Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Scaffold648
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: 536246
ACGTcount: A:0.34, C:0.16, G:0.16, T:0.34
File 1 of 4
Found at i:176 original size:36 final size:35
Alignment explanation
Indices: 134--224 Score: 112
Period size: 35 Copynumber: 2.5 Consensus size: 35
124 TATAATAAAT
134 TATAAAATATAAATAAAT-TAAAACACACACAAATAA
1 TATAAAA-ATAAATAAATATAAAACACACA-AAATAA
* * *
170 TATAAAAAGAATTAAATATAATACACACAAAATAA
1 TATAAAAATAAATAAATATAAAACACACAAAATAA
205 TATAAAACATAACATAAATA
1 TATAAAA-ATAA-ATAAATA
225 CAAATGTACT
Statistics
Matches: 47, Mismatches: 5, Indels: 5
0.82 0.09 0.09
Matches are distributed among these distances:
35 21 0.45
36 20 0.43
37 6 0.13
ACGTcount: A:0.66, C:0.10, G:0.01, T:0.23
Consensus pattern (35 bp):
TATAAAAATAAATAAATATAAAACACACAAAATAA
Found at i:985 original size:13 final size:12
Alignment explanation
Indices: 958--1037 Score: 51
Period size: 11 Copynumber: 6.8 Consensus size: 12
948 AAAATTAACT
958 TAAA-ATAAAAA
1 TAAATATAAAAA
969 TAAATATAAAAA
1 TAAATATAAAAA
* *
981 GTAAATATAGACA
1 -TAAATATAAAAA
*
994 TAAA-ATAGAAA
1 TAAATATAAAAA
*
1005 -AATTATAAAAA
1 TAAATATAAAAA
* * *
1016 -ATATTTATAAA
1 TAAATATAAAAA
1027 TATAATATAAA
1 TA-AATATAAA
1038 TTTACTAAAT
Statistics
Matches: 52, Mismatches: 12, Indels: 8
0.72 0.17 0.11
Matches are distributed among these distances:
10 2 0.04
11 23 0.44
12 12 0.23
13 15 0.29
ACGTcount: A:0.68, C:0.01, G:0.04, T:0.28
Consensus pattern (12 bp):
TAAATATAAAAA
Found at i:1076 original size:13 final size:13
Alignment explanation
Indices: 1051--1093 Score: 50
Period size: 13 Copynumber: 3.2 Consensus size: 13
1041 ACTAAATATT
1051 TTAAATAATAAAAA
1 TTAAAT-ATAAAAA
*
1065 TTATATATAAAAA
1 TTAAATATAAAAA
*
1078 ATAAATATATAAAA
1 TTAAATATA-AAAA
1092 TT
1 TT
1094 TTTAGCTTCG
Statistics
Matches: 24, Mismatches: 4, Indels: 2
0.80 0.13 0.07
Matches are distributed among these distances:
13 14 0.58
14 10 0.42
ACGTcount: A:0.65, C:0.00, G:0.00, T:0.35
Consensus pattern (13 bp):
TTAAATATAAAAA
Found at i:3899 original size:17 final size:18
Alignment explanation
Indices: 3877--3935 Score: 59
Period size: 17 Copynumber: 3.2 Consensus size: 18
3867 TTTTTATTTT
3877 AATATTTAAATATTTA-A
1 AATATTTAAATATTTATA
*
3894 AATATTT-TATATTTATA
1 AATATTTAAATATTTATA
*
3911 AAAATTTTAACATATTTATA
1 AATA-TTTAA-ATATTTATA
3931 TAATA
1 -AATA
3936 ATATCATATT
Statistics
Matches: 33, Mismatches: 4, Indels: 6
0.77 0.09 0.14
Matches are distributed among these distances:
16 7 0.21
17 11 0.33
18 3 0.09
20 9 0.27
21 3 0.09
ACGTcount: A:0.49, C:0.02, G:0.00, T:0.49
Consensus pattern (18 bp):
AATATTTAAATATTTATA
Found at i:4701 original size:17 final size:17
Alignment explanation
Indices: 4679--4714 Score: 72
Period size: 17 Copynumber: 2.1 Consensus size: 17
4669 TATATCTAAC
4679 ATTTAACTCAAATCTGG
1 ATTTAACTCAAATCTGG
4696 ATTTAACTCAAATCTGG
1 ATTTAACTCAAATCTGG
4713 AT
1 AT
4715 AATATAGGCT
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
17 19 1.00
ACGTcount: A:0.36, C:0.17, G:0.11, T:0.36
Consensus pattern (17 bp):
ATTTAACTCAAATCTGG
Found at i:6834 original size:3 final size:3
Alignment explanation
Indices: 6826--6850 Score: 50
Period size: 3 Copynumber: 8.3 Consensus size: 3
6816 ACAATGAATG
6826 TTA TTA TTA TTA TTA TTA TTA TTA T
1 TTA TTA TTA TTA TTA TTA TTA TTA T
6851 GGGCTTGTTA
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 22 1.00
ACGTcount: A:0.32, C:0.00, G:0.00, T:0.68
Consensus pattern (3 bp):
TTA
Found at i:7137 original size:22 final size:22
Alignment explanation
Indices: 7112--7155 Score: 70
Period size: 22 Copynumber: 2.0 Consensus size: 22
7102 AATCGAGTTA
* *
7112 ATTAAATAAATTTATTTAAATT
1 ATTAAAAAAATTTAATTAAATT
7134 ATTAAAAAAATTTAATTAAATT
1 ATTAAAAAAATTTAATTAAATT
7156 TAAGCGGATA
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
22 20 1.00
ACGTcount: A:0.55, C:0.00, G:0.00, T:0.45
Consensus pattern (22 bp):
ATTAAAAAAATTTAATTAAATT
Found at i:8497 original size:2 final size:2
Alignment explanation
Indices: 8490--8524 Score: 70
Period size: 2 Copynumber: 17.5 Consensus size: 2
8480 TTAAAACTGG
8490 TA 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 TA T
8525 TAAAAAAAAA
Statistics
Matches: 33, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 33 1.00
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (2 bp):
TA
Found at i:9766 original size:124 final size:123
Alignment explanation
Indices: 9543--9789 Score: 449
Period size: 124 Copynumber: 2.0 Consensus size: 123
9533 ATGTTAGTCA
*
9543 AGTTTGACACCATTTTCTTTTTTTTTCTTGTTGGGCTCAGGTCACCACTCCGTGAATCACCGCTC
1 AGTTTGACACCATTTTCTTTTTTTTTCTTGTTGGGCTCAGATCACCACTCCGTGAATCACCGCTC
* * *
9608 CGAATGATGAGCCTTGTAAGATGAAGCAGGCTTTGATACCAATTGATATGGATCTTTG
66 CAAATGATGAGCCTTGTAAGATGAAGCAGACTTTGATACCAATTGATATGGACCTTTG
9666 AGTTTGACACCATTTTCTTTTTTTTTTCTTGTTGGGCTCAGATCACCACTCCGTGAATCACCGCT
1 AGTTTGACACCATTTTC-TTTTTTTTTCTTGTTGGGCTCAGATCACCACTCCGTGAATCACCGCT
9731 CCAAATGATGAGCCTTGTAAGATGAAGCAGACTTTGATACCAATTGATATGGACCTTTG
65 CCAAATGATGAGCCTTGTAAGATGAAGCAGACTTTGATACCAATTGATATGGACCTTTG
9790 GAAAACCACG
Statistics
Matches: 119, Mismatches: 4, Indels: 1
0.96 0.03 0.01
Matches are distributed among these distances:
123 17 0.14
124 102 0.86
ACGTcount: A:0.23, C:0.21, G:0.20, T:0.36
Consensus pattern (123 bp):
AGTTTGACACCATTTTCTTTTTTTTTCTTGTTGGGCTCAGATCACCACTCCGTGAATCACCGCTC
CAAATGATGAGCCTTGTAAGATGAAGCAGACTTTGATACCAATTGATATGGACCTTTG
Found at i:9992 original size:11 final size:11
Alignment explanation
Indices: 9976--10002 Score: 54
Period size: 11 Copynumber: 2.5 Consensus size: 11
9966 TTTGAGTTAA
9976 TTATTATTTTT
1 TTATTATTTTT
9987 TTATTATTTTT
1 TTATTATTTTT
9998 TTATT
1 TTATT
10003 TACCACTTTT
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 16 1.00
ACGTcount: A:0.19, C:0.00, G:0.00, T:0.81
Consensus pattern (11 bp):
TTATTATTTTT
Found at i:10248 original size:13 final size:15
Alignment explanation
Indices: 10219--10251 Score: 52
Period size: 13 Copynumber: 2.3 Consensus size: 15
10209 TCTACATCAA
10219 TATTATAATATTTTT
1 TATTATAATATTTTT
10234 TATTAT-ATA-TTTT
1 TATTATAATATTTTT
10247 TATTA
1 TATTA
10252 ATTTTATGTT
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
13 9 0.50
14 3 0.17
15 6 0.33
ACGTcount: A:0.33, C:0.00, G:0.00, T:0.67
Consensus pattern (15 bp):
TATTATAATATTTTT
Found at i:12507 original size:27 final size:27
Alignment explanation
Indices: 12448--12507 Score: 66
Period size: 27 Copynumber: 2.2 Consensus size: 27
12438 ATATTACTTC
*
12448 ATTTAAATTTAAATTAAAAATAATCAT
1 ATTTAAATTTAAATTAAAAATAATCAG
* * ** *
12475 AATTAATTTTAAATTTTATATAATCAG
1 ATTTAAATTTAAATTAAAAATAATCAG
12502 ATTTAA
1 ATTTAA
12508 GTATATTAAT
Statistics
Matches: 26, Mismatches: 7, Indels: 0
0.79 0.21 0.00
Matches are distributed among these distances:
27 26 1.00
ACGTcount: A:0.50, C:0.03, G:0.02, T:0.45
Consensus pattern (27 bp):
ATTTAAATTTAAATTAAAAATAATCAG
Found at i:14902 original size:2 final size:2
Alignment explanation
Indices: 14895--14920 Score: 52
Period size: 2 Copynumber: 13.0 Consensus size: 2
14885 TTTATTGGGA
14895 AG AG AG AG AG AG AG AG AG AG AG AG AG
1 AG AG AG AG AG AG AG AG AG AG AG AG AG
14921 GCCTGTGGGA
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 24 1.00
ACGTcount: A:0.50, C:0.00, G:0.50, T:0.00
Consensus pattern (2 bp):
AG
Found at i:15256 original size:21 final size:20
Alignment explanation
Indices: 15214--15278 Score: 76
Period size: 20 Copynumber: 3.2 Consensus size: 20
15204 ATTTAAGTAA
*
15214 TTTTTAAAAAATTGGTAATT
1 TTTTTAAAAAATTGATAATT
*
15234 TTTTAAAAAAATTGATAATTT
1 TTTTTAAAAAATTGATAA-TT
* **
15255 TTTTTTAAAAATAAATAATT
1 TTTTTAAAAAATTGATAATT
15275 TTTT
1 TTTT
15279 AAATTAAATT
Statistics
Matches: 38, Mismatches: 6, Indels: 2
0.83 0.13 0.04
Matches are distributed among these distances:
20 22 0.58
21 16 0.42
ACGTcount: A:0.43, C:0.00, G:0.05, T:0.52
Consensus pattern (20 bp):
TTTTTAAAAAATTGATAATT
Found at i:15278 original size:18 final size:18
Alignment explanation
Indices: 15255--15304 Score: 57
Period size: 17 Copynumber: 2.8 Consensus size: 18
15245 TTGATAATTT
15255 TTTTTTAAAAATAAATAA
1 TTTTTTAAAAATAAATAA
* *
15273 TTTTTT-AAATTAAATTA
1 TTTTTTAAAAATAAATAA
* *
15290 TCTTTTAAATATAAA
1 TTTTTTAAAAATAAA
15305 AATGGGCAAA
Statistics
Matches: 26, Mismatches: 5, Indels: 2
0.79 0.15 0.06
Matches are distributed among these distances:
17 14 0.54
18 12 0.46
ACGTcount: A:0.48, C:0.02, G:0.00, T:0.50
Consensus pattern (18 bp):
TTTTTTAAAAATAAATAA
Found at i:15738 original size:20 final size:21
Alignment explanation
Indices: 15713--15756 Score: 63
Period size: 20 Copynumber: 2.1 Consensus size: 21
15703 CATGATATAG
*
15713 TATAATATGTGA-AATTTTTT
1 TATAATATATGAGAATTTTTT
15733 TATAATATATGAGTAATTTTTT
1 TATAATATATGAG-AATTTTTT
15755 TA
1 TA
15757 ATAAATGGGT
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
20 11 0.52
22 10 0.48
ACGTcount: A:0.36, C:0.00, G:0.09, T:0.55
Consensus pattern (21 bp):
TATAATATATGAGAATTTTTT
Found at i:16349 original size:19 final size:19
Alignment explanation
Indices: 16325--16378 Score: 58
Period size: 19 Copynumber: 2.9 Consensus size: 19
16315 ATCTGTATAA
16325 AATTTAAATATTATTATTT
1 AATTTAAATATTATTATTT
* * *
16344 AATTTATATCTAATT-TTT
1 AATTTAAATATTATTATTT
*
16362 AA-TTAAATAATATTATT
1 AATTTAAATATTATTATT
16379 AATCAGATAT
Statistics
Matches: 27, Mismatches: 7, Indels: 3
0.73 0.19 0.08
Matches are distributed among these distances:
17 8 0.30
18 7 0.26
19 12 0.44
ACGTcount: A:0.43, C:0.02, G:0.00, T:0.56
Consensus pattern (19 bp):
AATTTAAATATTATTATTT
Found at i:16351 original size:28 final size:28
Alignment explanation
Indices: 16274--16351 Score: 65
Period size: 28 Copynumber: 2.8 Consensus size: 28
16264 ATATTTTTGT
*
16274 AATA-TATATATTTAAATATATAAAATTTA
1 AATATTAT-TATTT-AATTTATAAAATTTA
*
16303 AAT-TAATT-TATT-ATCTGTATAAAATTTA
1 AATATTATTAT-TTAAT-T-TATAAAATTTA
16331 AATATTATTATTTAATTTATA
1 AATATTATTATTTAATTTATA
16352 TCTAATTTTT
Statistics
Matches: 39, Mismatches: 3, Indels: 15
0.68 0.05 0.26
Matches are distributed among these distances:
26 2 0.05
27 1 0.03
28 21 0.54
29 12 0.31
30 3 0.08
ACGTcount: A:0.47, C:0.01, G:0.01, T:0.50
Consensus pattern (28 bp):
AATATTATTATTTAATTTATAAAATTTA
Found at i:16416 original size:23 final size:24
Alignment explanation
Indices: 16387--16448 Score: 67
Period size: 23 Copynumber: 2.7 Consensus size: 24
16377 TTAATCAGAT
16387 ATTTAAATTTATTAAATATA-TAA
1 ATTTAAATTTATTAAATATATTAA
** *
16410 ATTTAAA-AAATTAAAGATATTAA
1 ATTTAAATTTATTAAATATATTAA
*
16433 ACTT-AATTTATTAAAT
1 ATTTAAATTTATTAAAT
16449 TTTATATTAA
Statistics
Matches: 30, Mismatches: 7, Indels: 4
0.73 0.17 0.10
Matches are distributed among these distances:
22 11 0.37
23 19 0.63
ACGTcount: A:0.53, C:0.02, G:0.02, T:0.44
Consensus pattern (24 bp):
ATTTAAATTTATTAAATATATTAA
Found at i:18448 original size:19 final size:18
Alignment explanation
Indices: 18424--18459 Score: 54
Period size: 18 Copynumber: 1.9 Consensus size: 18
18414 TTATTATTTT
18424 TTAATTGAAATGATATCAC
1 TTAATT-AAATGATATCAC
*
18443 TTAATTTAATGATATCA
1 TTAATTAAATGATATCA
18460 AACTAATTAA
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
18 10 0.62
19 6 0.38
ACGTcount: A:0.42, C:0.08, G:0.08, T:0.42
Consensus pattern (18 bp):
TTAATTAAATGATATCAC
Found at i:18590 original size:16 final size:17
Alignment explanation
Indices: 18569--18611 Score: 52
Period size: 18 Copynumber: 2.5 Consensus size: 17
18559 AGAAAAGTAA
18569 TTTTAAAAGTGA-AATT
1 TTTTAAAAGTGATAATT
*
18585 TTTTAAATAAGTGATATTT
1 TTTT-AA-AAGTGATAATT
18604 TTTTAAAA
1 TTTTAAAA
18612 AAAAATATTA
Statistics
Matches: 23, Mismatches: 1, Indels: 5
0.79 0.03 0.17
Matches are distributed among these distances:
16 4 0.17
17 4 0.17
18 8 0.35
19 7 0.30
ACGTcount: A:0.42, C:0.00, G:0.09, T:0.49
Consensus pattern (17 bp):
TTTTAAAAGTGATAATT
Found at i:23039 original size:219 final size:218
Alignment explanation
Indices: 22584--23255 Score: 891
Period size: 219 Copynumber: 3.0 Consensus size: 218
22574 ATAGATAATG
* * * *
22584 TAAAGTCACCTTTGTAAGTGACTTATCTATAGAGTAAAAGTTGTATTCTTTTACAACATATTTTT
1 TAAAGTCACCTTTGTAAGTGACTTATCTATAG-GCAAAAGTTATGTTCTTTTACAACATATCTTT
* * * *
22649 TTAGTTAAATATTATGTCTTTAG-ATAACAAGTTCATATGTTGAGTTTTTTCTACACAGCTTTTC
65 TTAGTTAAATGTTATGTCTTT-GCATAACAAGTTCATATATTGTGTTTTTTTTACACAGCTTTTC
* * * * *
22713 TGATGTAATAATATATAT-TTTAAATATTATTTAATTTATTTCAAAAAATAAAATAAAATAAATT
129 TGATGCAATAAAAAATATATATAAATATTATTTAATTTATTTCAAAAAATAAAATAAAATAAACT
22777 AAAAAAATAATTGCATCTCCAAATT
194 AAAAAAATAATTGCATCTCCAAATT
* * * *
22802 TAAAATCACATTTGTAAGTGACTTATGTATAAGGCAAAAATTATGTTCTTTTACAACATATCTTT
1 TAAAGTCACCTTTGTAAGTGACTTATCTAT-AGGCAAAAGTTATGTTCTTTTACAACATATCTTT
* * *
22867 TTAATTAAATGGTATGTATTTGCATAACAAGTTCATATATTGTGTTTTTTTTACACAGCTTTTCT
65 TTAGTTAAATGTTATGTCTTTGCATAACAAGTTCATATATTGTGTTTTTTTTACACAGCTTTTCT
* *
22932 GATGCAATAAAAAATATATATAAATATTATTTAATTTATTTCAAAAAATAAAATAAAATAACCAA
130 GATGCAATAAAAAATATATATAAATATTATTTAATTTATTTCAAAAAATAAAATAAAATAAACTA
22997 AAAAAATAATTGCATCTCCAAATT
195 AAAAAATAATTGCATCTCCAAATT
* *
23021 TAAAGTCACCTTTGTAAGTGACTTATCTATAGGACAAAAGTTAAGTTCTTTTACAATATATCTTT
1 TAAAGTCACCTTTGTAAGTGACTTATCTATAGG-CAAAAGTTATGTTCTTTTACAACATATCTTT
* * *
23086 TTAGTTAAATGTTATGTCTTTACCTAACAAGTTCATATCTTGTGTTTTTTTCTACACAGC-TTTC
65 TTAGTTAAATGTTATGTCTTTGCATAACAAGTTCATATATTGTGTTTTTTT-TACACAGCTTTTC
* *
23150 TGATACAATAATATATATATATATATATAAATATTAAATACTATTTAATTCATTTCAAAAAATAA
129 TGATGCAAT-A-A-A-A-A-ATATATAT-AA-A-T--AT--TATTTAATTTATTTCAAAAAATAA
*
23215 AATAAAATAAACTAAAAAAATAATTGCATTTCCAAATT
181 AATAAAATAAACTAAAAAAATAATTGCATCTCCAAATT
23253 TAA
1 TAA
23256 GCCCAAATGC
Statistics
Matches: 397, Mismatches: 39, Indels: 22
0.87 0.09 0.05
Matches are distributed among these distances:
217 1 0.00
218 127 0.32
219 181 0.46
220 9 0.02
221 1 0.00
222 1 0.00
223 1 0.00
224 1 0.00
225 8 0.02
226 2 0.01
227 1 0.00
228 1 0.00
230 2 0.01
232 61 0.15
ACGTcount: A:0.40, C:0.11, G:0.08, T:0.41
Consensus pattern (218 bp):
TAAAGTCACCTTTGTAAGTGACTTATCTATAGGCAAAAGTTATGTTCTTTTACAACATATCTTTT
TAGTTAAATGTTATGTCTTTGCATAACAAGTTCATATATTGTGTTTTTTTTACACAGCTTTTCTG
ATGCAATAAAAAATATATATAAATATTATTTAATTTATTTCAAAAAATAAAATAAAATAAACTAA
AAAAATAATTGCATCTCCAAATT
Found at i:24189 original size:312 final size:312
Alignment explanation
Indices: 23624--24246 Score: 1246
Period size: 312 Copynumber: 2.0 Consensus size: 312
23614 CCACAATTCT
23624 TTGTATTAAAATTGAAGATATATTTCTATCAAAAGTTTTTCACTTTTAGTATTATATTGCCATGT
1 TTGTATTAAAATTGAAGATATATTTCTATCAAAAGTTTTTCACTTTTAGTATTATATTGCCATGT
23689 GCTTATCCTGTTCTTCATAAACATTTACAAGAAAACCGTAACTTTTTCTTGTTGAAGCGACACTA
66 GCTTATCCTGTTCTTCATAAACATTTACAAGAAAACCGTAACTTTTTCTTGTTGAAGCGACACTA
23754 CTTCTTATGTTTATATAGGTAAAGTTCCTAATTGTCCCCATTACTTTGAATACTTAATAAATAAT
131 CTTCTTATGTTTATATAGGTAAAGTTCCTAATTGTCCCCATTACTTTGAATACTTAATAAATAAT
23819 GAACTTTATTAAGAATACCTAGACTCATCCTCTATACGCAATAGATCGCACTAGTATGAAATTCT
196 GAACTTTATTAAGAATACCTAGACTCATCCTCTATACGCAATAGATCGCACTAGTATGAAATTCT
23884 TTTCTTTGGAACGGGCTTCATTAGTGCATTATAGACACATAACAATAACATC
261 TTTCTTTGGAACGGGCTTCATTAGTGCATTATAGACACATAACAATAACATC
23936 TTGTATTAAAATTGAAGATATATTTCTATCAAAAGTTTTTCACTTTTAGTATTATATTGCCATGT
1 TTGTATTAAAATTGAAGATATATTTCTATCAAAAGTTTTTCACTTTTAGTATTATATTGCCATGT
24001 GCTTATCCTGTTCTTCATAAACATTTACAAGAAAACCGTAACTTTTTCTTGTTGAAGCGACACTA
66 GCTTATCCTGTTCTTCATAAACATTTACAAGAAAACCGTAACTTTTTCTTGTTGAAGCGACACTA
24066 CTTCTTATGTTTATATAGGTAAAGTTCCTAATTGTCCCCATTACTTTGAATACTTAATAAATAAT
131 CTTCTTATGTTTATATAGGTAAAGTTCCTAATTGTCCCCATTACTTTGAATACTTAATAAATAAT
24131 GAACTTTATTAAGAATACCTAGACTCATCCTCTATACGCAATAGATCGCACTAGTATGAAATTCT
196 GAACTTTATTAAGAATACCTAGACTCATCCTCTATACGCAATAGATCGCACTAGTATGAAATTCT
24196 TTTCTTTGGAACGGGCTTCATTAGTGCATTATAGACACATAACAATAACAT
261 TTTCTTTGGAACGGGCTTCATTAGTGCATTATAGACACATAACAATAACAT
24247 GGTTTTACCC
Statistics
Matches: 311, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
312 311 1.00
ACGTcount: A:0.33, C:0.17, G:0.12, T:0.38
Consensus pattern (312 bp):
TTGTATTAAAATTGAAGATATATTTCTATCAAAAGTTTTTCACTTTTAGTATTATATTGCCATGT
GCTTATCCTGTTCTTCATAAACATTTACAAGAAAACCGTAACTTTTTCTTGTTGAAGCGACACTA
CTTCTTATGTTTATATAGGTAAAGTTCCTAATTGTCCCCATTACTTTGAATACTTAATAAATAAT
GAACTTTATTAAGAATACCTAGACTCATCCTCTATACGCAATAGATCGCACTAGTATGAAATTCT
TTTCTTTGGAACGGGCTTCATTAGTGCATTATAGACACATAACAATAACATC
Found at i:27782 original size:14 final size:14
Alignment explanation
Indices: 27763--27822 Score: 88
Period size: 13 Copynumber: 4.4 Consensus size: 14
27753 TATTTTTATC
27763 TTTAAAAATAGTTT
1 TTTAAAAATAGTTT
27777 TTT-AAAATAGTTT
1 TTTAAAAATAGTTT
27790 TTT-AAAATAGTTTT
1 TTTAAAAATAG-TTT
*
27804 TTTAAAAATAATTT
1 TTTAAAAATAGTTT
27818 TTTAA
1 TTTAA
27823 GCATGAATGC
Statistics
Matches: 43, Mismatches: 1, Indels: 4
0.90 0.02 0.08
Matches are distributed among these distances:
13 20 0.47
14 17 0.40
15 6 0.14
ACGTcount: A:0.42, C:0.00, G:0.05, T:0.53
Consensus pattern (14 bp):
TTTAAAAATAGTTT
Found at i:28001 original size:82 final size:82
Alignment explanation
Indices: 27860--28106 Score: 422
Period size: 82 Copynumber: 3.0 Consensus size: 82
27850 AGAAAAATGT
* * *
27860 TAGAAAATAAAGAACAAATTCACACAAAATAACGCACACAAAAATACATAAGAATGATGGAGGGT
1 TAGAAAATAAAGAACAAATTCACACAAAATAACGTACACAAAAATACGTAAGAAGGATGGAGGGT
27925 CGAAGTGTGTCTCGTAA
66 CGAAGTGTGTCTCGTAA
* *
27942 TAGAAAATAAATAACAAATTCACATAAAATAACGTACACAAAAATACGTAAGAAGGATGGAGGGT
1 TAGAAAATAAAGAACAAATTCACACAAAATAACGTACACAAAAATACGTAAGAAGGATGGAGGGT
28007 CGAAGTGTGTCTCGTAA
66 CGAAGTGTGTCTCGTAA
* *
28024 TAGAAAATAAAGAACAAATTCATACAAAATAACGTACACAAAAATACGTAAGAAGGATAGAGGGT
1 TAGAAAATAAAGAACAAATTCACACAAAATAACGTACACAAAAATACGTAAGAAGGATGGAGGGT
*
28089 CGAAGTATGTCTCGTAA
66 CGAAGTGTGTCTCGTAA
28106 T
1 T
28107 TGTCTTTGAT
Statistics
Matches: 155, Mismatches: 10, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
82 155 1.00
ACGTcount: A:0.49, C:0.13, G:0.19, T:0.20
Consensus pattern (82 bp):
TAGAAAATAAAGAACAAATTCACACAAAATAACGTACACAAAAATACGTAAGAAGGATGGAGGGT
CGAAGTGTGTCTCGTAA
Found at i:28394 original size:79 final size:78
Alignment explanation
Indices: 28301--28713 Score: 400
Period size: 79 Copynumber: 5.2 Consensus size: 78
28291 AAATTTAATA
* * *
28301 TTTTAGAGATAAAAACGGGGTTGGAGTATCCTCTCAAAAACAACGGGGTTAGAGTATCCCCGATG
1 TTTTAGAAATAAAAACGGGGTTGGAGTATCCTCTCAAAAATAACGGGGTT-GAGTATCCTCGATG
* * *
28366 GTGAAAAATTAATA
65 GTAAAAAATCAATG
* *
28380 TTTTAGAAATAAAAACCGGGGTTGGAGTATCCCCTCAGAAATAACGGGGTTGAAGTATCCTCGAT
1 TTTTAGAAATAAAAA-CGGGGTTGGAGTATCCTCTCAAAAATAACGGGGTTG-AGTATCCTCGAT
***
28445 GGTAAAAAATTGGTG
64 GGTAAAAAATCAATG
* * * * *
28460 TTTTAGAAATAAAATCGGAGTTGGAGTATCTTCTCAAAAATAACGGGGTTGGAGTATCTTTGATG
1 TTTTAGAAATAAAAACGGGGTTGGAGTATCCTCTCAAAAATAACGGGGTT-GAGTATCCTCGATG
* *
28525 GTGAAAAATCAGTG
65 GTAAAAAATCAATG
* * * * * * * *
28539 -TTT-GGAATAAAACCGGGGTTGGAGCAGCATTCC-CTTAGAAATAATGAGATTGAAGTATCCTC
1 TTTTAGAAATAAAAACGGGGTT-G-G-AGTA-TCCTCTCAAAAATAACGGGGTTG-AGTATCCTC
* *
28601 GATTGTAAAAAATCAGTG
61 GATGGTAAAAAATCAATG
* * * * * *
28619 TTTTAGAAGTAAAATCGAGGTTGGAGTATCCTCTCGAAAATAACGAGGTTAGAGTATCCCCGATG
1 TTTTAGAAATAAAAACGGGGTTGGAGTATCCTCTCAAAAATAACGGGGTT-GAGTATCCTCGATG
*
28684 GTAAAAAATCGATG
65 GTAAAAAATCAATG
28698 TTTTAGAAATAAAAAC
1 TTTTAGAAATAAAAAC
28714 ATTAATGAAT
Statistics
Matches: 273, Mismatches: 49, Indels: 24
0.79 0.14 0.07
Matches are distributed among these distances:
77 14 0.05
78 7 0.03
79 123 0.45
80 110 0.40
81 6 0.02
82 13 0.05
ACGTcount: A:0.36, C:0.13, G:0.24, T:0.28
Consensus pattern (78 bp):
TTTTAGAAATAAAAACGGGGTTGGAGTATCCTCTCAAAAATAACGGGGTTGAGTATCCTCGATGG
TAAAAAATCAATG
Found at i:28472 original size:159 final size:161
Alignment explanation
Indices: 28301--28713 Score: 521
Period size: 159 Copynumber: 2.6 Consensus size: 161
28291 AAATTTAATA
* * *
28301 TTTTAGAGATAAAAACGGGGTTGGAGTATCCTCTCAAAAACAACGGGGTTAGAGTATCCCCGATG
1 TTTTAGAAATAAAATCGGGGTTGGAGTATCCTCTCAAAAATAACGGGGTTAGAGTATCCCCGATG
* * *
28366 GTGAAAAATTAATATTTTAGAAATAAAAACCGGGGTT-G-G-AGTATCCCCTCAGAAATAACGGG
66 GTGAAAAATCAAT-TTTTAGAAATAAAAACCGGGGTTGGAGCAGCATCCCCTCAGAAATAACGAG
* **
28428 GTTGAAGTATCCTCGATGGTAAAAAATTGGTG
130 ATTGAAGTATCCTCGATGGTAAAAAATCAGTG
* * * ***
28460 TTTTAGAAATAAAATCGGAGTTGGAGTATCTTCTCAAAAATAACGGGGTTGGAGTATCTTTGATG
1 TTTTAGAAATAAAATCGGGGTTGGAGTATCCTCTCAAAAATAACGGGGTTAGAGTATCCCCGATG
* * * * * *
28525 GTGAAAAATCAGTGTTT-GGAAT-AAAACCGGGGTTGGAGCAGCATTCCCTTAGAAATAATGAGA
66 GTGAAAAATCAATTTTTAGAAATAAAAACCGGGGTTGGAGCAGCATCCCCTCAGAAATAACGAGA
*
28588 TTGAAGTATCCTCGATTGTAAAAAATCAGTG
131 TTGAAGTATCCTCGATGGTAAAAAATCAGTG
* * * *
28619 TTTTAGAAGTAAAATCGAGGTTGGAGTATCCTCTCGAAAATAACGAGGTTAGAGTATCCCCGATG
1 TTTTAGAAATAAAATCGGGGTTGGAGTATCCTCTCAAAAATAACGGGGTTAGAGTATCCCCGATG
* *
28684 GTAAAAAATCGATGTTTTAGAAATAAAAAC
66 GTGAAAAATCAAT-TTTTAGAAATAAAAAC
28714 ATTAATGAAT
Statistics
Matches: 211, Mismatches: 37, Indels: 9
0.82 0.14 0.04
Matches are distributed among these distances:
156 12 0.06
157 5 0.02
158 4 0.02
159 178 0.84
160 3 0.01
161 4 0.02
162 5 0.02
ACGTcount: A:0.36, C:0.13, G:0.24, T:0.28
Consensus pattern (161 bp):
TTTTAGAAATAAAATCGGGGTTGGAGTATCCTCTCAAAAATAACGGGGTTAGAGTATCCCCGATG
GTGAAAAATCAATTTTTAGAAATAAAAACCGGGGTTGGAGCAGCATCCCCTCAGAAATAACGAGA
TTGAAGTATCCTCGATGGTAAAAAATCAGTG
Found at i:31112 original size:20 final size:20
Alignment explanation
Indices: 31064--31137 Score: 69
Period size: 20 Copynumber: 3.7 Consensus size: 20
31054 AAAATACCTG
* **
31064 AATGTATCGATAC-ATTACG
1 AATGTATCGATACAATCAAA
* *
31083 AATATATCGATACAATGAAA
1 AATGTATCGATACAATCAAA
*
31103 AATGTATCGATACAAACAATA
1 AATGTATCGATACAATCAA-A
*
31124 AATGTATTGATACA
1 AATGTATCGATACA
31138 TTTACTTATG
Statistics
Matches: 45, Mismatches: 8, Indels: 2
0.82 0.15 0.04
Matches are distributed among these distances:
19 12 0.27
20 19 0.42
21 14 0.31
ACGTcount: A:0.47, C:0.12, G:0.12, T:0.28
Consensus pattern (20 bp):
AATGTATCGATACAATCAAA
Found at i:31128 original size:21 final size:20
Alignment explanation
Indices: 31087--31137 Score: 66
Period size: 21 Copynumber: 2.5 Consensus size: 20
31077 ATTACGAATA
**
31087 TATCGATACAATGAAAAATG
1 TATCGATACAAACAAAAATG
31107 TATCGATACAAACAATAAATG
1 TATCGATACAAACAA-AAATG
*
31128 TATTGATACA
1 TATCGATACA
31138 TTTACTTATG
Statistics
Matches: 27, Mismatches: 3, Indels: 1
0.87 0.10 0.03
Matches are distributed among these distances:
20 13 0.48
21 14 0.52
ACGTcount: A:0.49, C:0.12, G:0.12, T:0.27
Consensus pattern (20 bp):
TATCGATACAAACAAAAATG
Found at i:32623 original size:26 final size:27
Alignment explanation
Indices: 32562--32626 Score: 80
Period size: 28 Copynumber: 2.4 Consensus size: 27
32552 TTGTTCGAAT
**
32562 TATT-ATTTAATAATAAAAAATATTTT
1 TATTAATTTAATAATAAAAAATATTAA
32588 TATTTAAATTTAATAAT-AAAAATATTAA
1 TA-TT-AATTTAATAATAAAAAATATTAA
32616 TATTAATTTAA
1 TATTAATTTAA
32627 GAATTTTTAA
Statistics
Matches: 34, Mismatches: 2, Indels: 6
0.81 0.05 0.14
Matches are distributed among these distances:
26 9 0.26
27 4 0.12
28 11 0.32
29 10 0.29
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (27 bp):
TATTAATTTAATAATAAAAAATATTAA
Found at i:33857 original size:14 final size:15
Alignment explanation
Indices: 33840--33876 Score: 58
Period size: 15 Copynumber: 2.5 Consensus size: 15
33830 ATTAAGATCG
33840 ATTTATTA-TTTTTA
1 ATTTATTATTTTTTA
33854 ATTTATTATTTTTTA
1 ATTTATTATTTTTTA
*
33869 ATATATTA
1 ATTTATTA
33877 ATTATTACTA
Statistics
Matches: 21, Mismatches: 1, Indels: 1
0.91 0.04 0.04
Matches are distributed among these distances:
14 8 0.38
15 13 0.62
ACGTcount: A:0.32, C:0.00, G:0.00, T:0.68
Consensus pattern (15 bp):
ATTTATTATTTTTTA
Found at i:36519 original size:13 final size:13
Alignment explanation
Indices: 36503--36549 Score: 60
Period size: 13 Copynumber: 3.7 Consensus size: 13
36493 AATTATAAAC
*
36503 TTAATATATTATT
1 TTAATATATAATT
36516 TTAATATATAATT
1 TTAATATATAATT
*
36529 TTAA-ATAAAATT
1 TTAATATATAATT
*
36541 TGAATATAT
1 TTAATATAT
36550 TAAAAGTTTA
Statistics
Matches: 29, Mismatches: 4, Indels: 2
0.83 0.11 0.06
Matches are distributed among these distances:
12 10 0.34
13 19 0.66
ACGTcount: A:0.47, C:0.00, G:0.02, T:0.51
Consensus pattern (13 bp):
TTAATATATAATT
Found at i:36571 original size:5 final size:5
Alignment explanation
Indices: 36561--36585 Score: 50
Period size: 5 Copynumber: 5.0 Consensus size: 5
36551 AAAAGTTTAT
36561 ATATA ATATA ATATA ATATA ATATA
1 ATATA ATATA ATATA ATATA ATATA
36586 TTAAATATTT
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 20 1.00
ACGTcount: A:0.60, C:0.00, G:0.00, T:0.40
Consensus pattern (5 bp):
ATATA
Found at i:37321 original size:13 final size:13
Alignment explanation
Indices: 37303--37332 Score: 51
Period size: 13 Copynumber: 2.3 Consensus size: 13
37293 AAAATCGGTT
37303 ATTCCGTCGAATC
1 ATTCCGTCGAATC
*
37316 ATTCCGTTGAATC
1 ATTCCGTCGAATC
37329 ATTC
1 ATTC
37333 TATTGAACCA
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
13 16 1.00
ACGTcount: A:0.23, C:0.27, G:0.13, T:0.37
Consensus pattern (13 bp):
ATTCCGTCGAATC
Found at i:37813 original size:18 final size:18
Alignment explanation
Indices: 37790--37850 Score: 63
Period size: 18 Copynumber: 3.4 Consensus size: 18
37780 AAGCAGTTAC
*
37790 ATTAATAAATAAATATTA
1 ATTAATTAATAAATATTA
37808 ATTAATTAA-AAATA-TA
1 ATTAATTAATAAATATTA
**
37824 ATTTTTTAATAAAATATTA
1 ATTAATTAAT-AAATATTA
*
37843 ATTCATTA
1 ATTAATTA
37851 TGTTAATAAA
Statistics
Matches: 35, Mismatches: 5, Indels: 5
0.78 0.11 0.11
Matches are distributed among these distances:
16 9 0.26
17 5 0.14
18 13 0.37
19 8 0.23
ACGTcount: A:0.54, C:0.02, G:0.00, T:0.44
Consensus pattern (18 bp):
ATTAATTAATAAATATTA
Found at i:38097 original size:17 final size:16
Alignment explanation
Indices: 38077--38140 Score: 67
Period size: 16 Copynumber: 3.8 Consensus size: 16
38067 TTAATATAAA
38077 TATATGTTTATTAAATT
1 TATAT-TTTATTAAATT
38094 TATATTTTTTATTAAATT
1 TATA--TTTTATTAAATT
*
38112 TGTATTCTTATT-AATT
1 TATATT-TTATTAAATT
38128 TATATTGTTATTA
1 TATATT-TTATTA
38141 TTGTTAATAA
Statistics
Matches: 40, Mismatches: 3, Indels: 8
0.78 0.06 0.16
Matches are distributed among these distances:
16 16 0.40
17 9 0.22
18 14 0.35
19 1 0.03
ACGTcount: A:0.31, C:0.02, G:0.05, T:0.62
Consensus pattern (16 bp):
TATATTTTATTAAATT
Found at i:38106 original size:18 final size:18
Alignment explanation
Indices: 38083--38133 Score: 70
Period size: 18 Copynumber: 2.9 Consensus size: 18
38073 TAAATATATG
38083 TTTATTAAATTTATATTT
1 TTTATTAAATTTATATTT
*
38101 TTTATTAAATTTGTA-TT
1 TTTATTAAATTTATATTT
*
38118 CTTATT-AATTTATATT
1 TTTATTAAATTTATATT
38134 GTTATTATTG
Statistics
Matches: 29, Mismatches: 3, Indels: 3
0.83 0.09 0.09
Matches are distributed among these distances:
16 7 0.24
17 8 0.28
18 14 0.48
ACGTcount: A:0.31, C:0.02, G:0.02, T:0.65
Consensus pattern (18 bp):
TTTATTAAATTTATATTT
Found at i:38133 original size:16 final size:17
Alignment explanation
Indices: 38084--38140 Score: 71
Period size: 16 Copynumber: 3.4 Consensus size: 17
38074 AAATATATGT
*
38084 TTATTAAATTTATATTTT
1 TTATTAAATTTATA-TTC
*
38102 TTATTAAATTTGTATTC
1 TTATTAAATTTATATTC
*
38119 TTATT-AATTTATATTG
1 TTATTAAATTTATATTC
38135 TTATTA
1 TTATTA
38141 TTGTTAATAA
Statistics
Matches: 34, Mismatches: 4, Indels: 3
0.83 0.10 0.07
Matches are distributed among these distances:
16 14 0.41
17 7 0.21
18 13 0.38
ACGTcount: A:0.32, C:0.02, G:0.04, T:0.63
Consensus pattern (17 bp):
TTATTAAATTTATATTC
Found at i:40659 original size:8 final size:8
Alignment explanation
Indices: 40648--40721 Score: 51
Period size: 8 Copynumber: 8.8 Consensus size: 8
40638 ATAAAATATT
40648 AAAATTAA
1 AAAATTAA
40656 AAAATTTAAA
1 AAAA-TT-AA
40666 AGAAATTAA
1 A-AAATTAA
**
40675 AAAATTTT
1 AAAATTAA
*
40683 AAATTGTAGA
1 AAAAT-TA-A
*
40693 AAAAATAA
1 AAAATTAA
*
40701 AAATTTAA
1 AAAATTAA
40709 AAAA-TAA
1 AAAATTAA
40716 AAAATT
1 AAAATT
40722 TTTATATAAA
Statistics
Matches: 50, Mismatches: 10, Indels: 12
0.69 0.14 0.17
Matches are distributed among these distances:
7 7 0.14
8 24 0.48
9 8 0.16
10 8 0.16
11 3 0.06
ACGTcount: A:0.68, C:0.00, G:0.04, T:0.28
Consensus pattern (8 bp):
AAAATTAA
Found at i:41156 original size:13 final size:14
Alignment explanation
Indices: 41102--41159 Score: 59
Period size: 13 Copynumber: 4.1 Consensus size: 14
41092 TTAATTTAAA
*
41102 AATAATAATATTTT
1 AATAATATTATTTT
41116 AATAA-ATT-TTCTT
1 AATAATATTATT-TT
41129 AAAATAATATTATTTT
1 --AATAATATTATTTT
41145 AATAAT-TTATTTT
1 AATAATATTATTTT
41158 AA
1 AA
41160 ATTTAACAGT
Statistics
Matches: 38, Mismatches: 1, Indels: 11
0.76 0.02 0.22
Matches are distributed among these distances:
12 2 0.05
13 13 0.34
14 11 0.29
15 5 0.13
16 5 0.13
17 2 0.05
ACGTcount: A:0.47, C:0.02, G:0.00, T:0.52
Consensus pattern (14 bp):
AATAATATTATTTT
Found at i:41159 original size:29 final size:30
Alignment explanation
Indices: 41084--41160 Score: 95
Period size: 29 Copynumber: 2.6 Consensus size: 30
41074 TATTTTGTGG
* * *
41084 TTAAAAAATTAATTTAAAAATAATAATATT
1 TTAATAAATTTATTTTAAAATAATAATATT
* *
41114 TTAATAAATTT-TCTTAAAATAATATTATT
1 TTAATAAATTTATTTTAAAATAATAATATT
41143 TTAAT-AATTTATTTTAAA
1 TTAATAAATTTATTTTAAA
41161 TTTAACAGTA
Statistics
Matches: 40, Mismatches: 6, Indels: 3
0.82 0.12 0.06
Matches are distributed among these distances:
28 5 0.12
29 26 0.65
30 9 0.22
ACGTcount: A:0.51, C:0.01, G:0.00, T:0.48
Consensus pattern (30 bp):
TTAATAAATTTATTTTAAAATAATAATATT
Found at i:41336 original size:1 final size:1
Alignment explanation
Indices: 41332--41360 Score: 58
Period size: 1 Copynumber: 29.0 Consensus size: 1
41322 TTTTTATTGT
41332 GGGGGGGGGGGGGGGGGGGGGGGGGGGGG
1 GGGGGGGGGGGGGGGGGGGGGGGGGGGGG
41361 TAAATACAGG
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
1 28 1.00
ACGTcount: A:0.00, C:0.00, G:1.00, T:0.00
Consensus pattern (1 bp):
G
Found at i:45426 original size:17 final size:18
Alignment explanation
Indices: 45406--45439 Score: 61
Period size: 18 Copynumber: 1.9 Consensus size: 18
45396 TGACAATTTT
45406 AATT-TCATTATTTTAAC
1 AATTGTCATTATTTTAAC
45423 AATTGTCATTATTTTAA
1 AATTGTCATTATTTTAA
45440 TGTTTGATAT
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
17 4 0.25
18 12 0.75
ACGTcount: A:0.35, C:0.09, G:0.03, T:0.53
Consensus pattern (18 bp):
AATTGTCATTATTTTAAC
Found at i:45496 original size:22 final size:22
Alignment explanation
Indices: 45468--45511 Score: 88
Period size: 22 Copynumber: 2.0 Consensus size: 22
45458 TTTAATGTGA
45468 TTTTATATTAATATCAATATTT
1 TTTTATATTAATATCAATATTT
45490 TTTTATATTAATATCAATATTT
1 TTTTATATTAATATCAATATTT
45512 GTTAACATAA
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
22 22 1.00
ACGTcount: A:0.36, C:0.05, G:0.00, T:0.59
Consensus pattern (22 bp):
TTTTATATTAATATCAATATTT
Found at i:45916 original size:14 final size:15
Alignment explanation
Indices: 45878--45922 Score: 56
Period size: 14 Copynumber: 3.0 Consensus size: 15
45868 TATATTTAAA
*
45878 TATTTAAATAATTTAT
1 TATTTAAATAA-TAAT
45894 TATTTAAATAATAAT
1 TATTTAAATAATAAT
*
45909 TA-TTAAATAGTAAT
1 TATTTAAATAATAAT
45923 GATAACTTAT
Statistics
Matches: 27, Mismatches: 2, Indels: 2
0.87 0.06 0.06
Matches are distributed among these distances:
14 11 0.41
15 5 0.19
16 11 0.41
ACGTcount: A:0.49, C:0.00, G:0.02, T:0.49
Consensus pattern (15 bp):
TATTTAAATAATAAT
Found at i:46374 original size:2 final size:2
Alignment explanation
Indices: 46367--46410 Score: 70
Period size: 2 Copynumber: 22.0 Consensus size: 2
46357 ACATAGAATA
* *
46367 AT AT AT AT AC AT AT AC 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 AT AT AT AT
46409 AT
1 AT
46411 GGGGGTCTAA
Statistics
Matches: 38, Mismatches: 4, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
2 38 1.00
ACGTcount: A:0.50, C:0.05, G:0.00, T:0.45
Consensus pattern (2 bp):
AT
Found at i:46505 original size:2 final size:2
Alignment explanation
Indices: 46498--46545 Score: 96
Period size: 2 Copynumber: 24.0 Consensus size: 2
46488 TTTCTAGTGC
46498 AT AT AT AT 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 AT AT AT AT
46540 AT AT AT
1 AT AT AT
46546 GGTAGAACCT
Statistics
Matches: 46, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 46 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:46596 original size:2 final size:2
Alignment explanation
Indices: 46589--46617 Score: 58
Period size: 2 Copynumber: 14.5 Consensus size: 2
46579 ATGAAAATAT
46589 TC TC TC TC TC TC TC TC TC TC TC TC TC TC T
1 TC TC TC TC TC TC TC TC TC TC TC TC TC TC T
46618 ATATATATAT
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 27 1.00
ACGTcount: A:0.00, C:0.48, G:0.00, T:0.52
Consensus pattern (2 bp):
TC
Found at i:46622 original size:2 final size:2
Alignment explanation
Indices: 46617--46642 Score: 52
Period size: 2 Copynumber: 13.0 Consensus size: 2
46607 TCTCTCTCTC
46617 TA TA TA TA TA TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA
46643 ATTAATTCTT
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 24 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
TA
Found at i:47017 original size:16 final size:14
Alignment explanation
Indices: 46995--47030 Score: 54
Period size: 16 Copynumber: 2.4 Consensus size: 14
46985 CATATTGATA
46995 TTTAAATATTAAATT
1 TTTAAATATT-AATT
47010 TATTAAATATTAATT
1 T-TTAAATATTAATT
47025 TTTAAA
1 TTTAAA
47031 AATAATTACA
Statistics
Matches: 20, Mismatches: 0, Indels: 3
0.87 0.00 0.13
Matches are distributed among these distances:
14 5 0.25
15 6 0.30
16 9 0.45
ACGTcount: A:0.47, C:0.00, G:0.00, T:0.53
Consensus pattern (14 bp):
TTTAAATATTAATT
Found at i:47941 original size:22 final size:20
Alignment explanation
Indices: 47899--47950 Score: 52
Period size: 21 Copynumber: 2.5 Consensus size: 20
47889 TAAATATTAA
*
47899 AAAAAATTATATTAATGTTT
1 AAAAAATTTTATTAATGTTT
47919 ATAAAAATTTTAATTAAAT-TTT
1 A-AAAAATTTT-ATT-AATGTTT
*
47941 AATAAATTTT
1 AAAAAATTTT
47951 TTTATTAATT
Statistics
Matches: 27, Mismatches: 2, Indels: 5
0.79 0.06 0.15
Matches are distributed among these distances:
20 1 0.04
21 16 0.59
22 7 0.26
23 3 0.11
ACGTcount: A:0.50, C:0.00, G:0.02, T:0.48
Consensus pattern (20 bp):
AAAAAATTTTATTAATGTTT
Found at i:47960 original size:22 final size:21
Alignment explanation
Indices: 47899--47960 Score: 52
Period size: 22 Copynumber: 2.8 Consensus size: 21
47889 TAAATATTAA
* *
47899 AAAAAATTATATTAATGTTTAT
1 AAAAATTTTTATTAAT-TTTAT
*
47921 AAAAATTTTAATTAAATTTTAAT
1 AAAAATTTTTATT-AATTTT-AT
**
47944 AAATTTTTTTATTAATT
1 AAAAATTTTTATTAATT
47961 AAACACCGAA
Statistics
Matches: 32, Mismatches: 6, Indels: 4
0.76 0.14 0.10
Matches are distributed among these distances:
22 17 0.53
23 15 0.47
ACGTcount: A:0.47, C:0.00, G:0.02, T:0.52
Consensus pattern (21 bp):
AAAAATTTTTATTAATTTTAT
Found at i:53121 original size:15 final size:15
Alignment explanation
Indices: 53087--53121 Score: 52
Period size: 15 Copynumber: 2.3 Consensus size: 15
53077 ATGTTTTTAT
*
53087 AAAAATAAAAAAATT
1 AAAAATAAAAAAATA
*
53102 TAAAATAAAAAAATA
1 AAAAATAAAAAAATA
53117 AAAAA
1 AAAAA
53122 AGTTTTTTAT
Statistics
Matches: 17, Mismatches: 3, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
15 17 1.00
ACGTcount: A:0.83, C:0.00, G:0.00, T:0.17
Consensus pattern (15 bp):
AAAAATAAAAAAATA
Found at i:53162 original size:134 final size:130
Alignment explanation
Indices: 52895--53245 Score: 495
Period size: 134 Copynumber: 2.7 Consensus size: 130
52885 ATTTTTAACA
*
52895 AAAAATAATATTTAATT-AGTTTAAAAAATTACATTAACAAATTAAAATATT-A--ATTAT-TTT
1 AAAAATAATATTTAATTAAGTTTAAAAATTTACATTAACAAATTAAAATATTAATTATTATGTTT
* ** *
52955 TTTCAAAT-AAAAAATTT-AAAT-AAAAAATAAAAAGGGTTTATTATTATTTTTTTAATAAAATT
66 TTTAAAATAAAAAAATTTAAAATAAAAAAATAAAAAAAGTTTATTATTATATTTTTAATAAAATT
*
53017 AAAAATAATATTTAATTAAGTTTAAAACTTTTACATTAACAAATTAAAATATTAATTATTATGTT
1 AAAAATAATATTTAATTAAGTTTAAAA-ATTTACATTAACAAATTAAAATATTAATTATTATGTT
*
53082 TTTATAAAAATAAAAAAATTTAAAATAAAAAAATAAAAAAAGTTTTTTATTATAATTTTTAATAA
65 TTT-T-AAAATAAAAAAATTTAAAATAAAAAAATAAAAAAAGTTTATTATTAT-ATTTTTAATAA
53147 AA-T
127 AATT
*
53150 AAAAAGTAATATTTAATTAAGTTTAAAAAATTTACATTAACAAATTAAAATATTAATTATTATGA
1 AAAAA-TAATATTTAATTAAGTTT-AAAAATTTACATTAACAAATTAAAATATTAATTATTATGT
* *
53215 TTTTTAAAATAAAAAATTTTAAATTAAAAAA
64 TTTTTAAAATAAAAAAATTTAAAATAAAAAA
53246 GGTTTTTTAT
Statistics
Matches: 204, Mismatches: 11, Indels: 18
0.88 0.05 0.08
Matches are distributed among these distances:
122 17 0.08
123 9 0.04
124 23 0.11
125 1 0.00
127 5 0.02
128 5 0.02
129 1 0.00
130 4 0.02
131 9 0.04
132 28 0.14
133 30 0.15
134 68 0.33
135 4 0.02
ACGTcount: A:0.54, C:0.02, G:0.03, T:0.40
Consensus pattern (130 bp):
AAAAATAATATTTAATTAAGTTTAAAAATTTACATTAACAAATTAAAATATTAATTATTATGTTT
TTTAAAATAAAAAAATTTAAAATAAAAAAATAAAAAAAGTTTATTATTATATTTTTAATAAAATT
Found at i:53243 original size:14 final size:15
Alignment explanation
Indices: 53216--53245 Score: 51
Period size: 15 Copynumber: 2.0 Consensus size: 15
53206 TTATTATGAT
53216 TTTTAAAATAAAAAA
1 TTTTAAAATAAAAAA
*
53231 TTTTAAATTAAAAAA
1 TTTTAAAATAAAAAA
53246 GGTTTTTTAT
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
15 14 1.00
ACGTcount: A:0.63, C:0.00, G:0.00, T:0.37
Consensus pattern (15 bp):
TTTTAAAATAAAAAA
Found at i:56165 original size:79 final size:79
Alignment explanation
Indices: 55946--56305 Score: 442
Period size: 79 Copynumber: 4.6 Consensus size: 79
55936 TTTTTTTTCT
* * * *
55946 TTTC-AAAACACCGACTTTTCACAATC-GGAGATACTCCAACCCCATTATTTTTGAGGGGATACT
1 TTTCTAAAACATCGATTTTTCACAATCAGG-GATACTCCAACCCCGTTATTTTTGAAGGGATACT
*
56009 CTAA-CTCCGGCCTTA
65 CCAACCT-CGGCCTTA
*
56024 TTTCTAAAACATCGAATTTTCACAATCA-GGATACTCCAACCCCGTTATTTTTGAAGGGATACTC
1 TTTCTAAAACATCGATTTTTCACAATCAGGGATACTCCAACCCCGTTATTTTTGAAGGGATACTC
*
56088 CAACCTCGGCTTTA
66 CAACCTCGGCCTTA
* * *
56102 TTTCTAAAACATCGATTTTTTACAATCAGGGATACTCCAACCCCGTTATTTTTTAAGGGATACTT
1 TTTCTAAAACATCGATTTTTCACAATCAGGGATACTCCAACCCCGTTATTTTTGAAGGGATACTC
*
56167 CAACCCCGGCCTTA
66 CAACCTCGGCCTTA
** ** **
56181 TTTCTAAAACATCGATTTTTCACAATTGGGGATACTCCAACCCTATTATTTTTGAAAAGATACTC
1 TTTCTAAAACATCGATTTTTCACAATCAGGGATACTCCAACCCCGTTATTTTTGAAGGGATACTC
*** *
56246 CAACCTC-AATTTG
66 CAACCTCGGCCTTA
* ** *
56259 TTTCCAAAACATCGATTTTTCACAATTGGGGATACTTCAACCCCGTT
1 TTTCTAAAACATCGATTTTTCACAATCAGGGATACTCCAACCCCGTT
56306 TTTATCTCTA
Statistics
Matches: 248, Mismatches: 30, Indels: 8
0.87 0.10 0.03
Matches are distributed among these distances:
78 117 0.47
79 131 0.53
ACGTcount: A:0.29, C:0.25, G:0.12, T:0.33
Consensus pattern (79 bp):
TTTCTAAAACATCGATTTTTCACAATCAGGGATACTCCAACCCCGTTATTTTTGAAGGGATACTC
CAACCTCGGCCTTA
Found at i:56268 original size:157 final size:156
Alignment explanation
Indices: 55949--56305 Score: 475
Period size: 157 Copynumber: 2.3 Consensus size: 156
55939 TTTTTCTTTT
* * * *
55949 CAAAACACCGACTTTTCACAATCGGAGATACTCCAACCCCATTATTTTTGAGGGGATACTCTAAC
1 CAAAACATCGATTTTTCACAATCGG-GATACTCCAACCCCGTTATTTTTGAAGGGATACTCTAAC
* *
56014 TCCGGCCTTATTTCTAAAACATCGAATTTTCACAATCAGGATACTCCAACCCCGTTATTTTTGAA
65 CCCGGCCTTATTTCTAAAACATCGAATTTTCACAATCAGGATACTCCAACCCCATTATTTTTGAA
** **
56079 GGGATACTCCAACCTCGGCTTTATTTC
130 AAGATACTCCAACCTCGAATTTATTTC
* * *
56106 TAAAACATCGATTTTTTACAATCAGGGATACTCCAACCCCGTTATTTTTTAAGGGATACT-TCAA
1 CAAAACATCGATTTTTCACAATC-GGGATACTCCAACCCCGTTATTTTTGAAGGGATACTCT-AA
* ** *
56170 CCCCGGCCTTATTTCTAAAACATCGATTTTTCACAATTGGGGATACTCCAACCCTATTATTTTTG
64 CCCCGGCCTTATTTCTAAAACATCGAATTTTCACAA-TCAGGATACTCCAACCCCATTATTTTTG
*
56235 AAAAGATACTCCAACCTC-AATTTGTTTC
128 AAAAGATACTCCAACCTCGAATTTATTTC
* *
56263 CAAAACATCGATTTTTCACAATTGGGGATACTTCAACCCCGTT
1 CAAAACATCGATTTTTCACAA-TCGGGATACTCCAACCCCGTT
56306 TTTATCTCTA
Statistics
Matches: 174, Mismatches: 22, Indels: 8
0.85 0.11 0.04
Matches are distributed among these distances:
156 1 0.01
157 130 0.75
158 43 0.25
ACGTcount: A:0.29, C:0.25, G:0.13, T:0.32
Consensus pattern (156 bp):
CAAAACATCGATTTTTCACAATCGGGATACTCCAACCCCGTTATTTTTGAAGGGATACTCTAACC
CCGGCCTTATTTCTAAAACATCGAATTTTCACAATCAGGATACTCCAACCCCATTATTTTTGAAA
AGATACTCCAACCTCGAATTTATTTC
Found at i:57410 original size:13 final size:13
Alignment explanation
Indices: 57392--57416 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
57382 ATGCATGAAT
57392 TATATTAGAGAAG
1 TATATTAGAGAAG
57405 TATATTAGAGAA
1 TATATTAGAGAA
57417 TTAAATTCTT
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:0.48, C:0.00, G:0.20, T:0.32
Consensus pattern (13 bp):
TATATTAGAGAAG
Found at i:57565 original size:88 final size:87
Alignment explanation
Indices: 57421--57618 Score: 236
Period size: 88 Copynumber: 2.3 Consensus size: 87
57411 AGAGAATTAA
* *
57421 ATTCTTTTTTTATAAAAAAAAAGTTGATTGAGTATAAATGTCGAACTACAAAGATTAGACTAATG
1 ATTC-TTTTTGATAAAAAAAAAGTTGATTGAGTATAAATATCGAACTACAAAGATTAGACTAATG
* * *
57486 CATGAATTATATTTGAGAATCTG
65 CATGAATTATATCTAAGAATCAG
* * * * * *
57509 GTTCTTTTTGATAGGAAAAAAAGTTGATTGATTGTAAATATC-AGACTATAAGGATTAGACTAAT
1 ATTCTTTTTGATA-AAAAAAAAGTTGATTGAGTATAAATATCGA-ACTACAAAGATTAGACTAAT
* *
57573 GTATGAATTTTATCTAAGAATCAG
64 GCATGAATTATATCTAAGAATCAG
*
57597 ATTCTTTTTTATAAAAAAAAAG
1 ATTCTTTTTGATAAAAAAAAAG
57619 AAAGACTGCA
Statistics
Matches: 92, Mismatches: 16, Indels: 5
0.81 0.14 0.04
Matches are distributed among these distances:
87 17 0.18
88 75 0.82
ACGTcount: A:0.41, C:0.07, G:0.15, T:0.37
Consensus pattern (87 bp):
ATTCTTTTTGATAAAAAAAAAGTTGATTGAGTATAAATATCGAACTACAAAGATTAGACTAATGC
ATGAATTATATCTAAGAATCAG
Found at i:57664 original size:70 final size:68
Alignment explanation
Indices: 57558--57758 Score: 248
Period size: 67 Copynumber: 2.9 Consensus size: 68
57548 ATCAGACTAT
*
57558 AAGGATTAGACTAATGTATGAATTTTATCTA-AGAATCAGATTCTTTTTTATAAAAAAAAAGAAA
1 AAGGATTAGACTAATGTATGAATTATATC-AGAGAATCAGATTCTTTTTTAT-AAAAAAAAGAAA
57622 GACTGC
64 -ACTGC
*
57628 AAGGATTAGACTAATGTATGAATTATATCAGAGAATCAAAATT-TTTTTTATAAAAAAAAG-AAA
1 AAGGATTAGACTAATGTATGAATTATATCAGAGAATC-AGATTCTTTTTTATAAAAAAAAGAAAA
*
57691 CTGT
65 CTGC
* ** * * *
57695 AAGAATTAGACTAATACATGAATTGTATCTGA-AATTAGATTCTTTTTTCATAAAAAAAAGAAAA
1 AAGGATTAGACTAATGTATGAATTATATCAGAGAATCAGATTCTTTTTT-ATAAAAAAAAGAAAA
57759 GTTGATTGAA
Statistics
Matches: 116, Mismatches: 10, Indels: 12
0.84 0.07 0.09
Matches are distributed among these distances:
65 4 0.03
66 9 0.08
67 42 0.36
68 5 0.04
69 10 0.09
70 42 0.36
71 4 0.03
ACGTcount: A:0.47, C:0.07, G:0.13, T:0.33
Consensus pattern (68 bp):
AAGGATTAGACTAATGTATGAATTATATCAGAGAATCAGATTCTTTTTTATAAAAAAAAGAAAAC
TGC
Found at i:57986 original size:92 final size:91
Alignment explanation
Indices: 57699--58129 Score: 407
Period size: 92 Copynumber: 4.8 Consensus size: 91
57689 AACTGTAAGA
* * * * **
57699 ATTAGACTAATACATGAATTGTATCTGA-AATTAGATTCTTTTTTCATA-AAAAAAAGAAAAGTT
1 ATTAGACTAATGCATAAATTATATCAGAGAATCGGATT-TTTTTT-ATAGAAAAAAAGAAAAGTT
* * * * *
57762 GATTGAATGTAAATGTTATACTGCAAGG
64 GATTGAGTATAAATGTCAAACTGCAAAG
* * * **
57790 ATTAGACTAATGCATGAATTATATTAGAGAATCGGATTCTTTTTTATAAAAAAAAAAGAAATTTT
1 ATTAGACTAATGCATAAATTATATCAGAGAATCGGATT-TTTTTTAT-AGAAAAAAAGAAAAGTT
*
57855 GATTAAGTATAAATGTCAAACTGC-AAG
64 GATTGAGTATAAATGTCAAACTGCAAAG
57882 AATTAGACTAATGCATAAATTATATCAGAGAATCGGATTTTTTTTATAGACAAAAAAGAAAAGTT
1 -ATTAGACTAATGCATAAATTATATCAGAGAATCGGATTTTTTTTATAGA-AAAAAAGAAAAGTT
* * *
57947 GATTGAGTATAAATGTCAGACTCCAAAT
64 GATTGAGTATAAATGTCAAACTGCAAAG
* * * *
57975 ATTAGATTAATGTATGAATTATATCAGAGAATCGTA-TTTTTTTATAG----AAA-AAAAGTTGA
1 ATTAGACTAATGCATAAATTATATCAGAGAATCGGATTTTTTTTATAGAAAAAAAGAAAAGTTGA
* * * *
58034 TTGA-TCGTAAATGTTAAACTGTAAGG
66 TTGAGT-ATAAATGTCAAACTGCAAAG
* ** **
58060 ATTAGACTAATGCATAGATTATATTTGAGAATCAAATTTCTTTTTATAGAAAAACAA-AAAAGTT
1 ATTAGACTAATGCATAAATTATATCAGAGAATCGGATTT-TTTTTATAGAAAAA-AAGAAAAGTT
58124 GATTGA
64 GATTGA
58130 TTTTATATAT
Statistics
Matches: 284, Mismatches: 42, Indels: 27
0.80 0.12 0.08
Matches are distributed among these distances:
84 1 0.00
85 54 0.19
86 5 0.02
87 9 0.03
91 40 0.14
92 105 0.37
93 70 0.25
ACGTcount: A:0.43, C:0.07, G:0.15, T:0.35
Consensus pattern (91 bp):
ATTAGACTAATGCATAAATTATATCAGAGAATCGGATTTTTTTTATAGAAAAAAAGAAAAGTTGA
TTGAGTATAAATGTCAAACTGCAAAG
Found at i:58006 original size:185 final size:176
Alignment explanation
Indices: 57688--58129 Score: 496
Period size: 177 Copynumber: 2.5 Consensus size: 176
57678 TAAAAAAAAG
* * * *
57688 AAACTGTAAGAATTAGACTAATACATGAATTGTATCTGA-AATTAGATTCTTTTTTCATA-AAAA
1 AAACTGTAAGAATTAGACTAATGCATAAATTATATCTGAGAATCAGATT-TTTTTT-ATAGAAAA
* * * * * *
57751 AAAGAAAAGTTGATTGAATGTAAATGTTATACTGCAAGGATTAGACTAATGCATGAATTATATTA
64 AAAGAAAAGTTGATTGAATATAAATGTCAGACTCCAAAGATTAGACTAATGCATGAATTATATCA
57816 GAGAATCGGATTCTTTTTTATAAAAAAAAAAGAAATTTTGATTAAGT-ATAAATGTC
129 GAGAATCGGA-T-TTTTTTAT-AAAAAAAAAG-----TTGATTAA-TCATAAATGTC
* * *
57872 AAACTGCAAGAATTAGACTAATGCATAAATTATATCAGAGAATCGGATTTTTTTTATAGACAAAA
1 AAACTGTAAGAATTAGACTAATGCATAAATTATATCTGAGAATCAGATTTTTTTTATAGA-AAAA
* * * *
57937 AAGAAAAGTTGATTGAGTATAAATGTCAGACTCCAAATATTAGATTAATGTATGAATTATATCAG
65 AAGAAAAGTTGATTGAATATAAATGTCAGACTCCAAAGATTAGACTAATGCATGAATTATATCAG
* * * * *
58002 AGAATCGTATTTTTTTATAGAAAAAAAGTTGATTGATCGTAAATGTT
130 AGAATCGGATTTTTTTATAAAAAAAAAGTTGATTAATCATAAATGTC
* * * *
58049 AAACTGTAAGGATTAGACTAATGCATAGATTATATTTGAGAATCAAATTTCTTTTTATAGAAAAA
1 AAACTGTAAGAATTAGACTAATGCATAAATTATATCTGAGAATCAGATTT-TTTTTATAGAAAAA
58114 CAA-AAAAGTTGATTGA
65 -AAGAAAAGTTGATTGA
58130 TTTTATATAT
Statistics
Matches: 223, Mismatches: 29, Indels: 19
0.82 0.11 0.07
Matches are distributed among these distances:
176 1 0.00
177 74 0.33
178 12 0.05
182 9 0.04
183 11 0.05
184 42 0.19
185 74 0.33
ACGTcount: A:0.43, C:0.07, G:0.15, T:0.34
Consensus pattern (176 bp):
AAACTGTAAGAATTAGACTAATGCATAAATTATATCTGAGAATCAGATTTTTTTTATAGAAAAAA
AGAAAAGTTGATTGAATATAAATGTCAGACTCCAAAGATTAGACTAATGCATGAATTATATCAGA
GAATCGGATTTTTTTATAAAAAAAAAGTTGATTAATCATAAATGTC
Found at i:60942 original size:19 final size:20
Alignment explanation
Indices: 60899--60949 Score: 70
Period size: 20 Copynumber: 2.6 Consensus size: 20
60889 TACAAGCCAA
*
60899 TGTATCGATACATTTTATGG
1 TGTATCGATACATCTTATGG
60919 TGTATCGATACATACTT-T-G
1 TGTATCGATACAT-CTTATGG
60938 TGTATCGATACA
1 TGTATCGATACA
60950 AGTTTGGCTA
Statistics
Matches: 29, Mismatches: 1, Indels: 3
0.88 0.03 0.09
Matches are distributed among these distances:
19 13 0.45
20 14 0.48
21 2 0.07
ACGTcount: A:0.27, C:0.14, G:0.18, T:0.41
Consensus pattern (20 bp):
TGTATCGATACATCTTATGG
Found at i:66110 original size:34 final size:35
Alignment explanation
Indices: 66072--66138 Score: 102
Period size: 37 Copynumber: 1.9 Consensus size: 35
66062 CCTTACAACA
66072 CTATC-TTTC-AAGGCTAAGATAGAAACCTCTCTCT
1 CTATCTTTTCAAAGGCTAAGATAG-AACCTCTCTCT
66106 CTATCTTTTTCAAAGGCTAAGATAGAACCTCTC
1 CTATC-TTTTCAAAGGCTAAGATAGAACCTCTC
66139 AATCACTTAG
Statistics
Matches: 30, Mismatches: 0, Indels: 4
0.88 0.00 0.12
Matches are distributed among these distances:
34 5 0.17
36 12 0.40
37 13 0.43
ACGTcount: A:0.30, C:0.25, G:0.12, T:0.33
Consensus pattern (35 bp):
CTATCTTTTCAAAGGCTAAGATAGAACCTCTCTCT
Found at i:66610 original size:19 final size:20
Alignment explanation
Indices: 66567--66617 Score: 70
Period size: 20 Copynumber: 2.6 Consensus size: 20
66557 TACAAGCCAA
*
66567 TGTATCGATACATTTTATGG
1 TGTATCGATACATCTTATGG
66587 TGTATCGATACATACTT-T-G
1 TGTATCGATACAT-CTTATGG
66606 TGTATCGATACA
1 TGTATCGATACA
66618 AGTTTGGCTA
Statistics
Matches: 29, Mismatches: 1, Indels: 3
0.88 0.03 0.09
Matches are distributed among these distances:
19 13 0.45
20 14 0.48
21 2 0.07
ACGTcount: A:0.27, C:0.14, G:0.18, T:0.41
Consensus pattern (20 bp):
TGTATCGATACATCTTATGG
Found at i:69085 original size:22 final size:21
Alignment explanation
Indices: 69015--69090 Score: 68
Period size: 21 Copynumber: 3.5 Consensus size: 21
69005 AATAATGATA
69015 ATTTTTT-AATTC-ATTAAAT
1 ATTTTTTAAATTCAATTAAAT
*
69034 ATTATTTTTAAATTTTTAATGTAAAT
1 A-T-TTTTTAAA--TTCAAT-TAAAT
69060 -TTTTTTAAATTCAATTAAATT
1 ATTTTTTAAATTCAATTAAA-T
69081 ATTTTTTAAA
1 ATTTTTTAAA
69091 AAATAATAAT
Statistics
Matches: 46, Mismatches: 2, Indels: 15
0.73 0.03 0.24
Matches are distributed among these distances:
19 1 0.02
20 5 0.11
21 11 0.24
22 11 0.24
23 8 0.17
24 3 0.07
25 2 0.04
26 5 0.11
ACGTcount: A:0.38, C:0.03, G:0.01, T:0.58
Consensus pattern (21 bp):
ATTTTTTAAATTCAATTAAAT
Found at i:69115 original size:30 final size:31
Alignment explanation
Indices: 69079--69150 Score: 103
Period size: 30 Copynumber: 2.4 Consensus size: 31
69069 TTCAATTAAA
69079 TTATTTTTTAAAAA-ATAATAATAAATATTT
1 TTATTTTTTAAAAACATAATAATAAATATTT
*
69109 TTA-TTTTTAAAAACATAATAATTAATATTT
1 TTATTTTTTAAAAACATAATAATAAATATTT
*
69139 TAATTTGTTTAA
1 TTATTT-TTTAA
69151 TGTAAATTTT
Statistics
Matches: 37, Mismatches: 2, Indels: 4
0.86 0.05 0.09
Matches are distributed among these distances:
29 10 0.27
30 20 0.54
31 2 0.05
32 5 0.14
ACGTcount: A:0.46, C:0.01, G:0.01, T:0.51
Consensus pattern (31 bp):
TTATTTTTTAAAAACATAATAATAAATATTT
Found at i:69253 original size:115 final size:117
Alignment explanation
Indices: 69105--69413 Score: 388
Period size: 116 Copynumber: 2.6 Consensus size: 117
69095 AATAATAAAT
* *
69105 ATTTTTATTTTTAAAAACATAATAATTAATATTTTAATTTGTTTAATGTAAATTTTTTAAACTTA
1 ATTTTT-TTTATAAAAATA-AATAATTAATATTTTAATTTG-TTAATGTAAATTTTTTAAACTTA
69170 ATT-AATATTTTTT-ATTTTATTAAAAAGATAATA-AA-AAA-CTTTTTTTTTA-AA
63 ATTAAATATTTTTTAATTTTATT-AAAA-ATAATATAATAAACCTTTTTTTTTATAA
69221 ATTATTTTTTATAAAAATAAATAATTAATATTTTAATTTGTTAATGT-AATTTTTTAAA-TTAAT
1 ATT-TTTTTTATAAAAATAAATAATTAATATTTTAATTTGTTAATGTAAATTTTTTAAACTTAAT
69284 TAAATATTTTTTTAATTTTATTAAAAATAATATAATAAACCTTTTTTTTTATTTAA
65 TAAATA-TTTTTTAATTTTATTAAAAATAATATAATAAACCTTTTTTTTTA--TAA
* * * *
69340 ATTTTTTATT-T-TAAA-AAATAATTAATATTTTAATTTATTAATATAATTTTTTTAAAACTTAA
1 ATTTTTT-TTATAAAAATAAATAATTAATATTTTAATTTGTTAATGTAAATTTTTT-AAACTTAA
69402 TTAAATATTTTT
64 TTAAATATTTTT
69414 ATTAAAAATA
Statistics
Matches: 173, Mismatches: 6, Indels: 26
0.84 0.03 0.13
Matches are distributed among these distances:
112 6 0.03
113 21 0.12
114 19 0.11
115 32 0.18
116 51 0.29
117 13 0.08
118 13 0.08
119 18 0.10
ACGTcount: A:0.42, C:0.02, G:0.02, T:0.54
Consensus pattern (117 bp):
ATTTTTTTTATAAAAATAAATAATTAATATTTTAATTTGTTAATGTAAATTTTTTAAACTTAATT
AAATATTTTTTAATTTTATTAAAAATAATATAATAAACCTTTTTTTTTATAA
Found at i:69401 original size:21 final size:24
Alignment explanation
Indices: 69376--69443 Score: 66
Period size: 27 Copynumber: 2.7 Consensus size: 24
69366 ATTTTAATTT
69376 ATTAATATAATTTTT-TTAAAACTTA
1 ATTAA-AT-ATTTTTATTAAAACTTA
*
69401 ATTAAATATTTTTATTAAAAATAATA
1 ATTAAATATTTTTATTAAAACT--TA
*
69427 ATTAATATATTATTATT
1 ATTAA-ATATTTTTATT
69444 TATTAAATTT
Statistics
Matches: 37, Mismatches: 2, Indels: 6
0.82 0.04 0.13
Matches are distributed among these distances:
23 6 0.16
24 9 0.24
25 5 0.14
26 7 0.19
27 10 0.27
ACGTcount: A:0.47, C:0.01, G:0.00, T:0.51
Consensus pattern (24 bp):
ATTAAATATTTTTATTAAAACTTA
Found at i:69404 original size:25 final size:27
Alignment explanation
Indices: 69376--69450 Score: 77
Period size: 24 Copynumber: 2.8 Consensus size: 27
69366 ATTTTAATTT
*
69376 ATTAATATAATTTTT-TTAAAACT-TA
1 ATTAATATAATTTTTATTAAAAATATA
69401 ATTAA-AT-ATTTTTATTAAAAATAATA
1 ATTAATATAATTTTTATTAAAAAT-ATA
69427 ATTAATATATTATTATTTATTAAA
1 ATTAATATA--ATT-TTTATTAAA
69451 TTTTATAAAT
Statistics
Matches: 41, Mismatches: 1, Indels: 10
0.79 0.02 0.19
Matches are distributed among these distances:
23 6 0.15
24 9 0.22
25 5 0.12
26 7 0.17
27 2 0.05
30 3 0.07
31 9 0.22
ACGTcount: A:0.48, C:0.01, G:0.00, T:0.51
Consensus pattern (27 bp):
ATTAATATAATTTTTATTAAAAATATA
Found at i:69428 original size:42 final size:41
Alignment explanation
Indices: 69348--69429 Score: 94
Period size: 41 Copynumber: 2.0 Consensus size: 41
69338 AAATTTTTTA
**
69348 TTTTAAAAAATAATTAATATTTTAATTTATTAATATAATTT
1 TTTTAAAAAATAATTAATATTTTAATTTAAAAATATAATTT
** *
69389 TTTTAAAACTTAATTAAATATTTTTA-TTAAAAATAATAATT
1 TTTTAAAAAATAATT-AATATTTTAATTTAAAAAT-ATAATT
69430 AATATATTAT
Statistics
Matches: 34, Mismatches: 5, Indels: 3
0.81 0.12 0.07
Matches are distributed among these distances:
41 19 0.56
42 15 0.44
ACGTcount: A:0.48, C:0.01, G:0.00, T:0.51
Consensus pattern (41 bp):
TTTTAAAAAATAATTAATATTTTAATTTAAAAATATAATTT
Found at i:70758 original size:9 final size:9
Alignment explanation
Indices: 70740--70783 Score: 58
Period size: 8 Copynumber: 5.2 Consensus size: 9
70730 ATTTTTAATC
70740 ATAT-ATAA
1 ATATAATAA
*
70748 ATAAAATAA
1 ATATAATAA
70757 ATATAA-AA
1 ATATAATAA
70765 ATATAA-AA
1 ATATAATAA
70773 ATATAATAA
1 ATATAATAA
70782 AT
1 AT
70784 TATTATTAAT
Statistics
Matches: 32, Mismatches: 2, Indels: 3
0.86 0.05 0.08
Matches are distributed among these distances:
8 19 0.59
9 13 0.41
ACGTcount: A:0.70, C:0.00, G:0.00, T:0.30
Consensus pattern (9 bp):
ATATAATAA
Found at i:70766 original size:17 final size:16
Alignment explanation
Indices: 70740--70783 Score: 52
Period size: 17 Copynumber: 2.6 Consensus size: 16
70730 ATTTTTAATC
*
70740 ATATATAAATAAAATAA
1 ATATAAAAATAAAA-AA
*
70757 ATATAAAAATATAAAA
1 ATATAAAAATAAAAAA
70773 ATATAATAAAT
1 ATATAA-AAAT
70784 TATTATTAAT
Statistics
Matches: 24, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
16 8 0.33
17 16 0.67
ACGTcount: A:0.70, C:0.00, G:0.00, T:0.30
Consensus pattern (16 bp):
ATATAAAAATAAAAAA
Found at i:71013 original size:10 final size:10
Alignment explanation
Indices: 70970--71015 Score: 58
Period size: 10 Copynumber: 4.7 Consensus size: 10
70960 ATATAGGCTG
70970 ATATAAATTA
1 ATATAAATTA
* *
70980 GTATGAATTA
1 ATATAAATTA
*
70990 ATAT-GATTA
1 ATATAAATTA
70999 ATATAAATTA
1 ATATAAATTA
71009 ATATAAA
1 ATATAAA
71016 AACTGAAATA
Statistics
Matches: 30, Mismatches: 5, Indels: 2
0.81 0.14 0.05
Matches are distributed among these distances:
9 8 0.27
10 22 0.73
ACGTcount: A:0.54, C:0.00, G:0.07, T:0.39
Consensus pattern (10 bp):
ATATAAATTA
Found at i:74555 original size:110 final size:110
Alignment explanation
Indices: 74422--74635 Score: 329
Period size: 110 Copynumber: 1.9 Consensus size: 110
74412 TTACTTTCTT
* *
74422 TATTTATAATTTGACAGGTTGCATGGTTTATCGTAGACATAAAATATAATTTACTGTTAAGTTAT
1 TATTTATAATTTGACAAGTTGCATGGTTTATCATAGACATAAAATATAATTTACTGTTAAGTTAT
* *
74487 TAGATCACTTGTTAAATTATCAAGATATTATTTTTTTATCTGCTC
66 TAAATCACTTGTTAAATTATCAAGATATCATTTTTTTATCTGCTC
* * * *
74532 TATTTATAATTTGACAAGTTGCATGGTTTATCATTGACGTAAAATGTAATTTATTGTTAAGTTAT
1 TATTTATAATTTGACAAGTTGCATGGTTTATCATAGACATAAAATATAATTTACTGTTAAGTTAT
* * *
74597 TAAATCACTTGTTAGATTGTCAAGGTATCATTTTTTTAT
66 TAAATCACTTGTTAAATTATCAAGATATCATTTTTTTAT
74636 TTATTTGATG
Statistics
Matches: 93, Mismatches: 11, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
110 93 1.00
ACGTcount: A:0.31, C:0.09, G:0.14, T:0.46
Consensus pattern (110 bp):
TATTTATAATTTGACAAGTTGCATGGTTTATCATAGACATAAAATATAATTTACTGTTAAGTTAT
TAAATCACTTGTTAAATTATCAAGATATCATTTTTTTATCTGCTC
Found at i:76147 original size:2 final size:2
Alignment explanation
Indices: 76140--76180 Score: 82
Period size: 2 Copynumber: 20.5 Consensus size: 2
76130 TTTAACAAGA
76140 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
76181 ATACGAAGTT
Statistics
Matches: 39, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 39 1.00
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (2 bp):
AT
Found at i:76622 original size:10 final size:10
Alignment explanation
Indices: 76594--76650 Score: 50
Period size: 9 Copynumber: 6.0 Consensus size: 10
76584 ATTAATTTAT
76594 TTTTTATA-A
1 TTTTTATATA
*
76603 ATTTTA-ATA
1 TTTTTATATA
76612 TTTTTATATA
1 TTTTTATATA
*
76622 TTTATATTATA
1 TTTTTA-TATA
*
76633 TTTTAAT-TA
1 TTTTTATATA
76642 TTTTT-TATA
1 TTTTTATATA
76651 ATATATGTAT
Statistics
Matches: 38, Mismatches: 6, Indels: 8
0.73 0.12 0.15
Matches are distributed among these distances:
8 2 0.05
9 19 0.50
10 9 0.24
11 8 0.21
ACGTcount: A:0.33, C:0.00, G:0.00, T:0.67
Consensus pattern (10 bp):
TTTTTATATA
Found at i:76654 original size:21 final size:21
Alignment explanation
Indices: 76607--76654 Score: 53
Period size: 21 Copynumber: 2.3 Consensus size: 21
76597 TTATAAATTT
*
76607 TAATATTTTTATATATTTATA
1 TAATATTTTAATATATTTATA
* *
76628 TTATATTTTAAT-TATTTTTTA
1 TAATATTTTAATATA-TTTATA
76649 TAATAT
1 TAATAT
76655 ATGTATCATA
Statistics
Matches: 22, Mismatches: 4, Indels: 2
0.79 0.14 0.07
Matches are distributed among these distances:
20 2 0.09
21 20 0.91
ACGTcount: A:0.35, C:0.00, G:0.00, T:0.65
Consensus pattern (21 bp):
TAATATTTTAATATATTTATA
Found at i:77380 original size:16 final size:16
Alignment explanation
Indices: 77359--77392 Score: 52
Period size: 16 Copynumber: 2.1 Consensus size: 16
77349 TTTTTAAATT
77359 TTAAATA-ATAAAAAAA
1 TTAAATACA-AAAAAAA
77375 TTAAATACAAAAAAAA
1 TTAAATACAAAAAAAA
77391 TT
1 TT
77393 GCCAAAAAAA
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
16 16 0.94
17 1 0.06
ACGTcount: A:0.71, C:0.03, G:0.00, T:0.26
Consensus pattern (16 bp):
TTAAATACAAAAAAAA
Found at i:78450 original size:11 final size:11
Alignment explanation
Indices: 78400--78477 Score: 58
Period size: 11 Copynumber: 7.3 Consensus size: 11
78390 AAGTTTATGT
78400 TAATATTTAAA
1 TAATATTTAAA
78411 TAAT-TTT-AA
1 TAATATTTAAA
*
78420 -AATATTAAAA
1 TAATATTTAAA
* *
78430 AAATATTTTATA
1 TAATA-TTTAAA
*
78442 TAATATTTACA
1 TAATATTTAAA
78453 TAAT-TTTATAA
1 TAATATTTA-AA
78464 TTAA-ATTTAAA
1 -TAATATTTAAA
78475 TAA
1 TAA
78478 AAATATTTTA
Statistics
Matches: 54, Mismatches: 6, Indels: 15
0.72 0.08 0.20
Matches are distributed among these distances:
8 3 0.06
9 4 0.07
10 12 0.22
11 20 0.37
12 15 0.28
ACGTcount: A:0.53, C:0.01, G:0.00, T:0.46
Consensus pattern (11 bp):
TAATATTTAAA
Found at i:78458 original size:21 final size:21
Alignment explanation
Indices: 78400--78477 Score: 72
Period size: 22 Copynumber: 3.7 Consensus size: 21
78390 AAGTTTATGT
78400 TAATATTTAAATAATTTTA-A
1 TAATATTTAAATAATTTTATA
* *
78420 -AATATTAAAAAAATATTTTATA
1 TAATATT-TAAATA-ATTTTATA
*
78442 TAATATTTACATAATTTTATAA
1 TAATATTTAAATAATTTTAT-A
78464 TTAA-ATTTAAATAA
1 -TAATATTTAAATAA
78478 AAATATTTTA
Statistics
Matches: 46, Mismatches: 6, Indels: 10
0.74 0.10 0.16
Matches are distributed among these distances:
19 6 0.13
20 4 0.09
21 13 0.28
22 14 0.30
23 9 0.20
ACGTcount: A:0.53, C:0.01, G:0.00, T:0.46
Consensus pattern (21 bp):
TAATATTTAAATAATTTTATA
Found at i:79415 original size:10 final size:10
Alignment explanation
Indices: 79387--79424 Score: 51
Period size: 10 Copynumber: 3.9 Consensus size: 10
79377 GTATTTAAAA
*
79387 ATAAAAA-TA
1 ATAAAAATTT
*
79396 ATAAATATTT
1 ATAAAAATTT
79406 ATAAAAATTT
1 ATAAAAATTT
79416 ATAAAAATT
1 ATAAAAATT
79425 AATTAAATAA
Statistics
Matches: 25, Mismatches: 3, Indels: 1
0.86 0.10 0.03
Matches are distributed among these distances:
9 6 0.24
10 19 0.76
ACGTcount: A:0.63, C:0.00, G:0.00, T:0.37
Consensus pattern (10 bp):
ATAAAAATTT
Found at i:80838 original size:3 final size:3
Alignment explanation
Indices: 80830--80860 Score: 62
Period size: 3 Copynumber: 10.3 Consensus size: 3
80820 TGGTTTATTG
80830 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA A
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA A
80861 AAAAGACTAT
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 28 1.00
ACGTcount: A:0.68, C:0.00, G:0.00, T:0.32
Consensus pattern (3 bp):
ATA
Found at i:83774 original size:15 final size:15
Alignment explanation
Indices: 83754--83784 Score: 62
Period size: 15 Copynumber: 2.1 Consensus size: 15
83744 CATCATGAAA
83754 AACATATATCTATGT
1 AACATATATCTATGT
83769 AACATATATCTATGT
1 AACATATATCTATGT
83784 A
1 A
83785 CCATTAGCAG
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 16 1.00
ACGTcount: A:0.42, C:0.13, G:0.06, T:0.39
Consensus pattern (15 bp):
AACATATATCTATGT
Found at i:88177 original size:17 final size:17
Alignment explanation
Indices: 88155--88190 Score: 72
Period size: 17 Copynumber: 2.1 Consensus size: 17
88145 TGAAGCCTAA
88155 AAGCTGCTATTTTCCCT
1 AAGCTGCTATTTTCCCT
88172 AAGCTGCTATTTTCCCT
1 AAGCTGCTATTTTCCCT
88189 AA
1 AA
88191 CTGGTTAACA
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
17 19 1.00
ACGTcount: A:0.22, C:0.28, G:0.11, T:0.39
Consensus pattern (17 bp):
AAGCTGCTATTTTCCCT
Found at i:91886 original size:3 final size:3
Alignment explanation
Indices: 91878--91911 Score: 68
Period size: 3 Copynumber: 11.3 Consensus size: 3
91868 CTTTTCTTAA
91878 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT A
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT A
91912 GCCAGCAGAA
Statistics
Matches: 31, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 31 1.00
ACGTcount: A:0.68, C:0.00, G:0.00, T:0.32
Consensus pattern (3 bp):
AAT
Found at i:98095 original size:20 final size:19
Alignment explanation
Indices: 98072--98142 Score: 56
Period size: 20 Copynumber: 3.6 Consensus size: 19
98062 ACACTCAGAT
98072 GTATCGATACATATTGCTTA
1 GTATCGATACATATTG-TTA
* * *
98092 GTATCAATATATGTT-TATA
1 GTATCGATACATATTGT-TA
*
98111 GTATCGATACACATTGAATT-
1 GTATCGATACATATTG--TTA
98131 GTATCGATACAT
1 GTATCGATACAT
98143 GAAACTGGCA
Statistics
Matches: 39, Mismatches: 8, Indels: 8
0.71 0.15 0.15
Matches are distributed among these distances:
18 1 0.03
19 13 0.33
20 23 0.59
21 1 0.03
22 1 0.03
ACGTcount: A:0.34, C:0.13, G:0.14, T:0.39
Consensus pattern (19 bp):
GTATCGATACATATTGTTA
Found at i:99071 original size:2 final size:2
Alignment explanation
Indices: 99064--99089 Score: 52
Period size: 2 Copynumber: 13.0 Consensus size: 2
99054 TAATTAAACC
99064 TA TA TA TA TA TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA
99090 ATTACATAGA
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 24 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
TA
Found at i:99212 original size:13 final size:13
Alignment explanation
Indices: 99194--99276 Score: 73
Period size: 13 Copynumber: 6.2 Consensus size: 13
99184 ACACGTGAAA
99194 TTTTTAATTAAAC
1 TTTTTAATTAAAC
*
99207 TTTTTAAATATAAAA
1 TTTTT-AAT-TAAAC
99222 TTTTTAATTAAA-
1 TTTTTAATTAAAC
*
99234 TTTTCACATATAGAA-
1 TTTTTA-AT-TA-AAC
*
99249 -TTTTAATTAGAC
1 TTTTTAATTAAAC
99261 TTTTTAATTAAAC
1 TTTTTAATTAAAC
99274 TTT
1 TTT
99277 GACATGAAGG
Statistics
Matches: 58, Mismatches: 5, Indels: 14
0.75 0.06 0.18
Matches are distributed among these distances:
11 1 0.02
12 7 0.12
13 27 0.47
14 12 0.21
15 11 0.19
ACGTcount: A:0.40, C:0.06, G:0.02, T:0.52
Consensus pattern (13 bp):
TTTTTAATTAAAC
Found at i:99225 original size:15 final size:14
Alignment explanation
Indices: 99191--99237 Score: 55
Period size: 15 Copynumber: 3.5 Consensus size: 14
99181 TTCACACGTG
99191 AAATTTTT-AATTA
1 AAATTTTTAAATTA
*
99204 AACTTTTTAAATATA
1 AAATTTTTAAAT-TA
99219 AAATTTTT-AATT-
1 AAATTTTTAAATTA
99231 AAATTTT
1 AAATTTT
99238 CACATATAGA
Statistics
Matches: 30, Mismatches: 2, Indels: 5
0.81 0.05 0.14
Matches are distributed among these distances:
12 7 0.23
13 8 0.27
14 6 0.20
15 9 0.30
ACGTcount: A:0.45, C:0.02, G:0.00, T:0.53
Consensus pattern (14 bp):
AAATTTTTAAATTA
Found at i:99226 original size:28 final size:28
Alignment explanation
Indices: 99191--99267 Score: 104
Period size: 27 Copynumber: 2.8 Consensus size: 28
99181 TTCACACGTG
99191 AAATTTTTAATTAAACTTTTTAAATATA
1 AAATTTTTAATTAAACTTTTTAAATATA
* *
99219 AAATTTTTAATTAAA-TTTTCACATATA
1 AAATTTTTAATTAAACTTTTTAAATATA
* *
99246 GAA-TTTTAATTAGACTTTTTAA
1 AAATTTTTAATTAAACTTTTTAA
99268 TTAAACTTTG
Statistics
Matches: 42, Mismatches: 6, Indels: 3
0.82 0.12 0.06
Matches are distributed among these distances:
26 10 0.24
27 17 0.40
28 15 0.36
ACGTcount: A:0.43, C:0.05, G:0.03, T:0.49
Consensus pattern (28 bp):
AAATTTTTAATTAAACTTTTTAAATATA
Found at i:99239 original size:55 final size:54
Alignment explanation
Indices: 99145--99267 Score: 133
Period size: 55 Copynumber: 2.3 Consensus size: 54
99135 TAGATATTCC
* * * *
99145 ATTAAACTTTTTAAATATAGAACTTTTCATAGAGCTTTCACACGT-GAAATTTTTA
1 ATTAAACTTTTTAAATATAAAACTTTTAATAGAACTTTCACACATAG-AA-TTTTA
* * *
99200 ATTAAACTTTTTAAATATAAAATTTTTAATTA-AATTTTCACATATAGAATTTTA
1 ATTAAACTTTTTAAATATAAAACTTTTAA-TAGAACTTTCACACATAGAATTTTA
*
99254 ATTAGACTTTTTAA
1 ATTAAACTTTTTAA
99268 TTAAACTTTG
Statistics
Matches: 58, Mismatches: 8, Indels: 5
0.82 0.11 0.07
Matches are distributed among these distances:
54 18 0.31
55 37 0.64
56 3 0.05
ACGTcount: A:0.40, C:0.09, G:0.06, T:0.46
Consensus pattern (54 bp):
ATTAAACTTTTTAAATATAAAACTTTTAATAGAACTTTCACACATAGAATTTTA
Found at i:102671 original size:22 final size:22
Alignment explanation
Indices: 102646--102693 Score: 69
Period size: 22 Copynumber: 2.2 Consensus size: 22
102636 TAGGTGATAA
102646 GTTAGGTAAACATATTAGATGT
1 GTTAGGTAAACATATTAGATGT
* * *
102668 GTTAGGTGAGCATATTAGGTGT
1 GTTAGGTAAACATATTAGATGT
102690 GTTA
1 GTTA
102694 AGTGGTGTGT
Statistics
Matches: 23, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
22 23 1.00
ACGTcount: A:0.29, C:0.04, G:0.29, T:0.38
Consensus pattern (22 bp):
GTTAGGTAAACATATTAGATGT
Found at i:106999 original size:34 final size:34
Alignment explanation
Indices: 106952--107032 Score: 126
Period size: 34 Copynumber: 2.4 Consensus size: 34
106942 TTGTTAAATG
* *
106952 TGTTAGGTGGTATGTTAGGTGAGCATATTAGGTA
1 TGTTAGGTAGTATGTTAGATGAGCATATTAGGTA
*
106986 TGTTAGGTAGTATGTTAGATGAGCATATTAGGTG
1 TGTTAGGTAGTATGTTAGATGAGCATATTAGGTA
107020 TGTTAGGTGAGTA
1 TGTTAGGT-AGTA
107033 AGATAATTTA
Statistics
Matches: 43, Mismatches: 3, Indels: 1
0.91 0.06 0.02
Matches are distributed among these distances:
34 39 0.91
35 4 0.09
ACGTcount: A:0.25, C:0.02, G:0.35, T:0.38
Consensus pattern (34 bp):
TGTTAGGTAGTATGTTAGATGAGCATATTAGGTA
Found at i:110624 original size:16 final size:16
Alignment explanation
Indices: 110605--110657 Score: 70
Period size: 16 Copynumber: 3.3 Consensus size: 16
110595 CGAAAAAATT
110605 CGAACCCAAAAGAACC
1 CGAACCCAAAAGAACC
* * *
110621 CGAACCTAAAAAAACT
1 CGAACCCAAAAGAACC
*
110637 CGAACCCAAGAGAACC
1 CGAACCCAAAAGAACC
110653 CGAAC
1 CGAAC
110658 TCGAGATCGA
Statistics
Matches: 30, Mismatches: 7, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
16 30 1.00
ACGTcount: A:0.49, C:0.34, G:0.13, T:0.04
Consensus pattern (16 bp):
CGAACCCAAAAGAACC
Found at i:110625 original size:32 final size:32
Alignment explanation
Indices: 110589--110661 Score: 103
Period size: 32 Copynumber: 2.3 Consensus size: 32
110579 CAAGATAGTT
*
110589 CGAACTCGAAAAAATTCGAACCCAAAAGAACC
1 CGAACTCGAAAAAACTCGAACCCAAAAGAACC
* *
110621 CGAAC-CTAAAAAAACTCGAACCCAAGAGAACC
1 CGAACTC-GAAAAAACTCGAACCCAAAAGAACC
110653 CGAACTCGA
1 CGAACTCGA
110662 GATCGACCCA
Statistics
Matches: 35, Mismatches: 4, Indels: 4
0.81 0.09 0.09
Matches are distributed among these distances:
31 1 0.03
32 33 0.94
33 1 0.03
ACGTcount: A:0.48, C:0.30, G:0.14, T:0.08
Consensus pattern (32 bp):
CGAACTCGAAAAAACTCGAACCCAAAAGAACC
Found at i:110640 original size:48 final size:47
Alignment explanation
Indices: 110535--110641 Score: 115
Period size: 48 Copynumber: 2.3 Consensus size: 47
110525 TCAAAAAGTT
** * * *
110535 AAAAACTCGAACTCGAAATTATCGAATCCAAAATAACCTGAACCCAA
1 AAAAACTCGAACTCGAAAAAATCGAACCCAAAAGAACCCGAACCCAA
* * ** *
110582 GATAGTTCGAACTCGAAAAAATTCGAACCCAAAAGAACCCGAACCTAA
1 AAAAACTCGAACTCGAAAAAA-TCGAACCCAAAAGAACCCGAACCCAA
110630 AAAAACTCGAAC
1 AAAAACTCGAAC
110642 CCAAGAGAAC
Statistics
Matches: 45, Mismatches: 14, Indels: 1
0.75 0.23 0.02
Matches are distributed among these distances:
47 15 0.33
48 30 0.67
ACGTcount: A:0.49, C:0.25, G:0.11, T:0.15
Consensus pattern (47 bp):
AAAAACTCGAACTCGAAAAAATCGAACCCAAAAGAACCCGAACCCAA
Found at i:111150 original size:16 final size:15
Alignment explanation
Indices: 111129--111158 Score: 51
Period size: 16 Copynumber: 1.9 Consensus size: 15
111119 ATGTTACACT
111129 TAGAATAGTAATATAG
1 TAGAATAG-AATATAG
111145 TAGAATAGAATATA
1 TAGAATAGAATATA
111159 AAGTTAACAT
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
15 6 0.43
16 8 0.57
ACGTcount: A:0.53, C:0.00, G:0.17, T:0.30
Consensus pattern (15 bp):
TAGAATAGAATATAG
Found at i:111812 original size:14 final size:14
Alignment explanation
Indices: 111793--111822 Score: 51
Period size: 14 Copynumber: 2.1 Consensus size: 14
111783 AGATTTAAGG
*
111793 TTTTTTTATTTTAA
1 TTTTTTCATTTTAA
111807 TTTTTTCATTTTAA
1 TTTTTTCATTTTAA
111821 TT
1 TT
111823 GAGTTTACGT
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
14 15 1.00
ACGTcount: A:0.20, C:0.03, G:0.00, T:0.77
Consensus pattern (14 bp):
TTTTTTCATTTTAA
Found at i:111900 original size:12 final size:11
Alignment explanation
Indices: 111882--111925 Score: 56
Period size: 12 Copynumber: 4.1 Consensus size: 11
111872 ATTAAATGAG
111882 TTTTTAAATAT
1 TTTTTAAATAT
111893 TTTATTAAATAT
1 TTT-TTAAATAT
*
111905 ATTTTAAA-A-
1 TTTTTAAATAT
111914 TTTTTAAATAT
1 TTTTTAAATAT
111925 T
1 T
111926 AATTCGGTGT
Statistics
Matches: 28, Mismatches: 2, Indels: 6
0.78 0.06 0.17
Matches are distributed among these distances:
9 7 0.25
10 2 0.07
11 9 0.32
12 10 0.36
ACGTcount: A:0.41, C:0.00, G:0.00, T:0.59
Consensus pattern (11 bp):
TTTTTAAATAT
Found at i:111918 original size:9 final size:10
Alignment explanation
Indices: 111882--111925 Score: 54
Period size: 11 Copynumber: 4.2 Consensus size: 10
111872 ATTAAATGAG
111882 TTTTTAAATA
1 TTTTTAAATA
111892 TTTTATTAAATA
1 -TTT-TTAAATA
111904 TATTTTAAA-A
1 T-TTTTAAATA
111914 TTTTTAAATA
1 TTTTTAAATA
111924 TT
1 TT
111926 AATTCGGTGT
Statistics
Matches: 30, Mismatches: 0, Indels: 7
0.81 0.00 0.19
Matches are distributed among these distances:
9 7 0.23
10 5 0.17
11 9 0.30
12 9 0.30
ACGTcount: A:0.41, C:0.00, G:0.00, T:0.59
Consensus pattern (10 bp):
TTTTTAAATA
Found at i:112116 original size:17 final size:18
Alignment explanation
Indices: 112072--112110 Score: 71
Period size: 18 Copynumber: 2.2 Consensus size: 18
112062 ATTATTTGAA
112072 AAATTAATTTTATATAAT
1 AAATTAATTTTATATAAT
112090 AAATTAATTTTATAT-AT
1 AAATTAATTTTATATAAT
112107 AAAT
1 AAAT
112111 AGATTTCAAT
Statistics
Matches: 21, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
17 6 0.29
18 15 0.71
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (18 bp):
AAATTAATTTTATATAAT
Found at i:116082 original size:24 final size:23
Alignment explanation
Indices: 116055--116109 Score: 60
Period size: 21 Copynumber: 2.4 Consensus size: 23
116045 TATTCTAATA
116055 AAATTATAATAAAATAATTTTTTT
1 AAATTATAAT-AAATAATTTTTTT
* *
116079 AAATTAT--TTAATTATTTTTTT
1 AAATTATAATAAATAATTTTTTT
116100 AAATCTATAA
1 AAAT-TATAA
116110 CTCGACTTCT
Statistics
Matches: 26, Mismatches: 2, Indels: 6
0.76 0.06 0.18
Matches are distributed among these distances:
21 15 0.58
22 4 0.15
24 7 0.27
ACGTcount: A:0.45, C:0.02, G:0.00, T:0.53
Consensus pattern (23 bp):
AAATTATAATAAATAATTTTTTT
Found at i:116456 original size:19 final size:19
Alignment explanation
Indices: 116429--116465 Score: 56
Period size: 19 Copynumber: 1.9 Consensus size: 19
116419 TTCATGAATT
*
116429 ATGAAAATTATATTTGTAA
1 ATGAAAATTAAATTTGTAA
*
116448 ATGATAATTAAATTTGTA
1 ATGAAAATTAAATTTGTA
116466 TTGAATAATA
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:0.46, C:0.00, G:0.11, T:0.43
Consensus pattern (19 bp):
ATGAAAATTAAATTTGTAA
Found at i:116473 original size:19 final size:20
Alignment explanation
Indices: 116429--116474 Score: 53
Period size: 19 Copynumber: 2.5 Consensus size: 20
116419 TTCATGAATT
*
116429 ATGAA-AATTATATTTGTAA
1 ATGAATAATTAAATTTGTAA
116448 ATG-ATAATTAAATTTGT-A
1 ATGAATAATTAAATTTGTAA
*
116466 TTGAATAAT
1 ATGAATAAT
116475 AATGAATAAA
Statistics
Matches: 23, Mismatches: 2, Indels: 4
0.79 0.07 0.14
Matches are distributed among these distances:
18 4 0.17
19 19 0.83
ACGTcount: A:0.46, C:0.00, G:0.11, T:0.43
Consensus pattern (20 bp):
ATGAATAATTAAATTTGTAA
Found at i:116665 original size:2 final size:2
Alignment explanation
Indices: 116660--116684 Score: 50
Period size: 2 Copynumber: 12.5 Consensus size: 2
116650 GTATATACAC
116660 CT CT CT CT CT CT CT CT CT CT CT CT C
1 CT CT CT CT CT CT CT CT CT CT CT CT C
116685 CAGAAAAACA
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 23 1.00
ACGTcount: A:0.00, C:0.52, G:0.00, T:0.48
Consensus pattern (2 bp):
CT
Found at i:119921 original size:16 final size:16
Alignment explanation
Indices: 119896--119927 Score: 55
Period size: 16 Copynumber: 2.0 Consensus size: 16
119886 AGAATTTAGG
119896 AGAATGAGCTGTAGAT
1 AGAATGAGCTGTAGAT
*
119912 AGAATTAGCTGTAGAT
1 AGAATGAGCTGTAGAT
119928 GATATGCACT
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:0.38, C:0.06, G:0.28, T:0.28
Consensus pattern (16 bp):
AGAATGAGCTGTAGAT
Found at i:121999 original size:36 final size:36
Alignment explanation
Indices: 121967--122073 Score: 169
Period size: 36 Copynumber: 3.0 Consensus size: 36
121957 CTGTCACTCC
* * *
121967 CACAATCTGAGCCTCAAAATCAGGCTGAGTCACTAT
1 CACAATCCGAGTCTCAAAATCAAGCTGAGTCACTAT
122003 CACAATCCGAGTCTCAAAATCAAGCTGAGTCACTAT
1 CACAATCCGAGTCTCAAAATCAAGCTGAGTCACTAT
* *
122039 CACAATCCGAGTCTCAAAACCAAGCTAAGTCACTA
1 CACAATCCGAGTCTCAAAATCAAGCTGAGTCACTA
122074 CCTTTGTCCC
Statistics
Matches: 66, Mismatches: 5, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
36 66 1.00
ACGTcount: A:0.36, C:0.29, G:0.14, T:0.21
Consensus pattern (36 bp):
CACAATCCGAGTCTCAAAATCAAGCTGAGTCACTAT
Found at i:122014 original size:18 final size:18
Alignment explanation
Indices: 121993--122051 Score: 57
Period size: 18 Copynumber: 3.3 Consensus size: 18
121983 AAATCAGGCT
121993 GAGTCACTATCACAATCC
1 GAGTCACTATCACAATCC
* ** * *
122011 GAGTCTC-AAAATCAAGCT
1 GAGTCACTATCA-CAATCC
122029 GAGTCACTATCACAATCC
1 GAGTCACTATCACAATCC
122047 GAGTC
1 GAGTC
122052 TCAAAACCAA
Statistics
Matches: 29, Mismatches: 10, Indels: 4
0.67 0.23 0.09
Matches are distributed among these distances:
17 2 0.07
18 25 0.86
19 2 0.07
ACGTcount: A:0.34, C:0.29, G:0.15, T:0.22
Consensus pattern (18 bp):
GAGTCACTATCACAATCC
Found at i:124230 original size:13 final size:13
Alignment explanation
Indices: 124212--124237 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
124202 GTTCAATCTA
124212 CACACTTTATGTG
1 CACACTTTATGTG
124225 CACACTTTATGTG
1 CACACTTTATGTG
124238 TCTACCGGGT
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.23, C:0.23, G:0.15, T:0.38
Consensus pattern (13 bp):
CACACTTTATGTG
Found at i:127249 original size:2 final size:2
Alignment explanation
Indices: 127242--127275 Score: 52
Period size: 2 Copynumber: 17.0 Consensus size: 2
127232 TATTAACAGA
127242 AT AT AT AT AT AT AT AT AT AT AT AT -T GAT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT -AT AT AT AT
127276 TGTAAGCGCG
Statistics
Matches: 30, Mismatches: 0, Indels: 4
0.88 0.00 0.12
Matches are distributed among these distances:
1 1 0.03
2 28 0.93
3 1 0.03
ACGTcount: A:0.47, C:0.00, G:0.03, T:0.50
Consensus pattern (2 bp):
AT
Found at i:127739 original size:17 final size:16
Alignment explanation
Indices: 127699--127729 Score: 62
Period size: 16 Copynumber: 1.9 Consensus size: 16
127689 TAAGCACTCG
127699 ATTTTTTTTAATTTTA
1 ATTTTTTTTAATTTTA
127715 ATTTTTTTTAATTTT
1 ATTTTTTTTAATTTT
127730 TTGTTTTTTT
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 15 1.00
ACGTcount: A:0.23, C:0.00, G:0.00, T:0.77
Consensus pattern (16 bp):
ATTTTTTTTAATTTTA
Found at i:128661 original size:52 final size:52
Alignment explanation
Indices: 128581--128680 Score: 137
Period size: 52 Copynumber: 1.9 Consensus size: 52
128571 AGATTCAGGT
* ** **
128581 CATTTTGAATTCGGATCAATTGGGTTTAACGCTCGGGTTAATCGAGTTAGAC
1 CATTTTGAATTCGGATCAATTGGATTTAACAATCGGAATAATCGAGTTAGAC
* *
128633 CATTTTGGATTCGGATTAATTGGATTTAACAATCGGAATAATCGAGTT
1 CATTTTGAATTCGGATCAATTGGATTTAACAATCGGAATAATCGAGTT
128681 CAAGTCATTT
Statistics
Matches: 41, Mismatches: 7, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
52 41 1.00
ACGTcount: A:0.28, C:0.13, G:0.23, T:0.36
Consensus pattern (52 bp):
CATTTTGAATTCGGATCAATTGGATTTAACAATCGGAATAATCGAGTTAGAC
Found at i:133712 original size:15 final size:14
Alignment explanation
Indices: 133684--133721 Score: 53
Period size: 15 Copynumber: 2.8 Consensus size: 14
133674 ATTATAAATT
133684 ATTTATTTTT--TA
1 ATTTATTTTTACTA
133696 ATTTATATTTTACTA
1 ATTTAT-TTTTACTA
133711 ATTTATTTTTA
1 ATTTATTTTTA
133722 ATTAAAGGTT
Statistics
Matches: 23, Mismatches: 0, Indels: 4
0.85 0.00 0.15
Matches are distributed among these distances:
12 6 0.26
13 4 0.17
14 5 0.22
15 8 0.35
ACGTcount: A:0.29, C:0.03, G:0.00, T:0.68
Consensus pattern (14 bp):
ATTTATTTTTACTA
Found at i:133996 original size:21 final size:21
Alignment explanation
Indices: 133960--134017 Score: 64
Period size: 21 Copynumber: 2.8 Consensus size: 21
133950 ATCATTAACT
* *
133960 TTAATATTATCGCTACAAT-A
1 TTAATTTTATCACTACAATAA
*
133980 TTCAATTTTATCACTACAGTAA
1 TT-AATTTTATCACTACAATAA
*
134002 TTAATTTAATCACTAC
1 TTAATTTTATCACTAC
134018 CACTATTTTC
Statistics
Matches: 32, Mismatches: 4, Indels: 3
0.82 0.10 0.08
Matches are distributed among these distances:
20 2 0.06
21 27 0.84
22 3 0.09
ACGTcount: A:0.38, C:0.17, G:0.03, T:0.41
Consensus pattern (21 bp):
TTAATTTTATCACTACAATAA
Found at i:134800 original size:170 final size:170
Alignment explanation
Indices: 134518--134829 Score: 606
Period size: 170 Copynumber: 1.8 Consensus size: 170
134508 GTTCGAAAGG
*
134518 GAAAAAATCACATTTTTGTCCAAATGTATCGATACATTTCTAGAATGTATCGATACAAGGTCTCA
1 GAAAAAATCACATTTTTGTCCAAATGTATCGATACATTTCTAGAATGTATCGATACAAGGTCCCA
134583 ACGGTCAAAAATTTTGAATTTCAACAATTTGTATCGATACAAACAGTAAATGTATCGATACATAA
66 ACGGTCAAAAATTTTGAATTTCAACAATTTGTATCGATACAAACAGTAAATGTATCGATACATAA
134648 GTGTTGTATCGAGATAGGGTGTTCGGAAGGCAAAAAGGAT
131 GTGTTGTATCGAGATAGGGTGTTCGGAAGGCAAAAAGGAT
134688 GAAAAAATCACATTTTTGTCCAAATGTATCGATACATTTCTAGAATGTATCGATACAAGGTCCCA
1 GAAAAAATCACATTTTTGTCCAAATGTATCGATACATTTCTAGAATGTATCGATACAAGGTCCCA
*
134753 ACGGTCAAAATTTTTGAATTTCAACAATTTGTATCGATACAAACAGTAAATGTATCGATACATAA
66 ACGGTCAAAAATTTTGAATTTCAACAATTTGTATCGATACAAACAGTAAATGTATCGATACATAA
134818 GTGTTGTATCGA
131 GTGTTGTATCGA
134830 TATAATGTAT
Statistics
Matches: 140, Mismatches: 2, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
170 140 1.00
ACGTcount: A:0.38, C:0.14, G:0.17, T:0.31
Consensus pattern (170 bp):
GAAAAAATCACATTTTTGTCCAAATGTATCGATACATTTCTAGAATGTATCGATACAAGGTCCCA
ACGGTCAAAAATTTTGAATTTCAACAATTTGTATCGATACAAACAGTAAATGTATCGATACATAA
GTGTTGTATCGAGATAGGGTGTTCGGAAGGCAAAAAGGAT
Found at i:134903 original size:13 final size:13
Alignment explanation
Indices: 134885--134912 Score: 56
Period size: 13 Copynumber: 2.2 Consensus size: 13
134875 TATTATTCAA
134885 TGTATCGATACAT
1 TGTATCGATACAT
134898 TGTATCGATACAT
1 TGTATCGATACAT
134911 TG
1 TG
134913 ATCTTTGCCA
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:139244 original size:18 final size:18
Alignment explanation
Indices: 139223--139272 Score: 100
Period size: 18 Copynumber: 2.8 Consensus size: 18
139213 TATTTGCTGG
139223 ATAAATATAATTTTTATT
1 ATAAATATAATTTTTATT
139241 ATAAATATAATTTTTATT
1 ATAAATATAATTTTTATT
139259 ATAAATATAATTTT
1 ATAAATATAATTTT
139273 AAATTTTGTT
Statistics
Matches: 32, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
18 32 1.00
ACGTcount: A:0.46, C:0.00, G:0.00, T:0.54
Consensus pattern (18 bp):
ATAAATATAATTTTTATT
Found at i:139305 original size:27 final size:26
Alignment explanation
Indices: 139240--139306 Score: 64
Period size: 27 Copynumber: 2.5 Consensus size: 26
139230 TAATTTTTAT
* *
139240 TATAAATATAATTTTTATTATAAATA
1 TATATATATATTTTTTATTATAAATA
* * *
139266 TA-ATTTTAAATTTTGTTATTATATATA
1 TATA-TATATATTTT-TTATTATAAATA
139293 TATATATATATTTT
1 TATATATATATTTT
139307 CATCTAATGC
Statistics
Matches: 31, Mismatches: 7, Indels: 5
0.72 0.16 0.12
Matches are distributed among these distances:
25 1 0.03
26 8 0.26
27 21 0.68
28 1 0.03
ACGTcount: A:0.42, C:0.00, G:0.01, T:0.57
Consensus pattern (26 bp):
TATATATATATTTTTTATTATAAATA
Found at i:140528 original size:2 final size:2
Alignment explanation
Indices: 140523--140552 Score: 60
Period size: 2 Copynumber: 15.0 Consensus size: 2
140513 TTTTCCCCCC
140523 CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT
1 CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT
140553 ATATATATAT
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 28 1.00
ACGTcount: A:0.00, C:0.50, G:0.00, T:0.50
Consensus pattern (2 bp):
CT
Done.