Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: NW_019167860.1 Durio zibethinus cultivar Musang King isolate D1 unplaced genomic scaffold, Duzib1.0 scaffold_13, whole genome shotgun sequence
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: 22724830
ACGTcount: A:0.34, C:0.15, G:0.15, T:0.34
Warning! 82000 characters in sequence are not A, C, G, or T
File 81 of 109
Found at i:16331672 original size:19 final size:18
Alignment explanation
Indices: 16331647--16331702 Score: 67
Period size: 19 Copynumber: 2.9 Consensus size: 18
16331637 CTATGCTTGA
16331647 AAAAAAAAGAAAAAAAAT
1 AAAAAAAAGAAAAAAAAT
*
16331665 GGAAAAAAAGAAAGAAAAAAT
1 -AAAAAAAAG-AA-AAAAAAT
*
16331686 AAAAAAAATAAAAAAAA
1 AAAAAAAAGAAAAAAAA
16331703 AGATTCAAAG
Statistics
Matches: 32, Mismatches: 3, Indels: 5
0.80 0.08 0.12
Matches are distributed among these distances:
18 6 0.19
19 10 0.31
20 9 0.28
21 7 0.22
ACGTcount: A:0.86, C:0.00, G:0.09, T:0.05
Consensus pattern (18 bp):
AAAAAAAAGAAAAAAAAT
Found at i:16331690 original size:30 final size:29
Alignment explanation
Indices: 16331645--16331705 Score: 86
Period size: 30 Copynumber: 2.1 Consensus size: 29
16331635 TACTATGCTT
**
16331645 GAAAAAAAAAGAAAAAAAATGGAAAAAAA
1 GAAAAAAAAAGAAAAAAAATAAAAAAAAA
*
16331674 GAAAGAAAAAATAAAAAAAATAAAAAAAAA
1 GAAA-AAAAAAGAAAAAAAATAAAAAAAAA
16331704 GA
1 GA
16331706 TTCAAAGCAA
Statistics
Matches: 28, Mismatches: 3, Indels: 1
0.88 0.09 0.03
Matches are distributed among these distances:
29 4 0.14
30 24 0.86
ACGTcount: A:0.84, C:0.00, G:0.11, T:0.05
Consensus pattern (29 bp):
GAAAAAAAAAGAAAAAAAATAAAAAAAAA
Found at i:16333067 original size:42 final size:42
Alignment explanation
Indices: 16333009--16333313 Score: 303
Period size: 42 Copynumber: 7.2 Consensus size: 42
16332999 TGAAGGAGTG
* *
16333009 ATTTATTTTT-TCAAAGTTTTATTGCCTTTATTCAGAGGAGCT
1 ATTTATTTTTCT-AAAGTTCTGTTGCCTTTATTCAGAGGAGCT
* *
16333051 ATTTATTTTTCTAAAGTTCTGTTGCCTCTGTTCAGAGGAGCT
1 ATTTATTTTTCTAAAGTTCTGTTGCCTTTATTCAGAGGAGCT
* ** *
16333093 ATTTATTTTTCCAAAGTTCTGTTGTATTTATTCAGAGGAGCC
1 ATTTATTTTTCTAAAGTTCTGTTGCCTTTATTCAGAGGAGCT
* * * *
16333135 ATTTATTTTTCCAAAGTTATGTT-ACTTCTATTCAAAGGAG-T
1 ATTTATTTTTCTAAAGTTCTGTTGCCTT-TATTCAGAGGAGCT
* * * * * * * *
16333176 CGTTTATTTTTCTAAAGTTTTATTGCCTCTATTTAAAAGAGCC
1 -ATTTATTTTTCTAAAGTTCTGTTGCCTTTATTCAGAGGAGCT
*
16333219 ATTTATTTTTCTAAAGTTCTGTTGCCTCTATTCAGAGGAG-T
1 ATTTATTTTTCTAAAGTTCTGTTGCCTTTATTCAGAGGAGCT
* * * * *
16333260 CATTTATTTTTTTCAAAATTTTGTTGCCTTTATTCAGAGGGGCC
1 -ATTTATTTTTCT-AAAGTTCTGTTGCCTTTATTCAGAGGAGCT
16333304 ATTTATTTTT
1 ATTTATTTTT
16333314 TCAAAGTCGT
Statistics
Matches: 218, Mismatches: 37, Indels: 15
0.81 0.14 0.06
Matches are distributed among these distances:
41 2 0.01
42 179 0.82
43 37 0.17
ACGTcount: A:0.23, C:0.14, G:0.15, T:0.48
Consensus pattern (42 bp):
ATTTATTTTTCTAAAGTTCTGTTGCCTTTATTCAGAGGAGCT
Found at i:16333143 original size:84 final size:84
Alignment explanation
Indices: 16333002--16333362 Score: 399
Period size: 84 Copynumber: 4.3 Consensus size: 84
16332992 ATGATTGTGA
* * *
16333002 AGGAGTGATTTATTTTTTCAAAGTTTTATTGCCTTTATTCAGAGGAGCTATTTATTTTTCTAAAG
1 AGGAGTCATTTATTTTTCCAAAGTTTTATTGCCTTTATTCAGAGGAGCCATTTATTTTTCTAAAG
*
16333067 TTCTGTTGCCTCTGTTCAG
66 TTCTGTTGCCTCTATTCAG
* * ** *
16333086 AGGAG-CTATTTATTTTTCCAAAGTTCTGTTGTATTTATTCAGAGGAGCCATTTATTTTTCCAAA
1 AGGAGTC-ATTTATTTTTCCAAAGTTTTATTGCCTTTATTCAGAGGAGCCATTTATTTTTCTAAA
* * * *
16333150 GTTATGTTACTTCTATTCAA
65 GTTCTGTTGCCTCTATTCAG
* * * * * *
16333170 AGGAGTCGTTTATTTTTCTAAAGTTTTATTGCCTCTATTTAAAAGAGCCATTTATTTTTCTAAAG
1 AGGAGTCATTTATTTTTCCAAAGTTTTATTGCCTTTATTCAGAGGAGCCATTTATTTTTCTAAAG
16333235 TTCTGTTGCCTCTATTCAG
66 TTCTGTTGCCTCTATTCAG
* * * *
16333254 AGGAGTCATTTATTTTTTTCAAAATTTTGTTGCCTTTATTCAGAGGGGCCATTTATTTTT-TCAA
1 AGGAGTCATTTA-TTTTTCCAAAGTTTTATTGCCTTTATTCAGAGGAGCCATTTATTTTTCT-AA
* *
16333318 AG-TC-GTTGAGCCTCTGTTTAG
64 AGTTCTGTT--GCCTCTATTCAG
*
16333339 AGGAG-CATTTATATTTCTCAAAGT
1 AGGAGTCATTTATTTTTC-CAAAGT
16333363 CGTTGAGCCT
Statistics
Matches: 227, Mismatches: 43, Indels: 14
0.80 0.15 0.05
Matches are distributed among these distances:
83 7 0.03
84 162 0.71
85 58 0.26
ACGTcount: A:0.24, C:0.14, G:0.16, T:0.46
Consensus pattern (84 bp):
AGGAGTCATTTATTTTTCCAAAGTTTTATTGCCTTTATTCAGAGGAGCCATTTATTTTTCTAAAG
TTCTGTTGCCTCTATTCAG
Found at i:16333348 original size:126 final size:124
Alignment explanation
Indices: 16333002--16333362 Score: 397
Period size: 126 Copynumber: 2.9 Consensus size: 124
16332992 ATGATTGTGA
* * *
16333002 AGGAGTGATTTATTTTTTCAAAGTTTTATTGCCTTTATTCAGAGGAGCTATTTATTTTTCTAAAG
1 AGGAGTCATTTATTTTTTCAAAGTTTTGTTGCCTTTATTCAGAGGAGCCATTTATTTTTCTAAAG
* * * *
16333067 TTCTGTT-GCCTCTGTTCAGAGGAGCTATTTATTTTTCCAAAGTTCTGTTGTATTTATTCAG
66 -TC-GTTAGCCTCTGTTTAGAGGAGC-ATTTATTTTTCTAAAGTTCTGTTGCATCTATTCAG
* * * * * * *
16333128 AGGAGCCATTTATTTTTCCAAAGTTATGTT-ACTTCTATTCAAAGGAGTCGTTTATTTTTCTAAA
1 AGGAGTCATTTATTTTTTCAAAGTTTTGTTGCCTT-TATTCAGAGGAGCCATTTATTTTTCTAAA
* * * * *
16333192 GT-TTTATTGCCTCTATTTAAAAGAGCCATTTATTTTTCTAAAGTTCTGTTGCCTCTATTCAG
65 GTCGTTA--GCCTCTGTTTAGAGGAG-CATTTATTTTTCTAAAGTTCTGTTGCATCTATTCAG
* *
16333254 AGGAGTCATTTATTTTTTTCAAAATTTTGTTGCCTTTATTCAGAGGGGCCATTTATTTTT-TCAA
1 AGGAGTCATTTA-TTTTTTCAAAGTTTTGTTGCCTTTATTCAGAGGAGCCATTTATTTTTCT-AA
*
16333318 AGTCGTTGAGCCTCTGTTTAGAGGAGCATTTATATTTCTCAAAGT
64 AGTCGTT-AGCCTCTGTTTAGAGGAGCATTTATTTTTCT-AAAGT
16333363 CGTTGAGCCT
Statistics
Matches: 191, Mismatches: 33, Indels: 21
0.78 0.13 0.09
Matches are distributed among these distances:
123 2 0.01
125 4 0.02
126 119 0.62
127 60 0.31
128 5 0.03
129 1 0.01
ACGTcount: A:0.24, C:0.14, G:0.16, T:0.46
Consensus pattern (124 bp):
AGGAGTCATTTATTTTTTCAAAGTTTTGTTGCCTTTATTCAGAGGAGCCATTTATTTTTCTAAAG
TCGTTAGCCTCTGTTTAGAGGAGCATTTATTTTTCTAAAGTTCTGTTGCATCTATTCAG
Found at i:16333381 original size:42 final size:40
Alignment explanation
Indices: 16333285--16333386 Score: 116
Period size: 42 Copynumber: 2.4 Consensus size: 40
16333275 AAATTTTGTT
* *
16333285 GCCTTTATTCAGAGGGGCCATTTATTTTTTCAAAGTCGTTGA
1 GCCTTTATT-AGAGGAG-CATTTATTTTCTCAAAGTCGTTGA
16333327 GCCTCTGT-TTAGAGGAGCATTTATATTTCTCAAAGTCGTTGA
1 GCCT-T-TATTAGAGGAGCATTTAT-TTTCTCAAAGTCGTTGA
*
16333369 GCCTTTACTTAGATGAGC
1 GCCTTTA-TTAGAGGAGC
16333387 TTTGATCAAA
Statistics
Matches: 52, Mismatches: 3, Indels: 10
0.80 0.05 0.15
Matches are distributed among these distances:
40 1 0.02
41 8 0.15
42 39 0.75
43 3 0.06
44 1 0.02
ACGTcount: A:0.23, C:0.18, G:0.22, T:0.38
Consensus pattern (40 bp):
GCCTTTATTAGAGGAGCATTTATTTTCTCAAAGTCGTTGA
Found at i:16334355 original size:22 final size:19
Alignment explanation
Indices: 16334325--16334368 Score: 52
Period size: 21 Copynumber: 2.2 Consensus size: 19
16334315 ATTTTCAAAC
*
16334325 AAAAAATAATAATAATAAATA
1 AAAAAATAAAAAT-ATAAA-A
16334346 AAAAACATAAAAATATAAAA
1 AAAAA-ATAAAAATATAAAA
16334366 AAA
1 AAA
16334369 TTTTGGAATT
Statistics
Matches: 21, Mismatches: 1, Indels: 3
0.84 0.04 0.12
Matches are distributed among these distances:
20 4 0.19
21 10 0.48
22 7 0.33
ACGTcount: A:0.80, C:0.02, G:0.00, T:0.18
Consensus pattern (19 bp):
AAAAAATAAAAATATAAAA
Found at i:16337842 original size:66 final size:66
Alignment explanation
Indices: 16337762--16337895 Score: 250
Period size: 66 Copynumber: 2.0 Consensus size: 66
16337752 ATTAATGTTT
16337762 ATTTATAAATATATTTGCATTAAATGAAAAAATCTAAAATAATATATCGAAACAATTGATATTAA
1 ATTTATAAATATATTTGCATTAAATGAAAAAATCTAAAATAATATATCGAAACAATTGATATTAA
16337827 C
66 C
* *
16337828 ATTTATAAATATATTTGTATTAAATGAAAAAATCTAAAATAATATATTGAAACAATTGATATTAA
1 ATTTATAAATATATTTGCATTAAATGAAAAAATCTAAAATAATATATCGAAACAATTGATATTAA
16337893 C
66 C
16337894 AT
1 AT
16337896 AAACTTTTTT
Statistics
Matches: 66, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
66 66 1.00
ACGTcount: A:0.51, C:0.06, G:0.06, T:0.37
Consensus pattern (66 bp):
ATTTATAAATATATTTGCATTAAATGAAAAAATCTAAAATAATATATCGAAACAATTGATATTAA
C
Found at i:16337872 original size:33 final size:33
Alignment explanation
Indices: 16337769--16337875 Score: 85
Period size: 33 Copynumber: 3.2 Consensus size: 33
16337759 TTTATTTATA
*
16337769 AATATATTTGCATTAAATGAAAAAATCTAAAAT
1 AATATATTTGAATTAAATGAAAAAATCTAAAAT
* ** * * * *
16337802 AATATA-TCGAAACAATTGATATTAACAT-TTATA-
1 AATATATTTGAATTAAATGA-A--AAAATCTAAAAT
*
16337835 AATATATTTGTATTAAATGAAAAAATCTAAAAT
1 AATATATTTGAATTAAATGAAAAAATCTAAAAT
16337868 AATATATT
1 AATATATT
16337876 GAAACAATTG
Statistics
Matches: 52, Mismatches: 16, Indels: 12
0.65 0.20 0.15
Matches are distributed among these distances:
31 4 0.08
32 11 0.21
33 22 0.42
34 11 0.21
35 4 0.08
ACGTcount: A:0.52, C:0.06, G:0.06, T:0.36
Consensus pattern (33 bp):
AATATATTTGAATTAAATGAAAAAATCTAAAAT
Found at i:16339970 original size:35 final size:35
Alignment explanation
Indices: 16339907--16339974 Score: 102
Period size: 35 Copynumber: 1.9 Consensus size: 35
16339897 GTGGAGGGGT
*
16339907 GGGGTGAGATTGGGTGAGGTAGGATGCATTGGAGG
1 GGGGTGAGATTGGGTGAAGTAGGATGCATTGGAGG
*
16339942 GGGGTGAGATTGGGTGAAGT-TGAGTGCATTGGA
1 GGGGTGAGATTGGGTGAAGTAGGA-TGCATTGGA
16339975 AGGTAGGATG
Statistics
Matches: 30, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
34 2 0.07
35 28 0.93
ACGTcount: A:0.21, C:0.03, G:0.51, T:0.25
Consensus pattern (35 bp):
GGGGTGAGATTGGGTGAAGTAGGATGCATTGGAGG
Found at i:16340257 original size:29 final size:28
Alignment explanation
Indices: 16340213--16340271 Score: 66
Period size: 29 Copynumber: 2.1 Consensus size: 28
16340203 AAATTAAATA
** *
16340213 TTATATTTTGATTTTGTTATTTATTAAT
1 TTATATTTTGATTTTGAAATTTAATAAT
16340241 TTATAATTTT-ATATTTGAAATTTAATAAT
1 TTAT-ATTTTGAT-TTTGAAATTTAATAAT
16340270 TT
1 TT
16340272 TTTTGTTGTT
Statistics
Matches: 26, Mismatches: 3, Indels: 3
0.81 0.09 0.09
Matches are distributed among these distances:
28 6 0.23
29 20 0.77
ACGTcount: A:0.32, C:0.00, G:0.05, T:0.63
Consensus pattern (28 bp):
TTATATTTTGATTTTGAAATTTAATAAT
Found at i:16343871 original size:18 final size:18
Alignment explanation
Indices: 16343848--16343919 Score: 92
Period size: 18 Copynumber: 4.0 Consensus size: 18
16343838 GTTATTATCC
*
16343848 ACCTCAAATGTATCCTCT
1 ACCTCAAATGTATCATCT
16343866 ACCTCAAATGTATCATCT
1 ACCTCAAATGTATCATCT
*
16343884 ACCTCAAATGTATC-TCCC
1 ACCTCAAATGTATCAT-CT
* *
16343902 ACCACAAATATATCATCT
1 ACCTCAAATGTATCATCT
16343920 TTAAATATAT
Statistics
Matches: 47, Mismatches: 5, Indels: 4
0.84 0.09 0.07
Matches are distributed among these distances:
17 1 0.02
18 45 0.96
19 1 0.02
ACGTcount: A:0.33, C:0.32, G:0.04, T:0.31
Consensus pattern (18 bp):
ACCTCAAATGTATCATCT
Found at i:16343888 original size:36 final size:36
Alignment explanation
Indices: 16343848--16343949 Score: 113
Period size: 36 Copynumber: 2.9 Consensus size: 36
16343838 GTTATTATCC
*
16343848 ACCTCAAATGTATCCTCTACCTCAAATGTATCATCT
1 ACCTCAAATGTATCCTCCACCTCAAATGTATCATCT
* *
16343884 ACCTCAAATGTAT-CTCCCACCACAAATATATCATCT
1 ACCTCAAATGTATCCT-CCACCTCAAATGTATCATCT
* * *
16343920 ---TTAAATATATCCTCCACCTCAAATGCATCA
1 ACCTCAAATGTATCCTCCACCTCAAATGTATCA
16343950 AGAACAAAGG
Statistics
Matches: 56, Mismatches: 8, Indels: 7
0.79 0.11 0.10
Matches are distributed among these distances:
33 22 0.39
34 2 0.04
35 2 0.04
36 30 0.54
ACGTcount: A:0.34, C:0.31, G:0.04, T:0.30
Consensus pattern (36 bp):
ACCTCAAATGTATCCTCCACCTCAAATGTATCATCT
Found at i:16354380 original size:16 final size:16
Alignment explanation
Indices: 16354359--16354390 Score: 64
Period size: 16 Copynumber: 2.0 Consensus size: 16
16354349 ATAAAATCTC
16354359 GACTTTATGAATACTT
1 GACTTTATGAATACTT
16354375 GACTTTATGAATACTT
1 GACTTTATGAATACTT
16354391 TGAGTATGAA
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 16 1.00
ACGTcount: A:0.31, C:0.12, G:0.12, T:0.44
Consensus pattern (16 bp):
GACTTTATGAATACTT
Found at i:16358147 original size:28 final size:31
Alignment explanation
Indices: 16358115--16358188 Score: 91
Period size: 28 Copynumber: 2.5 Consensus size: 31
16358105 TATATTAATC
*
16358115 AATTTTTATTTATTACTTT-AA-AAAAA-GA
1 AATTTTTATTTATTAATTTGAAGAAAAATGA
**
16358143 AATTTTTATTTAAAAATTTGAAGAAAAATGA
1 AATTTTTATTTATTAATTTGAAGAAAAATGA
16358174 AATTTTTATTATATT
1 AATTTTTATT-TATT
16358189 GAAGATTTTC
Statistics
Matches: 37, Mismatches: 5, Indels: 4
0.80 0.11 0.09
Matches are distributed among these distances:
28 16 0.43
29 2 0.05
30 5 0.14
31 12 0.32
32 2 0.05
ACGTcount: A:0.46, C:0.01, G:0.05, T:0.47
Consensus pattern (31 bp):
AATTTTTATTTATTAATTTGAAGAAAAATGA
Found at i:16359048 original size:22 final size:22
Alignment explanation
Indices: 16359020--16359068 Score: 62
Period size: 22 Copynumber: 2.2 Consensus size: 22
16359010 GATGAGACTA
** *
16359020 TTTTTTTATATCCTGACCCCTT
1 TTTTTTTATAAACTAACCCCTT
*
16359042 TTTTTTTTTAAACTAACCCCTT
1 TTTTTTTATAAACTAACCCCTT
16359064 TTTTT
1 TTTTT
16359069 CTTTTCTTCG
Statistics
Matches: 23, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
22 23 1.00
ACGTcount: A:0.16, C:0.22, G:0.02, T:0.59
Consensus pattern (22 bp):
TTTTTTTATAAACTAACCCCTT
Found at i:16359486 original size:10 final size:10
Alignment explanation
Indices: 16359472--16359520 Score: 55
Period size: 10 Copynumber: 4.9 Consensus size: 10
16359462 TATGTTCTAT
*
16359472 TTTTTTTATT
1 TTTTTTTATA
16359482 TTTTTTTCATA
1 TTTTTTT-ATA
16359493 -TTTTTTATA
1 TTTTTTTATA
* *
16359502 TTATTTCATA
1 TTTTTTTATA
16359512 TTTTTTTAT
1 TTTTTTTAT
16359521 TGTATTTCAT
Statistics
Matches: 32, Mismatches: 5, Indels: 4
0.78 0.12 0.10
Matches are distributed among these distances:
9 3 0.09
10 27 0.84
11 2 0.06
ACGTcount: A:0.18, C:0.04, G:0.00, T:0.78
Consensus pattern (10 bp):
TTTTTTTATA
Found at i:16359496 original size:19 final size:18
Alignment explanation
Indices: 16359474--16359535 Score: 70
Period size: 19 Copynumber: 3.2 Consensus size: 18
16359464 TGTTCTATTT
*
16359474 TTTTTATTTTTTTTTCATA
1 TTTTT-TTTTTATTTCATA
*
16359493 TTTTTTATATTATTTCATA
1 TTTTTT-TTTTATTTCATA
16359512 TTTTTTTATTGTATTTCATA
1 TTTTTTT-TT-TATTTCATA
16359532 TTTT
1 TTTT
16359536 ATACTTACTT
Statistics
Matches: 37, Mismatches: 3, Indels: 5
0.82 0.07 0.11
Matches are distributed among these distances:
18 2 0.05
19 22 0.59
20 13 0.35
ACGTcount: A:0.19, C:0.05, G:0.02, T:0.74
Consensus pattern (18 bp):
TTTTTTTTTTATTTCATA
Found at i:16359496 original size:20 final size:20
Alignment explanation
Indices: 16359473--16359535 Score: 76
Period size: 20 Copynumber: 3.2 Consensus size: 20
16359463 ATGTTCTATT
*
16359473 TTTTTTATTTTTTTTTCATA
1 TTTTTTATTTTTATTTCATA
*
16359493 TTTTTTA-TATTATTTCATA
1 TTTTTTATTTTTATTTCATA
*
16359512 TTTTTT-TATTGTATTTCATA
1 TTTTTTAT-TTTTATTTCATA
16359532 TTTT
1 TTTT
16359536 ATACTTACTT
Statistics
Matches: 37, Mismatches: 4, Indels: 4
0.82 0.09 0.09
Matches are distributed among these distances:
19 16 0.43
20 21 0.57
ACGTcount: A:0.19, C:0.05, G:0.02, T:0.75
Consensus pattern (20 bp):
TTTTTTATTTTTATTTCATA
Found at i:16359773 original size:49 final size:49
Alignment explanation
Indices: 16359720--16359910 Score: 305
Period size: 49 Copynumber: 3.9 Consensus size: 49
16359710 CTTTCAAAAA
* *
16359720 TTTAAAATCTGATTTGAAAAAGGGCTCATCTCAGCAGAGGCTCAACAAC
1 TTTAAAATCTCATTTGAAAAAGGGCTCCTCTCAGCAGAGGCTCAACAAC
16359769 TTTAAAATCTCATTTGAAAAAGGGCTCCTCTCAGCAGAGGCTCAACAAC
1 TTTAAAATCTCATTTGAAAAAGGGCTCCTCTCAGCAGAGGCTCAACAAC
* *
16359818 TTTAAAATCTCATCTT-AGAAATGGGCTCCTCTCAGCAGAGGCTCAACGAC
1 TTTAAAATCTCAT-TTGA-AAAAGGGCTCCTCTCAGCAGAGGCTCAACAAC
*
16359868 TTTAAAATCTCATTTGAAAAAGGGCTCCTCTCAACAGA-GCTCA
1 TTTAAAATCTCATTTGAAAAAGGGCTCCTCTCAGCAGAGGCTCA
16359911 TCTCAGCAAA
Statistics
Matches: 133, Mismatches: 6, Indels: 7
0.91 0.04 0.05
Matches are distributed among these distances:
48 5 0.04
49 82 0.62
50 46 0.35
ACGTcount: A:0.34, C:0.24, G:0.17, T:0.26
Consensus pattern (49 bp):
TTTAAAATCTCATTTGAAAAAGGGCTCCTCTCAGCAGAGGCTCAACAAC
Found at i:16359974 original size:47 final size:47
Alignment explanation
Indices: 16359905--16360326 Score: 576
Period size: 47 Copynumber: 8.9 Consensus size: 47
16359895 CTCTCAACAG
* *
16359905 AGCTCATCTCAGCAAAGGCTCAACAACTTTAAAATTTCATTTGAAAA
1 AGCTCCTCTCAGCAGAGGCTCAACAACTTTAAAATTTCATTTGAAAA
* * * *
16359952 AGCTCCTTTCAGTAGAGGCTCAACAATTTTAAAATCTCATCTTGAAAA
1 AGCTCCTCTCAGCAGAGGCTCAACAACTTTAAAATTTCAT-TTGAAAA
*
16360000 AGGACTCCTTTCAGCAGAGGCTCAACAACTTTAAAATTTCA-TTGAAAAA
1 A-G-CTCCTCTCAGCAGAGGCTCAACAACTTTAAAATTTCATTTG-AAAA
*
16360049 AGCTCCTCTCAGTAGAGGCTCAACAACTTTAAAATTTCATTTGAAAA
1 AGCTCCTCTCAGCAGAGGCTCAACAACTTTAAAATTTCATTTGAAAA
* * *
16360096 AGCTCTTCTCAGTAGAGGCTCAACAACTTTAAAATCTCATCTTGAAAA
1 AGCTCCTCTCAGCAGAGGCTCAACAACTTTAAAATTTCAT-TTGAAAA
* * * *
16360144 AGGGCTCATCTCAGCAAAGGTTCAACAACTTTAAAATTTCATTGGAAAA
1 A--GCTCCTCTCAGCAGAGGCTCAACAACTTTAAAATTTCATTTGAAAA
*
16360193 AGCTCCTCTCAGCAGAGGCTCAACAACTTTAAAATCTCATTTGAAAA
1 AGCTCCTCTCAGCAGAGGCTCAACAACTTTAAAATTTCATTTGAAAA
* **
16360240 AGCTCCTCTTAATAGAGGCTCAACAACTTTAAAATTTCATTTGAAAA
1 AGCTCCTCTCAGCAGAGGCTCAACAACTTTAAAATTTCATTTGAAAA
* * *
16360287 AGCTCATCTCAGCAGAGGCTCAACAATTTTAAAATCTCAT
1 AGCTCCTCTCAGCAGAGGCTCAACAACTTTAAAATTTCAT
16360327 ATTCTCTCAA
Statistics
Matches: 333, Mismatches: 34, Indels: 16
0.87 0.09 0.04
Matches are distributed among these distances:
47 229 0.69
48 23 0.07
49 13 0.04
50 68 0.20
ACGTcount: A:0.37, C:0.22, G:0.13, T:0.28
Consensus pattern (47 bp):
AGCTCCTCTCAGCAGAGGCTCAACAACTTTAAAATTTCATTTGAAAA
Found at i:16360080 original size:97 final size:94
Alignment explanation
Indices: 16359905--16360326 Score: 603
Period size: 97 Copynumber: 4.4 Consensus size: 94
16359895 CTCTCAACAG
* * * *
16359905 AGCTCATCTCAGCAAAGGCTCAACAACTTTAAAATTTCATTTGAAAAAGCTCCTTTCAGTAGAGG
1 AGCTCCTCTCAGCAGAGGCTCAACAACTTTAAAATCTCATTTGAAAAAGCTCCTCTCAGTAGAGG
* *
16359970 CTCAACAATTTTAAAATCTCATCTTGAAAA
66 CTCAACAACTTTAAAATTTCAT-TTGAAAA
* *
16360000 AGGACTCCTTTCAGCAGAGGCTCAACAACTTTAAAATTTCA-TTGAAAAAAGCTCCTCTCAGTAG
1 A-G-CTCCTCTCAGCAGAGGCTCAACAACTTTAAAATCTCATTTG-AAAAAGCTCCTCTCAGTAG
16360064 AGGCTCAACAACTTTAAAATTTCATTTGAAAA
63 AGGCTCAACAACTTTAAAATTTCATTTGAAAA
* * * * *
16360096 AGCTCTTCTCAGTAGAGGCTCAACAACTTTAAAATCTCATCTTGAAAAAGGGCTCATCTCAGCAA
1 AGCTCCTCTCAGCAGAGGCTCAACAACTTTAAAATCTCAT-TTGAAAAA--GCTCCTCTCAGTAG
* *
16360161 AGGTTCAACAACTTTAAAATTTCATTGGAAAA
63 AGGCTCAACAACTTTAAAATTTCATTTGAAAA
* *
16360193 AGCTCCTCTCAGCAGAGGCTCAACAACTTTAAAATCTCATTTGAAAAAGCTCCTCTTAATAGAGG
1 AGCTCCTCTCAGCAGAGGCTCAACAACTTTAAAATCTCATTTGAAAAAGCTCCTCTCAGTAGAGG
16360258 CTCAACAACTTTAAAATTTCATTTGAAAA
66 CTCAACAACTTTAAAATTTCATTTGAAAA
* *
16360287 AGCTCATCTCAGCAGAGGCTCAACAATTTTAAAATCTCAT
1 AGCTCCTCTCAGCAGAGGCTCAACAACTTTAAAATCTCAT
16360327 ATTCTCTCAA
Statistics
Matches: 294, Mismatches: 26, Indels: 15
0.88 0.08 0.04
Matches are distributed among these distances:
94 110 0.37
95 7 0.02
96 23 0.08
97 154 0.52
ACGTcount: A:0.37, C:0.22, G:0.13, T:0.28
Consensus pattern (94 bp):
AGCTCCTCTCAGCAGAGGCTCAACAACTTTAAAATCTCATTTGAAAAAGCTCCTCTCAGTAGAGG
CTCAACAACTTTAAAATTTCATTTGAAAA
Found at i:16360169 original size:144 final size:144
Alignment explanation
Indices: 16359905--16360326 Score: 654
Period size: 144 Copynumber: 3.0 Consensus size: 144
16359895 CTCTCAACAG
* *
16359905 AGCTCATCTCAGCAAAGGCTCAACAACTTTAAAATTTCATTTGAAAAAGCTCCTT-TCAGTAGAG
1 AGCTCCTCTCAGCAGAGGCTCAACAACTTTAAAATTTCATTTGAAAAAGCT-CTTCTCAGTAGAG
* * * *
16359969 GCTCAACAATTTTAAAATCTCATCTTGAAAAAGGACTCCTTTCAGCAGAGGCTCAACAACTTTAA
65 GCTCAACAACTTTAAAATCTCATCTTGAAAAAGGGCTCATCTCAGCAGAGGCTCAACAACTTTAA
16360034 AATTTCATTGAAAAA
130 AATTTCATTGAAAAA
*
16360049 AGCTCCTCTCAGTAGAGGCTCAACAACTTTAAAATTTCATTTGAAAAAGCTCTTCTCAGTAGAGG
1 AGCTCCTCTCAGCAGAGGCTCAACAACTTTAAAATTTCATTTGAAAAAGCTCTTCTCAGTAGAGG
* *
16360114 CTCAACAACTTTAAAATCTCATCTTGAAAAAGGGCTCATCTCAGCAAAGGTTCAACAACTTTAAA
66 CTCAACAACTTTAAAATCTCATCTTGAAAAAGGGCTCATCTCAGCAGAGGCTCAACAACTTTAAA
*
16360179 ATTTCATTGGAAAA
131 ATTTCATTGAAAAA
* * * *
16360193 AGCTCCTCTCAGCAGAGGCTCAACAACTTTAAAATCTCATTTGAAAAAGCTCCTCTTAATAGAGG
1 AGCTCCTCTCAGCAGAGGCTCAACAACTTTAAAATTTCATTTGAAAAAGCTCTTCTCAGTAGAGG
* *
16360258 CTCAACAACTTTAAAATTTCAT-TTGAAAAA--GCTCATCTCAGCAGAGGCTCAACAATTTTAAA
66 CTCAACAACTTTAAAATCTCATCTTGAAAAAGGGCTCATCTCAGCAGAGGCTCAACAACTTTAAA
*
16360320 ATCTCAT
131 ATTTCAT
16360327 ATTCTCTCAA
Statistics
Matches: 257, Mismatches: 20, Indels: 5
0.91 0.07 0.02
Matches are distributed among these distances:
141 35 0.14
143 11 0.04
144 211 0.82
ACGTcount: A:0.37, C:0.22, G:0.13, T:0.28
Consensus pattern (144 bp):
AGCTCCTCTCAGCAGAGGCTCAACAACTTTAAAATTTCATTTGAAAAAGCTCTTCTCAGTAGAGG
CTCAACAACTTTAAAATCTCATCTTGAAAAAGGGCTCATCTCAGCAGAGGCTCAACAACTTTAAA
ATTTCATTGAAAAA
Found at i:16366873 original size:22 final size:22
Alignment explanation
Indices: 16366848--16366899 Score: 52
Period size: 22 Copynumber: 2.3 Consensus size: 22
16366838 TAAAATTTTC
* *
16366848 TTTTAAAGTATTTAATAAATAT-
1 TTTTAAAGTA-TAAAAAAATATA
*
16366870 TTTTCAAATTATAAAAAAATATA
1 TTTT-AAAGTATAAAAAAATATA
16366893 TTTTAAA
1 TTTTAAA
16366900 AATTTTATGT
Statistics
Matches: 25, Mismatches: 3, Indels: 4
0.78 0.09 0.12
Matches are distributed among these distances:
22 16 0.64
23 9 0.36
ACGTcount: A:0.50, C:0.02, G:0.02, T:0.46
Consensus pattern (22 bp):
TTTTAAAGTATAAAAAAATATA
Found at i:16370227 original size:12 final size:13
Alignment explanation
Indices: 16370212--16370242 Score: 55
Period size: 13 Copynumber: 2.5 Consensus size: 13
16370202 TTTTCTTATT
16370212 TATTTTA-TTAAG
1 TATTTTATTTAAG
16370224 TATTTTATTTAAG
1 TATTTTATTTAAG
16370237 TATTTT
1 TATTTT
16370243 TTTCCCTTAG
Statistics
Matches: 18, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
12 7 0.39
13 11 0.61
ACGTcount: A:0.29, C:0.00, G:0.06, T:0.65
Consensus pattern (13 bp):
TATTTTATTTAAG
Found at i:16381448 original size:9 final size:9
Alignment explanation
Indices: 16381434--16381489 Score: 69
Period size: 9 Copynumber: 6.1 Consensus size: 9
16381424 TATGCTTGAA
16381434 AAAAAAAAG
1 AAAAAAAAG
16381443 AAAAAAATAG
1 AAAAAAA-AG
16381453 AAAAAAAAG
1 AAAAAAAAG
*
16381462 AAAAAAGAG
1 AAAAAAAAG
*
16381471 AAAAAATTA-
1 AAAAAA-AAG
16381480 AAAAAAAAG
1 AAAAAAAAG
16381489 A
1 A
16381490 TTCAAAACAA
Statistics
Matches: 41, Mismatches: 3, Indels: 6
0.82 0.06 0.12
Matches are distributed among these distances:
8 1 0.02
9 30 0.73
10 10 0.24
ACGTcount: A:0.84, C:0.00, G:0.11, T:0.05
Consensus pattern (9 bp):
AAAAAAAAG
Found at i:16381474 original size:27 final size:26
Alignment explanation
Indices: 16381432--16381489 Score: 84
Period size: 27 Copynumber: 2.2 Consensus size: 26
16381422 ACTATGCTTG
16381432 AAAA-AAAAAAGAAAAAAA-TAGAAAA
1 AAAAGAAAAAAGAAAAAAATTA-AAAA
16381457 AAAAGAAAAAAGAGAAAAAATTAAAAA
1 AAAAGAAAAAAGA-AAAAAATTAAAAA
16381484 AAAAGA
1 AAAAGA
16381490 TTCAAAACAA
Statistics
Matches: 30, Mismatches: 0, Indels: 4
0.88 0.00 0.12
Matches are distributed among these distances:
25 4 0.13
26 8 0.27
27 16 0.53
28 2 0.07
ACGTcount: A:0.84, C:0.00, G:0.10, T:0.05
Consensus pattern (26 bp):
AAAAGAAAAAAGAAAAAAATTAAAAA
Found at i:16382547 original size:20 final size:20
Alignment explanation
Indices: 16382522--16382559 Score: 67
Period size: 20 Copynumber: 1.9 Consensus size: 20
16382512 TTGAGATTTA
16382522 TTGAATGAGAACCTTTGAGT
1 TTGAATGAGAACCTTTGAGT
*
16382542 TTGAATGAGAAGCTTTGA
1 TTGAATGAGAACCTTTGA
16382560 ATTTTTTAAT
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
20 17 1.00
ACGTcount: A:0.32, C:0.08, G:0.26, T:0.34
Consensus pattern (20 bp):
TTGAATGAGAACCTTTGAGT
Found at i:16382895 original size:42 final size:42
Alignment explanation
Indices: 16382837--16383191 Score: 335
Period size: 42 Copynumber: 8.4 Consensus size: 42
16382827 TGAAAGAGTG
* * *
16382837 ATTTATTTTTTTAAAGTTCTATTGCCTTTATTCAGAGGAGCT
1 ATTTATTTTTTCAAAGTTCTGTTGCCTCTATTCAGAGGAGCT
*
16382879 ATTTATTTTTTCAAAGTTCTGTTGCCTCTGTTCAGAGGAGCT
1 ATTTATTTTTTCAAAGTTCTGTTGCCTCTATTCAGAGGAGCT
* * * *
16382921 ATTTATTTTTTCAAAGTTGTATTGCATCTATTCAGAGGAGCC
1 ATTTATTTTTTCAAAGTTCTGTTGCCTCTATTCAGAGGAGCT
* * * * * *
16382963 GTTTATTTTTCCAAAGTTATGTTACTTCTATTTAGAGGAG-T
1 ATTTATTTTTTCAAAGTTCTGTTGCCTCTATTCAGAGGAGCT
* * * * * * * *
16383004 CGTTTATTTTTCCAAAGTTTTATTGTCTCTATTTAAAGGAGCC
1 -ATTTATTTTTTCAAAGTTCTGTTGCCTCTATTCAGAGGAGCT
*
16383047 ATTTA-TTTTTCTAAACTTCTGTTGCCTCTATTCAGAGGAG-T
1 ATTTATTTTTTC-AAAGTTCTGTTGCCTCTATTCAGAGGAGCT
* * * * *
16383088 CATTTATTTTTTTCAAAATTTTGTTGCCTTTATTCAGAGGGGCC
1 -ATTTA-TTTTTTCAAAGTTCTGTTGCCTCTATTCAGAGGAGCT
* *
16383132 ATTTATTTTTTCAAAG-TC-GTTGAGCCTCTGTTTAGAGGAGC-
1 ATTTATTTTTTCAAAGTTCTGTT--GCCTCTATTCAGAGGAGCT
16383173 ATTTATTTTTCTCAAAGTT
1 ATTTATTTTT-TCAAAGTT
16383192 GTTGAGCCTC
Statistics
Matches: 258, Mismatches: 44, Indels: 21
0.80 0.14 0.07
Matches are distributed among these distances:
40 3 0.01
41 16 0.06
42 203 0.79
43 30 0.12
44 6 0.02
ACGTcount: A:0.23, C:0.14, G:0.16, T:0.47
Consensus pattern (42 bp):
ATTTATTTTTTCAAAGTTCTGTTGCCTCTATTCAGAGGAGCT
Found at i:16382978 original size:84 final size:84
Alignment explanation
Indices: 16382832--16383193 Score: 390
Period size: 84 Copynumber: 4.3 Consensus size: 84
16382822 GATTGTGAAA
* * * * * *
16382832 GAGTGATTTATTTTTTTAAAGTTCTATTGCCTTTATTCAGAGGAGCTATTTATTTTTTCAAAGTT
1 GAGTCATTTATTTTTTCAAAGTTGTATTGCCTCTATTCAGAGGAGCCATTTATTTTTCCAAAGTT
*
16382897 CTGTTGCCTCTGTTCAGAG
66 CTGTTGCCTCTATTCAGAG
* *
16382916 GAG-CTATTTATTTTTTCAAAGTTGTATTGCATCTATTCAGAGGAGCCGTTTATTTTTCCAAAGT
1 GAGTC-ATTTATTTTTTCAAAGTTGTATTGCCTCTATTCAGAGGAGCCATTTATTTTTCCAAAGT
* * * *
16382980 TATGTTACTTCTATTTAGAG
65 TCTGTTGCCTCTATTCAGAG
* * * * * * * *
16383000 GAGTCGTTTATTTTTCCAAAGTTTTATTGTCTCTATTTAAAGGAGCCATTTATTTTTCTAAACTT
1 GAGTCATTTATTTTTTCAAAGTTGTATTGCCTCTATTCAGAGGAGCCATTTATTTTTCCAAAGTT
16383065 CTGTTGCCTCTATTCAGAG
66 CTGTTGCCTCTATTCAGAG
* * * * * *
16383084 GAGTCATTTATTTTTTTCAAAATTTTGTTGCCTTTATTCAGAGGGGCCATTTATTTTTTCAAAG-
1 GAGTCATTTA-TTTTTTCAAAGTTGTATTGCCTCTATTCAGAGGAGCCATTTATTTTTCCAAAGT
* *
16383148 TC-GTTGAGCCTCTGTTTAGAG
65 TCTGTT--GCCTCTATTCAGAG
16383169 GAG-CATTTATTTTTCTCAAAGTTGT
1 GAGTCATTTATTTTT-TCAAAGTTGT
16383194 TGAGCCTCTA
Statistics
Matches: 229, Mismatches: 43, Indels: 12
0.81 0.15 0.04
Matches are distributed among these distances:
83 8 0.03
84 163 0.71
85 58 0.25
ACGTcount: A:0.23, C:0.14, G:0.17, T:0.46
Consensus pattern (84 bp):
GAGTCATTTATTTTTTCAAAGTTGTATTGCCTCTATTCAGAGGAGCCATTTATTTTTCCAAAGTT
CTGTTGCCTCTATTCAGAG
Found at i:16383176 original size:126 final size:126
Alignment explanation
Indices: 16382832--16383188 Score: 377
Period size: 126 Copynumber: 2.8 Consensus size: 126
16382822 GATTGTGAAA
* * * *
16382832 GAGTGATTTATTTTTTT-AAAGTTCTATTGCCTTTATTCAGAGGAGCTATTTATTTTTTCAAAGT
1 GAGTCATTTATTTTTTTCAAAGTTATGTTGCCTTTATTCAGAGGAGCCATTTATTTTTTCAAAG-
* * *
16382896 TCTGTT-GCCTCTGTTCAGAGGAGCTATTTATTTTT-TCAAAGTTGTATTGCATCTATTCAGAG
65 TC-GTTAGCCTCTGTTTAGAGGAGC-ATTTATTTTTCTCAAACTTCTATTGCATCTATTCAGAG
* * * * * * * *
16382958 GAGCCGTTTA-TTTTTCCAAAGTTATGTT-ACTTCTATTTAGAGGAGTCGTTTATTTTTCCAAAG
1 GAGTCATTTATTTTTTTCAAAGTTATGTTGCCTT-TATTCAGAGGAGCCATTTATTTTTTCAAAG
* * * * * *
16383021 T-TTTATTGTCTCTATTTAAAGGAGCCATTTATTTTTCT-AAACTTCTGTTGCCTCTATTCAGAG
65 TCGTTA--GCCTCTGTTTAGAGGAG-CATTTATTTTTCTCAAACTTCTATTGCATCTATTCAGAG
* * *
16383084 GAGTCATTTATTTTTTTCAAAATTTTGTTGCCTTTATTCAGAGGGGCCATTTATTTTTTCAAAGT
1 GAGTCATTTATTTTTTTCAAAGTTATGTTGCCTTTATTCAGAGGAGCCATTTATTTTTTCAAAGT
16383149 CGTTGAGCCTCTGTTTAGAGGAGCATTTATTTTTCTCAAA
66 CGTT-AGCCTCTGTTTAGAGGAGCATTTATTTTTCTCAAA
16383189 GTTGTTGAGC
Statistics
Matches: 183, Mismatches: 36, Indels: 23
0.76 0.15 0.10
Matches are distributed among these distances:
123 2 0.01
125 9 0.05
126 106 0.58
127 60 0.33
128 5 0.03
129 1 0.01
ACGTcount: A:0.23, C:0.14, G:0.17, T:0.46
Consensus pattern (126 bp):
GAGTCATTTATTTTTTTCAAAGTTATGTTGCCTTTATTCAGAGGAGCCATTTATTTTTTCAAAGT
CGTTAGCCTCTGTTTAGAGGAGCATTTATTTTTCTCAAACTTCTATTGCATCTATTCAGAG
Found at i:16383251 original size:10 final size:10
Alignment explanation
Indices: 16383236--16383261 Score: 52
Period size: 10 Copynumber: 2.6 Consensus size: 10
16383226 TTTTAACAAG
16383236 AAAAAAAATA
1 AAAAAAAATA
16383246 AAAAAAAATA
1 AAAAAAAATA
16383256 AAAAAA
1 AAAAAA
16383262 TAAGAAAAGT
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
10 16 1.00
ACGTcount: A:0.92, C:0.00, G:0.00, T:0.08
Consensus pattern (10 bp):
AAAAAAAATA
Found at i:16384238 original size:22 final size:22
Alignment explanation
Indices: 16384208--16384249 Score: 59
Period size: 22 Copynumber: 1.9 Consensus size: 22
16384198 ATTTTCAAAC
*
16384208 AAAAAATAATAATA-AAAAATA
1 AAAAAATAAAAATATAAAAATA
16384229 AAAAACATAAAAATATAAAAA
1 AAAAA-ATAAAAATATAAAAA
16384250 AATTTTAGAA
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
21 5 0.28
22 8 0.44
23 5 0.28
ACGTcount: A:0.81, C:0.02, G:0.00, T:0.17
Consensus pattern (22 bp):
AAAAAATAAAAATATAAAAATA
Found at i:16384246 original size:17 final size:16
Alignment explanation
Indices: 16384219--16384250 Score: 55
Period size: 17 Copynumber: 1.9 Consensus size: 16
16384209 AAAAATAATA
16384219 ATAAAAAATAAAAAAC
1 ATAAAAAATAAAAAAC
16384235 ATAAAAATATAAAAAA
1 ATAAAAA-ATAAAAAA
16384251 ATTTTAGAAT
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
16 7 0.47
17 8 0.53
ACGTcount: A:0.81, C:0.03, G:0.00, T:0.16
Consensus pattern (16 bp):
ATAAAAAATAAAAAAC
Found at i:16398553 original size:66 final size:66
Alignment explanation
Indices: 16398473--16398606 Score: 250
Period size: 66 Copynumber: 2.0 Consensus size: 66
16398463 ATTAATGTTT
16398473 ATTTATAAATATATTTGCATTAAATGAAAAAATCTAAAATAATATATCGAAACAATTGATATTAA
1 ATTTATAAATATATTTGCATTAAATGAAAAAATCTAAAATAATATATCGAAACAATTGATATTAA
16398538 C
66 C
* *
16398539 ATTTATAAATATATTTGTATTAAATGAAAAAATCTAAAATAATATATTGAAACAATTGATATTAA
1 ATTTATAAATATATTTGCATTAAATGAAAAAATCTAAAATAATATATCGAAACAATTGATATTAA
16398604 C
66 C
16398605 AT
1 AT
16398607 AAACTTTTTT
Statistics
Matches: 66, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
66 66 1.00
ACGTcount: A:0.51, C:0.06, G:0.06, T:0.37
Consensus pattern (66 bp):
ATTTATAAATATATTTGCATTAAATGAAAAAATCTAAAATAATATATCGAAACAATTGATATTAA
C
Found at i:16398583 original size:33 final size:33
Alignment explanation
Indices: 16398480--16398586 Score: 85
Period size: 33 Copynumber: 3.2 Consensus size: 33
16398470 TTTATTTATA
*
16398480 AATATATTTGCATTAAATGAAAAAATCTAAAAT
1 AATATATTTGAATTAAATGAAAAAATCTAAAAT
* ** * * * *
16398513 AATATA-TCGAAACAATTGATATTAACAT-TTATA-
1 AATATATTTGAATTAAATGA-A--AAAATCTAAAAT
*
16398546 AATATATTTGTATTAAATGAAAAAATCTAAAAT
1 AATATATTTGAATTAAATGAAAAAATCTAAAAT
16398579 AATATATT
1 AATATATT
16398587 GAAACAATTG
Statistics
Matches: 52, Mismatches: 16, Indels: 12
0.65 0.20 0.15
Matches are distributed among these distances:
31 4 0.08
32 11 0.21
33 22 0.42
34 11 0.21
35 4 0.08
ACGTcount: A:0.52, C:0.06, G:0.06, T:0.36
Consensus pattern (33 bp):
AATATATTTGAATTAAATGAAAAAATCTAAAAT
Found at i:16400627 original size:37 final size:37
Alignment explanation
Indices: 16400586--16400662 Score: 136
Period size: 37 Copynumber: 2.1 Consensus size: 37
16400576 AAGGTGGAGG
*
16400586 GGTGGGGTGAGATTGGGTGAGGTAGGGTGCATTGGAA
1 GGTGGGGTGAGATTGGGTGAGGTAGAGTGCATTGGAA
*
16400623 GGTGGGGTGAGATTGGGTGAGGTTGAGTGCATTGGAA
1 GGTGGGGTGAGATTGGGTGAGGTAGAGTGCATTGGAA
16400660 GGT
1 GGT
16400663 AGGATGGGGT
Statistics
Matches: 38, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
37 38 1.00
ACGTcount: A:0.18, C:0.03, G:0.53, T:0.26
Consensus pattern (37 bp):
GGTGGGGTGAGATTGGGTGAGGTAGAGTGCATTGGAA
Found at i:16404619 original size:33 final size:33
Alignment explanation
Indices: 16404545--16404631 Score: 95
Period size: 33 Copynumber: 2.5 Consensus size: 33
16404535 ATAGTTATTA
* *
16404545 TCCACCTCAAATGTATCATCTACCTCAAATGTATC
1 TCCACCTCAAATATATCATCT--CTCAAATATATC
*
16404580 TCCCACCACAAATATATCATCT-TCAAATATATCC
1 T-CCACCTCAAATATATCATCTCTCAAATATAT-C
*
16404614 TCCACCTCAAATACATCA
1 TCCACCTCAAATATATCA
16404632 AGAACAAATG
Statistics
Matches: 45, Mismatches: 5, Indels: 6
0.80 0.09 0.11
Matches are distributed among these distances:
33 24 0.53
34 2 0.04
35 1 0.02
36 18 0.40
ACGTcount: A:0.36, C:0.33, G:0.02, T:0.29
Consensus pattern (33 bp):
TCCACCTCAAATATATCATCTCTCAAATATATC
Found at i:16404625 original size:18 final size:18
Alignment explanation
Indices: 16404544--16404631 Score: 76
Period size: 18 Copynumber: 5.1 Consensus size: 18
16404534 TATAGTTATT
*
16404544 ATCCACCTCAAATGTATC
1 ATCCACCTCAAATATATC
* *
16404562 ATCTACCTCAAATGTATC
1 ATCCACCTCAAATATATC
*
16404580 -TCCCACCACAAATATATC
1 AT-CCACCTCAAATATATC
*
16404598 AT---CTTCAAATATATC
1 ATCCACCTCAAATATATC
* *
16404613 CTCCACCTCAAATACATC
1 ATCCACCTCAAATATATC
16404631 A
1 A
16404632 AGAACAAATG
Statistics
Matches: 55, Mismatches: 10, Indels: 10
0.73 0.13 0.13
Matches are distributed among these distances:
15 12 0.22
17 1 0.02
18 41 0.75
19 1 0.02
ACGTcount: A:0.36, C:0.33, G:0.02, T:0.28
Consensus pattern (18 bp):
ATCCACCTCAAATATATC
Found at i:16419938 original size:21 final size:24
Alignment explanation
Indices: 16419905--16419963 Score: 72
Period size: 22 Copynumber: 2.5 Consensus size: 24
16419895 TCATGATAAA
16419905 TTAATGATATTATTT-TTTA-TATTT
1 TTAA-GATATTATTTATTTAGT-TTT
16419929 TTAA-AT-TTATTTATTTAGTTTT
1 TTAAGATATTATTTATTTAGTTTT
16419951 TTAAGATATTATT
1 TTAAGATATTATT
16419964 ATTATTATTA
Statistics
Matches: 31, Mismatches: 0, Indels: 8
0.79 0.00 0.21
Matches are distributed among these distances:
21 6 0.19
22 13 0.42
23 3 0.10
24 9 0.29
ACGTcount: A:0.31, C:0.00, G:0.05, T:0.64
Consensus pattern (24 bp):
TTAAGATATTATTTATTTAGTTTT
Found at i:16419965 original size:3 final size:3
Alignment explanation
Indices: 16419957--16419989 Score: 66
Period size: 3 Copynumber: 11.0 Consensus size: 3
16419947 TTTTTTAAGA
16419957 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT
16419990 ATACAAATTA
Statistics
Matches: 30, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 30 1.00
ACGTcount: A:0.33, C:0.00, G:0.00, T:0.67
Consensus pattern (3 bp):
TAT
Found at i:16420412 original size:16 final size:16
Alignment explanation
Indices: 16420391--16420421 Score: 62
Period size: 16 Copynumber: 1.9 Consensus size: 16
16420381 TAAAATCTTG
16420391 ACTTTATGAATACTTT
1 ACTTTATGAATACTTT
16420407 ACTTTATGAATACTT
1 ACTTTATGAATACTT
16420422 GAGTTTGAAT
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 15 1.00
ACGTcount: A:0.32, C:0.13, G:0.06, T:0.48
Consensus pattern (16 bp):
ACTTTATGAATACTTT
Found at i:16430402 original size:15 final size:15
Alignment explanation
Indices: 16430382--16430415 Score: 52
Period size: 15 Copynumber: 2.3 Consensus size: 15
16430372 TTTTTTAATT
16430382 AAATCAAA-TTGAATA
1 AAATCAAATTTGAA-A
16430397 AAATCAAATTTGAAA
1 AAATCAAATTTGAAA
16430412 AAAT
1 AAAT
16430416 TAGGTAAATG
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
15 13 0.72
16 5 0.28
ACGTcount: A:0.62, C:0.06, G:0.06, T:0.26
Consensus pattern (15 bp):
AAATCAAATTTGAAA
Found at i:16431243 original size:21 final size:21
Alignment explanation
Indices: 16431209--16431248 Score: 55
Period size: 20 Copynumber: 1.9 Consensus size: 21
16431199 CTTTTTCTTT
*
16431209 TAATTTTTTCTTTA-AAAATA
1 TAATTTTTTATTTATAAAATA
16431229 TAATTTTTTAATTTATAAAA
1 TAATTTTTT-ATTTATAAAA
16431249 AATATATATT
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
20 9 0.53
21 4 0.24
22 4 0.24
ACGTcount: A:0.42, C:0.03, G:0.00, T:0.55
Consensus pattern (21 bp):
TAATTTTTTATTTATAAAATA
Found at i:16437108 original size:33 final size:29
Alignment explanation
Indices: 16437040--16437098 Score: 109
Period size: 29 Copynumber: 2.0 Consensus size: 29
16437030 TATATTAATT
16437040 TTTTATTATATAATAAATTAATAAATAAA
1 TTTTATTATATAATAAATTAATAAATAAA
*
16437069 TTTTATTGTATAATAAATTAATAAATAAA
1 TTTTATTATATAATAAATTAATAAATAAA
16437098 T
1 T
16437099 AAATTTTATT
Statistics
Matches: 29, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
29 29 1.00
ACGTcount: A:0.53, C:0.00, G:0.02, T:0.46
Consensus pattern (29 bp):
TTTTATTATATAATAAATTAATAAATAAA
Found at i:16437123 original size:33 final size:33
Alignment explanation
Indices: 16437040--16437108 Score: 101
Period size: 33 Copynumber: 2.2 Consensus size: 33
16437030 TATATTAATT
*
16437040 TTTTATTATATAATAAA-T--T-AATAAATAAA
1 TTTTATTGTATAATAAATTAATAAATAAATAAA
16437069 TTTTATTGTATAATAAATTAATAAATAAATAAA
1 TTTTATTGTATAATAAATTAATAAATAAATAAA
16437102 TTTTATT
1 TTTTATT
16437109 TTAATTTTTA
Statistics
Matches: 35, Mismatches: 1, Indels: 4
0.88 0.03 0.10
Matches are distributed among these distances:
29 16 0.46
30 1 0.03
32 1 0.03
33 17 0.49
ACGTcount: A:0.51, C:0.00, G:0.01, T:0.48
Consensus pattern (33 bp):
TTTTATTGTATAATAAATTAATAAATAAATAAA
Found at i:16437134 original size:16 final size:15
Alignment explanation
Indices: 16437108--16437139 Score: 55
Period size: 16 Copynumber: 2.1 Consensus size: 15
16437098 TAAATTTTAT
16437108 TTTAATTTTTATTAA
1 TTTAATTTTTATTAA
16437123 TTTAATTATTTATTAA
1 TTTAATT-TTTATTAA
16437139 T
1 T
16437140 AAAATTATTA
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
15 7 0.44
16 9 0.56
ACGTcount: A:0.34, C:0.00, G:0.00, T:0.66
Consensus pattern (15 bp):
TTTAATTTTTATTAA
Found at i:16437145 original size:16 final size:16
Alignment explanation
Indices: 16437111--16437148 Score: 51
Period size: 16 Copynumber: 2.4 Consensus size: 16
16437101 ATTTTATTTT
**
16437111 AATT-TTTATTAATTT
1 AATTATTTATTAATAA
16437126 AATTATTTATTAATAA
1 AATTATTTATTAATAA
16437142 AATTATT
1 AATTATT
16437149 ATTTGAAATA
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
15 4 0.20
16 16 0.80
ACGTcount: A:0.42, C:0.00, G:0.00, T:0.58
Consensus pattern (16 bp):
AATTATTTATTAATAA
Found at i:16438354 original size:23 final size:23
Alignment explanation
Indices: 16438327--16438371 Score: 72
Period size: 23 Copynumber: 2.0 Consensus size: 23
16438317 TATAAAATAT
* *
16438327 ACAAAATTAAGATCATACTAAAC
1 ACAAAATTAAAATCACACTAAAC
16438350 ACAAAATTAAAATCACACTAAA
1 ACAAAATTAAAATCACACTAAA
16438372 AATGAGAATT
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
23 20 1.00
ACGTcount: A:0.60, C:0.18, G:0.02, T:0.20
Consensus pattern (23 bp):
ACAAAATTAAAATCACACTAAAC
Found at i:16440536 original size:37 final size:37
Alignment explanation
Indices: 16440495--16440566 Score: 108
Period size: 37 Copynumber: 1.9 Consensus size: 37
16440485 CCCACTGACA
* **
16440495 TTTCTTTTCAATTCTGCTGGTCAGGCAATGGCATTGG
1 TTTCTTTTCAATTCTGATCATCAGGCAATGGCATTGG
*
16440532 TTTCTTTTCAATTCTGATCATCAGGCAATTGCATT
1 TTTCTTTTCAATTCTGATCATCAGGCAATGGCATT
16440567 TCCAGTCTAG
Statistics
Matches: 31, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
37 31 1.00
ACGTcount: A:0.19, C:0.19, G:0.18, T:0.43
Consensus pattern (37 bp):
TTTCTTTTCAATTCTGATCATCAGGCAATGGCATTGG
Found at i:16441603 original size:11 final size:11
Alignment explanation
Indices: 16441587--16441611 Score: 50
Period size: 11 Copynumber: 2.3 Consensus size: 11
16441577 TGGAGATGAA
16441587 ATTCATGACTC
1 ATTCATGACTC
16441598 ATTCATGACTC
1 ATTCATGACTC
16441609 ATT
1 ATT
16441612 TTCGATCAAG
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 14 1.00
ACGTcount: A:0.28, C:0.24, G:0.08, T:0.40
Consensus pattern (11 bp):
ATTCATGACTC
Found at i:16443584 original size:2 final size:2
Alignment explanation
Indices: 16443577--16443618 Score: 75
Period size: 2 Copynumber: 21.0 Consensus size: 2
16443567 TGTCAAAATC
*
16443577 AT AT AT AT AT AT AT AT AT AT AT AT AC AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
16443619 TACAATATAC
Statistics
Matches: 38, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
2 38 1.00
ACGTcount: A:0.50, C:0.02, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:16444769 original size:13 final size:13
Alignment explanation
Indices: 16444751--16444793 Score: 52
Period size: 13 Copynumber: 3.3 Consensus size: 13
16444741 CTCTAATAGT
*
16444751 TAAATTT-TGTCAG
1 TAAATTTCT-TCAA
16444764 TAAATTTCTTCAA
1 TAAATTTCTTCAA
*
16444777 TAAATTTCATCAA
1 TAAATTTCTTCAA
16444790 TAAA
1 TAAA
16444794 AGTATAAATT
Statistics
Matches: 27, Mismatches: 2, Indels: 2
0.87 0.06 0.06
Matches are distributed among these distances:
13 26 0.96
14 1 0.04
ACGTcount: A:0.42, C:0.12, G:0.05, T:0.42
Consensus pattern (13 bp):
TAAATTTCTTCAA
Found at i:16447734 original size:26 final size:26
Alignment explanation
Indices: 16447696--16447745 Score: 91
Period size: 26 Copynumber: 1.9 Consensus size: 26
16447686 TGATCTTACA
16447696 AAAATTCACTATACATACTACAAGGC
1 AAAATTCACTATACATACTACAAGGC
*
16447722 AAAATTCATTATACATACTACAAG
1 AAAATTCACTATACATACTACAAG
16447746 ACAACACGTT
Statistics
Matches: 23, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
26 23 1.00
ACGTcount: A:0.48, C:0.20, G:0.06, T:0.26
Consensus pattern (26 bp):
AAAATTCACTATACATACTACAAGGC
Found at i:16448674 original size:337 final size:335
Alignment explanation
Indices: 16448040--16448714 Score: 1075
Period size: 337 Copynumber: 2.0 Consensus size: 335
16448030 TAGAACAATT
* ** *
16448040 TAATTTATTTATATTAAGTTTGATCAATACAATCAAATGACAATATTTTAATAATTAGTAATATA
1 TAATTTATTTATATTAACTTTGATCAATACAATCAAACCACAATATTTCAATAATTAGTAATATA
*
16448105 TAAATTTCACTAAATTATCAAATATATAAACTATTTCAAAACAAATATAAACCTTAATAATATTT
66 TAAATTTCACTAAACTATCAAATATATAAACTATTTCAAAACAAATATAAACCTTAATAATATTT
* *
16448170 AACTTCAAAATGATCATTGGCTATTAGTAATATATAAATTATAACCTCAAATCAATATAAATGAT
131 AACTTCAAAATGATCATTAGCTATTAGTAATATATAAATTATAACCTCAAATCAATATAAATAAT
* * *
16448235 TTTTATTTCTATAATTATTATTAAAATCTAGAAAATATTAAATATAAAACATCCATACAAATATA
196 TTTAATTTCTATAATTATTATTAAAATATAGAAAATAGTAAATATAAAACATCCATACAAATATA
*
16448300 TATATAAATATTAATACACATCAAACCCAAATTAACCAACCCTAAATCTTACACATCTAAAAGTT
261 TATATAAATATTAATACACATCAAACCCAAATTAACCAACCCTAAATCTTACACATCTAAAAATT
16448365 AATAAATATA
326 AATAAATATA
*
16448375 TAATTTATTTATATTAACTTTGATCAATACAATCAAACCACAATATTTCAATAATTAGTGATATA
1 TAATTTATTTATATTAACTTTGATCAATACAATCAAACCACAATATTTCAATAATTAGTAATATA
* * *
16448440 TAGATTTCATTAAACTATCAAATATATAAACTATTTCAAAACAAATATAAATCTTAATAATATAT
66 TAAATTTCACTAAACTATCAAATATATAAACTATTTCAAAACAAATATAAACCTTAATAATAT-T
* *
16448505 AAATTACTTCAAAATGA-GA-TAGCTATTAGTAATATATAAATTATAACCTCAAATCAATATAAA
130 ---TAACTTCAAAATGATCATTAGCTATTAGTAATATATAAATTATAACCTCAAATCAATATAAA
* * *
16448568 TAATTTTAATTTTTATAATTATTATTAAAATATAGACAATAGTAAATATAAAACATCCATATAAA
192 TAATTTTAATTTCTATAATTATTATTAAAATATAGAAAATAGTAAATATAAAACATCCATACAAA
* * * * *
16448633 TATATATATAAATATTAATGCACATTAAACCCAAATTAACCAACCCTAATTCTTATATATCTAAA
257 TATATATATAAATATTAATACACATCAAACCCAAATTAACCAACCCTAAATCTTACACATCTAAA
16448698 AATTAATAAATATA
322 AATTAATAAATATA
16448712 TAA
1 TAA
16448715 AAAAACCCAA
Statistics
Matches: 311, Mismatches: 25, Indels: 6
0.91 0.07 0.02
Matches are distributed among these distances:
335 119 0.38
336 1 0.00
337 177 0.57
338 1 0.00
339 13 0.04
ACGTcount: A:0.49, C:0.12, G:0.03, T:0.36
Consensus pattern (335 bp):
TAATTTATTTATATTAACTTTGATCAATACAATCAAACCACAATATTTCAATAATTAGTAATATA
TAAATTTCACTAAACTATCAAATATATAAACTATTTCAAAACAAATATAAACCTTAATAATATTT
AACTTCAAAATGATCATTAGCTATTAGTAATATATAAATTATAACCTCAAATCAATATAAATAAT
TTTAATTTCTATAATTATTATTAAAATATAGAAAATAGTAAATATAAAACATCCATACAAATATA
TATATAAATATTAATACACATCAAACCCAAATTAACCAACCCTAAATCTTACACATCTAAAAATT
AATAAATATA
Found at i:16448965 original size:33 final size:31
Alignment explanation
Indices: 16448860--16448971 Score: 97
Period size: 33 Copynumber: 3.6 Consensus size: 31
16448850 AAAATATATC
* * * * *
16448860 ACCAACAAATTTTAACAAATATATAACTAAA
1 ACCAAAAAATTTCAACAAACATAAAACCAAA
16448891 ACCTAAACAAATTTCAACAAACATAAAACC--A
1 ACC-AAA-AAATTTCAACAAACATAAAACCAAA
*
16448922 A-C-TAAAATTTCAACAAACATAAAACCAAA
1 ACCAAAAAATTTCAACAAACATAAAACCAAA
*
16448951 AGCCAAATAAATTTCATCAAA
1 A-CCAAA-AAATTTCAACAAA
16448972 TAATTAACTA
Statistics
Matches: 65, Mismatches: 8, Indels: 14
0.75 0.09 0.16
Matches are distributed among these distances:
27 22 0.34
28 1 0.02
29 2 0.03
30 1 0.02
31 6 0.09
32 3 0.05
33 30 0.46
ACGTcount: A:0.58, C:0.21, G:0.01, T:0.21
Consensus pattern (31 bp):
ACCAAAAAATTTCAACAAACATAAAACCAAA
Found at i:16451120 original size:29 final size:29
Alignment explanation
Indices: 16451088--16451173 Score: 102
Period size: 29 Copynumber: 3.0 Consensus size: 29
16451078 TGTTCTTGTA
*
16451088 TATATTCATATTAGTTGTATTTATTCGTG
1 TATATTCATATTAGTTGTATTTATTCATG
** *
16451117 TATATTCATATTAGTCATATCTATTCATG
1 TATATTCATATTAGTTGTATTTATTCATG
* *
16451146 GATATTCGTATTA-TTCGTATTTATTCAT
1 TATATTCATATTAGTT-GTATTTATTCAT
16451174 ATCGTGTTTA
Statistics
Matches: 47, Mismatches: 9, Indels: 2
0.81 0.16 0.03
Matches are distributed among these distances:
28 1 0.02
29 46 0.98
ACGTcount: A:0.27, C:0.10, G:0.10, T:0.52
Consensus pattern (29 bp):
TATATTCATATTAGTTGTATTTATTCATG
Found at i:16451984 original size:24 final size:24
Alignment explanation
Indices: 16451957--16452011 Score: 92
Period size: 24 Copynumber: 2.3 Consensus size: 24
16451947 TATTGGGAGA
*
16451957 GATGCTATAGGCAGTGGTCTTGTC
1 GATGCTAGAGGCAGTGGTCTTGTC
*
16451981 GATGCTCGAGGCAGTGGTCTTGTC
1 GATGCTAGAGGCAGTGGTCTTGTC
16452005 GATGCTA
1 GATGCTA
16452012 CGAGTTAAGA
Statistics
Matches: 28, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
24 28 1.00
ACGTcount: A:0.16, C:0.18, G:0.35, T:0.31
Consensus pattern (24 bp):
GATGCTAGAGGCAGTGGTCTTGTC
Found at i:16453648 original size:12 final size:12
Alignment explanation
Indices: 16453625--16453651 Score: 54
Period size: 12 Copynumber: 2.2 Consensus size: 12
16453615 TTTGTCCAGC
16453625 CCCTTGTCCAAT
1 CCCTTGTCCAAT
16453637 CCCTTGTCCAAT
1 CCCTTGTCCAAT
16453649 CCC
1 CCC
16453652 ATTAGGTCAG
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 15 1.00
ACGTcount: A:0.15, C:0.48, G:0.07, T:0.30
Consensus pattern (12 bp):
CCCTTGTCCAAT
Found at i:16454938 original size:11 final size:11
Alignment explanation
Indices: 16454922--16454954 Score: 57
Period size: 11 Copynumber: 3.0 Consensus size: 11
16454912 TTAGGGAATT
16454922 ATTATAAAAAA
1 ATTATAAAAAA
16454933 ATTATAAAAAA
1 ATTATAAAAAA
*
16454944 AGTATAAAAAA
1 ATTATAAAAAA
16454955 GATAATAATA
Statistics
Matches: 21, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
11 21 1.00
ACGTcount: A:0.73, C:0.00, G:0.03, T:0.24
Consensus pattern (11 bp):
ATTATAAAAAA
Found at i:16455035 original size:29 final size:29
Alignment explanation
Indices: 16454997--16455122 Score: 107
Period size: 29 Copynumber: 4.2 Consensus size: 29
16454987 CCTAAAGTCA
*
16454997 AAACCTTAAAATCAAACCCTAAACCCTCC
1 AAACCCTAAAATCAAACCCTAAACCCTCC
*
16455026 GAACCCTAAAATCAAA-CCTCAAACCCTAAAATCTTC
1 AAACCCTAAAATCAAACCCT-AAACCC-----TC--C
* * *
16455062 AAA-TCTAAAATCAAATCCTAAA-TCTCC
1 AAACCCTAAAATCAAACCCTAAACCCTCC
16455089 AAACCCTAAAATC-AACCCTAAACCCTCC
1 AAACCCTAAAATCAAACCCTAAACCCTCC
16455117 AAACCC
1 AAACCC
16455123 AGAGGATTAT
Statistics
Matches: 78, Mismatches: 8, Indels: 23
0.72 0.07 0.21
Matches are distributed among these distances:
27 12 0.15
28 21 0.27
29 22 0.28
34 3 0.04
35 14 0.18
36 6 0.08
ACGTcount: A:0.45, C:0.36, G:0.01, T:0.18
Consensus pattern (29 bp):
AAACCCTAAAATCAAACCCTAAACCCTCC
Found at i:16455075 original size:28 final size:29
Alignment explanation
Indices: 16455044--16455122 Score: 92
Period size: 28 Copynumber: 2.8 Consensus size: 29
16455034 AAATCAAACC
* *
16455044 TCAAACCCTAAAATCTTCAAA-TCTAAAA
1 TCAAACCCTAAAATCTCCAAACCCTAAAA
*
16455072 TCAAATCCT-AAATCTCCAAACCCTAAAA
1 TCAAACCCTAAAATCTCCAAACCCTAAAA
**
16455100 TC-AACCCTAAACCCTCCAAACCC
1 TCAAACCCTAAAATCTCCAAACCC
16455123 AGAGGATTAT
Statistics
Matches: 43, Mismatches: 6, Indels: 4
0.81 0.11 0.08
Matches are distributed among these distances:
27 15 0.35
28 28 0.65
ACGTcount: A:0.44, C:0.35, G:0.00, T:0.20
Consensus pattern (29 bp):
TCAAACCCTAAAATCTCCAAACCCTAAAA
Found at i:16455490 original size:64 final size:65
Alignment explanation
Indices: 16455369--16455498 Score: 169
Period size: 64 Copynumber: 2.0 Consensus size: 65
16455359 ATATTGATGA
**
16455369 CATTTTTTTAACCAAAAACGCTTTCAATAATCCCCTGTAATTCTTTTAGAGATGATTATTAAAGG
1 CATTTTTTTAAAAAAAAACGCTTTCAATAATCCCCTGTAATTCTTTTAGAGATGATTATTAAAGG
* *
16455434 CATTTTTTGTAAAAAAAAATGCTTT-AATAAT-CCCTTTCAATT-TTTTAGAAGA-GATTATTAA
1 CATTTTTT-TAAAAAAAAACGCTTTCAATAATCCCCTGT-AATTCTTTTAG-AGATGATTATTAA
16455495 AGG
63 AGG
16455498 C
1 C
16455499 GTTTCAGGCA
Statistics
Matches: 58, Mismatches: 4, Indels: 7
0.84 0.06 0.10
Matches are distributed among these distances:
64 24 0.41
65 21 0.36
66 13 0.22
ACGTcount: A:0.36, C:0.14, G:0.11, T:0.39
Consensus pattern (65 bp):
CATTTTTTTAAAAAAAAACGCTTTCAATAATCCCCTGTAATTCTTTTAGAGATGATTATTAAAGG
Found at i:16455968 original size:27 final size:27
Alignment explanation
Indices: 16455938--16455993 Score: 103
Period size: 27 Copynumber: 2.1 Consensus size: 27
16455928 AATAATTTCA
*
16455938 TTAAAAAAAGTATTATTAAATGCGTTT
1 TTAAAAAAAGCATTATTAAATGCGTTT
16455965 TTAAAAAAAGCATTATTAAATGCGTTT
1 TTAAAAAAAGCATTATTAAATGCGTTT
16455992 TT
1 TT
16455994 GGTCAAAAAC
Statistics
Matches: 28, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
27 28 1.00
ACGTcount: A:0.43, C:0.05, G:0.11, T:0.41
Consensus pattern (27 bp):
TTAAAAAAAGCATTATTAAATGCGTTT
Found at i:16456253 original size:15 final size:15
Alignment explanation
Indices: 16456233--16456267 Score: 70
Period size: 15 Copynumber: 2.3 Consensus size: 15
16456223 ACCTATGACT
16456233 TTATAATTAACAACC
1 TTATAATTAACAACC
16456248 TTATAATTAACAACC
1 TTATAATTAACAACC
16456263 TTATA
1 TTATA
16456268 CTCTAACCAT
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 20 1.00
ACGTcount: A:0.46, C:0.17, G:0.00, T:0.37
Consensus pattern (15 bp):
TTATAATTAACAACC
Found at i:16464950 original size:8 final size:8
Alignment explanation
Indices: 16464939--16464973 Score: 61
Period size: 8 Copynumber: 4.4 Consensus size: 8
16464929 AAATAAATAA
*
16464939 ATATATAT
1 ATATATAG
16464947 ATATATAG
1 ATATATAG
16464955 ATATATAG
1 ATATATAG
16464963 ATATATAG
1 ATATATAG
16464971 ATA
1 ATA
16464974 AAAACAGCCA
Statistics
Matches: 26, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
8 26 1.00
ACGTcount: A:0.51, C:0.00, G:0.09, T:0.40
Consensus pattern (8 bp):
ATATATAG
Found at i:16465384 original size:31 final size:30
Alignment explanation
Indices: 16465338--16465398 Score: 86
Period size: 31 Copynumber: 2.0 Consensus size: 30
16465328 TTATTTTTTT
* * *
16465338 ATTTTTTCTTATATAATAAATTAATAAATA
1 ATTTTTTATTATATAATAAACTAACAAATA
16465368 ATTTTATTATTATATAATAAACTAACAAATA
1 ATTTT-TTATTATATAATAAACTAACAAATA
16465399 TATAAATTTT
Statistics
Matches: 27, Mismatches: 3, Indels: 1
0.87 0.10 0.03
Matches are distributed among these distances:
30 5 0.19
31 22 0.81
ACGTcount: A:0.49, C:0.05, G:0.00, T:0.46
Consensus pattern (30 bp):
ATTTTTTATTATATAATAAACTAACAAATA
Found at i:16465504 original size:21 final size:21
Alignment explanation
Indices: 16465480--16465540 Score: 59
Period size: 21 Copynumber: 2.9 Consensus size: 21
16465470 TATTTAAAAT
*
16465480 TTTTATTACATATAATTTTTA
1 TTTTATTACATATAATTTTAA
* * **
16465501 TTTTAATACATTTAATAGTAA
1 TTTTATTACATATAATTTTAA
*
16465522 TTTTTTTACATTATAATTT
1 TTTTATTACA-TATAATTT
16465541 ATTTTACCAT
Statistics
Matches: 29, Mismatches: 10, Indels: 1
0.73 0.25 0.03
Matches are distributed among these distances:
21 24 0.83
22 5 0.17
ACGTcount: A:0.34, C:0.05, G:0.02, T:0.59
Consensus pattern (21 bp):
TTTTATTACATATAATTTTAA
Found at i:16465540 original size:16 final size:18
Alignment explanation
Indices: 16465519--16465553 Score: 56
Period size: 16 Copynumber: 2.1 Consensus size: 18
16465509 CATTTAATAG
16465519 TAATTT-TTTTA-CATTA
1 TAATTTATTTTACCATTA
16465535 TAATTTATTTTACCATTA
1 TAATTTATTTTACCATTA
16465553 T
1 T
16465554 TGTTACTTTT
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
16 6 0.35
17 5 0.29
18 6 0.35
ACGTcount: A:0.31, C:0.09, G:0.00, T:0.60
Consensus pattern (18 bp):
TAATTTATTTTACCATTA
Found at i:16469187 original size:23 final size:23
Alignment explanation
Indices: 16469161--16469205 Score: 63
Period size: 23 Copynumber: 2.0 Consensus size: 23
16469151 ATGTATATTA
*
16469161 AATAAAAATTTGTTTTTTAAATG
1 AATAAAAATTTATTTTTTAAATG
**
16469184 AATAATTATTTATTTTTTAAAT
1 AATAAAAATTTATTTTTTAAAT
16469206 AGTTATGTAT
Statistics
Matches: 19, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
23 19 1.00
ACGTcount: A:0.42, C:0.00, G:0.04, T:0.53
Consensus pattern (23 bp):
AATAAAAATTTATTTTTTAAATG
Found at i:16469805 original size:28 final size:26
Alignment explanation
Indices: 16469762--16469826 Score: 69
Period size: 28 Copynumber: 2.4 Consensus size: 26
16469752 ATGTTAACAT
* *
16469762 AAATATATAAATGTTATAGTA-AAAA
1 AAATATATAAAGGTTATAATAGAAAA
16469787 CAAATATTATCAAAGGTTATAATAGAAAA
1 -AAATA-TAT-AAAGGTTATAATAGAAAA
16469816 AAATAATATAA
1 AAAT-ATATAA
16469827 TAAATCATTT
Statistics
Matches: 33, Mismatches: 2, Indels: 7
0.79 0.05 0.17
Matches are distributed among these distances:
26 5 0.15
27 5 0.15
28 18 0.55
29 5 0.15
ACGTcount: A:0.60, C:0.03, G:0.08, T:0.29
Consensus pattern (26 bp):
AAATATATAAAGGTTATAATAGAAAA
Found at i:16475746 original size:28 final size:28
Alignment explanation
Indices: 16475714--16475767 Score: 99
Period size: 28 Copynumber: 1.9 Consensus size: 28
16475704 CTTAGCTTAA
*
16475714 GAAGACTTGACTTTGCCTGAAGTTTTAG
1 GAAGACTTGACTTTGCCTAAAGTTTTAG
16475742 GAAGACTTGACTTTGCCTAAAGTTTT
1 GAAGACTTGACTTTGCCTAAAGTTTT
16475768 CTGTCAACTG
Statistics
Matches: 25, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
28 25 1.00
ACGTcount: A:0.26, C:0.15, G:0.22, T:0.37
Consensus pattern (28 bp):
GAAGACTTGACTTTGCCTAAAGTTTTAG
Found at i:16476080 original size:18 final size:18
Alignment explanation
Indices: 16476059--16476096 Score: 58
Period size: 18 Copynumber: 2.1 Consensus size: 18
16476049 TATTTATTTA
* *
16476059 TTATAAATTATTCATATT
1 TTATAAAATATTAATATT
16476077 TTATAAAATATTAATATT
1 TTATAAAATATTAATATT
16476095 TT
1 TT
16476097 TTTATTTATA
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
18 18 1.00
ACGTcount: A:0.42, C:0.03, G:0.00, T:0.55
Consensus pattern (18 bp):
TTATAAAATATTAATATT
Found at i:16476139 original size:13 final size:13
Alignment explanation
Indices: 16476100--16476149 Score: 52
Period size: 12 Copynumber: 4.0 Consensus size: 13
16476090 ATATTTTTTT
*
16476100 ATTTATAT-TATA
1 ATTTATATCAATA
*
16476112 TTTTATATCAA-A
1 ATTTATATCAATA
16476124 ATTATATAT-AATA
1 ATT-TATATCAATA
16476137 ATTTATATCAATA
1 ATTTATATCAATA
16476150 TAAAAAATAA
Statistics
Matches: 31, Mismatches: 3, Indels: 7
0.76 0.07 0.17
Matches are distributed among these distances:
12 17 0.55
13 14 0.45
ACGTcount: A:0.46, C:0.04, G:0.00, T:0.50
Consensus pattern (13 bp):
ATTTATATCAATA
Found at i:16476200 original size:12 final size:12
Alignment explanation
Indices: 16476185--16476212 Score: 56
Period size: 12 Copynumber: 2.3 Consensus size: 12
16476175 AAATTTTAAA
16476185 ATATATTTTTTT
1 ATATATTTTTTT
16476197 ATATATTTTTTT
1 ATATATTTTTTT
16476209 ATAT
1 ATAT
16476213 TTTAATTTAT
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 16 1.00
ACGTcount: A:0.29, C:0.00, G:0.00, T:0.71
Consensus pattern (12 bp):
ATATATTTTTTT
Found at i:16476921 original size:17 final size:17
Alignment explanation
Indices: 16476883--16476923 Score: 55
Period size: 17 Copynumber: 2.4 Consensus size: 17
16476873 ATTTTTATTT
* * *
16476883 TATAAAAATTTAAAATA
1 TATATAAATTAAAAAAA
16476900 TATATAAATTAAAAAAA
1 TATATAAATTAAAAAAA
16476917 TATATAA
1 TATATAA
16476924 TTTGCTTTTT
Statistics
Matches: 21, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
17 21 1.00
ACGTcount: A:0.66, C:0.00, G:0.00, T:0.34
Consensus pattern (17 bp):
TATATAAATTAAAAAAA
Found at i:16477199 original size:31 final size:31
Alignment explanation
Indices: 16477157--16477217 Score: 97
Period size: 31 Copynumber: 2.0 Consensus size: 31
16477147 TTTATTTTGA
*
16477157 TTTTTTATTATATAATAAA-TAATAAATAAT
1 TTTTTTATTATATAATAAACTAACAAATAAT
16477187 TTTTATTATTATATAATAAACTAACAAATAA
1 TTTT-TTATTATATAATAAACTAACAAATAA
16477218 ATAAATTTAT
Statistics
Matches: 28, Mismatches: 1, Indels: 2
0.90 0.03 0.06
Matches are distributed among these distances:
30 4 0.14
31 15 0.54
32 9 0.32
ACGTcount: A:0.51, C:0.03, G:0.00, T:0.46
Consensus pattern (31 bp):
TTTTTTATTATATAATAAACTAACAAATAAT
Found at i:16479266 original size:29 final size:29
Alignment explanation
Indices: 16479208--16479268 Score: 70
Period size: 29 Copynumber: 2.1 Consensus size: 29
16479198 TTTGTATTGA
**
16479208 TATAAAAATATAAAATATATTTTTTATTT
1 TATAAAAATATAAAATATATTAATTATTT
* *
16479237 TATAAAAATTTTAAATCATATTAATT-TTT
1 TATAAAAATATAAAAT-ATATTAATTATTT
16479266 TAT
1 TAT
16479269 TTTTTATTTA
Statistics
Matches: 27, Mismatches: 4, Indels: 2
0.82 0.12 0.06
Matches are distributed among these distances:
29 20 0.74
30 7 0.26
ACGTcount: A:0.46, C:0.02, G:0.00, T:0.52
Consensus pattern (29 bp):
TATAAAAATATAAAATATATTAATTATTT
Found at i:16480656 original size:37 final size:37
Alignment explanation
Indices: 16480595--16480666 Score: 101
Period size: 37 Copynumber: 1.9 Consensus size: 37
16480585 TTCACTGAGA
*
16480595 TTTCTTTTCAATTCTGCCGGTCAGGCAATGGCATTGG
1 TTTCTTTTCAATTCTGCCGATCAGGCAATGGCATTGG
* *
16480632 TTTCTTTTCAATTCTGATC-ATCAGGCAATTGCATT
1 TTTCTTTTCAATTCTG-CCGATCAGGCAATGGCATT
16480667 TCCAGTCTAG
Statistics
Matches: 31, Mismatches: 3, Indels: 2
0.86 0.08 0.06
Matches are distributed among these distances:
37 30 0.97
38 1 0.03
ACGTcount: A:0.19, C:0.21, G:0.18, T:0.42
Consensus pattern (37 bp):
TTTCTTTTCAATTCTGCCGATCAGGCAATGGCATTGG
Found at i:16484122 original size:62 final size:62
Alignment explanation
Indices: 16484055--16484181 Score: 218
Period size: 62 Copynumber: 2.0 Consensus size: 62
16484045 GGACATCCTA
* * * *
16484055 GTTTTTTGTATCTAAAAACTCTTTTTCTTTTCTTTTTAAGAATAGAAATGTCCATTCCTTTT
1 GTTTTTTATATCTAAAAACTCTTTTTCTTCTCTTTTTAAAAATAGAAATGTCCATTCATTTT
16484117 GTTTTTTATATCTAAAAACTCTTTTTCTTCTCTTTTTAAAAATAGAAATGTCCATTCATTTT
1 GTTTTTTATATCTAAAAACTCTTTTTCTTCTCTTTTTAAAAATAGAAATGTCCATTCATTTT
16484179 GTT
1 GTT
16484182 ATGAAACTTG
Statistics
Matches: 61, Mismatches: 4, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
62 61 1.00
ACGTcount: A:0.26, C:0.14, G:0.07, T:0.53
Consensus pattern (62 bp):
GTTTTTTATATCTAAAAACTCTTTTTCTTCTCTTTTTAAAAATAGAAATGTCCATTCATTTT
Found at i:16486653 original size:21 final size:21
Alignment explanation
Indices: 16486629--16486680 Score: 86
Period size: 21 Copynumber: 2.5 Consensus size: 21
16486619 TAAACTTATC
16486629 TAGTTGAAAAGACTTTTAAAA
1 TAGTTGAAAAGACTTTTAAAA
16486650 TAGTTGAAAAGACTTTTAAAA
1 TAGTTGAAAAGACTTTTAAAA
* *
16486671 GAATTGAAAA
1 TAGTTGAAAA
16486681 TGACAACTAA
Statistics
Matches: 29, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
21 29 1.00
ACGTcount: A:0.50, C:0.04, G:0.15, T:0.31
Consensus pattern (21 bp):
TAGTTGAAAAGACTTTTAAAA
Found at i:16488103 original size:21 final size:22
Alignment explanation
Indices: 16488071--16488111 Score: 59
Period size: 21 Copynumber: 1.9 Consensus size: 22
16488061 TCCTAACTTT
16488071 CAAACATCCCTTCAA-CAATCAA
1 CAAACATCCCTT-AAGCAATCAA
16488093 CAAACAT-CCTTAAGCAATC
1 CAAACATCCCTTAAGCAATC
16488112 TAGCATCAAT
Statistics
Matches: 18, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
20 2 0.11
21 9 0.50
22 7 0.39
ACGTcount: A:0.44, C:0.34, G:0.02, T:0.20
Consensus pattern (22 bp):
CAAACATCCCTTAAGCAATCAA
Found at i:16494367 original size:17 final size:15
Alignment explanation
Indices: 16494335--16494381 Score: 58
Period size: 16 Copynumber: 2.9 Consensus size: 15
16494325 ATAAAAAAAA
*
16494335 AATTCAAATCATTTTG
1 AATT-AAATTATTTTG
16494351 AATTTAAATTAATTTTG
1 AA-TTAAATT-ATTTTG
16494368 AATTAAATTATTTT
1 AATTAAATTATTTT
16494382 TTATTTTGTT
Statistics
Matches: 28, Mismatches: 1, Indels: 5
0.82 0.03 0.15
Matches are distributed among these distances:
15 5 0.18
16 13 0.46
17 10 0.36
ACGTcount: A:0.40, C:0.04, G:0.04, T:0.51
Consensus pattern (15 bp):
AATTAAATTATTTTG
Found at i:16494383 original size:17 final size:17
Alignment explanation
Indices: 16494345--16494381 Score: 60
Period size: 17 Copynumber: 2.3 Consensus size: 17
16494335 AATTCAAATC
16494345 ATTTTGAATTTAAATTA
1 ATTTTGAATTTAAATTA
16494362 ATTTTGAA-TTAAATT-
1 ATTTTGAATTTAAATTA
16494377 ATTTT
1 ATTTT
16494382 TTATTTTGTT
Statistics
Matches: 20, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
15 5 0.25
16 7 0.35
17 8 0.40
ACGTcount: A:0.38, C:0.00, G:0.05, T:0.57
Consensus pattern (17 bp):
ATTTTGAATTTAAATTA
Found at i:16509115 original size:21 final size:21
Alignment explanation
Indices: 16509071--16509117 Score: 58
Period size: 21 Copynumber: 2.2 Consensus size: 21
16509061 CAACAACAAT
* * *
16509071 GACTTGATGAGCAAAAGTAGC
1 GACTTAATGAGCAAAAGCAAC
*
16509092 GACTTAATGAGCAATAGCAAC
1 GACTTAATGAGCAAAAGCAAC
16509113 GACTT
1 GACTT
16509118 GCTACATTGG
Statistics
Matches: 22, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
21 22 1.00
ACGTcount: A:0.38, C:0.17, G:0.23, T:0.21
Consensus pattern (21 bp):
GACTTAATGAGCAAAAGCAAC
Found at i:16517108 original size:360 final size:360
Alignment explanation
Indices: 16516447--16517173 Score: 1454
Period size: 360 Copynumber: 2.0 Consensus size: 360
16516437 AAGACACCTC
16516447 ATTATTTCTATACCGCAGACCTCATTTTAACACCCAGTTAGGAAATACATCAGAAATTCTACATT
1 ATTATTTCTATACCGCAGACCTCATTTTAACACCCAGTTAGGAAATACATCAGAAATTCTACATT
16516512 TGTAGTAGCCCCTGCACCTACCAAATGTGTCTGAATTATATGAATGGCTCAGCTATGTGCTCACA
66 TGTAGTAGCCCCTGCACCTACCAAATGTGTCTGAATTATATGAATGGCTCAGCTATGTGCTCACA
16516577 TATTGTATGTATTGCAAGAACTAGCATGAAGAAAACTTGAAAACACCAAACGATCAAAACCTTCT
131 TATTGTATGTATTGCAAGAACTAGCATGAAGAAAACTTGAAAACACCAAACGATCAAAACCTTCT
16516642 ATAGTCTTTTACCACATATCTTGCACTTTCTTCATCAGTTCAAAAGTTACAATAAAAGTAGATGT
196 ATAGTCTTTTACCACATATCTTGCACTTTCTTCATCAGTTCAAAAGTTACAATAAAAGTAGATGT
16516707 AAAATACATTGCTCAAATCATTTCATTCAAATGACACATGGTCAAATATTAACTTAAACTTTCAA
261 AAAATACATTGCTCAAATCATTTCATTCAAATGACACATGGTCAAATATTAACTTAAACTTTCAA
16516772 ACAATTGTTTTATATCTTCTTGAAAAGGAATAAAT
326 ACAATTGTTTTATATCTTCTTGAAAAGGAATAAAT
16516807 ATTATTTCTATACCGCAGACCTCATTTTAACACCCAGTTAGGAAATACATCAGAAATTCTACATT
1 ATTATTTCTATACCGCAGACCTCATTTTAACACCCAGTTAGGAAATACATCAGAAATTCTACATT
16516872 TGTAGTAGCCCCTGCACCTACCAAATGTGTCTGAATTATATGAATGGCTCAGCTATGTGCTCACA
66 TGTAGTAGCCCCTGCACCTACCAAATGTGTCTGAATTATATGAATGGCTCAGCTATGTGCTCACA
16516937 TATTGTATGTATTGCAAGAACTAGCATGAAGAAAACTTGAAAACACCAAACGATCAAAACCTTCT
131 TATTGTATGTATTGCAAGAACTAGCATGAAGAAAACTTGAAAACACCAAACGATCAAAACCTTCT
16517002 ATAGTCTTTTACCACATATCTTGCACTTTCTTCATCAGTTCAAAAGTTACAATAAAAGTAGATGT
196 ATAGTCTTTTACCACATATCTTGCACTTTCTTCATCAGTTCAAAAGTTACAATAAAAGTAGATGT
16517067 AAAATACATTGCTCAAATCATTTCATTCAAATGACACATGGTCAAATATTAACTTAAACTTTCAA
261 AAAATACATTGCTCAAATCATTTCATTCAAATGACACATGGTCAAATATTAACTTAAACTTTCAA
16517132 ACAATTGTTTTATATCTTCTTGAAAAGGAATAAAT
326 ACAATTGTTTTATATCTTCTTGAAAAGGAATAAAT
16517167 ATTATTT
1 ATTATTT
16517174 GCCTAAGGCA
Statistics
Matches: 367, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
360 367 1.00
ACGTcount: A:0.37, C:0.19, G:0.12, T:0.32
Consensus pattern (360 bp):
ATTATTTCTATACCGCAGACCTCATTTTAACACCCAGTTAGGAAATACATCAGAAATTCTACATT
TGTAGTAGCCCCTGCACCTACCAAATGTGTCTGAATTATATGAATGGCTCAGCTATGTGCTCACA
TATTGTATGTATTGCAAGAACTAGCATGAAGAAAACTTGAAAACACCAAACGATCAAAACCTTCT
ATAGTCTTTTACCACATATCTTGCACTTTCTTCATCAGTTCAAAAGTTACAATAAAAGTAGATGT
AAAATACATTGCTCAAATCATTTCATTCAAATGACACATGGTCAAATATTAACTTAAACTTTCAA
ACAATTGTTTTATATCTTCTTGAAAAGGAATAAAT
Found at i:16522546 original size:194 final size:193
Alignment explanation
Indices: 16522161--16522547 Score: 546
Period size: 194 Copynumber: 2.0 Consensus size: 193
16522151 TTTTTTATTT
16522161 TTAAAAAAAATTATTCTCGAGAAAAATAAATTAAAACCTTTTTATTGAAATAATTCTTAAAATGT
1 TTAAAAAAAATTATTCTCGAGAAAAATAAATTAAAACCTTTTTATTGAAATAATTCTTAAAATGT
* * *
16522226 TCCAGTACGTTGGTAACATTAAAAGAACTCTTTCTCACCTAGAGATTTCTTAAAGCATCTCTACT
66 TCCAGTACGTTGATAACATTAAAAGAACTCTTTCTCACCTAAAGATTTCTTAAAGCATCGCTACT
* * * * * *
16522291 CGAAATACTTTTAGAATCTCATCTTTGGAGGCTTGAATTTATTTTTCATAAGGAAATGTCATG
131 CGAAATACTCTTAGAATCTCATCCTCGGAGGCTTCAATTTACTTTTCATAAGAAAATGTCATG
* **
16522354 TTAAAAAAAATTTATTCTCGAGAGAAATAAATTAAAATTTTTTTATTGAAATAATTCTTAAAATG
1 TTAAAAAAAA-TTATTCTCGAGAAAAATAAATTAAAACCTTTTTATTGAAATAATTCTTAAAATG
* * * *
16522419 TTCCAGTACGTTGATAACATTAGAAGAACTTTTTCTCACCTAAAGATTTCTT-AGGCATCGCTTC
65 TTCCAGTACGTTGATAACATTAAAAGAACTCTTTCTCACCTAAAGATTTCTTAAAGCATCGCTAC
* * *
16522483 TCGGAATAC-CTTATAATCTCATCCTCGGAGG-TCTCAATTTACTTTTCGTAAGAAATTATGTCA
130 TCGAAATACTCTTAGAATCTCATCCTCGGAGGCT-TCAATTTACTTTTCATAAGAAA--ATGTCA
16522546 TG
192 TG
16522548 CATGCCATGC
Statistics
Matches: 171, Mismatches: 19, Indels: 7
0.87 0.10 0.04
Matches are distributed among these distances:
191 1 0.01
192 36 0.21
193 27 0.16
194 107 0.63
ACGTcount: A:0.36, C:0.15, G:0.12, T:0.37
Consensus pattern (193 bp):
TTAAAAAAAATTATTCTCGAGAAAAATAAATTAAAACCTTTTTATTGAAATAATTCTTAAAATGT
TCCAGTACGTTGATAACATTAAAAGAACTCTTTCTCACCTAAAGATTTCTTAAAGCATCGCTACT
CGAAATACTCTTAGAATCTCATCCTCGGAGGCTTCAATTTACTTTTCATAAGAAAATGTCATG
Found at i:16522620 original size:12 final size:12
Alignment explanation
Indices: 16522603--16522632 Score: 60
Period size: 12 Copynumber: 2.5 Consensus size: 12
16522593 CATTCAAAAA
16522603 ATTTTATTAATT
1 ATTTTATTAATT
16522615 ATTTTATTAATT
1 ATTTTATTAATT
16522627 ATTTTA
1 ATTTTA
16522633 ATTTTAATTA
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 18 1.00
ACGTcount: A:0.33, C:0.00, G:0.00, T:0.67
Consensus pattern (12 bp):
ATTTTATTAATT
Found at i:16523146 original size:18 final size:18
Alignment explanation
Indices: 16523123--16523159 Score: 56
Period size: 18 Copynumber: 2.1 Consensus size: 18
16523113 CATCATTTAA
*
16523123 TTTAACAAATATAAATAT
1 TTTAACAAACATAAATAT
*
16523141 TTTAACATACATAAATAT
1 TTTAACAAACATAAATAT
16523159 T
1 T
16523160 AATAAAATAA
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
18 17 1.00
ACGTcount: A:0.51, C:0.08, G:0.00, T:0.41
Consensus pattern (18 bp):
TTTAACAAACATAAATAT
Found at i:16524046 original size:21 final size:23
Alignment explanation
Indices: 16524002--16524047 Score: 60
Period size: 23 Copynumber: 2.1 Consensus size: 23
16523992 ATAGAGCTTG
*
16524002 TTGGGATTCAAATCTCAGATTTT
1 TTGGGATTCAAATCTCACATTTT
*
16524025 TTGGGATTCGAATC-C-CATTTT
1 TTGGGATTCAAATCTCACATTTT
16524046 TT
1 TT
16524048 AACAAAAAAA
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
21 7 0.33
22 1 0.05
23 13 0.62
ACGTcount: A:0.22, C:0.15, G:0.17, T:0.46
Consensus pattern (23 bp):
TTGGGATTCAAATCTCACATTTT
Found at i:16524347 original size:68 final size:68
Alignment explanation
Indices: 16524268--16524396 Score: 213
Period size: 68 Copynumber: 1.9 Consensus size: 68
16524258 ACAAATATTA
* * * * *
16524268 TTTAAAATTATTTATTAAATTTAATAAATGAATATAAATGAACAGAAATTAAATATGTTTATTAA
1 TTTAAAATTATTTATTAAACTTAATAAATGAACATAAATAAACAAAAATTAAACATGTTTATTAA
16524333 CGG
66 CGG
16524336 TTTAAAATTATTTATTAAACTTAATAAATGAACATAAATAAACAAAAATTAAACATGTTTA
1 TTTAAAATTATTTATTAAACTTAATAAATGAACATAAATAAACAAAAATTAAACATGTTTA
16524397 CCGAAACCTC
Statistics
Matches: 56, Mismatches: 5, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
68 56 1.00
ACGTcount: A:0.51, C:0.05, G:0.06, T:0.38
Consensus pattern (68 bp):
TTTAAAATTATTTATTAAACTTAATAAATGAACATAAATAAACAAAAATTAAACATGTTTATTAA
CGG
Found at i:16527831 original size:68 final size:68
Alignment explanation
Indices: 16527751--16527881 Score: 244
Period size: 68 Copynumber: 1.9 Consensus size: 68
16527741 TACAAATGTT
* *
16527751 GTTTAAAATTATTTATTAAACTTAATAAATGAACATAAATGAATAGAAATTAAACATGTTTACTA
1 GTTTAAAATTATTTATTAAACTTAATAAATGAACATAAATGAACAAAAATTAAACATGTTTACTA
16527816 ACG
66 ACG
16527819 GTTTAAAATTATTTATTAAACTTAATAAATGAACATAAATGAACAAAAATTAAACATGTTTAC
1 GTTTAAAATTATTTATTAAACTTAATAAATGAACATAAATGAACAAAAATTAAACATGTTTAC
16527882 CGAAAGCTCT
Statistics
Matches: 61, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
68 61 1.00
ACGTcount: A:0.50, C:0.08, G:0.08, T:0.35
Consensus pattern (68 bp):
GTTTAAAATTATTTATTAAACTTAATAAATGAACATAAATGAACAAAAATTAAACATGTTTACTA
ACG
Found at i:16530478 original size:18 final size:18
Alignment explanation
Indices: 16530455--16530510 Score: 55
Period size: 18 Copynumber: 3.3 Consensus size: 18
16530445 TAAAATTTTC
16530455 ATTTTTAGTATGACTTTA
1 ATTTTTAGTATGACTTTA
* * *
16530473 ATTTTTA--A-AATTTTT
1 ATTTTTAGTATGACTTTA
*
16530488 ATTTCTAGTATGACTTTA
1 ATTTTTAGTATGACTTTA
16530506 ATTTT
1 ATTTT
16530511 ATGTTTAGTA
Statistics
Matches: 27, Mismatches: 8, Indels: 6
0.66 0.20 0.15
Matches are distributed among these distances:
15 10 0.37
16 1 0.04
17 1 0.04
18 15 0.56
ACGTcount: A:0.29, C:0.05, G:0.07, T:0.59
Consensus pattern (18 bp):
ATTTTTAGTATGACTTTA
Found at i:16530484 original size:33 final size:33
Alignment explanation
Indices: 16530442--16530510 Score: 120
Period size: 33 Copynumber: 2.1 Consensus size: 33
16530432 TGAGTACCAC
*
16530442 TTTTAAAATTTTCATTTTTAGTATGACTTTAAT
1 TTTTAAAATTTTCATTTCTAGTATGACTTTAAT
*
16530475 TTTTAAAATTTTTATTTCTAGTATGACTTTAAT
1 TTTTAAAATTTTCATTTCTAGTATGACTTTAAT
16530508 TTT
1 TTT
16530511 ATGTTTAGTA
Statistics
Matches: 34, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
33 34 1.00
ACGTcount: A:0.29, C:0.06, G:0.06, T:0.59
Consensus pattern (33 bp):
TTTTAAAATTTTCATTTCTAGTATGACTTTAAT
Found at i:16531690 original size:1 final size:1
Alignment explanation
Indices: 16531686--16531715 Score: 60
Period size: 1 Copynumber: 30.0 Consensus size: 1
16531676 TTTAGTGACG
16531686 TTTTTTTTTTTTTTTTTTTTTTTTTTTTTT
1 TTTTTTTTTTTTTTTTTTTTTTTTTTTTTT
16531716 ACGTTTAGCG
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
1 29 1.00
ACGTcount: A:0.00, C:0.00, G:0.00, T:1.00
Consensus pattern (1 bp):
T
Found at i:16541241 original size:80 final size:79
Alignment explanation
Indices: 16540997--16541246 Score: 329
Period size: 80 Copynumber: 3.1 Consensus size: 79
16540987 ATGTAGTATA
* * *
16540997 GTTTGCTGAATCTTATTGTCTGATATTGTTTTGTTGAATAGTATTATATGATATTGGGGGGTTGA
1 GTTTGCTGAACCTTATTGTCTGATATTGTTTTGTTGAATGGTATTGTATGATATT-GGGGGTTGA
*
16541062 CTCATATGCTGAATG
65 ATCATATGCTGAATG
* * * * **
16541077 GTTTACTAAACCCTATTGTCTGATATTATTTTGTCAAATGGTATTGTATGATATTGAGGGGTTGA
1 GTTTGCTGAACCTTATTGTCTGATATTGTTTTGTTGAATGGTATTGTATGATATTG-GGGGTTGA
16541142 ATCATATGCTGAATG
65 ATCATATGCTGAATG
* * *
16541157 GTTTGTTGAACCTTGTTGTCTGATATTGTTTTGTTGAATGGTTTTGTATGATATTGGGAGGTTGA
1 GTTTGCTGAACCTTATTGTCTGATATTGTTTTGTTGAATGGTATTGTATGATATTGGG-GGTTGA
* *
16541222 ATCGTATGCTAAATG
65 ATCATATGCTGAATG
*
16541237 GTTTGTTGAA
1 GTTTGCTGAA
16541247 TGGTGTTTCT
Statistics
Matches: 147, Mismatches: 21, Indels: 4
0.85 0.12 0.02
Matches are distributed among these distances:
79 3 0.02
80 144 0.98
ACGTcount: A:0.23, C:0.08, G:0.25, T:0.44
Consensus pattern (79 bp):
GTTTGCTGAACCTTATTGTCTGATATTGTTTTGTTGAATGGTATTGTATGATATTGGGGGTTGAA
TCATATGCTGAATG
Found at i:16544760 original size:45 final size:45
Alignment explanation
Indices: 16544710--16544800 Score: 182
Period size: 45 Copynumber: 2.0 Consensus size: 45
16544700 CATTTCTACT
16544710 TTTTTGTATGGATTATTGAAGGTGTTTTAAAAAAACTACCTTCAA
1 TTTTTGTATGGATTATTGAAGGTGTTTTAAAAAAACTACCTTCAA
16544755 TTTTTGTATGGATTATTGAAGGTGTTTTAAAAAAACTACCTTCAA
1 TTTTTGTATGGATTATTGAAGGTGTTTTAAAAAAACTACCTTCAA
16544800 T
1 T
16544801 AATATCAACT
Statistics
Matches: 46, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
45 46 1.00
ACGTcount: A:0.33, C:0.09, G:0.15, T:0.43
Consensus pattern (45 bp):
TTTTTGTATGGATTATTGAAGGTGTTTTAAAAAAACTACCTTCAA
Found at i:16545796 original size:16 final size:16
Alignment explanation
Indices: 16545775--16545807 Score: 57
Period size: 16 Copynumber: 2.1 Consensus size: 16
16545765 AATAATTTTG
16545775 TTAATAAAAATTAAAA
1 TTAATAAAAATTAAAA
*
16545791 TTAATAAAAATTTAAA
1 TTAATAAAAATTAAAA
16545807 T
1 T
16545808 AAAATTTATT
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
16 16 1.00
ACGTcount: A:0.64, C:0.00, G:0.00, T:0.36
Consensus pattern (16 bp):
TTAATAAAAATTAAAA
Found at i:16545853 original size:36 final size:32
Alignment explanation
Indices: 16545817--16545879 Score: 99
Period size: 32 Copynumber: 2.0 Consensus size: 32
16545807 TAAAATTTAT
* *
16545817 TTATTTTTTAATTTATTATATAATAATAAACA
1 TTATTTGTTAATTTATTATATAATAATAAATA
*
16545849 TTATTTGTTAATTTATTATATAATAAAAAAT
1 TTATTTGTTAATTTATTATATAATAATAAAT
16545880 CAAAATGAAA
Statistics
Matches: 28, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
32 28 1.00
ACGTcount: A:0.44, C:0.02, G:0.02, T:0.52
Consensus pattern (32 bp):
TTATTTGTTAATTTATTATATAATAATAAATA
Found at i:16553403 original size:53 final size:52
Alignment explanation
Indices: 16553315--16553431 Score: 148
Period size: 53 Copynumber: 2.2 Consensus size: 52
16553305 ATTTTCACAT
* * *
16553315 TTCACAAAGGTTCTAGATTTGCAAATGTTTTAAGTTT-TGCAAAAGTTTCAAA
1 TTCACAAAGGTTCTAGATTTGCAAATATTTCAAGTTTCT-CAAAAGTTCCAAA
* *
16553367 TTCACAAAAGGTTCTAGATTTGCACAA-ATTTCAAGTTTCTCAGAAGTTCCAGA
1 TTCAC-AAAGGTTCTAGATTTGCA-AATATTTCAAGTTTCTCAAAAGTTCCAAA
16553420 TTCACAAAGGTT
1 TTCACAAAGGTT
16553432 TCAAATTTGC
Statistics
Matches: 57, Mismatches: 5, Indels: 6
0.84 0.07 0.09
Matches are distributed among these distances:
52 12 0.21
53 42 0.74
54 3 0.05
ACGTcount: A:0.34, C:0.15, G:0.15, T:0.35
Consensus pattern (52 bp):
TTCACAAAGGTTCTAGATTTGCAAATATTTCAAGTTTCTCAAAAGTTCCAAA
Found at i:16553637 original size:16 final size:16
Alignment explanation
Indices: 16553616--16553646 Score: 62
Period size: 16 Copynumber: 1.9 Consensus size: 16
16553606 GATTTAAATT
16553616 TCAAATTCACAAGAAC
1 TCAAATTCACAAGAAC
16553632 TCAAATTCACAAGAA
1 TCAAATTCACAAGAA
16553647 TTTTAGTTTT
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 15 1.00
ACGTcount: A:0.52, C:0.23, G:0.06, T:0.19
Consensus pattern (16 bp):
TCAAATTCACAAGAAC
Found at i:16553652 original size:81 final size:81
Alignment explanation
Indices: 16553560--16553793 Score: 263
Period size: 82 Copynumber: 2.9 Consensus size: 81
16553550 TTCAAATATT
* * *
16553560 CAAGAATTTTAGTTTTGCAAGAATTTCATGTTCACAAAAAATCAAAGATTTAAATTTCAAATTCA
1 CAAGAATTTTAGTTTTGCAAGAATTTCAAGTTCACAAAAAATCAAATATTTAAATTTCAAATTCG
*
16553625 CAAGAACTCAAATTCA
66 CAAGAACCCAAATTCA
* * * * * *
16553641 CAAGAATTTTAGTTTTGTAAGAATTTTAAATTCACAATAAATAAAAATATTTGAATTTCAAATTC
1 CAAGAATTTTAGTTTTGCAAGAATTTCAAGTTCACAAAAAAT-CAAATATTTAAATTTCAAATTC
* * **
16553706 GTAAGAACCCAAGTTTG
65 GCAAGAACCCAAATTCA
* * * * * *
16553723 CAAGAATTTCA-TTGTTGCAAGAATTTCAGGTTCACAAGAAATCAAATATTCAAATTTTAGATTC
1 CAAGAATTTTAGTT-TTGCAAGAATTTCAAGTTCACAAAAAATCAAATATTTAAATTTCAAATTC
16553787 GCAAGAA
65 GCAAGAA
16553794 TTTTAGGTTT
Statistics
Matches: 125, Mismatches: 26, Indels: 4
0.81 0.17 0.03
Matches are distributed among these distances:
81 62 0.50
82 63 0.50
ACGTcount: A:0.43, C:0.13, G:0.11, T:0.33
Consensus pattern (81 bp):
CAAGAATTTTAGTTTTGCAAGAATTTCAAGTTCACAAAAAATCAAATATTTAAATTTCAAATTCG
CAAGAACCCAAATTCA
Found at i:16553797 original size:17 final size:17
Alignment explanation
Indices: 16553775--16553819 Score: 63
Period size: 17 Copynumber: 2.6 Consensus size: 17
16553765 CAAATATTCA
16553775 AATTTTAGATTCGCAAG
1 AATTTTAGATTCGCAAG
* *
16553792 AATTTTAGGTTTGCAAG
1 AATTTTAGATTCGCAAG
*
16553809 AACTTTAGATT
1 AATTTTAGATT
16553820 TATAAAAGTT
Statistics
Matches: 24, Mismatches: 4, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
17 24 1.00
ACGTcount: A:0.33, C:0.09, G:0.18, T:0.40
Consensus pattern (17 bp):
AATTTTAGATTCGCAAG
Found at i:16553944 original size:17 final size:17
Alignment explanation
Indices: 16553924--16553991 Score: 73
Period size: 17 Copynumber: 4.0 Consensus size: 17
16553914 TTTAGGTTGT
* *
16553924 CAAGAATTTTAGGTTCG
1 CAAGAACTTAAGGTTCG
* *
16553941 CAAGAACTTAAGGTACA
1 CAAGAACTTAAGGTTCG
* *
16553958 CAAAAACTTAAGGTTCA
1 CAAGAACTTAAGGTTCG
*
16553975 CAAGAATTTAAGGTTCG
1 CAAGAACTTAAGGTTCG
16553992 TAAAAATTTC
Statistics
Matches: 42, Mismatches: 9, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
17 42 1.00
ACGTcount: A:0.40, C:0.15, G:0.19, T:0.26
Consensus pattern (17 bp):
CAAGAACTTAAGGTTCG
Found at i:16553999 original size:17 final size:17
Alignment explanation
Indices: 16553900--16554000 Score: 67
Period size: 17 Copynumber: 5.9 Consensus size: 17
16553890 CAAGAACTTT
* * *
16553900 AGGTTCATAAAAGTTTT
1 AGGTTCACAAAAATTTA
** * *
16553917 AGGTTGTCAAGAATTTT
1 AGGTTCACAAAAATTTA
* * *
16553934 AGGTTCGCAAGAACTTA
1 AGGTTCACAAAAATTTA
* *
16553951 AGGTACACAAAAACTTA
1 AGGTTCACAAAAATTTA
*
16553968 AGGTTCACAAGAATTTA
1 AGGTTCACAAAAATTTA
**
16553985 AGGTTCGTAAAAATTT
1 AGGTTCACAAAAATTT
16554001 CAAAGATTCT
Statistics
Matches: 66, Mismatches: 18, Indels: 0
0.79 0.21 0.00
Matches are distributed among these distances:
17 66 1.00
ACGTcount: A:0.39, C:0.11, G:0.19, T:0.32
Consensus pattern (17 bp):
AGGTTCACAAAAATTTA
Found at i:16554387 original size:43 final size:45
Alignment explanation
Indices: 16554317--16554459 Score: 136
Period size: 43 Copynumber: 3.2 Consensus size: 45
16554307 ATAGCCATAA
* *
16554317 TTCAAAAATTCTCATTTGAAAGTTTT-AAGCTTTTACATCCAAAAG
1 TTCAAAAATTCTCATTTGAAAGTTTTAAAG-ATTCACATCCAAAAG
* *
16554362 TT-AAAAATT-TCCTTTGAAA-TATTTAAAGATTCACATCCAAAAT
1 TTCAAAAATTCTCATTTGAAAGT-TTTAAAGATTCACATCCAAAAG
* * * *
16554405 TTCAAAAATTCACATTCGAAAAATTTTAGAA-ATTCACATCTAAAAG
1 TTCAAAAATTCTCATTTG-AAAGTTTTA-AAGATTCACATCCAAAAG
16554451 TT-AAAAATT
1 TTCAAAAATT
16554460 TTTATTCAAA
Statistics
Matches: 82, Mismatches: 9, Indels: 14
0.78 0.09 0.13
Matches are distributed among these distances:
42 1 0.01
43 26 0.32
44 17 0.21
45 13 0.16
46 22 0.27
47 3 0.04
ACGTcount: A:0.44, C:0.14, G:0.06, T:0.36
Consensus pattern (45 bp):
TTCAAAAATTCTCATTTGAAAGTTTTAAAGATTCACATCCAAAAG
Found at i:16554415 original size:22 final size:21
Alignment explanation
Indices: 16554382--16554533 Score: 79
Period size: 22 Copynumber: 6.8 Consensus size: 21
16554372 CCTTTGAAAT
* *
16554382 ATTTAAAGATTCACATCCAAA
1 ATTTAAAAATTCACATCAAAA
16554403 ATTTCAAAAATTCACATTCGAAAA
1 ATTT-AAAAATTCACA-TC-AAAA
* *
16554427 ATTTTAGAAATTCACATCTAAA
1 A-TTTAAAAATTCACATCAAAA
* ***
16554449 AGTTAAAAATTTTTATTCAAAAA
1 ATTTAAAAATTCACA-TC-AAAA
** * *
16554472 ATTTAAGGATTGACATCCAAAG
1 ATTTAAAAATTCACAT-CAAAA
*
16554494 ATTTCAAAGATTCACATTCAAAA
1 ATTT-AAAAATTCACA-TCAAAA
* * *
16554517 AATTAGAGATTCACATC
1 ATTTAAAAATTCACATC
16554534 CAAAGTTTTA
Statistics
Matches: 100, Mismatches: 22, Indels: 18
0.71 0.16 0.13
Matches are distributed among these distances:
21 15 0.15
22 34 0.34
23 33 0.33
24 15 0.15
25 3 0.03
ACGTcount: A:0.47, C:0.14, G:0.07, T:0.32
Consensus pattern (21 bp):
ATTTAAAAATTCACATCAAAA
Found at i:16554450 original size:89 final size:89
Alignment explanation
Indices: 16554351--16554537 Score: 245
Period size: 89 Copynumber: 2.1 Consensus size: 89
16554341 TTAAGCTTTT
* *
16554351 ACATCCAAAAGTTAAAAATTTCCT-TT-GAAATATTTAAAGATTCACATCCAAA-ATTTCAAAAA
1 ACATCCAAAAGTTAAAAATTT-CTATTCAAAAAATTTAAAGATTCACATCCAAAGATTTCAAAAA
*
16554413 TTCACATTCGAAAAATTTTAGAAATTC
65 TTCACATTC-AAAAA-ATTAGAAATTC
* * * * *
16554440 ACATCTAAAAGTTAAAAATTTTTATTCAAAAAATTTAAGGATTGACATCCAAAGATTTCAAAGAT
1 ACATCCAAAAGTTAAAAATTTCTATTCAAAAAATTTAAAGATTCACATCCAAAGATTTCAAAAAT
*
16554505 TCACATTCAAAAAATTAGAGATTC
66 TCACATTCAAAAAATTAGAAATTC
16554529 ACATCCAAA
1 ACATCCAAA
16554538 GTTTTAAAAG
Statistics
Matches: 85, Mismatches: 10, Indels: 6
0.84 0.10 0.06
Matches are distributed among these distances:
88 1 0.01
89 39 0.46
90 27 0.32
91 18 0.21
ACGTcount: A:0.47, C:0.15, G:0.07, T:0.31
Consensus pattern (89 bp):
ACATCCAAAAGTTAAAAATTTCTATTCAAAAAATTTAAAGATTCACATCCAAAGATTTCAAAAAT
TCACATTCAAAAAATTAGAAATTC
Found at i:16554517 original size:45 final size:46
Alignment explanation
Indices: 16554382--16554546 Score: 178
Period size: 45 Copynumber: 3.7 Consensus size: 46
16554372 CCTTTGAAAT
*
16554382 ATTTAA-AGATTCACATCCAAAATTTCAAAAATTCACATTCGAAAA
1 ATTTAAGAGATTCACATCCAAAATTTCAAAAATTCACATTCAAAAA
* * * * ***
16554427 ATTTTAGAAATTCACATCTAAAAGTT-AAAAATTTTTATTCAAAAA
1 ATTTAAGAGATTCACATCCAAAATTTCAAAAATTCACATTCAAAAA
* *
16554472 ATTTAAG-GATTGACATCCAAAGATTTCAAAGATTCACATTCAAAAA
1 ATTTAAGAGATTCACATCCAAA-ATTTCAAAAATTCACATTCAAAAA
* *
16554518 A-TT-AGAGATTCACATCCAAAGTTTTAAAA
1 ATTTAAGAGATTCACATCCAAAATTTCAAAA
16554547 GTTTTTTCAC
Statistics
Matches: 95, Mismatches: 21, Indels: 9
0.76 0.17 0.07
Matches are distributed among these distances:
44 19 0.20
45 44 0.46
46 32 0.34
ACGTcount: A:0.47, C:0.14, G:0.07, T:0.32
Consensus pattern (46 bp):
ATTTAAGAGATTCACATCCAAAATTTCAAAAATTCACATTCAAAAA
Found at i:16554537 original size:22 final size:21
Alignment explanation
Indices: 16554466--16554537 Score: 63
Period size: 23 Copynumber: 3.2 Consensus size: 21
16554456 AATTTTTATT
*
16554466 CAAAAAATTTAAGGATTGACATC
1 CAAAAAA-TTAA-GATTCACATC
* * *
16554489 CAAAGATTTCAAAGATTCACATT
1 CAAAAAATT--AAGATTCACATC
16554512 CAAAAAATTAGAGATTCACATC
1 CAAAAAATTA-AGATTCACATC
16554534 CAAA
1 CAAA
16554538 GTTTTAAAAG
Statistics
Matches: 39, Mismatches: 7, Indels: 7
0.74 0.13 0.13
Matches are distributed among these distances:
21 1 0.03
22 16 0.41
23 20 0.51
24 2 0.05
ACGTcount: A:0.49, C:0.17, G:0.10, T:0.25
Consensus pattern (21 bp):
CAAAAAATTAAGATTCACATC
Found at i:16559736 original size:33 final size:33
Alignment explanation
Indices: 16559694--16559760 Score: 125
Period size: 33 Copynumber: 2.0 Consensus size: 33
16559684 TTCACGTCTT
16559694 TTATTGATTACATCCACTTTCATGTTATATGGA
1 TTATTGATTACATCCACTTTCATGTTATATGGA
*
16559727 TTATTGATTACATCCACTTTCATGTTATTTGGA
1 TTATTGATTACATCCACTTTCATGTTATATGGA
16559760 T
1 T
16559761 AGGCTACAAT
Statistics
Matches: 33, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
33 33 1.00
ACGTcount: A:0.25, C:0.15, G:0.12, T:0.48
Consensus pattern (33 bp):
TTATTGATTACATCCACTTTCATGTTATATGGA
Found at i:16560518 original size:3 final size:3
Alignment explanation
Indices: 16560510--16560534 Score: 50
Period size: 3 Copynumber: 8.3 Consensus size: 3
16560500 CTTTTTATAG
16560510 ACA ACA ACA ACA ACA ACA ACA ACA A
1 ACA ACA ACA ACA ACA ACA ACA ACA A
16560535 AATTAAGTCT
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 22 1.00
ACGTcount: A:0.68, C:0.32, G:0.00, T:0.00
Consensus pattern (3 bp):
ACA
Found at i:16564638 original size:27 final size:27
Alignment explanation
Indices: 16564597--16564658 Score: 99
Period size: 27 Copynumber: 2.3 Consensus size: 27
16564587 TAGCGTTTTA
*
16564597 AAAAAATCTTCTCACCTA-ATGATTTCT
1 AAAAAATCTTATCACCTAGA-GATTTCT
16564624 AAAAAATCTTATCACCTAGAGATTTCT
1 AAAAAATCTTATCACCTAGAGATTTCT
16564651 AAAAAATC
1 AAAAAATC
16564659 ATTACTCAGA
Statistics
Matches: 33, Mismatches: 1, Indels: 2
0.92 0.03 0.06
Matches are distributed among these distances:
27 32 0.97
28 1 0.03
ACGTcount: A:0.44, C:0.19, G:0.05, T:0.32
Consensus pattern (27 bp):
AAAAAATCTTATCACCTAGAGATTTCT
Found at i:16565022 original size:2 final size:2
Alignment explanation
Indices: 16565017--16565062 Score: 74
Period size: 2 Copynumber: 23.0 Consensus size: 2
16565007 TTATTTATTC
* *
16565017 AT AT AT AT AT AT AT CT AT AT AT AT AT AT AT CT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
16565059 AT AT
1 AT AT
16565063 TTAAGTCACT
Statistics
Matches: 40, Mismatches: 4, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
2 40 1.00
ACGTcount: A:0.46, C:0.04, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:16565038 original size:16 final size:16
Alignment explanation
Indices: 16565017--16565062 Score: 92
Period size: 16 Copynumber: 2.9 Consensus size: 16
16565007 TTATTTATTC
16565017 ATATATATATATATCT
1 ATATATATATATATCT
16565033 ATATATATATATATCT
1 ATATATATATATATCT
16565049 ATATATATATATAT
1 ATATATATATATAT
16565063 TTAAGTCACT
Statistics
Matches: 30, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 30 1.00
ACGTcount: A:0.46, C:0.04, G:0.00, T:0.50
Consensus pattern (16 bp):
ATATATATATATATCT
Found at i:16567085 original size:7 final size:7
Alignment explanation
Indices: 16567048--16567114 Score: 50
Period size: 7 Copynumber: 9.9 Consensus size: 7
16567038 ATGAAAACTA
16567048 AAAAAAG
1 AAAAAAG
*
16567055 GAAAAA-
1 AAAAAAG
*
16567061 AAAAGAG
1 AAAAAAG
*
16567068 AAATAAG
1 AAAAAAG
*
16567075 AAAAGA-
1 AAAAAAG
16567081 AAAAAAG
1 AAAAAAG
*
16567088 CAAAAAG
1 AAAAAAG
*
16567095 CAAAAAG
1 AAAAAAG
16567102 CAAAAAA-
1 -AAAAAAG
16567109 AAAAAA
1 AAAAAA
16567115 AACTGAGGAA
Statistics
Matches: 47, Mismatches: 10, Indels: 7
0.73 0.16 0.11
Matches are distributed among these distances:
6 15 0.32
7 27 0.57
8 5 0.11
ACGTcount: A:0.81, C:0.04, G:0.13, T:0.01
Consensus pattern (7 bp):
AAAAAAG
Found at i:16567108 original size:8 final size:7
Alignment explanation
Indices: 16567082--16567107 Score: 52
Period size: 7 Copynumber: 3.7 Consensus size: 7
16567072 AAGAAAAGAA
16567082 AAAAAGC
1 AAAAAGC
16567089 AAAAAGC
1 AAAAAGC
16567096 AAAAAGC
1 AAAAAGC
16567103 AAAAA
1 AAAAA
16567108 AAAAAAAAAC
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 19 1.00
ACGTcount: A:0.77, C:0.12, G:0.12, T:0.00
Consensus pattern (7 bp):
AAAAAGC
Found at i:16569271 original size:3 final size:3
Alignment explanation
Indices: 16569257--16569308 Score: 86
Period size: 3 Copynumber: 17.3 Consensus size: 3
16569247 AAAAGAAATG
* *
16569257 ATA ATG ATA ATA ATA TTA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA
16569305 ATA A
1 ATA A
16569309 GAAATGGCTT
Statistics
Matches: 45, Mismatches: 4, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
3 45 1.00
ACGTcount: A:0.63, C:0.00, G:0.02, T:0.35
Consensus pattern (3 bp):
ATA
Found at i:16571391 original size:21 final size:20
Alignment explanation
Indices: 16571360--16571398 Score: 60
Period size: 21 Copynumber: 1.9 Consensus size: 20
16571350 TTCCTTTTCC
16571360 TATTTATTCTTTACCATATT
1 TATTTATTCTTTACCATATT
*
16571380 TATTTAATTCTTTTCCATA
1 TATTT-ATTCTTTACCATA
16571399 ATGAATACCT
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
20 5 0.29
21 12 0.71
ACGTcount: A:0.26, C:0.15, G:0.00, T:0.59
Consensus pattern (20 bp):
TATTTATTCTTTACCATATT
Found at i:16572236 original size:22 final size:21
Alignment explanation
Indices: 16572196--16572253 Score: 66
Period size: 22 Copynumber: 2.8 Consensus size: 21
16572186 CCCTTCTACA
*
16572196 AATCTTTGAA--TCTTTTATG
1 AATCTTTGAATTTTTTTTATG
*
16572215 AATTTTTGAAATTTTTTTTATG
1 AATCTTTG-AATTTTTTTTATG
*
16572237 GATCTTTGAATTTTTTT
1 AATCTTTGAATTTTTTT
16572254 CAAAACTTTG
Statistics
Matches: 32, Mismatches: 4, Indels: 4
0.80 0.10 0.10
Matches are distributed among these distances:
19 7 0.22
20 2 0.06
21 9 0.28
22 14 0.44
ACGTcount: A:0.24, C:0.05, G:0.10, T:0.60
Consensus pattern (21 bp):
AATCTTTGAATTTTTTTTATG
Done.