Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: D10
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: 67973905
ACGTcount: A:0.33, C:0.16, G:0.16, T:0.32
Warning! 1760000 characters in sequence are not A, C, G, or T
File 122 of 228
Found at i:35971892 original size:29 final size:29
Alignment explanation
Indices: 35971857--35971930 Score: 105
Period size: 29 Copynumber: 2.6 Consensus size: 29
35971847 GTTGTGAGAT
* *
35971857 TGGCACTAAGTGTGCGGGCTTGAAA-TGCA
1 TGGCACTAAGTGTGCGAG-TTGAAAGTACA
*
35971886 TGGCACTAAGTGTGCGAGTTTAAAGTACA
1 TGGCACTAAGTGTGCGAGTTGAAAGTACA
35971915 TGGCACTAAGTGTGCG
1 TGGCACTAAGTGTGCG
35971931 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:35972364 original size:40 final size:40
Alignment explanation
Indices: 35972241--35972463 Score: 227
Period size: 40 Copynumber: 5.6 Consensus size: 40
35972231 TCGAATGATG
* *
35972241 TCCGGGCTAAGTCCCGAAG-GC-TTTGTGCTAAGTGACCATA
1 TCCGGGCTAAGTCCCGAAGAGCATTCGTGCT-AGTGA-TATA
* * * * * *
35972281 TCCGGACTAAGACCCGAAG-GCATTGGTGCGAGTTACTAAA
1 TCCGGGCTAAGTCCCGAAGAGCATTCGTGCTAGTGA-TATA
* *
35972321 TCCGGGCTAAGTCCCGAAGAGCATTCATGCTAGTGATGTA
1 TCCGGGCTAAGTCCCGAAGAGCATTCGTGCTAGTGATATA
* *
35972361 TCCGGGCTAAGTTCCAAAGAGCATTCGTGCTAGTGATATA
1 TCCGGGCTAAGTCCCGAAGAGCATTCGTGCTAGTGATATA
* ** * * *
35972401 TCCGTGCTAAACCCCGAAGAGCATTCGTGCTGGTGTTATG
1 TCCGGGCTAAGTCCCGAAGAGCATTCGTGCTAGTGATATA
*
35972441 TCCGGGCTAGGTCCCGAAGAGCA
1 TCCGGGCTAAGTCCCGAAGAGCA
35972464 ATCATGCTGG
Statistics
Matches: 150, Mismatches: 31, Indels: 4
0.81 0.17 0.02
Matches are distributed among these distances:
40 132 0.88
41 18 0.12
ACGTcount: A:0.25, C:0.24, G:0.28, T:0.24
Consensus pattern (40 bp):
TCCGGGCTAAGTCCCGAAGAGCATTCGTGCTAGTGATATA
Found at i:35975087 original size:25 final size:25
Alignment explanation
Indices: 35975059--35975137 Score: 65
Period size: 25 Copynumber: 3.3 Consensus size: 25
35975049 CTAATGGCCG
35975059 ATGTGATGAATGTGAAAGTGTATAT
1 ATGTGATGAATGTGAAAGTGTATAT
* *** ****
35975084 ATGTGAT-AAGGCCTAA-TG-GCCG
1 ATGTGATGAATGTGAAAGTGTATAT
35975106 ATGTGATGAATGTGAAAGTGTATAT
1 ATGTGATGAATGTGAAAGTGTATAT
35975131 ATGTGAT
1 ATGTGAT
35975138 AAGGCCTAAT
Statistics
Matches: 35, Mismatches: 16, Indels: 6
0.61 0.28 0.11
Matches are distributed among these distances:
22 7 0.20
23 7 0.20
24 7 0.20
25 14 0.40
ACGTcount: A:0.33, C:0.05, G:0.29, T:0.33
Consensus pattern (25 bp):
ATGTGATGAATGTGAAAGTGTATAT
Found at i:35975245 original size:49 final size:47
Alignment explanation
Indices: 35975046--35975268 Score: 401
Period size: 47 Copynumber: 4.7 Consensus size: 47
35975036 ATGATAGTAT
35975046 GGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGATAA
1 GGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGATAA
35975093 GGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGATAA
1 GGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGATAA
*
35975140 GGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGACAA
1 GGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGATAA
*
35975187 GGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATATGTGATAG
1 GGCCTAATGGCCGATGTGATGAATGTGAAAGTG--TATATATGTGATAA
35975236 GGCCTAATGGCCGATGTGATGAATGTGATAAGT
1 GGCCTAATGGCCGATGTGATGAATGTGA-AAGT
35975269 CCCGAAGAGC
Statistics
Matches: 170, Mismatches: 3, Indels: 3
0.97 0.02 0.02
Matches are distributed among these distances:
47 126 0.74
49 40 0.24
50 4 0.02
ACGTcount: A:0.31, C:0.09, G:0.30, T:0.29
Consensus pattern (47 bp):
GGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGATAA
Found at i:35975442 original size:37 final size:37
Alignment explanation
Indices: 35975386--35975464 Score: 122
Period size: 37 Copynumber: 2.1 Consensus size: 37
35975376 CCGAGCTCTA
* * *
35975386 AAGACCCGATGACTACGTGTGGGGATTTTGTCCGGGT
1 AAGACCCGATAACTACGTGTGGAGATTATGTCCGGGT
*
35975423 AAGACCCGATAACTTCGTGTGGAGATTATGTCCGGGT
1 AAGACCCGATAACTACGTGTGGAGATTATGTCCGGGT
35975460 AAGAC
1 AAGAC
35975465 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:35979325 original size:8 final size:8
Alignment explanation
Indices: 35979312--35979367 Score: 50
Period size: 7 Copynumber: 7.5 Consensus size: 8
35979302 AGGAGGGCAT
35979312 GATTGAAA
1 GATTGAAA
35979320 GATTG-AA
1 GATTGAAA
*
35979327 GATTTAAA
1 GATTGAAA
35979335 G-TTGAATA
1 GATTGAA-A
35979343 GA-T-AAA
1 GATTGAAA
*
35979349 GATTGAAG
1 GATTGAAA
35979357 GATTG-AA
1 GATTGAAA
35979364 GATT
1 GATT
35979368 TAAAAAAAAA
Statistics
Matches: 39, Mismatches: 4, Indels: 11
0.72 0.07 0.20
Matches are distributed among these distances:
6 3 0.08
7 18 0.46
8 18 0.46
ACGTcount: A:0.45, C:0.00, G:0.25, T:0.30
Consensus pattern (8 bp):
GATTGAAA
Found at i:35982997 original size:96 final size:96
Alignment explanation
Indices: 35982812--35982986 Score: 246
Period size: 96 Copynumber: 1.8 Consensus size: 96
35982802 AGAGGAGTAC
* * * * * *
35982812 GATTGATCTCTCACCTGTTGTGAAGTGTTATTGGTGTAGTTCAAAAGATCATGAGGGTTTCCGAT
1 GATTGAGCTATCACCTGTTGTGAAGTGTTATTGGAGTAGTTCAAAAGATCATAAGAGTTTCCAAT
35982877 GTCTAATTAAATATCTAAATAGAGAGAATAA
66 GTCTAATTAAATATCTAAATAGAGAGAATAA
* *
35982908 GATTGAGCTATCACCTTTTGTGCAA-TGTTATTGGAGTAGTTCTAAAGATCATAAGAGTTTCCAA
1 GATTGAGCTATCACCTGTTGTG-AAGTGTTATTGGAGTAGTTCAAAAGATCATAAGAGTTTCCAA
35982972 TGTGC-AATTAAATAT
65 TGT-CTAATTAAATAT
35982987 TCAACAAGAG
Statistics
Matches: 69, Mismatches: 8, Indels: 4
0.85 0.10 0.05
Matches are distributed among these distances:
96 66 0.96
97 3 0.04
ACGTcount: A:0.32, C:0.12, G:0.21, T:0.35
Consensus pattern (96 bp):
GATTGAGCTATCACCTGTTGTGAAGTGTTATTGGAGTAGTTCAAAAGATCATAAGAGTTTCCAAT
GTCTAATTAAATATCTAAATAGAGAGAATAA
Found at i:35991642 original size:30 final size:30
Alignment explanation
Indices: 35991606--35991663 Score: 91
Period size: 30 Copynumber: 1.9 Consensus size: 30
35991596 TGACATCACT
*
35991606 TATCTGTGATGGTCATTGAA-CTGACTAACC
1 TATCTGTGACGGTCATTGAATC-GACTAACC
35991636 TATCTGTGACGGTCATTGAATCGACTAA
1 TATCTGTGACGGTCATTGAATCGACTAA
35991664 AGGGGTGTTA
Statistics
Matches: 26, Mismatches: 1, Indels: 2
0.90 0.03 0.07
Matches are distributed among these distances:
30 25 0.96
31 1 0.04
ACGTcount: A:0.28, C:0.19, G:0.21, T:0.33
Consensus pattern (30 bp):
TATCTGTGACGGTCATTGAATCGACTAACC
Found at i:35993911 original size:32 final size:32
Alignment explanation
Indices: 35993875--35993938 Score: 110
Period size: 32 Copynumber: 2.0 Consensus size: 32
35993865 ACCTCTACAT
*
35993875 TAATGCTCAACTCAAGTTCGAATATTTTTAAC
1 TAATGCTCAACTCAAGTTCAAATATTTTTAAC
*
35993907 TAATGCTTAACTCAAGTTCAAATATTTTTAAC
1 TAATGCTCAACTCAAGTTCAAATATTTTTAAC
35993939 CTACCACTTA
Statistics
Matches: 30, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
32 30 1.00
ACGTcount: A:0.36, C:0.17, G:0.08, T:0.39
Consensus pattern (32 bp):
TAATGCTCAACTCAAGTTCAAATATTTTTAAC
Found at i:35997523 original size:29 final size:31
Alignment explanation
Indices: 35997466--35997524 Score: 77
Period size: 29 Copynumber: 2.0 Consensus size: 31
35997456 TACTTCACGA
* *
35997466 TAAAAATATTAAATATATTAAAGATAAGTAG
1 TAAAAATATTAAATAAATTAAAGACAAGTAG
*
35997497 TAAAAA-A-TAAATAAATTAAAGCCAAGTA
1 TAAAAATATTAAATAAATTAAAGACAAGTA
35997525 AACTAGAGCA
Statistics
Matches: 25, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
29 18 0.72
30 1 0.04
31 6 0.24
ACGTcount: A:0.61, C:0.03, G:0.08, T:0.27
Consensus pattern (31 bp):
TAAAAATATTAAATAAATTAAAGACAAGTAG
Found at i:35997929 original size:180 final size:180
Alignment explanation
Indices: 35997627--35998168 Score: 1032
Period size: 180 Copynumber: 3.0 Consensus size: 180
35997617 AAAGAGCATG
* * * *
35997627 AAAACTGTGGAGTAAGAGTAGATTTAGTAACAATCATCTTCGCGTTGCTTCATTGCCATCCTTAC
1 AAAACTGTGGAATAATAGTAGATTTAGTAACAATCATCTTCACCTTGCTTCATTGCCATCCTTAC
35997692 ATGAGGAGAGTTGAAAAATAAAGAAGAAAAAAACACTCTCACCATAACCTTTTACGGATTTTACT
66 ATGAGGAGAGTTGAAAAATAAAGAAGAAAAAAACACTCTCACCATAACCTTTTACGGATTTTACT
35997757 TAATAAATAGTAAACTTTTTACTTGATCTAATAAACAATCCTATAAATAT
131 TAATAAATAGTAAACTTTTTACTTGATCTAATAAACAATCCTATAAATAT
35997807 AAAACTGTGGAATAATAGTAGATTTAGTAACAATCATCTTCACCTTGCTTCATTGCCATCCTTAC
1 AAAACTGTGGAATAATAGTAGATTTAGTAACAATCATCTTCACCTTGCTTCATTGCCATCCTTAC
35997872 ATGAGGAGAGTTGAAAAATAAAGAAGAAAAAAACACTCTCACCATAACCTTTTACGGATTTTACT
66 ATGAGGAGAGTTGAAAAATAAAGAAGAAAAAAACACTCTCACCATAACCTTTTACGGATTTTACT
35997937 TAATAAATAGTAAACTTTTTACTTGATCTAATAAACAATCCTATAAATAT
131 TAATAAATAGTAAACTTTTTACTTGATCTAATAAACAATCCTATAAATAT
35997987 AAAACTGTGGAATAATAGTAGATTTAGTAACAATCATCTTCACCTTGCTTCATTGCCATCCTTAC
1 AAAACTGTGGAATAATAGTAGATTTAGTAACAATCATCTTCACCTTGCTTCATTGCCATCCTTAC
35998052 ATGAGGAGAGTTGAAAAATAAAGAAGAAAAAAACACTCTCACCATAACCTTTTACGGATTTTACT
66 ATGAGGAGAGTTGAAAAATAAAGAAGAAAAAAACACTCTCACCATAACCTTTTACGGATTTTACT
35998117 TAATAAATAGTAAACTTTTTACTTGATCTAATAAACGAA-CCTATAAATAT
131 TAATAAATAGTAAACTTTTTACTTGATCTAATAAAC-AATCCTATAAATAT
35998167 AA
1 AA
35998169 GAAATAACAG
Statistics
Matches: 357, Mismatches: 4, Indels: 2
0.98 0.01 0.01
Matches are distributed among these distances:
180 355 0.99
181 2 0.01
ACGTcount: A:0.40, C:0.16, G:0.12, T:0.31
Consensus pattern (180 bp):
AAAACTGTGGAATAATAGTAGATTTAGTAACAATCATCTTCACCTTGCTTCATTGCCATCCTTAC
ATGAGGAGAGTTGAAAAATAAAGAAGAAAAAAACACTCTCACCATAACCTTTTACGGATTTTACT
TAATAAATAGTAAACTTTTTACTTGATCTAATAAACAATCCTATAAATAT
Found at i:35999843 original size:20 final size:19
Alignment explanation
Indices: 35999789--35999847 Score: 55
Period size: 20 Copynumber: 2.9 Consensus size: 19
35999779 TCTCAACAAA
*
35999789 TTATAAAAATGTTCAAAACAAT
1 TTAT-AAAAT-TTCAAAA-TAT
* *
35999811 TTTTAAAAATTCAAAATAT
1 TTATAAAATTTCAAAATAT
35999830 TTATAAAACTTTCAAAAT
1 TTATAAAA-TTTCAAAAT
35999848 TTATATATTT
Statistics
Matches: 31, Mismatches: 5, Indels: 4
0.77 0.12 0.10
Matches are distributed among these distances:
19 9 0.29
20 15 0.48
21 4 0.13
22 3 0.10
ACGTcount: A:0.53, C:0.08, G:0.02, T:0.37
Consensus pattern (19 bp):
TTATAAAATTTCAAAATAT
Found at i:35999884 original size:19 final size:19
Alignment explanation
Indices: 35999830--35999884 Score: 51
Period size: 18 Copynumber: 3.0 Consensus size: 19
35999820 TTCAAAATAT
* * *
35999830 TTATAA-AACTTTCAAAAT
1 TTATAATAATTTTAAAAAA
* *
35999848 TTAT-ATATTTTTTAAAAA
1 TTATAATAATTTTAAAAAA
35999866 TTATAATAATTTTAAAAAA
1 TTATAATAATTTTAAAAAA
35999885 AATTCTAAAG
Statistics
Matches: 29, Mismatches: 6, Indels: 3
0.76 0.16 0.08
Matches are distributed among these distances:
17 1 0.03
18 16 0.55
19 12 0.41
ACGTcount: A:0.51, C:0.04, G:0.00, T:0.45
Consensus pattern (19 bp):
TTATAATAATTTTAAAAAA
Found at i:36007251 original size:35 final size:35
Alignment explanation
Indices: 36007203--36007360 Score: 217
Period size: 35 Copynumber: 4.5 Consensus size: 35
36007193 TTATGGACTG
* *
36007203 GTCCTTTGGGGCGACACCATGTAAATGGTATACAT
1 GTCCTTCGGGGCGACACCGTGTAAATGGTATACAT
**
36007238 GTTGTTCGGGGCGACACCGTGTAAATGGTATACAT
1 GTCCTTCGGGGCGACACCGTGTAAATGGTATACAT
* *
36007273 GTCCTTTGGGGCGACACCGTGTAAACGGTATACAT
1 GTCCTTCGGGGCGACACCGTGTAAATGGTATACAT
* * *
36007308 GTCCTTTGGGGCGACACCGTATAAATGGCATACAT
1 GTCCTTCGGGGCGACACCGTGTAAATGGTATACAT
* *
36007343 GTCTTTCAGGGCGACACC
1 GTCCTTCGGGGCGACACC
36007361 TCAAAAGGGG
Statistics
Matches: 109, Mismatches: 14, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
35 109 1.00
ACGTcount: A:0.23, C:0.22, G:0.28, T:0.27
Consensus pattern (35 bp):
GTCCTTCGGGGCGACACCGTGTAAATGGTATACAT
Found at i:36012775 original size:29 final size:29
Alignment explanation
Indices: 36012733--36012860 Score: 195
Period size: 29 Copynumber: 4.4 Consensus size: 29
36012723 TTATTGACCA
*
36012733 ATGAAAAGGGATAGCTTCTA-CTATGGAAT
1 ATGAAAAGGGATAGCTTC-AGCTATCGAAT
36012762 ATGAAAAGGGATAGCTTCAGCTATCGAAT
1 ATGAAAAGGGATAGCTTCAGCTATCGAAT
* *
36012791 ATGAAAAGGGGTAGCTTCAGCTATTGAAT
1 ATGAAAAGGGATAGCTTCAGCTATCGAAT
* *
36012820 ATGAAAAGGGGTAGCTTCAGCTATCGATT
1 ATGAAAAGGGATAGCTTCAGCTATCGAAT
36012849 ATGAAAAGGGAT
1 ATGAAAAGGGAT
36012861 GTTGACGACC
Statistics
Matches: 92, Mismatches: 6, Indels: 2
0.92 0.06 0.02
Matches are distributed among these distances:
28 1 0.01
29 91 0.99
ACGTcount: A:0.37, C:0.11, G:0.27, T:0.26
Consensus pattern (29 bp):
ATGAAAAGGGATAGCTTCAGCTATCGAAT
Found at i:36012880 original size:29 final size:28
Alignment explanation
Indices: 36012848--36013018 Score: 110
Period size: 29 Copynumber: 5.9 Consensus size: 28
36012838 AGCTATCGAT
*
36012848 TATGAAAAGGGATGTTGACGACCATCAA
1 TATGAAAAGGGATGGTGACGACCATCAA
* *
36012876 CTATGAAAAGGGACGGTGATGACCATCGAA
1 -TATGAAAAGGGATGGTGACGACCATC-AA
* *** * * *
36012906 TTTGAGAAA-GGATAACGTCGACTATCGAT
1 TATGA-AAAGGGATGGTGACGACCATC-AA
* * *
36012935 TATGAAAAGGGATGGTGACGACGATTGAT
1 TATGAAAAGGGATGGTGACGACCA-TCAA
** *
36012964 TAATGAAAAGGGATGGTTTCAACCATCGAA
1 T-ATGAAAAGGGATGGTGACGACCATC-AA
* *
36012994 TATGAAAAGGGATGGTCACAACCAT
1 TATGAAAAGGGATGGTGACGACCAT
36013019 TGTTTAACAC
Statistics
Matches: 109, Mismatches: 27, Indels: 12
0.74 0.18 0.08
Matches are distributed among these distances:
28 3 0.03
29 79 0.72
30 27 0.25
ACGTcount: A:0.37, C:0.13, G:0.27, T:0.22
Consensus pattern (28 bp):
TATGAAAAGGGATGGTGACGACCATCAA
Found at i:36012904 original size:58 final size:57
Alignment explanation
Indices: 36012842--36013005 Score: 145
Period size: 58 Copynumber: 2.8 Consensus size: 57
36012832 AGCTTCAGCT
* *
36012842 ATCGATTATGAAAAGGGATGTTGACGACCATCAACTATGAAAAGGGACGGTGATGACC
1 ATCGATTATGAAAAGGGATGTTGTCGACCATCAA-TATGAAAAGGGACGGTGACGACC
*** * * * *
36012900 ATCGAATT-TGAGAAA-GGATAACGTCGACTATCGATTATGAAAAGGGATGGTGACGACG
1 ATCG-ATTATGA-AAAGGGATGTTGTCGACCATC-AATATGAAAAGGGACGGTGACGACC
* *
36012958 ATTGATTAATGAAAAGGGATGGTT-TCAACCATCGAATATGAAAAGGGA
1 ATCGATT-ATGAAAAGGGAT-GTTGTCGACCATC-AATATGAAAAGGGA
36013006 TGGTCACAAC
Statistics
Matches: 83, Mismatches: 16, Indels: 13
0.74 0.14 0.12
Matches are distributed among these distances:
57 3 0.04
58 45 0.54
59 35 0.42
ACGTcount: A:0.38, C:0.12, G:0.27, T:0.23
Consensus pattern (57 bp):
ATCGATTATGAAAAGGGATGTTGTCGACCATCAATATGAAAAGGGACGGTGACGACC
Found at i:36013003 original size:87 final size:87
Alignment explanation
Indices: 36012840--36013003 Score: 215
Period size: 87 Copynumber: 1.9 Consensus size: 87
36012830 GTAGCTTCAG
* *
36012840 CTATCGATTATGAAAAGGGATGTTGACGACCATCAACTATGAAAAGGGACGGTGATGACCATCGA
1 CTATCGATTATGAAAAGGGATGGTGACGACCATCAACTATGAAAAGGGACGGTGATAACCATCGA
*
36012905 ATTTGAGAAAGGATAACGTCGA
66 ATATGAGAAAGGATAACGTCGA
* ** * * *
36012927 CTATCGATTATGAAAAGGGATGGTGACGACGATTGATTAATGAAAAGGGATGGT-TTCAACCATC
1 CTATCGATTATGAAAAGGGATGGTGACGACCATCAACT-ATGAAAAGGGACGGTGAT-AACCATC
36012991 GAATATGA-AAAGG
64 GAATATGAGAAAGG
36013004 GATGGTCACA
Statistics
Matches: 66, Mismatches: 9, Indels: 4
0.84 0.11 0.05
Matches are distributed among these distances:
87 39 0.59
88 27 0.41
ACGTcount: A:0.37, C:0.13, G:0.27, T:0.23
Consensus pattern (87 bp):
CTATCGATTATGAAAAGGGATGGTGACGACCATCAACTATGAAAAGGGACGGTGATAACCATCGA
ATATGAGAAAGGATAACGTCGA
Found at i:36016161 original size:21 final size:21
Alignment explanation
Indices: 36016121--36016166 Score: 56
Period size: 21 Copynumber: 2.2 Consensus size: 21
36016111 GCCAAGATCG
*
36016121 TGTGGCTACCCCACATGCCCA
1 TGTGGCTACCCCACACGCCCA
* * *
36016142 TGTGGCTACCTCATACGCCCG
1 TGTGGCTACCCCACACGCCCA
36016163 TGTG
1 TGTG
36016167 CTCAAACAGT
Statistics
Matches: 21, Mismatches: 4, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
21 21 1.00
ACGTcount: A:0.15, C:0.37, G:0.24, T:0.24
Consensus pattern (21 bp):
TGTGGCTACCCCACACGCCCA
Found at i:36016997 original size:13 final size:13
Alignment explanation
Indices: 36016979--36017051 Score: 76
Period size: 13 Copynumber: 5.5 Consensus size: 13
36016969 GCATAGACAC
36016979 TTCATATAACCAT
1 TTCATATAACCAT
* *
36016992 TTCATATATCTAT
1 TTCATATAACCAT
36017005 TTCCATATAATCCA-
1 TT-CATATAA-CCAT
36017019 TTCATATAACCAT
1 TTCATATAACCAT
* * *
36017032 TTTATGTAATCAT
1 TTCATATAACCAT
36017045 TTCATAT
1 TTCATAT
36017052 TATAATTCAT
Statistics
Matches: 48, Mismatches: 9, Indels: 6
0.76 0.14 0.10
Matches are distributed among these distances:
12 3 0.06
13 35 0.73
14 8 0.17
15 2 0.04
ACGTcount: A:0.34, C:0.19, G:0.01, T:0.45
Consensus pattern (13 bp):
TTCATATAACCAT
Found at i:36017033 original size:27 final size:27
Alignment explanation
Indices: 36016981--36017051 Score: 74
Period size: 27 Copynumber: 2.7 Consensus size: 27
36016971 ATAGACACTT
* *
36016981 CATATAACCATTTCATATATCTATTTC
1 CATATAACCATTTCATATAACCATTTC
36017008 CATATAATCCA-TTCATATAACCATTT-
1 CATATAA-CCATTTCATATAACCATTTC
* * *
36017034 TATGTAATCATTTCATAT
1 CATATAACCATTTCATAT
36017052 TATAATTCAT
Statistics
Matches: 37, Mismatches: 5, Indels: 5
0.79 0.11 0.11
Matches are distributed among these distances:
25 2 0.05
26 12 0.32
27 20 0.54
28 3 0.08
ACGTcount: A:0.35, C:0.20, G:0.01, T:0.44
Consensus pattern (27 bp):
CATATAACCATTTCATATAACCATTTC
Found at i:36022121 original size:138 final size:138
Alignment explanation
Indices: 36021865--36022126 Score: 298
Period size: 138 Copynumber: 1.9 Consensus size: 138
36021855 AAAATGGGCT
* * * * ** *
36021865 TGCTTACACAAGCTATCGGTCGAAATGTAAGCTACATGATGTTGCTCACACAAGCTATTGAGTAT
1 TGCTTACACAAGCTATCGGTCGAAACGTAAGCTACACGATGCTACTCACACAAGCTATCAAGTAA
* * * * **
36021930 CCGCAACTAATGCTGGACCTTAGGCATCGGTAGGACATTCAAGACCAGTACCCGAAACATGGTAA
66 CCGCAACTAATGCTGAAACTTAGCCATCGGTAGGAAATTCAAGACCAACACCCGAAACATGGTAA
36021995 CCTGGGTC
131 CCTGGGTC
* * *
36022003 TGCTTACACAAGCTGTCGGTCGAAACGTAA-CTACACGGTGCTATTCACACAAGCTATCAAGTAA
1 TGCTTACACAAGCTATCGGTCGAAACGTAAGCTACACGATGCTACTCACACAAGCTATCAAGTAA
* *
36022067 CCGCAAC-ACAT-CTTGAAAACTTAGCCA-CTGGTAGGAAATTCAGGACTAACACCCGAAACA
66 CCGCAACTA-ATGC-TG-AAACTTAGCCATC-GGTAGGAAATTCAAGACCAACACCCGAAACA
36022127 CCGTAACCCT
Statistics
Matches: 102, Mismatches: 18, Indels: 8
0.80 0.14 0.06
Matches are distributed among these distances:
136 2 0.02
137 38 0.37
138 62 0.61
ACGTcount: A:0.32, C:0.25, G:0.20, T:0.22
Consensus pattern (138 bp):
TGCTTACACAAGCTATCGGTCGAAACGTAAGCTACACGATGCTACTCACACAAGCTATCAAGTAA
CCGCAACTAATGCTGAAACTTAGCCATCGGTAGGAAATTCAAGACCAACACCCGAAACATGGTAA
CCTGGGTC
Found at i:36031063 original size:19 final size:18
Alignment explanation
Indices: 36031031--36031066 Score: 54
Period size: 19 Copynumber: 1.9 Consensus size: 18
36031021 TAAAGTAGTG
*
36031031 ATTTAGTAATTAAAAGAA
1 ATTTAGTAAATAAAAGAA
36031049 ATTTAAGTAAATAAAAGA
1 ATTT-AGTAAATAAAAGA
36031067 TGAAACAAAG
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
18 4 0.25
19 12 0.75
ACGTcount: A:0.58, C:0.00, G:0.11, T:0.31
Consensus pattern (18 bp):
ATTTAGTAAATAAAAGAA
Found at i:36045128 original size:58 final size:56
Alignment explanation
Indices: 36045014--36045143 Score: 143
Period size: 58 Copynumber: 2.2 Consensus size: 56
36045004 TTTGTCAACT
* * * * * *
36045014 ATGGTCTTACACTGCATACCTTGTACCATTTACCTTGCTGCCATGGCATTTTTCATCC
1 ATGGTCTTACACT--ATACCTTGTACCATATACCATGCTGACATGACATCTCTCATCC
* *
36045072 ATGGTCTTACACTATTACCATTTTACCATATACCATGCTTACATGACATCTCTCATCC
1 ATGGTCTTACACTA-TACC-TTGTACCATATACCATGCTGACATGACATCTCTCATCC
*
36045130 GTGGTCTTACACTA
1 ATGGTCTTACACTA
36045144 CGTACCACAT
Statistics
Matches: 61, Mismatches: 9, Indels: 4
0.82 0.12 0.05
Matches are distributed among these distances:
56 1 0.02
57 4 0.07
58 56 0.92
ACGTcount: A:0.23, C:0.28, G:0.12, T:0.37
Consensus pattern (56 bp):
ATGGTCTTACACTATACCTTGTACCATATACCATGCTGACATGACATCTCTCATCC
Found at i:36051429 original size:11 final size:11
Alignment explanation
Indices: 36051417--36051454 Score: 67
Period size: 11 Copynumber: 3.5 Consensus size: 11
36051407 TGGTGGTCAT
*
36051417 AATTTGCTCAT
1 AATTTGCTCAA
36051428 AATTTGCTCAA
1 AATTTGCTCAA
36051439 AATTTGCTCAA
1 AATTTGCTCAA
36051450 AATTT
1 AATTT
36051455 AGGAGAAATT
Statistics
Matches: 26, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
11 26 1.00
ACGTcount: A:0.34, C:0.16, G:0.08, T:0.42
Consensus pattern (11 bp):
AATTTGCTCAA
Found at i:36051994 original size:18 final size:17
Alignment explanation
Indices: 36051963--36051997 Score: 52
Period size: 17 Copynumber: 2.0 Consensus size: 17
36051953 CTAGAATATA
*
36051963 TTTTTTTAACTTTTTAT
1 TTTTTTTAAATTTTTAT
36051980 TTTTTTTACAATTTTTAT
1 TTTTTTTA-AATTTTTAT
36051998 GGTTTCAAAA
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
17 8 0.50
18 8 0.50
ACGTcount: A:0.20, C:0.06, G:0.00, T:0.74
Consensus pattern (17 bp):
TTTTTTTAAATTTTTAT
Found at i:36053113 original size:15 final size:14
Alignment explanation
Indices: 36053090--36053125 Score: 54
Period size: 15 Copynumber: 2.5 Consensus size: 14
36053080 ATCTACTAGC
*
36053090 TCTTTTTCTTTTTT
1 TCTTTTTCTATTTT
36053104 TCTATTTTCTATTTT
1 TCT-TTTTCTATTTT
36053119 TCTTTTT
1 TCTTTTT
36053126 ATAAAAAATT
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
14 7 0.35
15 13 0.65
ACGTcount: A:0.06, C:0.14, G:0.00, T:0.81
Consensus pattern (14 bp):
TCTTTTTCTATTTT
Found at i:36055465 original size:87 final size:86
Alignment explanation
Indices: 36055317--36055483 Score: 219
Period size: 87 Copynumber: 1.9 Consensus size: 86
36055307 AAATTTAAAT
* * * * * *
36055317 TCAATGAATACATCAAGTCCGTCTTAATAGGACCACCCAACCTCTGGGATATGAATTCATTAAGA
1 TCAATAAATACATCAAATCCATCTCAATAGGACCACCCAACCTCTGGGATACGAATCCATTAAGA
36055382 GTAATAAACTCAACCTCACATG
66 GTAA-AAACTCAACCTCACATG
* * *
36055404 TCAATAAATTCATCAAATCCATCTCAATAGGACCACCCAA-ATCCTGGGCTACGAATCCATTAAG
1 TCAATAAATACATCAAATCCATCTCAATAGGACCACCCAACCT-CTGGGATACGAATCCATTAAG
*
36055468 AGTAAGAACTCAACCT
65 AGTAAAAACTCAACCT
36055484 TATTCATGTA
Statistics
Matches: 69, Mismatches: 10, Indels: 3
0.84 0.12 0.04
Matches are distributed among these distances:
86 11 0.16
87 58 0.84
ACGTcount: A:0.38, C:0.26, G:0.13, T:0.24
Consensus pattern (86 bp):
TCAATAAATACATCAAATCCATCTCAATAGGACCACCCAACCTCTGGGATACGAATCCATTAAGA
GTAAAAACTCAACCTCACATG
Found at i:36075431 original size:14 final size:14
Alignment explanation
Indices: 36075412--36075439 Score: 56
Period size: 14 Copynumber: 2.0 Consensus size: 14
36075402 TAAAGTTATA
36075412 TTTAATAATTCATT
1 TTTAATAATTCATT
36075426 TTTAATAATTCATT
1 TTTAATAATTCATT
36075440 AATAAATTGG
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 14 1.00
ACGTcount: A:0.36, C:0.07, G:0.00, T:0.57
Consensus pattern (14 bp):
TTTAATAATTCATT
Found at i:36075470 original size:13 final size:13
Alignment explanation
Indices: 36075452--36075482 Score: 53
Period size: 13 Copynumber: 2.4 Consensus size: 13
36075442 TAAATTGGGT
36075452 TTAAATTAATTAA
1 TTAAATTAATTAA
*
36075465 TTAAATTGATTAA
1 TTAAATTAATTAA
36075478 TTAAA
1 TTAAA
36075483 GTAGTTAAAT
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
13 17 1.00
ACGTcount: A:0.52, C:0.00, G:0.03, T:0.45
Consensus pattern (13 bp):
TTAAATTAATTAA
Found at i:36081442 original size:29 final size:28
Alignment explanation
Indices: 36081394--36081451 Score: 64
Period size: 28 Copynumber: 2.0 Consensus size: 28
36081384 TGTGGAACAA
* * *
36081394 TGGCTTTTATTTTGACTAAAGTTTATTT
1 TGGCTTTTATTTTCACTAAACTGTATTT
36081422 TGGCTTTT-TTTCTCACTTAAACTGTATTT
1 TGGCTTTTATTT-TCAC-TAAACTGTATTT
36081451 T
1 T
36081452 TAGTTTCTCA
Statistics
Matches: 25, Mismatches: 3, Indels: 3
0.81 0.10 0.10
Matches are distributed among these distances:
27 3 0.12
28 11 0.44
29 11 0.44
ACGTcount: A:0.19, C:0.12, G:0.12, T:0.57
Consensus pattern (28 bp):
TGGCTTTTATTTTCACTAAACTGTATTT
Found at i:36082155 original size:12 final size:12
Alignment explanation
Indices: 36082138--36082162 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
36082128 GGCCAATAGG
36082138 TTAGTATTAAAA
1 TTAGTATTAAAA
36082150 TTAGTATTAAAA
1 TTAGTATTAAAA
36082162 T
1 T
36082163 AGTGTCTCTA
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 13 1.00
ACGTcount: A:0.48, C:0.00, G:0.08, T:0.44
Consensus pattern (12 bp):
TTAGTATTAAAA
Found at i:36085917 original size:15 final size:15
Alignment explanation
Indices: 36085897--36086004 Score: 87
Period size: 15 Copynumber: 7.2 Consensus size: 15
36085887 TTTATGGAAA
36085897 ATCAAAGATATGGGT
1 ATCAAAGATATGGGT
* **
36085912 ATCAAATA-ATGGAA
1 ATCAAAGATATGGGT
36085926 AGTCAAAGATATGGGT
1 A-TCAAAGATATGGGT
* **
36085942 ATCAAATAT-TGGAA
1 ATCAAAGATATGGGT
36085956 AGTCAAAGATATGGGT
1 A-TCAAAGATATGGGT
* **
36085972 ATCAAATAT-TGGAA
1 ATCAAAGATATGGGT
36085986 AGTCAAAGATATGGGT
1 A-TCAAAGATATGGGT
36086002 ATC
1 ATC
36086005 GAGATATTGG
Statistics
Matches: 69, Mismatches: 18, Indels: 12
0.70 0.18 0.12
Matches are distributed among these distances:
14 13 0.19
15 43 0.62
16 13 0.19
ACGTcount: A:0.44, C:0.07, G:0.23, T:0.26
Consensus pattern (15 bp):
ATCAAAGATATGGGT
Found at i:36085926 original size:30 final size:30
Alignment explanation
Indices: 36085890--36086004 Score: 203
Period size: 30 Copynumber: 3.8 Consensus size: 30
36085880 ATCCATATTT
*
36085890 ATGGAAAATCAAAGATATGGGTATCAAATA
1 ATGGAAAGTCAAAGATATGGGTATCAAATA
36085920 ATGGAAAGTCAAAGATATGGGTATCAAATA
1 ATGGAAAGTCAAAGATATGGGTATCAAATA
*
36085950 TTGGAAAGTCAAAGATATGGGTATCAAATA
1 ATGGAAAGTCAAAGATATGGGTATCAAATA
*
36085980 TTGGAAAGTCAAAGATATGGGTATC
1 ATGGAAAGTCAAAGATATGGGTATC
36086005 GAGATATTGG
Statistics
Matches: 83, Mismatches: 2, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
30 83 1.00
ACGTcount: A:0.44, C:0.07, G:0.23, T:0.25
Consensus pattern (30 bp):
ATGGAAAGTCAAAGATATGGGTATCAAATA
Found at i:36088878 original size:52 final size:49
Alignment explanation
Indices: 36088788--36088921 Score: 182
Period size: 52 Copynumber: 2.7 Consensus size: 49
36088778 TTGAATTTTA
* *
36088788 AAAACTCTTTTAAATAATAATTTAAATTCTATTTAATTATCT-TTTATTT
1 AAAACTCTTTTAAATAATAATTTAAATTATATTTAATTAT-TATTTATCT
*
36088837 AAAACTCTTTTAAATAATAATAATTAAATTATGTTTTAATTATTATTTATCT
1 AAAACTCTTTTAAATAATAAT--TTAAATTAT-ATTTAATTATTATTTATCT
*
36088889 AAAACTCTTTTAAATAATAA-CTAAATTATATTT
1 AAAACTCTTTTAAATAATAATTTAAATTATATTT
36088922 CCTTATCTGA
Statistics
Matches: 76, Mismatches: 5, Indels: 9
0.84 0.06 0.10
Matches are distributed among these distances:
48 3 0.04
49 29 0.38
51 9 0.12
52 35 0.46
ACGTcount: A:0.43, C:0.07, G:0.01, T:0.49
Consensus pattern (49 bp):
AAAACTCTTTTAAATAATAATTTAAATTATATTTAATTATTATTTATCT
Found at i:36088899 original size:26 final size:25
Alignment explanation
Indices: 36088819--36088901 Score: 62
Period size: 26 Copynumber: 3.2 Consensus size: 25
36088809 TTAAATTCTA
36088819 TTTAATTATCT-TTTATTTAAAACTCT
1 TTTAATTAT-TATTTA-TTAAAACTCT
* * * * *
36088845 TTTAAATAATAATAATTAAATTA-TGT
1 TTTAATTATTATTTATTAAA--ACTCT
36088871 TTTAATTATTATTTATCTAAAACTCT
1 TTTAATTATTATTTAT-TAAAACTCT
36088897 TTTAA
1 TTTAA
36088902 ATAATAACTA
Statistics
Matches: 42, Mismatches: 10, Indels: 10
0.68 0.16 0.16
Matches are distributed among these distances:
25 7 0.17
26 30 0.71
27 5 0.12
ACGTcount: A:0.39, C:0.07, G:0.01, T:0.53
Consensus pattern (25 bp):
TTTAATTATTATTTATTAAAACTCT
Found at i:36088983 original size:94 final size:94
Alignment explanation
Indices: 36088870--36089043 Score: 303
Period size: 94 Copynumber: 1.9 Consensus size: 94
36088860 TTAAATTATG
*
36088870 TTTTAATTATTATTTATCTAAAACTCTTTTAAATAATAACTAAATTATATTTCCTTATCTGATAA
1 TTTTAATTATTATTTATCTAAAACTATTTTAAATAATAACTAAATTATATTTCCTTATCTGATAA
*
36088935 GGAATATATAAAATCATTTTGATTTTGAA
66 GAAATATATAAAATCATTTTGATTTTGAA
* * *
36088964 TTTTAATTATTATTTATCTAAAACTATTTTAAATAATAATTAAATTCTATTTCTTTATCTGATAA
1 TTTTAATTATTATTTATCTAAAACTATTTTAAATAATAACTAAATTATATTTCCTTATCTGATAA
36089029 GAAATATATAAAATC
66 GAAATATATAAAATC
36089044 CCATTTTTAT
Statistics
Matches: 75, Mismatches: 5, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
94 75 1.00
ACGTcount: A:0.41, C:0.08, G:0.04, T:0.47
Consensus pattern (94 bp):
TTTTAATTATTATTTATCTAAAACTATTTTAAATAATAACTAAATTATATTTCCTTATCTGATAA
GAAATATATAAAATCATTTTGATTTTGAA
Found at i:36092660 original size:50 final size:52
Alignment explanation
Indices: 36092550--36092666 Score: 141
Period size: 50 Copynumber: 2.3 Consensus size: 52
36092540 AACAAATAAG
* * * * * *
36092550 TTACTTAATGCATGAATTAATTTAATGATGTAACCTTTAACTAACATGGGAG
1 TTACATAATGCATGAATTAATTTAATGATGCAAACTTTAAATAACATGAGAA
*
36092602 TTACATAATGCATGTCA-TAATTT-ATGATGCAAAC-TTAAATAACATGAGAA
1 TTACATAATGCATG-AATTAATTTAATGATGCAAACTTTAAATAACATGAGAA
36092652 TTACATAATGCATGA
1 TTACATAATGCATGA
36092667 CTTTATTAAA
Statistics
Matches: 56, Mismatches: 8, Indels: 5
0.81 0.12 0.07
Matches are distributed among these distances:
50 27 0.48
51 9 0.16
52 19 0.34
53 1 0.02
ACGTcount: A:0.40, C:0.12, G:0.14, T:0.34
Consensus pattern (52 bp):
TTACATAATGCATGAATTAATTTAATGATGCAAACTTTAAATAACATGAGAA
Found at i:36097096 original size:29 final size:29
Alignment explanation
Indices: 36097061--36097137 Score: 91
Period size: 29 Copynumber: 2.6 Consensus size: 29
36097051 CATGAGATTG
* *
36097061 GCACTAAGTGTGCGGGTTTAAATTGTACA
1 GCACTAAGTGTGCGGGTTTAAAGTGCACA
* * **
36097090 GCACTAAGTGTGTGAGTTTAAAGTGCATG
1 GCACTAAGTGTGCGGGTTTAAAGTGCACA
36097119 GCACTAAGTGTGCGCGGTT
1 GCACTAAGTGTGCG-GGTT
36097138 GATTATTGAG
Statistics
Matches: 39, Mismatches: 8, Indels: 1
0.81 0.17 0.02
Matches are distributed among these distances:
29 36 0.92
30 3 0.08
ACGTcount: A:0.25, C:0.14, G:0.31, T:0.30
Consensus pattern (29 bp):
GCACTAAGTGTGCGGGTTTAAAGTGCACA
Found at i:36097355 original size:174 final size:174
Alignment explanation
Indices: 36097090--36097417 Score: 611
Period size: 174 Copynumber: 1.9 Consensus size: 174
36097080 AAATTGTACA
* *
36097090 GCACTAAGTGTGTGAGTTTAAAGTGCATGGCACTAAGTGTGCGCGGTTGATTATTGAGCACTATG
1 GCACTAAGTGTGTGAGTTTAAAGTACATGGCACTAAGTGTGCGCGGTTGATTATTAAGCACTATG
* *
36097155 TGTGCGAACCCAATATATATTTTCTATAAATTATTTACATTAAGGGTGCGACTTTACCGAGTCGA
66 TGTGCGAACCCAATATATATTTTCTATAAATTATTTACATGAAGGGTGCGACTTTACCGAGTCAA
36097220 TTTTGGACAGCGGAAAAGGTAAGTGTGCGAACTTGAAATGCATG
131 TTTTGGACAGCGGAAAAGGTAAGTGTGCGAACTTGAAATGCATG
36097264 GCACTAAGTGTGTGAGTTTAAAGTACATGGCACTAAGTGTGCGCGGTTGATTATTAAGCACTATG
1 GCACTAAGTGTGTGAGTTTAAAGTACATGGCACTAAGTGTGCGCGGTTGATTATTAAGCACTATG
*
36097329 TGTGCGAACTCAATATATATTTTCTATAAATTATTTACATGAAGGGTGCGACTTTACCGAGTCAA
66 TGTGCGAACCCAATATATATTTTCTATAAATTATTTACATGAAGGGTGCGACTTTACCGAGTCAA
36097394 TTTTGGACAGCGGAAAAGGTAAGT
131 TTTTGGACAGCGGAAAAGGTAAGT
36097418 ACCTTGACTT
Statistics
Matches: 149, Mismatches: 5, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
174 149 1.00
ACGTcount: A:0.30, C:0.14, G:0.25, T:0.31
Consensus pattern (174 bp):
GCACTAAGTGTGTGAGTTTAAAGTACATGGCACTAAGTGTGCGCGGTTGATTATTAAGCACTATG
TGTGCGAACCCAATATATATTTTCTATAAATTATTTACATGAAGGGTGCGACTTTACCGAGTCAA
TTTTGGACAGCGGAAAAGGTAAGTGTGCGAACTTGAAATGCATG
Found at i:36103924 original size:26 final size:27
Alignment explanation
Indices: 36103873--36103925 Score: 65
Period size: 27 Copynumber: 2.0 Consensus size: 27
36103863 AAAATTAATA
* *
36103873 CACAACTATTAATCTAATTATGCATAT
1 CACAAATATTAATCTAATTATCCATAT
36103900 CACAAATATTAAT-TAA-TATTCCATAT
1 CACAAATATTAATCTAATTA-TCCATAT
36103926 AAAACAACAG
Statistics
Matches: 23, Mismatches: 2, Indels: 3
0.82 0.07 0.11
Matches are distributed among these distances:
25 2 0.09
26 9 0.39
27 12 0.52
ACGTcount: A:0.43, C:0.17, G:0.02, T:0.38
Consensus pattern (27 bp):
CACAAATATTAATCTAATTATCCATAT
Found at i:36107826 original size:30 final size:30
Alignment explanation
Indices: 36107787--36107885 Score: 90
Period size: 30 Copynumber: 3.3 Consensus size: 30
36107777 ACGGCCTAAG
* *
36107787 ACACAGGCTGTTCGCACGACTGCGTGTCAC
1 ACACGGGCTGTTCGCACGACCGCGTGTCAC
* * * *
36107817 ACTCGGGCTGTTTGCACGGCCGTGTGTCAC
1 ACACGGGCTGTTCGCACGACCGCGTGTCAC
* * * * *
36107847 ACACGAGCTGTTCCCATGACCGTGTGTTAC
1 ACACGGGCTGTTCGCACGACCGCGTGTCAC
*
36107877 ACACAGGCT
1 ACACGGGCT
36107886 ATGTCAAATG
Statistics
Matches: 54, Mismatches: 15, Indels: 0
0.78 0.22 0.00
Matches are distributed among these distances:
30 54 1.00
ACGTcount: A:0.18, C:0.31, G:0.27, T:0.23
Consensus pattern (30 bp):
ACACGGGCTGTTCGCACGACCGCGTGTCAC
Found at i:36110400 original size:22 final size:22
Alignment explanation
Indices: 36110372--36110413 Score: 75
Period size: 22 Copynumber: 1.9 Consensus size: 22
36110362 GCCAATATGG
*
36110372 GATTAAAATTAATTTTTTAAGA
1 GATTAAAATTAAGTTTTTAAGA
36110394 GATTAAAATTAAGTTTTTAA
1 GATTAAAATTAAGTTTTTAA
36110414 TAAAATAGTG
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
22 19 1.00
ACGTcount: A:0.45, C:0.00, G:0.10, T:0.45
Consensus pattern (22 bp):
GATTAAAATTAAGTTTTTAAGA
Found at i:36110515 original size:69 final size:69
Alignment explanation
Indices: 36110394--36110638 Score: 282
Period size: 69 Copynumber: 3.5 Consensus size: 69
36110384 TTTTTTAAGA
* * *
36110394 GATTAAAATTAAGTTTTTAAT-AAAATAGTGAAGAAGTGAGTTATGAGAGTATTCTCTAGTTAAA
1 GATTAAAATTAATTTTTTAATAAAAATAGTGAAGAAGTGAGCTATAAGAGTATTCTCTAGTTAAA
36110458 GTGG
66 GTGG
* * *
36110462 GATTAAAATTTATTTTTTAATAAAAATAGTGAAGAAGTGAGCTATAAGTGTATTCTCTAGTTAAT
1 GATTAAAATTAATTTTTTAATAAAAATAGTGAAGAAGTGAGCTATAAGAGTATTCTCTAGTTAAA
*
36110527 GTGA
66 GTGG
* * *
36110531 GATTAAAATTAACTTTTTTATTGAAAA-AGTGAAGAAAATGCCA-CTTATTTATGAGAGTATTCT
1 GATTAAAATTAA-TTTTTTAATAAAAATAGTGAAG-AAGTG--AGC-TA--TA--AGAGTATTCT
36110594 CTAGTTAAAGTGG
57 CTAGTTAAAGTGG
*
36110607 GATTAAAATTAA-ATTTTAATAAAAATAGTGAA
1 GATTAAAATTAATTTTTTAATAAAAATAGTGAA
36110639 TAAATTGTCA
Statistics
Matches: 149, Mismatches: 17, Indels: 15
0.82 0.09 0.08
Matches are distributed among these distances:
68 19 0.13
69 60 0.40
70 16 0.11
71 1 0.01
72 3 0.02
74 12 0.08
75 6 0.04
76 32 0.21
ACGTcount: A:0.41, C:0.04, G:0.18, T:0.37
Consensus pattern (69 bp):
GATTAAAATTAATTTTTTAATAAAAATAGTGAAGAAGTGAGCTATAAGAGTATTCTCTAGTTAAA
GTGG
Found at i:36110596 original size:76 final size:75
Alignment explanation
Indices: 36110511--36110657 Score: 197
Period size: 76 Copynumber: 1.9 Consensus size: 75
36110501 AGCTATAAGT
* * * *
36110511 GTATTCTCTAGTTAATGTGAGATTAAAATTAACTTTTTTATTGAAAA-AGTGAAGAAAATGCCAC
1 GTATTCTCTAGTTAAAGTGAGATTAAAATTAA--ATTTTAATAAAAATAGTGAAGAAAATGCCAC
36110575 TTATTTATGAGA
64 TTATTTATGAGA
* * * *
36110587 GTATTCTCTAGTTAAAGTGGGATTAAAATTAAATTTTAATAAAAATAGTGAATAAATTGTCACTT
1 GTATTCTCTAGTTAAAGTGAGATTAAAATTAAATTTTAATAAAAATAGTGAAGAAAATGCCACTT
36110652 ATTTAT
66 ATTTAT
36110658 AAGGTAAATG
Statistics
Matches: 62, Mismatches: 8, Indels: 3
0.85 0.11 0.04
Matches are distributed among these distances:
74 10 0.16
75 22 0.35
76 30 0.48
ACGTcount: A:0.39, C:0.07, G:0.14, T:0.39
Consensus pattern (75 bp):
GTATTCTCTAGTTAAAGTGAGATTAAAATTAAATTTTAATAAAAATAGTGAAGAAAATGCCACTT
ATTTATGAGA
Found at i:36110844 original size:29 final size:29
Alignment explanation
Indices: 36110812--36110868 Score: 87
Period size: 29 Copynumber: 2.0 Consensus size: 29
36110802 ACATTTCAAG
*
36110812 GGATTAAAATTAAGTTTTAATGAAAATAA
1 GGATTAAAATTAACTTTTAATGAAAATAA
* *
36110841 GGATTAAAATTAACTTTTCATTAAAATA
1 GGATTAAAATTAACTTTTAATGAAAATA
36110869 GTGAAGAAGT
Statistics
Matches: 25, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
29 25 1.00
ACGTcount: A:0.49, C:0.04, G:0.11, T:0.37
Consensus pattern (29 bp):
GGATTAAAATTAACTTTTAATGAAAATAA
Found at i:36113062 original size:61 final size:59
Alignment explanation
Indices: 36112934--36113066 Score: 171
Period size: 61 Copynumber: 2.2 Consensus size: 59
36112924 TTCCATCCTT
*
36112934 AACTCAAGGGGTCGGCTATGCATGAGAGAAAAAAGGGGGATTGACATTCTAGTTTTAATA
1 AACTCAAGGGG-CGGCTATGCATGAGAGAAAAAAGGAGGATTGACATTCTAGTTTTAATA
* * *
36112994 AAATCAAGGGGCAGAGC-ATGCATGAGAGAAAAAAAGGAGGATTGACATGTC-ATTTTTAGTA
1 AACTCAAGGGGC-G-GCTATGCATGAGAG-AAAAAAGGAGGATTGACAT-TCTAGTTTTAATA
36113055 AACTCAAGGGGC
1 AACTCAAGGGGC
36113067 TTCTCACAAG
Statistics
Matches: 64, Mismatches: 5, Indels: 7
0.84 0.07 0.09
Matches are distributed among these distances:
59 1 0.02
60 22 0.34
61 39 0.61
62 2 0.03
ACGTcount: A:0.38, C:0.12, G:0.29, T:0.22
Consensus pattern (59 bp):
AACTCAAGGGGCGGCTATGCATGAGAGAAAAAAGGAGGATTGACATTCTAGTTTTAATA
Found at i:36123319 original size:125 final size:122
Alignment explanation
Indices: 36123150--36123399 Score: 419
Period size: 125 Copynumber: 2.0 Consensus size: 122
36123140 TTTATTTATG
** *
36123150 TTAGTTATTTATTATTTGTTTTTTTATTTGACTTGGATTTGATTGTGTTTCAGGTTATGTCAGAA
1 TTAGTTATTTATTATTTGTTTTTTTATTTGACTTAAATTTGATTGTGTTTCAGGTTATGTCAAAA
* * *
36123215 TTCGAGTTTCTTTTTCGAACGTCTAAAGCCCTAAGTCAAATCTGTGACTTGAACAAATT
66 TCCGAGTTTC--TTTCGAACATCTAAAGCCCTAAGTCAAATCCGTGACTTGAACAAATT
36123274 TTAGTTATTTATTATTTGTTTGTTTTATTTGACTTAAATTTGATTGTGTTTCAGGTTATGTCAAA
1 TTAGTTATTTATTATTTGTTT-TTTTATTTGACTTAAATTTGATTGTGTTTCAGGTTATGTCAAA
36123339 ATCCGAGTTTCTTTCGAACATCTAAAGCCCTAAGTCAAATCCGTGACTTGAACAAATT
65 ATCCGAGTTTCTTTCGAACATCTAAAGCCCTAAGTCAAATCCGTGACTTGAACAAATT
36123397 TTA
1 TTA
36123400 TGACTTGCTC
Statistics
Matches: 119, Mismatches: 6, Indels: 3
0.93 0.05 0.02
Matches are distributed among these distances:
123 48 0.40
124 21 0.18
125 50 0.42
ACGTcount: A:0.26, C:0.13, G:0.16, T:0.46
Consensus pattern (122 bp):
TTAGTTATTTATTATTTGTTTTTTTATTTGACTTAAATTTGATTGTGTTTCAGGTTATGTCAAAA
TCCGAGTTTCTTTCGAACATCTAAAGCCCTAAGTCAAATCCGTGACTTGAACAAATT
Found at i:36129246 original size:101 final size:102
Alignment explanation
Indices: 36129127--36129311 Score: 266
Period size: 101 Copynumber: 1.8 Consensus size: 102
36129117 AAAGTGATGG
* * *
36129127 TCACGTGTGTAGTACTATGTGTAGGCTACTACGTGTACCAAAA--TGATAGGTCGCATGTGTAGT
1 TCACGTGTGTAGTACTATGTGCAGGCTACTACGTGTACCAAAATGTGAT-GGTCACATGTGTAGC
36129190 ACTATATGCAGGCTACTATGCGTACCGAATAGCTTCGA
65 ACTATATGCAGGCTACTATGCGTACCGAATAGCTTCGA
* * ** *
36129228 TCACGTGTGTAGTACTATGTGCAGGCTACTATGTGTATCGGATTGTGATGGTCACATGTGTAGCA
1 TCACGTGTGTAGTACTATGTGCAGGCTACTACGTGTACCAAAATGTGATGGTCACATGTGTAGCA
*
36129293 CTATGTGCAGGCTACTATG
66 CTATATGCAGGCTACTATG
36129312 TGAACCAGTA
Statistics
Matches: 73, Mismatches: 9, Indels: 3
0.86 0.11 0.04
Matches are distributed among these distances:
101 37 0.51
102 32 0.44
103 4 0.05
ACGTcount: A:0.24, C:0.18, G:0.26, T:0.31
Consensus pattern (102 bp):
TCACGTGTGTAGTACTATGTGCAGGCTACTACGTGTACCAAAATGTGATGGTCACATGTGTAGCA
CTATATGCAGGCTACTATGCGTACCGAATAGCTTCGA
Found at i:36129251 original size:51 final size:49
Alignment explanation
Indices: 36129124--36129313 Score: 193
Period size: 51 Copynumber: 3.8 Consensus size: 49
36129114 GTGAAAGTGA
* * * *
36129124 TGGTCACGTGTGTAGTACTATGTGTAGGCTACTACGTGTACC-AAAATGAT
1 TGGTCACATGTGTAGTACTATGTGCAGGCTACTATGTGTACCGAATA-G-T
* * * *
36129174 AGGTCGCATGTGTAGTACTATATGCAGGCTACTATGCGTACCGAATAGCT
1 TGGTCACATGTGTAGTACTATGTGCAGGCTACTATGTGTACCGAATAG-T
* * * * *
36129224 TCGATCACGTGTGTAGTACTATGTGCAGGCTACTATGTGTATCGGATTGT
1 T-GGTCACATGTGTAGTACTATGTGCAGGCTACTATGTGTACCGAATAGT
*
36129274 GATGGTCACATGTGTAGCACTATGTGCAGGCTACTATGTG
1 --TGGTCACATGTGTAGTACTATGTGCAGGCTACTATGTG
36129314 AACCAGTATC
Statistics
Matches: 115, Mismatches: 21, Indels: 7
0.80 0.15 0.05
Matches are distributed among these distances:
50 38 0.33
51 76 0.66
52 1 0.01
ACGTcount: A:0.24, C:0.17, G:0.27, T:0.32
Consensus pattern (49 bp):
TGGTCACATGTGTAGTACTATGTGCAGGCTACTATGTGTACCGAATAGT
Found at i:36129262 original size:26 final size:26
Alignment explanation
Indices: 36129233--36129313 Score: 73
Period size: 26 Copynumber: 3.2 Consensus size: 26
36129223 TTCGATCACG
36129233 TGTGTAGTACTATGTGCAGGCTACTA
1 TGTGTAGTACTATGTGCAGGCTACTA
*
36129259 TGTGTA-T-CGGATTGTG-ATGG-TCAC-A
1 TGTGTAGTAC-TA-TGTGCA-GGCT-ACTA
*
36129284 TGTGTAGCACTATGTGCAGGCTACTA
1 TGTGTAGTACTATGTGCAGGCTACTA
36129310 TGTG
1 TGTG
36129314 AACCAGTATC
Statistics
Matches: 43, Mismatches: 3, Indels: 18
0.67 0.05 0.28
Matches are distributed among these distances:
24 1 0.02
25 19 0.44
26 22 0.51
27 1 0.02
ACGTcount: A:0.21, C:0.15, G:0.30, T:0.35
Consensus pattern (26 bp):
TGTGTAGTACTATGTGCAGGCTACTA
Found at i:36129558 original size:16 final size:16
Alignment explanation
Indices: 36129537--36129568 Score: 55
Period size: 16 Copynumber: 2.0 Consensus size: 16
36129527 CGATTGAAAG
*
36129537 TGAAAAAGTGAAATTA
1 TGAAAAAGTAAAATTA
36129553 TGAAAAAGTAAAATTA
1 TGAAAAAGTAAAATTA
36129569 GCAACAAAAT
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
16 15 1.00
ACGTcount: A:0.59, C:0.00, G:0.16, T:0.25
Consensus pattern (16 bp):
TGAAAAAGTAAAATTA
Found at i:36132371 original size:48 final size:48
Alignment explanation
Indices: 36132298--36132391 Score: 127
Period size: 48 Copynumber: 2.0 Consensus size: 48
36132288 CATGGCAACA
*
36132298 TGTGATATGTGATTTCTGTATAAGACCATATCTAGGATATGGCATCGG
1 TGTGATATGTGATTTCTGTATAAGACCATAGCTAGGATATGGCATCGG
* * * *
36132346 TGTGATATGTGCTATTGTGTA-AAGACCATAGCTGGGCTATGGCATC
1 TGTGATATGTGAT-TTCTGTATAAGACCATAGCTAGGATATGGCATC
36132392 AATATGTAAA
Statistics
Matches: 40, Mismatches: 5, Indels: 2
0.85 0.11 0.04
Matches are distributed among these distances:
48 34 0.85
49 6 0.15
ACGTcount: A:0.26, C:0.14, G:0.27, T:0.34
Consensus pattern (48 bp):
TGTGATATGTGATTTCTGTATAAGACCATAGCTAGGATATGGCATCGG
Found at i:36135104 original size:10 final size:10
Alignment explanation
Indices: 36135080--36135111 Score: 50
Period size: 10 Copynumber: 3.4 Consensus size: 10
36135070 TTTGATTAGT
36135080 GAAAAAG-GA
1 GAAAAAGTGA
36135089 -AAAAAGTGA
1 GAAAAAGTGA
36135098 GAAAAAGTGA
1 GAAAAAGTGA
36135108 GAAA
1 GAAA
36135112 TTTCTCGATT
Statistics
Matches: 21, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
8 6 0.29
9 2 0.10
10 13 0.62
ACGTcount: A:0.66, C:0.00, G:0.28, T:0.06
Consensus pattern (10 bp):
GAAAAAGTGA
Found at i:36135383 original size:51 final size:52
Alignment explanation
Indices: 36135220--36135414 Score: 200
Period size: 51 Copynumber: 3.8 Consensus size: 52
36135210 TGAAAGTGAT
* * * *
36135220 GGTCACGTGTGTAGTACTATGTGTAGGCTACTACGTGTACCAGA-A-TGATA
1 GGTCACATGTGTAGTACTATGTGCAGGCTACTACGTGTACCGGATAGCGATA
* * * * *
36135270 GGTCACATGTGTAGTACTATATGCAGGCTACTATGCGTACCGGATAGC-TTC
1 GGTCACATGTGTAGTACTATGTGCAGGCTACTACGTGTACCGGATAGCGATA
* ** *
36135321 GATCATGTGTGTAGTACTATGTGCAGGCTACTACGTGTATCGGATAGCGAT-
1 GGTCACATGTGTAGTACTATGTGCAGGCTACTACGTGTACCGGATAGCGATA
* * * * *
36135372 GGTCACATGTGTAGCACTATTTGCAAGCTACTATGTGAACCGG
1 GGTCACATGTGTAGTACTATGTGCAGGCTACTACGTGTACCGG
36135415 TATCATTAAT
Statistics
Matches: 116, Mismatches: 26, Indels: 5
0.79 0.18 0.03
Matches are distributed among these distances:
50 38 0.33
51 77 0.66
52 1 0.01
ACGTcount: A:0.25, C:0.18, G:0.27, T:0.30
Consensus pattern (52 bp):
GGTCACATGTGTAGTACTATGTGCAGGCTACTACGTGTACCGGATAGCGATA
Found at i:36135414 original size:102 final size:101
Alignment explanation
Indices: 36135226--36135414 Score: 272
Period size: 102 Copynumber: 1.9 Consensus size: 101
36135216 TGATGGTCAC
* * *
36135226 GTGTGTAGTACTATGTGTAGGCTACTACGTGTACCAGAATGATAGGTCACATGTGTAGTACTATA
1 GTGTGTAGTACTATGTGCAGGCTACTACGTGTACCAGAACGATAGGTCACATGTGTAGCACTATA
* *
36135291 TGCAGGCTACTATGCGTACCGGATAGCTTCGATCAT
66 TGCAAGCTACTATGCGAACCGGATAGCTTCGATCAT
* *
36135327 GTGTGTAGTACTATGTGCAGGCTACTACGTGTATCGGATAGCGAT-GGTCACATGTGTAGCACTA
1 GTGTGTAGTACTATGTGCAGGCTACTACGTGTACCAGA-A-CGATAGGTCACATGTGTAGCACTA
* *
36135391 TTTGCAAGCTACTATGTGAACCGG
64 TATGCAAGCTACTATGCGAACCGG
36135415 TATCATTAAT
Statistics
Matches: 77, Mismatches: 9, Indels: 3
0.87 0.10 0.03
Matches are distributed among these distances:
101 35 0.45
102 39 0.51
103 3 0.04
ACGTcount: A:0.25, C:0.18, G:0.27, T:0.30
Consensus pattern (101 bp):
GTGTGTAGTACTATGTGCAGGCTACTACGTGTACCAGAACGATAGGTCACATGTGTAGCACTATA
TGCAAGCTACTATGCGAACCGGATAGCTTCGATCAT
Found at i:36138247 original size:20 final size:19
Alignment explanation
Indices: 36138222--36138261 Score: 62
Period size: 20 Copynumber: 2.1 Consensus size: 19
36138212 TTAGTTTTTG
36138222 TTTATTTATTTATTTATATT
1 TTTATTTATTTATTTA-ATT
*
36138242 TTTATTTATTTGTTTAATT
1 TTTATTTATTTATTTAATT
36138261 T
1 T
36138262 CTTTTCAATT
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
19 4 0.21
20 15 0.79
ACGTcount: A:0.23, C:0.00, G:0.03, T:0.75
Consensus pattern (19 bp):
TTTATTTATTTATTTAATT
Found at i:36139271 original size:48 final size:48
Alignment explanation
Indices: 36139200--36139296 Score: 194
Period size: 48 Copynumber: 2.0 Consensus size: 48
36139190 TGGAAAGATC
36139200 ATCCAAATCTATTCTAACTTGTAGAGGTCTATTCTAACTTGGATTGGA
1 ATCCAAATCTATTCTAACTTGTAGAGGTCTATTCTAACTTGGATTGGA
36139248 ATCCAAATCTATTCTAACTTGTAGAGGTCTATTCTAACTTGGATTGGA
1 ATCCAAATCTATTCTAACTTGTAGAGGTCTATTCTAACTTGGATTGGA
36139296 A
1 A
36139297 AGATCATCCA
Statistics
Matches: 49, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
48 49 1.00
ACGTcount: A:0.30, C:0.16, G:0.16, T:0.37
Consensus pattern (48 bp):
ATCCAAATCTATTCTAACTTGTAGAGGTCTATTCTAACTTGGATTGGA
Found at i:36146204 original size:62 final size:61
Alignment explanation
Indices: 36146084--36146207 Score: 185
Period size: 62 Copynumber: 2.0 Consensus size: 61
36146074 GTGACACCTC
*
36146084 AATAGAGGTCTAACATGGAAGGCCATATTTAGCTATACCAACCAATATAGTCCACCAGGAT
1 AATAGAGGTCTAACATGGAAGACCATATTTAGCTATACCAACCAATATAGTCCACCAGGAT
* * * **
36146145 AATAGAGGTCTAACATGTAAGACCATATCTTAGCTATGCCAACCAGTATAGTCTGCCAGGAT
1 AATAGAGGTCTAACATGGAAGACCATAT-TTAGCTATACCAACCAATATAGTCCACCAGGAT
36146207 A
1 A
36146208 GTAAACACAG
Statistics
Matches: 56, Mismatches: 6, Indels: 1
0.89 0.10 0.02
Matches are distributed among these distances:
61 26 0.46
62 30 0.54
ACGTcount: A:0.36, C:0.21, G:0.19, T:0.24
Consensus pattern (61 bp):
AATAGAGGTCTAACATGGAAGACCATATTTAGCTATACCAACCAATATAGTCCACCAGGAT
Found at i:36153091 original size:32 final size:32
Alignment explanation
Indices: 36153049--36153158 Score: 139
Period size: 32 Copynumber: 3.4 Consensus size: 32
36153039 TAGAAATTTT
* **
36153049 TGGCCCACACGGCCTAAATTGCCATGCTTGTG
1 TGGCCCACACGGCCCAAATTGCCATGCCCGTG
* *
36153081 TGGCCTACACGGCCCAAATTGCCATGCCCATG
1 TGGCCCACACGGCCCAAATTGCCATGCCCGTG
* * *
36153113 TCGCCCACACCGCCCAAATTGCCTTGCCCGTG
1 TGGCCCACACGGCCCAAATTGCCATGCCCGTG
*
36153145 TGGCCTACACGGCC
1 TGGCCCACACGGCC
36153159 TCGCACATTG
Statistics
Matches: 65, Mismatches: 13, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
32 65 1.00
ACGTcount: A:0.18, C:0.39, G:0.23, T:0.20
Consensus pattern (32 bp):
TGGCCCACACGGCCCAAATTGCCATGCCCGTG
Found at i:36154055 original size:52 final size:52
Alignment explanation
Indices: 36153977--36154081 Score: 210
Period size: 52 Copynumber: 2.0 Consensus size: 52
36153967 CAAACAATCC
36153977 TTAACAAAAATATAATACCCTTTTGTACACACAAAGTCTAGAACCCAAGACT
1 TTAACAAAAATATAATACCCTTTTGTACACACAAAGTCTAGAACCCAAGACT
36154029 TTAACAAAAATATAATACCCTTTTGTACACACAAAGTCTAGAACCCAAGACT
1 TTAACAAAAATATAATACCCTTTTGTACACACAAAGTCTAGAACCCAAGACT
36154081 T
1 T
36154082 CAAACGCACT
Statistics
Matches: 53, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
52 53 1.00
ACGTcount: A:0.44, C:0.23, G:0.08, T:0.26
Consensus pattern (52 bp):
TTAACAAAAATATAATACCCTTTTGTACACACAAAGTCTAGAACCCAAGACT
Found at i:36154973 original size:25 final size:24
Alignment explanation
Indices: 36154945--36154991 Score: 60
Period size: 24 Copynumber: 1.9 Consensus size: 24
36154935 TCACTTGCAT
36154945 TTATACA-TTATATATTTAATGTTAA
1 TTATACACTT-TAT-TTTAATGTTAA
*
36154970 TTATGCACTTTATTTTAATGTT
1 TTATACACTTTATTTTAATGTT
36154992 TTATATTTAT
Statistics
Matches: 20, Mismatches: 1, Indels: 3
0.83 0.04 0.12
Matches are distributed among these distances:
24 9 0.45
25 9 0.45
26 2 0.10
ACGTcount: A:0.32, C:0.06, G:0.06, T:0.55
Consensus pattern (24 bp):
TTATACACTTTATTTTAATGTTAA
Found at i:36166418 original size:42 final size:42
Alignment explanation
Indices: 36166350--36166546 Score: 215
Period size: 42 Copynumber: 4.7 Consensus size: 42
36166340 AAGGAAAACA
* *
36166350 TTCATTGT-ATTTAGAGGTCCAGGTGTGGAGGTCTATTTACTT
1 TTCATT-TCATTTAGAGGCCCAGGTGTGGAGGTCCATTTACTT
* * *
36166392 TTCATTTCATTTAAAGGCCCATGTGTGGAGGTCCATTTGCTT
1 TTCATTTCATTTAGAGGCCCAGGTGTGGAGGTCCATTTACTT
* *
36166434 TTCATTTCATTTAGAGGCTCCCAGGTTTGGAGGTCCATTCACTT
1 TTCATTTCATTTAGAGG--CCCAGGTGTGGAGGTCCATTTACTT
* * * *
36166478 TTCATTGCATTTGGAGACCCAGGTGTGGAGGTCCGTTTACTT
1 TTCATTTCATTTAGAGGCCCAGGTGTGGAGGTCCATTTACTT
*
36166520 TTC---T-AGGTTAGAGGCCCAGGTGTGGAG
1 TTCATTTCA-TTTAGAGGCCCAGGTGTGGAG
36166547 ATTATTGCAG
Statistics
Matches: 131, Mismatches: 20, Indels: 11
0.81 0.12 0.07
Matches are distributed among these distances:
38 1 0.01
39 18 0.14
41 1 0.01
42 76 0.58
44 35 0.27
ACGTcount: A:0.18, C:0.18, G:0.26, T:0.38
Consensus pattern (42 bp):
TTCATTTCATTTAGAGGCCCAGGTGTGGAGGTCCATTTACTT
Found at i:36166504 original size:86 final size:84
Alignment explanation
Indices: 36166350--36166546 Score: 222
Period size: 86 Copynumber: 2.4 Consensus size: 84
36166340 AAGGAAAACA
* * * * *
36166350 TTCATTGTATTTAGAGGTCCAGGTGTGGAGGTCTATTTACTTTTCATTTCATTTAAAGGCCCATG
1 TTCATTGTATTTAGAGGTCCAGGTGTGGAGGTCCATTCACTTTTCATTGCATTTAAAGACCCAGG
*
36166415 TGTGGAGGTCCATTTGCTT
66 TGTGGAGGTCCATTTACTT
* **
36166434 TTCATT-TCATTTAGAGGCTCCCAGGTTTGGAGGTCCATTCACTTTTCATTGCATTTGGAGACCC
1 TTCATTGT-ATTTAGAGG-T-CCAGGTGTGGAGGTCCATTCACTTTTCATTGCATTTAAAGACCC
*
36166498 AGGTGTGGAGGTCCGTTTACTT
63 AGGTGTGGAGGTCCATTTACTT
* * *
36166520 TTC-TAG--GTTAGAGGCCCAGGTGTGGAG
1 TTCATTGTATTTAGAGGTCCAGGTGTGGAG
36166547 ATTATTGCAG
Statistics
Matches: 95, Mismatches: 14, Indels: 11
0.79 0.12 0.09
Matches are distributed among these distances:
81 11 0.12
83 8 0.08
84 15 0.16
85 2 0.02
86 59 0.62
ACGTcount: A:0.18, C:0.18, G:0.26, T:0.38
Consensus pattern (84 bp):
TTCATTGTATTTAGAGGTCCAGGTGTGGAGGTCCATTCACTTTTCATTGCATTTAAAGACCCAGG
TGTGGAGGTCCATTTACTT
Found at i:36167127 original size:18 final size:18
Alignment explanation
Indices: 36167104--36167138 Score: 52
Period size: 18 Copynumber: 1.9 Consensus size: 18
36167094 ACTACAGGCA
*
36167104 TTCTATTTCTTTTTTTTC
1 TTCTATCTCTTTTTTTTC
*
36167122 TTCTATCTGTTTTTTTT
1 TTCTATCTCTTTTTTTT
36167139 TGCCATAGGC
Statistics
Matches: 15, Mismatches: 2, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
18 15 1.00
ACGTcount: A:0.06, C:0.14, G:0.03, T:0.77
Consensus pattern (18 bp):
TTCTATCTCTTTTTTTTC
Found at i:36167372 original size:45 final size:46
Alignment explanation
Indices: 36167308--36167404 Score: 144
Period size: 45 Copynumber: 2.1 Consensus size: 46
36167298 AAGTTTTAAA
* *
36167308 TTTTTTTTAAAAAAGAGAAAATTTAGATATTAA-TAA-AAAAATAT
1 TTTTTTTTAAAAAAGAGAAAATTTAGATATTAACAAATAAAAATAG
*
36167352 TTTTTTTTAAAAAAATAGAAAATTTAGATATTAACAAATAAAAATAG
1 TTTTTTTT-AAAAAAGAGAAAATTTAGATATTAACAAATAAAAATAG
36167399 TTTTTT
1 TTTTTT
36167405 AGTTATTTTA
Statistics
Matches: 47, Mismatches: 3, Indels: 3
0.89 0.06 0.06
Matches are distributed among these distances:
44 8 0.17
45 24 0.51
46 2 0.04
47 13 0.28
ACGTcount: A:0.52, C:0.01, G:0.06, T:0.41
Consensus pattern (46 bp):
TTTTTTTTAAAAAAGAGAAAATTTAGATATTAACAAATAAAAATAG
Found at i:36167660 original size:150 final size:152
Alignment explanation
Indices: 36167449--36167729 Score: 469
Period size: 150 Copynumber: 1.8 Consensus size: 152
36167439 AGTAAAAGTT
*
36167449 TTAATCTTTAAGAAAAATAGTATTTTTTTTTAAAAAAAAGGAGAAAGTTTAGATTTTGAAAAATA
1 TTAATCTTTAAGAAAAATAGTA-TTTCTTTT-AAAAAAAGGAGAAAGTTTAGATTTTGAAAAATA
* *
36167514 AAAATCTATTGTTTTT-AGTCATTTTAAAGGAAAGTTTAAAATTTTAAAACAATGTTTTGATTTT
64 AAAATCTATT-TTTTTGAGTCATTTTAAAAGAAAGTTTAAAATTTTAAAACAAAGTTTTGATTTT
36167578 TTTTAAACTACTTCAAAATAAAAAC
128 TTTTAAACTACTTCAAAATAAAAAC
36167603 TTAATCTTTAAGAAAAATAGTA-TTCTTTT-AAAAAAGGAGAAAGTTTAGATTTTGAAAAATAAA
1 TTAATCTTTAAGAAAAATAGTATTTCTTTTAAAAAAAGGAGAAAGTTTAGATTTTGAAAAATAAA
* *
36167666 AATCTGTTTTTTTGAGTCATTTTAAAAGAAAGTTTAAATTTTTAAAACAAAGTTTTGATTTTTT
66 AATCTATTTTTTTGAGTCATTTTAAAAGAAAGTTTAAAATTTTAAAACAAAGTTTTGATTTTTT
36167730 ATAACTATTT
Statistics
Matches: 121, Mismatches: 5, Indels: 6
0.92 0.04 0.05
Matches are distributed among these distances:
149 5 0.04
150 88 0.73
152 6 0.05
154 22 0.18
ACGTcount: A:0.43, C:0.05, G:0.11, T:0.42
Consensus pattern (152 bp):
TTAATCTTTAAGAAAAATAGTATTTCTTTTAAAAAAAGGAGAAAGTTTAGATTTTGAAAAATAAA
AATCTATTTTTTTGAGTCATTTTAAAAGAAAGTTTAAAATTTTAAAACAAAGTTTTGATTTTTTT
TAAACTACTTCAAAATAAAAAC
Found at i:36168391 original size:20 final size:20
Alignment explanation
Indices: 36168348--36168392 Score: 56
Period size: 20 Copynumber: 2.2 Consensus size: 20
36168338 TTGTATAATT
* *
36168348 TTTATTTATTTTATTTCGTT
1 TTTATTTATTTTATGTCGTA
36168368 TTTATTTATTTTCATGTC-TA
1 TTTATTTATTTT-ATGTCGTA
36168388 TTTAT
1 TTTAT
36168393 ATTTTTTTAC
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
20 18 0.82
21 4 0.18
ACGTcount: A:0.18, C:0.07, G:0.04, T:0.71
Consensus pattern (20 bp):
TTTATTTATTTTATGTCGTA
Found at i:36174894 original size:19 final size:21
Alignment explanation
Indices: 36174870--36174910 Score: 59
Period size: 21 Copynumber: 2.0 Consensus size: 21
36174860 TGAATTTAGT
36174870 AAAATAAA-AAT-AGTAAGTG
1 AAAATAAAGAATGAGTAAGTG
*
36174889 AAAATAAAGTATGAGTAAGTG
1 AAAATAAAGAATGAGTAAGTG
36174910 A
1 A
36174911 TGATATAAAT
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
19 8 0.42
20 2 0.11
21 9 0.47
ACGTcount: A:0.59, C:0.00, G:0.20, T:0.22
Consensus pattern (21 bp):
AAAATAAAGAATGAGTAAGTG
Found at i:36175246 original size:23 final size:23
Alignment explanation
Indices: 36175220--36175270 Score: 59
Period size: 23 Copynumber: 2.2 Consensus size: 23
36175210 TGCTTAGTGA
36175220 TATTTTCACTTTC-GTGCCCATGT
1 TATTTTCAC-TTCAGTGCCCATGT
* * *
36175243 TATTTTGACTTCATTGCTCATGT
1 TATTTTCACTTCAGTGCCCATGT
36175266 TATTT
1 TATTT
36175271 CGTGTATCCT
Statistics
Matches: 24, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
22 3 0.12
23 21 0.88
ACGTcount: A:0.16, C:0.20, G:0.12, T:0.53
Consensus pattern (23 bp):
TATTTTCACTTCAGTGCCCATGT
Found at i:36175346 original size:17 final size:18
Alignment explanation
Indices: 36175313--36175351 Score: 62
Period size: 17 Copynumber: 2.2 Consensus size: 18
36175303 AAGGGCTTTG
36175313 TGAAATAAAAATTTTACA
1 TGAAATAAAAATTTTACA
*
36175331 TGAAAT-AAAGTTTTACA
1 TGAAATAAAAATTTTACA
36175348 TGAA
1 TGAA
36175352 GTGTATGTGC
Statistics
Matches: 20, Mismatches: 1, Indels: 1
0.91 0.05 0.05
Matches are distributed among these distances:
17 14 0.70
18 6 0.30
ACGTcount: A:0.51, C:0.05, G:0.10, T:0.33
Consensus pattern (18 bp):
TGAAATAAAAATTTTACA
Found at i:36183627 original size:21 final size:21
Alignment explanation
Indices: 36183600--36183647 Score: 62
Period size: 21 Copynumber: 2.2 Consensus size: 21
36183590 GAAACAACTG
36183600 AAAAAAAGACAA-AAATAAAA
1 AAAAAAAGACAACAAATAAAA
*
36183620 ATAAAAAAGAGAAGCAAATAAAA
1 A-AAAAAAGACAA-CAAATAAAA
36183643 AAAAA
1 AAAAA
36183648 CGATGCCTCA
Statistics
Matches: 24, Mismatches: 1, Indels: 4
0.83 0.03 0.14
Matches are distributed among these distances:
20 1 0.04
21 10 0.42
22 4 0.17
23 9 0.38
ACGTcount: A:0.81, C:0.04, G:0.08, T:0.06
Consensus pattern (21 bp):
AAAAAAAGACAACAAATAAAA
Found at i:36186727 original size:32 final size:32
Alignment explanation
Indices: 36186686--36186749 Score: 101
Period size: 32 Copynumber: 2.0 Consensus size: 32
36186676 GCCATCTATT
*
36186686 TTCATTGTTCAACTCTTTGACAACACGAAAAA
1 TTCATTGTTCAACTCTTTGAAAACACGAAAAA
* *
36186718 TTCATTGTTCTACTCTTTGAAAACATGAAAAA
1 TTCATTGTTCAACTCTTTGAAAACACGAAAAA
36186750 ACTAAGAGCA
Statistics
Matches: 29, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
32 29 1.00
ACGTcount: A:0.38, C:0.19, G:0.09, T:0.34
Consensus pattern (32 bp):
TTCATTGTTCAACTCTTTGAAAACACGAAAAA
Found at i:36191367 original size:277 final size:277
Alignment explanation
Indices: 36190873--36191704 Score: 1333
Period size: 277 Copynumber: 3.0 Consensus size: 277
36190863 CTCATTTAGT
* * * *
36190873 CACAAATTCATTCTACTATAATATTGTCATACTCTCTTTTTGCGAGCTGGTACTGTTTGGGAGAC
1 CACAAATTCATTCCACTATAATATTGTCATACCCTCTTTTGGAGAGCTGGTACTGTTTGGGAGAC
* * * *
36190938 TGCACTGGCGAAGATCGCCTAAGTCATGAGACTTAGACGGGATAAGGTAGGTAACTTTGTGGCAA
66 TGCACTGGAGAAGATCGCCTAAGTCGTGAGACTTAGACGAGATAAGGTTGGTAACTTTGTGGCAA
* * * * * * *
36191003 AGTACTTCATTGAAATTCGTCTATACTACGAATTTCCACTTCGCGAGGTGACTATTTGTTTGTTC
131 AGTACTTCATTGAACTTCGTCTATACTGCGAAGTTCCACTTCGCGGGGTGACAATTTCTTTGTTG
* *
36191068 TGGAGAGTGACTGCCTATAAACATGCTACCGTTTATAATTAAATCTCACACTAAATATAAATTAA
196 TGGAGAGTGACCGCCTATAAACATGTTACCGTTTATAATTAAATCTCACACTAAATATAAATTAA
*
36191133 ATTAAATCAGTGGTTTC
261 ATTAAATCAGTGGTGTC
*
36191150 CACAAATTCATTCCACTATAATATTGTCATACCCTCTTTTGGTGAGCTGGTACTGTTTGGGAGAC
1 CACAAATTCATTCCACTATAATATTGTCATACCCTCTTTTGGAGAGCTGGTACTGTTTGGGAGAC
* * *
36191215 TGCATTGGAGAAGATCGCCAAAGTCGTGAGACTTAGACGAGATAAGGTTGGTAACTTCGTGGCAA
66 TGCACTGGAGAAGATCGCCTAAGTCGTGAGACTTAGACGAGATAAGGTTGGTAACTTTGTGGCAA
*
36191280 AGTACTTCATTGAACTTCGTCTATACTGCGAAGTTCCACTTCACGGGGTGACAATTTCTTTGTTG
131 AGTACTTCATTGAACTTCGTCTATACTGCGAAGTTCCACTTCGCGGGGTGACAATTTCTTTGTTG
36191345 TGGAGAGTGACCGCCTATAAACATGTTACCGTTTATAATTAAATCTCACACTAAATATAAATTAA
196 TGGAGAGTGACCGCCTATAAACATGTTACCGTTTATAATTAAATCTCACACTAAATATAAATTAA
* *
36191410 ATTAAACCGGTGGTGTC
261 ATTAAATCAGTGGTGTC
** *
36191427 TGCAAATTCATTCCACTATAATATTGTCATACCCTCTTTTGGAGAGCTAGTACTGTTTGGGAGAC
1 CACAAATTCATTCCACTATAATATTGTCATACCCTCTTTTGGAGAGCTGGTACTGTTTGGGAGAC
* *
36191492 TGCACTGGTGAAGATCGCCTAAGTCGTGAGACTTAGACGAGATAAGGTTGGTAATTTTGTGGCAA
66 TGCACTGGAGAAGATCGCCTAAGTCGTGAGACTTAGACGAGATAAGGTTGGTAACTTTGTGGCAA
* * * *
36191557 AGTACTTCGTTGAACTTCGTCTATAATGCGAAGTTCCACTTCGCGGGGTGACGATTTCTTTATTG
131 AGTACTTCATTGAACTTCGTCTATACTGCGAAGTTCCACTTCGCGGGGTGACAATTTCTTTGTTG
*
36191622 TAGAGAGTGACCGCCTATAAACATGTTACCGTTTATAATTAAATCTCACACTAAATATAAATTAA
196 TGGAGAGTGACCGCCTATAAACATGTTACCGTTTATAATTAAATCTCACACTAAATATAAATTAA
36191687 ATTAAATC-GATGGTGTC
261 ATTAAATCAG-TGGTGTC
36191704 C
1 C
36191705 GCAAGTGTAC
Statistics
Matches: 513, Mismatches: 41, Indels: 2
0.92 0.07 0.00
Matches are distributed among these distances:
276 1 0.00
277 512 1.00
ACGTcount: A:0.29, C:0.18, G:0.20, T:0.33
Consensus pattern (277 bp):
CACAAATTCATTCCACTATAATATTGTCATACCCTCTTTTGGAGAGCTGGTACTGTTTGGGAGAC
TGCACTGGAGAAGATCGCCTAAGTCGTGAGACTTAGACGAGATAAGGTTGGTAACTTTGTGGCAA
AGTACTTCATTGAACTTCGTCTATACTGCGAAGTTCCACTTCGCGGGGTGACAATTTCTTTGTTG
TGGAGAGTGACCGCCTATAAACATGTTACCGTTTATAATTAAATCTCACACTAAATATAAATTAA
ATTAAATCAGTGGTGTC
Found at i:36198032 original size:33 final size:33
Alignment explanation
Indices: 36197988--36198052 Score: 96
Period size: 33 Copynumber: 2.0 Consensus size: 33
36197978 GAAATAGTCC
36197988 GGGCCTGAGCCCTAAT-CAGTAACAGTACAGTGT
1 GGGCCTGAGCCC-AATACAGTAACAGTACAGTGT
* *
36198021 GGGCCTTAGCCCAATACAGTATCAGTACAGTG
1 GGGCCTGAGCCCAATACAGTAACAGTACAGTG
36198053 CAATTATGCA
Statistics
Matches: 29, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
32 3 0.10
33 26 0.90
ACGTcount: A:0.28, C:0.25, G:0.26, T:0.22
Consensus pattern (33 bp):
GGGCCTGAGCCCAATACAGTAACAGTACAGTGT
Found at i:36198182 original size:26 final size:26
Alignment explanation
Indices: 36198149--36198228 Score: 99
Period size: 26 Copynumber: 3.1 Consensus size: 26
36198139 AACACACCAA
**
36198149 TATCGCAGCAAAGCTGCCAGTATTAG
1 TATCGCAGCAAAGCTGCCAGTAACAG
* *
36198175 TATTGCAGTAAAGCTGCCAGTAACAG
1 TATCGCAGCAAAGCTGCCAGTAACAG
**
36198201 TATCATAGCAAAGCTGCCAGT-ACAG
1 TATCGCAGCAAAGCTGCCAGTAACAG
36198226 TAT
1 TAT
36198229 ACTTCCTCCA
Statistics
Matches: 46, Mismatches: 8, Indels: 1
0.84 0.15 0.02
Matches are distributed among these distances:
25 7 0.15
26 39 0.85
ACGTcount: A:0.34, C:0.21, G:0.21, T:0.24
Consensus pattern (26 bp):
TATCGCAGCAAAGCTGCCAGTAACAG
Found at i:36206701 original size:16 final size:18
Alignment explanation
Indices: 36206675--36206708 Score: 54
Period size: 17 Copynumber: 2.0 Consensus size: 18
36206665 CCAATTTTCG
36206675 TTTACTATCA-TTGCACA
1 TTTACTATCATTTGCACA
36206692 TTTA-TATCATTTGCACA
1 TTTACTATCATTTGCACA
36206709 ATATTATCAT
Statistics
Matches: 16, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
16 5 0.31
17 11 0.69
ACGTcount: A:0.29, C:0.21, G:0.06, T:0.44
Consensus pattern (18 bp):
TTTACTATCATTTGCACA
Found at i:36213731 original size:79 final size:81
Alignment explanation
Indices: 36213630--36213814 Score: 218
Period size: 79 Copynumber: 2.3 Consensus size: 81
36213620 GCTACTCGTT
* * *
36213630 CAAATGCCTTCGGGACATAGCCCGG-TTATAGTAACTCGCACAATTGCCTTCGGGA-CTTAACCC
1 CAAATGCCTTCGGGACTTAGCCCGGAAT-TAGTAACTCGCACAAATGCCTTC-GGATCTTAACCC
* *
36213693 GAATTTAGTAAC-TCGCA
64 GAATATAGTAACTTAGCA
* ** *
36213710 CAAATGCCTTCGGG-CTTAGCCCGGAATTAGTATCTCGCACAAATGCCTTCGGATCTTAGTCCGG
1 CAAATGCCTTCGGGACTTAGCCCGGAATTAGTAACTCGCACAAATGCCTTCGGATCTTAACCCGA
* *
36213774 ATATGGTCACTTAGCA
66 ATATAGTAACTTAGCA
36213790 CAAA-GCCTTCGGGACTTAGCCCGGA
1 CAAATGCCTTCGGGACTTAGCCCGGA
36213815 CATCATTCAA
Statistics
Matches: 90, Mismatches: 11, Indels: 8
0.83 0.10 0.07
Matches are distributed among these distances:
78 3 0.03
79 53 0.59
80 34 0.38
ACGTcount: A:0.25, C:0.28, G:0.22, T:0.25
Consensus pattern (81 bp):
CAAATGCCTTCGGGACTTAGCCCGGAATTAGTAACTCGCACAAATGCCTTCGGATCTTAACCCGA
ATATAGTAACTTAGCA
Found at i:36213814 original size:40 final size:40
Alignment explanation
Indices: 36213611--36213814 Score: 220
Period size: 40 Copynumber: 5.1 Consensus size: 40
36213601 CGGAATTTAA
** *
36213611 CCGGATATAGCT-ACTCGTTCAAATGCCTTCGGGACATAGC
1 CCGGATATAG-TAACTCGCACAAATGCCTTCGGGACTTAGC
* * *
36213651 CCGGTTATAGTAACTCGCACAATTGCCTTCGGGACTTAAC
1 CCGGATATAGTAACTCGCACAAATGCCTTCGGGACTTAGC
* *
36213691 CCGAATTTAGTAACTCGCACAAATGCCTTCGGG-CTTAGC
1 CCGGATATAGTAACTCGCACAAATGCCTTCGGGACTTAGC
* *
36213730 CCGGA-ATTAGTATCTCGCACAAATGCCTTC-GGATCTTAGT
1 CCGGATA-TAGTAACTCGCACAAATGCCTTCGGGA-CTTAGC
* * *
36213770 CCGGATATGGTCACTTAGCACAAA-GCCTTCGGGACTTAGC
1 CCGGATATAGTAAC-TCGCACAAATGCCTTCGGGACTTAGC
36213810 CCGGA
1 CCGGA
36213815 CATCATTCAA
Statistics
Matches: 137, Mismatches: 20, Indels: 14
0.80 0.12 0.08
Matches are distributed among these distances:
38 2 0.01
39 32 0.23
40 91 0.66
41 12 0.09
ACGTcount: A:0.25, C:0.27, G:0.22, T:0.25
Consensus pattern (40 bp):
CCGGATATAGTAACTCGCACAAATGCCTTCGGGACTTAGC
Found at i:36221533 original size:37 final size:37
Alignment explanation
Indices: 36221483--36221561 Score: 115
Period size: 37 Copynumber: 2.1 Consensus size: 37
36221473 TTATTACGAA
* *
36221483 GTCTTACCCGGACATAATCTCC-ACACGAAGTTATCGG
1 GTCTTACCCGGACAAAAT-TCCTACACGAAGTCATCGG
*
36221520 GTCTTACCCGGACAAAATTCCTACACGTAGTCATCGG
1 GTCTTACCCGGACAAAATTCCTACACGAAGTCATCGG
36221557 GTCTT
1 GTCTT
36221562 TAGAGCTCGG
Statistics
Matches: 38, Mismatches: 3, Indels: 2
0.88 0.07 0.05
Matches are distributed among these distances:
36 3 0.08
37 35 0.92
ACGTcount: A:0.25, C:0.29, G:0.19, T:0.27
Consensus pattern (37 bp):
GTCTTACCCGGACAAAATTCCTACACGAAGTCATCGG
Found at i:36221749 original size:16 final size:16
Alignment explanation
Indices: 36221728--36221768 Score: 73
Period size: 16 Copynumber: 2.6 Consensus size: 16
36221718 CCACTCGGCC
36221728 CTGTCACATATATACA
1 CTGTCACATATATACA
36221744 CTGTCACATATATACA
1 CTGTCACATATATACA
*
36221760 CTTTCACAT
1 CTGTCACAT
36221769 TCATCACATC
Statistics
Matches: 24, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
16 24 1.00
ACGTcount: A:0.34, C:0.27, G:0.05, T:0.34
Consensus pattern (16 bp):
CTGTCACATATATACA
Found at i:36221783 original size:63 final size:63
Alignment explanation
Indices: 36221684--36221815 Score: 174
Period size: 63 Copynumber: 2.1 Consensus size: 63
36221674 TCGGGACTTA
* * * * * *
36221684 TCACATTTATGCACTTTCACATCCATCACGTTGGCCACTCGGCCCTGTCACATATATACACTG
1 TCACATATATACACTTTCACATCCATCACATCGGCCACTAGGCCCTATCACATATATACACTG
* * * *
36221747 TCACATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATACACTT
1 TCACATATATACACTTTCACATCCATCACATCGGCCACTAGGCCCTATCACATATATACACTG
36221810 TCACAT
1 TCACAT
36221816 TCATCACATC
Statistics
Matches: 59, Mismatches: 10, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
63 59 1.00
ACGTcount: A:0.28, C:0.31, G:0.09, T:0.32
Consensus pattern (63 bp):
TCACATATATACACTTTCACATCCATCACATCGGCCACTAGGCCCTATCACATATATACACTG
Found at i:36221816 original size:47 final size:47
Alignment explanation
Indices: 36221747--36222268 Score: 330
Period size: 47 Copynumber: 10.4 Consensus size: 47
36221737 ATATACACTG
36221747 TCACATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTA
1 TCACATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTA
36221794 TCACATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTA
1 TCACATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTA
* *
36221841 TTACATATATACACTTTCACATTCATCACATCGGCTATTAGGCCTTA
1 TCACATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTA
** *
36221888 TCACATATATACACTTATCACACATATACACTTTCACATTCATCACA-TCGG-C-TA
1 TCACATATATACACTT-T--CACAT-T-CA---TCACA-TCGGC-CATTAGGCCTTA
* * * * *** * *
36221942 TTAGGCCT-TATCACACATATACACTTATCA-CACATATACACTTTCA--CATTCA
1 TCA--CATATAT-ACAC-T-TTCACAT-TCATCACATCGGC-CATT-AGGCCTT-A
* ** *
36221994 TCACATCGGCTATTAGGC-CTTATCACACATATACACTTTCACATTCATCACA-TCGG-C-TA
1 TCACAT---ATA-TA--CACTT-T--CACAT-T-CA---TCACA-TCGGC-CATTAGGCCTTA
* * * *
36222053 TTAGGCCT-TATCACACATATACACTTATTCATCACATCGGCTATTAGGCCTTA
1 TCA--CATATAT-ACAC-T-TTCAC--ATTCATCACATCGGCCATTAGGCCTTA
*
36222106 TCACACATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTA
1 TCACATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTA
36222153 TCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTA
1 TCAC--ATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTA
*
36222202 TCACACATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTA
1 TCACATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTA
36222249 TCACATATATATACACTTTC
1 TCAC--ATATATACACTTTC
36222269 TTGGCTGAAT
Statistics
Matches: 379, Mismatches: 42, Indels: 106
0.72 0.08 0.20
Matches are distributed among these distances:
47 183 0.48
48 1 0.00
49 67 0.18
50 14 0.04
51 13 0.03
52 14 0.04
53 5 0.01
54 10 0.03
55 23 0.06
56 22 0.06
57 10 0.03
58 2 0.01
59 3 0.01
60 1 0.00
61 7 0.02
62 4 0.01
ACGTcount: A:0.31, C:0.29, G:0.08, T:0.32
Consensus pattern (47 bp):
TCACATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTA
Found at i:36221906 original size:17 final size:17
Alignment explanation
Indices: 36221884--36221990 Score: 79
Period size: 17 Copynumber: 6.6 Consensus size: 17
36221874 GCTATTAGGC
36221884 CTTATCACATATATACA
1 CTTATCACATATATACA
*
36221901 CTTATCACACATATACA
1 CTTATCACATATATACA
36221918 CTT-TCACAT-TCAT-CA
1 CTTATCACATAT-ATACA
*
36221933 C--ATCGGC-TAT-TAGGC-
1 CTTATC-ACATATATA--CA
*
36221948 CTTATCACACATATACA
1 CTTATCACATATATACA
*
36221965 CTTATCACACATATACA
1 CTTATCACATATATACA
36221982 CTT-TCACAT
1 CTTATCACAT
36221991 TCATCACATC
Statistics
Matches: 72, Mismatches: 6, Indels: 25
0.70 0.06 0.24
Matches are distributed among these distances:
13 1 0.01
14 3 0.04
15 7 0.10
16 15 0.21
17 44 0.61
18 2 0.03
ACGTcount: A:0.35, C:0.29, G:0.04, T:0.33
Consensus pattern (17 bp):
CTTATCACATATATACA
Found at i:36221915 original size:64 final size:64
Alignment explanation
Indices: 36221837--36222036 Score: 366
Period size: 64 Copynumber: 3.1 Consensus size: 64
36221827 GCCATTAGGC
* * *
36221837 CTTATTACATATATACACTTTCACATTCATCACATCGGCTATTAGGCCTTATCACATATATACA
1 CTTATCACACATATACACTTTCACATTCATCACATCGGCTATTAGGCCTTATCACACATATACA
36221901 CTTATCACACATATACACTTTCACATTCATCACATCGGCTATTAGGCCTTATCACACATATACA
1 CTTATCACACATATACACTTTCACATTCATCACATCGGCTATTAGGCCTTATCACACATATACA
36221965 CTTATCACACATATACACTTTCACATTCATCACATCGGCTATTAGGCCTTATCACACATATACA
1 CTTATCACACATATACACTTTCACATTCATCACATCGGCTATTAGGCCTTATCACACATATACA
36222029 CTT-TCACA
1 CTTATCACA
36222037 TTCATCACAT
Statistics
Matches: 133, Mismatches: 3, Indels: 1
0.97 0.02 0.01
Matches are distributed among these distances:
63 5 0.04
64 128 0.96
ACGTcount: A:0.33, C:0.28, G:0.06, T:0.33
Consensus pattern (64 bp):
CTTATCACACATATACACTTTCACATTCATCACATCGGCTATTAGGCCTTATCACACATATACA
Found at i:36221931 original size:111 final size:111
Alignment explanation
Indices: 36221790--36222126 Score: 414
Period size: 111 Copynumber: 3.1 Consensus size: 111
36221780 GCCATTAGGC
* * * *
36221790 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATTACATATATACAC
1 CTTATCACACATATACACTTTCACATTCATCACATCGGCTATTAGGCCTTATCACACATATACAC
36221855 TTTCACATTCATCACATCGGCTATTAGGCCTTATCACATATATACA
66 TTTCACATTCATCACATCGGCTATTAGGCCTTATCACATATATACA
36221901 CTTATCACACATATACACTTTCACATTCATCACATCGGCTATTAGGCCTTATCACACATATACAC
1 CTTATCACACATATACACTTTCACATTCATCACATCGGCTATTAGGCCTTATCACACATATACAC
* * * *
36221966 TTATCACA--CAT-ATA-C-ACT-TTCA--CATTCATCACATCGGCTATTAGGC-
66 TT-TCACATTCATCACATCGGCTATT-AGGCCTT-ATCACAT---ATA-TA--CA
36222012 CTTATCACACATATACACTTTCACATTCATCACATCGGCTATTAGGCCTTATCACACATATACAC
1 CTTATCACACATATACACTTTCACATTCATCACATCGGCTATTAGGCCTTATCACACATATACAC
*
36222077 -TT---ATTCATCACATCGGCTATTAGGCCTTATCACACATATACA
66 TTTCACATTCATCACATCGGCTATTAGGCCTTATCACATATATACA
36222119 CTT-TCACA
1 CTTATCACA
36222127 TTCATCACAT
Statistics
Matches: 195, Mismatches: 13, Indels: 41
0.78 0.05 0.16
Matches are distributed among these distances:
105 3 0.02
106 16 0.08
107 6 0.03
108 6 0.03
109 9 0.05
110 7 0.04
111 131 0.67
112 14 0.07
113 3 0.02
ACGTcount: A:0.31, C:0.29, G:0.07, T:0.33
Consensus pattern (111 bp):
CTTATCACACATATACACTTTCACATTCATCACATCGGCTATTAGGCCTTATCACACATATACAC
TTTCACATTCATCACATCGGCTATTAGGCCTTATCACATATATACA
Found at i:36222230 original size:96 final size:96
Alignment explanation
Indices: 36221975--36222268 Score: 519
Period size: 96 Copynumber: 3.1 Consensus size: 96
36221965 CTTATCACAC
36221975 ATATACACTTTCACATTCATCACATCGGCTATTAGGCCTTATCACACATATACACTTTCACATTC
1 ATATACACTTTCACATTCATCACATCGGCTATTAGGCCTTATCACACATATACACTTTCACATTC
* *
36222040 ATCACATCGGCTATTAGGCCTTATCAC--AC
66 ATCACATCGGCCATTAGGCCTTATCACATAT
36222069 ATATACAC-TT---ATTCATCACATCGGCTATTAGGCCTTATCACACATATACACTTTCACATTC
1 ATATACACTTTCACATTCATCACATCGGCTATTAGGCCTTATCACACATATACACTTTCACATTC
36222130 ATCACATCGGCCATTAGGCCTTATCACATAT
66 ATCACATCGGCCATTAGGCCTTATCACATAT
*
36222161 ATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACACATATACACTTTCACATTC
1 ATATACACTTTCACATTCATCACATCGGCTATTAGGCCTTATCACACATATACACTTTCACATTC
36222226 ATCACATCGGCCATTAGGCCTTATCACATAT
66 ATCACATCGGCCATTAGGCCTTATCACATAT
36222257 ATATACACTTTC
1 ATATACACTTTC
36222269 TTGGCTGAAT
Statistics
Matches: 191, Mismatches: 3, Indels: 10
0.94 0.01 0.05
Matches are distributed among these distances:
90 77 0.40
92 9 0.05
93 4 0.02
94 8 0.04
96 93 0.49
ACGTcount: A:0.30, C:0.29, G:0.08, T:0.32
Consensus pattern (96 bp):
ATATACACTTTCACATTCATCACATCGGCTATTAGGCCTTATCACACATATACACTTTCACATTC
ATCACATCGGCCATTAGGCCTTATCACATAT
Found at i:36225851 original size:40 final size:40
Alignment explanation
Indices: 36225802--36225904 Score: 102
Period size: 40 Copynumber: 2.5 Consensus size: 40
36225792 CCAGCATGAT
* *
36225802 TGCTCTTCGGGACTTAGCCCGGATTTAGTAAC-TCGCACCAA
1 TGCT-TTCGGGACTTAGCCCGGATATAGTAACTTAGCA-CAA
* * *
36225843 TGCTTTC-GGATCTTAGTCCGGATATGGTCACTTAGCACAA
1 TGCTTTCGGGA-CTTAGCCCGGATATAGTAACTTAGCACAA
* *
36225883 AGCCTTCGGGACTTAGCCCGGA
1 TGCTTTCGGGACTTAGCCCGGA
36225905 CATCATTCGA
Statistics
Matches: 51, Mismatches: 8, Indels: 7
0.77 0.12 0.11
Matches are distributed among these distances:
39 3 0.06
40 37 0.73
41 11 0.22
ACGTcount: A:0.21, C:0.27, G:0.24, T:0.27
Consensus pattern (40 bp):
TGCTTTCGGGACTTAGCCCGGATATAGTAACTTAGCACAA
Found at i:36226249 original size:29 final size:29
Alignment explanation
Indices: 36226210--36226288 Score: 106
Period size: 29 Copynumber: 2.7 Consensus size: 29
36226200 CTTAATAATC
*
36226210 AACCACGCACACTTAGTGCCATGTACTTT-A
1 AACC-CGCACACTTAGTGCCATGCA-TTTCA
*
36226240 AACTCGCACACTTAGTGCCATGCATTTCA
1 AACCCGCACACTTAGTGCCATGCATTTCA
*
36226269 AGCCCGCACACTTAGTGCCA
1 AACCCGCACACTTAGTGCCA
36226289 ATCTCACAAC
Statistics
Matches: 44, Mismatches: 4, Indels: 3
0.86 0.08 0.06
Matches are distributed among these distances:
28 3 0.07
29 38 0.86
30 3 0.07
ACGTcount: A:0.28, C:0.33, G:0.15, T:0.24
Consensus pattern (29 bp):
AACCCGCACACTTAGTGCCATGCATTTCA
Found at i:36227785 original size:47 final size:47
Alignment explanation
Indices: 36227716--36228023 Score: 463
Period size: 47 Copynumber: 6.5 Consensus size: 47
36227706 ATCTTCGGGA
* * * * * * *
36227716 CTTATCACATTTATGCACTTTCACATCCATCACGTTGGCCACTCGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
* * *
36227763 CCTGTCACATATATACAATTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
36227810 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
* *
36227857 CTTATTACATATATACACTTTCACATTCATCACATCGGCTATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
*
36227904 CTTATCACATATATACACTTTCACATTCATCACATCGGCTATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
* *
36227951 CTTATCACACATATACACTTTCACATTCATCACATCGGCTATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
*
36227998 CTTATCACACATATACACTTATCACA
1 CTTATCACATATATACACTT-TCACA
36228024 CATATACACT
Statistics
Matches: 243, Mismatches: 17, Indels: 1
0.93 0.07 0.00
Matches are distributed among these distances:
47 238 0.98
48 5 0.02
ACGTcount: A:0.29, C:0.30, G:0.09, T:0.32
Consensus pattern (47 bp):
CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
Found at i:36227835 original size:38 final size:42
Alignment explanation
Indices: 36227783--36228360 Score: 325
Period size: 47 Copynumber: 13.0 Consensus size: 42
36227773 ATATACAATT
36227783 TCACATTCATCACATCGGCCATTAGGCCTTATCACATATATACA
1 TCACATT-ATCACATCGGCCATTAGGCCTTATCACATATATA-A
*
36227827 CTTTCACATTCATCACATCGGCCATTAGGCCTTATTACATATATACA
1 ---TCACATT-ATCACATCGGCCATTAGGCCTTATCACATATATA-A
*
36227874 CTTTCACATTCATCACATCGGCTATTAGGCCTTATCACATATATACA
1 ---TCACATT-ATCACATCGGCCATTAGGCCTTATCACATATATA-A
* *
36227921 CTTTCACATTCATCACATCGGCTATTAGGCCTTATCACACATATACA
1 ---TCACATT-ATCACATCGGCCATTAGGCCTTATCACATATATA-A
* *
36227968 CTTTCACATTCATCACATCGGCTATTAGGCCTTATCACACATAT-A
1 ---TCACATT-ATCACATCGGCCATTAGGCCTTATCACATATATAA
*
36228013 -CAC-TTATCACA-----CATATA--CACTT-TCAC--AT-TCA
1 TCACATTATCACATCGGCCAT-TAGGC-CTTATCACATATATAA
*** * * * * * *
36228044 TCACATCGGCTA-TTAGGCC-TTA-TCAC--A-CATATACACT-T
1 TCACATTATC-ACATCGGCCATTAGGC-CTTATCACATATA-TAA
* *
36228082 TCACATTCATCACATCGGCTATTAGGCCTTATCACACATATACA
1 TCACATT-ATCACATCGGCCATTAGGCCTTATCACATATATA-A
* *
36228126 CTTTCACATTCATCACATCGGCTATTAGGCCTTATCACACATATACA
1 ---TCACATT-ATCACATCGGCCATTAGGCCTTATCACATATATA-A
36228173 CTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATATACA
1 ---TCACATT-ATCACATCGGCCATTAGGCCTTATCAC--ATATATA-A
36228222 CTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATACA
1 ---TCACATT-ATCACATCGGCCATTAGGCCTTATCACATATATA-A
* *
36228269 CTTTCACATTCATCACATCGGCTATTAGGCCTTATCACACATATACA
1 ---TCACATT-ATCACATCGGCCATTAGGCCTTATCACATATATA-A
36228316 CTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATA
1 ---TCACATT-ATCACATCGGCCATTAGGCCTTATCACATATATA
36228361 CACTTTCTTG
Statistics
Matches: 471, Mismatches: 29, Indels: 62
0.84 0.05 0.11
Matches are distributed among these distances:
30 1 0.00
31 3 0.01
32 3 0.01
33 7 0.01
34 6 0.01
35 4 0.01
36 2 0.00
37 5 0.01
38 8 0.02
39 12 0.03
40 6 0.01
41 4 0.01
42 2 0.00
43 5 0.01
45 1 0.00
47 356 0.76
49 46 0.10
ACGTcount: A:0.30, C:0.29, G:0.08, T:0.32
Consensus pattern (42 bp):
TCACATTATCACATCGGCCATTAGGCCTTATCACATATATAA
Found at i:36227841 original size:94 final size:94
Alignment explanation
Indices: 36227716--36228367 Score: 473
Period size: 94 Copynumber: 6.7 Consensus size: 94
36227706 ATCTTCGGGA
* * * * * * * * * *
36227716 CTTATCACATTTATGCACTTTCACATCCATCACGTTGGCCACTCGGCCCTGTCACATATATACAA
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATACAC
*
36227781 TTTCACATTCATCACATCGGCCATTAGGC
66 TTTCACATTCATCACATCGGCTATTAGGC
*
36227810 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATTACATATATACAC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATACAC
36227875 TTTCACATTCATCACATCGGCTATTAGGC
66 TTTCACATTCATCACATCGGCTATTAGGC
* *
36227904 CTTATCACATATATACACTTTCACATTCATCACATCGGCTATTAGGCCTTATCACACATATACAC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATACAC
36227969 TTTCACATTCATCACATCGGCTATTAGGC
66 TTTCACATTCATCACATCGGCTATTAGGC
* ** * *
36227998 CTTATCACACATATACACTTATCACACATATACACTTTCACATTCATCACA-TCGG-C-TATTAG
1 CTTATCACATATATACACTT-T--CACAT-T-CA---TCACA-TCGGC-CATTAGGCCTTATCA-
* * * * *
36228060 GCCT-TATCACACATATACACTTTCA-CATTCATC-AC-A-TCGG-
55 -CATATAT-ACAC-T-TTCACATTCATCA--CATCGGCTATTAGGC
* * * * * * * *
36228100 C-TATTAGGCCT-TATCACACATATACACTTTCA-CATTCATC--ACA-TCGG-C-TATTAGGCC
1 CTTATCA--CATATAT-ACAC-T-TTCACATTCATCA--CATCGGCCATTAGGCCTTATCA--CA
* * *
36228157 T-TATCACACATATACACTTTCA-CATTCATC-AC-ATCGGCCATTAGGC
57 TATAT-ACAC-T-TTCACATTCATCA--CATCGGCTAT-------TAGGC
36228203 CTTATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATAC
1 CTTATCAC--ATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATAC
36228268 ACTTTCACATTCATCACATCGGCTATTAGGC
64 ACTTTCACATTCATCACATCGGCTATTAGGC
*
36228299 CTTATCACACATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATACAC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATACAC
36228364 TTTC
66 TTTC
36228368 TTGGCTGAAT
Statistics
Matches: 465, Mismatches: 46, Indels: 94
0.77 0.08 0.16
Matches are distributed among these distances:
94 301 0.65
95 1 0.00
96 15 0.03
97 7 0.02
98 3 0.01
99 2 0.00
100 2 0.00
101 17 0.04
102 38 0.08
103 30 0.06
104 24 0.05
105 17 0.04
106 8 0.02
ACGTcount: A:0.30, C:0.30, G:0.08, T:0.32
Consensus pattern (94 bp):
CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATACAC
TTTCACATTCATCACATCGGCTATTAGGC
Found at i:36227970 original size:141 final size:141
Alignment explanation
Indices: 36227716--36228367 Score: 944
Period size: 141 Copynumber: 4.5 Consensus size: 141
36227706 ATCTTCGGGA
* * * * * * * * * *
36227716 CTTATCACATTTATGCACTTTCACATCCATCACGTTGGCCACTCGGCCCTGTCACATATATACAA
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATACAC
*
36227781 TTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATACACTTTCACATTCATCACATC
66 TTTCACATTCATCACATCGGCCATTAGGCCTTATCACACATATACACTTTCACATTCATCACATC
*
36227846 GGCCATTAGGC
131 GGCTATTAGGC
* *
36227857 CTTATTACATATATACACTTTCACATTCATCACATCGGCTATTAGGCCTTATCACATATATACAC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATACAC
*
36227922 TTTCACATTCATCACATCGGCTATTAGGCCTTATCACACATATACACTTTCACATTCATCACATC
66 TTTCACATTCATCACATCGGCCATTAGGCCTTATCACACATATACACTTTCACATTCATCACATC
36227987 GGCTATTAGGC
131 GGCTATTAGGC
*
36227998 CTTATCACACATATACACTTATCACACATATACACTTTCACATTCATCACATCGGCTATTAGGCC
1 C---T------TAT-CAC--AT-----ATATACACTTTCACATTCATCACATCGGCCATTAGGCC
* *
36228063 TTATCACACATATACACTTTCACATTCATCACATCGGCTATTAGGCCTTATCACACATATACACT
49 TTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACACATATACACT
36228128 TTCACATTCATCACATCGGCTATTAGGC
114 TTCACATTCATCACATCGGCTATTAGGC
*
36228156 CTTATCACACATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATATAC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCAC--ATATATAC
*
36228221 ACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATACACTTTCACATTCATCACA
64 ACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACACATATACACTTTCACATTCATCACA
36228286 TCGGCTATTAGGC
129 TCGGCTATTAGGC
*
36228299 CTTATCACACATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATACAC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATACAC
36228364 TTTC
66 TTTC
36228368 TTGGCTGAAT
Statistics
Matches: 470, Mismatches: 22, Indels: 38
0.89 0.04 0.07
Matches are distributed among these distances:
141 185 0.39
143 138 0.29
144 1 0.00
146 1 0.00
148 3 0.01
149 3 0.01
150 3 0.01
151 2 0.00
153 2 0.00
155 1 0.00
158 131 0.28
ACGTcount: A:0.30, C:0.30, G:0.08, T:0.32
Consensus pattern (141 bp):
CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATACAC
TTTCACATTCATCACATCGGCCATTAGGCCTTATCACACATATACACTTTCACATTCATCACATC
GGCTATTAGGC
Found at i:36228020 original size:17 final size:17
Alignment explanation
Indices: 36227998--36228039 Score: 77
Period size: 17 Copynumber: 2.5 Consensus size: 17
36227988 GCTATTAGGC
36227998 CTTATCACACATATACA
1 CTTATCACACATATACA
36228015 CTTATCACACATATACA
1 CTTATCACACATATACA
36228032 CTT-TCACA
1 CTTATCACA
36228040 TTCATCACAT
Statistics
Matches: 25, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
16 5 0.20
17 20 0.80
ACGTcount: A:0.38, C:0.31, G:0.00, T:0.31
Consensus pattern (17 bp):
CTTATCACACATATACA
Found at i:36228026 original size:64 final size:64
Alignment explanation
Indices: 36227951--36228086 Score: 265
Period size: 64 Copynumber: 2.1 Consensus size: 64
36227941 GCTATTAGGC
36227951 CTTATCACACATATACACTTTCACATTCATCACATCGGCTATTAGGCCTTATCACACATATACA
1 CTTATCACACATATACACTTTCACATTCATCACATCGGCTATTAGGCCTTATCACACATATACA
36228015 CTTATCACACATATACACTTTCACATTCATCACATCGGCTATTAGGCCTTATCACACATATACA
1 CTTATCACACATATACACTTTCACATTCATCACATCGGCTATTAGGCCTTATCACACATATACA
36228079 CTT-TCACA
1 CTTATCACA
36228087 TTCATCACAT
Statistics
Matches: 72, Mismatches: 0, Indels: 1
0.99 0.00 0.01
Matches are distributed among these distances:
63 5 0.07
64 67 0.93
ACGTcount: A:0.32, C:0.30, G:0.06, T:0.32
Consensus pattern (64 bp):
CTTATCACACATATACACTTTCACATTCATCACATCGGCTATTAGGCCTTATCACACATATACA
Found at i:36228033 original size:111 final size:111
Alignment explanation
Indices: 36227904--36228133 Score: 444
Period size: 111 Copynumber: 2.1 Consensus size: 111
36227894 GCTATTAGGC
*
36227904 CTTATCACATATATACACTTTCACATTCATCACATCGGCTATTAGGCCTTATCACACATATACAC
1 CTTATCACACATATACACTTTCACATTCATCACATCGGCTATTAGGCCTTATCACACATATACAC
36227969 TTTCACATTCATCACATCGGCTATTAGGCCTTATCACACATATACA
66 TTTCACATTCATCACATCGGCTATTAGGCCTTATCACACATATACA
36228015 CTTATCACACATATACACTTTCACATTCATCACATCGGCTATTAGGCCTTATCACACATATACAC
1 CTTATCACACATATACACTTTCACATTCATCACATCGGCTATTAGGCCTTATCACACATATACAC
36228080 TTTCACATTCATCACATCGGCTATTAGGCCTTATCACACATATACA
66 TTTCACATTCATCACATCGGCTATTAGGCCTTATCACACATATACA
36228126 CTT-TCACA
1 CTTATCACA
36228134 TTCATCACAT
Statistics
Matches: 118, Mismatches: 1, Indels: 1
0.98 0.01 0.01
Matches are distributed among these distances:
110 5 0.04
111 113 0.96
ACGTcount: A:0.31, C:0.30, G:0.07, T:0.32
Consensus pattern (111 bp):
CTTATCACACATATACACTTTCACATTCATCACATCGGCTATTAGGCCTTATCACACATATACAC
TTTCACATTCATCACATCGGCTATTAGGCCTTATCACACATATACA
Found at i:36228054 original size:158 final size:158
Alignment explanation
Indices: 36227857--36228323 Score: 736
Period size: 158 Copynumber: 3.1 Consensus size: 158
36227847 GCCATTAGGC
* *
36227857 CTTATTACATATATACACTTTCACATTCATCACATCGGCTATTAGGCCTTATCACATATATACAC
1 CTTATCACACATATACACTTTCACATTCATCACATCGGCTATTAGGCCTTATCACATATATACAC
36227922 TTTCACATTCATCACATCGGCTATTAGGCCTTATCACACATATACACTTTCACATTCATCACATC
66 TTTCACATTCATCACATCGGCTATTAGGCCTTATCACACATATACACTTTCACATTCATCACATC
36227987 GGCTATTAGGCCTTATCACACATATACA
131 GGCTATTAGGCCTTATCACACATATACA
*
36228015 CTTATCACACATATACACTTTCACATTCATCACATCGGCTATTAGGCCTTATCACACATATACAC
1 CTTATCACACATATACACTTTCACATTCATCACATCGGCTATTAGGCCTTATCACATATATACAC
36228080 TTTCACATTCATCACATCGGCTATTAGGCCTTATCACACATATACACTTTCACATTCATCACATC
66 TTTCACATTCATCACATCGGCTATTAGGCCTTATCACACATATACACTTTCACATTCATCACATC
36228145 GGCTATTAGG----------------C-
131 GGCTATTAGGCCTTATCACACATATACA
*
36228156 CTTATCACACATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATATAC
1 CTTATCACACATATACACTTTCACATTCATCACATCGGCTATTAGGCCTTATCAC--ATATATAC
* *
36228221 ACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATACACTTTCACATTCATCACA
64 ACTTTCACATTCATCACATCGGCTATTAGGCCTTATCACACATATACACTTTCACATTCATCACA
36228286 TCGGCTATTAGGCCTTATCACACATATACA
129 TCGGCTATTAGGCCTTATCACACATATACA
36228316 CTT-TCACA
1 CTTATCACA
36228324 TTCATCACAT
Statistics
Matches: 283, Mismatches: 7, Indels: 37
0.87 0.02 0.11
Matches are distributed among these distances:
141 54 0.19
142 1 0.00
143 82 0.29
158 137 0.48
159 6 0.02
160 3 0.01
ACGTcount: A:0.31, C:0.29, G:0.08, T:0.33
Consensus pattern (158 bp):
CTTATCACACATATACACTTTCACATTCATCACATCGGCTATTAGGCCTTATCACATATATACAC
TTTCACATTCATCACATCGGCTATTAGGCCTTATCACACATATACACTTTCACATTCATCACATC
GGCTATTAGGCCTTATCACACATATACA
Found at i:36228066 original size:47 final size:47
Alignment explanation
Indices: 36228015--36228367 Score: 634
Period size: 47 Copynumber: 7.5 Consensus size: 47
36228005 CACATATACA
36228015 CTTATCACACATATACACTTTCACATTCATCACATCGGCTATTAGGC
1 CTTATCACACATATACACTTTCACATTCATCACATCGGCTATTAGGC
36228062 CTTATCACACATATACACTTTCACATTCATCACATCGGCTATTAGGC
1 CTTATCACACATATACACTTTCACATTCATCACATCGGCTATTAGGC
36228109 CTTATCACACATATACACTTTCACATTCATCACATCGGCTATTAGGC
1 CTTATCACACATATACACTTTCACATTCATCACATCGGCTATTAGGC
*
36228156 CTTATCACACATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACACATATACACTTTCACATTCATCACATCGGCTATTAGGC
* *
36228203 CTTATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCAC--ACATATACACTTTCACATTCATCACATCGGCTATTAGGC
*
36228252 CTTATCACATATATACACTTTCACATTCATCACATCGGCTATTAGGC
1 CTTATCACACATATACACTTTCACATTCATCACATCGGCTATTAGGC
*
36228299 CTTATCACACATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACACATATACACTTTCACATTCATCACATCGGCTATTAGGC
*
36228346 CTTATCACATATATACACTTTC
1 CTTATCACACATATACACTTTC
36228368 TTGGCTGAAT
Statistics
Matches: 298, Mismatches: 6, Indels: 4
0.97 0.02 0.01
Matches are distributed among these distances:
47 252 0.85
49 46 0.15
ACGTcount: A:0.30, C:0.30, G:0.08, T:0.32
Consensus pattern (47 bp):
CTTATCACACATATACACTTTCACATTCATCACATCGGCTATTAGGC
Found at i:36228162 original size:205 final size:196
Alignment explanation
Indices: 36227716--36228367 Score: 945
Period size: 205 Copynumber: 3.4 Consensus size: 196
36227706 ATCTTCGGGA
** * * * * * * * * * * *
36227716 CTTATCACATTTATGCACTTTCACATCCATCACGTTGGCCACTCGGCCCTGTCACATATATACAA
1 CTTATCACACATATACACTTTCACATTCATCACATCGGCTATTAGGCCTTATCACACATATACAC
36227781 TTTCACATTCATCACATCGGCCATTAGGCCTTAT--CAC--AT----ATATACACTTTCACATTC
66 TTTCACATTCATCACATCGGCCATTAGGCCTTATCACACTTATCACAATATACACTTTCACATTC
*
36227838 ATCACATCGGCCATTAGGCCTTATTACATATATACACTTTCACATTCATCACATCGGCTATTAGG
131 ATCACATCGGCCATTAGGCCTTATCACATATATACACTTTCACATTCATCACATCGGCTATTAGG
36227903 C
196 C
*
36227904 CTTATCACATATATACACTTTCACATTCATCACATCGGCTATTAGGCCTTATCACACATATACAC
1 CTTATCACACATATACACTTTCACATTCATCACATCGGCTATTAGGCCTTATCACACATATACAC
*
36227969 TTTCACATTCATCACATCGGCTATTAGGCCTTATCACACATATACACTTATCACACATATACACT
66 TTTCACATTCATCACATCGGCCATTAGGCCTTAT----C----ACACTTATCACA-ATATACACT
* *
36228034 TTCACATTCATCACATCGGCTATTAGGCCTTATCACACATATACACTTTCACATTCATCACATCG
122 TTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATACACTTTCACATTCATCACATCG
36228099 GCTATTAGGC
187 GCTATTAGGC
36228109 CTTATCACACATATACACTTTCACATTCATCACATCGGCTATTAGGCCTTATCACACATATACAC
1 CTTATCACACATATACACTTTCACATTCATCACATCGGCTATTAGGCCTTATCACACATATACAC
36228174 TTTCACATTCATCACATCGGCCATTAGGCCTTATCACA--TAT----ATATACACTTTCACATTC
66 TTTCACATTCATCACATCGGCCATTAGGCCTTATCACACTTATCACAATATACACTTTCACATTC
36228233 ATCACATCGGCCATTAGGCCTTATCACATATATACACTTTCACATTCATCACATCGGCTATTAGG
131 ATCACATCGGCCATTAGGCCTTATCACATATATACACTTTCACATTCATCACATCGGCTATTAGG
36228298 C
196 C
* *
36228299 CTTATCACACATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATACAC
1 CTTATCACACATATACACTTTCACATTCATCACATCGGCTATTAGGCCTTATCACACATATACAC
36228364 TTTC
66 TTTC
36228368 TTGGCTGAAT
Statistics
Matches: 425, Mismatches: 22, Indels: 32
0.89 0.05 0.07
Matches are distributed among these distances:
188 86 0.20
190 149 0.35
195 3 0.01
197 3 0.01
198 3 0.01
200 2 0.00
201 1 0.00
205 178 0.42
ACGTcount: A:0.30, C:0.30, G:0.08, T:0.32
Consensus pattern (196 bp):
CTTATCACACATATACACTTTCACATTCATCACATCGGCTATTAGGCCTTATCACACATATACAC
TTTCACATTCATCACATCGGCCATTAGGCCTTATCACACTTATCACAATATACACTTTCACATTC
ATCACATCGGCCATTAGGCCTTATCACATATATACACTTTCACATTCATCACATCGGCTATTAGG
C
Found at i:36234149 original size:13 final size:13
Alignment explanation
Indices: 36234131--36234158 Score: 56
Period size: 13 Copynumber: 2.2 Consensus size: 13
36234121 TTAAGCTTCC
36234131 CATGAAATAACTT
1 CATGAAATAACTT
36234144 CATGAAATAACTT
1 CATGAAATAACTT
36234157 CA
1 CA
36234159 ACCTTGAATT
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 15 1.00
ACGTcount: A:0.46, C:0.18, G:0.07, T:0.29
Consensus pattern (13 bp):
CATGAAATAACTT
Found at i:36239496 original size:13 final size:13
Alignment explanation
Indices: 36239478--36239502 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
36239468 TTAATTTGTA
36239478 AAATTATATTAAC
1 AAATTATATTAAC
36239491 AAATTATATTAA
1 AAATTATATTAA
36239503 TTTGTACTTA
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.56, C:0.04, G:0.00, T:0.40
Consensus pattern (13 bp):
AAATTATATTAAC
Found at i:36242471 original size:27 final size:27
Alignment explanation
Indices: 36242431--36242497 Score: 82
Period size: 27 Copynumber: 2.5 Consensus size: 27
36242421 CCATTCTATG
* *
36242431 TTAACATCCTATTAGACTATCCC-GTGT
1 TTAACGTCCCATTAGACTA-CCCTGTGT
* *
36242458 TTAGCGTCCCATTAGGCTACCCTGTGT
1 TTAACGTCCCATTAGACTACCCTGTGT
36242485 TTAACGTCCCATT
1 TTAACGTCCCATT
36242498 GGGCTATCTA
Statistics
Matches: 34, Mismatches: 5, Indels: 2
0.83 0.12 0.05
Matches are distributed among these distances:
26 3 0.09
27 31 0.91
ACGTcount: A:0.21, C:0.28, G:0.15, T:0.36
Consensus pattern (27 bp):
TTAACGTCCCATTAGACTACCCTGTGT
Found at i:36242639 original size:45 final size:44
Alignment explanation
Indices: 36242583--36242793 Score: 190
Period size: 45 Copynumber: 4.7 Consensus size: 44
36242573 ACTATCAAAG
* * * * * *
36242583 GATGTCATAGCATCTCTCAGCTATGGTCTTAGTCTTGTTTACCAT
1 GATGCCATAGCATCTTTCAACTATGGTCTTAATCTT-TATATCAT
* * *
36242628 GATGCCATAGCATCTTTCAACTATGGTCTTACTCATTTCTGTCAT
1 GATGCCATAGCATCTTTCAACTATGGTCTTAATC-TTTATATCAT
* * ***
36242673 AATGCCATAGGCATCTTTCAGCTATGGTCTTAAAAATTATATCAT
1 GATGCCATA-GCATCTTTCAACTATGGTCTTAATCTTTATATCAT
* * ** *
36242718 GATGCCATAACATCTTTCAACTATGGTCTTACAAACCAT-TGTCAT
1 GATGCCATAGCATCTTTCAACTATGGTCTT--AATCTTTATATCAT
*
36242763 GATGCCATAACATCTTTCAACTATGGTCTTA
1 GATGCCATAGCATCTTTCAACTATGGTCTTA
36242794 CTCATTTTAG
Statistics
Matches: 140, Mismatches: 22, Indels: 10
0.81 0.13 0.06
Matches are distributed among these distances:
43 1 0.01
44 19 0.14
45 93 0.66
46 27 0.19
ACGTcount: A:0.27, C:0.22, G:0.14, T:0.37
Consensus pattern (44 bp):
GATGCCATAGCATCTTTCAACTATGGTCTTAATCTTTATATCAT
Found at i:36242741 original size:90 final size:89
Alignment explanation
Indices: 36242625--36242793 Score: 241
Period size: 90 Copynumber: 1.9 Consensus size: 89
36242615 TCTTGTTTAC
* ** ** *
36242625 CATGATGCCATAGCATCTTTCAACTATGGTCTTACTCA-TTTCTGTCATAATGCCATAGGCATCT
1 CATGATGCCATAACATCTTTCAACTATGGTCTTACAAACCAT-TGTCATAATGCCATA-ACATCT
*
36242689 TTCAGCTATGGTCTTAAAAATTATAT
64 TTCAACTATGGTCTTAAAAATTATAT
*
36242715 CATGATGCCATAACATCTTTCAACTATGGTCTTACAAACCATTGTCATGATGCCATAACATCTTT
1 CATGATGCCATAACATCTTTCAACTATGGTCTTACAAACCATTGTCATAATGCCATAACATCTTT
36242780 CAACTATGGTCTTA
66 CAACTATGGTCTTA
36242794 CTCATTTTAG
Statistics
Matches: 70, Mismatches: 8, Indels: 3
0.86 0.10 0.04
Matches are distributed among these distances:
89 20 0.29
90 49 0.70
91 1 0.01
ACGTcount: A:0.29, C:0.22, G:0.12, T:0.36
Consensus pattern (89 bp):
CATGATGCCATAACATCTTTCAACTATGGTCTTACAAACCATTGTCATAATGCCATAACATCTTT
CAACTATGGTCTTAAAAATTATAT
Found at i:36242794 original size:45 final size:44
Alignment explanation
Indices: 36242625--36242794 Score: 207
Period size: 45 Copynumber: 3.8 Consensus size: 44
36242615 TCTTGTTTAC
* ** *
36242625 CATGATGCCATAGCATCTTTCAACTATGGTCTTACTCATTTCTGT
1 CATGATGCCATAACATCTTTCAACTATGGTCTTACAAATAT-TGT
* * * * *
36242670 CATAATGCCATAGGCATCTTTCAGCTATGGTCTTAAAAAT-TATAT
1 CATGATGCCATA-ACATCTTTCAACTATGGTCTTACAAATAT-TGT
*
36242715 CATGATGCCATAACATCTTTCAACTATGGTCTTACAAACCATTGT
1 CATGATGCCATAACATCTTTCAACTATGGTCTTACAAA-TATTGT
36242760 CATGATGCCATAACATCTTTCAACTATGGTCTTAC
1 CATGATGCCATAACATCTTTCAACTATGGTCTTAC
36242795 TCATTTTAGG
Statistics
Matches: 109, Mismatches: 13, Indels: 6
0.85 0.10 0.05
Matches are distributed among these distances:
44 23 0.21
45 62 0.57
46 24 0.22
ACGTcount: A:0.29, C:0.23, G:0.12, T:0.36
Consensus pattern (44 bp):
CATGATGCCATAACATCTTTCAACTATGGTCTTACAAATATTGT
Found at i:36246530 original size:20 final size:20
Alignment explanation
Indices: 36246501--36246548 Score: 71
Period size: 20 Copynumber: 2.4 Consensus size: 20
36246491 AATAGATGTA
36246501 AAACAGGGGCA-GAGATGTGC
1 AAACAGGGGCACG-GATGTGC
*
36246521 AAATAGGGGCACGGATGTGC
1 AAACAGGGGCACGGATGTGC
36246541 AAACAGGG
1 AAACAGGG
36246549 ACACCAAAGT
Statistics
Matches: 25, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
20 24 0.96
21 1 0.04
ACGTcount: A:0.35, C:0.15, G:0.40, T:0.10
Consensus pattern (20 bp):
AAACAGGGGCACGGATGTGC
Found at i:36250898 original size:10 final size:9
Alignment explanation
Indices: 36250847--36250906 Score: 52
Period size: 10 Copynumber: 6.3 Consensus size: 9
36250837 GATTTGTATT
36250847 AATTACTTTAA
1 AATTA-TTT-A
36250858 AATTATTTA
1 AATTATTTA
36250867 AA--ATTTA
1 AATTATTTA
*
36250874 TATTCATTTA
1 AATT-ATTTA
36250884 TAATTATATTA
1 -AATTAT-TTA
36250895 AATTATTTA
1 AATTATTTA
36250904 AAT
1 AAT
36250907 ATCATATAGC
Statistics
Matches: 42, Mismatches: 2, Indels: 12
0.75 0.04 0.21
Matches are distributed among these distances:
7 6 0.14
9 9 0.21
10 16 0.38
11 11 0.26
ACGTcount: A:0.45, C:0.03, G:0.00, T:0.52
Consensus pattern (9 bp):
AATTATTTA
Found at i:36251896 original size:26 final size:25
Alignment explanation
Indices: 36251846--36251896 Score: 66
Period size: 25 Copynumber: 2.0 Consensus size: 25
36251836 AAATTGCCAG
**
36251846 CAACATTAATTTTTAAAAACCTAAT
1 CAACATTAATTTTTAAAAAAATAAT
*
36251871 CAACATTTATTTCTTAAAAAAATAAT
1 CAACATTAATTT-TTAAAAAAATAAT
36251897 TGGGCTCGAA
Statistics
Matches: 22, Mismatches: 3, Indels: 1
0.85 0.12 0.04
Matches are distributed among these distances:
25 11 0.50
26 11 0.50
ACGTcount: A:0.49, C:0.14, G:0.00, T:0.37
Consensus pattern (25 bp):
CAACATTAATTTTTAAAAAAATAAT
Found at i:36253424 original size:43 final size:43
Alignment explanation
Indices: 36253377--36253600 Score: 272
Period size: 43 Copynumber: 5.2 Consensus size: 43
36253367 GCACCACTAT
*
36253377 AGAACATGATTTTTAGCAGCGCTTTTATCACAAACGCCGCTAA
1 AGAACATGATCTTTAGCAGCGCTTTTATCACAAACGCCGCTAA
* * *
36253420 AGAACATTACCTTTAGCAGCGCTTTTATCACAAGCGCCGCTAA
1 AGAACATGATCTTTAGCAGCGCTTTTATCACAAACGCCGCTAA
* *
36253463 AGAACATGATCTTTAGCGGCGC-TTTACCCACAAACGCCGCTAAA
1 AGAACATGATCTTTAGCAGCGCTTTTA-TCACAAACGCCGCT-AA
* * * *
36253507 ATAACATGATCTTTGGCGGCGC-TTTACCCACAAACGCCGCTAA
1 AGAACATGATCTTTAGCAGCGCTTTTA-TCACAAACGCCGCTAA
* * * *
36253550 AGATCATTACCTTTAGCAGCGCTTTTATCACAAACGCTGCTAA
1 AGAACATGATCTTTAGCAGCGCTTTTATCACAAACGCCGCTAA
*
36253593 AGATCATG
1 AGAACATG
36253601 TCCTTTAACA
Statistics
Matches: 158, Mismatches: 20, Indels: 6
0.86 0.11 0.03
Matches are distributed among these distances:
42 4 0.03
43 109 0.69
44 45 0.28
ACGTcount: A:0.31, C:0.27, G:0.17, T:0.25
Consensus pattern (43 bp):
AGAACATGATCTTTAGCAGCGCTTTTATCACAAACGCCGCTAA
Found at i:36253564 original size:87 final size:87
Alignment explanation
Indices: 36253377--36253607 Score: 263
Period size: 87 Copynumber: 2.7 Consensus size: 87
36253367 GCACCACTAT
** *
36253377 AGAACATGATTTTTAGCAGCGCTTTTATCACAAACGCCGCT-AAAGAACATTACCTTTAGCAGCG
1 AGAACATGACCTTTAGCAGCGCTTTTATCACAAACGCCGCTAAAAGAACATGACCTTTAGCAGCG
* *
36253441 CTTTTATCACAAGCGCCGCTAA
66 CTTTTACCACAAACGCCGCTAA
* * * * * * *
36253463 AGAACATGATCTTTAGCGGCGC-TTTACCCACAAACGCCGCTAAAATAACATGATCTTTGGCGGC
1 AGAACATGACCTTTAGCAGCGCTTTTA-TCACAAACGCCGCTAAAAGAACATGACCTTTAGCAGC
36253527 GC-TTTACCCACAAACGCCGCTAA
65 GCTTTTA-CCACAAACGCCGCTAA
* * * * *
36253550 AGATCATTACCTTTAGCAGCGCTTTTATCACAAACGCTGCT-AAAGATCATGTCCTTTA
1 AGAACATGACCTTTAGCAGCGCTTTTATCACAAACGCCGCTAAAAGAACATGACCTTTA
36253608 ACAACGTTTA
Statistics
Matches: 120, Mismatches: 21, Indels: 8
0.81 0.14 0.05
Matches are distributed among these distances:
85 4 0.03
86 49 0.41
87 63 0.52
88 4 0.03
ACGTcount: A:0.30, C:0.27, G:0.16, T:0.26
Consensus pattern (87 bp):
AGAACATGACCTTTAGCAGCGCTTTTATCACAAACGCCGCTAAAAGAACATGACCTTTAGCAGCG
CTTTTACCACAAACGCCGCTAA
Found at i:36255039 original size:193 final size:192
Alignment explanation
Indices: 36254643--36255054 Score: 469
Period size: 193 Copynumber: 2.1 Consensus size: 192
36254633 GGTCTATTAT
* * *
36254643 TATGTTCATTAACATCATA-A-AAAATCATCAATTACATCCTAATAACAATTTCAACTCCAAAGT
1 TATGTTCATTAACATCA-ACATAAAAACATCAATTACATCCTAATAACAATTCCAACCCCAAAGT
* * * * * ** *
36254706 TGACTAAAGAAGCTTTGTAGGATATGAAAACACAAGTGCATTTCCATTCAAGTAAATTGTTGTGT
65 TAACTAAAGAAGCATTGCAGGATATCAAAACACAAATGCATTTCCATTCAAGTAAATAATAGTGT
* * *
36254771 TGTAATCACAAAGTTCAAATGAAAACCAATGACTTGAACCCATAAAAAATTCAACTTAGTCTA
130 TGTAATCACAAAGTCCAAATGAAAACCAATGACTTAAACCCATAAAAAATTCAACTTAGTCCA
*
36254834 T-TGTATTCATTAACATCAACATAAAAACATCAATTACTTCCTAATAACAATTCCAACCCCAAAG
1 TATG--TTCATTAACATCAACATAAAAACATCAATTACATCCTAATAACAATTCCAACCCCAAAG
* **
36254898 TTCAATTAAA-AAGCATTGCAGGATA-CATAAATGCAAATGCATTTCCATTCAAGT-AATAATAG
64 TT-AACTAAAGAAGCATTGCAGGATATCA-AAACACAAATGCATTTCCATTCAAGTAAATAATAG
* * * * *
36254960 TGTTTTAATCACAAAGCTCCAAATGTAAACC-ATGACTTAAACCCATTATAGATTACAAACTTAG
127 TGTTGTAATCACAAAG-TCCAAATGAAAACCAATGACTTAAACCCATAAAAAATT-C-AACTTAG
36255024 TCCA
189 TCCA
* *
36255028 TATGCTCATTAACATGAACATTAAAAA
1 TATGTTCATTAACATCAACA-TAAAAA
36255055 AACAATTCTA
Statistics
Matches: 185, Mismatches: 25, Indels: 19
0.81 0.11 0.08
Matches are distributed among these distances:
190 2 0.01
191 2 0.01
192 54 0.29
193 103 0.56
194 22 0.12
195 2 0.01
ACGTcount: A:0.42, C:0.19, G:0.09, T:0.29
Consensus pattern (192 bp):
TATGTTCATTAACATCAACATAAAAACATCAATTACATCCTAATAACAATTCCAACCCCAAAGTT
AACTAAAGAAGCATTGCAGGATATCAAAACACAAATGCATTTCCATTCAAGTAAATAATAGTGTT
GTAATCACAAAGTCCAAATGAAAACCAATGACTTAAACCCATAAAAAATTCAACTTAGTCCA
Found at i:36257172 original size:8 final size:7
Alignment explanation
Indices: 36257154--36257247 Score: 57
Period size: 7 Copynumber: 13.1 Consensus size: 7
36257144 ACTAATTAAT
36257154 CTAAACC
1 CTAAACC
36257161 CTAAACCC
1 CTAAA-CC
36257169 CT-AACC
1 CTAAACC
*
36257175 CTTAAATC
1 C-TAAACC
*
36257183 TTAAACC
1 CTAAACC
*
36257190 C-CAACC
1 CTAAACC
36257196 CTTAAACC
1 C-TAAACC
* *
36257204 GTAAACT
1 CTAAACC
*
36257211 ATAAACC
1 CTAAACC
*
36257218 ATAAACC
1 CTAAACC
36257225 CTAAACC
1 CTAAACC
*
36257232 CATAATCC
1 C-TAAACC
*
36257240 TTAAACC
1 CTAAACC
36257247 C
1 C
36257248 ATAATCTATA
Statistics
Matches: 66, Mismatches: 15, Indels: 12
0.71 0.16 0.13
Matches are distributed among these distances:
6 8 0.12
7 42 0.64
8 16 0.24
ACGTcount: A:0.41, C:0.37, G:0.01, T:0.20
Consensus pattern (7 bp):
CTAAACC
Found at i:36257208 original size:21 final size:22
Alignment explanation
Indices: 36257155--36257247 Score: 91
Period size: 21 Copynumber: 4.3 Consensus size: 22
36257145 CTAATTAATC
36257155 TAAACCCTAAACCCCTAACCCT
1 TAAACCCTAAACCCCTAACCCT
* *
36257177 TAAATCTTAAACCCC-AACCCT
1 TAAACCCTAAACCCCTAACCCT
* ** * *
36257198 TAAACCGTAAA-CTATAAACCA
1 TAAACCCTAAACCCCTAACCCT
* *
36257219 TAAACCCTAAACCCATAATCCT
1 TAAACCCTAAACCCCTAACCCT
36257241 TAAACCC
1 TAAACCC
36257248 ATAATCTATA
Statistics
Matches: 57, Mismatches: 12, Indels: 4
0.78 0.16 0.05
Matches are distributed among these distances:
20 1 0.02
21 29 0.51
22 27 0.47
ACGTcount: A:0.42, C:0.37, G:0.01, T:0.20
Consensus pattern (22 bp):
TAAACCCTAAACCCCTAACCCT
Found at i:36257261 original size:15 final size:15
Alignment explanation
Indices: 36257212--36257253 Score: 59
Period size: 15 Copynumber: 2.9 Consensus size: 15
36257202 CCGTAAACTA
* *
36257212 TAAA-CCATAAACCC
1 TAAACCCATAATCCT
36257226 TAAACCCATAATCCT
1 TAAACCCATAATCCT
36257241 TAAACCCATAATC
1 TAAACCCATAATC
36257254 TATAAACCTT
Statistics
Matches: 25, Mismatches: 2, Indels: 1
0.89 0.07 0.04
Matches are distributed among these distances:
14 4 0.16
15 21 0.84
ACGTcount: A:0.45, C:0.33, G:0.00, T:0.21
Consensus pattern (15 bp):
TAAACCCATAATCCT
Found at i:36257297 original size:14 final size:14
Alignment explanation
Indices: 36257278--36257329 Score: 59
Period size: 14 Copynumber: 3.7 Consensus size: 14
36257268 TAGCATCTTT
*
36257278 TAAACCATAAACGC
1 TAAACCATAAACCC
*
36257292 TAAACCATATACCC
1 TAAACCATAAACCC
* *
36257306 CAAACCATAAACCT
1 TAAACCATAAACCC
*
36257320 TAAACTATAA
1 TAAACCATAA
36257330 TGATAATTAA
Statistics
Matches: 31, Mismatches: 7, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
14 31 1.00
ACGTcount: A:0.50, C:0.29, G:0.02, T:0.19
Consensus pattern (14 bp):
TAAACCATAAACCC
Found at i:36257401 original size:19 final size:20
Alignment explanation
Indices: 36257377--36257415 Score: 55
Period size: 19 Copynumber: 2.0 Consensus size: 20
36257367 CTTTTACGAT
36257377 TATATAAGA-AATT-ATTTAA
1 TATATAA-ATAATTAATTTAA
36257396 TATATAAATAATTAATTTAA
1 TATATAAATAATTAATTTAA
36257416 ACCGAAAACC
Statistics
Matches: 18, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
18 1 0.06
19 11 0.61
20 6 0.33
ACGTcount: A:0.54, C:0.00, G:0.03, T:0.44
Consensus pattern (20 bp):
TATATAAATAATTAATTTAA
Found at i:36257522 original size:22 final size:22
Alignment explanation
Indices: 36257482--36257549 Score: 70
Period size: 21 Copynumber: 3.2 Consensus size: 22
36257472 TCCCTAACGT
** *
36257482 CTAACCCCTAGCCCATAAA-CC
1 CTAACCCCTAAACCTTAAATCC
36257503 CATAACCCCTAAACCTTAAATCC
1 C-TAACCCCTAAACCTTAAATCC
*
36257526 C-AGCCCCTAAACCTT-AATCC
1 CTAACCCCTAAACCTTAAATCC
36257546 CTAA
1 CTAA
36257550 TCCATACTCC
Statistics
Matches: 39, Mismatches: 5, Indels: 6
0.78 0.10 0.12
Matches are distributed among these distances:
20 6 0.15
21 15 0.38
22 15 0.38
23 3 0.08
ACGTcount: A:0.35, C:0.43, G:0.03, T:0.19
Consensus pattern (22 bp):
CTAACCCCTAAACCTTAAATCC
Found at i:36257546 original size:20 final size:21
Alignment explanation
Indices: 36257508--36257546 Score: 71
Period size: 21 Copynumber: 1.9 Consensus size: 21
36257498 AAACCCATAA
36257508 CCCCTAAACCTTAAATCCCAG
1 CCCCTAAACCTTAAATCCCAG
36257529 CCCCTAAACCTT-AATCCC
1 CCCCTAAACCTTAAATCCC
36257547 TAATCCATAC
Statistics
Matches: 18, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
20 6 0.33
21 12 0.67
ACGTcount: A:0.31, C:0.46, G:0.03, T:0.21
Consensus pattern (21 bp):
CCCCTAAACCTTAAATCCCAG
Found at i:36257966 original size:41 final size:41
Alignment explanation
Indices: 36257907--36258099 Score: 273
Period size: 41 Copynumber: 4.7 Consensus size: 41
36257897 TAAAATGTTT
* *
36257907 TTAGCGGCGCCTTT-TCAAAAACGCCACTAAAGCCCCCAGCA
1 TTAGCGGCG-CTTTCTCAAAAACGCCGCTAAAGCCACCAGCA
*
36257948 TTAGCGGCGCTTTCTCAAAAACGCCACTAAAGCCACCAGCA
1 TTAGCGGCGCTTTCTCAAAAACGCCGCTAAAGCCACCAGCA
*
36257989 TTAGCGGCGCTTTCTCAAAAACGCCGCTAAAGCCACGAGCA
1 TTAGCGGCGCTTTCTCAAAAACGCCGCTAAAGCCACCAGCA
* * * *
36258030 TTAGCGGTGCTTTCTCAAAAATGCCGCTAAAGCTACCAGGA
1 TTAGCGGCGCTTTCTCAAAAACGCCGCTAAAGCCACCAGCA
* *
36258071 TTAGCAGCGCTTTTTCAAAAA-GCCGCTAA
1 TTAGCGGCGCTTTCTCAAAAACGCCGCTAA
36258100 TGCTTGGTTC
Statistics
Matches: 140, Mismatches: 11, Indels: 3
0.91 0.07 0.02
Matches are distributed among these distances:
40 12 0.09
41 128 0.91
ACGTcount: A:0.30, C:0.31, G:0.19, T:0.20
Consensus pattern (41 bp):
TTAGCGGCGCTTTCTCAAAAACGCCGCTAAAGCCACCAGCA
Found at i:36258138 original size:81 final size:82
Alignment explanation
Indices: 36257907--36258142 Score: 269
Period size: 82 Copynumber: 2.9 Consensus size: 82
36257897 TAAAATGTTT
* * * *
36257907 TTAGCGGCGCCTTT-TCAAAAACGCCACTAAAGCCCCCAGCATTAGCGGCGCTTTCTCAAAAACG
1 TTAGCAGCG-CTTTCTCAAAAACGCCGCTAAAGCCACGAGCATTAGCGGCGCTTTCTCAAAAACG
*
36257971 CCACTAAAGCCACCAGCA
65 CCGCTAAAGCCACCAGCA
* * *
36257989 TTAGCGGCGCTTTCTCAAAAACGCCGCTAAAGCCACGAGCATTAGCGGTGCTTTCTCAAAAATGC
1 TTAGCAGCGCTTTCTCAAAAACGCCGCTAAAGCCACGAGCATTAGCGGCGCTTTCTCAAAAACGC
* *
36258054 CGCTAAAGCTACCAGGA
66 CGCTAAAGCCACCAGCA
* * *** ** * * *
36258071 TTAGCAGCGCTTTTTCAAAAA-GCCGCTAATGCTTGGTTCTTTAGCGACGCTTTTTCAAAAACGC
1 TTAGCAGCGCTTTCTCAAAAACGCCGCTAAAGCCACGAGCATTAGCGGCGCTTTCTCAAAAACGC
36258135 CGCTAAAG
66 CGCTAAAG
36258143 ACCCGAAAGG
Statistics
Matches: 132, Mismatches: 21, Indels: 3
0.85 0.13 0.02
Matches are distributed among these distances:
81 44 0.33
82 88 0.67
ACGTcount: A:0.29, C:0.29, G:0.19, T:0.22
Consensus pattern (82 bp):
TTAGCAGCGCTTTCTCAAAAACGCCGCTAAAGCCACGAGCATTAGCGGCGCTTTCTCAAAAACGC
CGCTAAAGCCACCAGCA
Done.