Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Gbar_A05
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: 102776486
ACGTcount: A:0.32, C:0.17, G:0.17, T:0.32
Warning! 2328156 characters in sequence are not A, C, G, or T
File 195 of 325
Found at i:61205839 original size:27 final size:27
Alignment explanation
Indices: 61205793--61206130 Score: 136
Period size: 27 Copynumber: 12.5 Consensus size: 27
61205783 GACTATTTTG
*
61205793 GTAATTTTGTAAA-CTAAGGGTATTTCA
1 GTAATTTTGTAAATC-GAGGGTATTTCA
** *
61205820 GTAATTTTGTAAATCGAGGGTAAAATGA
1 GTAATTTTGTAAATCGAGGGT-ATTTCA
* *** *
61205848 -TAATTCTGTAAATCGAGGGTAAGACG
1 GTAATTTTGTAAATCGAGGGTATTTCA
* ** *
61205874 GTAATTTTGTAAATCAAGGGTAAAAT-G
1 GTAATTTTGTAAATCGAGGGT-ATTTCA
* * ***
61205901 GTAATTCTATAAATCGAGGGTAAAAC-
1 GTAATTTTGTAAATCGAGGGTATTTCA
* * ** *
61205927 GATAATTCTATAAATCGAGGGTAAAGT-G
1 G-TAATTTTGTAAATCGAGGGT-ATTTCA
* * *
61205955 GTAATTCTATCT-TA-C-AGGAGTATTTTA
1 GTAATT-T-TGTAAATCGAGG-GTATTTCA
**
61205982 GTAATTTTACAAAATCGAGGGTATTTCA
1 GTAATTTT-GTAAATCGAGGGTATTTCA
* * *
61206010 GTAATTTTGCAAACCGAGGGTATTTTA
1 GTAATTTTGTAAATCGAGGGTATTTCA
** * **
61206037 GTAATTTTACAAATCGAGGATATTTGG
1 GTAATTTTGTAAATCGAGGGTATTTCA
* *
61206064 GTAATTTTATAAATCGAGGGTACTTT-G
1 GTAATTTTGTAAATCGAGGGTA-TTTCA
** * *
61206091 GTAATTTTACAAGTCGAAGGTATTTCA
1 GTAATTTTGTAAATCGAGGGTATTTCA
*
61206118 GTAATTTGGTAAA
1 GTAATTTTGTAAA
61206131 CTAAAGTATT
Statistics
Matches: 246, Mismatches: 47, Indels: 36
0.75 0.14 0.11
Matches are distributed among these distances:
25 1 0.00
26 16 0.07
27 195 0.79
28 29 0.12
29 5 0.02
ACGTcount: A:0.35, C:0.08, G:0.21, T:0.35
Consensus pattern (27 bp):
GTAATTTTGTAAATCGAGGGTATTTCA
Found at i:61205877 original size:81 final size:81
Alignment explanation
Indices: 61205792--61205950 Score: 223
Period size: 81 Copynumber: 2.0 Consensus size: 81
61205782 GGACTATTTT
** * * *
61205792 GGTAATTTTGTAAA-CTAAGGGT-ATTTCAGTAATTTTGTAAATCGAGGGTAAAATGATAATTCT
1 GGTAATTTTGTAAATC-AAGGGTAAAAT-AGTAATTCTATAAATCGAGGGTAAAACGATAATTCT
*
61205855 GTAAATCGAGGGTAAGAC
64 ATAAATCGAGGGTAAGAC
*
61205873 GGTAATTTTGTAAATCAAGGGTAAAATGGTAATTCTATAAATCGAGGGTAAAACGATAATTCTAT
1 GGTAATTTTGTAAATCAAGGGTAAAATAGTAATTCTATAAATCGAGGGTAAAACGATAATTCTAT
61205938 AAATCGAGGGTAA
66 AAATCGAGGGTAA
61205951 AGTGGTAATT
Statistics
Matches: 69, Mismatches: 7, Indels: 4
0.86 0.09 0.05
Matches are distributed among these distances:
81 66 0.96
82 3 0.04
ACGTcount: A:0.38, C:0.08, G:0.23, T:0.31
Consensus pattern (81 bp):
GGTAATTTTGTAAATCAAGGGTAAAATAGTAATTCTATAAATCGAGGGTAAAACGATAATTCTAT
AAATCGAGGGTAAGAC
Found at i:61205963 original size:54 final size:54
Alignment explanation
Indices: 61205829--61205964 Score: 200
Period size: 54 Copynumber: 2.5 Consensus size: 54
61205819 AGTAATTTTG
* * * * * *
61205829 TAAATCGAGGGTAAAATGATAATTCTGTAAATCGAGGGTAAGACGGTAATTTTG
1 TAAATCGAGGGTAAAATGGTAATTCTATAAATCGAGGGTAAAACGATAATTCTA
*
61205883 TAAATCAAGGGTAAAATGGTAATTCTATAAATCGAGGGTAAAACGATAATTCTA
1 TAAATCGAGGGTAAAATGGTAATTCTATAAATCGAGGGTAAAACGATAATTCTA
*
61205937 TAAATCGAGGGTAAAGTGGTAATTCTAT
1 TAAATCGAGGGTAAAATGGTAATTCTAT
61205965 CTTACAGGAG
Statistics
Matches: 73, Mismatches: 9, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
54 73 1.00
ACGTcount: A:0.40, C:0.08, G:0.23, T:0.29
Consensus pattern (54 bp):
TAAATCGAGGGTAAAATGGTAATTCTATAAATCGAGGGTAAAACGATAATTCTA
Found at i:61205986 original size:81 final size:81
Alignment explanation
Indices: 61205792--61206004 Score: 211
Period size: 81 Copynumber: 2.6 Consensus size: 81
61205782 GGACTATTTT
* * * * *
61205792 GGTAATTTTGTAAA-CTAAGGGTATTTCAGTAATTTTGTAAATCGAGGGTAAAATGATAATTCTG
1 GGTAATTTTCTAAATC-AAGGGTATTTTAGTAATTTTATAAATCGAGGGTAAAACGATAATTCTA
61205856 TAAATCGAGGGTAAGAC
65 TAAATCGAGGGTAAGAC
* *** * *
61205873 GGTAATTTTGTAAATCAAGGGTAAAATGGTAATTCTATAAATCGAGGGTAAAACGATAATTCTAT
1 GGTAATTTTCTAAATCAAGGGTATTTTAGTAATTTTATAAATCGAGGGTAAAACGATAATTCTAT
*
61205938 AAATCGAGGGTAA-AGT
66 AAATCGAGGGTAAGA-C
* *
61205954 GGTAATTCTATCT-TA-C-AGGAGTATTTTAGTAATTTTACAAAATCGAGGGTA
1 GGTAATT-T-TCTAAATCAAGG-GTATTTTAGTAATTTTA-TAAATCGAGGGTA
61206005 TTTCAGTAAT
Statistics
Matches: 108, Mismatches: 18, Indels: 11
0.79 0.13 0.08
Matches are distributed among these distances:
80 4 0.04
81 87 0.81
82 15 0.14
83 2 0.02
ACGTcount: A:0.37, C:0.08, G:0.22, T:0.33
Consensus pattern (81 bp):
GGTAATTTTCTAAATCAAGGGTATTTTAGTAATTTTATAAATCGAGGGTAAAACGATAATTCTAT
AAATCGAGGGTAAGAC
Found at i:61206070 original size:54 final size:53
Alignment explanation
Indices: 61205974--61206124 Score: 194
Period size: 54 Copynumber: 2.8 Consensus size: 53
61205964 TCTTACAGGA
*
61205974 GTATTTTAGTAATTTTACAAAATCGAGGGTATTTCAGTAATTTTGCAAACCGAGG
1 GTATTTTAGTAATTTTAC-AAATCGA-GGTATTTCAGTAATTTTACAAACCGAGG
** * *
61206029 GTATTTTAGTAATTTTACAAATCGAGGATATTTGGGTAATTTTATAAATCGAGG
1 GTATTTTAGTAATTTTACAAATCGAGG-TATTTCAGTAATTTTACAAACCGAGG
* * *
61206083 GTACTTTGGTAATTTTACAAGTCGAAGGTATTTCAGTAATTT
1 GTATTTTAGTAATTTTACAAATCG-AGGTATTTCAGTAATTT
61206125 GGTAAACTAA
Statistics
Matches: 84, Mismatches: 10, Indels: 5
0.85 0.10 0.05
Matches are distributed among these distances:
53 2 0.02
54 61 0.73
55 21 0.25
ACGTcount: A:0.32, C:0.09, G:0.20, T:0.40
Consensus pattern (53 bp):
GTATTTTAGTAATTTTACAAATCGAGGTATTTCAGTAATTTTACAAACCGAGG
Found at i:61206589 original size:85 final size:85
Alignment explanation
Indices: 61206446--61206624 Score: 340
Period size: 85 Copynumber: 2.1 Consensus size: 85
61206436 GGCCGGCCAT
*
61206446 GAGCATGGGTGGACAAGATGTTATGGCTAAAAACATGTCATAAACATGTTGGGGTAGTGCATTAT
1 GAGCATGGGTGGACAAGATGTTATGGCTAAAAACATGTCATAAACATGTTGGAGTAGTGCATTAT
61206511 GTAAGGATTAATAAAATAAA
66 GTAAGGATTAATAAAATAAA
61206531 GAGCATGGGTGGACAAGATGTTATGGCTAAAAACATGTCATAAACATGTTGGAGTAGTGCATTAT
1 GAGCATGGGTGGACAAGATGTTATGGCTAAAAACATGTCATAAACATGTTGGAGTAGTGCATTAT
61206596 GTAAGGATTAATAAAATAAA
66 GTAAGGATTAATAAAATAAA
*
61206616 GGGCATGGG
1 GAGCATGGG
61206625 CAATAAAATA
Statistics
Matches: 92, Mismatches: 2, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
85 92 1.00
ACGTcount: A:0.38, C:0.08, G:0.27, T:0.26
Consensus pattern (85 bp):
GAGCATGGGTGGACAAGATGTTATGGCTAAAAACATGTCATAAACATGTTGGAGTAGTGCATTAT
GTAAGGATTAATAAAATAAA
Found at i:61208872 original size:47 final size:47
Alignment explanation
Indices: 61208812--61209277 Score: 736
Period size: 47 Copynumber: 9.7 Consensus size: 47
61208802 TTAGGATTCT
* * *
61208812 ATGTGATGGATGTGAATA-TGCATATATGTGATAAGGCCTAATAGCCG
1 ATGTGATGAATGTGAA-AGTGTATATATGTGATAAGGCCTAATGGCCG
61208859 ATGTGATGAATGTGAAAGTGTATATATATGTGATAAGGCCTAATGGCCG
1 ATGTGATGAATGTGAAAGTG--TATATATGTGATAAGGCCTAATGGCCG
61208908 ATGTGATGAATGTGAAAGTGTATATATATGTGATAAGGCCTAATGGCCG
1 ATGTGATGAATGTGAAAGTG--TATATATGTGATAAGGCCTAATGGCCG
61208957 ATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCG
1 ATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCG
61209004 ATGTGATGAATGTGAAAGTGTATATATATGTGATAAGGCCTAATGGCCG
1 ATGTGATGAATGTGAAAGTG--TATATATGTGATAAGGCCTAATGGCCG
*
61209053 ATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGTCG
1 ATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCG
61209100 ATGTGATGAATGTGAAAGTGTATATATATGTGATAAGGCCTAATGGCCG
1 ATGTGATGAATGTGAAAGTG--TATATATGTGATAAGGCCTAATGGCCG
61209149 ATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCG
1 ATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCG
* * * * *
61209196 ATGTGATGAATGTGAAAGTGTATATATGTGACAGGGCCGAGTGGCCA
1 ATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCG
* * *
61209243 ACGTGATGGATGTGAAAGTGTATAAATGTGATAAG
1 ATGTGATGAATGTGAAAGTGTATATATGTGATAAG
61209278 TCCCGAAGGG
Statistics
Matches: 397, Mismatches: 15, Indels: 14
0.93 0.04 0.03
Matches are distributed among these distances:
46 1 0.00
47 209 0.53
49 187 0.47
ACGTcount: A:0.32, C:0.08, G:0.30, T:0.30
Consensus pattern (47 bp):
ATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCG
Found at i:61208902 original size:49 final size:49
Alignment explanation
Indices: 61208833--61209277 Score: 739
Period size: 49 Copynumber: 9.3 Consensus size: 49
61208823 GTGAATATGC
*
61208833 ATATATGTGATAAGGCCTAATAGCCGATGTGATGAATGTGAAAGTGTAT
1 ATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTAT
61208882 ATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTAT
1 ATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTAT
61208931 ATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTG--T
1 ATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTAT
61208978 ATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTAT
1 ATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTAT
61209027 ATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTG--T
1 ATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTAT
*
61209074 ATATATGTGATAAGGCCTAATGGTCGATGTGATGAATGTGAAAGTGTAT
1 ATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTAT
61209123 ATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTG--T
1 ATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTAT
61209170 ATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTG--T
1 ATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTAT
* * * * * * *
61209217 ATATATGTGACAGGGCCGAGTGGCCAACGTGATGGATGTGAAAGTGTAT
1 ATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTAT
61209266 A-A-ATGTGATAAG
1 ATATATGTGATAAG
61209278 TCCCGAAGGG
Statistics
Matches: 378, Mismatches: 12, Indels: 14
0.94 0.03 0.03
Matches are distributed among these distances:
47 188 0.50
48 1 0.00
49 189 0.50
ACGTcount: A:0.33, C:0.08, G:0.29, T:0.30
Consensus pattern (49 bp):
ATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTAT
Found at i:61208915 original size:96 final size:95
Alignment explanation
Indices: 61208812--61209277 Score: 749
Period size: 96 Copynumber: 4.9 Consensus size: 95
61208802 TTAGGATTCT
* * *
61208812 ATGTGATGGATGTGAATA-TG-CATATATGTGATAAGGCCTAATAGCCGATGTGATGAATGTGAA
1 ATGTGATGAATGTGAA-AGTGATATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAA
61208875 AGTGTATATATATGTGATAAGGCCTAATGGCCG
65 AGTG--TATATATGTGATAAGGCCTAATGGCCG
61208908 ATGTGATGAATGTGAAAGTGTATATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAA
1 ATGTGATGAATGTGAAAGTG-ATATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAA
61208973 AGTGTATATATGTGATAAGGCCTAATGGCCG
65 AGTGTATATATGTGATAAGGCCTAATGGCCG
61209004 ATGTGATGAATGTGAAAGTGTATATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAA
1 ATGTGATGAATGTGAAAGTG-ATATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAA
*
61209069 AGTGTATATATGTGATAAGGCCTAATGGTCG
65 AGTGTATATATGTGATAAGGCCTAATGGCCG
61209100 ATGTGATGAATGTGAAAGTGTATATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAA
1 ATGTGATGAATGTGAAAGTG-ATATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAA
61209165 AGTGTATATATGTGATAAGGCCTAATGGCCG
65 AGTGTATATATGTGATAAGGCCTAATGGCCG
* * * * * * *
61209196 ATGTGATGAATGTGAAAGTG-TATATATGTGACAGGGCCGAGTGGCCAACGTGATGGATGTGAAA
1 ATGTGATGAATGTGAAAGTGATATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAA
*
61209260 GTGTATAAATGTGATAAG
66 GTGTATATATGTGATAAG
61209278 TCCCGAAGGG
Statistics
Matches: 354, Mismatches: 13, Indels: 8
0.94 0.03 0.02
Matches are distributed among these distances:
94 54 0.15
95 1 0.00
96 254 0.72
98 45 0.13
ACGTcount: A:0.32, C:0.08, G:0.30, T:0.30
Consensus pattern (95 bp):
ATGTGATGAATGTGAAAGTGATATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAA
GTGTATATATGTGATAAGGCCTAATGGCCG
Found at i:61209452 original size:37 final size:37
Alignment explanation
Indices: 61209396--61209474 Score: 122
Period size: 37 Copynumber: 2.1 Consensus size: 37
61209386 CCGAGCTCTA
* * *
61209396 AAGACCCGATGACTACGTGTGGGGATTTTGTCCGGGT
1 AAGACCCGATAACTACGTGTGGAGATTATGTCCGGGT
*
61209433 AAGACCCGATAACTTCGTGTGGAGATTATGTCCGGGT
1 AAGACCCGATAACTACGTGTGGAGATTATGTCCGGGT
61209470 AAGAC
1 AAGAC
61209475 TTCGTAATAA
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:0.24, C:0.19, G:0.32, T:0.25
Consensus pattern (37 bp):
AAGACCCGATAACTACGTGTGGAGATTATGTCCGGGT
Found at i:61215141 original size:17 final size:17
Alignment explanation
Indices: 61215119--61215160 Score: 75
Period size: 17 Copynumber: 2.5 Consensus size: 17
61215109 ATCACTTACG
61215119 AGCTTACTAAACTATGA
1 AGCTTACTAAACTATGA
*
61215136 AGCTTACTAAGCTATGA
1 AGCTTACTAAACTATGA
61215153 AGCTTACT
1 AGCTTACT
61215161 GTATGTTATT
Statistics
Matches: 24, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
17 24 1.00
ACGTcount: A:0.36, C:0.19, G:0.14, T:0.31
Consensus pattern (17 bp):
AGCTTACTAAACTATGA
Found at i:61218009 original size:40 final size:40
Alignment explanation
Indices: 61217919--61218139 Score: 227
Period size: 40 Copynumber: 5.5 Consensus size: 40
61217909 CTCAAGTAAT
* * * *
61217919 CTTCGGGATTTAG-CCGGATATA-ACTACTTGCAC-AAGGC
1 CTTCGGGACTTAGCCCGGATATAGTC-ACTAGCACAAATGC
* *
61217957 CTTCGGGTCTTAGCCCGGATATAGTCACTAGCATAAATGC
1 CTTCGGGACTTAGCCCGGATATAGTCACTAGCACAAATGC
** *
61217997 CTTCAAGACTTAGCCCGGATATAGTCGCTAGCACAAATGC
1 CTTCGGGACTTAGCCCGGATATAGTCACTAGCACAAATGC
* * *
61218037 CTTCGGGTCTTAGCCCGGATATAG-CAACTCGCACGAATGC
1 CTTCGGGACTTAGCCCGGATATAGTC-ACTAGCACAAATGC
* * *
61218077 CTTC-GGATCTTAGTCCGGTTATAGTCACCTAGCACAAAAGC
1 CTTCGGGA-CTTAGCCCGGATATAGTCA-CTAGCACAAATGC
*
61218118 CTTCGGGACTTAGCCCGAATAT
1 CTTCGGGACTTAGCCCGGATAT
61218140 CATTCGAATA
Statistics
Matches: 149, Mismatches: 26, Indels: 13
0.79 0.14 0.07
Matches are distributed among these distances:
38 11 0.07
39 18 0.12
40 91 0.61
41 26 0.17
42 3 0.02
ACGTcount: A:0.26, C:0.27, G:0.22, T:0.25
Consensus pattern (40 bp):
CTTCGGGACTTAGCCCGGATATAGTCACTAGCACAAATGC
Found at i:61223318 original size:40 final size:40
Alignment explanation
Indices: 61223260--61223394 Score: 164
Period size: 40 Copynumber: 3.3 Consensus size: 40
61223250 TAAGTAAGGT
* *
61223260 ACTTAGTGTACGATTCAAGATAGCTTC-GACTATGTATGGC
1 ACTTAGTGTGCGAATCAAGATAGCTTCAG-CTATGTATGGC
* *
61223300 ACTTAGTGTGCGACTCAAGATAGCTTCAGCTATATATGGC
1 ACTTAGTGTGCGAATCAAGATAGCTTCAGCTATGTATGGC
* * *
61223340 ACTTAGTGTGCGAGATTAAAATAGCTTCAGCTATGTATTTGC
1 ACTTAGTGTGCGA-ATCAAGATAGCTTCAGCTATGTA-TGGC
*
61223382 ACTTAGTGGGCGA
1 ACTTAGTGTGCGA
61223395 GAAGTCGAGT
Statistics
Matches: 83, Mismatches: 9, Indels: 4
0.86 0.09 0.04
Matches are distributed among these distances:
40 48 0.58
41 20 0.24
42 15 0.18
ACGTcount: A:0.27, C:0.17, G:0.24, T:0.32
Consensus pattern (40 bp):
ACTTAGTGTGCGAATCAAGATAGCTTCAGCTATGTATGGC
Found at i:61229741 original size:6 final size:6
Alignment explanation
Indices: 61229723--61229807 Score: 59
Period size: 6 Copynumber: 13.8 Consensus size: 6
61229713 AAGAAACATT
* *
61229723 ATCAGA A-CTAGA ATCAGA ATCAGA ATCAGA ATTAG- GTGACAGA ATCAGA
1 ATCAGA ATC-AGA ATCAGA ATCAGA ATCAGA ATCAGA AT--CAGA ATCAGA
* * *
61229772 ATCAGGTA A-CATA ATCAAA ATCAGA ATCAGT ATCAG
1 ATCA-G-A ATCAGA ATCAGA ATCAGA ATCAGA ATCAG
61229808 GTAACAGAAT
Statistics
Matches: 63, Mismatches: 8, Indels: 16
0.72 0.09 0.18
Matches are distributed among these distances:
5 4 0.06
6 50 0.79
7 6 0.10
8 3 0.05
ACGTcount: A:0.47, C:0.15, G:0.18, T:0.20
Consensus pattern (6 bp):
ATCAGA
Found at i:61229767 original size:19 final size:19
Alignment explanation
Indices: 61229743--61229795 Score: 70
Period size: 19 Copynumber: 2.8 Consensus size: 19
61229733 GAATCAGAAT
* *
61229743 CAGAATCAGAATTAGGTGA
1 CAGAATCAGAATCAGGTAA
61229762 CAGAATCAGAATCAGGTAA
1 CAGAATCAGAATCAGGTAA
* *
61229781 CATAATCAAAATCAG
1 CAGAATCAGAATCAG
61229796 AATCAGTATC
Statistics
Matches: 30, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
19 30 1.00
ACGTcount: A:0.47, C:0.15, G:0.19, T:0.19
Consensus pattern (19 bp):
CAGAATCAGAATCAGGTAA
Found at i:61229797 original size:31 final size:32
Alignment explanation
Indices: 61229762--61229830 Score: 104
Period size: 31 Copynumber: 2.2 Consensus size: 32
61229752 AATTAGGTGA
* *
61229762 CAGAATCAGAATCAGGTAACATAAT-CAAAAT
1 CAGAATCAGAATCAGGTAACAGAATAAAAAAT
*
61229793 CAGAATCAGTATCAGGTAACAGAATAAAAAAT
1 CAGAATCAGAATCAGGTAACAGAATAAAAAAT
61229825 CAGAAT
1 CAGAAT
61229831 GTGAATGCAA
Statistics
Matches: 34, Mismatches: 3, Indels: 1
0.89 0.08 0.03
Matches are distributed among these distances:
31 23 0.68
32 11 0.32
ACGTcount: A:0.52, C:0.14, G:0.14, T:0.19
Consensus pattern (32 bp):
CAGAATCAGAATCAGGTAACAGAATAAAAAAT
Found at i:61230009 original size:27 final size:26
Alignment explanation
Indices: 61229967--61230068 Score: 123
Period size: 27 Copynumber: 3.8 Consensus size: 26
61229957 ACTCAGTTAT
* *
61229967 CAGATATTGTGACAGAGTCACCAGATA
1 CAGATATTGTGGCAGAGCCACCAGA-A
61229994 CAGATATTGTGGCAGAGCCACCAGAA
1 CAGATATTGTGGCAGAGCCACCAGAA
* *
61230020 TAGATATTTGTGGCATAGCCACCAGAAA
1 CAGATA-TTGTGGCAGAGCCACCAG-AA
* *
61230048 CAGATAATGTGGCAAAGCCAC
1 CAGATATTGTGGCAGAGCCAC
61230069 TTAACAGAAT
Statistics
Matches: 66, Mismatches: 7, Indels: 4
0.86 0.09 0.05
Matches are distributed among these distances:
26 6 0.09
27 53 0.80
28 7 0.11
ACGTcount: A:0.36, C:0.21, G:0.24, T:0.20
Consensus pattern (26 bp):
CAGATATTGTGGCAGAGCCACCAGAA
Found at i:61230939 original size:27 final size:27
Alignment explanation
Indices: 61230718--61230932 Score: 263
Period size: 27 Copynumber: 8.0 Consensus size: 27
61230708 GGGGCAAAAT
* * * *
61230718 GGTAATTTTACCCCACA-AGGTATCTC
1 GGTAATTCTACCCTACAGGGGTATTTC
*
61230744 GGTAATTGC-ACCCTACAGGGGTATTTT
1 GGTAATT-CTACCCTACAGGGGTATTTC
* * * * *
61230771 AGTAATTTTACCCAATAGGGGTATTCC
1 GGTAATTCTACCCTACAGGGGTATTTC
*
61230798 GGTAGTTCTACCCTACAGGGGTATTTC
1 GGTAATTCTACCCTACAGGGGTATTTC
* *
61230825 GGTAATTCTACCCTATAGGGGTATTTT
1 GGTAATTCTACCCTACAGGGGTATTTC
61230852 GGTAATTCTACCCTACAGGGGTATTTC
1 GGTAATTCTACCCTACAGGGGTATTTC
* *
61230879 GGTAACTCTACCCTACAGGGGTATTGC
1 GGTAATTCTACCCTACAGGGGTATTTC
*
61230906 GATAATTCTACCCTACAGGGGTATTTC
1 GGTAATTCTACCCTACAGGGGTATTTC
61230933 TATAATTTTA
Statistics
Matches: 159, Mismatches: 27, Indels: 5
0.83 0.14 0.03
Matches are distributed among these distances:
26 14 0.09
27 145 0.91
ACGTcount: A:0.24, C:0.21, G:0.22, T:0.33
Consensus pattern (27 bp):
GGTAATTCTACCCTACAGGGGTATTTC
Found at i:61230955 original size:81 final size:80
Alignment explanation
Indices: 61230753--61230958 Score: 211
Period size: 81 Copynumber: 2.5 Consensus size: 80
61230743 CGGTAATTGC
** * **
61230753 ACCCTACAGGGGTATTTTAGTAA-TTT-TACCCAATAGGGGTATTCCGGTAGTTCTACCCTACAG
1 ACCCTACAGGGGTATTTTA-TAATTTTATAAACAA-A-GGGTATTTCGGTAACTCTACCCTACAG
* *
61230816 GGGTATTTCGGTAATTCT
63 GGGTATTGCGATAATTCT
* * * *** *
61230834 ACCCTATAGGGGTATTTTGGTAATTCTACCCTAC-AGGGGTATTTCGGTAACTCTACCCTACAGG
1 ACCCTACAGGGGTATTTT-ATAATTTTA-TAAACAAAGGGTATTTCGGTAACTCTACCCTACAGG
61230898 GGTATTGCGATAATTCT
64 GGTATTGCGATAATTCT
61230915 ACCCTACAGGGGTATTTCTATAATTTTATAAACAAAGGGTATTT
1 ACCCTACAGGGGTATTT-TATAATTTTATAAACAAAGGGTATTT
61230959 TAGTAATTTT
Statistics
Matches: 99, Mismatches: 20, Indels: 12
0.76 0.15 0.09
Matches are distributed among these distances:
80 2 0.02
81 92 0.93
82 3 0.03
83 1 0.01
84 1 0.01
ACGTcount: A:0.26, C:0.19, G:0.21, T:0.34
Consensus pattern (80 bp):
ACCCTACAGGGGTATTTTATAATTTTATAAACAAAGGGTATTTCGGTAACTCTACCCTACAGGGG
TATTGCGATAATTCT
Found at i:61230981 original size:27 final size:27
Alignment explanation
Indices: 61230921--61230994 Score: 87
Period size: 27 Copynumber: 2.7 Consensus size: 27
61230911 TTCTACCCTA
*
61230921 CAGGGGTATTTCTA-TAATTTTATAAAC
1 CAGGGGTATTT-TAGTAATTTTACAAAC
* *
61230948 AAAGGGTATTTTAGTAATTTTACAAAC
1 CAGGGGTATTTTAGTAATTTTACAAAC
* *
61230975 CAGGGGTGTTTTGGTAATTT
1 CAGGGGTATTTTAGTAATTT
61230995 GGTAAACTAA
Statistics
Matches: 39, Mismatches: 7, Indels: 2
0.81 0.15 0.04
Matches are distributed among these distances:
26 2 0.05
27 37 0.95
ACGTcount: A:0.31, C:0.08, G:0.20, T:0.41
Consensus pattern (27 bp):
CAGGGGTATTTTAGTAATTTTACAAAC
Found at i:61233195 original size:63 final size:64
Alignment explanation
Indices: 61233015--61233197 Score: 203
Period size: 63 Copynumber: 2.8 Consensus size: 64
61233005 ATATAGTTCG
* * * *
61233015 GCTCTCTTGTAC-ACATGGTGAACACTTAGTACCACCCATGTGACCTAGC--CAGTTTATCTCGT
1 GCTCTCTTGT-CTACATGGTGTACACTTAGTACCACCCATGCGACCTAGCTACA-TATATCCCGT
61233077 A
64 A
* * * *
61233078 GCTCTCTTGTCTACATGGTGTCCTTCACTTGGAACCACGCATGCGACCTAGCTACATATATCCCG
1 GCTCTCTTGTCTACATGGTG---TACACTTAGTACCACCCATGCGACCTAGCTACATATATCCCG
61233143 TA
63 TA
* *
61233145 GCTCTC-TGTCTACATGGTGTACACATAGTATCACCCATGCGACCTAGCTACAT
1 GCTCTCTTGTCTACATGGTGTACACTTAGTACCACCCATGCGACCTAGCTACAT
61233198 CATAATGTCT
Statistics
Matches: 100, Mismatches: 14, Indels: 12
0.79 0.11 0.10
Matches are distributed among these distances:
62 1 0.01
63 46 0.46
66 36 0.36
67 15 0.15
68 2 0.02
ACGTcount: A:0.23, C:0.30, G:0.17, T:0.30
Consensus pattern (64 bp):
GCTCTCTTGTCTACATGGTGTACACTTAGTACCACCCATGCGACCTAGCTACATATATCCCGTA
Found at i:61240063 original size:41 final size:41
Alignment explanation
Indices: 61239977--61240136 Score: 139
Period size: 41 Copynumber: 3.9 Consensus size: 41
61239967 AATACTCGAT
* * * * * *
61239977 ATCTCGCACACCAAGTGCCAAAACATAGCTGAAACTATTATA
1 ATCTCGCACACTAAGTGCCATATCATAGCCGAAGCTATT-CA
* *
61240019 ATCTCGCACACTAAGTGCC-TTTCATAGCTGAAGCTATCTCA
1 ATCTCGCACACTAAGTGCCATATCATAGCCGAAGCTAT-TCA
* * *
61240060 ATCTCACACACTAAGTGCCATAT-ATAGCCGGAGCTATTCTG
1 ATCTCGCACACTAAGTGCCATATCATAGCCGAAGCTATTC-A
* **
61240101 AT-TAGCACACTAAGTGCTTTAT-ATAGCCGAAGCTAT
1 ATCTCGCACACTAAGTGCCATATCATAGCCGAAGCTAT
61240137 CTCGATACGC
Statistics
Matches: 99, Mismatches: 16, Indels: 8
0.80 0.13 0.07
Matches are distributed among these distances:
40 31 0.31
41 47 0.47
42 21 0.21
ACGTcount: A:0.33, C:0.26, G:0.15, T:0.27
Consensus pattern (41 bp):
ATCTCGCACACTAAGTGCCATATCATAGCCGAAGCTATTCA
Found at i:61240149 original size:40 final size:40
Alignment explanation
Indices: 61240023--61240154 Score: 126
Period size: 40 Copynumber: 3.3 Consensus size: 40
61240013 ATTATAATCT
* * * *
61240023 CGCACACTAAGTGCCTTT-CATAGCTGAAGCTATCTCAATCT
1 CGCACACTAAGTG-CTTTATATAGCCGAAGCTATCTCGAT-A
* ** *
61240064 CACACACTAAGTGCCATATATAGCCGGAGCTAT-TCTGATTA
1 CGCACACTAAGTGCTTTATATAGCCGAAGCTATCTC-GA-TA
61240105 -GCACACTAAGTGCTTTATATAGCCGAAGCTATCTCGATA
1 CGCACACTAAGTGCTTTATATAGCCGAAGCTATCTCGATA
*
61240144 CGCACATTAAG
1 CGCACACTAAG
61240155 AGCCAAACAT
Statistics
Matches: 73, Mismatches: 13, Indels: 11
0.75 0.13 0.11
Matches are distributed among these distances:
39 2 0.03
40 43 0.59
41 27 0.37
42 1 0.01
ACGTcount: A:0.30, C:0.26, G:0.17, T:0.27
Consensus pattern (40 bp):
CGCACACTAAGTGCTTTATATAGCCGAAGCTATCTCGATA
Found at i:61243376 original size:40 final size:40
Alignment explanation
Indices: 61243313--61243490 Score: 223
Period size: 40 Copynumber: 4.4 Consensus size: 40
61243303 AGTTAAGTAA
* *
61243313 GGCACTTAGTGTGCAATTTAAGATAGCTTCGGCTATGTAT
1 GGCACTTAGTGTGCGATTCAAGATAGCTTCGGCTATGTAT
*
61243353 GGCACTTAGTGTACGATTCAAGATAGCTTCGGCTATGTAT
1 GGCACTTAGTGTGCGATTCAAGATAGCTTCGGCTATGTAT
* * *
61243393 GGCACTTAGTGTGTGATTCGAGATAGCTTCGGCTATATAT
1 GGCACTTAGTGTGCGATTCAAGATAGCTTCGGCTATGTAT
* * * *
61243433 GACACTTAGTGTGCGAGATT-AAAATAGGTTCAGCTATGTATT
1 GGCACTTAGTGTGC--GATTCAAGATAGCTTCGGCTATGTA-T
*
61243475 GGCCCTTAGTGTGCGA
1 GGCACTTAGTGTGCGA
61243491 GAAGTCGAGT
Statistics
Matches: 119, Mismatches: 16, Indels: 6
0.84 0.11 0.04
Matches are distributed among these distances:
40 87 0.73
41 15 0.13
42 17 0.14
ACGTcount: A:0.25, C:0.16, G:0.26, T:0.33
Consensus pattern (40 bp):
GGCACTTAGTGTGCGATTCAAGATAGCTTCGGCTATGTAT
Found at i:61254881 original size:15 final size:17
Alignment explanation
Indices: 61254863--61254894 Score: 50
Period size: 15 Copynumber: 2.0 Consensus size: 17
61254853 TAGCATGTTT
61254863 TACCAAA-TCA-ATTCA
1 TACCAAACTCACATTCA
61254878 TACCAAACTCACATTCA
1 TACCAAACTCACATTCA
61254895 CAAGTGTCAA
Statistics
Matches: 15, Mismatches: 0, Indels: 2
0.88 0.00 0.12
Matches are distributed among these distances:
15 7 0.47
16 3 0.20
17 5 0.33
ACGTcount: A:0.44, C:0.31, G:0.00, T:0.25
Consensus pattern (17 bp):
TACCAAACTCACATTCA
Found at i:61255726 original size:41 final size:41
Alignment explanation
Indices: 61255679--61255778 Score: 191
Period size: 41 Copynumber: 2.4 Consensus size: 41
61255669 TAGACGGGCT
61255679 TGCTCACACAAGCTGTCAGTCAAGACGTAGCTATATGGTGC
1 TGCTCACACAAGCTGTCAGTCAAGACGTAGCTATATGGTGC
*
61255720 TGCTCACACAGGCTGTCAGTCAAGACGTAGCTATATGGTGC
1 TGCTCACACAAGCTGTCAGTCAAGACGTAGCTATATGGTGC
61255761 TGCTCACACAAGCTGTCA
1 TGCTCACACAAGCTGTCA
61255779 AGTATCCGCA
Statistics
Matches: 57, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
41 57 1.00
ACGTcount: A:0.26, C:0.26, G:0.24, T:0.24
Consensus pattern (41 bp):
TGCTCACACAAGCTGTCAGTCAAGACGTAGCTATATGGTGC
Found at i:61269207 original size:28 final size:28
Alignment explanation
Indices: 61269167--61269322 Score: 269
Period size: 28 Copynumber: 5.6 Consensus size: 28
61269157 AGCTATATAC
61269167 GGCACTTAGTGTGCGAGACATTGAGTAT
1 GGCACTTAGTGTGCGAGACATTGAGTAT
61269195 GGCACTTAGTGTGCGAGACATTGAGTAT
1 GGCACTTAGTGTGCGAGACATTGAGTAT
*
61269223 GGCACTTAGTGTGTGAGACATTGAGTAT
1 GGCACTTAGTGTGCGAGACATTGAGTAT
* *
61269251 GACACTTAGTGTGCGAGACATTGAATAT
1 GGCACTTAGTGTGCGAGACATTGAGTAT
61269279 GGCACTTAGTGTGCGAGACATTTG-GTAT
1 GGCACTTAGTGTGCGAGACA-TTGAGTAT
61269307 GGCACTTAGTGTGCGA
1 GGCACTTAGTGTGCGA
61269323 AATATCGAAT
Statistics
Matches: 121, Mismatches: 6, Indels: 2
0.94 0.05 0.02
Matches are distributed among these distances:
28 118 0.98
29 3 0.02
ACGTcount: A:0.25, C:0.14, G:0.31, T:0.29
Consensus pattern (28 bp):
GGCACTTAGTGTGCGAGACATTGAGTAT
Found at i:61271502 original size:24 final size:25
Alignment explanation
Indices: 61271457--61271503 Score: 60
Period size: 24 Copynumber: 1.9 Consensus size: 25
61271447 GCCTATTTAA
**
61271457 ACACATGAGAGGAGGATTAAAGGGG
1 ACACATGAGAGGAGGAGGAAAGGGG
*
61271482 ACACATG-GAGTAGGAGGAAAGG
1 ACACATGAGAGGAGGAGGAAAGG
61271504 AATTACTCGA
Statistics
Matches: 19, Mismatches: 3, Indels: 1
0.83 0.13 0.04
Matches are distributed among these distances:
24 12 0.63
25 7 0.37
ACGTcount: A:0.40, C:0.09, G:0.40, T:0.11
Consensus pattern (25 bp):
ACACATGAGAGGAGGAGGAAAGGGG
Found at i:61279549 original size:37 final size:37
Alignment explanation
Indices: 61279491--61279646 Score: 242
Period size: 37 Copynumber: 4.2 Consensus size: 37
61279481 GCTCAGATGA
* *
61279491 AATCTCCACACGA-AGTTATCGGGTCTTACCCGGACAA
1 AATCTCCACAC-ATAGTCATCGGGTCTTACCCGGACAT
61279528 AATCTCCACACATAGTCATCGGGTCTTACCCGGACAT
1 AATCTCCACACATAGTCATCGGGTCTTACCCGGACAT
* * *
61279565 AATCTCCACACGTAGTCATTGGATCTTACCCGGACAT
1 AATCTCCACACATAGTCATCGGGTCTTACCCGGACAT
*
61279602 AATCTCCACACGTAGTCATCGGGTCTTACCCGGACAT
1 AATCTCCACACATAGTCATCGGGTCTTACCCGGACAT
61279639 AATCTCCA
1 AATCTCCA
61279647 AGTTTCATGT
Statistics
Matches: 111, Mismatches: 7, Indels: 2
0.93 0.06 0.02
Matches are distributed among these distances:
36 1 0.01
37 110 0.99
ACGTcount: A:0.28, C:0.31, G:0.17, T:0.24
Consensus pattern (37 bp):
AATCTCCACACATAGTCATCGGGTCTTACCCGGACAT
Found at i:61279906 original size:48 final size:48
Alignment explanation
Indices: 61279782--61280164 Score: 651
Period size: 48 Copynumber: 7.9 Consensus size: 48
61279772 ACACATCGCC
*
61279782 TACATATTTCACACTAGCCATTCGGCTTTACCACATATACATATCTCATA
1 TACATATTTCACATTAGCCATTCGGCTTTACCACATATACATATCTC--A
* *
61279832 TATATATTTCACATT-GACCATTCGGCTTTACCACATATGCATATCTCA
1 TACATATTTCACATTAG-CCATTCGGCTTTACCACATATACATATCTCA
*
61279880 TACATATTTCACATTAGCCACTCGGCTTTACCACATATACATATCTCA
1 TACATATTTCACATTAGCCATTCGGCTTTACCACATATACATATCTCA
*
61279928 TATATATTTCACATTAGCCATTCGGCTTTACCACATATACATATCTCA
1 TACATATTTCACATTAGCCATTCGGCTTTACCACATATACATATCTCA
*
61279976 TGCATATTTCACATTAGCCATTCGGCTTTACCACATATACATATCTCA
1 TACATATTTCACATTAGCCATTCGGCTTTACCACATATACATATCTCA
*
61280024 TGCATATTTCACATTAGCCATTCGGCTTTACCACATATACATATCTCA
1 TACATATTTCACATTAGCCATTCGGCTTTACCACATATACATATCTCA
*
61280072 TACATATTTCACTTTAGCCATTCGGCTTTACCACATATACATATCTCA
1 TACATATTTCACATTAGCCATTCGGCTTTACCACATATACATATCTCA
*
61280120 TACATATTTCACATTAGCCATTTGGCTTTACCACATATACATATC
1 TACATATTTCACATTAGCCATTCGGCTTTACCACATATACATATC
61280165 CTGTGCATCA
Statistics
Matches: 317, Mismatches: 14, Indels: 6
0.94 0.04 0.02
Matches are distributed among these distances:
48 273 0.86
49 2 0.01
50 42 0.13
ACGTcount: A:0.30, C:0.27, G:0.07, T:0.36
Consensus pattern (48 bp):
TACATATTTCACATTAGCCATTCGGCTTTACCACATATACATATCTCA
Found at i:61283693 original size:40 final size:40
Alignment explanation
Indices: 61283661--61283827 Score: 253
Period size: 40 Copynumber: 4.2 Consensus size: 40
61283651 CCAGCATGAT
* *
61283661 TGCTCTTCGGGACCTAGCCCGGATATAACACCAGCACGAA
1 TGCTCTTCGGGACTTAGCCCGGATATAACACCAGCACAAA
* * * *
61283701 TGCTCTTCGGGACTTAACCCTGATATAACTCTAGCACAAA
1 TGCTCTTCGGGACTTAGCCCGGATATAACACCAGCACAAA
* * *
61283741 TGCTCTTTGAGACTTAGCCCGAATATAACACCAGCACAAA
1 TGCTCTTCGGGACTTAGCCCGGATATAACACCAGCACAAA
61283781 TGCTCTTCGGGACTTAGCCCGGATATAACACCAGCACAAA
1 TGCTCTTCGGGACTTAGCCCGGATATAACACCAGCACAAA
61283821 TGCTCTT
1 TGCTCTT
61283828 ATATAACACC
Statistics
Matches: 111, Mismatches: 16, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
40 111 1.00
ACGTcount: A:0.29, C:0.29, G:0.18, T:0.23
Consensus pattern (40 bp):
TGCTCTTCGGGACTTAGCCCGGATATAACACCAGCACAAA
Found at i:61283836 original size:25 final size:25
Alignment explanation
Indices: 61283803--61283852 Score: 100
Period size: 25 Copynumber: 2.0 Consensus size: 25
61283793 CTTAGCCCGG
61283803 ATATAACACCAGCACAAATGCTCTT
1 ATATAACACCAGCACAAATGCTCTT
61283828 ATATAACACCAGCACAAATGCTCTT
1 ATATAACACCAGCACAAATGCTCTT
61283853 CGGGACTTAG
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
25 25 1.00
ACGTcount: A:0.40, C:0.28, G:0.08, T:0.24
Consensus pattern (25 bp):
ATATAACACCAGCACAAATGCTCTT
Found at i:61283867 original size:65 final size:65
Alignment explanation
Indices: 61283763--61283892 Score: 224
Period size: 65 Copynumber: 2.0 Consensus size: 65
61283753 CTTAGCCCGA
*
61283763 ATATAACACCAGCACAAATGCTCTTCGGGACTTAGCCCGGATATAACACCAGCACAAATGCTCTT
1 ATATAACACCAGCACAAATGCTCTTCGGGACTTAGCCCGGATACAACACCAGCACAAATGCTCTT
* * *
61283828 ATATAACACCAGCACAAATGCTCTTCGGGACTTAGCCCGGATACATCACTAGCACGAATGCTCTT
1 ATATAACACCAGCACAAATGCTCTTCGGGACTTAGCCCGGATACAACACCAGCACAAATGCTCTT
61283893 CGAGACTTAG
Statistics
Matches: 61, Mismatches: 4, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
65 61 1.00
ACGTcount: A:0.32, C:0.29, G:0.16, T:0.22
Consensus pattern (65 bp):
ATATAACACCAGCACAAATGCTCTTCGGGACTTAGCCCGGATACAACACCAGCACAAATGCTCTT
Found at i:61283893 original size:40 final size:40
Alignment explanation
Indices: 61283828--61283993 Score: 269
Period size: 40 Copynumber: 4.2 Consensus size: 40
61283818 AAATGCTCTT
* * *
61283828 ATATAACACCAGCACAAATGCTCTTCGGGACTTAGCCCGG
1 ATATATCACTAGCACGAATGCTCTTCGGGACTTAGCCCGG
* *
61283868 ATACATCACTAGCACGAATGCTCTTCGAGACTTAGCCCGG
1 ATATATCACTAGCACGAATGCTCTTCGGGACTTAGCCCGG
61283908 ATATATCACTAGCACGAATGCTCTTCGGGACTTAGCCCGG
1 ATATATCACTAGCACGAATGCTCTTCGGGACTTAGCCCGG
* *
61283948 ATATAACACCAGCACGAATGCTCTTCGGGACTTAGCCCGG
1 ATATATCACTAGCACGAATGCTCTTCGGGACTTAGCCCGG
61283988 ATATAT
1 ATATAT
61283994 ATAACTCTCG
Statistics
Matches: 116, Mismatches: 10, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
40 116 1.00
ACGTcount: A:0.28, C:0.28, G:0.20, T:0.23
Consensus pattern (40 bp):
ATATATCACTAGCACGAATGCTCTTCGGGACTTAGCCCGG
Found at i:61283905 original size:105 final size:105
Alignment explanation
Indices: 61283723--61283932 Score: 303
Period size: 105 Copynumber: 2.0 Consensus size: 105
61283713 CTTAACCCTG
* * * *
61283723 ATATAACTCTAGCACAAATGCTCTTTGAGACTTAGCCCGAATATAACACCAGCACAAATGCTCTT
1 ATATAACACCAGCACAAATGCTCTTCGAGACTTAGCCCGAATACAACACCAGCACAAATGCTCTT
*
61283788 CGGGACTTAGCCCGGATATAACACCAGCACAAATGCTCTT
66 CGAGACTTAGCCCGGATATAACACCAGCACAAATGCTCTT
* * * * *
61283828 ATATAACACCAGCACAAATGCTCTTCGGGACTTAGCCCGGATACATCACTAGCACGAATGCTCTT
1 ATATAACACCAGCACAAATGCTCTTCGAGACTTAGCCCGAATACAACACCAGCACAAATGCTCTT
* * *
61283893 CGAGACTTAGCCCGGATATATCACTAGCACGAATGCTCTT
66 CGAGACTTAGCCCGGATATAACACCAGCACAAATGCTCTT
61283933 CGGGACTTAG
Statistics
Matches: 92, Mismatches: 13, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
105 92 1.00
ACGTcount: A:0.31, C:0.28, G:0.17, T:0.24
Consensus pattern (105 bp):
ATATAACACCAGCACAAATGCTCTTCGAGACTTAGCCCGAATACAACACCAGCACAAATGCTCTT
CGAGACTTAGCCCGGATATAACACCAGCACAAATGCTCTT
Found at i:61283946 original size:145 final size:145
Alignment explanation
Indices: 61283683--61283972 Score: 463
Period size: 145 Copynumber: 2.0 Consensus size: 145
61283673 CCTAGCCCGG
* * * *
61283683 ATATAACACCAGCACGAATGCTCTTCGGGACTTAACCCTGATATAACTCTAGCACAAATGCTCTT
1 ATATAACACCAGCACAAATGCTCTTCGGGACTTAACCCGGATACAACACTAGCACAAATGCTCTT
*
61283748 TGAGACTTAGCCCGAATATAACACCAGCACAAATGCTCTTCGGGACTTAGCCCGGATATAACACC
66 CGAGACTTAGCCCGAATATAACACCAGCACAAATGCTCTTCGGGACTTAGCCCGGATATAACACC
61283813 AGCACAAATGCTCTT
131 AGCACAAATGCTCTT
* * *
61283828 ATATAACACCAGCACAAATGCTCTTCGGGACTTAGCCCGGATACATCACTAGCACGAATGCTCTT
1 ATATAACACCAGCACAAATGCTCTTCGGGACTTAACCCGGATACAACACTAGCACAAATGCTCTT
* * * *
61283893 CGAGACTTAGCCCGGATATATCACTAGCACGAATGCTCTTCGGGACTTAGCCCGGATATAACACC
66 CGAGACTTAGCCCGAATATAACACCAGCACAAATGCTCTTCGGGACTTAGCCCGGATATAACACC
*
61283958 AGCACGAATGCTCTT
131 AGCACAAATGCTCTT
61283973 CGGGACTTAG
Statistics
Matches: 132, Mismatches: 13, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
145 132 1.00
ACGTcount: A:0.31, C:0.29, G:0.18, T:0.23
Consensus pattern (145 bp):
ATATAACACCAGCACAAATGCTCTTCGGGACTTAACCCGGATACAACACTAGCACAAATGCTCTT
CGAGACTTAGCCCGAATATAACACCAGCACAAATGCTCTTCGGGACTTAGCCCGGATATAACACC
AGCACAAATGCTCTT
Found at i:61285299 original size:37 final size:37
Alignment explanation
Indices: 61285235--61285342 Score: 182
Period size: 37 Copynumber: 2.9 Consensus size: 37
61285225 AGCTCAGATG
* *
61285235 AAATCTCCACA-GAAGTTATCGGGTCTTACCCGGACA
1 AAATCTCCACACGTAGTCATCGGGTCTTACCCGGACA
61285271 AAATCTCCACACGTAGTCATCGGGTCTTACCCGGACA
1 AAATCTCCACACGTAGTCATCGGGTCTTACCCGGACA
*
61285308 TAATCTCCACACGTAGTCATCGGGTCTTACCCGGA
1 AAATCTCCACACGTAGTCATCGGGTCTTACCCGGA
61285343 ATATATTTCC
Statistics
Matches: 68, Mismatches: 3, Indels: 1
0.94 0.04 0.01
Matches are distributed among these distances:
36 11 0.16
37 57 0.84
ACGTcount: A:0.27, C:0.31, G:0.19, T:0.23
Consensus pattern (37 bp):
AAATCTCCACACGTAGTCATCGGGTCTTACCCGGACA
Found at i:61285609 original size:92 final size:95
Alignment explanation
Indices: 61285489--61285915 Score: 712
Period size: 92 Copynumber: 4.6 Consensus size: 95
61285479 ACACATCGCC
* *
61285489 TACATATTTCACACTAGCCATTCGGCTTTA-CACATATACATATCTCATATATATATTTCACATT
1 TACATATTTCACATTAGCCATTCGGCTTTACCACATATACATATCTC--ATACATATTTCACATT
61285553 A-CCATTCGGCTTTACCACATAT-ATATCT-A
64 AGCCATTCGGCTTTACCACATATAATATCTCA
61285582 TAC-TATTTCACATTAGCCATTCGGCTTTACCACATATACATATCTCATACATATTTCACATTAG
1 TACATATTTCACATTAGCCATTCGGCTTTACCACATATACATATCTCATACATATTTCACATTAG
*
61285646 CCATTCGGCTTTACCACATA-CATATCTCA
66 CCATTCGGCTTTACCACATATAATATCTCA
61285675 T--ATATTTCACATTAGCCATTCGGCTTTACCACATATACATATCTCAT-CATATTTCACATTAG
1 TACATATTTCACATTAGCCATTCGGCTTTACCACATATACATATCTCATACATATTTCACATTAG
61285737 CCATTCGGCTTTACCACATATACATATCT-A
66 CCATTCGGCTTTACCACATATA-ATATCTCA
61285767 TACATATTTCACATTAGCCATTCGGCTTTACCACATATACATATCTCATACATATTTCACATTAG
1 TACATATTTCACATTAGCCATTCGGCTTTACCACATATACATATCTCATACATATTTCACATTAG
61285832 CCATTCGGCTTTACCACATATACATATCTCA
66 CCATTCGGCTTTACCACATATA-ATATCTCA
*
61285863 TACATATTTCACATTAGCCATTCGGCTTTACCACATATACATATCTTATACAT
1 TACATATTTCACATTAGCCATTCGGCTTTACCACATATACATATCTCATACAT
61285916 CAATTTCAGC
Statistics
Matches: 319, Mismatches: 4, Indels: 19
0.93 0.01 0.06
Matches are distributed among these distances:
91 51 0.16
92 98 0.31
93 27 0.08
94 46 0.14
95 44 0.14
96 53 0.17
ACGTcount: A:0.31, C:0.26, G:0.06, T:0.37
Consensus pattern (95 bp):
TACATATTTCACATTAGCCATTCGGCTTTACCACATATACATATCTCATACATATTTCACATTAG
CCATTCGGCTTTACCACATATAATATCTCA
Found at i:61285654 original size:48 final size:48
Alignment explanation
Indices: 61285489--61285915 Score: 725
Period size: 48 Copynumber: 9.1 Consensus size: 48
61285479 ACACATCGCC
*
61285489 TACATATTTCACACTAGCCATTCGGCTTTA-CACATATACATATCTCATA
1 TACATATTTCACATTAGCCATTCGGCTTTACCACATATACATATCTC--A
*
61285538 TATATATTTCACATTA-CCATTCGGCTTTACCACATAT--ATATCT-A
1 TACATATTTCACATTAGCCATTCGGCTTTACCACATATACATATCTCA
61285582 TAC-TATTTCACATTAGCCATTCGGCTTTACCACATATACATATCTCA
1 TACATATTTCACATTAGCCATTCGGCTTTACCACATATACATATCTCA
61285629 TACATATTTCACATTAGCCATTCGGCTTTACCAC--ATACATATCTCA
1 TACATATTTCACATTAGCCATTCGGCTTTACCACATATACATATCTCA
61285675 T--ATATTTCACATTAGCCATTCGGCTTTACCACATATACATATCTCA
1 TACATATTTCACATTAGCCATTCGGCTTTACCACATATACATATCTCA
61285721 T-CATATTTCACATTAGCCATTCGGCTTTACCACATATACATATCT-A
1 TACATATTTCACATTAGCCATTCGGCTTTACCACATATACATATCTCA
61285767 TACATATTTCACATTAGCCATTCGGCTTTACCACATATACATATCTCA
1 TACATATTTCACATTAGCCATTCGGCTTTACCACATATACATATCTCA
61285815 TACATATTTCACATTAGCCATTCGGCTTTACCACATATACATATCTCA
1 TACATATTTCACATTAGCCATTCGGCTTTACCACATATACATATCTCA
*
61285863 TACATATTTCACATTAGCCATTCGGCTTTACCACATATACATATCTTA
1 TACATATTTCACATTAGCCATTCGGCTTTACCACATATACATATCTCA
61285911 TACAT
1 TACAT
61285916 CAATTTCAGC
Statistics
Matches: 363, Mismatches: 4, Indels: 23
0.93 0.01 0.06
Matches are distributed among these distances:
43 12 0.03
44 55 0.15
46 34 0.09
47 97 0.27
48 144 0.40
49 21 0.06
ACGTcount: A:0.31, C:0.26, G:0.06, T:0.37
Consensus pattern (48 bp):
TACATATTTCACATTAGCCATTCGGCTTTACCACATATACATATCTCA
Found at i:61288436 original size:31 final size:31
Alignment explanation
Indices: 61288398--61288461 Score: 110
Period size: 31 Copynumber: 2.1 Consensus size: 31
61288388 CCTTTTCATA
61288398 TTTCATATTTCATAACACTGGGCCGAAGCCT
1 TTTCATATTTCATAACACTGGGCCGAAGCCT
**
61288429 TTTCATATTTCATATTACTGGGCCGAAGCCT
1 TTTCATATTTCATAACACTGGGCCGAAGCCT
61288460 TT
1 TT
61288462 ACTGTAAACG
Statistics
Matches: 31, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
31 31 1.00
ACGTcount: A:0.23, C:0.23, G:0.16, T:0.38
Consensus pattern (31 bp):
TTTCATATTTCATAACACTGGGCCGAAGCCT
Found at i:61288693 original size:23 final size:22
Alignment explanation
Indices: 61288651--61288716 Score: 116
Period size: 22 Copynumber: 3.0 Consensus size: 22
61288641 ACTAGAGGGC
61288651 ATAACTGGGGCA-AAGCCCTTT
1 ATAACTGGGGCATAAGCCCTTT
61288672 AATAACTGGGGCATAAGCCCTTT
1 -ATAACTGGGGCATAAGCCCTTT
61288695 ATAACTGGGGCATAAGCCCTTT
1 ATAACTGGGGCATAAGCCCTTT
61288717 TTCACTTCCT
Statistics
Matches: 43, Mismatches: 0, Indels: 2
0.96 0.00 0.04
Matches are distributed among these distances:
22 34 0.79
23 9 0.21
ACGTcount: A:0.29, C:0.23, G:0.23, T:0.26
Consensus pattern (22 bp):
ATAACTGGGGCATAAGCCCTTT
Found at i:61288792 original size:20 final size:20
Alignment explanation
Indices: 61288767--61288833 Score: 107
Period size: 20 Copynumber: 3.4 Consensus size: 20
61288757 TTATGATTAC
*
61288767 ATCATGTTCATATCATACAT
1 ATCATGTGCATATCATACAT
61288787 ATCATGTGCATATCATACAT
1 ATCATGTGCATATCATACAT
*
61288807 GTCATGTGCATATCATACAT
1 ATCATGTGCATATCATACAT
*
61288827 ACCATGT
1 ATCATGT
61288834 TTCTCAAAAT
Statistics
Matches: 43, Mismatches: 4, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
20 43 1.00
ACGTcount: A:0.33, C:0.21, G:0.10, T:0.36
Consensus pattern (20 bp):
ATCATGTGCATATCATACAT
Found at i:61291233 original size:40 final size:40
Alignment explanation
Indices: 61291170--61291389 Score: 340
Period size: 40 Copynumber: 5.6 Consensus size: 40
61291160 ATTCGGATTG
61291170 ATAACCGGGCTAAG-CCCGAAGGCATTTGTGCGAGTTACT
1 ATAACCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACT
*
61291209 ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACT
1 ATAACCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACT
*
61291249 ATAACCGGGCCAAGTCCCGAAGGCA-TTGTGCGAGTTACT
1 ATAACCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACT
*
61291288 ATAACCGGGCTAAGTCCCGAAGGCAATTGTGCGAGTTACT
1 ATAACCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACT
*
61291328 ATAACCGGGCTAAGTCCCGAAGGCATTTGAGCGAG-TAGCT
1 ATAACCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTA-CT
* **
61291368 ATATCC-GGCTAAACCCCGAAGG
1 ATAACCGGGCTAAGTCCCGAAGG
61291390 TACTTGGTTT
Statistics
Matches: 169, Mismatches: 9, Indels: 6
0.92 0.05 0.03
Matches are distributed among these distances:
39 67 0.40
40 102 0.60
ACGTcount: A:0.26, C:0.24, G:0.28, T:0.22
Consensus pattern (40 bp):
ATAACCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACT
Found at i:61291301 original size:79 final size:80
Alignment explanation
Indices: 61291170--61291389 Score: 349
Period size: 79 Copynumber: 2.8 Consensus size: 80
61291160 ATTCGGATTG
61291170 ATAACCGGGCTAAG-CCCGAAGGCATTTGTGCGAGTTACTATATCCGGGCTAAGTCCCGAAGGCA
1 ATAACCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATATCCGGGCTAAGTCCCGAAGGCA
*
61291234 TTTGTGCGAGTTACT
66 ATTGTGCGAGTTACT
* *
61291249 ATAACCGGGCCAAGTCCCGAAGGCA-TTGTGCGAGTTACTATAACCGGGCTAAGTCCCGAAGGCA
1 ATAACCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATATCCGGGCTAAGTCCCGAAGGCA
61291313 ATTGTGCGAGTTACT
66 ATTGTGCGAGTTACT
* **
61291328 ATAACCGGGCTAAGTCCCGAAGGCATTTGAGCGAG-TAGCTATATCC-GGCTAAACCCCGAAGG
1 ATAACCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTA-CTATATCCGGGCTAAGTCCCGAAGG
61291390 TACTTGGTTT
Statistics
Matches: 130, Mismatches: 8, Indels: 6
0.90 0.06 0.04
Matches are distributed among these distances:
79 105 0.81
80 25 0.19
ACGTcount: A:0.26, C:0.24, G:0.28, T:0.22
Consensus pattern (80 bp):
ATAACCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATATCCGGGCTAAGTCCCGAAGGCA
ATTGTGCGAGTTACT
Found at i:61296199 original size:25 final size:25
Alignment explanation
Indices: 61296142--61296227 Score: 83
Period size: 25 Copynumber: 3.4 Consensus size: 25
61296132 CAATGATCGC
61296142 ACACTTAGTGCTACTAATCATACT--
1 ACACTTAGTGCTACTAATCA-ACTCG
61296166 ACACATTAGTGCTATCTAATCAACTCG
1 ACAC-TTAGTGCTA-CTAATCAACTCG
61296193 A-ACTTAGT-CTACATAATCAAGCTCG
1 ACACTTAGTGCTAC-TAATCAA-CTCG
61296218 CACAC-TAGTG
1 -ACACTTAGTG
61296228 TGTAACAATT
Statistics
Matches: 53, Mismatches: 0, Indels: 15
0.78 0.00 0.22
Matches are distributed among these distances:
23 1 0.02
24 14 0.26
25 21 0.40
26 14 0.26
27 3 0.06
ACGTcount: A:0.34, C:0.26, G:0.12, T:0.29
Consensus pattern (25 bp):
ACACTTAGTGCTACTAATCAACTCG
Found at i:61307412 original size:20 final size:20
Alignment explanation
Indices: 61307389--61307443 Score: 101
Period size: 20 Copynumber: 2.8 Consensus size: 20
61307379 TAAACATGGT
61307389 ATGTATGATATGCACATGAC
1 ATGTATGATATGCACATGAC
*
61307409 ATGTATGATATGCACATGAT
1 ATGTATGATATGCACATGAC
61307429 ATGTATGATATGCAC
1 ATGTATGATATGCAC
61307444 TGATGTAATC
Statistics
Matches: 34, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
20 34 1.00
ACGTcount: A:0.35, C:0.13, G:0.20, T:0.33
Consensus pattern (20 bp):
ATGTATGATATGCACATGAC
Found at i:61307462 original size:40 final size:39
Alignment explanation
Indices: 61307382--61307456 Score: 100
Period size: 40 Copynumber: 1.9 Consensus size: 39
61307372 ATTTTGATAA
* *
61307382 ACATGGTATGTATGATATGCACATGACATGTATGATATGC
1 ACATGATATGTATGATATGCACATGA-ATGTATCATATGC
61307422 ACATGATATGTATGATATGCAC-TG-ATGTAATCATA
1 ACATGATATGTATGATATGCACATGAATGT-ATCATA
61307457 AATGCATTGG
Statistics
Matches: 32, Mismatches: 2, Indels: 4
0.84 0.05 0.11
Matches are distributed among these distances:
37 4 0.12
38 5 0.16
39 2 0.06
40 21 0.66
ACGTcount: A:0.35, C:0.12, G:0.20, T:0.33
Consensus pattern (39 bp):
ACATGATATGTATGATATGCACATGAATGTATCATATGC
Found at i:61307528 original size:23 final size:24
Alignment explanation
Indices: 61307497--61307576 Score: 101
Period size: 23 Copynumber: 3.4 Consensus size: 24
61307487 GAGGAAGTGA
61307497 AAAAGGGCTTATGCCCCAGTTATT
1 AAAAGGGCTTATGCCCCAGTTATT
*
61307521 -AAAGGGCTTATGCCCTAGTTATT
1 AAAAGGGCTTATGCCCCAGTTATT
* *
61307544 AAAAGGGATTTTG-CCCAGTTATT
1 AAAAGGGCTTATGCCCCAGTTATT
*
61307567 CAAAGAGGCT
1 AAAAG-GGCT
61307577 AGGCTTCCGT
Statistics
Matches: 48, Mismatches: 6, Indels: 4
0.83 0.10 0.07
Matches are distributed among these distances:
23 35 0.73
24 13 0.27
ACGTcount: A:0.30, C:0.17, G:0.23, T:0.30
Consensus pattern (24 bp):
AAAAGGGCTTATGCCCCAGTTATT
Found at i:61316163 original size:40 final size:40
Alignment explanation
Indices: 61316115--61316303 Score: 274
Period size: 40 Copynumber: 4.7 Consensus size: 40
61316105 GCTACTCACT
*
61316115 CAAATGCCTTCGGGACTTAGCTCGGTTATAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGTTATAGTAACTCGCA
* *
61316155 CAATTGCCTTCGGGACTTAGCCCGGTTATACTAAC-CGCA
1 CAAATGCCTTCGGGACTTAGCCCGGTTATAGTAACTCGCA
* * *
61316194 CAATTGCCCTTCGGGACTTGGCCCAGTTATAGTAACTCGCTA
1 CAAATG-CCTTCGGGACTTAGCCCGGTTATAGTAACTCGC-A
* *
61316236 CAAATGCCTTCGGGACTTAGCCCGGATATAGTAACTCACA
1 CAAATGCCTTCGGGACTTAGCCCGGTTATAGTAACTCGCA
61316276 CAAATGCCTTCGGG-CTTAGCCCGGTTAT
1 CAAATGCCTTCGGGACTTAGCCCGGTTAT
61316304 CAATCCAATA
Statistics
Matches: 134, Mismatches: 12, Indels: 7
0.88 0.08 0.05
Matches are distributed among these distances:
39 23 0.17
40 73 0.54
41 32 0.24
42 6 0.04
ACGTcount: A:0.24, C:0.28, G:0.22, T:0.26
Consensus pattern (40 bp):
CAAATGCCTTCGGGACTTAGCCCGGTTATAGTAACTCGCA
Found at i:61316223 original size:80 final size:81
Alignment explanation
Indices: 61316082--61316303 Score: 292
Period size: 80 Copynumber: 2.8 Consensus size: 81
61316072 AAACCAAGTA
** * *
61316082 CCTTCGGGGTTTAG-CCGGATATAGCT-ACTCACTCAAATGCCTTCGGGACTTAGCTCGGTTATA
1 CCTTCGGGACTTAGCCCGGATATA-CTAACTCACACAAATGCCTTCGGGACTTAGCCCGGTTATA
*
61316145 GTAACTCGC-ACAATTG
65 GTAACTCGCTACAAATG
* * * * *
61316161 CCTTCGGGACTTAGCCCGGTTATACTAAC-CGCACAATTGCCCTTCGGGACTTGGCCCAGTTATA
1 CCTTCGGGACTTAGCCCGGATATACTAACTCACACAAATG-CCTTCGGGACTTAGCCCGGTTATA
61316225 GTAACTCGCTACAAATG
65 GTAACTCGCTACAAATG
*
61316242 CCTTCGGGACTTAGCCCGGATATAGTAACTCACACAAATGCCTTCGGG-CTTAGCCCGGTTAT
1 CCTTCGGGACTTAGCCCGGATATACTAACTCACACAAATGCCTTCGGGACTTAGCCCGGTTAT
61316304 CAATCCAATA
Statistics
Matches: 122, Mismatches: 16, Indels: 9
0.83 0.11 0.06
Matches are distributed among these distances:
79 21 0.17
80 52 0.43
81 41 0.34
82 8 0.07
ACGTcount: A:0.23, C:0.28, G:0.22, T:0.27
Consensus pattern (81 bp):
CCTTCGGGACTTAGCCCGGATATACTAACTCACACAAATGCCTTCGGGACTTAGCCCGGTTATAG
TAACTCGCTACAAATG
Found at i:61319388 original size:27 final size:27
Alignment explanation
Indices: 61319358--61319410 Score: 72
Period size: 27 Copynumber: 2.0 Consensus size: 27
61319348 AGCCCCTAAA
61319358 GCCGAAAATCCC-CACCTAAACCCCTCT
1 GCCGAAAATCCCTC-CCTAAACCCCTCT
* *
61319385 GCCGAAATTCCCTCCCTAATCCCCTC
1 GCCGAAAATCCCTCCCTAAACCCCTC
61319411 AAATCGGTTA
Statistics
Matches: 23, Mismatches: 2, Indels: 2
0.85 0.07 0.07
Matches are distributed among these distances:
27 22 0.96
28 1 0.04
ACGTcount: A:0.25, C:0.49, G:0.08, T:0.19
Consensus pattern (27 bp):
GCCGAAAATCCCTCCCTAAACCCCTCT
Found at i:61325948 original size:24 final size:24
Alignment explanation
Indices: 61325911--61325991 Score: 110
Period size: 24 Copynumber: 3.4 Consensus size: 24
61325901 CTGGAAGCCT
* *
61325911 AGCCTCTTTGAATAACTGGGGCAAA
1 AGCC-CTTTTAATAACTGGGGCATA
* *
61325936 ATCCCTTTTAATAACTAGGGCATA
1 AGCCCTTTTAATAACTGGGGCATA
61325960 AGCCC-TTTAATAACTGGGGCATA
1 AGCCCTTTTAATAACTGGGGCATA
61325983 AGCCCTTTT
1 AGCCCTTTT
61325992 TCACTTCCTC
Statistics
Matches: 49, Mismatches: 6, Indels: 3
0.84 0.10 0.05
Matches are distributed among these distances:
23 22 0.45
24 24 0.49
25 3 0.06
ACGTcount: A:0.30, C:0.22, G:0.19, T:0.30
Consensus pattern (24 bp):
AGCCCTTTTAATAACTGGGGCATA
Found at i:61325972 original size:23 final size:23
Alignment explanation
Indices: 61325911--61325990 Score: 106
Period size: 23 Copynumber: 3.3 Consensus size: 23
61325901 CTGGAAGCCT
*
61325911 AGCCTCTTTGAATAACTGGGGCAAA
1 AGCC-CTTT-AATAACTGGGGCATA
* *
61325936 ATCCCTTTTAATAACTAGGGCATA
1 AGCCC-TTTAATAACTGGGGCATA
61325960 AGCCCTTTAATAACTGGGGCATA
1 AGCCCTTTAATAACTGGGGCATA
61325983 AGCCCTTT
1 AGCCCTTT
61325991 TTCACTTCCT
Statistics
Matches: 49, Mismatches: 5, Indels: 4
0.84 0.09 0.07
Matches are distributed among these distances:
23 25 0.51
24 18 0.37
25 6 0.12
ACGTcount: A:0.30, C:0.23, G:0.19, T:0.29
Consensus pattern (23 bp):
AGCCCTTTAATAACTGGGGCATA
Found at i:61326066 original size:20 final size:20
Alignment explanation
Indices: 61326041--61326107 Score: 116
Period size: 20 Copynumber: 3.4 Consensus size: 20
61326031 TTATGATTAC
61326041 ATCATGTGCATATCATACAT
1 ATCATGTGCATATCATACAT
61326061 ATCATGTGCATATCATACAT
1 ATCATGTGCATATCATACAT
*
61326081 GTCATGTGCATATCATACAT
1 ATCATGTGCATATCATACAT
*
61326101 ACCATGT
1 ATCATGT
61326108 TTATCAAAAT
Statistics
Matches: 44, Mismatches: 3, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
20 44 1.00
ACGTcount: A:0.33, C:0.21, G:0.12, T:0.34
Consensus pattern (20 bp):
ATCATGTGCATATCATACAT
Found at i:61326072 original size:11 final size:11
Alignment explanation
Indices: 61326041--61326096 Score: 57
Period size: 11 Copynumber: 5.5 Consensus size: 11
61326031 TTATGATTAC
61326041 ATCATGTGCAT
1 ATCATGTGCAT
*
61326052 ATCA--TACAT
1 ATCATGTGCAT
61326061 ATCATGTGCAT
1 ATCATGTGCAT
*
61326072 ATCA--TACAT
1 ATCATGTGCAT
*
61326081 GTCATGTGCAT
1 ATCATGTGCAT
61326092 ATCAT
1 ATCAT
61326097 ACATACCATG
Statistics
Matches: 35, Mismatches: 6, Indels: 8
0.71 0.12 0.16
Matches are distributed among these distances:
9 15 0.43
11 20 0.57
ACGTcount: A:0.32, C:0.20, G:0.12, T:0.36
Consensus pattern (11 bp):
ATCATGTGCAT
Found at i:61326176 original size:25 final size:25
Alignment explanation
Indices: 61326144--61326191 Score: 69
Period size: 25 Copynumber: 1.9 Consensus size: 25
61326134 ATACATAACC
* * *
61326144 CCTAGGGGTATAATGGTCATTTTTA
1 CCTAGGGGCAAAACGGTCATTTTTA
61326169 CCTAGGGGCAAAACGGTCATTTT
1 CCTAGGGGCAAAACGGTCATTTT
61326192 CATGTTATAA
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:61335095 original size:37 final size:38
Alignment explanation
Indices: 61335054--61335129 Score: 127
Period size: 37 Copynumber: 2.0 Consensus size: 38
61335044 CCAAGAGAAA
*
61335054 GAAAAAGTAAATTAATAAATAATAATA-AAAATAAAAT
1 GAAAAAATAAATTAATAAATAATAATATAAAATAAAAT
61335091 GAAAAAATAAATTAATAAATAATAATATTAAAATAAAAT
1 GAAAAAATAAATTAATAAATAATAATA-TAAAATAAAAT
61335130 TAATTTGCAA
Statistics
Matches: 36, Mismatches: 1, Indels: 2
0.92 0.03 0.05
Matches are distributed among these distances:
37 26 0.72
39 10 0.28
ACGTcount: A:0.70, C:0.00, G:0.04, T:0.26
Consensus pattern (38 bp):
GAAAAAATAAATTAATAAATAATAATATAAAATAAAAT
Found at i:61336214 original size:16 final size:16
Alignment explanation
Indices: 61336193--61336226 Score: 68
Period size: 16 Copynumber: 2.1 Consensus size: 16
61336183 TTAGAATGCC
61336193 TAAAAACCCTCAAAAT
1 TAAAAACCCTCAAAAT
61336209 TAAAAACCCTCAAAAT
1 TAAAAACCCTCAAAAT
61336225 TA
1 TA
61336227 GCCTTTTCCA
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 18 1.00
ACGTcount: A:0.56, C:0.24, G:0.00, T:0.21
Consensus pattern (16 bp):
TAAAAACCCTCAAAAT
Found at i:61342396 original size:4 final size:4
Alignment explanation
Indices: 61342389--61342415 Score: 54
Period size: 4 Copynumber: 6.8 Consensus size: 4
61342379 CTTAAAAAAA
61342389 ATAC ATAC ATAC ATAC ATAC ATAC ATA
1 ATAC ATAC ATAC ATAC ATAC ATAC ATA
61342416 TTAGTAGTAC
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
4 23 1.00
ACGTcount: A:0.52, C:0.22, G:0.00, T:0.26
Consensus pattern (4 bp):
ATAC
Found at i:61344784 original size:39 final size:40
Alignment explanation
Indices: 61344707--61344853 Score: 111
Period size: 40 Copynumber: 3.7 Consensus size: 40
61344697 TAGCTCCTCG
* * *
61344707 TTCAAGTGCCTTCGGGACATAGCCCGG-TTATAGTAACTCA
1 TTCAA-TGCCTTCGGGACTTAACCCGGATTATAGAAACTCA
* *
61344747 TTCAATGCCTTCGGGACTTAACCCGGATTTTA-AAACTCG
1 TTCAATGCCTTCGGGACTTAACCCGGATTATAGAAACTCA
** * * * * *
61344786 CACGAATGCCTTCGGGACTTAACTCGGAAT-TAGTATCTCG
1 TTC-AATGCCTTCGGGACTTAACCCGGATTATAGAAACTCA
** *
61344826 CACAAAGGCCTTCGGGACTTAACCCGGA
1 TTC-AATGCCTTCGGGACTTAACCCGGA
61344854 ATTAATAACT
Statistics
Matches: 90, Mismatches: 14, Indels: 6
0.82 0.13 0.05
Matches are distributed among these distances:
39 27 0.30
40 63 0.70
ACGTcount: A:0.26, C:0.27, G:0.22, T:0.26
Consensus pattern (40 bp):
TTCAATGCCTTCGGGACTTAACCCGGATTATAGAAACTCA
Found at i:61344802 original size:40 final size:39
Alignment explanation
Indices: 61344750--61344880 Score: 172
Period size: 40 Copynumber: 3.3 Consensus size: 39
61344740 TAACTCATTC
* *
61344750 AATGCCTTCGGGACTTAACCCGGATTTTAAAACTCGCACG
1 AATGCCTTCGGGACTTAACCCGGA-ATTAAAACTCGCACA
* * *
61344790 AATGCCTTCGGGACTTAACTCGGAATTAGTATCTCGCACA
1 AATGCCTTCGGGACTTAACCCGGAATTA-AAACTCGCACA
*
61344830 AAGGCCTTCGGGACTTAACCCGGAATTAATAACTCGCACA
1 AATGCCTTCGGGACTTAACCCGGAATTAA-AACTCGCACA
*
61344870 AATACCTTCGG
1 AATGCCTTCGG
61344881 ATCTTAGTCC
Statistics
Matches: 78, Mismatches: 11, Indels: 4
0.84 0.12 0.04
Matches are distributed among these distances:
39 3 0.04
40 75 0.96
ACGTcount: A:0.29, C:0.27, G:0.20, T:0.24
Consensus pattern (39 bp):
AATGCCTTCGGGACTTAACCCGGAATTAAAACTCGCACA
Found at i:61344917 original size:80 final size:80
Alignment explanation
Indices: 61344753--61344933 Score: 212
Period size: 80 Copynumber: 2.3 Consensus size: 80
61344743 CTCATTCAAT
* * *
61344753 GCCTTCGGGACTTAACCCGGATTTTAAAACTCGCACGAATGCCTTCGGGACTTAACTCGGAATTA
1 GCCTTCGGGACTTAACCCGGATATTAAAACTCGCACAAATACCTTCGGGACTTAACTCGGAATTA
*
61344818 GTATCTCGCACAAAG
66 GTATCTAGCACAAAG
*
61344833 GCCTTCGGGACTTAACCCGGA-ATTAATAACTCGCACAAATACCTTC-GGATCTT-AGTCCGG-A
1 GCCTTCGGGACTTAACCCGGATATTAA-AACTCGCACAAATACCTTCGGGA-CTTAACT-CGGAA
61344894 TATAGTCA-CTTAGCACAAA-
63 T-TAGT-ATC-TAGCACAAAG
*
61344913 GCCTTCGGGACTTAGCCCGGA
1 GCCTTCGGGACTTAACCCGGA
61344934 CAGCATTCAA
Statistics
Matches: 89, Mismatches: 6, Indels: 12
0.83 0.06 0.11
Matches are distributed among these distances:
79 11 0.12
80 69 0.78
81 9 0.10
ACGTcount: A:0.28, C:0.27, G:0.21, T:0.24
Consensus pattern (80 bp):
GCCTTCGGGACTTAACCCGGATATTAAAACTCGCACAAATACCTTCGGGACTTAACTCGGAATTA
GTATCTAGCACAAAG
Found at i:61348272 original size:53 final size:53
Alignment explanation
Indices: 61348090--61348296 Score: 218
Period size: 53 Copynumber: 3.8 Consensus size: 53
61348080 ATTAGGGTTT
* * * *
61348090 AAGGATACCAAGTAAGACCATGCCAAGGCATGG-AATTGGTAAGTTTTACAAGGC
1 AAGGATACCATGTAAGACCATGCCAAGACATGGCAA-TGGTAAG-TTCATAAGGC
* * * * * * * *
61348144 AAGGAAATCATGTAAGACCATGTCAAGACATGGCATTGATAAACTACGATAAGAC
1 AAGGATACCATGTAAGACCATGCCAAGACATGGCAATGGT-AAGTTC-ATAAGGC
* * * *
61348199 AAAGATCCCATGTAAGACCATGCCAAGTCATGGCAATGGTGAGTTCATAAGGC
1 AAGGATACCATGTAAGACCATGCCAAGACATGGCAATGGTAAGTTCATAAGGC
*
61348252 AAGGATACCATGTAAGACCATGTCAAGACATGGCAATGGTAAGTT
1 AAGGATACCATGTAAGACCATGCCAAGACATGGCAATGGTAAGTT
61348297 TAAAAAGGAA
Statistics
Matches: 121, Mismatches: 29, Indels: 7
0.77 0.18 0.04
Matches are distributed among these distances:
53 46 0.38
54 35 0.29
55 40 0.33
ACGTcount: A:0.38, C:0.17, G:0.24, T:0.21
Consensus pattern (53 bp):
AAGGATACCATGTAAGACCATGCCAAGACATGGCAATGGTAAGTTCATAAGGC
Found at i:61377204 original size:28 final size:28
Alignment explanation
Indices: 61377141--61377350 Score: 361
Period size: 28 Copynumber: 7.5 Consensus size: 28
61377131 ATATTAAGTC
* *
61377141 CGCACACTCAGTGCTATATAATC-AACT
1 CGCACACTTAGTGCTACATAATCAAACT
*
61377168 CGCACACTTAGTGCTATATAATCAAACT
1 CGCACACTTAGTGCTACATAATCAAACT
*
61377196 CGCACACTTAGTGCTACATAATCAAGCT
1 CGCACACTTAGTGCTACATAATCAAACT
61377224 CGCACACTTAGTGCTACATAATCAAGA-T
1 CGCACACTTAGTGCTACATAATCAA-ACT
61377252 CGCACACTTAGTGCTACATAATCAAACT
1 CGCACACTTAGTGCTACATAATCAAACT
61377280 CGCACACTTAGTGCTACATAATCAAACT
1 CGCACACTTAGTGCTACATAATCAAACT
61377308 CGCACACTTAGTGCTACATAATCAAACT
1 CGCACACTTAGTGCTACATAATCAAACT
61377336 CGCACACTTAGTGCT
1 CGCACACTTAGTGCT
61377351 GTACAATTTA
Statistics
Matches: 176, Mismatches: 4, Indels: 5
0.95 0.02 0.03
Matches are distributed among these distances:
27 23 0.13
28 153 0.87
ACGTcount: A:0.34, C:0.28, G:0.12, T:0.26
Consensus pattern (28 bp):
CGCACACTTAGTGCTACATAATCAAACT
Found at i:61383368 original size:28 final size:28
Alignment explanation
Indices: 61383305--61383514 Score: 359
Period size: 28 Copynumber: 7.5 Consensus size: 28
61383295 ATATTAAGTC
* *
61383305 CGCACACTCAGTGCTATATAATC-AACT
1 CGCACACTTAGTGCTACATAATCAAACT
*
61383332 CGCACACTTAGTGCTATATAATCAAACT
1 CGCACACTTAGTGCTACATAATCAAACT
*
61383360 CGCACACTTAGTGCTACATAATCAAGCT
1 CGCACACTTAGTGCTACATAATCAAACT
*
61383388 CGCACACTTAGTGCTACATAATCAAGCT
1 CGCACACTTAGTGCTACATAATCAAACT
61383416 CGCACACTTAGTGCTACATAATCAAACT
1 CGCACACTTAGTGCTACATAATCAAACT
61383444 CGCACACTTAGTGCTACATAATCAAACT
1 CGCACACTTAGTGCTACATAATCAAACT
*
61383472 CGCACACCTAGTGCTACATAATCAAACT
1 CGCACACTTAGTGCTACATAATCAAACT
61383500 CGCACACTTAGTGCT
1 CGCACACTTAGTGCT
61383515 GTACAATTTA
Statistics
Matches: 176, Mismatches: 6, Indels: 1
0.96 0.03 0.01
Matches are distributed among these distances:
27 22 0.12
28 154 0.88
ACGTcount: A:0.33, C:0.29, G:0.12, T:0.25
Consensus pattern (28 bp):
CGCACACTTAGTGCTACATAATCAAACT
Found at i:61388505 original size:48 final size:48
Alignment explanation
Indices: 61388440--61388601 Score: 211
Period size: 48 Copynumber: 3.4 Consensus size: 48
61388430 TGAGAGCCAA
* * **
61388440 TGTAAGACATGTCTGGGACATGCATCAACCTCGAGATATACAAGCCCG
1 TGTAAGACATGTCTGGGACATGCATCAGCCTTGAGATATACAAGCTAG
* * * ** *
61388488 TGTAAGACCTGTTTGGGACATGCATCAGCATTGAGA-CGA-GAGCTAG
1 TGTAAGACATGTCTGGGACATGCATCAGCCTTGAGATATACAAGCTAG
61388534 TGTAAGACATGTCTGGGACATGCATCAGCCTTGAGATATACAAGCTAG
1 TGTAAGACATGTCTGGGACATGCATCAGCCTTGAGATATACAAGCTAG
*
61388582 TGTAAGACCTGTCTGGGACA
1 TGTAAGACATGTCTGGGACA
61388602 CGGCGTCAGC
Statistics
Matches: 95, Mismatches: 17, Indels: 4
0.82 0.15 0.03
Matches are distributed among these distances:
46 37 0.39
47 2 0.02
48 56 0.59
ACGTcount: A:0.30, C:0.20, G:0.27, T:0.23
Consensus pattern (48 bp):
TGTAAGACATGTCTGGGACATGCATCAGCCTTGAGATATACAAGCTAG
Found at i:61388554 original size:94 final size:94
Alignment explanation
Indices: 61388431--61388601 Score: 279
Period size: 94 Copynumber: 1.8 Consensus size: 94
61388421 ACCACATTAT
*
61388431 GAGAGCCAATGTAAGACATGTCTGGGACATGCATCAACCTCGAGATATACAAGCCCGTGTAAGAC
1 GAGAGCCAATGTAAGACATGTCTGGGACATGCATCAACCTCGAGATATACAAGCCAGTGTAAGAC
*
61388496 CTGTTTGGGACATGCATCAGCATTGAGAC
66 CTGTCTGGGACATGCATCAGCATTGAGAC
* * * * *
61388525 GAGAGCTAGTGTAAGACATGTCTGGGACATGCATCAGCCTTGAGATATACAAGCTAGTGTAAGAC
1 GAGAGCCAATGTAAGACATGTCTGGGACATGCATCAACCTCGAGATATACAAGCCAGTGTAAGAC
61388590 CTGTCTGGGACA
66 CTGTCTGGGACA
61388602 CGGCGTCAGC
Statistics
Matches: 70, Mismatches: 7, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
94 70 1.00
ACGTcount: A:0.30, C:0.20, G:0.27, T:0.22
Consensus pattern (94 bp):
GAGAGCCAATGTAAGACATGTCTGGGACATGCATCAACCTCGAGATATACAAGCCAGTGTAAGAC
CTGTCTGGGACATGCATCAGCATTGAGAC
Found at i:61388742 original size:49 final size:48
Alignment explanation
Indices: 61388532--61388743 Score: 127
Period size: 49 Copynumber: 4.5 Consensus size: 48
61388522 GACGAGAGCT
* * * *
61388532 AGTGTAAGACATGTCTGGGACA-TGCATCAGCCTTGAGATAT-ACAAG-C
1 AGTGTAAGACCTGTCTGGGACACGGCATCAG-CTCGATATATGA-AAGTC
* * * *
61388579 TAGTGTAAGACCTGTCTGGGACACGGCGTCAGCTTG-T-TGTG--TGTC
1 -AGTGTAAGACCTGTCTGGGACACGGCATCAGCTCGATATATGAAAGTC
* * * * * * * * *
61388624 AGTGTAAGACCTGTCTAGGATATGACATC-GACACCGACAGATGAGAGCC
1 AGTGTAAGACCTGTCTGGGACACGGCATCAG-C-TCGATATATGAAAGTC
* *
61388673 AGTGTAAGACATGT-TAGGGACACGGCATCGGTCTCGATATATGAAAGTC
1 AGTGTAAGACCTGTCT-GGGACACGGCATCAG-CTCGATATATGAAAGTC
61388722 AGTGTAAGACCTGTCTGGGACA
1 AGTGTAAGACCTGTCTGGGACA
61388744 TGGTATCGAC
Statistics
Matches: 122, Mismatches: 30, Indels: 23
0.70 0.17 0.13
Matches are distributed among these distances:
43 1 0.01
44 26 0.21
45 2 0.02
46 2 0.02
47 2 0.02
48 26 0.21
49 60 0.49
50 3 0.02
ACGTcount: A:0.28, C:0.19, G:0.29, T:0.24
Consensus pattern (48 bp):
AGTGTAAGACCTGTCTGGGACACGGCATCAGCTCGATATATGAAAGTC
Found at i:61393924 original size:32 final size:32
Alignment explanation
Indices: 61393883--61393945 Score: 90
Period size: 32 Copynumber: 2.0 Consensus size: 32
61393873 TTGTAGTCCA
61393883 ACCAAATGATCCGAGACAAAGTGACTTTTATC
1 ACCAAATGATCCGAGACAAAGTGACTTTTATC
* * * *
61393915 ACCAAATGATCTGAGCCTAGGTGACTTTTAT
1 ACCAAATGATCCGAGACAAAGTGACTTTTAT
61393946 GGACGAATAT
Statistics
Matches: 27, Mismatches: 4, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
32 27 1.00
ACGTcount: A:0.33, C:0.21, G:0.17, T:0.29
Consensus pattern (32 bp):
ACCAAATGATCCGAGACAAAGTGACTTTTATC
Found at i:61405159 original size:23 final size:23
Alignment explanation
Indices: 61405129--61405176 Score: 96
Period size: 23 Copynumber: 2.1 Consensus size: 23
61405119 TTTCCTGCAC
61405129 AGACAAATATAATAGTAATATAT
1 AGACAAATATAATAGTAATATAT
61405152 AGACAAATATAATAGTAATATAT
1 AGACAAATATAATAGTAATATAT
61405175 AG
1 AG
61405177 TTGTTGCAAA
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
23 25 1.00
ACGTcount: A:0.56, C:0.04, G:0.10, T:0.29
Consensus pattern (23 bp):
AGACAAATATAATAGTAATATAT
Found at i:61408713 original size:29 final size:29
Alignment explanation
Indices: 61408671--61408729 Score: 100
Period size: 29 Copynumber: 2.0 Consensus size: 29
61408661 ATGTTACACG
61408671 AGTTTGAGAGTCAGATACAGGTATCTTTC
1 AGTTTGAGAGTCAGATACAGGTATCTTTC
* *
61408700 AGTTTGAGTGTCAGATACAGGTATGTTTC
1 AGTTTGAGAGTCAGATACAGGTATCTTTC
61408729 A
1 A
61408730 TACATAAGTA
Statistics
Matches: 28, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
29 28 1.00
ACGTcount: A:0.27, C:0.12, G:0.25, T:0.36
Consensus pattern (29 bp):
AGTTTGAGAGTCAGATACAGGTATCTTTC
Found at i:61410300 original size:22 final size:22
Alignment explanation
Indices: 61410272--61410329 Score: 116
Period size: 22 Copynumber: 2.6 Consensus size: 22
61410262 GGACTGTATA
61410272 TAGGCTGATTTGTAGGGATTTG
1 TAGGCTGATTTGTAGGGATTTG
61410294 TAGGCTGATTTGTAGGGATTTG
1 TAGGCTGATTTGTAGGGATTTG
61410316 TAGGCTGATTTGTA
1 TAGGCTGATTTGTA
61410330 AGTTAAATAA
Statistics
Matches: 36, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
22 36 1.00
ACGTcount: A:0.19, C:0.05, G:0.34, T:0.41
Consensus pattern (22 bp):
TAGGCTGATTTGTAGGGATTTG
Found at i:61410303 original size:12 final size:12
Alignment explanation
Indices: 61410272--61410329 Score: 88
Period size: 12 Copynumber: 5.2 Consensus size: 12
61410262 GGACTGTATA
61410272 TAGGCTGATTTG
1 TAGGCTGATTTG
61410284 TAGG--GATTTG
1 TAGGCTGATTTG
61410294 TAGGCTGATTTG
1 TAGGCTGATTTG
61410306 TAGG--GATTTG
1 TAGGCTGATTTG
61410316 TAGGCTGATTTG
1 TAGGCTGATTTG
61410328 TA
1 TA
61410330 AGTTAAATAA
Statistics
Matches: 42, Mismatches: 0, Indels: 8
0.84 0.00 0.16
Matches are distributed among these distances:
10 20 0.48
12 22 0.52
ACGTcount: A:0.19, C:0.05, G:0.34, T:0.41
Consensus pattern (12 bp):
TAGGCTGATTTG
Found at i:61419369 original size:14 final size:15
Alignment explanation
Indices: 61419350--61419379 Score: 53
Period size: 15 Copynumber: 2.1 Consensus size: 15
61419340 TTAGTAAATT
61419350 TTTTTAT-ATTTTAA
1 TTTTTATAATTTTAA
61419364 TTTTTATAATTTTAA
1 TTTTTATAATTTTAA
61419379 T
1 T
61419380 AATTTTTAAC
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
14 7 0.47
15 8 0.53
ACGTcount: A:0.30, C:0.00, G:0.00, T:0.70
Consensus pattern (15 bp):
TTTTTATAATTTTAA
Found at i:61420078 original size:23 final size:21
Alignment explanation
Indices: 61420052--61420093 Score: 66
Period size: 23 Copynumber: 1.9 Consensus size: 21
61420042 AAAAAGTCAT
61420052 GAAATTAATTATAAATATTATTA
1 GAAATTAATTA-AAAT-TTATTA
61420075 GAAATTAATTAAAATTTAT
1 GAAATTAATTAAAATTTAT
61420094 AAAATTTATA
Statistics
Matches: 19, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
21 4 0.21
22 4 0.21
23 11 0.58
ACGTcount: A:0.52, C:0.00, G:0.05, T:0.43
Consensus pattern (21 bp):
GAAATTAATTAAAATTTATTA
Found at i:61423683 original size:7 final size:7
Alignment explanation
Indices: 61423673--61423733 Score: 61
Period size: 7 Copynumber: 8.9 Consensus size: 7
61423663 CGGGGTTTAG
61423673 GGTTCAA
1 GGTTCAA
61423680 GGTTCAA
1 GGTTCAA
*
61423687 GGTTTAA
1 GGTTCAA
*
61423694 GTTTCAA
1 GGTTCAA
*
61423701 GGTTCGA
1 GGTTCAA
*
61423708 -GTCCAA
1 GGTTCAA
61423714 GGTTCAA
1 GGTTCAA
*
61423721 GGCTCAA
1 GGTTCAA
*
61423728 GATTCA
1 GGTTCA
61423734 TGGTAAAATA
Statistics
Matches: 42, Mismatches: 11, Indels: 2
0.76 0.20 0.04
Matches are distributed among these distances:
6 4 0.10
7 38 0.90
ACGTcount: A:0.28, C:0.16, G:0.26, T:0.30
Consensus pattern (7 bp):
GGTTCAA
Found at i:61423692 original size:21 final size:21
Alignment explanation
Indices: 61423666--61423728 Score: 65
Period size: 21 Copynumber: 3.0 Consensus size: 21
61423656 TGAACCTCGG
*
61423666 GGTTTAGGGTTCAAGGTTCAA
1 GGTTTAAGGTTCAAGGTTCAA
* *
61423687 GGTTTAAGTTTCAAGGTTCGA
1 GGTTTAAGGTTCAAGGTTCAA
** *
61423708 -GTCCAAGGTTCAAGGCTCAA
1 GGTTTAAGGTTCAAGGTTCAA
61423728 G
1 G
61423729 ATTCATGGTA
Statistics
Matches: 33, Mismatches: 8, Indels: 2
0.77 0.19 0.05
Matches are distributed among these distances:
20 15 0.45
21 18 0.55
ACGTcount: A:0.25, C:0.14, G:0.30, T:0.30
Consensus pattern (21 bp):
GGTTTAAGGTTCAAGGTTCAA
Found at i:61439296 original size:28 final size:29
Alignment explanation
Indices: 61439265--61439319 Score: 76
Period size: 29 Copynumber: 1.9 Consensus size: 29
61439255 TATCTAAAAT
*
61439265 ATTGATAT-CATGACCCGAAGCCAAATTA
1 ATTGACATGCATGACCCGAAGCCAAATTA
* *
61439293 ATTGACATGCATGGCCCGAAGCTAAAT
1 ATTGACATGCATGACCCGAAGCCAAAT
61439320 CGGTTTATCT
Statistics
Matches: 23, Mismatches: 3, Indels: 1
0.85 0.11 0.04
Matches are distributed among these distances:
28 7 0.30
29 16 0.70
ACGTcount: A:0.36, C:0.22, G:0.18, T:0.24
Consensus pattern (29 bp):
ATTGACATGCATGACCCGAAGCCAAATTA
Found at i:61444956 original size:45 final size:45
Alignment explanation
Indices: 61444862--61445167 Score: 355
Period size: 45 Copynumber: 6.7 Consensus size: 45
61444852 CATTTCGTGT
* * * * *
61444862 GCCAGTGTAAGACCATGTTTGGAACATGGTATTGACAATT-A-TAAGA
1 GCCAGTGTAAGACCATG-TTGG-ACATGGCATCGGC-GTTGATTGAGA
*
61444908 GCCAGTGTAAGACCATGTTGGACATGACATCGGCGTTGATTGAGA
1 GCCAGTGTAAGACCATGTTGGACATGGCATCGGCGTTGATTGAGA
* *
61444953 GCCAGTGTAAGACTATGTTGGACATGACATCGGCGTTGATTGAGA
1 GCCAGTGTAAGACCATGTTGGACATGGCATCGGCGTTGATTGAGA
* * *
61444998 GCCAGTGTAAGAACATGTTGGACATGGCATCGGCATTGATTAAGA
1 GCCAGTGTAAGACCATGTTGGACATGGCATCGGCGTTGATTGAGA
* *
61445043 GCCAGTGTAAGACCATGTTGGACGTGGCATCAGCGTTGATTGAGA
1 GCCAGTGTAAGACCATGTTGGACATGGCATCGGCGTTGATTGAGA
* * * * * *
61445088 GCCAATGTAAGACCATGTTGGACATGGCATTGACATGGAGATGAGA
1 GCCAGTGTAAGACCATGTTGGACATGGCATCGGCGTTGA-TTGAGA
* *
61445134 GCTAGTGTAAGACCATTTCTAGGACATGGCATCG
1 GCCAGTGTAAGACCATGT-T-GGACATGGCATCG
61445168 TCCTCGACAT
Statistics
Matches: 226, Mismatches: 29, Indels: 8
0.86 0.11 0.03
Matches are distributed among these distances:
43 2 0.01
44 10 0.04
45 164 0.73
46 37 0.16
47 1 0.00
48 12 0.05
ACGTcount: A:0.29, C:0.16, G:0.29, T:0.25
Consensus pattern (45 bp):
GCCAGTGTAAGACCATGTTGGACATGGCATCGGCGTTGATTGAGA
Found at i:61445063 original size:135 final size:135
Alignment explanation
Indices: 61444862--61445167 Score: 391
Period size: 135 Copynumber: 2.2 Consensus size: 135
61444852 CATTTCGTGT
* *
61444862 GCCAGTGTAAGACCATGTTTGGAACATGGTATTGACAATTATAAGAGCCAGTGTAAGACCATGTT
1 GCCAGTGTAAGACCATG-TTGG-ACATGGCATCGACAATTATAAGAGCCAGTGTAAGACCATGTT
* * * * * *
61444927 GGACATGACATCGGCGTTGATTGAGAGCCAGTGTAAGACTATGTTGGACATGACATCGGCGTTGA
64 GGACATGACATCAGCGTTGATTGAGAGCCAATGTAAGACCATGTTGGACATGACATCGACATGGA
*
61444992 -TTGAGA
129 GATGAGA
* *
61444998 GCCAGTGTAAGAACATGTTGGACATGGCATCGGC-ATTGATTAAGAGCCAGTGTAAGACCATGTT
1 GCCAGTGTAAGACCATGTTGGACATGGCATCGACAATT-A-TAAGAGCCAGTGTAAGACCATGTT
* * * *
61445062 GGACGTGGCATCAGCGTTGATTGAGAGCCAATGTAAGACCATGTTGGACATGGCATTGACATGGA
64 GGACATGACATCAGCGTTGATTGAGAGCCAATGTAAGACCATGTTGGACATGACATCGACATGGA
61445127 GATGAGA
129 GATGAGA
* *
61445134 GCTAGTGTAAGACCATTTCTAGGACATGGCATCG
1 GCCAGTGTAAGACCATGT-T-GGACATGGCATCG
61445168 TCCTCGACAT
Statistics
Matches: 147, Mismatches: 18, Indels: 8
0.85 0.10 0.05
Matches are distributed among these distances:
133 3 0.02
134 11 0.07
135 83 0.56
136 36 0.24
137 1 0.01
138 13 0.09
ACGTcount: A:0.29, C:0.16, G:0.29, T:0.25
Consensus pattern (135 bp):
GCCAGTGTAAGACCATGTTGGACATGGCATCGACAATTATAAGAGCCAGTGTAAGACCATGTTGG
ACATGACATCAGCGTTGATTGAGAGCCAATGTAAGACCATGTTGGACATGACATCGACATGGAGA
TGAGA
Found at i:61445184 original size:48 final size:46
Alignment explanation
Indices: 61444905--61445199 Score: 222
Period size: 45 Copynumber: 6.5 Consensus size: 46
61444895 GACAATTATA
* * * * * *
61444905 AGAGCCAGTGTAAGACCATGTTGGACATGACATCGGCGTTGA-TTG
1 AGAGCTAGTGTAAGACCATGTTGGACATGGCATCGACATCGACATG
* * * * * * *
61444950 AGAGCCAGTGTAAGACTATGTTGGACATGACATCGGCGTTGA-TTG
1 AGAGCTAGTGTAAGACCATGTTGGACATGGCATCGACATCGACATG
* * * * * *
61444995 AGAGCCAGTGTAAGAACATGTTGGACATGGCATCGGCATTGA-TTA
1 AGAGCTAGTGTAAGACCATGTTGGACATGGCATCGACATCGACATG
* * * * *
61445040 AGAGCCAGTGTAAGACCATGTTGGACGTGGCATC-AGCGTTGA-TTG
1 AGAGCTAGTGTAAGACCATGTTGGACATGGCATCGA-CATCGACATG
* * * * *
61445085 AGAGCCAATGTAAGACCATGTTGGACATGGCATTGACATGGAGATG
1 AGAGCTAGTGTAAGACCATGTTGGACATGGCATCGACATCGACATG
* * *
61445131 AGAGCTAGTGTAAGACCATTTCTAGGACATGGCATCGTCCTCGACATG
1 AGAGCTAGTGTAAGACCATGT-T-GGACATGGCATCGACATCGACATG
* *
61445179 TGAGCTAGTGTAAAACCATGT
1 AGAGCTAGTGTAAGACCATGT
61445200 CCGAGACATG
Statistics
Matches: 217, Mismatches: 28, Indels: 7
0.86 0.11 0.03
Matches are distributed among these distances:
45 158 0.73
46 21 0.10
47 1 0.00
48 37 0.17
ACGTcount: A:0.28, C:0.17, G:0.29, T:0.25
Consensus pattern (46 bp):
AGAGCTAGTGTAAGACCATGTTGGACATGGCATCGACATCGACATG
Found at i:61448516 original size:20 final size:20
Alignment explanation
Indices: 61448491--61448535 Score: 63
Period size: 20 Copynumber: 2.2 Consensus size: 20
61448481 AGGGACTAAA
* *
61448491 ATGAAAAGTTGTAAAATTTG
1 ATGAAAAATTCTAAAATTTG
*
61448511 ATGAAAAATTCTAAAATTTT
1 ATGAAAAATTCTAAAATTTG
61448531 ATGAA
1 ATGAA
61448536 TACATGTGCT
Statistics
Matches: 22, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
20 22 1.00
ACGTcount: A:0.49, C:0.02, G:0.13, T:0.36
Consensus pattern (20 bp):
ATGAAAAATTCTAAAATTTG
Found at i:61450647 original size:22 final size:22
Alignment explanation
Indices: 61450605--61450647 Score: 61
Period size: 22 Copynumber: 2.0 Consensus size: 22
61450595 GACTATGCGA
*
61450605 TCTGAGCTCATGAGTTTTGTGG
1 TCTGAGCTCATGAGTTATGTGG
61450627 TCTGAGCTCATGA-TATATGTG
1 TCTGAGCTCATGAGT-TATGTG
61450648 ACACATGTTA
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
21 1 0.05
22 18 0.95
ACGTcount: A:0.19, C:0.14, G:0.28, T:0.40
Consensus pattern (22 bp):
TCTGAGCTCATGAGTTATGTGG
Found at i:61459142 original size:44 final size:44
Alignment explanation
Indices: 61459045--61459133 Score: 151
Period size: 44 Copynumber: 2.0 Consensus size: 44
61459035 TCCAAACATG
*
61459045 TATCAATCAATCCCTAATATCATCAACCAATTTCATGCTCATTC
1 TATCAATCAATCCATAATATCATCAACCAATTTCATGCTCATTC
* *
61459089 TATCAATCAATCCATAATATCCTCAACCAATTTCATGTTCATTC
1 TATCAATCAATCCATAATATCATCAACCAATTTCATGCTCATTC
61459133 T
1 T
61459134 CTATATCAAA
Statistics
Matches: 42, Mismatches: 3, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
44 42 1.00
ACGTcount: A:0.34, C:0.28, G:0.02, T:0.36
Consensus pattern (44 bp):
TATCAATCAATCCATAATATCATCAACCAATTTCATGCTCATTC
Found at i:61469595 original size:36 final size:36
Alignment explanation
Indices: 61469554--61469625 Score: 144
Period size: 36 Copynumber: 2.0 Consensus size: 36
61469544 TTAGTGGATG
61469554 AATGACATTTGCATGACTGGTTATGAGTATGATATA
1 AATGACATTTGCATGACTGGTTATGAGTATGATATA
61469590 AATGACATTTGCATGACTGGTTATGAGTATGATATA
1 AATGACATTTGCATGACTGGTTATGAGTATGATATA
61469626 CTGCTGCACA
Statistics
Matches: 36, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
36 36 1.00
ACGTcount: A:0.33, C:0.08, G:0.22, T:0.36
Consensus pattern (36 bp):
AATGACATTTGCATGACTGGTTATGAGTATGATATA
Found at i:61476455 original size:50 final size:50
Alignment explanation
Indices: 61476338--61476698 Score: 288
Period size: 50 Copynumber: 7.5 Consensus size: 50
61476328 ATGCCAACGT
* * * * * * *
61476338 CATGTCCCGGACATGGTCTTACACT-A-GCTCACACATCAAAGTCGATGC
1 CATGTCCCAGACATGGTCTTACACTGACTCTCATATATCGAGGCCGATGC
* *
61476386 CATATCCCGGACATGGTCTTACACTGACTCTCATATATCGAGGCCGATGC
1 CATGTCCCAGACATGGTCTTACACTGACTCTCATATATCGAGGCCGATGC
* * **
61476436 CATGTCCTAGACATGGTCTTACACTGGCTCTCAT-CGTCG-GTGCCGATGC
1 CATGTCCCAGACATGGTCTTACACTGACTCTCATATATCGAG-GCCGATGC
* * * * *
61476485 CATGCCCCAGGCATGGTCTTACACTGA----CAAATATC-AAGCTGATGC
1 CATGTCCCAGACATGGTCTTACACTGACTCTCATATATCGAGGCCGATGC
* * * * *
61476530 CATGTCCCAGACATGGTTTTACACTAACTTTCATATCTCGAGGCTGATGC
1 CATGTCCCAGACATGGTCTTACACTGACTCTCATATATCGAGGCCGATGC
* * * * *
61476580 CATGTCCCAGACATGGTCTTACACTTG-TTCTC--GTCTCAATGCCGATGC
1 CATGTCCCAGACATGGTCTTACAC-TGACTCTCATATATCGAGGCCGATGC
* * * *
61476628 CATGTCCCATACATGATCTTATACTGGA-TCTCATA-ATC-TGGCCGATG-
1 CATGTCCCAGACATGGTCTTACACT-GACTCTCATATATCGAGGCCGATGC
61476675 CATGTCCCAGACAT-GTCTTACACT
1 CATGTCCCAGACATGGTCTTACACT
61476699 AGCACACATG
Statistics
Matches: 251, Mismatches: 47, Indels: 32
0.76 0.14 0.10
Matches are distributed among these distances:
45 32 0.13
46 10 0.04
47 14 0.06
48 70 0.28
49 43 0.17
50 81 0.32
51 1 0.00
ACGTcount: A:0.24, C:0.29, G:0.19, T:0.28
Consensus pattern (50 bp):
CATGTCCCAGACATGGTCTTACACTGACTCTCATATATCGAGGCCGATGC
Found at i:61476599 original size:95 final size:96
Alignment explanation
Indices: 61476338--61476698 Score: 265
Period size: 98 Copynumber: 3.8 Consensus size: 96
61476328 ATGCCAACGT
* * * * *** * * *
61476338 CATGTCCCGGACATGGTCTTACACTAGCTCACA-CATCAAAGTCGATGCCATATCCCGGACATGG
1 CATGTCCCAGACATGGTCTTACACTAACTCTCATCGTCGGTGCCGATGCCATGTCCCAGACATGG
* *
61476402 TCTTACACTGACTCTCATATATCGAGGCCGATGC
66 TCTTACACTGA--C-CAAATATCGAAGCCGATGC
* ** * *
61476436 CATGTCCTAGACATGGTCTTACACTGGCTCTCATCGTCGGTGCCGATGCCATGCCCCAGGCATGG
1 CATGTCCCAGACATGGTCTTACACTAACTCTCATCGTCGGTGCCGATGCCATGTCCCAGACATGG
*
61476501 TCTTACACTGA-CAAATATC-AAGCTGATGC
66 TCTTACACTGACCAAATATCGAAGCCGATGC
* * *
61476530 CATGTCCCAGACATGGTTTTACACTAACTTTCATATC-TCGAG-GCTGATGCCATGTCCCAGACA
1 CATGTCCCAGACATGGTCTTACACTAACTCTC--ATCGTCG-GTGCCGATGCCATGTCCCAGACA
** *** *
61476593 TGGTCTTACACTTGTTCTCGTCTC-AATGCCGATGC
63 TGGTCTTACAC-TGACCAAATATCGAA-GCCGATGC
* * * * ** *
61476628 CATGTCCCATACATGATCTTATACTGGA-TCTCATAATCTG-GCCGATG-CATGTCCCAGACAT-
1 CATGTCCCAGACATGGTCTTACACT-AACTCTCATCGTCGGTGCCGATGCCATGTCCCAGACATG
61476689 GTCTTACACT
65 GTCTTACACT
61476699 AGCACACATG
Statistics
Matches: 215, Mismatches: 39, Indels: 23
0.78 0.14 0.08
Matches are distributed among these distances:
93 1 0.00
94 44 0.20
95 53 0.25
96 15 0.07
97 8 0.04
98 60 0.28
99 34 0.16
ACGTcount: A:0.24, C:0.29, G:0.19, T:0.28
Consensus pattern (96 bp):
CATGTCCCAGACATGGTCTTACACTAACTCTCATCGTCGGTGCCGATGCCATGTCCCAGACATGG
TCTTACACTGACCAAATATCGAAGCCGATGC
Found at i:61476696 original size:144 final size:144
Alignment explanation
Indices: 61476380--61476699 Score: 385
Period size: 144 Copynumber: 2.2 Consensus size: 144
61476370 ACATCAAAGT
* * * *
61476380 CGATGCCATATCCCGGACATGGTCTTACACTGACTCTCATATATCGAGGCCGATGCCATGTCCTA
1 CGATGCCATGTCCCAGACATGGTCTTACACTAACTCTCATATATCGAGGCCGATGCCATGTCCCA
** * *
61476445 GACATGGTCTTACACTGGCTCTCATCGTCGGTGCCGATGCCATGCCCCAGGCATGGTCTTACACT
66 GACATGGTCTTACACTGGCTCTCATCGTCAATGCCGATGCCATGCCCCAGACATGATCTTACACT
61476510 GACAAATATCAAGC
131 GACAAATATCAAGC
* * * * *
61476524 TGATGCCATGTCCCAGACATGGTTTTACACTAACTTTCATATCTCGAGGCTGATGCCATGTCCCA
1 CGATGCCATGTCCCAGACATGGTCTTACACTAACTCTCATATATCGAGGCCGATGCCATGTCCCA
* * * * * *
61476589 GACATGGTCTTACACTTGTTCTCGTC-TCAATGCCGATGCCATGTCCCATACATGATCTTATACT
66 GACATGGTCTTACACTGGCTCTCATCGTCAATGCCGATGCCATGCCCCAGACATGATCTTACACT
** **
61476653 GGATCTCATAATCTGGC
131 -GA-CAAAT-ATCAAGC
61476670 CGATG-CATGTCCCAGACAT-GTCTTACACTA
1 CGATGCCATGTCCCAGACATGGTCTTACACTA
61476700 GCACACATGT
Statistics
Matches: 148, Mismatches: 25, Indels: 6
0.83 0.14 0.03
Matches are distributed among these distances:
143 31 0.21
144 91 0.61
145 17 0.11
146 9 0.06
ACGTcount: A:0.23, C:0.29, G:0.19, T:0.28
Consensus pattern (144 bp):
CGATGCCATGTCCCAGACATGGTCTTACACTAACTCTCATATATCGAGGCCGATGCCATGTCCCA
GACATGGTCTTACACTGGCTCTCATCGTCAATGCCGATGCCATGCCCCAGACATGATCTTACACT
GACAAATATCAAGC
Found at i:61481013 original size:23 final size:23
Alignment explanation
Indices: 61480963--61481013 Score: 68
Period size: 23 Copynumber: 2.2 Consensus size: 23
61480953 AGTTCTTGCA
61480963 AGCATCCTGATCGGTAGTGACTT
1 AGCATCCTGATCGGTAGTGACTT
* *
61480986 TGCATCCTGATCGGTTGTGA-TCT
1 AGCATCCTGATCGGTAGTGACT-T
61481009 AGCAT
1 AGCAT
61481014 ATAATACGGA
Statistics
Matches: 24, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
22 1 0.04
23 23 0.96
ACGTcount: A:0.20, C:0.22, G:0.25, T:0.33
Consensus pattern (23 bp):
AGCATCCTGATCGGTAGTGACTT
Found at i:61487091 original size:42 final size:42
Alignment explanation
Indices: 61487032--61487113 Score: 164
Period size: 42 Copynumber: 2.0 Consensus size: 42
61487022 AATATGTGAA
61487032 TATAAATGTGTGAAAGTTTTAAGCTTCGATTTAGTTAATTAC
1 TATAAATGTGTGAAAGTTTTAAGCTTCGATTTAGTTAATTAC
61487074 TATAAATGTGTGAAAGTTTTAAGCTTCGATTTAGTTAATT
1 TATAAATGTGTGAAAGTTTTAAGCTTCGATTTAGTTAATT
61487114 GCATGTGAAT
Statistics
Matches: 40, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
42 40 1.00
ACGTcount: A:0.33, C:0.06, G:0.17, T:0.44
Consensus pattern (42 bp):
TATAAATGTGTGAAAGTTTTAAGCTTCGATTTAGTTAATTAC
Found at i:61487353 original size:56 final size:56
Alignment explanation
Indices: 61487267--61487386 Score: 222
Period size: 56 Copynumber: 2.1 Consensus size: 56
61487257 ACAAGGGATG
*
61487267 ATGGGCAAAACATGTCATGAAACATGTTGTGTTAATGGAAAAATAAAATAATAAGC
1 ATGGGCAAAACATGTCATGAAACATGTTGTGTTAATGGAAAAATAAAATAAGAAGC
*
61487323 ATGGGCAAAACATGTCATGAAACATGTTGTGTTAATGGAAGAATAAAATAAGAAGC
1 ATGGGCAAAACATGTCATGAAACATGTTGTGTTAATGGAAAAATAAAATAAGAAGC
61487379 ATGGGCAA
1 ATGGGCAA
61487387 TAAACTAATA
Statistics
Matches: 62, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
56 62 1.00
ACGTcount: A:0.45, C:0.09, G:0.23, T:0.23
Consensus pattern (56 bp):
ATGGGCAAAACATGTCATGAAACATGTTGTGTTAATGGAAAAATAAAATAAGAAGC
Found at i:61488734 original size:120 final size:120
Alignment explanation
Indices: 61488517--61488775 Score: 296
Period size: 120 Copynumber: 2.2 Consensus size: 120
61488507 TCGAATGATG
* *
61488517 TCCGGGCTAAGTCCCGAAGGCTTTGTGCTAAGTGACCATATCCGGACTAAGATCCGAAGGCATTT
1 TCCGGGTTAAGTCCCGAAGGCTTTGTGCTAAGTGACCAAATCCGGACTAAGATCCGAAGGCATTT
*
61488582 GTGCGAGATACTAAATCCGGACTAAGATCCGAAGGCATTGGTGCGAGTTA-CTAAA
66 GTGCGAGATACTAAATCCGGACTAAGATCCGAAGGCATTGGAGCGAG-TAGCTAAA
* * * **
61488637 TCCGGGTTAAGTCCCGAAGGCATTTGTGC-GAGTTACTAAATCCGGGTTAAG-TCCCGAAGGCAT
1 TCCGGGTTAAGTCCCGAAGGC-TTTGTGCTAAGTGACCAAATCCGGACTAAGAT-CCGAAGGCAT
* * * * *
61488700 TTGTGCGAGTTACTATAA-CCGGGCTATG-TCCCGAAGGCATTTGAGCGAGTAGCTATA
64 TTGTGCGAGATACTA-AATCCGGACTAAGAT-CCGAAGGCATTGGAGCGAGTAGCTAAA
* *
61488757 TCC-GGTTAAATTCCGAAGG
1 TCCGGGTTAAGTCCCGAAGG
61488776 TACGTGATTT
Statistics
Matches: 119, Mismatches: 15, Indels: 11
0.82 0.10 0.08
Matches are distributed among these distances:
119 18 0.15
120 92 0.77
121 9 0.08
ACGTcount: A:0.26, C:0.21, G:0.27, T:0.25
Consensus pattern (120 bp):
TCCGGGTTAAGTCCCGAAGGCTTTGTGCTAAGTGACCAAATCCGGACTAAGATCCGAAGGCATTT
GTGCGAGATACTAAATCCGGACTAAGATCCGAAGGCATTGGAGCGAGTAGCTAAA
Found at i:61488756 original size:40 final size:40
Alignment explanation
Indices: 61488517--61488749 Score: 294
Period size: 40 Copynumber: 5.8 Consensus size: 40
61488507 TCGAATGATG
* * * *
61488517 TCCGGGCTAAGTCCCGAAGGC-TTTGTGCTAAGTGACCATA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGC-GAGTTACTAAA
* *
61488557 TCCGGACTAAGAT-CCGAAGGCATTTGTGCGAGATACTAAA
1 TCCGGGCTAAG-TCCCGAAGGCATTTGTGCGAGTTACTAAA
* *
61488597 TCCGGACTAAGAT-CCGAAGGCATTGGTGCGAGTTACTAAA
1 TCCGGGCTAAG-TCCCGAAGGCATTTGTGCGAGTTACTAAA
*
61488637 TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAA
*
61488677 TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTA-AA
* *
61488718 -CCGGGCTATGTCCCGAAGGCATTTGAGCGAGT
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGT
61488750 AGCTATATCC
Statistics
Matches: 175, Mismatches: 14, Indels: 8
0.89 0.07 0.04
Matches are distributed among these distances:
39 1 0.01
40 164 0.94
41 10 0.06
ACGTcount: A:0.26, C:0.21, G:0.28, T:0.25
Consensus pattern (40 bp):
TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAA
Found at i:61504966 original size:13 final size:14
Alignment explanation
Indices: 61504924--61504968 Score: 51
Period size: 13 Copynumber: 3.3 Consensus size: 14
61504914 TAATAATGAT
61504924 TAAAGTATATTATAA
1 TAAAGTA-ATTATAA
61504939 TAATA-TAA-TATAA
1 TAA-AGTAATTATAA
61504952 TAAAGTAATTA-AA
1 TAAAGTAATTATAA
61504965 TAAA
1 TAAA
61504969 ATAAAAGAAT
Statistics
Matches: 27, Mismatches: 0, Indels: 8
0.77 0.00 0.23
Matches are distributed among these distances:
12 1 0.04
13 17 0.63
14 3 0.11
15 5 0.19
16 1 0.04
ACGTcount: A:0.60, C:0.00, G:0.04, T:0.36
Consensus pattern (14 bp):
TAAAGTAATTATAA
Found at i:61506875 original size:18 final size:18
Alignment explanation
Indices: 61506848--61506882 Score: 52
Period size: 18 Copynumber: 1.9 Consensus size: 18
61506838 CCCATGGCCT
*
61506848 AGCCCTACGGCCATGTTG
1 AGCCCCACGGCCATGTTG
*
61506866 AGCCCCACGGGCATGTT
1 AGCCCCACGGCCATGTT
61506883 CTAGGCCACA
Statistics
Matches: 15, Mismatches: 2, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
18 15 1.00
ACGTcount: A:0.17, C:0.34, G:0.29, T:0.20
Consensus pattern (18 bp):
AGCCCCACGGCCATGTTG
Found at i:61510015 original size:15 final size:15
Alignment explanation
Indices: 61509995--61510024 Score: 60
Period size: 15 Copynumber: 2.0 Consensus size: 15
61509985 CTATGGGTGA
61509995 AAGAATTAGATATAC
1 AAGAATTAGATATAC
61510010 AAGAATTAGATATAC
1 AAGAATTAGATATAC
61510025 CAAAAATAGC
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 15 1.00
ACGTcount: A:0.53, C:0.07, G:0.13, T:0.27
Consensus pattern (15 bp):
AAGAATTAGATATAC
Found at i:61515162 original size:26 final size:26
Alignment explanation
Indices: 61515133--61515189 Score: 62
Period size: 26 Copynumber: 2.2 Consensus size: 26
61515123 CTAAGAGAAT
*
61515133 TGAGAGAGGAGAGAATGA-TGAATAAG
1 TGAGAGAGGAG-GAATGATTGAAAAAG
* * *
61515159 TGAGGGATGAGGGATGATTGAAAAAG
1 TGAGAGAGGAGGAATGATTGAAAAAG
61515185 TGAGA
1 TGAGA
61515190 AAGGGGCTCT
Statistics
Matches: 25, Mismatches: 5, Indels: 2
0.78 0.16 0.06
Matches are distributed among these distances:
25 5 0.20
26 20 0.80
ACGTcount: A:0.42, C:0.00, G:0.40, T:0.18
Consensus pattern (26 bp):
TGAGAGAGGAGGAATGATTGAAAAAG
Found at i:61522413 original size:40 final size:40
Alignment explanation
Indices: 61522376--61522601 Score: 264
Period size: 40 Copynumber: 5.7 Consensus size: 40
61522366 GCTACTCGTT
*
61522376 CAAATGCCTTCGGGACATAGCCCGG-TTATAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGATT-TAGTAACTCGCA
* * *
61522416 CAAATGCCTTCGGGACTTAACCCGGATTTAATAACTTGCA
1 CAAATGCCTTCGGGACTTAGCCCGGATTTAGTAACTCGCA
*
61522456 CAAATGCCTTC-GGATCTTAGTCCGGATTTAGTAACTCGCA
1 CAAATGCCTTCGGGA-CTTAGCCCGGATTTAGTAACTCGCA
* * *
61522496 CAAATGCCTTC-GGATCTTAGTCCAGATTTTGTAACTCGCA
1 CAAATGCCTTCGGGA-CTTAGCCCGGATTTAGTAACTCGCA
** * *
61522536 CAAATGCCTTC-GGATCTTAGTTCGGATTTAGTCACTTAGCA
1 CAAATGCCTTCGGGA-CTTAGCCCGGATTTAGTAAC-TCGCA
61522577 CAAA-GCCTTCGGGACTTAGCCCGGA
1 CAAATGCCTTCGGGACTTAGCCCGGA
61522602 CATCATTCGA
Statistics
Matches: 165, Mismatches: 17, Indels: 8
0.87 0.09 0.04
Matches are distributed among these distances:
39 3 0.02
40 149 0.90
41 13 0.08
ACGTcount: A:0.26, C:0.26, G:0.20, T:0.28
Consensus pattern (40 bp):
CAAATGCCTTCGGGACTTAGCCCGGATTTAGTAACTCGCA
Found at i:61523954 original size:10 final size:10
Alignment explanation
Indices: 61523934--61523975 Score: 66
Period size: 10 Copynumber: 4.1 Consensus size: 10
61523924 ACATGAGAGC
61523934 TTTTCTCTTCT
1 TTTTCT-TTCT
*
61523945 TTTTTTTTCT
1 TTTTCTTTCT
61523955 TTTTCTTTCT
1 TTTTCTTTCT
61523965 TTTTCTTTCT
1 TTTTCTTTCT
61523975 T
1 T
61523976 CTATTCACGG
Statistics
Matches: 29, Mismatches: 2, Indels: 1
0.91 0.06 0.03
Matches are distributed among these distances:
10 24 0.83
11 5 0.17
ACGTcount: A:0.00, C:0.19, G:0.00, T:0.81
Consensus pattern (10 bp):
TTTTCTTTCT
Found at i:61523962 original size:16 final size:17
Alignment explanation
Indices: 61523939--61523977 Score: 62
Period size: 16 Copynumber: 2.4 Consensus size: 17
61523929 AGAGCTTTTC
*
61523939 TCTTCTTTTTTTTTCTT
1 TCTTCTTTCTTTTTCTT
61523956 T-TTCTTTCTTTTTCTT
1 TCTTCTTTCTTTTTCTT
61523972 TCTTCT
1 TCTTCT
61523978 ATTCACGGCA
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
16 15 0.75
17 5 0.25
ACGTcount: A:0.00, C:0.21, G:0.00, T:0.79
Consensus pattern (17 bp):
TCTTCTTTCTTTTTCTT
Found at i:61526447 original size:27 final size:28
Alignment explanation
Indices: 61526309--61526434 Score: 209
Period size: 28 Copynumber: 4.5 Consensus size: 28
61526299 AATGTGTACA
*
61526309 AGCACTAAGTGTGCGAGCTTGATTATGT
1 AGCACTAAGTGTGCGAGCTTGATTATAT
*
61526337 AGCACTAAGTGTGCGAGCTTGATTATGT
1 AGCACTAAGTGTGCGAGCTTGATTATAT
*
61526365 AGCACTAAGTGTGCGAGTTTGATTATAT
1 AGCACTAAGTGTGCGAGCTTGATTATAT
61526393 AGCACTAAGTGTGCGAG-TTGATTATAT
1 AGCACTAAGTGTGCGAGCTTGATTATAT
*
61526420 AGCACTGAGTGTGCG
1 AGCACTAAGTGTGCG
61526435 GACTTAATAT
Statistics
Matches: 95, Mismatches: 3, Indels: 1
0.96 0.03 0.01
Matches are distributed among these distances:
27 24 0.25
28 71 0.75
ACGTcount: A:0.26, C:0.13, G:0.29, T:0.32
Consensus pattern (28 bp):
AGCACTAAGTGTGCGAGCTTGATTATAT
Found at i:61534580 original size:27 final size:28
Alignment explanation
Indices: 61534417--61534566 Score: 212
Period size: 28 Copynumber: 5.4 Consensus size: 28
61534407 GAGATTGGCG
* * * *
61534417 CTAAGTGTGCGAGTTTAAATTGTACAGCA
1 CTAAGTGTGCGAGCTT-GATTATATAGCA
*
61534446 CTAAGTGTGCGAGCTTGATTATGTAGCA
1 CTAAGTGTGCGAGCTTGATTATATAGCA
*
61534474 CTAAGTGTGCGAGCTTGATTATGTAGCA
1 CTAAGTGTGCGAGCTTGATTATATAGCA
*
61534502 CTAAGTGTGCGAGTTTGATTATATAGCA
1 CTAAGTGTGCGAGCTTGATTATATAGCA
61534530 CTAAGTGTGCGAG-TTGATTATATAGCA
1 CTAAGTGTGCGAGCTTGATTATATAGCA
*
61534557 CTGAGTGTGC
1 CTAAGTGTGC
61534567 AGACTTAATA
Statistics
Matches: 113, Mismatches: 8, Indels: 2
0.92 0.07 0.02
Matches are distributed among these distances:
27 23 0.20
28 75 0.66
29 15 0.13
ACGTcount: A:0.27, C:0.13, G:0.27, T:0.33
Consensus pattern (28 bp):
CTAAGTGTGCGAGCTTGATTATATAGCA
Found at i:61536264 original size:27 final size:27
Alignment explanation
Indices: 61536225--61536280 Score: 76
Period size: 27 Copynumber: 2.1 Consensus size: 27
61536215 TTACTTTACA
61536225 GGGTAATTGGGTAATTTTACAAACCGG
1 GGGTAATTGGGTAATTTTACAAACCGG
* * * *
61536252 GGGTATTTTGGTAGTTTTACAAACTGG
1 GGGTAATTGGGTAATTTTACAAACCGG
61536279 GG
1 GG
61536281 TCTTAATTAC
Statistics
Matches: 25, Mismatches: 4, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
27 25 1.00
ACGTcount: A:0.25, C:0.09, G:0.32, T:0.34
Consensus pattern (27 bp):
GGGTAATTGGGTAATTTTACAAACCGG
Found at i:61538960 original size:46 final size:46
Alignment explanation
Indices: 61538907--61539043 Score: 175
Period size: 46 Copynumber: 3.0 Consensus size: 46
61538897 TATATATACA
* * * * *
61538907 CATCTCATACATATCTCACATTAGCCATTTGGCTTTACCACGTATC
1 CATCTCATACACATTTCGCATTAGCCATTCGGCTTTACCACATATC
* * * *
61538953 CATCTCATACACGTTTTGCATTAGCCACTCGGCTTTACCTCATATC
1 CATCTCATACACATTTCGCATTAGCCATTCGGCTTTACCACATATC
* *
61538999 CATCTCATACACATTTCGCATTAGCAATTCGGCTTTGCCACATAT
1 CATCTCATACACATTTCGCATTAGCCATTCGGCTTTACCACATAT
61539044 ATACACTTCC
Statistics
Matches: 76, Mismatches: 15, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
46 76 1.00
ACGTcount: A:0.25, C:0.31, G:0.10, T:0.34
Consensus pattern (46 bp):
CATCTCATACACATTTCGCATTAGCCATTCGGCTTTACCACATATC
Found at i:61539108 original size:47 final size:47
Alignment explanation
Indices: 61539057--61539186 Score: 224
Period size: 47 Copynumber: 2.8 Consensus size: 47
61539047 CACTTCCACG
** * *
61539057 TTCATCACATTGGCCATTCTACCTTATCACATATATGCATGTTCACA
1 TTCATCACATTGGCCATTCGGCCTTATCACACATATGCATGCTCACA
61539104 TTCATCACATTGGCCATTCGGCCTTATCACACATATGCATGCTCACA
1 TTCATCACATTGGCCATTCGGCCTTATCACACATATGCATGCTCACA
61539151 TTCATCACATTGGCCATTCGGCCTTATCACACATAT
1 TTCATCACATTGGCCATTCGGCCTTATCACACATAT
61539187 TCGGCCTTAT
Statistics
Matches: 79, Mismatches: 4, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
47 79 1.00
ACGTcount: A:0.26, C:0.30, G:0.11, T:0.33
Consensus pattern (47 bp):
TTCATCACATTGGCCATTCGGCCTTATCACACATATGCATGCTCACA
Found at i:61539190 original size:19 final size:19
Alignment explanation
Indices: 61539166--61539205 Score: 80
Period size: 19 Copynumber: 2.1 Consensus size: 19
61539156 CACATTGGCC
61539166 ATTCGGCCTTATCACACAT
1 ATTCGGCCTTATCACACAT
61539185 ATTCGGCCTTATCACACAT
1 ATTCGGCCTTATCACACAT
61539204 AT
1 AT
61539206 GCATGTTCAC
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
19 21 1.00
ACGTcount: A:0.28, C:0.30, G:0.10, T:0.33
Consensus pattern (19 bp):
ATTCGGCCTTATCACACAT
Found at i:61539196 original size:66 final size:66
Alignment explanation
Indices: 61539119--61539293 Score: 332
Period size: 66 Copynumber: 2.7 Consensus size: 66
61539109 CACATTGGCC
61539119 ATTCGGCCTTATCACACATATGCATGCTCACATTCATCACATTGGCCATTCGGCCTTATCACACA
1 ATTCGGCCTTATCACACATATGCATGCTCACATTCATCACATTGGCCATTCGGCCTTATCACACA
61539184 T
66 T
*
61539185 ATTCGGCCTTATCACACATATGCATGTTCACATTCATCACATTGGCCATTCGGCCTTATCACACA
1 ATTCGGCCTTATCACACATATGCATGCTCACATTCATCACATTGGCCATTCGGCCTTATCACACA
61539250 T
66 T
*
61539251 ATTCGGCCTTATCACATATATGCATGCTCACATTCATCACATT
1 ATTCGGCCTTATCACACATATGCATGCTCACATTCATCACATT
61539294 AAAATCCTAA
Statistics
Matches: 106, Mismatches: 3, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
66 106 1.00
ACGTcount: A:0.26, C:0.30, G:0.11, T:0.32
Consensus pattern (66 bp):
ATTCGGCCTTATCACACATATGCATGCTCACATTCATCACATTGGCCATTCGGCCTTATCACACA
T
Found at i:61539256 original size:19 final size:19
Alignment explanation
Indices: 61539232--61539271 Score: 71
Period size: 19 Copynumber: 2.1 Consensus size: 19
61539222 CACATTGGCC
61539232 ATTCGGCCTTATCACACAT
1 ATTCGGCCTTATCACACAT
*
61539251 ATTCGGCCTTATCACATAT
1 ATTCGGCCTTATCACACAT
61539270 AT
1 AT
61539272 GCATGCTCAC
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:0.28, C:0.28, G:0.10, T:0.35
Consensus pattern (19 bp):
ATTCGGCCTTATCACACAT
Found at i:61550452 original size:79 final size:81
Alignment explanation
Indices: 61550316--61550500 Score: 227
Period size: 79 Copynumber: 2.3 Consensus size: 81
61550306 TTGAATGATG
* *
61550316 TCCGGGCTAAGTCCCGAAGGC-TTTGTGCTAAGTGACCATATCCGGACTAAGATCCGAAGGCATT
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCTAAGTGACCAAATCCGGACTAAGATCCGAAGGCAAT
61550380 TGTGCGAGATACTA-A
66 TGTGCGAGATACTATA
* * * **
61550395 TTCCGGGCTAAG-CCCGAAGGCATTTGTGC-GAGTTACTAAATCCGGGTTAAG-TCCCGAAGGCA
1 -TCCGGGCTAAGTCCCGAAGGCATTTGTGCTAAGTGACCAAATCCGGACTAAGAT-CCGAAGGCA
*
61550457 ATTGTGCGAGTTACTATA
64 ATTGTGCGAGATACTATA
* *
61550475 ACCGGGCTATGTCCCGAAGGCATTTG
1 TCCGGGCTAAGTCCCGAAGGCATTTG
61550501 AATGAGTAGC
Statistics
Matches: 91, Mismatches: 10, Indels: 8
0.83 0.09 0.07
Matches are distributed among these distances:
78 1 0.01
79 57 0.63
80 33 0.36
ACGTcount: A:0.25, C:0.23, G:0.28, T:0.25
Consensus pattern (81 bp):
TCCGGGCTAAGTCCCGAAGGCATTTGTGCTAAGTGACCAAATCCGGACTAAGATCCGAAGGCAAT
TGTGCGAGATACTATA
Found at i:61550514 original size:40 final size:40
Alignment explanation
Indices: 61550317--61550500 Score: 207
Period size: 40 Copynumber: 4.6 Consensus size: 40
61550307 TGAATGATGT
* * * *
61550317 CCGGGCTAAGTCCCGAAGGC-TTTGTGCTAAGTGACCATAT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGC-GAGTTACTATAA
* * *
61550357 CCGGACTAAGAT-CCGAAGGCATTTGTGCGAGATACTA-ATT
1 CCGGGCTAAG-TCCCGAAGGCATTTGTGCGAGTTACTATA-A
61550397 CCGGGCTAAG-CCCGAAGGCATTTGTGCGAGTTACTA-AA
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAA
* *
61550435 TCCGGGTTAAGTCCCGAAGGCAATTGTGCGAGTTACTATAA
1 -CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAA
*
61550476 CCGGGCTATGTCCCGAAGGCATTTG
1 CCGGGCTAAGTCCCGAAGGCATTTG
61550501 AATGAGTAGC
Statistics
Matches: 124, Mismatches: 13, Indels: 14
0.82 0.09 0.09
Matches are distributed among these distances:
39 35 0.28
40 79 0.64
41 10 0.08
ACGTcount: A:0.25, C:0.23, G:0.28, T:0.24
Consensus pattern (40 bp):
CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAA
Found at i:61550522 original size:79 final size:79
Alignment explanation
Indices: 61550369--61550533 Score: 192
Period size: 79 Copynumber: 2.1 Consensus size: 79
61550359 GGACTAAGAT
* * **
61550369 CCGAAGGCATTTGTGCGAGATACTAATTCCGGGCTAAGCCCGAAGGCATTTGTGCGAGTTACTAA
1 CCGAAGGCAATTGTGCGAGATACTAATACCGGGCTAAGCCCGAAGGCATTTGAACGAGTTACTAA
*
61550434 ATCCGGGTTAAGTC
66 ATCCGGGTTAAATC
* * *
61550448 CCGAAGGCAATTGTGCGAGTTACT-ATAACCGGGCTATGTCCCGAAGGCATTTGAATGAG-TAGC
1 CCGAAGGCAATTGTGCGAGATACTAAT-ACCGGGCTAAG-CCCGAAGGCATTTGAACGAGTTA-C
* *
61550511 TATATCC-GGTTAAATT
63 TAAATCCGGGTTAAATC
61550527 CCGAAGG
1 CCGAAGG
61550534 TACGTGATTT
Statistics
Matches: 73, Mismatches: 10, Indels: 6
0.82 0.11 0.07
Matches are distributed among these distances:
78 2 0.03
79 47 0.64
80 24 0.33
ACGTcount: A:0.27, C:0.21, G:0.27, T:0.25
Consensus pattern (79 bp):
CCGAAGGCAATTGTGCGAGATACTAATACCGGGCTAAGCCCGAAGGCATTTGAACGAGTTACTAA
ATCCGGGTTAAATC
Found at i:61562658 original size:93 final size:93
Alignment explanation
Indices: 61562499--61562670 Score: 290
Period size: 93 Copynumber: 1.8 Consensus size: 93
61562489 CGCCCATAAG
* *
61562499 CGAACTCGGACTCAACTCAACGAGCTCGGGCATTCGCATCCATGAGTGAACTCAGACTCAACTCA
1 CGAACTCGGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAGTGAACTCAGACTCAACTCA
61562564 ACGAGTTCGGATGCCTAGTTACATCTCA
66 ACGAGTTCGGATGCCTAGTTACATCTCA
* * **
61562592 CGAACTCGGACTCAACTCAACGAGTTCGGACATTTGCATCCATAAGTGAACTTGGACTCAACTCA
1 CGAACTCGGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAGTGAACTCAGACTCAACTCA
61562657 ACGAGTTCGGATGC
66 ACGAGTTCGGATGC
61562671 TCAACCATCC
Statistics
Matches: 73, Mismatches: 6, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
93 73 1.00
ACGTcount: A:0.28, C:0.28, G:0.21, T:0.22
Consensus pattern (93 bp):
CGAACTCGGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAGTGAACTCAGACTCAACTCA
ACGAGTTCGGATGCCTAGTTACATCTCA
Found at i:61562667 original size:46 final size:46
Alignment explanation
Indices: 61562492--61562667 Score: 196
Period size: 46 Copynumber: 3.8 Consensus size: 46
61562482 TGTAACCCGC
* * *
61562492 CCATAAGCGAACTCGGACTCAACTCAACGAGCTCGGGCATTCGCAT
1 CCATAAGCGAACTCGGACTCAACTCAACGAGTTCGGACATTTGCAT
* * * * *
61562538 CCATGAGTGAACTCAGACTCAACTCAACGAGTTCGGATGCCTAGTTACAT
1 CCATAAGCGAACTCGGACTCAACTCAACGAGTTCGGA---C-ATTTGCAT
*
61562588 -C-TCA-CGAACTCGGACTCAACTCAACGAGTTCGGACATTTGCAT
1 CCATAAGCGAACTCGGACTCAACTCAACGAGTTCGGACATTTGCAT
* *
61562631 CCATAAGTGAACTTGGACTCAACTCAACGAGTTCGGA
1 CCATAAGCGAACTCGGACTCAACTCAACGAGTTCGGA
61562668 TGCTCAACCA
Statistics
Matches: 107, Mismatches: 16, Indels: 14
0.78 0.12 0.10
Matches are distributed among these distances:
43 6 0.06
44 2 0.02
45 2 0.02
46 60 0.56
47 28 0.26
48 2 0.02
49 2 0.02
50 5 0.05
ACGTcount: A:0.30, C:0.28, G:0.20, T:0.22
Consensus pattern (46 bp):
CCATAAGCGAACTCGGACTCAACTCAACGAGTTCGGACATTTGCAT
Found at i:61564053 original size:28 final size:28
Alignment explanation
Indices: 61563964--61564041 Score: 120
Period size: 28 Copynumber: 2.8 Consensus size: 28
61563954 GGCTATTACA
*
61563964 GGGCGTGATGGGCCATATGAATATGATG
1 GGGCCTGATGGGCCATATGAATATGATG
* *
61563992 GGGCTTGATTGGCCATATGAATATGATG
1 GGGCCTGATGGGCCATATGAATATGATG
*
61564020 GGGCCTGATGGGCCATTTGAAT
1 GGGCCTGATGGGCCATATGAAT
61564042 GAGATTGGGC
Statistics
Matches: 45, Mismatches: 5, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
28 45 1.00
ACGTcount: A:0.23, C:0.13, G:0.36, T:0.28
Consensus pattern (28 bp):
GGGCCTGATGGGCCATATGAATATGATG
Found at i:61564652 original size:81 final size:81
Alignment explanation
Indices: 61564368--61564809 Score: 493
Period size: 81 Copynumber: 5.5 Consensus size: 81
61564358 TAATAAAGAG
* * *
61564368 AAATTACCGAAATACCCCCGATTTGTAAAATTACCGAAACACCC-CCAGTTAGTAAAATTATCGA
1 AAATTACCGAAATACCCTCGATTTGTAAAATTACCGAAACACCCTCGA-TTTGTAAAATTATCGA
*
61564432 AAAACCC-CTGATTTGTA
65 AACACCCTC-GATTTGTA
* ** * * * * *
61564449 AAATTACCAAAATACCCTC-AACTGTGAAATTACTGAAATACCCTTGATTTGTAAAATTA-CCAA
1 AAATTACCGAAATACCCTCGATTTGTAAAATTACCGAAACACCCTCGATTTGTAAAATTATCGAA
* *
61564512 A-ATCCCCCGATCTGTGA
66 ACA-CCCTCGATTTGT-A
* * * * ** *
61564529 AAA-TACTGAAACACCATCAATTTGTAAAATTACTAAAACACCCTCGATTTATAAAATTATCGAA
1 AAATTACCGAAATACCCTCGATTTGTAAAATTACCGAAACACCCTCGATTTGTAAAATTATCGAA
*
61564593 ATACCCTCGATTTGTA
66 ACACCCTCGATTTGTA
* *
61564609 AAATTACCGAAATA-CCTCCGATTTGTGAAATTACTGAAACACCCTCGATTTGTAAAATTATCGA
1 AAATTACCGAAATACCCT-CGATTTGTAAAATTACCGAAACACCCTCGATTTGTAAAATTATCGA
* **
61564673 AACACACTAAATTTGTA
65 AACACCCTCGATTTGTA
* * *
61564690 AAATTACTGAAACACCCTCGATTTGTAAAATTACCAAAACACCCTCGATTTGTAAAATTATCGAA
1 AAATTACCGAAATACCCTCGATTTGTAAAATTACCGAAACACCCTCGATTTGTAAAATTATCGAA
*
61564755 ACACCCTCAATTTGTA
66 ACACCCTCGATTTGTA
* *
61564771 AAATTATCGAAATGCCCTCGATTTGTAAAATTACCGAAA
1 AAATTACCGAAATACCCTCGATTTGTAAAATTACCGAAA
61564810 TACTGTGATA
Statistics
Matches: 302, Mismatches: 49, Indels: 20
0.81 0.13 0.05
Matches are distributed among these distances:
78 1 0.00
79 24 0.08
80 74 0.25
81 199 0.66
82 4 0.01
ACGTcount: A:0.40, C:0.22, G:0.10, T:0.28
Consensus pattern (81 bp):
AAATTACCGAAATACCCTCGATTTGTAAAATTACCGAAACACCCTCGATTTGTAAAATTATCGAA
ACACCCTCGATTTGTA
Found at i:61564810 original size:27 final size:27
Alignment explanation
Indices: 61564368--61564809 Score: 448
Period size: 27 Copynumber: 16.4 Consensus size: 27
61564358 TAATAAAGAG
* *
61564368 AAATTACCGAAATACCCCCGATTTGTA
1 AAATTACCGAAACACCCTCGATTTGTA
* *
61564395 AAATTACCGAAACACCC-CCAGTTAGTA
1 AAATTACCGAAACACCCTCGA-TTTGTA
* *
61564422 AAATTATCGAAAAACCC-CTGATTTGTA
1 AAATTACCGAAACACCCTC-GATTTGTA
* * ** *
61564449 AAATTACCAAAATACCCTC-AACTGTG
1 AAATTACCGAAACACCCTCGATTTGTA
* * *
61564475 AAATTACTGAAATACCCTTGATTTGTA
1 AAATTACCGAAACACCCTCGATTTGTA
* *
61564502 AAATTACC-AAA-ATCCCCCGATCTGTGA
1 AAATTACCGAAACA-CCCTCGATTTGT-A
* * *
61564529 AAA-TACTGAAACACCATCAATTTGTA
1 AAATTACCGAAACACCCTCGATTTGTA
** *
61564555 AAATTACTAAAACACCCTCGATTTATA
1 AAATTACCGAAACACCCTCGATTTGTA
* *
61564582 AAATTATCGAAATACCCTCGATTTGTA
1 AAATTACCGAAACACCCTCGATTTGTA
* *
61564609 AAATTACCGAAATA-CCTCCGATTTGTG
1 AAATTACCGAAACACCCT-CGATTTGTA
*
61564636 AAATTACTGAAACACCCTCGATTTGTA
1 AAATTACCGAAACACCCTCGATTTGTA
* * **
61564663 AAATTATCGAAACACACTAAATTTGTA
1 AAATTACCGAAACACCCTCGATTTGTA
*
61564690 AAATTACTGAAACACCCTCGATTTGTA
1 AAATTACCGAAACACCCTCGATTTGTA
*
61564717 AAATTACCAAAACACCCTCGATTTGTA
1 AAATTACCGAAACACCCTCGATTTGTA
* *
61564744 AAATTATCGAAACACCCTCAATTTGTA
1 AAATTACCGAAACACCCTCGATTTGTA
* **
61564771 AAATTATCGAAATGCCCTCGATTTGTA
1 AAATTACCGAAACACCCTCGATTTGTA
61564798 AAATTACCGAAA
1 AAATTACCGAAA
61564810 TACTGTGATA
Statistics
Matches: 343, Mismatches: 61, Indels: 22
0.81 0.14 0.05
Matches are distributed among these distances:
25 1 0.00
26 44 0.13
27 292 0.85
28 6 0.02
ACGTcount: A:0.40, C:0.22, G:0.10, T:0.28
Consensus pattern (27 bp):
AAATTACCGAAACACCCTCGATTTGTA
Found at i:61566532 original size:29 final size:29
Alignment explanation
Indices: 61566499--61566572 Score: 96
Period size: 29 Copynumber: 2.6 Consensus size: 29
61566489 GTTGTGAGAT
* *
61566499 TGGCACTAGGTGTGCGAACTTGAAA-TGCA
1 TGGCACTAAGTGTGCG-ACTTGAAAGTACA
* *
61566528 TGGCACTAAGTGTGCGAGTTTAAAGTACA
1 TGGCACTAAGTGTGCGACTTGAAAGTACA
61566557 TGGCACTAAGTGTGCG
1 TGGCACTAAGTGTGCG
61566573 CGGTTGATTA
Statistics
Matches: 40, Mismatches: 4, Indels: 2
0.87 0.09 0.04
Matches are distributed among these distances:
28 6 0.15
29 34 0.85
ACGTcount: A:0.27, C:0.16, G:0.31, T:0.26
Consensus pattern (29 bp):
TGGCACTAAGTGTGCGACTTGAAAGTACA
Found at i:61568201 original size:27 final size:27
Alignment explanation
Indices: 61568181--61568269 Score: 178
Period size: 27 Copynumber: 3.3 Consensus size: 27
61568171 ACCCTCGATT
61568181 TGTAAAATTATCAAAATACCCTTGTAG
1 TGTAAAATTATCAAAATACCCTTGTAG
61568208 TGTAAAATTATCAAAATACCCTTGTAG
1 TGTAAAATTATCAAAATACCCTTGTAG
61568235 TGTAAAATTATCAAAATACCCTTGTAG
1 TGTAAAATTATCAAAATACCCTTGTAG
61568262 TGTAAAAT
1 TGTAAAAT
61568270 GACCGACATA
Statistics
Matches: 62, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
27 62 1.00
ACGTcount: A:0.42, C:0.13, G:0.11, T:0.34
Consensus pattern (27 bp):
TGTAAAATTATCAAAATACCCTTGTAG
Found at i:61568229 original size:54 final size:54
Alignment explanation
Indices: 61568140--61568269 Score: 174
Period size: 54 Copynumber: 2.4 Consensus size: 54
61568130 AGGGTGTTAC
* * *
61568140 AAATACCCTTG-ATTTGTAAAATTACCGAAACACCCTCG-ATTTGTAAAATTATCA
1 AAATACCCTTGTA-GTGTAAAATTACCAAAACACCCTCGTA-GTGTAAAATTATCA
* * *
61568194 AAATACCCTTGTAGTGTAAAATTATCAAAATACCCTTGTAGTGTAAAATTATCA
1 AAATACCCTTGTAGTGTAAAATTACCAAAACACCCTCGTAGTGTAAAATTATCA
61568248 AAATACCCTTGTAGTGTAAAAT
1 AAATACCCTTGTAGTGTAAAAT
61568270 GACCGACATA
Statistics
Matches: 68, Mismatches: 6, Indels: 4
0.87 0.08 0.05
Matches are distributed among these distances:
54 66 0.97
55 2 0.03
ACGTcount: A:0.40, C:0.17, G:0.11, T:0.32
Consensus pattern (54 bp):
AAATACCCTTGTAGTGTAAAATTACCAAAACACCCTCGTAGTGTAAAATTATCA
Found at i:61568280 original size:27 final size:27
Alignment explanation
Indices: 61568181--61568299 Score: 157
Period size: 27 Copynumber: 4.4 Consensus size: 27
61568171 ACCCTCGATT
*
61568181 TGTAAAATTATCAAAATACCCTTGTAG
1 TGTAAAATGATCAAAATACCCTTGTAG
*
61568208 TGTAAAATTATCAAAATACCCTTGTAG
1 TGTAAAATGATCAAAATACCCTTGTAG
*
61568235 TGTAAAATTATCAAAATACCCTTGTAG
1 TGTAAAATGATCAAAATACCCTTGTAG
* * * * *
61568262 TGTAAAATGACCGACATACCCCTATAG
1 TGTAAAATGATCAAAATACCCTTGTAG
*
61568289 GGTAAAATGAT
1 TGTAAAATGAT
61568300 TGTTTTGCCC
Statistics
Matches: 84, Mismatches: 8, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
27 84 1.00
ACGTcount: A:0.40, C:0.16, G:0.13, T:0.30
Consensus pattern (27 bp):
TGTAAAATGATCAAAATACCCTTGTAG
Done.