Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: A08
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: 123748673
ACGTcount: A:0.31, C:0.17, G:0.17, T:0.31
Warning! 5630000 characters in sequence are not A, C, G, or T
File 352 of 373
Found at i:116995087 original size:284 final size:296
Alignment explanation
Indices: 116994491--116995119 Score: 835
Period size: 303 Copynumber: 2.1 Consensus size: 296
116994481 AAAAATTGTA
* * *
116994491 TATTTAAAAAACACAGTAAATTAAAAAATTTCAAACATAATGTACTAAAATAATGTAAAATAATA
1 TATTTAAAAAACACACTAAATTAATAAATTTCAAACATAATGCACTAAAATAATGTAAAATAATA
* *
116994556 AAATTAGAAATATGATTTTTTTTAAGTAATAAAATGCAGAGAAAAAAATACGAACAAAGGTCGAA
66 AAATTAGAAATATGATATTTTTAAAGTAATAAAATGCA-AGAAAAAAATACGAACAAAGGTCGAA
*
116994621 GTAAGATTTTTTACTACATTTTTTAAAATTTAGAAATAATTAATACAAATATTTCAAACAAAATG
130 GTAAGATGTTTTACTA-A-----TAAAATTTAGAAATAATT-ATACAAATATTTCAAACAAAATG
* *
116994686 TACTGAAATAATATAACATATAAATAATAAAATATATATTGTTATTGAAAGTAATAAAATTCGGG
188 TACTGAAATAATATAACATATAAAAAATAAAAAATATATTGTTATTGAAAGTAATAAAATTCGGG
116994751 AAAATAATACGAGCAAATGGCAGGAATAAGGGTTTTTTAAAATT
253 AAAATAATACGAGCAAATGGCAGGAATAAGGGTTTTTTAAAATT
*
116994795 TATTTAAAAAACTCACTAAATTAATAAATTTC-AACATAATGCACTAAAATAATGTAAAATAATA
1 TATTTAAAAAACACACTAAATTAATAAATTTCAAACATAATGCACTAAAATAATGTAAAATAATA
* *
116994859 AAGTTAGAAATATGATATTTTTAAAGTAATAAAATGC-TG-AAAAAATACGAACAAATGG-CTGA
66 AAATTAGAAATATGATATTTTTAAAGTAATAAAATGCAAGAAAAAAATACGAACAAA-GGTC-GA
* * *
116994921 AGTAAGAGTGTTTTACT-A-AATATTT-TAAA-AA-T-T-CAGAATA-TT-ATACAAAATGTACT
129 AGTAAGA-TGTTTTACTAATAAAATTTAGAAATAATTATACA-AATATTTCAAACAAAATGTACT
116994977 GAAATAATATAA-A-ATAATAAAATACAAAAATATATT-TTATT-AAAGTAATAAAATTCGGGAA
192 GAAATAATATAACATATAA-AAAATA-AAAAATATATTGTTATTGAAAGTAATAAAATTCGGGAA
* *
116995038 AAT-ATACGAGCAAATGGCAGGAATAAGGTTTTTTTTAAATT
255 AATAATACGAGCAAATGGCAGGAATAAGGGTTTTTTAAAATT
* * *
116995079 TATTTAAAACACACACTAAATTAATACACTTCAAACATAAT
1 TATTTAAAAAACACACTAAATTAATAAATTTCAAACATAAT
116995120 ATATAAATAT
Statistics
Matches: 298, Mismatches: 20, Indels: 33
0.85 0.06 0.09
Matches are distributed among these distances:
284 64 0.21
285 35 0.12
286 11 0.04
287 35 0.12
288 4 0.01
289 5 0.02
291 1 0.00
292 2 0.01
293 3 0.01
294 6 0.02
300 18 0.06
301 12 0.04
302 8 0.03
303 65 0.22
304 29 0.10
ACGTcount: A:0.51, C:0.08, G:0.10, T:0.31
Consensus pattern (296 bp):
TATTTAAAAAACACACTAAATTAATAAATTTCAAACATAATGCACTAAAATAATGTAAAATAATA
AAATTAGAAATATGATATTTTTAAAGTAATAAAATGCAAGAAAAAAATACGAACAAAGGTCGAAG
TAAGATGTTTTACTAATAAAATTTAGAAATAATTATACAAATATTTCAAACAAAATGTACTGAAA
TAATATAACATATAAAAAATAAAAAATATATTGTTATTGAAAGTAATAAAATTCGGGAAAATAAT
ACGAGCAAATGGCAGGAATAAGGGTTTTTTAAAATT
Found at i:116995222 original size:285 final size:286
Alignment explanation
Indices: 116994491--116995224 Score: 760
Period size: 284 Copynumber: 2.5 Consensus size: 286
116994481 AAAAATTGTA
* * * * *
116994491 TATTTAAAAAACACAGTAAATTAAAAAATTTCAAACATAATGTACTAAAATAATGTAAAATAATA
1 TATTTAAAAAACACACTAAATTAATAAACTTC-AACATAAT-CACTAAAATAATATAAAATAATA
* * * *
116994556 AAATTAGAAATATGATTTTTTTTAAGTAATAAAATGCAGAGAAAAAAATACGAACAAA-GGTCGA
64 AAAATAGAAATATGATATTTTTAAAGTAATAAAATGC-G-G-AAAAAATACGAACAAATGGCCGA
* * * * *
116994620 AGTAAGA-TTTTTTACTACATTTTTTAAAATTTAGAAATAATTAATACA-AATATTTCAAACAAA
126 AATAAGAGTGTTTTACT--A------AATATTT-TAAA-AA-T--T-CAGAATA-TT-ATACAAA
* *
116994683 ATGTACTGAAATAATATAACATATAAATAATAAAATATATATTGTTATTGAAAGTAATAAAATTC
175 ATGTACTGAAATAATATAACATATAAAAAATAAAAAATATATTGTTATTGAAAGTAATAAAATTC
116994748 GGGAAAATAATACGAGCAAATGGCAGGAATAAGGGTTTTTTAAAATT
240 GGGAAAATAATACGAGCAAATGGCAGGAATAAGGGTTTTTTAAAATT
* * *
116994795 TATTTAAAAAACTCACTAAATTAATAAATTTCAACATAATGCACTAAAATAATGTAAAATAATAA
1 TATTTAAAAAACACACTAAATTAATAAACTTCAACATAAT-CACTAAAATAATATAAAATAATAA
** * * *
116994860 AGTTAGAAATATGATATTTTTAAAGTAATAAAATGCTGAAAAAATACGAACAAATGGCTGAAGTA
65 AAATAGAAATATGATATTTTTAAAGTAATAAAATGCGGAAAAAATACGAACAAATGGCCGAAATA
116994925 AGAGTGTTTTACTAAATATTTTAAAAATTCAGAATATTATACAAAATGTACTGAAATAATATAA-
130 AGAGTGTTTTACTAAATATTTTAAAAATTCAGAATATTATACAAAATGTACTGAAATAATATAAC
116994989 A-ATAATAAAATACAAAAATATATT-TTATT-AAAGTAATAAAATTCGGGAAAAT-ATACGAGCA
195 ATATAA-AAAATA-AAAAATATATTGTTATTGAAAGTAATAAAATTCGGGAAAATAATACGAGCA
* *
116995050 AATGGCAGGAATAAGGTTTTTTTTAAATT
258 AATGGCAGGAATAAGGGTTTTTTAAAATT
* *
116995079 TATTTAAAACACACACTAAATTAATACACTTCAAACATAAT-A-TATAAAT-ATATAAAATAA-A
1 TATTTAAAAAACACACTAAATTAATAAACTTC-AACATAATCACTA-AAATAATATAAAATAATA
* * * * * *
116995140 AAAAT-GAAAGTAATTTATTTTTATTGAAAGTAATATAATTCGGGAAAATAGTATGAACAAATGG
64 AAAATAGAAA-T-A-TGATATTT-TT-AAAGTAATAAAATGC-GGAAAA-AATACGAACAAATGG
116995204 CCGAAATAAG-GT-TTTTACTAA
122 CCGAAATAAGAGTGTTTTACTAA
116995225 TTTTTTTGAA
Statistics
Matches: 382, Mismatches: 34, Indels: 47
0.83 0.07 0.10
Matches are distributed among these distances:
280 4 0.01
281 5 0.01
282 13 0.03
283 11 0.03
284 66 0.17
285 57 0.15
286 18 0.05
287 56 0.15
288 4 0.01
289 5 0.01
291 1 0.00
292 2 0.01
293 3 0.01
294 6 0.02
300 17 0.04
301 12 0.03
302 8 0.02
303 65 0.17
304 29 0.08
ACGTcount: A:0.51, C:0.07, G:0.11, T:0.32
Consensus pattern (286 bp):
TATTTAAAAAACACACTAAATTAATAAACTTCAACATAATCACTAAAATAATATAAAATAATAAA
AATAGAAATATGATATTTTTAAAGTAATAAAATGCGGAAAAAATACGAACAAATGGCCGAAATAA
GAGTGTTTTACTAAATATTTTAAAAATTCAGAATATTATACAAAATGTACTGAAATAATATAACA
TATAAAAAATAAAAAATATATTGTTATTGAAAGTAATAAAATTCGGGAAAATAATACGAGCAAAT
GGCAGGAATAAGGGTTTTTTAAAATT
Found at i:116997758 original size:10 final size:10
Alignment explanation
Indices: 116997740--116997853 Score: 52
Period size: 9 Copynumber: 12.2 Consensus size: 10
116997730 GGGAGAGAAT
*
116997740 GAGAGGAAAA
1 GAGAAGAAAA
116997750 GAGAAG-AAA
1 GAGAAGAAAA
116997759 GA-AAG-AAA
1 GAGAAGAAAA
*
116997767 GA-AAAAGAAA
1 GAGAAGA-AAA
* *
116997777 GAAAAGGAAAT
1 GAGAA-GAAAA
*
116997788 GAG-AGGAAA
1 GAGAAGAAAA
116997797 GA-AAGAAAA
1 GAGAAGAAAA
*
116997806 -AGAAGGAAA
1 GAGAAGAAAA
*
116997815 GA-AAGGAAA
1 GAGAAGAAAA
116997824 G-GAAGAAAA
1 GAGAAGAAAA
116997833 -AGAAAGAAAA
1 GAG-AAGAAAA
*
116997843 -AGAAGGAAA
1 GAGAAGAAAA
116997852 GA
1 GA
116997854 AAAGGAACGG
Statistics
Matches: 82, Mismatches: 11, Indels: 22
0.71 0.10 0.19
Matches are distributed among these distances:
8 11 0.13
9 42 0.51
10 22 0.27
11 6 0.07
12 1 0.01
ACGTcount: A:0.68, C:0.00, G:0.31, T:0.01
Consensus pattern (10 bp):
GAGAAGAAAA
Found at i:116997762 original size:4 final size:4
Alignment explanation
Indices: 116997747--116997855 Score: 72
Period size: 4 Copynumber: 27.8 Consensus size: 4
116997737 AATGAGAGGA
*
116997747 AAAG AGAAG AAAG AAAG AAAG -AA- AAAG AAAG AAAAGG AAATG AGAGG
1 AAAG A-AAG AAAG AAAG AAAG AAAG AAAG AAAG -AAA-G AAA-G A-AAG
* *
116997794 AAAG AAAG -AA- AAAG AAGG AAAG AAAGG AAAG GAAG -AA- AAAG AAAG
1 AAAG AAAG AAAG AAAG AAAG AAAG AAA-G AAAG AAAG AAAG AAAG AAAG
*
116997839 -AA- AAAG AAGG AAAG AAA
1 AAAG AAAG AAAG AAAG AAA
116997856 AGGAACGGAG
Statistics
Matches: 84, Mismatches: 8, Indels: 26
0.71 0.07 0.22
Matches are distributed among these distances:
3 16 0.19
4 48 0.57
5 18 0.21
6 2 0.02
ACGTcount: A:0.71, C:0.00, G:0.28, T:0.01
Consensus pattern (4 bp):
AAAG
Found at i:116997773 original size:14 final size:14
Alignment explanation
Indices: 116997751--116997855 Score: 88
Period size: 14 Copynumber: 7.1 Consensus size: 14
116997741 AGAGGAAAAG
116997751 AGAAGAAAGAAAGAA
1 AGAA-AAAGAAAGAA
116997766 AGAAAAAGAAAGAAA
1 AGAAAAAGAAAG-AA
116997781 AGGAAATGAGAGGAAAGAA
1 A-GAAA--A-A-GAAAGAA
*
116997800 AGAAAAAGAAGGAA
1 AGAAAAAGAAAGAA
* *
116997814 AG-AAAGGAAAGGA
1 AGAAAAAGAAAGAA
116997827 AGAAAAAGAAAGAA
1 AGAAAAAGAAAGAA
*
116997841 A-AAGAAGGAAAGAA
1 AGAA-AAAGAAAGAA
116997855 A
1 A
116997856 AGGAACGGAG
Statistics
Matches: 75, Mismatches: 7, Indels: 17
0.76 0.07 0.17
Matches are distributed among these distances:
13 12 0.16
14 36 0.48
15 8 0.11
16 5 0.07
18 5 0.07
19 4 0.05
20 5 0.07
ACGTcount: A:0.70, C:0.00, G:0.29, T:0.01
Consensus pattern (14 bp):
AGAAAAAGAAAGAA
Found at i:116997835 original size:37 final size:37
Alignment explanation
Indices: 116997743--116997860 Score: 150
Period size: 38 Copynumber: 3.1 Consensus size: 37
116997733 AGAGAATGAG
*
116997743 AGGAAAAGAGAAGAAAGAAAGAAAGAA-AAAGAAAGAAA
1 AGGAAAAGAGAA-AAAGAAAGAAA-AAGAAGGAAAGAAA
* *
116997781 AGGAAATGAGAGGAAAGAAAGAAAAAGAAGGAAAG-AA
1 AGGAAAAGAGA-AAAAGAAAGAAAAAGAAGGAAAGAAA
*
116997818 AGGAAAGGAAGAAAAAGAAAGAAAAAGAAGGAAAGAAA
1 AGGAAAAG-AGAAAAAGAAAGAAAAAGAAGGAAAGAAA
116997856 AGGAA
1 AGGAA
116997861 CGGAGATTGT
Statistics
Matches: 71, Mismatches: 5, Indels: 8
0.85 0.06 0.10
Matches are distributed among these distances:
37 33 0.46
38 38 0.54
ACGTcount: A:0.69, C:0.00, G:0.30, T:0.01
Consensus pattern (37 bp):
AGGAAAAGAGAAAAAGAAAGAAAAAGAAGGAAAGAAA
Found at i:116997858 original size:10 final size:10
Alignment explanation
Indices: 116997755--116997860 Score: 65
Period size: 10 Copynumber: 11.3 Consensus size: 10
116997745 GAAAAGAGAA
116997755 GAAAG-AAA-
1 GAAAGAAAAG
*
116997763 GAAAGAAAAA
1 GAAAGAAAAG
116997773 GAAAGAAAAG
1 GAAAGAAAAG
*
116997783 GAAATG-AGAG
1 GAAA-GAAAAG
116997793 GAAAG-AAA-
1 GAAAGAAAAG
116997801 GAAA-AAGAAG
1 GAAAGAA-AAG
116997811 GAAAG-AAAG
1 GAAAGAAAAG
116997820 GAAAGGAAGAA-
1 GAAA-GAA-AAG
116997831 -AAAG-AAA-
1 GAAAGAAAAG
116997838 GAAA-AAGAAG
1 GAAAGAA-AAG
116997848 GAAAGAAAAG
1 GAAAGAAAAG
116997858 GAA
1 GAA
116997861 CGGAGATTGT
Statistics
Matches: 80, Mismatches: 3, Indels: 28
0.72 0.03 0.25
Matches are distributed among these distances:
7 2 0.03
8 15 0.19
9 18 0.22
10 39 0.49
11 4 0.05
12 2 0.03
ACGTcount: A:0.70, C:0.00, G:0.29, T:0.01
Consensus pattern (10 bp):
GAAAGAAAAG
Found at i:116998294 original size:155 final size:148
Alignment explanation
Indices: 116997908--116998319 Score: 367
Period size: 155 Copynumber: 2.7 Consensus size: 148
116997898 AAAAATGGTA
* *
116997908 TATTTAAAAAACACAGTAAATTAATAAATTTCAAACATAATCTATTAAAATAATGTAAAATTAGA
1 TATTTAAAAAACAC-GTAAATTAATAAATTTCAAACATAATGTACTAAAATAATGTAAAA-TA-A
* *
116997973 -AAATTAG-AA-AATATGATATTTTTAAAGTAATAAAATGCGGGAGAAAAAATACGAACAAAGGG
63 TAAATTAGAAATAATAT-ATTTTTTTAAAGTAATAAAATTC-GGAGAAAAAATACGAACAAAGGG
116998035 TCGAAGTAAGAGTTTTACTAAAT
126 TCGAAGTAAGAGTTTTACTAAAT
* ** * * * *
116998058 TTTTTAAAAATTTA-GAAATAATTAATATAAATATTTCAAACAAAATGTACTGAAATAATATAAA
1 TATTTAAAAA-ACACG-TA-AATT-A-AT-AA-ATTTCAAACATAATGTACTAAAATAATGTAAA
*
116998122 ATAATAAA-TACGAAAATAATATATTTTTATTAAAAGTAATAAAATTC-GAGAAAATAATACGAG
59 ATAATAAATTA-G-AAATAATATATTTTT-TT-AAAGTAATAAAATTCGGAGAAAA-AATACGAA
* * * **
116998185 TAAAGGG-CAGGAA-TAGGGGTTTTTTTTAAAAT
119 CAAAGGGTC--GAAGTAAGAG-TTTTACT-AAAT
116998217 TCATTTAAAAAACACGCTAAATTAATAAATTTCAAACATAATGTACTAAAATAATGTAAAATAAT
1 T-ATTTAAAAAACACG-TAAATTAATAAATTTCAAACATAATGTACTAAAATAATGTAAAATAAT
*
116998282 AAATTTAGAAAT-ATGATA-TGTTTTAAAGTAATAAAATT
64 AAA-TTAGAAATAAT-ATATTTTTTTAAAGTAATAAAATT
116998320 AGAAAACATA
Statistics
Matches: 212, Mismatches: 26, Indels: 46
0.75 0.09 0.16
Matches are distributed among these distances:
149 1 0.00
150 10 0.05
151 5 0.02
152 15 0.07
153 7 0.03
154 13 0.06
155 72 0.34
156 18 0.08
157 28 0.13
158 23 0.11
159 10 0.05
160 10 0.05
ACGTcount: A:0.52, C:0.06, G:0.11, T:0.32
Consensus pattern (148 bp):
TATTTAAAAAACACGTAAATTAATAAATTTCAAACATAATGTACTAAAATAATGTAAAATAATAA
ATTAGAAATAATATATTTTTTTAAAGTAATAAAATTCGGAGAAAAAATACGAACAAAGGGTCGAA
GTAAGAGTTTTACTAAAT
Found at i:116998819 original size:21 final size:21
Alignment explanation
Indices: 116998767--116998810 Score: 63
Period size: 21 Copynumber: 2.1 Consensus size: 21
116998757 TATTAAAAAA
*
116998767 TTATA-TTAATATTTATATATT
1 TTATAGTTAA-ATTTAAATATT
116998788 TTATAGTTAAATTTAAATATT
1 TTATAGTTAAATTTAAATATT
116998809 TT
1 TT
116998811 CATTTTAAAA
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
21 17 0.81
22 4 0.19
ACGTcount: A:0.39, C:0.00, G:0.02, T:0.59
Consensus pattern (21 bp):
TTATAGTTAAATTTAAATATT
Found at i:117000486 original size:36 final size:35
Alignment explanation
Indices: 117000391--117000488 Score: 99
Period size: 36 Copynumber: 2.7 Consensus size: 35
117000381 ATTTATTTTA
* *
117000391 TATATATGTAAATATTATGTATATATTTTTAAATAC
1 TATAT-TGTATATATTATGTATATATTCTTAAATAC
* * * *
117000427 TATCTTGTATATGTGTATATATATATTCTT-AGTAC
1 TATATTGTATATAT-TATGTATATATTCTTAAATAC
117000462 TATATTACGTATATATTATGTATATAT
1 TATATT--GTATATATTATGTATATAT
117000489 ATTTATTTTT
Statistics
Matches: 50, Mismatches: 9, Indels: 6
0.77 0.14 0.09
Matches are distributed among these distances:
35 16 0.32
36 27 0.54
37 7 0.14
ACGTcount: A:0.36, C:0.05, G:0.08, T:0.51
Consensus pattern (35 bp):
TATATTGTATATATTATGTATATATTCTTAAATAC
Found at i:117012670 original size:73 final size:73
Alignment explanation
Indices: 117012582--117013748 Score: 1397
Period size: 73 Copynumber: 15.9 Consensus size: 73
117012572 TGATGCTGCT
**
117012582 ATTTCTA-TTTCAAAAAAATCAACTCATATTGCGAGAAATGAGTTGAGCCTCGGGACACGCTGAG
1 ATTTCTATTTTC-AAAAAATCAACTCATATTGCGAGAAATGAGTTGAGCCTCAAGACACGCTGAG
*
117012646 GTAATTTTA
65 GTAATTTCA
* *
117012655 ATTTCTATTTTAAAAAAAATCAACTCATATTGCGAGAAATGAGTTGAGCCTCAAGACACGTTGAG
1 ATTTCTATTTT-CAAAAAATCAACTCATATTGCGAGAAATGAGTTGAGCCTCAAGACACGCTGAG
117012720 GTAATTTCA
65 GTAATTTCA
* * * ** * *
117012729 ATTTCTGTTGTCAAAAAATCAACTCGTATTGCGAGAGGTGAGTTGAGCCTTAAGACATGCTGAGG
1 ATTTCTATTTTCAAAAAATCAACTCATATTGCGAGAAATGAGTTGAGCCTCAAGACACGCTGAGG
117012794 T-ATTGTCA
66 TAATT-TCA
* * * ** **
117012802 TTTTTGTATGTTTC-AAAAATCAATTCATATTGCGAGAGGTGAGTTGAGCCTCGGGACACGCTGA
1 -ATTTCTAT-TTTCAAAAAATCAACTCATATTGCGAGAAATGAGTTGAGCCTCAAGACACGCTGA
*
117012866 GGTAATTTTA
64 GGTAATTTCA
**
117012876 ATTTCTATTTTCAAAAAATCAACTCATATTGCGAGAAATGAGTTGAGCCTCGGGACACGCTGAGG
1 ATTTCTATTTTCAAAAAATCAACTCATATTGCGAGAAATGAGTTGAGCCTCAAGACACGCTGAGG
*
117012941 TAATTTTA
66 TAATTTCA
* *
117012949 ATTTCTATTTTCAAAAAATCAACTCATATTGCGAGAAATGAGTTGAGCCTCAAGACACGTTCAGG
1 ATTTCTATTTTCAAAAAATCAACTCATATTGCGAGAAATGAGTTGAGCCTCAAGACACGCTGAGG
117013014 TAATTTCA
66 TAATTTCA
* * * ** * *
117013022 ATTTCTGTTGTCAAAAAATCAACTCGTATTGCGAGAGGTGAGTTGAGCCTCAAGACATGCTAAGG
1 ATTTCTATTTTCAAAAAATCAACTCATATTGCGAGAAATGAGTTGAGCCTCAAGACACGCTGAGG
117013087 T-ATTGTCA
66 TAATT-TCA
* * ** **
117013095 ATTTTTTGTATGTTTC-AAAAATCAATTCATATTGCGAGAGGTGAGTTGAGCCTCGGGACACGCT
1 A---TTTCTAT-TTTCAAAAAATCAACTCATATTGCGAGAAATGAGTTGAGCCTCAAGACACGCT
*
117013159 GAGGTAATTTTA
62 GAGGTAATTTCA
*
117013171 ATTTCTATTTTCAAAAAAATCAACTCATATTGCGAGAAATGAGTTGAGCCTC-GGACACGCTGAG
1 ATTTCTATTTTC-AAAAAATCAACTCATATTGCGAGAAATGAGTTGAGCCTCAAGACACGCTGAG
*
117013235 GTAATTTTA
65 GTAATTTCA
* * *
117013244 ATTTCTGTTTTCAAAAAATCAACTCATATTGCGAGAAATGAGTTGAGCCTCAAGACACGTTCAGG
1 ATTTCTATTTTCAAAAAATCAACTCATATTGCGAGAAATGAGTTGAGCCTCAAGACACGCTGAGG
117013309 TAATTTCA
66 TAATTTCA
* * * ** *
117013317 ATTTCTGTTGTCAAAAAATCAACTCGTATTGCGAGAGGTGAGTTGAGCCTCAAGACATGCTGAGG
1 ATTTCTATTTTCAAAAAATCAACTCATATTGCGAGAAATGAGTTGAGCCTCAAGACACGCTGAGG
117013382 T-ATTTCA
66 TAATTTCA
* * ** *
117013389 ATTTTTGTATGTTTC-AAAAATCAATTCATATTGCGAGATGTGAGTTGAGCCTC-GGACACGCTG
1 A--TTTCTAT-TTTCAAAAAATCAACTCATATTGCGAGAAATGAGTTGAGCCTCAAGACACGCTG
*
117013452 AGGTAATTTTA
63 AGGTAATTTCA
*
117013463 ATTTCTATTTTCAAAAAATCAACTCATATTGCGAGAAATGAGTTGAGCCTC-GGACACGCTGAGG
1 ATTTCTATTTTCAAAAAATCAACTCATATTGCGAGAAATGAGTTGAGCCTCAAGACACGCTGAGG
*
117013527 TAATTTTA
66 TAATTTCA
* *
117013535 ATTTCTATTTTCAAAAAATCAACTCATATTACGAGAAATGAGTTGAGCCTCAAGACACGTTGAGG
1 ATTTCTATTTTCAAAAAATCAACTCATATTGCGAGAAATGAGTTGAGCCTCAAGACACGCTGAGG
117013600 TAATTTCA
66 TAATTTCA
* * * *** *
117013608 ATTCCTATTGTCAAAAAAATCAACTCGTATTGCGAGAGGCGAGTTGAGCCTCAAGACATGCTGAG
1 ATTTCTATTTTC-AAAAAATCAACTCATATTGCGAGAAATGAGTTGAGCCTCAAGACACGCTGAG
117013673 GT-ATTGTCA
65 GTAATT-TCA
* * * * * *
117013682 ATTTTTTGTATGTTTC-AAAAATCAACTTACATTGCGAGAGGA-GAATTGAGCCTCAGGACACGC
1 A---TTTCTAT-TTTCAAAAAATCAACTCATATTGCGAGA-AATGAGTTGAGCCTCAAGACACGC
117013745 TGAG
61 TGAG
117013749 TGAGTTGAGC
Statistics
Matches: 960, Mismatches: 105, Indels: 55
0.86 0.09 0.05
Matches are distributed among these distances:
71 4 0.00
72 172 0.18
73 408 0.43
74 255 0.27
75 9 0.01
76 97 0.10
77 12 0.01
78 3 0.00
ACGTcount: A:0.32, C:0.16, G:0.20, T:0.32
Consensus pattern (73 bp):
ATTTCTATTTTCAAAAAATCAACTCATATTGCGAGAAATGAGTTGAGCCTCAAGACACGCTGAGG
TAATTTCA
Found at i:117013180 original size:295 final size:294
Alignment explanation
Indices: 117012582--117013748 Score: 2087
Period size: 295 Copynumber: 4.0 Consensus size: 294
117012572 TGATGCTGCT
117012582 ATTTCTA-TTTCAAAAAAATCAACTCATATTGCGAGAAATGAGTTGAGCCTCGGGACACGCTGAG
1 ATTTCTATTTTCAAAAAAATCAACTCATATTGCGAGAAATGAGTTGAGCCTC-GGACACGCTGAG
*
117012646 GTAATTTTAATTTCTATTTTAAAAAAAATCAACTCATATTGCGAGAAATGAGTTGAGCCTCAAGA
65 GTAATTTTAATTTCTATTTT-CAAAAAATCAACTCATATTGCGAGAAATGAGTTGAGCCTCAAGA
*
117012711 CACGTTGAGGTAATTTCAATTTCTGTTGTCAAAAAATCAACTCGTATTGCGAGAGGTGAGTTGAG
129 CACGTTCAGGTAATTTCAATTTCTGTTGTCAAAAAATCAACTCGTATTGCGAGAGGTGAGTTGAG
*
117012776 CCTTAAGACATGCTGAGGTATTGTC-ATTTTTGTATGTTTCAAAAATCAATTCATATTGCGAGAG
194 CCTCAAGACATGCTGAGGTATTGTCAATTTTTGTATGTTTCAAAAATCAATTCATATTGCGAGAG
117012840 GTGAGTTGAGCCTCGGGACACGCTGAGGTAATTTTA
259 GTGAGTTGAGCCTCGGGACACGCTGAGGTAATTTTA
117012876 ATTTCTATTTTC-AAAAAATCAACTCATATTGCGAGAAATGAGTTGAGCCTCGGGACACGCTGAG
1 ATTTCTATTTTCAAAAAAATCAACTCATATTGCGAGAAATGAGTTGAGCCTC-GGACACGCTGAG
117012940 GTAATTTTAATTTCTATTTTCAAAAAATCAACTCATATTGCGAGAAATGAGTTGAGCCTCAAGAC
65 GTAATTTTAATTTCTATTTTCAAAAAATCAACTCATATTGCGAGAAATGAGTTGAGCCTCAAGAC
117013005 ACGTTCAGGTAATTTCAATTTCTGTTGTCAAAAAATCAACTCGTATTGCGAGAGGTGAGTTGAGC
130 ACGTTCAGGTAATTTCAATTTCTGTTGTCAAAAAATCAACTCGTATTGCGAGAGGTGAGTTGAGC
*
117013070 CTCAAGACATGCTAAGGTATTGTCAATTTTTTGTATGTTTCAAAAATCAATTCATATTGCGAGAG
195 CTCAAGACATGCTGAGGTATTGTCAA-TTTTTGTATGTTTCAAAAATCAATTCATATTGCGAGAG
117013135 GTGAGTTGAGCCTCGGGACACGCTGAGGTAATTTTA
259 GTGAGTTGAGCCTCGGGACACGCTGAGGTAATTTTA
117013171 ATTTCTATTTTCAAAAAAATCAACTCATATTGCGAGAAATGAGTTGAGCCTCGGACACGCTGAGG
1 ATTTCTATTTTCAAAAAAATCAACTCATATTGCGAGAAATGAGTTGAGCCTCGGACACGCTGAGG
*
117013236 TAATTTTAATTTCTGTTTTCAAAAAATCAACTCATATTGCGAGAAATGAGTTGAGCCTCAAGACA
66 TAATTTTAATTTCTATTTTCAAAAAATCAACTCATATTGCGAGAAATGAGTTGAGCCTCAAGACA
117013301 CGTTCAGGTAATTTCAATTTCTGTTGTCAAAAAATCAACTCGTATTGCGAGAGGTGAGTTGAGCC
131 CGTTCAGGTAATTTCAATTTCTGTTGTCAAAAAATCAACTCGTATTGCGAGAGGTGAGTTGAGCC
*
117013366 TCAAGACATGCTGAGGTATT-TCAATTTTTGTATGTTTCAAAAATCAATTCATATTGCGAGATGT
196 TCAAGACATGCTGAGGTATTGTCAATTTTTGTATGTTTCAAAAATCAATTCATATTGCGAGAGGT
117013430 GAGTTGAGCCTC-GGACACGCTGAGGTAATTTTA
261 GAGTTGAGCCTCGGGACACGCTGAGGTAATTTTA
117013463 ATTTCTATTTTC-AAAAAATCAACTCATATTGCGAGAAATGAGTTGAGCCTCGGACACGCTGAGG
1 ATTTCTATTTTCAAAAAAATCAACTCATATTGCGAGAAATGAGTTGAGCCTCGGACACGCTGAGG
*
117013527 TAATTTTAATTTCTATTTTCAAAAAATCAACTCATATTACGAGAAATGAGTTGAGCCTCAAGACA
66 TAATTTTAATTTCTATTTTCAAAAAATCAACTCATATTGCGAGAAATGAGTTGAGCCTCAAGACA
* * * *
117013592 CGTTGAGGTAATTTCAATTCCTATTGTCAAAAAAATCAACTCGTATTGCGAGAGGCGAGTTGAGC
131 CGTTCAGGTAATTTCAATTTCTGTTGTC-AAAAAATCAACTCGTATTGCGAGAGGTGAGTTGAGC
*
117013657 CTCAAGACATGCTGAGGTATTGTCAATTTTTTGTATGTTTCAAAAATCAACTT-ACATTGCGAGA
195 CTCAAGACATGCTGAGGTATTGTCAA-TTTTTGTATGTTTCAAAAATCAA-TTCATATTGCGAGA
* * *
117013721 GGAGAATTGAGCCTCAGGACACGCTGAG
258 GGTGAGTTGAGCCTCGGGACACGCTGAG
117013749 TGAGTTGAGC
Statistics
Matches: 847, Mismatches: 17, Indels: 17
0.96 0.02 0.02
Matches are distributed among these distances:
291 140 0.17
292 89 0.11
293 185 0.22
294 129 0.15
295 265 0.31
296 39 0.05
ACGTcount: A:0.32, C:0.16, G:0.20, T:0.32
Consensus pattern (294 bp):
ATTTCTATTTTCAAAAAAATCAACTCATATTGCGAGAAATGAGTTGAGCCTCGGACACGCTGAGG
TAATTTTAATTTCTATTTTCAAAAAATCAACTCATATTGCGAGAAATGAGTTGAGCCTCAAGACA
CGTTCAGGTAATTTCAATTTCTGTTGTCAAAAAATCAACTCGTATTGCGAGAGGTGAGTTGAGCC
TCAAGACATGCTGAGGTATTGTCAATTTTTGTATGTTTCAAAAATCAATTCATATTGCGAGAGGT
GAGTTGAGCCTCGGGACACGCTGAGGTAATTTTA
Found at i:117015356 original size:9 final size:9
Alignment explanation
Indices: 117015342--117015428 Score: 56
Period size: 9 Copynumber: 9.7 Consensus size: 9
117015332 CATTTTTTAC
117015342 ATATTATTA
1 ATATTATTA
117015351 ATATTATTA
1 ATATTATTA
*
117015360 CTATTATT-
1 ATATTATTA
117015368 -T-TTATTA
1 ATATTATTA
117015375 ATA-TATTA
1 ATATTATTA
*
117015383 ATTATTTTTAA
1 A-TATTATT-A
117015394 AGTATTATTA
1 A-TATTATTA
* * *
117015404 CTACTAATGA
1 ATA-TTATTA
*
117015414 TTATTATTA
1 ATATTATTA
117015423 ATATTA
1 ATATTA
117015429 ACATATGTAT
Statistics
Matches: 60, Mismatches: 11, Indels: 14
0.71 0.13 0.16
Matches are distributed among these distances:
6 5 0.08
7 1 0.02
8 7 0.12
9 29 0.48
10 10 0.17
11 8 0.13
ACGTcount: A:0.39, C:0.03, G:0.02, T:0.55
Consensus pattern (9 bp):
ATATTATTA
Found at i:117015386 original size:21 final size:23
Alignment explanation
Indices: 117015345--117015404 Score: 74
Period size: 21 Copynumber: 2.7 Consensus size: 23
117015335 TTTTTACATA
117015345 TTATTAATATTATTACTATTATTT
1 TTATTAATATTATTAC-ATTATTT
117015369 TTATTAATA-TATTA-ATTATTT
1 TTATTAATATTATTACATTATTT
117015390 TTA--AAGTATTATTAC
1 TTATTAA-TATTATTAC
117015405 TACTAATGAT
Statistics
Matches: 33, Mismatches: 0, Indels: 8
0.80 0.00 0.20
Matches are distributed among these distances:
19 2 0.06
20 2 0.06
21 15 0.45
23 5 0.15
24 9 0.27
ACGTcount: A:0.37, C:0.03, G:0.02, T:0.58
Consensus pattern (23 bp):
TTATTAATATTATTACATTATTT
Found at i:117015673 original size:12 final size:12
Alignment explanation
Indices: 117015652--117015725 Score: 61
Period size: 11 Copynumber: 6.4 Consensus size: 12
117015642 TTTTTAATAT
117015652 TATATT-TTATA
1 TATATTATTATA
117015663 TATATTATTATA
1 TATATTATTATA
117015675 TATATT-TTA-A
1 TATATTATTATA
117015685 TATTATTAGTTATA
1 TA-TATTA-TTATA
* *
117015699 T-T-TTCTTTTA
1 TATATTATTATA
117015709 TACTATTA-TATA
1 TA-TATTATTATA
117015721 TATAT
1 TATAT
117015726 CTAATATTAT
Statistics
Matches: 51, Mismatches: 4, Indels: 16
0.72 0.06 0.23
Matches are distributed among these distances:
10 8 0.16
11 18 0.35
12 18 0.35
13 5 0.10
14 2 0.04
ACGTcount: A:0.35, C:0.03, G:0.01, T:0.61
Consensus pattern (12 bp):
TATATTATTATA
Found at i:117015748 original size:44 final size:43
Alignment explanation
Indices: 117015652--117015767 Score: 121
Period size: 44 Copynumber: 2.7 Consensus size: 43
117015642 TTTTTAATAT
* * * *
117015652 TATATTTTATATATATTATTATATATAT-TTTAATATTATTAGT
1 TATATTTTCT-TATACTATTATATATATATCTAATATTATTAGG
117015695 TATATTTTCTTTTATACTATTATATATATATCTAATATTA-TATGG
1 TATATTTTC--TTATACTATTATATATATATCTAATATTATTA-GG
* *
117015740 TATA-TTTCTAATACTATTATTTATATAT
1 TATATTTTCTTATACTATTATATATATAT
117015768 ATTTATATAT
Statistics
Matches: 63, Mismatches: 6, Indels: 9
0.81 0.08 0.12
Matches are distributed among these distances:
42 18 0.29
43 8 0.13
44 22 0.35
45 15 0.24
ACGTcount: A:0.35, C:0.04, G:0.03, T:0.58
Consensus pattern (43 bp):
TATATTTTCTTATACTATTATATATATATCTAATATTATTAGG
Found at i:117015754 original size:42 final size:44
Alignment explanation
Indices: 117015668--117015767 Score: 118
Period size: 42 Copynumber: 2.3 Consensus size: 44
117015658 TTATATATAT
* * *
117015668 TATTATATATAT-TTTAATATTATTAGTTATATTTTCTTTTATAC
1 TATTATATATATATCTAATATTATTAGGTATATTTTC-TTAATAC
117015712 TATTATATATATATCTAATATTA-TATGGTATA-TTTC-TAATAC
1 TATTATATATATATCTAATATTATTA-GGTATATTTTCTTAATAC
*
117015754 TATTATTTATATAT
1 TATTATATATATAT
117015768 ATTTATATAT
Statistics
Matches: 50, Mismatches: 4, Indels: 6
0.83 0.07 0.10
Matches are distributed among these distances:
42 18 0.36
44 18 0.36
45 14 0.28
ACGTcount: A:0.35, C:0.05, G:0.03, T:0.57
Consensus pattern (44 bp):
TATTATATATATATCTAATATTATTAGGTATATTTTCTTAATAC
Found at i:117016087 original size:27 final size:26
Alignment explanation
Indices: 117016049--117016099 Score: 68
Period size: 27 Copynumber: 1.9 Consensus size: 26
117016039 TTTGATACTA
117016049 TGTTTTTTTAATACCATAT-ATGTCG
1 TGTTTTTTTAATACCATATGATGTCG
*
117016074 TGTTTATTCTTAATACTATATGATGT
1 TGTTT-TT-TTAATACCATATGATGT
117016100 ATGTACTTTT
Statistics
Matches: 22, Mismatches: 1, Indels: 3
0.85 0.04 0.12
Matches are distributed among these distances:
25 5 0.23
26 2 0.09
27 11 0.50
28 4 0.18
ACGTcount: A:0.25, C:0.10, G:0.12, T:0.53
Consensus pattern (26 bp):
TGTTTTTTTAATACCATATGATGTCG
Found at i:117020753 original size:26 final size:26
Alignment explanation
Indices: 117020720--117020827 Score: 171
Period size: 26 Copynumber: 4.2 Consensus size: 26
117020710 TGATACAAAT
117020720 TGATAATGGGTTAGGTAAATGTTCCA
1 TGATAATGGGTTAGGTAAATGTTCCA
* * *
117020746 TGACAATGGATTAGGTAAATATTCCA
1 TGATAATGGGTTAGGTAAATGTTCCA
*
117020772 TGATAATGGGTTAGATAAATGTTCCA
1 TGATAATGGGTTAGGTAAATGTTCCA
*
117020798 TGATAATGGTTTAGGTAAATGTTCCA
1 TGATAATGGGTTAGGTAAATGTTCCA
117020824 TGAT
1 TGAT
117020828 GGGAATTTCA
Statistics
Matches: 73, Mismatches: 9, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
26 73 1.00
ACGTcount: A:0.33, C:0.08, G:0.23, T:0.35
Consensus pattern (26 bp):
TGATAATGGGTTAGGTAAATGTTCCA
Found at i:117020930 original size:10 final size:10
Alignment explanation
Indices: 117020915--117020944 Score: 51
Period size: 10 Copynumber: 3.0 Consensus size: 10
117020905 AGAACAAATT
117020915 TTTGTCCATC
1 TTTGTCCATC
117020925 TTTGTCCATC
1 TTTGTCCATC
*
117020935 TTTGTTCATC
1 TTTGTCCATC
117020945 ATAGCCTAAA
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
10 19 1.00
ACGTcount: A:0.10, C:0.27, G:0.10, T:0.53
Consensus pattern (10 bp):
TTTGTCCATC
Found at i:117024456 original size:27 final size:28
Alignment explanation
Indices: 117024422--117024478 Score: 89
Period size: 28 Copynumber: 2.1 Consensus size: 28
117024412 TAGATAGCTA
117024422 ATAATATT-AAAACATATACATAATAAT
1 ATAATATTAAAAACATATACATAATAAT
* *
117024449 ATAATATTAAAAACATATATATATTAAT
1 ATAATATTAAAAACATATACATAATAAT
117024477 AT
1 AT
117024479 CAAAAATGCA
Statistics
Matches: 27, Mismatches: 2, Indels: 1
0.90 0.07 0.03
Matches are distributed among these distances:
27 8 0.30
28 19 0.70
ACGTcount: A:0.58, C:0.05, G:0.00, T:0.37
Consensus pattern (28 bp):
ATAATATTAAAAACATATACATAATAAT
Found at i:117025758 original size:16 final size:16
Alignment explanation
Indices: 117025739--117025769 Score: 62
Period size: 16 Copynumber: 1.9 Consensus size: 16
117025729 ATGGGTATTG
117025739 GGTTGTAAGGGTTTTA
1 GGTTGTAAGGGTTTTA
117025755 GGTTGTAAGGGTTTT
1 GGTTGTAAGGGTTTT
117025770 GGGCCTCTGT
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 15 1.00
ACGTcount: A:0.16, C:0.00, G:0.39, T:0.45
Consensus pattern (16 bp):
GGTTGTAAGGGTTTTA
Found at i:117028724 original size:6 final size:6
Alignment explanation
Indices: 117028713--117028742 Score: 60
Period size: 6 Copynumber: 5.0 Consensus size: 6
117028703 GAAAAGAGAA
117028713 ATTTTT ATTTTT ATTTTT ATTTTT ATTTTT
1 ATTTTT ATTTTT ATTTTT ATTTTT ATTTTT
117028743 GGGTCTTTCT
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 24 1.00
ACGTcount: A:0.17, C:0.00, G:0.00, T:0.83
Consensus pattern (6 bp):
ATTTTT
Found at i:117030515 original size:14 final size:14
Alignment explanation
Indices: 117030496--117030525 Score: 51
Period size: 14 Copynumber: 2.1 Consensus size: 14
117030486 TATTTGATTG
117030496 TTAGTCCATCATTT
1 TTAGTCCATCATTT
*
117030510 TTAGTCCATTATTT
1 TTAGTCCATCATTT
117030524 TT
1 TT
117030526 GTGTTGTGTT
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
14 15 1.00
ACGTcount: A:0.20, C:0.17, G:0.07, T:0.57
Consensus pattern (14 bp):
TTAGTCCATCATTT
Found at i:117031253 original size:132 final size:132
Alignment explanation
Indices: 117030867--117031257 Score: 489
Period size: 132 Copynumber: 3.0 Consensus size: 132
117030857 TTTAAAAATT
* * * * * *
117030867 CTTTAAAACG-AAGACGATGTTCGATATTTGGCAACTCGCGAAATTGTGCCCTAACGTGCTGGGT
1 CTTTAAAACGAAAGA-AATGTTCGATGTTTGGCAATTCGGGGAATTGTGCCCTATCGTGCTGGGT
* * * * * ** * * *
117030931 CGCAATTTCTCGTTTGCTCAAGATAATCGAAGGTCTCTTTAGAATTTCATTCATGATTTGTAAAA
65 TGCAATTTCTCGTTTGTTCAAAATGATCGAAGATCTCTTCGGAATTTCACTCATGTTTTCT-AAA
117030996 AACC
129 AACC
* *
117031000 CTTTAAAACGAAAGAAATGTTCGATGTTTGGTAATTC-GAGAATTGTGCCCTATCGTGCTGGGTT
1 CTTTAAAACGAAAGAAATGTTCGATGTTTGGCAATTCGGGGAATTGTGCCCTATCGTGCTGGGTT
* * * * * *
117031064 GCACTTTTTCATTTGTTCAAAACGATCGAAGATTTCTTCGGAATTTCACTCACGTTTTCTAAAAA
66 GCAATTTCTCGTTTGTTCAAAATGATCGAAGATCTCTTCGGAATTTCACTCATGTTTTCTAAAAA
117031129 CC
131 CC
*
117031131 CTTTAAAACGAAAGAAATGTTCGATGTTTGGCAATTCGGGGAATAGTGCCCTATCGTGCTGGGTT
1 CTTTAAAACGAAAGAAATGTTCGATGTTTGGCAATTCGGGGAATTGTGCCCTATCGTGCTGGGTT
* * * *
117031196 GCAATCTCCCGTTTGTTCAAAATGATCGAATATCTCTTCGGAATTTCACTCGTGTTTTCTAA
66 GCAATTTCTCGTTTGTTCAAAATGATCGAAGATCTCTTCGGAATTTCACTCATGTTTTCTAA
117031258 GGTGAGGCAA
Statistics
Matches: 219, Mismatches: 37, Indels: 5
0.84 0.14 0.02
Matches are distributed among these distances:
131 43 0.20
132 144 0.66
133 28 0.13
134 4 0.02
ACGTcount: A:0.27, C:0.19, G:0.20, T:0.34
Consensus pattern (132 bp):
CTTTAAAACGAAAGAAATGTTCGATGTTTGGCAATTCGGGGAATTGTGCCCTATCGTGCTGGGTT
GCAATTTCTCGTTTGTTCAAAATGATCGAAGATCTCTTCGGAATTTCACTCATGTTTTCTAAAAA
CC
Found at i:117034955 original size:16 final size:15
Alignment explanation
Indices: 117034934--117034967 Score: 50
Period size: 16 Copynumber: 2.2 Consensus size: 15
117034924 ATTTGGTTAT
117034934 TTTTAATTTCTATAAA
1 TTTTAATTTCTA-AAA
*
117034950 TTTTAATTTTTAAAA
1 TTTTAATTTCTAAAA
117034965 TTT
1 TTT
117034968 CAGTCATCAC
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
15 6 0.35
16 11 0.65
ACGTcount: A:0.35, C:0.03, G:0.00, T:0.62
Consensus pattern (15 bp):
TTTTAATTTCTAAAA
Found at i:117038723 original size:29 final size:31
Alignment explanation
Indices: 117038685--117038753 Score: 81
Period size: 29 Copynumber: 2.3 Consensus size: 31
117038675 TATATATAGA
*
117038685 CTAAATAAAATAATAAAAT-AATAA-AA-TAT
1 CTAATTAAAAT-ATAAAATAAATAATAATTAT
* *
117038714 CTTATTAAAATATTAAATAAATAATAATTAT
1 CTAATTAAAATATAAAATAAATAATAATTAT
117038745 CTAATTAAA
1 CTAATTAAA
117038754 TAACTATAAA
Statistics
Matches: 33, Mismatches: 4, Indels: 4
0.80 0.10 0.10
Matches are distributed among these distances:
28 6 0.18
29 14 0.42
30 2 0.06
31 11 0.33
ACGTcount: A:0.61, C:0.04, G:0.00, T:0.35
Consensus pattern (31 bp):
CTAATTAAAATATAAAATAAATAATAATTAT
Found at i:117038730 original size:8 final size:8
Alignment explanation
Indices: 117038688--117038712 Score: 50
Period size: 8 Copynumber: 3.1 Consensus size: 8
117038678 ATATAGACTA
117038688 AATAAAAT
1 AATAAAAT
117038696 AATAAAAT
1 AATAAAAT
117038704 AATAAAAT
1 AATAAAAT
117038712 A
1 A
117038713 TCTTATTAAA
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
8 17 1.00
ACGTcount: A:0.76, C:0.00, G:0.00, T:0.24
Consensus pattern (8 bp):
AATAAAAT
Found at i:117039033 original size:30 final size:30
Alignment explanation
Indices: 117038966--117039033 Score: 77
Period size: 30 Copynumber: 2.3 Consensus size: 30
117038956 CACCCTTAAA
* * *
117038966 ATATTTGCACTATTAATCCTTCAACTTTTT
1 ATATTTACACTATTAATCCTTCAAATTTTG
117038996 ATATTTACACT-TTAATCCCTT-AAATTTTG
1 ATATTTACACTATTAAT-CCTTCAAATTTTG
117039025 AGTATTTAC
1 A-TATTTAC
117039034 TCTTGGGCCA
Statistics
Matches: 33, Mismatches: 3, Indels: 4
0.82 0.08 0.10
Matches are distributed among these distances:
29 12 0.36
30 21 0.64
ACGTcount: A:0.29, C:0.18, G:0.04, T:0.49
Consensus pattern (30 bp):
ATATTTACACTATTAATCCTTCAAATTTTG
Found at i:117041929 original size:36 final size:36
Alignment explanation
Indices: 117041846--117041929 Score: 89
Period size: 36 Copynumber: 2.3 Consensus size: 36
117041836 AAGGAAGTAA
* * *
117041846 ACCAGCGCCACCGCCACCACCAGCTCCTGCTCCACC
1 ACCAGCACCACCGCCAACACCAGCTCCTACTCCACC
* * * *
117041882 TCCAACTCCACCGCCAACAGC-GCCTCCTACTCCACC
1 ACCAGCACCACCGCCAACACCAG-CTCCTACTCCACC
117041918 ACCAGCACCACC
1 ACCAGCACCACC
117041930 AAATCCACCG
Statistics
Matches: 38, Mismatches: 9, Indels: 2
0.78 0.18 0.04
Matches are distributed among these distances:
35 1 0.03
36 37 0.97
ACGTcount: A:0.23, C:0.57, G:0.11, T:0.10
Consensus pattern (36 bp):
ACCAGCACCACCGCCAACACCAGCTCCTACTCCACC
Found at i:117041946 original size:27 final size:27
Alignment explanation
Indices: 117041928--117042046 Score: 159
Period size: 27 Copynumber: 4.4 Consensus size: 27
117041918 ACCAGCACCA
* *
117041928 CCAAATCCACCGACTCCACCGGTTCCT
1 CCAAGTCCACCGACTCCACCGGTACCT
117041955 CCAAGTCCACCGACTCCACCGGTACCT
1 CCAAGTCCACCGACTCCACCGGTACCT
* *
117041982 CCAAGTCCACCGGA-TCCACCGGTTCGT
1 CCAAGTCCACC-GACTCCACCGGTACCT
* * *
117042009 CCAAGTCCACCGAATCCTCCGGTTCCT
1 CCAAGTCCACCGACTCCACCGGTACCT
117042036 CCAAGTCCACC
1 CCAAGTCCACC
117042047 CAAACCACCA
Statistics
Matches: 84, Mismatches: 6, Indels: 4
0.89 0.06 0.04
Matches are distributed among these distances:
26 2 0.02
27 80 0.95
28 2 0.02
ACGTcount: A:0.21, C:0.46, G:0.15, T:0.18
Consensus pattern (27 bp):
CCAAGTCCACCGACTCCACCGGTACCT
Found at i:117041974 original size:54 final size:54
Alignment explanation
Indices: 117041916--117042021 Score: 151
Period size: 54 Copynumber: 2.0 Consensus size: 54
117041906 TCCTACTCCA
117041916 CCACCAGCACCACCAAATCCACC-GACTCCACCGGTTCCTCCAAGTCCACCGACT
1 CCACCAGCACCACCAAATCCACCGGA-TCCACCGGTTCCTCCAAGTCCACCGACT
* * * * *
117041970 CCACCGGTACCTCCAAGTCCACCGGATCCACCGGTTCGTCCAAGTCCACCGA
1 CCACCAGCACCACCAAATCCACCGGATCCACCGGTTCCTCCAAGTCCACCGA
117042022 ATCCTCCGGT
Statistics
Matches: 46, Mismatches: 5, Indels: 2
0.87 0.09 0.04
Matches are distributed among these distances:
54 44 0.96
55 2 0.04
ACGTcount: A:0.24, C:0.47, G:0.15, T:0.14
Consensus pattern (54 bp):
CCACCAGCACCACCAAATCCACCGGATCCACCGGTTCCTCCAAGTCCACCGACT
Found at i:117042031 original size:54 final size:54
Alignment explanation
Indices: 117041928--117042046 Score: 177
Period size: 54 Copynumber: 2.2 Consensus size: 54
117041918 ACCAGCACCA
* *
117041928 CCAAATCCACCGACTCCACCGGTTCCTCCAAGTCCACCGACTCCACCGGTACCT
1 CCAAGTCCACCGACTCCACCGGTTCCTCCAAGTCCACCGAATCCACCGGTACCT
* * *
117041982 CCAAGTCCACCGGA-TCCACCGGTTCGTCCAAGTCCACCGAATCCTCCGGTTCCT
1 CCAAGTCCACC-GACTCCACCGGTTCCTCCAAGTCCACCGAATCCACCGGTACCT
117042036 CCAAGTCCACC
1 CCAAGTCCACC
117042047 CAAACCACCA
Statistics
Matches: 59, Mismatches: 5, Indels: 2
0.89 0.08 0.03
Matches are distributed among these distances:
54 57 0.97
55 2 0.03
ACGTcount: A:0.21, C:0.46, G:0.15, T:0.18
Consensus pattern (54 bp):
CCAAGTCCACCGACTCCACCGGTTCCTCCAAGTCCACCGAATCCACCGGTACCT
Found at i:117042067 original size:54 final size:54
Alignment explanation
Indices: 117041955--117042073 Score: 130
Period size: 54 Copynumber: 2.2 Consensus size: 54
117041945 ACCGGTTCCT
* ** * **** **
117041955 CCAAGTCCACCGACTCCACCGGTACCTCCAAGTCCACCGGATCCACCGGTTCGT
1 CCAAGTCCACCGAATCCACCGGTACCTCCAAGTCCACCCAAACCACCACCACCA
* *
117042009 CCAAGTCCACCGAATCCTCCGGTTCCTCCAAGTCCACCCAAACCACCACCACCA
1 CCAAGTCCACCGAATCCACCGGTACCTCCAAGTCCACCCAAACCACCACCACCA
117042063 CCAAGTCCACC
1 CCAAGTCCACC
117042074 TACGCCACCA
Statistics
Matches: 53, Mismatches: 12, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
54 53 1.00
ACGTcount: A:0.24, C:0.48, G:0.13, T:0.14
Consensus pattern (54 bp):
CCAAGTCCACCGAATCCACCGGTACCTCCAAGTCCACCCAAACCACCACCACCA
Found at i:117048501 original size:42 final size:42
Alignment explanation
Indices: 117048403--117048494 Score: 148
Period size: 42 Copynumber: 2.2 Consensus size: 42
117048393 TATAGATTCT
* **
117048403 CCACAGCTCATGTGAGCGGCATCGTGTAGCTAACATCTCAAC
1 CCACAGCTCATGTGAACAACATCGTGTAGCTAACATCTCAAC
117048445 CCACAGCTCATGTGAACAACATCGTGTAGCTAACATCTCAAC
1 CCACAGCTCATGTGAACAACATCGTGTAGCTAACATCTCAAC
*
117048487 CCATAGCT
1 CCACAGCT
117048495 TGTGTGAGCA
Statistics
Matches: 46, Mismatches: 4, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
42 46 1.00
ACGTcount: A:0.29, C:0.32, G:0.17, T:0.22
Consensus pattern (42 bp):
CCACAGCTCATGTGAACAACATCGTGTAGCTAACATCTCAAC
Found at i:117048693 original size:16 final size:16
Alignment explanation
Indices: 117048672--117048740 Score: 129
Period size: 16 Copynumber: 4.2 Consensus size: 16
117048662 TTTGGTTCGC
117048672 TGTATTGGATTAGAGG
1 TGTATTGGATTAGAGG
117048688 TGTATTGGATTAGAGG
1 TGTATTGGATTAGAGG
117048704 TGTATTGGGATTAGAGG
1 TGTATT-GGATTAGAGG
117048721 TGTATTGGATTAGAGG
1 TGTATTGGATTAGAGG
117048737 TGTA
1 TGTA
117048741 ATAGCTAATC
Statistics
Matches: 52, Mismatches: 0, Indels: 2
0.96 0.00 0.04
Matches are distributed among these distances:
16 36 0.69
17 16 0.31
ACGTcount: A:0.25, C:0.00, G:0.38, T:0.38
Consensus pattern (16 bp):
TGTATTGGATTAGAGG
Found at i:117048718 original size:33 final size:32
Alignment explanation
Indices: 117048672--117048740 Score: 129
Period size: 33 Copynumber: 2.1 Consensus size: 32
117048662 TTTGGTTCGC
117048672 TGTATTGGATTAGAGGTGTATTGGATTAGAGG
1 TGTATTGGATTAGAGGTGTATTGGATTAGAGG
117048704 TGTATTGGGATTAGAGGTGTATTGGATTAGAGG
1 TGTATT-GGATTAGAGGTGTATTGGATTAGAGG
117048737 TGTA
1 TGTA
117048741 ATAGCTAATC
Statistics
Matches: 36, Mismatches: 0, Indels: 1
0.97 0.00 0.03
Matches are distributed among these distances:
32 6 0.17
33 30 0.83
ACGTcount: A:0.25, C:0.00, G:0.38, T:0.38
Consensus pattern (32 bp):
TGTATTGGATTAGAGGTGTATTGGATTAGAGG
Found at i:117048805 original size:44 final size:45
Alignment explanation
Indices: 117048721--117048811 Score: 121
Period size: 45 Copynumber: 2.0 Consensus size: 45
117048711 GGATTAGAGG
* * *
117048721 TGTATTGGATTAGAGGTGTAATAGCTAATCCACTGTTTGGTTGAA
1 TGTAATGGAATAGAGGCGTAATAGCTAATCCACTGTTTGGTTGAA
***
117048766 TGTAATGGAATAGAGGCGTAATAG-TAATCTTGTGTTTGGTTGAA
1 TGTAATGGAATAGAGGCGTAATAGCTAATCCACTGTTTGGTTGAA
117048810 TG
1 TG
117048812 GAATAGAGGT
Statistics
Matches: 40, Mismatches: 6, Indels: 1
0.85 0.13 0.02
Matches are distributed among these distances:
44 19 0.47
45 21 0.52
ACGTcount: A:0.27, C:0.07, G:0.29, T:0.37
Consensus pattern (45 bp):
TGTAATGGAATAGAGGCGTAATAGCTAATCCACTGTTTGGTTGAA
Found at i:117048997 original size:18 final size:17
Alignment explanation
Indices: 117048976--117049010 Score: 52
Period size: 18 Copynumber: 2.0 Consensus size: 17
117048966 TTATTATTAA
*
117048976 ATATATTTTAATTAAAAT
1 ATATAATTTAA-TAAAAT
117048994 ATATAATTTAATAAAAT
1 ATATAATTTAATAAAAT
117049011 TCTTAATAAT
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
17 6 0.38
18 10 0.62
ACGTcount: A:0.54, C:0.00, G:0.00, T:0.46
Consensus pattern (17 bp):
ATATAATTTAATAAAAT
Found at i:117049117 original size:18 final size:18
Alignment explanation
Indices: 117049096--117049131 Score: 54
Period size: 18 Copynumber: 2.0 Consensus size: 18
117049086 TTATTATTAA
* *
117049096 ATATATTTTAATTAAATT
1 ATATAATTTAATAAAATT
117049114 ATATAATTTAATAAAATT
1 ATATAATTTAATAAAATT
117049132 CTTAATAATT
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
18 16 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (18 bp):
ATATAATTTAATAAAATT
Found at i:117049583 original size:15 final size:16
Alignment explanation
Indices: 117049555--117049620 Score: 57
Period size: 15 Copynumber: 4.2 Consensus size: 16
117049545 ATAAAATATA
117049555 AATTAACATA-ATTATT
1 AATTAA-ATATATTATT
117049571 -ATTAAATATATTATT
1 AATTAAATATATTATT
* *
117049586 AATAAAATATATAATTT
1 AATTAAATATATTA-TT
* *
117049603 AATAAAAT-TATTAAT
1 AATTAAATATATTATT
117049618 AAT
1 AAT
117049621 CAATATTCTT
Statistics
Matches: 43, Mismatches: 4, Indels: 7
0.80 0.07 0.13
Matches are distributed among these distances:
14 3 0.07
15 15 0.35
16 15 0.35
17 10 0.23
ACGTcount: A:0.55, C:0.02, G:0.00, T:0.44
Consensus pattern (16 bp):
AATTAAATATATTATT
Found at i:117049617 original size:17 final size:17
Alignment explanation
Indices: 117049574--117049610 Score: 58
Period size: 17 Copynumber: 2.2 Consensus size: 17
117049564 AATTATTATT
*
117049574 AAATATATTA-TTAATA
1 AAATATATAATTTAATA
117049590 AAATATATAATTTAATA
1 AAATATATAATTTAATA
117049607 AAAT
1 AAAT
117049611 TATTAATAAT
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
16 9 0.47
17 10 0.53
ACGTcount: A:0.59, C:0.00, G:0.00, T:0.41
Consensus pattern (17 bp):
AAATATATAATTTAATA
Found at i:117049717 original size:18 final size:18
Alignment explanation
Indices: 117049696--117049743 Score: 50
Period size: 18 Copynumber: 2.8 Consensus size: 18
117049686 TTATTATTAA
117049696 ATATATTATAATTAAAAT
1 ATATATTATAATTAAAAT
117049714 ATATAATT-TAA-TAAAAT
1 ATAT-ATTATAATTAAAAT
*
117049731 -TAT-TAATAATTAA
1 ATATATTATAATTAA
117049744 TATTCTTATA
Statistics
Matches: 26, Mismatches: 1, Indels: 8
0.74 0.03 0.23
Matches are distributed among these distances:
14 1 0.04
15 3 0.12
16 6 0.23
17 6 0.23
18 7 0.27
19 3 0.12
ACGTcount: A:0.56, C:0.00, G:0.00, T:0.44
Consensus pattern (18 bp):
ATATATTATAATTAAAAT
Found at i:117049724 original size:14 final size:15
Alignment explanation
Indices: 117049675--117049726 Score: 56
Period size: 15 Copynumber: 3.6 Consensus size: 15
117049665 ATAAAATATA
117049675 AATTAACATA-ATTAT
1 AATTAA-ATATATTAT
*
117049690 TATTAAATATATTAT
1 AATTAAATATATTAT
117049705 AATTAAA-ATA-TAT
1 AATTAAATATATTAT
*
117049718 AATTTAATA
1 AATTAAATA
117049727 AAATTATTAA
Statistics
Matches: 32, Mismatches: 3, Indels: 5
0.80 0.08 0.12
Matches are distributed among these distances:
13 9 0.28
14 7 0.22
15 16 0.50
ACGTcount: A:0.54, C:0.02, G:0.00, T:0.44
Consensus pattern (15 bp):
AATTAAATATATTAT
Found at i:117049735 original size:44 final size:43
Alignment explanation
Indices: 117049532--117049615 Score: 98
Period size: 44 Copynumber: 1.9 Consensus size: 43
117049522 CTCAAATCAT
* *
117049532 AATATATGATACTATAAAATATAAATTAACATAATTATTATTA
1 AATATATGATAATATAAAATATAAATTAACAAAATTATTATTA
* * *
117049575 AATATATTATTAATA-AAATATATAATTTAATAAAATTATTA
1 AATATATGA-TAATATAAA-ATATAAATTAACAAAATTATTA
117049616 ATAATCAATA
Statistics
Matches: 34, Mismatches: 5, Indels: 3
0.81 0.12 0.07
Matches are distributed among these distances:
43 11 0.32
44 23 0.68
ACGTcount: A:0.55, C:0.02, G:0.01, T:0.42
Consensus pattern (43 bp):
AATATATGATAATATAAAATATAAATTAACAAAATTATTATTA
Found at i:117049862 original size:120 final size:120
Alignment explanation
Indices: 117048959--117049851 Score: 1470
Period size: 120 Copynumber: 7.4 Consensus size: 120
117048949 ATCATATTTA
117048959 AACATAATTATTATTAAATATATTTTAATTAAAATATATAATTTAATAAAATTCTTAATAATTAA
1 AACATAATTATTATTAAATATATTTTAATTAAAATATATAATTTAATAAAATTCTTAATAATTAA
* * *
117049024 TATTCTTATATTAATTTACTGAAATCATAATATATGATACTGTAAAATATAAATT
66 TATTCTTATATGAATTTACTCAAATCATAATATATGATACTATAAAATATAAATT
*
117049079 AACATAATTATTATTAAATATATTTTAATTAAATTATATAATTTAATAAAATTCTTAATAATTAA
1 AACATAATTATTATTAAATATATTTTAATTAAAATATATAATTTAATAAAATTCTTAATAATTAA
* * *
117049144 TATTCTTATATTAATTTACTGAAATCATAATATATGATACTGTAAAATATAAATT
66 TATTCTTATATGAATTTACTCAAATCATAATATATGATACTATAAAATATAAATT
*
117049199 AACATAATTATTATTAAATATATTTTAATTAAAATATATAATTTAATGAAATTCTTAATAATTAA
1 AACATAATTATTATTAAATATATTTTAATTAAAATATATAATTTAATAAAATTCTTAATAATTAA
* * *
117049264 TATTCTTATATTAATTTACTCAAATTATAATATATGATACTGTAAAATATAAATT
66 TATTCTTATATGAATTTACTCAAATCATAATATATGATACTATAAAATATAAATT
* * *
117049319 AACATAATTATTATTAAATATAATTTAATAAAAATATATAATTTAGTAAAATTCTTAAT-ATTAA
1 AACATAATTATTATTAAATATATTTTAATTAAAATATATAATTTAATAAAATTCTTAATAATT-A
* * * *
117049383 ATATTCTTATATGAATTTTCTAAAATCATAATATATAATACTATAAAATATAATTT
65 ATATTCTTATATGAATTTACTCAAATCATAATATATGATACTATAAAATATAAATT
* *
117049439 AACATAATTATTATTAAATATAATTTAATAAAAATATATAATTTAATAAAATTCTTAAT-ATTAA
1 AACATAATTATTATTAAATATATTTTAATTAAAATATATAATTTAATAAAATTCTTAATAATT-A
117049503 ATATTCTTATATGAATTTACTCAAATCATAATATATGATACTATAAAATATAAATT
65 ATATTCTTATATGAATTTACTCAAATCATAATATATGATACTATAAAATATAAATT
* *
117049559 AACATAATTATTATTAAATATATTATTAA-TAAAATATATAATTTAATAAAATTATTAATAATCA
1 AACATAATTATTATTAAATATATT-TTAATTAAAATATATAATTTAATAAAATTCTTAATAATTA
117049623 ATATTCTTATATGAATTTACTCAAATCATAATATATGATACTATAAAATATAAATT
65 ATATTCTTATATGAATTTACTCAAATCATAATATATGATACTATAAAATATAAATT
* *
117049679 AACATAATTATTATTAAATATATTATAATTAAAATATATAATTTAATAAAATTATTAATAATTAA
1 AACATAATTATTATTAAATATATTTTAATTAAAATATATAATTTAATAAAATTCTTAATAATTAA
* *
117049744 TATTCTTATATGAATTTACTCAAATCATAATATATGATACTATAAAAGATAATTT
66 TATTCTTATATGAATTTACTCAAATCATAATATATGATACTATAAAATATAAATT
* *
117049799 GAA-ATAATTAATATTAAATATATTTTAATTAAAATATATGATTTAATAAAATT
1 -AACATAATTATTATTAAATATATTTTAATTAAAATATATAATTTAATAAAATT
117049852 TAAAATAATT
Statistics
Matches: 736, Mismatches: 32, Indels: 10
0.95 0.04 0.01
Matches are distributed among these distances:
119 6 0.01
120 722 0.98
121 8 0.01
ACGTcount: A:0.49, C:0.05, G:0.02, T:0.43
Consensus pattern (120 bp):
AACATAATTATTATTAAATATATTTTAATTAAAATATATAATTTAATAAAATTCTTAATAATTAA
TATTCTTATATGAATTTACTCAAATCATAATATATGATACTATAAAATATAAATT
Found at i:117049898 original size:101 final size:93
Alignment explanation
Indices: 117049792--117050075 Score: 317
Period size: 91 Copynumber: 3.0 Consensus size: 93
117049782 ACTATAAAAG
* * * *
117049792 ATAATTTGAAATAATTAATATTAAATATATTTTAATTAA-AATATATGATTTAATAAAATTTAAA
1 ATAATTTAAAATAATTAATATTAAATATAATTTAA-TAATAATATATAATTTCATAAAATTT---
*
117049856 ATAATTACAACTAATAAATTATCTTATATGAATTTGT
62 -T-ATT--AA-TAATAAATTATCTTATATGAATTTAT
* * *
117049893 ATAATTTAAAATAATTATTATTACATATAATTTAATAATAATATATAATTTCATAAAA--TTCTT
1 ATAATTTAAAATAATTAATATTAAATATAATTTAATAATAATATATAATTTCATAAAATTTTATT
* *
117049956 GATAATAAATTTTCTTATATGAATTTAT
66 AATAATAAATTATCTTATATGAATTTAT
* * *
117049984 ACAATTTAAAATAATTAATATTAAATATAATTTAATAATGATATATAATTTCATAAAA--TTCTT
1 ATAATTTAAAATAATTAATATTAAATATAATTTAATAATAATATATAATTTCATAAAATTTTATT
* *
117050047 GATAATAAATTTTCTTATATGAATTTAT
66 AATAATAAATTATCTTATATGAATTTAT
117050075 A
1 A
117050076 CAATAGATAT
Statistics
Matches: 168, Mismatches: 14, Indels: 12
0.87 0.07 0.06
Matches are distributed among these distances:
91 112 0.67
92 1 0.01
94 2 0.01
95 1 0.01
99 1 0.01
100 3 0.02
101 48 0.29
ACGTcount: A:0.48, C:0.04, G:0.03, T:0.45
Consensus pattern (93 bp):
ATAATTTAAAATAATTAATATTAAATATAATTTAATAATAATATATAATTTCATAAAATTTTATT
AATAATAAATTATCTTATATGAATTTAT
Found at i:117049921 original size:26 final size:28
Alignment explanation
Indices: 117049892--117049952 Score: 81
Period size: 28 Copynumber: 2.2 Consensus size: 28
117049882 TATGAATTTG
*
117049892 TATAATTTAA-AATAAT-TATTATTACA
1 TATAATTTAATAATAATATATAATTACA
*
117049918 TATAATTTAATAATAATATATAATTTCA
1 TATAATTTAATAATAATATATAATTACA
*
117049946 TAAAATT
1 TATAATT
117049953 CTTGATAATA
Statistics
Matches: 30, Mismatches: 3, Indels: 2
0.86 0.09 0.06
Matches are distributed among these distances:
26 10 0.33
27 6 0.20
28 14 0.47
ACGTcount: A:0.51, C:0.03, G:0.00, T:0.46
Consensus pattern (28 bp):
TATAATTTAATAATAATATATAATTACA
Found at i:117049950 original size:47 final size:46
Alignment explanation
Indices: 117049899--117050042 Score: 113
Period size: 47 Copynumber: 3.1 Consensus size: 46
117049889 TTGTATAATT
117049899 TAAAATAATTATTATTACATATAATTTAATAATAATATATAATTTCA
1 TAAAATAATTATTATTA-ATATAATTTAATAATAATATATAATTTCA
* ** * *
117049946 TAAAAT--TCT-TGA-TAATA-AATTTTCTTATATGAATTTATACAATT--
1 TAAAATAAT-TATTATTAATATAA-TTTAATA-AT-AATATATA-ATTTCA
* *
117049990 TAAAATAATTAATATTAAATATAATTTAATAATGATATATAATTTCA
1 TAAAATAATTATTATT-AATATAATTTAATAATAATATATAATTTCA
117050037 TAAAAT
1 TAAAAT
117050043 TCTTGATAAT
Statistics
Matches: 72, Mismatches: 12, Indels: 26
0.65 0.11 0.24
Matches are distributed among these distances:
42 2 0.03
43 8 0.11
44 10 0.14
45 14 0.19
46 12 0.17
47 15 0.21
48 9 0.12
49 2 0.03
ACGTcount: A:0.49, C:0.04, G:0.02, T:0.44
Consensus pattern (46 bp):
TAAAATAATTATTATTAATATAATTTAATAATAATATATAATTTCA
Found at i:117049962 original size:91 final size:91
Alignment explanation
Indices: 117049867--117050079 Score: 372
Period size: 91 Copynumber: 2.3 Consensus size: 91
117049857 TAATTACAAC
* * * * *
117049867 TAATAAATTATCTTATATGAATTTGTATAATTTAAAATAATTATTATTACATATAATTTAATAAT
1 TAATAAATTTTCTTATATGAATTTATACAATTTAAAATAATTAATATTAAATATAATTTAATAAT
117049932 AATATATAATTTCATAAAATTCTTGA
66 AATATATAATTTCATAAAATTCTTGA
117049958 TAATAAATTTTCTTATATGAATTTATACAATTTAAAATAATTAATATTAAATATAATTTAATAAT
1 TAATAAATTTTCTTATATGAATTTATACAATTTAAAATAATTAATATTAAATATAATTTAATAAT
*
117050023 GATATATAATTTCATAAAATTCTTGA
66 AATATATAATTTCATAAAATTCTTGA
117050049 TAATAAATTTTCTTATATGAATTTATACAAT
1 TAATAAATTTTCTTATATGAATTTATACAAT
117050080 AGATATTTAA
Statistics
Matches: 116, Mismatches: 6, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
91 116 1.00
ACGTcount: A:0.46, C:0.05, G:0.03, T:0.46
Consensus pattern (91 bp):
TAATAAATTTTCTTATATGAATTTATACAATTTAAAATAATTAATATTAAATATAATTTAATAAT
AATATATAATTTCATAAAATTCTTGA
Found at i:117050056 original size:47 final size:47
Alignment explanation
Indices: 117049917--117050056 Score: 139
Period size: 47 Copynumber: 3.0 Consensus size: 47
117049907 TTATTATTAC
*
117049917 ATATAATTTAATAATAATATATAATTTCATAAAATTCTTGATAATAA
1 ATATAATTTAATAATGATATATAATTTCATAAAATTCTTGATAATAA
* * * ** * *
117049964 AT-T--TTCTTAT-ATGAATTTATACAATT--TAAAATAATTAATATTAA
1 ATATAATT-TAATAATG-ATATATA-ATTTCATAAAATTCTTGATAATAA
117050008 ATATAATTTAATAATGATATATAATTTCATAAAATTCTTGATAATAA
1 ATATAATTTAATAATGATATATAATTTCATAAAATTCTTGATAATAA
117050055 AT
1 AT
117050057 TTTCTTATAT
Statistics
Matches: 69, Mismatches: 15, Indels: 18
0.68 0.15 0.18
Matches are distributed among these distances:
44 20 0.29
45 13 0.19
46 13 0.19
47 23 0.33
ACGTcount: A:0.49, C:0.04, G:0.03, T:0.44
Consensus pattern (47 bp):
ATATAATTTAATAATGATATATAATTTCATAAAATTCTTGATAATAA
Found at i:117057760 original size:16 final size:16
Alignment explanation
Indices: 117057719--117057760 Score: 50
Period size: 16 Copynumber: 2.6 Consensus size: 16
117057709 ATATTAAACC
*
117057719 AAAAATCCATATAAAT
1 AAAAATCCAAATAAAT
*
117057735 AAAAAACCAAAT-AAT
1 AAAAATCCAAATAAAT
117057750 AAAAAGTCCAA
1 AAAAA-TCCAA
117057761 TTATTAGTCC
Statistics
Matches: 22, Mismatches: 3, Indels: 2
0.81 0.11 0.07
Matches are distributed among these distances:
15 8 0.36
16 14 0.64
ACGTcount: A:0.67, C:0.14, G:0.02, T:0.17
Consensus pattern (16 bp):
AAAAATCCAAATAAAT
Found at i:117060300 original size:127 final size:127
Alignment explanation
Indices: 117060126--117060448 Score: 387
Period size: 127 Copynumber: 2.5 Consensus size: 127
117060116 GAAAATTCCT
* * * * * ** * *
117060126 TAAAACCAAGGAAATATTCGATGTTTAGAAATTCGGGGAATAGTGCCCCATCGTGCTGGGTTTCG
1 TAAAA-CAAGGCAATGTTCAATATTTGGAAATTCAAGGAATCGTGCCCTATCGTGCTGGGTTTCG
** *
117060191 ATTTCCTGTTTGTTCAAAATAATCGAATATTCCTTTAGAATTTTACTCATGTTTTCTAAATCC
65 ATTTCCTGTTTGCCCAAAATAATCGAATATTCCTTTAGAATTTCACTCATGTTTTCTAAATCC
** *
117060254 TAAAACAAGGCAATGTTTGATATTTGGAAATTCAAGGAA-CTGTGCCCTATAGTGCTGGGTTTCG
1 TAAAACAAGGCAATGTTCAATATTTGGAAATTCAAGGAATC-GTGCCCTATCGTGCTGGGTTTCG
* * * * * *
117060318 ATTTCCTGTTTGCCCAAAATAGTCGAATATTTCTTTGGGATTTCACTCGTGTTTTCTAAATTC
65 ATTTCCTGTTTGCCCAAAATAATCGAATATTCCTTTAGAATTTCACTCATGTTTTCTAAATCC
* * * * *
117060381 TAAGATAAGGCAATGTTCAATGTTTGGAAATTCAAGGAATCGTGCCCTACCATGCTGGGTTTCGA
1 TAAAACAAGGCAATGTTCAATATTTGGAAATTCAAGGAATCGTGCCCTATCGTGCTGGGTTTCGA
117060446 TTT
66 TTT
117060449 TTCGTTGGAC
Statistics
Matches: 166, Mismatches: 27, Indels: 5
0.84 0.14 0.03
Matches are distributed among these distances:
127 160 0.96
128 6 0.04
ACGTcount: A:0.28, C:0.17, G:0.20, T:0.36
Consensus pattern (127 bp):
TAAAACAAGGCAATGTTCAATATTTGGAAATTCAAGGAATCGTGCCCTATCGTGCTGGGTTTCGA
TTTCCTGTTTGCCCAAAATAATCGAATATTCCTTTAGAATTTCACTCATGTTTTCTAAATCC
Found at i:117061062 original size:16 final size:17
Alignment explanation
Indices: 117061026--117061069 Score: 54
Period size: 16 Copynumber: 2.6 Consensus size: 17
117061016 AACCCAATCC
*
117061026 AAATAATTAATTTTTATT
1 AAATAATTAA-TTTTAAT
117061044 AAATAATTAA-TTTAAT
1 AAATAATTAATTTTAAT
*
117061060 AAAAAATTAA
1 AAATAATTAA
117061070 AATTCCTAAA
Statistics
Matches: 24, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
16 14 0.58
18 10 0.42
ACGTcount: A:0.57, C:0.00, G:0.00, T:0.43
Consensus pattern (17 bp):
AAATAATTAATTTTAAT
Found at i:117061073 original size:18 final size:17
Alignment explanation
Indices: 117061055--117061088 Score: 50
Period size: 17 Copynumber: 2.0 Consensus size: 17
117061045 AATAATTAAT
117061055 TTAATAAAAAATTAAAA
1 TTAATAAAAAATTAAAA
**
117061072 TTCCTAAAAAATTAAAA
1 TTAATAAAAAATTAAAA
117061089 ATAAGTTAGT
Statistics
Matches: 15, Mismatches: 2, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
17 15 1.00
ACGTcount: A:0.65, C:0.06, G:0.00, T:0.29
Consensus pattern (17 bp):
TTAATAAAAAATTAAAA
Found at i:117079912 original size:22 final size:22
Alignment explanation
Indices: 117079886--117079929 Score: 79
Period size: 22 Copynumber: 2.0 Consensus size: 22
117079876 TTTATTATAC
117079886 TTAGCATAAACAGATAACTACT
1 TTAGCATAAACAGATAACTACT
*
117079908 TTAGCATAAACAGCTAACTACT
1 TTAGCATAAACAGATAACTACT
117079930 GTGGGCTTTG
Statistics
Matches: 21, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
22 21 1.00
ACGTcount: A:0.43, C:0.20, G:0.09, T:0.27
Consensus pattern (22 bp):
TTAGCATAAACAGATAACTACT
Found at i:117086695 original size:21 final size:21
Alignment explanation
Indices: 117086669--117086708 Score: 80
Period size: 21 Copynumber: 1.9 Consensus size: 21
117086659 GGTTGAACTT
117086669 GTTACCACGAAGGTCAATCTC
1 GTTACCACGAAGGTCAATCTC
117086690 GTTACCACGAAGGTCAATC
1 GTTACCACGAAGGTCAATC
117086709 ACTACTTGGG
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
21 19 1.00
ACGTcount: A:0.30, C:0.28, G:0.20, T:0.23
Consensus pattern (21 bp):
GTTACCACGAAGGTCAATCTC
Found at i:117092072 original size:29 final size:28
Alignment explanation
Indices: 117092029--117092121 Score: 114
Period size: 29 Copynumber: 3.2 Consensus size: 28
117092019 ACGGGCGTGT
* *
117092029 GACACGGCAGTGTGAGATCAATGTTGGGC
1 GACACGGCCGTGTGAGA-CAGTGTTGGGC
*
117092058 AACACGGCCGTGTGAGACTAGTGTTGGGC
1 GACACGGCCGTGTGAGAC-AGTGTTGGGC
* *
117092087 GACAGGGTCGTGTGAGACCAGTGTTGGGC
1 GACACGGCCGTGTGAGA-CAGTGTTGGGC
117092116 GACACG
1 GACACG
117092122 ACCATACCTC
Statistics
Matches: 55, Mismatches: 7, Indels: 4
0.83 0.11 0.06
Matches are distributed among these distances:
28 1 0.02
29 53 0.96
30 1 0.02
ACGTcount: A:0.22, C:0.19, G:0.40, T:0.19
Consensus pattern (28 bp):
GACACGGCCGTGTGAGACAGTGTTGGGC
Found at i:117095751 original size:10 final size:10
Alignment explanation
Indices: 117095736--117095785 Score: 75
Period size: 10 Copynumber: 5.0 Consensus size: 10
117095726 GATTTTTTTC
117095736 ATTTATCTTT
1 ATTTATCTTT
117095746 ATTTATCTTT
1 ATTTATCTTT
*
117095756 AATTATCTTT
1 ATTTATCTTT
117095766 ATTTAT-TTAT
1 ATTTATCTT-T
117095776 ATTTATCTTT
1 ATTTATCTTT
117095786 TAGAATTTAA
Statistics
Matches: 36, Mismatches: 2, Indels: 4
0.86 0.05 0.10
Matches are distributed among these distances:
9 2 0.06
10 32 0.89
11 2 0.06
ACGTcount: A:0.24, C:0.08, G:0.00, T:0.68
Consensus pattern (10 bp):
ATTTATCTTT
Found at i:117107286 original size:20 final size:20
Alignment explanation
Indices: 117107261--117107300 Score: 71
Period size: 20 Copynumber: 2.0 Consensus size: 20
117107251 TGGCAGTTCA
117107261 ATTAGATTTTAAGTACCAAC
1 ATTAGATTTTAAGTACCAAC
*
117107281 ATTAGATTTTAAGTGCCAAC
1 ATTAGATTTTAAGTACCAAC
117107301 TTGAATTTCC
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
20 19 1.00
ACGTcount: A:0.38, C:0.15, G:0.12, T:0.35
Consensus pattern (20 bp):
ATTAGATTTTAAGTACCAAC
Found at i:117108031 original size:17 final size:17
Alignment explanation
Indices: 117108011--117108044 Score: 50
Period size: 17 Copynumber: 2.0 Consensus size: 17
117108001 AGGTTTAGGT
117108011 TTAAAAATTTTAATTAA
1 TTAAAAATTTTAATTAA
**
117108028 TTAAATTTTTTAATTAA
1 TTAAAAATTTTAATTAA
117108045 AAATCTATTT
Statistics
Matches: 15, Mismatches: 2, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
17 15 1.00
ACGTcount: A:0.47, C:0.00, G:0.00, T:0.53
Consensus pattern (17 bp):
TTAAAAATTTTAATTAA
Found at i:117113407 original size:17 final size:17
Alignment explanation
Indices: 117113387--117113424 Score: 58
Period size: 17 Copynumber: 2.2 Consensus size: 17
117113377 GATAGAATTT
117113387 AATTAAAATTTAAAAAA
1 AATTAAAATTTAAAAAA
* *
117113404 AATTGAAATTTAATAAA
1 AATTAAAATTTAAAAAA
117113421 AATT
1 AATT
117113425 TTCAATTATT
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
17 19 1.00
ACGTcount: A:0.63, C:0.00, G:0.03, T:0.34
Consensus pattern (17 bp):
AATTAAAATTTAAAAAA
Found at i:117116248 original size:113 final size:112
Alignment explanation
Indices: 117116056--117116722 Score: 588
Period size: 114 Copynumber: 5.9 Consensus size: 112
117116046 TTACCACAAT
* * * * * * *
117116056 GCGCCGCGAAATCTCTTAACCAAAACGCTGTGTTTTCGTCTTGATGTATCTTAAAAGTAGTGGCG
1 GCGCCGCAAAATATCTTAACCAAAACGCAGAGTTTTGGTCTTGATGTATCTTAGAATTAGTGGCG
* * * * * *
117116121 TTTACGCGAAACGCCATTAAAGGACAGTAATAGCGGCGCTTTCTGGAA
66 CTTAAG-GAAACGCCGTTAAAGAATAGTAATAGCGGCGCTTTGTGGAA
* * *
117116169 ACGCCGCAAAATAGCTTAACCAAAACGCAGAG-TTTGGTCTTGAGGTATCTTAGAATTAGTGGCG
1 GCGCCGCAAAATATCTTAACCAAAACGCAGAGTTTTGGTCTTGATGTATCTTAGAATTAGTGGCG
* * * * *
117116233 TTTATAGGAAAACGCCGTTAAAGTACAGTAATAGCGACGCTTTATGGAA
66 CTTA-AGG-AAACGCCGTTAAAGAATAGTAATAGCGGCGCTTTGTGGAA
* * * * ** * *
117116282 GCGCCGCAAACTATCTTAAGCGAAACACATCGTTTTGGTCTTGATTTATAC-TAGAACTAGTGGC
1 GCGCCGCAAAATATCTTAACCAAAACGCAGAGTTTTGGTCTTGATGTAT-CTTAGAATTAGTGGC
* * * * **
117116346 GCATAAGGTCAAACGCCGCTAAAGAATAGTATTAGCGGCGATTTGTAGCTA
65 GCTTAAGG--AAACGCCGTTAAAGAATAGTAATAGCGGCGCTTTGT-GGAA
* * * * * * *
117116397 GCGCCACAAAATATCTTAACAAAAACGCAGCGTTTTGATCTTAATGTAT-ATAAAATTAGTGGCG
1 GCGCCGCAAAATATCTTAACCAAAACGCAGAGTTTTGGTCTTGATGTATCTTAGAATTAGTGGCG
* * *
117116461 CTTACGGTAAACCGCCGCTAAAGAATATTAATAGCGGCGCTTTGTGAGAA
66 CTTAAGG-AAA-CGCCGTTAAAGAATAGTAATAGCGGCGCTTTGTG-GAA
* * * * **
117116511 GCGCCGCAAAATATCTTAACCAAAACGCATAATTTTGGCCTCGATGTATAGTAGAATTAGTGGCG
1 GCGCCGCAAAATATCTTAACCAAAACGCAGAGTTTTGGTCTTGATGTATCTTAGAATTAGTGGCG
* * * **
117116576 CTT-AGTGAAACGCCGTTAAAGCATAGTATTAGCGGCGATTTGTAGCTA
66 CTTAAG-GAAACGCCGTTAAAGAATAGTAATAGCGGCGCTTTGT-GGAA
* * * * * *
117116624 GCGCCGCAAAATATCTTAACAAAAACGCAGTGTTTTGATCTTAATGTAT-ATAAAATTAGTGGCG
1 GCGCCGCAAAATATCTTAACCAAAACGCAGAGTTTTGGTCTTGATGTATCTTAGAATTAGTGGCG
* * *
117116688 CTTACGGTAAACCGCCGCTAAAGAATATTAATAGC
66 CTTAAGG-AAA-CGCCGTTAAAGAATAGTAATAGC
117116723 AGCAAAATAT
Statistics
Matches: 447, Mismatches: 92, Indels: 29
0.79 0.16 0.05
Matches are distributed among these distances:
112 50 0.11
113 168 0.38
114 170 0.38
115 59 0.13
ACGTcount: A:0.32, C:0.19, G:0.22, T:0.27
Consensus pattern (112 bp):
GCGCCGCAAAATATCTTAACCAAAACGCAGAGTTTTGGTCTTGATGTATCTTAGAATTAGTGGCG
CTTAAGGAAACGCCGTTAAAGAATAGTAATAGCGGCGCTTTGTGGAA
Found at i:117116624 original size:227 final size:226
Alignment explanation
Indices: 117116170--117116953 Score: 836
Period size: 208 Copynumber: 3.5 Consensus size: 226
117116160 TTTCTGGAAA
* * * * * * * * * *
117116170 CGCCGCAAAATAGCTTAACCAAAACGCAGAG-TTTGGTCTTGAGGTATCTTAGAATTAGTGGCGT
1 CGCCACAAAATATCTTAACAAAAACGCAGCGTTTTGATCTTAATGTAT-ATAAAATTAGTGGCGC
* * * * * * *
117116234 TTATAGG-AAAACGCCGTTAAAGTACAGTAATAGCGACGCTTTATGGAAGCGCCGCAAACTATCT
65 TTA-CGGTAAAACGCCGCTAAAGAATAGTAATAGCGGCGCTTTGTGGAAGCGCCGCAAAATATCT
* * * ** * * * * * * *
117116298 TAAGCGAAACACATCGTTTTGGTCTTGATTTATACTAGAACTAGTGGCGCATAAGGTCAAACGCC
129 TAACCAAAACGCATAATTTTGGCCTCGATGTATAGTAGAATTAGTGGCGC-TTA-GTGAAACGCC
* *
117116363 GCTAAAGAATAGTATTAGCGGCGATTTGTAGCTAG
192 GTTAAAGCATAGTATTAGCGGCGATTTGTAGCTAG
117116398 CGCCACAAAATATCTTAACAAAAACGCAGCGTTTTGATCTTAATGTATATAAAATTAGTGGCGCT
1 CGCCACAAAATATCTTAACAAAAACGCAGCGTTTTGATCTTAATGTATATAAAATTAGTGGCGCT
* *
117116463 TACGGTAAACCGCCGCTAAAGAATATTAATAGCGGCGCTTTGTGAGAAGCGCCGCAAAATATCTT
66 TACGGTAAAACGCCGCTAAAGAATAGTAATAGCGGCGCTTTGTG-GAAGCGCCGCAAAATATCTT
117116528 AACCAAAACGCATAATTTTGGCCTCGATGTATAGTAGAATTAGTGGCGCTTAGTGAAACGCCGTT
130 AACCAAAACGCATAATTTTGGCCTCGATGTATAGTAGAATTAGTGGCGCTTAGTGAAACGCCGTT
117116593 AAAGCATAGTATTAGCGGCGATTTGTAGCTAG
195 AAAGCATAGTATTAGCGGCGATTTGTAGCTAG
* *
117116625 CGCCGCAAAATATCTTAACAAAAACGCAGTGTTTTGATCTTAATGTATATAAAATTAGTGGCGCT
1 CGCCACAAAATATCTTAACAAAAACGCAGCGTTTTGATCTTAATGTATATAAAATTAGTGGCGCT
* *
117116690 TACGGTAAACCGCCGCTAAAGAATATTAATA-----GC--------A-----GCAAAATATCTTA
66 TACGGTAAAACGCCGCTAAAGAATAGTAATAGCGGCGCTTTGTGGAAGCGCCGCAAAATATCTTA
117116737 ACCAAAACGCATAATTTTGGCCTCGATGTATAGTAGAATTAGTGGCGCTTAGTGAAACGCCGTTA
131 ACCAAAACGCATAATTTTGGCCTCGATGTATAGTAGAATTAGTGGCGCTTAGTGAAACGCCGTTA
* * **
117116802 AAGCATAGTATTAGCGGCGCTTGGATA-AAAG
196 AAGCATAGTATTAGCGGCGATTTG-TAGCTAG
* * * * * * * ** * *
117116833 CGCCACCAAGTATCTGAACCAAAACGCATCGTTTTGGTCTTGATGTATACTTGATTTAGTGGCGA
1 CGCCACAAAATATCTTAACAAAAACGCAGCGTTTTGATCTTAATGTATA-TAAAATTAGTGGCGC
* * * * *
117116898 TTTCGGTAAAACGCCGCTAAAGCATAGTATTAGCGGCGATTTGTTGATAGCGCCGC
65 TTACGGTAAAACGCCGCTAAAGAATAGTAATAGCGGCGCTTTGTGGA-AGCGCCGC
117116954 GACTTACCAT
Statistics
Matches: 474, Mismatches: 58, Indels: 48
0.82 0.10 0.08
Matches are distributed among these distances:
208 142 0.30
209 40 0.08
213 1 0.00
214 1 0.00
222 2 0.00
223 1 0.00
227 138 0.29
228 78 0.16
229 71 0.15
ACGTcount: A:0.32, C:0.19, G:0.22, T:0.27
Consensus pattern (226 bp):
CGCCACAAAATATCTTAACAAAAACGCAGCGTTTTGATCTTAATGTATATAAAATTAGTGGCGCT
TACGGTAAAACGCCGCTAAAGAATAGTAATAGCGGCGCTTTGTGGAAGCGCCGCAAAATATCTTA
ACCAAAACGCATAATTTTGGCCTCGATGTATAGTAGAATTAGTGGCGCTTAGTGAAACGCCGTTA
AAGCATAGTATTAGCGGCGATTTGTAGCTAG
Found at i:117117241 original size:14 final size:14
Alignment explanation
Indices: 117117172--117117242 Score: 56
Period size: 14 Copynumber: 5.0 Consensus size: 14
117117162 ACAGTGTAAA
*
117117172 GTTTAAAGTTTAGG
1 GTTTAAGGTTTAGG
* * *
117117186 GTTTACGATGTA-G
1 GTTTAAGGTTTAGG
117117199 GTTTAAGG-TTAGG
1 GTTTAAGGTTTAGG
*
117117212 GTATTAGGGTGTTTAGG
1 GT-TTA-AG-GTTTAGG
117117229 GTTTAAGGTTTAGG
1 GTTTAAGGTTTAGG
117117243 AGTCTGGGGT
Statistics
Matches: 43, Mismatches: 9, Indels: 10
0.69 0.15 0.16
Matches are distributed among these distances:
12 2 0.05
13 10 0.23
14 18 0.42
15 2 0.05
16 4 0.09
17 7 0.16
ACGTcount: A:0.23, C:0.01, G:0.35, T:0.41
Consensus pattern (14 bp):
GTTTAAGGTTTAGG
Found at i:117118410 original size:22 final size:22
Alignment explanation
Indices: 117118384--117118430 Score: 85
Period size: 22 Copynumber: 2.1 Consensus size: 22
117118374 ACTATTCCGA
*
117118384 TTAAATATGTAAGGCGTTTCTG
1 TTAAATAGGTAAGGCGTTTCTG
117118406 TTAAATAGGTAAGGCGTTTCTG
1 TTAAATAGGTAAGGCGTTTCTG
117118428 TTA
1 TTA
117118431 TTACAGCCAC
Statistics
Matches: 24, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
22 24 1.00
ACGTcount: A:0.28, C:0.09, G:0.23, T:0.40
Consensus pattern (22 bp):
TTAAATAGGTAAGGCGTTTCTG
Found at i:117118812 original size:36 final size:36
Alignment explanation
Indices: 117118770--117118885 Score: 114
Period size: 36 Copynumber: 3.2 Consensus size: 36
117118760 GTTGTTATGT
117118770 TCTGAAATATGCTTTGGATTTGAAATAATTTCTGAG
1 TCTGAAATATGCTTTGGATTTGAAATAATTTCTGAG
* ** * * *
117118806 TCTGAAATA--ATTTGTTTTTG--ATTATGTTGTTATG
1 TCTGAAATATGCTTTGGATTTGAAATAAT-TTCTGA-G
*
117118840 TTCTGAAATATGCTTTGGATTTGAAATAATTTTTGAG
1 -TCTGAAATATGCTTTGGATTTGAAATAATTTCTGAG
117118877 TCTGAAATA
1 TCTGAAATA
117118886 ATTTGTTTTT
Statistics
Matches: 61, Mismatches: 12, Indels: 14
0.70 0.14 0.16
Matches are distributed among these distances:
32 4 0.07
33 4 0.07
34 9 0.15
35 9 0.15
36 18 0.30
37 9 0.15
38 4 0.07
39 4 0.07
ACGTcount: A:0.29, C:0.06, G:0.18, T:0.47
Consensus pattern (36 bp):
TCTGAAATATGCTTTGGATTTGAAATAATTTCTGAG
Found at i:117118836 original size:71 final size:71
Alignment explanation
Indices: 117118737--117118937 Score: 368
Period size: 71 Copynumber: 2.8 Consensus size: 71
117118727 TGAGTGGATT
117118737 TGAAATAATTTGTTTTTGATTATGTTGTTATGTTCTGAAATATGCTTTGGATTTGAAATAATTTC
1 TGAAATAATTTGTTTTTGATTATGTTGTTATGTTCTGAAATATGCTTTGGATTTGAAATAATTTC
117118802 TGAGTC
66 TGAGTC
*
117118808 TGAAATAATTTGTTTTTGATTATGTTGTTATGTTCTGAAATATGCTTTGGATTTGAAATAATTTT
1 TGAAATAATTTGTTTTTGATTATGTTGTTATGTTCTGAAATATGCTTTGGATTTGAAATAATTTC
117118873 TGAGTC
66 TGAGTC
*
117118879 TGAAATAATTTGTTTTTGATTATGTTGTTATGTTCTGAATTATGCTTTGG-TTCTGAAAT
1 TGAAATAATTTGTTTTTGATTATGTTGTTATGTTCTGAAATATGCTTTGGATT-TGAAAT
117118938 CTGGATCTGG
Statistics
Matches: 127, Mismatches: 2, Indels: 2
0.97 0.02 0.02
Matches are distributed among these distances:
70 2 0.02
71 125 0.98
ACGTcount: A:0.26, C:0.05, G:0.18, T:0.51
Consensus pattern (71 bp):
TGAAATAATTTGTTTTTGATTATGTTGTTATGTTCTGAAATATGCTTTGGATTTGAAATAATTTC
TGAGTC
Found at i:117119092 original size:14 final size:14
Alignment explanation
Indices: 117119073--117119102 Score: 60
Period size: 14 Copynumber: 2.1 Consensus size: 14
117119063 ATAAAAGGTT
117119073 TTTAGTTAATCATC
1 TTTAGTTAATCATC
117119087 TTTAGTTAATCATC
1 TTTAGTTAATCATC
117119101 TT
1 TT
117119103 GCTGTTCGTG
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 16 1.00
ACGTcount: A:0.27, C:0.13, G:0.07, T:0.53
Consensus pattern (14 bp):
TTTAGTTAATCATC
Found at i:117121741 original size:17 final size:17
Alignment explanation
Indices: 117121719--117122017 Score: 161
Period size: 17 Copynumber: 16.6 Consensus size: 17
117121709 GTTAAATTTA
117121719 TTACTAAAATACATTAC
1 TTACTAAAATACATTAC
*
117121736 TTACTAAAATAAATTAC
1 TTACTAAAATACATTAC
*
117121753 TTACTAAAATTTGTTTAAATTTA-
1 TTACTAAAA------TACA-TTAC
117121776 TTACTAAAATACATTAC
1 TTACTAAAATACATTAC
117121793 TTACTAAAATACATTAC
1 TTACTAAAATACATTAC
* *
117121810 TTACATAAATTTGTTTAAATTTA-
1 TTAC-TAAA-----ATACA-TTAC
*
117121833 TTTCTAAAATACATTAC
1 TTACTAAAATACATTAC
*
117121850 TTACTAAAATTTGTTTAAATTTA-
1 TTACTAAAA------TACA-TTAC
117121873 TTACTAAAATACATTAC
1 TTACTAAAATACATTAC
117121890 TTACTAAAATACATTAC
1 TTACTAAAATACATTAC
*
117121907 TTACTAAAAT---TT-G
1 TTACTAAAATACATTAC
** *
117121920 TT--T-AAATTTATTAA
1 TTACTAAAATACATTAC
*
117121934 TTACTTAAATACATTAC
1 TTACTAAAATACATTAC
*
117121951 TTACTAAAATTTGTTTAAATTTA-
1 TTACTAAAA------TACA-TTAC
117121974 TTACTAAAATACATTAC
1 TTACTAAAATACATTAC
117121991 TTACTAAAATACATTAC
1 TTACTAAAATACATTAC
117122008 TTACTAAAAT
1 TTACTAAAAT
117122018 TTGTTTAAAT
Statistics
Matches: 225, Mismatches: 18, Indels: 78
0.70 0.06 0.24
Matches are distributed among these distances:
10 4 0.02
11 1 0.00
13 4 0.02
14 4 0.02
16 13 0.06
17 136 0.60
18 4 0.02
22 4 0.02
23 43 0.19
24 12 0.05
ACGTcount: A:0.44, C:0.12, G:0.02, T:0.43
Consensus pattern (17 bp):
TTACTAAAATACATTAC
Found at i:117121792 original size:40 final size:40
Alignment explanation
Indices: 117121736--117121899 Score: 157
Period size: 40 Copynumber: 3.7 Consensus size: 40
117121726 AATACATTAC
*
117121736 TTACTAAAATAAATTACTTACTAAAATTTGTTTAAATTTA
1 TTACTAAAATACATTACTTACTAAAATTTGTTTAAATTTA
*
117121776 TTACTAAAATACATTACTTACTAAAATACATTACTTACATAAATTTGTTTAAA
1 TTACTAAAATACATTACTTACTAAAAT---TT-GTT---TAAA----TTT--A
117121829 TTTATTTCTAAAATACATTACTTACTAAAATTTGTTTAAATTTA
1 -TTA---CTAAAATACATTACTTACTAAAATTTGTTTAAATTTA
117121873 TTACTAAAATACATTACTTACTAAAAT
1 TTACTAAAATACATTACTTACTAAAAT
117121900 ACATTACTTA
Statistics
Matches: 104, Mismatches: 3, Indels: 34
0.74 0.02 0.24
Matches are distributed among these distances:
40 50 0.48
43 5 0.05
44 3 0.03
46 3 0.03
47 4 0.04
50 4 0.04
51 3 0.03
53 3 0.03
54 5 0.05
57 24 0.23
ACGTcount: A:0.44, C:0.11, G:0.02, T:0.43
Consensus pattern (40 bp):
TTACTAAAATACATTACTTACTAAAATTTGTTTAAATTTA
Found at i:117121798 original size:57 final size:57
Alignment explanation
Indices: 117121710--117121859 Score: 266
Period size: 57 Copynumber: 2.6 Consensus size: 57
117121700 CGATTGAATG
117121710 TTAAATTTATTACTAAAATACATTACTTACTAAAATAAATTACTTAC-TAAAATTTGT
1 TTAAATTTATTACTAAAATACATTACTTACTAAAATAAATTACTTACAT-AAATTTGT
*
117121767 TTAAATTTATTACTAAAATACATTACTTACTAAAATACATTACTTACATAAATTTGT
1 TTAAATTTATTACTAAAATACATTACTTACTAAAATAAATTACTTACATAAATTTGT
*
117121824 TTAAATTTATTTCTAAAATACATTACTTACTAAAAT
1 TTAAATTTATTACTAAAATACATTACTTACTAAAAT
117121860 TTGTTTAAAT
Statistics
Matches: 90, Mismatches: 2, Indels: 2
0.96 0.02 0.02
Matches are distributed among these distances:
57 89 0.99
58 1 0.01
ACGTcount: A:0.45, C:0.11, G:0.01, T:0.43
Consensus pattern (57 bp):
TTAAATTTATTACTAAAATACATTACTTACTAAAATAAATTACTTACATAAATTTGT
Found at i:117121855 original size:97 final size:97
Alignment explanation
Indices: 117121739--117122050 Score: 518
Period size: 97 Copynumber: 3.2 Consensus size: 97
117121729 ACATTACTTA
*
117121739 CTAAAATAAATTACTTACTAAAATTTGTTTAAATTTATTACTAAAATACATTACTTACTAAAATA
1 CTAAAATACATTACTTACTAAAATTTGTTTAAATTTATTACTAAAATACATTACTTACTAAAATA
117121804 CATTACTTAC-ATAAATTTGTTTAAATTTATTT
66 CATTACTTACTA-AAATTTGTTTAAATTTATTT
117121836 CTAAAATACATTACTTACTAAAATTTGTTTAAATTTATTACTAAAATACATTACTTACTAAAATA
1 CTAAAATACATTACTTACTAAAATTTGTTTAAATTTATTACTAAAATACATTACTTACTAAAATA
117121901 CATTACTTACTAAAATTTGTTTAAATTTATTAATT
66 CATTACTTACTAAAATTTGTTTAAATTTA-T--TT
*
117121936 ACTTAAATACATTACTTACTAAAATTTGTTTAAATTTATTACTAAAATACATTACTTACTAAAAT
1 -CTAAAATACATTACTTACTAAAATTTGTTTAAATTTATTACTAAAATACATTACTTACTAAAAT
*
117122001 ACATTACTTACTAAAATTTGTTTAAATTTATTA
65 ACATTACTTACTAAAATTTGTTTAAATTTATTT
* **
117122034 CTTAAATATGTTACTTA
1 CTAAAATACATTACTTA
117122051 AATTTATTAC
Statistics
Matches: 205, Mismatches: 5, Indels: 10
0.93 0.02 0.05
Matches are distributed among these distances:
97 106 0.52
98 3 0.01
100 3 0.01
101 93 0.45
ACGTcount: A:0.43, C:0.11, G:0.02, T:0.44
Consensus pattern (97 bp):
CTAAAATACATTACTTACTAAAATTTGTTTAAATTTATTACTAAAATACATTACTTACTAAAATA
CATTACTTACTAAAATTTGTTTAAATTTATTT
Found at i:117121897 original size:57 final size:60
Alignment explanation
Indices: 117121836--117121960 Score: 211
Period size: 57 Copynumber: 2.1 Consensus size: 60
117121826 AAATTTATTT
117121836 CTAAAATACATTACTTACTAAAATTTGTTTAAA-T-TT-ATTACTAAAATACATTACTTA
1 CTAAAATACATTACTTACTAAAATTTGTTTAAATTATTAATTACTAAAATACATTACTTA
*
117121893 CTAAAATACATTACTTACTAAAATTTGTTTAAATTTATTAATTACTTAAATACATTACTTA
1 CTAAAATACATTACTTACTAAAATTTGTTTAAA-TTATTAATTACTAAAATACATTACTTA
117121954 CTAAAAT
1 CTAAAAT
117121961 TTGTTTAAAT
Statistics
Matches: 63, Mismatches: 1, Indels: 4
0.93 0.01 0.06
Matches are distributed among these distances:
57 33 0.52
59 1 0.02
60 2 0.03
61 27 0.43
ACGTcount: A:0.44, C:0.12, G:0.02, T:0.42
Consensus pattern (60 bp):
CTAAAATACATTACTTACTAAAATTTGTTTAAATTATTAATTACTAAAATACATTACTTA
Found at i:117121968 original size:101 final size:100
Alignment explanation
Indices: 117121731--117122033 Score: 533
Period size: 101 Copynumber: 3.0 Consensus size: 100
117121721 ACTAAAATAC
*
117121731 ATTACTTACTAAAATAAATTACTTACTAAAATTTGTTTAAATTTATTACTAAAATACATTACTTA
1 ATTA-TTACTAAAATACATTACTTACTAAAATTTGTTTAAATTTATTACTAAAATACATTACTTA
117121796 CTAAAATACATTACTTAC-ATAAATTTGTTTAAATTT
65 CTAAAATACATTACTTACTA-AAATTTGTTTAAATTT
117121832 A-T-TT-CTAAAATACATTACTTACTAAAATTTGTTTAAATTTATTACTAAAATACATTACTTAC
1 ATTATTACTAAAATACATTACTTACTAAAATTTGTTTAAATTTATTACTAAAATACATTACTTAC
117121894 TAAAATACATTACTTACTAAAATTTGTTTAAATTT
66 TAAAATACATTACTTACTAAAATTTGTTTAAATTT
*
117121929 ATTAATTACTTAAATACATTACTTACTAAAATTTGTTTAAATTTATTACTAAAATACATTACTTA
1 ATT-ATTACTAAAATACATTACTTACTAAAATTTGTTTAAATTTATTACTAAAATACATTACTTA
117121994 CTAAAATACATTACTTACTAAAATTTGTTTAAATTT
65 CTAAAATACATTACTTACTAAAATTTGTTTAAATTT
117122030 ATTA
1 ATTA
117122034 CTTAAATATG
Statistics
Matches: 195, Mismatches: 2, Indels: 11
0.94 0.01 0.05
Matches are distributed among these distances:
97 91 0.47
98 4 0.02
100 4 0.02
101 96 0.49
ACGTcount: A:0.43, C:0.11, G:0.02, T:0.44
Consensus pattern (100 bp):
ATTATTACTAAAATACATTACTTACTAAAATTTGTTTAAATTTATTACTAAAATACATTACTTAC
TAAAATACATTACTTACTAAAATTTGTTTAAATTT
Found at i:117121977 original size:40 final size:43
Alignment explanation
Indices: 117121885--117122000 Score: 184
Period size: 44 Copynumber: 2.7 Consensus size: 43
117121875 ACTAAAATAC
*
117121885 ATTACTTACTAAAATACATTACTTACTAAAATTTGTTTAAATTT
1 ATTAATTACTAAAATACATTACTTACTAAAATTTGTTTAAA-TT
*
117121929 ATTAATTACTTAAATACATTACTTACTAAAATTTGTTTAAA-T
1 ATTAATTACTAAAATACATTACTTACTAAAATTTGTTTAAATT
117121971 -TT-ATTACTAAAATACATTACTTACTAAAAT
1 ATTAATTACTAAAATACATTACTTACTAAAAT
117122001 ACATTACTTA
Statistics
Matches: 69, Mismatches: 3, Indels: 4
0.91 0.04 0.05
Matches are distributed among these distances:
40 27 0.39
41 2 0.03
42 1 0.01
44 39 0.57
ACGTcount: A:0.43, C:0.11, G:0.02, T:0.44
Consensus pattern (43 bp):
ATTAATTACTAAAATACATTACTTACTAAAATTTGTTTAAATT
Found at i:117122004 original size:57 final size:57
Alignment explanation
Indices: 117121929--117122050 Score: 199
Period size: 57 Copynumber: 2.1 Consensus size: 57
117121919 GTTTAAATTT
* *
117121929 ATTAATTACTTAAATACATTACTTACTAAAATTTGTTTAAATTTATTACTAAAATAC
1 ATTACTTACTAAAATACATTACTTACTAAAATTTGTTTAAATTTATTACTAAAATAC
* *
117121986 ATTACTTACTAAAATACATTACTTACTAAAATTTGTTTAAATTTATTACTTAAATAT
1 ATTACTTACTAAAATACATTACTTACTAAAATTTGTTTAAATTTATTACTAAAATAC
*
117122043 GTTACTTA
1 ATTACTTA
117122051 AATTTATTAC
Statistics
Matches: 60, Mismatches: 5, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
57 60 1.00
ACGTcount: A:0.42, C:0.11, G:0.02, T:0.45
Consensus pattern (57 bp):
ATTACTTACTAAAATACATTACTTACTAAAATTTGTTTAAATTTATTACTAAAATAC
Found at i:117122040 original size:13 final size:13
Alignment explanation
Indices: 117122022--117122092 Score: 106
Period size: 13 Copynumber: 5.5 Consensus size: 13
117122012 TAAAATTTGT
117122022 TTAAATTTATTAC
1 TTAAATTTATTAC
* *
117122035 TTAAATATGTTAC
1 TTAAATTTATTAC
117122048 TTAAATTTATTAC
1 TTAAATTTATTAC
* *
117122061 TTAAATATGTTAC
1 TTAAATTTATTAC
117122074 TTAAATTTATTAC
1 TTAAATTTATTAC
117122087 TTAAAT
1 TTAAAT
117122093 AATTATAAAT
Statistics
Matches: 50, Mismatches: 8, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
13 50 1.00
ACGTcount: A:0.39, C:0.07, G:0.03, T:0.51
Consensus pattern (13 bp):
TTAAATTTATTAC
Found at i:117122058 original size:26 final size:26
Alignment explanation
Indices: 117122022--117122093 Score: 144
Period size: 26 Copynumber: 2.8 Consensus size: 26
117122012 TAAAATTTGT
117122022 TTAAATTTATTACTTAAATATGTTAC
1 TTAAATTTATTACTTAAATATGTTAC
117122048 TTAAATTTATTACTTAAATATGTTAC
1 TTAAATTTATTACTTAAATATGTTAC
117122074 TTAAATTTATTACTTAAATA
1 TTAAATTTATTACTTAAATA
117122094 ATTATAAATA
Statistics
Matches: 46, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
26 46 1.00
ACGTcount: A:0.40, C:0.07, G:0.03, T:0.50
Consensus pattern (26 bp):
TTAAATTTATTACTTAAATATGTTAC
Found at i:117122425 original size:74 final size:74
Alignment explanation
Indices: 117122242--117122389 Score: 296
Period size: 74 Copynumber: 2.0 Consensus size: 74
117122232 AATAAAATAT
117122242 AAAAAAATATGTGGAATATTAAAATTGACTATTAAAATAAAATGTTATTTTATTAAATATTATTA
1 AAAAAAATATGTGGAATATTAAAATTGACTATTAAAATAAAATGTTATTTTATTAAATATTATTA
117122307 ATAATTATA
66 ATAATTATA
117122316 AAAAAAATATGTGGAATATTAAAATTGACTATTAAAATAAAATGTTATTTTATTAAATATTATTA
1 AAAAAAATATGTGGAATATTAAAATTGACTATTAAAATAAAATGTTATTTTATTAAATATTATTA
117122381 ATAATTATA
66 ATAATTATA
117122390 TTAGTAATGT
Statistics
Matches: 74, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
74 74 1.00
ACGTcount: A:0.51, C:0.01, G:0.07, T:0.41
Consensus pattern (74 bp):
AAAAAAATATGTGGAATATTAAAATTGACTATTAAAATAAAATGTTATTTTATTAAATATTATTA
ATAATTATA
Found at i:117122453 original size:19 final size:19
Alignment explanation
Indices: 117122429--117122655 Score: 100
Period size: 19 Copynumber: 12.5 Consensus size: 19
117122419 TATTAAATAA
117122429 TACATAATAACTTACAACT
1 TACATAATAACTTACAACT
*
117122448 TACATAAT-ACATT-TAACT
1 TACATAATAAC-TTACAACT
*
117122466 TACAT--T-ACTTACATA-A
1 TACATAATAACTTACA-ACT
117122482 TACATAATAACTTACAACT
1 TACATAATAACTTACAACT
117122501 TACATAATACATTTAACTTACAACT
1 TAC---ATA-A--TAACTTACAACT
**
117122526 TACATAAT-ACATT-TGACT
1 TACATAATAAC-TTACAACT
* *
117122544 GACATAAT-ACATT-TAACT
1 TACATAATAAC-TTACAACT
* *
117122562 TACA-ACTTAC--ACAA--
1 TACATAATAACTTACAACT
117122576 TACATAATAACTTACAACT
1 TACATAATAACTTACAACT
* *
117122595 TACATAAT-ACATAATAACT
1 TACATAATAAC-TTACAACT
* *
117122614 TACA-ACTTAC--ACAA--
1 TACATAATAACTTACAACT
117122628 TACATAATAACTTACAACT
1 TACATAATAACTTACAACT
117122647 TACATAATA
1 TACATAATA
117122656 CATAATAACT
Statistics
Matches: 161, Mismatches: 19, Indels: 56
0.68 0.08 0.24
Matches are distributed among these distances:
14 8 0.05
15 10 0.06
16 14 0.09
17 11 0.07
18 43 0.27
19 52 0.32
21 1 0.01
22 6 0.04
23 1 0.01
25 15 0.09
ACGTcount: A:0.47, C:0.20, G:0.01, T:0.33
Consensus pattern (19 bp):
TACATAATAACTTACAACT
Found at i:117122467 original size:18 final size:18
Alignment explanation
Indices: 117122444--117122565 Score: 74
Period size: 18 Copynumber: 6.4 Consensus size: 18
117122434 AATAACTTAC
117122444 AACTTACATAATACATTT
1 AACTTACATAATACATTT
*
117122462 AACTTACATTACTTACA--T
1 AACTTACA-TA-ATACATTT
*
117122480 AA--TACATAATA-ACTTAC
1 AACTTACATAATACA-TT-T
117122497 AACTTACATAATACATTTAACTT
1 AACTTACATAATACA--T---TT
117122520 ACAACTTACATAATACATTT
1 --AACTTACATAATACATTT
* *
117122540 GACTGACATAATACATTT
1 AACTTACATAATACATTT
117122558 AACTTACA
1 AACTTACA
117122566 ACTTACACAA
Statistics
Matches: 80, Mismatches: 9, Indels: 30
0.67 0.08 0.25
Matches are distributed among these distances:
13 1 0.01
14 2 0.03
15 2 0.03
16 4 0.05
17 2 0.03
18 33 0.41
19 11 0.14
20 7 0.09
21 1 0.01
23 1 0.01
24 1 0.01
25 15 0.19
ACGTcount: A:0.44, C:0.19, G:0.02, T:0.35
Consensus pattern (18 bp):
AACTTACATAATACATTT
Found at i:117122508 original size:26 final size:26
Alignment explanation
Indices: 117122425--117122830 Score: 579
Period size: 26 Copynumber: 16.1 Consensus size: 26
117122415 TATTTATTAA
117122425 ATAATACATAATAACTTACAACTTAC
1 ATAATACATAATAACTTACAACTTAC
*
117122451 ATAATACAT-TTAACTTACATTACTTAC
1 ATAATACATAATAACTTACA--ACTTAC
117122478 ATAATACATAATAACTTACAACTTAC
1 ATAATACATAATAACTTACAACTTAC
*
117122504 ATAATACAT-TTAACTTACAACTTAC
1 ATAATACATAATAACTTACAACTTAC
* *
117122529 ATAATAC---AT---TT--GACTGAC
1 ATAATACATAATAACTTACAACTTAC
*
117122547 ATAATACATT-TAACTTACAACTTAC
1 ATAATACATAATAACTTACAACTTAC
*
117122572 ACAATACATAATAACTTACAACTTAC
1 ATAATACATAATAACTTACAACTTAC
117122598 ATAATACATAATAACTTACAACTTAC
1 ATAATACATAATAACTTACAACTTAC
*
117122624 ACAATACATAATAACTTACAACTTAC
1 ATAATACATAATAACTTACAACTTAC
117122650 ATAATACATAATAACTTACAACTTAC
1 ATAATACATAATAACTTACAACTTAC
* *
117122676 ATAATACAT-TTAACTTGCAACTTAC
1 ATAATACATAATAACTTACAACTTAC
*
117122701 ACAATACATAATAACTTACAACTTAC
1 ATAATACATAATAACTTACAACTTAC
117122727 ATAATACATAATAACTTACAACTTAC
1 ATAATACATAATAACTTACAACTTAC
*
117122753 ATAATACAT-TTAACTTACAACTTAC
1 ATAATACATAATAACTTACAACTTAC
* *
117122778 ACAATACAT-TTAACTTACAACTTAC
1 ATAATACATAATAACTTACAACTTAC
117122803 ATAATACATAATAACTTACAACTTAC
1 ATAATACATAATAACTTACAACTTAC
117122829 AT
1 AT
117122831 TTAACTTACA
Statistics
Matches: 343, Mismatches: 23, Indels: 28
0.87 0.06 0.07
Matches are distributed among these distances:
18 12 0.03
20 3 0.01
23 3 0.01
25 113 0.33
26 188 0.55
27 15 0.04
28 9 0.03
ACGTcount: A:0.47, C:0.20, G:0.01, T:0.32
Consensus pattern (26 bp):
ATAATACATAATAACTTACAACTTAC
Found at i:117122676 original size:19 final size:19
Alignment explanation
Indices: 117122602--117122732 Score: 65
Period size: 19 Copynumber: 7.5 Consensus size: 19
117122592 ACTTACATAA
117122602 TACATAATAACTTACAACT
1 TACATAATAACTTACAACT
* * *
117122621 TACACAAT-ACATAATAACT
1 TACATAATAAC-TTACAACT
*
117122640 TAC-----AACTTACATA-A
1 TACATAATAACTTACA-ACT
117122654 TACATAATAACTTACAACT
1 TACATAATAACTTACAACT
*
117122673 TACATAAT-ACATT-TAACT
1 TACATAATAAC-TTACAACT
* * *
117122691 TGCA-ACTTAC--ACAA--
1 TACATAATAACTTACAACT
117122705 TACATAATAACTTACAACT
1 TACATAATAACTTACAACT
117122724 TACATAATA
1 TACATAATA
117122733 CATAATAACT
Statistics
Matches: 81, Mismatches: 14, Indels: 34
0.63 0.11 0.26
Matches are distributed among these distances:
14 9 0.11
15 7 0.09
16 2 0.02
17 6 0.07
18 14 0.17
19 43 0.53
ACGTcount: A:0.48, C:0.21, G:0.01, T:0.31
Consensus pattern (19 bp):
TACATAATAACTTACAACT
Found at i:117122706 original size:77 final size:76
Alignment explanation
Indices: 117122549--117122830 Score: 492
Period size: 77 Copynumber: 3.7 Consensus size: 76
117122539 TGACTGACAT
* * *
117122549 AATACATTTAACTTACAACTTACACAATACATAATAACTTACAACTTACATAATACATAATAACT
1 AATACATATAACTTACAACTTACATAATACATAATAACTTACAACTTACATAATACAT-TTAACT
117122614 TACAACTTACAC
65 TACAACTTACAC
117122626 AATACATAATAACTTACAACTTACATAATACATAATAACTTACAACTTACATAATACATTTAACT
1 AATACAT-ATAACTTACAACTTACATAATACATAATAACTTACAACTTACATAATACATTTAACT
*
117122691 TGCAACTTACAC
65 TACAACTTACAC
117122703 AATACATAATAACTTACAACTTACATAATACATAATAACTTACAACTTACATAATACATTTAACT
1 AATACAT-ATAACTTACAACTTACATAATACATAATAACTTACAACTTACATAATACATTTAACT
117122768 TACAACTTACAC
65 TACAACTTACAC
*
117122780 AATACATTTAACTTACAACTTACATAATACATAATAACTTACAACTTACAT
1 AATACATATAACTTACAACTTACATAATACATAATAACTTACAACTTACAT
117122831 TTAACTTACA
Statistics
Matches: 198, Mismatches: 6, Indels: 3
0.96 0.03 0.01
Matches are distributed among these distances:
76 43 0.22
77 106 0.54
78 49 0.25
ACGTcount: A:0.48, C:0.21, G:0.00, T:0.31
Consensus pattern (76 bp):
AATACATATAACTTACAACTTACATAATACATAATAACTTACAACTTACATAATACATTTAACTT
ACAACTTACAC
Found at i:117122838 original size:11 final size:10
Alignment explanation
Indices: 117122822--117122875 Score: 55
Period size: 9 Copynumber: 5.7 Consensus size: 10
117122812 AATAACTTAC
117122822 AACTTACATTT
1 AACTTACA-TT
117122833 AACTTACA-T
1 AACTTACATT
117122842 AA--TACATTT
1 AACTTACA-TT
117122851 AACTTACA-T
1 AACTTACATT
117122860 AACTTACA-T
1 AACTTACATT
117122869 AACTTAC
1 AACTTAC
117122876 CATTGCAATT
Statistics
Matches: 39, Mismatches: 0, Indels: 10
0.80 0.00 0.20
Matches are distributed among these distances:
7 4 0.10
9 23 0.59
11 12 0.31
ACGTcount: A:0.43, C:0.20, G:0.00, T:0.37
Consensus pattern (10 bp):
AACTTACATT
Found at i:117122859 original size:18 final size:18
Alignment explanation
Indices: 117122796--117122861 Score: 89
Period size: 18 Copynumber: 3.6 Consensus size: 18
117122786 TTTAACTTAC
*
117122796 AACTTACATAATACATAAT
1 AACTTACATAATACAT-TT
*
117122815 AACTTACA-ACTTACATTT
1 AACTTACATA-ATACATTT
117122833 AACTTACATAATACATTT
1 AACTTACATAATACATTT
117122851 AACTTACATAA
1 AACTTACATAA
117122862 CTTACATAAC
Statistics
Matches: 42, Mismatches: 3, Indels: 5
0.84 0.06 0.10
Matches are distributed among these distances:
18 28 0.67
19 14 0.33
ACGTcount: A:0.47, C:0.18, G:0.00, T:0.35
Consensus pattern (18 bp):
AACTTACATAATACATTT
Found at i:117122871 original size:18 final size:18
Alignment explanation
Indices: 117122711--117122875 Score: 69
Period size: 18 Copynumber: 9.5 Consensus size: 18
117122701 ACAATACATA
117122711 ATAACTTAC--AACTTAC
1 ATAACTTACATAACTTAC
*
117122727 ATAATACATA-ATAACTTAC
1 AT-A-ACTTACATAACTTAC
117122746 --AACTTACATAA--TAC
1 ATAACTTACATAACTTAC
117122760 ATTTAACTTAC--AACTTAC
1 A--TAACTTACATAACTTAC
*
117122778 ACAA--TACATTTAACTTAC
1 ATAACTTACA--TAACTTAC
*
117122796 --AACTTACATAATACATA-
1 ATAACTTACAT-A-ACTTAC
117122813 ATAACTTAC--AACTTAC
1 ATAACTTACATAACTTAC
117122829 ATTTAACTTACATAA--TAC
1 A--TAACTTACATAACTTAC
117122847 ATTTAACTTACATAACTTAC
1 A--TAACTTACATAACTTAC
117122867 ATAACTTAC
1 ATAACTTAC
117122876 CATTGCAATT
Statistics
Matches: 116, Mismatches: 5, Indels: 54
0.66 0.03 0.31
Matches are distributed among these distances:
14 6 0.05
15 8 0.07
16 16 0.14
17 2 0.02
18 64 0.55
19 14 0.12
20 6 0.05
ACGTcount: A:0.45, C:0.21, G:0.00, T:0.34
Consensus pattern (18 bp):
ATAACTTACATAACTTAC
Found at i:117128351 original size:21 final size:21
Alignment explanation
Indices: 117128325--117128395 Score: 79
Period size: 21 Copynumber: 3.4 Consensus size: 21
117128315 CTACAACTTA
* *
117128325 AAGCAGAGGCGGAAGCGAGGG
1 AAGCAGAGGCTGCAGCGAGGG
* *
117128346 AAGCAGCGACTGCAGCGAGGG
1 AAGCAGAGGCTGCAGCGAGGG
* * *
117128367 AAGCGGAGGCTGCAGCAAGAG
1 AAGCAGAGGCTGCAGCGAGGG
117128388 AAGCAGAG
1 AAGCAGAG
117128396 CAGAGCAAAA
Statistics
Matches: 40, Mismatches: 10, Indels: 0
0.80 0.20 0.00
Matches are distributed among these distances:
21 40 1.00
ACGTcount: A:0.34, C:0.18, G:0.45, T:0.03
Consensus pattern (21 bp):
AAGCAGAGGCTGCAGCGAGGG
Found at i:117128638 original size:14 final size:14
Alignment explanation
Indices: 117128619--117128652 Score: 59
Period size: 14 Copynumber: 2.4 Consensus size: 14
117128609 ATTGCTATTG
117128619 GTTGCTTTTGAAAT
1 GTTGCTTTTGAAAT
117128633 GTTGCTTTTGAAAT
1 GTTGCTTTTGAAAT
*
117128647 TTTGCT
1 GTTGCT
117128653 ACAGGAGGGC
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
14 19 1.00
ACGTcount: A:0.18, C:0.09, G:0.21, T:0.53
Consensus pattern (14 bp):
GTTGCTTTTGAAAT
Found at i:117128771 original size:41 final size:42
Alignment explanation
Indices: 117128718--117129049 Score: 189
Period size: 42 Copynumber: 7.9 Consensus size: 42
117128708 GTTTTTGTAT
* * *
117128718 AAAAGCGCCACTAAAGAACATGTTCTTTTGCGGCGTTTG-TA
1 AAAAACGCCACTAAAGAACATGTTCTTTAGCGGCGTTTGAAA
* *
117128759 AAAAATGCCACTAAAGAACATGTTCTTTAGCGGCGATTAGAAA
1 AAAAACGCCACTAAAGAACATGTTCTTTAGCGGCG-TTTGAAA
* * ****
117128802 AAAAACGCCGCTAAAGAACATGATCTTTAGCGGCGTTTTCCC
1 AAAAACGCCACTAAAGAACATGTTCTTTAGCGGCGTTTGAAA
** * * ****
117128844 TTAAGCGCCGCTAAAGAACATGTTCTTTAGCGGCGTTTTTTC
1 AAAAACGCCACTAAAGAACATGTTCTTTAGCGGCGTTTGAAA
** * * * * * ****
117128886 CTAAGCGCCGCTAAAGAACATGGTCTTTAGTGGCATTTTTTT
1 AAAAACGCCACTAAAGAACATGTTCTTTAGCGGCGTTTGAAA
* * * ****
117128928 ACAAACGCCGCTAAAGAACATGTTCTTTAGTGGCGTTTTTTT
1 AAAAACGCCACTAAAGAACATGTTCTTTAGCGGCGTTTGAAA
** * * * ****
117128970 CTAAGCGCCGCTAAAGAACATGATCTTTAGCGGCGTTTTTTT
1 AAAAACGCCACTAAAGAACATGTTCTTTAGCGGCGTTTGAAA
** * * *
117129012 CTAAGCGCCGCTAAAGAACATGATCTTTAGCGGCGTTT
1 AAAAACGCCACTAAAGAACATGTTCTTTAGCGGCGTTT
117129050 TTTTCTAAGC
Statistics
Matches: 255, Mismatches: 34, Indels: 3
0.87 0.12 0.01
Matches are distributed among these distances:
41 32 0.13
42 190 0.75
43 33 0.13
ACGTcount: A:0.28, C:0.21, G:0.21, T:0.30
Consensus pattern (42 bp):
AAAAACGCCACTAAAGAACATGTTCTTTAGCGGCGTTTGAAA
Found at i:117128871 original size:42 final size:42
Alignment explanation
Indices: 117128807--117129093 Score: 434
Period size: 42 Copynumber: 6.8 Consensus size: 42
117128797 AGAAAAAAAA
**
117128807 CGCCGCTAAAGAACATGATCTTTAGCGGCG-TTTTCCCTTAAG
1 CGCCGCTAAAGAACATGATCTTTAGCGGCGTTTTTTTC-TAAG
* *
117128849 CGCCGCTAAAGAACATGTTCTTTAGCGGCGTTTTTTCCTAAG
1 CGCCGCTAAAGAACATGATCTTTAGCGGCGTTTTTTTCTAAG
* * * *
117128891 CGCCGCTAAAGAACATGGTCTTTAGTGGCATTTTTTTAC-AAA
1 CGCCGCTAAAGAACATGATCTTTAGCGGCGTTTTTTT-CTAAG
* *
117128933 CGCCGCTAAAGAACATGTTCTTTAGTGGCGTTTTTTTCTAAG
1 CGCCGCTAAAGAACATGATCTTTAGCGGCGTTTTTTTCTAAG
117128975 CGCCGCTAAAGAACATGATCTTTAGCGGCGTTTTTTTCTAAG
1 CGCCGCTAAAGAACATGATCTTTAGCGGCGTTTTTTTCTAAG
117129017 CGCCGCTAAAGAACATGATCTTTAGCGGCGTTTTTTTCTAAG
1 CGCCGCTAAAGAACATGATCTTTAGCGGCGTTTTTTTCTAAG
* *
117129059 CGCCGCTAAAGAACATGGTCTTTAACGGCGTTTTT
1 CGCCGCTAAAGAACATGATCTTTAGCGGCGTTTTT
117129094 GTTTGTAAAC
Statistics
Matches: 228, Mismatches: 14, Indels: 6
0.92 0.06 0.02
Matches are distributed among these distances:
41 1 0.00
42 220 0.96
43 7 0.03
ACGTcount: A:0.24, C:0.22, G:0.21, T:0.33
Consensus pattern (42 bp):
CGCCGCTAAAGAACATGATCTTTAGCGGCGTTTTTTTCTAAG
Found at i:117128895 original size:84 final size:82
Alignment explanation
Indices: 117128720--117129093 Score: 433
Period size: 84 Copynumber: 4.5 Consensus size: 82
117128710 TTTTGTATAA
* * * *** ** *
117128720 AAGCGCCACTAAAGAACATGTTCTTTTGCGGCGTTTGTAAAAAATGCCACTAAAGAACATGTTCT
1 AAGCGCCGCTAAAGAACATGATCTTTAGCGGCGTTT-TTTTAAGCGCCGCTAAAGAACATGTTCT
*******
117128785 TTAGCGGCGATTAGAAAAA
65 TTAGCGGCG-TTTTTTTCT
* *
117128804 AAACGCCGCTAAAGAACATGATCTTTAGCGGCGTTTTCCCTTAAGCGCCGCTAAAGAACATGTTC
1 AAGCGCCGCTAAAGAACATGATCTTTAGCGGCGTTTT--TTTAAGCGCCGCTAAAGAACATGTTC
*
117128869 TTTAGCGGCGTTTTTTCCT
64 TTTAGCGGCGTTTTTTTCT
* * * *
117128888 AAGCGCCGCTAAAGAACATGGTCTTTAGTGGCATTTTTTTACAAACGCCGCTAAAGAACATGTTC
1 AAGCGCCGCTAAAGAACATGATCTTTAGCGGCGTTTTTTT--AAGCGCCGCTAAAGAACATGTTC
*
117128953 TTTAGTGGCGTTTTTTTCT
64 TTTAGCGGCGTTTTTTTCT
*
117128972 AAGCGCCGCTAAAGAACATGATCTTTAGCGGCGTTTTTTTCTAAGCGCCGCTAAAGAACATGATC
1 AAGCGCCGCTAAAGAACATGATCTTTAGCGGCG-TTTTTT-TAAGCGCCGCTAAAGAACATGTTC
117129037 TTTAGCGGCGTTTTTTTCT
64 TTTAGCGGCGTTTTTTTCT
* *
117129056 AAGCGCCGCTAAAGAACATGGTCTTTAACGGCGTTTTT
1 AAGCGCCGCTAAAGAACATGATCTTTAGCGGCGTTTTT
117129094 GTTTGTAAAC
Statistics
Matches: 251, Mismatches: 33, Indels: 13
0.85 0.11 0.04
Matches are distributed among these distances:
82 2 0.01
83 6 0.02
84 206 0.82
85 36 0.14
86 1 0.00
ACGTcount: A:0.27, C:0.21, G:0.21, T:0.31
Consensus pattern (82 bp):
AAGCGCCGCTAAAGAACATGATCTTTAGCGGCGTTTTTTTAAGCGCCGCTAAAGAACATGTTCTT
TAGCGGCGTTTTTTTCT
Found at i:117130179 original size:42 final size:42
Alignment explanation
Indices: 117130078--117130190 Score: 158
Period size: 41 Copynumber: 2.7 Consensus size: 42
117130068 CTTCGTTTTC
* * *
117130078 TCGATGCCATAGTTCAACTATGGTCTTACACATCTTCACAAA
1 TCGATGCCATAGTCCAGCTATGGTCTTACACATATTCACAAA
117130120 T-GATGCCATAGTCCAGCTATGGTCTTACACATATTCA-AATA
1 TCGATGCCATAGTCCAGCTATGGTCTTACACATATTCACAA-A
* *
117130161 TCGATGCCATAGCCCAGCTTTGGTCTTACA
1 TCGATGCCATAGTCCAGCTATGGTCTTACA
117130191 GGTAATCACA
Statistics
Matches: 64, Mismatches: 5, Indels: 4
0.88 0.07 0.05
Matches are distributed among these distances:
40 2 0.03
41 35 0.55
42 27 0.42
ACGTcount: A:0.28, C:0.26, G:0.15, T:0.31
Consensus pattern (42 bp):
TCGATGCCATAGTCCAGCTATGGTCTTACACATATTCACAAA
Found at i:117130204 original size:42 final size:42
Alignment explanation
Indices: 117130078--117130204 Score: 139
Period size: 42 Copynumber: 3.0 Consensus size: 42
117130068 CTTCGTTTTC
** * ** *
117130078 TCGATGCCATAGTTCAACTATGGTCTTACACATCTTCACAAA
1 TCGATGCCATAGCCCAGCTATGGTCTTACACATAATCACATA
* * *
117130120 T-GATGCCATAGTCCAGCTATGGTCTTACACATATTCAAATA
1 TCGATGCCATAGCCCAGCTATGGTCTTACACATAATCACATA
* **
117130161 TCGATGCCATAGCCCAGCTTTGGTCTTACAGGTAATCACATA
1 TCGATGCCATAGCCCAGCTATGGTCTTACACATAATCACATA
117130203 TC
1 TC
117130205 ACATAACGAT
Statistics
Matches: 73, Mismatches: 11, Indels: 2
0.85 0.13 0.02
Matches are distributed among these distances:
41 36 0.49
42 37 0.51
ACGTcount: A:0.29, C:0.25, G:0.15, T:0.31
Consensus pattern (42 bp):
TCGATGCCATAGCCCAGCTATGGTCTTACACATAATCACATA
Found at i:117130220 original size:49 final size:48
Alignment explanation
Indices: 117130147--117130252 Score: 140
Period size: 49 Copynumber: 2.2 Consensus size: 48
117130137 TATGGTCTTA
* * * * *
117130147 CACATATTCAAATATCGATGCCATAGCCCAGCTTTGGTCTTACAGGTAAT
1 CACATA-TCAAATAACGATGCCATAACCCAGCTATGGTCGTACACG-AAT
*
117130197 CACATATCACATAACGATGCCATAACCCAGCTATGGTCGTACACGAAT
1 CACATATCAAATAACGATGCCATAACCCAGCTATGGTCGTACACGAAT
117130245 CACATATC
1 CACATATC
117130253 TCACAAATAT
Statistics
Matches: 50, Mismatches: 6, Indels: 2
0.86 0.10 0.03
Matches are distributed among these distances:
48 11 0.22
49 33 0.66
50 6 0.12
ACGTcount: A:0.33, C:0.27, G:0.14, T:0.25
Consensus pattern (48 bp):
CACATATCAAATAACGATGCCATAACCCAGCTATGGTCGTACACGAAT
Found at i:117130271 original size:34 final size:34
Alignment explanation
Indices: 117130228--117130295 Score: 136
Period size: 34 Copynumber: 2.0 Consensus size: 34
117130218 ATAACCCAGC
117130228 TATGGTCGTACACGAATCACATATCTCACAAATA
1 TATGGTCGTACACGAATCACATATCTCACAAATA
117130262 TATGGTCGTACACGAATCACATATCTCACAAATA
1 TATGGTCGTACACGAATCACATATCTCACAAATA
117130296 CAAGATCACT
Statistics
Matches: 34, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
34 34 1.00
ACGTcount: A:0.38, C:0.24, G:0.12, T:0.26
Consensus pattern (34 bp):
TATGGTCGTACACGAATCACATATCTCACAAATA
Found at i:117130416 original size:31 final size:31
Alignment explanation
Indices: 117130381--117130529 Score: 244
Period size: 31 Copynumber: 4.8 Consensus size: 31
117130371 CTTGTCACTT
*
117130381 GTAGCCGAAGCTACCACTATTCACTGATCAG
1 GTAGCCGAAGCTACCACTTTTCACTGATCAG
* * *
117130412 GTAGCCGGAGCTACCATTTTTCACTGATCAA
1 GTAGCCGAAGCTACCACTTTTCACTGATCAG
* *
117130443 GTAACCGGAGCTACCACTTTTCACTGATCAG
1 GTAGCCGAAGCTACCACTTTTCACTGATCAG
117130474 GTAGCCGAAGCTACCACTTTTCACTGATCAG
1 GTAGCCGAAGCTACCACTTTTCACTGATCAG
117130505 GTAGCCGAAGCTACCACTTTTCACT
1 GTAGCCGAAGCTACCACTTTTCACT
117130530 TGTCATTTGT
Statistics
Matches: 109, Mismatches: 9, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
31 109 1.00
ACGTcount: A:0.26, C:0.29, G:0.19, T:0.26
Consensus pattern (31 bp):
GTAGCCGAAGCTACCACTTTTCACTGATCAG
Found at i:117130610 original size:50 final size:51
Alignment explanation
Indices: 117130505--117130633 Score: 215
Period size: 50 Copynumber: 2.5 Consensus size: 51
117130495 CACTGATCAG
* * *
117130505 GTAGCCGAAGCTACCACTTTTCACTTGTCATTTGTCCTTGATCAGATAAGT
1 GTAGCCGAAGCTATCACTTATCACTTGTCACTTGTCCTTGATCAGATAAGT
*
117130556 GTAGCCGAAGCTATCACTTATCACTT-TCACTTGTCTTTGATCAGATAAGT
1 GTAGCCGAAGCTATCACTTATCACTTGTCACTTGTCCTTGATCAGATAAGT
117130606 GTAGCCGAAGCTATCACTTATCACTTGT
1 GTAGCCGAAGCTATCACTTATCACTTGT
117130634 TGCCATGGTC
Statistics
Matches: 73, Mismatches: 4, Indels: 2
0.92 0.05 0.03
Matches are distributed among these distances:
50 48 0.66
51 25 0.34
ACGTcount: A:0.25, C:0.23, G:0.17, T:0.35
Consensus pattern (51 bp):
GTAGCCGAAGCTATCACTTATCACTTGTCACTTGTCCTTGATCAGATAAGT
Found at i:117133841 original size:15 final size:15
Alignment explanation
Indices: 117133823--117133889 Score: 52
Period size: 15 Copynumber: 4.5 Consensus size: 15
117133813 TTATAATTAA
117133823 ATAAATTTTAATATT
1 ATAAATTTTAATATT
*
117133838 AT-AATAATTAATATTAT
1 ATAAAT-TTTAATA-T-T
*
117133855 ATAAATTTTTAA-ATA
1 ATAAA-TTTTAATATT
117133870 ATAAATTTT-ATATT
1 ATAAATTTTAATATT
117133884 -TAAATT
1 ATAAATT
117133890 GGAAACCTAC
Statistics
Matches: 42, Mismatches: 4, Indels: 14
0.70 0.07 0.23
Matches are distributed among these distances:
13 7 0.17
14 9 0.21
15 13 0.31
16 2 0.05
17 4 0.10
18 6 0.14
19 1 0.02
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (15 bp):
ATAAATTTTAATATT
Found at i:117134603 original size:27 final size:26
Alignment explanation
Indices: 117134542--117134603 Score: 70
Period size: 26 Copynumber: 2.3 Consensus size: 26
117134532 TAAATATTAT
*
117134542 AATTATACATAAATTTGAATGTATAA
1 AATTATATATAAATTTGAATGTATAA
* * *
117134568 TATTATATATAAATTTTAATTTTATAA
1 AATTATATATAAATTTGAA-TGTATAA
*
117134595 AATTTTATA
1 AATTATATA
117134604 CATAATTATT
Statistics
Matches: 29, Mismatches: 6, Indels: 1
0.81 0.17 0.03
Matches are distributed among these distances:
26 16 0.55
27 13 0.45
ACGTcount: A:0.47, C:0.02, G:0.03, T:0.48
Consensus pattern (26 bp):
AATTATATATAAATTTGAATGTATAA
Found at i:117135997 original size:67 final size:66
Alignment explanation
Indices: 117135906--117136040 Score: 216
Period size: 67 Copynumber: 2.0 Consensus size: 66
117135896 TAACTTATTA
* *
117135906 TTAGAATTTTAACGGTTTTTGATTAAAATAAATTAATTGATAAGTTAGATGATTTTTTTTTATAA
1 TTAGAATTTTAACGGTTTTCGATTAAAATAAATTAATTGATAAGTCAGATGA-TTTTTTTTATAA
117135971 TT
65 TT
* * *
117135973 TTAGTATTTTAACGGTTTTCGATTAAAATAAATTAATTGATGAGTCAGATGATTTTTTTTATAGT
1 TTAGAATTTTAACGGTTTTCGATTAAAATAAATTAATTGATAAGTCAGATGATTTTTTTTATAAT
117136038 T
66 T
117136039 TT
1 TT
117136041 TTTAGAGTTA
Statistics
Matches: 63, Mismatches: 5, Indels: 1
0.91 0.07 0.01
Matches are distributed among these distances:
66 15 0.24
67 48 0.76
ACGTcount: A:0.33, C:0.03, G:0.13, T:0.50
Consensus pattern (66 bp):
TTAGAATTTTAACGGTTTTCGATTAAAATAAATTAATTGATAAGTCAGATGATTTTTTTTATAAT
T
Found at i:117148856 original size:33 final size:33
Alignment explanation
Indices: 117148809--117148876 Score: 91
Period size: 33 Copynumber: 2.1 Consensus size: 33
117148799 TAATAAAGAT
*
117148809 AAAATTATACTTTAATCCCTTAAAAATGATAAA
1 AAAATTATAATTTAATCCCTTAAAAATGATAAA
* ** *
117148842 AAAATTTTAATTTAATCTTTTAAAAATTATAAA
1 AAAATTATAATTTAATCCCTTAAAAATGATAAA
117148875 AA
1 AA
117148877 TATAGACTAA
Statistics
Matches: 30, Mismatches: 5, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
33 30 1.00
ACGTcount: A:0.53, C:0.07, G:0.01, T:0.38
Consensus pattern (33 bp):
AAAATTATAATTTAATCCCTTAAAAATGATAAA
Found at i:117151860 original size:13 final size:13
Alignment explanation
Indices: 117151842--117151868 Score: 54
Period size: 13 Copynumber: 2.1 Consensus size: 13
117151832 AATTTATAAT
117151842 AAATAAATATTTA
1 AAATAAATATTTA
117151855 AAATAAATATTTA
1 AAATAAATATTTA
117151868 A
1 A
117151869 TATATAAAAA
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 14 1.00
ACGTcount: A:0.63, C:0.00, G:0.00, T:0.37
Consensus pattern (13 bp):
AAATAAATATTTA
Found at i:117158477 original size:20 final size:22
Alignment explanation
Indices: 117158454--117158493 Score: 66
Period size: 20 Copynumber: 1.9 Consensus size: 22
117158444 ATGAAAATAA
117158454 TTTTAGGGGC-TAAA-AAATTG
1 TTTTAGGGGCATAAATAAATTG
117158474 TTTTAGGGGCATAAATAAAT
1 TTTTAGGGGCATAAATAAAT
117158494 AAATAAATAA
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
20 10 0.56
21 4 0.22
22 4 0.22
ACGTcount: A:0.38, C:0.05, G:0.23, T:0.35
Consensus pattern (22 bp):
TTTTAGGGGCATAAATAAATTG
Found at i:117160576 original size:6 final size:6
Alignment explanation
Indices: 117160565--117160617 Score: 52
Period size: 6 Copynumber: 8.5 Consensus size: 6
117160555 AATGGCCTAC
* * * *
117160565 ATACAT ATACAT ATACAT ATACGTAT GTACAT AAACAT ATACAC ATGCAT
1 ATACAT ATACAT ATACAT ATAC--AT ATACAT ATACAT ATACAT ATACAT
117160615 ATA
1 ATA
117160618 AAACAGGGTT
Statistics
Matches: 37, Mismatches: 8, Indels: 4
0.76 0.16 0.08
Matches are distributed among these distances:
6 32 0.86
8 5 0.14
ACGTcount: A:0.47, C:0.17, G:0.06, T:0.30
Consensus pattern (6 bp):
ATACAT
Found at i:117166664 original size:4 final size:4
Alignment explanation
Indices: 117166655--117166689 Score: 61
Period size: 4 Copynumber: 8.8 Consensus size: 4
117166645 AGATGGTTAA
*
117166655 TATG TATG TATG TATG TATG AATG TATG TATG TAT
1 TATG TATG TATG TATG TATG TATG TATG TATG TAT
117166690 ACATGTGTAG
Statistics
Matches: 29, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
4 29 1.00
ACGTcount: A:0.29, C:0.00, G:0.23, T:0.49
Consensus pattern (4 bp):
TATG
Found at i:117171321 original size:17 final size:17
Alignment explanation
Indices: 117171299--117171331 Score: 57
Period size: 17 Copynumber: 1.9 Consensus size: 17
117171289 TCCACTAATT
*
117171299 CACTACCACCAACAACC
1 CACTACCAACAACAACC
117171316 CACTACCAACAACAAC
1 CACTACCAACAACAAC
117171332 AATCCACTAC
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
17 15 1.00
ACGTcount: A:0.45, C:0.48, G:0.00, T:0.06
Consensus pattern (17 bp):
CACTACCAACAACAACC
Found at i:117175960 original size:17 final size:17
Alignment explanation
Indices: 117175938--117175970 Score: 57
Period size: 17 Copynumber: 1.9 Consensus size: 17
117175928 TCCACTAATT
*
117175938 CACTACCACCAACAACC
1 CACTACCAACAACAACC
117175955 CACTACCAACAACAAC
1 CACTACCAACAACAAC
117175971 AATCCACTAC
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
17 15 1.00
ACGTcount: A:0.45, C:0.48, G:0.00, T:0.06
Consensus pattern (17 bp):
CACTACCAACAACAACC
Found at i:117180589 original size:36 final size:36
Alignment explanation
Indices: 117180518--117180589 Score: 117
Period size: 36 Copynumber: 2.0 Consensus size: 36
117180508 TGGGGATAGG
* *
117180518 TTATTTCGTGGATTTTAGTGGTGGTATAGGGATGAA
1 TTATTTCGTGGATTTTAGTGGTGGTATAAGAATGAA
*
117180554 TTATTTCGTGGATTTTAGTTGTGGTATAAGAATGAA
1 TTATTTCGTGGATTTTAGTGGTGGTATAAGAATGAA
117180590 CTTTGATGAG
Statistics
Matches: 33, Mismatches: 3, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
36 33 1.00
ACGTcount: A:0.25, C:0.03, G:0.29, T:0.43
Consensus pattern (36 bp):
TTATTTCGTGGATTTTAGTGGTGGTATAAGAATGAA
Found at i:117188043 original size:11 final size:11
Alignment explanation
Indices: 117188027--117188059 Score: 50
Period size: 11 Copynumber: 3.1 Consensus size: 11
117188017 GACTAAGTTG
117188027 AAAATTCAAAA
1 AAAATTCAAAA
117188038 AAAATTC-AAA
1 AAAATTCAAAA
*
117188048 AATATTCAAAA
1 AAAATTCAAAA
117188059 A
1 A
117188060 TATTTAAAAT
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
10 9 0.45
11 11 0.55
ACGTcount: A:0.70, C:0.09, G:0.00, T:0.21
Consensus pattern (11 bp):
AAAATTCAAAA
Found at i:117188069 original size:9 final size:10
Alignment explanation
Indices: 117188030--117188068 Score: 51
Period size: 10 Copynumber: 3.8 Consensus size: 10
117188020 TAAGTTGAAA
*
117188030 ATTCAAAAAAA
1 ATTC-AAAAAT
117188041 ATTCAAAAAT
1 ATTCAAAAAT
117188051 ATTCAAAAAT
1 ATTCAAAAAT
*
117188061 ATTTAAAA
1 ATTCAAAA
117188069 TTTTCAACAC
Statistics
Matches: 26, Mismatches: 2, Indels: 1
0.90 0.07 0.03
Matches are distributed among these distances:
10 22 0.85
11 4 0.15
ACGTcount: A:0.64, C:0.08, G:0.00, T:0.28
Consensus pattern (10 bp):
ATTCAAAAAT
Found at i:117188729 original size:23 final size:23
Alignment explanation
Indices: 117188692--117188749 Score: 91
Period size: 23 Copynumber: 2.5 Consensus size: 23
117188682 AAAACATATC
*
117188692 ATTA-AAACATCATTCAAGTCCCA
1 ATTATAAACAT-ATTCAAGTCCAA
117188715 ATTATAAACATATTCAAGTCCAA
1 ATTATAAACATATTCAAGTCCAA
117188738 ATTATAAACATA
1 ATTATAAACATA
117188750 CCTAATTCAA
Statistics
Matches: 33, Mismatches: 1, Indels: 2
0.92 0.03 0.06
Matches are distributed among these distances:
23 27 0.82
24 6 0.18
ACGTcount: A:0.48, C:0.19, G:0.03, T:0.29
Consensus pattern (23 bp):
ATTATAAACATATTCAAGTCCAA
Found at i:117192052 original size:27 final size:28
Alignment explanation
Indices: 117192021--117192074 Score: 67
Period size: 28 Copynumber: 2.0 Consensus size: 28
117192011 ATATATATGC
*
117192021 AGAAACAG-TG-GAGAAAGATGGGAAAAG
1 AGAAACAGATGAGAG-AAGAAGGGAAAAG
*
117192048 AGAAAGAGATGAGAGAAGAAGGGAAAA
1 AGAAACAGATGAGAGAAGAAGGGAAAA
117192075 CCTTGAAGAG
Statistics
Matches: 23, Mismatches: 2, Indels: 3
0.82 0.07 0.11
Matches are distributed among these distances:
27 7 0.30
28 13 0.57
29 3 0.13
ACGTcount: A:0.56, C:0.02, G:0.37, T:0.06
Consensus pattern (28 bp):
AGAAACAGATGAGAGAAGAAGGGAAAAG
Found at i:117195037 original size:187 final size:187
Alignment explanation
Indices: 117194722--117195080 Score: 718
Period size: 187 Copynumber: 1.9 Consensus size: 187
117194712 TGCGATTGTT
117194722 TATTTAAAAACCTCCCAAAACAAAGGCGATGTTTGATGTTTTGAAAATTCGAGAAATTGTGCCCT
1 TATTTAAAAACCTCCCAAAACAAAGGCGATGTTTGATGTTTTGAAAATTCGAGAAATTGTGCCCT
117194787 AACGTACTGGGTTTCGATTTTCTGTTTACCCAAAATAATCAAACATCCCTTTAAAAATTTCATTC
66 AACGTACTGGGTTTCGATTTTCTGTTTACCCAAAATAATCAAACATCCCTTTAAAAATTTCATTC
117194852 GTTGTTTTAAAATGTCAAAACAAGGCAATGTTTCGTGTTTGATGTTTTGAAAATTCG
131 GTTGTTTTAAAATGTCAAAACAAGGCAATGTTTCGTGTTTGATGTTTTGAAAATTCG
117194909 TATTTAAAAACCTCCCAAAACAAAGGCGATGTTTGATGTTTTGAAAATTCGAGAAATTGTGCCCT
1 TATTTAAAAACCTCCCAAAACAAAGGCGATGTTTGATGTTTTGAAAATTCGAGAAATTGTGCCCT
117194974 AACGTACTGGGTTTCGATTTTCTGTTTACCCAAAATAATCAAACATCCCTTTAAAAATTTCATTC
66 AACGTACTGGGTTTCGATTTTCTGTTTACCCAAAATAATCAAACATCCCTTTAAAAATTTCATTC
117195039 GTTGTTTTAAAATGTCAAAACAAGGCAATGTTTCGTGTTTGA
131 GTTGTTTTAAAATGTCAAAACAAGGCAATGTTTCGTGTTTGA
117195081 AAATTCGAGT
Statistics
Matches: 172, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
187 172 1.00
ACGTcount: A:0.33, C:0.16, G:0.15, T:0.35
Consensus pattern (187 bp):
TATTTAAAAACCTCCCAAAACAAAGGCGATGTTTGATGTTTTGAAAATTCGAGAAATTGTGCCCT
AACGTACTGGGTTTCGATTTTCTGTTTACCCAAAATAATCAAACATCCCTTTAAAAATTTCATTC
GTTGTTTTAAAATGTCAAAACAAGGCAATGTTTCGTGTTTGATGTTTTGAAAATTCG
Found at i:117198150 original size:15 final size:15
Alignment explanation
Indices: 117198132--117198171 Score: 59
Period size: 13 Copynumber: 2.9 Consensus size: 15
117198122 TAAAATATAG
117198132 TACAAAAAAAAAGAA
1 TACAAAAAAAAAGAA
117198147 TAC-AAAAAAAA-AA
1 TACAAAAAAAAAGAA
117198160 TA-AAAAAAAAAG
1 TACAAAAAAAAAG
117198172 TAGAATTTTT
Statistics
Matches: 23, Mismatches: 0, Indels: 5
0.82 0.00 0.18
Matches are distributed among these distances:
13 12 0.52
14 8 0.35
15 3 0.13
ACGTcount: A:0.82, C:0.05, G:0.05, T:0.07
Consensus pattern (15 bp):
TACAAAAAAAAAGAA
Found at i:117198153 original size:13 final size:12
Alignment explanation
Indices: 117198135--117198170 Score: 54
Period size: 12 Copynumber: 2.8 Consensus size: 12
117198125 AATATAGTAC
117198135 AAAAAAAAAGAAT
1 AAAAAAAAA-AAT
117198148 ACAAAAAAAAAAT
1 A-AAAAAAAAAAT
117198161 AAAAAAAAAA
1 AAAAAAAAAA
117198171 GTAGAATTTT
Statistics
Matches: 22, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
12 9 0.41
13 5 0.23
14 8 0.36
ACGTcount: A:0.89, C:0.03, G:0.03, T:0.06
Consensus pattern (12 bp):
AAAAAAAAAAAT
Found at i:117207706 original size:17 final size:17
Alignment explanation
Indices: 117207684--117207716 Score: 57
Period size: 17 Copynumber: 1.9 Consensus size: 17
117207674 ACCACATCAG
*
117207684 CTTTTAACCGTAGAAAA
1 CTTTTAACAGTAGAAAA
117207701 CTTTTAACAGTAGAAA
1 CTTTTAACAGTAGAAA
117207717 TGGATAAATT
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
17 15 1.00
ACGTcount: A:0.42, C:0.15, G:0.12, T:0.30
Consensus pattern (17 bp):
CTTTTAACAGTAGAAAA
Found at i:117213137 original size:28 final size:28
Alignment explanation
Indices: 117213097--117213152 Score: 112
Period size: 28 Copynumber: 2.0 Consensus size: 28
117213087 TAAACACATA
117213097 GCTAAAACACTAAATAATATCTTAATAC
1 GCTAAAACACTAAATAATATCTTAATAC
117213125 GCTAAAACACTAAATAATATCTTAATAC
1 GCTAAAACACTAAATAATATCTTAATAC
117213153 CCCTAAGTTC
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
28 28 1.00
ACGTcount: A:0.50, C:0.18, G:0.04, T:0.29
Consensus pattern (28 bp):
GCTAAAACACTAAATAATATCTTAATAC
Found at i:117231275 original size:37 final size:37
Alignment explanation
Indices: 117231214--117231359 Score: 233
Period size: 37 Copynumber: 4.0 Consensus size: 37
117231204 TACGTATGAT
* *
117231214 CACTTATCAC-TTG-TCCCTGATCAGATAAGTGTAGC
1 CACTTATCACTTTGTTTCTTGATCAGATAAGTGTAGC
*
117231249 CACCTATCACTTTGTTTCTTGATCAGATAAGTGTAGC
1 CACTTATCACTTTGTTTCTTGATCAGATAAGTGTAGC
*
117231286 CACTTATCACTTTGTTTCTTGATCAGATAAGTGCAGC
1 CACTTATCACTTTGTTTCTTGATCAGATAAGTGTAGC
*
117231323 CACTTATCACTTTGTCTCTTGATCAGATAAGTGTAGC
1 CACTTATCACTTTGTTTCTTGATCAGATAAGTGTAGC
117231360 TAAAACTATC
Statistics
Matches: 102, Mismatches: 7, Indels: 2
0.92 0.06 0.02
Matches are distributed among these distances:
35 9 0.09
36 3 0.03
37 90 0.88
ACGTcount: A:0.25, C:0.23, G:0.16, T:0.36
Consensus pattern (37 bp):
CACTTATCACTTTGTTTCTTGATCAGATAAGTGTAGC
Done.