Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: NW_019168437.1 Durio zibethinus cultivar Musang King isolate D1 unplaced genomic scaffold, Duzib1.0 scaffold_65, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Pmatch=0.80,Pindel=0.10
tuple sizes 0,4,5,7
tuple distances 0, 29, 159, 1000
Length: 135677
ACGTcount: A:0.34, C:0.16, G:0.14, T:0.35
Warning! 1000 characters in sequence are not A, C, G, or T
File 2 of 2
Found at i:67127 original size:60 final size:61
Alignment explanation
Indices: 67046--67176 Score: 196
Period size: 60 Copynumber: 2.2 Consensus size: 61
67036 TTTTTTAGAA
*
67046 ACTTATTTTTAAGAAACTTATTTTTAAGAAAAATTGATACTTTCAACTTTTCCTCAAAAAT
1 ACTTATTTTTAAGAAACTTATTTTCAAGAAAAATTGATACTTTCAACTTTTCCTCAAAAAT
* *
67107 ACTT-TTTTTGAA-AAACTTATTTTCATGAAAAATTGATACTTTCAACTTTTTCTCAAAAAT
1 ACTTATTTTT-AAGAAACTTATTTTCAAGAAAAATTGATACTTTCAACTTTTCCTCAAAAAT
67167 A-TATATTTTT
1 ACT-TATTTTT
67177 TTAATTTTAT
Statistics
Matches: 64, Mismatches: 3, Indels: 6
0.88 0.04 0.08
Matches are distributed among these distances:
59 1 0.02
60 52 0.81
61 11 0.17
ACGTcount: A:0.37, C:0.12, G:0.05, T:0.46
Consensus pattern (61 bp):
ACTTATTTTTAAGAAACTTATTTTCAAGAAAAATTGATACTTTCAACTTTTCCTCAAAAAT
Found at i:67201 original size:5 final size:5
Alignment explanation
Indices: 67193--67254 Score: 56
Period size: 5 Copynumber: 11.8 Consensus size: 5
67183 TTATTTAAAG
*
67193 AAAAT AAAAT TAAA- AAAAT AAAAT AAAAATT GAAAAT AAAAAT AAAGA-
1 AAAAT AAAAT AAAAT AAAAT AAAAT -AAAA-T -AAAAT -AAAAT AAA-AT
67241 AAAAT AAAAT AAAA
1 AAAAT AAAAT AAAA
67255 AGTATTAAAC
Statistics
Matches: 48, Mismatches: 4, Indels: 10
0.77 0.06 0.16
Matches are distributed among these distances:
4 4 0.08
5 28 0.58
6 11 0.23
7 5 0.10
ACGTcount: A:0.79, C:0.00, G:0.03, T:0.18
Consensus pattern (5 bp):
AAAAT
Found at i:67212 original size:14 final size:14
Alignment explanation
Indices: 67187--67221 Score: 54
Period size: 14 Copynumber: 2.5 Consensus size: 14
67177 TTAATTTTAT
67187 TTAAAGAAAATAAAA
1 TTAAA-AAAATAAAA
67202 TTAAAAAAATAAAA
1 TTAAAAAAATAAAA
67216 -TAAAAA
1 TTAAAAA
67222 TTGAAAATAA
Statistics
Matches: 20, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
13 6 0.30
14 9 0.45
15 5 0.25
ACGTcount: A:0.77, C:0.00, G:0.03, T:0.20
Consensus pattern (14 bp):
TTAAAAAAATAAAA
Found at i:67215 original size:6 final size:6
Alignment explanation
Indices: 67193--67255 Score: 51
Period size: 6 Copynumber: 10.7 Consensus size: 6
67183 TTATTTAAAG
* * * *
67193 AAAATA AAATTA AAAAAA TAAAATA AAAATTG AAAATA AAAAT- -AAAGA
1 AAAATA AAAATA AAAATA -AAAATA AAAA-TA AAAATA AAAATA AAAATA
67241 AAAAT- AAAATA AAAA
1 AAAATA AAAATA AAAA
67256 GTATTAAACA
Statistics
Matches: 44, Mismatches: 8, Indels: 10
0.71 0.13 0.16
Matches are distributed among these distances:
4 3 0.07
5 5 0.11
6 26 0.59
7 10 0.23
ACGTcount: A:0.79, C:0.00, G:0.03, T:0.17
Consensus pattern (6 bp):
AAAATA
Found at i:67219 original size:13 final size:13
Alignment explanation
Indices: 67188--67234 Score: 51
Period size: 14 Copynumber: 3.5 Consensus size: 13
67178 TAATTTTATT
67188 TAAAGAAAATAAAA
1 TAAA-AAAATAAAA
67202 TTAAAAAAATAAAA
1 -TAAAAAAATAAAA
*
67216 T-AAAAATTGAAAA
1 TAAAAAAAT-AAAA
67229 TAAAAA
1 TAAAAA
67235 TAAAGAAAAA
Statistics
Matches: 29, Mismatches: 1, Indels: 5
0.83 0.03 0.14
Matches are distributed among these distances:
12 6 0.21
13 6 0.21
14 13 0.45
15 4 0.14
ACGTcount: A:0.77, C:0.00, G:0.04, T:0.19
Consensus pattern (13 bp):
TAAAAAAATAAAA
Found at i:67249 original size:34 final size:32
Alignment explanation
Indices: 67192--67255 Score: 101
Period size: 34 Copynumber: 1.9 Consensus size: 32
67182 TTTATTTAAA
*
67192 GAAAATAAAATTAAAAAAATAAAATAAAAATT
1 GAAAATAAAATAAAAAAAATAAAATAAAAATT
67224 GAAAATAAAAATAAAGAAAAATAAAATAAAAA
1 GAAAAT-AAAATAAA-AAAAATAAAATAAAAA
67256 GTATTAAACA
Statistics
Matches: 29, Mismatches: 1, Indels: 2
0.91 0.03 0.06
Matches are distributed among these distances:
32 6 0.21
33 7 0.24
34 16 0.55
ACGTcount: A:0.78, C:0.00, G:0.05, T:0.17
Consensus pattern (32 bp):
GAAAATAAAATAAAAAAAATAAAATAAAAATT
Found at i:67294 original size:22 final size:19
Alignment explanation
Indices: 67279--67330 Score: 65
Period size: 19 Copynumber: 2.8 Consensus size: 19
67269 ATAATCTAAT
67279 CAATAAATAATAATAACAA
1 CAATAAATAATAATAACAA
*
67298 CAACAAATAATAATAA-ATA
1 CAATAAATAATAATAACA-A
67317 -AATAAATAA-AATAA
1 CAATAAATAATAATAA
67331 ATAATAAAAA
Statistics
Matches: 30, Mismatches: 2, Indels: 4
0.83 0.06 0.11
Matches are distributed among these distances:
17 5 0.17
18 9 0.30
19 16 0.53
ACGTcount: A:0.71, C:0.08, G:0.00, T:0.21
Consensus pattern (19 bp):
CAATAAATAATAATAACAA
Found at i:67326 original size:12 final size:11
Alignment explanation
Indices: 67275--67343 Score: 52
Period size: 11 Copynumber: 6.1 Consensus size: 11
67265 AATTATAATC
*
67275 TAATCAATAAA
1 TAATAAATAAA
67286 TAAT-AATAACAA
1 TAATAAAT-A-AA
* *
67298 CAACAAAT-AA
1 TAATAAATAAA
67308 TAATAAATAAA
1 TAATAAATAAA
67319 TAAATAAAATAAA
1 T-AAT-AAATAAA
*
67332 TAATAAAAAAA
1 TAATAAATAAA
67343 T
1 T
67344 GAAAAAAAAA
Statistics
Matches: 47, Mismatches: 5, Indels: 12
0.73 0.08 0.19
Matches are distributed among these distances:
10 11 0.23
11 15 0.32
12 10 0.21
13 11 0.23
ACGTcount: A:0.71, C:0.06, G:0.00, T:0.23
Consensus pattern (11 bp):
TAATAAATAAA
Found at i:67330 original size:13 final size:12
Alignment explanation
Indices: 67302--67343 Score: 54
Period size: 12 Copynumber: 3.7 Consensus size: 12
67292 TAACAACAAC
67302 AAAT-AATAAT-
1 AAATAAATAATA
67312 AAATAAATAAATA
1 AAATAAAT-AATA
67325 AAATAAATAATA
1 AAATAAATAATA
67337 AAA-AAAT
1 AAATAAAT
67344 GAAAAAAAAA
Statistics
Matches: 29, Mismatches: 0, Indels: 5
0.85 0.00 0.15
Matches are distributed among these distances:
10 4 0.14
11 7 0.24
12 10 0.34
13 8 0.28
ACGTcount: A:0.76, C:0.00, G:0.00, T:0.24
Consensus pattern (12 bp):
AAATAAATAATA
Found at i:67338 original size:24 final size:24
Alignment explanation
Indices: 67302--67352 Score: 68
Period size: 24 Copynumber: 2.1 Consensus size: 24
67292 TAACAACAAC
* *
67302 AAATAATAATAAATAAAT-AAATA
1 AAATAATAATAAAAAAATGAAAAA
67325 AAATAAATAATAAAAAAATGAAAAA
1 AAAT-AATAATAAAAAAATGAAAAA
67350 AAA
1 AAA
67353 ACCTGGGAAT
Statistics
Matches: 24, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
23 4 0.17
24 13 0.54
25 7 0.29
ACGTcount: A:0.78, C:0.00, G:0.02, T:0.20
Consensus pattern (24 bp):
AAATAATAATAAAAAAATGAAAAA
Found at i:67633 original size:22 final size:22
Alignment explanation
Indices: 67594--67635 Score: 57
Period size: 22 Copynumber: 1.9 Consensus size: 22
67584 TTTTTCAGAA
*
67594 TTCCCTTCTCCTCTTCTCTCTC
1 TTCCCTTCTCCTCCTCTCTCTC
**
67616 TTCCCTTCTTTTCCTCTCTC
1 TTCCCTTCTCCTCCTCTCTC
67636 CTTTCTCTAA
Statistics
Matches: 17, Mismatches: 3, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
22 17 1.00
ACGTcount: A:0.00, C:0.48, G:0.00, T:0.52
Consensus pattern (22 bp):
TTCCCTTCTCCTCCTCTCTCTC
Found at i:67882 original size:14 final size:15
Alignment explanation
Indices: 67860--67889 Score: 53
Period size: 14 Copynumber: 2.1 Consensus size: 15
67850 AAAATACGAA
67860 ATACACAAAAATAAT
1 ATACACAAAAATAAT
67875 ATAC-CAAAAATAAT
1 ATACACAAAAATAAT
67889 A
1 A
67890 CAAAATACAT
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
14 11 0.73
15 4 0.27
ACGTcount: A:0.67, C:0.13, G:0.00, T:0.20
Consensus pattern (15 bp):
ATACACAAAAATAAT
Found at i:67911 original size:24 final size:23
Alignment explanation
Indices: 67880--67931 Score: 61
Period size: 26 Copynumber: 2.2 Consensus size: 23
67870 ATAATATACC
*
67880 AAAAATAATAC-AAAATACATAAA
1 AAAAATAAAACAAAAATACA-AAA
67903 AAAATATAAAACAAAAAATACAAAA
1 AAAA-ATAAAAC-AAAAATACAAAA
67928 AAAA
1 AAAA
67932 GAATAAAAAA
Statistics
Matches: 25, Mismatches: 1, Indels: 4
0.83 0.03 0.13
Matches are distributed among these distances:
23 4 0.16
24 6 0.24
25 7 0.28
26 8 0.32
ACGTcount: A:0.79, C:0.08, G:0.00, T:0.13
Consensus pattern (23 bp):
AAAAATAAAACAAAAATACAAAA
Found at i:67918 original size:14 final size:14
Alignment explanation
Indices: 67901--67949 Score: 55
Period size: 14 Copynumber: 3.4 Consensus size: 14
67891 AAAATACATA
*
67901 AAAAAATATAAAAC
1 AAAAAATAAAAAAC
67915 AAAAAATACAAAAA-
1 AAAAAATA-AAAAAC
*
67929 AAAGAATAAAAAAC
1 AAAAAATAAAAAAC
67943 AGAAAAA
1 A-AAAAA
67950 ATCAAGGATG
Statistics
Matches: 29, Mismatches: 3, Indels: 5
0.78 0.08 0.14
Matches are distributed among these distances:
13 5 0.17
14 16 0.55
15 8 0.28
ACGTcount: A:0.82, C:0.06, G:0.04, T:0.08
Consensus pattern (14 bp):
AAAAAATAAAAAAC
Found at i:67923 original size:33 final size:34
Alignment explanation
Indices: 67850--67927 Score: 97
Period size: 33 Copynumber: 2.3 Consensus size: 34
67840 TATTAAATAC
* *
67850 AAAATACGAAATACACAAAAATAATATACCAAAA
1 AAAATACAAAATACACAAAAATAATATACAAAAA
* *
67884 ATAATACAAAATACATAAAAA-AATATA-AAACAA
1 AAAATACAAAATACACAAAAATAATATACAAA-AA
67917 AAAATACAAAA
1 AAAATACAAAA
67928 AAAAGAATAA
Statistics
Matches: 38, Mismatches: 5, Indels: 3
0.83 0.11 0.07
Matches are distributed among these distances:
32 2 0.05
33 18 0.47
34 18 0.47
ACGTcount: A:0.72, C:0.12, G:0.01, T:0.15
Consensus pattern (34 bp):
AAAATACAAAATACACAAAAATAATATACAAAAA
Found at i:67929 original size:26 final size:29
Alignment explanation
Indices: 67891--67949 Score: 79
Period size: 28 Copynumber: 2.1 Consensus size: 29
67881 AAAATAATAC
* *
67891 AAAATAC-ATAAAAA-AATATAAAACA-A
1 AAAATACAAAAAAAAGAATAAAAAACAGA
67917 AAAATACAAAAAAAAGAATAAAAAACAGA
1 AAAATACAAAAAAAAGAATAAAAAACAGA
67946 AAAA
1 AAAA
67950 ATCAAGGATG
Statistics
Matches: 28, Mismatches: 2, Indels: 3
0.85 0.06 0.09
Matches are distributed among these distances:
26 7 0.25
27 6 0.21
28 10 0.36
29 5 0.18
ACGTcount: A:0.80, C:0.07, G:0.03, T:0.10
Consensus pattern (29 bp):
AAAATACAAAAAAAAGAATAAAAAACAGA
Found at i:69888 original size:13 final size:13
Alignment explanation
Indices: 69872--69913 Score: 61
Period size: 13 Copynumber: 3.3 Consensus size: 13
69862 TTCATCAATT
69872 TAAATTTTTAATA
1 TAAATTTTTAATA
69885 TAAATTTTT-ATA
1 TAAATTTTTAATA
69897 TAATATTTTTAAT-
1 TAA-ATTTTTAATA
69910 TAAA
1 TAAA
69914 AAATCACAAA
Statistics
Matches: 27, Mismatches: 0, Indels: 5
0.84 0.00 0.16
Matches are distributed among these distances:
12 7 0.26
13 18 0.67
14 2 0.07
ACGTcount: A:0.45, C:0.00, G:0.00, T:0.55
Consensus pattern (13 bp):
TAAATTTTTAATA
Found at i:71717 original size:5 final size:6
Alignment explanation
Indices: 71698--71727 Score: 51
Period size: 6 Copynumber: 4.8 Consensus size: 6
71688 AGTCCATTTG
71698 TTTATT TTTATT TTTATTT TTTATT TTTAT
1 TTTATT TTTATT TTTA-TT TTTATT TTTAT
71728 CTATTTATAA
Statistics
Matches: 23, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
6 17 0.74
7 6 0.26
ACGTcount: A:0.17, C:0.00, G:0.00, T:0.83
Consensus pattern (6 bp):
TTTATT
Found at i:71720 original size:13 final size:13
Alignment explanation
Indices: 71698--71727 Score: 53
Period size: 13 Copynumber: 2.4 Consensus size: 13
71688 AGTCCATTTG
71698 TTTA-TTTTTATT
1 TTTATTTTTTATT
71710 TTTATTTTTTATT
1 TTTATTTTTTATT
71723 TTTAT
1 TTTAT
71728 CTATTTATAA
Statistics
Matches: 17, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
12 4 0.24
13 13 0.76
ACGTcount: A:0.17, C:0.00, G:0.00, T:0.83
Consensus pattern (13 bp):
TTTATTTTTTATT
Found at i:71842 original size:24 final size:24
Alignment explanation
Indices: 71789--71842 Score: 65
Period size: 24 Copynumber: 2.2 Consensus size: 24
71779 TATCTATTAA
**
71789 TATATATATGTTTTTATTATTTAT
1 TATATATATGTTTTTATTATCAAT
71813 TAATATATAT-TTTTTATTATCAAT
1 T-ATATATATGTTTTTATTATCAAT
71837 GTATAT
1 -TATAT
71843 TTATCTATTA
Statistics
Matches: 26, Mismatches: 2, Indels: 4
0.81 0.06 0.12
Matches are distributed among these distances:
24 17 0.65
25 9 0.35
ACGTcount: A:0.33, C:0.02, G:0.04, T:0.61
Consensus pattern (24 bp):
TATATATATGTTTTTATTATCAAT
Found at i:76970 original size:57 final size:57
Alignment explanation
Indices: 76882--77191 Score: 277
Period size: 56 Copynumber: 5.4 Consensus size: 57
76872 TTTTGTGCAG
* * * *
76882 GGAAAATTGATACTTTCAACTTTTCCCCAAAATATTTTTTAGAAATTTTAATCTCGA
1 GGAAAATTGATACTTTCAACTTTTCCTCAAAATATTTTTTAGAAAATTTAATTTCAA
* * *
76939 GGAAAATTGATACTTTCAACTTTTCCTCAAAAACCATTTTTTTTA-AAAATTTATTTTTAA
1 GGAAAATTGATACTTTCAACTTTTCCTC--AAA--ATATTTTTTAGAAAATTTAATTTCAA
* * * ** *
76999 GGAACATTGATACTTTCAACTTTTCCCCAAAAATATTTTTTGGAAACCTTAATTTCGA
1 GGAAAATTGATACTTTCAACTTTTCCTC-AAAATATTTTTTAGAAAATTTAATTTCAA
* * ** * * * *
77057 GGAAAATTGATACTTTTAGCTTTTCCTCAAAA-ACCTTCTAAAAAATTTATTTTTAA
1 GGAAAATTGATACTTTCAACTTTTCCTCAAAATATTTTTTAGAAAATTTAATTTCAA
* * *** * *
77113 GAAAAATTGATACTTTCAACTTTTCCTCAAAACATTTGAAAAAAAAATTT--TTTTAA
1 GGAAAATTGATACTTTCAACTTTTCCTCAAAATATTT-TTTAGAAAATTTAATTTCAA
*
77169 GGGAAATTGATACTTTCAACTTT
1 GGAAAATTGATACTTTCAACTTT
77192 CCCTAAACTG
Statistics
Matches: 206, Mismatches: 40, Indels: 15
0.79 0.15 0.06
Matches are distributed among these distances:
56 70 0.34
57 41 0.20
58 43 0.21
59 7 0.03
60 36 0.17
61 9 0.04
ACGTcount: A:0.37, C:0.15, G:0.08, T:0.40
Consensus pattern (57 bp):
GGAAAATTGATACTTTCAACTTTTCCTCAAAATATTTTTTAGAAAATTTAATTTCAA
Found at i:77068 original size:58 final size:58
Alignment explanation
Indices: 76882--77144 Score: 264
Period size: 57 Copynumber: 4.6 Consensus size: 58
76872 TTTTGTGCAG
* *
76882 GGAAAATTGATACTTTCAACTTTTCCCC-AAAATATTTTTTAGAAATTTTAATCTCGA
1 GGAAAATTGATACTTTCAACTTTTCCCCAAAAATATTTTTTAGAAAATTTAATTTCGA
* * * **
76939 GGAAAATTGATACTTTCAACTTTTCCTCAAAAACCATTTTTTTTA-AAAATTTATTTTTAA
1 GGAAAATTGATACTTTCAACTTTTCC-CCAAAA--ATATTTTTTAGAAAATTTAATTTCGA
* * **
76999 GGAACATTGATACTTTCAACTTTTCCCCAAAAATATTTTTTGGAAACCTTAATTTCGA
1 GGAAAATTGATACTTTCAACTTTTCCCCAAAAATATTTTTTAGAAAATTTAATTTCGA
* * * ** * * * **
77057 GGAAAATTGATACTTTTAGCTTTTCCTC-AAAA-ACCTTCTAAAAAATTTATTTTTAA
1 GGAAAATTGATACTTTCAACTTTTCCCCAAAAATATTTTTTAGAAAATTTAATTTCGA
* *
77113 GAAAAATTGATACTTTCAACTTTTCCTCAAAA
1 GGAAAATTGATACTTTCAACTTTTCCCCAAAA
77145 CATTTGAAAA
Statistics
Matches: 167, Mismatches: 33, Indels: 12
0.79 0.16 0.06
Matches are distributed among these distances:
56 39 0.23
57 41 0.25
58 35 0.21
59 8 0.05
60 35 0.21
61 9 0.05
ACGTcount: A:0.36, C:0.16, G:0.08, T:0.40
Consensus pattern (58 bp):
GGAAAATTGATACTTTCAACTTTTCCCCAAAAATATTTTTTAGAAAATTTAATTTCGA
Found at i:79274 original size:1 final size:1
Alignment explanation
Indices: 79268--79328 Score: 59
Period size: 1 Copynumber: 61.0 Consensus size: 1
79258 TAGAGGCAAC
* * * * * * *
79268 TTTTTTTTGTTTTTTTATTTTTTTGTTTTTTTTGTTTTATTGTTTTTTTTTTGTTTTTTTT
1 TTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTT
79329 ATCAAAGCTC
Statistics
Matches: 46, Mismatches: 14, Indels: 0
0.77 0.23 0.00
Matches are distributed among these distances:
1 46 1.00
ACGTcount: A:0.03, C:0.00, G:0.08, T:0.89
Consensus pattern (1 bp):
T
Found at i:79282 original size:8 final size:8
Alignment explanation
Indices: 79269--79328 Score: 70
Period size: 8 Copynumber: 7.5 Consensus size: 8
79259 AGAGGCAACT
79269 TTTTTTTG
1 TTTTTTTG
*
79277 TTTTTTTA
1 TTTTTTTG
79285 TTTTTTTG
1 TTTTTTTG
79293 TTTTTTTTG
1 -TTTTTTTG
*
79302 TTTTATTG
1 TTTTTTTG
79310 TTTTTTT-
1 TTTTTTTG
79317 TTTGTTTT-
1 TTT-TTTTG
79325 TTTT
1 TTTT
79329 ATCAAAGCTC
Statistics
Matches: 46, Mismatches: 4, Indels: 5
0.84 0.07 0.09
Matches are distributed among these distances:
7 4 0.09
8 34 0.74
9 8 0.17
ACGTcount: A:0.03, C:0.00, G:0.08, T:0.88
Consensus pattern (8 bp):
TTTTTTTG
Found at i:79282 original size:9 final size:9
Alignment explanation
Indices: 79268--79328 Score: 74
Period size: 9 Copynumber: 6.9 Consensus size: 9
79258 TAGAGGCAAC
79268 TTTTTTTTG
1 TTTTTTTTG
79277 -TTTTTTT-
1 TTTTTTTTG
*
79284 ATTTTTTTG
1 TTTTTTTTG
79293 TTTTTTTTG
1 TTTTTTTTG
79302 TTTTATTGTT-
1 TTTT-TT-TTG
79312 TTTTTTTTG
1 TTTTTTTTG
79321 TTTTTTTT
1 TTTTTTTT
79329 ATCAAAGCTC
Statistics
Matches: 46, Mismatches: 1, Indels: 10
0.81 0.02 0.18
Matches are distributed among these distances:
8 16 0.35
9 22 0.48
10 6 0.13
11 2 0.04
ACGTcount: A:0.03, C:0.00, G:0.08, T:0.89
Consensus pattern (9 bp):
TTTTTTTTG
Found at i:79466 original size:42 final size:42
Alignment explanation
Indices: 79335--79507 Score: 305
Period size: 41 Copynumber: 4.2 Consensus size: 42
79325 TTTTATCAAA
* *
79335 GCTCCTCTAAACAGAGGCTCAACGACTTTG-GAAAGTAAATT
1 GCTCCTCTAAACAGAGGCACCACGACTTTGAGAAAGTAAATT
*
79376 GCTCCTCTAAATAGAGGCACCACGACTTTGA-AAAGTAAATT
1 GCTCCTCTAAACAGAGGCACCACGACTTTGAGAAAGTAAATT
79417 GCTCCTCTAAACAGAGGCACCACGACTTTGAGAAAGTAAATT
1 GCTCCTCTAAACAGAGGCACCACGACTTTGAGAAAGTAAATT
79459 GCTCCTCTAAACAGAGGCACCACGACTTTGAGAAAGTAAATT
1 GCTCCTCTAAACAGAGGCACCACGACTTTGAGAAAGTAAATT
79501 GCTCCTC
1 GCTCCTC
79508 GACTTTGAGA
Statistics
Matches: 126, Mismatches: 4, Indels: 3
0.95 0.03 0.02
Matches are distributed among these distances:
41 67 0.53
42 59 0.47
ACGTcount: A:0.34, C:0.24, G:0.18, T:0.23
Consensus pattern (42 bp):
GCTCCTCTAAACAGAGGCACCACGACTTTGAGAAAGTAAATT
Found at i:79475 original size:83 final size:83
Alignment explanation
Indices: 79335--79507 Score: 303
Period size: 83 Copynumber: 2.1 Consensus size: 83
79325 TTTTATCAAA
* *
79335 GCTCCTCTAAACAGAGGCTCAACGACTTTGGAAAGTAAATTGCTCCTCTAAATAGAGGCACCACG
1 GCTCCTCTAAACAGAGGCACAACGACTTTGGAAAGTAAATTGCTCCTCTAAACAGAGGCACCACG
79400 ACTTTGA-AAAGTAAATT
66 ACTTTGAGAAAGTAAATT
*
79417 GCTCCTCTAAACAGAGGCACCACGACTTTGAGAAAGTAAATTGCTCCTCTAAACAGAGGCACCAC
1 GCTCCTCTAAACAGAGGCACAACGACTTTG-GAAAGTAAATTGCTCCTCTAAACAGAGGCACCAC
79482 GACTTTGAGAAAGTAAATT
65 GACTTTGAGAAAGTAAATT
79501 GCTCCTC
1 GCTCCTC
79508 GACTTTGAGA
Statistics
Matches: 86, Mismatches: 3, Indels: 2
0.95 0.03 0.02
Matches are distributed among these distances:
82 28 0.33
83 41 0.48
84 17 0.20
ACGTcount: A:0.34, C:0.24, G:0.18, T:0.23
Consensus pattern (83 bp):
GCTCCTCTAAACAGAGGCACAACGACTTTGGAAAGTAAATTGCTCCTCTAAACAGAGGCACCACG
ACTTTGAGAAAGTAAATT
Found at i:79510 original size:26 final size:26
Alignment explanation
Indices: 79481--79533 Score: 106
Period size: 26 Copynumber: 2.0 Consensus size: 26
79471 AGAGGCACCA
79481 CGACTTTGAGAAAGTAAATTGCTCCT
1 CGACTTTGAGAAAGTAAATTGCTCCT
79507 CGACTTTGAGAAAGTAAATTGCTCCT
1 CGACTTTGAGAAAGTAAATTGCTCCT
79533 C
1 C
79534 TAAACAGAGG
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
26 27 1.00
ACGTcount: A:0.30, C:0.21, G:0.19, T:0.30
Consensus pattern (26 bp):
CGACTTTGAGAAAGTAAATTGCTCCT
Found at i:79548 original size:68 final size:68
Alignment explanation
Indices: 79439--79574 Score: 263
Period size: 68 Copynumber: 2.0 Consensus size: 68
79429 AGAGGCACCA
*
79439 CGACTTTGAGAAAGTAAATTGCTCCTCTAAACAGAGGCACCACGACTTTGAGAAAGTAAATTGCT
1 CGACTTTGAGAAAGTAAATTGCTCCTCTAAACAGAGGCACCACGACTTTGAGAAAATAAATTGCT
79504 CCT
66 CCT
79507 CGACTTTGAGAAAGTAAATTGCTCCTCTAAACAGAGGCACCACGACTTTGAGAAAATAAATTGCT
1 CGACTTTGAGAAAGTAAATTGCTCCTCTAAACAGAGGCACCACGACTTTGAGAAAATAAATTGCT
79572 CCT
66 CCT
79575 TTAAACAGAG
Statistics
Matches: 67, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
68 67 1.00
ACGTcount: A:0.35, C:0.22, G:0.18, T:0.25
Consensus pattern (68 bp):
CGACTTTGAGAAAGTAAATTGCTCCTCTAAACAGAGGCACCACGACTTTGAGAAAATAAATTGCT
CCT
Found at i:79621 original size:41 final size:42
Alignment explanation
Indices: 79507--79657 Score: 268
Period size: 42 Copynumber: 3.6 Consensus size: 42
79497 AATTGCTCCT
79507 CGACTTTGAGAAAGTAAATTGCTCCTCTAAACAGAGGCACCA
1 CGACTTTGAGAAAGTAAATTGCTCCTCTAAACAGAGGCACCA
* *
79549 CGACTTTGAGAAAATAAATTGCTCCTTTAAACAGAGGCACCA
1 CGACTTTGAGAAAGTAAATTGCTCCTCTAAACAGAGGCACCA
*
79591 TGACTTTGA-AAAGTAAATTGCTCCTCTAAACAGAGGCACCA
1 CGACTTTGAGAAAGTAAATTGCTCCTCTAAACAGAGGCACCA
79632 CGACTTTGAGAAAGTAAATTGCTCCT
1 CGACTTTGAGAAAGTAAATTGCTCCT
79658 TGACAATCAT
Statistics
Matches: 102, Mismatches: 6, Indels: 2
0.93 0.05 0.02
Matches are distributed among these distances:
41 38 0.37
42 64 0.63
ACGTcount: A:0.36, C:0.22, G:0.18, T:0.25
Consensus pattern (42 bp):
CGACTTTGAGAAAGTAAATTGCTCCTCTAAACAGAGGCACCA
Found at i:79639 original size:151 final size:150
Alignment explanation
Indices: 79357--79657 Score: 541
Period size: 151 Copynumber: 2.0 Consensus size: 150
79347 AGAGGCTCAA
* *
79357 CGACTTTGGAAAGTAAATTGCTCCTCTAAATAGAGGCACCACGACTTTGAAAAGTAAATTGCTCC
1 CGACTTTGGAAAGTAAATTGCTCCTCTAAACAGAGGCACCACGACTTTGAAAAATAAATTGCTCC
79422 TCTAAACAGAGGCACCACGACTTTGAGAAAGTAAATTGCTCCTCTAAACAGAGGCACCACGACTT
66 TCTAAACAGAGGCACCACGACTTTGAGAAAGTAAATTGCTCCTCTAAACAGAGGCACCACGACTT
79487 TGAGAAAGTAAATTGCTCCT
131 TGAGAAAGTAAATTGCTCCT
79507 CGACTTTGAGAAAGTAAATTGCTCCTCTAAACAGAGGCACCACGACTTTGAGAAAATAAATTGCT
1 CGACTTTG-GAAAGTAAATTGCTCCTCTAAACAGAGGCACCACGACTTTGA-AAAATAAATTGCT
* *
79572 CCTTTAAACAGAGGCACCATGACTTTGA-AAAGTAAATTGCTCCTCTAAACAGAGGCACCACGAC
64 CCTCTAAACAGAGGCACCACGACTTTGAGAAAGTAAATTGCTCCTCTAAACAGAGGCACCACGAC
79636 TTTGAGAAAGTAAATTGCTCCT
129 TTTGAGAAAGTAAATTGCTCCT
79658 TGACAATCAT
Statistics
Matches: 145, Mismatches: 4, Indels: 3
0.95 0.03 0.02
Matches are distributed among these distances:
150 8 0.06
151 99 0.68
152 38 0.26
ACGTcount: A:0.35, C:0.22, G:0.18, T:0.24
Consensus pattern (150 bp):
CGACTTTGGAAAGTAAATTGCTCCTCTAAACAGAGGCACCACGACTTTGAAAAATAAATTGCTCC
TCTAAACAGAGGCACCACGACTTTGAGAAAGTAAATTGCTCCTCTAAACAGAGGCACCACGACTT
TGAGAAAGTAAATTGCTCCT
Found at i:80938 original size:13 final size:12
Alignment explanation
Indices: 80910--80954 Score: 54
Period size: 12 Copynumber: 3.5 Consensus size: 12
80900 ATTTTCTCAT
80910 TTTTTTCTTCTTTC
1 TTTTTT-TT-TTTC
80924 TTTCTTTTTTTTC
1 TTT-TTTTTTTTC
*
80937 TTTTTTTTTTTA
1 TTTTTTTTTTTC
80949 TTTTTT
1 TTTTTT
80955 CATCATCTTC
Statistics
Matches: 29, Mismatches: 1, Indels: 4
0.85 0.03 0.12
Matches are distributed among these distances:
12 14 0.48
13 7 0.24
14 5 0.17
15 3 0.10
ACGTcount: A:0.02, C:0.11, G:0.00, T:0.87
Consensus pattern (12 bp):
TTTTTTTTTTTC
Found at i:85237 original size:10 final size:10
Alignment explanation
Indices: 85222--85246 Score: 50
Period size: 10 Copynumber: 2.5 Consensus size: 10
85212 TATTTAAATT
85222 AAAAAAATAA
1 AAAAAAATAA
85232 AAAAAAATAA
1 AAAAAAATAA
85242 AAAAA
1 AAAAA
85247 GAAGAAAAGA
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
10 15 1.00
ACGTcount: A:0.92, C:0.00, G:0.00, T:0.08
Consensus pattern (10 bp):
AAAAAAATAA
Found at i:85351 original size:58 final size:57
Alignment explanation
Indices: 85277--85579 Score: 281
Period size: 56 Copynumber: 5.3 Consensus size: 57
85267 TTATGCAGGG
* * * * *
85277 AAATTGATACTTTCAACTTTTCCCCAAAATATTTTTTAGAAATTTTAAATCTCGAGGA
1 AAATTGATACTTTCAACTTTTCCTCAAAATATTTTTTAAAAAATTT-AATTTCAAGGA
* *
85335 AAATTGATACTTTCAACTTTTCCTCAAAACCCT-TTTTTTAAAAAAATTTATTTTTAAGGA
1 AAATTGATACTTTCAACTTTTCCTCAAAA---TATTTTTT-AAAAAATTTAATTTCAAGGA
* * ** ** *
85395 ACATTGATACTTTCAACTTTTTCC-AAAAATATTTTTTGGAAACCTTAATTTCGAGGA
1 AAATTGATACTTTCAAC-TTTTCCTCAAAATATTTTTTAAAAAATTTAATTTCAAGGA
** * * * *
85452 AAATTGATACTTTCAACTTTTCCTCAAAA-ACCTTCTAAAAAATTTATTTTTAAGAA
1 AAATTGATACTTTCAACTTTTCCTCAAAATATTTTTTAAAAAATTTAATTTCAAGGA
* ** ** * *
85508 AAATTGATACTTTCAACTTTTCCTCAAAACA-TTTGAAAAAAATTTTTTTTTAAGGG
1 AAATTGATACTTTCAACTTTTCCTCAAAATATTTTTTAAAAAATTTAATTTCAAGGA
85564 AAATTGATACTTTCAA
1 AAATTGATACTTTCAA
85580 ATTGTTTGTT
Statistics
Matches: 202, Mismatches: 35, Indels: 18
0.79 0.14 0.07
Matches are distributed among these distances:
56 86 0.43
57 35 0.17
58 34 0.17
60 33 0.16
61 14 0.07
ACGTcount: A:0.37, C:0.15, G:0.07, T:0.41
Consensus pattern (57 bp):
AAATTGATACTTTCAACTTTTCCTCAAAATATTTTTTAAAAAATTTAATTTCAAGGA
Found at i:85566 original size:113 final size:115
Alignment explanation
Indices: 85330--85579 Score: 292
Period size: 113 Copynumber: 2.2 Consensus size: 115
85320 TTTAAATCTC
* * *
85330 GAGGAAAATTGATACTTTCAACTTTTCCTCAAAACCCTTTTTTTAAAAAAATTTATTTTTAAGGA
1 GAGGAAAATTGATACTTTCAACTTTTCCTCAAAAACC--TTTCTAAAAAAATTTATTTTTAAGAA
* * ***** *
85395 ACATTGATACTTTCAACTTTTTCCAAAAATATTTTTTGGAAACCTTAATTTC
64 AAATTGATACTTTCAACTTTTTCCAAAAACATTTGAAAAAAACCTTAATTTA
85447 GAGGAAAATTGATACTTTCAACTTTTCCTCAAAAACC-TTCT-AAAAAATTTATTTTTAAGAAAA
1 GAGGAAAATTGATACTTTCAACTTTTCCTCAAAAACCTTTCTAAAAAAATTTATTTTTAAGAAAA
* ** **
85510 ATTGATACTTTCAAC-TTTTCCTCAAAACATTTGAAAAAAATTTTTTTTTA
66 ATTGATACTTTCAACTTTTTCC-AAAAACATTTGAAAAAAACCTTAATTTA
*
85560 -AGGGAAATTGATACTTTCAA
1 GAGGAAAATTGATACTTTCAA
85580 ATTGTTTGTT
Statistics
Matches: 115, Mismatches: 17, Indels: 7
0.83 0.12 0.05
Matches are distributed among these distances:
112 25 0.22
113 51 0.44
114 3 0.03
117 36 0.31
ACGTcount: A:0.38, C:0.14, G:0.08, T:0.40
Consensus pattern (115 bp):
GAGGAAAATTGATACTTTCAACTTTTCCTCAAAAACCTTTCTAAAAAAATTTATTTTTAAGAAAA
ATTGATACTTTCAACTTTTTCCAAAAACATTTGAAAAAAACCTTAATTTA
Found at i:87909 original size:54 final size:55
Alignment explanation
Indices: 87808--87916 Score: 148
Period size: 55 Copynumber: 2.0 Consensus size: 55
87798 CACATCAATA
* * * * *
87808 GTAATAATTATCTTTATTAAATTAATGTCCACATTGCAAAATATAAAAATTTAAG
1 GTAAAAATTATCTTTATTAAATCAATATACACATTACAAAATATAAAAATTTAAG
* *
87863 GTAAAAATTATTTTTGTTAAATCAATATACA-ATTACAAAATATAAAAATTTAAG
1 GTAAAAATTATCTTTATTAAATCAATATACACATTACAAAATATAAAAATTTAAG
87917 TTGAGTTGTT
Statistics
Matches: 47, Mismatches: 7, Indels: 1
0.85 0.13 0.02
Matches are distributed among these distances:
54 22 0.47
55 25 0.53
ACGTcount: A:0.49, C:0.07, G:0.06, T:0.38
Consensus pattern (55 bp):
GTAAAAATTATCTTTATTAAATCAATATACACATTACAAAATATAAAAATTTAAG
Found at i:89812 original size:2 final size:2
Alignment explanation
Indices: 89805--89835 Score: 62
Period size: 2 Copynumber: 15.5 Consensus size: 2
89795 AAGTATTCTA
89805 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 A
89836 GACACATACA
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 29 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:90441 original size:23 final size:24
Alignment explanation
Indices: 90414--90458 Score: 83
Period size: 24 Copynumber: 1.9 Consensus size: 24
90404 AATAAATAAA
90414 AAATAATA-TTTATGATTTCATAT
1 AAATAATATTTTATGATTTCATAT
90437 AAATAATATTTTATGATTTCAT
1 AAATAATATTTTATGATTTCAT
90459 TTGGGTAAAC
Statistics
Matches: 21, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
23 8 0.38
24 13 0.62
ACGTcount: A:0.42, C:0.04, G:0.04, T:0.49
Consensus pattern (24 bp):
AAATAATATTTTATGATTTCATAT
Found at i:91070 original size:16 final size:16
Alignment explanation
Indices: 91046--91079 Score: 59
Period size: 16 Copynumber: 2.1 Consensus size: 16
91036 ATTCCAAACC
91046 TATGAGTCGACCTGCG
1 TATGAGTCGACCTGCG
*
91062 TATGCGTCGACCTGCG
1 TATGAGTCGACCTGCG
91078 TA
1 TA
91080 CAACCCGACC
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
16 17 1.00
ACGTcount: A:0.18, C:0.26, G:0.29, T:0.26
Consensus pattern (16 bp):
TATGAGTCGACCTGCG
Found at i:92809 original size:15 final size:17
Alignment explanation
Indices: 92796--92829 Score: 50
Period size: 18 Copynumber: 1.9 Consensus size: 17
92786 CTTTTTCTTC
92796 TTTTTTTCTTTCTTACA
1 TTTTTTTCTTTCTTACA
*
92813 TTTTTTTTCTTTATTAC
1 -TTTTTTTCTTTCTTAC
92830 GGTGGGAAAA
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
18 15 1.00
ACGTcount: A:0.12, C:0.15, G:0.00, T:0.74
Consensus pattern (17 bp):
TTTTTTTCTTTCTTACA
Found at i:93292 original size:19 final size:19
Alignment explanation
Indices: 93270--93306 Score: 56
Period size: 19 Copynumber: 1.9 Consensus size: 19
93260 ACTTGTAATC
*
93270 TTTTTAATATTAAACTATA
1 TTTTTAATACTAAACTATA
*
93289 TTTTTCATACTAAACTAT
1 TTTTTAATACTAAACTAT
93307 TATATATAAA
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
19 16 1.00
ACGTcount: A:0.38, C:0.11, G:0.00, T:0.51
Consensus pattern (19 bp):
TTTTTAATACTAAACTATA
Found at i:93418 original size:27 final size:25
Alignment explanation
Indices: 93388--93463 Score: 64
Period size: 27 Copynumber: 2.9 Consensus size: 25
93378 AAATTTATCA
93388 AATTATTTAAAAAATAAGAATAAAATT
1 AATTATTTAAAAAATAA-AATAAAA-T
* * *
93415 AATTAAATGAATTAAATAATAA-AAAAT
1 AATT-ATTTAA-AAAATAA-AATAAAAT
*
93442 AATTATTTTAAAAATAAAATAA
1 AATTATTTAAAAAATAAAATAA
93464 TTATTTTAAA
Statistics
Matches: 38, Mismatches: 8, Indels: 8
0.70 0.15 0.15
Matches are distributed among these distances:
24 2 0.05
25 8 0.21
26 3 0.08
27 9 0.24
28 8 0.21
29 8 0.21
ACGTcount: A:0.64, C:0.00, G:0.03, T:0.33
Consensus pattern (25 bp):
AATTATTTAAAAAATAAAATAAAAT
Found at i:93452 original size:23 final size:22
Alignment explanation
Indices: 93426--93484 Score: 86
Period size: 20 Copynumber: 2.7 Consensus size: 22
93416 ATTAAATGAA
93426 TTAAATAATAAAAAATAATTATT
1 TTAAATAAT-AAAAATAATTATT
93449 TTAAA-AAT-AAAATAATTATT
1 TTAAATAATAAAAATAATTATT
93469 TTAAATAATTAAAAAT
1 TTAAATAA-TAAAAAT
93485 TTTTTAATAT
Statistics
Matches: 33, Mismatches: 0, Indels: 6
0.85 0.00 0.15
Matches are distributed among these distances:
20 17 0.52
21 2 0.06
22 4 0.12
23 10 0.30
ACGTcount: A:0.61, C:0.00, G:0.00, T:0.39
Consensus pattern (22 bp):
TTAAATAATAAAAATAATTATT
Found at i:93462 original size:20 final size:21
Alignment explanation
Indices: 93426--93491 Score: 84
Period size: 20 Copynumber: 3.2 Consensus size: 21
93416 ATTAAATGAA
93426 TTAAATAATAAAAAATAATTATT
1 TTAAATAAT--AAAATAATTATT
93449 TTAAA-AATAAAATAATTATT
1 TTAAATAATAAAATAATTATT
*
93469 TTAAATAATTAAA-AATT-TT
1 TTAAATAATAAAATAATTATT
93488 TTAA
1 TTAA
93492 TATATTTTAA
Statistics
Matches: 41, Mismatches: 1, Indels: 6
0.85 0.02 0.12
Matches are distributed among these distances:
19 6 0.15
20 21 0.51
21 6 0.15
22 3 0.07
23 5 0.12
ACGTcount: A:0.58, C:0.00, G:0.00, T:0.42
Consensus pattern (21 bp):
TTAAATAATAAAATAATTATT
Found at i:93498 original size:29 final size:28
Alignment explanation
Indices: 93461--93524 Score: 94
Period size: 28 Copynumber: 2.3 Consensus size: 28
93451 AAAAATAAAA
*
93461 TAAT-TATTTTAAATAATTAAAAATTTTT
1 TAATATATTTT-AATAATTAAAAAATTTT
93489 TAATATATTTTAATAATTAAAAAATTTT
1 TAATATATTTTAATAATTAAAAAATTTT
*
93517 AAATATAT
1 TAATATAT
93525 ATACAACAGT
Statistics
Matches: 33, Mismatches: 2, Indels: 2
0.89 0.05 0.05
Matches are distributed among these distances:
28 27 0.82
29 6 0.18
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (28 bp):
TAATATATTTTAATAATTAAAAAATTTT
Found at i:93619 original size:32 final size:32
Alignment explanation
Indices: 93562--93625 Score: 83
Period size: 32 Copynumber: 2.0 Consensus size: 32
93552 TTTTATGTAT
* * *
93562 GAATTAAATTTATCAAATTATTTAAAAAATAA
1 GAATTAAATTAATCAAATGAATTAAAAAATAA
* *
93594 GAATTAAATTAATTAAATGAATTAAATAATAA
1 GAATTAAATTAATCAAATGAATTAAAAAATAA
93626 AAATAATTAT
Statistics
Matches: 27, Mismatches: 5, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
32 27 1.00
ACGTcount: A:0.58, C:0.02, G:0.05, T:0.36
Consensus pattern (32 bp):
GAATTAAATTAATCAAATGAATTAAAAAATAA
Found at i:93629 original size:18 final size:18
Alignment explanation
Indices: 93594--93627 Score: 52
Period size: 18 Copynumber: 1.9 Consensus size: 18
93584 TAAAAAATAA
*
93594 GAATTAAATTAATTAAAT
1 GAATTAAATTAATAAAAT
93612 GAATTAAA-TAATAAAA
1 GAATTAAATTAATAAAA
93628 ATAATTATTT
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:0.62, C:0.00, G:0.06, T:0.32
Consensus pattern (18 bp):
GAATTAAATTAATAAAAT
Found at i:93650 original size:20 final size:21
Alignment explanation
Indices: 93615--93674 Score: 88
Period size: 20 Copynumber: 2.9 Consensus size: 21
93605 ATTAAATGAA
93615 TTAAATAATAAAAATAATTATT
1 TTAAATAAT-AAAATAATTATT
93637 TTAAA-AATAAAATAATTATT
1 TTAAATAATAAAATAATTATT
93657 TTAAATAATTAAAA-AATT
1 TTAAATAA-TAAAATAATT
93675 TTTAATATAT
Statistics
Matches: 36, Mismatches: 0, Indels: 5
0.88 0.00 0.12
Matches are distributed among these distances:
20 17 0.47
21 9 0.25
22 10 0.28
ACGTcount: A:0.60, C:0.00, G:0.00, T:0.40
Consensus pattern (21 bp):
TTAAATAATAAAATAATTATT
Found at i:93671 original size:29 final size:28
Alignment explanation
Indices: 93639--93699 Score: 70
Period size: 28 Copynumber: 2.1 Consensus size: 28
93629 TAATTATTTT
93639 AAAAATAAAATAAT-TATTTTAAATAATTA
1 AAAAAT-AAATAATATATTTT-AATAATTA
***
93668 AAAAATTTTTAATATATTTTAATAATTA
1 AAAAATAAATAATATATTTTAATAATTA
93696 AAAA
1 AAAA
93700 TTTTTAAATA
Statistics
Matches: 28, Mismatches: 3, Indels: 3
0.82 0.09 0.09
Matches are distributed among these distances:
28 16 0.57
29 12 0.43
ACGTcount: A:0.59, C:0.00, G:0.00, T:0.41
Consensus pattern (28 bp):
AAAAATAAATAATATATTTTAATAATTA
Found at i:93680 original size:28 final size:27
Alignment explanation
Indices: 93649--93712 Score: 94
Period size: 28 Copynumber: 2.3 Consensus size: 27
93639 AAAAATAAAA
93649 TAAT-TATTTTAAATAATTAAAAAATTTT
1 TAATATATTTT-AATAATT-AAAAATTTT
93677 TAATATATTTTAATAATTAAAAATTTT
1 TAATATATTTTAATAATTAAAAATTTT
93704 TAAATATAT
1 T-AATATAT
93713 ATACAAAAGT
Statistics
Matches: 34, Mismatches: 0, Indels: 4
0.89 0.00 0.11
Matches are distributed among these distances:
27 10 0.29
28 18 0.53
29 6 0.18
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (27 bp):
TAATATATTTTAATAATTAAAAATTTT
Found at i:93712 original size:188 final size:189
Alignment explanation
Indices: 93362--93742 Score: 719
Period size: 188 Copynumber: 2.0 Consensus size: 189
93352 TTAATTTCTA
93362 ATTTTATGTATGAATTAAATTTATCAAATTATTTAAAAAATAAGAATAAAATTAATTAAATGAAT
1 ATTTTATGTATGAATTAAATTTATCAAATTATTTAAAAAATAAGAATAAAATTAATTAAATGAAT
*
93427 TAAATAATAAAAAATAATTATTTTAAAAATAAAATAATTATTTTAAATAATTAAAAATTTTTTAA
66 TAAATAATAAAAAATAATTATTTTAAAAATAAAATAATTATTTTAAATAATTAAAAAATTTTTAA
*
93492 TATATTTTAATAATTAAAAAATTTTAAATATATATACAACAGTTATCATTAGTTATTAT
131 TATATTTTAATAATTAAAAAATTTTAAATATATATACAAAAGTTATCATTAGTTATTAT
*
93551 ATTTTATGTATGAATTAAATTTATCAAATTATTTAAAAAATAAGAATTAAATTAATTAAATGAAT
1 ATTTTATGTATGAATTAAATTTATCAAATTATTTAAAAAATAAGAATAAAATTAATTAAATGAAT
93616 TAAATAAT-AAAAATAATTATTTTAAAAATAAAATAATTATTTTAAATAATTAAAAAATTTTTAA
66 TAAATAATAAAAAATAATTATTTTAAAAATAAAATAATTATTTTAAATAATTAAAAAATTTTTAA
*
93680 TATATTTTAATAATTAAAAATTTTTAAATATATATACAAAAGTTATCATTAGTTATTAT
131 TATATTTTAATAATTAAAAAATTTTAAATATATATACAAAAGTTATCATTAGTTATTAT
93739 ATTT
1 ATTT
93743 CATTAAAAAA
Statistics
Matches: 188, Mismatches: 4, Indels: 1
0.97 0.02 0.01
Matches are distributed among these distances:
188 116 0.62
189 72 0.38
ACGTcount: A:0.52, C:0.02, G:0.03, T:0.43
Consensus pattern (189 bp):
ATTTTATGTATGAATTAAATTTATCAAATTATTTAAAAAATAAGAATAAAATTAATTAAATGAAT
TAAATAATAAAAAATAATTATTTTAAAAATAAAATAATTATTTTAAATAATTAAAAAATTTTTAA
TATATTTTAATAATTAAAAAATTTTAAATATATATACAAAAGTTATCATTAGTTATTAT
Found at i:95495 original size:357 final size:356
Alignment explanation
Indices: 94814--95618 Score: 1057
Period size: 357 Copynumber: 2.3 Consensus size: 356
94804 TTTCAAACGT
* * * * *
94814 GTAATTGAATTCAAAGT-TGATAAGAATTGTTAAAGGCATCTATCTTAAATATATGCCTTCAATA
1 GTAATTGAATACAAACTGTGATAGGAATTATTAAAGGTATCTATCTTAAATATATGCCTTCAATA
* * *
94878 ATAGTGTTGCAATTTGTGTGGCGATATATAGAAGGCATTTTACAATAAAAGACACCTTTAATAAT
66 ATAGTGTTACAATTTGTGTGACGATATATAGAAAGCATTTTACAATAAAAGACACCTTTAATAAT
* * * * *
94943 TCTCAAACTATTTAGTGAGAAAATTTTGAAGGCGTTTGTTATTAACAAATGCCTTCAGTAATGGA
131 TCTCAAAATATTTAGTGAGAAAATTTTAAAGGCGTCTATTATTAACAAACGCCTTCAGTAATGGA
* *
95008 TTACTAAGTTTAAAGGTATATTGAAGGCACATTTTCTAATAAACGCCTTCCATTACCATCATGGT
196 TTACTAAGTTTAAAGGTATATTAAAGGCACATTTTCTAATAAACACCTTCCATTACCATCATGGT
* *
95073 ATATTGAAGACGTTTTATAATAAAAAACGCCTTTAATAATTCAAAAAAAATTTTTTAGGGAAATT
261 ATATTGAAGA-GTTTTATAATAAAAAACGCCTTTAATAATCCAAAAAAAATTTTTTAGAGAAATT
95138 ATT-AAAGATGTTGTTTTCTAAAA-TCACCTTCA
325 ATTGAAAG-TGTTGTTTTCTAAAACT-ACCTTCA
*
95170 GTAATTGTATACAAACTGTGATAGGAATTATTAAAGGTATCTATCTTAAATATATGCCTTCAATA
1 GTAATTGAATACAAACTGTGATAGGAATTATTAAAGGTATCTATCTTAAATATATGCCTTCAATA
* * * * * **
95235 ATGGTATTACAATTTGTGTGACGGTATATAGAAAGTATTTTACAATAAAATA-TGCTTTAAATAA
66 ATAGTGTTACAATTTGTGTGACGATATATAGAAAGCATTTTACAATAAAAGACACCTTT-AATAA
*
95299 TTCTCAAAATATTTAGTGGGAAAATTTTAAAGGCGTCTATTATTAACAAACGCCTTCAGTAAT-G
130 TTCTCAAAATATTTAGTGAGAAAATTTTAAAGGCGTCTATTATTAACAAACGCCTTCAGTAATGG
* * * *
95363 ATTACTAAGTTTAAAGGTATATTAAATGCACCTTTTCTAATAAACACCTTTCATTACCATCGTGG
195 ATTACTAAGTTTAAAGGTATATTAAAGGCACATTTTCTAATAAACACCTTCCATTACCATCATGG
* * * * *
95428 TATATTGAAG-GTTTGTCATAATAAAAGATGCCTTTAATAATCCGAGAAAATTTTTTTAAGAGAA
260 TATATTGAAGAGTTT-T-ATAATAAAAAACGCCTTTAATAATCCAAAAAAAATTTTTT-AGAGAA
*** * *
95492 ATTATTGAAAGTGTTGTTTTCTGCGACTGCCTTTA
322 ATTATTGAAAGTGTTGTTTTCTAAAACTACCTTCA
* * ** * *
95527 GTAATT-AACTACAAACTGTGATAGGAATTATTAAAGGTGTCTTTCTTGGATAAATGCTTTCAAT
1 GTAATTGAA-TACAAACTGTGATAGGAATTATTAAAGGTATCTATCTTAAATATATGCCTTCAAT
* *
95591 AATAGTGTTAGAATTTGTGTGACAATAT
65 AATAGTGTTACAATTTGTGTGACGATAT
95619 TTTCAAGGTG
Statistics
Matches: 389, Mismatches: 52, Indels: 15
0.85 0.11 0.03
Matches are distributed among these distances:
354 4 0.01
355 1 0.00
356 123 0.32
357 256 0.66
358 5 0.01
ACGTcount: A:0.37, C:0.12, G:0.15, T:0.37
Consensus pattern (356 bp):
GTAATTGAATACAAACTGTGATAGGAATTATTAAAGGTATCTATCTTAAATATATGCCTTCAATA
ATAGTGTTACAATTTGTGTGACGATATATAGAAAGCATTTTACAATAAAAGACACCTTTAATAAT
TCTCAAAATATTTAGTGAGAAAATTTTAAAGGCGTCTATTATTAACAAACGCCTTCAGTAATGGA
TTACTAAGTTTAAAGGTATATTAAAGGCACATTTTCTAATAAACACCTTCCATTACCATCATGGT
ATATTGAAGAGTTTTATAATAAAAAACGCCTTTAATAATCCAAAAAAAATTTTTTAGAGAAATTA
TTGAAAGTGTTGTTTTCTAAAACTACCTTCA
Found at i:100169 original size:22 final size:22
Alignment explanation
Indices: 100144--100188 Score: 90
Period size: 22 Copynumber: 2.0 Consensus size: 22
100134 AAATTGAAAA
100144 TGTCTTTATATATCTTCTGAAC
1 TGTCTTTATATATCTTCTGAAC
100166 TGTCTTTATATATCTTCTGAAC
1 TGTCTTTATATATCTTCTGAAC
100188 T
1 T
100189 AACATTTTTT
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
22 23 1.00
ACGTcount: A:0.22, C:0.18, G:0.09, T:0.51
Consensus pattern (22 bp):
TGTCTTTATATATCTTCTGAAC
Found at i:100467 original size:78 final size:78
Alignment explanation
Indices: 100370--100527 Score: 298
Period size: 78 Copynumber: 2.0 Consensus size: 78
100360 CATCACTTCT
*
100370 AACCCTTTAATTGATATTGGATCTGGCAATATGAGAGGTCCAAGTTTAGATAGTACCCCATCGAT
1 AACCCTTTAATTGATATTGGATCTAGCAATATGAGAGGTCCAAGTTTAGATAGTACCCCATCGAT
100435 TGATTATACTTTA
66 TGATTATACTTTA
*
100448 AACCCTTTAATTGATATTGGATCTAGCAATATGAGAGGTCCAAGTTTAGATAGTACTCCATCGAT
1 AACCCTTTAATTGATATTGGATCTAGCAATATGAGAGGTCCAAGTTTAGATAGTACCCCATCGAT
100513 TGATTATACTTTA
66 TGATTATACTTTA
100526 AA
1 AA
100528 TTTGAATGCA
Statistics
Matches: 78, Mismatches: 2, Indels: 0
0.98 0.03 0.00
Matches are distributed among these distances:
78 78 1.00
ACGTcount: A:0.32, C:0.16, G:0.17, T:0.35
Consensus pattern (78 bp):
AACCCTTTAATTGATATTGGATCTAGCAATATGAGAGGTCCAAGTTTAGATAGTACCCCATCGAT
TGATTATACTTTA
Found at i:102985 original size:21 final size:19
Alignment explanation
Indices: 102947--102985 Score: 51
Period size: 20 Copynumber: 1.9 Consensus size: 19
102937 GATGATAGAG
102947 TTTTTTAAAAATTTATTAA
1 TTTTTTAAAAATTTATTAA
*
102966 TTTTTGTAAATATATTATTA
1 TTTTT-TAAAAAT-TTATTA
102986 TAAAATACAT
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
19 5 0.29
20 6 0.35
21 6 0.35
ACGTcount: A:0.38, C:0.00, G:0.03, T:0.59
Consensus pattern (19 bp):
TTTTTTAAAAATTTATTAA
Found at i:104250 original size:56 final size:55
Alignment explanation
Indices: 104098--104250 Score: 189
Period size: 56 Copynumber: 2.6 Consensus size: 55
104088 GTGTAGGGAT
*
104098 AATTGATACTTTCAACTTTTCCTCAAAAATTTATTTTTTTTGAAATTTTAATTTCGAGGAA
1 AATTGATACTTTCAACTTTT-CTCAAAAA---A--TTTTTTGAAATTTTAATTTCAAGGAA
** * *
104159 AATTGATACTTTCAACTTTTTCTCAAAACCTTTTTTGAAATTTTATTTTTAAGGAA
1 AATTGATACTTTCAAC-TTTTCTCAAAAAATTTTTTGAAATTTTAATTTCAAGGAA
104215 AATTGATACTTTCAACTTTTCTCAAAAAATATTTTT
1 AATTGATACTTTCAACTTTTCTCAAAAAAT-TTTTT
104251 TTTTATTTTT
Statistics
Matches: 83, Mismatches: 7, Indels: 9
0.84 0.07 0.09
Matches are distributed among these distances:
55 12 0.14
56 44 0.53
61 23 0.28
62 4 0.05
ACGTcount: A:0.33, C:0.12, G:0.07, T:0.48
Consensus pattern (55 bp):
AATTGATACTTTCAACTTTTCTCAAAAAATTTTTTGAAATTTTAATTTCAAGGAA
Found at i:104266 original size:56 final size:56
Alignment explanation
Indices: 104098--104273 Score: 185
Period size: 56 Copynumber: 3.1 Consensus size: 56
104088 GTGTAGGGAT
* * *
104098 AATTGATACTTTCAACTTTTCCTCAAAAATTTATTTTTTTTGAAATTTTAATTTCGAGGAA
1 AATTGATACTTTCAACTTTT-CTCAAAAA-ATATTTTTTTT--AATTTTTATTT-AAGGAA
** ** *
104159 AATTGATACTTTCAACTTTTTCTC--AAAACCTTTTTTGAAATTTTATTTTTAAGGAA
1 AATTGATACTTTCAAC-TTTTCTCAAAAAATATTTTTTTTAATTTT-TATTTAAGGAA
* *
104215 AATTGATACTTTCAACTTTTCTCAAAAAATATTTTTTTTTATTTTTATTTAAAGAA
1 AATTGATACTTTCAACTTTTCTCAAAAAATATTTTTTTTAATTTTTATTTAAGGAA
104271 AAT
1 AAT
104274 AGAACAAAAT
Statistics
Matches: 96, Mismatches: 15, Indels: 13
0.77 0.12 0.10
Matches are distributed among these distances:
55 7 0.07
56 39 0.41
57 18 0.19
58 6 0.06
59 3 0.03
61 19 0.20
62 4 0.04
ACGTcount: A:0.34, C:0.11, G:0.06, T:0.49
Consensus pattern (56 bp):
AATTGATACTTTCAACTTTTCTCAAAAAATATTTTTTTTAATTTTTATTTAAGGAA
Found at i:104334 original size:20 final size:21
Alignment explanation
Indices: 104291--104339 Score: 57
Period size: 20 Copynumber: 2.4 Consensus size: 21
104281 AATAAAAGTG
* *
104291 AAAATAAATAAAGA-TTAAAA
1 AAAATAAAGAAAGAGTAAAAA
104311 AAAATAAAGAAA-AGTAAAACA
1 AAAATAAAGAAAGAGTAAAA-A
104332 AAAATAAA
1 AAAATAAA
104340 AATAAGATAA
Statistics
Matches: 25, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
19 1 0.04
20 15 0.60
21 9 0.36
ACGTcount: A:0.78, C:0.02, G:0.06, T:0.14
Consensus pattern (21 bp):
AAAATAAAGAAAGAGTAAAAA
Found at i:104802 original size:20 final size:20
Alignment explanation
Indices: 104753--104803 Score: 66
Period size: 20 Copynumber: 2.5 Consensus size: 20
104743 CCGGTGGAAT
104753 TTTCACCGGAATCTAAAAAA
1 TTTCACCGGAATCTAAAAAA
* ** *
104773 TGTCGTCGGAATCTAGAAAA
1 TTTCACCGGAATCTAAAAAA
104793 TTTCACCGGAA
1 TTTCACCGGAA
104804 GTTGGCCGGA
Statistics
Matches: 24, Mismatches: 7, Indels: 0
0.77 0.23 0.00
Matches are distributed among these distances:
20 24 1.00
ACGTcount: A:0.37, C:0.20, G:0.18, T:0.25
Consensus pattern (20 bp):
TTTCACCGGAATCTAAAAAA
Found at i:105451 original size:15 final size:16
Alignment explanation
Indices: 105417--105455 Score: 55
Period size: 15 Copynumber: 2.5 Consensus size: 16
105407 TAATATAATA
105417 ATAAATATATAGCTAT
1 ATAAATATATAGCTAT
105433 ATAAATATAATA-C-AT
1 ATAAATAT-ATAGCTAT
105448 ATAAATAT
1 ATAAATAT
105456 TAACAGAGAA
Statistics
Matches: 22, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
15 10 0.45
16 9 0.41
17 3 0.14
ACGTcount: A:0.56, C:0.05, G:0.03, T:0.36
Consensus pattern (16 bp):
ATAAATATATAGCTAT
Found at i:105733 original size:1 final size:1
Alignment explanation
Indices: 105729--105811 Score: 85
Period size: 1 Copynumber: 83.0 Consensus size: 1
105719 CCCTTTTTAC
* * * * * * * *
105729 TTTTTGTTTTTTTGTTTTTTTTGTTTTGTTTTTTTGTTTTTTTTGTTTTTTGTTTTTTTGTTTTT
1 TTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTT
*
105794 TTTTTGTTTTTTTTTTTT
1 TTTTTTTTTTTTTTTTTT
105812 ACCAAAGCTC
Statistics
Matches: 64, Mismatches: 18, Indels: 0
0.78 0.22 0.00
Matches are distributed among these distances:
1 64 1.00
ACGTcount: A:0.00, C:0.00, G:0.11, T:0.89
Consensus pattern (1 bp):
T
Found at i:105740 original size:8 final size:8
Alignment explanation
Indices: 105729--105810 Score: 102
Period size: 8 Copynumber: 10.6 Consensus size: 8
105719 CCCTTTTTAC
105729 TTTTTGTT
1 TTTTTGTT
105737 TTTTTG-T
1 TTTTTGTT
105744 TTTTT-TT
1 TTTTTGTT
*
105751 GTTTTGTT
1 TTTTTGTT
105759 TTTTTGTT
1 TTTTTGTT
105767 TTTTT-TGT
1 TTTTTGT-T
105775 TTTTTGTT
1 TTTTTGTT
105783 TTTTTGTT
1 TTTTTGTT
105791 TTTTT-TT
1 TTTTTGTT
105798 TGTTTT-TT
1 T-TTTTGTT
105806 TTTTT
1 TTTTT
105811 TACCAAAGCT
Statistics
Matches: 67, Mismatches: 2, Indels: 11
0.84 0.03 0.14
Matches are distributed among these distances:
7 19 0.28
8 47 0.70
9 1 0.01
ACGTcount: A:0.00, C:0.00, G:0.11, T:0.89
Consensus pattern (8 bp):
TTTTTGTT
Found at i:105755 original size:22 final size:22
Alignment explanation
Indices: 105730--105811 Score: 119
Period size: 24 Copynumber: 3.5 Consensus size: 22
105720 CCTTTTTACT
105730 TTTTGTTTTTTTGTTTTTTTTG
1 TTTTGTTTTTTTGTTTTTTTTG
105752 TTTTGTTTTTTTGTTTTTTTTG
1 TTTTGTTTTTTTGTTTTTTTTG
105774 TTTTTTGTTTTTTTGTTTTTTTTTTG
1 --TTTTGTTTTTTTG--TTTTTTTTG
*
105800 TTTTTTTTTTTT
1 TTTTGTTTTTTT
105812 ACCAAAGCTC
Statistics
Matches: 55, Mismatches: 1, Indels: 6
0.89 0.02 0.10
Matches are distributed among these distances:
22 22 0.40
24 24 0.44
26 9 0.16
ACGTcount: A:0.00, C:0.00, G:0.11, T:0.89
Consensus pattern (22 bp):
TTTTGTTTTTTTGTTTTTTTTG
Found at i:106049 original size:123 final size:123
Alignment explanation
Indices: 105818--106267 Score: 648
Period size: 123 Copynumber: 3.7 Consensus size: 123
105808 TTTTACCAAA
* * * * *
105818 GCTCCTCTAAGCAGAGGCTCAACGACTTTGAAAAGTAAATTGCTCCTCTAAACAGAGGCACCACG
1 GCTCCTCTAAACAGAGGCACCACGACTTTGAAAAGTAAATTGCTCCTCTAAACAGAGGCAACAGG
*
105883 ACTTTGAAAAGTAAATTGCTCCTCTAAACAGAGGCAACGGGACTTTGAAAAGTAAATT
66 ACTTTGAAAAGTAAATTGCTCCTCTAAACAGAGGCAACAGGACTTTGAAAAGTAAATT
** **** * *
105941 GCTTATCTGTTTAGAGGCACCACGACTTTGAAAAATAAATTGCTCCTCTAAACAGAGGCAACGGG
1 GCTCCTCTAAACAGAGGCACCACGACTTTGAAAAGTAAATTGCTCCTCTAAACAGAGGCAACAGG
*
106006 ACTTTGAAAAGTAAATTGCTCTTCTAAACAGAGGCAACAGGACTTTGAAAAGTAAATT
66 ACTTTGAAAAGTAAATTGCTCCTCTAAACAGAGGCAACAGGACTTTGAAAAGTAAATT
* * * *
106064 ACTCCTCTAAACAGAGGCACCACGACTTTGGAAAGTAAATTGTTCCTCTAAACAGAGGCAACAGA
1 GCTCCTCTAAACAGAGGCACCACGACTTTGAAAAGTAAATTGCTCCTCTAAACAGAGGCAACAGG
* * * *
106129 ACTTTGGAAAAGTAAATTGCTCCTCTAAATAGAGGCACCACGACTTTGGAAAGTAAATT
66 ACTTT-GAAAAGTAAATTGCTCCTCTAAACAGAGGCAACAGGACTTTGAAAAGTAAATT
* *
106188 GCTCCTCTAAACAGAGGCACCACGACTTTGGAAAGTAAATTGCTCCTCTAAACAGAGGCAACGGG
1 GCTCCTCTAAACAGAGGCACCACGACTTTGAAAAGTAAATTGCTCCTCTAAACAGAGGCAACAGG
* *
106253 ACTTTGGAAATTAAA
66 ACTTTGAAAAGTAAA
106268 AGGCTCCTTG
Statistics
Matches: 289, Mismatches: 37, Indels: 2
0.88 0.11 0.01
Matches are distributed among these distances:
123 175 0.61
124 114 0.39
ACGTcount: A:0.36, C:0.21, G:0.20, T:0.24
Consensus pattern (123 bp):
GCTCCTCTAAACAGAGGCACCACGACTTTGAAAAGTAAATTGCTCCTCTAAACAGAGGCAACAGG
ACTTTGAAAAGTAAATTGCTCCTCTAAACAGAGGCAACAGGACTTTGAAAAGTAAATT
Found at i:106275 original size:41 final size:41
Alignment explanation
Indices: 105818--106267 Score: 589
Period size: 41 Copynumber: 11.0 Consensus size: 41
105808 TTTTACCAAA
* *
105818 GCTCCTCTAAGCAGAGGC-TCAACGACTTTGAAAAGTAAATT
1 GCTCCTCTAAACAGAGGCAAC-ACGACTTTGAAAAGTAAATT
*
105859 GCTCCTCTAAACAGAGGCACCACGACTTTGAAAAGTAAATT
1 GCTCCTCTAAACAGAGGCAACACGACTTTGAAAAGTAAATT
**
105900 GCTCCTCTAAACAGAGGCAACGGGACTTTGAAAAGTAAATT
1 GCTCCTCTAAACAGAGGCAACACGACTTTGAAAAGTAAATT
** **** * *
105941 GCTTATCTGTTTAGAGGCACCACGACTTTGAAAAATAAATT
1 GCTCCTCTAAACAGAGGCAACACGACTTTGAAAAGTAAATT
**
105982 GCTCCTCTAAACAGAGGCAACGGGACTTTGAAAAGTAAATT
1 GCTCCTCTAAACAGAGGCAACACGACTTTGAAAAGTAAATT
* *
106023 GCTCTTCTAAACAGAGGCAACAGGACTTTGAAAAGTAAATT
1 GCTCCTCTAAACAGAGGCAACACGACTTTGAAAAGTAAATT
* * *
106064 ACTCCTCTAAACAGAGGCACCACGACTTTGGAAAGTAAATT
1 GCTCCTCTAAACAGAGGCAACACGACTTTGAAAAGTAAATT
*
106105 GTTCCTCTAAACAGAGGCAACA-GAACTTTGGAAAAGTAAATT
1 GCTCCTCTAAACAGAGGCAACACG-ACTTT-GAAAAGTAAATT
* * *
106147 GCTCCTCTAAATAGAGGCACCACGACTTTGGAAAGTAAATT
1 GCTCCTCTAAACAGAGGCAACACGACTTTGAAAAGTAAATT
* *
106188 GCTCCTCTAAACAGAGGCACCACGACTTTGGAAAGTAAATT
1 GCTCCTCTAAACAGAGGCAACACGACTTTGAAAAGTAAATT
** * *
106229 GCTCCTCTAAACAGAGGCAACGGGACTTTGGAAATTAAA
1 GCTCCTCTAAACAGAGGCAACACGACTTTGAAAAGTAAA
106268 AGGCTCCTTG
Statistics
Matches: 360, Mismatches: 45, Indels: 8
0.87 0.11 0.02
Matches are distributed among these distances:
40 1 0.00
41 322 0.89
42 36 0.10
43 1 0.00
ACGTcount: A:0.36, C:0.21, G:0.20, T:0.24
Consensus pattern (41 bp):
GCTCCTCTAAACAGAGGCAACACGACTTTGAAAAGTAAATT
Found at i:107559 original size:28 final size:28
Alignment explanation
Indices: 107519--107588 Score: 90
Period size: 28 Copynumber: 2.5 Consensus size: 28
107509 TTTGAATCTC
*
107519 TTTTTTTCA-TTTTCTCAT-TTTTTCCTT
1 TTTTTTTCATTTTTCTCATCATTTT-CTT
*
107546 TTTTTTTCATTTTTTTCATCATTTTCTT
1 TTTTTTTCATTTTTCTCATCATTTTCTT
*
107574 TTTTTCTCATTTTTC
1 TTTTTTTCATTTTTC
107589 ATCCATTGTT
Statistics
Matches: 37, Mismatches: 4, Indels: 3
0.84 0.09 0.07
Matches are distributed among these distances:
27 9 0.24
28 24 0.65
29 4 0.11
ACGTcount: A:0.09, C:0.17, G:0.00, T:0.74
Consensus pattern (28 bp):
TTTTTTTCATTTTTCTCATCATTTTCTT
Found at i:107577 original size:16 final size:16
Alignment explanation
Indices: 107549--107586 Score: 58
Period size: 17 Copynumber: 2.2 Consensus size: 16
107539 TTTCCTTTTT
107549 TTTTCATTTTTTTCATCA
1 TTTTC-TTTTTTTC-TCA
107567 TTTTCTTTTTTTCTCA
1 TTTTCTTTTTTTCTCA
107583 TTTT
1 TTTT
107587 TCATCCATTG
Statistics
Matches: 20, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
16 7 0.35
17 8 0.40
18 5 0.25
ACGTcount: A:0.11, C:0.16, G:0.00, T:0.74
Consensus pattern (16 bp):
TTTTCTTTTTTTCTCA
Found at i:111623 original size:115 final size:122
Alignment explanation
Indices: 111476--111757 Score: 348
Period size: 114 Copynumber: 2.4 Consensus size: 122
111466 TCTTGTGTAG
* *
111476 GGAAAATTGATACTTTCAACTTTT-TCTCAAAAATATTTTTTTTTGAAACTTTAATTTCGAGAAA
1 GGAAAATTGATACTTTCAACTTTTCCCT-AAAAATATTTTTTTTTGAAACTTTAATTTCAAGAAA
*
111540 AATTGATACTTTCAACTTTT-CCT-AAA-A-CCTTTTTT-G-AAATTTT-ATTTTTAA
65 AATTGATACTTTCAACTTTTCCCTAAAATATCCTTTTTTGGAAAATTTTGATTTTGAA
*** * * * *
111591 GGAAAATTGATACTTTCAACTTTTCCCTAAAAA-CCCTTTTTTTGAAATTTTATTTTTAAGGAAA
1 GGAAAATTGATACTTTCAACTTTTCCCTAAAAATATTTTTTTTTGAAACTTTAATTTCAAGAAAA
**
111655 ATTGATACTTTCAACTTTTCCCTAAAAATATTTTTTTTTTGGAAAATTTTGATTTTGAA
66 ATTGATACTTTCAACTTTTCCCT-AAAATA-TCCTTTTTTGGAAAATTTTGATTTTGAA
*
111714 GGAAAATTGATACTTTCAACTTTTCCTCAAAAAATATTTTTTTT
1 GGAAAATTGATACTTTCAACTTTTCC-CTAAAAATATTTTTTTT
111758 GATTTTTATT
Statistics
Matches: 139, Mismatches: 16, Indels: 14
0.82 0.09 0.08
Matches are distributed among these distances:
114 42 0.30
115 32 0.23
116 2 0.01
117 3 0.02
118 1 0.01
120 6 0.04
121 1 0.01
122 7 0.05
123 33 0.24
124 6 0.04
125 6 0.04
ACGTcount: A:0.33, C:0.12, G:0.08, T:0.46
Consensus pattern (122 bp):
GGAAAATTGATACTTTCAACTTTTCCCTAAAAATATTTTTTTTTGAAACTTTAATTTCAAGAAAA
ATTGATACTTTCAACTTTTCCCTAAAATATCCTTTTTTGGAAAATTTTGATTTTGAA
Found at i:111651 original size:59 final size:59
Alignment explanation
Indices: 111476--111756 Score: 322
Period size: 59 Copynumber: 4.7 Consensus size: 59
111466 TCTTGTGTAG
* ** * * **
111476 GGAAAATTGATACTTTCAACTTTT-TCTCAAAAATATTTTTTTTTGAAACTTTAATTTCGA
1 GGAAAATTGATACTTTCAACTTTTCCCT-AAAAA-ACCTTTTTTTGAAATTTTATTTTTAA
*
111536 GAAAAATTGATACTTTCAACTTTT-CCT--AAAACC-TTTTTTGAAATTTTATTTTTAA
1 GGAAAATTGATACTTTCAACTTTTCCCTAAAAAACCTTTTTTTGAAATTTTATTTTTAA
*
111591 GGAAAATTGATACTTTCAACTTTTCCCTAAAAACCCTTTTTTTGAAATTTTATTTTTAA
1 GGAAAATTGATACTTTCAACTTTTCCCTAAAAAACCTTTTTTTGAAATTTTATTTTTAA
** *
111650 GGAAAATTGATACTTTCAACTTTTCCCTAAAAATATTTTTTTTTTGGAAAATTTTGATTTTGAA
1 GGAAAATTGATACTTTCAACTTTTCCCTAAAAA-A-CCTTTTTTT-G-AAATTTT-ATTTTTAA
**
111714 GGAAAATTGATACTTTCAACTTTT-CCTCAAAAAATATTTTTTT
1 GGAAAATTGATACTTTCAACTTTTCCCT-AAAAAACCTTTTTTT
111757 TGATTTTTAT
Statistics
Matches: 196, Mismatches: 15, Indels: 18
0.86 0.07 0.08
Matches are distributed among these distances:
55 41 0.21
56 4 0.02
57 3 0.02
58 5 0.03
59 55 0.28
60 25 0.13
61 7 0.04
62 9 0.05
63 11 0.06
64 36 0.18
ACGTcount: A:0.33, C:0.12, G:0.08, T:0.46
Consensus pattern (59 bp):
GGAAAATTGATACTTTCAACTTTTCCCTAAAAAACCTTTTTTTGAAATTTTATTTTTAA
Found at i:111831 original size:18 final size:19
Alignment explanation
Indices: 111795--111832 Score: 51
Period size: 19 Copynumber: 2.1 Consensus size: 19
111785 AATAAAAGTG
* *
111795 AAAATAAATAAAGATTAAA
1 AAAATAAAGAAAGAGTAAA
111814 AAAATAAAGAAA-AGTAAA
1 AAAATAAAGAAAGAGTAAA
111832 A
1 A
111833 CAAAAATAAA
Statistics
Matches: 17, Mismatches: 2, Indels: 1
0.85 0.10 0.05
Matches are distributed among these distances:
18 6 0.35
19 11 0.65
ACGTcount: A:0.76, C:0.00, G:0.08, T:0.16
Consensus pattern (19 bp):
AAAATAAAGAAAGAGTAAA
Found at i:115816 original size:24 final size:23
Alignment explanation
Indices: 115789--115836 Score: 62
Period size: 24 Copynumber: 2.0 Consensus size: 23
115779 AATTTTGATT
115789 TTTTTGATTT-TTATCTATTTTTTA
1 TTTTT-ATTTATTAT-TATTTTTTA
115813 TTTTTATTTAATTATTATTTTTTA
1 TTTTTATTT-ATTATTATTTTTTA
115837 ATTATAGAAA
Statistics
Matches: 22, Mismatches: 0, Indels: 4
0.85 0.00 0.15
Matches are distributed among these distances:
23 4 0.18
24 14 0.64
25 4 0.18
ACGTcount: A:0.21, C:0.02, G:0.02, T:0.75
Consensus pattern (23 bp):
TTTTTATTTATTATTATTTTTTA
Found at i:115830 original size:17 final size:17
Alignment explanation
Indices: 115795--115834 Score: 53
Period size: 17 Copynumber: 2.4 Consensus size: 17
115785 GATTTTTTTG
* *
115795 ATTTTTATCTATTTTTT
1 ATTTTTATCTAATTATT
*
115812 ATTTTTATTTAATTATT
1 ATTTTTATCTAATTATT
115829 ATTTTT
1 ATTTTT
115835 TAATTATAGA
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
17 20 1.00
ACGTcount: A:0.23, C:0.03, G:0.00, T:0.75
Consensus pattern (17 bp):
ATTTTTATCTAATTATT
Found at i:116299 original size:17 final size:16
Alignment explanation
Indices: 116268--116312 Score: 56
Period size: 17 Copynumber: 2.8 Consensus size: 16
116258 AGGTTAATTT
116268 AAATAATAAAAAATAA
1 AAATAATAAAAAATAA
* *
116284 AAATAATGATAAAATAG
1 AAATAAT-AAAAAATAA
116301 AAATAA-AAAAAA
1 AAATAATAAAAAA
116313 AACAAAAAAT
Statistics
Matches: 25, Mismatches: 3, Indels: 3
0.81 0.10 0.10
Matches are distributed among these distances:
15 5 0.20
16 7 0.28
17 13 0.52
ACGTcount: A:0.78, C:0.00, G:0.04, T:0.18
Consensus pattern (16 bp):
AAATAATAAAAAATAA
Found at i:116874 original size:19 final size:19
Alignment explanation
Indices: 116850--116901 Score: 61
Period size: 19 Copynumber: 2.8 Consensus size: 19
116840 TTTTAAGATT
116850 TTTTAATTAAAAAATAATA
1 TTTTAATTAAAAAATAATA
** *
116869 TTTTAATTAATCAATTATA
1 TTTTAATTAAAAAATAATA
*
116888 -TCTAATTAAAAAAT
1 TTTTAATTAAAAAAT
116902 TGATAATCAC
Statistics
Matches: 27, Mismatches: 6, Indels: 1
0.79 0.18 0.03
Matches are distributed among these distances:
18 11 0.41
19 16 0.59
ACGTcount: A:0.52, C:0.04, G:0.00, T:0.44
Consensus pattern (19 bp):
TTTTAATTAAAAAATAATA
Found at i:117019 original size:17 final size:17
Alignment explanation
Indices: 116983--117015 Score: 50
Period size: 17 Copynumber: 2.0 Consensus size: 17
116973 GAAATTTTAT
*
116983 TAAGTTTTAATGTAAAA
1 TAAGGTTTAATGTAAAA
117000 TAAGGTTTAAT-TAAAA
1 TAAGGTTTAATGTAAAA
117016 ATAATATTTT
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
16 5 0.33
17 10 0.67
ACGTcount: A:0.48, C:0.00, G:0.12, T:0.39
Consensus pattern (17 bp):
TAAGGTTTAATGTAAAA
Found at i:121297 original size:144 final size:146
Alignment explanation
Indices: 121037--121369 Score: 566
Period size: 144 Copynumber: 2.3 Consensus size: 146
121027 CATTCCAAAT
121037 TCGGATAACAATTTCTCTGGTTCAATCCCCGCTCCCATAGGAAACTTAACCAAATTGTCTAGTCT
1 TCGGATAACAATTTCTCTGGTTCAATCCCCGCTCCCATAGGAAACTTAACCAAATTGTCTAGTCT
121102 TTACCTTCCTGAAAATAAGCTTTCCGGGTCAATACCTCAAGAGATAGGGATGCTCGTATCTCTTA
66 TTACCTTCCTGAAAATAAGCTTTCCGGGTCAATACCTCAAGAGATAGGGATGCTCGTATCTCTTA
*
121167 CAGAACTTATT-T-TA
131 CAGAACTTATTGTCAA
121181 TCGGATAACAATTTCTCTGGTTCAATCCCCGCTCCCATAGGAAACTTAACCAAATTGTCTAGTCT
1 TCGGATAACAATTTCTCTGGTTCAATCCCCGCTCCCATAGGAAACTTAACCAAATTGTCTAGTCT
* *
121246 TTACCTTCCTGAAAATAAGCTTTCCGGGTCAATACCTCAAGAGATGGGGATGCTTGTATCTCTTA
66 TTACCTTCCTGAAAATAAGCTTTCCGGGTCAATACCTCAAGAGATAGGGATGCTCGTATCTCTTA
121311 CAGAACTTATTGTCAA
131 CAGAACTTATTGTCAA
* * * **
121327 TC--AAAACAATTTTTCTGGTTCAATCCCTGCTTTCATAGGAAAC
1 TCGGATAACAATTTCTCTGGTTCAATCCCCGCTCCCATAGGAAAC
121370 ATGACGAAGC
Statistics
Matches: 179, Mismatches: 8, Indels: 4
0.94 0.04 0.02
Matches are distributed among these distances:
144 175 0.98
145 1 0.01
146 3 0.02
ACGTcount: A:0.29, C:0.24, G:0.15, T:0.32
Consensus pattern (146 bp):
TCGGATAACAATTTCTCTGGTTCAATCCCCGCTCCCATAGGAAACTTAACCAAATTGTCTAGTCT
TTACCTTCCTGAAAATAAGCTTTCCGGGTCAATACCTCAAGAGATAGGGATGCTCGTATCTCTTA
CAGAACTTATTGTCAA
Found at i:123531 original size:35 final size:34
Alignment explanation
Indices: 123492--123562 Score: 88
Period size: 34 Copynumber: 2.1 Consensus size: 34
123482 ATATTCTTTA
* *
123492 TTCTTACATAATAGTGTATTATTGATAAGATATAT
1 TTCTTACATAATAGAGCA-TATTGATAAGATATAT
* * *
123527 TTCTTGCTTAATAGAGCATATTGATTAGATATAT
1 TTCTTACATAATAGAGCATATTGATAAGATATAT
123561 TT
1 TT
123563 TTCTAAACAG
Statistics
Matches: 31, Mismatches: 5, Indels: 1
0.84 0.14 0.03
Matches are distributed among these distances:
34 17 0.55
35 14 0.45
ACGTcount: A:0.34, C:0.07, G:0.13, T:0.46
Consensus pattern (34 bp):
TTCTTACATAATAGAGCATATTGATAAGATATAT
Found at i:128302 original size:16 final size:16
Alignment explanation
Indices: 128283--128333 Score: 56
Period size: 16 Copynumber: 3.4 Consensus size: 16
128273 TCCTCAAAAA
*
128283 TATTTTTTAGAAAACT
1 TATTTTTTAGGAAACT
*
128299 TATTTTTAAGGAAA--
1 TATTTTTTAGGAAACT
128313 -ATTTTTT-GGAAACT
1 TATTTTTTAGGAAACT
128327 TATTTTT
1 TATTTTT
128334 AAAGAAAATT
Statistics
Matches: 29, Mismatches: 3, Indels: 7
0.74 0.08 0.18
Matches are distributed among these distances:
12 5 0.17
13 6 0.21
15 6 0.21
16 12 0.41
ACGTcount: A:0.33, C:0.04, G:0.10, T:0.53
Consensus pattern (16 bp):
TATTTTTTAGGAAACT
Found at i:128317 original size:28 final size:28
Alignment explanation
Indices: 128286--128343 Score: 89
Period size: 28 Copynumber: 2.1 Consensus size: 28
128276 TCAAAAATAT
*
128286 TTTTTAGAAAACTTATTTTTAAGGAAAA
1 TTTTTAGAAAACTTATTTTTAAAGAAAA
* *
128314 TTTTTTGGAAACTTATTTTTAAAGAAAA
1 TTTTTAGAAAACTTATTTTTAAAGAAAA
128342 TT
1 TT
128344 GATACTTTCA
Statistics
Matches: 27, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
28 27 1.00
ACGTcount: A:0.40, C:0.03, G:0.10, T:0.47
Consensus pattern (28 bp):
TTTTTAGAAAACTTATTTTTAAAGAAAA
Found at i:128332 original size:86 final size:86
Alignment explanation
Indices: 128235--128401 Score: 309
Period size: 86 Copynumber: 1.9 Consensus size: 86
128225 AGAAACTTAT
128235 GAAACTTATTTTT-AAGAAAAATTGATACTTTCAACTTTTCCTCAAAAATATTTTTTAGAAAACT
1 GAAACTTATTTTTAAAG-AAAATTGATACTTTCAACTTTTCCTCAAAAATATTTTTTAGAAAACT
*
128299 TATTTTTAAGGAAAATTTTTTG
65 TATTTTCAAGGAAAATTTTTTG
128321 GAAACTTATTTTTAAAGAAAATTGATACTTTCAACTTTTCCTCAAAAATATTTTTTAGAAAACTT
1 GAAACTTATTTTTAAAGAAAATTGATACTTTCAACTTTTCCTCAAAAATATTTTTTAGAAAACTT
128386 ATTTTCAAGGAAAATT
66 ATTTTCAAGGAAAATT
128402 GATACTTTCA
Statistics
Matches: 79, Mismatches: 1, Indels: 2
0.96 0.01 0.02
Matches are distributed among these distances:
86 76 0.96
87 3 0.04
ACGTcount: A:0.40, C:0.10, G:0.08, T:0.43
Consensus pattern (86 bp):
GAAACTTATTTTTAAAGAAAATTGATACTTTCAACTTTTCCTCAAAAATATTTTTTAGAAAACTT
ATTTTCAAGGAAAATTTTTTG
Found at i:128374 original size:57 final size:58
Alignment explanation
Indices: 128313--128429 Score: 200
Period size: 58 Copynumber: 2.0 Consensus size: 58
128303 TTTAAGGAAA
* *
128313 ATTTTTT-GGAAACTTATTTTTAAAGAAAATTGATACTTTCAACTTTTCCTCAAAAAT
1 ATTTTTTAGAAAACTTATTTTCAAAGAAAATTGATACTTTCAACTTTTCCTCAAAAAT
*
128370 ATTTTTTAGAAAACTTATTTTCAAGGAAAATTGATACTTTCAACTTTTCCTCAAAAAT
1 ATTTTTTAGAAAACTTATTTTCAAAGAAAATTGATACTTTCAACTTTTCCTCAAAAAT
128428 AT
1 AT
128430 ATATTTTTTT
Statistics
Matches: 56, Mismatches: 3, Indels: 1
0.93 0.05 0.02
Matches are distributed among these distances:
57 7 0.12
58 49 0.88
ACGTcount: A:0.38, C:0.13, G:0.07, T:0.43
Consensus pattern (58 bp):
ATTTTTTAGAAAACTTATTTTCAAAGAAAATTGATACTTTCAACTTTTCCTCAAAAAT
Found at i:128393 original size:28 final size:27
Alignment explanation
Indices: 128276--128393 Score: 64
Period size: 28 Copynumber: 4.1 Consensus size: 27
128266 CAACTTTTCC
128276 TCAAAAATATTTTTTAGAAAACTTATTT
1 TCAAAAATATTTTTT-GAAAACTTATTT
* *
128304 TTAAGGAAA-ATTTTTTGGAAACTTATTT
1 TCAA--AAATATTTTTTGAAAACTTATTT
* * * *
128332 TTAAAGAAAATTGATACTTT--CAACTT-TTCC
1 TCAAA-AATATT--T--TTTGAAAACTTATT-T
128362 TCAAAAATATTTTTTAGAAAACTTATTT
1 TCAAAAATATTTTTT-GAAAACTTATTT
128390 TCAA
1 TCAA
128394 GGAAAATTGA
Statistics
Matches: 69, Mismatches: 8, Indels: 26
0.67 0.08 0.25
Matches are distributed among these distances:
25 3 0.04
26 1 0.01
27 3 0.04
28 30 0.43
29 16 0.23
30 13 0.19
32 3 0.04
ACGTcount: A:0.40, C:0.09, G:0.07, T:0.44
Consensus pattern (27 bp):
TCAAAAATATTTTTTGAAAACTTATTT
Found at i:128483 original size:24 final size:24
Alignment explanation
Indices: 128455--128506 Score: 52
Period size: 24 Copynumber: 2.2 Consensus size: 24
128445 TTATTTAAAG
* *
128455 AAAATAAAATAAA-TAAATAAATTA
1 AAAATAAAA-AAATAAAATAAAATA
* *
128479 AAAATTAAAAATTAAAATAAAATA
1 AAAATAAAAAAATAAAATAAAATA
128503 AAAA
1 AAAA
128507 GTATTAAACA
Statistics
Matches: 23, Mismatches: 4, Indels: 2
0.79 0.14 0.07
Matches are distributed among these distances:
23 2 0.09
24 21 0.91
ACGTcount: A:0.77, C:0.00, G:0.00, T:0.23
Consensus pattern (24 bp):
AAAATAAAAAAATAAAATAAAATA
Found at i:129367 original size:21 final size:20
Alignment explanation
Indices: 129340--129407 Score: 68
Period size: 21 Copynumber: 3.3 Consensus size: 20
129330 AAATCAAATC
129340 AAATAAAAAATGTTAATAGAT
1 AAATAAAAAAT-TTAATAGAT
* *
129361 AATTAAAAGAA-ATAATTAGAT
1 AAATAAAA-AATTTAA-TAGAT
129382 AAAT-AAAAATATTAATAGAT
1 AAATAAAAAAT-TTAATAGAT
129402 AAATAA
1 AAATAA
129408 TAATAAATAC
Statistics
Matches: 38, Mismatches: 4, Indels: 10
0.73 0.08 0.19
Matches are distributed among these distances:
19 2 0.05
20 15 0.39
21 19 0.50
22 2 0.05
ACGTcount: A:0.65, C:0.00, G:0.07, T:0.28
Consensus pattern (20 bp):
AAATAAAAAATTTAATAGAT
Found at i:129370 original size:41 final size:41
Alignment explanation
Indices: 129324--129403 Score: 101
Period size: 41 Copynumber: 2.0 Consensus size: 41
129314 AATAAAAAGA
*
129324 AAAAG-AA-AATCAAATCAAATAAAAAATGTTAATAGATAATT
1 AAAAGAAATAATCAAAT-AAAT-AAAAATATTAATAGATAATT
* *
129365 AAAAGAAATAATTAGATAAATAAAAATATTAATAGATAA
1 AAAAGAAATAATCAAATAAATAAAAATATTAATAGATAA
129404 ATAATAATAA
Statistics
Matches: 34, Mismatches: 3, Indels: 4
0.83 0.07 0.10
Matches are distributed among these distances:
41 22 0.65
42 6 0.18
43 6 0.18
ACGTcount: A:0.65, C:0.03, G:0.07, T:0.25
Consensus pattern (41 bp):
AAAAGAAATAATCAAATAAATAAAAATATTAATAGATAATT
Found at i:129404 original size:20 final size:20
Alignment explanation
Indices: 129340--129412 Score: 76
Period size: 20 Copynumber: 3.5 Consensus size: 20
129330 AAATCAAATC
*
129340 AAATAAAAAATGTTAATAGAT
1 AAAT-AAAAATATTAATAGAT
* *
129361 AATTAAAAGA-AATAATTAGAT
1 AAATAAAA-ATATTAA-TAGAT
129382 AAATAAAAATATTAATAGAT
1 AAATAAAAATATTAATAGAT
*
129402 AAATAATAATA
1 AAATAAAAATA
129413 AATACATACA
Statistics
Matches: 43, Mismatches: 6, Indels: 7
0.77 0.11 0.12
Matches are distributed among these distances:
20 23 0.53
21 20 0.47
ACGTcount: A:0.64, C:0.00, G:0.07, T:0.29
Consensus pattern (20 bp):
AAATAAAAATATTAATAGAT
Found at i:129407 original size:4 final size:4
Alignment explanation
Indices: 129370--129565 Score: 70
Period size: 4 Copynumber: 48.8 Consensus size: 4
129360 TAATTAAAAG
* * * *
129370 AAAT AATT AGAT AAAT AAA- AATAT TAAT AGAT AAAT -AAT -AAT AAAT
1 AAAT AAAT AAAT AAAT AAAT AA-AT AAAT AAAT AAAT AAAT AAAT AAAT
* * * * * *
129416 ACAT ACAT ATACT -AAC AGAT AAA- AA-T AAAAT AAAT AAAT AAAT ATAT
1 AAAT AAAT A-AAT AAAT AAAT AAAT AAAT AAA-T AAAT AAAT AAAT AAAT
** * * *
129463 ATGT TAAT AAAT AGTAAT -AAT AAAT AAAT ACAT AAGAT ACAAA AAAT
1 AAAT AAAT AAAT A--AAT AAAT AAAT AAAT AAAT AA-AT A-AAT AAAT
*
129510 ATAT AAAT AAAT AAAT AAA- AATAT AAA- AATAT AAAAT ACAA- AAAT
1 AAAT AAAT AAAT AAAT AAAT AA-AT AAAT AA-AT -AAAT A-AAT AAAT
*
129555 AAAA AAAT AAA
1 AAAT AAAT AAA
129566 ATGGGCTACC
Statistics
Matches: 142, Mismatches: 30, Indels: 40
0.67 0.14 0.19
Matches are distributed among these distances:
3 22 0.15
4 97 0.68
5 17 0.12
6 6 0.04
ACGTcount: A:0.67, C:0.04, G:0.03, T:0.26
Consensus pattern (4 bp):
AAAT
Found at i:129475 original size:33 final size:33
Alignment explanation
Indices: 129432--129557 Score: 93
Period size: 33 Copynumber: 3.8 Consensus size: 33
129422 ATATACTAAC
*
129432 AGATA-AAAATAAAATAAATAAATAAATATATA
1 AGATACAAAATAAAATAAATAAATAAATACATA
* * *
129464 TGTTA-ATAAATAGTAAT-AATAAATAAATACATA
1 AGATACA-AAATA-AAATAAATAAATAAATACATA
*
129497 AGATACAAAA-AATATATAAATAAATAAATA-AAA
1 AGATACAAAATAA-A-ATAAATAAATAAATACATA
* *
129530 ATATAAAAATATAAAATACAA-AAATAAA
1 AGATACAAA-ATAAAATA-AATAAATAAA
129558 AAAATAAAAT
Statistics
Matches: 75, Mismatches: 10, Indels: 17
0.74 0.10 0.17
Matches are distributed among these distances:
32 6 0.08
33 47 0.63
34 20 0.27
35 2 0.03
ACGTcount: A:0.69, C:0.02, G:0.03, T:0.25
Consensus pattern (33 bp):
AGATACAAAATAAAATAAATAAATAAATACATA
Found at i:129509 original size:22 final size:22
Alignment explanation
Indices: 129365--129565 Score: 79
Period size: 22 Copynumber: 8.7 Consensus size: 22
129355 ATAGATAATT
* * *
129365 AAAAGAAATAATTAGATAAATA
1 AAAATAAATAAATAAATAAATA
* *
129387 AAAAT--ATTAATAGATAAATA
1 AAAATAAATAAATAAATAAATA
* * * *
129407 ATAATAAATACATACATATACTA
1 AAAATAAATAAATAAATA-AATA
*
129430 ACAGATAAAAATAAAATAAATAAATA
1 A-A-A-ATAAAT-AAATAAATAAATA
** *
129456 AATATATATGTTAATAAATAGTAATA
1 AA-A-ATAAATAAATAAATA--AATA
* *
129482 ATAAATAAATACATAAGATACA-A
1 A-AAATAAATAAATAA-ATAAATA
*
129505 AAAATATATAAATAAATAAATA
1 AAAATAAATAAATAAATAAATA
*
129527 AAAATATAA-AAATATAA-AATACA
1 AAAATA-AATAAATA-AATAA-ATA
*
129550 AAAATAAAAAAATAAA
1 AAAATAAATAAATAAA
129566 ATGGGCTACC
Statistics
Matches: 135, Mismatches: 28, Indels: 32
0.69 0.14 0.16
Matches are distributed among these distances:
20 17 0.13
21 4 0.03
22 42 0.31
23 22 0.16
24 9 0.07
25 15 0.11
26 18 0.13
27 8 0.06
ACGTcount: A:0.68, C:0.03, G:0.03, T:0.25
Consensus pattern (22 bp):
AAAATAAATAAATAAATAAATA
Found at i:129538 original size:30 final size:30
Alignment explanation
Indices: 129478--129566 Score: 96
Period size: 29 Copynumber: 3.0 Consensus size: 30
129468 AATAAATAGT
* * *
129478 AATA-ATAAATAAATACAT-AAGATACAAAA
1 AATATATAAATAAATAAATAAAAATA-TAAA
129507 AATATATAAATAAATAAATAAAAATATAAA
1 AATATATAAATAAATAAATAAAAATATAAA
*
129537 AATATA-AAATACAA-AAATAAAAAAATAAA
1 AATATATAAATA-AATAAATAAAAATATAAA
129566 A
1 A
129567 TGGGCTACCC
Statistics
Matches: 53, Mismatches: 4, Indels: 6
0.84 0.06 0.10
Matches are distributed among these distances:
29 24 0.45
30 24 0.45
31 5 0.09
ACGTcount: A:0.74, C:0.03, G:0.01, T:0.21
Consensus pattern (30 bp):
AATATATAAATAAATAAATAAAAATATAAA
Found at i:129546 original size:21 final size:21
Alignment explanation
Indices: 129504--129567 Score: 76
Period size: 21 Copynumber: 3.0 Consensus size: 21
129494 ATAAGATACA
* *
129504 AAAAATATATAAATAAATAAAT
1 AAAAATATAAAAATATA-AAAT
129526 AAAAATATAAAAATATAAAAT
1 AAAAATATAAAAATATAAAAT
*
129547 ACAAAA-ATAAAAAAATAAAAT
1 A-AAAATATAAAAATATAAAAT
129568 GGGCTACCCA
Statistics
Matches: 38, Mismatches: 3, Indels: 3
0.86 0.07 0.07
Matches are distributed among these distances:
21 19 0.50
22 19 0.50
ACGTcount: A:0.77, C:0.02, G:0.00, T:0.22
Consensus pattern (21 bp):
AAAAATATAAAAATATAAAAT
Found at i:129881 original size:42 final size:42
Alignment explanation
Indices: 129744--130064 Score: 339
Period size: 42 Copynumber: 7.5 Consensus size: 42
129734 AATTCTGATC
* *
129744 AAAGCTCCTCTAAGCAGAGGCTCAATGACTTTGAAAAACATAAAC
1 AAAGCTCCTCTAATCAGAGGCTCAATGACTTTG--AAA-ATAAAT
* *
129789 AAAGCTCCTCTAATTAGAGGCTCAATAACTTTAGAAAATAAAT
1 AAAGCTCCTCTAATCAGAGGCTCAATGACTTT-GAAAATAAAT
* * **
129832 AAAGCTCCTCTAAACAGAGACTCAACAACTTTGAAAATAAAT
1 AAAGCTCCTCTAATCAGAGGCTCAATGACTTTGAAAATAAAT
*
129874 AAAGCTCCTCTAATCAGAGGCTCAACGACTTTGAAAATAAAT
1 AAAGCTCCTCTAATCAGAGGCTCAATGACTTTGAAAATAAAT
129916 AAACAAAGCTCCTCTAATCAGAGGCTCAATGACTTTGAAAATAAAT
1 ----AAAGCTCCTCTAATCAGAGGCTCAATGACTTTGAAAATAAAT
* * * *
129962 AAAGCTCCTTTAAACAAAGGCTCAATGACTTTTGGAAAGTAAAT
1 AAAGCTCCTCTAATCAGAGGCTCAATGAC-TTT-GAAAATAAAT
* *
130006 -TA-CTCCTCTAATCAGAGGCATCACA--ACTTCGAAAATAAAT
1 AAAGCTCCTCTAATCAGAGGC-TCA-ATGACTTTGAAAATAAAT
* *
130046 --GGCTCCTCTAAACAGAGGC
1 AAAGCTCCTCTAATCAGAGGC
130065 ATCAGAACTT
Statistics
Matches: 242, Mismatches: 24, Indels: 25
0.83 0.08 0.09
Matches are distributed among these distances:
40 25 0.10
41 2 0.01
42 91 0.38
43 40 0.17
44 13 0.05
45 29 0.12
46 42 0.17
ACGTcount: A:0.42, C:0.21, G:0.14, T:0.24
Consensus pattern (42 bp):
AAAGCTCCTCTAATCAGAGGCTCAATGACTTTGAAAATAAAT
Found at i:129907 original size:130 final size:132
Alignment explanation
Indices: 129744--130045 Score: 418
Period size: 130 Copynumber: 2.3 Consensus size: 132
129734 AATTCTGATC
* * * *
129744 AAAGCTCCTCTAAGCAGAGGCTCAATGACTTTGAAAA-ACATAAACAAAGCTCCTCTAATTAGAG
1 AAAGCTCCTCTAATCAGAGGCTCAACGACTTTGAAAATAAATAAACAAAGCTCCTCTAATCAGAG
*
129808 GCTCAATAACTTTAGAAAATAAATAAAGCTCCTCTAAACAGAGACTCAACAAC-TTT-GAAAATA
66 GCTCAATAACTTT-GAAAATAAATAAAGCTCCTCTAAACAAAGACTCAACAACTTTTGGAAAATA
129871 AAT
130 AAT
129874 AAAGCTCCTCTAATCAGAGGCTCAACGACTTTGAAAATAAATAAACAAAGCTCCTCTAATCAGAG
1 AAAGCTCCTCTAATCAGAGGCTCAACGACTTTGAAAATAAATAAACAAAGCTCCTCTAATCAGAG
* * * ** *
129939 GCTCAATGACTTTGAAAATAAATAAAGCTCCTTTAAACAAAGGCTCAATGACTTTTGGAAAGTAA
66 GCTCAATAACTTTGAAAATAAATAAAGCTCCTCTAAACAAAGACTCAACAACTTTTGGAAAATAA
130004 AT
131 AT
* * *
130006 -TA-CTCCTCTAATCAGAGGCATC-ACAACTTCGAAAATAAAT
1 AAAGCTCCTCTAATCAGAGGC-TCAACGACTTTGAAAATAAAT
130046 GGCTCCTCTA
Statistics
Matches: 154, Mismatches: 14, Indels: 8
0.88 0.08 0.05
Matches are distributed among these distances:
130 102 0.66
131 43 0.28
132 9 0.06
ACGTcount: A:0.43, C:0.20, G:0.13, T:0.24
Consensus pattern (132 bp):
AAAGCTCCTCTAATCAGAGGCTCAACGACTTTGAAAATAAATAAACAAAGCTCCTCTAATCAGAG
GCTCAATAACTTTGAAAATAAATAAAGCTCCTCTAAACAAAGACTCAACAACTTTTGGAAAATAA
AT
Found at i:129916 original size:88 final size:85
Alignment explanation
Indices: 129743--129993 Score: 322
Period size: 88 Copynumber: 2.9 Consensus size: 85
129733 AAATTCTGAT
* * *
129743 CAAAGCTCCTCTAAGCAGAGGCTCAATGACTTTGAAAAACATAAACAAAGCTCCTCTAATTAGAG
1 CAAAGCTCCTCTAAACAGAGGCTCAATGACTTTG--AAA-ATAAATAAAGCTCCTCTAATCAGAG
* *
129808 GCTCAATAACTTTAGAAAATAAA
63 GCTCAATGACTTTAAAAAATAAA
* * **
129831 TAAAGCTCCTCTAAACAGAGACTCAACAACTTTGAAAATAAATAAAGCTCCTCTAATCAGAGGCT
1 CAAAGCTCCTCTAAACAGAGGCTCAATGACTTTGAAAATAAATAAAGCTCCTCTAATCAGAGGCT
*
129896 CAACGACTTTGAAAATAAATAAA
66 CAATGACTTT--AAA-AAATAAA
* * * *
129919 CAAAGCTCCTCTAATCAGAGGCTCAATGACTTTGAAAATAAATAAAGCTCCTTTAAACAAAGGCT
1 CAAAGCTCCTCTAAACAGAGGCTCAATGACTTTGAAAATAAATAAAGCTCCTCTAATCAGAGGCT
129984 CAATGACTTT
66 CAATGACTTT
129994 TGGAAAGTAA
Statistics
Matches: 141, Mismatches: 19, Indels: 6
0.85 0.11 0.04
Matches are distributed among these distances:
85 34 0.24
86 3 0.02
87 2 0.01
88 102 0.72
ACGTcount: A:0.43, C:0.21, G:0.13, T:0.24
Consensus pattern (85 bp):
CAAAGCTCCTCTAAACAGAGGCTCAATGACTTTGAAAATAAATAAAGCTCCTCTAATCAGAGGCT
CAATGACTTTAAAAAATAAA
Found at i:131096 original size:15 final size:15
Alignment explanation
Indices: 131066--131137 Score: 75
Period size: 13 Copynumber: 5.2 Consensus size: 15
131056 TTGAGTCCTC
**
131066 TTTTTTCATTCACTT
1 TTTTTTCATTTTCTT
131081 TTTTTTCATTTTC--
1 TTTTTTCATTTTCTT
131094 TTTTTTCATTTT-TT
1 TTTTTTCATTTTCTT
*
131108 CTTTTTCATTTTC--
1 TTTTTTCATTTTCTT
131121 TTTTTTCATTTT-TT
1 TTTTTTCATTTTCTT
131135 TTT
1 TTT
131138 CAAGCATAGT
Statistics
Matches: 48, Mismatches: 4, Indels: 11
0.76 0.06 0.17
Matches are distributed among these distances:
13 23 0.48
14 14 0.29
15 11 0.23
ACGTcount: A:0.08, C:0.14, G:0.00, T:0.78
Consensus pattern (15 bp):
TTTTTTCATTTTCTT
Found at i:131099 original size:7 final size:7
Alignment explanation
Indices: 131089--131134 Score: 51
Period size: 8 Copynumber: 6.6 Consensus size: 7
131079 TTTTTTTTCA
131089 TTTTCTT
1 TTTTCTT
131096 TTTTCATT
1 TTTTC-TT
131104 TTTTC-T
1 TTTTCTT
*
131110 TTTTC-A
1 TTTTCTT
131116 TTTTCTT
1 TTTTCTT
131123 TTTTCATT
1 TTTTC-TT
131131 TTTT
1 TTTT
131135 TTTCAAGCAT
Statistics
Matches: 34, Mismatches: 2, Indels: 5
0.83 0.05 0.12
Matches are distributed among these distances:
6 11 0.32
7 10 0.29
8 13 0.38
ACGTcount: A:0.07, C:0.13, G:0.00, T:0.80
Consensus pattern (7 bp):
TTTTCTT
Found at i:131104 original size:13 final size:13
Alignment explanation
Indices: 131081--131137 Score: 89
Period size: 13 Copynumber: 4.4 Consensus size: 13
131071 TCATTCACTT
131081 TTTTTTCATTTTC
1 TTTTTTCATTTTC
*
131094 TTTTTTCATTTTT
1 TTTTTTCATTTTC
131107 TCTTTTTCATTTTC
1 T-TTTTTCATTTTC
131121 TTTTTTCATTTT-
1 TTTTTTCATTTTC
131133 TTTTT
1 TTTTT
131138 CAAGCATAGT
Statistics
Matches: 41, Mismatches: 2, Indels: 3
0.89 0.04 0.07
Matches are distributed among these distances:
12 5 0.12
13 24 0.59
14 12 0.29
ACGTcount: A:0.07, C:0.12, G:0.00, T:0.81
Consensus pattern (13 bp):
TTTTTTCATTTTC
Found at i:131112 original size:27 final size:26
Alignment explanation
Indices: 131064--131137 Score: 112
Period size: 27 Copynumber: 2.7 Consensus size: 26
131054 CCTTGAGTCC
*
131064 TCTTTTTTCATTCACTTTTTTTTCATTT
1 TCTTTTTTCATT--TTTTTTTTTCATTT
131092 TCTTTTTTCATTTTTTCTTTTTCATTT
1 TCTTTTTTCATTTTTT-TTTTTCATTT
131119 TCTTTTTTCATTTTTTTTT
1 TCTTTTTTCATTTTTTTTT
131138 CAAGCATAGT
Statistics
Matches: 44, Mismatches: 1, Indels: 4
0.90 0.02 0.08
Matches are distributed among these distances:
26 6 0.14
27 26 0.59
28 12 0.27
ACGTcount: A:0.08, C:0.15, G:0.00, T:0.77
Consensus pattern (26 bp):
TCTTTTTTCATTTTTTTTTTTCATTT
Done.