Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: At_chr5
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: 55438857
ACGTcount: A:0.32, C:0.17, G:0.17, T:0.32
Warning! 1812582 characters in sequence are not A, C, G, or T
File 53 of 167
Found at i:16390616 original size:26 final size:26
Alignment explanation
Indices: 16390585--16390692 Score: 189
Period size: 26 Copynumber: 4.2 Consensus size: 26
16390575 TGAAATGCCC
*
16390585 ATCATGGAACATTTACCTAAACCATT
1 ATCATGGAACATTTACCTAACCCATT
16390611 ATCATGGAACATTTACCTAACCCATT
1 ATCATGGAACATTTACCTAACCCATT
* *
16390637 ATCATGGAATATTTACCTAATCCATT
1 ATCATGGAACATTTACCTAACCCATT
16390663 ATCATGGAACATTTACCTAACCCATT
1 ATCATGGAACATTTACCTAACCCATT
16390689 ATCA
1 ATCA
16390693 ATTTGTATCA
Statistics
Matches: 77, Mismatches: 5, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
26 77 1.00
ACGTcount: A:0.36, C:0.24, G:0.07, T:0.32
Consensus pattern (26 bp):
ATCATGGAACATTTACCTAACCCATT
Found at i:16390905 original size:85 final size:86
Alignment explanation
Indices: 16390761--16390932 Score: 328
Period size: 85 Copynumber: 2.0 Consensus size: 86
16390751 ACATGATGGC
16390761 TGGCCACTTCATGTAAAATGGGAGGTTTGTCATACAAATCCTCCTATTTTGCACTCCTATTTATT
1 TGGCCACTTCATGTAAAATGGGAGGTTTGTCATACAAATCCTCCTATTTTGCACTCCTATTTATT
16390826 TGGCCACTTCAATTTAGCCTA
66 TGGCCACTTCAATTTAGCCTA
*
16390847 TGGCCACTTCATGTAAAAT-GGAGGTTTGTCATGCAAATCCTCCTATTTTGCACTCCTATTTATT
1 TGGCCACTTCATGTAAAATGGGAGGTTTGTCATACAAATCCTCCTATTTTGCACTCCTATTTATT
16390911 TGGCCACTTCAATTTAGCCTA
66 TGGCCACTTCAATTTAGCCTA
16390932 T
1 T
16390933 AGCATTTTCA
Statistics
Matches: 85, Mismatches: 1, Indels: 1
0.98 0.01 0.01
Matches are distributed among these distances:
85 66 0.78
86 19 0.22
ACGTcount: A:0.24, C:0.23, G:0.15, T:0.38
Consensus pattern (86 bp):
TGGCCACTTCATGTAAAATGGGAGGTTTGTCATACAAATCCTCCTATTTTGCACTCCTATTTATT
TGGCCACTTCAATTTAGCCTA
Found at i:16398360 original size:79 final size:81
Alignment explanation
Indices: 16398224--16398408 Score: 227
Period size: 79 Copynumber: 2.3 Consensus size: 81
16398214 TTGAATGATG
*
16398224 TCCGGGCTAAGTCCCGAAGGC-TTTGTGCTAAGTGACCATATCCGGACTAAGATCCGAAGGCATT
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCTAAGTGACCAAATCCGGACTAAGATCCGAAGGCATT
16398288 TGTGCAAGATACTA-A
66 TGTGCAAGATACTATA
* * * **
16398303 TTCCGGGCTAAG-CCCGAAGGCATTTGTGC-GAGTTACTAAATCCGGGTTAAG-TCCCGAAGGCA
1 -TCCGGGCTAAGTCCCGAAGGCATTTGTGCTAAGTGACCAAATCCGGACTAAGAT-CCGAAGGCA
* *
16398365 TTTGTGCGAGTTACTATA
64 TTTGTGCAAGATACTATA
* *
16398383 ACCGGGCTATGTCCCGAAGGCATTTG
1 TCCGGGCTAAGTCCCGAAGGCATTTG
16398409 AACGAGTAGC
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:0.27, T:0.25
Consensus pattern (81 bp):
TCCGGGCTAAGTCCCGAAGGCATTTGTGCTAAGTGACCAAATCCGGACTAAGATCCGAAGGCATT
TGTGCAAGATACTATA
Found at i:16398415 original size:40 final size:40
Alignment explanation
Indices: 16398224--16398408 Score: 225
Period size: 40 Copynumber: 4.7 Consensus size: 40
16398214 TTGAATGATG
* * * *
16398224 TCCGGGCTAAGTCCCGAAGGC-TTTGTGCTAAGTGACCATA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGC-GAGTTACTAAA
* * * *
16398264 TCCGGACTAAGAT-CCGAAGGCATTTGTGCAAGATACTAAT
1 TCCGGGCTAAG-TCCCGAAGGCATTTGTGCGAGTTACTAAA
16398304 TCCGGGCTAAG-CCCGAAGGCATTTGTGCGAGTTACTAAA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAA
*
16398343 TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTA-AA
*
16398384 -CCGGGCTATGTCCCGAAGGCATTTG
1 TCCGGGCTAAGTCCCGAAGGCATTTG
16398409 AACGAGTAGC
Statistics
Matches: 127, Mismatches: 13, Indels: 10
0.85 0.09 0.07
Matches are distributed among these distances:
39 34 0.27
40 83 0.65
41 10 0.08
ACGTcount: A:0.25, C:0.23, G:0.27, T:0.25
Consensus pattern (40 bp):
TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAA
Found at i:16398430 original size:79 final size:79
Alignment explanation
Indices: 16398277--16398441 Score: 201
Period size: 79 Copynumber: 2.1 Consensus size: 79
16398267 GGACTAAGAT
* **
16398277 CCGAAGGCATTTGTGCAAGATACTAATTCCGGGCTAAGCCCGAAGGCATTTGTGCGAGTTACTAA
1 CCGAAGGCATTTGTGCAAGATACTAATACCGGGCTAAGCCCGAAGGCATTTGAACGAGTTACTAA
*
16398342 ATCCGGGTTAAGTC
66 ATCCGGGTTAAATC
* * *
16398356 CCGAAGGCATTTGTGCGAGTTACT-ATAACCGGGCTATGTCCCGAAGGCATTTGAACGAG-TAGC
1 CCGAAGGCATTTGTGCAAGATACTAAT-ACCGGGCTAAG-CCCGAAGGCATTTGAACGAGTTA-C
* *
16398419 TATATCC-GGTTAAATT
63 TAAATCCGGGTTAAATC
16398435 CCGAAGG
1 CCGAAGG
16398442 TACGTGATTT
Statistics
Matches: 74, Mismatches: 9, Indels: 6
0.83 0.10 0.07
Matches are distributed among these distances:
78 2 0.03
79 47 0.64
80 25 0.34
ACGTcount: A:0.27, C:0.21, G:0.27, T:0.25
Consensus pattern (79 bp):
CCGAAGGCATTTGTGCAAGATACTAATACCGGGCTAAGCCCGAAGGCATTTGAACGAGTTACTAA
ATCCGGGTTAAATC
Found at i:16401377 original size:26 final size:26
Alignment explanation
Indices: 16401346--16401453 Score: 189
Period size: 26 Copynumber: 4.2 Consensus size: 26
16401336 TGAAATGCCC
*
16401346 ATCATGGAACATTTACCTAAACCATT
1 ATCATGGAACATTTACCTAACCCATT
16401372 ATCATGGAACATTTACCTAACCCATT
1 ATCATGGAACATTTACCTAACCCATT
* *
16401398 ATCATGGAATATTTACCTAATCCATT
1 ATCATGGAACATTTACCTAACCCATT
16401424 ATCATGGAACATTTACCTAACCCATT
1 ATCATGGAACATTTACCTAACCCATT
16401450 ATCA
1 ATCA
16401454 ATTTGTATCA
Statistics
Matches: 77, Mismatches: 5, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
26 77 1.00
ACGTcount: A:0.36, C:0.24, G:0.07, T:0.32
Consensus pattern (26 bp):
ATCATGGAACATTTACCTAACCCATT
Found at i:16409036 original size:79 final size:81
Alignment explanation
Indices: 16408900--16409084 Score: 227
Period size: 79 Copynumber: 2.3 Consensus size: 81
16408890 TTGAATGATG
*
16408900 TCCGGGCTAAGTCCCGAAGGC-TTTGTGCTAAGTGACCATATCCGGACTAAGATCCGAAGGCATT
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCTAAGTGACCAAATCCGGACTAAGATCCGAAGGCATT
16408964 TGTGCAAGATACTA-A
66 TGTGCAAGATACTATA
* * * **
16408979 TTCCGGGCTAAG-CCCGAAGGCATTTGTGC-GAGTTACTAAATCCGGGTTAAG-TCCCGAAGGCA
1 -TCCGGGCTAAGTCCCGAAGGCATTTGTGCTAAGTGACCAAATCCGGACTAAGAT-CCGAAGGCA
* *
16409041 TTTGTGCGAGTTACTATA
64 TTTGTGCAAGATACTATA
* *
16409059 ACCGGGCTATGTCCCGAAGGCATTTG
1 TCCGGGCTAAGTCCCGAAGGCATTTG
16409085 AACGAGTAGC
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:0.27, T:0.25
Consensus pattern (81 bp):
TCCGGGCTAAGTCCCGAAGGCATTTGTGCTAAGTGACCAAATCCGGACTAAGATCCGAAGGCATT
TGTGCAAGATACTATA
Found at i:16409091 original size:40 final size:40
Alignment explanation
Indices: 16408900--16409084 Score: 225
Period size: 40 Copynumber: 4.7 Consensus size: 40
16408890 TTGAATGATG
* * * *
16408900 TCCGGGCTAAGTCCCGAAGGC-TTTGTGCTAAGTGACCATA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGC-GAGTTACTAAA
* * * *
16408940 TCCGGACTAAGAT-CCGAAGGCATTTGTGCAAGATACTAAT
1 TCCGGGCTAAG-TCCCGAAGGCATTTGTGCGAGTTACTAAA
16408980 TCCGGGCTAAG-CCCGAAGGCATTTGTGCGAGTTACTAAA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAA
*
16409019 TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTA-AA
*
16409060 -CCGGGCTATGTCCCGAAGGCATTTG
1 TCCGGGCTAAGTCCCGAAGGCATTTG
16409085 AACGAGTAGC
Statistics
Matches: 127, Mismatches: 13, Indels: 10
0.85 0.09 0.07
Matches are distributed among these distances:
39 34 0.27
40 83 0.65
41 10 0.08
ACGTcount: A:0.25, C:0.23, G:0.27, T:0.25
Consensus pattern (40 bp):
TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAA
Found at i:16409106 original size:79 final size:79
Alignment explanation
Indices: 16408953--16409117 Score: 201
Period size: 79 Copynumber: 2.1 Consensus size: 79
16408943 GGACTAAGAT
* **
16408953 CCGAAGGCATTTGTGCAAGATACTAATTCCGGGCTAAGCCCGAAGGCATTTGTGCGAGTTACTAA
1 CCGAAGGCATTTGTGCAAGATACTAATACCGGGCTAAGCCCGAAGGCATTTGAACGAGTTACTAA
*
16409018 ATCCGGGTTAAGTC
66 ATCCGGGTTAAATC
* * *
16409032 CCGAAGGCATTTGTGCGAGTTACT-ATAACCGGGCTATGTCCCGAAGGCATTTGAACGAG-TAGC
1 CCGAAGGCATTTGTGCAAGATACTAAT-ACCGGGCTAAG-CCCGAAGGCATTTGAACGAGTTA-C
* *
16409095 TATATCC-GGTTAAATT
63 TAAATCCGGGTTAAATC
16409111 CCGAAGG
1 CCGAAGG
16409118 TACGTGATTT
Statistics
Matches: 74, Mismatches: 9, Indels: 6
0.83 0.10 0.07
Matches are distributed among these distances:
78 2 0.03
79 47 0.64
80 25 0.34
ACGTcount: A:0.27, C:0.21, G:0.27, T:0.25
Consensus pattern (79 bp):
CCGAAGGCATTTGTGCAAGATACTAATACCGGGCTAAGCCCGAAGGCATTTGAACGAGTTACTAA
ATCCGGGTTAAATC
Found at i:16411924 original size:26 final size:26
Alignment explanation
Indices: 16411894--16411975 Score: 146
Period size: 26 Copynumber: 3.2 Consensus size: 26
16411884 TGAAATGCCC
16411894 ATCATGGAACATTTACCTAACCCATT
1 ATCATGGAACATTTACCTAACCCATT
* *
16411920 ATCATGGAATATTTACCTAATCCATT
1 ATCATGGAACATTTACCTAACCCATT
16411946 ATCATGGAACATTTACCTAACCCATT
1 ATCATGGAACATTTACCTAACCCATT
16411972 ATCA
1 ATCA
16411976 ATTTGTATCA
Statistics
Matches: 52, Mismatches: 4, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
26 52 1.00
ACGTcount: A:0.35, C:0.24, G:0.07, T:0.33
Consensus pattern (26 bp):
ATCATGGAACATTTACCTAACCCATT
Found at i:16413551 original size:27 final size:27
Alignment explanation
Indices: 16413511--16413623 Score: 133
Period size: 27 Copynumber: 4.2 Consensus size: 27
16413501 AGGAAGCATC
*
16413511 CTGGTGGCTATGCCACAATTATCTGAT
1 CTGGTGGCTCTGCCACAATTATCTGAT
16413538 CTGGTGGCTCTGCCACATATT-TCT-ATT
1 CTGGTGGCTCTGCCACA-ATTATCTGA-T
*
16413565 CTGGTGGCTCTGCCACGATTATCTGTAT
1 CTGGTGGCTCTGCCACAATTATCTG-AT
* * *
16413593 CTGGTGACTCTGTCAC-ATTATCTGTT
1 CTGGTGGCTCTGCCACAATTATCTGAT
16413619 CTGGT
1 CTGGT
16413624 AGCCATGCTG
Statistics
Matches: 76, Mismatches: 5, Indels: 11
0.83 0.05 0.12
Matches are distributed among these distances:
26 10 0.13
27 47 0.62
28 18 0.24
29 1 0.01
ACGTcount: A:0.16, C:0.24, G:0.22, T:0.38
Consensus pattern (27 bp):
CTGGTGGCTCTGCCACAATTATCTGAT
Found at i:16413621 original size:54 final size:54
Alignment explanation
Indices: 16413511--16413623 Score: 156
Period size: 54 Copynumber: 2.1 Consensus size: 54
16413501 AGGAAGCATC
* *
16413511 CTGGTGGCTATGCCACAATTATCTGATCTGGTGGCTCTGCCACATATTTCTATT
1 CTGGTGGCTATGCCACAATTATCTGATCTGGTGACTCTGCCACATATATCTATT
* * * *
16413565 CTGGTGGCTCTGCCACGATTATCTGTATCTGGTGACTCTGTCACAT-TATCTGTT
1 CTGGTGGCTATGCCACAATTATCTG-ATCTGGTGACTCTGCCACATATATCTATT
16413619 CTGGT
1 CTGGT
16413624 AGCCATGCTG
Statistics
Matches: 52, Mismatches: 6, Indels: 2
0.87 0.10 0.03
Matches are distributed among these distances:
54 34 0.65
55 18 0.35
ACGTcount: A:0.16, C:0.24, G:0.22, T:0.38
Consensus pattern (54 bp):
CTGGTGGCTATGCCACAATTATCTGATCTGGTGACTCTGCCACATATATCTATT
Found at i:16415922 original size:22 final size:22
Alignment explanation
Indices: 16415894--16415939 Score: 83
Period size: 22 Copynumber: 2.1 Consensus size: 22
16415884 CGATGCGGAT
16415894 CTATGGAGCATAGAGTTAAAGA
1 CTATGGAGCATAGAGTTAAAGA
*
16415916 CTATGGAGCATAGAGTTAAGGA
1 CTATGGAGCATAGAGTTAAAGA
16415938 CT
1 CT
16415940 GCCCACAGAG
Statistics
Matches: 23, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
22 23 1.00
ACGTcount: A:0.37, C:0.11, G:0.28, T:0.24
Consensus pattern (22 bp):
CTATGGAGCATAGAGTTAAAGA
Found at i:16419947 original size:24 final size:24
Alignment explanation
Indices: 16419914--16419987 Score: 121
Period size: 24 Copynumber: 3.1 Consensus size: 24
16419904 AAGTCTGTCT
*
16419914 GGAGAAGATTTAGGAGCTGATAAG
1 GGAGAGGATTTAGGAGCTGATAAG
*
16419938 GGAGAGGATTTAGGAGCTGATCAG
1 GGAGAGGATTTAGGAGCTGATAAG
*
16419962 GGAGAGGATTTAGGAGCTGATTAG
1 GGAGAGGATTTAGGAGCTGATAAG
16419986 GG
1 GG
16419988 TGAACTGTGT
Statistics
Matches: 47, Mismatches: 3, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
24 47 1.00
ACGTcount: A:0.31, C:0.05, G:0.42, T:0.22
Consensus pattern (24 bp):
GGAGAGGATTTAGGAGCTGATAAG
Found at i:16421445 original size:38 final size:38
Alignment explanation
Indices: 16421394--16421469 Score: 143
Period size: 38 Copynumber: 2.0 Consensus size: 38
16421384 TTCATCCTTT
*
16421394 TTCATTTCTTTTGGCCGACAATTCTAAGGAAGGAGGAA
1 TTCATTTCTTTTGGCCGAAAATTCTAAGGAAGGAGGAA
16421432 TTCATTTCTTTTGGCCGAAAATTCTAAGGAAGGAGGAA
1 TTCATTTCTTTTGGCCGAAAATTCTAAGGAAGGAGGAA
16421470 GGAGTTCTTG
Statistics
Matches: 37, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
38 37 1.00
ACGTcount: A:0.30, C:0.14, G:0.24, T:0.32
Consensus pattern (38 bp):
TTCATTTCTTTTGGCCGAAAATTCTAAGGAAGGAGGAA
Found at i:16422752 original size:40 final size:39
Alignment explanation
Indices: 16422658--16422792 Score: 162
Period size: 40 Copynumber: 3.4 Consensus size: 39
16422648 TACTCGAATG
*
16422658 ATATCCGGGCTAAGTCTCGAAGGCTTTTGTGCTAAGCGACT
1 ATATCCGGGCTAAGTC-CGAAGGCATTTGTGCT-AGCGACT
* * *
16422699 ACATCTGGACTAAGATCCGAAGGCATTTGTGCTAGCGACT
1 ATATCCGGGCTAAG-TCCGAAGGCATTTGTGCTAGCGACT
* * *
16422739 ATATCCGGGCTAAGTCCCGAAGGCATTTATGCTAGTGACC
1 ATATCCGGGCTAAGT-CCGAAGGCATTTGTGCTAGCGACT
*
16422779 ATATCCGGGTTAAG
1 ATATCCGGGCTAAG
16422793 ACCCAAAGGC
Statistics
Matches: 81, Mismatches: 11, Indels: 5
0.84 0.11 0.05
Matches are distributed among these distances:
39 1 0.01
40 52 0.64
41 26 0.32
42 2 0.02
ACGTcount: A:0.25, C:0.22, G:0.26, T:0.27
Consensus pattern (39 bp):
ATATCCGGGCTAAGTCCGAAGGCATTTGTGCTAGCGACT
Found at i:16426067 original size:62 final size:62
Alignment explanation
Indices: 16425970--16426093 Score: 203
Period size: 62 Copynumber: 2.0 Consensus size: 62
16425960 GCCATTTGAT
*
16425970 GAATTTGATGTTATTCTTGGTTTGGATTGGCTGACCGCGCATGATTCAGTTGTGAACTGCAA
1 GAATTTGATGTTATTCTTGGTTTGGATTGGCTGACCGCGCATGATGCAGTTGTGAACTGCAA
* * * *
16426032 GAATTTGATGTTATTCTTGGTTTGGATTGGTTGACCGTGCATGATGCGGTTGTGAATTGCAA
1 GAATTTGATGTTATTCTTGGTTTGGATTGGCTGACCGCGCATGATGCAGTTGTGAACTGCAA
16426094 AAGCAAGACT
Statistics
Matches: 57, Mismatches: 5, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
62 57 1.00
ACGTcount: A:0.20, C:0.12, G:0.29, T:0.39
Consensus pattern (62 bp):
GAATTTGATGTTATTCTTGGTTTGGATTGGCTGACCGCGCATGATGCAGTTGTGAACTGCAA
Found at i:16433585 original size:30 final size:29
Alignment explanation
Indices: 16433527--16433586 Score: 84
Period size: 29 Copynumber: 2.0 Consensus size: 29
16433517 TTCCCGAGCC
*
16433527 TAGGGGAAAAAGTGTAATTATGCAAAGTT
1 TAGGGGAAAAAGTGTAATTATCCAAAGTT
* *
16433556 TAGGGGCAAAAGTGTAATTTTTCCAAAGTT
1 TAGGGGAAAAAGTGTAA-TTATCCAAAGTT
16433586 T
1 T
16433587 GTATTAAATG
Statistics
Matches: 27, Mismatches: 3, Indels: 1
0.87 0.10 0.03
Matches are distributed among these distances:
29 16 0.59
30 11 0.41
ACGTcount: A:0.37, C:0.07, G:0.25, T:0.32
Consensus pattern (29 bp):
TAGGGGAAAAAGTGTAATTATCCAAAGTT
Found at i:16434062 original size:46 final size:46
Alignment explanation
Indices: 16434012--16434184 Score: 201
Period size: 46 Copynumber: 3.7 Consensus size: 46
16434002 TGGTTGAGCA
*
16434012 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAATG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAACG
* * * * *
16434058 TCCGAACTCGTTGAGTTGAGTCCGAGTTC-GTGA--AATGTAACTAGGCA
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAA--A--CG
*
16434105 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAACG
*
16434151 -CCCAAGCTCGTTGAGTTGAGTCCGAGTTCACTTA
1 TCCGAA-CTCGTTGAGTTGAGTCCGAGTTCACTTA
16434185 GGGGCGGGTT
Statistics
Matches: 106, Mismatches: 13, Indels: 16
0.79 0.10 0.12
Matches are distributed among these distances:
43 5 0.05
45 7 0.07
46 58 0.55
47 29 0.27
48 3 0.03
50 4 0.04
ACGTcount: A:0.23, C:0.21, G:0.27, T:0.29
Consensus pattern (46 bp):
TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAACG
Found at i:16434168 original size:93 final size:93
Alignment explanation
Indices: 16434009--16434179 Score: 299
Period size: 93 Copynumber: 1.8 Consensus size: 93
16433999 GGATGGTTGA
* *
16434009 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAATGTCCGAACTCGTTGAGT
1 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAACGTCCCAACTCGTTGAGT
16434074 TGAGTCCGAGTTCGTGAAATGTAACTAG
66 TGAGTCCGAGTTCGTGAAATGTAACTAG
*
16434102 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACG-CCCAAGCTCGTTGAG
1 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAACGTCCCAA-CTCGTTGAG
16434166 TTGAGTCCGAGTTC
65 TTGAGTCCGAGTTC
16434180 ACTTAGGGGC
Statistics
Matches: 74, Mismatches: 3, Indels: 2
0.94 0.04 0.03
Matches are distributed among these distances:
92 4 0.05
93 70 0.95
ACGTcount: A:0.23, C:0.22, G:0.27, T:0.28
Consensus pattern (93 bp):
GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAACGTCCCAACTCGTTGAGT
TGAGTCCGAGTTCGTGAAATGTAACTAG
Found at i:16435663 original size:31 final size:31
Alignment explanation
Indices: 16435625--16435684 Score: 102
Period size: 31 Copynumber: 1.9 Consensus size: 31
16435615 TTCATATTTC
16435625 ATATTTCATAACACTGGGCCGAAGCCTTTTT
1 ATATTTCATAACACTGGGCCGAAGCCTTTTT
**
16435656 ATATTTCATATTACTGGGCCGAAGCCTTT
1 ATATTTCATAACACTGGGCCGAAGCCTTT
16435685 ATTGTAAACG
Statistics
Matches: 27, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
31 27 1.00
ACGTcount: A:0.25, C:0.22, G:0.17, T:0.37
Consensus pattern (31 bp):
ATATTTCATAACACTGGGCCGAAGCCTTTTT
Found at i:16435950 original size:26 final size:26
Alignment explanation
Indices: 16435905--16435976 Score: 128
Period size: 26 Copynumber: 2.8 Consensus size: 26
16435895 CTCTTTTAAT
16435905 AACTGGGGCA-AAGCCCTTTTCGATA
1 AACTGGGGCATAAGCCCTTTTCGATA
*
16435930 AACTGGGGCATAAGCCCTTTTCGGTA
1 AACTGGGGCATAAGCCCTTTTCGATA
16435956 AACTGGGGCATAAGCCCTTTT
1 AACTGGGGCATAAGCCCTTTT
16435977 GCACTTCCTC
Statistics
Matches: 45, Mismatches: 1, Indels: 1
0.96 0.02 0.02
Matches are distributed among these distances:
25 10 0.22
26 35 0.78
ACGTcount: A:0.25, C:0.24, G:0.25, T:0.26
Consensus pattern (26 bp):
AACTGGGGCATAAGCCCTTTTCGATA
Found at i:16436900 original size:27 final size:27
Alignment explanation
Indices: 16436870--16437067 Score: 159
Period size: 27 Copynumber: 7.3 Consensus size: 27
16436860 GTAAATCTAC
*
16436870 AAACTAAGGGTATTTCAGTAATTTTGT
1 AAACTAAGGGTATTTTAGTAATTTTGT
* *
16436897 AAACCAATGGTATTTCTA-TAATTTT-T
1 AAACTAAGGGTATTT-TAGTAATTTTGT
* * *
16436923 AGAAAGTCAAGGGTATTTTTGTAACTTTGT
1 --AAACT-AAGGGTATTTTAGTAATTTTGT
* * *
16436953 AAA-TCAGGGGTATTTTGGTAATTTTAT
1 AAACT-AAGGGTATTTTAGTAATTTTGT
* **
16436980 AAACAAAGGGTATTTTAGTAATTTTAC
1 AAACTAAGGGTATTTTAGTAATTTTGT
*** *
16437007 AAACCGGGGGTATTTTGGTAATTTTGT
1 AAACTAAGGGTATTTTAGTAATTTTGT
* * *
16437034 AAACCAAGGGTATTTTGGTAATTTGGT
1 AAACTAAGGGTATTTTAGTAATTTTGT
16437061 AAACTAA
1 AAACTAA
16437068 AGTATTCTAA
Statistics
Matches: 138, Mismatches: 26, Indels: 14
0.78 0.15 0.08
Matches are distributed among these distances:
26 1 0.01
27 113 0.82
28 8 0.06
29 15 0.11
30 1 0.01
ACGTcount: A:0.33, C:0.08, G:0.20, T:0.40
Consensus pattern (27 bp):
AAACTAAGGGTATTTTAGTAATTTTGT
Found at i:16437017 original size:54 final size:54
Alignment explanation
Indices: 16436850--16437057 Score: 177
Period size: 54 Copynumber: 3.8 Consensus size: 54
16436840 CATTCTACAA
* * * * * * ** *
16436850 GGGTGTTTTGGTAAATCTACAAACTAAGGGTATTTCAGTAATTTTGTAAACCAA
1 GGGTATTTTGGTAATTTTATAAACAAAGGGTATTTTAGTAATTTTACAAACCAG
* * * * * ** *
16436904 TGGTATTTCT-ATAATTTTTAGAAAGTC-AAGGGTATTTTTGTAACTTTGTAAATCAG
1 GGGTATTT-TGGTAA-TTTTATAAA--CAAAGGGTATTTTAGTAATTTTACAAACCAG
*
16436960 GGGTATTTTGGTAATTTTATAAACAAAGGGTATTTTAGTAATTTTACAAACCGG
1 GGGTATTTTGGTAATTTTATAAACAAAGGGTATTTTAGTAATTTTACAAACCAG
* * *
16437014 GGGTATTTTGGTAATTTTGTAAACCAAGGGTATTTTGGTAATTT
1 GGGTATTTTGGTAATTTTATAAACAAAGGGTATTTTAGTAATTT
16437058 GGTAAACTAA
Statistics
Matches: 125, Mismatches: 23, Indels: 12
0.78 0.14 0.08
Matches are distributed among these distances:
53 1 0.01
54 73 0.58
55 16 0.13
56 34 0.27
57 1 0.01
ACGTcount: A:0.31, C:0.08, G:0.21, T:0.41
Consensus pattern (54 bp):
GGGTATTTTGGTAATTTTATAAACAAAGGGTATTTTAGTAATTTTACAAACCAG
Found at i:16437064 original size:81 final size:83
Alignment explanation
Indices: 16436847--16437069 Score: 227
Period size: 83 Copynumber: 2.7 Consensus size: 83
16436837 TTTCATTCTA
* * * ** * ** * *
16436847 CAAGGGTGTTTTGGTAAATCTACAAACTAAGGGTATTTCAGTAATTTTGTAAACCAATGGTATTT
1 CAAGGGTATTTTGGTAACTTTGTAAACCAAGGGTATTTTGGTAATTTTGTAAACAAAGGGTATTT
* *
16436912 CTATAATTTTTAGAAAGT
66 CTATAATTTTTACAAAGC
* * * *
16436930 CAAGGGTATTTTTGTAACTTTGTAAATCAGGGGTATTTTGGTAATTTTATAAACAAAGGGTATTT
1 CAAGGGTATTTTGGTAACTTTGTAAACCAAGGGTATTTTGGTAATTTTGTAAACAAAGGGTATTT
16436995 -TAGTAA-TTTTACAAA-C
66 CTA-TAATTTTTACAAAGC
** * *
16437011 CGGGGGTATTTTGGTAATTTTGTAAACCAAGGGTATTTTGGTAATTTGGTAAACTAAAG
1 CAAGGGTATTTTGGTAACTTTGTAAACCAAGGGTATTTTGGTAATTTTGTAAAC-AAAG
16437070 TATTCTAAAC
Statistics
Matches: 114, Mismatches: 24, Indels: 5
0.80 0.17 0.03
Matches are distributed among these distances:
81 46 0.40
82 14 0.12
83 54 0.47
ACGTcount: A:0.32, C:0.08, G:0.21, T:0.39
Consensus pattern (83 bp):
CAAGGGTATTTTGGTAACTTTGTAAACCAAGGGTATTTTGGTAATTTTGTAAACAAAGGGTATTT
CTATAATTTTTACAAAGC
Found at i:16438151 original size:28 final size:26
Alignment explanation
Indices: 16438084--16438169 Score: 118
Period size: 27 Copynumber: 3.2 Consensus size: 26
16438074 GTGTTACAGA
*
16438084 TCTGGTGGCTCTGCCACATATTTCTGT
1 TCTGGTGGCTCTGCCACAT-TATCTGT
16438111 TCTGGTGGCTCTGCCACGATTATCTGT
1 TCTGGTGGCTCTGCCAC-ATTATCTGT
* *
16438138 ATCTGGTGACTCTGTCACATTATCTGT
1 -TCTGGTGGCTCTGCCACATTATCTGT
16438165 TCTGG
1 TCTGG
16438170 CAGCCATGCT
Statistics
Matches: 54, Mismatches: 3, Indels: 5
0.87 0.05 0.08
Matches are distributed among these distances:
26 5 0.09
27 32 0.59
28 17 0.31
ACGTcount: A:0.13, C:0.24, G:0.23, T:0.40
Consensus pattern (26 bp):
TCTGGTGGCTCTGCCACATTATCTGT
Found at i:16439973 original size:45 final size:45
Alignment explanation
Indices: 16439907--16440080 Score: 205
Period size: 45 Copynumber: 3.9 Consensus size: 45
16439897 TATTGTACGG
* *
16439907 TACTATTTGGGCCTTTGAGCCTAGCAGGCTATAATACCGGTGAGA
1 TACTATTCGGGCCTTTGAGCCTAGCAGGCTATAATGCCGGTGAGA
* * *
16439952 TACTATTCGGGCCTTTAAGCCTAGCAGGTTATAATGTCGGTGAGA
1 TACTATTCGGGCCTTTGAGCCTAGCAGGCTATAATGCCGGTGAGA
* * *
16439997 TACTATTCGGGCCTTCGAGCCTAGTAGGCTATAATGCCGGTGAAA
1 TACTATTCGGGCCTTTGAGCCTAGCAGGCTATAATGCCGGTGAGA
* *
16440042 TGA--AATCGGG-CTTTGACCCTAGCAGG-TGA-AATGCCGGTG
1 T-ACTATTCGGGCCTTTGAGCCTAGCAGGCT-ATAATGCCGGTG
16440081 GATGAATTCG
Statistics
Matches: 112, Mismatches: 15, Indels: 7
0.84 0.11 0.05
Matches are distributed among these distances:
42 11 0.10
43 14 0.12
44 6 0.05
45 80 0.71
46 1 0.01
ACGTcount: A:0.24, C:0.20, G:0.28, T:0.28
Consensus pattern (45 bp):
TACTATTCGGGCCTTTGAGCCTAGCAGGCTATAATGCCGGTGAGA
Found at i:16442046 original size:91 final size:92
Alignment explanation
Indices: 16441883--16442057 Score: 300
Period size: 91 Copynumber: 1.9 Consensus size: 92
16441873 GTAAATTTTC
16441883 CCTGAAACTAGACTCATATATCCATCTACAGATTTTTTTTCTAGAATTTTTGGTTGCGCCAATTA
1 CCTGAAACTAGACTCATATATCCATCTACAGATTTTTTTTCTAGAATTTTTGGTTGCGCCAATTA
16441948 GTACAGTTTATTAGTTAAATTCTATCA
66 GTACAGTTTATTAGTTAAATTCTATCA
* *
16441975 CCTGAAGCTAGACTCATATATCCATCTACATA-TTTTTTTCTAGAATTTTTGGTTTG-GCCAATT
1 CCTGAAACTAGACTCATATATCCATCTACAGATTTTTTTTCTAGAATTTTTGG-TTGCGCCAATT
*
16442038 AGTGCAGTTTATTAGTTAAA
65 AGTACAGTTTATTAGTTAAA
16442058 GTCTCCCCTG
Statistics
Matches: 79, Mismatches: 3, Indels: 3
0.93 0.04 0.04
Matches are distributed among these distances:
91 46 0.58
92 33 0.42
ACGTcount: A:0.29, C:0.17, G:0.13, T:0.42
Consensus pattern (92 bp):
CCTGAAACTAGACTCATATATCCATCTACAGATTTTTTTTCTAGAATTTTTGGTTGCGCCAATTA
GTACAGTTTATTAGTTAAATTCTATCA
Found at i:16442369 original size:53 final size:53
Alignment explanation
Indices: 16442312--16442417 Score: 203
Period size: 53 Copynumber: 2.0 Consensus size: 53
16442302 AATACGGCTC
16442312 ATATGGTCGTTTCGCTTCTTCCATATGAAAATAAACTCATCAAGGTTCAATTA
1 ATATGGTCGTTTCGCTTCTTCCATATGAAAATAAACTCATCAAGGTTCAATTA
*
16442365 ATATGGTCGTTTCGCTTCTTCCATATGAAAATAAACTCATCAAGGTTCGATTA
1 ATATGGTCGTTTCGCTTCTTCCATATGAAAATAAACTCATCAAGGTTCAATTA
16442418 CATAATTTAT
Statistics
Matches: 52, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
53 52 1.00
ACGTcount: A:0.31, C:0.19, G:0.14, T:0.36
Consensus pattern (53 bp):
ATATGGTCGTTTCGCTTCTTCCATATGAAAATAAACTCATCAAGGTTCAATTA
Found at i:16443276 original size:40 final size:39
Alignment explanation
Indices: 16443202--16443466 Score: 334
Period size: 40 Copynumber: 6.6 Consensus size: 39
16443192 AACCCAAGTA
* *
16443202 CCTTCGGGATTTAG-CCGGATATAGCAACTCGCACAAATG
1 CCTTCGGGACTTAGCCCGGATATAGC-ACTAGCACAAATG
* *
16443241 CCTTCGGGTCTTAGCCCGGATGTAGTCACTAGCACAAATG
1 CCTTCGGGACTTAGCCCGGATATAG-CACTAGCACAAATG
*
16443281 CCTTCGGGACTTAGCCCGGGTATAGCAACTACTCGCACAAATG
1 CCTTCGGGACTTAGCCCGGATATAGC-ACTA---GCACAAATG
*
16443324 CCTTCGGGACTTCGCCCGGATATAGTCACTAGCACAAATG
1 CCTTCGGGACTTAGCCCGGATATAG-CACTAGCACAAATG
* *
16443364 CCTTCGGGACTTAGCCCGGATATAGGAACTCGCACAAATG
1 CCTTCGGGACTTAGCCCGGATATA-GCACTAGCACAAATG
* * *
16443404 CCTTCGGGACTTAGCCCGGATGTAGGAACTCGCACAAATG
1 CCTTCGGGACTTAGCCCGGATATA-GCACTAGCACAAATG
*
16443444 CCTTCAGGACTTAGCCCGGATAT
1 CCTTCGGGACTTAGCCCGGATAT
16443467 CATCCGAATA
Statistics
Matches: 203, Mismatches: 15, Indels: 15
0.87 0.06 0.06
Matches are distributed among these distances:
39 13 0.06
40 151 0.74
41 2 0.01
43 36 0.18
44 1 0.00
ACGTcount: A:0.25, C:0.28, G:0.24, T:0.22
Consensus pattern (39 bp):
CCTTCGGGACTTAGCCCGGATATAGCACTAGCACAAATG
Found at i:16446024 original size:80 final size:80
Alignment explanation
Indices: 16445891--16446052 Score: 279
Period size: 80 Copynumber: 2.0 Consensus size: 80
16445881 AAATAGATGG
* *
16445891 AAAACTTGTTATTGTATGCTTAGATTTAATAAACGAGATTGGTAAATTTAGTTTCTGTTATACGA
1 AAAACTTGTTATTGTATGCTTAGATTTAATAAACGAGATTAGTAAATTTAGTTTCCGTTATACGA
*
16445956 ACTTACTAAGCATGT
66 ACTTACGAAGCATGT
*
16445971 AAAACTTGTTATTGTATGCTTAGATTTAATAAACGGGATTAGTAAATTTAGTTTCCGTTATACGA
1 AAAACTTGTTATTGTATGCTTAGATTTAATAAACGAGATTAGTAAATTTAGTTTCCGTTATACGA
*
16446036 ACTTACGAAGCTTGT
66 ACTTACGAAGCATGT
16446051 AA
1 AA
16446053 TTCCCACTCC
Statistics
Matches: 77, Mismatches: 5, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
80 77 1.00
ACGTcount: A:0.34, C:0.10, G:0.17, T:0.39
Consensus pattern (80 bp):
AAAACTTGTTATTGTATGCTTAGATTTAATAAACGAGATTAGTAAATTTAGTTTCCGTTATACGA
ACTTACGAAGCATGT
Found at i:16447300 original size:28 final size:29
Alignment explanation
Indices: 16447260--16447339 Score: 117
Period size: 28 Copynumber: 2.8 Consensus size: 29
16447250 GCCAGAAATG
* * *
16447260 TCCAACCAAAACACACCAGTATCATATAA
1 TCCATCCAAAACACACCAGAATAATATAA
*
16447289 TCC-TCCCAAACACACCAGAATAATATAA
1 TCCATCCAAAACACACCAGAATAATATAA
16447317 TCCATCCAAAACACACCAGAATA
1 TCCATCCAAAACACACCAGAATA
16447340 GCATAGAGTG
Statistics
Matches: 45, Mismatches: 5, Indels: 2
0.87 0.10 0.04
Matches are distributed among these distances:
28 24 0.53
29 21 0.47
ACGTcount: A:0.47, C:0.33, G:0.04, T:0.16
Consensus pattern (29 bp):
TCCATCCAAAACACACCAGAATAATATAA
Found at i:16447520 original size:17 final size:17
Alignment explanation
Indices: 16447498--16447530 Score: 57
Period size: 17 Copynumber: 1.9 Consensus size: 17
16447488 TTTTTTTATT
*
16447498 TCAATTTCATTTCCATG
1 TCAATTTCAATTCCATG
16447515 TCAATTTCAATTCCAT
1 TCAATTTCAATTCCAT
16447531 TTCAGTATAC
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
17 15 1.00
ACGTcount: A:0.27, C:0.24, G:0.03, T:0.45
Consensus pattern (17 bp):
TCAATTTCAATTCCATG
Found at i:16447890 original size:14 final size:14
Alignment explanation
Indices: 16447871--16447897 Score: 54
Period size: 14 Copynumber: 1.9 Consensus size: 14
16447861 CTCTGTTTCT
16447871 TTTTGTTTCTTTTG
1 TTTTGTTTCTTTTG
16447885 TTTTGTTTCTTTT
1 TTTTGTTTCTTTT
16447898 TATTTTCTAT
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 13 1.00
ACGTcount: A:0.00, C:0.07, G:0.11, T:0.81
Consensus pattern (14 bp):
TTTTGTTTCTTTTG
Found at i:16471790 original size:103 final size:103
Alignment explanation
Indices: 16471606--16471802 Score: 270
Period size: 103 Copynumber: 1.9 Consensus size: 103
16471596 GATGGCCAGG
* *
16471606 TAGGCCATGTGACCCACACGACCAAGGCCAATTTGGGCCGTATGGGCCACACGGGCTTGTGAGCC
1 TAGGCCATGTGACCCACACGACCAAAGCCAATTTGGGCCGTATGGGCCACACGGGCGTGTGAGCC
* *
16471671 CACACGGGTAGTCCACACGGGCGTATGGGATTCTGGGC
66 CACACGGGCAGGCCACACGGGCGTATGGGATTCTGGGC
* * * * * *
16471709 TAGGCCGTGTGATCCATACGGCCAAAGCCAATTTGGGTCGTGTGGGCCACACGGGCGTGTG-GCC
1 TAGGCCATGTGACCCACACGACCAAAGCCAATTTGGGCCGTATGGGCCACACGGGCGTGTGAG-C
* *
16471773 CCACACGGGCAGGCCACATGGGCGTGTGGG
65 CCACACGGGCAGGCCACACGGGCGTATGGG
16471803 CCCATGTTTT
Statistics
Matches: 81, Mismatches: 12, Indels: 2
0.85 0.13 0.02
Matches are distributed among these distances:
102 1 0.01
103 80 0.99
ACGTcount: A:0.19, C:0.28, G:0.36, T:0.17
Consensus pattern (103 bp):
TAGGCCATGTGACCCACACGACCAAAGCCAATTTGGGCCGTATGGGCCACACGGGCGTGTGAGCC
CACACGGGCAGGCCACACGGGCGTATGGGATTCTGGGC
Found at i:16474641 original size:38 final size:38
Alignment explanation
Indices: 16474590--16474670 Score: 99
Period size: 38 Copynumber: 2.1 Consensus size: 38
16474580 GACAAATATA
* * * *
16474590 AAAAACCATAATTAATCCTAGTGACAATGGGTCAAAAC
1 AAAAACCACAATTAACCCCAATGACAATGGGTCAAAAC
* * *
16474628 AAAAACCACAATTAACCCCAATGACAATTGGTTAGAAC
1 AAAAACCACAATTAACCCCAATGACAATGGGTCAAAAC
16474666 AAAAA
1 AAAAA
16474671 TATTAAAAGA
Statistics
Matches: 36, Mismatches: 7, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
38 36 1.00
ACGTcount: A:0.51, C:0.20, G:0.11, T:0.19
Consensus pattern (38 bp):
AAAAACCACAATTAACCCCAATGACAATGGGTCAAAAC
Found at i:16474838 original size:343 final size:342
Alignment explanation
Indices: 16473981--16474959 Score: 1516
Period size: 341 Copynumber: 2.9 Consensus size: 342
16473971 CAAAACCTGT
** * *
16473981 AAAAATATTAAAAGATACAGTGAGTTTAATTACACAGTAAGTAACTAGCATTTCCCTTGGTTGGG
1 AAAAATATTAAAAGATGGAGTGAGTTTAACTACACAGTAAGTAACTAGCATTTCCCTTGGTTGAG
* *
16474046 TTAAGCAAGCACAAAAGCATTTATGCTAAATATTTAGTAAAAAATCCATAATTTTAAAATTTATG
66 TTAAGCAAGCACAAAAGCATTTAAGCTAAATATTTAGTAAAAAATCCATAATTGTAAAATTTATG
* * *
16474111 GTTATACCACAATAAATAATTCAAAGCATATCCCGTGTTAAAACTGTGATAAAGACAAATCAAT-
131 ATTATACCACAATAAATAATTCAAAGCATATTCCGTGTCAAAACTGTGATAAAGACAAATCAATA
*
16474175 A-TTCTGAAATACTGATAGATAAAAAAAATAACAACT-CCATTTTTTATCCCTTAACCTCGATGA
196 ATTTCTGAAATACTGATAGA-AAAAAAAATAACAACTCCCATTTTTTATCCCTTAACCCCGATGA
* * * *
16474238 CAAATGTCAAAAACCATAATTAACCCCAGTGGCAATGGGTCGAAACAAAAACCATAATTAACCCA
260 CAAATGT-AAAAACCATAATTAACCCTAGTGACAATGGGTCAAAACAAAAACCACAATTAACCCA
* ** *
16474303 AATGGCAATTTTTTGGAAC
324 AATGACAATTGGTTAGAAC
* * * *
16474322 AAAAGTATTAAAAGATGGAGTGAGCTTAACTACACAGTAAGTAACAAGCATTTCCCTTAGTTGAG
1 AAAAATATTAAAAGATGGAGTGAGTTTAACTACACAGTAAGTAACTAGCATTTCCCTTGGTTGAG
*
16474387 TTAAGTAAGCACAAAAGCATTTAAGCTAAATATTTAGTAAAAAATCCATAATTGTAAAATTTATG
66 TTAAGCAAGCACAAAAGCATTTAAGCTAAATATTTAGTAAAAAATCCATAATTGTAAAATTTATG
*
16474452 ATTATACCACAATAAATAATTCAAAGCATATTCCGTGTCAAAACTGTGATAAAGATAAATCAATA
131 ATTATACCACAATAAATAATTCAAAGCATATTCCGTGTCAAAACTGTGATAAAGACAAATCAATA
* * * * *
16474517 ATTTCTTAAATATTGATAGACAAAAAAAATAACGACTCCCTTTTTTTATCTCTTAACCCCGATGA
196 ATTTCTGAAATACTGATAGA-AAAAAAAATAACAACTCCCATTTTTTATCCCTTAACCCCGATGA
* * *
16474582 CAAATATAAAAAACCATAATTAATCCTAGTGACAATGGGTCAAAACAAAAACCACAATTAACCCC
260 CAAATGT-AAAAACCATAATTAACCCTAGTGACAATGGGTCAAAACAAAAACCACAATTAACCCA
16474647 AATGACAATTGGTTAGAAC
324 AATGACAATTGGTTAGAAC
* **
16474666 AAAAATATTAAAAGATGGAGTGAGTTTAACTACACAGCAAGTAACTATAATTTCCCTTGGTTGAG
1 AAAAATATTAAAAGATGGAGTGAGTTTAACTACACAGTAAGTAACTAGCATTTCCCTTGGTTGAG
16474731 TTAAGCAAGCAC-AAAGCATTTAAGCTAAATATTTAGTAAAAAATCCATAATTGTAAAATTTATG
66 TTAAGCAAGCACAAAAGCATTTAAGCTAAATATTTAGTAAAAAATCCATAATTGTAAAATTTATG
* *
16474795 ATTATACCACAATAAATAATTCAAACCATATTCTGTGTCAAAACTGTGATAAAGACAAATCAATA
131 ATTATACCACAATAAATAATTCAAAGCATATTCCGTGTCAAAACTGTGATAAAGACAAATCAATA
* * * *
16474860 ATTTCTGAAATACTGATAGATAAAAAAATAACAACACCCATTTTTTATCCCTTAGCCCCAATGAC
196 ATTTCTGAAATACTGATAGAAAAAAAAATAACAACTCCCATTTTTTATCCCTTAACCCCGATGAC
*
16474925 AAATGTCAAAACCATAATTAACCCTAGTGACAATG
261 AAATGTAAAAACCATAATTAACCCTAGTGACAATG
16474960 TAACACCCCT
Statistics
Matches: 578, Mismatches: 57, Indels: 6
0.90 0.09 0.01
Matches are distributed among these distances:
341 206 0.36
342 44 0.08
343 163 0.28
344 165 0.29
ACGTcount: A:0.44, C:0.16, G:0.12, T:0.28
Consensus pattern (342 bp):
AAAAATATTAAAAGATGGAGTGAGTTTAACTACACAGTAAGTAACTAGCATTTCCCTTGGTTGAG
TTAAGCAAGCACAAAAGCATTTAAGCTAAATATTTAGTAAAAAATCCATAATTGTAAAATTTATG
ATTATACCACAATAAATAATTCAAAGCATATTCCGTGTCAAAACTGTGATAAAGACAAATCAATA
ATTTCTGAAATACTGATAGAAAAAAAAATAACAACTCCCATTTTTTATCCCTTAACCCCGATGAC
AAATGTAAAAACCATAATTAACCCTAGTGACAATGGGTCAAAACAAAAACCACAATTAACCCAAA
TGACAATTGGTTAGAAC
Found at i:16479672 original size:15 final size:13
Alignment explanation
Indices: 16479643--16479669 Score: 54
Period size: 13 Copynumber: 2.1 Consensus size: 13
16479633 GCTCGGCAGG
16479643 GACACGCCCGTGT
1 GACACGCCCGTGT
16479656 GACACGCCCGTGT
1 GACACGCCCGTGT
16479669 G
1 G
16479670 TGATTACTTC
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 14 1.00
ACGTcount: A:0.15, C:0.37, G:0.33, T:0.15
Consensus pattern (13 bp):
GACACGCCCGTGT
Found at i:16488571 original size:13 final size:13
Alignment explanation
Indices: 16488553--16488578 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
16488543 CTCGATAGGA
16488553 ACATGCCCGTGTG
1 ACATGCCCGTGTG
16488566 ACATGCCCGTGTG
1 ACATGCCCGTGTG
16488579 CGATTGCTTA
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.15, C:0.31, G:0.31, T:0.23
Consensus pattern (13 bp):
ACATGCCCGTGTG
Found at i:16499456 original size:417 final size:417
Alignment explanation
Indices: 16498682--16499515 Score: 1571
Period size: 417 Copynumber: 2.0 Consensus size: 417
16498672 ATCTAGACTT
16498682 CACTTGTTATTTGACTCTGAATTAGACGATTTATTCATTTGACTTGATCTGTAGGAATCCCTAAG
1 CACTTGTTATTTGACTCTGAATTAGACGATTTATTCATTTGACTTGATCTGTAGGAATCCCTAAG
16498747 TTATAATATTATCTCTCTCGAGACTAATAACGTCTAACCCTAGGTTGATTAATTGAAATCTCTTT
66 TTATAATATTATCTCTCTCGAGACTAATAACGTCTAACCCTAGGTTGATTAATTGAAATCTCTTT
16498812 CTAATTAACACCCTAGTGTTGCATTAACTCGATCTATGGACTCCCTTATTAGGTTTCACCCTAAT
131 CTAATTAACACCCTAGTGTTGCATTAACTCGATCTATGGACTCCCTTATTAGGTTTCACCCTAAT
* * *
16498877 CCAGCAAAATCTTGTCACCCTATCTCTAGGCGTGCAATCAACTCTGCTTAATTACGACAAATTTA
196 CCAGCAAAATCTTATCACCCTATCTCTAGGAGTGCAATCAACTCCGCTTAATTACGACAAATTTA
* * *
16498942 CTCTTAGACAGGGACTTTTTCTCCTCTGAATAAGCGCATTAACTTGAATCAATATCCTGGAATAT
261 CTCTTAAACAGGGACTTTTCCTCCTCTGAATAAGAGCATTAACTTGAATCAATATCCTGGAATAT
16499007 TAAAACAAGAATTAAGAACACATAATTAAGAACAAGTTAAATATTTATCATACAATTCAGATAAT
326 TAAAACAAGAATTAAGAACACATAATTAAGAACAAGTTAAATATTTATCATACAATTCAGATAAT
16499072 AATAACAAGATCTATCTTAGGTTTTTA
391 AATAACAAGATCTATCTTAGGTTTTTA
16499099 CACTTGTTATTTGACTCTGAATTAGACGATTTATTCATTTGACTTGATCTGTAGGAATCCCTAAG
1 CACTTGTTATTTGACTCTGAATTAGACGATTTATTCATTTGACTTGATCTGTAGGAATCCCTAAG
16499164 TTATAATATTATCTCTCTCGAGACTAATAACGTCTAACCCTAGGTTGATTAATTGAAATCTCTTT
66 TTATAATATTATCTCTCTCGAGACTAATAACGTCTAACCCTAGGTTGATTAATTGAAATCTCTTT
16499229 CTAATTAACACCCTAGTGTTGCATTAACTCGATCTATGGA-TCCCCTTATTAGGTTTCACCCTAA
131 CTAATTAACACCCTAGTGTTGCATTAACTCGATCTATGGACT-CCCTTATTAGGTTTCACCCTAA
* *
16499293 TTCGGCAAAATCTTATCACCCTATCTCTAGGAGTGCAATCAACTCCGCTTAATTACGACAAATTT
195 TCCAGCAAAATCTTATCACCCTATCTCTAGGAGTGCAATCAACTCCGCTTAATTACGACAAATTT
*
16499358 ACTCTTAAACAGGGTCTTTTCCTCCTCTGAATAAGAGCATTAACTTGAATCAATATCCTGGAATA
260 ACTCTTAAACAGGGACTTTTCCTCCTCTGAATAAGAGCATTAACTTGAATCAATATCCTGGAATA
16499423 TTAAAACAAGAATTAAGAACACATAATTAAGAACAAGTTAAATATTTATCATACAATTCAGATAA
325 TTAAAACAAGAATTAAGAACACATAATTAAGAACAAGTTAAATATTTATCATACAATTCAGATAA
16499488 TAATAACAAGATCTATCTTAGGTTTTTA
390 TAATAACAAGATCTATCTTAGGTTTTTA
16499516 TTCCCCTTAG
Statistics
Matches: 407, Mismatches: 9, Indels: 2
0.97 0.02 0.00
Matches are distributed among these distances:
416 1 0.00
417 406 1.00
ACGTcount: A:0.33, C:0.20, G:0.12, T:0.35
Consensus pattern (417 bp):
CACTTGTTATTTGACTCTGAATTAGACGATTTATTCATTTGACTTGATCTGTAGGAATCCCTAAG
TTATAATATTATCTCTCTCGAGACTAATAACGTCTAACCCTAGGTTGATTAATTGAAATCTCTTT
CTAATTAACACCCTAGTGTTGCATTAACTCGATCTATGGACTCCCTTATTAGGTTTCACCCTAAT
CCAGCAAAATCTTATCACCCTATCTCTAGGAGTGCAATCAACTCCGCTTAATTACGACAAATTTA
CTCTTAAACAGGGACTTTTCCTCCTCTGAATAAGAGCATTAACTTGAATCAATATCCTGGAATAT
TAAAACAAGAATTAAGAACACATAATTAAGAACAAGTTAAATATTTATCATACAATTCAGATAAT
AATAACAAGATCTATCTTAGGTTTTTA
Found at i:16502543 original size:38 final size:38
Alignment explanation
Indices: 16502489--16502566 Score: 138
Period size: 38 Copynumber: 2.1 Consensus size: 38
16502479 GGTTGTTACA
*
16502489 GACAATAGGTCGAAACATAAACCACAATTAACCCCAAT
1 GACAATAGGTCAAAACATAAACCACAATTAACCCCAAT
*
16502527 GACAATGGGTCAAAACATAAACCACAATTAACCCCAAT
1 GACAATAGGTCAAAACATAAACCACAATTAACCCCAAT
16502565 GA
1 GA
16502567 TAATTGGTTG
Statistics
Matches: 38, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
38 38 1.00
ACGTcount: A:0.47, C:0.26, G:0.12, T:0.15
Consensus pattern (38 bp):
GACAATAGGTCAAAACATAAACCACAATTAACCCCAAT
Found at i:16507021 original size:30 final size:30
Alignment explanation
Indices: 16506964--16507021 Score: 73
Period size: 30 Copynumber: 1.9 Consensus size: 30
16506954 TATAATTTCA
*
16506964 TTTTATTTTTATTATAATTTGGCCCTAACC
1 TTTTATTTTTATTATAATTTAGCCCTAACC
* *
16506994 TTTTATTTTTGTT-TCAATTTAGTCCTAA
1 TTTTATTTTTATTAT-AATTTAGCCCTAA
16507022 TGATCATTAT
Statistics
Matches: 24, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
29 1 0.04
30 23 0.96
ACGTcount: A:0.22, C:0.14, G:0.07, T:0.57
Consensus pattern (30 bp):
TTTTATTTTTATTATAATTTAGCCCTAACC
Found at i:16507214 original size:20 final size:20
Alignment explanation
Indices: 16507191--16507229 Score: 69
Period size: 20 Copynumber: 1.9 Consensus size: 20
16507181 ATTTTAAATT
16507191 TTTTATATATAATTTATTTA
1 TTTTATATATAATTTATTTA
*
16507211 TTTTATATATTATTTATTT
1 TTTTATATATAATTTATTT
16507230 TTACTATAAA
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
20 18 1.00
ACGTcount: A:0.31, C:0.00, G:0.00, T:0.69
Consensus pattern (20 bp):
TTTTATATATAATTTATTTA
Found at i:16507278 original size:33 final size:33
Alignment explanation
Indices: 16507241--16507344 Score: 90
Period size: 33 Copynumber: 3.2 Consensus size: 33
16507231 TACTATAAAC
16507241 ATTATTTATATATGTAAAAAATTTATTATATAT
1 ATTATTTATATATGTAAAAAATTTATTATATAT
* **
16507274 ATTATTTTTATTTATGT--ATTATTTATTATATAT
1 ATTA--TTTATATATGTAAAAAATTTATTATATAT
* ** *
16507307 TTTA-TTATATAT-TATATCATTTTATTATATAT
1 ATTATTTATATATGTA-AAAAATTTATTATATAT
16507339 ATTATT
1 ATTATT
16507345 CATTATATTA
Statistics
Matches: 55, Mismatches: 10, Indels: 12
0.71 0.13 0.16
Matches are distributed among these distances:
29 1 0.02
30 7 0.13
32 15 0.27
33 22 0.40
35 10 0.18
ACGTcount: A:0.37, C:0.01, G:0.02, T:0.61
Consensus pattern (33 bp):
ATTATTTATATATGTAAAAAATTTATTATATAT
Found at i:16507294 original size:26 final size:25
Alignment explanation
Indices: 16507263--16507403 Score: 121
Period size: 26 Copynumber: 5.5 Consensus size: 25
16507253 TGTAAAAAAT
16507263 TTATTATATATATTATTTTTATTTA
1 TTATTATATATATTATTTTTATTTA
*
16507288 TGTATTATTTAT-TATATATTTTA-TTA
1 T-TATTATATATAT-TAT-TTTTATTTA
* * *
16507314 TATATTATATCATTTTA-TTATATATA
1 T-TATTATAT-ATATTATTTTTATTTA
16507340 TTATTCAT-TATATTATTTTTATTTTA
1 TTATT-ATATATATTATTTTTA-TTTA
16507366 TTA-TATATTATATTATTTATTATTTA
1 TTATTATA-TATATTATTT-TTATTTA
*
16507392 TTATTATGTATA
1 TTATTATATATA
16507404 ATTTTAAAAA
Statistics
Matches: 94, Mismatches: 9, Indels: 25
0.73 0.07 0.20
Matches are distributed among these distances:
24 7 0.07
25 16 0.17
26 55 0.59
27 15 0.16
28 1 0.01
ACGTcount: A:0.33, C:0.01, G:0.01, T:0.65
Consensus pattern (25 bp):
TTATTATATATATTATTTTTATTTA
Found at i:16507295 original size:17 final size:18
Alignment explanation
Indices: 16507262--16507396 Score: 91
Period size: 17 Copynumber: 8.0 Consensus size: 18
16507252 ATGTAAAAAA
16507262 TTTATTATATATATTATT
1 TTTATTATATATATTATT
*
16507280 TTTATT-TATGTATTA--
1 TTTATTATATATATTATT
*
16507295 TTTATTATATATTTTA-T
1 TTTATTATATATATTATT
* *
16507312 TATA-TAT-TATATCA-T
1 TTTATTATATATATTATT
16507327 TTTATTATATATATTATT
1 TTTATTATATATATTATT
16507345 CATTATATTAT-T-T-TTA-T
1 --TT-TATTATATATATTATT
16507362 TTTATTATATAT-TATATT
1 TTTATTATATATAT-TATT
16507380 ATTTATTAT-T-TATTATT
1 -TTTATTATATATATTATT
16507397 ATGTATAATT
Statistics
Matches: 95, Mismatches: 8, Indels: 29
0.72 0.06 0.22
Matches are distributed among these distances:
14 6 0.06
15 18 0.19
16 15 0.16
17 25 0.26
18 13 0.14
19 9 0.09
20 3 0.03
21 6 0.06
ACGTcount: A:0.32, C:0.01, G:0.01, T:0.66
Consensus pattern (18 bp):
TTTATTATATATATTATT
Found at i:16507300 original size:7 final size:7
Alignment explanation
Indices: 16507261--16507396 Score: 82
Period size: 7 Copynumber: 18.4 Consensus size: 7
16507251 TATGTAAAAA
16507261 ATTTATT
1 ATTTATT
*
16507268 ATATA-T
1 ATTTATT
16507274 A-TTATT
1 ATTTATT
16507280 -TTTATTT
1 ATTTA-TT
*
16507287 ATGTATT
1 ATTTATT
16507294 ATTTATT
1 ATTTATT
*
16507301 ATATATT
1 ATTTATT
*
16507308 TTATTATAT
1 AT-TTAT-T
*
16507317 ATTATATC
1 ATT-TATT
16507325 ATTTTATT
1 A-TTTATT
16507333 ATATATATT
1 AT-T-TATT
*
16507342 ATTCATT
1 ATTTATT
16507349 ATATTATT
1 AT-TTATT
16507357 -TTTATT
1 ATTTATT
*
16507363 TTATTATAT
1 AT-TTAT-T
16507372 ATTATATT
1 ATT-TATT
16507380 ATTTATT
1 ATTTATT
16507387 ATTTATT
1 ATTTATT
16507394 ATT
1 ATT
16507397 ATGTATAATT
Statistics
Matches: 101, Mismatches: 13, Indels: 30
0.70 0.09 0.21
Matches are distributed among these distances:
5 2 0.02
6 11 0.11
7 43 0.43
8 27 0.27
9 18 0.18
ACGTcount: A:0.32, C:0.01, G:0.01, T:0.65
Consensus pattern (7 bp):
ATTTATT
Found at i:16507312 original size:12 final size:12
Alignment explanation
Indices: 16507262--16507386 Score: 90
Period size: 12 Copynumber: 11.1 Consensus size: 12
16507252 ATGTAAAAAA
16507262 TTTATTATATAT
1 TTTATTATATAT
* *
16507274 ATTATT-TTTA-
1 TTTATTATATAT
16507284 TTTATGTAT-TA-
1 TTTAT-TATATAT
16507295 TTTATTATATAT
1 TTTATTATATAT
16507307 TTTATTATATA-
1 TTTATTATATAT
*
16507318 -TTA-TAT-CAT
1 TTTATTATATAT
16507327 TTTATTATATAT
1 TTTATTATATAT
*
16507339 ATTATTCAT-TAT
1 TTTATT-ATATAT
* *
16507351 ATTATT-TTTAT
1 TTTATTATATAT
16507362 TTTATTATATAT
1 TTTATTATATAT
* *
16507374 TATATTATTTAT
1 TTTATTATATAT
16507386 T
1 T
16507387 ATTTATTATT
Statistics
Matches: 92, Mismatches: 10, Indels: 22
0.74 0.08 0.18
Matches are distributed among these distances:
8 1 0.01
9 3 0.03
10 14 0.15
11 24 0.26
12 48 0.52
13 2 0.02
ACGTcount: A:0.32, C:0.02, G:0.01, T:0.66
Consensus pattern (12 bp):
TTTATTATATAT
Found at i:16507365 original size:55 final size:55
Alignment explanation
Indices: 16507291--16507398 Score: 157
Period size: 55 Copynumber: 2.0 Consensus size: 55
16507281 TTATTTATGT
16507291 ATTATTTATTATATATTTTATTATATATTATATCATTTTATTATATA-TATTATTC
1 ATTATTTATTATATATTTTATTATATATTATATCA-TTTATTATATATTATTATTC
* * *
16507346 ATTATATTATT-TTTATTTTATTATATATTATATTATTTATTATTTATTATTAT
1 ATTAT-TTATTATATATTTTATTATATATTATATCATTTATTATATATTATTAT
16507399 GTATAATTTT
Statistics
Matches: 48, Mismatches: 3, Indels: 4
0.87 0.05 0.07
Matches are distributed among these distances:
54 10 0.21
55 33 0.69
56 5 0.10
ACGTcount: A:0.33, C:0.02, G:0.00, T:0.65
Consensus pattern (55 bp):
ATTATTTATTATATATTTTATTATATATTATATCATTTATTATATATTATTATTC
Found at i:16507372 original size:67 final size:65
Alignment explanation
Indices: 16507262--16507388 Score: 184
Period size: 67 Copynumber: 1.9 Consensus size: 65
16507252 ATGTAAAAAA
* *
16507262 TTTATTATATATATTATTTTTATTTATGTATTATTTATTATATATTTTATTATATATTATATCAT
1 TTTATTATATATATTATTATTATTTATGTATTATTTATTATATATTATATTATATATTATATCAT
* *
16507327 TTTATTATATATATTATTCATTATATTAT-TTTTATTTTATTATATATTATATTATTTATTAT
1 TTTATTATATATATTATT-ATTAT-TTATGTATTA-TTTATTATATATTATATTATATATTAT
16507389 TTATTATTAT
Statistics
Matches: 55, Mismatches: 4, Indels: 4
0.87 0.06 0.06
Matches are distributed among these distances:
65 18 0.33
66 8 0.15
67 29 0.53
ACGTcount: A:0.32, C:0.02, G:0.01, T:0.65
Consensus pattern (65 bp):
TTTATTATATATATTATTATTATTTATGTATTATTTATTATATATTATATTATATATTATATCAT
Found at i:16507398 original size:48 final size:50
Alignment explanation
Indices: 16507269--16507398 Score: 151
Period size: 55 Copynumber: 2.5 Consensus size: 50
16507259 AAATTTATTA
16507269 TATATATTATTT-TTATTTATGTATTATTTATTATATATTTTATTATATAT
1 TATATATTATTTATTATTTAT-TATTATTTATTATATATTTTATTATATAT
* *
16507319 TATATCATTTTATTATATATATTATTCATTATATTATT-TTTATTTTATTATATA-
1 TATAT-ATTAT-TTAT-TAT-TTATT-ATTAT-TTATTATATATTTTATTATATAT
16507373 T-TATATTATTTATTATTTATTATTAT
1 TATATATTATTTATTATTTATTATTAT
16507399 GTATAATTTT
Statistics
Matches: 70, Mismatches: 3, Indels: 16
0.79 0.03 0.18
Matches are distributed among these distances:
48 5 0.07
49 5 0.07
50 8 0.11
51 8 0.11
52 6 0.09
53 4 0.06
54 5 0.07
55 24 0.34
56 5 0.07
ACGTcount: A:0.32, C:0.02, G:0.01, T:0.65
Consensus pattern (50 bp):
TATATATTATTTATTATTTATTATTATTTATTATATATTTTATTATATAT
Found at i:16507802 original size:18 final size:18
Alignment explanation
Indices: 16507771--16507805 Score: 52
Period size: 18 Copynumber: 1.9 Consensus size: 18
16507761 ATCTCATAAA
*
16507771 TTATTTATTATTTTTATG
1 TTATTTATCATTTTTATG
*
16507789 TTATTTATCGTTTTTAT
1 TTATTTATCATTTTTAT
16507806 ATATTTGCAT
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:0.20, C:0.03, G:0.06, T:0.71
Consensus pattern (18 bp):
TTATTTATCATTTTTATG
Found at i:16507994 original size:119 final size:113
Alignment explanation
Indices: 16507847--16508058 Score: 262
Period size: 115 Copynumber: 1.8 Consensus size: 113
16507837 ATATTTTAAG
* * * **
16507847 TTATATTTGCATGAAATATTATTGTATATATATTATGTAATTTATATTGTTATATTCATTGTTTT
1 TTATATCTGCATGAAATATTA----ATGTATATTATGTAATTTATATCGTT-TATTCATCATTTT
* * *
16507912 CTATGTTGTATTTTGCATGAAATGTTAATGTATGCATATTTATGTTATTTATGA
61 CTATATTATA-TTTGCATGAAATGTTAAAGTATGCATATTTATGTTATTTATGA
* * * *
16507966 TTATATCTGCATGAAATGTTAATGTATATTATGTAATTTATGTCGTTTTTTTATCATTTTCTATA
1 TTATATCTGCATGAAATATTAATGTATATTATGTAATTTATATCGTTTATTCATCATTTTCTATA
16508031 TTATATTTGCATGAAATGTTAAAGTATG
66 TTATATTTGCATGAAATGTTAAAGTATG
16508059 TATCATGTAT
Statistics
Matches: 81, Mismatches: 12, Indels: 6
0.82 0.12 0.06
Matches are distributed among these distances:
113 22 0.27
114 17 0.21
115 23 0.28
119 19 0.23
ACGTcount: A:0.30, C:0.05, G:0.13, T:0.52
Consensus pattern (113 bp):
TTATATCTGCATGAAATATTAATGTATATTATGTAATTTATATCGTTTATTCATCATTTTCTATA
TTATATTTGCATGAAATGTTAAAGTATGCATATTTATGTTATTTATGA
Found at i:16519139 original size:45 final size:45
Alignment explanation
Indices: 16519090--16519218 Score: 117
Period size: 45 Copynumber: 2.9 Consensus size: 45
16519080 AGATCACCGT
16519090 TAGCAGATTTGGCGTCTTTGTATTAGACGGGGAGCAGATCGAAGA
1 TAGCAGATTTGGCGTCTTTGTATTAGACGGGGAGCAGATCGAAGA
* * * * *
16519135 TAGCAGATCTGACATTCGTGTT-T-TTACATC--GAAGCAGATCGAAGA
1 TAGCAGATTTGGC-GTC-T-TTGTATTAGA-CGGGGAGCAGATCGAAGA
*
16519180 T-GACAGATTT-GCGTCTCTGTATTAGACGGGGAGCAGATC
1 TAG-CAGATTTGGCGTCTTTGTATTAGACGGGGAGCAGATC
16519219 TTACATTCGT
Statistics
Matches: 64, Mismatches: 11, Indels: 19
0.68 0.12 0.20
Matches are distributed among these distances:
41 1 0.02
42 3 0.05
43 6 0.09
44 11 0.17
45 32 0.50
46 6 0.09
47 3 0.05
48 2 0.03
ACGTcount: A:0.27, C:0.16, G:0.29, T:0.28
Consensus pattern (45 bp):
TAGCAGATTTGGCGTCTTTGTATTAGACGGGGAGCAGATCGAAGA
Found at i:16519230 original size:75 final size:76
Alignment explanation
Indices: 16519136--16519294 Score: 275
Period size: 75 Copynumber: 2.1 Consensus size: 76
16519126 GATCGAAGAT
* *
16519136 AGCAGATCTGACATTCGTGTTTTTACATCGAAGCAGATCGAAGATGACAGATTT-GCGTCTCTGT
1 AGCAGATCTGACATTCGTGTGTTTACATCGAAACAGATCGAAGATGACAGATTTGGCGTCTCTGT
16519200 ATTAGACGGGG
66 ATTAGACGGGG
* *
16519211 AGCAGATCTTACATTCGTGTGTTTATATCGAAACAGATCGAAGATGACAGATTTGGCGTCTCTGT
1 AGCAGATCTGACATTCGTGTGTTTACATCGAAACAGATCGAAGATGACAGATTTGGCGTCTCTGT
16519276 ATTAGACGGGG
66 ATTAGACGGGG
16519287 AGCAGATC
1 AGCAGATC
16519295 GAAGATAGTA
Statistics
Matches: 79, Mismatches: 4, Indels: 1
0.94 0.05 0.01
Matches are distributed among these distances:
75 50 0.63
76 29 0.37
ACGTcount: A:0.28, C:0.17, G:0.26, T:0.29
Consensus pattern (76 bp):
AGCAGATCTGACATTCGTGTGTTTACATCGAAACAGATCGAAGATGACAGATTTGGCGTCTCTGT
ATTAGACGGGG
Found at i:16519369 original size:90 final size:90
Alignment explanation
Indices: 16519211--16519660 Score: 697
Period size: 90 Copynumber: 5.0 Consensus size: 90
16519201 TTAGACGGGG
* * * *
16519211 AGCAGATCTTACATTCGTGTGTTTATATCGAAACAGATCGAAGATGACAGATTTGGCGTCTCTGT
1 AGCAGATCTGACATTCGTGTGTTTACATCGAAGCAGATCGAAGATGACAGATTTGGCGTCTCTAT
16519276 ATTAGACGGGGAGCAGATCGAAGAT
66 ATTAGACGGGGAGCAGATCGAAGAT
* * *
16519301 AGTAGATCTGACATTCGTGTGTTTACATCGAAGCAGATCGAAGATGACAGATTCGGAGTCTCTAT
1 AGCAGATCTGACATTCGTGTGTTTACATCGAAGCAGATCGAAGATGACAGATTTGGCGTCTCTAT
*
16519366 ATTAGACGGGGAGTAGATCGAAGAT
66 ATTAGACGGGGAGCAGATCGAAGAT
* * * *
16519391 AACAGATCTGACATTCGTGTGTTTACATTGAAGCAGATCGAATATGATAGATTTGGCGTCTCTAT
1 AGCAGATCTGACATTCGTGTGTTTACATCGAAGCAGATCGAAGATGACAGATTTGGCGTCTCTAT
16519456 ATTAGACGGGGAGCAGATCGAAGAT
66 ATTAGACGGGGAGCAGATCGAAGAT
* * * *
16519481 AGCAAATCTGACA-TCGTGTGTTTACATCAAAGCAGATCGAAGATGACAGATTTGGAGTCTCTGT
1 AGCAGATCTGACATTCGTGTGTTTACATCGAAGCAGATCGAAGATGACAGATTTGGCGTCTCTAT
*
16519545 ATTAGACGAGGAGCAGATCGAAGAT
66 ATTAGACGGGGAGCAGATCGAAGAT
*
16519570 AGCAGATCTGACATTCGTGTGTTTACGTCGAAGCAGATCGAAGATAGA-AGATTTGGCGTCTCTA
1 AGCAGATCTGACATTCGTGTGTTTACATCGAAGCAGATCGAAGAT-GACAGATTTGGCGTCTCTA
* *
16519634 TATTTGACGGGGAGCAGATCAAAGAT
65 TATTAGACGGGGAGCAGATCGAAGAT
16519660 A
1 A
16519661 TTAACATGGC
Statistics
Matches: 325, Mismatches: 33, Indels: 4
0.90 0.09 0.01
Matches are distributed among these distances:
89 81 0.25
90 242 0.74
91 2 0.01
ACGTcount: A:0.31, C:0.15, G:0.27, T:0.27
Consensus pattern (90 bp):
AGCAGATCTGACATTCGTGTGTTTACATCGAAGCAGATCGAAGATGACAGATTTGGCGTCTCTAT
ATTAGACGGGGAGCAGATCGAAGAT
Found at i:16519579 original size:179 final size:179
Alignment explanation
Indices: 16519211--16519660 Score: 713
Period size: 179 Copynumber: 2.5 Consensus size: 179
16519201 TTAGACGGGG
* * * *
16519211 AGCAGATCTTACATTCGTGTGTTTATATCGAAACAGATCGAAGATGACAGATTTGGCGTCTCTGT
1 AGCAGATCTGACATTCGTGTGTTTACATCGAAGCAGATCGAAGATGA-AGATTTGGCGTCTCTAT
* * *
16519276 ATTAGACGGGGAGCAGATCGAAGATAGTAGATCTGACATTCGTGTGTTTACATCGAAGCAGATCG
65 ATTAGACGGGGAGCAGATCGAAGATAGCAAATCTGACATTCGTGTGTTTACATCAAAGCAGATCG
* *
16519341 AAGATGACAGATTCGGAGTCTCTATATTAGACGGGGAGTAGATCGAAGAT
130 AAGATGACAGATTCGGAGTCTCTATATTAGACGAGGAGCAGATCGAAGAT
* * *
16519391 AACAGATCTGACATTCGTGTGTTTACATTGAAGCAGATCGAATATGATAGATTTGGCGTCTCTAT
1 AGCAGATCTGACATTCGTGTGTTTACATCGAAGCAGATCGAAGATGA-AGATTTGGCGTCTCTAT
16519456 ATTAGACGGGGAGCAGATCGAAGATAGCAAATCTGACA-TCGTGTGTTTACATCAAAGCAGATCG
65 ATTAGACGGGGAGCAGATCGAAGATAGCAAATCTGACATTCGTGTGTTTACATCAAAGCAGATCG
* *
16519520 AAGATGACAGATTTGGAGTCTCTGTATTAGACGAGGAGCAGATCGAAGAT
130 AAGATGACAGATTCGGAGTCTCTATATTAGACGAGGAGCAGATCGAAGAT
*
16519570 AGCAGATCTGACATTCGTGTGTTTACGTCGAAGCAGATCGAAGATAGAAGATTTGGCGTCTCTAT
1 AGCAGATCTGACATTCGTGTGTTTACATCGAAGCAGATCGAAGAT-GAAGATTTGGCGTCTCTAT
* *
16519635 ATTTGACGGGGAGCAGATCAAAGATA
65 ATTAGACGGGGAGCAGATCGAAGATA
16519661 TTAACATGGC
Statistics
Matches: 248, Mismatches: 21, Indels: 3
0.91 0.08 0.01
Matches are distributed among these distances:
179 153 0.62
180 95 0.38
ACGTcount: A:0.31, C:0.15, G:0.27, T:0.27
Consensus pattern (179 bp):
AGCAGATCTGACATTCGTGTGTTTACATCGAAGCAGATCGAAGATGAAGATTTGGCGTCTCTATA
TTAGACGGGGAGCAGATCGAAGATAGCAAATCTGACATTCGTGTGTTTACATCAAAGCAGATCGA
AGATGACAGATTCGGAGTCTCTATATTAGACGAGGAGCAGATCGAAGAT
Found at i:16519660 original size:45 final size:45
Alignment explanation
Indices: 16519244--16519660 Score: 193
Period size: 45 Copynumber: 9.3 Consensus size: 45
16519234 TATATCGAAA
* *
16519244 CAGATCGAAGAT-GACAGATTTGGCGTCTCTGTATTAGACGGGGAG
1 CAGATCGAAGATAGA-AGATTTGGCGTCTCTGTATTTGACGAGGAG
* * * * * *
16519289 CAGATCGAAGATAGTAGATCTGACAT-TCGTGTGTTT-AC-ATCGAAG
1 CAGATCGAAGATAGAAGATTTGGCGTCTC-TGTATTTGACGA--GGAG
* * * * *
16519334 CAGATCGAAGAT-GACAGATTCGGAGTCTCTATATTAGACGGGGAG
1 CAGATCGAAGATAGA-AGATTTGGCGTCTCTGTATTTGACGAGGAG
* * * * * *
16519379 TAGATCGAAGATA-ACAGATCTGACAT-TCGTGTGTTT-AC-ATTGAAG
1 CAGATCGAAGATAGA-AGATTTGGCGTCTC-TGTATTTGACGA--GGAG
* * * *
16519424 CAGATCGAATAT-GATAGATTTGGCGTCTCTATATTAGACGGGGAG
1 CAGATCGAAGATAGA-AGATTTGGCGTCTCTGTATTTGACGAGGAG
* * * * * **
16519469 CAGATCGAAGATAGCAA-ATCTGACATC-GTGTGTTT-AC-ATCAAAG
1 CAGATCGAAGATAG-AAGATTTGGCGTCTCTGTATTTGACGA--GGAG
* *
16519513 CAGATCGAAGAT-GACAGATTTGGAGTCTCTGTATTAGACGAGGAG
1 CAGATCGAAGATAGA-AGATTTGGCGTCTCTGTATTTGACGAGGAG
* * * * * * *
16519558 CAGATCGAAGATAGCAGATCTGACAT-TCGTGTGTTT-ACGTCGAAG
1 CAGATCGAAGATAGAAGATTTGGCGTCTC-TGTATTTGACG-AGGAG
* *
16519603 CAGATCGAAGATAGAAGATTTGGCGTCTCTATATTTGACGGGGAG
1 CAGATCGAAGATAGAAGATTTGGCGTCTCTGTATTTGACGAGGAG
*
16519648 CAGATCAAAGATA
1 CAGATCGAAGATA
16519661 TTAACATGGC
Statistics
Matches: 263, Mismatches: 79, Indels: 60
0.65 0.20 0.15
Matches are distributed among these distances:
42 1 0.00
43 4 0.02
44 38 0.14
45 199 0.76
46 19 0.07
47 2 0.01
ACGTcount: A:0.31, C:0.15, G:0.27, T:0.26
Consensus pattern (45 bp):
CAGATCGAAGATAGAAGATTTGGCGTCTCTGTATTTGACGAGGAG
Found at i:16521137 original size:29 final size:29
Alignment explanation
Indices: 16521105--16521161 Score: 96
Period size: 29 Copynumber: 2.0 Consensus size: 29
16521095 TTTTAATCCT
*
16521105 TTTTAAATTTTTTATATATAATTTATTTA
1 TTTTAAATATTTTATATATAATTTATTTA
*
16521134 TTTTAAATATTTTATATATTATTTATTT
1 TTTTAAATATTTTATATATAATTTATTT
16521162 TTACTATAAA
Statistics
Matches: 26, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
29 26 1.00
ACGTcount: A:0.33, C:0.00, G:0.00, T:0.67
Consensus pattern (29 bp):
TTTTAAATATTTTATATATAATTTATTTA
Found at i:16521215 original size:97 final size:97
Alignment explanation
Indices: 16521113--16521364 Score: 228
Period size: 97 Copynumber: 2.5 Consensus size: 97
16521103 CTTTTTAAAT
* *
16521113 TTTTTATATATAATTTATTTATTTTAAATATTTTATATATTATTTATTTTTACTATAAACATTAT
1 TTTTTATATATAATTTATTTATTATAATTATTTTATATATTATTTATTTTTA-TATAAACATTAT
16521178 -TTATATATGTA-AAAAATTTATTATATATATTA
65 ATTATATAT-TATAAAAATTTATTATATATATTA
* * * * * *
16521210 TTTTTATTTAT-GTATTATTTATTAT-ATTA-TTTATATTTTATTATATATTTTATTTATATATT
1 TTTTTATATATAAT-TTATTTATTATAATTATTTTATATATTATT-TAT-TTTTATATAAACATT
* ** *
16521272 TTATTATATATTATATCATTTTATTATATATATTA
63 ATATTATATATTATAAAAATTTATTATATATATTA
* * *
16521307 TTCATTATAT-TATTTTTATTTTATTATATATTATATTATATTATTATTTATTATTTAT
1 TT-TTTATATATA-ATTTA-TTTATTATA-ATTATTTTATA-TATTATTTATT-TTTAT
16521365 TATTATGTAT
Statistics
Matches: 124, Mismatches: 17, Indels: 23
0.76 0.10 0.14
Matches are distributed among these distances:
95 12 0.10
96 17 0.14
97 54 0.44
98 8 0.06
99 9 0.07
101 5 0.04
102 13 0.10
103 6 0.05
ACGTcount: A:0.35, C:0.02, G:0.01, T:0.63
Consensus pattern (97 bp):
TTTTTATATATAATTTATTTATTATAATTATTTTATATATTATTTATTTTTATATAAACATTATA
TTATATATTATAAAAATTTATTATATATATTA
Found at i:16521232 original size:7 final size:7
Alignment explanation
Indices: 16521193--16521368 Score: 103
Period size: 7 Copynumber: 23.4 Consensus size: 7
16521183 TATGTAAAAA
16521193 ATTTATT
1 ATTTATT
16521200 ATATATATT
1 AT-T-TATT
16521209 ATTT-TT
1 ATTTATT
16521215 ATTTATGT
1 ATTTAT-T
16521223 A-TTATTT
1 ATTTA-TT
16521230 ATTATATT
1 ATT-TATT
16521238 ATTTA-T
1 ATTTATT
16521244 ATTTTATT
1 A-TTTATT
*
16521252 ATATATTTT
1 AT-T-TATT
16521261 ATTTATAT
1 ATTTAT-T
16521269 ATTTTATT
1 A-TTTATT
*
16521277 ATATATT
1 ATTTATT
*
16521284 A--TATC
1 ATTTATT
16521289 ATTTTATT
1 A-TTTATT
16521297 ATATATATT
1 AT-T-TATT
*
16521306 ATTCATT
1 ATTTATT
16521313 ATATTATT
1 AT-TTATT
16521321 -TTTATT
1 ATTTATT
*
16521327 TTATTATAT
1 AT-TTAT-T
16521336 ATTATATT
1 ATT-TATT
16521344 ATATTATT
1 AT-TTATT
16521352 ATTTATT
1 ATTTATT
16521359 ATTTATT
1 ATTTATT
16521366 ATT
1 ATT
16521369 ATGTATAATT
Statistics
Matches: 137, Mismatches: 8, Indels: 48
0.71 0.04 0.25
Matches are distributed among these distances:
5 4 0.03
6 13 0.09
7 47 0.34
8 43 0.31
9 30 0.22
ACGTcount: A:0.32, C:0.01, G:0.01, T:0.66
Consensus pattern (7 bp):
ATTTATT
Found at i:16521239 original size:12 final size:12
Alignment explanation
Indices: 16521193--16521367 Score: 125
Period size: 11 Copynumber: 15.8 Consensus size: 12
16521183 TATGTAAAAA
16521193 ATTTATTATA-T
1 ATTTATTATATT
16521204 ATATTATT-T-TT
1 AT-TTATTATATT
*
16521215 ATTTA-TGTATT
1 ATTTATTATATT
16521226 ATTTATTATATT
1 ATTTATTATATT
*
16521238 ATTTA-TATTTT
1 ATTTATTATATT
*
16521249 A-TTATATATTTT
1 ATTTAT-TATATT
16521261 ATTTA-TATA-T
1 ATTTATTATATT
16521271 -TTTATTATA-T
1 ATTTATTATATT
* *
16521281 ATTATATCATTTT
1 ATT-TATTATATT
16521294 A-TTATATATATT
1 ATTTAT-TATATT
*
16521306 ATTCATTATATT
1 ATTTATTATATT
*
16521318 ATTT-TTATTTT
1 ATTTATTATATT
16521329 A-TTA-TATATT
1 ATTTATTATATT
16521339 A--TATTATATT
1 ATTTATTATATT
16521349 A-TTATT-TATT
1 ATTTATTATATT
16521359 ATTTATTAT
1 ATTTATTAT
16521368 TATGTATAAT
Statistics
Matches: 134, Mismatches: 11, Indels: 37
0.74 0.06 0.20
Matches are distributed among these distances:
9 7 0.05
10 33 0.25
11 43 0.32
12 43 0.32
13 8 0.06
ACGTcount: A:0.33, C:0.01, G:0.01, T:0.66
Consensus pattern (12 bp):
ATTTATTATATT
Found at i:16521306 original size:80 final size:80
Alignment explanation
Indices: 16521193--16521370 Score: 240
Period size: 80 Copynumber: 2.2 Consensus size: 80
16521183 TATGTAAAAA
* *
16521193 ATTTATTATATA-TATTATTTTTATTTATGTATTATTTATTATATTATTTATATTTTATTATATA
1 ATTTATTATATATTATTATTTTTATTTATATATTATTCATTATATTATTTATATTTTATTATATA
*
16521257 TTTTATT-TA-TA-T
66 TTATATTATATTATT
*
16521269 ATTTTATTATATATTA-TATCATTTTATTATATATATTATTCATTATATTATTTTTATTTTATTA
1 A-TTTATTATATATTATTAT--TTTTATT-TATATATTATTCATTATATTATTTATATTTTATTA
16521333 TATATTATATTATATTATT
62 TATATTATATTATATTATT
*
16521352 ATTTATTATTTATTATTAT
1 ATTTATTATATATTATTAT
16521371 GTATAATTTT
Statistics
Matches: 88, Mismatches: 5, Indels: 11
0.85 0.05 0.11
Matches are distributed among these distances:
76 1 0.01
77 14 0.16
78 2 0.02
79 7 0.08
80 42 0.48
81 2 0.02
82 15 0.17
83 5 0.06
ACGTcount: A:0.33, C:0.01, G:0.01, T:0.66
Consensus pattern (80 bp):
ATTTATTATATATTATTATTTTTATTTATATATTATTCATTATATTATTTATATTTTATTATATA
TTATATTATATTATT
Found at i:16521379 original size:17 final size:15
Alignment explanation
Indices: 16521195--16521375 Score: 110
Period size: 15 Copynumber: 12.5 Consensus size: 15
16521185 TGTAAAAAAT
*
16521195 TTATTATATATATTA
1 TTATTATATTTATTA
16521210 TT-TT-TATTTATGTA
1 TTATTATATTTAT-TA
16521224 TTATT-TA-TTA-TA
1 TTATTATATTTATTA
16521236 TTATT-TA--TATT-
1 TTATTATATTTATTA
16521247 TTATTATATATT-TTA
1 TTATTATAT-TTATTA
16521262 TT-TATATATTTTATTA
1 TTAT-TATA-TTTATTA
*
16521278 TATATTATA-TCATT-
1 T-TATTATATTTATTA
*
16521292 TTATTATATATATTA
1 TTATTATATTTATTA
16521307 TTCATTATA-TTA-T-
1 TT-ATTATATTTATTA
16521320 TT-TTAT-TTTATTA
1 TTATTATATTTATTA
16521333 TATATTATATTATATTA
1 T-TATTATATT-TATTA
16521350 TTATTTATTATTTATTA
1 TTA-TTA-TATTTATTA
16521367 TTATGTATA
1 TTAT-TATA
16521376 ATTTTAAAAA
Statistics
Matches: 135, Mismatches: 5, Indels: 51
0.71 0.03 0.27
Matches are distributed among these distances:
11 14 0.10
12 13 0.10
13 16 0.12
14 18 0.13
15 27 0.20
16 18 0.13
17 24 0.18
18 5 0.04
ACGTcount: A:0.33, C:0.01, G:0.01, T:0.65
Consensus pattern (15 bp):
TTATTATATTTATTA
Found at i:16525651 original size:46 final size:46
Alignment explanation
Indices: 16525595--16525900 Score: 151
Period size: 46 Copynumber: 6.5 Consensus size: 46
16525585 TATGTGTGCT
16525595 AGTGTAAGACATGTCTGGGACAT-GCATCAGCCACAATATGAGAGTC
1 AGTGTAAGACATGTCTGGGACATGGCATCAGCCACAATATGAGAG-C
* * **** * *
16525641 AGTGTAAGACATGTCTGGGGCAT-ACATCAGCGTTGAGACGAGAGC
1 AGTGTAAGACATGTCTGGGACATGGCATCAGCCACAATATGAGAGC
* * * * * *
16525686 TAATGTAAGACATGTCTAGGACAT-GCATCGGTCTCGAGATA-GACAAGC
1 -AGTGTAAGACATGTCTGGGACATGGCATCAGCCAC-A-ATATGA-GAGC
* * ** * *
16525734 TAGTGTAAGACCTGTCTGGGACATGGCGTCAG-C-TTAT-TGTGTGTC
1 -AGTGTAAGACATGTCTGGGACATGGCATCAGCCACAATATGAGAG-C
* * * *
16525779 AGTGTAAGACCTGTCTGGGACATAGCATC-GACACTGATAGATGAGAGCC
1 AGTGTAAGACATGTCTGGGACATGGCATCAGCCAC--A-ATATGAGAG-C
* * ** * *
16525828 AGTGTAAGACCTGTCTAGGACATGGCATTGGCCTCACTATATGAAAGCC
1 AGTGTAAGACATGTCTGGGACATGGCATCAG-C-CACAATATGAGAG-C
16525877 AGTGTAAGACCATGTCTGGGACAT
1 AGTGTAAGA-CATGTCTGGGACAT
16525901 AGCGTCGGCA
Statistics
Matches: 197, Mismatches: 46, Indels: 30
0.72 0.17 0.11
Matches are distributed among these distances:
43 1 0.01
44 29 0.15
45 5 0.03
46 62 0.31
47 2 0.01
48 28 0.14
49 54 0.27
50 13 0.07
52 3 0.02
ACGTcount: A:0.29, C:0.19, G:0.28, T:0.24
Consensus pattern (46 bp):
AGTGTAAGACATGTCTGGGACATGGCATCAGCCACAATATGAGAGC
Found at i:16525850 original size:49 final size:49
Alignment explanation
Indices: 16525778--16525903 Score: 164
Period size: 49 Copynumber: 2.6 Consensus size: 49
16525768 TATTGTGTGT
* *
16525778 CAGTGTAAGACCTGTCTGGGACATAGCATCGACACTGA-TAGATGAGAGC
1 CAGTGTAAGACCTGTCTGGGACATAGCATCGAC-CTCACTAGATGAAAGC
* * * * *
16525827 CAGTGTAAGACCTGTCTAGGACATGGCATTGGCCTCACTATATGAAAGC
1 CAGTGTAAGACCTGTCTGGGACATAGCATCGACCTCACTAGATGAAAGC
16525876 CAGTGTAAGACCATGTCTGGGACATAGC
1 CAGTGTAAGACC-TGTCTGGGACATAGC
16525904 GTCGGCATCT
Statistics
Matches: 66, Mismatches: 9, Indels: 3
0.85 0.12 0.04
Matches are distributed among these distances:
48 3 0.05
49 50 0.76
50 13 0.20
ACGTcount: A:0.29, C:0.21, G:0.27, T:0.22
Consensus pattern (49 bp):
CAGTGTAAGACCTGTCTGGGACATAGCATCGACCTCACTAGATGAAAGC
Found at i:16529304 original size:12 final size:12
Alignment explanation
Indices: 16529289--16529315 Score: 54
Period size: 12 Copynumber: 2.2 Consensus size: 12
16529279 ACTATTTATT
16529289 TCACTTAGTTTC
1 TCACTTAGTTTC
16529301 TCACTTAGTTTC
1 TCACTTAGTTTC
16529313 TCA
1 TCA
16529316 AGTTCTAAGT
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 15 1.00
ACGTcount: A:0.19, C:0.26, G:0.07, T:0.48
Consensus pattern (12 bp):
TCACTTAGTTTC
Found at i:16529973 original size:17 final size:17
Alignment explanation
Indices: 16529951--16529984 Score: 50
Period size: 17 Copynumber: 2.0 Consensus size: 17
16529941 GTTGTTTTTG
* *
16529951 TGATTTGTATAATGTGA
1 TGATTTATAAAATGTGA
16529968 TGATTTATAAAATGTGA
1 TGATTTATAAAATGTGA
16529985 AATATTGATA
Statistics
Matches: 15, Mismatches: 2, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
17 15 1.00
ACGTcount: A:0.35, C:0.00, G:0.21, T:0.44
Consensus pattern (17 bp):
TGATTTATAAAATGTGA
Found at i:16529998 original size:22 final size:23
Alignment explanation
Indices: 16529968--16530012 Score: 56
Period size: 22 Copynumber: 2.0 Consensus size: 23
16529958 TATAATGTGA
*
16529968 TGATTTATAAAATGTG-AAATAT
1 TGATATATAAAATGTGTAAATAT
* *
16529990 TGATATATATATTGTGTAAATAT
1 TGATATATAAAATGTGTAAATAT
16530013 GTTATTAGCA
Statistics
Matches: 19, Mismatches: 3, Indels: 1
0.83 0.13 0.04
Matches are distributed among these distances:
22 13 0.68
23 6 0.32
ACGTcount: A:0.42, C:0.00, G:0.13, T:0.44
Consensus pattern (23 bp):
TGATATATAAAATGTGTAAATAT
Found at i:16530279 original size:47 final size:47
Alignment explanation
Indices: 16530171--16530281 Score: 150
Period size: 47 Copynumber: 2.4 Consensus size: 47
16530161 AAGGAGGAAG
* * * * *
16530171 AAGTGGCAATTTATATGTAAAAATGGTGGCTTGTCCATAATTTTATT
1 AAGTGGCAGTTTATCTGGAAAAATGGTGGCTTGTCCACAATATTATT
* * *
16530218 AAGTGGTAGTTTATCTGGAAAAGTGGTGGCTTGTCTACAATATTATT
1 AAGTGGCAGTTTATCTGGAAAAATGGTGGCTTGTCCACAATATTATT
16530265 AAGTGGCAGTTTATCTG
1 AAGTGGCAGTTTATCTG
16530282 CATTACTGTG
Statistics
Matches: 55, Mismatches: 9, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
47 55 1.00
ACGTcount: A:0.29, C:0.09, G:0.23, T:0.39
Consensus pattern (47 bp):
AAGTGGCAGTTTATCTGGAAAAATGGTGGCTTGTCCACAATATTATT
Found at i:16532895 original size:21 final size:21
Alignment explanation
Indices: 16532869--16532911 Score: 77
Period size: 21 Copynumber: 2.0 Consensus size: 21
16532859 ACTTGTTAAG
*
16532869 AGAAGAATTGCTCATTTTACT
1 AGAAGAATTGCTCATTTCACT
16532890 AGAAGAATTGCTCATTTCACT
1 AGAAGAATTGCTCATTTCACT
16532911 A
1 A
16532912 TGTATTTGTG
Statistics
Matches: 21, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
21 21 1.00
ACGTcount: A:0.35, C:0.16, G:0.14, T:0.35
Consensus pattern (21 bp):
AGAAGAATTGCTCATTTCACT
Found at i:16536908 original size:7 final size:7
Alignment explanation
Indices: 16536896--16536921 Score: 52
Period size: 7 Copynumber: 3.7 Consensus size: 7
16536886 TTTGGGTGTT
16536896 GTTTTAG
1 GTTTTAG
16536903 GTTTTAG
1 GTTTTAG
16536910 GTTTTAG
1 GTTTTAG
16536917 GTTTT
1 GTTTT
16536922 GGAGTTGTTG
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 19 1.00
ACGTcount: A:0.12, C:0.00, G:0.27, T:0.62
Consensus pattern (7 bp):
GTTTTAG
Found at i:16537127 original size:28 final size:28
Alignment explanation
Indices: 16537095--16537167 Score: 83
Period size: 28 Copynumber: 2.6 Consensus size: 28
16537085 GGGTTGTGTG
** *
16537095 GGCCACACGGGTGTATGTTAGGCCGTGA
1 GGCCACACGGGCCTATGTTAGGCCATGA
* *
16537123 GGCCATACGGGCCTGTGTTAGGCCATGA
1 GGCCACACGGGCCTATGTTAGGCCATGA
* *
16537151 GGCTACACGGGCATATG
1 GGCCACACGGGCCTATG
16537168 GGCCCATTTG
Statistics
Matches: 36, Mismatches: 9, Indels: 0
0.80 0.20 0.00
Matches are distributed among these distances:
28 36 1.00
ACGTcount: A:0.19, C:0.23, G:0.37, T:0.21
Consensus pattern (28 bp):
GGCCACACGGGCCTATGTTAGGCCATGA
Found at i:16547896 original size:13 final size:14
Alignment explanation
Indices: 16547878--16547919 Score: 50
Period size: 13 Copynumber: 2.9 Consensus size: 14
16547868 TTTTAATTTT
16547878 ATTTTAATAATA-A
1 ATTTTAATAATATA
*
16547891 ATTTTAAAAATAATA
1 ATTTTAATAAT-ATA
16547906 ATTTTAAATAATAT
1 ATTTT-AATAATAT
16547920 TATTCACATA
Statistics
Matches: 24, Mismatches: 2, Indels: 4
0.80 0.07 0.13
Matches are distributed among these distances:
13 10 0.42
14 1 0.04
15 8 0.33
16 5 0.21
ACGTcount: A:0.55, C:0.00, G:0.00, T:0.45
Consensus pattern (14 bp):
ATTTTAATAATATA
Found at i:16547904 original size:16 final size:16
Alignment explanation
Indices: 16547882--16547918 Score: 58
Period size: 16 Copynumber: 2.3 Consensus size: 16
16547872 AATTTTATTT
16547882 TAATAATAAATTTTAAA
1 TAATAAT-AATTTTAAA
16547899 -AATAATAATTTTAAA
1 TAATAATAATTTTAAA
16547914 TAATA
1 TAATA
16547919 TTATTCACAT
Statistics
Matches: 19, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
15 9 0.47
16 10 0.53
ACGTcount: A:0.59, C:0.00, G:0.00, T:0.41
Consensus pattern (16 bp):
TAATAATAATTTTAAA
Found at i:16548468 original size:14 final size:14
Alignment explanation
Indices: 16548448--16548490 Score: 59
Period size: 14 Copynumber: 3.1 Consensus size: 14
16548438 TTTTCAGAAA
16548448 AATAAATCATTTTC
1 AATAAATCATTTTC
*
16548462 TATAAATCATTTTC
1 AATAAATCATTTTC
* *
16548476 AAGAAATAATTTTC
1 AATAAATCATTTTC
16548490 A
1 A
16548491 GTGAAACAAA
Statistics
Matches: 25, Mismatches: 4, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
14 25 1.00
ACGTcount: A:0.44, C:0.12, G:0.02, T:0.42
Consensus pattern (14 bp):
AATAAATCATTTTC
Found at i:16548584 original size:19 final size:19
Alignment explanation
Indices: 16548562--16548632 Score: 56
Period size: 19 Copynumber: 3.8 Consensus size: 19
16548552 TTAAAATATA
16548562 ATTTTTAATATTTTTATTG
1 ATTTTTAATATTTTTATTG
* **
16548581 ATTTGTTGA-ATTTTTATAA
1 ATTT-TTAATATTTTTATTG
* *
16548600 ATTTTCATTATTTTT-TTG
1 ATTTTTAATATTTTTATTG
**
16548618 GGTTTTAATATTTTT
1 ATTTTTAATATTTTT
16548633 TACAATTTTT
Statistics
Matches: 38, Mismatches: 12, Indels: 5
0.69 0.22 0.09
Matches are distributed among these distances:
18 13 0.34
19 22 0.58
20 3 0.08
ACGTcount: A:0.24, C:0.01, G:0.08, T:0.66
Consensus pattern (19 bp):
ATTTTTAATATTTTTATTG
Found at i:16550859 original size:15 final size:15
Alignment explanation
Indices: 16550819--16550853 Score: 52
Period size: 15 Copynumber: 2.3 Consensus size: 15
16550809 ATATTTTTAG
*
16550819 TTATTGTTATTAATT
1 TTATTATTATTAATT
*
16550834 TTATTATTATTACTT
1 TTATTATTATTAATT
16550849 TTATT
1 TTATT
16550854 TCTATTTTTT
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
15 18 1.00
ACGTcount: A:0.26, C:0.03, G:0.03, T:0.69
Consensus pattern (15 bp):
TTATTATTATTAATT
Found at i:16550859 original size:21 final size:20
Alignment explanation
Indices: 16550831--16550870 Score: 53
Period size: 21 Copynumber: 1.9 Consensus size: 20
16550821 ATTGTTATTA
16550831 ATTTTATTATTATTACTTTT
1 ATTTTATTATTATTACTTTT
* *
16550851 ATTTCTATTTTTTTTACTTT
1 ATTT-TATTATTATTACTTT
16550871 CTTTATTTTC
Statistics
Matches: 17, Mismatches: 2, Indels: 1
0.85 0.10 0.05
Matches are distributed among these distances:
20 4 0.24
21 13 0.76
ACGTcount: A:0.20, C:0.07, G:0.00, T:0.72
Consensus pattern (20 bp):
ATTTTATTATTATTACTTTT
Found at i:16552422 original size:17 final size:18
Alignment explanation
Indices: 16552401--16552440 Score: 64
Period size: 17 Copynumber: 2.3 Consensus size: 18
16552391 GGAGTGTAGG
*
16552401 GTTGGACGGAGATTGTGT
1 GTTGGACGGAGATGGTGT
16552419 -TTGGACGGAGATGGTGT
1 GTTGGACGGAGATGGTGT
16552436 GTTGG
1 GTTGG
16552441 CTGGATGGGT
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
17 16 0.80
18 4 0.20
ACGTcount: A:0.15, C:0.05, G:0.47, T:0.33
Consensus pattern (18 bp):
GTTGGACGGAGATGGTGT
Found at i:16553415 original size:3 final size:3
Alignment explanation
Indices: 16553407--16553432 Score: 52
Period size: 3 Copynumber: 8.7 Consensus size: 3
16553397 GTGAGGGTTT
16553407 TTC TTC TTC TTC TTC TTC TTC TTC TT
1 TTC TTC TTC TTC TTC TTC TTC TTC TT
16553433 AAAGGTTAAC
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 23 1.00
ACGTcount: A:0.00, C:0.31, G:0.00, T:0.69
Consensus pattern (3 bp):
TTC
Found at i:16555197 original size:17 final size:18
Alignment explanation
Indices: 16555172--16555208 Score: 58
Period size: 17 Copynumber: 2.1 Consensus size: 18
16555162 CCATTTTTTC
16555172 AATTAAAAAAATAT-TAA
1 AATTAAAAAAATATATAA
*
16555189 AATTCAAAAAATATATAA
1 AATTAAAAAAATATATAA
16555207 AA
1 AA
16555209 AATTCAGAAA
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
17 13 0.72
18 5 0.28
ACGTcount: A:0.70, C:0.03, G:0.00, T:0.27
Consensus pattern (18 bp):
AATTAAAAAAATATATAA
Found at i:16555227 original size:22 final size:20
Alignment explanation
Indices: 16555187--16555225 Score: 60
Period size: 20 Copynumber: 1.9 Consensus size: 20
16555177 AAAAAATATT
16555187 AAAATTCAAAAAATATATAA
1 AAAATTCAAAAAATATATAA
* *
16555207 AAAATTCAGAAATTATATA
1 AAAATTCAAAAAATATATA
16555226 TATTTTTAAA
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
20 17 1.00
ACGTcount: A:0.64, C:0.05, G:0.03, T:0.28
Consensus pattern (20 bp):
AAAATTCAAAAAATATATAA
Found at i:16555306 original size:29 final size:31
Alignment explanation
Indices: 16555265--16555328 Score: 114
Period size: 29 Copynumber: 2.1 Consensus size: 31
16555255 GTGAAATTAA
16555265 AAAAGTAAGAAAATAAAAAAATAATTATTTT
1 AAAAGTAAGAAAATAAAAAAATAATTATTTT
16555296 AAAAGT-A-AAAATAAAAAAATAATTATTTT
1 AAAAGTAAGAAAATAAAAAAATAATTATTTT
16555325 AAAA
1 AAAA
16555329 ACACATGAAA
Statistics
Matches: 33, Mismatches: 0, Indels: 2
0.94 0.00 0.06
Matches are distributed among these distances:
29 26 0.79
30 1 0.03
31 6 0.18
ACGTcount: A:0.67, C:0.00, G:0.05, T:0.28
Consensus pattern (31 bp):
AAAAGTAAGAAAATAAAAAAATAATTATTTT
Found at i:16555350 original size:12 final size:12
Alignment explanation
Indices: 16555333--16555358 Score: 52
Period size: 12 Copynumber: 2.2 Consensus size: 12
16555323 TTAAAAACAC
16555333 ATGAAACATGAT
1 ATGAAACATGAT
16555345 ATGAAACATGAT
1 ATGAAACATGAT
16555357 AT
1 AT
16555359 ATTACTAAAT
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 14 1.00
ACGTcount: A:0.50, C:0.08, G:0.15, T:0.27
Consensus pattern (12 bp):
ATGAAACATGAT
Found at i:16563977 original size:46 final size:47
Alignment explanation
Indices: 16563871--16563992 Score: 147
Period size: 46 Copynumber: 2.6 Consensus size: 47
16563861 TGTCTTCGAC
** * *
16563871 ATGGACTTACATGAATTATTCCTGTCTCCAATGCCATATATATATCTAAT
1 ATGGACTTACATGGCTCATTCCTGTCTCCAAAGCC--A-ATATATCTAAT
* *
16563921 ATGGGCTTACATGGCTCATTCCTGTCTCCAAAGCC-ATATATCTGAT
1 ATGGACTTACATGGCTCATTCCTGTCTCCAAAGCCAATATATCTAAT
*
16563967 ATGGACTTACATGGCTCATTTCTGTC
1 ATGGACTTACATGGCTCATTCCTGTC
16563993 CTGTCCTGTC
Statistics
Matches: 64, Mismatches: 8, Indels: 4
0.84 0.11 0.05
Matches are distributed among these distances:
46 34 0.53
50 30 0.47
ACGTcount: A:0.26, C:0.23, G:0.15, T:0.36
Consensus pattern (47 bp):
ATGGACTTACATGGCTCATTCCTGTCTCCAAAGCCAATATATCTAAT
Found at i:16571400 original size:30 final size:30
Alignment explanation
Indices: 16571366--16571426 Score: 79
Period size: 30 Copynumber: 2.0 Consensus size: 30
16571356 TCCTTTACTC
*
16571366 AAACTTTT-CAAAAATTACATTTTTGCCCCT
1 AAACTTTTAC-AAAATTACACTTTTGCCCCT
* *
16571396 AAACTTTTACATATTTACACTTTTGCCCCT
1 AAACTTTTACAAAATTACACTTTTGCCCCT
16571426 A
1 A
16571427 GGCTTGGGAA
Statistics
Matches: 27, Mismatches: 3, Indels: 2
0.84 0.09 0.06
Matches are distributed among these distances:
30 26 0.96
31 1 0.04
ACGTcount: A:0.31, C:0.25, G:0.03, T:0.41
Consensus pattern (30 bp):
AAACTTTTACAAAATTACACTTTTGCCCCT
Found at i:16572750 original size:11 final size:12
Alignment explanation
Indices: 16572725--16572780 Score: 53
Period size: 13 Copynumber: 4.6 Consensus size: 12
16572715 AGAAAAACCA
16572725 AAAAGAAAAGAAG
1 AAAA-AAAAGAAG
16572738 AAAAAAAAG-AG
1 AAAAAAAAGAAG
*
16572749 -AAAGAAAGAAG
1 AAAAAAAAGAAG
*
16572760 AAAGAAAAGAGAGG
1 AAA-AAAA-AGAAG
16572774 AAAAAAA
1 AAAAAAA
16572781 TGATGGAGAA
Statistics
Matches: 36, Mismatches: 3, Indels: 8
0.77 0.06 0.17
Matches are distributed among these distances:
10 7 0.19
11 4 0.11
12 7 0.19
13 11 0.31
14 7 0.19
ACGTcount: A:0.77, C:0.00, G:0.23, T:0.00
Consensus pattern (12 bp):
AAAAAAAAGAAG
Found at i:16572755 original size:36 final size:36
Alignment explanation
Indices: 16572705--16572780 Score: 84
Period size: 34 Copynumber: 2.1 Consensus size: 36
16572695 TTTTCTTTTC
16572705 AAAAGACATAAGAAAAACCAAAAAGAAAAGA-AGAAAA
1 AAAAGACATAAGAAAAA--AAAAAGAAAAGAGAGAAAA
* * * *
16572742 AAAAGAGA-AAGAAAGAAGAAAGAAAAGAGAGGAAA
1 AAAAGACATAAGAAAAAAAAAAGAAAAGAGAGAAAA
16572777 AAAA
1 AAAA
16572781 TGATGGAGAA
Statistics
Matches: 34, Mismatches: 4, Indels: 4
0.81 0.10 0.10
Matches are distributed among these distances:
34 11 0.32
35 9 0.26
36 7 0.21
37 7 0.21
ACGTcount: A:0.75, C:0.04, G:0.20, T:0.01
Consensus pattern (36 bp):
AAAAGACATAAGAAAAAAAAAAGAAAAGAGAGAAAA
Found at i:16572756 original size:22 final size:23
Alignment explanation
Indices: 16572726--16572771 Score: 76
Period size: 22 Copynumber: 2.0 Consensus size: 23
16572716 GAAAAACCAA
16572726 AAAGAAAAGAAGAAAAAAAAGAG
1 AAAGAAAAGAAGAAAAAAAAGAG
*
16572749 AAAG-AAAGAAGAAAGAAAAGAG
1 AAAGAAAAGAAGAAAAAAAAGAG
16572771 A
1 A
16572772 GGAAAAAAAT
Statistics
Matches: 22, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
22 18 0.82
23 4 0.18
ACGTcount: A:0.76, C:0.00, G:0.24, T:0.00
Consensus pattern (23 bp):
AAAGAAAAGAAGAAAAAAAAGAG
Found at i:16572757 original size:19 final size:17
Alignment explanation
Indices: 16572724--16572780 Score: 62
Period size: 17 Copynumber: 3.2 Consensus size: 17
16572714 AAGAAAAACC
16572724 AAAAAGAAAAGAAGAAA
1 AAAAAGAAAAGAAGAAA
*
16572741 AAAAAGAGAAAGAA-AGA
1 AAAAAGA-AAAGAAGAAA
*
16572758 AGAAAGAAAAGAGAGGAAA
1 AAAAAGAAAAGA-A-GAAA
16572777 AAAA
1 AAAA
16572781 TGATGGAGAA
Statistics
Matches: 32, Mismatches: 4, Indels: 6
0.76 0.10 0.14
Matches are distributed among these distances:
16 5 0.16
17 16 0.50
18 6 0.19
19 5 0.16
ACGTcount: A:0.77, C:0.00, G:0.23, T:0.00
Consensus pattern (17 bp):
AAAAAGAAAAGAAGAAA
Found at i:16575240 original size:13 final size:13
Alignment explanation
Indices: 16575214--16575277 Score: 55
Period size: 13 Copynumber: 5.2 Consensus size: 13
16575204 CAAAAGACAC
**
16575214 AAGAAAAGCCAAA
1 AAGAAAAGAAAAA
16575227 AAGAAAAGAAAAA
1 AAGAAAAGAAAAA
* *
16575240 AA-AAGAGAAAGA
1 AAGAAAAGAAAAA
16575252 AAG--AAGAAAGAA
1 AAGAAAAGAAA-AA
16575264 AAG-AAAGAAAAA
1 AAGAAAAGAAAAA
16575276 AA
1 AA
16575278 TGATGGAGAA
Statistics
Matches: 42, Mismatches: 6, Indels: 7
0.76 0.11 0.13
Matches are distributed among these distances:
11 5 0.12
12 18 0.43
13 19 0.45
ACGTcount: A:0.78, C:0.03, G:0.19, T:0.00
Consensus pattern (13 bp):
AAGAAAAGAAAAA
Found at i:16575250 original size:16 final size:16
Alignment explanation
Indices: 16575224--16575276 Score: 81
Period size: 16 Copynumber: 3.3 Consensus size: 16
16575214 AAGAAAAGCC
16575224 AAAAAGAAAAGAAA-A
1 AAAAAGAAAAGAAAGA
16575239 AAAAAGAGAAAGAAAGA
1 AAAAAGA-AAAGAAAGA
*
16575256 AGAAAGAAAAGAAAGA
1 AAAAAGAAAAGAAAGA
16575272 AAAAA
1 AAAAA
16575277 ATGATGGAGA
Statistics
Matches: 34, Mismatches: 2, Indels: 3
0.87 0.05 0.08
Matches are distributed among these distances:
15 7 0.21
16 20 0.59
17 7 0.21
ACGTcount: A:0.81, C:0.00, G:0.19, T:0.00
Consensus pattern (16 bp):
AAAAAGAAAAGAAAGA
Found at i:16576860 original size:19 final size:19
Alignment explanation
Indices: 16576806--16576860 Score: 51
Period size: 19 Copynumber: 2.9 Consensus size: 19
16576796 TATGTCAAGT
*
16576806 TAAT-AAACAATTCAAAAA
1 TAATAAAACAAATCAAAAA
* *
16576824 TTATAAAA-ATAATAAAAAA
1 TAATAAAACA-AATCAAAAA
*
16576843 TAATAAAACAAGTCAAAA
1 TAATAAAACAAATCAAAA
16576861 TTTAAAAATA
Statistics
Matches: 28, Mismatches: 6, Indels: 5
0.72 0.15 0.13
Matches are distributed among these distances:
18 4 0.14
19 23 0.82
20 1 0.04
ACGTcount: A:0.69, C:0.07, G:0.02, T:0.22
Consensus pattern (19 bp):
TAATAAAACAAATCAAAAA
Found at i:16576878 original size:37 final size:38
Alignment explanation
Indices: 16576806--16576900 Score: 99
Period size: 37 Copynumber: 2.6 Consensus size: 38
16576796 TATGTCAAGT
* *
16576806 TAAT-AAACAATTCAAAAATTATAAAAATAATAAAAAA
1 TAATAAAACAAGTCAAAAATTATAAAAATAAAAAAAAA
*
16576843 TAATAAAACAAGTC-AAAATT-TAAAAATATAAAAAAAC
1 TAATAAAACAAGTCAAAAATTATAAAAATA-AAAAAAAA
* * *
16576880 TCATAAAA-AATTTAAAAATTA
1 TAATAAAACAAGTCAAAAATTA
16576901 GTATGAAATA
Statistics
Matches: 48, Mismatches: 6, Indels: 7
0.79 0.10 0.11
Matches are distributed among these distances:
36 11 0.23
37 29 0.60
38 8 0.17
ACGTcount: A:0.67, C:0.06, G:0.01, T:0.25
Consensus pattern (38 bp):
TAATAAAACAAGTCAAAAATTATAAAAATAAAAAAAAA
Found at i:16580176 original size:3 final size:3
Alignment explanation
Indices: 16580161--16580197 Score: 65
Period size: 3 Copynumber: 12.3 Consensus size: 3
16580151 TATTGGCCAA
*
16580161 ATT ATT GTT ATT ATT ATT ATT ATT ATT ATT ATT ATT A
1 ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT A
16580198 CCATTATGCT
Statistics
Matches: 32, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
3 32 1.00
ACGTcount: A:0.32, C:0.00, G:0.03, T:0.65
Consensus pattern (3 bp):
ATT
Found at i:16580357 original size:3 final size:3
Alignment explanation
Indices: 16580349--16580603 Score: 87
Period size: 3 Copynumber: 85.0 Consensus size: 3
16580339 ATTTTCTACT
* *
16580349 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TCT- TTA TTA ATA -CA
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA T-TA TTA TTA TTA TTA
* * * * *** * *
16580393 TTA CTA GTA TTT TTA TTA TCA TTA CCC TTA TTA ATA -TA TTA GTA TT-
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA
* * *
16580439 TTC TTA TTA GTAA TCTA TTA TTA TTC TTA TTA GTGTA TTA TTA TT- TCCTA
1 TTA TTA TTA -TTA T-TA TTA TTA TTA TTA TTA -T-TA TTA TTA TTA T--TA
* * * * *
16580489 TTTA TCA -TA TTA TTG TTG TTA TTA GTA TGTA -TA TTA TT- TT- TTC
1 -TTA TTA TTA TTA TTA TTA TTA TTA TTA T-TA TTA TTA TTA TTA TTA
* * * * * ** * * *
16580532 CTA TTA TTA TTA TTA CTA ATA TCA CTA TTA GCA TTT TTA TTA CTG TTA
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA
* *
16580580 TTA TTA TTA TTT TTG TTA TTA TTA
1 TTA TTA TTA TTA TTA TTA TTA TTA
16580604 ATTTTAATTC
Statistics
Matches: 182, Mismatches: 53, Indels: 34
0.68 0.20 0.13
Matches are distributed among these distances:
2 14 0.08
3 153 0.84
4 12 0.07
5 2 0.01
6 1 0.01
ACGTcount: A:0.29, C:0.08, G:0.05, T:0.59
Consensus pattern (3 bp):
TTA
Found at i:16580480 original size:23 final size:21
Alignment explanation
Indices: 16580419--16580484 Score: 69
Period size: 23 Copynumber: 3.0 Consensus size: 21
16580409 TATCATTACC
* *
16580419 CTTATTAATATATTAGTATTTT
1 CTTATTAGT-TATTATTATTTT
*
16580441 CTTATTAGTAATCTATTATTATT
1 CTTATTAGTTAT-TATTATT-TT
16580464 CTTATTAGTGTATTATTATTT
1 CTTATTAGT-TATTATTATTT
16580485 CCTATTTATC
Statistics
Matches: 37, Mismatches: 4, Indels: 6
0.79 0.09 0.13
Matches are distributed among these distances:
21 2 0.05
22 15 0.41
23 18 0.49
24 2 0.05
ACGTcount: A:0.29, C:0.06, G:0.06, T:0.59
Consensus pattern (21 bp):
CTTATTAGTTATTATTATTTT
Found at i:16584980 original size:25 final size:24
Alignment explanation
Indices: 16584936--16584987 Score: 77
Period size: 25 Copynumber: 2.1 Consensus size: 24
16584926 ATTATAGGGT
* *
16584936 TAGATAGATTTATCGACCCTACGA
1 TAGATAGATTCACCGACCCTACGA
16584960 TAGATAGCATTCACCGACCCTACGA
1 TAGATAG-ATTCACCGACCCTACGA
16584985 TAG
1 TAG
16584988 GCCCACAGCT
Statistics
Matches: 25, Mismatches: 2, Indels: 1
0.89 0.07 0.04
Matches are distributed among these distances:
24 7 0.28
25 18 0.72
ACGTcount: A:0.33, C:0.25, G:0.17, T:0.25
Consensus pattern (24 bp):
TAGATAGATTCACCGACCCTACGA
Found at i:16585377 original size:82 final size:82
Alignment explanation
Indices: 16585274--16585442 Score: 239
Period size: 82 Copynumber: 2.1 Consensus size: 82
16585264 CTCTGGCCAT
* * * * * * * *
16585274 CACATGACCGTTTCTTACGCACAGCCTGGCCTTCGTCGATCATACGGCCGTGTCATCACACACGG
1 CACACGACCGTGTCTTACGCACAACCTAGCCTTCGTCGATCACACGACCGTCTCATCACACACGA
16585339 CCTAACACACGGCCCAC
66 CCTAACACACGGCCCAC
* *
16585356 CACACGACCGTGTCTTACGCACAACCTAGCCTTCGTCGATCACACGATCGTCTCGTCACACACGA
1 CACACGACCGTGTCTTACGCACAACCTAGCCTTCGTCGATCACACGACCGTCTCATCACACACGA
*
16585421 CCTACCACACGGCCCAC
66 CCTAACACACGGCCCAC
16585438 CACAC
1 CACAC
16585443 AGTACTGTGG
Statistics
Matches: 76, Mismatches: 11, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
82 76 1.00
ACGTcount: A:0.24, C:0.41, G:0.17, T:0.18
Consensus pattern (82 bp):
CACACGACCGTGTCTTACGCACAACCTAGCCTTCGTCGATCACACGACCGTCTCATCACACACGA
CCTAACACACGGCCCAC
Found at i:16589106 original size:28 final size:28
Alignment explanation
Indices: 16589055--16589133 Score: 106
Period size: 28 Copynumber: 2.9 Consensus size: 28
16589045 CGTTTTTGGT
* *
16589055 AAAACGCCGCT-AAAAATAGAGCAATAG
1 AAAACGCAGCTAAAAAACAGAGCAATAG
*
16589082 AAAACGTAGCTAAAAAACAGAGCAATAG
1 AAAACGCAGCTAAAAAACAGAGCAATAG
* *
16589110 AAAACGCCGCTAAAAACCAGAGCA
1 AAAACGCAGCTAAAAAACAGAGCA
16589134 TTAGCGGCGC
Statistics
Matches: 45, Mismatches: 6, Indels: 1
0.87 0.12 0.02
Matches are distributed among these distances:
27 9 0.20
28 36 0.80
ACGTcount: A:0.53, C:0.20, G:0.18, T:0.09
Consensus pattern (28 bp):
AAAACGCAGCTAAAAAACAGAGCAATAG
Found at i:16589245 original size:54 final size:54
Alignment explanation
Indices: 16589187--16589294 Score: 119
Period size: 54 Copynumber: 2.0 Consensus size: 54
16589177 CCTAAAACTC
* * *
16589187 TAAACCCA-AAAAAATAATAAACATTCATCTATAACCCCTAAAACACTAAACCCT
1 TAAA-CCATAAAAAATAATAAACACTAAACTATAACCCCTAAAACACTAAACCCT
* * ** * *
16589241 TAAACTATAAAAACTCCTAAACACTAAACTATAACCCTTAAAACCCTAAACCCT
1 TAAACCATAAAAAATAATAAACACTAAACTATAACCCCTAAAACACTAAACCCT
16589295 AAAAAACATC
Statistics
Matches: 44, Mismatches: 9, Indels: 2
0.80 0.16 0.04
Matches are distributed among these distances:
53 2 0.05
54 42 0.95
ACGTcount: A:0.50, C:0.29, G:0.00, T:0.21
Consensus pattern (54 bp):
TAAACCATAAAAAATAATAAACACTAAACTATAACCCCTAAAACACTAAACCCT
Found at i:16590623 original size:8 final size:8
Alignment explanation
Indices: 16590587--16590683 Score: 99
Period size: 8 Copynumber: 11.9 Consensus size: 8
16590577 TTTATATGAT
16590587 AATTTAAA
1 AATTTAAA
16590595 AATTATAAA
1 AATT-TAAA
16590604 AATCTTCAAAA
1 AAT-TT--AAA
16590615 AATTTAAA
1 AATTTAAA
16590623 AA-TTAAA
1 AATTTAAA
*
16590630 AATTAAAA
1 AATTTAAA
16590638 AATTTAAA
1 AATTTAAA
16590646 AA-TTAAA
1 AATTTAAA
*
16590653 AACTTAAA
1 AATTTAAA
*
16590661 AACTTAAA
1 AATTTAAA
*
16590669 AACTTAAA
1 AATTTAAA
*
16590677 AACTTAA
1 AATTTAA
16590684 TATTTAATAT
Statistics
Matches: 81, Mismatches: 2, Indels: 12
0.85 0.02 0.13
Matches are distributed among these distances:
7 14 0.17
8 50 0.62
9 8 0.10
10 3 0.04
11 6 0.07
ACGTcount: A:0.64, C:0.06, G:0.00, T:0.30
Consensus pattern (8 bp):
AATTTAAA
Found at i:16590690 original size:23 final size:23
Alignment explanation
Indices: 16590587--16590683 Score: 115
Period size: 23 Copynumber: 4.0 Consensus size: 23
16590577 TTTATATGAT
16590587 AATTTAAAAATTATAAAAATCTTCAAAA
1 AATTTAAAAA-T-TAAAAA-CTT--AAA
16590615 AATTTAAAAATTAAAAA-TTAAAA
1 AATTTAAAAATTAAAAACTT-AAA
16590638 AATTTAAAAATTAAAAACTTAAA
1 AATTTAAAAATTAAAAACTTAAA
*
16590661 AACTTAAAAACTTAAAAACTTAA
1 AATTTAAAAA-TTAAAAACTTAA
16590684 TATTTAATAT
Statistics
Matches: 66, Mismatches: 1, Indels: 8
0.88 0.01 0.11
Matches are distributed among these distances:
23 33 0.50
24 16 0.24
26 6 0.09
27 1 0.02
28 10 0.15
ACGTcount: A:0.64, C:0.06, G:0.00, T:0.30
Consensus pattern (23 bp):
AATTTAAAAATTAAAAACTTAAA
Found at i:16596055 original size:23 final size:23
Alignment explanation
Indices: 16596028--16596112 Score: 109
Period size: 23 Copynumber: 3.7 Consensus size: 23
16596018 AAAGTGCTGC
16596028 AAATTGAAGTGTTTAAATGTTGT
1 AAATTGAAGTGTTTAAATGTTGT
*
16596051 AAATTGAAGTGCTTAAATGTTGT
1 AAATTGAAGTGTTTAAATGTTGT
* * *
16596074 AAATTGAAGGGTTTTAA-GTACTGC
1 AAATTGAAGTGTTTAAATGT--TGT
16596098 AAATTGAAGTGTTTA
1 AAATTGAAGTGTTTA
16596113 GCTGCGGGAA
Statistics
Matches: 53, Mismatches: 7, Indels: 3
0.84 0.11 0.05
Matches are distributed among these distances:
22 2 0.04
23 36 0.68
24 15 0.28
ACGTcount: A:0.35, C:0.04, G:0.22, T:0.39
Consensus pattern (23 bp):
AAATTGAAGTGTTTAAATGTTGT
Found at i:16596557 original size:19 final size:19
Alignment explanation
Indices: 16596534--16596580 Score: 51
Period size: 19 Copynumber: 2.5 Consensus size: 19
16596524 ATTTAATCTA
*
16596534 ATTTTTATTATTTA-TTTT
1 ATTTTTATTATATATTTTT
* *
16596552 AGTTTTGATTCTATATTTTT
1 A-TTTTTATTATATATTTTT
16596572 ATTTTTATT
1 ATTTTTATT
16596581 TTAATATTTA
Statistics
Matches: 23, Mismatches: 4, Indels: 3
0.77 0.13 0.10
Matches are distributed among these distances:
18 1 0.04
19 17 0.74
20 5 0.22
ACGTcount: A:0.21, C:0.02, G:0.04, T:0.72
Consensus pattern (19 bp):
ATTTTTATTATATATTTTT
Found at i:16606434 original size:13 final size:13
Alignment explanation
Indices: 16606416--16606440 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
16606406 TGGCCGTGTG
16606416 AAAGGACACGGGC
1 AAAGGACACGGGC
16606429 AAAGGACACGGG
1 AAAGGACACGGG
16606441 TGTGTGTCCA
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.40, C:0.20, G:0.40, T:0.00
Consensus pattern (13 bp):
AAAGGACACGGGC
Found at i:16615002 original size:55 final size:54
Alignment explanation
Indices: 16614907--16615056 Score: 149
Period size: 55 Copynumber: 2.8 Consensus size: 54
16614897 CTACTTTGTT
* ** * *
16614907 GCACTAAGTGTGCGAAATGAATATGAT-GCACTAAGTGTGCGAATTGACCATGCG
1 GCACTAAATGTGCGAGTTGACTAT-ATAGCACTAAGTGTGCGAATTGACCACGCG
* * * * ** *
16614961 GCACTAAGTGTGCGGGTTTGACTATGTAGCACTAAGTGTGCGATTTGATTACGTG
1 GCACTAAATGTGCGAG-TTGACTATATAGCACTAAGTGTGCGAATTGACCACGCG
* *
16615016 GCACTAAATGTGCGAGTTGATTATATAGCACTGAGTGTGCG
1 GCACTAAATGTGCGAGTTGACTATATAGCACTAAGTGTGCG
16615057 GGCTCAATAT
Statistics
Matches: 79, Mismatches: 15, Indels: 4
0.81 0.15 0.04
Matches are distributed among these distances:
54 37 0.47
55 42 0.53
ACGTcount: A:0.27, C:0.15, G:0.29, T:0.29
Consensus pattern (54 bp):
GCACTAAATGTGCGAGTTGACTATATAGCACTAAGTGTGCGAATTGACCACGCG
Found at i:16615019 original size:27 final size:27
Alignment explanation
Indices: 16614879--16615056 Score: 146
Period size: 27 Copynumber: 6.6 Consensus size: 27
16614869 TAAATTGTAC
16614879 AGCACTAAGTGTGCGATTCT-ACTT-TGT
1 AGCACTAAGTGTGCGATT-TGA-TTATGT
* ** *
16614906 TGCACTAAGTGTGCGAAATGAATATG-
1 AGCACTAAGTGTGCGATTTGATTATGT
* ** *
16614932 ATGCACTAAGTGTGCGAATTGACCATGC
1 A-GCACTAAGTGTGCGATTTGATTATGT
* * *
16614960 GGCACTAAGTGTGCGGGTTTGACTATGT
1 AGCACTAAGTGTGC-GATTTGATTATGT
*
16614988 AGCACTAAGTGTGCGATTTGATTACGT
1 AGCACTAAGTGTGCGATTTGATTATGT
* * * *
16615015 GGCACTAAATGTGCGAGTTGATTATAT
1 AGCACTAAGTGTGCGATTTGATTATGT
*
16615042 AGCACTGAGTGTGCG
1 AGCACTAAGTGTGCG
16615057 GGCTCAATAT
Statistics
Matches: 121, Mismatches: 25, Indels: 10
0.78 0.16 0.06
Matches are distributed among these distances:
26 2 0.02
27 97 0.80
28 22 0.18
ACGTcount: A:0.26, C:0.16, G:0.28, T:0.30
Consensus pattern (27 bp):
AGCACTAAGTGTGCGATTTGATTATGT
Found at i:16615020 original size:82 final size:81
Alignment explanation
Indices: 16614880--16615035 Score: 190
Period size: 82 Copynumber: 1.9 Consensus size: 81
16614870 AAATTGTACA
* * * *
16614880 GCACTAAGTGTGCGATTCTACTTTGTTGCACTAAGTGTGCGAAATGAATATGATGCACTAAGTGT
1 GCACTAAGTGTGCGATTCTACTATGTAGCACTAAGTGTGCGAAATGAATACGATGCACTAAATGT
16614945 GCGAATTGACCATGCG
66 GCGAATTGACCATGCG
* ** *
16614961 GCACTAAGTGTGCGGGTT-TGACTATGTAGCACTAAGTGTGCGATTTGATTACG-TGGCACTAAA
1 GCACTAAGTGTGC-GATTCT-ACTATGTAGCACTAAGTGTGCGAAATGAATACGAT-GCACTAAA
*
16615024 TGTGCGAGTTGA
63 TGTGCGAATTGA
16615036 TTATATAGCA
Statistics
Matches: 63, Mismatches: 9, Indels: 5
0.82 0.12 0.06
Matches are distributed among these distances:
81 15 0.24
82 48 0.76
ACGTcount: A:0.26, C:0.16, G:0.28, T:0.30
Consensus pattern (81 bp):
GCACTAAGTGTGCGATTCTACTATGTAGCACTAAGTGTGCGAAATGAATACGATGCACTAAATGT
GCGAATTGACCATGCG
Found at i:16625907 original size:11 final size:11
Alignment explanation
Indices: 16625891--16625915 Score: 50
Period size: 11 Copynumber: 2.3 Consensus size: 11
16625881 GTTAGCATAT
16625891 ACAAGCAAAAA
1 ACAAGCAAAAA
16625902 ACAAGCAAAAA
1 ACAAGCAAAAA
16625913 ACA
1 ACA
16625916 CTTTACAAAA
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 14 1.00
ACGTcount: A:0.72, C:0.20, G:0.08, T:0.00
Consensus pattern (11 bp):
ACAAGCAAAAA
Found at i:16631628 original size:49 final size:49
Alignment explanation
Indices: 16631488--16631629 Score: 194
Period size: 49 Copynumber: 2.9 Consensus size: 49
16631478 AACATCGACT
** *
16631488 GCCAACCTAGTTAATAACTAACATGTCCTACCAGTGGCCCAACATACAC
1 GCCAACCTAGTTAGCAACTAACATGTCCTACCAGTGGCCCATCATACAC
* *
16631537 GCCAACCTAGTTAGCAACTAACATGTCCTACAAGTGGCCCATCATGCAC
1 GCCAACCTAGTTAGCAACTAACATGTCCTACCAGTGGCCCATCATACAC
* * * * *
16631586 TCCCACCTGGTTAGCAGCTAACATGTCCTACCAGTGGTCCATCA
1 GCCAACCTAGTTAGCAACTAACATGTCCTACCAGTGGCCCATCA
16631630 CATCTGTCAT
Statistics
Matches: 82, Mismatches: 11, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
49 82 1.00
ACGTcount: A:0.30, C:0.33, G:0.15, T:0.22
Consensus pattern (49 bp):
GCCAACCTAGTTAGCAACTAACATGTCCTACCAGTGGCCCATCATACAC
Found at i:16637746 original size:17 final size:17
Alignment explanation
Indices: 16637724--16637782 Score: 68
Period size: 17 Copynumber: 3.5 Consensus size: 17
16637714 TTTTTATGTT
16637724 TTATATATATTATTTTA
1 TTATATATATTATTTTA
*
16637741 TTATATA-ATATATTATA
1 TTATATATAT-TATTTTA
*
16637758 TTATAT-TAATTATATTA
1 TTATATAT-ATTATTTTA
16637775 TTATATAT
1 TTATATAT
16637783 TAAATAAACC
Statistics
Matches: 35, Mismatches: 3, Indels: 7
0.78 0.07 0.16
Matches are distributed among these distances:
16 2 0.06
17 30 0.86
18 3 0.09
ACGTcount: A:0.41, C:0.00, G:0.00, T:0.59
Consensus pattern (17 bp):
TTATATATATTATTTTA
Found at i:16637751 original size:22 final size:21
Alignment explanation
Indices: 16637726--16637785 Score: 63
Period size: 22 Copynumber: 2.9 Consensus size: 21
16637716 TTTATGTTTT
*
16637726 ATATATATTATTTTATTATATA
1 ATATATATTATTATATTA-ATA
*
16637748 ATATAT-TATATTATATTAATT
1 ATATATAT-TATTATATTAATA
16637769 ATAT-TATTA-TATATTAA
1 ATATATATTATTATATTAA
16637786 ATAAACCAAA
Statistics
Matches: 34, Mismatches: 2, Indels: 7
0.79 0.05 0.16
Matches are distributed among these distances:
19 8 0.24
20 3 0.09
21 8 0.24
22 15 0.44
ACGTcount: A:0.43, C:0.00, G:0.00, T:0.57
Consensus pattern (21 bp):
ATATATATTATTATATTAATA
Found at i:16637763 original size:5 final size:5
Alignment explanation
Indices: 16637724--16637784 Score: 60
Period size: 5 Copynumber: 12.6 Consensus size: 5
16637714 TTTTTATGTT
16637724 TTATA -TATA TTAT- TT-TA TTATA TAATATA TTATA TTATA TTA-A TTATA
1 TTATA TTATA TTATA TTATA TTATA T--TATA TTATA TTATA TTATA TTATA
16637772 TTAT- TATATA TTA
1 TTATA T-TATA TTA
16637785 AATAAACCAA
Statistics
Matches: 48, Mismatches: 0, Indels: 16
0.75 0.00 0.25
Matches are distributed among these distances:
3 1 0.02
4 13 0.27
5 28 0.58
6 1 0.02
7 5 0.10
ACGTcount: A:0.41, C:0.00, G:0.00, T:0.59
Consensus pattern (5 bp):
TTATA
Found at i:16637978 original size:15 final size:15
Alignment explanation
Indices: 16637960--16637988 Score: 58
Period size: 15 Copynumber: 1.9 Consensus size: 15
16637950 AAAGTAAGTA
16637960 AAACAAAAGAAAAAG
1 AAACAAAAGAAAAAG
16637975 AAACAAAAGAAAAA
1 AAACAAAAGAAAAA
16637989 CAGGAAAGAA
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 14 1.00
ACGTcount: A:0.83, C:0.07, G:0.10, T:0.00
Consensus pattern (15 bp):
AAACAAAAGAAAAAG
Found at i:16658548 original size:22 final size:23
Alignment explanation
Indices: 16658517--16658559 Score: 70
Period size: 22 Copynumber: 1.9 Consensus size: 23
16658507 GGTTGAACTT
16658517 GATAGGAAAAACACGGGCGTGGG
1 GATAGGAAAAACACGGGCGTGGG
*
16658540 GATA-GAAAACCACGGGCGTG
1 GATAGGAAAAACACGGGCGTG
16658560 CCAGGGACAA
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
22 15 0.79
23 4 0.21
ACGTcount: A:0.35, C:0.16, G:0.40, T:0.09
Consensus pattern (23 bp):
GATAGGAAAAACACGGGCGTGGG
Found at i:16660597 original size:6 final size:6
Alignment explanation
Indices: 16660571--16660640 Score: 67
Period size: 6 Copynumber: 11.8 Consensus size: 6
16660561 TGAATCCTCC
*
16660571 TATTTT T-TTATT TATTCT TATTTT TA-TTT TA-TTT TA-TTT TATTTT
1 TATTTT TATT-TT TATTTT TATTTT TATTTT TATTTT TATTTT TATTTT
*
16660616 ATTTATTT TATTTT TATTTT TATTT
1 -TAT-TTT TATTTT TATTTT TATTT
16660641 AAATTTTATT
Statistics
Matches: 55, Mismatches: 4, Indels: 10
0.80 0.06 0.14
Matches are distributed among these distances:
5 17 0.31
6 29 0.53
7 6 0.11
8 3 0.05
ACGTcount: A:0.19, C:0.01, G:0.00, T:0.80
Consensus pattern (6 bp):
TATTTT
Found at i:16660602 original size:5 final size:5
Alignment explanation
Indices: 16660576--16660660 Score: 88
Period size: 5 Copynumber: 16.8 Consensus size: 5
16660566 CCTCCTATTT
16660576 TTTTA -TTTA TTCTTA TTTTTA TTTTA TTTTA TTTTA TTTTA -TTTA TTTTA
1 TTTTA TTTTA TT-TTA -TTTTA TTTTA TTTTA TTTTA TTTTA TTTTA TTTTA
*
16660626 TTTTTA TTTTTA TTTAAA TTTTA --TTA TTTTA TTTT
1 -TTTTA -TTTTA TTT-TA TTTTA TTTTA TTTTA TTTT
16660661 GAAAGACATA
Statistics
Matches: 70, Mismatches: 2, Indels: 16
0.80 0.02 0.18
Matches are distributed among these distances:
3 3 0.04
4 8 0.11
5 36 0.51
6 21 0.30
7 2 0.03
ACGTcount: A:0.21, C:0.01, G:0.00, T:0.78
Consensus pattern (5 bp):
TTTTA
Found at i:16660617 original size:36 final size:37
Alignment explanation
Indices: 16660576--16660660 Score: 122
Period size: 36 Copynumber: 2.4 Consensus size: 37
16660566 CCTCCTATTT
*
16660576 TTTTATTTATTCTTATTTTTA-TTTTATTT-TATTTTA
1 TTTTATTTATT-TTATTTTTATTTTTATTTAAATTTTA
16660612 TTTTATTTATTTTATTTTTATTTTTATTTAAATTTTA
1 TTTTATTTATTTTATTTTTATTTTTATTTAAATTTTA
*
16660649 TTAT-TTTATTTT
1 TTTTATTTATTTT
16660661 GAAAGACATA
Statistics
Matches: 45, Mismatches: 2, Indels: 4
0.88 0.04 0.08
Matches are distributed among these distances:
35 9 0.20
36 27 0.60
37 9 0.20
ACGTcount: A:0.21, C:0.01, G:0.00, T:0.78
Consensus pattern (37 bp):
TTTTATTTATTTTATTTTTATTTTTATTTAAATTTTA
Done.