Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Gbar_D07
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: 56457815
ACGTcount: A:0.32, C:0.16, G:0.16, T:0.32
Warning! 1765025 characters in sequence are not A, C, G, or T
File 174 of 189
Found at i:51737239 original size:54 final size:55
Alignment explanation
Indices: 51737153--51737283 Score: 178
Period size: 54 Copynumber: 2.4 Consensus size: 55
51737143 TCAAGTTGTT
* *
51737153 ACACGGCCGTGTGACCCTATTTTAAATCACACATGGTTTGGGACA-CGA-TCT-GCG
1 ACACGGCCGTGTGACCCTATTTCAAATCACACATGG-TTGGG-CATAGAGTCTGGCG
* *
51737207 ACACGGCCGTGTGACCCTATTTCAAATTACACATGGTTGGGCATATAGTCTGGCG
1 ACACGGCCGTGTGACCCTATTTCAAATCACACATGGTTGGGCATAGAGTCTGGCG
*
51737262 ATACGGCCGTGTGACCCTATTT
1 ACACGGCCGTGTGACCCTATTT
51737284 TTGAATTGTG
Statistics
Matches: 69, Mismatches: 5, Indels: 5
0.87 0.06 0.06
Matches are distributed among these distances:
52 2 0.03
53 6 0.09
54 37 0.54
55 24 0.35
ACGTcount: A:0.23, C:0.25, G:0.24, T:0.27
Consensus pattern (55 bp):
ACACGGCCGTGTGACCCTATTTCAAATCACACATGGTTGGGCATAGAGTCTGGCG
Found at i:51739762 original size:25 final size:25
Alignment explanation
Indices: 51739734--51739880 Score: 131
Period size: 25 Copynumber: 5.9 Consensus size: 25
51739724 ATCTTGTTAT
51739734 ATGGCTCTCATGAGCTTCCCGATTA
1 ATGGCTCTCATGAGCTTCCCGATTA
** * * *
51739759 ATGGCTCTTTTGAGCTTTCTG-TTT
1 ATGGCTCTCATGAGCTTCCCGATTA
* *
51739783 ATGGCTCGT-ATGAGCTTTCTGA-TA
1 ATGGCTC-TCATGAGCTTCCCGATTA
** * *
51739807 ATTGGCTCTCCGGAGCTTCTCGATAA
1 A-TGGCTCTCATGAGCTTCCCGATTA
*
51739833 ATGGCTCTCATGAGCTTCCTGATTA
1 ATGGCTCTCATGAGCTTCCCGATTA
51739858 ATGGCTCTCCA-GAGCTTCCCGAT
1 ATGGCTCT-CATGAGCTTCCCGAT
51739881 ATTCGGGTTG
Statistics
Matches: 97, Mismatches: 19, Indels: 12
0.76 0.15 0.09
Matches are distributed among these distances:
24 23 0.24
25 70 0.72
26 4 0.04
ACGTcount: A:0.18, C:0.24, G:0.22, T:0.36
Consensus pattern (25 bp):
ATGGCTCTCATGAGCTTCCCGATTA
Found at i:51739796 original size:24 final size:23
Alignment explanation
Indices: 51739728--51739803 Score: 71
Period size: 24 Copynumber: 3.1 Consensus size: 23
51739718 TTGAGCATCT
*
51739728 TGTTATATGGCTCTCATGAGCTTCC
1 TGTT-TATGGCTCT-ATGAGCTTTC
* * *
51739753 CGATTAATGGCTCTTTTGAGCTTTC
1 TG-TTTATGGCTC-TATGAGCTTTC
51739778 TGTTTATGGCTCGTATGAGCTTTC
1 TGTTTATGGCTC-TATGAGCTTTC
51739802 TG
1 TG
51739804 ATAATTGGCT
Statistics
Matches: 41, Mismatches: 8, Indels: 5
0.76 0.15 0.09
Matches are distributed among these distances:
24 21 0.51
25 17 0.41
26 3 0.07
ACGTcount: A:0.14, C:0.20, G:0.22, T:0.43
Consensus pattern (23 bp):
TGTTTATGGCTCTATGAGCTTTC
Found at i:51741290 original size:39 final size:39
Alignment explanation
Indices: 51741193--51741292 Score: 146
Period size: 39 Copynumber: 2.6 Consensus size: 39
51741183 TTTTTACAAG
* * *
51741193 TTAAGCTTAGACAAGCAACCTGATGTGATGTGTTGTAGT
1 TTAAGCTTAGACGAGCAACTTGATGTGATGTGTTATAGT
* *
51741232 TTAAGCTTTGATGAGCAACTTGATGTGATGTGTTATAGT
1 TTAAGCTTAGACGAGCAACTTGATGTGATGTGTTATAGT
*
51741271 TTAAGCTTGGACGAGCAACTTG
1 TTAAGCTTAGACGAGCAACTTG
51741293 GTGTAATTTT
Statistics
Matches: 54, Mismatches: 7, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
39 54 1.00
ACGTcount: A:0.27, C:0.12, G:0.26, T:0.35
Consensus pattern (39 bp):
TTAAGCTTAGACGAGCAACTTGATGTGATGTGTTATAGT
Found at i:51745126 original size:10 final size:11
Alignment explanation
Indices: 51745108--51745140 Score: 59
Period size: 11 Copynumber: 3.1 Consensus size: 11
51745098 AAAATATATC
51745108 TATTTTTATTT
1 TATTTTTATTT
51745119 TA-TTTTATTT
1 TATTTTTATTT
51745129 TATTTTTATTT
1 TATTTTTATTT
51745140 T
1 T
51745141 TAACCTTCGA
Statistics
Matches: 21, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
10 10 0.48
11 11 0.52
ACGTcount: A:0.18, C:0.00, G:0.00, T:0.82
Consensus pattern (11 bp):
TATTTTTATTT
Found at i:51745142 original size:6 final size:5
Alignment explanation
Indices: 51745111--51745140 Score: 51
Period size: 5 Copynumber: 5.8 Consensus size: 5
51745101 ATATATCTAT
51745111 TTTTA TTTTA TTTTA TTTTA TTTTTA TTTT
1 TTTTA TTTTA TTTTA TTTTA -TTTTA TTTT
51745141 TAACCTTCGA
Statistics
Matches: 24, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
5 19 0.79
6 5 0.21
ACGTcount: A:0.17, C:0.00, G:0.00, T:0.83
Consensus pattern (5 bp):
TTTTA
Found at i:51749531 original size:14 final size:14
Alignment explanation
Indices: 51749512--51749541 Score: 60
Period size: 14 Copynumber: 2.1 Consensus size: 14
51749502 TGAGTCTTTC
51749512 TATTTTGATCAATT
1 TATTTTGATCAATT
51749526 TATTTTGATCAATT
1 TATTTTGATCAATT
51749540 TA
1 TA
51749542 GGTATCTGAA
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 16 1.00
ACGTcount: A:0.30, C:0.07, G:0.07, T:0.57
Consensus pattern (14 bp):
TATTTTGATCAATT
Found at i:51753349 original size:5 final size:5
Alignment explanation
Indices: 51753339--51753366 Score: 56
Period size: 5 Copynumber: 5.6 Consensus size: 5
51753329 TGGTAAGTGG
51753339 TAATA TAATA TAATA TAATA TAATA TAA
1 TAATA TAATA TAATA TAATA TAATA TAA
51753367 ATTTATATAT
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 23 1.00
ACGTcount: A:0.61, C:0.00, G:0.00, T:0.39
Consensus pattern (5 bp):
TAATA
Found at i:51753644 original size:23 final size:23
Alignment explanation
Indices: 51753618--51753662 Score: 81
Period size: 23 Copynumber: 2.0 Consensus size: 23
51753608 AGCACATGCA
51753618 AGCTAATACTAGAGATGATGATG
1 AGCTAATACTAGAGATGATGATG
*
51753641 AGCTAATGCTAGAGATGATGAT
1 AGCTAATACTAGAGATGATGAT
51753663 TACTTAGTTG
Statistics
Matches: 21, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
23 21 1.00
ACGTcount: A:0.38, C:0.09, G:0.27, T:0.27
Consensus pattern (23 bp):
AGCTAATACTAGAGATGATGATG
Found at i:51759782 original size:9 final size:9
Alignment explanation
Indices: 51759768--51759837 Score: 63
Period size: 9 Copynumber: 7.7 Consensus size: 9
51759758 TAAGTTTAAT
51759768 TAATTTTTA
1 TAATTTTTA
51759777 TAATTTTTTAA
1 TAA-TTTTT-A
51759788 TAATTTATTA
1 TAATTT-TTA
*
51759798 -GATTTTTA
1 TAATTTTTA
51759806 T-ATTTTTA
1 TAATTTTTA
**
51759814 TAATAATTA
1 TAATTTTTA
*
51759823 TAATTTTAA
1 TAATTTTTA
51759832 TAATTT
1 TAATTT
51759838 AAAATTTTAT
Statistics
Matches: 50, Mismatches: 6, Indels: 10
0.76 0.09 0.15
Matches are distributed among these distances:
8 11 0.22
9 24 0.48
10 9 0.18
11 6 0.12
ACGTcount: A:0.37, C:0.00, G:0.01, T:0.61
Consensus pattern (9 bp):
TAATTTTTA
Found at i:51759783 original size:29 final size:27
Alignment explanation
Indices: 51759750--51759842 Score: 91
Period size: 29 Copynumber: 3.3 Consensus size: 27
51759740 TAGTTTAAAT
51759750 ATTTTAAATAAGTTTAATTAATTTTTATA
1 ATTTTAAATAA-TTT-ATTAATTTTTATA
*
51759779 ATTTTTTAATAATTTATTAGATTTTTATA
1 A-TTTTAAATAATTTATTA-ATTTTTATA
* *
51759808 TTTTTATAATAA-TTA-TAATTTTAATA
1 ATTTTA-AATAATTTATTAATTTTTATA
*
51759834 ATTTAAAAT
1 ATTTTAAAT
51759843 TTTATAAAAA
Statistics
Matches: 55, Mismatches: 6, Indels: 10
0.77 0.08 0.14
Matches are distributed among these distances:
25 3 0.05
26 12 0.22
27 2 0.04
28 11 0.20
29 18 0.33
30 9 0.16
ACGTcount: A:0.41, C:0.00, G:0.02, T:0.57
Consensus pattern (27 bp):
ATTTTAAATAATTTATTAATTTTTATA
Found at i:51759834 original size:15 final size:16
Alignment explanation
Indices: 51759814--51759846 Score: 50
Period size: 16 Copynumber: 2.1 Consensus size: 16
51759804 TATATTTTTA
*
51759814 TAATAA-TTATAATTT
1 TAATAATTTAAAATTT
51759829 TAATAATTTAAAATTT
1 TAATAATTTAAAATTT
51759845 TA
1 TA
51759847 TAAAAAATAT
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
15 6 0.38
16 10 0.62
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (16 bp):
TAATAATTTAAAATTT
Found at i:51771372 original size:41 final size:42
Alignment explanation
Indices: 51771284--51771372 Score: 103
Period size: 41 Copynumber: 2.2 Consensus size: 42
51771274 GGCATCTAAT
*
51771284 TAATTTTTTAAAATTTAAAATTTCAAAAAAAAATTATAAAAC
1 TAATTTTTAAAAATTTAAAATTTCAAAAAAAAATTATAAAAC
* * * *
51771326 T-ATTTTTAAAAATTTGAAATTAT-AAAAAAATATTCTTAAA-
1 TAATTTTTAAAAATTTAAAATT-TCAAAAAAAAATTATAAAAC
51771366 TAATTTT
1 TAATTTT
51771373 AAATTCTTTT
Statistics
Matches: 40, Mismatches: 5, Indels: 5
0.80 0.10 0.10
Matches are distributed among these distances:
40 1 0.03
41 37 0.93
42 2 0.05
ACGTcount: A:0.53, C:0.03, G:0.01, T:0.43
Consensus pattern (42 bp):
TAATTTTTAAAAATTTAAAATTTCAAAAAAAAATTATAAAAC
Found at i:51772040 original size:15 final size:14
Alignment explanation
Indices: 51772014--51772055 Score: 57
Period size: 15 Copynumber: 2.9 Consensus size: 14
51772004 AAATTTTGGT
51772014 TTTTGATATTTAAGG
1 TTTTGAT-TTTAAGG
51772029 TTTGTGATTTTAAGG
1 TTT-TGATTTTAAGG
*
51772044 TTTAGATTTTAA
1 TTTTGATTTTAA
51772056 AATTCTAAAA
Statistics
Matches: 25, Mismatches: 1, Indels: 3
0.86 0.03 0.10
Matches are distributed among these distances:
14 8 0.32
15 13 0.52
16 4 0.16
ACGTcount: A:0.26, C:0.00, G:0.19, T:0.55
Consensus pattern (14 bp):
TTTTGATTTTAAGG
Found at i:51772203 original size:29 final size:32
Alignment explanation
Indices: 51772160--51772233 Score: 84
Period size: 29 Copynumber: 2.4 Consensus size: 32
51772150 GAAGAATTTA
*
51772160 AGATTTT-GGTTTTTAAGG-CTTAAG-TCTTAT
1 AGATTTTAGG-TTTTAAGGACTTAAGATCATAT
* *
51772190 -GATTTTAGGTTTTAAGGATTTATGATCATAT
1 AGATTTTAGGTTTTAAGGACTTAAGATCATAT
51772221 AGATTTTAGGTTT
1 AGATTTTAGGTTT
51772234 AGGGTTTTTA
Statistics
Matches: 37, Mismatches: 3, Indels: 6
0.80 0.07 0.13
Matches are distributed among these distances:
29 14 0.38
30 6 0.16
31 5 0.14
32 12 0.32
ACGTcount: A:0.26, C:0.04, G:0.20, T:0.50
Consensus pattern (32 bp):
AGATTTTAGGTTTTAAGGACTTAAGATCATAT
Found at i:51774958 original size:24 final size:23
Alignment explanation
Indices: 51774931--51774993 Score: 74
Period size: 25 Copynumber: 2.6 Consensus size: 23
51774921 GATTTGTCCT
51774931 TTTTTATT-TTTCTTTCATTTTAAG
1 TTTTTATTATTTCTTT--TTTTAAG
51774955 TTTTTATTTATTTACTTTTTTTAAG
1 TTTTTA-TTATTT-CTTTTTTTAAG
*
51774980 TTTTTTTTATTTCT
1 TTTTTATTATTTCT
51774994 CCTTATTTAT
Statistics
Matches: 35, Mismatches: 1, Indels: 7
0.81 0.02 0.16
Matches are distributed among these distances:
23 2 0.06
24 12 0.34
25 14 0.40
26 3 0.09
27 4 0.11
ACGTcount: A:0.16, C:0.06, G:0.03, T:0.75
Consensus pattern (23 bp):
TTTTTATTATTTCTTTTTTTAAG
Found at i:51774958 original size:25 final size:24
Alignment explanation
Indices: 51774930--51774993 Score: 71
Period size: 24 Copynumber: 2.6 Consensus size: 24
51774920 TGATTTGTCC
51774930 TTTTTTATT-TTTCTTTCATTTTAAG
1 TTTTTTATTATTTCTTT--TTTTAAG
51774955 -TTTTTATTTATTTACTTTTTTTAAG
1 TTTTTTA-TTATTT-CTTTTTTTAAG
51774980 TTTTTT-TTATTTCT
1 TTTTTTATTATTTCT
51774994 CCTTATTTAT
Statistics
Matches: 35, Mismatches: 0, Indels: 10
0.78 0.00 0.22
Matches are distributed among these distances:
23 2 0.06
24 12 0.34
25 9 0.26
26 8 0.23
27 4 0.11
ACGTcount: A:0.16, C:0.06, G:0.03, T:0.75
Consensus pattern (24 bp):
TTTTTTATTATTTCTTTTTTTAAG
Found at i:51775002 original size:25 final size:24
Alignment explanation
Indices: 51774930--51775002 Score: 67
Period size: 25 Copynumber: 2.8 Consensus size: 24
51774920 TGATTTGTCC
*
51774930 TTTTTTATTTTTCTTTCATTTTAAGTT
1 TTTTTTATTTCTC-TT-A-TTTAAGTT
*
51774957 TTTATTTATTTACT-TTTTTTAAGTT
1 TTT-TTTATTT-CTCTTATTTAAGTT
51774982 TTTTTTATTTCTCCTTATTTA
1 TTTTTTATTTCT-CTTATTTA
51775003 TTTGTTTATT
Statistics
Matches: 39, Mismatches: 3, Indels: 10
0.75 0.06 0.19
Matches are distributed among these distances:
23 2 0.05
24 7 0.18
25 17 0.44
27 5 0.13
28 7 0.18
29 1 0.03
ACGTcount: A:0.16, C:0.08, G:0.03, T:0.73
Consensus pattern (24 bp):
TTTTTTATTTCTCTTATTTAAGTT
Found at i:51775071 original size:23 final size:22
Alignment explanation
Indices: 51775045--51775090 Score: 58
Period size: 22 Copynumber: 2.0 Consensus size: 22
51775035 ATTTGAAATG
51775045 TTTTATAATAT-TATTTTTTAAAA
1 TTTTA-AATATATA-TTTTTAAAA
*
51775068 TTTTAATTATATATTTTTAAAA
1 TTTTAAATATATATTTTTAAAA
51775090 T
1 T
51775091 ATTTTTTAAA
Statistics
Matches: 21, Mismatches: 1, Indels: 3
0.84 0.04 0.12
Matches are distributed among these distances:
22 14 0.67
23 7 0.33
ACGTcount: A:0.39, C:0.00, G:0.00, T:0.61
Consensus pattern (22 bp):
TTTTAAATATATATTTTTAAAA
Found at i:51775099 original size:34 final size:34
Alignment explanation
Indices: 51775056--51775124 Score: 104
Period size: 34 Copynumber: 2.0 Consensus size: 34
51775046 TTTATAATAT
*
51775056 TATTTTTT-AAAATTTTAATTATATATTTTTAAAA
1 TATTTTTTAAAAATTTTAAATAT-TATTTTTAAAA
*
51775090 TATTTTTTAAAAATTTTAAATATTATTTTTTAAA
1 TATTTTTTAAAAATTTTAAATATTATTTTTAAAA
51775124 T
1 T
51775125 TTTAAATATA
Statistics
Matches: 32, Mismatches: 2, Indels: 2
0.89 0.06 0.06
Matches are distributed among these distances:
34 19 0.59
35 13 0.41
ACGTcount: A:0.41, C:0.00, G:0.00, T:0.59
Consensus pattern (34 bp):
TATTTTTTAAAAATTTTAAATATTATTTTTAAAA
Found at i:51775105 original size:22 final size:23
Alignment explanation
Indices: 51775082--51775139 Score: 79
Period size: 21 Copynumber: 2.7 Consensus size: 23
51775072 AATTATATAT
51775082 TTTTAAA-A-TATTTTTTAAAAA
1 TTTTAAATATTATTTTTTAAAAA
51775103 TTTTAAATATTATTTTTT--AAA
1 TTTTAAATATTATTTTTTAAAAA
*
51775124 TTTTAAATATAATTTT
1 TTTTAAATATTATTTT
51775140 AATAATATAA
Statistics
Matches: 34, Mismatches: 1, Indels: 4
0.87 0.03 0.10
Matches are distributed among these distances:
21 25 0.74
22 1 0.03
23 8 0.24
ACGTcount: A:0.41, C:0.00, G:0.00, T:0.59
Consensus pattern (23 bp):
TTTTAAATATTATTTTTTAAAAA
Found at i:51775419 original size:18 final size:18
Alignment explanation
Indices: 51775379--51775432 Score: 63
Period size: 18 Copynumber: 3.0 Consensus size: 18
51775369 AAAATAAAAT
* *
51775379 AATTTGTTAAAAAAGATT
1 AATTTGTTAAAAAATATA
*
51775397 TATTTGTTAAAAAATATA
1 AATTTGTTAAAAAATATA
* *
51775415 AATTTATTTAAAAATATA
1 AATTTGTTAAAAAATATA
51775433 TATTAAAAAT
Statistics
Matches: 30, Mismatches: 6, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
18 30 1.00
ACGTcount: A:0.52, C:0.00, G:0.06, T:0.43
Consensus pattern (18 bp):
AATTTGTTAAAAAATATA
Found at i:51778184 original size:30 final size:30
Alignment explanation
Indices: 51778076--51778208 Score: 135
Period size: 30 Copynumber: 4.4 Consensus size: 30
51778066 GTCGCAGAGC
* *
51778076 AGTTCATATCACCTAGACATGGGTGGTTCA
1 AGTTCATATCACCTGGACATGGGTGGTTCG
* * * *
51778106 AGTTCATATCACCCGAACATGAGCTGCTT-G
1 AGTTCATATCACCTGGACATG-GGTGGTTCG
51778136 AGTTCATATCACCTGGACATGGGTGGTTCG
1 AGTTCATATCACCTGGACATGGGTGGTTCG
* * *
51778166 AGTTCATATCA-CTCGGACATAGGCGGTTTG
1 AGTTCATATCACCT-GGACATGGGTGGTTCG
* *
51778196 AGTTTATTTCACC
1 AGTTCATATCACC
51778209 CAGAGCAACC
Statistics
Matches: 84, Mismatches: 15, Indels: 7
0.79 0.14 0.07
Matches are distributed among these distances:
29 7 0.08
30 71 0.85
31 6 0.07
ACGTcount: A:0.24, C:0.22, G:0.23, T:0.31
Consensus pattern (30 bp):
AGTTCATATCACCTGGACATGGGTGGTTCG
Found at i:51778197 original size:60 final size:60
Alignment explanation
Indices: 51778076--51778208 Score: 178
Period size: 60 Copynumber: 2.2 Consensus size: 60
51778066 GTCGCAGAGC
*
51778076 AGTTCATATCACCTAGACATGGGTGGTTCAAGTTCATATCACCCGAACATGAGCTGCTTG
1 AGTTCATATCACCTAGACATGGGTGGTTCAAGTTCATATCACCCGAACATGAGCGGCTTG
* * * * *
51778136 AGTTCATATCACCTGGACATGGGTGGTTCGAGTTCATATCACTCGGACAT-AGGCGGTTTG
1 AGTTCATATCACCTAGACATGGGTGGTTCAAGTTCATATCACCCGAACATGA-GCGGCTTG
* *
51778196 AGTTTATTTCACC
1 AGTTCATATCACC
51778209 CAGAGCAACC
Statistics
Matches: 64, Mismatches: 8, Indels: 2
0.86 0.11 0.03
Matches are distributed among these distances:
59 1 0.02
60 63 0.98
ACGTcount: A:0.24, C:0.22, G:0.23, T:0.31
Consensus pattern (60 bp):
AGTTCATATCACCTAGACATGGGTGGTTCAAGTTCATATCACCCGAACATGAGCGGCTTG
Found at i:51781485 original size:32 final size:31
Alignment explanation
Indices: 51781439--51781498 Score: 84
Period size: 32 Copynumber: 1.9 Consensus size: 31
51781429 AAATATTAAT
*
51781439 TTTTAAAATTTTAAATTTAATTTAAAAAACG
1 TTTTAAAATTTTAAAATTAATTTAAAAAACG
* *
51781470 TTTTAATATCTTTAAAATTGATTTAAAAA
1 TTTTAAAAT-TTTAAAATTAATTTAAAAA
51781499 TTAATAATTT
Statistics
Matches: 25, Mismatches: 3, Indels: 1
0.86 0.10 0.03
Matches are distributed among these distances:
31 8 0.32
32 17 0.68
ACGTcount: A:0.47, C:0.03, G:0.03, T:0.47
Consensus pattern (31 bp):
TTTTAAAATTTTAAAATTAATTTAAAAAACG
Found at i:51781634 original size:6 final size:7
Alignment explanation
Indices: 51781617--51781651 Score: 52
Period size: 7 Copynumber: 4.7 Consensus size: 7
51781607 ATATTTTTAA
51781617 AAAAATT
1 AAAAATT
51781624 AAAAATT
1 AAAAATT
51781631 AAAAATT
1 AAAAATT
51781638 AAAATATT
1 AAAA-ATT
51781646 ATAAAA
1 A-AAAA
51781652 CTAATAATAA
Statistics
Matches: 26, Mismatches: 0, Indels: 3
0.90 0.00 0.10
Matches are distributed among these distances:
7 18 0.69
8 5 0.19
9 3 0.12
ACGTcount: A:0.71, C:0.00, G:0.00, T:0.29
Consensus pattern (7 bp):
AAAAATT
Found at i:51781732 original size:21 final size:22
Alignment explanation
Indices: 51781708--51781769 Score: 72
Period size: 22 Copynumber: 2.8 Consensus size: 22
51781698 TTATATTATT
51781708 AAAATATATATTTAAAATGTAA
1 AAAATATATATTTAAAATGTAA
* *
51781730 AAAA-ATAATATTTAAATTTTAA
1 AAAATAT-ATATTTAAAATGTAA
* *
51781752 AAAATATTTTTTTAAAAT
1 AAAATATATATTTAAAAT
51781770 ATATTTAAAA
Statistics
Matches: 33, Mismatches: 5, Indels: 4
0.79 0.12 0.10
Matches are distributed among these distances:
21 2 0.06
22 29 0.88
23 2 0.06
ACGTcount: A:0.56, C:0.00, G:0.02, T:0.42
Consensus pattern (22 bp):
AAAATATATATTTAAAATGTAA
Found at i:51781740 original size:22 final size:23
Alignment explanation
Indices: 51781708--51781769 Score: 74
Period size: 21 Copynumber: 2.8 Consensus size: 23
51781698 TTATATTATT
51781708 AAAATATATATTTAAAATGTAAA
1 AAAATATATATTTAAAATGTAAA
* *
51781731 AAAATA-ATATTT-AAATTTTAA
1 AAAATATATATTTAAAATGTAAA
* *
51781752 AAAATATTTTTTTAAAAT
1 AAAATATATATTTAAAAT
51781770 ATATTTAAAA
Statistics
Matches: 33, Mismatches: 4, Indels: 4
0.80 0.10 0.10
Matches are distributed among these distances:
21 13 0.39
22 10 0.30
23 10 0.30
ACGTcount: A:0.56, C:0.00, G:0.02, T:0.42
Consensus pattern (23 bp):
AAAATATATATTTAAAATGTAAA
Found at i:51781764 original size:15 final size:15
Alignment explanation
Indices: 51781746--51781775 Score: 51
Period size: 15 Copynumber: 2.0 Consensus size: 15
51781736 AATATTTAAA
51781746 TTTTAAAAAATATTT
1 TTTTAAAAAATATTT
*
51781761 TTTTAAAATATATTT
1 TTTTAAAAAATATTT
51781776 AAAATTTTAA
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:0.43, C:0.00, G:0.00, T:0.57
Consensus pattern (15 bp):
TTTTAAAAAATATTT
Found at i:51781802 original size:34 final size:34
Alignment explanation
Indices: 51781731--51781802 Score: 101
Period size: 34 Copynumber: 2.1 Consensus size: 34
51781721 AAAATGTAAA
* * *
51781731 AAAATAATATTTAAATTTTAAAAAATATTTTTTT
1 AAAATAATATTTAAATTTTAAAAAATAATATTAT
51781765 AAAAT-ATATTTAAAATTTTAAAAAATAATATTAT
1 AAAATAATATTT-AAATTTTAAAAAATAATATTAT
51781799 AAAA
1 AAAA
51781803 CATTTCAAAT
Statistics
Matches: 34, Mismatches: 3, Indels: 2
0.87 0.08 0.05
Matches are distributed among these distances:
33 6 0.18
34 28 0.82
ACGTcount: A:0.57, C:0.00, G:0.00, T:0.43
Consensus pattern (34 bp):
AAAATAATATTTAAATTTTAAAAAATAATATTAT
Found at i:51787684 original size:3 final size:3
Alignment explanation
Indices: 51787676--51787708 Score: 66
Period size: 3 Copynumber: 11.0 Consensus size: 3
51787666 TATATTTCAA
51787676 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT
51787709 GCAAATTGAA
Statistics
Matches: 30, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 30 1.00
ACGTcount: A:0.67, C:0.00, G:0.00, T:0.33
Consensus pattern (3 bp):
AAT
Found at i:51795183 original size:3 final size:3
Alignment explanation
Indices: 51795160--51795204 Score: 65
Period size: 3 Copynumber: 15.3 Consensus size: 3
51795150 TTTAGCAATT
* *
51795160 TTA TT- TTA TTG TTA CTA TTA TTA TTA TTA TTA TTA TTA TTA TTA T
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA T
51795205 ATCATTGTTA
Statistics
Matches: 37, Mismatches: 4, Indels: 2
0.86 0.09 0.05
Matches are distributed among these distances:
2 2 0.05
3 35 0.95
ACGTcount: A:0.29, C:0.02, G:0.02, T:0.67
Consensus pattern (3 bp):
TTA
Found at i:51807752 original size:44 final size:43
Alignment explanation
Indices: 51807638--51808050 Score: 218
Period size: 44 Copynumber: 9.5 Consensus size: 43
51807628 ATTATACAGG
* *** * *
51807638 TCTTATCTCCCTGAGATTACAGTGGAACAGACCAAAGAATTTCAGA
1 TCTTATCTCCCTGAGATTACAGTGGAGCAGATTGAAGCA---GAGA
* * *
51807684 TCTTATCTCCCTGAGGTTATAGCGGAGCAGATTGAAGCCAGAGA
1 TCTTATCTCCCTGAGATTACAGTGGAGCAGATTGAAG-CAGAGA
* * * ** *
51807728 TCTTATCTCCTTAAGATTACAGCGGAGCAGATCAAAG-ATAGTAA
1 TCTTATCTCCCTGAGATTACAGTGGAGCAGATTGAAGCAGAG--A
* * * *
51807772 TCCTATCTCCTTGAGATTACAATGGAGCGGATT-AA--AG-GA
1 TCTTATCTCCCTGAGATTACAGTGGAGCAGATTGAAGCAGAGA
* * * * *
51807811 TCTTATCTCTCTGA-AGTTACAGTAGAGAAGA-TCACATCAG-G-
1 TCTTATCTCCCTGAGA-TTACAGTGGAGCAGATTGA-AGCAGAGA
* * *** * *
51807852 TCTTATTTCCCTGAGATTACAGTGGAACAGACCAAAGAATTTCAGA
1 TCTTATCTCCCTGAGATTACAGTGGAGCAGATTGAAGCA---GAGA
*
51807898 TCTTATCTCCCTGAGGTTACAGTGGAGCAGATTGAAGCCAGAGA
1 TCTTATCTCCCTGAGATTACAGTGGAGCAGATTGAAG-CAGAGA
* * **
51807942 TCTTATCTCCCTGAGATTACAGCGGAGCAGATCGAAGACA-CTA
1 TCTTATCTCCCTGAGATTACAGTGGAGCAGATTGAAG-CAGAGA
* * * ** *
51807985 TCCTATCTCCCTGA-AGTTACAGTGGAGCGGATTAAAATAAAGGA
1 TCTTATCTCCCTGAGA-TTACAGTGGAGCAGATTGAAGCAGA-GA
* *
51808029 TCTTATCTCTCTGAGGTTACAG
1 TCTTATCTCCCTGAGATTACAG
51808051 CAGAGTAGAT
Statistics
Matches: 281, Mismatches: 66, Indels: 42
0.72 0.17 0.11
Matches are distributed among these distances:
38 2 0.01
39 24 0.09
40 1 0.00
41 27 0.10
42 11 0.04
43 32 0.11
44 120 0.43
45 1 0.00
46 61 0.22
47 2 0.01
ACGTcount: A:0.31, C:0.20, G:0.21, T:0.27
Consensus pattern (43 bp):
TCTTATCTCCCTGAGATTACAGTGGAGCAGATTGAAGCAGAGA
Found at i:51807992 original size:87 final size:87
Alignment explanation
Indices: 51807901--51808062 Score: 218
Period size: 87 Copynumber: 1.9 Consensus size: 87
51807891 TTTCAGATCT
* * * *
51807901 TATCTCCCTGAGGTTACAGTGGAGCAGATTGAAGC-CAGAGATCTTATCTCCCTGAGATTACAGC
1 TATCTCCCTGAAGTTACAGTGGAGCAGATTAAAACAAAG-GATCTTATCTCCCTGAGATTACAGC
*
51807965 GGAGCAGATCGAAGACACTATCC
65 AGAGCAGATCGAAGACACTATCC
* * * *
51807988 TATCTCCCTGAAGTTACAGTGGAGCGGATTAAAATAAAGGATCTTATCTCTCTGAGGTTACAGCA
1 TATCTCCCTGAAGTTACAGTGGAGCAGATTAAAACAAAGGATCTTATCTCCCTGAGATTACAGCA
*
51808053 GAGTAGATCG
66 GAGCAGATCG
51808063 CATCAAGTCT
Statistics
Matches: 64, Mismatches: 10, Indels: 2
0.84 0.13 0.03
Matches are distributed among these distances:
87 62 0.97
88 2 0.03
ACGTcount: A:0.30, C:0.21, G:0.24, T:0.25
Consensus pattern (87 bp):
TATCTCCCTGAAGTTACAGTGGAGCAGATTAAAACAAAGGATCTTATCTCCCTGAGATTACAGCA
GAGCAGATCGAAGACACTATCC
Found at i:51808166 original size:218 final size:214
Alignment explanation
Indices: 51807637--51808166 Score: 559
Period size: 214 Copynumber: 2.5 Consensus size: 214
51807627 CATTATACAG
* * * * * * *
51807637 GTCTTATCTCCCTGAGATTACAGTGGAACAGACCAAAGAATTTCAGATCTTATCTCCCTGAGGTT
1 GTCTTATTTCCCTGAGATTACAGTGGAACAGACCAAAGAATATAAGAGCGTATCTCCCTAAAGTT
* ** * * *
51807702 ATAGCGGAGCAGATTGAAGCCAGAGATCTTATCTCCTTAAGATTACAGCGGAGCAGATCAAAGAT
66 ACAGCGGAGCAGACAGAAGACAGAGATCTTATCTCCCTAAGATTACAGCGGAGCAGATCAAAGAC
* *
51807767 AGTAATCCTATCTCCTTGAGATTACAATGGAGCGGATTAAAGGATCTTATCTCTCTGAAGTTACA
131 ACTAATCCTATCTCCCTGAGATTACAATGGAGCGGATTAAAGGATCTTATCTCTCTGAAGTTACA
* *
51807832 GTAGAGAAGATCACATCAG
196 GCAGAGAAGATCACATCAA
* * * * * *
51807851 GTCTTATTTCCCTGAGATTACAGTGGAACAGACCAAAGAATTTCAGATCTTATCTCCCTGAGGTT
1 GTCTTATTTCCCTGAGATTACAGTGGAACAGACCAAAGAATATAAGAGCGTATCTCCCTAAAGTT
* ** * * *
51807916 ACAGTGGAGCAGATTGAAGCCAGAGATCTTATCTCCCTGAGATTACAGCGGAGCAGATCGAAGAC
66 ACAGCGGAGCAGACAGAAGACAGAGATCTTATCTCCCTAAGATTACAGCGGAGCAGATCAAAGAC
* *
51807981 ACT-ATCCTATCTCCCTGA-AGTTACAGTGGAGCGGATTAAAATAAAGGATCTTATCTCTCTGAG
131 ACTAATCCTATCTCCCTGAGA-TTACAATGGAGCGGA-T----TAAAGGATCTTATCTCTCTGAA
* *
51808044 GTTACAGCAGAGTAGATCGCATCAA
190 GTTACAGCAGAGAAGATCACATCAA
* * *
51808069 GTCTTATTTCCCTGAAGA-TGCAGTGGAACAGACTGAAA-ACA-ATAAG-GCGTGTCTCCCTAAA
1 GTCTTATTTCCCTG-AGATTACAGTGGAACAGAC-CAAAGA-ATATAAGAGCGTATCTCCCTAAA
** * * *
51808130 GTTGTAGCGGAGCGGACAGAAGATAGTGATTCTTATC
63 GTTACAGCGGAGCAGACAGAAGACAGAGA-TCTTATC
51808167 ATGTCTACTC
Statistics
Matches: 273, Mismatches: 33, Indels: 16
0.85 0.10 0.05
Matches are distributed among these distances:
212 1 0.00
213 28 0.10
214 126 0.46
217 30 0.11
218 81 0.30
219 7 0.03
ACGTcount: A:0.31, C:0.20, G:0.22, T:0.26
Consensus pattern (214 bp):
GTCTTATTTCCCTGAGATTACAGTGGAACAGACCAAAGAATATAAGAGCGTATCTCCCTAAAGTT
ACAGCGGAGCAGACAGAAGACAGAGATCTTATCTCCCTAAGATTACAGCGGAGCAGATCAAAGAC
ACTAATCCTATCTCCCTGAGATTACAATGGAGCGGATTAAAGGATCTTATCTCTCTGAAGTTACA
GCAGAGAAGATCACATCAA
Found at i:51809556 original size:20 final size:20
Alignment explanation
Indices: 51809531--51809573 Score: 59
Period size: 20 Copynumber: 2.1 Consensus size: 20
51809521 TTGTTACTAT
*
51809531 TATCATTATTATTATTATTA
1 TATCATTATTATTATCATTA
* *
51809551 TATCATTGTTATTCTCATTA
1 TATCATTATTATTATCATTA
51809571 TAT
1 TAT
51809574 ATTTTCATTT
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
20 20 1.00
ACGTcount: A:0.30, C:0.09, G:0.02, T:0.58
Consensus pattern (20 bp):
TATCATTATTATTATCATTA
Found at i:51812975 original size:27 final size:27
Alignment explanation
Indices: 51812878--51812973 Score: 167
Period size: 27 Copynumber: 3.5 Consensus size: 27
51812868 AAAAATAAAA
51812878 ATTTACCAAAATATTACAACTTTTTTTT
1 ATTTACCAAAATATTACAAC-TTTTTTT
51812906 ATTTACCAAAATATTACAACTTTTTTT
1 ATTTACCAAAATATTACAACTTTTTTT
51812933 ATTTACCAAAATATATA-AACTTTTTTT
1 ATTTACCAAAATAT-TACAACTTTTTTT
51812960 ATTTACCAAAATAT
1 ATTTACCAAAATAT
51812974 ATCAAAAAAA
Statistics
Matches: 67, Mismatches: 0, Indels: 3
0.96 0.00 0.04
Matches are distributed among these distances:
27 45 0.67
28 22 0.33
ACGTcount: A:0.40, C:0.14, G:0.00, T:0.47
Consensus pattern (27 bp):
ATTTACCAAAATATTACAACTTTTTTT
Found at i:51813050 original size:27 final size:27
Alignment explanation
Indices: 51813012--51813097 Score: 104
Period size: 27 Copynumber: 3.2 Consensus size: 27
51813002 ACTGACACCA
* *
51813012 GCCAATTAAATTGGCGGCACCAAAGGT
1 GCCAAATAAATTGGCGGCACCAATGGT
* *
51813039 GCCAAATAAATTGGTGGCACCATTGGT
1 GCCAAATAAATTGGCGGCACCAATGGT
*
51813066 GCCAAAGT-CATTGGCGGCACC-ATGGT
1 GCCAAA-TAAATTGGCGGCACCAATGGT
51813092 GCCAAA
1 GCCAAA
51813098 GGAAAAAAAA
Statistics
Matches: 51, Mismatches: 7, Indels: 3
0.84 0.11 0.05
Matches are distributed among these distances:
26 10 0.20
27 40 0.78
28 1 0.02
ACGTcount: A:0.30, C:0.23, G:0.27, T:0.20
Consensus pattern (27 bp):
GCCAAATAAATTGGCGGCACCAATGGT
Found at i:51813186 original size:20 final size:19
Alignment explanation
Indices: 51813171--51813240 Score: 88
Period size: 19 Copynumber: 3.7 Consensus size: 19
51813161 TCAACTCATT
*
51813171 TTTTTATTTAATAACTCTA
1 TTTTAATTTAATAACTCTA
*
51813190 TTTTAATTTAATAAAT-TA
1 TTTTAATTTAATAACTCTA
* * *
51813208 TTCTCATTTAATAACTTTA
1 TTTTAATTTAATAACTCTA
51813227 TTTTAATTTAATAA
1 TTTTAATTTAATAA
51813241 ACTATTAAGT
Statistics
Matches: 43, Mismatches: 7, Indels: 2
0.83 0.13 0.04
Matches are distributed among these distances:
18 15 0.35
19 28 0.65
ACGTcount: A:0.37, C:0.07, G:0.00, T:0.56
Consensus pattern (19 bp):
TTTTAATTTAATAACTCTA
Found at i:51813221 original size:37 final size:37
Alignment explanation
Indices: 51813176--51813246 Score: 124
Period size: 37 Copynumber: 1.9 Consensus size: 37
51813166 TCATTTTTTT
*
51813176 ATTTAATAACTCTATTTTAATTTAATAAATTATTCTC
1 ATTTAATAACTCTATTTTAATTTAATAAACTATTCTC
*
51813213 ATTTAATAACTTTATTTTAATTTAATAAACTATT
1 ATTTAATAACTCTATTTTAATTTAATAAACTATT
51813247 AAGTAATACT
Statistics
Matches: 32, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
37 32 1.00
ACGTcount: A:0.39, C:0.08, G:0.00, T:0.52
Consensus pattern (37 bp):
ATTTAATAACTCTATTTTAATTTAATAAACTATTCTC
Found at i:51813853 original size:37 final size:37
Alignment explanation
Indices: 51813804--51813874 Score: 133
Period size: 37 Copynumber: 1.9 Consensus size: 37
51813794 AGTATTACTT
51813804 AATAGTTTATTAAATTAAAATAGAGTTATTAAATGAG
1 AATAGTTTATTAAATTAAAATAGAGTTATTAAATGAG
*
51813841 AATATTTTATTAAATTAAAATAGAGTTATTAAAT
1 AATAGTTTATTAAATTAAAATAGAGTTATTAAAT
51813875 AAAAAAAATG
Statistics
Matches: 33, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
37 33 1.00
ACGTcount: A:0.49, C:0.00, G:0.10, T:0.41
Consensus pattern (37 bp):
AATAGTTTATTAAATTAAAATAGAGTTATTAAATGAG
Found at i:51813862 original size:18 final size:18
Alignment explanation
Indices: 51813804--51813878 Score: 71
Period size: 18 Copynumber: 4.1 Consensus size: 18
51813794 AGTATTACTT
*
51813804 AATAGTTTATTAAATTAA
1 AATAATTTATTAAATTAA
* * *
51813822 AATAGAGTTATTAAATGAG
1 AATA-ATTTATTAAATTAA
*
51813841 AATATTTTATTAAATTAA
1 AATAATTTATTAAATTAA
*
51813859 AATAGAGTTATTAAA-TAA
1 AATA-ATTTATTAAATTAA
51813877 AA
1 AA
51813879 AAAATGAGTT
Statistics
Matches: 45, Mismatches: 10, Indels: 4
0.76 0.17 0.07
Matches are distributed among these distances:
18 23 0.51
19 22 0.49
ACGTcount: A:0.52, C:0.00, G:0.09, T:0.39
Consensus pattern (18 bp):
AATAATTTATTAAATTAA
Found at i:51813879 original size:19 final size:19
Alignment explanation
Indices: 51813810--51813878 Score: 88
Period size: 19 Copynumber: 3.7 Consensus size: 19
51813800 ACTTAATAGT
51813810 TTATTAAATTAAAATAGAG
1 TTATTAAATTAAAATAGAG
* * **
51813829 TTATTAAATGAGAATA-TT
1 TTATTAAATTAAAATAGAG
51813847 TTATTAAATTAAAATAGAG
1 TTATTAAATTAAAATAGAG
51813866 TTATTAAA-TAAAA
1 TTATTAAATTAAAA
51813879 AAAATGAGTT
Statistics
Matches: 41, Mismatches: 8, Indels: 3
0.79 0.15 0.06
Matches are distributed among these distances:
18 19 0.46
19 22 0.54
ACGTcount: A:0.52, C:0.00, G:0.09, T:0.39
Consensus pattern (19 bp):
TTATTAAATTAAAATAGAG
Found at i:51814030 original size:27 final size:26
Alignment explanation
Indices: 51813953--51814038 Score: 102
Period size: 27 Copynumber: 3.2 Consensus size: 26
51813943 ATTTTTTTCC
*
51813953 TTTGGCACCATGGTGCCGCCAA-TGA
1 TTTGGCACCATGGTGCCGCCAATTTA
*
51813978 CTTTGGCACCAATGGTGCCACCAATTTA
1 -TTTGGCACC-ATGGTGCCGCCAATTTA
*
51814006 TTTGGCACCTTTGGTGCCGCCAATTTA
1 TTTGGCACC-ATGGTGCCGCCAATTTA
*
51814033 ATTGGC
1 TTTGGC
51814039 TGGTGTCATT
Statistics
Matches: 52, Mismatches: 6, Indels: 3
0.85 0.10 0.05
Matches are distributed among these distances:
26 9 0.17
27 41 0.79
28 2 0.04
ACGTcount: A:0.20, C:0.27, G:0.23, T:0.30
Consensus pattern (26 bp):
TTTGGCACCATGGTGCCGCCAATTTA
Found at i:51814096 original size:28 final size:28
Alignment explanation
Indices: 51814064--51814145 Score: 139
Period size: 28 Copynumber: 2.9 Consensus size: 28
51814054 TTTTGGTTTT
*
51814064 TTTATATATTTTAGTAAATAAAAAAAAG
1 TTTATATATTTTGGTAAATAAAAAAAAG
51814092 TTTATATATTTTGGTAAATAAAAAAAAG
1 TTTATATATTTTGGTAAATAAAAAAAAG
51814120 TTGTA-ATATTTTGGTAAATAAAAAAA
1 TT-TATATATTTTGGTAAATAAAAAAA
51814146 TTGTAATATT
Statistics
Matches: 52, Mismatches: 1, Indels: 2
0.95 0.02 0.04
Matches are distributed among these distances:
28 50 0.96
29 2 0.04
ACGTcount: A:0.51, C:0.00, G:0.10, T:0.39
Consensus pattern (28 bp):
TTTATATATTTTGGTAAATAAAAAAAAG
Found at i:51814114 original size:26 final size:27
Alignment explanation
Indices: 51814069--51814164 Score: 133
Period size: 28 Copynumber: 3.5 Consensus size: 27
51814059 GTTTTTTTAT
*
51814069 ATATTTTAGTAAATAAAAAAAAGTT-TA
1 ATATTTTGGTAAAT-AAAAAAAGTTGTA
51814096 TATATTTTGGTAAATAAAAAAAAGTTGTA
1 -ATATTTTGGTAAAT-AAAAAAAGTTGTA
51814125 ATATTTTGGTAAATAAAAAAA-TTGTA
1 ATATTTTGGTAAATAAAAAAAGTTGTA
*
51814151 ATATTTTGATAAAT
1 ATATTTTGGTAAAT
51814165 TTTTATTTTT
Statistics
Matches: 65, Mismatches: 2, Indels: 4
0.92 0.03 0.06
Matches are distributed among these distances:
26 18 0.28
27 7 0.11
28 38 0.58
29 2 0.03
ACGTcount: A:0.50, C:0.00, G:0.10, T:0.40
Consensus pattern (27 bp):
ATATTTTGGTAAATAAAAAAAGTTGTA
Found at i:51814179 original size:17 final size:18
Alignment explanation
Indices: 51814154--51814188 Score: 54
Period size: 17 Copynumber: 2.0 Consensus size: 18
51814144 AATTGTAATA
51814154 TTTTGATAA-ATTTTTAT
1 TTTTGATAATATTTTTAT
*
51814171 TTTTTATAATATTTTTAT
1 TTTTGATAATATTTTTAT
51814189 AAAAAACTCA
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
17 8 0.50
18 8 0.50
ACGTcount: A:0.29, C:0.00, G:0.03, T:0.69
Consensus pattern (18 bp):
TTTTGATAATATTTTTAT
Found at i:51815000 original size:21 final size:21
Alignment explanation
Indices: 51814967--51815017 Score: 59
Period size: 21 Copynumber: 2.5 Consensus size: 21
51814957 ACTTTGATAC
*
51814967 ATTA-ATTTATTTGTATTATT
1 ATTATATTTATTTGTATCATT
* * *
51814987 TTTATATTTTTTTGTGTCATT
1 ATTATATTTATTTGTATCATT
51815008 ATTATATTTA
1 ATTATATTTA
51815018 AAATATTTTA
Statistics
Matches: 24, Mismatches: 6, Indels: 1
0.77 0.19 0.03
Matches are distributed among these distances:
20 3 0.12
21 21 0.88
ACGTcount: A:0.25, C:0.02, G:0.06, T:0.67
Consensus pattern (21 bp):
ATTATATTTATTTGTATCATT
Found at i:51816835 original size:34 final size:33
Alignment explanation
Indices: 51816783--51816851 Score: 88
Period size: 34 Copynumber: 2.1 Consensus size: 33
51816773 TATATATATA
*
51816783 TTCACTTATAATAATGTTTATGAATTTCTATATTT
1 TTCACTTATAATAATGTTTAT-AATTTATA-ATTT
51816818 TTCACTT-TAA-AATTGTTTATAATTTATAATTT
1 TTCACTTATAATAA-TGTTTATAATTTATAATTT
51816850 TT
1 TT
51816852 TAAAATATTT
Statistics
Matches: 32, Mismatches: 1, Indels: 5
0.84 0.03 0.13
Matches are distributed among these distances:
32 6 0.19
33 9 0.28
34 10 0.31
35 7 0.22
ACGTcount: A:0.32, C:0.07, G:0.04, T:0.57
Consensus pattern (33 bp):
TTCACTTATAATAATGTTTATAATTTATAATTT
Found at i:51830871 original size:24 final size:25
Alignment explanation
Indices: 51830844--51830897 Score: 74
Period size: 25 Copynumber: 2.2 Consensus size: 25
51830834 GTTATTAGGG
* *
51830844 TTACCGATTC-TAGCTCTTATGAGC
1 TTACCGATACTTAGCTCGTATGAGC
*
51830868 TTACCGATACTTAGCTCGTGTGAGC
1 TTACCGATACTTAGCTCGTATGAGC
51830893 TTACC
1 TTACC
51830898 ATTATTCAAC
Statistics
Matches: 26, Mismatches: 3, Indels: 1
0.87 0.10 0.03
Matches are distributed among these distances:
24 9 0.35
25 17 0.65
ACGTcount: A:0.20, C:0.26, G:0.19, T:0.35
Consensus pattern (25 bp):
TTACCGATACTTAGCTCGTATGAGC
Found at i:51833204 original size:25 final size:25
Alignment explanation
Indices: 51833176--51833231 Score: 60
Period size: 25 Copynumber: 2.2 Consensus size: 25
51833166 GCATGTCATT
*
51833176 GGGAAGCT-TTGTCGAGCCATATAAC
1 GGGAAGCTCATGT-GAGCCATATAAC
* *
51833201 GGGAAACTCATGTGAGCCATGTAAC
1 GGGAAGCTCATGTGAGCCATATAAC
*
51833226 GAGAAG
1 GGGAAG
51833232 TTCAAGCGAA
Statistics
Matches: 25, Mismatches: 5, Indels: 2
0.78 0.16 0.06
Matches are distributed among these distances:
25 22 0.88
26 3 0.12
ACGTcount: A:0.32, C:0.18, G:0.30, T:0.20
Consensus pattern (25 bp):
GGGAAGCTCATGTGAGCCATATAAC
Found at i:51833306 original size:27 final size:26
Alignment explanation
Indices: 51833262--51833314 Score: 61
Period size: 27 Copynumber: 2.0 Consensus size: 26
51833252 GAAGCTCCGG
* *
51833262 AGAGCCATTAATTAGGAATCTCATGAA
1 AGAGCCATTAATGAGGAAGCTC-TGAA
* *
51833289 AGAGCCTTTAATGGGGAAGCTCTGAA
1 AGAGCCATTAATGAGGAAGCTCTGAA
51833315 GAGTCATATA
Statistics
Matches: 22, Mismatches: 4, Indels: 1
0.81 0.15 0.04
Matches are distributed among these distances:
26 4 0.18
27 18 0.82
ACGTcount: A:0.36, C:0.15, G:0.25, T:0.25
Consensus pattern (26 bp):
AGAGCCATTAATGAGGAAGCTCTGAA
Found at i:51835485 original size:39 final size:40
Alignment explanation
Indices: 51835412--51835488 Score: 129
Period size: 39 Copynumber: 1.9 Consensus size: 40
51835402 GTAAAAAAGA
51835412 AAAGACCTTTTGAACGTTTTTTTGCTTCTCTTCTCTCTACT
1 AAAGACCTTTTGAACG-TTTTTTGCTTCTCTTCTCTCTACT
*
51835453 AAAGACCTTTTGAAC-TTTTTTGCTTCTTTTCTCTCT
1 AAAGACCTTTTGAACGTTTTTTGCTTCTCTTCTCTCT
51835489 GCTTTGTCGC
Statistics
Matches: 35, Mismatches: 1, Indels: 2
0.92 0.03 0.05
Matches are distributed among these distances:
39 20 0.57
41 15 0.43
ACGTcount: A:0.17, C:0.23, G:0.09, T:0.51
Consensus pattern (40 bp):
AAAGACCTTTTGAACGTTTTTTGCTTCTCTTCTCTCTACT
Found at i:51837264 original size:53 final size:55
Alignment explanation
Indices: 51837202--51837429 Score: 215
Period size: 53 Copynumber: 4.3 Consensus size: 55
51837192 ACTGGCCACA
* *
51837202 ACCCTAAATTTTTTTTA-TCT-GATAAAG-GGTTGTCAGCCATCAGTGTCCCAAT
1 ACCCCAAATTTTTTTTATTCTAGATAAAGAGGTTGTCAGCCATCAGTGTCCCAAC
* * * *
51837254 ACCCCCAAATTTTTTTAATTCTGGA-AAAGAGGTTCT-AGCCATCAGTGTCCCAGC
1 A-CCCCAAATTTTTTTTATTCTAGATAAAGAGGTTGTCAGCCATCAGTGTCCCAAC
* * * ** * * *
51837308 ACCCAAAATTTTTTTTAAT-TAGATAAAGACG-TGTTGGCCATTAGTGTCCTAGC
1 ACCCCAAATTTTTTTTATTCTAGATAAAGAGGTTGTCAGCCATCAGTGTCCCAAC
* * * *
51837361 ACCCCAAAATTTTTTTATTC-AGATAAAG-GGGTGTCGGCCATCAGTGTCACAAC
1 ACCCCAAATTTTTTTTATTCTAGATAAAGAGGTTGTCAGCCATCAGTGTCCCAAC
51837414 ACCCC-AATTTTTTTTA
1 ACCCCAAATTTTTTTTA
51837430 AATATACCAG
Statistics
Matches: 144, Mismatches: 24, Indels: 16
0.78 0.13 0.09
Matches are distributed among these distances:
52 17 0.12
53 96 0.67
54 24 0.17
55 7 0.05
ACGTcount: A:0.29, C:0.22, G:0.16, T:0.34
Consensus pattern (55 bp):
ACCCCAAATTTTTTTTATTCTAGATAAAGAGGTTGTCAGCCATCAGTGTCCCAAC
Found at i:51839212 original size:20 final size:20
Alignment explanation
Indices: 51839189--51839254 Score: 64
Period size: 20 Copynumber: 3.3 Consensus size: 20
51839179 TTTTTTACTT
51839189 TATGTTCATTTATTTATTTA
1 TATGTTCATTTATTTATTTA
* *
51839209 TATGTCCAATTT-TTTATGTTT
1 TATGTTC-ATTTATTTAT-TTA
*
51839230 TA-GTTTATTTATTTATTTA
1 TATGTTCATTTATTTATTTA
*
51839249 TTTGTT
1 TATGTT
51839255 ATTGTATATA
Statistics
Matches: 36, Mismatches: 6, Indels: 8
0.72 0.12 0.16
Matches are distributed among these distances:
19 7 0.19
20 21 0.58
21 8 0.22
ACGTcount: A:0.21, C:0.05, G:0.08, T:0.67
Consensus pattern (20 bp):
TATGTTCATTTATTTATTTA
Found at i:51839587 original size:109 final size:109
Alignment explanation
Indices: 51839396--51839703 Score: 505
Period size: 109 Copynumber: 2.9 Consensus size: 109
51839386 TTTTTTAAAG
* * *
51839396 TAAGGCAATATTTTGCGTTTGGAAATTCAAGAAAACGTGCCCTAATGTGTTGGGTTTCGATTTTT
1 TAAGGCAATGTTTTGCGTTTGGAAATTCGAGAAAACGTGCCCTAATGTGCTGGGTTTCGATTTTT
**
51839461 CTCGTTCAACCAAATAGCTAAATATCCTTTTAAAAATTTCAAAA
66 CTCGTTCAACCAAATAGCTAAATATCCTTCCAAAAATTTCAAAA
* *
51839505 TAAGGCAATGTTTTGCATTTGGAAATTCGAGAAAACATGCCCTAATGTGCTGGGTTTCGATTTTT
1 TAAGGCAATGTTTTGCGTTTGGAAATTCGAGAAAACGTGCCCTAATGTGCTGGGTTTCGATTTTT
51839570 CTCGTTCAACCAAATAGCTAAATATCCTTCCAAAAATTTCAAAA
66 CTCGTTCAACCAAATAGCTAAATATCCTTCCAAAAATTTCAAAA
*
51839614 TAAGGCAATGTTTTGCGTTTGGAAATTCGAG-AAACGTGCCCTAATGTGCTGGTTTTCGA--TTT
1 TAAGGCAATGTTTTGCGTTTGGAAATTCGAGAAAACGTGCCCTAATGTGCTGGGTTTCGATTTTT
* *
51839676 CTCGTTTAACCAAATAGCCAAATATCCT
66 CTCGTTCAACCAAATAGCTAAATATCCT
51839704 CTTGAATTTT
Statistics
Matches: 187, Mismatches: 12, Indels: 3
0.93 0.06 0.01
Matches are distributed among these distances:
106 29 0.16
108 26 0.14
109 132 0.71
ACGTcount: A:0.31, C:0.18, G:0.17, T:0.34
Consensus pattern (109 bp):
TAAGGCAATGTTTTGCGTTTGGAAATTCGAGAAAACGTGCCCTAATGTGCTGGGTTTCGATTTTT
CTCGTTCAACCAAATAGCTAAATATCCTTCCAAAAATTTCAAAA
Found at i:51841322 original size:21 final size:20
Alignment explanation
Indices: 51841267--51841325 Score: 64
Period size: 21 Copynumber: 2.9 Consensus size: 20
51841257 ATTGTTTTCT
*
51841267 TTTTTTTTTGCTGTTTTTTA
1 TTTTTTTTTGCTATTTTTTA
* *
51841287 TTATTTTGTTGCTATTTTCTTG
1 TT-TTTTTTTGCTATTTT-TTA
*
51841309 TTTTTTTTTACTATTTT
1 TTTTTTTTTGCTATTTT
51841326 GCTACCATTT
Statistics
Matches: 32, Mismatches: 5, Indels: 3
0.80 0.12 0.08
Matches are distributed among these distances:
20 2 0.06
21 26 0.81
22 4 0.12
ACGTcount: A:0.08, C:0.07, G:0.08, T:0.76
Consensus pattern (20 bp):
TTTTTTTTTGCTATTTTTTA
Found at i:51841399 original size:19 final size:17
Alignment explanation
Indices: 51841375--51841409 Score: 52
Period size: 19 Copynumber: 1.9 Consensus size: 17
51841365 ATTATTTTAA
51841375 TATTATATAATTCTTGTTT
1 TATTAT-TAATT-TTGTTT
51841394 TATTATTAATTTTGTT
1 TATTATTAATTTTGTT
51841410 ACTATTTTAG
Statistics
Matches: 16, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
17 5 0.31
18 5 0.31
19 6 0.38
ACGTcount: A:0.26, C:0.03, G:0.06, T:0.66
Consensus pattern (17 bp):
TATTATTAATTTTGTTT
Found at i:51841415 original size:18 final size:19
Alignment explanation
Indices: 51841375--51841415 Score: 50
Period size: 18 Copynumber: 2.2 Consensus size: 19
51841365 ATTATTTTAA
*
51841375 TATTATATAATTCTTGTTT
1 TATTATATAATTCTTGTTC
51841394 TATTAT-TAATT-TTGTTAC
1 TATTATATAATTCTTGTT-C
51841412 TATT
1 TATT
51841416 TTAGAGACAT
Statistics
Matches: 20, Mismatches: 1, Indels: 3
0.83 0.04 0.12
Matches are distributed among these distances:
17 5 0.25
18 9 0.45
19 6 0.30
ACGTcount: A:0.27, C:0.05, G:0.05, T:0.63
Consensus pattern (19 bp):
TATTATATAATTCTTGTTC
Found at i:51844527 original size:15 final size:14
Alignment explanation
Indices: 51844475--51844527 Score: 52
Period size: 14 Copynumber: 3.6 Consensus size: 14
51844465 TCTTATTTTA
*
51844475 TTTTTAAATATATT
1 TTTTTAATTATATT
* *
51844489 TTTATAATTACATAT
1 TTTTTAATTATAT-T
*
51844504 TTATTAATTATATT
1 TTTTTAATTATATT
51844518 TTTTTGAATT
1 TTTTT-AATT
51844528 TTTAAAAAGT
Statistics
Matches: 30, Mismatches: 7, Indels: 3
0.75 0.17 0.08
Matches are distributed among these distances:
14 15 0.50
15 15 0.50
ACGTcount: A:0.34, C:0.02, G:0.02, T:0.62
Consensus pattern (14 bp):
TTTTTAATTATATT
Found at i:51846282 original size:15 final size:15
Alignment explanation
Indices: 51846252--51846291 Score: 62
Period size: 15 Copynumber: 2.6 Consensus size: 15
51846242 TATGTTAACT
51846252 TAATATATATAAGTTA
1 TAATA-ATATAAGTTA
*
51846268 TAATAATATATGTTA
1 TAATAATATAAGTTA
51846283 TAATAATAT
1 TAATAATAT
51846292 TTAAAACATA
Statistics
Matches: 23, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
15 18 0.78
16 5 0.22
ACGTcount: A:0.50, C:0.00, G:0.05, T:0.45
Consensus pattern (15 bp):
TAATAATATAAGTTA
Found at i:51847518 original size:43 final size:43
Alignment explanation
Indices: 51847457--51847542 Score: 118
Period size: 43 Copynumber: 2.0 Consensus size: 43
51847447 TATGTGATTG
*
51847457 ATATTGAAACGAAAAATATCAGAAGTGAATATGAGATGAGAAA
1 ATATTGAAACGAAAAATATCAGAAATGAATATGAGATGAGAAA
* * * * *
51847500 ATATTGAAATGGAAAATATGAGAAATGATTATGATATGAGAAA
1 ATATTGAAACGAAAAATATCAGAAATGAATATGAGATGAGAAA
51847543 TGAGATATGA
Statistics
Matches: 37, Mismatches: 6, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
43 37 1.00
ACGTcount: A:0.52, C:0.02, G:0.21, T:0.24
Consensus pattern (43 bp):
ATATTGAAACGAAAAATATCAGAAATGAATATGAGATGAGAAA
Found at i:51847526 original size:16 final size:17
Alignment explanation
Indices: 51847484--51847547 Score: 55
Period size: 18 Copynumber: 3.9 Consensus size: 17
51847474 ATCAGAAGTG
51847484 AATATGAG--ATGAGAA
1 AATATGAGAAATGAGAA
*
51847499 AATAT-TGAAATG-GAA
1 AATATGAGAAATGAGAA
* *
51847514 AATATGAGAAATGATTAT
1 AATATGAGAAATGA-GAA
*
51847532 GATATGAGAAATGAGA
1 AATATGAGAAATGAGA
51847548 TATGAAATGA
Statistics
Matches: 38, Mismatches: 6, Indels: 8
0.73 0.12 0.15
Matches are distributed among these distances:
14 1 0.03
15 13 0.34
16 9 0.24
17 1 0.03
18 14 0.37
ACGTcount: A:0.52, C:0.00, G:0.23, T:0.25
Consensus pattern (17 bp):
AATATGAGAAATGAGAA
Found at i:51848850 original size:49 final size:49
Alignment explanation
Indices: 51848773--51848866 Score: 143
Period size: 49 Copynumber: 1.9 Consensus size: 49
51848763 TCAAGAAGGG
* * **
51848773 ATAAATAATGATAAGAGTGTAGATAGTGGAAGATTAAGTTTAGCAATGT
1 ATAAATAATGATAAAAGTGTAGACAGTGGAAGACCAAGTTTAGCAATGT
*
51848822 ATAAATAGTGATAAAAGTGTAGACAGTGGAAGACCAAGTTTAGCA
1 ATAAATAATGATAAAAGTGTAGACAGTGGAAGACCAAGTTTAGCA
51848867 TTGCATAGCA
Statistics
Matches: 40, Mismatches: 5, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
49 40 1.00
ACGTcount: A:0.44, C:0.05, G:0.24, T:0.27
Consensus pattern (49 bp):
ATAAATAATGATAAAAGTGTAGACAGTGGAAGACCAAGTTTAGCAATGT
Found at i:51849422 original size:23 final size:23
Alignment explanation
Indices: 51849422--51849497 Score: 143
Period size: 23 Copynumber: 3.3 Consensus size: 23
51849412 TAGCATATAT
*
51849422 ATATATATACCAAATTGGACAGC
1 ATATATACACCAAATTGGACAGC
51849445 ATATATACACCAAATTGGACAGC
1 ATATATACACCAAATTGGACAGC
51849468 ATATATACACCAAATTGGACAGC
1 ATATATACACCAAATTGGACAGC
51849491 ATATATA
1 ATATATA
51849498 TATACTCAAT
Statistics
Matches: 52, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
23 52 1.00
ACGTcount: A:0.45, C:0.18, G:0.12, T:0.25
Consensus pattern (23 bp):
ATATATACACCAAATTGGACAGC
Found at i:51849437 original size:29 final size:29
Alignment explanation
Indices: 51849396--51849501 Score: 101
Period size: 23 Copynumber: 4.1 Consensus size: 29
51849386 AGACAACATT
* *
51849396 TATACACCCAATTGGATAGCATATATATA
1 TATACACCAAATTGGACAGCATATATATA
*
51849425 TATATACCAAATTGGACAGC------ATA
1 TATACACCAAATTGGACAGCATATATATA
51849448 TATACACCAAATTGGACAGC------ATA
1 TATACACCAAATTGGACAGCATATATATA
51849471 TATACACCAAATTGGACAGCATATATATA
1 TATACACCAAATTGGACAGCATATATATA
51849500 TA
1 TA
51849502 CTCAATCAAT
Statistics
Matches: 67, Mismatches: 4, Indels: 12
0.81 0.05 0.14
Matches are distributed among these distances:
23 45 0.67
29 22 0.33
ACGTcount: A:0.43, C:0.18, G:0.11, T:0.27
Consensus pattern (29 bp):
TATACACCAAATTGGACAGCATATATATA
Found at i:51851831 original size:23 final size:23
Alignment explanation
Indices: 51851796--51851840 Score: 56
Period size: 23 Copynumber: 2.0 Consensus size: 23
51851786 TGGAGTATAA
* *
51851796 AAGTTTTATATTTTTATATGTAC
1 AAGTTTTATATTTATACATGTAC
51851819 AAGTTTTGA-ATTTATACATGTA
1 AAGTTTT-ATATTTATACATGTA
51851841 TATACAAGTA
Statistics
Matches: 19, Mismatches: 2, Indels: 2
0.83 0.09 0.09
Matches are distributed among these distances:
23 18 0.95
24 1 0.05
ACGTcount: A:0.33, C:0.04, G:0.11, T:0.51
Consensus pattern (23 bp):
AAGTTTTATATTTATACATGTAC
Found at i:51852483 original size:42 final size:42
Alignment explanation
Indices: 51852422--51852648 Score: 248
Period size: 42 Copynumber: 5.5 Consensus size: 42
51852412 CAGTGCCTAT
* *
51852422 CAGGTTTATTGCCAGTGAAACAATATCAGACTTTACGTCTAG
1 CAGGCTTAATGCCAGTGAAACAATATCAGACTTTACGTCTAG
* * *
51852464 CAGGCTTAATGCCGGTGAAATAATTTCAGACTTTACGTCTAG
1 CAGGCTTAATGCCAGTGAAACAATATCAGACTTTACGTCTAG
* *
51852506 CAGGCTTAATGCCGGTGAAACAATATCAGACTTTACGTCCAG
1 CAGGCTTAATGCCAGTGAAACAATATCAGACTTTACGTCTAG
* * **
51852548 CAGGCTTAATGCCAGTGAAAC-ATTTCAGACTATATATCTAG
1 CAGGCTTAATGCCAGTGAAACAATATCAGACTTTACGTCTAG
* * * * *
51852589 CAGGC-TAAGTGCCGGTG-TACTGA-ATCAGGCTTTAAGTCTAG
1 CAGGCTTAA-TGCCAGTGAAAC-AATATCAGACTTTACGTCTAG
51852630 CAGGC-TAAGTGCCAGTGAA
1 CAGGCTTAA-TGCCAGTGAA
51852649 TCTGTTTAAA
Statistics
Matches: 158, Mismatches: 23, Indels: 8
0.84 0.12 0.04
Matches are distributed among these distances:
40 5 0.03
41 56 0.35
42 97 0.61
ACGTcount: A:0.30, C:0.20, G:0.22, T:0.27
Consensus pattern (42 bp):
CAGGCTTAATGCCAGTGAAACAATATCAGACTTTACGTCTAG
Found at i:51854872 original size:13 final size:13
Alignment explanation
Indices: 51854854--51854878 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
51854844 CTCAAACAAT
51854854 AAATTTTCACACG
1 AAATTTTCACACG
51854867 AAATTTTCACAC
1 AAATTTTCACAC
51854879 ATATTGATTC
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:0.40, C:0.24, G:0.04, T:0.32
Consensus pattern (13 bp):
AAATTTTCACACG
Found at i:51865693 original size:153 final size:155
Alignment explanation
Indices: 51865507--51866013 Score: 652
Period size: 144 Copynumber: 3.4 Consensus size: 155
51865497 TTTCAAAAAA
* *
51865507 ATCAACTCATAATCCAAGAGGTGAGTTGAGCCTCGGGTCACACGCCGAGGTATTTTTTCAATTTC
1 ATCAACTCATAATCCGAGAGGTGAGTTGAGCCTCGGGTCGCACGCCGAGGTATTTTTTCAATTTC
* *
51865572 TTTTTTTTTCAAAGATCAACTCATAATTCGAGAGGTGAGTTGAGCCTCGGGTCACATGCCGAGGT
66 TTTGTTTTTCAAAGATCAACTCATAATTCGAGAGGTGAGTTGAGCCTCGGGTCACACGCCGAGGT
51865637 ATTTTTTCAA-TT-T-TTTTTCAAAG
131 A-TTTTTCAATTTCTATTTTTCAAAG
* * * * *
51865660 ATCAACTCATAATCTGATAGGTGAGTTGAGCCTCGAGTCGCACGCTGAAGTATTTTTTCAA-TT-
1 ATCAACTCATAATCCGAGAGGTGAGTTGAGCCTCGGGTCGCACGCCGAGGTATTTTTTCAATTTC
*
51865723 TTTGTTTTTCAAAGATCAACTCATAA-TCTGAGAGGTGAGTTGAGCCTCGGGTTACACGCCGAGG
66 TTTGTTTTTCAAAGATCAACTCATAATTC-GAGAGGTGAGTTGAGCCTCGGGTCACACGCCGAGG
* *
51865787 TGTTTTTCAATTTCTATTTTTTAAAG
130 TATTTTTCAATTTCTATTTTTCAAAG
* * * *
51865813 ATCAACTTATAATCCGAGAGGTGAGTTGAGTCTTGGGT-------TGA-GTATTTTTT-AATTTC
1 ATCAACTCATAATCCGAGAGGTGAGTTGAGCCTCGGGTCGCACGCCGAGGTATTTTTTCAATTTC
* * * *
51865869 --TGTTTTTCAAAGGTCAACTCATAATCCGAGAGGTGAGTTGAGCCTCGGGTCGCACGCCGAAGT
66 TTTGTTTTTCAAAGATCAACTCATAATTCGAGAGGTGAGTTGAGCCTCGGGTCACACGCCGAGGT
*
51865932 ATTTTTCAATTTCTGTTTTTCAAAG
131 ATTTTTCAATTTCTATTTTTCAAAG
* * * *
51865957 ATCAACTCATAATCCGATAAGTGAGTTGAGCCTCGGGTCGTACGCCAAGGTATTTTT
1 ATCAACTCATAATCCGAGAGGTGAGTTGAGCCTCGGGTCGCACGCCGAGGTATTTTT
51866014 AAATTTCAGT
Statistics
Matches: 306, Mismatches: 33, Indels: 31
0.83 0.09 0.08
Matches are distributed among these distances:
144 113 0.37
145 12 0.04
146 3 0.01
150 10 0.03
151 62 0.20
152 11 0.04
153 95 0.31
ACGTcount: A:0.25, C:0.18, G:0.21, T:0.36
Consensus pattern (155 bp):
ATCAACTCATAATCCGAGAGGTGAGTTGAGCCTCGGGTCGCACGCCGAGGTATTTTTTCAATTTC
TTTGTTTTTCAAAGATCAACTCATAATTCGAGAGGTGAGTTGAGCCTCGGGTCACACGCCGAGGT
ATTTTTCAATTTCTATTTTTCAAAG
Found at i:51865832 original size:76 final size:77
Alignment explanation
Indices: 51865507--51866013 Score: 646
Period size: 76 Copynumber: 6.7 Consensus size: 77
51865497 TTTCAAAAAA
*
51865507 ATCAACTCATAATCCAAGAGGTGAGTTGAGCCTCGGGTCACACGCCGAGGTATTTTTTCAATTTC
1 ATCAACTCATAATCCGAGAGGTGAGTTGAGCCTCGGGTCACACGCCGAGGTATTTTTTCAATTTC
*
51865572 TTTTTTTTTCAAAG
66 --TGTTTTTCAAAG
* *
51865586 ATCAACTCATAATTCGAGAGGTGAGTTGAGCCTCGGGTCACATGCCGAGGTATTTTTTCAA-TT-
1 ATCAACTCATAATCCGAGAGGTGAGTTGAGCCTCGGGTCACACGCCGAGGTATTTTTTCAATTTC
51865649 T-TTTTTCAAAG
66 TGTTTTTCAAAG
* * * * * * *
51865660 ATCAACTCATAATCTGATAGGTGAGTTGAGCCTCGAGTCGCACGCTGAAGTATTTTTTCAATTTT
1 ATCAACTCATAATCCGAGAGGTGAGTTGAGCCTCGGGTCACACGCCGAGGTATTTTTTCAATTTC
51865725 TGTTTTTCAAAG
66 TGTTTTTCAAAG
* * *
51865737 ATCAACTCATAATCTGAGAGGTGAGTTGAGCCTCGGGTTACACGCCGAGGT-GTTTTTCAATTTC
1 ATCAACTCATAATCCGAGAGGTGAGTTGAGCCTCGGGTCACACGCCGAGGTATTTTTTCAATTTC
* *
51865801 TATTTTTTAAAG
66 TGTTTTTCAAAG
* * * *
51865813 ATCAACTTATAATCCGAGAGGTGAGTTGAGTCTTGGGT-------TGA-GTATTTTTT-AATTTC
1 ATCAACTCATAATCCGAGAGGTGAGTTGAGCCTCGGGTCACACGCCGAGGTATTTTTTCAATTTC
51865869 TGTTTTTCAAAG
66 TGTTTTTCAAAG
* * *
51865881 GTCAACTCATAATCCGAGAGGTGAGTTGAGCCTCGGGTCGCACGCCGAAGTA-TTTTTCAATTTC
1 ATCAACTCATAATCCGAGAGGTGAGTTGAGCCTCGGGTCACACGCCGAGGTATTTTTTCAATTTC
51865945 TGTTTTTCAAAG
66 TGTTTTTCAAAG
* * ** *
51865957 ATCAACTCATAATCCGATAAGTGAGTTGAGCCTCGGGTCGTACGCCAAGGTATTTTT
1 ATCAACTCATAATCCGAGAGGTGAGTTGAGCCTCGGGTCACACGCCGAGGTATTTTT
51866014 AAATTTCAGT
Statistics
Matches: 374, Mismatches: 40, Indels: 30
0.84 0.09 0.07
Matches are distributed among these distances:
68 52 0.14
69 7 0.02
74 63 0.17
75 10 0.03
76 123 0.33
77 59 0.16
78 2 0.01
79 58 0.16
ACGTcount: A:0.25, C:0.18, G:0.21, T:0.36
Consensus pattern (77 bp):
ATCAACTCATAATCCGAGAGGTGAGTTGAGCCTCGGGTCACACGCCGAGGTATTTTTTCAATTTC
TGTTTTTCAAAG
Found at i:51866585 original size:29 final size:29
Alignment explanation
Indices: 51866547--51866649 Score: 127
Period size: 30 Copynumber: 3.5 Consensus size: 29
51866537 AAAATTTACT
*
51866547 AATTATATTTTGGCTCTAACTTTTTCTAA
1 AATTACATTTTGGCTCTAACTTTTTCTAA
* *
51866576 AATTACATTTTGTCTCCTAACTTTTCCTAA
1 AATTACATTTTGGCT-CTAACTTTTTCTAA
* *
51866606 AATTATATTTTGACCTCTAAC-TTTTCTTAA
1 AATTACATTTTG-GCTCTAACTTTTTC-TAA
51866636 AATTACATTTTGGC
1 AATTACATTTTGGC
51866650 CCCGTGAGTT
Statistics
Matches: 63, Mismatches: 8, Indels: 6
0.82 0.10 0.08
Matches are distributed among these distances:
29 18 0.29
30 43 0.68
31 2 0.03
ACGTcount: A:0.28, C:0.17, G:0.06, T:0.49
Consensus pattern (29 bp):
AATTACATTTTGGCTCTAACTTTTTCTAA
Found at i:51867259 original size:18 final size:19
Alignment explanation
Indices: 51867237--51867290 Score: 65
Period size: 22 Copynumber: 2.7 Consensus size: 19
51867227 AAATAAAAAA
51867237 AAAAGAAAAAAAAATAAGG
1 AAAAGAAAAAAAAATAAGG
51867256 AAAGAAGAAAAAAAAAATAAGG
1 -AA-AAG-AAAAAAAAATAAGG
*
51867278 -AATGAAAAAAAAA
1 AAAAGAAAAAAAAA
51867291 GGGGGAAACG
Statistics
Matches: 31, Mismatches: 1, Indels: 6
0.82 0.03 0.16
Matches are distributed among these distances:
18 9 0.29
19 2 0.06
20 3 0.10
21 3 0.10
22 14 0.45
ACGTcount: A:0.80, C:0.00, G:0.15, T:0.06
Consensus pattern (19 bp):
AAAAGAAAAAAAAATAAGG
Found at i:51867267 original size:22 final size:22
Alignment explanation
Indices: 51867223--51867290 Score: 86
Period size: 21 Copynumber: 3.2 Consensus size: 22
51867213 CGGAGTTTTG
** *
51867223 AAAAAAATAAAAAAAAAAG-AA
1 AAAAAAATAAGGAAAGAAGAAA
51867244 AAAAAAATAAGGAAAGAAGAAA
1 AAAAAAATAAGGAAAGAAGAAA
*
51867266 AAAAAAATAAGGAATGAA-AAA
1 AAAAAAATAAGGAAAGAAGAAA
51867287 AAAA
1 AAAA
51867291 GGGGGAAACG
Statistics
Matches: 42, Mismatches: 4, Indels: 2
0.88 0.08 0.04
Matches are distributed among these distances:
21 23 0.55
22 19 0.45
ACGTcount: A:0.82, C:0.00, G:0.12, T:0.06
Consensus pattern (22 bp):
AAAAAAATAAGGAAAGAAGAAA
Found at i:51867607 original size:78 final size:79
Alignment explanation
Indices: 51867495--51867639 Score: 186
Period size: 78 Copynumber: 1.8 Consensus size: 79
51867485 CTGCAGCGGG
* * * *
51867495 TCAGCACCAGCAGCAAGCCGGTCCAACAATGGCCCAAAT-CCACCAGC-GGCCCAGCAGTAGCAG
1 TCAGCACCAGCAGCAAGCCGATCCAACAACGGCCCAAATCCCA-CAGCAGGCCCAACAGCAGCAG
51867558 ACCAGCGCCTGTAGA
65 ACCAGCGCCTGTAGA
* * * * *
51867573 TCAGCACTAGTAGCAGGCCGATCCAACAGCGGCCCAAATCCCACAGCAGGCCTAACAGCAGCAGA
1 TCAGCACCAGCAGCAAGCCGATCCAACAACGGCCCAAATCCCACAGCAGGCCCAACAGCAGCAGA
51867638 CC
66 CC
51867640 TAGTAGAAGA
Statistics
Matches: 56, Mismatches: 9, Indels: 3
0.82 0.13 0.04
Matches are distributed among these distances:
78 37 0.66
79 19 0.34
ACGTcount: A:0.30, C:0.37, G:0.23, T:0.09
Consensus pattern (79 bp):
TCAGCACCAGCAGCAAGCCGATCCAACAACGGCCCAAATCCCACAGCAGGCCCAACAGCAGCAGA
CCAGCGCCTGTAGA
Found at i:51871636 original size:10 final size:9
Alignment explanation
Indices: 51871606--51871827 Score: 87
Period size: 10 Copynumber: 22.7 Consensus size: 9
51871596 TATTAAATTT
51871606 TTTTTATAA
1 TTTTTATAA
*
51871615 TATTTATAAA
1 TTTTTAT-AA
51871625 TTTTTATGAA
1 TTTTTAT-AA
51871635 TTTTTTTTATAA
1 ---TTTTTATAA
51871647 -TTTTATAA
1 TTTTTATAA
* *
51871655 GTTTATAGAAA
1 -TTTTTA-TAA
*
51871666 GTTTTA-AA
1 TTTTTATAA
51871674 TATTTTAATACA
1 T-TTTT-ATA-A
* *
51871686 CTTTTAT-T
1 TTTTTATAA
*
51871694 TTTTTAGAA
1 TTTTTATAA
51871703 TTTATTATAA
1 TTT-TTATAA
51871713 TTTTTATAAA
1 TTTTTAT-AA
*
51871723 CTTTTATTAA
1 TTTTTA-TAA
51871733 TTTTTTAATAA
1 -TTTTT-ATAA
51871744 TATTTTATAAA
1 T-TTTTAT-AA
51871755 TTTTTA-AA
1 TTTTTATAA
*
51871763 TATTTAT-A
1 TTTTTATAA
*
51871771 TTTTTAATGA
1 TTTTT-ATAA
51871781 TTTTTATGAAATTA
1 TTTTTAT---A--A
51871795 TTTTTATAA
1 TTTTTATAA
*
51871804 TTTTTA-AT
1 TTTTTATAA
51871812 TTTTTAATAA
1 TTTTT-ATAA
51871822 TTTTTA
1 TTTTTA
51871828 AATAAAAAAT
Statistics
Matches: 163, Mismatches: 21, Indels: 58
0.67 0.09 0.24
Matches are distributed among these distances:
8 33 0.20
9 30 0.18
10 58 0.36
11 23 0.14
12 4 0.02
13 7 0.04
14 8 0.05
ACGTcount: A:0.35, C:0.01, G:0.03, T:0.60
Consensus pattern (9 bp):
TTTTTATAA
Found at i:51871728 original size:22 final size:21
Alignment explanation
Indices: 51871703--51871772 Score: 74
Period size: 22 Copynumber: 3.3 Consensus size: 21
51871693 TTTTTTAGAA
51871703 TTTATTATAATTTTTATAA-ACT
1 TTTATTA-AATTTTTATAATA-T
*
51871725 TTTATTAATTTTTTAATAATAT
1 TTTATTAAATTTTT-ATAATAT
51871747 TTTA-TAAATTTTTA-AATAT
1 TTTATTAAATTTTTATAATAT
51871766 TTATATT
1 TT-TATT
51871773 TTTAATGATT
Statistics
Matches: 42, Mismatches: 2, Indels: 9
0.79 0.04 0.17
Matches are distributed among these distances:
19 7 0.17
20 3 0.07
21 15 0.36
22 16 0.38
23 1 0.02
ACGTcount: A:0.37, C:0.01, G:0.00, T:0.61
Consensus pattern (21 bp):
TTTATTAAATTTTTATAATAT
Found at i:51871752 original size:41 final size:38
Alignment explanation
Indices: 51871691--51871827 Score: 113
Period size: 41 Copynumber: 3.5 Consensus size: 38
51871681 ATACACTTTT
* *
51871691 ATTTTTTTAGAATTTATTATAATTTTTATAAACTTTTATTA
1 ATTTTTTAATAATTT-TTATAATTTTT-TAAA-TTTTATTA
*
51871732 ATTTTTTAATAATATTTTATAAATTTTTAAATATTTA-T-
1 ATTTTTTAATAAT-TTTTATAATTTTTTAAAT-TTTATTA
*
51871770 A-TTTTTAATGATTTTTATGAAATTATTTTTATAA-TTT-TTA
1 ATTTTTTAATAATTTTTAT--AA-T-TTTTTA-AATTTTATTA
51871810 ATTTTTTAATAATTTTTA
1 ATTTTTTAATAATTTTTA
51871828 AATAAAAAAT
Statistics
Matches: 80, Mismatches: 6, Indels: 20
0.75 0.06 0.19
Matches are distributed among these distances:
36 6 0.08
37 10 0.12
38 3 0.04
39 6 0.08
40 15 0.19
41 38 0.47
42 2 0.03
ACGTcount: A:0.35, C:0.01, G:0.02, T:0.62
Consensus pattern (38 bp):
ATTTTTTAATAATTTTTATAATTTTTTAAATTTTATTA
Found at i:51871786 original size:18 final size:18
Alignment explanation
Indices: 51871606--51871828 Score: 74
Period size: 19 Copynumber: 11.9 Consensus size: 18
51871596 TATTAAATTT
51871606 TTTTTATAATATTTATAA-A
1 TTTTTATAAT-TTT-TAATA
*
51871625 TTTTTATGAATTTTTTTTATA
1 TTTTTAT-AA--TTTTTAATA
* * *
51871646 ATTTTATAAGTTTATAGAAA
1 TTTTTATAA-TTTTTA-ATA
*
51871666 GTTTTA-AATATTTTAATACA
1 TTTTTATAAT-TTTTAAT--A
* *
51871686 CTTTTAT-TTTTTTAGA-A
1 TTTTTATAATTTTTA-ATA
*
51871703 TTTATTATAATTTTTATAAA
1 TTT-TTATAATTTTTA-ATA
*
51871723 CTTTTATTAATTTTTTAATAA
1 TTTTTA-TAA-TTTTTAAT-A
51871744 TATTTTATAAATTTTTAA-A
1 T-TTTTAT-AATTTTTAATA
*
51871763 TATTTAT-ATTTTTAATGA
1 TTTTTATAATTTTTAAT-A
*
51871781 TTTTTATGAA-----ATTA
1 TTTTTAT-AATTTTTAATA
51871795 TTTTTATAATTTTTAAT-
1 TTTTTATAATTTTTAATA
51871812 TTTTTAATAATTTTTAA
1 TTTTT-ATAATTTTTAA
51871829 ATAAAAAATA
Statistics
Matches: 155, Mismatches: 21, Indels: 57
0.67 0.09 0.24
Matches are distributed among these distances:
13 2 0.01
14 8 0.05
15 2 0.01
16 8 0.05
17 8 0.05
18 31 0.20
19 34 0.22
20 29 0.19
21 25 0.16
22 8 0.05
ACGTcount: A:0.35, C:0.01, G:0.03, T:0.60
Consensus pattern (18 bp):
TTTTTATAATTTTTAATA
Found at i:51871824 original size:11 final size:11
Alignment explanation
Indices: 51871724--51871832 Score: 50
Period size: 11 Copynumber: 9.8 Consensus size: 11
51871714 TTTTATAAAC
*
51871724 TTTTATTAATT
1 TTTTAATAATT
*
51871735 TTTTAATAATA
1 TTTTAATAATT
51871746 TTTT-ATAAATT
1 TTTTAAT-AATT
*
51871757 TTTAAATATTTATAT
1 TTTTAATA---AT-T
*
51871772 TTTTAATGATT
1 TTTTAATAATT
*
51871783 TTTATGA-AATT
1 TTT-TAATAATT
*
51871794 ATTTTTATAA--
1 -TTTTAATAATT
51871804 TTTT--TAATT
1 TTTTAATAATT
51871813 TTTTAATAATT
1 TTTTAATAATT
*
51871824 TTTAAATAA
1 TTTTAATAA
51871833 AAAATATAAT
Statistics
Matches: 75, Mismatches: 10, Indels: 26
0.68 0.09 0.23
Matches are distributed among these distances:
7 3 0.04
9 8 0.11
10 2 0.03
11 42 0.56
12 11 0.15
14 2 0.03
15 7 0.09
ACGTcount: A:0.37, C:0.00, G:0.02, T:0.61
Consensus pattern (11 bp):
TTTTAATAATT
Found at i:51880992 original size:14 final size:14
Alignment explanation
Indices: 51880973--51881000 Score: 56
Period size: 14 Copynumber: 2.0 Consensus size: 14
51880963 TAAATTTAAC
51880973 TTAATTTTATTTTT
1 TTAATTTTATTTTT
51880987 TTAATTTTATTTTT
1 TTAATTTTATTTTT
51881001 ATTTTTTACT
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 14 1.00
ACGTcount: A:0.21, C:0.00, G:0.00, T:0.79
Consensus pattern (14 bp):
TTAATTTTATTTTT
Found at i:51883360 original size:35 final size:34
Alignment explanation
Indices: 51883294--51883362 Score: 84
Period size: 35 Copynumber: 2.0 Consensus size: 34
51883284 CATGAACACC
** *
51883294 AAACCCTAAACTCGAATCTTGAATTCAAAACCTT
1 AAACCCTAAACTCGAATCGAGAATCCAAAACCTT
* *
51883328 AAACCTTAAACATCGAATCGAGAATCCTAAACCTT
1 AAACCCTAAAC-TCGAATCGAGAATCCAAAACCTT
51883363 GAATAAGTTT
Statistics
Matches: 29, Mismatches: 5, Indels: 1
0.83 0.14 0.03
Matches are distributed among these distances:
34 10 0.34
35 19 0.66
ACGTcount: A:0.42, C:0.26, G:0.07, T:0.25
Consensus pattern (34 bp):
AAACCCTAAACTCGAATCGAGAATCCAAAACCTT
Found at i:51883597 original size:7 final size:7
Alignment explanation
Indices: 51883585--51883610 Score: 52
Period size: 7 Copynumber: 3.7 Consensus size: 7
51883575 GTTATACACA
51883585 TATAAGG
1 TATAAGG
51883592 TATAAGG
1 TATAAGG
51883599 TATAAGG
1 TATAAGG
51883606 TATAA
1 TATAA
51883611 TATTATGAAA
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 19 1.00
ACGTcount: A:0.46, C:0.00, G:0.23, T:0.31
Consensus pattern (7 bp):
TATAAGG
Found at i:51884820 original size:20 final size:20
Alignment explanation
Indices: 51884797--51884855 Score: 61
Period size: 20 Copynumber: 3.0 Consensus size: 20
51884787 ATGTACATGC
*
51884797 GTATATATTTACAAA-AAAAA
1 GTATATATATA-AAATAAAAA
*
51884817 GTATATATATAAAATATAAA
1 GTATATATATAAAATAAAAA
51884837 GTATATA-A-AAAAGTAAAAA
1 GTATATATATAAAA-TAAAAA
51884856 ACAAAAATAA
Statistics
Matches: 34, Mismatches: 3, Indels: 5
0.81 0.07 0.12
Matches are distributed among these distances:
18 4 0.12
19 9 0.26
20 21 0.62
ACGTcount: A:0.63, C:0.02, G:0.07, T:0.29
Consensus pattern (20 bp):
GTATATATATAAAATAAAAA
Found at i:51884866 original size:13 final size:14
Alignment explanation
Indices: 51884844--51884874 Score: 55
Period size: 13 Copynumber: 2.3 Consensus size: 14
51884834 AAAGTATATA
51884844 AAAAAGTAAAAAAC
1 AAAAAGTAAAAAAC
51884858 AAAAA-TAAAAAAC
1 AAAAAGTAAAAAAC
51884871 AAAA
1 AAAA
51884875 CATATGTATA
Statistics
Matches: 17, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
13 12 0.71
14 5 0.29
ACGTcount: A:0.84, C:0.06, G:0.03, T:0.06
Consensus pattern (14 bp):
AAAAAGTAAAAAAC
Found at i:51885041 original size:18 final size:18
Alignment explanation
Indices: 51885015--51885050 Score: 54
Period size: 18 Copynumber: 2.0 Consensus size: 18
51885005 ATAATAATCA
51885015 ATAACAAAAATAAATAAT
1 ATAACAAAAATAAATAAT
* *
51885033 ATAATAAAAATAATTAAT
1 ATAACAAAAATAAATAAT
51885051 TTTAATAATA
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
18 16 1.00
ACGTcount: A:0.69, C:0.03, G:0.00, T:0.28
Consensus pattern (18 bp):
ATAACAAAAATAAATAAT
Found at i:51885641 original size:5 final size:5
Alignment explanation
Indices: 51885633--51885666 Score: 50
Period size: 5 Copynumber: 6.6 Consensus size: 5
51885623 TCGTTATTTT
*
51885633 AAATA AAATA AAATGA AAATA AAAGA AAATA AAA
1 AAATA AAATA AAAT-A AAATA AAATA AAATA AAA
51885667 GAATATGGAA
Statistics
Matches: 26, Mismatches: 2, Indels: 2
0.87 0.07 0.07
Matches are distributed among these distances:
5 21 0.81
6 5 0.19
ACGTcount: A:0.79, C:0.00, G:0.06, T:0.15
Consensus pattern (5 bp):
AAATA
Found at i:51885654 original size:16 final size:15
Alignment explanation
Indices: 51885633--51885666 Score: 50
Period size: 16 Copynumber: 2.2 Consensus size: 15
51885623 TCGTTATTTT
*
51885633 AAATAAAATAAAATGA
1 AAATAAAAGAAAAT-A
51885649 AAATAAAAGAAAATA
1 AAATAAAAGAAAATA
51885664 AAA
1 AAA
51885667 GAATATGGAA
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
15 4 0.24
16 13 0.76
ACGTcount: A:0.79, C:0.00, G:0.06, T:0.15
Consensus pattern (15 bp):
AAATAAAAGAAAATA
Found at i:51885660 original size:10 final size:10
Alignment explanation
Indices: 51885637--51885669 Score: 57
Period size: 10 Copynumber: 3.2 Consensus size: 10
51885627 TATTTTAAAT
51885637 AAAATAAAATG
1 AAAATAAAA-G
51885648 AAAATAAAAG
1 AAAATAAAAG
51885658 AAAATAAAAG
1 AAAATAAAAG
51885668 AA
1 AA
51885670 TATGGAAATA
Statistics
Matches: 22, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
10 13 0.59
11 9 0.41
ACGTcount: A:0.79, C:0.00, G:0.09, T:0.12
Consensus pattern (10 bp):
AAAATAAAAG
Found at i:51885678 original size:26 final size:26
Alignment explanation
Indices: 51885633--51885682 Score: 73
Period size: 26 Copynumber: 1.9 Consensus size: 26
51885623 TCGTTATTTT
*
51885633 AAATAAAATAAAATGAAAATAAAAGA
1 AAATAAAAGAAAATGAAAATAAAAGA
* *
51885659 AAATAAAAGAATATGGAAATAAAA
1 AAATAAAAGAAAATGAAAATAAAA
51885683 ACAATAGACA
Statistics
Matches: 21, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
26 21 1.00
ACGTcount: A:0.74, C:0.00, G:0.10, T:0.16
Consensus pattern (26 bp):
AAATAAAAGAAAATGAAAATAAAAGA
Found at i:51887131 original size:132 final size:132
Alignment explanation
Indices: 51886416--51887124 Score: 1055
Period size: 132 Copynumber: 5.4 Consensus size: 132
51886406 AAAATTTGCT
* * * *
51886416 ATCTTT-AGTCTGCTCCACCACTGCTTAGAGAGACAAGATTTGAAATCTTCAATCTATTCCACTG
1 ATCTTTGA-TCTGCTCCACTACTGCTTAGGGAGACAAGATCTGAAATCTTCAATCTATTCCGCTG
* *
51886480 ATGCCCAGGGAAGTAGAATTACTGGCTTCAATGTACTCCACTGTAACCTCAGGGAGGTAAAATCC
65 CTGCCCAGGGAAGTAGAATTACTGGCTTCAATGTACTCCACTGTAACCACAGGGAGGTAAAATCC
*
51886545 GTC
130 GCC
* *
51886548 ATCTTTGATCTGCTCCACTACTGCTTAGGGAGACAATATCTGAAAACTTCAATCTATTCCGCTGC
1 ATCTTTGATCTGCTCCACTACTGCTTAGGGAGACAAGATCTGAAATCTTCAATCTATTCCGCTGC
* * *
51886613 TGCCGATGGAAGTAGAATTACTGGCTTCAATGTACTCCACTGTAACCACAGGGAGGTAAAATCTG
66 TGCCCAGGGAAGTAGAATTACTGGCTTCAATGTACTCCACTGTAACCACAGGGAGGTAAAATCCG
51886678 CC
131 CC
*
51886680 ATCTTTGATCTGCTCCACTACTGCTTAGGGAGACAATATCTGAAATCTTCAATCTATTCCGCTGC
1 ATCTTTGATCTGCTCCACTACTGCTTAGGGAGACAAGATCTGAAATCTTCAATCTATTCCGCTGC
** * *
51886745 TGCAGAGGGAAATAGAATTACTGGCTTCAATGTACTCCACTGTAACCACTGGGAGGTAAAATCCG
66 TGCCCAGGGAAGTAGAATTACTGGCTTCAATGTACTCCACTGTAACCACAGGGAGGTAAAATCCG
51886810 CC
131 CC
* * * * * *
51886812 ATCTTTGATCTACTCCACTATTGTTTAGGGAGATAAGATCTGTAATCTTCAATCTATTCCGCTAC
1 ATCTTTGATCTGCTCCACTACTGCTTAGGGAGACAAGATCTGAAATCTTCAATCTATTCCGCTGC
* *
51886877 TGCCCAGGGAAATAGAATTACTGGCTTCAATGTACTCCACTGTAACCACAGGGAGGTAAAATTCG
66 TGCCCAGGGAAGTAGAATTACTGGCTTCAATGTACTCCACTGTAACCACAGGGAGGTAAAATCCG
51886942 CC
131 CC
* * *
51886944 ATCTTTGATCTGCTCCACTACTGCTTAGGGAGACAAGATCTAAAAT-TCTAAATCTATTCCACTG
1 ATCTTTGATCTGCTCCACTACTGCTTAGGGAGACAAGATCTGAAATCT-TCAATCTATTCCGCTG
* * *
51887008 CTGCCCAGGGAAGTAGAAATT-CTGGCTTCAATTTACTCCACTGCAACCTCAGGGAGGTAAAATC
65 CTGCCCAGGGAAGTAG-AATTACTGGCTTCAATGTACTCCACTGTAACCACAGGGAGGTAAAATC
51887072 CGCC
129 CGCC
* * * *
51887076 ATCTTCGATCTGCTCCACTACTGTTTAGGGAGATAAGATCTGTAATCTT
1 ATCTTTGATCTGCTCCACTACTGCTTAGGGAGACAAGATCTGAAATCTT
51887125 TGATCTACTT
Statistics
Matches: 525, Mismatches: 48, Indels: 8
0.90 0.08 0.01
Matches are distributed among these distances:
131 1 0.00
132 518 0.99
133 6 0.01
ACGTcount: A:0.28, C:0.24, G:0.19, T:0.29
Consensus pattern (132 bp):
ATCTTTGATCTGCTCCACTACTGCTTAGGGAGACAAGATCTGAAATCTTCAATCTATTCCGCTGC
TGCCCAGGGAAGTAGAATTACTGGCTTCAATGTACTCCACTGTAACCACAGGGAGGTAAAATCCG
CC
Found at i:51887218 original size:89 final size:89
Alignment explanation
Indices: 51887110--51887570 Score: 678
Period size: 89 Copynumber: 5.2 Consensus size: 89
51887100 TTAGGGAGAT
* *
51887110 AAGATCTG-TAATCTTTGATCTACTTCACGCCAGTACATGAAGATAAAATCTGTTTTCTTCGATT
1 AAGATCTGCT-ATCTTTGATCTACTTCACGCCAGTACATGAAGACAAGATCTGTTTTCTTCGATT
51887174 TGCTTCGCCACCAGTATGGGAAGGC
65 TGCTTCGCCACCAGTATGGGAAGGC
*
51887199 AAGATCTGCTATCTTTGATCTACTTCACGCTAGTACATGAAGACAAGATCTGCTTTTTCTT--AT
1 AAGATCTGCTATCTTTGATCTACTTCACGCCAGTACATGAAGACAAGATCTG--TTTTCTTCGAT
*
51887262 TTGCTTCGCCACGAGTATGGGAAGGC
64 TTGCTTCGCCACCAGTATGGGAAGGC
* * * *
51887288 AAGATCTGGTATCTTTAATCTACTTCACGCCAATACATGAAGACAAGATCTGTTTTCTTCGATCT
1 AAGATCTGCTATCTTTGATCTACTTCACGCCAGTACATGAAGACAAGATCTGTTTTCTTCGATTT
* * *
51887353 ACTTCGCCATCAGTATGGGAAGAC
66 GCTTCGCCACCAGTATGGGAAGGC
* *
51887377 AAGATCTGCTATCTTTGATCTACTTCACGCCAGTACATGAAGACAAGATCTACTTTT-TCCGATT
1 AAGATCTGCTATCTTTGATCTACTTCACGCCAGTACATGAAGACAAGATCT-GTTTTCTTCGATT
51887441 TGCTTCGCCACCAGTATGGGAAGGC
65 TGCTTCGCCACCAGTATGGGAAGGC
* * * *
51887466 AAGATCTGGTACCTTTGATCTACTTCACGCCAATACATGAAGACAAGATCTGTTTTCTTCGATCT
1 AAGATCTGCTATCTTTGATCTACTTCACGCCAGTACATGAAGACAAGATCTGTTTTCTTCGATTT
* * *
51887531 ACTTTGCCACCAGTATGGGAAGAC
66 GCTTCGCCACCAGTATGGGAAGGC
51887555 AAGATCTGCTATCTTT
1 AAGATCTGCTATCTTT
51887571 TTTGCCTGCT
Statistics
Matches: 332, Mismatches: 33, Indels: 14
0.88 0.09 0.04
Matches are distributed among these distances:
87 7 0.02
88 4 0.01
89 309 0.93
90 5 0.02
91 7 0.02
ACGTcount: A:0.27, C:0.23, G:0.18, T:0.32
Consensus pattern (89 bp):
AAGATCTGCTATCTTTGATCTACTTCACGCCAGTACATGAAGACAAGATCTGTTTTCTTCGATTT
GCTTCGCCACCAGTATGGGAAGGC
Found at i:51887414 original size:178 final size:178
Alignment explanation
Indices: 51887110--51887570 Score: 771
Period size: 178 Copynumber: 2.6 Consensus size: 178
51887100 TTAGGGAGAT
* * * *
51887110 AAGATCT-GTAATCTTTGATCTACTTCACGCCAGTACATGAAGATAAAATCTGTTTTCTTCGATT
1 AAGATCTGGT-ATCTTTGATCTACTTCACGCCAATACATGAAGACAAGATCTGTTTTCTTCGATC
* * *
51887174 TGCTTCGCCACCAGTATGGGAAGGCAAGATCTGCTATCTTTGATCTACTTCACGCTAGTACATGA
65 TACTTCGCCACCAGTATGGGAAGACAAGATCTGCTATCTTTGATCTACTTCACGCCAGTACATGA
* ** *
51887239 AGACAAGATCTGCTTTTTCTTATTTGCTTCGCCACGAGTATGGGAAGGC
130 AGACAAGATCTACTTTTTCCGATTTGCTTCGCCACCAGTATGGGAAGGC
*
51887288 AAGATCTGGTATCTTTAATCTACTTCACGCCAATACATGAAGACAAGATCTGTTTTCTTCGATCT
1 AAGATCTGGTATCTTTGATCTACTTCACGCCAATACATGAAGACAAGATCTGTTTTCTTCGATCT
*
51887353 ACTTCGCCATCAGTATGGGAAGACAAGATCTGCTATCTTTGATCTACTTCACGCCAGTACATGAA
66 ACTTCGCCACCAGTATGGGAAGACAAGATCTGCTATCTTTGATCTACTTCACGCCAGTACATGAA
51887418 GACAAGATCTACTTTTTCCGATTTGCTTCGCCACCAGTATGGGAAGGC
131 GACAAGATCTACTTTTTCCGATTTGCTTCGCCACCAGTATGGGAAGGC
*
51887466 AAGATCTGGTACCTTTGATCTACTTCACGCCAATACATGAAGACAAGATCTGTTTTCTTCGATCT
1 AAGATCTGGTATCTTTGATCTACTTCACGCCAATACATGAAGACAAGATCTGTTTTCTTCGATCT
*
51887531 ACTTTGCCACCAGTATGGGAAGACAAGATCTGCTATCTTT
66 ACTTCGCCACCAGTATGGGAAGACAAGATCTGCTATCTTT
51887571 TTTGCCTGCT
Statistics
Matches: 265, Mismatches: 17, Indels: 2
0.93 0.06 0.01
Matches are distributed among these distances:
178 263 0.99
179 2 0.01
ACGTcount: A:0.27, C:0.23, G:0.18, T:0.32
Consensus pattern (178 bp):
AAGATCTGGTATCTTTGATCTACTTCACGCCAATACATGAAGACAAGATCTGTTTTCTTCGATCT
ACTTCGCCACCAGTATGGGAAGACAAGATCTGCTATCTTTGATCTACTTCACGCCAGTACATGAA
GACAAGATCTACTTTTTCCGATTTGCTTCGCCACCAGTATGGGAAGGC
Found at i:51891741 original size:20 final size:20
Alignment explanation
Indices: 51891716--51891755 Score: 71
Period size: 20 Copynumber: 2.0 Consensus size: 20
51891706 TAAAGGTCTA
51891716 TAATGCATATAATGCGATGC
1 TAATGCATATAATGCGATGC
*
51891736 TAATGCATATGATGCGATGC
1 TAATGCATATAATGCGATGC
51891756 ATGAGATGAA
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
20 19 1.00
ACGTcount: A:0.33, C:0.15, G:0.23, T:0.30
Consensus pattern (20 bp):
TAATGCATATAATGCGATGC
Found at i:51895514 original size:20 final size:20
Alignment explanation
Indices: 51895491--51895551 Score: 70
Period size: 20 Copynumber: 3.0 Consensus size: 20
51895481 ATGTACATGC
*
51895491 GTATATATTTACAAA-AAAAA
1 GTATATATATA-AAATAAAAA
*
51895511 GTATATATATAAAATATAAA
1 GTATATATATAAAATAAAAA
*
51895531 GTATATATAAAAAAGTAAAAA
1 GTATATATATAAAA-TAAAAA
51895552 ACAAAAATAA
Statistics
Matches: 35, Mismatches: 4, Indels: 3
0.83 0.10 0.07
Matches are distributed among these distances:
19 3 0.09
20 27 0.77
21 5 0.14
ACGTcount: A:0.62, C:0.02, G:0.07, T:0.30
Consensus pattern (20 bp):
GTATATATATAAAATAAAAA
Found at i:51895562 original size:13 final size:14
Alignment explanation
Indices: 51895540--51895570 Score: 55
Period size: 13 Copynumber: 2.3 Consensus size: 14
51895530 AGTATATATA
51895540 AAAAAGTAAAAAAC
1 AAAAAGTAAAAAAC
51895554 AAAAA-TAAAAAAC
1 AAAAAGTAAAAAAC
51895567 AAAA
1 AAAA
51895571 CATATGTATA
Statistics
Matches: 17, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
13 12 0.71
14 5 0.29
ACGTcount: A:0.84, C:0.06, G:0.03, T:0.06
Consensus pattern (14 bp):
AAAAAGTAAAAAAC
Found at i:51895724 original size:3 final size:3
Alignment explanation
Indices: 51895703--51895771 Score: 52
Period size: 3 Copynumber: 22.3 Consensus size: 3
51895693 AGAAAATATG
* * *
51895703 ATA ATA ATCA ATA ACA ATA ATAA ATA AT- ATA ATA AAA ATA ATTA ATT
1 ATA ATA AT-A ATA ATA ATA AT-A ATA ATA ATA ATA ATA ATA A-TA ATA
*
51895750 TTA ATA ATA A-A ATA ATTA ATA A
1 ATA ATA ATA ATA ATA A-TA ATA A
51895772 CAAGGGACCC
Statistics
Matches: 52, Mismatches: 8, Indels: 12
0.72 0.11 0.17
Matches are distributed among these distances:
2 4 0.08
3 36 0.69
4 12 0.23
ACGTcount: A:0.64, C:0.03, G:0.00, T:0.33
Consensus pattern (3 bp):
ATA
Found at i:51895736 original size:21 final size:21
Alignment explanation
Indices: 51895703--51895771 Score: 77
Period size: 21 Copynumber: 3.2 Consensus size: 21
51895693 AGAAAATATG
*
51895703 ATAATAATCAATAACAATAATAA
1 ATAATAAT-AATAA-AATAATTA
51895726 ATAAT-ATAATAAAAATAATTA
1 ATAATAATAAT-AAAATAATTA
**
51895747 ATTTTAATAATAAAATAATTA
1 ATAATAATAATAAAATAATTA
51895768 ATAA
1 ATAA
51895772 CAAGGGACCC
Statistics
Matches: 39, Mismatches: 5, Indels: 6
0.78 0.10 0.12
Matches are distributed among these distances:
21 25 0.64
22 9 0.23
23 5 0.13
ACGTcount: A:0.64, C:0.03, G:0.00, T:0.33
Consensus pattern (21 bp):
ATAATAATAATAAAATAATTA
Found at i:51895743 original size:34 final size:34
Alignment explanation
Indices: 51895705--51895771 Score: 82
Period size: 34 Copynumber: 2.0 Consensus size: 34
51895695 AAAATATGAT
51895705 AATAATCAATAACAATAAT-AAATAATATAATAAA
1 AATAATCAATAACAATAATAAAATAAT-TAATAAA
* ***
51895739 AATAATTAATTTTAATAATAAAATAATTAATAA
1 AATAATCAATAACAATAATAAAATAATTAATAA
51895772 CAAGGGACCC
Statistics
Matches: 28, Mismatches: 4, Indels: 2
0.82 0.12 0.06
Matches are distributed among these distances:
34 21 0.75
35 7 0.25
ACGTcount: A:0.64, C:0.03, G:0.00, T:0.33
Consensus pattern (34 bp):
AATAATCAATAACAATAATAAAATAATTAATAAA
Found at i:51896339 original size:5 final size:5
Alignment explanation
Indices: 51896331--51896364 Score: 50
Period size: 5 Copynumber: 6.6 Consensus size: 5
51896321 TCGTTATTTT
*
51896331 AAATA AAATA AAATGA AAATA AAAGA AAATA AAA
1 AAATA AAATA AAAT-A AAATA AAATA AAATA AAA
51896365 AAATATGGAA
Statistics
Matches: 26, Mismatches: 2, Indels: 2
0.87 0.07 0.07
Matches are distributed among these distances:
5 21 0.81
6 5 0.19
ACGTcount: A:0.79, C:0.00, G:0.06, T:0.15
Consensus pattern (5 bp):
AAATA
Found at i:51896365 original size:16 final size:16
Alignment explanation
Indices: 51896331--51896365 Score: 52
Period size: 16 Copynumber: 2.2 Consensus size: 16
51896321 TCGTTATTTT
* *
51896331 AAATAAAATAAAATGA
1 AAATAAAAGAAAATAA
51896347 AAATAAAAGAAAATAA
1 AAATAAAAGAAAATAA
51896363 AAA
1 AAA
51896366 AATATGGAAA
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
16 17 1.00
ACGTcount: A:0.80, C:0.00, G:0.06, T:0.14
Consensus pattern (16 bp):
AAATAAAAGAAAATAA
Found at i:51896376 original size:26 final size:26
Alignment explanation
Indices: 51896331--51896380 Score: 75
Period size: 26 Copynumber: 1.9 Consensus size: 26
51896321 TCGTTATTTT
51896331 AAATAAAATAAAATGAAAATAAAAGA
1 AAATAAAATAAAATGAAAATAAAAGA
*
51896357 AAATAAAA-AAATATGGAAATAAAA
1 AAATAAAATAAA-ATGAAAATAAAA
51896381 ACAATAGACA
Statistics
Matches: 22, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
25 3 0.14
26 19 0.86
ACGTcount: A:0.76, C:0.00, G:0.08, T:0.16
Consensus pattern (26 bp):
AAATAAAATAAAATGAAAATAAAAGA
Found at i:51897151 original size:12 final size:12
Alignment explanation
Indices: 51897136--51897171 Score: 54
Period size: 12 Copynumber: 2.9 Consensus size: 12
51897126 ATTTTTTACT
51897136 TAATTTTTTTTA
1 TAATTTTTTTTA
51897148 TAATTTTTGTTTA
1 TAATTTTT-TTTA
*
51897161 TGATTTTTTTT
1 TAATTTTTTTT
51897172 GAACCTTTCA
Statistics
Matches: 22, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
12 11 0.50
13 11 0.50
ACGTcount: A:0.19, C:0.00, G:0.06, T:0.75
Consensus pattern (12 bp):
TAATTTTTTTTA
Found at i:51897347 original size:15 final size:15
Alignment explanation
Indices: 51897329--51897359 Score: 53
Period size: 15 Copynumber: 2.1 Consensus size: 15
51897319 CAAACTACCT
51897329 GCTAATAGACTAACA
1 GCTAATAGACTAACA
*
51897344 GCTAATAGGCTAACA
1 GCTAATAGACTAACA
51897359 G
1 G
51897360 AATTTAGGGC
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
15 15 1.00
ACGTcount: A:0.42, C:0.19, G:0.19, T:0.19
Consensus pattern (15 bp):
GCTAATAGACTAACA
Found at i:51902708 original size:16 final size:16
Alignment explanation
Indices: 51902687--51902722 Score: 63
Period size: 16 Copynumber: 2.2 Consensus size: 16
51902677 AAACAAATTA
*
51902687 ATATAAGCAAATATTT
1 ATATAAACAAATATTT
51902703 ATATAAACAAATATTT
1 ATATAAACAAATATTT
51902719 ATAT
1 ATAT
51902723 TTATGTAAAA
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
16 19 1.00
ACGTcount: A:0.53, C:0.06, G:0.03, T:0.39
Consensus pattern (16 bp):
ATATAAACAAATATTT
Found at i:51906131 original size:31 final size:31
Alignment explanation
Indices: 51906096--51906154 Score: 84
Period size: 31 Copynumber: 1.9 Consensus size: 31
51906086 AACAACTCAT
**
51906096 TGACTTAAAT-AAAAGCTTTTGAATAGTTTAG
1 TGACTTAAATGAAAA-CTTTCAAATAGTTTAG
51906127 TGACTTAAATGAAAACTTTCAAATAGTT
1 TGACTTAAATGAAAACTTTCAAATAGTT
51906155 AAATGATCAA
Statistics
Matches: 25, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
31 21 0.84
32 4 0.16
ACGTcount: A:0.41, C:0.08, G:0.14, T:0.37
Consensus pattern (31 bp):
TGACTTAAATGAAAACTTTCAAATAGTTTAG
Found at i:51906450 original size:30 final size:32
Alignment explanation
Indices: 51906414--51906485 Score: 80
Period size: 30 Copynumber: 2.3 Consensus size: 32
51906404 TTTAAGTCCT
*
51906414 TTAAAAGTTGGTAAAAAA-TATTTT-GGG-CCC
1 TTAAAAGTT-GAAAAAAATTATTTTGGGGCCCC
* *
51906444 TTAAAAGCT-AAAAAAATTTTTTTGGGGCCCC
1 TTAAAAGTTGAAAAAAATTATTTTGGGGCCCC
51906475 TTAAAAGTTGA
1 TTAAAAGTTGA
51906486 TAATTTTTTT
Statistics
Matches: 34, Mismatches: 4, Indels: 6
0.77 0.09 0.14
Matches are distributed among these distances:
28 6 0.18
29 5 0.15
30 11 0.32
31 11 0.32
32 1 0.03
ACGTcount: A:0.38, C:0.11, G:0.18, T:0.33
Consensus pattern (32 bp):
TTAAAAGTTGAAAAAAATTATTTTGGGGCCCC
Found at i:51908904 original size:20 final size:20
Alignment explanation
Indices: 51908879--51908928 Score: 70
Period size: 17 Copynumber: 2.6 Consensus size: 20
51908869 TGGCTTAAAA
51908879 TTGGTAGTGGATTGTTGTTG
1 TTGGTAGTGGATTGTTGTTG
51908899 TTGGTAGTGG---GTTGTTG
1 TTGGTAGTGGATTGTTGTTG
*
51908916 GTGGTAGTGGATT
1 TTGGTAGTGGATT
51908929 AGTGGATGGT
Statistics
Matches: 26, Mismatches: 1, Indels: 6
0.79 0.03 0.18
Matches are distributed among these distances:
17 16 0.62
20 10 0.38
ACGTcount: A:0.10, C:0.00, G:0.44, T:0.46
Consensus pattern (20 bp):
TTGGTAGTGGATTGTTGTTG
Found at i:51913543 original size:20 final size:20
Alignment explanation
Indices: 51913518--51913567 Score: 70
Period size: 17 Copynumber: 2.6 Consensus size: 20
51913508 TGGCTTAAAA
51913518 TTGGTAGTGGATTGTTGTTG
1 TTGGTAGTGGATTGTTGTTG
51913538 TTGGTAGTGG---GTTGTTG
1 TTGGTAGTGGATTGTTGTTG
*
51913555 GTGGTAGTGGATT
1 TTGGTAGTGGATT
51913568 AGTGGATGGT
Statistics
Matches: 26, Mismatches: 1, Indels: 6
0.79 0.03 0.18
Matches are distributed among these distances:
17 16 0.62
20 10 0.38
ACGTcount: A:0.10, C:0.00, G:0.44, T:0.46
Consensus pattern (20 bp):
TTGGTAGTGGATTGTTGTTG
Found at i:51915556 original size:16 final size:17
Alignment explanation
Indices: 51915515--51915556 Score: 50
Period size: 16 Copynumber: 2.5 Consensus size: 17
51915505 TAGTCTAATT
*
51915515 AAGAATAATTAGGAAAA
1 AAGAATAAATAGGAAAA
* *
51915532 AAGACTAAATA-GAATA
1 AAGAATAAATAGGAAAA
51915548 AAGAATAAA
1 AAGAATAAA
51915557 AGCTTAATTA
Statistics
Matches: 21, Mismatches: 4, Indels: 1
0.81 0.15 0.04
Matches are distributed among these distances:
16 12 0.57
17 9 0.43
ACGTcount: A:0.67, C:0.02, G:0.14, T:0.17
Consensus pattern (17 bp):
AAGAATAAATAGGAAAA
Found at i:51916898 original size:16 final size:16
Alignment explanation
Indices: 51916877--51916915 Score: 53
Period size: 16 Copynumber: 2.4 Consensus size: 16
51916867 TTATGTGTAT
51916877 GGTAAG-CAAATAATAA
1 GGTAAGTCAAAT-ATAA
*
51916893 GGTAAGTGAAATATAA
1 GGTAAGTCAAATATAA
51916909 GGTAAGT
1 GGTAAGT
51916916 ATTATTATTA
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
16 17 0.81
17 4 0.19
ACGTcount: A:0.49, C:0.03, G:0.26, T:0.23
Consensus pattern (16 bp):
GGTAAGTCAAATATAA
Found at i:51917306 original size:21 final size:21
Alignment explanation
Indices: 51917260--51917339 Score: 99
Period size: 21 Copynumber: 3.8 Consensus size: 21
51917250 TTTGCCAATT
51917260 AGGCACTTTATGTGTCGTACATC
1 AGGCACTTTATGTGTCGT--ATC
51917283 AGGCACTTTATGTGTCGTATC
1 AGGCACTTTATGTGTCGTATC
* ** *
51917304 AGGCACCTCGTGTGTCGTTTC
1 AGGCACTTTATGTGTCGTATC
51917325 AGGCAC-TTATGTGTC
1 AGGCACTTTATGTGTC
51917340 ATATACTGAT
Statistics
Matches: 51, Mismatches: 6, Indels: 3
0.85 0.10 0.05
Matches are distributed among these distances:
20 7 0.14
21 26 0.51
23 18 0.35
ACGTcount: A:0.17, C:0.23, G:0.25, T:0.35
Consensus pattern (21 bp):
AGGCACTTTATGTGTCGTATC
Found at i:51930728 original size:28 final size:28
Alignment explanation
Indices: 51930679--51930739 Score: 79
Period size: 28 Copynumber: 2.2 Consensus size: 28
51930669 ATGATGATGT
*
51930679 AAGCAATGATGGAAGCTACCA-TAACAC
1 AAGCAATGATGGAAGCGACCATTAACAC
* *
51930706 AAGCAAGTGATGGAAGCGGCCATTAATAC
1 AAGCAA-TGATGGAAGCGACCATTAACAC
51930735 AAGCA
1 AAGCA
51930740 TGCAACGTGG
Statistics
Matches: 29, Mismatches: 3, Indels: 2
0.85 0.09 0.06
Matches are distributed among these distances:
27 6 0.21
28 13 0.45
29 10 0.34
ACGTcount: A:0.43, C:0.20, G:0.23, T:0.15
Consensus pattern (28 bp):
AAGCAATGATGGAAGCGACCATTAACAC
Found at i:51934851 original size:29 final size:27
Alignment explanation
Indices: 51934818--51934878 Score: 77
Period size: 28 Copynumber: 2.2 Consensus size: 27
51934808 CCACGTTGCA
*
51934818 TGCTTGTATTAATGGCCGCTTCCATCACT
1 TGCTTGTATT-ATGGCAGCTTCCATCA-T
* *
51934847 TGCTTGTGTTATGGTAGCTTCCATCAT
1 TGCTTGTATTATGGCAGCTTCCATCAT
51934874 TGCTT
1 TGCTT
51934879 ACATCATCAT
Statistics
Matches: 29, Mismatches: 3, Indels: 2
0.85 0.09 0.06
Matches are distributed among these distances:
27 6 0.21
28 14 0.48
29 9 0.31
ACGTcount: A:0.15, C:0.23, G:0.20, T:0.43
Consensus pattern (27 bp):
TGCTTGTATTATGGCAGCTTCCATCAT
Found at i:51940681 original size:29 final size:27
Alignment explanation
Indices: 51940648--51940708 Score: 70
Period size: 28 Copynumber: 2.2 Consensus size: 27
51940638 CCACGTTGCA
*
51940648 TGCTTGTATTAATGGCTA-CTTCCATCACT
1 TGCTTGTACT-ATGG-TAGCTTCCATCA-T
*
51940677 TGCTTGTGCTATGGTAGCTTCCATCAT
1 TGCTTGTACTATGGTAGCTTCCATCAT
51940704 TGCTT
1 TGCTT
51940709 ACATCATCAT
Statistics
Matches: 29, Mismatches: 2, Indels: 4
0.83 0.06 0.11
Matches are distributed among these distances:
27 8 0.28
28 13 0.45
29 8 0.28
ACGTcount: A:0.16, C:0.23, G:0.18, T:0.43
Consensus pattern (27 bp):
TGCTTGTACTATGGTAGCTTCCATCAT
Found at i:51946949 original size:92 final size:92
Alignment explanation
Indices: 51946808--51946994 Score: 356
Period size: 92 Copynumber: 2.0 Consensus size: 92
51946798 ATAATAAGAT
*
51946808 ATTGTTCAAAAAAAATGTCTTGTTCTCATCTCTATATCGAGAAAATCTGAAAGAAAGACCACGAG
1 ATTGTTCAAAAAAAATGTCTTGTTCTCATCTCTATACCGAGAAAATCTGAAAGAAAGACCACGAG
*
51946873 CGAAAAATAGGTTAGAATATGTCTTAA
66 CGAAAAATAGGTTAGAATATGCCTTAA
51946900 ATTGTTCAAAAAAAATGTCTTGTTCTCATCTCTATACCGAGAAAATCTGAAAGAAAGACCACGAG
1 ATTGTTCAAAAAAAATGTCTTGTTCTCATCTCTATACCGAGAAAATCTGAAAGAAAGACCACGAG
51946965 CGAAAAATAGGTTAGAATATGCCTTAA
66 CGAAAAATAGGTTAGAATATGCCTTAA
51946992 ATT
1 ATT
51946995 CATTTAACTT
Statistics
Matches: 93, Mismatches: 2, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
92 93 1.00
ACGTcount: A:0.41, C:0.15, G:0.16, T:0.28
Consensus pattern (92 bp):
ATTGTTCAAAAAAAATGTCTTGTTCTCATCTCTATACCGAGAAAATCTGAAAGAAAGACCACGAG
CGAAAAATAGGTTAGAATATGCCTTAA
Found at i:51955146 original size:41 final size:41
Alignment explanation
Indices: 51955090--51955172 Score: 157
Period size: 41 Copynumber: 2.0 Consensus size: 41
51955080 AAAAAAGAAT
51955090 GAATCAAACAATCCCAGTTAGAAGAAGATAGGTATAACCCA
1 GAATCAAACAATCCCAGTTAGAAGAAGATAGGTATAACCCA
*
51955131 GAATCAAACAATCCCAGTTAGAAGATGATAGGTATAACCCA
1 GAATCAAACAATCCCAGTTAGAAGAAGATAGGTATAACCCA
51955172 G
1 G
51955173 CTAAGCTTCA
Statistics
Matches: 41, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
41 41 1.00
ACGTcount: A:0.45, C:0.19, G:0.18, T:0.18
Consensus pattern (41 bp):
GAATCAAACAATCCCAGTTAGAAGAAGATAGGTATAACCCA
Found at i:51970168 original size:21 final size:21
Alignment explanation
Indices: 51970144--51970183 Score: 55
Period size: 21 Copynumber: 1.9 Consensus size: 21
51970134 AGTTTGATAA
51970144 ATTGAAATTTT-AAAATTAATT
1 ATTG-AATTTTCAAAATTAATT
*
51970165 ATTGAATTTTCAATATTAA
1 ATTGAATTTTCAAAATTAA
51970184 ATTTGATGAG
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
20 6 0.35
21 11 0.65
ACGTcount: A:0.45, C:0.03, G:0.05, T:0.47
Consensus pattern (21 bp):
ATTGAATTTTCAAAATTAATT
Found at i:51971293 original size:24 final size:24
Alignment explanation
Indices: 51971259--51971304 Score: 65
Period size: 24 Copynumber: 1.9 Consensus size: 24
51971249 TATATGAAAT
* *
51971259 ATAAATTTTAAATATTTTTAAGTA
1 ATAAATATTAAATATTTATAAGTA
*
51971283 ATAAATATTAATTATTTATAAG
1 ATAAATATTAAATATTTATAAG
51971305 ATTTAATTAG
Statistics
Matches: 19, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
24 19 1.00
ACGTcount: A:0.48, C:0.00, G:0.04, T:0.48
Consensus pattern (24 bp):
ATAAATATTAAATATTTATAAGTA
Found at i:51975548 original size:19 final size:20
Alignment explanation
Indices: 51975494--51975551 Score: 57
Period size: 19 Copynumber: 3.0 Consensus size: 20
51975484 GCCCCAGGAT
*
51975494 GCACTTCATGTGCC-AGATA
1 GCACTTCATGTACCAAGATA
* *
51975513 TGCACTACATGCACCAAGATA
1 -GCACTTCATGTACCAAGATA
*
51975534 -CACTTCATGTTCCAAGAT
1 GCACTTCATGTACCAAGAT
51975552 GTACTATGTG
Statistics
Matches: 31, Mismatches: 6, Indels: 3
0.77 0.15 0.08
Matches are distributed among these distances:
19 15 0.48
20 11 0.35
21 5 0.16
ACGTcount: A:0.31, C:0.28, G:0.16, T:0.26
Consensus pattern (20 bp):
GCACTTCATGTACCAAGATA
Done.