Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: A05
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: 100714657
ACGTcount: A:0.32, C:0.16, G:0.16, T:0.32
Warning! 3970000 characters in sequence are not A, C, G, or T
File 250 of 318
Found at i:79593359 original size:29 final size:28
Alignment explanation
Indices: 79593286--79593368 Score: 89
Period size: 28 Copynumber: 2.9 Consensus size: 28
79593276 TGGTGCAAAT
79593286 AATGATAAGCACTGAAGTGCAAA--ATA
1 AATGATAAGCACTGAAGTGCAAATTATA
* * *
79593312 ATATCAATAAGCACCGAAGTGCAAATTTTA
1 A-AT-GATAAGCACTGAAGTGCAAATTATA
79593342 CAATGATAAGCACTGAAGTGCGAAATT
1 -AATGATAAGCACTGAAGTGC-AAATT
79593369 GTAATACCTC
Statistics
Matches: 46, Mismatches: 5, Indels: 8
0.78 0.08 0.14
Matches are distributed among these distances:
26 1 0.02
27 2 0.04
28 18 0.39
29 15 0.33
30 9 0.20
31 1 0.02
ACGTcount: A:0.45, C:0.14, G:0.18, T:0.23
Consensus pattern (28 bp):
AATGATAAGCACTGAAGTGCAAATTATA
Found at i:79596203 original size:19 final size:19
Alignment explanation
Indices: 79596166--79596204 Score: 53
Period size: 19 Copynumber: 2.1 Consensus size: 19
79596156 ATCATCCATT
79596166 TTCATTTTGTATATGCATA
1 TTCATTTTGTATATGCATA
*
79596185 TTCATCTTTTTATAT-CATA
1 TTCAT-TTTGTATATGCATA
79596204 T
1 T
79596205 GAACATTAAG
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
19 10 0.56
20 8 0.44
ACGTcount: A:0.26, C:0.13, G:0.05, T:0.56
Consensus pattern (19 bp):
TTCATTTTGTATATGCATA
Found at i:79599004 original size:28 final size:28
Alignment explanation
Indices: 79598973--79599069 Score: 115
Period size: 28 Copynumber: 3.5 Consensus size: 28
79598963 ACATGGTGCA
*
79598973 AATAACGATAAGCACTGAAGTGCAAAAT
1 AATAACGATAAGCACCGAAGTGCAAAAT
* * * *
79599001 AATATCTATAAGCACCGAATTGCAAATTT
1 AATAACGATAAGCACCGAAGTGCAAA-AT
* *
79599030 TACAACGATAAGCACCGAAGTGCAAAAT
1 AATAACGATAAGCACCGAAGTGCAAAAT
79599058 AAT-ACGATAAGC
1 AATAACGATAAGC
79599070 GCGCTAATTT
Statistics
Matches: 55, Mismatches: 13, Indels: 3
0.77 0.18 0.04
Matches are distributed among these distances:
27 9 0.16
28 24 0.44
29 22 0.40
ACGTcount: A:0.46, C:0.18, G:0.15, T:0.21
Consensus pattern (28 bp):
AATAACGATAAGCACCGAAGTGCAAAAT
Found at i:79612134 original size:21 final size:22
Alignment explanation
Indices: 79612110--79612159 Score: 68
Period size: 21 Copynumber: 2.4 Consensus size: 22
79612100 CCAATTCAAG
*
79612110 ATCATGTGCCGGGTAATT-TTT
1 ATCATGTGCCAGGTAATTCTTT
*
79612131 ATCATGTGTCAGGTAATTCTTT
1 ATCATGTGCCAGGTAATTCTTT
79612153 -TCATGTG
1 ATCATGTG
79612160 GCTTTAGCTG
Statistics
Matches: 26, Mismatches: 2, Indels: 2
0.87 0.07 0.07
Matches are distributed among these distances:
21 23 0.88
22 3 0.12
ACGTcount: A:0.20, C:0.14, G:0.22, T:0.44
Consensus pattern (22 bp):
ATCATGTGCCAGGTAATTCTTT
Found at i:79614947 original size:19 final size:20
Alignment explanation
Indices: 79614923--79614972 Score: 59
Period size: 19 Copynumber: 2.6 Consensus size: 20
79614913 GTAATAGTAA
*
79614923 ATACATGTGTA-AAAATAAT
1 ATACATATGTATAAAATAAT
*
79614942 ATACATATGTATAAATTAAT
1 ATACATATGTATAAAATAAT
*
79614962 A-AAATATGTAT
1 ATACATATGTAT
79614973 TACCTAATAT
Statistics
Matches: 27, Mismatches: 3, Indels: 2
0.84 0.09 0.06
Matches are distributed among these distances:
19 19 0.70
20 8 0.30
ACGTcount: A:0.52, C:0.04, G:0.08, T:0.36
Consensus pattern (20 bp):
ATACATATGTATAAAATAAT
Found at i:79615124 original size:22 final size:22
Alignment explanation
Indices: 79615057--79615127 Score: 81
Period size: 22 Copynumber: 3.2 Consensus size: 22
79615047 ACAAATAAAT
*
79615057 AGAAAAAGA-AACAGAGATAGAA
1 AGAAAAAGAGAA-AGAGAAAGAA
** * *
79615079 ACTAAAACAGAAAGGGAAAGAA
1 AGAAAAAGAGAAAGAGAAAGAA
79615101 AGAAAAAGAGAAAGAGAAAGAA
1 AGAAAAAGAGAAAGAGAAAGAA
79615123 AGAAA
1 AGAAA
79615128 GGAGAAATTA
Statistics
Matches: 39, Mismatches: 9, Indels: 2
0.78 0.18 0.04
Matches are distributed among these distances:
22 37 0.95
23 2 0.05
ACGTcount: A:0.69, C:0.04, G:0.24, T:0.03
Consensus pattern (22 bp):
AGAAAAAGAGAAAGAGAAAGAA
Found at i:79615820 original size:7 final size:7
Alignment explanation
Indices: 79615808--79615848 Score: 73
Period size: 7 Copynumber: 5.9 Consensus size: 7
79615798 ATTTGTGATT
79615808 AATGTGA
1 AATGTGA
79615815 AATGTGA
1 AATGTGA
79615822 AATGTGA
1 AATGTGA
*
79615829 AATGTTA
1 AATGTGA
79615836 AATGTGA
1 AATGTGA
79615843 AATGTG
1 AATGTG
79615849 GATATTGGAT
Statistics
Matches: 32, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
7 32 1.00
ACGTcount: A:0.41, C:0.00, G:0.27, T:0.32
Consensus pattern (7 bp):
AATGTGA
Found at i:79629262 original size:24 final size:24
Alignment explanation
Indices: 79629213--79629262 Score: 66
Period size: 24 Copynumber: 2.1 Consensus size: 24
79629203 GAGAAGTAAT
* *
79629213 TAAAATATATTTTTATATTTAAAA
1 TAAAATATATTATTATATATAAAA
79629237 TAAAATATATTATTAT-TATAATAA
1 TAAAATATATTATTATATATAA-AA
79629261 TA
1 TA
79629263 TTTTTATATA
Statistics
Matches: 23, Mismatches: 2, Indels: 2
0.85 0.07 0.07
Matches are distributed among these distances:
23 4 0.17
24 19 0.83
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (24 bp):
TAAAATATATTATTATATATAAAA
Found at i:79632168 original size:23 final size:25
Alignment explanation
Indices: 79632123--79632168 Score: 60
Period size: 24 Copynumber: 1.9 Consensus size: 25
79632113 ATTAAACAAG
**
79632123 AATTAAAAAAATGAATGTGAAATAA
1 AATTAAAAAAATGAATGAAAAATAA
79632148 AATT-AAAAAATG-ATGAAAAAT
1 AATTAAAAAAATGAATGAAAAAT
79632169 TTAATTGAAA
Statistics
Matches: 19, Mismatches: 2, Indels: 2
0.83 0.09 0.09
Matches are distributed among these distances:
23 7 0.37
24 8 0.42
25 4 0.21
ACGTcount: A:0.65, C:0.00, G:0.11, T:0.24
Consensus pattern (25 bp):
AATTAAAAAAATGAATGAAAAATAA
Found at i:79633599 original size:45 final size:44
Alignment explanation
Indices: 79633535--79633832 Score: 212
Period size: 45 Copynumber: 6.7 Consensus size: 44
79633525 TCCGCTGCAA
* * *
79633535 CTGCTCCACTGCAACTTCAGGGAGATACGGTTGTGTATTTTTAT
1 CTGCTCCACTGCAACTTCAGGGAGATAAGGTTGTGTAATTTCAT
* * * **
79633579 CCTGCTCTACTGCAACTTCAGAGAGATAAGGATTGTG-ACTTAGAT
1 -CTGCTCCACTGCAACTTCAGGGAGATAAGG-TTGTGTAATTTCAT
* * * *
79633624 CTGCTCCACTGCAACTTTAGGGAGATAAGATCTG-CTAACTTCAGT
1 CTGCTCCACTGCAACTTCAGGGAGATAAGGT-TGTGTAATTTCA-T
* * *
79633669 CTGCTCCACTGCAACTTCAGGGAGATAAGACTTGGGTAATGTCAT
1 CTGCTCCACTGCAACTTCAGGGAGATAAG-GTTGTGTAATTTCAT
* * * ** *
79633714 CCTGCTCTACTACAACTTCAGAGAGATAAGGATTGTG-GCTTTGAT
1 -CTGCTCCACTGCAACTTCAGGGAGATAAGG-TTGTGTAATTTCAT
* * * * *
79633759 TTGCTCCACTGCAACCTCAGGGAGACAAGATCTG-CT-ATCTTCAAT
1 CTGCTCCACTGCAACTTCAGGGAGATAAGGT-TGTGTAAT-TTC-AT
*
79633804 CTGTTCCACTGCAAC-TCTAGGGAGATAAG
1 CTGCTCCACTGCAACTTC-AGGGAGATAAG
79633833 ACTTGTTTCT
Statistics
Matches: 198, Mismatches: 42, Indels: 26
0.74 0.16 0.10
Matches are distributed among these distances:
43 3 0.02
44 60 0.30
45 93 0.47
46 42 0.21
ACGTcount: A:0.26, C:0.23, G:0.22, T:0.29
Consensus pattern (44 bp):
CTGCTCCACTGCAACTTCAGGGAGATAAGGTTGTGTAATTTCAT
Found at i:79633764 original size:135 final size:135
Alignment explanation
Indices: 79633535--79633837 Score: 439
Period size: 135 Copynumber: 2.3 Consensus size: 135
79633525 TCCGCTGCAA
* * * * * * *
79633535 CTGCTCCACTGCAACTTCAGGGAGATACG-GTTGTGTATTTTTATCCTGCTCTACTGCAACTTCA
1 CTGCTCCACTGCAACTTCAGGGAGATAAGACTTGGGTAATGTCATCCTGCTCTACTACAACTTCA
* * *
79633599 GAGAGATAAGGATTGTGACTTAGATCTGCTCCACTGCAACTTTAGGGAGATAAGATCTGCTAACT
66 GAGAGATAAGGATTGTGACTTAGATCTGCTCCACTGCAACCTCAGGGAGACAAGATCTGCTAACT
*
79633664 TCAGT
131 TCAAT
79633669 CTGCTCCACTGCAACTTCAGGGAGATAAGACTTGGGTAATGTCATCCTGCTCTACTACAACTTCA
1 CTGCTCCACTGCAACTTCAGGGAGATAAGACTTGGGTAATGTCATCCTGCTCTACTACAACTTCA
* * * *
79633734 GAGAGATAAGGATTGTGGCTTTGATTTGCTCCACTGCAACCTCAGGGAGACAAGATCTGCTATCT
66 GAGAGATAAGGATTGTGACTTAGATCTGCTCCACTGCAACCTCAGGGAGACAAGATCTGCTAACT
79633799 TCAAT
131 TCAAT
*
79633804 CTGTTCCACTGCAAC-TCTAGGGAGATAAGACTTG
1 CTGCTCCACTGCAACTTC-AGGGAGATAAGACTTG
79633838 TTTCTTCAAC
Statistics
Matches: 151, Mismatches: 16, Indels: 3
0.89 0.09 0.02
Matches are distributed among these distances:
134 30 0.20
135 121 0.80
ACGTcount: A:0.26, C:0.23, G:0.22, T:0.29
Consensus pattern (135 bp):
CTGCTCCACTGCAACTTCAGGGAGATAAGACTTGGGTAATGTCATCCTGCTCTACTACAACTTCA
GAGAGATAAGGATTGTGACTTAGATCTGCTCCACTGCAACCTCAGGGAGACAAGATCTGCTAACT
TCAAT
Found at i:79633922 original size:135 final size:135
Alignment explanation
Indices: 79633535--79633875 Score: 420
Period size: 135 Copynumber: 2.5 Consensus size: 135
79633525 TCCGCTGCAA
* * * * * * * **
79633535 CTGCTCCACTGCAACTTCAGGGAGATACG-GTTGTGTATTTTTATCCTGCTCTACTGCAACTTCA
1 CTGCTCCACTGCAACTTCAGGGAGATAAGACTTGGGTAATGTCAACCCACTCTACTGCAACTTCA
* *
79633599 GAGAGATAAGGATTGTGACTTAGATCTGCTCCACTGCAACTTTAGGGAGATAAGATCTGCTAACT
66 GAGAGATAAGGATTGTGACTTTGATCTGCTCCACTGCAACTTTAGGGAGACAAGATCTGCTAACT
*
79633664 TCAGT
131 TCAAT
* ** *
79633669 CTGCTCCACTGCAACTTCAGGGAGATAAGACTTGGGTAATGTCATCCTGCTCTACTACAACTTCA
1 CTGCTCCACTGCAACTTCAGGGAGATAAGACTTGGGTAATGTCAACCCACTCTACTGCAACTTCA
* * * * *
79633734 GAGAGATAAGGATTGTGGCTTTGATTTGCTCCACTGCAACCTCAGGGAGACAAGATCTGCTATCT
66 GAGAGATAAGGATTGTGACTTTGATCTGCTCCACTGCAACTTTAGGGAGACAAGATCTGCTAACT
79633799 TCAAT
131 TCAAT
* * **
79633804 CTGTTCCACTGCAAC-TCTAGGGAGATAAGACTT-GTTTCT-TCAACCCACTCTACTGCAACTTC
1 CTGCTCCACTGCAACTTC-AGGGAGATAAGACTTGGGTAATGTCAACCCACTCTACTGCAACTTC
79633866 AGAGAGATAA
65 AGAGAGATAA
79633876 AGTTTGCATA
Statistics
Matches: 182, Mismatches: 23, Indels: 5
0.87 0.11 0.02
Matches are distributed among these distances:
133 29 0.16
134 33 0.18
135 120 0.66
ACGTcount: A:0.27, C:0.23, G:0.21, T:0.29
Consensus pattern (135 bp):
CTGCTCCACTGCAACTTCAGGGAGATAAGACTTGGGTAATGTCAACCCACTCTACTGCAACTTCA
GAGAGATAAGGATTGTGACTTTGATCTGCTCCACTGCAACTTTAGGGAGACAAGATCTGCTAACT
TCAAT
Found at i:79642177 original size:35 final size:35
Alignment explanation
Indices: 79642138--79642206 Score: 129
Period size: 35 Copynumber: 2.0 Consensus size: 35
79642128 CCTTTTCCCT
79642138 TATCCATTCTTCTTATCAACAACTGGGACAACTAA
1 TATCCATTCTTCTTATCAACAACTGGGACAACTAA
*
79642173 TATCCATTCTTCTTATCAGCAACTGGGACAACTA
1 TATCCATTCTTCTTATCAACAACTGGGACAACTA
79642207 GCTCATCATC
Statistics
Matches: 33, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
35 33 1.00
ACGTcount: A:0.32, C:0.26, G:0.10, T:0.32
Consensus pattern (35 bp):
TATCCATTCTTCTTATCAACAACTGGGACAACTAA
Found at i:79647017 original size:12 final size:12
Alignment explanation
Indices: 79647002--79647036 Score: 52
Period size: 12 Copynumber: 2.9 Consensus size: 12
79646992 ATAATATACA
79647002 AAAAAAAATTAT
1 AAAAAAAATTAT
79647014 AAAAAAAATTAT
1 AAAAAAAATTAT
* *
79647026 ACAAAATATTA
1 AAAAAAAATTA
79647037 AAATGATATG
Statistics
Matches: 21, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
12 21 1.00
ACGTcount: A:0.71, C:0.03, G:0.00, T:0.26
Consensus pattern (12 bp):
AAAAAAAATTAT
Found at i:79651363 original size:12 final size:13
Alignment explanation
Indices: 79651345--79651374 Score: 53
Period size: 12 Copynumber: 2.4 Consensus size: 13
79651335 GATTAATTTT
79651345 CTAAAAATAAAAA
1 CTAAAAATAAAAA
79651358 -TAAAAATAAAAA
1 CTAAAAATAAAAA
79651370 CTAAA
1 CTAAA
79651375 TTCTAAATTT
Statistics
Matches: 16, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
12 12 0.75
13 4 0.25
ACGTcount: A:0.77, C:0.07, G:0.00, T:0.17
Consensus pattern (13 bp):
CTAAAAATAAAAA
Found at i:79657310 original size:43 final size:42
Alignment explanation
Indices: 79657219--79657339 Score: 118
Period size: 43 Copynumber: 2.9 Consensus size: 42
79657209 AACTTATGAT
* * * ** *
79657219 TTACGTGTAAGACTACGTCT-GGACGTTGGCATCGTATTTAA
1 TTACATGTAAGACCATGTCTGGGACAATGGCATTGTATTTAA
* * * *
79657260 TTTCATGTAAGACCTTGTTTGGGACAATGGCATTGATATTTGA
1 TTACATGTAAGACCATGTCTGGGACAATGGCATTG-TATTTAA
**
79657303 TTACATGTAAGACCATGTCTGGGACGTTGGCATTGTA
1 TTACATGTAAGACCATGTCTGGGACAATGGCATTGTA
79657340 CGAGCTTTCT
Statistics
Matches: 63, Mismatches: 15, Indels: 3
0.78 0.19 0.04
Matches are distributed among these distances:
41 14 0.22
42 13 0.21
43 36 0.57
ACGTcount: A:0.25, C:0.15, G:0.25, T:0.36
Consensus pattern (42 bp):
TTACATGTAAGACCATGTCTGGGACAATGGCATTGTATTTAA
Found at i:79658095 original size:10 final size:10
Alignment explanation
Indices: 79658055--79658097 Score: 50
Period size: 11 Copynumber: 4.1 Consensus size: 10
79658045 TATTGAAACA
*
79658055 TATGCTTTGG
1 TATGATTTGG
79658065 TATGATTTTGG
1 TATGA-TTTGG
*
79658076 TTTAGATTTGG
1 TAT-GATTTGG
79658087 TATGATTTGG
1 TATGATTTGG
79658097 T
1 T
79658098 TGGTGAATTA
Statistics
Matches: 28, Mismatches: 3, Indels: 4
0.80 0.09 0.11
Matches are distributed among these distances:
10 12 0.43
11 14 0.50
12 2 0.07
ACGTcount: A:0.16, C:0.02, G:0.28, T:0.53
Consensus pattern (10 bp):
TATGATTTGG
Found at i:79661168 original size:26 final size:26
Alignment explanation
Indices: 79661139--79661211 Score: 119
Period size: 26 Copynumber: 2.8 Consensus size: 26
79661129 TCTCATCTCC
*
79661139 ATTTTACCCCTAGTAAAATTTTGACG
1 ATTTTACCCCTAGTAAAATTTTAACG
*
79661165 ATTTTACCCCTGGTAAAATTTTAACG
1 ATTTTACCCCTAGTAAAATTTTAACG
*
79661191 ATTTTGCCCCTAGTAAAATTT
1 ATTTTACCCCTAGTAAAATTT
79661212 CAAGAAAATA
Statistics
Matches: 43, Mismatches: 4, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
26 43 1.00
ACGTcount: A:0.30, C:0.19, G:0.11, T:0.40
Consensus pattern (26 bp):
ATTTTACCCCTAGTAAAATTTTAACG
Found at i:79670542 original size:23 final size:23
Alignment explanation
Indices: 79670516--79670630 Score: 117
Period size: 23 Copynumber: 4.9 Consensus size: 23
79670506 ACAGCTCGTA
*
79670516 AGAGCTTACTGTTTCAGCTCATT
1 AGAGCTTACTGTTTCAGCTCAAT
* *
79670539 AGAGCTTACCGATTCAGCTCGAA-
1 AGAGCTTACTGTTTCAGCTC-AAT
79670562 AGAGCTTACTG-TTCAGCTCAAT
1 AGAGCTTACTGTTTCAGCTCAAT
* *
79670584 AGAGCTTACCGTTTTCAGTTCAAT
1 AGAGCTTACTG-TTTCAGCTCAAT
* *
79670608 GGACCTTACTGTTTATCAGCTCA
1 AGAGCTTACTG-TT-TCAGCTCA
79670631 GGAGGAGCTT
Statistics
Matches: 77, Mismatches: 10, Indels: 8
0.81 0.11 0.08
Matches are distributed among these distances:
21 2 0.03
22 18 0.23
23 28 0.36
24 22 0.29
25 7 0.09
ACGTcount: A:0.25, C:0.23, G:0.18, T:0.33
Consensus pattern (23 bp):
AGAGCTTACTGTTTCAGCTCAAT
Found at i:79670601 original size:46 final size:46
Alignment explanation
Indices: 79670507--79670594 Score: 151
Period size: 45 Copynumber: 1.9 Consensus size: 46
79670497 AGACTCACCA
* *
79670507 CAGCTCGTAAGAGCTTACTGTTTCAGCTCATTAGAGCTTACCGATT
1 CAGCTCGAAAGAGCTTACTGTTTCAGCTCAATAGAGCTTACCGATT
79670553 CAGCTCGAAAGAGCTTACTG-TTCAGCTCAATAGAGCTTACCG
1 CAGCTCGAAAGAGCTTACTGTTTCAGCTCAATAGAGCTTACCG
79670595 TTTTCAGTTC
Statistics
Matches: 40, Mismatches: 2, Indels: 1
0.93 0.05 0.02
Matches are distributed among these distances:
45 21 0.52
46 19 0.47
ACGTcount: A:0.26, C:0.25, G:0.20, T:0.28
Consensus pattern (46 bp):
CAGCTCGAAAGAGCTTACTGTTTCAGCTCAATAGAGCTTACCGATT
Found at i:79670616 original size:46 final size:45
Alignment explanation
Indices: 79670507--79670620 Score: 131
Period size: 46 Copynumber: 2.5 Consensus size: 45
79670497 AGACTCACCA
* * *
79670507 CAGCTCGTAAGAGCTTACTGTTTCAGCTCATTAGAGCTTACCGATT
1 CAGCTCGAAAGACCTTACTG-TTCAGCTCAATAGAGCTTACCGATT
* *
79670553 CAGCTCGAAAGAGCTTACTGTTCAGCTCAATAGAGCTTACCGTTTT
1 CAGCTCGAAAGACCTTACTGTTCAGCTCAATAGAGCTTACCG-ATT
* *
79670599 CAGTTC-AATGGACCTTACTGTT
1 CAGCTCGAA-AGACCTTACTGTT
79670621 TATCAGCTCA
Statistics
Matches: 60, Mismatches: 6, Indels: 4
0.86 0.09 0.06
Matches are distributed among these distances:
45 23 0.38
46 37 0.62
ACGTcount: A:0.25, C:0.24, G:0.19, T:0.32
Consensus pattern (45 bp):
CAGCTCGAAAGACCTTACTGTTCAGCTCAATAGAGCTTACCGATT
Found at i:79671832 original size:10 final size:10
Alignment explanation
Indices: 79671805--79671844 Score: 55
Period size: 10 Copynumber: 4.0 Consensus size: 10
79671795 TTAAATTCTA
79671805 AAAGATAAAT
1 AAAGATAAAT
79671815 ACAA-ATAAAT
1 A-AAGATAAAT
*
79671825 AAAGATAATT
1 AAAGATAAAT
79671835 AAAGATAAAT
1 AAAGATAAAT
79671845 GGAAATAAAT
Statistics
Matches: 26, Mismatches: 2, Indels: 4
0.81 0.06 0.12
Matches are distributed among these distances:
9 2 0.08
10 22 0.85
11 2 0.08
ACGTcount: A:0.68, C:0.03, G:0.07, T:0.23
Consensus pattern (10 bp):
AAAGATAAAT
Found at i:79672511 original size:18 final size:18
Alignment explanation
Indices: 79672477--79672510 Score: 52
Period size: 18 Copynumber: 1.9 Consensus size: 18
79672467 ATACATCTAT
*
79672477 TTTTTTTCTATTTTTTTC
1 TTTTTTCCTATTTTTTTC
79672495 TTTTTTCCT-TTTTTTT
1 TTTTTTCCTATTTTTTT
79672511 TAAATTTTTT
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
17 7 0.47
18 8 0.53
ACGTcount: A:0.03, C:0.12, G:0.00, T:0.85
Consensus pattern (18 bp):
TTTTTTCCTATTTTTTTC
Found at i:79672713 original size:99 final size:99
Alignment explanation
Indices: 79672529--79672817 Score: 404
Period size: 99 Copynumber: 2.9 Consensus size: 99
79672519 TTTAATTAAT
* * * *
79672529 TAATTTATCTAT-TTTTGCTTAAGAATAAATTGAACCTTTTGACGTGAAGAGAGATGACAGCCAA
1 TAATTTAT-TATATTTTTCTTAAGAATATATCGAACCTTTTGACGCGAAGAGAGATGACAGCCAA
*
79672593 GCATCC-CACCACGGTTACTCAGCCCAAGATACTCC
65 GCA-CCTCACCACGATTACTCAGCCCAAGATACTCC
*
79672628 TAATTTATTATATTTTTCTTAAGAATATGTCGAACCTTTTGACGCGAAGAGAGATGACAGCCAAG
1 TAATTTATTATATTTTTCTTAAGAATATATCGAACCTTTTGACGCGAAGAGAGATGACAGCCAAG
* *
79672693 CACCTCACTC-CGATTGCTCAGCCCAATATACTCC
66 CACCTCAC-CACGATTACTCAGCCCAAGATACTCC
* * *
79672727 TAATTTATTATATTTTTCTTAAGAATATATCAAACCTTTTGACGCAAAGAGAGATGATAGCCAAG
1 TAATTTATTATATTTTTCTTAAGAATATATCGAACCTTTTGACGCGAAGAGAGATGACAGCCAAG
* * *
79672792 CACCTTACCTCGGTTACTCAGCCCAA
66 CACCTCACCACGATTACTCAGCCCAA
79672818 CACATTCTTA
Statistics
Matches: 171, Mismatches: 15, Indels: 8
0.88 0.08 0.04
Matches are distributed among these distances:
98 6 0.04
99 164 0.96
100 1 0.01
ACGTcount: A:0.32, C:0.23, G:0.15, T:0.30
Consensus pattern (99 bp):
TAATTTATTATATTTTTCTTAAGAATATATCGAACCTTTTGACGCGAAGAGAGATGACAGCCAAG
CACCTCACCACGATTACTCAGCCCAAGATACTCC
Found at i:79673837 original size:25 final size:24
Alignment explanation
Indices: 79673809--79673857 Score: 62
Period size: 25 Copynumber: 2.0 Consensus size: 24
79673799 ATATCCAAAC
*
79673809 AAAATAAAATAATAAATAATAAAAT
1 AAAATAAAATAAAAAATAA-AAAAT
* *
79673834 AAAATAGAGTAAAAAATAAAAAAT
1 AAAATAAAATAAAAAATAAAAAAT
79673858 TTACGTTACG
Statistics
Matches: 21, Mismatches: 3, Indels: 1
0.84 0.12 0.04
Matches are distributed among these distances:
24 5 0.24
25 16 0.76
ACGTcount: A:0.76, C:0.00, G:0.04, T:0.20
Consensus pattern (24 bp):
AAAATAAAATAAAAAATAAAAAAT
Found at i:79674285 original size:89 final size:89
Alignment explanation
Indices: 79674182--79674367 Score: 354
Period size: 89 Copynumber: 2.1 Consensus size: 89
79674172 GTATCCATAG
*
79674182 GAGCCAATAATTCATTAATAGATTCAAAATCATTAAACATCATTTTAGATTTATCTCCATAAGAT
1 GAGCCAATAATTCATTAATAGATTCAAAATCATCAAACATCATTTTAGATTTATCTCCATAAGAT
79674247 GACTTAAAAGTTTCTTCTACTAAT
66 GACTTAAAAGTTTCTTCTACTAAT
79674271 GAGCCAATAATTCATTAATAGATTCAAAATCATCAAACATCATTTTAGATTTATCTCCATAAGAT
1 GAGCCAATAATTCATTAATAGATTCAAAATCATCAAACATCATTTTAGATTTATCTCCATAAGAT
79674336 GACTTAAAAGTTTCTTCTACTAAT
66 GACTTAAAAGTTTCTTCTACTAAT
*
79674360 GAGTCAAT
1 GAGCCAAT
79674368 TATGTCGACA
Statistics
Matches: 95, Mismatches: 2, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
89 95 1.00
ACGTcount: A:0.39, C:0.16, G:0.09, T:0.36
Consensus pattern (89 bp):
GAGCCAATAATTCATTAATAGATTCAAAATCATCAAACATCATTTTAGATTTATCTCCATAAGAT
GACTTAAAAGTTTCTTCTACTAAT
Found at i:79684501 original size:42 final size:42
Alignment explanation
Indices: 79684442--79684559 Score: 146
Period size: 43 Copynumber: 2.8 Consensus size: 42
79684432 AGGGTTAGTT
79684442 GAGATTACATGTAAGACCATATCTGGGATATGGAATCGATAC
1 GAGATTACATGTAAGACCATATCTGGGATATGGAATCGATAC
* * * * *
79684484 GAGATTTCATGTAAGACCATAGCTGGGCTATTGGTATCGATAT
1 GAGATTACATGTAAGACCATATCTGGGATA-TGGAATCGATAC
* ** *
79684527 AAGATCCCATGTAAGACCATATCTAGGATATGG
1 GAGATTACATGTAAGACCATATCTGGGATATGG
79684560 CATTGGTATG
Statistics
Matches: 64, Mismatches: 11, Indels: 2
0.83 0.14 0.03
Matches are distributed among these distances:
42 30 0.47
43 34 0.53
ACGTcount: A:0.33, C:0.15, G:0.24, T:0.28
Consensus pattern (42 bp):
GAGATTACATGTAAGACCATATCTGGGATATGGAATCGATAC
Found at i:79694820 original size:6 final size:6
Alignment explanation
Indices: 79694809--79694855 Score: 94
Period size: 6 Copynumber: 7.8 Consensus size: 6
79694799 GAAAATGGAT
79694809 CATTTC CATTTC CATTTC CATTTC CATTTC CATTTC CATTTC CATTT
1 CATTTC CATTTC CATTTC CATTTC CATTTC CATTTC CATTTC CATTT
79694856 TTGGAAACCT
Statistics
Matches: 41, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 41 1.00
ACGTcount: A:0.17, C:0.32, G:0.00, T:0.51
Consensus pattern (6 bp):
CATTTC
Found at i:79716690 original size:40 final size:40
Alignment explanation
Indices: 79716606--79716789 Score: 196
Period size: 40 Copynumber: 4.6 Consensus size: 40
79716596 TTGAATGCTG
* * * *
79716606 TCCGGGCTAAGTCCCGAAGGC-TTTGTGCTAAGTGACT-AT
1 TCCGGGTTAAGTCCCGAAGGCATTTGTGC-GAGTTATTAAT
** *
79716645 ATCCGGACTAAGAT-CCGAAGGTATTTGTGCGAGTTATTAAT
1 -TCCGGGTTAAG-TCCCGAAGGCATTTGTGCGAGTTATTAAT
* * *
79716686 TCCGGGTTAAGTCCCGAAGGCCTTTGTGCGAGATACTAAT
1 TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTATTAAT
* *
79716726 TCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTT-TTAAAA
1 TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTATT-AAT
79716766 TCCGGGTTAAGTCCCGAAGGCATT
1 TCCGGGTTAAGTCCCGAAGGCATT
79716790 GTATGAGTTA
Statistics
Matches: 123, Mismatches: 16, Indels: 10
0.83 0.11 0.07
Matches are distributed among these distances:
39 2 0.02
40 111 0.90
41 10 0.08
ACGTcount: A:0.24, C:0.21, G:0.27, T:0.28
Consensus pattern (40 bp):
TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTATTAAT
Found at i:79716743 original size:80 final size:81
Alignment explanation
Indices: 79716606--79716786 Score: 221
Period size: 80 Copynumber: 2.3 Consensus size: 81
79716596 TTGAATGCTG
* * *
79716606 TCCGGGCTAAGTCCCGAAGG-CTTTGTGCTAAGTGACTATATCCGGACTAAGATCCGAAGGTATT
1 TCCGGGTTAAGTCCCGAAGGCCTTTGTGCGAAGTGACTATATCCGGACTAAGATCCGAAGGCATT
* *
79716670 TGTGCGAGTTATT-AAT
66 CGTGCGAGTT-TTAAAA
**
79716686 TCCGGGTTAAGTCCCGAAGGCCTTTGTGCG-AGAT-ACTA-ATTCCGGGTTAAG-TCCCGAAGGC
1 TCCGGGTTAAGTCCCGAAGGCCTTTGTGCGAAG-TGACTATA-TCCGGACTAAGAT-CCGAAGGC
79716747 ATTCGTGCGAGTTTTAAAA
63 ATTCGTGCGAGTTTTAAAA
79716766 TCCGGGTTAAGTCCCGAAGGC
1 TCCGGGTTAAGTCCCGAAGGC
79716787 ATTGTATGAG
Statistics
Matches: 89, Mismatches: 7, Indels: 10
0.84 0.07 0.09
Matches are distributed among these distances:
79 4 0.04
80 76 0.85
81 9 0.10
ACGTcount: A:0.24, C:0.21, G:0.28, T:0.28
Consensus pattern (81 bp):
TCCGGGTTAAGTCCCGAAGGCCTTTGTGCGAAGTGACTATATCCGGACTAAGATCCGAAGGCATT
CGTGCGAGTTTTAAAA
Found at i:79716810 original size:39 final size:38
Alignment explanation
Indices: 79716607--79716826 Score: 165
Period size: 40 Copynumber: 5.6 Consensus size: 38
79716597 TGAATGCTGT
* * * * *
79716607 CCGGGCTAAGTCCCGAAGGCTTTGTGCTAAGTGACTATAT
1 CCGGGTTAAGTCCCGAAGGCATTGTGC-GAGTTACTA-AA
** * * *
79716647 CCGGACTAAGAT-CCGAAGGTATTTGTGCGAGTTATTAATT
1 CCGGGTTAAG-TCCCGAAGGCA-TTGTGCGAGTTACTAA-A
* * *
79716687 CCGGGTTAAGTCCCGAAGGCCTTTGTGCGAGATACTAATT
1 CCGGGTTAAGTCCCGAAGG-CATTGTGCGAGTTACTAA-A
*
79716727 CCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTT-TTAAAA
1 CCGGGTTAAGTCCCGAAGGCATT-GTGCGAGTTACT-AAA
**
79716766 TCCGGGTTAAGTCCCGAAGGCATTGTATGAGTTACTATAA
1 -CCGGGTTAAGTCCCGAAGGCATTGTGCGAGTTACTA-AA
* *
79716806 CCGGGCTATGTCCCGAAGGCA
1 CCGGGTTAAGTCCCGAAGGCA
79716827 CTTGAACGAG
Statistics
Matches: 149, Mismatches: 21, Indels: 21
0.78 0.11 0.11
Matches are distributed among these distances:
39 33 0.22
40 109 0.73
41 7 0.05
ACGTcount: A:0.25, C:0.21, G:0.27, T:0.27
Consensus pattern (38 bp):
CCGGGTTAAGTCCCGAAGGCATTGTGCGAGTTACTAAA
Found at i:79719869 original size:28 final size:28
Alignment explanation
Indices: 79719829--79719887 Score: 118
Period size: 28 Copynumber: 2.1 Consensus size: 28
79719819 CAACAATAAA
79719829 TCTGAAAGAGGAAATATGTGTTGTTCTT
1 TCTGAAAGAGGAAATATGTGTTGTTCTT
79719857 TCTGAAAGAGGAAATATGTGTTGTTCTT
1 TCTGAAAGAGGAAATATGTGTTGTTCTT
79719885 TCT
1 TCT
79719888 TGGCATTGTC
Statistics
Matches: 31, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
28 31 1.00
ACGTcount: A:0.27, C:0.08, G:0.24, T:0.41
Consensus pattern (28 bp):
TCTGAAAGAGGAAATATGTGTTGTTCTT
Found at i:79721298 original size:56 final size:55
Alignment explanation
Indices: 79721238--79721342 Score: 138
Period size: 56 Copynumber: 1.9 Consensus size: 55
79721228 TCCTCTTAAT
** * *
79721238 TGTTGAAATGTTGCTTCTTTTGAATATATTTTTTTATATATTTAAATCGATTGTCA
1 TGTTGAAATACTGCTTCTTTTGAATAGA-TTATTTATATATTTAAATCGATTGTCA
* * *
79721294 TGTTGGAATACTGCTTCTTTTGAATCGATTATTTATATGTTTAAATCGA
1 TGTTGAAATACTGCTTCTTTTGAATAGATTATTTATATATTTAAATCGA
79721343 CTGTTACATG
Statistics
Matches: 42, Mismatches: 7, Indels: 1
0.84 0.14 0.02
Matches are distributed among these distances:
55 19 0.45
56 23 0.55
ACGTcount: A:0.27, C:0.09, G:0.14, T:0.50
Consensus pattern (55 bp):
TGTTGAAATACTGCTTCTTTTGAATAGATTATTTATATATTTAAATCGATTGTCA
Found at i:79721691 original size:41 final size:41
Alignment explanation
Indices: 79721594--79721725 Score: 113
Period size: 41 Copynumber: 3.2 Consensus size: 41
79721584 AACCTTGTAG
* *
79721594 GCTTCGTGCTAGTGTAACGATTTTGGCCTTGAGCCTAGCAA
1 GCTTCGTGCTAGTGTAACGATTTAGGCCTTGAGCCTAGTAA
* * * * ** * *
79721635 ACCTCATACCGGTGTAACGATTTAAGCCTTGAGCCTAGTAC
1 GCTTCGTGCTAGTGTAACGATTTAGGCCTTGAGCCTAGTAA
* * * * *
79721676 GCTTCGTGCTTGTGT-ATGAAATCAGGCCTTGAGCCTAGTAG
1 GCTTCGTGCTAGTGTAACG-ATTTAGGCCTTGAGCCTAGTAA
79721717 GCTTCGTGC
1 GCTTCGTGC
79721726 CAATTTAGTG
Statistics
Matches: 69, Mismatches: 21, Indels: 2
0.75 0.23 0.02
Matches are distributed among these distances:
40 2 0.03
41 67 0.97
ACGTcount: A:0.20, C:0.23, G:0.26, T:0.30
Consensus pattern (41 bp):
GCTTCGTGCTAGTGTAACGATTTAGGCCTTGAGCCTAGTAA
Found at i:79726319 original size:131 final size:131
Alignment explanation
Indices: 79726085--79726643 Score: 650
Period size: 131 Copynumber: 4.3 Consensus size: 131
79726075 TTACTTTATC
*
79726085 TATCATGAATAATCTTATTTGAGTTAGCTGATTTAATATCGCTACTCCAAACAACTCACTGATTT
1 TATCATGAACAATCTTATTTGAGTTAGCTGATTTAATATCGCTACTCCAAACAACTCACTGATTT
** * * * * *
79726150 AAGATTGCAGCTGATATCGTTAAGGTTCGTTGATTTAAGATCACAACTTAAGTTCATTCAATTTA
66 AAGATCACAGCTAATATCATTAAGGTTCGTTAATTTAAGATCACAACCTAAGTTTATTCAATTTA
79726215 A
131 A
* * *
79726216 TATCATGAACAATCTTATTTGAGTTAGCTGATTTAATATCACTACTTCAAACAACTCATTGATTT
1 TATCATGAACAATCTTATTTGAGTTAGCTGATTTAATATCGCTACTCCAAACAACTCACTGATTT
*** * * **
79726281 AAGATTGTAGCTAATATCATTAAGGTTCGTTAATTTAAGACCACAACCTAAGTTAATTTGATTTA
66 AAGATCACAGCTAATATCATTAAGGTTCGTTAATTTAAGATCACAACCTAAGTTTATTCAATTTA
79726346 A
131 A
* * * *
79726347 TATCATGAACAATCTTATTTAAGTTAGCTAATTTAATATTGCTACTCCAAACAACTCGCTGATTT
1 TATCATGAACAATCTTATTTGAGTTAGCTGATTTAATATCGCTACTCCAAACAACTCACTGATTT
* * ** ** *** * * **
79726412 AAGATCACAACTAATTTTTGTTAAGGTTCACTAATTTAAGATTGTAGCTTAAGTTTATTTGATTT
66 AAGATCACAGCTAA-TATCATTAAGGTTCGTTAATTTAAGATCACAACCTAAGTTTATTCAATTT
79726477 AA
130 AA
* * * * * * ** *
79726479 TATTATCAACAATCATATTTGAGTTAGCTAATTTACTATCGCTACTCCAAATAGTTCGCTGATTT
1 TATCATGAACAATCTTATTTGAGTTAGCTGATTTAATATCGCTACTCCAAACAACTCACTGATTT
* * * * *
79726544 AAGATCATAGTTGACATCATTAAGGTTCGTTGATTTAAGATCACAACCTAAGTTTATTCAATTTA
66 AAGATCACAGCTAATATCATTAAGGTTCGTTAATTTAAGATCACAACCTAAGTTTATTCAATTTA
79726609 A
131 A
* *
79726610 TATCATGAACAATCTCATTTGTGTTAGCTGATTT
1 TATCATGAACAATCTTATTTGAGTTAGCTGATTT
79726644 TCCAAACAAT
Statistics
Matches: 358, Mismatches: 69, Indels: 2
0.83 0.16 0.00
Matches are distributed among these distances:
131 252 0.70
132 106 0.30
ACGTcount: A:0.34, C:0.15, G:0.12, T:0.39
Consensus pattern (131 bp):
TATCATGAACAATCTTATTTGAGTTAGCTGATTTAATATCGCTACTCCAAACAACTCACTGATTT
AAGATCACAGCTAATATCATTAAGGTTCGTTAATTTAAGATCACAACCTAAGTTTATTCAATTTA
A
Found at i:79726565 original size:263 final size:262
Alignment explanation
Indices: 79726085--79726643 Score: 704
Period size: 263 Copynumber: 2.1 Consensus size: 262
79726075 TTACTTTATC
*
79726085 TATCATGAATAATCTTATTTGAGTTAGCTGATTTAATATCGCTACTCCAAACAACTCACTGATTT
1 TATCATGAACAATCTTATTTGAGTTAGCTGATTTAATATCGCTACTCCAAACAACTCACTGATTT
** * * ** *
79726150 AAGATTGCAGCTGATATCGTTAAGGTTCGTTGATTTAAGATCACAACTTAAGTTCATTCAATTTA
66 AAGATCACAACTAATATCGTTAAGGTTCACTAATTTAAGATCACAACTTAAGTTCATTCAATTTA
* * * * *
79726215 ATATCATGAACAATCTTATTTGAGTTAGCTGATTTAATATCACTACTTCAAACAACTCATTGATT
131 ATATCATCAACAATCATATTTGAGTTAGCTAATTTAATATCACTACTCCAAACAACTCACTGATT
** * **
79726280 TAAGATTGTAGCTAATATCATTAAGGTTCGTTAATTTAAGACCACAACCTAAGTTAATTTGATTT
196 TAAGATCATAGCTAACATCATTAAGGTTCGTTAATTTAAGACCACAACCTAAGTTAATTCAATTT
79726345 AA
261 AA
* * * *
79726347 TATCATGAACAATCTTATTTAAGTTAGCTAATTTAATATTGCTACTCCAAACAACTCGCTGATTT
1 TATCATGAACAATCTTATTTGAGTTAGCTGATTTAATATCGCTACTCCAAACAACTCACTGATTT
* * *** * * **
79726412 AAGATCACAACTAATTTTTGTTAAGGTTCACTAATTTAAGATTGTAGCTTAAGTTTATTTGATTT
66 AAGATCACAACTAA-TATCGTTAAGGTTCACTAATTTAAGATCACAACTTAAGTTCATTCAATTT
* * * * ** *
79726477 AATATTATCAACAATCATATTTGAGTTAGCTAATTTACTATCGCTACTCCAAATAGTTCGCTGAT
130 AATATCATCAACAATCATATTTGAGTTAGCTAATTTAATATCACTACTCCAAACAACTCACTGAT
* * * * *
79726542 TTAAGATCATAGTTGACATCATTAAGGTTCGTTGATTTAAGATCACAACCTAAGTTTATTCAATT
195 TTAAGATCATAGCTAACATCATTAAGGTTCGTTAATTTAAGACCACAACCTAAGTTAATTCAATT
79726607 TAA
260 TAA
* *
79726610 TATCATGAACAATCTCATTTGTGTTAGCTGATTT
1 TATCATGAACAATCTTATTTGAGTTAGCTGATTT
79726644 TCCAAACAAT
Statistics
Matches: 249, Mismatches: 47, Indels: 1
0.84 0.16 0.00
Matches are distributed among these distances:
262 70 0.28
263 179 0.72
ACGTcount: A:0.34, C:0.15, G:0.12, T:0.39
Consensus pattern (262 bp):
TATCATGAACAATCTTATTTGAGTTAGCTGATTTAATATCGCTACTCCAAACAACTCACTGATTT
AAGATCACAACTAATATCGTTAAGGTTCACTAATTTAAGATCACAACTTAAGTTCATTCAATTTA
ATATCATCAACAATCATATTTGAGTTAGCTAATTTAATATCACTACTCCAAACAACTCACTGATT
TAAGATCATAGCTAACATCATTAAGGTTCGTTAATTTAAGACCACAACCTAAGTTAATTCAATTT
AA
Found at i:79730480 original size:25 final size:25
Alignment explanation
Indices: 79730451--79730500 Score: 100
Period size: 25 Copynumber: 2.0 Consensus size: 25
79730441 CTTAATTGTG
79730451 AAAAAGTTTAGAATTAGGGTTTGGT
1 AAAAAGTTTAGAATTAGGGTTTGGT
79730476 AAAAAGTTTAGAATTAGGGTTTGGT
1 AAAAAGTTTAGAATTAGGGTTTGGT
79730501 GCTAAAATTT
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
25 25 1.00
ACGTcount: A:0.36, C:0.00, G:0.28, T:0.36
Consensus pattern (25 bp):
AAAAAGTTTAGAATTAGGGTTTGGT
Found at i:79733002 original size:14 final size:14
Alignment explanation
Indices: 79732983--79733010 Score: 56
Period size: 14 Copynumber: 2.0 Consensus size: 14
79732973 CAAAATACGA
79732983 CTCATTTCTTCCTC
1 CTCATTTCTTCCTC
79732997 CTCATTTCTTCCTC
1 CTCATTTCTTCCTC
79733011 GTTAGTGATG
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 14 1.00
ACGTcount: A:0.07, C:0.43, G:0.00, T:0.50
Consensus pattern (14 bp):
CTCATTTCTTCCTC
Found at i:79741697 original size:12 final size:12
Alignment explanation
Indices: 79741680--79741704 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
79741670 TGTGAAAAAT
79741680 AAAATAAAATAA
1 AAAATAAAATAA
79741692 AAAATAAAATAA
1 AAAATAAAATAA
79741704 A
1 A
79741705 GAAACACACA
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:0.84, C:0.00, G:0.00, T:0.16
Consensus pattern (12 bp):
AAAATAAAATAA
Found at i:79742567 original size:42 final size:42
Alignment explanation
Indices: 79742503--79742591 Score: 126
Period size: 42 Copynumber: 2.1 Consensus size: 42
79742493 TCCTAATTGG
* *
79742503 GAAAATAATTCCATTGTTCTAATAAACTACTAAAATATAAAA
1 GAAAATAATTCCATTGTCCTAATAAACTACTAAAAGATAAAA
*
79742545 GAAAATAGTTTCC-TTGTCCTAATAAACTACTAAAAGATAAAA
1 GAAAATA-ATTCCATTGTCCTAATAAACTACTAAAAGATAAAA
*
79742587 TAAAA
1 GAAAA
79742592 ATATTCCTAG
Statistics
Matches: 42, Mismatches: 4, Indels: 2
0.88 0.08 0.04
Matches are distributed among these distances:
42 38 0.90
43 4 0.10
ACGTcount: A:0.52, C:0.12, G:0.07, T:0.29
Consensus pattern (42 bp):
GAAAATAATTCCATTGTCCTAATAAACTACTAAAAGATAAAA
Found at i:79746482 original size:42 final size:42
Alignment explanation
Indices: 79746418--79746506 Score: 133
Period size: 42 Copynumber: 2.1 Consensus size: 42
79746408 TCCTAATTGG
* *
79746418 GAAAATAGTTCCCTTATTCTAATAAACTACTAAAATATAAAA
1 GAAAATAGTTCCCTTATCCTAATAAACTACTAAAAGATAAAA
* *
79746460 GAAAATAGTTCTCTTGTCCTAATAAACTACTAAAAGATAAAA
1 GAAAATAGTTCCCTTATCCTAATAAACTACTAAAAGATAAAA
*
79746502 TAAAA
1 GAAAA
79746507 ATATTCCTAG
Statistics
Matches: 42, Mismatches: 5, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
42 42 1.00
ACGTcount: A:0.51, C:0.13, G:0.07, T:0.29
Consensus pattern (42 bp):
GAAAATAGTTCCCTTATCCTAATAAACTACTAAAAGATAAAA
Found at i:79746553 original size:19 final size:18
Alignment explanation
Indices: 79746531--79746570 Score: 71
Period size: 19 Copynumber: 2.2 Consensus size: 18
79746521 TGAATAAAAC
79746531 TTATCTACCTAAATAAGAT
1 TTATCTACCTAAATAA-AT
79746550 TTATCTACCTAAATAAAT
1 TTATCTACCTAAATAAAT
79746568 TTA
1 TTA
79746571 AAATATATAC
Statistics
Matches: 21, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
18 5 0.24
19 16 0.76
ACGTcount: A:0.42, C:0.15, G:0.03, T:0.40
Consensus pattern (18 bp):
TTATCTACCTAAATAAAT
Found at i:79752330 original size:14 final size:14
Alignment explanation
Indices: 79752299--79752329 Score: 55
Period size: 13 Copynumber: 2.3 Consensus size: 14
79752289 TTCAATTGAA
79752299 TTTTATTTTTTTAT
1 TTTTATTTTTTTAT
79752313 TTTTA-TTTTTTAT
1 TTTTATTTTTTTAT
79752326 TTTT
1 TTTT
79752330 TGCAAAAACA
Statistics
Matches: 17, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
13 12 0.71
14 5 0.29
ACGTcount: A:0.13, C:0.00, G:0.00, T:0.87
Consensus pattern (14 bp):
TTTTATTTTTTTAT
Found at i:79754119 original size:2 final size:2
Alignment explanation
Indices: 79754112--79754136 Score: 50
Period size: 2 Copynumber: 12.5 Consensus size: 2
79754102 TTCATTTAAG
79754112 TC TC TC TC TC TC TC TC TC TC TC TC T
1 TC TC TC TC TC TC TC TC TC TC TC TC T
79754137 ATATATATAT
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:0.00, C:0.48, G:0.00, T:0.52
Consensus pattern (2 bp):
TC
Found at i:79762815 original size:53 final size:54
Alignment explanation
Indices: 79762632--79762841 Score: 246
Period size: 55 Copynumber: 3.9 Consensus size: 54
79762622 ATTAGGGCTT
*
79762632 AAGGATACCATGTAAGACCATGCCAAGGCATGGCAATTGGTAAGGTTTC-TAAGGA
1 AAGGATACCATGTAAGACCATGCCAAGACATGGC-ATTGGTAA-GTTTCATAAGGA
* * * **
79762687 AAGGATATCATGTAAGACCACGTCAAGACATGGCATTCATAAGTTTCTATAAGGAA
1 AAGGATACCATGTAAGACCATGCCAAGACATGGCATTGGTAAGTTTC-ATAAGG-A
* * * *
79762743 AAGG-TCCCATGTAAGACCATGCCAAGGCATGGCATTGGTCAG-TTCATAAGGC
1 AAGGATACCATGTAAGACCATGCCAAGACATGGCATTGGTAAGTTTCATAAGGA
* * *
79762795 AAGGATACCATGTAAGACCATGTCGAGACATGGCAATGGTAAGTTTC
1 AAGGATACCATGTAAGACCATGCCAAGACATGGCATTGGTAAGTTTC
79762842 CAAAGGATGC
Statistics
Matches: 129, Mismatches: 21, Indels: 11
0.80 0.13 0.07
Matches are distributed among these distances:
52 4 0.03
53 43 0.33
54 12 0.09
55 65 0.50
56 5 0.04
ACGTcount: A:0.34, C:0.18, G:0.25, T:0.23
Consensus pattern (54 bp):
AAGGATACCATGTAAGACCATGCCAAGACATGGCATTGGTAAGTTTCATAAGGA
Found at i:79762838 original size:108 final size:110
Alignment explanation
Indices: 79762639--79762841 Score: 304
Period size: 108 Copynumber: 1.9 Consensus size: 110
79762629 CTTAAGGATA
*
79762639 CCATGTAAGACCATGCCAAGGCATGGCAATTGGTAAGGTTTCTAAGGAAAGGATATCATGTAAGA
1 CCATGTAAGACCATGCCAAGGCATGGCAATTGGTAAGGTTTCTAAGGAAAGGATACCATGTAAGA
*
79762704 CCACGTCAAGACATGGCATTCATAAGTTTCTATAAGGAAAAGGTC
66 CCACGTCAAGACATGGCAATCATAAGTTTCTATAAGGAAAAGGTC
* *
79762749 CCATGTAAGACCATGCCAAGGCATGGC-ATTGGTCA-G-TTCATAAGGCAAGGATACCATGTAAG
1 CCATGTAAGACCATGCCAAGGCATGGCAATTGGTAAGGTTTC-TAAGGAAAGGATACCATGTAAG
* * **
79762811 ACCATGTCGAGACATGGCAATGGTAAGTTTC
65 ACCACGTCAAGACATGGCAATCATAAGTTTC
79762842 CAAAGGATGC
Statistics
Matches: 84, Mismatches: 8, Indels: 4
0.88 0.08 0.04
Matches are distributed among these distances:
107 3 0.04
108 47 0.56
109 7 0.08
110 27 0.32
ACGTcount: A:0.33, C:0.19, G:0.25, T:0.23
Consensus pattern (110 bp):
CCATGTAAGACCATGCCAAGGCATGGCAATTGGTAAGGTTTCTAAGGAAAGGATACCATGTAAGA
CCACGTCAAGACATGGCAATCATAAGTTTCTATAAGGAAAAGGTC
Found at i:79762876 original size:49 final size:49
Alignment explanation
Indices: 79762795--79762888 Score: 134
Period size: 49 Copynumber: 1.9 Consensus size: 49
79762785 TTCATAAGGC
* * * *
79762795 AAGGATACCATGTAAGACCATGTCGAGACATGGCAATGGTAAGTTTCCA
1 AAGGATACCACGTAAGACCATGACAAGACATGGAAATGGTAAGTTTCCA
* *
79762844 AAGGATGCCACGTAAGACCATGACAAGTCATGGAAATGGTAAGTT
1 AAGGATACCACGTAAGACCATGACAAGACATGGAAATGGTAAGTT
79762889 ACCCGTGTAT
Statistics
Matches: 39, Mismatches: 6, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
49 39 1.00
ACGTcount: A:0.36, C:0.17, G:0.26, T:0.21
Consensus pattern (49 bp):
AAGGATACCACGTAAGACCATGACAAGACATGGAAATGGTAAGTTTCCA
Found at i:79763100 original size:16 final size:16
Alignment explanation
Indices: 79763079--79763109 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
79763069 ATAAATTTGA
79763079 TTAAGTAAGTAAGTAT
1 TTAAGTAAGTAAGTAT
*
79763095 TTAAGTAAGTGAGTA
1 TTAAGTAAGTAAGTA
79763110 AGTGAAGAAG
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
16 14 1.00
ACGTcount: A:0.42, C:0.00, G:0.23, T:0.35
Consensus pattern (16 bp):
TTAAGTAAGTAAGTAT
Found at i:79766375 original size:46 final size:46
Alignment explanation
Indices: 79766322--79766522 Score: 260
Period size: 46 Copynumber: 4.4 Consensus size: 46
79766312 GTTTGCCTCC
* * **
79766322 TGAAAGATACCTTGGCAACCTGATATGAAATGTGTAAGACCATGGT
1 TGAAAGATACCATGGCAACCTGACATGAAATGAATAAGACCATGGT
* *
79766368 TGAAAGATACCATGGCAACCTGATATAAAATGAATAAGACCATGGT
1 TGAAAGATACCATGGCAACCTGACATGAAATGAATAAGACCATGGT
* *
79766414 TGAAAGATACCATGGCAACGTGACATGAAAAGAATAAGACCATGGT
1 TGAAAGATACCATGGCAACCTGACATGAAATGAATAAGACCATGGT
* * *
79766460 TGAAAGATACCATGGCAACATGACA-GAAAATGAGTAAGACCATAGT
1 TGAAAGATACCATGGCAACCTGACATG-AAATGAATAAGACCATGGT
* * *
79766506 TTAAAGACACTATGGCA
1 TGAAAGATACCATGGCA
79766523 TCATGTCAAA
Statistics
Matches: 139, Mismatches: 15, Indels: 2
0.89 0.10 0.01
Matches are distributed among these distances:
45 1 0.01
46 138 0.99
ACGTcount: A:0.42, C:0.15, G:0.22, T:0.21
Consensus pattern (46 bp):
TGAAAGATACCATGGCAACCTGACATGAAATGAATAAGACCATGGT
Found at i:79771051 original size:93 final size:93
Alignment explanation
Indices: 79770920--79771090 Score: 263
Period size: 93 Copynumber: 1.8 Consensus size: 93
79770910 CCCATAAGTG
* * *
79770920 AACTCGGACTCAACTCAAAGAGCTCAGGCGTTCGCATCCATAAGTGAACTC-AGACTCAACTCAA
1 AACTCGGACTCAACCCAAAGAGCTCAGACATTCGCATCCATAAGTGAACTCGA-ACTCAACTCAA
79770984 CGAGCTCGGATGCCTAGTTACATCTCACA
65 CGAGCTCGGATGCCTAGTTACATCTCACA
* * *
79771013 AACTCGGACTCAACCCAACGAGTTCTGACATTCGCATCCATAAGTGAACTCGAACTCAACTCAAC
1 AACTCGGACTCAACCCAAAGAGCTCAGACATTCGCATCCATAAGTGAACTCGAACTCAACTCAAC
*
79771078 GAGTTCGGATGCC
66 GAGCTCGGATGCC
79771091 CAAATATCCC
Statistics
Matches: 70, Mismatches: 7, Indels: 2
0.89 0.09 0.03
Matches are distributed among these distances:
93 69 0.99
94 1 0.01
ACGTcount: A:0.31, C:0.30, G:0.18, T:0.20
Consensus pattern (93 bp):
AACTCGGACTCAACCCAAAGAGCTCAGACATTCGCATCCATAAGTGAACTCGAACTCAACTCAAC
GAGCTCGGATGCCTAGTTACATCTCACA
Found at i:79771083 original size:46 final size:46
Alignment explanation
Indices: 79770911--79771080 Score: 136
Period size: 46 Copynumber: 3.7 Consensus size: 46
79770901 TGAAACCCGC
* * * * *
79770911 CCATAAGTGAACTCGGACTCAACTCAAAGAGCTCAGGCGTTCGCAT
1 CCATAAGTGAACTCGAACTCAACTCAACGAGCTCTGACATTCGCAT
* *
79770957 CCATAAGTGAACTC-AGACTCAACTCAACGAGCTCGGATGCCTAGTT-ACAT
1 CCATAAGTGAACTCGA-ACTCAACTCAACGAGCTC---TGAC-A-TTCGCAT
* * * *
79771007 CTCA-CA---AACTCGGACTCAACCCAACGAGTTCTGACATTCGCAT
1 C-CATAAGTGAACTCGAACTCAACTCAACGAGCTCTGACATTCGCAT
79771050 CCATAAGTGAACTCGAACTCAACTCAACGAG
1 CCATAAGTGAACTCGAACTCAACTCAACGAG
79771081 TTCGGATGCC
Statistics
Matches: 96, Mismatches: 15, Indels: 26
0.70 0.11 0.19
Matches are distributed among these distances:
42 4 0.04
43 6 0.06
44 3 0.03
46 51 0.53
47 21 0.22
49 2 0.02
50 5 0.05
51 4 0.04
ACGTcount: A:0.32, C:0.30, G:0.18, T:0.20
Consensus pattern (46 bp):
CCATAAGTGAACTCGAACTCAACTCAACGAGCTCTGACATTCGCAT
Found at i:79773515 original size:30 final size:31
Alignment explanation
Indices: 79773480--79773559 Score: 94
Period size: 30 Copynumber: 2.6 Consensus size: 31
79773470 CAAGAAAAAC
* *
79773480 GAATAAAGAAATCCAAGATAGAGA-AACCCG
1 GAATAAAGAAATCCAAGATAAAGAGAACCAG
*
79773510 GAATAAAGAAATCC-AGAATAAAGAGATCCAG
1 GAATAAAGAAATCCAAG-ATAAAGAGAACCAG
*
79773541 G-ATAAAGAAACCCAAGATA
1 GAATAAAGAAATCCAAGATA
79773560 CGATACTATG
Statistics
Matches: 43, Mismatches: 4, Indels: 6
0.81 0.08 0.11
Matches are distributed among these distances:
29 2 0.05
30 34 0.79
31 7 0.16
ACGTcount: A:0.55, C:0.15, G:0.19, T:0.11
Consensus pattern (31 bp):
GAATAAAGAAATCCAAGATAAAGAGAACCAG
Found at i:79773559 original size:15 final size:15
Alignment explanation
Indices: 79773482--79773559 Score: 70
Period size: 15 Copynumber: 5.2 Consensus size: 15
79773472 AGAAAAACGA
79773482 ATAAAGAAATCCAAG
1 ATAAAGAAATCCAAG
* **
79773497 ATAGAGAAA-CCCGG
1 ATAAAGAAATCCAAG
79773511 AATAAAGAAATCC-AG
1 -ATAAAGAAATCCAAG
* *
79773526 AATAAAGAGATCCAGG
1 -ATAAAGAAATCCAAG
*
79773542 ATAAAGAAACCCAAG
1 ATAAAGAAATCCAAG
79773557 ATA
1 ATA
79773560 CGATACTATG
Statistics
Matches: 50, Mismatches: 10, Indels: 6
0.76 0.15 0.09
Matches are distributed among these distances:
14 3 0.06
15 44 0.88
16 3 0.06
ACGTcount: A:0.55, C:0.15, G:0.18, T:0.12
Consensus pattern (15 bp):
ATAAAGAAATCCAAG
Found at i:79776607 original size:93 final size:93
Alignment explanation
Indices: 79776481--79776652 Score: 283
Period size: 93 Copynumber: 1.8 Consensus size: 93
79776471 GCCCATAAGT
*
79776481 GAACTCGGACTCAACTCACTGAGCTCGGGCATTCGCATCCATAAGTGAACTCAGACTCAACTCAA
1 GAACTCGGACTCAACTCACTGAGCTCGGACATTCGCATCCATAAGTGAACTCAGACTCAACTCAA
79776546 CGAGCTCGGATGCCTAGTTACATCTCAC
66 CGAGCTCGGATGCCTAGTTACATCTCAC
* * *
79776574 GAACTTGGACTCAACTCAAC-GAGTTCGGACATTCGCATCCATAAGTGAACTCCGACTCAACTCA
1 GAACTCGGACTCAACTC-ACTGAGCTCGGACATTCGCATCCATAAGTGAACTCAGACTCAACTCA
*
79776638 ACGAGTTCGGATGCC
65 ACGAGCTCGGATGCC
79776653 CAAATATCCC
Statistics
Matches: 73, Mismatches: 5, Indels: 2
0.91 0.06 0.03
Matches are distributed among these distances:
93 71 0.97
94 2 0.03
ACGTcount: A:0.28, C:0.30, G:0.20, T:0.22
Consensus pattern (93 bp):
GAACTCGGACTCAACTCACTGAGCTCGGACATTCGCATCCATAAGTGAACTCAGACTCAACTCAA
CGAGCTCGGATGCCTAGTTACATCTCAC
Found at i:79776648 original size:46 final size:46
Alignment explanation
Indices: 79776473--79776648 Score: 182
Period size: 46 Copynumber: 3.8 Consensus size: 46
79776463 TGTAACCCGC
*
79776473 CCATAAGTGAACTCGGACTCAACTC-ACTGAGCTCGGGCATTCGCAT
1 CCATAAGTGAACTCGGACTCAACTCAAC-GAGCTCGGACATTCGCAT
* *
79776519 CCATAAGTGAACTCAGACTCAACTCAACGAGCTCGGATGCCTAGTT-ACAT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGGA---C-A-TTCGCAT
* * * *
79776569 -C-TCA-CGAACTTGGACTCAACTCAACGAGTTCGGACATTCGCAT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGGACATTCGCAT
* *
79776612 CCATAAGTGAACTCCGACTCAACTCAACGAGTTCGGA
1 CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGGA
79776649 TGCCCAAATA
Statistics
Matches: 107, Mismatches: 13, Indels: 20
0.76 0.09 0.14
Matches are distributed among these distances:
42 2 0.02
43 4 0.04
44 2 0.02
45 2 0.02
46 59 0.55
47 28 0.26
48 2 0.02
49 2 0.02
50 4 0.04
51 2 0.02
ACGTcount: A:0.30, C:0.30, G:0.19, T:0.22
Consensus pattern (46 bp):
CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGGACATTCGCAT
Found at i:79781659 original size:23 final size:23
Alignment explanation
Indices: 79781629--79781774 Score: 113
Period size: 22 Copynumber: 6.3 Consensus size: 23
79781619 GATGAACAAG
*
79781629 AAGCTCTAATGAGCTGAAACGGT
1 AAGCTCTAATGAGCTGAAACAGT
* *
79781652 AAGCTCT-ATCGAGTTG-AACAAT
1 AAGCTCTAAT-GAGCTGAAACAGT
* *
79781674 AAGCTCTATTGAGATG-AACAGT
1 AAGCTCTAATGAGCTGAAACAGT
79781696 AAGCTCATACA--AGCTGAAACAGT
1 AAGCTC-TA-ATGAGCTGAAACAGT
* *
79781719 AAGCTCCAATGAGCTGAAAATAGT
1 AAGCTCTAATGAGCTG-AAACAGT
* *
79781743 AAGCTCTTACGAGCTGATATATCAGT
1 AAGCTCTAATGAGCTGA-A-A-CAGT
79781769 AAGCTC
1 AAGCTC
79781775 ATACGATCTG
Statistics
Matches: 98, Mismatches: 14, Indels: 19
0.75 0.11 0.15
Matches are distributed among these distances:
21 1 0.01
22 34 0.35
23 33 0.34
24 20 0.20
25 1 0.01
26 9 0.09
ACGTcount: A:0.37, C:0.18, G:0.21, T:0.24
Consensus pattern (23 bp):
AAGCTCTAATGAGCTGAAACAGT
Found at i:79781678 original size:45 final size:45
Alignment explanation
Indices: 79781621--79781759 Score: 138
Period size: 45 Copynumber: 3.1 Consensus size: 45
79781611 CCTAAGCTGA
* * * *
79781621 TGAACAAGAAGCTCTAATGAGCTGAAACGGTAAGCTC-TATCGAGT
1 TGAACAATAAGCTCTAATGAGCTGAAACAGTAAGCTCATA-CAAGC
* *
79781666 TGAACAATAAGCTCTATTGAGATG-AACAGTAAGCTCATACAAGC
1 TGAACAATAAGCTCTAATGAGCTGAAACAGTAAGCTCATACAAGC
* * * * *
79781710 TGAAACAGTAAGCTCCAATGAGCTGAAAATAGTAAGCTCTTACGAGC
1 TG-AACAATAAGCTCTAATGAGCTG-AAACAGTAAGCTCATACAAGC
79781757 TGA
1 TGA
79781760 TATATCAGTA
Statistics
Matches: 77, Mismatches: 13, Indels: 7
0.79 0.13 0.07
Matches are distributed among these distances:
44 16 0.21
45 41 0.53
46 1 0.01
47 19 0.25
ACGTcount: A:0.38, C:0.18, G:0.22, T:0.22
Consensus pattern (45 bp):
TGAACAATAAGCTCTAATGAGCTGAAACAGTAAGCTCATACAAGC
Found at i:79781756 original size:24 final size:24
Alignment explanation
Indices: 79781693--79781780 Score: 90
Period size: 24 Copynumber: 3.6 Consensus size: 24
79781683 TGAGATGAAC
* *
79781693 AGTAAGCTCATACAAGCTG-AAAC
1 AGTAAGCTCATACGAGCTGAAAAT
*
79781716 AGTAAGCTCCA-ATGAGCTGAAAAT
1 AGTAAGCT-CATACGAGCTGAAAAT
* *
79781740 AGTAAGCTCTTACGAGCTGATATAT
1 AGTAAGCTCATACGAGCTGA-AAAT
79781765 CAGTAAGCTCATACGA
1 -AGTAAGCTCATACGA
79781781 TCTGTGGTGA
Statistics
Matches: 53, Mismatches: 7, Indels: 7
0.79 0.10 0.10
Matches are distributed among these distances:
23 15 0.28
24 21 0.40
25 3 0.06
26 14 0.26
ACGTcount: A:0.39, C:0.19, G:0.19, T:0.23
Consensus pattern (24 bp):
AGTAAGCTCATACGAGCTGAAAAT
Found at i:79787775 original size:16 final size:17
Alignment explanation
Indices: 79787754--79787793 Score: 55
Period size: 16 Copynumber: 2.4 Consensus size: 17
79787744 TATGAACATT
*
79787754 AGACACAAACAAT-ATA
1 AGACACAAACAATAACA
*
79787770 AGACACAAGCAATAACA
1 AGACACAAACAATAACA
79787787 AGACACA
1 AGACACA
79787794 TAATGACGTA
Statistics
Matches: 21, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
16 12 0.57
17 9 0.43
ACGTcount: A:0.60, C:0.23, G:0.10, T:0.07
Consensus pattern (17 bp):
AGACACAAACAATAACA
Found at i:79792301 original size:32 final size:32
Alignment explanation
Indices: 79792244--79792304 Score: 86
Period size: 32 Copynumber: 1.9 Consensus size: 32
79792234 TGGTAAGCCG
***
79792244 TGTGCGAGACACGAGCTCGGTAAATTGGGCCA
1 TGTGCGAGACACGAGCTCAAAAAATTGGGCCA
*
79792276 TGTGCGAGACACGGGCTCAAAAAATTGGG
1 TGTGCGAGACACGAGCTCAAAAAATTGGG
79792305 TCGTGTGGGC
Statistics
Matches: 25, Mismatches: 4, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
32 25 1.00
ACGTcount: A:0.28, C:0.20, G:0.34, T:0.18
Consensus pattern (32 bp):
TGTGCGAGACACGAGCTCAAAAAATTGGGCCA
Found at i:79800123 original size:21 final size:21
Alignment explanation
Indices: 79800099--79800141 Score: 86
Period size: 21 Copynumber: 2.0 Consensus size: 21
79800089 TTTGTTTATG
79800099 TATCTCCTTACTTTGCTTCTT
1 TATCTCCTTACTTTGCTTCTT
79800120 TATCTCCTTACTTTGCTTCTT
1 TATCTCCTTACTTTGCTTCTT
79800141 T
1 T
79800142 CGTTGATGTG
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
21 22 1.00
ACGTcount: A:0.09, C:0.28, G:0.05, T:0.58
Consensus pattern (21 bp):
TATCTCCTTACTTTGCTTCTT
Found at i:79801023 original size:36 final size:36
Alignment explanation
Indices: 79800976--79801060 Score: 163
Period size: 36 Copynumber: 2.4 Consensus size: 36
79800966 TATTTAGCAT
79800976 ATAAAAATTATATACAATAGTTGATGTTTTTATAAA
1 ATAAAAATTATATACAATAGTTGATGTTTTTATAAA
79801012 ATAAAAATTATATACAATAGTTGATGTTTTTATAAA
1 ATAAAAATTATATACAATAGTTGATGTTTTTATAAA
79801048 AT-AAAATTATATA
1 ATAAAAATTATATA
79801061 TATATAGGGT
Statistics
Matches: 49, Mismatches: 0, Indels: 1
0.98 0.00 0.02
Matches are distributed among these distances:
35 11 0.22
36 38 0.78
ACGTcount: A:0.49, C:0.02, G:0.07, T:0.41
Consensus pattern (36 bp):
ATAAAAATTATATACAATAGTTGATGTTTTTATAAA
Found at i:79805727 original size:23 final size:23
Alignment explanation
Indices: 79805683--79805727 Score: 56
Period size: 23 Copynumber: 2.0 Consensus size: 23
79805673 AGTATATAAT
* *
79805683 ATTATATATTTAAATTTTAAATG
1 ATTATATATTTAAATGTAAAATG
79805706 ATTATAT-TTTAATATGTAAAAT
1 ATTATATATTTAA-ATGTAAAAT
79805728 ATAGTTTATA
Statistics
Matches: 19, Mismatches: 2, Indels: 2
0.83 0.09 0.09
Matches are distributed among these distances:
22 5 0.26
23 14 0.74
ACGTcount: A:0.44, C:0.00, G:0.04, T:0.51
Consensus pattern (23 bp):
ATTATATATTTAAATGTAAAATG
Found at i:79811403 original size:22 final size:22
Alignment explanation
Indices: 79811379--79811419 Score: 66
Period size: 22 Copynumber: 1.9 Consensus size: 22
79811369 ATAAAATTAA
79811379 AAAAG-AAAAAAGAATCAATCC
1 AAAAGTAAAAAAGAATCAATCC
*
79811400 AAAAGTAATAAAGAATCAAT
1 AAAAGTAAAAAAGAATCAAT
79811420 TCATTCTCAA
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
21 5 0.28
22 13 0.72
ACGTcount: A:0.66, C:0.10, G:0.10, T:0.15
Consensus pattern (22 bp):
AAAAGTAAAAAAGAATCAATCC
Found at i:79813760 original size:29 final size:28
Alignment explanation
Indices: 79813727--79813801 Score: 71
Period size: 29 Copynumber: 2.6 Consensus size: 28
79813717 AATAAAAATA
79813727 AATAAAAGTTATAAAAAT-TATTAAATTTT
1 AATAAAA-TTATAAAAATAT-TTAAATTTT
* *
79813756 AATAAAAATATAAGAAATATTTAATTTTT
1 AATAAAATTATAA-AAATATTTAAATTTT
* *
79813785 ATTAAAAATTAGAAAAA
1 AAT-AAAATTATAAAAA
79813802 ATAATAAAAA
Statistics
Matches: 38, Mismatches: 5, Indels: 6
0.78 0.10 0.12
Matches are distributed among these distances:
28 5 0.13
29 24 0.63
30 9 0.24
ACGTcount: A:0.59, C:0.00, G:0.04, T:0.37
Consensus pattern (28 bp):
AATAAAATTATAAAAATATTTAAATTTT
Found at i:79813776 original size:28 final size:29
Alignment explanation
Indices: 79813727--79813793 Score: 75
Period size: 29 Copynumber: 2.3 Consensus size: 29
79813717 AATAAAAATA
*
79813727 AATAAAAGTTATAAAAATTA-TTAAATTTT
1 AATAAAA-ATATAAAAATTATTTAAATTTT
*
79813756 AATAAAAATATAAGAAA-TATTTAATTTTT
1 AATAAAAATATAA-AAATTATTTAAATTTT
*
79813785 ATTAAAAAT
1 AATAAAAAT
79813794 TAGAAAAAAT
Statistics
Matches: 33, Mismatches: 3, Indels: 4
0.82 0.08 0.10
Matches are distributed among these distances:
28 7 0.21
29 26 0.79
ACGTcount: A:0.57, C:0.00, G:0.03, T:0.40
Consensus pattern (29 bp):
AATAAAAATATAAAAATTATTTAAATTTT
Found at i:79814161 original size:17 final size:18
Alignment explanation
Indices: 79814139--79814172 Score: 61
Period size: 17 Copynumber: 1.9 Consensus size: 18
79814129 TTTTATAAAA
79814139 TTTTACAAT-TTTATATT
1 TTTTACAATGTTTATATT
79814156 TTTTACAATGTTTATAT
1 TTTTACAATGTTTATAT
79814173 ATATTTTTCT
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
17 9 0.56
18 7 0.44
ACGTcount: A:0.29, C:0.06, G:0.03, T:0.62
Consensus pattern (18 bp):
TTTTACAATGTTTATATT
Found at i:79814218 original size:20 final size:19
Alignment explanation
Indices: 79814147--79814222 Score: 64
Period size: 20 Copynumber: 3.7 Consensus size: 19
79814137 AATTTTACAA
79814147 TTTTATATTTTTTACAATGTT
1 TTTTATATTTTTTA-AAT-TT
*
79814168 TATATATATTTTTCT-AATTT
1 T-TTTATATTTTT-TAAATTT
* *
79814188 TTAGTAAATTTTTTAAATATT
1 TT-TTATATTTTTTAAAT-TT
79814209 TTTTATATTTTTTA
1 TTTTATATTTTTTA
79814223 TTAAAGTTTA
Statistics
Matches: 45, Mismatches: 5, Indels: 11
0.74 0.08 0.18
Matches are distributed among these distances:
19 2 0.04
20 24 0.53
21 8 0.18
22 10 0.22
23 1 0.02
ACGTcount: A:0.29, C:0.03, G:0.03, T:0.66
Consensus pattern (19 bp):
TTTTATATTTTTTAAATTT
Found at i:79814242 original size:10 final size:9
Alignment explanation
Indices: 79814115--79814276 Score: 96
Period size: 9 Copynumber: 17.0 Consensus size: 9
79814105 TATGCATTTA
79814115 ATAATTTTT
1 ATAATTTTT
*
79814124 ATGATTTTT
1 ATAATTTTT
*
79814133 ATAAAATTTT
1 AT-AATTTTT
*
79814143 ACAA-TTTT
1 ATAATTTTT
*
79814151 ATATTTTTT
1 ATAATTTTT
*
79814160 ACAATGTTTAT
1 ATAAT-TTT-T
79814171 ATATATTTTT
1 ATA-ATTTTT
*
79814181 CTAATTTTT
1 ATAATTTTT
79814190 AGTAAATTTTTT
1 A-T-AA-TTTTT
*
79814202 AAATATTTTTT
1 --ATAATTTTT
*
79814213 ATATTTTTT
1 ATAATTTTT
* *
79814222 ATTAAAGTTTA
1 A-T-AATTTTT
79814233 ATAATTTTT
1 ATAATTTTT
79814242 ATAATTTTT
1 ATAATTTTT
*
79814251 ATTGATTTTT
1 A-TAATTTTT
79814261 AT--TTTTT
1 ATAATTTTT
79814268 ATAATTTTT
1 ATAATTTTT
79814277 TTGCCACATG
Statistics
Matches: 120, Mismatches: 18, Indels: 30
0.71 0.11 0.18
Matches are distributed among these distances:
7 7 0.06
8 6 0.05
9 56 0.47
10 23 0.19
11 18 0.15
12 8 0.07
13 1 0.01
14 1 0.01
ACGTcount: A:0.31, C:0.02, G:0.03, T:0.64
Consensus pattern (9 bp):
ATAATTTTT
Found at i:79815044 original size:14 final size:15
Alignment explanation
Indices: 79815025--79815053 Score: 51
Period size: 14 Copynumber: 2.0 Consensus size: 15
79815015 TTGTAGATAT
79815025 TATATATA-TAAAAA
1 TATATATACTAAAAA
79815039 TATATATACTAAAAA
1 TATATATACTAAAAA
79815054 CTTTTTATTT
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
14 8 0.57
15 6 0.43
ACGTcount: A:0.62, C:0.03, G:0.00, T:0.34
Consensus pattern (15 bp):
TATATATACTAAAAA
Found at i:79818915 original size:15 final size:16
Alignment explanation
Indices: 79818897--79818926 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
79818887 AATATCTATT
79818897 TAATTA-CTAAAAATC
1 TAATTATCTAAAAATC
79818912 TAATTATCTAAAAAT
1 TAATTATCTAAAAAT
79818927 AAAAAAAGTT
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
15 6 0.43
16 8 0.57
ACGTcount: A:0.53, C:0.10, G:0.00, T:0.37
Consensus pattern (16 bp):
TAATTATCTAAAAATC
Found at i:79820318 original size:13 final size:13
Alignment explanation
Indices: 79820300--79820330 Score: 53
Period size: 13 Copynumber: 2.4 Consensus size: 13
79820290 CATGTAAATT
79820300 ATTTTTTATAATA
1 ATTTTTTATAATA
*
79820313 ATTTTTTATCATA
1 ATTTTTTATAATA
79820326 ATTTT
1 ATTTT
79820331 AGAAATTTGT
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
13 17 1.00
ACGTcount: A:0.32, C:0.03, G:0.00, T:0.65
Consensus pattern (13 bp):
ATTTTTTATAATA
Found at i:79821910 original size:20 final size:20
Alignment explanation
Indices: 79821864--79821915 Score: 86
Period size: 20 Copynumber: 2.6 Consensus size: 20
79821854 GTGTGGTTAC
*
79821864 ACACGCCTGTGTGGCTTGGG
1 ACACGCTTGTGTGGCTTGGG
79821884 ACACGCTTGTGTGGCTTGGG
1 ACACGCTTGTGTGGCTTGGG
*
79821904 ACACGCTCGTGT
1 ACACGCTTGTGT
79821916 CCTCAGCCCG
Statistics
Matches: 30, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
20 30 1.00
ACGTcount: A:0.12, C:0.25, G:0.37, T:0.27
Consensus pattern (20 bp):
ACACGCTTGTGTGGCTTGGG
Found at i:79823780 original size:28 final size:28
Alignment explanation
Indices: 79823748--79823831 Score: 74
Period size: 28 Copynumber: 3.2 Consensus size: 28
79823738 AACTGTGATC
79823748 ACGTGTGTAGTACTAAGTGAAGGCTACT
1 ACGTGTGTAGTACTAAGTGAAGGCTACT
* * *
79823776 ACGTGTATCAG-A-T-GGT-TAGG-T-C-
1 ACGTGTGT-AGTACTAAGTGAAGGCTACT
*
79823798 ACGTGTGTAGTACTAAGTGCAGGCTACT
1 ACGTGTGTAGTACTAAGTGAAGGCTACT
79823826 ACGTGT
1 ACGTGT
79823832 ACCAGATAAT
Statistics
Matches: 42, Mismatches: 6, Indels: 16
0.66 0.09 0.25
Matches are distributed among these distances:
21 2 0.05
22 8 0.19
23 2 0.05
24 3 0.07
25 6 0.14
26 3 0.07
27 2 0.05
28 14 0.33
29 2 0.05
ACGTcount: A:0.25, C:0.15, G:0.30, T:0.30
Consensus pattern (28 bp):
ACGTGTGTAGTACTAAGTGAAGGCTACT
Found at i:79823810 original size:50 final size:49
Alignment explanation
Indices: 79823700--79823884 Score: 199
Period size: 50 Copynumber: 3.7 Consensus size: 49
79823690 TGAGGTCGCA
* * * * * *
79823700 TGTGTAGTATTAAGTGCAGGCTACTATGCGTACCTGAAAACTGTGATCACG
1 TGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGATAA-T-TGGTCACG
* * **
79823751 TGTGTAGTACTAAGTGAAGGCTACTACGTGTATCAGATGGTTAGGTCACG
1 TGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGATAATT-GGTCACG
***
79823801 TGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGATAATTGGTCGTA
1 TGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGATAATTGGTCACG
* * *
79823850 TGTGTAGTACTATGTGCAGGCTACTATGCGTACCA
1 TGTGTAGTACTAAGTGCAGGCTACTACGTGTACCA
79823885 AATAGCTTTG
Statistics
Matches: 113, Mismatches: 20, Indels: 4
0.82 0.15 0.03
Matches are distributed among these distances:
49 37 0.33
50 45 0.40
51 31 0.27
ACGTcount: A:0.26, C:0.17, G:0.27, T:0.30
Consensus pattern (49 bp):
TGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGATAATTGGTCACG
Found at i:79829675 original size:16 final size:16
Alignment explanation
Indices: 79829654--79829685 Score: 55
Period size: 16 Copynumber: 2.0 Consensus size: 16
79829644 GTTGTAATGC
79829654 CCCAAAAATCCCGAAA
1 CCCAAAAATCCCGAAA
*
79829670 CCCAAAAATCCTGAAA
1 CCCAAAAATCCCGAAA
79829686 TCTCGAACTT
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
16 15 1.00
ACGTcount: A:0.50, C:0.34, G:0.06, T:0.09
Consensus pattern (16 bp):
CCCAAAAATCCCGAAA
Found at i:79831180 original size:29 final size:29
Alignment explanation
Indices: 79831125--79831242 Score: 109
Period size: 29 Copynumber: 4.2 Consensus size: 29
79831115 GTGAGCATGA
* **
79831125 ATAT-AATATGATTTGGG-CTAACGGGCC
1 ATATGAATATGAATTGGGCCTAGTGGGCC
* *
79831152 ATATGAATGTGAATTGAGCCTAGTGGGCC
1 ATATGAATATGAATTGGGCCTAGTGGGCC
* *
79831181 ATAAGAATATGAACTGGGCC-AGATGGGCC
1 ATATGAATATGAATTGGGCCTAG-TGGGCC
* * *
79831210 ATTTGGATAAG-ATTGGGCCTAGTGGGCC
1 ATATGAATATGAATTGGGCCTAGTGGGCC
79831238 ATATG
1 ATATG
79831243 CATGTATGTA
Statistics
Matches: 72, Mismatches: 15, Indels: 7
0.77 0.16 0.07
Matches are distributed among these distances:
27 4 0.06
28 29 0.40
29 39 0.54
ACGTcount: A:0.29, C:0.14, G:0.31, T:0.26
Consensus pattern (29 bp):
ATATGAATATGAATTGGGCCTAGTGGGCC
Found at i:79834642 original size:22 final size:22
Alignment explanation
Indices: 79834615--79834665 Score: 75
Period size: 22 Copynumber: 2.3 Consensus size: 22
79834605 AACCTTTTTA
*
79834615 CTTTCCCCCAATACTGTTACTT
1 CTTTCCCCCAAAACTGTTACTT
* *
79834637 CTTTCCCCTAAAACTTTTACTT
1 CTTTCCCCCAAAACTGTTACTT
79834659 CTTTCCC
1 CTTTCCC
79834666 ATCCCACCCC
Statistics
Matches: 26, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
22 26 1.00
ACGTcount: A:0.18, C:0.37, G:0.02, T:0.43
Consensus pattern (22 bp):
CTTTCCCCCAAAACTGTTACTT
Found at i:79836683 original size:24 final size:24
Alignment explanation
Indices: 79836653--79836733 Score: 162
Period size: 24 Copynumber: 3.4 Consensus size: 24
79836643 TTCTATTATT
79836653 TTATAAAATTAATTCTAATATATA
1 TTATAAAATTAATTCTAATATATA
79836677 TTATAAAATTAATTCTAATATATA
1 TTATAAAATTAATTCTAATATATA
79836701 TTATAAAATTAATTCTAATATATA
1 TTATAAAATTAATTCTAATATATA
79836725 TTATAAAAT
1 TTATAAAAT
79836734 ATCGAAAGTA
Statistics
Matches: 57, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
24 57 1.00
ACGTcount: A:0.51, C:0.04, G:0.00, T:0.46
Consensus pattern (24 bp):
TTATAAAATTAATTCTAATATATA
Found at i:79842232 original size:27 final size:26
Alignment explanation
Indices: 79842195--79842308 Score: 138
Period size: 27 Copynumber: 4.2 Consensus size: 26
79842185 GCATGGCTGT
* *
79842195 CAGAACAGATAATGTGACAGAGTCAC
1 CAGAACAGATAATGTGGCAGAGCCAC
79842221 CAGATACAGATAATCGTGGCAGAGCCAC
1 CAGA-ACAGATAAT-GTGGCAGAGCCAC
*
79842249 CAGAATAGATATATGTGGCAGAGCCAC
1 CAGAACAGATA-ATGTGGCAGAGCCAC
* * *
79842276 CAGATCAGATATTTGTGGCATAGCCAC
1 CAGAACAGATA-ATGTGGCAGAGCCAC
79842303 CAGAAC
1 CAGAAC
79842309 GCTTCCTCCA
Statistics
Matches: 77, Mismatches: 8, Indels: 5
0.86 0.09 0.06
Matches are distributed among these distances:
26 4 0.05
27 56 0.73
28 17 0.22
ACGTcount: A:0.37, C:0.22, G:0.24, T:0.18
Consensus pattern (26 bp):
CAGAACAGATAATGTGGCAGAGCCAC
Found at i:79842259 original size:54 final size:54
Alignment explanation
Indices: 79842195--79842308 Score: 158
Period size: 54 Copynumber: 2.1 Consensus size: 54
79842185 GCATGGCTGT
*
79842195 CAGAACAGATA-ATGTGACAGAGTCACCAGATACAGATAATCGTGGCAGAGCCAC
1 CAGAACAGATATATGTGACAGAGCCACCAGAT-CAGATAATCGTGGCAGAGCCAC
* * * * *
79842249 CAGAATAGATATATGTGGCAGAGCCACCAGATCAGATATTTGTGGCATAGCCAC
1 CAGAACAGATATATGTGACAGAGCCACCAGATCAGATAATCGTGGCAGAGCCAC
79842303 CAGAAC
1 CAGAAC
79842309 GCTTCCTCCA
Statistics
Matches: 52, Mismatches: 7, Indels: 2
0.85 0.11 0.03
Matches are distributed among these distances:
54 34 0.65
55 18 0.35
ACGTcount: A:0.37, C:0.22, G:0.24, T:0.18
Consensus pattern (54 bp):
CAGAACAGATATATGTGACAGAGCCACCAGATCAGATAATCGTGGCAGAGCCAC
Found at i:79843962 original size:26 final size:26
Alignment explanation
Indices: 79843926--79844035 Score: 177
Period size: 26 Copynumber: 4.2 Consensus size: 26
79843916 CATGAAATTC
79843926 TTATCATGAAACATTTACCTAACCCA
1 TTATCATGAAACATTTACCTAACCCA
79843952 TTATCATGAAACATTTACCTAACCCA
1 TTATCATGAAACATTTACCTAACCCA
*
79843978 TTATCAT-AGAACATTTACCTAACCTA
1 TTATCATGA-AACATTTACCTAACCCA
* *
79844004 TTATCATGGAACATTTACCTAACCTA
1 TTATCATGAAACATTTACCTAACCCA
79844030 TTATCA
1 TTATCA
79844036 ATTTGTATCA
Statistics
Matches: 80, Mismatches: 2, Indels: 4
0.93 0.02 0.05
Matches are distributed among these distances:
25 1 0.01
26 79 0.99
ACGTcount: A:0.37, C:0.25, G:0.05, T:0.34
Consensus pattern (26 bp):
TTATCATGAAACATTTACCTAACCCA
Found at i:79847991 original size:27 final size:26
Alignment explanation
Indices: 79847954--79848067 Score: 138
Period size: 27 Copynumber: 4.2 Consensus size: 26
79847944 GCATGGCTGT
* *
79847954 CAGAACAGATAATGTGACAGAGTCAC
1 CAGAACAGATAATGTGGCAGAGCCAC
79847980 CAGATACAGATAATCGTGGCAGAGCCAC
1 CAGA-ACAGATAAT-GTGGCAGAGCCAC
79848008 CAGAACAGATATATGTGGCAGAGCCAC
1 CAGAACAGATA-ATGTGGCAGAGCCAC
* * * *
79848035 CAGATCAGATATTTCTGGCATAGCCAC
1 CAGAACAGATA-ATGTGGCAGAGCCAC
79848062 CAGAAC
1 CAGAAC
79848068 GCTTCCTCCA
Statistics
Matches: 78, Mismatches: 7, Indels: 5
0.87 0.08 0.06
Matches are distributed among these distances:
26 4 0.05
27 57 0.73
28 17 0.22
ACGTcount: A:0.37, C:0.24, G:0.23, T:0.17
Consensus pattern (26 bp):
CAGAACAGATAATGTGGCAGAGCCAC
Found at i:79848013 original size:54 final size:54
Alignment explanation
Indices: 79847954--79848067 Score: 160
Period size: 54 Copynumber: 2.1 Consensus size: 54
79847944 GCATGGCTGT
*
79847954 CAGAACAGATA-ATGTGACAGAGTCACCAGATACAGATA-ATCGTGGCAGAGCCAC
1 CAGAACAGATATATGTGACAGAGCCACCAGAT-CAGATATATC-TGGCAGAGCCAC
* * *
79848008 CAGAACAGATATATGTGGCAGAGCCACCAGATCAGATATTTCTGGCATAGCCAC
1 CAGAACAGATATATGTGACAGAGCCACCAGATCAGATATATCTGGCAGAGCCAC
79848062 CAGAAC
1 CAGAAC
79848068 GCTTCCTCCA
Statistics
Matches: 54, Mismatches: 4, Indels: 4
0.87 0.06 0.06
Matches are distributed among these distances:
54 34 0.63
55 20 0.37
ACGTcount: A:0.37, C:0.24, G:0.23, T:0.17
Consensus pattern (54 bp):
CAGAACAGATATATGTGACAGAGCCACCAGATCAGATATATCTGGCAGAGCCAC
Found at i:79849680 original size:26 final size:26
Alignment explanation
Indices: 79849644--79849805 Score: 288
Period size: 26 Copynumber: 6.2 Consensus size: 26
79849634 CATGAAATTC
79849644 TTATCATGAAACATTTACCTAACCCA
1 TTATCATGAAACATTTACCTAACCCA
79849670 TTATCATGAAACATTTACCTAACCCA
1 TTATCATGAAACATTTACCTAACCCA
79849696 TTATCATGAAACATTTACCTAACCCA
1 TTATCATGAAACATTTACCTAACCCA
79849722 TTATCATGAAACATTTACCTAACCCA
1 TTATCATGAAACATTTACCTAACCCA
* *
79849748 TTATCATGGAACATTTACCTAACCTA
1 TTATCATGAAACATTTACCTAACCCA
* *
79849774 TTATCATGGAACATTTACCTAACCTA
1 TTATCATGAAACATTTACCTAACCCA
79849800 TTATCA
1 TTATCA
79849806 ATTTGTATCA
Statistics
Matches: 134, Mismatches: 2, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
26 134 1.00
ACGTcount: A:0.37, C:0.25, G:0.05, T:0.33
Consensus pattern (26 bp):
TTATCATGAAACATTTACCTAACCCA
Found at i:79854584 original size:9 final size:10
Alignment explanation
Indices: 79854551--79854586 Score: 56
Period size: 10 Copynumber: 3.6 Consensus size: 10
79854541 GCCACAATCC
79854551 AATAACACTAA
1 AATAA-ACTAA
79854562 AATAAACTAA
1 AATAAACTAA
79854572 AATAAAC-AA
1 AATAAACTAA
79854581 AATAAA
1 AATAAA
79854587 AAATAACAAT
Statistics
Matches: 25, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
9 8 0.32
10 12 0.48
11 5 0.20
ACGTcount: A:0.72, C:0.11, G:0.00, T:0.17
Consensus pattern (10 bp):
AATAAACTAA
Found at i:79860336 original size:12 final size:13
Alignment explanation
Indices: 79860314--79860342 Score: 51
Period size: 12 Copynumber: 2.3 Consensus size: 13
79860304 TAAATAAATG
79860314 AATTAAAAAGCCA
1 AATTAAAAAGCCA
79860327 AATT-AAAAGCCA
1 AATTAAAAAGCCA
79860339 AATT
1 AATT
79860343 TTGTCCATCT
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
12 12 0.75
13 4 0.25
ACGTcount: A:0.59, C:0.14, G:0.07, T:0.21
Consensus pattern (13 bp):
AATTAAAAAGCCA
Found at i:79861215 original size:42 final size:42
Alignment explanation
Indices: 79861156--79861319 Score: 197
Period size: 42 Copynumber: 3.9 Consensus size: 42
79861146 TTAGGGTTAC
* *
79861156 TGAGATTACGTGTAAGACCATATCTGGGATATGGCATCTATA
1 TGAGATTACGTGTAAGACCATATCTAGGATATAGCATCTATA
* * * * *
79861198 TGAGATTTCGTGTAAGACCATATTTGGGATATGGCATCGATA
1 TGAGATTACGTGTAAGACCATATCTAGGATATAGCATCTATA
*
79861240 TGAGACTT-CGTGTAAGACCATATCTAGGCTATTAGCAT-TGATA
1 TGAGA-TTACGTGTAAGACCATATCTAGGATA-TAGCATCT-ATA
* *
79861283 CGAGATTACATGTAAGACCATATCTAGGATATAGCAT
1 TGAGATTACGTGTAAGACCATATCTAGGATATAGCAT
79861320 TGGTACGGTA
Statistics
Matches: 107, Mismatches: 11, Indels: 8
0.85 0.09 0.06
Matches are distributed among these distances:
42 72 0.67
43 35 0.33
ACGTcount: A:0.32, C:0.15, G:0.23, T:0.31
Consensus pattern (42 bp):
TGAGATTACGTGTAAGACCATATCTAGGATATAGCATCTATA
Found at i:79861313 original size:85 final size:84
Alignment explanation
Indices: 79861156--79861319 Score: 206
Period size: 85 Copynumber: 1.9 Consensus size: 84
79861146 TTAGGGTTAC
* * * * *
79861156 TGAGATTACGTGTAAGACCATATCTGGGATATGGCATCTATATGAGATTTCGTGTAAGACCATAT
1 TGAGATTACGTGTAAGACCATATCTAGGATATAGCATCTATACGAGATTACATGTAAGACCATAT
* * *
79861221 TTGGGATATGGCATCGATA
66 CTAGGATATAGCATCGATA
*
79861240 TGAGACTT-CGTGTAAGACCATATCTAGGCTATTAGCAT-TGATACGAGATTACATGTAAGACCA
1 TGAGA-TTACGTGTAAGACCATATCTAGGATA-TAGCATCT-ATACGAGATTACATGTAAGACCA
79861303 TATCTAGGATATAGCAT
63 TATCTAGGATATAGCAT
79861320 TGGTACGGTA
Statistics
Matches: 68, Mismatches: 9, Indels: 5
0.83 0.11 0.06
Matches are distributed among these distances:
84 27 0.40
85 41 0.60
ACGTcount: A:0.32, C:0.15, G:0.23, T:0.31
Consensus pattern (84 bp):
TGAGATTACGTGTAAGACCATATCTAGGATATAGCATCTATACGAGATTACATGTAAGACCATAT
CTAGGATATAGCATCGATA
Found at i:79864869 original size:40 final size:40
Alignment explanation
Indices: 79864815--79864930 Score: 121
Period size: 40 Copynumber: 3.0 Consensus size: 40
79864805 CGTTTGGATA
** *
79864815 AAAAACGCCACTAAAAATCAAGCATTAGTGGCGCTTTTAT-
1 AAAAACGCTGCTAAAAATCAAGCATTAGCGGCGCTTTT-TG
** * *
79864855 AAAAACGCTGCTAAAGGTCGAGCACTAGCGGCGCTTTTTG
1 AAAAACGCTGCTAAAAATCAAGCATTAGCGGCGCTTTTTG
* *
79864895 GAAAACGCTGCTAAAAAT-AAGCATTACCGGCG-TTTT
1 AAAAACGCTGCTAAAAATCAAGCATTAGCGGCGCTTTT
79864931 CCAAAAAGTG
Statistics
Matches: 62, Mismatches: 13, Indels: 4
0.78 0.16 0.05
Matches are distributed among these distances:
38 4 0.06
39 12 0.19
40 46 0.74
ACGTcount: A:0.34, C:0.21, G:0.21, T:0.24
Consensus pattern (40 bp):
AAAAACGCTGCTAAAAATCAAGCATTAGCGGCGCTTTTTG
Found at i:79865042 original size:41 final size:41
Alignment explanation
Indices: 79864985--79865228 Score: 407
Period size: 41 Copynumber: 6.0 Consensus size: 41
79864975 TGAGTTTTTG
*
79864985 GGGCCTTTAGCGGCGTTTTTGAAAAAGCGCCGCTAATTCTC
1 GGGCCTTTAGCGGCGTTTTTGAAAAAGCGCCGCTAATGCTC
*
79865026 GGGCCTTTAGCGGCGTTTTTGAATAAGCGCCGCTAATGCTC
1 GGGCCTTTAGCGGCGTTTTTGAAAAAGCGCCGCTAATGCTC
* *
79865067 GGGCCTTTAGCGGCGTTTGTGAATAAGCGCCGCTAATGCTC
1 GGGCCTTTAGCGGCGTTTTTGAAAAAGCGCCGCTAATGCTC
* *
79865108 GGGCCTTTAGCGGCGTTTTTGAATAATCGCCGCTAATGCTC
1 GGGCCTTTAGCGGCGTTTTTGAAAAAGCGCCGCTAATGCTC
* *
79865149 GGGCCTTTAGCGGCGTTTTTTAAAAAGCGCCGCTAATGCTT
1 GGGCCTTTAGCGGCGTTTTTGAAAAAGCGCCGCTAATGCTC
*
79865190 GGGCCTTTAGCGGCATTTTTGAAAAAGCGCCGCTAATGC
1 GGGCCTTTAGCGGCGTTTTTGAAAAAGCGCCGCTAATGC
79865229 CCGCTTTTGA
Statistics
Matches: 192, Mismatches: 11, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
41 192 1.00
ACGTcount: A:0.19, C:0.24, G:0.28, T:0.29
Consensus pattern (41 bp):
GGGCCTTTAGCGGCGTTTTTGAAAAAGCGCCGCTAATGCTC
Found at i:79865936 original size:14 final size:14
Alignment explanation
Indices: 79865914--79865973 Score: 50
Period size: 14 Copynumber: 4.3 Consensus size: 14
79865904 TAAATAAGAT
* *
79865914 TTAGAGGTTAGTAG
1 TTAGGGGTTAGGAG
*
79865928 TTAGGGGTTAGGGG
1 TTAGGGGTTAGGAG
*
79865942 TTAGGGGTTA-AAGG
1 TTAGGGGTTAGGA-G
* *
79865956 TTAGAGGTTAAGAG
1 TTAGGGGTTAGGAG
79865970 TTAG
1 TTAG
79865974 TGATTTAGGG
Statistics
Matches: 37, Mismatches: 7, Indels: 4
0.77 0.15 0.08
Matches are distributed among these distances:
14 36 0.97
15 1 0.03
ACGTcount: A:0.27, C:0.00, G:0.42, T:0.32
Consensus pattern (14 bp):
TTAGGGGTTAGGAG
Found at i:79865937 original size:7 final size:7
Alignment explanation
Indices: 79865927--79865965 Score: 51
Period size: 7 Copynumber: 5.6 Consensus size: 7
79865917 GAGGTTAGTA
79865927 GTTAGGG
1 GTTAGGG
79865934 GTTAGGG
1 GTTAGGG
79865941 GTTAGGG
1 GTTAGGG
**
79865948 GTTAAAG
1 GTTAGGG
*
79865955 GTTAGAG
1 GTTAGGG
79865962 GTTA
1 GTTA
79865966 AGAGTTAGTG
Statistics
Matches: 29, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
7 29 1.00
ACGTcount: A:0.23, C:0.00, G:0.46, T:0.31
Consensus pattern (7 bp):
GTTAGGG
Found at i:79865938 original size:21 final size:20
Alignment explanation
Indices: 79865914--79865973 Score: 57
Period size: 21 Copynumber: 2.9 Consensus size: 20
79865904 TAAATAAGAT
*
79865914 TTAGAGGTTAGTAGTTAGGGG
1 TTAGAGGTTAG-AGTTAGAGG
* * *
79865935 TTAGGGGTTAGGGGTTAAAGG
1 TTAGAGGTTA-GAGTTAGAGG
79865956 TTAGAGGTTAAGAGTTAG
1 TTAGAGGTT-AGAGTTAG
79865974 TGATTTAGGG
Statistics
Matches: 30, Mismatches: 7, Indels: 4
0.73 0.17 0.10
Matches are distributed among these distances:
21 28 0.93
22 2 0.07
ACGTcount: A:0.27, C:0.00, G:0.42, T:0.32
Consensus pattern (20 bp):
TTAGAGGTTAGAGTTAGAGG
Found at i:79870521 original size:43 final size:43
Alignment explanation
Indices: 79870461--79870551 Score: 130
Period size: 43 Copynumber: 2.1 Consensus size: 43
79870451 CTTTGAGTTC
* * * *
79870461 ATTA-CAAGATTTCCTTGATTAAGTAAATGTATTATATCTTTT
1 ATTACCAAGATTTACTTGATTAAGAAAATGCATTATATATTTT
*
79870503 ATTACCAAGATTTACTTGATTAAGAAAATGCATTGTATATTTT
1 ATTACCAAGATTTACTTGATTAAGAAAATGCATTATATATTTT
79870546 ATTACC
1 ATTACC
79870552 TTGCATATAT
Statistics
Matches: 43, Mismatches: 5, Indels: 1
0.88 0.10 0.02
Matches are distributed among these distances:
42 4 0.09
43 39 0.91
ACGTcount: A:0.35, C:0.11, G:0.10, T:0.44
Consensus pattern (43 bp):
ATTACCAAGATTTACTTGATTAAGAAAATGCATTATATATTTT
Found at i:79870815 original size:16 final size:16
Alignment explanation
Indices: 79870796--79870826 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
79870786 TATTATTTGA
79870796 AAAAAATATATTTTTT
1 AAAAAATATATTTTTT
*
79870812 AAAAGATATATTTTT
1 AAAAAATATATTTTT
79870827 AGCGGCGTTT
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
16 14 1.00
ACGTcount: A:0.48, C:0.00, G:0.03, T:0.48
Consensus pattern (16 bp):
AAAAAATATATTTTTT
Found at i:79870913 original size:43 final size:43
Alignment explanation
Indices: 79870824--79871028 Score: 260
Period size: 42 Copynumber: 4.8 Consensus size: 43
79870814 AAGATATATT
* *
79870824 TTTAGCGGCGTTTGTGGGAAAAAGCGCCGCTAAAGCTCAAT-ATC
1 TTTAGCGGCGTTTGTGGG-AAAAGCGCCGCTAAAGGTC-ATGGTC
* *
79870868 TTTAGCGGCGTTTGTGGGAAAAGCGTCGCTAAAGGTCTTGGTC
1 TTTAGCGGCGTTTGTGGGAAAAGCGCCGCTAAAGGTCATGGTC
* *
79870911 TTTAGCGACGTTTGTAGGG--AAGCGCCGCTAAAGGTCTTGGTC
1 TTTAGCGGCGTTTGT-GGGAAAAGCGCCGCTAAAGGTCATGGTC
*
79870953 TTTA-CTGGCATTTGTAGGG--AAGCGCCGCTAAAGGTCATGGTC
1 TTTAGC-GGCGTTTGT-GGGAAAAGCGCCGCTAAAGGTCATGGTC
79870995 TTTAGCGGCGTTTGTGGGAAAAGCGCCGCTAAAG
1 TTTAGCGGCGTTTGTGGGAAAAGCGCCGCTAAAG
79871029 TTAGCGACGC
Statistics
Matches: 145, Mismatches: 10, Indels: 13
0.86 0.06 0.08
Matches are distributed among these distances:
41 4 0.03
42 72 0.50
43 48 0.33
44 21 0.14
ACGTcount: A:0.22, C:0.19, G:0.32, T:0.27
Consensus pattern (43 bp):
TTTAGCGGCGTTTGTGGGAAAAGCGCCGCTAAAGGTCATGGTC
Found at i:79872496 original size:13 final size:13
Alignment explanation
Indices: 79872478--79872502 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
79872468 GTATTGATCA
79872478 TGTGTTCACACCT
1 TGTGTTCACACCT
79872491 TGTGTTCACACC
1 TGTGTTCACACC
79872503 ATGATGACCA
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.16, C:0.32, G:0.16, T:0.36
Consensus pattern (13 bp):
TGTGTTCACACCT
Found at i:79873483 original size:16 final size:15
Alignment explanation
Indices: 79873462--79873518 Score: 71
Period size: 16 Copynumber: 3.7 Consensus size: 15
79873452 ATAGGTACGT
79873462 AAAAAAAAAAAGTTCG
1 AAAAAAAAAAA-TTCG
*
79873478 AAAAAAAAAAATTTG
1 AAAAAAAAAAATTCG
*
79873493 -AAAAAAAAAATTTG
1 AAAAAAAAAAATTCG
79873507 AAAAGAAAAAAA
1 AAAA-AAAAAAA
79873519 AAATTGCATA
Statistics
Matches: 38, Mismatches: 1, Indels: 4
0.88 0.02 0.09
Matches are distributed among these distances:
14 14 0.37
15 6 0.16
16 18 0.47
ACGTcount: A:0.75, C:0.02, G:0.09, T:0.14
Consensus pattern (15 bp):
AAAAAAAAAAATTCG
Found at i:79873496 original size:13 final size:14
Alignment explanation
Indices: 79873463--79873517 Score: 74
Period size: 14 Copynumber: 3.7 Consensus size: 14
79873453 TAGGTACGTA
*
79873463 AAAAAAAAAAGTTCG
1 AAAAAAAAAA-TTTG
79873478 AAAAAAAAAAATTTG
1 -AAAAAAAAAATTTG
79873493 AAAAAAAAAATTTG
1 AAAAAAAAAATTTG
79873507 AAAAGAAAAAA
1 AAAA-AAAAAA
79873518 AAAATTGCAT
Statistics
Matches: 37, Mismatches: 1, Indels: 3
0.90 0.02 0.07
Matches are distributed among these distances:
14 18 0.49
15 9 0.24
16 10 0.27
ACGTcount: A:0.75, C:0.02, G:0.09, T:0.15
Consensus pattern (14 bp):
AAAAAAAAAATTTG
Found at i:79874730 original size:17 final size:18
Alignment explanation
Indices: 79874698--79874731 Score: 52
Period size: 18 Copynumber: 1.9 Consensus size: 18
79874688 AAAAGAGAGT
*
79874698 GAGATTGAAGGAAGAAAC
1 GAGAGTGAAGGAAGAAAC
79874716 GAGAGTGAA-GAAGAAA
1 GAGAGTGAAGGAAGAAA
79874732 GGAGTGTTGT
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
17 7 0.47
18 8 0.53
ACGTcount: A:0.53, C:0.03, G:0.35, T:0.09
Consensus pattern (18 bp):
GAGAGTGAAGGAAGAAAC
Found at i:79876628 original size:13 final size:13
Alignment explanation
Indices: 79876610--79876634 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
79876600 GTATTGATCA
79876610 TGTGTTCACACCT
1 TGTGTTCACACCT
79876623 TGTGTTCACACC
1 TGTGTTCACACC
79876635 ATGATGACCA
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.16, C:0.32, G:0.16, T:0.36
Consensus pattern (13 bp):
TGTGTTCACACCT
Found at i:79888341 original size:23 final size:20
Alignment explanation
Indices: 79888300--79888360 Score: 52
Period size: 20 Copynumber: 3.0 Consensus size: 20
79888290 ACCATTTAAT
*
79888300 ATCAAAAAATTCATGAATTC
1 ATCAAAAAATTCATAAATTC
79888320 ATCAACAAAATCTCATAAAATT-
1 ATCAA-AAAAT-TCAT-AAATTC
* * *
79888342 ATTAAAAATTTCATGAATT
1 ATCAAAAAATTCATAAATT
79888361 TAGGCATGGG
Statistics
Matches: 34, Mismatches: 4, Indels: 7
0.76 0.09 0.16
Matches are distributed among these distances:
19 4 0.12
20 9 0.26
21 9 0.26
22 8 0.24
23 4 0.12
ACGTcount: A:0.51, C:0.13, G:0.03, T:0.33
Consensus pattern (20 bp):
ATCAAAAAATTCATAAATTC
Found at i:79890669 original size:29 final size:29
Alignment explanation
Indices: 79890585--79890731 Score: 133
Period size: 29 Copynumber: 5.2 Consensus size: 29
79890575 GTAAACATGG
* * *
79890585 ATAT-AATGTGACTTGGGCCGGATAGGCC
1 ATATGAATGTGAATTGGGCCTGATGGGCC
* * * *
79890613 ATATAAATGAG-ATTGGGCCTAACGGGCC
1 ATATGAATGTGAATTGGGCCTGATGGGCC
*
79890641 ATATGAATGTGAATTGGGCCTGATTGGCC
1 ATATGAATGTGAATTGGGCCTGATGGGCC
* *
79890670 ATATGAACGTGAATTGGG-TTGGATGGGCC
1 ATATGAATGTGAATTGGGCCT-GATGGGCC
* *
79890699 ATATAAATGAG-ATTGGGCCT-AGTGGGCC
1 ATATGAATGTGAATTGGGCCTGA-TGGGCC
79890727 ATATG
1 ATATG
79890732 CATGCATGTA
Statistics
Matches: 95, Mismatches: 19, Indels: 10
0.77 0.15 0.08
Matches are distributed among these distances:
27 1 0.01
28 42 0.44
29 52 0.55
ACGTcount: A:0.27, C:0.14, G:0.32, T:0.27
Consensus pattern (29 bp):
ATATGAATGTGAATTGGGCCTGATGGGCC
Found at i:79895076 original size:18 final size:19
Alignment explanation
Indices: 79895041--79895077 Score: 58
Period size: 19 Copynumber: 2.0 Consensus size: 19
79895031 TGAATAGGTC
79895041 AAATGGGCCAGAATGGGCT
1 AAATGGGCCAGAATGGGCT
*
79895060 AAATGGGCCCG-ATGGGCT
1 AAATGGGCCAGAATGGGCT
79895078 GTTGGGCCCA
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
18 7 0.41
19 10 0.59
ACGTcount: A:0.27, C:0.19, G:0.38, T:0.16
Consensus pattern (19 bp):
AAATGGGCCAGAATGGGCT
Found at i:79895177 original size:28 final size:29
Alignment explanation
Indices: 79895146--79895268 Score: 115
Period size: 29 Copynumber: 4.3 Consensus size: 29
79895136 GTGAGCATGG
*
79895146 ATAT-AATGTGATTTGGGCCGGATGGGCC
1 ATATGAATGTGAATTGGGCCGGATGGGCC
* * *** *
79895174 ATATAAATGAG-ATTGGGCATAACGGGCC
1 ATATGAATGTGAATTGGGCCGGATGGGCC
* * *
79895202 ATATGAATGTAAATTAGGCCTGATGGGCC
1 ATATGAATGTGAATTGGGCCGGATGGGCC
* *
79895231 ATATGAAAGTGAATTGGGCTGGATGGGCC
1 ATATGAATGTGAATTGGGCCGGATGGGCC
*
79895260 ATATAAATG
1 ATATGAATG
79895269 AGATTAGGCC
Statistics
Matches: 73, Mismatches: 20, Indels: 3
0.76 0.21 0.03
Matches are distributed among these distances:
28 24 0.33
29 49 0.67
ACGTcount: A:0.31, C:0.12, G:0.31, T:0.26
Consensus pattern (29 bp):
ATATGAATGTGAATTGGGCCGGATGGGCC
Found at i:79895233 original size:29 final size:29
Alignment explanation
Indices: 79895161--79895298 Score: 104
Period size: 29 Copynumber: 4.8 Consensus size: 29
79895151 ATGTGATTTG
* * * *
79895161 GGCCGGATGGGCCATATAAATG-AGATTG
1 GGCCTGATGGGCCATATGAATGTAAATTA
* * *
79895189 GGCATAACGGGCCATATGAATGTAAATTA
1 GGCCTGATGGGCCATATGAATGTAAATTA
* *
79895218 GGCCTGATGGGCCATATGAAAGTGAATT-
1 GGCCTGATGGGCCATATGAATGTAAATTA
* * *
79895246 GGGCTGGATGGGCCATATAAATG-AGATTA
1 GGCCT-GATGGGCCATATGAATGTAAATTA
* *
79895275 GGCCT-AGTGGGCCATGTGCATGTA
1 GGCCTGA-TGGGCCATATGAATGTA
79895299 TGTAGGGGTT
Statistics
Matches: 84, Mismatches: 21, Indels: 9
0.74 0.18 0.08
Matches are distributed among these distances:
27 1 0.01
28 36 0.43
29 47 0.56
ACGTcount: A:0.29, C:0.14, G:0.33, T:0.24
Consensus pattern (29 bp):
GGCCTGATGGGCCATATGAATGTAAATTA
Found at i:79895275 original size:57 final size:57
Alignment explanation
Indices: 79895161--79895289 Score: 149
Period size: 57 Copynumber: 2.3 Consensus size: 57
79895151 ATGTGATTTG
* *
79895161 GGCCGGATGGGCCATATAAATGAGATTGGGCATAACGGGCCATATGAATGTAAATTA
1 GGCCTGATGGGCCATATAAATGAGATTGGGCATAACGGGCCATATAAATGTAAATTA
* * *
79895218 GGCCTGATGGGCCATATGAAAGTGA-ATTGGGC-TGGATGGGCCATATAAATG-AGATTA
1 GGCCTGATGGGCCATAT-AAA-TGAGATTGGGCAT-AACGGGCCATATAAATGTAAATTA
79895275 GGCCT-AGTGGGCCAT
1 GGCCTGA-TGGGCCAT
79895290 GTGCATGTAT
Statistics
Matches: 63, Mismatches: 5, Indels: 8
0.83 0.07 0.11
Matches are distributed among these distances:
56 1 0.02
57 35 0.56
58 24 0.38
59 3 0.05
ACGTcount: A:0.29, C:0.15, G:0.33, T:0.23
Consensus pattern (57 bp):
GGCCTGATGGGCCATATAAATGAGATTGGGCATAACGGGCCATATAAATGTAAATTA
Found at i:79903147 original size:28 final size:30
Alignment explanation
Indices: 79903096--79903153 Score: 84
Period size: 29 Copynumber: 2.0 Consensus size: 30
79903086 TATTTCACAT
*
79903096 TTTAATTCCTCAATATATACTTTT-CTCAA
1 TTTAATTCCTCAATATACACTTTTACTCAA
*
79903125 TTTAATTCCT-AATATACATTTTTACTCAA
1 TTTAATTCCTCAATATACACTTTTACTCAA
79903154 AATCACTTTA
Statistics
Matches: 26, Mismatches: 2, Indels: 2
0.87 0.07 0.07
Matches are distributed among these distances:
28 11 0.42
29 15 0.58
ACGTcount: A:0.33, C:0.19, G:0.00, T:0.48
Consensus pattern (30 bp):
TTTAATTCCTCAATATACACTTTTACTCAA
Found at i:79905690 original size:51 final size:51
Alignment explanation
Indices: 79905631--79905772 Score: 207
Period size: 51 Copynumber: 2.8 Consensus size: 51
79905621 ATGCGTACCT
* *
79905631 GATAGCTTTGATCACATGTGTGGTACTACGTGCAGGCCACTTTGTGTAA-AA
1 GATAGCTTTGATCACAAGTGTGGTACTATGTGCAGGCCACTTTGTG-AAGAA
*
79905682 GATAGCTTTGATCACAAGTGTGGTACTATGTGAAGGCCACTTTGTGAAGAA
1 GATAGCTTTGATCACAAGTGTGGTACTATGTGCAGGCCACTTTGTGAAGAA
* *
79905733 GGTAGCTTTGA-CTACAAGTGTGGTACTGTGTGCAGGCCAC
1 GATAGCTTTGATC-ACAAGTGTGGTACTATGTGCAGGCCAC
79905773 CGGGCATCCG
Statistics
Matches: 83, Mismatches: 6, Indels: 4
0.89 0.06 0.04
Matches are distributed among these distances:
50 3 0.04
51 80 0.96
ACGTcount: A:0.25, C:0.17, G:0.28, T:0.30
Consensus pattern (51 bp):
GATAGCTTTGATCACAAGTGTGGTACTATGTGCAGGCCACTTTGTGAAGAA
Found at i:79908842 original size:49 final size:49
Alignment explanation
Indices: 79908768--79908994 Score: 251
Period size: 49 Copynumber: 4.6 Consensus size: 49
79908758 ATCTGGTACG
*
79908768 CATAGTAGCCTACACTTAGTACTACACATGCGACCAATTAT-GCAATACA
1 CATAGTAGCCTGCACTTAGTACTACACATGCGACCAATTATCG-AATACA
* * * **
79908817 CGTAGTAGCCTGCACTTAATACTACACATGTGACCTAACCATCTG-ATACA
1 CATAGTAGCCTGCACTTAGTACTACACATGCGACC-AATTATC-GAATACA
* * * * * ** *
79908867 CGTAGTAACCTGCACTTAGTACTACACACGTGATCGAAGTTATCGGGTACG
1 CATAGTAGCCTGCACTTAGTACTACACATGCGA-CCAA-TTATCGAATACA
* *
79908918 CATAGTAGCCTGCACTTAGTACTACACATGCGACCAATTATCCAGTACA
1 CATAGTAGCCTGCACTTAGTACTACACATGCGACCAATTATCGAATACA
79908967 CATAGTAGCCTGCACTTAGTACTACACA
1 CATAGTAGCCTGCACTTAGTACTACACA
79908995 CGTGACCTCA
Statistics
Matches: 150, Mismatches: 22, Indels: 12
0.82 0.12 0.07
Matches are distributed among these distances:
49 68 0.45
50 45 0.30
51 36 0.24
52 1 0.01
ACGTcount: A:0.32, C:0.27, G:0.16, T:0.25
Consensus pattern (49 bp):
CATAGTAGCCTGCACTTAGTACTACACATGCGACCAATTATCGAATACA
Found at i:79908994 original size:26 final size:26
Alignment explanation
Indices: 79908918--79908994 Score: 65
Period size: 26 Copynumber: 3.1 Consensus size: 26
79908908 ATCGGGTACG
79908918 CATAGTAGCCTGCACTTAGTACTACA
1 CATAGTAGCCTGCACTTAGTACTACA
* * * *
79908944 CAT-G-CGAC--CAATTA-TCCAGTACA
1 CATAGTAGCCTGCACTTAGT--ACTACA
79908967 CATAGTAGCCTGCACTTAGTACTACA
1 CATAGTAGCCTGCACTTAGTACTACA
79908993 CA
1 CA
79908995 CGTGACCTCA
Statistics
Matches: 36, Mismatches: 8, Indels: 14
0.62 0.14 0.24
Matches are distributed among these distances:
21 1 0.03
22 5 0.14
23 8 0.22
24 3 0.08
25 3 0.08
26 10 0.28
27 5 0.14
28 1 0.03
ACGTcount: A:0.32, C:0.29, G:0.14, T:0.25
Consensus pattern (26 bp):
CATAGTAGCCTGCACTTAGTACTACA
Found at i:79909272 original size:27 final size:27
Alignment explanation
Indices: 79909242--79909295 Score: 72
Period size: 27 Copynumber: 2.0 Consensus size: 27
79909232 TCATACAACC
* *
79909242 CATGTAATAGTAATTTAACATTCAATT
1 CATGTAACAATAATTTAACATTCAATT
**
79909269 CATGTAACAATAATTTGCCATTCAATT
1 CATGTAACAATAATTTAACATTCAATT
79909296 TCACATGACA
Statistics
Matches: 23, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
27 23 1.00
ACGTcount: A:0.39, C:0.15, G:0.07, T:0.39
Consensus pattern (27 bp):
CATGTAACAATAATTTAACATTCAATT
Found at i:79912650 original size:17 final size:18
Alignment explanation
Indices: 79912628--79912663 Score: 56
Period size: 18 Copynumber: 2.1 Consensus size: 18
79912618 CACATTGAAG
79912628 TGTTTT-ATCGAAAACCT
1 TGTTTTCATCGAAAACCT
*
79912645 TGTTTTCATTGAAAACCT
1 TGTTTTCATCGAAAACCT
79912663 T
1 T
79912664 TCTTTGAAAT
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
17 6 0.35
18 11 0.65
ACGTcount: A:0.28, C:0.17, G:0.11, T:0.44
Consensus pattern (18 bp):
TGTTTTCATCGAAAACCT
Found at i:79913957 original size:28 final size:28
Alignment explanation
Indices: 79913896--79913989 Score: 102
Period size: 28 Copynumber: 3.3 Consensus size: 28
79913886 GATCCATACT
* * *
79913896 TATTCATTTGGCCCCTTTAGGCCCAATC-
1 TATTCATATGG-CCCATCAGGCCCAATCA
*
79913924 TCATTCATATGGCCTATCAGGCCCAATCA
1 T-ATTCATATGGCCCATCAGGCCCAATCA
*
79913953 TATTCATATGGCCCATCAGGCCTAATCA
1 TATTCATATGGCCCATCAGGCCCAATCA
79913981 CT-TTCATAT
1 -TATTCATAT
79913990 CAGGCCCAAT
Statistics
Matches: 57, Mismatches: 6, Indels: 6
0.83 0.09 0.09
Matches are distributed among these distances:
28 46 0.81
29 11 0.19
ACGTcount: A:0.24, C:0.30, G:0.13, T:0.33
Consensus pattern (28 bp):
TATTCATATGGCCCATCAGGCCCAATCA
Found at i:79913993 original size:21 final size:21
Alignment explanation
Indices: 79913967--79914009 Score: 68
Period size: 21 Copynumber: 2.0 Consensus size: 21
79913957 CATATGGCCC
* *
79913967 ATCAGGCCTAATCACTTTCAT
1 ATCAGGCCCAATCACATTCAT
79913988 ATCAGGCCCAATCACATTCAT
1 ATCAGGCCCAATCACATTCAT
79914009 A
1 A
79914010 GTCATGCAAT
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
21 20 1.00
ACGTcount: A:0.33, C:0.30, G:0.09, T:0.28
Consensus pattern (21 bp):
ATCAGGCCCAATCACATTCAT
Found at i:79917623 original size:21 final size:21
Alignment explanation
Indices: 79917599--79917638 Score: 80
Period size: 21 Copynumber: 1.9 Consensus size: 21
79917589 ATTTCTGACG
79917599 CTGACTTAGGTGTTTTCCAGT
1 CTGACTTAGGTGTTTTCCAGT
79917620 CTGACTTAGGTGTTTTCCA
1 CTGACTTAGGTGTTTTCCA
79917639 ATCTAACACT
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
21 19 1.00
ACGTcount: A:0.15, C:0.20, G:0.23, T:0.42
Consensus pattern (21 bp):
CTGACTTAGGTGTTTTCCAGT
Found at i:79919376 original size:17 final size:18
Alignment explanation
Indices: 79919354--79919387 Score: 52
Period size: 18 Copynumber: 1.9 Consensus size: 18
79919344 CACATTGAAG
79919354 TGTTTT-ATCGAAAACCT
1 TGTTTTCATCGAAAACCT
*
79919371 TGTTTTCATTGAAAACC
1 TGTTTTCATCGAAAACC
79919388 CTTCTTTGAA
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
17 6 0.40
18 9 0.60
ACGTcount: A:0.29, C:0.18, G:0.12, T:0.41
Consensus pattern (18 bp):
TGTTTTCATCGAAAACCT
Found at i:79920684 original size:28 final size:28
Alignment explanation
Indices: 79920641--79920714 Score: 87
Period size: 28 Copynumber: 2.6 Consensus size: 28
79920631 GGCCCCTTTT
*
79920641 GGCCCAATCTCATTCATATGGCCCATC-
1 GGCCCAATCACATTCATATGGCCCATCA
* * *
79920668 GAGCCCAATCACTTTCATGTGGCCCGTCA
1 G-GCCCAATCACATTCATATGGCCCATCA
*
79920697 GGCCCAATTACATTCATA
1 GGCCCAATCACATTCATA
79920715 GTCATGCAAC
Statistics
Matches: 38, Mismatches: 7, Indels: 3
0.79 0.15 0.06
Matches are distributed among these distances:
27 1 0.03
28 36 0.95
29 1 0.03
ACGTcount: A:0.24, C:0.34, G:0.16, T:0.26
Consensus pattern (28 bp):
GGCCCAATCACATTCATATGGCCCATCA
Found at i:79926016 original size:17 final size:19
Alignment explanation
Indices: 79925994--79926030 Score: 60
Period size: 18 Copynumber: 2.1 Consensus size: 19
79925984 TTGGGCTTAT
79925994 TGGG-CCACATGGG-CGTG
1 TGGGCCCACATGGGCCGTG
79926011 TGGGCCCACATGGGCCGTG
1 TGGGCCCACATGGGCCGTG
79926030 T
1 T
79926031 TATGGGCTTT
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
17 4 0.22
18 9 0.50
19 5 0.28
ACGTcount: A:0.11, C:0.27, G:0.43, T:0.19
Consensus pattern (19 bp):
TGGGCCCACATGGGCCGTG
Done.