Mismatches: 3, Indels: 1
0.85 0.12 0.04
Matches are distributed among these distances:
26 6 0.27
27 16 0.73
ACGTcount: A:0.33, C:0.21, G:0.27, T:0.19
Consensus pattern (26 bp):
CAGATATTGTGACGAAGCCACCAGAA
Found at i:170696532 original size:27 final size:26
Alignment explanation
Indices: 170696499--170696729 Score: 266
Period size: 27 Copynumber: 8.7 Consensus size: 26
170696489 TTACTGCACA
* *
170696499 AGGGTATCTCGGTAATTCTACCTTAC
1 AGGGTATTTCGGTAATTCTACCCTAC
**
170696525 AGGAGTATTTTAGTAATTCTACCCTAC
1 AGG-GTATTTCGGTAATTCTACCCTAC
* *
170696552 AGGGGTATTTCAGTATTTCTACCCTAC
1 A-GGGTATTTCGGTAATTCTACCCTAC
170696579 AAGGGTATTTCGGTAATTCTA-CCTAC
1 -AGGGTATTTCGGTAATTCTACCCTAC
**
170696605 AGGGGTATTTTAGTAATTCTACCCTAC
1 A-GGGTATTTCGGTAATTCTACCCTAC
*
170696632 AAGGGTATTTCGGTATTTCTACCCTAC
1 -AGGGTATTTCGGTAATTCTACCCTAC
*
170696659 AGGGTATTTCGGTATTTCTACCCTAC
1 AGGGTATTTCGGTAATTCTACCCTAC
* * *
170696685 AAGGGTATTTCAGCATTTCTACCCTAC
1 -AGGGTATTTCGGTAATTCTACCCTAC
*
170696712 AAGGGTATTTCGATAATT
1 -AGGGTATTTCGGTAATT
170696730 TTGTAAATTG
Statistics
Matches: 179, Mismatches: 19, Indels: 13
0.85 0.09 0.06
Matches are distributed among these distances:
25 1 0.01
26 51 0.28
27 123 0.69
28 4 0.02
ACGTcount: A:0.25, C:0.20, G:0.18, T:0.36
Consensus pattern (26 bp):
AGGGTATTTCGGTAATTCTACCCTAC
Found at i:170696627 original size:53 final size:54
Alignment explanation
Indices: 170696500--170696722 Score: 290
Period size: 53 Copynumber: 4.2 Consensus size: 54
170696490 TACTGCACAA
* * * *
170696500 GGGTATCTCGGTAATTCTACCTTAC-AGGAGTATTTTAGTAATTCTACCCTACAG
1 GGGTATTTCAGTAATTCTACCCTACAAGG-GTATTTCAGTAATTCTACCCTACAG
* *
170696554 GGGTATTTCAGTATTTCTACCCTACAAGGGTATTTCGGTAATTCTA-CCTACAG
1 GGGTATTTCAGTAATTCTACCCTACAAGGGTATTTCAGTAATTCTACCCTACAG
* * *
170696607 GGGTATTTTAGTAATTCTACCCTACAAGGGTATTTCGGTATTTCTACCCTACA-
1 GGGTATTTCAGTAATTCTACCCTACAAGGGTATTTCAGTAATTCTACCCTACAG
* * * * *
170696660 GGGTATTTCGGTATTTCTACCCTACAAGGGTATTTCAGCATTTCTACCCTACAA
1 GGGTATTTCAGTAATTCTACCCTACAAGGGTATTTCAGTAATTCTACCCTACAG
170696714 GGGTATTTC
1 GGGTATTTC
170696723 GATAATTTTG
Statistics
Matches: 152, Mismatches: 14, Indels: 6
0.88 0.08 0.03
Matches are distributed among these distances:
53 98 0.64
54 51 0.34
55 3 0.02
ACGTcount: A:0.24, C:0.21, G:0.18, T:0.36
Consensus pattern (54 bp):
GGGTATTTCAGTAATTCTACCCTACAAGGGTATTTCAGTAATTCTACCCTACAG
Found at i:170696638 original size:80 final size:80
Alignment explanation
Indices: 170696496--170696722 Score: 348
Period size: 80 Copynumber: 2.8 Consensus size: 80
170696486 ATTTTACTGC
* * *
170696496 ACAAGGGTATCTCGGTAATTCTACCTTACAGGAGTATTTTAGTAATTCTACCCTACAGGGGTATT
1 ACAAGGGTATTTCGGTAATTCTACC-TACAGGGGTATTTTAGTAATTCTACCCTACAAGGGTATT
170696561 TCAGTATTTCTACCCT
65 TCAGTATTTCTACCCT
170696577 ACAAGGGTATTTCGGTAATTCTACCTACAGGGGTATTTTAGTAATTCTACCCTACAAGGGTATTT
1 ACAAGGGTATTTCGGTAATTCTACCTACAGGGGTATTTTAGTAATTCTACCCTACAAGGGTATTT
*
170696642 CGGTATTTCTACCCT
66 CAGTATTTCTACCCT
* * * * *
170696657 AC-AGGGTATTTCGGTATTTCTACCCTACAAGGGTATTTCAGCATTTCTACCCTACAAGGGTATT
1 ACAAGGGTATTTCGGTAATTCTA-CCTACAGGGGTATTTTAGTAATTCTACCCTACAAGGGTATT
170696721 TC
65 TC
170696723 GATAATTTTG
Statistics
Matches: 136, Mismatches: 9, Indels: 3
0.92 0.06 0.02
Matches are distributed among these distances:
79 19 0.14
80 93 0.68
81 24 0.18
ACGTcount: A:0.25, C:0.21, G:0.18, T:0.36
Consensus pattern (80 bp):
ACAAGGGTATTTCGGTAATTCTACCTACAGGGGTATTTTAGTAATTCTACCCTACAAGGGTATTT
CAGTATTTCTACCCT
Found at i:170696931 original size:134 final size:135
Alignment explanation
Indices: 170696774--170697058 Score: 299
Period size: 134 Copynumber: 2.1 Consensus size: 135
170696764 TCAAAGGTAC
* ** *
170696774 TTTGGTAA-TTTACAAGTCGAGGGTATTTCAATAATTTTACAGGCCGA-GGGTA-TTTCAGTGAT
1 TTTGGTAATTTTACAAATCGAGGGTATTTCAATAATTTTACA-AACGAGGGGTACTTT-AGTAAT
** * *
170696836 TTCACAAATTAGGGGTATTTTGGTAATTTTACAAACTAGGGGTATTTTGATAATTTTACAAACCA
64 TTCACAAACCAAGGGTATTTTGGTAATTTTACAAACCAGGGGTATTTTGATAATTTTACAAACCA
*
170696901 GGGGCAT
129 AGGGCAT
* *** * * *
170696908 TTTGGTAATTTTACAAAT-TAGGGTATTTTGGTAATTTTATAAACTAGGGGTACTTTGGTAATTT
1 TTTGGTAATTTTACAAATCGAGGGTATTTCAATAATTTTACAAACGAGGGGTACTTTAGTAATTT
*** * * *
170696972 TGTAAACCAAGGGTATTTTGGTAATTTTACAAACCAGGGGTATTTTGGTGATTTTATAAACCAAG
66 CACAAACCAAGGGTATTTTGGTAATTTTACAAACCAGGGGTATTTTGATAATTTTACAAACCAAG
*
170697037 GGTAT
131 GGCAT
* *
170697042 TTTAGTACTTTTACAAA
1 TTTGGTAATTTTACAAA
170697059 CCAGGGGTAT
Statistics
Matches: 123, Mismatches: 25, Indels: 6
0.80 0.16 0.04
Matches are distributed among these distances:
133 2 0.02
134 110 0.89
135 11 0.09
ACGTcount: A:0.30, C:0.09, G:0.21, T:0.39
Consensus pattern (135 bp):
TTTGGTAATTTTACAAATCGAGGGTATTTCAATAATTTTACAAACGAGGGGTACTTTAGTAATTT
CACAAACCAAGGGTATTTTGGTAATTTTACAAACCAGGGGTATTTTGATAATTTTACAAACCAAG
GGCAT
Found at i:170697086 original size:27 final size:27
Alignment explanation
Indices: 170696846--170697079 Score: 317
Period size: 27 Copynumber: 8.7 Consensus size: 27
170696836 TTCACAAATT
*
170696846 AGGGGTATTTTGGTAATTTTACAAACT
1 AGGGGTATTTTGGTAATTTTACAAACC
*
170696873 AGGGGTATTTTGATAATTTTACAAACC
1 AGGGGTATTTTGGTAATTTTACAAACC
* **
170696900 AGGGGCATTTTGGTAATTTTACAAATT
1 AGGGGTATTTTGGTAATTTTACAAACC
* *
170696927 A-GGGTATTTTGGTAATTTTATAAACT
1 AGGGGTATTTTGGTAATTTTACAAACC
* **
170696953 AGGGGTACTTTGGTAATTTTGTAAACC
1 AGGGGTATTTTGGTAATTTTACAAACC
*
170696980 AAGGGTATTTTGGTAATTTTACAAACC
1 AGGGGTATTTTGGTAATTTTACAAACC
* *
170697007 AGGGGTATTTTGGTGATTTTATAAACC
1 AGGGGTATTTTGGTAATTTTACAAACC
* * *
170697034 AAGGGTATTTTAGTACTTTTACAAACC
1 AGGGGTATTTTGGTAATTTTACAAACC
170697061 AGGGGTATTTTGGTAATTT
1 AGGGGTATTTTGGTAATTT
170697080 GGTAAACTAA
Statistics
Matches: 179, Mismatches: 27, Indels: 2
0.86 0.13 0.01
Matches are distributed among these distances:
26 23 0.13
27 156 0.87
ACGTcount: A:0.29, C:0.09, G:0.22, T:0.40
Consensus pattern (27 bp):
AGGGGTATTTTGGTAATTTTACAAACC
Found at i:170697095 original size:107 final size:105
Alignment explanation
Indices: 170696820--170697095 Score: 327
Period size: 107 Copynumber: 2.6 Consensus size: 105
170696810 TTACAGGCCG
* * * ** *
170696820 AGGGTATTTCAGTGATTTCACAAATTAGGGGTATTTTGGTAATTTTACAAACTAGGGGTATTTTG
1 AGGGTATTTTAGT-ATTTTACAAACTAGGGGTATTTTGGTAATTTTGTAAACTA-AGGTATTTTG
**
170696885 ATAATTTTACAAACCAGGGGCATTTTGGTAATTTTACAAATT
64 ATAATTTTACAAACCAGGGGCATTTTGGTAATTTTACAAACA
* * * *
170696927 AGGGTATTTTGGTAATTTTATAAACTAGGGGTACTTTGGTAATTTTGTAAACCAAGGGTATTTTG
1 AGGGTATTTTAGT-ATTTTACAAACTAGGGGTATTTTGGTAATTTTGTAAACTAA-GGTATTTTG
* * * *
170696992 GTAATTTTACAAACCAGGGGTATTTTGGTGATTTTATAAACCA
64 ATAATTTTACAAACCAGGGGCATTTTGGTAATTTTACAAA-CA
* * *
170697035 AGGGTATTTTAGTACTTTTACAAACCAGGGGTATTTTGGTAATTTGGTAAACTAAAGTATT
1 AGGGTATTTTAGTA-TTTTACAAACTAGGGGTATTTTGGTAATTTTGTAAACTAAGGTATT
170697096 CTAAACAGGG
Statistics
Matches: 142, Mismatches: 24, Indels: 6
0.83 0.14 0.03
Matches are distributed among these distances:
107 95 0.67
108 47 0.33
ACGTcount: A:0.30, C:0.09, G:0.21, T:0.39
Consensus pattern (105 bp):
AGGGTATTTTAGTATTTTACAAACTAGGGGTATTTTGGTAATTTTGTAAACTAAGGTATTTTGAT
AATTTTACAAACCAGGGGCATTTTGGTAATTTTACAAACA
Found at i:170698427 original size:26 final size:26
Alignment explanation
Indices: 170698398--170698450 Score: 106
Period size: 26 Copynumber: 2.0 Consensus size: 26
170698388 ATAGGCGAAA
170698398 AGCTAAAACTTTGTTAAAAATTATTT
1 AGCTAAAACTTTGTTAAAAATTATTT
170698424 AGCTAAAACTTTGTTAAAAATTATTT
1 AGCTAAAACTTTGTTAAAAATTATTT
170698450 A
1 A
170698451 AGTCCTAATT
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
26 27 1.00
ACGTcount: A:0.43, C:0.08, G:0.08, T:0.42
Consensus pattern (26 bp):
AGCTAAAACTTTGTTAAAAATTATTT
Found at i:170700358 original size:20 final size:20
Alignment explanation
Indices: 170700333--170700377 Score: 63
Period size: 20 Copynumber: 2.2 Consensus size: 20
170700323 AGGGGCTAAA
* *
170700333 ATGAAAAGTTGTAAAATTTG
1 ATGAAAAATTCTAAAATTTG
*
170700353 ATGAAAAATTCTAAAATTTT
1 ATGAAAAATTCTAAAATTTG
170700373 ATGAA
1 ATGAA
170700378 TACATGTGTT
Statistics
Matches: 22, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
20 22 1.00
ACGTcount: A:0.49, C:0.02, G:0.13, T:0.36
Consensus pattern (20 bp):
ATGAAAAATTCTAAAATTTG
Found at i:170702078 original size:13 final size:13
Alignment explanation
Indices: 170702062--170702086 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
170702052 ATGGCTGTGT
170702062 GGCATGGCCATGA
1 GGCATGGCCATGA
170702075 GGCATGGCCATG
1 GGCATGGCCATG
170702087 TGTGCAAGTC
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:0.20, C:0.24, G:0.40, T:0.16
Consensus pattern (13 bp):
GGCATGGCCATGA
Found at i:170703517 original size:37 final size:37
Alignment explanation
Indices: 170703464--170703585 Score: 226
Period size: 37 Copynumber: 3.3 Consensus size: 37
170703454 TATAAAAGAA
*
170703464 GTCTTACCCGGACATAATCTCCACACGTAGTCATCGG
1 GTCTTACCCGGTCATAATCTCCACACGTAGTCATCGG
170703501 GTCTTACCCGGTCATAATCTCCACACGTAGTCATCGG
1 GTCTTACCCGGTCATAATCTCCACACGTAGTCATCGG
170703538 GTCTTACCCGGTCATAATCTCCACACGTAGTCATCGG
1 GTCTTACCCGGTCATAATCTCCACACGTAGTCATCGG
*
170703575 GTCTCACCCGG
1 GTCTTACCCGG
170703586 AACATATTCC
Statistics
Matches: 83, Mismatches: 2, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
37 83 1.00
ACGTcount: A:0.21, C:0.34, G:0.20, T:0.25
Consensus pattern (37 bp):
GTCTTACCCGGTCATAATCTCCACACGTAGTCATCGG
Found at i:170703742 original size:49 final size:49
Alignment explanation
Indices: 170703687--170703901 Score: 358
Period size: 49 Copynumber: 4.4 Consensus size: 49
170703677 TTTTACATTA
170703687 GCCATTAGGCCTTATCACATATACATACACTTTCACATTCACCACATCG
1 GCCATTAGGCCTTATCACATATACATACACTTTCACATTCACCACATCG
*
170703736 GCCATTAGGCCTTATCACATGTACATACACTTTCACATTCACCACATCG
1 GCCATTAGGCCTTATCACATATACATACACTTTCACATTCACCACATCG
* *
170703785 GCCATTAGGCCTCATCACATATACATACACTTTCACATTCATCACATCG
1 GCCATTAGGCCTTATCACATATACATACACTTTCACATTCACCACATCG
* * * *
170703834 GCCATTAGGCCTCATCACATATACATACACTTTCACATTCATCGCATTG
1 GCCATTAGGCCTTATCACATATACATACACTTTCACATTCACCACATCG
*
170703883 GCCATTCGGCCTTATCACA
1 GCCATTAGGCCTTATCACA
170703902 CATATATGTA
Statistics
Matches: 158, Mismatches: 8, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
49 158 1.00
ACGTcount: A:0.29, C:0.33, G:0.10, T:0.29
Consensus pattern (49 bp):
GCCATTAGGCCTTATCACATATACATACACTTTCACATTCACCACATCG
Found at i:170708304 original size:42 final size:42
Alignment explanation
Indices: 170708241--170708348 Score: 103
Period size: 43 Copynumber: 2.5 Consensus size: 42
170708231 CATGATTTAT
* * * *
170708241 ATGTAAGACCATGTCTAGGACATCGACATC-ATATTTGATTTC
1 ATGTAAGACCCTATCTGGGACAT-GACATCGATATTTGATTAC
* * *
170708283 GTGTAAGACCCTATCTGGGACAGTGGCATCGGTATTTGATTAC
1 ATGTAAGACCCTATCTGGGACA-TGACATCGATATTTGATTAC
*
170708326 ATGTAAGAACAC-ATCTGGGACAT
1 ATGTAAG-ACCCTATCTGGGACAT
170708349 TGGCATTGTA
Statistics
Matches: 54, Mismatches: 9, Indels: 6
0.78 0.13 0.09
Matches are distributed among these distances:
42 24 0.44
43 27 0.50
44 3 0.06
ACGTcount: A:0.30, C:0.19, G:0.22, T:0.30
Consensus pattern (42 bp):
ATGTAAGACCCTATCTGGGACATGACATCGATATTTGATTAC
Found at i:170708319 original size:43 final size:43
Alignment explanation
Indices: 170708272--170708354 Score: 114
Period size: 43 Copynumber: 1.9 Consensus size: 43
170708262 ATCGACATCA
* * *
170708272 TATTTGATTTCGTGTAAG-ACCCTATCTGGGACAGTGGCATCGG
1 TATTTGATTACATGTAAGAACAC-ATCTGGGACAGTGGCATCGG
*
170708315 TATTTGATTACATGTAAGAACACATCTGGGACATTGGCAT
1 TATTTGATTACATGTAAGAACACATCTGGGACAGTGGCAT
170708355 TGTACGAGCT
Statistics
Matches: 35, Mismatches: 4, Indels: 2
0.85 0.10 0.05
Matches are distributed among these distances:
43 32 0.91
44 3 0.09
ACGTcount: A:0.27, C:0.17, G:0.24, T:0.33
Consensus pattern (43 bp):
TATTTGATTACATGTAAGAACACATCTGGGACAGTGGCATCGG
Found at i:170714369 original size:33 final size:33
Alignment explanation
Indices: 170714327--170714392 Score: 132
Period size: 33 Copynumber: 2.0 Consensus size: 33
170714317 TCACATTGAG
170714327 CATTAGCATCGTACCATTTAGGGAACGGAGGCT
1 CATTAGCATCGTACCATTTAGGGAACGGAGGCT
170714360 CATTAGCATCGTACCATTTAGGGAACGGAGGCT
1 CATTAGCATCGTACCATTTAGGGAACGGAGGCT
170714393 GCAATGGCTT
Statistics
Matches: 33, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
33 33 1.00
ACGTcount: A:0.27, C:0.21, G:0.27, T:0.24
Consensus pattern (33 bp):
CATTAGCATCGTACCATTTAGGGAACGGAGGCT
Found at i:170720823 original size:40 final size:40
Alignment explanation
Indices: 170720779--170720957 Score: 207
Period size: 40 Copynumber: 4.5 Consensus size: 40
170720769 GCTCGATTGT
* * * *
170720779 CTTCGGGACATT-GCCCGGTTATAGTGATTCGCACAATTGC
1 CTTCGGGAC-TTAGCCCGGTTTTAGTAACTCGCACAAATGC
* * *
170720819 CTTCGGGAATTAGCCCGGATTTAGTAACTCGCACGAATGC
1 CTTCGGGACTTAGCCCGGTTTTAGTAACTCGCACAAATGC
* *
170720859 CTTCGGGACTTAACCCGGTTTTGGTAACTCGCACAAATGC
1 CTTCGGGACTTAGCCCGGTTTTAGTAACTCGCACAAATGC
* * * * *
170720899 CTTCGGAACTTAACCCGGTTTTAGTCACTTAGCACAAAAGC
1 CTTCGGGACTTAGCCCGGTTTTAGTAAC-TCGCACAAATGC
170720940 CTTCGGGACTTAGCCCGG
1 CTTCGGGACTTAGCCCGG
170720958 ATACCATTCG
Statistics
Matches: 118, Mismatches: 19, Indels: 3
0.84 0.14 0.02
Matches are distributed among these distances:
39 2 0.02
40 90 0.76
41 26 0.22
ACGTcount: A:0.23, C:0.27, G:0.23, T:0.27
Consensus pattern (40 bp):
CTTCGGGACTTAGCCCGGTTTTAGTAACTCGCACAAATGC
Found at i:170731087 original size:2 final size:2
Alignment explanation
Indices: 170731080--170731106 Score: 54
Period size: 2 Copynumber: 13.5 Consensus size: 2
170731070 AATTTGTTAA
170731080 AT AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT A
170731107 AATTTTGGTT
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 25 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:170731255 original size:29 final size:29
Alignment explanation
Indices: 170731223--170731278 Score: 85
Period size: 29 Copynumber: 1.9 Consensus size: 29
170731213 AAATACACCA
* * *
170731223 ATTTATTTTTATATTAAATAAATATAATT
1 ATTTATTTATACAATAAATAAATATAATT
170731252 ATTTATTTATACAATAAATAAATATAA
1 ATTTATTTATACAATAAATAAATATAA
170731279 AAGAATGTAT
Statistics
Matches: 24, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
29 24 1.00
ACGTcount: A:0.50, C:0.02, G:0.00, T:0.48
Consensus pattern (29 bp):
ATTTATTTATACAATAAATAAATATAATT
Found at i:170731812 original size:17 final size:17
Alignment explanation
Indices: 170731790--170731840 Score: 57
Period size: 20 Copynumber: 2.8 Consensus size: 17
170731780 ATCTATATAT
170731790 TTATTTAATTAAAAATA
1 TTATTTAATTAAAAATA
* *
170731807 TTATTTAATTTTAAATATTT
1 TTATTTAA--TTAAA-AATA
170731827 TTATTTAATTAAAA
1 TTATTTAATTAAAA
170731841 TATCACATGT
Statistics
Matches: 29, Mismatches: 2, Indels: 6
0.78 0.05 0.16
Matches are distributed among these distances:
17 9 0.31
18 5 0.17
19 5 0.17
20 10 0.34
ACGTcount: A:0.45, C:0.00, G:0.00, T:0.55
Consensus pattern (17 bp):
TTATTTAATTAAAAATA
Found at i:170731834 original size:14 final size:17
Alignment explanation
Indices: 170731790--170731829 Score: 55
Period size: 17 Copynumber: 2.4 Consensus size: 17
170731780 ATCTATATAT
**
170731790 TTATTTAATTAAAAATA
1 TTATTTAATTTTAAATA
170731807 TTATTTAATTTTAAATA
1 TTATTTAATTTTAAATA
170731824 TT-TTTA
1 TTATTTA
170731830 TTTAATTAAA
Statistics
Matches: 21, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
16 4 0.19
17 17 0.81
ACGTcount: A:0.42, C:0.00, G:0.00, T:0.57
Consensus pattern (17 bp):
TTATTTAATTTTAAATA
Found at i:170742688 original size:29 final size:28
Alignment explanation
Indices: 170742656--170742758 Score: 116
Period size: 29 Copynumber: 3.6 Consensus size: 28
170742646 GTGACGAGAT
* *
170742656 TGGCACTGAGTGTGCGAGCTTGTAATGTA
1 TGGCACTAAGTGTGCGAGCTTG-AATATA
* *
170742685 TGGCACTAAGTGTGCGAGTTTGGACTATA
1 TGGCACTAAGTGTGCGAGCTT-GAATATA
* * *
170742714 TGGCACTATGTGTGCGGGCTTGAATCACA
1 TGGCACTAAGTGTGCGAGCTTGAAT-ATA
170742743 TGGCACTAAGTGTGCG
1 TGGCACTAAGTGTGCG
170742759 TGATTGAGTA
Statistics
Matches: 62, Mismatches: 10, Indels: 4
0.82 0.13 0.05
Matches are distributed among these distances:
28 3 0.05
29 58 0.94
30 1 0.02
ACGTcount: A:0.21, C:0.17, G:0.33, T:0.29
Consensus pattern (28 bp):
TGGCACTAAGTGTGCGAGCTTGAATATA
Found at i:170748179 original size:93 final size:93
Alignment explanation
Indices: 170748067--170748238 Score: 317
Period size: 93 Copynumber: 1.8 Consensus size: 93
170748057 CGCCCATAAG
* *
170748067 CGAACTCGGACTCAACTCAACGAGCTCGGGCGTTCGCATCCATAAGTGAACTCGGACTCAACTCA
1 CGAACTCGGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCA
170748132 ACGAGTTCGGATGCCTAGTTACATCTCA
66 ACGAGTTCGGATGCCTAGTTACATCTCA
*
170748160 CGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCA
1 CGAACTCGGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCA
170748225 ACGAGTTCGGATGC
66 ACGAGTTCGGATGC
170748239 TCAACCATCC
Statistics
Matches: 76, Mismatches: 3, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
93 76 1.00
ACGTcount: A:0.28, C:0.30, G:0.22, T:0.21
Consensus pattern (93 bp):
CGAACTCGGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCA
ACGAGTTCGGATGCCTAGTTACATCTCA
Found at i:170748235 original size:46 final size:46
Alignment explanation
Indices: 170748060--170748235 Score: 216
Period size: 46 Copynumber: 3.8 Consensus size: 46
170748050 TGTAACCCGC
* * *
170748060 CCATAAGCGAACTCGGACTCAACTCAACGAGCTCGGGCGTTCGCAT
1 CCATAAGCGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCAT
* *
170748106 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGATGCCTAGTT-ACAT
1 CCATAAGCGAACTCGGACTCAACTCAACGAGTTCGGA---C-A-TTCGCAT
*
170748156 -C-TCA-CGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCAT
1 CCATAAGCGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCAT
*
170748199 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGA
1 CCATAAGCGAACTCGGACTCAACTCAACGAGTTCGGA
170748236 TGCTCAACCA
Statistics
Matches: 111, Mismatches: 10, Indels: 18
0.80 0.07 0.13
Matches are distributed among these distances:
42 2 0.02
43 4 0.04
44 2 0.02
45 2 0.02
46 63 0.57
47 29 0.26
48 2 0.02
49 2 0.02
50 3 0.03
51 2 0.02
ACGTcount: A:0.29, C:0.30, G:0.21, T:0.20
Consensus pattern (46 bp):
CCATAAGCGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCAT
Found at i:170764507 original size:40 final size:40
Alignment explanation
Indices: 170764423--170764572 Score: 139
Period size: 40 Copynumber: 3.8 Consensus size: 40
170764413 AAATTGAATG
* * *
170764423 ATATCCGGGCTAAG-CCCGAAGACAATATGCTG-GA--AATT
1 ATATCCGGGCTAAGACCCGAAGGCAAT-TG-TGCGAGTGACT
* * *
170764461 ATATCCGGGTTAAGACCCGAAGGCAATTGTGCTAGTGGCT
1 ATATCCGGGCTAAGACCCGAAGGCAATTGTGCGAGTGACT
* * *
170764501 ATATCCGGGCTAAGGCCCGAAGGC-ATTCGTGCGAGTTATT
1 ATATCCGGGCTAAGACCCGAAGGCAATT-GTGCGAGTGACT
* *
170764541 CTATCCGGGCTAAGACCCGAAGGCATTTGTGC
1 ATATCCGGGCTAAGACCCGAAGGCAATTGTGC
170764573 ACGTGATTAA
Statistics
Matches: 91, Mismatches: 15, Indels: 10
0.78 0.13 0.09
Matches are distributed among these distances:
37 2 0.02
38 16 0.18
39 14 0.15
40 57 0.63
41 2 0.02
ACGTcount: A:0.26, C:0.23, G:0.28, T:0.23
Consensus pattern (40 bp):
ATATCCGGGCTAAGACCCGAAGGCAATTGTGCGAGTGACT
Found at i:170765990 original size:29 final size:29
Alignment explanation
Indices: 170765948--170766019 Score: 90
Period size: 29 Copynumber: 2.5 Consensus size: 29
170765938 GGGTGTTACA
* * *
170765948 CACACATAGTGCCATATAGTCCAAACTCG
1 CACACTTAGTGCCATACAGTACAAACTCG
* *
170765977 CACACTTAGTGCCATACATTACAAGCTCG
1 CACACTTAGTGCCATACAGTACAAACTCG
*
170766006 CACACTCAGTGCCA
1 CACACTTAGTGCCA
170766020 ATCTCGTCAC
Statistics
Matches: 37, Mismatches: 6, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
29 37 1.00
ACGTcount: A:0.32, C:0.33, G:0.14, T:0.21
Consensus pattern (29 bp):
CACACTTAGTGCCATACAGTACAAACTCG
Found at i:170769319 original size:43 final size:43
Alignment explanation
Indices: 170769258--170769416 Score: 139
Period size: 43 Copynumber: 3.7 Consensus size: 43
170769248 TAAGCTCGTA
* * * *
170769258 CAATGCCAATTTCTCAGACATGGTCTTACATGTAATCTAATAT
1 CAATGCCACTGTCCCAGACATGGTCTTACACGTAATCTAATAT
* * *
170769301 CAATGCTACTGTCCCAGACAGGGTCTTACACGAAATC--ATAT
1 CAATGCCACTGTCCCAGACATGGTCTTACACGTAATCTAATAT
* *
170769342 ACGATGCCAATGTCCCA-AGCATGGTCTTACACGTAAATCATAA-AT
1 -CAATGCCACTGTCCCAGA-CATGGTCTTACACGT-AATC-TAATAT
**
170769387 CAATGCCACCT-TCCCAGATGTGGTCTTACA
1 CAATGCCA-CTGTCCCAGACATGGTCTTACA
170769417 TGATAACACA
Statistics
Matches: 92, Mismatches: 16, Indels: 15
0.75 0.13 0.12
Matches are distributed among these distances:
41 5 0.05
42 26 0.28
43 34 0.37
44 22 0.24
45 4 0.04
46 1 0.01
ACGTcount: A:0.31, C:0.26, G:0.15, T:0.28
Consensus pattern (43 bp):
CAATGCCACTGTCCCAGACATGGTCTTACACGTAATCTAATAT
Found at i:170770401 original size:20 final size:20
Alignment explanation
Indices: 170770350--170770401 Score: 86
Period size: 20 Copynumber: 2.6 Consensus size: 20
170770340 ATTTATTTCT
*
170770350 TATTAATATACATTTTACTA
1 TATTAATATACCTTTTACTA
*
170770370 TATTAATATACCTTTTAGTA
1 TATTAATATACCTTTTACTA
170770390 TATTAATATACC
1 TATTAATATACC
170770402 ATATAACATA
Statistics
Matches: 30, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
20 30 1.00
ACGTcount: A:0.38, C:0.12, G:0.02, T:0.48
Consensus pattern (20 bp):
TATTAATATACCTTTTACTA
Found at i:170771929 original size:39 final size:39
Alignment explanation
Indices: 170771886--170771974 Score: 124
Period size: 39 Copynumber: 2.3 Consensus size: 39
170771876 ATTCACTTTT
* * *
170771886 AAGCATATATCACATTACACATATAATTACATAATGTTG
1 AAGCATATATCACAATACACATATAATCACATAATGTTC
* * *
170771925 AAGCACATATCACAATACTCATATAATCGCATAATGTTC
1 AAGCATATATCACAATACACATATAATCACATAATGTTC
170771964 AAGCATATATC
1 AAGCATATATC
170771975 GATATACTCA
Statistics
Matches: 43, Mismatches: 7, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
39 43 1.00
ACGTcount: A:0.43, C:0.19, G:0.08, T:0.30
Consensus pattern (39 bp):
AAGCATATATCACAATACACATATAATCACATAATGTTC
Found at i:170771982 original size:39 final size:38
Alignment explanation
Indices: 170771886--170771984 Score: 108
Period size: 39 Copynumber: 2.5 Consensus size: 38
170771876 ATTCACTTTT
* * * *
170771886 AAGCATATATCACATTACACATATAATTACATAATGTTG
1 AAGCATATATCA-AATACTCATATAATCACATAATGTTC
* *
170771925 AAGCACATATCACAATACTCATATAATCGCATAATGTTC
1 AAGCATATATCA-AATACTCATATAATCACATAATGTTC
*
170771964 AAGCATATATCGATATACTCA
1 AAGCATATATC-AAATACTCA
170771985 AAAACATGTT
Statistics
Matches: 51, Mismatches: 8, Indels: 2
0.84 0.13 0.03
Matches are distributed among these distances:
39 50 0.98
40 1 0.02
ACGTcount: A:0.42, C:0.19, G:0.08, T:0.30
Consensus pattern (38 bp):
AAGCATATATCAAATACTCATATAATCACATAATGTTC
Found at i:170777258 original size:3 final size:3
Alignment explanation
Indices: 170777250--170777290 Score: 73
Period size: 3 Copynumber: 13.7 Consensus size: 3
170777240 TGTATTGAAG
*
170777250 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAA TAT TA
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TA
170777291 AGAACAAGTC
Statistics
Matches: 36, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
3 36 1.00
ACGTcount: A:0.37, C:0.00, G:0.00, T:0.63
Consensus pattern (3 bp):
TAT
Found at i:170783934 original size:26 final size:26
Alignment explanation
Indices: 170783905--170784012 Score: 189
Period size: 26 Copynumber: 4.2 Consensus size: 26
170783895 TGATACAAAT
170783905 TGATAATGGGTTAGGTAAATGTTCCA
1 TGATAATGGGTTAGGTAAATGTTCCA
* *
170783931 TGATAATGGATTAGGTAAATATTCCA
1 TGATAATGGGTTAGGTAAATGTTCCA
170783957 TGATAATGGGTTAGGTAAATGTTCCA
1 TGATAATGGGTTAGGTAAATGTTCCA
*
170783983 TGATAATGGTTTAGGTAAATGTTCCA
1 TGATAATGGGTTAGGTAAATGTTCCA
170784009 TGAT
1 TGAT
170784013 GGGAATTTCA
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:170815045 original size:45 final size:45
Alignment explanation
Indices: 170814994--170815310 Score: 145
Period size: 45 Copynumber: 7.1 Consensus size: 45
170814984 CTAGATAACT
*
170814994 GATAGCAGATTTGGCGTCTCTGTATTAGACGGGGAGCAGATCGAA
1 GATAGCAAATTTGGCGTCTCTGTATTAGACGGGGAGCAGATCGAA
* * * * * * * * *
170815039 GATAGCAGATCTGACAT-TCGTGTGTTTACATC--GAAGTAGATCAAA
1 GATAGCAAATTTGGCGTCTC-TGT-ATTAGA-CGGGGAGCAGATCGAA
* * * *
170815084 GAT-GACAAATTTGGTGTCTCTATATTAGACGGGGAGCATATTG-A
1 GATAG-CAAATTTGGCGTCTCTGTATTAGACGGGGAGCAGATCGAA
* * * * * * *
170815128 GATAGCAAATCTGACAT-TCGTGTGTTTACATC--GAAGCAGATCAAA
1 GATAGCAAATTTGGCGTCTC-TGT-ATTAGA-CGGGGAGCAGATCGAA
* *
170815173 GAT-GACAGATTTGGCGTCTCTGTATTAGACGGGGAGCAGATCGAG
1 GATAG-CAAATTTGGCGTCTCTGTATTAGACGGGGAGCAGATCGAA
* * * * * * ** *
170815218 GATAGCAAATTTGACATTTGTGTGTT-TACATAGAAGCAGATCGAA
1 GATAGCAAATTTGGCGTCTCTGTATTAGAC-GGGGAGCAGATCGAA
* *
170815263 GAT-GATAAATTTGGCGTCTCTGTATTA-AGCGGGGAGCAGATCAAA
1 GATAG-CAAATTTGGCGTCTCTGTATTAGA-CGGGGAGCAGATCGAA
170815308 GAT
1 GAT
170815311 TTCAGCATGG
Statistics
Matches: 189, Mismatches: 62, Indels: 42
0.65 0.21 0.14
Matches are distributed among these distances:
43 4 0.02
44 36 0.19
45 137 0.72
46 11 0.06
47 1 0.01
ACGTcount: A:0.31, C:0.14, G:0.27, T:0.28
Consensus pattern (45 bp):
GATAGCAAATTTGGCGTCTCTGTATTAGACGGGGAGCAGATCGAA
Found at i:170815265 original size:90 final size:89
Alignment explanation
Indices: 170815002--170815304 Score: 464
Period size: 90 Copynumber: 3.4 Consensus size: 89
170814992 CTGATAGCAG
*
170815002 ATTTGGCGTCTCTGTATTAGACGGGGAGCAGATCGAAGATAGCAGATCTGACATTCGTGTGTTTA
1 ATTTGGCGTCTCTGTATTAGACGGGGAGCAGATCG-AGATAGCAAATCTGACATTCGTGTGTTTA
*
170815067 CATCGAAGTAGATCAAAGATGACAA
65 CATCGAAGCAGATCAAAGATGACAA
* * * *
170815092 ATTTGGTGTCTCTATATTAGACGGGGAGCATATTGAGATAGCAAATCTGACATTCGTGTGTTTAC
1 ATTTGGCGTCTCTGTATTAGACGGGGAGCAGATCGAGATAGCAAATCTGACATTCGTGTGTTTAC
*
170815157 ATCGAAGCAGATCAAAGATGACAG
66 ATCGAAGCAGATCAAAGATGACAA
* *
170815181 ATTTGGCGTCTCTGTATTAGACGGGGAGCAGATCGAGGATAGCAAATTTGACATTTGTGTGTTTA
1 ATTTGGCGTCTCTGTATTAGACGGGGAGCAGATCGA-GATAGCAAATCTGACATTCGTGTGTTTA
* * *
170815246 CATAGAAGCAGATCGAAGATGATAA
65 CATCGAAGCAGATCAAAGATGACAA
170815271 ATTTGGCGTCTCTGTATTA-AGCGGGGAGCAGATC
1 ATTTGGCGTCTCTGTATTAGA-CGGGGAGCAGATC
170815305 AAAGATTTCA
Statistics
Matches: 194, Mismatches: 17, Indels: 4
0.90 0.08 0.02
Matches are distributed among these distances:
89 84 0.43
90 110 0.57
ACGTcount: A:0.30, C:0.15, G:0.27, T:0.28
Consensus pattern (89 bp):
ATTTGGCGTCTCTGTATTAGACGGGGAGCAGATCGAGATAGCAAATCTGACATTCGTGTGTTTAC
ATCGAAGCAGATCAAAGATGACAA
Found at i:170816892 original size:20 final size:20
Alignment explanation
Indices: 170816869--170816922 Score: 74
Period size: 20 Copynumber: 2.7 Consensus size: 20
170816859 TGTGTAAAAA
*
170816869 TTATTATAT-ATTATATCTTT
1 TTATTAT-TCATTATATCATT
170816889 TTATTATTCATTATATCATT
1 TTATTATTCATTATATCATT
*
170816909 TTATTATTAATTAT
1 TTATTATTCATTAT
170816923 TTATTATGTA
Statistics
Matches: 31, Mismatches: 2, Indels: 2
0.89 0.06 0.06
Matches are distributed among these distances:
19 1 0.03
20 30 0.97
ACGTcount: A:0.31, C:0.06, G:0.00, T:0.63
Consensus pattern (20 bp):
TTATTATTCATTATATCATT
Found at i:170817578 original size:19 final size:19
Alignment explanation
Indices: 170817554--170817610 Score: 100
Period size: 19 Copynumber: 3.1 Consensus size: 19
170817544 AGTATGCATC
170817554 ATGTAGTTTATATTATTTA
1 ATGTAGTTTATATTATTTA
170817573 ATGTAGTTTATATTATTTA
1 ATGTAGTTTATATTATTTA
170817592 ATGTAGTTTAT-TT-TTTA
1 ATGTAGTTTATATTATTTA
170817609 AT
1 AT
170817611 ACAAACTCAT
Statistics
Matches: 38, Mismatches: 0, Indels: 2
0.95 0.00 0.05
Matches are distributed among these distances:
17 6 0.16
18 2 0.05
19 30 0.79
ACGTcount: A:0.30, C:0.00, G:0.11, T:0.60
Consensus pattern (19 bp):
ATGTAGTTTATATTATTTA
Found at i:170819801 original size:14 final size:14
Alignment explanation
Indices: 170819782--170819809 Score: 56
Period size: 14 Copynumber: 2.0 Consensus size: 14
170819772 CACATGGCAA
170819782 GAGTTAGTAGAATG
1 GAGTTAGTAGAATG
170819796 GAGTTAGTAGAATG
1 GAGTTAGTAGAATG
170819810 ATTCTTTATG
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 14 1.00
ACGTcount: A:0.36, C:0.00, G:0.36, T:0.29
Consensus pattern (14 bp):
GAGTTAGTAGAATG
Found at i:170828535 original size:58 final size:56
Alignment explanation
Indices: 170828408--170828535 Score: 127
Period size: 58 Copynumber: 2.2 Consensus size: 56
170828398 GGATTACCAT
170828408 TCCTTTATATAACGTATGCTCAGAGGAGCTCAATTAGGATTACCAATCTAGGCTAAA
1 TCCTTTATATAACGTATGCTCAGAGGA-CTCAATTAGGATTACCAATCTAGGCTAAA
* * * * **
170828465 -CCCTAATCATAACGTATGCTCGAGAGGTA-TTATATTGGGATTACCCGTCT-GGCCTAAA
1 TCCTTTAT-ATAACGTATGCTC-AGAGG-ACTCA-ATTAGGATTACCAATCTAGG-CTAAA
170828523 TCCTTTATATAAC
1 TCCTTTATATAAC
170828536 AAGGTTAATG
Statistics
Matches: 57, Mismatches: 8, Indels: 11
0.75 0.11 0.14
Matches are distributed among these distances:
56 5 0.09
57 17 0.30
58 29 0.51
59 6 0.11
ACGTcount: A:0.30, C:0.21, G:0.17, T:0.31
Consensus pattern (56 bp):
TCCTTTATATAACGTATGCTCAGAGGACTCAATTAGGATTACCAATCTAGGCTAAA
Found at i:170828979 original size:15 final size:15
Alignment explanation
Indices: 170828956--170828989 Score: 59
Period size: 15 Copynumber: 2.3 Consensus size: 15
170828946 TTACTTGTGC
*
170828956 AAATTACTTTTCCAT
1 AAATAACTTTTCCAT
170828971 AAATAACTTTTCCAT
1 AAATAACTTTTCCAT
170828986 AAAT
1 AAAT
170828990 TCTGATTGTC
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
15 18 1.00
ACGTcount: A:0.41, C:0.18, G:0.00, T:0.41
Consensus pattern (15 bp):
AAATAACTTTTCCAT
Found at i:170829385 original size:2 final size:2
Alignment explanation
Indices: 170829378--170829416 Score: 69
Period size: 2 Copynumber: 19.5 Consensus size: 2
170829368 TGAATGTTTC
*
170829378 CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CA CT CT CT C
1 CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT C
170829417 ATAGGGTTTC
Statistics
Matches: 35, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
2 35 1.00
ACGTcount: A:0.03, C:0.51, G:0.00, T:0.46
Consensus pattern (2 bp):
CT
Found at i:170831153 original size:80 final size:80
Alignment explanation
Indices: 170831069--170831217 Score: 183
Period size: 80 Copynumber: 1.9 Consensus size: 80
170831059 TATGGTAACC
* * * *
170831069 CGCACCAAGGCCTACGGGACTTAACCCGGATATCA-CGATTTGCACAAATGCCTTCGGGTCTTAG
1 CGCACCAAGGCCTACGGGACTTAACCCGGATAT-AGCCACTAGCACAAATGCCTTCGGGTCTTAA
170831133 CCCGGATAGAATGACT
65 CCCGGATAGAATGACT
* * * * * * *
170831149 CGCACGAATGCCTTCGGGTCTTAGCCCGGATGTAGCCACTAGCACAATTGCCTTCGGGTCTTAAC
1 CGCACCAAGGCCTACGGGACTTAACCCGGATATAGCCACTAGCACAAATGCCTTCGGGTCTTAAC
170831214 CCGG
66 CCGG
170831218 TTATAATTTC
Statistics
Matches: 57, Mismatches: 11, Indels: 2
0.81 0.16 0.03
Matches are distributed among these distances:
79 1 0.02
80 56 0.98
ACGTcount: A:0.23, C:0.30, G:0.25, T:0.22
Consensus pattern (80 bp):
CGCACCAAGGCCTACGGGACTTAACCCGGATATAGCCACTAGCACAAATGCCTTCGGGTCTTAAC
CCGGATAGAATGACT
Found at i:170831159 original size:40 final size:38
Alignment explanation
Indices: 170831110--170831217 Score: 128
Period size: 40 Copynumber: 2.7 Consensus size: 38
170831100 ATCACGATTT
*
170831110 GCACAAATGCCTTCGGGTCTTAGCCCGGATAGAATG-ACTC
1 GCAC-AATGCCTTCGGGTCTTAGCCCGGAT-GAA-GCACTA
*
170831150 GCACGAATGCCTTCGGGTCTTAGCCCGGATGTAGCCACTA
1 GCAC-AATGCCTTCGGGTCTTAGCCCGGATGAAG-CACTA
*
170831190 GCACAATTGCCTTCGGGTCTTAACCCGG
1 GCACAA-TGCCTTCGGGTCTTAGCCCGG
170831218 TTATAATTTC
Statistics
Matches: 61, Mismatches: 4, Indels: 6
0.86 0.06 0.08
Matches are distributed among these distances:
38 1 0.02
39 4 0.07
40 56 0.92
ACGTcount: A:0.21, C:0.30, G:0.26, T:0.23
Consensus pattern (38 bp):
GCACAATGCCTTCGGGTCTTAGCCCGGATGAAGCACTA
Found at i:170839260 original size:80 final size:80
Alignment explanation
Indices: 170839176--170839324 Score: 183
Period size: 80 Copynumber: 1.9 Consensus size: 80
170839166 TATGGTAACC
* * * *
170839176 CGCACCAAGGCCTACGGGACTTAACCCGGATATCA-CGATTTGCACAAATGCCTTCGGGTCTTAG
1 CGCACCAAGGCCTACGGGACTTAACCCGGATAT-AGCCACTAGCACAAATGCCTTCGGGTCTTAA
170839240 CCCGGATAGAATGACT
65 CCCGGATAGAATGACT
* * * * * * *
170839256 CGCACGAATGCCTTCGGGTCTTAGCCCGGATGTAGCCACTAGCACAATTGCCTTCGGGTCTTAAC
1 CGCACCAAGGCCTACGGGACTTAACCCGGATATAGCCACTAGCACAAATGCCTTCGGGTCTTAAC
170839321 CCGG
66 CCGG
170839325 TTATAATTTC
Statistics
Matches: 57, Mismatches: 11, Indels: 2
0.81 0.16 0.03
Matches are distributed among these distances:
79 1 0.02
80 56 0.98
ACGTcount: A:0.23, C:0.30, G:0.25, T:0.22
Consensus pattern (80 bp):
CGCACCAAGGCCTACGGGACTTAACCCGGATATAGCCACTAGCACAAATGCCTTCGGGTCTTAAC
CCGGATAGAATGACT
Found at i:170839266 original size:40 final size:38
Alignment explanation
Indices: 170839217--170839324 Score: 128
Period size: 40 Copynumber: 2.7 Consensus size: 38
170839207 ATCACGATTT
*
170839217 GCACAAATGCCTTCGGGTCTTAGCCCGGATAGAATG-ACTC
1 GCAC-AATGCCTTCGGGTCTTAGCCCGGAT-GAA-GCACTA
*
170839257 GCACGAATGCCTTCGGGTCTTAGCCCGGATGTAGCCACTA
1 GCAC-AATGCCTTCGGGTCTTAGCCCGGATGAAG-CACTA
*
170839297 GCACAATTGCCTTCGGGTCTTAACCCGG
1 GCACAA-TGCCTTCGGGTCTTAGCCCGG
170839325 TTATAATTTC
Statistics
Matches: 61, Mismatches: 4, Indels: 6
0.86 0.06 0.08
Matches are distributed among these distances:
38 1 0.02
39 4 0.07
40 56 0.92
ACGTcount: A:0.21, C:0.30, G:0.26, T:0.23
Consensus pattern (38 bp):
GCACAATGCCTTCGGGTCTTAGCCCGGATGAAGCACTA
Found at i:170842259 original size:66 final size:68
Alignment explanation
Indices: 170842183--170842369 Score: 281
Period size: 71 Copynumber: 2.7 Consensus size: 68
170842173 TAGTACCACT
*
170842183 CATGCGACCTAGC-CGATTTGTC-T-CGTAGCTCTCTTGTCTACATGGTGTCCTTCACTTGGAAT
1 CATGCGACCTAGCAC-ATTTATCTTACGTAGCTCTCTTGTCTACATGGTGTCCTTCACTTGGAAT
170842245 CACG
65 CACG
170842249 CATGCGACCTAGCTACATTTATCTTTCACGTAGCTCTCTTGTCTACATGGTGTCCTTCACTTGGA
1 CATGCGACCTAGC-ACATTTATC-TT-ACGTAGCTCTCTTGTCTACATGGTGTCCTTCACTTGGA
170842314 ATCACG
63 ATCACG
170842320 CATGCGACCTAGCTACATTTATCTTTCACGTAGCTCTCTTGTCTACATGG
1 CATGCGACCTAGC-ACATTTATC-TT-ACGTAGCTCTCTTGTCTACATGG
170842370 GATACATCTC
Statistics
Matches: 114, Mismatches: 1, Indels: 7
0.93 0.01 0.06
Matches are distributed among these distances:
66 13 0.11
67 6 0.05
68 1 0.01
69 1 0.01
71 93 0.82
ACGTcount: A:0.19, C:0.28, G:0.18, T:0.35
Consensus pattern (68 bp):
CATGCGACCTAGCACATTTATCTTACGTAGCTCTCTTGTCTACATGGTGTCCTTCACTTGGAATC
ACG
Found at i:170842294 original size:71 final size:71
Alignment explanation
Indices: 170842206--170842369 Score: 328
Period size: 71 Copynumber: 2.3 Consensus size: 71
170842196 CGATTTGTCT
170842206 CGTAGCTCTCTTGTCTACATGGTGTCCTTCACTTGGAATCACGCATGCGACCTAGCTACATTTAT
1 CGTAGCTCTCTTGTCTACATGGTGTCCTTCACTTGGAATCACGCATGCGACCTAGCTACATTTAT
170842271 CTTTCA
66 CTTTCA
170842277 CGTAGCTCTCTTGTCTACATGGTGTCCTTCACTTGGAATCACGCATGCGACCTAGCTACATTTAT
1 CGTAGCTCTCTTGTCTACATGGTGTCCTTCACTTGGAATCACGCATGCGACCTAGCTACATTTAT
170842342 CTTTCA
66 CTTTCA
170842348 CGTAGCTCTCTTGTCTACATGG
1 CGTAGCTCTCTTGTCTACATGG
170842370 GATACATCTC
Statistics
Matches: 93, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
71 93 1.00
ACGTcount: A:0.19, C:0.28, G:0.18, T:0.35
Consensus pattern (71 bp):
CGTAGCTCTCTTGTCTACATGGTGTCCTTCACTTGGAATCACGCATGCGACCTAGCTACATTTAT
CTTTCA
Found at i:170842407 original size:71 final size:70
Alignment explanation
Indices: 170842206--170842403 Score: 276
Period size: 71 Copynumber: 2.8 Consensus size: 70
170842196 CGATTTGTCT
* * *
170842206 CGTAGCTCTCTTGTCTACATGGTGTCCTTCACTTGGAATCACGCATGCGACCTAGCTACATTTAT
1 CGTAGCTCTCTTGTCTACATGGTGTACAT-ACTTCGAATCACGCATGCGACCTAGCTACATTTAT
170842271 CTTTCA
65 CTTTCA
* * *
170842277 CGTAGCTCTCTTGTCTACATGGTGTCCTTCACTTGGAATCACGCATGCGACCTAGCTACATTTAT
1 CGTAGCTCTCTTGTCTACATGGTGTACAT-ACTTCGAATCACGCATGCGACCTAGCTACATTTAT
170842342 CTTTCA
65 CTTTCA
* *
170842348 CGTAGCTCTCTTGTCTACATGG-GATACAT-C-TCGTATCACGCATGTGACCTAGCTAC
1 CGTAGCTCTCTTGTCTACATGGTG-TACATACTTCGAATCACGCATGCGACCTAGCTAC
170842404 TACAGGGTGT
Statistics
Matches: 121, Mismatches: 5, Indels: 5
0.92 0.04 0.04
Matches are distributed among these distances:
68 23 0.19
69 1 0.01
70 1 0.01
71 96 0.79
ACGTcount: A:0.20, C:0.28, G:0.18, T:0.34
Consensus pattern (70 bp):
CGTAGCTCTCTTGTCTACATGGTGTACATACTTCGAATCACGCATGCGACCTAGCTACATTTATC
TTTCA
Found at i:170849823 original size:66 final size:68
Alignment explanation
Indices: 170849747--170849933 Score: 281
Period size: 71 Copynumber: 2.7 Consensus size: 68
170849737 TAGTACCACT
*
170849747 CATGCGACCTAGC-CGATTTGTC-T-CGTAGCTCTCTTGTCTACATGGTGTCCTTCACTTGGAAT
1 CATGCGACCTAGCAC-ATTTATCTTACGTAGCTCTCTTGTCTACATGGTGTCCTTCACTTGGAAT
170849809 CACG
65 CACG
170849813 CATGCGACCTAGCTACATTTATCTTTCACGTAGCTCTCTTGTCTACATGGTGTCCTTCACTTGGA
1 CATGCGACCTAGC-ACATTTATC-TT-ACGTAGCTCTCTTGTCTACATGGTGTCCTTCACTTGGA
170849878 ATCACG
63 ATCACG
170849884 CATGCGACCTAGCTACATTTATCTTTCACGTAGCTCTCTTGTCTACATGG
1 CATGCGACCTAGC-ACATTTATC-TT-ACGTAGCTCTCTTGTCTACATGG
170849934 GATACATCTC
Statistics
Matches: 114, Mismatches: 1, Indels: 7
0.93 0.01 0.06
Matches are distributed among these distances:
66 13 0.11
67 6 0.05
68 1 0.01
69 1 0.01
71 93 0.82
ACGTcount: A:0.19, C:0.28, G:0.18, T:0.35
Consensus pattern (68 bp):
CATGCGACCTAGCACATTTATCTTACGTAGCTCTCTTGTCTACATGGTGTCCTTCACTTGGAATC
ACG
Found at i:170849858 original size:71 final size:71
Alignment explanation
Indices: 170849770--170849933 Score: 328
Period size: 71 Copynumber: 2.3 Consensus size: 71
170849760 CGATTTGTCT
170849770 CGTAGCTCTCTTGTCTACATGGTGTCCTTCACTTGGAATCACGCATGCGACCTAGCTACATTTAT
1 CGTAGCTCTCTTGTCTACATGGTGTCCTTCACTTGGAATCACGCATGCGACCTAGCTACATTTAT
170849835 CTTTCA
66 CTTTCA
170849841 CGTAGCTCTCTTGTCTACATGGTGTCCTTCACTTGGAATCACGCATGCGACCTAGCTACATTTAT
1 CGTAGCTCTCTTGTCTACATGGTGTCCTTCACTTGGAATCACGCATGCGACCTAGCTACATTTAT
170849906 CTTTCA
66 CTTTCA
170849912 CGTAGCTCTCTTGTCTACATGG
1 CGTAGCTCTCTTGTCTACATGG
170849934 GATACATCTC
Statistics
Matches: 93, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
71 93 1.00
ACGTcount: A:0.19, C:0.28, G:0.18, T:0.35
Consensus pattern (71 bp):
CGTAGCTCTCTTGTCTACATGGTGTCCTTCACTTGGAATCACGCATGCGACCTAGCTACATTTAT
CTTTCA
Found at i:170849971 original size:71 final size:70
Alignment explanation
Indices: 170849770--170849967 Score: 276
Period size: 71 Copynumber: 2.8 Consensus size: 70
170849760 CGATTTGTCT
* * *
170849770 CGTAGCTCTCTTGTCTACATGGTGTCCTTCACTTGGAATCACGCATGCGACCTAGCTACATTTAT
1 CGTAGCTCTCTTGTCTACATGGTGTACAT-ACTTCGAATCACGCATGCGACCTAGCTACATTTAT
170849835 CTTTCA
65 CTTTCA
* * *
170849841 CGTAGCTCTCTTGTCTACATGGTGTCCTTCACTTGGAATCACGCATGCGACCTAGCTACATTTAT
1 CGTAGCTCTCTTGTCTACATGGTGTACAT-ACTTCGAATCACGCATGCGACCTAGCTACATTTAT
170849906 CTTTCA
65 CTTTCA
* *
170849912 CGTAGCTCTCTTGTCTACATGG-GATACAT-C-TCGTATCACGCATGTGACCTAGCTAC
1 CGTAGCTCTCTTGTCTACATGGTG-TACATACTTCGAATCACGCATGCGACCTAGCTAC
170849968 TACAGGGTGT
Statistics
Matches: 121, Mismatches: 5, Indels: 5
0.92 0.04 0.04
Matches are distributed among these distances:
68 23 0.19
69 1 0.01
70 1 0.01
71 96 0.79
ACGTcount: A:0.20, C:0.28, G:0.18, T:0.34
Consensus pattern (70 bp):
CGTAGCTCTCTTGTCTACATGGTGTACATACTTCGAATCACGCATGCGACCTAGCTACATTTATC
TTTCA
Found at i:170866676 original size:40 final size:40
Alignment explanation
Indices: 170866434--170866693 Score: 233
Period size: 40 Copynumber: 6.5 Consensus size: 40
170866424 GAATCACGTA
* * * * *
170866434 CCTTC-GGAATTTAA-CCGGATATAGTGACTCGCTCGATTG
1 CCTTCGGGAA-TTAACCCGGATTTAGTAACTCGCACAAATG
* * * * *
170866473 TCTTCGGGACA-TAGCCCGG-TTATAGTGATTCGCACAATTG
1 CCTTCGGGA-ATTAACCCGGATT-TAGTAACTCGCACAAATG
*
170866513 CCTTCGGGAATTAGCCCGGATTTAGTAACTCGCACAAATG
1 CCTTCGGGAATTAACCCGGATTTAGTAACTCGCACAAATG
* * *
170866553 CCTTCGGGACTTAACCCGGTTTTGGTAACTCGCACAAATG
1 CCTTCGGGAATTAACCCGGATTTAGTAACTCGCACAAATG
* * * *
170866593 CCTTCGGGACTTAACTCGGTTTTGGTAACTCGCACAAATG
1 CCTTCGGGAATTAACCCGGATTTAGTAACTCGCACAAATG
* * * *
170866633 CCTTCGGGAATTGACCCGAATTTAGTCACTTAGCACAAA-G
1 CCTTCGGGAATTAACCCGGATTTAGTAAC-TCGCACAAATG
* *
170866673 CCTTCGGGACTTAGCCCGGAT
1 CCTTCGGGAATTAACCCGGAT
170866694 ACCATTCGAA
Statistics
Matches: 187, Mismatches: 27, Indels: 13
0.82 0.12 0.06
Matches are distributed among these distances:
39 8 0.04
40 168 0.90
41 11 0.06
ACGTcount: A:0.24, C:0.25, G:0.23, T:0.28
Consensus pattern (40 bp):
CCTTCGGGAATTAACCCGGATTTAGTAACTCGCACAAATG
Found at i:170874090 original size:40 final size:39
Alignment explanation
Indices: 170874046--170874260 Score: 211
Period size: 40 Copynumber: 5.4 Consensus size: 39
170874036 GCTCGATTGT
* * *
170874046 CTTCGGGACATAGCCCGGTTATAGTGATTCGCACAATTGC
1 CTTCGGGACATAGCCCGGTT-TAGTAACTCGCACAAATGC
170874086 CTTCGGGA-ATTAGCCCGGATTTAGTAACTCGCACAAATGC
1 CTTCGGGACA-TAGCCCGG-TTTAGTAACTCGCACAAATGC
* * *
170874126 CTTCGGGACTTAACCCGGTTTTGGTAACTCGCACAAATGC
1 CTTCGGGACATAGCCCGG-TTTAGTAACTCGCACAAATGC
* * *
170874166 CTTCGGGACTTA-ACCGGTTTTGGTAACTCGCACAAATGC
1 CTTCGGGACATAGCCCGG-TTTAGTAACTCGCACAAATGC
* * * *
170874205 CTTCGGGA-ATTGACCCGGATTTAGTCACTTAGCACAAAAGC
1 CTTCGGGACATAG-CCCGG-TTTAGTAAC-TCGCACAAATGC
*
170874246 CTTCGGGACTTAGCC
1 CTTCGGGACATAGCC
170874261 GGATACCATT
Statistics
Matches: 150, Mismatches: 18, Indels: 13
0.83 0.10 0.07
Matches are distributed among these distances:
38 1 0.01
39 35 0.23
40 90 0.60
41 22 0.15
42 2 0.01
ACGTcount: A:0.24, C:0.26, G:0.23, T:0.27
Consensus pattern (39 bp):
CTTCGGGACATAGCCCGGTTTAGTAACTCGCACAAATGC
Found at i:170874144 original size:80 final size:78
Alignment explanation
Indices: 170874046--170874264 Score: 258
Period size: 80 Copynumber: 2.7 Consensus size: 78
170874036 GCTCGATTGT
* * * * *
170874046 CTTCGGGACATAGCCCGGTTATAGTGATTCGCACAATTGCCTTCGGGAATTAGCCCGGATTTAGT
1 CTTCGGGACTTAACCCGGTT-TAGTAATTCGCACAAATGCCTTCGGGACTTAG-CCGGATTTAGT
170874111 AACTCGCACAAATGC
64 AACTCGCACAAATGC
* * * * *
170874126 CTTCGGGACTTAACCCGGTTTTGGTAACTCGCACAAATGCCTTCGGGACTTAACCGGTTTTGGTA
1 CTTCGGGACTTAACCCGG-TTTAGTAATTCGCACAAATGCCTTCGGGACTTAGCCGGATTTAGTA
170874191 ACTCGCACAAATGC
65 ACTCGCACAAATGC
* * * * *
170874205 CTTCGGGAATTGACCCGGATTTAGTCACTTAGCACAAAAGCCTTCGGGACTTAGCCGGAT
1 CTTCGGGACTTAACCCGG-TTTAGT-AATTCGCACAAATGCCTTCGGGACTTAGCCGGAT
170874265 ACCATTCGAA
Statistics
Matches: 117, Mismatches: 20, Indels: 4
0.83 0.14 0.03
Matches are distributed among these distances:
79 45 0.38
80 70 0.60
81 2 0.02
ACGTcount: A:0.24, C:0.26, G:0.24, T:0.26
Consensus pattern (78 bp):
CTTCGGGACTTAACCCGGTTTAGTAATTCGCACAAATGCCTTCGGGACTTAGCCGGATTTAGTAA
CTCGCACAAATGC
Found at i:170876297 original size:41 final size:41
Alignment explanation
Indices: 170876252--170876369 Score: 98
Period size: 41 Copynumber: 3.1 Consensus size: 41
170876242 TGAAAGATAA
170876252 ATGTAGCTAGGTCGCATGCGTGATTCCAAGTGAAGGACACC
1 ATGTAGCTAGGTCGCATGCGTGATTCCAAGTGAAGGACACC
* * * * *
170876293 ATGTAGAC-AAG-AG-A-GC-T-A---C--GTGAAAGATA-A
1 ATGTAG-CTAGGTCGCATGCGTGATTCCAAGTGAAGGACACC
170876323 ATGTAGCTAGGTCGCATGCGTGATTCCAAGTGAAGGACACC
1 ATGTAGCTAGGTCGCATGCGTGATTCCAAGTGAAGGACACC
170876364 ATGTAG
1 ATGTAG
170876370 ACAAGAGAGC
Statistics
Matches: 54, Mismatches: 10, Indels: 26
0.60 0.11 0.29
Matches are distributed among these distances:
29 1 0.02
30 8 0.15
31 9 0.17
32 1 0.02
33 3 0.06
34 1 0.02
35 1 0.02
36 1 0.02
37 1 0.02
38 3 0.06
39 1 0.02
40 9 0.17
41 14 0.26
42 1 0.02
ACGTcount: A:0.32, C:0.18, G:0.29, T:0.21
Consensus pattern (41 bp):
ATGTAGCTAGGTCGCATGCGTGATTCCAAGTGAAGGACACC
Found at i:170876308 original size:71 final size:71
Alignment explanation
Indices: 170876220--170876383 Score: 328
Period size: 71 Copynumber: 2.3 Consensus size: 71
170876210 GAGATGTATC
170876220 CCATGTAGACAAGAGAGCTACGTGAAAGATAAATGTAGCTAGGTCGCATGCGTGATTCCAAGTGA
1 CCATGTAGACAAGAGAGCTACGTGAAAGATAAATGTAGCTAGGTCGCATGCGTGATTCCAAGTGA
170876285 AGGACA
66 AGGACA
170876291 CCATGTAGACAAGAGAGCTACGTGAAAGATAAATGTAGCTAGGTCGCATGCGTGATTCCAAGTGA
1 CCATGTAGACAAGAGAGCTACGTGAAAGATAAATGTAGCTAGGTCGCATGCGTGATTCCAAGTGA
170876356 AGGACA
66 AGGACA
170876362 CCATGTAGACAAGAGAGCTACG
1 CCATGTAGACAAGAGAGCTACG
170876384 AGACAAATCG
Statistics
Matches: 93, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
71 93 1.00
ACGTcount: A:0.35, C:0.18, G:0.28, T:0.19
Consensus pattern (71 bp):
CCATGTAGACAAGAGAGCTACGTGAAAGATAAATGTAGCTAGGTCGCATGCGTGATTCCAAGTGA
AGGACA
Found at i:170885391 original size:46 final size:46
Alignment explanation
Indices: 170885341--170885516 Score: 216
Period size: 46 Copynumber: 3.8 Consensus size: 46
170885331 TGGTTGAGCA
170885341 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
* * *
170885387 TCCGAACTCGTTGAGTTGAGTCCGAGTTC-GTGA--GATG-TAACTAGG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAA-T--G
*
170885432 CATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACG
1 --TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
* * *
170885480 CCCGAGCTCGTTGAGTTGAGTCCGAGTTCGCTTATGG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGG
170885517 GCGGGTTACA
Statistics
Matches: 111, Mismatches: 10, Indels: 18
0.80 0.07 0.13
Matches are distributed among these distances:
42 2 0.02
43 5 0.05
45 3 0.03
46 63 0.57
47 29 0.26
48 3 0.03
50 4 0.04
51 2 0.02
ACGTcount: A:0.20, C:0.21, G:0.30, T:0.29
Consensus pattern (46 bp):
TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
Found at i:170885497 original size:93 final size:93
Alignment explanation
Indices: 170885338--170885509 Score: 317
Period size: 93 Copynumber: 1.8 Consensus size: 93
170885328 GGATGGTTGA
* *
170885338 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATGTCCGAACTCGTTGAGT
1 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAACTCGTTGAGT
170885403 TGAGTCCGAGTTCGTGAGATGTAACTAG
66 TGAGTCCGAGTTCGTGAGATGTAACTAG
*
170885431 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAGCTCGTTGAGT
1 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAACTCGTTGAGT
170885496 TGAGTCCGAGTTCG
66 TGAGTCCGAGTTCG
170885510 CTTATGGGCG
Statistics
Matches: 76, Mismatches: 3, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
93 76 1.00
ACGTcount: A:0.21, C:0.22, G:0.30, T:0.28
Consensus pattern (93 bp):
GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAACTCGTTGAGT
TGAGTCCGAGTTCGTGAGATGTAACTAG
Found at i:170893081 original size:45 final size:46
Alignment explanation
Indices: 170892918--170893092 Score: 216
Period size: 45 Copynumber: 3.8 Consensus size: 46
170892908 TGGTTGAGCA
*
170892918 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACG
* * *
170892964 TCCGAACTCGTTGAGTTGAGTCCGAGTTC-GTGA--GATG-TAACTAGG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAAC---G
170893009 CATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACG
1 --TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACG
* *
170893057 -CCGAGCTCGTTGAGTTGAGTCCGAGTTCGCTTATGG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGG
170893093 GCGGGTTACA
Statistics
Matches: 111, Mismatches: 9, Indels: 19
0.80 0.06 0.14
Matches are distributed among these distances:
42 2 0.02
43 4 0.04
45 37 0.33
46 29 0.26
47 29 0.26
48 3 0.03
50 4 0.04
51 3 0.03
ACGTcount: A:0.21, C:0.21, G:0.30, T:0.29
Consensus pattern (46 bp):
TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACG
Found at i:170897068 original size:2 final size:2
Alignment explanation
Indices: 170897061--170897096 Score: 72
Period size: 2 Copynumber: 18.0 Consensus size: 2
170897051 TCACTTGGCC
170897061 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
170897097 CTCAAAACAT
Statistics
Matches: 34, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 34 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:170899534 original size:46 final size:44
Alignment explanation
Indices: 170899407--170899568 Score: 168
Period size: 46 Copynumber: 3.6 Consensus size: 44
170899397 ATGCCGATAC
*
170899407 CATGTCCCAGACATGGTCTTACACTAGCT-CATCCATCAAGTCGATG
1 CATGTCCCAGACATGGTCTTACACT-GCTACAT-C-TCGAGTCGATG
* * *
170899453 CCATGTCCCAGACATGGTCTTATACTGATAGATCTCGTAGTCGATG
1 -CATGTCCCAGACATGGTCTTACACTGCTACATCTCG-AGTCGATG
* *
170899499 CATGTCCCAGACAT-GTCTTGCACTGGCTTACATCTCGAGGCTGATG
1 CATGTCCCAGACATGGTCTTACACT-GC-TACATCTCGAGTC-GATG
*
170899545 CATGTCCCAGACAT-GTCATACACT
1 CATGTCCCAGACATGGTCTTACACT
170899569 AGCTCAAGTT
Statistics
Matches: 99, Mismatches: 11, Indels: 11
0.82 0.09 0.09
Matches are distributed among these distances:
44 8 0.08
45 20 0.20
46 45 0.45
47 26 0.26
ACGTcount: A:0.24, C:0.28, G:0.20, T:0.28
Consensus pattern (44 bp):
CATGTCCCAGACATGGTCTTACACTGCTACATCTCGAGTCGATG
Found at i:170899589 original size:46 final size:46
Alignment explanation
Indices: 170899407--170899604 Score: 122
Period size: 46 Copynumber: 4.3 Consensus size: 46
170899397 ATGCCGATAC
* *
170899407 CATGTCCCAGACATGGTCTTACACTAGCT--CATCCATCAAGTC-GATG
1 CATGTCCCAGACAT-GTCATACACTAGCTCACAT-C-TCAAGACTGATG
* * * * * *
170899453 CCATGTCCCAGACATGGTCTTATACT-GAT-AGATCTCGTAGTC-GATG
1 -CATGTCCCAGACAT-GTCATACACTAGCTCACATCTC-AAGACTGATG
* * * * * *
170899499 CATGTCCCAGACATGTCTTGCACTGGCTTACATCTCGAGGCTGATG
1 CATGTCCCAGACATGTCATACACTAGCTCACATCTCAAGACTGATG
* *
170899545 CATGTCCCAGACATGTCATACACTAGCTCA-AGTTTCAATACTGATG
1 CATGTCCCAGACATGTCATACACTAGCTCACA-TCTCAAGACTGATG
*
170899591 CCATGTCTCAGACA
1 -CATGTCCCAGACA
170899605 CGGTCTTACA
Statistics
Matches: 125, Mismatches: 19, Indels: 14
0.79 0.12 0.09
Matches are distributed among these distances:
44 8 0.06
45 22 0.18
46 57 0.46
47 38 0.30
ACGTcount: A:0.25, C:0.28, G:0.19, T:0.28
Consensus pattern (46 bp):
CATGTCCCAGACATGTCATACACTAGCTCACATCTCAAGACTGATG
Found at i:170902271 original size:27 final size:27
Alignment explanation
Indices: 170902234--170902351 Score: 130
Period size: 27 Copynumber: 4.4 Consensus size: 27
170902224 GGATAAGTTA
*
170902234 TAGAATTACCGAAATACCCCTGTAGGA
1 TAGAATTACCGAAATACCCCTGTAGGG
** *
170902261 TAGAATTACCGAAATACCTTTGTTGGG
1 TAGAATTACCGAAATACCCCTGTAGGG
*
170902288 TAGAAATACC-AAATTACCCCTGTAGGG
1 TAGAATTACCGAAA-TACCCCTGTAGGG
* * * *
170902315 TAGAATTATCGAGATACCCTTGTGGGG
1 TAGAATTACCGAAATACCCCTGTAGGG
*
170902342 TAAAATTACC
1 TAGAATTACC
170902352 ATTTTGCCCC
Statistics
Matches: 74, Mismatches: 15, Indels: 4
0.80 0.16 0.04
Matches are distributed among these distances:
26 3 0.04
27 69 0.93
28 2 0.03
ACGTcount: A:0.34, C:0.19, G:0.20, T:0.27
Consensus pattern (27 bp):
TAGAATTACCGAAATACCCCTGTAGGG
Found at i:170902362 original size:54 final size:54
Alignment explanation
Indices: 170902234--170902352 Score: 152
Period size: 54 Copynumber: 2.2 Consensus size: 54
170902224 GGATAAGTTA
* * *
170902234 TAGAATTACCGAAA-TACCCCTGTAGGATAGAATTACCGAAATACCTTTGTTGGG
1 TAGAAATACC-AAATTACCCCTGTAGGATAGAATTACCGAAATACCCTTGTGGGG
* * *
170902288 TAGAAATACCAAATTACCCCTGTAGGGTAGAATTATCGAGATACCCTTGTGGGG
1 TAGAAATACCAAATTACCCCTGTAGGATAGAATTACCGAAATACCCTTGTGGGG
170902342 TA-AAATTACCA
1 TAGAAA-TACCA
170902353 TTTTGCCCCT
Statistics
Matches: 57, Mismatches: 6, Indels: 4
0.85 0.09 0.06
Matches are distributed among these distances:
53 6 0.11
54 51 0.89
ACGTcount: A:0.34, C:0.18, G:0.20, T:0.27
Consensus pattern (54 bp):
TAGAAATACCAAATTACCCCTGTAGGATAGAATTACCGAAATACCCTTGTGGGG
Found at i:170903121 original size:26 final size:27
Alignment explanation
Indices: 170903092--170903151 Score: 77
Period size: 27 Copynumber: 2.3 Consensus size: 27
170903082 CCACATATAT
*
170903092 ATATCTGT-TCTGGTGGCCTAGCCACA
1 ATATCTGTATCTGGTGACCTAGCCACA
* * *
170903118 ATATCTGTATCTGGTGACTTCGTCACA
1 ATATCTGTATCTGGTGACCTAGCCACA
170903145 ATATCTG
1 ATATCTG
170903152 GCAGCCTCGC
Statistics
Matches: 29, Mismatches: 4, Indels: 1
0.85 0.12 0.03
Matches are distributed among these distances:
26 8 0.28
27 21 0.72
ACGTcount: A:0.22, C:0.23, G:0.20, T:0.35
Consensus pattern (27 bp):
ATATCTGTATCTGGTGACCTAGCCACA
Found at i:170903239 original size:24 final size:25
Alignment explanation
Indices: 170903189--170903241 Score: 83
Period size: 25 Copynumber: 2.2 Consensus size: 25
170903179 GTAGCGATTG
170903189 GGTGGGTCGAGTAGTCTCCCCACAT
1 GGTGGGTCGAGTAGTCTCCCCACAT
170903214 GGTGGGTC-ATGTAGTCT-CCCACAT
1 GGTGGGTCGA-GTAGTCTCCCCACAT
170903238 GGTG
1 GGTG
170903242 TAAGGCTGGT
Statistics
Matches: 27, Mismatches: 0, Indels: 3
0.90 0.00 0.10
Matches are distributed among these distances:
24 12 0.44
25 15 0.56
ACGTcount: A:0.15, C:0.25, G:0.34, T:0.26
Consensus pattern (25 bp):
GGTGGGTCGAGTAGTCTCCCCACAT
Found at i:170909883 original size:26 final size:26
Alignment explanation
Indices: 170909837--170909889 Score: 72
Period size: 26 Copynumber: 2.0 Consensus size: 26
170909827 TAAAATTACC
* *
170909837 ATTTTGCCCCTAGGTGTTAAATGACT
1 ATTTTGCCCCTACGTGGTAAATGACT
170909863 ATTTTGCCCCT-CGTGCGTAAATGACT
1 ATTTTGCCCCTACGTG-GTAAATGACT
170909889 A
1 A
170909890 ACTTGTGTGA
Statistics
Matches: 24, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
25 3 0.12
26 21 0.88
ACGTcount: A:0.23, C:0.23, G:0.19, T:0.36
Consensus pattern (26 bp):
ATTTTGCCCCTACGTGGTAAATGACT
Found at i:170910528 original size:27 final size:26
Alignment explanation
Indices: 170910484--170910535 Score: 68
Period size: 27 Copynumber: 2.0 Consensus size: 26
170910474 CTCGCTGCAA
*
170910484 TCTGGTGGCCTCGCCACATATATCTGT
1 TCTGGTGACCTCGCCACA-ATATCTGT
* *
170910511 TCTGGTGACTTCGTCACAATATCTG
1 TCTGGTGACCTCGCCACAATATCTG
170910536 GCAGCCTCGC
Statistics
Matches: 22, Mismatches: 3, Indels: 1
0.85 0.12 0.04
Matches are distributed among these distances:
26 7 0.32
27 15 0.68
ACGTcount: A:0.17, C:0.27, G:0.21, T:0.35
Consensus pattern (26 bp):
TCTGGTGACCTCGCCACAATATCTGT
Found at i:170912210 original size:15 final size:15
Alignment explanation
Indices: 170912176--170912218 Score: 52
Period size: 15 Copynumber: 2.9 Consensus size: 15
170912166 GAAGATACCA
* *
170912176 AGAAAACCAAG-TAA
1 AGAAATCCAAGATAG
*
170912190 AGAAATCCAGGATAG
1 AGAAATCCAAGATAG
170912205 AGAAATCCAAGATA
1 AGAAATCCAAGATA
170912219 CGGGACTATA
Statistics
Matches: 24, Mismatches: 4, Indels: 1
0.83 0.14 0.03
Matches are distributed among these distances:
14 9 0.38
15 15 0.62
ACGTcount: A:0.56, C:0.14, G:0.19, T:0.12
Consensus pattern (15 bp):
AGAAATCCAAGATAG
Found at i:170915105 original size:19 final size:20
Alignment explanation
Indices: 170915081--170915118 Score: 53
Period size: 19 Copynumber: 1.9 Consensus size: 20
170915071 GGTACCACCA
170915081 AAACAT-ATATCA-CATCTTT
1 AAACATCAT-TCATCATCTTT
170915100 AAACATCATTCATCATCTT
1 AAACATCATTCATCATCTT
170915119 ATCACCTTAT
Statistics
Matches: 17, Mismatches: 0, Indels: 3
0.85 0.00 0.15
Matches are distributed among these distances:
19 9 0.53
20 8 0.47
ACGTcount: A:0.39, C:0.24, G:0.00, T:0.37
Consensus pattern (20 bp):
AAACATCATTCATCATCTTT
Found at i:170915422 original size:46 final size:46
Alignment explanation
Indices: 170915347--170915515 Score: 178
Period size: 46 Copynumber: 3.7 Consensus size: 46
170915337 CGCCCCTAAG
* *
170915347 TGAACTCAGACTCAACTCAACGAGCTCGGACGTTCGTATCCATAAA
1 TGAACTCGGACTCAACTCAACGAGTTCGGACGTTCGTATCCATAAA
* * * * * * **
170915393 TGAACTCGGACTCAACACAACTAGTTCGGATGCCTAGT-TACATCTCA
1 TGAACTCGGACTCAACTCAACGAGTTCGGACG-TTCGTATCCAT-AAA
* * ** *
170915440 CGAACTCGGACTCAACTCAACGAGTTCGGACATTCACATCCATAAG
1 TGAACTCGGACTCAACTCAACGAGTTCGGACGTTCGTATCCATAAA
170915486 TGAACTCGGACTCAACTCAACGAGTTCGGA
1 TGAACTCGGACTCAACTCAACGAGTTCGGA
170915516 TGCTCAACCA
Statistics
Matches: 96, Mismatches: 24, Indels: 6
0.76 0.19 0.05
Matches are distributed among these distances:
46 61 0.64
47 35 0.36
ACGTcount: A:0.31, C:0.28, G:0.18, T:0.22
Consensus pattern (46 bp):
TGAACTCGGACTCAACTCAACGAGTTCGGACGTTCGTATCCATAAA
Found at i:170915458 original size:93 final size:93
Alignment explanation
Indices: 170915348--170915518 Score: 270
Period size: 93 Copynumber: 1.8 Consensus size: 93
170915338 GCCCCTAAGT
* **
170915348 GAACTCAGACTCAACTCAACGAGCTCGGACGTTCGTATCCATAAATGAACTCGGACTCAACACAA
1 GAACTCAGACTCAACTCAACGAGCTCGGACATTCACATCCATAAATGAACTCGGACTCAACACAA
*
170915413 CTAGTTCGGATGCCTAGTTACATCTCAC
66 CGAGTTCGGATGCCTAGTTACATCTCAC
* * * *
170915441 GAACTCGGACTCAACTCAACGAGTTCGGACATTCACATCCATAAGTGAACTCGGACTCAACTCAA
1 GAACTCAGACTCAACTCAACGAGCTCGGACATTCACATCCATAAATGAACTCGGACTCAACACAA
170915506 CGAGTTCGGATGC
66 CGAGTTCGGATGC
170915519 TCAACCATCC
Statistics
Matches: 70, Mismatches: 8, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
93 70 1.00
ACGTcount: A:0.31, C:0.29, G:0.19, T:0.22
Consensus pattern (93 bp):
GAACTCAGACTCAACTCAACGAGCTCGGACATTCACATCCATAAATGAACTCGGACTCAACACAA
CGAGTTCGGATGCCTAGTTACATCTCAC
Found at i:170920977 original size:90 final size:92
Alignment explanation
Indices: 170920869--170921036 Score: 295
Period size: 90 Copynumber: 1.8 Consensus size: 92
170920859 GCCCCTAAGT
* *
170920869 GAACTCGGACTCAACTCAACGAGCTCGGGCGTTCGCATCCATAAGTGAACTCGGACTCAACTC-A
1 GAACTCGGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCAA
170920933 -GAGTTCGGATGCCTAGTTACATTCAC
66 CGAGTTCGGATGCCTAGTTACATTCAC
*
170920959 GAACTCGGACTCAACTCAACGAGTTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCAA
1 GAACTCGGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCAA
170921024 CGAGTTCGGATGC
66 CGAGTTCGGATGC
170921037 TCAACCATCC
Statistics
Matches: 73, Mismatches: 3, Indels: 2
0.94 0.04 0.03
Matches are distributed among these distances:
90 60 0.82
91 1 0.01
92 12 0.16
ACGTcount: A:0.28, C:0.29, G:0.22, T:0.21
Consensus pattern (92 bp):
GAACTCGGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCAA
CGAGTTCGGATGCCTAGTTACATTCAC
Found at i:170921033 original size:46 final size:46
Alignment explanation
Indices: 170920864--170921033 Score: 199
Period size: 46 Copynumber: 3.7 Consensus size: 46
170920854 AACCCGCCCC
* * *
170920864 TAAGTGAACTCGGACTCAACTCAACGAGCTCGGGCGTTCGCATCCA
1 TAAGTGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCATCCA
* *
170920910 TAAGTGAACTCGGACTCAACTC-A-GAGTTCGG--ATGC-CTAGTTACA
1 TAAGTGAACTCGGACTCAACTCAACGAGTTCGGACATTCGC-A--TCCA
* *
170920954 TTCA-CGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCATCCA
1 -TAAGTGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCATCCA
170921000 TAAGTGAACTCGGACTCAACTCAACGAGTTCGGA
1 TAAGTGAACTCGGACTCAACTCAACGAGTTCGGA
170921034 TGCTCAACCA
Statistics
Matches: 104, Mismatches: 10, Indels: 20
0.78 0.07 0.15
Matches are distributed among these distances:
41 1 0.01
42 3 0.03
44 27 0.26
45 6 0.06
46 62 0.60
48 4 0.04
49 1 0.01
ACGTcount: A:0.29, C:0.28, G:0.22, T:0.22
Consensus pattern (46 bp):
TAAGTGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCATCCA
Found at i:170921052 original size:46 final size:46
Alignment explanation
Indices: 170920866--170921052 Score: 133
Period size: 46 Copynumber: 4.1 Consensus size: 46
170920856 CCCGCCCCTA
* ** * *
170920866 AGTGAACTCGGACTCAACTCAACGAGCTCGGGCGTTC--GCATCCAT
1 AGTGAACTCGGACTCAACTCAACGAGTTCGGATGCTCAACCATCC-T
*
170920911 AAGTGAACTCGGACTCAACTC-A-GAGTTCGGATGC-CTAGTTA-CATTC-
1 -AGTGAACTCGGACTCAACTCAACGAGTTCGGATGCTC-A---ACCATCCT
* * * * *
170920957 A-CGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCATCCAT--A
1 AGTGAACTCGGACTCAACTCAACGAGTTCGG--ATGCTCAACCATCCT
170921002 AGTGAACTCGGACTCAACTCAACGAGTTCGGATGCTCAACCATCCT
1 AGTGAACTCGGACTCAACTCAACGAGTTCGGATGCTCAACCATCCT
170921048 AGTGA
1 AGTGA
170921053 CATGTCACTT
Statistics
Matches: 112, Mismatches: 13, Indels: 32
0.71 0.08 0.20
Matches are distributed among these distances:
43 1 0.01
44 34 0.30
45 4 0.04
46 64 0.57
48 8 0.07
49 1 0.01
ACGTcount: A:0.28, C:0.28, G:0.21, T:0.22
Consensus pattern (46 bp):
AGTGAACTCGGACTCAACTCAACGAGTTCGGATGCTCAACCATCCT
Found at i:170938911 original size:18 final size:18
Alignment explanation
Indices: 170938885--170938924 Score: 71
Period size: 18 Copynumber: 2.2 Consensus size: 18
170938875 GGCCTTGGCC
*
170938885 CAATTCAGTAATAGTAAA
1 CAATGCAGTAATAGTAAA
170938903 CAATGCAGTAATAGTAAA
1 CAATGCAGTAATAGTAAA
170938921 CAAT
1 CAAT
170938925 ACACAAGTCC
Statistics
Matches: 21, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
18 21 1.00
ACGTcount: A:0.50, C:0.12, G:0.12, T:0.25
Consensus pattern (18 bp):
CAATGCAGTAATAGTAAA
Found at i:170939324 original size:27 final size:27
Alignment explanation
Indices: 170939248--170939325 Score: 93
Period size: 27 Copynumber: 2.9 Consensus size: 27
170939238 AAACATACAT
* * *
170939248 CACATAAGGCCAAAACAGTCATCTGAG
1 CACATAAGGGCAAAACAGTCATTTGAC
* * * *
170939275 CATATAAGGGCAATATAGTCATTTTAC
1 CACATAAGGGCAAAACAGTCATTTGAC
170939302 CACATAAGGGCAAAACAGTCATTT
1 CACATAAGGGCAAAACAGTCATTT
170939326 CATCAAATTG
Statistics
Matches: 41, Mismatches: 10, Indels: 0
0.80 0.20 0.00
Matches are distributed among these distances:
27 41 1.00
ACGTcount: A:0.40, C:0.21, G:0.17, T:0.23
Consensus pattern (27 bp):
CACATAAGGGCAAAACAGTCATTTGAC
Found at i:170939468 original size:17 final size:17
Alignment explanation
Indices: 170939435--170939472 Score: 51
Period size: 17 Copynumber: 2.2 Consensus size: 17
170939425 AAGCCTATAA
170939435 CACAGCCCATGTGGGCC
1 CACAGCCCATGTGGGCC
*
170939452 CACATGCCCGTGT-GGCC
1 CACA-GCCCATGTGGGCC
170939469 CACA
1 CACA
170939473 AAGCCCAAAA
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
17 12 0.63
18 7 0.37
ACGTcount: A:0.18, C:0.42, G:0.26, T:0.13
Consensus pattern (17 bp):
CACAGCCCATGTGGGCC
Found at i:170939478 original size:18 final size:18
Alignment explanation
Indices: 170939438--170939479 Score: 50
Period size: 18 Copynumber: 2.3 Consensus size: 18
170939428 CCTATAACAC
170939438 AGCCCATGTGGGCCCACA
1 AGCCCATGTGGGCCCACA
* *
170939456 TGCCCGTGT-GGCCCACAA
1 AGCCCATGTGGGCCCAC-A
170939474 AGCCCA
1 AGCCCA
170939480 AAAGTGGCCT
Statistics
Matches: 19, Mismatches: 4, Indels: 2
0.76 0.16 0.08
Matches are distributed among these distances:
17 7 0.37
18 12 0.63
ACGTcount: A:0.21, C:0.40, G:0.26, T:0.12
Consensus pattern (18 bp):
AGCCCATGTGGGCCCACA
Found at i:170941818 original size:20 final size:21
Alignment explanation
Indices: 170941779--170941818 Score: 64
Period size: 21 Copynumber: 2.0 Consensus size: 21
170941769 GTTATAATGA
*
170941779 CCACATGGGCGTGTTGCCCTT
1 CCACACGGGCGTGTTGCCCTT
170941800 CCACACGGGCGTG-TGCCCT
1 CCACACGGGCGTGTTGCCCT
170941819 GTTTCAAGGG
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
20 6 0.33
21 12 0.67
ACGTcount: A:0.10, C:0.38, G:0.30, T:0.23
Consensus pattern (21 bp):
CCACACGGGCGTGTTGCCCTT
Found at i:170948124 original size:47 final size:45
Alignment explanation
Indices: 170948055--170948222 Score: 137
Period size: 46 Copynumber: 3.6 Consensus size: 45
170948045 TTTGTGTGCT
*
170948055 AGTGTAAGACATGTCTGAGACATGCATCGGCCACATTATGAGAGCC
1 AGTGTAAGACATGTCTGGGACATGCATCGGCC-CATTATGAGAGCC
* * *
170948101 AGTGTAAGTACATGTCTGGGACATGGCATTGG--CATTAAGGCGAGAGCA
1 AGTGTAAG-ACATGTCTGGGACAT-GCATCGGCCCATT-A--TGAGAGCC
* * * *
170948149 AGTGTAAGACATGTTTGGAACATGCATCAGCCTCGA-GATGTA-AGCC
1 AGTGTAAGACATGTCTGGGACATGCATCGGCC-C-ATTATG-AGAGCC
* *
170948195 AGTGTAAGACATATCTTGGACATGCATC
1 AGTGTAAGACATGTCTGGGACATGCATC
170948223 AGCTACGAGA
Statistics
Matches: 97, Mismatches: 15, Indels: 20
0.73 0.11 0.15
Matches are distributed among these distances:
45 4 0.04
46 42 0.43
47 28 0.29
48 21 0.22
49 1 0.01
50 1 0.01
ACGTcount: A:0.30, C:0.18, G:0.27, T:0.24
Consensus pattern (45 bp):
AGTGTAAGACATGTCTGGGACATGCATCGGCCCATTATGAGAGCC
Found at i:170948268 original size:46 final size:47
Alignment explanation
Indices: 170948149--170948417 Score: 171
Period size: 46 Copynumber: 5.7 Consensus size: 47
170948139 GGCGAGAGCA
* * *
170948149 AGTGTAAGA-CATGTTTGGAACAT-GCATCAGCCTCGAGATGTAAGCC
1 AGTGTAAGACCATGTCTGGGACATGGCATCAGCCTCGAGATGT-AGCT
* * *
170948195 AGTGTAAGA-CATATCTTGGACAT-GCATCAG-CTACGAGATGT-GTT
1 AGTGTAAGACCATGTCTGGGACATGGCATCAGCCT-CGAGATGTAGCT
* *
170948239 AGTGTAAGACCATGTCTGGGACATGGCATC-G-GTACAGATATGTGAGAGCT
1 AGTGTAAGACCATGTCTGGGACATGGCATCAGCCT-C-GAGATGT---AGCT
* * * * ** *
170948289 AGTGTAAGACCATGTTTGGTACATGGCATCGGCCTTGATTTCGATAGTT
1 AGTGTAAGACCATGTCTGGGACATGGCATCAGCCTCGAGAT-G-TAGCT
* * * * *
170948338 AATGTAAGACCATATCTGGGACATGGCATC-GACTTGATGGATGT-GCC
1 AGTGTAAGACCATGTCTGGGACATGGCATCAGCCTCGA--GATGTAGCT
* *
170948385 AGTGTAAGACCATGTCTGGGACATAGTATCAGC
1 AGTGTAAGACCATGTCTGGGACATGGCATCAGC
170948418 ACTATAACGT
Statistics
Matches: 177, Mismatches: 31, Indels: 28
0.75 0.13 0.12
Matches are distributed among these distances:
44 10 0.06
45 18 0.10
46 45 0.25
47 27 0.15
48 8 0.05
49 30 0.17
50 35 0.20
51 2 0.01
52 2 0.01
ACGTcount: A:0.28, C:0.17, G:0.28, T:0.27
Consensus pattern (47 bp):
AGTGTAAGACCATGTCTGGGACATGGCATCAGCCTCGAGATGTAGCT
Found at i:170948362 original size:49 final size:50
Alignment explanation
Indices: 170948236--170948368 Score: 155
Period size: 50 Copynumber: 2.7 Consensus size: 50
170948226 TACGAGATGT
170948236 GTTAGTGTAAGACCATGTCTGGGACATGGCATCGGTACAGATATGTGAGA
1 GTTAGTGTAAGACCATGTCTGGGACATGGCATCGGTACAGATATGTGAGA
* * * * * *
170948286 GCTAGTGTAAGACCATGTTTGGTACATGGCATCGG-CCTTGAT-T-TCGATA
1 GTTAGTGTAAGACCATGTCTGGGACATGGCATCGGTAC-AGATATGT-GAGA
* *
170948335 GTTAATGTAAGACCATATCTGGGACATGGCATCG
1 GTTAGTGTAAGACCATGTCTGGGACATGGCATCG
170948369 ACTTGATGGA
Statistics
Matches: 70, Mismatches: 11, Indels: 5
0.81 0.13 0.06
Matches are distributed among these distances:
48 1 0.01
49 34 0.49
50 35 0.50
ACGTcount: A:0.26, C:0.17, G:0.29, T:0.29
Consensus pattern (50 bp):
GTTAGTGTAAGACCATGTCTGGGACATGGCATCGGTACAGATATGTGAGA
Found at i:170954200 original size:42 final size:41
Alignment explanation
Indices: 170954152--170954266 Score: 124
Period size: 42 Copynumber: 2.7 Consensus size: 41
170954142 GATTTCATGT
*
170954152 AAGACCATGTCTAGGACATTGGCATCGATATGAGATTTGTGG
1 AAGACCATGTCT-GGACATTGGCATCGATATGAGATTCGTGG
* ** *
170954194 AAGACCATGTTTGGGACATTGGTGTCGATATGAGATTCGTGT
1 AAGACCATGTCT-GGACATTGGCATCGATATGAGATTCGTGG
* *
170954236 AAGACCGTAG-CTGGGCTATTGGCATCGATAT
1 AAGACCAT-GTCTGGAC-ATTGGCATCGATAT
170954267 ACTATAACAT
Statistics
Matches: 60, Mismatches: 11, Indels: 4
0.80 0.15 0.05
Matches are distributed among these distances:
41 3 0.05
42 56 0.93
43 1 0.02
ACGTcount: A:0.26, C:0.15, G:0.30, T:0.30
Consensus pattern (41 bp):
AAGACCATGTCTGGACATTGGCATCGATATGAGATTCGTGG
Found at i:170954602 original size:17 final size:17
Alignment explanation
Indices: 170954580--170954617 Score: 76
Period size: 17 Copynumber: 2.2 Consensus size: 17
170954570 TTGTTTTAAT
170954580 TATATATACATAAGGTA
1 TATATATACATAAGGTA
170954597 TATATATACATAAGGTA
1 TATATATACATAAGGTA
170954614 TATA
1 TATA
170954618 ACATGCGAAA
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
17 21 1.00
ACGTcount: A:0.47, C:0.05, G:0.11, T:0.37
Consensus pattern (17 bp):
TATATATACATAAGGTA
Found at i:170958824 original size:29 final size:29
Alignment explanation
Indices: 170958762--170958864 Score: 118
Period size: 29 Copynumber: 3.6 Consensus size: 29
170958752 GTGACGAGAT
* * *
170958762 TGGCACTGAGTGTGCGAGCTTGTAATGTA
1 TGGCACTAAGTGTGCGAGCTTGGAATATA
* * *
170958791 CGGCACTAAGTGTGCGAGTTTGGACTATA
1 TGGCACTAAGTGTGCGAGCTTGGAATATA
* *
170958820 TGGCACTATGTGTGCGGGCTT-GAATCATA
1 TGGCACTAAGTGTGCGAGCTTGGAAT-ATA
170958849 TGGCACTAAGTGTGCG
1 TGGCACTAAGTGTGCG
170958865 TGATTGAGTA
Statistics
Matches: 61, Mismatches: 12, Indels: 2
0.81 0.16 0.03
Matches are distributed among these distances:
28 3 0.05
29 58 0.95
ACGTcount: A:0.21, C:0.17, G:0.33, T:0.29
Consensus pattern (29 bp):
TGGCACTAAGTGTGCGAGCTTGGAATATA
Found at i:170966828 original size:29 final size:29
Alignment explanation
Indices: 170966766--170966868 Score: 118
Period size: 29 Copynumber: 3.6 Consensus size: 29
170966756 GTGACGAGAT
* * *
170966766 TGGCACTGAGTGTGCGAGCTTGTAATGTA
1 TGGCACTAAGTGTGCGAGCTTGGAATATA
* * *
170966795 CGGCACTAAGTGTGCGAGTTTGGACTATA
1 TGGCACTAAGTGTGCGAGCTTGGAATATA
* *
170966824 TGGCACTATGTGTGCGGGCTT-GAATCATA
1 TGGCACTAAGTGTGCGAGCTTGGAAT-ATA
170966853 TGGCACTAAGTGTGCG
1 TGGCACTAAGTGTGCG
170966869 TGATTGAGTA
Statistics
Matches: 61, Mismatches: 12, Indels: 2
0.81 0.16 0.03
Matches are distributed among these distances:
28 3 0.05
29 58 0.95
ACGTcount: A:0.21, C:0.17, G:0.33, T:0.29
Consensus pattern (29 bp):
TGGCACTAAGTGTGCGAGCTTGGAATATA
Found at i:170972101 original size:40 final size:40
Alignment explanation
Indices: 170972056--170972185 Score: 142
Period size: 40 Copynumber: 3.2 Consensus size: 40
170972046 CGGAATATAA
170972056 CCGGATATAAGCATGTGCACAAATGCCTTCGGGTCTTAGC
1 CCGGATATAAGCATGTGCACAAATGCCTTCGGGTCTTAGC
* * *
170972096 CCGGATAGAATG-ACT-CGCACGAATGCCTTCGGGTCTTAGC
1 CCGGATATAA-GCA-TGTGCACAAATGCCTTCGGGTCTTAGC
* * *
170972136 CCGGATAT-AGC-CGCTAGCACAATTGCCTTCGGGTCTTAAC
1 CCGGATATAAGCATG-T-GCACAAATGCCTTCGGGTCTTAGC
170972176 CCGGATATAA
1 CCGGATATAA
170972186 TTTCCAGCAT
Statistics
Matches: 74, Mismatches: 9, Indels: 13
0.77 0.09 0.14
Matches are distributed among these distances:
38 1 0.01
39 1 0.01
40 69 0.93
41 3 0.04
ACGTcount: A:0.25, C:0.27, G:0.25, T:0.24
Consensus pattern (40 bp):
CCGGATATAAGCATGTGCACAAATGCCTTCGGGTCTTAGC
Found at i:170972200 original size:40 final size:40
Alignment explanation
Indices: 170972072--170972222 Score: 155
Period size: 40 Copynumber: 3.8 Consensus size: 40
170972062 ATAAGCATGT
* * *
170972072 GCACAAATGCCTTCGGGTCTTAGCCCGGATAGAATGACTC-
1 GCACAATTGCCTTCGGGTCTTAGCCCGGATATAATCAC-CA
** * *
170972112 GCACGAA-TGCCTTCGGGTCTTAGCCCGGATATAGCCGCTA
1 GCAC-AATTGCCTTCGGGTCTTAGCCCGGATATAATCACCA
* **
170972152 GCACAATTGCCTTCGGGTCTTAACCCGGATATAATTTCCA
1 GCACAATTGCCTTCGGGTCTTAGCCCGGATATAATCACCA
* *
170972192 GCATAATTGTCTTCGGG-CTTAGCCCGGATAT
1 GCACAATTGCCTTCGGGTCTTAGCCCGGATAT
170972223 CATTCAATTT
Statistics
Matches: 93, Mismatches: 15, Indels: 7
0.81 0.13 0.06
Matches are distributed among these distances:
39 15 0.16
40 76 0.82
41 2 0.02
ACGTcount: A:0.23, C:0.27, G:0.24, T:0.26
Consensus pattern (40 bp):
GCACAATTGCCTTCGGGTCTTAGCCCGGATATAATCACCA
Found at i:170972206 original size:80 final size:79
Alignment explanation
Indices: 170972072--170972222 Score: 198
Period size: 80 Copynumber: 1.9 Consensus size: 79
170972062 ATAAGCATGT
*
170972072 GCACAAATGCCTTCGGGTCTTAGCCCGGATAGAATGACTCGCACGAATGCCTTCGGGTCTTAGCC
1 GCACAAATGCCTTCGGGTCTTAACCCGGATAGAATGACTCGCACGAATGCCTTCGGG-CTTAGCC
170972137 CGGATATAGCCGCTA
65 CGGATATAGCCGCTA
* * ** * *
170972152 GCACAATTGCCTTCGGGTCTTAACCCGGATATAATTTC-CAGCA-TAATTGTCTTCGGGCTTAGC
1 GCACAAATGCCTTCGGGTCTTAACCCGGATAGAATGACTC-GCACGAA-TGCCTTCGGGCTTAGC
170972215 CCGGATAT
64 CCGGATAT
170972223 CATTCAATTT
Statistics
Matches: 62, Mismatches: 7, Indels: 5
0.84 0.09 0.07
Matches are distributed among these distances:
79 17 0.27
80 45 0.73
ACGTcount: A:0.23, C:0.27, G:0.24, T:0.26
Consensus pattern (79 bp):
GCACAAATGCCTTCGGGTCTTAACCCGGATAGAATGACTCGCACGAATGCCTTCGGGCTTAGCCC
GGATATAGCCGCTA
Found at i:170974934 original size:13 final size:13
Alignment explanation
Indices: 170974913--170974945 Score: 50
Period size: 13 Copynumber: 2.6 Consensus size: 13
170974903 CTTTTTTAAA
*
170974913 TTAGTTAATTAGT
1 TTAGATAATTAGT
170974926 TTAGATAATTAGT
1 TTAGATAATTAGT
170974939 TTA-ATAA
1 TTAGATAA
170974946 ACAAACCCTT
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
12 4 0.21
13 15 0.79
ACGTcount: A:0.39, C:0.00, G:0.12, T:0.48
Consensus pattern (13 bp):
TTAGATAATTAGT
Found at i:170980324 original size:14 final size:13
Alignment explanation
Indices: 170980305--170980370 Score: 62
Period size: 13 Copynumber: 4.8 Consensus size: 13
170980295 TCCTCCTATC
170980305 TTTTTATTCTTATT
1 TTTTTATT-TTATT
170980319 TTTTTATTTTATT
1 TTTTTATTTTATT
*
170980332 TTTAT-TTTTATT
1 TTTTTATTTTATT
170980344 TTCATTTCAATTTTATT
1 TT--TTT--ATTTTATT
*
170980361 ATTTTATTTT
1 TTTTTATTTT
170980371 GAAAACATAT
Statistics
Matches: 44, Mismatches: 3, Indels: 11
0.76 0.05 0.19
Matches are distributed among these distances:
12 9 0.20
13 14 0.32
14 10 0.23
15 3 0.07
17 8 0.18
ACGTcount: A:0.18, C:0.05, G:0.00, T:0.77
Consensus pattern (13 bp):
TTTTTATTTTATT
Found at i:170980328 original size:6 final size:6
Alignment explanation
Indices: 170980305--170980350 Score: 56
Period size: 6 Copynumber: 7.5 Consensus size: 6
170980295 TCCTCCTATC
* * *
170980305 TTTTTA TTCTTA TTTTTT TATTTTA TTTTTA TTTTTA TTTTCA TTT
1 TTTTTA TTTTTA TTTTTA T-TTTTA TTTTTA TTTTTA TTTTTA TTT
170980351 CAATTTTATT
Statistics
Matches: 34, Mismatches: 5, Indels: 2
0.83 0.12 0.05
Matches are distributed among these distances:
6 29 0.85
7 5 0.15
ACGTcount: A:0.15, C:0.04, G:0.00, T:0.80
Consensus pattern (6 bp):
TTTTTA
Found at i:170983274 original size:13 final size:13
Alignment explanation
Indices: 170983258--170983290 Score: 50
Period size: 13 Copynumber: 2.6 Consensus size: 13
170983248 TTCAATTAAA
*
170983258 TTAGTTAATTAGT
1 TTAGATAATTAGT
170983271 TTAGATAATTAGT
1 TTAGATAATTAGT
170983284 TTA-ATAA
1 TTAGATAA
170983291 ACAAACCCTT
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
12 4 0.21
13 15 0.79
ACGTcount: A:0.39, C:0.00, G:0.12, T:0.48
Consensus pattern (13 bp):
TTAGATAATTAGT
Found at i:170997658 original size:25 final size:27
Alignment explanation
Indices: 170997621--170997673 Score: 74
Period size: 26 Copynumber: 2.0 Consensus size: 27
170997611 TCAAACCTGC
170997621 ATTTAGGTCAATTTAAC-CCTAGGGGT
1 ATTTAGGTCAATTTAACTCCTAGGGGT
* *
170997647 ATTTCGGT-AATTTATCTCCTAGGGGT
1 ATTTAGGTCAATTTAACTCCTAGGGGT
170997673 A
1 A
170997674 AAATTGTAAA
Statistics
Matches: 24, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
25 7 0.29
26 17 0.71
ACGTcount: A:0.25, C:0.15, G:0.23, T:0.38
Consensus pattern (27 bp):
ATTTAGGTCAATTTAACTCCTAGGGGT
Found at i:170999884 original size:40 final size:39
Alignment explanation
Indices: 170999833--170999981 Score: 153
Period size: 40 Copynumber: 3.8 Consensus size: 39
170999823 TATAACACGT
*
170999833 GCACAAATGCCTTCGGGTCTTAGCCCGGATAGAATGTCTC
1 GCACAATTGCCTTCGGGTCTTAGCCCGGATAGAAT-TCTC
* *
170999873 GCACGAA-TGCCTTCGGGTCTTAGCCCGGATAGCCA--CTA
1 GCAC-AATTGCCTTCGGGTCTTAGCCCGGATAG-AATTCTC
* *
170999911 GCACAATTGCCTTCGGGTCTTAACCCGGATATAATT-TCC
1 GCACAATTGCCTTCGGGTCTTAGCCCGGATAGAATTCT-C
* * *
170999950 AGCATAATTGTCTTCGGGGCTTAGCCCGGATA
1 -GCACAATTGCCTTCGGGTCTTAGCCCGGATA
170999982 TCATTCAATT
Statistics
Matches: 92, Mismatches: 10, Indels: 14
0.79 0.09 0.12
Matches are distributed among these distances:
37 3 0.03
38 30 0.33
40 56 0.61
41 3 0.03
ACGTcount: A:0.22, C:0.28, G:0.24, T:0.26
Consensus pattern (39 bp):
GCACAATTGCCTTCGGGTCTTAGCCCGGATAGAATTCTC
Found at i:170999922 original size:78 final size:78
Alignment explanation
Indices: 170999833--170999981 Score: 203
Period size: 78 Copynumber: 1.9 Consensus size: 78
170999823 TATAACACGT
* *
170999833 GCACAAATGCCTTCGGGTCTTAGCCCGGATAGAATGTCTC-GCACGAA-TGCCTTCGGGTCTTAG
1 GCACAAATGCCTTCGGGTCTTAACCCGGATAGAATGTC-CAGCA-GAATTGCCTTCGGGGCTTAG
170999896 CCCGGATAGCCACTA
64 CCCGGATAGCCACTA
* * * * *
170999911 GCACAATTGCCTTCGGGTCTTAACCCGGATATAATTTCCAGCATAATTGTCTTCGGGGCTTAGCC
1 GCACAAATGCCTTCGGGTCTTAACCCGGATAGAATGTCCAGCAGAATTGCCTTCGGGGCTTAGCC
170999976 CGGATA
66 CGGATA
170999982 TCATTCAATT
Statistics
Matches: 62, Mismatches: 7, Indels: 4
0.85 0.10 0.05
Matches are distributed among these distances:
77 3 0.05
78 59 0.95
ACGTcount: A:0.22, C:0.28, G:0.24, T:0.26
Consensus pattern (78 bp):
GCACAAATGCCTTCGGGTCTTAACCCGGATAGAATGTCCAGCAGAATTGCCTTCGGGGCTTAGCC
CGGATAGCCACTA
Found at i:171007850 original size:40 final size:40
Alignment explanation
Indices: 171007805--171007970 Score: 176
Period size: 40 Copynumber: 4.2 Consensus size: 40
171007795 CGGAATATAA
171007805 CCGGATATAATCACGT-GCACAAATGCCTTCGGGTCTTAGC
1 CCGGATATAATCAC-TAGCACAAATGCCTTCGGGTCTTAGC
* * *
171007845 CCGGATAGAAT-ACTCGCACGAATGCCTTCGGGTCTTAGC
1 CCGGATATAATCACTAGCACAAATGCCTTCGGGTCTTAGC
* ** * *
171007884 CCGGATGTAGCCACTAGCACAATTGCCTTCGGGTCTTAAC
1 CCGGATATAATCACTAGCACAAATGCCTTCGGGTCTTAGC
** * * * *
171007924 CCGGATATAATTTCCAGCATAATTGTCTTCGGG-CTTAGC
1 CCGGATATAATCACTAGCACAAATGCCTTCGGGTCTTAGC
171007963 CCGGATAT
1 CCGGATAT
171007971 CATTCAATTT
Statistics
Matches: 105, Mismatches: 19, Indels: 5
0.81 0.15 0.04
Matches are distributed among these distances:
38 1 0.01
39 45 0.43
40 59 0.56
ACGTcount: A:0.23, C:0.27, G:0.23, T:0.27
Consensus pattern (40 bp):
CCGGATATAATCACTAGCACAAATGCCTTCGGGTCTTAGC
Found at i:171007869 original size:39 final size:40
Alignment explanation
Indices: 171007821--171007930 Score: 136
Period size: 39 Copynumber: 2.8 Consensus size: 40
171007811 ATAATCACGT
* *
171007821 GCACAAATGCCTTCGGGTCTTAGCCCGGATAG-A-ATACTC
1 GCAC-AATGCCTTCGGGTCTTAGCCCGGATAGTAGACACTA
*
171007860 GCACGAATGCCTTCGGGTCTTAGCCCGGAT-GTAGCCACTA
1 GCAC-AATGCCTTCGGGTCTTAGCCCGGATAGTAGACACTA
*
171007900 GCACAATTGCCTTCGGGTCTTAACCCGGATA
1 GCACAA-TGCCTTCGGGTCTTAGCCCGGATA
171007931 TAATTTCCAG
Statistics
Matches: 62, Mismatches: 5, Indels: 6
0.85 0.07 0.08
Matches are distributed among these distances:
38 1 0.02
39 32 0.52
40 29 0.47
ACGTcount: A:0.23, C:0.29, G:0.25, T:0.24
Consensus pattern (40 bp):
GCACAATGCCTTCGGGTCTTAGCCCGGATAGTAGACACTA
Found at i:171023714 original size:160 final size:160
Alignment explanation
Indices: 171023450--171023834 Score: 702
Period size: 160 Copynumber: 2.4 Consensus size: 160
171023440 TGTTTTTTTC
*
171023450 CAAAAATCAACTCATATTGCGAGAAGTGAGTAGAGCCTCAGGGCACGCTGAGGTATTTTCAATTT
1 CAAAAATCAACTCATATTGCGAGAAGTGAGTTGAGCCTCAGGGCACGCTGAGGTATTTTCAATTT
*
171023515 CTGCTTTTTAATTCATGTTTTCCAAGAAAATTAGCTCATATTGCGAGAGGTGAGTTGAGCCTCAA
66 CTGCTTTTTAATTCATGTTTTCCAAGAAAATCAGCTCATATTGCGAGAGGTGAGTTGAGCCTCAA
171023580 GACACGTTGAGGTAATTTCAATTTATGTTT
131 GACACGTTGAGGTAATTTCAATTTATGTTT
*
171023610 CAAAAATCAACTCGTATTGCGAGAAGTGAGTTGAGCCTCAGGGCACGCTGAGGTATTTTCAATTT
1 CAAAAATCAACTCATATTGCGAGAAGTGAGTTGAGCCTCAGGGCACGCTGAGGTATTTTCAATTT
171023675 CTGCTTTTTAATTCATGTTTTCCAAGAAAATCAGCTCATATTGCGAGAGGTGAGTTGAGCCTCAA
66 CTGCTTTTTAATTCATGTTTTCCAAGAAAATCAGCTCATATTGCGAGAGGTGAGTTGAGCCTCAA
171023740 GACACGTTGAGGTAATTTCAATTTATGTTT
131 GACACGTTGAGGTAATTTCAATTTATGTTT
*
171023770 CAAAAATCAACTCATATTGCGAGAAGTGAGTTGAGCCTC-GCGGCACGCTAAGGTATTCTT-AAT
1 CAAAAATCAACTCATATTGCGAGAAGTGAGTTGAGCCTCAG-GGCACGCTGAGGTATT-TTCAAT
171023833 TT
64 TT
171023835 TTGTTGTTTC
Statistics
Matches: 218, Mismatches: 5, Indels: 4
0.96 0.02 0.02
Matches are distributed among these distances:
159 1 0.00
160 215 0.99
161 2 0.01
ACGTcount: A:0.29, C:0.17, G:0.22, T:0.32
Consensus pattern (160 bp):
CAAAAATCAACTCATATTGCGAGAAGTGAGTTGAGCCTCAGGGCACGCTGAGGTATTTTCAATTT
CTGCTTTTTAATTCATGTTTTCCAAGAAAATCAGCTCATATTGCGAGAGGTGAGTTGAGCCTCAA
GACACGTTGAGGTAATTTCAATTTATGTTT
Found at i:171023824 original size:71 final size:73
Alignment explanation
Indices: 171023701--171023875 Score: 221
Period size: 71 Copynumber: 2.4 Consensus size: 73
171023691 GTTTTCCAAG
* * * *
171023701 AAAATCAGCTCATATTGCGAGAGGTGAGTTGAGCCTCAAGACACGTTGAGGTAATT-TCAA-TTT
1 AAAATCAACTCATATTGCGAGAAGTGAGTTGAGCCTCAAGACACGCTAAGGT-ATTCTCAATTTT
171023764 -ATGTTTCA
65 GATGTTTCA
** * *
171023772 AAAATCAACTCATATTGCGAGAAGTGAGTTGAGCCTCGCGGCACGCTAAGGTATTCTTAATTTTT
1 AAAATCAACTCATATTGCGAGAAGTGAGTTGAGCCTCAAGACACGCTAAGGTATTCTCAA-TTTT
*
171023837 GTTGTTTCA
65 GATGTTTCA
*
171023846 AAAATCAACTCATGTTGCGAGAAGTGAGTT
1 AAAATCAACTCATATTGCGAGAAGTGAGTT
171023876 AAGCTTTTTA
Statistics
Matches: 90, Mismatches: 10, Indels: 5
0.86 0.10 0.05
Matches are distributed among these distances:
70 3 0.03
71 48 0.53
73 3 0.03
74 36 0.40
ACGTcount: A:0.30, C:0.16, G:0.22, T:0.31
Consensus pattern (73 bp):
AAAATCAACTCATATTGCGAGAAGTGAGTTGAGCCTCAAGACACGCTAAGGTATTCTCAATTTTG
ATGTTTCA
Found at i:171023976 original size:14 final size:14
Alignment explanation
Indices: 171023957--171023984 Score: 56
Period size: 14 Copynumber: 2.0 Consensus size: 14
171023947 CTGAGGTCTT
171023957 TTCAATTTCTGTTC
1 TTCAATTTCTGTTC
171023971 TTCAATTTCTGTTC
1 TTCAATTTCTGTTC
171023985 GTAAAAAAAA
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 14 1.00
ACGTcount: A:0.14, C:0.21, G:0.07, T:0.57
Consensus pattern (14 bp):
TTCAATTTCTGTTC
Found at i:171024101 original size:74 final size:72
Alignment explanation
Indices: 171023990--171024213 Score: 261
Period size: 74 Copynumber: 3.0 Consensus size: 72
171023980 TGTTCGTAAA
*
171023990 AAAAATCAACTCATATT-ACAAGAGGTGAGTTGAGCCTCAGGACACGCTGAGGTATTTTTAAATT
1 AAAAATCAACTCATATTGAGAA-AGGTGAGTTGAGCCTC-GGACACGCTGAGGTATTTTT-AATT
171024054 TCTGTTTTTC
63 TCTGTTTTTC
* * * * *
171024064 AAAAATCAACTCATATTGTGAAAGGTGAGTTGGGCCTCGGGACACGCTGAGGTAATTTCAATTTT
1 AAAAATCAACTCATATTGAGAAAGGTGAGTTGAGCCTC-GGACACGCTGAGGTATTTTTAATTTC
*
171024129 TGTTTGTC
65 TGTTTTTC
* * * * *
171024137 AAAAATTAACTCATATTGCGAGAGGTGAGTTGAGCCTCGGCTCACATGCTGAGGTCTTTTTAATT
1 AAAAATCAACTCATATTGAGAAAGGTGAGTTGAGCCTCGG---ACACGCTGAGGTATTTTTAATT
*
171024202 TCTGCTTTTC
63 TCTGTTTTTC
171024212 AA
1 AA
171024214 TTTTTTTTTT
Statistics
Matches: 127, Mismatches: 19, Indels: 7
0.83 0.12 0.05
Matches are distributed among these distances:
72 2 0.02
73 46 0.36
74 50 0.39
75 29 0.23
ACGTcount: A:0.28, C:0.17, G:0.21, T:0.34
Consensus pattern (72 bp):
AAAAATCAACTCATATTGAGAAAGGTGAGTTGAGCCTCGGACACGCTGAGGTATTTTTAATTTCT
GTTTTTC
Found at i:171024163 original size:73 final size:74
Alignment explanation
Indices: 171023990--171024176 Score: 268
Period size: 73 Copynumber: 2.5 Consensus size: 74
171023980 TGTTCGTAAA
* * * *
171023990 AAAAATCAACTCATATTACAAGAGGTGAGTTGAGCCTCAGGACACGCTGAGGTATTTTTAAATTT
1 AAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCGGGACACGCTGAGGTATATTTAAATTT
*
171024055 CTGTTTTTC
66 CTGTTTGTC
* * * *
171024064 AAAAATCAACTCATATTGTGAAAGGTGAGTTGGGCCTCGGGACACGCTGAGGTA-ATTTCAATTT
1 AAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCGGGACACGCTGAGGTATATTTAAATTT
*
171024128 TTGTTTGTC
66 CTGTTTGTC
*
171024137 AAAAATTAACTCATATTGCGAGAGGTGAGTTGAGCCTCGG
1 AAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCGG
171024177 CTCACATGCT
Statistics
Matches: 99, Mismatches: 14, Indels: 1
0.87 0.12 0.01
Matches are distributed among these distances:
73 51 0.52
74 48 0.48
ACGTcount: A:0.30, C:0.16, G:0.23, T:0.32
Consensus pattern (74 bp):
AAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCGGGACACGCTGAGGTATATTTAAATTT
CTGTTTGTC
Found at i:171024326 original size:58 final size:59
Alignment explanation
Indices: 171024235--171024359 Score: 164
Period size: 58 Copynumber: 2.1 Consensus size: 59
171024225 TAATTTATAT
* * *
171024235 TTTTCAAAATCAACTCATATTGCGAGATGTGAGTTGAGCCTTGGGTTCACATGTCGAGGTA
1 TTTTCAAAATCAACT-ATATTGCGAGAGGTGAGTTGAGCCTT-GGCTCACATGTCGAGCTA
* * *
171024296 TTTTCAAAATCTACT-T-TTGCGAGAGGTGAGTTGAGCCTTGGCTCACGTGTTGAGCTA
1 TTTTCAAAATCAACTATATTGCGAGAGGTGAGTTGAGCCTTGGCTCACATGTCGAGCTA
171024353 TTTTCAA
1 TTTTCAA
171024360 TTTCTGTTTT
Statistics
Matches: 58, Mismatches: 6, Indels: 4
0.85 0.09 0.06
Matches are distributed among these distances:
57 21 0.36
58 22 0.38
59 1 0.02
61 14 0.24
ACGTcount: A:0.24, C:0.17, G:0.24, T:0.35
Consensus pattern (59 bp):
TTTTCAAAATCAACTATATTGCGAGAGGTGAGTTGAGCCTTGGCTCACATGTCGAGCTA
Found at i:171025444 original size:15 final size:15
Alignment explanation
Indices: 171025426--171025457 Score: 55
Period size: 15 Copynumber: 2.1 Consensus size: 15
171025416 TTATTAAAAA
*
171025426 AATAAATATTTACAT
1 AATAAATATTTAAAT
171025441 AATAAATATTTAAAT
1 AATAAATATTTAAAT
171025456 AA
1 AA
171025458 AAAAGGAAAT
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:0.03, G:0.00, T:0.38
Consensus pattern (15 bp):
AATAAATATTTAAAT
Found at i:171028733 original size:26 final size:26
Alignment explanation
Indices: 171028697--171028832 Score: 227
Period size: 26 Copynumber: 5.2 Consensus size: 26
171028687 CATGAAATTC
*
171028697 TTATCATGAAACATTTACCTAACCCA
1 TTATCATGAAACATTTACCTAACCTA
*
171028723 TTATCATGAAACATTTACCTAACCCA
1 TTATCATGAAACATTTACCTAACCTA
*
171028749 TTATCATGGAACATTTACCTAACCTA
1 TTATCATGAAACATTTACCTAACCTA
*
171028775 TTATCATGGAACATTTACCTAACCTA
1 TTATCATGAAACATTTACCTAACCTA
*
171028801 TTATCATAAAACATTTACCTAACCTA
1 TTATCATGAAACATTTACCTAACCTA
171028827 TTATCA
1 TTATCA
171028833 ATTTGTATCA
Statistics
Matches: 106, Mismatches: 4, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
26 106 1.00
ACGTcount: A:0.38, C:0.24, G:0.04, T:0.34
Consensus pattern (26 bp):
TTATCATGAAACATTTACCTAACCTA
Found at i:171032635 original size:64 final size:64
Alignment explanation
Indices: 171032562--171032772 Score: 151
Period size: 64 Copynumber: 3.2 Consensus size: 64
171032552 CTGGGCCAGA
*
171032562 GCCCTTTTCAGATTACAATAAACTGGGCCTTAGCCCCTTATTCAGATAACAGTATGGCCCATAG
1 GCCCATTTCAGATTACAATAAACTGGGCCTTAGCCCCTTATTCAGATAACAGTATGGCCCATAG
* * * *** * ** *
171032626 GCCCATTTCAAAATAC-ATGCAACATCAGTAAACATATGCAAGCCC--ATTTGGGTAACAGTGGT
1 GCCCATTTCAGATTACAAT--AA-A-CTG-GGCCTTA-GC---CCCTTATTCAGATAACA---GT
* *
171032688 ACTGGGCCAGA-
54 A-TGGCCCATAG
*
171032699 GCCCTTTTCAGATTACAATAAACTGGGCCTTAGCCCCTTATTCAGATAACAGTATGGCCCATAG
1 GCCCATTTCAGATTACAATAAACTGGGCCTTAGCCCCTTATTCAGATAACAGTATGGCCCATAG
171032763 GCCCATTTCA
1 GCCCATTTCA
171032773 AAATACATGC
Statistics
Matches: 103, Mismatches: 27, Indels: 34
0.63 0.16 0.21
Matches are distributed among these distances:
63 9 0.09
64 25 0.24
65 5 0.05
66 1 0.01
67 11 0.11
68 5 0.05
69 5 0.05
70 11 0.11
71 1 0.01
72 5 0.05
73 16 0.16
74 9 0.09
ACGTcount: A:0.30, C:0.26, G:0.18, T:0.26
Consensus pattern (64 bp):
GCCCATTTCAGATTACAATAAACTGGGCCTTAGCCCCTTATTCAGATAACAGTATGGCCCATAG
Found at i:171032736 original size:137 final size:137
Alignment explanation
Indices: 171032528--171032814 Score: 547
Period size: 137 Copynumber: 2.1 Consensus size: 137
171032518 CATTGGGCCT
**
171032528 AAGCCCATTCAGGTAACAGTGGTACTGGGCCAGAGCCCTTTTCAGATTACAATAAACTGGGCCTT
1 AAGCCCATTTGGGTAACAGTGGTACTGGGCCAGAGCCCTTTTCAGATTACAATAAACTGGGCCTT
*
171032593 AGCCCCTTATTCAGATAACAGTATGGCCCATAGGCCCATTTCAAAATACATGCAACATCAGTAAA
66 AGCCCCTTATTCAGATAACAGTATGGCCCATAGGCCCATTTCAAAATACATGCAACATCAATAAA
171032658 CATATGC
131 CATATGC
171032665 AAGCCCATTTGGGTAACAGTGGTACTGGGCCAGAGCCCTTTTCAGATTACAATAAACTGGGCCTT
1 AAGCCCATTTGGGTAACAGTGGTACTGGGCCAGAGCCCTTTTCAGATTACAATAAACTGGGCCTT
171032730 AGCCCCTTATTCAGATAACAGTATGGCCCATAGGCCCATTTCAAAATACATGCAACATCAATAAA
66 AGCCCCTTATTCAGATAACAGTATGGCCCATAGGCCCATTTCAAAATACATGCAACATCAATAAA
171032795 CATATGC
131 CATATGC
171032802 AAGCCCATTTGGG
1 AAGCCCATTTGGG
171032815 GAGACTACTC
Statistics
Matches: 147, Mismatches: 3, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
137 147 1.00
ACGTcount: A:0.32, C:0.25, G:0.19, T:0.24
Consensus pattern (137 bp):
AAGCCCATTTGGGTAACAGTGGTACTGGGCCAGAGCCCTTTTCAGATTACAATAAACTGGGCCTT
AGCCCCTTATTCAGATAACAGTATGGCCCATAGGCCCATTTCAAAATACATGCAACATCAATAAA
CATATGC
Found at i:171034623 original size:26 final size:26
Alignment explanation
Indices: 171034587--171034720 Score: 218
Period size: 26 Copynumber: 5.2 Consensus size: 26
171034577 CATGAAATTC
*
171034587 TTATCATGAAACATTTACCTAACCCA
1 TTATCATGAAACATTTACCTAACCTA
*
171034613 TTATCATGAAACATTTACCTAACCCA
1 TTATCATGAAACATTTACCTAACCTA
*
171034639 TTATCATGGAACATTTACCTAACCTA
1 TTATCATGAAACATTTACCTAACCTA
*
171034665 TTATCATGGAACATTTACCTAACCTA
1 TTATCATGAAACATTTACCTAACCTA
171034691 TTATCAT--AACATTTACCTAACCTA
1 TTATCATGAAACATTTACCTAACCTA
171034715 TTATCA
1 TTATCA
171034721 ATTTGTATCA
Statistics
Matches: 106, Mismatches: 2, Indels: 2
0.96 0.02 0.02
Matches are distributed among these distances:
24 23 0.22
26 83 0.78
ACGTcount: A:0.37, C:0.25, G:0.04, T:0.34
Consensus pattern (26 bp):
TTATCATGAAACATTTACCTAACCTA
Found at i:171044784 original size:28 final size:27
Alignment explanation
Indices: 171044734--171044847 Score: 79
Period size: 28 Copynumber: 3.9 Consensus size: 27
171044724 CTATTCAGAA
*
171044734 ATCAGTGTTAA-CTGGGCCTTAGCCCAT
1 ATCAGTATTAATCTGGGCC-TAGCCCAT
171044761 ATCAGTATTAATCTGGGCCATAGCCC-T
1 ATCAGTATTAATCTGGGCC-TAGCCCAT
* *
171044788 ATTACAATATCAGAGCATACTGGGCCTAGCCCAT
1 A-T-CAGTAT--TA--AT-CTGGGCCTAGCCCAT
* *
171044822 ATCAGTATCAGTCTGGGCCGTAGCCC
1 ATCAGTATTAATCTGGGCC-TAGCCC
171044848 TATTACAAGT
Statistics
Matches: 70, Mismatches: 7, Indels: 19
0.73 0.07 0.20
Matches are distributed among these distances:
27 19 0.27
28 21 0.30
29 5 0.07
30 1 0.01
31 1 0.01
32 5 0.07
33 9 0.13
34 9 0.13
ACGTcount: A:0.25, C:0.27, G:0.21, T:0.26
Consensus pattern (27 bp):
ATCAGTATTAATCTGGGCCTAGCCCAT
Found at i:171044789 original size:62 final size:61
Alignment explanation
Indices: 171044711--171044855 Score: 179
Period size: 61 Copynumber: 2.4 Consensus size: 61
171044701 TCAAGCTTTA
* * *
171044711 CTGGGCCCA-AGCCCTATT-CAGAAATCAGTG-TTAACTGGGCCTTAGCCCATATCAGTATTAAT
1 CTGGG-CCATAGCCCTATTACA-AAATCAGAGCAT-ACTGGGCC-TAGCCCATATCAGTATCAAT
* *
171044773 CTGGGCCATAGCCCTATTACAATATCAGAGCATACTGGGCCTAGCCCATATCAGTATCAGT
1 CTGGGCCATAGCCCTATTACAAAATCAGAGCATACTGGGCCTAGCCCATATCAGTATCAAT
*
171044834 CTGGGCCGTAGCCCTATTACAA
1 CTGGGCCATAGCCCTATTACAA
171044856 GTCGAGATAT
Statistics
Matches: 74, Mismatches: 6, Indels: 7
0.85 0.07 0.08
Matches are distributed among these distances:
61 42 0.57
62 29 0.39
63 3 0.04
ACGTcount: A:0.27, C:0.28, G:0.20, T:0.26
Consensus pattern (61 bp):
CTGGGCCATAGCCCTATTACAAAATCAGAGCATACTGGGCCTAGCCCATATCAGTATCAAT
Found at i:171044930 original size:19 final size:20
Alignment explanation
Indices: 171044876--171044930 Score: 58
Period size: 20 Copynumber: 2.8 Consensus size: 20
171044866 ATTGGGCCTT
* *
171044876 GCCCATATTAACATAGTTGG
1 GCCCATATTAAAACAGTTGG
* *
171044896 GCCCATTTTAATACAGTT-G
1 GCCCATATTAAAACAGTTGG
*
171044915 GCCCATAATAAAACAG
1 GCCCATATTAAAACAG
171044931 CCTCATATGA
Statistics
Matches: 29, Mismatches: 6, Indels: 1
0.81 0.17 0.03
Matches are distributed among these distances:
19 14 0.48
20 15 0.52
ACGTcount: A:0.35, C:0.22, G:0.16, T:0.27
Consensus pattern (20 bp):
GCCCATATTAAAACAGTTGG
Done.