Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Gbar_A06
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: 115140250
ACGTcount: A:0.32, C:0.17, G:0.17, T:0.32
Warning! 2234201 characters in sequence are not A, C, G, or T
File 85 of 345
Found at i:28034645 original size:22 final size:22
Alignment explanation
Indices: 28034617--28034691 Score: 60
Period size: 22 Copynumber: 3.3 Consensus size: 22
28034607 GTGTATGTAT
28034617 ATGTGATAAGGCCTAATGGCCG
1 ATGTGATAAGGCCTAATGGCCG
* *** ****
28034639 ATGTGATGAATGTGAAATGTATAT
1 ATGTGAT-AAGGCCTAATG-GCCG
28034663 ATGTGATAAGGCCTAATGGCCG
1 ATGTGATAAGGCCTAATGGCCG
28034685 ATGTGAT
1 ATGTGAT
28034692 GAATGTGAAA
Statistics
Matches: 35, Mismatches: 16, Indels: 4
0.64 0.29 0.07
Matches are distributed among these distances:
22 14 0.40
23 14 0.40
24 7 0.20
ACGTcount: A:0.31, C:0.11, G:0.29, T:0.29
Consensus pattern (22 bp):
ATGTGATAAGGCCTAATGGCCG
Found at i:28034667 original size:24 final size:24
Alignment explanation
Indices: 28034639--28034712 Score: 62
Period size: 23 Copynumber: 3.2 Consensus size: 24
28034629 CTAATGGCCG
28034639 ATGTGATGAATGTGAAATGTATAT
1 ATGTGATGAATGTGAAATGTATAT
* *** ****
28034663 ATGTGAT-AAGGCCTAATG-GCCG
1 ATGTGATGAATGTGAAATGTATAT
28034685 ATGTGATGAATGTGAAATGTATAT
1 ATGTGATGAATGTGAAATGTATAT
28034709 ATGT
1 ATGT
28034713 AATAAGGCCT
Statistics
Matches: 32, Mismatches: 16, Indels: 4
0.62 0.31 0.08
Matches are distributed among these distances:
22 7 0.22
23 14 0.44
24 11 0.34
ACGTcount: A:0.34, C:0.05, G:0.27, T:0.34
Consensus pattern (24 bp):
ATGTGATGAATGTGAAATGTATAT
Found at i:28034771 original size:47 final size:47
Alignment explanation
Indices: 28034562--28035000 Score: 677
Period size: 47 Copynumber: 9.4 Consensus size: 47
28034552 AGAGAATGTA
*
28034562 TGTATGTATGT-ATAAGGCCTAATGGCCGATGTGATGAATGTGAAAG
1 TGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAG
28034608 TGTATGTATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAA-
1 TGTA--TATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAG
28034656 TGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAA-
1 TGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAG
* *
28034702 TGTATATATGTAATAAGGCCTAATAGCCGATGTGATGAATGTGAAAG
1 TGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAG
* *
28034749 TGTATATGTGTGATAAGGCCTAATAGCCGATGTGATGAATGTGAAAG
1 TGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAG
* *
28034796 TGTATATGTGTGATAAGGCCTAATAGCCGATGTGATGAATGTGAAAG
1 TGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAG
*
28034843 TGTATATATGTGATAAGGCCTAATGGCCGATGCGATGAATGTGAAAG
1 TGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAG
28034890 TGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAG
1 TGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAG
* * * * * * * *
28034937 TGTATATATGTGACAGGGCCGAGTGGCCAACGTAATGGATGTGAAAG
1 TGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAG
* *
28034984 TGCATAAATGTGATAAG
1 TGTATATATGTGATAAG
28035001 TCCCGAAAGG
Statistics
Matches: 368, Mismatches: 21, Indels: 7
0.93 0.05 0.02
Matches are distributed among these distances:
46 90 0.24
47 234 0.64
48 10 0.03
49 34 0.09
ACGTcount: A:0.32, C:0.09, G:0.29, T:0.29
Consensus pattern (47 bp):
TGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAG
Found at i:28035174 original size:36 final size:37
Alignment explanation
Indices: 28035119--28035196 Score: 113
Period size: 36 Copynumber: 2.1 Consensus size: 37
28035109 CCGAGCTCTA
* * *
28035119 AAGACCCGATGACTACGTGTGGGGATTTTGTCC-GGT
1 AAGACCCGATAACTACGTGTGGAGATTATGTCCGGGT
*
28035155 AAGACCCGATAACTTCGTGTGGAGATTATGTCCGGGT
1 AAGACCCGATAACTACGTGTGGAGATTATGTCCGGGT
28035192 AAGAC
1 AAGAC
28035197 TTCGTAATAA
Statistics
Matches: 37, Mismatches: 4, Indels: 1
0.88 0.10 0.02
Matches are distributed among these distances:
36 29 0.78
37 8 0.22
ACGTcount: A:0.24, C:0.19, G:0.31, T:0.26
Consensus pattern (37 bp):
AAGACCCGATAACTACGTGTGGAGATTATGTCCGGGT
Found at i:28037094 original size:43 final size:43
Alignment explanation
Indices: 28037046--28037189 Score: 274
Period size: 43 Copynumber: 3.4 Consensus size: 43
28037036 TTGGTTTTCA
28037046 GCACTAAGTGTGCGGGCAATAAGTGTTCACGGTTGTGAGATTG
1 GCACTAAGTGTGCGGGCAATAAGTGTTCACGGTTGTGAGATTG
28037089 GCACTAAGTGTGCGGGCAATAAGTGTT--CGGTTGTGAGATTG
1 GCACTAAGTGTGCGGGCAATAAGTGTTCACGGTTGTGAGATTG
28037130 GCACTAAGTGTGCGGGCAATAAGTGTTCACGGTTGTGAGATTG
1 GCACTAAGTGTGCGGGCAATAAGTGTTCACGGTTGTGAGATTG
28037173 GCACTAAGTGTGCGGGC
1 GCACTAAGTGTGCGGGC
28037190 TTGAAATGCA
Statistics
Matches: 99, Mismatches: 0, Indels: 4
0.96 0.00 0.04
Matches are distributed among these distances:
41 41 0.41
43 58 0.59
ACGTcount: A:0.22, C:0.15, G:0.36, T:0.27
Consensus pattern (43 bp):
GCACTAAGTGTGCGGGCAATAAGTGTTCACGGTTGTGAGATTG
Found at i:28037206 original size:29 final size:29
Alignment explanation
Indices: 28037171--28037244 Score: 105
Period size: 29 Copynumber: 2.6 Consensus size: 29
28037161 GTTGTGAGAT
* *
28037171 TGGCACTAAGTGTGCGGGCTTGAAA-TGCA
1 TGGCACTAAGTGTGCGAG-TTGAAAGTACA
*
28037200 TGGCACTAAGTGTGCGAGTTTAAAGTACA
1 TGGCACTAAGTGTGCGAGTTGAAAGTACA
28037229 TGGCACTAAGTGTGCG
1 TGGCACTAAGTGTGCG
28037245 TGGTTGATTA
Statistics
Matches: 41, Mismatches: 3, Indels: 2
0.89 0.07 0.04
Matches are distributed among these distances:
28 5 0.12
29 36 0.88
ACGTcount: A:0.26, C:0.16, G:0.32, T:0.26
Consensus pattern (29 bp):
TGGCACTAAGTGTGCGAGTTGAAAGTACA
Found at i:28037729 original size:40 final size:40
Alignment explanation
Indices: 28037555--28037827 Score: 261
Period size: 40 Copynumber: 6.9 Consensus size: 40
28037545 TTGAATGATG
** *
28037555 TCCGGGCTAAGTCCCGAAG-GC-TTTGTGCTAAGTGACCATA
1 TCCGGGCTAAGTCCCGAAGAGCATTCATGCT-AGTGA-TATA
* * ** * * *
28037595 TCCGGACTAAG-ACCGAAG-GCATTGGTGCGAGTTACTAAA
1 TCCGGGCTAAGTCCCGAAGAGCATTCATGCTAGTGA-TATA
*
28037634 TCC-GGCTAAGTCCCGAAGAGCATTCATGCTAGTGATGTA
1 TCCGGGCTAAGTCCCGAAGAGCATTCATGCTAGTGATATA
*
28037673 T-CGGGCTAAGTCCCGAAGAGCATTCATGCTAGTGATGTA
1 TCCGGGCTAAGTCCCGAAGAGCATTCATGCTAGTGATATA
* *
28037712 TCCGGGCTAAGTTCCGAAGAGCATTCGTGCTAGTGATATA
1 TCCGGGCTAAGTCCCGAAGAGCATTCATGCTAGTGATATA
* ** * * * *
28037752 TCCGTGCTAAACCCCGAAGAGCATTCGTGCTGGTGTTATG
1 TCCGGGCTAAGTCCCGAAGAGCATTCATGCTAGTGATATA
* * *
28037792 TCCGGGCTAGGTCCCGAAGAGCAATCATGCTGGTGA
1 TCCGGGCTAAGTCCCGAAGAGCATTCATGCTAGTGA
28037828 CGTGTATTCG
Statistics
Matches: 196, Mismatches: 32, Indels: 10
0.82 0.13 0.04
Matches are distributed among these distances:
38 7 0.04
39 64 0.33
40 125 0.64
ACGTcount: A:0.25, C:0.23, G:0.28, T:0.25
Consensus pattern (40 bp):
TCCGGGCTAAGTCCCGAAGAGCATTCATGCTAGTGATATA
Found at i:28041518 original size:47 final size:47
Alignment explanation
Indices: 28041342--28041732 Score: 536
Period size: 47 Copynumber: 8.2 Consensus size: 47
28041332 AGATGTTATG
28041342 TATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATGTATA
1 TATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAA--G--TGTATA
28041393 TATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATGTA
1 TATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTA--TA
* *
28041442 TATATGAATAAGGCCTAATAGCCGATGTGATGAATGTGAAAGTGTATA
1 TATGTG-ATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATA
* *
28041490 TGTGTGATAAGGCCTAATAGCCGATGTGATGAATGTGAAAGTGTATA
1 TATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATA
* *
28041537 TGTGTGATAAGGCCTAA-AGCCGA-GTGATGAATGTGAAAGTGTATA
1 TATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATA
*
28041582 TATGTGATAAGGCCTAATGGCCGATGCGATGAATGTGAAAGTGTATA
1 TATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATA
28041629 TATGT-ATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATA
1 TATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATA
* * * * * * * * *
28041675 TATGTGACAGGGCCGAGTGGCCAACGTAATGGATGTGAAAGTGCATA
1 TATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATA
* *
28041722 AATGTTATAAG
1 TATGTGATAAG
28041733 TCCCGAAAGG
Statistics
Matches: 313, Mismatches: 21, Indels: 16
0.89 0.06 0.05
Matches are distributed among these distances:
45 38 0.12
46 56 0.18
47 127 0.41
48 6 0.02
49 8 0.03
50 38 0.12
51 40 0.13
ACGTcount: A:0.33, C:0.09, G:0.29, T:0.29
Consensus pattern (47 bp):
TATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATA
Found at i:28041605 original size:92 final size:94
Alignment explanation
Indices: 28041342--28041732 Score: 536
Period size: 92 Copynumber: 4.1 Consensus size: 94
28041332 AGATGTTATG
*
28041342 TATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATGTATATATGTGATAAGGCC
1 TATGTGATAAGGCCTAATAGCCGATGTGATGAATGTGAAA--G--TGTATATATGTGATAAGGCC
28041407 TAATGGCCGATGTGATGAATGTGAAAGTGTATGTA
62 TAATGGCCGATGTGATGAATGTGAAAGTGTA--TA
* *
28041442 TATATGAATAAGGCCTAATAGCCGATGTGATGAATGTGAAAGTGTATATGTGTGATAAGGCCTAA
1 TATGTG-ATAAGGCCTAATAGCCGATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAA
*
28041507 TAGCCGATGTGATGAATGTGAAAGTGTATA
65 TGGCCGATGTGATGAATGTGAAAGTGTATA
*
28041537 TGTGTGATAAGGCCTAA-AGCCGA-GTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAAT
1 TATGTGATAAGGCCTAATAGCCGATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAAT
*
28041600 GGCCGATGCGATGAATGTGAAAGTGTATA
66 GGCCGATGTGATGAATGTGAAAGTGTATA
* * * * *
28041629 TATGT-ATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGACAGGGCCGAGT
1 TATGTGATAAGGCCTAATAGCCGATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAAT
* * * * *
28041693 GGCCAACGTAATGGATGTGAAAGTGCATA
66 GGCCGATGTGATGAATGTGAAAGTGTATA
* *
28041722 AATGTTATAAG
1 TATGTGATAAG
28041733 TCCCGAAAGG
Statistics
Matches: 265, Mismatches: 22, Indels: 14
0.88 0.07 0.05
Matches are distributed among these distances:
91 11 0.04
92 75 0.28
93 69 0.26
94 16 0.06
95 6 0.02
97 49 0.18
99 1 0.00
100 5 0.02
101 33 0.12
ACGTcount: A:0.33, C:0.09, G:0.29, T:0.29
Consensus pattern (94 bp):
TATGTGATAAGGCCTAATAGCCGATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAAT
GGCCGATGTGATGAATGTGAAAGTGTATA
Found at i:28041713 original size:185 final size:191
Alignment explanation
Indices: 28041344--28041717 Score: 544
Period size: 185 Copynumber: 2.0 Consensus size: 191
28041334 ATGTTATGTA
*
28041344 TGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATGTATATATGTGATAAGGCCTA
1 TGTGATAAGGCCTAATAGCCGATGTGATGAATGTGAAAG-G-ATGTATATATGTGATAAGGCCTA
*
28041409 ATGGCCGATGTGATGAATGTGAAAGTGTATGTATATATGAATAAGGCCTAATAGCCGATGTGATG
64 ATGGCCGATGCGATGAATGTGAAAG-G-ATGTATATATGAATAAGGCCTAATAGCCGATGTGATG
* * * * * *
28041474 AATGTGAAAGTGTATATGTGTGATAAGGCCTAATAGCCGATGTGATGAATGTGAAAGTGTATATG
127 AATGTGAAAGTGTATATATGTGACAAGGCCGAATAGCCAACGTAATGAATGTGAAAGTGTATATG
28041539 TGTGATAAGGCCTAA-AGCCGA-GTGATGAATGTGAAA-G-TGTATATATGTGATAAGGCCTAAT
1 TGTGATAAGGCCTAATAGCCGATGTGATGAATGTGAAAGGATGTATATATGTGATAAGGCCTAAT
* *
28041600 GGCCGATGCGATGAATGTGAAA-G-TGTATATATGTATAAGGCCTAATGGCCGATGTGATGAATG
66 GGCCGATGCGATGAATGTGAAAGGATGTATATATGAATAAGGCCTAATAGCCGATGTGATGAATG
* * * *
28041663 TGAAAGTGTATATATGTGACAGGGCCGAGTGGCCAACGTAATGGATGTGAAAGTG
131 TGAAAGTGTATATATGTGACAAGGCCGAATAGCCAACGTAATGAATGTGAAAGTG
28041718 CATAAATGTT
Statistics
Matches: 165, Mismatches: 14, Indels: 10
0.87 0.07 0.05
Matches are distributed among these distances:
185 83 0.50
187 1 0.01
189 45 0.27
191 1 0.01
193 15 0.09
194 5 0.03
195 15 0.09
ACGTcount: A:0.32, C:0.09, G:0.30, T:0.28
Consensus pattern (191 bp):
TGTGATAAGGCCTAATAGCCGATGTGATGAATGTGAAAGGATGTATATATGTGATAAGGCCTAAT
GGCCGATGCGATGAATGTGAAAGGATGTATATATGAATAAGGCCTAATAGCCGATGTGATGAATG
TGAAAGTGTATATATGTGACAAGGCCGAATAGCCAACGTAATGAATGTGAAAGTGTATATG
Found at i:28041904 original size:36 final size:37
Alignment explanation
Indices: 28041849--28041926 Score: 113
Period size: 36 Copynumber: 2.1 Consensus size: 37
28041839 CCGAGCTCTA
* * *
28041849 AAGACCCGATGACTACGTGTGGGGATTTTGTCC-GGT
1 AAGACCCGATAACTACGTGTGGAGATTATGTCCGGGT
*
28041885 AAGACCCGATAACTTCGTGTGGAGATTATGTCCGGGT
1 AAGACCCGATAACTACGTGTGGAGATTATGTCCGGGT
28041922 AAGAC
1 AAGAC
28041927 TTCTAATAGA
Statistics
Matches: 37, Mismatches: 4, Indels: 1
0.88 0.10 0.02
Matches are distributed among these distances:
36 29 0.78
37 8 0.22
ACGTcount: A:0.24, C:0.19, G:0.31, T:0.26
Consensus pattern (37 bp):
AAGACCCGATAACTACGTGTGGAGATTATGTCCGGGT
Found at i:28043851 original size:42 final size:44
Alignment explanation
Indices: 28043751--28043853 Score: 183
Period size: 44 Copynumber: 2.4 Consensus size: 44
28043741 TTGGTTTTCA
*
28043751 GCACTAAGTGTGCGGGCAATAAGTGTTCGCGGTTGTGAGATTTG
1 GCACTAAGTGTGCGGGCAATAAGTGTTCACGGTTGTGAGATTTG
28043795 GCACTAAGTGTGCGGGCAATAAGTGTTCACGG-TGTGAGA-TTG
1 GCACTAAGTGTGCGGGCAATAAGTGTTCACGGTTGTGAGATTTG
28043837 GCACTAAGTGTGCGGGC
1 GCACTAAGTGTGCGGGC
28043854 TTGAAATGCA
Statistics
Matches: 58, Mismatches: 1, Indels: 2
0.95 0.02 0.03
Matches are distributed among these distances:
42 20 0.34
43 7 0.12
44 31 0.53
ACGTcount: A:0.21, C:0.16, G:0.37, T:0.26
Consensus pattern (44 bp):
GCACTAAGTGTGCGGGCAATAAGTGTTCACGGTTGTGAGATTTG
Found at i:28043870 original size:29 final size:29
Alignment explanation
Indices: 28043835--28043908 Score: 105
Period size: 29 Copynumber: 2.6 Consensus size: 29
28043825 GGTGTGAGAT
* *
28043835 TGGCACTAAGTGTGCGGGCTTGAAA-TGCA
1 TGGCACTAAGTGTGCGAG-TTGAAAGTACA
*
28043864 TGGCACTAAGTGTGCGAGTTTAAAGTACA
1 TGGCACTAAGTGTGCGAGTTGAAAGTACA
28043893 TGGCACTAAGTGTGCG
1 TGGCACTAAGTGTGCG
28043909 TGGTTGATTA
Statistics
Matches: 41, Mismatches: 3, Indels: 2
0.89 0.07 0.04
Matches are distributed among these distances:
28 5 0.12
29 36 0.88
ACGTcount: A:0.26, C:0.16, G:0.32, T:0.26
Consensus pattern (29 bp):
TGGCACTAAGTGTGCGAGTTGAAAGTACA
Found at i:28044307 original size:40 final size:40
Alignment explanation
Indices: 28044220--28044454 Score: 251
Period size: 40 Copynumber: 5.9 Consensus size: 40
28044210 TTGAATGATG
** *
28044220 TCCGGGCTAAGTCCCGAAG-GC-TTTGTGCTAAGTGACCATA
1 TCCGGGCTAAGTCCCGAAGAGCATTCATGCT-AGTGA-TATA
*
28044260 TCCGGGCTAAGTCCCGAAGAGCATTCATGCTAGTGATGTA
1 TCCGGGCTAAGTCCCGAAGAGCATTCATGCTAGTGATATA
* * *
28044300 TCTGGGCTAAGTCCCGAGGAGCATTCATGCTAGTGATGTA
1 TCCGGGCTAAGTCCCGAAGAGCATTCATGCTAGTGATATA
* * *
28044340 TCCGGGCTAAGTTCCGAAGAGCATTCGTTCTAGTGATATA
1 TCCGGGCTAAGTCCCGAAGAGCATTCATGCTAGTGATATA
* ** * * * *
28044380 TCCGTGCTAAACCCCGAAGAGCATTCGTGCTGGTGTTATG
1 TCCGGGCTAAGTCCCGAAGAGCATTCATGCTAGTGATATA
* * *
28044420 TCCGGGCTAGGT-CCGAAGAGCAATCATGCTGGTGA
1 TCCGGGCTAAGTCCCGAAGAGCATTCATGCTAGTGA
28044455 CGTGTATTCG
Statistics
Matches: 166, Mismatches: 27, Indels: 5
0.84 0.14 0.03
Matches are distributed among these distances:
39 20 0.12
40 133 0.80
41 7 0.04
42 6 0.04
ACGTcount: A:0.23, C:0.23, G:0.29, T:0.26
Consensus pattern (40 bp):
TCCGGGCTAAGTCCCGAAGAGCATTCATGCTAGTGATATA
Found at i:28048184 original size:47 final size:47
Alignment explanation
Indices: 28047959--28048450 Score: 738
Period size: 47 Copynumber: 10.4 Consensus size: 47
28047949 CAGCCAAGAG
*
28047959 AGTGTATGTATGT-ATAAGGCCTAATGGCCGATGTGATGAATGTGAA
1 AGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAA
28048005 AGTGTATGTATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAA
1 AGTGTA--TATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAA
28048054 AGTGTATATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAA
1 AGTG--TATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAA
*
28048103 AGTGTATGTATATGTGATAAGGCCTAATAGCCGATGTGATGAATGTGAA
1 AGTGTA--TATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAA
* *
28048152 AGTGTATATGTGTGATAAGGCCTAATAGCCGATGTGATGAATGTGAA
1 AGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAA
* * *
28048199 AGTGTATATGTGTGATAAGGCCTAATAGCCGACGTGATGAATGTGAA
1 AGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAA
*
28048246 AGTG--TATATGTGATAAGGCCTAATAGCCGATGTGATGAATGTGAA
1 AGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAA
*
28048291 AGTGTATATATGTGATAAGGCCTAATGGCCGATGCGATGAATGTGAA
1 AGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAA
28048338 AGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAA
1 AGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAA
* * * * * * * *
28048385 AGTGTATATATGTGACAGGGCCGAGTGGCCAACGTAATGGATGTGAA
1 AGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAA
* *
28048432 AGTGCATAAATGTGATAAG
1 AGTGTATATATGTGATAAG
28048451 TCCCGAAGGC
Statistics
Matches: 416, Mismatches: 21, Indels: 17
0.92 0.05 0.04
Matches are distributed among these distances:
45 43 0.10
46 6 0.01
47 231 0.56
48 6 0.01
49 128 0.31
51 2 0.00
ACGTcount: A:0.32, C:0.09, G:0.30, T:0.29
Consensus pattern (47 bp):
AGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAA
Found at i:28048305 original size:139 final size:139
Alignment explanation
Indices: 28047967--28048393 Score: 712
Period size: 139 Copynumber: 3.0 Consensus size: 139
28047957 AGAGTGTATG
*
28047967 TATGT-ATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATGTATATGTGATAAGGCCTA
1 TATGTGATAAGGCCTAATAGCCGATGTGATGAATGTGAAAGTGTA--TATATGTGATAAGGCCTA
28048031 ATGGCCGATGTGATGAATGTGAAAGTGTATATATATGTGATAAGGCCTAATGGCCGATGTGATGA
64 ATGGCCGATGTGATGAATGTGAAAGTG--TATATATGTGATAAGGCCTAATGGCCGATGTGATGA
28048096 ATGTGAAAGTGTATGTA
127 ATGTGAAA--G--TGTA
*
28048113 TATGTGATAAGGCCTAATAGCCGATGTGATGAATGTGAAAGTGTATATGTGTGATAAGGCCTAAT
1 TATGTGATAAGGCCTAATAGCCGATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAAT
* * * *
28048178 AGCCGATGTGATGAATGTGAAAGTGTATATGTGTGATAAGGCCTAATAGCCGACGTGATGAATGT
66 GGCCGATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGT
28048243 GAAAGTGTA
131 GAAAGTGTA
28048252 TATGTGATAAGGCCTAATAGCCGATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAAT
1 TATGTGATAAGGCCTAATAGCCGATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAAT
*
28048317 GGCCGATGCGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGT
66 GGCCGATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGT
28048382 GAAAGTGTA
131 GAAAGTGTA
28048391 TAT
1 TAT
28048394 ATGTGACAGG
Statistics
Matches: 268, Mismatches: 12, Indels: 9
0.93 0.04 0.03
Matches are distributed among these distances:
139 140 0.52
141 1 0.00
143 41 0.15
145 43 0.16
146 5 0.02
147 38 0.14
ACGTcount: A:0.32, C:0.09, G:0.29, T:0.30
Consensus pattern (139 bp):
TATGTGATAAGGCCTAATAGCCGATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAAT
GGCCGATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGT
GAAAGTGTA
Found at i:28048624 original size:37 final size:37
Alignment explanation
Indices: 28048568--28048646 Score: 122
Period size: 37 Copynumber: 2.1 Consensus size: 37
28048558 CCGAGCTCTA
* * *
28048568 AAGACCCGATGACTACGTGTGGGGATTTTGTCCGGGT
1 AAGACCCGATAACTACGTGTGGAGATTATGTCCGGGT
*
28048605 AAGACCCGATAACTTCGTGTGGAGATTATGTCCGGGT
1 AAGACCCGATAACTACGTGTGGAGATTATGTCCGGGT
28048642 AAGAC
1 AAGAC
28048647 TTCGTAATAA
Statistics
Matches: 38, Mismatches: 4, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
37 38 1.00
ACGTcount: A:0.24, C:0.19, G:0.32, T:0.25
Consensus pattern (37 bp):
AAGACCCGATAACTACGTGTGGAGATTATGTCCGGGT
Found at i:28052895 original size:22 final size:24
Alignment explanation
Indices: 28052867--28052923 Score: 84
Period size: 22 Copynumber: 2.5 Consensus size: 24
28052857 TAAAATTCTA
28052867 AAATTTAATAAAAA-TAAAAA-AT
1 AAATTTAATAAAAATTAAAAACAT
28052889 AAATTTAATAAAAATTAAAAACAT
1 AAATTTAATAAAAATTAAAAACAT
*
28052913 AAA-ATAATAAA
1 AAATTTAATAAA
28052924 TAAATGTTTT
Statistics
Matches: 32, Mismatches: 1, Indels: 3
0.89 0.03 0.08
Matches are distributed among these distances:
22 14 0.44
23 13 0.41
24 5 0.16
ACGTcount: A:0.72, C:0.02, G:0.00, T:0.26
Consensus pattern (24 bp):
AAATTTAATAAAAATTAAAAACAT
Found at i:28057924 original size:5 final size:5
Alignment explanation
Indices: 28057914--28057944 Score: 62
Period size: 5 Copynumber: 6.2 Consensus size: 5
28057904 ATAATAATAA
28057914 TAAAT TAAAT TAAAT TAAAT TAAAT TAAAT T
1 TAAAT TAAAT TAAAT TAAAT TAAAT TAAAT T
28057945 GCAAGAAAAA
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 26 1.00
ACGTcount: A:0.58, C:0.00, G:0.00, T:0.42
Consensus pattern (5 bp):
TAAAT
Found at i:28073086 original size:34 final size:33
Alignment explanation
Indices: 28073043--28073109 Score: 91
Period size: 34 Copynumber: 2.0 Consensus size: 33
28073033 CATATCACTA
* *
28073043 ACAGTTCAGTTTCAGT-TAAGGCCTTAGCCCATT
1 ACAGTTCAGTATCAGTGT-AGGCCTTAACCCATT
28073076 ACAGTATCAGTATCAGTGTAGGCCTTAACCCATT
1 ACAGT-TCAGTATCAGTGTAGGCCTTAACCCATT
28073110 TTGGTAACAG
Statistics
Matches: 30, Mismatches: 2, Indels: 3
0.86 0.06 0.09
Matches are distributed among these distances:
33 5 0.17
34 24 0.80
35 1 0.03
ACGTcount: A:0.27, C:0.24, G:0.18, T:0.31
Consensus pattern (33 bp):
ACAGTTCAGTATCAGTGTAGGCCTTAACCCATT
Found at i:28074396 original size:24 final size:26
Alignment explanation
Indices: 28074369--28074420 Score: 72
Period size: 26 Copynumber: 2.1 Consensus size: 26
28074359 GATTCAACAA
*
28074369 GCAAGAAG-GAAAGAA-AGGAATTCG
1 GCAACAAGAGAAAGAAGAGGAATTCG
*
28074393 GCAACAAGAGAAAGAAGAGGTATTCG
1 GCAACAAGAGAAAGAAGAGGAATTCG
28074419 GC
1 GC
28074421 TTAAGCAGAG
Statistics
Matches: 24, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
24 7 0.29
25 7 0.29
26 10 0.42
ACGTcount: A:0.46, C:0.12, G:0.33, T:0.10
Consensus pattern (26 bp):
GCAACAAGAGAAAGAAGAGGAATTCG
Found at i:28087325 original size:49 final size:49
Alignment explanation
Indices: 28087159--28087383 Score: 279
Period size: 49 Copynumber: 4.5 Consensus size: 49
28087149 TGAGGTCGCA
* * * * *
28087159 TGTGTAGTACTAAGTGCAGGCTACTATGCGTACCCGAAAACTGTGATCACG
1 TGTGTAGTACTAAGTGCAGGCTACTACGTGTACCGGATAA-T-TGGTCACG
* * * ** *
28087210 TGTGTAGTACTAAGTGCAAGCTACTACGTGTATCAGATGGTTAGGTCATG
1 TGTGTAGTACTAAGTGCAGGCTACTACGTGTACCGGATAATT-GGTCACG
28087260 TGTGTAGTACTAAGTGCAGGCTACTACGTGTACCGGATAATTGGTCACG
1 TGTGTAGTACTAAGTGCAGGCTACTACGTGTACCGGATAATTGGTCACG
* * *
28087309 TATGTAGTACTAAGTGCAGGCTACTACGTGTACCGGATAATTGGTCGCA
1 TGTGTAGTACTAAGTGCAGGCTACTACGTGTACCGGATAATTGGTCACG
* *
28087358 TGTGTAGTTCTATGTGCAGGCTACTA
1 TGTGTAGTACTAAGTGCAGGCTACTA
28087384 TGCGTACCAG
Statistics
Matches: 151, Mismatches: 22, Indels: 4
0.85 0.12 0.02
Matches are distributed among these distances:
49 76 0.50
50 43 0.28
51 32 0.21
ACGTcount: A:0.25, C:0.18, G:0.27, T:0.30
Consensus pattern (49 bp):
TGTGTAGTACTAAGTGCAGGCTACTACGTGTACCGGATAATTGGTCACG
Found at i:28087334 original size:99 final size:101
Alignment explanation
Indices: 28087159--28087391 Score: 292
Period size: 99 Copynumber: 2.3 Consensus size: 101
28087149 TGAGGTCGCA
* *
28087159 TGTGTAGTACTAAGTGCAGGCTACTATGCGTACCCGAAAACTGTGATCACGTGTGTAGTACTAAG
1 TGTGTAGTACTAAGTGCAGGCTACTACGCGTACCCGAAAACTGTGATCACGTATGTAGTACTAAG
28087224 TGCAAGCTACTACGTGTATCAGATGGTTAGGTCATG
66 TGCAAGCTACTACGTGTATCAGATGGTTAGGTCATG
* * * *
28087260 TGTGTAGTACTAAGTGCAGGCTACTACGTGTACCGGATAA-T-TGGTCACGTATGTAGTACTAAG
1 TGTGTAGTACTAAGTGCAGGCTACTACGCGTACCCGAAAACTGTGATCACGTATGTAGTACTAAG
* * * ** ***
28087323 TGCAGGCTACTACGTGTACCGGATAATT-GGTCGCA
66 TGCAAGCTACTACGTGTATCAGATGGTTAGGTCATG
* * *
28087358 TGTGTAGTTCTATGTGCAGGCTACTATGCGTACC
1 TGTGTAGTACTAAGTGCAGGCTACTACGCGTACC
28087392 AGATAGCTTT
Statistics
Matches: 114, Mismatches: 18, Indels: 3
0.84 0.13 0.02
Matches are distributed among these distances:
98 34 0.30
99 43 0.38
100 1 0.01
101 36 0.32
ACGTcount: A:0.25, C:0.18, G:0.27, T:0.30
Consensus pattern (101 bp):
TGTGTAGTACTAAGTGCAGGCTACTACGCGTACCCGAAAACTGTGATCACGTATGTAGTACTAAG
TGCAAGCTACTACGTGTATCAGATGGTTAGGTCATG
Found at i:28089032 original size:14 final size:15
Alignment explanation
Indices: 28089000--28089037 Score: 69
Period size: 15 Copynumber: 2.6 Consensus size: 15
28088990 ACCCATATAG
28089000 AATGATATCAATCCA
1 AATGATATCAATCCA
28089015 AATGATATCAAT-CA
1 AATGATATCAATCCA
28089029 AATGATATC
1 AATGATATC
28089038 CCAAAAAAGA
Statistics
Matches: 23, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
14 11 0.48
15 12 0.52
ACGTcount: A:0.47, C:0.16, G:0.08, T:0.29
Consensus pattern (15 bp):
AATGATATCAATCCA
Found at i:28092709 original size:44 final size:44
Alignment explanation
Indices: 28092620--28092711 Score: 107
Period size: 44 Copynumber: 2.1 Consensus size: 44
28092610 TCCCAGATTG
* * * *
28092620 GGTCTTACTCGTACACATATATCGAAGTCACATATCGATGCCAT
1 GGTCTTACTCGCACACACATATCGAAATCACATATCGATGACAT
*
28092664 GGTCTTACTCGCACATCACATATCGAAATC-CTATGTC-ATGACAT
1 GGTCTTACTCGCACA-CACATATCGAAATCAC-ATATCGATGACAT
28092708 GGTC
1 GGTC
28092712 ATTCGTTTTT
Statistics
Matches: 41, Mismatches: 5, Indels: 4
0.82 0.10 0.08
Matches are distributed among these distances:
44 25 0.61
45 16 0.39
ACGTcount: A:0.28, C:0.26, G:0.16, T:0.29
Consensus pattern (44 bp):
GGTCTTACTCGCACACACATATCGAAATCACATATCGATGACAT
Found at i:28095205 original size:29 final size:30
Alignment explanation
Indices: 28095154--28095266 Score: 112
Period size: 29 Copynumber: 4.0 Consensus size: 30
28095144 CATGCATAGA
* * *
28095154 GCCCA-CTAGGTCCAA-TCTTATTCAAATG
1 GCCCATCTAGGCCCAATTCATATTCATATG
* *
28095182 GCCCATCT-GGCCCAGTTCATATTCTTATG
1 GCCCATCTAGGCCCAATTCATATTCATATG
* *
28095211 GCCCA-CTACGCCCAATTCATCTTCATATG
1 GCCCATCTAGGCCCAATTCATATTCATATG
*
28095240 GCCCAT-TAGGCCCAAATCATATT-ATAT
1 GCCCATCTAGGCCCAATTCATATTCATAT
28095267 TCATGCTCAC
Statistics
Matches: 69, Mismatches: 12, Indels: 8
0.78 0.13 0.09
Matches are distributed among these distances:
28 16 0.23
29 53 0.77
ACGTcount: A:0.26, C:0.31, G:0.13, T:0.30
Consensus pattern (30 bp):
GCCCATCTAGGCCCAATTCATATTCATATG
Found at i:28095495 original size:16 final size:16
Alignment explanation
Indices: 28095476--28095510 Score: 52
Period size: 16 Copynumber: 2.2 Consensus size: 16
28095466 CTTTTTGACA
*
28095476 TTTCAGCTTTTCGGAT
1 TTTCAGCATTTCGGAT
*
28095492 TTTCAGCATTTCGGCT
1 TTTCAGCATTTCGGAT
28095508 TTT
1 TTT
28095511 GCCGATTCAT
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:0.11, C:0.20, G:0.17, T:0.51
Consensus pattern (16 bp):
TTTCAGCATTTCGGAT
Found at i:28103621 original size:40 final size:40
Alignment explanation
Indices: 28103563--28103642 Score: 124
Period size: 40 Copynumber: 2.0 Consensus size: 40
28103553 TTATTTTCCT
* * *
28103563 TAAGTTCAGTGCAGTACAAAGGTGTACGACATTTACGCCC
1 TAAGTTCAATCCAATACAAAGGTGTACGACATTTACGCCC
*
28103603 TAAGTTCAATCCAATACAAATGTGTACGACATTTACGCCC
1 TAAGTTCAATCCAATACAAAGGTGTACGACATTTACGCCC
28103643 ATACAATGCC
Statistics
Matches: 36, Mismatches: 4, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
40 36 1.00
ACGTcount: A:0.33, C:0.24, G:0.17, T:0.26
Consensus pattern (40 bp):
TAAGTTCAATCCAATACAAAGGTGTACGACATTTACGCCC
Found at i:28113048 original size:30 final size:30
Alignment explanation
Indices: 28113014--28113073 Score: 75
Period size: 30 Copynumber: 2.0 Consensus size: 30
28113004 ATTTAATATG
*
28113014 AACTTTGGAAAAATTACATTTTTACCCCTA
1 AACTTTGGAAAAATTACACTTTTACCCCTA
* * * *
28113044 AACTTTTGCATAATTACACTTTTGCCCCTA
1 AACTTTGGAAAAATTACACTTTTACCCCTA
28113074 GGCTCGGGAA
Statistics
Matches: 25, Mismatches: 5, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
30 25 1.00
ACGTcount: A:0.32, C:0.23, G:0.07, T:0.38
Consensus pattern (30 bp):
AACTTTGGAAAAATTACACTTTTACCCCTA
Found at i:28126427 original size:5 final size:5
Alignment explanation
Indices: 28126411--28126447 Score: 58
Period size: 5 Copynumber: 7.6 Consensus size: 5
28126401 TAGTTTTAAC
*
28126411 ATTTA A-TTA ATTTA ATTTA ATTTA ATTTA ACTTA ATT
1 ATTTA ATTTA ATTTA ATTTA ATTTA ATTTA ATTTA ATT
28126448 AACTAACACT
Statistics
Matches: 29, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
4 4 0.14
5 25 0.86
ACGTcount: A:0.41, C:0.03, G:0.00, T:0.57
Consensus pattern (5 bp):
ATTTA
Found at i:28132196 original size:12 final size:12
Alignment explanation
Indices: 28132179--28132206 Score: 56
Period size: 12 Copynumber: 2.3 Consensus size: 12
28132169 GTGGTTTATT
28132179 TTTGACATAAAA
1 TTTGACATAAAA
28132191 TTTGACATAAAA
1 TTTGACATAAAA
28132203 TTTG
1 TTTG
28132207 TCTTATAAGC
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 16 1.00
ACGTcount: A:0.43, C:0.07, G:0.11, T:0.39
Consensus pattern (12 bp):
TTTGACATAAAA
Found at i:28133045 original size:35 final size:35
Alignment explanation
Indices: 28132999--28133065 Score: 89
Period size: 35 Copynumber: 1.9 Consensus size: 35
28132989 AACGCCTTCG
* * *
28132999 GGCTTAGCACTTAGGTGCTCTTTGGTGTGTTTGGC
1 GGCTTAGCACTTAGGTCCCCCTTGGTGTGTTTGGC
* *
28133034 GGCTTGGCACTTTGGTCCCCCTTGGTGTGTTT
1 GGCTTAGCACTTAGGTCCCCCTTGGTGTGTTT
28133066 TGAAGGGATT
Statistics
Matches: 27, Mismatches: 5, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
35 27 1.00
ACGTcount: A:0.06, C:0.21, G:0.33, T:0.40
Consensus pattern (35 bp):
GGCTTAGCACTTAGGTCCCCCTTGGTGTGTTTGGC
Found at i:28133977 original size:22 final size:23
Alignment explanation
Indices: 28133942--28133986 Score: 56
Period size: 22 Copynumber: 2.0 Consensus size: 23
28133932 TTAAGTTTAA
*
28133942 ATGAAGTTTGAAATTAATTTATG
1 ATGAAGTTTGAAATGAATTTATG
* *
28133965 ATGAGGTTT-AAATGCATTTATG
1 ATGAAGTTTGAAATGAATTTATG
28133987 TTTTTTTTAA
Statistics
Matches: 19, Mismatches: 3, Indels: 1
0.83 0.13 0.04
Matches are distributed among these distances:
22 11 0.58
23 8 0.42
ACGTcount: A:0.36, C:0.02, G:0.20, T:0.42
Consensus pattern (23 bp):
ATGAAGTTTGAAATGAATTTATG
Found at i:28136430 original size:53 final size:52
Alignment explanation
Indices: 28136371--28136470 Score: 130
Period size: 53 Copynumber: 1.9 Consensus size: 52
28136361 AAAGATAAAA
* * * *
28136371 TTAAATTTTTATTATTTTTAGAGAGA-TTAAAATATAATTTTATTTTTATTAAT
1 TTAAATTTTTATAAGTTTTAAAGAGAGTTAAAA-A-AATTTTAATTTTATTAAT
*
28136424 TTAAATTTTTATAAGTTTTAAAGGGAGTTAAAAAAATTTTAATTTTA
1 TTAAATTTTTATAAGTTTTAAAGAGAGTTAAAAAAATTTTAATTTTA
28136471 GAGATGGCCG
Statistics
Matches: 41, Mismatches: 5, Indels: 3
0.84 0.10 0.06
Matches are distributed among these distances:
52 12 0.29
53 23 0.56
54 6 0.15
ACGTcount: A:0.40, C:0.00, G:0.08, T:0.52
Consensus pattern (52 bp):
TTAAATTTTTATAAGTTTTAAAGAGAGTTAAAAAAATTTTAATTTTATTAAT
Found at i:28136855 original size:21 final size:22
Alignment explanation
Indices: 28136821--28136861 Score: 66
Period size: 21 Copynumber: 1.9 Consensus size: 22
28136811 TTTAACAGGT
28136821 AATTGAATTGAAATAAAATTTG
1 AATTGAATTGAAATAAAATTTG
*
28136843 AATT-AATTTAAATAAAATT
1 AATTGAATTGAAATAAAATT
28136862 ATTTGAGGTA
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
21 14 0.78
22 4 0.22
ACGTcount: A:0.54, C:0.00, G:0.07, T:0.39
Consensus pattern (22 bp):
AATTGAATTGAAATAAAATTTG
Found at i:28136955 original size:16 final size:16
Alignment explanation
Indices: 28136930--28136963 Score: 50
Period size: 16 Copynumber: 2.1 Consensus size: 16
28136920 TTCATGGAGA
28136930 ATATAAATTTAAAATT
1 ATATAAATTTAAAATT
* *
28136946 ATATATATTTGAAATT
1 ATATAAATTTAAAATT
28136962 AT
1 AT
28136964 TTTCAAAGTA
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
16 16 1.00
ACGTcount: A:0.50, C:0.00, G:0.03, T:0.47
Consensus pattern (16 bp):
ATATAAATTTAAAATT
Found at i:28139085 original size:17 final size:17
Alignment explanation
Indices: 28139063--28139121 Score: 73
Period size: 17 Copynumber: 3.4 Consensus size: 17
28139053 AATTTTTTTT
*
28139063 AAAAAATTGATGAGTTA
1 AAAAAATTGATGAGTAA
*
28139080 AAAAAATTGGTGAGTAA
1 AAAAAATTGATGAGTAA
* *
28139097 AAATAAATTTATGTGTAA
1 AAA-AAATTGATGAGTAA
28139115 AAAAAAT
1 AAAAAAT
28139122 AGGAAAGGCG
Statistics
Matches: 36, Mismatches: 5, Indels: 2
0.84 0.12 0.05
Matches are distributed among these distances:
17 22 0.61
18 14 0.39
ACGTcount: A:0.56, C:0.00, G:0.15, T:0.29
Consensus pattern (17 bp):
AAAAAATTGATGAGTAA
Found at i:28141136 original size:13 final size:13
Alignment explanation
Indices: 28141118--28141166 Score: 55
Period size: 13 Copynumber: 3.7 Consensus size: 13
28141108 TAAATTATTG
28141118 TTAATATTTAAAT
1 TTAATATTTAAAT
28141131 TTAATATTTAAGAT
1 TTAATATTTAA-AT
* *
28141145 GTAATGTTTAAAT
1 TTAATATTTAAAT
28141158 ATT-ATATTT
1 -TTAATATTT
28141167 TTATTTGTAA
Statistics
Matches: 30, Mismatches: 4, Indels: 4
0.79 0.11 0.11
Matches are distributed among these distances:
13 18 0.60
14 12 0.40
ACGTcount: A:0.41, C:0.00, G:0.06, T:0.53
Consensus pattern (13 bp):
TTAATATTTAAAT
Found at i:28141907 original size:21 final size:20
Alignment explanation
Indices: 28141877--28141928 Score: 68
Period size: 21 Copynumber: 2.5 Consensus size: 20
28141867 AAATTAAAAA
* *
28141877 TAAAAAATATTAGCTTCTAT
1 TAAAAAATATTAACTCCTAT
28141897 TAAAACAATATTAACTCCTAT
1 TAAAA-AATATTAACTCCTAT
28141918 TAAAAATATAT
1 TAAAAA-ATAT
28141929 ATATCAACAA
Statistics
Matches: 28, Mismatches: 2, Indels: 3
0.85 0.06 0.09
Matches are distributed among these distances:
20 6 0.21
21 22 0.79
ACGTcount: A:0.50, C:0.12, G:0.02, T:0.37
Consensus pattern (20 bp):
TAAAAAATATTAACTCCTAT
Found at i:28142006 original size:5 final size:5
Alignment explanation
Indices: 28141996--28142026 Score: 62
Period size: 5 Copynumber: 6.2 Consensus size: 5
28141986 CAATATAAAC
28141996 TATAA TATAA TATAA TATAA TATAA TATAA T
1 TATAA TATAA TATAA TATAA TATAA TATAA T
28142027 TACATACAAA
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 26 1.00
ACGTcount: A:0.58, C:0.00, G:0.00, T:0.42
Consensus pattern (5 bp):
TATAA
Found at i:28142865 original size:17 final size:18
Alignment explanation
Indices: 28142843--28142879 Score: 58
Period size: 19 Copynumber: 2.1 Consensus size: 18
28142833 AATTTGATTT
28142843 TTATAAAA-TAAAATTAA
1 TTATAAAATTAAAATTAA
28142860 TTATAAAATTTAAAATTAA
1 TTATAAAA-TTAAAATTAA
28142879 T
1 T
28142880 ATTATTAAAA
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
17 8 0.44
19 10 0.56
ACGTcount: A:0.59, C:0.00, G:0.00, T:0.41
Consensus pattern (18 bp):
TTATAAAATTAAAATTAA
Found at i:28142873 original size:24 final size:24
Alignment explanation
Indices: 28142846--28142892 Score: 60
Period size: 24 Copynumber: 2.0 Consensus size: 24
28142836 TTGATTTTTA
*
28142846 TAAAA-TAAAATTAATTATAAAATT
1 TAAAATTAAAATT-ATTAAAAAATT
*
28142870 TAAAATTAATATTATTAAAAAAT
1 TAAAATTAAAATTATTAAAAAAT
28142893 AATTATAAAA
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
24 14 0.70
25 6 0.30
ACGTcount: A:0.62, C:0.00, G:0.00, T:0.38
Consensus pattern (24 bp):
TAAAATTAAAATTATTAAAAAATT
Found at i:28143315 original size:21 final size:21
Alignment explanation
Indices: 28143297--28143336 Score: 57
Period size: 21 Copynumber: 2.0 Consensus size: 21
28143287 GAAATTTAGG
28143297 ATTTAAT-T-ATTGTATTTTA
1 ATTTAATATAATTGTATTTTA
*
28143316 ATTTAATATAATTTTATTTTA
1 ATTTAATATAATTGTATTTTA
28143337 TTTTTATAAT
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
19 7 0.39
20 1 0.06
21 10 0.56
ACGTcount: A:0.35, C:0.00, G:0.03, T:0.62
Consensus pattern (21 bp):
ATTTAATATAATTGTATTTTA
Found at i:28143531 original size:12 final size:12
Alignment explanation
Indices: 28143516--28143551 Score: 54
Period size: 12 Copynumber: 3.0 Consensus size: 12
28143506 TTTAGACAAG
28143516 TGTTTGAACAGA
1 TGTTTGAACAGA
*
28143528 TGTTTGAACACA
1 TGTTTGAACAGA
*
28143540 TGTTCGAACAGA
1 TGTTTGAACAGA
28143552 ACACAAGCAA
Statistics
Matches: 21, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
12 21 1.00
ACGTcount: A:0.33, C:0.14, G:0.22, T:0.31
Consensus pattern (12 bp):
TGTTTGAACAGA
Found at i:28145185 original size:18 final size:18
Alignment explanation
Indices: 28145162--28145211 Score: 57
Period size: 18 Copynumber: 2.8 Consensus size: 18
28145152 GGATGTGACG
28145162 TTCATTTTCAAAACGTAA
1 TTCATTTTCAAAACGTAA
* * *
28145180 TTCATTATCAAAAAGTTA
1 TTCATTTTCAAAACGTAA
28145198 TTC-TCTTTCAAAAC
1 TTCAT-TTTCAAAAC
28145212 ATTATTAACT
Statistics
Matches: 26, Mismatches: 5, Indels: 2
0.79 0.15 0.06
Matches are distributed among these distances:
17 1 0.04
18 25 0.96
ACGTcount: A:0.38, C:0.18, G:0.04, T:0.40
Consensus pattern (18 bp):
TTCATTTTCAAAACGTAA
Found at i:28148803 original size:14 final size:14
Alignment explanation
Indices: 28148784--28148813 Score: 60
Period size: 14 Copynumber: 2.1 Consensus size: 14
28148774 AAAGTTAGAT
28148784 CGAGTAAAGGAGAA
1 CGAGTAAAGGAGAA
28148798 CGAGTAAAGGAGAA
1 CGAGTAAAGGAGAA
28148812 CG
1 CG
28148814 TTTCAGATTA
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:0.47, C:0.10, G:0.37, T:0.07
Consensus pattern (14 bp):
CGAGTAAAGGAGAA
Found at i:28153070 original size:48 final size:48
Alignment explanation
Indices: 28152997--28153217 Score: 291
Period size: 48 Copynumber: 4.6 Consensus size: 48
28152987 ATGTGTAACC
* * * * *
28152997 GTGTAAGACCCTATCTGGGATATGGCATCAACATTGTTATCTGATCCC
1 GTGTAAGACCATGTCTGGGACATGGCATCAACATTGTTATCTGAGCCA
* * * * *
28153045 GTGTAAGACCATGTCTGGGACATGGCTTCGACATTGTTATGTCAGCTA
1 GTGTAAGACCATGTCTGGGACATGGCATCAACATTGTTATCTGAGCCA
*
28153093 GTGTAAGACCATGTCTGGGACATGGCATCGACATTGTTA-CGTGAGCCA
1 GTGTAAGACCATGTCTGGGACATGGCATCAACATTGTTATC-TGAGCCA
* * * *
28153141 GTGTAAGACCATGTCTAGGACATGGCAACAACATTGTTATATGAACCA
1 GTGTAAGACCATGTCTGGGACATGGCATCAACATTGTTATCTGAGCCA
28153189 GTGTAAGACCATGTCTGGGACATGGCATC
1 GTGTAAGACCATGTCTGGGACATGGCATC
28153218 GGCGTTAGGC
Statistics
Matches: 150, Mismatches: 21, Indels: 4
0.86 0.12 0.02
Matches are distributed among these distances:
48 150 1.00
ACGTcount: A:0.27, C:0.20, G:0.25, T:0.28
Consensus pattern (48 bp):
GTGTAAGACCATGTCTGGGACATGGCATCAACATTGTTATCTGAGCCA
Found at i:28159375 original size:48 final size:48
Alignment explanation
Indices: 28159160--28159523 Score: 218
Period size: 48 Copynumber: 7.7 Consensus size: 48
28159150 TGGGGTATGA
* * * * * **
28159160 TGCCAATGCCATGTCCCAGACATGGTCTTACACTGGCTCATCCATCAAA
1 TGCCGATGCCATGTCCCAGACATGGTCTTACACTGACACCTCTAT-ACG
* * * *** *
28159209 T--CGATGCCATGTCCCAAACATGGTCTTACATTGACTATCAAAATCAAG
1 TGCCGATGCCATGTCCCAGACATGGTCTTACACTGAC-ACCTCTAT-ACG
* * * * *
28159257 -GCTGATGTCATGTCCCAGACATGGTCTTACACT-ATCTCTCACATATCCG
1 TGCCGATGCCATGTCCCAGACATGGTCTTACACTGA-CAC-CTC-TATACG
* * *
28159306 TGCTGATACCATGTCCCAGACATGGTCTTACATTGACACCTCTATACG
1 TGCCGATGCCATGTCCCAGACATGGTCTTACACTGACACCTCTATACG
* *
28159354 TGCCGATGCCATGTCCCAGACATGGTCTTACACTGACACATC---ACA
1 TGCCGATGCCATGTCCCAGACATGGTCTTACACTGACACCTCTATACG
* * * * *
28159399 TAGCTGATG-CATGTCCCAGACAT-GTCTTACACTGGCTCTAGTCT-TA-A
1 T-GCCGATGCCATGTCCCAGACATGGTCTTACACTGACAC--CTCTATACG
* * * *
28159446 TGTCGATGCCATGTCCCAGACATGGTCTTACACTGGC-TCTC-ATAATG
1 TGCCGATGCCATGTCCCAGACATGGTCTTACACTGACACCTCTAT-ACG
*
28159493 TGGCCGATG-CATGTCCCAAACAT-GTCTTACA
1 T-GCCGATGCCATGTCCCAGACATGGTCTTACA
28159524 TTAGCACACA
Statistics
Matches: 253, Mismatches: 43, Indels: 41
0.75 0.13 0.12
Matches are distributed among these distances:
44 13 0.05
45 20 0.08
46 22 0.09
47 60 0.24
48 69 0.27
49 34 0.13
50 34 0.13
51 1 0.00
ACGTcount: A:0.26, C:0.29, G:0.18, T:0.28
Consensus pattern (48 bp):
TGCCGATGCCATGTCCCAGACATGGTCTTACACTGACACCTCTATACG
Found at i:28159465 original size:92 final size:93
Alignment explanation
Indices: 28159159--28159525 Score: 300
Period size: 92 Copynumber: 3.9 Consensus size: 93
28159149 ATGGGGTATG
* * **
28159159 ATGCCAATGCCATGTCCCAGACATGGTCTTACACTGGCTCATC-CATCAAATCGATGCCATGTCC
1 ATGCCGATGCCATGTCCCAGACATGGTCTTACACTGACTCATCACAT-AGCT-GATG-CATGTCC
* * ** *
28159223 CAAACATGGTCTTACATTGACTATCAAAATCA
63 CAGACATGGTCTTACATTGACTCT-AATCTTA
* * * *
28159255 AGGCTGATGTCATGTCCCAGACATGGTCTTACACT-ATCTC-TCACATATCCGTGCTGATACCAT
1 ATGCCGATGCCATGTCCCAGACATGGTCTTACACTGA-CTCATCACATA-----GCTGAT-GCAT
* *
28159318 GTCCCAGACATGGTCTTACATTGACAC--CTCTATA
59 GTCCCAGACATGGTCTTACATTGACTCTAATCT-TA
* *
28159352 CGTGCCGATGCCATGTCCCAGACATGGTCTTACACTGACACATCACATAGCTGATGCATGTCCCA
1 -ATGCCGATGCCATGTCCCAGACATGGTCTTACACTGACTCATCACATAGCTGATGCATGTCCCA
* * *
28159417 GACAT-GTCTTACACTGGCTCTAGTCTTA
65 GACATGGTCTTACATTGACTCTAATCTTA
* * * * *
28159445 ATGTCGATGCCATGTCCCAGACATGGTCTTACACTGGCTC-TCATAATGTGGCCGATGCATGTCC
1 ATGCCGATGCCATGTCCCAGACATGGTCTTACACTGACTCATCA-CA--TAGCTGATGCATGTCC
*
28159509 CAAACAT-GTCTTACATT
63 CAGACATGGTCTTACATT
28159526 AGCACACAAA
Statistics
Matches: 220, Mismatches: 34, Indels: 36
0.76 0.12 0.12
Matches are distributed among these distances:
91 3 0.01
92 49 0.22
93 16 0.07
94 38 0.17
95 3 0.01
96 38 0.17
97 1 0.00
98 33 0.15
99 38 0.17
100 1 0.00
ACGTcount: A:0.26, C:0.29, G:0.17, T:0.28
Consensus pattern (93 bp):
ATGCCGATGCCATGTCCCAGACATGGTCTTACACTGACTCATCACATAGCTGATGCATGTCCCAG
ACATGGTCTTACATTGACTCTAATCTTA
Found at i:28165315 original size:43 final size:43
Alignment explanation
Indices: 28165254--28165460 Score: 333
Period size: 43 Copynumber: 4.8 Consensus size: 43
28165244 ATCATTTCAG
* *
28165254 CGGCATTATGCCTGCTAGGCACGAAGGCCCGAATACACATCAC
1 CGGCACTAAGCCTGCTAGGCACGAAGGCCCGAATACACATCAC
*
28165297 CGGCACGAAGCCTGCTAGGCACGAAGGCCCGAATACACATCAC
1 CGGCACTAAGCCTGCTAGGCACGAAGGCCCGAATACACATCAC
* * * *
28165340 TGGCACAAAGCTTGCTAGGCACGAAGGCCCGAATACACATCAT
1 CGGCACTAAGCCTGCTAGGCACGAAGGCCCGAATACACATCAC
* *
28165383 CGACACTAAGCCTGCTAGGCACGAAGGCCCGAATACACATCAT
1 CGGCACTAAGCCTGCTAGGCACGAAGGCCCGAATACACATCAC
28165426 CGGCACTAAGCCTGCTAGGCACGAAGGCCCGAATA
1 CGGCACTAAGCCTGCTAGGCACGAAGGCCCGAATA
28165461 TAATACCAGT
Statistics
Matches: 152, Mismatches: 12, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
43 152 1.00
ACGTcount: A:0.30, C:0.32, G:0.24, T:0.14
Consensus pattern (43 bp):
CGGCACTAAGCCTGCTAGGCACGAAGGCCCGAATACACATCAC
Found at i:28173249 original size:46 final size:46
Alignment explanation
Indices: 28173182--28173359 Score: 196
Period size: 46 Copynumber: 3.8 Consensus size: 46
28173172 TGTAACCCGC
* *
28173182 CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGGGTGTTCGCAT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGGATGTTAGCAT
* *
28173228 CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGGATGCCTAG-TT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGGATG-TTAGCAT
* *** * * ** *
28173274 ACATCTCTCGAACTCGGACTCAACTCAACGAGTTCGAACATTTGCAT
1 CCATAAGT-GAACTCGGACTCAACTCAACGAGCTCGGATGTTAGCAT
* *
28173321 CCATAAGTGAACTGGGACTCAACTCAACGAGTTCGGATG
1 CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGGATG
28173360 CCCAAACATC
Statistics
Matches: 106, Mismatches: 23, Indels: 6
0.79 0.17 0.04
Matches are distributed among these distances:
46 72 0.68
47 34 0.32
ACGTcount: A:0.29, C:0.28, G:0.21, T:0.22
Consensus pattern (46 bp):
CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGGATGTTAGCAT
Found at i:28173302 original size:93 final size:93
Alignment explanation
Indices: 28173190--28173361 Score: 272
Period size: 93 Copynumber: 1.8 Consensus size: 93
28173180 GCCCATAAGT
****
28173190 GAACTCGGACTCAACTCAACGAGCTCGGGTGTTCGCATCCATAAGTGAACTCGGACTCAACTCAA
1 GAACTCGGACTCAACTCAACGAGCTCGAACATTCGCATCCATAAGTGAACTCGGACTCAACTCAA
28173255 CGAGCTCGGATGCCTAGTTACATCTCTC
66 CGAGCTCGGATGCCTAGTTACATCTCTC
* * *
28173283 GAACTCGGACTCAACTCAACGAGTTCGAACATTTGCATCCATAAGTGAACTGGGACTCAACTCAA
1 GAACTCGGACTCAACTCAACGAGCTCGAACATTCGCATCCATAAGTGAACTCGGACTCAACTCAA
*
28173348 CGAGTTCGGATGCC
66 CGAGCTCGGATGCC
28173362 CAAACATCCT
Statistics
Matches: 71, Mismatches: 8, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
93 71 1.00
ACGTcount: A:0.28, C:0.28, G:0.22, T:0.22
Consensus pattern (93 bp):
GAACTCGGACTCAACTCAACGAGCTCGAACATTCGCATCCATAAGTGAACTCGGACTCAACTCAA
CGAGCTCGGATGCCTAGTTACATCTCTC
Found at i:28176559 original size:37 final size:37
Alignment explanation
Indices: 28176517--28176590 Score: 148
Period size: 37 Copynumber: 2.0 Consensus size: 37
28176507 AAAATTTTAG
28176517 AAAACAACATGAACACACTCATGGTAAAACCCTAGAC
1 AAAACAACATGAACACACTCATGGTAAAACCCTAGAC
28176554 AAAACAACATGAACACACTCATGGTAAAACCCTAGAC
1 AAAACAACATGAACACACTCATGGTAAAACCCTAGAC
28176591 TTTCAACCAT
Statistics
Matches: 37, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
37 37 1.00
ACGTcount: A:0.49, C:0.27, G:0.11, T:0.14
Consensus pattern (37 bp):
AAAACAACATGAACACACTCATGGTAAAACCCTAGAC
Found at i:28185453 original size:19 final size:19
Alignment explanation
Indices: 28185417--28185455 Score: 51
Period size: 19 Copynumber: 2.1 Consensus size: 19
28185407 CTCTCTAGTC
*
28185417 ATTTTCATATCATCTCAAG
1 ATTTTCATACCATCTCAAG
* *
28185436 ATTTTCATGCCATGTCAAG
1 ATTTTCATACCATCTCAAG
28185455 A
1 A
28185456 GTTATATGTC
Statistics
Matches: 17, Mismatches: 3, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
19 17 1.00
ACGTcount: A:0.31, C:0.21, G:0.10, T:0.38
Consensus pattern (19 bp):
ATTTTCATACCATCTCAAG
Found at i:28187374 original size:27 final size:27
Alignment explanation
Indices: 28187344--28187439 Score: 129
Period size: 27 Copynumber: 3.6 Consensus size: 27
28187334 TTCACTATAG
*
28187344 AGGCTTTTCTTTCATGATTCATCACAA
1 AGGCTTTTCTTTCATGATTCACCACAA
*
28187371 AGGCTTTTATTTCATGATTCACCACAA
1 AGGCTTTTCTTTCATGATTCACCACAA
* * *
28187398 GGGTTTTTCTTTCATGATTCGCCACAA
1 AGGCTTTTCTTTCATGATTCACCACAA
**
28187425 AGATTTTTCTTTCAT
1 AGGCTTTTCTTTCAT
28187440 AGTTCACTAT
Statistics
Matches: 61, Mismatches: 8, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
27 61 1.00
ACGTcount: A:0.24, C:0.21, G:0.12, T:0.43
Consensus pattern (27 bp):
AGGCTTTTCTTTCATGATTCACCACAA
Found at i:28189992 original size:17 final size:17
Alignment explanation
Indices: 28189970--28190003 Score: 68
Period size: 17 Copynumber: 2.0 Consensus size: 17
28189960 GTTCATCTAG
28189970 GCTTAAGATGCGAAGAA
1 GCTTAAGATGCGAAGAA
28189987 GCTTAAGATGCGAAGAA
1 GCTTAAGATGCGAAGAA
28190004 ATTCGATAAA
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
17 17 1.00
ACGTcount: A:0.41, C:0.12, G:0.29, T:0.18
Consensus pattern (17 bp):
GCTTAAGATGCGAAGAA
Found at i:28190573 original size:46 final size:45
Alignment explanation
Indices: 28190430--28190639 Score: 176
Period size: 46 Copynumber: 4.5 Consensus size: 45
28190420 TTTGTGGGCT
* *
28190430 AGTGTAAGA-ATGTCTGGGACATGCATCGGCC--GCATTATGAGAGCC
1 AGTGTAAGACATGTCTGGGACATGCATC-GCCTTG-A-GACGAGAGCC
* * * * *
28190475 AGTGTAAGACCATGCCTAGGACATGGCATCGGCATTAAGACGAGAGCT
1 AGTGTAAGA-CATGTCTGGGACAT-GCATC-GCCTTGAGACGAGAGCC
28190523 AGTGTAAGACATGTCTGGGACATGCATCGTCCTTGAGACGTA-AGCC
1 AGTGTAAGACATGTCTGGGACATGCATCG-CCTTGAGACG-AGAGCC
* * * * * * *
28190569 AGTGTAAGACATGTTTGGGACATGCATAGGCTACGAGATGATAGTC
1 AGTGTAAGACATGTCTGGGACATGCATCGCCT-TGAGACGAGAGCC
28190615 AGTGTAAGAACATGTCTGGGACATG
1 AGTGTAAG-ACATGTCTGGGACATG
28190640 GCATTGGCAC
Statistics
Matches: 136, Mismatches: 19, Indels: 18
0.79 0.11 0.10
Matches are distributed among these distances:
45 13 0.10
46 59 0.43
47 39 0.29
48 24 0.18
49 1 0.01
ACGTcount: A:0.29, C:0.18, G:0.30, T:0.23
Consensus pattern (45 bp):
AGTGTAAGACATGTCTGGGACATGCATCGCCTTGAGACGAGAGCC
Found at i:28204164 original size:46 final size:47
Alignment explanation
Indices: 28204045--28204221 Score: 184
Period size: 46 Copynumber: 3.9 Consensus size: 47
28204035 GTAACCCGCC
* * * * * *
28204045 CATAAGTGAACTCGGACTCAACTCAACGAGCTCGG-CG-TTCGCATC
1 CATAACTGAACTCGGACTCAACTCAACGAGTTCGGATGCCTAGCATA
* * *
28204090 CATAAGTGAACTCGGACTCAACTCAACGAGCTCGGATGCCTAG-TTA
1 CATAACTGAACTCGGACTCAACTCAACGAGTTCGGATGCCTAGCATA
* * * *
28204136 CAT-CCTCGAACTCGGACTCAACTCAACGAGTTCGGACG-CTCGCATC
1 CATAACT-GAACTCGGACTCAACTCAACGAGTTCGGATGCCTAGCATA
*
28204182 CATAAGTGAACTCGGACTCAACTCAACGAGTTCGGATGCC
1 CATAACTGAACTCGGACTCAACTCAACGAGTTCGGATGCC
28204222 CAAATATCCA
Statistics
Matches: 111, Mismatches: 15, Indels: 10
0.82 0.11 0.07
Matches are distributed among these distances:
45 39 0.35
46 68 0.61
47 4 0.04
ACGTcount: A:0.28, C:0.31, G:0.21, T:0.20
Consensus pattern (47 bp):
CATAACTGAACTCGGACTCAACTCAACGAGTTCGGATGCCTAGCATA
Found at i:28204208 original size:92 final size:91
Alignment explanation
Indices: 28204052--28204221 Score: 304
Period size: 92 Copynumber: 1.9 Consensus size: 91
28204042 GCCCATAAGT
*
28204052 GAACTCGGACTCAACTCAACGAGCTCGGCGTTCGCATCCATAAGTGAACTCGGACTCAACTCAAC
1 GAACTCGGACTCAACTCAACGAGCTCGGCGCTCGCATCCATAAGTGAACTCGGACTCAACTCAAC
28204117 GAGCTCGGATGCCTAGTTACATCCTC
66 GAGCTCGGATGCCTAGTTACATCCTC
*
28204143 GAACTCGGACTCAACTCAACGAGTTCGGACGCTCGCATCCATAAGTGAACTCGGACTCAACTCAA
1 GAACTCGGACTCAACTCAACGAGCTCGG-CGCTCGCATCCATAAGTGAACTCGGACTCAACTCAA
*
28204208 CGAGTTCGGATGCC
65 CGAGCTCGGATGCC
28204222 CAAATATCCA
Statistics
Matches: 75, Mismatches: 3, Indels: 1
0.95 0.04 0.01
Matches are distributed among these distances:
91 27 0.36
92 48 0.64
ACGTcount: A:0.27, C:0.31, G:0.22, T:0.20
Consensus pattern (91 bp):
GAACTCGGACTCAACTCAACGAGCTCGGCGCTCGCATCCATAAGTGAACTCGGACTCAACTCAAC
GAGCTCGGATGCCTAGTTACATCCTC
Found at i:28206638 original size:30 final size:30
Alignment explanation
Indices: 28206594--28206682 Score: 94
Period size: 30 Copynumber: 3.0 Consensus size: 30
28206584 CAAAGATAAC
28206594 AAGAAAACC-GAATAAAGAAATCCAAGATA
1 AAGAAAACCAGAATAAAGAAATCCAAGATA
* *
28206623 GAGAAACCCAGAATAAAGAAATCC-AGAATA
1 AAGAAAACCAGAATAAAGAAATCCAAG-ATA
* * *
28206653 AAGAGATCCAGGAA-AAAGAAACCCAAGATA
1 AAGAAAACCA-GAATAAAGAAATCCAAGATA
28206683 CGATACTATG
Statistics
Matches: 50, Mismatches: 6, Indels: 7
0.79 0.10 0.11
Matches are distributed among these distances:
29 9 0.18
30 36 0.72
31 5 0.10
ACGTcount: A:0.58, C:0.16, G:0.17, T:0.09
Consensus pattern (30 bp):
AAGAAAACCAGAATAAAGAAATCCAAGATA
Found at i:28206642 original size:15 final size:15
Alignment explanation
Indices: 28206594--28206673 Score: 85
Period size: 15 Copynumber: 5.4 Consensus size: 15
28206584 CAAAGATAAC
*
28206594 AAGAAAACC-GAATA
1 AAGAAATCCAGAATA
28206608 AAGAAATCCA-AGATA
1 AAGAAATCCAGA-ATA
* *
28206623 GAGAAACCCAGAATA
1 AAGAAATCCAGAATA
28206638 AAGAAATCCAGAATA
1 AAGAAATCCAGAATA
*
28206653 AAGAGATCCAGGAA-A
1 AAGAAATCCA-GAATA
28206668 AAGAAA
1 AAGAAA
28206674 CCCAAGATAC
Statistics
Matches: 55, Mismatches: 7, Indels: 7
0.80 0.10 0.10
Matches are distributed among these distances:
14 9 0.16
15 42 0.76
16 4 0.07
ACGTcount: A:0.60, C:0.14, G:0.17, T:0.09
Consensus pattern (15 bp):
AAGAAATCCAGAATA
Found at i:28211548 original size:132 final size:132
Alignment explanation
Indices: 28211311--28212295 Score: 1501
Period size: 132 Copynumber: 7.5 Consensus size: 132
28211301 CGAATCCTAC
* * * * * *
28211311 AGATCTTGTTTCCTTGAAGTTGCACTGAAGCAGATCGAAGACGGCGAATCTTGGCTTCCTGA-AG
1 AGATCTCGTTTCCCTGAAGTTGCAGTGGAGCAGATCGAAGACGGTGAATCTAGGCTTCCTGAGA-
* * *
28211375 TTGCAGTGAAGCAGATGTAAGCCACCAACCTAGCTCCCTAAAGTTGTAGTGGAGTAGGTTGAAAT
65 TTGCAGTGAAGCAGATTTGAGCCATCAACCTAGCTCCCTAAAGTTGTAGTGGAGTAGGTTGAAAT
28211440 TTT
130 TTT
*
28211443 AGATCTCGTTTCCCTGAAGTTGCAGTGGAACAGATCGAAGACGGTGAATCTAGGCTTCCTGAGAT
1 AGATCTCGTTTCCCTGAAGTTGCAGTGGAGCAGATCGAAGACGGTGAATCTAGGCTTCCTGAGAT
*
28211508 TGCAGTGAAGCAGATTTGAGCCACCAACCTAGCTCCCTAAAGTTGTAGTGGAGTAGGTTGAAATT
66 TGCAGTGAAGCAGATTTGAGCCATCAACCTAGCTCCCTAAAGTTGTAGTGGAGTAGGTTGAAATT
28211573 TT
131 TT
*
28211575 AGATCTCGTTTCCCTGAAGTTGCAGTGGAGCAGATCGAAGACGGTGAATCTAGGCTTCCTAAGAT
1 AGATCTCGTTTCCCTGAAGTTGCAGTGGAGCAGATCGAAGACGGTGAATCTAGGCTTCCTGAGAT
*
28211640 TGCAGTGAAGCAGATTTGAGCCATCACCCTAGCTCCCTAAAGTTGTAGTGGAGTAGGTTGAAATT
66 TGCAGTGAAGCAGATTTGAGCCATCAACCTAGCTCCCTAAAGTTGTAGTGGAGTAGGTTGAAATT
28211705 TT
131 TT
*
28211707 AGATCTCGTTTCCCTGAAGTTGCAGTGGAGCAGATCGAAGACGGTGAATCTAGGCTTCCTGTGAT
1 AGATCTCGTTTCCCTGAAGTTGCAGTGGAGCAGATCGAAGACGGTGAATCTAGGCTTCCTGAGAT
* *
28211772 TGCAGTGAAGCAGATTTGAGCCATCACCCTAGCTCCCTAAAGTTGTAGTAGAGTAGGTTGAAATT
66 TGCAGTGAAGCAGATTTGAGCCATCAACCTAGCTCCCTAAAGTTGTAGTGGAGTAGGTTGAAATT
28211837 TT
131 TT
* * * *
28211839 AGATCTCGTTTCCCTGAAGTTGCAGTAGAGCAGATCGAAGACGATGAATCTAGGCTTTCTGAGTT
1 AGATCTCGTTTCCCTGAAGTTGCAGTGGAGCAGATCGAAGACGGTGAATCTAGGCTTCCTGAGAT
*
28211904 TGCAGTGAAGCAGATTTGAGCCATC-ACTCTAGCTCCCTAAAATTGTAGTGGAGTAGGTTGAAAT
66 TGCAGTGAAGCAGATTTGAGCCATCAAC-CTAGCTCCCTAAAGTTGTAGTGGAGTAGGTTGAAAT
28211968 TTT
130 TTT
* * *
28211971 AGATCTCGTTTCCCTAAAGTTGCAGTGGAGCAGATCAAAGATGGTGAATCTAGGCTTCCTGAGAT
1 AGATCTCGTTTCCCTGAAGTTGCAGTGGAGCAGATCGAAGACGGTGAATCTAGGCTTCCTGAGAT
* * *
28212036 TGCAGTGAAGTAGATTTGAGCCATCACCCTAGCTCCCTAAAGTGGTAGTGGAGTAGGTTGAAATT
66 TGCAGTGAAGCAGATTTGAGCCATCAACCTAGCTCCCTAAAGTTGTAGTGGAGTAGGTTGAAATT
28212101 TT
131 TT
* * *
28212103 AGATCTCGTTTCCCTAAAGTTGTAGTGGAGCAGATCGAAGACGGTGAATCTAGGCTTCTTGAGAT
1 AGATCTCGTTTCCCTGAAGTTGCAGTGGAGCAGATCGAAGACGGTGAATCTAGGCTTCCTGAGAT
* * * * * *
28212168 TGCAGTG-AGGATGATTTAACCCACCAACCTAGCTCTCTAAAGTTGTAGTGGAGTAGGCTGAAGA
66 TGCAGTGAAGCA-GATTTGAGCCATCAACCTAGCTCCCTAAAGTTGTAGTGGAGTAGGTTGAA-A
*
28212232 TTGT
129 TTTT
* * * * ***
28212236 AGATCTTGTTTCCCTG-AGATTGTAGTGGAACAGATCAAAGACGACAAATCTAGGCTTCCT
1 AGATCTCGTTTCCCTGAAG-TTGCAGTGGAGCAGATCGAAGACGGTGAATCTAGGCTTCCT
28212296 AATGTTGTAG
Statistics
Matches: 791, Mismatches: 56, Indels: 11
0.92 0.07 0.01
Matches are distributed among these distances:
131 4 0.01
132 732 0.93
133 55 0.07
ACGTcount: A:0.27, C:0.18, G:0.26, T:0.29
Consensus pattern (132 bp):
AGATCTCGTTTCCCTGAAGTTGCAGTGGAGCAGATCGAAGACGGTGAATCTAGGCTTCCTGAGAT
TGCAGTGAAGCAGATTTGAGCCATCAACCTAGCTCCCTAAAGTTGTAGTGGAGTAGGTTGAAATT
TT
Found at i:28215998 original size:130 final size:129
Alignment explanation
Indices: 28215828--28216162 Score: 381
Period size: 130 Copynumber: 2.6 Consensus size: 129
28215818 GACGAGATTT
* *
28215828 GATATTTGACAATTTGCGGAATCGTGCCCTAACGTGTTGGGTTGCAATTTCGTGTTTGCTCAAAA
1 GATATTTGACAATTCG-GGAATCATGCCCTAACGTGTTGGGTTGCAATTTC-TGTTTG-TCAAAA
* * *
28215893 TAATCGAATATCACTTCAAAATTTCACTCATGTCTT-TTAAAATCCCTT-AAACGAAGGCGATAC
63 TAATCGAATATCACTTCAAAATTTCACTCAAGTCTTCTAAAAATCCCTTAAAACGAAGGCAATAC
28215956 GC
128 GC
* * *
28215958 GATTTTTGGA-AATTCGTGGAATCATGCCCTAACGTGTTGGGTTGCAATTTC-GATTGTTTAAAA
1 GATATTT-GACAATTCG-GGAATCATGCCCTAACGTGTTGGGTTGCAATTTCTGTTTG-TCAAAA
* * * *
28216021 TAATCAAATATCCCTTCAAAATTTCACTCAAGTCTTCTAAAAATCCTTTAAAACGAAGGTAATAC
63 TAATCGAATATCACTTCAAAATTTCACTCAAGTCTTCTAAAAATCCCTTAAAACGAAGGCAATAC
*
28216086 TC
128 GC
* * * * * ** *
28216088 GGTATTTGACAATTTGGGAATCATGCCTTATCGTGCTGGGTTGTGATTTCTCGTTTGTCTAAAAC
1 GATATTTGACAATTCGGGAATCATGCCCTAACGTGTTGGGTTGCAATTTCT-GTTTGTC-AAAAT
28216153 AATCGAATAT
64 AATCGAATAT
28216163 TCCTTTAGGT
Statistics
Matches: 171, Mismatches: 27, Indels: 13
0.81 0.13 0.06
Matches are distributed among these distances:
128 42 0.25
129 41 0.24
130 69 0.40
131 19 0.11
ACGTcount: A:0.30, C:0.18, G:0.18, T:0.35
Consensus pattern (129 bp):
GATATTTGACAATTCGGGAATCATGCCCTAACGTGTTGGGTTGCAATTTCTGTTTGTCAAAATAA
TCGAATATCACTTCAAAATTTCACTCAAGTCTTCTAAAAATCCCTTAAAACGAAGGCAATACGC
Found at i:28216062 original size:128 final size:131
Alignment explanation
Indices: 28215845--28216079 Score: 359
Period size: 128 Copynumber: 1.8 Consensus size: 131
28215835 GACAATTTGC
* * *
28215845 GGAATCGTGCCCTAACGTGTTGGGTTGCAATTTCGTGTTTGCTCAAAATAATCGAATATCACTTC
1 GGAATCATGCCCTAACGTGTTGGGTTGCAATTTCG-GATTGCTCAAAATAATCAAATATCACTTC
* *
28215910 AAAATTTCACTCATGTCTT-TTAAAATCCCTT-AAACGAAGGCGATACGCGATTTTTGGAAATTC
65 AAAATTTCACTCAAGTCTTCTAAAAATCCCTTAAAACGAAGGCGATACGCGATTTTTGGAAATTC
28215973 GT
130 GT
* * *
28215975 GGAATCATGCCCTAACGTGTTGGGTTGCAATTTC-GATTGTTTAAAATAATCAAATATCCCTTCA
1 GGAATCATGCCCTAACGTGTTGGGTTGCAATTTCGGATTGCTCAAAATAATCAAATATCACTTCA
*
28216039 AAATTTCACTCAAGTCTTCTAAAAATCCTTTAAAACGAAGG
66 AAATTTCACTCAAGTCTTCTAAAAATCCCTTAAAACGAAGG
28216080 TAATACTCGG
Statistics
Matches: 94, Mismatches: 9, Indels: 4
0.88 0.08 0.04
Matches are distributed among these distances:
128 42 0.45
129 10 0.11
130 42 0.45
ACGTcount: A:0.31, C:0.19, G:0.17, T:0.33
Consensus pattern (131 bp):
GGAATCATGCCCTAACGTGTTGGGTTGCAATTTCGGATTGCTCAAAATAATCAAATATCACTTCA
AAATTTCACTCAAGTCTTCTAAAAATCCCTTAAAACGAAGGCGATACGCGATTTTTGGAAATTCG
T
Found at i:28226858 original size:49 final size:47
Alignment explanation
Indices: 28226786--28226957 Score: 163
Period size: 49 Copynumber: 3.6 Consensus size: 47
28226776 TGATGTGTGT
*
28226786 GCTAGTGTAAAACCTGTCTGGGACATGGCATCGGCCTCAAGATATGCAA
1 GCTAGTGTAAGACCTGTCTGGGACATGGCATCGGCCTCAAG-TATG-AA
* * * * *
28226835 GCTAGTGTAAGACCTTTCTGGGACATGGCATCGGCTTGAGGTGTG--
1 GCTAGTGTAAGACCTGTCTGGGACATGGCATCGGCCTCAAGTATGAA
* * *
28226880 TC-AGTGTAAGACCTGTCTGGGACATGGCATCGACCTCGACGTATGGAA
1 GCTAGTGTAAGACCTGTCTGGGACATGGCATCGGCCTC-AAGTAT-GAA
* * *
28226928 G-TCAGTGTAAGACCTATTTGGGACACGGCA
1 GCT-AGTGTAAGACCTGTCTGGGACATGGCA
28226958 ACGACTTAGA
Statistics
Matches: 100, Mismatches: 17, Indels: 12
0.78 0.13 0.09
Matches are distributed among these distances:
44 31 0.31
45 5 0.05
46 1 0.01
48 3 0.03
49 60 0.60
ACGTcount: A:0.24, C:0.21, G:0.30, T:0.24
Consensus pattern (47 bp):
GCTAGTGTAAGACCTGTCTGGGACATGGCATCGGCCTCAAGTATGAA
Found at i:28226941 original size:93 final size:95
Alignment explanation
Indices: 28226780--28226957 Score: 249
Period size: 93 Copynumber: 1.9 Consensus size: 95
28226770 TTTGGGTGAT
*
28226780 GTGTGTGCTAGTGTAAAACCTGTCTGGGACATGGCATCGGCCTCAAGATATGCAAGCTAGTGTAA
1 GTGTGTGCTAGTGTAAAACCTGTCTGGGACATGGCATCGACCTCAAGATATGCAAGCTAGTGTAA
*
28226845 GACCT-TTCTGGGACATGGCATCGGCTTGAG
66 GACCTATT-TGGGACACGGCATCGGCTTGAG
* * *
28226875 GTGTGT-C-AGTGTAAGACCTGTCTGGGACATGGCATCGACCTCGACG-TATGGAAG-TCAGTGT
1 GTGTGTGCTAGTGTAAAACCTGTCTGGGACATGGCATCGACCTC-AAGATATGCAAGCT-AGTGT
28226936 AAGACCTATTTGGGACACGGCA
64 AAGACCTATTTGGGACACGGCA
28226958 ACGACTTAGA
Statistics
Matches: 75, Mismatches: 5, Indels: 8
0.85 0.06 0.09
Matches are distributed among these distances:
92 1 0.01
93 63 0.84
94 5 0.07
95 6 0.08
ACGTcount: A:0.24, C:0.20, G:0.31, T:0.25
Consensus pattern (95 bp):
GTGTGTGCTAGTGTAAAACCTGTCTGGGACATGGCATCGACCTCAAGATATGCAAGCTAGTGTAA
GACCTATTTGGGACACGGCATCGGCTTGAG
Found at i:28233280 original size:42 final size:41
Alignment explanation
Indices: 28233233--28233369 Score: 139
Period size: 42 Copynumber: 3.2 Consensus size: 41
28233223 TCCTGGACTT
* *
28233233 GGTCTTACATGTATTCAGTATCGATGCCTTTGTCCCAGACAG
1 GGTCTTACATGTATTCAG-ATCGATGCCTATGTCCCAGACAC
* * * * * *
28233275 GGTCTTACACGAAATCAGATACGATGCCTATGTCCTAAACAT
1 GGTCTTACATGTATTCAGAT-CGATGCCTATGTCCCAGACAC
* *
28233317 GGTCTTACATGTAAATCTCAAATCGAGGCCTATGTCCCAGACAC
1 GGTCTTACATGT--AT-TCAGATCGATGCCTATGTCCCAGACAC
28233361 GGTCTTACA
1 GGTCTTACA
28233370 CGATCAATGT
Statistics
Matches: 76, Mismatches: 15, Indels: 6
0.78 0.15 0.06
Matches are distributed among these distances:
41 2 0.03
42 42 0.55
44 27 0.36
45 5 0.07
ACGTcount: A:0.28, C:0.25, G:0.19, T:0.28
Consensus pattern (41 bp):
GGTCTTACATGTATTCAGATCGATGCCTATGTCCCAGACAC
Found at i:28236536 original size:27 final size:27
Alignment explanation
Indices: 28236500--28236631 Score: 156
Period size: 27 Copynumber: 4.9 Consensus size: 27
28236490 GTAGGGTTCG
*
28236500 CCACAGAGGCTTTTCTTTCATGATTCA
1 CCACAAAGGCTTTTCTTTCATGATTCA
* * *
28236527 CCATAAAGGCTTTACTTTCATGATTTA
1 CCACAAAGGCTTTTCTTTCATGATTCA
* * *
28236554 CCACAAGGGTTTTTCTTTCATGATTCG
1 CCACAAAGGCTTTTCTTTCATGATTCA
** * *
28236581 CCACAAAGATTTTTCTTTCATGGTTCG
1 CCACAAAGGCTTTTCTTTCATGATTCA
*
28236608 CCACAAAGGCTTTTATTTCATGAT
1 CCACAAAGGCTTTTCTTTCATGAT
28236632 GGGTTTACGA
Statistics
Matches: 88, Mismatches: 17, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
27 88 1.00
ACGTcount: A:0.24, C:0.22, G:0.14, T:0.39
Consensus pattern (27 bp):
CCACAAAGGCTTTTCTTTCATGATTCA
Found at i:28238802 original size:34 final size:34
Alignment explanation
Indices: 28238764--28238831 Score: 136
Period size: 34 Copynumber: 2.0 Consensus size: 34
28238754 ATATTAAACT
28238764 AGACTCAATAAGCTTTAATTTCATATTTTATTCA
1 AGACTCAATAAGCTTTAATTTCATATTTTATTCA
28238798 AGACTCAATAAGCTTTAATTTCATATTTTATTCA
1 AGACTCAATAAGCTTTAATTTCATATTTTATTCA
28238832 GCCTCTAATT
Statistics
Matches: 34, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
34 34 1.00
ACGTcount: A:0.35, C:0.15, G:0.06, T:0.44
Consensus pattern (34 bp):
AGACTCAATAAGCTTTAATTTCATATTTTATTCA
Found at i:28239550 original size:50 final size:50
Alignment explanation
Indices: 28239482--28239716 Score: 252
Period size: 50 Copynumber: 4.8 Consensus size: 50
28239472 ATCAAAGTTA
* * *
28239482 ATGCCATGTCTCAGACATGGTCTTACAATGACTCTCGTATATCGAGGCCG
1 ATGCCATGTCCCAGACATGGTCTTACACTGACTCTCATATATCGAGGCCG
* * * * *
28239532 GTACCATGTCCCATACATGGTCTTACACTGGCTCTCATCTATCG-GTGCCG
1 ATGCCATGTCCCAGACATGGTCTTACACTGACTCTCATATATCGAG-GCCG
* * *
28239582 ATGCCATGTCCAAGACATGGTCTTACACTGA---T-ACATATC-AAGCCG
1 ATGCCATGTCCCAGACATGGTCTTACACTGACTCTCATATATCGAGGCCG
** *
28239627 ATGCCATGTCCCAGACATGGTCTTACACT-AGCTCTCATATCGCGAGGCTG
1 ATGCCATGTCCCAGACATGGTCTTACACTGA-CTCTCATATATCGAGGCCG
*
28239677 ATGCCATGTTCCAGACATGGTCTTACACT-AGCTCTCATAT
1 ATGCCATGTCCCAGACATGGTCTTACACTGA-CTCTCATAT
28239717 CTCCCTAGCA
Statistics
Matches: 154, Mismatches: 23, Indels: 16
0.80 0.12 0.08
Matches are distributed among these distances:
44 1 0.01
45 32 0.21
46 5 0.03
47 1 0.01
48 1 0.01
49 5 0.03
50 109 0.71
ACGTcount: A:0.24, C:0.29, G:0.20, T:0.28
Consensus pattern (50 bp):
ATGCCATGTCCCAGACATGGTCTTACACTGACTCTCATATATCGAGGCCG
Found at i:28239655 original size:95 final size:98
Alignment explanation
Indices: 28239482--28239705 Score: 271
Period size: 95 Copynumber: 2.3 Consensus size: 98
28239472 ATCAAAGTTA
* * * * *
28239482 ATGCCATGTCTCAGACATGGTCTTACAATGACTCTCGTATATCGAGGCCGGTACCATGTCCCATA
1 ATGCCATGTC-CAGACATGGTCTTACACTGACTCACG-ATATCGAAGCCGATACCATGTCCCAGA
* *
28239547 CATGGTCTTACACTGGCTCTCATCTATCG-G-TGCCG
64 CATGGTCTTACACTAGCTCTCA--TATCGCGAGGCCG
*
28239582 ATGCCATGTCCAAGACATGGTCTTACACTGA-T-AC-ATATC-AAGCCGATGCCATGTCCCAGAC
1 ATGCCATGTCC-AGACATGGTCTTACACTGACTCACGATATCGAAGCCGATACCATGTCCCAGAC
*
28239643 ATGGTCTTACACTAGCTCTCATATCGCGAGGCTG
65 ATGGTCTTACACTAGCTCTCATATCGCGAGGCCG
28239677 ATGCCATGTTCCAGACATGGTCTTACACT
1 ATGCCATG-TCCAGACATGGTCTTACACT
28239706 AGCTCTCATA
Statistics
Matches: 111, Mismatches: 9, Indels: 13
0.83 0.07 0.10
Matches are distributed among these distances:
93 5 0.05
94 1 0.01
95 66 0.59
96 8 0.07
98 1 0.01
99 2 0.02
100 28 0.25
ACGTcount: A:0.24, C:0.29, G:0.20, T:0.28
Consensus pattern (98 bp):
ATGCCATGTCCAGACATGGTCTTACACTGACTCACGATATCGAAGCCGATACCATGTCCCAGACA
TGGTCTTACACTAGCTCTCATATCGCGAGGCCG
Found at i:28242345 original size:24 final size:24
Alignment explanation
Indices: 28242313--28242360 Score: 87
Period size: 24 Copynumber: 2.0 Consensus size: 24
28242303 TGACATTGTG
28242313 CTAAGTGAAATAAGACCATGGCAT
1 CTAAGTGAAATAAGACCATGGCAT
*
28242337 CTAAGTGAAATAAGTCCATGGCAT
1 CTAAGTGAAATAAGACCATGGCAT
28242361 TATGCTAAGT
Statistics
Matches: 23, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
24 23 1.00
ACGTcount: A:0.40, C:0.17, G:0.21, T:0.23
Consensus pattern (24 bp):
CTAAGTGAAATAAGACCATGGCAT
Found at i:28242450 original size:51 final size:51
Alignment explanation
Indices: 28242395--28242591 Score: 324
Period size: 51 Copynumber: 3.9 Consensus size: 51
28242385 TGAACCTTAG
* *
28242395 GAATAAAATAGCTATGGACACAAGTGTGGTACTATGTGAAGGTCACTTTGT
1 GAATAAAATAGCTTTGGACACAAGTGTGGTACTATGTGAAGGCCACTTTGT
*
28242446 GAATATAATAGCTTTGGACACAAGTGTGGTACTATGTGAAGGCCACTTTGT
1 GAATAAAATAGCTTTGGACACAAGTGTGGTACTATGTGAAGGCCACTTTGT
* *
28242497 GAATAAAATAGCTTTGGACACAAGTGTAGTACTATGTGAAGGCCACATTGT
1 GAATAAAATAGCTTTGGACACAAGTGTGGTACTATGTGAAGGCCACTTTGT
*
28242548 GAATAAAATAGCTTTGG-CTACAAGGGTGGTACTATGTGAAGGCC
1 GAATAAAATAGCTTTGGAC-ACAAGTGTGGTACTATGTGAAGGCC
28242592 GCCATGTATC
Statistics
Matches: 137, Mismatches: 8, Indels: 2
0.93 0.05 0.01
Matches are distributed among these distances:
50 1 0.01
51 136 0.99
ACGTcount: A:0.32, C:0.13, G:0.26, T:0.28
Consensus pattern (51 bp):
GAATAAAATAGCTTTGGACACAAGTGTGGTACTATGTGAAGGCCACTTTGT
Found at i:28245509 original size:29 final size:29
Alignment explanation
Indices: 28245442--28245566 Score: 180
Period size: 29 Copynumber: 4.3 Consensus size: 29
28245432 AAGTCTACAA
* *
28245442 ACATGCATATGGCCCACTAGGCCC-AATC
1 ACATTCATATGGCCCATTAGGCCCAAATC
* *
28245470 TCATTCATATGGCCTATTAGGCCCAAATC
1 ACATTCATATGGCCCATTAGGCCCAAATC
* * *
28245499 ATATTCGTATGGCCCATTAGGCCTAAATC
1 ACATTCATATGGCCCATTAGGCCCAAATC
28245528 ACATTCATATGGCCCATTAGGCCCAAATC
1 ACATTCATATGGCCCATTAGGCCCAAATC
28245557 ACATTCATAT
1 ACATTCATAT
28245567 TCATGCTTTC
Statistics
Matches: 84, Mismatches: 12, Indels: 1
0.87 0.12 0.01
Matches are distributed among these distances:
28 20 0.24
29 64 0.76
ACGTcount: A:0.30, C:0.29, G:0.14, T:0.27
Consensus pattern (29 bp):
ACATTCATATGGCCCATTAGGCCCAAATC
Found at i:28248382 original size:12 final size:12
Alignment explanation
Indices: 28248365--28248397 Score: 57
Period size: 12 Copynumber: 2.8 Consensus size: 12
28248355 CTAACACTTT
28248365 CGCAGCCTCGGC
1 CGCAGCCTCGGC
28248377 CGCAGCCTCGGC
1 CGCAGCCTCGGC
*
28248389 CACAGCCTC
1 CGCAGCCTC
28248398 TTGCACCTCT
Statistics
Matches: 20, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
12 20 1.00
ACGTcount: A:0.12, C:0.52, G:0.27, T:0.09
Consensus pattern (12 bp):
CGCAGCCTCGGC
Found at i:28249979 original size:29 final size:29
Alignment explanation
Indices: 28249910--28250034 Score: 162
Period size: 29 Copynumber: 4.3 Consensus size: 29
28249900 AAGTCTACAT
* * *
28249910 ACATGCATATGGGCCACTAGGCCC-AATC
1 ACATTCATATGGCCCATTAGGCCCAAATC
** *
28249938 TTATTCATATGGCCCATTAGGCCCAATTC
1 ACATTCATATGGCCCATTAGGCCCAAATC
* *
28249967 ACATTCGTATGGCCCATTAGTCCCAAATC
1 ACATTCATATGGCCCATTAGGCCCAAATC
*
28249996 ACATTCATATGGCCCGTTAGGCCCAAATC
1 ACATTCATATGGCCCATTAGGCCCAAATC
28250025 ACATTCATAT
1 ACATTCATAT
28250035 TCATGCTTTC
Statistics
Matches: 82, Mismatches: 14, Indels: 1
0.85 0.14 0.01
Matches are distributed among these distances:
28 19 0.23
29 63 0.77
ACGTcount: A:0.28, C:0.30, G:0.15, T:0.27
Consensus pattern (29 bp):
ACATTCATATGGCCCATTAGGCCCAAATC
Found at i:28250270 original size:15 final size:15
Alignment explanation
Indices: 28250250--28250278 Score: 58
Period size: 15 Copynumber: 1.9 Consensus size: 15
28250240 CAAACTTTTG
28250250 GCTTTTCGGCATTTA
1 GCTTTTCGGCATTTA
28250265 GCTTTTCGGCATTT
1 GCTTTTCGGCATTT
28250279 CGGGATTTGC
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 14 1.00
ACGTcount: A:0.10, C:0.21, G:0.21, T:0.48
Consensus pattern (15 bp):
GCTTTTCGGCATTTA
Found at i:28253690 original size:41 final size:42
Alignment explanation
Indices: 28253645--28253767 Score: 110
Period size: 43 Copynumber: 2.9 Consensus size: 42
28253635 CGGCACGAAG
*
28253645 CCTGCTAGACTTTAAG-TCTGA-ACTCA-TTCACCGGCATTTCA
1 CCTGCTAGACTTGAAGCTC-GATA-TCATTTCACCGGCATTTCA
*
28253686 CCTGCTAGGCTTGAAGCTCGATATCATTTCACCGGCATTAT-A
1 CCTGCTAGACTTGAAGCTCGATATCATTTCACCGGCATT-TCA
* ** * * *
28253728 GCCTGCTAGGCCCGAAGCCCGATATTATCTCACCGGCATT
1 -CCTGCTAGACTTGAAGCTCGATATCATTTCACCGGCATT
28253768 ATAGCCTGCT
Statistics
Matches: 70, Mismatches: 7, Indels: 8
0.82 0.08 0.09
Matches are distributed among these distances:
41 19 0.27
42 16 0.23
43 35 0.50
ACGTcount: A:0.23, C:0.30, G:0.19, T:0.28
Consensus pattern (42 bp):
CCTGCTAGACTTGAAGCTCGATATCATTTCACCGGCATTTCA
Found at i:28253745 original size:43 final size:43
Alignment explanation
Indices: 28253671--28253794 Score: 171
Period size: 43 Copynumber: 2.9 Consensus size: 43
28253661 TCTGAACTCA
** *
28253671 TTCACCGGCATT-TCA-CCTGCTAGGCTTGAAGCTCGATATCAT
1 TTCACCGGCATTAT-AGCCTGCTAGGCCCGAAGCCCGATATCAT
*
28253713 TTCACCGGCATTATAGCCTGCTAGGCCCGAAGCCCGATATTAT
1 TTCACCGGCATTATAGCCTGCTAGGCCCGAAGCCCGATATCAT
* *
28253756 CTCACCGGCATTATAGCCTGCTAGGCCCGAAGCCTGATA
1 TTCACCGGCATTATAGCCTGCTAGGCCCGAAGCCCGATA
28253795 ATATTATTTA
Statistics
Matches: 74, Mismatches: 6, Indels: 3
0.89 0.07 0.04
Matches are distributed among these distances:
42 13 0.18
43 61 0.82
ACGTcount: A:0.23, C:0.31, G:0.21, T:0.26
Consensus pattern (43 bp):
TTCACCGGCATTATAGCCTGCTAGGCCCGAAGCCCGATATCAT
Found at i:28262678 original size:19 final size:19
Alignment explanation
Indices: 28262641--28262678 Score: 51
Period size: 19 Copynumber: 2.0 Consensus size: 19
28262631 CTTTATAACT
*
28262641 AATATTAAAATATATATAA
1 AATATTAAAATATAAATAA
28262660 AATATTTAAAATA-AAATAA
1 AATA-TTAAAATATAAATAA
28262679 TATAAAAAAA
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
19 9 0.53
20 8 0.47
ACGTcount: A:0.66, C:0.00, G:0.00, T:0.34
Consensus pattern (19 bp):
AATATTAAAATATAAATAA
Found at i:28276598 original size:19 final size:19
Alignment explanation
Indices: 28276561--28276598 Score: 51
Period size: 19 Copynumber: 2.0 Consensus size: 19
28276551 CTTTATAACT
*
28276561 AATATTAAAATATATATAA
1 AATATTAAAATATAAATAA
28276580 AATATTTAAAATA-AAATAA
1 AATA-TTAAAATATAAATAA
28276599 TATAAAAAAA
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
19 9 0.53
20 8 0.47
ACGTcount: A:0.66, C:0.00, G:0.00, T:0.34
Consensus pattern (19 bp):
AATATTAAAATATAAATAA
Found at i:28278469 original size:43 final size:43
Alignment explanation
Indices: 28278411--28278518 Score: 128
Period size: 43 Copynumber: 2.5 Consensus size: 43
28278401 GGCATTTCGC
** * *
28278411 CTGCTAGGCTTGAAGCTTGATATCATTTCACCAG-CATTATAGA
1 CTGCTAGGCCCGAAGCTCGATATCATCTCA-CAGACATTATAGA
* * * *
28278454 CTGCTAGGCCCGAAGCCCGATATTATCTCACTGACATTATAGC
1 CTGCTAGGCCCGAAGCTCGATATCATCTCACAGACATTATAGA
28278497 CTGCTAGGCCCGAAGCTCGATA
1 CTGCTAGGCCCGAAGCTCGATA
28278519 ATATTATTCA
Statistics
Matches: 55, Mismatches: 9, Indels: 2
0.83 0.14 0.03
Matches are distributed among these distances:
42 2 0.04
43 53 0.96
ACGTcount: A:0.26, C:0.27, G:0.20, T:0.27
Consensus pattern (43 bp):
CTGCTAGGCCCGAAGCTCGATATCATCTCACAGACATTATAGA
Found at i:28281563 original size:13 final size:13
Alignment explanation
Indices: 28281545--28281569 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
28281535 TCGATAGGGA
28281545 CACGCCCGTGTGG
1 CACGCCCGTGTGG
28281558 CACGCCCGTGTG
1 CACGCCCGTGTG
28281570 TGATTACTTC
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:0.08, C:0.40, G:0.36, T:0.16
Consensus pattern (13 bp):
CACGCCCGTGTGG
Found at i:28283646 original size:27 final size:27
Alignment explanation
Indices: 28283608--28283677 Score: 86
Period size: 27 Copynumber: 2.6 Consensus size: 27
28283598 GTGGATGTGT
* *
28283608 TTTGGAGAACTATGTTCACAGATACAA
1 TTTGGTGAACTATGTTCACAAATACAA
* * *
28283635 TTTGGTGGACTATGTTCACAAATATAT
1 TTTGGTGAACTATGTTCACAAATACAA
*
28283662 TTTGGTGAACTGTGTT
1 TTTGGTGAACTATGTT
28283678 TGCATAGGTG
Statistics
Matches: 36, Mismatches: 7, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
27 36 1.00
ACGTcount: A:0.29, C:0.11, G:0.21, T:0.39
Consensus pattern (27 bp):
TTTGGTGAACTATGTTCACAAATACAA
Found at i:28283695 original size:27 final size:27
Alignment explanation
Indices: 28283665--28283717 Score: 70
Period size: 27 Copynumber: 2.0 Consensus size: 27
28283655 AATATATTTT
** *
28283665 GGTGAACTGTGTTTGCATAGGTGTTTG
1 GGTGAACTAAGTTTGCAAAGGTGTTTG
*
28283692 GGTGAACTAAGTTTGCAAATGTGTTT
1 GGTGAACTAAGTTTGCAAAGGTGTTT
28283718 TATAAACTTA
Statistics
Matches: 22, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
27 22 1.00
ACGTcount: A:0.21, C:0.08, G:0.32, T:0.40
Consensus pattern (27 bp):
GGTGAACTAAGTTTGCAAAGGTGTTTG
Found at i:28284779 original size:20 final size:20
Alignment explanation
Indices: 28284733--28284772 Score: 80
Period size: 20 Copynumber: 2.0 Consensus size: 20
28284723 GATGTTTTAG
28284733 GTGTAAGTCCAATGAACACA
1 GTGTAAGTCCAATGAACACA
28284753 GTGTAAGTCCAATGAACACA
1 GTGTAAGTCCAATGAACACA
28284773 TGATAAGGGA
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 20 1.00
ACGTcount: A:0.40, C:0.20, G:0.20, T:0.20
Consensus pattern (20 bp):
GTGTAAGTCCAATGAACACA
Found at i:28287462 original size:46 final size:43
Alignment explanation
Indices: 28287362--28287481 Score: 127
Period size: 46 Copynumber: 2.6 Consensus size: 43
28287352 TATCTGTGCT
*
28287362 AATGCCATGTCCCAGACATGATCTTACACTGACACATCTCGTAGCC
1 AATG-CATGT-CCAGACATG-TCTTACACTGACACATCTCGTAGAC
*
28287408 AATGCATGTCTCAGACATGTCTTACACTGGCTTA-AGTCTCG-AGAC
1 AATGCATGTC-CAGACATGTCTTACACTGAC--ACA-TCTCGTAGAC
28287453 AGATGCATGTCCTAGACATGTCTTACACT
1 A-ATGCATGTCC-AGACATGTCTTACACT
28287482 ACCCCTCGTC
Statistics
Matches: 66, Mismatches: 2, Indels: 12
0.82 0.03 0.15
Matches are distributed among these distances:
44 12 0.18
45 19 0.29
46 35 0.53
ACGTcount: A:0.28, C:0.28, G:0.17, T:0.28
Consensus pattern (43 bp):
AATGCATGTCCAGACATGTCTTACACTGACACATCTCGTAGAC
Found at i:28292589 original size:29 final size:28
Alignment explanation
Indices: 28292557--28292611 Score: 101
Period size: 29 Copynumber: 1.9 Consensus size: 28
28292547 GCGAGATAAA
28292557 CTGATTTGGCTTCAGGCCATGCATATCGG
1 CTGATTTGGCTTCAGGCCATG-ATATCGG
28292586 CTGATTTGGCTTCAGGCCATGATATC
1 CTGATTTGGCTTCAGGCCATGATATC
28292612 AGAATTTTGG
Statistics
Matches: 26, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
28 5 0.19
29 21 0.81
ACGTcount: A:0.18, C:0.24, G:0.25, T:0.33
Consensus pattern (28 bp):
CTGATTTGGCTTCAGGCCATGATATCGG
Found at i:28295385 original size:92 final size:93
Alignment explanation
Indices: 28295228--28295398 Score: 283
Period size: 92 Copynumber: 1.8 Consensus size: 93
28295218 AGGATATTTG
28295228 GGCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATAGATGCGAATGTCCGAACTCGTTGAG
1 GGCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATAGATGCGAATGTCCGAACTCGTTGAG
28295293 TTGAG-TCGAGTTCGAGAGATGTAACTA
66 TTGAGTTCGAGTTCGAGAGATGTAACTA
* * * *
28295320 GGCATCTGAGCTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG-CCTGAGCTCGTTGA
1 GGCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATAGATGCGAATGTCC-GAACTCGTTGA
28295384 GTTGAGTTCGAGTTC
65 GTTGAGTTCGAGTTC
28295399 ACTTATGGGC
Statistics
Matches: 73, Mismatches: 4, Indels: 3
0.91 0.05 0.04
Matches are distributed among these distances:
91 2 0.03
92 63 0.86
93 8 0.11
ACGTcount: A:0.22, C:0.19, G:0.30, T:0.30
Consensus pattern (93 bp):
GGCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATAGATGCGAATGTCCGAACTCGTTGAG
TTGAGTTCGAGTTCGAGAGATGTAACTA
Found at i:28295405 original size:46 final size:46
Alignment explanation
Indices: 28295238--28295406 Score: 186
Period size: 46 Copynumber: 3.7 Consensus size: 46
28295228 GGCATCCGAA
* *
28295238 CTCGTTGAGTTGAGTCCGAGTTCACTTATAGATGCGAATGTCC-GAA
1 CTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG-CCTGAG
*** * *
28295284 CTCGTTGAGTTGAGT-CGAGTTCGAGAGATGTAACTAG-GCAT--CTGAG
1 CTCGTTGAGTTGAGTCCGAGTTC-ACTTATG-GA-T-GCGAATGCCTGAG
28295330 CTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATGCCTGAG
1 CTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATGCCTGAG
*
28295376 CTCGTTGAGTTGAGTTCGAGTTCACTTATGG
1 CTCGTTGAGTTGAGTCCGAGTTCACTTATGG
28295407 GCGGGTTACA
Statistics
Matches: 101, Mismatches: 13, Indels: 18
0.77 0.10 0.14
Matches are distributed among these distances:
43 1 0.01
44 4 0.04
45 9 0.09
46 74 0.73
47 8 0.08
48 4 0.04
49 1 0.01
ACGTcount: A:0.21, C:0.18, G:0.30, T:0.31
Consensus pattern (46 bp):
CTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATGCCTGAG
Found at i:28298357 original size:15 final size:15
Alignment explanation
Indices: 28298337--28298405 Score: 75
Period size: 15 Copynumber: 4.6 Consensus size: 15
28298327 GTATCTTGTG
28298337 TTTCTTTATCCTGGA
1 TTTCTTTATCCTGGA
* **
28298352 TCTCTTTATTTTGGA
1 TTTCTTTATCCTGGA
* *
28298367 TTTCTTTATTCTGGG
1 TTTCTTTATCCTGGA
* *
28298382 TTTCTCTATCTTGGA
1 TTTCTTTATCCTGGA
28298397 TTTCTTTAT
1 TTTCTTTAT
28298406 TCGGTTTTCT
Statistics
Matches: 43, Mismatches: 11, Indels: 0
0.80 0.20 0.00
Matches are distributed among these distances:
15 43 1.00
ACGTcount: A:0.12, C:0.16, G:0.13, T:0.59
Consensus pattern (15 bp):
TTTCTTTATCCTGGA
Found at i:28298406 original size:30 final size:30
Alignment explanation
Indices: 28298328--28298415 Score: 99
Period size: 30 Copynumber: 3.0 Consensus size: 30
28298318 CATAATATCG
* * *
28298328 TATCTTGTG-TTTCTTTATCCTGGATCTCTT
1 TATCTTG-GATTTCTTTATTCTGGATTTCTC
* *
28298358 TATTTTGGATTTCTTTATTCTGGGTTTCTC
1 TATCTTGGATTTCTTTATTCTGGATTTCTC
*
28298388 TATCTTGGATTTCTTTATTC-GGTTTTCT
1 TATCTTGGATTTCTTTATTCTGGATTTCT
28298416 TGTTATCTTT
Statistics
Matches: 50, Mismatches: 7, Indels: 3
0.83 0.12 0.05
Matches are distributed among these distances:
29 8 0.16
30 42 0.84
ACGTcount: A:0.10, C:0.16, G:0.15, T:0.59
Consensus pattern (30 bp):
TATCTTGGATTTCTTTATTCTGGATTTCTC
Found at i:28298416 original size:14 final size:14
Alignment explanation
Indices: 28298337--28298416 Score: 61
Period size: 15 Copynumber: 5.4 Consensus size: 14
28298327 GTATCTTGTG
*
28298337 TTTCTTTATCCTGGA
1 TTTCTTTATTC-GGA
* *
28298352 TCTCTTTATTTTGGA
1 TTTCTTTA-TTCGGA
*
28298367 TTTCTTTATTCTGGG
1 TTTCTTTATTC-GGA
* *
28298382 TTTCTCTATCTTGGA
1 TTTCTTTAT-TCGGA
*
28298397 TTTCTTTATTCGGT
1 TTTCTTTATTCGGA
28298411 TTTCTT
1 TTTCTT
28298417 GTTATCTTTG
Statistics
Matches: 50, Mismatches: 12, Indels: 7
0.72 0.17 0.10
Matches are distributed among these distances:
14 11 0.22
15 37 0.74
16 2 0.04
ACGTcount: A:0.10, C:0.16, G:0.14, T:0.60
Consensus pattern (14 bp):
TTTCTTTATTCGGA
Found at i:28317435 original size:39 final size:39
Alignment explanation
Indices: 28317381--28317506 Score: 180
Period size: 39 Copynumber: 3.2 Consensus size: 39
28317371 TTTAGTGATG
28317381 TATATCCGGACTTAGGGTCCGCAGGCTATGTGCTGGAAT
1 TATATCCGGACTTAGGGTCCGCAGGCTATGTGCTGGAAT
* *
28317420 TATATTCGGACTTAGGATCCGCAGGCTATGTGCTGGAAT
1 TATATCCGGACTTAGGGTCCGCAGGCTATGTGCTGGAAT
* * ** *
28317459 TATATCCAGACTTAAGGTCCGCAGGCTACATGCTGGAAA
1 TATATCCGGACTTAGGGTCCGCAGGCTATGTGCTGGAAT
*
28317498 TATGTCCGG
1 TATATCCGG
28317507 GCTAAAGTCC
Statistics
Matches: 76, Mismatches: 11, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
39 76 1.00
ACGTcount: A:0.24, C:0.21, G:0.28, T:0.28
Consensus pattern (39 bp):
TATATCCGGACTTAGGGTCCGCAGGCTATGTGCTGGAAT
Found at i:28317522 original size:78 final size:78
Alignment explanation
Indices: 28317381--28317524 Score: 182
Period size: 78 Copynumber: 1.8 Consensus size: 78
28317371 TTTAGTGATG
* * ** * * * *
28317381 TATATCCGGACTTAGGGTCCGCAGGCTATGTGCTGGAATTATATTCGGACTTAGGATCCGCAGGC
1 TATATCCAGACTTAAGGTCCGCAGGCTACATGCTGGAAATATATCCGGACTAAAGATCCGCAGGC
28317446 TATGTGCTGGAAT
66 TATGTGCTGGAAT
* *
28317459 TATATCCAGACTTAAGGTCCGCAGGCTACATGCTGGAAATATGTCCGGGCTAAAG-TCCTGCAGG
1 TATATCCAGACTTAAGGTCCGCAGGCTACATGCTGGAAATATATCCGGACTAAAGATCC-GCAGG
28317523 CT
65 CT
28317525 TCGAGCTGGT
Statistics
Matches: 55, Mismatches: 10, Indels: 2
0.82 0.15 0.03
Matches are distributed among these distances:
77 3 0.05
78 52 0.95
ACGTcount: A:0.24, C:0.22, G:0.28, T:0.27
Consensus pattern (78 bp):
TATATCCAGACTTAAGGTCCGCAGGCTACATGCTGGAAATATATCCGGACTAAAGATCCGCAGGC
TATGTGCTGGAAT
Found at i:28325324 original size:39 final size:39
Alignment explanation
Indices: 28325270--28325395 Score: 164
Period size: 39 Copynumber: 3.2 Consensus size: 39
28325260 TTCAGTGATG
*
28325270 TATATCCAGACTTAGGGTCCGCAGGCTATGTGCTGGAAT
1 TATATCCGGACTTAGGGTCCGCAGGCTATGTGCTGGAAT
*
28325309 TATATCCGGACTTAGGGTCCGC-GAGCTATATGCTGGAAT
1 TATATCCGGACTTAGGGTCCGCAG-GCTATGTGCTGGAAT
* * * * *
28325348 TACATCCGGACTTAAGGTCCGCAAGCTACGTGCTGGAAC
1 TATATCCGGACTTAGGGTCCGCAGGCTATGTGCTGGAAT
*
28325387 TATGTCCGG
1 TATATCCGG
28325396 GCTAAAGTCC
Statistics
Matches: 75, Mismatches: 10, Indels: 4
0.84 0.11 0.04
Matches are distributed among these distances:
38 1 0.01
39 74 0.99
ACGTcount: A:0.23, C:0.23, G:0.28, T:0.26
Consensus pattern (39 bp):
TATATCCGGACTTAGGGTCCGCAGGCTATGTGCTGGAAT
Found at i:28327077 original size:46 final size:46
Alignment explanation
Indices: 28326902--28327077 Score: 191
Period size: 46 Copynumber: 3.8 Consensus size: 46
28326892 TGTAACCCGC
* * *
28326902 CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGGGCGTTCGCAT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCAT
* * *
28326948 CCATAAGTGAACTCGGACTCAACTCAACGAGCTTAGATGCCTAGTT-ACAT
1 CCATAAGTGAACTCGGACTCAACTCAACGAG-TTCG--GAC-A-TTCGCAT
* *
28326998 CTC-T---CGAACTCGAACTCAACTCAACGAGTTCGGACATTCGCAT
1 C-CATAAGTGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCAT
28327041 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGA
1 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGA
28327078 TGCCCAAATA
Statistics
Matches: 107, Mismatches: 12, Indels: 22
0.76 0.09 0.16
Matches are distributed among these distances:
42 3 0.03
43 6 0.06
44 2 0.02
46 62 0.58
47 24 0.22
49 2 0.02
50 5 0.05
51 3 0.03
ACGTcount: A:0.30, C:0.29, G:0.20, T:0.22
Consensus pattern (46 bp):
CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCAT
Found at i:28337417 original size:46 final size:46
Alignment explanation
Indices: 28337293--28337405 Score: 158
Period size: 46 Copynumber: 2.5 Consensus size: 46
28337283 GGTGGTATGT
*
28337293 GAGCTAGTGTAAGACATGTCTGGGACATGCATCGGCCACATCATGA
1 GAGCTAGTGTAAGACATGTCTGGGACATGCATCGGCCACATCACGA
* * *
28337339 GAGCCAGTGTAAGACATGTCTGGGACATGCATCGG-CA-TTGAGACGA
1 GAGCTAGTGTAAGACATGTCTGGGACATGCATCGGCCACAT--CACGA
28337385 GAGCTAGTGTAAGACATGTCT
1 GAGCTAGTGTAAGACATGTCT
28337406 AAGAGATGCA
Statistics
Matches: 60, Mismatches: 5, Indels: 4
0.87 0.07 0.06
Matches are distributed among these distances:
44 1 0.02
45 2 0.03
46 57 0.95
ACGTcount: A:0.28, C:0.19, G:0.30, T:0.22
Consensus pattern (46 bp):
GAGCTAGTGTAAGACATGTCTGGGACATGCATCGGCCACATCACGA
Found at i:28337550 original size:47 final size:48
Alignment explanation
Indices: 28337481--28337655 Score: 176
Period size: 47 Copynumber: 3.6 Consensus size: 48
28337471 TATTATGTGT
* * *
28337481 CAGTGTAAGACCTGTCTAGGACACGGCATCGAC-CGATAAAGGAGAGC
1 CAGTGTAAGACCTGTCTGGGACATGGCATCGACTCGATAAAGGAAAGC
* * * * *
28337528 CAGTGTAAGACCTATCTGGGACATGGCATCGGCCTCGATATATGAAAGT
1 CAGTGTAAGACCTGTCTGGGACATGGCATC-GACTCGATAAAGGAAAGC
* * * **
28337577 CAGTGTAAGACTTGTCTGGGACATGGCATCGACT--TTAATGTGCTAGC
1 CAGTGTAAGACCTGTCTGGGACATGGCATCGACTCGATAAAG-GAAAGC
*
28337624 CAGTGTAAGACCATGTTTGGGACATGGCATCG
1 CAGTGTAAGACC-TGTCTGGGACATGGCATCG
28337656 GCATCTTATC
Statistics
Matches: 104, Mismatches: 20, Indels: 7
0.79 0.15 0.05
Matches are distributed among these distances:
46 2 0.02
47 41 0.39
48 23 0.22
49 38 0.37
ACGTcount: A:0.27, C:0.21, G:0.29, T:0.23
Consensus pattern (48 bp):
CAGTGTAAGACCTGTCTGGGACATGGCATCGACTCGATAAAGGAAAGC
Found at i:28337550 original size:91 final size:95
Alignment explanation
Indices: 28337438--28337609 Score: 226
Period size: 96 Copynumber: 1.8 Consensus size: 95
28337428 TATACAACCT
* * * *
28337438 AGTGTAAGACCTGTCTAGGACATGGCGTCAG-CT-TAT-TATG-TGTCAGTGTAAGACCTGTCTA
1 AGTGTAAGACCTATCTAGGACATGGCATCAGCCTCGATATATGAAGTCAGTGTAAGACCTGTCTA
28337499 GGACACGGCATCGACCGATAAAGGAGAGCC
66 GGACACGGCATCGACCGATAAAGGAGAGCC
* * *
28337529 AGTGTAAGACCTATCTGGGACATGGCATCGGCCTCGATATATGAAAGTCAGTGTAAGACTTGTCT
1 AGTGTAAGACCTATCTAGGACATGGCATCAGCCTCGATATATG-AAGTCAGTGTAAGACCTGTCT
* *
28337594 GGGACATGGCATCGAC
65 AGGACACGGCATCGAC
28337610 TTTAATGTGC
Statistics
Matches: 67, Mismatches: 9, Indels: 5
0.83 0.11 0.06
Matches are distributed among these distances:
91 27 0.40
92 2 0.03
93 2 0.03
94 4 0.06
96 32 0.48
ACGTcount: A:0.27, C:0.20, G:0.28, T:0.24
Consensus pattern (95 bp):
AGTGTAAGACCTATCTAGGACATGGCATCAGCCTCGATATATGAAGTCAGTGTAAGACCTGTCTA
GGACACGGCATCGACCGATAAAGGAGAGCC
Found at i:28337599 original size:96 final size:97
Alignment explanation
Indices: 28337479--28337657 Score: 245
Period size: 96 Copynumber: 1.9 Consensus size: 97
28337469 CTTATTATGT
28337479 GTCAGTGTAAGACCTGTCTAGGACACGGCATCGACCGATAAAG-GAGAGCCAGTGTAAGACC-TA
1 GTCAGTGTAAGACCTGTCTAGGACACGGCATCGA-CGATAAAGTGAGAGCCAGTGTAAGACCATA
28337542 TCTGGGACATGGCATCGGCCTCGATATATGAAA
65 TCTGGGACATGGCATCGGCCTCGATATATGAAA
* * * ** * ** *
28337575 GTCAGTGTAAGACTTGTCTGGGACATGGCATCGACTTTAATGTGCTAGCCAGTGTAAGACCATGT
1 GTCAGTGTAAGACCTGTCTAGGACACGGCATCGACGATAAAGTGAGAGCCAGTGTAAGACCATAT
*
28337640 TTGGGACATGGCATCGGC
66 CTGGGACATGGCATCGGC
28337658 ATCTTATCCC
Statistics
Matches: 71, Mismatches: 10, Indels: 3
0.85 0.12 0.04
Matches are distributed among these distances:
95 5 0.07
96 47 0.66
97 19 0.27
ACGTcount: A:0.27, C:0.21, G:0.29, T:0.23
Consensus pattern (97 bp):
GTCAGTGTAAGACCTGTCTAGGACACGGCATCGACGATAAAGTGAGAGCCAGTGTAAGACCATAT
CTGGGACATGGCATCGGCCTCGATATATGAAA
Found at i:28338882 original size:20 final size:21
Alignment explanation
Indices: 28338843--28338882 Score: 64
Period size: 21 Copynumber: 2.0 Consensus size: 21
28338833 GTCAACAGGG
*
28338843 CCACATGGGCGTGTTGCCCTT
1 CCACACGGGCGTGTTGCCCTT
28338864 CCACACGGGCGTG-TGCCCT
1 CCACACGGGCGTGTTGCCCT
28338883 ATTTCAAGTG
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
20 6 0.33
21 12 0.67
ACGTcount: A:0.10, C:0.38, G:0.30, T:0.23
Consensus pattern (21 bp):
CCACACGGGCGTGTTGCCCTT
Found at i:28345024 original size:21 final size:22
Alignment explanation
Indices: 28344984--28345025 Score: 68
Period size: 22 Copynumber: 2.0 Consensus size: 22
28344974 TGTTGAAATG
28344984 TCACACGAGCATGTTGCCCCTC
1 TCACACGAGCATGTTGCCCCTC
*
28345006 TCACACGAGCGTG-TGCCCCT
1 TCACACGAGCATGTTGCCCCT
28345026 GTGTTAATAG
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
21 7 0.37
22 12 0.63
ACGTcount: A:0.17, C:0.40, G:0.21, T:0.21
Consensus pattern (22 bp):
TCACACGAGCATGTTGCCCCTC
Found at i:28347983 original size:13 final size:13
Alignment explanation
Indices: 28347965--28347992 Score: 56
Period size: 13 Copynumber: 2.2 Consensus size: 13
28347955 TTTCCAACAC
28347965 TTATGACATGTGG
1 TTATGACATGTGG
28347978 TTATGACATGTGG
1 TTATGACATGTGG
28347991 TT
1 TT
28347993 GAATGGCGAT
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 15 1.00
ACGTcount: A:0.21, C:0.07, G:0.29, T:0.43
Consensus pattern (13 bp):
TTATGACATGTGG
Found at i:28352691 original size:26 final size:26
Alignment explanation
Indices: 28352646--28352704 Score: 73
Period size: 26 Copynumber: 2.3 Consensus size: 26
28352636 TGCTCATACA
*
28352646 AGCTGTGAAATAAGTATGCTAACATG
1 AGCTGTGAAATAAGTATGCTAACACG
** * *
28352672 AGCTGTGAAATGGGTCTGCTCACACG
1 AGCTGTGAAATAAGTATGCTAACACG
28352698 AGCTGTG
1 AGCTGTG
28352705 GGCTGGAATG
Statistics
Matches: 28, Mismatches: 5, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
26 28 1.00
ACGTcount: A:0.29, C:0.17, G:0.29, T:0.25
Consensus pattern (26 bp):
AGCTGTGAAATAAGTATGCTAACACG
Found at i:28363894 original size:2 final size:2
Alignment explanation
Indices: 28363842--28363885 Score: 88
Period size: 2 Copynumber: 22.0 Consensus size: 2
28363832 TAATAATAAA
28363842 AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG
1 AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG
28363884 AG
1 AG
28363886 TTGAGAGAGG
Statistics
Matches: 42, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 42 1.00
ACGTcount: A:0.50, C:0.00, G:0.50, T:0.00
Consensus pattern (2 bp):
AG
Found at i:28363907 original size:18 final size:19
Alignment explanation
Indices: 28363884--28363922 Score: 53
Period size: 18 Copynumber: 2.1 Consensus size: 19
28363874 AGAGAGAGAG
*
28363884 AGTTGAGAGAGGAA-TAAA
1 AGTTGAGAGAGAAATTAAA
*
28363902 AGTTGAGTGAGAAATTAAA
1 AGTTGAGAGAGAAATTAAA
28363921 AG
1 AG
28363923 GGAATTGAGA
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
18 12 0.67
19 6 0.33
ACGTcount: A:0.49, C:0.00, G:0.31, T:0.21
Consensus pattern (19 bp):
AGTTGAGAGAGAAATTAAA
Found at i:28364780 original size:12 final size:13
Alignment explanation
Indices: 28364753--28364785 Score: 50
Period size: 12 Copynumber: 2.5 Consensus size: 13
28364743 ATTAAGTCCC
28364753 AAATTTATTATTTT
1 AAATTT-TTATTTT
28364767 AAATTTTT-TTTT
1 AAATTTTTATTTT
28364779 AAATTTT
1 AAATTTT
28364786 AACTTTCTTT
Statistics
Matches: 19, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
12 11 0.58
13 2 0.11
14 6 0.32
ACGTcount: A:0.33, C:0.00, G:0.00, T:0.67
Consensus pattern (13 bp):
AAATTTTTATTTT
Found at i:28383920 original size:31 final size:31
Alignment explanation
Indices: 28383854--28383929 Score: 98
Period size: 31 Copynumber: 2.5 Consensus size: 31
28383844 TGCCCCAAGT
** *
28383854 TACACGGGCGTGTGAGTCTACATGGCCTACC
1 TACACGGGCGTGTGAGTCTACACCGCCCACC
* *
28383885 TACACGGGCGTGTGAGTCTTCACCGCCCACG
1 TACACGGGCGTGTGAGTCTACACCGCCCACC
*
28383916 TACACGGGCATGTG
1 TACACGGGCGTGTG
28383930 TCCCTTTATG
Statistics
Matches: 39, Mismatches: 6, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
31 39 1.00
ACGTcount: A:0.18, C:0.30, G:0.30, T:0.21
Consensus pattern (31 bp):
TACACGGGCGTGTGAGTCTACACCGCCCACC
Found at i:28386666 original size:17 final size:17
Alignment explanation
Indices: 28386641--28386676 Score: 54
Period size: 17 Copynumber: 2.1 Consensus size: 17
28386631 TGCAATGGAA
*
28386641 AATGATATTGAAATGGC
1 AATGATATTGAAATAGC
*
28386658 AATGCTATTGAAATAGC
1 AATGATATTGAAATAGC
28386675 AA
1 AA
28386677 ATGTTATGGA
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
17 17 1.00
ACGTcount: A:0.44, C:0.08, G:0.19, T:0.28
Consensus pattern (17 bp):
AATGATATTGAAATAGC
Found at i:28401472 original size:12 final size:13
Alignment explanation
Indices: 28401443--28401472 Score: 51
Period size: 13 Copynumber: 2.3 Consensus size: 13
28401433 AGAAAAGAGA
28401443 AAAAACTATAAAC
1 AAAAACTATAAAC
*
28401456 AAAAACTATAAAG
1 AAAAACTATAAAC
28401469 AAAA
1 AAAA
28401473 TTATATAGTA
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
13 16 1.00
ACGTcount: A:0.73, C:0.10, G:0.03, T:0.13
Consensus pattern (13 bp):
AAAAACTATAAAC
Found at i:28406969 original size:67 final size:67
Alignment explanation
Indices: 28406787--28406952 Score: 219
Period size: 67 Copynumber: 2.5 Consensus size: 67
28406777 TGGAGTCCAT
* * * * *
28406787 CAGGATATTAAACATAGGGATTAAGGTTTAAGATTATAACTCGACTATGGCATCCAACAGAGTCA
1 CAGGACATTAAACATAGGGATCAAGGTGTAAGATCATAGCTCGACTATGGCATCCAACAGAGTCA
28406852 AC
66 AC
* *
28406854 CAAGACATTAAACA-AGAGGATTCAA-GTGTAGGATCATAGCTCGACTATGGCATCCAACAGAGT
1 CAGGACATTAAACATAG-GGA-TCAAGGTGTAAGATCATAGCTCGACTATGGCATCCAACAGAGT
**
28406917 TTAC
64 CAAC
28406921 CAGGACATTAAACATAGGGATCAAGGTGTAAG
1 CAGGACATTAAACATAGGGATCAAGGTGTAAG
28406953 CCCATGGCTT
Statistics
Matches: 84, Mismatches: 11, Indels: 8
0.82 0.11 0.08
Matches are distributed among these distances:
66 6 0.07
67 73 0.87
68 5 0.06
ACGTcount: A:0.39, C:0.17, G:0.22, T:0.23
Consensus pattern (67 bp):
CAGGACATTAAACATAGGGATCAAGGTGTAAGATCATAGCTCGACTATGGCATCCAACAGAGTCA
AC
Found at i:28411149 original size:40 final size:39
Alignment explanation
Indices: 28411078--28411197 Score: 109
Period size: 40 Copynumber: 3.0 Consensus size: 39
28411068 CGGTGTTTGG
* * *
28411078 ACGCTGCTAAAGATCGAGCATTAG-TAGCGCTTCTTGAAAA
1 ACGCCGCTATAGATCGAGCATTAGCGA-CGCTT-TTGAAAA
*
28411118 ACGCCGCTATAGATCGAGCATTAGCGACGCTTTTCAAAAA
1 ACGCCGCTATAGATCGAGCATTAGCGACGCTTTT-GAAAA
* * * *
28411158 ATGCCGCTATAGCTCGA-CTATTAGCGGCACTTTTTGAAAA
1 ACGCCGCTATAGATCGAGC-ATTAGCGACGC-TTTTGAAAA
28411198 CTTTCGAAAA
Statistics
Matches: 67, Mismatches: 9, Indels: 8
0.80 0.11 0.10
Matches are distributed among these distances:
39 3 0.04
40 59 0.88
41 5 0.07
ACGTcount: A:0.31, C:0.23, G:0.21, T:0.26
Consensus pattern (39 bp):
ACGCCGCTATAGATCGAGCATTAGCGACGCTTTTGAAAA
Found at i:28411276 original size:40 final size:40
Alignment explanation
Indices: 28411232--28411338 Score: 164
Period size: 38 Copynumber: 2.7 Consensus size: 40
28411222 AACTTTAGTG
28411232 GCATTAGCGGCGCTTTTTGAAAAACGCCGCTATAGATCGA
1 GCATTAGCGGCGCTTTTTGAAAAACGCCGCTATAGATCGA
* * *
28411272 GCATTAGCGGCGC-TTTT-AAAAAAGCCGCTATAGGTTGA
1 GCATTAGCGGCGCTTTTTGAAAAACGCCGCTATAGATCGA
*
28411310 CCATTAGCGGCGCTTTTTGAAAAACGCCG
1 GCATTAGCGGCGCTTTTTGAAAAACGCCG
28411339 AAAAAAAATT
Statistics
Matches: 60, Mismatches: 5, Indels: 4
0.87 0.07 0.06
Matches are distributed among these distances:
38 30 0.50
39 8 0.13
40 22 0.37
ACGTcount: A:0.27, C:0.22, G:0.25, T:0.25
Consensus pattern (40 bp):
GCATTAGCGGCGCTTTTTGAAAAACGCCGCTATAGATCGA
Found at i:28411345 original size:137 final size:137
Alignment explanation
Indices: 28411095--28411346 Score: 384
Period size: 137 Copynumber: 1.9 Consensus size: 137
28411085 TAAAGATCGA
*
28411095 GCATTAGTAGCGCTTCTTGAAAAACGCCGCTATAGATCGAGCATTAGCGACGCTTTTCAAAAAAT
1 GCATTAGCAGCGCTTCTTGAAAAACGCCGCTATAGATCGAGCATTAGCGACGCTTTTCAAAAAAT
* **
28411160 GCCGCTATAGCTCGACTATTAGCGGCACTTTTTGAAAACTTTCGAAAAAAAAAATTACACTCAAC
66 GCCGCTATAGCTCGACCATTAGCGGCACTTTTTGAAAACTGCCGAAAAAAAAAATTACACTCAAC
28411225 TTTAGTG
131 TTTAGTG
* * *
28411232 GCATTAGCGGCGCTTTTTGAAAAACGCCGCTATAGATCGAGCATTAGCGGCGCTTTT-AAAAAA-
1 GCATTAGCAGCGCTTCTTGAAAAACGCCGCTATAGATCGAGCATTAGCGACGCTTTTCAAAAAAT
* * *
28411295 GCCGCTATAGGTTGACCATTAGCGGCGCTTTTTGAAAAAC-GCCGAAAAAAAA
66 GCCGCTATAGCTCGACCATTAGCGGCACTTTTTG-AAAACTGCCGAAAAAAAA
28411347 TTAAGCACAA
Statistics
Matches: 104, Mismatches: 10, Indels: 4
0.88 0.08 0.03
Matches are distributed among these distances:
135 40 0.38
136 11 0.11
137 53 0.51
ACGTcount: A:0.33, C:0.21, G:0.20, T:0.26
Consensus pattern (137 bp):
GCATTAGCAGCGCTTCTTGAAAAACGCCGCTATAGATCGAGCATTAGCGACGCTTTTCAAAAAAT
GCCGCTATAGCTCGACCATTAGCGGCACTTTTTGAAAACTGCCGAAAAAAAAAATTACACTCAAC
TTTAGTG
Found at i:28411666 original size:15 final size:14
Alignment explanation
Indices: 28411641--28411675 Score: 52
Period size: 15 Copynumber: 2.4 Consensus size: 14
28411631 ACTATTTTAA
*
28411641 GGTTTATGGATTAT
1 GGTTTAGGGATTAT
28411655 GGATTTAGGGATTAT
1 GG-TTTAGGGATTAT
28411670 GGTTTA
1 GGTTTA
28411676 TGGTTTTAGG
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
14 6 0.32
15 13 0.68
ACGTcount: A:0.23, C:0.00, G:0.31, T:0.46
Consensus pattern (14 bp):
GGTTTAGGGATTAT
Found at i:28411669 original size:22 final size:22
Alignment explanation
Indices: 28411644--28411686 Score: 68
Period size: 22 Copynumber: 2.0 Consensus size: 22
28411634 ATTTTAAGGT
28411644 TTATGGATTATGGATTTAGGGA
1 TTATGGATTATGGATTTAGGGA
* *
28411666 TTATGGTTTATGGTTTTAGGG
1 TTATGGATTATGGATTTAGGG
28411687 TTTGGGTTTA
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
22 19 1.00
ACGTcount: A:0.21, C:0.00, G:0.33, T:0.47
Consensus pattern (22 bp):
TTATGGATTATGGATTTAGGGA
Found at i:28411679 original size:7 final size:7
Alignment explanation
Indices: 28411581--28411703 Score: 54
Period size: 7 Copynumber: 17.4 Consensus size: 7
28411571 TTAATTATTA
*
28411581 TTATAGT
1 TTATGGT
*
28411588 TTAGGGT
1 TTATGGT
28411595 TTATGGT
1 TTATGGT
* *
28411602 ATATAGT
1 TTATGGT
*
28411609 TTAGGGT
1 TTATGGT
*
28411616 TTAAGGT
1 TTATGGT
*
28411623 TTAAGAGT
1 TTATG-GT
*
28411631 ACTAT--T
1 -TTATGGT
*
28411637 TTAAGGT
1 TTATGGT
*
28411644 TTATGGA
1 TTATGGT
28411651 TTATGGAT
1 TTATGG-T
* *
28411659 TTAGGGA
1 TTATGGT
28411666 TTATGGT
1 TTATGGT
28411673 TTATGGTT
1 TTATGG-T
*
28411681 TTAGGGT
1 TTATGGT
*
28411688 TT-GGGT
1 TTATGGT
*
28411694 TTAAGGT
1 TTATGGT
28411701 TTA
1 TTA
28411704 GATGTTAGGA
Statistics
Matches: 87, Mismatches: 22, Indels: 14
0.71 0.18 0.11
Matches are distributed among these distances:
5 2 0.02
6 7 0.08
7 63 0.72
8 13 0.15
9 2 0.02
ACGTcount: A:0.24, C:0.01, G:0.28, T:0.47
Consensus pattern (7 bp):
TTATGGT
Found at i:28411762 original size:14 final size:15
Alignment explanation
Indices: 28411745--28411783 Score: 53
Period size: 14 Copynumber: 2.7 Consensus size: 15
28411735 TTTTATAATT
28411745 TAGGGTTTAGGGG-A
1 TAGGGTTTAGGGGTA
* *
28411759 TAGGGATTAGGGGTT
1 TAGGGTTTAGGGGTA
28411774 TAGGGTTTAG
1 TAGGGTTTAG
28411784 AGTAATAAGT
Statistics
Matches: 21, Mismatches: 3, Indels: 1
0.84 0.12 0.04
Matches are distributed among these distances:
14 12 0.57
15 9 0.43
ACGTcount: A:0.21, C:0.00, G:0.46, T:0.33
Consensus pattern (15 bp):
TAGGGTTTAGGGGTA
Found at i:28416865 original size:19 final size:18
Alignment explanation
Indices: 28416815--28416888 Score: 60
Period size: 19 Copynumber: 3.9 Consensus size: 18
28416805 CTTGCTGTAT
28416815 TTTATTTATATTTTTA-TA
1 TTTATTT-TATTTTTATTA
* *
28416833 TTTAATCTAATTTTTATTA
1 TTT-ATTTTATTTTTATTA
* *
28416852 TTTATTTTAGTTTTGATTC
1 TTTATTTTA-TTTTTATTA
*
28416871 TATATTTTTATTTTTATT
1 TTTA-TTTTATTTTTATT
28416889 TTAATATTTA
Statistics
Matches: 44, Mismatches: 8, Indels: 7
0.75 0.14 0.12
Matches are distributed among these distances:
18 14 0.32
19 25 0.57
20 5 0.11
ACGTcount: A:0.24, C:0.03, G:0.03, T:0.70
Consensus pattern (18 bp):
TTTATTTTATTTTTATTA
Done.