Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: CP032255.1 Gossypioides kirkii chromosome KI_13
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: 42971368
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
Warning! 2600 characters in sequence are not A, C, G, or T
File 106 of 143
Found at i:32461345 original size:21 final size:21
Alignment explanation
Indices: 32461295--32461347 Score: 79
Period size: 21 Copynumber: 2.5 Consensus size: 21
32461285 GTGTTTAGAA
* *
32461295 GTATCGATAGTTTGTATACTT
1 GTATCGGTAGATTGTATACTT
32461316 GTATCGGTAGATTGTATACTT
1 GTATCGGTAGATTGTATACTT
*
32461337 GTATTGGTAGA
1 GTATCGGTAGA
32461348 AGTTGCAGAG
Statistics
Matches: 29, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
21 29 1.00
ACGTcount: A:0.25, C:0.08, G:0.25, T:0.43
Consensus pattern (21 bp):
GTATCGGTAGATTGTATACTT
Found at i:32461427 original size:21 final size:21
Alignment explanation
Indices: 32461403--32461461 Score: 82
Period size: 21 Copynumber: 2.8 Consensus size: 21
32461393 TAGAATCAAG
32461403 ACTTGTATCGGTAGAGGAGTC
1 ACTTGTATCGGTAGAGGAGTC
***
32461424 ACTTGTATCGGTAGAATTGTC
1 ACTTGTATCGGTAGAGGAGTC
*
32461445 ACTTTTATCGGTAGAGG
1 ACTTGTATCGGTAGAGG
32461462 TCTGCACTAT
Statistics
Matches: 32, Mismatches: 6, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
21 32 1.00
ACGTcount: A:0.24, C:0.14, G:0.29, T:0.34
Consensus pattern (21 bp):
ACTTGTATCGGTAGAGGAGTC
Found at i:32462129 original size:174 final size:174
Alignment explanation
Indices: 32461839--32462273 Score: 432
Period size: 174 Copynumber: 2.5 Consensus size: 174
32461829 TTAAAAGATA
* * ** * * * *
32461839 TGAGGTGTACCTTAAGAGCTACAATACCTTAAAAGGTATGTGACTTGAAAAGACCAAAAGCTTTA
1 TGAGGTGTATCTTAAGAGATATGATACCTTAAAAGGTATGTGACCTGAAAAGGCTAAGAGCTTTA
* ** * ** * * *
32461904 GAAAGCTCGACCCTTGAGAAGGGGAGGTGTATCTTAAAAGATACAATACCTTAAGAGGTATGTGA
66 GAAAGCTTGATGCTTGAAAAGGCAAGGTGTATATTAAAAGACACAATACCTTAAGAGGCATGTGA
* *
32461969 CCCA-AAAAACCT-AAGAGCTTTGGAAAGCTCGACGATTGAGAAGG
131 --CATAAAAACCTCAAGAGCTTTGAAAAGCTCGACGATTGAAAAGG
* * *
32462013 TGAGGTGTATCTTAAGAGATATGATACCTTAAGAGGTACGTAACCTGAAAAGGCTAAGAGCTTTA
1 TGAGGTGTATCTTAAGAGATATGATACCTTAAAAGGTATGTGACCTGAAAAGGCTAAGAGCTTTA
* * * *
32462078 GAAAGCTTAATGCTTGAAAAGGCAATGTGTATATTAAAAGACACGATACCTTAATAGGCATGTGA
66 GAAAGCTTGATGCTTGAAAAGGCAAGGTGTATATTAAAAGACACAATACCTTAAGAGGCATGTGA
** *
32462143 CATAAAAAGGTCAAGAGCTTTGAAAAGCTCGACGCTTGAAAAGG
131 CATAAAAACCTCAAGAGCTTTGAAAAGCTCGACGATTGAAAAGG
** * ** * * *
32462187 CAATGTACATATTGAA-AGATATGATACCTTAATAA-GCATGTGACCTAAAAAGG-TCAAGAGCT
1 TGAGGTGTATCTT-AAGAGATATGATACCTTAA-AAGGTATGTGACCTGAAAAGGCT-AAGAGCT
32462249 TT-GAAAAGCTTGATGCTTGAGAAAG
63 TTAG-AAAGCTTGATGCTTGA-AAAG
32462274 TGAGGTATCT
Statistics
Matches: 213, Mismatches: 41, Indels: 13
0.80 0.15 0.05
Matches are distributed among these distances:
172 2 0.01
173 8 0.04
174 196 0.92
175 7 0.03
ACGTcount: A:0.38, C:0.14, G:0.23, T:0.24
Consensus pattern (174 bp):
TGAGGTGTATCTTAAGAGATATGATACCTTAAAAGGTATGTGACCTGAAAAGGCTAAGAGCTTTA
GAAAGCTTGATGCTTGAAAAGGCAAGGTGTATATTAAAAGACACAATACCTTAAGAGGCATGTGA
CATAAAAACCTCAAGAGCTTTGAAAAGCTCGACGATTGAAAAGG
Found at i:32462188 original size:87 final size:87
Alignment explanation
Indices: 32461862--32462273 Score: 339
Period size: 87 Copynumber: 4.7 Consensus size: 87
32461852 AAGAGCTACA
* * * ** * * *
32461862 ATACCTTAAAAGGTATGTGACTTGAAAAGACCAAAAGCTTT-AGAAAGCTCGACCCTTGAGAAGG
1 ATACCTTAAGAGGTATGTGACATAAAAAGGTCAAGAGCTTTGA-AAAGCTCGACGCTTGAAAAGG
** * *
32461926 GGAGGTGTATCTTAAAAGATACA
65 CAAGGTGTATATTAAAAGATACG
** * * *
32461949 ATACCTTAAGAGGTATGTGACCCA-AAAAACCT-AAGAGCTTTGGAAAGCTCGACGATTGAGAAG
1 ATACCTTAAGAGGTATGTGA--CATAAAAAGGTCAAGAGCTTTGAAAAGCTCGACGCTTGAAAAG
** * * *
32462012 GTGAGGTGTATCTTAAGAGATATG
64 GCAAGGTGTATATTAAAAGATACG
* * * * ** *
32462036 ATACCTTAAGAGGTACGTAACCTGAAAAGG-CTAAGAGCTTT-AGAAAGCTTAATGCTTGAAAAG
1 ATACCTTAAGAGGTATGTGACATAAAAAGGTC-AAGAGCTTTGA-AAAGCTCGACGCTTGAAAAG
* *
32462099 GCAATGTGTATATTAAAAGACACG
64 GCAAGGTGTATATTAAAAGATACG
* *
32462123 ATACCTTAATAGGCATGTGACATAAAAAGGTCAAGAGCTTTGAAAAGCTCGACGCTTGAAAAGGC
1 ATACCTTAAGAGGTATGTGACATAAAAAGGTCAAGAGCTTTGAAAAGCTCGACGCTTGAAAAGGC
* ** * *
32462188 AATGTACATATTGAAAGATATG
66 AAGGTGTATATTAAAAGATACG
* * * * * *
32462210 ATACCTTAATAAGCATGTGACCTAAAAAGGTCAAGAGCTTTGAAAAGCTTGATGCTTGAGAAAG
1 ATACCTTAAGAGGTATGTGACATAAAAAGGTCAAGAGCTTTGAAAAGCTCGACGCTTGA-AAAG
32462274 TGAGGTATCT
Statistics
Matches: 264, Mismatches: 51, Indels: 19
0.79 0.15 0.06
Matches are distributed among these distances:
85 1 0.00
86 4 0.02
87 248 0.94
88 10 0.04
89 1 0.00
ACGTcount: A:0.39, C:0.14, G:0.23, T:0.24
Consensus pattern (87 bp):
ATACCTTAAGAGGTATGTGACATAAAAAGGTCAAGAGCTTTGAAAAGCTCGACGCTTGAAAAGGC
AAGGTGTATATTAAAAGATACG
Found at i:32472736 original size:10 final size:9
Alignment explanation
Indices: 32472650--32472811 Score: 70
Period size: 9 Copynumber: 17.7 Consensus size: 9
32472640 AATATTTTTA
32472650 ATAAAAATT
1 ATAAAAATT
*
32472659 ATTAAAAAATC
1 A-T-AAAAATT
32472670 ATAAAAA-T
1 ATAAAAATT
32472678 ATATAAAA-T
1 ATA-AAAATT
*
32472687 ATTAAAATT
1 ATAAAAATT
**
32472696 A-AAATGTT
1 ATAAAAATT
32472704 -TAAAAA-T
1 ATAAAAATT
*
32472711 ATTAAAATT
1 ATAAAAATT
*
32472720 GAGAAAAACTT
1 -ATAAAAA-TT
32472731 ATAAAAATT
1 ATAAAAATT
* *
32472740 ATAAATTATA
1 ATAAA-AATT
*
32472750 ATAAAACA-A
1 ATAAAA-ATT
*
32472759 ATAAATATT
1 ATAAAAATT
32472768 ATAAAAA-T
1 ATAAAAATT
32472776 ATAATAAATT
1 ATAA-AAATT
*
32472786 CTAATAAATT
1 ATAA-AAATT
32472796 -TATAAAATT
1 ATA-AAAATT
32472805 AATAAAA
1 -ATAAAA
32472812 CAAATTTAAA
Statistics
Matches: 117, Mismatches: 19, Indels: 33
0.69 0.11 0.20
Matches are distributed among these distances:
7 1 0.01
8 25 0.21
9 45 0.38
10 35 0.30
11 11 0.09
ACGTcount: A:0.63, C:0.02, G:0.02, T:0.33
Consensus pattern (9 bp):
ATAAAAATT
Found at i:32472755 original size:28 final size:28
Alignment explanation
Indices: 32472724--32472812 Score: 85
Period size: 28 Copynumber: 3.2 Consensus size: 28
32472714 AAAATTGAGA
*
32472724 AAAACTTATAAAAATTATAAATTATAAT
1 AAAACTTATAAAAATTATAAAATATAAT
** *
32472752 AAAACAAATAAATATTATAAAAATATAAT
1 AAAACTTATAAAAATTAT-AAAATATAAT
*
32472781 -AAA-TTCTAATAAATTTATAAAAT-TAAT
1 AAAACTTATAA-AAA-TTATAAAATATAAT
32472808 AAAAC
1 AAAAC
32472813 AAATTTAAAA
Statistics
Matches: 48, Mismatches: 8, Indels: 9
0.74 0.12 0.14
Matches are distributed among these distances:
27 7 0.15
28 28 0.58
29 13 0.27
ACGTcount: A:0.63, C:0.04, G:0.00, T:0.33
Consensus pattern (28 bp):
AAAACTTATAAAAATTATAAAATATAAT
Found at i:32472979 original size:27 final size:27
Alignment explanation
Indices: 32472940--32473012 Score: 71
Period size: 27 Copynumber: 2.7 Consensus size: 27
32472930 TAAAATTGAT
*
32472940 ATAAACTTA-TAAAAATATA-ATAATATA
1 ATAAA-TTATTAAAAATATATAGAAT-TA
*
32472967 ATAAATTATTAAAAATTCTATAGAATTA
1 ATAAATTATTAAAAA-TATATAGAATTA
32472995 A-AAATATATTAAAAATAT
1 ATAAAT-TATTAAAAATAT
32473013 TTTAATTTTT
Statistics
Matches: 39, Mismatches: 3, Indels: 8
0.78 0.06 0.16
Matches are distributed among these distances:
26 3 0.08
27 17 0.44
28 15 0.38
29 4 0.10
ACGTcount: A:0.60, C:0.03, G:0.01, T:0.36
Consensus pattern (27 bp):
ATAAATTATTAAAAATATATAGAATTA
Found at i:32473043 original size:9 final size:9
Alignment explanation
Indices: 32473025--32473064 Score: 53
Period size: 9 Copynumber: 4.2 Consensus size: 9
32473015 TAATTTTTAC
32473025 AAAAACTTAT
1 AAAAA-TTAT
32473035 AAAAATTAT
1 AAAAATTAT
*
32473044 AAAATTTAT
1 AAAAATTAT
32473053 AAAAAATTAT
1 -AAAAATTAT
32473063 AA
1 AA
32473065 TAAAAATAAT
Statistics
Matches: 27, Mismatches: 2, Indels: 3
0.84 0.06 0.09
Matches are distributed among these distances:
9 14 0.52
10 13 0.48
ACGTcount: A:0.65, C:0.03, G:0.00, T:0.33
Consensus pattern (9 bp):
AAAAATTAT
Found at i:32473052 original size:18 final size:19
Alignment explanation
Indices: 32473026--32473064 Score: 62
Period size: 19 Copynumber: 2.1 Consensus size: 19
32473016 AATTTTTACA
32473026 AAAACTTAT-AAAAATTAT
1 AAAACTTATAAAAAATTAT
*
32473044 AAAATTTATAAAAAATTAT
1 AAAACTTATAAAAAATTAT
32473063 AA
1 AA
32473065 TAAAAATAAT
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
18 8 0.42
19 11 0.58
ACGTcount: A:0.64, C:0.03, G:0.00, T:0.33
Consensus pattern (19 bp):
AAAACTTATAAAAAATTAT
Found at i:32473062 original size:28 final size:28
Alignment explanation
Indices: 32472930--32473064 Score: 75
Period size: 28 Copynumber: 4.8 Consensus size: 28
32472920 TTTTTAACAT
* * *
32472930 TAAAATTGATATAAACTTATAAAAA-TA
1 TAAAATTTATAAAAAATTATAAAAATTA
*
32472957 TAATAA--TATAATAAATTATTAAAAATTCTA
1 TAA-AATTTATAAAAAATTA-TAAAAA-T-TA
* *
32472987 TAGAA-TTA-AAAATATATTA-AAAATATTT
1 TAAAATTTATAAAA-A-ATTATAAAA-ATTA
** * *
32473015 TAATTTTTACAAAAACTTATAAAAATTA
1 TAAAATTTATAAAAAATTATAAAAATTA
32473043 TAAAATTTATAAAAAATTATAA
1 TAAAATTTATAAAAAATTATAA
32473065 TAAAAATAAT
Statistics
Matches: 80, Mismatches: 16, Indels: 23
0.67 0.13 0.19
Matches are distributed among these distances:
26 8 0.10
27 9 0.11
28 29 0.36
29 18 0.22
30 12 0.15
31 4 0.05
ACGTcount: A:0.58, C:0.03, G:0.01, T:0.38
Consensus pattern (28 bp):
TAAAATTTATAAAAAATTATAAAAATTA
Found at i:32473073 original size:28 final size:28
Alignment explanation
Indices: 32473020--32473073 Score: 65
Period size: 28 Copynumber: 1.9 Consensus size: 28
32473010 TATTTTAATT
* *
32473020 TTTACAAAAACTTATAAAAATTATAAAA
1 TTTACAAAAAATTATAAAAATAATAAAA
*
32473048 TTTATAAAAAATTATAATAAA-AATAA
1 TTTACAAAAAATTATAA-AAATAATAA
32473074 TTTTAACACC
Statistics
Matches: 22, Mismatches: 3, Indels: 2
0.81 0.11 0.07
Matches are distributed among these distances:
28 19 0.86
29 3 0.14
ACGTcount: A:0.63, C:0.04, G:0.00, T:0.33
Consensus pattern (28 bp):
TTTACAAAAAATTATAAAAATAATAAAA
Found at i:32474361 original size:16 final size:16
Alignment explanation
Indices: 32474342--32474381 Score: 50
Period size: 14 Copynumber: 2.7 Consensus size: 16
32474332 TAATAAGTCC
*
32474342 AAAATAATTATATTAA
1 AAAATAATTATAATAA
32474358 AAAATAA--ATAATAA
1 AAAATAATTATAATAA
32474372 AAAAT-ATTAT
1 AAAATAATTAT
32474382 TATTGGCTTT
Statistics
Matches: 21, Mismatches: 1, Indels: 5
0.78 0.04 0.19
Matches are distributed among these distances:
13 1 0.05
14 11 0.52
15 2 0.10
16 7 0.33
ACGTcount: A:0.68, C:0.00, G:0.00, T:0.33
Consensus pattern (16 bp):
AAAATAATTATAATAA
Found at i:32476211 original size:10 final size:9
Alignment explanation
Indices: 32476172--32476303 Score: 59
Period size: 9 Copynumber: 14.0 Consensus size: 9
32476162 ACATATGACA
*
32476172 AAAAATGAT
1 AAAAATTAT
*
32476181 AAAAAATA-
1 AAAAATTAT
*
32476189 AAAAATAAT
1 AAAAATTAT
*
32476198 AAAAGTTAT
1 AAAAATTAT
32476207 AAAAATTAT
1 AAAAATTAT
* *
32476216 TAAATTTAAT
1 AAAAATT-AT
*
32476226 AAAAAACTAT
1 -AAAAATTAT
*
32476236 AAAAATTTT
1 AAAAATTAT
**
32476245 AAATTTTTATT
1 AAA-AATTA-T
*
32476256 AAAAATTAGA
1 AAAAATTA-T
*
32476266 AAAAAATAT
1 AAAAATTAT
* *
32476275 AAAGATCGTAA
1 AAAAAT--TAT
*
32476286 AAAAATCAT
1 AAAAATTAT
32476295 AAAAATTAT
1 AAAAATTAT
32476304 CGTACTAAAA
Statistics
Matches: 86, Mismatches: 30, Indels: 14
0.66 0.23 0.11
Matches are distributed among these distances:
8 6 0.07
9 49 0.57
10 16 0.19
11 15 0.17
ACGTcount: A:0.64, C:0.02, G:0.04, T:0.30
Consensus pattern (9 bp):
AAAAATTAT
Found at i:32476268 original size:29 final size:29
Alignment explanation
Indices: 32476197--32476269 Score: 85
Period size: 29 Copynumber: 2.5 Consensus size: 29
32476187 TAAAAAATAA
*
32476197 TAAAAGTTATAAAAATTATTAAATTTAAT
1 TAAAAATTATAAAAATTATTAAATTTAAT
* * *
32476226 AAAAAACTATAAAAATT-TTAAATTTTTAT
1 TAAAAATTATAAAAATTATTAAA-TTTAAT
*
32476255 TAAAAATTAGAAAAA
1 TAAAAATTATAAAAA
32476270 AATATAAAGA
Statistics
Matches: 36, Mismatches: 7, Indels: 2
0.80 0.16 0.04
Matches are distributed among these distances:
28 5 0.14
29 31 0.86
ACGTcount: A:0.59, C:0.01, G:0.03, T:0.37
Consensus pattern (29 bp):
TAAAAATTATAAAAATTATTAAATTTAAT
Found at i:32478484 original size:16 final size:15
Alignment explanation
Indices: 32478446--32478493 Score: 51
Period size: 16 Copynumber: 3.1 Consensus size: 15
32478436 TATAAAAATA
32478446 AAATTTTAAATATTTT
1 AAATTTTAAAT-TTTT
* *
32478462 TATTTTTAAAGTTTTT
1 AAATTTTAAA-TTTTT
*
32478478 AAATTTTGAATTTTT
1 AAATTTTAAATTTTT
32478493 A
1 A
32478494 TGGATCAAAA
Statistics
Matches: 26, Mismatches: 5, Indels: 3
0.76 0.15 0.09
Matches are distributed among these distances:
15 6 0.23
16 19 0.73
17 1 0.04
ACGTcount: A:0.35, C:0.00, G:0.04, T:0.60
Consensus pattern (15 bp):
AAATTTTAAATTTTT
Found at i:32495780 original size:36 final size:36
Alignment explanation
Indices: 32495733--32495805 Score: 146
Period size: 36 Copynumber: 2.0 Consensus size: 36
32495723 AGAGATCTAA
32495733 AGCCATAAAAGGAGGTCCTAGCAACTGTATTAGCAG
1 AGCCATAAAAGGAGGTCCTAGCAACTGTATTAGCAG
32495769 AGCCATAAAAGGAGGTCCTAGCAACTGTATTAGCAG
1 AGCCATAAAAGGAGGTCCTAGCAACTGTATTAGCAG
32495805 A
1 A
32495806 AGAAGGCGTA
Statistics
Matches: 37, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
36 37 1.00
ACGTcount: A:0.37, C:0.19, G:0.25, T:0.19
Consensus pattern (36 bp):
AGCCATAAAAGGAGGTCCTAGCAACTGTATTAGCAG
Found at i:32496601 original size:14 final size:15
Alignment explanation
Indices: 32496576--32496608 Score: 50
Period size: 14 Copynumber: 2.3 Consensus size: 15
32496566 AATTTATGTC
32496576 ATATAAAAATT-ATA
1 ATATAAAAATTAATA
*
32496590 ATATAAATATTAATA
1 ATATAAAAATTAATA
32496605 ATAT
1 ATAT
32496609 GTGATTGTTT
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
14 10 0.59
15 7 0.41
ACGTcount: A:0.61, C:0.00, G:0.00, T:0.39
Consensus pattern (15 bp):
ATATAAAAATTAATA
Found at i:32500763 original size:19 final size:19
Alignment explanation
Indices: 32500739--32500777 Score: 69
Period size: 19 Copynumber: 2.1 Consensus size: 19
32500729 AGAAATCAAG
32500739 ATTTTCCCTTCAACGTGGA
1 ATTTTCCCTTCAACGTGGA
*
32500758 ATTTTCCCTTCAACTTGGA
1 ATTTTCCCTTCAACGTGGA
32500777 A
1 A
32500778 AACTCCGGTG
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
19 19 1.00
ACGTcount: A:0.23, C:0.26, G:0.13, T:0.38
Consensus pattern (19 bp):
ATTTTCCCTTCAACGTGGA
Found at i:32500963 original size:18 final size:18
Alignment explanation
Indices: 32500940--32500979 Score: 71
Period size: 18 Copynumber: 2.2 Consensus size: 18
32500930 TTTAGTAATG
*
32500940 TTTTTATCTTAAAAATAT
1 TTTTTATCTAAAAAATAT
32500958 TTTTTATCTAAAAAATAT
1 TTTTTATCTAAAAAATAT
32500976 TTTT
1 TTTT
32500980 GAAAAGCAAT
Statistics
Matches: 21, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
18 21 1.00
ACGTcount: A:0.38, C:0.05, G:0.00, T:0.57
Consensus pattern (18 bp):
TTTTTATCTAAAAAATAT
Found at i:32512731 original size:13 final size:12
Alignment explanation
Indices: 32512695--32512735 Score: 55
Period size: 12 Copynumber: 3.3 Consensus size: 12
32512685 AATTTTTTTG
*
32512695 AATAAATTGATT
1 AATAAATTTATT
*
32512707 AATAAAATTATT
1 AATAAATTTATT
32512719 AATAAATTATATT
1 AATAAATT-TATT
32512732 AATA
1 AATA
32512736 CCCTTTTTAT
Statistics
Matches: 25, Mismatches: 3, Indels: 1
0.86 0.10 0.03
Matches are distributed among these distances:
12 17 0.68
13 8 0.32
ACGTcount: A:0.56, C:0.00, G:0.02, T:0.41
Consensus pattern (12 bp):
AATAAATTTATT
Found at i:32514724 original size:26 final size:26
Alignment explanation
Indices: 32514695--32514882 Score: 184
Period size: 26 Copynumber: 7.2 Consensus size: 26
32514685 ATTAGAAAAG
*
32514695 CGGTGATTATATAGCAGGCTTCTAGC
1 CGGTGATTATATAGCAGGCTTCGAGC
* * *
32514721 CGGTGATTGTATAGTAGACCTT-GAGC
1 CGGTGATTATATAGCAG-GCTTCGAGC
*
32514747 CGGTGATTGTATAGCAGGCCTT-GAGC
1 CGGTGATTATATAGCAGG-CTTCGAGC
*
32514773 CGGTGATTAAATAGCAGGCTTCGAGC
1 CGGTGATTATATAGCAGGCTTCGAGC
* * *
32514799 CAGTTATTATATAGCAGGCCTT-GACC
1 CGGTGATTATATAGCAGG-CTTCGAGC
* * *
32514825 CGGTCATCAAATAGCAGGCTTCGAGC
1 CGGTGATTATATAGCAGGCTTCGAGC
* * * *
32514851 TGGTGATTAAATAGCAAGCTTCAAGC
1 CGGTGATTATATAGCAGGCTTCGAGC
32514877 CGGTGA
1 CGGTGA
32514883 ACAATTAGCG
Statistics
Matches: 134, Mismatches: 23, Indels: 10
0.80 0.14 0.06
Matches are distributed among these distances:
25 6 0.04
26 122 0.91
27 6 0.04
ACGTcount: A:0.26, C:0.20, G:0.28, T:0.27
Consensus pattern (26 bp):
CGGTGATTATATAGCAGGCTTCGAGC
Found at i:32514828 original size:78 final size:78
Alignment explanation
Indices: 32514695--32514882 Score: 216
Period size: 78 Copynumber: 2.4 Consensus size: 78
32514685 ATTAGAAAAG
* * * * * * * ***
32514695 CGGTGATTATATAGCAGGCTTCTAGCCGGTGATTGTATAGTAGACCTTGAGCCGGTGATTGTATA
1 CGGTGATTAAATAGCAGGCTTCAAGCCAGTGATTATATAGCAGACCTTGACCCGGTCATCAAATA
32514760 GCAGGCCTT-GAGC
66 GCAGG-CTTCGAGC
* * *
32514773 CGGTGATTAAATAGCAGGCTTCGAGCCAGTTATTATATAGCAGGCCTTGACCCGGTCATCAAATA
1 CGGTGATTAAATAGCAGGCTTCAAGCCAGTGATTATATAGCAGACCTTGACCCGGTCATCAAATA
32514838 GCAGGCTTCGAGC
66 GCAGGCTTCGAGC
* * *
32514851 TGGTGATTAAATAGCAAGCTTCAAGCCGGTGA
1 CGGTGATTAAATAGCAGGCTTCAAGCCAGTGA
32514883 ACAATTAGCG
Statistics
Matches: 92, Mismatches: 17, Indels: 2
0.83 0.15 0.02
Matches are distributed among these distances:
77 3 0.03
78 89 0.97
ACGTcount: A:0.26, C:0.20, G:0.28, T:0.27
Consensus pattern (78 bp):
CGGTGATTAAATAGCAGGCTTCAAGCCAGTGATTATATAGCAGACCTTGACCCGGTCATCAAATA
GCAGGCTTCGAGC
Found at i:32518784 original size:24 final size:23
Alignment explanation
Indices: 32518738--32518832 Score: 74
Period size: 24 Copynumber: 4.1 Consensus size: 23
32518728 TTAATTTCGG
*
32518738 ATTAATTTTTTTATTAATTTATA
1 ATTAATTTTTTTATTAATATATA
32518761 ATTAATTTTAGTTT-TTAATATATA
1 ATTAATTTT--TTTATTAATATATA
* * *
32518785 AATAATATTTTATATTTAAAATA-A
1 ATTAAT-TTTTTTA-TTAATATATA
32518809 ATT-A-TTTTTTATATAA-ATATA
1 ATTAATTTTTTTAT-TAATATATA
32518830 ATT
1 ATT
32518833 TTACCATATA
Statistics
Matches: 59, Mismatches: 6, Indels: 16
0.73 0.07 0.20
Matches are distributed among these distances:
20 4 0.07
21 13 0.22
23 12 0.20
24 17 0.29
25 13 0.22
ACGTcount: A:0.42, C:0.00, G:0.01, T:0.57
Consensus pattern (23 bp):
ATTAATTTTTTTATTAATATATA
Found at i:32518816 original size:21 final size:22
Alignment explanation
Indices: 32518780--32518830 Score: 59
Period size: 21 Copynumber: 2.3 Consensus size: 22
32518770 AGTTTTTAAT
*
32518780 ATATAAATAATATTTTATATTTAA
1 ATATAAAT--TATTTTATATATAA
*
32518804 A-ATAAATTATTTTTTATATAA
1 ATATAAATTATTTTATATATAA
32518825 ATATAA
1 ATATAA
32518831 TTTTACCATA
Statistics
Matches: 24, Mismatches: 2, Indels: 4
0.80 0.07 0.13
Matches are distributed among these distances:
21 13 0.54
22 4 0.17
23 6 0.25
24 1 0.04
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (22 bp):
ATATAAATTATTTTATATATAA
Found at i:32521812 original size:20 final size:20
Alignment explanation
Indices: 32521779--32521846 Score: 59
Period size: 20 Copynumber: 3.5 Consensus size: 20
32521769 TATCTTCGAC
*
32521779 AAAAGATATAAAGAATTATTA
1 AAAAG-TATTAAGAATTATTA
* *
32521800 AAAAGTATTAAGATTTATAA
1 AAAAGTATTAAGAATTATTA
* *
32521820 AAAAAT-TTAA-AAGTATTA
1 AAAAGTATTAAGAATTATTA
*
32521838 AAAATTATT
1 AAAAGTATT
32521847 TAAAACAATG
Statistics
Matches: 38, Mismatches: 8, Indels: 4
0.76 0.16 0.08
Matches are distributed among these distances:
18 10 0.26
19 6 0.16
20 17 0.45
21 5 0.13
ACGTcount: A:0.59, C:0.00, G:0.07, T:0.34
Consensus pattern (20 bp):
AAAAGTATTAAGAATTATTA
Found at i:32521983 original size:18 final size:18
Alignment explanation
Indices: 32521945--32521983 Score: 53
Period size: 18 Copynumber: 2.2 Consensus size: 18
32521935 AAAAGTTATT
*
32521945 TAAAAATATTAAGAAATA
1 TAAAAATATTAAGAAAAA
32521963 TAAAAATATATAA-AAAAA
1 TAAAAATAT-TAAGAAAAA
32521981 TAA
1 TAA
32521984 TTTTTTAAAT
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
18 16 0.84
19 3 0.16
ACGTcount: A:0.72, C:0.00, G:0.03, T:0.26
Consensus pattern (18 bp):
TAAAAATATTAAGAAAAA
Found at i:32522110 original size:18 final size:20
Alignment explanation
Indices: 32522059--32522110 Score: 54
Period size: 18 Copynumber: 2.6 Consensus size: 20
32522049 TACACACATG
*
32522059 TATTTTCTTAATCAAGTTGA
1 TATTTTATTAATCAAGTTGA
*
32522079 TACTCTTAATTAATC-AGTT-A
1 TA-T-TTTATTAATCAAGTTGA
32522099 TATTTTATTAAT
1 TATTTTATTAAT
32522111 TTTTTAATAC
Statistics
Matches: 27, Mismatches: 3, Indels: 6
0.75 0.08 0.17
Matches are distributed among these distances:
18 8 0.30
19 1 0.04
20 5 0.19
21 5 0.19
22 8 0.30
ACGTcount: A:0.33, C:0.10, G:0.06, T:0.52
Consensus pattern (20 bp):
TATTTTATTAATCAAGTTGA
Found at i:32522135 original size:21 final size:21
Alignment explanation
Indices: 32522101--32522172 Score: 65
Period size: 21 Copynumber: 3.4 Consensus size: 21
32522091 ATCAGTTATA
* * * *
32522101 TTTTATTAATTTTTTAATACT
1 TTTTAATAACTTTTAAATAAT
32522122 TTTTAATAACTTTTAAATAAT
1 TTTTAATAACTTTTAAATAAT
* * *
32522143 TTTTTATAA-TTATATATAAT
1 TTTTAATAACTTTTAAATAAT
32522163 TATTTAATAA
1 T-TTTAATAA
32522173 TTATTTAAGA
Statistics
Matches: 42, Mismatches: 8, Indels: 2
0.81 0.15 0.04
Matches are distributed among these distances:
20 10 0.24
21 32 0.76
ACGTcount: A:0.39, C:0.03, G:0.00, T:0.58
Consensus pattern (21 bp):
TTTTAATAACTTTTAAATAAT
Found at i:32522174 original size:11 final size:10
Alignment explanation
Indices: 32522101--32522180 Score: 63
Period size: 11 Copynumber: 7.6 Consensus size: 10
32522091 ATCAGTTATA
*
32522101 TTTTATTAATT
1 TTTTAATAA-T
*
32522112 TTTTAATACT
1 TTTTAATAAT
32522122 TTTTAATAACT
1 TTTTAATAA-T
*
32522133 TTTAAATAAT
1 TTTTAATAAT
*
32522143 TTTTTATAA-
1 TTTTAATAAT
*
32522152 TTATATATAAT
1 TTTTA-ATAAT
32522163 TATTTAATAAT
1 T-TTTAATAAT
32522174 TATTTAA
1 T-TTTAA
32522181 GAAACAACTC
Statistics
Matches: 56, Mismatches: 9, Indels: 8
0.77 0.12 0.11
Matches are distributed among these distances:
9 3 0.05
10 21 0.38
11 29 0.52
12 3 0.05
ACGTcount: A:0.39, C:0.03, G:0.00, T:0.59
Consensus pattern (10 bp):
TTTTAATAAT
Found at i:32522174 original size:21 final size:20
Alignment explanation
Indices: 32522116--32522176 Score: 68
Period size: 21 Copynumber: 3.0 Consensus size: 20
32522106 TTAATTTTTT
* *
32522116 AATACTTTTTAATAACTTTTA
1 AATAATTTTTAATAA-TTATA
*
32522137 AATAATTTTTTATAATTATA
1 AATAATTTTTAATAATTATA
*
32522157 TATAATTATTTAATAATTAT
1 AATAATT-TTTAATAATTAT
32522177 TTAAGAAACA
Statistics
Matches: 34, Mismatches: 5, Indels: 2
0.83 0.12 0.05
Matches are distributed among these distances:
20 10 0.29
21 24 0.71
ACGTcount: A:0.43, C:0.03, G:0.00, T:0.54
Consensus pattern (20 bp):
AATAATTTTTAATAATTATA
Found at i:32558173 original size:156 final size:156
Alignment explanation
Indices: 32557889--32558179 Score: 555
Period size: 156 Copynumber: 1.9 Consensus size: 156
32557879 AATATTGATT
32557889 ATATGATAAAATGATGATATTGTGAAAGCCATTGAGGAAATAAATGTGAGAAATACGTGACTATG
1 ATATGATAAAATGATGATATTGTGAAAGCCATTGAGGAAATAAATGTGAGAAATACGTGACTATG
*
32557954 TATATGTGATGAAAAATGTATATATGATGTATGAGTTGTGAATGATTTGTTATCAAAATTGAAAG
66 TATATGTGATGAAAAATGTATATATGATGTATGAGTTGTGAATGATTTGTGATCAAAATTGAAAG
32558019 TGAAAGTGCAAGTGAAAGTGAAGTTG
131 TGAAAGTGCAAGTGAAAGTGAAGTTG
32558045 ATATGATAAAATGATGATATTGTGAAAGCCATTGAGGAAATAAATGTGAGAAATACGTGACTATG
1 ATATGATAAAATGATGATATTGTGAAAGCCATTGAGGAAATAAATGTGAGAAATACGTGACTATG
* *
32558110 TATATGTGATGAAAAATGTATATATGATGTATGAGTTGTGAATGATTTGTGATCAAAGTTGAAAT
66 TATATGTGATGAAAAATGTATATATGATGTATGAGTTGTGAATGATTTGTGATCAAAATTGAAAG
32558175 TGAAA
131 TGAAA
32558180 ATCCCTATTA
Statistics
Matches: 132, Mismatches: 3, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
156 132 1.00
ACGTcount: A:0.41, C:0.04, G:0.24, T:0.32
Consensus pattern (156 bp):
ATATGATAAAATGATGATATTGTGAAAGCCATTGAGGAAATAAATGTGAGAAATACGTGACTATG
TATATGTGATGAAAAATGTATATATGATGTATGAGTTGTGAATGATTTGTGATCAAAATTGAAAG
TGAAAGTGCAAGTGAAAGTGAAGTTG
Found at i:32564280 original size:12 final size:12
Alignment explanation
Indices: 32564263--32564287 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
32564253 TTTAACCTGA
32564263 AAAAATAAAATT
1 AAAAATAAAATT
32564275 AAAAATAAAATT
1 AAAAATAAAATT
32564287 A
1 A
32564288 TTGAAAAGTT
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:0.76, C:0.00, G:0.00, T:0.24
Consensus pattern (12 bp):
AAAAATAAAATT
Found at i:32565134 original size:242 final size:244
Alignment explanation
Indices: 32564643--32565143 Score: 700
Period size: 242 Copynumber: 2.1 Consensus size: 244
32564633 GTATAACAGT
*
32564643 TAAAAAATGTTTTTG---AATAAAATATCTATTTTAAACATATGTTATAAAATAATAAATAAATA
1 TAAAAAATGCTTTTGAAAAATAAAATATCTATTTTAAACATATGTTATAAAATAATAAATAAATA
** *
32564705 TTTAAATAATATTTTAATTAGTTAATATTATGATATTTTAATAAGAATATAAAAATAATTTATTA
66 TTTAAATAATATTCAAATTAGTTAATATTATGATATTTTAATAAAAATATAAAAATAATTTATTA
* *
32564770 TAATTTTTTGTTAATATTTTAATATATAAAAAATGAATTTTAAATATTTTTAAGCAATTAACCAG
131 TAATTTTTTATTAATATTTTAATATATAAAAAATAAATTTTAAATATTTTTAAGCAATTAACCAG
* * ** * *
32564835 AGAAATGAAAGTATCACGTGTTGAAAAAATGAAAACGTAATTGAACTGT
196 AGAAATGAAAATATCACGCGTAAAAAAAATGAAAACATAATTGAACTGA
* *
32564884 TAAAAAATGCTTTTGAAAAATAAAATAT-TCATTTTAAACATGTGTTATAAAGTAATAAAT-AA-
1 TAAAAAATGCTTTTGAAAAATAAAATATCT-ATTTTAAACATATGTTATAAAATAATAAATAAAT
*
32564946 A-TTAAATAATGTTCAAATTAGTTAATATTATGATATTTTAATAAAAATATAAAAAATAATTTAT
65 ATTTAAATAATATTCAAATTAGTTAATATTATGATATTTTAATAAAAATAT-AAAAATAATTTAT
*
32565010 TAT-ATTTTATTATTAATATTTTAATATATAAAATATAAATTTTAAATATTCTTTAAGCAATTAA
129 TATAATTTT-TTATTAATATTTTAATATATAAAAAATAAATTTTAAATATT-TTTAAGCAATTAA
* *
32565074 TCAGA-AAA-GAAAAAATATCATGCGTAAAAAAAATGAAAACATAATTGAACT-A
192 CCAGAGAAATG--AAAATATCACGCGTAAAAAAAATGAAAACATAATTGAACTGA
*
32565126 TCAAAAATGCTTTTGAAA
1 TAAAAAATGCTTTTGAAA
32565144 TGAAAAAGTT
Statistics
Matches: 232, Mismatches: 19, Indels: 17
0.87 0.07 0.06
Matches are distributed among these distances:
241 65 0.28
242 75 0.32
243 54 0.23
244 38 0.16
ACGTcount: A:0.50, C:0.04, G:0.07, T:0.39
Consensus pattern (244 bp):
TAAAAAATGCTTTTGAAAAATAAAATATCTATTTTAAACATATGTTATAAAATAATAAATAAATA
TTTAAATAATATTCAAATTAGTTAATATTATGATATTTTAATAAAAATATAAAAATAATTTATTA
TAATTTTTTATTAATATTTTAATATATAAAAAATAAATTTTAAATATTTTTAAGCAATTAACCAG
AGAAATGAAAATATCACGCGTAAAAAAAATGAAAACATAATTGAACTGA
Found at i:32572328 original size:23 final size:23
Alignment explanation
Indices: 32572254--32572467 Score: 160
Period size: 23 Copynumber: 9.5 Consensus size: 23
32572244 TAAACGGAAC
* * *
32572254 AAACAGAGAGTAC-CGAAGTACT
1 AAACAGAGAGCACACAAAGTGCT
* *
32572276 GAACAGAGAGCACA-TAAGTGCT
1 AAACAGAGAGCACACAAAGTGCT
*
32572298 GGGCAACAGAGAGCACACAAAGTGCT
1 ---AAACAGAGAGCACACAAAGTGCT
*
32572324 AAACAGAGAGTACACAAA--G-T
1 AAACAGAGAGCACACAAAGTGCT
*
32572344 --AC--TGAGCACACAAAGTGCT
1 AAACAGAGAGCACACAAAGTGCT
* *
32572363 AATCAGAGAGCACACGAAGTGCT
1 AAACAGAGAGCACACAAAGTGCT
* *
32572386 AATCAGAGAGCACACACAGTGCT
1 AAACAGAGAGCACACAAAGTGCT
* *
32572409 AATAACAGAGAGCACGA-GACGTGCT
1 -A-AACAGAGAGCAC-ACAAAGTGCT
*
32572434 AAACAGAGAGCACACACAGTGCT
1 AAACAGAGAGCACACAAAGTGCT
*
32572457 AATCAGAGAGC
1 AAACAGAGAGC
32572468 GCGCTAGTGT
Statistics
Matches: 153, Mismatches: 23, Indels: 31
0.74 0.11 0.15
Matches are distributed among these distances:
16 10 0.07
18 3 0.02
19 1 0.01
20 1 0.01
21 2 0.01
22 18 0.12
23 79 0.52
24 2 0.01
25 29 0.19
26 8 0.05
ACGTcount: A:0.42, C:0.21, G:0.25, T:0.12
Consensus pattern (23 bp):
AAACAGAGAGCACACAAAGTGCT
Found at i:32572333 original size:48 final size:44
Alignment explanation
Indices: 32572255--32572467 Score: 168
Period size: 48 Copynumber: 4.8 Consensus size: 44
32572245 AAACGGAACA
* * * * *
32572255 AACAGAGAGTAC-CGAAGTACTGAACAGAGAGCACATAAGTGCT
1 AACAGAGAGCACACAAAGTGCTAAACAGAGAGCACAGAAGTGCT
* * *
32572298 GGGCAACAGAGAGCACACAAAGTGCTAAACAGAGAGTACACAA-AG-T
1 ----AACAGAGAGCACACAAAGTGCTAAACAGAGAGCACAGAAGTGCT
* *
32572344 -AC--TGAGCACACAAAGTGCTAATCAGAGAGCACACGAAGTGCT
1 AACAGAGAGCACACAAAGTGCTAAACAGAGAGCACA-GAAGTGCT
* *
32572386 AATCAGAGAGCACACACAGTGCTAATAACAGAGAGCACGAGACGTGCT
1 AA-CAGAGAGCACACAAAGTGCT-A-AACAGAGAGCAC-AGAAGTGCT
* *
32572434 AAACAGAGAGCACACACAGTGCTAATCAGAGAGC
1 -AACAGAGAGCACACAAAGTGCTAAACAGAGAGC
32572468 GCGCTAGTGT
Statistics
Matches: 137, Mismatches: 17, Indels: 25
0.77 0.09 0.14
Matches are distributed among these distances:
39 28 0.20
40 2 0.01
41 3 0.02
42 1 0.01
43 1 0.01
44 1 0.01
46 25 0.18
47 14 0.10
48 59 0.43
49 3 0.02
ACGTcount: A:0.42, C:0.22, G:0.25, T:0.12
Consensus pattern (44 bp):
AACAGAGAGCACACAAAGTGCTAAACAGAGAGCACAGAAGTGCT
Found at i:32572362 original size:39 final size:39
Alignment explanation
Indices: 32572308--32572382 Score: 123
Period size: 39 Copynumber: 1.9 Consensus size: 39
32572298 GGGCAACAGA
*
32572308 GAGCACACAAAGTGCTAAACAGAGAGTACACAAAGTACT
1 GAGCACACAAAGTGCTAAACAGAGAGCACACAAAGTACT
* *
32572347 GAGCACACAAAGTGCTAATCAGAGAGCACACGAAGT
1 GAGCACACAAAGTGCTAAACAGAGAGCACACAAAGT
32572383 GCTAATCAGA
Statistics
Matches: 33, Mismatches: 3, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
39 33 1.00
ACGTcount: A:0.44, C:0.21, G:0.23, T:0.12
Consensus pattern (39 bp):
GAGCACACAAAGTGCTAAACAGAGAGCACACAAAGTACT
Found at i:32573554 original size:33 final size:36
Alignment explanation
Indices: 32573493--32573558 Score: 93
Period size: 33 Copynumber: 1.9 Consensus size: 36
32573483 CTCTTTTACC
* *
32573493 CCTTGCTCTACTCTTTTCCTTTGTCTTCAATTTGAT
1 CCTTGCTCTACTCTTCTCCTTTCTCTTCAATTTGAT
32573529 CCTTGC-CT-CTCTTCT-CTTTCTCTTCAATTT
1 CCTTGCTCTACTCTTCTCCTTTCTCTTCAATTT
32573559 CACATAAACA
Statistics
Matches: 28, Mismatches: 2, Indels: 3
0.85 0.06 0.09
Matches are distributed among these distances:
33 14 0.50
34 6 0.21
35 2 0.07
36 6 0.21
ACGTcount: A:0.09, C:0.32, G:0.06, T:0.53
Consensus pattern (36 bp):
CCTTGCTCTACTCTTCTCCTTTCTCTTCAATTTGAT
Found at i:32579296 original size:54 final size:54
Alignment explanation
Indices: 32579203--32579305 Score: 129
Period size: 54 Copynumber: 1.9 Consensus size: 54
32579193 TCATCTAATG
* * * *
32579203 TTTAAAATTTCTATCAATTTAATCTTGATTTTAAAAAATTCAATAATCATTAAC
1 TTTAAAATTTCTATCAATTTAATCTTAATTCTAAAAAATTAAAAAATCATTAAC
*
32579257 TTTACAAATTT-TATCAATTTAATCTTAATTCCT-ATAAATTAAAAAATCA
1 TTTA-AAATTTCTATCAATTTAATCTTAATT-CTAAAAAATTAAAAAATCA
32579306 AAAAATAAAC
Statistics
Matches: 42, Mismatches: 5, Indels: 4
0.82 0.10 0.08
Matches are distributed among these distances:
54 35 0.83
55 7 0.17
ACGTcount: A:0.44, C:0.12, G:0.01, T:0.44
Consensus pattern (54 bp):
TTTAAAATTTCTATCAATTTAATCTTAATTCTAAAAAATTAAAAAATCATTAAC
Found at i:32581004 original size:2 final size:2
Alignment explanation
Indices: 32580999--32581027 Score: 58
Period size: 2 Copynumber: 14.5 Consensus size: 2
32580989 TATATGTAGG
32580999 TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
32581028 GCATTTTCTA
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 27 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Found at i:32582852 original size:2 final size:2
Alignment explanation
Indices: 32582845--32582869 Score: 50
Period size: 2 Copynumber: 12.5 Consensus size: 2
32582835 TCATATTAGC
32582845 TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA T
32582870 CCATATCCAT
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 23 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Found at i:32583445 original size:12 final size:12
Alignment explanation
Indices: 32583428--32583452 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
32583418 ACTGCCATAA
32583428 GCATTCTTCATT
1 GCATTCTTCATT
32583440 GCATTCTTCATT
1 GCATTCTTCATT
32583452 G
1 G
32583453 TGAACTTCAA
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:0.16, C:0.24, G:0.12, T:0.48
Consensus pattern (12 bp):
GCATTCTTCATT
Found at i:32583551 original size:31 final size:31
Alignment explanation
Indices: 32583505--32583583 Score: 92
Period size: 31 Copynumber: 2.6 Consensus size: 31
32583495 CCAATGGCTA
32583505 ATATATTT-TTTAAATAAGTTCTTAAATGATT
1 ATAT-TTTATTTAAATAAGTTCTTAAATGATT
* *
32583536 ATATTTTATTTAAATAAGTTTTTAAATTATT
1 ATATTTTATTTAAATAAGTTCTTAAATGATT
* *
32583567 -T-TTGTAGTTAAATAAGT
1 ATATTTTATTTAAATAAGT
32583584 ACCTATGTTA
Statistics
Matches: 43, Mismatches: 4, Indels: 4
0.84 0.08 0.08
Matches are distributed among these distances:
29 14 0.33
30 4 0.09
31 25 0.58
ACGTcount: A:0.38, C:0.01, G:0.08, T:0.53
Consensus pattern (31 bp):
ATATTTTATTTAAATAAGTTCTTAAATGATT
Found at i:32586815 original size:58 final size:58
Alignment explanation
Indices: 32586727--32586872 Score: 174
Period size: 58 Copynumber: 2.5 Consensus size: 58
32586717 ATATATTATA
* *
32586727 ATTTTTACT-AATTCATATTTTAATAATAATTATATTAAAA-AT-ATT-ATTAAATTACAT
1 ATTTTTATTAAATT-ATA-TTTAATAATAATTATATTAAAATATAATTAAATAAATTA-AT
* *
32586784 ATTATTTTATTAAATTGTATTTAATAATAATTATGTTAAAATATAATTAAATAAATTAAT
1 A-T-TTTTATTAAATTATATTTAATAATAATTATATTAAAATATAATTAAATAAATTAAT
*
32586844 ATTTTTATTCAATTATATTTAATAATAAT
1 ATTTTTATTAAATTATATTTAATAATAAT
32586873 CATTAAAATT
Statistics
Matches: 77, Mismatches: 6, Indels: 11
0.82 0.06 0.12
Matches are distributed among these distances:
57 1 0.01
58 47 0.61
59 11 0.14
60 10 0.13
61 8 0.10
ACGTcount: A:0.46, C:0.03, G:0.01, T:0.50
Consensus pattern (58 bp):
ATTTTTATTAAATTATATTTAATAATAATTATATTAAAATATAATTAAATAAATTAAT
Found at i:32587062 original size:16 final size:16
Alignment explanation
Indices: 32587041--32587094 Score: 90
Period size: 16 Copynumber: 3.4 Consensus size: 16
32587031 TGAATTACTG
32587041 ATTACAGCTCTATTCC
1 ATTACAGCTCTATTCC
*
32587057 ATTACAGTTCTATTCC
1 ATTACAGCTCTATTCC
*
32587073 ATTACACCTCTATTCC
1 ATTACAGCTCTATTCC
32587089 ATTACA
1 ATTACA
32587095 ACGAACCAAA
Statistics
Matches: 35, Mismatches: 3, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
16 35 1.00
ACGTcount: A:0.28, C:0.30, G:0.04, T:0.39
Consensus pattern (16 bp):
ATTACAGCTCTATTCC
Found at i:32593207 original size:2 final size:2
Alignment explanation
Indices: 32593200--32593234 Score: 70
Period size: 2 Copynumber: 17.5 Consensus size: 2
32593190 TTGAATTGTG
32593200 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
32593235 AGTCTATAAA
Statistics
Matches: 33, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 33 1.00
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (2 bp):
AT
Found at i:32602654 original size:61 final size:59
Alignment explanation
Indices: 32602589--32602701 Score: 136
Period size: 59 Copynumber: 1.9 Consensus size: 59
32602579 ATTAATATAA
* * *
32602589 AAAAAAATTAGGTACCAAATTAAGAAAAAAAAAGTCAAGTTTAGGTACTAAATTGGACTCC
1 AAAAAAATTAAGTACCAAATTAA-AAAAAAAAA-TCAAGTTTAGATACCAAATTGGACTCC
** * * *
32602650 AAAAAGTTTAAGTACCAACTTTAAAAAAAATATCAAGTTTAGATACCAAATT
1 AAAAAAATTAAGTACCAAATTAAAAAAAAAAATCAAGTTTAGATACCAAATT
32602702 AGAAAAAAGT
Statistics
Matches: 44, Mismatches: 8, Indels: 2
0.81 0.15 0.04
Matches are distributed among these distances:
59 18 0.41
60 8 0.18
61 18 0.41
ACGTcount: A:0.51, C:0.12, G:0.12, T:0.26
Consensus pattern (59 bp):
AAAAAAATTAAGTACCAAATTAAAAAAAAAAATCAAGTTTAGATACCAAATTGGACTCC
Found at i:32602689 original size:31 final size:31
Alignment explanation
Indices: 32602673--32602783 Score: 81
Period size: 31 Copynumber: 3.7 Consensus size: 31
32602663 ACCAACTTTA
32602673 AAAAAAATATCAAGTTTAGATACCAAATTAG
1 AAAAAAATATCAAGTTTAGATACCAAATTAG
* * *
32602704 AAAAAAGTGTCAAGTTT-GAATATCAAATT-G
1 AAAAAAATATCAAGTTTAG-ATACCAAATTAG
* * *
32602734 GACAAAA-A--AAGTTTA-AGTGCCAAATTAG
1 AAAAAAATATCAAGTTTAGA-TACCAAATTAG
* * *
32602762 GAAAAAATGTCAAGTTCAGATA
1 AAAAAAATATCAAGTTTAGATA
32602784 TAAAATGTTA
Statistics
Matches: 59, Mismatches: 13, Indels: 16
0.67 0.15 0.18
Matches are distributed among these distances:
26 1 0.02
27 13 0.22
28 7 0.12
30 6 0.10
31 31 0.53
32 1 0.02
ACGTcount: A:0.50, C:0.09, G:0.15, T:0.25
Consensus pattern (31 bp):
AAAAAAATATCAAGTTTAGATACCAAATTAG
Found at i:32606169 original size:21 final size:23
Alignment explanation
Indices: 32606137--32606183 Score: 62
Period size: 22 Copynumber: 2.1 Consensus size: 23
32606127 TTTAAAATAG
*
32606137 TAAAAATAACTTAAAT-TTTATA
1 TAAAAATAACTTAAATAATTATA
*
32606159 TAAAAAT-ACTTGAATAATTATA
1 TAAAAATAACTTAAATAATTATA
32606181 TAA
1 TAA
32606184 GAGTTATTAT
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
21 7 0.32
22 15 0.68
ACGTcount: A:0.55, C:0.04, G:0.02, T:0.38
Consensus pattern (23 bp):
TAAAAATAACTTAAATAATTATA
Found at i:32610430 original size:24 final size:24
Alignment explanation
Indices: 32610402--32610488 Score: 111
Period size: 24 Copynumber: 3.6 Consensus size: 24
32610392 AGAAATAATC
* * *
32610402 TTTCAGTTAAACTTTATTTATTTG
1 TTTCAATTAAACTCTGTTTATTTG
32610426 TTTCAATTAAACTCTGTTTATTTG
1 TTTCAATTAAACTCTGTTTATTTG
* *
32610450 TTACAATTAAACTCTGTTTATTTA
1 TTTCAATTAAACTCTGTTTATTTG
* *
32610474 TTTCAGTCAAACTCT
1 TTTCAATTAAACTCT
32610489 TAGTCTAGAT
Statistics
Matches: 55, Mismatches: 8, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
24 55 1.00
ACGTcount: A:0.28, C:0.14, G:0.07, T:0.52
Consensus pattern (24 bp):
TTTCAATTAAACTCTGTTTATTTG
Found at i:32612502 original size:48 final size:48
Alignment explanation
Indices: 32612397--32612504 Score: 162
Period size: 48 Copynumber: 2.2 Consensus size: 48
32612387 AATAATCTTC
* * *
32612397 CAGTTAAACTCTGTTTATTTGTTTCAATTAAACTTTGTTTATTTGTTA
1 CAGTTAAACTCTGTTTATCTGTTACAATTAAACTCTGTTTATTTGTTA
* *
32612445 CAATTAAACTCTGTTTATCTGTTACAATTAAACTCTGTTTATTTGTTT
1 CAGTTAAACTCTGTTTATCTGTTACAATTAAACTCTGTTTATTTGTTA
*
32612493 CAGTCAAACTCT
1 CAGTTAAACTCT
32612505 TAGTCTAAAT
Statistics
Matches: 53, Mismatches: 7, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
48 53 1.00
ACGTcount: A:0.27, C:0.15, G:0.09, T:0.49
Consensus pattern (48 bp):
CAGTTAAACTCTGTTTATCTGTTACAATTAAACTCTGTTTATTTGTTA
Found at i:32612504 original size:24 final size:24
Alignment explanation
Indices: 32612400--32612491 Score: 157
Period size: 24 Copynumber: 3.8 Consensus size: 24
32612390 AATCTTCCAG
*
32612400 TTAAACTCTGTTTATTTGTTTCAA
1 TTAAACTCTGTTTATTTGTTACAA
*
32612424 TTAAACTTTGTTTATTTGTTACAA
1 TTAAACTCTGTTTATTTGTTACAA
*
32612448 TTAAACTCTGTTTATCTGTTACAA
1 TTAAACTCTGTTTATTTGTTACAA
32612472 TTAAACTCTGTTTATTTGTT
1 TTAAACTCTGTTTATTTGTT
32612492 TCAGTCAAAC
Statistics
Matches: 63, Mismatches: 5, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
24 63 1.00
ACGTcount: A:0.26, C:0.12, G:0.09, T:0.53
Consensus pattern (24 bp):
TTAAACTCTGTTTATTTGTTACAA
Found at i:32620950 original size:12 final size:12
Alignment explanation
Indices: 32620929--32620974 Score: 58
Period size: 12 Copynumber: 3.8 Consensus size: 12
32620919 TAAATATGAA
32620929 TAAA-TTTAAAT
1 TAAACTTTAAAT
* *
32620940 AAAATTTTAAATT
1 TAAACTTTAAA-T
32620953 TAAACTTTAAAT
1 TAAACTTTAAAT
32620965 TAAACTTTAA
1 TAAACTTTAA
32620975 CAAATATAAA
Statistics
Matches: 30, Mismatches: 3, Indels: 3
0.83 0.08 0.08
Matches are distributed among these distances:
11 3 0.10
12 17 0.57
13 10 0.33
ACGTcount: A:0.52, C:0.04, G:0.00, T:0.43
Consensus pattern (12 bp):
TAAACTTTAAAT
Found at i:32633433 original size:15 final size:17
Alignment explanation
Indices: 32633413--32633446 Score: 54
Period size: 15 Copynumber: 2.1 Consensus size: 17
32633403 GGTAATGAAT
32633413 AAGAAAAT-ACCCA-AA
1 AAGAAAATCACCCATAA
32633428 AAGAAAATCACCCATAA
1 AAGAAAATCACCCATAA
32633445 AA
1 AA
32633447 AATCTAACTA
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
15 8 0.47
16 5 0.29
17 4 0.24
ACGTcount: A:0.65, C:0.21, G:0.06, T:0.09
Consensus pattern (17 bp):
AAGAAAATCACCCATAA
Found at i:32636248 original size:19 final size:18
Alignment explanation
Indices: 32636208--32636254 Score: 53
Period size: 19 Copynumber: 2.6 Consensus size: 18
32636198 TCTTTTGTTT
*
32636208 TTAACTTATATATTATAC
1 TTAACTTATAAATTATAC
32636226 TTAACTTAATAAATTATGA-
1 TTAACTT-ATAAATTAT-AC
32636245 TTAA-TTATAA
1 TTAACTTATAA
32636255 TTAATATTGA
Statistics
Matches: 26, Mismatches: 1, Indels: 5
0.81 0.03 0.16
Matches are distributed among these distances:
17 4 0.15
18 9 0.35
19 12 0.46
20 1 0.04
ACGTcount: A:0.45, C:0.06, G:0.02, T:0.47
Consensus pattern (18 bp):
TTAACTTATAAATTATAC
Found at i:32644677 original size:40 final size:40
Alignment explanation
Indices: 32644633--32644753 Score: 174
Period size: 39 Copynumber: 3.0 Consensus size: 40
32644623 ACCCTTAAGG
*
32644633 ATTTTTTAGATAAATTTTCTGATTCATTTCTATTTTAAAT
1 ATTTTTTAGGTAAATTTTCTGATTCATTTCTATTTTAAAT
* *
32644673 ATTTTTTAGGTAAATTTT-TGATTCATTCCGATTTTAAAT
1 ATTTTTTAGGTAAATTTTCTGATTCATTTCTATTTTAAAT
* *
32644712 GTATTTTAGGTAAATTTTCTGATTC-TTTCCTATTTTAAAT
1 ATTTTTTAGGTAAATTTTCTGATTCATTT-CTATTTTAAAT
32644752 AT
1 AT
32644754 ATACTCTATT
Statistics
Matches: 71, Mismatches: 8, Indels: 4
0.86 0.10 0.05
Matches are distributed among these distances:
39 37 0.52
40 34 0.48
ACGTcount: A:0.28, C:0.08, G:0.08, T:0.55
Consensus pattern (40 bp):
ATTTTTTAGGTAAATTTTCTGATTCATTTCTATTTTAAAT
Found at i:32652687 original size:18 final size:18
Alignment explanation
Indices: 32652666--32652702 Score: 56
Period size: 18 Copynumber: 2.1 Consensus size: 18
32652656 TTATTTTTTG
* *
32652666 AATTCTAATAAGTCAAAT
1 AATTCGAATAAATCAAAT
32652684 AATTCGAATAAATCAAAT
1 AATTCGAATAAATCAAAT
32652702 A
1 A
32652703 TTAAACTATA
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:0.54, C:0.11, G:0.05, T:0.30
Consensus pattern (18 bp):
AATTCGAATAAATCAAAT
Found at i:32656951 original size:12 final size:11
Alignment explanation
Indices: 32656934--32656968 Score: 52
Period size: 11 Copynumber: 3.0 Consensus size: 11
32656924 AGGCAACCCA
32656934 ATTTTTAGTTTT
1 ATTTTTA-TTTT
32656946 ATTTTTTATTTT
1 A-TTTTTATTTT
32656958 ATTTTTATTTT
1 ATTTTTATTTT
32656969 TCTATTTATT
Statistics
Matches: 22, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
11 10 0.45
12 6 0.27
13 6 0.27
ACGTcount: A:0.17, C:0.00, G:0.03, T:0.80
Consensus pattern (11 bp):
ATTTTTATTTT
Found at i:32656963 original size:18 final size:18
Alignment explanation
Indices: 32656936--32656990 Score: 67
Period size: 18 Copynumber: 2.9 Consensus size: 18
32656926 GCAACCCAAT
*
32656936 TTTTAGTTTTATTTTTTA
1 TTTTATTTTTATTTTTTA
32656954 TTTTATTTTTATTTTTCTA
1 TTTTATTTTTATTTTT-TA
32656973 -TTTATTTACTTATTTTTT
1 TTTTATTT--TTATTTTTT
32656991 TATTATATGT
Statistics
Matches: 33, Mismatches: 1, Indels: 5
0.85 0.03 0.13
Matches are distributed among these distances:
18 22 0.67
19 3 0.09
20 8 0.24
ACGTcount: A:0.16, C:0.04, G:0.02, T:0.78
Consensus pattern (18 bp):
TTTTATTTTTATTTTTTA
Found at i:32656969 original size:12 final size:12
Alignment explanation
Indices: 32656934--32656989 Score: 51
Period size: 12 Copynumber: 4.5 Consensus size: 12
32656924 AGGCAACCCA
*
32656934 ATTTTTAGTTTT
1 ATTTTTATTTTT
32656946 ATTTTT-TATTTT
1 ATTTTTAT-TTTT
32656958 ATTTTTATTTTT
1 ATTTTTATTTTT
* *
32656970 CTATTTATTTACTT
1 ATTTTTATTT--TT
32656984 ATTTTT
1 ATTTTT
32656990 TTATTATATG
Statistics
Matches: 35, Mismatches: 5, Indels: 6
0.76 0.11 0.13
Matches are distributed among these distances:
12 28 0.80
13 1 0.03
14 6 0.17
ACGTcount: A:0.18, C:0.04, G:0.02, T:0.77
Consensus pattern (12 bp):
ATTTTTATTTTT
Found at i:32661806 original size:21 final size:22
Alignment explanation
Indices: 32661773--32661816 Score: 54
Period size: 21 Copynumber: 2.0 Consensus size: 22
32661763 ACTTCCAAAG
* *
32661773 CCCCAAACCTTTT-TGCTTTCC
1 CCCCAAAACTTTTATGCCTTCC
*
32661794 CCCCAAAAGTTTTATGCCTTCC
1 CCCCAAAACTTTTATGCCTTCC
32661816 C
1 C
32661817 ACTTTTCCCC
Statistics
Matches: 19, Mismatches: 3, Indels: 1
0.83 0.13 0.04
Matches are distributed among these distances:
21 11 0.58
22 8 0.42
ACGTcount: A:0.18, C:0.41, G:0.07, T:0.34
Consensus pattern (22 bp):
CCCCAAAACTTTTATGCCTTCC
Found at i:32663058 original size:33 final size:33
Alignment explanation
Indices: 32663021--32663084 Score: 92
Period size: 33 Copynumber: 1.9 Consensus size: 33
32663011 ATGATATAGT
*
32663021 TGCCTCGAGAAATGTTCCAATGAATAATGAAAC
1 TGCCTCGAGAAATGTTCCAATCAATAATGAAAC
* * *
32663054 TGCCTCGAGAGATGTTCGAATCAATTATGAA
1 TGCCTCGAGAAATGTTCCAATCAATAATGAA
32663085 GTTGCACTGA
Statistics
Matches: 27, Mismatches: 4, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
33 27 1.00
ACGTcount: A:0.36, C:0.17, G:0.20, T:0.27
Consensus pattern (33 bp):
TGCCTCGAGAAATGTTCCAATCAATAATGAAAC
Found at i:32663100 original size:33 final size:33
Alignment explanation
Indices: 32663032--32663148 Score: 112
Period size: 33 Copynumber: 3.5 Consensus size: 33
32663022 GCCTCGAGAA
* * * * *
32663032 ATGTTCCAATGAATAATGAAACTGC-CTCGAGAG
1 ATGTTCCAATCAATTATGAAGCGGCACT-GATAG
* **
32663065 ATGTTCGAATCAATTATGAAGTTGCACTGATAG
1 ATGTTCCAATCAATTATGAAGCGGCACTGATAG
*
32663098 ATGTTCCAATC-ATTGATGAAGCGGCGCTGATAG
1 ATGTTCCAATCAATT-ATGAAGCGGCACTGATAG
*
32663131 ATGTTCCAATCACTTATG
1 ATGTTCCAATCAATTATG
32663149 TAGATAATTT
Statistics
Matches: 70, Mismatches: 11, Indels: 6
0.80 0.13 0.07
Matches are distributed among these distances:
32 3 0.04
33 63 0.90
34 4 0.06
ACGTcount: A:0.32, C:0.17, G:0.21, T:0.30
Consensus pattern (33 bp):
ATGTTCCAATCAATTATGAAGCGGCACTGATAG
Found at i:32665539 original size:23 final size:23
Alignment explanation
Indices: 32665483--32665540 Score: 71
Period size: 23 Copynumber: 2.5 Consensus size: 23
32665473 CTTCCATCAT
* * *
32665483 TGCTGACTAGACCTTCTGGAAGC
1 TGCTGACTGGATCTTCTAGAAGC
*
32665506 TGCTGACTGGATCTTCTAGAAGT
1 TGCTGACTGGATCTTCTAGAAGC
*
32665529 TGCTGATTGGAT
1 TGCTGACTGGAT
32665541 GCCACGTCAA
Statistics
Matches: 30, Mismatches: 5, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
23 30 1.00
ACGTcount: A:0.21, C:0.19, G:0.28, T:0.33
Consensus pattern (23 bp):
TGCTGACTGGATCTTCTAGAAGC
Found at i:32666281 original size:22 final size:22
Alignment explanation
Indices: 32666253--32666294 Score: 66
Period size: 22 Copynumber: 1.9 Consensus size: 22
32666243 AGCAACCATG
32666253 TTTTTTTTCCTTCTTTTTCTCC
1 TTTTTTTTCCTTCTTTTTCTCC
* *
32666275 TTTTTTTTCTTTTTTTTTCT
1 TTTTTTTTCCTTCTTTTTCT
32666295 TTTCGAACCT
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
22 18 1.00
ACGTcount: A:0.00, C:0.19, G:0.00, T:0.81
Consensus pattern (22 bp):
TTTTTTTTCCTTCTTTTTCTCC
Found at i:32666286 original size:9 final size:10
Alignment explanation
Indices: 32666253--32666297 Score: 56
Period size: 11 Copynumber: 4.4 Consensus size: 10
32666243 AGCAACCATG
32666253 TTTTTTTTCC
1 TTTTTTTTCC
32666263 TTCTTTTTCTCC
1 TT-TTTTT-TCC
32666275 TTTTTTTT-C
1 TTTTTTTTCC
*
32666284 TTTTTTTTTC
1 TTTTTTTTCC
32666294 TTTT
1 TTTT
32666298 CGAACCTTTT
Statistics
Matches: 32, Mismatches: 0, Indels: 6
0.84 0.00 0.16
Matches are distributed among these distances:
9 9 0.28
10 8 0.25
11 10 0.31
12 5 0.16
ACGTcount: A:0.00, C:0.18, G:0.00, T:0.82
Consensus pattern (10 bp):
TTTTTTTTCC
Found at i:32666289 original size:10 final size:10
Alignment explanation
Indices: 32666253--32666297 Score: 54
Period size: 10 Copynumber: 4.4 Consensus size: 10
32666243 AGCAACCATG
*
32666253 TTTTTTTTCC
1 TTTTTTTTTC
*
32666263 TTCTTTTTCTC
1 TT-TTTTTTTC
*
32666274 CTTTTTTTTC
1 TTTTTTTTTC
32666284 TTTTTTTTTC
1 TTTTTTTTTC
32666294 TTTT
1 TTTT
32666298 CGAACCTTTT
Statistics
Matches: 29, Mismatches: 5, Indels: 2
0.81 0.14 0.06
Matches are distributed among these distances:
10 22 0.76
11 7 0.24
ACGTcount: A:0.00, C:0.18, G:0.00, T:0.82
Consensus pattern (10 bp):
TTTTTTTTTC
Found at i:32666316 original size:37 final size:35
Alignment explanation
Indices: 32666275--32666386 Score: 135
Period size: 37 Copynumber: 3.2 Consensus size: 35
32666265 CTTTTTCTCC
32666275 TTTTTTTTCTTTTTTTTTCTTTTCGAACCTTTTGC--
1 TTTTTTTTC-TTTTTTTTCTTTT-GAACCTTTTGCTT
*
32666310 TTTTTTTTC--TTTTTT-TTTTGAACTTTTTGCTT
1 TTTTTTTTCTTTTTTTTCTTTTGAACCTTTTGCTT
32666342 TTTTTTTTCTCTTTTTTTCTTTTTGAACCTTTTGCTT
1 TTTTTTTTCT-TTTTTTTC-TTTTGAACCTTTTGCTT
*
32666379 TTTGTTTT
1 TTTTTTTT
32666387 GCTGTTCGAA
Statistics
Matches: 67, Mismatches: 3, Indels: 12
0.82 0.04 0.15
Matches are distributed among these distances:
30 10 0.15
31 4 0.06
32 15 0.22
35 15 0.22
37 23 0.34
ACGTcount: A:0.05, C:0.13, G:0.06, T:0.75
Consensus pattern (35 bp):
TTTTTTTTCTTTTTTTTCTTTTGAACCTTTTGCTT
Found at i:32666328 original size:21 final size:21
Alignment explanation
Indices: 32666304--32666365 Score: 72
Period size: 21 Copynumber: 3.0 Consensus size: 21
32666294 TTTTCGAACC
32666304 TTTTGCTTTTTTTTCTTTTTT
1 TTTTGCTTTTTTTTCTTTTTT
*** *
32666325 TTTTGAACTTTTTGCTTTTTT
1 TTTTGCTTTTTTTTCTTTTTT
32666346 TTTT-CTCTTTTTTTCTTTTT
1 TTTTGCT-TTTTTTTCTTTTT
32666366 GAACCTTTTG
Statistics
Matches: 32, Mismatches: 8, Indels: 2
0.76 0.19 0.05
Matches are distributed among these distances:
21 32 1.00
ACGTcount: A:0.03, C:0.11, G:0.05, T:0.81
Consensus pattern (21 bp):
TTTTGCTTTTTTTTCTTTTTT
Found at i:32666340 original size:30 final size:32
Alignment explanation
Indices: 32666277--32666381 Score: 115
Period size: 33 Copynumber: 3.2 Consensus size: 32
32666267 TTTTCTCCTT
*
32666277 TTTTTTCTTTTTTTTTCTTTTCGAACCTTTTGC
1 TTTTTT-TTCTTTTTTCTTTTCGAACCTTTTGC
*
32666310 TTTTTTTTCTTTTTT-TTTT-GAACTTTTTGC
1 TTTTTTTTCTTTTTTCTTTTCGAACCTTTTGC
*
32666340 TTTTTTTTTTCTCTTTTTTTCTTTTTGAACCTTTTGC
1 ---TTTTTTT-TC-TTTTTTCTTTTCGAACCTTTTGC
32666377 TTTTT
1 TTTTT
32666382 GTTTTGCTGT
Statistics
Matches: 62, Mismatches: 3, Indels: 13
0.79 0.04 0.17
Matches are distributed among these distances:
30 10 0.16
31 4 0.06
32 8 0.13
33 13 0.21
34 7 0.11
35 6 0.10
36 4 0.06
37 10 0.16
ACGTcount: A:0.06, C:0.14, G:0.06, T:0.74
Consensus pattern (32 bp):
TTTTTTTTCTTTTTTCTTTTCGAACCTTTTGC
Found at i:32666386 original size:21 final size:20
Alignment explanation
Indices: 32666320--32666387 Score: 63
Period size: 20 Copynumber: 3.5 Consensus size: 20
32666310 TTTTTTTTCT
*
32666320 TTTTTTTTTGAACTTTTTGC
1 TTTTTTTTTGAACCTTTTGC
*
32666340 TTTTTTTTT--TCTCTTTT--
1 TTTTTTTTTGAAC-CTTTTGC
*
32666357 TTTCTTTTTGAACCTTTTGC
1 TTTTTTTTTGAACCTTTTGC
32666377 TTTTTGTTTTG
1 TTTTT-TTTTG
32666388 CTGTTCGAAC
Statistics
Matches: 37, Mismatches: 5, Indels: 11
0.70 0.09 0.21
Matches are distributed among these distances:
17 8 0.22
18 6 0.16
19 5 0.14
20 13 0.35
21 5 0.14
ACGTcount: A:0.06, C:0.12, G:0.09, T:0.74
Consensus pattern (20 bp):
TTTTTTTTTGAACCTTTTGC
Found at i:32666545 original size:32 final size:32
Alignment explanation
Indices: 32666505--32666568 Score: 119
Period size: 32 Copynumber: 2.0 Consensus size: 32
32666495 CCAATCGAAT
32666505 AAGCAAGATAAAAAATTGATGCAAATTCTACC
1 AAGCAAGATAAAAAATTGATGCAAATTCTACC
*
32666537 AAGCAAGATAAAAATTTGATGCAAATTCTACC
1 AAGCAAGATAAAAAATTGATGCAAATTCTACC
32666569 CCCTCACTTA
Statistics
Matches: 31, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
32 31 1.00
ACGTcount: A:0.48, C:0.16, G:0.12, T:0.23
Consensus pattern (32 bp):
AAGCAAGATAAAAAATTGATGCAAATTCTACC
Found at i:32666844 original size:24 final size:23
Alignment explanation
Indices: 32666817--32666866 Score: 64
Period size: 23 Copynumber: 2.1 Consensus size: 23
32666807 AAATGCCAAA
32666817 AATAAAAATAAGTAAAAATAAAGT
1 AATAAAAATAA-TAAAAATAAAGT
* * *
32666841 AATATAAATAATCAAAATAAATT
1 AATAAAAATAATAAAAATAAAGT
32666864 AAT
1 AAT
32666867 GACGAAATAT
Statistics
Matches: 23, Mismatches: 3, Indels: 1
0.85 0.11 0.04
Matches are distributed among these distances:
23 13 0.57
24 10 0.43
ACGTcount: A:0.68, C:0.02, G:0.04, T:0.26
Consensus pattern (23 bp):
AATAAAAATAATAAAAATAAAGT
Found at i:32674728 original size:18 final size:19
Alignment explanation
Indices: 32674702--32674737 Score: 56
Period size: 18 Copynumber: 1.9 Consensus size: 19
32674692 AATGACTTTG
32674702 TTATATTGTT-TGTGTTCT
1 TTATATTGTTATGTGTTCT
*
32674720 TTATTTTGTTATGTGTTC
1 TTATATTGTTATGTGTTC
32674738 CGATAATGAT
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
18 9 0.56
19 7 0.44
ACGTcount: A:0.11, C:0.06, G:0.17, T:0.67
Consensus pattern (19 bp):
TTATATTGTTATGTGTTCT
Found at i:32687899 original size:24 final size:24
Alignment explanation
Indices: 32687838--32687900 Score: 90
Period size: 24 Copynumber: 2.6 Consensus size: 24
32687828 TAGACTAATA
* *
32687838 AGAGTTTGACTCAAACAAATAAAT
1 AGAGTTTAACTGAAACAAATAAAT
* *
32687862 AGAGTTTAATTGAAACAATTAAAT
1 AGAGTTTAACTGAAACAAATAAAT
32687886 AGAGTTTAACTGAAA
1 AGAGTTTAACTGAAA
32687901 GATTATTTCT
Statistics
Matches: 34, Mismatches: 5, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
24 34 1.00
ACGTcount: A:0.49, C:0.08, G:0.14, T:0.29
Consensus pattern (24 bp):
AGAGTTTAACTGAAACAAATAAAT
Found at i:32689866 original size:24 final size:24
Alignment explanation
Indices: 32689839--32689937 Score: 171
Period size: 24 Copynumber: 4.1 Consensus size: 24
32689829 TGTTTGACTC
*
32689839 AAACAAATAAACAAAGTTTAATTG
1 AAACAAATAAACAGAGTTTAATTG
*
32689863 AAACAAATAAATAGAGTTTAATTG
1 AAACAAATAAACAGAGTTTAATTG
32689887 AAACAAATAAACAGAGTTTAATTG
1 AAACAAATAAACAGAGTTTAATTG
*
32689911 AAACAAATAAACAGAGTTTAACTG
1 AAACAAATAAACAGAGTTTAATTG
32689935 AAA
1 AAA
32689938 GATTATTTCT
Statistics
Matches: 71, Mismatches: 4, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
24 71 1.00
ACGTcount: A:0.57, C:0.08, G:0.11, T:0.24
Consensus pattern (24 bp):
AAACAAATAAACAGAGTTTAATTG
Found at i:32695902 original size:33 final size:33
Alignment explanation
Indices: 32695865--32695975 Score: 123
Period size: 33 Copynumber: 3.4 Consensus size: 33
32695855 GCCCTAACAA
* * * * *
32695865 ATGTTCCAATGAATGATGAAACTACCCTGAGAG
1 ATGTTCCAATCAATGATGAAGCTGCACTGATAG
* *
32695898 ATGTTCGAATCAATGATGAAGTTGCACTGATAG
1 ATGTTCCAATCAATGATGAAGCTGCACTGATAG
* * * *
32695931 ATGTTCCAATTATTGATGAAGCGGCGCTGATAG
1 ATGTTCCAATCAATGATGAAGCTGCACTGATAG
32695964 ATGTTCCAATCA
1 ATGTTCCAATCA
32695976 CTTATGTAGA
Statistics
Matches: 64, Mismatches: 14, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
33 64 1.00
ACGTcount: A:0.32, C:0.16, G:0.23, T:0.29
Consensus pattern (33 bp):
ATGTTCCAATCAATGATGAAGCTGCACTGATAG
Found at i:32697102 original size:17 final size:17
Alignment explanation
Indices: 32697057--32697093 Score: 74
Period size: 17 Copynumber: 2.2 Consensus size: 17
32697047 ATCAAGTTAG
32697057 GATGATAAAATAGGTAA
1 GATGATAAAATAGGTAA
32697074 GATGATAAAATAGGTAA
1 GATGATAAAATAGGTAA
32697091 GAT
1 GAT
32697094 TTTCAAATAA
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
17 20 1.00
ACGTcount: A:0.51, C:0.00, G:0.24, T:0.24
Consensus pattern (17 bp):
GATGATAAAATAGGTAA
Found at i:32698244 original size:33 final size:33
Alignment explanation
Indices: 32698206--32698338 Score: 110
Period size: 33 Copynumber: 4.0 Consensus size: 33
32698196 AGTTGAACAA
* *
32698206 AATGATGAAGTTGCCTCGAGAAATGTTCCAATG
1 AATGATGAAGTTGCCTCGAGAGATGTTCCAATC
** * * *
32698239 AATGATGAAACTGCCTCAAGAGATATTCGAATC
1 AATGATGAAGTTGCCTCGAGAGATGTTCCAATC
*
32698272 AATTG-TGAAGTTGCACT-GATAGATGTTCCAATC
1 AA-TGATGAAGTTGC-CTCGAGAGATGTTCCAATC
* ** *
32698305 ATTGATGAAGCGGCGCT-GATAGATGTTCCAATC
1 AATGATGAAGTTGC-CTCGAGAGATGTTCCAATC
32698338 A
1 A
32698339 CTTATGTAGA
Statistics
Matches: 80, Mismatches: 17, Indels: 6
0.78 0.17 0.06
Matches are distributed among these distances:
32 2 0.03
33 74 0.93
34 4 0.05
ACGTcount: A:0.33, C:0.17, G:0.23, T:0.28
Consensus pattern (33 bp):
AATGATGAAGTTGCCTCGAGAGATGTTCCAATC
Found at i:32700035 original size:375 final size:374
Alignment explanation
Indices: 32699340--32700092 Score: 1299
Period size: 375 Copynumber: 2.0 Consensus size: 374
32699330 TTTTAGTTTA
* * * *
32699340 TATTTGTCCCCACCTATGTTCGGTGTGCAAAAGAGTTTATAGCAAATTAACCTTGAGGATACACT
1 TATTCGTCCCCACCTATGTTCGGTGTGCAAAAGAGTTTATAGCAAAGTAACCTTGAGAAAACACT
* *
32699405 AAAGACGATGACTATTTGCATTTTTCACTAACGAGAATAGTATACTAAGCACTGAGCAATGAATA
66 AAAGACGATGACTATTTGCATTTTTCACTAACGAGAATAGTACACTAAGCACTGAGCAATAAATA
* * *
32699470 AAAAAAACCTCAATTTCTACAAAGAATTTATGAAGTAACTCTTTATAGAATAATATAATAATATT
131 AAAAAAAACTCAATTTCTACAAAGAATTTATGAAATAACTCTTTATAGAACAATATAATAATATT
32699535 AAAAAATGAGGAAGGATAGAAAGAATTTTTTGAGCTTGTTGTTGTGATAATTTCCAAATGAAATC
196 AAAAAATGAGGAAGGATAGAAAGAATTTTTTGAGCTTGTTGTTGTGATAATTTCCAAATGAAATC
* * *
32699600 TCATTTCTATTTATAAGAATTTTCATGTCTTTTCATAGAGACATCTTTTAATAGGTGTTTTTCTG
261 TCATTTCTATTTATAAGAATTTTCATATATTTTCATAGAGACATATTTTAATAGGTGTTTTTCTG
32699665 AAAAATAACATTTTTAAAAACACATATAATTATTCATTTAATATTATAAC
326 -AAAATAACATTTTTAAAAACACATATAATTATTCATTTAATATTATAAC
* *
32699715 TATTCGTCCCCACCTATGTTCGGTGTGCAACAGAGTTTCTAGCAAAGTAACCTTGAGAAAACACT
1 TATTCGTCCCCACCTATGTTCGGTGTGCAAAAGAGTTTATAGCAAAGTAACCTTGAGAAAACACT
* * * *
32699780 GAAGACGATGACTATTTGCGTTTTTCACTGACGAGAATAGTCCACTAAGCACTGAGCAATAAATA
66 AAAGACGATGACTATTTGCATTTTTCACTAACGAGAATAGTACACTAAGCACTGAGCAATAAATA
32699845 AAAAAAAACTCAATTTCTACAAAGAATTTATGAAATAACTCTTTATAGAACAATATAATAATATT
131 AAAAAAAACTCAATTTCTACAAAGAATTTATGAAATAACTCTTTATAGAACAATATAATAATATT
32699910 AAAAAATGAGGAAGGATAGAAAGAATTTTTTGAGCTTGTTGTTGTGATAATTTCCAAATGAAATC
196 AAAAAATGAGGAAGGATAGAAAGAATTTTTTGAGCTTGTTGTTGTGATAATTTCCAAATGAAATC
* *
32699975 TCATTTCTATTTATAGGAATTTTCATATATTTTCATAGAGACATATTTTAATATGTGTTTTTCTG
261 TCATTTCTATTTATAAGAATTTTCATATATTTTCATAGAGACATATTTTAATAGGTGTTTTTCTG
* *
32700040 AAAATAATATTTTTAAAAAGACATATAATTATTCATTTAATATTATAAC
326 AAAATAACATTTTTAAAAACACATATAATTATTCATTTAATATTATAAC
32700089 TATT
1 TATT
32700093 AAAGTAATAT
Statistics
Matches: 356, Mismatches: 22, Indels: 1
0.94 0.06 0.00
Matches are distributed among these distances:
374 51 0.14
375 305 0.86
ACGTcount: A:0.39, C:0.13, G:0.13, T:0.36
Consensus pattern (374 bp):
TATTCGTCCCCACCTATGTTCGGTGTGCAAAAGAGTTTATAGCAAAGTAACCTTGAGAAAACACT
AAAGACGATGACTATTTGCATTTTTCACTAACGAGAATAGTACACTAAGCACTGAGCAATAAATA
AAAAAAAACTCAATTTCTACAAAGAATTTATGAAATAACTCTTTATAGAACAATATAATAATATT
AAAAAATGAGGAAGGATAGAAAGAATTTTTTGAGCTTGTTGTTGTGATAATTTCCAAATGAAATC
TCATTTCTATTTATAAGAATTTTCATATATTTTCATAGAGACATATTTTAATAGGTGTTTTTCTG
AAAATAACATTTTTAAAAACACATATAATTATTCATTTAATATTATAAC
Found at i:32702090 original size:25 final size:26
Alignment explanation
Indices: 32702020--32702084 Score: 96
Period size: 26 Copynumber: 2.5 Consensus size: 26
32702010 AATTTAGTAG
*
32702020 TTAGTAGGTGAAAGATCAAGAGTTTT
1 TTAGTAGGTGAAAGATCAAGAGATTT
*
32702046 TTAGTAGATGAAAGATCAAGA-ATTT
1 TTAGTAGGTGAAAGATCAAGAGATTT
*
32702071 TTAGTGGGTGAAAG
1 TTAGTAGGTGAAAG
32702085 GCCAAGGGTC
Statistics
Matches: 35, Mismatches: 4, Indels: 1
0.88 0.10 0.03
Matches are distributed among these distances:
25 15 0.43
26 20 0.57
ACGTcount: A:0.37, C:0.03, G:0.28, T:0.32
Consensus pattern (26 bp):
TTAGTAGGTGAAAGATCAAGAGATTT
Found at i:32706456 original size:25 final size:26
Alignment explanation
Indices: 32706386--32706450 Score: 114
Period size: 26 Copynumber: 2.5 Consensus size: 26
32706376 AATTTAGTAG
32706386 TTAGTAGGTGAAAGATCAAGAGTTTT
1 TTAGTAGGTGAAAGATCAAGAGTTTT
*
32706412 TTAGTAGATGAAAGATCAAGAG-TTT
1 TTAGTAGGTGAAAGATCAAGAGTTTT
32706437 TTAGTAGGTGAAAG
1 TTAGTAGGTGAAAG
32706451 GCCAAGGGTC
Statistics
Matches: 37, Mismatches: 2, Indels: 1
0.93 0.05 0.03
Matches are distributed among these distances:
25 16 0.43
26 21 0.57
ACGTcount: A:0.37, C:0.03, G:0.28, T:0.32
Consensus pattern (26 bp):
TTAGTAGGTGAAAGATCAAGAGTTTT
Found at i:32708682 original size:24 final size:24
Alignment explanation
Indices: 32708655--32708727 Score: 137
Period size: 24 Copynumber: 3.0 Consensus size: 24
32708645 TTTGACTTAG
32708655 ACAAATAAATAGAGTTTAATTGAA
1 ACAAATAAATAGAGTTTAATTGAA
32708679 ACAAATAAATAGAGTTTAATTGAA
1 ACAAATAAATAGAGTTTAATTGAA
*
32708703 ACAAATAAACAGAGTTTAATTGAA
1 ACAAATAAATAGAGTTTAATTGAA
32708727 A
1 A
32708728 GATTATTTCT
Statistics
Matches: 48, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
24 48 1.00
ACGTcount: A:0.55, C:0.05, G:0.12, T:0.27
Consensus pattern (24 bp):
ACAAATAAATAGAGTTTAATTGAA
Found at i:32715085 original size:41 final size:41
Alignment explanation
Indices: 32715034--32715116 Score: 123
Period size: 41 Copynumber: 2.0 Consensus size: 41
32715024 CTTTAAGGAT
*
32715034 TTTTTTGGTAAATTTTCTGA-TTCATTCCTATTTTAAATATA
1 TTTTTAGGTAAATTTTCTGACTT-ATTCCTATTTTAAATATA
* *
32715075 TTTTTAGGTAAATTTTTTGACTTTTTCCTATTTTAAATATA
1 TTTTTAGGTAAATTTTCTGACTTATTCCTATTTTAAATATA
32715116 T
1 T
32715117 ACCAATGTGC
Statistics
Matches: 38, Mismatches: 3, Indels: 2
0.88 0.07 0.05
Matches are distributed among these distances:
41 36 0.95
42 2 0.05
ACGTcount: A:0.27, C:0.08, G:0.07, T:0.58
Consensus pattern (41 bp):
TTTTTAGGTAAATTTTCTGACTTATTCCTATTTTAAATATA
Found at i:32716343 original size:33 final size:33
Alignment explanation
Indices: 32716306--32716385 Score: 106
Period size: 33 Copynumber: 2.4 Consensus size: 33
32716296 CTGTCCCGAG
* **
32716306 AGATGTTCGAATCAATGATGAAGTTGCACTGAT
1 AGATGTTCCAATCAATGATGAAGCGGCACTGAT
* * *
32716339 AGATGTTCCTATCATTGATGAAGCGGCGCTGAT
1 AGATGTTCCAATCAATGATGAAGCGGCACTGAT
32716372 AGATGTTCCAATCA
1 AGATGTTCCAATCA
32716386 CTTATGTAGA
Statistics
Matches: 40, Mismatches: 7, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
33 40 1.00
ACGTcount: A:0.30, C:0.16, G:0.24, T:0.30
Consensus pattern (33 bp):
AGATGTTCCAATCAATGATGAAGCGGCACTGAT
Found at i:32723039 original size:33 final size:33
Alignment explanation
Indices: 32722979--32723109 Score: 106
Period size: 33 Copynumber: 4.0 Consensus size: 33
32722969 GAGCCAAATA
* *
32722979 GAATGATGAAGCAGTC-CTGAGAAATGTTCCAAT
1 GAATGATGAAGCTG-CACTGAGAGATGTTCCAAT
* **
32723012 GAATGATGAAACTGC-CTCGAGAGATGTTTGAAT
1 GAATGATGAAGCTGCACT-GAGAGATGTTCCAAT
* * * *
32723045 CAGTGATGAAGTTGCACTGATAGATGTTCCAAT
1 GAATGATGAAGCTGCACTGAGAGATGTTCCAAT
* * * *
32723078 -ATTGATGAAGCGGCGCTGATAGATGTTCCAAT
1 GAATGATGAAGCTGCACTGAGAGATGTTCCAAT
32723110 CACTTATGAT
Statistics
Matches: 80, Mismatches: 16, Indels: 5
0.79 0.16 0.05
Matches are distributed among these distances:
32 31 0.39
33 47 0.59
34 2 0.03
ACGTcount: A:0.32, C:0.15, G:0.26, T:0.27
Consensus pattern (33 bp):
GAATGATGAAGCTGCACTGAGAGATGTTCCAAT
Found at i:32723087 original size:32 final size:32
Alignment explanation
Indices: 32723048--32723109 Score: 97
Period size: 32 Copynumber: 1.9 Consensus size: 32
32723038 TTTGAATCAG
**
32723048 TGATGAAGTTGCACTGATAGATGTTCCAATAT
1 TGATGAAGCGGCACTGATAGATGTTCCAATAT
*
32723080 TGATGAAGCGGCGCTGATAGATGTTCCAAT
1 TGATGAAGCGGCACTGATAGATGTTCCAAT
32723110 CACTTATGAT
Statistics
Matches: 27, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
32 27 1.00
ACGTcount: A:0.29, C:0.15, G:0.26, T:0.31
Consensus pattern (32 bp):
TGATGAAGCGGCACTGATAGATGTTCCAATAT
Found at i:32728403 original size:33 final size:33
Alignment explanation
Indices: 32728340--32728403 Score: 92
Period size: 33 Copynumber: 1.9 Consensus size: 33
32728330 ATGATATAGT
*
32728340 TGCCTCGAGAAATGTTCCAATGAATGATGAAAC
1 TGCCTCGAGAAATGTTCCAATCAATGATGAAAC
* * *
32728373 TGCCTCGAGAGATGTTCGAATCAATTATGAA
1 TGCCTCGAGAAATGTTCCAATCAATGATGAA
32728404 GTTGCACTGA
Statistics
Matches: 27, Mismatches: 4, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
33 27 1.00
ACGTcount: A:0.34, C:0.17, G:0.22, T:0.27
Consensus pattern (33 bp):
TGCCTCGAGAAATGTTCCAATCAATGATGAAAC
Found at i:32728419 original size:33 final size:33
Alignment explanation
Indices: 32728382--32728467 Score: 95
Period size: 33 Copynumber: 2.6 Consensus size: 33
32728372 CTGCCTCGAG
* *
32728382 AGATGTTCGAATCAATTATGAAGTTG-CACTGAT
1 AGATGTTCCAATCAATTATGAAG-CGACACTGAT
* *
32728415 AGATGCTCCAATC-ATTGATGAAGCGACGCTGAT
1 AGATGTTCCAATCAATT-ATGAAGCGACACTGAT
*
32728448 AGATGTTCCAATCACTTATG
1 AGATGTTCCAATCAATTATG
32728468 TAGATAATTT
Statistics
Matches: 44, Mismatches: 6, Indels: 6
0.79 0.11 0.11
Matches are distributed among these distances:
32 4 0.09
33 38 0.86
34 2 0.05
ACGTcount: A:0.31, C:0.17, G:0.21, T:0.30
Consensus pattern (33 bp):
AGATGTTCCAATCAATTATGAAGCGACACTGAT
Found at i:32738386 original size:29 final size:29
Alignment explanation
Indices: 32738342--32738414 Score: 92
Period size: 29 Copynumber: 2.5 Consensus size: 29
32738332 ATCTTTTCTC
* * *
32738342 CCCTAGCTGTCATTCACCCTTTCTATCCT
1 CCCTAGCCGTCGTTCACCCTTTCTACCCT
* *
32738371 TCTTAGCCGTCGTTCACCCTTTCTACCCT
1 CCCTAGCCGTCGTTCACCCTTTCTACCCT
*
32738400 CCCTAGTCGTCGTTC
1 CCCTAGCCGTCGTTC
32738415 GCTGCAACAA
Statistics
Matches: 36, Mismatches: 8, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
29 36 1.00
ACGTcount: A:0.11, C:0.41, G:0.11, T:0.37
Consensus pattern (29 bp):
CCCTAGCCGTCGTTCACCCTTTCTACCCT
Found at i:32742996 original size:24 final size:24
Alignment explanation
Indices: 32742957--32743027 Score: 88
Period size: 24 Copynumber: 3.0 Consensus size: 24
32742947 TGACTCAAAT
* *
32742957 AAATAAACAGAATTTAATTGAAAC
1 AAATAAATAGAGTTTAATTGAAAC
* *
32742981 AAATAAATATAGTTTAATTAAAAC
1 AAATAAATAGAGTTTAATTGAAAC
* *
32743005 AATTAAATAGAGTTTAACTGAAA
1 AAATAAATAGAGTTTAATTGAAA
32743028 AATTATTTCT
Statistics
Matches: 39, Mismatches: 8, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
24 39 1.00
ACGTcount: A:0.56, C:0.06, G:0.08, T:0.30
Consensus pattern (24 bp):
AAATAAATAGAGTTTAATTGAAAC
Found at i:32749008 original size:33 final size:33
Alignment explanation
Indices: 32748971--32749091 Score: 98
Period size: 33 Copynumber: 3.7 Consensus size: 33
32748961 TGATCAGGCA
* *
32748971 GCCCTGACAAATTTTCCAATGAATGATGAAACT
1 GCCCTGACAAATGTTCCAATCAATGATGAAACT
* * * **
32749004 GCCCTGAGAGATGTTCGAATCAATGATGAAGTT
1 GCCCTGACAAATGTTCCAATCAATGATGAAACT
* * * * * *
32749037 GCGCTGATAGATGTTCCAATCATTGATGAAGCG
1 GCCCTGACAAATGTTCCAATCAATGATGAAACT
* * *
32749070 GCGCTGATAGATGTTCCAATCA
1 GCCCTGACAAATGTTCCAATCA
32749092 CGTATGTAGA
Statistics
Matches: 75, Mismatches: 13, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
33 75 1.00
ACGTcount: A:0.31, C:0.19, G:0.23, T:0.27
Consensus pattern (33 bp):
GCCCTGACAAATGTTCCAATCAATGATGAAACT
Found at i:32749974 original size:17 final size:17
Alignment explanation
Indices: 32749952--32750001 Score: 51
Period size: 17 Copynumber: 3.4 Consensus size: 17
32749942 TAATTGAAGC
32749952 AACTAAGCAAGCAAAGA
1 AACTAAGCAAGCAAAGA
32749969 AACTAA-C-AGC-----
1 AACTAAGCAAGCAAAGA
32749979 AACTAAGCAAGCAAAGA
1 AACTAAGCAAGCAAAGA
32749996 AACTAA
1 AACTAA
32750002 CCCGTATATA
Statistics
Matches: 26, Mismatches: 0, Indels: 14
0.65 0.00 0.35
Matches are distributed among these distances:
10 6 0.23
11 1 0.04
12 3 0.12
15 3 0.12
16 1 0.04
17 12 0.46
ACGTcount: A:0.58, C:0.20, G:0.14, T:0.08
Consensus pattern (17 bp):
AACTAAGCAAGCAAAGA
Found at i:32749979 original size:27 final size:27
Alignment explanation
Indices: 32749949--32750002 Score: 108
Period size: 27 Copynumber: 2.0 Consensus size: 27
32749939 AGATAATTGA
32749949 AGCAACTAAGCAAGCAAAGAAACTAAC
1 AGCAACTAAGCAAGCAAAGAAACTAAC
32749976 AGCAACTAAGCAAGCAAAGAAACTAAC
1 AGCAACTAAGCAAGCAAAGAAACTAAC
32750003 CCGTATATAA
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
27 27 1.00
ACGTcount: A:0.56, C:0.22, G:0.15, T:0.07
Consensus pattern (27 bp):
AGCAACTAAGCAAGCAAAGAAACTAAC
Found at i:32750226 original size:17 final size:17
Alignment explanation
Indices: 32750204--32750236 Score: 66
Period size: 17 Copynumber: 1.9 Consensus size: 17
32750194 TCAAGTTAGG
32750204 ATGATAAAATAGGTAAA
1 ATGATAAAATAGGTAAA
32750221 ATGATAAAATAGGTAA
1 ATGATAAAATAGGTAA
32750237 GATTTCCAAA
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
17 16 1.00
ACGTcount: A:0.58, C:0.00, G:0.18, T:0.24
Consensus pattern (17 bp):
ATGATAAAATAGGTAAA
Found at i:32751390 original size:33 final size:33
Alignment explanation
Indices: 32751352--32751460 Score: 123
Period size: 33 Copynumber: 3.3 Consensus size: 33
32751342 AGTTGAACAG
* *
32751352 AATGATGAAGTTGCCTCGAGAAATGTTCCAATG
1 AATGATGAAGTTGCCTCGAGAGATGTTCCAATC
* *
32751385 AATGATGGAA-CTGCCTCGAGAGATGTTCGAATC
1 AATGAT-GAAGTTGCCTCGAGAGATGTTCCAATC
* *
32751418 AATTATGAAGTTGCACT-GATAGATGTTCCAATC
1 AATGATGAAGTTGC-CTCGAGAGATGTTCCAATC
*
32751451 ATTGATGAAG
1 AATGATGAAG
32751461 CGACGCTGAT
Statistics
Matches: 63, Mismatches: 10, Indels: 6
0.80 0.13 0.08
Matches are distributed among these distances:
32 3 0.05
33 55 0.87
34 5 0.08
ACGTcount: A:0.33, C:0.15, G:0.24, T:0.28
Consensus pattern (33 bp):
AATGATGAAGTTGCCTCGAGAGATGTTCCAATC
Found at i:32752803 original size:29 final size:29
Alignment explanation
Indices: 32752771--32752859 Score: 82
Period size: 29 Copynumber: 3.2 Consensus size: 29
32752761 TTTTCATGTC
32752771 TTTTCATAGAGACATCTTTTAATAGGTGT
1 TTTTCATAGAGACATCTTTTAATAGGTGT
* * *
32752800 TTTTCATTTACAGGA-A--TTTTCAT--GT-C
1 TTTTCA--TAGA-GACATCTTTTAATAGGTGT
32752826 TTTTCATAGAGACATCTTTTAATAGGTGT
1 TTTTCATAGAGACATCTTTTAATAGGTGT
32752855 TTTTC
1 TTTTC
32752860 TGAAAAATAA
Statistics
Matches: 45, Mismatches: 6, Indels: 18
0.65 0.09 0.26
Matches are distributed among these distances:
23 2 0.04
24 4 0.09
26 12 0.27
27 2 0.04
28 2 0.04
29 17 0.38
31 4 0.09
32 2 0.04
ACGTcount: A:0.25, C:0.12, G:0.15, T:0.48
Consensus pattern (29 bp):
TTTTCATAGAGACATCTTTTAATAGGTGT
Found at i:32752815 original size:55 final size:55
Alignment explanation
Indices: 32752745--32752859 Score: 214
Period size: 55 Copynumber: 2.1 Consensus size: 55
32752735 TGAAATCTCA
*
32752745 TTTTT-ATTTATAGGAATTTTCATGTCTTTTCATAGAGACATCTTTTAATAGGTG
1 TTTTTCATTTACAGGAATTTTCATGTCTTTTCATAGAGACATCTTTTAATAGGTG
32752799 TTTTTCATTTACAGGAATTTTCATGTCTTTTCATAGAGACATCTTTTAATAGGTG
1 TTTTTCATTTACAGGAATTTTCATGTCTTTTCATAGAGACATCTTTTAATAGGTG
32752854 TTTTTC
1 TTTTTC
32752860 TGAAAAATAA
Statistics
Matches: 59, Mismatches: 1, Indels: 1
0.97 0.02 0.02
Matches are distributed among these distances:
54 5 0.08
55 54 0.92
ACGTcount: A:0.24, C:0.11, G:0.14, T:0.50
Consensus pattern (55 bp):
TTTTTCATTTACAGGAATTTTCATGTCTTTTCATAGAGACATCTTTTAATAGGTG
Found at i:32763463 original size:42 final size:41
Alignment explanation
Indices: 32763413--32763497 Score: 125
Period size: 41 Copynumber: 2.0 Consensus size: 41
32763403 ACCTTTAAGG
* *
32763413 ATTTTTTAGGTAAAATTTTTGATTCATTCCTTTTTTAAATAT
1 ATTTTTTAGGT-AAATTTCTGATTCATTCCTATTTTAAATAT
**
32763455 ATTTTTTAGGTAAATTTCTGATTTTTTCCTATTTTAAATAT
1 ATTTTTTAGGTAAATTTCTGATTCATTCCTATTTTAAATAT
32763496 AT
1 AT
32763498 ACCAATGTGC
Statistics
Matches: 39, Mismatches: 4, Indels: 1
0.89 0.09 0.02
Matches are distributed among these distances:
41 28 0.72
42 11 0.28
ACGTcount: A:0.28, C:0.07, G:0.07, T:0.58
Consensus pattern (41 bp):
ATTTTTTAGGTAAATTTCTGATTCATTCCTATTTTAAATAT
Found at i:32764715 original size:33 final size:33
Alignment explanation
Indices: 32764678--32764757 Score: 97
Period size: 33 Copynumber: 2.4 Consensus size: 33
32764668 CTGTCCCGAG
* **
32764678 AGATGTTCGAATCAACGATGAAGTTGCACTGAT
1 AGATGTTCCAATCAACGATGAAGCGGCACTGAT
* ** *
32764711 AGATGTTCCTATCATTGATGAAGCGGCATTGAT
1 AGATGTTCCAATCAACGATGAAGCGGCACTGAT
32764744 AGATGTTCCAATCA
1 AGATGTTCCAATCA
32764758 CTTATGTAGA
Statistics
Matches: 39, Mismatches: 8, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
33 39 1.00
ACGTcount: A:0.31, C:0.16, G:0.23, T:0.30
Consensus pattern (33 bp):
AGATGTTCCAATCAACGATGAAGCGGCACTGAT
Found at i:32766143 original size:20 final size:20
Alignment explanation
Indices: 32766106--32766145 Score: 53
Period size: 20 Copynumber: 2.0 Consensus size: 20
32766096 TAAAAAGACA
* **
32766106 TATAATTATTCATTTAATAT
1 TATAACTATTCAAGTAATAT
32766126 TATAACTATTCAAGTAATAT
1 TATAACTATTCAAGTAATAT
32766146 AATTTGAATA
Statistics
Matches: 17, Mismatches: 3, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
20 17 1.00
ACGTcount: A:0.42, C:0.07, G:0.03, T:0.47
Consensus pattern (20 bp):
TATAACTATTCAAGTAATAT
Found at i:32772370 original size:33 final size:33
Alignment explanation
Indices: 32772333--32772412 Score: 115
Period size: 33 Copynumber: 2.4 Consensus size: 33
32772323 CTACCCCGAG
* **
32772333 AGATGTTCGAATCAATGATGAAGTTGCATTGAT
1 AGATGTTCCAATCAATGATGAAGCGGCATTGAT
* *
32772366 AGATGTTCCAATCATTGATGAAGCGGCGTTGAT
1 AGATGTTCCAATCAATGATGAAGCGGCATTGAT
32772399 AGATGTTCCAATCA
1 AGATGTTCCAATCA
32772413 CTTATGATGA
Statistics
Matches: 42, Mismatches: 5, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
33 42 1.00
ACGTcount: A:0.31, C:0.14, G:0.24, T:0.31
Consensus pattern (33 bp):
AGATGTTCCAATCAATGATGAAGCGGCATTGAT
Found at i:32778996 original size:33 final size:33
Alignment explanation
Indices: 32778957--32779088 Score: 140
Period size: 33 Copynumber: 4.0 Consensus size: 33
32778947 GAGTCGAATA
*
32778957 GAATGATGAAGTTGCCCCGAGAGATGTTCCAAT
1 GAATGATGAAGCTGCCCCGAGAGATGTTCCAAT
* * * *
32778990 GAATGATAAAGCTACCTCAAGAGATGTTCCAAT
1 GAATGATGAAGCTGCCCCGAGAGATGTTCCAAT
* * *
32779023 GAATGATGAAGCTGCACCGATAAATGTTCCAAT
1 GAATGATGAAGCTGCCCCGAGAGATGTTCCAAT
* * * *
32779056 CATTGATGAAGC-GACCCTGATAGATGTTCCAAT
1 GAATGATGAAGCTG-CCCCGAGAGATGTTCCAAT
32779089 CACTTATGTT
Statistics
Matches: 81, Mismatches: 17, Indels: 2
0.81 0.17 0.02
Matches are distributed among these distances:
32 1 0.01
33 80 0.99
ACGTcount: A:0.34, C:0.19, G:0.22, T:0.25
Consensus pattern (33 bp):
GAATGATGAAGCTGCCCCGAGAGATGTTCCAAT
Found at i:32779081 original size:66 final size:66
Alignment explanation
Indices: 32778957--32779088 Score: 158
Period size: 66 Copynumber: 2.0 Consensus size: 66
32778947 GAGTCGAATA
* * * * *
32778957 GAATGATGAAGTTGCCCCGAGAGATGTTCCAATGAATGATAAAGCTACCTCAAGAGATGTTCCAA
1 GAATGATGAAGCTGCACCGAGAAATGTTCCAATCAATGATAAAGCGACCTCAAGAGATGTTCCAA
32779022 T
66 T
* * * * *
32779023 GAATGATGAAGCTGCACCGATAAATGTTCCAATCATTGATGAAGCGACC-CTGATAGATGTTCCA
1 GAATGATGAAGCTGCACCGAGAAATGTTCCAATCAATGATAAAGCGACCTC-AAGAGATGTTCCA
32779087 AT
65 AT
32779089 CACTTATGTT
Statistics
Matches: 55, Mismatches: 10, Indels: 2
0.82 0.15 0.03
Matches are distributed among these distances:
65 1 0.02
66 54 0.98
ACGTcount: A:0.34, C:0.19, G:0.22, T:0.25
Consensus pattern (66 bp):
GAATGATGAAGCTGCACCGAGAAATGTTCCAATCAATGATAAAGCGACCTCAAGAGATGTTCCAA
T
Found at i:32780076 original size:31 final size:29
Alignment explanation
Indices: 32779993--32780068 Score: 75
Period size: 31 Copynumber: 2.6 Consensus size: 29
32779983 AAATATTAGA
*
32779993 TTTAA-TTATTGTACTTTAATTTGATCAAT
1 TTTAATTTA-TGTACTTTAAATTGATCAAT
* *
32780022 TTTAGTCTT-TATACTTTTTAAATTGATCAAT
1 TTTAAT-TTATGTAC--TTTAAATTGATCAAT
32780053 TTTAATTTATGTACTT
1 TTTAATTTATGTACTT
32780069 GTCAAATTTT
Statistics
Matches: 37, Mismatches: 5, Indels: 10
0.71 0.10 0.19
Matches are distributed among these distances:
29 10 0.27
30 2 0.05
31 25 0.68
ACGTcount: A:0.29, C:0.08, G:0.07, T:0.57
Consensus pattern (29 bp):
TTTAATTTATGTACTTTAAATTGATCAAT
Found at i:32784957 original size:33 final size:32
Alignment explanation
Indices: 32784859--32784957 Score: 82
Period size: 33 Copynumber: 3.1 Consensus size: 32
32784849 TATATGAAAT
32784859 ATTA-ATTTTAAATATTTCTAAATAATTAATATT-A
1 ATTATATTTTAAATA-TT-TAAAT-A-TAATATTAA
* * *
32784893 A-T-TATTATAAA-ATTTAATTAAAATATATAA
1 ATTATATTTTAAATATTTAAATATAATAT-TAA
32784923 ATTATATTTTAAATATTTAAATATAATCATTAA
1 ATTATATTTTAAATATTTAAATATAAT-ATTAA
32784956 AT
1 AT
32784958 ATTTGTTATT
Statistics
Matches: 52, Mismatches: 6, Indels: 15
0.71 0.08 0.21
Matches are distributed among these distances:
28 5 0.10
29 2 0.04
30 6 0.12
31 3 0.06
32 9 0.17
33 24 0.46
34 3 0.06
ACGTcount: A:0.51, C:0.02, G:0.00, T:0.47
Consensus pattern (32 bp):
ATTATATTTTAAATATTTAAATATAATATTAA
Found at i:32787543 original size:5 final size:5
Alignment explanation
Indices: 32787533--32787593 Score: 79
Period size: 5 Copynumber: 12.4 Consensus size: 5
32787523 TAACTCATTT
* * * *
32787533 TTCCC TTCCC TTCCC -TCCC CTCCC CTCCC CTCCC CTCCC TTCCC TTCCC
1 TTCCC TTCCC TTCCC TTCCC TTCCC TTCCC TTCCC TTCCC TTCCC TTCCC
32787582 TTCCC TTCCC TT
1 TTCCC TTCCC TT
32787594 TACTTTAGCA
Statistics
Matches: 54, Mismatches: 1, Indels: 2
0.95 0.02 0.04
Matches are distributed among these distances:
4 4 0.07
5 50 0.93
ACGTcount: A:0.00, C:0.66, G:0.00, T:0.34
Consensus pattern (5 bp):
TTCCC
Found at i:32788569 original size:4 final size:4
Alignment explanation
Indices: 32788562--32788598 Score: 56
Period size: 4 Copynumber: 9.2 Consensus size: 4
32788552 TAGCGTTCGT
* *
32788562 TCGC TCGC TCGC TCGC TCCC TCGC TCGC TCCC TCGC T
1 TCGC TCGC TCGC TCGC TCGC TCGC TCGC TCGC TCGC T
32788599 GGCTGGCTGG
Statistics
Matches: 29, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
4 29 1.00
ACGTcount: A:0.00, C:0.54, G:0.19, T:0.27
Consensus pattern (4 bp):
TCGC
Found at i:32788579 original size:12 final size:12
Alignment explanation
Indices: 32788562--32788598 Score: 65
Period size: 12 Copynumber: 3.1 Consensus size: 12
32788552 TAGCGTTCGT
*
32788562 TCGCTCGCTCGC
1 TCGCTCCCTCGC
32788574 TCGCTCCCTCGC
1 TCGCTCCCTCGC
32788586 TCGCTCCCTCGC
1 TCGCTCCCTCGC
32788598 T
1 T
32788599 GGCTGGCTGG
Statistics
Matches: 24, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
12 24 1.00
ACGTcount: A:0.00, C:0.54, G:0.19, T:0.27
Consensus pattern (12 bp):
TCGCTCCCTCGC
Found at i:32789997 original size:17 final size:17
Alignment explanation
Indices: 32789974--32790098 Score: 135
Period size: 17 Copynumber: 7.3 Consensus size: 17
32789964 CCAAACTCAT
32789974 TTTAAATTTATTTTAAGA
1 TTTAAATTTATTTTAA-A
* *
32789992 -TTAAATTTGTATTAAA
1 TTTAAATTTATTTTAAA
* *
32790008 GTTAAATTTATCTTAAA
1 TTTAAATTTATTTTAAA
32790025 TTTAAATTTATTTTAAA
1 TTTAAATTTATTTTAAA
* * *
32790042 TTTAAATTTAATTTGAG
1 TTTAAATTTATTTTAAA
*
32790059 TTTAAATCTATTTTCAAA
1 TTTAAATTTATTTT-AAA
* *
32790077 TTTAAAATTATTATAAA
1 TTTAAATTTATTTTAAA
32790094 TTTAA
1 TTTAA
32790099 TTAAAATGTC
Statistics
Matches: 89, Mismatches: 16, Indels: 5
0.81 0.15 0.05
Matches are distributed among these distances:
16 1 0.01
17 76 0.85
18 12 0.13
ACGTcount: A:0.42, C:0.02, G:0.04, T:0.52
Consensus pattern (17 bp):
TTTAAATTTATTTTAAA
Found at i:32790120 original size:15 final size:15
Alignment explanation
Indices: 32790097--32790134 Score: 60
Period size: 15 Copynumber: 2.6 Consensus size: 15
32790087 TTATAAATTT
32790097 AATTA-AAATGTCCA
1 AATTACAAATGTCCA
*
32790111 AATTACAAATGTCTA
1 AATTACAAATGTCCA
32790126 AATTACAAA
1 AATTACAAA
32790135 GGACCAATTG
Statistics
Matches: 22, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
14 5 0.23
15 17 0.77
ACGTcount: A:0.53, C:0.13, G:0.05, T:0.29
Consensus pattern (15 bp):
AATTACAAATGTCCA
Found at i:32791417 original size:13 final size:13
Alignment explanation
Indices: 32791399--32791435 Score: 56
Period size: 13 Copynumber: 2.8 Consensus size: 13
32791389 GGTGAGATAT
32791399 GAGAAAGAAAGGA
1 GAGAAAGAAAGGA
*
32791412 GAGAAAGAAAGGG
1 GAGAAAGAAAGGA
*
32791425 GAAAAAGAAAG
1 GAGAAAGAAAG
32791436 TTTTTTTTTA
Statistics
Matches: 22, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
13 22 1.00
ACGTcount: A:0.62, C:0.00, G:0.38, T:0.00
Consensus pattern (13 bp):
GAGAAAGAAAGGA
Found at i:32791948 original size:30 final size:30
Alignment explanation
Indices: 32791914--32792247 Score: 263
Period size: 30 Copynumber: 11.2 Consensus size: 30
32791904 CAAAAATGGT
* *
32791914 ATTTTGACCCCAAAGCTTTCTAAAAATTAC
1 ATTTTAACCCCAAAACTTTCTAAAAATTAC
* * *
32791944 ATTTTGACCCTC-AAAC-TTCTTCAAAATTAT
1 ATTTTAACCC-CAAAACTTTC-TAAAAATTAC
* * * *
32791974 ATTTTAACACCAAAACTTTTTAAATATAAC
1 ATTTTAACCCCAAAACTTTCTAAAAATTAC
* *
32792004 A-TTTAACCCCTAAACTTT-TCCAAAATTAC
1 ATTTTAACCCCAAAACTTTCT-AAAAATTAC
* * *
32792033 ATTTTAACCCTAAAACTTT-TCCAAAATTAT
1 ATTTTAACCCCAAAACTTTCT-AAAAATTAC
* *
32792063 A-TTTAACCCCAAAACTTTTTAGAAATTAC
1 ATTTTAACCCCAAAACTTTCTAAAAATTAC
* * *
32792092 ATTTTAACCCTAAAATGTTTCT-AAAATTAT
1 ATTTTAACCCCAAAA-CTTTCTAAAAATTAC
*
32792122 ATTTTAA-CCTAAAACTTTCTACAAAATTAC
1 ATTTTAACCCCAAAACTTTCTA-AAAATTAC
* * * *
32792152 ATTTTGACCCCTAAAACTCTC-CAAAATTAT
1 ATTTTAACCCC-AAAACTTTCTAAAAATTAC
* * * *
32792182 ATTTTAACCCTAAAACTTTTTGAAAATTAT
1 ATTTTAACCCCAAAACTTTCTAAAAATTAC
* **
32792212 ACTTTAACCTTAAAACTTTCTAAAAATTAC
1 ATTTTAACCCCAAAACTTTCTAAAAATTAC
32792242 ATTTTA
1 ATTTTA
32792248 CCCTCGAACC
Statistics
Matches: 245, Mismatches: 45, Indels: 28
0.77 0.14 0.09
Matches are distributed among these distances:
28 6 0.02
29 63 0.26
30 159 0.65
31 9 0.04
32 8 0.03
ACGTcount: A:0.40, C:0.20, G:0.02, T:0.38
Consensus pattern (30 bp):
ATTTTAACCCCAAAACTTTCTAAAAATTAC
Found at i:32792178 original size:60 final size:59
Alignment explanation
Indices: 32791936--32792251 Score: 288
Period size: 59 Copynumber: 5.3 Consensus size: 59
32791926 AAGCTTTCTA
* * * * **
32791936 AAAATTACATTTTGACCCTCAAACTTCTT-CAAAATTATATTTTAACACC-AAAACTTTTT
1 AAAATTATATTTTAACCCTAAAACTT-TTACAAAATTACATTTTAAC-CCTAAAACTTTCC
* * *
32791995 AAATATAACA-TTTAACCCCT-AAACTTTTCCAAAATTACATTTTAACCCTAAAACTTTTCC
1 AAA-ATTATATTTTAA-CCCTAAAACTTTTACAAAATTACATTTTAACCCTAAAAC-TTTCC
* * * *
32792055 AAAATTATA-TTTAACCCCAAAACTTTTTA-GAAATTACATTTTAACCCTAAAATGTTTCT
1 AAAATTATATTTTAACCCTAAAAC-TTTTACAAAATTACATTTTAACCCTAAAA-CTTTCC
* *
32792114 AAAATTATATTTTAA-CCTAAAACTTTCTACAAAATTACATTTTGACCCCTAAAACTCTCC
1 AAAATTATATTTTAACCCTAAAACTTT-TACAAAATTACATTTT-AACCCTAAAACTTTCC
** * * * *
32792174 AAAATTATATTTTAACCCTAAAACTTTTTGAAAATTATACTTTAACCTTAAAACTTTCTA
1 AAAATTATATTTTAACCCTAAAACTTTTACAAAATTACATTTTAACCCTAAAACTTTC-C
*
32792234 AAAATTACATTTT-ACCCT
1 AAAATTATATTTTAACCCT
32792252 CGAACCTTCT
Statistics
Matches: 216, Mismatches: 27, Indels: 28
0.80 0.10 0.10
Matches are distributed among these distances:
58 10 0.05
59 108 0.50
60 78 0.36
61 20 0.09
ACGTcount: A:0.40, C:0.20, G:0.02, T:0.38
Consensus pattern (59 bp):
AAAATTATATTTTAACCCTAAAACTTTTACAAAATTACATTTTAACCCTAAAACTTTCC
Found at i:32792261 original size:29 final size:28
Alignment explanation
Indices: 32792229--32792311 Score: 78
Period size: 29 Copynumber: 2.9 Consensus size: 28
32792219 CCTTAAAACT
32792229 TTCTAAAAATTACATTTTACCCTCGAACC
1 TTCTAAAAATTACATTTTACCCTCG-ACC
* * **
32792258 TTCT-AAAATTCCATTTTTAACCTCGATT
1 TTCTAAAAATTACA-TTTTACCCTCGACC
*
32792286 TTACCAAAAATTACCATTTTACCCTC
1 TT-CTAAAAATTA-CATTTTACCCTC
32792312 AAATTCTCTA
Statistics
Matches: 43, Mismatches: 7, Indels: 7
0.75 0.12 0.12
Matches are distributed among these distances:
28 11 0.26
29 15 0.35
30 15 0.35
31 2 0.05
ACGTcount: A:0.33, C:0.27, G:0.02, T:0.39
Consensus pattern (28 bp):
TTCTAAAAATTACATTTTACCCTCGACC
Found at i:32792277 original size:59 final size:59
Alignment explanation
Indices: 32791915--32792338 Score: 282
Period size: 59 Copynumber: 7.1 Consensus size: 59
32791905 AAAAATGGTA
* * * *
32791915 TTTTGACCCCAAAGCTTTCTAAAAATTACATTTTGACCCTCAAAC-TTCTTCAAAATTATA-
1 TTTTAACCCTAAAACTTTCTAAAAATTACATTTT-ACCCTCAAACTTTC-T-AAAATTACAT
* * * * *
32791975 TTTTAACACC-AAAACTTTTTAAATATAACATTTAACCC-CTAAACTTTTCCAAAATTACA-
1 TTTTAAC-CCTAAAACTTTCTAAAAATTACATTTTACCCTC-AAAC-TTTCTAAAATTACAT
* * * *
32792034 TTTTAACCCTAAAACTTT-TCCAAAATTATATTTAACCC-CAAAACTTTTTAGAAATTACA-
1 TTTTAACCCTAAAACTTTCT-AAAAATTACATTTTACCCTC-AAACTTTCTA-AAATTACAT
* * * *
32792093 TTTTAACCCTAAAATGTTTCT-AAAATTATATTTTAACCTAAAACTTTCTACAAAATTACAT
1 TTTTAACCCTAAAA-CTTTCTAAAAATTACATTTTACCCTCAAACTTTCT--AAAATTACAT
* * * * * * * *
32792154 TTTGACCCCTAAAACTCTC-CAAAATTATATTTTAACCCTAAAACTTTTTGAAAATTATA-
1 TTTTAACCCTAAAACTTTCTAAAAATTACATTTT-ACCCTCAAACTTTCT-AAAATTACAT
* * * * *
32792213 CTTTAACCTTAAAACTTTCTAAAAATTACATTTTACCCTCGAACCTTCTAAAATTCCAT
1 TTTTAACCCTAAAACTTTCTAAAAATTACATTTTACCCTCAAACTTTCTAAAATTACAT
** * * *
32792272 TTTTAA-CCT-CGATTTTACCAAAAATTACCATTTTACCCTCAAA-TTCTCTAAAATTCCAT
1 TTTTAACCCTAAAACTTT-CTAAAAATTA-CATTTTACCCTCAAACTT-TCTAAAATTACAT
32792331 TTTTAACC
1 TTTTAACC
32792339 TCGATTTCAC
Statistics
Matches: 294, Mismatches: 49, Indels: 42
0.76 0.13 0.11
Matches are distributed among these distances:
57 4 0.01
58 27 0.09
59 158 0.54
60 73 0.25
61 32 0.11
ACGTcount: A:0.38, C:0.22, G:0.02, T:0.38
Consensus pattern (59 bp):
TTTTAACCCTAAAACTTTCTAAAAATTACATTTTACCCTCAAACTTTCTAAAATTACAT
Found at i:32792297 original size:58 final size:59
Alignment explanation
Indices: 32792233--32792435 Score: 286
Period size: 59 Copynumber: 3.5 Consensus size: 59
32792223 AAAACTTTCT
*
32792233 AAAAATTA-CATTTTACCCTCGAACCTTCTAAAATTCCATTTTTAACCTCGATTTTACC
1 AAAAATTACCATTTTACCCTCGAACTTTCTAAAATTCCATTTTTAACCTCGATTTTACC
* *
32792291 AAAAATTACCATTTTACCCTC-AAATTCTCTAAAATTCCATTTTTAACCTCGATTTCACC
1 AAAAATTACCATTTTACCCTCGAACTT-TCTAAAATTCCATTTTTAACCTCGATTTTACC
* * * * * *
32792350 AAAAATTACCATTTTACCCTTGAACTTTCCAAAATCCCCTTTTGACCCT-GATTTTACC
1 AAAAATTACCATTTTACCCTCGAACTTTCTAAAATTCCATTTTTAACCTCGATTTTACC
*
32792408 AAAAATTACCATTTTACCCTCAAACTTT
1 AAAAATTACCATTTTACCCTCGAACTTT
32792436 TCAGAATTCC
Statistics
Matches: 129, Mismatches: 13, Indels: 6
0.87 0.09 0.04
Matches are distributed among these distances:
58 45 0.35
59 80 0.62
60 4 0.03
ACGTcount: A:0.33, C:0.27, G:0.03, T:0.37
Consensus pattern (59 bp):
AAAAATTACCATTTTACCCTCGAACTTTCTAAAATTCCATTTTTAACCTCGATTTTACC
Found at i:32792334 original size:29 final size:27
Alignment explanation
Indices: 32792259--32792340 Score: 74
Period size: 29 Copynumber: 2.8 Consensus size: 27
32792249 CCTCGAACCT
* *
32792259 TCTAAAATTCCATTTTTAACCTCGATTT
1 TCTAAAATTCCA-TTTTAACCTCAATTC
* *
32792287 TACCAAAAATTACCATTTTACCCTCAAATTC
1 T--CTAAAATT-CCATTTTAACCTC-AATTC
32792318 TCTAAAATTCCATTTTTAACCTC
1 TCTAAAATTCCA-TTTTAACCTC
32792341 GATTTCACCA
Statistics
Matches: 43, Mismatches: 6, Indels: 9
0.74 0.10 0.16
Matches are distributed among these distances:
28 4 0.09
29 16 0.37
30 16 0.37
31 7 0.16
ACGTcount: A:0.33, C:0.26, G:0.01, T:0.40
Consensus pattern (27 bp):
TCTAAAATTCCATTTTAACCTCAATTC
Found at i:32792416 original size:117 final size:117
Alignment explanation
Indices: 32792233--32792479 Score: 324
Period size: 117 Copynumber: 2.1 Consensus size: 117
32792223 AAAACTTTCT
* * *
32792233 AAAAATTA-CATTTTACCCTCGAACCTTCTAAAATTCCATTTTTAACCTCGATTTTACCAAAAAT
1 AAAAATTACCATTTTACCCTCGAACCTTCCAAAATCCCATTTTGAACCTCGATTTTACCAAAAAT
* *
32792297 TACCATTTTACCCTCAAA-TTCTCTAAAATTCCATTTTTAACCTCGATTTC-ACC
66 TACCATTTTACCCTCAAACTTCTC-AAAATTCC-CTTTTAACC-CAATTTCAACC
* * * *
32792350 AAAAATTACCATTTTACCCTTGAACTTTCCAAAATCCCCTTTTGACCCT-GATTTTACCAAAAAT
1 AAAAATTACCATTTTACCCTCGAACCTTCCAAAATCCCATTTTGAACCTCGATTTTACCAAAAAT
* * *
32792414 TACCATTTTACCCTCAAACTTTTCAGAATTCCCTTTTGACCCAATTTCAACC
66 TACCATTTTACCCTCAAACTTCTCAAAATTCCCTTTTAACCCAATTTCAACC
32792466 -AAAATTACCATTTT
1 AAAAATTACCATTTT
32792480 GCCCCCGGGA
Statistics
Matches: 115, Mismatches: 12, Indels: 8
0.85 0.09 0.06
Matches are distributed among these distances:
115 20 0.17
116 10 0.09
117 48 0.42
118 37 0.32
ACGTcount: A:0.33, C:0.27, G:0.03, T:0.37
Consensus pattern (117 bp):
AAAAATTACCATTTTACCCTCGAACCTTCCAAAATCCCATTTTGAACCTCGATTTTACCAAAAAT
TACCATTTTACCCTCAAACTTCTCAAAATTCCCTTTTAACCCAATTTCAACC
Found at i:32792426 original size:29 final size:29
Alignment explanation
Indices: 32792262--32792427 Score: 128
Period size: 30 Copynumber: 5.7 Consensus size: 29
32792252 CGAACCTTCT
*
32792262 AAAATT-CCATTTTTAACCTCGATTTTACCA
1 AAAATTACCA-TTTTACCCT-GATTTTACCA
* ** *
32792292 AAAATTACCATTTTACCCTCAAATT-CTCT
1 AAAATTACCATTTTACCCTGATTTTAC-CA
* *
32792321 AAAATT-CCATTTTTAACCTCGATTTCACCA
1 AAAATTACCA-TTTTACCCT-GATTTTACCA
*
32792351 AAAATTACCATTTTACCCTTGAACTTT-CC-
1 AAAATTACCATTTTACCC-TG-ATTTTACCA
* *
32792380 AAAA-TCCCCTTTTGACCCTGATTTTACCA
1 AAAATTACCATTTT-ACCCTGATTTTACCA
32792409 AAAATTACCATTTTACCCT
1 AAAATTACCATTTTACCCT
32792428 CAAACTTTTC
Statistics
Matches: 105, Mismatches: 19, Indels: 25
0.70 0.13 0.17
Matches are distributed among these distances:
27 4 0.04
28 15 0.14
29 35 0.33
30 40 0.38
31 11 0.10
ACGTcount: A:0.33, C:0.27, G:0.03, T:0.37
Consensus pattern (29 bp):
AAAATTACCATTTTACCCTGATTTTACCA
Found at i:32792448 original size:58 final size:60
Alignment explanation
Indices: 32792233--32792479 Score: 278
Period size: 59 Copynumber: 4.2 Consensus size: 60
32792223 AAAACTTTCT
* * *
32792233 AAAAATTA-CATTTTACCCTCGAAC-CTTCTAAAATTCCATTTTTAACCTCGATTTTACC
1 AAAAATTACCATTTTACCCTCAAACTTTTCTAAAATTCCATTTTGAACCTCGATTTTACC
* * *
32792291 AAAAATTACCATTTTACCCTCAAA-TTCTCTAAAATTCCATTTTTAACCTCGATTTCACC
1 AAAAATTACCATTTTACCCTCAAACTTTTCTAAAATTCCATTTTGAACCTCGATTTTACC
** * * * *
32792350 AAAAATTACCATTTTACCCTTGAAC-TTTCCAAAATCCCCTTTTGACCCT-GATTTTACC
1 AAAAATTACCATTTTACCCTCAAACTTTTCTAAAATTCCATTTTGAACCTCGATTTTACC
* * * *
32792408 AAAAATTACCATTTTACCCTCAAACTTTTC-AGAATTCCCTTTTG-ACC-CAATTTCAACC
1 AAAAATTACCATTTTACCCTCAAACTTTTCTAAAATTCCATTTTGAACCTCGATTT-TACC
32792466 -AAAATTACCATTTT
1 AAAAATTACCATTTT
32792480 GCCCCCGGGA
Statistics
Matches: 163, Mismatches: 20, Indels: 13
0.83 0.10 0.07
Matches are distributed among these distances:
57 20 0.12
58 54 0.33
59 89 0.55
ACGTcount: A:0.33, C:0.27, G:0.03, T:0.37
Consensus pattern (60 bp):
AAAAATTACCATTTTACCCTCAAACTTTTCTAAAATTCCATTTTGAACCTCGATTTTACC
Done.