Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Gbar_A07
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: 92880876
ACGTcount: A:0.32, C:0.17, G:0.17, T:0.32
Warning! 2857347 characters in sequence are not A, C, G, or T
File 53 of 290
Found at i:16791362 original size:26 final size:26
Alignment explanation
Indices: 16791327--16791376 Score: 91
Period size: 26 Copynumber: 1.9 Consensus size: 26
16791317 GTGTGTTTCA
16791327 CACGGACGTGTCGCACGGCCGTGTAG
1 CACGGACGTGTCGCACGGCCGTGTAG
*
16791353 CACGGCCGTGTCGCACGGCCGTGT
1 CACGGACGTGTCGCACGGCCGTGT
16791377 GGCTCGATAC
Statistics
Matches: 23, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
26 23 1.00
ACGTcount: A:0.12, C:0.34, G:0.38, T:0.16
Consensus pattern (26 bp):
CACGGACGTGTCGCACGGCCGTGTAG
Found at i:16795349 original size:30 final size:30
Alignment explanation
Indices: 16795313--16795369 Score: 96
Period size: 30 Copynumber: 1.9 Consensus size: 30
16795303 ACGGCCATGA
16795313 CACACGGGAGTGTGGTCTACCCGTGTGCTT
1 CACACGGGAGTGTGGTCTACCCGTGTGCTT
* *
16795343 CACACGGGCGTGTGGTTTACCCGTGTG
1 CACACGGGAGTGTGGTCTACCCGTGTG
16795370 AAACACTATT
Statistics
Matches: 25, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
30 25 1.00
ACGTcount: A:0.12, C:0.26, G:0.35, T:0.26
Consensus pattern (30 bp):
CACACGGGAGTGTGGTCTACCCGTGTGCTT
Found at i:16796652 original size:23 final size:23
Alignment explanation
Indices: 16796625--16796672 Score: 96
Period size: 23 Copynumber: 2.1 Consensus size: 23
16796615 TATACATAAC
16796625 TTCAAAAGTACCAAAATAGACGT
1 TTCAAAAGTACCAAAATAGACGT
16796648 TTCAAAAGTACCAAAATAGACGT
1 TTCAAAAGTACCAAAATAGACGT
16796671 TT
1 TT
16796673 GATAGTGCGA
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
23 25 1.00
ACGTcount: A:0.46, C:0.17, G:0.12, T:0.25
Consensus pattern (23 bp):
TTCAAAAGTACCAAAATAGACGT
Found at i:16796898 original size:49 final size:49
Alignment explanation
Indices: 16796829--16796926 Score: 196
Period size: 49 Copynumber: 2.0 Consensus size: 49
16796819 AATTTCACAT
16796829 CAACTACAAACCTTTCTCATGTTTTAAAACATGATTAAATGTCATCTCA
1 CAACTACAAACCTTTCTCATGTTTTAAAACATGATTAAATGTCATCTCA
16796878 CAACTACAAACCTTTCTCATGTTTTAAAACATGATTAAATGTCATCTCA
1 CAACTACAAACCTTTCTCATGTTTTAAAACATGATTAAATGTCATCTCA
16796927 TTAAACTTTC
Statistics
Matches: 49, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
49 49 1.00
ACGTcount: A:0.37, C:0.22, G:0.06, T:0.35
Consensus pattern (49 bp):
CAACTACAAACCTTTCTCATGTTTTAAAACATGATTAAATGTCATCTCA
Found at i:16799247 original size:309 final size:309
Alignment explanation
Indices: 16798688--16799306 Score: 1238
Period size: 309 Copynumber: 2.0 Consensus size: 309
16798678 AAGGACTATG
16798688 AGTTTTGATTTTTTATTTCACATATGAAAAGAACTAATGTTACTAAAATTTAGTAATTTTTATGT
1 AGTTTTGATTTTTTATTTCACATATGAAAAGAACTAATGTTACTAAAATTTAGTAATTTTTATGT
16798753 AAAATTTGAAGGTTTTTATTTCACCAAAATATTGCTATAAAAAATTAATTTATTAAGGAGTATAC
66 AAAATTTGAAGGTTTTTATTTCACCAAAATATTGCTATAAAAAATTAATTTATTAAGGAGTATAC
16798818 CTTATAATTAATTGTTGTTATCATATTATTATAAAGGATAAAATAAAATATAAAATATATTTTTT
131 CTTATAATTAATTGTTGTTATCATATTATTATAAAGGATAAAATAAAATATAAAATATATTTTTT
16798883 CTATTAAAATTGACTATTAAAATAAAATGTTATTAGAGGATTATCATATCGTATGTTAAACTCAT
196 CTATTAAAATTGACTATTAAAATAAAATGTTATTAGAGGATTATCATATCGTATGTTAAACTCAT
16798948 TTTCATATTGGTGATTGTGGCCTAAGAGAACAGGTGAGAGGCTAGATTA
261 TTTCATATTGGTGATTGTGGCCTAAGAGAACAGGTGAGAGGCTAGATTA
16798997 AGTTTTGATTTTTTATTTCACATATGAAAAGAACTAATGTTACTAAAATTTAGTAATTTTTATGT
1 AGTTTTGATTTTTTATTTCACATATGAAAAGAACTAATGTTACTAAAATTTAGTAATTTTTATGT
16799062 AAAATTTGAAGGTTTTTATTTCACCAAAATATTGCTATAAAAAATTAATTTATTAAGGAGTATAC
66 AAAATTTGAAGGTTTTTATTTCACCAAAATATTGCTATAAAAAATTAATTTATTAAGGAGTATAC
16799127 CTTATAATTAATTGTTGTTATCATATTATTATAAAGGATAAAATAAAATATAAAATATATTTTTT
131 CTTATAATTAATTGTTGTTATCATATTATTATAAAGGATAAAATAAAATATAAAATATATTTTTT
16799192 CTATTAAAATTGACTATTAAAATAAAATGTTATTAGAGGATTATCATATCGTATGTTAAACTCAT
196 CTATTAAAATTGACTATTAAAATAAAATGTTATTAGAGGATTATCATATCGTATGTTAAACTCAT
16799257 TTTCATATTGGTGATTGTGGCCTAAGAGAACAGGTGAGAGGCTAGATTA
261 TTTCATATTGGTGATTGTGGCCTAAGAGAACAGGTGAGAGGCTAGATTA
16799306 A
1 A
16799307 AGTAAATATA
Statistics
Matches: 310, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
309 310 1.00
ACGTcount: A:0.39, C:0.07, G:0.13, T:0.41
Consensus pattern (309 bp):
AGTTTTGATTTTTTATTTCACATATGAAAAGAACTAATGTTACTAAAATTTAGTAATTTTTATGT
AAAATTTGAAGGTTTTTATTTCACCAAAATATTGCTATAAAAAATTAATTTATTAAGGAGTATAC
CTTATAATTAATTGTTGTTATCATATTATTATAAAGGATAAAATAAAATATAAAATATATTTTTT
CTATTAAAATTGACTATTAAAATAAAATGTTATTAGAGGATTATCATATCGTATGTTAAACTCAT
TTTCATATTGGTGATTGTGGCCTAAGAGAACAGGTGAGAGGCTAGATTA
Found at i:16799442 original size:58 final size:58
Alignment explanation
Indices: 16799377--16799508 Score: 153
Period size: 58 Copynumber: 2.3 Consensus size: 58
16799367 AATATTATTT
* * * * *
16799377 ATAATTATATTAAGAATGTTATTAAA-TTATATATTA-TTTTATTAAATTATATTTAATA
1 ATAATTATATTAA-AATATGATTAAATTTAT-TATTATTTTTAGTAAAATATATTTAACA
* *
16799435 ATAATTATGTTAAAATATGATTAAATTTATTTTTATTTTTAGTAAAATATATTTAACA
1 ATAATTATATTAAAATATGATTAAATTTATTATTATTTTTAGTAAAATATATTTAACA
16799493 ATAATCT-TATTAAAAT
1 ATAAT-TATATTAAAAT
16799509 TTAATAATAA
Statistics
Matches: 63, Mismatches: 8, Indels: 6
0.82 0.10 0.08
Matches are distributed among these distances:
57 14 0.22
58 48 0.76
59 1 0.02
ACGTcount: A:0.45, C:0.02, G:0.04, T:0.50
Consensus pattern (58 bp):
ATAATTATATTAAAATATGATTAAATTTATTATTATTTTTAGTAAAATATATTTAACA
Found at i:16799653 original size:44 final size:46
Alignment explanation
Indices: 16799596--16799688 Score: 120
Period size: 44 Copynumber: 2.1 Consensus size: 46
16799586 TACAACATCT
*
16799596 ATTCCATTTAACCAAACACA-AGAATT-CT-ATTACAACTCTATTCC
1 ATTCCATTCAACCAAACA-ATAGAATTACTGATTACAACTCTATTCC
* * *
16799640 ATTCCATTCAACCAAACAATTGAATTATTGATTACAGCTCTATTCC
1 ATTCCATTCAACCAAACAATAGAATTACTGATTACAACTCTATTCC
16799686 ATT
1 ATT
16799689 ACAACTCTAT
Statistics
Matches: 42, Mismatches: 4, Indels: 4
0.84 0.08 0.08
Matches are distributed among these distances:
43 1 0.02
44 22 0.52
45 1 0.02
46 18 0.43
ACGTcount: A:0.37, C:0.25, G:0.04, T:0.34
Consensus pattern (46 bp):
ATTCCATTCAACCAAACAATAGAATTACTGATTACAACTCTATTCC
Found at i:16799691 original size:16 final size:16
Alignment explanation
Indices: 16799670--16799713 Score: 70
Period size: 16 Copynumber: 2.8 Consensus size: 16
16799660 TGAATTATTG
16799670 ATTACAGCTCTATTCC
1 ATTACAGCTCTATTCC
*
16799686 ATTACAACTCTATTCC
1 ATTACAGCTCTATTCC
*
16799702 ATTATAGCTCTA
1 ATTACAGCTCTA
16799714 GCCCTATTCC
Statistics
Matches: 25, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
16 25 1.00
ACGTcount: A:0.30, C:0.27, G:0.05, T:0.39
Consensus pattern (16 bp):
ATTACAGCTCTATTCC
Found at i:16803152 original size:21 final size:21
Alignment explanation
Indices: 16803126--16803171 Score: 83
Period size: 21 Copynumber: 2.2 Consensus size: 21
16803116 ATACAATAGA
*
16803126 AGAGATTCGCGAGGCACTGGC
1 AGAGATTCGCGAGGCACTAGC
16803147 AGAGATTCGCGAGGCACTAGC
1 AGAGATTCGCGAGGCACTAGC
16803168 AGAG
1 AGAG
16803172 TTGGGCCCAA
Statistics
Matches: 24, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
21 24 1.00
ACGTcount: A:0.28, C:0.22, G:0.37, T:0.13
Consensus pattern (21 bp):
AGAGATTCGCGAGGCACTAGC
Found at i:16807376 original size:17 final size:18
Alignment explanation
Indices: 16807356--16807393 Score: 51
Period size: 18 Copynumber: 2.2 Consensus size: 18
16807346 TTAAAAATAA
*
16807356 AAAATCA-AATCAAATTG
1 AAAATCATAAACAAATTG
*
16807373 AAAATCATAAACAATTTG
1 AAAATCATAAACAAATTG
16807391 AAA
1 AAA
16807394 TATTTTTTAA
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
17 7 0.39
18 11 0.61
ACGTcount: A:0.61, C:0.11, G:0.05, T:0.24
Consensus pattern (18 bp):
AAAATCATAAACAAATTG
Found at i:16807905 original size:18 final size:18
Alignment explanation
Indices: 16807861--16807898 Score: 67
Period size: 18 Copynumber: 2.1 Consensus size: 18
16807851 TTTTAATTCG
*
16807861 AATTAATTCGAATAACTC
1 AATTAATTTGAATAACTC
16807879 AATTAATTTGAATAACTC
1 AATTAATTTGAATAACTC
16807897 AA
1 AA
16807899 ATTATTTAAT
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
18 19 1.00
ACGTcount: A:0.47, C:0.13, G:0.05, T:0.34
Consensus pattern (18 bp):
AATTAATTTGAATAACTC
Found at i:16808983 original size:23 final size:24
Alignment explanation
Indices: 16808954--16809000 Score: 69
Period size: 25 Copynumber: 2.0 Consensus size: 24
16808944 AAAAAATTTC
*
16808954 TTATATTA-TAAATTCTAAAAAAA
1 TTATATTATTAAATCCTAAAAAAA
16808977 TTATATTATTTAAATCCTAAAAAA
1 TTATATTA-TTAAATCCTAAAAAA
16809001 TTTCTAAAAT
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
23 8 0.38
25 13 0.62
ACGTcount: A:0.53, C:0.06, G:0.00, T:0.40
Consensus pattern (24 bp):
TTATATTATTAAATCCTAAAAAAA
Found at i:16809262 original size:16 final size:16
Alignment explanation
Indices: 16809243--16809273 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
16809233 AAAACTTTTT
16809243 TTATAAATGTTATATA
1 TTATAAATGTTATATA
*
16809259 TTATAAATTTTATAT
1 TTATAAATGTTATAT
16809274 TGTTTTTGCT
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
16 14 1.00
ACGTcount: A:0.42, C:0.00, G:0.03, T:0.55
Consensus pattern (16 bp):
TTATAAATGTTATATA
Found at i:16818209 original size:21 final size:21
Alignment explanation
Indices: 16818183--16818224 Score: 68
Period size: 21 Copynumber: 2.0 Consensus size: 21
16818173 ATTTTCATTT
16818183 TTTTC-TATTTAAGTCTAAACA
1 TTTTCTTATTTAAGTC-AAACA
16818204 TTTTCTTATTTAAGTCAAACA
1 TTTTCTTATTTAAGTCAAACA
16818225 ACCACTTAAT
Statistics
Matches: 20, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
21 10 0.50
22 10 0.50
ACGTcount: A:0.33, C:0.14, G:0.05, T:0.48
Consensus pattern (21 bp):
TTTTCTTATTTAAGTCAAACA
Found at i:16818351 original size:50 final size:50
Alignment explanation
Indices: 16818292--16818398 Score: 205
Period size: 50 Copynumber: 2.1 Consensus size: 50
16818282 AAAAACTATA
*
16818292 AAATATGCAAAATATTTATTTAATAATAAATATTCCAATAAACTAAACTG
1 AAATTTGCAAAATATTTATTTAATAATAAATATTCCAATAAACTAAACTG
16818342 AAATTTGCAAAATATTTATTTAATAATAAATATTCCAATAAACTAAACTG
1 AAATTTGCAAAATATTTATTTAATAATAAATATTCCAATAAACTAAACTG
16818392 AAATTTG
1 AAATTTG
16818399 ATATTTTTAA
Statistics
Matches: 56, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
50 56 1.00
ACGTcount: A:0.50, C:0.09, G:0.05, T:0.36
Consensus pattern (50 bp):
AAATTTGCAAAATATTTATTTAATAATAAATATTCCAATAAACTAAACTG
Found at i:16818458 original size:61 final size:61
Alignment explanation
Indices: 16818387--16818507 Score: 242
Period size: 61 Copynumber: 2.0 Consensus size: 61
16818377 CAATAAACTA
16818387 AACTGAAATTTGATATTTTTAAAATAAAAAAAATTCAATAATCATTTTCATTTTCAATACT
1 AACTGAAATTTGATATTTTTAAAATAAAAAAAATTCAATAATCATTTTCATTTTCAATACT
16818448 AACTGAAATTTGATATTTTTAAAATAAAAAAAATTCAATAATCATTTTCATTTTCAATAC
1 AACTGAAATTTGATATTTTTAAAATAAAAAAAATTCAATAATCATTTTCATTTTCAATAC
16818508 ACTAATGCTG
Statistics
Matches: 60, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
61 60 1.00
ACGTcount: A:0.46, C:0.10, G:0.03, T:0.40
Consensus pattern (61 bp):
AACTGAAATTTGATATTTTTAAAATAAAAAAAATTCAATAATCATTTTCATTTTCAATACT
Found at i:16818652 original size:29 final size:29
Alignment explanation
Indices: 16818620--16818675 Score: 103
Period size: 29 Copynumber: 1.9 Consensus size: 29
16818610 TAGTTTAATG
*
16818620 TGTAATTTTATATATAAAGTTTGATTTTC
1 TGTAATTTTATATATAAAATTTGATTTTC
16818649 TGTAATTTTATATATAAAATTTGATTT
1 TGTAATTTTATATATAAAATTTGATTT
16818676 GATCTAATTT
Statistics
Matches: 26, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
29 26 1.00
ACGTcount: A:0.34, C:0.02, G:0.09, T:0.55
Consensus pattern (29 bp):
TGTAATTTTATATATAAAATTTGATTTTC
Found at i:16818683 original size:29 final size:29
Alignment explanation
Indices: 16818622--16818686 Score: 94
Period size: 29 Copynumber: 2.2 Consensus size: 29
16818612 GTTTAATGTG
* ** *
16818622 TAATTTTATATATAAAGTTTGATTTTCTG
1 TAATTTTATATATAAAATTTGATTTGATC
16818651 TAATTTTATATATAAAATTTGATTTGATC
1 TAATTTTATATATAAAATTTGATTTGATC
16818680 TAATTTT
1 TAATTTT
16818687 CATAAATTAT
Statistics
Matches: 32, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
29 32 1.00
ACGTcount: A:0.34, C:0.03, G:0.08, T:0.55
Consensus pattern (29 bp):
TAATTTTATATATAAAATTTGATTTGATC
Found at i:16818751 original size:23 final size:23
Alignment explanation
Indices: 16818707--16818758 Score: 63
Period size: 23 Copynumber: 2.3 Consensus size: 23
16818697 TAACACAATT
*
16818707 ATTA-ATATAACATAATTTTATA
1 ATTATATATAACATAATTGTATA
*
16818729 TTTATATATAACAT-ATATGTATA
1 ATTATATATAACATAAT-TGTATA
16818752 ATTATAT
1 ATTATAT
16818759 TTATTCAATA
Statistics
Matches: 25, Mismatches: 3, Indels: 3
0.81 0.10 0.10
Matches are distributed among these distances:
22 5 0.20
23 20 0.80
ACGTcount: A:0.46, C:0.04, G:0.02, T:0.48
Consensus pattern (23 bp):
ATTATATATAACATAATTGTATA
Found at i:16818856 original size:33 final size:32
Alignment explanation
Indices: 16818819--16818883 Score: 87
Period size: 32 Copynumber: 2.0 Consensus size: 32
16818809 ATTGAATCAA
16818819 AATTAAAATTAT-ATATATATATATTTAAATTAC
1 AATT-AAATTATCATATATATATA-TTAAATTAC
* *
16818852 AATTAAATTTTCATATTTATATATTAAATTAC
1 AATTAAATTATCATATATATATATTAAATTAC
16818884 CTATCGAATT
Statistics
Matches: 29, Mismatches: 2, Indels: 3
0.85 0.06 0.09
Matches are distributed among these distances:
32 15 0.52
33 14 0.48
ACGTcount: A:0.48, C:0.05, G:0.00, T:0.48
Consensus pattern (32 bp):
AATTAAATTATCATATATATATATTAAATTAC
Found at i:16825872 original size:26 final size:26
Alignment explanation
Indices: 16825841--16825904 Score: 76
Period size: 26 Copynumber: 2.5 Consensus size: 26
16825831 TGACGAATTG
16825841 GTGTTCTCCAGTTAAGTTATGAACTA
1 GTGTTCTCCAGTTAAGTTATGAACTA
* * *
16825867 GTGTTCGT-CAGTTATGTTGTGAACTG
1 GTGTTC-TCCAGTTAAGTTATGAACTA
*
16825893 GTGTTCACCAGT
1 GTGTTCTCCAGT
16825905 CAAAGTTAGA
Statistics
Matches: 32, Mismatches: 4, Indels: 4
0.80 0.10 0.10
Matches are distributed among these distances:
26 31 0.97
27 1 0.03
ACGTcount: A:0.20, C:0.16, G:0.25, T:0.39
Consensus pattern (26 bp):
GTGTTCTCCAGTTAAGTTATGAACTA
Found at i:16834287 original size:10 final size:10
Alignment explanation
Indices: 16834274--16834300 Score: 54
Period size: 10 Copynumber: 2.7 Consensus size: 10
16834264 CTGATTTTGG
16834274 TTCATTTTAT
1 TTCATTTTAT
16834284 TTCATTTTAT
1 TTCATTTTAT
16834294 TTCATTT
1 TTCATTT
16834301 AAATGCCAAA
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
10 17 1.00
ACGTcount: A:0.19, C:0.11, G:0.00, T:0.70
Consensus pattern (10 bp):
TTCATTTTAT
Found at i:16841868 original size:10 final size:10
Alignment explanation
Indices: 16841855--16841881 Score: 54
Period size: 10 Copynumber: 2.7 Consensus size: 10
16841845 CTGATTTTGG
16841855 TTCATTTTAT
1 TTCATTTTAT
16841865 TTCATTTTAT
1 TTCATTTTAT
16841875 TTCATTT
1 TTCATTT
16841882 AAATGCCAAA
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
10 17 1.00
ACGTcount: A:0.19, C:0.11, G:0.00, T:0.70
Consensus pattern (10 bp):
TTCATTTTAT
Found at i:16842493 original size:9 final size:9
Alignment explanation
Indices: 16842479--16842518 Score: 55
Period size: 9 Copynumber: 4.3 Consensus size: 9
16842469 TTGGTTTTTA
16842479 TTTATAATT
1 TTTATAATT
16842488 TTTAT-ATT
1 TTTATAATT
16842496 TTTAAATAATT
1 TTT--ATAATT
16842507 TTTATAATT
1 TTTATAATT
16842516 TTT
1 TTT
16842519 TATCTAAAAA
Statistics
Matches: 28, Mismatches: 0, Indels: 6
0.82 0.00 0.18
Matches are distributed among these distances:
8 6 0.21
9 14 0.50
10 2 0.07
11 6 0.21
ACGTcount: A:0.33, C:0.00, G:0.00, T:0.68
Consensus pattern (9 bp):
TTTATAATT
Found at i:16842529 original size:27 final size:28
Alignment explanation
Indices: 16842479--16842547 Score: 70
Period size: 28 Copynumber: 2.5 Consensus size: 28
16842469 TTGGTTTTTA
* **
16842479 TTTATAATTTTTATATTTTTAAAT-AATT
1 TTTATAATTTTT-TATCTAAAAATGAATT
*
16842507 TTTATAATTTTTTATCTAAAAATGACTT
1 TTTATAATTTTTTATCTAAAAATGAATT
*
16842535 TTTA-AATATTTTA
1 TTTATAATTTTTTA
16842548 CTTTTTAAAA
Statistics
Matches: 35, Mismatches: 5, Indels: 3
0.81 0.12 0.07
Matches are distributed among these distances:
27 16 0.46
28 19 0.54
ACGTcount: A:0.36, C:0.03, G:0.01, T:0.59
Consensus pattern (28 bp):
TTTATAATTTTTTATCTAAAAATGAATT
Found at i:16842861 original size:51 final size:51
Alignment explanation
Indices: 16842785--16842888 Score: 208
Period size: 51 Copynumber: 2.0 Consensus size: 51
16842775 AAAAAACTAA
16842785 TAGTTGATTGAACAAAATAGAACTAAAGGCATAATTGAGTGACTATTTTAG
1 TAGTTGATTGAACAAAATAGAACTAAAGGCATAATTGAGTGACTATTTTAG
16842836 TAGTTGATTGAACAAAATAGAACTAAAGGCATAATTGAGTGACTATTTTAG
1 TAGTTGATTGAACAAAATAGAACTAAAGGCATAATTGAGTGACTATTTTAG
16842887 TA
1 TA
16842889 ATTTACCCAA
Statistics
Matches: 53, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
51 53 1.00
ACGTcount: A:0.41, C:0.08, G:0.19, T:0.32
Consensus pattern (51 bp):
TAGTTGATTGAACAAAATAGAACTAAAGGCATAATTGAGTGACTATTTTAG
Found at i:16847271 original size:62 final size:62
Alignment explanation
Indices: 16847158--16847278 Score: 170
Period size: 62 Copynumber: 2.0 Consensus size: 62
16847148 TTTGTTTTTC
**
16847158 AAAATCAACTCAAATTGCGAGAAATGAGTTGAGCCTCAAGACACATTGAGGTATTTTTAAAA
1 AAAATCAACTCAAATTGCGAGAAATGAGTTGAGCCTCAAGACACACCGAGGTATTTTTAAAA
* * ** * *
16847220 AAAATCAACTCATATTGCGAGAAGTGAGTTGAGCCTCGGGGCACGCCGAGGTATTTTTA
1 AAAATCAACTCAAATTGCGAGAAATGAGTTGAGCCTCAAGACACACCGAGGTATTTTTA
16847279 GTTTATGTTT
Statistics
Matches: 51, Mismatches: 8, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
62 51 1.00
ACGTcount: A:0.36, C:0.17, G:0.22, T:0.26
Consensus pattern (62 bp):
AAAATCAACTCAAATTGCGAGAAATGAGTTGAGCCTCAAGACACACCGAGGTATTTTTAAAA
Found at i:16847542 original size:378 final size:381
Alignment explanation
Indices: 16846771--16847572 Score: 1432
Period size: 378 Copynumber: 2.1 Consensus size: 381
16846761 CTTTCCAAGG
*
16846771 AAAATCAACTCATATTGCGAGAAATGAGTTGAGCCTCAAGACACGTTGAGGTATTTTTAAATTTT
1 AAAATCAACTCATATTGCGAGAAATGAGTTGAGCCTCAAGACACATTGAGG-----TT-AATTTT
16846836 TTAAAAAAAATCAACTCATATTGCGAGAAGTGAGTTGAGCCTCGGGGCACGCCGAGGTATTTTTA
60 TTAAAAAAAATCAACTCATATTGCGAGAAGTGAGTTGAGCCTCGGGGCACGCCGAGGTATTTTTA
16846901 GTTTATGTTTTAAATTGACTCATATTGCGAGAGGTGAGTTAAGCCTTTTAATTTTTGTTTTTCAA
125 GTTTATGTTTTAAATTGACTCATATTGCGAGAGGTGAGTTAAGCCTTTTAATTTTTGTTTTTCAA
16846966 AATCAACTCATATTGCGAGAAATGAGTTGAGCCTCAAGACACGTTGAGGTATTTTTAAATTTTAA
190 AATCAACTCATATTGCGAGAAATGAGTTGAGCCTCAAGACACGTTGAGGTATTTTTAAATTTTAA
*
16847031 AAAAAAAAATCAACTCATATTGCGAGAAGTGAGTTGAGCCTCGGGGCACGCTGAGGTATTTTTAG
255 AAAAAAAAATCAACTCATATTGCGAGAAGTGAGTTGAGCCTCGGGGCACGCCGAGGTATTTTTAG
* *
16847096 TTTATGTTTTAAATTGACTCATATTGCGAGAGGTGAGTTAAGCCTTTTAATTTTTGTTTTTC
320 TCTATGTTTTAAATTGACTCATATTGCGAAAGGTGAGTTAAGCCTTTTAATTTTTGTTTTTC
*
16847158 AAAATCAACTCAAATTGCGAGAAATGAGTTGAGCCTCAAGACACATTGAGG-T-A-TTTTTAAAA
1 AAAATCAACTCATATTGCGAGAAATGAGTTGAGCCTCAAGACACATTGAGGTTAATTTTTTAAAA
16847220 AAAATCAACTCATATTGCGAGAAGTGAGTTGAGCCTCGGGGCACGCCGAGGTATTTTTAGTTTAT
66 AAAATCAACTCATATTGCGAGAAGTGAGTTGAGCCTCGGGGCACGCCGAGGTATTTTTAGTTTAT
16847285 GTTTTAAATTGACTCATATTGCGAGAGGTGAGTTAAGCCTTTTAATTTTTGTTTTTCAAAATCAA
131 GTTTTAAATTGACTCATATTGCGAGAGGTGAGTTAAGCCTTTTAATTTTTGTTTTTCAAAATCAA
***
16847350 CTCATATTGCGAGAAATGAGTTGAGCCTCAAGACACGTTGAGGTATTTTTAAATTTT-TTTAAAA
196 CTCATATTGCGAGAAATGAGTTGAGCCTCAAGACACGTTGAGGTATTTTTAAATTTTAAAAAAAA
*
16847414 AAATCAACTCATATTGCGAGAAGTGAGTTGCGCCTCGGGGCACGCCGAGGTATTTTTAGTCTATG
261 AAATCAACTCATATTGCGAGAAGTGAGTTGAGCCTCGGGGCACGCCGAGGTATTTTTAGTCTATG
16847479 TTTTAAATTGACTCATATTGCGAAAGGTGAGTTAAGCCTTTTAATTTTTGTTTTTC
326 TTTTAAATTGACTCATATTGCGAAAGGTGAGTTAAGCCTTTTAATTTTTGTTTTTC
16847535 AAAAATCAACTCATATTGCGAGAAATGAGTTGAGCCTC
1 -AAAATCAACTCATATTGCGAGAAATGAGTTGAGCCTC
16847573 GGGGCACGCC
Statistics
Matches: 404, Mismatches: 10, Indels: 11
0.95 0.02 0.03
Matches are distributed among these distances:
377 121 0.30
378 232 0.57
379 1 0.00
381 1 0.00
387 49 0.12
ACGTcount: A:0.31, C:0.14, G:0.21, T:0.35
Consensus pattern (381 bp):
AAAATCAACTCATATTGCGAGAAATGAGTTGAGCCTCAAGACACATTGAGGTTAATTTTTTAAAA
AAAATCAACTCATATTGCGAGAAGTGAGTTGAGCCTCGGGGCACGCCGAGGTATTTTTAGTTTAT
GTTTTAAATTGACTCATATTGCGAGAGGTGAGTTAAGCCTTTTAATTTTTGTTTTTCAAAATCAA
CTCATATTGCGAGAAATGAGTTGAGCCTCAAGACACGTTGAGGTATTTTTAAATTTTAAAAAAAA
AAATCAACTCATATTGCGAGAAGTGAGTTGAGCCTCGGGGCACGCCGAGGTATTTTTAGTCTATG
TTTTAAATTGACTCATATTGCGAAAGGTGAGTTAAGCCTTTTAATTTTTGTTTTTC
Found at i:16847553 original size:54 final size:54
Alignment explanation
Indices: 16847489--16847694 Score: 137
Period size: 54 Copynumber: 3.5 Consensus size: 54
16847479 TTTTAAATTG
16847489 ACTCATATTGCGAAAGGTGAGTTAAGCCTTTTAATTTTTGTTTTTCAAAAATCA
1 ACTCATATTGCGAAAGGTGAGTTAAGCCTTTTAATTTTTGTTTTTCAAAAATCA
* * *** ***
16847543 ACTCATATTGCGAGAA-ATGAGTTGAGCCTCGGGGCACGCCGAGGTATTTTTAGTTTATGTTTTA
1 ACTCATATTGCGA-AAGGTGAGTTAAGCCT---------TTTA---ATTTTT-GTTT-T-TCAAA
**
16847607 AATTG
50 AATCA
*
16847612 ACTCATATTGCGAGAGGTGAGTTAAGCCTTTTAATTTTTGTTTTTCAAAAATCA
1 ACTCATATTGCGAAAGGTGAGTTAAGCCTTTTAATTTTTGTTTTTCAAAAATCA
*
16847666 ACTCATATTGC-AAGAGGTGAGTTGAGCCT
1 ACTCATATTGCGAA-AGGTGAGTTAAGCCT
16847695 CGGCTTACAT
Statistics
Matches: 111, Mismatches: 23, Indels: 36
0.65 0.14 0.21
Matches are distributed among these distances:
53 1 0.01
54 54 0.49
55 3 0.03
56 4 0.04
57 6 0.05
60 1 0.01
63 1 0.01
66 6 0.05
67 4 0.04
68 2 0.02
69 29 0.26
ACGTcount: A:0.28, C:0.14, G:0.21, T:0.37
Consensus pattern (54 bp):
ACTCATATTGCGAAAGGTGAGTTAAGCCTTTTAATTTTTGTTTTTCAAAAATCA
Found at i:16847558 original size:123 final size:123
Alignment explanation
Indices: 16847412--16847697 Score: 518
Period size: 123 Copynumber: 2.3 Consensus size: 123
16847402 ATTTTTTTAA
*
16847412 AAAAATCAACTCATATTGCGAGAAGTGAGTTGCGCCTCGGGGCACGCCGAGGTATTTTTAGTCTA
1 AAAAATCAACTCATATTGCGAGAAGTGAGTTGAGCCTCGGGGCACGCCGAGGTATTTTTAGTCTA
16847477 TGTTTTAAATTGACTCATATTGCGAAAGGTGAGTTAAGCCTTTTAATTTTTGTTTTTC
66 TGTTTTAAATTGACTCATATTGCGAAAGGTGAGTTAAGCCTTTTAATTTTTGTTTTTC
* *
16847535 AAAAATCAACTCATATTGCGAGAAATGAGTTGAGCCTCGGGGCACGCCGAGGTATTTTTAGTTTA
1 AAAAATCAACTCATATTGCGAGAAGTGAGTTGAGCCTCGGGGCACGCCGAGGTATTTTTAGTCTA
*
16847600 TGTTTTAAATTGACTCATATTGCGAGAGGTGAGTTAAGCCTTTTAATTTTTGTTTTTC
66 TGTTTTAAATTGACTCATATTGCGAAAGGTGAGTTAAGCCTTTTAATTTTTGTTTTTC
* *
16847658 AAAAATCAACTCATATTGCAAGAGGTGAGTTGAGCCTCGG
1 AAAAATCAACTCATATTGCGAGAAGTGAGTTGAGCCTCGG
16847698 CTTACATGCT
Statistics
Matches: 156, Mismatches: 7, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
123 156 1.00
ACGTcount: A:0.28, C:0.15, G:0.22, T:0.35
Consensus pattern (123 bp):
AAAAATCAACTCATATTGCGAGAAGTGAGTTGAGCCTCGGGGCACGCCGAGGTATTTTTAGTCTA
TGTTTTAAATTGACTCATATTGCGAAAGGTGAGTTAAGCCTTTTAATTTTTGTTTTTC
Found at i:16847594 original size:194 final size:193
Alignment explanation
Indices: 16846771--16847572 Score: 1442
Period size: 194 Copynumber: 4.2 Consensus size: 193
16846761 CTTTCCAAGG
16846771 AAAATCAACTCATATTGCGAGAAATGAGTTGAGCCTCAAGACACGTTGAGGTATTTTTAAATTTT
1 AAAATCAACTCATATTGCGAGAAATGAGTTGAGCCTCAAGACACGTTGAGGTATTTTTAAATTTT
16846836 TTAAAAAAAATCAACTCATATTGCGAGAAGTGAGTTGAGCCTCGGGGCACGCCGAGGTATTTTTA
66 TTAAAAAAAATCAACTCATATTGCGAGAAGTGAGTTGAGCCTCGGGGCACGCCGAGGTATTTTTA
16846901 GTTTATGTTTTAAATTGACTCATATTGCGAGAGGTGAGTTAAGCCTTTTAATTTTTGTTTTTC
131 GTTTATGTTTTAAATTGACTCATATTGCGAGAGGTGAGTTAAGCCTTTTAATTTTTGTTTTTC
16846964 AAAATCAACTCATATTGCGAGAAATGAGTTGAGCCTCAAGACACGTTGAGGTATTTTTAAATTTT
1 AAAATCAACTCATATTGCGAGAAATGAGTTGAGCCTCAAGACACGTTGAGGTATTTTTAAATTTT
** *
16847029 AAAAAAAAAAATCAACTCATATTGCGAGAAGTGAGTTGAGCCTCGGGGCACGCTGAGGTATTTTT
66 -TTAAAAAAAATCAACTCATATTGCGAGAAGTGAGTTGAGCCTCGGGGCACGCCGAGGTATTTTT
16847094 AGTTTATGTTTTAAATTGACTCATATTGCGAGAGGTGAGTTAAGCCTTTTAATTTTTGTTTTTC
130 AGTTTATGTTTTAAATTGACTCATATTGCGAGAGGTGAGTTAAGCCTTTTAATTTTTGTTTTTC
* *
16847158 AAAATCAACTCAAATTGCGAGAAATGAGTTGAGCCTCAAGACACATTGAGG------T--A-TTT
1 AAAATCAACTCATATTGCGAGAAATGAGTTGAGCCTCAAGACACGTTGAGGTATTTTTAAATTTT
16847214 TTAAAAAAAATCAACTCATATTGCGAGAAGTGAGTTGAGCCTCGGGGCACGCCGAGGTATTTTTA
66 TTAAAAAAAATCAACTCATATTGCGAGAAGTGAGTTGAGCCTCGGGGCACGCCGAGGTATTTTTA
16847279 GTTTATGTTTTAAATTGACTCATATTGCGAGAGGTGAGTTAAGCCTTTTAATTTTTGTTTTTC
131 GTTTATGTTTTAAATTGACTCATATTGCGAGAGGTGAGTTAAGCCTTTTAATTTTTGTTTTTC
16847342 AAAATCAACTCATATTGCGAGAAATGAGTTGAGCCTCAAGACACGTTGAGGTATTTTTAAATTTT
1 AAAATCAACTCATATTGCGAGAAATGAGTTGAGCCTCAAGACACGTTGAGGTATTTTTAAATTTT
* *
16847407 TTTAAAAAAATCAACTCATATTGCGAGAAGTGAGTTGCGCCTCGGGGCACGCCGAGGTATTTTTA
66 TTAAAAAAAATCAACTCATATTGCGAGAAGTGAGTTGAGCCTCGGGGCACGCCGAGGTATTTTTA
* *
16847472 GTCTATGTTTTAAATTGACTCATATTGCGAAAGGTGAGTTAAGCCTTTTAATTTTTGTTTTTC
131 GTTTATGTTTTAAATTGACTCATATTGCGAGAGGTGAGTTAAGCCTTTTAATTTTTGTTTTTC
16847535 AAAAATCAACTCATATTGCGAGAAATGAGTTGAGCCTC
1 -AAAATCAACTCATATTGCGAGAAATGAGTTGAGCCTC
16847573 GGGGCACGCC
Statistics
Matches: 584, Mismatches: 14, Indels: 21
0.94 0.02 0.03
Matches are distributed among these distances:
184 174 0.30
185 3 0.01
186 1 0.00
188 1 0.00
190 1 0.00
192 1 0.00
193 192 0.33
194 211 0.36
ACGTcount: A:0.31, C:0.14, G:0.21, T:0.35
Consensus pattern (193 bp):
AAAATCAACTCATATTGCGAGAAATGAGTTGAGCCTCAAGACACGTTGAGGTATTTTTAAATTTT
TTAAAAAAAATCAACTCATATTGCGAGAAGTGAGTTGAGCCTCGGGGCACGCCGAGGTATTTTTA
GTTTATGTTTTAAATTGACTCATATTGCGAGAGGTGAGTTAAGCCTTTTAATTTTTGTTTTTC
Found at i:16847735 original size:16 final size:17
Alignment explanation
Indices: 16847714--16847747 Score: 52
Period size: 16 Copynumber: 2.1 Consensus size: 17
16847704 TGCTGAGGTA
*
16847714 TTTTCAATTTATG-TTT
1 TTTTCAATCTATGCTTT
16847730 TTTTCAATCTATGCTTT
1 TTTTCAATCTATGCTTT
16847747 T
1 T
16847748 AAAAAATCAA
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
16 12 0.75
17 4 0.25
ACGTcount: A:0.18, C:0.12, G:0.06, T:0.65
Consensus pattern (17 bp):
TTTTCAATCTATGCTTT
Found at i:16847860 original size:85 final size:86
Alignment explanation
Indices: 16847653--16847901 Score: 263
Period size: 91 Copynumber: 2.8 Consensus size: 86
16847643 TAATTTTTGT
16847653 TTTTCAAAAATCAACTCATATTGCAAGAGGTGAGTTGAGCCTC-GGCTTACATGCTGAGGTATTT
1 TTTT-AAAAATCAACTCATATTGCAAGAGGTGAGTTGAGCCTCAGGC--AC--GCTGAGGTATTT
* * **
16847717 TCAATTTATGTTTTTTTCAATCTATGC
61 TCAATTTCTGCTTTACTCAATCTA-GC
* *
16847744 TTTTAAAAAATCAACTTATATTGCGAGAGGTGAGTTGAGCCTCAAGGCACGCTGAGGTATTTTCA
1 TTTT-AAAAATCAACTCATATTGCAAGAGGTGAGTTGAGCCTC-AGGCACGCTGAGGTATTTTCA
16847809 ATTTCTGCTTTACT-AATTCTA-C
64 ATTTCTGCTTTACTCAA-TCTAGC
* * * *
16847831 TTTT-CAAATCAACTCATATTGCAATAGGTGAGTTGAGTCTCAGGCCACACGCTGAGGTCTTTTC
1 TTTTAAAAATCAACTCATATTGCAAGAGGTGAGTTGAGCCTCAGG---CACGCTGAGGTATTTTC
*
16847895 AAATTCT
63 AATTTCT
16847902 ATTTTTAATT
Statistics
Matches: 138, Mismatches: 14, Indels: 16
0.82 0.08 0.10
Matches are distributed among these distances:
84 3 0.02
85 32 0.23
87 27 0.20
88 2 0.01
89 29 0.21
91 42 0.30
93 3 0.02
ACGTcount: A:0.27, C:0.18, G:0.18, T:0.37
Consensus pattern (86 bp):
TTTTAAAAATCAACTCATATTGCAAGAGGTGAGTTGAGCCTCAGGCACGCTGAGGTATTTTCAAT
TTCTGCTTTACTCAATCTAGC
Found at i:16847862 original size:176 final size:183
Alignment explanation
Indices: 16847653--16848065 Score: 468
Period size: 193 Copynumber: 2.2 Consensus size: 183
16847643 TAATTTTTGT
* *
16847653 TTTTCAAAAATCAACTCATATTGCAAGAGGTGAGTTGAGCCTC-GGCTTACATGCTGAGGTATTT
1 TTTTC-AAAATCAACTCATATTGCAAGAGGTGAGTTGAGCCTCAGGC-CACACGCTGAGGTATTT
* * *
16847717 TC-A-A-TTT-A-TGTTTTTTTCAA-TCTATGCTTT-TAAAAAATCAACTTATATTGCGAGAGGT
64 TCAATATTTTAATTGTTTTTTTCAATTCTATG-TTTAAAAAAAATCAACTCATATTGCAAGAGGT
*
16847775 GAGTTGAGCCTCAAGGCACGCTGAGGTATTTTCAATTTCTGCTTTACTAA-TTCTAC
128 GAGTTGAGCCTCAAGGCACGCTGAGGTATTTTCAATTTCTACTTTAC-AATTTCTAC
* * *
16847831 TTTTC-AAATCAACTCATATTGCAATAGGTGAGTTGAGTCTCAGGCCACACGCTGAGGTCTTTTC
1 TTTTCAAAATCAACTCATATTGCAAGAGGTGAGTTGAGCCTCAGGCCACACGCTGAGGTATTTTC
* *
16847895 AAATTCTATTTTTAATTTCTGTTTTTTTTAATTTCTGTGTTTCAAAAAAAAATCAACTCATATTG
66 -AA---TA-TTTTAA--T-TGTTTTTTTCAA-TTCTATGTTT--AAAAAAAATCAACTCATATTG
* * **
16847960 CAAGAGGTGAGTTGAGCCTCAGGGCACGCTGAGGTATTTTCAATTTCTACTTTTCAATTTCTGT
120 CAAGAGGTGAGTTGAGCCTCAAGGCACGCTGAGGTATTTTCAATTTCTACTTTACAATTTCTAC
*
16848024 TTTTCAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCT
1 TTTTC-AAAATCAACTCATATTGCAAGAGGTGAGTTGAGCCT
16848066 TTTAATTTCT
Statistics
Matches: 195, Mismatches: 18, Indels: 27
0.81 0.08 0.11
Matches are distributed among these distances:
176 50 0.26
177 3 0.02
178 6 0.03
182 1 0.01
184 3 0.02
185 1 0.01
189 11 0.06
190 3 0.02
191 5 0.03
192 2 0.01
193 78 0.40
195 32 0.16
ACGTcount: A:0.27, C:0.17, G:0.18, T:0.38
Consensus pattern (183 bp):
TTTTCAAAATCAACTCATATTGCAAGAGGTGAGTTGAGCCTCAGGCCACACGCTGAGGTATTTTC
AATATTTTAATTGTTTTTTTCAATTCTATGTTTAAAAAAAATCAACTCATATTGCAAGAGGTGAG
TTGAGCCTCAAGGCACGCTGAGGTATTTTCAATTTCTACTTTACAATTTCTAC
Found at i:16848093 original size:54 final size:55
Alignment explanation
Indices: 16848009--16848218 Score: 259
Period size: 54 Copynumber: 4.1 Consensus size: 55
16847999 TCAATTTCTA
*
16848009 CTTTTCAATTTCTGTTTTTCAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGC
1 CTTTTCAATTTCTATTTTTCAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGC
* *
16848064 CTTTT-AATTTCTATTTTTCAAAAACCAACTCATATTACGAGAGGTGAGTTGAGC
1 CTTTTCAATTTCTATTTTTCAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGC
16848118 C--TT---TTTCTA-TTTT------TCAACTCATATTGCGAGAGGTGAGTTGAGC
1 CTTTTCAATTTCTATTTTTCAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGC
* * *
16848161 CTTTTGCAAATTCT-GTTTTCAAAAATCAACTCATATTGCGAGAAGTGAGTTGAGC
1 CTTTT-CAATTTCTATTTTTCAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGC
16848216 CTT
1 CTT
16848219 GGCTCACGTG
Statistics
Matches: 135, Mismatches: 7, Indels: 26
0.80 0.04 0.15
Matches are distributed among these distances:
43 29 0.21
45 2 0.01
49 12 0.09
50 6 0.04
52 2 0.01
54 47 0.35
55 37 0.27
ACGTcount: A:0.28, C:0.17, G:0.18, T:0.38
Consensus pattern (55 bp):
CTTTTCAATTTCTATTTTTCAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGC
Found at i:16848213 original size:98 final size:97
Alignment explanation
Indices: 16848034--16848218 Score: 300
Period size: 98 Copynumber: 1.9 Consensus size: 97
16848024 TTTTCAAAAA
* *
16848034 TCAACTCATATTGCGAGAGGTGAGTTGAGCCTTTTAATTTCTATTTTTCAAAAACCAACTCATAT
1 TCAACTCATATTGCGAGAGGTGAGTTGAGCCTTTTAAATTCTAGTTTTCAAAAACCAACTCATAT
*
16848099 TACGAGAGGTGAGTTGAGCCTTTTTCTATTTT
66 TACGAGAAGTGAGTTGAGCCTTTTTCTATTTT
*
16848131 TCAACTCATATTGCGAGAGGTGAGTTGAGCCTTTTGCAAATTCT-GTTTTCAAAAATCAACTCAT
1 TCAACTCATATTGCGAGAGGTGAGTTGAGCCTTTT--AAATTCTAGTTTTCAAAAACCAACTCAT
*
16848195 ATTGCGAGAAGTGAGTTGAGCCTT
64 ATTACGAGAAGTGAGTTGAGCCTT
16848219 GGCTCACGTG
Statistics
Matches: 81, Mismatches: 5, Indels: 3
0.91 0.06 0.03
Matches are distributed among these distances:
97 35 0.43
98 40 0.49
99 6 0.07
ACGTcount: A:0.28, C:0.17, G:0.19, T:0.36
Consensus pattern (97 bp):
TCAACTCATATTGCGAGAGGTGAGTTGAGCCTTTTAAATTCTAGTTTTCAAAAACCAACTCATAT
TACGAGAAGTGAGTTGAGCCTTTTTCTATTTT
Found at i:16848479 original size:14 final size:15
Alignment explanation
Indices: 16848460--16848494 Score: 54
Period size: 14 Copynumber: 2.4 Consensus size: 15
16848450 TTTAATTTTC
16848460 AAAATTTCAAAAA-A
1 AAAATTTCAAAAATA
*
16848474 AAAATTTTAAAAATA
1 AAAATTTCAAAAATA
16848489 AAAATT
1 AAAATT
16848495 GCATTTTAAC
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
14 12 0.63
15 7 0.37
ACGTcount: A:0.69, C:0.03, G:0.00, T:0.29
Consensus pattern (15 bp):
AAAATTTCAAAAATA
Found at i:16848524 original size:30 final size:30
Alignment explanation
Indices: 16848490--16848593 Score: 120
Period size: 30 Copynumber: 3.5 Consensus size: 30
16848480 TTAAAAATAA
*
16848490 AAATTGCATTTTAACCCTTAAACTTTTC-CT
1 AAATTTCATTTTAACCCTTAAAC-TTTCACT
* **
16848520 AAATTTCATTTTGACCCTTAAACTTTCTTT
1 AAATTTCATTTTAACCCTTAAACTTTCACT
* * * *
16848550 AAATTTCACTTAAACCCCTAAACTTTCATT
1 AAATTTCATTTTAACCCTTAAACTTTCACT
16848580 AAATTTCATTTTAA
1 AAATTTCATTTTAA
16848594 TCCTAAATTT
Statistics
Matches: 63, Mismatches: 10, Indels: 2
0.84 0.13 0.03
Matches are distributed among these distances:
29 4 0.06
30 59 0.94
ACGTcount: A:0.33, C:0.21, G:0.02, T:0.44
Consensus pattern (30 bp):
AAATTTCATTTTAACCCTTAAACTTTCACT
Found at i:16848612 original size:29 final size:30
Alignment explanation
Indices: 16848487--16848619 Score: 112
Period size: 30 Copynumber: 4.5 Consensus size: 30
16848477 ATTTTAAAAA
*
16848487 TAAAAATTGCATTTTAACCCTTAAACTTTTCC
1 TAAAAATTTCATTTTAACCCTTAAAC-TTT-C
*
16848519 T--AAATTTCATTTTGACCCTTAAACTTTC
1 TAAAAATTTCATTTTAACCCTTAAACTTTC
** * * *
16848547 TTTAAATTTCACTTAAACCCCTAAACTTTC
1 TAAAAATTTCATTTTAACCCTTAAACTTTC
* * *
16848577 -ATTAAATTTCATTTTAATCC-TAAATTTTC
1 TA-AAAATTTCATTTTAACCCTTAAACTTTC
*
16848606 TAAAAATTACATTT
1 TAAAAATTTCATTT
16848620 AGCCCCAGAA
Statistics
Matches: 84, Mismatches: 13, Indels: 11
0.78 0.12 0.10
Matches are distributed among these distances:
28 2 0.02
29 21 0.25
30 60 0.71
32 1 0.01
ACGTcount: A:0.35, C:0.20, G:0.02, T:0.44
Consensus pattern (30 bp):
TAAAAATTTCATTTTAACCCTTAAACTTTC
Found at i:16849150 original size:12 final size:13
Alignment explanation
Indices: 16849132--16849179 Score: 62
Period size: 12 Copynumber: 3.6 Consensus size: 13
16849122 CAAAGCAGCC
16849132 CAAAAAAATAAAG
1 CAAAAAAATAAAG
*
16849145 -AAAAAAACAAAG
1 CAAAAAAATAAAG
16849157 CAAAAAAATAAGCAG
1 CAAAAAAATAA--AG
16849172 CAAAAAAA
1 CAAAAAAA
16849180 AAGGGGGGCA
Statistics
Matches: 30, Mismatches: 2, Indels: 4
0.83 0.06 0.11
Matches are distributed among these distances:
12 11 0.37
13 9 0.30
15 10 0.33
ACGTcount: A:0.77, C:0.10, G:0.08, T:0.04
Consensus pattern (13 bp):
CAAAAAAATAAAG
Found at i:16849243 original size:26 final size:26
Alignment explanation
Indices: 16849192--16849244 Score: 70
Period size: 26 Copynumber: 2.0 Consensus size: 26
16849182 GGGGGGCAGG
** *
16849192 CCAACAGCAGGCCCAATTCCAGCAGC
1 CCAACAGCAGGCCCAAGCCCAACAGC
*
16849218 CCAACAGCAGGCCCTAGCCCAACAGC
1 CCAACAGCAGGCCCAAGCCCAACAGC
16849244 C
1 C
16849245 AGCTTGTCCA
Statistics
Matches: 23, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
26 23 1.00
ACGTcount: A:0.30, C:0.45, G:0.19, T:0.06
Consensus pattern (26 bp):
CCAACAGCAGGCCCAAGCCCAACAGC
Found at i:16849340 original size:11 final size:11
Alignment explanation
Indices: 16849324--16849378 Score: 65
Period size: 11 Copynumber: 4.6 Consensus size: 11
16849314 GCAACCCAAC
16849324 AGAAAAAGAAA
1 AGAAAAAGAAA
16849335 AGAAAAAAGAAAAA
1 AG-AAAAAG--AAA
*
16849349 AGAAAAAAGAAG
1 AG-AAAAAGAAA
16849361 AGAAAAAGAAA
1 AGAAAAAGAAA
16849372 AGAAAAA
1 AGAAAAA
16849379 TTCAATTTGT
Statistics
Matches: 39, Mismatches: 2, Indels: 6
0.83 0.04 0.13
Matches are distributed among these distances:
11 17 0.44
12 10 0.26
14 12 0.31
ACGTcount: A:0.82, C:0.00, G:0.18, T:0.00
Consensus pattern (11 bp):
AGAAAAAGAAA
Found at i:16849344 original size:7 final size:7
Alignment explanation
Indices: 16849332--16849378 Score: 60
Period size: 7 Copynumber: 6.4 Consensus size: 7
16849322 ACAGAAAAAG
16849332 AAAAGAA
1 AAAAGAA
16849339 AAAAGAA
1 AAAAGAA
16849346 AAAAGAA
1 AAAAGAA
16849353 AAAAGAA
1 AAAAGAA
16849360 GAGAAA-AA
1 -A-AAAGAA
16849368 GAAAAGAA
1 -AAAAGAA
16849376 AAA
1 AAA
16849379 TTCAATTTGT
Statistics
Matches: 37, Mismatches: 0, Indels: 6
0.86 0.00 0.14
Matches are distributed among these distances:
7 27 0.73
8 7 0.19
9 3 0.08
ACGTcount: A:0.83, C:0.00, G:0.17, T:0.00
Consensus pattern (7 bp):
AAAAGAA
Found at i:16849764 original size:20 final size:22
Alignment explanation
Indices: 16849739--16849781 Score: 63
Period size: 22 Copynumber: 2.0 Consensus size: 22
16849729 TCGGGTTTCG
16849739 AAATTT-TCGTG-TCTTCAAAA
1 AAATTTCTCGTGTTCTTCAAAA
*
16849759 AAATTTCTCGTGTTTTTCAAAA
1 AAATTTCTCGTGTTCTTCAAAA
16849781 A
1 A
16849782 TAAGGTAACA
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
20 6 0.30
21 5 0.25
22 9 0.45
ACGTcount: A:0.35, C:0.14, G:0.09, T:0.42
Consensus pattern (22 bp):
AAATTTCTCGTGTTCTTCAAAA
Found at i:16849938 original size:36 final size:35
Alignment explanation
Indices: 16849885--16849953 Score: 93
Period size: 36 Copynumber: 1.9 Consensus size: 35
16849875 TAAAAATCGG
* * *
16849885 AAAATTTTTCGTGTTTTCAAAAGTTCCCGTGTTGC
1 AAAAATTTTCATGTTTTCAAAAATTCCCGTGTTGC
*
16849920 AAAAATTTTCATGTTTTTCAAAAATTCTCGTGTT
1 AAAAATTTTCATG-TTTTCAAAAATTCCCGTGTT
16849954 TTCAAAAAAA
Statistics
Matches: 29, Mismatches: 4, Indels: 1
0.85 0.12 0.03
Matches are distributed among these distances:
35 11 0.38
36 18 0.62
ACGTcount: A:0.28, C:0.14, G:0.13, T:0.45
Consensus pattern (35 bp):
AAAAATTTTCATGTTTTCAAAAATTCCCGTGTTGC
Found at i:16850025 original size:17 final size:17
Alignment explanation
Indices: 16849885--16850207 Score: 163
Period size: 17 Copynumber: 18.2 Consensus size: 17
16849875 TAAAAATCGG
*
16849885 AAAATTTTTCGTGTTTTC
1 AAAAATTTTCGTG-TTTC
* ** *
16849903 AAAAGTTCCCGTGTTGC
1 AAAAATTTTCGTGTTTC
*
16849920 AAAAATTTTCATGTTTTTC
1 AAAAATTTTC--GTGTTTC
*
16849939 AAAAATTCTCGTGTTTTC
1 AAAAATTTTCGTG-TTTC
* * *
16849957 AAAAAAAATTCCAAT-TTTC
1 --AAAAATTTTC-GTGTTTC
*
16849976 AAAATTTTTCGTGTTTTC
1 AAAAATTTTCGTG-TTTC
* *
16849994 TGAAAA-CTTCTGTGTTTC
1 -AAAAATTTTC-GTGTTTC
16850012 AAAAATTTTCGTGTTTC
1 AAAAATTTTCGTGTTTC
* *
16850029 TAAAATTTTCGTATTTC
1 AAAAATTTTCGTGTTTC
*
16850046 AAAAATTTTCTTGTTTTC
1 AAAAATTTTCGTG-TTTC
* * *
16850064 -AAATTTTTCGTATTTA
1 AAAAATTTTCGTGTTTC
**
16850080 AAAAATCCTCGTGTTTTC
1 AAAAATTTTCGTG-TTTC
16850098 -AAAA-TTTCAGTGTTTC
1 AAAAATTTTC-GTGTTTC
*
16850114 AAAATTTTTCGTGTTTC
1 AAAAATTTTCGTGTTTC
**
16850131 AAAAAAAAATTCCCGT-TTTCC
1 ----AAAAATTTTCGTGTTT-C
*
16850152 AAAAATTTTCGTGTTTT
1 AAAAATTTTCGTGTTTC
**
16850169 AAGAAATTGACCGTGTTTC
1 AA-AAATT-TTCGTGTTTC
* *
16850188 ATAAATTTTCGCGTTTC
1 AAAAATTTTCGTGTTTC
16850205 AAA
1 AAA
16850208 GAAATCTCGT
Statistics
Matches: 225, Mismatches: 55, Indels: 51
0.68 0.17 0.15
Matches are distributed among these distances:
16 10 0.04
17 110 0.49
18 52 0.23
19 32 0.14
20 10 0.04
21 11 0.05
ACGTcount: A:0.30, C:0.14, G:0.11, T:0.45
Consensus pattern (17 bp):
AAAAATTTTCGTGTTTC
Found at i:16860555 original size:16 final size:16
Alignment explanation
Indices: 16860534--16860565 Score: 64
Period size: 16 Copynumber: 2.0 Consensus size: 16
16860524 TAATGTGTTT
16860534 TGCTGCTGTTGTTTAA
1 TGCTGCTGTTGTTTAA
16860550 TGCTGCTGTTGTTTAA
1 TGCTGCTGTTGTTTAA
16860566 ATGCAGAATG
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 16 1.00
ACGTcount: A:0.12, C:0.12, G:0.25, T:0.50
Consensus pattern (16 bp):
TGCTGCTGTTGTTTAA
Found at i:16860747 original size:45 final size:45
Alignment explanation
Indices: 16860679--16860840 Score: 270
Period size: 45 Copynumber: 3.6 Consensus size: 45
16860669 AAGAGGTGGA
** * * *
16860679 CAACATCATGCATAATTTGTGGAACAAATTAAGGAAGCATTTGAC
1 CAACATCATGCATAATTCATGGAAGAATTTGAGGAAGCATTTGAC
16860724 CAACATCATGCATAATTCATGGAAGAATTTGAGGAAGCATTTGAC
1 CAACATCATGCATAATTCATGGAAGAATTTGAGGAAGCATTTGAC
*
16860769 CAACATCATGCATAATTCATGGAAGAATTTGAGGAAGCATTTGGC
1 CAACATCATGCATAATTCATGGAAGAATTTGAGGAAGCATTTGAC
16860814 CAACATCATGCATAATTCATGGAAGAA
1 CAACATCATGCATAATTCATGGAAGAA
16860841 CCTTGAATTA
Statistics
Matches: 111, Mismatches: 6, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
45 111 1.00
ACGTcount: A:0.39, C:0.16, G:0.19, T:0.26
Consensus pattern (45 bp):
CAACATCATGCATAATTCATGGAAGAATTTGAGGAAGCATTTGAC
Found at i:16864203 original size:16 final size:16
Alignment explanation
Indices: 16864178--16864209 Score: 55
Period size: 16 Copynumber: 2.0 Consensus size: 16
16864168 TAATGTGTTT
16864178 TGCTGCTGTTGTTTAA
1 TGCTGCTGTTGTTTAA
*
16864194 TGCTGTTGTTGTTTAA
1 TGCTGCTGTTGTTTAA
16864210 ATGCAGAATG
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:0.12, C:0.09, G:0.25, T:0.53
Consensus pattern (16 bp):
TGCTGCTGTTGTTTAA
Found at i:16864391 original size:45 final size:45
Alignment explanation
Indices: 16864323--16864484 Score: 270
Period size: 45 Copynumber: 3.6 Consensus size: 45
16864313 AAGAGGTGGA
** * * *
16864323 CAACATCATGCATAATTTGTGGAACAAATTAAGGAAGCATTTGAC
1 CAACATCATGCATAATTCATGGAAGAATTTGAGGAAGCATTTGAC
16864368 CAACATCATGCATAATTCATGGAAGAATTTGAGGAAGCATTTGAC
1 CAACATCATGCATAATTCATGGAAGAATTTGAGGAAGCATTTGAC
*
16864413 CAACATCATGCATAATTCATGGAAGAATTTGAGGAAGCATTTGGC
1 CAACATCATGCATAATTCATGGAAGAATTTGAGGAAGCATTTGAC
16864458 CAACATCATGCATAATTCATGGAAGAA
1 CAACATCATGCATAATTCATGGAAGAA
16864485 CCTTGAATTA
Statistics
Matches: 111, Mismatches: 6, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
45 111 1.00
ACGTcount: A:0.39, C:0.16, G:0.19, T:0.26
Consensus pattern (45 bp):
CAACATCATGCATAATTCATGGAAGAATTTGAGGAAGCATTTGAC
Found at i:16866946 original size:2 final size:2
Alignment explanation
Indices: 16866939--16866969 Score: 62
Period size: 2 Copynumber: 15.5 Consensus size: 2
16866929 TGATCACATA
16866939 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 A
16866970 AGTTGAAAAA
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 29 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:16872735 original size:17 final size:19
Alignment explanation
Indices: 16872708--16872742 Score: 56
Period size: 18 Copynumber: 1.9 Consensus size: 19
16872698 GAATTCATGA
16872708 TTGATATTTTT-TATGTAT
1 TTGATATTTTTGTATGTAT
16872726 TTGA-ATTTTTGTATGTA
1 TTGATATTTTTGTATGTA
16872743 GCTAAAGACG
Statistics
Matches: 16, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
17 6 0.38
18 10 0.62
ACGTcount: A:0.23, C:0.00, G:0.14, T:0.63
Consensus pattern (19 bp):
TTGATATTTTTGTATGTAT
Found at i:16877567 original size:25 final size:25
Alignment explanation
Indices: 16877539--16877586 Score: 78
Period size: 25 Copynumber: 1.9 Consensus size: 25
16877529 AACCTCTTTC
*
16877539 GAGCTGAATAACGGAAAGCTCATGT
1 GAGCTAAATAACGGAAAGCTCATGT
*
16877564 GAGCTAAATAACGGGAAGCTCAT
1 GAGCTAAATAACGGAAAGCTCAT
16877587 AAGAGTTGAA
Statistics
Matches: 21, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
25 21 1.00
ACGTcount: A:0.38, C:0.17, G:0.27, T:0.19
Consensus pattern (25 bp):
GAGCTAAATAACGGAAAGCTCATGT
Found at i:16887602 original size:8 final size:8
Alignment explanation
Indices: 16887591--16887629 Score: 53
Period size: 8 Copynumber: 4.9 Consensus size: 8
16887581 AGCTACAATA
16887591 AAACTAAC
1 AAACTAAC
16887599 AAACTAAC
1 AAACTAAC
16887607 AAACT-AC
1 AAACTAAC
*
16887614 CAACTAAC
1 AAACTAAC
16887622 ACAACTAA
1 A-AACTAA
16887630 GAACTAGAAA
Statistics
Matches: 27, Mismatches: 2, Indels: 3
0.84 0.06 0.09
Matches are distributed among these distances:
7 6 0.22
8 15 0.56
9 6 0.22
ACGTcount: A:0.59, C:0.28, G:0.00, T:0.13
Consensus pattern (8 bp):
AAACTAAC
Found at i:16887612 original size:16 final size:16
Alignment explanation
Indices: 16887591--16887629 Score: 53
Period size: 15 Copynumber: 2.4 Consensus size: 16
16887581 AGCTACAATA
16887591 AAACTAACAAACTAAC
1 AAACTAACAAACTAAC
*
16887607 AAACT-ACCAACTAAC
1 AAACTAACAAACTAAC
16887622 ACAACTAA
1 A-AACTAA
16887630 GAACTAGAAA
Statistics
Matches: 20, Mismatches: 1, Indels: 3
0.83 0.04 0.12
Matches are distributed among these distances:
15 10 0.50
16 9 0.45
17 1 0.05
ACGTcount: A:0.59, C:0.28, G:0.00, T:0.13
Consensus pattern (16 bp):
AAACTAACAAACTAAC
Found at i:16887634 original size:16 final size:15
Alignment explanation
Indices: 16887591--16887635 Score: 54
Period size: 16 Copynumber: 2.9 Consensus size: 15
16887581 AGCTACAATA
16887591 AAACTAACAAACTAAC
1 AAACTAAC-AACTAAC
*
16887607 AAACTACCAACTAAC
1 AAACTAACAACTAAC
*
16887622 ACAACTAAGAACTA
1 A-AACTAACAACTA
16887636 GAAAAGTTTA
Statistics
Matches: 25, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
15 8 0.32
16 17 0.68
ACGTcount: A:0.58, C:0.27, G:0.02, T:0.13
Consensus pattern (15 bp):
AAACTAACAACTAAC
Found at i:16890725 original size:30 final size:30
Alignment explanation
Indices: 16890665--16890726 Score: 72
Period size: 30 Copynumber: 2.1 Consensus size: 30
16890655 AGTCTATATA
* *
16890665 TTTATAATTTTTAAAGGATTAAATAGAATT
1 TTTATAATTTTTAAAGGATCAAATACAATT
* *
16890695 TTTATAA-TTTTAGAGGGTCAAAGTACAATT
1 TTTATAATTTTTAAAGGATCAAA-TACAATT
16890725 TT
1 TT
16890727 ACCTTTACTA
Statistics
Matches: 27, Mismatches: 4, Indels: 2
0.82 0.12 0.06
Matches are distributed among these distances:
29 12 0.44
30 15 0.56
ACGTcount: A:0.39, C:0.03, G:0.13, T:0.45
Consensus pattern (30 bp):
TTTATAATTTTTAAAGGATCAAATACAATT
Found at i:16895665 original size:13 final size:15
Alignment explanation
Indices: 16895641--16895675 Score: 63
Period size: 15 Copynumber: 2.4 Consensus size: 15
16895631 GACACCAGAT
16895641 TATTTTTAA-ATAAG
1 TATTTTTAATATAAG
16895655 TATTTTTAATATAAG
1 TATTTTTAATATAAG
16895670 TATTTT
1 TATTTT
16895676 ATTAGTTTTT
Statistics
Matches: 20, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
14 9 0.45
15 11 0.55
ACGTcount: A:0.37, C:0.00, G:0.06, T:0.57
Consensus pattern (15 bp):
TATTTTTAATATAAG
Found at i:16896613 original size:22 final size:22
Alignment explanation
Indices: 16896588--16896631 Score: 63
Period size: 22 Copynumber: 2.0 Consensus size: 22
16896578 AATAACGGAG
*
16896588 AAAT-ATATATTAATATTATATT
1 AAATAATA-ATTAAAATTATATT
16896610 AAATAATAATTAAAATTATATT
1 AAATAATAATTAAAATTATATT
16896632 TATACCTAAA
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
22 17 0.85
23 3 0.15
ACGTcount: A:0.55, C:0.00, G:0.00, T:0.45
Consensus pattern (22 bp):
AAATAATAATTAAAATTATATT
Found at i:16897893 original size:17 final size:17
Alignment explanation
Indices: 16897863--16897896 Score: 50
Period size: 17 Copynumber: 2.0 Consensus size: 17
16897853 AAAAGTTAAT
**
16897863 ATTAATTATTTAAACTA
1 ATTAATTACATAAACTA
16897880 ATTAATTACATAAACTA
1 ATTAATTACATAAACTA
16897897 TAAAGAGCAA
Statistics
Matches: 15, Mismatches: 2, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
17 15 1.00
ACGTcount: A:0.50, C:0.09, G:0.00, T:0.41
Consensus pattern (17 bp):
ATTAATTACATAAACTA
Found at i:16904686 original size:11 final size:11
Alignment explanation
Indices: 16904672--16904704 Score: 50
Period size: 11 Copynumber: 3.1 Consensus size: 11
16904662 AATGTTTATG
16904672 TATTGTTTGTT
1 TATTGTTTGTT
16904683 TATTGTTTGTT
1 TATTGTTTGTT
*
16904694 T-TTGTGTGTT
1 TATTGTTTGTT
16904704 T
1 T
16904705 TAATTTACAT
Statistics
Matches: 21, Mismatches: 1, Indels: 1
0.91 0.04 0.04
Matches are distributed among these distances:
10 9 0.43
11 12 0.57
ACGTcount: A:0.06, C:0.00, G:0.21, T:0.73
Consensus pattern (11 bp):
TATTGTTTGTT
Found at i:16909883 original size:23 final size:23
Alignment explanation
Indices: 16909839--16909888 Score: 68
Period size: 24 Copynumber: 2.2 Consensus size: 23
16909829 CTCTTTTTGA
16909839 AAAAAATAATGACTAAATTTAAGT
1 AAAAAATAATGACTAAATTTAA-T
16909863 AAAAAATAA-GAACTAAA-TTAAT
1 AAAAAATAATG-ACTAAATTTAAT
16909885 AAAA
1 AAAA
16909889 TAATTACAAA
Statistics
Matches: 25, Mismatches: 0, Indels: 4
0.86 0.00 0.14
Matches are distributed among these distances:
22 5 0.20
23 5 0.20
24 15 0.60
ACGTcount: A:0.66, C:0.04, G:0.06, T:0.24
Consensus pattern (23 bp):
AAAAAATAATGACTAAATTTAAT
Found at i:16912621 original size:13 final size:13
Alignment explanation
Indices: 16912580--16912622 Score: 52
Period size: 13 Copynumber: 3.2 Consensus size: 13
16912570 TCCATCATTT
16912580 AAAATATTACTAA
1 AAAATATTACTAA
*
16912593 AAAGAT-TTGACAAA
1 AAA-ATATT-ACTAA
16912607 AAAATATTACTAA
1 AAAATATTACTAA
16912620 AAA
1 AAA
16912623 GAATTTTCAG
Statistics
Matches: 25, Mismatches: 2, Indels: 6
0.76 0.06 0.18
Matches are distributed among these distances:
13 14 0.56
14 11 0.44
ACGTcount: A:0.63, C:0.07, G:0.05, T:0.26
Consensus pattern (13 bp):
AAAATATTACTAA
Found at i:16914519 original size:21 final size:19
Alignment explanation
Indices: 16914494--16914544 Score: 57
Period size: 20 Copynumber: 2.5 Consensus size: 19
16914484 ATTTTAAAAT
16914494 ATTTATAAAAAAATCTTGAAA
1 ATTTATAAAAAAAT-TT-AAA
*
16914515 ATTTATCAAAAATATTTAAA
1 ATTTAT-AAAAAAATTTAAA
*
16914535 AATTATAAAA
1 ATTTATAAAA
16914545 CAAAACTCAT
Statistics
Matches: 27, Mismatches: 2, Indels: 4
0.82 0.06 0.12
Matches are distributed among these distances:
19 4 0.15
20 8 0.30
21 8 0.30
22 7 0.26
ACGTcount: A:0.59, C:0.04, G:0.02, T:0.35
Consensus pattern (19 bp):
ATTTATAAAAAAATTTAAA
Found at i:16915002 original size:23 final size:23
Alignment explanation
Indices: 16914955--16915002 Score: 60
Period size: 23 Copynumber: 2.1 Consensus size: 23
16914945 ATTATTTACT
* **
16914955 TATTTATTCAATCAGTTTTTTAA
1 TATTTATTCAATAAGTTTTAAAA
*
16914978 TATTTATTTAATAAGTTTTAAAA
1 TATTTATTCAATAAGTTTTAAAA
16915001 TA
1 TA
16915003 ATTCAAGTTA
Statistics
Matches: 21, Mismatches: 4, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
23 21 1.00
ACGTcount: A:0.38, C:0.04, G:0.04, T:0.54
Consensus pattern (23 bp):
TATTTATTCAATAAGTTTTAAAA
Found at i:16921529 original size:48 final size:48
Alignment explanation
Indices: 16921464--16921568 Score: 156
Period size: 48 Copynumber: 2.2 Consensus size: 48
16921454 GGCTTCAGGC
* **
16921464 TATTAGCACTTCAGGTGCGAGTTACATTGATTTGGCTTTGGGCCATGA
1 TATTAGCACTTCAGGTGCGAGTTACATTGATTTGGCTTCGGGAAATGA
* *
16921512 TATTAGCATTTCGGGTGCGAGTTACATTGATTTGGCTTCGGGAAATGA
1 TATTAGCACTTCAGGTGCGAGTTACATTGATTTGGCTTCGGGAAATGA
*
16921560 TATTGGCAC
1 TATTAGCAC
16921569 CTAGGGTGCG
Statistics
Matches: 50, Mismatches: 7, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
48 50 1.00
ACGTcount: A:0.22, C:0.15, G:0.28, T:0.35
Consensus pattern (48 bp):
TATTAGCACTTCAGGTGCGAGTTACATTGATTTGGCTTCGGGAAATGA
Found at i:16921576 original size:48 final size:48
Alignment explanation
Indices: 16921464--16921580 Score: 146
Period size: 48 Copynumber: 2.4 Consensus size: 48
16921454 GGCTTCAGGC
* * **
16921464 TATTAGCACTTCA-GGTGCGAGTTACATTGATTTGGCTTTGGGCCATGA
1 TATTAGCACCT-AGGGTGCGAGTTACATTGATTTGGCTTCGGGAAATGA
** *
16921512 TATTAGCATTTCGGGTGCGAGTTACATTGATTTGGCTTCGGGAAATGA
1 TATTAGCACCTAGGGTGCGAGTTACATTGATTTGGCTTCGGGAAATGA
*
16921560 TATTGGCACCTAGGGTGCGAG
1 TATTAGCACCTAGGGTGCGAG
16921581 ACTTCCGAGT
Statistics
Matches: 59, Mismatches: 9, Indels: 2
0.84 0.13 0.03
Matches are distributed among these distances:
48 59 1.00
ACGTcount: A:0.21, C:0.15, G:0.30, T:0.33
Consensus pattern (48 bp):
TATTAGCACCTAGGGTGCGAGTTACATTGATTTGGCTTCGGGAAATGA
Found at i:16926426 original size:21 final size:21
Alignment explanation
Indices: 16926401--16926470 Score: 88
Period size: 21 Copynumber: 3.4 Consensus size: 21
16926391 TAAAACCTAG
16926401 AACTCTAAATTATTTTAACAA
1 AACTCTAAATTATTTTAACAA
* * * *
16926422 AACTCTAAATCATATAAACTA
1 AACTCTAAATTATTTTAACAA
16926443 AAC-CTAAATTATTTTAACAA
1 AACTCTAAATTATTTTAACAA
*
16926463 AACCCTAA
1 AACTCTAA
16926471 CCCTAAAAAC
Statistics
Matches: 40, Mismatches: 8, Indels: 2
0.80 0.16 0.04
Matches are distributed among these distances:
20 16 0.40
21 24 0.60
ACGTcount: A:0.50, C:0.19, G:0.00, T:0.31
Consensus pattern (21 bp):
AACTCTAAATTATTTTAACAA
Found at i:16926465 original size:20 final size:20
Alignment explanation
Indices: 16926405--16926466 Score: 79
Period size: 20 Copynumber: 3.0 Consensus size: 20
16926395 ACCTAGAACT
16926405 CTAAATTATTTTAACAAAAC
1 CTAAATTATTTTAACAAAAC
* * * *
16926425 TCTAAATCATATAAACTAAAC
1 -CTAAATTATTTTAACAAAAC
16926446 CTAAATTATTTTAACAAAAC
1 CTAAATTATTTTAACAAAAC
16926466 C
1 C
16926467 CTAACCCTAA
Statistics
Matches: 33, Mismatches: 8, Indels: 1
0.79 0.19 0.02
Matches are distributed among these distances:
20 17 0.52
21 16 0.48
ACGTcount: A:0.50, C:0.18, G:0.00, T:0.32
Consensus pattern (20 bp):
CTAAATTATTTTAACAAAAC
Found at i:16926493 original size:15 final size:15
Alignment explanation
Indices: 16926461--16926494 Score: 50
Period size: 15 Copynumber: 2.3 Consensus size: 15
16926451 TTATTTTAAC
* *
16926461 AAAACCCTAACCCTA
1 AAAACCCTAAACCAA
16926476 AAAACCCTAAACCAA
1 AAAACCCTAAACCAA
16926491 AAAA
1 AAAA
16926495 TCTTAGGGAC
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
15 17 1.00
ACGTcount: A:0.59, C:0.32, G:0.00, T:0.09
Consensus pattern (15 bp):
AAAACCCTAAACCAA
Found at i:16926872 original size:30 final size:28
Alignment explanation
Indices: 16926820--16926891 Score: 76
Period size: 30 Copynumber: 2.5 Consensus size: 28
16926810 AATTATTAAA
*
16926820 ATATTTTATATATTTAAAATAAATTATATTAC
1 ATATTTTA-ATAATTAAAATAAA--AT-TTAC
*
16926852 AT-TTTTAATAATTAATATAAAATTTAC
1 ATATTTTAATAATTAAAATAAAATTTAC
16926879 ATATTTTAA-AATT
1 ATATTTTAATAATT
16926892 TAAACTCATA
Statistics
Matches: 37, Mismatches: 2, Indels: 7
0.80 0.04 0.15
Matches are distributed among these distances:
27 10 0.27
28 8 0.22
30 12 0.32
31 5 0.14
32 2 0.05
ACGTcount: A:0.47, C:0.03, G:0.00, T:0.50
Consensus pattern (28 bp):
ATATTTTAATAATTAAAATAAAATTTAC
Found at i:16927925 original size:27 final size:27
Alignment explanation
Indices: 16927887--16927940 Score: 108
Period size: 27 Copynumber: 2.0 Consensus size: 27
16927877 ATTTTTGACA
16927887 ATCACATCCTGTATTTTCATCAAAAGT
1 ATCACATCCTGTATTTTCATCAAAAGT
16927914 ATCACATCCTGTATTTTCATCAAAAGT
1 ATCACATCCTGTATTTTCATCAAAAGT
16927941 TAGATAAGTA
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
27 27 1.00
ACGTcount: A:0.33, C:0.22, G:0.07, T:0.37
Consensus pattern (27 bp):
ATCACATCCTGTATTTTCATCAAAAGT
Found at i:16928049 original size:32 final size:32
Alignment explanation
Indices: 16928008--16928072 Score: 103
Period size: 32 Copynumber: 2.0 Consensus size: 32
16927998 ATCTCGCTAG
*
16928008 TCTTCCAATTCGATTACGATCAATTGTGAATT
1 TCTTCCAATTCGATTACGATCAATCGTGAATT
* *
16928040 TCTTTCAATTCGATTATGATCAATCGTGAATT
1 TCTTCCAATTCGATTACGATCAATCGTGAATT
16928072 T
1 T
16928073 TGTCAAAACT
Statistics
Matches: 30, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
32 30 1.00
ACGTcount: A:0.28, C:0.17, G:0.12, T:0.43
Consensus pattern (32 bp):
TCTTCCAATTCGATTACGATCAATCGTGAATT
Found at i:16929060 original size:20 final size:18
Alignment explanation
Indices: 16929013--16929103 Score: 58
Period size: 17 Copynumber: 5.3 Consensus size: 18
16929003 GTAGATAAAC
16929013 ATTAAATTAA-ATTTAAT
1 ATTAAATTAATATTTAAT
16929030 ATTAAGA-TAATCACTTTAAT
1 ATTAA-ATTAAT-A-TTTAAT
16929050 ATTAAATTAATA---AA-
1 ATTAAATTAATATTTAAT
*
16929064 A-TACAATTAAGA--TAAGT
1 ATTA-AATTAATATTTAA-T
16929081 ATTAAATTAA-ATTTAAT
1 ATTAAATTAATATTTAAT
16929098 ATTAAA
1 ATTAAA
16929104 CTATTAAAAT
Statistics
Matches: 61, Mismatches: 1, Indels: 24
0.71 0.01 0.28
Matches are distributed among these distances:
13 2 0.03
14 8 0.13
15 4 0.07
16 1 0.02
17 22 0.36
18 6 0.10
19 3 0.05
20 15 0.25
ACGTcount: A:0.54, C:0.03, G:0.03, T:0.40
Consensus pattern (18 bp):
ATTAAATTAATATTTAAT
Found at i:16930837 original size:28 final size:28
Alignment explanation
Indices: 16930791--16930957 Score: 108
Period size: 28 Copynumber: 6.0 Consensus size: 28
16930781 GGCTGTGTGT
*
16930791 CCCTTG-TTTTCAAATTTTATAGTTTTG
1 CCCTTGTTTTTCAGATTTTATAGTTTTG
* *
16930818 CCCTTGTTTTTTAGATTTTAAAGTTTTG
1 CCCTTGTTTTTCAGATTTTATAGTTTTG
* * * **
16930846 CCTCTT-TTTTTTAGATTTTACAAATTTAC
1 CC-CTTGTTTTTCAGATTTTA-TAGTTTTG
** * *
16930875 CCCTAATTTTT-AGATTTTGTAATTTTG
1 CCCTTGTTTTTCAGATTTTATAGTTTTG
* * * *
16930902 -CCTCTATTTTCCAAATTTTATAGTTTTA
1 CCCT-TGTTTTTCAGATTTTATAGTTTTG
* * *
16930930 CCCCTGTTATTCATATTTTATAGTTTTG
1 CCCTTGTTTTTCAGATTTTATAGTTTTG
16930958 ACCTAGAATT
Statistics
Matches: 110, Mismatches: 23, Indels: 13
0.75 0.16 0.09
Matches are distributed among these distances:
26 3 0.03
27 16 0.15
28 74 0.67
29 17 0.15
ACGTcount: A:0.21, C:0.15, G:0.09, T:0.55
Consensus pattern (28 bp):
CCCTTGTTTTTCAGATTTTATAGTTTTG
Found at i:16930930 original size:56 final size:55
Alignment explanation
Indices: 16930797--16930934 Score: 143
Period size: 56 Copynumber: 2.5 Consensus size: 55
16930787 GTGTCCCTTG
* * ** *
16930797 TTTTCAAATTTTATAGTTTTGCCCTTGTTTTTTAGATTTTAAAGTTTTGCCTCTTT
1 TTTTCAAATTTTATAGTTTTACCCCTAATTTTTAGATTTTAAAGTTTTGCCTC-TA
* * * ** *
16930853 TTTTTAGATTTTACAAATTTACCCCTAATTTTTAGATTTTGTAA-TTTTGCCTCTA
1 TTTTCAAATTTTATAGTTTTACCCCTAATTTTTAGATTTT-AAAGTTTTGCCTCTA
16930908 TTTTCCAAATTTTATAGTTTTACCCCT
1 TTTT-CAAATTTTATAGTTTTACCCCT
16930935 GTTATTCATA
Statistics
Matches: 64, Mismatches: 16, Indels: 4
0.76 0.19 0.05
Matches are distributed among these distances:
55 5 0.08
56 57 0.89
57 2 0.03
ACGTcount: A:0.22, C:0.15, G:0.08, T:0.55
Consensus pattern (55 bp):
TTTTCAAATTTTATAGTTTTACCCCTAATTTTTAGATTTTAAAGTTTTGCCTCTA
Found at i:16931640 original size:85 final size:85
Alignment explanation
Indices: 16931480--16931642 Score: 236
Period size: 85 Copynumber: 1.9 Consensus size: 85
16931470 CTGCAAACAG
* * * *
16931480 TGTGGTTCGATTATGAACCAAGTGGCAATTTGTTTAATCTGCAAATATGTTGTGTACTCACAACA
1 TGTGGTTCAATCATGAACCAAGTGGCAATTTGTTTAATCTGCAAATATGTTGTGCACCCACAACA
** *
16931545 ACCGGTAGTAACTGAAAATA
66 AAAGGCAGTAACTGAAAATA
* * *
16931565 TGTGGTTCAATCATGAACCAAGTGGTAGTTTGTTTAATCTGTAAATATGTTGTGCACCCACAACA
1 TGTGGTTCAATCATGAACCAAGTGGCAATTTGTTTAATCTGCAAATATGTTGTGCACCCACAACA
16931630 AAAGGCAGTAACT
66 AAAGGCAGTAACT
16931643 ACAAATCAAT
Statistics
Matches: 68, Mismatches: 10, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
85 68 1.00
ACGTcount: A:0.33, C:0.16, G:0.20, T:0.31
Consensus pattern (85 bp):
TGTGGTTCAATCATGAACCAAGTGGCAATTTGTTTAATCTGCAAATATGTTGTGCACCCACAACA
AAAGGCAGTAACTGAAAATA
Found at i:16932145 original size:24 final size:21
Alignment explanation
Indices: 16932116--16932166 Score: 57
Period size: 24 Copynumber: 2.3 Consensus size: 21
16932106 TATTTAGCAT
16932116 GCATGACATTTAACTTAATTTAA
1 GCATGACATTTAA-TTAA-TTAA
**
16932139 GACATGATTTTTAATTAATTAA
1 G-CATGACATTTAATTAATTAA
16932161 GCATGA
1 GCATGA
16932167 AATATAGTTT
Statistics
Matches: 25, Mismatches: 2, Indels: 4
0.81 0.06 0.13
Matches are distributed among these distances:
21 5 0.20
22 5 0.20
23 5 0.20
24 10 0.40
ACGTcount: A:0.39, C:0.10, G:0.12, T:0.39
Consensus pattern (21 bp):
GCATGACATTTAATTAATTAA
Found at i:16932160 original size:22 final size:23
Alignment explanation
Indices: 16932124--16932166 Score: 63
Period size: 21 Copynumber: 1.9 Consensus size: 23
16932114 ATGCATGACA
16932124 TTTAACTTAATTTAAGACATGATT
1 TTTAACTTAATTTAAG-CATGATT
16932148 TTTAA-TTAA-TTAAGCATGA
1 TTTAACTTAATTTAAGCATGA
16932167 AATATAGTTT
Statistics
Matches: 19, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
21 5 0.26
22 5 0.26
23 4 0.21
24 5 0.26
ACGTcount: A:0.40, C:0.07, G:0.09, T:0.44
Consensus pattern (23 bp):
TTTAACTTAATTTAAGCATGATT
Found at i:16932218 original size:21 final size:19
Alignment explanation
Indices: 16932194--16932242 Score: 53
Period size: 22 Copynumber: 2.3 Consensus size: 19
16932184 TTAACTCGCT
16932194 ATTTTTCTGAAAATAAACTAA
1 ATTTTTCT-AAAATAAA-TAA
16932215 ATTTTCTTCTAAAATAAATAA
1 A-TTT-TTCTAAAATAAATAA
16932236 ATATTTT
1 AT-TTTT
16932243 AAATTGATCG
Statistics
Matches: 25, Mismatches: 0, Indels: 7
0.78 0.00 0.22
Matches are distributed among these distances:
20 3 0.12
21 7 0.28
22 11 0.44
23 4 0.16
ACGTcount: A:0.45, C:0.08, G:0.02, T:0.45
Consensus pattern (19 bp):
ATTTTTCTAAAATAAATAA
Found at i:16935955 original size:15 final size:15
Alignment explanation
Indices: 16935935--16935991 Score: 51
Period size: 15 Copynumber: 3.5 Consensus size: 15
16935925 ATTCAATATT
16935935 AATATTTTAATAATA
1 AATATTTTAATAATA
*
16935950 AATATTTATTACAATCATA
1 AATA-TT-TT--AATAATA
**
16935969 AATATACTAATAATA
1 AATATTTTAATAATA
16935984 AATATTTT
1 AATATTTT
16935992 GTAATATAAA
Statistics
Matches: 32, Mismatches: 6, Indels: 8
0.70 0.13 0.17
Matches are distributed among these distances:
15 16 0.50
16 2 0.06
17 3 0.09
18 1 0.03
19 10 0.31
ACGTcount: A:0.51, C:0.05, G:0.00, T:0.44
Consensus pattern (15 bp):
AATATTTTAATAATA
Found at i:16938041 original size:21 final size:22
Alignment explanation
Indices: 16938015--16938056 Score: 68
Period size: 21 Copynumber: 2.0 Consensus size: 22
16938005 ATAGTCAAAT
*
16938015 ATTAAGGTTTTTG-TTTTTTAC
1 ATTAAGGTTTTCGATTTTTTAC
16938036 ATTAAGGTTTTCGATTTTTTA
1 ATTAAGGTTTTCGATTTTTTA
16938057 TTGCATTATT
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
21 12 0.63
22 7 0.37
ACGTcount: A:0.21, C:0.05, G:0.14, T:0.60
Consensus pattern (22 bp):
ATTAAGGTTTTCGATTTTTTAC
Found at i:16941159 original size:44 final size:42
Alignment explanation
Indices: 16941108--16941223 Score: 116
Period size: 44 Copynumber: 2.7 Consensus size: 42
16941098 ACATATAAAC
*
16941108 AATATATATATAAGTAATTAATAAATATAATATATGAAAATAT
1 AATATATATATAAGTAATTAATAAATATAATATAAGAAAA-AT
* *
16941151 AATAATATATAAAAG-AGATGT-A-AAATAATAATTTAAGAAAAAT
1 AAT-ATATATATAAGTA-AT-TAATAAAT-ATAATATAAGAAAAAT
16941194 AATATATA-ATAAGTAA-TAATAATATATAAT
1 AATATATATATAAGTAATTAATAA-ATATAAT
16941224 TAAAAATAAT
Statistics
Matches: 61, Mismatches: 4, Indels: 18
0.73 0.05 0.22
Matches are distributed among these distances:
39 1 0.02
40 1 0.02
41 12 0.20
42 8 0.13
43 13 0.21
44 25 0.41
45 1 0.02
ACGTcount: A:0.60, C:0.00, G:0.06, T:0.34
Consensus pattern (42 bp):
AATATATATATAAGTAATTAATAAATATAATATAAGAAAAAT
Found at i:16941222 original size:10 final size:10
Alignment explanation
Indices: 16941191--16941223 Score: 50
Period size: 10 Copynumber: 3.3 Consensus size: 10
16941181 ATTTAAGAAA
16941191 AATAATATAT
1 AATAATATAT
16941201 AATAAGTA-AT
1 AATAA-TATAT
16941211 AATAATATAT
1 AATAATATAT
16941221 AAT
1 AAT
16941224 TAAAAATAAT
Statistics
Matches: 21, Mismatches: 0, Indels: 4
0.84 0.00 0.16
Matches are distributed among these distances:
9 2 0.10
10 17 0.81
11 2 0.10
ACGTcount: A:0.61, C:0.00, G:0.03, T:0.36
Consensus pattern (10 bp):
AATAATATAT
Found at i:16941222 original size:17 final size:18
Alignment explanation
Indices: 16941191--16941234 Score: 56
Period size: 17 Copynumber: 2.6 Consensus size: 18
16941181 ATTTAAGAAA
16941191 AATAAT-ATATAATAAGT
1 AATAATAATATAATAAGT
*
16941208 AATAATAATAT-ATAATT
1 AATAATAATATAATAAGT
*
16941225 AAAAATAATA
1 AATAATAATA
16941235 CTTATAACAA
Statistics
Matches: 24, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
17 20 0.83
18 4 0.17
ACGTcount: A:0.64, C:0.00, G:0.02, T:0.34
Consensus pattern (18 bp):
AATAATAATATAATAAGT
Found at i:16941231 original size:20 final size:21
Alignment explanation
Indices: 16941149--16941234 Score: 78
Period size: 20 Copynumber: 4.3 Consensus size: 21
16941139 ATATGAAAAT
16941149 ATAATAATATATAA--AAGAGA
1 ATAATAATATATAATTAAGA-A
*
16941169 TGTAA-AATA-ATAATTTAAGAA
1 -ATAATAATATATAA-TTAAGAA
*
16941190 A-AATAATATATAA-TAAGTA
1 ATAATAATATATAATTAAGAA
16941209 ATAATAATATATAATTAA-AA
1 ATAATAATATATAATTAAGAA
16941229 ATAATA
1 ATAATA
16941235 CTTATAACAA
Statistics
Matches: 54, Mismatches: 4, Indels: 15
0.74 0.05 0.21
Matches are distributed among these distances:
19 12 0.22
20 27 0.50
21 11 0.20
22 4 0.07
ACGTcount: A:0.63, C:0.00, G:0.06, T:0.31
Consensus pattern (21 bp):
ATAATAATATATAATTAAGAA
Found at i:16941289 original size:42 final size:42
Alignment explanation
Indices: 16941212--16941291 Score: 108
Period size: 42 Copynumber: 1.9 Consensus size: 42
16941202 ATAAGTAATA
* *
16941212 ATAATATATAATTAAAAATAATACTTATAACAAAACAATTTT
1 ATAATATATAATTAAAAATAATAATTAGAACAAAACAATTTT
* *
16941254 ATAATATATAATATAAAAGTAA-AATTAGAATAAAACAA
1 ATAATATATAAT-TAAAAATAATAATTAGAACAAAACAA
16941292 ATAAAATATA
Statistics
Matches: 33, Mismatches: 4, Indels: 2
0.85 0.10 0.05
Matches are distributed among these distances:
42 25 0.76
43 8 0.24
ACGTcount: A:0.61, C:0.05, G:0.03, T:0.31
Consensus pattern (42 bp):
ATAATATATAATTAAAAATAATAATTAGAACAAAACAATTTT
Found at i:16948378 original size:23 final size:26
Alignment explanation
Indices: 16948320--16948381 Score: 76
Period size: 23 Copynumber: 2.5 Consensus size: 26
16948310 TACAAGGACT
16948320 TATGACATATTTTAACCTAGTATAAAA
1 TATGA-ATATTTTAACCTAGTATAAAA
* *
16948347 CATGAATATTTTAA-TTA-TAT-AAA
1 TATGAATATTTTAACCTAGTATAAAA
16948370 TATGAATATTTT
1 TATGAATATTTT
16948382 TTTAAATAAT
Statistics
Matches: 32, Mismatches: 3, Indels: 4
0.82 0.08 0.10
Matches are distributed among these distances:
23 14 0.44
24 3 0.09
25 2 0.06
26 9 0.28
27 4 0.12
ACGTcount: A:0.44, C:0.06, G:0.06, T:0.44
Consensus pattern (26 bp):
TATGAATATTTTAACCTAGTATAAAA
Found at i:16952165 original size:16 final size:16
Alignment explanation
Indices: 16952136--16952191 Score: 71
Period size: 16 Copynumber: 3.5 Consensus size: 16
16952126 GTTAACTTGT
16952136 TTTATTTTTAAAATATTA
1 TTTA-TTTT-AAATATTA
16952154 TTTATTTTAAATATTA
1 TTTATTTTAAATATTA
*
16952170 TTTATATT--ATATTA
1 TTTATTTTAAATATTA
16952184 TTTATTTT
1 TTTATTTT
16952192 TAATTATAAA
Statistics
Matches: 36, Mismatches: 2, Indels: 4
0.86 0.05 0.10
Matches are distributed among these distances:
14 13 0.36
16 15 0.42
17 4 0.11
18 4 0.11
ACGTcount: A:0.34, C:0.00, G:0.00, T:0.66
Consensus pattern (16 bp):
TTTATTTTAAATATTA
Found at i:16952197 original size:14 final size:15
Alignment explanation
Indices: 16952148--16952198 Score: 61
Period size: 14 Copynumber: 3.5 Consensus size: 15
16952138 TATTTTTAAA
*
16952148 ATATTATTTATTTTAA
1 ATATTATTTATTTT-T
*
16952164 ATATTATTTA-TATT
1 ATATTATTTATTTTT
16952178 ATATTATTTATTTTT
1 ATATTATTTATTTTT
16952193 A-ATTAT
1 ATATTAT
16952199 AAAGAATAAT
Statistics
Matches: 31, Mismatches: 3, Indels: 4
0.82 0.08 0.11
Matches are distributed among these distances:
14 15 0.48
15 6 0.19
16 10 0.32
ACGTcount: A:0.35, C:0.00, G:0.00, T:0.65
Consensus pattern (15 bp):
ATATTATTTATTTTT
Found at i:16954454 original size:24 final size:24
Alignment explanation
Indices: 16954417--16954464 Score: 78
Period size: 24 Copynumber: 2.0 Consensus size: 24
16954407 CTTTCCAATA
16954417 TTTAGCTATCATGAGCTTCTCGAT
1 TTTAGCTATCATGAGCTTCTCGAT
* *
16954441 TTTAGCTCTTATGAGCTTCTCGAT
1 TTTAGCTATCATGAGCTTCTCGAT
16954465 AGACAGCTCG
Statistics
Matches: 22, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
24 22 1.00
ACGTcount: A:0.19, C:0.21, G:0.17, T:0.44
Consensus pattern (24 bp):
TTTAGCTATCATGAGCTTCTCGAT
Found at i:16954497 original size:25 final size:25
Alignment explanation
Indices: 16954426--16954539 Score: 90
Period size: 25 Copynumber: 4.6 Consensus size: 25
16954416 ATTTAGCTAT
* *
16954426 CATGAGCTTCTCGATT-T-TAGCTCT
1 CATGAGCTTCCCG-TTATATAGCTCG
* * * * *
16954450 TATGAGCTTCTCGATAGACAGCTCG
1 CATGAGCTTCCCGTTATATAGCTCG
* * *
16954475 CATGAGCTTCCTGTTATTTAGCTCA
1 CATGAGCTTCCCGTTATATAGCTCG
16954500 CATGAGCTTCCCGTTATATAGCTCG
1 CATGAGCTTCCCGTTATATAGCTCG
*
16954525 -GTAGAGCTTCCCGTT
1 CAT-GAGCTTCCCGTT
16954540 TACATGCTCA
Statistics
Matches: 70, Mismatches: 17, Indels: 5
0.76 0.18 0.05
Matches are distributed among these distances:
23 1 0.01
24 13 0.19
25 56 0.80
ACGTcount: A:0.19, C:0.25, G:0.20, T:0.35
Consensus pattern (25 bp):
CATGAGCTTCCCGTTATATAGCTCG
Found at i:16954556 original size:25 final size:25
Alignment explanation
Indices: 16954443--16954556 Score: 79
Period size: 25 Copynumber: 4.6 Consensus size: 25
16954433 TTCTCGATTT
* * * *
16954443 TAGCTCTTATGAGCTTCTCGATAGA
1 TAGCTCATATGAGCTTCCCGTTACA
* ** * **
16954468 CAGCTCGCATGAGCTTCCTGTTATT
1 TAGCTCATATGAGCTTCCCGTTACA
* *
16954493 TAGCTCACATGAGCTTCCCGTTATA
1 TAGCTCATATGAGCTTCCCGTTACA
*
16954518 TAGCTCGGTA-GAGCTTCCCGTTTACA
1 TAGCTC-ATATGAGCTTCCCG-TTACA
16954544 T-GCTCATATGAGC
1 TAGCTCATATGAGC
16954557 ATACATGTAC
Statistics
Matches: 70, Mismatches: 16, Indels: 6
0.76 0.17 0.07
Matches are distributed among these distances:
24 2 0.03
25 62 0.89
26 6 0.09
ACGTcount: A:0.21, C:0.25, G:0.20, T:0.33
Consensus pattern (25 bp):
TAGCTCATATGAGCTTCCCGTTACA
Found at i:16955053 original size:33 final size:33
Alignment explanation
Indices: 16955011--16955077 Score: 100
Period size: 33 Copynumber: 2.0 Consensus size: 33
16955001 AGCTGGTCGG
*
16955011 AGCTGAATCACACTATCCATC-GACTCCTTTGGT
1 AGCTGAATCACACTATCCATCTGA-TCATTTGGT
*
16955044 AGCTGAATCATACTATCCATCTGATCATTTGGT
1 AGCTGAATCACACTATCCATCTGATCATTTGGT
16955077 A
1 A
16955078 TTTTCAATAA
Statistics
Matches: 31, Mismatches: 2, Indels: 2
0.89 0.06 0.06
Matches are distributed among these distances:
33 29 0.94
34 2 0.06
ACGTcount: A:0.27, C:0.25, G:0.15, T:0.33
Consensus pattern (33 bp):
AGCTGAATCACACTATCCATCTGATCATTTGGT
Found at i:16961271 original size:26 final size:26
Alignment explanation
Indices: 16961240--16961347 Score: 189
Period size: 26 Copynumber: 4.2 Consensus size: 26
16961230 TGAAATGCCC
*
16961240 ATCATGGAACATTTACCTAAACCATT
1 ATCATGGAACATTTACCTAACCCATT
16961266 ATCATGGAACATTTACCTAACCCATT
1 ATCATGGAACATTTACCTAACCCATT
* *
16961292 ATCATGGAATATTTACCTAATCCATT
1 ATCATGGAACATTTACCTAACCCATT
16961318 ATCATGGAACATTTACCTAACCCATT
1 ATCATGGAACATTTACCTAACCCATT
16961344 ATCA
1 ATCA
16961348 ATTTGTACCA
Statistics
Matches: 77, Mismatches: 5, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
26 77 1.00
ACGTcount: A:0.36, C:0.24, G:0.07, T:0.32
Consensus pattern (26 bp):
ATCATGGAACATTTACCTAACCCATT
Found at i:16967642 original size:13 final size:13
Alignment explanation
Indices: 16967626--16967652 Score: 54
Period size: 13 Copynumber: 2.1 Consensus size: 13
16967616 ACATTATGCA
16967626 AACAAATGGTTTT
1 AACAAATGGTTTT
16967639 AACAAATGGTTTT
1 AACAAATGGTTTT
16967652 A
1 A
16967653 TTTAAACACG
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 14 1.00
ACGTcount: A:0.41, C:0.07, G:0.15, T:0.37
Consensus pattern (13 bp):
AACAAATGGTTTT
Found at i:16968332 original size:16 final size:16
Alignment explanation
Indices: 16968303--16968350 Score: 60
Period size: 16 Copynumber: 2.9 Consensus size: 16
16968293 GTTAACTTGT
16968303 TTTATTTTTAAAATATTA
1 TTTA-TTTT-AAATATTA
16968321 TTTATTTTAAATATTA
1 TTTATTTTAAATATTA
* *
16968337 CTTATATTAAATAT
1 TTTATTTTAAATAT
16968351 GTTATATATA
Statistics
Matches: 28, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
16 20 0.71
17 4 0.14
18 4 0.14
ACGTcount: A:0.40, C:0.02, G:0.00, T:0.58
Consensus pattern (16 bp):
TTTATTTTAAATATTA
Found at i:16968714 original size:11 final size:11
Alignment explanation
Indices: 16968700--16968748 Score: 64
Period size: 11 Copynumber: 4.4 Consensus size: 11
16968690 ATTTTTCTTC
16968700 ATATTTTTTAA
1 ATATTTTTTAA
16968711 ATATTTTTTTAA
1 ATA-TTTTTTAA
*
16968723 ATAATTTTTAA
1 ATATTTTTTAA
16968734 A-ATTCTTTTAA
1 ATATT-TTTTAA
16968745 ATAT
1 ATAT
16968749 ATACTAACAT
Statistics
Matches: 33, Mismatches: 2, Indels: 5
0.82 0.05 0.12
Matches are distributed among these distances:
10 2 0.06
11 18 0.55
12 13 0.39
ACGTcount: A:0.39, C:0.02, G:0.00, T:0.59
Consensus pattern (11 bp):
ATATTTTTTAA
Found at i:16968719 original size:13 final size:13
Alignment explanation
Indices: 16968703--16968731 Score: 51
Period size: 12 Copynumber: 2.3 Consensus size: 13
16968693 TTTCTTCATA
16968703 TTTTTTAAAT-AT
1 TTTTTTAAATAAT
16968715 TTTTTTAAATAAT
1 TTTTTTAAATAAT
16968728 TTTT
1 TTTT
16968732 AAAATTCTTT
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
12 10 0.62
13 6 0.38
ACGTcount: A:0.31, C:0.00, G:0.00, T:0.69
Consensus pattern (13 bp):
TTTTTTAAATAAT
Found at i:16973751 original size:20 final size:20
Alignment explanation
Indices: 16973715--16973775 Score: 65
Period size: 19 Copynumber: 3.1 Consensus size: 20
16973705 AAAAGTTAGA
16973715 AAAAACTAAAAGT--TTAAAT
1 AAAAACTAAAA-TAATTAAAT
16973734 AAAAACTAAAATAATTAAA-
1 AAAAACTAAAATAATTAAAT
* * *
16973753 AAAAATTTAAATAACTAAAT
1 AAAAACTAAAATAATTAAAT
16973773 AAA
1 AAA
16973776 TTATTGTAAA
Statistics
Matches: 36, Mismatches: 3, Indels: 5
0.82 0.07 0.11
Matches are distributed among these distances:
18 1 0.03
19 27 0.75
20 8 0.22
ACGTcount: A:0.69, C:0.05, G:0.02, T:0.25
Consensus pattern (20 bp):
AAAAACTAAAATAATTAAAT
Found at i:16974221 original size:24 final size:24
Alignment explanation
Indices: 16974192--16974243 Score: 95
Period size: 24 Copynumber: 2.2 Consensus size: 24
16974182 TTAAACTATT
*
16974192 ATATTTAATAATTATTATGTTAAA
1 ATATTTAATAATAATTATGTTAAA
16974216 ATATTTAATAATAATTATGTTAAA
1 ATATTTAATAATAATTATGTTAAA
16974240 ATAT
1 ATAT
16974244 GGTTAAACTA
Statistics
Matches: 27, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
24 27 1.00
ACGTcount: A:0.48, C:0.00, G:0.04, T:0.48
Consensus pattern (24 bp):
ATATTTAATAATAATTATGTTAAA
Found at i:16983678 original size:26 final size:26
Alignment explanation
Indices: 16983627--16983698 Score: 76
Period size: 28 Copynumber: 2.7 Consensus size: 26
16983617 TTTTAATCCT
**
16983627 TTTTTATTT-TAAATATTTTTTA-TA
1 TTTTTATTTATAAATATTAGTTATTA
16983651 TTATTTATTTTTATAAATATTAGTTATTA
1 TT-TTTA--TTTATAAATATTAGTTATTA
*
16983680 TTTTTATTTATATATATTA
1 TTTTTATTTATAAATATTA
16983699 TCCATTATAT
Statistics
Matches: 40, Mismatches: 3, Indels: 8
0.78 0.06 0.16
Matches are distributed among these distances:
24 2 0.05
25 4 0.10
26 12 0.30
27 3 0.08
28 15 0.38
29 4 0.10
ACGTcount: A:0.32, C:0.00, G:0.01, T:0.67
Consensus pattern (26 bp):
TTTTTATTTATAAATATTAGTTATTA
Found at i:16983699 original size:22 final size:22
Alignment explanation
Indices: 16983647--16983699 Score: 63
Period size: 22 Copynumber: 2.4 Consensus size: 22
16983637 AAATATTTTT
16983647 TATATTATTTATTTTTATAAATA
1 TATATTA-TTATTTTTATAAATA
**
16983670 T-TAGTTATTATTTTTATTTATA
1 TATA-TTATTATTTTTATAAATA
16983692 TATATTAT
1 TATATTAT
16983700 CCATTATATT
Statistics
Matches: 26, Mismatches: 2, Indels: 5
0.79 0.06 0.15
Matches are distributed among these distances:
22 20 0.77
23 6 0.23
ACGTcount: A:0.34, C:0.00, G:0.02, T:0.64
Consensus pattern (22 bp):
TATATTATTATTTTTATAAATA
Found at i:16983705 original size:26 final size:26
Alignment explanation
Indices: 16983650--16983711 Score: 65
Period size: 26 Copynumber: 2.3 Consensus size: 26
16983640 TATTTTTTAT
*
16983650 ATTATTTATTTTTATAAATATTAGTT
1 ATTATTTATTTTTATAAATATTAGTC
*
16983676 ATTATTT-TTATTTATATATATTA-TCC
1 ATTATTTATT-TTTATAAATATTAGT-C
16983702 ATTATATTAT
1 ATTAT-TTAT
16983712 ATTATTGTAT
Statistics
Matches: 30, Mismatches: 2, Indels: 6
0.79 0.05 0.16
Matches are distributed among these distances:
25 3 0.10
26 24 0.80
27 2 0.07
28 1 0.03
ACGTcount: A:0.34, C:0.03, G:0.02, T:0.61
Consensus pattern (26 bp):
ATTATTTATTTTTATAAATATTAGTC
Found at i:16984011 original size:20 final size:20
Alignment explanation
Indices: 16983983--16984020 Score: 51
Period size: 19 Copynumber: 1.9 Consensus size: 20
16983973 GTTAATTATT
*
16983983 ATATATATATATGTTTTTTAA
1 ATATATATAAAT-TTTTTTAA
16984004 ATAT-TATAAATTTTTTT
1 ATATATATAAATTTTTTT
16984021 CTCCGCTTCA
Statistics
Matches: 16, Mismatches: 1, Indels: 2
0.84 0.05 0.11
Matches are distributed among these distances:
19 6 0.38
20 6 0.38
21 4 0.25
ACGTcount: A:0.37, C:0.00, G:0.03, T:0.61
Consensus pattern (20 bp):
ATATATATAAATTTTTTTAA
Found at i:16985436 original size:136 final size:136
Alignment explanation
Indices: 16985185--16985480 Score: 376
Period size: 136 Copynumber: 2.2 Consensus size: 136
16985175 CCAGATTGAA
* * * * *
16985185 CTCATGTTTAATGTCTCGGGGGACTTTTTATGATGCCATAGTCAAGCTATGGTCTTACATAATTG
1 CTCATATTTAATGTCTCGGGGGACTCTTTATAATGCCATAGTCAAGCTATGATCTTACACAATTG
* ** * *
16985250 AATGCCCATGTTTACTGTCTTGACGGACAACCTATGTTGCCAAGGTCAAGCCAAGGCCTTACACC
66 AATGCCCATGTTTACTATCCCGACGAACAACCTATGTTGCCAAGGCCAAGCCAAGGCCTTACACC
16985315 TAAAAT
131 TAAAAT
* * *
16985321 CTCATATTTAATGTCTTGGTGGACTCTTTATAATGCCATAGTCGAGCTATGATCTTACACAATTG
1 CTCATATTTAATGTCTCGGGGGACTCTTTATAATGCCATAGTCAAGCTATGATCTTACACAATTG
* * * * * * * *
16985386 AATGCTCGTGTTTACTATCCCGATGAACTACCTATGTTGCCATGGCCAAGCCAGGGTCTTACACT
66 AATGCCCATGTTTACTATCCCGACGAACAACCTATGTTGCCAAGGCCAAGCCAAGGCCTTACACC
*
16985451 TGAAAT
131 TAAAAT
* *
16985457 CTCATATTTAATATCTCGGCGGAC
1 CTCATATTTAATGTCTCGGGGGAC
16985481 ATCCCCGTGT
Statistics
Matches: 135, Mismatches: 25, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
136 135 1.00
ACGTcount: A:0.26, C:0.22, G:0.19, T:0.33
Consensus pattern (136 bp):
CTCATATTTAATGTCTCGGGGGACTCTTTATAATGCCATAGTCAAGCTATGATCTTACACAATTG
AATGCCCATGTTTACTATCCCGACGAACAACCTATGTTGCCAAGGCCAAGCCAAGGCCTTACACC
TAAAAT
Found at i:16986672 original size:13 final size:12
Alignment explanation
Indices: 16986652--16986693 Score: 50
Period size: 14 Copynumber: 3.3 Consensus size: 12
16986642 ATTAAGTTAG
16986652 TTAA-ATATATT
1 TTAATATATATT
16986663 TATAATATATTATT
1 T-TAATATA-TATT
16986677 TTAAATATATATT
1 TT-AATATATATT
16986690 TTAA
1 TTAA
16986694 ATAATTTAGT
Statistics
Matches: 27, Mismatches: 0, Indels: 7
0.79 0.00 0.21
Matches are distributed among these distances:
11 1 0.04
12 5 0.19
13 10 0.37
14 11 0.41
ACGTcount: A:0.45, C:0.00, G:0.00, T:0.55
Consensus pattern (12 bp):
TTAATATATATT
Found at i:16986694 original size:13 final size:13
Alignment explanation
Indices: 16986652--16986696 Score: 58
Period size: 13 Copynumber: 3.5 Consensus size: 13
16986642 ATTAAGTTAG
16986652 TTAAATATAT-TT
1 TTAAATATATATT
*
16986664 AT-AATATATTATT
1 TTAAATATA-TATT
16986677 TTAAATATATATT
1 TTAAATATATATT
16986690 TTAAATA
1 TTAAATA
16986697 ATTTAGTTAA
Statistics
Matches: 28, Mismatches: 2, Indels: 5
0.80 0.06 0.14
Matches are distributed among these distances:
11 6 0.21
12 2 0.07
13 14 0.50
14 6 0.21
ACGTcount: A:0.47, C:0.00, G:0.00, T:0.53
Consensus pattern (13 bp):
TTAAATATATATT
Found at i:16986703 original size:51 final size:49
Alignment explanation
Indices: 16986613--16986714 Score: 116
Period size: 51 Copynumber: 2.0 Consensus size: 49
16986603 TTATTTTAAA
* *
16986613 TATAATTATATTTTATAATATATAAGTTGATTAAGTTAGTTAAATATATT
1 TATAATTATATTTTATAATATATAAGTTAAATAAGTTAGTTAAATA-ATT
** * *
16986663 TATAATATATTATTTTA-AATATATATTTTAAATAATTTAGTTAATTAATT
1 TATAAT-TA-TATTTTATAATATATAAGTTAAATAAGTTAGTTAAATAATT
16986713 TA
1 TA
16986715 ATTTATCAAA
Statistics
Matches: 44, Mismatches: 6, Indels: 4
0.81 0.11 0.07
Matches are distributed among these distances:
50 11 0.25
51 26 0.59
52 7 0.16
ACGTcount: A:0.43, C:0.00, G:0.05, T:0.52
Consensus pattern (49 bp):
TATAATTATATTTTATAATATATAAGTTAAATAAGTTAGTTAAATAATT
Found at i:16996697 original size:13 final size:13
Alignment explanation
Indices: 16996681--16996706 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
16996671 GTTTTGTGCT
16996681 GATATTTTTCTTA
1 GATATTTTTCTTA
16996694 GATATTTTTCTTA
1 GATATTTTTCTTA
16996707 TTTGAGTTGT
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:0.08, G:0.08, T:0.62
Consensus pattern (13 bp):
GATATTTTTCTTA
Found at i:16999697 original size:20 final size:20
Alignment explanation
Indices: 16999660--16999697 Score: 51
Period size: 20 Copynumber: 1.9 Consensus size: 20
16999650 CAAAATAATA
*
16999660 CTAAATAAATAAATATTTAT
1 CTAAATAAATAAAGATTTAT
16999680 CTAAAT-AATATAAGATTT
1 CTAAATAAATA-AAGATTT
16999698 TTTTTTTACA
Statistics
Matches: 16, Mismatches: 1, Indels: 2
0.84 0.05 0.11
Matches are distributed among these distances:
19 4 0.25
20 12 0.75
ACGTcount: A:0.53, C:0.05, G:0.03, T:0.39
Consensus pattern (20 bp):
CTAAATAAATAAAGATTTAT
Found at i:17001041 original size:18 final size:18
Alignment explanation
Indices: 17001018--17001070 Score: 61
Period size: 23 Copynumber: 2.7 Consensus size: 18
17001008 CGTCTAACTT
17001018 CTTGTCACACGGGTTCAG
1 CTTGTCACACGGGTTCAG
17001036 CTTGTCACATCACACGGGTTCAG
1 CTTG-----TCACACGGGTTCAG
17001059 CTTGTCACACGG
1 CTTGTCACACGG
17001071 TCGTGTGACC
Statistics
Matches: 30, Mismatches: 0, Indels: 10
0.75 0.00 0.25
Matches are distributed among these distances:
18 12 0.40
23 18 0.60
ACGTcount: A:0.19, C:0.30, G:0.25, T:0.26
Consensus pattern (18 bp):
CTTGTCACACGGGTTCAG
Found at i:17001048 original size:23 final size:23
Alignment explanation
Indices: 17001022--17001067 Score: 92
Period size: 23 Copynumber: 2.0 Consensus size: 23
17001012 TAACTTCTTG
17001022 TCACACGGGTTCAGCTTGTCACA
1 TCACACGGGTTCAGCTTGTCACA
17001045 TCACACGGGTTCAGCTTGTCACA
1 TCACACGGGTTCAGCTTGTCACA
17001068 CGGTCGTGTG
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
23 23 1.00
ACGTcount: A:0.22, C:0.30, G:0.22, T:0.26
Consensus pattern (23 bp):
TCACACGGGTTCAGCTTGTCACA
Found at i:17002133 original size:25 final size:25
Alignment explanation
Indices: 17002105--17002152 Score: 62
Period size: 25 Copynumber: 1.9 Consensus size: 25
17002095 TTTATCTTGC
17002105 TATTAAATTTAAT-TTAATATTAAGA
1 TATTAAATTTAATATTAA-ATTAAGA
* *
17002130 TATTCACTTTAATATTAAATTAA
1 TATTAAATTTAATATTAAATTAA
17002153 TAAAATAATA
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
25 16 0.80
26 4 0.20
ACGTcount: A:0.46, C:0.04, G:0.02, T:0.48
Consensus pattern (25 bp):
TATTAAATTTAATATTAAATTAAGA
Found at i:17002154 original size:11 final size:11
Alignment explanation
Indices: 17002138--17002189 Score: 56
Period size: 11 Copynumber: 4.9 Consensus size: 11
17002128 GATATTCACT
17002138 TTAATATTAAA
1 TTAATATTAAA
17002149 TTAATA--AAA
1 TTAATATTAAA
17002158 -TAATATTAAGA
1 TTAATATTAA-A
*
17002169 TAAATATTAAA
1 TTAATATTAAA
*
17002180 TTAATTTTAA
1 TTAATATTAA
17002190 TACTAAACTA
Statistics
Matches: 34, Mismatches: 3, Indels: 8
0.76 0.07 0.18
Matches are distributed among these distances:
8 5 0.15
9 3 0.09
10 2 0.06
11 16 0.47
12 8 0.24
ACGTcount: A:0.56, C:0.00, G:0.02, T:0.42
Consensus pattern (11 bp):
TTAATATTAAA
Found at i:17004586 original size:51 final size:49
Alignment explanation
Indices: 17004457--17004600 Score: 191
Period size: 51 Copynumber: 2.9 Consensus size: 49
17004447 TATTGTGAGG
* * * *
17004457 TCACGTGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGATTATTGG
1 TCACGTGTGTAGTACTAAGTGCAGGCTACTATGCGTACCAGATAATTGA
* * *
17004506 TCGCATGTGTGGTACTAAGTGCAGGCTACTATGCGTACTC-GATAACTTCGA
1 TCACGTGTGTAGTACTAAGTGCAGGCTACTATGCGTAC-CAGATAA-TT-GA
17004557 TCACGTGTGTAGTACTAAGTGCAGGCTACTATGCGTACCAGATA
1 TCACGTGTGTAGTACTAAGTGCAGGCTACTATGCGTACCAGATA
17004601 GCTTTGGCTA
Statistics
Matches: 81, Mismatches: 10, Indels: 6
0.84 0.10 0.06
Matches are distributed among these distances:
49 37 0.46
50 4 0.05
51 40 0.49
ACGTcount: A:0.25, C:0.20, G:0.26, T:0.29
Consensus pattern (49 bp):
TCACGTGTGTAGTACTAAGTGCAGGCTACTATGCGTACCAGATAATTGA
Found at i:17006485 original size:20 final size:20
Alignment explanation
Indices: 17006462--17006525 Score: 53
Period size: 20 Copynumber: 3.2 Consensus size: 20
17006452 GTTACTCGAA
17006462 ATGAATGACATGATTGAGAT
1 ATGAATGACATGATTGAGAT
* *
17006482 ATGATTG-CTATGA-TGA-AA
1 ATGAATGAC-ATGATTGAGAT
*
17006500 ACTGTGATGACATGATTGAGAT
1 A-TG-AATGACATGATTGAGAT
17006522 ATGA
1 ATGA
17006526 TTGTTATGAT
Statistics
Matches: 32, Mismatches: 6, Indels: 12
0.64 0.12 0.24
Matches are distributed among these distances:
18 2 0.06
19 6 0.19
20 16 0.50
21 6 0.19
22 2 0.06
ACGTcount: A:0.38, C:0.06, G:0.25, T:0.31
Consensus pattern (20 bp):
ATGAATGACATGATTGAGAT
Found at i:17006510 original size:40 final size:40
Alignment explanation
Indices: 17006466--17006545 Score: 151
Period size: 40 Copynumber: 2.0 Consensus size: 40
17006456 CTCGAAATGA
17006466 ATGACATGATTGAGATATGATTGCTATGATGAAAACTGTG
1 ATGACATGATTGAGATATGATTGCTATGATGAAAACTGTG
*
17006506 ATGACATGATTGAGATATGATTGTTATGATGAAAACTGTG
1 ATGACATGATTGAGATATGATTGCTATGATGAAAACTGTG
17006546 TTATATAAAG
Statistics
Matches: 39, Mismatches: 1, Indels: 0
0.98 0.03 0.00
Matches are distributed among these distances:
40 39 1.00
ACGTcount: A:0.35, C:0.06, G:0.25, T:0.34
Consensus pattern (40 bp):
ATGACATGATTGAGATATGATTGCTATGATGAAAACTGTG
Found at i:17006534 original size:20 final size:20
Alignment explanation
Indices: 17006471--17006535 Score: 53
Period size: 20 Copynumber: 3.2 Consensus size: 20
17006461 AATGAATGAC
*
17006471 ATGATTGAGATATGATTGCT
1 ATGATTGAGATATGATTGAT
* * *
17006491 ATGA-TGAAAACTGTGA-TGAC
1 ATGATTG-AGA-TATGATTGAT
*
17006511 ATGATTGAGATATGATTGTT
1 ATGATTGAGATATGATTGAT
17006531 ATGAT
1 ATGAT
17006536 GAAAACTGTG
Statistics
Matches: 33, Mismatches: 8, Indels: 8
0.67 0.16 0.16
Matches are distributed among these distances:
19 6 0.18
20 21 0.64
21 6 0.18
ACGTcount: A:0.34, C:0.05, G:0.25, T:0.37
Consensus pattern (20 bp):
ATGATTGAGATATGATTGAT
Found at i:17007240 original size:26 final size:27
Alignment explanation
Indices: 17007211--17007261 Score: 68
Period size: 27 Copynumber: 1.9 Consensus size: 27
17007201 TCACTTCACT
* *
17007211 TAACTCTT-AGTTTTTTTTTTCAAAAA
1 TAACTCTTAAATTTTCTTTTTCAAAAA
*
17007237 TAACTTTTAAATTTTCTTTTTCAAA
1 TAACTCTTAAATTTTCTTTTTCAAA
17007262 CTTATCCAAA
Statistics
Matches: 21, Mismatches: 3, Indels: 1
0.84 0.12 0.04
Matches are distributed among these distances:
26 7 0.33
27 14 0.67
ACGTcount: A:0.31, C:0.12, G:0.02, T:0.55
Consensus pattern (27 bp):
TAACTCTTAAATTTTCTTTTTCAAAAA
Done.