Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Gbar_A12
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: 102106374
ACGTcount: A:0.32, C:0.17, G:0.17, T:0.32
Warning! 3186644 characters in sequence are not A, C, G, or T
File 117 of 311
Found at i:38979506 original size:96 final size:95
Alignment explanation
Indices: 38979329--38979904 Score: 926
Period size: 96 Copynumber: 6.0 Consensus size: 95
38979319 GAAATGATAG
* * *
38979329 TAAGGCCTAATGGCCGATTTGATGAATGTGAAAGTGTATATATATGTGATAAGGCCTAATGGCTG
1 TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTG--TATATACGTGATAAGGCCTAATGGCCG
38979394 ATGTGATGAATGTGAAAGTATATATATATGTGA
64 ATGTGATGAATGTGAAAGT-TATATATATGTGA
*
38979427 TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATACGTGATAGGGCCTAATGGCCGAT
1 TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATACGTGATAAGGCCTAATGGCCGAT
*
38979492 GTGATGAATGTGAAAG-TGTATATATGTGA
66 GTGATGAATGTGAAAGTTATATATATGTGA
38979521 TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATACGTGATAAGGCCTAATGGCCGAT
1 TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATACGTGATAAGGCCTAATGGCCGAT
38979586 GTGATGAATGTGAAAGTATATATATATGTGA
66 GTGATGAATGTGAAAGT-TATATATATGTGA
*
38979617 TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATACGTGATAGGGCCTAATGGCCGAT
1 TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATACGTGATAAGGCCTAATGGCCGAT
38979682 GTGATGAATGTGAAAGTGTATATATATGTGA
66 GTGATGAATGTGAAAGT-TATATATATGTGA
38979713 TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATACGTGATAAGGCCTAATGGCCGAT
1 TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATACGTGATAAGGCCTAATGGCCGAT
*
38979778 GTGATGAATGTGAAAG-TGTATATATGTGA
66 GTGATGAATGTGAAAGTTATATATATGTGA
* * * * * * * *
38979807 TAAGGCCTAATGGCCGATGTGATGAATGTGGAAGTGTATATATGTGACAGGGCCGAGTGGCCAAC
1 TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATACGTGATAAGGCCTAATGGCCGAT
*
38979872 GTGATGGATGTGAAAGTGTATA-A-ATGTGA
66 GTGATGAATGTGAAAGT-TATATATATGTGA
38979901 TAAG
1 TAAG
38979905 TCCCGAAGGG
Statistics
Matches: 453, Mismatches: 21, Indels: 12
0.93 0.04 0.02
Matches are distributed among these distances:
94 186 0.41
95 1 0.00
96 231 0.51
98 35 0.08
ACGTcount: A:0.32, C:0.09, G:0.30, T:0.29
Consensus pattern (95 bp):
TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATACGTGATAAGGCCTAATGGCCGAT
GTGATGAATGTGAAAGTTATATATATGTGA
Found at i:38979610 original size:143 final size:141
Alignment explanation
Indices: 38979329--38979904 Score: 891
Period size: 143 Copynumber: 4.0 Consensus size: 141
38979319 GAAATGATAG
* *
38979329 TAAGGCCTAATGGCCGATTTGATGAATGTGAAAGTGTATATATATGTGATAAGGCCTAATGGCTG
1 TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTG--TATATATGTGATAAGGCCTAATGGCCG
*
38979394 ATGTGATGAATGTGAAAGTATATATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAA
64 ATGTGATGAATGTGAAAG--TGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAA
*
38979459 AGTGTATATACGTGA
127 AGTATATATACGTGA
*
38979474 TAGGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGAT
1 TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGAT
*
38979539 GTGATGAATGTGAAAGTGTATATACGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTA
66 GTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAG--
*
38979604 TATATATATGTGA
129 TATATATACGTGA
* *
38979617 TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATACGTGATAGGGCCTAATGGCCGAT
1 TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGAT
38979682 GTGATGAATGTGAAAGTGTATATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAG
66 GTGATGAATGTGAAAGTG--TATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAG
*
38979747 TGTATATACGTGA
129 TATATATACGTGA
38979760 TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGAT
1 TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGAT
* * * * * * * * *
38979825 GTGATGAATGTGGAAGTGTATATATGTGACAGGGCCGAGTGGCCAACGTGATGGATGTGAAAGTG
66 GTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTA
* *
38979890 TATAAATGTGA
131 TATATACGTGA
38979901 TAAG
1 TAAG
38979905 TCCCGAAGGG
Statistics
Matches: 402, Mismatches: 25, Indels: 12
0.92 0.06 0.03
Matches are distributed among these distances:
141 98 0.24
143 226 0.56
145 78 0.19
ACGTcount: A:0.32, C:0.09, G:0.30, T:0.29
Consensus pattern (141 bp):
TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGAT
GTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTA
TATATACGTGA
Found at i:38980078 original size:36 final size:37
Alignment explanation
Indices: 38980023--38980100 Score: 122
Period size: 36 Copynumber: 2.1 Consensus size: 37
38980013 CCGAGCTCTA
* *
38980023 AAGACCCGATGACTACGTGTGG-GATTTTGTCCGGGT
1 AAGACCCGATAACTACGTGTGGAGATTATGTCCGGGT
*
38980059 AAGACCCGATAACTTCGTGTGGAGATTATGTCCGGGT
1 AAGACCCGATAACTACGTGTGGAGATTATGTCCGGGT
38980096 AAGAC
1 AAGAC
38980101 TTCGTAATAA
Statistics
Matches: 38, Mismatches: 3, Indels: 1
0.90 0.07 0.02
Matches are distributed among these distances:
36 20 0.53
37 18 0.47
ACGTcount: A:0.24, C:0.19, G:0.31, T:0.26
Consensus pattern (37 bp):
AAGACCCGATAACTACGTGTGGAGATTATGTCCGGGT
Found at i:38982007 original size:43 final size:43
Alignment explanation
Indices: 38981959--38982104 Score: 292
Period size: 43 Copynumber: 3.4 Consensus size: 43
38981949 TTGGTTTTCA
38981959 GCACTAAGTGTGCGGGCAATAAGTGTTCACGGTTGTGAGATTG
1 GCACTAAGTGTGCGGGCAATAAGTGTTCACGGTTGTGAGATTG
38982002 GCACTAAGTGTGCGGGCAATAAGTGTTCACGGTTGTGAGATTG
1 GCACTAAGTGTGCGGGCAATAAGTGTTCACGGTTGTGAGATTG
38982045 GCACTAAGTGTGCGGGCAATAAGTGTTCACGGTTGTGAGATTG
1 GCACTAAGTGTGCGGGCAATAAGTGTTCACGGTTGTGAGATTG
38982088 GCACTAAGTGTGCGGGC
1 GCACTAAGTGTGCGGGC
38982105 TTGAAATGCA
Statistics
Matches: 103, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
43 103 1.00
ACGTcount: A:0.23, C:0.15, G:0.36, T:0.27
Consensus pattern (43 bp):
GCACTAAGTGTGCGGGCAATAAGTGTTCACGGTTGTGAGATTG
Found at i:38982121 original size:29 final size:29
Alignment explanation
Indices: 38982086--38982159 Score: 105
Period size: 29 Copynumber: 2.6 Consensus size: 29
38982076 GTTGTGAGAT
* *
38982086 TGGCACTAAGTGTGCGGGCTTGAAA-TGCA
1 TGGCACTAAGTGTGCGAG-TTGAAAGTACA
*
38982115 TGGCACTAAGTGTGCGAGTTTAAAGTACA
1 TGGCACTAAGTGTGCGAGTTGAAAGTACA
38982144 TGGCACTAAGTGTGCG
1 TGGCACTAAGTGTGCG
38982160 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:38982520 original size:40 final size:40
Alignment explanation
Indices: 38982475--38982592 Score: 193
Period size: 40 Copynumber: 3.0 Consensus size: 40
38982465 ATGATGTCCG
*
38982475 GGCTAAGTCCCGAAGAGCATTCATGCTAGTGATGTATCCA
1 GGCTAAGTCCCGAAGAGCATTCGTGCTAGTGATGTATCCA
*
38982515 GGCTAAGTCCCGAAGAGCATTCGTGCTAGTGATGTATCCG
1 GGCTAAGTCCCGAAGAGCATTCGTGCTAGTGATGTATCCA
* *
38982555 GGCTAAGTTCCGAAGAGCATTCGTGCTAGT-ATATATCC
1 GGCTAAGTCCCGAAGAGCATTCGTGCTAGTGATGTATCC
38982593 GTGCTAAACC
Statistics
Matches: 74, Mismatches: 4, Indels: 1
0.94 0.05 0.01
Matches are distributed among these distances:
39 7 0.09
40 67 0.91
ACGTcount: A:0.25, C:0.22, G:0.26, T:0.26
Consensus pattern (40 bp):
GGCTAAGTCCCGAAGAGCATTCGTGCTAGTGATGTATCCA
Found at i:38986180 original size:48 final size:47
Alignment explanation
Indices: 38986076--38986605 Score: 796
Period size: 47 Copynumber: 11.1 Consensus size: 47
38986066 GAAATGATAG
*
38986076 TAAGGCCTAATGGCCGATGTGATAAATGTGAAAGTGTATATATATGTGA
1 TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTG--TATATATGTGA
*
38986125 TAAGGCCTAATGGCCGATGTGAATGAATGTGAAAGTATATATATGTGA
1 TAAGGCCTAATGGCCGATGTG-ATGAATGTGAAAGTGTATATATGTGA
38986173 TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGA
1 TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGA
38986220 TAAGGCCTAATGGCCGATGTGATG-ATGTGAAAGTGTATATATGTGA
1 TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGA
*
38986266 TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTATATATATAGTGA
1 TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATAT-GTGA
*
38986314 TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTAGTATACGTGA
1 TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTA-TATATGTGA
38986362 T-AGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATATGTGA
1 TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTG--TATATATGTGA
* *
38986410 TAAGGCCTAATGGCCGATGTGATGAATATGAAAAGTGTATATACGTGA
1 TAAGGCCTAATGGCCGATGTGATGAATGTG-AAAGTGTATATATGTGA
38986458 TAAGGCCTAATGG-CGATGTGATGAATGTGAAAGTGTATATATGTGA
1 TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGA
*
38986504 TAAGGGCCTAATGGCCGATGTGATGAATGTGGAAGTGTGTAATATATGTGA
1 TAA-GGCCTAATGGCCGATGTGATGAATGT-GAA-AGTGT-ATATATGTGA
* * * * * * * *
38986555 CAGGGCCGAGTGGCCAACGTGATGGATGTGAAAGTGTATAAATGTGA
1 TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGA
38986602 TAAG
1 TAAG
38986606 TCCCGAAGGG
Statistics
Matches: 445, Mismatches: 23, Indels: 28
0.90 0.05 0.06
Matches are distributed among these distances:
46 65 0.15
47 136 0.31
48 129 0.29
49 60 0.13
50 44 0.10
51 11 0.02
ACGTcount: A:0.33, C:0.09, G:0.30, T:0.29
Consensus pattern (47 bp):
TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGA
Found at i:38986308 original size:144 final size:142
Alignment explanation
Indices: 38986076--38986605 Score: 768
Period size: 144 Copynumber: 3.7 Consensus size: 142
38986066 GAAATGATAG
*
38986076 TAAGGCCTAATGGCCGATGTGATAAATGTGAAAGTGTATATATATGTGATAAGGCCTAATGGCCG
1 TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTG-ATATATATGTGATAAGGCCTAATGGCCG
38986141 ATGTGAATGAATGTGAAAG-TATATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAA
65 ATGTG-ATGAATGTGAAAGATATATATA-GTGATAAGGCCTAATGGCCGATGTGATGAATGTGAA
38986205 AGTGTATATATGTGA
128 AGTGTATATATGTGA
38986220 TAAGGCCTAATGGCCGATGTGATG-ATGTGAAAGTG-TATATATGTGATAAGGCCTAATGGCCGA
1 TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGATATATATGTGATAAGGCCTAATGGCCGA
38986283 TGTGATGAATGTGAAAGTATATATATAGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAG
66 TGTGATGAATGTGAAAG-ATATATATAGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAG
*
38986348 TGTAGTATACGTGA
130 TGTA-TATATGTGA
38986362 T-AGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATATGTGATAAGGCCTAATGGCCG
1 TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTG-ATATATATGTGATAAGGCCTAATGGCCG
* *
38986426 ATGTGATGAATATGAAA-AGTGTATATACGTGATAAGGCCTAATGG-CGATGTGATGAATGTGAA
65 ATGTGATGAATGTGAAAGA-TATATATA-GTGATAAGGCCTAATGGCCGATGTGATGAATGTGAA
38986489 AGTGTATATATGTGA
128 AGTGTATATATGTGA
* * * * * *
38986504 TAAGGGCCTAATGGCCGATGTGATGAATGTGGAAGTGTGTAATATATGTGACAGGGCCGAGTGGC
1 TAA-GGCCTAATGGCCGATGTGATGAATGTGAAAGTG-AT-ATATATGTGATAAGGCCTAATGGC
* * * * *
38986569 CAACGTGATGGATGTGAAAG-TGTATAAATGTGATAAG
63 CGATGTGATGAATGTGAAAGATATATATA-GTGATAAG
38986606 TCCCGAAGGG
Statistics
Matches: 357, Mismatches: 17, Indels: 24
0.90 0.04 0.06
Matches are distributed among these distances:
140 13 0.04
141 96 0.27
142 38 0.11
143 43 0.12
144 132 0.37
145 35 0.10
ACGTcount: A:0.33, C:0.09, G:0.30, T:0.29
Consensus pattern (142 bp):
TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGATATATATGTGATAAGGCCTAATGGCCGA
TGTGATGAATGTGAAAGATATATATAGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGT
GTATATATGTGA
Found at i:38986790 original size:37 final size:38
Alignment explanation
Indices: 38986719--38986797 Score: 108
Period size: 38 Copynumber: 2.1 Consensus size: 38
38986709 CCAAGCTCTA
* * *
38986719 AAGA-CCGATGACTACGTGTGGGGATTTTGTTCCGGGT
1 AAGACCCGATAACTACGTGTGGAGATTATGTTCCGGGT
*
38986756 AAGACCCGATAACTTCGTGTGGAGATTATG-TCCGGGT
1 AAGACCCGATAACTACGTGTGGAGATTATGTTCCGGGT
38986793 AAGAC
1 AAGAC
38986798 TTCGTAAAAG
Statistics
Matches: 37, Mismatches: 4, Indels: 2
0.86 0.09 0.05
Matches are distributed among these distances:
37 16 0.43
38 21 0.57
ACGTcount: A:0.24, C:0.18, G:0.32, T:0.27
Consensus pattern (38 bp):
AAGACCCGATAACTACGTGTGGAGATTATGTTCCGGGT
Found at i:38988208 original size:43 final size:43
Alignment explanation
Indices: 38988160--38988305 Score: 292
Period size: 43 Copynumber: 3.4 Consensus size: 43
38988150 TTGGTTTTCA
38988160 GCACTAAGTGTGCGGGCAATAAGTGTTCACGGTTGTGAGATTG
1 GCACTAAGTGTGCGGGCAATAAGTGTTCACGGTTGTGAGATTG
38988203 GCACTAAGTGTGCGGGCAATAAGTGTTCACGGTTGTGAGATTG
1 GCACTAAGTGTGCGGGCAATAAGTGTTCACGGTTGTGAGATTG
38988246 GCACTAAGTGTGCGGGCAATAAGTGTTCACGGTTGTGAGATTG
1 GCACTAAGTGTGCGGGCAATAAGTGTTCACGGTTGTGAGATTG
38988289 GCACTAAGTGTGCGGGC
1 GCACTAAGTGTGCGGGC
38988306 TTGAAATGCA
Statistics
Matches: 103, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
43 103 1.00
ACGTcount: A:0.23, C:0.15, G:0.36, T:0.27
Consensus pattern (43 bp):
GCACTAAGTGTGCGGGCAATAAGTGTTCACGGTTGTGAGATTG
Found at i:38988322 original size:29 final size:29
Alignment explanation
Indices: 38988287--38988360 Score: 105
Period size: 29 Copynumber: 2.6 Consensus size: 29
38988277 GTTGTGAGAT
* *
38988287 TGGCACTAAGTGTGCGGGCTTGAAA-TGCA
1 TGGCACTAAGTGTGCGAG-TTGAAAGTACA
*
38988316 TGGCACTAAGTGTGCGAGTTTAAAGTACA
1 TGGCACTAAGTGTGCGAGTTGAAAGTACA
38988345 TGGCACTAAGTGTGCG
1 TGGCACTAAGTGTGCG
38988361 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:38988796 original size:40 final size:40
Alignment explanation
Indices: 38988673--38988802 Score: 206
Period size: 40 Copynumber: 3.2 Consensus size: 40
38988663 TCGAATGATG
*
38988673 TCCGGGCTAAGTCCCGAAGAGCATTCATGCTAGTGATGTA
1 TCCGGGCTAAGTCCCGAAGAGCATTCGTGCTAGTGATGTA
*
38988713 TCCAGGCTAAGTCCCGAAGAGCATTCGTGCTAGTGATGTA
1 TCCGGGCTAAGTCCCGAAGAGCATTCGTGCTAGTGATGTA
* * *
38988753 TCCGGGCTAAGTTCCGAAGAGCATTCGTGCTAGTAATATA
1 TCCGGGCTAAGTCCCGAAGAGCATTCGTGCTAGTGATGTA
*
38988793 TCCGTGCTAA
1 TCCGGGCTAA
38988803 ACCTCGAAGA
Statistics
Matches: 83, Mismatches: 7, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
40 83 1.00
ACGTcount: A:0.25, C:0.22, G:0.26, T:0.26
Consensus pattern (40 bp):
TCCGGGCTAAGTCCCGAAGAGCATTCGTGCTAGTGATGTA
Found at i:38992395 original size:47 final size:47
Alignment explanation
Indices: 38992291--38992814 Score: 838
Period size: 47 Copynumber: 11.1 Consensus size: 47
38992281 GAAATGATAG
*
38992291 TAAGGCCTAATGGCCGATGTGATAAATGTGAAAGTGTATATATATGTGA
1 TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTG--TATATATGTGA
*
38992340 TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTATATATATGTGA
1 TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGA
*
38992387 TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATACGTGA
1 TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGA
38992434 T-AGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGA
1 TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGA
*
38992480 TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTATATATATATGTGA
1 TAAGGCCTAATGGCCGATGTGATGAATGTGAAAG--TGTATATATGTGA
*
38992529 TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATACGTGA
1 TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGA
38992576 T-AGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGA
1 TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGA
* *
38992622 TAAGGCCTAATGGCCGATGTGATGAATATGAAAGTGTATATACGTGA
1 TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGA
38992669 TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGA
1 TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGA
38992716 TAAGGCCTAATGGCCGATGTGATGAATGTG-AAGTGTATATATATGTGA
1 TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTG--TATATATGTGA
* * * * * * * *
38992764 CAGGGCCGAGTGGCCAACGTGATGGATGTGAAAGTGTATAAATGTGA
1 TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGA
38992811 TAAG
1 TAAG
38992815 TCCCGAAGGG
Statistics
Matches: 445, Mismatches: 23, Indels: 16
0.92 0.05 0.03
Matches are distributed among these distances:
46 95 0.21
47 231 0.52
48 34 0.08
49 85 0.19
ACGTcount: A:0.32, C:0.09, G:0.29, T:0.29
Consensus pattern (47 bp):
TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGA
Found at i:38992549 original size:142 final size:141
Alignment explanation
Indices: 38992293--38992814 Score: 852
Period size: 142 Copynumber: 3.7 Consensus size: 141
38992283 AATGATAGTA
*
38992293 AGGCCTAATGGCCGATGTGATAAATGTGAAAGTGTATATATATGTGATAAGGCCTAATGGCCGAT
1 AGGCCTAATGGCCGATGTGATGAATGTGAAAGTG-ATATATATGTGATAAGGCCTAATGGCCGAT
38992358 GTGATGAATGTGAAAGTATATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTG
65 GTGATGAATGTGAAAGTATATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTG
38992423 TATATACGTGAT
130 TATATACGTGAT
38992435 AGGCCTAATGGCCGATGTGATGAATGTGAAAGTG-TATATATGTGATAAGGCCTAATGGCCGATG
1 AGGCCTAATGGCCGATGTGATGAATGTGAAAGTGATATATATGTGATAAGGCCTAATGGCCGATG
38992499 TGATGAATGTGAAAGTATATATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGT
66 TGATGAATGTGAAAG--TATATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGT
38992564 GTATATACGTGAT
129 GTATATACGTGAT
38992577 AGGCCTAATGGCCGATGTGATGAATGTGAAAGTG-TATATATGTGATAAGGCCTAATGGCCGATG
1 AGGCCTAATGGCCGATGTGATGAATGTGAAAGTGATATATATGTGATAAGGCCTAATGGCCGATG
* * *
38992641 TGATGAATATGAAAGTGTATATACGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGT
66 TGATGAATGTGAAAGTATATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGT
*
38992706 ATATATGTGAT
131 ATATACGTGAT
* * * * *
38992717 AAGGCCTAATGGCCGATGTGATGAATGTG-AAGTGTATATATATGTGACAGGGCCGAGTGGCCAA
1 -AGGCCTAATGGCCGATGTGATGAATGTGAAAGTG-ATATATATGTGATAAGGCCTAATGGCCGA
* * * *
38992781 CGTGATGGATGTGAAAGTGTATAAATGTGATAAG
64 TGTGATGAATGTGAAAGTATATATATGTGATAAG
38992815 TCCCGAAGGG
Statistics
Matches: 360, Mismatches: 15, Indels: 10
0.94 0.04 0.03
Matches are distributed among these distances:
140 108 0.30
141 28 0.08
142 224 0.62
ACGTcount: A:0.32, C:0.09, G:0.30, T:0.29
Consensus pattern (141 bp):
AGGCCTAATGGCCGATGTGATGAATGTGAAAGTGATATATATGTGATAAGGCCTAATGGCCGATG
TGATGAATGTGAAAGTATATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGT
ATATACGTGAT
Found at i:38992630 original size:189 final size:188
Alignment explanation
Indices: 38992291--38992814 Score: 847
Period size: 189 Copynumber: 2.8 Consensus size: 188
38992281 GAAATGATAG
*
38992291 TAAGGCCTAATGGCCGATGTGATAAATGTGAAAGTGTATATATATGTGATAAGGCCTAATGGCCG
1 TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGT-TATATATATGTGATAAGGCCTAATGGCCG
*
38992356 ATGTGATGAATGTGAAAGTATATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAG
65 ATGTGATGAATGTGAAAGTGTATATATGTGAT-AGGCCTAATGGCCGATGTGATGAATGTGAAAG
* * *
38992421 TGTATATACGTGAT-AGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGA
129 TGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATATGAAAGTGTATATACGTGA
38992480 TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTATATATATATGTGATAAGGCCTAATGGCCG
1 TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGT-TATATATATGTGATAAGGCCTAATGGCCG
*
38992545 ATGTGATGAATGTGAAAGTGTATATACGTGATAGGCCTAATGGCCGATGTGATGAATGTGAAAGT
65 ATGTGATGAATGTGAAAGTGTATATATGTGATAGGCCTAATGGCCGATGTGATGAATGTGAAAGT
38992610 GTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATATGAAAGTGTATATACGTGA
130 GTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATATGAAAGTGTATATACGTGA
*
38992669 TAAGGCCTAATGGCCGATGTGATGAATGTGAAAG-TGTATATATGTGATAAGGCCTAATGGCCGA
1 TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTTATATATATGTGATAAGGCCTAATGGCCGA
* * * * * *
38992733 TGTGATGAATGTG-AAGTGTATATATATGTGACAGGGCCGAGTGGCCAACGTGATGGATGTGAAA
66 TGTGATGAATGTGAAAGTG--TATATATGTGATA-GGCCTAATGGCCGATGTGATGAATGTGAAA
*
38992797 GTGTATAAATGTGATAAG
128 GTGTATATATGTGATAAG
38992815 TCCCGAAGGG
Statistics
Matches: 315, Mismatches: 16, Indels: 8
0.93 0.05 0.02
Matches are distributed among these distances:
186 5 0.02
187 42 0.13
188 56 0.18
189 212 0.67
ACGTcount: A:0.32, C:0.09, G:0.29, T:0.29
Consensus pattern (188 bp):
TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTTATATATATGTGATAAGGCCTAATGGCCGA
TGTGATGAATGTGAAAGTGTATATATGTGATAGGCCTAATGGCCGATGTGATGAATGTGAAAGTG
TATATATGTGATAAGGCCTAATGGCCGATGTGATGAATATGAAAGTGTATATACGTGA
Found at i:38992989 original size:37 final size:37
Alignment explanation
Indices: 38992933--38993011 Score: 122
Period size: 37 Copynumber: 2.1 Consensus size: 37
38992923 CCAAGCTCTA
* * *
38992933 AAGACCCGATGACTACGTGTGGGGATTTTGTCCGGGT
1 AAGACCCGATAACTACGTGTGGAGATTATGTCCGGGT
*
38992970 AAGACCCGATAACTTCGTGTGGAGATTATGTCCGGGT
1 AAGACCCGATAACTACGTGTGGAGATTATGTCCGGGT
38993007 AAGAC
1 AAGAC
38993012 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:39003874 original size:13 final size:13
Alignment explanation
Indices: 39003856--39003881 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
39003846 CTAAGGATTT
39003856 AAAAAATGAATTC
1 AAAAAATGAATTC
39003869 AAAAAATGAATTC
1 AAAAAATGAATTC
39003882 GATGAGAGTG
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.62, C:0.08, G:0.08, T:0.23
Consensus pattern (13 bp):
AAAAAATGAATTC
Found at i:39008168 original size:30 final size:30
Alignment explanation
Indices: 39008110--39008168 Score: 73
Period size: 30 Copynumber: 2.0 Consensus size: 30
39008100 ATTTTCGGGC
* * **
39008110 CTAGGGTTAAATTGGTCATTTTGTCAAAGT
1 CTAGGGGTAAAATGGTCATTTTACCAAAGT
*
39008140 CTAGGGGTAAAATGTTCATTTTACCAAAG
1 CTAGGGGTAAAATGGTCATTTTACCAAAG
39008169 ATATGAATTT
Statistics
Matches: 24, Mismatches: 5, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
30 24 1.00
ACGTcount: A:0.31, C:0.12, G:0.22, T:0.36
Consensus pattern (30 bp):
CTAGGGGTAAAATGGTCATTTTACCAAAGT
Found at i:39011605 original size:95 final size:95
Alignment explanation
Indices: 39011448--39011637 Score: 362
Period size: 95 Copynumber: 2.0 Consensus size: 95
39011438 GAAGTCTATC
*
39011448 ACAAAACTCTAAAGCATATCTTCCCGAATCTGAATGACTCACTCAGATTGTCCGTCGGTCTGAGG
1 ACAAAACTCTAAAGCATATCTTCCCGAATCTGAATGACTCACTCAGATTGTCCGTCGATCTGAGG
39011513 GTGATACGCAGTACTAAAATTAAGTCAGGT
66 GTGATACGCAGTACTAAAATTAAGTCAGGT
39011543 ACAAAACTCTAAAGCATATCTTCCCGAATCTGAATGACTCACTCAGATTGTCCGTCGATCTGAGG
1 ACAAAACTCTAAAGCATATCTTCCCGAATCTGAATGACTCACTCAGATTGTCCGTCGATCTGAGG
*
39011608 GTGATACGTAGTACTAAAATTAAGTCAGGT
66 GTGATACGCAGTACTAAAATTAAGTCAGGT
39011638 GTCTAAGGCC
Statistics
Matches: 93, Mismatches: 2, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
95 93 1.00
ACGTcount: A:0.32, C:0.22, G:0.19, T:0.27
Consensus pattern (95 bp):
ACAAAACTCTAAAGCATATCTTCCCGAATCTGAATGACTCACTCAGATTGTCCGTCGATCTGAGG
GTGATACGCAGTACTAAAATTAAGTCAGGT
Found at i:39013124 original size:55 final size:55
Alignment explanation
Indices: 39013063--39013176 Score: 194
Period size: 55 Copynumber: 2.1 Consensus size: 55
39013053 AGTACAGTAC
* *
39013063 GAAAGTGATTATCATGTTCATTTTCAGTTTTGGAGTAAATTAGGA-TGTCATCAAT
1 GAAAGTGATTATCATGTTCAATTTCAGTTTTGGAGTAAATTAAGAGT-TCATCAAT
39013118 GAAAGTGATTATCATGTTCAATTTCAGTTTTGGAGTAAATTAAGAGTTCATCAAT
1 GAAAGTGATTATCATGTTCAATTTCAGTTTTGGAGTAAATTAAGAGTTCATCAAT
39013173 GAAA
1 GAAA
39013177 ACCACTACAA
Statistics
Matches: 56, Mismatches: 2, Indels: 2
0.93 0.03 0.03
Matches are distributed among these distances:
55 55 0.98
56 1 0.02
ACGTcount: A:0.34, C:0.09, G:0.19, T:0.38
Consensus pattern (55 bp):
GAAAGTGATTATCATGTTCAATTTCAGTTTTGGAGTAAATTAAGAGTTCATCAAT
Found at i:39018827 original size:21 final size:22
Alignment explanation
Indices: 39018789--39018830 Score: 59
Period size: 21 Copynumber: 2.0 Consensus size: 22
39018779 TTTTATATGT
39018789 TAAATATAATTTTAATTTTAAA
1 TAAATATAATTTTAATTTTAAA
* *
39018811 TAAAT-TATTTTTTATTTTAA
1 TAAATATAATTTTAATTTTAA
39018831 GGCTTTACTT
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
21 13 0.72
22 5 0.28
ACGTcount: A:0.43, C:0.00, G:0.00, T:0.57
Consensus pattern (22 bp):
TAAATATAATTTTAATTTTAAA
Found at i:39019279 original size:12 final size:12
Alignment explanation
Indices: 39019234--39019281 Score: 53
Period size: 12 Copynumber: 3.8 Consensus size: 12
39019224 TCTAAAGTAG
39019234 TTAAA-TATTTT
1 TTAAATTATTTT
*
39019245 TTAAAATATTTT
1 TTAAATTATTTT
39019257 TTATTATATTATTTT
1 TTA--A-ATTATTTT
39019272 TTAAATTATT
1 TTAAATTATT
39019282 AATGATTTTT
Statistics
Matches: 32, Mismatches: 1, Indels: 7
0.80 0.03 0.17
Matches are distributed among these distances:
11 5 0.16
12 15 0.47
13 1 0.03
14 1 0.03
15 10 0.31
ACGTcount: A:0.35, C:0.00, G:0.00, T:0.65
Consensus pattern (12 bp):
TTAAATTATTTT
Found at i:39024813 original size:20 final size:20
Alignment explanation
Indices: 39024788--39024827 Score: 71
Period size: 20 Copynumber: 2.0 Consensus size: 20
39024778 TTGTACTCTT
*
39024788 TTGAAATTCAATATTTAATC
1 TTGAAATTCAAAATTTAATC
39024808 TTGAAATTCAAAATTTAATC
1 TTGAAATTCAAAATTTAATC
39024828 CTAGATGTTG
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
20 19 1.00
ACGTcount: A:0.42, C:0.10, G:0.05, T:0.42
Consensus pattern (20 bp):
TTGAAATTCAAAATTTAATC
Found at i:39025146 original size:13 final size:14
Alignment explanation
Indices: 39025116--39025146 Score: 55
Period size: 14 Copynumber: 2.3 Consensus size: 14
39025106 AAAAAATTTA
39025116 TTTTTAAATTACTC
1 TTTTTAAATTACTC
39025130 TTTTTAAATTACT-
1 TTTTTAAATTACTC
39025143 TTTT
1 TTTT
39025147 AAAAATTATT
Statistics
Matches: 17, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
13 4 0.24
14 13 0.76
ACGTcount: A:0.26, C:0.10, G:0.00, T:0.65
Consensus pattern (14 bp):
TTTTTAAATTACTC
Found at i:39031128 original size:46 final size:46
Alignment explanation
Indices: 39031019--39031288 Score: 180
Period size: 47 Copynumber: 5.8 Consensus size: 46
39031009 TGTGTGTGCT
* * * *
39031019 AGTGTAAGA-CATGTCTAGGACATGCATTGGCCACATT-ATGAA-ATGCT
1 AGTGTAAGACCATGTCTGGGACATGCATCGG---CATTGAGGAAGA-GCC
39031066 AGTGTAAGA-CATGTCTGGGACATGCATCGGCATTGAGGCAAGAGCC
1 AGTGTAAGACCATGTCTGGGACATGCATCGGCATTGAGG-AAGAGCC
* * * * *
39031112 AGTGTAAGA-CATGTCTGGGACATCCATCGGC-TACGA-GATGTGTC
1 AGTGTAAGACCATGTCTGGGACATGCATCGGCAT-TGAGGAAGAGCC
* * * ** *
39031156 AGTATAAGACCATGTCTAGGACATGGCATCAGCACGGATATGTG-AGAGCT
1 AGTGTAAGACCATGTCTGGGACAT-GCATCGGCATTG--A-G-GAAGAGCC
* * *
39031206 AGTGCAAGACCATGTCTGGGACATGGCATCGAC-TTGATGGATGAGCC
1 AGTGTAAGACCATGTCTGGGACAT-GCATCGGCATTGA-GGAAGAGCC
*
39031253 AGTGTAAGACCATGTCCGGGACATGACATCGGCATT
1 AGTGTAAGACCATGTCTGGGACATG-CATCGGCATT
39031289 ATACCCTATG
Statistics
Matches: 177, Mismatches: 31, Indels: 29
0.75 0.13 0.12
Matches are distributed among these distances:
44 16 0.09
45 17 0.10
46 45 0.25
47 64 0.36
48 3 0.02
49 1 0.01
50 30 0.17
51 1 0.01
ACGTcount: A:0.29, C:0.20, G:0.29, T:0.23
Consensus pattern (46 bp):
AGTGTAAGACCATGTCTGGGACATGCATCGGCATTGAGGAAGAGCC
Found at i:39037391 original size:45 final size:45
Alignment explanation
Indices: 39037340--39037428 Score: 169
Period size: 45 Copynumber: 2.0 Consensus size: 45
39037330 GAGGTTAGAC
39037340 CAGACTTGACTTTTGAGGAGGTGCCGGTTCAGATTTTGGATCGTA
1 CAGACTTGACTTTTGAGGAGGTGCCGGTTCAGATTTTGGATCGTA
*
39037385 CAGACTTGACTTTTGAGGAGGTGCCGGTTCAGGTTTTGGATCGT
1 CAGACTTGACTTTTGAGGAGGTGCCGGTTCAGATTTTGGATCGT
39037429 GATATTAAAG
Statistics
Matches: 43, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
45 43 1.00
ACGTcount: A:0.18, C:0.16, G:0.33, T:0.34
Consensus pattern (45 bp):
CAGACTTGACTTTTGAGGAGGTGCCGGTTCAGATTTTGGATCGTA
Found at i:39040557 original size:93 final size:93
Alignment explanation
Indices: 39040450--39040620 Score: 315
Period size: 93 Copynumber: 1.8 Consensus size: 93
39040440 GCCCCTAAGT
* *
39040450 GAACTCGGACTCAACTCAACGAGCTCGGGCGTTCGCATCCATAAGTGAACTCGGACTCAACTCAA
1 GAACTCGGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCAA
39040515 CGAGTTCGGATGCCTAGTTACATTTCAC
66 CGAGTTCGGATGCCTAGTTACATTTCAC
*
39040543 GAACTCGGACTCAACTCAACGAGTTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCAA
1 GAACTCGGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCAA
39040608 CGAGTTCGGATGC
66 CGAGTTCGGATGC
39040621 TCAACCATCC
Statistics
Matches: 75, Mismatches: 3, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
93 75 1.00
ACGTcount: A:0.28, C:0.29, G:0.22, T:0.22
Consensus pattern (93 bp):
GAACTCGGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCAA
CGAGTTCGGATGCCTAGTTACATTTCAC
Found at i:39040617 original size:46 final size:46
Alignment explanation
Indices: 39040445--39040617 Score: 210
Period size: 46 Copynumber: 3.7 Consensus size: 46
39040435 AACCCGCCCC
* * *
39040445 TAAGTGAACTCGGACTCAACTCAACGAGCTCGGGCGTTCGCATCCA
1 TAAGTGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCATCCA
* *
39040491 TAAGTGAACTCGGACTCAACTCAACGAGTTCGGATGCCTAGTT-ACAT--T
1 TAAGTGAACTCGGACTCAACTCAACGAGTTCGGA---C-A-TTCGCATCCA
* *
39040539 TCA-CGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCATCCA
1 TAAGTGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCATCCA
39040584 TAAGTGAACTCGGACTCAACTCAACGAGTTCGGA
1 TAAGTGAACTCGGACTCAACTCAACGAGTTCGGA
39040618 TGCTCAACCA
Statistics
Matches: 107, Mismatches: 11, Indels: 18
0.79 0.08 0.13
Matches are distributed among these distances:
42 2 0.02
43 4 0.04
44 1 0.01
45 2 0.02
46 61 0.57
47 29 0.27
48 2 0.02
49 1 0.01
50 3 0.03
51 2 0.02
ACGTcount: A:0.29, C:0.28, G:0.21, T:0.22
Consensus pattern (46 bp):
TAAGTGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCATCCA
Found at i:39046071 original size:93 final size:93
Alignment explanation
Indices: 39045964--39046134 Score: 315
Period size: 93 Copynumber: 1.8 Consensus size: 93
39045954 GCCCCTAAGT
* *
39045964 GAACTCGGACTCAACTCAACGAGCTCGGGCGTTCGCATCCATAAGTGAACTCGGACTCAACTCAA
1 GAACTCGGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCAA
39046029 CGAGTTCGGATGCCTAGTTACATTTCAC
66 CGAGTTCGGATGCCTAGTTACATTTCAC
*
39046057 GAACTCGGACTCAACTCAACGAGTTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCAA
1 GAACTCGGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCAA
39046122 CGAGTTCGGATGC
66 CGAGTTCGGATGC
39046135 TCAACCATCC
Statistics
Matches: 75, Mismatches: 3, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
93 75 1.00
ACGTcount: A:0.28, C:0.29, G:0.22, T:0.22
Consensus pattern (93 bp):
GAACTCGGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCAA
CGAGTTCGGATGCCTAGTTACATTTCAC
Found at i:39046131 original size:46 final size:46
Alignment explanation
Indices: 39045959--39046131 Score: 210
Period size: 46 Copynumber: 3.7 Consensus size: 46
39045949 AACCCGCCCC
* * *
39045959 TAAGTGAACTCGGACTCAACTCAACGAGCTCGGGCGTTCGCATCCA
1 TAAGTGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCATCCA
* *
39046005 TAAGTGAACTCGGACTCAACTCAACGAGTTCGGATGCCTAGTT-ACAT--T
1 TAAGTGAACTCGGACTCAACTCAACGAGTTCGGA---C-A-TTCGCATCCA
* *
39046053 TCA-CGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCATCCA
1 TAAGTGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCATCCA
39046098 TAAGTGAACTCGGACTCAACTCAACGAGTTCGGA
1 TAAGTGAACTCGGACTCAACTCAACGAGTTCGGA
39046132 TGCTCAACCA
Statistics
Matches: 107, Mismatches: 11, Indels: 18
0.79 0.08 0.13
Matches are distributed among these distances:
42 2 0.02
43 4 0.04
44 1 0.01
45 2 0.02
46 61 0.57
47 29 0.27
48 2 0.02
49 1 0.01
50 3 0.03
51 2 0.02
ACGTcount: A:0.29, C:0.28, G:0.21, T:0.22
Consensus pattern (46 bp):
TAAGTGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCATCCA
Found at i:39052957 original size:40 final size:40
Alignment explanation
Indices: 39052905--39053134 Score: 336
Period size: 40 Copynumber: 5.8 Consensus size: 40
39052895 ATAACCACAA
* * * *
39052905 GCACAATTGCCTTCGGGTCTTAACCCGGGTATAGCAACTC
1 GCACAAATGCCTTCGGGTCTTAGCCCGGATATATCAACTC
* *
39052945 GCACGAATGCCTTCGGGTCTTAGCCCGGATATATCATCTC
1 GCACAAATGCCTTCGGGTCTTAGCCCGGATATATCAACTC
*
39052985 GCACAAATGCCTTCGGGTCTTAGCCCGGATATATCAACTT
1 GCACAAATGCCTTCGGGTCTTAGCCCGGATATATCAACTC
*
39053025 GCACAAATGCCTTCGGGTCTTAGCCCGGATATATCAACTT
1 GCACAAATGCCTTCGGGTCTTAGCCCGGATATATCAACTC
* *
39053065 GCACAAATGCCTTCGGGTCTTAGCCCGGATAAAATC-ACTA
1 GCACAAATGCCTTCGGGTCTTAGCCCGGAT-ATATCAACTC
* *
39053105 GCATAAATGCCTTCGGGACTTAGCCCGGAT
1 GCACAAATGCCTTCGGGTCTTAGCCCGGAT
39053135 GTATTCAAAT
Statistics
Matches: 176, Mismatches: 13, Indels: 2
0.92 0.07 0.01
Matches are distributed among these distances:
40 172 0.98
41 4 0.02
ACGTcount: A:0.24, C:0.28, G:0.22, T:0.26
Consensus pattern (40 bp):
GCACAAATGCCTTCGGGTCTTAGCCCGGATATATCAACTC
Found at i:39061495 original size:40 final size:40
Alignment explanation
Indices: 39061443--39061672 Score: 318
Period size: 40 Copynumber: 5.8 Consensus size: 40
39061433 ATAACCACAA
* * * * *
39061443 GCACAATTGCCTTCAGGTCTTAACCCGGGTATAGCAACTC
1 GCACAAATGCCTTCGGGTCTTAGCCCGGATATATCAACTC
* * *
39061483 GCACGAATGCCTTCGGGTCTTAGCCCGGATAAATCATCTC
1 GCACAAATGCCTTCGGGTCTTAGCCCGGATATATCAACTC
*
39061523 GCACAAATGCCTTCGGGTCTTAGCCCGGATATATCAACTT
1 GCACAAATGCCTTCGGGTCTTAGCCCGGATATATCAACTC
*
39061563 GCACAAATGCCTTCGGGTCTTAGCCCGGATATATCAACTT
1 GCACAAATGCCTTCGGGTCTTAGCCCGGATATATCAACTC
* *
39061603 GCACAAATGCCTTCGGGTCTTAGCCCGGATAAAATC-ACTA
1 GCACAAATGCCTTCGGGTCTTAGCCCGGAT-ATATCAACTC
* *
39061643 GCATAAATGCCTTCGGGACTTAGCCCGGAT
1 GCACAAATGCCTTCGGGTCTTAGCCCGGAT
39061673 GTATTCAAAT
Statistics
Matches: 173, Mismatches: 16, Indels: 2
0.91 0.08 0.01
Matches are distributed among these distances:
40 169 0.98
41 4 0.02
ACGTcount: A:0.25, C:0.28, G:0.21, T:0.25
Consensus pattern (40 bp):
GCACAAATGCCTTCGGGTCTTAGCCCGGATATATCAACTC
Found at i:39061651 original size:120 final size:120
Alignment explanation
Indices: 39061443--39061672 Score: 354
Period size: 120 Copynumber: 1.9 Consensus size: 120
39061433 ATAACCACAA
* * *
39061443 GCACAATTGCCTTCAGGTCTTAACCCGGGTATAGCAACTCGCACGAATGCCTTCGGGTCTTAGCC
1 GCACAAATGCCTTCAGGTCTTAACCCGGATATAGCAACTCGCACAAATGCCTTCGGGTCTTAGCC
* *
39061508 CGGATAAATCATCTCGCACAAATGCCTTCGGGTCTTAGCCCGGATATATCAACTT
66 CGGATAAATCATCTAGCACAAATGCCTTCGGGACTTAGCCCGGATATATCAACTT
* * * *
39061563 GCACAAATGCCTTCGGGTCTTAGCCCGGATATATCAACTTGCACAAATGCCTTCGGGTCTTAGCC
1 GCACAAATGCCTTCAGGTCTTAACCCGGATATAGCAACTCGCACAAATGCCTTCGGGTCTTAGCC
*
39061628 CGGATAAAATCA-CTAGCATAAATGCCTTCGGGACTTAGCCCGGAT
66 CGGAT-AAATCATCTAGCACAAATGCCTTCGGGACTTAGCCCGGAT
39061673 GTATTCAAAT
Statistics
Matches: 99, Mismatches: 10, Indels: 2
0.89 0.09 0.02
Matches are distributed among these distances:
120 93 0.94
121 6 0.06
ACGTcount: A:0.25, C:0.28, G:0.21, T:0.25
Consensus pattern (120 bp):
GCACAAATGCCTTCAGGTCTTAACCCGGATATAGCAACTCGCACAAATGCCTTCGGGTCTTAGCC
CGGATAAATCATCTAGCACAAATGCCTTCGGGACTTAGCCCGGATATATCAACTT
Found at i:39064521 original size:13 final size:13
Alignment explanation
Indices: 39064482--39064545 Score: 59
Period size: 11 Copynumber: 5.4 Consensus size: 13
39064472 GATTTTTCCA
*
39064482 AAATATTATCACT
1 AAATATAATCACT
39064495 -AA-ATAATC-CT
1 AAATATAATCACT
39064505 AAATATAATCACT
1 AAATATAATCACT
*
39064518 -AA-ATAAT-TCT
1 AAATATAATCACT
*
39064528 AAATATTATCACT
1 AAATATAATCACT
39064541 AAATA
1 AAATA
39064546 ATTCAAAATT
Statistics
Matches: 41, Mismatches: 4, Indels: 12
0.72 0.07 0.21
Matches are distributed among these distances:
10 4 0.10
11 14 0.34
12 14 0.34
13 9 0.22
ACGTcount: A:0.52, C:0.14, G:0.00, T:0.34
Consensus pattern (13 bp):
AAATATAATCACT
Found at i:39064548 original size:23 final size:23
Alignment explanation
Indices: 39064482--39064554 Score: 119
Period size: 23 Copynumber: 3.2 Consensus size: 23
39064472 GATTTTTCCA
*
39064482 AAATATTATCACTAAATAATCCT
1 AAATATTATCACTAAATAATTCT
*
39064505 AAATATAATCACTAAATAATTCT
1 AAATATTATCACTAAATAATTCT
*
39064528 AAATATTATCACTAAATAATTCA
1 AAATATTATCACTAAATAATTCT
39064551 AAAT
1 AAAT
39064555 TTAAAAATCA
Statistics
Matches: 46, Mismatches: 4, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
23 46 1.00
ACGTcount: A:0.52, C:0.14, G:0.00, T:0.34
Consensus pattern (23 bp):
AAATATTATCACTAAATAATTCT
Found at i:39075520 original size:42 final size:42
Alignment explanation
Indices: 39075467--39075616 Score: 169
Period size: 42 Copynumber: 3.5 Consensus size: 42
39075457 TAAGACTATG
* * *
39075467 TGTAAGGCCATATAC-GGGATATGGCATCTATATGAGACTTCA
1 TGTAAGACCATAT-CTGGGATATGACATCAATATGAGACTTCA
*
39075509 TGTAAGACCATATCTGGGATATGACATCAATATGAGACTTCG
1 TGTAAGACCATATCTGGGATATGACATCAATATGAGACTTCA
* * * * * *
39075551 TGTAAGACCATAGCTGGGCTATTGACATCGAGACGAGA-TCCCA
1 TGTAAGACCATATCTGGGATA-TGACATCAATATGAGACT-TCA
39075594 TGTAAGACCATATCTGGGATATG
1 TGTAAGACCATATCTGGGATATG
39075617 GCATTGGTAT
Statistics
Matches: 92, Mismatches: 13, Indels: 6
0.83 0.12 0.05
Matches are distributed among these distances:
41 1 0.01
42 58 0.63
43 33 0.36
ACGTcount: A:0.31, C:0.18, G:0.24, T:0.27
Consensus pattern (42 bp):
TGTAAGACCATATCTGGGATATGACATCAATATGAGACTTCA
Found at i:39076627 original size:42 final size:42
Alignment explanation
Indices: 39076572--39076659 Score: 140
Period size: 42 Copynumber: 2.1 Consensus size: 42
39076562 AGAGACAAGG
* **
39076572 GCGTGTGTCTCAGCAGTGTGGATGACATGACCTCAGGCACAA
1 GCGTATGTCTCAGCAGTGTGGATGACAAAACCTCAGGCACAA
*
39076614 GCGTATGTCTCAGCCGTGTGGATGACAAAACCTCAGGCACAA
1 GCGTATGTCTCAGCAGTGTGGATGACAAAACCTCAGGCACAA
39076656 GCGT
1 GCGT
39076660 GTGCCCTGGG
Statistics
Matches: 42, Mismatches: 4, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
42 42 1.00
ACGTcount: A:0.25, C:0.25, G:0.30, T:0.20
Consensus pattern (42 bp):
GCGTATGTCTCAGCAGTGTGGATGACAAAACCTCAGGCACAA
Found at i:39081600 original size:22 final size:22
Alignment explanation
Indices: 39081562--39081608 Score: 53
Period size: 22 Copynumber: 2.1 Consensus size: 22
39081552 GATTTACTAA
39081562 TTTAATTATAAATAATT-TTAAT
1 TTTAATTATAAATAATTATT-AT
*
39081584 TTTAATTAT-ATTAAATTATTAT
1 TTTAATTATAAAT-AATTATTAT
39081606 TTT
1 TTT
39081609 CACATGTTAT
Statistics
Matches: 22, Mismatches: 1, Indels: 4
0.81 0.04 0.15
Matches are distributed among these distances:
21 2 0.09
22 18 0.82
23 2 0.09
ACGTcount: A:0.40, C:0.00, G:0.00, T:0.60
Consensus pattern (22 bp):
TTTAATTATAAATAATTATTAT
Found at i:39081892 original size:28 final size:28
Alignment explanation
Indices: 39081852--39081909 Score: 116
Period size: 28 Copynumber: 2.1 Consensus size: 28
39081842 TATTTAAGGA
39081852 TTGGCAAACACCTAGTCAAGGCTGACCT
1 TTGGCAAACACCTAGTCAAGGCTGACCT
39081880 TTGGCAAACACCTAGTCAAGGCTGACCT
1 TTGGCAAACACCTAGTCAAGGCTGACCT
39081908 TT
1 TT
39081910 AAAAAAGATT
Statistics
Matches: 30, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
28 30 1.00
ACGTcount: A:0.28, C:0.28, G:0.21, T:0.24
Consensus pattern (28 bp):
TTGGCAAACACCTAGTCAAGGCTGACCT
Found at i:39082155 original size:13 final size:13
Alignment explanation
Indices: 39082137--39082163 Score: 54
Period size: 13 Copynumber: 2.1 Consensus size: 13
39082127 AAGGGTTGAT
39082137 TTAGGTTAGATCA
1 TTAGGTTAGATCA
39082150 TTAGGTTAGATCA
1 TTAGGTTAGATCA
39082163 T
1 T
39082164 ATCAACTCTA
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 14 1.00
ACGTcount: A:0.30, C:0.07, G:0.22, T:0.41
Consensus pattern (13 bp):
TTAGGTTAGATCA
Found at i:39086861 original size:39 final size:40
Alignment explanation
Indices: 39086704--39086928 Score: 260
Period size: 40 Copynumber: 5.7 Consensus size: 40
39086694 GCTACTCGTT
* *
39086704 CAAATGCCTTCGGGACATAGCCCGG-TTATAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAACCCGGATT-TAGTAACTCGCA
39086744 CAAATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCA
* *
39086784 CAAATGCCTGCGGAACTTAACCCGGATTTAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCA
* * *
39086824 CAAATGCCTTCGGG-CTTAGCCCGGAATTAGTATCTCGCA
1 CAAATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCA
* ** * * * *
39086863 CAAATGCCTTC-AGATCTTAGTCCGGATATGGTCACTTAGCA
1 CAAATGCCTTCGGGA-CTTAACCCGGATTTAGTAAC-TCGCA
*
39086904 CAAA-GCCTTCGGGACTTAGCCCGGA
1 CAAATGCCTTCGGGACTTAACCCGGA
39086929 CTTCATTCAA
Statistics
Matches: 161, Mismatches: 19, Indels: 10
0.85 0.10 0.05
Matches are distributed among these distances:
38 1 0.01
39 33 0.20
40 115 0.71
41 12 0.07
ACGTcount: A:0.27, C:0.28, G:0.22, T:0.24
Consensus pattern (40 bp):
CAAATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCA
Found at i:39086888 original size:79 final size:80
Alignment explanation
Indices: 39086724--39086928 Score: 270
Period size: 79 Copynumber: 2.6 Consensus size: 80
39086714 CGGGACATAG
* * *
39086724 CCCGGTTATAGTAACTCGCACAAATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCACAAAT
1 CCCGGATATAGTAACTCGCACAAATGCCTTCGGGACTTAGCCCGGAATTAGTAACTCGCACAAAT
*
39086789 GCCTGCGGAACTTAA
66 GCCTGCAGAACTTAA
* *
39086804 CCCGGATTTAGTAACTCGCACAAATGCCTTCGGG-CTTAGCCCGGAATTAGTATCTCGCACAAAT
1 CCCGGATATAGTAACTCGCACAAATGCCTTCGGGACTTAGCCCGGAATTAGTAACTCGCACAAAT
* * *
39086868 GCCTTCAGATCTTAG
66 GCCTGCAGAACTTAA
* * * *
39086883 TCCGGATATGGTCACTTAGCACAAA-GCCTTCGGGACTTAGCCCGGA
1 CCCGGATATAGTAAC-TCGCACAAATGCCTTCGGGACTTAGCCCGGA
39086929 CTTCATTCAA
Statistics
Matches: 109, Mismatches: 14, Indels: 4
0.86 0.11 0.03
Matches are distributed among these distances:
79 58 0.53
80 51 0.47
ACGTcount: A:0.26, C:0.28, G:0.21, T:0.24
Consensus pattern (80 bp):
CCCGGATATAGTAACTCGCACAAATGCCTTCGGGACTTAGCCCGGAATTAGTAACTCGCACAAAT
GCCTGCAGAACTTAA
Found at i:39086921 original size:119 final size:120
Alignment explanation
Indices: 39086704--39086928 Score: 278
Period size: 119 Copynumber: 1.9 Consensus size: 120
39086694 GCTACTCGTT
* *
39086704 CAAATGCCTTCGGGACATAGCCCGGTTATAGTAACTCGCACAAATGCCTTCGGGACTTAACCCGG
1 CAAATGCCTTCGGGACATAGCCCGGATATAGTAACTCGCACAAATGCCTTCGAGACTTAACCCGG
* *
39086769 ATTTAGTAACTCGCACAAATGCCTGCGGAACTTAACCCGGATTTAGTAACTCGCA
66 ATATAGTAACTAGCACAAATGCCTGCGGAACTTAACCCGGATTTAGTAACTCGCA
* * **
39086824 CAAATGCCTTCGGG-CTTAGCCCGGA-ATTAGTATCTCGCACAAATGCCTTC-AGATCTTAGTCC
1 CAAATGCCTTCGGGACATAGCCCGGATA-TAGTAACTCGCACAAATGCCTTCGAGA-CTTAACCC
* * * * *
39086886 GGATATGGTCACTTAGCACAAA-GCCTTCGGGACTTAGCCCGGA
64 GGATATAGTAAC-TAGCACAAATGCCTGCGGAACTTAACCCGGA
39086929 CTTCATTCAA
Statistics
Matches: 89, Mismatches: 13, Indels: 7
0.82 0.12 0.06
Matches are distributed among these distances:
118 3 0.03
119 64 0.72
120 22 0.25
ACGTcount: A:0.27, C:0.28, G:0.22, T:0.24
Consensus pattern (120 bp):
CAAATGCCTTCGGGACATAGCCCGGATATAGTAACTCGCACAAATGCCTTCGAGACTTAACCCGG
ATATAGTAACTAGCACAAATGCCTGCGGAACTTAACCCGGATTTAGTAACTCGCA
Found at i:39090066 original size:17 final size:17
Alignment explanation
Indices: 39090044--39090184 Score: 96
Period size: 17 Copynumber: 7.9 Consensus size: 17
39090034 ATGAAAATAT
*
39090044 AATCTTCAATGATATGC
1 AATCTTAAATGATATGC
*
39090061 AATCTTAAAT-ATGATAC
1 AATCTTAAATGAT-ATGC
39090078 AATCTTAGATATGAT-TGC
1 AATCTTA-A-ATGATATGC
39090096 AATCTTAGATATGATA--C
1 AATCTTA-A-ATGATATGC
*
39090113 AATCTTAGATATGATATAC
1 AATCTTA-A-ATGATATGC
39090132 AATCTTAGATATGAT-TGC
1 AATCTTA-A-ATGATATGC
*
39090150 AATCTTAGATATGATATAC
1 AATCTTA-A-ATGATATGC
39090169 AATCTTAGAA-GATATG
1 AATCTTA-AATGATATG
39090185 ATTTTGTAAT
Statistics
Matches: 110, Mismatches: 6, Indels: 16
0.83 0.05 0.12
Matches are distributed among these distances:
16 2 0.02
17 41 0.37
18 36 0.33
19 29 0.26
20 2 0.02
ACGTcount: A:0.40, C:0.11, G:0.13, T:0.36
Consensus pattern (17 bp):
AATCTTAAATGATATGC
Found at i:39090098 original size:35 final size:36
Alignment explanation
Indices: 39090052--39090177 Score: 200
Period size: 35 Copynumber: 3.5 Consensus size: 36
39090042 ATAATCTTCA
* *
39090052 ATGATATGCAATCTTAAATATGATACAATCTTAGAT
1 ATGATATACAATCTTAGATATGATACAATCTTAGAT
*
39090088 ATGAT-TGCAATCTTAGATATGATACAATCTTAGAT
1 ATGATATACAATCTTAGATATGATACAATCTTAGAT
*
39090123 ATGATATACAATCTTAGATATGATTGCAATCTTAGAT
1 ATGATATACAATCTTAGATATGA-TACAATCTTAGAT
39090160 ATGATATACAATCTTAGA
1 ATGATATACAATCTTAGA
39090178 AGATATGATT
Statistics
Matches: 85, Mismatches: 3, Indels: 3
0.93 0.03 0.03
Matches are distributed among these distances:
35 34 0.40
36 21 0.25
37 30 0.35
ACGTcount: A:0.40, C:0.11, G:0.13, T:0.37
Consensus pattern (36 bp):
ATGATATACAATCTTAGATATGATACAATCTTAGAT
Found at i:39090176 original size:19 final size:19
Alignment explanation
Indices: 39090052--39090177 Score: 174
Period size: 19 Copynumber: 6.9 Consensus size: 19
39090042 ATAATCTTCA
* *
39090052 ATGATATGCAATCTTAAAT
1 ATGATATACAATCTTAGAT
39090071 ATG--ATACAATCTTAGAT
1 ATGATATACAATCTTAGAT
*
39090088 ATGAT-TGCAATCTTAGAT
1 ATGATATACAATCTTAGAT
39090106 ATG--ATACAATCTTAGAT
1 ATGATATACAATCTTAGAT
39090123 ATGATATACAATCTTAGAT
1 ATGATATACAATCTTAGAT
*
39090142 ATGAT-TGCAATCTTAGAT
1 ATGATATACAATCTTAGAT
39090160 ATGATATACAATCTTAGA
1 ATGATATACAATCTTAGA
39090178 AGATATGATT
Statistics
Matches: 95, Mismatches: 6, Indels: 12
0.84 0.05 0.11
Matches are distributed among these distances:
17 30 0.32
18 32 0.34
19 33 0.35
ACGTcount: A:0.40, C:0.11, G:0.13, T:0.37
Consensus pattern (19 bp):
ATGATATACAATCTTAGAT
Found at i:39090183 original size:54 final size:54
Alignment explanation
Indices: 39090052--39090183 Score: 198
Period size: 54 Copynumber: 2.4 Consensus size: 54
39090042 ATAATCTTCA
* *
39090052 ATGATATGCAATCTTA-AATATGATACAATCTTAGATATGATTGCAATCTTAGAT
1 ATGATATACAATCTTAGAAGAT-ATACAATCTTAGATATGATTGCAATCTTAGAT
39090106 ATG--ATACAATCTTAGATATGATATACAATCTTAGATATGATTGCAATCTTAGAT
1 ATGATATACAATCTTAGA-A-GATATACAATCTTAGATATGATTGCAATCTTAGAT
39090160 ATGATATACAATCTTAGAAGATAT
1 ATGATATACAATCTTAGAAGATAT
39090184 GATTTTGTAA
Statistics
Matches: 71, Mismatches: 2, Indels: 10
0.86 0.02 0.12
Matches are distributed among these distances:
52 10 0.14
53 1 0.01
54 44 0.62
55 3 0.04
56 13 0.18
ACGTcount: A:0.40, C:0.11, G:0.13, T:0.36
Consensus pattern (54 bp):
ATGATATACAATCTTAGAAGATATACAATCTTAGATATGATTGCAATCTTAGAT
Found at i:39098449 original size:40 final size:40
Alignment explanation
Indices: 39098365--39098589 Score: 244
Period size: 40 Copynumber: 5.7 Consensus size: 40
39098355 GCTACTCGTT
* *
39098365 CAAATGCCTTCGGGACATAGCGCCGG-TTATAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAAC-CCGGATT-TAGTAACTCGCA
* *
39098406 CAAATGCCTTCGGGACTTAATCCAGATTTAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCA
* *
39098446 CAAATGCCTTTGGGGCTTAACCCGGATTTAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCA
* *
39098486 CAAATGCCTTCGGG-CTTAGCCCGGA-TTAGTATCTCGCA
1 CAAATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCA
** * * * *
39098524 CAAATGCCTTC-GGATCTTAGTCCGGATATGGTCACTTAGCA
1 CAAATGCCTTCGGGA-CTTAACCCGGATTTAGTAAC-TCGCA
*
39098565 CAAA-GCCTTCGGGACTTAGCCCGGA
1 CAAATGCCTTCGGGACTTAACCCGGA
39098590 CATCATTCAA
Statistics
Matches: 160, Mismatches: 18, Indels: 13
0.84 0.09 0.07
Matches are distributed among these distances:
37 2 0.01
38 23 0.14
39 20 0.12
40 84 0.52
41 31 0.19
ACGTcount: A:0.25, C:0.27, G:0.23, T:0.25
Consensus pattern (40 bp):
CAAATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCA
Found at i:39098549 original size:78 final size:80
Alignment explanation
Indices: 39098365--39098589 Score: 251
Period size: 78 Copynumber: 2.8 Consensus size: 80
39098355 GCTACTCGTT
* * * **
39098365 CAAATGCCTTCGG-GACATAGCGCCGGTTATAGTAACTCGCACAAATGCCTTCGGGACTTAATCC
1 CAAATGCCTTCGGAG-CTTAAC-CCGGATATAGTAACTCGCACAAATGCCTTCGGGACTTAGCCC
*
39098429 AGATTTAGTAACTCGCA
64 GGATTTAGTAACTCGCA
* * *
39098446 CAAATGCCTTTGGGGCTTAACCCGGATTTAGTAACTCGCACAAATGCCTTCGGG-CTTAGCCCGG
1 CAAATGCCTTCGGAGCTTAACCCGGATATAGTAACTCGCACAAATGCCTTCGGGACTTAGCCCGG
*
39098510 A-TTAGTATCTCGCA
66 ATTTAGTAACTCGCA
* ** * * *
39098524 CAAATGCCTTCGGATCTTAGTCCGGATATGGTCACTTAGCACAAA-GCCTTCGGGACTTAGCCCG
1 CAAATGCCTTCGGAGCTTAACCCGGATATAGTAAC-TCGCACAAATGCCTTCGGGACTTAGCCCG
39098588 GA
65 GA
39098590 CATCATTCAA
Statistics
Matches: 123, Mismatches: 18, Indels: 8
0.83 0.12 0.05
Matches are distributed among these distances:
78 48 0.39
79 27 0.22
80 31 0.25
81 16 0.13
82 1 0.01
ACGTcount: A:0.25, C:0.27, G:0.23, T:0.25
Consensus pattern (80 bp):
CAAATGCCTTCGGAGCTTAACCCGGATATAGTAACTCGCACAAATGCCTTCGGGACTTAGCCCGG
ATTTAGTAACTCGCA
Found at i:39098573 original size:118 final size:121
Alignment explanation
Indices: 39098365--39098589 Score: 289
Period size: 118 Copynumber: 1.9 Consensus size: 121
39098355 GCTACTCGTT
*
39098365 CAAATGCCTTCGGGACATAGCGCCGGTTATAGTAACTCGCACAAATGCCTTCGGGACTTAATCCA
1 CAAATGCCTTCGGGACATAGCGCCGGATATAGTAACTCGCACAAATGCCTTCGGGACTTAATCCA
* * * *
39098430 GATTTAGTAACTCGCACAAATGCCTTTGGGGCTTAACCCGGATTTAGTAACTCGCA
66 GATATAGTAACTAGCACAAATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCA
* * *
39098486 CAAATGCCTTCGGG-CTTAGC-CCGGAT-TAGTATCTCGCACAAATGCCTTC-GGATCTTAGTCC
1 CAAATGCCTTCGGGACATAGCGCCGGATATAGTAACTCGCACAAATGCCTTCGGGA-CTTAATCC
* * * *
39098547 GGATATGGTCACTTAGCACAAA-GCCTTCGGGACTTAGCCCGGA
65 AGATATAGTAAC-TAGCACAAATGCCTTCGGGACTTAACCCGGA
39098590 CATCATTCAA
Statistics
Matches: 90, Mismatches: 12, Indels: 7
0.83 0.11 0.06
Matches are distributed among these distances:
117 3 0.03
118 55 0.61
119 13 0.14
120 5 0.06
121 14 0.16
ACGTcount: A:0.25, C:0.27, G:0.23, T:0.25
Consensus pattern (121 bp):
CAAATGCCTTCGGGACATAGCGCCGGATATAGTAACTCGCACAAATGCCTTCGGGACTTAATCCA
GATATAGTAACTAGCACAAATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCA
Found at i:39101753 original size:18 final size:18
Alignment explanation
Indices: 39101713--39101848 Score: 195
Period size: 18 Copynumber: 7.6 Consensus size: 18
39101703 CAATGATATG
*
39101713 CAATCTTAAATATGA-TA
1 CAATCTTAGATATGATTA
*
39101730 CAATCTTAGATATGATTG
1 CAATCTTAGATATGATTA
*
39101748 CAATCTTAGATATGATTG
1 CAATCTTAGATATGATTA
39101766 CAATCTTAGATATGA-TA
1 CAATCTTAGATATGATTA
39101783 CAATCTTAGATATGATATA
1 CAATCTTAGATATGAT-TA
*
39101802 CAATCTTAGATATGATTG
1 CAATCTTAGATATGATTA
*
39101820 TAATCTTAGATATGATATA
1 CAATCTTAGATATGAT-TA
39101839 CAATCTTAGA
1 CAATCTTAGA
39101849 AGATATGATT
Statistics
Matches: 108, Mismatches: 7, Indels: 6
0.89 0.06 0.05
Matches are distributed among these distances:
17 30 0.28
18 50 0.46
19 28 0.26
ACGTcount: A:0.39, C:0.11, G:0.12, T:0.38
Consensus pattern (18 bp):
CAATCTTAGATATGATTA
Found at i:39101782 original size:72 final size:73
Alignment explanation
Indices: 39101704--39101855 Score: 224
Period size: 72 Copynumber: 2.1 Consensus size: 73
39101694 TATAATCTTC
*
39101704 AATGATATGCAATCTTAAATATG-ATACAATCTTAGATATGATTGCAATCTTAGATATGAT-TGC
1 AATGATATGCAATCTTAAATATGAATACAATCTTAGATATGATTGCAATCTTAGATATGATATAC
39101767 AATCTTAG
66 AATCTTAG
* *
39101775 ATATGATA--CAATCTTAGATATGATATACAATCTTAGATATGATTGTAATCTTAGATATGATAT
1 A-ATGATATGCAATCTTAAATATGA-ATACAATCTTAGATATGATTGCAATCTTAGATATGATAT
39101838 ACAATCTTAG
64 ACAATCTTAG
39101848 AA-GATATG
1 AATGATATG
39101856 ATTTTGTAAT
Statistics
Matches: 72, Mismatches: 3, Indels: 10
0.85 0.04 0.12
Matches are distributed among these distances:
70 13 0.18
71 5 0.07
72 43 0.60
73 11 0.15
ACGTcount: A:0.39, C:0.10, G:0.14, T:0.37
Consensus pattern (73 bp):
AATGATATGCAATCTTAAATATGAATACAATCTTAGATATGATTGCAATCTTAGATATGATATAC
AATCTTAG
Found at i:39101854 original size:54 final size:54
Alignment explanation
Indices: 39101705--39101848 Score: 227
Period size: 54 Copynumber: 2.6 Consensus size: 54
39101695 ATAATCTTCA
* *
39101705 ATGATATGCAATCTTAAATATGATACAATCTTAGATATGAT-TGCAATCTTAGAT
1 ATGAT-TGCAATCTTAGATATGATACAATCTTAGATATGATATACAATCTTAGAT
39101759 ATGATTGCAATCTTAGATATGATACAATCTTAGATATGATATACAATCTTAGAT
1 ATGATTGCAATCTTAGATATGATACAATCTTAGATATGATATACAATCTTAGAT
*
39101813 ATGATTGTAATCTTAGATATGATATACAATCTTAGA
1 ATGATTGCAATCTTAGATATG--ATACAATCTTAGA
39101849 AGATATGATT
Statistics
Matches: 84, Mismatches: 3, Indels: 4
0.92 0.03 0.04
Matches are distributed among these distances:
53 34 0.40
54 37 0.44
56 13 0.15
ACGTcount: A:0.39, C:0.10, G:0.13, T:0.38
Consensus pattern (54 bp):
ATGATTGCAATCTTAGATATGATACAATCTTAGATATGATATACAATCTTAGAT
Found at i:39101874 original size:22 final size:20
Alignment explanation
Indices: 39101731--39101884 Score: 87
Period size: 18 Copynumber: 8.1 Consensus size: 20
39101721 AATATGATAC
*
39101731 AATCTT-AGATATGA-TTGC
1 AATCTTGAGATATGATTTGT
*
39101749 AATCTT-AGATATGA-TTGC
1 AATCTTGAGATATGATTTGT
**
39101767 AATCTT-AGATATGA--TAC
1 AATCTTGAGATATGATTTGT
* **
39101784 AATCTT-AGATATGATATAC
1 AATCTTGAGATATGATTTGT
39101803 AATCTT-AGATATGA-TTGT
1 AATCTTGAGATATGATTTGT
* **
39101821 AATCTT-AGATATGATATAC
1 AATCTTGAGATATGATTTGT
39101840 AATCTTAGAAGATATGATTTTGT
1 AATCTT-G-AGATATGA-TTTGT
* *
39101863 AATCTTGGAGATTTAATTTGT
1 AATCTT-GAGATATGATTTGT
39101884 A
1 A
39101885 GATATCCTTT
Statistics
Matches: 116, Mismatches: 13, Indels: 11
0.83 0.09 0.08
Matches are distributed among these distances:
17 16 0.14
18 47 0.41
19 24 0.21
21 6 0.05
22 14 0.12
23 9 0.08
ACGTcount: A:0.36, C:0.08, G:0.15, T:0.40
Consensus pattern (20 bp):
AATCTTGAGATATGATTTGT
Found at i:39107802 original size:13 final size:14
Alignment explanation
Indices: 39107775--39107808 Score: 54
Period size: 13 Copynumber: 2.6 Consensus size: 14
39107765 CTTCTATTTC
39107775 AAAA-AAAGAGAAA
1 AAAATAAAGAGAAA
39107788 AAAATAAAGAG-AA
1 AAAATAAAGAGAAA
39107801 AAAATAAA
1 AAAATAAA
39107809 AATATGGAGA
Statistics
Matches: 20, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
13 14 0.70
14 6 0.30
ACGTcount: A:0.82, C:0.00, G:0.12, T:0.06
Consensus pattern (14 bp):
AAAATAAAGAGAAA
Found at i:39108834 original size:44 final size:44
Alignment explanation
Indices: 39108690--39108869 Score: 159
Period size: 44 Copynumber: 4.1 Consensus size: 44
39108680 CAAAGAAACA
** * * *
39108690 AGATTTGGCATCTTTATGTTTATAGGGAACATATCGAAGATAGT
1 AGATTTGGCATCCCTGTGTTTATAGGGAACAGATCGAAGATAGC
* * * * * * * * **
39108734 AAATCTGACATTCCTGTGCTTACAGCGAAGCAGATTGAAGATTTC
1 AGATTTGGCATCCCTGTGTTTATAGGGAA-CAGATCGAAGATAGC
* *
39108779 AGCA--TGGCATCCTTGTGTTTATAGGGAACA-AGTTGAAGATAGC
1 AG-ATTTGGCATCCCTGTGTTTATAGGGAACAGA-TCGAAGATAGC
39108822 AGATTTGGCATCCCTGTGTTTATAGGGAACAGATCGAAGATAGC
1 AGATTTGGCATCCCTGTGTTTATAGGGAACAGATCGAAGATAGC
39108866 AGAT
1 AGAT
39108870 CTAACCTTCA
Statistics
Matches: 104, Mismatches: 26, Indels: 12
0.73 0.18 0.08
Matches are distributed among these distances:
42 2 0.02
43 13 0.12
44 76 0.73
45 12 0.12
46 1 0.01
ACGTcount: A:0.31, C:0.14, G:0.24, T:0.30
Consensus pattern (44 bp):
AGATTTGGCATCCCTGTGTTTATAGGGAACAGATCGAAGATAGC
Found at i:39109216 original size:122 final size:121
Alignment explanation
Indices: 39108861--39109219 Score: 592
Period size: 121 Copynumber: 3.0 Consensus size: 121
39108851 CAGATCGAAG
39108861 ATAGCAGATCTAACCTTCAGATGTTTATACTGAAGCAGATCCAAGATGATTTGGTATTCTTGTGT
1 ATAGCAGATCTAACCTTCAGATGTTTATACTGAAGCAGATCCAAGATGATTTGGTATTCTTGTGT
*
39108926 TTACAAGGAACAAATCGAAGACATAGCAGATTTGACTCTCAGATGTTCTCAGACAT
66 TTACAAGGAACAAATCGAAGACATAGCAGATTTGACTCTCAGATGTTCTCAGACAC
* *
39108982 ATAGCAGATCTAAACTTCAGATGTTTATTCTGAAGCAGATCCAAGATGATTTGGTATTCTTGTGT
1 ATAGCAGATCTAACCTTCAGATGTTTATACTGAAGCAGATCCAAGATGATTTGGTATTCTTGTGT
* *
39109047 TTACAAGGAACAAATCGAGGACATAGCAGATTTGACTCTCAGATGTTCTTAGACAC
66 TTACAAGGAACAAATCGAAGACATAGCAGATTTGACTCTCAGATGTTCTCAGACAC
* * ***
39109103 ATGGCAGATCTAACCTTCAGATGTTTATACTGAAGCCAGATCCAATATGATTTGACGTTCTTGTG
1 ATAGCAGATCTAACCTTCAGATGTTTATACTGAAG-CAGATCCAAGATGATTTGGTATTCTTGTG
* * *
39109168 TTTACAAGAAACAATTCGAAGACATAGTAGATTTGACTCTCAGATGTTCTCA
65 TTTACAAGGAACAAATCGAAGACATAGCAGATTTGACTCTCAGATGTTCTCA
39109220 AACAGACTCT
Statistics
Matches: 220, Mismatches: 17, Indels: 1
0.92 0.07 0.00
Matches are distributed among these distances:
121 148 0.67
122 72 0.33
ACGTcount: A:0.32, C:0.17, G:0.19, T:0.31
Consensus pattern (121 bp):
ATAGCAGATCTAACCTTCAGATGTTTATACTGAAGCAGATCCAAGATGATTTGGTATTCTTGTGT
TTACAAGGAACAAATCGAAGACATAGCAGATTTGACTCTCAGATGTTCTCAGACAC
Found at i:39109861 original size:17 final size:17
Alignment explanation
Indices: 39109841--39109939 Score: 144
Period size: 17 Copynumber: 5.6 Consensus size: 17
39109831 CAATGATATG
39109841 CAATCTTAGATATGATA
1 CAATCTTAGATATGATA
*
39109858 CAATCTTAGATATGATTG
1 CAATCTTAGATATGA-TA
39109876 CAATCTTAGATATGATA
1 CAATCTTAGATATGATA
*
39109893 CAATCTTAGATATGATTG
1 CAATCTTAGATATGA-TA
39109911 CAATCTTAGATATGATATA
1 CAATCTTAGATATG--ATA
39109930 CAATCTTAGA
1 CAATCTTAGA
39109940 AGATATGATT
Statistics
Matches: 74, Mismatches: 4, Indels: 6
0.88 0.05 0.07
Matches are distributed among these distances:
17 31 0.42
18 31 0.42
19 11 0.15
20 1 0.01
ACGTcount: A:0.38, C:0.12, G:0.13, T:0.36
Consensus pattern (17 bp):
CAATCTTAGATATGATA
Found at i:39109879 original size:35 final size:35
Alignment explanation
Indices: 39109833--39109939 Score: 187
Period size: 35 Copynumber: 3.0 Consensus size: 35
39109823 ATAATCTTCA
39109833 ATGATATGCAATCTTAGATATGATACAATCTTAGAT
1 ATGAT-TGCAATCTTAGATATGATACAATCTTAGAT
39109869 ATGATTGCAATCTTAGATATGATACAATCTTAGAT
1 ATGATTGCAATCTTAGATATGATACAATCTTAGAT
39109904 ATGATTGCAATCTTAGATATGATATACAATCTTAGA
1 ATGATTGCAATCTTAGATATG--ATACAATCTTAGA
39109940 AGATATGATT
Statistics
Matches: 69, Mismatches: 0, Indels: 3
0.96 0.00 0.04
Matches are distributed among these distances:
35 51 0.74
36 5 0.07
37 13 0.19
ACGTcount: A:0.38, C:0.11, G:0.14, T:0.36
Consensus pattern (35 bp):
ATGATTGCAATCTTAGATATGATACAATCTTAGAT
Found at i:39109881 original size:18 final size:18
Alignment explanation
Indices: 39109841--39109939 Score: 157
Period size: 18 Copynumber: 5.6 Consensus size: 18
39109831 CAATGATATG
39109841 CAATCTTAGATATGA-TA
1 CAATCTTAGATATGATTA
*
39109858 CAATCTTAGATATGATTG
1 CAATCTTAGATATGATTA
39109876 CAATCTTAGATATGA-TA
1 CAATCTTAGATATGATTA
*
39109893 CAATCTTAGATATGATTG
1 CAATCTTAGATATGATTA
39109911 CAATCTTAGATATGATATA
1 CAATCTTAGATATGAT-TA
39109930 CAATCTTAGA
1 CAATCTTAGA
39109940 AGATATGATT
Statistics
Matches: 75, Mismatches: 4, Indels: 4
0.90 0.05 0.05
Matches are distributed among these distances:
17 31 0.41
18 33 0.44
19 11 0.15
ACGTcount: A:0.38, C:0.12, G:0.13, T:0.36
Consensus pattern (18 bp):
CAATCTTAGATATGATTA
Found at i:39119956 original size:23 final size:23
Alignment explanation
Indices: 39119930--39119974 Score: 81
Period size: 23 Copynumber: 2.0 Consensus size: 23
39119920 AGGGAGGTAA
39119930 TTTTCAAGTTAATGATCAGCGTG
1 TTTTCAAGTTAATGATCAGCGTG
*
39119953 TTTTCAAGTTAATGCTCAGCGT
1 TTTTCAAGTTAATGATCAGCGT
39119975 TTGAAACATT
Statistics
Matches: 21, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
23 21 1.00
ACGTcount: A:0.24, C:0.16, G:0.20, T:0.40
Consensus pattern (23 bp):
TTTTCAAGTTAATGATCAGCGTG
Found at i:39125920 original size:23 final size:23
Alignment explanation
Indices: 39125894--39125944 Score: 75
Period size: 23 Copynumber: 2.2 Consensus size: 23
39125884 TTGATCGTCC
*
39125894 AAAGAAGATAAGCCTGTTACGAG
1 AAAGAAGACAAGCCTGTTACGAG
**
39125917 AAAGATTACAAGCCTGTTACGAG
1 AAAGAAGACAAGCCTGTTACGAG
39125940 AAAGA
1 AAAGA
39125945 TTCAGAAGCT
Statistics
Matches: 25, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
23 25 1.00
ACGTcount: A:0.45, C:0.14, G:0.24, T:0.18
Consensus pattern (23 bp):
AAAGAAGACAAGCCTGTTACGAG
Found at i:39125945 original size:23 final size:23
Alignment explanation
Indices: 39125903--39125946 Score: 88
Period size: 23 Copynumber: 1.9 Consensus size: 23
39125893 CAAAGAAGAT
39125903 AAGCCTGTTACGAGAAAGATTAC
1 AAGCCTGTTACGAGAAAGATTAC
39125926 AAGCCTGTTACGAGAAAGATT
1 AAGCCTGTTACGAGAAAGATT
39125947 CAGAAGCTGA
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
23 21 1.00
ACGTcount: A:0.39, C:0.16, G:0.23, T:0.23
Consensus pattern (23 bp):
AAGCCTGTTACGAGAAAGATTAC
Found at i:39129703 original size:25 final size:28
Alignment explanation
Indices: 39129675--39129729 Score: 71
Period size: 29 Copynumber: 2.0 Consensus size: 28
39129665 ATATAGTTAC
*
39129675 ATATATAAAT-AATT-A-TATTTATTTA
1 ATATAAAAATAAATTGAGTATTTATTTA
39129700 ATATAAAAATAAATTGATGTATTTATTTA
1 ATATAAAAATAAATTGA-GTATTTATTTA
39129729 A
1 A
39129730 ATACATACAA
Statistics
Matches: 25, Mismatches: 1, Indels: 4
0.83 0.03 0.13
Matches are distributed among these distances:
25 9 0.36
26 4 0.16
27 1 0.04
29 11 0.44
ACGTcount: A:0.49, C:0.00, G:0.04, T:0.47
Consensus pattern (28 bp):
ATATAAAAATAAATTGAGTATTTATTTA
Found at i:39134817 original size:15 final size:15
Alignment explanation
Indices: 39134797--39134828 Score: 64
Period size: 15 Copynumber: 2.1 Consensus size: 15
39134787 GAAGTTGTCA
39134797 TACTCAATATGTAGC
1 TACTCAATATGTAGC
39134812 TACTCAATATGTAGC
1 TACTCAATATGTAGC
39134827 TA
1 TA
39134829 TCTCTGTCTT
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 17 1.00
ACGTcount: A:0.34, C:0.19, G:0.12, T:0.34
Consensus pattern (15 bp):
TACTCAATATGTAGC
Found at i:39136096 original size:44 final size:44
Alignment explanation
Indices: 39136033--39136116 Score: 168
Period size: 44 Copynumber: 1.9 Consensus size: 44
39136023 TTTCTAGGAA
39136033 TATGACTTTCGATTAAGAATTAATTTTACTTAAACATGAGTTCC
1 TATGACTTTCGATTAAGAATTAATTTTACTTAAACATGAGTTCC
39136077 TATGACTTTCGATTAAGAATTAATTTTACTTAAACATGAG
1 TATGACTTTCGATTAAGAATTAATTTTACTTAAACATGAG
39136117 AATATGATTA
Statistics
Matches: 40, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
44 40 1.00
ACGTcount: A:0.36, C:0.12, G:0.12, T:0.40
Consensus pattern (44 bp):
TATGACTTTCGATTAAGAATTAATTTTACTTAAACATGAGTTCC
Found at i:39140008 original size:30 final size:30
Alignment explanation
Indices: 39139974--39140033 Score: 77
Period size: 30 Copynumber: 2.0 Consensus size: 30
39139964 CTTTAATACG
39139974 AACTTTGGCAAAATTACA-TTTTTGCCCCTA
1 AACTTTGGCAAAATTACACTTTTT-CCCCTA
* * *
39140004 AACTTTTGCATAATTTCACTTTTTCCCCTA
1 AACTTTGGCAAAATTACACTTTTTCCCCTA
39140034 GGCTCGGGAA
Statistics
Matches: 26, Mismatches: 3, Indels: 2
0.84 0.10 0.06
Matches are distributed among these distances:
30 21 0.81
31 5 0.19
ACGTcount: A:0.27, C:0.25, G:0.07, T:0.42
Consensus pattern (30 bp):
AACTTTGGCAAAATTACACTTTTTCCCCTA
Found at i:39142981 original size:29 final size:30
Alignment explanation
Indices: 39142935--39142992 Score: 75
Period size: 30 Copynumber: 2.0 Consensus size: 30
39142925 CGAATTGATC
* *
39142935 ATTTTATGATTGTATGTGATAATT-GATGTG
1 ATTTAATGAATGTATGTGA-AATTAGATGTG
39142965 ATTTAATGAATGT-TGTGAAATTAGATGT
1 ATTTAATGAATGTATGTGAAATTAGATGT
39142993 ATATTCCCAT
Statistics
Matches: 25, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
28 4 0.16
29 10 0.40
30 11 0.44
ACGTcount: A:0.31, C:0.00, G:0.22, T:0.47
Consensus pattern (30 bp):
ATTTAATGAATGTATGTGAAATTAGATGTG
Found at i:39145867 original size:49 final size:49
Alignment explanation
Indices: 39145795--39145981 Score: 257
Period size: 49 Copynumber: 3.8 Consensus size: 49
39145785 TGAGGTCACG
39145795 TGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGATAATTGGTCGCA
1 TGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGATAATTGGTCGCA
** ** * *
39145844 TGTGTAGTACTAAGTGCAGGCTACTACGTGTTTCAGATGGTTAGGTCACG
1 TGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGATAATT-GGTCGCA
* * *
39145894 TGTGTAGTACTAAGTGTAGGCTACTATGTGTACCGGATAATTGGTCGCA
1 TGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGATAATTGGTCGCA
* * *
39145943 TGTGTAGTACTAAGTGCAGGCTATTATGCGTACCAGATA
1 TGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGATA
39145982 GCTTTGGCTA
Statistics
Matches: 118, Mismatches: 19, Indels: 2
0.85 0.14 0.01
Matches are distributed among these distances:
49 78 0.66
50 40 0.34
ACGTcount: A:0.25, C:0.16, G:0.28, T:0.31
Consensus pattern (49 bp):
TGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGATAATTGGTCGCA
Found at i:39145958 original size:99 final size:99
Alignment explanation
Indices: 39145787--39145965 Score: 331
Period size: 99 Copynumber: 1.8 Consensus size: 99
39145777 ATCTATTGTG
39145787 AGGTCACGTGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGATAATTGGTCGCATGTGTAGT
1 AGGTCACGTGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGATAATTGGTCGCATGTGTAGT
39145852 ACTAAGTGCAGGCTACTACGTGTTTCAGATGGTT
66 ACTAAGTGCAGGCTACTACGTGTTTCAGATGGTT
* * *
39145886 AGGTCACGTGTGTAGTACTAAGTGTAGGCTACTATGTGTACCGGATAATTGGTCGCATGTGTAGT
1 AGGTCACGTGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGATAATTGGTCGCATGTGTAGT
39145951 ACTAAGTGCAGGCTA
66 ACTAAGTGCAGGCTA
39145966 TTATGCGTAC
Statistics
Matches: 77, Mismatches: 3, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
99 77 1.00
ACGTcount: A:0.25, C:0.16, G:0.29, T:0.30
Consensus pattern (99 bp):
AGGTCACGTGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGATAATTGGTCGCATGTGTAGT
ACTAAGTGCAGGCTACTACGTGTTTCAGATGGTT
Found at i:39148291 original size:45 final size:45
Alignment explanation
Indices: 39148220--39148345 Score: 207
Period size: 45 Copynumber: 2.8 Consensus size: 45
39148210 TGTTACAATG
* *
39148220 GTAGTTTGTCTGCAAATATTGGTGGCTTTGTCCACAACCTACATA
1 GTAGCTTGTCTGCGAATATTGGTGGCTTTGTCCACAACCTACATA
* *
39148265 GTAGCTTGTTTGCGAATATTGGTGGCTTTGTCCACAACCTACATG
1 GTAGCTTGTCTGCGAATATTGGTGGCTTTGTCCACAACCTACATA
*
39148310 GTAGCTTGTCTGCGAATATTGTTGGCTTTGTCCACA
1 GTAGCTTGTCTGCGAATATTGGTGGCTTTGTCCACA
39148346 TTAGAGTGTT
Statistics
Matches: 75, Mismatches: 6, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
45 75 1.00
ACGTcount: A:0.21, C:0.20, G:0.23, T:0.37
Consensus pattern (45 bp):
GTAGCTTGTCTGCGAATATTGGTGGCTTTGTCCACAACCTACATA
Found at i:39151659 original size:19 final size:19
Alignment explanation
Indices: 39151635--39151671 Score: 74
Period size: 19 Copynumber: 1.9 Consensus size: 19
39151625 ATCTTATGCA
39151635 TTTAAATCATACATAAGCG
1 TTTAAATCATACATAAGCG
39151654 TTTAAATCATACATAAGC
1 TTTAAATCATACATAAGC
39151672 TTAATATCTC
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
19 18 1.00
ACGTcount: A:0.43, C:0.16, G:0.08, T:0.32
Consensus pattern (19 bp):
TTTAAATCATACATAAGCG
Found at i:39154206 original size:109 final size:107
Alignment explanation
Indices: 39153997--39154378 Score: 462
Period size: 109 Copynumber: 3.5 Consensus size: 107
39153987 ACTTTGAAGA
* * * * * *
39153997 GCTCACGATGCTCCTCATACAAGCTATAGAGAATTCGAAATAGATGCATGATCTCAAGCCATCAT
1 GCTCACGATGCTGCTCACACAAGCTGTAGAGAA-TCCAAACAGATGCAGGATCTC-AGCCAT-AT
* * * *
39154062 -TACGGTCTATATCACCGATACATAGTACTTGCTAAATAATCACCG
63 CTACGGTCTGTATCACAG-CACATAGTACCTGCTAAATAATCACCG
* * *
39154107 GCTCACGATTCTGCTCACACAAGCTGTAGAGAATCCATAACAAATGCAGGATCTCAGCCATTTCT
1 GCTCACGATGCTGCTCACACAAGCTGTAGAGAATCCA-AACAGATGCAGGATCTCAGCCATATCT
**
39154172 ACGGTCTGTATCACTAGCACATAGTACCTGCTAAATAATCATTG
65 ACGGTCTGTATCAC-AGCACATAGTACCTGCTAAATAATCACCG
* **
39154216 GCTCACGATGTTGCTCACACAAGCTGTAGAGAATCTGC-AACAGATGCAGGATCTCAGCCATCGC
1 GCTCACGATGCTGCTCACACAAGCTGTAGAGAATC--CAAACAGATGCAGGATCTCAGCCATATC
* *
39154280 TACGGTCTGTATCACCGGCACGTAGTACCTGCTAAATAATCACCG
64 TACGGTCTGTATCA-CAGCACATAGTACCTGCTAAATAATCACCG
* *
39154325 GATCACGATGCTGCTCACACAGGCTGTAGAGAATCCAAAACAGATGCAGGATCT
1 GCTCACGATGCTGCTCACACAAGCTGTAGAGAATCC-AAACAGATGCAGGATCT
39154379 ATTAAAGCCT
Statistics
Matches: 237, Mismatches: 27, Indels: 17
0.84 0.10 0.06
Matches are distributed among these distances:
107 1 0.00
108 1 0.00
109 189 0.80
110 45 0.19
111 1 0.00
ACGTcount: A:0.31, C:0.26, G:0.19, T:0.24
Consensus pattern (107 bp):
GCTCACGATGCTGCTCACACAAGCTGTAGAGAATCCAAACAGATGCAGGATCTCAGCCATATCTA
CGGTCTGTATCACAGCACATAGTACCTGCTAAATAATCACCG
Found at i:39157385 original size:22 final size:20
Alignment explanation
Indices: 39157359--39157421 Score: 65
Period size: 20 Copynumber: 3.0 Consensus size: 20
39157349 CCGAAACGTT
**
39157359 AACAGAGGCATCGTAGTGCAA
1 AACAGAGGCATCAAAGTGC-A
39157380 ATACAGCA-GCATCAAAGTGCA
1 A-ACAG-AGGCATCAAAGTGCA
*
39157401 AACAGAGGCACCAAAGTGCA
1 AACAGAGGCATCAAAGTGCA
39157421 A
1 A
39157422 TCTTGTACAA
Statistics
Matches: 36, Mismatches: 3, Indels: 7
0.78 0.07 0.15
Matches are distributed among these distances:
19 1 0.03
20 17 0.47
21 3 0.08
22 14 0.39
23 1 0.03
ACGTcount: A:0.43, C:0.22, G:0.24, T:0.11
Consensus pattern (20 bp):
AACAGAGGCATCAAAGTGCA
Found at i:39161065 original size:46 final size:49
Alignment explanation
Indices: 39160922--39161281 Score: 272
Period size: 46 Copynumber: 7.6 Consensus size: 49
39160912 ATTGTATGCC
* * * *
39160922 AGTGTAAGA-CATGTCTGGGACAT-GTATCAGCCAC-ATTATG-AGAGCC
1 AGTGTAAGACCATGTCTGGGACATGGCATCAGCCTCGA-GATGTAGAGCT
* * * * *
39160968 AGTGTAAGACCATGTCTGAGACATGGCATCGGCATTGAGACG-AGAGCT
1 AGTGTAAGACCATGTCTGGGACATGGCATCAGCCTCGAGATGTAGAGCT
39161016 AGTGTAAGA-CATGTCTGGGACAT-GCATCAGCCTCGAGATGTA-AGCT
1 AGTGTAAGACCATGTCTGGGACATGGCATCAGCCTCGAGATGTAGAGCT
** *
39161062 AGTGTAAGA-CATGTCTGGGACAT-GCATC-GGTTACGAGATGT-G-TC-
1 AGTGTAAGACCATGTCTGGGACATGGCATCAGCCT-CGAGATGTAGAGCT
* * * ** * *
39161106 AGTGTAAGACCATGTCTAGGACATGGCATCGGTACGTATAGAGGT-G-TC-
1 AGTGTAAGACCATGTCTGGGACATGGCATCAG--CCTCGAGATGTAGAGCT
** * *
39161154 AGTGTAAGACCATGTCTGGGACATGGCATTGGCAC-AGATATGTGAGAGCT
1 AGTGTAAGACCATGTCTGGGACATGGCATCAGC-CTCGAGATGT-AGAGCT
* * * * *
39161204 AGTGTAAGACCATGTCTGGTACATGGCATCAGCCTCGA-TTTTGATAGTT
1 AGTGTAAGACCATGTCTGGGACATGGCATCAGCCTCGAGATGT-AGAGCT
39161253 AGTGTAAGACCATGTCTGGGACATGGCAT
1 AGTGTAAGACCATGTCTGGGACATGGCAT
39161282 TAACTTGATG
Statistics
Matches: 258, Mismatches: 39, Indels: 31
0.79 0.12 0.09
Matches are distributed among these distances:
44 9 0.03
45 16 0.06
46 73 0.28
47 28 0.11
48 61 0.24
49 39 0.15
50 32 0.12
ACGTcount: A:0.28, C:0.18, G:0.29, T:0.25
Consensus pattern (49 bp):
AGTGTAAGACCATGTCTGGGACATGGCATCAGCCTCGAGATGTAGAGCT
Found at i:39161438 original size:30 final size:30
Alignment explanation
Indices: 39161402--39161459 Score: 116
Period size: 30 Copynumber: 1.9 Consensus size: 30
39161392 TGAGAGTTAC
39161402 AGTTTGAGTTAAACAAGAAAAGTATAGCAT
1 AGTTTGAGTTAAACAAGAAAAGTATAGCAT
39161432 AGTTTGAGTTAAACAAGAAAAGTATAGC
1 AGTTTGAGTTAAACAAGAAAAGTATAGC
39161460 CATGTTGTGA
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
30 28 1.00
ACGTcount: A:0.47, C:0.07, G:0.21, T:0.26
Consensus pattern (30 bp):
AGTTTGAGTTAAACAAGAAAAGTATAGCAT
Found at i:39161479 original size:31 final size:30
Alignment explanation
Indices: 39161402--39161472 Score: 99
Period size: 30 Copynumber: 2.3 Consensus size: 30
39161392 TGAGAGTTAC
*
39161402 AGTTTGAGTTAAACAAGAAAAGTATAGCAT
1 AGTTTGAGTGAAACAAGAAAAGTATAGCAT
*
39161432 AGTTTGAGTTAAACAAGAAAAGTATAGCCAT
1 AGTTTGAGTGAAACAAGAAAAGTATAG-CAT
39161463 -GTTGTGAGTG
1 AGTT-TGAGTG
39161473 GTACAAGTAC
Statistics
Matches: 38, Mismatches: 1, Indels: 3
0.90 0.02 0.07
Matches are distributed among these distances:
30 30 0.79
31 8 0.21
ACGTcount: A:0.41, C:0.07, G:0.24, T:0.28
Consensus pattern (30 bp):
AGTTTGAGTGAAACAAGAAAAGTATAGCAT
Found at i:39162571 original size:20 final size:21
Alignment explanation
Indices: 39162532--39162571 Score: 55
Period size: 21 Copynumber: 2.0 Consensus size: 21
39162522 GTTATAATGA
*
39162532 CCACACGGGCGTGTTGCCCTT
1 CCACACGGGCATGTTGCCCTT
*
39162553 CCACACGGGTATG-TGCCCT
1 CCACACGGGCATGTTGCCCT
39162572 ATCTCAAGAG
Statistics
Matches: 17, Mismatches: 2, Indels: 1
0.85 0.10 0.05
Matches are distributed among these distances:
20 6 0.35
21 11 0.65
ACGTcount: A:0.12, C:0.38, G:0.28, T:0.23
Consensus pattern (21 bp):
CCACACGGGCATGTTGCCCTT
Found at i:39168845 original size:48 final size:48
Alignment explanation
Indices: 39168740--39169057 Score: 217
Period size: 47 Copynumber: 6.8 Consensus size: 48
39168730 TTAATTGTGT
* *
39168740 GCCAGTGTAAGA-CATGTTTGGGACAT-GCATCAGCCACATT---ATGATA
1 GCCAGTGTAAGACCATGTCTGGGACATGGCATC-G--ACATTGAGATGAGA
39168786 GCCAGTGTAAGACCATGTCTGGGACATGGCATCGACATTGAGATGAGA
1 GCCAGTGTAAGACCATGTCTGGGACATGGCATCGACATTGAGATGAGA
* * * *
39168834 GCTAGTGTAAGA-CATGTCTGGGACAT-GCATCGGCCTCGAGATGTA-A
1 GCCAGTGTAAGACCATGTCTGGGACATGGCATCGACATTGAGATG-AGA
* * * * * *
39168880 ACCAGTATAAGA-CTTGTCTGAGACAT-GCATC-A-GTT-ACGA-GATGT
1 GCCAGTGTAAGACCATGTCTGGGACATGGCATCGACATTGA-GATGA-GA
* * * *
39168924 GTCAGTTTAAGACCATGTCTGGGACATGGCATCGGCACGTAT-AGA-G-GT
1 GCCAGTGTAAGACCATGTCTGGGACATGGCATC-G-ACAT-TGAGATGAGA
*
39168972 GTCAGTGTAAGACCATGTCTGGGACATGGCATCGAC-TTGATGGATGAG-
1 GCCAGTGTAAGACCATGTCTGGGACATGGCATCGACATTGA--GATGAGA
* * *
39169020 CCCA-TGAAAGACCATGTCTGGGACATGGCATCAACATT
1 GCCAGTGTAAGACCATGTCTGGGACATGGCATCGACATT
39169058 ATACCTTACA
Statistics
Matches: 225, Mismatches: 25, Indels: 42
0.77 0.09 0.14
Matches are distributed among these distances:
42 1 0.00
43 2 0.01
44 13 0.06
45 19 0.08
46 60 0.27
47 61 0.27
48 60 0.27
49 2 0.01
50 5 0.02
51 2 0.01
ACGTcount: A:0.28, C:0.19, G:0.28, T:0.24
Consensus pattern (48 bp):
GCCAGTGTAAGACCATGTCTGGGACATGGCATCGACATTGAGATGAGA
Found at i:39168891 original size:46 final size:46
Alignment explanation
Indices: 39168740--39169005 Score: 186
Period size: 46 Copynumber: 5.7 Consensus size: 46
39168730 TTAATTGTGT
* * * * *
39168740 GCCAGTGTAAGACATGTTTGGGACATGCATCAGCCAC-ATTATGATA
1 GCCAGTGTAAGACATGTCTGGGACATGCATCGGCCTCGA-GATGAGA
* * *
39168786 GCCAGTGTAAGACCATGTCTGGGACATGGCATCGACATTGAGATGAGA
1 GCCAGTGTAAGA-CATGTCTGGGACAT-GCATCGGCCTCGAGATGAGA
*
39168834 GCTAGTGTAAGACATGTCTGGGACATGCATCGGCCTCGAGATGTA-A
1 GCCAGTGTAAGACATGTCTGGGACATGCATCGGCCTCGAGATG-AGA
* * * * * * *
39168880 ACCAGTATAAGACTTGTCTGAGACATGCATCAG-TTACGAGAT--GT
1 GCCAGTGTAAGACATGTCTGGGACATGCATCGGCCT-CGAGATGAGA
* * * * *
39168924 GTCAGTTTAAGACCATGTCTGGGACATGGCATCGG-CACG-TATAGAGGT
1 GCCAGTGTAAGA-CATGTCTGGGACAT-GCATCGGCCTCGAGAT-GA-GA
*
39168972 GTCAGTGTAAGACCATGTCTGGGACATGGCATCG
1 GCCAGTGTAAGA-CATGTCTGGGACAT-GCATCG
39169006 ACTTGATGGA
Statistics
Matches: 178, Mismatches: 30, Indels: 22
0.77 0.13 0.10
Matches are distributed among these distances:
44 11 0.06
45 15 0.08
46 66 0.37
47 28 0.16
48 57 0.32
49 1 0.01
ACGTcount: A:0.28, C:0.19, G:0.29, T:0.24
Consensus pattern (46 bp):
GCCAGTGTAAGACATGTCTGGGACATGCATCGGCCTCGAGATGAGA
Found at i:39170247 original size:20 final size:21
Alignment explanation
Indices: 39170208--39170247 Score: 73
Period size: 21 Copynumber: 2.0 Consensus size: 21
39170198 GTTATAATGA
39170208 CCACACGGGCGTGTTGCCCTT
1 CCACACGGGCGTGTTGCCCTT
39170229 CCACACGGGCGTG-TGCCCT
1 CCACACGGGCGTGTTGCCCT
39170248 GTCTCAAGAG
Statistics
Matches: 19, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
20 6 0.32
21 13 0.68
ACGTcount: A:0.10, C:0.40, G:0.30, T:0.20
Consensus pattern (21 bp):
CCACACGGGCGTGTTGCCCTT
Found at i:39171431 original size:19 final size:18
Alignment explanation
Indices: 39171409--39171450 Score: 50
Period size: 18 Copynumber: 2.3 Consensus size: 18
39171399 TATGATTGAA
39171409 AAATAAAATTAAGG-AAATT
1 AAATAAAATT--GGTAAATT
*
39171428 AAATCAAATTGGTAAATT
1 AAATAAAATTGGTAAATT
39171446 AAATA
1 AAATA
39171451 TATTAATGCT
Statistics
Matches: 20, Mismatches: 2, Indels: 3
0.80 0.08 0.12
Matches are distributed among these distances:
17 2 0.10
18 9 0.45
19 9 0.45
ACGTcount: A:0.60, C:0.02, G:0.10, T:0.29
Consensus pattern (18 bp):
AAATAAAATTGGTAAATT
Found at i:39174428 original size:46 final size:44
Alignment explanation
Indices: 39174327--39174447 Score: 145
Period size: 46 Copynumber: 2.7 Consensus size: 44
39174317 GGTAAGGTGT
*
39174327 CGATGCCATGTCCCAGACATGTTCTTACACTGACACATCTCGTAGC
1 CGATG-CATGTCCCAGACATG-TCTTACACTGACACATCTCGTAGA
* * * *
39174373 CAATGCATGTCCTAGACATGTCTTACATTGACTGACATCTTG-AGGA
1 CGATGCATGTCCCAGACATGTCTTACACTGAC--ACATCTCGTA-GA
39174419 CGATGCATGTCCCAGACATGTCTTACACT
1 CGATGCATGTCCCAGACATGTCTTACACT
39174448 AGCACTCGTC
Statistics
Matches: 64, Mismatches: 8, Indels: 6
0.82 0.10 0.08
Matches are distributed among these distances:
44 11 0.17
45 15 0.23
46 38 0.59
ACGTcount: A:0.26, C:0.28, G:0.18, T:0.28
Consensus pattern (44 bp):
CGATGCATGTCCCAGACATGTCTTACACTGACACATCTCGTAGA
Found at i:39181336 original size:23 final size:22
Alignment explanation
Indices: 39181284--39181336 Score: 56
Period size: 23 Copynumber: 2.4 Consensus size: 22
39181274 TCCACGTCTT
*
39181284 TTTCTTTTGTTTCTTTTTCTAA
1 TTTCTTTTCTTTCTTTTTCTAA
39181306 -TTCATTTTCTCTTCTTTCTTC-AA
1 TTTC-TTTTCT-TTCTTT-TTCTAA
39181329 TTTCTTTT
1 TTTCTTTT
39181337 TCACTCTCAA
Statistics
Matches: 26, Mismatches: 1, Indels: 7
0.76 0.03 0.21
Matches are distributed among these distances:
21 3 0.12
22 5 0.19
23 12 0.46
24 6 0.23
ACGTcount: A:0.09, C:0.19, G:0.02, T:0.70
Consensus pattern (22 bp):
TTTCTTTTCTTTCTTTTTCTAA
Found at i:39188817 original size:27 final size:27
Alignment explanation
Indices: 39188777--39188935 Score: 184
Period size: 27 Copynumber: 5.9 Consensus size: 27
39188767 AGGAAGCGTC
*
39188777 CTGGTGGCTATGCCACAATTATCTGAT
1 CTGGTGGCTCTGCCACAATTATCTGAT
39188804 CTGGTGGCTCTGCCAC-ATATATCTG-T
1 CTGGTGGCTCTGCCACAAT-TATCTGAT
*
39188830 CCTGGTGGCTATGCCACAATTATCTGAT
1 -CTGGTGGCTCTGCCACAATTATCTGAT
* *
39188858 CTGGTGGCTTTGCCAC-ATATATCTGTT
1 CTGGTGGCTCTGCCACAAT-TATCTGAT
39188885 CTGGTGGCTCTGCCACAA-TATCTGTAT
1 CTGGTGGCTCTGCCACAATTATCTG-AT
* * *
39188912 CTGGTGACTCCGTCACAA-TATCTG
1 CTGGTGGCTCTGCCACAATTATCTG
39188936 GCAGCCTCGC
Statistics
Matches: 116, Mismatches: 9, Indels: 14
0.83 0.06 0.10
Matches are distributed among these distances:
26 11 0.09
27 101 0.87
28 4 0.03
ACGTcount: A:0.19, C:0.25, G:0.22, T:0.34
Consensus pattern (27 bp):
CTGGTGGCTCTGCCACAATTATCTGAT
Found at i:39188856 original size:54 final size:54
Alignment explanation
Indices: 39188774--39188935 Score: 247
Period size: 54 Copynumber: 3.0 Consensus size: 54
39188764 TGGAGGAAGC
39188774 GTCCTGGTGGCTATGCCACAATTATCTGATCTGGTGGCTCTGCCACATATATCT
1 GTCCTGGTGGCTATGCCACAATTATCTGATCTGGTGGCTCTGCCACATATATCT
*
39188828 GTCCTGGTGGCTATGCCACAATTATCTGATCTGGTGGCTTTGCCACATATATCT
1 GTCCTGGTGGCTATGCCACAATTATCTGATCTGGTGGCTCTGCCACATATATCT
* * * * *
39188882 GTTCTGGTGGCTCTGCCACAA-TATCTGTATCTGGTGACTCCGTCACA-ATATCT
1 GTCCTGGTGGCTATGCCACAATTATCTG-ATCTGGTGGCTCTGCCACATATATCT
39188935 G
1 G
39188936 GCAGCCTCGC
Statistics
Matches: 100, Mismatches: 7, Indels: 3
0.91 0.06 0.03
Matches are distributed among these distances:
53 13 0.13
54 87 0.87
ACGTcount: A:0.19, C:0.25, G:0.22, T:0.34
Consensus pattern (54 bp):
GTCCTGGTGGCTATGCCACAATTATCTGATCTGGTGGCTCTGCCACATATATCT
Found at i:39188929 original size:81 final size:80
Alignment explanation
Indices: 39188777--39188935 Score: 214
Period size: 81 Copynumber: 2.0 Consensus size: 80
39188767 AGGAAGCGTC
* *
39188777 CTGGTGGCTATGCCACAATTATCTGATCTGGTGGCTCTGCCACATATATCTGTCCTGGTGGCTAT
1 CTGGTGGCTATGCCACAATTATCTGATCTGGTGGCTCTGCCACATATATCTGTCCTGGTGACTAC
39188842 GCCACAATTATCTGAT
66 GCCACAA-TATCTGAT
* * *
39188858 CTGGTGGCTTTGCCAC-ATATATCTGTTCTGGTGGCTCTGCCACA-ATATCTGTATCTGGTGACT
1 CTGGTGGCTATGCCACAAT-TATCTGATCTGGTGGCTCTGCCACATATATCTGT-CCTGGTGACT
* *
39188921 CCGTCACAATATCTG
64 ACGCCACAATATCTG
39188936 GCAGCCTCGC
Statistics
Matches: 69, Mismatches: 7, Indels: 5
0.85 0.09 0.06
Matches are distributed among these distances:
80 16 0.23
81 53 0.77
ACGTcount: A:0.19, C:0.25, G:0.22, T:0.34
Consensus pattern (80 bp):
CTGGTGGCTATGCCACAATTATCTGATCTGGTGGCTCTGCCACATATATCTGTCCTGGTGACTAC
GCCACAATATCTGAT
Found at i:39189898 original size:17 final size:16
Alignment explanation
Indices: 39189867--39189897 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
39189857 TGAGTTTACA
*
39189867 AAAAACAAAGATTTTC
1 AAAAACAAAAATTTTC
39189883 AAAAACAAAAATTTT
1 AAAAACAAAAATTTT
39189898 TTTGCGAAAA
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
16 14 1.00
ACGTcount: A:0.61, C:0.10, G:0.03, T:0.26
Consensus pattern (16 bp):
AAAAACAAAAATTTTC
Found at i:39195773 original size:27 final size:27
Alignment explanation
Indices: 39195733--39195891 Score: 193
Period size: 27 Copynumber: 5.9 Consensus size: 27
39195723 AGGAAGCGTC
*
39195733 CTGGTGGCTATGCCACAATTATCTGAT
1 CTGGTGGCTCTGCCACAATTATCTGAT
39195760 CTGGTGGCTCTGCCAC-ATATATCTG-T
1 CTGGTGGCTCTGCCACAAT-TATCTGAT
*
39195786 CCTGGTGGCTATGCCACAATTATCTGAT
1 -CTGGTGGCTCTGCCACAATTATCTGAT
*
39195814 CTGGTGGCTCTGCCAC-ATATATCTGTT
1 CTGGTGGCTCTGCCACAAT-TATCTGAT
39195841 CTGGTGGCTCTGCCACAA-TATCTGTAT
1 CTGGTGGCTCTGCCACAATTATCTG-AT
* * *
39195868 CTGGTGACTCCGTCACAA-TATCTG
1 CTGGTGGCTCTGCCACAATTATCTG
39195892 GCAGCCTCGC
Statistics
Matches: 117, Mismatches: 8, Indels: 14
0.84 0.06 0.10
Matches are distributed among these distances:
26 11 0.09
27 102 0.87
28 4 0.03
ACGTcount: A:0.19, C:0.26, G:0.22, T:0.33
Consensus pattern (27 bp):
CTGGTGGCTCTGCCACAATTATCTGAT
Found at i:39195812 original size:54 final size:54
Alignment explanation
Indices: 39195730--39195891 Score: 256
Period size: 54 Copynumber: 3.0 Consensus size: 54
39195720 TGGAGGAAGC
39195730 GTCCTGGTGGCTATGCCACAATTATCTGATCTGGTGGCTCTGCCACATATATCT
1 GTCCTGGTGGCTATGCCACAATTATCTGATCTGGTGGCTCTGCCACATATATCT
39195784 GTCCTGGTGGCTATGCCACAATTATCTGATCTGGTGGCTCTGCCACATATATCT
1 GTCCTGGTGGCTATGCCACAATTATCTGATCTGGTGGCTCTGCCACATATATCT
* * * * *
39195838 GTTCTGGTGGCTCTGCCACAA-TATCTGTATCTGGTGACTCCGTCACA-ATATCT
1 GTCCTGGTGGCTATGCCACAATTATCTG-ATCTGGTGGCTCTGCCACATATATCT
39195891 G
1 G
39195892 GCAGCCTCGC
Statistics
Matches: 102, Mismatches: 5, Indels: 3
0.93 0.05 0.03
Matches are distributed among these distances:
53 13 0.13
54 89 0.87
ACGTcount: A:0.19, C:0.26, G:0.22, T:0.33
Consensus pattern (54 bp):
GTCCTGGTGGCTATGCCACAATTATCTGATCTGGTGGCTCTGCCACATATATCT
Found at i:39195885 original size:81 final size:80
Alignment explanation
Indices: 39195733--39195891 Score: 214
Period size: 81 Copynumber: 2.0 Consensus size: 80
39195723 AGGAAGCGTC
* *
39195733 CTGGTGGCTATGCCACAATTATCTGATCTGGTGGCTCTGCCACATATATCTGTCCTGGTGGCTAT
1 CTGGTGGCTATGCCACAATTATCTGATCTGGTGGCTCTGCCACATATATCTGTCCTGGTGACTAC
39195798 GCCACAATTATCTGAT
66 GCCACAA-TATCTGAT
* * *
39195814 CTGGTGGCTCTGCCAC-ATATATCTGTTCTGGTGGCTCTGCCACA-ATATCTGTATCTGGTGACT
1 CTGGTGGCTATGCCACAAT-TATCTGATCTGGTGGCTCTGCCACATATATCTGT-CCTGGTGACT
* *
39195877 CCGTCACAATATCTG
64 ACGCCACAATATCTG
39195892 GCAGCCTCGC
Statistics
Matches: 69, Mismatches: 7, Indels: 5
0.85 0.09 0.06
Matches are distributed among these distances:
80 16 0.23
81 53 0.77
ACGTcount: A:0.19, C:0.26, G:0.22, T:0.33
Consensus pattern (80 bp):
CTGGTGGCTATGCCACAATTATCTGATCTGGTGGCTCTGCCACATATATCTGTCCTGGTGACTAC
GCCACAATATCTGAT
Found at i:39214289 original size:23 final size:22
Alignment explanation
Indices: 39214257--39214391 Score: 69
Period size: 23 Copynumber: 5.9 Consensus size: 22
39214247 CTCAAGGGTG
*
39214257 TTATAAAATATGCCACACAAGTA
1 TTATAGAATATGCCACA-AAGTA
* * *
39214280 TTATAGAATACGCCACATGAGCA
1 TTATAGAATATGCCACA-AAGTA
* *
39214303 TCATAGAATATGACACAAAGCCT-
1 TTATAGAATATGCCACAAAG--TA
* *
39214326 TTACAGAACATGCCACAAAG-A
1 TTATAGAATATGCCACAAAGTA
* *
39214347 CTTTACAGAATATGCCGCACAAGCT-
1 --TTATAGAATATGCCACA-AAG-TA
* *
39214372 TTATTGAATACGCCACAAAG
1 TTATAGAATATGCCACAAAG
39214392 GCTTTACAGA
Statistics
Matches: 84, Mismatches: 20, Indels: 17
0.69 0.17 0.14
Matches are distributed among these distances:
22 5 0.06
23 76 0.90
24 3 0.04
ACGTcount: A:0.41, C:0.22, G:0.14, T:0.22
Consensus pattern (22 bp):
TTATAGAATATGCCACAAAGTA
Found at i:39214357 original size:46 final size:46
Alignment explanation
Indices: 39214307--39214402 Score: 113
Period size: 46 Copynumber: 2.1 Consensus size: 46
39214297 TGAGCATCAT
*
39214307 AGAATATGACACA-AAGCCTTTACAGAACATGCCACAAAGACTTTAC
1 AGAATATGACACACAAG-CTTTACAGAACACGCCACAAAGACTTTAC
* * ** * *
39214353 AGAATATGCCGCACAAGCTTTATTGAATACGCCACAAAGGCTTTAC
1 AGAATATGACACACAAGCTTTACAGAACACGCCACAAAGACTTTAC
39214399 AGAA
1 AGAA
39214403 CATTACATGT
Statistics
Matches: 42, Mismatches: 7, Indels: 2
0.82 0.14 0.04
Matches are distributed among these distances:
46 39 0.93
47 3 0.07
ACGTcount: A:0.41, C:0.23, G:0.16, T:0.21
Consensus pattern (46 bp):
AGAATATGACACACAAGCTTTACAGAACACGCCACAAAGACTTTAC
Found at i:39214395 original size:23 final size:23
Alignment explanation
Indices: 39214307--39214402 Score: 86
Period size: 23 Copynumber: 4.2 Consensus size: 23
39214297 TGAGCATCAT
* * *
39214307 AGAATATGACACAAAGCCTTTAC
1 AGAATACGCCACAAAGGCTTTAC
* * *
39214330 AGAACATGCCACAAAGACTTTAC
1 AGAATACGCCACAAAGGCTTTAC
* * *
39214353 AGAATATGCCGCACAA-GCTTTAT
1 AGAATACGCCACA-AAGGCTTTAC
*
39214376 TGAATACGCCACAAAGGCTTTAC
1 AGAATACGCCACAAAGGCTTTAC
39214399 AGAA
1 AGAA
39214403 CATTACATGT
Statistics
Matches: 59, Mismatches: 12, Indels: 4
0.79 0.16 0.05
Matches are distributed among these distances:
22 2 0.03
23 55 0.93
24 2 0.03
ACGTcount: A:0.41, C:0.23, G:0.16, T:0.21
Consensus pattern (23 bp):
AGAATACGCCACAAAGGCTTTAC
Found at i:39217033 original size:46 final size:46
Alignment explanation
Indices: 39216981--39217151 Score: 179
Period size: 46 Copynumber: 3.7 Consensus size: 46
39216971 TGTGTAAGCT
*
39216981 AGTGTAAGACATGTCTGGGACATGTATCAGCCACATTATGAGAGCC
1 AGTGTAAGACATGTCTGGGACATGCATCAGCCACATTATGAGAGCC
* *
39217027 AGTGTAAGACCATGTCTGGGACATGGCATC-G--ACATTGAGATGAGTGCT
1 AGTGTAAGA-CATGTCTGGGACAT-GCATCAGCCACATT---ATGAGAGCC
* ***
39217075 AGTGTAAGACATGTCTGGGACATGCATCAGCCTCGGGATGTA-AGCC
1 AGTGTAAGACATGTCTGGGACATGCATCAGCCACATTATG-AGAGCC
* *
39217121 AGTATAAGACATGTCTAGGACATGCATCAGC
1 AGTGTAAGACATGTCTGGGACATGCATCAGC
39217152 TACGAGATGT
Statistics
Matches: 105, Mismatches: 11, Indels: 18
0.78 0.08 0.13
Matches are distributed among these distances:
45 5 0.05
46 48 0.46
47 31 0.30
48 20 0.19
49 1 0.01
ACGTcount: A:0.29, C:0.19, G:0.28, T:0.23
Consensus pattern (46 bp):
AGTGTAAGACATGTCTGGGACATGCATCAGCCACATTATGAGAGCC
Found at i:39233605 original size:29 final size:29
Alignment explanation
Indices: 39233533--39233591 Score: 118
Period size: 29 Copynumber: 2.0 Consensus size: 29
39233523 CCAAGAAAAG
39233533 TACTTTAAGAAAAATCATCAATTAAACAA
1 TACTTTAAGAAAAATCATCAATTAAACAA
39233562 TACTTTAAGAAAAATCATCAATTAAACAA
1 TACTTTAAGAAAAATCATCAATTAAACAA
39233591 T
1 T
39233592 CTTAGAGCTT
Statistics
Matches: 30, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
29 30 1.00
ACGTcount: A:0.54, C:0.14, G:0.03, T:0.29
Consensus pattern (29 bp):
TACTTTAAGAAAAATCATCAATTAAACAA
Found at i:39239267 original size:47 final size:47
Alignment explanation
Indices: 39239186--39239394 Score: 137
Period size: 47 Copynumber: 4.5 Consensus size: 47
39239176 GCTGATGCTG
* * *
39239186 TGTCCCAGACATGGTCTTACTCTGGCTCATATCTC-AAGTCAAAGCCA
1 TGTCCCAGACATGGTCTTACACTGACTCATATCTCGAAGCCAAAG-CA
* * * *
39239233 TGTCCCAAACATGGTCTTACACTGACT-ATCATCTCGTAGCCGACGCA
1 TGTCCCAGACATGGTCTTACACTGACTCAT-ATCTCGAAGCCAAAGCA
* * ** * * *
39239280 TGTCCCAGACAT-GTCTTACACTGGCTTACGTCTCG-AGGCGATGCA
1 TGTCCCAGACATGGTCTTACACTGACTCATATCTCGAAGCCAAAGCA
* * * *
39239325 TGTCCCAGATAT-GTCTTACACTTGCACTCGTA--TC-AATGCCGATGCCA
1 TGTCCCAGACATGGTCTTACAC-TG-ACTCATATCTCGAA-GCCAAAG-CA
*
39239372 TGTCCCAAACATGGTCTTACACT
1 TGTCCCAGACATGGTCTTACACT
39239395 AGCTCACACA
Statistics
Matches: 131, Mismatches: 22, Indels: 18
0.77 0.13 0.11
Matches are distributed among these distances:
45 31 0.24
46 28 0.21
47 58 0.44
48 14 0.11
ACGTcount: A:0.24, C:0.30, G:0.18, T:0.28
Consensus pattern (47 bp):
TGTCCCAGACATGGTCTTACACTGACTCATATCTCGAAGCCAAAGCA
Found at i:39239314 original size:46 final size:45
Alignment explanation
Indices: 39239186--39239346 Score: 146
Period size: 47 Copynumber: 3.5 Consensus size: 45
39239176 GCTGATGCTG
* * * * * *
39239186 TGTCCCAGACATGGTCTTACTCTGGCTCAT-ATCTCAAGTCAAAGCCA
1 TGTCCCAGACAT-GTCTTACACTGACT-ATCATCTCGAGCCGACG-CA
*
39239233 TGTCCCAAACATGGTCTTACACTGACTATCATCTCGTAGCCGACGCA
1 TGTCCCAGACAT-GTCTTACACTGACTATCATCTCG-AGCCGACGCA
* * * *
39239280 TGTCCCAGACATGTCTTACACTGGCT-TACGTCTCGAGGCGATGCA
1 TGTCCCAGACATGTCTTACACTGACTAT-CATCTCGAGCCGACGCA
*
39239325 TGTCCCAGATATGTCTTACACT
1 TGTCCCAGACATGTCTTACACT
39239347 TGCACTCGTA
Statistics
Matches: 98, Mismatches: 13, Indels: 8
0.82 0.11 0.07
Matches are distributed among these distances:
45 30 0.31
46 21 0.21
47 42 0.43
48 5 0.05
ACGTcount: A:0.24, C:0.30, G:0.19, T:0.28
Consensus pattern (45 bp):
TGTCCCAGACATGTCTTACACTGACTATCATCTCGAGCCGACGCA
Found at i:39239339 original size:45 final size:46
Alignment explanation
Indices: 39239231--39239346 Score: 146
Period size: 45 Copynumber: 2.5 Consensus size: 46
39239221 AAGTCAAAGC
*
39239231 CATGTCCCAAACATGGTCTTACACTGACTATCATCTCGTAGCCGACG
1 CATGTCCCAGACAT-GTCTTACACTGACTATCATCTCGTAGCCGACG
* * * *
39239278 CATGTCCCAGACATGTCTTACACTGGCT-TACGTCTCG-AGGCGATG
1 CATGTCCCAGACATGTCTTACACTGACTAT-CATCTCGTAGCCGACG
*
39239323 CATGTCCCAGATATGTCTTACACT
1 CATGTCCCAGACATGTCTTACACT
39239347 TGCACTCGTA
Statistics
Matches: 62, Mismatches: 6, Indels: 4
0.86 0.08 0.06
Matches are distributed among these distances:
45 30 0.48
46 19 0.31
47 13 0.21
ACGTcount: A:0.23, C:0.30, G:0.19, T:0.28
Consensus pattern (46 bp):
CATGTCCCAGACATGTCTTACACTGACTATCATCTCGTAGCCGACG
Found at i:39240725 original size:45 final size:45
Alignment explanation
Indices: 39240676--39240786 Score: 159
Period size: 45 Copynumber: 2.5 Consensus size: 45
39240666 CCCAAACATG
* * * * * * *
39240676 GTCTTACATGTAACCACATATATCGATGCTAACGTCCCAGACACA
1 GTCTTACACGAAAACACATATACCAATGCCAACATCCCAGACACA
39240721 GTCTTACACGAAAACACATATACCAATGCCAACATCCCAGACACA
1 GTCTTACACGAAAACACATATACCAATGCCAACATCCCAGACACA
39240766 GTCTTACACGAAAACACATAT
1 GTCTTACACGAAAACACATAT
39240787 CGGAATCCTA
Statistics
Matches: 59, Mismatches: 7, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
45 59 1.00
ACGTcount: A:0.39, C:0.30, G:0.11, T:0.21
Consensus pattern (45 bp):
GTCTTACACGAAAACACATATACCAATGCCAACATCCCAGACACA
Found at i:39242450 original size:55 final size:53
Alignment explanation
Indices: 39242308--39242497 Score: 173
Period size: 55 Copynumber: 3.5 Consensus size: 53
39242298 TTACCATTTT
* *
39242308 CATGTCTTGACATGGTCTTACGTGGTATCCTTGCCTTATGAACTCACCATTGC
1 CATGTCTTGACATGGTCTTACATGGTATCCTTGCCTTATGAACTCACCAATGC
* * * * ** * *
39242361 CATGCCTTGGCATGGTCTTACATGGGATCTTTGCCTTATAGTAGTTTATCAATGC
1 CATGTCTTGACATGGTCTTACATGGTATCCTTGCCTTAT-G-AACTCACCAATGC
* * * * * * * *
39242416 CATGTCTTGACATGGTCTTAAATGATTTCCTTGCCTTGTAAAACTTACCAAAGT
1 CATGTCTTGACATGGTCTTACATGGTATCCTTGCCTTAT-GAACTCACCAATGC
* *
39242470 CATGTCTTGGCATGGTCTTACTTGGTAT
1 CATGTCTTGACATGGTCTTACATGGTAT
39242498 TCTTAAACCC
Statistics
Matches: 106, Mismatches: 29, Indels: 3
0.77 0.21 0.02
Matches are distributed among these distances:
53 34 0.32
54 32 0.30
55 40 0.38
ACGTcount: A:0.21, C:0.22, G:0.19, T:0.38
Consensus pattern (53 bp):
CATGTCTTGACATGGTCTTACATGGTATCCTTGCCTTATGAACTCACCAATGC
Found at i:39252158 original size:50 final size:50
Alignment explanation
Indices: 39252034--39252282 Score: 284
Period size: 50 Copynumber: 4.8 Consensus size: 50
39252024 GATAATAACA
* * ** * *
39252034 TGCCAAAGCCATGTCCCAGACATGGTCTTACATGGGATGTTCTCGTGAT-GG
1 TGCCAATGCCATGTCCCAGACATGGTCTTACAGGGGA-CCTCTCAT-CTCGG
* *
39252085 TGCCCATGCCATGTCCCAGACATGGTCTTATAGGGGACCTCTCATCTCGG
1 TGCCAATGCCATGTCCCAGACATGGTCTTACAGGGGACCTCTCATCTCGG
* * *
39252135 TGCCAACGCCATGTCCCAGACATGGTCTTACATGGGACCTCTCGTCTCGG
1 TGCCAATGCCATGTCCCAGACATGGTCTTACAGGGGACCTCTCATCTCGG
* *
39252185 TGCCCATGCCATGTCCCAGACATGGTCTTACAGGGGACCTCTCATGATCTTAAGG
1 TGCCAATGCCATGTCCCAGACATGGTCTTACAGGGGACCTCTC---ATC-T-CGG
* *
39252240 ATGCCAATGCCATGTCCCAGACATGGTCTTACATGGGATCTCT
1 -TGCCAATGCCATGTCCCAGACATGGTCTTACAGGGGACCTCT
39252283 TTACCCAAAT
Statistics
Matches: 170, Mismatches: 21, Indels: 9
0.85 0.10 0.05
Matches are distributed among these distances:
49 1 0.01
50 92 0.54
51 33 0.19
53 2 0.01
54 1 0.01
55 2 0.01
56 39 0.23
ACGTcount: A:0.20, C:0.29, G:0.24, T:0.26
Consensus pattern (50 bp):
TGCCAATGCCATGTCCCAGACATGGTCTTACAGGGGACCTCTCATCTCGG
Found at i:39252212 original size:100 final size:104
Alignment explanation
Indices: 39252033--39252282 Score: 357
Period size: 100 Copynumber: 2.4 Consensus size: 104
39252023 TGATAATAAC
**
39252033 ATGCCAAAGCCATGTCCCAGACATGGTCTTACATGGGATGTTCTCGTGATGGTGCCCATGCCATG
1 ATGCCAAAGCCATGTCCCAGACATGGTCTTACATGGGA-CCTCTCGTGATGGTGCCCATGCCATG
* *
39252098 TCCCAGACATGGTCTTATAGGGGACCTCTC-ATC-T-CGG
65 TCCCAGACATGGTCTTACAGGGGACCTCTCAATCTTAAGG
* *
39252135 -TGCCAACGCCATGTCCCAGACATGGTCTTACATGGGACCTCTCGT-CTCGGTGCCCATGCCATG
1 ATGCCAAAGCCATGTCCCAGACATGGTCTTACATGGGACCTCTCGTGAT-GGTGCCCATGCCATG
39252198 TCCCAGACATGGTCTTACAGGGGACCTCTCATGATCTTAAGG
65 TCCCAGACATGGTCTTACAGGGGACCTCTCA--ATCTTAAGG
* *
39252240 ATGCCAATGCCATGTCCCAGACATGGTCTTACATGGGATCTCT
1 ATGCCAAAGCCATGTCCCAGACATGGTCTTACATGGGACCTCT
39252283 TTACCCAAAT
Statistics
Matches: 133, Mismatches: 8, Indels: 10
0.88 0.05 0.07
Matches are distributed among these distances:
99 1 0.01
100 50 0.38
101 36 0.27
103 3 0.02
104 1 0.01
105 2 0.02
106 40 0.30
ACGTcount: A:0.21, C:0.29, G:0.24, T:0.26
Consensus pattern (104 bp):
ATGCCAAAGCCATGTCCCAGACATGGTCTTACATGGGACCTCTCGTGATGGTGCCCATGCCATGT
CCCAGACATGGTCTTACAGGGGACCTCTCAATCTTAAGG
Found at i:39252398 original size:13 final size:13
Alignment explanation
Indices: 39252377--39252408 Score: 55
Period size: 13 Copynumber: 2.5 Consensus size: 13
39252367 GCTTGGATCA
*
39252377 TCATCAAATAAAT
1 TCATAAAATAAAT
39252390 TCATAAAATAAAT
1 TCATAAAATAAAT
39252403 TCATAA
1 TCATAA
39252409 TTGCTGGAAA
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
13 18 1.00
ACGTcount: A:0.56, C:0.12, G:0.00, T:0.31
Consensus pattern (13 bp):
TCATAAAATAAAT
Found at i:39252655 original size:30 final size:30
Alignment explanation
Indices: 39252620--39252677 Score: 89
Period size: 30 Copynumber: 1.9 Consensus size: 30
39252610 CCTCGACTCT
*
39252620 AACTTTTTCAAAATTACAATTTTGCCCCTA
1 AACTTTTACAAAATTACAATTTTGCCCCTA
* *
39252650 AACTTTTACATAATTACATTTTTGCCCC
1 AACTTTTACAAAATTACAATTTTGCCCC
39252678 AAGGCTCGGA
Statistics
Matches: 25, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
30 25 1.00
ACGTcount: A:0.31, C:0.24, G:0.03, T:0.41
Consensus pattern (30 bp):
AACTTTTACAAAATTACAATTTTGCCCCTA
Found at i:39259483 original size:50 final size:50
Alignment explanation
Indices: 39259359--39259607 Score: 284
Period size: 50 Copynumber: 4.8 Consensus size: 50
39259349 GATAATAACA
* * ** * *
39259359 TGCCAAAGCCATGTCCCAGACATGGTCTTACATGGGATGTTCTCGTGAT-GG
1 TGCCAATGCCATGTCCCAGACATGGTCTTACAGGGGA-CCTCTCAT-CTCGG
* *
39259410 TGCCCATGCCATGTCCCAGACATGGTCTTATAGGGGACCTCTCATCTCGG
1 TGCCAATGCCATGTCCCAGACATGGTCTTACAGGGGACCTCTCATCTCGG
* * *
39259460 TGCCAACGCCATGTCCCAGACATGGTCTTACATGGGACCTCTCGTCTCGG
1 TGCCAATGCCATGTCCCAGACATGGTCTTACAGGGGACCTCTCATCTCGG
* *
39259510 TGCCCATGCCATGTCCCAGACATGGTCTTACAGGGGACCTCTCATGATCTTAAGG
1 TGCCAATGCCATGTCCCAGACATGGTCTTACAGGGGACCTCTC---ATC-T-CGG
* *
39259565 ATGCCAATGCCATGTCCCAGACATGGTCTTACATGGGATCTCT
1 -TGCCAATGCCATGTCCCAGACATGGTCTTACAGGGGACCTCT
39259608 TTACCCAAAT
Statistics
Matches: 170, Mismatches: 21, Indels: 9
0.85 0.10 0.05
Matches are distributed among these distances:
49 1 0.01
50 92 0.54
51 33 0.19
53 2 0.01
54 1 0.01
55 2 0.01
56 39 0.23
ACGTcount: A:0.20, C:0.29, G:0.24, T:0.26
Consensus pattern (50 bp):
TGCCAATGCCATGTCCCAGACATGGTCTTACAGGGGACCTCTCATCTCGG
Found at i:39259537 original size:100 final size:104
Alignment explanation
Indices: 39259358--39259607 Score: 357
Period size: 100 Copynumber: 2.4 Consensus size: 104
39259348 TGATAATAAC
**
39259358 ATGCCAAAGCCATGTCCCAGACATGGTCTTACATGGGATGTTCTCGTGATGGTGCCCATGCCATG
1 ATGCCAAAGCCATGTCCCAGACATGGTCTTACATGGGA-CCTCTCGTGATGGTGCCCATGCCATG
* *
39259423 TCCCAGACATGGTCTTATAGGGGACCTCTC-ATC-T-CGG
65 TCCCAGACATGGTCTTACAGGGGACCTCTCAATCTTAAGG
* *
39259460 -TGCCAACGCCATGTCCCAGACATGGTCTTACATGGGACCTCTCGT-CTCGGTGCCCATGCCATG
1 ATGCCAAAGCCATGTCCCAGACATGGTCTTACATGGGACCTCTCGTGAT-GGTGCCCATGCCATG
39259523 TCCCAGACATGGTCTTACAGGGGACCTCTCATGATCTTAAGG
65 TCCCAGACATGGTCTTACAGGGGACCTCTCA--ATCTTAAGG
* *
39259565 ATGCCAATGCCATGTCCCAGACATGGTCTTACATGGGATCTCT
1 ATGCCAAAGCCATGTCCCAGACATGGTCTTACATGGGACCTCT
39259608 TTACCCAAAT
Statistics
Matches: 133, Mismatches: 8, Indels: 10
0.88 0.05 0.07
Matches are distributed among these distances:
99 1 0.01
100 50 0.38
101 36 0.27
103 3 0.02
104 1 0.01
105 2 0.02
106 40 0.30
ACGTcount: A:0.21, C:0.29, G:0.24, T:0.26
Consensus pattern (104 bp):
ATGCCAAAGCCATGTCCCAGACATGGTCTTACATGGGACCTCTCGTGATGGTGCCCATGCCATGT
CCCAGACATGGTCTTACAGGGGACCTCTCAATCTTAAGG
Found at i:39259723 original size:13 final size:13
Alignment explanation
Indices: 39259702--39259733 Score: 55
Period size: 13 Copynumber: 2.5 Consensus size: 13
39259692 GCTTGGATCA
*
39259702 TCATCAAATAAAT
1 TCATAAAATAAAT
39259715 TCATAAAATAAAT
1 TCATAAAATAAAT
39259728 TCATAA
1 TCATAA
39259734 TTGCTGGAAA
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
13 18 1.00
ACGTcount: A:0.56, C:0.12, G:0.00, T:0.31
Consensus pattern (13 bp):
TCATAAAATAAAT
Found at i:39259980 original size:30 final size:30
Alignment explanation
Indices: 39259945--39260002 Score: 89
Period size: 30 Copynumber: 1.9 Consensus size: 30
39259935 CCTCGACTCT
*
39259945 AACTTTTTCAAAATTACAATTTTGCCCCTA
1 AACTTTTACAAAATTACAATTTTGCCCCTA
* *
39259975 AACTTTTACATAATTACATTTTTGCCCC
1 AACTTTTACAAAATTACAATTTTGCCCC
39260003 AAGGCTCGGA
Statistics
Matches: 25, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
30 25 1.00
ACGTcount: A:0.31, C:0.24, G:0.03, T:0.41
Consensus pattern (30 bp):
AACTTTTACAAAATTACAATTTTGCCCCTA
Found at i:39262292 original size:25 final size:25
Alignment explanation
Indices: 39262260--39262309 Score: 100
Period size: 25 Copynumber: 2.0 Consensus size: 25
39262250 TTATAGTATG
39262260 TTTAATTCTAATAAATGAACTTGGT
1 TTTAATTCTAATAAATGAACTTGGT
39262285 TTTAATTCTAATAAATGAACTTGGT
1 TTTAATTCTAATAAATGAACTTGGT
39262310 AAGTTTAATT
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
25 25 1.00
ACGTcount: A:0.36, C:0.08, G:0.12, T:0.44
Consensus pattern (25 bp):
TTTAATTCTAATAAATGAACTTGGT
Found at i:39268576 original size:28 final size:28
Alignment explanation
Indices: 39268544--39268623 Score: 108
Period size: 29 Copynumber: 2.8 Consensus size: 28
39268534 CATACATGCT
*
39268544 TATGGCCCACTAGGCCCAATCTCAT-TCA
1 TATGGCCCACTAGGCCCAATCACATCT-A
*
39268572 TATGGCCCATTAGGCCCAAATCACATCTA
1 TATGGCCCACTAGGCCC-AATCACATCTA
*
39268601 TATGGCCCACTAGGTCCAATCAC
1 TATGGCCCACTAGGCCCAATCAC
39268624 TTTTTCAGTC
Statistics
Matches: 46, Mismatches: 4, Indels: 4
0.85 0.07 0.07
Matches are distributed among these distances:
28 22 0.48
29 23 0.50
30 1 0.02
ACGTcount: A:0.28, C:0.34, G:0.15, T:0.24
Consensus pattern (28 bp):
TATGGCCCACTAGGCCCAATCACATCTA
Found at i:39268604 original size:29 final size:28
Alignment explanation
Indices: 39268544--39268623 Score: 108
Period size: 28 Copynumber: 2.8 Consensus size: 28
39268534 CATACATGCT
*
39268544 TATGGCCCACTAGGCCCAATCTCATTCA
1 TATGGCCCACTAGGCCCAATCACATTCA
*
39268572 TATGGCCCATTAGGCCCAAATCACA-TCTA
1 TATGGCCCACTAGGCCC-AATCACATTC-A
*
39268601 TATGGCCCACTAGGTCCAATCAC
1 TATGGCCCACTAGGCCCAATCAC
39268624 TTTTTCAGTC
Statistics
Matches: 46, Mismatches: 4, Indels: 4
0.85 0.07 0.07
Matches are distributed among these distances:
28 24 0.52
29 22 0.48
ACGTcount: A:0.28, C:0.34, G:0.15, T:0.24
Consensus pattern (28 bp):
TATGGCCCACTAGGCCCAATCACATTCA
Found at i:39268853 original size:16 final size:17
Alignment explanation
Indices: 39268805--39268853 Score: 66
Period size: 16 Copynumber: 3.0 Consensus size: 17
39268795 CCAAACTTTT
39268805 AGCTTTTCGGCATTTC-
1 AGCTTTTCGGCATTTCG
*
39268821 AGCTTTTCGACATTTCG
1 AGCTTTTCGGCATTTCG
*
39268838 A-CTTTTTGGCATTTCG
1 AGCTTTTCGGCATTTCG
39268854 GGATTTGCCA
Statistics
Matches: 29, Mismatches: 3, Indels: 2
0.85 0.09 0.06
Matches are distributed among these distances:
16 28 0.97
17 1 0.03
ACGTcount: A:0.14, C:0.22, G:0.18, T:0.45
Consensus pattern (17 bp):
AGCTTTTCGGCATTTCG
Found at i:39271154 original size:49 final size:49
Alignment explanation
Indices: 39271082--39271313 Score: 248
Period size: 49 Copynumber: 4.7 Consensus size: 49
39271072 CTGATACTCA
* * *
39271082 TAGTATCCTGCACTTAGTACTACACATACGACCAATTATCTGGTATACG
1 TAGTAGCCTGCACTTAGTACTACACACACGACCAATTATCTGGTACACG
* ** ** *
39271131 TAGTAGCCTGCAGTTAGTACTACACACGGGACCTAACCATCTGATACACG
1 TAGTAGCCTGCACTTAGTACTACACACACGACC-AATTATCTGGTACACG
* ** * * * *
39271181 TAGTAGCCTCCACTTAGTACTACACACGTGATCGAAGTTATCGGGTACGCA
1 TAGTAGCCTGCACTTAGTACTACACACACGA-CCAA-TTATCTGGTACACG
* * *
39271232 TAGTAGCCTGCACTTAGTACTACACATACGACCAATTATCTAGTACATG
1 TAGTAGCCTGCACTTAGTACTACACACACGACCAATTATCTGGTACACG
* *
39271281 TAGTAGCCTGCACTTAGTAATACACACATGACC
1 TAGTAGCCTGCACTTAGTACTACACACACGACC
39271314 TCACAATAGA
Statistics
Matches: 148, Mismatches: 32, Indels: 6
0.80 0.17 0.03
Matches are distributed among these distances:
49 67 0.45
50 45 0.30
51 36 0.24
ACGTcount: A:0.31, C:0.26, G:0.17, T:0.26
Consensus pattern (49 bp):
TAGTAGCCTGCACTTAGTACTACACACACGACCAATTATCTGGTACACG
Found at i:39271590 original size:27 final size:27
Alignment explanation
Indices: 39271560--39271613 Score: 72
Period size: 27 Copynumber: 2.0 Consensus size: 27
39271550 TCATACAACC
* *
39271560 CATGTAATAGTAATTTAACATTCAATT
1 CATGTAACAATAATTTAACATTCAATT
**
39271587 CATGTAACAATAATTTGCCATTCAATT
1 CATGTAACAATAATTTAACATTCAATT
39271614 TCACATGACA
Statistics
Matches: 23, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
27 23 1.00
ACGTcount: A:0.39, C:0.15, G:0.07, T:0.39
Consensus pattern (27 bp):
CATGTAACAATAATTTAACATTCAATT
Found at i:39275280 original size:18 final size:18
Alignment explanation
Indices: 39275257--39275293 Score: 74
Period size: 18 Copynumber: 2.1 Consensus size: 18
39275247 GTAAGTATAA
39275257 TTATGATGATTTAAATGT
1 TTATGATGATTTAAATGT
39275275 TTATGATGATTTAAATGT
1 TTATGATGATTTAAATGT
39275293 T
1 T
39275294 CAATATTAAT
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
18 19 1.00
ACGTcount: A:0.32, C:0.00, G:0.16, T:0.51
Consensus pattern (18 bp):
TTATGATGATTTAAATGT
Found at i:39275611 original size:68 final size:65
Alignment explanation
Indices: 39275501--39275753 Score: 232
Period size: 68 Copynumber: 3.9 Consensus size: 65
39275491 ATACAGATGG
* * * *
39275501 TATGTAGCTAGGTCACATGTA-TGGTGCTGA-GTGCACATCATGT-GTACAAGAGAGCTACGAGA
1 TATGTAGCTAGGTCACATG-AGTGGTACTAATGTGTACACCATGTAG-ACAAGAGAGCTACGAG-
39275563 CATTA
63 -A-TA
* * *
39275568 TGATGTAGCTAGGTCACATGGGTGATACT-ATGTGTACACCATGTAGACAAGAGAGCTACGGGAT
1 T-ATGTAGCTAGGTCACATGAGTGGTACTAATGTGTACACCATGTAGACAAGAGAGCTACGAGAT
39275632 A
65 A
* * * * * *
39275633 TATGTAGCTAGGTCACATGCGTGGTTCCAGGTGAAGGACACCATGTAGACAAGAGAGCTACGAGA
1 TATGTAGCTAGGTCACATGAGTGGTACTA-ATG-TGTACACCATGTAGACAAGAGAGCTACGAGA
39275698 TA
64 TA
* * *
39275700 AAT-TGGCTAGGTCACATGAGTGGTACTAAT-TGTTCACCATGT-GTACAAGAGAGC
1 TATGTAGCTAGGTCACATGAGTGGTACTAATGTGTACACCATGTAG-ACAAGAGAGC
39275754 CAAAATTATG
Statistics
Matches: 155, Mismatches: 23, Indels: 20
0.78 0.12 0.10
Matches are distributed among these distances:
62 1 0.01
63 19 0.12
64 23 0.15
65 4 0.03
66 24 0.15
67 34 0.22
68 49 0.32
69 1 0.01
ACGTcount: A:0.30, C:0.17, G:0.28, T:0.25
Consensus pattern (65 bp):
TATGTAGCTAGGTCACATGAGTGGTACTAATGTGTACACCATGTAGACAAGAGAGCTACGAGATA
Found at i:39288399 original size:19 final size:19
Alignment explanation
Indices: 39288371--39288408 Score: 67
Period size: 19 Copynumber: 2.0 Consensus size: 19
39288361 AATCCTCGTG
39288371 TAAAAATATCAATACCATT
1 TAAAAATATCAATACCATT
*
39288390 TAAAAGTATCAATACCATT
1 TAAAAATATCAATACCATT
39288409 AGGCTTTTAA
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
19 18 1.00
ACGTcount: A:0.50, C:0.16, G:0.03, T:0.32
Consensus pattern (19 bp):
TAAAAATATCAATACCATT
Found at i:39292156 original size:28 final size:29
Alignment explanation
Indices: 39292077--39292168 Score: 123
Period size: 29 Copynumber: 3.2 Consensus size: 29
39292067 GCATGTATGA
*
39292077 GAATGTGATTTGGGCCTAATGGGCCATAC
1 GAATGTGATTTGGGCCTAATGGGCCATAT
39292106 GAATGTGATTTGGGCCTAATGGGCCATAT
1 GAATGTGATTTGGGCCTAATGGGCCATAT
* * * *
39292135 GAATGAGA-TTGGGCTTAGTGGGCTATAT
1 GAATGTGATTTGGGCCTAATGGGCCATAT
*
39292163 GCATGT
1 GAATGT
39292169 ATGTAGACTT
Statistics
Matches: 56, Mismatches: 7, Indels: 1
0.88 0.11 0.02
Matches are distributed among these distances:
28 21 0.38
29 35 0.62
ACGTcount: A:0.24, C:0.13, G:0.33, T:0.30
Consensus pattern (29 bp):
GAATGTGATTTGGGCCTAATGGGCCATAT
Found at i:39295104 original size:47 final size:47
Alignment explanation
Indices: 39295050--39295236 Score: 235
Period size: 47 Copynumber: 4.1 Consensus size: 47
39295040 TTAGGATTTT
** * *
39295050 ATGTGATGAATGTGAATGTGTATATATGAGATAAGGCCGAATGGCCA
1 ATGTGATGAATGTGAACATGCATATATGTGATAAGGCCGAATGGCCA
39295097 ATGTGATGAATGTGAACATGCATATATGTGATAAGGCCGAATGGCCA
1 ATGTGATGAATGTGAACATGCATATATGTGATAAGGCCGAATGGCCA
* *
39295144 ATGCGATGAATGTGAGCATGC----A--T-ATAAGGCCGAATGGCCA
1 ATGTGATGAATGTGAACATGCATATATGTGATAAGGCCGAATGGCCA
* * * *
39295184 ATGTGATGAATATGAACATGCATATATGTGGTAAAGCCGAATGGCTA
1 ATGTGATGAATGTGAACATGCATATATGTGATAAGGCCGAATGGCCA
39295231 ATGTGA
1 ATGTGA
39295237 AATATGTATG
Statistics
Matches: 121, Mismatches: 12, Indels: 14
0.82 0.08 0.10
Matches are distributed among these distances:
40 35 0.29
41 1 0.01
43 1 0.01
44 1 0.01
46 1 0.01
47 82 0.68
ACGTcount: A:0.34, C:0.12, G:0.28, T:0.26
Consensus pattern (47 bp):
ATGTGATGAATGTGAACATGCATATATGTGATAAGGCCGAATGGCCA
Done.