Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Scaffold75
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: 1998514
ACGTcount: A:0.34, C:0.16, G:0.17, T:0.34
File 3 of 12
Found at i:362749 original size:13 final size:13
Alignment explanation
Indices: 362731--362758 Score: 56
Period size: 13 Copynumber: 2.2 Consensus size: 13
362721 ATTACTCAAA
362731 TGTATCGATACAT
1 TGTATCGATACAT
362744 TGTATCGATACAT
1 TGTATCGATACAT
362757 TG
1 TG
362759 ATCTTTGTAT
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 15 1.00
ACGTcount: A:0.29, C:0.14, G:0.18, T:0.39
Consensus pattern (13 bp):
TGTATCGATACAT
Found at i:367861 original size:32 final size:31
Alignment explanation
Indices: 367821--368555 Score: 290
Period size: 32 Copynumber: 24.4 Consensus size: 31
367811 GCCATTAACT
*
367821 TGTGTGGGCTTTAAAAAGAGTTTCCACCGAC
1 TGTGTGGGCTTTAAAAAGAGTTGCCACCGAC
* * **
367852 TCGTCTGGGCTTTGAAAAGAG-TGCCACTAAC
1 T-GTGTGGGCTTTAAAAAGAGTTGCCACCGAC
367883 T-TGTGGGCTTTGAAAAAAGAGTTGCCACCGAC
1 TGTGTGGGCTTT--AAAAAGAGTTGCCACCGAC
* * * *
367915 TTGTGTGGGCTTT-GAAAG-GATACCACTGAC
1 -TGTGTGGGCTTTAAAAAGAGTTGCCACCGAC
* * **
367945 T-TGTGGACTTTGAAAATGA--TGCCATTGAC
1 TGTGTGGGCTTT-AAAAAGAGTTGCCACCGAC
* * ***
367974 T-TGTGGGCTTTTAAAAG-GATGCCATTAAC
1 TGTGTGGGCTTTAAAAAGAGTTGCCACCGAC
* * *
368003 T-TGTGGGCTTTGAAAAG-G-TACCACTGAC
1 TGTGTGGGCTTTAAAAAGAGTTGCCACCGAC
* **
368031 T-TGTGGGCTTTGAAAAG-G-TGCCATTGAC
1 TGTGTGGGCTTTAAAAAGAGTTGCCACCGAC
* * *
368059 T-TGTGGGCTTT-GAAAGGGTATGCCACTGAC
1 TGTGTGGGCTTTAAAAAGAGT-TGCCACCGAC
* * * * * **
368089 T-TATGGACTCTGAAATGA--TGCCACTAAC
1 TGTGTGGGCTTTAAAAAGAGTTGCCACCGAC
* *
368117 T-TGTGGGCTTT-AAAAG-GATGCCACTGAC
1 TGTGTGGGCTTTAAAAAGAGTTGCCACCGAC
* * * * *
368145 T-TGTGGGCTTTGAAATGGGTTGCCATCAAC
1 TGTGTGGGCTTTAAAAAGAGTTGCCACCGAC
* * *
368175 TTGAGTGGGCTTTGAAATAG-GTTGCCATCGAC
1 -TGTGTGGGCTTT-AAAAAGAGTTGCCACCGAC
* * *
368207 TTGTGTGGGCTTTGAAATAG-GTTGCCACCAATT
1 -TGTGTGGGCTTT-AAAAAGAGTTGCCACCGA-C
* * *
368240 TGTGTGGGCTTTCAAATGAGTTGCCACTGAC
1 TGTGTGGGCTTTAAAAAGAGTTGCCACCGAC
* * *
368271 TTCTGTGGGCTTTGAAATA-AGTTGCCACCAAC
1 -TGTGTGGGCTTT-AAAAAGAGTTGCCACCGAC
* *
368303 TTGTGTGGGCTTTGAAAAG-GTATGCCACTGAC
1 -TGTGTGGGCTTTAAAAAGAGT-TGCCACCGAC
* * * *
368335 T-TGTGGACTTTGAAATGA--TGCCACTGAC
1 TGTGTGGGCTTTAAAAAGAGTTGCCACCGAC
* ** *
368363 T-TGTGAGCTTT-AAAAG-GACGCCACTGAC
1 TGTGTGGGCTTTAAAAAGAGTTGCCACCGAC
* * * * *
368391 T-TGTGGGATTTGAAATGGGTTGCCACCAAC
1 TGTGTGGGCTTTAAAAAGAGTTGCCACCGAC
* * * *
368421 TTGAGTGGGCTTTGAAATGGGTTGCCACCGAC
1 -TGTGTGGGCTTTAAAAAGAGTTGCCACCGAC
* * *
368453 TTGTGTGGGCTTTGAAATG-GATTGCCACCAAC
1 -TGTGTGGGCTTTAAAAAGAG-TTGCCACCGAC
* * **
368485 TTGTGTGGGCTTTGAAATGAGTTGCCATTGAC
1 -TGTGTGGGCTTTAAAAAGAGTTGCCACCGAC
* *
368517 T-TGTGGGCTTTGAAATGA--TGCCACCGAC
1 TGTGTGGGCTTTAAAAAGAGTTGCCACCGAC
368545 T-TGTGGGCTTT
1 TGTGTGGGCTTT
368556 GAATGGATGC
Statistics
Matches: 571, Mismatches: 96, Indels: 77
0.77 0.13 0.10
Matches are distributed among these distances:
27 12 0.02
28 151 0.26
29 62 0.11
30 76 0.13
31 36 0.06
32 217 0.38
33 7 0.01
34 10 0.02
ACGTcount: A:0.23, C:0.18, G:0.28, T:0.31
Consensus pattern (31 bp):
TGTGTGGGCTTTAAAAAGAGTTGCCACCGAC
Found at i:367902 original size:63 final size:58
Alignment explanation
Indices: 367804--368610 Score: 442
Period size: 64 Copynumber: 13.4 Consensus size: 58
367794 TTTTTTAAAA
* *
367804 AAAAGGTGCCATTAACTTGTGTGGGCTTT-AAAAAGAGTTTCCACCGACTCGTCTGGGCTTTG
1 AAAAGGTGCCATTAAC-T-TGTGGGCTTTGAAAAAGAG-TGCCACCGACT--TGTGGGCTTTG
*
367866 AAAAGAGTGCCACTAACTTGTGGGCTTTGAAAAAAGAGTTGCCACCGACTTGTGTGGGCTTTG
1 AAAAG-GTGCCATTAACTTGTGGGCTTTG-AAAAAGAG-TGCCACCGAC-T-TGTGGGCTTTG
* * * * * ** *
367929 -AAAGGATACCACTGACTTGTGGACTTTGAAAATGA-TGCCATTGACTTGTGGGCTTTT
1 AAAAGG-TGCCATTAACTTGTGGGCTTTGAAAAAGAGTGCCACCGACTTGTGGGCTTTG
* *
367986 AAAAGGATGCCATTAACTTGTGGGCTTTG-AAAAG-GTACCACTGACTTGTGGGCTTTG
1 AAAAGG-TGCCATTAACTTGTGGGCTTTGAAAAAGAGTGCCACCGACTTGTGGGCTTTG
* ** * * * *
368043 AAAAGGTGCCATTGACTTGTGGGCTTTGAAAGGGTA-TGCCACTGACTTATGGACTCTG
1 AAAAGGTGCCATTAACTTGTGGGCTTTGAAAAAG-AGTGCCACCGACTTGTGGGCTTTG
* * * * *
368101 AAATGATGCCACTAACTTGTGGGCTTT-AAAAGGA-TGCCACTGACTTGTGGGCTTTG
1 AAAAGGTGCCATTAACTTGTGGGCTTTGAAAAAGAGTGCCACCGACTTGTGGGCTTTG
* * * *
368157 AAATGGGTTGCCATCAACTTGAGTGGGCTTTGAAATAG-GTTGCCATCGACTTGTGTGGGCTTTG
1 AAA-AGG-TGCCATTAACTT--GTGGGCTTTGAAAAAGAG-TGCCACCGAC-T-TGTGGGCTTTG
** * * * *
368221 AAATAGGTTGCCACCAATTTGTGTGGGCTTT-CAAATGAGTTGCCACTGACTTCTGTGGGCTTTG
1 AAA-AGG-TGCCATTAA-CT-TGTGGGCTTTGAAAAAGAG-TGCCACCGAC-T-TGTGGGCTTTG
* ** * * *
368285 AAATAAGTTGCCACCAACTTGTGTGGGCTTTGAAAAGGTA-TGCCACTGACTTGTGGACTTTG
1 -AA-AAGGTGCCATTAAC-T-TGTGGGCTTTGAAAAAG-AGTGCCACCGACTTGTGGGCTTTG
* * * * * * * * *
368347 AAATGATGCCACTGACTTGTGAGCTTT-AAAAGGA-CGCCACTGACTTGTGGGATTTG
1 AAAAGGTGCCATTAACTTGTGGGCTTTGAAAAAGAGTGCCACCGACTTGTGGGCTTTG
* ** * *
368403 AAATGGGTTGCCACCAACTTGAGTGGGCTTTG-AAATGGGTTGCCACCGACTTGTGTGGGCTTTG
1 AAA-AGG-TGCCATTAACTT--GTGGGCTTTGAAAAAGAG-TGCCACCGAC-T-TGTGGGCTTTG
* ** * **
368467 AAATGGATTGCCACCAACTTGTGTGGGCTTTG-AAATGAGTTGCCATTGACTTGTGGGCTTTG
1 AAAAGG--TGCCATTAAC-T-TGTGGGCTTTGAAAAAGAG-TGCCACCGACTTGTGGGCTTTG
* * *** ** *
368529 AAATGATGCCACCGACTTGTGGGCTTTG-AATGGA-TGCCACTGACTTGTGGGCTTTG
1 AAAAGGTGCCATTAACTTGTGGGCTTTGAAAAAGAGTGCCACCGACTTGTGGGCTTTG
* * * *
368585 AAATGATACCACTAACTTGTGGGCTT
1 AAAAGGTGCCATTAACTTGTGGGCTT
368611 CTAAAGGGTG
Statistics
Matches: 621, Mismatches: 85, Indels: 84
0.79 0.11 0.11
Matches are distributed among these distances:
56 111 0.18
57 55 0.09
58 110 0.18
59 10 0.02
60 40 0.06
61 23 0.04
62 71 0.11
63 48 0.08
64 139 0.22
65 10 0.02
66 4 0.01
ACGTcount: A:0.24, C:0.18, G:0.28, T:0.31
Consensus pattern (58 bp):
AAAAGGTGCCATTAACTTGTGGGCTTTGAAAAAGAGTGCCACCGACTTGTGGGCTTTG
Found at i:367955 original size:28 final size:28
Alignment explanation
Indices: 367857--368610 Score: 544
Period size: 28 Copynumber: 25.2 Consensus size: 28
367847 CCGACTCGTC
* *
367857 TGGGCTTTGAAAAGAGTGCCACTAACTTG
1 TGGGCTTTGAAAGGA-TGCCACTGACTTG
* *
367886 TGGGCTTTGAAAAAAGAGTTGCCACCGACTTGTG
1 TGGGCTTTG---AAAG-GATGCCACTGAC-T-TG
*
367920 TGGGCTTTGAAAGGATACCACTGACTTG
1 TGGGCTTTGAAAGGATGCCACTGACTTG
* * *
367948 TGGACTTTGAAAATGATGCCATTGACTTG
1 TGGGCTTTG-AAAGGATGCCACTGACTTG
* * *
367977 TGGGCTTTTAAAAGGATGCCATTAACTTG
1 TGGGC-TTTGAAAGGATGCCACTGACTTG
*
368006 TGGGCTTTGAAAAGG-TACCACTGACTTG
1 TGGGCTTTG-AAAGGATGCCACTGACTTG
*
368034 TGGGCTTTGAAAAGG-TGCCATTGACTTG
1 TGGGCTTTG-AAAGGATGCCACTGACTTG
*
368062 TGGGCTTTGAAAGGGTATGCCACTGACTTA
1 TGGGCTTTGAAA-GG-ATGCCACTGACTTG
* * * *
368092 TGGACTCTGAAATGATGCCACTAACTTG
1 TGGGCTTTGAAAGGATGCCACTGACTTG
*
368120 TGGGCTTTAAAAGGATGCCACTGACTTG
1 TGGGCTTTGAAAGGATGCCACTGACTTG
* *
368148 TGGGCTTTGAAATGGGTTGCCA-TCAACTTGAG
1 TGGGCTTTGAAA--GGATGCCACT-GACTT--G
*
368180 TGGGCTTTGAAATAGGTTGCCA-TCGACTTGTG
1 TGGGCTTTG-AA-AGGATGCCACT-GAC-T-TG
* ** *
368212 TGGGCTTTGAAATAGGTTGCCACCAATTTGTG
1 TGGGCTTTG-AA-AGGATGCCACTGA-CT-TG
* *
368244 TGGGCTTTCAAATGAGTTGCCACTGACTTCTG
1 TGGGCTTTGAAA-G-GATGCCACTGAC-T-TG
* * **
368276 TGGGCTTTGAAATAAGTTGCCACCAACTTGTG
1 TGGGCTTTG-AA-AGGATGCCACTGAC-T-TG
368308 TGGGCTTTGAAAAGGTATGCCACTGACTTG
1 TGGGCTTTG-AAAGG-ATGCCACTGACTTG
* *
368338 TGGACTTTGAAATGATGCCACTGACTTG
1 TGGGCTTTGAAAGGATGCCACTGACTTG
* * *
368366 TGAGCTTTAAAAGGACGCCACTGACTTG
1 TGGGCTTTGAAAGGATGCCACTGACTTG
* * **
368394 TGGGATTTGAAATGGGTTGCCACCAACTTGAG
1 TGGGCTTTGAAA--GGATGCCACTGACTT--G
* *
368426 TGGGCTTTGAAATGGGTTGCCACCGACTTGTG
1 TGGGCTTTGAAA--GGATGCCACTGAC-T-TG
**
368458 TGGGCTTTGAAATGGATTGCCACCAACTTGTG
1 TGGGCTTTGAAA-GGA-TGCCACTGAC-T-TG
* *
368490 TGGGCTTTGAAATGAGTTGCCATTGACTTG
1 TGGGCTTTGAAA-G-GATGCCACTGACTTG
* *
368520 TGGGCTTTGAAATGATGCCACCGACTTG
1 TGGGCTTTGAAAGGATGCCACTGACTTG
*
368548 TGGGCTTTGAATGGATGCCACTGACTTG
1 TGGGCTTTGAAAGGATGCCACTGACTTG
* * *
368576 TGGGCTTTGAAATGATACCACTAACTTG
1 TGGGCTTTGAAAGGATGCCACTGACTTG
368604 TGGGCTT
1 TGGGCTT
368611 CTAAAGGGTG
Statistics
Matches: 600, Mismatches: 88, Indels: 75
0.79 0.12 0.10
Matches are distributed among these distances:
27 3 0.00
28 220 0.37
29 63 0.10
30 80 0.13
31 13 0.02
32 197 0.33
33 9 0.01
34 15 0.03
ACGTcount: A:0.23, C:0.17, G:0.28, T:0.31
Consensus pattern (28 bp):
TGGGCTTTGAAAGGATGCCACTGACTTG
Found at i:368494 original size:246 final size:240
Alignment explanation
Indices: 368023--368615 Score: 886
Period size: 246 Copynumber: 2.5 Consensus size: 240
368013 TGAAAAGGTA
* * *** *
368023 CCACTGACTTGTGGGCTTTGAAAAGGTGCCATTGACTTGTGGGCTTTGAAAGGGTATGCCACTGA
1 CCACTGACTTGTGGGCTTTGAAATGATGCCACCAACTTGTGGGCTTTGAAAAGGTATGCCACTGA
* * * *
368088 CTTATGGACTCTGAAATGATGCCACTAACTTGTGGGCTTTAAAAGGATGCCACTGACTTGTGGGC
66 CTTGTGGACTTTGAAATGATGCCACTAACTTGTGGGCTTTAAAAGGACGCCACTGACTTGTGGGA
* *
368153 TTTGAAATGGGTTGCCATCAACTTGAGTGGGCTTTGAAATAGGTTGCCATCGACTTGTGTGGGCT
131 TTTGAAATGGGTTGCCACCAACTTGAGTGGGCTTTGAAATAGGTTGCCACCGACTTGTGTGGGCT
*
368218 TTGAAATAGGTTGCCACCAATTTGTGTGGGCTTTCAAATGAGTTG
196 TTGAAATAGGTTGCCACCAACTTGTGTGGGCTTTCAAATGAGTTG
*
368263 CCACTGACTTCTGTGGGCTTTGAAATAAGTTGCCACCAACTTGTGTGGGCTTTGAAAAGGTATGC
1 CCACTGAC-T-TGTGGGCTTTGAAAT--GATGCCACCAAC-T-TGTGGGCTTTGAAAAGGTATGC
* *
368328 CACTGACTTGTGGACTTTGAAATGATGCCACTGACTTGTGAGCTTTAAAAGGACGCCACTGACTT
60 CACTGACTTGTGGACTTTGAAATGATGCCACTAACTTGTGGGCTTTAAAAGGACGCCACTGACTT
*
368393 GTGGGATTTGAAATGGGTTGCCACCAACTTGAGTGGGCTTTGAAATGGGTTGCCACCGACTTGTG
125 GTGGGATTTGAAATGGGTTGCCACCAACTTGAGTGGGCTTTGAAATAGGTTGCCACCGACTTGTG
*
368458 TGGGCTTTGAAAT-GGATTGCCACCAACTTGTGTGGGCTTTGAAATGAGTTG
190 TGGGCTTTGAAATAGG-TTGCCACCAACTTGTGTGGGCTTTCAAATGAGTTG
* * *
368509 CCATTGACTTGTGGGCTTTGAAATGATGCCACCGACTTGTGGGCTTTG-AATGG-ATGCCACTGA
1 CCACTGACTTGTGGGCTTTGAAATGATGCCACCAACTTGTGGGCTTTGAAAAGGTATGCCACTGA
* *
368572 CTTGTGGGCTTTGAAATGATACCACTAACTTGTGGGCTTCTAAA
66 CTTGTGGACTTTGAAATGATGCCACTAACTTGTGGGCTT-TAAA
368616 GGGTGCTGCC
Statistics
Matches: 320, Mismatches: 25, Indels: 17
0.88 0.07 0.05
Matches are distributed among these distances:
238 45 0.14
239 8 0.03
240 19 0.06
241 2 0.01
242 24 0.08
244 23 0.07
245 4 0.01
246 195 0.61
ACGTcount: A:0.23, C:0.18, G:0.28, T:0.31
Consensus pattern (240 bp):
CCACTGACTTGTGGGCTTTGAAATGATGCCACCAACTTGTGGGCTTTGAAAAGGTATGCCACTGA
CTTGTGGACTTTGAAATGATGCCACTAACTTGTGGGCTTTAAAAGGACGCCACTGACTTGTGGGA
TTTGAAATGGGTTGCCACCAACTTGAGTGGGCTTTGAAATAGGTTGCCACCGACTTGTGTGGGCT
TTGAAATAGGTTGCCACCAACTTGTGTGGGCTTTCAAATGAGTTG
Found at i:368589 original size:182 final size:175
Alignment explanation
Indices: 367857--368610 Score: 727
Period size: 182 Copynumber: 4.2 Consensus size: 175
367847 CCGACTCGTC
* * * *
367857 TGGGCTTTGAAAAGAGTGCCACTAACTTGTGGGCTTTGAAAAAAGAGTTGCCACCGACTTGTGTG
1 TGGGCTTTGAAATGGGTGCCACCAACTTGTGGGCTTTG--AAATGAGTTGCCACCGACTTGTGTG
* * ** * * * * *
367922 GGCTTTGAAAGGATACCACTGACTTGTGGACTTTGAAAATGATGCCATTGACTTGTGGGCTTTTA
64 GGCTTTGAAATGATGCCACCAACTTGTGGGCTTTGAAAAGGTTGCCACTGACTTGTGGGC-TTTG
* ** *
367987 AAAGGATGCCATTAACTTGTGGGCTTTGAAAAGG-TACCACTGACTTG
128 AAATGATGCCACCAACTTGTGGGCTTTGAAAAGGATGCCACTGACTTG
* *** * * *
368034 TGGGCTTTGAAA-AGGTGCCATTGACTTGTGGGCTTTGAAA-GGGTATGCCACTGAC-T-TATGG
1 TGGGCTTTGAAATGGGTGCCACCAACTTGTGGGCTTTGAAATGAGT-TGCCACCGACTTGTGTGG
* * * *
368095 ACTCTGAAATGATGCCACTAACTTGTGGGCTTT-AAAAGGATGCCACTGACTTGTGGGCTTTGAA
65 GCTTTGAAATGATGCCACCAACTTGTGGGCTTTGAAAAGGTTGCCACTGACTTGTGGGCTTTGAA
* * *
368159 ATGGGTTGCCATCAACTTGAGTGGGCTTTGAAATAGGTTGCCA-TCGACTTGTG
130 AT--GATGCCACCAACTT--GTGGGCTTTGAAA-AGGATGCCACT-GAC-T-TG
* * * * *
368212 TGGGCTTTGAAATAGGTTGCCACCAATTTGTGTGGGCTTTCAAATGAGTTGCCACTGACTTCTGT
1 TGGGCTTTGAAAT-GGGTGCCACCAA-CT-TGTGGGCTTTGAAATGAGTTGCCACCGACTTGTGT
* *
368277 GGGCTTTGAAATAAGTTGCCACCAACTTGTGTGGGCTTTGAAAAGGTATGCCACTGACTTGTGGA
63 GGGCTTTGAAAT--GATGCCACCAAC-T-TGTGGGCTTTGAAAAGGT-TGCCACTGACTTGTGGG
** * *
368342 CTTTGAAATGATGCCACTGACTTGTGAGCTTT-AAAAGGACGCCACTGACTTG
123 CTTTGAAATGATGCCACCAACTTGTGGGCTTTGAAAAGGATGCCACTGACTTG
* *
368394 TGGGATTTGAAATGGGTTGCCACCAACTTGAGTGGGCTTTGAAATGGGTTGCCACCGACTTGTGT
1 TGGGCTTTGAAATGGG-TGCCACCAACTT--GTGGGCTTTGAAATGAGTTGCCACCGACTTGTGT
* *
368459 GGGCTTTGAAATGGATTGCCACCAACTTGTGTGGGCTTTGAAATGAGTTGCCATTGACTTGTGGG
63 GGGCTTTGAAAT-GA-TGCCACCAAC-T-TGTGGGCTTTGAAAAG-GTTGCCACTGACTTGTGGG
* *
368524 CTTTGAAATGATGCCACCGACTTGTGGGCTTTG-AATGGATGCCACTGACTTG
123 CTTTGAAATGATGCCACCAACTTGTGGGCTTTGAAAAGGATGCCACTGACTTG
* * *
368576 TGGGCTTTGAAAT-GATACCACTAACTTGTGGGCTT
1 TGGGCTTTGAAATGGGTGCCACCAACTTGTGGGCTT
368611 CTAAAGGGTG
Statistics
Matches: 485, Mismatches: 62, Indels: 59
0.80 0.10 0.10
Matches are distributed among these distances:
170 6 0.01
171 23 0.05
172 43 0.09
173 4 0.01
174 25 0.05
175 4 0.01
176 28 0.06
177 13 0.03
178 22 0.05
180 18 0.04
181 6 0.01
182 190 0.39
183 7 0.01
184 22 0.05
185 4 0.01
186 18 0.04
187 1 0.00
188 20 0.04
189 6 0.01
190 25 0.05
ACGTcount: A:0.23, C:0.17, G:0.28, T:0.31
Consensus pattern (175 bp):
TGGGCTTTGAAATGGGTGCCACCAACTTGTGGGCTTTGAAATGAGTTGCCACCGACTTGTGTGGG
CTTTGAAATGATGCCACCAACTTGTGGGCTTTGAAAAGGTTGCCACTGACTTGTGGGCTTTGAAA
TGATGCCACCAACTTGTGGGCTTTGAAAAGGATGCCACTGACTTG
Found at i:368653 original size:27 final size:27
Alignment explanation
Indices: 368622--368722 Score: 157
Period size: 27 Copynumber: 3.7 Consensus size: 27
368612 TAAAGGGTGC
368622 TGCCACGGAGTTGTGGACTTAAAAGGA
1 TGCCACGGAGTTGTGGACTTAAAAGGA
*
368649 TGCCACGGAGTTGTGGACTTAAATGGA
1 TGCCACGGAGTTGTGGACTTAAAAGGA
** *
368676 TGCCATAGAGTTGTGGACTTAAAAGGG
1 TGCCACGGAGTTGTGGACTTAAAAGGA
*
368703 TGCCACGAAGTTGTGGACTT
1 TGCCACGGAGTTGTGGACTT
368723 TGAAAAAGAA
Statistics
Matches: 66, Mismatches: 8, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
27 66 1.00
ACGTcount: A:0.27, C:0.15, G:0.33, T:0.26
Consensus pattern (27 bp):
TGCCACGGAGTTGTGGACTTAAAAGGA
Found at i:377057 original size:31 final size:31
Alignment explanation
Indices: 377019--377091 Score: 146
Period size: 31 Copynumber: 2.4 Consensus size: 31
377009 ATTGAAAATA
377019 TATCGATACATCTGGGTAAAAAGACAGAATG
1 TATCGATACATCTGGGTAAAAAGACAGAATG
377050 TATCGATACATCTGGGTAAAAAGACAGAATG
1 TATCGATACATCTGGGTAAAAAGACAGAATG
377081 TATCGATACAT
1 TATCGATACAT
377092 TGAAGAATGT
Statistics
Matches: 42, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
31 42 1.00
ACGTcount: A:0.41, C:0.14, G:0.21, T:0.25
Consensus pattern (31 bp):
TATCGATACATCTGGGTAAAAAGACAGAATG
Found at i:377100 original size:20 final size:20
Alignment explanation
Indices: 377075--377151 Score: 111
Period size: 20 Copynumber: 3.9 Consensus size: 20
377065 GTAAAAAGAC
377075 AGAATGTATCGATACATTGA
1 AGAATGTATCGATACATTGA
*
377095 AGAATGTATCGATACATTCA
1 AGAATGTATCGATACATTGA
*
377115 TA-CATGTATCGATACATTGA
1 -AGAATGTATCGATACATTGA
*
377135 AGAATGTATTGATACAT
1 AGAATGTATCGATACAT
377152 CTGGGTACCT
Statistics
Matches: 50, Mismatches: 5, Indels: 4
0.85 0.08 0.07
Matches are distributed among these distances:
19 1 0.02
20 48 0.96
21 1 0.02
ACGTcount: A:0.39, C:0.12, G:0.17, T:0.32
Consensus pattern (20 bp):
AGAATGTATCGATACATTGA
Found at i:380282 original size:101 final size:101
Alignment explanation
Indices: 380106--380293 Score: 247
Period size: 101 Copynumber: 1.9 Consensus size: 101
380096 GTTGAAAGGT
* * *
380106 GGGGTTGGAATATCCCCTTCAAAAGATGGGGTTGGAGTATCCTCGTGAATGACAAATAGTTTTGA
1 GGGGTTAGAATATCCCCTTCAAAAGATGGGGTTGGAATATCCTCATGAATGACAAATAGTTTTGA
380171 CAAAGAAAAAGTTCAAATCTTGGCAAATTTTGAAGC
66 CAAAGAAAAAGTTCAAATCTTGGCAAATTTTGAAGC
* * * *
380207 GGGGTTAGAGTATCCCC-TCGAAAGGTCGGGGTTGGAATATCC-CTATGGATGACAAAT-GATTT
1 GGGGTTAGAATATCCCCTTCAAAAGAT-GGGGTTGGAATATCCTC-ATGAATGACAAATAG-TTT
* *
380269 TGACAAAGGAAAAGTTCCAATCTTG
63 TGACAAAGAAAAAGTTCAAATCTTG
380294 ATAAATTTCA
Statistics
Matches: 75, Mismatches: 9, Indels: 6
0.83 0.10 0.07
Matches are distributed among these distances:
100 9 0.12
101 66 0.88
ACGTcount: A:0.32, C:0.15, G:0.26, T:0.27
Consensus pattern (101 bp):
GGGGTTAGAATATCCCCTTCAAAAGATGGGGTTGGAATATCCTCATGAATGACAAATAGTTTTGA
CAAAGAAAAAGTTCAAATCTTGGCAAATTTTGAAGC
Found at i:386036 original size:20 final size:21
Alignment explanation
Indices: 385987--386036 Score: 57
Period size: 20 Copynumber: 2.4 Consensus size: 21
385977 TAAGTAAATG
385987 TATCGATACATACTTATAATTA
1 TATCGATACATA-TTATAATTA
* * *
386009 GATTGATACAT-TTATCATTA
1 TATCGATACATATTATAATTA
386029 TATCGATA
1 TATCGATA
386037 TATTCTGGGT
Statistics
Matches: 23, Mismatches: 5, Indels: 2
0.77 0.17 0.07
Matches are distributed among these distances:
20 14 0.61
22 9 0.39
ACGTcount: A:0.38, C:0.12, G:0.08, T:0.42
Consensus pattern (21 bp):
TATCGATACATATTATAATTA
Found at i:388550 original size:79 final size:79
Alignment explanation
Indices: 388413--388756 Score: 390
Period size: 79 Copynumber: 4.4 Consensus size: 79
388403 CTTCATGAAT
* * ** *
388413 GTTTTATTTCTAAAATATCGATTTTTCACCATCGGGGATACTCCAATACCGTTATTTTCG-AGAG
1 GTTTTATTTCTAAAACACCGATTTTTCACCATCGGGGATACTCCAACCCCATTATTTTCGAAG-G
* **
388477 GATACCCCAACCCCG
65 GATACTCCAACATCG
* * * *
388492 GTTTTATTTCTAAAACACTGATTTTTCACCATCGGGGATACTTCAACCCCATTGTTTTCGAGGGG
1 GTTTTATTTCTAAAACACCGATTTTTCACCATCGGGGATACTCCAACCCCATTATTTTCGAAGGG
* * *
388557 ATACTCTAACCTTG
66 ATACTCCAACATCG
** * *
388571 GTTTTATTTCTAAAACACCGA-TTTTCTACCATAAGGGATACTCCAACCCCGTTATTTTTGAAGG
1 GTTTTATTTCTAAAACACCGATTTTTC-ACCATCGGGGATACTCCAACCCCATTATTTTCGAAGG
388635 GATACTCCAACATC-
65 GATACTCCAACATCG
* * * * *
388649 GATTTATTTCTAAAACACCGACTTTACACCATC-GGGATACTCCAACCCTATTATTTTTGAAGGG
1 GTTTTATTTCTAAAACACCGATTTTTCACCATCGGGGATACTCCAACCCCATTATTTTCGAAGGG
* *
388713 ATACTCCAATAGCG
66 ATACTCCAACATCG
* *
388727 ATTTTATTTCTAAAACACCAATTTTTCACC
1 GTTTTATTTCTAAAACACCGATTTTTCACC
388757 TCCAACCCTA
Statistics
Matches: 225, Mismatches: 36, Indels: 9
0.83 0.13 0.03
Matches are distributed among these distances:
77 40 0.18
78 55 0.24
79 129 0.57
80 1 0.00
ACGTcount: A:0.28, C:0.24, G:0.13, T:0.34
Consensus pattern (79 bp):
GTTTTATTTCTAAAACACCGATTTTTCACCATCGGGGATACTCCAACCCCATTATTTTCGAAGGG
ATACTCCAACATCG
Found at i:388800 original size:68 final size:68
Alignment explanation
Indices: 388688--388819 Score: 183
Period size: 68 Copynumber: 1.9 Consensus size: 68
388678 CATCGGGATA
* * *
388688 CTCCAACCCTATTATTTTTGAAGGGATACTCCAATAGCGATTTTATTTCTAAAACACCAATTTTT
1 CTCCAACCCTATTATTTTCGAAGGGATACTCCAACACCGATTTTATTTCTAAAACACCAATTTTT
388753 CAC
66 CAC
* * * * * *
388756 CTCCAACCCTATTATTTTCGAGGGGATACTCCAACCCCGGTTTTATTTTTAAAATATCAATTTT
1 CTCCAACCCTATTATTTTCGAAGGGATACTCCAACACCGATTTTATTTCTAAAACACCAATTTT
388820 CTACCATCAG
Statistics
Matches: 55, Mismatches: 9, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
68 55 1.00
ACGTcount: A:0.29, C:0.23, G:0.10, T:0.38
Consensus pattern (68 bp):
CTCCAACCCTATTATTTTCGAAGGGATACTCCAACACCGATTTTATTTCTAAAACACCAATTTTT
CAC
Found at i:388861 original size:29 final size:30
Alignment explanation
Indices: 388815--388876 Score: 108
Period size: 29 Copynumber: 2.1 Consensus size: 30
388805 TAAAATATCA
388815 ATTTTCTACCATCAGGGATACTCTAACCCC
1 ATTTTCTACCATCAGGGATACTCTAACCCC
*
388845 ATTTTC-ACCATCGGGGATACTCTAACCCC
1 ATTTTCTACCATCAGGGATACTCTAACCCC
388874 ATT
1 ATT
388877 ATTTTCAAAA
Statistics
Matches: 31, Mismatches: 1, Indels: 1
0.94 0.03 0.03
Matches are distributed among these distances:
29 25 0.81
30 6 0.19
ACGTcount: A:0.26, C:0.32, G:0.11, T:0.31
Consensus pattern (30 bp):
ATTTTCTACCATCAGGGATACTCTAACCCC
Found at i:388934 original size:108 final size:108
Alignment explanation
Indices: 388760--388957 Score: 290
Period size: 108 Copynumber: 1.8 Consensus size: 108
388750 TTTCACCTCC
* * ** * **
388760 AACCCTATTATTTTCGAGGGGATACTCCAACCCCGGTTTTATTTTTAAAATATCAATTTTCTACC
1 AACCCCATTATTTTCAAAAGGATACTCCAACCCCGATTTTATTTCCAAAATATCAATTTTCTACC
388825 ATCAGGGATACTCTAACCCCATTTTCACCATCGGGGATACTCT
66 ATCAGGGATACTCTAACCCCATTTTCACCATCGGGGATACTCT
*
388868 AACCCCATTATTTTCAAAAGGATACTCCAACCTCGATTTTATTTCCAAAATATCAACTTTTC-AC
1 AACCCCATTATTTTCAAAAGGATACTCCAACCCCGATTTTATTTCCAAAATATCAA-TTTTCTAC
* *
388932 CATCGGGGATACTTTAACCCCATTTT
65 CATCAGGGATACTCTAACCCCATTTT
388958 TATTTTCAGA
Statistics
Matches: 79, Mismatches: 10, Indels: 2
0.87 0.11 0.02
Matches are distributed among these distances:
108 74 0.94
109 5 0.06
ACGTcount: A:0.29, C:0.26, G:0.11, T:0.34
Consensus pattern (108 bp):
AACCCCATTATTTTCAAAAGGATACTCCAACCCCGATTTTATTTCCAAAATATCAATTTTCTACC
ATCAGGGATACTCTAACCCCATTTTCACCATCGGGGATACTCT
Found at i:389002 original size:51 final size:50
Alignment explanation
Indices: 388888--389002 Score: 131
Period size: 51 Copynumber: 2.3 Consensus size: 50
388878 TTTTCAAAAG
* *
388888 GATACTCCAACCTCGATTTTATTTCCAAAATATCAACTTTTCACCATCGGG
1 GATACTCCAACC-CCATTTTATTTCCAAAATATCAACTTTTCACCATCGGA
** * * * * *
388939 GATACTTTAACCCCATTTTTATTTTCAGAATATCGATTTTTCAGCATCGGA
1 GATACTCCAACCCCA-TTTTATTTCCAAAATATCAACTTTTCACCATCGGA
388990 GATACTCCAACCC
1 GATACTCCAACCC
389003 TGTTATTTTT
Statistics
Matches: 52, Mismatches: 11, Indels: 2
0.80 0.17 0.03
Matches are distributed among these distances:
50 2 0.04
51 50 0.96
ACGTcount: A:0.29, C:0.26, G:0.10, T:0.35
Consensus pattern (50 bp):
GATACTCCAACCCCATTTTATTTCCAAAATATCAACTTTTCACCATCGGA
Found at i:392414 original size:16 final size:16
Alignment explanation
Indices: 392368--392433 Score: 62
Period size: 16 Copynumber: 3.9 Consensus size: 16
392358 AACTTTTACT
392368 ATTTAAAGTTTAAAATA
1 ATTTAAA-TTTAAAATA
**
392385 ATTTAAATAAAAAAT-
1 ATTTAAATTTAAAATA
392400 ATCTTAAATTTAAAATTA
1 AT-TTAAATTTAAAA-TA
*
392418 ATTTTAAATTTTAAAT
1 A-TTTAAATTTAAAAT
392434 TTCAAAGTGA
Statistics
Matches: 40, Mismatches: 5, Indels: 8
0.75 0.09 0.15
Matches are distributed among these distances:
15 2 0.05
16 16 0.40
17 9 0.22
18 12 0.30
19 1 0.03
ACGTcount: A:0.53, C:0.02, G:0.02, T:0.44
Consensus pattern (16 bp):
ATTTAAATTTAAAATA
Found at i:392424 original size:18 final size:18
Alignment explanation
Indices: 392369--392434 Score: 59
Period size: 18 Copynumber: 3.8 Consensus size: 18
392359 ACTTTTACTA
392369 TTTAAAGTTTAAAA-TAA-
1 TTTAAA-TTTAAAATTAAT
* *
392386 TTTAAA-TAAAAAAT-AT
1 TTTAAATTTAAAATTAAT
*
392402 CTTAAATTTAAAATTAAT
1 TTTAAATTTAAAATTAAT
*
392420 TTTAAATTTTAAATT
1 TTTAAATTTAAAATT
392435 TCAAAGTGAC
Statistics
Matches: 39, Mismatches: 6, Indels: 7
0.75 0.12 0.13
Matches are distributed among these distances:
15 6 0.15
16 6 0.15
17 12 0.31
18 15 0.38
ACGTcount: A:0.52, C:0.02, G:0.02, T:0.45
Consensus pattern (18 bp):
TTTAAATTTAAAATTAAT
Found at i:392958 original size:28 final size:28
Alignment explanation
Indices: 392908--392963 Score: 76
Period size: 28 Copynumber: 2.0 Consensus size: 28
392898 ATAAAATTAA
**
392908 TTTATAAAAATTAACGTAAAATTTTTAT
1 TTTATAAAAATTAAAATAAAATTTTTAT
**
392936 TTTATAAAAATTAAAATTCAATTTTTAT
1 TTTATAAAAATTAAAATAAAATTTTTAT
392964 CATCATTTAT
Statistics
Matches: 24, Mismatches: 4, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
28 24 1.00
ACGTcount: A:0.46, C:0.04, G:0.02, T:0.48
Consensus pattern (28 bp):
TTTATAAAAATTAAAATAAAATTTTTAT
Found at i:394648 original size:3 final size:3
Alignment explanation
Indices: 394642--394685 Score: 79
Period size: 3 Copynumber: 14.7 Consensus size: 3
394632 GGCCTTTTTT
*
394642 TTA TTA TTA TTA TTA TTA TTA TTA TTA GTA TTA TTA TTA TTA TT
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TT
394686 TATAATAAAT
Statistics
Matches: 39, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
3 39 1.00
ACGTcount: A:0.32, C:0.00, G:0.02, T:0.66
Consensus pattern (3 bp):
TTA
Found at i:397239 original size:316 final size:316
Alignment explanation
Indices: 396638--397410 Score: 1063
Period size: 316 Copynumber: 2.4 Consensus size: 316
396628 TTCCAAACAT
*
396638 CTTGTCATGGGGCCATTATCC-TCTTTCCTAAAAGACATGTCTGAT-AGAATGTGCAGCACACCC
1 CTTGTCATGAGGCCATTA-CCTTC-TTCCTAAAAGACATGTCTGATAAG-ATGTGCAGCACACCC
* * *
396701 CCTTATATGCCCAAAGATC-TTCCTTTTCTTGTCTGATGTGGGATTAATGCACCATGCCTACTTT
63 GCTTATATGCCCAAAGATCTTTCC-TTTCTTGTCTGATGTGAGATTAATGCACCCTGCCTACTTT
* *
396765 TTTAGAGCGCTTGGCGTGACATTCTCCCCCACCTAATCTTGTGACACCTCTGTCACAAGCTTCTC
127 TTTAGAGCGCTTGGCGTGACATTCTCCCCCACCCAATCTCGTGACACCTCTGTCACAAGCTTCTC
* * ** * * *
396830 CATTATTTTTGCTAATCCTGCCCTCAGGATGTTTGATGTGGAGACACGGTTGGTCTACCCTACTT
192 CACTATTTTTGCTAACCCTGCCCTCAAAATATTTGATGTGGAAACACGGTTGGTCCACCCTACTT
** **
396895 ATCCCACATGTTAGGGAACTTGGCATGAAATCGGGCAATCAAGAGTTGGCT-TAGATACCA
257 ATCCCACATGTTAGGGAACTCAGCATGAAATCGAACAATCAAGAGTTGGCTCT-GATACCA
* * * *
396955 CTTGTCATGAGGCCATTACCTTCTTCCTAAAAAACATGTCTGATAAGATGTGCAACATACCCGTT
1 CTTGTCATGAGGCCATTACCTTCTTCCTAAAAGACATGTCTGATAAGATGTGCAGCACACCCGCT
* *
397020 TATATGCCCAAAGATCTTTCCTTTCTTGTCTGATGTGAGATTAATACACCCTACCTACTTTTTTA
66 TATATGCCCAAAGATCTTTCCTTTCTTGTCTGATGTGAGATTAATGCACCCTGCCTACTTTTTTA
* * * *** *
397085 GAGTGCTTGGCGTGACATTCTCCCCCACCCAATCTCGTGACGCCTTTGTCATGGGTTTCTCCACT
131 GAGCGCTTGGCGTGACATTCTCCCCCACCCAATCTCGTGACACCTCTGTCACAAGCTTCTCCACT
* * *
397150 ATTTTTGC-CACCCTTGCCCTCAAAATATTTGGTGTGGAAACATGGTTGGTCCACCCTACTTATC
196 ATTTTTGCTAACCC-TGCCCTCAAAATATTTGATGTGGAAACACGGTTGGTCCACCCTACTTATC
* *
397214 CCACATGTTAGGGAGCTCAGCATGAAATCGAACAGTCAAGAGTTGGCTCTGATACCA
260 CCACATGTTAGGGAACTCAGCATGAAATCGAACAATCAAGAGTTGGCTCTGATACCA
* * * **
397271 CTTGTCATGAGGCCATTA-CTCTCTTCTTAAAAGACATGTTTGATAGGATGTGCAGTGCACCCGC
1 CTTGTCATGAGGCCATTACCT-TCTTCCTAAAAGACATGTCTGATAAGATGTGCAGCACACCCGC
* *
397335 TTATATGCCCAAAGATCTTCCCTTTCTTGTCTGATGTGAGATTAATGCATCCTGCCTACTTTTTT
65 TTATATGCCCAAAGATCTTTCCTTTCTTGTCTGATGTGAGATTAATGCACCCTGCCTACTTTTTT
397400 AGAGCGCTTGG
130 AGAGCGCTTGG
397411 ATGTCAAAAT
Statistics
Matches: 401, Mismatches: 49, Indels: 13
0.87 0.11 0.03
Matches are distributed among these distances:
315 5 0.01
316 370 0.92
317 26 0.06
ACGTcount: A:0.23, C:0.25, G:0.19, T:0.33
Consensus pattern (316 bp):
CTTGTCATGAGGCCATTACCTTCTTCCTAAAAGACATGTCTGATAAGATGTGCAGCACACCCGCT
TATATGCCCAAAGATCTTTCCTTTCTTGTCTGATGTGAGATTAATGCACCCTGCCTACTTTTTTA
GAGCGCTTGGCGTGACATTCTCCCCCACCCAATCTCGTGACACCTCTGTCACAAGCTTCTCCACT
ATTTTTGCTAACCCTGCCCTCAAAATATTTGATGTGGAAACACGGTTGGTCCACCCTACTTATCC
CACATGTTAGGGAACTCAGCATGAAATCGAACAATCAAGAGTTGGCTCTGATACCA
Found at i:403444 original size:52 final size:52
Alignment explanation
Indices: 403297--403424 Score: 238
Period size: 52 Copynumber: 2.5 Consensus size: 52
403287 GAAATATGAG
403297 AATTTGCCTGCATGTATCGATACATTTCATAGTGTATCGATACATCTAGGCA
1 AATTTGCCTGCATGTATCGATACATTTCATAGTGTATCGATACATCTAGGCA
* *
403349 AATTTGCCTGCATGTATCGATACATTTTATAGTGTATCGATACATCTGGGCA
1 AATTTGCCTGCATGTATCGATACATTTCATAGTGTATCGATACATCTAGGCA
403401 AATTTGCCTGCATGTATCGATACA
1 AATTTGCCTGCATGTATCGATACA
403425 AAGATCAGTG
Statistics
Matches: 74, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
52 74 1.00
ACGTcount: A:0.28, C:0.19, G:0.18, T:0.35
Consensus pattern (52 bp):
AATTTGCCTGCATGTATCGATACATTTCATAGTGTATCGATACATCTAGGCA
Found at i:403451 original size:13 final size:13
Alignment explanation
Indices: 403433--403457 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
403423 CAAAGATCAG
403433 TGTATCGATACAA
1 TGTATCGATACAA
403446 TGTATCGATACA
1 TGTATCGATACA
403458 TTTGAGTAAT
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.36, C:0.16, G:0.16, T:0.32
Consensus pattern (13 bp):
TGTATCGATACAA
Found at i:403524 original size:19 final size:18
Alignment explanation
Indices: 403500--403597 Score: 90
Period size: 19 Copynumber: 5.8 Consensus size: 18
403490 TAGCTTATAT
403500 TGTATCGATACAAAACTTA
1 TGTATCGATAC-AAACTTA
403519 TGTATCGATAC--A--T-
1 TGTATCGATACAAACTTA
403532 TGTATCGATACAACACTTA
1 TGTATCGATACAA-ACTTA
403551 TGTATCGATAC--A--T-
1 TGTATCGATACAAACTTA
403564 TGTATCGATACAACACTTTA
1 TGTATCGATACAA-AC-TTA
403584 TGTATCGATACAAA
1 TGTATCGATACAAA
403598 TCGTTGAAAT
Statistics
Matches: 66, Mismatches: 0, Indels: 26
0.72 0.00 0.28
Matches are distributed among these distances:
13 22 0.33
14 2 0.03
16 4 0.06
18 1 0.02
19 24 0.36
20 13 0.20
ACGTcount: A:0.37, C:0.17, G:0.12, T:0.34
Consensus pattern (18 bp):
TGTATCGATACAAACTTA
Found at i:403537 original size:13 final size:13
Alignment explanation
Indices: 403519--403575 Score: 60
Period size: 13 Copynumber: 3.9 Consensus size: 13
403509 ACAAAACTTA
403519 TGTATCGATACAT
1 TGTATCGATACAT
403532 TGTATCGATACAACACTT
1 TGTATCGAT---ACA--T
403550 ATGTATCGATACAT
1 -TGTATCGATACAT
403564 TGTATCGATACA
1 TGTATCGATACA
403576 ACACTTTATG
Statistics
Matches: 38, Mismatches: 0, Indels: 12
0.76 0.00 0.24
Matches are distributed among these distances:
13 21 0.55
14 1 0.03
16 6 0.16
18 1 0.03
19 9 0.24
ACGTcount: A:0.33, C:0.18, G:0.14, T:0.35
Consensus pattern (13 bp):
TGTATCGATACAT
Found at i:403538 original size:32 final size:32
Alignment explanation
Indices: 403498--403595 Score: 178
Period size: 32 Copynumber: 3.0 Consensus size: 32
403488 AGTAGCTTAT
*
403498 ATTGTATCGATACAAAACTTATGTATCGATAC
1 ATTGTATCGATACAACACTTATGTATCGATAC
403530 ATTGTATCGATACAACACTTATGTATCGATAC
1 ATTGTATCGATACAACACTTATGTATCGATAC
403562 ATTGTATCGATACAACACTTTATGTATCGATAC
1 ATTGTATCGATACAACAC-TTATGTATCGATAC
403595 A
1 A
403596 AATCGTTGAA
Statistics
Matches: 64, Mismatches: 1, Indels: 1
0.97 0.02 0.02
Matches are distributed among these distances:
32 49 0.77
33 15 0.23
ACGTcount: A:0.36, C:0.17, G:0.12, T:0.35
Consensus pattern (32 bp):
ATTGTATCGATACAACACTTATGTATCGATAC
Found at i:409685 original size:22 final size:22
Alignment explanation
Indices: 409653--409699 Score: 67
Period size: 22 Copynumber: 2.1 Consensus size: 22
409643 TTTTGCATGA
409653 TTTTAGAATAGTTCATGTTATC
1 TTTTAGAATAGTTCATGTTATC
* * *
409675 TTTTAGCATAGTTCATTTTTTC
1 TTTTAGAATAGTTCATGTTATC
409697 TTT
1 TTT
409700 GACAATTGAT
Statistics
Matches: 22, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
22 22 1.00
ACGTcount: A:0.21, C:0.11, G:0.11, T:0.57
Consensus pattern (22 bp):
TTTTAGAATAGTTCATGTTATC
Found at i:411234 original size:12 final size:13
Alignment explanation
Indices: 411217--411249 Score: 50
Period size: 13 Copynumber: 2.6 Consensus size: 13
411207 CTTTTTTAAT
411217 TTTTTAAAGT-TA
1 TTTTTAAAGTATA
*
411229 TTTTTAAATTATA
1 TTTTTAAAGTATA
411242 TTTTTAAA
1 TTTTTAAA
411250 AACTTATTTT
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
12 9 0.47
13 10 0.53
ACGTcount: A:0.36, C:0.00, G:0.03, T:0.61
Consensus pattern (13 bp):
TTTTTAAAGTATA
Found at i:411702 original size:2 final size:2
Alignment explanation
Indices: 411695--411727 Score: 66
Period size: 2 Copynumber: 16.5 Consensus size: 2
411685 AACAAACCTC
411695 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
411728 GTAAATACAA
Statistics
Matches: 31, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 31 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Found at i:413300 original size:32 final size:31
Alignment explanation
Indices: 413239--413300 Score: 88
Period size: 32 Copynumber: 2.0 Consensus size: 31
413229 ATATACAGGC
* *
413239 TTGACAAAAGTCAAACTGAATAGTAACTAAT
1 TTGACAAAAATCAAACTGAATAGGAACTAAT
*
413270 TTGACTAAAAATCAAACTGAATAGGGACTAA
1 TTGAC-AAAAATCAAACTGAATAGGAACTAA
413301 GCTAACTTCA
Statistics
Matches: 27, Mismatches: 3, Indels: 1
0.87 0.10 0.03
Matches are distributed among these distances:
31 5 0.19
32 22 0.81
ACGTcount: A:0.48, C:0.13, G:0.15, T:0.24
Consensus pattern (31 bp):
TTGACAAAAATCAAACTGAATAGGAACTAAT
Found at i:416966 original size:33 final size:32
Alignment explanation
Indices: 416903--416967 Score: 87
Period size: 33 Copynumber: 2.0 Consensus size: 32
416893 TTCTGTTCCC
*
416903 AATGGTAACTGACCATCCCCGTGCTTTTGGGT
1 AATGGTAACTGACCATCCCCATGCTTTTGGGT
*
416935 AATGGTAACTGATCCATCTCCATG-TTGTTGGGT
1 AATGGTAACTGA-CCATCCCCATGCTT-TTGGGT
416968 TTTAGAATGG
Statistics
Matches: 29, Mismatches: 2, Indels: 3
0.85 0.06 0.09
Matches are distributed among these distances:
32 14 0.48
33 15 0.52
ACGTcount: A:0.20, C:0.22, G:0.25, T:0.34
Consensus pattern (32 bp):
AATGGTAACTGACCATCCCCATGCTTTTGGGT
Found at i:417894 original size:4 final size:4
Alignment explanation
Indices: 417885--417910 Score: 52
Period size: 4 Copynumber: 6.5 Consensus size: 4
417875 ATTATTCTGC
417885 TTCT TTCT TTCT TTCT TTCT TTCT TT
1 TTCT TTCT TTCT TTCT TTCT TTCT TT
417911 TGTATTTCTG
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
4 22 1.00
ACGTcount: A:0.00, C:0.23, G:0.00, T:0.77
Consensus pattern (4 bp):
TTCT
Found at i:418353 original size:22 final size:22
Alignment explanation
Indices: 418327--418369 Score: 70
Period size: 22 Copynumber: 2.0 Consensus size: 22
418317 AAATTTAAAA
418327 ATATTTTTAT-ATTAATATTTAT
1 ATATTTTTATAATTAA-ATTTAT
418349 ATATTTTTATAATTAAATTTA
1 ATATTTTTATAATTAAATTTA
418370 AATAAAATAT
Statistics
Matches: 20, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
22 15 0.75
23 5 0.25
ACGTcount: A:0.40, C:0.00, G:0.00, T:0.60
Consensus pattern (22 bp):
ATATTTTTATAATTAAATTTAT
Found at i:424063 original size:15 final size:16
Alignment explanation
Indices: 424043--424074 Score: 57
Period size: 15 Copynumber: 2.1 Consensus size: 16
424033 AAAATATATC
424043 AATAAAAT-TTAAATA
1 AATAAAATATTAAATA
424058 AATAAAATATTAAATA
1 AATAAAATATTAAATA
424074 A
1 A
424075 TCAAACATGA
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
15 8 0.50
16 8 0.50
ACGTcount: A:0.69, C:0.00, G:0.00, T:0.31
Consensus pattern (16 bp):
AATAAAATATTAAATA
Found at i:425326 original size:30 final size:30
Alignment explanation
Indices: 425262--425405 Score: 116
Period size: 30 Copynumber: 4.8 Consensus size: 30
425252 CACATATCCT
* * *
425262 TTTAAGGTTAAATAAAATATCATAAATATC-
1 TTTAAGGCTAAATTAAATATCATATA-ATCA
**
425292 TTTAAGGCTAAATTAAATATCATATGCTCA
1 TTTAAGGCTAAATTAAATATCATATAATCA
* *
425322 TTTAAGGCTAAAATAAATAT-ATCACACACTCA
1 TTTAAGGCTAAATTAAATATCAT-ATA-A-TCA
* * **
425354 TTT-AGGCCAAA-TAAATATCACATAATGT
1 TTTAAGGCTAAATTAAATATCATATAATCA
*
425382 TTTAAGGCCAAATTAAATATCATA
1 TTTAAGGCTAAATTAAATATCATA
425406 CATCCATTCA
Statistics
Matches: 92, Mismatches: 15, Indels: 14
0.76 0.12 0.12
Matches are distributed among these distances:
28 4 0.04
29 13 0.14
30 61 0.66
31 8 0.09
32 6 0.07
ACGTcount: A:0.45, C:0.13, G:0.08, T:0.33
Consensus pattern (30 bp):
TTTAAGGCTAAATTAAATATCATATAATCA
Found at i:425541 original size:142 final size:144
Alignment explanation
Indices: 425382--425690 Score: 426
Period size: 142 Copynumber: 2.1 Consensus size: 144
425372 CACATAATGT
* *
425382 TTTAAGGCCAAATTAAATATCATACATCCATTCAATACTAAATTAAATCTAGTACACTCTTAAAG
1 TTTAAGGCCAAATTAAATATCATACATCCATTCAATACTAAATTAAATATAGCACACTCTT-AAG
* * ** *
425447 GTCAAATTAAATAT-TGC-CTTTTAGAGTCAAATTAAATATAACATA-TCCTTAGGGACAAATTC
65 GTCAAATTAAATATAAGCTCTTTTAGAGTCAAATTAAATATAACATACCCCTTAAAGACAAATTA
*
425509 AATATCACACATCTA
130 AATATCACACATCCA
* * * * *
425524 TTTAGGGCCACATTAAATATTATACATCCATTCAATGCTAAATTAAATATAGCACGCTCTTAAGG
1 TTTAAGGCCAAATTAAATATCATACATCCATTCAATACTAAATTAAATATAGCACACTCTTAAGG
* *
425589 TCAAATTAAATATAACAAGCTCTTTTAGAGTCAAATTATATATAGCATACCCCTTAAAGACAAAT
66 TCAAATTAAATAT---AAGCTCTTTTAGAGTCAAATTAAATATAACATACCCCTTAAAGACAAAT
425654 TAAATATCACACATCCA
128 TAAATATCACACATCCA
425671 TTTAAGGCCAAATTAAATAT
1 TTTAAGGCCAAATTAAATAT
425691 AGCACACTCT
Statistics
Matches: 144, Mismatches: 17, Indels: 7
0.86 0.10 0.04
Matches are distributed among these distances:
141 17 0.12
142 54 0.38
145 2 0.01
146 26 0.18
147 45 0.31
ACGTcount: A:0.42, C:0.18, G:0.08, T:0.32
Consensus pattern (144 bp):
TTTAAGGCCAAATTAAATATCATACATCCATTCAATACTAAATTAAATATAGCACACTCTTAAGG
TCAAATTAAATATAAGCTCTTTTAGAGTCAAATTAAATATAACATACCCCTTAAAGACAAATTAA
ATATCACACATCCA
Found at i:425712 original size:29 final size:29
Alignment explanation
Indices: 425563--425718 Score: 131
Period size: 30 Copynumber: 5.3 Consensus size: 29
425553 ATTCAATGCT
* *
425563 AAATTAAATATAGCACGCTC-TTAAGGTC
1 AAATTAAATATAGCACACTCTTTAAGGCC
* * *
425591 AAATTAAATATAACA-AGCTCTTTTAGAGTC
1 AAATTAAATATAGCACA-CTCTTTAAG-GCC
* * * * * *
425621 AAATTATATATAGCATACCCCTTAAAGAC
1 AAATTAAATATAGCACACTCTTTAAGGCC
425650 AAATTAAATAT--CACACATCCATTTAAGGCC
1 AAATTAAATATAGCACAC-T-C-TTTAAGGCC
*
425680 AAATTAAATATAGCACACTCTTTATGGCC
1 AAATTAAATATAGCACACTCTTTAAGGCC
425709 AAATTAAATA
1 AAATTAAATA
425719 ATTATCAATG
Statistics
Matches: 102, Mismatches: 17, Indels: 17
0.75 0.12 0.12
Matches are distributed among these distances:
27 4 0.04
28 17 0.17
29 35 0.34
30 39 0.38
31 2 0.02
32 5 0.05
ACGTcount: A:0.44, C:0.18, G:0.09, T:0.29
Consensus pattern (29 bp):
AAATTAAATATAGCACACTCTTTAAGGCC
Found at i:425712 original size:59 final size:58
Alignment explanation
Indices: 425474--425718 Score: 183
Period size: 59 Copynumber: 4.2 Consensus size: 58
425464 CTTTTAGAGT
* * * * * *
425474 CAAATTAAATATAACATATCC-TTAGGGACAAATTCAATATCA-CACATCTATTTAGGGC
1 CAAATTAAATATAACACATCCTTTAAGGCCAAATTAAATAT-AGCACA-CTCTTTAAGGC
* * * * * * * *
425532 CACATTAAATATTATACATCCATTCAATGCTAAATTAAATATAGCACGCTC-TTAAGGT
1 CAAATTAAATATAACACATCC-TTTAAGGCCAAATTAAATATAGCACACTCTTTAAGGC
* * * * * * * * *
425590 CAAATTAAATATAACA-AGCTCTTTTAGAGTCAAATTATATATAGCATACCCCTTAAAGA
1 CAAATTAAATATAACACATC-CTTTAAG-GCCAAATTAAATATAGCACACTCTTTAAGGC
* *
425649 CAAATTAAATATCACACATCCATTTAAGGCCAAATTAAATATAGCACACTCTTTATGGC
1 CAAATTAAATATAACACATCC-TTTAAGGCCAAATTAAATATAGCACACTCTTTAAGGC
425708 CAAATTAAATA
1 CAAATTAAATA
425719 ATTATCAATG
Statistics
Matches: 139, Mismatches: 40, Indels: 15
0.72 0.21 0.08
Matches are distributed among these distances:
57 5 0.04
58 53 0.38
59 58 0.42
60 23 0.17
ACGTcount: A:0.42, C:0.19, G:0.09, T:0.30
Consensus pattern (58 bp):
CAAATTAAATATAACACATCCTTTAAGGCCAAATTAAATATAGCACACTCTTTAAGGC
Found at i:425953 original size:139 final size:142
Alignment explanation
Indices: 425780--426063 Score: 362
Period size: 139 Copynumber: 2.0 Consensus size: 142
425770 TAACTTAATT
* * *
425780 ATATGCTAAGGACTTATTTTTAATATTATAAAAAAAAGTTAAATTCATAGTA-AACTTCTCCTTG
1 ATATGCTAAGAACTTATTCTTAATATTATAAAAAAAAGTTAAATTCATAGTAGAACTTCTCCTTA
* * ** *
425844 GCC-AAATCTTTCTCAAATGGTTCTCACCAT-AAAAA-AAAATCTAAT-ACTAAAAATAATATAT
66 ACCAAAATCTTCCTCAAATAATTCTAACCATAAAAAATAAAAT-TAATAAC-AAAAATAATATAT
*
425905 TTTATCTTCAAGAC
129 TATATCTTCAAGAC
* * *
425919 ATATGTTAAGAACTTATTCTTGATATTATAAAAAAAAGTTAAGTTCATAGTAGAACTTCTCCTTA
1 ATATGCTAAGAACTTATTCTTAATATTATAAAAAAAAGTTAAATTCATAGTAGAACTTCTCCTTA
** * **
425984 ACCAAAATCTTCCTTGAATAATTCTAACCATAAAAAATAAAATTGATAACAAAGCTAATATATTA
66 ACCAAAATCTTCCTCAAATAATTCTAACCATAAAAAATAAAATTAATAACAAAAATAATATATTA
426049 TATCTTCAAGAC
131 TATCTTCAAGAC
426061 ATA
1 ATA
426064 AGTTTTTTAT
Statistics
Matches: 123, Mismatches: 17, Indels: 7
0.84 0.12 0.05
Matches are distributed among these distances:
139 47 0.38
140 13 0.11
141 21 0.17
142 35 0.28
143 7 0.06
ACGTcount: A:0.44, C:0.14, G:0.07, T:0.35
Consensus pattern (142 bp):
ATATGCTAAGAACTTATTCTTAATATTATAAAAAAAAGTTAAATTCATAGTAGAACTTCTCCTTA
ACCAAAATCTTCCTCAAATAATTCTAACCATAAAAAATAAAATTAATAACAAAAATAATATATTA
TATCTTCAAGAC
Found at i:428766 original size:13 final size:13
Alignment explanation
Indices: 428748--428772 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
428738 CATAAGGTGT
428748 TGTATCGATACAA
1 TGTATCGATACAA
428761 TGTATCGATACA
1 TGTATCGATACA
428773 TAAGTTTTGT
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.36, C:0.16, G:0.16, T:0.32
Consensus pattern (13 bp):
TGTATCGATACAA
Found at i:428788 original size:32 final size:33
Alignment explanation
Indices: 428728--428793 Score: 116
Period size: 32 Copynumber: 2.0 Consensus size: 33
428718 TTCAACGATT
428728 TGTATCGATACATAAGGTGTTGTATCGATACAA
1 TGTATCGATACATAAGGTGTTGTATCGATACAA
*
428761 TGTATCGATACATAA-GTTTTGTATCGATACAA
1 TGTATCGATACATAAGGTGTTGTATCGATACAA
428793 T
1 T
428794 TTAAGCTACT
Statistics
Matches: 32, Mismatches: 1, Indels: 1
0.94 0.03 0.03
Matches are distributed among these distances:
32 17 0.53
33 15 0.47
ACGTcount: A:0.33, C:0.12, G:0.18, T:0.36
Consensus pattern (33 bp):
TGTATCGATACATAAGGTGTTGTATCGATACAA
Found at i:428912 original size:52 final size:52
Alignment explanation
Indices: 428867--428995 Score: 213
Period size: 52 Copynumber: 2.5 Consensus size: 52
428857 CACTGATCTT
428867 TGTATCGATACATGCAGGCAAATTTACCCAGATGTATCGATACACTATAAAA
1 TGTATCGATACATGCAGGCAAATTTACCCAGATGTATCGATACACTATAAAA
* * * *
428919 TGTATCGATACATGCAAGCAAATTTGCCCAGATGTATCGATACATTATGAAA
1 TGTATCGATACATGCAGGCAAATTTACCCAGATGTATCGATACACTATAAAA
*
428971 TGTATCGATACATGCAGGCGAATTT
1 TGTATCGATACATGCAGGCAAATTT
428996 TCATATTTCG
Statistics
Matches: 71, Mismatches: 6, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
52 71 1.00
ACGTcount: A:0.36, C:0.18, G:0.18, T:0.29
Consensus pattern (52 bp):
TGTATCGATACATGCAGGCAAATTTACCCAGATGTATCGATACACTATAAAA
Found at i:432918 original size:24 final size:24
Alignment explanation
Indices: 432891--432937 Score: 85
Period size: 24 Copynumber: 2.0 Consensus size: 24
432881 GCCAAGGCTG
*
432891 CCAAACATTAACTCCAGCCACCCA
1 CCAAACATTAACTCCAACCACCCA
432915 CCAAACATTAACTCCAACCACCC
1 CCAAACATTAACTCCAACCACCC
432938 TATCTTCTCC
Statistics
Matches: 22, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
24 22 1.00
ACGTcount: A:0.38, C:0.47, G:0.02, T:0.13
Consensus pattern (24 bp):
CCAAACATTAACTCCAACCACCCA
Found at i:437298 original size:10 final size:10
Alignment explanation
Indices: 437279--437337 Score: 57
Period size: 10 Copynumber: 5.7 Consensus size: 10
437269 ATCTCATTTT
437279 TCACTGTTCA
1 TCACTGTTCA
*
437289 TCACTATTCA
1 TCACTGTTCA
437299 TCACTGTTCA
1 TCACTGTTCA
**
437309 TCTA-TCGATAAA
1 TC-ACT-G-TTCA
437321 TCACTGTTCA
1 TCACTGTTCA
437331 TCACTGT
1 TCACTGT
437338 ACATTGAGCC
Statistics
Matches: 39, Mismatches: 6, Indels: 8
0.74 0.11 0.15
Matches are distributed among these distances:
10 30 0.77
11 4 0.10
12 5 0.13
ACGTcount: A:0.25, C:0.27, G:0.08, T:0.39
Consensus pattern (10 bp):
TCACTGTTCA
Found at i:437416 original size:22 final size:22
Alignment explanation
Indices: 437388--437430 Score: 86
Period size: 22 Copynumber: 2.0 Consensus size: 22
437378 ATTCATCACA
437388 GTATCGATACATCACTGTTCAT
1 GTATCGATACATCACTGTTCAT
437410 GTATCGATACATCACTGTTCA
1 GTATCGATACATCACTGTTCA
437431 CACTATTTAA
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
22 21 1.00
ACGTcount: A:0.28, C:0.23, G:0.14, T:0.35
Consensus pattern (22 bp):
GTATCGATACATCACTGTTCAT
Found at i:439637 original size:84 final size:84
Alignment explanation
Indices: 439464--439628 Score: 208
Period size: 84 Copynumber: 2.0 Consensus size: 84
439454 ACTCAAAGAA
* * * * * *
439464 GAAAATAAATCAATAAGTGTAGAGAATGATTTTCTTGAAAAGAAATTAAGTGAATTAGAGAAGAA
1 GAAAATAAATCAATAAGTGTAGAAAATAATTTTCTTAAAAAGAAAATAAATGAAATAGAGAAGAA
*
439529 TATGAAAGAGTTACAAAAT
66 TAAGAAAGAGTTACAAAAT
* * *
439548 GAAAATAAATCAATGAGTTTAGAAAATAATTCTT-TTAAAAAGAAAATAAATGAAATAGAGGAGA
1 GAAAATAAATCAATAAGTGTAGAAAATAATT-TTCTTAAAAAGAAAATAAATGAAATAGAGAAGA
439612 A-AAGAAATGAGTTACAA
65 ATAAGAAA-GAGTTACAA
439629 GTGGAAAATG
Statistics
Matches: 69, Mismatches: 10, Indels: 4
0.83 0.12 0.05
Matches are distributed among these distances:
83 5 0.07
84 62 0.90
85 2 0.03
ACGTcount: A:0.54, C:0.04, G:0.18, T:0.25
Consensus pattern (84 bp):
GAAAATAAATCAATAAGTGTAGAAAATAATTTTCTTAAAAAGAAAATAAATGAAATAGAGAAGAA
TAAGAAAGAGTTACAAAAT
Found at i:442717 original size:13 final size:13
Alignment explanation
Indices: 442699--442723 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
442689 CATAAAGTGT
442699 TGTATCGATACAA
1 TGTATCGATACAA
442712 TGTATCGATACA
1 TGTATCGATACA
442724 TTACTCAAAT
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.36, C:0.16, G:0.16, T:0.32
Consensus pattern (13 bp):
TGTATCGATACAA
Found at i:442822 original size:52 final size:52
Alignment explanation
Indices: 442766--442894 Score: 240
Period size: 52 Copynumber: 2.5 Consensus size: 52
442756 CACTGATCTT
*
442766 TGTATCGATACATGCAGGAAAATTTGCCCAGATGTATCGATACACTATAAAA
1 TGTATCGATACATGCAGGCAAATTTGCCCAGATGTATCGATACACTATAAAA
*
442818 TGTATCGATACATGCAGGCAAATTTGCCCAGATGTATCGATACACTATGAAA
1 TGTATCGATACATGCAGGCAAATTTGCCCAGATGTATCGATACACTATAAAA
442870 TGTATCGATACATGCAGGCAAATTT
1 TGTATCGATACATGCAGGCAAATTT
442895 TCATATTTCG
Statistics
Matches: 75, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
52 75 1.00
ACGTcount: A:0.36, C:0.18, G:0.19, T:0.28
Consensus pattern (52 bp):
TGTATCGATACATGCAGGCAAATTTGCCCAGATGTATCGATACACTATAAAA
Found at i:449844 original size:13 final size:13
Alignment explanation
Indices: 449799--449844 Score: 60
Period size: 12 Copynumber: 3.6 Consensus size: 13
449789 GTAAACACAC
449799 AAACAAAAGTCAA
1 AAACAAAAGTCAA
449812 AAA-AAAAGTCAA
1 AAACAAAAGTCAA
*
449824 AAAAAAAAG-CAA
1 AAACAAAAGTCAA
449836 AACACAAAA
1 AA-ACAAAA
449845 AAACAAAACA
Statistics
Matches: 30, Mismatches: 1, Indels: 4
0.86 0.03 0.11
Matches are distributed among these distances:
12 17 0.57
13 13 0.43
ACGTcount: A:0.76, C:0.13, G:0.07, T:0.04
Consensus pattern (13 bp):
AAACAAAAGTCAA
Found at i:449844 original size:15 final size:14
Alignment explanation
Indices: 449824--449859 Score: 54
Period size: 15 Copynumber: 2.4 Consensus size: 14
449814 AAAAAGTCAA
449824 AAAAAAAAGCAAAAC
1 AAAAAAAA-CAAAAC
449839 ACAAAAAAACAAAAC
1 A-AAAAAAACAAAAC
449854 AAAAAA
1 AAAAAA
449860 CAAGGACATG
Statistics
Matches: 20, Mismatches: 0, Indels: 3
0.87 0.00 0.13
Matches are distributed among these distances:
14 5 0.25
15 8 0.40
16 7 0.35
ACGTcount: A:0.83, C:0.14, G:0.03, T:0.00
Consensus pattern (14 bp):
AAAAAAAACAAAAC
Found at i:449862 original size:20 final size:19
Alignment explanation
Indices: 449821--449862 Score: 57
Period size: 20 Copynumber: 2.2 Consensus size: 19
449811 AAAAAAAAGT
* *
449821 CAAAAAAAAAAGCAAAACA
1 CAAAAAAAAAAACAAAAAA
449840 CAAAAAAACAAAACAAAAAA
1 CAAAAAAA-AAAACAAAAAA
449860 CAA
1 CAA
449863 GGACATGAAT
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
19 8 0.40
20 12 0.60
ACGTcount: A:0.81, C:0.17, G:0.02, T:0.00
Consensus pattern (19 bp):
CAAAAAAAAAAACAAAAAA
Found at i:451331 original size:27 final size:27
Alignment explanation
Indices: 451301--451410 Score: 114
Period size: 27 Copynumber: 3.8 Consensus size: 27
451291 TTTTTCCTTC
*
451301 TAAGTCCACAACTCCGTAGCACCCGTT
1 TAAGTCCACAACTCCGTGGCACCCGTT
* *
451328 TAAGCCCACAACTCCGTGGCACTCTTTTTCCTT
1 TAAGTCCACAACTCCGTGGCAC-C-----CGTT
451361 CTAAGTCCACAACTCCGTGGCACCCGTT
1 -TAAGTCCACAACTCCGTGGCACCCGTT
451389 TAA-TCCCACAACTCCGTGGCAC
1 TAAGT-CCACAACTCCGTGGCAC
451411 TCTTTTTTCC
Statistics
Matches: 70, Mismatches: 5, Indels: 16
0.77 0.05 0.18
Matches are distributed among these distances:
26 1 0.01
27 40 0.57
28 4 0.06
33 4 0.06
34 21 0.30
ACGTcount: A:0.23, C:0.38, G:0.15, T:0.25
Consensus pattern (27 bp):
TAAGTCCACAACTCCGTGGCACCCGTT
Found at i:451489 original size:66 final size:64
Alignment explanation
Indices: 451136--451677 Score: 509
Period size: 66 Copynumber: 8.3 Consensus size: 64
451126 ATCTCTTCTC
* * * * *
451136 AAAGTCCACAACCCCGTGGCAC-CTTGTTCCTTTTAAGTCCACGACTCCGTGGCACTTTTCCTTT
1 AAAGCCCACAACTCCGTGGCACTCTTTTTCCTTCTAAGTCCACAACTCCGTGGCACTTTT--TTT
*
451200 C
64 T
* * * * * *
451201 AAAGTCCACGACTCCGTGGCAC-CTTCTT--TTCAAAGCCCACAACTCTGTGGCATCTTTTTCCT
1 AAAGCCCACAACTCCGTGGCACTCTTTTTCCTTCTAAGTCCACAACTCCGTGGCA-C--TTT--T
451263 TTTT
61 TTTT
* ***
451267 AAAGCCCACAACTCCGTGGCACTCTTTTTCCTTCTAAGTCCACAACTCCGTAGCAC--CCGTTT
1 AAAGCCCACAACTCCGTGGCACTCTTTTTCCTTCTAAGTCCACAACTCCGTGGCACTTTTTTTT
***
451329 -AAGCCCACAACTCCGTGGCACTCTTTTTCCTTCTAAGTCCACAACTCCGTGGCAC--CCGTTT
1 AAAGCCCACAACTCCGTGGCACTCTTTTTCCTTCTAAGTCCACAACTCCGTGGCACTTTTTTTT
* * *
451390 -AATCCCACAACTCCGTGGCACTCTTTTTTCCTTTTAAGTCCACGACTCCGTGGCACTTTTTTTT
1 AAAGCCCACAACTCCGTGGCACTC-TTTTTCCTTCTAAGTCCACAACTCCGTGGCACTTTTTTTT
*
451454 CAAAGCCCACAACTCCGTGGCACTCTTTTTCCCTTTTAAAGTCCACAACTCCGTGGCACCTTGTT
1 -AAAGCCCACAACTCCGTGGCACTCTTTTT-CCTTCT-AAGTCCACAACTCCGTGGCA-CTT-TT
451519 CCTTTT
61 --TTTT
* * * * * *
451525 -AAGTCCACGACTCCGTGGCAC-CTTCTT--TTCAAAGCCCACAACTCCGCGGCACTCTTTTTTC
1 AAAGCCCACAACTCCGTGGCACTCTTTTTCCTTCTAAGTCCACAACTCCGTGGCA--C-TTTTT-
451586 CTTT
62 -TTT
* *
451590 TAAGTCCACAACTCCGTGGCACTCTTTTTCCTTCTAAGTCCACAACTCCGTGGCACCTTTTTTTT
1 AAAGCCCACAACTCCGTGGCACTCTTTTTCCTTCTAAGTCCACAACTCCGTGGCA-CTTTTTTTT
451655 AAAAGCCCACAACTCCGTGGCAC
1 -AAAGCCCACAACTCCGTGGCAC
451678 CTTCTTCTAA
Statistics
Matches: 405, Mismatches: 44, Indels: 55
0.80 0.09 0.11
Matches are distributed among these distances:
61 82 0.20
62 33 0.08
63 20 0.05
64 22 0.05
65 41 0.10
66 96 0.24
67 34 0.08
68 11 0.03
69 62 0.15
71 4 0.01
ACGTcount: A:0.20, C:0.35, G:0.14, T:0.32
Consensus pattern (64 bp):
AAAGCCCACAACTCCGTGGCACTCTTTTTCCTTCTAAGTCCACAACTCCGTGGCACTTTTTTTT
Found at i:451534 original size:100 final size:100
Alignment explanation
Indices: 451394--451677 Score: 462
Period size: 100 Copynumber: 2.8 Consensus size: 100
451384 CCGTTTAATC
451394 CCACAACTCCGTGGCACTCTTTTTTCCTTTTAAGTCCACGACTCCGTGGCACTTTTTTTTCAAAG
1 CCACAACTCCGTGGCACTC-TTTTTCCTTTTAAGTCCACGACTCCGTGGCACTTTTTTTTCAAAG
451459 CCCACAACTCCGTGGCACTCTTTTTCCCTTTTAAAGT
65 CCCACAACTCCGTGGCACTCTTTTTCCCTTTT-AAGT
* * *
451496 CCACAACTCCGTGGCAC-CTTGTTCCTTTTAAGTCCACGACTCCGTGGCACCTTCTTTTCAAAGC
1 CCACAACTCCGTGGCACTCTTTTTCCTTTTAAGTCCACGACTCCGTGGCACTTTTTTTTCAAAGC
* *
451560 CCACAACTCCGCGGCACTCTTTTTTCCTTTTAAGT
66 CCACAACTCCGTGGCACTCTTTTTCCCTTTTAAGT
* * *
451595 CCACAACTCCGTGGCACTCTTTTTCCTTCTAAGTCCACAACTCCGTGGCACCTTTTTTTTAAAAG
1 CCACAACTCCGTGGCACTCTTTTTCCTTTTAAGTCCACGACTCCGTGGCA-CTTTTTTTTCAAAG
451660 CCCACAACTCCGTGGCAC
65 CCCACAACTCCGTGGCAC
451678 CTTCTTCTAA
Statistics
Matches: 168, Mismatches: 12, Indels: 5
0.91 0.06 0.03
Matches are distributed among these distances:
99 21 0.12
100 101 0.60
101 29 0.17
102 17 0.10
ACGTcount: A:0.19, C:0.35, G:0.13, T:0.33
Consensus pattern (100 bp):
CCACAACTCCGTGGCACTCTTTTTCCTTTTAAGTCCACGACTCCGTGGCACTTTTTTTTCAAAGC
CCACAACTCCGTGGCACTCTTTTTCCCTTTTAAGT
Found at i:451723 original size:33 final size:33
Alignment explanation
Indices: 451662--452263 Score: 719
Period size: 33 Copynumber: 18.5 Consensus size: 33
451652 TTTAAAAGCC
* * * *
451662 CACAACTCCGTGGC-ACCTTCTTCTAAAGCCCA
1 CACAAGTCGGTGGCAACCTTTTTCCAAAGCCCA
451694 CACAAGTCGGTGGCAACCTTTTTCCAAAGCCCA
1 CACAAGTCGGTGGCAACCTTTTTCCAAAGCCCA
*
451727 CACAAGTCGGTGGCAACCCTTTT-CAAAGCCCA
1 CACAAGTCGGTGGCAACCTTTTTCCAAAGCCCA
* *
451759 CACAAGTCGGTGGCAACCTTTCTCTAAAGCCCA
1 CACAAGTCGGTGGCAACCTTTTTCCAAAGCCCA
* *
451792 CACAAGTTGGTGGCAATCC---CTCCAAAAGCCCA
1 CACAAGTCGGTGGCAA-CCTTTTTCC-AAAGCCCA
*
451824 CACAAGTCGGTGGCAACCCTTTT-CAAAGCCCA
1 CACAAGTCGGTGGCAACCTTTTTCCAAAGCCCA
451856 CACAAGTCGGTGGCAACCTTTTTCCAAAGCCCA
1 CACAAGTCGGTGGCAACCTTTTTCCAAAGCCCA
451889 CACAAGTCGGTGGCAACC-TTTT-CAAAGCCCA
1 CACAAGTCGGTGGCAACCTTTTTCCAAAGCCCA
* *
451920 CACAAGTCGGTGGCAACCTTCTTCTAAAGCCCA
1 CACAAGTCGGTGGCAACCTTTTTCCAAAGCCCA
* ** *
451953 CACAAGTTGGTGGCAATCC--CCTCTAAAGCCCA
1 CACAAGTCGGTGGCAA-CCTTTTTCCAAAGCCCA
*
451985 CGCAAGTCGGTGGCAACCTTTTTCCAAAGCCCA
1 CACAAGTCGGTGGCAACCTTTTTCCAAAGCCCA
* *
452018 CACAAGTCGGTGGCAACCCTTTTCTAAAGCCCA
1 CACAAGTCGGTGGCAACCTTTTTCCAAAGCCCA
* * *
452051 CACAAGTTGGTGGCAACC-CTTCCCAAAGCCCA
1 CACAAGTCGGTGGCAACCTTTTTCCAAAGCCCA
* * *
452083 CACAAGTCTGTGGCAACCCTTTTCTAAAGCCCA
1 CACAAGTCGGTGGCAACCTTTTTCCAAAGCCCA
* * * *
452116 CACAAGTTGGTGGCAACCCTTCT-CAAAGCCAA
1 CACAAGTCGGTGGCAACCTTTTTCCAAAGCCCA
* * * *
452148 CACAAGTTGGTGGTAACCTTCTTCTAAAGCCCA
1 CACAAGTCGGTGGCAACCTTTTTCCAAAGCCCA
* ** *
452181 CACAAGTTGGTGGCAATCC--CCTCTAAAGCCCA
1 CACAAGTCGGTGGCAA-CCTTTTTCCAAAGCCCA
* *
452213 CACAAGTCGGTGGCAACCTTTCTCTAAAGCCCA
1 CACAAGTCGGTGGCAACCTTTTTCCAAAGCCCA
452246 CACAAGTCGGTGGCAACC
1 CACAAGTCGGTGGCAACC
452264 CTTCTAAGCC
Statistics
Matches: 503, Mismatches: 49, Indels: 35
0.86 0.08 0.06
Matches are distributed among these distances:
31 36 0.07
32 208 0.41
33 252 0.50
34 7 0.01
ACGTcount: A:0.28, C:0.34, G:0.18, T:0.20
Consensus pattern (33 bp):
CACAAGTCGGTGGCAACCTTTTTCCAAAGCCCA
Found at i:451740 original size:65 final size:64
Alignment explanation
Indices: 451681--452275 Score: 788
Period size: 65 Copynumber: 9.2 Consensus size: 64
451671 GTGGCACCTT
*
451681 CTTCTAAAGCCCACACAAGTCGGTGGCAACCTTTTTCCAAAGCCCACACAAGTCGGTGGCAACC
1 CTTCTAAAGCCCACACAAGTCGGTGGCAACCTTTTTCTAAAGCCCACACAAGTCGGTGGCAACC
* * *
451745 CTTTTCAAAGCCCACACAAGTCGGTGGCAACCTTTCTCTAAAGCCCACACAAGTTGGTGGCAATC
1 CTTCT-AAAGCCCACACAAGTCGGTGGCAACCTTTTTCTAAAGCCCACACAAGTCGGTGGCAA-C
451810 C
64 C
* * *
451811 CTCCAAAAGCCCACACAAGTCGGTGGCAACCCTTTTC-AAAGCCCACACAAGTCGGTGGCAACC
1 CTTCTAAAGCCCACACAAGTCGGTGGCAACCTTTTTCTAAAGCCCACACAAGTCGGTGGCAACC
* *
451874 TTTTTCCAAAGCCCACACAAGTCGGTGGCAACC-TTTTC-AAAGCCCACACAAGTCGGTGGCAAC
1 --CTTCTAAAGCCCACACAAGTCGGTGGCAACCTTTTTCTAAAGCCCACACAAGTCGGTGGCAAC
451937 C
64 C
* ** *
451938 TTCTTCTAAAGCCCACACAAGTTGGTGGCAATCC--CCTCTAAAGCCCACGCAAGTCGGTGGCAA
1 --CTTCTAAAGCCCACACAAGTCGGTGGCAA-CCTTTTTCTAAAGCCCACACAAGTCGGTGGCAA
452001 CC
63 CC
* * * *
452003 TTTTTCCAAAGCCCACACAAGTCGGTGGCAACCCTTTTCTAAAGCCCACACAAGTTGGTGGCAAC
1 --CTTCTAAAGCCCACACAAGTCGGTGGCAACCTTTTTCTAAAGCCCACACAAGTCGGTGGCAAC
452068 C
64 C
* * * *
452069 CTTCCCAAAGCCCACACAAGTCTGTGGCAACCCTTTTCTAAAGCCCACACAAGTTGGTGGCAACC
1 CTT-CTAAAGCCCACACAAGTCGGTGGCAACCTTTTTCTAAAGCCCACACAAGTCGGTGGCAACC
* * * * *
452134 CTTCTCAAAGCCAACACAAGTTGGTGGTAACCTTCTTCTAAAGCCCACACAAGTTGGTGGCAATC
1 CTTCT-AAAGCCCACACAAGTCGGTGGCAACCTTTTTCTAAAGCCCACACAAGTCGGTGGCAA-C
452199 C
64 C
* *
452200 CCTCTAAAGCCCACACAAGTCGGTGGCAACCTTTCTCTAAAGCCCACACAAGTCGGTGGCAACC
1 CTTCTAAAGCCCACACAAGTCGGTGGCAACCTTTTTCTAAAGCCCACACAAGTCGGTGGCAACC
452264 CTTCT-AAGCCCA
1 CTTCTAAAGCCCA
452276 ATATAGCTGG
Statistics
Matches: 477, Mismatches: 43, Indels: 23
0.88 0.08 0.04
Matches are distributed among these distances:
63 9 0.02
64 99 0.21
65 332 0.70
66 37 0.08
ACGTcount: A:0.28, C:0.34, G:0.18, T:0.20
Consensus pattern (64 bp):
CTTCTAAAGCCCACACAAGTCGGTGGCAACCTTTTTCTAAAGCCCACACAAGTCGGTGGCAACC
Found at i:452326 original size:49 final size:49
Alignment explanation
Indices: 452268--452754 Score: 593
Period size: 49 Copynumber: 10.1 Consensus size: 49
452258 GCAACCCTTC
* * *
452268 TAAGCCCAATATAGCTGGCCTTGAATCAGCATATTGGCACCTTCATCTT
1 TAAGTCCAATATCGCTGGCCTTGAATCAGCACATTGGCACCTTCATCTT
* * * *
452317 TAAGTCCAATATAGCTAGCCTTGAATCAGCATATTGGCACCTTCTTCTT
1 TAAGTCCAATATCGCTGGCCTTGAATCAGCACATTGGCACCTTCATCTT
* *
452366 TAAGTCCAATGTAGCTGGCCTTGAATCAGCACATTGGCACC-T--TC--
1 TAAGTCCAATATCGCTGGCCTTGAATCAGCACATTGGCACCTTCATCTT
* *
452410 -AAGTCCAATATCGCTGGCCTTGAATCAGCATATTGGCACCTTTATCTT
1 TAAGTCCAATATCGCTGGCCTTGAATCAGCACATTGGCACCTTCATCTT
* *
452458 TAAGTCCAATGTAGCTGGCCTTGAATCAGCACATTGG------CATCTT
1 TAAGTCCAATATCGCTGGCCTTGAATCAGCACATTGGCACCTTCATCTT
*
452501 TAAGTCCAATGTCGCTGGCCTTGAATCAGCACATTGGCACCTTCATCTT
1 TAAGTCCAATATCGCTGGCCTTGAATCAGCACATTGGCACCTTCATCTT
* * * *
452550 TAAGTCTAATATCGCTGGCCTTGAATCAGCATATTGGCGTCTTTGTCATCTT
1 TAAGTCCAATATCGCTGGCCTTGAATCAGCACATTGGC-AC-CT-TCATCTT
* *
452602 TAAGTCCAATGTCGCTGGCCTTGAATCAACACATTGGCACCTTCATCTT
1 TAAGTCCAATATCGCTGGCCTTGAATCAGCACATTGGCACCTTCATCTT
* ** *
452651 TAAGTCCAATATCGCTGGCCTTGAATCAGCATATTGGTGTCTTTGTCATCTT
1 TAAGTCCAATATCGCTGGCCTTGAATCAGCACATTGG-CAC-CT-TCATCTT
* * *
452703 TAAGTCCAATGTCGCTGGCCTTGAATCAGCACATTGGCGCCTTTATCTT
1 TAAGTCCAATATCGCTGGCCTTGAATCAGCACATTGGCACCTTCATCTT
452752 TAA
1 TAA
452755 CATTCCTAAG
Statistics
Matches: 383, Mismatches: 37, Indels: 36
0.84 0.08 0.08
Matches are distributed among these distances:
43 78 0.20
44 1 0.00
46 4 0.01
48 1 0.00
49 208 0.54
50 4 0.01
51 4 0.01
52 83 0.22
ACGTcount: A:0.24, C:0.25, G:0.18, T:0.33
Consensus pattern (49 bp):
TAAGTCCAATATCGCTGGCCTTGAATCAGCACATTGGCACCTTCATCTT
Found at i:452458 original size:92 final size:94
Alignment explanation
Indices: 452268--452754 Score: 563
Period size: 92 Copynumber: 5.0 Consensus size: 94
452258 GCAACCCTTC
* * * *
452268 TAAGCCCAATATAGCTGGCCTTGAATCAGCATATTG-GCACCTTCATCTTTAAGTCCAATATAGC
1 TAAGTCCAATATAGCTGGCCTTGAATCAGCACATTGTG-----TCATCTTTAAGTCCAATGTCGC
* *
452332 TAGCCTTGAATCAGCATATTGGCACCTTCT-TCTT
61 TGGCCTTGAATCAGCACATTGGCACCTT-TATCTT
* * * *
452366 TAAGTCCAATGTAGCTGGCCTTGAATCAGCACATTG-G-CACCTTCAAGTCCAATATCGCTGGCC
1 TAAGTCCAATATAGCTGGCCTTGAATCAGCACATTGTGTCATCTTTAAGTCCAATGTCGCTGGCC
*
452429 TTGAATCAGCATATTGGCACCTTTATCTT
66 TTGAATCAGCACATTGGCACCTTTATCTT
*
452458 TAAGTCCAATGTAGCTGGCCTTGAATCAGCACATTG-G-CATCTTTAAGTCCAATGTCGCTGGCC
1 TAAGTCCAATATAGCTGGCCTTGAATCAGCACATTGTGTCATCTTTAAGTCCAATGTCGCTGGCC
*
452521 TTGAATCAGCACATTGGCACCTTCATCTT
66 TTGAATCAGCACATTGGCACCTTTATCTT
* * *
452550 TAAGTCTAATATCGCTGGCCTTGAATCAGCATATTGGCGTCTTTGTCATCTTTAAGTCCAATGTC
1 TAAGTCCAATATAGCTGGCCTTGAATCAGCACATT---G----TGTCATCTTTAAGTCCAATGTC
* *
452615 GCTGGCCTTGAATCAACACATTGGCACCTTCATCTT
59 GCTGGCCTTGAATCAGCACATTGGCACCTTTATCTT
* *
452651 TAAGTCCAATATCGCTGGCCTTGAATCAGCATATTGGTGTCTTTGTCATCTTTAAGTCCAATGTC
1 TAAGTCCAATATAGCTGGCCTTGAATCAGCACA-T--TG----TGTCATCTTTAAGTCCAATGTC
*
452716 GCTGGCCTTGAATCAGCACATTGGCGCCTTTATCTT
59 GCTGGCCTTGAATCAGCACATTGGCACCTTTATCTT
452752 TAA
1 TAA
452755 CATTCCTAAG
Statistics
Matches: 355, Mismatches: 21, Indels: 23
0.89 0.05 0.06
Matches are distributed among these distances:
91 1 0.00
92 167 0.47
95 1 0.00
98 34 0.10
100 1 0.00
101 149 0.42
102 1 0.00
104 1 0.00
ACGTcount: A:0.24, C:0.25, G:0.18, T:0.33
Consensus pattern (94 bp):
TAAGTCCAATATAGCTGGCCTTGAATCAGCACATTGTGTCATCTTTAAGTCCAATGTCGCTGGCC
TTGAATCAGCACATTGGCACCTTTATCTT
Found at i:452670 original size:101 final size:101
Alignment explanation
Indices: 452495--452754 Score: 475
Period size: 101 Copynumber: 2.6 Consensus size: 101
452485 AGCACATTGG
*
452495 CATCTTTAAGTCCAATGTCGCTGGCCTTGAATCAGCACATTGGCACCTTCATCTTTAAGTCTAAT
1 CATCTTTAAGTCCAATGTCGCTGGCCTTGAATCAGCACATTGGCACCTTCATCTTTAAGTCCAAT
452560 ATCGCTGGCCTTGAATCAGCATATTGGCGTCTTTGT
66 ATCGCTGGCCTTGAATCAGCATATTGGCGTCTTTGT
*
452596 CATCTTTAAGTCCAATGTCGCTGGCCTTGAATCAACACATTGGCACCTTCATCTTTAAGTCCAAT
1 CATCTTTAAGTCCAATGTCGCTGGCCTTGAATCAGCACATTGGCACCTTCATCTTTAAGTCCAAT
*
452661 ATCGCTGGCCTTGAATCAGCATATTGGTGTCTTTGT
66 ATCGCTGGCCTTGAATCAGCATATTGGCGTCTTTGT
* *
452697 CATCTTTAAGTCCAATGTCGCTGGCCTTGAATCAGCACATTGGCGCCTTTATCTTTAA
1 CATCTTTAAGTCCAATGTCGCTGGCCTTGAATCAGCACATTGGCACCTTCATCTTTAA
452755 CATTCCTAAG
Statistics
Matches: 153, Mismatches: 6, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
101 153 1.00
ACGTcount: A:0.22, C:0.25, G:0.18, T:0.35
Consensus pattern (101 bp):
CATCTTTAAGTCCAATGTCGCTGGCCTTGAATCAGCACATTGGCACCTTCATCTTTAAGTCCAAT
ATCGCTGGCCTTGAATCAGCATATTGGCGTCTTTGT
Found at i:453567 original size:52 final size:52
Alignment explanation
Indices: 453511--453639 Score: 240
Period size: 52 Copynumber: 2.5 Consensus size: 52
453501 CATAAAGTGT
*
453511 TGTATCGATACATGCAGGCAAATTTGCCCAGATGTATCGATACATTATAAAA
1 TGTATCGATACATGCAGGCAAATTTGCCCAGATGTATCGATACACTATAAAA
*
453563 TGTATCGATACATGCAGGCAAATTTGCCCAGATGTATCGATACACTATGAAA
1 TGTATCGATACATGCAGGCAAATTTGCCCAGATGTATCGATACACTATAAAA
453615 TGTATCGATACATGCAGGCAAATTT
1 TGTATCGATACATGCAGGCAAATTT
453640 TCATATTTCG
Statistics
Matches: 75, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
52 75 1.00
ACGTcount: A:0.35, C:0.18, G:0.19, T:0.29
Consensus pattern (52 bp):
TGTATCGATACATGCAGGCAAATTTGCCCAGATGTATCGATACACTATAAAA
Found at i:456854 original size:21 final size:21
Alignment explanation
Indices: 456830--456873 Score: 54
Period size: 21 Copynumber: 2.1 Consensus size: 21
456820 TTTTTCTAAG
*
456830 TAAAAATACGTGTT-GTATCAA
1 TAAAAATAC-TATTGGTATCAA
*
456851 TAAATATACTATTGGTATCAA
1 TAAAAATACTATTGGTATCAA
456872 TA
1 TA
456874 CACAAGGTTG
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
20 3 0.15
21 17 0.85
ACGTcount: A:0.43, C:0.09, G:0.11, T:0.36
Consensus pattern (21 bp):
TAAAAATACTATTGGTATCAA
Found at i:456974 original size:13 final size:13
Alignment explanation
Indices: 456956--456980 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
456946 ATTTTGCTAA
456956 GTATCGATACATT
1 GTATCGATACATT
456969 GTATCGATACAT
1 GTATCGATACAT
456981 AGCATTGGCA
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.32, C:0.16, G:0.16, T:0.36
Consensus pattern (13 bp):
GTATCGATACATT
Found at i:457445 original size:34 final size:35
Alignment explanation
Indices: 457382--457448 Score: 102
Period size: 37 Copynumber: 1.9 Consensus size: 35
457372 TTAAGTGATT
457382 GAGAGGTTCTATCTTAGCCTTTGAAAAAGATAGAGA
1 GAGAGGTTCTATCTTAGCCTTTG-AAAAGATAGAGA
457418 GAGAGGTTTCTATCTTAGCC-TTG-AAAGATAG
1 GAGAGG-TTCTATCTTAGCCTTTGAAAAGATAG
457449 TGTTGTAAAG
Statistics
Matches: 30, Mismatches: 0, Indels: 4
0.88 0.00 0.12
Matches are distributed among these distances:
34 8 0.27
36 9 0.30
37 13 0.43
ACGTcount: A:0.33, C:0.12, G:0.25, T:0.30
Consensus pattern (35 bp):
GAGAGGTTCTATCTTAGCCTTTGAAAAGATAGAGA
Found at i:458481 original size:183 final size:183
Alignment explanation
Indices: 458173--458529 Score: 689
Period size: 183 Copynumber: 2.0 Consensus size: 183
458163 TTCTAGAGAA
458173 GATAGACAAATTGGAGTTGAAGGTGGTGAAGAAGAACCATGATCACCATCAGAAGTTTCATCAAC
1 GATAGACAAATTGGAGTTGAAGGTGGTGAAGAAGAACCATGATCACCATCAGAAGTTTCATCAAC
*
458238 TGGAAATTCAGCATTGAAATCTTGGTTAATTGTTGAATAGCTTTTTGGTTTCCAACCATGCCATG
66 TGGAAATTCAGCATTGAAATCTTGGTTAATTATTGAATAGCTTTTTGGTTTCCAACCATGCCATG
458303 CTTCAAATGGTGTTTGATGGTGT-AGTGTTGTTGTTGGGCTTCGAATGGTGTTT
131 CTTCAAATGGTGTTTGATGGTGTAAG-GTTGTTGTTGGGCTTCGAATGGTGTTT
458356 GATAGACAAATTGGAGTTGAAGGTGGTGAAGAAGAACCATGATCACCATCAGAAGTTTCATCAAC
1 GATAGACAAATTGGAGTTGAAGGTGGTGAAGAAGAACCATGATCACCATCAGAAGTTTCATCAAC
458421 TGGAAATTCAGCATTGAAATCTTGGTTAATTATTGAATAGCTTTTTGGTTTCCAACCATGCCATG
66 TGGAAATTCAGCATTGAAATCTTGGTTAATTATTGAATAGCTTTTTGGTTTCCAACCATGCCATG
458486 CTTCAAATGGTGTTTGATGGTGTAAGGTTGTTGTTGGGCTTCGA
131 CTTCAAATGGTGTTTGATGGTGTAAGGTTGTTGTTGGGCTTCGA
458530 TTTAGAACAT
Statistics
Matches: 172, Mismatches: 1, Indels: 2
0.98 0.01 0.01
Matches are distributed among these distances:
183 170 0.99
184 2 0.01
ACGTcount: A:0.28, C:0.13, G:0.25, T:0.34
Consensus pattern (183 bp):
GATAGACAAATTGGAGTTGAAGGTGGTGAAGAAGAACCATGATCACCATCAGAAGTTTCATCAAC
TGGAAATTCAGCATTGAAATCTTGGTTAATTATTGAATAGCTTTTTGGTTTCCAACCATGCCATG
CTTCAAATGGTGTTTGATGGTGTAAGGTTGTTGTTGGGCTTCGAATGGTGTTT
Found at i:459628 original size:24 final size:24
Alignment explanation
Indices: 459601--459655 Score: 101
Period size: 24 Copynumber: 2.3 Consensus size: 24
459591 ACAAACTTAG
459601 CATGCTTACCAAGTTTTTTCTCAT
1 CATGCTTACCAAGTTTTTTCTCAT
*
459625 CATGCTTACCAAGTTTTTTCTTAT
1 CATGCTTACCAAGTTTTTTCTCAT
459649 CATGCTT
1 CATGCTT
459656 TTCCTTCAAC
Statistics
Matches: 30, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
24 30 1.00
ACGTcount: A:0.20, C:0.24, G:0.09, T:0.47
Consensus pattern (24 bp):
CATGCTTACCAAGTTTTTTCTCAT
Found at i:461436 original size:19 final size:20
Alignment explanation
Indices: 461404--461441 Score: 51
Period size: 19 Copynumber: 1.9 Consensus size: 20
461394 AGACGTGAGC
*
461404 TTGTTTCTTCAA-TTGTTCA
1 TTGTTGCTTCAATTTGTTCA
*
461423 TTGTTGCTTTAATTTGTTC
1 TTGTTGCTTCAATTTGTTC
461442 CTCTCCATTT
Statistics
Matches: 16, Mismatches: 2, Indels: 1
0.84 0.11 0.05
Matches are distributed among these distances:
19 10 0.62
20 6 0.38
ACGTcount: A:0.13, C:0.13, G:0.13, T:0.61
Consensus pattern (20 bp):
TTGTTGCTTCAATTTGTTCA
Found at i:461678 original size:15 final size:15
Alignment explanation
Indices: 461660--461697 Score: 51
Period size: 14 Copynumber: 2.6 Consensus size: 15
461650 ATAAGTTTTA
461660 TTAAAAATAAAAAAT
1 TTAAAAATAAAAAAT
* *
461675 TTAAAAAT-TATAAT
1 TTAAAAATAAAAAAT
461689 TTAAAAATA
1 TTAAAAATA
461698 TAATGAACAT
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
14 12 0.60
15 8 0.40
ACGTcount: A:0.66, C:0.00, G:0.00, T:0.34
Consensus pattern (15 bp):
TTAAAAATAAAAAAT
Found at i:461699 original size:13 final size:14
Alignment explanation
Indices: 461672--461701 Score: 53
Period size: 14 Copynumber: 2.2 Consensus size: 14
461662 AAAAATAAAA
461672 AATTTAAAAATTAT
1 AATTTAAAAATTAT
461686 AATTTAAAAA-TAT
1 AATTTAAAAATTAT
461699 AAT
1 AAT
461702 GAACATTAAT
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
13 6 0.38
14 10 0.62
ACGTcount: A:0.60, C:0.00, G:0.00, T:0.40
Consensus pattern (14 bp):
AATTTAAAAATTAT
Found at i:464240 original size:21 final size:21
Alignment explanation
Indices: 464210--464251 Score: 57
Period size: 21 Copynumber: 2.0 Consensus size: 21
464200 GAGGCAGTAA
* *
464210 GGAAGTTTAAATTGCAATTGT
1 GGAAGCTTAAAGTGCAATTGT
*
464231 GGAAGCTTAAAGTGTAATTGT
1 GGAAGCTTAAAGTGCAATTGT
464252 AAATACGTTT
Statistics
Matches: 18, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
21 18 1.00
ACGTcount: A:0.33, C:0.05, G:0.26, T:0.36
Consensus pattern (21 bp):
GGAAGCTTAAAGTGCAATTGT
Found at i:467384 original size:19 final size:19
Alignment explanation
Indices: 467360--467404 Score: 54
Period size: 19 Copynumber: 2.4 Consensus size: 19
467350 AATATAATAC
* *
467360 TTATATTAAATATATTATT
1 TTATATTAAATACATTAAT
* *
467379 TTATATTTATTACATTAAT
1 TTATATTAAATACATTAAT
467398 TTATATT
1 TTATATT
467405 TATTAAACAT
Statistics
Matches: 22, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
19 22 1.00
ACGTcount: A:0.38, C:0.02, G:0.00, T:0.60
Consensus pattern (19 bp):
TTATATTAAATACATTAAT
Found at i:467405 original size:19 final size:19
Alignment explanation
Indices: 467373--467409 Score: 65
Period size: 19 Copynumber: 1.9 Consensus size: 19
467363 TATTAAATAT
*
467373 ATTATTTTATATTTATTAC
1 ATTAATTTATATTTATTAC
467392 ATTAATTTATATTTATTA
1 ATTAATTTATATTTATTA
467410 AACATGTAAT
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
19 17 1.00
ACGTcount: A:0.35, C:0.03, G:0.00, T:0.62
Consensus pattern (19 bp):
ATTAATTTATATTTATTAC
Found at i:467600 original size:24 final size:24
Alignment explanation
Indices: 467573--467654 Score: 67
Period size: 24 Copynumber: 3.2 Consensus size: 24
467563 ATATGATATG
467573 AATATGATATAAAAAAATAATTAA
1 AATATGATATAAAAAAATAATTAA
*
467597 AATATGATAAAAATATAAATATATTTTAA
1 AATATGATATAAA-A-AAATA-A--TTAA
* * *
467626 AAT-TTATATAATATAAATTATTAA
1 AATATGATATAA-AAAAATAATTAA
467650 AATAT
1 AATAT
467655 AAAAATTTAT
Statistics
Matches: 46, Mismatches: 5, Indels: 13
0.72 0.08 0.20
Matches are distributed among these distances:
24 19 0.41
25 2 0.04
26 6 0.13
27 5 0.11
28 6 0.13
29 8 0.17
ACGTcount: A:0.60, C:0.00, G:0.02, T:0.38
Consensus pattern (24 bp):
AATATGATATAAAAAAATAATTAA
Found at i:467620 original size:8 final size:8
Alignment explanation
Indices: 467596--467708 Score: 52
Period size: 8 Copynumber: 12.9 Consensus size: 8
467586 AAAATAATTA
467596 AAATATGAT
1 AAATAT-AT
*
467605 AAAAATAT
1 AAATATAT
467613 AAATATATTTT
1 AAATATA---T
*
467624 AAA-ATTT
1 AAATATAT
*
467631 ATATAATAT
1 AAAT-ATAT
467640 AAAT-TATT
1 AAATATA-T
*
467648 AAAATATAA
1 -AAATATAT
467657 AAATTTATAT
1 AAA--TATAT
467667 AAATATA-
1 AAATATAT
467674 AAATATAATT
1 AAATAT-A-T
467684 ATAATATAAT
1 A-AATAT-AT
467694 AAATATAT
1 AAATATAT
467702 AAATATA
1 AAATATA
467709 ATACAGATAG
Statistics
Matches: 82, Mismatches: 8, Indels: 29
0.69 0.07 0.24
Matches are distributed among these distances:
7 11 0.13
8 26 0.32
9 20 0.24
10 14 0.17
11 11 0.13
ACGTcount: A:0.60, C:0.00, G:0.01, T:0.39
Consensus pattern (8 bp):
AAATATAT
Found at i:467627 original size:18 final size:18
Alignment explanation
Indices: 467606--467701 Score: 61
Period size: 20 Copynumber: 4.8 Consensus size: 18
467596 AAATATGATA
467606 AAAATATAAATATATTTT
1 AAAATATAAATATATTTT
467624 AAAATTTATATAATATAAATTATT
1 AAAA--TATA-AATAT--ATT-TT
467648 AAAATATAAA-A-ATTTAT
1 AAAATATAAATATATTT-T
*
467665 ATAAATATAAAATATAATTAT
1 A-AAATAT-AAATAT-ATTTT
*
467686 AATATAATAAATATAT
1 AAAAT-ATAAATATAT
467702 AAATATAATA
Statistics
Matches: 63, Mismatches: 2, Indels: 25
0.70 0.02 0.28
Matches are distributed among these distances:
16 1 0.02
17 5 0.08
18 10 0.16
19 5 0.08
20 15 0.24
21 11 0.17
22 7 0.11
23 3 0.05
24 6 0.10
ACGTcount: A:0.59, C:0.00, G:0.00, T:0.41
Consensus pattern (18 bp):
AAAATATAAATATATTTT
Found at i:467701 original size:22 final size:20
Alignment explanation
Indices: 467630--467711 Score: 69
Period size: 22 Copynumber: 4.0 Consensus size: 20
467620 TTTTAAAATT
* *
467630 TATATAATATAAATTATTAAAA
1 TATAAAATATAAA-TA-TAATA
**
467652 TATAAAA-ATTTATATAA-A
1 TATAAAATATAAATATAATA
*
467670 TATAAAATATAATTATAATA
1 TATAAAATATAAATATAATA
467690 TAATAAATATATAAATATAATA
1 T-ATAAA-ATATAAATATAATA
467712 CAGATAGTAA
Statistics
Matches: 49, Mismatches: 7, Indels: 8
0.77 0.11 0.12
Matches are distributed among these distances:
18 8 0.16
19 10 0.20
20 4 0.08
21 8 0.16
22 19 0.39
ACGTcount: A:0.61, C:0.00, G:0.00, T:0.39
Consensus pattern (20 bp):
TATAAAATATAAATATAATA
Found at i:469168 original size:16 final size:16
Alignment explanation
Indices: 469129--469186 Score: 53
Period size: 16 Copynumber: 3.6 Consensus size: 16
469119 TTCTGAATTA
* * *
469129 ATTTCAAATTTAAGTC
1 ATTTTAAATTAAAATC
* *
469145 ATTATAAATTAAAATT
1 ATTTTAAATTAAAATC
* *
469161 ATTTTAAATTCAGATC
1 ATTTTAAATTAAAATC
469177 ATTTTAAATT
1 ATTTTAAATT
469187 TATGTCACTT
Statistics
Matches: 33, Mismatches: 9, Indels: 0
0.79 0.21 0.00
Matches are distributed among these distances:
16 33 1.00
ACGTcount: A:0.43, C:0.07, G:0.03, T:0.47
Consensus pattern (16 bp):
ATTTTAAATTAAAATC
Found at i:481293 original size:21 final size:23
Alignment explanation
Indices: 481264--481314 Score: 70
Period size: 24 Copynumber: 2.3 Consensus size: 23
481254 TACATATTAT
481264 ATAAATAAT-TAA-ATTTTAAAA
1 ATAAATAATATAACATTTTAAAA
*
481285 ATAATTAATATAACTATTTTAAAA
1 ATAAATAATATAAC-ATTTTAAAA
481309 ATAAAT
1 ATAAAT
481315 TTATAGTTAA
Statistics
Matches: 25, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
21 8 0.32
22 3 0.12
24 14 0.56
ACGTcount: A:0.59, C:0.02, G:0.00, T:0.39
Consensus pattern (23 bp):
ATAAATAATATAACATTTTAAAA
Found at i:482380 original size:92 final size:92
Alignment explanation
Indices: 482223--482407 Score: 325
Period size: 92 Copynumber: 2.0 Consensus size: 92
482213 AAACAGAAAG
*
482223 AAACAATTGCAAAAGTCAAAAGAACACATGCTCAAATTGTAAAAAGGAAAACTTTAATGTCCTTG
1 AAACAATTGCAAAAGTCAAAAGAACACATGCTCAAATTGCAAAAAGGAAAACTTTAATGTCCTTG
482288 GTGCAACGTGCAAGAATATATATATAT
66 GTGCAACGTGCAAGAATATATATATAT
* *
482315 AAACAATTGCAAAAGTCAAAAGAACATATGTTCAAATTGCAAAAAGGAAAACTTTAATGTCCTTG
1 AAACAATTGCAAAAGTCAAAAGAACACATGCTCAAATTGCAAAAAGGAAAACTTTAATGTCCTTG
* *
482380 GTGCAATGTGCAAGAATATATATTTAT
66 GTGCAACGTGCAAGAATATATATATAT
482407 A
1 A
482408 TATTTGATGT
Statistics
Matches: 88, Mismatches: 5, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
92 88 1.00
ACGTcount: A:0.45, C:0.13, G:0.15, T:0.26
Consensus pattern (92 bp):
AAACAATTGCAAAAGTCAAAAGAACACATGCTCAAATTGCAAAAAGGAAAACTTTAATGTCCTTG
GTGCAACGTGCAAGAATATATATATAT
Found at i:482434 original size:43 final size:43
Alignment explanation
Indices: 482371--482453 Score: 148
Period size: 43 Copynumber: 1.9 Consensus size: 43
482361 GAAAACTTTA
* *
482371 ATGTCCTTGGTGCAATGTGCAAGAATATATATTTATATATTTG
1 ATGTCCTTGGTGCAACGTGCAAGAATATATATATATATATTTG
482414 ATGTCCTTGGTGCAACGTGCAAGAATATATATATATATAT
1 ATGTCCTTGGTGCAACGTGCAAGAATATATATATATATAT
482454 ATATATATAT
Statistics
Matches: 38, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
43 38 1.00
ACGTcount: A:0.33, C:0.11, G:0.18, T:0.39
Consensus pattern (43 bp):
ATGTCCTTGGTGCAACGTGCAAGAATATATATATATATATTTG
Found at i:482445 original size:2 final size:2
Alignment explanation
Indices: 482438--482471 Score: 68
Period size: 2 Copynumber: 17.0 Consensus size: 2
482428 ACGTGCAAGA
482438 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
482472 TTATCTGAAA
Statistics
Matches: 32, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 32 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:487415 original size:26 final size:25
Alignment explanation
Indices: 487368--487416 Score: 62
Period size: 26 Copynumber: 1.9 Consensus size: 25
487358 ATTGGTAAGC
487368 TTTTATTAATTTGAGTTGTGTTTGA
1 TTTTATTAATTTGAGTTGTGTTTGA
* * *
487393 TTTTATATACTTTGATTTTTGTTT
1 TTTTAT-TAATTTGAGTTGTGTTT
487417 TTTGTTGGGA
Statistics
Matches: 20, Mismatches: 3, Indels: 1
0.83 0.12 0.04
Matches are distributed among these distances:
25 6 0.30
26 14 0.70
ACGTcount: A:0.18, C:0.02, G:0.14, T:0.65
Consensus pattern (25 bp):
TTTTATTAATTTGAGTTGTGTTTGA
Found at i:489183 original size:20 final size:20
Alignment explanation
Indices: 489141--489214 Score: 69
Period size: 21 Copynumber: 3.6 Consensus size: 20
489131 TTCTATAATT
*
489141 TGTATCGATACAATAAATGAA
1 TGTATCGATAC-ATAGATGAA
*
489162 TGTATCGATACATAGGTGAA
1 TGTATCGATACATAGATGAA
* * *
489182 TGTATTGATATAT-GTTTGAAA
1 TGTATCGATACATAG-ATG-AA
489203 TGTATCGATACA
1 TGTATCGATACA
489215 GGATCAAGTC
Statistics
Matches: 44, Mismatches: 7, Indels: 4
0.80 0.13 0.07
Matches are distributed among these distances:
19 1 0.02
20 20 0.45
21 23 0.52
ACGTcount: A:0.38, C:0.08, G:0.19, T:0.35
Consensus pattern (20 bp):
TGTATCGATACATAGATGAA
Found at i:492348 original size:2 final size:2
Alignment explanation
Indices: 492341--492377 Score: 56
Period size: 2 Copynumber: 18.5 Consensus size: 2
492331 GATTTTTAAA
* *
492341 AT AT AT AT AT AT AC AT AT AT AT AT AT AT AT AC AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
492378 AATAAAATAA
Statistics
Matches: 31, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
2 31 1.00
ACGTcount: A:0.51, C:0.05, G:0.00, T:0.43
Consensus pattern (2 bp):
AT
Found at i:492762 original size:9 final size:9
Alignment explanation
Indices: 492748--492777 Score: 51
Period size: 9 Copynumber: 3.2 Consensus size: 9
492738 CCATTTCATA
492748 TTTTTTTCT
1 TTTTTTTCT
492757 TTTTTTTCT
1 TTTTTTTCT
492766 TTTTCTTTCT
1 TTTT-TTTCT
492776 TT
1 TT
492778 CTTCTTTATC
Statistics
Matches: 20, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
9 13 0.65
10 7 0.35
ACGTcount: A:0.00, C:0.13, G:0.00, T:0.87
Consensus pattern (9 bp):
TTTTTTTCT
Found at i:492793 original size:20 final size:20
Alignment explanation
Indices: 492768--492805 Score: 67
Period size: 20 Copynumber: 1.9 Consensus size: 20
492758 TTTTTTCTTT
492768 TTCTTTCTTTCTTCTTTATC
1 TTCTTTCTTTCTTCTTTATC
*
492788 TTCTTTCTTTCTTTTTTA
1 TTCTTTCTTTCTTCTTTA
492806 CTTAACTTTT
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
20 17 1.00
ACGTcount: A:0.05, C:0.21, G:0.00, T:0.74
Consensus pattern (20 bp):
TTCTTTCTTTCTTCTTTATC
Found at i:494114 original size:32 final size:32
Alignment explanation
Indices: 494051--494588 Score: 853
Period size: 32 Copynumber: 16.8 Consensus size: 32
494041 AAAATGGTGA
* * * **
494051 TTTGAAAAGGGGTGCCACTGACTTGCATGGGC
1 TTTGAAATGGGTTGCCACCGACTTGTGTGGGC
* *
494083 TTTTAAATGGGTTACCACCGACTTGTGTGGGC
1 TTTGAAATGGGTTGCCACCGACTTGTGTGGGC
* ** *
494115 TTTGAAAAGGGTCACCACCGACTTGTGTGGCC
1 TTTGAAATGGGTTGCCACCGACTTGTGTGGGC
*
494147 TTTGAAATGGGTTGCCACCGACTTATGTGGGC
1 TTTGAAATGGGTTGCCACCGACTTGTGTGGGC
*
494179 TTTGGAATGGGTTGCCACCGACTTGTGTGGGC
1 TTTGAAATGGGTTGCCACCGACTTGTGTGGGC
** *
494211 TTTGAAATGGGTTGCCACTAACTTGTATGGGC
1 TTTGAAATGGGTTGCCACCGACTTGTGTGGGC
*
494243 TTTGAAATGGGTTGCCATCGACTTGTGTGGGC
1 TTTGAAATGGGTTGCCACCGACTTGTGTGGGC
494275 TTTGAAATGGGTTGCCACCGACTTGTGTGGGC
1 TTTGAAATGGGTTGCCACCGACTTGTGTGGGC
494307 TTTGAAATGGGTTGCCACCGACTTGTGTGGGC
1 TTTGAAATGGGTTGCCACCGACTTGTGTGGGC
494339 TTTGAAATGGGTTGCCACCGACTTGTGTGGGC
1 TTTGAAATGGGTTGCCACCGACTTGTGTGGGC
*
494371 TTTGGAATGGGTTGCCACCGACTTGTGTGGGC
1 TTTGAAATGGGTTGCCACCGACTTGTGTGGGC
*
494403 TTTGAAATGGGTTGCCACCGACTTATGTGGGC
1 TTTGAAATGGGTTGCCACCGACTTGTGTGGGC
* *
494435 TTTGGAATGGGTTACCACCGACTTGTGTGGGC
1 TTTGAAATGGGTTGCCACCGACTTGTGTGGGC
*
494467 TTTGAAATGGGTTGCCACCAACTTGTGTGGGC
1 TTTGAAATGGGTTGCCACCGACTTGTGTGGGC
494499 TTTGAAATGGGTTGCCACCGACTTGTGTGGGC
1 TTTGAAATGGGTTGCCACCGACTTGTGTGGGC
494531 TTTGAAATGGGTTGCCACCGACTTGTGTGGGC
1 TTTGAAATGGGTTGCCACCGACTTGTGTGGGC
* *
494563 TTTGAAATGGG-TGCCACAGAGTTGTG
1 TTTGAAATGGGTTGCCACCGACTTGTG
494589 GATTTAAAAG
Statistics
Matches: 467, Mismatches: 39, Indels: 1
0.92 0.08 0.00
Matches are distributed among these distances:
31 13 0.03
32 454 0.97
ACGTcount: A:0.17, C:0.18, G:0.33, T:0.31
Consensus pattern (32 bp):
TTTGAAATGGGTTGCCACCGACTTGTGTGGGC
Found at i:494606 original size:27 final size:27
Alignment explanation
Indices: 494571--495745 Score: 1902
Period size: 27 Copynumber: 43.1 Consensus size: 27
494561 GCTTTGAAAT
* *
494571 GGGTGCCACAGAGTTGTGGATTTAAAA
1 GGGTGCCACGGAGTTGTGGACTTAAAA
**
494598 GGACGCCACGGAGTTGTGGACTTAAAA
1 GGGTGCCACGGAGTTGTGGACTTAAAA
494625 GGGTGCCACGGAGTTGTGGACTTAAAA
1 GGGTGCCACGGAGTTGTGGACTTAAAA
494652 GGGTGCCACGGAGTTGTGGACTTAAAA
1 GGGTGCCACGGAGTTGTGGACTTAAAA
*
494679 GGGTGCCACAGAGTTGTGGACTTAAAA
1 GGGTGCCACGGAGTTGTGGACTTAAAA
**
494706 GGACGCCACGGAGTTGTGGAC-TAAAA
1 GGGTGCCACGGAGTTGTGGACTTAAAA
* *
494732 GGATGCCATGGAGTTGTGGACTTAAAA
1 GGGTGCCACGGAGTTGTGGACTTAAAA
494759 GGGTGCCACGGAGTTGTGGACTTAAAA
1 GGGTGCCACGGAGTTGTGGACTTAAAA
* *
494786 GGGTGCCACAGAGTTGTGGACTAAAAA
1 GGGTGCCACGGAGTTGTGGACTTAAAA
*
494813 GGGTGCCACGGAGTTGTGGACTAAAAA
1 GGGTGCCACGGAGTTGTGGACTTAAAA
494840 GGGTGCCACGGAGTTGTGGACTTTAAAA
1 GGGTGCCACGGAGTTGTGGAC-TTAAAA
*
494868 GGGTGCCACGGAGTTATGGACTTAAAA
1 GGGTGCCACGGAGTTGTGGACTTAAAA
494895 GGGTGCCACGGAGTTGTGGACTTAAAA
1 GGGTGCCACGGAGTTGTGGACTTAAAA
* *
494922 GGGTGCCACAGAGTTGTGGTCTTAAAA
1 GGGTGCCACGGAGTTGTGGACTTAAAA
*
494949 GGGTGCCACGAAGTTGTGGACTTAAAA
1 GGGTGCCACGGAGTTGTGGACTTAAAA
* * *
494976 GTGTGCCACAGAGTTGTGGACTAAAAA
1 GGGTGCCACGGAGTTGTGGACTTAAAA
* *
495003 GGGTGCCACAGAGTTGTGGACTAAAAA
1 GGGTGCCACGGAGTTGTGGACTTAAAA
495030 GGGTGCCACGGAGTTGTGGACTTTAAAA
1 GGGTGCCACGGAGTTGTGGAC-TTAAAA
*
495058 GGGTGCCACAGAGTTGTGGACTTAAAA
1 GGGTGCCACGGAGTTGTGGACTTAAAA
* *
495085 GAGATGCCACGGAGTTATGGACTTAAAA
1 G-GGTGCCACGGAGTTGTGGACTTAAAA
*
495113 GGGTGCCACGGTGTTGTGGACTTAAAA
1 GGGTGCCACGGAGTTGTGGACTTAAAA
*
495140 GGGTGCCACGGAGTTGTGGTCTTAAAA
1 GGGTGCCACGGAGTTGTGGACTTAAAA
495167 GGGATGCCACGGAGTTGTGGACTTAAAA
1 GGG-TGCCACGGAGTTGTGGACTTAAAA
495195 GGGTGCCACGGAGTTGTGGACTTAAAA
1 GGGTGCCACGGAGTTGTGGACTTAAAA
495222 GGGTGCCACGGAGTTGTGGACTTTAAAA
1 GGGTGCCACGGAGTTGTGGAC-TTAAAA
*
495250 GGGTGCCACAGAGTTGTGGACTTAAAA
1 GGGTGCCACGGAGTTGTGGACTTAAAA
* *
495277 GAGATGCCACGGAGTTATGGACTTAAAA
1 G-GGTGCCACGGAGTTGTGGACTTAAAA
495305 GGGTGCCACGGAGTTGTGGACTTAAAA
1 GGGTGCCACGGAGTTGTGGACTTAAAA
* *
495332 GGGTGCCACGGAGTCGTGGTCTTAAAA
1 GGGTGCCACGGAGTTGTGGACTTAAAA
495359 GGGATGCCACGGAGTTGTGGACTTAAAA
1 GGG-TGCCACGGAGTTGTGGACTTAAAA
495387 GGGTGCCACGGAGTTGTGGACTTAAAA
1 GGGTGCCACGGAGTTGTGGACTTAAAA
495414 GGGTGCCACGGAGTTGTGGACTTAAAA
1 GGGTGCCACGGAGTTGTGGACTTAAAA
495441 GGGTGCCACGGAGTTGTGGACTTAAAA
1 GGGTGCCACGGAGTTGTGGACTTAAAA
495468 GGGTGCCACGGAGTTGTGGACTTAAAA
1 GGGTGCCACGGAGTTGTGGACTTAAAA
* *
495495 GGGTGCCACAGAGTTGTGGACTAAAAA
1 GGGTGCCACGGAGTTGTGGACTTAAAA
495522 GGGTGCCACGGAGTTGTGGACTTTAAAA
1 GGGTGCCACGGAGTTGTGGAC-TTAAAA
*
495550 GGGTGCCACAGAGTTGTGGACTTAAAA
1 GGGTGCCACGGAGTTGTGGACTTAAAA
* *
495577 GAGATGCCACGGAGTTATGGACTTAAAA
1 G-GGTGCCACGGAGTTGTGGACTTAAAA
495605 GGGTGCCACGGAGTTGTGGACTTAAAA
1 GGGTGCCACGGAGTTGTGGACTTAAAA
*
495632 GGGTGCCACGGAGTTGTGGTCTTAAAA
1 GGGTGCCACGGAGTTGTGGACTTAAAA
495659 GGGATGCCACGGAGTTGTGGACTTAAAA
1 GGG-TGCCACGGAGTTGTGGACTTAAAA
495687 GGGTGCCACGGAGTTGTGGACTTAAAA
1 GGGTGCCACGGAGTTGTGGACTTAAAA
*
495714 GGGTGCCACGAAGTTGTGGACTTTAAAA
1 GGGTGCCACGGAGTTGTGGAC-TTAAAA
495742 GGGT
1 GGGT
495746 CACAGTACTA
Statistics
Matches: 1071, Mismatches: 65, Indels: 23
0.92 0.06 0.02
Matches are distributed among these distances:
26 24 0.02
27 787 0.73
28 260 0.24
ACGTcount: A:0.28, C:0.15, G:0.35, T:0.22
Consensus pattern (27 bp):
GGGTGCCACGGAGTTGTGGACTTAAAA
Found at i:494904 original size:82 final size:81
Alignment explanation
Indices: 494571--495745 Score: 1902
Period size: 82 Copynumber: 14.4 Consensus size: 81
494561 GCTTTGAAAT
* * **
494571 GGGTGCCACAGAGTTGTGGATTTAAAAGGACGCCACGGAGTTGTGGACTTAAAAGGGTGCCACGG
1 GGGTGCCACGGAGTTGTGGACTTAAAAGGGTGCCACGGAGTTGTGGACTTAAAAGGGTGCCACGG
494636 AGTTGTGGACTTAAAA
66 AGTTGTGGACTTAAAA
* **
494652 GGGTGCCACGGAGTTGTGGACTTAAAAGGGTGCCACAGAGTTGTGGACTTAAAAGGACGCCACGG
1 GGGTGCCACGGAGTTGTGGACTTAAAAGGGTGCCACGGAGTTGTGGACTTAAAAGGGTGCCACGG
494717 AGTTGTGGAC-TAAAA
66 AGTTGTGGACTTAAAA
* * *
494732 GGATGCCATGGAGTTGTGGACTTAAAAGGGTGCCACGGAGTTGTGGACTTAAAAGGGTGCCACAG
1 GGGTGCCACGGAGTTGTGGACTTAAAAGGGTGCCACGGAGTTGTGGACTTAAAAGGGTGCCACGG
*
494797 AGTTGTGGACTAAAAA
66 AGTTGTGGACTTAAAA
*
494813 GGGTGCCACGGAGTTGTGGACTAAAAAGGGTGCCACGGAGTTGTGGACTTTAAAAGGGTGCCACG
1 GGGTGCCACGGAGTTGTGGACTTAAAAGGGTGCCACGGAGTTGTGGAC-TTAAAAGGGTGCCACG
*
494878 GAGTTATGGACTTAAAA
65 GAGTTGTGGACTTAAAA
* * *
494895 GGGTGCCACGGAGTTGTGGACTTAAAAGGGTGCCACAGAGTTGTGGTCTTAAAAGGGTGCCACGA
1 GGGTGCCACGGAGTTGTGGACTTAAAAGGGTGCCACGGAGTTGTGGACTTAAAAGGGTGCCACGG
494960 AGTTGTGGACTTAAAA
66 AGTTGTGGACTTAAAA
* * * * *
494976 GTGTGCCACAGAGTTGTGGACTAAAAAGGGTGCCACAGAGTTGTGGACTAAAAAGGGTGCCACGG
1 GGGTGCCACGGAGTTGTGGACTTAAAAGGGTGCCACGGAGTTGTGGACTTAAAAGGGTGCCACGG
495041 AGTTGTGGACTTTAAAA
66 AGTTGTGGAC-TTAAAA
* * *
495058 GGGTGCCACAGAGTTGTGGACTTAAAAGAGATGCCACGGAGTTATGGACTTAAAAGGGTGCCACG
1 GGGTGCCACGGAGTTGTGGACTTAAAAG-GGTGCCACGGAGTTGTGGACTTAAAAGGGTGCCACG
*
495123 GTGTTGTGGACTTAAAA
65 GAGTTGTGGACTTAAAA
*
495140 GGGTGCCACGGAGTTGTGGTCTTAAAAGGGATGCCACGGAGTTGTGGACTTAAAAGGGTGCCACG
1 GGGTGCCACGGAGTTGTGGACTTAAAAGGG-TGCCACGGAGTTGTGGACTTAAAAGGGTGCCACG
495205 GAGTTGTGGACTTAAAA
65 GAGTTGTGGACTTAAAA
* *
495222 GGGTGCCACGGAGTTGTGGACTTTAAAAGGGTGCCACAGAGTTGTGGACTTAAAAGAGATGCCAC
1 GGGTGCCACGGAGTTGTGGAC-TTAAAAGGGTGCCACGGAGTTGTGGACTTAAAAG-GGTGCCAC
*
495287 GGAGTTATGGACTTAAAA
64 GGAGTTGTGGACTTAAAA
* *
495305 GGGTGCCACGGAGTTGTGGACTTAAAAGGGTGCCACGGAGTCGTGGTCTTAAAAGGGATGCCACG
1 GGGTGCCACGGAGTTGTGGACTTAAAAGGGTGCCACGGAGTTGTGGACTTAAAAGGG-TGCCACG
495370 GAGTTGTGGACTTAAAA
65 GAGTTGTGGACTTAAAA
495387 GGGTGCCACGGAGTTGTGGACTTAAAAGGGTGCCACGGAGTTGTGGACTTAAAAGGGTGCCACGG
1 GGGTGCCACGGAGTTGTGGACTTAAAAGGGTGCCACGGAGTTGTGGACTTAAAAGGGTGCCACGG
495452 AGTTGTGGACTTAAAA
66 AGTTGTGGACTTAAAA
* *
495468 GGGTGCCACGGAGTTGTGGACTTAAAAGGGTGCCACAGAGTTGTGGACTAAAAAGGGTGCCACGG
1 GGGTGCCACGGAGTTGTGGACTTAAAAGGGTGCCACGGAGTTGTGGACTTAAAAGGGTGCCACGG
495533 AGTTGTGGACTTTAAAA
66 AGTTGTGGAC-TTAAAA
* * *
495550 GGGTGCCACAGAGTTGTGGACTTAAAAGAGATGCCACGGAGTTATGGACTTAAAAGGGTGCCACG
1 GGGTGCCACGGAGTTGTGGACTTAAAAG-GGTGCCACGGAGTTGTGGACTTAAAAGGGTGCCACG
495615 GAGTTGTGGACTTAAAA
65 GAGTTGTGGACTTAAAA
*
495632 GGGTGCCACGGAGTTGTGGTCTTAAAAGGGATGCCACGGAGTTGTGGACTTAAAAGGGTGCCACG
1 GGGTGCCACGGAGTTGTGGACTTAAAAGGG-TGCCACGGAGTTGTGGACTTAAAAGGGTGCCACG
495697 GAGTTGTGGACTTAAAA
65 GAGTTGTGGACTTAAAA
*
495714 GGGTGCCACGAAGTTGTGGACTTTAAAAGGGT
1 GGGTGCCACGGAGTTGTGGAC-TTAAAAGGGT
495746 CACAGTACTA
Statistics
Matches: 1015, Mismatches: 67, Indels: 23
0.92 0.06 0.02
Matches are distributed among these distances:
80 74 0.07
81 317 0.31
82 476 0.47
83 148 0.15
ACGTcount: A:0.28, C:0.15, G:0.35, T:0.22
Consensus pattern (81 bp):
GGGTGCCACGGAGTTGTGGACTTAAAAGGGTGCCACGGAGTTGTGGACTTAAAAGGGTGCCACGG
AGTTGTGGACTTAAAA
Found at i:497089 original size:36 final size:36
Alignment explanation
Indices: 497049--497123 Score: 100
Period size: 36 Copynumber: 2.1 Consensus size: 36
497039 TTGTTGTTCC
*
497049 TTTTTT-TTATTTTGCTTTTGCACTTTTTCTTT-TCA
1 TTTTTTGTGATTTTGCTTTTG-ACTTTTTCTTTGTCA
* *
497084 TTTTTTGTGCTTTTGCTTTTGACTTTTTTTTTGTCA
1 TTTTTTGTGATTTTGCTTTTGACTTTTTCTTTGTCA
497120 TTTT
1 TTTT
497124 GAAGGGAACT
Statistics
Matches: 35, Mismatches: 3, Indels: 3
0.85 0.07 0.07
Matches are distributed among these distances:
35 16 0.46
36 19 0.54
ACGTcount: A:0.07, C:0.12, G:0.09, T:0.72
Consensus pattern (36 bp):
TTTTTTGTGATTTTGCTTTTGACTTTTTCTTTGTCA
Found at i:503514 original size:9 final size:9
Alignment explanation
Indices: 503500--503529 Score: 51
Period size: 9 Copynumber: 3.2 Consensus size: 9
503490 CCATTTCATA
503500 TTTTTTTCT
1 TTTTTTTCT
503509 TTTTTTTCT
1 TTTTTTTCT
503518 TTTTCTTTCT
1 TTTT-TTTCT
503528 TT
1 TT
503530 CTTCTTCATC
Statistics
Matches: 20, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
9 13 0.65
10 7 0.35
ACGTcount: A:0.00, C:0.13, G:0.00, T:0.87
Consensus pattern (9 bp):
TTTTTTTCT
Found at i:506609 original size:19 final size:19
Alignment explanation
Indices: 506542--506618 Score: 75
Period size: 19 Copynumber: 3.9 Consensus size: 19
506532 TTGCCAAGAA
506542 AATGTATCGATACATTTACTGT
1 AATGTATCGATACA-TT-CT-T
* * *
506564 -TTGTATCAATACATTTTT
1 AATGTATCGATACATTCTT
*
506582 CACTGTATCGATACATTCTT
1 -AATGTATCGATACATTCTT
506602 AATGTATCGATACATTC
1 AATGTATCGATACATTC
506619 ATGCATTTTT
Statistics
Matches: 46, Mismatches: 7, Indels: 7
0.77 0.12 0.12
Matches are distributed among these distances:
18 1 0.02
19 17 0.37
20 17 0.37
21 11 0.24
ACGTcount: A:0.30, C:0.17, G:0.10, T:0.43
Consensus pattern (19 bp):
AATGTATCGATACATTCTT
Found at i:509080 original size:79 final size:79
Alignment explanation
Indices: 508947--509155 Score: 251
Period size: 79 Copynumber: 2.6 Consensus size: 79
508937 TCATTGATGT
* * * ** *
508947 TTTTA-TTCATAAAACATCGATTTTTCTACTATCGGGGATACTCCAACCTTGTTATTTTCGAGGA
1 TTTTATTTC-TAAAATATCAATTTTTC-ACCATCGGGGATACTCCAACCCCGTTATTTTCGAAGA
*
509011 GATAATTCAA-CCTCGA
64 GATAATCCAACCCT-GA
* * *
509027 TTTTATTTCTAAAATATCAATTTTTCACCATTGGGGATACTCCAACCCCGTTATTTTTGAAGCGA
1 TTTTATTTCTAAAATATCAATTTTTCACCATCGGGGATACTCCAACCCCGTTATTTTCGAAGAGA
*
509092 TAGTCCAACCCTGA
66 TAATCCAACCCTGA
* * *
509106 TTTTATTTTTAAAATATCTATTTTTCACCATCGAGGATACTCCAACCCCG
1 TTTTATTTCTAAAATATCAATTTTTCACCATCGGGGATACTCCAACCCCG
509156 ATTTTATTTC
Statistics
Matches: 112, Mismatches: 15, Indels: 5
0.85 0.11 0.04
Matches are distributed among these distances:
79 86 0.77
80 23 0.21
81 3 0.03
ACGTcount: A:0.28, C:0.22, G:0.12, T:0.38
Consensus pattern (79 bp):
TTTTATTTCTAAAATATCAATTTTTCACCATCGGGGATACTCCAACCCCGTTATTTTCGAAGAGA
TAATCCAACCCTGA
Found at i:509153 original size:51 final size:51
Alignment explanation
Indices: 509090--509257 Score: 196
Period size: 51 Copynumber: 3.3 Consensus size: 51
509080 TTTTTGAAGC
* * *
509090 GATAGTCCAACCCTGATTTTATTTTTAAAATATCTATTTTTCACCATCGAG
1 GATACTCCAACCCTGATTTTATTTTTAAAACATCTATTTTTCACCATCGGG
* * * *
509141 GATACTCCAACCCCGATTTTATTTCTAAAACACCGATTTTTCACCATCGGG
1 GATACTCCAACCCTGATTTTATTTTTAAAACATCTATTTTTCACCATCGGG
* * * *
509192 GATACTCCAACCC-CAGTTTTATTCTTAAAACAT-TGATTTTCCACCTTCGGG
1 GATACTCCAACCCTGA-TTTTATTTTTAAAACATCT-ATTTTTCACCATCGGG
*
509243 GATACTTCAACCCTG
1 GATACTCCAACCCTG
509258 TTATTTTCGA
Statistics
Matches: 98, Mismatches: 16, Indels: 5
0.82 0.13 0.04
Matches are distributed among these distances:
50 1 0.01
51 97 0.99
ACGTcount: A:0.27, C:0.26, G:0.11, T:0.35
Consensus pattern (51 bp):
GATACTCCAACCCTGATTTTATTTTTAAAACATCTATTTTTCACCATCGGG
Found at i:509333 original size:79 final size:80
Alignment explanation
Indices: 509189--509373 Score: 209
Period size: 79 Copynumber: 2.3 Consensus size: 80
509179 TTTCACCATC
* * * * * *
509189 GGGGATACTCCAACCCCAG-TTTTA-TTCTTAAAACATTGATTTTCCACCTTCGGGGATACTTCA
1 GGGGATACTCTAACCCC-GTTTTTATTTCTTAAAACACTGATTTTCAACCATCGAGGACACTTCA
*
509252 ACCCTGTTATTT-TCGA
65 ACCCTGTTATTTCT-AA
*
509268 GGGGATACTTTAACCCCGTTTTTATTTC-TAAAACACTGATTTTCAACCATCGAGGACA-TTCCA
1 GGGGATACTCTAACCCCGTTTTTATTTCTTAAAACACTGATTTTCAACCATCGAGGACACTT-CA
*
509331 ACCTTGTTATTTCTAA
65 ACCCTGTTATTTCTAA
* *
509347 GAGGATACTCTAACCCCATTTTTATTT
1 GGGGATACTCTAACCCCGTTTTTATTT
509374 TCAAAATATC
Statistics
Matches: 90, Mismatches: 12, Indels: 8
0.82 0.11 0.07
Matches are distributed among these distances:
78 3 0.03
79 83 0.92
80 4 0.04
ACGTcount: A:0.26, C:0.24, G:0.14, T:0.37
Consensus pattern (80 bp):
GGGGATACTCTAACCCCGTTTTTATTTCTTAAAACACTGATTTTCAACCATCGAGGACACTTCAA
CCCTGTTATTTCTAA
Found at i:512357 original size:13 final size:13
Alignment explanation
Indices: 512339--512366 Score: 56
Period size: 13 Copynumber: 2.2 Consensus size: 13
512329 ATTACTCAAA
512339 TGTATCGATACAT
1 TGTATCGATACAT
512352 TGTATCGATACAT
1 TGTATCGATACAT
512365 TG
1 TG
512367 ATCTTTGTAT
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 15 1.00
ACGTcount: A:0.29, C:0.14, G:0.18, T:0.39
Consensus pattern (13 bp):
TGTATCGATACAT
Found at i:520736 original size:30 final size:31
Alignment explanation
Indices: 520665--520823 Score: 153
Period size: 33 Copynumber: 5.1 Consensus size: 31
520655 CTCAAATACC
*
520665 TTCTTAAAGTCCACGACTCAGTGGCAATCTCT
1 TTCTCAAAGTCCACGACTCAGTGGC-ATCTCT
520697 CTTCTCAAAGTCCACGACTCAGTGGCATCTCT
1 -TTCTCAAAGTCCACGACTCAGTGGCATCTCT
* *
520729 TTC-CAAAGTCCGCGACTCAATGGCATCT-T
1 TTCTCAAAGTCCACGACTCAGTGGCATCTCT
* * * * *
520758 TTCTTCAAAGCCCACAACTCCGTGGCACCTTGT
1 TTC-TCAAAGTCCACGACTCAGTGGCATC-TCT
* * *
520791 TTCTTCAAAGCCCACAACTCCGTGGCA-CTCT
1 TTC-TCAAAGTCCACGACTCAGTGGCATCTCT
520822 TT
1 TT
520824 TTCTTTTTAA
Statistics
Matches: 112, Mismatches: 10, Indels: 10
0.85 0.08 0.08
Matches are distributed among these distances:
29 4 0.04
30 23 0.21
31 25 0.22
32 8 0.07
33 52 0.46
ACGTcount: A:0.23, C:0.33, G:0.15, T:0.29
Consensus pattern (31 bp):
TTCTCAAAGTCCACGACTCAGTGGCATCTCT
Found at i:520843 original size:35 final size:35
Alignment explanation
Indices: 520764--520986 Score: 236
Period size: 35 Copynumber: 6.6 Consensus size: 35
520754 TCTTTTCTTC
*
520764 AAAGCCCACAACTCCGTGGCAC-CTTGTTTC--TTC
1 AAAGCCCACAACTCCGTGGCACTCTT-TTTCTTTTT
520797 AAAGCCCACAACTCCGTGGCACTCTTTTTCTTTTT
1 AAAGCCCACAACTCCGTGGCACTCTTTTTCTTTTT
*
520832 AAAGCCCACAACTCCGTGGCACTCTTTTTCTTTTC
1 AAAGCCCACAACTCCGTGGCACTCTTTTTCTTTTT
520867 AAAGCCCACAACTCCGTGGCA-TC-----C-TTTT
1 AAAGCCCACAACTCCGTGGCACTCTTTTTCTTTTT
* *
520895 AAAGCCCACAACTCCATGGCACTCTTTTTCCCTTTT
1 AAAGCCCACAACTCCGTGGCACTCTTTTT-CTTTTT
* * * *
520931 -AAGTCCATAACTCCGTGGCA-TCTTTCTCCTTTTCA
1 AAAGCCCACAACTCCGTGGCACTCTTT-TTCTTTT-T
* *
520966 AAAGCCCACAAGTCAGTGGCA
1 AAAGCCCACAACTCCGTGGCA
520987 ACCTTTAAAA
Statistics
Matches: 162, Mismatches: 14, Indels: 25
0.81 0.07 0.12
Matches are distributed among these distances:
28 23 0.14
29 3 0.02
33 26 0.16
34 14 0.09
35 76 0.47
36 20 0.12
ACGTcount: A:0.23, C:0.34, G:0.13, T:0.30
Consensus pattern (35 bp):
AAAGCCCACAACTCCGTGGCACTCTTTTTCTTTTT
Found at i:520919 original size:63 final size:62
Alignment explanation
Indices: 520828--520952 Score: 189
Period size: 63 Copynumber: 2.0 Consensus size: 62
520818 CTCTTTTTCT
*
520828 TTTTAAAGCCCACAACTCCGTGGCACTCTTTTT-CTTTTCAAAGCCCACAACTCCGTGGCATCC
1 TTTTAAAGCCCACAACTCCATGGCACTCTTTTTCCTTTT--AAGCCCACAACTCCGTGGCATCC
* *
520891 TTTTAAAGCCCACAACTCCATGGCACTCTTTTTCCCTTTTAAGTCCATAACTCCGTGGCATC
1 TTTTAAAGCCCACAACTCCATGGCACTCTTTTT-CCTTTTAAGCCCACAACTCCGTGGCATC
520953 TTTCTCCTTT
Statistics
Matches: 57, Mismatches: 3, Indels: 4
0.89 0.05 0.06
Matches are distributed among these distances:
63 52 0.91
65 5 0.09
ACGTcount: A:0.22, C:0.34, G:0.12, T:0.32
Consensus pattern (62 bp):
TTTTAAAGCCCACAACTCCATGGCACTCTTTTTCCTTTTAAGCCCACAACTCCGTGGCATCC
Found at i:520919 original size:98 final size:97
Alignment explanation
Indices: 520761--521003 Score: 301
Period size: 98 Copynumber: 2.4 Consensus size: 97
520751 GCATCTTTTC
*
520761 TTCAAAGCCCACAACTCCGTGGCACCTTGTTTCTTCAAAGCCCACAACTCCGTGGCACTCTTTTT
1 TTCAAAGCCCACAACTCCGTGGCACC----TT-TT-AAAGCCCACAACTCCATGGCACTCTTTTT
* *
520826 -CTTTTTAAAGCCCACAACTCCGTGGCACTCTTT-TTCTT
60 CCCTTTT-AAGCCCACAACTCCGTGGCA-TCTTTCTCCTT
520864 TTCAAAGCCCACAACTCCGTGGCATCCTTTTAAAGCCCACAACTCCATGGCACTCTTTTTCCCTT
1 TTCAAAGCCCACAACTCCGTGGCA-CCTTTTAAAGCCCACAACTCCATGGCACTCTTTTTCCCTT
* *
520929 TTAAGTCCATAACTCCGTGGCATCTTTCTCCTT
65 TTAAGCCCACAACTCCGTGGCATCTTTCTCCTT
* * *
520962 TTCAAAAGCCCACAAGTCAGTGGCAACCTTTAAAAGCCCACA
1 TTC-AAAGCCCACAACTCCGTGGC-ACCTTTTAAAGCCCACA
521004 CAAGTTGGTG
Statistics
Matches: 127, Mismatches: 8, Indels: 14
0.85 0.05 0.09
Matches are distributed among these distances:
97 5 0.04
98 53 0.42
99 40 0.31
100 3 0.02
103 24 0.19
104 2 0.02
ACGTcount: A:0.24, C:0.34, G:0.12, T:0.30
Consensus pattern (97 bp):
TTCAAAGCCCACAACTCCGTGGCACCTTTTAAAGCCCACAACTCCATGGCACTCTTTTTCCCTTT
TAAGCCCACAACTCCGTGGCATCTTTCTCCTT
Found at i:521109 original size:21 final size:21
Alignment explanation
Indices: 521085--521152 Score: 50
Period size: 21 Copynumber: 3.2 Consensus size: 21
521075 ATGTCGCTGG
521085 CCTTGAATCAGCACATTGGCA
1 CCTTGAATCAGCACATTGGCA
* ** *
521106 CCTTTAAGTCCAATATCGTTGG--
1 CCTTGAA-T-CAGCA-CATTGGCA
*
521128 CCTTGAATCAGCATATTGGCA
1 CCTTGAATCAGCACATTGGCA
521149 CCTT
1 CCTT
521153 TGTCTTTAAA
Statistics
Matches: 33, Mismatches: 9, Indels: 10
0.63 0.17 0.19
Matches are distributed among these distances:
19 4 0.12
20 3 0.09
21 11 0.33
22 7 0.21
23 3 0.09
24 5 0.15
ACGTcount: A:0.25, C:0.26, G:0.18, T:0.31
Consensus pattern (21 bp):
CCTTGAATCAGCACATTGGCA
Found at i:521179 original size:49 final size:48
Alignment explanation
Indices: 521017--521780 Score: 753
Period size: 43 Copynumber: 16.1 Consensus size: 48
521007 GTTGGTGGCA
* * * * *
521017 TTTTTTTTAAGCCCAATATCGTTGACCTTGAATCAGCACATTGGCA--
1 TTTTCTTTAAGTCCAATGTCGCTGGCCTTGAATCAGCACATTGGCACC
*
521063 ---TCTTTAAGACCAATGTCGCTGGCCTTGAATCAGCACATTGGCA-C
1 TTTTCTTTAAGTCCAATGTCGCTGGCCTTGAATCAGCACATTGGCACC
* * *
521107 ----CTTTAAGTCCAATATCGTTGGCCTTGAATCAGCATATTGGCACC
1 TTTTCTTTAAGTCCAATGTCGCTGGCCTTGAATCAGCACATTGGCACC
521151 TTTGTCTTTAAAG-CCAATGTCGCTGGCCTTGAATCAGCACATTGGCA-C
1 TTT-TCTTT-AAGTCCAATGTCGCTGGCCTTGAATCAGCACATTGGCACC
* * *
521199 ----CTTTAAGTCCAATATCGCTGGCTTTGAATCAGCATATTGGCACC
1 TTTTCTTTAAGTCCAATGTCGCTGGCCTTGAATCAGCACATTGGCACC
**
521243 TTTGTCTTTAAAACCAATGTCGCTGGCCTTGAATCAGCACATTGGCA--
1 TTT-TCTTTAAGTCCAATGTCGCTGGCCTTGAATCAGCACATTGGCACC
* *
521290 ---TCTTTAAGACCAATGTCGCTGGCCTTGAATCAACACATTGGCA-C
1 TTTTCTTTAAGTCCAATGTCGCTGGCCTTGAATCAGCACATTGGCACC
* * * *
521334 ----CTTTAAGCCCAATATCGTTGGCCTTGAATCAGCATATTGGCACC
1 TTTTCTTTAAGTCCAATGTCGCTGGCCTTGAATCAGCACATTGGCACC
*
521378 TTTATCTTTAAGTCCAATGTCGTTGGCCTTGAATCAGCACATTGGCA-C
1 TTT-TCTTTAAGTCCAATGTCGCTGGCCTTGAATCAGCACATTGGCACC
*
521426 ----CTTTAAGTCCAATGTCGTTGGCCTTGAATCAGCACATTGGCACC
1 TTTTCTTTAAGTCCAATGTCGCTGGCCTTGAATCAGCACATTGGCACC
* * * * * *
521470 TTCATCTTTAAGCCCAATATCGTTGGCCTTGAATCAGCATATTGGCGCC
1 TT-TTCTTTAAGTCCAATGTCGCTGGCCTTGAATCAGCACATTGGCACC
521519 TTTGTCATCTTTTAAGTCCAATGTCGCTGGCCTTGAATCAGCACATTGGCACC
1 -TT-T--TC-TTTAAGTCCAATGTCGCTGGCCTTGAATCAGCACATTGGCACC
* * * *
521572 TTCATCTTTAAGTCCAATATCGCTGGCCTTGAATCAGCATATTGGCGCC
1 TT-TTCTTTAAGTCCAATGTCGCTGGCCTTGAATCAGCACATTGGCACC
521621 TTTGTCGTCTTTTAAGTCCAATGTCGCTGGCCTTGAATCAGCACATTGGCACC
1 -TT-T--TC-TTTAAGTCCAATGTCGCTGGCCTTGAATCAGCACATTGGCACC
* * * *
521674 TTCATCTTTAAGTCCAATATCGCTGGCCTTGAATCAGCATATTGGCGCC
1 TT-TTCTTTAAGTCCAATGTCGCTGGCCTTGAATCAGCACATTGGCACC
* * *
521723 TTTGTCATCTTTTAAGTCCAATGTCGCTGACCGTGAATCAGCACATTGACATCC
1 -TT-T--TC-TTTAAGTCCAATGTCGCTGGCCTTGAATCAGCACATTGGCA-CC
521777 TTTT
1 TTTT
521781 TCTCATCTTT
Statistics
Matches: 613, Mismatches: 64, Indels: 78
0.81 0.08 0.10
Matches are distributed among these distances:
42 3 0.00
43 231 0.38
44 4 0.01
48 2 0.00
49 231 0.38
50 14 0.02
52 11 0.02
53 115 0.19
54 2 0.00
ACGTcount: A:0.23, C:0.26, G:0.19, T:0.32
Consensus pattern (48 bp):
TTTTCTTTAAGTCCAATGTCGCTGGCCTTGAATCAGCACATTGGCACC
Found at i:521194 original size:92 final size:94
Alignment explanation
Indices: 521022--521770 Score: 810
Period size: 92 Copynumber: 7.9 Consensus size: 94
521012 TGGCATTTTT
* * * * *
521022 TTTAAGCCCAATATCGTTGACCTTGAATCAGCACATTGGCA------TCTTTAAGACCAATGTCG
1 TTTAAGTCCAATATCGCTGGCCTTGAATCAGCATATTGGCACCTTTGTCTTTAAGTCCAATGTCG
521081 CTGGCCTTGAATCAGCACATTGGCA-C-C
66 CTGGCCTTGAATCAGCACATTGGCACCTC
*
521108 TTTAAGTCCAATATCGTTGGCCTTGAATCAGCATATTGGCACCTTTGTCTTTAAAG-CCAATGTC
1 TTTAAGTCCAATATCGCTGGCCTTGAATCAGCATATTGGCACCTTTGTCTTT-AAGTCCAATGTC
521172 GCTGGCCTTGAATCAGCACATTGGCA-C-C
65 GCTGGCCTTGAATCAGCACATTGGCACCTC
* **
521200 TTTAAGTCCAATATCGCTGGCTTTGAATCAGCATATTGGCACCTTTGTCTTTAAAACCAATGTCG
1 TTTAAGTCCAATATCGCTGGCCTTGAATCAGCATATTGGCACCTTTGTCTTTAAGTCCAATGTCG
521265 CTGGCCTTGAATCAGCACATTGGCA--TC
66 CTGGCCTTGAATCAGCACATTGGCACCTC
* * * * * *
521292 TTTAAGACCAATGTCGCTGGCCTTGAATCAACACATTGGCA-C-----CTTTAAGCCCAATATCG
1 TTTAAGTCCAATATCGCTGGCCTTGAATCAGCATATTGGCACCTTTGTCTTTAAGTCCAATGTCG
* *
521351 TTGGCCTTGAATCAGCATATTGGCACCTTTATC
66 CTGGCCTTGAATCAGCACATTGGCACC----TC
* * *
521384 TTTAAGTCCAATGTCGTTGGCCTTGAATCAGCACATTGGCA-C-----CTTTAAGTCCAATGTCG
1 TTTAAGTCCAATATCGCTGGCCTTGAATCAGCATATTGGCACCTTTGTCTTTAAGTCCAATGTCG
*
521443 TTGGCCTTGAATCAGCACATTGGCACCTTCATC
66 CTGGCCTTGAATCAGCACATTGGCA-C--C-TC
* * *
521476 TTTAAGCCCAATATCGTTGGCCTTGAATCAGCATATTGGCGCCTTTGTCATCTTTTAAGTCCAAT
1 TTTAAGTCCAATATCGCTGGCCTTGAATCAGCATATTGGCACCTTTG---TC-TTTAAGTCCAAT
521541 GTCGCTGGCCTTGAATCAGCACATTGGCACCTTCATC
62 GTCGCTGGCCTTGAATCAGCACATTGGCA-C--C-TC
*
521578 TTTAAGTCCAATATCGCTGGCCTTGAATCAGCATATTGGCGCCTTTGTCGTCTTTTAAGTCCAAT
1 TTTAAGTCCAATATCGCTGGCCTTGAATCAGCATATTGGCACC-TT-T-GTC-TTTAAGTCCAAT
521643 GTCGCTGGCCTTGAATCAGCACATTGGCACCTTCATC
62 GTCGCTGGCCTTGAATCAGCACATTGGCA-C--C-TC
*
521680 TTTAAGTCCAATATCGCTGGCCTTGAATCAGCATATTGGCGCCTTTGTCATCTTTTAAGTCCAAT
1 TTTAAGTCCAATATCGCTGGCCTTGAATCAGCATATTGGCACCTTTG---TC-TTTAAGTCCAAT
* *
521745 GTCGCTGACCGTGAATCAGCACATTG
62 GTCGCTGGCCTTGAATCAGCACATTG
521771 ACATCCTTTT
Statistics
Matches: 598, Mismatches: 31, Indels: 52
0.88 0.05 0.08
Matches are distributed among these distances:
86 75 0.13
91 3 0.01
92 282 0.47
93 5 0.01
95 1 0.00
99 1 0.00
100 1 0.00
101 3 0.01
102 223 0.37
103 2 0.00
104 1 0.00
105 1 0.00
ACGTcount: A:0.24, C:0.26, G:0.19, T:0.32
Consensus pattern (94 bp):
TTTAAGTCCAATATCGCTGGCCTTGAATCAGCATATTGGCACCTTTGTCTTTAAGTCCAATGTCG
CTGGCCTTGAATCAGCACATTGGCACCTC
Found at i:521603 original size:102 final size:102
Alignment explanation
Indices: 521427--521770 Score: 634
Period size: 102 Copynumber: 3.4 Consensus size: 102
521417 CATTGGCACC
* *
521427 TTTAAGTCCAATGTCGTTGGCCTTGAATCAGCACATTGGCACCTTCATCTTTAAGCCCAATATCG
1 TTTAAGTCCAATGTCGCTGGCCTTGAATCAGCACATTGGCACCTTCATCTTTAAGTCCAATATCG
*
521492 TTGGCCTTGAATCAGCATATTGGCGCCTTTGTCATCT
66 CTGGCCTTGAATCAGCATATTGGCGCCTTTGTCATCT
521529 TTTAAGTCCAATGTCGCTGGCCTTGAATCAGCACATTGGCACCTTCATCTTTAAGTCCAATATCG
1 TTTAAGTCCAATGTCGCTGGCCTTGAATCAGCACATTGGCACCTTCATCTTTAAGTCCAATATCG
*
521594 CTGGCCTTGAATCAGCATATTGGCGCCTTTGTCGTCT
66 CTGGCCTTGAATCAGCATATTGGCGCCTTTGTCATCT
521631 TTTAAGTCCAATGTCGCTGGCCTTGAATCAGCACATTGGCACCTTCATCTTTAAGTCCAATATCG
1 TTTAAGTCCAATGTCGCTGGCCTTGAATCAGCACATTGGCACCTTCATCTTTAAGTCCAATATCG
521696 CTGGCCTTGAATCAGCATATTGGCGCCTTTGTCATCT
66 CTGGCCTTGAATCAGCATATTGGCGCCTTTGTCATCT
* *
521733 TTTAAGTCCAATGTCGCTGACCGTGAATCAGCACATTG
1 TTTAAGTCCAATGTCGCTGGCCTTGAATCAGCACATTG
521771 ACATCCTTTT
Statistics
Matches: 235, Mismatches: 7, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
102 235 1.00
ACGTcount: A:0.22, C:0.26, G:0.19, T:0.33
Consensus pattern (102 bp):
TTTAAGTCCAATGTCGCTGGCCTTGAATCAGCACATTGGCACCTTCATCTTTAAGTCCAATATCG
CTGGCCTTGAATCAGCATATTGGCGCCTTTGTCATCT
Found at i:522479 original size:19 final size:18
Alignment explanation
Indices: 522454--522518 Score: 77
Period size: 19 Copynumber: 3.8 Consensus size: 18
522444 ATTTCAACGA
522454 TTTGTATCGATACATAAG
1 TTTGTATCGATACATAAG
522472 TGTTGTATCGATAC--AA-
1 T-TTGTATCGATACATAAG
522488 --TGTATCGATACATAAG
1 TTTGTATCGATACATAAG
522504 TTTTGTATCGATACA
1 -TTTGTATCGATACA
522519 ATGTATCGCT
Statistics
Matches: 40, Mismatches: 0, Indels: 13
0.75 0.00 0.25
Matches are distributed among these distances:
13 11 0.28
15 2 0.05
17 2 0.05
18 1 0.03
19 24 0.60
ACGTcount: A:0.32, C:0.12, G:0.17, T:0.38
Consensus pattern (18 bp):
TTTGTATCGATACATAAG
Found at i:522492 original size:32 final size:32
Alignment explanation
Indices: 522456--522526 Score: 133
Period size: 32 Copynumber: 2.2 Consensus size: 32
522446 TTCAACGATT
522456 TGTATCGATACATAAGTGTTGTATCGATACAA
1 TGTATCGATACATAAGTGTTGTATCGATACAA
*
522488 TGTATCGATACATAAGTTTTGTATCGATACAA
1 TGTATCGATACATAAGTGTTGTATCGATACAA
522520 TGTATCG
1 TGTATCG
522527 CTACGAAGCT
Statistics
Matches: 38, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
32 38 1.00
ACGTcount: A:0.32, C:0.13, G:0.18, T:0.37
Consensus pattern (32 bp):
TGTATCGATACATAAGTGTTGTATCGATACAA
Found at i:522493 original size:13 final size:13
Alignment explanation
Indices: 522475--522499 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
522465 ACATAAGTGT
522475 TGTATCGATACAA
1 TGTATCGATACAA
522488 TGTATCGATACA
1 TGTATCGATACA
522500 TAAGTTTTGT
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.36, C:0.16, G:0.16, T:0.32
Consensus pattern (13 bp):
TGTATCGATACAA
Found at i:522589 original size:13 final size:13
Alignment explanation
Indices: 522571--522598 Score: 56
Period size: 13 Copynumber: 2.2 Consensus size: 13
522561 ATTACTCAAA
522571 TGTATCGATACAT
1 TGTATCGATACAT
522584 TGTATCGATACAT
1 TGTATCGATACAT
522597 TG
1 TG
522599 ATCTTTGTAT
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 15 1.00
ACGTcount: A:0.29, C:0.14, G:0.18, T:0.39
Consensus pattern (13 bp):
TGTATCGATACAT
Found at i:528741 original size:17 final size:17
Alignment explanation
Indices: 528719--528755 Score: 74
Period size: 17 Copynumber: 2.2 Consensus size: 17
528709 TCGATAGCGC
528719 TATTAAAAGTGGCAAAA
1 TATTAAAAGTGGCAAAA
528736 TATTAAAAGTGGCAAAA
1 TATTAAAAGTGGCAAAA
528753 TAT
1 TAT
528756 CCATAGGAGA
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
17 20 1.00
ACGTcount: A:0.51, C:0.05, G:0.16, T:0.27
Consensus pattern (17 bp):
TATTAAAAGTGGCAAAA
Found at i:530958 original size:19 final size:20
Alignment explanation
Indices: 530911--530964 Score: 65
Period size: 19 Copynumber: 2.8 Consensus size: 20
530901 CTGCCAGTTT
***
530911 CATGTATCGATACAATTGTG
1 CATGTATCGATACAATTAAA
*
530931 CATGCATCGATACAA-TAAA
1 CATGTATCGATACAATTAAA
530950 CATGTATCGATACAA
1 CATGTATCGATACAA
530965 AGCATAACGT
Statistics
Matches: 29, Mismatches: 5, Indels: 1
0.83 0.14 0.03
Matches are distributed among these distances:
19 15 0.52
20 14 0.48
ACGTcount: A:0.39, C:0.19, G:0.15, T:0.28
Consensus pattern (20 bp):
CATGTATCGATACAATTAAA
Found at i:531594 original size:20 final size:20
Alignment explanation
Indices: 531569--531629 Score: 77
Period size: 20 Copynumber: 3.0 Consensus size: 20
531559 TTTTTACCCA
*
531569 AATGTATTGATACATTTTTC
1 AATGTATTGATACATTTATC
* * *
531589 AATGTATCGATACATATATG
1 AATGTATTGATACATTTATC
531609 AATGTATTGATACATTCTATC
1 AATGTATTGATACATT-TATC
531630 TTTTTACCCA
Statistics
Matches: 33, Mismatches: 7, Indels: 1
0.80 0.17 0.02
Matches are distributed among these distances:
20 30 0.91
21 3 0.09
ACGTcount: A:0.34, C:0.11, G:0.11, T:0.43
Consensus pattern (20 bp):
AATGTATTGATACATTTATC
Found at i:539731 original size:19 final size:20
Alignment explanation
Indices: 539684--539737 Score: 65
Period size: 19 Copynumber: 2.8 Consensus size: 20
539674 CTGCCAGTTT
***
539684 CATGTATCGATACAATTGTG
1 CATGTATCGATACAATTAAA
*
539704 CATGCATCGATACAA-TAAA
1 CATGTATCGATACAATTAAA
539723 CATGTATCGATACAA
1 CATGTATCGATACAA
539738 AGCATAACGT
Statistics
Matches: 29, Mismatches: 5, Indels: 1
0.83 0.14 0.03
Matches are distributed among these distances:
19 15 0.52
20 14 0.48
ACGTcount: A:0.39, C:0.19, G:0.15, T:0.28
Consensus pattern (20 bp):
CATGTATCGATACAATTAAA
Found at i:540366 original size:20 final size:20
Alignment explanation
Indices: 540341--540401 Score: 77
Period size: 20 Copynumber: 3.0 Consensus size: 20
540331 TTTTTACCCA
*
540341 AATGTATTGATACATTTTTC
1 AATGTATTGATACATTTATC
* * *
540361 AATGTATCGATACATATATG
1 AATGTATTGATACATTTATC
540381 AATGTATTGATACATTCTATC
1 AATGTATTGATACATT-TATC
540402 TTTTTACCCA
Statistics
Matches: 33, Mismatches: 7, Indels: 1
0.80 0.17 0.02
Matches are distributed among these distances:
20 30 0.91
21 3 0.09
ACGTcount: A:0.34, C:0.11, G:0.11, T:0.43
Consensus pattern (20 bp):
AATGTATTGATACATTTATC
Found at i:552627 original size:20 final size:19
Alignment explanation
Indices: 552585--552638 Score: 65
Period size: 20 Copynumber: 2.7 Consensus size: 19
552575 GTTTGGGATA
552585 ATGTATCGATACAATTCTTC
1 ATGTATCGATACAATTC-TC
552605 ATGTATCGATACAATGTGC-C
1 ATGTATCGATACAAT-T-CTC
*
552625 ATGTATCGACACAA
1 ATGTATCGATACAA
552639 ACAGTGGTAG
Statistics
Matches: 31, Mismatches: 1, Indels: 4
0.86 0.03 0.11
Matches are distributed among these distances:
20 29 0.94
21 1 0.03
22 1 0.03
ACGTcount: A:0.33, C:0.20, G:0.15, T:0.31
Consensus pattern (19 bp):
ATGTATCGATACAATTCTC
Found at i:552712 original size:19 final size:20
Alignment explanation
Indices: 552667--552720 Score: 74
Period size: 19 Copynumber: 2.8 Consensus size: 20
552657 CTGCCAGTTT
**
552667 CATGTATCGATACAATTGTG
1 CATGTATCGATACAATTGAA
*
552687 TATGTATCGATACAA-TGAA
1 CATGTATCGATACAATTGAA
552706 CATGTATCGATACAA
1 CATGTATCGATACAA
552721 AGTATCGATA
Statistics
Matches: 30, Mismatches: 4, Indels: 1
0.86 0.11 0.03
Matches are distributed among these distances:
19 16 0.53
20 14 0.47
ACGTcount: A:0.37, C:0.15, G:0.17, T:0.31
Consensus pattern (20 bp):
CATGTATCGATACAATTGAA
Found at i:554289 original size:18 final size:20
Alignment explanation
Indices: 554248--554289 Score: 52
Period size: 21 Copynumber: 2.1 Consensus size: 20
554238 AAAAGAGCTA
*
554248 TAATCAAAATAGTTAGTATGT
1 TAATCAAAATA-TTAGTATAT
554269 TAATCAAAAT-TT-GTATAT
1 TAATCAAAATATTAGTATAT
554287 TAA
1 TAA
554290 AAACATATTA
Statistics
Matches: 20, Mismatches: 1, Indels: 3
0.83 0.04 0.12
Matches are distributed among these distances:
18 8 0.40
19 2 0.10
21 10 0.50
ACGTcount: A:0.45, C:0.05, G:0.10, T:0.40
Consensus pattern (20 bp):
TAATCAAAATATTAGTATAT
Found at i:555202 original size:16 final size:16
Alignment explanation
Indices: 555177--555208 Score: 55
Period size: 16 Copynumber: 2.0 Consensus size: 16
555167 ATATAATGTA
555177 CTAATAATCTATAAAT
1 CTAATAATCTATAAAT
*
555193 CTAATTATCTATAAAT
1 CTAATAATCTATAAAT
555209 TTATTAGTTG
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
16 15 1.00
ACGTcount: A:0.47, C:0.12, G:0.00, T:0.41
Consensus pattern (16 bp):
CTAATAATCTATAAAT
Found at i:557254 original size:19 final size:19
Alignment explanation
Indices: 557230--557266 Score: 56
Period size: 19 Copynumber: 1.9 Consensus size: 19
557220 TATTTTTGAC
*
557230 ATTTTTTGGCAAAAATGTA
1 ATTTTTCGGCAAAAATGTA
*
557249 ATTTTTCGTCAAAAATGT
1 ATTTTTCGGCAAAAATGT
557267 TCTAAGTGAA
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
19 16 1.00
ACGTcount: A:0.35, C:0.08, G:0.14, T:0.43
Consensus pattern (19 bp):
ATTTTTCGGCAAAAATGTA
Found at i:559182 original size:3 final size:3
Alignment explanation
Indices: 559166--559210 Score: 72
Period size: 3 Copynumber: 15.0 Consensus size: 3
559156 ACTAATAAAC
* *
559166 CAA CAA TAA TAA CAA CAA CAA CAA CAA CAA CAA CAA CAA CAA CAA
1 CAA CAA CAA CAA CAA CAA CAA CAA CAA CAA CAA CAA CAA CAA CAA
559211 TAATAATAAT
Statistics
Matches: 40, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
3 40 1.00
ACGTcount: A:0.67, C:0.29, G:0.00, T:0.04
Consensus pattern (3 bp):
CAA
Found at i:559215 original size:3 final size:3
Alignment explanation
Indices: 559209--559235 Score: 54
Period size: 3 Copynumber: 9.0 Consensus size: 3
559199 CAACAACAAC
559209 AAT AAT AAT AAT AAT AAT AAT AAT AAT
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT
559236 TATTATTATT
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 24 1.00
ACGTcount: A:0.67, C:0.00, G:0.00, T:0.33
Consensus pattern (3 bp):
AAT
Found at i:560476 original size:19 final size:20
Alignment explanation
Indices: 560438--560476 Score: 53
Period size: 20 Copynumber: 2.0 Consensus size: 20
560428 AGCTATAAAA
* *
560438 TGAAAAAAAATTGAATCTAT
1 TGAAAAAAAATAGAAACTAT
560458 TGAAAAAAAA-AGAAACTAT
1 TGAAAAAAAATAGAAACTAT
560477 AGAGCTTTTT
Statistics
Matches: 17, Mismatches: 2, Indels: 1
0.85 0.10 0.05
Matches are distributed among these distances:
19 7 0.41
20 10 0.59
ACGTcount: A:0.62, C:0.05, G:0.10, T:0.23
Consensus pattern (20 bp):
TGAAAAAAAATAGAAACTAT
Done.