Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: At_chr8
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: 78745976
ACGTcount: A:0.31, C:0.17, G:0.17, T:0.31
Warning! 2640508 characters in sequence are not A, C, G, or T
File 181 of 235
Found at i:61565541 original size:54 final size:55
Alignment explanation
Indices: 61565444--61565811 Score: 335
Period size: 54 Copynumber: 6.8 Consensus size: 55
61565434 GTAAATCGAA
* * * * *
61565444 GGTACTTTGGTAATTTTTAC-AAGTCAAGGGTATTTTAGTAATTTTACAAATCGA-G
1 GGTATTTTGGTAA-TTTTACAAACT-GAGGGTATTTTAGTAATTTCACAAATCTAGG
* * **
61565499 GGTATTTTAGTAATTTTGCAAACTGAGGGTATTTCGGTAATTTCACAAATC-AGG
1 GGTATTTTGGTAATTTTACAAACTGAGGGTATTTTAGTAATTTCACAAATCTAGG
* * *** * *
61565553 GGCATTTTGGTAATTTTACAAACT-AGGGGTATTTTGGTAATTTTGTAAA-CCAAG
1 GGTATTTTGGTAATTTTACAAACTGA-GGGTATTTTAGTAATTTCACAAATCTAGG
* *
61565607 GGTATTTTGGTAATTTTAC-AAGTCAAGGGTATTTTAGTAATTTCACAAAT-TAGG
1 GGTATTTTGGTAATTTTACAAACT-GAGGGTATTTTAGTAATTTCACAAATCTAGG
* * *
61565661 GGTATTTTGGTAATTTTA-TAAGTCGAGGGTATTTCAGTAATTTCACAAAT-TAGG
1 GGTATTTTGGTAATTTTACAAACT-GAGGGTATTTTAGTAATTTCACAAATCTAGG
* ** * * *
61565715 GGTATTTTGGTAATTTCAC-AACCCAGGGGTATTTTGGTAATTTTACAAA-CCAGG
1 GGTATTTTGGTAATTTTACAAACTGA-GGGTATTTTAGTAATTTCACAAATCTAGG
* * *
61565769 GGTATTTTAGTAATTTTACAAATTGAGGGCATTTTAGTAATTT
1 GGTATTTTGGTAATTTTACAAACTGAGGGTATTTTAGTAATTT
61565812 GGTAAACTAA
Statistics
Matches: 260, Mismatches: 41, Indels: 25
0.80 0.13 0.08
Matches are distributed among these distances:
53 7 0.03
54 235 0.90
55 18 0.07
ACGTcount: A:0.30, C:0.09, G:0.21, T:0.40
Consensus pattern (55 bp):
GGTATTTTGGTAATTTTACAAACTGAGGGTATTTTAGTAATTTCACAAATCTAGG
Found at i:61565583 original size:81 final size:81
Alignment explanation
Indices: 61565444--61565811 Score: 370
Period size: 81 Copynumber: 4.5 Consensus size: 81
61565434 GTAAATCGAA
* * * *
61565444 GGTACTTT-GGTAATTTTTACAAGTCAAGGGTATTTTAGTAATTTTACAAA-TCGAGGGTATTTT
1 GGTA-TTTCGGTAA-TTTTACAAATCAGGGGTATTTTAGTAATTTCACAAACTAG-GGGTATTTT
*
61565507 AGTAATTTTGCAAACTGAG
63 GGTAATTTTGCAAACTGAG
* * * *
61565526 GGTATTTCGGTAATTTCACAAATCAGGGGCATTTTGGTAATTTTACAAACTAGGGGTATTTTGGT
1 GGTATTTCGGTAATTTTACAAATCAGGGGTATTTTAGTAATTTCACAAACTAGGGGTATTTTGGT
* **
61565591 AATTTTGTAAACCAAG
66 AATTTTGCAAACTGAG
* * * *
61565607 GGTATTTTGGTAATTTTACAAGTCAAGGGTATTTTAGTAATTTCACAAATTAGGGGTATTTTGGT
1 GGTATTTCGGTAATTTTACAAATCAGGGGTATTTTAGTAATTTCACAAACTAGGGGTATTTTGGT
*
61565672 AATTTT--ATAAGTCGAG
66 AATTTTGCA-AACT-GAG
* * * * * *
61565688 GGTATTTCAGTAATTTCACAAATTAGGGGTATTTTGGTAATTTCACAACCCAGGGGTATTTTGGT
1 GGTATTTCGGTAATTTTACAAATCAGGGGTATTTTAGTAATTTCACAAACTAGGGGTATTTTGGT
* *
61565753 AATTTTACAAAC-CAGG
66 AATTTTGCAAACTGA-G
** * *
61565769 GGTATTTTAGTAATTTTACAAAT-TGAGGGCATTTTAGTAATTT
1 GGTATTTCGGTAATTTTACAAATCAG-GGGTATTTTAGTAATTT
61565812 GGTAAACTAA
Statistics
Matches: 240, Mismatches: 38, Indels: 17
0.81 0.13 0.06
Matches are distributed among these distances:
79 1 0.00
80 4 0.02
81 221 0.92
82 13 0.05
83 1 0.00
ACGTcount: A:0.30, C:0.09, G:0.21, T:0.40
Consensus pattern (81 bp):
GGTATTTCGGTAATTTTACAAATCAGGGGTATTTTAGTAATTTCACAAACTAGGGGTATTTTGGT
AATTTTGCAAACTGAG
Found at i:61575287 original size:28 final size:28
Alignment explanation
Indices: 61575247--61575315 Score: 102
Period size: 28 Copynumber: 2.5 Consensus size: 28
61575237 GGCCATGTAC
*
61575247 GACACTTAGTGTGCAAGATATTGAGTGT
1 GACACTTAGTGTGCAAGATATTGAGTAT
* *
61575275 GACACTTAGTGTGCGAGATATTGGGTAT
1 GACACTTAGTGTGCAAGATATTGAGTAT
*
61575303 GGCACTTAGTGTG
1 GACACTTAGTGTG
61575316 TGAGGCATTG
Statistics
Matches: 37, Mismatches: 4, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
28 37 1.00
ACGTcount: A:0.25, C:0.12, G:0.32, T:0.32
Consensus pattern (28 bp):
GACACTTAGTGTGCAAGATATTGAGTAT
Found at i:61575325 original size:28 final size:28
Alignment explanation
Indices: 61575249--61575330 Score: 92
Period size: 28 Copynumber: 2.9 Consensus size: 28
61575239 CCATGTACGA
* * * *
61575249 CACTTAGTGTGCAAGATATTGAGTGTGA
1 CACTTAGTGTGCGAGACATTGAGTATGG
* *
61575277 CACTTAGTGTGCGAGATATTGGGTATGG
1 CACTTAGTGTGCGAGACATTGAGTATGG
* *
61575305 CACTTAGTGTGTGAGGCATTGAGTAT
1 CACTTAGTGTGCGAGACATTGAGTAT
61575331 TCAACGGATA
Statistics
Matches: 46, Mismatches: 8, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
28 46 1.00
ACGTcount: A:0.24, C:0.11, G:0.32, T:0.33
Consensus pattern (28 bp):
CACTTAGTGTGCGAGACATTGAGTATGG
Found at i:61585320 original size:37 final size:37
Alignment explanation
Indices: 61585270--61585348 Score: 122
Period size: 37 Copynumber: 2.1 Consensus size: 37
61585260 TTATTACGAA
* * *
61585270 GTCTTACCCGGACATAATCTCCACACGAAGTTATCGG
1 GTCTTACCCGGACAAAATCCCCACACGAAGTCATCGG
*
61585307 GTCTTACCCGGACAAAATCCCCACACGTAGTCATCGG
1 GTCTTACCCGGACAAAATCCCCACACGAAGTCATCGG
61585344 GTCTT
1 GTCTT
61585349 TAGAGCTCGG
Statistics
Matches: 38, Mismatches: 4, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
37 38 1.00
ACGTcount: A:0.25, C:0.32, G:0.19, T:0.24
Consensus pattern (37 bp):
GTCTTACCCGGACAAAATCCCCACACGAAGTCATCGG
Found at i:61585545 original size:47 final size:47
Alignment explanation
Indices: 61585467--61585877 Score: 750
Period size: 47 Copynumber: 8.7 Consensus size: 47
61585457 CCCTTCGGGA
* * * * * *
61585467 CTTATCACATTTATACACTTTCACATCCATCACGTTGGCCACTCGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
* *
61585514 CCTGTCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
61585561 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
61585608 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
61585655 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
61585702 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
61585749 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
61585796 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
61585843 CTTATCACATATATACACTTTCACATTCATCACAT
1 CTTATCACATATATACACTTTCACATTCATCACAT
61585878 AGAATCCTAA
Statistics
Matches: 354, Mismatches: 10, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
47 354 1.00
ACGTcount: A:0.29, C:0.30, G:0.08, T:0.32
Consensus pattern (47 bp):
CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
Found at i:61587039 original size:18 final size:18
Alignment explanation
Indices: 61587016--61587057 Score: 84
Period size: 18 Copynumber: 2.3 Consensus size: 18
61587006 CATATGCATT
61587016 TTTAATCACATCAAGCAA
1 TTTAATCACATCAAGCAA
61587034 TTTAATCACATCAAGCAA
1 TTTAATCACATCAAGCAA
61587052 TTTAAT
1 TTTAAT
61587058 ACAATTCATT
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
18 24 1.00
ACGTcount: A:0.43, C:0.19, G:0.05, T:0.33
Consensus pattern (18 bp):
TTTAATCACATCAAGCAA
Found at i:61588724 original size:31 final size:31
Alignment explanation
Indices: 61588683--61588746 Score: 101
Period size: 31 Copynumber: 2.1 Consensus size: 31
61588673 CCTTTTCATA
*
61588683 TTTCATATTTCATAACACTGGGCCGAAGCCT
1 TTTCAAATTTCATAACACTGGGCCGAAGCCT
**
61588714 TTTCAAATTTCATATTACTGGGCCGAAGCCT
1 TTTCAAATTTCATAACACTGGGCCGAAGCCT
61588745 TT
1 TT
61588747 ACTGTAAACG
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:0.25, C:0.23, G:0.16, T:0.36
Consensus pattern (31 bp):
TTTCAAATTTCATAACACTGGGCCGAAGCCT
Found at i:61589014 original size:23 final size:23
Alignment explanation
Indices: 61588960--61589101 Score: 221
Period size: 23 Copynumber: 6.1 Consensus size: 23
61588950 CCTAGCCTCT
* *
61588960 TTTAATAACTGGGACAAAAGCCC
1 TTTAATAACTGGGGCATAAGCCC
61588983 TTTTAATAACTGGGGCATAAGCCC
1 -TTTAATAACTGGGGCATAAGCCC
* *
61589007 TTTAATAACTGGGGCACAAGACC
1 TTTAATAACTGGGGCATAAGCCC
*
61589030 TTTAATAACTGGGGCACAAGCCC
1 TTTAATAACTGGGGCATAAGCCC
*
61589053 TTTAATAACTGAGGCATAAGCCC
1 TTTAATAACTGGGGCATAAGCCC
61589076 TTTAATAACTGGGGCATAAGCCC
1 TTTAATAACTGGGGCATAAGCCC
61589099 TTT
1 TTT
61589102 TGCACTTCCT
Statistics
Matches: 110, Mismatches: 8, Indels: 1
0.92 0.07 0.01
Matches are distributed among these distances:
23 89 0.81
24 21 0.19
ACGTcount: A:0.32, C:0.22, G:0.20, T:0.26
Consensus pattern (23 bp):
TTTAATAACTGGGGCATAAGCCC
Found at i:61589176 original size:20 final size:20
Alignment explanation
Indices: 61589148--61589188 Score: 73
Period size: 20 Copynumber: 2.0 Consensus size: 20
61589138 GCATTTATGA
*
61589148 ACATCTCATGTGCATATCAT
1 ACATATCATGTGCATATCAT
61589168 ACATATCATGTGCATATCAT
1 ACATATCATGTGCATATCAT
61589188 A
1 A
61589189 TGTAACACCC
Statistics
Matches: 20, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
20 20 1.00
ACGTcount: A:0.34, C:0.22, G:0.10, T:0.34
Consensus pattern (20 bp):
ACATATCATGTGCATATCAT
Found at i:61593737 original size:27 final size:27
Alignment explanation
Indices: 61593660--61593739 Score: 78
Period size: 27 Copynumber: 3.0 Consensus size: 27
61593650 TCATACGGAA
61593660 CATA-AGGGCATATT-C-GTCATTTTAC
1 CATACAGGGC-TATTACGGTCATTTTAC
* *
61593685 CATACAGGGGTATTACGGTCACTTTAC
1 CATACAGGGCTATTACGGTCATTTTAC
* *
61593712 CCTACAGGAGCT-TTACGGTCTTTTTAC
1 CATACAGG-GCTATTACGGTCATTTTAC
61593739 C
1 C
61593740 TAATAGGGGT
Statistics
Matches: 45, Mismatches: 6, Indels: 6
0.79 0.11 0.11
Matches are distributed among these distances:
25 8 0.18
26 5 0.11
27 30 0.67
28 2 0.04
ACGTcount: A:0.24, C:0.24, G:0.19, T:0.34
Consensus pattern (27 bp):
CATACAGGGCTATTACGGTCATTTTAC
Found at i:61593823 original size:27 final size:27
Alignment explanation
Indices: 61593793--61594076 Score: 142
Period size: 27 Copynumber: 10.4 Consensus size: 27
61593783 GTAAATCTAC
*
61593793 AAACCAAGGGTATTTCAGTAATTTTGT
1 AAACCAAGGGTATTTCAGTAATTTTAT
* *
61593820 AAACCAATGGTATTTCTA-TAATTTTTAG
1 AAACCAAGGGTATTTC-AGTAA-TTTTAT
* * * *
61593848 AAAGTCAAGGGTATTTCTGTAACTTTGT
1 AAA-CCAAGGGTATTTCAGTAATTTTAT
* * ** *
61593876 AAATCAGGGGTATTTTGGTAATTTTAC
1 AAACCAAGGGTATTTCAGTAATTTTAT
*** * * *
61593903 AAATTGAGGGTATTTCGGTAATTTCAC
1 AAACCAAGGGTATTTCAGTAATTTTAT
** *
61593930 AAACC-AGTGGTATTTTGGTAATTTTAC
1 AAACCAAG-GGTATTTCAGTAATTTTAT
* * ** *
61593957 AAACTAGGGGTATTTTGGTAATTTTAC
1 AAACCAAGGGTATTTCAGTAATTTTAT
* *
61593984 AAACCAAGGGTATTTTAGTAATTTTGT
1 AAACCAAGGGTATTTCAGTAATTTTAT
* * *** * *
61594011 AAATCGAGGGTAAAACAGTAATTCTGT
1 AAACCAAGGGTATTTCAGTAATTTTAT
* **
61594038 AAATCAAGGGTAAAAT-AGTAATTTTAT
1 AAACCAAGGGT-ATTTCAGTAATTTTAT
* *
61594065 AAATCGAGGGTA
1 AAACCAAGGGTA
61594077 AAACGGTAAT
Statistics
Matches: 207, Mismatches: 43, Indels: 15
0.78 0.16 0.06
Matches are distributed among these distances:
26 3 0.01
27 172 0.83
28 18 0.09
29 14 0.07
ACGTcount: A:0.34, C:0.09, G:0.20, T:0.37
Consensus pattern (27 bp):
AAACCAAGGGTATTTCAGTAATTTTAT
Found at i:61593898 original size:56 final size:54
Alignment explanation
Indices: 61593790--61594008 Score: 171
Period size: 54 Copynumber: 4.0 Consensus size: 54
61593780 TTGGTAAATC
* * *
61593790 TACAAACCAAGGGTATTTCAGTAATTTTGTAAACCAATGGTATTTCT-ATAATTTT
1 TACAAATCAAGGGTATTTCAGTAA-TTTGTAAACCAGTGGTATTT-TGGTAATTTT
* * * *
61593845 TAGAAAGTCAAGGGTATTTCTGTAACTTTGTAAATCAGGGGTATTTTGGTAA-TTT
1 TACAAA-TCAAGGGTATTTCAGTAA-TTTGTAAACCAGTGGTATTTTGGTAATTTT
** * **
61593900 TACAAATTGAGGGTATTTCGGTAATTTCACAAACCAGTGGTATTTTGGTAA-TTT
1 TACAAATCAAGGGTATTTCAGTAATTT-GTAAACCAGTGGTATTTTGGTAATTTT
* ** *
61593954 TACAAA-CTAGGGGTATTTTGGTAATTT-TACAAACCAAG-GGTATTTTAGTAATTTT
1 TACAAATC-AAGGGTATTTCAGTAATTTGT--AAACC-AGTGGTATTTTGGTAATTTT
61594009 GTAAATCGAG
Statistics
Matches: 134, Mismatches: 22, Indels: 16
0.78 0.13 0.09
Matches are distributed among these distances:
53 3 0.02
54 76 0.57
55 19 0.14
56 36 0.27
ACGTcount: A:0.32, C:0.10, G:0.19, T:0.40
Consensus pattern (54 bp):
TACAAATCAAGGGTATTTCAGTAATTTGTAAACCAGTGGTATTTTGGTAATTTT
Found at i:61593942 original size:54 final size:54
Alignment explanation
Indices: 61593883--61594022 Score: 185
Period size: 54 Copynumber: 2.6 Consensus size: 54
61593873 TGTAAATCAG
61593883 GGGTATTTTGGTAATTTTACAAATTGAGGGTATTTCGGTAATTTCACAAACC-A
1 GGGTATTTTGGTAATTTTACAAATTGAGGGTATTTCGGTAATTTCACAAACCAA
* * *
61593936 GTGGTATTTTGGTAATTTTACAAACT-AGGGGTATTTTGGTAATTTTACAAACCAA
1 G-GGTATTTTGGTAATTTTACAAATTGA-GGGTATTTCGGTAATTTCACAAACCAA
* ** *
61593991 GGGTATTTTAGTAATTTTGTAAATCGAGGGTA
1 GGGTATTTTGGTAATTTTACAAATTGAGGGTA
61594023 AAACAGTAAT
Statistics
Matches: 75, Mismatches: 8, Indels: 7
0.83 0.09 0.08
Matches are distributed among these distances:
53 2 0.03
54 70 0.93
55 3 0.04
ACGTcount: A:0.30, C:0.09, G:0.22, T:0.39
Consensus pattern (54 bp):
GGGTATTTTGGTAATTTTACAAATTGAGGGTATTTCGGTAATTTCACAAACCAA
Found at i:61594032 original size:54 final size:54
Alignment explanation
Indices: 61593974--61594197 Score: 180
Period size: 54 Copynumber: 4.1 Consensus size: 54
61593964 GGGTATTTTG
* *** *
61593974 GTAATTTTACAAACCAAGGGTATTTTAGTAATTTTGTAAATCGAGGGTAAAACA
1 GTAATTCTACAAACCAAGGGTAAAATAGTAATTTTATAAATCGAGGGTAAAACA
** * *
61594028 GTAATTCTGTAAATCAAGGGTAAAATAGTAATTTTATAAATCGAGGGTAAAACG
1 GTAATTCTACAAACCAAGGGTAAAATAGTAATTTTATAAATCGAGGGTAAAACA
** * ** * * *
61594082 GTAATTCTGTAAATCAAGGGTAAAACGGTAATTCTGTAAGTCGAGGGTAAAAC-
1 GTAATTCTACAAACCAAGGGTAAAATAGTAATTTTATAAATCGAGGGTAAAACA
* ** * * ** * * * *
61594135 GATAATTATGTAAATCAGGGGTAAAACGGTAATTATGTAAATCGGGGGTAAAACG
1 G-TAATTCTACAAACCAAGGGTAAAATAGTAATTTTATAAATCGAGGGTAAAACA
61594190 GTAATTCT
1 GTAATTCT
61594198 GTAAATCGGG
Statistics
Matches: 148, Mismatches: 20, Indels: 4
0.86 0.12 0.02
Matches are distributed among these distances:
53 1 0.01
54 146 0.99
55 1 0.01
ACGTcount: A:0.39, C:0.09, G:0.22, T:0.29
Consensus pattern (54 bp):
GTAATTCTACAAACCAAGGGTAAAATAGTAATTTTATAAATCGAGGGTAAAACA
Found at i:61594049 original size:81 final size:81
Alignment explanation
Indices: 61593972--61594228 Score: 262
Period size: 81 Copynumber: 3.2 Consensus size: 81
61593962 AGGGGTATTT
**** *
61593972 TGGTAATTTTACAAACCAAGGGTATTTTAGTAATTTTGTAAATCGAGGGTAAAACAGTAATTCTG
1 TGGTAATTTTACAAACCAAGGGTAAAACAGTAATTTTGTAAATCGAGGGTAAAACGGTAATTCTG
*
61594037 TAAATCAAGGGTAAAA
66 TAAATCGAGGGTAAAA
* * * * * * *
61594053 TAGTAATTTTATAAATCGAGGGTAAAACGGTAATTCTGTAAATCAAGGGTAAAACGGTAATTCTG
1 TGGTAATTTTACAAACCAAGGGTAAAACAGTAATTTTGTAAATCGAGGGTAAAACGGTAATTCTG
*
61594118 TAAGTCGAGGGTAAAA
66 TAAATCGAGGGTAAAA
* * * ** * * * * *
61594134 CGATAATTATGTAAATCAGGGGTAAAACGGTAATTATGTAAATCGGGGGTAAAACGGTAATTCTG
1 TGGTAATTTTACAAACCAAGGGTAAAACAGTAATTTTGTAAATCGAGGGTAAAACGGTAATTCTG
* ***
61594199 TAAATCGGGGGTACTT
66 TAAATCGAGGGTAAAA
61594215 TGGTAATTTTACAA
1 TGGTAATTTTACAA
61594229 GTCGAAGGTA
Statistics
Matches: 142, Mismatches: 34, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
81 142 1.00
ACGTcount: A:0.38, C:0.09, G:0.23, T:0.30
Consensus pattern (81 bp):
TGGTAATTTTACAAACCAAGGGTAAAACAGTAATTTTGTAAATCGAGGGTAAAACGGTAATTCTG
TAAATCGAGGGTAAAA
Found at i:61594077 original size:27 final size:27
Alignment explanation
Indices: 61594001--61594211 Score: 280
Period size: 27 Copynumber: 7.8 Consensus size: 27
61593991 GGGTATTTTA
* *
61594001 GTAATTTTGTAAATCGAGGGTAAAACA
1 GTAATTCTGTAAATCGAGGGTAAAACG
* **
61594028 GTAATTCTGTAAATCAAGGGTAAAATA
1 GTAATTCTGTAAATCGAGGGTAAAACG
* *
61594055 GTAATTTTATAAATCGAGGGTAAAACG
1 GTAATTCTGTAAATCGAGGGTAAAACG
*
61594082 GTAATTCTGTAAATCAAGGGTAAAACG
1 GTAATTCTGTAAATCGAGGGTAAAACG
*
61594109 GTAATTCTGTAAGTCGAGGGTAAAACG
1 GTAATTCTGTAAATCGAGGGTAAAACG
* *
61594136 ATAATTATGTAAATC-AGGGGTAAAACG
1 GTAATTCTGTAAATCGA-GGGTAAAACG
* *
61594163 GTAATTATGTAAATCGGGGGTAAAACG
1 GTAATTCTGTAAATCGAGGGTAAAACG
*
61594190 GTAATTCTGTAAATCGGGGGTA
1 GTAATTCTGTAAATCGAGGGTA
61594212 CTTTGGTAAT
Statistics
Matches: 163, Mismatches: 19, Indels: 4
0.88 0.10 0.02
Matches are distributed among these distances:
26 1 0.01
27 162 0.99
ACGTcount: A:0.39, C:0.09, G:0.25, T:0.28
Consensus pattern (27 bp):
GTAATTCTGTAAATCGAGGGTAAAACG
Found at i:61594211 original size:54 final size:54
Alignment explanation
Indices: 61594001--61594204 Score: 309
Period size: 54 Copynumber: 3.8 Consensus size: 54
61593991 GGGTATTTTA
* **
61594001 GTAATTTTGTAAATCGAGGGTAAAACAGTAATTCTGTAAATCAAGGGTAAAATA
1 GTAATTTTGTAAATCGAGGGTAAAACGGTAATTCTGTAAATCAAGGGTAAAACG
*
61594055 GTAATTTTATAAATCGAGGGTAAAACGGTAATTCTGTAAATCAAGGGTAAAACG
1 GTAATTTTGTAAATCGAGGGTAAAACGGTAATTCTGTAAATCAAGGGTAAAACG
* * * * *
61594109 GTAATTCTGTAAGTCGAGGGTAAAACGATAATTATGTAAATCAGGGGTAAAACG
1 GTAATTTTGTAAATCGAGGGTAAAACGGTAATTCTGTAAATCAAGGGTAAAACG
* *
61594163 GTAATTATGTAAATCGGGGGTAAAACGGTAATTCTGTAAATC
1 GTAATTTTGTAAATCGAGGGTAAAACGGTAATTCTGTAAATC
61594205 GGGGGTACTT
Statistics
Matches: 135, Mismatches: 15, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
54 135 1.00
ACGTcount: A:0.40, C:0.09, G:0.23, T:0.28
Consensus pattern (54 bp):
GTAATTTTGTAAATCGAGGGTAAAACGGTAATTCTGTAAATCAAGGGTAAAACG
Found at i:61594238 original size:27 final size:27
Alignment explanation
Indices: 61594217--61594306 Score: 119
Period size: 27 Copynumber: 3.3 Consensus size: 27
61594207 GGGTACTTTG
*
61594217 GTAATTTTACAAGTCGAAGGTATTTCA
1 GTAATTTTACAAATCGAAGGTATTTCA
*
61594244 GTAATTTTACAAATCGAGGGTATTTCA
1 GTAATTTTACAAATCGAAGGTATTTCA
* * *
61594271 GTATTTTTACAAA-CTAAGCGTATTTCG
1 GTAATTTTACAAATCGAAG-GTATTTCA
61594298 GTAATTTTA
1 GTAATTTTA
61594307 GTAAACTAAA
Statistics
Matches: 55, Mismatches: 7, Indels: 2
0.86 0.11 0.03
Matches are distributed among these distances:
26 3 0.05
27 52 0.95
ACGTcount: A:0.32, C:0.11, G:0.17, T:0.40
Consensus pattern (27 bp):
GTAATTTTACAAATCGAAGGTATTTCA
Found at i:61594248 original size:81 final size:80
Alignment explanation
Indices: 61594000--61594265 Score: 248
Period size: 81 Copynumber: 3.3 Consensus size: 80
61593990 AGGGTATTTT
* * * *
61594000 AGTAATTTTGTAAATCGAGGGTAAAACAGTAATTCTGTAAATCAAGGGTAAAATAGTAATTTTAT
1 AGTAATTATGTAAATCGAGGGTAAAACGGTAATTCTGTAAATCGAGGGTAAAATGGTAATTTTA-
* *
61594065 AAATCGAGGGTAAAAC
65 CAATCGAAGGTAAAAC
* * * * * *
61594081 GGTAATTCTGTAAATCAAGGGTAAAACGGTAATTCTGTAAGTCGAGGGTAAAACGATAATTATGT
1 AGTAATTATGTAAATCGAGGGTAAAACGGTAATTCTGTAAATCGAGGGTAAAATGGTAATT-T-T
*
61594146 A-AATC-AGGGGTAAAAC
64 ACAATCGA-AGGTAAAAC
* * * ***
61594162 GGTAATTATGTAAATCGGGGGTAAAACGGTAATTCTGTAAATCGGGGGTACTTTGGTAATTTTAC
1 AGTAATTATGTAAATCGAGGGTAAAACGGTAATTCTGTAAATCGAGGGTAAAATGGTAATTTTAC
***
61594227 AAGTCGAAGGTATTTC
66 AA-TCGAAGGTAAAAC
* **
61594243 AGTAATTTTACAAATCGAGGGTA
1 AGTAATTATGTAAATCGAGGGTA
61594266 TTTCAGTATT
Statistics
Matches: 151, Mismatches: 28, Indels: 12
0.79 0.15 0.06
Matches are distributed among these distances:
79 2 0.01
80 4 0.03
81 141 0.93
82 2 0.01
83 2 0.01
ACGTcount: A:0.38, C:0.09, G:0.24, T:0.30
Consensus pattern (80 bp):
AGTAATTATGTAAATCGAGGGTAAAACGGTAATTCTGTAAATCGAGGGTAAAATGGTAATTTTAC
AATCGAAGGTAAAAC
Found at i:61594258 original size:54 final size:54
Alignment explanation
Indices: 61594200--61594306 Score: 128
Period size: 54 Copynumber: 2.0 Consensus size: 54
61594190 GTAATTCTGT
* * *
61594200 AAATCGGGGGTACTTT-GGTAATTTTACAAGTCGAAG-GTATTTCAGTAATTTTAC
1 AAATCGAGGGTA-TTTCAGTAATTTTACAA-ACGAAGCGTATTTCAGTAATTTTAC
* * *
61594254 AAATCGAGGGTATTTCAGTATTTTTACAAACTAAGCGTATTTCGGTAATTTTA
1 AAATCGAGGGTATTTCAGTAATTTTACAAACGAAGCGTATTTCAGTAATTTTA
61594307 GTAAACTAAA
Statistics
Matches: 45, Mismatches: 6, Indels: 4
0.82 0.11 0.07
Matches are distributed among these distances:
53 7 0.16
54 38 0.84
ACGTcount: A:0.31, C:0.11, G:0.20, T:0.38
Consensus pattern (54 bp):
AAATCGAGGGTATTTCAGTAATTTTACAAACGAAGCGTATTTCAGTAATTTTAC
Found at i:61594320 original size:27 final size:27
Alignment explanation
Indices: 61594217--61594321 Score: 90
Period size: 27 Copynumber: 3.9 Consensus size: 27
61594207 GGGTACTTTG
* *
61594217 GTAATTTTACAAGTCGAAG-GTATTTCA
1 GTAATTTTACAA-ACTAAGAGTATTTCA
* *
61594244 GTAATTTTACAAA-TCGAGGGTATTTCA
1 GTAATTTTACAAACT-AAGAGTATTTCA
* * *
61594271 GTATTTTTACAAACTAAGCGTATTTCG
1 GTAATTTTACAAACTAAGAGTATTTCA
*
61594298 GTAATTTTAGTAAACTAA-AGTATT
1 GTAATTTTA-CAAACTAAGAGTATT
61594322 CTAAACAGGG
Statistics
Matches: 64, Mismatches: 10, Indels: 8
0.78 0.12 0.10
Matches are distributed among these distances:
26 2 0.03
27 54 0.84
28 8 0.12
ACGTcount: A:0.34, C:0.10, G:0.16, T:0.39
Consensus pattern (27 bp):
GTAATTTTACAAACTAAGAGTATTTCA
Found at i:61596173 original size:22 final size:20
Alignment explanation
Indices: 61596148--61596201 Score: 54
Period size: 22 Copynumber: 2.6 Consensus size: 20
61596138 TATCACAAAA
*
61596148 CTCATGAATTCATCAATGCCAT
1 CTCATGAATTCATCAA--CAAT
* *
61596170 CTCATCAAATCATCAACAAT
1 CTCATGAATTCATCAACAAT
*
61596190 TTCATGAATTCA
1 CTCATGAATTCA
61596202 AGCATGGGCT
Statistics
Matches: 26, Mismatches: 6, Indels: 2
0.76 0.18 0.06
Matches are distributed among these distances:
20 12 0.46
22 14 0.54
ACGTcount: A:0.37, C:0.26, G:0.06, T:0.31
Consensus pattern (20 bp):
CTCATGAATTCATCAACAAT
Found at i:61596823 original size:15 final size:15
Alignment explanation
Indices: 61596791--61596826 Score: 54
Period size: 15 Copynumber: 2.4 Consensus size: 15
61596781 TCAAGATAAG
*
61596791 GAAATCCATAATGGA
1 GAAATCCATAATAGA
*
61596806 GAAATCCATAATATA
1 GAAATCCATAATAGA
61596821 GAAATC
1 GAAATC
61596827 TAACATAAAA
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
15 19 1.00
ACGTcount: A:0.50, C:0.14, G:0.14, T:0.22
Consensus pattern (15 bp):
GAAATCCATAATAGA
Found at i:61602670 original size:43 final size:43
Alignment explanation
Indices: 61602583--61602692 Score: 118
Period size: 43 Copynumber: 2.6 Consensus size: 43
61602573 TTACATGTAT
* * *
61602583 GACCATGTCTGGGACATTGGCATTGTATTGTGATTACGTGTAA
1 GACCATGTCTGGGACATTGGCATCGTATTGTAATTACGTATAA
61602626 GACCATGTCTAGGG-CATTGGCATCGTTATATG-AATT-CGTATAA
1 GACCATGTCT-GGGACATTGGCATCG-TAT-TGTAATTACGTATAA
* * *
61602669 GACCCTGTTTGGGACAGTGGCATC
1 GACCATGTCTGGGACATTGGCATC
61602693 AATATGTGAT
Statistics
Matches: 57, Mismatches: 6, Indels: 8
0.80 0.08 0.11
Matches are distributed among these distances:
42 3 0.05
43 43 0.75
44 9 0.16
45 2 0.04
ACGTcount: A:0.24, C:0.17, G:0.27, T:0.32
Consensus pattern (43 bp):
GACCATGTCTGGGACATTGGCATCGTATTGTAATTACGTATAA
Found at i:61609515 original size:255 final size:255
Alignment explanation
Indices: 61609064--61609573 Score: 948
Period size: 255 Copynumber: 2.0 Consensus size: 255
61609054 CGGTTATTGT
61609064 GATATTTTGAAAATAGAAAACTTTTATAAAACTCACCCTAAAGCTAACCAATTTAACGACCCAAA
1 GATATTTTGAAAATAGAAAACTTTTATAAAACTCACCCTAAAGCTAACCAATTTAACGACCCAAA
61609129 ATAAATAAAATAATAAAAAGAGCGGCCTTATTACAACTTAAACCAGAAACAAAATAATCAAAATA
66 ATAAATAAAATAATAAAAAGAGCGGCCTTATTACAACTTAAACCAGAAACAAAATAATCAAAATA
* * *
61609194 ATAATTGCGAAACTTTAAAAAAACAGAAATTATTCTTCGTGTCCACTCTAAATCTCGCCCAGCTC
131 ATAATTGCGAAACTTTAAAAAAACAGAAATTAATCTTCGTGGCCACTCTAAATCCCGCCCAGCTC
* *
61609259 CAAGTCCACCAACTAGGGCTCACTTGCAAGGATGGAAGGGAAAGGGGTGAGTTTAGAAAA
196 CAAGTCCACCAACTAGGGCTCACCTGCAAGGATAGAAGGGAAAGGGGTGAGTTTAGAAAA
61609319 GATATTTTGAAAATAGAAAACTTTTATAAAACTCACCCTAAAGCTAACCAATTTAACGACCCAAA
1 GATATTTTGAAAATAGAAAACTTTTATAAAACTCACCCTAAAGCTAACCAATTTAACGACCCAAA
61609384 ATAAATAAAATAATAAAAAGAGCGGCCTTATTACAACTTAAACCAGAAACAAAATAATCAAAATA
66 ATAAATAAAATAATAAAAAGAGCGGCCTTATTACAACTTAAACCAGAAACAAAATAATCAAAATA
* *
61609449 ATAATTGCGAAACTTTAAAAAAACAGAAATTAATCTTCGTGGCTACTCTGAATCCCGCCCAGCTC
131 ATAATTGCGAAACTTTAAAAAAACAGAAATTAATCTTCGTGGCCACTCTAAATCCCGCCCAGCTC
*
61609514 CAAGTCCACCAACTAGGGCTCACCTGCAAGGATAGAAGGGAAAGGGGTGAGTTTGGAAAA
196 CAAGTCCACCAACTAGGGCTCACCTGCAAGGATAGAAGGGAAAGGGGTGAGTTTAGAAAA
61609574 CTCAGTATGT
Statistics
Matches: 247, Mismatches: 8, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
255 247 1.00
ACGTcount: A:0.44, C:0.19, G:0.15, T:0.23
Consensus pattern (255 bp):
GATATTTTGAAAATAGAAAACTTTTATAAAACTCACCCTAAAGCTAACCAATTTAACGACCCAAA
ATAAATAAAATAATAAAAAGAGCGGCCTTATTACAACTTAAACCAGAAACAAAATAATCAAAATA
ATAATTGCGAAACTTTAAAAAAACAGAAATTAATCTTCGTGGCCACTCTAAATCCCGCCCAGCTC
CAAGTCCACCAACTAGGGCTCACCTGCAAGGATAGAAGGGAAAGGGGTGAGTTTAGAAAA
Found at i:61609604 original size:45 final size:45
Alignment explanation
Indices: 61609553--61609641 Score: 160
Period size: 45 Copynumber: 2.0 Consensus size: 45
61609543 GGATAGAAGG
* *
61609553 GAAAGGGGTGAGTTTGGAAAACTCAGTATGTAAGGAAAGCCCATT
1 GAAAGGGGTGAGTTTAGAAAACTCAGTATGTAAGGAAAACCCATT
61609598 GAAAGGGGTGAGTTTAGAAAACTCAGTATGTAAGGAAAACCCAT
1 GAAAGGGGTGAGTTTAGAAAACTCAGTATGTAAGGAAAACCCAT
61609642 CCAAAGCCCA
Statistics
Matches: 42, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
45 42 1.00
ACGTcount: A:0.38, C:0.11, G:0.29, T:0.21
Consensus pattern (45 bp):
GAAAGGGGTGAGTTTAGAAAACTCAGTATGTAAGGAAAACCCATT
Found at i:61624991 original size:81 final size:81
Alignment explanation
Indices: 61624856--61625018 Score: 308
Period size: 81 Copynumber: 2.0 Consensus size: 81
61624846 GTTCGACCAA
* *
61624856 AAACATGTATATAATGCATGTCTTTTAAATTTTTGTTTTATTATAATTCATAATATTTCATAATT
1 AAACATGTATATAATGCATGCCTTTTAAATTTTTGTTTTATTATAATTCATAATATCTCATAATT
61624921 TACTTTAATAACCTTT
66 TACTTTAATAACCTTT
61624937 AAACATGTATATAATGCATGCCTTTTAAATTTTTGTTTTATTATAATTCATAATATCTCATAATT
1 AAACATGTATATAATGCATGCCTTTTAAATTTTTGTTTTATTATAATTCATAATATCTCATAATT
61625002 TACTTTAATAACCTTT
66 TACTTTAATAACCTTT
61625018 A
1 A
61625019 TAATAAAATA
Statistics
Matches: 80, Mismatches: 2, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
81 80 1.00
ACGTcount: A:0.35, C:0.11, G:0.05, T:0.49
Consensus pattern (81 bp):
AAACATGTATATAATGCATGCCTTTTAAATTTTTGTTTTATTATAATTCATAATATCTCATAATT
TACTTTAATAACCTTT
Found at i:61625223 original size:14 final size:14
Alignment explanation
Indices: 61625204--61625237 Score: 68
Period size: 14 Copynumber: 2.4 Consensus size: 14
61625194 ACAAACAATT
61625204 AAATTTTCATACGA
1 AAATTTTCATACGA
61625218 AAATTTTCATACGA
1 AAATTTTCATACGA
61625232 AAATTT
1 AAATTT
61625238 CACACATGCA
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 20 1.00
ACGTcount: A:0.44, C:0.12, G:0.06, T:0.38
Consensus pattern (14 bp):
AAATTTTCATACGA
Found at i:61629169 original size:42 final size:43
Alignment explanation
Indices: 61629057--61629169 Score: 133
Period size: 43 Copynumber: 2.7 Consensus size: 43
61629047 AGCTCACACA
* * *
61629057 ATGCCAACGTCTCAGACGTGGTCTTACATGTAATCAAATATTG
1 ATGCCAACGTCTCAGAAGTGGTCTTACATGAAATCAAATATCG
61629100 ATGCC-ACTGTCTCAGACAG-GGTCTTACATGAAATCAAATA-CG
1 ATGCCAAC-GTCTCAGA-AGTGGTCTTACATGAAATCAAATATCG
* * *
61629142 ATGCCAACGTCCCAGATGTGGTGTTACA
1 ATGCCAACGTCTCAGAAGTGGTCTTACA
61629170 CCTAAATCAT
Statistics
Matches: 60, Mismatches: 6, Indels: 9
0.80 0.08 0.12
Matches are distributed among these distances:
41 1 0.02
42 23 0.38
43 35 0.58
44 1 0.02
ACGTcount: A:0.30, C:0.23, G:0.20, T:0.27
Consensus pattern (43 bp):
ATGCCAACGTCTCAGAAGTGGTCTTACATGAAATCAAATATCG
Found at i:61635614 original size:66 final size:65
Alignment explanation
Indices: 61635512--61635638 Score: 143
Period size: 64 Copynumber: 1.9 Consensus size: 65
61635502 ACACGGCTTT
* * * *
61635512 AGACACGCTCGTGTGTCTAGGAGGTGTCAAAATAGGGCATA-CATAGTGACTTTTCCACACGGCC
1 AGACACGCTCGTGTGTCCAGGACGTGTCAAAATAGGG-A-AGC-TACTGACTTGTCCACACGGCC
61635576 ACA
63 ACA
* *
61635579 AGACACG-TCGTGTG-CCAGGCCGTGTGAAAATTAGGGAAGCTACTGACTTGTCCACACGGC
1 AGACACGCTCGTGTGTCCAGGACGTGTCAAAA-TAGGGAAGCTACTGACTTGTCCACACGGC
61635639 TGACCACACG
Statistics
Matches: 52, Mismatches: 6, Indels: 7
0.80 0.09 0.11
Matches are distributed among these distances:
64 19 0.37
65 14 0.27
66 12 0.23
67 7 0.13
ACGTcount: A:0.27, C:0.24, G:0.28, T:0.21
Consensus pattern (65 bp):
AGACACGCTCGTGTGTCCAGGACGTGTCAAAATAGGGAAGCTACTGACTTGTCCACACGGCCACA
Found at i:61637946 original size:40 final size:40
Alignment explanation
Indices: 61637884--61638061 Score: 252
Period size: 40 Copynumber: 4.5 Consensus size: 40
61637874 AAGCCAAGTA
* * * *
61637884 CCTTCGGGATTTA-ACCGGATATAGCT-ACTCGCTCGAATG
1 CCTTCGGGACTTAGCCCGGATATAG-TAACTCGCACAAATG
* *
61637923 CCTTCGGGACATAGCCCGGATATAGTAACTCGCACCAATG
1 CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATG
61637963 CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATG
1 CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATG
* * *
61638003 CCTTCGGGGCTTAACCCGAATATAGTAACTCGCACAAATG
1 CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATG
61638043 CCTTCGGGACTTAGCCCGG
1 CCTTCGGGACTTAGCCCGG
61638062 TTATCTTCCG
Statistics
Matches: 124, Mismatches: 13, Indels: 3
0.89 0.09 0.02
Matches are distributed among these distances:
39 12 0.10
40 112 0.90
ACGTcount: A:0.25, C:0.29, G:0.23, T:0.23
Consensus pattern (40 bp):
CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATG
Found at i:61645382 original size:40 final size:40
Alignment explanation
Indices: 61645289--61645585 Score: 476
Period size: 40 Copynumber: 7.5 Consensus size: 40
61645279 AAGCCAAGTA
* * *
61645289 CCTTCGGGATTTA-ACCGGATATAGCT-ACTCGCTC-AATG
1 CCTTCGGGACTTAGCCCGGATATAG-TAACTCGCACAAATG
* *
61645327 CCTTCGGGACATAGCCCGGATATAGTAACTCGCACCAATG
1 CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATG
61645367 CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATG
1 CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATG
61645407 CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATG
1 CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATG
61645447 CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATG
1 CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATG
61645487 CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATG
1 CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATG
* * *
61645527 CCTTCGGGACTTAGCCCGGA-ACTAGTCACTAGCGCAAATG
1 CCTTCGGGACTTAGCCCGGATA-TAGTAACTCGCACAAATG
61645567 CCTTCGGGACTTAGCCCGG
1 CCTTCGGGACTTAGCCCGG
61645586 TTATCATCCG
Statistics
Matches: 246, Mismatches: 9, Indels: 6
0.94 0.03 0.02
Matches are distributed among these distances:
38 12 0.05
39 18 0.07
40 216 0.88
ACGTcount: A:0.26, C:0.29, G:0.23, T:0.23
Consensus pattern (40 bp):
CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATG
Found at i:61650618 original size:16 final size:15
Alignment explanation
Indices: 61650585--61650613 Score: 51
Period size: 14 Copynumber: 2.0 Consensus size: 15
61650575 ATTTTCTCAG
61650585 TTTATTATGTGTGAA
1 TTTATTATGTGTGAA
61650600 TTTA-TATGTGTGAA
1 TTTATTATGTGTGAA
61650614 AATTTTGTGA
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
14 10 0.71
15 4 0.29
ACGTcount: A:0.28, C:0.00, G:0.21, T:0.52
Consensus pattern (15 bp):
TTTATTATGTGTGAA
Found at i:61658101 original size:31 final size:32
Alignment explanation
Indices: 61658066--61658141 Score: 138
Period size: 31 Copynumber: 2.4 Consensus size: 32
61658056 GCATATACCT
61658066 GGCCGAAGCCTTTAT-ATTATTCATATCACTG
1 GGCCGAAGCCTTTATCATTATTCATATCACTG
61658097 GGCCGAAGCCTTT-TCATTATTCATATCACTG
1 GGCCGAAGCCTTTATCATTATTCATATCACTG
61658128 GGCCGAAGCCTTTA
1 GGCCGAAGCCTTTA
61658142 CTACAACAAT
Statistics
Matches: 43, Mismatches: 0, Indels: 3
0.93 0.00 0.07
Matches are distributed among these distances:
30 1 0.02
31 42 0.98
ACGTcount: A:0.24, C:0.25, G:0.18, T:0.33
Consensus pattern (32 bp):
GGCCGAAGCCTTTATCATTATTCATATCACTG
Found at i:61658375 original size:25 final size:25
Alignment explanation
Indices: 61658347--61658431 Score: 77
Period size: 25 Copynumber: 3.4 Consensus size: 25
61658337 CTGGAGGCCT
61658347 AGCCTCTTTTAAT-AACT-GGGTCAAA
1 AGCC-CTTTTAATAAACTAGGG-CAAA
*
61658372 AGCCCTTTTTGATAAACTAGGGCAAA
1 AGCCC-TTTTAATAAACTAGGGCAAA
** *
61658398 AGCCCTTTTCGGTAAACTGGGGC-AA
1 AGCCCTTTT-AATAAACTAGGGCAAA
61658423 AGCCCTTTT
1 AGCCCTTTT
61658432 CGGTAACTGG
Statistics
Matches: 53, Mismatches: 3, Indels: 8
0.83 0.05 0.12
Matches are distributed among these distances:
24 1 0.02
25 25 0.47
26 24 0.45
27 3 0.06
ACGTcount: A:0.28, C:0.22, G:0.20, T:0.29
Consensus pattern (25 bp):
AGCCCTTTTAATAAACTAGGGCAAA
Found at i:61658444 original size:24 final size:26
Alignment explanation
Indices: 61658360--61658455 Score: 126
Period size: 26 Copynumber: 3.8 Consensus size: 26
61658350 CTCTTTTAAT
* * *
61658360 AACTGGGTCAAAAGCCCTTTTTGATA
1 AACTGGGGCAAAAGCCCTTTTCGGTA
*
61658386 AACTAGGGCAAAAGCCCTTTTCGGTA
1 AACTGGGGCAAAAGCCCTTTTCGGTA
61658412 AACTGGGGC-AAAGCCCTTTTCGGT-
1 AACTGGGGCAAAAGCCCTTTTCGGTA
*
61658436 AACTGGGGC-ATAGCCCTTTT
1 AACTGGGGCAAAAGCCCTTTT
61658456 GCACTTCCTC
Statistics
Matches: 64, Mismatches: 6, Indels: 2
0.89 0.08 0.03
Matches are distributed among these distances:
24 19 0.30
25 15 0.23
26 30 0.47
ACGTcount: A:0.26, C:0.23, G:0.24, T:0.27
Consensus pattern (26 bp):
AACTGGGGCAAAAGCCCTTTTCGGTA
Found at i:61658616 original size:25 final size:25
Alignment explanation
Indices: 61658588--61658635 Score: 69
Period size: 25 Copynumber: 1.9 Consensus size: 25
61658578 ATAATTAAAC
* **
61658588 CCTAGGGGTAAAATGGTCATTTTTA
1 CCTAGGGGCAAAACAGTCATTTTTA
61658613 CCTAGGGGCAAAACAGTCATTTT
1 CCTAGGGGCAAAACAGTCATTTT
61658636 CATATTATAA
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
25 20 1.00
ACGTcount: A:0.29, C:0.17, G:0.23, T:0.31
Consensus pattern (25 bp):
CCTAGGGGCAAAACAGTCATTTTTA
Found at i:61665050 original size:30 final size:30
Alignment explanation
Indices: 61665016--61665076 Score: 77
Period size: 30 Copynumber: 2.0 Consensus size: 30
61665006 TCCTTAACTC
61665016 AAACTTTGGAAAAATTACAATTTTGCCCCT
1 AAACTTTGGAAAAATTACAATTTTGCCCCT
* * * * *
61665046 AAACTTTTGCATATTTACACTTTTGCCCCT
1 AAACTTTGGAAAAATTACAATTTTGCCCCT
61665076 A
1 A
61665077 GGCTCGGGAA
Statistics
Matches: 26, Mismatches: 5, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
30 26 1.00
ACGTcount: A:0.31, C:0.23, G:0.08, T:0.38
Consensus pattern (30 bp):
AAACTTTGGAAAAATTACAATTTTGCCCCT
Found at i:61678472 original size:24 final size:24
Alignment explanation
Indices: 61678440--61678641 Score: 174
Period size: 24 Copynumber: 8.0 Consensus size: 24
61678430 TGACATTGTG
* *
61678440 CTAAGTGAAATAAAAGCATGGCAT
1 CTAAGTGAAATAAGACCATGGCAT
*
61678464 CTAAGTGAAATAAGTCCATGGCAATGT
1 CTAAGTGAAATAAGACCATGGC-A--T
*
61678491 GCTAAGTGAAATAAGACAATGGCAT
1 -CTAAGTGAAATAAGACCATGGCAT
* * *
61678516 CTTAGTGAAATAAGTCCATGACAAT
1 CTAAGTGAAATAAGACCATGGC-AT
61678541 GCGCTAAGTGAAATAAGACCATGGCAT
1 ---CTAAGTGAAATAAGACCATGGCAT
* *
61678568 CTAAGTGAAATAAGTCCACGGCAATGT
1 CTAAGTGAAATAAGACCATGGC-A--T
* *
61678595 GCTAAGTGAAAT--GTCCATGGAAT
1 -CTAAGTGAAATAAGACCATGGCAT
*
61678618 CTAAGTGAAATAAGTCCATGGCAT
1 CTAAGTGAAATAAGACCATGGCAT
61678642 GGTGCTAAGT
Statistics
Matches: 147, Mismatches: 17, Indels: 28
0.77 0.09 0.15
Matches are distributed among these distances:
22 11 0.07
23 1 0.01
24 67 0.46
25 6 0.04
26 7 0.05
27 5 0.03
28 50 0.34
ACGTcount: A:0.39, C:0.15, G:0.22, T:0.23
Consensus pattern (24 bp):
CTAAGTGAAATAAGACCATGGCAT
Found at i:61678499 original size:52 final size:52
Alignment explanation
Indices: 61678436--61678653 Score: 325
Period size: 52 Copynumber: 4.2 Consensus size: 52
61678426 GATATGACAT
* *
61678436 TGTGCTAAGTGAAATAAAAGCATGGCATCTAAGTGAAATAAGTCCATGGCAA
1 TGTGCTAAGTGAAATAAGACCATGGCATCTAAGTGAAATAAGTCCATGGCAA
* * *
61678488 TGTGCTAAGTGAAATAAGACAATGGCATCTTAGTGAAATAAGTCCATGACAA
1 TGTGCTAAGTGAAATAAGACCATGGCATCTAAGTGAAATAAGTCCATGGCAA
* *
61678540 TGCGCTAAGTGAAATAAGACCATGGCATCTAAGTGAAATAAGTCCACGGCAA
1 TGTGCTAAGTGAAATAAGACCATGGCATCTAAGTGAAATAAGTCCATGGCAA
* *
61678592 TGTGCTAAGTGAAAT--GTCCATGGAATCTAAGTGAAATAAGTCCATGGC-A
1 TGTGCTAAGTGAAATAAGACCATGGCATCTAAGTGAAATAAGTCCATGGCAA
61678641 TGGTGCTAAGTGA
1 T-GTGCTAAGTGA
61678654 GTAATTTCCC
Statistics
Matches: 151, Mismatches: 14, Indels: 4
0.89 0.08 0.02
Matches are distributed among these distances:
49 2 0.01
50 41 0.27
52 108 0.72
ACGTcount: A:0.38, C:0.15, G:0.24, T:0.24
Consensus pattern (52 bp):
TGTGCTAAGTGAAATAAGACCATGGCATCTAAGTGAAATAAGTCCATGGCAA
Found at i:61678540 original size:30 final size:28
Alignment explanation
Indices: 61678464--61678606 Score: 122
Period size: 28 Copynumber: 5.4 Consensus size: 28
61678454 AGCATGGCAT
* * *
61678464 CTAAGTGAAATAAGTCCATGGCAATGTG
1 CTAAGTGAAATAAGACCATGACAATGCG
* *
61678492 CTAAGTGAAATAAGACAATGGC-AT---
1 CTAAGTGAAATAAGACCATGACAATGCG
* *
61678516 CTTAGTGAAATAAGTCCATGACAATGCG
1 CTAAGTGAAATAAGACCATGACAATGCG
*
61678544 CTAAGTGAAATAAGACCATGGC-AT---
1 CTAAGTGAAATAAGACCATGACAATGCG
* * * *
61678568 CTAAGTGAAATAAGTCCACGGCAATGTG
1 CTAAGTGAAATAAGACCATGACAATGCG
61678596 CTAAGTGAAAT
1 CTAAGTGAAAT
61678607 GTCCATGGAA
Statistics
Matches: 96, Mismatches: 11, Indels: 16
0.78 0.09 0.13
Matches are distributed among these distances:
24 38 0.40
25 4 0.04
27 4 0.04
28 50 0.52
ACGTcount: A:0.39, C:0.15, G:0.22, T:0.23
Consensus pattern (28 bp):
CTAAGTGAAATAAGACCATGACAATGCG
Found at i:61686607 original size:43 final size:42
Alignment explanation
Indices: 61686516--61686639 Score: 162
Period size: 43 Copynumber: 3.0 Consensus size: 42
61686506 CATTAGGGTT
61686516 ATTTGAG-TTTACGTGTAAGACCATATCT-GGATATGGCATCA
1 ATTTGAGATTT-CGTGTAAGACCATATCTAGGATATGGCATCA
* * *
61686557 ATATGAGATTTCGTGTAAGACCATAGCTAGGCTATTGGCATCA
1 ATTTGAGATTTCGTGTAAGACCATATCTAGGATA-TGGCATCA
** *
61686600 ATTTGAGATCCCATGTAAGACCATATCTAGGATATGGCAT
1 ATTTGAGATTTCGTGTAAGACCATATCTAGGATATGGCAT
61686640 TGGTATGGTA
Statistics
Matches: 71, Mismatches: 9, Indels: 5
0.84 0.11 0.06
Matches are distributed among these distances:
41 22 0.31
42 13 0.18
43 36 0.51
ACGTcount: A:0.31, C:0.16, G:0.22, T:0.31
Consensus pattern (42 bp):
ATTTGAGATTTCGTGTAAGACCATATCTAGGATATGGCATCA
Found at i:61690898 original size:46 final size:46
Alignment explanation
Indices: 61690840--61691013 Score: 140
Period size: 46 Copynumber: 3.7 Consensus size: 46
61690830 GGGTTATTTT
* *
61690840 GAGCTAGTGTAAGACATGTCTGGGACATGCATCAGCCA-C-ATTATGA
1 GAGCTAGTGTAAGACATGTCTGGGACATGCATC-GCCATCGA-AACGA
* * ** **
61690886 GAGCCAGTGTAAGACCATGTTTGAAACATGGCATCGGGATCGAAACGA
1 GAGCTAGTGTAAGA-CATGTCTGGGACAT-GCATCGCCATCGAAACGA
* *
61690934 GTGCTAGTGTAAGACATGTCTGGGACATGCATCGGCC-TCGAGAC-A
1 GAGCTAGTGTAAGACATGTCTGGGACATGCATC-GCCATCGAAACGA
* ** *
61690979 TAAATCAGTGTAAGACATGTCTGGGACATGTATCG
1 GAGCT-AGTGTAAGACATGTCTGGGACATGCATCG
61691014 GCTACGAGAT
Statistics
Matches: 101, Mismatches: 21, Indels: 13
0.75 0.16 0.10
Matches are distributed among these distances:
45 3 0.03
46 51 0.50
47 25 0.25
48 21 0.21
49 1 0.01
ACGTcount: A:0.30, C:0.19, G:0.28, T:0.23
Consensus pattern (46 bp):
GAGCTAGTGTAAGACATGTCTGGGACATGCATCGCCATCGAAACGA
Found at i:61691014 original size:46 final size:44
Alignment explanation
Indices: 61690939--61691068 Score: 149
Period size: 46 Copynumber: 2.9 Consensus size: 44
61690929 AACGAGTGCT
61690939 AGTGTAAGACATGTCTGGGACATGCATCGGCCT-CGAGACATAAATC
1 AGTGTAAGACATGTCTGGGACATGCATCGG-CTACGAG--ATAAATC
* ***
61690985 AGTGTAAGACATGTCTGGGACATGTATCGGCTACGAGATGTGTC
1 AGTGTAAGACATGTCTGGGACATGCATCGGCTACGAGATAAATC
*
61691029 AGTGTAAGACTATGTCTGGGACACAGCATCGGC-AC-AGATA
1 AGTGTAAGAC-ATGTCTGGGACA-TGCATCGGCTACGAGATA
61691069 TGCTAGAGCA
Statistics
Matches: 74, Mismatches: 7, Indels: 8
0.83 0.08 0.09
Matches are distributed among these distances:
44 18 0.24
45 16 0.22
46 40 0.54
ACGTcount: A:0.29, C:0.19, G:0.28, T:0.23
Consensus pattern (44 bp):
AGTGTAAGACATGTCTGGGACATGCATCGGCTACGAGATAAATC
Found at i:61692443 original size:29 final size:28
Alignment explanation
Indices: 61692379--61692518 Score: 113
Period size: 29 Copynumber: 4.9 Consensus size: 28
61692369 TACATACATG
* **
61692379 CATATGGCCCA-CTTGGCCCATTTCA-TT
1 CATATGGCCCATC-AGGCCCAAATCACTT
* *
61692406 CAAATGGCCCATCAGGCCCAATTCACATT
1 CATATGGCCCATCAGGCCCAAATCAC-TT
* *
61692435 CATGTGGCCCATCAGGCCCAATTCATCTT
1 CATATGGCCCATCAGGCCCAAATCA-CTT
* * *
61692464 CAAATGGCCTATTAGGCCCAAATCACCTT
1 CATATGGCCCATCAGGCCCAAATCA-CTT
* * *
61692493 TATATGGCCCGTTAGGCCCAAATCAC
1 CATATGGCCCATCAGGCCCAAATCAC
61692519 CTTATATTCA
Statistics
Matches: 94, Mismatches: 15, Indels: 7
0.81 0.13 0.06
Matches are distributed among these distances:
27 20 0.21
28 2 0.02
29 71 0.76
30 1 0.01
ACGTcount: A:0.26, C:0.33, G:0.16, T:0.26
Consensus pattern (28 bp):
CATATGGCCCATCAGGCCCAAATCACTT
Found at i:61692483 original size:58 final size:58
Alignment explanation
Indices: 61692374--61692513 Score: 151
Period size: 58 Copynumber: 2.4 Consensus size: 58
61692364 ACCCCTACAT
* * * *
61692374 ACATGCATATGGCCCA-CTTGGCCCATTTCA--TTCAAATGGCCCATCAGGCCCAATTC
1 ACATTCATATGGCCCATC-AGGCCCAATTCATCTTCAAATGGCCCATCAGGCCCAAATC
* * *
61692430 ACATTCATGTGGCCCATCAGGCCCAATTCATCTTCAAATGGCCTATTAGGCCCAAATC
1 ACATTCATATGGCCCATCAGGCCCAATTCATCTTCAAATGGCCCATCAGGCCCAAATC
* * * *
61692488 ACCTTTATATGGCCCGTTAGGCCCAA
1 ACATTCATATGGCCCATCAGGCCCAA
61692514 ATCACCTTAT
Statistics
Matches: 69, Mismatches: 12, Indels: 4
0.81 0.14 0.05
Matches are distributed among these distances:
56 24 0.35
57 1 0.01
58 44 0.64
ACGTcount: A:0.26, C:0.32, G:0.16, T:0.26
Consensus pattern (58 bp):
ACATTCATATGGCCCATCAGGCCCAATTCATCTTCAAATGGCCCATCAGGCCCAAATC
Found at i:61692519 original size:29 final size:29
Alignment explanation
Indices: 61692404--61692525 Score: 129
Period size: 29 Copynumber: 4.2 Consensus size: 29
61692394 GCCCATTTCA
* * *
61692404 TTCAAATGGCCCATCAGGCCCAATTCACA
1 TTCATATGGCCCATCAGGCCCAAATCACC
* * *
61692433 TTCATGTGGCCCATCAGGCCCAATTCATC
1 TTCATATGGCCCATCAGGCCCAAATCACC
* * *
61692462 TTCAAATGGCCTATTAGGCCCAAATCACC
1 TTCATATGGCCCATCAGGCCCAAATCACC
* * *
61692491 TTTATATGGCCCGTTAGGCCCAAATCACC
1 TTCATATGGCCCATCAGGCCCAAATCACC
61692520 TT-ATAT
1 TTCATAT
61692526 TCATGCTCAC
Statistics
Matches: 79, Mismatches: 14, Indels: 1
0.84 0.15 0.01
Matches are distributed among these distances:
28 4 0.05
29 75 0.95
ACGTcount: A:0.27, C:0.31, G:0.15, T:0.27
Consensus pattern (29 bp):
TTCATATGGCCCATCAGGCCCAAATCACC
Found at i:61695073 original size:34 final size:34
Alignment explanation
Indices: 61695035--61695106 Score: 144
Period size: 34 Copynumber: 2.1 Consensus size: 34
61695025 ATGAGATCGA
61695035 GTTAGGTAATGCCTCGTATTTCGCTCTGGCGTGG
1 GTTAGGTAATGCCTCGTATTTCGCTCTGGCGTGG
61695069 GTTAGGTAATGCCTCGTATTTCGCTCTGGCGTGG
1 GTTAGGTAATGCCTCGTATTTCGCTCTGGCGTGG
61695103 GTTA
1 GTTA
61695107 CGAGTATGGG
Statistics
Matches: 38, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
34 38 1.00
ACGTcount: A:0.12, C:0.19, G:0.32, T:0.36
Consensus pattern (34 bp):
GTTAGGTAATGCCTCGTATTTCGCTCTGGCGTGG
Found at i:61703713 original size:45 final size:44
Alignment explanation
Indices: 61703643--61703783 Score: 158
Period size: 46 Copynumber: 3.1 Consensus size: 44
61703633 CACTATCTCT
* * * *
61703643 CACATATCCATGCCCATGCCATGTCCCAGACATGGTCTTACACTGA
1 CACATCTCCAGGCCGATG-CATGTCCCAGACAT-GTCTTACACTGG
* *
61703689 CACATCTCGCA-GTCGATGCATGTCCCAGACAATGTTTTACACTGG
1 CACATCTC-CAGGCCGATGCATGTCCCAGAC-ATGTCTTACACTGG
*
61703734 CTTACATCTCTAGGCCGATGCATGTCCCAGACATGTCTTACACTGG
1 C--ACATCTCCAGGCCGATGCATGTCCCAGACATGTCTTACACTGG
61703780 CACA
1 CACA
61703784 CAAATAACCT
Statistics
Matches: 82, Mismatches: 8, Indels: 12
0.80 0.08 0.12
Matches are distributed among these distances:
44 3 0.04
45 23 0.28
46 29 0.35
47 27 0.33
ACGTcount: A:0.25, C:0.32, G:0.18, T:0.26
Consensus pattern (44 bp):
CACATCTCCAGGCCGATGCATGTCCCAGACATGTCTTACACTGG
Found at i:61710805 original size:16 final size:17
Alignment explanation
Indices: 61710771--61710815 Score: 60
Period size: 15 Copynumber: 2.8 Consensus size: 17
61710761 GGAATACATG
*
61710771 GAAAT-TATGGTAT-AT
1 GAAATATATGATATAAT
61710786 GAAATAT-TGATATAAT
1 GAAATATATGATATAAT
61710802 GAAATATATGATAT
1 GAAATATATGATAT
61710816 GTGTTTATAA
Statistics
Matches: 26, Mismatches: 1, Indels: 4
0.84 0.03 0.13
Matches are distributed among these distances:
15 10 0.38
16 10 0.38
17 6 0.23
ACGTcount: A:0.47, C:0.00, G:0.16, T:0.38
Consensus pattern (17 bp):
GAAATATATGATATAAT
Found at i:61710930 original size:32 final size:28
Alignment explanation
Indices: 61710861--61710927 Score: 134
Period size: 28 Copynumber: 2.4 Consensus size: 28
61710851 TCATGACATG
61710861 TATATATATATGACTAGTCTCAATGTAT
1 TATATATATATGACTAGTCTCAATGTAT
61710889 TATATATATATGACTAGTCTCAATGTAT
1 TATATATATATGACTAGTCTCAATGTAT
61710917 TATATATATAT
1 TATATATATAT
61710928 ATAGGACTGG
Statistics
Matches: 39, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
28 39 1.00
ACGTcount: A:0.37, C:0.09, G:0.09, T:0.45
Consensus pattern (28 bp):
TATATATATATGACTAGTCTCAATGTAT
Found at i:61727815 original size:51 final size:51
Alignment explanation
Indices: 61727610--61727847 Score: 174
Period size: 51 Copynumber: 4.7 Consensus size: 51
61727600 ATTGTGAGAA
* * ** * *
61727610 CACATGTGTAGTACT-ATTTCTAGGCTACTATGTGTTTCAAATGGTTTTAGGT
1 CACATGTGTAGTACTAAGTGC-AGGCTACTATGTGTACCAGATGGTTTT-GAT
** * * * *
61727662 CATGTGTGTAGCACTAAGTGCAGGCTACTACGTGTACCAGATGG-TTAGGT
1 CACATGTGTAGTACTAAGTGCAGGCTACTATGTGTACCAGATGGTTTTGAT
* * * * * * * *
61727712 CGCATGTATAGTATTAAGTGCAGGCTACTATGCGTACCCGATAGCTTCGAT
1 CACATGTGTAGTACTAAGTGCAGGCTACTATGTGTACCAGATGGTTTTGAT
* ** *
61727763 CATATGTGTAGTACTAAGTGCAGGAAACTATGTGTAACAGATGGTTTTGAT
1 CACATGTGTAGTACTAAGTGCAGGCTACTATGTGTACCAGATGGTTTTGAT
* * * * * *
61727814 CACAAGTGTGGTACTATGTGAAGGCCACTTTGTG
1 CACATGTGTAGTACTAAGTGCAGGCTACTATGTG
61727848 AAGAAGGTAC
Statistics
Matches: 142, Mismatches: 42, Indels: 5
0.75 0.22 0.03
Matches are distributed among these distances:
50 37 0.26
51 71 0.50
52 31 0.22
53 3 0.02
ACGTcount: A:0.26, C:0.16, G:0.26, T:0.33
Consensus pattern (51 bp):
CACATGTGTAGTACTAAGTGCAGGCTACTATGTGTACCAGATGGTTTTGAT
Found at i:61729659 original size:26 final size:26
Alignment explanation
Indices: 61729623--61729675 Score: 106
Period size: 26 Copynumber: 2.0 Consensus size: 26
61729613 TATAACTTAG
61729623 TGAATATATTGATCTGCTTGAATTGA
1 TGAATATATTGATCTGCTTGAATTGA
61729649 TGAATATATTGATCTGCTTGAATTGA
1 TGAATATATTGATCTGCTTGAATTGA
61729675 T
1 T
61729676 CTTTGTGATT
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:0.30, C:0.08, G:0.19, T:0.43
Consensus pattern (26 bp):
TGAATATATTGATCTGCTTGAATTGA
Found at i:61741251 original size:22 final size:23
Alignment explanation
Indices: 61741223--61741275 Score: 83
Period size: 22 Copynumber: 2.4 Consensus size: 23
61741213 TTTCGCACAC
61741223 AGCCATAAT-CAGGTTGGTACAA
1 AGCCATAATGCAGGTTGGTACAA
*
61741245 AGCCAT-ATGTAGGTTGGTACAA
1 AGCCATAATGCAGGTTGGTACAA
61741267 AGCCATAAT
1 AGCCATAAT
61741276 TAGAACAATT
Statistics
Matches: 28, Mismatches: 1, Indels: 3
0.88 0.03 0.09
Matches are distributed among these distances:
21 2 0.07
22 24 0.86
23 2 0.07
ACGTcount: A:0.36, C:0.17, G:0.23, T:0.25
Consensus pattern (23 bp):
AGCCATAATGCAGGTTGGTACAA
Found at i:61741913 original size:27 final size:27
Alignment explanation
Indices: 61741750--61742038 Score: 181
Period size: 27 Copynumber: 10.7 Consensus size: 27
61741740 TTGGTAAATC
*
61741750 TACAAACCAAGGGTATTTCGATAATTT
1 TACAAATCAAGGGTATTTCGATAATTT
** * * *
61741777 TGTAAACCAATGGTATTT-TATAATTT
1 TACAAATCAAGGGTATTTCGATAATTT
** *
61741803 TTTAAAGTCAAGGGTATTTCTATAATTT
1 TACAAA-TCAAGGGTATTTCGATAATTT
* * *
61741831 TCCAAATTAAGGGTATTTCGGTAATTT
1 TACAAATCAAGGGTATTTCGATAATTT
* * * * *
61741858 TCCAAATTAGGGGTATTTTGGTAATTT
1 TACAAATCAAGGGTATTTCGATAATTT
61741885 TACAAATCAAGGGTATTTCGATAATTT
1 TACAAATCAAGGGTATTTCGATAATTT
* ** ** * * *
61741912 TATAGGTTGAGAGTATTTTGGTAATTT
1 TACAAATCAAGGGTATTTCGATAATTT
* **
61741939 TATAGGTCAAGGGTATTTC-AGTAATTT
1 TACAAATCAAGGGTATTTCGA-TAATTT
** * *
61741966 TACAGGTCGAGGGTATTTCGGTAATTT
1 TACAAATCAAGGGTATTTCGATAATTT
* * *
61741993 CACAAATC-AGGAGTATTTTGGTAATTT
1 TACAAATCAAGG-GTATTTCGATAATTT
**
61742020 TGTAAA-CTAAGGGTATTTC
1 TACAAATC-AAGGGTATTTC
61742039 AGTAATTCTA
Statistics
Matches: 212, Mismatches: 43, Indels: 14
0.79 0.16 0.05
Matches are distributed among these distances:
26 16 0.08
27 181 0.85
28 15 0.07
ACGTcount: A:0.31, C:0.09, G:0.19, T:0.41
Consensus pattern (27 bp):
TACAAATCAAGGGTATTTCGATAATTT
Found at i:61741928 original size:54 final size:54
Alignment explanation
Indices: 61741825--61742020 Score: 200
Period size: 54 Copynumber: 3.6 Consensus size: 54
61741815 GGTATTTCTA
* * * * **
61741825 TAATTTTCCAAATTAAGGGTATTTCGGTAATTTTCCAAATT-AGGGGTATTTTGG
1 TAATTTTACAAATCAAGGGTATTTCGATAATTTTACAGGTTGA-GGGTATTTTGG
* *
61741879 TAATTTTACAAATCAAGGGTATTTCGATAATTTTATAGGTTGAGAGTATTTTGG
1 TAATTTTACAAATCAAGGGTATTTCGATAATTTTACAGGTTGAGGGTATTTTGG
* ** * *
61741933 TAATTTTATAGGTCAAGGGTATTTC-AGTAATTTTACAGGTCGAGGGTATTTCGG
1 TAATTTTACAAATCAAGGGTATTTCGA-TAATTTTACAGGTTGAGGGTATTTTGG
* * *
61741987 TAATTTCACAAATC-AGGAGTATTTTGGTAATTTT
1 TAATTTTACAAATCAAGG-GTATTTCGATAATTTT
61742021 GTAAACTAAG
Statistics
Matches: 117, Mismatches: 21, Indels: 8
0.80 0.14 0.05
Matches are distributed among these distances:
53 4 0.03
54 112 0.96
55 1 0.01
ACGTcount: A:0.29, C:0.08, G:0.21, T:0.42
Consensus pattern (54 bp):
TAATTTTACAAATCAAGGGTATTTCGATAATTTTACAGGTTGAGGGTATTTTGG
Found at i:61742032 original size:81 final size:80
Alignment explanation
Indices: 61741762--61742045 Score: 236
Period size: 81 Copynumber: 3.5 Consensus size: 80
61741752 CAAACCAAGG
* * * * *
61741762 GTATTTCGATAATTTTGTAAACCAATGGTATTTTA-TAATTTTTTA-AAGTCAAGGGTATTTCTA
1 GTATTTCGGTAATTTTGTAAACTAAGGGTATTTCAGTAA--TTTTACAAGTCAAGGGTATTTCGA
61741825 TAATTTTC-CAAATTAAGG-
64 TAA-TTTCACAAA-T-AGGA
** * * ** *
61741843 GTATTTCGGTAATTTTCCAAATTAGGGGTATTTTGGTAATTTTACAAATCAAGGGTATTTCGATA
1 GTATTTCGGTAATTTTGTAAACTAAGGGTATTTCAGTAATTTTACAAGTCAAGGGTATTTCGATA
* * ** *
61741908 ATTTTATAGGTTGAGA
66 ATTTCACAAATAG-GA
* * ** * * *
61741924 GTATTTTGGTAATTTTAT-AGGTCAAGGGTATTTCAGTAATTTTACAGGTCGAGGGTATTTCGGT
1 GTATTTCGGTAATTTTGTAAACT-AAGGGTATTTCAGTAATTTTACAAGTCAAGGGTATTTCGAT
61741988 AATTTCACAAATCAGGA
65 AATTTCACAAAT-AGGA
*
61742005 GTATTTTGGTAATTTTGTAAACTAAGGGTATTTCAGTAATT
1 GTATTTCGGTAATTTTGTAAACTAAGGGTATTTCAGTAATT
61742046 CTACCCTACA
Statistics
Matches: 160, Mismatches: 35, Indels: 16
0.76 0.17 0.08
Matches are distributed among these distances:
79 1 0.01
80 12 0.08
81 141 0.88
82 6 0.04
ACGTcount: A:0.30, C:0.08, G:0.19, T:0.42
Consensus pattern (80 bp):
GTATTTCGGTAATTTTGTAAACTAAGGGTATTTCAGTAATTTTACAAGTCAAGGGTATTTCGATA
ATTTCACAAATAGGA
Found at i:61742065 original size:81 final size:81
Alignment explanation
Indices: 61741922--61742071 Score: 187
Period size: 81 Copynumber: 1.9 Consensus size: 81
61741912 TATAGGTTGA
** * ** * * *
61741922 GAGTATTTTGGTAATTTTATAGGTCAAGGGTATTTCAGTAATTTTACAGGTCGAGGGTATTTCGG
1 GAGTATTTTGGTAATTTTATAACTCAAGGGTATTTCAGTAATTCTACACCTCAAGGGCATTTCAG
61741987 TAATTTCACAAATCAG
66 TAATTTCACAAATCAG
*
61742003 GAGTATTTTGGTAATTTTGTAAACT-AAGGGTATTTCAGTAATTCTAC-CCTACAAGGGCATTTC
1 GAGTATTTTGGTAATTTTAT-AACTCAAGGGTATTTCAGTAATTCTACACCT-CAAGGGCATTTC
61742066 AGTAAT
64 AGTAAT
61742072 ATTAGCCTAC
Statistics
Matches: 58, Mismatches: 9, Indels: 4
0.82 0.13 0.06
Matches are distributed among these distances:
80 1 0.02
81 55 0.95
82 2 0.03
ACGTcount: A:0.29, C:0.11, G:0.21, T:0.38
Consensus pattern (81 bp):
GAGTATTTTGGTAATTTTATAACTCAAGGGTATTTCAGTAATTCTACACCTCAAGGGCATTTCAG
TAATTTCACAAATCAG
Found at i:61749878 original size:50 final size:51
Alignment explanation
Indices: 61749759--61749947 Score: 200
Period size: 50 Copynumber: 3.7 Consensus size: 51
61749749 ATTGTGAGAA
* * *** * * *
61749759 CACATGTGTAGTACTATGTGCAGGATACTATGTGTTTAAAATGGTTTTAGGT
1 CACATGTGTAGTACTAAGTGCAGGCTACTATGTGTACCAGATAG-CTTAGGT
* * * *
61749811 CACGTGTGTAGTACTAAGTGCAAGCTATTATGTGTACCAGAT-GGTTAGGT
1 CACATGTGTAGTACTAAGTGCAGGCTACTATGTGTACCAGATAGCTTAGGT
* * * * *
61749861 CGCATGTGTAGTACTAAGTGCAGGCTACTATGCGTACCCGATAGCTTCGAT
1 CACATGTGTAGTACTAAGTGCAGGCTACTATGTGTACCAGATAGCTTAGGT
*
61749912 CACATGTGTAGTACTAAGTGCAGGCCACTATGTGTA
1 CACATGTGTAGTACTAAGTGCAGGCTACTATGTGTA
61749948 AGACATGGTT
Statistics
Matches: 114, Mismatches: 22, Indels: 3
0.82 0.16 0.02
Matches are distributed among these distances:
50 42 0.37
51 39 0.34
52 33 0.29
ACGTcount: A:0.26, C:0.16, G:0.26, T:0.32
Consensus pattern (51 bp):
CACATGTGTAGTACTAAGTGCAGGCTACTATGTGTACCAGATAGCTTAGGT
Found at i:61749964 original size:51 final size:51
Alignment explanation
Indices: 61749759--61749977 Score: 194
Period size: 51 Copynumber: 4.3 Consensus size: 51
61749749 ATTGTGAGAA
* * *
61749759 CACATGTGTAGTACTATGTGCAGGATACTATGTGTTTAA-A-ATGGTTTTAGGT
1 CACATGTGTAGTACTAAGTGCAGGCTACTATGTG--TAACACATGGTTTT-GAT
* * * * * * *
61749811 CACGTGTGTAGTACTAAGTGCAAGCTATTATGTGTACCAGATGG-TTAGGT
1 CACATGTGTAGTACTAAGTGCAGGCTACTATGTGTAACACATGGTTTTGAT
* * * * * *
61749861 CGCATGTGTAGTACTAAGTGCAGGCTACTATGCGT-ACCCGATAGCTTCGAT
1 CACATGTGTAGTACTAAGTGCAGGCTACTATGTGTAACAC-ATGGTTTTGAT
* *
61749912 CACATGTGTAGTACTAAGTGCAGGCCACTATGTGTAAGACATGGTTTTGAT
1 CACATGTGTAGTACTAAGTGCAGGCTACTATGTGTAACACATGGTTTTGAT
* *
61749963 CACAGGTGTGGTACT
1 CACATGTGTAGTACT
61749978 GTGTGAAAGC
Statistics
Matches: 134, Mismatches: 28, Indels: 11
0.77 0.16 0.06
Matches are distributed among these distances:
49 1 0.01
50 38 0.28
51 60 0.45
52 35 0.26
ACGTcount: A:0.26, C:0.16, G:0.26, T:0.32
Consensus pattern (51 bp):
CACATGTGTAGTACTAAGTGCAGGCTACTATGTGTAACACATGGTTTTGAT
Found at i:61752567 original size:27 final size:27
Alignment explanation
Indices: 61752537--61752714 Score: 205
Period size: 27 Copynumber: 6.6 Consensus size: 27
61752527 ATATTGAGTC
* * * *
61752537 CGCACACTCAGTGCTATATAATCAACT
1 CGCACACTTAGTGCTACATAGTCAAAT
* *
61752564 CGCACACTTAGTGCTACGTAATCAAAT
1 CGCACACTTAGTGCTACATAGTCAAAT
61752591 CGCACACTTAGTGCTACATAGTCAAACT
1 CGCACACTTAGTGCTACATAGTCAAA-T
** * *
61752619 CGCACACTTAGTGCCGCATGGTCAATT
1 CGCACACTTAGTGCTACATAGTCAAAT
* **
61752646 CGCACACTTAGTGC-ATCATATTCATTT
1 CGCACACTTAGTGCTA-CATAGTCAAAT
*
61752673 CGCACACTTAGTGCAACATAGTCAAAT
1 CGCACACTTAGTGCTACATAGTCAAAT
61752700 CGCACACTTAGTGCT
1 CGCACACTTAGTGCT
61752715 GTACAATTTA
Statistics
Matches: 130, Mismatches: 18, Indels: 6
0.84 0.12 0.04
Matches are distributed among these distances:
27 106 0.82
28 24 0.18
ACGTcount: A:0.30, C:0.28, G:0.15, T:0.27
Consensus pattern (27 bp):
CGCACACTTAGTGCTACATAGTCAAAT
Found at i:61752676 original size:82 final size:81
Alignment explanation
Indices: 61752558--61752713 Score: 233
Period size: 82 Copynumber: 1.9 Consensus size: 81
61752548 TGCTATATAA
* *
61752558 TCAACTCGCACACTTAGTGCTACGTAATCAAATCGCACACTTAGTGCTACATAGTCAAACTCGCA
1 TCAACTCGCACACTTAGTGCTACATAATCAAATCGCACACTTAGTGCAACATAGTCAAA-TCGCA
61752623 CACTTAGTGCCGCATGG
65 CACTTAGTGCCGCATGG
* * **
61752640 TCAATTCGCACACTTAGTGC-ATCATATTCATTTCGCACACTTAGTGCAACATAGTCAAATCGCA
1 TCAACTCGCACACTTAGTGCTA-CATAATCAAATCGCACACTTAGTGCAACATAGTCAAATCGCA
61752704 CACTTAGTGC
65 CACTTAGTGC
61752714 TGTACAATTT
Statistics
Matches: 67, Mismatches: 6, Indels: 3
0.88 0.08 0.04
Matches are distributed among these distances:
81 16 0.24
82 51 0.76
ACGTcount: A:0.29, C:0.28, G:0.15, T:0.27
Consensus pattern (81 bp):
TCAACTCGCACACTTAGTGCTACATAATCAAATCGCACACTTAGTGCAACATAGTCAAATCGCAC
ACTTAGTGCCGCATGG
Found at i:61753280 original size:13 final size:13
Alignment explanation
Indices: 61753262--61753286 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
61753252 TACTAAATTT
61753262 TCATGGATTCAAG
1 TCATGGATTCAAG
61753275 TCATGGATTCAA
1 TCATGGATTCAA
61753287 TATACCATTA
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.32, C:0.16, G:0.20, T:0.32
Consensus pattern (13 bp):
TCATGGATTCAAG
Found at i:61757538 original size:102 final size:102
Alignment explanation
Indices: 61757362--61757564 Score: 379
Period size: 102 Copynumber: 2.0 Consensus size: 102
61757352 GAGAAATATG
* *
61757362 ATATGAATGCTTTGGTGATATTATGCAAATGTGGACTTCGTATTATTGTATGGTTATGTTACTTG
1 ATATGAATGCTTTGGTAATATTATGCAAATGTGGACTTCGTATTATTGCATGGTTATGTTACTTG
61757427 CTATTTACATGTGAACTTACTAAGCATTTATGCTTAT
66 CTATTTACATGTGAACTTACTAAGCATTTATGCTTAT
*
61757464 ATATGAATGCTTTGTTAATATTATGCAAATGTGGACTTCGTATTATTGCATGGTTATGTTACTTG
1 ATATGAATGCTTTGGTAATATTATGCAAATGTGGACTTCGTATTATTGCATGGTTATGTTACTTG
61757529 CTATTTACATGTGAACTTACTAAGCATTTATGCTTA
66 CTATTTACATGTGAACTTACTAAGCATTTATGCTTA
61757565 CTCCCTGCCT
Statistics
Matches: 98, Mismatches: 3, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
102 98 1.00
ACGTcount: A:0.27, C:0.11, G:0.18, T:0.44
Consensus pattern (102 bp):
ATATGAATGCTTTGGTAATATTATGCAAATGTGGACTTCGTATTATTGCATGGTTATGTTACTTG
CTATTTACATGTGAACTTACTAAGCATTTATGCTTAT
Found at i:61758761 original size:14 final size:14
Alignment explanation
Indices: 61758739--61758776 Score: 67
Period size: 14 Copynumber: 2.7 Consensus size: 14
61758729 CTCGATTCAG
*
61758739 AAAAGTATGAATAA
1 AAAATTATGAATAA
61758753 AAAATTATGAATAA
1 AAAATTATGAATAA
61758767 AAAATTATGA
1 AAAATTATGA
61758777 TATATACATA
Statistics
Matches: 23, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
14 23 1.00
ACGTcount: A:0.63, C:0.00, G:0.11, T:0.26
Consensus pattern (14 bp):
AAAATTATGAATAA
Found at i:61759870 original size:15 final size:15
Alignment explanation
Indices: 61759850--61759928 Score: 90
Period size: 15 Copynumber: 5.3 Consensus size: 15
61759840 GTATCTTGGG
61759850 TTCTTTATTCTGGAT
1 TTCTTTATTCTGGAT
*
61759865 TTCTTTATTCTGGGT
1 TTCTTTATTCTGGAT
*
61759880 TTCTTTATTCTGGGT
1 TTCTTTATTCTGGAT
* *
61759895 TTCTCTA-TCTTAGAT
1 TTCTTTATTC-TGGAT
*
61759910 TTCTTTATTC-GGTT
1 TTCTTTATTCTGGAT
61759924 TTCTT
1 TTCTT
61759929 GTTATCTTTA
Statistics
Matches: 55, Mismatches: 7, Indels: 5
0.82 0.10 0.07
Matches are distributed among these distances:
14 9 0.16
15 44 0.80
16 2 0.04
ACGTcount: A:0.10, C:0.15, G:0.14, T:0.61
Consensus pattern (15 bp):
TTCTTTATTCTGGAT
Found at i:61759885 original size:30 final size:30
Alignment explanation
Indices: 61759841--61759928 Score: 101
Period size: 30 Copynumber: 3.0 Consensus size: 30
61759831 CATAGTATTG
61759841 TATCTTGGG-TTCTTTATTCTGGATTTCTT
1 TATCTTGGGTTTCTTTATTCTGGATTTCTT
* *
61759870 TAT-TCTGGGTTTCTTTATTCTGGGTTTCTC
1 TATCT-TGGGTTTCTTTATTCTGGATTTCTT
* * *
61759900 TATCTTAGATTTCTTTATTC-GGTTTTCTT
1 TATCTTGGGTTTCTTTATTCTGGATTTCTT
61759929 GTTATCTTTA
Statistics
Matches: 50, Mismatches: 6, Indels: 6
0.81 0.10 0.10
Matches are distributed among these distances:
28 1 0.02
29 14 0.28
30 34 0.68
31 1 0.02
ACGTcount: A:0.10, C:0.15, G:0.16, T:0.59
Consensus pattern (30 bp):
TATCTTGGGTTTCTTTATTCTGGATTTCTT
Found at i:61760702 original size:19 final size:19
Alignment explanation
Indices: 61760678--61760718 Score: 64
Period size: 19 Copynumber: 2.2 Consensus size: 19
61760668 TTAAATTGTT
*
61760678 TTATAATATGAAATGAATA
1 TTATAATATGAAAGGAATA
*
61760697 TTATAATATTAAAGGAATA
1 TTATAATATGAAAGGAATA
61760716 TTA
1 TTA
61760719 ATATTATAAC
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
19 20 1.00
ACGTcount: A:0.51, C:0.00, G:0.10, T:0.39
Consensus pattern (19 bp):
TTATAATATGAAAGGAATA
Found at i:61761115 original size:39 final size:39
Alignment explanation
Indices: 61761061--61761149 Score: 160
Period size: 39 Copynumber: 2.3 Consensus size: 39
61761051 TTATATGATT
61761061 TGGTGTTATATCCGGGCTAAGCCCCGAAGGCATTCGTGC
1 TGGTGTTATATCCGGGCTAAGCCCCGAAGGCATTCGTGC
*
61761100 TGGTGTTATATCCGGGCTAAGCCCCGAAGGCATTTGTGC
1 TGGTGTTATATCCGGGCTAAGCCCCGAAGGCATTCGTGC
*
61761139 TGGTATTATAT
1 TGGTGTTATAT
61761150 TCAGGCTTAA
Statistics
Matches: 48, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
39 48 1.00
ACGTcount: A:0.19, C:0.21, G:0.29, T:0.30
Consensus pattern (39 bp):
TGGTGTTATATCCGGGCTAAGCCCCGAAGGCATTCGTGC
Found at i:61765149 original size:43 final size:42
Alignment explanation
Indices: 61765101--61765223 Score: 133
Period size: 42 Copynumber: 2.9 Consensus size: 42
61765091 AGACATCGTG
*
61765101 TAAGACTGTGTTTGGGACACAGGCCTCGATTGAGATTTACATA
1 TAAGACCGTGTTTGGGACACAGGCCTCGATTGAGATTT-CATA
* ** * * *
61765144 TAAGACCATGTTTGGGACATGGGCATCGTATCT--GATTTCGTG
1 TAAGACCGTGTTTGGGACACAGGCCTCG-AT-TGAGATTTCATA
*
61765186 TAAGACCGTGTCTGGGACACAGGCCTCGATTGAGATTT
1 TAAGACCGTGTTTGGGACACAGGCCTCGATTGAGATTT
61765224 TTGTGTAAGA
Statistics
Matches: 64, Mismatches: 12, Indels: 9
0.75 0.14 0.11
Matches are distributed among these distances:
40 1 0.02
41 2 0.03
42 30 0.47
43 28 0.44
44 2 0.03
45 1 0.02
ACGTcount: A:0.24, C:0.18, G:0.28, T:0.30
Consensus pattern (42 bp):
TAAGACCGTGTTTGGGACACAGGCCTCGATTGAGATTTCATA
Found at i:61765223 original size:42 final size:42
Alignment explanation
Indices: 61765096--61765235 Score: 149
Period size: 43 Copynumber: 3.3 Consensus size: 42
61765086 GTCTGAGACA
*
61765096 TCGTGTAAGACTGTGTTTGGGACACAGGCCTCGATTGAGATT
1 TCGTGTAAGACCGTGTTTGGGACACAGGCCTCGATTGAGATT
* * * ** *
61765138 TACATATAAGACCATGTTTGGGACATGGGCATCGTATCT--GATT
1 T-CGTGTAAGACCGTGTTTGGGACACAGGCCTCG-AT-TGAGATT
*
61765181 TCGTGTAAGACCGTGTCTGGGACACAGGCCTCGATTGAGATTT
1 TCGTGTAAGACCGTGTTTGGGACACAGGCCTCGATTGAGA-TT
*
61765224 TTGTGTAAGACC
1 TCGTGTAAGACC
61765236 CTATTTGAGA
Statistics
Matches: 77, Mismatches: 15, Indels: 11
0.75 0.15 0.11
Matches are distributed among these distances:
40 1 0.01
41 2 0.03
42 28 0.36
43 43 0.56
44 2 0.03
45 1 0.01
ACGTcount: A:0.24, C:0.18, G:0.28, T:0.31
Consensus pattern (42 bp):
TCGTGTAAGACCGTGTTTGGGACACAGGCCTCGATTGAGATT
Found at i:61765256 original size:85 final size:86
Alignment explanation
Indices: 61765096--61765278 Score: 219
Period size: 85 Copynumber: 2.1 Consensus size: 86
61765086 GTCTGAGACA
* * * *
61765096 TCGTGTAAGACTGTGTTTGGGACACAGGCCTCGATTGAGATTTACATATAAGACCATGTTTGGGA
1 TCGTGTAAGACCGTGTCTGGGACACAGGCCTCGATTGAGATTTACATATAAGACCATATTTGAGA
*
61765161 CATGGGCATCG-TATCTG-ATT
66 CATGGACATCGATAT-TGAATT
*** * *
61765181 TCGTGTAAGACCGTGTCTGGGACACAGGCCTCGATTGAGATTTTTGTGTAAGACCCTATTTGAGA
1 TCGTGTAAGACCGTGTCTGGGACACAGGCCTCGATTGAGATTTACATATAAGACCATATTTGAGA
61765246 CA-GAGACATCGATATTGAATT
66 CATG-GACATCGATATTGAATT
* *
61765267 ACCTGTAAGACC
1 TCGTGTAAGACC
61765279 ACGTCCGGGA
Statistics
Matches: 83, Mismatches: 12, Indels: 5
0.83 0.12 0.05
Matches are distributed among these distances:
84 1 0.01
85 66 0.80
86 16 0.19
ACGTcount: A:0.26, C:0.18, G:0.26, T:0.30
Consensus pattern (86 bp):
TCGTGTAAGACCGTGTCTGGGACACAGGCCTCGATTGAGATTTACATATAAGACCATATTTGAGA
CATGGACATCGATATTGAATT
Found at i:61767936 original size:68 final size:67
Alignment explanation
Indices: 61767864--61768013 Score: 171
Period size: 67 Copynumber: 2.2 Consensus size: 67
61767854 CATCATGTGT
* * * *
61767864 ACAAGAGAGCTACAAGACATTATGATGTAGCTAGGTCGCATGGGT-GATACTA-TG-TGTACACC
1 ACAAGAGAGCTAC--GACA-TAT-ATGTAGCTAGGTCGCATGCGTGGATACAAGTGAAGGACACC
61767926 ATGTAG
62 ATGTAG
** * *
61767932 ACAAGAGAGCTACGGGATATATGTAGCTAGGTCGCATGCGTGGTTCCAAGTGAAGGACACCATGT
1 ACAAGAGAGCTACGACATATATGTAGCTAGGTCGCATGCGTGGATACAAGTGAAGGACACCATGT
61767997 AG
66 AG
61767999 ACAAGAGAGCTACGA
1 ACAAGAGAGCTACGA
61768014 GATAAACTGG
Statistics
Matches: 70, Mismatches: 9, Indels: 7
0.81 0.10 0.08
Matches are distributed among these distances:
64 20 0.29
65 7 0.10
66 4 0.06
67 26 0.37
68 13 0.19
ACGTcount: A:0.33, C:0.17, G:0.29, T:0.21
Consensus pattern (67 bp):
ACAAGAGAGCTACGACATATATGTAGCTAGGTCGCATGCGTGGATACAAGTGAAGGACACCATGT
AG
Found at i:61767969 original size:64 final size:64
Alignment explanation
Indices: 61767888--61768071 Score: 194
Period size: 67 Copynumber: 2.8 Consensus size: 64
61767878 AGACATTATG
* *
61767888 ATGTAGCTAGGTCGCATGGGTGATACTATGTGTACACCATGTAGACAAGAGAGCTACGGGATAT
1 ATGTAGCTAGGTCGCATGGGTGATACTATGTGTACACCATGTAGACAAGAGAGCTACGAGATAA
* * * * * *
61767952 ATGTAGCTAGGTCGCATGCGTGGTTCCAAGTGAAGGACACCATGTAGACAAGAGAGCTACGAGAT
1 ATGTAGCTAGGTCGCATGGGT-GATACTA-TG-TGTACACCATGTAGACAAGAGAGCTACGAGAT
61768017 AA
63 AA
* * * *
61768019 ACTG--GCTAGGTCACATGGGTGGTACTAAGTGTTCACCATGT-GTACAAGAGAGC
1 A-TGTAGCTAGGTCGCATGGGTGATACTATGTGTACACCATGTAG-ACAAGAGAGC
61768072 CGAACTATAT
Statistics
Matches: 98, Mismatches: 17, Indels: 11
0.78 0.13 0.09
Matches are distributed among these distances:
62 1 0.01
63 19 0.19
64 21 0.21
65 8 0.08
66 16 0.16
67 31 0.32
68 2 0.02
ACGTcount: A:0.30, C:0.17, G:0.30, T:0.23
Consensus pattern (64 bp):
ATGTAGCTAGGTCGCATGGGTGATACTATGTGTACACCATGTAGACAAGAGAGCTACGAGATAA
Found at i:61772382 original size:68 final size:67
Alignment explanation
Indices: 61772310--61772459 Score: 171
Period size: 67 Copynumber: 2.2 Consensus size: 67
61772300 CATCATGTGT
* * * *
61772310 ACAAGAGAGCTACAAGACATTATGATGTAGCTAGGTCGCATGGGT-GATACTA-TG-TGTACACC
1 ACAAGAGAGCTAC--GACA-TAT-ATGTAGCTAGGTCGCATGCGTGGATACAAGTGAAGGACACC
61772372 ATGTAG
62 ATGTAG
** * *
61772378 ACAAGAGAGCTACGGGATATATGTAGCTAGGTCGCATGCGTGGTTCCAAGTGAAGGACACCATGT
1 ACAAGAGAGCTACGACATATATGTAGCTAGGTCGCATGCGTGGATACAAGTGAAGGACACCATGT
61772443 AG
66 AG
61772445 ACAAGAGAGCTACGA
1 ACAAGAGAGCTACGA
61772460 GATAAACTGG
Statistics
Matches: 70, Mismatches: 9, Indels: 7
0.81 0.10 0.08
Matches are distributed among these distances:
64 20 0.29
65 7 0.10
66 4 0.06
67 26 0.37
68 13 0.19
ACGTcount: A:0.33, C:0.17, G:0.29, T:0.21
Consensus pattern (67 bp):
ACAAGAGAGCTACGACATATATGTAGCTAGGTCGCATGCGTGGATACAAGTGAAGGACACCATGT
AG
Found at i:61772415 original size:64 final size:64
Alignment explanation
Indices: 61772334--61772517 Score: 194
Period size: 67 Copynumber: 2.8 Consensus size: 64
61772324 AGACATTATG
* *
61772334 ATGTAGCTAGGTCGCATGGGTGATACTATGTGTACACCATGTAGACAAGAGAGCTACGGGATAT
1 ATGTAGCTAGGTCGCATGGGTGATACTATGTGTACACCATGTAGACAAGAGAGCTACGAGATAA
* * * * * *
61772398 ATGTAGCTAGGTCGCATGCGTGGTTCCAAGTGAAGGACACCATGTAGACAAGAGAGCTACGAGAT
1 ATGTAGCTAGGTCGCATGGGT-GATACTA-TG-TGTACACCATGTAGACAAGAGAGCTACGAGAT
61772463 AA
63 AA
* * * *
61772465 ACTG--GCTAGGTCACATGGGTGGTACTAAGTGTTCACCATGT-GTACAAGAGAGC
1 A-TGTAGCTAGGTCGCATGGGTGATACTATGTGTACACCATGTAG-ACAAGAGAGC
61772518 CGAACTATAT
Statistics
Matches: 98, Mismatches: 17, Indels: 11
0.78 0.13 0.09
Matches are distributed among these distances:
62 1 0.01
63 19 0.19
64 21 0.21
65 8 0.08
66 16 0.16
67 31 0.32
68 2 0.02
ACGTcount: A:0.30, C:0.17, G:0.30, T:0.23
Consensus pattern (64 bp):
ATGTAGCTAGGTCGCATGGGTGATACTATGTGTACACCATGTAGACAAGAGAGCTACGAGATAA
Found at i:61777440 original size:31 final size:31
Alignment explanation
Indices: 61777397--61777460 Score: 101
Period size: 31 Copynumber: 2.1 Consensus size: 31
61777387 CCTTTTCATA
61777397 TTTCATAATTCATAACACTGGGCCGAAGCCT
1 TTTCATAATTCATAACACTGGGCCGAAGCCT
* **
61777428 TTTCATATTTCATATTACTGGGCCGAAGCCT
1 TTTCATAATTCATAACACTGGGCCGAAGCCT
61777459 TT
1 TT
61777461 ACTGTAAACG
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:0.25, C:0.23, G:0.16, T:0.36
Consensus pattern (31 bp):
TTTCATAATTCATAACACTGGGCCGAAGCCT
Found at i:61777705 original size:24 final size:24
Alignment explanation
Indices: 61777654--61777869 Score: 389
Period size: 24 Copynumber: 9.0 Consensus size: 24
61777644 GCTTTATCAT
*
61777654 ATAACTGGAGGCCT-AGCCTCTTTTA
1 ATAACTGG-GGCATAAGCC-CTTTTA
*
61777679 ATAACTGGGGCAAAAGCCCTTTTA
1 ATAACTGGGGCATAAGCCCTTTTA
61777703 ATAACTGGGGCATAAGCCCTTTTA
1 ATAACTGGGGCATAAGCCCTTTTA
61777727 ATAACTGGGGCATAAGCCCTTTTA
1 ATAACTGGGGCATAAGCCCTTTTA
61777751 ATAACTGGGGCATAAGCCCTTTTA
1 ATAACTGGGGCATAAGCCCTTTTA
61777775 ATAACTGGGGCATAAGCCCTTTTA
1 ATAACTGGGGCATAAGCCCTTTTA
61777799 ATAACTGGGGCATAAGCCCTTTTA
1 ATAACTGGGGCATAAGCCCTTTTA
61777823 ATAACTGGGGCATAAGCCCTTTTA
1 ATAACTGGGGCATAAGCCCTTTTA
61777847 ATAACTGGGGCATAAGCCCTTTT
1 ATAACTGGGGCATAAGCCCTTTT
61777870 GCACTTCCTC
Statistics
Matches: 187, Mismatches: 3, Indels: 3
0.97 0.02 0.02
Matches are distributed among these distances:
24 175 0.94
25 12 0.06
ACGTcount: A:0.29, C:0.21, G:0.21, T:0.29
Consensus pattern (24 bp):
ATAACTGGGGCATAAGCCCTTTTA
Found at i:61777941 original size:9 final size:9
Alignment explanation
Indices: 61777927--61777983 Score: 51
Period size: 9 Copynumber: 5.9 Consensus size: 9
61777917 ATCTCATGTG
61777927 CATATCATA
1 CATATCATA
*
61777936 CATATCATGTG
1 CATATCA--TA
61777947 CATATCATA
1 CATATCATA
* *
61777956 CATGTCATGTG
1 CATATCA--TA
61777967 CATATCATA
1 CATATCATA
61777976 CATATCAT
1 CATATCAT
61777984 GTTTATCAAA
Statistics
Matches: 38, Mismatches: 6, Indels: 8
0.73 0.12 0.15
Matches are distributed among these distances:
9 23 0.61
11 15 0.39
ACGTcount: A:0.35, C:0.21, G:0.09, T:0.35
Consensus pattern (9 bp):
CATATCATA
Found at i:61777943 original size:20 final size:20
Alignment explanation
Indices: 61777915--61777985 Score: 124
Period size: 20 Copynumber: 3.5 Consensus size: 20
61777905 GCATTTATGA
*
61777915 ACATCTCATGTGCATATCAT
1 ACATATCATGTGCATATCAT
61777935 ACATATCATGTGCATATCAT
1 ACATATCATGTGCATATCAT
*
61777955 ACATGTCATGTGCATATCAT
1 ACATATCATGTGCATATCAT
61777975 ACATATCATGT
1 ACATATCATGT
61777986 TTATCAAAAT
Statistics
Matches: 48, Mismatches: 3, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
20 48 1.00
ACGTcount: A:0.32, C:0.21, G:0.11, T:0.35
Consensus pattern (20 bp):
ACATATCATGTGCATATCAT
Found at i:61777950 original size:11 final size:11
Alignment explanation
Indices: 61777920--61777974 Score: 55
Period size: 11 Copynumber: 5.4 Consensus size: 11
61777910 TATGAACATC
61777920 TCATGTGCATA
1 TCATGTGCATA
*
61777931 TCA--TACATA
1 TCATGTGCATA
61777940 TCATGTGCATA
1 TCATGTGCATA
* *
61777951 TCA--TACATG
1 TCATGTGCATA
61777960 TCATGTGCATA
1 TCATGTGCATA
61777971 TCAT
1 TCAT
61777975 ACATATCATG
Statistics
Matches: 34, Mismatches: 6, Indels: 8
0.71 0.12 0.17
Matches are distributed among these distances:
9 15 0.44
11 19 0.56
ACGTcount: A:0.31, C:0.20, G:0.13, T:0.36
Consensus pattern (11 bp):
TCATGTGCATA
Found at i:61778050 original size:25 final size:25
Alignment explanation
Indices: 61778022--61778069 Score: 69
Period size: 25 Copynumber: 1.9 Consensus size: 25
61778012 ATATATAAAC
* * *
61778022 CCTAGGGGTATAATGGTCATTTTTA
1 CCTAGGGGCAAAACGGTCATTTTTA
61778047 CCTAGGGGCAAAACGGTCATTTT
1 CCTAGGGGCAAAACGGTCATTTT
61778070 CATATTATAA
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
25 20 1.00
ACGTcount: A:0.25, C:0.17, G:0.25, T:0.33
Consensus pattern (25 bp):
CCTAGGGGCAAAACGGTCATTTTTA
Found at i:61782153 original size:40 final size:40
Alignment explanation
Indices: 61782054--61782364 Score: 419
Period size: 40 Copynumber: 7.8 Consensus size: 40
61782044 TGGATGAAAA
* ** * * **
61782054 CCGGGCTAAGTCCCGAAGGCATCTGCACTAGTGACTAGTT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAAT
61782094 CCGGGC-AAGTCCCGAAGGCATTTGTGCGAGTTACTAAAT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAAT
61782133 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAAT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAAT
* * *
61782173 CCGCGCTAAGTCCCGAAGGCAATTGTGTGAGTTACTAAAT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAAT
* * *
61782213 CCAGGCTAAGTCCTGAAGGCAATTGTGCGAGTTACTAAAT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAAT
*
61782253 TCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAAT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAAT
* * *
61782293 CCGAGCTAAGTCCCGAAGGCAATTGTGCGAGTTACTCTAA-
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACT-AAAT
* * *
61782333 CCGGGCTATGTCCCAAAGGCATTTGAGCGAGT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGT
61782365 AGCTATATCC
Statistics
Matches: 242, Mismatches: 27, Indels: 4
0.89 0.10 0.01
Matches are distributed among these distances:
39 32 0.13
40 208 0.86
41 2 0.01
ACGTcount: A:0.26, C:0.23, G:0.27, T:0.24
Consensus pattern (40 bp):
CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAAT
Found at i:61803807 original size:22 final size:21
Alignment explanation
Indices: 61803765--61803805 Score: 64
Period size: 21 Copynumber: 2.0 Consensus size: 21
61803755 TTAATTTTAC
61803765 TAAAATAGTATTCGAAAAAAT
1 TAAAATAGTATTCGAAAAAAT
* *
61803786 TAAAATAGTTTTTGAAAAAA
1 TAAAATAGTATTCGAAAAAA
61803806 ATGAAATGAA
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
21 18 1.00
ACGTcount: A:0.56, C:0.02, G:0.10, T:0.32
Consensus pattern (21 bp):
TAAAATAGTATTCGAAAAAAT
Found at i:61803812 original size:21 final size:21
Alignment explanation
Indices: 61803765--61803812 Score: 60
Period size: 21 Copynumber: 2.3 Consensus size: 21
61803755 TTAATTTTAC
*
61803765 TAAAATAGTATTCGAAAAAAT
1 TAAAATAGTATTCGAAAAAAA
* *
61803786 TAAAATAGTTTTTGAAAAAAA
1 TAAAATAGTATTCGAAAAAAA
*
61803807 TGAAAT
1 TAAAAT
61803813 GAAATTTAAA
Statistics
Matches: 23, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
21 23 1.00
ACGTcount: A:0.56, C:0.02, G:0.10, T:0.31
Consensus pattern (21 bp):
TAAAATAGTATTCGAAAAAAA
Found at i:61803825 original size:18 final size:19
Alignment explanation
Indices: 61803802--61803842 Score: 57
Period size: 19 Copynumber: 2.2 Consensus size: 19
61803792 AGTTTTTGAA
61803802 AAAAATGAAA-TGAAATTT
1 AAAAATGAAATTGAAATTT
* *
61803820 AAAAATTAAATTGAGATTT
1 AAAAATGAAATTGAAATTT
61803839 AAAA
1 AAAA
61803843 GAATAAAGGA
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
18 9 0.45
19 11 0.55
ACGTcount: A:0.61, C:0.00, G:0.10, T:0.29
Consensus pattern (19 bp):
AAAAATGAAATTGAAATTT
Found at i:61806782 original size:25 final size:25
Alignment explanation
Indices: 61806736--61806796 Score: 77
Period size: 25 Copynumber: 2.4 Consensus size: 25
61806726 ATGTGTCGTT
** *
61806736 CCGGGTTTGGGTCGGATTGCCCCGA
1 CCGGGTTTGGGTCGGACCGCCCAGA
*
61806761 CTGGGTTTGGGTCGGACCGCCCAGA
1 CCGGGTTTGGGTCGGACCGCCCAGA
*
61806786 CCAGGTTTGGG
1 CCGGGTTTGGG
61806797 GCACCACAGA
Statistics
Matches: 30, Mismatches: 6, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
25 30 1.00
ACGTcount: A:0.10, C:0.26, G:0.41, T:0.23
Consensus pattern (25 bp):
CCGGGTTTGGGTCGGACCGCCCAGA
Found at i:61810759 original size:28 final size:28
Alignment explanation
Indices: 61810714--61810796 Score: 123
Period size: 28 Copynumber: 3.0 Consensus size: 28
61810704 GGAGGAAGCG
* *
61810714 TTCTAGTGGCTCTACCACAAATATCTGT
1 TTCTGGTGGCTCTGCCACAAATATCTGT
* *
61810742 TTCTGGTGCCTCTGCCACAAATATCTAT
1 TTCTGGTGGCTCTGCCACAAATATCTGT
61810770 TTCTGGTGGCTCTGCCAC-AATATCTGT
1 TTCTGGTGGCTCTGCCACAAATATCTGT
61810797 ATCTAGTGAA
Statistics
Matches: 49, Mismatches: 6, Indels: 1
0.88 0.11 0.02
Matches are distributed among these distances:
27 8 0.16
28 41 0.84
ACGTcount: A:0.20, C:0.27, G:0.17, T:0.36
Consensus pattern (28 bp):
TTCTGGTGGCTCTGCCACAAATATCTGT
Found at i:61810810 original size:27 final size:28
Alignment explanation
Indices: 61810714--61810821 Score: 112
Period size: 28 Copynumber: 3.9 Consensus size: 28
61810704 GGAGGAAGCG
* * *
61810714 TTCTAGTGGCTCTACCACAAATATCTGT
1 TTCTGGTGACTCTGCCACAAATATCTGT
* *
61810742 TTCTGGTGCCTCTGCCACAAATATCTAT
1 TTCTGGTGACTCTGCCACAAATATCTGT
*
61810770 TTCTGGTGGCTCTGCCAC-AATATCTGT
1 TTCTGGTGACTCTGCCACAAATATCTGT
* * * *
61810797 ATCTAGTGAATCTGTCAC-AATATCT
1 TTCTGGTGACTCTGCCACAAATATCT
61810822 ATTCTGGCAG
Statistics
Matches: 69, Mismatches: 11, Indels: 1
0.85 0.14 0.01
Matches are distributed among these distances:
27 28 0.41
28 41 0.59
ACGTcount: A:0.23, C:0.25, G:0.16, T:0.36
Consensus pattern (28 bp):
TTCTGGTGACTCTGCCACAAATATCTGT
Found at i:61810816 original size:55 final size:54
Alignment explanation
Indices: 61810714--61810828 Score: 142
Period size: 55 Copynumber: 2.1 Consensus size: 54
61810704 GGAGGAAGCG
* * * **
61810714 TTCTAGTGGCTCTACCACAAATATCTGTTTCTGGTGCCTCTGCCACAAATATCTA
1 TTCTGGTGGCTCTACCACAAATATCTGTATCTAGTGAATCTGCCAC-AATATCTA
* *
61810769 TTTCTGGTGGCTCTGCCAC-AATATCTGTATCTAGTGAATCTGTCACAATATCTA
1 -TTCTGGTGGCTCTACCACAAATATCTGTATCTAGTGAATCTGCCACAATATCTA
61810823 TTCTGG
1 TTCTGG
61810829 CAGCCATGCT
Statistics
Matches: 52, Mismatches: 7, Indels: 3
0.84 0.11 0.05
Matches are distributed among these distances:
53 6 0.12
54 8 0.15
55 22 0.42
56 16 0.31
ACGTcount: A:0.23, C:0.24, G:0.17, T:0.37
Consensus pattern (54 bp):
TTCTGGTGGCTCTACCACAAATATCTGTATCTAGTGAATCTGCCACAATATCTA
Found at i:61818585 original size:28 final size:27
Alignment explanation
Indices: 61818545--61818627 Score: 112
Period size: 27 Copynumber: 3.0 Consensus size: 27
61818535 GGAGGAAGCG
61818545 TTCTGGTGGCTCTGCCACAAATATCTGT
1 TTCTGGTGGCTCTGCCAC-AATATCTGT
* *
61818573 TTCTGGTGGCTCTACCACAATATCGGT
1 TTCTGGTGGCTCTGCCACAATATCTGT
* * *
61818600 ATCTGGTGACTCTGTCACAATATCTGT
1 TTCTGGTGGCTCTGCCACAATATCTGT
61818627 T
1 T
61818628 CTAGCAGCCA
Statistics
Matches: 47, Mismatches: 8, Indels: 1
0.84 0.14 0.02
Matches are distributed among these distances:
27 30 0.64
28 17 0.36
ACGTcount: A:0.19, C:0.24, G:0.20, T:0.36
Consensus pattern (27 bp):
TTCTGGTGGCTCTGCCACAATATCTGT
Found at i:61824300 original size:24 final size:24
Alignment explanation
Indices: 61824255--61824314 Score: 63
Period size: 24 Copynumber: 2.5 Consensus size: 24
61824245 TTAAAGAAAC
*
61824255 TGGATTATGTATT-TGATTTATATT
1 TGGATTATGT-TTGTGATTTATAAT
61824279 TGGATTATGTTTGT-ATTATATAAT
1 TGGATTATGTTTGTGATT-TATAAT
*
61824303 TGGCTTA-GTTTG
1 TGGATTATGTTTG
61824315 ATTTAATTTA
Statistics
Matches: 32, Mismatches: 2, Indels: 5
0.82 0.05 0.13
Matches are distributed among these distances:
23 10 0.31
24 22 0.69
ACGTcount: A:0.23, C:0.02, G:0.20, T:0.55
Consensus pattern (24 bp):
TGGATTATGTTTGTGATTTATAAT
Found at i:61830498 original size:38 final size:38
Alignment explanation
Indices: 61830456--61830592 Score: 157
Period size: 38 Copynumber: 3.6 Consensus size: 38
61830446 ATAGGCTTTA
* *
61830456 TGCTGGAATTATATCCGGGTTAAATCCCGCAGACTTCG
1 TGCTGGTATTATATCCGGGTTAAATCCCGCAGGCTTCG
* * *
61830494 TGCTGGTATTATAACCGGGTTAAATCCCGCAGGCCTAG
1 TGCTGGTATTATATCCGGGTTAAATCCCGCAGGCTTCG
* * *
61830532 TGCTGGTATTATATCTGAGTTTAAAGTCCCGTAGGCTTCG
1 TGCTGGTATTATATCCG-GGTTAAA-TCCCGCAGGCTTCG
* * *
61830572 TGCTGGTGTTATGTTCGGGTT
1 TGCTGGTATTATATCCGGGTT
61830593 TTATACCTCA
Statistics
Matches: 81, Mismatches: 16, Indels: 3
0.81 0.16 0.03
Matches are distributed among these distances:
38 48 0.59
39 9 0.11
40 24 0.30
ACGTcount: A:0.20, C:0.20, G:0.27, T:0.34
Consensus pattern (38 bp):
TGCTGGTATTATATCCGGGTTAAATCCCGCAGGCTTCG
Found at i:61832529 original size:26 final size:26
Alignment explanation
Indices: 61832498--61832582 Score: 134
Period size: 26 Copynumber: 3.3 Consensus size: 26
61832488 TGAAATGCCC
61832498 ATCATGGAACATTTACCTAAACCATT
1 ATCATGGAACATTTACCTAAACCATT
*
61832524 ATCATGGAACATTTACCTAACCCATT
1 ATCATGGAACATTTACCTAAACCATT
* *
61832550 ATCATGGAATATTTACCTAATCCATT
1 ATCATGGAACATTTACCTAAACCATT
*
61832576 ATAATGG
1 ATCATGG
61832583 GTTAGGTAAA
Statistics
Matches: 55, Mismatches: 4, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
26 55 1.00
ACGTcount: A:0.36, C:0.21, G:0.09, T:0.33
Consensus pattern (26 bp):
ATCATGGAACATTTACCTAAACCATT
Found at i:61832599 original size:26 final size:26
Alignment explanation
Indices: 61832570--61832655 Score: 145
Period size: 26 Copynumber: 3.3 Consensus size: 26
61832560 ATTTACCTAA
* *
61832570 TCCATTATAATGGGTTAGGTAAATAT
1 TCCATGATAATGGGTTAGGTAAATGT
61832596 TCCATGATAATGGGTTAGGTAAATGT
1 TCCATGATAATGGGTTAGGTAAATGT
*
61832622 TCCATGATAATGGTTTAGGTAAATGT
1 TCCATGATAATGGGTTAGGTAAATGT
61832648 TCCATGAT
1 TCCATGAT
61832656 GGGCATTTCA
Statistics
Matches: 57, Mismatches: 3, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
26 57 1.00
ACGTcount: A:0.31, C:0.09, G:0.22, T:0.37
Consensus pattern (26 bp):
TCCATGATAATGGGTTAGGTAAATGT
Found at i:61834169 original size:26 final size:26
Alignment explanation
Indices: 61834140--61834192 Score: 72
Period size: 26 Copynumber: 2.0 Consensus size: 26
61834130 TTTACAGTTT
61834140 TACCCCTAGGAGGTAAATT-ACCGAAA
1 TACCCCTAGG-GGTAAATTGACCGAAA
* *
61834166 TACCCCTAGGGTTAAATTGACCTAAA
1 TACCCCTAGGGGTAAATTGACCGAAA
61834192 T
1 T
61834193 GCATGTTTGA
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:0.36, C:0.23, G:0.17, T:0.25
Consensus pattern (26 bp):
TACCCCTAGGGGTAAATTGACCGAAA
Found at i:61839670 original size:26 final size:26
Alignment explanation
Indices: 61839641--61839696 Score: 103
Period size: 26 Copynumber: 2.2 Consensus size: 26
61839631 TGGTACAAAT
61839641 TGATAATGGGTTAGGTAAATGTTCCA
1 TGATAATGGGTTAGGTAAATGTTCCA
*
61839667 TGATAATGGTTTAGGTAAATGTTCCA
1 TGATAATGGGTTAGGTAAATGTTCCA
61839693 TGAT
1 TGAT
61839697 GGGCATTTCA
Statistics
Matches: 29, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
26 29 1.00
ACGTcount: A:0.30, C:0.07, G:0.25, T:0.38
Consensus pattern (26 bp):
TGATAATGGGTTAGGTAAATGTTCCA
Found at i:61841284 original size:26 final size:26
Alignment explanation
Indices: 61841232--61841284 Score: 63
Period size: 26 Copynumber: 2.0 Consensus size: 26
61841222 TTTACAGTTT
*
61841232 TACCCCTAGGAGATAAATTATCGAAA
1 TACCCCTAGGAGATAAATTAACGAAA
* *
61841258 TACCCCTAGG-GTTAAATTGAACTAAA
1 TACCCCTAGGAGATAAATT-AACGAAA
61841284 T
1 T
61841285 GCATGTTTGA
Statistics
Matches: 23, Mismatches: 3, Indels: 2
0.82 0.11 0.07
Matches are distributed among these distances:
25 7 0.30
26 16 0.70
ACGTcount: A:0.40, C:0.19, G:0.15, T:0.26
Consensus pattern (26 bp):
TACCCCTAGGAGATAAATTAACGAAA
Found at i:61846090 original size:67 final size:68
Alignment explanation
Indices: 61846016--61846166 Score: 170
Period size: 67 Copynumber: 2.2 Consensus size: 68
61846006 CATCATGTGT
* * *
61846016 ACAAGAGAGCTACGAGACATTATGATGTAGCTAGGTCGCATG-G-GGATACTA-TG-TGTACACC
1 ACAAGAGAGCTACGAGACA-TAT-ATGTAGCTAGGTCGCATGCGTGG-TACCAGTGAAGGACACC
61846077 ATGTAG
63 ATGTAG
* * *
61846083 ACAAGAGAGCTACG-G-GATATATGTAGCTAGGTCTCATGCGTGGTTCCAGGTGAAGGACACCAT
1 ACAAGAGAGCTACGAGACATATATGTAGCTAGGTCGCATGCGTGGTACCA-GTGAAGGACACCAT
61846146 GTAG
65 GTAG
61846150 ACAAGAGAGCTACGAGA
1 ACAAGAGAGCTACGAGA
61846167 TAAACTGGCT
Statistics
Matches: 71, Mismatches: 6, Indels: 12
0.80 0.07 0.13
Matches are distributed among these distances:
63 17 0.24
64 7 0.10
65 3 0.04
66 3 0.04
67 40 0.56
68 1 0.01
ACGTcount: A:0.32, C:0.17, G:0.30, T:0.21
Consensus pattern (68 bp):
ACAAGAGAGCTACGAGACATATATGTAGCTAGGTCGCATGCGTGGTACCAGTGAAGGACACCATG
TAG
Found at i:61849998 original size:30 final size:30
Alignment explanation
Indices: 61849964--61850024 Score: 86
Period size: 30 Copynumber: 2.0 Consensus size: 30
61849954 TTCCTGAGCC
61849964 TAGGGGCAAAAGTGTAAATATGCAAAAGTT
1 TAGGGGCAAAAGTGTAAATATGCAAAAGTT
* * * *
61849994 TAGGGGCAAAATTGTAATTTTGCCAAAGTT
1 TAGGGGCAAAAGTGTAAATATGCAAAAGTT
61850024 T
1 T
61850025 GAGTTAAGGA
Statistics
Matches: 27, Mismatches: 4, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
30 27 1.00
ACGTcount: A:0.38, C:0.08, G:0.25, T:0.30
Consensus pattern (30 bp):
TAGGGGCAAAAGTGTAAATATGCAAAAGTT
Found at i:61858206 original size:13 final size:13
Alignment explanation
Indices: 61858186--61858220 Score: 61
Period size: 13 Copynumber: 2.7 Consensus size: 13
61858176 GGCTGAACCT
61858186 AAATAATTAAATA
1 AAATAATTAAATA
*
61858199 ACATAATTAAATA
1 AAATAATTAAATA
61858212 AAATAATTA
1 AAATAATTA
61858221 TTCATATAAT
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
13 20 1.00
ACGTcount: A:0.66, C:0.03, G:0.00, T:0.31
Consensus pattern (13 bp):
AAATAATTAAATA
Found at i:61858524 original size:20 final size:20
Alignment explanation
Indices: 61858460--61858514 Score: 101
Period size: 20 Copynumber: 2.8 Consensus size: 20
61858450 GGCTAAATTT
61858460 GAGCTCAAGCGAGCTAAATC
1 GAGCTCAAGCGAGCTAAATC
*
61858480 AAGCTCAAGCGAGCTAAATC
1 GAGCTCAAGCGAGCTAAATC
61858500 GAGCTCAAGCGAGCT
1 GAGCTCAAGCGAGCT
61858515 GATTGGAGCT
Statistics
Matches: 33, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
20 33 1.00
ACGTcount: A:0.35, C:0.25, G:0.25, T:0.15
Consensus pattern (20 bp):
GAGCTCAAGCGAGCTAAATC
Found at i:61860307 original size:18 final size:18
Alignment explanation
Indices: 61860269--61860307 Score: 51
Period size: 18 Copynumber: 2.2 Consensus size: 18
61860259 TCACTCTCGA
***
61860269 TCTCTTTTTCTTTTTCCT
1 TCTCTTTTTCTTTTAAAT
61860287 TCTCTTTTTCTTTTAAAT
1 TCTCTTTTTCTTTTAAAT
61860305 TCT
1 TCT
61860308 TTCTCACTTG
Statistics
Matches: 18, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
18 18 1.00
ACGTcount: A:0.08, C:0.23, G:0.00, T:0.69
Consensus pattern (18 bp):
TCTCTTTTTCTTTTAAAT
Found at i:61862446 original size:13 final size:13
Alignment explanation
Indices: 61862428--61862462 Score: 61
Period size: 13 Copynumber: 2.7 Consensus size: 13
61862418 GGCTGAACCT
61862428 ACATAATTAAATA
1 ACATAATTAAATA
61862441 ACATAATTAAATA
1 ACATAATTAAATA
*
61862454 AAATAATTA
1 ACATAATTA
61862463 TTCATATAAT
Statistics
Matches: 21, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
13 21 1.00
ACGTcount: A:0.63, C:0.06, G:0.00, T:0.31
Consensus pattern (13 bp):
ACATAATTAAATA
Found at i:61865882 original size:31 final size:31
Alignment explanation
Indices: 61865844--61865906 Score: 126
Period size: 31 Copynumber: 2.0 Consensus size: 31
61865834 TTTGCCAAAG
61865844 TATAAATTATGAAATCTATTGGTTAATATGA
1 TATAAATTATGAAATCTATTGGTTAATATGA
61865875 TATAAATTATGAAATCTATTGGTTAATATGA
1 TATAAATTATGAAATCTATTGGTTAATATGA
61865906 T
1 T
61865907 GATTAAAATA
Statistics
Matches: 32, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
31 32 1.00
ACGTcount: A:0.41, C:0.03, G:0.13, T:0.43
Consensus pattern (31 bp):
TATAAATTATGAAATCTATTGGTTAATATGA
Found at i:61868478 original size:87 final size:87
Alignment explanation
Indices: 61868332--61868512 Score: 292
Period size: 87 Copynumber: 2.1 Consensus size: 87
61868322 CAGTTGTGTG
*
61868332 GAGGACACGACCTAGCACACGGGTGTGTGGCCTGGCCGTGTGGTTCAAATTACTTGCTGACGTCA
1 GAGGACACGACCTAGCACACGGGCGTGTGGCCTGGCCGTGTGGTTCAAATTACTTGCTGACGTCA
*
61868397 CAAATAAAGAATTATACGAGCT
66 CAAATAAAGAATTACACGAGCT
**
61868419 GAGGACAC-AGCCTAGCACACGGGCGTGTGGCCTGGCCGTGTGGTTCAAATTACTTGCTGATTTC
1 GAGGACACGA-CCTAGCACACGGGCGTGTGGCCTGGCCGTGTGGTTCAAATTACTTGCTGACGTC
* *
61868483 ACAAATAAAGAGTTACACGGGCT
65 ACAAATAAAGAATTACACGAGCT
61868506 GAGGACA
1 GAGGACA
61868513 TGAGCGTGTC
Statistics
Matches: 87, Mismatches: 6, Indels: 2
0.92 0.06 0.02
Matches are distributed among these distances:
86 1 0.01
87 86 0.99
ACGTcount: A:0.27, C:0.22, G:0.29, T:0.22
Consensus pattern (87 bp):
GAGGACACGACCTAGCACACGGGCGTGTGGCCTGGCCGTGTGGTTCAAATTACTTGCTGACGTCA
CAAATAAAGAATTACACGAGCT
Found at i:61891980 original size:24 final size:24
Alignment explanation
Indices: 61891941--61892016 Score: 77
Period size: 24 Copynumber: 3.2 Consensus size: 24
61891931 AGATGACTAT
* * *
61891941 ATAAAATTTTTCAATAAATAAAAA
1 ATAAAATTATTAAATAATTAAAAA
61891965 ATAAAATTATTAAAT-ATTAAAATA
1 ATAAAATTATTAAATAATTAAAA-A
* *
61891989 ATATAA-TA-TAAATATTTAAAAA
1 ATAAAATTATTAAATAATTAAAAA
61892011 ATAAAA
1 ATAAAA
61892017 AAATAATATG
Statistics
Matches: 44, Mismatches: 6, Indels: 6
0.79 0.11 0.11
Matches are distributed among these distances:
22 11 0.25
23 14 0.32
24 19 0.43
ACGTcount: A:0.64, C:0.01, G:0.00, T:0.34
Consensus pattern (24 bp):
ATAAAATTATTAAATAATTAAAAA
Found at i:61897430 original size:19 final size:19
Alignment explanation
Indices: 61897406--61897445 Score: 71
Period size: 19 Copynumber: 2.1 Consensus size: 19
61897396 CTTTTTTGAA
61897406 TTCATTCAACATTTCCAAG
1 TTCATTCAACATTTCCAAG
*
61897425 TTCATTCAACATTTCTAAG
1 TTCATTCAACATTTCCAAG
61897444 TT
1 TT
61897446 TGACGCAACT
Statistics
Matches: 20, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
19 20 1.00
ACGTcount: A:0.30, C:0.23, G:0.05, T:0.42
Consensus pattern (19 bp):
TTCATTCAACATTTCCAAG
Found at i:61898653 original size:22 final size:22
Alignment explanation
Indices: 61898628--61898670 Score: 68
Period size: 22 Copynumber: 2.0 Consensus size: 22
61898618 GAGAATGAAT
*
61898628 AAAAGAAAAGGAAAAAGGAAAA
1 AAAAGAAAAGAAAAAAGGAAAA
*
61898650 AAAAGAAAAGAAAAAATGAAA
1 AAAAGAAAAGAAAAAAGGAAA
61898671 TAGAAAAATA
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
22 19 1.00
ACGTcount: A:0.79, C:0.00, G:0.19, T:0.02
Consensus pattern (22 bp):
AAAAGAAAAGAAAAAAGGAAAA
Found at i:61904170 original size:4 final size:4
Alignment explanation
Indices: 61904163--61904187 Score: 50
Period size: 4 Copynumber: 6.2 Consensus size: 4
61904153 CTCAAGTTGC
61904163 TATT TATT TATT TATT TATT TATT T
1 TATT TATT TATT TATT TATT TATT T
61904188 GGTAACATAG
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
4 21 1.00
ACGTcount: A:0.24, C:0.00, G:0.00, T:0.76
Consensus pattern (4 bp):
TATT
Found at i:61905673 original size:8 final size:8
Alignment explanation
Indices: 61905660--61905698 Score: 51
Period size: 9 Copynumber: 4.6 Consensus size: 8
61905650 TACTTTTGCA
61905660 TAAATTTT
1 TAAATTTT
61905668 TAAATTTT
1 TAAATTTT
61905676 TAAATTTTT
1 TAAA-TTTT
*
61905685 TTAATATTT
1 TAAAT-TTT
61905694 TAAAT
1 TAAAT
61905699 CAATTTTTAT
Statistics
Matches: 27, Mismatches: 2, Indels: 3
0.84 0.06 0.09
Matches are distributed among these distances:
8 13 0.48
9 14 0.52
ACGTcount: A:0.38, C:0.00, G:0.00, T:0.62
Consensus pattern (8 bp):
TAAATTTT
Found at i:61905685 original size:18 final size:18
Alignment explanation
Indices: 61905660--61905698 Score: 55
Period size: 17 Copynumber: 2.3 Consensus size: 18
61905650 TACTTTTGCA
*
61905660 TAAA-TTTTTAAAT-TTT
1 TAAATTTTTTTAATATTT
61905676 TAAATTTTTTTAATATTT
1 TAAATTTTTTTAATATTT
61905694 TAAAT
1 TAAAT
61905699 CAATTTTTAT
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
16 4 0.20
17 8 0.40
18 8 0.40
ACGTcount: A:0.38, C:0.00, G:0.00, T:0.62
Consensus pattern (18 bp):
TAAATTTTTTTAATATTT
Found at i:61905724 original size:21 final size:20
Alignment explanation
Indices: 61905662--61905707 Score: 53
Period size: 18 Copynumber: 2.4 Consensus size: 20
61905652 CTTTTGCATA
61905662 AATTTTTAA-ATTTTTAAAT-
1 AATTTTTAATA-TTTTAAATC
*
61905681 -TTTTTTAATATTTTAAATC
1 AATTTTTAATATTTTAAATC
61905700 AATTTTTA
1 AATTTTTA
61905708 TCATTTTATA
Statistics
Matches: 22, Mismatches: 2, Indels: 5
0.76 0.07 0.17
Matches are distributed among these distances:
18 15 0.68
19 1 0.05
20 6 0.27
ACGTcount: A:0.37, C:0.02, G:0.00, T:0.61
Consensus pattern (20 bp):
AATTTTTAATATTTTAAATC
Found at i:61906184 original size:7 final size:8
Alignment explanation
Indices: 61906165--61906227 Score: 51
Period size: 8 Copynumber: 8.0 Consensus size: 8
61906155 TGTTGAAACT
61906165 TTTTTATA
1 TTTTTATA
61906173 TTTTTATA
1 TTTTTATA
61906181 TTTTTGA-A
1 TTTTT-ATA
*
61906189 TTTTTAAAA
1 TTTTT-ATA
* *
61906198 TTATTCTA
1 TTTTTATA
*
61906206 ATTTTA-A
1 TTTTTATA
61906213 TTTTT-TA
1 TTTTTATA
61906220 TTTTTATA
1 TTTTTATA
61906228 GAGATTTTTA
Statistics
Matches: 43, Mismatches: 8, Indels: 8
0.73 0.14 0.14
Matches are distributed among these distances:
7 11 0.26
8 26 0.60
9 6 0.14
ACGTcount: A:0.29, C:0.02, G:0.02, T:0.68
Consensus pattern (8 bp):
TTTTTATA
Found at i:61909200 original size:9 final size:9
Alignment explanation
Indices: 61909188--61909212 Score: 50
Period size: 9 Copynumber: 2.8 Consensus size: 9
61909178 TATTTTAAGT
61909188 ATTTAATTA
1 ATTTAATTA
61909197 ATTTAATTA
1 ATTTAATTA
61909206 ATTTAAT
1 ATTTAAT
61909213 ATATATATAA
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
9 16 1.00
ACGTcount: A:0.44, C:0.00, G:0.00, T:0.56
Consensus pattern (9 bp):
ATTTAATTA
Found at i:61911457 original size:38 final size:38
Alignment explanation
Indices: 61911406--61911482 Score: 154
Period size: 38 Copynumber: 2.0 Consensus size: 38
61911396 CTATGAGGAC
61911406 TTAGTATATGATGATATTATGAAAGATATGTATTTGGA
1 TTAGTATATGATGATATTATGAAAGATATGTATTTGGA
61911444 TTAGTATATGATGATATTATGAAAGATATGTATTTGGA
1 TTAGTATATGATGATATTATGAAAGATATGTATTTGGA
61911482 T
1 T
61911483 AAGCATGTGC
Statistics
Matches: 39, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
38 39 1.00
ACGTcount: A:0.36, C:0.00, G:0.21, T:0.43
Consensus pattern (38 bp):
TTAGTATATGATGATATTATGAAAGATATGTATTTGGA
Found at i:61923126 original size:47 final size:47
Alignment explanation
Indices: 61923075--61923250 Score: 237
Period size: 47 Copynumber: 3.7 Consensus size: 47
61923065 TTAGGATTCT
* *
61923075 ATGTGATGGATGTGAACA-TGCATATATGTGATAAGGCCTAATGGCCG
1 ATGTGATGAATGTGAA-AGTGTATATATGTGATAAGGCCTAATGGCCG
61923122 ATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCG
1 ATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCG
* * * * *
61923169 ATGTGATGAATGTGAAAGTGTATATATGTGACAGGGCCGAGTGGCCA
1 ATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCG
** * *
61923216 ACATGATGGATGTGAAAGTGTATAAATGTGATAAG
1 ATGTGATGAATGTGAAAGTGTATATATGTGATAAG
61923251 TCCCGAAGGG
Statistics
Matches: 115, Mismatches: 13, Indels: 2
0.88 0.10 0.02
Matches are distributed among these distances:
46 1 0.01
47 114 0.99
ACGTcount: A:0.32, C:0.09, G:0.31, T:0.28
Consensus pattern (47 bp):
ATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCG
Found at i:61923425 original size:37 final size:37
Alignment explanation
Indices: 61923369--61923447 Score: 115
Period size: 37 Copynumber: 2.1 Consensus size: 37
61923359 CCGAGCTCTA
* *
61923369 AAGACCCGATGACTACGTGTGG-GAATTTTGTCCGGGT
1 AAGACCCGATAACTACGTGTGGAG-ATTATGTCCGGGT
*
61923406 AAGACCCGATAACTTCGTGTGGAGATTATGTCCGGGT
1 AAGACCCGATAACTACGTGTGGAGATTATGTCCGGGT
61923443 AAGAC
1 AAGAC
61923448 TTCGTAATAA
Statistics
Matches: 38, Mismatches: 3, Indels: 2
0.88 0.07 0.05
Matches are distributed among these distances:
37 37 0.97
38 1 0.03
ACGTcount: A:0.25, C:0.19, G:0.30, T:0.25
Consensus pattern (37 bp):
AAGACCCGATAACTACGTGTGGAGATTATGTCCGGGT
Found at i:61928902 original size:40 final size:40
Alignment explanation
Indices: 61928853--61928935 Score: 148
Period size: 40 Copynumber: 2.1 Consensus size: 40
61928843 CACACCGCTG
* *
61928853 GCACTCGGGTTTAACAAATCTCGAGTTCCCTATACTGGCT
1 GCACTCGGGTTTAACAAATCTCGAGGTCCCTACACTGGCT
61928893 GCACTCGGGTTTAACAAATCTCGAGGTCCCTACACTGGCT
1 GCACTCGGGTTTAACAAATCTCGAGGTCCCTACACTGGCT
61928933 GCA
1 GCA
61928936 GAAGTATTCT
Statistics
Matches: 41, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
40 41 1.00
ACGTcount: A:0.23, C:0.29, G:0.22, T:0.27
Consensus pattern (40 bp):
GCACTCGGGTTTAACAAATCTCGAGGTCCCTACACTGGCT
Done.