Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: D06
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: 68668488
ACGTcount: A:0.32, C:0.16, G:0.16, T:0.32
Warning! 1920000 characters in sequence are not A, C, G, or T
File 99 of 230
Found at i:28044863 original size:47 final size:47
Alignment explanation
Indices: 28044541--28044862 Score: 574
Period size: 47 Copynumber: 6.9 Consensus size: 47
28044531 GAAATGATAG
*
28044541 TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGA
1 TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATGTGTGA
*
28044588 TAAGGCCTAATAGCCGATGTGATGAATGTGAAAGTGTATATGTGTGA
1 TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATGTGTGA
28044635 TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATGTGTGA
1 TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATGTGTGA
*
28044682 TAAGGCC-AATGGTCGATGTGATGAATGTGAAAGTGTATATGTGTGA
1 TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATGTGTGA
*
28044728 TAAGGCCAAATGGCCGATGTGATGAATGTGAAAGTGTATATGTGTGA
1 TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATGTGTGA
* *
28044775 TAAGGCCTAATAGCCGATGTGATGAATGTGAAAGTGTATATATGTGA
1 TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATGTGTGA
*
28044822 TAAGGCCTAATAGCCGATGTGATGAATGTGAAAGTGTATAT
1 TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATAT
28044863 AGTTGATGAA
Statistics
Matches: 266, Mismatches: 8, Indels: 2
0.96 0.03 0.01
Matches are distributed among these distances:
46 45 0.17
47 221 0.83
ACGTcount: A:0.32, C:0.08, G:0.30, T:0.30
Consensus pattern (47 bp):
TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATGTGTGA
Found at i:28044873 original size:72 final size:72
Alignment explanation
Indices: 28044794--28044935 Score: 266
Period size: 72 Copynumber: 2.0 Consensus size: 72
28044784 ATAGCCGATG
*
28044794 TGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATAGCCGATGTGATGAATGTGAAAGTGT
1 TGATGAATGTGAAAGTGTATATATGTAATAAGGCCTAATAGCCGATGTGATGAATGTGAAAGTGT
28044859 ATATAGT
66 ATATAGT
*
28044866 TGATGAATGTGAAAGTGTATATATGTAATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGT
1 TGATGAATGTGAAAGTGTATATATGTAATAAGGCCTAATAGCCGATGTGATGAATGTGAAAGTGT
28044931 ATATA
66 ATATA
28044936 TGTGATAAGG
Statistics
Matches: 68, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
72 68 1.00
ACGTcount: A:0.35, C:0.06, G:0.27, T:0.32
Consensus pattern (72 bp):
TGATGAATGTGAAAGTGTATATATGTAATAAGGCCTAATAGCCGATGTGATGAATGTGAAAGTGT
ATATAGT
Found at i:28044873 original size:119 final size:118
Alignment explanation
Indices: 28044747--28044981 Score: 418
Period size: 119 Copynumber: 2.0 Consensus size: 118
28044737 ATGGCCGATG
* *
28044747 TGATGAATGTGAAAGTGTATATGTGTGATAAGGCCTAATAGCCGATGTGATGAATGTGAAAGTGT
1 TGATGAATGTGAAAGTGTATATATGTAATAAGGCCTAATAGCCGATGTGATGAATGTGAAAGTGT
28044812 ATATATGTGATAAGGCCTAATAG-CCGATGTGATGAATGTGAAAGTGTATATAGT
66 ATATATGTGATAAGGCCTAAT-GCCCGATGTG-TGAATGTGAAAGTGTATATAGT
*
28044866 TGATGAATGTGAAAGTGTATATATGTAATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGT
1 TGATGAATGTGAAAGTGTATATATGTAATAAGGCCTAATAGCCGATGTGATGAATGTGAAAGTGT
28044931 ATATATGTGATAAGGCCTAATGCCCGATGTGTGAATGTGAAAGTGTATATA
66 ATATATGTGATAAGGCCTAATGCCCGATGTGTGAATGTGAAAGTGTATATA
28044982 TGTGACAGGG
Statistics
Matches: 112, Mismatches: 3, Indels: 3
0.95 0.03 0.03
Matches are distributed among these distances:
118 21 0.19
119 91 0.81
ACGTcount: A:0.34, C:0.07, G:0.28, T:0.31
Consensus pattern (118 bp):
TGATGAATGTGAAAGTGTATATATGTAATAAGGCCTAATAGCCGATGTGATGAATGTGAAAGTGT
ATATATGTGATAAGGCCTAATGCCCGATGTGTGAATGTGAAAGTGTATATAGT
Found at i:28044875 original size:25 final size:25
Alignment explanation
Indices: 28044841--28044888 Score: 96
Period size: 25 Copynumber: 1.9 Consensus size: 25
28044831 ATAGCCGATG
28044841 TGATGAATGTGAAAGTGTATATAGT
1 TGATGAATGTGAAAGTGTATATAGT
28044866 TGATGAATGTGAAAGTGTATATA
1 TGATGAATGTGAAAGTGTATATA
28044889 TGTAATAAGG
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
25 23 1.00
ACGTcount: A:0.38, C:0.00, G:0.27, T:0.35
Consensus pattern (25 bp):
TGATGAATGTGAAAGTGTATATAGT
Found at i:28044977 original size:93 final size:93
Alignment explanation
Indices: 28044869--28045037 Score: 248
Period size: 93 Copynumber: 1.8 Consensus size: 93
28044859 ATATAGTTGA
* * * * *
28044869 TGAATGTGAAAGTGTATATATGTAATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATA
1 TGAATGTGAAAGTGTATATATGTAACAAGGCCGAATGGCCAACGTGATGAATGTGAAAGTGCATA
*
28044934 TATGTGATAAGGCCTAATGCCCGATGTG
66 AATGTGATAAGGCCTAATGCCCGATGTG
* * * *
28044962 TGAATGTGAAAGTGTATATATGTGACAGGGCCGAGTGGCCAACGTGATGGATGTGAAAGTGCATA
1 TGAATGTGAAAGTGTATATATGTAACAAGGCCGAATGGCCAACGTGATGAATGTGAAAGTGCATA
28045027 AATGTGATAAG
66 AATGTGATAAG
28045038 TCCCGAAGGG
Statistics
Matches: 66, Mismatches: 10, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
93 66 1.00
ACGTcount: A:0.33, C:0.09, G:0.30, T:0.28
Consensus pattern (93 bp):
TGAATGTGAAAGTGTATATATGTAACAAGGCCGAATGGCCAACGTGATGAATGTGAAAGTGCATA
AATGTGATAAGGCCTAATGCCCGATGTG
Found at i:28044983 original size:46 final size:47
Alignment explanation
Indices: 28044866--28045037 Score: 238
Period size: 47 Copynumber: 3.7 Consensus size: 47
28044856 TGTATATAGT
*
28044866 TGATGAATGTGAAAGTGTATATATGTAATAAGGCCTAATGGCCGATG
1 TGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATG
*
28044913 TGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGCCCGATG
1 TGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATG
* * * * * *
28044960 TG-TGAATGTGAAAGTGTATATATGTGACAGGGCCGAGTGGCCAACG
1 TGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATG
* * *
28045006 TGATGGATGTGAAAGTGCATAAATGTGATAAG
1 TGATGAATGTGAAAGTGTATATATGTGATAAG
28045038 TCCCGAAGGG
Statistics
Matches: 110, Mismatches: 14, Indels: 2
0.87 0.11 0.02
Matches are distributed among these distances:
46 39 0.35
47 71 0.65
ACGTcount: A:0.33, C:0.09, G:0.30, T:0.28
Consensus pattern (47 bp):
TGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATG
Found at i:28045214 original size:37 final size:37
Alignment explanation
Indices: 28045156--28045234 Score: 113
Period size: 37 Copynumber: 2.1 Consensus size: 37
28045146 CCGAGCTCTA
* * * *
28045156 AAGACCCGATGACTACGTGTGGGGATTTTGTCCGGGT
1 AAGACCCGATAACTACATGTGGAGATTATGTCCGGGT
*
28045193 AAGACCCGATAACTTCATGTGGAGATTATGTCCGGGT
1 AAGACCCGATAACTACATGTGGAGATTATGTCCGGGT
28045230 AAGAC
1 AAGAC
28045235 TTCGTAATAA
Statistics
Matches: 37, Mismatches: 5, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
37 37 1.00
ACGTcount: A:0.25, C:0.19, G:0.30, T:0.25
Consensus pattern (37 bp):
AAGACCCGATAACTACATGTGGAGATTATGTCCGGGT
Found at i:28047135 original size:43 final size:43
Alignment explanation
Indices: 28047088--28047190 Score: 206
Period size: 43 Copynumber: 2.4 Consensus size: 43
28047078 TTGGTTTTCA
28047088 GCACTAAGTGTGCGGGCAATAAGTGTTCACGGTTGTGAGATTG
1 GCACTAAGTGTGCGGGCAATAAGTGTTCACGGTTGTGAGATTG
28047131 GCACTAAGTGTGCGGGCAATAAGTGTTCACGGTTGTGAGATTG
1 GCACTAAGTGTGCGGGCAATAAGTGTTCACGGTTGTGAGATTG
28047174 GCACTAAGTGTGCGGGC
1 GCACTAAGTGTGCGGGC
28047191 TTGAAATGCA
Statistics
Matches: 60, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
43 60 1.00
ACGTcount: A:0.22, C:0.16, G:0.36, T:0.26
Consensus pattern (43 bp):
GCACTAAGTGTGCGGGCAATAAGTGTTCACGGTTGTGAGATTG
Found at i:28047207 original size:29 final size:29
Alignment explanation
Indices: 28047172--28047245 Score: 105
Period size: 29 Copynumber: 2.6 Consensus size: 29
28047162 GTTGTGAGAT
* *
28047172 TGGCACTAAGTGTGCGGGCTTGAAA-TGCA
1 TGGCACTAAGTGTGCGAG-TTGAAAGTACA
*
28047201 TGGCACTAAGTGTGCGAGTTTAAAGTACA
1 TGGCACTAAGTGTGCGAGTTGAAAGTACA
28047230 TGGCACTAAGTGTGCG
1 TGGCACTAAGTGTGCG
28047246 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:28047683 original size:40 final size:40
Alignment explanation
Indices: 28047560--28047716 Score: 140
Period size: 40 Copynumber: 3.9 Consensus size: 40
28047550 TCGAATGATG
* *
28047560 TCCGGGCTAAGTCCCGAAGGC-TTTGTGCTAAGTGACCATA
1 TCCGGGCTAAGTCCCGAAGGCATTCGTGCT-AGTGACTATA
* * * * *
28047600 TCCGGACTAAGAT-CCGAAGGCATTGGTGCGAGTTACTAAA
1 TCCGGGCTAAG-TCCCGAAGGCATTCGTGCTAGTGACTATA
*
28047640 TCCGGGCTAAGTTCCGAAGAGCATTCGTGCTAGTGA-TATA
1 TCCGGGCTAAGTCCCGAAG-GCATTCGTGCTAGTGACTATA
* * * * *
28047680 TCCGTGCTAAATCCCGAAGAGCAATCATGCTGGTGAC
1 TCCGGGCTAAGTCCCGAAG-GCATTCGTGCTAGTGAC
28047717 GTGTATTCGG
Statistics
Matches: 95, Mismatches: 17, Indels: 9
0.79 0.14 0.07
Matches are distributed among these distances:
39 1 0.01
40 74 0.78
41 20 0.21
ACGTcount: A:0.26, C:0.23, G:0.27, T:0.24
Consensus pattern (40 bp):
TCCGGGCTAAGTCCCGAAGGCATTCGTGCTAGTGACTATA
Found at i:28051188 original size:47 final size:47
Alignment explanation
Indices: 28051122--28051641 Score: 817
Period size: 47 Copynumber: 11.1 Consensus size: 47
28051112 GAAATGATAG
28051122 TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGA
1 TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGA
* *
28051169 TAAGGCCTAATAGCCGATGTGATGAATGTGAAAGTGTATATGTGTGA
1 TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGA
*
28051216 TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATGTGTGA
1 TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGA
* * *
28051263 TAAGGCCAAATGGTCGATGTGATGAATGTGAAAGTGTATATGTGTGA
1 TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGA
* * *
28051310 TAAGGCCAAATGGTCGATGTGATGAATGTGAAAGTGTATATGTGTGA
1 TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGA
*
28051357 TAAGGCCTAATAGCCGATGTGATGAATGTGAAAGTGTATATATGTGA
1 TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGA
* *
28051404 TAAGGCCTAATAGCCGATGTGATGAATGTGAAAGTGTATATAGGTGA
1 TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGA
* *
28051451 TAAGGCCTAATAGCCGATGTGATGAATGTGAAAGTGTATATATGTAA
1 TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGA
28051498 TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGA
1 TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGA
*
28051545 TAAGGCCTAATGCCCGATGTG-TGAATGTGAAAGTGTATATATGTGA
1 TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGA
* * * * * * * * *
28051591 CAGGGCCGAGTGGCCAACGTGATGGATGTGAAAGTGCATAAATGTGA
1 TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGA
28051638 TAAG
1 TAAG
28051642 TCCTGAAGGG
Statistics
Matches: 445, Mismatches: 27, Indels: 2
0.94 0.06 0.00
Matches are distributed among these distances:
46 39 0.09
47 406 0.91
ACGTcount: A:0.32, C:0.09, G:0.30, T:0.29
Consensus pattern (47 bp):
TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGA
Found at i:28051285 original size:22 final size:22
Alignment explanation
Indices: 28051258--28051332 Score: 62
Period size: 22 Copynumber: 3.3 Consensus size: 22
28051248 AGTGTATATG
28051258 TGTGATAAGGCCAAATGGTCGA
1 TGTGATAAGGCCAAATGGTCGA
* ** **
28051280 TGTGATGAATGTGAAA-GTGTATA
1 TGTGAT-AAGGCCAAATG-GTCGA
28051303 TGTGTGATAAGGCCAAATGGTCGA
1 --TGTGATAAGGCCAAATGGTCGA
28051327 TGTGAT
1 TGTGAT
28051333 GAATGTGAAA
Statistics
Matches: 38, Mismatches: 10, Indels: 10
0.66 0.17 0.17
Matches are distributed among these distances:
22 13 0.34
23 9 0.24
24 9 0.24
25 7 0.18
ACGTcount: A:0.31, C:0.08, G:0.32, T:0.29
Consensus pattern (22 bp):
TGTGATAAGGCCAAATGGTCGA
Found at i:28051353 original size:23 final size:23
Alignment explanation
Indices: 28051232--28051353 Score: 76
Period size: 23 Copynumber: 5.2 Consensus size: 23
28051222 CTAATGGCCG
28051232 ATGTGATGAATGTGAAAGTGTAT
1 ATGTGATGAATGTGAAAGTGTAT
* **
28051255 ATGTG-TGATAAG-GCCAAA-TGGTCG
1 ATGTGATGA-ATGTG--AAAGT-GTAT
28051279 ATGTGATGAATGTGAAAGTGTAT
1 ATGTGATGAATGTGAAAGTGTAT
* **
28051302 ATGTG-TGATAAG-GCCAAA-TGGTCG
1 ATGTGATGA-ATGTG--AAAGT-GTAT
28051326 ATGTGATGAATGTGAAAGTGTAT
1 ATGTGATGAATGTGAAAGTGTAT
28051349 ATGTG
1 ATGTG
28051354 TGATAAGGCC
Statistics
Matches: 73, Mismatches: 12, Indels: 28
0.65 0.11 0.25
Matches are distributed among these distances:
22 8 0.11
23 31 0.42
24 26 0.36
25 8 0.11
ACGTcount: A:0.32, C:0.05, G:0.32, T:0.31
Consensus pattern (23 bp):
ATGTGATGAATGTGAAAGTGTAT
Found at i:28051816 original size:37 final size:37
Alignment explanation
Indices: 28051760--28051838 Score: 122
Period size: 37 Copynumber: 2.1 Consensus size: 37
28051750 CCGAGCTCTA
* * *
28051760 AAGACCCGATGACTACGTGTGGGGATTTTGTCCGGGT
1 AAGACCCGATAACTACGTGTGGAGATTATGTCCGGGT
*
28051797 AAGACCCGATAACTTCGTGTGGAGATTATGTCCGGGT
1 AAGACCCGATAACTACGTGTGGAGATTATGTCCGGGT
28051834 AAGAC
1 AAGAC
28051839 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:28057633 original size:26 final size:24
Alignment explanation
Indices: 28057604--28057654 Score: 66
Period size: 25 Copynumber: 2.0 Consensus size: 24
28057594 AGTTGTAGAG
28057604 AGAAAATTCTCTAAAGAGATTATTTT
1 AGAAAATT-TCTAAAGAGATT-TTTT
* *
28057630 AGAAAATTTCTAGAGATATTTTTT
1 AGAAAATTTCTAAAGAGATTTTTT
28057654 A
1 A
28057655 TTTTTACAAC
Statistics
Matches: 23, Mismatches: 2, Indels: 2
0.85 0.07 0.07
Matches are distributed among these distances:
24 5 0.22
25 10 0.43
26 8 0.35
ACGTcount: A:0.41, C:0.06, G:0.12, T:0.41
Consensus pattern (24 bp):
AGAAAATTTCTAAAGAGATTTTTT
Found at i:28067121 original size:21 final size:21
Alignment explanation
Indices: 28067095--28067137 Score: 70
Period size: 21 Copynumber: 2.0 Consensus size: 21
28067085 CTAATGAAAT
28067095 CCATTTTC-TTCAGTTTTCTCA
1 CCATTTTCATT-AGTTTTCTCA
28067116 CCATTTTCATTAGTTTTCTCA
1 CCATTTTCATTAGTTTTCTCA
28067137 C
1 C
28067138 TAAACAAAGA
Statistics
Matches: 21, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
21 19 0.90
22 2 0.10
ACGTcount: A:0.16, C:0.28, G:0.05, T:0.51
Consensus pattern (21 bp):
CCATTTTCATTAGTTTTCTCA
Found at i:28069515 original size:68 final size:68
Alignment explanation
Indices: 28069436--28069570 Score: 200
Period size: 68 Copynumber: 2.0 Consensus size: 68
28069426 TTATTTATTG
* *
28069436 CCATATCCGAGCTATGGTCTTACACCTTATAAC-CCTATGTTTAGTGTCCTGGCAAACTCTATTG
1 CCATAGCCGAGCTATGGTCTTACACCTTATAACACC-ATGTTTAATGTCCTGGCAAACTCTATTG
28069500 GTTC
65 GTTC
* * * *
28069504 CCATAGCCGAGCTATGGTCTTACACCTTGTAACACCATGTTTAATGTCTTGGTAGACTCTATTGG
1 CCATAGCCGAGCTATGGTCTTACACCTTATAACACCATGTTTAATGTCCTGGCAAACTCTATTGG
28069569 TT
66 TT
28069571 GTGTAACATC
Statistics
Matches: 60, Mismatches: 6, Indels: 2
0.88 0.09 0.03
Matches are distributed among these distances:
68 58 0.97
69 2 0.03
ACGTcount: A:0.22, C:0.24, G:0.18, T:0.36
Consensus pattern (68 bp):
CCATAGCCGAGCTATGGTCTTACACCTTATAACACCATGTTTAATGTCCTGGCAAACTCTATTGG
TTC
Found at i:28070412 original size:29 final size:29
Alignment explanation
Indices: 28070375--28070433 Score: 82
Period size: 29 Copynumber: 2.0 Consensus size: 29
28070365 TCCGAGCTTT
*
28070375 GGGGAAAAAGTGTAATTATGTAAAAGTTA
1 GGGGAAAAAGTGTAATTATATAAAAGTTA
* * *
28070404 GGGGCAAAATTGTAATTTTATAAAAGTTA
1 GGGGAAAAAGTGTAATTATATAAAAGTTA
28070433 G
1 G
28070434 AGTTGAGGAC
Statistics
Matches: 26, Mismatches: 4, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
29 26 1.00
ACGTcount: A:0.42, C:0.02, G:0.25, T:0.31
Consensus pattern (29 bp):
GGGGAAAAAGTGTAATTATATAAAAGTTA
Found at i:28070918 original size:50 final size:50
Alignment explanation
Indices: 28070823--28070962 Score: 147
Period size: 50 Copynumber: 2.8 Consensus size: 50
28070813 CATTGAGATT
* * ** *
28070823 ATGAGAGGTCCTATGTAAGACCATGTCTGGGACATGGTGTTGGCAC-TGAG
1 ATGAGAGGTCCCATGTAAGACCATGTTTGGGACATGGCATGGGCACAT-AG
** *
28070873 ATGAGAGGTCCCCCGTAAGACCATGTTTGGGACATGGCATGGGCACATAT
1 ATGAGAGGTCCCATGTAAGACCATGTTTGGGACATGGCATGGGCACATAG
** * * *
28070923 ATGAGAACTCCCATGTAAGACCATATTTTGGATATGGCAT
1 ATGAGAGGTCCCATGTAAGACCATGTTTGGGACATGGCAT
28070963 TTTTAGTACA
Statistics
Matches: 74, Mismatches: 15, Indels: 2
0.81 0.16 0.02
Matches are distributed among these distances:
50 73 0.99
51 1 0.01
ACGTcount: A:0.27, C:0.19, G:0.29, T:0.26
Consensus pattern (50 bp):
ATGAGAGGTCCCATGTAAGACCATGTTTGGGACATGGCATGGGCACATAG
Found at i:28079265 original size:47 final size:47
Alignment explanation
Indices: 28079211--28079303 Score: 177
Period size: 47 Copynumber: 2.0 Consensus size: 47
28079201 ACCTAAGTGC
28079211 GAGACAAGAGGGAATAGAGAGATTCAATCAAGTTGTCTAGGAATAGA
1 GAGACAAGAGGGAATAGAGAGATTCAATCAAGTTGTCTAGGAATAGA
*
28079258 GAGACAAGAGGGAATAGAGAGATTCAGTCAAGTTGTCTAGGAATAG
1 GAGACAAGAGGGAATAGAGAGATTCAATCAAGTTGTCTAGGAATAG
28079304 TATTCTCCAC
Statistics
Matches: 45, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
47 45 1.00
ACGTcount: A:0.41, C:0.09, G:0.31, T:0.19
Consensus pattern (47 bp):
GAGACAAGAGGGAATAGAGAGATTCAATCAAGTTGTCTAGGAATAGA
Found at i:28098027 original size:31 final size:31
Alignment explanation
Indices: 28097960--28098032 Score: 78
Period size: 31 Copynumber: 2.3 Consensus size: 31
28097950 GCTCTTCCGG
28097960 TTTTTTCATTTTTCTAAATTTCATCCTATAC-
1 TTTTTT-ATTTTTCTAAATTTCATCCTATACA
* * *
28097991 CTTTTTATTTATTTTAAATTTCATCCATTTA-A
1 TTTTTTATTT-TTCTAAATTTCATCC-TATACA
28098023 TTTTTTATTT
1 TTTTTTATTT
28098033 CCTTAAAAAT
Statistics
Matches: 35, Mismatches: 4, Indels: 5
0.80 0.09 0.11
Matches are distributed among these distances:
30 4 0.11
31 19 0.54
32 12 0.34
ACGTcount: A:0.23, C:0.14, G:0.00, T:0.63
Consensus pattern (31 bp):
TTTTTTATTTTTCTAAATTTCATCCTATACA
Found at i:28101071 original size:17 final size:16
Alignment explanation
Indices: 28101049--28101082 Score: 50
Period size: 16 Copynumber: 2.1 Consensus size: 16
28101039 GGGGATGGCG
28101049 TTTGTTTGATGTTTATT
1 TTTGTTTG-TGTTTATT
*
28101066 TTTGTTTGTTTTTATT
1 TTTGTTTGTGTTTATT
28101082 T
1 T
28101083 CATAATATTT
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
16 8 0.50
17 8 0.50
ACGTcount: A:0.09, C:0.00, G:0.15, T:0.76
Consensus pattern (16 bp):
TTTGTTTGTGTTTATT
Found at i:28110197 original size:79 final size:80
Alignment explanation
Indices: 28110039--28110263 Score: 246
Period size: 79 Copynumber: 2.8 Consensus size: 80
28110029 TTGAATGATG
* * * * * * *
28110039 TCCGGGCTAAGTCCCGAAGGC-TTTGTGCTAAGTGACCATATCCGGACTAAGAT-CCAAAGGCAT
1 TCCGGACTAAGTCCCGAAGGCATTTGTGCGAA-TTACTATAACCGGGCTAAG-TCCCGAAGGCAT
28110102 TTGTGCGAGATACTAAA
64 TTGTGCGAGATACTAAA
* *
28110119 TCCGGACTAAGAT-CCGAAGGCATTTGTGCGAGA-TACTA-ATTCCGGGTTAAG-CCCGAAGGCA
1 TCCGGACTAAG-TCCCGAAGGCATTTGTGCGA-ATTACTATA-ACCGGGCTAAGTCCCGAAGGCA
*
28110180 TTTGTGCGAGTTACTAAA
63 TTTGTGCGAGATACTAAA
** *
28110198 TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAATTACTATAACCGGGCTATGTCCCGAAGGCATTT
1 TCCGGACTAAGTCCCGAAGGCATTTGTGCGAATTACTATAACCGGGCTAAGTCCCGAAGGCATTT
28110263 G
66 G
28110264 AACGAGGAGC
Statistics
Matches: 123, Mismatches: 13, Indels: 18
0.80 0.08 0.12
Matches are distributed among these distances:
78 2 0.02
79 66 0.54
80 45 0.37
81 9 0.07
82 1 0.01
ACGTcount: A:0.27, C:0.22, G:0.26, T:0.25
Consensus pattern (80 bp):
TCCGGACTAAGTCCCGAAGGCATTTGTGCGAATTACTATAACCGGGCTAAGTCCCGAAGGCATTT
GTGCGAGATACTAAA
Found at i:28110227 original size:40 final size:40
Alignment explanation
Indices: 28110039--28110263 Score: 253
Period size: 40 Copynumber: 5.7 Consensus size: 40
28110029 TTGAATGATG
* * * *
28110039 TCCGGGCTAAGTCCCGAAGGC-TTTGTGCTAAGTGACCATA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGC-GAGTTACTAAA
* * *
28110079 TCCGGACTAAGAT-CCAAAGGCATTTGTGCGAGATACTAAA
1 TCCGGGCTAAG-TCCCGAAGGCATTTGTGCGAGTTACTAAA
* * *
28110119 TCCGGACTAAGAT-CCGAAGGCATTTGTGCGAGATACTAAT
1 TCCGGGCTAAG-TCCCGAAGGCATTTGTGCGAGTTACTAAA
*
28110159 TCCGGGTTAAG-CCCGAAGGCATTTGTGCGAGTTACTAAA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAA
* *
28110198 TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAATTACTATAA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTA-AA
*
28110239 -CCGGGCTATGTCCCGAAGGCATTTG
1 TCCGGGCTAAGTCCCGAAGGCATTTG
28110264 AACGAGGAGC
Statistics
Matches: 164, Mismatches: 16, Indels: 10
0.86 0.08 0.05
Matches are distributed among these distances:
39 36 0.22
40 118 0.72
41 10 0.06
ACGTcount: A:0.27, C:0.22, G:0.26, T:0.25
Consensus pattern (40 bp):
TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAA
Found at i:28110285 original size:79 final size:79
Alignment explanation
Indices: 28110095--28110296 Score: 191
Period size: 79 Copynumber: 2.6 Consensus size: 79
28110085 CTAAGATCCA
** **
28110095 AAGGCATTTGTGCGAGAT-ACTAAATCCGGACTAAGAT-CCGAAGGCATTTGTGCGAGATACTAA
1 AAGGCATTTGAACGAG-TGACTAAATCCGGGTTAA-ATCCCGAAGGCATTTGTGCGAGATACTAA
* *
28110158 TTCCGGGTTAAGCCCG
64 TACCGGGCTAAGCCCG
** * *
28110174 AAGGCATTTGTGCGAGTTACTAAATCCGGGTTAAGTCCCGAAGGCATTTGTGCGA-ATTACT-AT
1 AAGGCATTTGAACGAGTGACTAAATCCGGGTTAAATCCCGAAGGCATTTGTGCGAGA-TACTAAT
*
28110237 AACCGGGCTATGTCCCG
65 -ACCGGGCTAAG-CCCG
* *
28110254 AAGGCATTTGAACGAG-GAGCTATATCC-GGTTAAATTCCGAAGG
1 AAGGCATTTGAACGAGTGA-CTAAATCCGGGTTAAATCCCGAAGG
28110297 TACGTGATTT
Statistics
Matches: 105, Mismatches: 12, Indels: 12
0.81 0.09 0.09
Matches are distributed among these distances:
78 5 0.05
79 75 0.71
80 25 0.24
ACGTcount: A:0.28, C:0.20, G:0.27, T:0.25
Consensus pattern (79 bp):
AAGGCATTTGAACGAGTGACTAAATCCGGGTTAAATCCCGAAGGCATTTGTGCGAGATACTAATA
CCGGGCTAAGCCCG
Found at i:28118052 original size:40 final size:40
Alignment explanation
Indices: 28118003--28118127 Score: 189
Period size: 40 Copynumber: 3.1 Consensus size: 40
28117993 AAGTGACCAT
*
28118003 ATCCAGACTAAGATCCGAAGGCATTTGTGCGAGATACTAA
1 ATCCGGACTAAGATCCGAAGGCATTTGTGCGAGATACTAA
*
28118043 ATCCGGACTAAGATCCGAAGACATTTGTGCGAGATACTAA
1 ATCCGGACTAAGATCCGAAGGCATTTGTGCGAGATACTAA
* * * *
28118083 TTCCGGGCTAAG-CCCGAAGGCATTTGTGCGAGTTACTAA
1 ATCCGGACTAAGATCCGAAGGCATTTGTGCGAGATACTAA
28118122 ATCCGG
1 ATCCGG
28118128 GTTAAGTACA
Statistics
Matches: 77, Mismatches: 8, Indels: 1
0.90 0.09 0.01
Matches are distributed among these distances:
39 29 0.38
40 48 0.62
ACGTcount: A:0.30, C:0.22, G:0.25, T:0.23
Consensus pattern (40 bp):
ATCCGGACTAAGATCCGAAGGCATTTGTGCGAGATACTAA
Found at i:28118111 original size:39 final size:40
Alignment explanation
Indices: 28117964--28118133 Score: 184
Period size: 40 Copynumber: 4.3 Consensus size: 40
28117954 TTGAATGATG
* * * *
28117964 TCCGGGCTAAGTCCCGAAGGC-TTTGTGCTA-AGTGACCATA
1 TCCGGGCTAAGACCCGAAGGCATTTGTGCGAGA-T-ACTAAA
* * *
28118004 TCCAGACTAAGATCCGAAGGCATTTGTGCGAGATACTAAA
1 TCCGGGCTAAGACCCGAAGGCATTTGTGCGAGATACTAAA
* * * *
28118044 TCCGGACTAAGATCCGAAGACATTTGTGCGAGATACTAAT
1 TCCGGGCTAAGACCCGAAGGCATTTGTGCGAGATACTAAA
*
28118084 TCCGGGCTAAG-CCCGAAGGCATTTGTGCGAGTTACTAAA
1 TCCGGGCTAAGACCCGAAGGCATTTGTGCGAGATACTAAA
*
28118123 TCCGGGTTAAG
1 TCCGGGCTAAG
28118134 TACAAGAATG
Statistics
Matches: 112, Mismatches: 16, Indels: 5
0.84 0.12 0.04
Matches are distributed among these distances:
39 34 0.30
40 68 0.61
41 9 0.08
42 1 0.01
ACGTcount: A:0.28, C:0.22, G:0.26, T:0.24
Consensus pattern (40 bp):
TCCGGGCTAAGACCCGAAGGCATTTGTGCGAGATACTAAA
Found at i:28118346 original size:271 final size:271
Alignment explanation
Indices: 28117863--28118405 Score: 1068
Period size: 271 Copynumber: 2.0 Consensus size: 271
28117853 GAGCCGAAAT
28117863 TACAAGAATGATAAGTGTCTTGTGTTCGAGTTTTGCTAACGAAAATGAAATACGAATGTGCCATG
1 TACAAGAATGATAAGTGTCTTGTGTTCGAGTTTTGCTAACGAAAATGAAATACGAATGTGCCATG
28117928 ATTTATTGTTAAATGTGCATGGTTATTTGAATGATGTCCGGGCTAAGTCCCGAAGGCTTTGTGCT
66 ATTTATTGTTAAATGTGCATGGTTATTTGAATGATGTCCGGGCTAAGTCCCGAAGGCTTTGTGCT
28117993 AAGTGACCATATCCAGACTAAGATCCGAAGGCATTTGTGCGAGATACTAAATCCGGACTAAGATC
131 AAGTGACCATATCCAGACTAAGATCCGAAGGCATTTGTGCGAGATACTAAATCCGGACTAAGATC
28118058 CGAAGACATTTGTGCGAGATACTAATTCCGGGCTAAGCCCGAAGGCATTTGTGCGAGTTACTAAA
196 CGAAGACATTTGTGCGAGATACTAATTCCGGGCTAAGCCCGAAGGCATTTGTGCGAGTTACTAAA
28118123 TCCGGGTTAAG
261 TCCGGGTTAAG
28118134 TACAAGAATGATAAGTGTCTTGTGTTCGAGTTTTGCTAACGAAAATGAAATACGAATGTGCCATG
1 TACAAGAATGATAAGTGTCTTGTGTTCGAGTTTTGCTAACGAAAATGAAATACGAATGTGCCATG
28118199 ATTTATTGTTAAATGTGCATGGTTATTTGAATGATGTCCGGGCTAAGTCCCGAAGGCTTTGTGCT
66 ATTTATTGTTAAATGTGCATGGTTATTTGAATGATGTCCGGGCTAAGTCCCGAAGGCTTTGTGCT
*
28118264 AAGTGACCATATCCGGACTAAGATCCGAAGGCATTTGTGCGAGATACTAAATCCGGACTAAGATC
131 AAGTGACCATATCCAGACTAAGATCCGAAGGCATTTGTGCGAGATACTAAATCCGGACTAAGATC
*
28118329 CGAAGGCATTTGTGCGAGATACTAATTCCGGGCTAAGCCCGAAGGCATTTGTGCGAGTTACTAAA
196 CGAAGACATTTGTGCGAGATACTAATTCCGGGCTAAGCCCGAAGGCATTTGTGCGAGTTACTAAA
28118394 TCCGGGTTAAG
261 TCCGGGTTAAG
28118405 T
1 T
28118406 CCCGAAGGCA
Statistics
Matches: 270, Mismatches: 2, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
271 270 1.00
ACGTcount: A:0.29, C:0.17, G:0.25, T:0.29
Consensus pattern (271 bp):
TACAAGAATGATAAGTGTCTTGTGTTCGAGTTTTGCTAACGAAAATGAAATACGAATGTGCCATG
ATTTATTGTTAAATGTGCATGGTTATTTGAATGATGTCCGGGCTAAGTCCCGAAGGCTTTGTGCT
AAGTGACCATATCCAGACTAAGATCCGAAGGCATTTGTGCGAGATACTAAATCCGGACTAAGATC
CGAAGACATTTGTGCGAGATACTAATTCCGGGCTAAGCCCGAAGGCATTTGTGCGAGTTACTAAA
TCCGGGTTAAG
Found at i:28118395 original size:79 final size:80
Alignment explanation
Indices: 28118235--28118459 Score: 264
Period size: 79 Copynumber: 2.8 Consensus size: 80
28118225 TTGAATGATG
* * * * * *
28118235 TCCGGGCTAAGTCCCGAAGGC-TTTGTGCTAAGTGACCATATCCGGACTAAGAT-CCGAAGGCAT
1 TCCGGACTAAGTCCCGAAGGCATTTGTGCGAA-TTACTATAACCGGGCTAAG-TCCCGAAGGCAT
28118298 TTGTGCGAGATACTAAA
64 TTGTGCGAGATACTAAA
*
28118315 TCCGGACTAAGAT-CCGAAGGCATTTGTGCGAGA-TACTA-ATTCCGGGCTAAG-CCCGAAGGCA
1 TCCGGACTAAG-TCCCGAAGGCATTTGTGCGA-ATTACTATA-ACCGGGCTAAGTCCCGAAGGCA
*
28118376 TTTGTGCGAGTTACTAAA
63 TTTGTGCGAGATACTAAA
** *
28118394 TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAATTACTATAACCGGGCTATGTCCCGAAGGCATTT
1 TCCGGACTAAGTCCCGAAGGCATTTGTGCGAATTACTATAACCGGGCTAAGTCCCGAAGGCATTT
28118459 G
66 G
28118460 AACGAGGAGC
Statistics
Matches: 126, Mismatches: 10, Indels: 18
0.82 0.06 0.12
Matches are distributed among these distances:
78 2 0.02
79 68 0.54
80 46 0.37
81 9 0.07
82 1 0.01
ACGTcount: A:0.26, C:0.22, G:0.27, T:0.25
Consensus pattern (80 bp):
TCCGGACTAAGTCCCGAAGGCATTTGTGCGAATTACTATAACCGGGCTAAGTCCCGAAGGCATTT
GTGCGAGATACTAAA
Found at i:28118423 original size:40 final size:40
Alignment explanation
Indices: 28118235--28118459 Score: 271
Period size: 40 Copynumber: 5.7 Consensus size: 40
28118225 TTGAATGATG
* * * *
28118235 TCCGGGCTAAGTCCCGAAGGC-TTTGTGCTAAGTGACCATA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGC-GAGTTACTAAA
* *
28118275 TCCGGACTAAGAT-CCGAAGGCATTTGTGCGAGATACTAAA
1 TCCGGGCTAAG-TCCCGAAGGCATTTGTGCGAGTTACTAAA
* * *
28118315 TCCGGACTAAGAT-CCGAAGGCATTTGTGCGAGATACTAAT
1 TCCGGGCTAAG-TCCCGAAGGCATTTGTGCGAGTTACTAAA
28118355 TCCGGGCTAAG-CCCGAAGGCATTTGTGCGAGTTACTAAA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAA
* *
28118394 TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAATTACTATAA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTA-AA
*
28118435 -CCGGGCTATGTCCCGAAGGCATTTG
1 TCCGGGCTAAGTCCCGAAGGCATTTG
28118460 AACGAGGAGC
Statistics
Matches: 166, Mismatches: 14, Indels: 10
0.87 0.07 0.05
Matches are distributed among these distances:
39 35 0.21
40 121 0.73
41 10 0.06
ACGTcount: A:0.26, C:0.22, G:0.27, T:0.25
Consensus pattern (40 bp):
TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAA
Found at i:28118451 original size:119 final size:120
Alignment explanation
Indices: 28118235--28118459 Score: 291
Period size: 119 Copynumber: 1.9 Consensus size: 120
28118225 TTGAATGATG
*
28118235 TCCGGGCTAAGTCCCGAAGGCTTTGTGCTAAGTGACCATATCCGGACTAAGATCCGAAGGCATTT
1 TCCGGGCTAAGTCCCGAAGGCTTTGTGCTAAGTGACCAAATCCGGACTAAGATCCGAAGGCATTT
28118300 GTGCGAGATACTAAATCCGGACTAAGATCCGAAGGCATTTGTGCGAGATACTAAT
66 GTGCGAGATACTAAATCCGGACTAAGATCCGAAGGCATTTGTGCGAGATACTAAT
* * * **
28118355 TCCGGGCTAAG-CCCGAAGGCATTTGTGC-GAGTTACTAAATCCGGGTTAAG-TCCCGAAGGCAT
1 TCCGGGCTAAGTCCCGAAGGC-TTTGTGCTAAGTGACCAAATCCGGACTAAGAT-CCGAAGGCAT
* *
28118417 TTGTGCGA-ATTACTATAA-CCGGGCTATG-TCCCGAAGGCATTTG
64 TTGTGCGAGA-TACTA-AATCCGGACTAAGAT-CCGAAGGCATTTG
28118460 AACGAGGAGC
Statistics
Matches: 92, Mismatches: 8, Indels: 11
0.83 0.07 0.10
Matches are distributed among these distances:
118 3 0.03
119 69 0.75
120 20 0.22
ACGTcount: A:0.26, C:0.22, G:0.27, T:0.25
Consensus pattern (120 bp):
TCCGGGCTAAGTCCCGAAGGCTTTGTGCTAAGTGACCAAATCCGGACTAAGATCCGAAGGCATTT
GTGCGAGATACTAAATCCGGACTAAGATCCGAAGGCATTTGTGCGAGATACTAAT
Found at i:28118492 original size:79 final size:79
Alignment explanation
Indices: 28118288--28118484 Score: 199
Period size: 79 Copynumber: 2.5 Consensus size: 79
28118278 GGACTAAGAT
** **
28118288 CCGAAGGCATTTGTGCGAGAT-ACTAAATCCGGACTAAGAT-CCGAAGGCATTTGTGCGAGATAC
1 CCGAAGGCATTTGAACGAG-TGACTAAATCCGGGTTAA-ATCCCGAAGGCATTTGTGCGAGATAC
*
28118351 TAATTCCGGGCTAAGC
64 TAATACCGGGCTAAGC
** * *
28118367 CCGAAGGCATTTGTGCGAGTTACTAAATCCGGGTTAAGTCCCGAAGGCATTTGTGCGA-ATTACT
1 CCGAAGGCATTTGAACGAGTGACTAAATCCGGGTTAAATCCCGAAGGCATTTGTGCGAGA-TACT
*
28118431 -ATAACCGGGCTATGTC
65 AAT-ACCGGGCTAAG-C
*
28118447 CCGAAGGCATTTGAACGAG-GAGCTATATCC-GGTTAAAT
1 CCGAAGGCATTTGAACGAGTGA-CTAAATCCGGGTTAAAT
28118485 TCTGAAGGTA
Statistics
Matches: 102, Mismatches: 10, Indels: 12
0.82 0.08 0.10
Matches are distributed among these distances:
78 5 0.05
79 72 0.71
80 25 0.25
ACGTcount: A:0.28, C:0.21, G:0.26, T:0.25
Consensus pattern (79 bp):
CCGAAGGCATTTGAACGAGTGACTAAATCCGGGTTAAATCCCGAAGGCATTTGTGCGAGATACTA
ATACCGGGCTAAGC
Found at i:28121175 original size:5 final size:5
Alignment explanation
Indices: 28121153--28121233 Score: 56
Period size: 5 Copynumber: 15.6 Consensus size: 5
28121143 TTTTATTGAA
* * ** *
28121153 TTTAT CTTTAT CTTTAT TTTAT TTTAT TTTAGT TTTTT TTTGT TCAAG
1 TTTAT -TTTAT -TTTAT TTTAT TTTAT TTTA-T TTTAT TTTAT TTTAT
* *
28121201 CTTGT TTTAT TTT-T ATTTAT TTTAT TTTAT TTT
1 TTTAT TTTAT TTTAT -TTTAT TTTAT TTTAT TTT
28121234 TGCAGAATAA
Statistics
Matches: 59, Mismatches: 13, Indels: 7
0.75 0.16 0.09
Matches are distributed among these distances:
4 1 0.02
5 42 0.71
6 16 0.27
ACGTcount: A:0.16, C:0.05, G:0.05, T:0.74
Consensus pattern (5 bp):
TTTAT
Found at i:28139857 original size:75 final size:75
Alignment explanation
Indices: 28139761--28139934 Score: 258
Period size: 75 Copynumber: 2.3 Consensus size: 75
28139751 TATATATTGA
* *
28139761 GCATTAGCGGCGCTTTTTGAAAAACACCGCAAAAAAATTAAGAACAACGCCGTCGTTTTATGTTG
1 GCATTAGCGGCGCTTTTTGAAAAACACCGCAAAAAAATTAAGAACAACGCCGCCGTTTTATGTTA
28139826 AGCTTTAGTG
66 AGCTTTAGTG
* * * * * * *
28139836 GTATTAGAGGCACTTTTTGAAAAACGCGGCAAAAAAATTCAGCACAACGCCGCCGTTTTATGTTA
1 GCATTAGCGGCGCTTTTTGAAAAACACCGCAAAAAAATTAAGAACAACGCCGCCGTTTTATGTTA
28139901 AGCTTTAGTG
66 AGCTTTAGTG
*
28139911 GCATTAGCGGTGCTTTTTGAAAAA
1 GCATTAGCGGCGCTTTTTGAAAAA
28139935 TGTCGCTATA
Statistics
Matches: 86, Mismatches: 13, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
75 86 1.00
ACGTcount: A:0.32, C:0.18, G:0.22, T:0.29
Consensus pattern (75 bp):
GCATTAGCGGCGCTTTTTGAAAAACACCGCAAAAAAATTAAGAACAACGCCGCCGTTTTATGTTA
AGCTTTAGTG
Found at i:28140354 original size:7 final size:7
Alignment explanation
Indices: 28140344--28140527 Score: 79
Period size: 7 Copynumber: 25.9 Consensus size: 7
28140334 TATTATTATA
28140344 GTTTAGG
1 GTTTAGG
*
28140351 GTTTATG
1 GTTTAGG
28140358 GTTTAGG
1 GTTTAGG
* *
28140365 GTATAAG
1 GTTTAGG
28140372 GTTTAGG
1 GTTTAGG
*
28140379 GTTTAAG
1 GTTTAGG
*
28140386 GTTTAAG
1 GTTTAGG
*
28140393 GTTTAAGA
1 GTTT-AGG
28140401 GTTACTA--
1 GTT--TAGG
* *
28140408 TTTTAAG
1 GTTTAGG
*
28140415 GTTTATG
1 GTTTAGG
*
28140422 GATTATGG
1 GTTTA-GG
28140430 GTTTAGG
1 GTTTAGG
* *
28140437 GATTATG
1 GTTTAGG
**
28140444 GTTTATA
1 GTTTAGG
*
28140451 GTTTATG
1 GTTTAGG
28140458 GTTTAAGG
1 GTTT-AGG
*
28140466 G-TTGGG
1 GTTTAGG
**
28140472 GTTTAAA
1 GTTTAGG
28140479 GTTTAGG
1 GTTTAGG
* *
28140486 GGTTAGAA
1 GTTTAG-G
*
28140494 GTTAAGG
1 GTTTAGG
28140501 G-TTAGG
1 GTTTAGG
*
28140507 GGTTAGGG
1 GTTTA-GG
28140515 GTTTAGG
1 GTTTAGG
28140522 GTTTAG
1 GTTTAG
28140528 ATTAATTAAT
Statistics
Matches: 132, Mismatches: 34, Indels: 22
0.70 0.18 0.12
Matches are distributed among these distances:
5 2 0.02
6 8 0.06
7 98 0.74
8 22 0.17
9 1 0.01
10 1 0.01
ACGTcount: A:0.23, C:0.01, G:0.35, T:0.42
Consensus pattern (7 bp):
GTTTAGG
Found at i:28145067 original size:29 final size:29
Alignment explanation
Indices: 28145004--28145071 Score: 93
Period size: 29 Copynumber: 2.3 Consensus size: 29
28144994 TAATCAACCG
28145004 CGCACACTTAGTGCCATGCACTTTAAACT
1 CGCACACTTAGTGCCATGCACTTTAAACT
* **
28145033 CACACACTTAGTGCCATGCA-TTTCAAGTT
1 CGCACACTTAGTGCCATGCACTTT-AAACT
28145062 CGCACACTTA
1 CGCACACTTA
28145072 CCTTTTCCGC
Statistics
Matches: 34, Mismatches: 4, Indels: 2
0.85 0.10 0.05
Matches are distributed among these distances:
28 3 0.09
29 31 0.91
ACGTcount: A:0.28, C:0.31, G:0.13, T:0.28
Consensus pattern (29 bp):
CGCACACTTAGTGCCATGCACTTTAAACT
Found at i:28145183 original size:173 final size:174
Alignment explanation
Indices: 28144893--28145219 Score: 602
Period size: 173 Copynumber: 1.9 Consensus size: 174
28144883 AACTCAAGGT
*
28144893 ACTTACCTTTTCCGCTGTCCAAAATTGACTCGGTAAAGTCGCACCCTTCATGTAAATAATTTATA
1 ACTTACCTTTTCCGCTGTCCAAAATTGACTCGGTAAAGTCGCACCCTTAATGTAAATAATTTATA
*
28144958 GAAAATATATATTGGGTTCGCACACATAGTGCTTAATAATCAACCGCGCACACTTAGTGCCATGC
66 GAAAATATATATTGGGTTCGCACACATAGTGCTTAATAATCAACCACGCACACTTAGTGCCATGC
28145023 ACTTTAAACTCACACACTTAGTGCCATGCATTTCAAGTTCGCAC
131 ACTTTAAACTCACACACTTAGTGCCATGCATTTCAAGTTCGCAC
*
28145067 ACTTACCTTTTCCGCTGTCCAAAA-TGACTCGGTAAGGTCGCACCCTTAATGTAAATAATTTATA
1 ACTTACCTTTTCCGCTGTCCAAAATTGACTCGGTAAAGTCGCACCCTTAATGTAAATAATTTATA
*
28145131 GAAAATATATATTGGGTTCGCACACATAGTGCTTAATAATCAACCACGCACACTTAGTGCCATGT
66 GAAAATATATATTGGGTTCGCACACATAGTGCTTAATAATCAACCACGCACACTTAGTGCCATGC
*
28145196 ACTTTAAACTCGCACACTTAGTGC
131 ACTTTAAACTCACACACTTAGTGC
28145220 TGTACAATTT
Statistics
Matches: 148, Mismatches: 5, Indels: 1
0.96 0.03 0.01
Matches are distributed among these distances:
173 124 0.84
174 24 0.16
ACGTcount: A:0.31, C:0.24, G:0.15, T:0.30
Consensus pattern (174 bp):
ACTTACCTTTTCCGCTGTCCAAAATTGACTCGGTAAAGTCGCACCCTTAATGTAAATAATTTATA
GAAAATATATATTGGGTTCGCACACATAGTGCTTAATAATCAACCACGCACACTTAGTGCCATGC
ACTTTAAACTCACACACTTAGTGCCATGCATTTCAAGTTCGCAC
Found at i:28145211 original size:29 final size:30
Alignment explanation
Indices: 28145172--28145250 Score: 110
Period size: 29 Copynumber: 2.7 Consensus size: 30
28145162 CTTAATAATC
28145172 AACCACGCACACTTAGTGCCATGTAC-TTTA
1 AACC-CGCACACTTAGTGCCATGTACATTTA
*
28145202 AACTCGCACACTTAGTG-C-TGTACAATTTA
1 AACCCGCACACTTAGTGCCATGTAC-ATTTA
28145231 AACCCGCACACTTAGTGCCA
1 AACCCGCACACTTAGTGCCA
28145251 ATCTCATGAC
Statistics
Matches: 43, Mismatches: 2, Indels: 7
0.83 0.04 0.13
Matches are distributed among these distances:
27 5 0.12
28 1 0.02
29 33 0.77
30 4 0.09
ACGTcount: A:0.30, C:0.30, G:0.14, T:0.25
Consensus pattern (30 bp):
AACCCGCACACTTAGTGCCATGTACATTTA
Found at i:28153214 original size:29 final size:29
Alignment explanation
Indices: 28153151--28153218 Score: 93
Period size: 29 Copynumber: 2.3 Consensus size: 29
28153141 TAATCAACCG
28153151 CGCACACTTAGTGCCATGCACTTTAAACT
1 CGCACACTTAGTGCCATGCACTTTAAACT
* **
28153180 CACACACTTAGTGCCATGCA-TTTCAAGTT
1 CGCACACTTAGTGCCATGCACTTT-AAACT
28153209 CGCACACTTA
1 CGCACACTTA
28153219 CCTTTTTCGC
Statistics
Matches: 34, Mismatches: 4, Indels: 2
0.85 0.10 0.05
Matches are distributed among these distances:
28 3 0.09
29 31 0.91
ACGTcount: A:0.28, C:0.31, G:0.13, T:0.28
Consensus pattern (29 bp):
CGCACACTTAGTGCCATGCACTTTAAACT
Found at i:28153331 original size:174 final size:174
Alignment explanation
Indices: 28153040--28153367 Score: 602
Period size: 174 Copynumber: 1.9 Consensus size: 174
28153030 AACTCAAGGT
*
28153040 ACTTACCTTTTCCGCTGTCCAAAATTGACTCGGTAAAGTCGCACCCTTCATGTAAATAATTTATA
1 ACTTACCTTTTCCGCTGTCCAAAATTGACTCGGTAAAGTCGCACCCTTAATGTAAATAATTTATA
*
28153105 GAAAATATATATTGGGTTCGCACACATAGTGCTTAATAATCAACCGCGCACACTTAGTGCCATGC
66 GAAAATATATATTGGGTTCGCACACATAGTGCTTAATAATCAACCACGCACACTTAGTGCCATGC
28153170 ACTTTAAACTCACACACTTAGTGCCATGCATTTCAAGTTCGCAC
131 ACTTTAAACTCACACACTTAGTGCCATGCATTTCAAGTTCGCAC
* *
28153214 ACTTACCTTTTTCGCTGTCCAAAATTGACTCGGTAAGGTCGCACCCTTAATGTAAATAATTTATA
1 ACTTACCTTTTCCGCTGTCCAAAATTGACTCGGTAAAGTCGCACCCTTAATGTAAATAATTTATA
*
28153279 GAAAATATATATTGGGTTCGCACACATAGTGCTTAATAATCAACCACGCACACTTAGTGCCATGT
66 GAAAATATATATTGGGTTCGCACACATAGTGCTTAATAATCAACCACGCACACTTAGTGCCATGC
*
28153344 ACTTTAAACTCGCACACTTAGTGC
131 ACTTTAAACTCACACACTTAGTGC
28153368 TGTACAATTT
Statistics
Matches: 148, Mismatches: 6, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
174 148 1.00
ACGTcount: A:0.31, C:0.24, G:0.15, T:0.30
Consensus pattern (174 bp):
ACTTACCTTTTCCGCTGTCCAAAATTGACTCGGTAAAGTCGCACCCTTAATGTAAATAATTTATA
GAAAATATATATTGGGTTCGCACACATAGTGCTTAATAATCAACCACGCACACTTAGTGCCATGC
ACTTTAAACTCACACACTTAGTGCCATGCATTTCAAGTTCGCAC
Found at i:28153359 original size:29 final size:30
Alignment explanation
Indices: 28153320--28153398 Score: 110
Period size: 29 Copynumber: 2.7 Consensus size: 30
28153310 CTTAATAATC
28153320 AACCACGCACACTTAGTGCCATGTAC-TTTA
1 AACC-CGCACACTTAGTGCCATGTACATTTA
*
28153350 AACTCGCACACTTAGTG-C-TGTACAATTTA
1 AACCCGCACACTTAGTGCCATGTAC-ATTTA
28153379 AACCCGCACACTTAGTGCCA
1 AACCCGCACACTTAGTGCCA
28153399 ATCTCATGAC
Statistics
Matches: 43, Mismatches: 2, Indels: 7
0.83 0.04 0.13
Matches are distributed among these distances:
27 5 0.12
28 1 0.02
29 33 0.77
30 4 0.09
ACGTcount: A:0.30, C:0.30, G:0.14, T:0.25
Consensus pattern (30 bp):
AACCCGCACACTTAGTGCCATGTACATTTA
Found at i:28176403 original size:16 final size:17
Alignment explanation
Indices: 28176384--28176415 Score: 57
Period size: 16 Copynumber: 1.9 Consensus size: 17
28176374 TTATTAAATC
28176384 ATATATTTAA-ATTAAA
1 ATATATTTAATATTAAA
28176400 ATATATTTAATATTAA
1 ATATATTTAATATTAA
28176416 TTATTTAAAA
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
16 10 0.67
17 5 0.33
ACGTcount: A:0.53, C:0.00, G:0.00, T:0.47
Consensus pattern (17 bp):
ATATATTTAATATTAAA
Found at i:28176479 original size:66 final size:63
Alignment explanation
Indices: 28176408--28176620 Score: 194
Period size: 61 Copynumber: 3.4 Consensus size: 63
28176398 AAATATATTT
28176408 AATATTAATTATTTAA-AATTTTATTTTATAGTATCATATATTATGATTTGAGTAAATTCATATA
1 AATATTAATTA-TTAAGAATTTTA--TTA-AGTATCATATATTATGATTTGAGTAAATTCATATA
28176472 AG
62 AG
* * * * * * *
28176474 AATATTAATTATTAAGAATTTTATTAA--ATTATATATTTTAATTAT-ATTATATTTA-ATAAT
1 AATATTAATTATTAAGAATTTTATTAAGTATCATATATTATGATT-TGAGTAAATTCATATAAG
* * * *
28176534 AATTATGTTATT-TT-A-TATTTTA--CAGTATCATATATTATGGTTTGAGTAAATTCATATAAG
1 AA-TAT-TAATTATTAAGAATTTTATTAAGTATCATATATTATGATTTGAGTAAATTCATATAAG
28176594 AATATTAATTATTAAGAATTTTATTAA
1 AATATTAATTATTAAGAATTTTATTAA
28176621 ATTATATATT
Statistics
Matches: 113, Mismatches: 21, Indels: 29
0.69 0.13 0.18
Matches are distributed among these distances:
57 1 0.01
58 5 0.04
59 30 0.27
60 14 0.12
61 31 0.27
62 5 0.04
63 2 0.02
64 3 0.03
65 4 0.04
66 18 0.16
ACGTcount: A:0.41, C:0.02, G:0.07, T:0.50
Consensus pattern (63 bp):
AATATTAATTATTAAGAATTTTATTAAGTATCATATATTATGATTTGAGTAAATTCATATAAG
Found at i:28176494 original size:120 final size:120
Alignment explanation
Indices: 28176370--28176662 Score: 482
Period size: 120 Copynumber: 2.4 Consensus size: 120
28176360 AATTATTTTA
* * *
28176370 AATTTTATTAAATCATATATTTAAATTAAAATATATTTAATATTAATTAT-TTAAAATTT-TATT
1 AATTTTATTAAATTATATATTTTAATTAAAATATATTTAATAATAATTATGTT--AATTTATATT
*
28176433 TTATAGTATCATATATTATGATTTGAGTAAATTCATATAAGAATATTAATTATTAAG
64 TTACAGTATCATATATTATGATTTGAGTAAATTCATATAAGAATATTAATTATTAAG
* * *
28176490 AATTTTATTAAATTATATATTTTAATTATATTATATTTAATAATAATTATGTTATTTTATATTTT
1 AATTTTATTAAATTATATATTTTAATTAAAATATATTTAATAATAATTATGTTAATTTATATTTT
*
28176555 ACAGTATCATATATTATGGTTTGAGTAAATTCATATAAGAATATTAATTATTAAG
66 ACAGTATCATATATTATGATTTGAGTAAATTCATATAAGAATATTAATTATTAAG
28176610 AATTTTATTAAATTATATATTTTAATTAAAATATATTTAATAATAATTATGTT
1 AATTTTATTAAATTATATATTTTAATTAAAATATATTTAATAATAATTATGTT
28176663 TAAATATGAT
Statistics
Matches: 161, Mismatches: 10, Indels: 4
0.92 0.06 0.02
Matches are distributed among these distances:
119 4 0.02
120 155 0.96
121 2 0.01
ACGTcount: A:0.43, C:0.02, G:0.05, T:0.50
Consensus pattern (120 bp):
AATTTTATTAAATTATATATTTTAATTAAAATATATTTAATAATAATTATGTTAATTTATATTTT
ACAGTATCATATATTATGATTTGAGTAAATTCATATAAGAATATTAATTATTAAG
Found at i:28176522 original size:18 final size:17
Alignment explanation
Indices: 28176491--28176525 Score: 52
Period size: 18 Copynumber: 2.0 Consensus size: 17
28176481 ATTATTAAGA
28176491 ATTTTATTAAATTATAT
1 ATTTTATTAAATTATAT
*
28176508 ATTTTAATTATATTATAT
1 ATTTT-ATTAAATTATAT
28176526 TTAATAATAA
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
17 5 0.31
18 11 0.69
ACGTcount: A:0.40, C:0.00, G:0.00, T:0.60
Consensus pattern (17 bp):
ATTTTATTAAATTATAT
Found at i:28176639 original size:18 final size:17
Alignment explanation
Indices: 28176611--28176645 Score: 52
Period size: 18 Copynumber: 2.0 Consensus size: 17
28176601 ATTATTAAGA
*
28176611 ATTTTATTAAATTATAT
1 ATTTTATTAAAATATAT
28176628 ATTTTAATTAAAATATAT
1 ATTTT-ATTAAAATATAT
28176646 TTAATAATAA
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
17 5 0.31
18 11 0.69
ACGTcount: A:0.46, C:0.00, G:0.00, T:0.54
Consensus pattern (17 bp):
ATTTTATTAAAATATAT
Found at i:28176759 original size:147 final size:149
Alignment explanation
Indices: 28176599--28176873 Score: 509
Period size: 147 Copynumber: 1.9 Consensus size: 149
28176589 ATAAGAATAT
*
28176599 TAATTATTAAGAATTTTATTAAATTATATATTTTAATTAAAATATATTTAATAATAATTATGTTT
1 TAATTATTAAGAATTTTATTAAATTATATATTTTAATTAAAATATATTAAATAATAATTATGTTT
*
28176664 AAATATGATTAAATTATTTATTATTGAT-ATTAATAATCTTATTAAAATTTAAATAA-AATAATT
66 AAATATGATTAAATTATTTATTATTGATAATAAATAATCTTATTAAAATTTAAATAACAATAATT
28176727 TACCAAAACAAATTTCTGC
131 TACCAAAACAAATTTCTGC
28176746 TAATTATTAAGAATTTTATTAAATTATATATTTTAATTAAAATATATTAAATAATAATTATGTTT
1 TAATTATTAAGAATTTTATTAAATTATATATTTTAATTAAAATATATTAAATAATAATTATGTTT
*
28176811 AAATATGATTAAATTATTTATTTTTGATAATAAATAATCTTATTAAAATTTAAATAACAATAA
66 AAATATGATTAAATTATTTATTATTGATAATAAATAATCTTATTAAAATTTAAATAACAATAA
28176874 CAATAATCAT
Statistics
Matches: 123, Mismatches: 3, Indels: 2
0.96 0.02 0.02
Matches are distributed among these distances:
147 91 0.74
148 27 0.22
149 5 0.04
ACGTcount: A:0.47, C:0.03, G:0.03, T:0.47
Consensus pattern (149 bp):
TAATTATTAAGAATTTTATTAAATTATATATTTTAATTAAAATATATTAAATAATAATTATGTTT
AAATATGATTAAATTATTTATTATTGATAATAAATAATCTTATTAAAATTTAAATAACAATAATT
TACCAAAACAAATTTCTGC
Found at i:28176786 original size:18 final size:17
Alignment explanation
Indices: 28176758--28176792 Score: 52
Period size: 18 Copynumber: 2.0 Consensus size: 17
28176748 ATTATTAAGA
*
28176758 ATTTTATTAAATTATAT
1 ATTTTATTAAAATATAT
28176775 ATTTTAATTAAAATATAT
1 ATTTT-ATTAAAATATAT
28176793 TAAATAATAA
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
17 5 0.31
18 11 0.69
ACGTcount: A:0.46, C:0.00, G:0.00, T:0.54
Consensus pattern (17 bp):
ATTTTATTAAAATATAT
Found at i:28177003 original size:44 final size:45
Alignment explanation
Indices: 28176954--28177048 Score: 138
Period size: 45 Copynumber: 2.1 Consensus size: 45
28176944 TTACACCTCT
* *
28176954 ATTACATTCAACCAAACA-CAGTTTTACTATTACGCCTCTATTCC
1 ATTACATTCAACCAAACAGCAGATTTACTATTACACCTCTATTCC
** *
28176998 ATTACATTCAACCAAACAGTTGATTTGCTATTACACCTCTATTCC
1 ATTACATTCAACCAAACAGCAGATTTACTATTACACCTCTATTCC
28177043 ATTACA
1 ATTACA
28177049 CCTCTAATCC
Statistics
Matches: 45, Mismatches: 5, Indels: 1
0.88 0.10 0.02
Matches are distributed among these distances:
44 18 0.40
45 27 0.60
ACGTcount: A:0.33, C:0.27, G:0.05, T:0.35
Consensus pattern (45 bp):
ATTACATTCAACCAAACAGCAGATTTACTATTACACCTCTATTCC
Found at i:28177076 original size:16 final size:16
Alignment explanation
Indices: 28177029--28177078 Score: 82
Period size: 16 Copynumber: 3.1 Consensus size: 16
28177019 GATTTGCTAT
* *
28177029 TACACCTCTATTCCAT
1 TACACCTCTAATCCAA
28177045 TACACCTCTAATCCAA
1 TACACCTCTAATCCAA
28177061 TACACCTCTAATCCAA
1 TACACCTCTAATCCAA
28177077 TA
1 TA
28177079 TAGCGAACTA
Statistics
Matches: 32, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
16 32 1.00
ACGTcount: A:0.34, C:0.36, G:0.00, T:0.30
Consensus pattern (16 bp):
TACACCTCTAATCCAA
Found at i:28179222 original size:13 final size:13
Alignment explanation
Indices: 28179204--28179233 Score: 51
Period size: 13 Copynumber: 2.3 Consensus size: 13
28179194 TATTCGATAG
28179204 TACAAACTGTAAT
1 TACAAACTGTAAT
*
28179217 TACAAATTGTAAT
1 TACAAACTGTAAT
28179230 TACA
1 TACA
28179234 CAGTTATATA
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:0.47, C:0.13, G:0.07, T:0.33
Consensus pattern (13 bp):
TACAAACTGTAAT
Found at i:28180265 original size:20 final size:20
Alignment explanation
Indices: 28180242--28180280 Score: 78
Period size: 20 Copynumber: 1.9 Consensus size: 20
28180232 ATGTAAATTA
28180242 ATTTTATAATATACTTTTTT
1 ATTTTATAATATACTTTTTT
28180262 ATTTTATAATATACTTTTT
1 ATTTTATAATATACTTTTT
28180281 GACCACGACT
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 19 1.00
ACGTcount: A:0.31, C:0.05, G:0.00, T:0.64
Consensus pattern (20 bp):
ATTTTATAATATACTTTTTT
Found at i:28185179 original size:19 final size:19
Alignment explanation
Indices: 28185134--28185180 Score: 51
Period size: 19 Copynumber: 2.4 Consensus size: 19
28185124 ACTCTCAATC
28185134 TCTTTTTGCTCTTTTTCAT
1 TCTTTTTGCTCTTTTTCAT
* *
28185153 TCTCTTTTTCT-TTTTTGATT
1 TCT-TTTTGCTCTTTTTCA-T
28185173 TCTTTTTG
1 TCTTTTTG
28185181 TGTCTTGCTT
Statistics
Matches: 23, Mismatches: 3, Indels: 4
0.77 0.10 0.13
Matches are distributed among these distances:
19 13 0.57
20 10 0.43
ACGTcount: A:0.04, C:0.17, G:0.06, T:0.72
Consensus pattern (19 bp):
TCTTTTTGCTCTTTTTCAT
Found at i:28208665 original size:61 final size:61
Alignment explanation
Indices: 28208570--28208686 Score: 198
Period size: 61 Copynumber: 1.9 Consensus size: 61
28208560 AATTAATCAC
* * *
28208570 ATTAATATTATATTAATAAAATATTATCTAGATAAATATTAAATTAAATTTAATATCTCAT
1 ATTAATATTACATTAATAAAATACTATCTAGATAAATACTAAATTAAATTTAATATCTCAT
*
28208631 ATTAATATTACATTAATAAAATACTATCTAGATAAATACTAAATTTAATTTAATAT
1 ATTAATATTACATTAATAAAATACTATCTAGATAAATACTAAATTAAATTTAATAT
28208687 TAAATTCATT
Statistics
Matches: 52, Mismatches: 4, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
61 52 1.00
ACGTcount: A:0.50, C:0.06, G:0.02, T:0.43
Consensus pattern (61 bp):
ATTAATATTACATTAATAAAATACTATCTAGATAAATACTAAATTAAATTTAATATCTCAT
Found at i:28210007 original size:71 final size:71
Alignment explanation
Indices: 28209914--28210056 Score: 189
Period size: 71 Copynumber: 2.0 Consensus size: 71
28209904 TCTATCGACG
* * * * *
28209914 CCTTGAGGACTTCTACTGAAACAAGTCAAGTTAGCAGCCAAAGTTCAACATCTCCTACACTTCTA
1 CCTTAAGGACTTCTACTAAAACAAGTCAAGTCAGCAGCAAAAGTTCAACATCCCCTACACTTCTA
28209979 CCGATA
66 CCGATA
* * *
28209985 CCTTAAGGACTTCTAAC-AAAACAATTCAAGTCAGTAGCAAAAGTTCAGCATCCCCTACACTTCT
1 CCTTAAGGACTTCT-ACTAAAACAAGTCAAGTCAGCAGCAAAAGTTCAACATCCCCTACACTTCT
*
28210049 ACTGATA
65 ACCGATA
28210056 C
1 C
28210057 TCTGATGGGT
Statistics
Matches: 62, Mismatches: 9, Indels: 2
0.85 0.12 0.03
Matches are distributed among these distances:
71 60 0.97
72 2 0.03
ACGTcount: A:0.34, C:0.28, G:0.13, T:0.25
Consensus pattern (71 bp):
CCTTAAGGACTTCTACTAAAACAAGTCAAGTCAGCAGCAAAAGTTCAACATCCCCTACACTTCTA
CCGATA
Found at i:28234068 original size:71 final size:71
Alignment explanation
Indices: 28233947--28234079 Score: 185
Period size: 71 Copynumber: 1.9 Consensus size: 71
28233937 GCTTAGGACT
* * * * * * *
28233947 TCTATCGATACCTTAAGGACTTCGACCGAAACAAGTCTAGTTAGTAGCCAAATTTTAGCATCTCC
1 TCTACCGATACCTTAAGGACTTCGACCAAAACAAGTCAAGTCAATAGCCAAAGTTCAGCATCTCC
28234012 TACACC
66 TACACC
* *
28234018 TCTACCGATACCTTAAGGACTTCTACCAAAACAATTCAAGTCAATAGCCAAAGTTCAGCATC
1 TCTACCGATACCTTAAGGACTTCGACCAAAACAAGTCAAGTCAATAGCCAAAGTTCAGCATC
28234080 CCCTGTATTT
Statistics
Matches: 53, Mismatches: 9, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
71 53 1.00
ACGTcount: A:0.34, C:0.27, G:0.13, T:0.26
Consensus pattern (71 bp):
TCTACCGATACCTTAAGGACTTCGACCAAAACAAGTCAAGTCAATAGCCAAAGTTCAGCATCTCC
TACACC
Found at i:28245391 original size:63 final size:63
Alignment explanation
Indices: 28245315--28245440 Score: 225
Period size: 63 Copynumber: 2.0 Consensus size: 63
28245305 TTTTTAAGAC
*
28245315 ATAAAGTGGGTCATGCATGATTAAATTAAATAATAAAATATAAAATTATATTTAATAATTTAT
1 ATAAAGTCGGTCATGCATGATTAAATTAAATAATAAAATATAAAATTATATTTAATAATTTAT
* *
28245378 ATAAAGTCGGTCATGCCTGATTAAATTGAATAATAAAATATAAAATTATATTTAATAATTTAT
1 ATAAAGTCGGTCATGCATGATTAAATTAAATAATAAAATATAAAATTATATTTAATAATTTAT
28245441 TTTAAAATAT
Statistics
Matches: 60, Mismatches: 3, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
63 60 1.00
ACGTcount: A:0.48, C:0.05, G:0.10, T:0.38
Consensus pattern (63 bp):
ATAAAGTCGGTCATGCATGATTAAATTAAATAATAAAATATAAAATTATATTTAATAATTTAT
Found at i:28247236 original size:36 final size:36
Alignment explanation
Indices: 28247196--28247264 Score: 104
Period size: 36 Copynumber: 1.9 Consensus size: 36
28247186 GACATCATAG
* *
28247196 ATGCAGGGCACG-CTAACGTTGTTAAGAATGATACTT
1 ATGCAGGGCA-GACTAACGTTATTAAAAATGATACTT
28247232 ATGCAGGGCAGACTAACGTTATTAAAAATGATA
1 ATGCAGGGCAGACTAACGTTATTAAAAATGATA
28247265 TTTTACAACT
Statistics
Matches: 30, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
35 1 0.03
36 29 0.97
ACGTcount: A:0.36, C:0.14, G:0.23, T:0.26
Consensus pattern (36 bp):
ATGCAGGGCAGACTAACGTTATTAAAAATGATACTT
Found at i:28248239 original size:28 final size:28
Alignment explanation
Indices: 28248196--28248250 Score: 92
Period size: 28 Copynumber: 2.0 Consensus size: 28
28248186 GAGTAAGGAT
28248196 TAAGGAAATCACTGAATCAACATAATCA
1 TAAGGAAATCACTGAATCAACATAATCA
* *
28248224 TAAGGAAATCATTGAATCTACATAATC
1 TAAGGAAATCACTGAATCAACATAATC
28248251 CTGGACTAAA
Statistics
Matches: 25, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
28 25 1.00
ACGTcount: A:0.47, C:0.16, G:0.11, T:0.25
Consensus pattern (28 bp):
TAAGGAAATCACTGAATCAACATAATCA
Found at i:28251786 original size:18 final size:19
Alignment explanation
Indices: 28251763--28251804 Score: 61
Period size: 20 Copynumber: 2.3 Consensus size: 19
28251753 TGTTTTAAAG
28251763 TTTATAG-T-TTAATTTTAT
1 TTTATAGTTATTAATTTT-T
28251781 TTTATAGTTATTAATTTTT
1 TTTATAGTTATTAATTTTT
28251800 TTTAT
1 TTTAT
28251805 CTTTTAAGAT
Statistics
Matches: 22, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
18 7 0.32
19 7 0.32
20 8 0.36
ACGTcount: A:0.26, C:0.00, G:0.05, T:0.69
Consensus pattern (19 bp):
TTTATAGTTATTAATTTTT
Found at i:28263297 original size:44 final size:44
Alignment explanation
Indices: 28262704--28263284 Score: 867
Period size: 44 Copynumber: 13.2 Consensus size: 44
28262694 CACAAAGCCA
*
28262704 TATCTCCCTGACCAGCAGTGGAATAGGTTGAAGATTGTAAGCCC
1 TATCTCCCTGACCAGCAGTGGAATAGGTTGAAGATTGTAAGTCC
*
28262748 TATCTCCCTGACCAGCAGTGGAATAGGCTGAAGATTGTAAGTCC
1 TATCTCCCTGACCAGCAGTGGAATAGGTTGAAGATTGTAAGTCC
* * * * *
28262792 TAGCTCCCTGAACAGCAGTGGAATAGGTCGAAGATGGTAAGCCC
1 TATCTCCCTGACCAGCAGTGGAATAGGTTGAAGATTGTAAGTCC
28262836 TATCTCCCTGACCAGCAGTGGAATAGGTTGAAGATTGTAAGTCC
1 TATCTCCCTGACCAGCAGTGGAATAGGTTGAAGATTGTAAGTCC
*
28262880 TATCTCCCTGACCAGTAGTGGAATAGGTTGAAGATTGTAAGTCC
1 TATCTCCCTGACCAGCAGTGGAATAGGTTGAAGATTGTAAGTCC
* * *
28262924 TATCTCCCTGACCAGCAGTGGAATAGGTCGAAGATGGTAAGCCC
1 TATCTCCCTGACCAGCAGTGGAATAGGTTGAAGATTGTAAGTCC
* *
28262968 TATCTCCCTGAACAGCAGTGGAATAGGTCGAAGATTGTAAGTCC
1 TATCTCCCTGACCAGCAGTGGAATAGGTTGAAGATTGTAAGTCC
* * * * * * * *
28263012 TAGCTCCCTGAACAACAGTAGAATAGGTCGAAGATGGTAGGCCC
1 TATCTCCCTGACCAGCAGTGGAATAGGTTGAAGATTGTAAGTCC
* * * *
28263056 TATCTCCCTGACCAGCAGTAGAATAAGTTGAAAATCGTAAGTCC
1 TATCTCCCTGACCAGCAGTGGAATAGGTTGAAGATTGTAAGTCC
*
28263100 TATCTCCCTGACCAGAAGTGGAATAGGTTGAAGATTGTAAGTCC
1 TATCTCCCTGACCAGCAGTGGAATAGGTTGAAGATTGTAAGTCC
28263144 TATCTCCCTGACCAGCAGTGGAATAGGTTGAAGATTGTAAGTCC
1 TATCTCCCTGACCAGCAGTGGAATAGGTTGAAGATTGTAAGTCC
* *
28263188 TATCTCTCGGACCAGCAGTGGAATAGGTTGAAGATTGTAAGTCC
1 TATCTCCCTGACCAGCAGTGGAATAGGTTGAAGATTGTAAGTCC
* *
28263232 TATCTCCCTGACCAACAGTGGAATAGGTTGAAAATTGT-AGATCC
1 TATCTCCCTGACCAGCAGTGGAATAGGTTGAAGATTGTAAG-TCC
*
28263276 TGTCTCCCT
1 TATCTCCCT
28263285 AAGCAGTAGT
Statistics
Matches: 487, Mismatches: 49, Indels: 2
0.91 0.09 0.00
Matches are distributed among these distances:
43 2 0.00
44 485 1.00
ACGTcount: A:0.29, C:0.22, G:0.25, T:0.25
Consensus pattern (44 bp):
TATCTCCCTGACCAGCAGTGGAATAGGTTGAAGATTGTAAGTCC
Found at i:28267881 original size:48 final size:48
Alignment explanation
Indices: 28267829--28267920 Score: 114
Period size: 47 Copynumber: 1.9 Consensus size: 48
28267819 CACGATTTTC
*
28267829 ATTATGTGGCAGTATACCTACAATTTTGGTGGC-TTGTCCACAATATTG
1 ATTAT-TGGCAGTATACCTACAATTTTGGTGACATTGTCCACAATATTG
* * * * *
28267877 ATTATTGGTAGTTTATCTACGATTTTGGTGACATTGTTCACAAT
1 ATTATTGGCAGTATACCTACAATTTTGGTGACATTGTCCACAAT
28267921 TTGGTGTGTT
Statistics
Matches: 37, Mismatches: 6, Indels: 2
0.82 0.13 0.04
Matches are distributed among these distances:
47 22 0.59
48 15 0.41
ACGTcount: A:0.25, C:0.14, G:0.20, T:0.41
Consensus pattern (48 bp):
ATTATTGGCAGTATACCTACAATTTTGGTGACATTGTCCACAATATTG
Found at i:28271814 original size:19 final size:19
Alignment explanation
Indices: 28271787--28271830 Score: 56
Period size: 19 Copynumber: 2.4 Consensus size: 19
28271777 TTTATGTTTT
28271787 ATTTA-TTTATTTACTTA-A
1 ATTTATTTTATTT-CTTATA
*
28271805 ATTTATTTTATTTTTTATA
1 ATTTATTTTATTTCTTATA
28271824 ATTTATT
1 ATTTATT
28271831 AATGCGGAAG
Statistics
Matches: 23, Mismatches: 1, Indels: 3
0.85 0.04 0.11
Matches are distributed among these distances:
18 8 0.35
19 15 0.65
ACGTcount: A:0.30, C:0.02, G:0.00, T:0.68
Consensus pattern (19 bp):
ATTTATTTTATTTCTTATA
Found at i:28280319 original size:20 final size:20
Alignment explanation
Indices: 28280294--28280335 Score: 84
Period size: 20 Copynumber: 2.1 Consensus size: 20
28280284 CTTATAAACC
28280294 GAATCAAACCATATCTTTCT
1 GAATCAAACCATATCTTTCT
28280314 GAATCAAACCATATCTTTCT
1 GAATCAAACCATATCTTTCT
28280334 GA
1 GA
28280336 GACCTCTGGT
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 22 1.00
ACGTcount: A:0.36, C:0.24, G:0.07, T:0.33
Consensus pattern (20 bp):
GAATCAAACCATATCTTTCT
Found at i:28281354 original size:21 final size:21
Alignment explanation
Indices: 28281325--28281364 Score: 62
Period size: 21 Copynumber: 1.9 Consensus size: 21
28281315 GGGTCTACTC
*
28281325 GCCCATGTGAAGGCCACACAT
1 GCCCATGTGAAAGCCACACAT
*
28281346 GCCCCTGTGAAAGCCACAC
1 GCCCATGTGAAAGCCACAC
28281365 GCGCTTGTGT
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
21 17 1.00
ACGTcount: A:0.28, C:0.38, G:0.23, T:0.12
Consensus pattern (21 bp):
GCCCATGTGAAAGCCACACAT
Found at i:28283684 original size:21 final size:20
Alignment explanation
Indices: 28283660--28283699 Score: 53
Period size: 20 Copynumber: 1.9 Consensus size: 20
28283650 ATCTTATAAT
28283660 ATTTGGAAAAATATAATTTTA
1 ATTT-GAAAAATATAATTTTA
* *
28283681 ATTTGATAAATATTATTTT
1 ATTTGAAAAATATAATTTT
28283700 TTTAAACTAT
Statistics
Matches: 17, Mismatches: 2, Indels: 1
0.85 0.10 0.05
Matches are distributed among these distances:
20 13 0.76
21 4 0.24
ACGTcount: A:0.42, C:0.00, G:0.07, T:0.50
Consensus pattern (20 bp):
ATTTGAAAAATATAATTTTA
Found at i:28284455 original size:15 final size:15
Alignment explanation
Indices: 28284431--28284461 Score: 53
Period size: 15 Copynumber: 2.1 Consensus size: 15
28284421 TCTTTCTCTC
28284431 TTTTCGTTTCTTTTT
1 TTTTCGTTTCTTTTT
*
28284446 TTTTCTTTTCTTTTT
1 TTTTCGTTTCTTTTT
28284461 T
1 T
28284462 ATATTATTAA
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
15 15 1.00
ACGTcount: A:0.00, C:0.13, G:0.03, T:0.84
Consensus pattern (15 bp):
TTTTCGTTTCTTTTT
Found at i:28285088 original size:3 final size:3
Alignment explanation
Indices: 28285082--28285115 Score: 50
Period size: 3 Copynumber: 11.3 Consensus size: 3
28285072 AGTTTAATAA
* *
28285082 TAT TAT TAT TAC TAT TAT TAT TAT TAG TAT TAT T
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT T
28285116 TTTTATCAAT
Statistics
Matches: 27, Mismatches: 4, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
3 27 1.00
ACGTcount: A:0.32, C:0.03, G:0.03, T:0.62
Consensus pattern (3 bp):
TAT
Found at i:28285218 original size:21 final size:24
Alignment explanation
Indices: 28285164--28285218 Score: 66
Period size: 20 Copynumber: 2.5 Consensus size: 24
28285154 TTATTATGTA
28285164 GTATTATTTTAAGTTTTCCATATAT
1 GTATTATTTTAAG-TTTCCATATAT
28285189 -TATTA-TTTAA-TTT-CATA-AT
1 GTATTATTTTAAGTTTCCATATAT
28285208 GTATTATTTTA
1 GTATTATTTTA
28285219 TATATATTTT
Statistics
Matches: 28, Mismatches: 0, Indels: 8
0.78 0.00 0.22
Matches are distributed among these distances:
19 2 0.07
20 9 0.32
21 7 0.25
23 5 0.18
24 5 0.18
ACGTcount: A:0.31, C:0.05, G:0.05, T:0.58
Consensus pattern (24 bp):
GTATTATTTTAAGTTTCCATATAT
Found at i:28290017 original size:14 final size:14
Alignment explanation
Indices: 28289998--28290031 Score: 50
Period size: 14 Copynumber: 2.4 Consensus size: 14
28289988 CAAAATGAAA
*
28289998 GTGGAAGATCTTAT
1 GTGGAAGACCTTAT
28290012 GTGGAAGACCTTAT
1 GTGGAAGACCTTAT
*
28290026 CTGGAA
1 GTGGAA
28290032 TAACATTGAT
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
14 18 1.00
ACGTcount: A:0.29, C:0.12, G:0.29, T:0.29
Consensus pattern (14 bp):
GTGGAAGACCTTAT
Found at i:28290128 original size:15 final size:15
Alignment explanation
Indices: 28290098--28290150 Score: 61
Period size: 16 Copynumber: 3.3 Consensus size: 15
28290088 GATTCAATCA
28290098 AAAAAAAAAGAAGAAC
1 AAAAAAAAA-AAGAAC
* *
28290114 AGAACAAAAAAGAAC
1 AAAAAAAAAAAGAAC
28290129 AAAAAACAAAAAGAAAC
1 AAAAAA-AAAAAG-AAC
28290146 AAAAA
1 AAAAA
28290151 CCTCTACTGG
Statistics
Matches: 31, Mismatches: 4, Indels: 3
0.82 0.11 0.08
Matches are distributed among these distances:
15 10 0.32
16 13 0.42
17 8 0.26
ACGTcount: A:0.81, C:0.09, G:0.09, T:0.00
Consensus pattern (15 bp):
AAAAAAAAAAAGAAC
Found at i:28290136 original size:17 final size:17
Alignment explanation
Indices: 28290097--28290150 Score: 58
Period size: 17 Copynumber: 3.2 Consensus size: 17
28290087 AGATTCAATC
*
28290097 AAAA-AAAAAAGAAGAA
1 AAAACAAAAAAGAACAA
*
28290113 CAGAACAAAAAAGAACAA
1 -AAAACAAAAAAGAACAA
28290131 AAAAC-AAAAAGAAACAA
1 AAAACAAAAAAG-AACAA
28290148 AAA
1 AAA
28290151 CCTCTACTGG
Statistics
Matches: 32, Mismatches: 3, Indels: 4
0.82 0.08 0.10
Matches are distributed among these distances:
16 6 0.19
17 15 0.47
18 11 0.34
ACGTcount: A:0.81, C:0.09, G:0.09, T:0.00
Consensus pattern (17 bp):
AAAACAAAAAAGAACAA
Found at i:28292122 original size:88 final size:88
Alignment explanation
Indices: 28291927--28292130 Score: 259
Period size: 88 Copynumber: 2.3 Consensus size: 88
28291917 CATAAATCTC
* * * * * *
28291927 ATCTCCCTGAGCAACAGTGAAGTAGGTTAAAAATAGCAGATCTTTTCTTCATGTATTGGTAGCGA
1 ATCTCCCTGAGCAGCAGTGGAGTAGGTTAAAAATAGCAGATCTTGTCTTCATGTATCGGCAACGA
*
28291992 AATAGATTGAAGACACCAGCCTT
66 AATAGATCGAAGACACCAGCCTT
* * *
28292015 ATCTCCCTGAGTAGCAGTGGAGTAGGTTAAAAATAGCAGATCTTGTCTTCCTGTATCGGCAATGA
1 ATCTCCCTGAGCAGCAGTGGAGTAGGTTAAAAATAGCAGATCTTGTCTTCATGTATCGGCAACGA
*
28292080 AGTAGATCGAAGAC-CTCAGCCTT
66 AATAGATCGAAGACAC-CAGCCTT
* *
28292103 ATCTCCCTG-GACAGTAGTGGAATAGGTT
1 ATCTCCCTGAG-CAGCAGTGGAGTAGGTT
28292131 GATGATTGTA
Statistics
Matches: 100, Mismatches: 14, Indels: 4
0.85 0.12 0.03
Matches are distributed among these distances:
87 2 0.02
88 98 0.98
ACGTcount: A:0.30, C:0.19, G:0.23, T:0.28
Consensus pattern (88 bp):
ATCTCCCTGAGCAGCAGTGGAGTAGGTTAAAAATAGCAGATCTTGTCTTCATGTATCGGCAACGA
AATAGATCGAAGACACCAGCCTT
Found at i:28292295 original size:44 final size:44
Alignment explanation
Indices: 28292229--28292547 Score: 254
Period size: 44 Copynumber: 7.2 Consensus size: 44
28292219 TTAAGCTGCC
* * *
28292229 AGTCCTACCTCCCTGGATAGCAGTGGAATAGGTTGAAGATTGTA
1 AGTCCTATCTCCCTAGACAGCAGTGGAATAGGTTGAAGATTGTA
*
28292273 AGTCCTATCTCCCTAGACAGCAGTGGAATAGGTTGAAGGTTGTA
1 AGTCCTATCTCCCTAGACAGCAGTGGAATAGGTTGAAGATTGTA
* *
28292317 AGTCCTATCTCCCTGGACAGTAGTGGAATAGGTTGAAGATTGT-
1 AGTCCTATCTCCCTAGACAGCAGTGGAATAGGTTGAAGATTGTA
* * * ** * ** *
28292360 AGATCCTGTCTCCCTA-AGCAGTAATGGAGCAGATCAAAGATGGTGA
1 AG-TCCTATCTCCCTAGA-CAGCAGTGGAATAGGTTGAAGATTGT-A
* * * ** * * * * *****
28292406 A-TCTTATCTTCATAGGGTAGTAG-GGAAGCAGATTTAAG-CCACC
1 AGTCCTATCTCCCTA-GACAGCAGTGGAA-TAGGTTGAAGATTGTA
28292449 AGTCCTATCTCCCT-GAACAGCAGTGGAATAGGTTGAAGATTGTA
1 AGTCCTATCTCCCTAG-ACAGCAGTGGAATAGGTTGAAGATTGTA
*
28292493 AGTCCTATCTCCCTGGACAGCAGTGGAATAGGTTGAAGATTGTA
1 AGTCCTATCTCCCTAGACAGCAGTGGAATAGGTTGAAGATTGTA
* *
28292537 CGTCCTGTCTC
1 AGTCCTATCTC
28292548 TTTAAGCAGT
Statistics
Matches: 216, Mismatches: 47, Indels: 24
0.75 0.16 0.08
Matches are distributed among these distances:
42 1 0.00
43 15 0.07
44 186 0.86
45 13 0.06
46 1 0.00
ACGTcount: A:0.28, C:0.19, G:0.26, T:0.27
Consensus pattern (44 bp):
AGTCCTATCTCCCTAGACAGCAGTGGAATAGGTTGAAGATTGTA
Found at i:28292342 original size:88 final size:88
Alignment explanation
Indices: 28292229--28292547 Score: 281
Period size: 88 Copynumber: 3.6 Consensus size: 88
28292219 TTAAGCTGCC
* *
28292229 AGTCCTACCTCCCTGGATAGCAGTGGAATAGGTTGAAGATTGTAAGTCCTATCTCCCTAGACAGC
1 AGTCCTATCTCCCTGGACAGCAGTGGAATAGGTTGAAGATTGTAAGTCCTATCTCCCTAGACAGC
*
28292294 AGTGGAATAGGTTGAAGGTTGTA
66 AGTGGAATAGGTTGAAGATTGTA
* *
28292317 AGTCCTATCTCCCTGGACAGTAGTGGAATAGGTTGAAGATTGT-AGATCCTGTCTCCCTA-AGCA
1 AGTCCTATCTCCCTGGACAGCAGTGGAATAGGTTGAAGATTGTAAG-TCCTATCTCCCTAGA-CA
* * ** * ** *
28292380 GTAATGGAGCAGATCAAAGATGGTGA
64 GCAGTGGAATAGGTTGAAGATTGT-A
* * * ** * * * * *****
28292406 A-TCTTATCTTCATAGGGTAGTAG-GGAAGCAGATTTAAG-CCACCAGTCCTATCTCCCT-GAAC
1 AGTCCTATCTCCCT-GGACAGCAGTGGAA-TAGGTTGAAGATTGTAAGTCCTATCTCCCTAG-AC
28292467 AGCAGTGGAATAGGTTGAAGATTGTA
63 AGCAGTGGAATAGGTTGAAGATTGTA
* *
28292493 AGTCCTATCTCCCTGGACAGCAGTGGAATAGGTTGAAGATTGTACGTCCTGTCTC
1 AGTCCTATCTCCCTGGACAGCAGTGGAATAGGTTGAAGATTGTAAGTCCTATCTC
28292548 TTTAAGCAGT
Statistics
Matches: 170, Mismatches: 50, Indels: 22
0.70 0.21 0.09
Matches are distributed among these distances:
87 18 0.11
88 133 0.78
89 19 0.11
ACGTcount: A:0.28, C:0.19, G:0.26, T:0.27
Consensus pattern (88 bp):
AGTCCTATCTCCCTGGACAGCAGTGGAATAGGTTGAAGATTGTAAGTCCTATCTCCCTAGACAGC
AGTGGAATAGGTTGAAGATTGTA
Found at i:28292399 original size:220 final size:220
Alignment explanation
Indices: 28292102--28292547 Score: 712
Period size: 220 Copynumber: 2.0 Consensus size: 220
28292092 ACCTCAGCCT
* * *
28292102 TATCTCCCTGGACAGTAGTGGAATAGGTTGATGATTGTAGATCATGTCTGCCTAAACAATAGTGG
1 TATCTCCCTGGACAGTAGTGGAATAGGTTGAAGATTGTAGATCATGTCTCCCTAAACAATAATGG
* **
28292167 AACAGATCAAAGACGGTGAATCTTATCTTCCCAAGGTAGTAGGGAAGCAGATTTAAGCTGCCAGT
66 AACAGATCAAAGACGGTGAATCTTATCTTCACAAGGTAGTAGGGAAGCAGATTTAAGCCACCAGT
* *
28292232 CCTACCTCCCTGGATAGCAGTGGAATAGGTTGAAGATTGTAAGTCCTATCTCCCTAGACAGCAGT
131 CCTACCTCCCTGAACAGCAGTGGAATAGGTTGAAGATTGTAAGTCCTATCTCCCTAGACAGCAGT
*
28292297 GGAATAGGTTGAAGGTTGTAAGTCC
196 GGAATAGGTTGAAGATTGTAAGTCC
* * *
28292322 TATCTCCCTGGACAGTAGTGGAATAGGTTGAAGATTGTAGATCCTGTCTCCCTAAGCAGTAATGG
1 TATCTCCCTGGACAGTAGTGGAATAGGTTGAAGATTGTAGATCATGTCTCCCTAAACAATAATGG
* * * *
28292387 AGCAGATCAAAGATGGTGAATCTTATCTTCATAGGGTAGTAGGGAAGCAGATTTAAGCCACCAGT
66 AACAGATCAAAGACGGTGAATCTTATCTTCACAAGGTAGTAGGGAAGCAGATTTAAGCCACCAGT
* *
28292452 CCTATCTCCCTGAACAGCAGTGGAATAGGTTGAAGATTGTAAGTCCTATCTCCCTGGACAGCAGT
131 CCTACCTCCCTGAACAGCAGTGGAATAGGTTGAAGATTGTAAGTCCTATCTCCCTAGACAGCAGT
*
28292517 GGAATAGGTTGAAGATTGTACGTCC
196 GGAATAGGTTGAAGATTGTAAGTCC
*
28292542 TGTCTC
1 TATCTC
28292548 TTTAAGCAGT
Statistics
Matches: 206, Mismatches: 20, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
220 206 1.00
ACGTcount: A:0.28, C:0.19, G:0.26, T:0.27
Consensus pattern (220 bp):
TATCTCCCTGGACAGTAGTGGAATAGGTTGAAGATTGTAGATCATGTCTCCCTAAACAATAATGG
AACAGATCAAAGACGGTGAATCTTATCTTCACAAGGTAGTAGGGAAGCAGATTTAAGCCACCAGT
CCTACCTCCCTGAACAGCAGTGGAATAGGTTGAAGATTGTAAGTCCTATCTCCCTAGACAGCAGT
GGAATAGGTTGAAGATTGTAAGTCC
Found at i:28292458 original size:176 final size:177
Alignment explanation
Indices: 28292273--28292640 Score: 589
Period size: 176 Copynumber: 2.1 Consensus size: 177
28292263 GAAGATTGTA
*
28292273 AGTCCTATCTCCCTAG-ACAGCAGTGGAATAGGTTGAAGGTTGTAAGTCCTATCTCCCTGGACAG
1 AGTCCTATCTCCCTAGAACAGCAGTGGAATAGGTTGAAGATTGTAAGTCCTATCTCCCTGGACAG
* * *
28292337 TAGTGGAATAGGTTGAAGATTGTA-GATCCTGTCTCCCTAAGCAGTAATGGAGCAGATCAAAGAT
66 CAGTGGAATAGGTTGAAGATTGTACG-TCCTGTCTCCCTAAGCAGTAATGAAGCAGATCAAAGAC
* * *
28292401 GGTGAATCTTATCTTCATAGGGTAGTAGGGAAGCAGATTTAAGCCACC
130 GGTGAATCTTATCTACACAAGGTAGTAGGGAAGCAGATTTAAGCCACC
28292449 AGTCCTATCTCCCT-GAACAGCAGTGGAATAGGTTGAAGATTGTAAGTCCTATCTCCCTGGACAG
1 AGTCCTATCTCCCTAGAACAGCAGTGGAATAGGTTGAAGATTGTAAGTCCTATCTCCCTGGACAG
** *
28292513 CAGTGGAATAGGTTGAAGATTGTACGTCCTGTCTCTTTAAGCAGTAGTGAAGCAGATCAAAGACG
66 CAGTGGAATAGGTTGAAGATTGTACGTCCTGTCTCCCTAAGCAGTAATGAAGCAGATCAAAGACG
* *
28292578 GTGAATCTTATCTACCCAAGGTAGTAGGGAAGCAGATTTAAGCCGCC
131 GTGAATCTTATCTACACAAGGTAGTAGGGAAGCAGATTTAAGCCACC
*
28292625 AGCCCTATCTCCCTAG
1 AGTCCTATCTCCCTAG
28292641 TTGCAGTGGA
Statistics
Matches: 176, Mismatches: 13, Indels: 5
0.91 0.07 0.03
Matches are distributed among these distances:
175 1 0.01
176 173 0.98
177 2 0.01
ACGTcount: A:0.29, C:0.20, G:0.25, T:0.26
Consensus pattern (177 bp):
AGTCCTATCTCCCTAGAACAGCAGTGGAATAGGTTGAAGATTGTAAGTCCTATCTCCCTGGACAG
CAGTGGAATAGGTTGAAGATTGTACGTCCTGTCTCCCTAAGCAGTAATGAAGCAGATCAAAGACG
GTGAATCTTATCTACACAAGGTAGTAGGGAAGCAGATTTAAGCCACC
Found at i:28293585 original size:18 final size:19
Alignment explanation
Indices: 28293564--28293602 Score: 53
Period size: 18 Copynumber: 2.1 Consensus size: 19
28293554 TCTTTTTTAG
28293564 TTCTTTCTCTCTTTTC-GT
1 TTCTTTCTCTCTTTTCTGT
* *
28293582 TTCTTTTTTTCTTTTCTGT
1 TTCTTTCTCTCTTTTCTGT
28293601 TT
1 TT
28293603 TTATATTATT
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
18 14 0.78
19 4 0.22
ACGTcount: A:0.00, C:0.21, G:0.05, T:0.74
Consensus pattern (19 bp):
TTCTTTCTCTCTTTTCTGT
Found at i:28295983 original size:28 final size:28
Alignment explanation
Indices: 28295926--28296162 Score: 370
Period size: 28 Copynumber: 8.5 Consensus size: 28
28295916 TAAATTGTGC
*
28295926 AGCACTAAGTGTGCGA-ATTGACTATGT
1 AGCACTAAGTGTGCGAGTTTGACTATGT
28295953 AGCACTAAGTGTGCGAGTTTGACTATGT
1 AGCACTAAGTGTGCGAGTTTGACTATGT
*
28295981 AGCACTAAGTGTGCGAGTTTGATTATGT
1 AGCACTAAGTGTGCGAGTTTGACTATGT
*
28296009 AGCACTAAGTGTGCGAGTTTTACTATGT
1 AGCACTAAGTGTGCGAGTTTGACTATGT
*
28296037 AGCACTAAGTGTGCGAGTTTGATTATGT
1 AGCACTAAGTGTGCGAGTTTGACTATGT
28296065 AGCACTAAGTGTGCGAGTTTGACTATGT
1 AGCACTAAGTGTGCGAGTTTGACTATGT
*
28296093 AGCACTAAGTGTGCGAGTTTGATTATGT
1 AGCACTAAGTGTGCGAGTTTGACTATGT
* * * *
28296121 AGCACTAGGTGTGCGAG-CTGATTATAT
1 AGCACTAAGTGTGCGAGTTTGACTATGT
*
28296148 AGCACTGAGTGTGCG
1 AGCACTAAGTGTGCG
28296163 GACTTAATAT
Statistics
Matches: 196, Mismatches: 13, Indels: 2
0.93 0.06 0.01
Matches are distributed among these distances:
27 37 0.19
28 159 0.81
ACGTcount: A:0.25, C:0.14, G:0.29, T:0.32
Consensus pattern (28 bp):
AGCACTAAGTGTGCGAGTTTGACTATGT
Found at i:28302846 original size:40 final size:39
Alignment explanation
Indices: 28302794--28302924 Score: 181
Period size: 40 Copynumber: 3.3 Consensus size: 39
28302784 TAACTCATAC
* * *
28302794 AATGCCTTCGGGACTTAACCCAGATTTTAAAACTCGCACG
1 AATGCCTTCGGGACTTAACCCGGA-ATTAAAACTCGCACA
* *
28302834 AATGCCTTCGGGACTTAACCCGGAATTAGTATCTCGCACA
1 AATGCCTTCGGGACTTAACCCGGAATTA-AAACTCGCACA
*
28302874 AAGGCCTTCGGGACTTAACCCGGAATTAATAACTCGCACA
1 AATGCCTTCGGGACTTAACCCGGAATTAA-AACTCGCACA
28302914 AATGCCTTCGG
1 AATGCCTTCGG
28302925 ATCTTAGTCC
Statistics
Matches: 80, Mismatches: 9, Indels: 4
0.86 0.10 0.04
Matches are distributed among these distances:
39 3 0.04
40 77 0.96
ACGTcount: A:0.29, C:0.27, G:0.20, T:0.24
Consensus pattern (39 bp):
AATGCCTTCGGGACTTAACCCGGAATTAAAACTCGCACA
Found at i:28302856 original size:79 final size:80
Alignment explanation
Indices: 28302757--28302924 Score: 207
Period size: 80 Copynumber: 2.1 Consensus size: 80
28302747 CTCGTTCAAG
* * * * *
28302757 TGCCTTCGGGACATAGCCCGG-TTATAGTAACTCATAC-AATGCCTTCGGGACTTAACCCAGATT
1 TGCCTTCGGGACATAACCCGGAAT-TAGTAACTCACACAAAGGCCTTCGGGACTTAACCCAGA-A
*
28302820 TTAA-AACTCGCACGAA
64 TTAATAACTCGCACAAA
* * * *
28302836 TGCCTTCGGGACTTAACCCGGAATTAGTATCTCGCACAAAGGCCTTCGGGACTTAACCCGGAATT
1 TGCCTTCGGGACATAACCCGGAATTAGTAACTCACACAAAGGCCTTCGGGACTTAACCCAGAATT
28302901 AATAACTCGCACAAA
66 AATAACTCGCACAAA
28302916 TGCCTTCGG
1 TGCCTTCGG
28302925 ATCTTAGTCC
Statistics
Matches: 76, Mismatches: 10, Indels: 5
0.84 0.11 0.05
Matches are distributed among these distances:
79 33 0.43
80 43 0.57
ACGTcount: A:0.28, C:0.27, G:0.20, T:0.24
Consensus pattern (80 bp):
TGCCTTCGGGACATAACCCGGAATTAGTAACTCACACAAAGGCCTTCGGGACTTAACCCAGAATT
AATAACTCGCACAAA
Found at i:28302961 original size:80 final size:79
Alignment explanation
Indices: 28302792--28302977 Score: 209
Period size: 80 Copynumber: 2.3 Consensus size: 79
28302782 AGTAACTCAT
* * * * *
28302792 ACAATGCCTTCGGGACTTAACCCAGATTTTAAAACTCGCACGAATGCCTTCGGGACTTAACCCGG
1 ACAAAGCCTTCGGGACTTAACCCGGATATTAAAACTCGCACAAATGCCTTCGGGACTTAACCCAG
*
28302857 AATTAGTATCTCGC
66 AATTAGTATCTAGC
**
28302871 ACAAAGGCCTTCGGGACTTAACCCGGA-ATTAATAACTCGCACAAATGCCTTC-GGATCTTAGTC
1 ACAAA-GCCTTCGGGACTTAACCCGGATATTAA-AACTCGCACAAATGCCTTCGGGA-CTTAACC
28302934 CAG-ATATAGTCA-CTTAGC
63 CAGAAT-TAGT-ATC-TAGC
*
28302952 ACAAAGCCTTCGGGACTTAGCCCGGA
1 ACAAAGCCTTCGGGACTTAACCCGGA
28302978 CAGCATTCAA
Statistics
Matches: 92, Mismatches: 9, Indels: 11
0.82 0.08 0.10
Matches are distributed among these distances:
79 13 0.14
80 70 0.76
81 9 0.10
ACGTcount: A:0.29, C:0.27, G:0.20, T:0.24
Consensus pattern (79 bp):
ACAAAGCCTTCGGGACTTAACCCGGATATTAAAACTCGCACAAATGCCTTCGGGACTTAACCCAG
AATTAGTATCTAGC
Found at i:28310127 original size:39 final size:40
Alignment explanation
Indices: 28310084--28310251 Score: 148
Period size: 40 Copynumber: 4.2 Consensus size: 40
28310074 CTCGTTCAAG
* * * *
28310084 TGCCTTCGGGACATAGCCCGG-TTATAGTAACTCATAC-AA
1 TGCCTTCGGGACTTAACCCGGATTATA-AAACTCACACGAA
* *
28310123 TGCCTTCGGGACTTAACCCGGATTTTAAAACTCGCACGAA
1 TGCCTTCGGGACTTAACCCGGATTATAAAACTCACACGAA
* * *
28310163 TGCCTTCGGGACTTAACCCGGAATTAGT--ATCTCGCACAAA
1 TGCCTTCGGGACTTAACCCGG-ATTA-TAAAACTCACACGAA
* * * *
28310203 GGCCTTCGGGACTTAACCCGGAATTA-ATAACTCGCACAAA
1 TGCCTTCGGGACTTAACCCGG-ATTATAAAACTCACACGAA
28310243 TGCCTTCGG
1 TGCCTTCGG
28310252 ATCTTAGTCC
Statistics
Matches: 111, Mismatches: 12, Indels: 11
0.83 0.09 0.08
Matches are distributed among these distances:
39 26 0.23
40 81 0.73
41 3 0.03
42 1 0.01
ACGTcount: A:0.27, C:0.27, G:0.21, T:0.24
Consensus pattern (40 bp):
TGCCTTCGGGACTTAACCCGGATTATAAAACTCACACGAA
Found at i:28310235 original size:80 final size:80
Alignment explanation
Indices: 28310119--28310304 Score: 229
Period size: 80 Copynumber: 2.3 Consensus size: 80
28310109 AGTAACTCAT
* * *
28310119 ACAATGCCTTCGGGACTTAACCCGGATTTTAAAACTCGCACGAATGCCTTCGGGA-CTTAACCCG
1 ACAAAGCCTTCGGGACTTAACCCGGATATTAAAACTCGCACAAATGCCTTC-GGATCTTAACCCG
*
28310183 GA-ATTAGT-A-TCTCGC
65 GATA-TAGTCACT-TAGC
**
28310198 ACAAAGGCCTTCGGGACTTAACCCGGA-ATTAATAACTCGCACAAATGCCTTCGGATCTTAGTCC
1 ACAAA-GCCTTCGGGACTTAACCCGGATATTAA-AACTCGCACAAATGCCTTCGGATCTTAACCC
28310262 GGATATAGTCACTTAGC
64 GGATATAGTCACTTAGC
*
28310279 ACAAAGCCTTCGGGACTTAGCCCGGA
1 ACAAAGCCTTCGGGACTTAACCCGGA
28310305 CAGCATTCAA
Statistics
Matches: 94, Mismatches: 7, Indels: 11
0.84 0.06 0.10
Matches are distributed among these distances:
79 11 0.12
80 72 0.77
81 10 0.11
82 1 0.01
ACGTcount: A:0.28, C:0.27, G:0.21, T:0.24
Consensus pattern (80 bp):
ACAAAGCCTTCGGGACTTAACCCGGATATTAAAACTCGCACAAATGCCTTCGGATCTTAACCCGG
ATATAGTCACTTAGC
Found at i:28310264 original size:40 final size:40
Alignment explanation
Indices: 28310121--28310304 Score: 205
Period size: 40 Copynumber: 4.6 Consensus size: 40
28310111 TAACTCATAC
* *
28310121 AATGCCTTCGGGACTTAACCCGGATTTTAA-AACTCGCACG
1 AATGCCTTCGGGACTTAACCCGGA-ATTAATAACTCGCACA
* *
28310161 AATGCCTTCGGGACTTAACCCGGAATTAGTATCTCGCACA
1 AATGCCTTCGGGACTTAACCCGGAATTAATAACTCGCACA
*
28310201 AAGGCCTTCGGGACTTAACCCGGAATTAATAACTCGCACA
1 AATGCCTTCGGGACTTAACCCGGAATTAATAACTCGCACA
** * * *
28310241 AATGCCTTC-GGATCTTAGTCCGG-ATATAGTCACTTAGCACA
1 AATGCCTTCGGGA-CTTAACCCGGAAT-TAATAAC-TCGCACA
*
28310282 AA-GCCTTCGGGACTTAGCCCGGA
1 AATGCCTTCGGGACTTAACCCGGA
28310305 CAGCATTCAA
Statistics
Matches: 124, Mismatches: 14, Indels: 11
0.83 0.09 0.07
Matches are distributed among these distances:
39 8 0.06
40 105 0.85
41 11 0.09
ACGTcount: A:0.28, C:0.27, G:0.21, T:0.24
Consensus pattern (40 bp):
AATGCCTTCGGGACTTAACCCGGAATTAATAACTCGCACA
Found at i:28314687 original size:28 final size:28
Alignment explanation
Indices: 28314630--28314866 Score: 379
Period size: 28 Copynumber: 8.5 Consensus size: 28
28314620 TAAATTGTGC
*
28314630 AGCACTAAGTGTGCGA-ATTGACTATGT
1 AGCACTAAGTGTGCGAGTTTGACTATGT
28314657 AGCACTAAGTGTGCGAGTTTGACTATGT
1 AGCACTAAGTGTGCGAGTTTGACTATGT
*
28314685 AGCACTAAGTGTGCGAGTTTGATTATGT
1 AGCACTAAGTGTGCGAGTTTGACTATGT
28314713 AGCACTAAGTGTGCGAGTTTGACTATGT
1 AGCACTAAGTGTGCGAGTTTGACTATGT
*
28314741 AGCACTAAGTGTGCGAGTTTGATTATGT
1 AGCACTAAGTGTGCGAGTTTGACTATGT
28314769 AGCACTAAGTGTGCGAGTTTGACTATGT
1 AGCACTAAGTGTGCGAGTTTGACTATGT
*
28314797 AGCACTAAGTGTGCGAGTTTGATTATGT
1 AGCACTAAGTGTGCGAGTTTGACTATGT
* * * *
28314825 AGCACTAGGTGTGCGAG-CTGATTATAT
1 AGCACTAAGTGTGCGAGTTTGACTATGT
*
28314852 AGCACTGAGTGTGCG
1 AGCACTAAGTGTGCG
28314867 GACTTAATAT
Statistics
Matches: 198, Mismatches: 11, Indels: 2
0.94 0.05 0.01
Matches are distributed among these distances:
27 37 0.19
28 161 0.81
ACGTcount: A:0.25, C:0.14, G:0.29, T:0.32
Consensus pattern (28 bp):
AGCACTAAGTGTGCGAGTTTGACTATGT
Found at i:28323891 original size:20 final size:20
Alignment explanation
Indices: 28323868--28323923 Score: 76
Period size: 20 Copynumber: 2.8 Consensus size: 20
28323858 CAAATGCTCT
28323868 TTTAAATCAATTCATTATTA
1 TTTAAATCAATTCATTATTA
* **
28323888 TTTAAATCGATTGTTTATTA
1 TTTAAATCAATTCATTATTA
*
28323908 TTTGAATCAATTCATT
1 TTTAAATCAATTCATT
28323924 GTGGTTTAAA
Statistics
Matches: 29, Mismatches: 7, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
20 29 1.00
ACGTcount: A:0.34, C:0.09, G:0.05, T:0.52
Consensus pattern (20 bp):
TTTAAATCAATTCATTATTA
Found at i:28337021 original size:4 final size:4
Alignment explanation
Indices: 28337012--28337040 Score: 58
Period size: 4 Copynumber: 7.2 Consensus size: 4
28337002 TATCAAAAAG
28337012 TGTA TGTA TGTA TGTA TGTA TGTA TGTA T
1 TGTA TGTA TGTA TGTA TGTA TGTA TGTA T
28337041 ATTTTATTCA
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
4 25 1.00
ACGTcount: A:0.24, C:0.00, G:0.24, T:0.52
Consensus pattern (4 bp):
TGTA
Found at i:28339801 original size:29 final size:29
Alignment explanation
Indices: 28339743--28339802 Score: 102
Period size: 29 Copynumber: 2.1 Consensus size: 29
28339733 ATCTTTACTT
*
28339743 GATTGATATGAATATTATTATTAGTATAG
1 GATTGATATGAATATTATTATTAATATAG
*
28339772 GATTGATATGAATATTATTATTAATGTAG
1 GATTGATATGAATATTATTATTAATATAG
28339801 GA
1 GA
28339803 GCACGTAGAT
Statistics
Matches: 29, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
29 29 1.00
ACGTcount: A:0.38, C:0.00, G:0.18, T:0.43
Consensus pattern (29 bp):
GATTGATATGAATATTATTATTAATATAG
Found at i:28345635 original size:39 final size:39
Alignment explanation
Indices: 28345592--28345708 Score: 137
Period size: 39 Copynumber: 3.0 Consensus size: 39
28345582 GAGTCTCCTG
* * *
28345592 CTTCAACTTCACTGCTTAACAGTGCTAAACCGGACTCTA
1 CTTCAACTTCACTGGTTAACAATGCTAAACCAGACTCTA
* *
28345631 CTTCATA-TTCACTGGTTAACACTGCTAATCCAGACTCTA
1 CTTCA-ACTTCACTGGTTAACAATGCTAAACCAGACTCTA
* * * *
28345670 CTTCTACTTCACTGGTTATCAATGCTAAGCCAGAATCTA
1 CTTCAACTTCACTGGTTAACAATGCTAAACCAGACTCTA
28345709 AAGCTAGTCT
Statistics
Matches: 67, Mismatches: 9, Indels: 4
0.84 0.11 0.05
Matches are distributed among these distances:
38 1 0.01
39 65 0.97
40 1 0.01
ACGTcount: A:0.28, C:0.28, G:0.12, T:0.32
Consensus pattern (39 bp):
CTTCAACTTCACTGGTTAACAATGCTAAACCAGACTCTA
Found at i:28349041 original size:18 final size:18
Alignment explanation
Indices: 28349018--28349053 Score: 72
Period size: 18 Copynumber: 2.0 Consensus size: 18
28349008 TTATCTATAT
28349018 CTTCCTTTGAAGTTCTTA
1 CTTCCTTTGAAGTTCTTA
28349036 CTTCCTTTGAAGTTCTTA
1 CTTCCTTTGAAGTTCTTA
28349054 GTGCAGCAAA
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
18 18 1.00
ACGTcount: A:0.17, C:0.22, G:0.11, T:0.50
Consensus pattern (18 bp):
CTTCCTTTGAAGTTCTTA
Found at i:28350419 original size:22 final size:22
Alignment explanation
Indices: 28350393--28350437 Score: 72
Period size: 22 Copynumber: 2.0 Consensus size: 22
28350383 TTTTAATAAA
28350393 AAAATATCTACAAAATATTCCT
1 AAAATATCTACAAAATATTCCT
* *
28350415 AAAATATTTACAGAATATTCCT
1 AAAATATCTACAAAATATTCCT
28350437 A
1 A
28350438 CACTCCCCCT
Statistics
Matches: 21, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
22 21 1.00
ACGTcount: A:0.49, C:0.16, G:0.02, T:0.33
Consensus pattern (22 bp):
AAAATATCTACAAAATATTCCT
Found at i:28354196 original size:22 final size:22
Alignment explanation
Indices: 28354170--28354214 Score: 72
Period size: 22 Copynumber: 2.0 Consensus size: 22
28354160 TTTTAATAAA
28354170 AAAATATCTACAAAATATTCCT
1 AAAATATCTACAAAATATTCCT
* *
28354192 AAAATATTTACAGAATATTCCT
1 AAAATATCTACAAAATATTCCT
28354214 A
1 A
28354215 CACTTATAAG
Statistics
Matches: 21, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
22 21 1.00
ACGTcount: A:0.49, C:0.16, G:0.02, T:0.33
Consensus pattern (22 bp):
AAAATATCTACAAAATATTCCT
Found at i:28356899 original size:3 final size:3
Alignment explanation
Indices: 28356891--28356940 Score: 73
Period size: 3 Copynumber: 16.7 Consensus size: 3
28356881 TTGCACCGCG
* * *
28356891 ATA ATA ATA ATG ATA ATA ATG ATA ATA ATA ATA TTA ATA ATA ATA ATA
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA
28356939 AT
1 AT
28356941 TGTTTATTGC
Statistics
Matches: 41, Mismatches: 6, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
3 41 1.00
ACGTcount: A:0.60, C:0.00, G:0.04, T:0.36
Consensus pattern (3 bp):
ATA
Found at i:28363880 original size:17 final size:17
Alignment explanation
Indices: 28363858--28363893 Score: 72
Period size: 17 Copynumber: 2.1 Consensus size: 17
28363848 TCGATATTAA
28363858 TATTTCCAAGTGATGAG
1 TATTTCCAAGTGATGAG
28363875 TATTTCCAAGTGATGAG
1 TATTTCCAAGTGATGAG
28363892 TA
1 TA
28363894 GAACTGTCCA
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
17 19 1.00
ACGTcount: A:0.31, C:0.11, G:0.22, T:0.36
Consensus pattern (17 bp):
TATTTCCAAGTGATGAG
Found at i:28364328 original size:24 final size:24
Alignment explanation
Indices: 28364301--28364349 Score: 98
Period size: 24 Copynumber: 2.0 Consensus size: 24
28364291 TCTTATATTT
28364301 TAGAGCTTGAACAGGTATAAATTA
1 TAGAGCTTGAACAGGTATAAATTA
28364325 TAGAGCTTGAACAGGTATAAATTA
1 TAGAGCTTGAACAGGTATAAATTA
28364349 T
1 T
28364350 GTAAGTGTCA
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
24 25 1.00
ACGTcount: A:0.41, C:0.08, G:0.20, T:0.31
Consensus pattern (24 bp):
TAGAGCTTGAACAGGTATAAATTA
Found at i:28371116 original size:18 final size:18
Alignment explanation
Indices: 28371089--28371127 Score: 69
Period size: 18 Copynumber: 2.2 Consensus size: 18
28371079 AAAGCCATTC
*
28371089 ATTCATACATTTAGGTAA
1 ATTCACACATTTAGGTAA
28371107 ATTCACACATTTAGGTAA
1 ATTCACACATTTAGGTAA
28371125 ATT
1 ATT
28371128 GCATCTAGAT
Statistics
Matches: 20, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
18 20 1.00
ACGTcount: A:0.38, C:0.13, G:0.10, T:0.38
Consensus pattern (18 bp):
ATTCACACATTTAGGTAA
Found at i:28383762 original size:27 final size:27
Alignment explanation
Indices: 28383721--28383971 Score: 299
Period size: 27 Copynumber: 9.3 Consensus size: 27
28383711 GCAATGGGCC
** * *
28383721 TAAAATGACAAAAATACCCTCAAAAGG
1 TAAAATGACCGAAATACCCTCGAAGGG
28383748 TAAAATGACCGAAATACCCTCGAAGGG
1 TAAAATGACCGAAATACCCTCGAAGGG
* * *
28383775 TAAAATAATCGAAATACACTCGAAGGG
1 TAAAATGACCGAAATACCCTCGAAGGG
* * *
28383802 TAAAATGACTGAAATACCTTTGAAGGG
1 TAAAATGACCGAAATACCCTCGAAGGG
* *
28383829 TAAAATGATCGAAATACCCTCGAAAGG
1 TAAAATGACCGAAATACCCTCGAAGGG
* * *
28383856 TAAAATGATCGAAATA-TCTTGAAGGG
1 TAAAATGACCGAAATACCCTCGAAGGG
* *
28383882 TAAAATGACCGAAATACCTTTGAAGGG
1 TAAAATGACCGAAATACCCTCGAAGGG
* *
28383909 TAAAATGACCGAAATACCCCCGAAAGG
1 TAAAATGACCGAAATACCCTCGAAGGG
*
28383936 TAAGATGACCGAAATACTCC-CGAAGGG
1 TAAAATGACCGAAATAC-CCTCGAAGGG
28383963 TAAAATGAC
1 TAAAATGAC
28383972 TATTATACCC
Statistics
Matches: 191, Mismatches: 31, Indels: 4
0.85 0.14 0.02
Matches are distributed among these distances:
26 22 0.12
27 167 0.87
28 2 0.01
ACGTcount: A:0.44, C:0.17, G:0.20, T:0.19
Consensus pattern (27 bp):
TAAAATGACCGAAATACCCTCGAAGGG
Found at i:28383922 original size:80 final size:81
Alignment explanation
Indices: 28383746--28383971 Score: 355
Period size: 80 Copynumber: 2.8 Consensus size: 81
28383736 ACCCTCAAAA
* * *
28383746 GGTAAAATGACCGAAATACCCTCGAAGGGTAAAATAATCGAAATACACTCGAAGGGTAAAATGAC
1 GGTAAAATGACCGAAATACCCTCGAAAGGTAAAATGATCGAAATACTCTCGAAGGGTAAAATGAC
*
28383811 TGAAATACCTTTGAAG
66 CGAAATACCTTTGAAG
* *
28383827 GGTAAAATGATCGAAATACCCTCGAAAGGTAAAATGATCGAAATA-TCTTGAAGGGTAAAATGAC
1 GGTAAAATGACCGAAATACCCTCGAAAGGTAAAATGATCGAAATACTCTCGAAGGGTAAAATGAC
28383891 CGAAATACCTTTGAAG
66 CGAAATACCTTTGAAG
* * * *
28383907 GGTAAAATGACCGAAATACCCCCGAAAGGTAAGATGACCGAAATACTCCCGAAGGGTAAAATGAC
1 GGTAAAATGACCGAAATACCCTCGAAAGGTAAAATGATCGAAATACTCTCGAAGGGTAAAATGAC
28383972 TATTATACCC
Statistics
Matches: 132, Mismatches: 12, Indels: 2
0.90 0.08 0.01
Matches are distributed among these distances:
80 73 0.55
81 59 0.45
ACGTcount: A:0.42, C:0.17, G:0.22, T:0.19
Consensus pattern (81 bp):
GGTAAAATGACCGAAATACCCTCGAAAGGTAAAATGATCGAAATACTCTCGAAGGGTAAAATGAC
CGAAATACCTTTGAAG
Found at i:28386002 original size:27 final size:27
Alignment explanation
Indices: 28385960--28386052 Score: 84
Period size: 27 Copynumber: 3.5 Consensus size: 27
28385950 TATTGTCAAA
28385960 AAATATATAATT--ATTA-TAAAATAATT
1 AAAT-TATAATTAAATTATTAAAA-AATT
* *
28385986 AAATTATACTTAAATTATTAAAAATTT
1 AAATTATAATTAAATTATTAAAAAATT
* * *
28386013 TAATTTTAATTAAATTATTAAAAATTT
1 AAATTATAATTAAATTATTAAAAAATT
* *
28386040 TAATTTTAATTAA
1 AAATTATAATTAA
28386053 TTTTATAATA
Statistics
Matches: 59, Mismatches: 5, Indels: 5
0.86 0.07 0.07
Matches are distributed among these distances:
25 6 0.10
26 4 0.07
27 44 0.75
28 5 0.08
ACGTcount: A:0.52, C:0.01, G:0.00, T:0.47
Consensus pattern (27 bp):
AAATTATAATTAAATTATTAAAAAATT
Found at i:28386067 original size:22 final size:23
Alignment explanation
Indices: 28386042--28386084 Score: 70
Period size: 22 Copynumber: 1.9 Consensus size: 23
28386032 AAAAATTTTA
28386042 ATTTTAATTAATTTT-ATAATAT
1 ATTTTAATTAATTTTGATAATAT
*
28386064 ATTTTTATTAATTTTGATAAT
1 ATTTTAATTAATTTTGATAAT
28386085 TTTCGACAGA
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
22 14 0.74
23 5 0.26
ACGTcount: A:0.37, C:0.00, G:0.02, T:0.60
Consensus pattern (23 bp):
ATTTTAATTAATTTTGATAATAT
Found at i:28388593 original size:164 final size:164
Alignment explanation
Indices: 28388321--28388649 Score: 622
Period size: 164 Copynumber: 2.0 Consensus size: 164
28388311 GTGGACCAAG
28388321 AAAAGGATGGTGCTTGGAAAGCAAATAAGAGTGAGCTAGATGATGCAAATATTGTCTTGAAGAAG
1 AAAAGGATGGTGCTTGGAAAGCAAATAAGAGTGAGCTAGATGATGCAAATATTGTCTTGAAGAAG
*
28388386 TTTGGAGGCCAGAGTGAGAAGCTTAATGTAATTTTGCCTTCAAGGTGAACTAAACCAGACAATAG
66 TTTGGAGGCCAGAGTGAGAAGCTTAATGTAATTTTGCCTTCAAGGAGAACTAAACCAGACAATAG
28388451 AGGACCTGATTACATCAATAAAGGTAAGGAACCT
131 AGGACCTGATTACATCAATAAAGGTAAGGAACCT
28388485 AAAAGGATGGTGCTTGGAAAGCAAATAAGAGTGAGCTAGATGATGCAAATATTGTCTTGAAGAAG
1 AAAAGGATGGTGCTTGGAAAGCAAATAAGAGTGAGCTAGATGATGCAAATATTGTCTTGAAGAAG
* *
28388550 TTTGGAGGCCAGAGTGAGAAGCTTAATGTAATTTTGGCTTCAAGGAGAACTAAACCAGACTATAG
66 TTTGGAGGCCAGAGTGAGAAGCTTAATGTAATTTTGCCTTCAAGGAGAACTAAACCAGACAATAG
*
28388615 AGGACCTGATTACATCAATAAAGGTAATGAACCT
131 AGGACCTGATTACATCAATAAAGGTAAGGAACCT
28388649 A
1 A
28388650 TTGCTCCTAG
Statistics
Matches: 161, Mismatches: 4, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
164 161 1.00
ACGTcount: A:0.38, C:0.12, G:0.26, T:0.24
Consensus pattern (164 bp):
AAAAGGATGGTGCTTGGAAAGCAAATAAGAGTGAGCTAGATGATGCAAATATTGTCTTGAAGAAG
TTTGGAGGCCAGAGTGAGAAGCTTAATGTAATTTTGCCTTCAAGGAGAACTAAACCAGACAATAG
AGGACCTGATTACATCAATAAAGGTAAGGAACCT
Found at i:28396033 original size:22 final size:24
Alignment explanation
Indices: 28396008--28396051 Score: 56
Period size: 22 Copynumber: 1.9 Consensus size: 24
28395998 CATGTATATG
*
28396008 TGAACTTATAAT-GATG-TTTACT
1 TGAAATTATAATAGATGATTTACT
*
28396030 TGAAATTTTAATAGATGATTTA
1 TGAAATTATAATAGATGATTTA
28396052 GTATGTATAA
Statistics
Matches: 18, Mismatches: 2, Indels: 2
0.82 0.09 0.09
Matches are distributed among these distances:
22 10 0.56
23 4 0.22
24 4 0.22
ACGTcount: A:0.36, C:0.05, G:0.14, T:0.45
Consensus pattern (24 bp):
TGAAATTATAATAGATGATTTACT
Found at i:28396589 original size:23 final size:23
Alignment explanation
Indices: 28396563--28396608 Score: 56
Period size: 23 Copynumber: 2.0 Consensus size: 23
28396553 GTGTTACACG
* *
28396563 GCCTGGCACACGGGCGTGTGACA
1 GCCTAGCAAACGGGCGTGTGACA
**
28396586 GCCTAGCAAACGTTCGTGTGACA
1 GCCTAGCAAACGGGCGTGTGACA
28396609 CGGTCGTGTG
Statistics
Matches: 19, Mismatches: 4, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
23 19 1.00
ACGTcount: A:0.22, C:0.28, G:0.33, T:0.17
Consensus pattern (23 bp):
GCCTAGCAAACGGGCGTGTGACA
Found at i:28398760 original size:19 final size:20
Alignment explanation
Indices: 28398696--28398763 Score: 66
Period size: 20 Copynumber: 3.4 Consensus size: 20
28398686 AAAAATTAAG
* *
28398696 AATTTTAGGGTTTTTTTTGGGA
1 AATTTTATGATTTTTTTT--GA
* * *
28398718 AATTTTTTGCTTTTTTTTGT
1 AATTTTATGATTTTTTTTGA
28398738 AATTTTATGATTTTTTTT-A
1 AATTTTATGATTTTTTTTGA
28398757 AATTTTA
1 AATTTTA
28398764 AAGAAAATTT
Statistics
Matches: 39, Mismatches: 7, Indels: 3
0.80 0.14 0.06
Matches are distributed among these distances:
19 7 0.18
20 17 0.44
22 15 0.38
ACGTcount: A:0.21, C:0.01, G:0.13, T:0.65
Consensus pattern (20 bp):
AATTTTATGATTTTTTTTGA
Found at i:28403527 original size:25 final size:25
Alignment explanation
Indices: 28403490--28403542 Score: 88
Period size: 25 Copynumber: 2.1 Consensus size: 25
28403480 TAATGTATCA
*
28403490 TTTTTTATGGGGAGTAATAACTTAT
1 TTTTTTATAGGGAGTAATAACTTAT
*
28403515 TTTTTTATAGGGAGTAATAATTTAT
1 TTTTTTATAGGGAGTAATAACTTAT
28403540 TTT
1 TTT
28403543 GCCCTCCACT
Statistics
Matches: 26, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
25 26 1.00
ACGTcount: A:0.28, C:0.02, G:0.17, T:0.53
Consensus pattern (25 bp):
TTTTTTATAGGGAGTAATAACTTAT
Found at i:28414354 original size:24 final size:24
Alignment explanation
Indices: 28414327--28414373 Score: 67
Period size: 24 Copynumber: 2.0 Consensus size: 24
28414317 AAAGTCAAAT
* *
28414327 ATATTATGCTAATAAATGCTAAAC
1 ATATTATACTAATAAATACTAAAC
*
28414351 ATATTATACTCATAAATACTAAA
1 ATATTATACTAATAAATACTAAA
28414374 TCTTCTAGAA
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
24 20 1.00
ACGTcount: A:0.49, C:0.13, G:0.04, T:0.34
Consensus pattern (24 bp):
ATATTATACTAATAAATACTAAAC
Found at i:28418744 original size:24 final size:25
Alignment explanation
Indices: 28418717--28418772 Score: 71
Period size: 24 Copynumber: 2.3 Consensus size: 25
28418707 AAACCTAATT
* *
28418717 CTAATAAAATTC-AAATATATTATG
1 CTAATAAAATGCTAAATATATTATA
28418741 CTAAT-AAATGCTAAATATATTATA
1 CTAATAAAATGCTAAATATATTATA
*
28418765 CTCATAAA
1 CTAATAAA
28418773 TACTGAATCT
Statistics
Matches: 27, Mismatches: 3, Indels: 3
0.82 0.09 0.09
Matches are distributed among these distances:
23 5 0.19
24 20 0.74
25 2 0.07
ACGTcount: A:0.50, C:0.11, G:0.04, T:0.36
Consensus pattern (25 bp):
CTAATAAAATGCTAAATATATTATA
Found at i:28421346 original size:8 final size:8
Alignment explanation
Indices: 28421333--28421358 Score: 52
Period size: 8 Copynumber: 3.2 Consensus size: 8
28421323 GTATATTCGT
28421333 TTGTAAAA
1 TTGTAAAA
28421341 TTGTAAAA
1 TTGTAAAA
28421349 TTGTAAAA
1 TTGTAAAA
28421357 TT
1 TT
28421359 TTCAAACAGA
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
8 18 1.00
ACGTcount: A:0.46, C:0.00, G:0.12, T:0.42
Consensus pattern (8 bp):
TTGTAAAA
Found at i:28430413 original size:84 final size:84
Alignment explanation
Indices: 28430288--28430450 Score: 211
Period size: 84 Copynumber: 1.9 Consensus size: 84
28430278 TGAGTGAAAA
* * * * * * *
28430288 TTCCACATAAGATAGTCATTGGTGGACATTCCATCTCAGATATTCATTGGTGGATTTTCCACATA
1 TTCCACATAAGATAGTCATTGGCGGACATTCCATCTAAGATAGTCATTGGCGAACTTTCCACAAA
28430353 AGATAGTCCTTGGAGGAAT
66 AGATAGTCCTTGGAGGAAT
* * *
28430372 TTCCACATAAGATAGTCTTTGGCGGGCTTTCCA-CATAAGATAGTCATTGGCGAACTTTCCACAA
1 TTCCACATAAGATAGTCATTGGCGGACATTCCATC-TAAGATAGTCATTGGCGAACTTTCCACAA
*
28430436 AAGATATTCCTTGGA
65 AAGATAGTCCTTGGA
28430451 AGACTTCCCT
Statistics
Matches: 67, Mismatches: 11, Indels: 2
0.84 0.14 0.03
Matches are distributed among these distances:
83 1 0.01
84 66 0.99
ACGTcount: A:0.29, C:0.20, G:0.20, T:0.32
Consensus pattern (84 bp):
TTCCACATAAGATAGTCATTGGCGGACATTCCATCTAAGATAGTCATTGGCGAACTTTCCACAAA
AGATAGTCCTTGGAGGAAT
Found at i:28430456 original size:28 final size:28
Alignment explanation
Indices: 28430288--28430456 Score: 169
Period size: 28 Copynumber: 6.0 Consensus size: 28
28430278 TGAGTGAAAA
* *
28430288 TTCCACATAAGATAGTCATTGGTGGACA
1 TTCCACATAAGATAGTCATTGGAGGACT
* * * *
28430316 TTCCATC-TCAGATATTCATTGGTGGATT
1 TTCCA-CATAAGATAGTCATTGGAGGACT
* *
28430344 TTCCACATAAGATAGTCCTTGGAGGAAT
1 TTCCACATAAGATAGTCATTGGAGGACT
* * *
28430372 TTCCACATAAGATAGTCTTTGGCGGGCT
1 TTCCACATAAGATAGTCATTGGAGGACT
* *
28430400 TTCCACATAAGATAGTCATTGGCGAACT
1 TTCCACATAAGATAGTCATTGGAGGACT
* * * *
28430428 TTCCACAAAAGATATTCCTTGGAAGACT
1 TTCCACATAAGATAGTCATTGGAGGACT
28430456 T
1 T
28430457 CCCTTTTCTG
Statistics
Matches: 117, Mismatches: 22, Indels: 4
0.82 0.15 0.03
Matches are distributed among these distances:
27 1 0.01
28 115 0.98
29 1 0.01
ACGTcount: A:0.29, C:0.20, G:0.20, T:0.32
Consensus pattern (28 bp):
TTCCACATAAGATAGTCATTGGAGGACT
Found at i:28433293 original size:23 final size:23
Alignment explanation
Indices: 28433243--28433287 Score: 63
Period size: 23 Copynumber: 2.0 Consensus size: 23
28433233 GTAATGATTA
* *
28433243 GATTAAAATGGAATTTTTAATAT
1 GATTAAAATGAAATTTTAAATAT
*
28433266 GATTAAAATTAAATTTTAAATA
1 GATTAAAATGAAATTTTAAATA
28433288 GAATTATTAT
Statistics
Matches: 19, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
23 19 1.00
ACGTcount: A:0.49, C:0.00, G:0.09, T:0.42
Consensus pattern (23 bp):
GATTAAAATGAAATTTTAAATAT
Found at i:28433423 original size:13 final size:13
Alignment explanation
Indices: 28433407--28433431 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
28433397 ATTTGAGTTT
28433407 ATAATTCATATTA
1 ATAATTCATATTA
28433420 ATAATTCATATT
1 ATAATTCATATT
28433432 CGGGTTTGTT
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:0.44, C:0.08, G:0.00, T:0.48
Consensus pattern (13 bp):
ATAATTCATATTA
Found at i:28433543 original size:151 final size:154
Alignment explanation
Indices: 28433388--28433691 Score: 560
Period size: 151 Copynumber: 2.0 Consensus size: 154
28433378 ATAATTCTAG
28433388 TTTTTTTTAATTTGAGTTTATAATTCATATTAATAATTCATATTCGGGTTTGTTTGGTTTAAAAA
1 TTTTTTTTAATTTGAGTTTATAATTCATATTAATAATTCATATTCGGGTTTGTTTGGTTTAAAAA
28433453 ACAAATATCATTTTTATTTTCATTTTCTTGAAAAATGAAAAACACTAAGC-A-A-GTTGGTTAAA
66 ACAAATATCATTTTTATTTTCATTTTCTTGAAAAATGAAAAACACTAAGCAATATGTTGGTTAAA
28433515 AATTATAAAATGATTTTGAAAGTT
131 AATTATAAAATGATTTTGAAAGTT
*
28433539 TTTTTTTTAATTTGAGTTTATATTTCATATTAATAATTCATATTCGGGTTTGTTTGGTTTAAAAA
1 TTTTTTTTAATTTGAGTTTATAATTCATATTAATAATTCATATTCGGGTTTGTTTGGTTTAAAAA
28433604 ACAAATATCATTTTTATTTTCATTTTCTTGAAAAATGAAAAACACTAAGCAAAATATGTTGGTTA
66 ACAAATATCATTTTTATTTTCATTTTCTTGAAAAATGAAAAACACTAAGC--AATATGTTGGTTA
28433669 AAAATTATAAAATGATTTTGAAA
129 AAAATTATAAAATGATTTTGAAA
28433692 AATGAAAACA
Statistics
Matches: 147, Mismatches: 1, Indels: 5
0.96 0.01 0.03
Matches are distributed among these distances:
151 114 0.78
154 1 0.01
155 1 0.01
156 31 0.21
ACGTcount: A:0.38, C:0.07, G:0.11, T:0.45
Consensus pattern (154 bp):
TTTTTTTTAATTTGAGTTTATAATTCATATTAATAATTCATATTCGGGTTTGTTTGGTTTAAAAA
ACAAATATCATTTTTATTTTCATTTTCTTGAAAAATGAAAAACACTAAGCAATATGTTGGTTAAA
AATTATAAAATGATTTTGAAAGTT
Found at i:28433744 original size:151 final size:147
Alignment explanation
Indices: 28433412--28433728 Score: 352
Period size: 151 Copynumber: 2.1 Consensus size: 147
28433402 AGTTTATAAT
* **
28433412 TCATATTAATAATTCATATTCGGGTTTGTTTGGTTTAAAAAACAAATATCATTTTTATTTTCATT
1 TCATATAAATAAAACATATTC-GGTTTGTTTGGTTTAAAAAACAAATATCATTTTTATTTTCATT
**
28433477 TTCTTGAAAAATGAAAAACACTAAGCAAGTTGGTTAAAAATTATAAAATGATTTTGAAAGTTTTT
65 TTCTTGAAAAATGAAAAACACTAAGCAAGTTGGTTAAAAATTATAAAATGATTTTGAAA---TAA
**** * * * **
28433542 TTTTTAATTTGAGTTTATATT
127 TGAAAAATTTAAATTTAAAAA
* **
28433563 TCATATTAATAATTCATATTCGGGTTTGTTTGGTTTAAAAAACAAATATCATTTTTATTTTCATT
1 TCATATAAATAAAACATATTC-GGTTTGTTTGGTTTAAAAAACAAATATCATTTTTATTTTCATT
28433628 TTCTTGAAAAATGAAAAACACTAAGCAAAATATGTTGGTTAAAAATTATAAAATGATTTTGAAA-
65 TTCTTGAAAAATGAAAAACACTAAGC---A-A-GTTGGTTAAAAATTATAAAATGATTTTGAAAT
28433692 AATGAAAACATTTAAAATTTAAAAA
125 AATGAAAA-ATTT-AAATTTAAAAA
28433717 T-ATA-AAATAAAA
1 TCATATAAATAAAA
28433729 GTTGTTTTTA
Statistics
Matches: 145, Mismatches: 14, Indels: 13
0.84 0.08 0.08
Matches are distributed among these distances:
151 91 0.63
152 7 0.05
153 7 0.05
154 8 0.06
155 1 0.01
156 31 0.21
ACGTcount: A:0.42, C:0.07, G:0.10, T:0.41
Consensus pattern (147 bp):
TCATATAAATAAAACATATTCGGTTTGTTTGGTTTAAAAAACAAATATCATTTTTATTTTCATTT
TCTTGAAAAATGAAAAACACTAAGCAAGTTGGTTAAAAATTATAAAATGATTTTGAAATAATGAA
AAATTTAAATTTAAAAA
Found at i:28447817 original size:12 final size:12
Alignment explanation
Indices: 28447800--28447829 Score: 51
Period size: 12 Copynumber: 2.5 Consensus size: 12
28447790 ATTGGTACTT
*
28447800 TTGTTAGTTCAA
1 TTGTTAGTTAAA
28447812 TTGTTAGTTAAA
1 TTGTTAGTTAAA
28447824 TTGTTA
1 TTGTTA
28447830 AGTATATTTT
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
12 17 1.00
ACGTcount: A:0.27, C:0.03, G:0.17, T:0.53
Consensus pattern (12 bp):
TTGTTAGTTAAA
Found at i:28450265 original size:17 final size:18
Alignment explanation
Indices: 28450243--28450289 Score: 53
Period size: 17 Copynumber: 2.6 Consensus size: 18
28450233 TTTTATATGT
28450243 TTATAT-TATTAAAAAAA
1 TTATATATATTAAAAAAA
*
28450260 TTATATAT-TTTAAAAAA
1 TTATATATATTAAAAAAA
28450277 TCTAATATATATT
1 T-T-ATATATATT
28450290 TTATATTATC
Statistics
Matches: 25, Mismatches: 1, Indels: 5
0.81 0.03 0.16
Matches are distributed among these distances:
17 15 0.60
18 2 0.08
19 6 0.24
20 2 0.08
ACGTcount: A:0.51, C:0.02, G:0.00, T:0.47
Consensus pattern (18 bp):
TTATATATATTAAAAAAA
Found at i:28451987 original size:19 final size:18
Alignment explanation
Indices: 28451963--28452029 Score: 57
Period size: 18 Copynumber: 3.7 Consensus size: 18
28451953 TTATTTTTGA
* *
28451963 TTTATATATATATGTTGTT
1 TTTATATACATAT-TTATT
28451982 TTTATATACATATTTATT
1 TTTATATACATATTTATT
* *
28452000 TTTTTATA-AGTAATT-TT
1 TTTATATACA-TATTTATT
*
28452017 TTTATATTCATAT
1 TTTATATACATAT
28452030 ATATACACGT
Statistics
Matches: 39, Mismatches: 7, Indels: 6
0.75 0.13 0.12
Matches are distributed among these distances:
17 11 0.28
18 16 0.41
19 12 0.31
ACGTcount: A:0.30, C:0.03, G:0.04, T:0.63
Consensus pattern (18 bp):
TTTATATACATATTTATT
Found at i:28454721 original size:28 final size:27
Alignment explanation
Indices: 28454657--28454836 Score: 288
Period size: 28 Copynumber: 6.6 Consensus size: 27
28454647 TTATTAAGTC
* * *
28454657 CGCACACTCAGTGCTATATAATCAACT
1 CGCACACTTAGTGCTACATAGTCAACT
*
28454684 CGCACACTTAGTGCTACATAATCATACT
1 CGCACACTTAGTGCTACATAGTCA-ACT
28454712 CGCACACTTAGTGCTACATAGTCAACT
1 CGCACACTTAGTGCTACATAGTCAACT
28454739 CGCACACTTAGTGCTACATAGTCAAACT
1 CGCACACTTAGTGCTACATAGTC-AACT
28454767 CGCACACTTAGTGCTACATAGTCAAACT
1 CGCACACTTAGTGCTACATAGTC-AACT
*
28454795 CGCACACTTAGTGCTACATAGTCAATT
1 CGCACACTTAGTGCTACATAGTCAACT
28454822 CGCACACTTAGTGCT
1 CGCACACTTAGTGCT
28454837 GCACAATTTA
Statistics
Matches: 147, Mismatches: 4, Indels: 4
0.95 0.03 0.03
Matches are distributed among these distances:
27 66 0.45
28 81 0.55
ACGTcount: A:0.31, C:0.29, G:0.14, T:0.27
Consensus pattern (27 bp):
CGCACACTTAGTGCTACATAGTCAACT
Found at i:28454741 original size:55 final size:54
Alignment explanation
Indices: 28454657--28454836 Score: 288
Period size: 55 Copynumber: 3.3 Consensus size: 54
28454647 TTATTAAGTC
* * * *
28454657 CGCACACTCAGTGCTATATAATCAACTCGCACACTTAGTGCTACATAATCATACT
1 CGCACACTTAGTGCTACATAGTCAACTCGCACACTTAGTGCTACATAGTCA-ACT
28454712 CGCACACTTAGTGCTACATAGTCAACTCGCACACTTAGTGCTACATAGTCAAACT
1 CGCACACTTAGTGCTACATAGTCAACTCGCACACTTAGTGCTACATAGTC-AACT
*
28454767 CGCACACTTAGTGCTACATAGTCAAACTCGCACACTTAGTGCTACATAGTCAATT
1 CGCACACTTAGTGCTACATAGTC-AACTCGCACACTTAGTGCTACATAGTCAACT
28454822 CGCACACTTAGTGCT
1 CGCACACTTAGTGCT
28454837 GCACAATTTA
Statistics
Matches: 118, Mismatches: 5, Indels: 4
0.93 0.04 0.03
Matches are distributed among these distances:
55 90 0.76
56 28 0.24
ACGTcount: A:0.31, C:0.29, G:0.14, T:0.27
Consensus pattern (54 bp):
CGCACACTTAGTGCTACATAGTCAACTCGCACACTTAGTGCTACATAGTCAACT
Done.