Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Gbar_D09
Parameters: 2 7 7 80 10 50 1000
Pmatch=0.80,Pindel=0.10
tuple sizes 0,4,5,7
tuple distances 0, 29, 159, 1000
Length: 51526817
ACGTcount: A:0.33, C:0.16, G:0.16, T:0.33
Warning! 216316 characters in sequence are not A, C, G, or T
File 169 of 172
Found at i:50122921 original size:17 final size:17
Alignment explanation
Indices: 50122899--50122961 Score: 54
Period size: 17 Copynumber: 3.5 Consensus size: 17
50122889 ATTGAATCAC
50122899 TACATAATTAAAAATAT
1 TACATAATTAAAAATAT
*** *
50122916 TACATAAGTCTTTGAATCAC
1 TACATAA-T-TAAAAAT-AT
*
50122936 TACATAATTAAAAACAT
1 TACATAATTAAAAATAT
50122953 TACATAATT
1 TACATAATT
50122962 CTTGAAATTA
Statistics
Matches: 34, Mismatches: 9, Indels: 6
0.69 0.18 0.12
Matches are distributed among these distances:
17 17 0.50
18 4 0.12
19 5 0.15
20 8 0.24
ACGTcount: A:0.49, C:0.13, G:0.03, T:0.35
Consensus pattern (17 bp):
TACATAATTAAAAATAT
Found at i:50122936 original size:37 final size:37
Alignment explanation
Indices: 50122890--50122964 Score: 132
Period size: 37 Copynumber: 2.0 Consensus size: 37
50122880 ATTACCCGAA
*
50122890 TTGAATCACTACATAATTAAAAATATTACATAAGTCT
1 TTGAATCACTACATAATTAAAAACATTACATAAGTCT
*
50122927 TTGAATCACTACATAATTAAAAACATTACATAATTCT
1 TTGAATCACTACATAATTAAAAACATTACATAAGTCT
50122964 T
1 T
50122965 GAAATTAACA
Statistics
Matches: 36, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
37 36 1.00
ACGTcount: A:0.45, C:0.15, G:0.04, T:0.36
Consensus pattern (37 bp):
TTGAATCACTACATAATTAAAAACATTACATAAGTCT
Found at i:50123140 original size:39 final size:39
Alignment explanation
Indices: 50123096--50123174 Score: 149
Period size: 39 Copynumber: 2.0 Consensus size: 39
50123086 ACTTAAGAGT
*
50123096 TAGACTTTAGTTTTATTTTTATTGGGTTGGGTAATTGGG
1 TAGACTTTAGTTTTAGTTTTATTGGGTTGGGTAATTGGG
50123135 TAGACTTTAGTTTTAGTTTTATTGGGTTGGGTAATTGGG
1 TAGACTTTAGTTTTAGTTTTATTGGGTTGGGTAATTGGG
50123174 T
1 T
50123175 TGGGTTGGAT
Statistics
Matches: 39, Mismatches: 1, Indels: 0
0.98 0.03 0.00
Matches are distributed among these distances:
39 39 1.00
ACGTcount: A:0.18, C:0.03, G:0.29, T:0.51
Consensus pattern (39 bp):
TAGACTTTAGTTTTAGTTTTATTGGGTTGGGTAATTGGG
Found at i:50123173 original size:13 final size:13
Alignment explanation
Indices: 50123155--50123179 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
50123145 TTTTAGTTTT
50123155 ATTGGGTTGGGTA
1 ATTGGGTTGGGTA
50123168 ATTGGGTTGGGT
1 ATTGGGTTGGGT
50123180 TGGATAATTT
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.12, C:0.00, G:0.48, T:0.40
Consensus pattern (13 bp):
ATTGGGTTGGGTA
Found at i:50128057 original size:24 final size:23
Alignment explanation
Indices: 50128019--50128065 Score: 58
Period size: 23 Copynumber: 2.0 Consensus size: 23
50128009 TCACCCAATT
* *
50128019 ATAAATATATATAAAATGTATAAA
1 ATAAATAAATAT-AAATGGATAAA
*
50128043 ATAAATAAATTTAAATGGATAAA
1 ATAAATAAATATAAATGGATAAA
50128066 TCTCTTTGAA
Statistics
Matches: 20, Mismatches: 3, Indels: 1
0.83 0.12 0.04
Matches are distributed among these distances:
23 10 0.50
24 10 0.50
ACGTcount: A:0.62, C:0.00, G:0.06, T:0.32
Consensus pattern (23 bp):
ATAAATAAATATAAATGGATAAA
Found at i:50128933 original size:24 final size:23
Alignment explanation
Indices: 50128889--50128933 Score: 54
Period size: 24 Copynumber: 1.9 Consensus size: 23
50128879 AATATCTAAC
* *
50128889 AAATTTAAAAAATGTTTAATTTT
1 AAATTTAAAAAATATTCAATTTT
*
50128912 AAATTTCAATAAATATTCAATT
1 AAATTT-AAAAAATATTCAATT
50128934 AAATCTAATT
Statistics
Matches: 18, Mismatches: 3, Indels: 1
0.82 0.14 0.05
Matches are distributed among these distances:
23 6 0.33
24 12 0.67
ACGTcount: A:0.49, C:0.04, G:0.02, T:0.44
Consensus pattern (23 bp):
AAATTTAAAAAATATTCAATTTT
Found at i:50132458 original size:16 final size:17
Alignment explanation
Indices: 50132427--50132461 Score: 61
Period size: 17 Copynumber: 2.1 Consensus size: 17
50132417 TAATAAACAC
50132427 AAAAAAATTTTAAAAAT
1 AAAAAAATTTTAAAAAT
*
50132444 AAAAATATTTTAAAAAT
1 AAAAAAATTTTAAAAAT
50132461 A
1 A
50132462 TTTTAGAATT
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
17 17 1.00
ACGTcount: A:0.69, C:0.00, G:0.00, T:0.31
Consensus pattern (17 bp):
AAAAAAATTTTAAAAAT
Found at i:50139601 original size:32 final size:32
Alignment explanation
Indices: 50139555--50139625 Score: 135
Period size: 32 Copynumber: 2.2 Consensus size: 32
50139545 ATTACGGTGA
50139555 TAAAAA-AAATATTTCATTGGTTACAAAAATG
1 TAAAAATAAATATTTCATTGGTTACAAAAATG
50139586 TAAAAATAAATATTTCATTGGTTACAAAAATG
1 TAAAAATAAATATTTCATTGGTTACAAAAATG
50139618 TAAAAATA
1 TAAAAATA
50139626 TTATGAAGGT
Statistics
Matches: 39, Mismatches: 0, Indels: 1
0.98 0.00 0.03
Matches are distributed among these distances:
31 6 0.15
32 33 0.85
ACGTcount: A:0.54, C:0.06, G:0.08, T:0.32
Consensus pattern (32 bp):
TAAAAATAAATATTTCATTGGTTACAAAAATG
Found at i:50139770 original size:30 final size:31
Alignment explanation
Indices: 50139730--50139792 Score: 110
Period size: 30 Copynumber: 2.1 Consensus size: 31
50139720 TTTTAAAATA
*
50139730 AAAATAAATAAAAATTTTAACGAAAAAGACT
1 AAAATAAATAAAAATTTTAACGAAAAAAACT
50139761 AAAA-AAATAAAAATTTTAACGAAAAAAACT
1 AAAATAAATAAAAATTTTAACGAAAAAAACT
50139791 AA
1 AA
50139793 TTTATTTTTT
Statistics
Matches: 31, Mismatches: 1, Indels: 1
0.94 0.03 0.03
Matches are distributed among these distances:
30 27 0.87
31 4 0.13
ACGTcount: A:0.68, C:0.06, G:0.05, T:0.21
Consensus pattern (31 bp):
AAAATAAATAAAAATTTTAACGAAAAAAACT
Found at i:50139822 original size:27 final size:28
Alignment explanation
Indices: 50139783--50139841 Score: 68
Period size: 27 Copynumber: 2.1 Consensus size: 28
50139773 ATTTTAACGA
50139783 AAAAAACTAATTTATTT-TTTAATTTAAT
1 AAAAAACTAATTTATTTATTT-ATTTAAT
* * *
50139811 AAAAAA-TTATTTGTTTATTTTTTTAAT
1 AAAAAACTAATTTATTTATTTATTTAAT
50139838 AAAA
1 AAAA
50139842 TAAAATATAA
Statistics
Matches: 27, Mismatches: 3, Indels: 3
0.82 0.09 0.09
Matches are distributed among these distances:
27 18 0.67
28 9 0.33
ACGTcount: A:0.46, C:0.02, G:0.02, T:0.51
Consensus pattern (28 bp):
AAAAAACTAATTTATTTATTTATTTAAT
Found at i:50139844 original size:32 final size:31
Alignment explanation
Indices: 50139793--50139856 Score: 83
Period size: 32 Copynumber: 2.0 Consensus size: 31
50139783 AAAAAACTAA
** *
50139793 TTTATTTTTTAATTTAATAAAAAATTATTTG
1 TTTATTTTTTAATAAAATAAAAAATAATTTG
*
50139824 TTTATTTTTTTAATAAAATAAAATATAATTTG
1 TTTA-TTTTTTAATAAAATAAAAAATAATTTG
50139856 T
1 T
50139857 AAGGCCTCTT
Statistics
Matches: 28, Mismatches: 4, Indels: 1
0.85 0.12 0.03
Matches are distributed among these distances:
31 4 0.14
32 24 0.86
ACGTcount: A:0.41, C:0.00, G:0.03, T:0.56
Consensus pattern (31 bp):
TTTATTTTTTAATAAAATAAAAAATAATTTG
Found at i:50143327 original size:15 final size:15
Alignment explanation
Indices: 50143307--50143337 Score: 53
Period size: 15 Copynumber: 2.1 Consensus size: 15
50143297 ATTATTTTAA
50143307 ATTTTTTAGTATTTT
1 ATTTTTTAGTATTTT
*
50143322 ATTTTTTATTATTTT
1 ATTTTTTAGTATTTT
50143337 A
1 A
50143338 ATTAAATTTA
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
15 15 1.00
ACGTcount: A:0.23, C:0.00, G:0.03, T:0.74
Consensus pattern (15 bp):
ATTTTTTAGTATTTT
Found at i:50152161 original size:268 final size:275
Alignment explanation
Indices: 50151312--50152433 Score: 1203
Period size: 268 Copynumber: 4.0 Consensus size: 275
50151302 AAATCCCAAA
* * * *
50151312 AGTATAATTGGTGCATAACAATATAGATTAGCAGTCAGGTTAGCAATTTAAACCCTAATAAGAAA
1 AGTATAACTGGTGCATAACAAAATAAACTAGCAGTCAGGTTAGCAATTTAAACCC--AT-----A
* * * * *
50151377 ACTCATAAAGGTCAATTCTTTTTTTCACAATCTTCGATCCTTCATTC-A-AACAAATCTCCCAAA
59 A--CATAAA-GT--A-TCCTTTTTTCACATTCTTCGATCCCTCATTCAACAACCAATCTCCTAAA
* * *
50151440 CCCCAAAACTAAT-AAATCACCATTAAAAAAGTAC-CAAAAAAAACAATTACTTTGAACTT---A
118 CCCC-AAACTAATAAAAAC-CCATTAAACAAGTACAAAAAAAAAACAATTACTTTGAACTTAAAA
* *
50151500 ---AACACA-T-AAAAAAAATCAAATTAGAACCATTAAAAGAACAAACTTTAAAGCAAAATACCT
181 GTTAAAACACTGAAAAAAAATCAAATTAGAACCATTAAAAGAACAAACATTAAAGCAAAATACCT
* * * *
50151560 TGAGGGTCTGATTGGAGTAGTAGATGGAGG
246 CGAGGGTCTGATTGGAGGAGTGGATGAAGG
* * * * *
50151590 AGTGTAACTGGTGCATAGCAAAATAAATTAACAGTCAGGTTAACAATTTAAACCCTAGCAAAAAA
1 AGTATAACTGGTGCATAACAAAATAAACTAGCAGTCAGGTTAGCAATTTAAA-CC---C------
* *
50151655 ATAAATCGTATAGGTAAATCCTTTTTTCACATTCTTCGATCCCTCATTCAACGCAACCAATCTCC
56 AT-AA-CATA-AAGT--ATCCTTTTTTCACATTCTTCGATCCCTCATTCAA--CAACCAATCTCC
*
50151720 AAAACCCCAAACTAAT-AAAACCCATTAAACAAGTACAAAAAAAAAAAACAATTACTTTGAACTT
114 TAAACCCCAAACTAATAAAAACCCATTAAACAAGTAC--AAAAAAAAAACAATTACTTTGAACTT
50151784 AAAAGTTAAAACACTGAAAAAAAATCAAATTAGAACCATTAAAAGAACAAACAGTT-AAGCAAAA
177 AAAAGTTAAAACACTGAAAAAAAATCAAATTAGAACCATTAAAAGAACAAACA-TTAAAGCAAAA
50151848 TACCTCGAGGGTCTGATTGGAGGAGTGGATGAAGG
241 TACCTCGAGGGTCTGATTGGAGGAGTGGATGAAGG
*
50151883 AGTATAACTGGTGCATAACAAAATAAATTAGCAGTCAGGTTAGCAATTTAAACCC-T-A-AT-AA
1 AGTATAACTGGTGCATAACAAAATAAACTAGCAGTCAGGTTAGCAATTTAAACCCATAACATAAA
* *
50151944 -T-T-CTTTTATTCACATTCTTCGACCCCTCATTC-A-AACCAATCTCCTACACCCCAAACTAAT
66 GTATCCTTTT-TTCACATTCTTCGATCCCTCATTCAACAACCAATCTCCTAAACCCCAAACTAAT
*
50152004 AAAAACCCATTAAACAAGTACAAAAAAAAAACAATTACTTTGAACTTAAAAGTTAAAACACTAAA
130 AAAAACCCATTAAACAAGTACAAAAAAAAAACAATTACTTTGAACTTAAAAGTTAAAACACT-GA
* *
50152069 AAAAAAATCAAATTAGAACCATTAAAAGAACAAACATTAAAGCAAAATACCTGGAGGGCCTGATT
194 AAAAAAATCAAATTAGAACCATTAAAAGAACAAACATTAAAGCAAAATACCTCGAGGGTCTGATT
50152134 GGAGGAGTGGATGAAGG
259 GGAGGAGTGGATGAAGG
*
50152151 AGTATAACTGGTGCATAACAAAATAAACTAGTAGTCAGGTTAGCAATTTAAACCCTAATAAAAAA
1 AGTATAACTGGTGCATAACAAAATAAACTAGCAGTCAGGTTAGCAATTTAAACCC--AT-----A
50152216 ACCATAAAAGTCAATCCTTTTTTTTTCACATTCTTCGATCCCTCATTCAATACAACCAATCTCCT
59 A-CAT-AAAGT--ATCC---TTTTTTCACATTCTTCGATCCCTCATTC-A-ACAACCAATCTCCT
* *
50152281 AAACCCCAAACTAATAAAAACCCATTAAAGAAGTAC-AAAAAAAAAC-ATTACTTCGAAC-----
115 AAACCCCAAACTAATAAAAACCCATTAAACAAGTACAAAAAAAAAACAATTACTTTGAACTTAAA
* *
50152339 --TT-AAACACTGAAAAAAAATCAAATTAGAACCGTTAAAAGAACAAGCATTAAAGCAAAATACC
180 AGTTAAAACACTGAAAAAAAATCAAATTAGAACCATTAAAAGAACAAACATTAAAGCAAAATACC
50152401 TCGAGGGTCTGATTGGAGGAGTGGATGAAGG
245 TCGAGGGTCTGATTGGAGGAGTGGATGAAGG
50152432 AG
1 AG
50152434 GAGGACGGCG
Statistics
Matches: 742, Mismatches: 48, Indels: 105
0.83 0.05 0.12
Matches are distributed among these distances:
267 43 0.06
268 156 0.21
269 20 0.03
271 7 0.01
272 24 0.03
275 1 0.00
276 1 0.00
277 1 0.00
278 46 0.06
279 4 0.01
280 29 0.04
281 92 0.12
282 28 0.04
283 14 0.02
284 17 0.02
285 25 0.03
286 4 0.01
288 24 0.03
289 5 0.01
290 11 0.01
291 16 0.02
292 49 0.07
293 123 0.17
294 2 0.00
ACGTcount: A:0.45, C:0.19, G:0.12, T:0.24
Consensus pattern (275 bp):
AGTATAACTGGTGCATAACAAAATAAACTAGCAGTCAGGTTAGCAATTTAAACCCATAACATAAA
GTATCCTTTTTTCACATTCTTCGATCCCTCATTCAACAACCAATCTCCTAAACCCCAAACTAATA
AAAACCCATTAAACAAGTACAAAAAAAAAACAATTACTTTGAACTTAAAAGTTAAAACACTGAAA
AAAAATCAAATTAGAACCATTAAAAGAACAAACATTAAAGCAAAATACCTCGAGGGTCTGATTGG
AGGAGTGGATGAAGG
Found at i:50153207 original size:17 final size:17
Alignment explanation
Indices: 50153185--50153219 Score: 70
Period size: 17 Copynumber: 2.1 Consensus size: 17
50153175 GGAGTCCAGG
50153185 GACGTTAGTAACTAAAC
1 GACGTTAGTAACTAAAC
50153202 GACGTTAGTAACTAAAC
1 GACGTTAGTAACTAAAC
50153219 G
1 G
50153220 CTGCTTTATC
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
17 18 1.00
ACGTcount: A:0.40, C:0.17, G:0.20, T:0.23
Consensus pattern (17 bp):
GACGTTAGTAACTAAAC
Found at i:50157524 original size:12 final size:11
Alignment explanation
Indices: 50157493--50157531 Score: 51
Period size: 11 Copynumber: 3.5 Consensus size: 11
50157483 TATTTTTTAA
50157493 TTTTAAAATAT
1 TTTTAAAATAT
50157504 TTTTAAAATACT
1 TTTTAAAATA-T
* *
50157516 TTTTTAAATTT
1 TTTTAAAATAT
50157527 TTTTA
1 TTTTA
50157532 TTTTTAAAAT
Statistics
Matches: 24, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
11 15 0.62
12 9 0.38
ACGTcount: A:0.36, C:0.03, G:0.00, T:0.62
Consensus pattern (11 bp):
TTTTAAAATAT
Found at i:50158157 original size:23 final size:23
Alignment explanation
Indices: 50158102--50158145 Score: 72
Period size: 23 Copynumber: 2.0 Consensus size: 23
50158092 ATGTTTGGTT
50158102 AAAAT-TGGGTTAAATTTTTTTG
1 AAAATATGGGTTAAATTTTTTTG
*
50158124 AAAATATGGGTTAATTTTTTTT
1 AAAATATGGGTTAAATTTTTTT
50158146 TGGAATATGG
Statistics
Matches: 20, Mismatches: 1, Indels: 1
0.91 0.05 0.05
Matches are distributed among these distances:
22 5 0.25
23 15 0.75
ACGTcount: A:0.32, C:0.00, G:0.16, T:0.52
Consensus pattern (23 bp):
AAAATATGGGTTAAATTTTTTTG
Found at i:50158940 original size:11 final size:11
Alignment explanation
Indices: 50158924--50158965 Score: 68
Period size: 11 Copynumber: 3.8 Consensus size: 11
50158914 ACGTTTAATG
50158924 TAAAATAAACA
1 TAAAATAAACA
50158935 TAAAATAAACA
1 TAAAATAAACA
50158946 TAAAAATAAA-A
1 T-AAAATAAACA
50158957 TAAAATAAA
1 TAAAATAAA
50158966 AACAAAACAA
Statistics
Matches: 30, Mismatches: 0, Indels: 3
0.91 0.00 0.09
Matches are distributed among these distances:
10 8 0.27
11 14 0.47
12 8 0.27
ACGTcount: A:0.76, C:0.05, G:0.00, T:0.19
Consensus pattern (11 bp):
TAAAATAAACA
Found at i:50158942 original size:5 final size:5
Alignment explanation
Indices: 50158924--50158966 Score: 59
Period size: 5 Copynumber: 8.0 Consensus size: 5
50158914 ACGTTTAATG
50158924 TAAAA TAAACA TAAAA TAAACA TAAAAA TAAAA TAAAA TAAAA
1 TAAAA TAAA-A TAAAA TAAA-A T-AAAA TAAAA TAAAA TAAAA
50158967 ACAAAACAAA
Statistics
Matches: 35, Mismatches: 0, Indels: 6
0.85 0.00 0.15
Matches are distributed among these distances:
5 23 0.66
6 9 0.26
7 3 0.09
ACGTcount: A:0.77, C:0.05, G:0.00, T:0.19
Consensus pattern (5 bp):
TAAAA
Found at i:50158967 original size:11 final size:11
Alignment explanation
Indices: 50158924--50158977 Score: 56
Period size: 11 Copynumber: 4.9 Consensus size: 11
50158914 ACGTTTAATG
*
50158924 TAAAATAAACA
1 TAAAATAAAAA
*
50158935 TAAAATAAACA
1 TAAAATAAAAA
50158946 TAAAA-ATAAAA
1 TAAAATA-AAAA
50158957 TAAAATAAAAA
1 TAAAATAAAAA
* *
50158968 CAAAACAAAA
1 TAAAATAAAA
50158978 CAAAACAAAA
Statistics
Matches: 38, Mismatches: 3, Indels: 4
0.84 0.07 0.09
Matches are distributed among these distances:
10 1 0.03
11 36 0.95
12 1 0.03
ACGTcount: A:0.78, C:0.07, G:0.00, T:0.15
Consensus pattern (11 bp):
TAAAATAAAAA
Found at i:50158972 original size:5 final size:5
Alignment explanation
Indices: 50158964--50158992 Score: 58
Period size: 5 Copynumber: 5.8 Consensus size: 5
50158954 AAATAAAATA
50158964 AAAAC AAAAC AAAAC AAAAC AAAAC AAAA
1 AAAAC AAAAC AAAAC AAAAC AAAAC AAAA
50158993 ATCCAAAAAA
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 24 1.00
ACGTcount: A:0.83, C:0.17, G:0.00, T:0.00
Consensus pattern (5 bp):
AAAAC
Found at i:50171839 original size:19 final size:20
Alignment explanation
Indices: 50171810--50171858 Score: 64
Period size: 20 Copynumber: 2.5 Consensus size: 20
50171800 AAAAATTTAA
*
50171810 AAAAATATATTTTAAAAGT-T
1 AAAAAT-TATTATAAAAGTAT
*
50171830 AAAAATTATTATAAAATTAT
1 AAAAATTATTATAAAAGTAT
50171850 AAAAATTAT
1 AAAAATTAT
50171859 AAAAGAAAAT
Statistics
Matches: 26, Mismatches: 2, Indels: 2
0.87 0.07 0.07
Matches are distributed among these distances:
19 10 0.38
20 16 0.62
ACGTcount: A:0.59, C:0.00, G:0.02, T:0.39
Consensus pattern (20 bp):
AAAAATTATTATAAAAGTAT
Found at i:50171856 original size:9 final size:9
Alignment explanation
Indices: 50171829--50171862 Score: 50
Period size: 9 Copynumber: 3.6 Consensus size: 9
50171819 TTTTAAAAGT
50171829 TAAAAATTA
1 TAAAAATTA
50171838 TTATAAAATTA
1 -TA-AAAATTA
50171849 TAAAAATTA
1 TAAAAATTA
50171858 TAAAA
1 TAAAA
50171863 GAAAATGTTT
Statistics
Matches: 23, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
9 12 0.52
10 4 0.17
11 7 0.30
ACGTcount: A:0.65, C:0.00, G:0.00, T:0.35
Consensus pattern (9 bp):
TAAAAATTA
Found at i:50182414 original size:26 final size:26
Alignment explanation
Indices: 50182383--50182434 Score: 95
Period size: 26 Copynumber: 2.0 Consensus size: 26
50182373 TCGAAAGAAG
*
50182383 AGTCGATTCCAAGAAAACATTGAAAA
1 AGTCGATTCCAAGAAAACATCGAAAA
50182409 AGTCGATTCCAAGAAAACATCGAAAA
1 AGTCGATTCCAAGAAAACATCGAAAA
50182435 CCCAAGTACC
Statistics
Matches: 25, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
26 25 1.00
ACGTcount: A:0.50, C:0.17, G:0.15, T:0.17
Consensus pattern (26 bp):
AGTCGATTCCAAGAAAACATCGAAAA
Found at i:50184097 original size:17 final size:17
Alignment explanation
Indices: 50184075--50184108 Score: 59
Period size: 17 Copynumber: 2.0 Consensus size: 17
50184065 ATCCACTAAT
*
50184075 CCACTACCACCAACAAC
1 CCACTACCAACAACAAC
50184092 CCACTACCAACAACAAC
1 CCACTACCAACAACAAC
50184109 AATCCACTAC
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
17 16 1.00
ACGTcount: A:0.44, C:0.50, G:0.00, T:0.06
Consensus pattern (17 bp):
CCACTACCAACAACAAC
Found at i:50188736 original size:17 final size:17
Alignment explanation
Indices: 50188714--50188747 Score: 59
Period size: 17 Copynumber: 2.0 Consensus size: 17
50188704 ATCCACTAAT
*
50188714 CCACTACCACCAACAAC
1 CCACTACCAACAACAAC
50188731 CCACTACCAACAACAAC
1 CCACTACCAACAACAAC
50188748 AATCCACTAC
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
17 16 1.00
ACGTcount: A:0.44, C:0.50, G:0.00, T:0.06
Consensus pattern (17 bp):
CCACTACCAACAACAAC
Found at i:50199900 original size:136 final size:139
Alignment explanation
Indices: 50199672--50199927 Score: 385
Period size: 136 Copynumber: 1.9 Consensus size: 139
50199662 AAAAAGTTAT
* * *
50199672 ATGTCATAGCCGAACCTCATAGTTTTCGGACTAGAGTGTTACACTTGTGAACCTACGGAATTGAT
1 ATGTCATAGCCGAACCTCATAGTTTTCGGACTAGAGTGTTACACTTGTAAAACTACAGAATTGAT
* * * *
50199737 GATTGATTACCAGTTGGGATGATTAATGTCTATGTTACT-TGACTCGGGTTTGTTTTTCTTTTGA
66 GATTGATTACCAATTGGGATGATTAATGTCTATGCTACTCAGACTCGGATTTGTTTTTCTTTTGA
50199801 AAAGGATAC
131 AAAGGATAC
* * *
50199810 ATGTCATAGCGGAACCTCGTAGTTTTGGGACTAG-G-GTTACACTTGTAAAACTACAGAATTGAT
1 ATGTCATAGCCGAACCTCATAGTTTTCGGACTAGAGTGTTACACTTGTAAAACTACAGAATTGAT
50199873 GATTGATTACCAATT-GGAGTGATTAATGTCTATGCTACTCAGACTCGGATTTGTT
66 GATTGATTACCAATTGGGA-TGATTAATGTCTATGCTACTCAGACTCGGATTTGTT
50199928 CTGTCTCTAC
Statistics
Matches: 106, Mismatches: 10, Indels: 5
0.88 0.08 0.04
Matches are distributed among these distances:
135 3 0.03
136 58 0.55
137 14 0.13
138 31 0.29
ACGTcount: A:0.27, C:0.15, G:0.23, T:0.36
Consensus pattern (139 bp):
ATGTCATAGCCGAACCTCATAGTTTTCGGACTAGAGTGTTACACTTGTAAAACTACAGAATTGAT
GATTGATTACCAATTGGGATGATTAATGTCTATGCTACTCAGACTCGGATTTGTTTTTCTTTTGA
AAAGGATAC
Found at i:50217156 original size:31 final size:29
Alignment explanation
Indices: 50217114--50217172 Score: 73
Period size: 31 Copynumber: 2.0 Consensus size: 29
50217104 CACCCTTTGT
*
50217114 TTTGGTTAATGTGCTATTTAGTACCTGAA
1 TTTGGTTAATGTGCAATTTAGTACCTGAA
* *
50217143 TTTGGCTTCAATGTTCAATTTGGTACCTGA
1 TTTGG-TT-AATGTGCAATTTAGTACCTGA
50217173 GTTTTTTTCC
Statistics
Matches: 25, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
29 5 0.20
30 2 0.08
31 18 0.72
ACGTcount: A:0.22, C:0.14, G:0.20, T:0.44
Consensus pattern (29 bp):
TTTGGTTAATGTGCAATTTAGTACCTGAA
Found at i:50239550 original size:27 final size:26
Alignment explanation
Indices: 50239514--50239578 Score: 71
Period size: 25 Copynumber: 2.5 Consensus size: 26
50239504 ATTAGGGCAC
*
50239514 ATAATCAGGAAGCACTC-TCTCGAGCCAT
1 ATAA-CAGGAAGC-CTCATCT-GAACCAT
*
50239542 ATAACAGGAAG-CTCATGTGAACCAT
1 ATAACAGGAAGCCTCATCTGAACCAT
50239567 ATAACAGGAAGC
1 ATAACAGGAAGC
50239579 TTATCCGGGC
Statistics
Matches: 33, Mismatches: 2, Indels: 6
0.80 0.05 0.15
Matches are distributed among these distances:
25 20 0.61
26 2 0.06
27 7 0.21
28 4 0.12
ACGTcount: A:0.38, C:0.23, G:0.20, T:0.18
Consensus pattern (26 bp):
ATAACAGGAAGCCTCATCTGAACCAT
Found at i:50239736 original size:25 final size:24
Alignment explanation
Indices: 50239702--50239754 Score: 63
Period size: 25 Copynumber: 2.2 Consensus size: 24
50239692 AAATTCAAGC
50239702 GAGCCATATCAGGA-AGCTCATAAA
1 GAGCCATATCAGGACA-CTCATAAA
* *
50239726 GAGCCTATATCGGGACATTCATAAA
1 GAGCC-ATATCAGGACACTCATAAA
50239751 GAGC
1 GAGC
50239755 TGCGGTATGT
Statistics
Matches: 25, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
24 5 0.20
25 19 0.76
26 1 0.04
ACGTcount: A:0.38, C:0.21, G:0.23, T:0.19
Consensus pattern (24 bp):
GAGCCATATCAGGACACTCATAAA
Found at i:50245956 original size:23 final size:22
Alignment explanation
Indices: 50245924--50245966 Score: 59
Period size: 23 Copynumber: 1.9 Consensus size: 22
50245914 GGAAAAGCTC
* *
50245924 AATTAGGCTCTTGTGTAATTTGT
1 AATTAAGCTCTT-TCTAATTTGT
50245947 AATTAAGCTCTTTCTAATTT
1 AATTAAGCTCTTTCTAATTT
50245967 CATGATATAA
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
22 7 0.39
23 11 0.61
ACGTcount: A:0.26, C:0.12, G:0.14, T:0.49
Consensus pattern (22 bp):
AATTAAGCTCTTTCTAATTTGT
Found at i:50247024 original size:19 final size:19
Alignment explanation
Indices: 50247002--50247042 Score: 82
Period size: 19 Copynumber: 2.2 Consensus size: 19
50246992 AAATAGATAG
50247002 ACTTATGACGTATTTTTTT
1 ACTTATGACGTATTTTTTT
50247021 ACTTATGACGTATTTTTTT
1 ACTTATGACGTATTTTTTT
50247040 ACT
1 ACT
50247043 CACTTTGTAA
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
19 22 1.00
ACGTcount: A:0.22, C:0.12, G:0.10, T:0.56
Consensus pattern (19 bp):
ACTTATGACGTATTTTTTT
Found at i:50264605 original size:54 final size:54
Alignment explanation
Indices: 50264506--50264713 Score: 292
Period size: 54 Copynumber: 3.9 Consensus size: 54
50264496 CCTAACCTAT
* * *
50264506 ATCTGAGAAGATAAACACCTTAATTACCAGGCTATTACGGGTTCACAAACTCAC
1 ATCTGAAAAGATAAACACCTTAATTACCAGGCTATCACGGATTCACAAACTCAC
* * * *
50264560 ATCTGAAAAAATAAACACCTTAATTACGAGGTTATCACGGATTCACAAACCCAC
1 ATCTGAAAAGATAAACACCTTAATTACCAGGCTATCACGGATTCACAAACTCAC
* * *
50264614 GTCTGAAAAGATAAACACCTTAATTACCAGGCTATCACGAATTTACAAACTCAC
1 ATCTGAAAAGATAAACACCTTAATTACCAGGCTATCACGGATTCACAAACTCAC
* * *
50264668 GTCTGTAAAGATAAATACCTTAATTA-CAGGCTATCACGGATTCACA
1 ATCTGAAAAGATAAACACCTTAATTACCAGGCTATCACGGATTCACA
50264714 CATTATTTTT
Statistics
Matches: 136, Mismatches: 18, Indels: 1
0.88 0.12 0.01
Matches are distributed among these distances:
53 18 0.13
54 118 0.87
ACGTcount: A:0.39, C:0.23, G:0.13, T:0.25
Consensus pattern (54 bp):
ATCTGAAAAGATAAACACCTTAATTACCAGGCTATCACGGATTCACAAACTCAC
Found at i:50270733 original size:42 final size:42
Alignment explanation
Indices: 50270674--50270755 Score: 146
Period size: 42 Copynumber: 2.0 Consensus size: 42
50270664 TAAAAGAAAT
* *
50270674 GACCAATTTGTTCTTTAATCTAACGTATAGGGACTAATTTAG
1 GACCAATTTGCTCTTTAATCTAACGTATAGGGACCAATTTAG
50270716 GACCAATTTGCTCTTTAATCTAACGTATAGGGACCAATTT
1 GACCAATTTGCTCTTTAATCTAACGTATAGGGACCAATTT
50270756 GTCATTTTTT
Statistics
Matches: 38, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
42 38 1.00
ACGTcount: A:0.30, C:0.17, G:0.16, T:0.37
Consensus pattern (42 bp):
GACCAATTTGCTCTTTAATCTAACGTATAGGGACCAATTTAG
Found at i:50279659 original size:6 final size:6
Alignment explanation
Indices: 50279648--50279680 Score: 66
Period size: 6 Copynumber: 5.5 Consensus size: 6
50279638 ATGGCAACGA
50279648 CAGCGG CAGCGG CAGCGG CAGCGG CAGCGG CAG
1 CAGCGG CAGCGG CAGCGG CAGCGG CAGCGG CAG
50279681 AGTGATACAG
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 27 1.00
ACGTcount: A:0.18, C:0.33, G:0.48, T:0.00
Consensus pattern (6 bp):
CAGCGG
Found at i:50284956 original size:68 final size:68
Alignment explanation
Indices: 50284879--50285013 Score: 270
Period size: 68 Copynumber: 2.0 Consensus size: 68
50284869 CATATTAGGA
50284879 TAATAATTTGAATGAATAATGAAATTTTAAAATTCGAAAAATGCAATGACTAAAATTCACTAAAT
1 TAATAATTTGAATGAATAATGAAATTTTAAAATTCGAAAAATGCAATGACTAAAATTCACTAAAT
50284944 TAC
66 TAC
50284947 TAATAATTTGAATGAATAATGAAATTTTAAAATTCGAAAAATGCAATGACTAAAATTCACTAAAT
1 TAATAATTTGAATGAATAATGAAATTTTAAAATTCGAAAAATGCAATGACTAAAATTCACTAAAT
50285012 TA
66 TA
50285014 AAGTATAAGG
Statistics
Matches: 67, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
68 67 1.00
ACGTcount: A:0.50, C:0.08, G:0.09, T:0.33
Consensus pattern (68 bp):
TAATAATTTGAATGAATAATGAAATTTTAAAATTCGAAAAATGCAATGACTAAAATTCACTAAAT
TAC
Found at i:50287399 original size:107 final size:107
Alignment explanation
Indices: 50287204--50287406 Score: 253
Period size: 107 Copynumber: 1.9 Consensus size: 107
50287194 TTTTAAATTA
* * ** * * **
50287204 ATCCGATATCTTTGTATGAAACAAATTTGGCGTGCAAACTCTATATGAGTATCATATAAAATATG
1 ATCCAATATCTTTATATGAAACAAATTTAACGTACAAACTCTATATGAATAAAATATAAAATATG
** *
50287269 ACAGTTAAATCATTATGACATTAATGGTAAATTTTCGAATCG
66 ACAGTTAAATCATTAAAACATTAATGATAAATTTTCGAATCG
* * *
50287311 ATCCAATATCTTTATATGAAACAAATTTAACGTACATACTTTATATGAATAAAATATGAAATATG
1 ATCCAATATCTTTATATGAAACAAATTTAACGTACAAACTCTATATGAATAAAATATAAAATATG
* * *
50287376 ACGGTTAAATTATTAAAATATTAATGATAAA
66 ACAGTTAAATCATTAAAACATTAATGATAAA
50287407 AAAAATAAGA
Statistics
Matches: 79, Mismatches: 17, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
107 79 1.00
ACGTcount: A:0.42, C:0.11, G:0.12, T:0.35
Consensus pattern (107 bp):
ATCCAATATCTTTATATGAAACAAATTTAACGTACAAACTCTATATGAATAAAATATAAAATATG
ACAGTTAAATCATTAAAACATTAATGATAAATTTTCGAATCG
Found at i:50288235 original size:24 final size:24
Alignment explanation
Indices: 50288208--50288287 Score: 72
Period size: 24 Copynumber: 3.3 Consensus size: 24
50288198 CCAAATTTTC
*
50288208 CACCACCACTAGCTCTTCCACCTG
1 CACCACCTCTAGCTCTTCCACCTG
* * * *
50288232 CACCTCCTCCAGCTCCTCCACCTA
1 CACCACCTCTAGCTCTTCCACCTG
* * *
50288256 CGCCTCCTCTAGCAT-TACCACCTG
1 CACCACCTCTAGC-TCTTCCACCTG
50288280 CACCACCT
1 CACCACCT
50288288 TTGACTCCTC
Statistics
Matches: 43, Mismatches: 12, Indels: 2
0.75 0.21 0.04
Matches are distributed among these distances:
24 42 0.98
25 1 0.02
ACGTcount: A:0.19, C:0.53, G:0.07, T:0.21
Consensus pattern (24 bp):
CACCACCTCTAGCTCTTCCACCTG
Found at i:50288315 original size:6 final size:6
Alignment explanation
Indices: 50288304--50288397 Score: 71
Period size: 6 Copynumber: 15.7 Consensus size: 6
50288294 CCTCCTTGGA
* * * * ** *
50288304 CACCAG CACCAG CTCCAC CTCTAG CACCAG CACCAG CACCCC CACTAG
1 CACCAG CACCAG CACCAG CACCAG CACCAG CACCAG CACCAG CACCAG
* * * * * *
50288352 CTCCAC CTCCAG CACTAG CACTAG CACCAC CACCAG CACCAG CACC
1 CACCAG CACCAG CACCAG CACCAG CACCAG CACCAG CACCAG CACC
50288398 CCCACTAGCT
Statistics
Matches: 68, Mismatches: 20, Indels: 0
0.77 0.23 0.00
Matches are distributed among these distances:
6 68 1.00
ACGTcount: A:0.28, C:0.52, G:0.12, T:0.09
Consensus pattern (6 bp):
CACCAG
Found at i:50288354 original size:36 final size:36
Alignment explanation
Indices: 50288304--50288384 Score: 108
Period size: 36 Copynumber: 2.2 Consensus size: 36
50288294 CCTCCTTGGA
* * *
50288304 CACCAGCACCAGCTCCACCTCTAGCACCAGCACCAG
1 CACCACCACTAGCTCCACCTCCAGCACCAGCACCAG
* * *
50288340 CACCCCCACTAGCTCCACCTCCAGCACTAGCACTAG
1 CACCACCACTAGCTCCACCTCCAGCACCAGCACCAG
50288376 CACCACCAC
1 CACCACCAC
50288385 CAGCACCAGC
Statistics
Matches: 38, Mismatches: 7, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
36 38 1.00
ACGTcount: A:0.27, C:0.52, G:0.11, T:0.10
Consensus pattern (36 bp):
CACCACCACTAGCTCCACCTCCAGCACCAGCACCAG
Found at i:50288396 original size:24 final size:24
Alignment explanation
Indices: 50288304--50288392 Score: 97
Period size: 24 Copynumber: 3.7 Consensus size: 24
50288294 CCTCCTTGGA
* * *
50288304 CACCAGCACCAGCTCCACCTCTAG
1 CACCACCACCAGCACCACCACTAG
* *
50288328 CACCAGCACCAGCACCCCCACTAG
1 CACCACCACCAGCACCACCACTAG
* * * *
50288352 CTCCACCTCCAGCACTAGCACTAG
1 CACCACCACCAGCACCACCACTAG
50288376 CACCACCACCAGCACCA
1 CACCACCACCAGCACCA
50288393 GCACCCCCAC
Statistics
Matches: 53, Mismatches: 12, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
24 53 1.00
ACGTcount: A:0.28, C:0.52, G:0.11, T:0.09
Consensus pattern (24 bp):
CACCACCACCAGCACCACCACTAG
Found at i:50289675 original size:18 final size:17
Alignment explanation
Indices: 50289638--50289678 Score: 50
Period size: 18 Copynumber: 2.5 Consensus size: 17
50289628 TCTCTTTTTC
50289638 TTTTT-CTTTTTTTCAG
1 TTTTTACTTTTTTTCAG
*
50289654 -TTTTACTTTATTTTTAG
1 TTTTTACTTT-TTTTCAG
50289671 TTTTTACT
1 TTTTTACT
50289679 ATTAAAAGTC
Statistics
Matches: 21, Mismatches: 1, Indels: 4
0.81 0.04 0.15
Matches are distributed among these distances:
15 4 0.19
16 4 0.19
17 6 0.29
18 7 0.33
ACGTcount: A:0.12, C:0.10, G:0.05, T:0.73
Consensus pattern (17 bp):
TTTTTACTTTTTTTCAG
Found at i:50290533 original size:9 final size:9
Alignment explanation
Indices: 50290498--50290601 Score: 50
Period size: 9 Copynumber: 11.2 Consensus size: 9
50290488 TCCTCCAATT
50290498 CCTCCACCA
1 CCTCCACCA
* *
50290507 GCACCACCA
1 CCTCCACCA
50290516 CCGAATCCACCA
1 CC---TCCACCA
50290528 CCTCCACCTA
1 CCTCCACC-A
* *
50290538 -CACCTCCA
1 CCTCCACCA
50290546 CC-CGCACCA
1 CCTC-CACCA
***
50290555 CCTCCAATT
1 CCTCCACCA
*
50290564 CCTCCTCCA
1 CCTCCACCA
*
50290573 ACTCCACCA
1 CCTCCACCA
*
50290582 CCTGCACCA
1 CCTCCACCA
*
50290591 CCCCCACCA
1 CCTCCACCA
50290600 CC
1 CC
50290602 AAGCCCTCCT
Statistics
Matches: 68, Mismatches: 20, Indels: 14
0.67 0.20 0.14
Matches are distributed among these distances:
8 2 0.03
9 56 0.82
10 2 0.03
12 8 0.12
ACGTcount: A:0.24, C:0.61, G:0.04, T:0.12
Consensus pattern (9 bp):
CCTCCACCA
Found at i:50290625 original size:42 final size:42
Alignment explanation
Indices: 50290550--50290644 Score: 109
Period size: 42 Copynumber: 2.3 Consensus size: 42
50290540 CCTCCACCCG
* ** *
50290550 CACCACCTCCAATTCCTCCTCCAACTCCACCACCTGCACCAC
1 CACCACCACCAAGCCCTCCTCCAACACCACCACCTGCACCAC
* * * * *
50290592 CCCCACCACCAAGCCCTCCTCCAAGACCGCCACCTGCTCCAG
1 CACCACCACCAAGCCCTCCTCCAACACCACCACCTGCACCAC
50290634 CACCACCACCA
1 CACCACCACCA
50290645 GCTCCACCTC
Statistics
Matches: 43, Mismatches: 10, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
42 43 1.00
ACGTcount: A:0.24, C:0.58, G:0.06, T:0.12
Consensus pattern (42 bp):
CACCACCACCAAGCCCTCCTCCAACACCACCACCTGCACCAC
Found at i:50290690 original size:24 final size:24
Alignment explanation
Indices: 50290663--50290795 Score: 103
Period size: 24 Copynumber: 5.5 Consensus size: 24
50290653 TCCTAAACCG
* *
50290663 GCACCCCCGCCAAGCCCTCCTCCA
1 GCACCACCACCAAGCCCTCCTCCA
*
50290687 GCACCACCACCTAATCCAC-CC-CCA
1 GCACCACCACC-AAGCC-CTCCTCCA
* * * * *
50290711 CCGCCGCCACCGAGCCCTCCTCCT
1 GCACCACCACCAAGCCCTCCTCCA
* *
50290735 GCACCCCCACC-AGCCCCACCTCCTA
1 GCACCACCACCAAG-CCCTCCTCC-A
*
50290760 -AACCACCACCAAGCCCTCCTCCA
1 GCACCACCACCAAGCCCTCCTCCA
50290783 GCACCACCACCAA
1 GCACCACCACCAA
50290796 AACCACCACC
Statistics
Matches: 83, Mismatches: 18, Indels: 16
0.71 0.15 0.14
Matches are distributed among these distances:
22 1 0.01
23 8 0.10
24 65 0.78
25 8 0.10
26 1 0.01
ACGTcount: A:0.23, C:0.60, G:0.09, T:0.08
Consensus pattern (24 bp):
GCACCACCACCAAGCCCTCCTCCA
Found at i:50290729 original size:48 final size:47
Alignment explanation
Indices: 50290672--50290809 Score: 134
Period size: 48 Copynumber: 2.9 Consensus size: 47
50290662 GGCACCCCCG
* ** *
50290672 CCAAGCCCTCCTCCAGCACCACCACCTAATCCACC-CCCACCGCCGCCA
1 CCAAGCCCTCCTCCAGCACCACCACC-AAACCACCACCCA-AACCACCA
* * * ** * *
50290720 CCGAGCCCTCCTCCTGCACCCCCACCAGCCCCACCTCCTAAACCACCA
1 CCAAGCCCTCCTCCAGCACCACCACCA-AACCACCACCCAAACCACCA
50290768 CCAAGCCCTCCTCCAGCACCACCACCAAAACCACCACCCAAA
1 CCAAGCCCTCCTCCAGCACCACCACC-AAACCACCACCCAAA
50290810 TTCTCCTTCT
Statistics
Matches: 71, Mismatches: 16, Indels: 6
0.76 0.17 0.06
Matches are distributed among these distances:
47 1 0.01
48 66 0.93
49 4 0.06
ACGTcount: A:0.26, C:0.59, G:0.07, T:0.08
Consensus pattern (47 bp):
CCAAGCCCTCCTCCAGCACCACCACCAAACCACCACCCAAACCACCA
Found at i:50302006 original size:23 final size:22
Alignment explanation
Indices: 50301945--50302008 Score: 65
Period size: 23 Copynumber: 2.8 Consensus size: 22
50301935 AAATTTTAAT
*
50301945 ATTTTTAAAAAAATTAAATAAA
1 ATTTTTATAAAAATTAAATAAA
* * * *
50301967 AATTTTACTATATATTAAATTATA
1 ATTTTTA-TAAAAATTAAA-TAAA
50301991 ATTTTTATAAAAATTAAA
1 ATTTTTATAAAAATTAAA
50302009 ATGCGATTTT
Statistics
Matches: 32, Mismatches: 8, Indels: 3
0.74 0.19 0.07
Matches are distributed among these distances:
22 6 0.19
23 17 0.53
24 9 0.28
ACGTcount: A:0.55, C:0.02, G:0.00, T:0.44
Consensus pattern (22 bp):
ATTTTTATAAAAATTAAATAAA
Found at i:50302231 original size:6 final size:6
Alignment explanation
Indices: 50302193--50302230 Score: 58
Period size: 6 Copynumber: 6.3 Consensus size: 6
50302183 TTTAATTTTT
* *
50302193 TAATTA TAATTA TAATTA TAATTA TATTTA TATTTA TA
1 TAATTA TAATTA TAATTA TAATTA TAATTA TAATTA TA
50302231 TAAAAAAACT
Statistics
Matches: 31, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
6 31 1.00
ACGTcount: A:0.45, C:0.00, G:0.00, T:0.55
Consensus pattern (6 bp):
TAATTA
Found at i:50304258 original size:17 final size:19
Alignment explanation
Indices: 50304215--50304260 Score: 60
Period size: 20 Copynumber: 2.5 Consensus size: 19
50304205 ATAAAAATAA
50304215 AAATAATAAAAACATATTT
1 AAATAATAAAAACATATTT
*
50304234 AAATTAATATAAA-AT-TTT
1 AAA-TAATAAAAACATATTT
50304252 AAATAATAA
1 AAATAATAA
50304261 TTATAGATGA
Statistics
Matches: 24, Mismatches: 2, Indels: 4
0.80 0.07 0.13
Matches are distributed among these distances:
17 5 0.21
18 6 0.25
19 5 0.21
20 8 0.33
ACGTcount: A:0.63, C:0.02, G:0.00, T:0.35
Consensus pattern (19 bp):
AAATAATAAAAACATATTT
Found at i:50311034 original size:157 final size:157
Alignment explanation
Indices: 50310748--50311043 Score: 592
Period size: 157 Copynumber: 1.9 Consensus size: 157
50310738 AATTGACCAA
50310748 ACTGTGTTATTGTGAATGAAGTCCATTTGTTAAAATGATGAACTTATGTTGGTTTTACTTTCGAA
1 ACTGTGTTATTGTGAATGAAGTCCATTTGTTAAAATGATGAACTTATGTTGGTTTTACTTTCGAA
50310813 GACATAAATGTGATAAACGATGAACGTACGGTTTTCAATATTCAGTGCATTTACCATCTTAAATT
66 GACATAAATGTGATAAACGATGAACGTACGGTTTTCAATATTCAGTGCATTTACCATCTTAAATT
50310878 TGCAATTTTATTCATAGGTATCCAAAT
131 TGCAATTTTATTCATAGGTATCCAAAT
50310905 ACTGTGTTATTGTGAATGAAGTCCATTTGTTAAAATGATGAACTTATGTTGGTTTTACTTTCGAA
1 ACTGTGTTATTGTGAATGAAGTCCATTTGTTAAAATGATGAACTTATGTTGGTTTTACTTTCGAA
50310970 GACATAAATGTGATAAACGATGAACGTACGGTTTTCAATATTCAGTGCATTTACCATCTTAAATT
66 GACATAAATGTGATAAACGATGAACGTACGGTTTTCAATATTCAGTGCATTTACCATCTTAAATT
50311035 TGCAATTTT
131 TGCAATTTT
50311044 GATGGATCCT
Statistics
Matches: 139, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
157 139 1.00
ACGTcount: A:0.31, C:0.12, G:0.17, T:0.39
Consensus pattern (157 bp):
ACTGTGTTATTGTGAATGAAGTCCATTTGTTAAAATGATGAACTTATGTTGGTTTTACTTTCGAA
GACATAAATGTGATAAACGATGAACGTACGGTTTTCAATATTCAGTGCATTTACCATCTTAAATT
TGCAATTTTATTCATAGGTATCCAAAT
Found at i:50313052 original size:16 final size:18
Alignment explanation
Indices: 50313020--50313052 Score: 52
Period size: 18 Copynumber: 1.9 Consensus size: 18
50313010 ATTAATAAAA
50313020 TAAATTTAGTGTTAATTG
1 TAAATTTAGTGTTAATTG
50313038 TAAATTT-GT-TTAATT
1 TAAATTTAGTGTTAATT
50313053 TTACGTCAAA
Statistics
Matches: 15, Mismatches: 0, Indels: 2
0.88 0.00 0.12
Matches are distributed among these distances:
16 6 0.40
17 2 0.13
18 7 0.47
ACGTcount: A:0.33, C:0.00, G:0.12, T:0.55
Consensus pattern (18 bp):
TAAATTTAGTGTTAATTG
Found at i:50329401 original size:12 final size:12
Alignment explanation
Indices: 50329386--50329412 Score: 54
Period size: 12 Copynumber: 2.2 Consensus size: 12
50329376 TTTAATAACG
50329386 TATATTATATTA
1 TATATTATATTA
50329398 TATATTATATTA
1 TATATTATATTA
50329410 TAT
1 TAT
50329413 TATAAAATTG
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 15 1.00
ACGTcount: A:0.41, C:0.00, G:0.00, T:0.59
Consensus pattern (12 bp):
TATATTATATTA
Found at i:50329429 original size:20 final size:18
Alignment explanation
Indices: 50329386--50329438 Score: 63
Period size: 20 Copynumber: 2.9 Consensus size: 18
50329376 TTTAATAACG
*
50329386 TATATTATATTAT-ATAT
1 TATATTATATTATAAAAT
50329403 TATATTATATTATAAAAT
1 TATATTATATTATAAAAT
*
50329421 TGCATATTATATTTTAAA
1 T--ATATTATATTATAAA
50329439 GTTTTATGAA
Statistics
Matches: 31, Mismatches: 2, Indels: 3
0.86 0.06 0.08
Matches are distributed among these distances:
17 13 0.42
18 4 0.13
20 14 0.45
ACGTcount: A:0.43, C:0.02, G:0.02, T:0.53
Consensus pattern (18 bp):
TATATTATATTATAAAAT
Found at i:50331805 original size:43 final size:43
Alignment explanation
Indices: 50331756--50331837 Score: 155
Period size: 43 Copynumber: 1.9 Consensus size: 43
50331746 AAGAAGTTGG
50331756 TTGCAGGGATGTTATGGCAGAGAGAGATAAGAGTAAGAAGATT
1 TTGCAGGGATGTTATGGCAGAGAGAGATAAGAGTAAGAAGATT
*
50331799 TTGCAGGGATGTTATGGCGGAGAGAGATAAGAGTAAGAA
1 TTGCAGGGATGTTATGGCAGAGAGAGATAAGAGTAAGAA
50331838 AGAAAAGTAG
Statistics
Matches: 38, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
43 38 1.00
ACGTcount: A:0.37, C:0.05, G:0.37, T:0.22
Consensus pattern (43 bp):
TTGCAGGGATGTTATGGCAGAGAGAGATAAGAGTAAGAAGATT
Found at i:50337290 original size:18 final size:18
Alignment explanation
Indices: 50337267--50337303 Score: 56
Period size: 18 Copynumber: 2.1 Consensus size: 18
50337257 TATAGTTTGA
50337267 TATTTGAAATATTCGAAT
1 TATTTGAAATATTCGAAT
**
50337285 TATTTGAGTTATTCGAAT
1 TATTTGAAATATTCGAAT
50337303 T
1 T
50337304 CGAAAACTCA
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
18 17 1.00
ACGTcount: A:0.32, C:0.05, G:0.14, T:0.49
Consensus pattern (18 bp):
TATTTGAAATATTCGAAT
Found at i:50343439 original size:19 final size:19
Alignment explanation
Indices: 50343415--50343472 Score: 57
Period size: 19 Copynumber: 3.1 Consensus size: 19
50343405 TCAATAAATT
50343415 TTTAAATTTTTTTATTAAA
1 TTTAAATTTTTTTATTAAA
* *
50343434 TTTAAATATATTTATT-AA
1 TTTAAATTTTTTTATTAAA
*
50343452 TTAAAAATTATTTTT-TTAAA
1 TT-TAAATT-TTTTTATTAAA
50343472 T
1 T
50343473 CATATCCTTC
Statistics
Matches: 31, Mismatches: 5, Indels: 5
0.76 0.12 0.12
Matches are distributed among these distances:
18 4 0.13
19 20 0.65
20 7 0.23
ACGTcount: A:0.41, C:0.00, G:0.00, T:0.59
Consensus pattern (19 bp):
TTTAAATTTTTTTATTAAA
Found at i:50344264 original size:6 final size:7
Alignment explanation
Indices: 50344245--50344274 Score: 60
Period size: 7 Copynumber: 4.3 Consensus size: 7
50344235 ATATTTCTTA
50344245 TATTTTT
1 TATTTTT
50344252 TATTTTT
1 TATTTTT
50344259 TATTTTT
1 TATTTTT
50344266 TATTTTT
1 TATTTTT
50344273 TA
1 TA
50344275 AGAAAATGTT
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 23 1.00
ACGTcount: A:0.17, C:0.00, G:0.00, T:0.83
Consensus pattern (7 bp):
TATTTTT
Found at i:50357798 original size:12 final size:10
Alignment explanation
Indices: 50357752--50357795 Score: 61
Period size: 11 Copynumber: 4.1 Consensus size: 10
50357742 CAACTTAATC
50357752 ATTTCTCTCA
1 ATTTCTCTCA
50357762 ATTTCTCTCTA
1 ATTTCTCTC-A
50357773 ATATTCTCTCA
1 AT-TTCTCTCA
50357784 ATTTCCTCTCA
1 ATTT-CTCTCA
50357795 A
1 A
50357796 ATTCCTATTT
Statistics
Matches: 31, Mismatches: 0, Indels: 5
0.86 0.00 0.14
Matches are distributed among these distances:
10 11 0.35
11 13 0.42
12 7 0.23
ACGTcount: A:0.23, C:0.30, G:0.00, T:0.48
Consensus pattern (10 bp):
ATTTCTCTCA
Found at i:50360562 original size:124 final size:125
Alignment explanation
Indices: 50360341--50360626 Score: 459
Period size: 124 Copynumber: 2.3 Consensus size: 125
50360331 AAACATGCGT
* *
50360341 TACTGTAGCAAAAGCGCGTCCACGTGGGAGCGATTTCAGTACTTTTGCTGACAAAGCATCTTGCT
1 TACTGTAGCAAAAGCGCGTCCACGTAGGAGCGATTTCAGTACTTTTGCTGACAAAGCATCCTGCT
*
50360406 TAAAGCGTTTTTGACACTATTTACTCAGAAACGTCTACTCAAAATTATTTTTTCAGGAGC
66 TAAAGCGTTTTTGACACTATTTACTCAAAAACGTCTACTCAAAATTATTTTTTCAGGAGC
*
50360466 TACTGTAGCAAAAGCGCGTCCACGTAGGAGC-ATTTCAGTACTTTTGCTGACAATGCATCCTGCT
1 TACTGTAGCAAAAGCGCGTCCACGTAGGAGCGATTTCAGTACTTTTGCTGACAAAGCATCCTGCT
** * *
50360530 TAAAGTTTTTTTGACACTATTTGCTCAAAAACGTCTACTCGAAATTATTTTTTCAGGAGC
66 TAAAGCGTTTTTGACACTATTTACTCAAAAACGTCTACTCAAAATTATTTTTTCAGGAGC
* *
50360590 TACTGTAGCAAAAACGCGTCCAAGT-GAGAGCGATTTC
1 TACTGTAGCAAAAGCGCGTCCACGTAG-GAGCGATTTC
50360627 CTTTAAAAAA
Statistics
Matches: 149, Mismatches: 10, Indels: 4
0.91 0.06 0.02
Matches are distributed among these distances:
123 1 0.01
124 113 0.76
125 35 0.23
ACGTcount: A:0.28, C:0.21, G:0.19, T:0.31
Consensus pattern (125 bp):
TACTGTAGCAAAAGCGCGTCCACGTAGGAGCGATTTCAGTACTTTTGCTGACAAAGCATCCTGCT
TAAAGCGTTTTTGACACTATTTACTCAAAAACGTCTACTCAAAATTATTTTTTCAGGAGC
Found at i:50364958 original size:24 final size:26
Alignment explanation
Indices: 50364925--50364976 Score: 72
Period size: 24 Copynumber: 2.1 Consensus size: 26
50364915 TATTTAAATG
50364925 AATAAGTTTAAAATTTAA-A-ATTAA
1 AATAAGTTTAAAATTTAATATATTAA
* *
50364949 AATAATTTTACAATTTAATATATTAA
1 AATAAGTTTAAAATTTAATATATTAA
50364975 AA
1 AA
50364977 AAATATTACT
Statistics
Matches: 24, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
24 16 0.67
25 1 0.04
26 7 0.29
ACGTcount: A:0.56, C:0.02, G:0.02, T:0.40
Consensus pattern (26 bp):
AATAAGTTTAAAATTTAATATATTAA
Found at i:50364985 original size:26 final size:24
Alignment explanation
Indices: 50364936--50364985 Score: 64
Period size: 26 Copynumber: 2.0 Consensus size: 24
50364926 ATAAGTTTAA
* *
50364936 AATTTAAAATTAAAATAATTTTAC
1 AATTTAAAATTAAAAAAATATTAC
50364960 AATTTAATATATTAAAAAAATATTAC
1 AATTTAA-A-ATTAAAAAAATATTAC
50364986 TCGTTTGGCC
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
24 7 0.32
25 1 0.05
26 14 0.64
ACGTcount: A:0.56, C:0.04, G:0.00, T:0.40
Consensus pattern (24 bp):
AATTTAAAATTAAAAAAATATTAC
Found at i:50368600 original size:4 final size:4
Alignment explanation
Indices: 50368593--50368621 Score: 58
Period size: 4 Copynumber: 7.2 Consensus size: 4
50368583 TCGTTCCTAT
50368593 CATA CATA CATA CATA CATA CATA CATA C
1 CATA CATA CATA CATA CATA CATA CATA C
50368622 TGTGTTTCTG
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
4 25 1.00
ACGTcount: A:0.48, C:0.28, G:0.00, T:0.24
Consensus pattern (4 bp):
CATA
Found at i:50378227 original size:60 final size:60
Alignment explanation
Indices: 50378163--50378281 Score: 193
Period size: 60 Copynumber: 2.0 Consensus size: 60
50378153 ATACTAAACT
* * * *
50378163 AAACACGACAATTTATAACATAATCCTAAATTAATAATAATTTAATTTTAAAATAATTAC
1 AAACACAACAATTTATAACATAATCCTAAATTAATAACAAATTAAATTTAAAATAATTAC
*
50378223 AAACACAACAATTTATAACATAATCCTAAATTACTAACAAATTAAATTTAAAATAATTA
1 AAACACAACAATTTATAACATAATCCTAAATTAATAACAAATTAAATTTAAAATAATTA
50378282 TAAAAAACAA
Statistics
Matches: 54, Mismatches: 5, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
60 54 1.00
ACGTcount: A:0.54, C:0.13, G:0.01, T:0.33
Consensus pattern (60 bp):
AAACACAACAATTTATAACATAATCCTAAATTAATAACAAATTAAATTTAAAATAATTAC
Found at i:50378442 original size:27 final size:27
Alignment explanation
Indices: 50378412--50378465 Score: 63
Period size: 27 Copynumber: 2.0 Consensus size: 27
50378402 AGGGGGGAGG
* * * *
50378412 CAGTGGCGCTTACCTGTCAGGCGCGAC
1 CAGTAGCGCCTACCTGACAAGCGCGAC
*
50378439 CAGTAGCGCCTATCTGACAAGCGCGAC
1 CAGTAGCGCCTACCTGACAAGCGCGAC
50378466 TGGTCTCAGG
Statistics
Matches: 22, Mismatches: 5, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
27 22 1.00
ACGTcount: A:0.20, C:0.33, G:0.30, T:0.17
Consensus pattern (27 bp):
CAGTAGCGCCTACCTGACAAGCGCGAC
Found at i:50378599 original size:21 final size:20
Alignment explanation
Indices: 50378548--50378599 Score: 50
Period size: 21 Copynumber: 2.5 Consensus size: 20
50378538 TTTAATAAAA
* *
50378548 ATAAAATAATAATATTTTAT
1 ATAAAAAAAAAATATTTTAT
* *
50378568 TTAAAGTAAAAAATATTTTAAT
1 ATAAA-AAAAAAATATTTT-AT
50378590 ATAAAAAAAA
1 ATAAAAAAAA
50378600 GTAATTGCTG
Statistics
Matches: 24, Mismatches: 6, Indels: 3
0.73 0.18 0.09
Matches are distributed among these distances:
20 4 0.17
21 14 0.58
22 6 0.25
ACGTcount: A:0.62, C:0.00, G:0.02, T:0.37
Consensus pattern (20 bp):
ATAAAAAAAAAATATTTTAT
Found at i:50378998 original size:3 final size:3
Alignment explanation
Indices: 50378990--50379032 Score: 86
Period size: 3 Copynumber: 14.3 Consensus size: 3
50378980 ATACCATCTA
50378990 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT T
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT T
50379033 TTAACAATCT
Statistics
Matches: 40, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 40 1.00
ACGTcount: A:0.33, C:0.00, G:0.00, T:0.67
Consensus pattern (3 bp):
TAT
Found at i:50397573 original size:36 final size:36
Alignment explanation
Indices: 50397532--50397612 Score: 126
Period size: 36 Copynumber: 2.2 Consensus size: 36
50397522 AGGCCGTGTA
***
50397532 TTTGGGTGTGATATGGAGCGCGGGTTTGGGCCTCCT
1 TTTGGGTGTGATATGGAGCGCCAATTTGGGCCTCCT
*
50397568 TTTGGGCGTGATATGGAGCGCCAATTTGGGCCTCCT
1 TTTGGGTGTGATATGGAGCGCCAATTTGGGCCTCCT
50397604 TTTGGGTGT
1 TTTGGGTGT
50397613 AACTTGGGCC
Statistics
Matches: 40, Mismatches: 5, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
36 40 1.00
ACGTcount: A:0.10, C:0.17, G:0.38, T:0.35
Consensus pattern (36 bp):
TTTGGGTGTGATATGGAGCGCCAATTTGGGCCTCCT
Found at i:50406722 original size:22 final size:22
Alignment explanation
Indices: 50406694--50406738 Score: 90
Period size: 22 Copynumber: 2.0 Consensus size: 22
50406684 GATCCTTAAC
50406694 TTTGAAAGTAATTTAATGAAAT
1 TTTGAAAGTAATTTAATGAAAT
50406716 TTTGAAAGTAATTTAATGAAAT
1 TTTGAAAGTAATTTAATGAAAT
50406738 T
1 T
50406739 CAAGCTTAGT
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
22 23 1.00
ACGTcount: A:0.44, C:0.00, G:0.13, T:0.42
Consensus pattern (22 bp):
TTTGAAAGTAATTTAATGAAAT
Found at i:50407041 original size:47 final size:49
Alignment explanation
Indices: 50406917--50407042 Score: 114
Period size: 47 Copynumber: 2.6 Consensus size: 49
50406907 TATTATTAAG
* * *
50406917 AATTTTATGAAATTATATATTATTAAATTATATGTAATAATTATTATTTTA
1 AATTTTATCAAATCATATATT-TT-AATTATATGTAATAATAATTATTTTA
* * * * * *
50406968 AATTATA-CAAATTCATAAAATATAATT-TAT-TAGTTATAATTATTTTA
1 AATTTTATCAAA-TCATATATTTTAATTATATGTAATAATAATTATTTTA
*
50407015 AATTTTATTAAATCATATATTTTAATTA
1 AATTTTATCAAATCATATATTTTAATTA
50407043 AAATATATTT
Statistics
Matches: 58, Mismatches: 14, Indels: 9
0.72 0.17 0.11
Matches are distributed among these distances:
47 32 0.55
48 6 0.10
49 4 0.07
50 4 0.07
51 12 0.21
ACGTcount: A:0.44, C:0.02, G:0.02, T:0.51
Consensus pattern (49 bp):
AATTTTATCAAATCATATATTTTAATTATATGTAATAATAATTATTTTA
Found at i:50407175 original size:15 final size:15
Alignment explanation
Indices: 50407140--50407191 Score: 56
Period size: 15 Copynumber: 3.6 Consensus size: 15
50407130 TTAAGAATTT
*
50407140 TATTAAATTAT-ATA
1 TATTTAATTATAATA
50407154 T-TTTAATTATAATA
1 TATTTAATTATAATA
*
50407168 TATTTAATAATAAT-
1 TATTTAATTATAATA
50407182 TATGTTAATT
1 TAT-TTAATT
50407192 TATATTTTAC
Statistics
Matches: 32, Mismatches: 3, Indels: 5
0.80 0.08 0.12
Matches are distributed among these distances:
13 8 0.25
14 8 0.25
15 16 0.50
ACGTcount: A:0.44, C:0.00, G:0.02, T:0.54
Consensus pattern (15 bp):
TATTTAATTATAATA
Found at i:50407213 original size:61 final size:61
Alignment explanation
Indices: 50407148--50407335 Score: 183
Period size: 61 Copynumber: 3.1 Consensus size: 61
50407138 TTTATTAAAT
*
50407148 TATATATTTTAATTATAATATATTTAATAATAATTATGTTAATTTATATTTTACAGTATCA
1 TATATATTTTAATTATAATATATTTAATAATAATTATGTTAATTTATATTTTACAATATCA
* * * * * * * *
50407209 TATATATTATGATTTGAGTAA-ATTCATATAAGAAT-ATTA-ATT-ATTAAGAATTTTATTAA-A
1 TATATATT-TTAATT-A-TAATA-T-ATTTAATAATAATTATGTTAATTTA-TATTTTA-CAATA
50407269 T--
59 TCA
50407270 TATATATTTTAATTATAATATATTTAATAATAATTATGTTAATTTATATTTTACAATATCA
1 TATATATTTTAATTATAATATATTTAATAATAATTATGTTAATTTATATTTTACAATATCA
50407331 TATAT
1 TATAT
50407336 TATGAATATG
Statistics
Matches: 96, Mismatches: 17, Indels: 28
0.68 0.12 0.20
Matches are distributed among these distances:
57 8 0.08
58 10 0.10
59 12 0.12
60 8 0.08
61 21 0.22
62 8 0.08
63 12 0.12
64 9 0.09
65 8 0.08
ACGTcount: A:0.43, C:0.03, G:0.04, T:0.51
Consensus pattern (61 bp):
TATATATTTTAATTATAATATATTTAATAATAATTATGTTAATTTATATTTTACAATATCA
Found at i:50407267 original size:122 final size:122
Alignment explanation
Indices: 50407015--50407435 Score: 697
Period size: 122 Copynumber: 3.4 Consensus size: 122
50407005 AATTATTTTA
* * *
50407015 AATTTTATTAAATCATATATTTTAATTAAAATATATTTAATATTAATTAT-TTCAAATTT-TCTT
1 AATTTTATTAAATTATATATTTTAATTAAAATATATTTAATAATAATTATGTT--AATTTATATT
*
50407078 TTATAGTATC--ATATATTATGATTTGAGTAAATTCATATAAGAATATTAATTATTAAG
64 TTACAGTATCATATATATTATGATTTGAGTAAATTCATATAAGAATATTAATTATTAAG
*
50407135 AATTTTATTAAATTATATATTTTAATTATAATATATTTAATAATAATTATGTTAATTTATATTTT
1 AATTTTATTAAATTATATATTTTAATTAAAATATATTTAATAATAATTATGTTAATTTATATTTT
50407200 ACAGTATCATATATATTATGATTTGAGTAAATTCATATAAGAATATTAATTATTAAG
66 ACAGTATCATATATATTATGATTTGAGTAAATTCATATAAGAATATTAATTATTAAG
*
50407257 AATTTTATTAAATTATATATTTTAATTATAATATATTTAATAATAATTATGTTAATTTATATTTT
1 AATTTTATTAAATTATATATTTTAATTAAAATATATTTAATAATAATTATGTTAATTTATATTTT
*
50407322 ACAATATCATATATTATGAATATGATTTGAGTAAATTCATATAAGAATATTAATTATTAAG
66 ACAGTATCATATA-TAT---TATGATTTGAGTAAATTCATATAAGAATATTAATTATTAAG
50407383 AATTTTATTAAATTATATATTTTAATTAAAATATATTTAATAATAATTATGTT
1 AATTTTATTAAATTATATATTTTAATTAAAATATATTTAATAATAATTATGTT
50407436 TAAATATGAT
Statistics
Matches: 286, Mismatches: 7, Indels: 10
0.94 0.02 0.03
Matches are distributed among these distances:
119 5 0.02
120 59 0.21
121 2 0.01
122 124 0.43
123 3 0.01
126 93 0.33
ACGTcount: A:0.43, C:0.03, G:0.05, T:0.49
Consensus pattern (122 bp):
AATTTTATTAAATTATATATTTTAATTAAAATATATTTAATAATAATTATGTTAATTTATATTTT
ACAGTATCATATATATTATGATTTGAGTAAATTCATATAAGAATATTAATTATTAAG
Found at i:50407297 original size:15 final size:15
Alignment explanation
Indices: 50407262--50407313 Score: 56
Period size: 15 Copynumber: 3.6 Consensus size: 15
50407252 TTAAGAATTT
*
50407262 TATTAAATTAT-ATA
1 TATTTAATTATAATA
50407276 T-TTTAATTATAATA
1 TATTTAATTATAATA
*
50407290 TATTTAATAATAAT-
1 TATTTAATTATAATA
50407304 TATGTTAATT
1 TAT-TTAATT
50407314 TATATTTTAC
Statistics
Matches: 32, Mismatches: 3, Indels: 5
0.80 0.08 0.12
Matches are distributed among these distances:
13 8 0.25
14 8 0.25
15 16 0.50
ACGTcount: A:0.44, C:0.00, G:0.02, T:0.54
Consensus pattern (15 bp):
TATTTAATTATAATA
Found at i:50407412 original size:18 final size:17
Alignment explanation
Indices: 50407384--50407418 Score: 52
Period size: 18 Copynumber: 2.0 Consensus size: 17
50407374 ATTATTAAGA
*
50407384 ATTTTATTAAATTATAT
1 ATTTTATTAAAATATAT
50407401 ATTTTAATTAAAATATAT
1 ATTTT-ATTAAAATATAT
50407419 TTAATAATAA
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
17 5 0.31
18 11 0.69
ACGTcount: A:0.46, C:0.00, G:0.00, T:0.54
Consensus pattern (17 bp):
ATTTTATTAAAATATAT
Found at i:50407609 original size:39 final size:40
Alignment explanation
Indices: 50407566--50407670 Score: 113
Period size: 44 Copynumber: 2.5 Consensus size: 40
50407556 TTCCATTATG
50407566 CTATTACACCTCTATTCCATTCAACCAAACACAAGA-TTA
1 CTATTACACCTCTATTCCATTCAACCAAACACAAGATTTA
* *** *
50407605 CTATTACGCCTCTATTCCATTACATTCAACCAAACAGTTGATTTG
1 CTATTACACCTCTATT-C----CATTCAACCAAACACAAGATTTA
50407650 CTATTACACCTCTATTCCATT
1 CTATTACACCTCTATTCCATT
50407671 ACACATCTAA
Statistics
Matches: 54, Mismatches: 6, Indels: 11
0.76 0.08 0.15
Matches are distributed among these distances:
39 15 0.28
40 5 0.09
44 17 0.31
45 17 0.31
ACGTcount: A:0.31, C:0.30, G:0.05, T:0.34
Consensus pattern (40 bp):
CTATTACACCTCTATTCCATTCAACCAAACACAAGATTTA
Found at i:50407664 original size:45 final size:44
Alignment explanation
Indices: 50407564--50407673 Score: 131
Period size: 45 Copynumber: 2.6 Consensus size: 44
50407554 TTTTCCATTA
50407564 TGCTATTACACCTCTATT-C----CATTCAACCAAACACAAGAT
1 TGCTATTACACCTCTATTCCATTACATTCAACCAAACACAAGAT
* * ***
50407603 TACTATTACGCCTCTATTCCATTACATTCAACCAAACAGTTGATT
1 TGCTATTACACCTCTATTCCATTACATTCAACCAAACACAAGA-T
50407648 TGCTATTACACCTCTATTCCATTACA
1 TGCTATTACACCTCTATTCCATTACA
50407674 CATCTAATCC
Statistics
Matches: 58, Mismatches: 7, Indels: 6
0.82 0.10 0.08
Matches are distributed among these distances:
39 16 0.28
40 1 0.02
44 16 0.28
45 25 0.43
ACGTcount: A:0.32, C:0.29, G:0.05, T:0.34
Consensus pattern (44 bp):
TGCTATTACACCTCTATTCCATTACATTCAACCAAACACAAGAT
Found at i:50414794 original size:131 final size:130
Alignment explanation
Indices: 50414467--50414815 Score: 347
Period size: 125 Copynumber: 2.7 Consensus size: 130
50414457 TCAGTTACAG
* * * * * * *
50414467 ATTTTTT-TTTCTCGATAATATCAAGTTCTATCATATGAGTTTGATA-TTCAAACTTGAATTATT
1 ATTTTTTCTCTCTTGATTATATCAAGTTTTGTCATATGAGTTTGATACTT-AAATTTGAATAATT
* * * * *
50414530 TGAAATTAATTGTCTTCGTCATTTTAAGTATGGGATACTTTTTTTTTGTCAGTTTCAGATTGAAT
65 TAAAATTAATTGTCTTCATCATTCTAAGTTTGGGATACTTTTTTTTTGTCAGTTTCAGATTAAAT
50414595 C
130 C
** * * * * *
50414596 A-TTTTTCTC-GATAATT-TAT--ATTTTTGTCATATGAGTTTGACACTCAAATTTAAATAATTT
1 ATTTTTTCTCTCTTGATTATATCAAGTTTTGTCATATGAGTTTGATACTTAAATTTGAATAATTT
* * **
50414656 AAAATTAATTGTCTTC-TCAATCTAAGTTTGGGATACATTTTTTTTATGAT-GGTTTTGGATTAA
66 AAAATTAATTGTCTTCATCATTCTAAGTTTGGGATAC-TTTTTTTT-TG-TCAGTTTCAGATTAA
50414719 ATC
128 ATC
* *
50414722 ATTTTTTCTCTCTTGATTATATCAAGTTTTGTCATATGAGTTCGATACTTAAATTTGAATCATTT
1 ATTTTTTCTCTCTTGATTATATCAAGTTTTGTCATATGAGTTTGATACTTAAATTTGAATAATTT
* * *
50414787 TAAATTAACTGTTTTCATCATTCTAAGTT
66 AAAATTAATTGTCTTCATCATTCTAAGTT
50414816 GATAATACAT
Statistics
Matches: 174, Mismatches: 35, Indels: 19
0.76 0.15 0.08
Matches are distributed among these distances:
124 17 0.10
125 54 0.31
126 16 0.09
127 12 0.07
128 11 0.06
129 5 0.03
131 48 0.28
132 11 0.06
ACGTcount: A:0.28, C:0.11, G:0.12, T:0.49
Consensus pattern (130 bp):
ATTTTTTCTCTCTTGATTATATCAAGTTTTGTCATATGAGTTTGATACTTAAATTTGAATAATTT
AAAATTAATTGTCTTCATCATTCTAAGTTTGGGATACTTTTTTTTTGTCAGTTTCAGATTAAATC
Found at i:50414875 original size:131 final size:128
Alignment explanation
Indices: 50414467--50414882 Score: 380
Period size: 131 Copynumber: 3.2 Consensus size: 128
50414457 TCAGTTACAG
** * * * *
50414467 ATTTTTTTTTCTCGATAATATCAAGTTCTATCATATGAGTTTGATA-TTCAAACTTGAATTATTT
1 ATTTTTTCCTCTCGATAATATCAAGTTTTGTCATATGAGTTTGATACTT-AAATTTGAATAATTT
* * * *
50414531 GAAATTAATTGTCTTCGTCATTTTAAGTATGGGATAC-TTTTTTTTTGTCAGTTTCAGATTGAAT
65 AAAATTAATTGTCTTC-TCATTCTAAGT-TGGGATACATTTTTTTATGTCGGTTTCAGATTGAAT
50414595 C
128 C
* * * * *
50414596 A--TTTT--TCTCGATAAT-TTATATTTTTGTCATATGAGTTTGACACTCAAATTTAAATAATTT
1 ATTTTTTCCTCTCGATAATATCA-AGTTTTGTCATATGAGTTTGATACTTAAATTTGAATAATTT
* ** *
50414656 AAAATTAATTGTCTTCTCAATCTAAGTTTGGGATACATTTTTTTTATGAT-GGTTTTGGATTAAA
65 AAAATTAATTGTCTTCTCATTCTAAG-TTGGGATACA-TTTTTTTATG-TCGGTTTCAGATTGAA
50414720 TC
127 TC
* * * *
50414722 ATTTTTTCTCTCTTGATTATATCAAGTTTTGTCATATGAGTTCGATACTTAAATTTGAATCATTT
1 ATTTTTTC-CTCTCGATAATATCAAGTTTTGTCATATGAGTTTGATACTTAAATTTGAATAATTT
* * * ** * * *
50414787 TAAATTAACTGTTTTCATCATTCTAAGTTGATAATACATTTTTCTATGTCGGTTTCAAATTGAGT
65 AAAATTAATTGTCTTC-TCATTCTAAGTTG-GGATACATTTTTTTATGTCGGTTTCAGATTGAAT
50414852 C
128 C
* *
50414853 ATTTTTTCGCTCTCAATAATATCATGTTTT
1 ATTTTTTC-CTCTCGATAATATCAAGTTTT
50414883 TTTGTCTTCA
Statistics
Matches: 229, Mismatches: 43, Indels: 28
0.76 0.14 0.09
Matches are distributed among these distances:
124 18 0.08
125 57 0.25
126 23 0.10
127 5 0.02
128 4 0.02
129 1 0.00
130 1 0.00
131 104 0.45
132 16 0.07
ACGTcount: A:0.28, C:0.12, G:0.12, T:0.49
Consensus pattern (128 bp):
ATTTTTTCCTCTCGATAATATCAAGTTTTGTCATATGAGTTTGATACTTAAATTTGAATAATTTA
AAATTAATTGTCTTCTCATTCTAAGTTGGGATACATTTTTTTATGTCGGTTTCAGATTGAATC
Found at i:50415042 original size:216 final size:217
Alignment explanation
Indices: 50414664--50415088 Score: 533
Period size: 216 Copynumber: 2.0 Consensus size: 217
50414654 TTAAAATTAA
* *
50414664 TTGTCTTCTCAATCTAAGTTTGGGATACATTTTTTTTATGATGGTTTTGGATTAAATCATTTTTT
1 TTGTCTTCTCAATCTAAGTTTAGGATACATTTTTTTTATGATAGTTTTGGATTAAATCA-TTTTT
* * * *
50414729 CTCTCTTGATTATATCAAGTTTTGTCATATGAGTTCGATACTTAAATTTGAATCATTTTAAATTA
65 CTCTCTTGATAATATCAAGTTTGGTCATATGAGTTCGATACTCAAATTTGAATCATTTAAAATTA
* * * * *
50414794 ACTGTTTTCATCATTCTAAGTTGATAATACATT-TTTCTATGTCGGTTTCAAATTGAGTCATTTT
130 ACTATTATCATCATTCTAAGTTGAGAATACATTCTTT-TATGTCAGTTTCAAATTGAATCATTTT
50414858 TTCGCTCTCAATAATATCATGTTTTT
194 TT--CTCTCAATAATATCATGTTTTT
* *
50414884 TTGTCTTCATCATTCTAAGTTTAGGATACATTTTTTTT-TG-TCAGTTTTGGATTGAATCA-TTT
1 TTGTCTTC-TCAATCTAAGTTTAGGATACATTTTTTTTATGAT-AGTTTTGGATTAAATCATTTT
* *
50414946 T-T-TCTTGATAATATCGAA-TTTGGTCATATGAGTTTGATACTCAAATTTGAATTATTTAAAAT
64 TCTCTCTTGATAATATC-AAGTTTGGTCATATGAGTTCGATACTCAAATTTGAATCATTTAAAAT
* * ***
50415008 TAACTATTATCGTCATTCTAAGTTTG-GGATACATTCTTTTATGTCAGTTTTGGATTGAATCATT
128 TAACTATTATCATCATTCTAAG-TTGAGAATACATTCTTTTATGTCAGTTTCAAATTGAATCATT
*
50415072 TTTTCTCTCGATAATAT
192 TTTTCTCTCAATAATAT
50415089 AAAGTATTGT
Statistics
Matches: 179, Mismatches: 21, Indels: 16
0.83 0.10 0.07
Matches are distributed among these distances:
214 12 0.07
216 101 0.56
217 9 0.05
218 4 0.02
219 1 0.01
220 25 0.14
221 27 0.15
ACGTcount: A:0.26, C:0.12, G:0.13, T:0.49
Consensus pattern (217 bp):
TTGTCTTCTCAATCTAAGTTTAGGATACATTTTTTTTATGATAGTTTTGGATTAAATCATTTTTC
TCTCTTGATAATATCAAGTTTGGTCATATGAGTTCGATACTCAAATTTGAATCATTTAAAATTAA
CTATTATCATCATTCTAAGTTGAGAATACATTCTTTTATGTCAGTTTCAAATTGAATCATTTTTT
CTCTCAATAATATCATGTTTTT
Found at i:50415073 original size:127 final size:126
Alignment explanation
Indices: 50414884--50415887 Score: 1058
Period size: 127 Copynumber: 7.9 Consensus size: 126
50414874 TCATGTTTTT
* * * *
50414884 TTGTCTTCATCATTCTAAGTTTAGGATACATTTTTTTTTGTCAGTTTTGGATTGAATCATTTTTT
1 TTGTCTTCGTCATTCTAAGTTTGGGATACA-TTTTTTATGTCAGTTTCGGATTGAATCATTTTTT
* * * *
50414949 CTTGATAATATCGAATTTGGTCATATGAGTTTGATACTCAAATTTGAATTATTTAAAATTAA
65 CTTGATAATATCGAGTTTTGTCATATGAGTTTGATACTCAAATTTGAATCATTTGAAATTAA
* * *
50415011 CTAT-TATCGTCATTCTAAGTTTGGGATACATTCTTTTATGTCAGTTTTGGATTGAATCATTTTT
1 TTGTCT-TCGTCATTCTAAGTTTGGGATACATT-TTTTATGTCAGTTTCGGATTGAATCATTTTT
** * * *
50415075 TCTCTCGATAATATAAAGTATTGTCATACGAGTTTGATACTCGAATTTGAATCATTTGAAATTAA
64 TCT-T-GATAATATCGAGTTTTGTCATATGAGTTTGATACTCAAATTTGAATCATTTGAAATTAA
* * * ** * *
50415140 TTCTCTTCATCATTCTAAGTTTGGAATACATTTTTCTATGTTGGTTTC-AAGTTGAATAATTTTT
1 TTGTCTTCGTCATTCTAAGTTTGGGATACATTTTT-TATGTCAGTTTCGGA-TTGAATCATTTTT
* * *
50415204 TCTTCGATAATATCGAGTTTTGTCATATGAGTTTGATACTCAAATCTAAATAATTTGAAATTAA
64 TCTT-GATAATATCGAGTTTTGTCATATGAGTTTGATACTCAAATTTGAATCATTTGAAATTAA
* * *
50415268 TTGTCTTCGTCATT-TAACTTTGGGATACATTTTGTTATGTCGGCTTC-GAGTTGAATCATTTTT
1 TTGTCTTCGTCATTCTAAGTTTGGGATACATTTT-TTATGTCAGTTTCGGA-TTGAATCATTTTT
** *
50415331 CTCTAT-ATAATATC-AGGTTTTGTCATATGAGTTTGATACTTGAATTTGAATCATTTGAATTTA
64 -TCT-TGATAATATCGA-GTTTTGTCATATGAGTTTGATACTCAAATTTGAATCATTTGAAATTA
*
50415394 T
126 A
* * * * * *
50415395 TTGTCTTCATTATTCTAAATTTGGGATACATTTTTTTATATCGGTTTCGAATTGAATCATTTTTC
1 TTGTCTTCGTCATTCTAAGTTTGGGATACA-TTTTTTATGTCAGTTTCGGATTGAATCATTTTT-
* * * ** *
50415460 TCTCTCGATAATATTGAGTTTTGTCAAACGAGTTTGATACTTGAATTTGAATCATTTGAAATTAG
64 TCT-T-GATAATATCGAGTTTTGTCATATGAGTTTGATACTCAAATTTGAATCATTTGAAATTAA
* * * *
50415525 TTGTCTTCGTCATTCTAAGTTTGGAATACATTTTTTATGTCGGTTTCGGGTTGAATCATTTTTCC
1 TTGTCTTCGTCATTCTAAGTTTGGGATACATTTTTTATGTCAGTTTCGGATTGAATCATTTTTTC
** * ** * * * *
50415590 TCAATAATATTGAGTTTTGTTGTATGAGTCTGATACTCGAAA-TTGAATAATCTGAAAGTAA
66 TTGATAATATCGAGTTTTGTCATATGAGTTTGATACTC-AAATTTGAATCATTTGAAATTAA
* * **
50415651 TTGTCTTTGTCATTCTAAGTTT-GGATTACATTTTTTGATGTCACTTTCGGATTGAATCATGATT
1 TTGTCTTCGTCATTCTAAGTTTGGGA-TACATTTTTT-ATGTCAGTTTCGGATTGAATCATTTTT
* * * ** * * * *
50415715 TCTTGACAATATCTAGTCTTGTCATACAAGTTTGATACTCGAATCTAAAT-ATTTGAAACTAA
64 TCTTGATAATATCGAGTTTTGTCATATGAGTTTGATACTCAAATTTGAATCATTTGAAATTAA
* * * * *
50415777 TTGTCTTCATCATTCTAAGCTTGGGATACATTTTTTATGTCGGCTTCGGATTGAAT--TTTTTTT
1 TTGTCTTCGTCATTCTAAGTTTGGGATACATTTTTTATGTCAGTTTCGGATTGAATCATTTTTTC
*
50415840 TTGATAATATCGAGTTTTGTCATATGAGTTTGATAATCAAATTTGAAT
66 TTGATAATATCGAGTTTTGTCATATGAGTTTGATACTCAAATTTGAAT
50415888 AATTGTCTTT
Statistics
Matches: 734, Mismatches: 121, Indels: 48
0.81 0.13 0.05
Matches are distributed among these distances:
123 43 0.06
125 19 0.03
126 120 0.16
127 218 0.30
128 119 0.16
129 136 0.19
130 78 0.11
131 1 0.00
ACGTcount: A:0.27, C:0.12, G:0.15, T:0.46
Consensus pattern (126 bp):
TTGTCTTCGTCATTCTAAGTTTGGGATACATTTTTTATGTCAGTTTCGGATTGAATCATTTTTTC
TTGATAATATCGAGTTTTGTCATATGAGTTTGATACTCAAATTTGAATCATTTGAAATTAA
Found at i:50415188 original size:345 final size:344
Alignment explanation
Indices: 50414539--50415205 Score: 903
Period size: 345 Copynumber: 1.9 Consensus size: 344
50414529 TTGAAATTAA
* * *
50414539 TTGTCTTCGTCATTTTAAGTATGGGATACTTTTTTTTTGTCAGTTTCAGATTGAATCATTTTTCT
1 TTGTCTTCATCATTCTAAGTATAGGATACTTTTTTTTTGTCAGTTTCAGATTGAATCATTTTTCT
* * * * * *
50414604 CGATAATTTATATTTTTGTCATATGAGTTTGACACTCAAATTTAAATAATTTAAAATTAATTGTC
66 CGATAATATAGAATTTGGTCATATGAGTTTGACACTCAAATTTAAATAATTTAAAATTAACTATC
* *
50414669 TTCTCAATCTAAGTTTGGGATACATTTTTTTTATGATGGTTTTGGATTAAATCATTTTTTCTCTC
131 TTCTCAATCTAAGTTTGGGATACATTTCTTTTATGATAGTTTTGGATTAAATCATTTTTTCTCTC
* * * * * * *
50414734 TTGATTATATCAAGTTTTGTCATATGAGTTCGATACTTAAATTTGAATCATTTTAAATTAACTGT
196 -TGATAATATAAAGTATTGTCATACGAGTTCGATACTCAAATTTGAATCATTTGAAATTAACTCT
* * * *
50414799 TTTCATCATTCTAAGTTGATAATACATTTTTCTATGTCGGTTTCAAATTGAGTCATTTTTTCGCT
260 CTTCATCATTCTAAGTTGAGAATACATTTTTCTATGTCGGTTTCAAATTGAATAATTTTTTCGCT
50414864 CTCAATAATATCATGTTTTT
325 CTCAATAATATCATGTTTTT
* **
50414884 TTGTCTTCATCATTCTAAGTTTAGGATACATTTTTTTTTGTCAGTTTTGGATTGAATCATTTTTT
1 TTGTCTTCATCATTCTAAGTATAGGATAC-TTTTTTTTTGTCAGTTTCAGATTGAATCA-TTTTT
* * * * *
50414949 CTTGATAATATCGAATTTGGTCATATGAGTTTGATACTCAAATTTGAATTATTTAAAATTAACTA
64 CTCGATAATATAGAATTTGGTCATATGAGTTTGACACTCAAATTTAAATAATTTAAAATTAACTA
* *
50415014 T-TATCGTCATTCTAAGTTTGGGATACA-TTCTTTTATG-TCAGTTTTGGATTGAATCATTTTTT
129 TCT-TC-TCAATCTAAGTTTGGGATACATTTCTTTTATGAT-AGTTTTGGATTAAATCATTTTTT
* *
50415076 CTCTC-GATAATATAAAGTATTGTCATACGAGTTTGATACTCGAATTTGAATCATTTGAAATTAA
191 CTCTCTGATAATATAAAGTATTGTCATACGAGTTCGATACTCAAATTTGAATCATTTGAAATTAA
* * *
50415140 TTCTCTTCATCATTCTAAGTTTG-GAATACATTTTTCTATGTTGGTTTCAAGTTGAATAATTTTT
256 CTCTCTTCATCATTCTAAG-TTGAGAATACATTTTTCTATGTCGGTTTCAAATTGAATAATTTTT
50415204 TC
320 TC
50415206 TTCGATAATA
Statistics
Matches: 279, Mismatches: 37, Indels: 12
0.85 0.11 0.04
Matches are distributed among these distances:
345 130 0.47
346 32 0.11
347 97 0.35
348 20 0.07
ACGTcount: A:0.27, C:0.12, G:0.13, T:0.48
Consensus pattern (344 bp):
TTGTCTTCATCATTCTAAGTATAGGATACTTTTTTTTTGTCAGTTTCAGATTGAATCATTTTTCT
CGATAATATAGAATTTGGTCATATGAGTTTGACACTCAAATTTAAATAATTTAAAATTAACTATC
TTCTCAATCTAAGTTTGGGATACATTTCTTTTATGATAGTTTTGGATTAAATCATTTTTTCTCTC
TGATAATATAAAGTATTGTCATACGAGTTCGATACTCAAATTTGAATCATTTGAAATTAACTCTC
TTCATCATTCTAAGTTGAGAATACATTTTTCTATGTCGGTTTCAAATTGAATAATTTTTTCGCTC
TCAATAATATCATGTTTTT
Found at i:50415584 original size:257 final size:254
Alignment explanation
Indices: 50414884--50415887 Score: 1120
Period size: 256 Copynumber: 3.9 Consensus size: 254
50414874 TCATGTTTTT
* * * *
50414884 TTGTCTTCATCATTCTAAGTTTAGGATACATTTTTTTTTGTCAGTTTTGGATTGAATCATTTTTT
1 TTGTCTTCATCATTCTAAGTTTGGGATACATTTTTTTATGTCAGTTTCGAATTGAATCATTTTTT
* * * * * * * *
50414949 CTTGATAATATCGAATTTGGTCATATGAGTTTGATACTCAAATTTGAATTATTTAAAATTAACTA
66 CTTGATAATATCGAGTTTTGTCATACGAGTTTGATACTCAAATCT-AAATATTTGAAATTAATTG
* * *
50415014 T-TATCGTCATTCTAAGTTTGGGATACATTCTTTTATGTCAGTTTTGGATTGAATCATTTTTTCT
130 TCT-TCGTCATTCTAAGTTTGGGATACATT-TTTTATGTCGGCTTCGGATTGAATCA-TTTTTCT
** * * *
50415078 CTCGATAATAT-AAAGTATTGTCATACGAGTTTGATACTCGAATTTGAATCATTTGAAATTAA
192 CTATATAATATCAGAGTTTTGTCATATGAGTTTGATACTCGAATTTGAATCATTTGAAATTAA
* * * ** *
50415140 TTCTCTTCATCATTCTAAGTTTGGAATACATTTTTCTATGTTGGTTTC-AAGTTGAATAATTTTT
1 TTGTCTTCATCATTCTAAGTTTGGGATACATTTTTTTATGTCAGTTTCGAA-TTGAATCATTTTT
*
50415204 TCTTCGATAATATCGAGTTTTGTCATATGAGTTTGATACTCAAATCTAAATAATTTGAAATTAAT
65 TCTT-GATAATATCGAGTTTTGTCATACGAGTTTGATACTCAAATCTAAAT-ATTTGAAATTAAT
*
50415269 TGTCTTCGTCATT-TAACTTTGGGATACATTTTGTTATGTCGGCTTC-GAGTTGAATCATTTTTC
128 TGTCTTCGTCATTCTAAGTTTGGGATACATTTT-TTATGTCGGCTTCGGA-TTGAATCATTTTTC
* * *
50415332 TCTATATAATATCAG-GTTTTGTCATATGAGTTTGATACTTGAATTTGAATCATTTGAATTTAT
191 TCTATATAATATCAGAGTTTTGTCATATGAGTTTGATACTCGAATTTGAATCATTTGAAATTAA
* * * *
50415395 TTGTCTTCATTATTCTAAATTTGGGATACATTTTTTTATATCGGTTTCGAATTGAATCATTTTTC
1 TTGTCTTCATCATTCTAAGTTTGGGATACATTTTTTTATGTCAGTTTCGAATTGAATCATTTTT-
* * ** * * *
50415460 TCTCTCGATAATATTGAGTTTTGTCAAACGAGTTTGATACTTGAATTTGAATCATTTGAAATTAG
65 TCT-T-GATAATATCGAGTTTTGTCATACGAGTTTGATACTCAAATCTAAAT-ATTTGAAATTAA
* * *
50415525 TTGTCTTCGTCATTCTAAGTTTGGAATACATTTTTTATGTCGGTTTCGGGTTGAATCATTTTTC-
127 TTGTCTTCGTCATTCTAAGTTTGGGATACATTTTTTATGTCGGCTTCGGATTGAATCATTTTTCT
* ** * * * * *
50415589 CTCA-ATAATAT-TGAGTTTTGTTGTATGAGTCTGATACTCGAAATTGAATAATCTGAAAGTAA
192 CT-ATATAATATCAGAGTTTTGTCATATGAGTTTGATACTCGAATTTGAATCATTTGAAATTAA
** * * * **
50415651 TTGTCTTTGTCATTCTAAGTTT-GGATTACATTTTTTGATGTCACTTTCGGATTGAATCATGATT
1 TTGTCTTCATCATTCTAAGTTTGGGA-TACATTTTTTTATGTCAGTTTCGAATTGAATCATTTTT
* * * * * *
50415715 TCTTGACAATATCTAGTCTTGTCATACAAGTTTGATACTCGAATCTAAATATTTGAAACTAATTG
65 TCTTGATAATATCGAGTTTTGTCATACGAGTTTGATACTCAAATCTAAATATTTGAAATTAATTG
* * *
50415780 TCTTCATCATTCTAAGCTTGGGATACATTTTTTATGTCGGCTTCGGATTGAAT--TTTTT-T-TT
130 TCTTCGTCATTCTAAGTTTGGGATACATTTTTTATGTCGGCTTCGGATTGAATCATTTTTCTCTA
* *
50415841 TGATAATATC-GAGTTTTGTCATATGAGTTTGATAATCAAATTTGAAT
195 T-ATAATATCAGAGTTTTGTCATATGAGTTTGATACTCGAATTTGAAT
50415888 AATTGTCTTT
Statistics
Matches: 634, Mismatches: 95, Indels: 44
0.82 0.12 0.06
Matches are distributed among these distances:
249 1 0.00
250 43 0.07
252 61 0.10
253 37 0.06
254 1 0.00
255 124 0.20
256 195 0.31
257 153 0.24
258 19 0.03
ACGTcount: A:0.27, C:0.12, G:0.15, T:0.46
Consensus pattern (254 bp):
TTGTCTTCATCATTCTAAGTTTGGGATACATTTTTTTATGTCAGTTTCGAATTGAATCATTTTTT
CTTGATAATATCGAGTTTTGTCATACGAGTTTGATACTCAAATCTAAATATTTGAAATTAATTGT
CTTCGTCATTCTAAGTTTGGGATACATTTTTTATGTCGGCTTCGGATTGAATCATTTTTCTCTAT
ATAATATCAGAGTTTTGTCATATGAGTTTGATACTCGAATTTGAATCATTTGAAATTAA
Found at i:50418374 original size:199 final size:199
Alignment explanation
Indices: 50418017--50419202 Score: 1252
Period size: 199 Copynumber: 5.9 Consensus size: 199
50418007 AAAAAAGAAG
* * ***
50418017 AAGCTCCTTTTAGTAGTTAAGCTAGACAAGGCTTCGATTGCGGGACAAGCAAATGCTTGTACC-A
1 AAGCTCCTTTTAGTAGTTAAGCCAGACAAGGCTTTGATTGCGGGATTTGCAAATGCTTGT-CCGA
* *** * * * *
50418081 CACATATTTGTATCTGACATTTATGCTTGAGTCCGAGTAATATAAGC-TAAAGTCAAGCTTTAGC
65 TACATATCCATATCTGACACTCATGCTTGAGTCCGAGTAACATAAGCTTAAA-TCGAGCTTTAGC
* ** * * *
50418145 CATTGGCTAATGGTGTCCGCAGAATCTTATCCAGGTGGTTTGAGGTGTGAAGAGGCTCCAAATT-
129 CATTGCCTAATGGTAACCCCAGAATCTTATCTAGGTGGTTTAAGGTGTGAAGAGGCTCC-AATTG
50418209 CCTTAAA
193 CCTTAAA
* * * *
50418216 AAGCTTCTTTTAGTAGTTAAGCCAGACAAGGCTTGGATTGCAGGATTTGCAAATGCTTGTCCAAT
1 AAGCTCCTTTTAGTAGTTAAGCCAGACAAGGCTTTGATTGCGGGATTTGCAAATGCTTGTCCGAT
* * * *
50418281 ACATATTCATATCTGATACTCATGTTTGAGTCCGAGTAACATAAGCTTAAATCGAGCTTTAGCCG
66 ACATATCCATATCTGACACTCATGCTTGAGTCCGAGTAACATAAGCTTAAATCGAGCTTTAGCCA
* * * *
50418346 TTGCCTAATGGTAACCCCAGATTCTTATCTAGGTGATTTAAGGCGTGAAGAGGATCCAATTGCCT
131 TTGCCTAATGGTAACCCCAGAATCTTATCTAGGTGGTTTAAGGTGTGAAGAGGCTCCAATTGCCT
50418411 TAAA
196 TAAA
* * * * *
50418415 AAGTTCCTTTTAGTAGTTAAGCTAGACAAGGCTTTGATTCCAGGATTTGCAAATGCTTGTCTGGA
1 AAGCTCCTTTTAGTAGTTAAGCCAGACAAGGCTTTGATTGCGGGATTTGCAAATGCTTGTC-CGA
* * * * * * *
50418480 -ACATATCCGTATCTGGCACTCACATGCTTGAGTTCAAATAACATAAGCTCAAATTGAGCTTTAG
65 TACATATCCATATCTGACACT--CATGCTTGAGTCCGAGTAACATAAGCTTAAATCGAGCTTTAG
*
50418544 CCATTCCCTAATGGTAACCCCAGAATC---T-TA-----TTTAA-GTGTGAAGAGGCTCCAATTG
128 CCATTGCCTAATGGTAACCCCAGAATCTTATCTAGGTGGTTTAAGGTGTGAAGAGGCTCCAATTG
*
50418599 CCTTTAA
193 CCTTAAA
* ** * * *
50418606 AAGCTCCTTTTAGTAGTTAAGCCAAACAAGGCTTCAATTGTGGGATTCGTAAATGCTTGCCGGAT
1 AAGCTCCTTTTAGTAGTTAAGCCAGACAAGGCTTTGATTGCGGGATTTGCAAATGCTT----G-T
* * * * *
50418671 AGGACCAATACATATCCATGTCTGACAGTCATGTTTGAGTCCGAGTAACATAAGCTTAAATTGAG
61 ----CCGATACATATCCATATCTGACACTCATGCTTGAGTCCGAGTAACATAAGCTTAAATCGAG
* *
50418736 CTTTAGCCATTGCCTAATGGTAACCCAAGAATCTTATCTGGGTGGTTTAAGGTGTGAAGAGGCTC
122 CTTTAGCCATTGCCTAATGGTAACCCCAGAATCTTATCTAGGTGGTTTAAGGTGTGAAGAGGCTC
50418801 CAATTGCCTTAAA
187 CAATTGCCTTAAA
** * * * *
50418814 AAGCTCCTTTTAGTAGTTAAGCTGGACAAGGTTTTGATTCCGGGATTTGCCAATGCTTGTCCGGT
1 AAGCTCCTTTTAGTAGTTAAGCCAGACAAGGCTTTGATTGCGGGATTTGCAAATGCTTGTCCGAT
* * * * * * *
50418879 ACATATCCATATTTTGATACTCATGCTTGACTCTGAGTAACATAAGCTCAAATTGAGCTTTAGAC
66 ACATATCCATA-TCTGACACTCATGCTTGAGTCCGAGTAACATAAGCTTAAATCGAGCTTTAGCC
* *** * * * *
50418944 ATTGCTTGCCGGTAGCCCCAAAATCTTATTATAGGTGGTTTAAGGTGTGAAGAGCCTCCAATTGC
130 ATTGCCTAATGGTAACCCCAGAATCTTA-TCTAGGTGGTTTAAGGTGTGAAGAGGCTCCAATTGC
50419009 CTTAAA
194 CTTAAA
* * * **
50419015 AACCTCCTTTTAGTAGTTAAGCCAAACAAGGCTTTGATTGTGGGATTCACAAATGCTTGTCCGAT
1 AAGCTCCTTTTAGTAGTTAAGCCAGACAAGGCTTTGATTGCGGGATTTGCAAATGCTTGTCCGAT
** *
50419080 ACATATCTGTATCTGACACTCATGTTTGAG-CCTGAGTAACATAAGCTTAAATCGAGCTTTAGCC
66 ACATATCCATATCTGACACTCATGCTTGAGTCC-GAGTAACATAAGCTTAAATCGAGCTTTAGCC
* ** **
50419144 ATCAG-CTAACAGTAGGCCCAGAATCTTATCATAGGTGGTTTAAGGTGTGAAGAGGCTCC
130 AT-TGCCTAATGGTAACCCCAGAATCTTATC-TAGGTGGTTTAAGGTGTGAAGAGGCTCC
50419203 TATTTTTACC
Statistics
Matches: 819, Mismatches: 137, Indels: 61
0.81 0.13 0.06
Matches are distributed among these distances:
191 72 0.09
192 5 0.01
195 1 0.00
196 1 0.00
197 2 0.00
198 69 0.08
199 247 0.30
200 177 0.22
201 164 0.20
202 1 0.00
203 1 0.00
204 1 0.00
207 5 0.01
208 73 0.09
ACGTcount: A:0.29, C:0.19, G:0.21, T:0.31
Consensus pattern (199 bp):
AAGCTCCTTTTAGTAGTTAAGCCAGACAAGGCTTTGATTGCGGGATTTGCAAATGCTTGTCCGAT
ACATATCCATATCTGACACTCATGCTTGAGTCCGAGTAACATAAGCTTAAATCGAGCTTTAGCCA
TTGCCTAATGGTAACCCCAGAATCTTATCTAGGTGGTTTAAGGTGTGAAGAGGCTCCAATTGCCT
TAAA
Found at i:50418758 original size:399 final size:393
Alignment explanation
Indices: 50418182--50419198 Score: 1260
Period size: 399 Copynumber: 2.6 Consensus size: 393
50418172 TATCCAGGTG
* * *
50418182 GTTTGAGGTGTGAAGAGGCTCCAAATT-CCTTAAAAAGCTTCTTTTAGTAGTTAAGCCAGACAAG
1 GTTTAAGGTGTGAAGAGGCTCC-AATTGCCTTAAAAAGCTCCTTTTAGTAGTTAAGCCAAACAAG
* ** * * *
50418246 GCTTGGATTGCAGGATTTGCAAATGCTTGTCCAATACATATTCATATCTGATACTCATGTTTGAG
65 GCTTCGATTGTGGGATTCGCAAATGCTTGTCCAATACATATCCATATCTGACACTCATGTTTGAG
* *
50418311 TCCGAGTAACATAAGCTTAAATCGAGCTTTAGCCGTTGCCTAATGGTAACCCCAGATTCTTATCT
130 TCCGAGTAACATAAGCTTAAATCGAGCTTTAGCCATTGCCTAATGGTAACCCCAGAATCTTATCT
* * *
50418376 AGGTGATTTAAGGCGTGAAGAGGATCCAATTGCCTTAAAAAGTTCCTTTTAGTAGTTAAGCTAGA
195 AGGTGGTTTAAGGTGTGAAGAGGATCCAATTGCCTTAAAAAGCTCCTTTTAGTAGTTAAGCTAGA
* *
50418441 CAAGGCTTTGATTCCAGGATTTGCAAATGCTTGTCTGGAACATATCCGTATCTGGCACT-CACAT
260 CAAGGCTTTGATTCCAGGATTTGCAAATGCTTGTCCGGAACATATCCATATCTGG-A-TACACAT
* * * *
50418505 GCTTGAGT-TCAAATAACATAAGCTCAAATTGAGCTTTAGCCATTCCCTAATGGTAACCCCAGAA
323 GCTTGACTCT-AAATAACATAAGCTCAAATTGAGCTTTAGACATTCCCTAACGGTAACCCCAAAA
50418569 TC-T-TA
387 TCTTATA
*
50418574 -TTTAA-GTGTGAAGAGGCTCCAATTGCCTTTAAAAGCTCCTTTTAGTAGTTAAGCCAAACAAGG
1 GTTTAAGGTGTGAAGAGGCTCCAATTGCCTTAAAAAGCTCCTTTTAGTAGTTAAGCCAAACAAGG
* * * *
50418637 CTTCAATTGTGGGATTCGTAAATGCTTGCCGGATAGGACCAATACATATCCATGTCTGACAGTCA
66 CTTCGATTGTGGGATTCGCAAATGCTT----G-T----CCAATACATATCCATATCTGACACTCA
* *
50418702 TGTTTGAGTCCGAGTAACATAAGCTTAAATTGAGCTTTAGCCATTGCCTAATGGTAACCCAAGAA
122 TGTTTGAGTCCGAGTAACATAAGCTTAAATCGAGCTTTAGCCATTGCCTAATGGTAACCCCAGAA
* *
50418767 TCTTATCTGGGTGGTTTAAGGTGTGAAGAGGCTCCAATTGCCTTAAAAAGCTCCTTTTAGTAGTT
187 TCTTATCTAGGTGGTTTAAGGTGTGAAGAGGATCCAATTGCCTTAAAAAGCTCCTTTTAGTAGTT
* * * * * * *
50418832 AAGCTGGACAAGGTTTTGATTCCGGGATTTGCCAATGCTTGTCCGGTACATATCCATATTTTGAT
252 AAGCTAGACAAGGCTTTGATTCCAGGATTTGCAAATGCTTGTCCGGAACATATCCATATCTGGAT
* * * * * ** *
50418897 ACTCATGCTTGACTCTGAGTAACATAAGCTCAAATTGAGCTTTAGACATTGCTTGCCGGTAGCCC
317 ACACATGCTTGACTCTAAATAACATAAGCTCAAATTGAGCTTTAGACATTCCCTAACGGTAACCC
50418962 CAAAATCTTATTATA
382 CAAAATC---TTATA
* *
50418977 GGTGGTTTAAGGTGTGAAGAGCCTCCAATTGCCTTAAAAACCTCCTTTTAGTAGTTAAGCCAAAC
1 ----GTTTAAGGTGTGAAGAGGCTCCAATTGCCTTAAAAAGCTCCTTTTAGTAGTTAAGCCAAAC
* * * **
50419042 AAGGCTTTGATTGTGGGATTCACAAATGCTTGTCCGATACATATCTGTATCTGACACTCATGTTT
62 AAGGCTTCGATTGTGGGATTCGCAAATGCTTGTCCAATACATATCCATATCTGACACTCATGTTT
* ** **
50419107 GAG-CCTGAGTAACATAAGCTTAAATCGAGCTTTAGCCATCAG-CTAACAGTAGGCCCAGAATCT
127 GAGTCC-GAGTAACATAAGCTTAAATCGAGCTTTAGCCAT-TGCCTAATGGTAACCCCAGAATCT
50419170 TATCATAGGTGGTTTAAGGTGTGAAGAGG
190 TATC-TAGGTGGTTTAAGGTGTGAAGAGG
50419199 CTCCTATTTT
Statistics
Matches: 535, Mismatches: 64, Indels: 43
0.83 0.10 0.07
Matches are distributed among these distances:
389 4 0.01
390 71 0.13
391 4 0.01
394 1 0.00
395 1 0.00
397 1 0.00
398 58 0.11
399 201 0.38
400 82 0.15
401 24 0.04
402 1 0.00
403 2 0.00
404 1 0.00
405 1 0.00
408 5 0.01
409 78 0.15
ACGTcount: A:0.29, C:0.19, G:0.21, T:0.31
Consensus pattern (393 bp):
GTTTAAGGTGTGAAGAGGCTCCAATTGCCTTAAAAAGCTCCTTTTAGTAGTTAAGCCAAACAAGG
CTTCGATTGTGGGATTCGCAAATGCTTGTCCAATACATATCCATATCTGACACTCATGTTTGAGT
CCGAGTAACATAAGCTTAAATCGAGCTTTAGCCATTGCCTAATGGTAACCCCAGAATCTTATCTA
GGTGGTTTAAGGTGTGAAGAGGATCCAATTGCCTTAAAAAGCTCCTTTTAGTAGTTAAGCTAGAC
AAGGCTTTGATTCCAGGATTTGCAAATGCTTGTCCGGAACATATCCATATCTGGATACACATGCT
TGACTCTAAATAACATAAGCTCAAATTGAGCTTTAGACATTCCCTAACGGTAACCCCAAAATCTT
ATA
Found at i:50424822 original size:22 final size:22
Alignment explanation
Indices: 50424797--50424841 Score: 63
Period size: 22 Copynumber: 2.0 Consensus size: 22
50424787 CATATGAATT
*
50424797 ATGATCATTAATTATATATATA
1 ATGACCATTAATTATATATATA
**
50424819 ATGACCATTTTTTATATATATA
1 ATGACCATTAATTATATATATA
50424841 A
1 A
50424842 ATGGAAATTT
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
22 20 1.00
ACGTcount: A:0.42, C:0.07, G:0.04, T:0.47
Consensus pattern (22 bp):
ATGACCATTAATTATATATATA
Found at i:50426666 original size:40 final size:41
Alignment explanation
Indices: 50426606--50426693 Score: 124
Period size: 40 Copynumber: 2.1 Consensus size: 41
50426596 ATTATAGAAG
* *
50426606 AGAAGGAAATGAGAGCTTTAGATTGGTGTAAGTGGTGTGAAC
1 AGAA-GAAATGAGAGCTTTAGATTAGTGTAAGTAGTGTGAAC
* *
50426648 A-AAGAAATGAGAGTTTTAGATTAGTGTAGGTAGTGTGAAC
1 AGAAGAAATGAGAGCTTTAGATTAGTGTAAGTAGTGTGAAC
50426688 AGAAGA
1 AGAAGA
50426694 TGACATATAA
Statistics
Matches: 41, Mismatches: 4, Indels: 3
0.85 0.08 0.06
Matches are distributed among these distances:
40 34 0.83
41 6 0.15
42 1 0.02
ACGTcount: A:0.38, C:0.03, G:0.33, T:0.26
Consensus pattern (41 bp):
AGAAGAAATGAGAGCTTTAGATTAGTGTAAGTAGTGTGAAC
Found at i:50437488 original size:3 final size:3
Alignment explanation
Indices: 50437480--50437518 Score: 78
Period size: 3 Copynumber: 13.0 Consensus size: 3
50437470 TGACTCTTAC
50437480 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT
50437519 ATCCACTAGA
Statistics
Matches: 36, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 36 1.00
ACGTcount: A:0.33, C:0.00, G:0.00, T:0.67
Consensus pattern (3 bp):
TAT
Found at i:50445549 original size:16 final size:16
Alignment explanation
Indices: 50445528--50445558 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
50445518 TTGAAAGAGT
50445528 TTTTAAATATATATGG
1 TTTTAAATATATATGG
*
50445544 TTTTAAATTTATATG
1 TTTTAAATATATATG
50445559 CTTTAACATG
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
16 14 1.00
ACGTcount: A:0.35, C:0.00, G:0.10, T:0.55
Consensus pattern (16 bp):
TTTTAAATATATATGG
Found at i:50454057 original size:39 final size:38
Alignment explanation
Indices: 50454009--50454086 Score: 138
Period size: 39 Copynumber: 2.0 Consensus size: 38
50453999 AAAAGTTTGT
*
50454009 ATTTTTAATTATAATTGATGTGATTACTAATTACTCAA
1 ATTTTTAATTATAATTGATGTAATTACTAATTACTCAA
50454047 ATTTATTAATTATAATTGATGTAATTACTAATTACTCAA
1 ATTT-TTAATTATAATTGATGTAATTACTAATTACTCAA
50454086 A
1 A
50454087 ATTAAGTTAT
Statistics
Matches: 38, Mismatches: 1, Indels: 1
0.95 0.03 0.03
Matches are distributed among these distances:
38 4 0.11
39 34 0.89
ACGTcount: A:0.40, C:0.08, G:0.06, T:0.46
Consensus pattern (38 bp):
ATTTTTAATTATAATTGATGTAATTACTAATTACTCAA
Found at i:50456324 original size:3 final size:3
Alignment explanation
Indices: 50456305--50456358 Score: 51
Period size: 3 Copynumber: 19.0 Consensus size: 3
50456295 AATTTATTTC
* * * *
50456305 ATA AT- ATA ATA ACA ATA ATA TTA ATA ATG ACA ATA ATA ATA A-A ATA
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA
50456351 ATA A-A ATA
1 ATA ATA ATA
50456359 TCATTTAAAA
Statistics
Matches: 40, Mismatches: 8, Indels: 6
0.74 0.15 0.11
Matches are distributed among these distances:
2 6 0.15
3 34 0.85
ACGTcount: A:0.65, C:0.04, G:0.02, T:0.30
Consensus pattern (3 bp):
ATA
Found at i:50460313 original size:12 final size:12
Alignment explanation
Indices: 50460298--50460327 Score: 60
Period size: 12 Copynumber: 2.5 Consensus size: 12
50460288 TCGGTGTTCT
50460298 TGGTGGCAGCAG
1 TGGTGGCAGCAG
50460310 TGGTGGCAGCAG
1 TGGTGGCAGCAG
50460322 TGGTGG
1 TGGTGG
50460328 GTGTTACGCA
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 18 1.00
ACGTcount: A:0.13, C:0.13, G:0.53, T:0.20
Consensus pattern (12 bp):
TGGTGGCAGCAG
Found at i:50462339 original size:17 final size:17
Alignment explanation
Indices: 50462307--50462340 Score: 50
Period size: 17 Copynumber: 2.0 Consensus size: 17
50462297 ATAGTACATC
**
50462307 TTAATATAATTTATTAA
1 TTAATATAATAAATTAA
50462324 TTAATATAATAAATTAA
1 TTAATATAATAAATTAA
50462341 AAAAAATATT
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:0.53, C:0.00, G:0.00, T:0.47
Consensus pattern (17 bp):
TTAATATAATAAATTAA
Found at i:50466422 original size:3 final size:3
Alignment explanation
Indices: 50466397--50466438 Score: 52
Period size: 3 Copynumber: 14.3 Consensus size: 3
50466387 AGTTTTTAGT
*
50466397 TTA TT- TTA TTA ATA -TA GTTA TTA TTA TTA TTA TTA TTA TTA T
1 TTA TTA TTA TTA TTA TTA -TTA TTA TTA TTA TTA TTA TTA TTA T
50466439 ACTTACATAT
Statistics
Matches: 35, Mismatches: 1, Indels: 6
0.83 0.02 0.14
Matches are distributed among these distances:
2 4 0.11
3 29 0.83
4 2 0.06
ACGTcount: A:0.33, C:0.00, G:0.02, T:0.64
Consensus pattern (3 bp):
TTA
Found at i:50466560 original size:13 final size:12
Alignment explanation
Indices: 50466539--50466577 Score: 51
Period size: 13 Copynumber: 3.1 Consensus size: 12
50466529 TTTTATTACC
*
50466539 ATATTTTTATAT
1 ATATATTTATAT
50466551 ATATAGTTTATAT
1 ATATA-TTTATAT
50466564 ATATATATTATAT
1 ATATAT-TTATAT
50466577 A
1 A
50466578 ATTCATATTT
Statistics
Matches: 24, Mismatches: 1, Indels: 3
0.86 0.04 0.11
Matches are distributed among these distances:
12 5 0.21
13 19 0.79
ACGTcount: A:0.41, C:0.00, G:0.03, T:0.56
Consensus pattern (12 bp):
ATATATTTATAT
Found at i:50466945 original size:10 final size:10
Alignment explanation
Indices: 50466930--50466958 Score: 58
Period size: 10 Copynumber: 2.9 Consensus size: 10
50466920 ATATTATTTT
50466930 TATATACATA
1 TATATACATA
50466940 TATATACATA
1 TATATACATA
50466950 TATATACAT
1 TATATACAT
50466959 GCATCAACAT
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
10 19 1.00
ACGTcount: A:0.48, C:0.10, G:0.00, T:0.41
Consensus pattern (10 bp):
TATATACATA
Found at i:50470906 original size:41 final size:41
Alignment explanation
Indices: 50470849--50471035 Score: 206
Period size: 41 Copynumber: 4.7 Consensus size: 41
50470839 CGACTTTGAG
*
50470849 TCGATGAGACACTGGGTGTCAATTTACTACTTTGGATTAAT
1 TCGATGAGACACTGGGTGTCAATTTACTACTTCGGATTAAT
* * *
50470890 TCGATGAGACACTGGGTGCCAATTTA--A-TTC-GATTTAG
1 TCGATGAGACACTGGGTGTCAATTTACTACTTCGGATTAAT
* * * * *
50470927 CCGATGAGACACTGGGTGTCAAATTATTACCTCGAATT-A-
1 TCGATGAGACACTGGGTGTCAATTTACTACTTCGGATTAAT
50470966 TCTGATGAGACACTGGGTGTCAATTTACTACTTCGGATTAAT
1 TC-GATGAGACACTGGGTGTCAATTTACTACTTCGGATTAAT
* * * *
50471008 TTGATGAGGCACTGTGTGCCAATTTACT
1 TCGATGAGACACTGGGTGTCAATTTACT
50471036 TCAGTTTAGC
Statistics
Matches: 121, Mismatches: 18, Indels: 14
0.79 0.12 0.09
Matches are distributed among these distances:
37 28 0.23
38 2 0.02
39 3 0.02
40 35 0.29
41 52 0.43
42 1 0.01
ACGTcount: A:0.27, C:0.17, G:0.22, T:0.34
Consensus pattern (41 bp):
TCGATGAGACACTGGGTGTCAATTTACTACTTCGGATTAAT
Found at i:50470984 original size:40 final size:40
Alignment explanation
Indices: 50470851--50471107 Score: 197
Period size: 40 Copynumber: 6.5 Consensus size: 40
50470841 ACTTTGAGTC
* * * *
50470851 GATGAGACACTGGGTGTCAATTTACTACTTTGGATTAAT-T
1 GATGAGACACTGGGTGTCAAATTATTACTTCGAATT-ATCT
* * * * *
50470891 CGATGAGACACTGGGTG-CCAA-T-TTAATTCGATTTAGCC
1 -GATGAGACACTGGGTGTCAAATTATTACTTCGAATTATCT
*
50470929 GATGAGACACTGGGTGTCAAATTATTACCTCGAATTATCT
1 GATGAGACACTGGGTGTCAAATTATTACTTCGAATTATCT
* * * *
50470969 GATGAGACACTGGGTGTCAATTTACTACTTCGGATTAATTT
1 GATGAGACACTGGGTGTCAAATTATTACTTCGAATT-ATCT
* * * * *
50471010 GATGAGGCACTGTGTG-CCAA-T-TTACTTC-AGTTTAGCT
1 GATGAGACACTGGGTGTCAAATTATTACTTCGA-ATTATCT
* * *
50471047 GATGGGACACTGTGTGTCAAATTATTACTTCGAATTATCC
1 GATGAGACACTGGGTGTCAAATTATTACTTCGAATTATCT
* * *
50471087 GATGAGGCACTAGGTGCCAAA
1 GATGAGACACTGGGTGTCAAA
50471108 CTGGTGTGTT
Statistics
Matches: 166, Mismatches: 40, Indels: 21
0.73 0.18 0.09
Matches are distributed among these distances:
37 33 0.20
38 21 0.13
39 4 0.02
40 74 0.45
41 34 0.20
ACGTcount: A:0.27, C:0.17, G:0.23, T:0.33
Consensus pattern (40 bp):
GATGAGACACTGGGTGTCAAATTATTACTTCGAATTATCT
Found at i:50471064 original size:118 final size:118
Alignment explanation
Indices: 50470850--50471102 Score: 382
Period size: 118 Copynumber: 2.1 Consensus size: 118
50470840 GACTTTGAGT
*
50470850 CGATGAGACACTGGGTGTCAATTTACTACTTTGGATTAATTCGATGAGACACTGGGTGCCAATTT
1 CGATGAGACACTGGGTGTCAATTTACTACTTCGGATTAATTCGATGAGACACTGGGTGCCAATTT
50470915 AATTCGATTTAGCCGATGAGACACTGGGTGTCAAATTATTACCTCGAATTATC
66 AATTCGATTTAGCCGATGAGACACTGGGTGTCAAATTATTACCTCGAATTATC
* * * *
50470968 TGATGAGACACTGGGTGTCAATTTACTACTTCGGATTAATTTGATGAGGCACTGTGTGCCAATTT
1 CGATGAGACACTGGGTGTCAATTTACTACTTCGGATTAATTCGATGAGACACTGGGTGCCAATTT
* * * * *
50471033 ACTTC-AGTTTAGCTGATGGGACACTGTGTGTCAAATTATTACTTCGAATTATC
66 AATTCGA-TTTAGCCGATGAGACACTGGGTGTCAAATTATTACCTCGAATTATC
* *
50471086 CGATGAGGCACTAGGTG
1 CGATGAGACACTGGGTG
50471103 CCAAACTGGT
Statistics
Matches: 121, Mismatches: 13, Indels: 2
0.89 0.10 0.01
Matches are distributed among these distances:
117 1 0.01
118 120 0.99
ACGTcount: A:0.26, C:0.17, G:0.23, T:0.33
Consensus pattern (118 bp):
CGATGAGACACTGGGTGTCAATTTACTACTTCGGATTAATTCGATGAGACACTGGGTGCCAATTT
AATTCGATTTAGCCGATGAGACACTGGGTGTCAAATTATTACCTCGAATTATC
Found at i:50474134 original size:12 final size:12
Alignment explanation
Indices: 50474117--50474146 Score: 60
Period size: 12 Copynumber: 2.5 Consensus size: 12
50474107 TCGGTGTTCT
50474117 TGGTGGCAGCAG
1 TGGTGGCAGCAG
50474129 TGGTGGCAGCAG
1 TGGTGGCAGCAG
50474141 TGGTGG
1 TGGTGG
50474147 GTGTTACGCA
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 18 1.00
ACGTcount: A:0.13, C:0.13, G:0.53, T:0.20
Consensus pattern (12 bp):
TGGTGGCAGCAG
Found at i:50480721 original size:51 final size:50
Alignment explanation
Indices: 50480642--50480784 Score: 187
Period size: 50 Copynumber: 2.8 Consensus size: 50
50480632 GATAATAACA
* ** * *
50480642 TGCCAAAGCCATGTCCCAGACATGGTCTTACATGAGATGTTCTCATGTTGG
1 TGCCAATGCCATGTCCCAGACATGGTCTTACATGAGA-CCTCTCATCTCGG
* * ** *
50480693 TGCCCATGCCATGTCCCAGTCATGGTCTTACGGGGGACCTCTCATCTCGG
1 TGCCAATGCCATGTCCCAGACATGGTCTTACATGAGACCTCTCATCTCGG
50480743 TGCCAATGCCATGTCCCAGACATGGTCTTACATGAGACCTCT
1 TGCCAATGCCATGTCCCAGACATGGTCTTACATGAGACCTCT
50480785 TTACCCAAAT
Statistics
Matches: 77, Mismatches: 15, Indels: 1
0.83 0.16 0.01
Matches are distributed among these distances:
50 46 0.60
51 31 0.40
ACGTcount: A:0.20, C:0.29, G:0.23, T:0.27
Consensus pattern (50 bp):
TGCCAATGCCATGTCCCAGACATGGTCTTACATGAGACCTCTCATCTCGG
Found at i:50480900 original size:13 final size:13
Alignment explanation
Indices: 50480879--50480908 Score: 51
Period size: 13 Copynumber: 2.3 Consensus size: 13
50480869 GCTTGGATCA
50480879 TCATCAAATAAAT
1 TCATCAAATAAAT
*
50480892 TCATGAAATAAAT
1 TCATCAAATAAAT
50480905 TCAT
1 TCAT
50480909 AGTTGCTGGA
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
13 16 1.00
ACGTcount: A:0.50, C:0.13, G:0.03, T:0.33
Consensus pattern (13 bp):
TCATCAAATAAAT
Found at i:50481173 original size:29 final size:30
Alignment explanation
Indices: 50481122--50481178 Score: 80
Period size: 30 Copynumber: 1.9 Consensus size: 30
50481112 CCTAGACTCT
50481122 AACTTTATCAAAATTACGATTTTACCCCTA
1 AACTTTATCAAAATTACGATTTTACCCCTA
* * *
50481152 AACTTTTTCATAATTAC-ATTTTTCCCC
1 AACTTTATCAAAATTACGATTTTACCCC
50481179 AAGGCCCTAA
Statistics
Matches: 24, Mismatches: 3, Indels: 1
0.86 0.11 0.04
Matches are distributed among these distances:
29 9 0.38
30 15 0.62
ACGTcount: A:0.32, C:0.25, G:0.02, T:0.42
Consensus pattern (30 bp):
AACTTTATCAAAATTACGATTTTACCCCTA
Found at i:50483129 original size:15 final size:14
Alignment explanation
Indices: 50483100--50483133 Score: 50
Period size: 15 Copynumber: 2.4 Consensus size: 14
50483090 ATTTTACATG
50483100 ATAATATTATGATT
1 ATAATATTATGATT
*
50483114 ATAATAATTATTATT
1 ATAAT-ATTATGATT
50483129 ATAAT
1 ATAAT
50483134 TGCTGCTCAT
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
14 5 0.28
15 13 0.72
ACGTcount: A:0.47, C:0.00, G:0.03, T:0.50
Consensus pattern (14 bp):
ATAATATTATGATT
Found at i:50483344 original size:5 final size:5
Alignment explanation
Indices: 50483334--50483365 Score: 57
Period size: 5 Copynumber: 6.6 Consensus size: 5
50483324 AGAATGAATA
50483334 TATAT TATAT TATAT TATAT TATAT TAT-T TAT
1 TATAT TATAT TATAT TATAT TATAT TATAT TAT
50483366 GATATGATAT
Statistics
Matches: 27, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
4 4 0.15
5 23 0.85
ACGTcount: A:0.38, C:0.00, G:0.00, T:0.62
Consensus pattern (5 bp):
TATAT
Found at i:50483370 original size:17 final size:17
Alignment explanation
Indices: 50483335--50483380 Score: 51
Period size: 17 Copynumber: 2.8 Consensus size: 17
50483325 GAATGAATAT
*
50483335 ATATTATATTA--TATT
1 ATATTATATTATTTATG
50483350 ATATTATATTATTTATG
1 ATATTATATTATTTATG
* *
50483367 ATATGATATGATTT
1 ATATTATATTATTT
50483381 CTTATAAATG
Statistics
Matches: 26, Mismatches: 3, Indels: 2
0.84 0.10 0.06
Matches are distributed among these distances:
15 11 0.42
17 15 0.58
ACGTcount: A:0.37, C:0.00, G:0.07, T:0.57
Consensus pattern (17 bp):
ATATTATATTATTTATG
Found at i:50494080 original size:13 final size:13
Alignment explanation
Indices: 50494062--50494086 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
50494052 ATCAATCTTC
50494062 TTTTTTATATATA
1 TTTTTTATATATA
50494075 TTTTTTATATAT
1 TTTTTTATATAT
50494087 GGACTTAAGC
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.28, C:0.00, G:0.00, T:0.72
Consensus pattern (13 bp):
TTTTTTATATATA
Found at i:50497484 original size:41 final size:41
Alignment explanation
Indices: 50497468--50497703 Score: 445
Period size: 41 Copynumber: 5.8 Consensus size: 41
50497458 CTTATAGCTT
* *
50497468 GATTCAGATCACCGGCACGTAGCCTGCTAGGTTTATAACCT
1 GATTCAAATCACCGGCACGTAGCCTGCTAGGTTTATAACCC
50497509 GATTCAAATCACCGGCACGTAGCCTGCTAGGTTTATAACCC
1 GATTCAAATCACCGGCACGTAGCCTGCTAGGTTTATAACCC
50497550 GATTCAAATCACCGGCACGTAGCCTGCTAGGTTTATAACCC
1 GATTCAAATCACCGGCACGTAGCCTGCTAGGTTTATAACCC
50497591 GATTCAAATCACCGGCACGTAGCCTGCTAGGTTTATAACCC
1 GATTCAAATCACCGGCACGTAGCCTGCTAGGTTTATAACCC
*
50497632 GATTCAAATCACCGGCACATAGCCTGCTAGGTTTATAACCC
1 GATTCAAATCACCGGCACGTAGCCTGCTAGGTTTATAACCC
50497673 GATTCAAATCACCGGCACGTAGCCTGCTAGG
1 GATTCAAATCACCGGCACGTAGCCTGCTAGG
50497704 CGCTTAGCCT
Statistics
Matches: 191, Mismatches: 4, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
41 191 1.00
ACGTcount: A:0.27, C:0.29, G:0.20, T:0.24
Consensus pattern (41 bp):
GATTCAAATCACCGGCACGTAGCCTGCTAGGTTTATAACCC
Found at i:50500902 original size:51 final size:50
Alignment explanation
Indices: 50500826--50501261 Score: 360
Period size: 51 Copynumber: 8.6 Consensus size: 50
50500816 CCGGTTCACA
* * * *
50500826 TAGTAGCATGCACATAGTACTACACAGGTGAACATCA-CTATCCGATACACG
1 TAGTAGCCTTCACATAGTACTACACACGTGACCA--AGCTATCCGATACACG
* * *
50500877 TAGTAGCCTTCACATAGTACTACACACGTGATCGAAGCTATCCGGTACACA
1 TAGTAGCCTTCACATAGTACTACACACGTGA-CCAAGCTATCCGATACACG
* * * * * *
50500928 TAGTAGCCTGCACATAGTACTACACATGCGACCTATC-ATTCTGATACACG
1 TAGTAGCCTTCACATAGTACTACACACGTGACCAAGCTA-TCCGATACACG
* * * * * * * * *
50500978 CAGTAGCCTACACATAGTACTACACACGTGATCAAGTTTTACGGTTCACA
1 TAGTAGCCTTCACATAGTACTACACACGTGACCAAGCTATCCGATACACG
* * * * * *
50501028 AAGTAGCCTTCACATAGTACTACACACGTGATCAAAGCTTTTCGGTACACC
1 TAGTAGCCTTCACATAGTACTACACACGTGA-CCAAGCTATCCGATACACG
* * **
50501079 TAGTAGCCTTCACTTAGTACTACACATGTGACCATTATTTAT-CGATACACG
1 TAGTAGCCTTCACATAGTACTACACACGTGACCA--AGCTATCCGATACACG
* * * *
50501130 TAGTAGCCTTCACACAGTACTACACAAGTGACCAAAGCT-TCTCGGTACACA
1 TAGTAGCCTTCACATAGTACTACACACGTGACC-AAGCTATC-CGATACACG
* * * **
50501181 TTGTAGCCTTCACTTAGTACTACACATGTGACCATTATTTAT-CGATACACG
1 TAGTAGCCTTCACATAGTACTACACACGTGACCA--AGCTATCCGATACACG
*
50501232 TAGTAGCCTTCACACAGTACTACACACGTG
1 TAGTAGCCTTCACATAGTACTACACACGTG
50501262 TTCATCGATA
Statistics
Matches: 306, Mismatches: 66, Indels: 26
0.77 0.17 0.07
Matches are distributed among these distances:
49 2 0.01
50 81 0.26
51 215 0.70
52 7 0.02
53 1 0.00
ACGTcount: A:0.31, C:0.27, G:0.16, T:0.26
Consensus pattern (50 bp):
TAGTAGCCTTCACATAGTACTACACACGTGACCAAGCTATCCGATACACG
Found at i:50501102 original size:151 final size:153
Alignment explanation
Indices: 50500878--50501257 Score: 457
Period size: 151 Copynumber: 2.5 Consensus size: 153
50500868 CGATACACGT
* * * *
50500878 AGTAGCCTTCACATAGTACTACACACGTGATCGAAGCTATCCGGTACACATAGTAGCCTGCACAT
1 AGTAGCCTTCACATAGTACTACACACGTGATCAAAGCTTTTCGGTACACATAGTAGCCTTCACAT
* * *
50500943 AGTACTACACATGCGACCTATCA-TTCT-GATACACGCAGTAGCCTACACATAGTACTACACACG
66 AGTACTACACATGCGACC-ATCATTTATCGATACACGCAGTAGCCTACACACAGTACTACACAAG
* * *
50501006 TGATC-AAG-TTTTACGGTTCACAA
130 TGACCAAAGCTTCT-CGGTACACAA
* *
50501029 AGTAGCCTTCACATAGTACTACACACGTGATCAAAGCTTTTCGGTACACCTAGTAGCCTTCACTT
1 AGTAGCCTTCACATAGTACTACACACGTGATCAAAGCTTTTCGGTACACATAGTAGCCTTCACAT
* * * *
50501094 AGTACTACACATGTGACCATTATTTATCGATACACGTAGTAGCCTTCACACAGTACTACACAAGT
66 AGTACTACACATGCGACCATCATTTATCGATACACGCAGTAGCCTACACACAGTACTACACAAGT
*
50501159 GACCAAAGCTTCTCGGTACACAT
131 GACCAAAGCTTCTCGGTACACAA
* * * * * * *
50501182 TGTAGCCTTCACTTAGTACTACACATGTGACCATTA--TTTATCGATACACGTAGTAGCCTTCAC
1 AGTAGCCTTCACATAGTACTACACACGTGATCA-AAGCTTT-TCGGTACACATAGTAGCCTTCAC
*
50501245 ACAGTACTACACA
64 ATAGTACTACACA
50501258 CGTGTTCATC
Statistics
Matches: 197, Mismatches: 26, Indels: 10
0.85 0.11 0.04
Matches are distributed among these distances:
150 3 0.02
151 79 0.40
152 39 0.20
153 72 0.37
154 4 0.02
ACGTcount: A:0.31, C:0.27, G:0.15, T:0.27
Consensus pattern (153 bp):
AGTAGCCTTCACATAGTACTACACACGTGATCAAAGCTTTTCGGTACACATAGTAGCCTTCACAT
AGTACTACACATGCGACCATCATTTATCGATACACGCAGTAGCCTACACACAGTACTACACAAGT
GACCAAAGCTTCTCGGTACACAA
Found at i:50501166 original size:102 final size:102
Alignment explanation
Indices: 50500871--50501257 Score: 408
Period size: 102 Copynumber: 3.8 Consensus size: 102
50500861 CACTATCCGA
* * * * ** * *
50500871 TACACGTAGTAGCCTTCACATAGTACTACACACGTGATCGA--AGCTATCCGGTACACATAGTAG
1 TACACATAGTAGCCTTCACTTAGTACTACACATGTGA-CCATTATTTAT-CGATACACGTAGTAG
* * * * * * *
50500934 CCTGCACATAGTACTACACATGCGACC-TATCATTCT-GA
64 CCTTCACACAGTACTACACAAGTGACCAAAGC-TTCTCGG
** * * * * * * * **
50500972 TACACGCAGTAGCCTACACATAGTACTACACACGTGATCAAGT-TTTA-CGGTTCACAAAGTAGC
1 TACACATAGTAGCCTTCACTTAGTACTACACATGTGA-CCATTATTTATCGATACACGTAGTAGC
* * * *
50501035 CTTCACATAGTACTACACACGTGATCAAAGCTTTTCGG
65 CTTCACACAGTACTACACAAGTGACCAAAGCTTCTCGG
*
50501073 TACACCTAGTAGCCTTCACTTAGTACTACACATGTGACCATTATTTATCGATACACGTAGTAGCC
1 TACACATAGTAGCCTTCACTTAGTACTACACATGTGACCATTATTTATCGATACACGTAGTAGCC
50501138 TTCACACAGTACTACACAAGTGACCAAAGCTTCTCGG
66 TTCACACAGTACTACACAAGTGACCAAAGCTTCTCGG
*
50501175 TACACATTGTAGCCTTCACTTAGTACTACACATGTGACCATTATTTATCGATACACGTAGTAGCC
1 TACACATAGTAGCCTTCACTTAGTACTACACATGTGACCATTATTTATCGATACACGTAGTAGCC
50501240 TTCACACAGTACTACACA
66 TTCACACAGTACTACACA
50501258 CGTGTTCATC
Statistics
Matches: 248, Mismatches: 32, Indels: 11
0.85 0.11 0.04
Matches are distributed among these distances:
100 42 0.17
101 77 0.31
102 129 0.52
ACGTcount: A:0.31, C:0.27, G:0.15, T:0.27
Consensus pattern (102 bp):
TACACATAGTAGCCTTCACTTAGTACTACACATGTGACCATTATTTATCGATACACGTAGTAGCC
TTCACACAGTACTACACAAGTGACCAAAGCTTCTCGG
Found at i:50503060 original size:21 final size:21
Alignment explanation
Indices: 50503002--50503088 Score: 104
Period size: 21 Copynumber: 4.1 Consensus size: 21
50502992 CCTAATCAGT
50503002 ATACGACACAT-AAGTGCCTG
1 ATACGACACATAAAGTGCCTG
* * ** *
50503022 AAATGACACACGAGGTGCCTG
1 ATACGACACATAAAGTGCCTG
50503043 ATACGACACATAAAGTGCCTGAG
1 ATACGACACATAAAGTGCCT--G
50503066 ATACGACACATAAAGTGCCTG
1 ATACGACACATAAAGTGCCTG
50503087 AT
1 AT
50503089 CGGCAAAGCC
Statistics
Matches: 55, Mismatches: 9, Indels: 5
0.80 0.13 0.07
Matches are distributed among these distances:
20 8 0.15
21 26 0.47
23 21 0.38
ACGTcount: A:0.37, C:0.23, G:0.22, T:0.18
Consensus pattern (21 bp):
ATACGACACATAAAGTGCCTG
Found at i:50503072 original size:23 final size:23
Alignment explanation
Indices: 50503002--50503087 Score: 101
Period size: 23 Copynumber: 4.0 Consensus size: 23
50502992 CCTAATCAGT
50503002 ATACGACACAT-AAGTGCCTGA-
1 ATACGACACATAAAGTGCCTGAG
* ** *
50503023 A-ATGACACACGAGGTGCCT--G
1 ATACGACACATAAAGTGCCTGAG
50503043 ATACGACACATAAAGTGCCTGAG
1 ATACGACACATAAAGTGCCTGAG
50503066 ATACGACACATAAAGTGCCTGA
1 ATACGACACATAAAGTGCCTGA
50503088 TCGGCAAAGC
Statistics
Matches: 53, Mismatches: 7, Indels: 8
0.78 0.10 0.12
Matches are distributed among these distances:
20 8 0.15
21 22 0.42
23 23 0.43
ACGTcount: A:0.37, C:0.23, G:0.22, T:0.17
Consensus pattern (23 bp):
ATACGACACATAAAGTGCCTGAG
Found at i:50503086 original size:44 final size:41
Alignment explanation
Indices: 50503002--50503088 Score: 111
Period size: 44 Copynumber: 2.0 Consensus size: 41
50502992 CCTAATCAGT
* * *
50503002 ATACGACACATAAGTGCCTGAAATGACACACGAGGTGCCTG
1 ATACGACACATAAGTGCCTGAAACGACACACAAAGTGCCTG
*
50503043 ATACGACACATAAAGTGCCTGAGATACGACACATAAAGTGCCTG
1 ATACGACACAT-AAGTGCCTGA-A-ACGACACACAAAGTGCCTG
50503087 AT
1 AT
50503089 CGGCAAAGCC
Statistics
Matches: 39, Mismatches: 4, Indels: 3
0.85 0.09 0.07
Matches are distributed among these distances:
41 11 0.28
42 10 0.26
43 1 0.03
44 17 0.44
ACGTcount: A:0.37, C:0.23, G:0.22, T:0.18
Consensus pattern (41 bp):
ATACGACACATAAGTGCCTGAAACGACACACAAAGTGCCTG
Found at i:50504844 original size:40 final size:40
Alignment explanation
Indices: 50504750--50504844 Score: 145
Period size: 40 Copynumber: 2.4 Consensus size: 40
50504740 TGTTATACTC
*
50504750 TATGTCTGGTGTGTTTCGGTTGGATTAGCTCTTATGAGCT
1 TATGTCTGGTGTGTTTCAGTTGGATTAGCTCTTATGAGCT
* * * *
50504790 TCTATCCGGCGTGTTTCAGTTGGATTAGCTCTTATGAGCT
1 TATGTCTGGTGTGTTTCAGTTGGATTAGCTCTTATGAGCT
50504830 TATGTCTGGTGTGTT
1 TATGTCTGGTGTGTT
50504845 CGGTTGATTT
Statistics
Matches: 46, Mismatches: 9, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
40 46 1.00
ACGTcount: A:0.13, C:0.15, G:0.28, T:0.44
Consensus pattern (40 bp):
TATGTCTGGTGTGTTTCAGTTGGATTAGCTCTTATGAGCT
Found at i:50505563 original size:12 final size:13
Alignment explanation
Indices: 50505538--50505566 Score: 51
Period size: 12 Copynumber: 2.3 Consensus size: 13
50505528 GATTAAAGTC
50505538 ATTTTGATTTGGT
1 ATTTTGATTTGGT
50505551 ATTTTGA-TTGGT
1 ATTTTGATTTGGT
50505563 ATTT
1 ATTT
50505567 GAGTTTCTTA
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
12 9 0.56
13 7 0.44
ACGTcount: A:0.17, C:0.00, G:0.21, T:0.62
Consensus pattern (13 bp):
ATTTTGATTTGGT
Found at i:50505818 original size:12 final size:12
Alignment explanation
Indices: 50505801--50505825 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
50505791 TTTATATGTT
50505801 TTTTATTTTTAA
1 TTTTATTTTTAA
50505813 TTTTATTTTTAA
1 TTTTATTTTTAA
50505825 T
1 T
50505826 AATTTTTTTA
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 13 1.00
ACGTcount: A:0.24, C:0.00, G:0.00, T:0.76
Consensus pattern (12 bp):
TTTTATTTTTAA
Found at i:50506139 original size:25 final size:25
Alignment explanation
Indices: 50506092--50506141 Score: 66
Period size: 25 Copynumber: 2.0 Consensus size: 25
50506082 TTTAAAATAC
*
50506092 TTTAAAAAATTTTTATTTTTTTATT
1 TTTAAAAAATTTTTATTTGTTTATT
*
50506117 TTTAAAATATTTTT-TTGTGTTTATT
1 TTTAAAAAATTTTTATT-TGTTTATT
50506142 AAAAATCGGG
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
24 2 0.09
25 20 0.91
ACGTcount: A:0.28, C:0.00, G:0.04, T:0.68
Consensus pattern (25 bp):
TTTAAAAAATTTTTATTTGTTTATT
Found at i:50508398 original size:22 final size:23
Alignment explanation
Indices: 50508364--50508415 Score: 97
Period size: 22 Copynumber: 2.3 Consensus size: 23
50508354 AATAGTGCCA
50508364 CACTGATATGTAGCCGAAGCTAC
1 CACTGATATGTAGCCGAAGCTAC
50508387 CACTGA-ATGTAGCCGAAGCTAC
1 CACTGATATGTAGCCGAAGCTAC
50508409 CACTGAT
1 CACTGAT
50508416 CAATAACACT
Statistics
Matches: 28, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
22 22 0.79
23 6 0.21
ACGTcount: A:0.31, C:0.27, G:0.21, T:0.21
Consensus pattern (23 bp):
CACTGATATGTAGCCGAAGCTAC
Found at i:50508661 original size:18 final size:17
Alignment explanation
Indices: 50508635--50508678 Score: 54
Period size: 18 Copynumber: 2.5 Consensus size: 17
50508625 ATTTTCCTTC
50508635 CACATTC-AATATTAATT
1 CACATTCAAATA-TAATT
50508652 CACATATCAAATATAATT
1 CACAT-TCAAATATAATT
50508670 CACAATTCA
1 CAC-ATTCA
50508679 TAAAAAATAT
Statistics
Matches: 24, Mismatches: 0, Indels: 5
0.83 0.00 0.17
Matches are distributed among these distances:
17 5 0.21
18 13 0.54
19 6 0.25
ACGTcount: A:0.45, C:0.20, G:0.00, T:0.34
Consensus pattern (17 bp):
CACATTCAAATATAATT
Found at i:50516840 original size:40 final size:40
Alignment explanation
Indices: 50516757--50516942 Score: 207
Period size: 40 Copynumber: 4.7 Consensus size: 40
50516747 TTGAATGATG
* * * * *
50516757 TCCGGGCTAAGTCCCGAAGGC-TTTGTGCTAAGTGACCATA
1 TCCGGGTTAAGTCCCGAAGGCATTTGTGC-GAGTTACTAAA
** *
50516797 TCCGGACTAAGAT-CCGAAGGCATTTTTGCGAGTTACTAAA
1 TCCGGGTTAAG-TCCCGAAGGCATTTGTGCGAGTTACTAAA
*
50516837 TCCGGGTTAAGTCCCGAAGGTATTTGTGCGAGTTACTAAA
1 TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAA
50516877 TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAA
1 TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTACTA-AA
* * * *
50516918 -CTGAGCTATGTCCCGAAGGCATTTG
1 TCCGGGTTAAGTCCCGAAGGCATTTG
50516943 AACGAGTAGC
Statistics
Matches: 127, Mismatches: 15, Indels: 8
0.85 0.10 0.05
Matches are distributed among these distances:
39 1 0.01
40 117 0.92
41 9 0.07
ACGTcount: A:0.25, C:0.21, G:0.26, T:0.28
Consensus pattern (40 bp):
TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAA
Found at i:50516949 original size:80 final size:79
Alignment explanation
Indices: 50516810--50516975 Score: 192
Period size: 80 Copynumber: 2.1 Consensus size: 79
50516800 GGACTAAGAT
* * * * **
50516810 CCGAAGGCATTTTTGCGAGTTACTAAATCCGGGTTAAGTCCCGAAGGTATTTGTGCGAGTTA-CT
1 CCGAAGGCATTTGTGCGAGTTACTAAATCCGAGCTAAGTCCCGAAGGCATTTGAACGAG-TAGCT
*
50516874 AAATCCGGGTTAAGTC
65 AAATCC-GGTTAAATC
* *
50516890 CCGAAGGCATTTGTGCGAGTTACTATAA-CTGAGCTATGTCCCGAAGGCATTTGAACGAGTAGCT
1 CCGAAGGCATTTGTGCGAGTTACTA-AATCCGAGCTAAGTCCCGAAGGCATTTGAACGAGTAGCT
* *
50516954 ATATCCGGTTAAATT
65 AAATCCGGTTAAATC
50516969 CCGAAGG
1 CCGAAGG
50516976 TACGTGATTT
Statistics
Matches: 73, Mismatches: 11, Indels: 5
0.82 0.12 0.06
Matches are distributed among these distances:
79 16 0.22
80 55 0.75
81 2 0.03
ACGTcount: A:0.27, C:0.19, G:0.26, T:0.28
Consensus pattern (79 bp):
CCGAAGGCATTTGTGCGAGTTACTAAATCCGAGCTAAGTCCCGAAGGCATTTGAACGAGTAGCTA
AATCCGGTTAAATC
Done.