Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Dt_chr7
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: 47983841
ACGTcount: A:0.33, C:0.16, G:0.16, T:0.33
Warning! 869652 characters in sequence are not A, C, G, or T
File 137 of 153
Found at i:43045545 original size:46 final size:46
Alignment explanation
Indices: 43045495--43045590 Score: 113
Period size: 46 Copynumber: 2.1 Consensus size: 46
43045485 TATCCACAAT
* * *
43045495 TCTGT-CTGGCAACTTGTCTACAATTATGGTGGCTAGACCATATACA
1 TCTGTACTGGCAACTTGGCTACAA-CATAGTGGCTAGACCATATACA
* * * *
43045541 TCTGTACTGGCAGCTTGGCTGCAACATAGTGGCTTGACCATATATA
1 TCTGTACTGGCAACTTGGCTACAACATAGTGGCTAGACCATATACA
43045587 TCTG
1 TCTG
43045591 ATTTGGAAGT
Statistics
Matches: 42, Mismatches: 7, Indels: 2
0.82 0.14 0.04
Matches are distributed among these distances:
46 27 0.64
47 15 0.36
ACGTcount: A:0.24, C:0.22, G:0.22, T:0.32
Consensus pattern (46 bp):
TCTGTACTGGCAACTTGGCTACAACATAGTGGCTAGACCATATACA
Found at i:43054292 original size:12 final size:13
Alignment explanation
Indices: 43054275--43054303 Score: 51
Period size: 13 Copynumber: 2.3 Consensus size: 13
43054265 AGAATTTTCC
43054275 TTTCAG-TTTAGT
1 TTTCAGTTTTAGT
43054287 TTTCAGTTTTAGT
1 TTTCAGTTTTAGT
43054300 TTTC
1 TTTC
43054304 TTTTGTACTT
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
12 6 0.38
13 10 0.62
ACGTcount: A:0.14, C:0.10, G:0.14, T:0.62
Consensus pattern (13 bp):
TTTCAGTTTTAGT
Found at i:43059103 original size:23 final size:22
Alignment explanation
Indices: 43059056--43059102 Score: 69
Period size: 22 Copynumber: 2.1 Consensus size: 22
43059046 TTTGACCAAC
43059056 AAATTAAAAAAAATAAAAATAA
1 AAATTAAAAAAAATAAAAATAA
*
43059078 AAATTAGAAAAAAAT-CAAATAA
1 AAATTA-AAAAAAATAAAAATAA
43059100 AAA
1 AAA
43059103 AAAACTTTGT
Statistics
Matches: 23, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
22 15 0.65
23 8 0.35
ACGTcount: A:0.79, C:0.02, G:0.02, T:0.17
Consensus pattern (22 bp):
AAATTAAAAAAAATAAAAATAA
Found at i:43059917 original size:40 final size:40
Alignment explanation
Indices: 43059873--43059970 Score: 196
Period size: 40 Copynumber: 2.5 Consensus size: 40
43059863 AGGGGAGCAA
43059873 AATTAGCTCTTCAAGAGCTTTTACAATCTAATTCAATATT
1 AATTAGCTCTTCAAGAGCTTTTACAATCTAATTCAATATT
43059913 AATTAGCTCTTCAAGAGCTTTTACAATCTAATTCAATATT
1 AATTAGCTCTTCAAGAGCTTTTACAATCTAATTCAATATT
43059953 AATTAGCTCTTCAAGAGC
1 AATTAGCTCTTCAAGAGC
43059971 ATGTAATAAA
Statistics
Matches: 58, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
40 58 1.00
ACGTcount: A:0.35, C:0.18, G:0.09, T:0.38
Consensus pattern (40 bp):
AATTAGCTCTTCAAGAGCTTTTACAATCTAATTCAATATT
Found at i:43062033 original size:30 final size:30
Alignment explanation
Indices: 43061999--43062057 Score: 82
Period size: 30 Copynumber: 2.0 Consensus size: 30
43061989 TACGAGCTTT
43061999 GGGGAAAAAGTATAAATATGCAAAAGTTTA
1 GGGGAAAAAGTATAAATATGCAAAAGTTTA
* * * *
43062029 GGGGAAAAATTATAATTTTGCCAAAGTTT
1 GGGGAAAAAGTATAAATATGCAAAAGTTT
43062058 GAGTCAAGGA
Statistics
Matches: 25, Mismatches: 4, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
30 25 1.00
ACGTcount: A:0.44, C:0.05, G:0.22, T:0.29
Consensus pattern (30 bp):
GGGGAAAAAGTATAAATATGCAAAAGTTTA
Found at i:43062281 original size:17 final size:18
Alignment explanation
Indices: 43062242--43062282 Score: 59
Period size: 18 Copynumber: 2.3 Consensus size: 18
43062232 TTTTATAAAT
43062242 TGTGAATTATATTTGATA
1 TGTGAATTATATTTGATA
43062260 TGTGAATTA-ATATTGA-A
1 TGTGAATTATAT-TTGATA
43062277 TGTGAA
1 TGTGAA
43062283 AGGAAAATTG
Statistics
Matches: 22, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
17 9 0.41
18 13 0.59
ACGTcount: A:0.37, C:0.00, G:0.20, T:0.44
Consensus pattern (18 bp):
TGTGAATTATATTTGATA
Found at i:43062531 original size:23 final size:23
Alignment explanation
Indices: 43062505--43062603 Score: 162
Period size: 23 Copynumber: 4.3 Consensus size: 23
43062495 AGTGTTATTG
*
43062505 ATCAGTGGTAGCTTCGGCTACAT
1 ATCAGTGGTAGCTACGGCTACAT
*
43062528 ATCAGTGGTAGCTTCGGCTACAT
1 ATCAGTGGTAGCTACGGCTACAT
43062551 ATCAGTGGTAGCTACGGCTACAT
1 ATCAGTGGTAGCTACGGCTACAT
* *
43062574 CTCAGTGGTAGCTACGGCTACGT
1 ATCAGTGGTAGCTACGGCTACAT
43062597 ATCAGTG
1 ATCAGTG
43062604 TGGCACTTAT
Statistics
Matches: 72, Mismatches: 4, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
23 72 1.00
ACGTcount: A:0.22, C:0.22, G:0.27, T:0.28
Consensus pattern (23 bp):
ATCAGTGGTAGCTACGGCTACAT
Found at i:43063011 original size:23 final size:23
Alignment explanation
Indices: 43062964--43063082 Score: 154
Period size: 23 Copynumber: 5.3 Consensus size: 23
43062954 AGTGTTATTG
*
43062964 ATCAGTGGTAGCT--TGC-ACAT
1 ATCAGTGGTAGCTACGGCTACAT
*
43062984 TTCAGTGGTAGCTACGGCTACAT
1 ATCAGTGGTAGCTACGGCTACAT
* *
43063007 ATCAGTAGTAGCTTCGGCTACAT
1 ATCAGTGGTAGCTACGGCTACAT
*
43063030 TTCAGTGGTAGCTACGGCTACAT
1 ATCAGTGGTAGCTACGGCTACAT
* *
43063053 CTCAGTGGTAGCTACGGCTACGT
1 ATCAGTGGTAGCTACGGCTACAT
43063076 ATCAGTG
1 ATCAGTG
43063083 TGGCACTTAT
Statistics
Matches: 85, Mismatches: 11, Indels: 3
0.86 0.11 0.03
Matches are distributed among these distances:
20 12 0.14
22 2 0.02
23 71 0.84
ACGTcount: A:0.23, C:0.22, G:0.26, T:0.29
Consensus pattern (23 bp):
ATCAGTGGTAGCTACGGCTACAT
Found at i:43063038 original size:46 final size:46
Alignment explanation
Indices: 43062964--43063082 Score: 172
Period size: 46 Copynumber: 2.7 Consensus size: 46
43062954 AGTGTTATTG
43062964 ATCAGTGGTAGCTT--GC-ACATTTCAGTGGTAGCTACGGCTACAT
1 ATCAGTGGTAGCTTCGGCTACATTTCAGTGGTAGCTACGGCTACAT
*
43063007 ATCAGTAGTAGCTTCGGCTACATTTCAGTGGTAGCTACGGCTACAT
1 ATCAGTGGTAGCTTCGGCTACATTTCAGTGGTAGCTACGGCTACAT
* * * *
43063053 CTCAGTGGTAGCTACGGCTACGTATCAGTG
1 ATCAGTGGTAGCTTCGGCTACATTTCAGTG
43063083 TGGCACTTAT
Statistics
Matches: 67, Mismatches: 6, Indels: 3
0.88 0.08 0.04
Matches are distributed among these distances:
43 13 0.19
45 2 0.03
46 52 0.78
ACGTcount: A:0.23, C:0.22, G:0.26, T:0.29
Consensus pattern (46 bp):
ATCAGTGGTAGCTTCGGCTACATTTCAGTGGTAGCTACGGCTACAT
Found at i:43064298 original size:23 final size:23
Alignment explanation
Indices: 43064251--43064369 Score: 154
Period size: 23 Copynumber: 5.3 Consensus size: 23
43064241 AGTGTTATTG
*
43064251 ATCAGTGGTAGCT--TGC-ACAT
1 ATCAGTGGTAGCTACGGCTACAT
*
43064271 TTCAGTGGTAGCTACGGCTACAT
1 ATCAGTGGTAGCTACGGCTACAT
* *
43064294 ATCAGTAGTAGCTTCGGCTACAT
1 ATCAGTGGTAGCTACGGCTACAT
*
43064317 TTCAGTGGTAGCTACGGCTACAT
1 ATCAGTGGTAGCTACGGCTACAT
* *
43064340 CTCAGTGGTAGCTACGGCTACGT
1 ATCAGTGGTAGCTACGGCTACAT
43064363 ATCAGTG
1 ATCAGTG
43064370 TGGCACTTAT
Statistics
Matches: 85, Mismatches: 11, Indels: 3
0.86 0.11 0.03
Matches are distributed among these distances:
20 12 0.14
22 2 0.02
23 71 0.84
ACGTcount: A:0.23, C:0.22, G:0.26, T:0.29
Consensus pattern (23 bp):
ATCAGTGGTAGCTACGGCTACAT
Found at i:43064325 original size:46 final size:46
Alignment explanation
Indices: 43064251--43064369 Score: 172
Period size: 46 Copynumber: 2.7 Consensus size: 46
43064241 AGTGTTATTG
43064251 ATCAGTGGTAGCTT--GC-ACATTTCAGTGGTAGCTACGGCTACAT
1 ATCAGTGGTAGCTTCGGCTACATTTCAGTGGTAGCTACGGCTACAT
*
43064294 ATCAGTAGTAGCTTCGGCTACATTTCAGTGGTAGCTACGGCTACAT
1 ATCAGTGGTAGCTTCGGCTACATTTCAGTGGTAGCTACGGCTACAT
* * * *
43064340 CTCAGTGGTAGCTACGGCTACGTATCAGTG
1 ATCAGTGGTAGCTTCGGCTACATTTCAGTG
43064370 TGGCACTTAT
Statistics
Matches: 67, Mismatches: 6, Indels: 3
0.88 0.08 0.04
Matches are distributed among these distances:
43 13 0.19
45 2 0.03
46 52 0.78
ACGTcount: A:0.23, C:0.22, G:0.26, T:0.29
Consensus pattern (46 bp):
ATCAGTGGTAGCTTCGGCTACATTTCAGTGGTAGCTACGGCTACAT
Found at i:43065171 original size:235 final size:235
Alignment explanation
Indices: 43064760--43065225 Score: 932
Period size: 235 Copynumber: 2.0 Consensus size: 235
43064750 CTCATACGAG
43064760 TTAGTATAGATATGTACATGTGTCTTATAAGCTTTGAAATGATAAGACTTATGAATTGTGAATTA
1 TTAGTATAGATATGTACATGTGTCTTATAAGCTTTGAAATGATAAGACTTATGAATTGTGAATTA
43064825 ATCTGTGTAAAAGTATATGGGATAGATTAGTGAATCTTTACAAGATATTGAATATTTAATATATT
66 ATCTGTGTAAAAGTATATGGGATAGATTAGTGAATCTTTACAAGATATTGAATATTTAATATATT
43064890 ACAATGGTTTAATAGGAAAAATATGATGATACGAGAATATGAAATGATACAGATCAATTTAGGTA
131 ACAATGGTTTAATAGGAAAAATATGATGATACGAGAATATGAAATGATACAGATCAATTTAGGTA
43064955 CTCACGAGAAGCAAGTAGTAATTGATAAATTCATTTCGAA
196 CTCACGAGAAGCAAGTAGTAATTGATAAATTCATTTCGAA
43064995 TTAGTATAGATATGTACATGTGTCTTATAAGCTTTGAAATGATAAGACTTATGAATTGTGAATTA
1 TTAGTATAGATATGTACATGTGTCTTATAAGCTTTGAAATGATAAGACTTATGAATTGTGAATTA
43065060 ATCTGTGTAAAAGTATATGGGATAGATTAGTGAATCTTTACAAGATATTGAATATTTAATATATT
66 ATCTGTGTAAAAGTATATGGGATAGATTAGTGAATCTTTACAAGATATTGAATATTTAATATATT
43065125 ACAATGGTTTAATAGGAAAAATATGATGATACGAGAATATGAAATGATACAGATCAATTTAGGTA
131 ACAATGGTTTAATAGGAAAAATATGATGATACGAGAATATGAAATGATACAGATCAATTTAGGTA
43065190 CTCACGAGAAGCAAGTAGTAATTGATAAATTCATTT
196 CTCACGAGAAGCAAGTAGTAATTGATAAATTCATTT
43065226 GACGAGAAAG
Statistics
Matches: 231, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
235 231 1.00
ACGTcount: A:0.40, C:0.07, G:0.18, T:0.35
Consensus pattern (235 bp):
TTAGTATAGATATGTACATGTGTCTTATAAGCTTTGAAATGATAAGACTTATGAATTGTGAATTA
ATCTGTGTAAAAGTATATGGGATAGATTAGTGAATCTTTACAAGATATTGAATATTTAATATATT
ACAATGGTTTAATAGGAAAAATATGATGATACGAGAATATGAAATGATACAGATCAATTTAGGTA
CTCACGAGAAGCAAGTAGTAATTGATAAATTCATTTCGAA
Found at i:43075214 original size:40 final size:38
Alignment explanation
Indices: 43075152--43075246 Score: 136
Period size: 40 Copynumber: 2.4 Consensus size: 38
43075142 GCGTTTGGAC
* * *
43075152 AAAAAATGCCGCTAAAGATCGAGCATTAGCGGCGCTTT
1 AAAAAACGCCGCTAAAGATCGAGCATTAACAGCGCTTT
43075190 ACATAAAACGCCGCTAAAGATCGAGCATTAACAGCGCTTT
1 A-A-AAAACGCCGCTAAAGATCGAGCATTAACAGCGCTTT
43075230 AAAAAAGCGCCGCTAAA
1 AAAAAA-CGCCGCTAAA
43075247 AACCTAAGCC
Statistics
Matches: 51, Mismatches: 3, Indels: 5
0.86 0.05 0.08
Matches are distributed among these distances:
38 5 0.10
39 12 0.24
40 34 0.67
ACGTcount: A:0.39, C:0.23, G:0.20, T:0.18
Consensus pattern (38 bp):
AAAAAACGCCGCTAAAGATCGAGCATTAACAGCGCTTT
Found at i:43075342 original size:41 final size:41
Alignment explanation
Indices: 43075285--43075557 Score: 384
Period size: 41 Copynumber: 6.7 Consensus size: 41
43075275 CCTTTCAGGG
* * *
43075285 CTTTAGCGTCATTTTTGAGAAAGGGCCGCTAATGCTCAGAT
1 CTTTAGCGGCGTTTTTGAGAAAGCGCCGCTAATGCTCAGAT
* *
43075326 CTTTAGCGGCGTTTTTGAAAAAGCGCCGCTGATGCTCAGAT
1 CTTTAGCGGCGTTTTTGAGAAAGCGCCGCTAATGCTCAGAT
** * * *
43075367 CTTTAAAGGAGTTTTTGAGAAAGCGTCGCTAATACTCAGAT
1 CTTTAGCGGCGTTTTTGAGAAAGCGCCGCTAATGCTCAGAT
* *
43075408 CTTTAGCGGCATTTTTGAGAAAGCGCCGCTAATGCTCAAAT
1 CTTTAGCGGCGTTTTTGAGAAAGCGCCGCTAATGCTCAGAT
* *
43075449 TTTTAGCGGCGTTTTTGAAAAAGCGCCGCTAATGCTCAGAT
1 CTTTAGCGGCGTTTTTGAGAAAGCGCCGCTAATGCTCAGAT
* * *
43075490 ATTTAGTGGCGTTTTTGAGAAAGCGCCGTTAATGCTCAGAT
1 CTTTAGCGGCGTTTTTGAGAAAGCGCCGCTAATGCTCAGAT
*
43075531 CTTTAGCGGCGTTTTTGAAAAAGCGCC
1 CTTTAGCGGCGTTTTTGAGAAAGCGCC
43075558 ACAAAAATAT
Statistics
Matches: 202, Mismatches: 30, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
41 202 1.00
ACGTcount: A:0.25, C:0.19, G:0.25, T:0.31
Consensus pattern (41 bp):
CTTTAGCGGCGTTTTTGAGAAAGCGCCGCTAATGCTCAGAT
Found at i:43075837 original size:14 final size:14
Alignment explanation
Indices: 43075818--43075854 Score: 56
Period size: 14 Copynumber: 2.6 Consensus size: 14
43075808 GGGCTTAATA
*
43075818 TATATGGTTTAGGG
1 TATATGGTTTAAGG
43075832 TATATGGTTTAAGG
1 TATATGGTTTAAGG
*
43075846 TATGTGGTT
1 TATATGGTT
43075855 AATTTAGGAT
Statistics
Matches: 21, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
14 21 1.00
ACGTcount: A:0.22, C:0.00, G:0.32, T:0.46
Consensus pattern (14 bp):
TATATGGTTTAAGG
Found at i:43075931 original size:14 final size:15
Alignment explanation
Indices: 43075903--43075935 Score: 59
Period size: 14 Copynumber: 2.3 Consensus size: 15
43075893 AAGGTTTATA
43075903 GATTATGGAATTAGG
1 GATTATGGAATTAGG
43075918 GATTATGG-ATTAGG
1 GATTATGGAATTAGG
43075932 GATT
1 GATT
43075936 CTGGTTTAAG
Statistics
Matches: 18, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
14 10 0.56
15 8 0.44
ACGTcount: A:0.30, C:0.00, G:0.33, T:0.36
Consensus pattern (15 bp):
GATTATGGAATTAGG
Found at i:43075967 original size:7 final size:7
Alignment explanation
Indices: 43075955--43075986 Score: 55
Period size: 7 Copynumber: 4.6 Consensus size: 7
43075945 GGGTTGTGAT
43075955 TTAGGGG
1 TTAGGGG
43075962 TTAGGGG
1 TTAGGGG
*
43075969 CTAGGGG
1 TTAGGGG
43075976 TTAGGGG
1 TTAGGGG
43075983 TTAG
1 TTAG
43075987 AGATTAAGAG
Statistics
Matches: 23, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
7 23 1.00
ACGTcount: A:0.16, C:0.03, G:0.53, T:0.28
Consensus pattern (7 bp):
TTAGGGG
Found at i:43076122 original size:87 final size:89
Alignment explanation
Indices: 43076031--43076193 Score: 276
Period size: 87 Copynumber: 1.9 Consensus size: 89
43076021 TGATGTTAGA
43076031 TTAGGGTTTAAGGTTTAGATTAATTAGTGTGTTTTAA-TT-TATATTAAATAAGGTTTAGGGGTT
1 TTAGGGTTTAAGGTTTAGATTAATTAGTGTGTTTTAATTTATATATTAAATAAGGTTTAGGGGTT
*
43076094 AGGGGTTAGGGATTCGGGTTAGGT
66 AGGAGTTAGGGATTCGGGTTAGGT
* *
43076118 TTAGGGTTTAAGGTTTAGATTAGTTAGTGTTTTTTAATTTATATATTAAATAAGGTTTAGGGGTT
1 TTAGGGTTTAAGGTTTAGATTAATTAGTGTGTTTTAATTTATATATTAAATAAGGTTTAGGGGTT
*
43076183 AGTAGTTAGGG
66 AGGAGTTAGGG
43076194 GTTAGGGGTT
Statistics
Matches: 70, Mismatches: 4, Indels: 2
0.92 0.05 0.03
Matches are distributed among these distances:
87 35 0.50
88 2 0.03
89 33 0.47
ACGTcount: A:0.26, C:0.01, G:0.29, T:0.44
Consensus pattern (89 bp):
TTAGGGTTTAAGGTTTAGATTAATTAGTGTGTTTTAATTTATATATTAAATAAGGTTTAGGGGTT
AGGAGTTAGGGATTCGGGTTAGGT
Found at i:43076204 original size:14 final size:14
Alignment explanation
Indices: 43076174--43076219 Score: 56
Period size: 14 Copynumber: 3.3 Consensus size: 14
43076164 TAAATAAGGT
*
43076174 TTAGGGGTTAGTAG
1 TTAGGGGTTAGGAG
*
43076188 TTAGGGGTTAGGGG
1 TTAGGGGTTAGGAG
* *
43076202 TTAGAGGTTAAGAG
1 TTAGGGGTTAGGAG
43076216 TTAG
1 TTAG
43076220 TGATTTAGGA
Statistics
Matches: 27, Mismatches: 5, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
14 27 1.00
ACGTcount: A:0.24, C:0.00, G:0.43, T:0.33
Consensus pattern (14 bp):
TTAGGGGTTAGGAG
Found at i:43076218 original size:21 final size:21
Alignment explanation
Indices: 43076174--43076219 Score: 58
Period size: 21 Copynumber: 2.2 Consensus size: 21
43076164 TAAATAAGGT
* *
43076174 TTAGGGGTTAGTAGTTAGGGG
1 TTAGGGGTTAGTAGTTAAGAG
43076195 TTAGGGGTTAG-AGGTTAAGAG
1 TTAGGGGTTAGTA-GTTAAGAG
43076216 TTAG
1 TTAG
43076220 TGATTTAGGA
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
20 1 0.05
21 21 0.95
ACGTcount: A:0.24, C:0.00, G:0.43, T:0.33
Consensus pattern (21 bp):
TTAGGGGTTAGTAGTTAAGAG
Found at i:43076336 original size:7 final size:7
Alignment explanation
Indices: 43076324--43076383 Score: 59
Period size: 7 Copynumber: 8.6 Consensus size: 7
43076314 ATTGTAAAAG
43076324 AGGGGTT
1 AGGGGTT
43076331 AGGGGTT
1 AGGGGTT
*
43076338 AGAGGTT
1 AGGGGTT
*
43076345 AAGGGTT
1 AGGGGTT
*
43076352 AGGCGTT
1 AGGGGTT
*
43076359 AGGCGTT
1 AGGGGTT
*
43076366 AGGAGTT
1 AGGGGTT
43076373 -GGGGTTT
1 AGGGG-TT
43076380 AGGG
1 AGGG
43076384 TTTATGTTTT
Statistics
Matches: 44, Mismatches: 7, Indels: 3
0.81 0.13 0.06
Matches are distributed among these distances:
6 3 0.07
7 38 0.86
8 3 0.07
ACGTcount: A:0.18, C:0.03, G:0.50, T:0.28
Consensus pattern (7 bp):
AGGGGTT
Found at i:43076375 original size:132 final size:132
Alignment explanation
Indices: 43076118--43076377 Score: 301
Period size: 132 Copynumber: 2.0 Consensus size: 132
43076108 CGGGTTAGGT
* * * **
43076118 TTAGGGTTTAAGGTTTAGATTAGTTAGTGTTTTTTAATTTATATATTAAATAAGGTTTAGGGGTT
1 TTAGGGTTTAAGGTTTAGATTAATTAGTATTTTTTAATTTATATATTAAATAAGGTTTAAGAATT
*** * * *
43076183 AGTAGTTAGGGGTTAGGGGTTAGAGGTTAAGAGTTAGTGATTTAGGATTTAAAGATTTGGGGTCG
66 AGTAAAGAGGGGTTAGGGGTTAGAGGTTAAGAGTTAGTGAGTTAGGAGTTAAAGAGTTGGGGTCG
43076248 GG
131 GG
* * * *
43076250 TTAGGGTTTAAGGTTTAGATTAATTATTATTTTTTAATTTATATATTAATTAAGTTCTTAAATAA
1 TTAGGGTTTAAGGTTTAGATTAATTAGTATTTTTTAATTTATATATTAAATAAGGT-TT-AAGAA
* * * *
43076315 TT-GTAAAAGAGGGGTTAGGGGTTAGAGGTTAAGGGTTAG-GCGTTAGGCGTT-AGGAGTTGGGG
64 TTAGT-AAAGAGGGGTTAGGGGTTAGAGGTTAAGAGTTAGTGAGTTAGGAGTTAAAGAGTTGGGG
43076377 T
128 T
43076378 TTAGGGTTTA
Statistics
Matches: 106, Mismatches: 19, Indels: 6
0.81 0.15 0.05
Matches are distributed among these distances:
132 61 0.58
133 12 0.11
134 33 0.31
ACGTcount: A:0.28, C:0.02, G:0.30, T:0.41
Consensus pattern (132 bp):
TTAGGGTTTAAGGTTTAGATTAATTAGTATTTTTTAATTTATATATTAAATAAGGTTTAAGAATT
AGTAAAGAGGGGTTAGGGGTTAGAGGTTAAGAGTTAGTGAGTTAGGAGTTAAAGAGTTGGGGTCG
GG
Found at i:43079228 original size:14 final size:15
Alignment explanation
Indices: 43079198--43079227 Score: 60
Period size: 15 Copynumber: 2.0 Consensus size: 15
43079188 GATAGCCATA
43079198 TGGTCTGAATTTTTT
1 TGGTCTGAATTTTTT
43079213 TGGTCTGAATTTTTT
1 TGGTCTGAATTTTTT
43079228 GTGTCCATGC
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 15 1.00
ACGTcount: A:0.13, C:0.07, G:0.20, T:0.60
Consensus pattern (15 bp):
TGGTCTGAATTTTTT
Found at i:43079703 original size:19 final size:19
Alignment explanation
Indices: 43079667--43079704 Score: 51
Period size: 19 Copynumber: 2.0 Consensus size: 19
43079657 TTTTTATAAG
*
43079667 GGTGTTTTTGTTTTTTGTT
1 GGTGTTTTTGTTTGTTGTT
43079686 GGTGTTTTATG-TTGTTGTT
1 GGTGTTTT-TGTTTGTTGTT
43079705 TCGATGATGT
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
19 15 0.88
20 2 0.12
ACGTcount: A:0.03, C:0.00, G:0.29, T:0.68
Consensus pattern (19 bp):
GGTGTTTTTGTTTGTTGTT
Found at i:43081224 original size:20 final size:23
Alignment explanation
Indices: 43081176--43081225 Score: 61
Period size: 23 Copynumber: 2.3 Consensus size: 23
43081166 AATTTAGAAA
*
43081176 ATAAAACATAATATAATATTTAT
1 ATAAAACATAATATAATATTGAT
43081199 CATAAAA-ATAATATAAT-TTGAT
1 -ATAAAACATAATATAATATTGAT
43081221 -TAAAA
1 ATAAAA
43081226 TAAATTTTTT
Statistics
Matches: 25, Mismatches: 1, Indels: 4
0.83 0.03 0.13
Matches are distributed among these distances:
20 5 0.20
22 4 0.16
23 10 0.40
24 6 0.24
ACGTcount: A:0.58, C:0.04, G:0.02, T:0.36
Consensus pattern (23 bp):
ATAAAACATAATATAATATTGAT
Found at i:43081363 original size:42 final size:42
Alignment explanation
Indices: 43081235--43081456 Score: 225
Period size: 43 Copynumber: 5.2 Consensus size: 42
43081225 ATAAATTTTT
* * * * **
43081235 TAAAGGTTAT-GTTTTTAGCGGCGTTTTTGTGAGAAGCATCGC
1 TAAAGGTCATGGTCTTTAGCGGCGTTTGTG-GAAAAGCGCCGC
* * * * *
43081277 TAAAGGT-TTGATCTATAGCGGCGTTTGTGACAAAAAGCGTCGC
1 TAAAGGTCATGGTCTTTAGCGGCGTTTGTG--GAAAAGCGCCGC
*
43081320 TAAAGGTCATGGGCTTTAGCGGCGTTATG-GGAAAAGCGCCGC
1 TAAAGGTCATGGTCTTTAGCGGCGTT-TGTGGAAAAGCGCCGC
* * *
43081362 TAAAGGTCTTGGTCTTTAGCGGCGTTTGTGGTGAAAGCGCCAC
1 TAAAGGTCATGGTCTTTAGCGGCGTTTGTGG-AAAAGCGCCGC
*
43081405 TAAAGGTCATGTTCTTTAGCGGCGTTTGTGAGAAAAGCGCCGC
1 TAAAGGTCATGGTCTTTAGCGGCGTTTGTG-GAAAAGCGCCGC
43081448 TAAAGGTCA
1 TAAAGGTCA
43081457 AGTGCCGCAA
Statistics
Matches: 150, Mismatches: 23, Indels: 13
0.81 0.12 0.07
Matches are distributed among these distances:
41 3 0.02
42 58 0.39
43 71 0.47
44 16 0.11
45 2 0.01
ACGTcount: A:0.24, C:0.17, G:0.31, T:0.29
Consensus pattern (42 bp):
TAAAGGTCATGGTCTTTAGCGGCGTTTGTGGAAAAGCGCCGC
Found at i:43081408 original size:85 final size:87
Alignment explanation
Indices: 43081248--43081455 Score: 253
Period size: 86 Copynumber: 2.4 Consensus size: 87
43081238 AGGTTATGTT
* * * **
43081248 TTTAGCGGCGTTTTTGTGAGAAGCATCGCTAAAGGT-TTGATCTATAGCGGCGTTTGTGACAAAA
1 TTTAGCGGCGTTTGTGAGAAAAGCGCCGCTAAAGGTCTTGATCTATAGCGGCGTTTGTGACAAAA
* *
43081312 AGCGTCGCTAAAGGTCATGGGC
66 AGCGCCACTAAAGGTCATGGGC
* * ***
43081334 TTTAGCGGCGTTATG-G-GAAAAGCGCCGCTAAAGGTCTTGGTCTTTAGCGGCGTTTGTG-GTGA
1 TTTAGCGGCGTT-TGTGAGAAAAGCGCCGCTAAAGGTCTTGATCTATAGCGGCGTTTGTGACAAA
**
43081396 AAGCGCCACTAAAGGTCATGTTC
65 AAGCGCCACTAAAGGTCATGGGC
43081419 TTTAGCGGCGTTTGTGAGAAAAGCGCCGCTAAAGGTC
1 TTTAGCGGCGTTTGTGAGAAAAGCGCCGCTAAAGGTC
43081456 AAGTGCCGCA
Statistics
Matches: 105, Mismatches: 13, Indels: 8
0.83 0.10 0.06
Matches are distributed among these distances:
84 2 0.02
85 49 0.47
86 53 0.50
87 1 0.01
ACGTcount: A:0.23, C:0.18, G:0.31, T:0.28
Consensus pattern (87 bp):
TTTAGCGGCGTTTGTGAGAAAAGCGCCGCTAAAGGTCTTGATCTATAGCGGCGTTTGTGACAAAA
AGCGCCACTAAAGGTCATGGGC
Found at i:43082374 original size:3 final size:3
Alignment explanation
Indices: 43082366--43082399 Score: 68
Period size: 3 Copynumber: 11.3 Consensus size: 3
43082356 TTAACTAAAA
43082366 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT T
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT T
43082400 TATGTACATT
Statistics
Matches: 31, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 31 1.00
ACGTcount: A:0.32, C:0.00, G:0.00, T:0.68
Consensus pattern (3 bp):
TAT
Found at i:43092998 original size:26 final size:27
Alignment explanation
Indices: 43092961--43093011 Score: 63
Period size: 26 Copynumber: 1.9 Consensus size: 27
43092951 TTTATTGTTC
43092961 GCCACAAGGGCGATT-CTTA-AGAGTGA
1 GCCACAAGGGCG-TTCCTTATAGAGTGA
43092987 GCCACGAA-GGCGTTCCTTATAGAGT
1 GCCAC-AAGGGCGTTCCTTATAGAGT
43093012 TTTTCGCAAA
Statistics
Matches: 22, Mismatches: 0, Indels: 5
0.81 0.00 0.19
Matches are distributed among these distances:
25 2 0.09
26 13 0.59
27 7 0.32
ACGTcount: A:0.27, C:0.22, G:0.29, T:0.22
Consensus pattern (27 bp):
GCCACAAGGGCGTTCCTTATAGAGTGA
Found at i:43094694 original size:19 final size:19
Alignment explanation
Indices: 43094656--43094695 Score: 55
Period size: 19 Copynumber: 2.1 Consensus size: 19
43094646 TATGATTTAA
*
43094656 ATGGTTATAAATATTCTAC
1 ATGGTTATAAATATTATAC
43094675 ATGGATTATAAATA-TATAC
1 ATGG-TTATAAATATTATAC
43094694 AT
1 AT
43094696 ATCAAAGGTG
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
19 10 0.53
20 9 0.47
ACGTcount: A:0.42, C:0.07, G:0.10, T:0.40
Consensus pattern (19 bp):
ATGGTTATAAATATTATAC
Found at i:43097387 original size:50 final size:49
Alignment explanation
Indices: 43097300--43097476 Score: 171
Period size: 50 Copynumber: 3.6 Consensus size: 49
43097290 GGTAAAGAGA
* * **
43097300 TCCCATGTAAGACCATGTCTGGGACATGGCAATGGCACCAAGATGAGAGG
1 TCCCACGTAAGACCATGTCTGGGACATGAC-ATGGCACCAAGATGAGAAC
* *
43097350 TCCCCCGTAAGACCATGTCTGGGACATGACATGGGCACCAATATGAGAAC
1 TCCCACGTAAGACCATGTCTGGGACATGACAT-GGCACCAAGATGAGAAC
* * * * **
43097400 TCCCATGTAAGACCATATCTAGGATATGACATTGGCAGTACA-A-GA-AAC
1 TCCCACGTAAGACCATGTCTGGGACATGACA-TGGCACCA-AGATGAGAAC
*
43097448 ATCCCATGTAAGACCATGTCTGGGACATG
1 -TCCCACGTAAGACCATGTCTGGGACATG
43097477 TGTTTGACAT
Statistics
Matches: 107, Mismatches: 16, Indels: 9
0.81 0.12 0.07
Matches are distributed among these distances:
48 3 0.03
49 29 0.27
50 73 0.68
51 2 0.02
ACGTcount: A:0.32, C:0.24, G:0.24, T:0.20
Consensus pattern (49 bp):
TCCCACGTAAGACCATGTCTGGGACATGACATGGCACCAAGATGAGAAC
Found at i:43104928 original size:50 final size:50
Alignment explanation
Indices: 43104820--43105011 Score: 213
Period size: 50 Copynumber: 3.7 Consensus size: 50
43104810 ATTTGGGTAA
* * *
43104820 AGAGATCCCATGTACGACCATGTCTGGGACATGGCATTGGCATCGTTGAGGTTATG
1 AGAGGTCCCATGTAAGACCATGTCTGGGACATGGCATTGGCA-C--CGA-G--ATG
* *
43104876 AGAGGTCCCATGTAAGATCATGTCTGGGACATGGCGTTGGCACCGAGATG
1 AGAGGTCCCATGTAAGACCATGTCTGGGACATGGCATTGGCACCGAGATG
* * *
43104926 AGAGGTCCCCTGTAAGACCATGTCTGGGACATGGCATGGGCACCGATATG
1 AGAGGTCCCATGTAAGACCATGTCTGGGACATGGCATTGGCACCGAGATG
** * * *
43104976 AGAACTCCCATATAAGACCATATCTGGGATATGGCA
1 AGAGGTCCCATGTAAGACCATGTCTGGGACATGGCA
43105012 CTGGTAGTAC
Statistics
Matches: 120, Mismatches: 16, Indels: 6
0.85 0.11 0.04
Matches are distributed among these distances:
50 78 0.65
52 1 0.01
53 2 0.02
55 1 0.01
56 38 0.32
ACGTcount: A:0.26, C:0.21, G:0.30, T:0.23
Consensus pattern (50 bp):
AGAGGTCCCATGTAAGACCATGTCTGGGACATGGCATTGGCACCGAGATG
Found at i:43107811 original size:25 final size:27
Alignment explanation
Indices: 43107749--43107814 Score: 82
Period size: 27 Copynumber: 2.5 Consensus size: 27
43107739 CGTTCTGACC
*
43107749 CACAGCTCGTGTGAGTAGGCCTATTTT
1 CACAGCTCGTGTGAGTAGGCCTAATTT
***
43107776 CACAGCTCGTGTGAGTA-TTTTAATTT
1 CACAGCTCGTGTGAGTAGGCCTAATTT
43107802 -ACAGCTCGTGTGA
1 CACAGCTCGTGTGA
43107815 ACATACATGT
Statistics
Matches: 35, Mismatches: 4, Indels: 2
0.85 0.10 0.05
Matches are distributed among these distances:
25 13 0.37
26 5 0.14
27 17 0.49
ACGTcount: A:0.21, C:0.20, G:0.24, T:0.35
Consensus pattern (27 bp):
CACAGCTCGTGTGAGTAGGCCTAATTT
Found at i:43111904 original size:50 final size:49
Alignment explanation
Indices: 43111761--43112717 Score: 854
Period size: 50 Copynumber: 19.2 Consensus size: 49
43111751 ATCTCTTTGG
* * * * *
43111761 CATTACAGTGGAACAGATTGAAGATACAACAGCAAATCTTACTTCCCTA
1 CATTGCAGTGAAACAGATTGAAGCTACAACAGCGAATCTTACTTCCCGA
** * * * *
43111810 GCGGTGTAGTGGAACAGATTG-AGCTAGAACCGCGAATCTTACTTCCTCGA
1 -CATTGCAGTGAAACAGATTGAAGCTACAACAGCGAATCTTACTTCC-CGA
* * *
43111860 CATTGCAGTTAAATAGATTGAAGCTACAACAGCGAATCTTACTTCCCTA
1 CATTGCAGTGAAACAGATTGAAGCTACAACAGCGAATCTTACTTCCCGA
* * * * * *
43111909 GAGGTGTAGTGGAACAGATTGAAGCTATAACAGCGAATCTTGCTTCCCCGA
1 CA-TTGCAGTGAAACAGATTGAAGCTACAACAGCGAATCTTACTT-CCCGA
* * * * * *
43111960 CTTTGCAATTAAATAGATTGAAGCTACAACAGTGAATCTTACTTCCCTGG
1 CATTGCAGTGAAACAGATTGAAGCTACAACAGCGAATCTTACTTCCC-GA
** * * * *
43112010 CGGTGTAGTGGAACAGATTGAAGCTACAACAACGAATCTTGCTTCCTCGA
1 CATTGCAGTGAAACAGATTGAAGCTACAACAGCGAATCTTACTTCC-CGA
* * * * *
43112060 CATTGCAGTTAAATAGATTGAAGCTACAAGAACGAATCTTACTTCCCTGG
1 CATTGCAGTGAAACAGATTGAAGCTACAACAGCGAATCTTACTTCCC-GA
** * *
43112110 CGGTGTAGTGAAACAGATTGAAGCTACAACAGCGAATCTTGCTTCCTCGA
1 CATTGCAGTGAAACAGATTGAAGCTACAACAGCGAATCTTACTTCC-CGA
* * * * *
43112160 CATTGCAGTTAAATAGATTGAAGCTATAACAGCGAACCTTACTTCCCTGG
1 CATTGCAGTGAAACAGATTGAAGCTACAACAGCGAATCTTACTTCCC-GA
** * * *
43112210 CGGTGTAGTGGAACAGATTGAAGCTACAACAGCGAATCTTGCTTCCCCGA
1 CATTGCAGTGAAACAGATTGAAGCTACAACAGCGAATCTTACTT-CCCGA
* * * * * *
43112260 CATTGCAGTTAAATAGATTAAAGCTACAACAGCGAATCTTATTTCCTTGG
1 CATTGCAGTGAAACAGATTGAAGCTACAACAGCGAATCTTACTTCC-CGA
* * * * * * **
43112310 CAGTGTACTGGAACAGATTGAAGCTACAACAACGAATCTTGCTTCGCTAA
1 CATTGCAGTGAAACAGATTGAAGCTACAACAGCGAATCTTACTTC-CCGA
* * *
43112360 CATTGCAGTTAAATAGATTGAAGCTACAACAGCGAATCTTACTTCCCTGG
1 CATTGCAGTGAAACAGATTGAAGCTACAACAGCGAATCTTACTTCCC-GA
* * * * *
43112410 CAGTGTAGTGGAACAGATTGAAGCTACATCAGCGAATCTTGCTTCCCCGA
1 CATTGCAGTGAAACAGATTGAAGCTACAACAGCGAATCTTACTT-CCCGA
* * * * *
43112460 CATTACAATTAAATAGATTGAAGCTACAACAGCGAATCTTACTTCCCTGG
1 CATTGCAGTGAAACAGATTGAAGCTACAACAGCGAATCTTACTTCCC-GA
** * * * * *
43112510 CGGTGTAGTGGAACAGATTGAAGCTACAACAGCAAATCTTGCTACCCCGA
1 CATTGCAGTGAAACAGATTGAAGCTACAACAGCGAATCTTACT-TCCCGA
* * * *
43112560 CATTGCAGTTAAATAGATTGAAGCTACAACAGTGAATCTTACTTCCCTGG
1 CATTGCAGTGAAACAGATTGAAGCTACAACAGCGAATCTTACTTCCC-GA
** * * *
43112610 CGGTGTAGTGGAATAGATTGAAGCTACAACAGCGAATCTTACTTCCCCGA
1 CATTGCAGTGAAACAGATTGAAGCTACAACAGCGAATCTTACTT-CCCGA
* * *
43112660 CATTGCAGTGAAGCAGGTTAAAGCTACAACAGCGAATCTTACTTCTCCGA
1 CATTGCAGTGAAACAGATTGAAGCTACAACAGCGAATCTTACTTC-CCGA
*
43112710 CGTTGCAG
1 CATTGCAG
43112718 ATTGAAGTTA
Statistics
Matches: 710, Mismatches: 178, Indels: 38
0.77 0.19 0.04
Matches are distributed among these distances:
49 53 0.07
50 638 0.90
51 19 0.03
ACGTcount: A:0.32, C:0.22, G:0.21, T:0.26
Consensus pattern (49 bp):
CATTGCAGTGAAACAGATTGAAGCTACAACAGCGAATCTTACTTCCCGA
Found at i:43111988 original size:100 final size:100
Alignment explanation
Indices: 43111775--43112704 Score: 1457
Period size: 100 Copynumber: 9.3 Consensus size: 100
43111765 ACAGTGGAAC
* * * *
43111775 AGATTGAAGATACAACAGCAAATCTTACTTCCCTAGCGGTGTAGTGGAACAGATTG-AGCTAGAA
1 AGATTGAAGCTACAACAGCGAATCTTACTTCCCTGGCGGTGTAGTGGAACAGATTGAAGCTACAA
* * *
43111839 CCGCGAATCTTACTTCCTCGACATTGCAGTTAAAT
66 CAGCGAATCTTGCTTCCCCGACATTGCAGTTAAAT
* * *
43111874 AGATTGAAGCTACAACAGCGAATCTTACTTCCCTAGAGGTGTAGTGGAACAGATTGAAGCTATAA
1 AGATTGAAGCTACAACAGCGAATCTTACTTCCCTGGCGGTGTAGTGGAACAGATTGAAGCTACAA
* *
43111939 CAGCGAATCTTGCTTCCCCGACTTTGCAATTAAAT
66 CAGCGAATCTTGCTTCCCCGACATTGCAGTTAAAT
*
43111974 AGATTGAAGCTACAACAGTGAATCTTACTTCCCTGGCGGTGTAGTGGAACAGATTGAAGCTACAA
1 AGATTGAAGCTACAACAGCGAATCTTACTTCCCTGGCGGTGTAGTGGAACAGATTGAAGCTACAA
* *
43112039 CAACGAATCTTGCTTCCTCGACATTGCAGTTAAAT
66 CAGCGAATCTTGCTTCCCCGACATTGCAGTTAAAT
* * *
43112074 AGATTGAAGCTACAAGAACGAATCTTACTTCCCTGGCGGTGTAGTGAAACAGATTGAAGCTACAA
1 AGATTGAAGCTACAACAGCGAATCTTACTTCCCTGGCGGTGTAGTGGAACAGATTGAAGCTACAA
*
43112139 CAGCGAATCTTGCTTCCTCGACATTGCAGTTAAAT
66 CAGCGAATCTTGCTTCCCCGACATTGCAGTTAAAT
* *
43112174 AGATTGAAGCTATAACAGCGAACCTTACTTCCCTGGCGGTGTAGTGGAACAGATTGAAGCTACAA
1 AGATTGAAGCTACAACAGCGAATCTTACTTCCCTGGCGGTGTAGTGGAACAGATTGAAGCTACAA
43112239 CAGCGAATCTTGCTTCCCCGACATTGCAGTTAAAT
66 CAGCGAATCTTGCTTCCCCGACATTGCAGTTAAAT
* * * * *
43112274 AGATTAAAGCTACAACAGCGAATCTTATTTCCTTGGCAGTGTACTGGAACAGATTGAAGCTACAA
1 AGATTGAAGCTACAACAGCGAATCTTACTTCCCTGGCGGTGTAGTGGAACAGATTGAAGCTACAA
* * **
43112339 CAACGAATCTTGCTTCGCTAACATTGCAGTTAAAT
66 CAGCGAATCTTGCTTCCCCGACATTGCAGTTAAAT
* *
43112374 AGATTGAAGCTACAACAGCGAATCTTACTTCCCTGGCAGTGTAGTGGAACAGATTGAAGCTACAT
1 AGATTGAAGCTACAACAGCGAATCTTACTTCCCTGGCGGTGTAGTGGAACAGATTGAAGCTACAA
* *
43112439 CAGCGAATCTTGCTTCCCCGACATTACAATTAAAT
66 CAGCGAATCTTGCTTCCCCGACATTGCAGTTAAAT
43112474 AGATTGAAGCTACAACAGCGAATCTTACTTCCCTGGCGGTGTAGTGGAACAGATTGAAGCTACAA
1 AGATTGAAGCTACAACAGCGAATCTTACTTCCCTGGCGGTGTAGTGGAACAGATTGAAGCTACAA
* *
43112539 CAGCAAATCTTGCTACCCCGACATTGCAGTTAAAT
66 CAGCGAATCTTGCTTCCCCGACATTGCAGTTAAAT
* *
43112574 AGATTGAAGCTACAACAGTGAATCTTACTTCCCTGGCGGTGTAGTGGAATAGATTGAAGCTACAA
1 AGATTGAAGCTACAACAGCGAATCTTACTTCCCTGGCGGTGTAGTGGAACAGATTGAAGCTACAA
* * **
43112639 CAGCGAATCTTACTTCCCCGACATTGCAGTGAAGC
66 CAGCGAATCTTGCTTCCCCGACATTGCAGTTAAAT
* *
43112674 AGGTTAAAGCTACAACAGCGAATCTTACTTC
1 AGATTGAAGCTACAACAGCGAATCTTACTTC
43112705 TCCGACGTTG
Statistics
Matches: 763, Mismatches: 67, Indels: 1
0.92 0.08 0.00
Matches are distributed among these distances:
99 53 0.07
100 710 0.93
ACGTcount: A:0.32, C:0.22, G:0.20, T:0.26
Consensus pattern (100 bp):
AGATTGAAGCTACAACAGCGAATCTTACTTCCCTGGCGGTGTAGTGGAACAGATTGAAGCTACAA
CAGCGAATCTTGCTTCCCCGACATTGCAGTTAAAT
Found at i:43121934 original size:40 final size:40
Alignment explanation
Indices: 43121890--43121975 Score: 100
Period size: 40 Copynumber: 2.1 Consensus size: 40
43121880 GTGCATTTAG
* * **
43121890 GGGCACAAATGTGTAATCAGGGACATTGAAATGTTTACAA
1 GGGCACAAATGTGCAAACAGGGACACCGAAATGTTTACAA
** * *
43121930 GGGCACAGTTGTGCAAACAGGGACACCGAAGTGTTTACAG
1 GGGCACAAATGTGCAAACAGGGACACCGAAATGTTTACAA
43121970 GGGCAC
1 GGGCAC
43121976 CGAGGTGGAA
Statistics
Matches: 38, Mismatches: 8, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
40 38 1.00
ACGTcount: A:0.33, C:0.17, G:0.30, T:0.20
Consensus pattern (40 bp):
GGGCACAAATGTGCAAACAGGGACACCGAAATGTTTACAA
Found at i:43124003 original size:45 final size:45
Alignment explanation
Indices: 43123939--43124196 Score: 179
Period size: 45 Copynumber: 5.7 Consensus size: 45
43123929 TGAATGAAGT
43123939 AATAAGACCATAGTTGAAAGACACTATGGCA--ATATACCAAAACTG
1 AATAAGACCATAGTTGAAAGACACTATGGCATCATAT-CCAAAA-TG
* *
43123984 AATAAGACCATAGTTGAAAGAAACTATGGCATCATATCGAAAATG
1 AATAAGACCATAGTTGAAAGACACTATGGCATCATATCCAAAATG
* * ** * * *** *
43124029 AGTAAGACCATAGCTGAAAGACGTTATGTCATCACGAT-TTTAACG
1 AATAAGACCATAGTTGAAAGACACTATGGCATCA-TATCCAAAATG
* * * * ** * *
43124074 AGTAAGAGCATAGCTGAAAGACATTATGGCATCACGGTTC-TAATG
1 AATAAGACCATAGTTGAAAGACACTATGGCATCA-TATCCAAAATG
* * * *
43124119 AGTAAGACCATAGTTGAAAGACGCTATGGGATCATGAAT-CAGAA-G
1 AATAAGACCATAGTTGAAAGACACTATGGCATCAT--ATCCAAAATG
*
43124164 AATAAGATCAT-GATTGAAAGACACTATGGCATC
1 AATAAGACCATAG-TTGAAAGACACTATGGCATC
43124197 CTGCAACCAT
Statistics
Matches: 174, Mismatches: 31, Indels: 16
0.79 0.14 0.07
Matches are distributed among these distances:
44 1 0.01
45 159 0.91
46 10 0.06
47 4 0.02
ACGTcount: A:0.41, C:0.16, G:0.21, T:0.23
Consensus pattern (45 bp):
AATAAGACCATAGTTGAAAGACACTATGGCATCATATCCAAAATG
Found at i:43124170 original size:90 final size:90
Alignment explanation
Indices: 43124025--43124196 Score: 204
Period size: 90 Copynumber: 1.9 Consensus size: 90
43124015 TCATATCGAA
* * * * * *
43124025 AATGAGTAAGACCATAGCTGAAAGACGTTATGTCATCACGATTTTAACGAGTAAGAGCAT-AGCT
1 AATGAGTAAGACCATAGCTGAAAGACGCTATGGCATCACGATATCAAAGAATAAGAGCATGA-CT
*
43124089 GAAAGACATTATGGCATCACGGTTCT
65 GAAAGACACTATGGCATCACGGTTCT
* * * * *
43124115 AATGAGTAAGACCATAGTTGAAAGACGCTATGGGATCATGA-ATCAGAAGAATAAGATCATGATT
1 AATGAGTAAGACCATAGCTGAAAGACGCTATGGCATCACGATATCA-AAGAATAAGAGCATGACT
43124179 GAAAGACACTATGGCATC
65 GAAAGACACTATGGCATC
43124197 CTGCAACCAT
Statistics
Matches: 68, Mismatches: 12, Indels: 4
0.81 0.14 0.05
Matches are distributed among these distances:
89 2 0.03
90 65 0.96
91 1 0.01
ACGTcount: A:0.38, C:0.15, G:0.23, T:0.24
Consensus pattern (90 bp):
AATGAGTAAGACCATAGCTGAAAGACGCTATGGCATCACGATATCAAAGAATAAGAGCATGACTG
AAAGACACTATGGCATCACGGTTCT
Found at i:43127923 original size:25 final size:25
Alignment explanation
Indices: 43127879--43127933 Score: 67
Period size: 25 Copynumber: 2.2 Consensus size: 25
43127869 TAGCTCGTGA
*
43127879 GAGCATACCGATCTAAAGCTTGCAT
1 GAGCATACCGATCTAAAGCTCGCAT
* *
43127904 GAGCATACCGAT-TCATAGCTCGTAT
1 GAGCATACCGATCT-AAAGCTCGCAT
43127929 GAGCA
1 GAGCA
43127934 GACATGTACA
Statistics
Matches: 26, Mismatches: 3, Indels: 2
0.84 0.10 0.06
Matches are distributed among these distances:
24 1 0.04
25 25 0.96
ACGTcount: A:0.31, C:0.24, G:0.22, T:0.24
Consensus pattern (25 bp):
GAGCATACCGATCTAAAGCTCGCAT
Found at i:43128167 original size:31 final size:31
Alignment explanation
Indices: 43128098--43128167 Score: 83
Period size: 31 Copynumber: 2.3 Consensus size: 31
43128088 GAATTACATA
*
43128098 GAAAT-GTTGTTACATGGTATATGGAAACTT
1 GAAATGGTTGATACATGGTATATGGAAACTT
*
43128128 GAATTGGTTGATACAT-GTATATGG-AACTT
1 GAAATGGTTGATACATGGTATATGGAAACTT
43128157 GATCAATGGTT
1 GA--AATGGTT
43128168 ATGTTCATCT
Statistics
Matches: 34, Mismatches: 3, Indels: 5
0.81 0.07 0.12
Matches are distributed among these distances:
29 7 0.21
30 12 0.35
31 15 0.44
ACGTcount: A:0.31, C:0.07, G:0.24, T:0.37
Consensus pattern (31 bp):
GAAATGGTTGATACATGGTATATGGAAACTT
Found at i:43150348 original size:40 final size:40
Alignment explanation
Indices: 43150304--43150391 Score: 108
Period size: 40 Copynumber: 2.2 Consensus size: 40
43150294 GAGTGCATTC
43150304 AGGGGCACGAA-TGTGC-AATCAAGGACACCAAAGTGTTTAT
1 AGGGGCAC-AATTGTGCAAAT-AAGGACACCAAAGTGTTTAT
* * *
43150344 AGGGGAACAATTGTGCAAATAGGGACACCGAAGTGTTTAT
1 AGGGGCACAATTGTGCAAATAAGGACACCAAAGTGTTTAT
*
43150384 AAGGGCAC
1 AGGGGCAC
43150392 CGAGGTGCAA
Statistics
Matches: 41, Mismatches: 5, Indels: 4
0.82 0.10 0.08
Matches are distributed among these distances:
39 2 0.05
40 36 0.88
41 3 0.07
ACGTcount: A:0.35, C:0.16, G:0.30, T:0.19
Consensus pattern (40 bp):
AGGGGCACAATTGTGCAAATAAGGACACCAAAGTGTTTAT
Found at i:43159775 original size:16 final size:16
Alignment explanation
Indices: 43159754--43159785 Score: 64
Period size: 16 Copynumber: 2.0 Consensus size: 16
43159744 TAATGTGTTT
43159754 TGCTGCTGTTGTTTAA
1 TGCTGCTGTTGTTTAA
43159770 TGCTGCTGTTGTTTAA
1 TGCTGCTGTTGTTTAA
43159786 ATGCAGAATG
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:0.12, C:0.12, G:0.25, T:0.50
Consensus pattern (16 bp):
TGCTGCTGTTGTTTAA
Found at i:43166225 original size:25 final size:24
Alignment explanation
Indices: 43166197--43166278 Score: 103
Period size: 25 Copynumber: 3.3 Consensus size: 24
43166187 GTATGCTGTC
*
43166197 ACGAGCTGAAAATTGGTAAGCTCAT
1 ACGAGCT-AAAATCGGTAAGCTCAT
43166222 ACGAGCTAAGAATCGGTAAGCTC-T
1 ACGAGCTAA-AATCGGTAAGCTCAT
*
43166246 CACGAGCTAAAATCGGTAAGCTTAT
1 -ACGAGCTAAAATCGGTAAGCTCAT
*
43166271 ACAAGCTA
1 ACGAGCTA
43166279 TGGTGTGTCC
Statistics
Matches: 51, Mismatches: 3, Indels: 7
0.84 0.05 0.11
Matches are distributed among these distances:
24 22 0.43
25 29 0.57
ACGTcount: A:0.37, C:0.20, G:0.22, T:0.22
Consensus pattern (24 bp):
ACGAGCTAAAATCGGTAAGCTCAT
Found at i:43166264 original size:24 final size:25
Alignment explanation
Indices: 43166195--43166267 Score: 105
Period size: 25 Copynumber: 2.9 Consensus size: 25
43166185 TAGTATGCTG
*
43166195 TCACGAGCTGAAAATTGGTAAGCTCA
1 TCACGAGCT-AAAATCGGTAAGCTCA
43166221 T-ACGAGCTAAGAATCGGTAAGCTC-
1 TCACGAGCTAA-AATCGGTAAGCTCA
43166245 TCACGAGCTAAAATCGGTAAGCT
1 TCACGAGCTAAAATCGGTAAGCT
43166268 TATACAAGCT
Statistics
Matches: 44, Mismatches: 1, Indels: 6
0.86 0.02 0.12
Matches are distributed among these distances:
24 15 0.34
25 28 0.64
26 1 0.02
ACGTcount: A:0.34, C:0.21, G:0.23, T:0.22
Consensus pattern (25 bp):
TCACGAGCTAAAATCGGTAAGCTCA
Found at i:43175101 original size:51 final size:51
Alignment explanation
Indices: 43175025--43175246 Score: 250
Period size: 51 Copynumber: 4.4 Consensus size: 51
43175015 TATAAACACG
* * *
43175025 TGTGTAGTACTAAGTGCAGGCTACTACGTGTATCGATAGATAATGATCACA
1 TGTGTAGTACTATGTGCAGGCTACTACGTGTACCGAAAGATAATGATCACA
* * ** *
43175076 TGTGTAGTACTATGTGCAGGCTACTATGTGTACCGAAAGGTTTTGGTCACA
1 TGTGTAGTACTATGTGCAGGCTACTACGTGTACCGAAAGATAATGATCACA
* *
43175127 TGTGTAGTACTATGTGCAGGCTACTACGTGAACCGGAAAG-T-TTGATCACA
1 TGTGTAGTACTATGTGCAGGCTACTACGTGTACC-GAAAGATAATGATCACA
* * * * * *
43175177 TGTGTAGTACTATGTGAAGGCTACTACGTATATCGAATGATAATAATTACA
1 TGTGTAGTACTATGTGCAGGCTACTACGTGTACCGAAAGATAATGATCACA
* * *
43175228 CGGGTGGTACTATGTGCAG
1 TGTGTAGTACTATGTGCAG
43175247 ACCACCGAAT
Statistics
Matches: 145, Mismatches: 23, Indels: 6
0.83 0.13 0.03
Matches are distributed among these distances:
49 4 0.03
50 39 0.27
51 97 0.67
52 5 0.03
ACGTcount: A:0.28, C:0.15, G:0.26, T:0.31
Consensus pattern (51 bp):
TGTGTAGTACTATGTGCAGGCTACTACGTGTACCGAAAGATAATGATCACA
Found at i:43175238 original size:101 final size:102
Alignment explanation
Indices: 43175028--43175246 Score: 244
Period size: 101 Copynumber: 2.2 Consensus size: 102
43175018 AAACACGTGT
* * * * *
43175028 GTAGTACTAAGTGCAGGCTACTACGTGTATCGATAGATAATGATCACATGTGTAGTACTATGTGC
1 GTAGTACTATGTGCAGGCTACTACGTGAACCGAAAGATAATGATCACATGTGTAGTACTATGTGA
* * * ** ** * *
43175093 AGGCTACTATGTGTACCGAAAGGTTTTGGTCACATGT
66 AGGCTACTACGTATACCGAAAGATAATAATCACACGG
*
43175130 GTAGTACTATGTGCAGGCTACTACGTGAACCGGAAAG-T-TTGATCACATGTGTAGTACTATGTG
1 GTAGTACTATGTGCAGGCTACTACGTGAACC-GAAAGATAATGATCACATGTGTAGTACTATGTG
* * *
43175193 AAGGCTACTACGTATATCGAATGATAATAATTACACGG
65 AAGGCTACTACGTATACCGAAAGATAATAATCACACGG
*
43175231 GTGGTACTATGTGCAG
1 GTAGTACTATGTGCAG
43175247 ACCACCGAAT
Statistics
Matches: 97, Mismatches: 19, Indels: 3
0.82 0.16 0.03
Matches are distributed among these distances:
101 64 0.66
102 29 0.30
103 4 0.04
ACGTcount: A:0.29, C:0.16, G:0.26, T:0.30
Consensus pattern (102 bp):
GTAGTACTATGTGCAGGCTACTACGTGAACCGAAAGATAATGATCACATGTGTAGTACTATGTGA
AGGCTACTACGTATACCGAAAGATAATAATCACACGG
Found at i:43177318 original size:25 final size:24
Alignment explanation
Indices: 43177290--43177372 Score: 87
Period size: 25 Copynumber: 3.4 Consensus size: 24
43177280 GCTATGAATC
* *
43177290 GGTATGCTCTCATGAGTTGGAAATT
1 GGTAAGCTCTCATGAGCT-GAAATT
*
43177315 GGTAAGCTCAT-ATGAGCTGAGAATC
1 GGTAAGCTC-TCATGAGCTGA-AATT
*
43177340 AGTAAGCTCTCATGAGCTGAAATT
1 GGTAAGCTCTCATGAGCTGAAATT
*
43177364 GGAAAGCTC
1 GGTAAGCTC
43177373 ATACAAGCTA
Statistics
Matches: 48, Mismatches: 7, Indels: 7
0.77 0.11 0.11
Matches are distributed among these distances:
24 13 0.27
25 34 0.71
26 1 0.02
ACGTcount: A:0.30, C:0.16, G:0.27, T:0.28
Consensus pattern (24 bp):
GGTAAGCTCTCATGAGCTGAAATT
Found at i:43177349 original size:50 final size:49
Alignment explanation
Indices: 43177270--43177384 Score: 151
Period size: 50 Copynumber: 2.3 Consensus size: 49
43177260 GTACATGTAT
* * * *
43177270 GCTCATACGAGCTATGAATCGGTATGCTCTCATGAGTTGGAAATTGGTAA
1 GCTCATACGAGCTATGAATCAGTAAGCTCTCATGAGCT-GAAATTGGAAA
*
43177320 GCTCATATGAGCTGA-GAATCAGTAAGCTCTCATGAGCTGAAATTGGAAA
1 GCTCATACGAGCT-ATGAATCAGTAAGCTCTCATGAGCTGAAATTGGAAA
*
43177369 GCTCATACAAGCTATG
1 GCTCATACGAGCTATG
43177385 GTGTGTCCGC
Statistics
Matches: 56, Mismatches: 7, Indels: 5
0.82 0.10 0.07
Matches are distributed among these distances:
48 1 0.02
49 22 0.39
50 32 0.57
51 1 0.02
ACGTcount: A:0.31, C:0.17, G:0.24, T:0.27
Consensus pattern (49 bp):
GCTCATACGAGCTATGAATCAGTAAGCTCTCATGAGCTGAAATTGGAAA
Found at i:43178101 original size:25 final size:24
Alignment explanation
Indices: 43178073--43178155 Score: 87
Period size: 25 Copynumber: 3.4 Consensus size: 24
43178063 GCTATGAATC
* *
43178073 GGTATGCTCTCATGAGTTGGAAATT
1 GGTAAGCTCTCATGAGCT-GAAATT
*
43178098 GGTAAGCTCAT-ATGAGCTGAGAATC
1 GGTAAGCTC-TCATGAGCTGA-AATT
*
43178123 AGTAAGCTCTCATGAGCTGAAATT
1 GGTAAGCTCTCATGAGCTGAAATT
*
43178147 GGAAAGCTC
1 GGTAAGCTC
43178156 ATACAAGCTA
Statistics
Matches: 48, Mismatches: 7, Indels: 7
0.77 0.11 0.11
Matches are distributed among these distances:
24 13 0.27
25 34 0.71
26 1 0.02
ACGTcount: A:0.30, C:0.16, G:0.27, T:0.28
Consensus pattern (24 bp):
GGTAAGCTCTCATGAGCTGAAATT
Found at i:43178132 original size:50 final size:49
Alignment explanation
Indices: 43178053--43178167 Score: 151
Period size: 50 Copynumber: 2.3 Consensus size: 49
43178043 GTACATGTAT
* * * *
43178053 GCTCATACGAGCTATGAATCGGTATGCTCTCATGAGTTGGAAATTGGTAA
1 GCTCATACGAGCTATGAATCAGTAAGCTCTCATGAGCT-GAAATTGGAAA
*
43178103 GCTCATATGAGCTGA-GAATCAGTAAGCTCTCATGAGCTGAAATTGGAAA
1 GCTCATACGAGCT-ATGAATCAGTAAGCTCTCATGAGCTGAAATTGGAAA
*
43178152 GCTCATACAAGCTATG
1 GCTCATACGAGCTATG
43178168 GTGTGTCCGC
Statistics
Matches: 56, Mismatches: 7, Indels: 5
0.82 0.10 0.07
Matches are distributed among these distances:
48 1 0.02
49 22 0.39
50 32 0.57
51 1 0.02
ACGTcount: A:0.31, C:0.17, G:0.24, T:0.27
Consensus pattern (49 bp):
GCTCATACGAGCTATGAATCAGTAAGCTCTCATGAGCTGAAATTGGAAA
Found at i:43178234 original size:783 final size:783
Alignment explanation
Indices: 43176637--43178515 Score: 3550
Period size: 783 Copynumber: 2.4 Consensus size: 783
43176627 GTCTTACACA
* *
43176637 GTAACCCTAATGGCATGTCATTTGTATCCTACGAATTCCTAAGGTTCAACCCA-GGCTCAGTAAT
1 GTAACCCTAATGGCATGTCATTCGTATCCTACGAATTCCTAAGGTTCAA-ACAGGGCTCAGTAAT
* * *
43176701 CGTCGTACATCATCAGATATGCGATC-GATATTTATACATGGAAATTATACAAATCACATACATA
65 CGTCGTACATCGTCAGA-A-GTGATCAG-TATTTATACATGGAAATTAAACAAATCACATACATA
43176765 TAATTCAATTAAAACATATAAATACTCAATTTAATTACACGAACTTACCTTGACAAGTATTCGTA
127 TAATTCAATTAAAACATATAAATACTCAATTTAATTACACGAACTTACCTTGACAAGTATTCGTA
43176830 GGCACAGAGGCGATTATTCTGAGACTTTCTCTTTGCCTCGATCTAAATGCGTACGAGGTCTAACT
192 GGCACAGAGGCGATTATTCTGAGACTTTCTCTTTGCCTCGATCTAAATGCGTACGAGGTCTAACT
43176895 AGATCTAACTAACCTAGATAAGCTTGCTGAACCTAGGTCTCCAATACTGGCTTCTCCCCAACTCA
257 AGATCTAACTAACCTAGATAAGCTTGCTGAACCTAGGTCTCCAATACTGGCTTCTCCCCAACTCA
43176960 ATTTGGCCAAATGCCTAAGCACATATTCACCAACATGTTAGCCATGTAAAACACATATATAAACC
322 ATTTGGCCAAATGCCTAAGCACATATTCACCAACATGTTAGCCATGTAAAACACATATATAAACC
43177025 AAGTCATGGATAAGCTCAACAATTAATCAAATTCCATATACATGTATCATCCATTTCATATACCT
387 AAGTCATGGATAAGCTCAACAATTAATCAAATTCCATATACATGTATCATCCATTTCATATACCT
43177090 ATATACGATGTAATATTATTTTCCATTCAATTCATATATGGACTTGTAATAGTTTGTATTGAACT
452 ATATACGATGTAATATTATTTTCCATTCAATTCATATATGGACTTGTAATAGTTTGTATTGAACT
43177155 CATACCATATCGTATCAGAACATTTCCCATTGAACCATTTAGAATATCGTTGGATACGCGGGATA
517 CATACCATATCGTATCAGAACATTTCCCATTGAACCATTTAGAATATCGTTGGATACGCGGGATA
43177220 GCTCACACATAGTACGCTAAACTATAATCCATCAATTCCTGTACATGTATGCTCATACGAGCTAT
582 GCTCACACATAGTACGCTAAACTATAATCCATCAATTCCTGTACATGTATGCTCATACGAGCTAT
43177285 GAATCGGTATGCTCTCATGAGTTGGAAATTGGTAAGCTCATATGAGCTGAGAATCAGTAAGCTCT
647 GAATCGGTATGCTCTCATGAGTTGGAAATTGGTAAGCTCATATGAGCTGAGAATCAGTAAGCTCT
43177350 CATGAGCTGAAATTGGAAAGCTCATACAAGCTATGGTGTGTCCGCAACACATGCAGGAGCACAAC
712 CATGAGCTGAAATTGGAAAGCTCATACAAGCTATGGTGTGTCCGCAACACATGCAGGAGCACAAC
43177415 CAAATCG
777 CAAATCG
43177422 GTAACCCTAATGGCATGTCATTCGTATCCTACGAATTCCTAAGGTTCAAACAGGGCTCAGTAATC
1 GTAACCCTAATGGCATGTCATTCGTATCCTACGAATTCCTAAGGTTCAAACAGGGCTCAGTAATC
43177487 GTCGTACATCGTCAGAAGTGATCAGTATTTATACATGGAAATTAAACAAATCACATACATATAAT
66 GTCGTACATCGTCAGAAGTGATCAGTATTTATACATGGAAATTAAACAAATCACATACATATAAT
43177552 TCAATTAAAACATATAAATACTCAATTTAATTACACGAACTTACCTTGACAAGTATTCGTAGGCA
131 TCAATTAAAACATATAAATACTCAATTTAATTACACGAACTTACCTTGACAAGTATTCGTAGGCA
43177617 CAGAGGCGATTATTCTGAGACTTTCTCTTTGCCTCGATCTAAATGCGTACGAGGTCTAACTAGAT
196 CAGAGGCGATTATTCTGAGACTTTCTCTTTGCCTCGATCTAAATGCGTACGAGGTCTAACTAGAT
43177682 CTAACTAACCTAGATAAGCTTGCTGAACCTAGGTCTCCAATACTGGCTTCTCCCCAACTCAATTT
261 CTAACTAACCTAGATAAGCTTGCTGAACCTAGGTCTCCAATACTGGCTTCTCCCCAACTCAATTT
43177747 GGCCAAATGCCTAAGCACATATTCACCAACATGTTAGCCATGTAAAACACATATATAAACCAAGT
326 GGCCAAATGCCTAAGCACATATTCACCAACATGTTAGCCATGTAAAACACATATATAAACCAAGT
43177812 CATGGATAAGCTCAACAATTAATCAAATTCCATATACATGTATCATCCATTTCATATACCTATAT
391 CATGGATAAGCTCAACAATTAATCAAATTCCATATACATGTATCATCCATTTCATATACCTATAT
43177877 ACGATGTAATATTATTTTCCATTCAATTCATATATGGACTTGTAATAGTTTGTATTGAACTCATA
456 ACGATGTAATATTATTTTCCATTCAATTCATATATGGACTTGTAATAGTTTGTATTGAACTCATA
43177942 CCATATCGTATCAGAACATTTCCCATTGAACCATTTAGAATATCGTTGGATACGCGGGATAGCTC
521 CCATATCGTATCAGAACATTTCCCATTGAACCATTTAGAATATCGTTGGATACGCGGGATAGCTC
43178007 ACACATAGTACGCTAAACTATAATCCATCAATTCCTGTACATGTATGCTCATACGAGCTATGAAT
586 ACACATAGTACGCTAAACTATAATCCATCAATTCCTGTACATGTATGCTCATACGAGCTATGAAT
43178072 CGGTATGCTCTCATGAGTTGGAAATTGGTAAGCTCATATGAGCTGAGAATCAGTAAGCTCTCATG
651 CGGTATGCTCTCATGAGTTGGAAATTGGTAAGCTCATATGAGCTGAGAATCAGTAAGCTCTCATG
43178137 AGCTGAAATTGGAAAGCTCATACAAGCTATGGTGTGTCCGCAACACATGCAGGAGCACAACCAAA
716 AGCTGAAATTGGAAAGCTCATACAAGCTATGGTGTGTCCGCAACACATGCAGGAGCACAACCAAA
43178202 TCG
781 TCG
43178205 GTAACCCTAATGGCATGTCATTCGTATCCTACGAATTCCTAAGGTTCAAACAGGGCTCAGTAATC
1 GTAACCCTAATGGCATGTCATTCGTATCCTACGAATTCCTAAGGTTCAAACAGGGCTCAGTAATC
43178270 GTCGTACATCGTCAGAAGTGATCAGTATTTATACATGGAAATTAAACAAATCACATACATATAAT
66 GTCGTACATCGTCAGAAGTGATCAGTATTTATACATGGAAATTAAACAAATCACATACATATAAT
** *
43178335 TCAATTAAAACATATAAATACTCAATTTAATTACACGAACTTACCTCAACAAGTATTCGTAGGTA
131 TCAATTAAAACATATAAATACTCAATTTAATTACACGAACTTACCTTGACAAGTATTCGTAGGCA
* * *
43178400 -TGAAGGCGATTACTCTGAGACTTTCTCTTTGCCTCGATCTAAATCCGTACGAGGTCTAACTAGA
196 CAG-AGGCGATTATTCTGAGACTTTCTCTTTGCCTCGATCTAAATGCGTACGAGGTCTAACTAGA
* * *
43178464 TCTAACTAAGCTAGATAAGCTTG-TCGAACCTAGGTCTCCAAGAATGGCTTCT
260 TCTAACTAACCTAGATAAGCTTGCT-GAACCTAGGTCTCCAATACTGGCTTCT
43178516 TCCCTTGTGG
Statistics
Matches: 1076, Mismatches: 14, Indels: 10
0.98 0.01 0.01
Matches are distributed among these distances:
782 2 0.00
783 995 0.92
784 4 0.00
785 75 0.07
ACGTcount: A:0.34, C:0.21, G:0.15, T:0.30
Consensus pattern (783 bp):
GTAACCCTAATGGCATGTCATTCGTATCCTACGAATTCCTAAGGTTCAAACAGGGCTCAGTAATC
GTCGTACATCGTCAGAAGTGATCAGTATTTATACATGGAAATTAAACAAATCACATACATATAAT
TCAATTAAAACATATAAATACTCAATTTAATTACACGAACTTACCTTGACAAGTATTCGTAGGCA
CAGAGGCGATTATTCTGAGACTTTCTCTTTGCCTCGATCTAAATGCGTACGAGGTCTAACTAGAT
CTAACTAACCTAGATAAGCTTGCTGAACCTAGGTCTCCAATACTGGCTTCTCCCCAACTCAATTT
GGCCAAATGCCTAAGCACATATTCACCAACATGTTAGCCATGTAAAACACATATATAAACCAAGT
CATGGATAAGCTCAACAATTAATCAAATTCCATATACATGTATCATCCATTTCATATACCTATAT
ACGATGTAATATTATTTTCCATTCAATTCATATATGGACTTGTAATAGTTTGTATTGAACTCATA
CCATATCGTATCAGAACATTTCCCATTGAACCATTTAGAATATCGTTGGATACGCGGGATAGCTC
ACACATAGTACGCTAAACTATAATCCATCAATTCCTGTACATGTATGCTCATACGAGCTATGAAT
CGGTATGCTCTCATGAGTTGGAAATTGGTAAGCTCATATGAGCTGAGAATCAGTAAGCTCTCATG
AGCTGAAATTGGAAAGCTCATACAAGCTATGGTGTGTCCGCAACACATGCAGGAGCACAACCAAA
TCG
Found at i:43183160 original size:12 final size:12
Alignment explanation
Indices: 43183143--43183168 Score: 52
Period size: 12 Copynumber: 2.2 Consensus size: 12
43183133 CCTCACATGC
43183143 CCGTGTGCTAGG
1 CCGTGTGCTAGG
43183155 CCGTGTGCTAGG
1 CCGTGTGCTAGG
43183167 CC
1 CC
43183169 ATGTAATAGC
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:43191249 original size:54 final size:54
Alignment explanation
Indices: 43191184--43191293 Score: 141
Period size: 54 Copynumber: 2.0 Consensus size: 54
43191174 TAGTACTATC
* *
43191184 ACTTGGGTCACACGACCGTGTCG-TAGGCCGTGTGCCAGACCTTGTAACTCTCTG
1 ACTTGGGTCACACGACCGTGT-GTTAGGCCGTGTGCCAGACCGTGTAACTCACTG
* ** * *
43191238 ACTTGTGTCACACGGTCGTGTGTTAGGTCGTGTGCTAGACCGTGTAACTCACTG
1 ACTTGGGTCACACGACCGTGTGTTAGGCCGTGTGCCAGACCGTGTAACTCACTG
43191292 AC
1 AC
43191294 CTAATACACA
Statistics
Matches: 48, Mismatches: 7, Indels: 2
0.84 0.12 0.04
Matches are distributed among these distances:
53 1 0.02
54 47 0.98
ACGTcount: A:0.17, C:0.26, G:0.28, T:0.28
Consensus pattern (54 bp):
ACTTGGGTCACACGACCGTGTGTTAGGCCGTGTGCCAGACCGTGTAACTCACTG
Found at i:43194471 original size:23 final size:20
Alignment explanation
Indices: 43194421--43194471 Score: 57
Period size: 23 Copynumber: 2.4 Consensus size: 20
43194411 TTTTTCTTCT
*
43194421 TATTTTTATTTTCTGTATAT
1 TATTTTTATTTTCTGTATAG
43194441 TATATTTTATATTTCTTGTCATAG
1 TAT-TTTTAT-TTTC-TGT-ATAG
43194465 TATTTTT
1 TATTTTT
43194472 TTAGGTATTT
Statistics
Matches: 26, Mismatches: 1, Indels: 5
0.81 0.03 0.16
Matches are distributed among these distances:
20 3 0.12
21 6 0.23
22 4 0.15
23 7 0.27
24 6 0.23
ACGTcount: A:0.22, C:0.06, G:0.06, T:0.67
Consensus pattern (20 bp):
TATTTTTATTTTCTGTATAG
Found at i:43204571 original size:20 final size:20
Alignment explanation
Indices: 43204546--43204584 Score: 62
Period size: 20 Copynumber: 1.9 Consensus size: 20
43204536 TAATTTCTTT
43204546 TTTACTTACTCT-CTTACTTG
1 TTTACTTACT-TGCTTACTTG
43204566 TTTACTTACTTGCTTACTT
1 TTTACTTACTTGCTTACTT
43204585 AAATAACTCA
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
19 1 0.06
20 17 0.94
ACGTcount: A:0.15, C:0.23, G:0.05, T:0.56
Consensus pattern (20 bp):
TTTACTTACTTGCTTACTTG
Found at i:43204912 original size:50 final size:50
Alignment explanation
Indices: 43204849--43205034 Score: 174
Period size: 50 Copynumber: 3.6 Consensus size: 50
43204839 CTATACTGCA
* * ** *
43204849 AATGCCATATCCCAGATATGGTCTTACATGAGAGTTCTCATATCGGTGCC
1 AATGCCATGTCCCAGACATGGTCTTACATGAGACCTCTCATATCGGTACC
* * *** * *
43204899 CATGCCATGTCCCAAACATGGTCTTATGGGGGACCTCTCATCTCGGTACC
1 AATGCCATGTCCCAGACATGGTCTTACATGAGACCTCTCATATCGGTACC
* * **
43204949 AACGCCATGTCCCAGACATGGTCTTACATGGGACCTCTCATAACCTCAATAATGCC
1 AATGCCATGTCCCAGACATGGTCTTACATGAGACCTCTCAT-A--TCGGT-A--CC
43205005 AATGCCATGTCCCAGACATGGTCTTACATG
1 AATGCCATGTCCCAGACATGGTCTTACATG
43205035 GGATCTCATC
Statistics
Matches: 108, Mismatches: 22, Indels: 6
0.79 0.16 0.04
Matches are distributed among these distances:
50 73 0.68
53 3 0.03
54 1 0.01
56 31 0.29
ACGTcount: A:0.25, C:0.29, G:0.19, T:0.26
Consensus pattern (50 bp):
AATGCCATGTCCCAGACATGGTCTTACATGAGACCTCTCATATCGGTACC
Found at i:43209105 original size:16 final size:16
Alignment explanation
Indices: 43209084--43209114 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
43209074 ATCAGGTTGA
*
43209084 GAAAATTATTTAATTG
1 GAAAATTAATTAATTG
43209100 GAAAATTAATTAATT
1 GAAAATTAATTAATT
43209115 AATTAATTAC
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
16 14 1.00
ACGTcount: A:0.48, C:0.00, G:0.10, T:0.42
Consensus pattern (16 bp):
GAAAATTAATTAATTG
Found at i:43209808 original size:8 final size:8
Alignment explanation
Indices: 43209795--43209823 Score: 58
Period size: 8 Copynumber: 3.6 Consensus size: 8
43209785 TTTTAAATGA
43209795 TATTTTAT
1 TATTTTAT
43209803 TATTTTAT
1 TATTTTAT
43209811 TATTTTAT
1 TATTTTAT
43209819 TATTT
1 TATTT
43209824 AGTACATATA
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
8 21 1.00
ACGTcount: A:0.24, C:0.00, G:0.00, T:0.76
Consensus pattern (8 bp):
TATTTTAT
Found at i:43212130 original size:217 final size:217
Alignment explanation
Indices: 43211755--43212407 Score: 1261
Period size: 217 Copynumber: 3.0 Consensus size: 217
43211745 GGCTAAATAC
43211755 ACATTAAGTTTTAAACAACTTTGAGATATTATTATTCTGCCCGAAAATAGTGAGAATTTACTATT
1 ACATTAAGTTTTAAACAACTTTGAGATATTATTATTCTGCCCGAAAATAGTGAGAATTTACTATT
43211820 AAGTATGAATTATATTTTTTGGAATAACAATTCTATCAGTTTCTATTAAAGAGAGATTTTTGTTT
66 AAGTATGAATTATATTTTTTGGAATAACAATTCTATCAGTTTCTATTAAAGAGAGATTTTTGTTT
43211885 TCCTACTGAAAGTAAATTAAATAATTTATTTTTTTTGTTTGATTCTAATTCGTTCAAGCCCACGC
131 TCCTACTGAAAGTAAATTAAATAATTTATTTTTTTTGTTTGATTCTAATTCGTTCAAGCCCACGC
43211950 TCAAAGCAGTTTGTGGTACGAG
196 TCAAAGCAGTTTGTGGTACGAG
43211972 ACATTAAGTTTTAAACAACTTTGAGATATTATTATTCTGCCCGAAAATAGTGAGAATTTACTATT
1 ACATTAAGTTTTAAACAACTTTGAGATATTATTATTCTGCCCGAAAATAGTGAGAATTTACTATT
43212037 AAGTATGAATTATATTTTTTGGAATAACAATTCTATCAGTTTCTATTAAAGAGAGATTTTTGTTT
66 AAGTATGAATTATATTTTTTGGAATAACAATTCTATCAGTTTCTATTAAAGAGAGATTTTTGTTT
* *
43212102 TCCTACTGAAAGTAAATTAAATAATTTATTTTTTATGTTTGATTCTAATTCGTTCAAGCCCACGA
131 TCCTACTGAAAGTAAATTAAATAATTTATTTTTTTTGTTTGATTCTAATTCGTTCAAGCCCACGC
43212167 TCAAAGCAGTTTGTGGTACGAG
196 TCAAAGCAGTTTGTGGTACGAG
43212189 ACATTAAGTTTTAAACAACTTTGAGATATTATTATTCTGCCCGAAAATAGTGAGAATTTACTATT
1 ACATTAAGTTTTAAACAACTTTGAGATATTATTATTCTGCCCGAAAATAGTGAGAATTTACTATT
43212254 AAGTATGAATTATATTTTTTGGAATAACAATTCTATCAGTTTCTATTAAAGAGAGATTTTTGTTT
66 AAGTATGAATTATATTTTTTGGAATAACAATTCTATCAGTTTCTATTAAAGAGAGATTTTTGTTT
* *
43212319 TCCCACTGAAAGTAAATTAAATAATTTATTTTTTTGTGTTTGATTCTAATTCGTTCAAGCCCACA
131 TCCTACTGAAAGTAAATTAAATAATTTATTTTTTT-TGTTTGATTCTAATTCGTTCAAGCCCACG
43212384 CTCAAAGCAGTTTGTGGTACGAG
195 CTCAAAGCAGTTTGTGGTACGAG
43212407 A
1 A
43212408 ATAGTGGAGA
Statistics
Matches: 429, Mismatches: 6, Indels: 1
0.98 0.01 0.00
Matches are distributed among these distances:
217 378 0.88
218 51 0.12
ACGTcount: A:0.33, C:0.12, G:0.14, T:0.41
Consensus pattern (217 bp):
ACATTAAGTTTTAAACAACTTTGAGATATTATTATTCTGCCCGAAAATAGTGAGAATTTACTATT
AAGTATGAATTATATTTTTTGGAATAACAATTCTATCAGTTTCTATTAAAGAGAGATTTTTGTTT
TCCTACTGAAAGTAAATTAAATAATTTATTTTTTTTGTTTGATTCTAATTCGTTCAAGCCCACGC
TCAAAGCAGTTTGTGGTACGAG
Found at i:43215673 original size:16 final size:15
Alignment explanation
Indices: 43215637--43215676 Score: 62
Period size: 15 Copynumber: 2.6 Consensus size: 15
43215627 AAACTTTTAA
43215637 AAATTATAAAAATAT
1 AAATTATAAAAATAT
*
43215652 AAATTATTAAAATAT
1 AAATTATAAAAATAT
43215667 AACATTATAA
1 AA-ATTATAA
43215677 TTTTACTATC
Statistics
Matches: 22, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
15 16 0.73
16 6 0.27
ACGTcount: A:0.62, C:0.03, G:0.00, T:0.35
Consensus pattern (15 bp):
AAATTATAAAAATAT
Found at i:43215769 original size:32 final size:32
Alignment explanation
Indices: 43215724--43215787 Score: 101
Period size: 32 Copynumber: 2.0 Consensus size: 32
43215714 TCCCTCCTAA
* * *
43215724 AAACTTTTTTCACTTCTCCCGTGGTGAAACAT
1 AAACTTTTGTCACTTCTCCCCTGATGAAACAT
43215756 AAACTTTTGTCACTTCTCCCCTGATGAAACAT
1 AAACTTTTGTCACTTCTCCCCTGATGAAACAT
43215788 GCTTTGGGCT
Statistics
Matches: 29, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
32 29 1.00
ACGTcount: A:0.27, C:0.27, G:0.11, T:0.36
Consensus pattern (32 bp):
AAACTTTTGTCACTTCTCCCCTGATGAAACAT
Found at i:43220928 original size:14 final size:13
Alignment explanation
Indices: 43220899--43220932 Score: 50
Period size: 14 Copynumber: 2.5 Consensus size: 13
43220889 GTATTTAATA
43220899 TTTAATTTGTACT
1 TTTAATTTGTACT
*
43220912 TTTAATATTGTATT
1 TTTAAT-TTGTACT
43220926 TTTAATT
1 TTTAATT
43220933 GCTTTGTGAA
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
13 7 0.37
14 12 0.63
ACGTcount: A:0.26, C:0.03, G:0.06, T:0.65
Consensus pattern (13 bp):
TTTAATTTGTACT
Found at i:43223626 original size:14 final size:14
Alignment explanation
Indices: 43223607--43223638 Score: 64
Period size: 14 Copynumber: 2.3 Consensus size: 14
43223597 TCCAATTACC
43223607 GGGCCAGTTTGGTT
1 GGGCCAGTTTGGTT
43223621 GGGCCAGTTTGGTT
1 GGGCCAGTTTGGTT
43223635 GGGC
1 GGGC
43223639 TAAATGACCT
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 18 1.00
ACGTcount: A:0.06, C:0.16, G:0.47, T:0.31
Consensus pattern (14 bp):
GGGCCAGTTTGGTT
Found at i:43228755 original size:14 final size:14
Alignment explanation
Indices: 43228736--43228767 Score: 64
Period size: 14 Copynumber: 2.3 Consensus size: 14
43228726 TCCAATTACC
43228736 GGGCCAGTTTGGTT
1 GGGCCAGTTTGGTT
43228750 GGGCCAGTTTGGTT
1 GGGCCAGTTTGGTT
43228764 GGGC
1 GGGC
43228768 TAAATGACCT
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 18 1.00
ACGTcount: A:0.06, C:0.16, G:0.47, T:0.31
Consensus pattern (14 bp):
GGGCCAGTTTGGTT
Found at i:43239823 original size:24 final size:24
Alignment explanation
Indices: 43239763--43239841 Score: 88
Period size: 25 Copynumber: 3.2 Consensus size: 24
43239753 TGTACATGTC
*
43239763 TGCTCATACGAGCTGT-GAATCGATA
1 TGCTCACACGAGCTGTAG-ATCG-TA
*
43239788 TGCTCACTCGAGCTGTAGATCGTA
1 TGCTCACACGAGCTGTAGATCGTA
* *
43239812 TGCTCTCACGAGCTGTAAATCGGTA
1 TGCTCACACGAGCTGTAGATC-GTA
43239837 TGCTC
1 TGCTC
43239842 GCATGAGTTG
Statistics
Matches: 47, Mismatches: 5, Indels: 4
0.84 0.09 0.07
Matches are distributed among these distances:
24 20 0.43
25 26 0.55
26 1 0.02
ACGTcount: A:0.23, C:0.24, G:0.24, T:0.29
Consensus pattern (24 bp):
TGCTCACACGAGCTGTAGATCGTA
Found at i:43241758 original size:29 final size:29
Alignment explanation
Indices: 43241724--43241952 Score: 191
Period size: 29 Copynumber: 8.0 Consensus size: 29
43241714 TCAGCTATCG
43241724 ATTATGAAAAGGGATAGTGACGACCATCA
1 ATTATGAAAAGGGATAGTGACGACCATCA
* ** *
43241753 ACTATGAAAAGAAATGGTGACGACCATCAA
1 ATTATGAAAAGGGATAGTGACGACCATC-A
43241783 ATTATG-AAA---ATAGTGACGACCATCA
1 ATTATGAAAAGGGATAGTGACGACCATCA
* * * * *
43241808 ACTATGAAAAGAGATGGTGATGACCATTGA
1 ATTATGAAAAGGGATAGTGACGACCA-TCA
* ** * * *
43241838 ATTATGAAAAGGGATAACT-TTGGCTATCG
1 ATTATGAAAAGGGAT-AGTGACGACCATCA
* * *
43241867 ATTATGAAAAGGGATAGCT-TCGACTATCG
1 ATTATGAAAAGGGATAG-TGACGACCATCA
*
43241896 ATTATGAAAAGGGATAGTGATGACCATCA
1 ATTATGAAAAGGGATAGTGACGACCATCA
* *
43241925 ACTATGAAAAGGGATGGTGACGACCATC
1 ATTATGAAAAGGGATAGTGACGACCATC
43241953 GTGATTACAC
Statistics
Matches: 162, Mismatches: 29, Indels: 18
0.78 0.14 0.09
Matches are distributed among these distances:
25 6 0.04
26 17 0.10
28 2 0.01
29 111 0.69
30 25 0.15
31 1 0.01
ACGTcount: A:0.40, C:0.14, G:0.24, T:0.23
Consensus pattern (29 bp):
ATTATGAAAAGGGATAGTGACGACCATCA
Found at i:43241800 original size:26 final size:25
Alignment explanation
Indices: 43241737--43241817 Score: 99
Period size: 26 Copynumber: 3.0 Consensus size: 25
43241727 ATGAAAAGGG
43241737 ATAGTGACGACCATCAACTATGAAAAGAA
1 ATAGTGACGACCATCAACTATG---A-AA
* *
43241766 ATGGTGACGACCATCAAATTATGAAA
1 ATAGTGACGACCATC-AACTATGAAA
43241792 ATAGTGACGACCATCAACTATGAAA
1 ATAGTGACGACCATCAACTATGAAA
43241817 A
1 A
43241818 GAGATGGTGA
Statistics
Matches: 47, Mismatches: 4, Indels: 6
0.82 0.07 0.11
Matches are distributed among these distances:
25 10 0.21
26 16 0.34
27 1 0.02
29 14 0.30
30 6 0.13
ACGTcount: A:0.46, C:0.17, G:0.17, T:0.20
Consensus pattern (25 bp):
ATAGTGACGACCATCAACTATGAAA
Found at i:43241801 original size:55 final size:55
Alignment explanation
Indices: 43241737--43241847 Score: 186
Period size: 55 Copynumber: 2.0 Consensus size: 55
43241727 ATGAAAAGGG
43241737 ATAGTGACGACCATCAACTATGAAAAGAAATGGTGACGACCATCAAATTATGAAA
1 ATAGTGACGACCATCAACTATGAAAAGAAATGGTGACGACCATCAAATTATGAAA
* * **
43241792 ATAGTGACGACCATCAACTATGAAAAGAGATGGTGATGACCATTGAATTATGAAA
1 ATAGTGACGACCATCAACTATGAAAAGAAATGGTGACGACCATCAAATTATGAAA
43241847 A
1 A
43241848 GGGATAACTT
Statistics
Matches: 52, Mismatches: 4, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
55 52 1.00
ACGTcount: A:0.44, C:0.14, G:0.20, T:0.22
Consensus pattern (55 bp):
ATAGTGACGACCATCAACTATGAAAAGAAATGGTGACGACCATCAAATTATGAAA
Found at i:43245825 original size:20 final size:20
Alignment explanation
Indices: 43245797--43245840 Score: 70
Period size: 20 Copynumber: 2.2 Consensus size: 20
43245787 ATTGAAGAAT
*
43245797 ATGTGATATTGAGTTATGAA
1 ATGTAATATTGAGTTATGAA
*
43245817 ATGTAATATTGGGTTATGAA
1 ATGTAATATTGAGTTATGAA
43245837 ATGT
1 ATGT
43245841 GATTTTATGG
Statistics
Matches: 22, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
20 22 1.00
ACGTcount: A:0.34, C:0.00, G:0.25, T:0.41
Consensus pattern (20 bp):
ATGTAATATTGAGTTATGAA
Found at i:43245960 original size:34 final size:34
Alignment explanation
Indices: 43245916--43246032 Score: 117
Period size: 34 Copynumber: 3.4 Consensus size: 34
43245906 TTTTGTCAGT
*
43245916 TTATCTGACTAATGTTGGGCACAACTACCGTCGG
1 TTATCTGACTAGTGTTGGGCACAACTACCGTCGG
* *** * * *
43245950 TTATCCGACTAGCACTGGGCACAACTTCTGTCAG
1 TTATCTGACTAGTGTTGGGCACAACTACCGTCGG
* * *
43245984 TTCATCTGACTAGTGTTGGGCACAACCATCGTCGA
1 TT-ATCTGACTAGTGTTGGGCACAACTACCGTCGG
*
43246019 TTATCTAACTAGTG
1 TTATCTGACTAGTG
43246033 CTCGGCATAA
Statistics
Matches: 63, Mismatches: 19, Indels: 2
0.75 0.23 0.02
Matches are distributed among these distances:
34 39 0.62
35 24 0.38
ACGTcount: A:0.24, C:0.25, G:0.21, T:0.30
Consensus pattern (34 bp):
TTATCTGACTAGTGTTGGGCACAACTACCGTCGG
Found at i:43245982 original size:69 final size:69
Alignment explanation
Indices: 43245909--43246059 Score: 194
Period size: 69 Copynumber: 2.2 Consensus size: 69
43245899 GCGCAATTTT
* * * *
43245909 TGTCAGTTTATCTGACTAATGTTGGGCACAACTACCGTCGGTTATCCGACTAGCACTGGGCACAA
1 TGTCAGTTTATCTGACTAATGTTGGGCACAACCACCGTCGATTATCCAACTAGCACTCGGCACAA
43245974 CTTC
66 CTTC
* * * * ** *
43245978 TGTCAGTTCATCTGACTAGTGTTGGGCACAACCATCGTCGATTATCTAACTAGTGCTCGGCATAA
1 TGTCAGTTTATCTGACTAATGTTGGGCACAACCACCGTCGATTATCCAACTAGCACTCGGCACAA
43246043 CTTC
66 CTTC
*
43246047 TGTTAGTTTATCT
1 TGTCAGTTTATCT
43246060 AATTATTTCT
Statistics
Matches: 69, Mismatches: 13, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
69 69 1.00
ACGTcount: A:0.23, C:0.24, G:0.21, T:0.33
Consensus pattern (69 bp):
TGTCAGTTTATCTGACTAATGTTGGGCACAACCACCGTCGATTATCCAACTAGCACTCGGCACAA
CTTC
Found at i:43246004 original size:35 final size:35
Alignment explanation
Indices: 43245879--43246009 Score: 120
Period size: 35 Copynumber: 3.8 Consensus size: 35
43245869 AATATTGTTG
* * * *
43245879 GTTCATCCAACTAGCGTTGGGCGCAATTTTTGTCA
1 GTTCATCCGACTAGCGTTGGGCACAACTTCTGTCA
* * ** * * *
43245914 GTTTATCTGACTAATGTTGGGCACAACTACCGTCG
1 GTTCATCCGACTAGCGTTGGGCACAACTTCTGTCA
**
43245949 GTT-ATCCGACTAGCACTGGGCACAACTTCTGTCA
1 GTTCATCCGACTAGCGTTGGGCACAACTTCTGTCA
* *
43245983 GTTCATCTGACTAGTGTTGGGCACAAC
1 GTTCATCCGACTAGCGTTGGGCACAAC
43246010 CATCGTCGAT
Statistics
Matches: 72, Mismatches: 23, Indels: 2
0.74 0.24 0.02
Matches are distributed among these distances:
34 26 0.36
35 46 0.64
ACGTcount: A:0.22, C:0.24, G:0.23, T:0.31
Consensus pattern (35 bp):
GTTCATCCGACTAGCGTTGGGCACAACTTCTGTCA
Found at i:43257340 original size:50 final size:50
Alignment explanation
Indices: 43257278--43257662 Score: 313
Period size: 50 Copynumber: 7.7 Consensus size: 50
43257268 GTTACGATTA
* * ** * *
43257278 AAAAGATTGAAGCCACAACAGCAAATCTTACTTCCCTGGTAGTGCAGTGG
1 AAAAGATTGAAGCTACAACGGTGAATCTTACTTCCCTGGCAGTGCAATGG
** * * * **
43257328 AGCAGATTGAAGCTACAACGGTGAATCTTGCTTTCCC-GACATTGCAATTA
1 AAAAGATTGAAGCTACAACGGTGAATCTTAC-TTCCCTGGCAGTGCAATGG
* *
43257378 AAAAGATTGAAGCTACAACGGTGAATCTTACTTCCCTGGCGGTGCACTGG
1 AAAAGATTGAAGCTACAACGGTGAATCTTACTTCCCTGGCAGTGCAATGG
** * * * * * * **
43257428 AGTAGATTAAAGCTACAACGGCGAATCTTGCTTCCCCGACATTGCAATTA
1 AAAAGATTGAAGCTACAACGGTGAATCTTACTTCCCTGGCAGTGCAATGG
* * * * * *
43257478 AAAAGATTGAAGCCACAACAGCGAATCTTACTTCCATGGCGGTGCAGTGG
1 AAAAGATTGAAGCTACAACGGTGAATCTTACTTCCCTGGCAGTGCAATGG
* * * * * * * * **
43257528 AATAGATTGAAACTACAACGTTAAATCTTGCTTCCCTGACATTGTAATTA
1 AAAAGATTGAAGCTACAACGGTGAATCTTACTTCCCTGGCAGTGCAATGG
* * * *
43257578 AAAAGATTGAAGCCACAGCGGTGAATCTTACTTCCCTGGTAGTGCAGTGG
1 AAAAGATTGAAGCTACAACGGTGAATCTTACTTCCCTGGCAGTGCAATGG
** * *
43257628 AGCAGATTAAAGCTACAACGGTGAATCTTGCTTCC
1 AAAAGATTGAAGCTACAACGGTGAATCTTACTTCC
43257663 TCGACATTGA
Statistics
Matches: 249, Mismatches: 84, Indels: 4
0.74 0.25 0.01
Matches are distributed among these distances:
49 5 0.02
50 239 0.96
51 5 0.02
ACGTcount: A:0.31, C:0.22, G:0.22, T:0.25
Consensus pattern (50 bp):
AAAAGATTGAAGCTACAACGGTGAATCTTACTTCCCTGGCAGTGCAATGG
Found at i:43257637 original size:200 final size:200
Alignment explanation
Indices: 43257274--43257684 Score: 635
Period size: 200 Copynumber: 2.1 Consensus size: 200
43257264 GGAGGTTACG
* * *
43257274 ATTAAAAAGATTGAAGCCACAACAGCAAATCTTACTTCCCTGGTAGTGCAGTGGAGCAGATTGAA
1 ATTAAAAAGATTGAAGCCACAACAGCAAATCTTACTTCCATGGCAGTGCAGTGGAACAGATTGAA
* * *
43257339 GCTACAACGGTGAATCTTGCTTTCCCGACATTGCAATTAAAAAGATTGAAGCTACAACGGTGAAT
66 ACTACAACGGTAAATCTTGCTTTCCCGACATTGCAATTAAAAAGATTGAAGCCACAACGGTGAAT
* *
43257404 CTTACTTCCCTGGCGGTGCACTGGAGTAGATTAAAGCTACAACGGCGAATCTTGCTTCCCCGACA
131 CTTACTTCCCTGGCAGTGCACTGGAGCAGATTAAAGCTACAACGGCGAATCTTGCTTCCCCGACA
*
43257469 TTGCA
196 TTGAA
* * *
43257474 ATTAAAAAGATTGAAGCCACAACAGCGAATCTTACTTCCATGGCGGTGCAGTGGAATAGATTGAA
1 ATTAAAAAGATTGAAGCCACAACAGCAAATCTTACTTCCATGGCAGTGCAGTGGAACAGATTGAA
* * *
43257539 ACTACAACGTTAAATCTTGC-TTCCCTGACATTGTAATTAAAAAGATTGAAGCCACAGCGGTGAA
66 ACTACAACGGTAAATCTTGCTTTCCC-GACATTGCAATTAAAAAGATTGAAGCCACAACGGTGAA
* * * *
43257603 TCTTACTTCCCTGGTAGTGCAGTGGAGCAGATTAAAGCTACAACGGTGAATCTTGCTTCCTCGAC
130 TCTTACTTCCCTGGCAGTGCACTGGAGCAGATTAAAGCTACAACGGCGAATCTTGCTTCCCCGAC
43257668 ATTGAA
195 ATTGAA
43257674 ATTAAAAAGAT
1 ATTAAAAAGAT
43257685 CAAAGTCATC
Statistics
Matches: 191, Mismatches: 19, Indels: 2
0.90 0.09 0.01
Matches are distributed among these distances:
199 5 0.03
200 186 0.97
ACGTcount: A:0.33, C:0.21, G:0.21, T:0.26
Consensus pattern (200 bp):
ATTAAAAAGATTGAAGCCACAACAGCAAATCTTACTTCCATGGCAGTGCAGTGGAACAGATTGAA
ACTACAACGGTAAATCTTGCTTTCCCGACATTGCAATTAAAAAGATTGAAGCCACAACGGTGAAT
CTTACTTCCCTGGCAGTGCACTGGAGCAGATTAAAGCTACAACGGCGAATCTTGCTTCCCCGACA
TTGAA
Found at i:43257707 original size:100 final size:99
Alignment explanation
Indices: 43257274--43257684 Score: 572
Period size: 100 Copynumber: 4.1 Consensus size: 99
43257264 GGAGGTTACG
* * * *
43257274 ATTAAAAAGATTGAAGCCACAACAGCAAATCTTACTTCCCTGGTAGTGCAGTGGAGCAGATTGAA
1 ATTAAAAAGATTGAAGCCACAACGGCGAATCTTACTTCCCTGGCAGTGCAGTGGAGCAGATTAAA
43257339 GCTACAACGGTGAATCTTGCTTTCCCGACATTGCA
66 GCTACAACGGTGAATCTTGC-TTCCCGACATTGCA
* * * * *
43257374 ATTAAAAAGATTGAAGCTACAACGGTGAATCTTACTTCCCTGGCGGTGCACTGGAGTAGATTAAA
1 ATTAAAAAGATTGAAGCCACAACGGCGAATCTTACTTCCCTGGCAGTGCAGTGGAGCAGATTAAA
*
43257439 GCTACAACGGCGAATCTTGCTTCCCCGACATTGCA
66 GCTACAACGGTGAATCTTGCTT-CCCGACATTGCA
* * * **
43257474 ATTAAAAAGATTGAAGCCACAACAGCGAATCTTACTTCCATGGCGGTGCAGTGGAATAGATTGAA
1 ATTAAAAAGATTGAAGCCACAACGGCGAATCTTACTTCCCTGGCAGTGCAGTGGAGCAGATT-AA
* * *
43257539 A-CTACAACGTTAAATCTTGCTTCCCTGACATTGTA
65 AGCTACAACGGTGAATCTTGCTTCCC-GACATTGCA
* * *
43257574 ATTAAAAAGATTGAAGCCACAGCGGTGAATCTTACTTCCCTGGTAGTGCAGTGGAGCAGATTAAA
1 ATTAAAAAGATTGAAGCCACAACGGCGAATCTTACTTCCCTGGCAGTGCAGTGGAGCAGATTAAA
*
43257639 GCTACAACGGTGAATCTTGCTTCCTCGACATTGAA
66 GCTACAACGGTGAATCTTGCTTCC-CGACATTGCA
43257674 ATTAAAAAGAT
1 ATTAAAAAGAT
43257685 CAAAGTCATC
Statistics
Matches: 275, Mismatches: 31, Indels: 10
0.87 0.10 0.03
Matches are distributed among these distances:
99 8 0.03
100 263 0.96
101 4 0.01
ACGTcount: A:0.33, C:0.21, G:0.21, T:0.26
Consensus pattern (99 bp):
ATTAAAAAGATTGAAGCCACAACGGCGAATCTTACTTCCCTGGCAGTGCAGTGGAGCAGATTAAA
GCTACAACGGTGAATCTTGCTTCCCGACATTGCA
Found at i:43257729 original size:100 final size:99
Alignment explanation
Indices: 43257274--43257742 Score: 534
Period size: 100 Copynumber: 4.7 Consensus size: 99
43257264 GGAGGTTACG
* * * * *
43257274 ATTAAAAAGATTGAAGCCACAACAGCAAATCTTACTTCCCTGGTA-GTGCAGTGGAGCAGATTGA
1 ATTAAAAAGATTGAAGCCACAACGGCGAATCTTACTTCCTTGG-AGGTGCAGTGGAGTAGATTAA
43257338 AGCTACAACGGTGAATCTTGCTTTCCCGACATTGCA
65 AGCTACAACGGTGAATCTTGC-TTCCCGACATTGCA
* * * * *
43257374 ATTAAAAAGATTGAAGCTACAACGGTGAATCTTACTTCCCTGGCGGTGCACTGGAGTAGATTAAA
1 ATTAAAAAGATTGAAGCCACAACGGCGAATCTTACTTCCTTGGAGGTGCAGTGGAGTAGATTAAA
*
43257439 GCTACAACGGCGAATCTTGCTTCCCCGACATTGCA
66 GCTACAACGGTGAATCTTGCTT-CCCGACATTGCA
* * * *
43257474 ATTAAAAAGATTGAAGCCACAACAGCGAATCTTACTTCCATGGCGGTGCAGTGGAATAGATTGAA
1 ATTAAAAAGATTGAAGCCACAACGGCGAATCTTACTTCCTTGGAGGTGCAGTGGAGTAGATT-AA
* * *
43257539 A-CTACAACGTTAAATCTTGCTTCCCTGACATTGTA
65 AGCTACAACGGTGAATCTTGCTTCCC-GACATTGCA
* * * *
43257574 ATTAAAAAGATTGAAGCCACAGCGGTGAATCTTACTTCCCTGGTA-GTGCAGTGGAGCAGATTAA
1 ATTAAAAAGATTGAAGCCACAACGGCGAATCTTACTTCCTTGG-AGGTGCAGTGGAGTAGATTAA
*
43257638 AGCTACAACGGTGAATCTTGCTTCCTCGACATTGAA
65 AGCTACAACGGTGAATCTTGCTTCC-CGACATTGCA
** * * * * * * *
43257674 ATTAAAAAGATCAAAGTCATC-ATGGCGAATCTTA-TCTCCTTGAAGTTACAATGGAGTAGATTG
1 ATTAAAAAGATTGAAGCCA-CAACGGCGAATCTTACT-TCCTTGGAGGTGCAGTGGAGTAGATTA
43257737 AAGCTA
64 AAGCTA
43257743 GTAATCCTAT
Statistics
Matches: 317, Mismatches: 42, Indels: 20
0.84 0.11 0.05
Matches are distributed among these distances:
99 10 0.03
100 302 0.95
101 5 0.02
ACGTcount: A:0.33, C:0.20, G:0.21, T:0.26
Consensus pattern (99 bp):
ATTAAAAAGATTGAAGCCACAACGGCGAATCTTACTTCCTTGGAGGTGCAGTGGAGTAGATTAAA
GCTACAACGGTGAATCTTGCTTCCCGACATTGCA
Found at i:43257870 original size:44 final size:44
Alignment explanation
Indices: 43257701--43258005 Score: 229
Period size: 44 Copynumber: 6.8 Consensus size: 44
43257691 CATCATGGCG
* * * * **
43257701 AATCTTATCTCCTTGAAGTTACAATGGAGTAGATTGAAGCTAGT
1 AATCTTATCTCCCTGAAGTTACAGTGGAGCAGATTGAAGATACC
* * * * * * *
43257745 AATCCTATCTCCCTGAAGTTGCAGTAGAGCGGATT-AAAACGACA
1 AATCTTATCTCCCTGAAGTTACAGTGGAGCAGATTGAAGA-TACC
* * * *
43257789 AACCTTATC-CCCTGAAGTTGCAGTGG-GACAGGTTGAAGATACT
1 AATCTTATCTCCCTGAAGTTACAGTGGAG-CAGATTGAAGATACC
* * *
43257832 AGTCTTATCTCCCTGAAGTTACATTGGAGCAGACTGAAGATAACC
1 AATCTTATCTCCCTGAAGTTACAGTGGAGCAGATTGAAGAT-ACC
* ** * *
43257877 AACCTTATCTCCCTGAAGTTGTAGTGCAGCAGGTTGAAGATACC
1 AATCTTATCTCCCTGAAGTTACAGTGGAGCAGATTGAAGATACC
* *
43257921 AATCTTATCTTCCTGAAGTTACAGCGGAGCAGATTGAAGCTATACATTGC
1 AATCTTATCTCCCTGAAGTTACAGTGGAGCAGATTGAAG--ATAC----C
* * *
43257971 AGATCTTATCTCTCTGAAGTTGCAGTAGAGCAGAT
1 A-ATCTTATCTCCCTGAAGTTACAGTGGAGCAGAT
43258006 CATGACAAAC
Statistics
Matches: 201, Mismatches: 47, Indels: 19
0.75 0.18 0.07
Matches are distributed among these distances:
42 1 0.00
43 31 0.15
44 99 0.49
45 36 0.18
46 4 0.02
50 2 0.01
51 28 0.14
ACGTcount: A:0.30, C:0.20, G:0.22, T:0.28
Consensus pattern (44 bp):
AATCTTATCTCCCTGAAGTTACAGTGGAGCAGATTGAAGATACC
Found at i:43257913 original size:89 final size:88
Alignment explanation
Indices: 43257789--43257959 Score: 245
Period size: 89 Copynumber: 1.9 Consensus size: 88
43257779 TAAAACGACA
* * *
43257789 AACCTTATCCCCTGAAGTTGCAGTGGGACAGGTTGAAGATACTAGTCTTATCTCCCTGAAGTTAC
1 AACCTTATCCCCTGAAGTTGCAGTGAGACAGGTTGAAGATACCAATCTTATCTCCCTGAAGTTAC
**
43257854 ATTGGAGCAGACTGAAGATAACC
66 AGCGGAGCAGACTGAAGATAACC
* *
43257877 AACCTTATCTCCCTGAAGTTGTAGTGCAG-CAGGTTGAAGATACCAATCTTATCTTCCTGAAGTT
1 AACCTTATC-CCCTGAAGTTGCAGTG-AGACAGGTTGAAGATACCAATCTTATCTCCCTGAAGTT
*
43257941 ACAGCGGAGCAGATTGAAG
64 ACAGCGGAGCAGACTGAAG
43257960 CTATACATTG
Statistics
Matches: 73, Mismatches: 8, Indels: 3
0.87 0.10 0.04
Matches are distributed among these distances:
88 9 0.12
89 63 0.86
90 1 0.01
ACGTcount: A:0.29, C:0.21, G:0.23, T:0.27
Consensus pattern (88 bp):
AACCTTATCCCCTGAAGTTGCAGTGAGACAGGTTGAAGATACCAATCTTATCTCCCTGAAGTTAC
AGCGGAGCAGACTGAAGATAACC
Found at i:43262204 original size:22 final size:21
Alignment explanation
Indices: 43262179--43262227 Score: 53
Period size: 21 Copynumber: 2.3 Consensus size: 21
43262169 GCTTTAATTT
43262179 TTAATTTTACAGGTTATAGGGA
1 TTAATTTTA-AGGTTATAGGGA
* * * *
43262201 TTAATGTTATGGTTTTAGGGT
1 TTAATTTTAAGGTTATAGGGA
43262222 TTAATT
1 TTAATT
43262228 ACTTATCTAA
Statistics
Matches: 22, Mismatches: 5, Indels: 1
0.79 0.18 0.04
Matches are distributed among these distances:
21 14 0.64
22 8 0.36
ACGTcount: A:0.27, C:0.02, G:0.22, T:0.49
Consensus pattern (21 bp):
TTAATTTTAAGGTTATAGGGA
Found at i:43262644 original size:29 final size:29
Alignment explanation
Indices: 43262590--43262649 Score: 77
Period size: 29 Copynumber: 2.1 Consensus size: 29
43262580 AAATAAAATT
* *
43262590 AATAATGTCATATTAATGTATCAATTTAA
1 AATAATGTCATATAAATGTATCAATTCAA
*
43262619 AATAATGTCATA-AAATTTATCAAATTCAA
1 AATAATGTCATATAAATGTATC-AATTCAA
43262648 AA
1 AA
43262650 ATCTATTAAA
Statistics
Matches: 27, Mismatches: 3, Indels: 2
0.84 0.09 0.06
Matches are distributed among these distances:
28 7 0.26
29 20 0.74
ACGTcount: A:0.50, C:0.08, G:0.05, T:0.37
Consensus pattern (29 bp):
AATAATGTCATATAAATGTATCAATTCAA
Found at i:43264441 original size:123 final size:121
Alignment explanation
Indices: 43264218--43264450 Score: 283
Period size: 123 Copynumber: 1.9 Consensus size: 121
43264208 ATTATATCTT
* *
43264218 AAATATTAAACTCTATATTATTAATATATTACATATATTAATATGAATATATAACCTATATTTCA
1 AAATATTAAACTCTATATTATTAATATATCACATATATTAATATGAATATATAACCTATATTTAA
* *
43264283 ATTTTATTAATAATAAAATTTTAAATTTTAAAAATAATTGTAAATGATATTTTATA
66 AATTTATTAATAATAAAATTTTAAATTTTAAAAATAATTATAAATGATATTTTATA
* ** *
43264339 AAATATTAAAAC-CTATATTTTTAATATATCACCCCATATA-TGGTATGGATATATAACCTATAT
1 AAATATT-AAACTCTATATTATTAATATATCA---CATATATTAATATGAATATATAACCTATAT
* * * **
43264402 TTAAAATTTATTAGT-ATTAAATTTATAAGTTTTCTAAATAATTATAAAT
62 TTAAAATTTATTAATAATAAAATTT-TAAATTTTAAAAATAATTATAAAT
43264451 AACATGCATA
Statistics
Matches: 94, Mismatches: 13, Indels: 8
0.82 0.11 0.07
Matches are distributed among these distances:
121 24 0.26
122 12 0.13
123 52 0.55
124 6 0.06
ACGTcount: A:0.45, C:0.07, G:0.04, T:0.44
Consensus pattern (121 bp):
AAATATTAAACTCTATATTATTAATATATCACATATATTAATATGAATATATAACCTATATTTAA
AATTTATTAATAATAAAATTTTAAATTTTAAAAATAATTATAAATGATATTTTATA
Found at i:43264571 original size:15 final size:15
Alignment explanation
Indices: 43264542--43264684 Score: 93
Period size: 15 Copynumber: 9.4 Consensus size: 15
43264532 TAATATTAAA
*
43264542 AATACATAT-GTTTT
1 AATATATATAGTTTT
43264556 AATATATATAGTTTT
1 AATATATATAGTTTT
43264571 AATATATATA-TATTT
1 AATATATATAGT-TTT
* * *
43264586 AAAATTTATA--TAT
1 AATATATATAGTTTT
* *
43264599 ATATATATTTTA-TATAT
1 A-ATATA-TATAGT-TTT
*
43264616 AATATATATTGTTTT
1 AATATATATAGTTTT
43264631 AATATCTATATAG-TTT
1 AATA--TATATAGTTTT
43264647 -ATATATTATAGTTTT
1 AATATA-TATAGTTTT
43264662 AAAATATATATAGTTTT
1 --AATATATATAGTTTT
43264679 AATATA
1 AATATA
43264685 CATAACCAAA
Statistics
Matches: 104, Mismatches: 11, Indels: 27
0.73 0.08 0.19
Matches are distributed among these distances:
13 5 0.05
14 17 0.16
15 49 0.47
16 9 0.09
17 19 0.18
18 5 0.05
ACGTcount: A:0.42, C:0.01, G:0.04, T:0.52
Consensus pattern (15 bp):
AATATATATAGTTTT
Found at i:43264579 original size:17 final size:17
Alignment explanation
Indices: 43264557--43264684 Score: 111
Period size: 17 Copynumber: 7.2 Consensus size: 17
43264547 ATATGTTTTA
43264557 ATATATATAGTTTTAAT
1 ATATATATAGTTTTAAT
*
43264574 ATATATATATTTAAAATTTATAT
1 ATATATATA-GT----TTTA-AT
43264597 ATATATATA-TTTTATAT
1 ATATATATAGTTTTA-AT
43264614 ATAATATATATTGTTTTAAT
1 AT-ATATATA--GTTTTAAT
*
43264634 ATCTATATAG-TTT-AT
1 ATATATATAGTTTTAAT
*
43264649 ATAT-TATAGTTTTAAA
1 ATATATATAGTTTTAAT
43264665 ATATATATAGTTTTAAT
1 ATATATATAGTTTTAAT
43264682 ATA
1 ATA
43264685 CATAACCAAA
Statistics
Matches: 93, Mismatches: 5, Indels: 26
0.75 0.04 0.21
Matches are distributed among these distances:
14 5 0.05
15 8 0.09
16 8 0.09
17 33 0.35
18 8 0.09
19 6 0.06
20 4 0.04
21 6 0.06
22 4 0.04
23 11 0.12
ACGTcount: A:0.42, C:0.01, G:0.04, T:0.53
Consensus pattern (17 bp):
ATATATATAGTTTTAAT
Found at i:43264670 original size:18 final size:17
Alignment explanation
Indices: 43264540--43264680 Score: 78
Period size: 17 Copynumber: 8.1 Consensus size: 17
43264530 ATTAATATTA
*
43264540 AAAATACATAT-GTTTT
1 AAAATATATATAGTTTT
43264556 --AATATATATAGTTTT
1 AAAATATATATAGTTTT
**
43264571 AATATATATATATTTAAAATTT
1 AA-A-ATATATA--T-AGTTTT
* *
43264593 ATATATATATATATTTTAT
1 A-AAATATATATAGTTT-T
*
43264612 ATATAATATATATTGTTTT
1 A-A-AATATATATAGTTTT
* *
43264631 AATATCTATATAG-TTT
1 AAAATATATATAGTTTT
*
43264647 -ATATAT-TATAGTTTT
1 AAAATATATATAGTTTT
43264662 AAAATATATATAGTTTT
1 AAAATATATATAGTTTT
43264679 AA
1 AA
43264681 TATACATAAC
Statistics
Matches: 97, Mismatches: 14, Indels: 27
0.70 0.10 0.20
Matches are distributed among these distances:
14 13 0.13
15 13 0.13
16 8 0.08
17 19 0.20
18 5 0.05
19 14 0.14
20 11 0.11
21 8 0.08
22 5 0.05
23 1 0.01
ACGTcount: A:0.43, C:0.01, G:0.04, T:0.52
Consensus pattern (17 bp):
AAAATATATATAGTTTT
Found at i:43264672 original size:31 final size:30
Alignment explanation
Indices: 43264617--43264684 Score: 86
Period size: 31 Copynumber: 2.3 Consensus size: 30
43264607 TTTATATATA
* * *
43264617 ATATATATTGTTTTAATATCTATATAGTTT
1 ATATATATAGTTTTAAAATATATATAGTTT
43264647 ATATATTATAGTTTTAAAATATATATAGTTT
1 ATATA-TATAGTTTTAAAATATATATAGTTT
43264678 -TA-ATATA
1 ATATATATA
43264685 CATAACCAAA
Statistics
Matches: 34, Mismatches: 3, Indels: 4
0.83 0.07 0.10
Matches are distributed among these distances:
28 4 0.12
29 1 0.03
30 7 0.21
31 22 0.65
ACGTcount: A:0.40, C:0.01, G:0.06, T:0.53
Consensus pattern (30 bp):
ATATATATAGTTTTAAAATATATATAGTTT
Found at i:43264768 original size:15 final size:15
Alignment explanation
Indices: 43264731--43264769 Score: 51
Period size: 15 Copynumber: 2.6 Consensus size: 15
43264721 TAATAATATT
*
43264731 AATATACATTTTTAA
1 AATATATATTTTTAA
*
43264746 TATATATATTTTTAA
1 AATATATATTTTTAA
*
43264761 AATTTATAT
1 AATATATAT
43264770 ATTATTTCAA
Statistics
Matches: 20, Mismatches: 4, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
15 20 1.00
ACGTcount: A:0.44, C:0.03, G:0.00, T:0.54
Consensus pattern (15 bp):
AATATATATTTTTAA
Found at i:43264768 original size:19 final size:19
Alignment explanation
Indices: 43264748--43264786 Score: 64
Period size: 19 Copynumber: 2.2 Consensus size: 19
43264738 ATTTTTAATA
43264748 TATATATT-TTT-AAAATT
1 TATATATTATTTCAAAATT
43264765 TATATATTATTTCAAAATT
1 TATATATTATTTCAAAATT
43264784 TAT
1 TAT
43264787 CAATCATATC
Statistics
Matches: 20, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
17 8 0.40
18 3 0.15
19 9 0.45
ACGTcount: A:0.41, C:0.03, G:0.00, T:0.56
Consensus pattern (19 bp):
TATATATTATTTCAAAATT
Found at i:43264820 original size:34 final size:36
Alignment explanation
Indices: 43264779--43264847 Score: 115
Period size: 34 Copynumber: 2.0 Consensus size: 36
43264769 TATTATTTCA
43264779 AAATTTATCAATCATATCATAACTTA-A-ATAACTC
1 AAATTTATCAATCATATCATAACTTATACATAACTC
*
43264813 AAATTTATCAATCATATGATAACTTATACATAACT
1 AAATTTATCAATCATATCATAACTTATACATAACT
43264848 TACATAATAA
Statistics
Matches: 32, Mismatches: 1, Indels: 2
0.91 0.03 0.06
Matches are distributed among these distances:
34 25 0.78
35 1 0.03
36 6 0.19
ACGTcount: A:0.46, C:0.16, G:0.01, T:0.36
Consensus pattern (36 bp):
AAATTTATCAATCATATCATAACTTATACATAACTC
Found at i:43264859 original size:12 final size:12
Alignment explanation
Indices: 43264842--43264866 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
43264832 TAACTTATAC
43264842 ATAACTTACATA
1 ATAACTTACATA
43264854 ATAACTTACATA
1 ATAACTTACATA
43264866 A
1 A
43264867 CTTATATAGA
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 13 1.00
ACGTcount: A:0.52, C:0.16, G:0.00, T:0.32
Consensus pattern (12 bp):
ATAACTTACATA
Found at i:43264865 original size:21 final size:21
Alignment explanation
Indices: 43264839--43264928 Score: 73
Period size: 21 Copynumber: 4.3 Consensus size: 21
43264829 TGATAACTTA
43264839 TACATAACTTACATAATAACT
1 TACATAACTTACATAATAACT
*
43264860 TACATAACTTATATAGA-AACTT
1 TACATAACTTACATA-ATAAC-T
* *
43264882 ATATATAAACTTGC---ATAACT
1 -TACAT-AACTTACATAATAACT
*
43264902 TACATAA-TAACATAATAACT
1 TACATAACTTACATAATAACT
43264922 TACATAA
1 TACATAA
43264929 TACATAGCCT
Statistics
Matches: 54, Mismatches: 7, Indels: 17
0.69 0.09 0.22
Matches are distributed among these distances:
17 2 0.04
18 2 0.04
19 4 0.07
20 15 0.28
21 20 0.37
22 2 0.04
23 4 0.07
24 5 0.09
ACGTcount: A:0.49, C:0.16, G:0.02, T:0.33
Consensus pattern (21 bp):
TACATAACTTACATAATAACT
Found at i:43264982 original size:9 final size:9
Alignment explanation
Indices: 43264970--43265081 Score: 101
Period size: 9 Copynumber: 13.1 Consensus size: 9
43264960 ATAATACACC
43264970 ACTTACATA
1 ACTTACATA
43264979 ACTTACATA
1 ACTTACATA
43264988 ACTTACATA
1 ACTTACATA
*
43264997 GCTTACAT-
1 ACTTACATA
* *
43265005 TC-TACACA
1 ACTTACATA
43265013 ACTTACATA
1 ACTTACATA
*
43265022 ACATACATA
1 ACTTACATA
*
43265031 A--TACAGA
1 ACTTACATA
43265038 ACTTACATA
1 ACTTACATA
**
43265047 AAATAC--A
1 ACTTACATA
43265054 ACTTACATA
1 ACTTACATA
*
43265063 TCTTACATA
1 ACTTACATA
*
43265072 TCTTACATA
1 ACTTACATA
43265081 A
1 A
43265082 TTTATTTGAG
Statistics
Matches: 83, Mismatches: 14, Indels: 12
0.76 0.13 0.11
Matches are distributed among these distances:
7 15 0.18
8 2 0.02
9 66 0.80
ACGTcount: A:0.45, C:0.22, G:0.02, T:0.31
Consensus pattern (9 bp):
ACTTACATA
Found at i:43265341 original size:95 final size:94
Alignment explanation
Indices: 43265098--43265370 Score: 289
Period size: 95 Copynumber: 2.9 Consensus size: 94
43265088 TGAGTTTCTA
** *
43265098 CTTAAAAACCCTAAACACTAAACCCTAATCTAATTTTTTTAAAAATTTATAATTAATTTACTCAA
1 CTTAAAAATACTAAACACTAAA-CCTAATCTAA--TTTTAAAAAATTTATAATTAATTTACTCAA
* * *
43265163 GTAACCCTGAACTCTAATTTATTTAATTTTTT
63 GTAACCCTAAACCCTAATTTAATTAATTTTTT
* * * * *
43265195 CTTAAAAATACTTAACTCTAAACCTTAATCTGATTTTAAAAAAAATT-TAATTAAATTACTCAAG
1 CTTAAAAATACTAAACACTAAACC-TAATCTAATTTT-AAAAAATTTATAATTAATTTACTCAAG
*
43265259 TAACCCTAAACCCTAATTTAATTGATTTTTT
64 TAACCCTAAACCCTAATTTAATTAATTTTTT
* * * * ** *
43265290 CTTAAAAA-ACAATAAACACGAAACCTAATCCAATTTTGAAAAATTTATAATTAATTTAATTGAC
1 CTTAAAAATAC--TAAACACTAAACCTAATCTAATTTTAAAAAATTTATAATTAATTTACTCAAG
*
43265354 AAACCCTAAACCCTAAT
64 TAACCCTAAACCCTAAT
43265371 CCTTTATTTA
Statistics
Matches: 146, Mismatches: 25, Indels: 12
0.80 0.14 0.07
Matches are distributed among these distances:
94 9 0.06
95 93 0.64
96 19 0.13
97 25 0.17
ACGTcount: A:0.43, C:0.17, G:0.03, T:0.37
Consensus pattern (94 bp):
CTTAAAAATACTAAACACTAAACCTAATCTAATTTTAAAAAATTTATAATTAATTTACTCAAGTA
ACCCTAAACCCTAATTTAATTAATTTTTT
Found at i:43265459 original size:33 final size:35
Alignment explanation
Indices: 43265398--43265462 Score: 107
Period size: 33 Copynumber: 1.9 Consensus size: 35
43265388 TTTTCTCTAA
43265398 AACCCTAAACCTAAAAACACCAAAACCCTAACCTT
1 AACCCTAAACCTAAAAACACCAAAACCCTAACCTT
*
43265433 AACCCTAAACC-AATAAC-CCAAAACCCTAAC
1 AACCCTAAACCTAAAAACACCAAAACCCTAAC
43265463 TGCAGGACAC
Statistics
Matches: 29, Mismatches: 1, Indels: 2
0.91 0.03 0.06
Matches are distributed among these distances:
33 13 0.45
34 5 0.17
35 11 0.38
ACGTcount: A:0.49, C:0.38, G:0.00, T:0.12
Consensus pattern (35 bp):
AACCCTAAACCTAAAAACACCAAAACCCTAACCTT
Found at i:43265836 original size:14 final size:14
Alignment explanation
Indices: 43265817--43265843 Score: 54
Period size: 14 Copynumber: 1.9 Consensus size: 14
43265807 TTAGGGAAAC
43265817 TAATATTTTAATAT
1 TAATATTTTAATAT
43265831 TAATATTTTAATA
1 TAATATTTTAATA
43265844 ATTTAATTAT
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 13 1.00
ACGTcount: A:0.44, C:0.00, G:0.00, T:0.56
Consensus pattern (14 bp):
TAATATTTTAATAT
Found at i:43265848 original size:22 final size:22
Alignment explanation
Indices: 43265817--43265876 Score: 74
Period size: 22 Copynumber: 2.9 Consensus size: 22
43265807 TTAGGGAAAC
*
43265817 TAATATTTTAA-TATTAATATTT
1 TAATAATTTAATTATT-ATATTT
43265839 TAATAATTTAATTATTATATTT
1 TAATAATTTAATTATTATATTT
43265861 T-ATAATTT--TTATTATA
1 TAATAATTTAATTATTATA
43265877 AAAAATTAGA
Statistics
Matches: 36, Mismatches: 1, Indels: 5
0.86 0.02 0.12
Matches are distributed among these distances:
19 8 0.22
21 7 0.19
22 17 0.47
23 4 0.11
ACGTcount: A:0.40, C:0.00, G:0.00, T:0.60
Consensus pattern (22 bp):
TAATAATTTAATTATTATATTT
Found at i:43267673 original size:31 final size:31
Alignment explanation
Indices: 43267580--43267658 Score: 115
Period size: 31 Copynumber: 2.6 Consensus size: 31
43267570 TGTCATCAAG
** *
43267580 TACAGGGTAT-AATATGTATGTGTGAATGAT
1 TACAGGGTATGAATATGTAAATATGAATGAT
43267610 TACAGGGTATGAATATGTAAATATGAATGAT
1 TACAGGGTATGAATATGTAAATATGAATGAT
*
43267641 TACATGGTATGAATATGT
1 TACAGGGTATGAATATGT
43267659 TGATATTTAT
Statistics
Matches: 44, Mismatches: 4, Indels: 1
0.90 0.08 0.02
Matches are distributed among these distances:
30 10 0.23
31 34 0.77
ACGTcount: A:0.37, C:0.04, G:0.24, T:0.35
Consensus pattern (31 bp):
TACAGGGTATGAATATGTAAATATGAATGAT
Found at i:43272335 original size:14 final size:14
Alignment explanation
Indices: 43272312--43272376 Score: 71
Period size: 14 Copynumber: 4.6 Consensus size: 14
43272302 TAAATAAATG
*
43272312 ATAAATTAAGTAAA
1 ATAAAGTAAGTAAA
43272326 ATAAAGTAAGT-AA
1 ATAAAGTAAGTAAA
*
43272339 AT-TAGTAAGTAAA
1 ATAAAGTAAGTAAA
*
43272352 TGATAAATTAAGTAAA
1 --ATAAAGTAAGTAAA
43272368 ATAAAGTAA
1 ATAAAGTAA
43272377 ATGTATCATC
Statistics
Matches: 42, Mismatches: 5, Indels: 8
0.76 0.09 0.15
Matches are distributed among these distances:
12 7 0.17
13 6 0.14
14 18 0.43
15 2 0.05
16 9 0.21
ACGTcount: A:0.60, C:0.00, G:0.12, T:0.28
Consensus pattern (14 bp):
ATAAAGTAAGTAAA
Found at i:43272343 original size:42 final size:42
Alignment explanation
Indices: 43272291--43272376 Score: 163
Period size: 42 Copynumber: 2.0 Consensus size: 42
43272281 AAGGTTATAA
43272291 AAGTAAATTAGTAAATAAATGATAAATTAAGTAAAATAAAGT
1 AAGTAAATTAGTAAATAAATGATAAATTAAGTAAAATAAAGT
*
43272333 AAGTAAATTAGTAAGTAAATGATAAATTAAGTAAAATAAAGT
1 AAGTAAATTAGTAAATAAATGATAAATTAAGTAAAATAAAGT
43272375 AA
1 AA
43272377 ATGTATCATC
Statistics
Matches: 43, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
42 43 1.00
ACGTcount: A:0.59, C:0.00, G:0.13, T:0.28
Consensus pattern (42 bp):
AAGTAAATTAGTAAATAAATGATAAATTAAGTAAAATAAAGT
Found at i:43272440 original size:12 final size:12
Alignment explanation
Indices: 43272425--43272452 Score: 56
Period size: 12 Copynumber: 2.3 Consensus size: 12
43272415 AATGGAAAGA
43272425 AAGCCATTGAAG
1 AAGCCATTGAAG
43272437 AAGCCATTGAAG
1 AAGCCATTGAAG
43272449 AAGC
1 AAGC
43272453 TAGGGTTCGA
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 16 1.00
ACGTcount: A:0.43, C:0.18, G:0.25, T:0.14
Consensus pattern (12 bp):
AAGCCATTGAAG
Found at i:43286864 original size:32 final size:31
Alignment explanation
Indices: 43286821--43286882 Score: 97
Period size: 32 Copynumber: 2.0 Consensus size: 31
43286811 TTGTGTATGC
43286821 TTGTGTGCTAGATATCAATCTTTCCCTAANGT
1 TTGTGTGCTAGATATCAATCTTTCCCTAA-GT
* *
43286853 TTGTGTTCTAGATATCAATTTTTCCCTAAG
1 TTGTGTGCTAGATATCAATCTTTCCCTAAG
43286883 GATTCACATT
Statistics
Matches: 28, Mismatches: 2, Indels: 1
0.90 0.06 0.03
Matches are distributed among these distances:
31 1 0.04
32 27 0.96
ACGTcount: A:0.23, C:0.18, G:0.15, T:0.44
Consensus pattern (31 bp):
TTGTGTGCTAGATATCAATCTTTCCCTAAGT
Found at i:43287827 original size:19 final size:20
Alignment explanation
Indices: 43287803--43287849 Score: 60
Period size: 19 Copynumber: 2.4 Consensus size: 20
43287793 ATACCAACTG
*
43287803 AAAAATATCGATAT-TTTAT
1 AAAAATATCGATATCTGTAT
* *
43287822 AAAAATATTGATATCTGTGT
1 AAAAATATCGATATCTGTAT
43287842 AAAAATAT
1 AAAAATAT
43287850 TGATGCCACA
Statistics
Matches: 24, Mismatches: 3, Indels: 1
0.86 0.11 0.04
Matches are distributed among these distances:
19 13 0.54
20 11 0.46
ACGTcount: A:0.49, C:0.04, G:0.09, T:0.38
Consensus pattern (20 bp):
AAAAATATCGATATCTGTAT
Found at i:43287844 original size:20 final size:19
Alignment explanation
Indices: 43287803--43287853 Score: 66
Period size: 20 Copynumber: 2.6 Consensus size: 19
43287793 ATACCAACTG
* *
43287803 AAAAATATCGATATTTTAT
1 AAAAATATTGATATTGTAT
*
43287822 AAAAATATTGATATCTGTGT
1 AAAAATATTGATAT-TGTAT
43287842 AAAAATATTGAT
1 AAAAATATTGAT
43287854 GCCACAAGGC
Statistics
Matches: 28, Mismatches: 3, Indels: 1
0.88 0.09 0.03
Matches are distributed among these distances:
19 13 0.46
20 15 0.54
ACGTcount: A:0.47, C:0.04, G:0.10, T:0.39
Consensus pattern (19 bp):
AAAAATATTGATATTGTAT
Found at i:43291977 original size:5 final size:5
Alignment explanation
Indices: 43291969--43291993 Score: 50
Period size: 5 Copynumber: 5.0 Consensus size: 5
43291959 ATTTAATTTA
43291969 ATATT ATATT ATATT ATATT ATATT
1 ATATT ATATT ATATT ATATT ATATT
43291994 GTTAGTTTTT
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 20 1.00
ACGTcount: A:0.40, C:0.00, G:0.00, T:0.60
Consensus pattern (5 bp):
ATATT
Found at i:43292519 original size:21 final size:19
Alignment explanation
Indices: 43292487--43292526 Score: 62
Period size: 20 Copynumber: 2.0 Consensus size: 19
43292477 ACTTTTTTTT
43292487 ATCACTTAAAAAAATATTAA
1 ATCACTT-AAAAAATATTAA
43292507 ATCACTGTAAAAAATATTAA
1 ATCACT-TAAAAAATATTAA
43292527 GGATTAAAGT
Statistics
Matches: 19, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
20 18 0.95
21 1 0.05
ACGTcount: A:0.57, C:0.10, G:0.03, T:0.30
Consensus pattern (19 bp):
ATCACTTAAAAAATATTAA
Found at i:43292936 original size:44 final size:44
Alignment explanation
Indices: 43292869--43292957 Score: 169
Period size: 44 Copynumber: 2.0 Consensus size: 44
43292859 AGTAAAGAAA
43292869 ATCATTACAAATAATTAAATTAATTGTTTGTTCTTCGTTTGGGT
1 ATCATTACAAATAATTAAATTAATTGTTTGTTCTTCGTTTGGGT
*
43292913 ATCATTACAAATAATTAATTTAATTGTTTGTTCTTCGTTTGGGT
1 ATCATTACAAATAATTAAATTAATTGTTTGTTCTTCGTTTGGGT
43292957 A
1 A
43292958 AAGATGTAAT
Statistics
Matches: 44, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
44 44 1.00
ACGTcount: A:0.29, C:0.09, G:0.13, T:0.48
Consensus pattern (44 bp):
ATCATTACAAATAATTAAATTAATTGTTTGTTCTTCGTTTGGGT
Found at i:43294385 original size:42 final size:42
Alignment explanation
Indices: 43294306--43294385 Score: 115
Period size: 42 Copynumber: 1.9 Consensus size: 42
43294296 GTGCTCGGGC
* * * *
43294306 GTGTGTTTCATCCACACGATCATGTATCTCCATCACACAAGT
1 GTGTGTTTCAGCCACACGACCATGTATCTCAACCACACAAGT
*
43294348 GTGTGTTTCAGCCACACGACCTTGTATCTCAACCACAC
1 GTGTGTTTCAGCCACACGACCATGTATCTCAACCACAC
43294386 GGGCATGTGT
Statistics
Matches: 33, Mismatches: 5, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
42 33 1.00
ACGTcount: A:0.25, C:0.31, G:0.15, T:0.29
Consensus pattern (42 bp):
GTGTGTTTCAGCCACACGACCATGTATCTCAACCACACAAGT
Found at i:43294395 original size:42 final size:42
Alignment explanation
Indices: 43294301--43294406 Score: 113
Period size: 42 Copynumber: 2.5 Consensus size: 42
43294291 CGGTCGTGCT
* * * *
43294301 CGGGCGTGTGTTTCATCCACACGATCATGTATCTCCATCACA
1 CGGGCGTGTGTTTCAGCCACACGACCATGTATCTCAACCACA
** * *
43294343 CAAGTGTGTGTTTCAGCCACACGACCTTGTATCTCAACCACA
1 CGGGCGTGTGTTTCAGCCACACGACCATGTATCTCAACCACA
* * *
43294385 CGGGCATGTGTTTTAGTCACAC
1 CGGGCGTGTGTTTCAGCCACAC
43294407 AGTCGTCACT
Statistics
Matches: 50, Mismatches: 14, Indels: 0
0.78 0.22 0.00
Matches are distributed among these distances:
42 50 1.00
ACGTcount: A:0.23, C:0.29, G:0.20, T:0.28
Consensus pattern (42 bp):
CGGGCGTGTGTTTCAGCCACACGACCATGTATCTCAACCACA
Found at i:43295087 original size:15 final size:15
Alignment explanation
Indices: 43295067--43295097 Score: 62
Period size: 15 Copynumber: 2.1 Consensus size: 15
43295057 TTTGAGTGAC
43295067 TTAGATCCACTATCA
1 TTAGATCCACTATCA
43295082 TTAGATCCACTATCA
1 TTAGATCCACTATCA
43295097 T
1 T
43295098 GGTGTGTAGG
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 16 1.00
ACGTcount: A:0.32, C:0.26, G:0.06, T:0.35
Consensus pattern (15 bp):
TTAGATCCACTATCA
Found at i:43297506 original size:38 final size:39
Alignment explanation
Indices: 43297436--43297513 Score: 106
Period size: 38 Copynumber: 2.0 Consensus size: 39
43297426 TTTTAAAATC
* * *
43297436 ATTAACTCTTTTTTTCTTTTTGGTTACATGAACCTATTA
1 ATTAACTCTTTTTTTCTGTGTGGTTACATGAACCAATTA
43297475 ATTAACTCTTTGTTTT-TGTGT-GTTACATGAACCAATTA
1 ATTAACTCTTT-TTTTCTGTGTGGTTACATGAACCAATTA
43297513 A
1 A
43297514 CTTTGATTCA
Statistics
Matches: 35, Mismatches: 3, Indels: 3
0.85 0.07 0.07
Matches are distributed among these distances:
38 17 0.49
39 14 0.40
40 4 0.11
ACGTcount: A:0.26, C:0.14, G:0.10, T:0.50
Consensus pattern (39 bp):
ATTAACTCTTTTTTTCTGTGTGGTTACATGAACCAATTA
Found at i:43297640 original size:27 final size:26
Alignment explanation
Indices: 43297592--43297654 Score: 85
Period size: 26 Copynumber: 2.4 Consensus size: 26
43297582 AAATATTCTC
43297592 TAAATTAAT-AAATATTATTTTATCGA
1 TAAATTAATAAAATATTATTTTATC-A
43297618 TAAATTAATAAAATATTCA-TTTATCA
1 TAAATTAATAAAATATT-ATTTTATCA
*
43297644 TAAACTAATAA
1 TAAATTAATAA
43297655 CCTCGATAAA
Statistics
Matches: 34, Mismatches: 1, Indels: 4
0.87 0.03 0.10
Matches are distributed among these distances:
26 20 0.59
27 13 0.38
28 1 0.03
ACGTcount: A:0.51, C:0.06, G:0.02, T:0.41
Consensus pattern (26 bp):
TAAATTAATAAAATATTATTTTATCA
Found at i:43300112 original size:124 final size:124
Alignment explanation
Indices: 43299906--43300137 Score: 342
Period size: 124 Copynumber: 1.9 Consensus size: 124
43299896 AAGAAATAAA
43299906 TTTTTTTGACCTTTCTGAGCAAATAGTATAAAATCACTTCTAGCAGGATGCTATTTGAGAAGAAA
1 TTTTTTTGACCTTTCTGAGCAAATAGTATAAAATCACTTCTAGCAGGATGCTATTTGAGAAGAAA
* * * *
43299971 TTTTGAAATTCTAGCCCTCGTGGACGCGCTCTTGCTATAGTAGGTCATGGATGAAATAT
66 TTTTGAAAATCCAGCCCTCGGGGACGCGCTCTTGCTACAGTAGGTCATGGATGAAATAT
* * *
43300030 TTTTTTTGACGC-TTCTGAGCAAATAGTATAAATTCGCTTCTAGCATGATGCTATTTGAGAAG-A
1 TTTTTTTGAC-CTTTCTGAGCAAATAGTATAAAATCACTTCTAGCAGGATGCTATTTGAGAAGAA
* * *
43300093 ATTTGTGAAAATCCCGCCCTTGGGGACGCGCTTTTGCTACAGTAG
65 ATTT-TGAAAATCCAGCCCTCGGGGACGCGCTCTTGCTACAGTAG
43300138 CTTGTTTGAG
Statistics
Matches: 96, Mismatches: 10, Indels: 4
0.87 0.09 0.04
Matches are distributed among these distances:
123 5 0.05
124 90 0.94
125 1 0.01
ACGTcount: A:0.27, C:0.17, G:0.21, T:0.34
Consensus pattern (124 bp):
TTTTTTTGACCTTTCTGAGCAAATAGTATAAAATCACTTCTAGCAGGATGCTATTTGAGAAGAAA
TTTTGAAAATCCAGCCCTCGGGGACGCGCTCTTGCTACAGTAGGTCATGGATGAAATAT
Found at i:43302535 original size:23 final size:23
Alignment explanation
Indices: 43302505--43302772 Score: 410
Period size: 23 Copynumber: 11.7 Consensus size: 23
43302495 TTAAGTTTAG
*
43302505 GGTTAGGGTTTTCAACTTAATTA
1 GGTTTGGGTTTTCAACTTAATTA
*
43302528 GGTTAGGGTTTTCAACTTAATTA
1 GGTTTGGGTTTTCAACTTAATTA
*
43302551 GGTTTGGGTTTTCAACTTAAATA
1 GGTTTGGGTTTTCAACTTAATTA
* *
43302574 GGTTTGGGTTTTTAATTTAATTA
1 GGTTTGGGTTTTCAACTTAATTA
*
43302597 GGTTAGGGTTTTCAACTTAATTA
1 GGTTTGGGTTTTCAACTTAATTA
*
43302620 GGTTTGGGTTTTCAACTTAAATA
1 GGTTTGGGTTTTCAACTTAATTA
* *
43302643 GGTTTGGGTTTTTAATTTAATTA
1 GGTTTGGGTTTTCAACTTAATTA
*
43302666 GGTTAGGGTTTTCAACTTAATTA
1 GGTTTGGGTTTTCAACTTAATTA
*
43302689 GGTTTGGGTTTTCAACTTAAATA
1 GGTTTGGGTTTTCAACTTAATTA
* *
43302712 GGTTTGGGTTTTTAATTTAATTA
1 GGTTTGGGTTTTCAACTTAATTA
*
43302735 GGTTAGGGTTTTCAACTTAATTA
1 GGTTTGGGTTTTCAACTTAATTA
43302758 GGTTTGGGTTTTCAA
1 GGTTTGGGTTTTCAA
43302773 TTTTTATCAC
Statistics
Matches: 220, Mismatches: 25, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
23 220 1.00
ACGTcount: A:0.24, C:0.06, G:0.22, T:0.47
Consensus pattern (23 bp):
GGTTTGGGTTTTCAACTTAATTA
Found at i:43302560 original size:29 final size:28
Alignment explanation
Indices: 43302498--43302560 Score: 73
Period size: 23 Copynumber: 2.4 Consensus size: 28
43302488 AGGGTTTTTA
43302498 AGTTTAGGGTTAGGGTTTTCAACTTAATT
1 AGTTT-GGGTTAGGGTTTTCAACTTAATT
43302527 A-----GGTTAGGGTTTTCAACTTAATT
1 AGTTTGGGTTAGGGTTTTCAACTTAATT
43302550 AGGTTTGGGTT
1 A-GTTTGGGTT
43302561 TTCAACTTAA
Statistics
Matches: 28, Mismatches: 0, Indels: 12
0.70 0.00 0.30
Matches are distributed among these distances:
23 23 0.82
29 5 0.18
ACGTcount: A:0.22, C:0.06, G:0.27, T:0.44
Consensus pattern (28 bp):
AGTTTGGGTTAGGGTTTTCAACTTAATT
Found at i:43302594 original size:69 final size:69
Alignment explanation
Indices: 43302505--43302772 Score: 509
Period size: 69 Copynumber: 3.9 Consensus size: 69
43302495 TTAAGTTTAG
* * *
43302505 GGTTAGGGTTTTCAACTTAATTAGGTTAGGGTTTTCAACTTAATTAGGTTTGGGTTTTCAACTTA
1 GGTTTGGGTTTTTAATTTAATTAGGTTAGGGTTTTCAACTTAATTAGGTTTGGGTTTTCAACTTA
43302570 AATA
66 AATA
43302574 GGTTTGGGTTTTTAATTTAATTAGGTTAGGGTTTTCAACTTAATTAGGTTTGGGTTTTCAACTTA
1 GGTTTGGGTTTTTAATTTAATTAGGTTAGGGTTTTCAACTTAATTAGGTTTGGGTTTTCAACTTA
43302639 AATA
66 AATA
43302643 GGTTTGGGTTTTTAATTTAATTAGGTTAGGGTTTTCAACTTAATTAGGTTTGGGTTTTCAACTTA
1 GGTTTGGGTTTTTAATTTAATTAGGTTAGGGTTTTCAACTTAATTAGGTTTGGGTTTTCAACTTA
43302708 AATA
66 AATA
43302712 GGTTTGGGTTTTTAATTTAATTAGGTTAGGGTTTTCAACTTAATTAGGTTTGGGTTTTCAA
1 GGTTTGGGTTTTTAATTTAATTAGGTTAGGGTTTTCAACTTAATTAGGTTTGGGTTTTCAA
43302773 TTTTTATCAC
Statistics
Matches: 196, Mismatches: 3, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
69 196 1.00
ACGTcount: A:0.24, C:0.06, G:0.22, T:0.47
Consensus pattern (69 bp):
GGTTTGGGTTTTTAATTTAATTAGGTTAGGGTTTTCAACTTAATTAGGTTTGGGTTTTCAACTTA
AATA
Found at i:43302809 original size:25 final size:25
Alignment explanation
Indices: 43302774--43302962 Score: 203
Period size: 25 Copynumber: 7.7 Consensus size: 25
43302764 GGTTTTCAAT
*
43302774 TTTTATCACATCAAATAAACTTCTA
1 TTTTATTACATCAAATAAACTTCTA
*
43302799 TTTTATTACATCATATAAACTTCTA
1 TTTTATTACATCAAATAAACTTCTA
43302824 TTTTATTACATCAAATAAACTTCTA
1 TTTTATTACATCAAATAAACTTCTA
*
43302849 TTTTATTACATCAAAT-AA-TATCAA
1 TTTTATTACATCAAATAAACT-TCTA
** * * **
43302873 AATAATT-CA--AAA-AAATTTAAA
1 TTTTATTACATCAAATAAACTTCTA
43302894 TTTTTATTACATC-AATAAAACTTCTA
1 -TTTTATTACATCAAAT-AAACTTCTA
* *
43302920 TTTTATTACATTATATAAACTTCTA
1 TTTTATTACATCAAATAAACTTCTA
43302945 TTTTATTACATCAAATAA
1 TTTTATTACATCAAATAA
43302963 TATCAAAATA
Statistics
Matches: 136, Mismatches: 18, Indels: 20
0.78 0.10 0.11
Matches are distributed among these distances:
21 8 0.06
22 5 0.04
23 5 0.04
24 11 0.08
25 99 0.73
26 8 0.06
ACGTcount: A:0.43, C:0.14, G:0.00, T:0.43
Consensus pattern (25 bp):
TTTTATTACATCAAATAAACTTCTA
Found at i:43303038 original size:25 final size:25
Alignment explanation
Indices: 43302774--43303029 Score: 157
Period size: 25 Copynumber: 10.6 Consensus size: 25
43302764 GGTTTTCAAT
*
43302774 TTTTATCACATCAA-ATAAACTTCTA
1 TTTTATTACATCAATA-AAACTTCTA
43302799 TTTTATTACATC-ATATAAACTTCTA
1 TTTTATTACATCAATA-AAACTTCTA
43302824 TTTTATTACATCAA-ATAAACTTCTA
1 TTTTATTACATCAATA-AAACTTCTA
* *
43302849 TTTTATTACATCAA-ATAA-TATCAA
1 TTTTATTACATCAATAAAACT-TCTA
** * * **
43302873 AATAATT-CA--AA-AAAATTTAAA
1 TTTTATTACATCAATAAAACTTCTA
43302894 TTTTTATTACATCAATAAAACTTCTA
1 -TTTTATTACATCAATAAAACTTCTA
*
43302920 TTTTATTACAT-TATATAAACTTCTA
1 TTTTATTACATCAATA-AAACTTCTA
*
43302945 TTTTATTACATCAA-ATAA-TATC-A
1 TTTTATTACATCAATAAAACT-TCTA
** * * * **
43302968 --AAATAAC-TCAAAAAAATTTAAA
1 TTTTATTACATCAATAAAACTTCTA
*
43302990 TTTTTTTTACATCAATAAAACTTCTA
1 -TTTTATTACATCAATAAAACTTCTA
43303016 TTTTATTACATCAA
1 TTTTATTACATCAA
43303030 ACGAACTTCA
Statistics
Matches: 181, Mismatches: 31, Indels: 38
0.72 0.12 0.15
Matches are distributed among these distances:
20 4 0.02
21 16 0.09
22 7 0.04
23 7 0.04
24 17 0.09
25 110 0.61
26 20 0.11
ACGTcount: A:0.44, C:0.14, G:0.00, T:0.43
Consensus pattern (25 bp):
TTTTATTACATCAATAAAACTTCTA
Found at i:43303038 original size:96 final size:96
Alignment explanation
Indices: 43302799--43303030 Score: 412
Period size: 96 Copynumber: 2.4 Consensus size: 96
43302789 TAAACTTCTA
43302799 TTTTATTACATC-ATATAAACTTCTATTTTATTACATCAAATAAACTTCTATTTTATTACATCAA
1 TTTTATTACATCAATA-AAACTTCTATTTTATTACATCAAATAAACTTCTATTTTATTACATCAA
*
43302863 ATAATATCAAAATAATTCAAAAAAATTTAAAT
65 ATAATATCAAAATAACTCAAAAAAATTTAAAT
* *
43302895 TTTTATTACATCAATAAAACTTCTATTTTATTACATTATATAAACTTCTATTTTATTACATCAAA
1 TTTTATTACATCAATAAAACTTCTATTTTATTACATCAAATAAACTTCTATTTTATTACATCAAA
43302960 TAATATCAAAATAACTCAAAAAAATTTAAAT
66 TAATATCAAAATAACTCAAAAAAATTTAAAT
*
43302991 TTTTTTTACATCAATAAAACTTCTATTTTATTACATCAAA
1 TTTTATTACATCAATAAAACTTCTATTTTATTACATCAAA
43303031 CGAACTTCAA
Statistics
Matches: 129, Mismatches: 6, Indels: 2
0.94 0.04 0.01
Matches are distributed among these distances:
96 126 0.98
97 3 0.02
ACGTcount: A:0.44, C:0.13, G:0.00, T:0.43
Consensus pattern (96 bp):
TTTTATTACATCAATAAAACTTCTATTTTATTACATCAAATAAACTTCTATTTTATTACATCAAA
TAATATCAAAATAACTCAAAAAAATTTAAAT
Found at i:43303486 original size:18 final size:18
Alignment explanation
Indices: 43303463--43303502 Score: 71
Period size: 18 Copynumber: 2.2 Consensus size: 18
43303453 GACTCGGAAA
*
43303463 AGGATACATATAAGGGTT
1 AGGATACATATAAGGGAT
43303481 AGGATACATATAAGGGAT
1 AGGATACATATAAGGGAT
43303499 AGGA
1 AGGA
43303503 AACGCACCTG
Statistics
Matches: 21, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
18 21 1.00
ACGTcount: A:0.42, C:0.05, G:0.30, T:0.23
Consensus pattern (18 bp):
AGGATACATATAAGGGAT
Found at i:43305356 original size:51 final size:51
Alignment explanation
Indices: 43305297--43305407 Score: 170
Period size: 51 Copynumber: 2.2 Consensus size: 51
43305287 TATTTTAAAA
* *
43305297 AAGGAAATTGAGAGCAAATTGAAATTAAATATGGCTTTGA-GAGATTTTTGG
1 AAGGAAATTGAGAGCAAATTGAAATTAAATATGGATTT-ATGAGAATTTTGG
* *
43305348 AATGAAATTGAGAGGAAATTGAAATTAAATATGGATTTATGAGAATTTTGG
1 AAGGAAATTGAGAGCAAATTGAAATTAAATATGGATTTATGAGAATTTTGG
43305399 AAGGAAATT
1 AAGGAAATT
43305408 TTGGAAGGAA
Statistics
Matches: 54, Mismatches: 5, Indels: 2
0.89 0.08 0.03
Matches are distributed among these distances:
50 1 0.02
51 53 0.98
ACGTcount: A:0.42, C:0.02, G:0.24, T:0.32
Consensus pattern (51 bp):
AAGGAAATTGAGAGCAAATTGAAATTAAATATGGATTTATGAGAATTTTGG
Found at i:43305409 original size:13 final size:13
Alignment explanation
Indices: 43305391--43305420 Score: 60
Period size: 13 Copynumber: 2.3 Consensus size: 13
43305381 GATTTATGAG
43305391 AATTTTGGAAGGA
1 AATTTTGGAAGGA
43305404 AATTTTGGAAGGA
1 AATTTTGGAAGGA
43305417 AATT
1 AATT
43305421 GGGAGAAAAT
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 17 1.00
ACGTcount: A:0.40, C:0.00, G:0.27, T:0.33
Consensus pattern (13 bp):
AATTTTGGAAGGA
Done.