Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Gbar_D09
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: 51526817
ACGTcount: A:0.33, C:0.16, G:0.16, T:0.33
Warning! 216316 characters in sequence are not A, C, G, or T
File 63 of 172
Found at i:17452332 original size:27 final size:28
Alignment explanation
Indices: 17452296--17452356 Score: 106
Period size: 27 Copynumber: 2.2 Consensus size: 28
17452286 TTAGGTTAAG
17452296 GGGTTAGGGTTTTTAAGTTAAGG-GTTA
1 GGGTTAGGGTTTTTAAGTTAAGGTGTTA
*
17452323 GGGTTAGGGTTTTTAGGTTAAGGTGTTA
1 GGGTTAGGGTTTTTAAGTTAAGGTGTTA
17452351 GGGTTA
1 GGGTTA
17452357 AAGGTTAGGG
Statistics
Matches: 32, Mismatches: 1, Indels: 1
0.94 0.03 0.03
Matches are distributed among these distances:
27 22 0.69
28 10 0.31
ACGTcount: A:0.20, C:0.00, G:0.39, T:0.41
Consensus pattern (28 bp):
GGGTTAGGGTTTTTAAGTTAAGGTGTTA
Found at i:17452647 original size:21 final size:21
Alignment explanation
Indices: 17452623--17452671 Score: 64
Period size: 21 Copynumber: 2.3 Consensus size: 21
17452613 ATTTGTCTAG
*
17452623 CTTCCGGCGGCGG-TTGTGGTT
1 CTTCCGGCGG-GGATTCTGGTT
*
17452644 CTTCCGACGGGGATTCTGGTT
1 CTTCCGGCGGGGATTCTGGTT
17452665 CTTCCGG
1 CTTCCGG
17452672 TAGGGTATCT
Statistics
Matches: 24, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
20 2 0.08
21 22 0.92
ACGTcount: A:0.04, C:0.27, G:0.37, T:0.33
Consensus pattern (21 bp):
CTTCCGGCGGGGATTCTGGTT
Found at i:17452959 original size:18 final size:18
Alignment explanation
Indices: 17452927--17452972 Score: 58
Period size: 18 Copynumber: 2.6 Consensus size: 18
17452917 GACTCGAAAA
*
17452927 AGGAAACA-AATAAGGGTT
1 AGGAAACATAA-AAGGGCT
*
17452945 AGGATACATAAAAGGGCT
1 AGGAAACATAAAAGGGCT
17452963 AGGAAACATA
1 AGGAAACATA
17452973 CTTGGTATCA
Statistics
Matches: 24, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
18 22 0.92
19 2 0.08
ACGTcount: A:0.50, C:0.09, G:0.26, T:0.15
Consensus pattern (18 bp):
AGGAAACATAAAAGGGCT
Found at i:17454755 original size:19 final size:19
Alignment explanation
Indices: 17454733--17454771 Score: 60
Period size: 19 Copynumber: 2.1 Consensus size: 19
17454723 TTTTTACAGT
17454733 TTAAAAATTTTTTAAAAAA
1 TTAAAAATTTTTTAAAAAA
* *
17454752 TTAAAATTTTTTTTAAAAA
1 TTAAAAATTTTTTAAAAAA
17454771 T
1 T
17454772 ATTTAAATAT
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
19 18 1.00
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (19 bp):
TTAAAAATTTTTTAAAAAA
Found at i:17454858 original size:11 final size:11
Alignment explanation
Indices: 17454843--17454900 Score: 89
Period size: 11 Copynumber: 5.2 Consensus size: 11
17454833 ATGGATTTGA
17454843 GAAATTGAGAG
1 GAAATTGAGAG
*
17454854 CAAATTGAGAG
1 GAAATTGAGAG
17454865 GAAATTGAGAG
1 GAAATTGAGAG
*
17454876 AAAATTGAGAG
1 GAAATTGAGAG
17454887 GAAATTTGAGAG
1 GAAA-TTGAGAG
17454899 GA
1 GA
17454901 TTAGTTTGTG
Statistics
Matches: 42, Mismatches: 4, Indels: 1
0.89 0.09 0.02
Matches are distributed among these distances:
11 33 0.79
12 9 0.21
ACGTcount: A:0.47, C:0.02, G:0.33, T:0.19
Consensus pattern (11 bp):
GAAATTGAGAG
Found at i:17460355 original size:32 final size:32
Alignment explanation
Indices: 17460314--17460398 Score: 170
Period size: 32 Copynumber: 2.7 Consensus size: 32
17460304 TTTCAATTAG
17460314 AAATAAAATAGTTAATTTAAATCATACCAAAA
1 AAATAAAATAGTTAATTTAAATCATACCAAAA
17460346 AAATAAAATAGTTAATTTAAATCATACCAAAA
1 AAATAAAATAGTTAATTTAAATCATACCAAAA
17460378 AAATAAAATAGTTAATTTAAA
1 AAATAAAATAGTTAATTTAAA
17460399 ATATGTTGTT
Statistics
Matches: 53, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
32 53 1.00
ACGTcount: A:0.60, C:0.07, G:0.04, T:0.29
Consensus pattern (32 bp):
AAATAAAATAGTTAATTTAAATCATACCAAAA
Found at i:17461686 original size:60 final size:60
Alignment explanation
Indices: 17461593--17461738 Score: 147
Period size: 60 Copynumber: 2.4 Consensus size: 60
17461583 GTTGGTTATC
* * *
17461593 CAACTTTTAGTA-TGCTTTCATTTCAGACACCCAAAATAAAATAAT-TGTAACTTGGTCAC-
1 CAACTTTTAG-AGTGCTTTCATTTTAGACACCCAAAATAAAAT-ATCTATAACTTAGTCACT
* * * * * *
17461652 CTAACTTTTAGAGTGCTTTCATTTTGGTCTCCCAAAATGAAATCTCTATAATTTAGTCACT
1 C-AACTTTTAGAGTGCTTTCATTTTAGACACCCAAAATAAAATATCTATAACTTAGTCACT
17461713 CAACTTTTAG-GATGCTTTCATTTTAG
1 CAACTTTTAGAG-TGCTTTCATTTTAG
17461739 TCCTCAAGTG
Statistics
Matches: 72, Mismatches: 10, Indels: 9
0.79 0.11 0.10
Matches are distributed among these distances:
59 4 0.06
60 67 0.93
61 1 0.01
ACGTcount: A:0.30, C:0.19, G:0.12, T:0.39
Consensus pattern (60 bp):
CAACTTTTAGAGTGCTTTCATTTTAGACACCCAAAATAAAATATCTATAACTTAGTCACT
Found at i:17470501 original size:28 final size:29
Alignment explanation
Indices: 17470461--17470516 Score: 71
Period size: 28 Copynumber: 2.0 Consensus size: 29
17470451 TTTTAATTAA
*
17470461 TAAAAATTGTATTT-TTTTAAAAAATATTT
1 TAAAAAATGTATTTATTTT-AAAAATATTT
*
17470490 TAAAAAAT-TATTTATTTTCAAAATATT
1 TAAAAAATGTATTTATTTTAAAAATATT
17470517 ATTTTTAACT
Statistics
Matches: 24, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
28 13 0.54
29 11 0.46
ACGTcount: A:0.46, C:0.02, G:0.02, T:0.50
Consensus pattern (29 bp):
TAAAAAATGTATTTATTTTAAAAATATTT
Found at i:17470507 original size:17 final size:18
Alignment explanation
Indices: 17470485--17470520 Score: 56
Period size: 18 Copynumber: 2.1 Consensus size: 18
17470475 TTTTAAAAAA
17470485 TATTTT-AAAAAATTATT
1 TATTTTCAAAAAATTATT
*
17470502 TATTTTCAAAATATTATT
1 TATTTTCAAAAAATTATT
17470520 T
1 T
17470521 TTAACTGACT
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
17 6 0.35
18 11 0.65
ACGTcount: A:0.42, C:0.03, G:0.00, T:0.56
Consensus pattern (18 bp):
TATTTTCAAAAAATTATT
Found at i:17476815 original size:40 final size:39
Alignment explanation
Indices: 17476731--17476915 Score: 203
Period size: 40 Copynumber: 4.6 Consensus size: 39
17476721 TTGAATGATG
* * * *
17476731 TCCGGGCTAAGTCCCGAAGGC-TTTGTGCTAAGTGACCATA
1 TCCGGGCTAAGT-CCGAAGGCATTTGTGC-GAGTTACTAAA
* * *
17476771 TCCGGACTAAGATCCGAAGGCATTTGTGCGAGATACTAAT
1 TCCGGGCTAAG-TCCGAAGGCATTTGTGCGAGTTACTAAA
* *
17476811 TCCGGGCTAAGCCCGAAGGCATTTGCGCGAGTTACTAAA
1 TCCGGGCTAAGTCCGAAGGCATTTGTGCGAGTTACTAAA
*
17476850 TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAA
1 TCCGGGCTAAGT-CCGAAGGCATTTGTGCGAGTTACTA-AA
*
17476891 -CCGGGCTATGTCCCGAAGGCATTTG
1 TCCGGGCTAAGT-CCGAAGGCATTTG
17476916 AACGAGGAGC
Statistics
Matches: 124, Mismatches: 17, Indels: 8
0.83 0.11 0.05
Matches are distributed among these distances:
39 34 0.27
40 80 0.65
41 10 0.08
ACGTcount: A:0.24, C:0.23, G:0.28, T:0.25
Consensus pattern (39 bp):
TCCGGGCTAAGTCCGAAGGCATTTGTGCGAGTTACTAAA
Found at i:17476867 original size:79 final size:81
Alignment explanation
Indices: 17476731--17476915 Score: 227
Period size: 79 Copynumber: 2.3 Consensus size: 81
17476721 TTGAATGATG
* *
17476731 TCCGGGCTAAGTCCCGAAGGC-TTTGTGCTAAGTGACCATATCCGGACTAAGATCCGAAGGCATT
1 TCCGGGCTAAGTCCCGAAGGCATTTGCGCTAAGTGACCAAATCCGGACTAAGATCCGAAGGCATT
17476795 TGTGCGAGATACTA-A
66 TGTGCGAGATACTATA
* * * **
17476810 TTCCGGGCTAAG-CCCGAAGGCATTTGCGC-GAGTTACTAAATCCGGGTTAAG-TCCCGAAGGCA
1 -TCCGGGCTAAGTCCCGAAGGCATTTGCGCTAAGTGACCAAATCCGGACTAAGAT-CCGAAGGCA
*
17476872 TTTGTGCGAGTTACTATA
64 TTTGTGCGAGATACTATA
* *
17476890 ACCGGGCTATGTCCCGAAGGCATTTG
1 TCCGGGCTAAGTCCCGAAGGCATTTG
17476916 AACGAGGAGC
Statistics
Matches: 91, Mismatches: 10, Indels: 8
0.83 0.09 0.07
Matches are distributed among these distances:
78 1 0.01
79 58 0.64
80 32 0.35
ACGTcount: A:0.24, C:0.23, G:0.28, T:0.25
Consensus pattern (81 bp):
TCCGGGCTAAGTCCCGAAGGCATTTGCGCTAAGTGACCAAATCCGGACTAAGATCCGAAGGCATT
TGTGCGAGATACTATA
Found at i:17476937 original size:79 final size:79
Alignment explanation
Indices: 17476732--17476948 Score: 201
Period size: 79 Copynumber: 2.7 Consensus size: 79
17476722 TGAATGATGT
** * * * **
17476732 CCGGGCTAAGTCCCGAAGGC-TTTGTGCTAAGTGACCATATCCGGACTAAGAT-CCGAAGGCATT
1 CCGGGCTAAG-CCCGAAGGCATTTGAAC-GAGTGACTAAATCCGGGTTAA-ATCCCGAAGGCATT
*
17476795 TGTGCGAGATACTAATT
63 TGTGCGAGATACTAATA
** * *
17476812 CCGGGCTAAGCCCGAAGGCATTTGCGCGAGTTACTAAATCCGGGTTAAGTCCCGAAGGCATTTGT
1 CCGGGCTAAGCCCGAAGGCATTTGAACGAGTGACTAAATCCGGGTTAAATCCCGAAGGCATTTGT
*
17476877 GCGAGTTACT-ATAA
66 GCGAGATACTAAT-A
* * *
17476891 CCGGGCTATGTCCCGAAGGCATTTGAACGAG-GAGCTATATCC-GGTTAAATTCCGAAGG
1 CCGGGCTAAG-CCCGAAGGCATTTGAACGAGTGA-CTAAATCCGGGTTAAATCCCGAAGG
17476949 TACGTGATTT
Statistics
Matches: 115, Mismatches: 17, Indels: 11
0.80 0.12 0.08
Matches are distributed among these distances:
78 3 0.03
79 71 0.62
80 41 0.36
ACGTcount: A:0.26, C:0.23, G:0.28, T:0.24
Consensus pattern (79 bp):
CCGGGCTAAGCCCGAAGGCATTTGAACGAGTGACTAAATCCGGGTTAAATCCCGAAGGCATTTGT
GCGAGATACTAATA
Found at i:17484861 original size:79 final size:81
Alignment explanation
Indices: 17484725--17484909 Score: 236
Period size: 79 Copynumber: 2.3 Consensus size: 81
17484715 TTGAATGATG
*
17484725 TCCGGGCTAAGTCCCGAAGGC-TTTGTGCTAAGTGACCATATCCGGACTAAGATCCGAAGGCATT
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCTAAGTGACCAAATCCGGACTAAGATCCGAAGGCATT
17484789 TGTGCGAGATACTA-A
66 TGTGCGAGATACTATA
* * * **
17484804 TTCCGGGCTAAG-CCCGAAGGCATTTGTGC-GAGTTACTAAATCCGGGTTAAG-TCCCGAAGGCA
1 -TCCGGGCTAAGTCCCGAAGGCATTTGTGCTAAGTGACCAAATCCGGACTAAGAT-CCGAAGGCA
*
17484866 TTTGTGCGAGTTACTATA
64 TTTGTGCGAGATACTATA
* *
17484884 ACCGGGCTATGTCCCGAAGGCATTTG
1 TCCGGGCTAAGTCCCGAAGGCATTTG
17484910 AACGAGGAGC
Statistics
Matches: 92, Mismatches: 9, Indels: 8
0.84 0.08 0.07
Matches are distributed among these distances:
78 1 0.01
79 58 0.63
80 33 0.36
ACGTcount: A:0.24, C:0.23, G:0.28, T:0.25
Consensus pattern (81 bp):
TCCGGGCTAAGTCCCGAAGGCATTTGTGCTAAGTGACCAAATCCGGACTAAGATCCGAAGGCATT
TGTGCGAGATACTATA
Found at i:17484923 original size:40 final size:40
Alignment explanation
Indices: 17484726--17484909 Score: 216
Period size: 40 Copynumber: 4.6 Consensus size: 40
17484716 TGAATGATGT
* * * *
17484726 CCGGGCTAAGTCCCGAAGGC-TTTGTGCTAAGTGACCATAT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGC-GAGTTACTATAA
* * *
17484766 CCGGACTAAGAT-CCGAAGGCATTTGTGCGAGATACTA-ATT
1 CCGGGCTAAG-TCCCGAAGGCATTTGTGCGAGTTACTATA-A
17484806 CCGGGCTAAG-CCCGAAGGCATTTGTGCGAGTTACTA-AA
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAA
*
17484844 TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAA
1 -CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAA
*
17484885 CCGGGCTATGTCCCGAAGGCATTTG
1 CCGGGCTAAGTCCCGAAGGCATTTG
17484910 AACGAGGAGC
Statistics
Matches: 126, Mismatches: 11, Indels: 14
0.83 0.07 0.09
Matches are distributed among these distances:
39 35 0.28
40 81 0.64
41 10 0.08
ACGTcount: A:0.24, C:0.23, G:0.28, T:0.25
Consensus pattern (40 bp):
CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAA
Found at i:17484931 original size:79 final size:79
Alignment explanation
Indices: 17484726--17484942 Score: 201
Period size: 79 Copynumber: 2.7 Consensus size: 79
17484716 TGAATGATGT
** * * * **
17484726 CCGGGCTAAGTCCCGAAGGC-TTTGTGCTAAGTGACCATATCCGGACTAAGAT-CCGAAGGCATT
1 CCGGGCTAAG-CCCGAAGGCATTTGAAC-GAGTGACTAAATCCGGGTTAA-ATCCCGAAGGCATT
*
17484789 TGTGCGAGATACTAATT
63 TGTGCGAGATACTAATA
** * *
17484806 CCGGGCTAAGCCCGAAGGCATTTGTGCGAGTTACTAAATCCGGGTTAAGTCCCGAAGGCATTTGT
1 CCGGGCTAAGCCCGAAGGCATTTGAACGAGTGACTAAATCCGGGTTAAATCCCGAAGGCATTTGT
*
17484871 GCGAGTTACT-ATAA
66 GCGAGATACTAAT-A
* * *
17484885 CCGGGCTATGTCCCGAAGGCATTTGAACGAG-GAGCTATATCC-GGTTAAATTCCGAAGG
1 CCGGGCTAAG-CCCGAAGGCATTTGAACGAGTGA-CTAAATCCGGGTTAAATCCCGAAGG
17484943 TACGTGATTT
Statistics
Matches: 116, Mismatches: 16, Indels: 11
0.81 0.11 0.08
Matches are distributed among these distances:
78 3 0.03
79 71 0.61
80 42 0.36
ACGTcount: A:0.26, C:0.22, G:0.28, T:0.24
Consensus pattern (79 bp):
CCGGGCTAAGCCCGAAGGCATTTGAACGAGTGACTAAATCCGGGTTAAATCCCGAAGGCATTTGT
GCGAGATACTAATA
Found at i:17487788 original size:38 final size:38
Alignment explanation
Indices: 17487737--17487814 Score: 120
Period size: 38 Copynumber: 2.1 Consensus size: 38
17487727 ATGAACTTAT
* * *
17487737 GCAATGTTTTTTCTTCGTGCAATGTGAGAAAGAAGAAG
1 GCAATGTTTTTTCTTCATACAATGTGAGAAAGAAAAAG
*
17487775 GCAATGTTTTTTCTTCATATAATGTGAGAAAGAAAAAG
1 GCAATGTTTTTTCTTCATACAATGTGAGAAAGAAAAAG
17487813 GC
1 GC
17487815 TACTATCTGC
Statistics
Matches: 36, Mismatches: 4, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
38 36 1.00
ACGTcount: A:0.35, C:0.10, G:0.23, T:0.32
Consensus pattern (38 bp):
GCAATGTTTTTTCTTCATACAATGTGAGAAAGAAAAAG
Found at i:17492105 original size:1 final size:1
Alignment explanation
Indices: 17492085--17492287 Score: 118
Period size: 1 Copynumber: 203.0 Consensus size: 1
17492075 AGTGCATAAT
* * * * * * * * *
17492085 AAAATAAAAGAAAAAGAAAAAGAAAAAGAAAAAGAAAAAAAAAAAAAAAAAGAAAAAGAAAAAGA
1 AAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAA
* * * * * * * * * *
17492150 AAAAGAAAAAGAAAAAGAAAAAGAAAAAAGAAAAAAGAAAAAAGAAAAAGAAAAAGAAAAAGAAA
1 AAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAA
* * * * * * * * ** * *
17492215 AAGAAAAAGAAAACAAAAACAAAAACAAAAACAAAAACAAAAACAAAAGCAAAATAAAAAACAAA
1 AAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAA
*
17492280 AACAAAAA
1 AAAAAAAA
17492288 TAAATGAAAT
Statistics
Matches: 139, Mismatches: 63, Indels: 0
0.69 0.31 0.00
Matches are distributed among these distances:
1 139 1.00
ACGTcount: A:0.84, C:0.04, G:0.10, T:0.01
Consensus pattern (1 bp):
A
Found at i:17492267 original size:12 final size:12
Alignment explanation
Indices: 17492090--17492287 Score: 145
Period size: 12 Copynumber: 16.8 Consensus size: 12
17492080 ATAATAAAAT
* *
17492090 AAAAGAAAAAGA
1 AAAACAAAAACA
* *
17492102 AAAAGAAAAAGA
1 AAAACAAAAACA
* *
17492114 AAAAGAAAAAAA
1 AAAACAAAAACA
* *
17492126 AAAAAAAAAAGA
1 AAAACAAAAACA
* *
17492138 AAAAGAAAAAGA
1 AAAACAAAAACA
* *
17492150 AAAAGAAAAAGA
1 AAAACAAAAACA
* *
17492162 AAAAGAAAAAGA
1 AAAACAAAAACA
*
17492174 AAAA-AGAAA-A
1 AAAACAAAAACA
* *
17492184 AAGA-AAAAAGA
1 AAAACAAAAACA
* *
17492195 AAAAGAAAAAGA
1 AAAACAAAAACA
* *
17492207 AAAAGAAAAAGA
1 AAAACAAAAACA
*
17492219 AAAA-GAAAACA
1 AAAACAAAAACA
17492230 AAAACAAAAACA
1 AAAACAAAAACA
17492242 AAAACAAAAACA
1 AAAACAAAAACA
*
17492254 AAAACAAAAGCA
1 AAAACAAAAACA
17492266 AAATA-AAAAACA
1 AAA-ACAAAAACA
17492278 AAAACAAAAA
1 AAAACAAAAA
17492288 TAAATGAAAT
Statistics
Matches: 168, Mismatches: 13, Indels: 10
0.88 0.07 0.05
Matches are distributed among these distances:
10 8 0.05
11 18 0.11
12 141 0.84
13 1 0.01
ACGTcount: A:0.84, C:0.05, G:0.11, T:0.01
Consensus pattern (12 bp):
AAAACAAAAACA
Found at i:17492282 original size:6 final size:6
Alignment explanation
Indices: 17492090--17492262 Score: 240
Period size: 6 Copynumber: 28.5 Consensus size: 6
17492080 ATAATAAAAT
* *
17492090 AAAAGA AAAAGA AAAAGA AAAAGA AAAAGA AAAAAA AAAAAA AAAAGA
1 AAAAGA AAAAGA AAAAGA AAAAGA AAAAGA AAAAGA AAAAGA AAAAGA
17492138 AAAAGA AAAAGA AAAAGA AAAAGA AAAAGA AAAAGAA AAAAGAA AAAAGAA
1 AAAAGA AAAAGA AAAAGA AAAAGA AAAAGA AAAAG-A AAAAG-A AAAAG-A
* *
17492189 AAAAGA AAAAGA AAAAGA AAAAGA AAAAGA AAAAG- AAAACA AAAACA
1 AAAAGA AAAAGA AAAAGA AAAAGA AAAAGA AAAAGA AAAAGA AAAAGA
* * * *
17492236 AAAACA AAAACA AAAACA AAAACA AAA
1 AAAAGA AAAAGA AAAAGA AAAAGA AAA
17492263 GCAAAATAAA
Statistics
Matches: 162, Mismatches: 3, Indels: 4
0.96 0.02 0.02
Matches are distributed among these distances:
5 4 0.02
6 138 0.85
7 20 0.12
ACGTcount: A:0.85, C:0.03, G:0.12, T:0.00
Consensus pattern (6 bp):
AAAAGA
Found at i:17494296 original size:33 final size:32
Alignment explanation
Indices: 17494224--17494296 Score: 83
Period size: 33 Copynumber: 2.2 Consensus size: 32
17494214 ATGTTTAAAT
* * *
17494224 GTAAGACCATAGCTAGGCTATGACATTTTAAC
1 GTAAGACCATAACTAGGCTATGACACTTGAAC
* *
17494256 GAAAAGACCATAACTAGGGTATGACACCTTGAAC
1 G-TAAGACCATAACTAGGCTATGACA-CTTGAAC
17494290 GTAAGAC
1 GTAAGAC
17494297 TGTGGTTGGA
Statistics
Matches: 33, Mismatches: 6, Indels: 3
0.79 0.14 0.07
Matches are distributed among these distances:
32 1 0.03
33 26 0.79
34 6 0.18
ACGTcount: A:0.38, C:0.19, G:0.21, T:0.22
Consensus pattern (32 bp):
GTAAGACCATAACTAGGCTATGACACTTGAAC
Found at i:17500967 original size:3 final size:3
Alignment explanation
Indices: 17500959--17500992 Score: 59
Period size: 3 Copynumber: 11.3 Consensus size: 3
17500949 AATCTAATAC
*
17500959 TAT TAT TAT TAT TAT TAT TAT TAT TGT TAT TAT T
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT T
17500993 CACTCATTTC
Statistics
Matches: 29, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
3 29 1.00
ACGTcount: A:0.29, C:0.00, G:0.03, T:0.68
Consensus pattern (3 bp):
TAT
Found at i:17501096 original size:23 final size:21
Alignment explanation
Indices: 17501036--17501098 Score: 58
Period size: 23 Copynumber: 3.0 Consensus size: 21
17501026 ATGCACATTA
17501036 AATATATATACGT--TTTTAC
1 AATATATATACGTAATTTTAC
** *
17501055 AATATATATACACATATTTTGC
1 AATATATATACGTA-ATTTTAC
17501077 TAATATATATACGTACATTTTA
1 -AATATATATACGTA-ATTTTA
17501099 AAGTTGTAAA
Statistics
Matches: 33, Mismatches: 7, Indels: 4
0.75 0.16 0.09
Matches are distributed among these distances:
19 11 0.33
22 5 0.15
23 17 0.52
ACGTcount: A:0.40, C:0.11, G:0.05, T:0.44
Consensus pattern (21 bp):
AATATATATACGTAATTTTAC
Found at i:17501518 original size:4 final size:4
Alignment explanation
Indices: 17501509--17501544 Score: 54
Period size: 4 Copynumber: 8.8 Consensus size: 4
17501499 ATACATATCT
*
17501509 TTTA TTTA TTTTA TTCA TTTA TTTA TTTA TTTA TTT
1 TTTA TTTA -TTTA TTTA TTTA TTTA TTTA TTTA TTT
17501545 GTATGTCCGT
Statistics
Matches: 29, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
4 25 0.86
5 4 0.14
ACGTcount: A:0.22, C:0.03, G:0.00, T:0.75
Consensus pattern (4 bp):
TTTA
Found at i:17501563 original size:25 final size:25
Alignment explanation
Indices: 17501509--17501568 Score: 70
Period size: 25 Copynumber: 2.4 Consensus size: 25
17501499 ATACATATCT
*
17501509 TTTATTTATTTTATTCATTTATTTA
1 TTTATTTATTTTATTCAGTTATTTA
*
17501534 TTTATTTATTTGTATGTCCGTTA-TTA
1 TTTATTTATTT-TAT-TCAGTTATTTA
17501560 -TTATTTATT
1 TTTATTTATT
17501569 ATGCTTTAGA
Statistics
Matches: 31, Mismatches: 2, Indels: 4
0.84 0.05 0.11
Matches are distributed among these distances:
25 20 0.65
26 6 0.19
27 5 0.16
ACGTcount: A:0.22, C:0.05, G:0.05, T:0.68
Consensus pattern (25 bp):
TTTATTTATTTTATTCAGTTATTTA
Found at i:17505722 original size:34 final size:35
Alignment explanation
Indices: 17505675--17505755 Score: 114
Period size: 34 Copynumber: 2.4 Consensus size: 35
17505665 TTCAGACTAA
* *
17505675 AAAAAAAAACAAAAAAA-CAAAAA-AAAATCAAAAT
1 AAAAAAAATCAAAAAAATCAAAAATAAAA-AAAAAT
17505709 AAAAAAAATCAAAAAAATCAAAAATAAAAAAAAAT
1 AAAAAAAATCAAAAAAATCAAAAATAAAAAAAAAT
17505744 -AAAAAAATCAAA
1 AAAAAAAATCAAA
17505756 GTCAAAAATT
Statistics
Matches: 43, Mismatches: 2, Indels: 4
0.88 0.04 0.08
Matches are distributed among these distances:
34 28 0.65
35 11 0.26
36 4 0.09
ACGTcount: A:0.84, C:0.07, G:0.00, T:0.09
Consensus pattern (35 bp):
AAAAAAAATCAAAAAAATCAAAAATAAAAAAAAAT
Found at i:17505732 original size:31 final size:31
Alignment explanation
Indices: 17505674--17505774 Score: 88
Period size: 30 Copynumber: 3.3 Consensus size: 31
17505664 GTTCAGACTA
* * *
17505674 AAAAAAAAAACAAAAAAACAAA--AAAAAAT
1 AAAATAAAAATAAAAAAACAAAGTCAAAAAT
17505703 CAAAATAAAAA-AAATCAAAA-AAA-TCAAAAAT
1 -AAAATAAAAATAAA--AAAACAAAGTCAAAAAT
17505734 AAAA-AAAAATAAAAAAATCAAAGTCAAAAATT
1 AAAATAAAAATAAAAAAA-CAAAGTCAAAAA-T
17505766 AAAATAAAA
1 AAAATAAAA
17505775 GAGAGAGAAA
Statistics
Matches: 60, Mismatches: 2, Indels: 15
0.78 0.03 0.19
Matches are distributed among these distances:
28 4 0.07
29 8 0.13
30 22 0.37
31 17 0.28
32 5 0.08
33 4 0.07
ACGTcount: A:0.81, C:0.07, G:0.01, T:0.11
Consensus pattern (31 bp):
AAAATAAAAATAAAAAAACAAAGTCAAAAAT
Found at i:17505762 original size:24 final size:24
Alignment explanation
Indices: 17505672--17505763 Score: 102
Period size: 24 Copynumber: 3.9 Consensus size: 24
17505662 GAGTTCAGAC
17505672 TAAAAAAA--AAAA-CAAAAAAACA
1 TAAAAAAATCAAAATCAAAAAAA-A
*
17505694 AAAAAAAATCAAAAT-AAAAAAAA
1 TAAAAAAATCAAAATCAAAAAAAA
*
17505717 TCAAAAAAATCAAAAATAAAAAAAAA
1 T-AAAAAAATC-AAAATCAAAAAAAA
*
17505743 TAAAAAAATCAAAGTCAAAAA
1 TAAAAAAATCAAAATCAAAAA
17505764 TTAAAATAAA
Statistics
Matches: 60, Mismatches: 4, Indels: 10
0.81 0.05 0.14
Matches are distributed among these distances:
22 7 0.12
23 1 0.02
24 29 0.48
25 14 0.23
26 9 0.15
ACGTcount: A:0.82, C:0.08, G:0.01, T:0.10
Consensus pattern (24 bp):
TAAAAAAATCAAAATCAAAAAAAA
Found at i:17505762 original size:25 final size:24
Alignment explanation
Indices: 17505672--17505774 Score: 106
Period size: 25 Copynumber: 4.2 Consensus size: 24
17505662 GAGTTCAGAC
*
17505672 TAAAAAAA--AAAACAAAAAAACAA
1 TAAAAAAATCAAAATAAAAAAA-AA
17505695 -AAAAAAATCAAAAT-AAAAAAAA
1 TAAAAAAATCAAAATAAAAAAAAA
17505717 TCAAAAAAATCAAAAATAAAAAAAAA
1 T-AAAAAAATC-AAAATAAAAAAAAA
*
17505743 TAAAAAAATCAAAGTCAAAAATTAAAA
1 TAAAAAAATCAAAAT-AAAAA--AAAA
17505770 TAAAA
1 TAAAA
17505775 GAGAGAGAAA
Statistics
Matches: 69, Mismatches: 2, Indels: 14
0.81 0.02 0.16
Matches are distributed among these distances:
22 9 0.13
23 6 0.09
24 17 0.25
25 19 0.28
26 9 0.13
27 9 0.13
ACGTcount: A:0.81, C:0.07, G:0.01, T:0.12
Consensus pattern (24 bp):
TAAAAAAATCAAAATAAAAAAAAA
Found at i:17505763 original size:1 final size:1
Alignment explanation
Indices: 17505673--17505750 Score: 57
Period size: 1 Copynumber: 78.0 Consensus size: 1
17505663 AGTTCAGACT
* * ** * ** ** *
17505673 AAAAAAAAAAACAAAAAAACAAAAAAAAATCAAAATAAAAAAAATCAAAAAAATCAAAAATAAAA
1 AAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAA
*
17505738 AAAAATAAAAAAA
1 AAAAAAAAAAAAA
17505751 TCAAAGTCAA
Statistics
Matches: 58, Mismatches: 19, Indels: 0
0.75 0.25 0.00
Matches are distributed among these distances:
1 58 1.00
ACGTcount: A:0.86, C:0.06, G:0.00, T:0.08
Consensus pattern (1 bp):
A
Found at i:17506607 original size:7 final size:7
Alignment explanation
Indices: 17506595--17506646 Score: 52
Period size: 7 Copynumber: 7.0 Consensus size: 7
17506585 TCAAACAAAA
17506595 AAAAATG
1 AAAAATG
17506602 AAAAATG
1 AAAAATG
*
17506609 AATGAATG
1 AA-AAATG
17506617 AAAAATG
1 AAAAATG
17506624 AAAAAAATG
1 --AAAAATG
17506633 AAAAA-G
1 AAAAATG
17506639 TAAAAATG
1 -AAAAATG
17506647 GAGAGGCTAA
Statistics
Matches: 38, Mismatches: 2, Indels: 9
0.78 0.04 0.18
Matches are distributed among these distances:
6 1 0.03
7 23 0.61
8 7 0.18
9 7 0.18
ACGTcount: A:0.69, C:0.00, G:0.15, T:0.15
Consensus pattern (7 bp):
AAAAATG
Found at i:17506636 original size:15 final size:16
Alignment explanation
Indices: 17506593--17506637 Score: 65
Period size: 15 Copynumber: 2.9 Consensus size: 16
17506583 AGTCAAACAA
17506593 AAAAAAATGAAAAATG
1 AAAAAAATGAAAAATG
**
17506609 -AATGAATGAAAAATG
1 AAAAAAATGAAAAATG
17506624 AAAAAAATGAAAAA
1 AAAAAAATGAAAAA
17506638 GTAAAAATGG
Statistics
Matches: 24, Mismatches: 4, Indels: 2
0.80 0.13 0.07
Matches are distributed among these distances:
15 13 0.54
16 11 0.46
ACGTcount: A:0.73, C:0.00, G:0.13, T:0.13
Consensus pattern (16 bp):
AAAAAAATGAAAAATG
Found at i:17506643 original size:15 final size:15
Alignment explanation
Indices: 17506594--17506644 Score: 50
Period size: 15 Copynumber: 3.3 Consensus size: 15
17506584 GTCAAACAAA
17506594 AAAAAATGAAAAA-T
1 AAAAAATGAAAAAGT
** *
17506608 GAATGAATGAAAAATGA
1 -AAAAAATGAAAAA-GT
17506625 AAAAAATGAAAAAGT
1 AAAAAATGAAAAAGT
17506640 AAAAA
1 AAAAA
17506645 TGGAGAGGCT
Statistics
Matches: 28, Mismatches: 6, Indels: 4
0.74 0.16 0.11
Matches are distributed among these distances:
15 17 0.61
16 11 0.39
ACGTcount: A:0.73, C:0.00, G:0.14, T:0.14
Consensus pattern (15 bp):
AAAAAATGAAAAAGT
Found at i:17506775 original size:21 final size:21
Alignment explanation
Indices: 17506729--17506775 Score: 58
Period size: 21 Copynumber: 2.2 Consensus size: 21
17506719 GCTCAAATAT
17506729 TGATCAGAATGGGGCATGAAG
1 TGATCAGAATGGGGCATGAAG
* * * *
17506750 CGATCAGATTGGGGTATGTAG
1 TGATCAGAATGGGGCATGAAG
17506771 TGATC
1 TGATC
17506776 TTGCTTTACC
Statistics
Matches: 21, Mismatches: 5, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
21 21 1.00
ACGTcount: A:0.28, C:0.11, G:0.36, T:0.26
Consensus pattern (21 bp):
TGATCAGAATGGGGCATGAAG
Found at i:17507917 original size:46 final size:46
Alignment explanation
Indices: 17507856--17508365 Score: 750
Period size: 46 Copynumber: 11.1 Consensus size: 46
17507846 CAGATCAACA
* * * *
17507856 AAGATAGCAGATCTTGTCTTCTTGTATTTAGCAGCGGAGGAGATCA
1 AAGATAGCAGATCTTATCTTCCTGTATTTGGCAGCGGAGGAGATCG
* * *
17507902 AAGATAGTAGATCTTGTCTTCCTGTATTTGGCAGCAGAGGAGATCG
1 AAGATAGCAGATCTTATCTTCCTGTATTTGGCAGCGGAGGAGATCG
* *
17507948 AAGATAGCAGATCTTATCTTCCTGTATTTGGCAGCGAAGGAGATTG
1 AAGATAGCAGATCTTATCTTCCTGTATTTGGCAGCGGAGGAGATCG
* *
17507994 AAGATAGCAGATCTTGTCTTCTTGTATTTGGCAGCGGAGGAGATCG
1 AAGATAGCAGATCTTATCTTCCTGTATTTGGCAGCGGAGGAGATCG
*
17508040 AAGATAGCAGATCTTATCTTCCTCTATTTGGCAGCGGAGGAGATCG
1 AAGATAGCAGATCTTATCTTCCTGTATTTGGCAGCGGAGGAGATCG
* * *
17508086 AAGATAGCAGATCTTGTCTTCCTGTATTTGGTAGCAGAGGAGATCG
1 AAGATAGCAGATCTTATCTTCCTGTATTTGGCAGCGGAGGAGATCG
*
17508132 AAGATAGTAGATCTTATCTTCCTGTATTTGGCAGCGGAGGAGATCG
1 AAGATAGCAGATCTTATCTTCCTGTATTTGGCAGCGGAGGAGATCG
*
17508178 AAGATAGCAGATCTTATCTTCCTGTATTTGGCAGTGGAGGAGATCG
1 AAGATAGCAGATCTTATCTTCCTGTATTTGGCAGCGGAGGAGATCG
* *
17508224 AAGATAGCAGATCTTATCTTCCTGTATTTGGTAGCAGAGGAGATCG
1 AAGATAGCAGATCTTATCTTCCTGTATTTGGCAGCGGAGGAGATCG
* * *
17508270 AAGTTAGCAGATCTTATCTTCCTGTATTTGGCAGCAGAAGAGATCG
1 AAGATAGCAGATCTTATCTTCCTGTATTTGGCAGCGGAGGAGATCG
* * ** * * * *
17508316 AAGATAACAGATCTTATATTTTTGTACTTGCCAGCGAAGCAGATCG
1 AAGATAGCAGATCTTATCTTCCTGTATTTGGCAGCGGAGGAGATCG
17508362 AAGA
1 AAGA
17508366 CACAAACCTC
Statistics
Matches: 420, Mismatches: 44, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
46 420 1.00
ACGTcount: A:0.28, C:0.16, G:0.26, T:0.30
Consensus pattern (46 bp):
AAGATAGCAGATCTTATCTTCCTGTATTTGGCAGCGGAGGAGATCG
Found at i:17508531 original size:132 final size:132
Alignment explanation
Indices: 17508374--17510022 Score: 2479
Period size: 132 Copynumber: 12.5 Consensus size: 132
17508364 GACACAAACC
*
17508374 TCACCCTAAGCAGTAGTGGAGTAGGTTGAAGATTGTAGATTCTGTCACCCTAAGCAGTAGTGGAG
1 TCACCCTAAGCAGTAGTGGAGTAGGTTGAAGATTGCAGATTCTGTCACCCTAAGCAGTAGTGGAG
*
17508439 CAGATCGAAGATGGTGAATCTTATCTTCCTAATACAGTGGAGAAGCAGATTTAAGCCATTAGTCC
66 CAGATCGAAGATGGTGAATCTTATCTTCCCAATACAGTGGAGAAGCAGATTTAAGCCATTAGTCC
17508504 TA
131 TA
* * * * *
17508506 TCACCCTAAGTAGTAGTGGAATAGGTCGAAGATTGCAAATTTTGTCACCCTAAGCAGTAGTGGAG
1 TCACCCTAAGCAGTAGTGGAGTAGGTTGAAGATTGCAGATTCTGTCACCCTAAGCAGTAGTGGAG
* * * * * *
17508571 CAAATCGAAGATGGTGAATCTTATCTTCCAAATACAGTGGAGAAGTAGATTGAAGCCAGTAAT--
66 CAGATCGAAGATGGTGAATCTTATCTTCCCAATACAGTGGAGAAGCAGATTTAAGCCATTAGTCC
*
17508634 TC
131 TA
* *
17508636 TCTCCCTAAGCAGTAGTGGAGTAGGTT-ACAGATTACAGATTCTGTCACCCTAAGCAGTAGTGGA
1 TCACCCTAAGCAGTAGTGGAGTAGGTTGA-AGATTGCAGATTCTGTCACCCTAAGCAGTAGTGGA
* * * ** * * *
17508700 GCAGATCGAAGATGGTGAATCGTA--TTCCCAATATAGTGGAGAAGTAGATGGAAGCCAGTAATT
65 GCAGATCGAAGATGGTGAATCTTATCTTCCCAATACAGTGGAGAAGCAGATTTAAGCCATTAGTC
17508763 CTA
130 CTA
* * *
17508766 TCTCCCTAAGCAGTTGTGGAGTAGGTTGGAGATTGCAGATTCTGTCACCCTAAGCAGTAGTGGAG
1 TCACCCTAAGCAGTAGTGGAGTAGGTTGAAGATTGCAGATTCTGTCACCCTAAGCAGTAGTGGAG
17508831 CAGATCGAAGATGGTGAATCTTATCTTCCCAATACAGTGGAGAAGCAGATTTAAGCCATTAGTCC
66 CAGATCGAAGATGGTGAATCTTATCTTCCCAATACAGTGGAGAAGCAGATTTAAGCCATTAGTCC
17508896 TA
131 TA
* * * *
17508898 TCACCCTAAACAGTAGTAGAGTAGGTTAAAGATTGCAGATTTTGTCACCCTAAGCAGTAGTGGAG
1 TCACCCTAAGCAGTAGTGGAGTAGGTTGAAGATTGCAGATTCTGTCACCCTAAGCAGTAGTGGAG
*
17508963 CAGATCGAAGATGGTGAATCTTATCTTCCCAATATAGTGGAGAAGCAGATTTAAGCCATTAGTCC
66 CAGATCGAAGATGGTGAATCTTATCTTCCCAATACAGTGGAGAAGCAGATTTAAGCCATTAGTCC
17509028 TA
131 TA
*
17509030 TCACCCTAAGCAGTAGTGGAGTAGGTTAAAGATTGCAGATTCTGTCACCCTAAGCAGTAGTGGAG
1 TCACCCTAAGCAGTAGTGGAGTAGGTTGAAGATTGCAGATTCTGTCACCCTAAGCAGTAGTGGAG
*
17509095 CAGATCGAAGATGGTGAATCTTATCTTCCCAATACAGTGGAGAAGCATATTTAAGCCATTAGTCC
66 CAGATCGAAGATGGTGAATCTTATCTTCCCAATACAGTGGAGAAGCAGATTTAAGCCATTAGTCC
17509160 TA
131 TA
* *
17509162 TCACCTTAAGTAGTAGTGGAGTAGGTTGAAGATTGCAGATTCTGTCACCCTAAGCAGTAGTGGAG
1 TCACCCTAAGCAGTAGTGGAGTAGGTTGAAGATTGCAGATTCTGTCACCCTAAGCAGTAGTGGAG
17509227 CAGATCGAAGATGGTGAATCTTATCTTCCCAATACAGTGGAGAAGCAGATTTAAGCCATTAGTCC
66 CAGATCGAAGATGGTGAATCTTATCTTCCCAATACAGTGGAGAAGCAGATTTAAGCCATTAGTCC
17509292 TA
131 TA
* * * * *
17509294 TCACCCTAAGTAGTAGTGGAATAGGTCGAAGATTGCAAATTTTGTCACCCTAAGCAGTAGTGGAG
1 TCACCCTAAGCAGTAGTGGAGTAGGTTGAAGATTGCAGATTCTGTCACCCTAAGCAGTAGTGGAG
* * * * * * *
17509359 AAAATCGAAGATGGTGAATCTTATCTTCCCAATACAGTGGAGAAGTAGATTGAAGCCAGTAATTC
66 CAGATCGAAGATGGTGAATCTTATCTTCCCAATACAGTGGAGAAGCAGATTTAAGCCATTAGTCC
17509424 TA
131 TA
* * * * *
17509426 TCTCCCTAAGTAGTAGTGGAGTAGGTT-ACAGATGGTAGATTCTGTCACCCTAACCAGTAGTGGA
1 TCACCCTAAGCAGTAGTGGAGTAGGTTGA-AGATTGCAGATTCTGTCACCCTAAGCAGTAGTGGA
* * ** * * *
17509490 TCAGATCGAAGATGGTGAATCTTAT-TT-CCAATACAGTGGAGAAGTAGATGGAAGCCAGTAATT
65 GCAGATCGAAGATGGTGAATCTTATCTTCCCAATACAGTGGAGAAGCAGATTTAAGCCATTAGTC
17509553 CTA
130 CTA
* * *
17509556 TCTCCCTAAGCAGTAGTGGAGTAGGTT-ACAGATGGTAGATTCTGTCACCCTAAGCAGTAGTGGA
1 TCACCCTAAGCAGTAGTGGAGTAGGTTGA-AGATTGCAGATTCTGTCACCCTAAGCAGTAGTGGA
* ** * * *
17509620 GCAGATCGAAGATGGTGAATCTTATCTTCCCAATACAGTGGAGAAGTAGATGGAAGCCAGTAATT
65 GCAGATCGAAGATGGTGAATCTTATCTTCCCAATACAGTGGAGAAGCAGATTTAAGCCATTAGTC
17509685 CTA
130 CTA
* * *
17509688 TCTCCCTAAGCAGTAGTGGAGTAGGTTGAAGATTGCAGATTTTGTCACCCTAAGTAGTAGTGGAG
1 TCACCCTAAGCAGTAGTGGAGTAGGTTGAAGATTGCAGATTCTGTCACCCTAAGCAGTAGTGGAG
17509753 CAGATCGAAGATGGTGAATCTTATCTTCCCAATACAGTGGAGAAGCAGATTTAAGCCATTAGTCC
66 CAGATCGAAGATGGTGAATCTTATCTTCCCAATACAGTGGAGAAGCAGATTTAAGCCATTAGTCC
17509818 TA
131 TA
* * *
17509820 TCACCCTAAACAGTAGTGGAGTAGGTTAAAGATTGCAGATTTTGTCACCCTAAGCAGTAGTGGAG
1 TCACCCTAAGCAGTAGTGGAGTAGGTTGAAGATTGCAGATTCTGTCACCCTAAGCAGTAGTGGAG
* * *
17509885 CATATCGAAGATGGTGAATCTTATCTTCCCAATATAGTCGAGAAGCAGATTTAAGCCATTAGTCC
66 CAGATCGAAGATGGTGAATCTTATCTTCCCAATACAGTGGAGAAGCAGATTTAAGCCATTAGTCC
17509950 TA
131 TA
* * *
17509952 TCACCCTAAGTAGTAGTGGAGTAGGTTGAAGATTGCAGATTCTGTCCCCCTAAGCAGTTGTGGAG
1 TCACCCTAAGCAGTAGTGGAGTAGGTTGAAGATTGCAGATTCTGTCACCCTAAGCAGTAGTGGAG
17510017 CAGATC
66 CAGATC
17510023 AACAATAACA
Statistics
Matches: 1402, Mismatches: 105, Indels: 20
0.92 0.07 0.01
Matches are distributed among these distances:
128 35 0.02
129 1 0.00
130 286 0.20
131 5 0.00
132 1074 0.77
133 1 0.00
ACGTcount: A:0.31, C:0.17, G:0.25, T:0.27
Consensus pattern (132 bp):
TCACCCTAAGCAGTAGTGGAGTAGGTTGAAGATTGCAGATTCTGTCACCCTAAGCAGTAGTGGAG
CAGATCGAAGATGGTGAATCTTATCTTCCCAATACAGTGGAGAAGCAGATTTAAGCCATTAGTCC
TA
Found at i:17509749 original size:790 final size:788
Alignment explanation
Indices: 17508374--17510022 Score: 2920
Period size: 790 Copynumber: 2.1 Consensus size: 788
17508364 GACACAAACC
* *
17508374 TCACCCTAAGCAGTAGTGGAGTAGGTTGAAGATTGTAGATTCTGTCACCCTAAGCAGTAGTGGAG
1 TCACCCTAAGTAGTAGTGGAGTAGGTTGAAGATTGCAGATTCTGTCACCCTAAGCAGTAGTGGAG
*
17508439 CAGATCGAAGATGGTGAATCTTATCTTCCTAATACAGTGGAGAAGCAGATTTAAGCCATTAGTCC
66 CAGATCGAAGATGGTGAATCTTATCTTCCCAATACAGTGGAGAAGCAGATTTAAGCCATTAGTCC
17508504 TATCACCCTAAGTAGTAGTGGAATAGGTCGAAGATTGCAAATTTTGTCACCCTAAGCAGTAGTGG
131 TATCACCCTAAGTAGTAGTGGAATAGGTCGAAGATTGCAAATTTTGTCACCCTAAGCAGTAGTGG
*
17508569 AGCAAATCGAAGATGGTGAATCTTATCTTCCAAATACAGTGGAGAAGTAGATTGAAGCCAGTAAT
196 AGAAAATCGAAGATGGTGAATCTTATCTTCCAAATACAGTGGAGAAGTAGATTGAAGCCAGTAAT
* *
17508634 TCTCTCCCTAAGCAGTAGTGGAGTAGGTTACAGATTACAGATTCTGTCACCCTAAGCAGTAGTGG
261 TCTCTCCCTAAGCAGTAGTGGAGTAGGTTACAGATGACAGATTCTGTCACCCTAACCAGTAGTGG
*
17508699 AGCAGATCGAAGATGGTGAATCGTATTCCCAATATAGTGGAGAAGTAGATGGAAGCCAGTAATTC
326 AGCAGATCGAAGATGGTGAATCGTATTCCCAATACAGTGGAGAAGTAGATGGAAGCCAGTAATTC
* ** *
17508764 TATCTCCCTAAGCAGTTGTGGAGTAGGTTGGAGATTGCAGATTCTGTCACCCTAAGCAGTAGTGG
391 TATCTCCCTAAGCAGTAGTGGAGTAGGTTACAGATGGCAGATTCTGTCACCCTAAGCAGTAGTGG
** * *
17508829 AGCAGATCGAAGATGGTGAATCTTATCTTCCCAATACAGTGGAGAAGCAGATTTAAGCCATTAGT
456 AGCAGATCGAAGATGGTGAATCTTATCTTCCCAATACAGTGGAGAAGCAGATGGAAGCCAGTAAT
17508894 CCTATCACCCTAAACAGTAGTAGAGTAGGTTAAAGATTGCAGATTTTGTCACCCTAAGCAGTAGT
521 CCTATCACCCTAAACAGTAGTAGAGTAGGTTAAAGATTGCAGATTTTGTCACCCTAAGCAGTAGT
*
17508959 GGAGCAGATCGAAGATGGTGAATCTTATCTTCCCAATATAGTGGAGAAGCAGATTTAAGCCATTA
586 GGAGCAGATCGAAGATGGTGAATCTTATCTTCCCAATACAGTGGAGAAGCAGATTTAAGCCATTA
*
17509024 GTCCTATCACCCTAAGCAGTAGTGGAGTAGGTTAAAGATTGCAGATTCTGTCACCCTAAGCAGTA
651 GTCCTATCACCCTAAACAGTAGTGGAGTAGGTTAAAGATTGCAGATTCTGTCACCCTAAGCAGTA
* *
17509089 GTGGAGCAGATCGAAGATGGTGAATCTTATCTTCCCAATACAGTGGAGAAGCATATTTAAGCCAT
716 GTGGAGCAGATCGAAGATGGTGAATCTTATCTTCCCAATACAGTCGAGAAGCAGATTTAAGCCAT
17509154 TAGTCCTA
781 TAGTCCTA
*
17509162 TCACCTTAAGTAGTAGTGGAGTAGGTTGAAGATTGCAGATTCTGTCACCCTAAGCAGTAGTGGAG
1 TCACCCTAAGTAGTAGTGGAGTAGGTTGAAGATTGCAGATTCTGTCACCCTAAGCAGTAGTGGAG
17509227 CAGATCGAAGATGGTGAATCTTATCTTCCCAATACAGTGGAGAAGCAGATTTAAGCCATTAGTCC
66 CAGATCGAAGATGGTGAATCTTATCTTCCCAATACAGTGGAGAAGCAGATTTAAGCCATTAGTCC
17509292 TATCACCCTAAGTAGTAGTGGAATAGGTCGAAGATTGCAAATTTTGTCACCCTAAGCAGTAGTGG
131 TATCACCCTAAGTAGTAGTGGAATAGGTCGAAGATTGCAAATTTTGTCACCCTAAGCAGTAGTGG
*
17509357 AGAAAATCGAAGATGGTGAATCTTATCTTCCCAATACAGTGGAGAAGTAGATTGAAGCCAGTAAT
196 AGAAAATCGAAGATGGTGAATCTTATCTTCCAAATACAGTGGAGAAGTAGATTGAAGCCAGTAAT
* **
17509422 TCTATCTCCCTAAGTAGTAGTGGAGTAGGTTACAGATGGTAGATTCTGTCACCCTAACCAGTAGT
261 TC--TCTCCCTAAGCAGTAGTGGAGTAGGTTACAGATGACAGATTCTGTCACCCTAACCAGTAGT
* * *
17509487 GGATCAGATCGAAGATGGTGAATCTTATTTCCAATACAGTGGAGAAGTAGATGGAAGCCAGTAAT
324 GGAGCAGATCGAAGATGGTGAATCGTATTCCCAATACAGTGGAGAAGTAGATGGAAGCCAGTAAT
*
17509552 TCTATCTCCCTAAGCAGTAGTGGAGTAGGTTACAGATGGTAGATTCTGTCACCCTAAGCAGTAGT
389 TCTATCTCCCTAAGCAGTAGTGGAGTAGGTTACAGATGGCAGATTCTGTCACCCTAAGCAGTAGT
*
17509617 GGAGCAGATCGAAGATGGTGAATCTTATCTTCCCAATACAGTGGAGAAGTAGATGGAAGCCAGTA
454 GGAGCAGATCGAAGATGGTGAATCTTATCTTCCCAATACAGTGGAGAAGCAGATGGAAGCCAGTA
* * * * * *
17509682 ATTCTATCTCCCTAAGCAGTAGTGGAGTAGGTTGAAGATTGCAGATTTTGTCACCCTAAGTAGTA
519 ATCCTATCACCCTAAACAGTAGTAGAGTAGGTTAAAGATTGCAGATTTTGTCACCCTAAGCAGTA
17509747 GTGGAGCAGATCGAAGATGGTGAATCTTATCTTCCCAATACAGTGGAGAAGCAGATTTAAGCCAT
584 GTGGAGCAGATCGAAGATGGTGAATCTTATCTTCCCAATACAGTGGAGAAGCAGATTTAAGCCAT
*
17509812 TAGTCCTATCACCCTAAACAGTAGTGGAGTAGGTTAAAGATTGCAGATTTTGTCACCCTAAGCAG
649 TAGTCCTATCACCCTAAACAGTAGTGGAGTAGGTTAAAGATTGCAGATTCTGTCACCCTAAGCAG
* *
17509877 TAGTGGAGCATATCGAAGATGGTGAATCTTATCTTCCCAATATAGTCGAGAAGCAGATTTAAGCC
714 TAGTGGAGCAGATCGAAGATGGTGAATCTTATCTTCCCAATACAGTCGAGAAGCAGATTTAAGCC
17509942 ATTAGTCCTA
779 ATTAGTCCTA
* *
17509952 TCACCCTAAGTAGTAGTGGAGTAGGTTGAAGATTGCAGATTCTGTCCCCCTAAGCAGTTGTGGAG
1 TCACCCTAAGTAGTAGTGGAGTAGGTTGAAGATTGCAGATTCTGTCACCCTAAGCAGTAGTGGAG
17510017 CAGATC
66 CAGATC
17510023 AACAATAACA
Statistics
Matches: 818, Mismatches: 41, Indels: 2
0.95 0.05 0.00
Matches are distributed among these distances:
788 256 0.31
790 562 0.69
ACGTcount: A:0.31, C:0.17, G:0.25, T:0.27
Consensus pattern (788 bp):
TCACCCTAAGTAGTAGTGGAGTAGGTTGAAGATTGCAGATTCTGTCACCCTAAGCAGTAGTGGAG
CAGATCGAAGATGGTGAATCTTATCTTCCCAATACAGTGGAGAAGCAGATTTAAGCCATTAGTCC
TATCACCCTAAGTAGTAGTGGAATAGGTCGAAGATTGCAAATTTTGTCACCCTAAGCAGTAGTGG
AGAAAATCGAAGATGGTGAATCTTATCTTCCAAATACAGTGGAGAAGTAGATTGAAGCCAGTAAT
TCTCTCCCTAAGCAGTAGTGGAGTAGGTTACAGATGACAGATTCTGTCACCCTAACCAGTAGTGG
AGCAGATCGAAGATGGTGAATCGTATTCCCAATACAGTGGAGAAGTAGATGGAAGCCAGTAATTC
TATCTCCCTAAGCAGTAGTGGAGTAGGTTACAGATGGCAGATTCTGTCACCCTAAGCAGTAGTGG
AGCAGATCGAAGATGGTGAATCTTATCTTCCCAATACAGTGGAGAAGCAGATGGAAGCCAGTAAT
CCTATCACCCTAAACAGTAGTAGAGTAGGTTAAAGATTGCAGATTTTGTCACCCTAAGCAGTAGT
GGAGCAGATCGAAGATGGTGAATCTTATCTTCCCAATACAGTGGAGAAGCAGATTTAAGCCATTA
GTCCTATCACCCTAAACAGTAGTGGAGTAGGTTAAAGATTGCAGATTCTGTCACCCTAAGCAGTA
GTGGAGCAGATCGAAGATGGTGAATCTTATCTTCCCAATACAGTCGAGAAGCAGATTTAAGCCAT
TAGTCCTA
Found at i:17517080 original size:51 final size:50
Alignment explanation
Indices: 17516900--17517237 Score: 355
Period size: 51 Copynumber: 6.7 Consensus size: 50
17516890 TCATTCGATA
*
17516900 CACGTAGTAGCCTTCACATAGTACTACACACGTGATCAAG-TTTTACGGTT
1 CACGTAGTAGCCTTCACATAGTACTACACACGTGACCAAGCTTTT-CGGTT
* * *
17516950 CACGCAGTAGCCTTCACATAGTACTACACATGTGATCAAG-TTTTACGGTT
1 CACGTAGTAGCCTTCACATAGTACTACACACGTGACCAAGCTTTT-CGGTT
17517000 CACGTAGTAGCCTTCACATAGTACTACACACGTGACCAAAGCTTTTCGGTAT
1 CACGTAGTAGCCTTCACATAGTACTACACACGTGACC-AAGCTTTTCGGT-T
* * * * * *
17517052 -ACATAGTAGCCTTCACTTAGTACTACACATGTAACC-ATCATTTATCGATT
1 CACGTAGTAGCCTTCACATAGTACTACACACGTGACCAAGC-TTT-TCGGTT
* * * *
17517102 CACGTAGTAGCCTTCACACAGTACTACACGCATGACCAAAGCTTCTT-GGTA
1 CACGTAGTAGCCTTCACATAGTACTACACACGTGACC-AAGCTT-TTCGGTT
* * * * * *
17517153 CACATTGTAGCCTTCACTTAGTACTACACATGTGACC-ATCATTTATCGATT
1 CACGTAGTAGCCTTCACATAGTACTACACACGTGACCAAGC-TTT-TCGGTT
*
17517204 CACGTAGTAGCCTTCACACAGTACTACACACGTG
1 CACGTAGTAGCCTTCACATAGTACTACACACGTG
17517238 TTCATCGATA
Statistics
Matches: 240, Mismatches: 36, Indels: 23
0.80 0.12 0.08
Matches are distributed among these distances:
49 5 0.02
50 89 0.37
51 135 0.56
52 8 0.03
53 3 0.01
ACGTcount: A:0.29, C:0.26, G:0.16, T:0.29
Consensus pattern (50 bp):
CACGTAGTAGCCTTCACATAGTACTACACACGTGACCAAGCTTTTCGGTT
Found at i:17517138 original size:102 final size:102
Alignment explanation
Indices: 17516894--17517237 Score: 473
Period size: 102 Copynumber: 3.4 Consensus size: 102
17516884 CTTTTATCAT
* * * **
17516894 TCGATACACGTAGTAGCCTTCACATAGTACTACACACGTGATC-AAG-TTTTACGGT-TCACGCA
1 TCGATTCACGTAGTAGCCTTCACACAGTACTACACACGTGACCAAAGCTTTT-CGGTAT-ACATA
* * ***
17516956 GTAGCCTTCACATAGTACTACACATGTGATCAAGTTTTA
64 GTAGCCTTCACTTAGTACTACACATGTGACCATCATTTA
* *
17516995 -CGGTTCACGTAGTAGCCTTCACATAGTACTACACACGTGACCAAAGCTTTTCGGTATACATAGT
1 TCGATTCACGTAGTAGCCTTCACACAGTACTACACACGTGACCAAAGCTTTTCGGTATACATAGT
*
17517059 AGCCTTCACTTAGTACTACACATGTAACCATCATTTA
66 AGCCTTCACTTAGTACTACACATGTGACCATCATTTA
* * * *
17517096 TCGATTCACGTAGTAGCCTTCACACAGTACTACACGCATGACCAAAGCTTCTT-GGTACACATTG
1 TCGATTCACGTAGTAGCCTTCACACAGTACTACACACGTGACCAAAGCTT-TTCGGTATACATAG
17517160 TAGCCTTCACTTAGTACTACACATGTGACCATCATTTA
65 TAGCCTTCACTTAGTACTACACATGTGACCATCATTTA
17517198 TCGATTCACGTAGTAGCCTTCACACAGTACTACACACGTG
1 TCGATTCACGTAGTAGCCTTCACACAGTACTACACACGTG
17517238 TTCATCGATA
Statistics
Matches: 218, Mismatches: 20, Indels: 9
0.88 0.08 0.04
Matches are distributed among these distances:
100 39 0.18
101 43 0.20
102 134 0.61
103 2 0.01
ACGTcount: A:0.29, C:0.26, G:0.16, T:0.29
Consensus pattern (102 bp):
TCGATTCACGTAGTAGCCTTCACACAGTACTACACACGTGACCAAAGCTTTTCGGTATACATAGT
AGCCTTCACTTAGTACTACACATGTGACCATCATTTA
Found at i:17524058 original size:21 final size:18
Alignment explanation
Indices: 17524032--17524080 Score: 53
Period size: 21 Copynumber: 2.6 Consensus size: 18
17524022 TGTTGAGAAG
*
17524032 GAAGTTGCTGCTGCAGAAGA
1 GAAGTTGCTGCTG-A-AAAA
*
17524052 GAAAGTTGTTGCTGAAAAA
1 G-AAGTTGCTGCTGAAAAA
17524071 GAAGTTGCTG
1 GAAGTTGCTG
17524081 AAGATGAAAA
Statistics
Matches: 25, Mismatches: 3, Indels: 4
0.78 0.09 0.12
Matches are distributed among these distances:
18 8 0.32
19 4 0.16
20 2 0.08
21 11 0.44
ACGTcount: A:0.33, C:0.10, G:0.33, T:0.24
Consensus pattern (18 bp):
GAAGTTGCTGCTGAAAAA
Found at i:17530552 original size:16 final size:15
Alignment explanation
Indices: 17530531--17530560 Score: 51
Period size: 16 Copynumber: 1.9 Consensus size: 15
17530521 GGCAATCATC
17530531 ACATTAAAATGTTAAG
1 ACATTAAAAT-TTAAG
17530547 ACATTAAAATTTAA
1 ACATTAAAATTTAA
17530561 TTGCTTTAGC
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
15 4 0.29
16 10 0.71
ACGTcount: A:0.53, C:0.07, G:0.07, T:0.33
Consensus pattern (15 bp):
ACATTAAAATTTAAG
Found at i:17540050 original size:27 final size:27
Alignment explanation
Indices: 17539982--17540055 Score: 94
Period size: 27 Copynumber: 2.7 Consensus size: 27
17539972 ACTGGTGACC
** * *
17539982 CTAGCTCGCCAAACCTACTGGTAAACA
1 CTAGCTCGCCAGGCCTATTGGCAAACA
*
17540009 CTAGCTCGCCTGGCCTATTGGCAAACA
1 CTAGCTCGCCAGGCCTATTGGCAAACA
*
17540036 CTAGCTCGTCAGGCCTATTG
1 CTAGCTCGCCAGGCCTATTG
17540056 CGAACACCAA
Statistics
Matches: 40, Mismatches: 7, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
27 40 1.00
ACGTcount: A:0.24, C:0.32, G:0.20, T:0.23
Consensus pattern (27 bp):
CTAGCTCGCCAGGCCTATTGGCAAACA
Found at i:17540088 original size:27 final size:27
Alignment explanation
Indices: 17540046--17540116 Score: 99
Period size: 27 Copynumber: 2.7 Consensus size: 27
17540036 CTAGCTCGTC
*
17540046 AGGCCTA-TTGCGAACACCAATTCGCT
1 AGGCCTACTAGCGAACACCAATTCGCT
*
17540072 AGGCCTACTAGCGAACACCAATTTGCT
1 AGGCCTACTAGCGAACACCAATTCGCT
* *
17540099 AGGCCCACTGGCGAACAC
1 AGGCCTACTAGCGAACAC
17540117 TAGCTTGCCA
Statistics
Matches: 40, Mismatches: 4, Indels: 1
0.89 0.09 0.02
Matches are distributed among these distances:
26 7 0.17
27 33 0.82
ACGTcount: A:0.28, C:0.32, G:0.21, T:0.18
Consensus pattern (27 bp):
AGGCCTACTAGCGAACACCAATTCGCT
Found at i:17542016 original size:18 final size:18
Alignment explanation
Indices: 17541995--17542030 Score: 63
Period size: 18 Copynumber: 2.0 Consensus size: 18
17541985 TAGTTACTTA
17541995 AGTTTAAACATCATTAAT
1 AGTTTAAACATCATTAAT
*
17542013 AGTTTGAACATCATTAAT
1 AGTTTAAACATCATTAAT
17542031 TTTTGTTTTT
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
18 17 1.00
ACGTcount: A:0.42, C:0.11, G:0.08, T:0.39
Consensus pattern (18 bp):
AGTTTAAACATCATTAAT
Found at i:17545751 original size:3 final size:3
Alignment explanation
Indices: 17545745--17545782 Score: 60
Period size: 3 Copynumber: 13.0 Consensus size: 3
17545735 TTTTTGGCAC
*
17545745 TAT TAT TAT TAT TAT TAT TAT TGT TAT TAT TAT T-T TAT
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT
17545783 AACATACATA
Statistics
Matches: 32, Mismatches: 2, Indels: 2
0.89 0.06 0.06
Matches are distributed among these distances:
2 2 0.06
3 30 0.94
ACGTcount: A:0.29, C:0.00, G:0.03, T:0.68
Consensus pattern (3 bp):
TAT
Found at i:17558059 original size:44 final size:43
Alignment explanation
Indices: 17558011--17558149 Score: 100
Period size: 44 Copynumber: 3.1 Consensus size: 43
17558001 TGTCTTCATG
* *
17558011 TACTGGCATGAAGTAGATCATAGATACCAGATCTTGTCTCCCCA
1 TACTGGC-TGAAGTAGATCAAAGATACCAGATCTTGTCTACCCA
* * * * ***
17558055 TACTGG-TGGCAGAGCAGATCAAAGAAAGCAGATCTTGTCTTCATG
1 TACTGGCT-G-A-AGTAGATCAAAGATACCAGATCTTGTCTACCCA
* * * * *
17558100 TATTGGCGTGAAGTGGATCAGAGTTACCAGATCTTGCCTACCCA
1 TACTGGC-TGAAGTAGATCAAAGATACCAGATCTTGTCTACCCA
17558144 TACTGG
1 TACTGG
17558150 TGGCGAAGCA
Statistics
Matches: 69, Mismatches: 21, Indels: 10
0.69 0.21 0.10
Matches are distributed among these distances:
42 1 0.01
43 1 0.01
44 34 0.49
45 31 0.45
46 1 0.01
47 1 0.01
ACGTcount: A:0.28, C:0.22, G:0.24, T:0.27
Consensus pattern (43 bp):
TACTGGCTGAAGTAGATCAAAGATACCAGATCTTGTCTACCCA
Found at i:17558087 original size:89 final size:89
Alignment explanation
Indices: 17557986--17558214 Score: 291
Period size: 89 Copynumber: 2.6 Consensus size: 89
17557976 GAGCAGGTTG
* * * *
17557986 AAAGATAA-CAGATCCTGTCTTCATGTACTGGCATGAAGTAGATCATAGATACCAGATCTTGTCT
1 AAAGA-AAGCAGATCTTGTCTTCATGTACTGGCGTGAAGTAGATCAAAGATACCAGATCTTGCCT
* *
17558050 CCCCATACTGGTGGC-AGAGCAGATC
65 ACCCATACTGGTGGCGA-AGCAAATC
* * * *
17558075 AAAGAAAGCAGATCTTGTCTTCATGTATTGGCGTGAAGTGGATCAGAGTTACCAGATCTTGCCTA
1 AAAGAAAGCAGATCTTGTCTTCATGTACTGGCGTGAAGTAGATCAAAGATACCAGATCTTGCCTA
17558140 CCCATACTGGTGGCGAAGCAAATC
66 CCCATACTGGTGGCGAAGCAAATC
* * * * *
17558164 AAAGAAAGCAGATCTTATTTTCATATACCGGCGTGAAATAGATCAAAGATA
1 AAAGAAAGCAGATCTTGTCTTCATGTACTGGCGTGAAGTAGATCAAAGATA
17558215 GTAGGTCCTG
Statistics
Matches: 120, Mismatches: 18, Indels: 4
0.85 0.13 0.03
Matches are distributed among these distances:
88 2 0.02
89 117 0.98
90 1 0.01
ACGTcount: A:0.33, C:0.20, G:0.22, T:0.26
Consensus pattern (89 bp):
AAAGAAAGCAGATCTTGTCTTCATGTACTGGCGTGAAGTAGATCAAAGATACCAGATCTTGCCTA
CCCATACTGGTGGCGAAGCAAATC
Found at i:17560146 original size:3 final size:3
Alignment explanation
Indices: 17560140--17560171 Score: 57
Period size: 3 Copynumber: 11.0 Consensus size: 3
17560130 TTTTTGGCAC
17560140 TAT TAT TAT TAT TAT TAT TAT TAT TAT T-T TAT
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT
17560172 AACATACATA
Statistics
Matches: 28, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
2 2 0.07
3 26 0.93
ACGTcount: A:0.31, C:0.00, G:0.00, T:0.69
Consensus pattern (3 bp):
TAT
Found at i:17560368 original size:10 final size:9
Alignment explanation
Indices: 17560343--17560367 Score: 50
Period size: 9 Copynumber: 2.8 Consensus size: 9
17560333 AACATATATA
17560343 TTTTTTTCT
1 TTTTTTTCT
17560352 TTTTTTTCT
1 TTTTTTTCT
17560361 TTTTTTT
1 TTTTTTT
17560368 TAAAAACTTC
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
9 16 1.00
ACGTcount: A:0.00, C:0.08, G:0.00, T:0.92
Consensus pattern (9 bp):
TTTTTTTCT
Found at i:17572160 original size:12 final size:12
Alignment explanation
Indices: 17572145--17572195 Score: 59
Period size: 12 Copynumber: 4.2 Consensus size: 12
17572135 GAAAAAGGAA
17572145 GAAAAGAAAGAG
1 GAAAAGAAAGAG
*
17572157 GAAAAGAAAGAA
1 GAAAAGAAAGAG
*
17572169 GAGAAA-AACGAG
1 GA-AAAGAAAGAG
*
17572181 GAGAAGAAAGAG
1 GAAAAGAAAGAG
17572193 GAA
1 GAA
17572196 GTCAAGGAAG
Statistics
Matches: 31, Mismatches: 6, Indels: 4
0.76 0.15 0.10
Matches are distributed among these distances:
11 2 0.06
12 26 0.84
13 3 0.10
ACGTcount: A:0.65, C:0.02, G:0.33, T:0.00
Consensus pattern (12 bp):
GAAAAGAAAGAG
Found at i:17572161 original size:21 final size:21
Alignment explanation
Indices: 17572126--17572174 Score: 64
Period size: 21 Copynumber: 2.4 Consensus size: 21
17572116 TAGGACCTGC
*
17572126 AAAAG-AAGAGAAAAAGGAAG
1 AAAAGAAAGAGAAAAAGAAAG
*
17572146 AAAAGAAAGAGGAAAAGAAAG
1 AAAAGAAAGAGAAAAAGAAAG
*
17572167 AAGAGAAA
1 AAAAGAAA
17572175 AACGAGGAGA
Statistics
Matches: 25, Mismatches: 3, Indels: 1
0.86 0.10 0.03
Matches are distributed among these distances:
20 5 0.20
21 20 0.80
ACGTcount: A:0.71, C:0.00, G:0.29, T:0.00
Consensus pattern (21 bp):
AAAAGAAAGAGAAAAAGAAAG
Found at i:17572169 original size:24 final size:24
Alignment explanation
Indices: 17572142--17572191 Score: 66
Period size: 24 Copynumber: 2.1 Consensus size: 24
17572132 AGAGAAAAAG
17572142 GAAGA-AAAGAAAGAGGAAAAGAAA
1 GAAGAGAAA-AAAGAGGAAAAGAAA
* *
17572166 GAAGAGAAAAACGAGGAGAAGAAA
1 GAAGAGAAAAAAGAGGAAAAGAAA
17572190 GA
1 GA
17572192 GGAAGTCAAG
Statistics
Matches: 23, Mismatches: 2, Indels: 2
0.85 0.07 0.07
Matches are distributed among these distances:
24 20 0.87
25 3 0.13
ACGTcount: A:0.66, C:0.02, G:0.32, T:0.00
Consensus pattern (24 bp):
GAAGAGAAAAAAGAGGAAAAGAAA
Found at i:17572169 original size:36 final size:36
Alignment explanation
Indices: 17572127--17572195 Score: 111
Period size: 36 Copynumber: 1.9 Consensus size: 36
17572117 AGGACCTGCA
*
17572127 AAAGAAGAGAAAAAGGAAGAAAAGAAAGAGGAAAAG
1 AAAGAAGAGAAAAACGAAGAAAAGAAAGAGGAAAAG
* *
17572163 AAAGAAGAGAAAAACGAGGAGAAGAAAGAGGAA
1 AAAGAAGAGAAAAACGAAGAAAAGAAAGAGGAA
17572196 GTCAAGGAAG
Statistics
Matches: 30, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
36 30 1.00
ACGTcount: A:0.67, C:0.01, G:0.32, T:0.00
Consensus pattern (36 bp):
AAAGAAGAGAAAAACGAAGAAAAGAAAGAGGAAAAG
Found at i:17572206 original size:36 final size:36
Alignment explanation
Indices: 17572127--17572213 Score: 102
Period size: 36 Copynumber: 2.4 Consensus size: 36
17572117 AGGACCTGCA
* *
17572127 AAAGAAGAGAAAAAGGAAGAAAAGAAAGAGGAAAAG
1 AAAGAAGAGAAAAACGAAGAAAAGAAAGAGGAAAAC
* * **
17572163 AAAGAAGAGAAAAACGAGGAGAAGAAAGAGGAAGTC
1 AAAGAAGAGAAAAACGAAGAAAAGAAAGAGGAAAAC
*
17572199 AAGGAAGAGCAAAAA
1 AAAGAAGAG-AAAAA
17572214 TAATGGAAAT
Statistics
Matches: 43, Mismatches: 7, Indels: 1
0.84 0.14 0.02
Matches are distributed among these distances:
36 38 0.88
37 5 0.12
ACGTcount: A:0.64, C:0.03, G:0.31, T:0.01
Consensus pattern (36 bp):
AAAGAAGAGAAAAACGAAGAAAAGAAAGAGGAAAAC
Found at i:17572709 original size:26 final size:26
Alignment explanation
Indices: 17572663--17572712 Score: 66
Period size: 26 Copynumber: 1.9 Consensus size: 26
17572653 AAATTTCGGT
*
17572663 TTAATTATCAATTCAATCGATTCATA
1 TTAATTATCAATTCAACCGATTCATA
*
17572689 TTAATTCTCAA-TCTAACCGATTCA
1 TTAATTATCAATTC-AACCGATTCA
17572713 AAGTCAATTT
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
25 2 0.10
26 19 0.90
ACGTcount: A:0.36, C:0.20, G:0.04, T:0.40
Consensus pattern (26 bp):
TTAATTATCAATTCAACCGATTCATA
Found at i:17572967 original size:28 final size:28
Alignment explanation
Indices: 17572909--17572968 Score: 66
Period size: 28 Copynumber: 2.1 Consensus size: 28
17572899 GGGATTTACG
* * * * *
17572909 TTATATATAACACCTTCACGTTTTTTTT
1 TTATATATAAAACCTTCACATCTTCTAT
*
17572937 TTATATATAAAACCTTCATATCTTCTAT
1 TTATATATAAAACCTTCACATCTTCTAT
17572965 TTAT
1 TTAT
17572969 TAATTTTCTC
Statistics
Matches: 26, Mismatches: 6, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
28 26 1.00
ACGTcount: A:0.30, C:0.17, G:0.02, T:0.52
Consensus pattern (28 bp):
TTATATATAAAACCTTCACATCTTCTAT
Found at i:17575829 original size:18 final size:20
Alignment explanation
Indices: 17575795--17575834 Score: 66
Period size: 18 Copynumber: 2.1 Consensus size: 20
17575785 AATACATTAT
17575795 TTTTTAAATTATTATCAATA
1 TTTTTAAATTATTATCAATA
17575815 TTTTTAAA-T-TTATCAATA
1 TTTTTAAATTATTATCAATA
17575833 TT
1 TT
17575835 GTTTTAAAAA
Statistics
Matches: 20, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
18 11 0.55
19 1 0.05
20 8 0.40
ACGTcount: A:0.38, C:0.05, G:0.00, T:0.57
Consensus pattern (20 bp):
TTTTTAAATTATTATCAATA
Found at i:17575839 original size:20 final size:21
Alignment explanation
Indices: 17575792--17575842 Score: 72
Period size: 20 Copynumber: 2.5 Consensus size: 21
17575782 AAAAATACAT
17575792 TATTTTTTAAATTATTATCAA
1 TATTTTTTAAATTATTATCAA
17575813 TA-TTTTTAAA-T-TTATCAA
1 TATTTTTTAAATTATTATCAA
17575831 TATTGTTTTAAA
1 TATT-TTTTAAA
17575843 AATATATAAT
Statistics
Matches: 28, Mismatches: 0, Indels: 5
0.85 0.00 0.15
Matches are distributed among these distances:
18 9 0.32
19 2 0.07
20 15 0.54
21 2 0.07
ACGTcount: A:0.37, C:0.04, G:0.02, T:0.57
Consensus pattern (21 bp):
TATTTTTTAAATTATTATCAA
Found at i:17609056 original size:34 final size:32
Alignment explanation
Indices: 17608999--17609078 Score: 90
Period size: 34 Copynumber: 2.5 Consensus size: 32
17608989 CAGATCAATA
* **
17608999 ACAGT-TCAATTCAGTTGGACCTTAGTGCACT
1 ACAGTATCAGTTCAGTTGGACCTTAGCCCACT
* *
17609030 ACAGTATCAGTATCAGTGTGGGCCTTAGCCCATT
1 ACAGTATCAGT-TCAGT-TGGACCTTAGCCCACT
17609064 ACAGTATCAGTTCAG
1 ACAGTATCAGTTCAG
17609079 GCATGCAATC
Statistics
Matches: 41, Mismatches: 5, Indels: 4
0.82 0.10 0.08
Matches are distributed among these distances:
31 5 0.12
32 4 0.10
33 9 0.22
34 23 0.56
ACGTcount: A:0.26, C:0.23, G:0.21, T:0.30
Consensus pattern (32 bp):
ACAGTATCAGTTCAGTTGGACCTTAGCCCACT
Found at i:17611370 original size:18 final size:17
Alignment explanation
Indices: 17611343--17611376 Score: 50
Period size: 18 Copynumber: 1.9 Consensus size: 17
17611333 ATCATTTCAT
17611343 ATTTCATTTCCCATCTC
1 ATTTCATTTCCCATCTC
*
17611360 ATTTCCATTTCTCATCT
1 ATTT-CATTTCCCATCT
17611377 TGTCATCTCA
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
17 4 0.27
18 11 0.73
ACGTcount: A:0.18, C:0.32, G:0.00, T:0.50
Consensus pattern (17 bp):
ATTTCATTTCCCATCTC
Found at i:17620362 original size:22 final size:22
Alignment explanation
Indices: 17620322--17620370 Score: 55
Period size: 22 Copynumber: 2.3 Consensus size: 22
17620312 TGGTGGTCAC
* *
17620322 AGTGGTGGTCCGGCGGTGGTGA
1 AGTGGTGGTCCGGCAGTGGAGA
* *
17620344 AGTGGTGGTTCGGTAGTGGAGA
1 AGTGGTGGTCCGGCAGTGGAGA
17620366 A-TGGT
1 AGTGGT
17620371 ATCAAGTGGT
Statistics
Matches: 23, Mismatches: 4, Indels: 1
0.82 0.14 0.04
Matches are distributed among these distances:
21 4 0.17
22 19 0.83
ACGTcount: A:0.14, C:0.08, G:0.51, T:0.27
Consensus pattern (22 bp):
AGTGGTGGTCCGGCAGTGGAGA
Found at i:17625238 original size:22 final size:21
Alignment explanation
Indices: 17625208--17625248 Score: 55
Period size: 21 Copynumber: 1.9 Consensus size: 21
17625198 AACATGTTCT
*
17625208 AATCGAACTAAATCATAATTAA
1 AATCCAACT-AATCATAATTAA
*
17625230 AATCCAACTATTCATAATT
1 AATCCAACTAATCATAATT
17625249 GAGCCACTAA
Statistics
Matches: 17, Mismatches: 2, Indels: 1
0.85 0.10 0.05
Matches are distributed among these distances:
21 9 0.53
22 8 0.47
ACGTcount: A:0.49, C:0.17, G:0.02, T:0.32
Consensus pattern (21 bp):
AATCCAACTAATCATAATTAA
Found at i:17629727 original size:55 final size:55
Alignment explanation
Indices: 17629667--17629778 Score: 215
Period size: 55 Copynumber: 2.0 Consensus size: 55
17629657 ACAAGTTAGT
17629667 TGATAAATGGTTAAATGTGCACATGTTTAGGTATCTTTGATGTTTGTGATTGAGG
1 TGATAAATGGTTAAATGTGCACATGTTTAGGTATCTTTGATGTTTGTGATTGAGG
*
17629722 TGATAAATGGTTAAATGTGTACATGTTTAGGTATCTTTGATGTTTGTGATTGAGG
1 TGATAAATGGTTAAATGTGCACATGTTTAGGTATCTTTGATGTTTGTGATTGAGG
17629777 TG
1 TG
17629779 CCTATATGAC
Statistics
Matches: 56, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
55 56 1.00
ACGTcount: A:0.25, C:0.04, G:0.28, T:0.43
Consensus pattern (55 bp):
TGATAAATGGTTAAATGTGCACATGTTTAGGTATCTTTGATGTTTGTGATTGAGG
Found at i:17630768 original size:24 final size:24
Alignment explanation
Indices: 17630741--17630794 Score: 72
Period size: 24 Copynumber: 2.2 Consensus size: 24
17630731 AATAGGAGAA
* *
17630741 AATAATTTATCAGTTAATAATAGT
1 AATAATTAATCAATTAATAATAGT
* *
17630765 AATAATTAATTAATTAATAATGGT
1 AATAATTAATCAATTAATAATAGT
17630789 AATAAT
1 AATAAT
17630795 AAAATAATTG
Statistics
Matches: 26, Mismatches: 4, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
24 26 1.00
ACGTcount: A:0.50, C:0.02, G:0.07, T:0.41
Consensus pattern (24 bp):
AATAATTAATCAATTAATAATAGT
Found at i:17630802 original size:24 final size:24
Alignment explanation
Indices: 17630754--17630803 Score: 73
Period size: 24 Copynumber: 2.1 Consensus size: 24
17630744 AATTTATCAG
* *
17630754 TTAATAATAGTAATAATTAATTAA
1 TTAATAATAGTAATAATAAAATAA
*
17630778 TTAATAATGGTAATAATAAAATAA
1 TTAATAATAGTAATAATAAAATAA
17630802 TT
1 TT
17630804 GGATTATTCG
Statistics
Matches: 23, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
24 23 1.00
ACGTcount: A:0.54, C:0.00, G:0.06, T:0.40
Consensus pattern (24 bp):
TTAATAATAGTAATAATAAAATAA
Found at i:17632385 original size:20 final size:22
Alignment explanation
Indices: 17632337--17632389 Score: 79
Period size: 22 Copynumber: 2.4 Consensus size: 22
17632327 ATACACATAT
*
17632337 TATATTATATGCGTGGGTCTTAC
1 TATA-TATATGCATGGGTCTTAC
*
17632360 TATATATATGCATGGGTCTTAT
1 TATATATATGCATGGGTCTTAC
17632382 TATATATA
1 TATATATA
17632390 ATATATATTT
Statistics
Matches: 28, Mismatches: 2, Indels: 1
0.90 0.06 0.03
Matches are distributed among these distances:
22 24 0.86
23 4 0.14
ACGTcount: A:0.28, C:0.09, G:0.17, T:0.45
Consensus pattern (22 bp):
TATATATATGCATGGGTCTTAC
Found at i:17632734 original size:18 final size:18
Alignment explanation
Indices: 17632713--17632768 Score: 60
Period size: 18 Copynumber: 3.1 Consensus size: 18
17632703 TCTGTTAACT
17632713 TGGTGAATTATATTATTA
1 TGGTGAATTATATTATTA
*
17632731 TGGTGAACTATATTAATT-
1 TGGTGAATTATATT-ATTA
* * *
17632749 TGGTGATTTGTATTAATA
1 TGGTGAATTATATTATTA
17632767 TG
1 TG
17632769 ACGAATTGTA
Statistics
Matches: 31, Mismatches: 5, Indels: 4
0.77 0.12 0.10
Matches are distributed among these distances:
17 2 0.06
18 26 0.84
19 3 0.10
ACGTcount: A:0.30, C:0.02, G:0.20, T:0.48
Consensus pattern (18 bp):
TGGTGAATTATATTATTA
Found at i:17632752 original size:36 final size:36
Alignment explanation
Indices: 17632698--17632768 Score: 88
Period size: 36 Copynumber: 2.0 Consensus size: 36
17632688 TGTTATATTT
* * *
17632698 TGAACTCTGTTAACTTGGTGAATTATATTATTATGG
1 TGAACTATATTAACTTGGTGAATTATATTAATATGG
* * *
17632734 TGAACTATATTAATTTGGTGATTTGTATTAATATG
1 TGAACTATATTAACTTGGTGAATTATATTAATATG
17632769 ACGAATTGTA
Statistics
Matches: 29, Mismatches: 6, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
36 29 1.00
ACGTcount: A:0.30, C:0.06, G:0.18, T:0.46
Consensus pattern (36 bp):
TGAACTATATTAACTTGGTGAATTATATTAATATGG
Found at i:17649369 original size:12 final size:12
Alignment explanation
Indices: 17649352--17649387 Score: 63
Period size: 12 Copynumber: 2.9 Consensus size: 12
17649342 TGGTTTTCTC
17649352 AAAATGGAAATG
1 AAAATGGAAATG
17649364 AAAATGGAAATG
1 AAAATGGAAATG
17649376 AAAATGAGAAAT
1 AAAATG-GAAAT
17649388 CAATTCATTT
Statistics
Matches: 23, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
12 18 0.78
13 5 0.22
ACGTcount: A:0.61, C:0.00, G:0.22, T:0.17
Consensus pattern (12 bp):
AAAATGGAAATG
Found at i:17659501 original size:50 final size:50
Alignment explanation
Indices: 17659393--17659638 Score: 203
Period size: 50 Copynumber: 4.8 Consensus size: 50
17659383 ATTTGGGTAA
*
17659393 AGAGATCCCA-GTAAGACCATGTCTGGGACATGGCATTGGCATCACTGGGATTGTG
1 AGAGATCCCATGTAAGACCATGTCTGGGACATGGCATTGG---CACTGAGA---TG
* *
17659448 AGAGGTCCCATGTAAGACCATGTCTGGGACATGGCGTTGGCACTGAGATG
1 AGAGATCCCATGTAAGACCATGTCTGGGACATGGCATTGGCACTGAGATG
* ** * * * *
17659498 AGAGGTCCCCCGTAAGACCATGTCTGGGACATGTCATGGGCACCGATATG
1 AGAGATCCCATGTAAGACCATGTCTGGGACATGGCATTGGCACTGAGATG
* * * * * * *
17659548 AGA-ACTCCCATGTAAGACCATATTTGGGATATGACATTGGCAAT-ACAAG
1 AGAGA-TCCCATGTAAGACCATGTCTGGGACATGGCATTGGCACTGAGATG
* * * *
17659597 AAACATCTCATGAAAGACCATGTCTGGGACATGG-ATTTGGCA
1 AGAGATCCCATGTAAGACCATGTCTGGGACATGGCA-TTGGCA
17659639 TGTTATTATC
Statistics
Matches: 158, Mismatches: 29, Indels: 14
0.79 0.14 0.07
Matches are distributed among these distances:
48 1 0.01
49 34 0.22
50 79 0.50
53 7 0.04
55 9 0.06
56 28 0.18
ACGTcount: A:0.28, C:0.21, G:0.28, T:0.23
Consensus pattern (50 bp):
AGAGATCCCATGTAAGACCATGTCTGGGACATGGCATTGGCACTGAGATG
Found at i:17659588 original size:100 final size:104
Alignment explanation
Indices: 17659403--17659589 Score: 238
Period size: 100 Copynumber: 1.8 Consensus size: 104
17659393 AGAGATCCCA
* * **
17659403 GTAAGACCATGTCTGGGACATGGCATTGGCATCACTGGGATTGTGAGAGGTCCCATGTAAGACCA
1 GTAAGACCATGTCTGGGACATGGCATGGGCATCAC--GGATTATGAGAACTCCCATGTAAGACCA
* * *
17659468 TGTCTGGGACATGGCGTTGGCACTGAGATGAGAGGTCCCCC
64 TATCTGGGACATGACATTGGCACTGAGATGAGAGGTCCCCC
*
17659509 GTAAGACCATGTCTGGGACATGTCATGGGCA-C-C-GA-TATGAGAACTCCCATGTAAGACCATA
1 GTAAGACCATGTCTGGGACATGGCATGGGCATCACGGATTATGAGAACTCCCATGTAAGACCATA
* *
17659570 TTTGGGATATGACATTGGCA
66 TCTGGGACATGACATTGGCA
17659590 ATACAAGAAA
Statistics
Matches: 71, Mismatches: 10, Indels: 6
0.82 0.11 0.07
Matches are distributed among these distances:
100 38 0.54
101 2 0.03
104 1 0.01
105 1 0.01
106 29 0.41
ACGTcount: A:0.26, C:0.21, G:0.30, T:0.24
Consensus pattern (104 bp):
GTAAGACCATGTCTGGGACATGGCATGGGCATCACGGATTATGAGAACTCCCATGTAAGACCATA
TCTGGGACATGACATTGGCACTGAGATGAGAGGTCCCCC
Found at i:17663320 original size:6 final size:6
Alignment explanation
Indices: 17663309--17663334 Score: 52
Period size: 6 Copynumber: 4.3 Consensus size: 6
17663299 TATCACAAAG
17663309 AAAATA AAAATA AAAATA AAAATA AA
1 AAAATA AAAATA AAAATA AAAATA AA
17663335 GAACACAGAT
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 20 1.00
ACGTcount: A:0.85, C:0.00, G:0.00, T:0.15
Consensus pattern (6 bp):
AAAATA
Found at i:17666293 original size:13 final size:13
Alignment explanation
Indices: 17666275--17666299 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
17666265 TAATGGTATA
17666275 TTGAATCCATGAT
1 TTGAATCCATGAT
17666288 TTGAATCCATGA
1 TTGAATCCATGA
17666300 AAATTTAGTA
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.32, C:0.16, G:0.16, T:0.36
Consensus pattern (13 bp):
TTGAATCCATGAT
Found at i:17668314 original size:47 final size:47
Alignment explanation
Indices: 17668260--17668713 Score: 722
Period size: 47 Copynumber: 9.7 Consensus size: 47
17668250 TTAGGATTTT
*
17668260 ATGTGATGAATGTGAATGTGTATATATGTGATAAGGCCTAATGGCCG
1 ATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCG
* * *
17668307 ATGTGATGAATGTGAAA--G----TATGTGATAAGGTCGAATGGCCA
1 ATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCG
17668348 ATGTGATGAATGTGAAAGTGTATATATATGTGATAAGGCCTAATGGCCG
1 ATGTGATGAATGTGAAAGTG--TATATATGTGATAAGGCCTAATGGCCG
*
17668397 ATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATAGCCG
1 ATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCG
17668444 ATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCG
1 ATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCG
*
17668491 ATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATAGCCG
1 ATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCG
17668538 ATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCG
1 ATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCG
17668585 ATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCG
1 ATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCG
* * * * *
17668632 ATGTGATGAATGTGAAAGTGTATATATGTGACAGGGCCGAGTGGCCA
1 ATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCG
* * *
17668679 ACGTGATGGATGTGAAAGTGTATAAATGTGATAAG
1 ATGTGATGAATGTGAAAGTGTATATATGTGATAAG
17668714 TCCCGAAGGG
Statistics
Matches: 378, Mismatches: 21, Indels: 16
0.91 0.05 0.04
Matches are distributed among these distances:
41 37 0.10
43 1 0.00
45 1 0.00
47 299 0.79
49 40 0.11
ACGTcount: A:0.33, C:0.08, G:0.30, T:0.29
Consensus pattern (47 bp):
ATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCG
Found at i:17674359 original size:56 final size:52
Alignment explanation
Indices: 17674273--17674520 Score: 222
Period size: 50 Copynumber: 4.8 Consensus size: 52
17674263 ATTTGGGTAA
* * *
17674273 AGAGGTACCATGTAAGACCATGTCTGGGACATGGCATTGGCATCATTGAGATTATG
1 AGAGGTCCCATGTAAGACCATGTCTGGGACATGGCGTTGGCA-CACTGA-A--ATG
*
17674329 AGAGGTCCCATGTAGGACCATGTCTGGGACATGGCGTT-G-ACACTGAAATG
1 AGAGGTCCCATGTAAGACCATGTCTGGGACATGGCGTTGGCACACTGAAATG
** *
17674379 A-ATGGTCCCATGTAAGACCACATCTGGGACATGGCGTTGGCAC-C-GAGATG
1 AGA-GGTCCCATGTAAGACCATGTCTGGGACATGGCGTTGGCACACTGAAATG
* ** * * * *
17674429 AAAGGTCCCCCGTAAGACCATGTCTAGGACATGGCATGGGCAC-CT-ATATG
1 AGAGGTCCCATGTAAGACCATGTCTGGGACATGGCGTTGGCACACTGAAATG
** * * * *
17674479 AGAACTCCCATGTAAGACCATATTTGGGATATGGCATTGGCA
1 AGAGGTCCCATGTAAGACCATGTCTGGGACATGGCGTTGGCA
17674521 GTACAAGAAA
Statistics
Matches: 161, Mismatches: 26, Indels: 16
0.79 0.13 0.08
Matches are distributed among these distances:
49 1 0.01
50 112 0.70
51 3 0.02
52 3 0.02
53 5 0.03
54 1 0.01
55 1 0.01
56 35 0.22
ACGTcount: A:0.28, C:0.21, G:0.28, T:0.23
Consensus pattern (52 bp):
AGAGGTCCCATGTAAGACCATGTCTGGGACATGGCGTTGGCACACTGAAATG
Found at i:17674514 original size:50 final size:49
Alignment explanation
Indices: 17674334--17674568 Score: 168
Period size: 50 Copynumber: 4.7 Consensus size: 49
17674324 TTATGAGAGG
* * * * * **
17674334 TCCCATGTAGGACCATGTCTGGGACATGGCGTTGACA-CTGAAATGAATGG
1 TCCCATGTAAGACCATATCTGGGACATGGCATTGGCACCT-ACATGAA-AC
* * * * *
17674384 TCCCATGTAAGACCACATCTGGGACATGGCGTTGGCACCGAGATGAAAGG
1 TCCCATGTAAGACCATATCTGGGACATGGCATTGGCACCTACATGAAA-C
** * * * *
17674434 TCCCCCGTAAGACCATGTCTAGGACATGGCATGGGCACCTATATGAGAAC
1 TCCCATGTAAGACCATATCTGGGACATGGCATTGGCACCTACATGA-AAC
* * * *
17674484 TCCCATGTAAGACCATATTTGGGATATGGCATTGGCA-GTACAAGAAAC
1 TCCCATGTAAGACCATATCTGGGACATGGCATTGGCACCTACATGAAAC
* * * * *
17674532 ATCCCATGTAAGACTATGTCTAGGACATAGCTTTGGC
1 -TCCCATGTAAGACCATATCTGGGACATGGCATTGGC
17674569 TTGCTATATT
Statistics
Matches: 147, Mismatches: 34, Indels: 9
0.77 0.18 0.05
Matches are distributed among these distances:
48 3 0.02
49 34 0.23
50 107 0.73
51 3 0.02
ACGTcount: A:0.29, C:0.23, G:0.26, T:0.23
Consensus pattern (49 bp):
TCCCATGTAAGACCATATCTGGGACATGGCATTGGCACCTACATGAAAC
Found at i:17681621 original size:56 final size:50
Alignment explanation
Indices: 17681554--17681740 Score: 185
Period size: 50 Copynumber: 3.6 Consensus size: 50
17681544 ATTTGGGTAA
**
17681554 AGAGGTCCCATGTAAGACCATGTCTGGGACACAGCATTCGCATCATTGAGATTATG
1 AGAGGTCCCATGTAAGACCATGTCTGGGACACAGCATT-G-AT-ACCGAG---ATG
* ** * *
17681610 AGAGGTCCCATGTAAGACCATGTTTGGGACATGGCGTTGGTACCGAGATG
1 AGAGGTCCCATGTAAGACCATGTCTGGGACACAGCATTGATACCGAGATG
** * **
17681660 AGAGGTCCCATGTAAGACCATGTCTGGGACATGGCTTTGGCACCGAGATG
1 AGAGGTCCCATGTAAGACCATGTCTGGGACACAGCATTGATACCGAGATG
** *
17681710 AGAGGTCCCCCGTAAGACCATGTTTGGGACA
1 AGAGGTCCCATGTAAGACCATGTCTGGGACA
17681741 TGGCATGGGC
Statistics
Matches: 118, Mismatches: 13, Indels: 6
0.86 0.09 0.04
Matches are distributed among these distances:
50 78 0.66
53 4 0.03
54 1 0.01
55 1 0.01
56 34 0.29
ACGTcount: A:0.26, C:0.21, G:0.30, T:0.23
Consensus pattern (50 bp):
AGAGGTCCCATGTAAGACCATGTCTGGGACACAGCATTGATACCGAGATG
Found at i:17681665 original size:50 final size:50
Alignment explanation
Indices: 17681607--17681801 Score: 237
Period size: 50 Copynumber: 3.9 Consensus size: 50
17681597 CATTGAGATT
*
17681607 ATGAGAGGTCCCATGTAAGACCATGTTTGGGACATGGCGTTGGTACCGAG
1 ATGAGAGGTCCCATGTAAGACCATGTTTGGGACATGGCGTTGGCACCGAG
* *
17681657 ATGAGAGGTCCCATGTAAGACCATGTCTGGGACATGGCTTTGGCACCGAG
1 ATGAGAGGTCCCATGTAAGACCATGTTTGGGACATGGCGTTGGCACCGAG
** * * * *
17681707 ATGAGAGGTCCCCCGTAAGACCATGTTTGGGACATGGCATGGGCACCTAT
1 ATGAGAGGTCCCATGTAAGACCATGTTTGGGACATGGCGTTGGCACCGAG
** * * * * * *
17681757 ATGAGAACTCACATGTAAGAACATATCTGGGATATGGCATTGGCA
1 ATGAGAGGTCCCATGTAAGACCATGTTTGGGACATGGCGTTGGCA
17681802 GTACAAGAAA
Statistics
Matches: 125, Mismatches: 20, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
50 125 1.00
ACGTcount: A:0.27, C:0.20, G:0.30, T:0.23
Consensus pattern (50 bp):
ATGAGAGGTCCCATGTAAGACCATGTTTGGGACATGGCGTTGGCACCGAG
Found at i:17681739 original size:100 final size:103
Alignment explanation
Indices: 17681554--17681801 Score: 286
Period size: 100 Copynumber: 2.4 Consensus size: 103
17681544 ATTTGGGTAA
** * *
17681554 AGAGGTCCCATGTAAGACCATGTCTGGGACACAGCATTCGCATCATTGAGATTATGAGAGGTCCC
1 AGAGGTCCCATGTAAGACCATGTCTGGGACATGGCATTGGCATCA-CGAG--TATGAGAGGTCCC
* * * *
17681619 ATGTAAGACCATGTTTGGGACATGGCGTTGGTACCGAGATG
63 ACGTAAGACCATGTTTGGGACATGGCATGGGCACCGAGATG
* *
17681660 AGAGGTCCCATGTAAGACCATGTCTGGGACATGGCTTTGGCA-C-CGAG-ATGAGAGGTCCCCCG
1 AGAGGTCCCATGTAAGACCATGTCTGGGACATGGCATTGGCATCACGAGTATGAGAGGTCCCACG
* *
17681722 TAAGACCATGTTTGGGACATGGCATGGGCACCTATATG
66 TAAGACCATGTTTGGGACATGGCATGGGCACCGAGATG
** * * * *
17681760 AGAACTCACATGTAAGAACATATCTGGGATATGGCATTGGCA
1 AGAGGTCCCATGTAAGACCATGTCTGGGACATGGCATTGGCA
17681802 GTACAAGAAA
Statistics
Matches: 123, Mismatches: 19, Indels: 6
0.83 0.13 0.04
Matches are distributed among these distances:
100 81 0.66
103 3 0.02
105 1 0.01
106 38 0.31
ACGTcount: A:0.27, C:0.21, G:0.29, T:0.23
Consensus pattern (103 bp):
AGAGGTCCCATGTAAGACCATGTCTGGGACATGGCATTGGCATCACGAGTATGAGAGGTCCCACG
TAAGACCATGTTTGGGACATGGCATGGGCACCGAGATG
Found at i:17688087 original size:50 final size:49
Alignment explanation
Indices: 17688002--17688180 Score: 209
Period size: 50 Copynumber: 3.6 Consensus size: 49
17687992 ATGATGGTCA
*** ** *
17688002 CATGTGTAGTACTATGTGCAGGCTACTACATGTACCGGA-ATGATAGGTC
1 CATGTGTAGTACTATGTGCAGGCTACTATGCGTACCGGATA-GATTCGAC
*
17688051 GCATGTGTAGTACTATGTGCAGGCTACTATGCGTACCGGATAGTTTCGAC
1 -CATGTGTAGTACTATGTGCAGGCTACTATGCGTACCGGATAGATTCGAC
* * * *
17688101 CACGTGT-GTAGTACGTGCAGGCTACTATGCGTACCGGATAGTTTCGAC
1 CATGTGTAGTACTATGTGCAGGCTACTATGCGTACCGGATAGATTCGAC
17688149 CATGTGTGTAGTACTATGTGCAGGCTACTATG
1 CA--TGTGTAGTACTATGTGCAGGCTACTATG
17688181 TATATCAGAT
Statistics
Matches: 112, Mismatches: 13, Indels: 7
0.85 0.10 0.05
Matches are distributed among these distances:
48 41 0.37
49 6 0.05
50 44 0.39
51 21 0.19
ACGTcount: A:0.23, C:0.20, G:0.28, T:0.30
Consensus pattern (49 bp):
CATGTGTAGTACTATGTGCAGGCTACTATGCGTACCGGATAGATTCGAC
Found at i:17688129 original size:48 final size:49
Alignment explanation
Indices: 17688054--17688180 Score: 202
Period size: 48 Copynumber: 2.5 Consensus size: 49
17688044 ATAGGTCGCA
17688054 TGTGTAGTACTATGTGCAGGCTACTATGCGTACCGGATAGTTTCGACCACG
1 TGTGTAGTAC--TGTGCAGGCTACTATGCGTACCGGATAGTTTCGACCACG
*
17688105 TGTGTAGTAC-GTGCAGGCTACTATGCGTACCGGATAGTTTCGACCATG
1 TGTGTAGTACTGTGCAGGCTACTATGCGTACCGGATAGTTTCGACCACG
17688153 TGTGTAGTACTATGTGCAGGCTACTATG
1 TGTGTAGTAC--TGTGCAGGCTACTATG
17688181 TATATCAGAT
Statistics
Matches: 72, Mismatches: 1, Indels: 6
0.91 0.01 0.08
Matches are distributed among these distances:
48 47 0.65
51 25 0.35
ACGTcount: A:0.21, C:0.20, G:0.28, T:0.31
Consensus pattern (49 bp):
TGTGTAGTACTGTGCAGGCTACTATGCGTACCGGATAGTTTCGACCACG
Found at i:17688208 original size:51 final size:50
Alignment explanation
Indices: 17687995--17688219 Score: 210
Period size: 51 Copynumber: 4.5 Consensus size: 50
17687985 AGTGAAAATG
***
17687995 ATGGTCACATGTGTAGTACTATGTGCAGGCTACTACATGTACCGGA-A-T
1 ATGGTCACATGTGTAGTACTATGTGCAGGCTACTATGCGTACCGGATAGT
*
17688043 GATAGGTCGCATGTGTAGTACTATGTGCAGGCTACTATGCGTACCGGATAGT
1 -AT-GGTCACATGTGTAGTACTATGTGCAGGCTACTATGCGTACCGGATAGT
* ** *
17688095 TTCGACCACGTGTGTAGTAC---GTGCAGGCTACTATGCGTACCGGATAGT
1 AT-GGTCACATGTGTAGTACTATGTGCAGGCTACTATGCGTACCGGATAGT
* * * ** * * *
17688143 TTCGAC-CATGTGTGTAGTACTATGTGCAGGCTACTATGTATATCAGATGGT
1 ATGGTCACA--TGTGTAGTACTATGTGCAGGCTACTATGCGTACCGGATAGT
17688194 AATGGTCACATGTGTAGTACTATGTG
1 -ATGGTCACATGTGTAGTACTATGTG
17688220 AATCAAACAT
Statistics
Matches: 144, Mismatches: 22, Indels: 18
0.78 0.12 0.10
Matches are distributed among these distances:
46 1 0.01
47 1 0.01
48 40 0.28
49 2 0.01
50 40 0.28
51 54 0.38
52 4 0.03
53 2 0.01
ACGTcount: A:0.24, C:0.18, G:0.28, T:0.31
Consensus pattern (50 bp):
ATGGTCACATGTGTAGTACTATGTGCAGGCTACTATGCGTACCGGATAGT
Found at i:17694673 original size:2 final size:2
Alignment explanation
Indices: 17694666--17694700 Score: 70
Period size: 2 Copynumber: 17.5 Consensus size: 2
17694656 AATAAGCAAA
17694666 AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG A
1 AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG A
17694701 AAGCTCTCAA
Statistics
Matches: 33, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 33 1.00
ACGTcount: A:0.51, C:0.00, G:0.49, T:0.00
Consensus pattern (2 bp):
AG
Found at i:17697125 original size:47 final size:47
Alignment explanation
Indices: 17697047--17697349 Score: 491
Period size: 47 Copynumber: 6.4 Consensus size: 47
17697037 CCCTTCGGGA
* * * *
17697047 CTTATCACATTTATACACTTTCACATCCATCACGTTGGCCACTT-GGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCA-TTAGGC
* *
17697094 CCTGTCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
*
17697141 CTTATCACATATATACACTTTCACATTCATCACATCGACCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
*
17697188 CTTATCACATATATACACTTTCACATTCATCACATCGGCTATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
* *
17697235 CTTATCACATAAATACACTTTCACATTCATCATATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
*
17697282 CTTATCACATATATACACTTTCACATTCATCACATCGGCTATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
17697329 CTTATCACATATATACACTTT
1 CTTATCACATATATACACTTT
17697350 ATCTTGGCCG
Statistics
Matches: 238, Mismatches: 17, Indels: 2
0.93 0.07 0.01
Matches are distributed among these distances:
46 2 0.01
47 236 0.99
ACGTcount: A:0.29, C:0.29, G:0.08, T:0.33
Consensus pattern (47 bp):
CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
Found at i:17699237 original size:13 final size:13
Alignment explanation
Indices: 17699219--17699243 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
17699209 TACTAAATTT
17699219 TCATGGATTCAAA
1 TCATGGATTCAAA
17699232 TCATGGATTCAA
1 TCATGGATTCAA
17699244 TATACCATTA
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.36, C:0.16, G:0.16, T:0.32
Consensus pattern (13 bp):
TCATGGATTCAAA
Found at i:17700434 original size:15 final size:15
Alignment explanation
Indices: 17700414--17700445 Score: 55
Period size: 15 Copynumber: 2.1 Consensus size: 15
17700404 CATTTCACTA
*
17700414 TTATGTCTTTTGTAT
1 TTATGTCTTTTATAT
17700429 TTATGTCTTTTATAT
1 TTATGTCTTTTATAT
17700444 TT
1 TT
17700446 TGCATGTTTA
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
15 16 1.00
ACGTcount: A:0.16, C:0.06, G:0.09, T:0.69
Consensus pattern (15 bp):
TTATGTCTTTTATAT
Found at i:17701734 original size:13 final size:13
Alignment explanation
Indices: 17701716--17701740 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
17701706 CCCAATATGT
17701716 AATTGAACTTGAA
1 AATTGAACTTGAA
17701729 AATTGAACTTGA
1 AATTGAACTTGA
17701741 GATCGTAAAT
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:0.44, C:0.08, G:0.16, T:0.32
Consensus pattern (13 bp):
AATTGAACTTGAA
Found at i:17702117 original size:17 final size:17
Alignment explanation
Indices: 17702095--17702168 Score: 59
Period size: 17 Copynumber: 4.5 Consensus size: 17
17702085 ATTTTATTAG
17702095 TTTAATATTAAATTTAA
1 TTTAATATTAAATTTAA
17702112 TTTAATACTT--ATCTTAA
1 TTTAATA-TTAAAT-TTAA
* **
17702129 --TAGTATTTTA-TTAA
1 TTTAATATTAAATTTAA
*
17702143 TTTAATATTAAATCTAA
1 TTTAATATTAAATTTAA
17702160 TTTAATATT
1 TTTAATATT
17702169 TATATTGTAG
Statistics
Matches: 45, Mismatches: 5, Indels: 14
0.70 0.08 0.22
Matches are distributed among these distances:
14 6 0.13
15 4 0.09
16 10 0.22
17 23 0.51
18 2 0.04
ACGTcount: A:0.41, C:0.04, G:0.01, T:0.54
Consensus pattern (17 bp):
TTTAATATTAAATTTAA
Found at i:17702136 original size:48 final size:48
Alignment explanation
Indices: 17702078--17702171 Score: 152
Period size: 48 Copynumber: 2.0 Consensus size: 48
17702068 ATTCCAGAAA
* * *
17702078 TAATATTATTTTATTAGTTTAATATTAAATTTAATTTAATACTTATCT
1 TAATAGTATTTTATTAATTTAATATTAAATCTAATTTAATACTTATCT
*
17702126 TAATAGTATTTTATTAATTTAATATTAAATCTAATTTAATATTTAT
1 TAATAGTATTTTATTAATTTAATATTAAATCTAATTTAATACTTAT
17702172 ATTGTAGATA
Statistics
Matches: 42, Mismatches: 4, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
48 42 1.00
ACGTcount: A:0.39, C:0.03, G:0.02, T:0.55
Consensus pattern (48 bp):
TAATAGTATTTTATTAATTTAATATTAAATCTAATTTAATACTTATCT
Found at i:17702242 original size:28 final size:29
Alignment explanation
Indices: 17702199--17702257 Score: 75
Period size: 28 Copynumber: 2.1 Consensus size: 29
17702189 TATTATTTTA
* *
17702199 ATAAGATTTAATATTAAATTTAATCTAAT
1 ATAAGATTAAATATTAAATTAAATCTAAT
* *
17702228 ATAAGA-TAAATATTAGATTAAATTTAAT
1 ATAAGATTAAATATTAAATTAAATCTAAT
17702256 AT
1 AT
17702258 TAAAGTGATT
Statistics
Matches: 26, Mismatches: 4, Indels: 1
0.84 0.13 0.03
Matches are distributed among these distances:
28 20 0.77
29 6 0.23
ACGTcount: A:0.51, C:0.02, G:0.05, T:0.42
Consensus pattern (29 bp):
ATAAGATTAAATATTAAATTAAATCTAAT
Found at i:17707005 original size:25 final size:25
Alignment explanation
Indices: 17706975--17707027 Score: 79
Period size: 25 Copynumber: 2.1 Consensus size: 25
17706965 ATAACGTGTT
* *
17706975 TTATGTGCCTCTTTTTAAGAGGAAG
1 TTATGTACCTCATTTTAAGAGGAAG
*
17707000 TTATGTATCTCATTTTAAGAGGAAG
1 TTATGTACCTCATTTTAAGAGGAAG
17707025 TTA
1 TTA
17707028 ACTTTTGTAG
Statistics
Matches: 25, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
25 25 1.00
ACGTcount: A:0.28, C:0.09, G:0.21, T:0.42
Consensus pattern (25 bp):
TTATGTACCTCATTTTAAGAGGAAG
Found at i:17711556 original size:37 final size:36
Alignment explanation
Indices: 17711505--17711580 Score: 93
Period size: 37 Copynumber: 2.1 Consensus size: 36
17711495 ATTCCAAAAA
*
17711505 TAATATTATTTTAATAGT-TTAATATTAAATTTAAT-T
1 TAATATTATCTTAATAGTATT-ATATT-AATTTAATAT
*
17711541 TAATACTTATCTTAATAGTATTTTATTAATTTAATAT
1 TAATA-TTATCTTAATAGTATTATATTAATTTAATAT
17711578 TAA
1 TAA
17711581 AGTAATTATG
Statistics
Matches: 35, Mismatches: 2, Indels: 5
0.83 0.05 0.12
Matches are distributed among these distances:
36 13 0.37
37 20 0.57
38 2 0.06
ACGTcount: A:0.41, C:0.03, G:0.03, T:0.54
Consensus pattern (36 bp):
TAATATTATCTTAATAGTATTATATTAATTTAATAT
Found at i:17716986 original size:61 final size:63
Alignment explanation
Indices: 17716870--17716990 Score: 158
Period size: 61 Copynumber: 2.0 Consensus size: 63
17716860 GTTTTCTCCA
* * * * **
17716870 AAATGAAAATGAAAATGGAGAAAATGGAATCTTTTGAAAATGAATATGGTTTTCTCAAAATGG
1 AAATGAAAATGAAAATGGAGAAAATGGAATCATTTAAAAATGAACAAGGAATTCTCAAAATGG
17716933 AAATGAAAATGAAAAT-GAG-AAAT-GAATTCATTTAAAAATGAACAAGGAATTCTCAAAA
1 AAATGAAAATGAAAATGGAGAAAATGGAA-TCATTTAAAAATGAACAAGGAATTCTCAAAA
17716991 ATGATCGAAA
Statistics
Matches: 51, Mismatches: 6, Indels: 4
0.84 0.10 0.07
Matches are distributed among these distances:
60 3 0.06
61 29 0.57
62 3 0.06
63 16 0.31
ACGTcount: A:0.51, C:0.06, G:0.17, T:0.26
Consensus pattern (63 bp):
AAATGAAAATGAAAATGGAGAAAATGGAATCATTTAAAAATGAACAAGGAATTCTCAAAATGG
Found at i:17720455 original size:20 final size:20
Alignment explanation
Indices: 17720408--17720497 Score: 81
Period size: 20 Copynumber: 4.3 Consensus size: 20
17720398 ACTTTTATTA
* *
17720408 ATTTTTTTAATTTTTAAATA
1 ATTTTTTAAATTTTTAAATT
** *
17720428 ATACTTTAAAATTTTAAATT
1 ATTTTTTAAATTTTTAAATT
* *
17720448 ATTTTTTAAATTTTTATTAGT
1 ATTTTTTAAATTTTTA-AATT
*
17720469 ATTTTTATAAGATTTTTATATT
1 ATTTTT-TAA-ATTTTTAAATT
17720491 ATTTTTT
1 ATTTTTT
17720498 TTTGAAGTTT
Statistics
Matches: 56, Mismatches: 11, Indels: 5
0.78 0.15 0.07
Matches are distributed among these distances:
20 28 0.50
21 9 0.16
22 12 0.21
23 7 0.12
ACGTcount: A:0.33, C:0.01, G:0.02, T:0.63
Consensus pattern (20 bp):
ATTTTTTAAATTTTTAAATT
Found at i:17720483 original size:11 final size:11
Alignment explanation
Indices: 17720448--17720488 Score: 50
Period size: 12 Copynumber: 3.8 Consensus size: 11
17720438 ATTTTAAATT
17720448 ATTTTT-TAA-
1 ATTTTTATAAG
*
17720457 ATTTTTATTAG
1 ATTTTTATAAG
17720468 TATTTTTATAAG
1 -ATTTTTATAAG
17720480 ATTTTTATA
1 ATTTTTATA
17720489 TTATTTTTTT
Statistics
Matches: 27, Mismatches: 2, Indels: 4
0.82 0.06 0.12
Matches are distributed among these distances:
9 6 0.22
10 2 0.07
11 9 0.33
12 10 0.37
ACGTcount: A:0.32, C:0.00, G:0.05, T:0.63
Consensus pattern (11 bp):
ATTTTTATAAG
Found at i:17720860 original size:8 final size:8
Alignment explanation
Indices: 17720848--17720895 Score: 51
Period size: 8 Copynumber: 5.8 Consensus size: 8
17720838 TAAATAATAT
17720848 TATTTATA
1 TATTTATA
*
17720856 AATTTAATA
1 TATTT-ATA
*
17720865 TATTTAATT
1 TATTT-ATA
17720874 TATTTATA
1 TATTTATA
17720882 TATTTATA
1 TATTTATA
*
17720890 AATTTA
1 TATTTA
17720896 AATAATAATT
Statistics
Matches: 34, Mismatches: 5, Indels: 2
0.83 0.12 0.05
Matches are distributed among these distances:
8 19 0.56
9 15 0.44
ACGTcount: A:0.42, C:0.00, G:0.00, T:0.58
Consensus pattern (8 bp):
TATTTATA
Found at i:17720871 original size:9 final size:9
Alignment explanation
Indices: 17720842--17720896 Score: 53
Period size: 9 Copynumber: 6.3 Consensus size: 9
17720832 AATTTTTAAA
17720842 TAATATTATT
1 TAATA-TATT
*
17720852 T-ATAAATT
1 TAATATATT
17720860 TAATATATT
1 TAATATATT
*
17720869 TAATTTATT
1 TAATATATT
17720878 T-ATATATT
1 TAATATATT
*
17720886 T-ATAAATT
1 TAATATATT
17720894 TAA
1 TAA
17720897 ATAATAATTA
Statistics
Matches: 38, Mismatches: 5, Indels: 5
0.79 0.10 0.10
Matches are distributed among these distances:
8 18 0.47
9 19 0.50
10 1 0.03
ACGTcount: A:0.44, C:0.00, G:0.00, T:0.56
Consensus pattern (9 bp):
TAATATATT
Found at i:17721654 original size:50 final size:50
Alignment explanation
Indices: 17721579--17721685 Score: 196
Period size: 50 Copynumber: 2.1 Consensus size: 50
17721569 ATTCTATGAG
*
17721579 AAAGAAAACTAGAATATAATTACATTATAAGGTTTAAGACGCTAACTGAC
1 AAAGAAAACTAGAATATAATTACATTATAAGGTTTAAGACCCTAACTGAC
17721629 AAAGAAAACTAGAATATAATTACATTATAAGGTTTAAGACCCTAACTGAC
1 AAAGAAAACTAGAATATAATTACATTATAAGGTTTAAGACCCTAACTGAC
*
17721679 ATAGAAA
1 AAAGAAA
17721686 CTTTTTTTTT
Statistics
Matches: 55, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
50 55 1.00
ACGTcount: A:0.50, C:0.12, G:0.13, T:0.25
Consensus pattern (50 bp):
AAAGAAAACTAGAATATAATTACATTATAAGGTTTAAGACCCTAACTGAC
Found at i:17723176 original size:13 final size:13
Alignment explanation
Indices: 17723158--17723182 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
17723148 AAAATTATGT
17723158 TATTTTAATTTAA
1 TATTTTAATTTAA
17723171 TATTTTAATTTA
1 TATTTTAATTTA
17723183 TTAAATTTTT
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:0.36, C:0.00, G:0.00, T:0.64
Consensus pattern (13 bp):
TATTTTAATTTAA
Found at i:17723375 original size:22 final size:20
Alignment explanation
Indices: 17723349--17723388 Score: 62
Period size: 22 Copynumber: 1.9 Consensus size: 20
17723339 TTTGAATGTT
17723349 TGAGTTTAACTTATTTTTTAAA
1 TGAGTTTAA-TT-TTTTTTAAA
17723371 TGAGTTTAATTTTTTTTA
1 TGAGTTTAATTTTTTTTA
17723389 TCTAAACTTT
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
20 7 0.39
21 2 0.11
22 9 0.50
ACGTcount: A:0.28, C:0.03, G:0.10, T:0.60
Consensus pattern (20 bp):
TGAGTTTAATTTTTTTTAAA
Found at i:17727097 original size:15 final size:15
Alignment explanation
Indices: 17727077--17727106 Score: 51
Period size: 15 Copynumber: 2.0 Consensus size: 15
17727067 AATTTAATCT
17727077 TTTAAAAAAATTATA
1 TTTAAAAAAATTATA
*
17727092 TTTAAAAAATTTATA
1 TTTAAAAAAATTATA
17727107 AAGATATAAA
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
15 14 1.00
ACGTcount: A:0.57, C:0.00, G:0.00, T:0.43
Consensus pattern (15 bp):
TTTAAAAAAATTATA
Found at i:17727957 original size:20 final size:19
Alignment explanation
Indices: 17727941--17727994 Score: 65
Period size: 19 Copynumber: 2.8 Consensus size: 19
17727931 ACCAAAAATT
17727941 TATTTTAAAAATAAAAAAA
1 TATTTTAAAAATAAAAAAA
**
17727960 TATTTTAAAAATATTTTAAAA
1 TATTTTAAAAATA--AAAAAA
17727981 -ATTTTAAAAATAAA
1 TATTTTAAAAATAAA
17727995 TATTTATTAT
Statistics
Matches: 29, Mismatches: 4, Indels: 5
0.76 0.11 0.13
Matches are distributed among these distances:
19 13 0.45
20 12 0.41
21 4 0.14
ACGTcount: A:0.61, C:0.00, G:0.00, T:0.39
Consensus pattern (19 bp):
TATTTTAAAAATAAAAAAA
Found at i:17727971 original size:11 final size:11
Alignment explanation
Indices: 17727955--17727992 Score: 62
Period size: 11 Copynumber: 3.6 Consensus size: 11
17727945 TTAAAAATAA
17727955 AAAAATATTTT
1 AAAAATATTTT
17727966 AAAAATATTTT
1 AAAAATATTTT
17727977 -AAAA-ATTTT
1 AAAAATATTTT
17727986 AAAAATA
1 AAAAATA
17727993 AATATTTATT
Statistics
Matches: 25, Mismatches: 0, Indels: 4
0.86 0.00 0.14
Matches are distributed among these distances:
9 5 0.20
10 8 0.32
11 12 0.48
ACGTcount: A:0.61, C:0.00, G:0.00, T:0.39
Consensus pattern (11 bp):
AAAAATATTTT
Found at i:17728588 original size:6 final size:6
Alignment explanation
Indices: 17728577--17728602 Score: 52
Period size: 6 Copynumber: 4.3 Consensus size: 6
17728567 AAGCCGACGT
17728577 GGCAGC GGCAGC GGCAGC GGCAGC GG
1 GGCAGC GGCAGC GGCAGC GGCAGC GG
17728603 GTCCATCAAC
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 20 1.00
ACGTcount: A:0.15, C:0.31, G:0.54, T:0.00
Consensus pattern (6 bp):
GGCAGC
Found at i:17729611 original size:168 final size:169
Alignment explanation
Indices: 17729308--17729671 Score: 522
Period size: 168 Copynumber: 2.2 Consensus size: 169
17729298 TGGTCTTGAA
*
17729308 TGATTTTAGGAAACACG-TTTGTTTAAATTAAGACTTCAATTTTACAGCTTGATAAATTAGACTT
1 TGATTTTAGGAAACA-GATTTGTTTAAATTAAGACTTCAATTTTACAGCATGATAAATTAGACTT
17729372 TGTGATGACATGCAATTTGAATGCCTTCTTGTCCTTGATTTATATGGTTTTCCAATCACACAAAG
65 TGTGATGACATGCAA-TTGAATGCCTTCTTGTCCTTGATTTATATGGTTTTCCAATCACACAAAG
17729437 GAATATAAGTAAATAGTAATGAAACCTTGGGTCTT-AAATTT
129 GAATATAAGTAAATAGTAATGAAACCTT-GGTCTTAAAATTT
* *
17729478 TGATTCTAGGAAACAGATTTGTTTAAA-TAAGACTTCAATTTTACAGCATGATAAATTAGATTTT
1 TGATTTTAGGAAACAGATTTGTTTAAATTAAGACTTCAATTTTACAGCATGATAAATTAGACTTT
* * * ** *
17729542 GTGATGACATTCACA-TGAATGCTTTCTTGTCCTTTATTTATATGGTTTTCCAATTTCACAATGG
66 GTGATGACATGCA-ATTGAATGCCTTCTTGTCCTTGATTTATATGGTTTTCCAATCACACAAAGG
** * *
17729606 AATATACTTAAATGGTAATGAAACCTTTGTCTTAAAATTT
130 AATATAAGTAAATAGTAATGAAACCTTGGTCTTAAAATTT
* *
17729646 T-ATTTTAGGAAACTGATTTGCTTAAA
1 TGATTTTAGGAAACAGATTTGTTTAAA
17729672 ATTATATCTT
Statistics
Matches: 175, Mismatches: 16, Indels: 9
0.88 0.08 0.05
Matches are distributed among these distances:
167 27 0.15
168 75 0.43
169 48 0.27
170 25 0.14
ACGTcount: A:0.33, C:0.12, G:0.15, T:0.40
Consensus pattern (169 bp):
TGATTTTAGGAAACAGATTTGTTTAAATTAAGACTTCAATTTTACAGCATGATAAATTAGACTTT
GTGATGACATGCAATTGAATGCCTTCTTGTCCTTGATTTATATGGTTTTCCAATCACACAAAGGA
ATATAAGTAAATAGTAATGAAACCTTGGTCTTAAAATTT
Found at i:17738479 original size:20 final size:20
Alignment explanation
Indices: 17738441--17738479 Score: 51
Period size: 20 Copynumber: 1.9 Consensus size: 20
17738431 AATATTATAA
** *
17738441 ATAAATAAATTTTATTAATC
1 ATAAATAAATAATAATAATC
17738461 ATAAATAAATAATAATAAT
1 ATAAATAAATAATAATAAT
17738480 TAAGTAAGAC
Statistics
Matches: 16, Mismatches: 3, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
20 16 1.00
ACGTcount: A:0.59, C:0.03, G:0.00, T:0.38
Consensus pattern (20 bp):
ATAAATAAATAATAATAATC
Found at i:17738481 original size:24 final size:24
Alignment explanation
Indices: 17738437--17738482 Score: 58
Period size: 24 Copynumber: 1.9 Consensus size: 24
17738427 CGTTAATATT
* *
17738437 ATAAATAAATAAATTTTATTAATC
1 ATAAATAAATAAATATAATTAATC
17738461 ATAAATAAAT-AATAATAATTAA
1 ATAAATAAATAAAT-ATAATTAA
17738483 GTAAGACTAG
Statistics
Matches: 19, Mismatches: 2, Indels: 2
0.83 0.09 0.09
Matches are distributed among these distances:
23 3 0.16
24 16 0.84
ACGTcount: A:0.61, C:0.02, G:0.00, T:0.37
Consensus pattern (24 bp):
ATAAATAAATAAATATAATTAATC
Found at i:17740387 original size:16 final size:16
Alignment explanation
Indices: 17740366--17740397 Score: 64
Period size: 16 Copynumber: 2.0 Consensus size: 16
17740356 GAACTATGTA
17740366 GAGATTTTATGAGCTC
1 GAGATTTTATGAGCTC
17740382 GAGATTTTATGAGCTC
1 GAGATTTTATGAGCTC
17740398 CTTAAACTTG
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 16 1.00
ACGTcount: A:0.25, C:0.12, G:0.25, T:0.38
Consensus pattern (16 bp):
GAGATTTTATGAGCTC
Found at i:17740617 original size:27 final size:24
Alignment explanation
Indices: 17740556--17740603 Score: 96
Period size: 24 Copynumber: 2.0 Consensus size: 24
17740546 AATAAGATTG
17740556 AGACATTATTATAAAATGGGCCCT
1 AGACATTATTATAAAATGGGCCCT
17740580 AGACATTATTATAAAATGGGCCCT
1 AGACATTATTATAAAATGGGCCCT
17740604 GGCCCTATTT
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
24 24 1.00
ACGTcount: A:0.38, C:0.17, G:0.17, T:0.29
Consensus pattern (24 bp):
AGACATTATTATAAAATGGGCCCT
Found at i:17740621 original size:7 final size:7
Alignment explanation
Indices: 17740609--17740636 Score: 56
Period size: 7 Copynumber: 4.0 Consensus size: 7
17740599 GCCCTGGCCC
17740609 TATTTAT
1 TATTTAT
17740616 TATTTAT
1 TATTTAT
17740623 TATTTAT
1 TATTTAT
17740630 TATTTAT
1 TATTTAT
17740637 GTCTTATTAA
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 21 1.00
ACGTcount: A:0.29, C:0.00, G:0.00, T:0.71
Consensus pattern (7 bp):
TATTTAT
Found at i:17749362 original size:70 final size:69
Alignment explanation
Indices: 17749288--17749478 Score: 172
Period size: 67 Copynumber: 2.8 Consensus size: 69
17749278 TTACAATGAA
* * *
17749288 AAGAACCCTTGTAACTTCAACATGGTATGAGGAGGGCCCATTTCAAACTTTGCACCATCAACATG
1 AAGAACCTTTGCAACTTCAACATGG-ATGAGGAGGGCCCATTTCAAACTTTGCACCACCAACATG
17749353 GCAAG
65 GCAAG
** * * * **
17749358 AAGAATTTTTGCATCCTT-AACAT-GAT-AAGAGGACTTATTTCAAACTTTGCACCACCAACATG
1 AAGAACCTTTGCA-ACTTCAACATGGATGAGGAGGGCCCATTTCAAACTTTGCACCACCAACATG
*
17749420 GCGAG
65 GCAAG
* * * * * **
17749425 AAGAGCCTTTACAACTTCAACATGACAAGAGGAAGGCCCATTTTGAACTTTGCA
1 AAGAACCTTTGCAACTTCAACATG-GATGAGGAGGGCCCATTTCAAACTTTGCA
17749479 AATTTAATTT
Statistics
Matches: 91, Mismatches: 25, Indels: 10
0.72 0.20 0.08
Matches are distributed among these distances:
66 3 0.03
67 49 0.54
68 2 0.02
69 2 0.02
70 32 0.35
71 3 0.03
ACGTcount: A:0.34, C:0.23, G:0.18, T:0.25
Consensus pattern (69 bp):
AAGAACCTTTGCAACTTCAACATGGATGAGGAGGGCCCATTTCAAACTTTGCACCACCAACATGG
CAAG
Found at i:17749447 original size:67 final size:67
Alignment explanation
Indices: 17749327--17749457 Score: 174
Period size: 67 Copynumber: 2.0 Consensus size: 67
17749317 AGGAGGGCCC
* ** * * *
17749327 ATTTCAAACTTTGCACCATCAACATGGCAAGAAGAATTTTTGCATCCTTAACATGATAAGAGGAC
1 ATTTCAAACTTTGCACCACCAACATGGCAAGAAGAACCTTTACATACTTAACATGACAAGAGGAC
17749392 TT
66 TT
* *
17749394 ATTTCAAACTTTGCACCACCAACATGGCGAGAAGAGCCTTTACA-ACTTCAACATGACAAGAGGA
1 ATTTCAAACTTTGCACCACCAACATGGCAAGAAGAACCTTTACATACTT-AACATGACAAGAGGA
17749458 AGGCCCATTT
Statistics
Matches: 55, Mismatches: 8, Indels: 2
0.85 0.12 0.03
Matches are distributed among these distances:
66 3 0.05
67 52 0.95
ACGTcount: A:0.37, C:0.22, G:0.16, T:0.25
Consensus pattern (67 bp):
ATTTCAAACTTTGCACCACCAACATGGCAAGAAGAACCTTTACATACTTAACATGACAAGAGGAC
TT
Found at i:17766557 original size:41 final size:41
Alignment explanation
Indices: 17766500--17766706 Score: 297
Period size: 41 Copynumber: 5.0 Consensus size: 41
17766490 TATCTTATGC
* *
17766500 GATCTGAATCAGGCTATAAGCCTAGCAGGCTAGGTGCCAGT
1 GATCTGAATCAGGCTATAAGCCTAGCAGGCTAAGTGCCGGT
* **
17766541 GATCTGAATCAGGCTATAAGCCTAGCAGCCTAAGTGCTAGT
1 GATCTGAATCAGGCTATAAGCCTAGCAGGCTAAGTGCCGGT
* *
17766582 GATCTGAATCAGGTTATAAACCTAGCAGGCTAAGTGCCGGT
1 GATCTGAATCAGGCTATAAGCCTAGCAGGCTAAGTGCCGGT
* * * * *
17766623 GATCTAAATCAGGTTATAAACCTTGTAGGCTAAGTGCCGGT
1 GATCTGAATCAGGCTATAAGCCTAGCAGGCTAAGTGCCGGT
*
17766664 GATCTGAATTAGGCTATAAGCCTAGCAGGCTAAGTGCCGGT
1 GATCTGAATCAGGCTATAAGCCTAGCAGGCTAAGTGCCGGT
17766705 GA
1 GA
17766707 ATTTGTTAAA
Statistics
Matches: 149, Mismatches: 17, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
41 149 1.00
ACGTcount: A:0.29, C:0.20, G:0.27, T:0.25
Consensus pattern (41 bp):
GATCTGAATCAGGCTATAAGCCTAGCAGGCTAAGTGCCGGT
Found at i:17768857 original size:15 final size:15
Alignment explanation
Indices: 17768837--17768866 Score: 51
Period size: 15 Copynumber: 2.0 Consensus size: 15
17768827 TCCGAAGTCC
17768837 TTTTTATTTAGGTTT
1 TTTTTATTTAGGTTT
*
17768852 TTTTTATTTATGTTT
1 TTTTTATTTAGGTTT
17768867 CCTTATTTAT
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
15 14 1.00
ACGTcount: A:0.13, C:0.00, G:0.10, T:0.77
Consensus pattern (15 bp):
TTTTTATTTAGGTTT
Found at i:17770692 original size:13 final size:13
Alignment explanation
Indices: 17770676--17770705 Score: 51
Period size: 13 Copynumber: 2.3 Consensus size: 13
17770666 AGAAGAAGGT
17770676 AATCCCTTTAGGC
1 AATCCCTTTAGGC
*
17770689 AATCCTTTTAGGC
1 AATCCCTTTAGGC
17770702 AATC
1 AATC
17770706 ACAAGAAATT
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
13 16 1.00
ACGTcount: A:0.27, C:0.27, G:0.13, T:0.33
Consensus pattern (13 bp):
AATCCCTTTAGGC
Found at i:17771661 original size:12 final size:12
Alignment explanation
Indices: 17771644--17771669 Score: 52
Period size: 12 Copynumber: 2.2 Consensus size: 12
17771634 CCTTACACGT
17771644 CCGTGTGCTAGG
1 CCGTGTGCTAGG
17771656 CCGTGTGCTAGG
1 CCGTGTGCTAGG
17771668 CC
1 CC
17771670 ATATAATAGC
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:0.08, C:0.31, G:0.38, T:0.23
Consensus pattern (12 bp):
CCGTGTGCTAGG
Found at i:17772655 original size:30 final size:29
Alignment explanation
Indices: 17772619--17772836 Score: 120
Period size: 30 Copynumber: 7.3 Consensus size: 29
17772609 GGTTGTCACC
* *
17772619 ATCCCTTTTCATAGTTCGATAGCTGAAGCT
1 ATCCCTTTTCATAATTCAATAGCTGAA-CT
* * * *
17772649 ATCCCTTTTCATAATGCAAT-GATCGTCACC
1 ATCCCTTTTCATAATTCAATAGCT-G-AACT
* *
17772679 ATCCCTTTTCATAATTCGATAGCCGAAGCT
1 ATCCCTTTTCATAATTCAATAGCTGAA-CT
* * * *
17772709 ATCCCTTTTCATATTTCAAT-GGTCGTCACC
1 ATCCCTTTTCATAATTCAATAGCT-G-AACT
** * * * *
17772739 ATCCCTTTTCATTGTT-AATGGTTGTCACC
1 ATCCCTTTTCATAATTCAATAGCTG-AACT
** *
17772768 ATCCCTTTTCATTGTTCAATAGGC-AAATCT
1 ATCCCTTTTCATAATTCAATA-GCTGAA-CT
*
17772798 ATCCCTTTTCATAATTCGATAGCTGAAGCT
1 ATCCCTTTTCATAATTCAATAGCTGAA-CT
17772828 ATCCCTTTT
1 ATCCCTTTT
17772837 TATTGGTCGA
Statistics
Matches: 146, Mismatches: 31, Indels: 22
0.73 0.16 0.11
Matches are distributed among these distances:
29 32 0.22
30 110 0.75
31 4 0.03
ACGTcount: A:0.23, C:0.26, G:0.12, T:0.39
Consensus pattern (29 bp):
ATCCCTTTTCATAATTCAATAGCTGAACT
Found at i:17772680 original size:60 final size:60
Alignment explanation
Indices: 17772613--17772750 Score: 231
Period size: 60 Copynumber: 2.3 Consensus size: 60
17772603 CACAATGGTT
* *
17772613 GTCACCATCCCTTTTCATAGTTCGATAGCTGAAGCTATCCCTTTTCATAATGCAATGATC
1 GTCACCATCCCTTTTCATAATTCGATAGCCGAAGCTATCCCTTTTCATAATGCAATGATC
* * *
17772673 GTCACCATCCCTTTTCATAATTCGATAGCCGAAGCTATCCCTTTTCATATTTCAATGGTC
1 GTCACCATCCCTTTTCATAATTCGATAGCCGAAGCTATCCCTTTTCATAATGCAATGATC
17772733 GTCACCATCCCTTTTCAT
1 GTCACCATCCCTTTTCAT
17772751 TGTTAATGGT
Statistics
Matches: 73, Mismatches: 5, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
60 73 1.00
ACGTcount: A:0.23, C:0.29, G:0.12, T:0.36
Consensus pattern (60 bp):
GTCACCATCCCTTTTCATAATTCGATAGCCGAAGCTATCCCTTTTCATAATGCAATGATC
Found at i:17772767 original size:29 final size:30
Alignment explanation
Indices: 17772605--17772787 Score: 133
Period size: 30 Copynumber: 6.1 Consensus size: 30
17772595 AGTGGAGTCA
* *
17772605 CAATGGTTGTCACCATCCCTTTTCATAGTT
1 CAATGGTCGTCACCATCCCTTTTCATTGTT
* * * * ** *
17772635 CGATAG-C-TGAAGCTATCCCTTTTCATAATG
1 CAATGGTCGT-CA-CCATCCCTTTTCATTGTT
* **
17772665 CAATGATCGTCACCATCCCTTTTCATAATT
1 CAATGGTCGTCACCATCCCTTTTCATTGTT
* * * * *
17772695 CGATAGCCG-AAGCTATCCCTTTTCATAT-TT
1 CAATGGTCGTCA-CCATCCCTTTTCAT-TGTT
17772725 CAATGGTCGTCACCATCCCTTTTCATTGTT
1 CAATGGTCGTCACCATCCCTTTTCATTGTT
*
17772755 -AATGGTTGTCACCATCCCTTTTCATTGTT
1 CAATGGTCGTCACCATCCCTTTTCATTGTT
17772784 CAAT
1 CAAT
17772788 AGGCAAATCT
Statistics
Matches: 118, Mismatches: 26, Indels: 18
0.73 0.16 0.11
Matches are distributed among these distances:
28 1 0.01
29 31 0.26
30 82 0.69
31 3 0.03
32 1 0.01
ACGTcount: A:0.22, C:0.27, G:0.13, T:0.38
Consensus pattern (30 bp):
CAATGGTCGTCACCATCCCTTTTCATTGTT
Found at i:17772832 original size:89 final size:88
Alignment explanation
Indices: 17772619--17772841 Score: 243
Period size: 89 Copynumber: 2.5 Consensus size: 88
17772609 GGTTGTCACC
*
17772619 ATCCCTTTTCATAGTTCGATAGCTGAAGCTATCCCTTTTCATAATGCAATGATCGTCACCATCCC
1 ATCCCTTTTCATAATTCGATAGCTGAAGCTATCCCTTTTCAT--TGCAATGATCGTCACCATCCC
* *
17772684 TTTTCATAATTCGATAGCCGAAGCT
64 TTTTCATAATTCAATAGCCAAAGCT
* * * * * * * *
17772709 ATCCCTTTTCATATTTCAAT-GGTCGTCA-CCATCCCTTTTCATTGTTAATGGTTGTCACCATCC
1 ATCCCTTTTCATAATTCGATAGCT-G-AAGCTATCCCTTTTCATTG-CAATGATCGTCACCATCC
** * *
17772772 CTTTTCATTGTTCAATAGGCAAATCT
63 CTTTTCATAATTCAATAGCCAAAGCT
*
17772798 ATCCCTTTTCATAATTCGATAGCTGAAGCTATCCCTTTTTATTG
1 ATCCCTTTTCATAATTCGATAGCTGAAGCTATCCCTTTTCATTG
17772842 GTCGATGATT
Statistics
Matches: 108, Mismatches: 20, Indels: 11
0.78 0.14 0.08
Matches are distributed among these distances:
88 3 0.03
89 70 0.65
90 34 0.31
91 1 0.01
ACGTcount: A:0.23, C:0.26, G:0.12, T:0.39
Consensus pattern (88 bp):
ATCCCTTTTCATAATTCGATAGCTGAAGCTATCCCTTTTCATTGCAATGATCGTCACCATCCCTT
TTCATAATTCAATAGCCAAAGCT
Found at i:17781375 original size:40 final size:40
Alignment explanation
Indices: 17781331--17781554 Score: 237
Period size: 40 Copynumber: 5.6 Consensus size: 40
17781321 GCTCCTCGTT
*
17781331 CAAATGCCTTCGGGACATAGCCCGGTTATAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGTTATAGTAACTCGCA
*
17781371 CAAATGCCTTCGGGACTTAACCCGGATT-TAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGG-TTATAGTAACTCGCA
*
17781411 CAAATGCCTTCGGGACTTAACCCGGATT-TAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGG-TTATAGTAACTCGCA
* * * *
17781451 CCAATGCCTTAGGG-CTTAGCCCGG-AATTAGTATCTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGTTA-TAGTAACTCGCA
* * * * *
17781490 CAAATACCTTC-GGATCTTAGTCCC-GATATGGTCACTTAGCA
1 CAAATGCCTTCGGGA-CTTAG-CCCGGTTATAGTAAC-TCGCA
17781531 CAAA-GCCTTCGGGACTTAGCCCGG
1 CAAATGCCTTCGGGACTTAGCCCGG
17781555 ACATCATTCA
Statistics
Matches: 158, Mismatches: 16, Indels: 20
0.81 0.08 0.10
Matches are distributed among these distances:
38 2 0.01
39 31 0.20
40 108 0.68
41 17 0.11
ACGTcount: A:0.26, C:0.28, G:0.21, T:0.25
Consensus pattern (40 bp):
CAAATGCCTTCGGGACTTAGCCCGGTTATAGTAACTCGCA
Done.