Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Dt_chr1
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: 96304692
ACGTcount: A:0.32, C:0.17, G:0.17, T:0.32
Warning! 2448173 characters in sequence are not A, C, G, or T
File 96 of 313
Found at i:31974012 original size:19 final size:19
Alignment explanation
Indices: 31973988--31974047 Score: 70
Period size: 19 Copynumber: 3.2 Consensus size: 19
31973978 TAATAAAATT
31973988 ATAAATTATAAATTATAAA
1 ATAAATTATAAATTATAAA
* *
31974007 ATAAATAATAAATAATATAA
1 ATAAATTATAAATTATA-AA
*
31974027 AT-AA-TATAAAATATAAA
1 ATAAATTATAAATTATAAA
31974044 ATAA
1 ATAA
31974048 GAAAAATAAA
Statistics
Matches: 34, Mismatches: 5, Indels: 5
0.77 0.11 0.11
Matches are distributed among these distances:
17 4 0.12
18 9 0.26
19 17 0.50
20 4 0.12
ACGTcount: A:0.68, C:0.00, G:0.00, T:0.32
Consensus pattern (19 bp):
ATAAATTATAAATTATAAA
Found at i:31974017 original size:37 final size:36
Alignment explanation
Indices: 31973972--31974047 Score: 102
Period size: 37 Copynumber: 2.1 Consensus size: 36
31973962 AAAATAAAGT
* *
31973972 AATAAATAAT-AAAATTATAAAT-TATAAATTATAA
1 AATAAATAATAAAAAATATAAATATATAAAATATAA
*
31974006 AATAAATAATAAATAATATAAATAATATAAAATATAA
1 AATAAATAATAAAAAATATAAAT-ATATAAAATATAA
31974043 AATAA
1 AATAA
31974048 GAAAAATAAA
Statistics
Matches: 36, Mismatches: 3, Indels: 3
0.86 0.07 0.07
Matches are distributed among these distances:
34 10 0.28
35 10 0.28
37 16 0.44
ACGTcount: A:0.68, C:0.00, G:0.00, T:0.32
Consensus pattern (36 bp):
AATAAATAATAAAAAATATAAATATATAAAATATAA
Found at i:31974021 original size:16 final size:16
Alignment explanation
Indices: 31974002--31974068 Score: 63
Period size: 16 Copynumber: 4.4 Consensus size: 16
31973992 ATTATAAATT
31974002 ATAAAATAAATAATAA
1 ATAAAATAAATAATAA
*
31974018 ATAATATAAATAAT--
1 ATAAAATAAATAATAA
31974032 ATAAAATATAA-AATAA
1 ATAAAATA-AATAATAA
*
31974048 GA-AAAATAAACAA-AA
1 -ATAAAATAAATAATAA
31974063 ATAAAA
1 ATAAAA
31974069 GTTGGGTTGC
Statistics
Matches: 43, Mismatches: 2, Indels: 13
0.74 0.03 0.22
Matches are distributed among these distances:
14 11 0.26
15 10 0.23
16 21 0.49
17 1 0.02
ACGTcount: A:0.75, C:0.01, G:0.01, T:0.22
Consensus pattern (16 bp):
ATAAAATAAATAATAA
Found at i:31974026 original size:9 final size:9
Alignment explanation
Indices: 31973973--31974036 Score: 59
Period size: 9 Copynumber: 7.6 Consensus size: 9
31973963 AAATAAAGTA
31973973 ATAAATAAT
1 ATAAATAAT
31973982 A-AAAT--T
1 ATAAATAAT
31973988 ATAAAT--T
1 ATAAATAAT
*
31973995 ATAAATTAT
1 ATAAATAAT
31974004 A-AAATAAAT
1 ATAAAT-AAT
31974013 AATAAATAAT
1 -ATAAATAAT
31974023 ATAAATAAT
1 ATAAATAAT
31974032 ATAAA
1 ATAAA
31974037 ATATAAAATA
Statistics
Matches: 48, Mismatches: 1, Indels: 12
0.79 0.02 0.20
Matches are distributed among these distances:
6 2 0.04
7 11 0.23
8 8 0.17
9 19 0.40
10 4 0.08
11 4 0.08
ACGTcount: A:0.67, C:0.00, G:0.00, T:0.33
Consensus pattern (9 bp):
ATAAATAAT
Found at i:31974039 original size:7 final size:7
Alignment explanation
Indices: 31973975--31974046 Score: 58
Period size: 7 Copynumber: 9.7 Consensus size: 7
31973965 ATAAAGTAAT
31973975 AAATAATA
1 AAAT-ATA
31973983 AAATTATA
1 AAA-TATA
*
31973991 AATTATA
1 AAATATA
*
31973998 AATTATA
1 AAATATA
31974005 AAATA-A
1 AAATATA
31974011 ATAATA-A
1 A-AATATA
31974018 ATAATATAA
1 A-AATAT-A
31974027 ATAATATA
1 A-AATATA
31974035 AAATATA
1 AAATATA
31974042 AAATA
1 AAATA
31974047 AGAAAAATAA
Statistics
Matches: 58, Mismatches: 2, Indels: 9
0.84 0.03 0.13
Matches are distributed among these distances:
6 2 0.03
7 37 0.64
8 10 0.17
9 9 0.16
ACGTcount: A:0.68, C:0.00, G:0.00, T:0.32
Consensus pattern (7 bp):
AAATATA
Found at i:31974054 original size:26 final size:24
Alignment explanation
Indices: 31974016--31974068 Score: 61
Period size: 26 Copynumber: 2.1 Consensus size: 24
31974006 AATAAATAAT
* * *
31974016 AAATAATATAAATAATATAAAATATA
1 AAATAAGAAAAATAA-ACAAAA-ATA
31974042 AAATAAGAAAAATAAACAAAAATA
1 AAATAAGAAAAATAAACAAAAATA
31974066 AAA
1 AAA
31974069 GTTGGGTTGC
Statistics
Matches: 24, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
24 6 0.25
25 5 0.21
26 13 0.54
ACGTcount: A:0.75, C:0.02, G:0.02, T:0.21
Consensus pattern (24 bp):
AAATAAGAAAAATAAACAAAAATA
Found at i:31988916 original size:10 final size:10
Alignment explanation
Indices: 31988888--31988942 Score: 67
Period size: 10 Copynumber: 5.5 Consensus size: 10
31988878 ATTCTAAAAG
31988888 ATAAATACAAT
1 ATAAATA-AAT
31988899 -TAAATAAAT
1 ATAAATAAAT
*
31988908 ATAATTAAAT
1 ATAAATAAAT
**
31988918 ATAAATAAGG
1 ATAAATAAAT
31988928 ATAAATAAAT
1 ATAAATAAAT
31988938 ATAAA
1 ATAAA
31988943 AGCTAAAATT
Statistics
Matches: 37, Mismatches: 6, Indels: 3
0.80 0.13 0.07
Matches are distributed among these distances:
9 3 0.08
10 34 0.92
ACGTcount: A:0.65, C:0.02, G:0.04, T:0.29
Consensus pattern (10 bp):
ATAAATAAAT
Found at i:31988922 original size:20 final size:20
Alignment explanation
Indices: 31988899--31988964 Score: 62
Period size: 20 Copynumber: 3.4 Consensus size: 20
31988889 TAAATACAAT
31988899 TAAATAAATATAATTAAATA
1 TAAATAAATATAATTAAATA
** *
31988919 TAAATAAGGATAAATAAATA
1 TAAATAAATATAATTAAATA
** * *
31988939 TAAA-AGCTAAAATTAAATC
1 TAAATAAATATAATTAAATA
31988958 TAAATAA
1 TAAATAA
31988965 TAATCCTTAA
Statistics
Matches: 35, Mismatches: 10, Indels: 2
0.74 0.21 0.04
Matches are distributed among these distances:
19 13 0.37
20 22 0.63
ACGTcount: A:0.64, C:0.03, G:0.05, T:0.29
Consensus pattern (20 bp):
TAAATAAATATAATTAAATA
Found at i:31988925 original size:14 final size:14
Alignment explanation
Indices: 31988888--31988941 Score: 56
Period size: 14 Copynumber: 3.7 Consensus size: 14
31988878 ATTCTAAAAG
*
31988888 ATAAATACAATTAA
1 ATAAATATAATTAA
31988902 ATAAATATAATTAA
1 ATAAATATAATTAA
*
31988916 ATATAA-ATAAGGATAA
1 ATA-AATATAA--TTAA
31988932 ATAAATATAA
1 ATAAATATAA
31988942 AAGCTAAAAT
Statistics
Matches: 34, Mismatches: 2, Indels: 6
0.81 0.05 0.14
Matches are distributed among these distances:
14 20 0.59
15 4 0.12
16 10 0.29
ACGTcount: A:0.65, C:0.02, G:0.04, T:0.30
Consensus pattern (14 bp):
ATAAATATAATTAA
Found at i:31992746 original size:6 final size:6
Alignment explanation
Indices: 31992735--31992775 Score: 82
Period size: 6 Copynumber: 6.8 Consensus size: 6
31992725 GGTAGATTTA
31992735 TTATTG TTATTG TTATTG TTATTG TTATTG TTATTG TTATT
1 TTATTG TTATTG TTATTG TTATTG TTATTG TTATTG TTATT
31992776 AAATTTTAAT
Statistics
Matches: 35, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 35 1.00
ACGTcount: A:0.17, C:0.00, G:0.15, T:0.68
Consensus pattern (6 bp):
TTATTG
Found at i:31992878 original size:15 final size:15
Alignment explanation
Indices: 31992850--31992903 Score: 56
Period size: 15 Copynumber: 3.5 Consensus size: 15
31992840 TAATTAATAA
*
31992850 AATAATATATAATTT
1 AATAAAATATAATTT
31992865 AATAAAATATAATTATT
1 AATAAAATATAA-T-TT
*
31992882 ATTAAAATATGAA-TT
1 AATAAAATAT-AATTT
31992897 AATAAAA
1 AATAAAA
31992904 ATTATAATAT
Statistics
Matches: 33, Mismatches: 3, Indels: 6
0.79 0.07 0.14
Matches are distributed among these distances:
15 19 0.58
16 1 0.03
17 11 0.33
18 2 0.06
ACGTcount: A:0.59, C:0.00, G:0.02, T:0.39
Consensus pattern (15 bp):
AATAAAATATAATTT
Found at i:31992886 original size:20 final size:19
Alignment explanation
Indices: 31992840--31992890 Score: 61
Period size: 20 Copynumber: 2.7 Consensus size: 19
31992830 TATTAAATAC
31992840 TAATTAATAAAATAATATA
1 TAATTAATAAAATAATATA
31992859 TAATTTAATAAAAT-ATA-A
1 TAA-TTAATAAAATAATATA
* *
31992877 TTATTATTAAAATA
1 TAATTAATAAAATA
31992891 TGAATTAATA
Statistics
Matches: 28, Mismatches: 2, Indels: 5
0.80 0.06 0.14
Matches are distributed among these distances:
17 9 0.32
18 3 0.11
19 6 0.21
20 10 0.36
ACGTcount: A:0.59, C:0.00, G:0.00, T:0.41
Consensus pattern (19 bp):
TAATTAATAAAATAATATA
Found at i:31998826 original size:31 final size:31
Alignment explanation
Indices: 31998768--31998826 Score: 84
Period size: 31 Copynumber: 1.9 Consensus size: 31
31998758 CGCATACCTG
*
31998768 AAATCGAACGGGAATGAGGTAACAGAAAAAA
1 AAATCGAACGGGAATGAGGTAAAAGAAAAAA
*
31998799 AAATCGAACGGGAA-GATGTAAAAAGAAA
1 AAATCGAACGGGAATGAGGT-AAAAGAAA
31998827 GATACCCAAA
Statistics
Matches: 25, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
30 4 0.16
31 21 0.84
ACGTcount: A:0.56, C:0.08, G:0.25, T:0.10
Consensus pattern (31 bp):
AAATCGAACGGGAATGAGGTAAAAGAAAAAA
Found at i:32000005 original size:22 final size:22
Alignment explanation
Indices: 31999980--32000031 Score: 68
Period size: 22 Copynumber: 2.4 Consensus size: 22
31999970 CATTTATATC
31999980 ATAATTTCTAAAATTTTAATTT
1 ATAATTTCTAAAATTTTAATTT
* * **
32000002 ATAAATCCTTGAATTTTAATTT
1 ATAATTTCTAAAATTTTAATTT
32000024 ATAATTTC
1 ATAATTTC
32000032 AATAATTAGG
Statistics
Matches: 24, Mismatches: 6, Indels: 0
0.80 0.20 0.00
Matches are distributed among these distances:
22 24 1.00
ACGTcount: A:0.38, C:0.08, G:0.02, T:0.52
Consensus pattern (22 bp):
ATAATTTCTAAAATTTTAATTT
Found at i:32000038 original size:22 final size:22
Alignment explanation
Indices: 31999980--32000038 Score: 59
Period size: 22 Copynumber: 2.7 Consensus size: 22
31999970 CATTTATATC
31999980 ATAATTTCTAA-AATTTTAATTT
1 ATAATTTC-AATAATTTTAATTT
* **
32000002 ATAA-ATCCTTGAATTTTAATTT
1 ATAATTTCAAT-AATTTTAATTT
32000024 ATAATTTCAATAATT
1 ATAATTTCAATAATT
32000039 AGGCCACTAA
Statistics
Matches: 28, Mismatches: 6, Indels: 6
0.70 0.15 0.15
Matches are distributed among these distances:
21 2 0.07
22 23 0.82
23 3 0.11
ACGTcount: A:0.41, C:0.07, G:0.02, T:0.51
Consensus pattern (22 bp):
ATAATTTCAATAATTTTAATTT
Found at i:32008572 original size:20 final size:20
Alignment explanation
Indices: 32008549--32008595 Score: 60
Period size: 19 Copynumber: 2.4 Consensus size: 20
32008539 GTGTTTGTTT
*
32008549 AATTAGGCTTTAATTAAGTGA
1 AATTAGGC-TTAATTAAGAGA
*
32008570 ATTTA-GCTTAATTAAGAGA
1 AATTAGGCTTAATTAAGAGA
32008589 AATTAGG
1 AATTAGG
32008596 AAAAAGGACT
Statistics
Matches: 22, Mismatches: 3, Indels: 3
0.79 0.11 0.11
Matches are distributed among these distances:
19 15 0.68
20 3 0.14
21 4 0.18
ACGTcount: A:0.40, C:0.04, G:0.19, T:0.36
Consensus pattern (20 bp):
AATTAGGCTTAATTAAGAGA
Found at i:32009218 original size:26 final size:26
Alignment explanation
Indices: 32009189--32009246 Score: 107
Period size: 26 Copynumber: 2.2 Consensus size: 26
32009179 TGATACAAAT
32009189 TGATAATGGGTTAGGTAAATGTTCCA
1 TGATAATGGGTTAGGTAAATGTTCCA
*
32009215 TGATAATGGGTTAGGTAAATGTTTCA
1 TGATAATGGGTTAGGTAAATGTTCCA
32009241 TGATAA
1 TGATAA
32009247 GAATTTCATG
Statistics
Matches: 31, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
26 31 1.00
ACGTcount: A:0.33, C:0.05, G:0.26, T:0.36
Consensus pattern (26 bp):
TGATAATGGGTTAGGTAAATGTTCCA
Found at i:32010106 original size:32 final size:33
Alignment explanation
Indices: 32010042--32010107 Score: 82
Period size: 33 Copynumber: 2.0 Consensus size: 33
32010032 TAGTGTTTTT
* * *
32010042 AATATTTTATATTTAATAGTATAATTTATTAAA
1 AATAATTTATATTTAATAGTAAAATATATTAAA
32010075 AATAATTTATATTT-ATAGTAAAGATAT-TTAAA
1 AATAATTTATATTTAATAGTAAA-ATATATTAAA
32010107 A
1 A
32010108 TTAGACTTTG
Statistics
Matches: 29, Mismatches: 3, Indels: 3
0.83 0.09 0.09
Matches are distributed among these distances:
32 13 0.45
33 16 0.55
ACGTcount: A:0.48, C:0.00, G:0.05, T:0.47
Consensus pattern (33 bp):
AATAATTTATATTTAATAGTAAAATATATTAAA
Found at i:32010607 original size:19 final size:19
Alignment explanation
Indices: 32010571--32010607 Score: 56
Period size: 19 Copynumber: 1.9 Consensus size: 19
32010561 TAATTAGGCT
* *
32010571 TTAATTAAGTGAATTTAGC
1 TTAATTAAGAGAAATTAGC
32010590 TTAATTAAGAGAAATTAG
1 TTAATTAAGAGAAATTAG
32010608 GAAAAAGGGC
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:0.43, C:0.03, G:0.16, T:0.38
Consensus pattern (19 bp):
TTAATTAAGAGAAATTAGC
Found at i:32011282 original size:14 final size:15
Alignment explanation
Indices: 32011265--32011293 Score: 51
Period size: 14 Copynumber: 2.0 Consensus size: 15
32011255 GAAATGAAAT
32011265 AAAGAAAGAA-AGCA
1 AAAGAAAGAATAGCA
32011279 AAAGAAAGAATAGCA
1 AAAGAAAGAATAGCA
32011294 TAAGCCATTC
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
14 10 0.71
15 4 0.29
ACGTcount: A:0.69, C:0.07, G:0.21, T:0.03
Consensus pattern (15 bp):
AAAGAAAGAATAGCA
Found at i:32011330 original size:15 final size:16
Alignment explanation
Indices: 32011312--32011345 Score: 52
Period size: 16 Copynumber: 2.2 Consensus size: 16
32011302 TCGAAAACAA
*
32011312 GAAG-AAAGAAAAGGG
1 GAAGAAAAGAAAAAGG
32011327 GAAGAAAAGAAAAAGG
1 GAAGAAAAGAAAAAGG
32011343 GAA
1 GAA
32011346 AAATTAGGGT
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
15 4 0.24
16 13 0.76
ACGTcount: A:0.65, C:0.00, G:0.35, T:0.00
Consensus pattern (16 bp):
GAAGAAAAGAAAAAGG
Found at i:32012252 original size:13 final size:14
Alignment explanation
Indices: 32012230--32012270 Score: 50
Period size: 15 Copynumber: 3.0 Consensus size: 14
32012220 ATTTGATTGG
32012230 AAAA-TGAATTAA-
1 AAAAGTGAATTAAT
*
32012242 AAATGTGAATTAAAT
1 AAAAGTGAATT-AAT
32012257 AAAAGTGAATTAAT
1 AAAAGTGAATTAAT
32012271 TTATGAATAT
Statistics
Matches: 24, Mismatches: 2, Indels: 4
0.80 0.07 0.13
Matches are distributed among these distances:
12 3 0.12
13 6 0.25
14 5 0.21
15 10 0.42
ACGTcount: A:0.59, C:0.00, G:0.12, T:0.29
Consensus pattern (14 bp):
AAAAGTGAATTAAT
Found at i:32012650 original size:23 final size:23
Alignment explanation
Indices: 32012620--32012727 Score: 118
Period size: 23 Copynumber: 4.9 Consensus size: 23
32012610 TTTTCTGATT
* *
32012620 AGGCACTTTATGTGTTGTATATC
1 AGGCACCTTATGTGTCGTATATC
* *
32012643 AGGCACTTTATGTGTCGTATTTC
1 AGGCACCTTATGTGTCGTATATC
**
32012666 AGGCACCTCGTGTGTCG--TATC
1 AGGCACCTTATGTGTCGTATATC
*
32012687 AGGCACCTCATGTGTCGT-T-TC
1 AGGCACCTTATGTGTCGTATATC
32012708 AGGCA-CTTATGTGTCGTATA
1 AGGCACCTTATGTGTCGTATA
32012728 ATGATCAAGT
Statistics
Matches: 74, Mismatches: 8, Indels: 7
0.83 0.09 0.08
Matches are distributed among these distances:
20 11 0.15
21 27 0.36
22 1 0.01
23 35 0.47
ACGTcount: A:0.19, C:0.20, G:0.24, T:0.37
Consensus pattern (23 bp):
AGGCACCTTATGTGTCGTATATC
Found at i:32012688 original size:21 final size:21
Alignment explanation
Indices: 32012639--32012726 Score: 106
Period size: 21 Copynumber: 4.1 Consensus size: 21
32012629 ATGTGTTGTA
* *
32012639 TATCAGGCACTTTATGTGTCG
1 TATCAGGCACCTCATGTGTCG
*
32012660 TATTTCAGGCACCTCGTGTGTCG
1 TA--TCAGGCACCTCATGTGTCG
32012683 TATCAGGCACCTCATGTGTCG
1 TATCAGGCACCTCATGTGTCG
* *
32012704 TTTCAGGCA-CTTATGTGTCG
1 TATCAGGCACCTCATGTGTCG
32012724 TAT
1 TAT
32012727 AATGATCAAG
Statistics
Matches: 58, Mismatches: 7, Indels: 5
0.83 0.10 0.07
Matches are distributed among these distances:
20 12 0.21
21 28 0.48
23 18 0.31
ACGTcount: A:0.17, C:0.23, G:0.24, T:0.36
Consensus pattern (21 bp):
TATCAGGCACCTCATGTGTCG
Found at i:32012700 original size:44 final size:41
Alignment explanation
Indices: 32012639--32012726 Score: 113
Period size: 44 Copynumber: 2.1 Consensus size: 41
32012629 ATGTGTTGTA
* * *
32012639 TATCAGGCACTTTATGTGTCGTATTTCAGGCACCTCGTGTGTCG
1 TATCAGGCACCTCATGTGTCG--TTTCAGGCA-CTCATGTGTCG
*
32012683 TATCAGGCACCTCATGTGTCGTTTCAGGCACTTATGTGTCG
1 TATCAGGCACCTCATGTGTCGTTTCAGGCACTCATGTGTCG
32012724 TAT
1 TAT
32012727 AATGATCAAG
Statistics
Matches: 40, Mismatches: 4, Indels: 3
0.85 0.09 0.06
Matches are distributed among these distances:
41 12 0.30
42 9 0.22
44 19 0.47
ACGTcount: A:0.17, C:0.23, G:0.24, T:0.36
Consensus pattern (41 bp):
TATCAGGCACCTCATGTGTCGTTTCAGGCACTCATGTGTCG
Found at i:32015628 original size:15 final size:15
Alignment explanation
Indices: 32015608--32015644 Score: 74
Period size: 15 Copynumber: 2.5 Consensus size: 15
32015598 AACTCGTATG
32015608 AAGCATTTTACTGAT
1 AAGCATTTTACTGAT
32015623 AAGCATTTTACTGAT
1 AAGCATTTTACTGAT
32015638 AAGCATT
1 AAGCATT
32015645 AGTTCGAGAG
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 22 1.00
ACGTcount: A:0.35, C:0.14, G:0.14, T:0.38
Consensus pattern (15 bp):
AAGCATTTTACTGAT
Found at i:32018171 original size:53 final size:50
Alignment explanation
Indices: 32018091--32018191 Score: 141
Period size: 53 Copynumber: 2.0 Consensus size: 50
32018081 GACATAGTTC
*
32018091 TTAAAAACTTTATAGAAAATTGTTTAAAAATAATTAAAATCTATAAGAAATGA
1 TTAAAAACTTTATAGAAAATTATTT--AAA-AATTAAAATCTATAAGAAATGA
*
32018144 TTAAAAA-TATTATAGAAAATTATTTAAAAATTAAAATTTATAAGAAAT
1 TTAAAAACT-TTATAGAAAATTATTTAAAAATTAAAATCTATAAGAAAT
32018192 TTTTTTTTTT
Statistics
Matches: 45, Mismatches: 2, Indels: 5
0.87 0.04 0.10
Matches are distributed among these distances:
50 19 0.42
51 3 0.07
52 1 0.02
53 22 0.49
ACGTcount: A:0.56, C:0.02, G:0.06, T:0.36
Consensus pattern (50 bp):
TTAAAAACTTTATAGAAAATTATTTAAAAATTAAAATCTATAAGAAATGA
Found at i:32018588 original size:20 final size:20
Alignment explanation
Indices: 32018493--32018588 Score: 68
Period size: 20 Copynumber: 4.8 Consensus size: 20
32018483 ATACATATAG
* *
32018493 TTTTTATAACT-TTTAAAAT
1 TTTTTATAATTATTTATAAT
** *
32018512 TTTCAATTATTATTTATAAT
1 TTTTTATAATTATTTATAAT
* * *
32018532 TTCTTATAATTCTTAATAAT
1 TTTTTATAATTATTTATAAT
* * *
32018552 TTTTAAACAATTTTTTATAAT
1 TTTT-TATAATTATTTATAAT
*
32018573 TTTTTATAACTATTTA
1 TTTTTATAATTATTTA
32018589 AGAAATCACT
Statistics
Matches: 55, Mismatches: 20, Indels: 3
0.71 0.26 0.04
Matches are distributed among these distances:
19 7 0.13
20 32 0.58
21 16 0.29
ACGTcount: A:0.35, C:0.06, G:0.00, T:0.58
Consensus pattern (20 bp):
TTTTTATAATTATTTATAAT
Found at i:32018696 original size:10 final size:10
Alignment explanation
Indices: 32018677--32018727 Score: 52
Period size: 10 Copynumber: 5.3 Consensus size: 10
32018667 TTTGGATGTT
*
32018677 ATTTTTAATA
1 ATTTTAAATA
32018687 ATTTTAAAT-
1 ATTTTAAATA
* *
32018696 ATTTT-TATG
1 ATTTTAAATA
*
32018705 ATTCTAAATA
1 ATTTTAAATA
32018715 ATTTTAAATA
1 ATTTTAAATA
32018725 ATT
1 ATT
32018728 CTCTTCTTTT
Statistics
Matches: 33, Mismatches: 6, Indels: 4
0.77 0.14 0.09
Matches are distributed among these distances:
8 2 0.06
9 9 0.27
10 22 0.67
ACGTcount: A:0.41, C:0.02, G:0.02, T:0.55
Consensus pattern (10 bp):
ATTTTAAATA
Found at i:32018712 original size:18 final size:18
Alignment explanation
Indices: 32018676--32018720 Score: 54
Period size: 18 Copynumber: 2.4 Consensus size: 18
32018666 TTTTGGATGT
*
32018676 TATTTTTAATAATTTTAAA
1 TATTTTT-ATAATTCTAAA
*
32018695 TATTTTTATGATTCTAAA
1 TATTTTTATAATTCTAAA
*
32018713 TAATTTTA
1 TATTTTTA
32018721 AATAATTCTC
Statistics
Matches: 23, Mismatches: 3, Indels: 1
0.85 0.11 0.04
Matches are distributed among these distances:
18 16 0.70
19 7 0.30
ACGTcount: A:0.38, C:0.02, G:0.02, T:0.58
Consensus pattern (18 bp):
TATTTTTATAATTCTAAA
Found at i:32019636 original size:20 final size:20
Alignment explanation
Indices: 32019595--32019648 Score: 63
Period size: 20 Copynumber: 2.6 Consensus size: 20
32019585 AATTAAGTTT
* **
32019595 ATTTAAAATAAAAATATTAA
1 ATTTAAATTAAAAATAGAAA
32019615 ATTTAAATTAAAAATAGAAA
1 ATTTAAATTAAAAATAGAAA
32019635 ATTATAATATTAAA
1 ATT-TAA-ATTAAA
32019649 TATTTAAATA
Statistics
Matches: 29, Mismatches: 3, Indels: 2
0.85 0.09 0.06
Matches are distributed among these distances:
20 20 0.69
21 3 0.10
22 6 0.21
ACGTcount: A:0.63, C:0.00, G:0.02, T:0.35
Consensus pattern (20 bp):
ATTTAAATTAAAAATAGAAA
Found at i:32024621 original size:23 final size:23
Alignment explanation
Indices: 32024539--32024625 Score: 92
Period size: 21 Copynumber: 4.0 Consensus size: 23
32024529 CCTGATCAGT
*
32024539 ATACGACACATAAAGTGCCT-AA
1 ATACGACACACAAAGTGCCTGAA
* *
32024561 A-ACGACACACGAGGTGCCTG--
1 ATACGACACACAAAGTGCCTGAA
* *
32024581 ATACGACACACGAGGTGCCTGAA
1 ATACGACACACAAAGTGCCTGAA
*
32024604 ATACGACACATAAAGTGCCTGA
1 ATACGACACACAAAGTGCCTGA
32024626 TCGATAAAGC
Statistics
Matches: 55, Mismatches: 6, Indels: 7
0.81 0.09 0.10
Matches are distributed among these distances:
20 1 0.02
21 34 0.62
22 1 0.02
23 19 0.35
ACGTcount: A:0.38, C:0.25, G:0.22, T:0.15
Consensus pattern (23 bp):
ATACGACACACAAAGTGCCTGAA
Found at i:32024656 original size:23 final size:23
Alignment explanation
Indices: 32024612--32024658 Score: 69
Period size: 23 Copynumber: 2.0 Consensus size: 23
32024602 AAATACGACA
*
32024612 CATAAAGTGCCTGATCGATAAAG
1 CATAAAGTGCCTAATCGATAAAG
32024635 CATAAAGTGCCTAATC-AGTAAAG
1 CATAAAGTGCCTAATCGA-TAAAG
32024658 C
1 C
32024659 CGGCAAATCC
Statistics
Matches: 22, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
22 1 0.05
23 21 0.95
ACGTcount: A:0.40, C:0.19, G:0.19, T:0.21
Consensus pattern (23 bp):
CATAAAGTGCCTAATCGATAAAG
Found at i:32025911 original size:5 final size:5
Alignment explanation
Indices: 32025896--32025932 Score: 65
Period size: 5 Copynumber: 7.2 Consensus size: 5
32025886 TTCTTTCGTT
32025896 TATATA TATAA TATAA TATAA TATAA TATAA TATAA T
1 TATA-A TATAA TATAA TATAA TATAA TATAA TATAA T
32025933 TAAAACATAA
Statistics
Matches: 31, Mismatches: 0, Indels: 1
0.97 0.00 0.03
Matches are distributed among these distances:
5 27 0.87
6 4 0.13
ACGTcount: A:0.57, C:0.00, G:0.00, T:0.43
Consensus pattern (5 bp):
TATAA
Found at i:32026795 original size:42 final size:42
Alignment explanation
Indices: 32026736--32026836 Score: 193
Period size: 42 Copynumber: 2.4 Consensus size: 42
32026726 AATTTTGAAG
*
32026736 AATGAAATTATATTCAAACTTATGCTTATGAAACTGGAATTT
1 AATGAAATTATATTCAAACTTATGCTTACGAAACTGGAATTT
32026778 AATGAAATTATATTCAAACTTATGCTTACGAAACTGGAATTT
1 AATGAAATTATATTCAAACTTATGCTTACGAAACTGGAATTT
32026820 AATGAAATTATATTCAA
1 AATGAAATTATATTCAA
32026837 GTATTTATGA
Statistics
Matches: 58, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
42 58 1.00
ACGTcount: A:0.43, C:0.10, G:0.11, T:0.37
Consensus pattern (42 bp):
AATGAAATTATATTCAAACTTATGCTTACGAAACTGGAATTT
Found at i:32031224 original size:20 final size:20
Alignment explanation
Indices: 32031199--32031239 Score: 73
Period size: 20 Copynumber: 2.0 Consensus size: 20
32031189 GAAAAGATAA
32031199 CCATATAAAGCTCCAGCTTT
1 CCATATAAAGCTCCAGCTTT
*
32031219 CCATATAAAGCTCCTGCTTT
1 CCATATAAAGCTCCAGCTTT
32031239 C
1 C
32031240 ATGGTTCTCA
Statistics
Matches: 20, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
20 20 1.00
ACGTcount: A:0.27, C:0.32, G:0.10, T:0.32
Consensus pattern (20 bp):
CCATATAAAGCTCCAGCTTT
Found at i:32033594 original size:23 final size:21
Alignment explanation
Indices: 32033538--32033601 Score: 51
Period size: 23 Copynumber: 2.9 Consensus size: 21
32033528 CTTATTTCAT
*
32033538 TAAATAAAA-AATTTAAAATATAA
1 TAAATAAAATAA-TTAAAA-A-CA
32033561 TAAATAAAATATATTTAAAAACA
1 TAAATAAAATA-A-TTAAAAACA
32033584 TAAA-AACAATAATTAAAA
1 TAAATAA-AATAATTAAAA
32033602 CAAGAAACAA
Statistics
Matches: 37, Mismatches: 1, Indels: 8
0.80 0.02 0.17
Matches are distributed among these distances:
21 6 0.16
22 3 0.08
23 18 0.49
24 2 0.05
25 8 0.22
ACGTcount: A:0.69, C:0.03, G:0.00, T:0.28
Consensus pattern (21 bp):
TAAATAAAATAATTAAAAACA
Found at i:32033729 original size:23 final size:23
Alignment explanation
Indices: 32033659--32033729 Score: 56
Period size: 23 Copynumber: 3.2 Consensus size: 23
32033649 CAAATTAAAA
* * *
32033659 ATATAA-TAAAAAGAGATTATAT
1 ATATAATTAAAAACAAAATATAT
* * * *
32033681 -TAAAATTGAAAACAAAATAGAA
1 ATATAATTAAAAACAAAATATAT
*
32033703 ATATAATTAAAAATAAAATATAT
1 ATATAATTAAAAACAAAATATAT
32033726 ATAT
1 ATAT
32033730 TTAGTATATA
Statistics
Matches: 35, Mismatches: 12, Indels: 3
0.70 0.24 0.06
Matches are distributed among these distances:
21 4 0.11
22 10 0.29
23 21 0.60
ACGTcount: A:0.63, C:0.01, G:0.06, T:0.30
Consensus pattern (23 bp):
ATATAATTAAAAACAAAATATAT
Found at i:32047803 original size:42 final size:42
Alignment explanation
Indices: 32047743--32047830 Score: 131
Period size: 42 Copynumber: 2.1 Consensus size: 42
32047733 TGGGTTTATA
* * *
32047743 CTTCGGCTTGTCTGATGATGCACTTATGTGCTAGTATATTTG
1 CTTCGACTTGGCTAATGATGCACTTATGTGCTAGTATATTTG
* *
32047785 CTTCGACTTGGCTAATGATGCACTTTTGTGCTGGTATATTTG
1 CTTCGACTTGGCTAATGATGCACTTATGTGCTAGTATATTTG
32047827 CTTC
1 CTTC
32047831 AGTTTATTCA
Statistics
Matches: 41, Mismatches: 5, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
42 41 1.00
ACGTcount: A:0.16, C:0.18, G:0.23, T:0.43
Consensus pattern (42 bp):
CTTCGACTTGGCTAATGATGCACTTATGTGCTAGTATATTTG
Found at i:32058564 original size:17 final size:18
Alignment explanation
Indices: 32058542--32058579 Score: 51
Period size: 17 Copynumber: 2.2 Consensus size: 18
32058532 AACCCAAATG
32058542 AAAATTAAAGGA-AATTT
1 AAAATTAAAGGACAATTT
**
32058559 AAAATTTTAGGACAATTT
1 AAAATTAAAGGACAATTT
32058577 AAA
1 AAA
32058580 TAGGGTTTTT
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
17 10 0.56
18 8 0.44
ACGTcount: A:0.55, C:0.03, G:0.11, T:0.32
Consensus pattern (18 bp):
AAAATTAAAGGACAATTT
Found at i:32061485 original size:18 final size:18
Alignment explanation
Indices: 32061451--32061485 Score: 52
Period size: 18 Copynumber: 1.9 Consensus size: 18
32061441 GTTATTAGGG
*
32061451 TTTGGGTTTAAGTTTTAT
1 TTTGGGTTTAAGATTTAT
*
32061469 TTTGGGTTTTAGATTTA
1 TTTGGGTTTAAGATTTA
32061486 GGTTAAAAAC
Statistics
Matches: 15, Mismatches: 2, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
18 15 1.00
ACGTcount: A:0.17, C:0.00, G:0.23, T:0.60
Consensus pattern (18 bp):
TTTGGGTTTAAGATTTAT
Found at i:32071253 original size:21 final size:21
Alignment explanation
Indices: 32071227--32071274 Score: 96
Period size: 21 Copynumber: 2.3 Consensus size: 21
32071217 ATAGTATTCT
32071227 TATGTTTGATTGAATGAAATA
1 TATGTTTGATTGAATGAAATA
32071248 TATGTTTGATTGAATGAAATA
1 TATGTTTGATTGAATGAAATA
32071269 TATGTT
1 TATGTT
32071275 GTAATAACAT
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
21 27 1.00
ACGTcount: A:0.35, C:0.00, G:0.19, T:0.46
Consensus pattern (21 bp):
TATGTTTGATTGAATGAAATA
Found at i:32073304 original size:16 final size:16
Alignment explanation
Indices: 32073283--32073314 Score: 64
Period size: 16 Copynumber: 2.0 Consensus size: 16
32073273 AGACTCATAT
32073283 AGGTTCAAATAAAATA
1 AGGTTCAAATAAAATA
32073299 AGGTTCAAATAAAATA
1 AGGTTCAAATAAAATA
32073315 TGGAGCAAGC
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 16 1.00
ACGTcount: A:0.56, C:0.06, G:0.12, T:0.25
Consensus pattern (16 bp):
AGGTTCAAATAAAATA
Found at i:32073414 original size:23 final size:24
Alignment explanation
Indices: 32073387--32073438 Score: 88
Period size: 23 Copynumber: 2.2 Consensus size: 24
32073377 AAGTATTCCC
*
32073387 CATCTAAGTTTTAATAACCTAAAA
1 CATCTAAGTTTTAATAACCCAAAA
32073411 -ATCTAAGTTTTAATAACCCAAAA
1 CATCTAAGTTTTAATAACCCAAAA
32073434 CATCT
1 CATCT
32073439 TTCAATAACA
Statistics
Matches: 26, Mismatches: 1, Indels: 2
0.90 0.03 0.07
Matches are distributed among these distances:
23 22 0.85
24 4 0.15
ACGTcount: A:0.44, C:0.19, G:0.04, T:0.33
Consensus pattern (24 bp):
CATCTAAGTTTTAATAACCCAAAA
Found at i:32075607 original size:6 final size:6
Alignment explanation
Indices: 32075596--32075638 Score: 59
Period size: 6 Copynumber: 6.8 Consensus size: 6
32075586 TTTAATAAAG
*
32075596 AAAAAT AAAAAT AAAAATCT AAAACT AAAAAT AAAAAT AAAAA
1 AAAAAT AAAAAT AAAAA--T AAAAAT AAAAAT AAAAAT AAAAA
32075639 ATATAATTTT
Statistics
Matches: 33, Mismatches: 2, Indels: 4
0.85 0.05 0.10
Matches are distributed among these distances:
6 28 0.85
8 5 0.15
ACGTcount: A:0.79, C:0.05, G:0.00, T:0.16
Consensus pattern (6 bp):
AAAAAT
Found at i:32075624 original size:20 final size:20
Alignment explanation
Indices: 32075596--32075633 Score: 67
Period size: 20 Copynumber: 1.9 Consensus size: 20
32075586 TTTAATAAAG
32075596 AAAAATAAAAATAAAAATCT
1 AAAAATAAAAATAAAAATCT
*
32075616 AAAACTAAAAATAAAAAT
1 AAAAATAAAAATAAAAAT
32075634 AAAAAATATA
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
20 17 1.00
ACGTcount: A:0.76, C:0.05, G:0.00, T:0.18
Consensus pattern (20 bp):
AAAAATAAAAATAAAAATCT
Found at i:32075639 original size:20 final size:19
Alignment explanation
Indices: 32075596--32075641 Score: 65
Period size: 20 Copynumber: 2.4 Consensus size: 19
32075586 TTTAATAAAG
*
32075596 AAAAATAAAAATAAAAATCT
1 AAAAATAAAAATAAAAAT-A
*
32075616 AAAACTAAAAATAAAAATA
1 AAAAATAAAAATAAAAATA
32075635 AAAAATA
1 AAAAATA
32075642 TAATTTTATA
Statistics
Matches: 23, Mismatches: 3, Indels: 1
0.85 0.11 0.04
Matches are distributed among these distances:
19 6 0.26
20 17 0.74
ACGTcount: A:0.78, C:0.04, G:0.00, T:0.17
Consensus pattern (19 bp):
AAAAATAAAAATAAAAATA
Found at i:32075674 original size:9 final size:9
Alignment explanation
Indices: 32075656--32075722 Score: 89
Period size: 9 Copynumber: 7.4 Consensus size: 9
32075646 TTTATACAAA
32075656 TAATTCGGT
1 TAATTCGGT
*
32075665 TAATTTGGT
1 TAATTCGGT
*
32075674 TAATTAGGT
1 TAATTCGGT
* *
32075683 TAATTTGGG
1 TAATTCGGT
*
32075692 TAATTCGGG
1 TAATTCGGT
32075701 TAATTCGGT
1 TAATTCGGT
32075710 TAATTCGGT
1 TAATTCGGT
32075719 TAAT
1 TAAT
32075723 CGACCGAATT
Statistics
Matches: 52, Mismatches: 6, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
9 52 1.00
ACGTcount: A:0.25, C:0.06, G:0.24, T:0.45
Consensus pattern (9 bp):
TAATTCGGT
Found at i:32075683 original size:18 final size:18
Alignment explanation
Indices: 32075656--32075722 Score: 98
Period size: 18 Copynumber: 3.7 Consensus size: 18
32075646 TTTATACAAA
32075656 TAATTCGGTTAATTTGGT
1 TAATTCGGTTAATTTGGT
* *
32075674 TAATTAGGTTAATTTGGG
1 TAATTCGGTTAATTTGGT
* *
32075692 TAATTCGGGTAATTCGGT
1 TAATTCGGTTAATTTGGT
32075710 TAATTCGGTTAAT
1 TAATTCGGTTAAT
32075723 CGACCGAATT
Statistics
Matches: 42, Mismatches: 7, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
18 42 1.00
ACGTcount: A:0.25, C:0.06, G:0.24, T:0.45
Consensus pattern (18 bp):
TAATTCGGTTAATTTGGT
Found at i:32077570 original size:17 final size:19
Alignment explanation
Indices: 32077544--32077590 Score: 64
Period size: 17 Copynumber: 2.6 Consensus size: 19
32077534 GATAATTAAC
32077544 ATGACACAAAATAAAATG-
1 ATGACACAAAATAAAATGT
*
32077562 ATG-CACAAAA-AATATGT
1 ATGACACAAAATAAAATGT
32077579 ATGACACAAAAT
1 ATGACACAAAAT
32077591 GGAATTGGAA
Statistics
Matches: 25, Mismatches: 1, Indels: 5
0.81 0.03 0.16
Matches are distributed among these distances:
16 5 0.20
17 10 0.40
18 10 0.40
ACGTcount: A:0.57, C:0.13, G:0.11, T:0.19
Consensus pattern (19 bp):
ATGACACAAAATAAAATGT
Found at i:32080723 original size:17 final size:18
Alignment explanation
Indices: 32080703--32080739 Score: 58
Period size: 18 Copynumber: 2.1 Consensus size: 18
32080693 AAAAATCTTT
*
32080703 TTTTAAAA-ATAAAACAA
1 TTTTAAAATATAAAAAAA
32080720 TTTTAAAATATAAAAAAA
1 TTTTAAAATATAAAAAAA
32080738 TT
1 TT
32080740 GTTGTAAAAT
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
17 8 0.44
18 10 0.56
ACGTcount: A:0.62, C:0.03, G:0.00, T:0.35
Consensus pattern (18 bp):
TTTTAAAATATAAAAAAA
Found at i:32080723 original size:18 final size:19
Alignment explanation
Indices: 32080702--32080749 Score: 55
Period size: 17 Copynumber: 2.5 Consensus size: 19
32080692 AAAAAATCTT
*
32080702 TTTTTAAAA-ATAAAACAA
1 TTTTTAAAATATAAAAAAA
32080720 -TTTTAAAATATAAAAAAA
1 TTTTTAAAATATAAAAAAA
32080738 TTGTTGTAAAAT
1 TT-TT-TAAAAT
32080750 CGACACATTT
Statistics
Matches: 25, Mismatches: 1, Indels: 5
0.81 0.03 0.16
Matches are distributed among these distances:
17 8 0.32
18 8 0.32
19 1 0.04
20 2 0.08
21 6 0.24
ACGTcount: A:0.56, C:0.02, G:0.04, T:0.38
Consensus pattern (19 bp):
TTTTTAAAATATAAAAAAA
Found at i:32084542 original size:35 final size:35
Alignment explanation
Indices: 32084503--32084572 Score: 122
Period size: 35 Copynumber: 2.0 Consensus size: 35
32084493 GTAGCTTCGA
* *
32084503 TCTACTCCGTTGGAACTTCAAGGAGATAAGAATTG
1 TCTACTCCGCTGGAACTTCAACGAGATAAGAATTG
32084538 TCTACTCCGCTGGAACTTCAACGAGATAAGAATTG
1 TCTACTCCGCTGGAACTTCAACGAGATAAGAATTG
32084573 CGACTTCGAG
Statistics
Matches: 33, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
35 33 1.00
ACGTcount: A:0.31, C:0.20, G:0.21, T:0.27
Consensus pattern (35 bp):
TCTACTCCGCTGGAACTTCAACGAGATAAGAATTG
Found at i:32084695 original size:88 final size:88
Alignment explanation
Indices: 32084538--32084740 Score: 273
Period size: 88 Copynumber: 2.3 Consensus size: 88
32084528 ATAAGAATTG
* * * * *
32084538 TCTACTCCGCTGGAACTTCAACGAGATAAGAATTGCGACTTCGAGCCGCTCCAATGCCATTTCAA
1 TCTACTCCGCCGAAACTTCAAGGAGATAAGAATTGCGACTTCGAGCCGCTCCAACGCCATTCCAA
32084603 GGAGAAGAGATTTGTAG-CTTCGA
66 GGAGAAGAGATTTGTAGCCTT-GA
* * * * *
32084626 TCTACTCTGCCGAAACTTCAAGGAGATACGAATTGTGGCTTCGAGCCGCTCCAACGCCATTCCAG
1 TCTACTCCGCCGAAACTTCAAGGAGATAAGAATTGCGACTTCGAGCCGCTCCAACGCCATTCCAA
32084691 GGAGAAGAGATTTGTAGCCTTGA
66 GGAGAAGAGATTTGTAGCCTTGA
* **
32084714 TCTATTCCGTTGAAACTTCAAGGAGAT
1 TCTACTCCGCCGAAACTTCAAGGAGAT
32084741 CTGCTGTTGA
Statistics
Matches: 100, Mismatches: 14, Indels: 2
0.86 0.12 0.02
Matches are distributed among these distances:
88 97 0.97
89 3 0.03
ACGTcount: A:0.28, C:0.24, G:0.23, T:0.26
Consensus pattern (88 bp):
TCTACTCCGCCGAAACTTCAAGGAGATAAGAATTGCGACTTCGAGCCGCTCCAACGCCATTCCAA
GGAGAAGAGATTTGTAGCCTTGA
Found at i:32085042 original size:87 final size:87
Alignment explanation
Indices: 32084796--32085202 Score: 372
Period size: 88 Copynumber: 4.6 Consensus size: 87
32084786 ACTTGTAATT
* ** * ** ** *
32084796 TTCAGCCTGTTACCCTATTGTTTAGGGGGTTAAGG-TTCGCTGTCTTTTATCCGCTCAACTACTG
1 TTCAGCCTGTTACCCTACTACTTAGGGGGTTAAGGCTT-ACT-TCTTCGATTTGCTCCACTACTG
* * **
32084860 CTTAGGGAGATAAGATCTGTAA--
64 TTTAGGGAGACAAGATCTACAATC
* * * * ** * * * * * **
32084882 TTCAACATGTTACCCTACTGCTTAGAGGGTCGAGGCTCACCGTCTTTGATCTGTTCCACTACAAC
1 TTCAGCCTGTTACCCTACTACTTAGGGGGTTAAGGCTTA-CTTCTTCGATTTGCTCCACTAC-TG
* *
32084947 TTCT-GGGAGACAAGATTTGCAATC
64 TT-TAGGGAGACAAGATCTACAATC
* * * * *
32084971 TTTAGCCCGTTACCCTACTACTTAGGGGGTTATGGCTTGCTTCTTCAATTTGCTCCACTACTGTT
1 TTCAGCCTGTTACCCTACTACTTAGGGGGTTAAGGCTTACTTCTTCGATTTGCTCCACTACTGTT
*
32085036 TAGGGAGACAAGATCTATAATC
66 TAGGGAGACAAGATCTACAATC
* * *
32085058 TTCAGCCTGTTACCCTACTACTTAGGGGGTTAAGGCTTACCATATTCGATTTGCTCTACTACTGT
1 TTCAGCCTGTTACCCTACTACTTAGGGGGTTAAGGCTTA-CTTCTTCGATTTGCTCCACTACTGT
* *
32085123 TTAAGGAGACAAGGTCTACAATC
65 TTAGGGAGACAAGATCTACAATC
32085146 TTCAGCCTGTTACCCTACTACTTAGGGGGTTAAGGCTTACTGTCTTCGATTTGCTCC
1 TTCAGCCTGTTACCCTACTACTTAGGGGGTTAAGGCTTACT-TCTTCGATTTGCTCC
32085203 GCTGCAACTT
Statistics
Matches: 257, Mismatches: 55, Indels: 16
0.78 0.17 0.05
Matches are distributed among these distances:
86 45 0.18
87 73 0.28
88 111 0.43
89 28 0.11
ACGTcount: A:0.22, C:0.23, G:0.21, T:0.34
Consensus pattern (87 bp):
TTCAGCCTGTTACCCTACTACTTAGGGGGTTAAGGCTTACTTCTTCGATTTGCTCCACTACTGTT
TAGGGAGACAAGATCTACAATC
Found at i:32085192 original size:44 final size:44
Alignment explanation
Indices: 32085054--32085185 Score: 119
Period size: 44 Copynumber: 3.0 Consensus size: 44
32085044 CAAGATCTAT
32085054 AATCTTCAGCCTGTTACCCTACTACTTAGGGGGTTAAGGCTTAC
1 AATCTTCAGCCTGTTACCCTACTACTTAGGGGGTTAAGGCTTAC
* * * * * * * **
32085098 CATATTC-G-AT-TTGCTCTACTACTGTTTAAGGAGACAAGG-TCTAC
1 AATCTTCAGCCTGTTACCCTACTAC---TTAGGGGGTTAAGGCT-TAC
32085142 AATCTTCAGCCTGTTACCCTACTACTTAGGGGGTTAAGGCTTAC
1 AATCTTCAGCCTGTTACCCTACTACTTAGGGGGTTAAGGCTTAC
32085186 TGTCTTCGAT
Statistics
Matches: 62, Mismatches: 18, Indels: 16
0.65 0.19 0.17
Matches are distributed among these distances:
41 10 0.16
42 1 0.02
43 2 0.03
44 36 0.58
45 2 0.03
46 1 0.02
47 10 0.16
ACGTcount: A:0.24, C:0.23, G:0.20, T:0.33
Consensus pattern (44 bp):
AATCTTCAGCCTGTTACCCTACTACTTAGGGGGTTAAGGCTTAC
Found at i:32085398 original size:64 final size:64
Alignment explanation
Indices: 32085296--32085487 Score: 312
Period size: 64 Copynumber: 3.0 Consensus size: 64
32085286 TCATGTATCT
** * *
32085296 ATGCTTATGCCAAATAATTAGGATGTTATGATCAAAATGAATTAGATGCTCCTAACTAGATGTG
1 ATGCTTATGTTAAATAATTAGGATGTTATGATCGAAATGAATTAAATGCTCCTAACTAGATGTG
32085360 ATGCTTATGTTAAATAATTAGGATGTTATGATCGAAATGAATTAAATGCTCCTAACTAGATGTG
1 ATGCTTATGTTAAATAATTAGGATGTTATGATCGAAATGAATTAAATGCTCCTAACTAGATGTG
* * * *
32085424 ATGCTTCTGTTAAATAATTAGGATGCTATGATCGAAATGAATCAAATACTCCTAACTAGATGTG
1 ATGCTTATGTTAAATAATTAGGATGTTATGATCGAAATGAATTAAATGCTCCTAACTAGATGTG
32085488 TTATGAATGT
Statistics
Matches: 120, Mismatches: 8, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
64 120 1.00
ACGTcount: A:0.36, C:0.12, G:0.18, T:0.34
Consensus pattern (64 bp):
ATGCTTATGTTAAATAATTAGGATGTTATGATCGAAATGAATTAAATGCTCCTAACTAGATGTG
Found at i:32086405 original size:39 final size:39
Alignment explanation
Indices: 32086351--32086428 Score: 138
Period size: 39 Copynumber: 2.0 Consensus size: 39
32086341 AAAACTAGGC
*
32086351 GCCCCAGACATCGCAGCTTGAGCTTCTCTATTCCAACTT
1 GCCCCAGACATCGCAGCTTGAGCTTCTCTATACCAACTT
*
32086390 GCCCCAGACATCGCAGCTTGAGCTTCTCTGTACCAACTT
1 GCCCCAGACATCGCAGCTTGAGCTTCTCTATACCAACTT
32086429 CTTGAGGACC
Statistics
Matches: 37, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
39 37 1.00
ACGTcount: A:0.21, C:0.36, G:0.17, T:0.27
Consensus pattern (39 bp):
GCCCCAGACATCGCAGCTTGAGCTTCTCTATACCAACTT
Found at i:32088846 original size:47 final size:47
Alignment explanation
Indices: 32088777--32088938 Score: 272
Period size: 47 Copynumber: 3.5 Consensus size: 47
32088767 NNNNNNNNNN
32088777 TAAGACCATGGTTGAAAGATACCATGGCAACATGACGGGAAAATGAA
1 TAAGACCATGGTTGAAAGATACCATGGCAACATGACGGGAAAATGAA
32088824 TAAGACCATGGTTGAAAGATACCATGGCAACATGACGGGAAAATGAA
1 TAAGACCATGGTTGAAAGATACCATGGCAACATGACGGGAAAATGAA
* * *
32088871 TAAGACCATGGTTGAAAGATACCATGGCAACATGAC-AGAAAACGAG
1 TAAGACCATGGTTGAAAGATACCATGGCAACATGACGGGAAAATGAA
* *
32088917 TAAAACCATAGTTGAAAGATAC
1 TAAGACCATGGTTGAAAGATAC
32088939 TATGACATCA
Statistics
Matches: 110, Mismatches: 5, Indels: 1
0.95 0.04 0.01
Matches are distributed among these distances:
46 27 0.25
47 83 0.75
ACGTcount: A:0.44, C:0.15, G:0.23, T:0.17
Consensus pattern (47 bp):
TAAGACCATGGTTGAAAGATACCATGGCAACATGACGGGAAAATGAA
Found at i:32090314 original size:20 final size:19
Alignment explanation
Indices: 32090284--32090335 Score: 52
Period size: 18 Copynumber: 2.7 Consensus size: 19
32090274 TCCCACGATC
32090284 CTTTTTGTTGTTTTTTCCCCT
1 CTTTTT-TTGTTTTTT-CCCT
* *
32090305 CTTTTTTTG-TGTTTCTCT
1 CTTTTTTTGTTTTTTCCCT
*
32090323 CTTTTTTTCTTTT
1 CTTTTTTTGTTTT
32090336 CTTTTTTTTC
Statistics
Matches: 26, Mismatches: 4, Indels: 4
0.76 0.12 0.12
Matches are distributed among these distances:
18 11 0.42
19 6 0.23
20 3 0.12
21 6 0.23
ACGTcount: A:0.00, C:0.19, G:0.08, T:0.73
Consensus pattern (19 bp):
CTTTTTTTGTTTTTTCCCT
Found at i:32097063 original size:39 final size:38
Alignment explanation
Indices: 32097020--32097107 Score: 115
Period size: 39 Copynumber: 2.3 Consensus size: 38
32097010 TAAAATATAT
*
32097020 TTATATTAAAAAATTATC-ATAAATATAATAAATGTTTTA
1 TTATATTAAAAAA-TA-CAATAAATATAATAAATATTTTA
*
32097059 TTATACTAAAAAATACAAATAAATATAATAAATATTTTA
1 TTATATTAAAAAATAC-AATAAATATAATAAATATTTTA
*
32097098 TTGTATTAAA
1 TTATATTAAA
32097108 TATTATTTTT
Statistics
Matches: 43, Mismatches: 4, Indels: 4
0.84 0.08 0.08
Matches are distributed among these distances:
37 1 0.02
38 2 0.05
39 40 0.93
ACGTcount: A:0.53, C:0.03, G:0.02, T:0.41
Consensus pattern (38 bp):
TTATATTAAAAAATACAATAAATATAATAAATATTTTA
Found at i:32097257 original size:18 final size:19
Alignment explanation
Indices: 32097223--32097259 Score: 58
Period size: 20 Copynumber: 1.9 Consensus size: 19
32097213 ATAAATATAA
32097223 ATATATAATTATTATTTAAC
1 ATATATAATTA-TATTTAAC
32097243 ATATATAATTA-ATTTAA
1 ATATATAATTATATTTAA
32097260 TATTTTTTTA
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
18 6 0.35
20 11 0.65
ACGTcount: A:0.49, C:0.03, G:0.00, T:0.49
Consensus pattern (19 bp):
ATATATAATTATATTTAAC
Found at i:32098071 original size:25 final size:26
Alignment explanation
Indices: 32098043--32098096 Score: 67
Period size: 26 Copynumber: 2.1 Consensus size: 26
32098033 CTTTATAATT
*
32098043 TTTATATA-TTTT-ATTTTTTATAGAC
1 TTTATATATTTTTAATTTTTT-TAAAC
*
32098068 TTTATGTATTTTTAATTTTTTTAAAC
1 TTTATATATTTTTAATTTTTTTAAAC
32098094 TTT
1 TTT
32098097 TTTAAGTTTT
Statistics
Matches: 25, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
25 7 0.28
26 11 0.44
27 7 0.28
ACGTcount: A:0.26, C:0.04, G:0.04, T:0.67
Consensus pattern (26 bp):
TTTATATATTTTTAATTTTTTTAAAC
Found at i:32100474 original size:19 final size:19
Alignment explanation
Indices: 32100450--32100488 Score: 53
Period size: 19 Copynumber: 2.1 Consensus size: 19
32100440 CTTTATTCCT
32100450 TTTCGATTATTAT-TATATA
1 TTTCGA-TATTATGTATATA
*
32100469 TTTCGATATTTTGTATATA
1 TTTCGATATTATGTATATA
32100488 T
1 T
32100489 ATTTATCTTA
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
18 5 0.28
19 13 0.72
ACGTcount: A:0.28, C:0.05, G:0.08, T:0.59
Consensus pattern (19 bp):
TTTCGATATTATGTATATA
Found at i:32110592 original size:41 final size:41
Alignment explanation
Indices: 32110530--32110611 Score: 146
Period size: 41 Copynumber: 2.0 Consensus size: 41
32110520 TCGAAGACTA
32110530 GTCTTATCTCTATTGTGTTGGTGCAATAAGACTAGGGAAAG
1 GTCTTATCTCTATTGTGTTGGTGCAATAAGACTAGGGAAAG
* *
32110571 GTCTTATCTCTATTGTTTTGGTGCATTAAGACTAGGGAAAG
1 GTCTTATCTCTATTGTGTTGGTGCAATAAGACTAGGGAAAG
32110612 ATATTATCCA
Statistics
Matches: 39, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
41 39 1.00
ACGTcount: A:0.26, C:0.12, G:0.26, T:0.37
Consensus pattern (41 bp):
GTCTTATCTCTATTGTGTTGGTGCAATAAGACTAGGGAAAG
Found at i:32111524 original size:45 final size:44
Alignment explanation
Indices: 32111386--32111526 Score: 126
Period size: 45 Copynumber: 3.2 Consensus size: 44
32111376 AAAAGCATCA
* ** * *
32111386 TTTTTTGGATGAATAATTTAAACTTGTGCTTAAGAGCA-CTTGT
1 TTTTTTGGATGAATAATTTAAGCTCATGCTTAGGAGCATCATGT
* * * * * *
32111429 TTTTTT-GTTAAACAATATAAGCTCATACTTAGGAGCAT-ATTTT
1 TTTTTTGGATGAATAATTTAAGCTCATGCTTAGGAGCATCA-TGT
*
32111472 TTGTTTTGGATGAATAGTTTAAGCTCATGCTTAGGAGCATCATGAT
1 TT-TTTTGGATGAATAATTTAAGCTCATGCTTAGGAGCATCATG-T
32111518 TTTTTTGGA
1 TTTTTTGGA
32111527 GAAATTTTTA
Statistics
Matches: 74, Mismatches: 18, Indels: 10
0.73 0.18 0.10
Matches are distributed among these distances:
42 22 0.30
43 10 0.14
44 4 0.05
45 34 0.46
46 4 0.05
ACGTcount: A:0.28, C:0.10, G:0.18, T:0.44
Consensus pattern (44 bp):
TTTTTTGGATGAATAATTTAAGCTCATGCTTAGGAGCATCATGT
Found at i:32111656 original size:41 final size:39
Alignment explanation
Indices: 32111598--32111677 Score: 142
Period size: 41 Copynumber: 2.0 Consensus size: 39
32111588 GCTTTTTTTT
32111598 GGGGGGGGGGGGGGGGGCTTATTTGGCATGTGATTGGAG
1 GGGGGGGGGGGGGGGGGCTTATTTGGCATGTGATTGGAG
32111637 NGGGGGGGGGGGGGAGGGGCTTATTTGGCATGTGATTGGAG
1 -GGGGGGGGGGGGG-GGGGCTTATTTGGCATGTGATTGGAG
32111678 TCCAACCATG
Statistics
Matches: 39, Mismatches: 0, Indels: 1
0.98 0.00 0.03
Matches are distributed among these distances:
40 13 0.33
41 26 0.67
ACGTcount: A:0.11, C:0.05, G:0.60, T:0.23
Consensus pattern (39 bp):
GGGGGGGGGGGGGGGGGCTTATTTGGCATGTGATTGGAG
Found at i:32115615 original size:22 final size:22
Alignment explanation
Indices: 32115587--32115658 Score: 62
Period size: 22 Copynumber: 3.4 Consensus size: 22
32115577 ATTTAACATA
32115587 TATAATTAGAGCTCAAATAATT
1 TATAATTAGAGCTCAAATAATT
* ** *
32115609 TATAATTA-TG-T--TTTAGCTT
1 TATAATTAGAGCTCAAATA-ATT
32115628 ATATAATTAGAGCTCAAATAATT
1 -TATAATTAGAGCTCAAATAATT
32115651 TATAATTA
1 TATAATTA
32115659 TGTTTTAGCT
Statistics
Matches: 36, Mismatches: 8, Indels: 12
0.64 0.14 0.21
Matches are distributed among these distances:
18 2 0.06
19 2 0.06
20 9 0.25
21 2 0.06
22 17 0.47
23 2 0.06
24 2 0.06
ACGTcount: A:0.42, C:0.07, G:0.08, T:0.43
Consensus pattern (22 bp):
TATAATTAGAGCTCAAATAATT
Found at i:32115644 original size:42 final size:42
Alignment explanation
Indices: 32115585--32115669 Score: 170
Period size: 42 Copynumber: 2.0 Consensus size: 42
32115575 CAATTTAACA
32115585 TATATAATTAGAGCTCAAATAATTTATAATTATGTTTTAGCT
1 TATATAATTAGAGCTCAAATAATTTATAATTATGTTTTAGCT
32115627 TATATAATTAGAGCTCAAATAATTTATAATTATGTTTTAGCT
1 TATATAATTAGAGCTCAAATAATTTATAATTATGTTTTAGCT
32115669 T
1 T
32115670 TTCGCCTATT
Statistics
Matches: 43, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
42 43 1.00
ACGTcount: A:0.38, C:0.07, G:0.09, T:0.46
Consensus pattern (42 bp):
TATATAATTAGAGCTCAAATAATTTATAATTATGTTTTAGCT
Found at i:32117141 original size:20 final size:20
Alignment explanation
Indices: 32117118--32117156 Score: 69
Period size: 20 Copynumber: 1.9 Consensus size: 20
32117108 TAGAACATAA
*
32117118 TGATTGACAATAAAACACAC
1 TGATTGACAAGAAAACACAC
32117138 TGATTGACAAGAAAACACA
1 TGATTGACAAGAAAACACA
32117157 AAAACACAAA
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
20 18 1.00
ACGTcount: A:0.51, C:0.18, G:0.13, T:0.18
Consensus pattern (20 bp):
TGATTGACAAGAAAACACAC
Found at i:32117477 original size:11 final size:11
Alignment explanation
Indices: 32117463--32117503 Score: 55
Period size: 11 Copynumber: 3.7 Consensus size: 11
32117453 TGTTTTCTCC
32117463 CTATTTTGCTA
1 CTATTTTGCTA
*
32117474 CTATTTTTCTA
1 CTATTTTGCTA
* *
32117485 TTATGTTGCTA
1 CTATTTTGCTA
32117496 CTATTTTG
1 CTATTTTG
32117504 TTGTTATTGT
Statistics
Matches: 24, Mismatches: 6, Indels: 0
0.80 0.20 0.00
Matches are distributed among these distances:
11 24 1.00
ACGTcount: A:0.17, C:0.15, G:0.10, T:0.59
Consensus pattern (11 bp):
CTATTTTGCTA
Found at i:32117551 original size:12 final size:11
Alignment explanation
Indices: 32117532--32117562 Score: 53
Period size: 12 Copynumber: 2.7 Consensus size: 11
32117522 TGTATAAAAC
32117532 TTATTTTATTA
1 TTATTTTATTA
32117543 TTAATTTTATTA
1 TT-ATTTTATTA
32117555 TTATTTTA
1 TTATTTTA
32117563 AAGACATTTT
Statistics
Matches: 19, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
11 8 0.42
12 11 0.58
ACGTcount: A:0.29, C:0.00, G:0.00, T:0.71
Consensus pattern (11 bp):
TTATTTTATTA
Found at i:32117755 original size:12 final size:12
Alignment explanation
Indices: 32117725--32117757 Score: 52
Period size: 11 Copynumber: 2.9 Consensus size: 12
32117715 TATATATTTT
32117725 AAAATT-ATATA
1 AAAATTAATATA
32117736 AAAA-TAATATA
1 AAAATTAATATA
32117747 AAAATTAATAT
1 AAAATTAATAT
32117758 GGACGGGCCA
Statistics
Matches: 20, Mismatches: 0, Indels: 3
0.87 0.00 0.13
Matches are distributed among these distances:
10 1 0.05
11 13 0.65
12 6 0.30
ACGTcount: A:0.67, C:0.00, G:0.00, T:0.33
Consensus pattern (12 bp):
AAAATTAATATA
Found at i:32128418 original size:19 final size:19
Alignment explanation
Indices: 32128390--32128435 Score: 56
Period size: 19 Copynumber: 2.4 Consensus size: 19
32128380 ACATAATTTT
* *
32128390 TTAAATATATAAAGTATTA
1 TTAAAAATATAAAATATTA
*
32128409 TTAAAAATATAAAATGTTA
1 TTAAAAATATAAAATATTA
*
32128428 TAAAAAAT
1 TTAAAAAT
32128436 GAAAGCAATA
Statistics
Matches: 23, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
19 23 1.00
ACGTcount: A:0.59, C:0.00, G:0.04, T:0.37
Consensus pattern (19 bp):
TTAAAAATATAAAATATTA
Found at i:32135928 original size:16 final size:16
Alignment explanation
Indices: 32135909--32135980 Score: 65
Period size: 16 Copynumber: 4.3 Consensus size: 16
32135899 CGAAAGTTTT
*
32135909 TTTTTAAATACGAGAA
1 TTTTTAAACACGAGAA
32135925 TTTTTGAAAACACGAGAA
1 TTTTT--AAACACGAGAA
*
32135943 TTTGTAAACACGA-ATA
1 TTTTTAAACACGAGA-A
* *
32135959 TTTTAGAAACACGAAAA
1 TTTT-TAAACACGAGAA
32135976 TTTTT
1 TTTTT
32135981 GAAAAAAAAC
Statistics
Matches: 46, Mismatches: 5, Indels: 10
0.75 0.08 0.16
Matches are distributed among these distances:
15 1 0.02
16 17 0.37
17 13 0.28
18 15 0.33
ACGTcount: A:0.43, C:0.10, G:0.12, T:0.35
Consensus pattern (16 bp):
TTTTTAAACACGAGAA
Found at i:32135928 original size:20 final size:18
Alignment explanation
Indices: 32135884--32135929 Score: 56
Period size: 20 Copynumber: 2.3 Consensus size: 18
32135874 GAAGCGCAGT
32135884 ATTTCTTTTTTAAAACGAA
1 ATTT-TTTTTTAAAACGAA
32135903 AGTTTTTTTTTAAATACGAGA
1 A-TTTTTTTTTAAA-ACGA-A
32135924 ATTTTT
1 ATTTTT
32135930 GAAAACACGA
Statistics
Matches: 24, Mismatches: 0, Indels: 5
0.83 0.00 0.17
Matches are distributed among these distances:
19 10 0.42
20 12 0.50
21 2 0.08
ACGTcount: A:0.33, C:0.07, G:0.09, T:0.52
Consensus pattern (18 bp):
ATTTTTTTTTAAAACGAA
Found at i:32136067 original size:16 final size:18
Alignment explanation
Indices: 32136033--32136070 Score: 53
Period size: 18 Copynumber: 2.2 Consensus size: 18
32136023 AACACGGGAA
32136033 TTTTTAAAACAAGACATT
1 TTTTTAAAACAAGACATT
*
32136051 TTTTTGAAACAA-A-ATT
1 TTTTTAAAACAAGACATT
32136067 TTTT
1 TTTT
32136071 CTTAAAAAAA
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
16 7 0.37
17 1 0.05
18 11 0.58
ACGTcount: A:0.39, C:0.08, G:0.05, T:0.47
Consensus pattern (18 bp):
TTTTTAAAACAAGACATT
Found at i:32136076 original size:36 final size:37
Alignment explanation
Indices: 32135976--32136077 Score: 91
Period size: 36 Copynumber: 2.7 Consensus size: 37
32135966 AACACGAAAA
* *
32135976 TTTTTGAAAAAAAACGAAATTTTCTTAAAACACGACATTT
1 TTTTTGAAACAAAA-G--ATTTTCTTAAAACAAGACATTT
*** *
32136016 TTTTTGAAACACGGGAATTT-TTAAAACAAGACA-TT
1 TTTTTGAAACAAAAGATTTTCTTAAAACAAGACATTT
**
32136051 TTTTTGAAACAAAATTTTTTCTTAAAA
1 TTTTTGAAACAAAAGATTTTCTTAAAA
32136078 AAAAAATTTT
Statistics
Matches: 49, Mismatches: 12, Indels: 6
0.73 0.18 0.09
Matches are distributed among these distances:
35 16 0.33
36 18 0.37
37 4 0.08
39 1 0.02
40 10 0.20
ACGTcount: A:0.42, C:0.11, G:0.09, T:0.38
Consensus pattern (37 bp):
TTTTTGAAACAAAAGATTTTCTTAAAACAAGACATTT
Found at i:32136143 original size:23 final size:23
Alignment explanation
Indices: 32136116--32136184 Score: 88
Period size: 24 Copynumber: 3.0 Consensus size: 23
32136106 AACACAAAAA
32136116 TTTTTAAAACACGGAAATATTTTT
1 TTTTTAAAACACGGAAATA-TTTT
32136140 TTTTTAAAACAC-GAAAT-TTTT
1 TTTTTAAAACACGGAAATATTTT
* *
32136161 TTTTTGAAAACAAGAAAATATTTT
1 TTTTT-AAAACACGGAAATATTTT
32136185 AAATACGAGA
Statistics
Matches: 40, Mismatches: 2, Indels: 6
0.83 0.04 0.12
Matches are distributed among these distances:
21 9 0.22
22 6 0.15
23 9 0.22
24 16 0.40
ACGTcount: A:0.41, C:0.07, G:0.07, T:0.45
Consensus pattern (23 bp):
TTTTTAAAACACGGAAATATTTT
Found at i:32136200 original size:97 final size:96
Alignment explanation
Indices: 32136078--32136319 Score: 387
Period size: 96 Copynumber: 2.5 Consensus size: 96
32136068 TTTCTTAAAA
* * *
32136078 AAAAAATTTTAAATGCGAGAATTTTTAAAACACAAAAATTTTTAAAACACGGAAATATTTTTTTT
1 AAAATATTTTAAATACGAGAATTTTTAAAACACGAAAATTTTTAAAACACGGAAATA-TTTTTTT
32136143 TTAAAACACGAAATTTTTTTTTTGAAAACAAG
65 TTAAAACACGAAATTTTTTTTTTGAAAACAAG
32136175 AAAATATTTTAAATACGAGAATTTTTAAAACACGAAAATTTTTAAAACACGGAAATATTTTTTTT
1 AAAATATTTTAAATACGAGAATTTTTAAAACACGAAAATTTTTAAAACACGGAAATATTTTTTTT
32136240 TAAAACACGAAATTTTTTTTTTGAAAACAAG
66 TAAAACACGAAATTTTTTTTTTGAAAACAAG
* * * * *
32136271 AAAAT-TTTTGAAACACTAGAATTTTGAAAACACGAAGATTTTTGAAACA
1 AAAATATTTT-AAATACGAGAATTTTTAAAACACGAAAATTTTTAAAACA
32136320 TGAGAATTTT
Statistics
Matches: 136, Mismatches: 8, Indels: 3
0.93 0.05 0.02
Matches are distributed among these distances:
95 4 0.03
96 78 0.57
97 54 0.40
ACGTcount: A:0.46, C:0.09, G:0.09, T:0.36
Consensus pattern (96 bp):
AAAATATTTTAAATACGAGAATTTTTAAAACACGAAAATTTTTAAAACACGGAAATATTTTTTTT
TAAAACACGAAATTTTTTTTTTGAAAACAAG
Found at i:32136240 original size:23 final size:21
Alignment explanation
Indices: 32136213--32136279 Score: 89
Period size: 22 Copynumber: 3.0 Consensus size: 21
32136203 AACACGAAAA
32136213 TTTTTAAAACACGGAAATATTTT
1 TTTTTAAAACAC-GAAAT-TTTT
32136236 TTTTTAAAACACGAAATTTTT
1 TTTTTAAAACACGAAATTTTT
* *
32136257 TTTTTGAAAACAAGAAAATTTT
1 TTTTT-AAAACACGAAATTTTT
32136279 T
1 T
32136280 GAAACACTAG
Statistics
Matches: 41, Mismatches: 2, Indels: 3
0.89 0.04 0.07
Matches are distributed among these distances:
21 9 0.22
22 20 0.49
23 12 0.29
ACGTcount: A:0.40, C:0.07, G:0.07, T:0.45
Consensus pattern (21 bp):
TTTTTAAAACACGAAATTTTT
Found at i:32136280 original size:18 final size:18
Alignment explanation
Indices: 32135918--32136451 Score: 170
Period size: 17 Copynumber: 29.5 Consensus size: 18
32135908 TTTTTTAAAT
*
32135918 ACGAGAATTTTTGAAAAC
1 ACGAAAATTTTTGAAAAC
* *
32135936 ACGAGAA--TTTGTAAAC
1 ACGAAAATTTTTGAAAAC
* *
32135952 ACGAATATTTTAG-AAAC
1 ACGAAAATTTTTGAAAAC
*
32135969 ACGAAAATTTTTGAAAAAAA
1 ACGAAAATTTTTG--AAAAC
*
32135989 ACG-AAATTTTCTTAAAAC
1 ACGAAAATTTT-TGAAAAC
**
32136007 ACGACATTTTTTTTG-AAAC
1 ACGA-A-AATTTTTGAAAAC
**
32136026 ACGGGAATTTTT-AAAAC
1 ACGAAAATTTTTGAAAAC
* **
32136043 AAGACATTTTTTTG-AAAC
1 ACGA-AAATTTTTGAAAAC
* *
32136061 A--AAATTTTTTCTTAAAA-
1 ACGAAA-ATTTT-TGAAAAC
* *
32136078 A--AAAAATTTT--AAAT
1 ACGAAAATTTTTGAAAAC
* *
32136092 GCGAGAATTTTT-AAAAC
1 ACGAAAATTTTTGAAAAC
*
32136109 ACAAAAATTTTT-AAAAC
1 ACGAAAATTTTTGAAAAC
*
32136126 ACGGAAATATTTTTTTTTTAAAAC
1 AC-GAAA-A----TTTTTGAAAAC
*
32136150 ACGAAATTTTTTTTTTGAAAAC
1 ACGAAA----ATTTTTGAAAAC
* *
32136172 AAGAAAATATTTT--AAAT
1 ACGAAAAT-TTTTGAAAAC
*
32136189 ACGAGAATTTTT-AAAAC
1 ACGAAAATTTTTGAAAAC
32136206 ACGAAAATTTTT-AAAAC
1 ACGAAAATTTTTGAAAAC
*
32136223 ACGGAAATATTTTTTTTTAAAAC
1 AC-GAAA-A---TTTTTGAAAAC
*
32136246 ACGAAATTTTTTTTTTGAAAAC
1 ACGAAA----ATTTTTGAAAAC
*
32136268 AAGAAAATTTTTG-AAAC
1 ACGAAAATTTTTGAAAAC
* *
32136285 ACTAGAA-TTTTGAAAAC
1 ACGAAAATTTTTGAAAAC
*
32136302 ACGAAGATTTTTG-AAAC
1 ACGAAAATTTTTGAAAAC
* *
32136319 ATGAGAATTTTT-AAAAGC
1 ACGAAAATTTTTGAAAA-C
** *
32136337 ACGAGGATTATTGAAAGA-
1 ACGAAAATTTTTGAAA-AC
* *
32136355 ACGAAAATTTGT-AAAAA
1 ACGAAAATTTTTGAAAAC
* *
32136372 ACGACAATTTTTG-AAAT
1 ACGAAAATTTTTGAAAAC
*
32136389 ACGAGAAATTTTT-TAAAC
1 ACGA-AAATTTTTGAAAAC
* **
32136407 GCGAAAATTTTTTCAAAC
1 ACGAAAATTTTTGAAAAC
*
32136425 ACGAAAACTTTTGAAAAC
1 ACGAAAATTTTTGAAAAC
*
32136443 GCGAAAATT
1 ACGAAAATT
32136452 CGAAAGTTTC
Statistics
Matches: 390, Mismatches: 75, Indels: 102
0.69 0.13 0.18
Matches are distributed among these distances:
13 3 0.01
15 2 0.01
16 39 0.10
17 140 0.36
18 105 0.27
19 23 0.06
20 10 0.03
21 4 0.01
22 39 0.10
23 16 0.04
24 7 0.02
25 1 0.00
26 1 0.00
ACGTcount: A:0.46, C:0.10, G:0.11, T:0.33
Consensus pattern (18 bp):
ACGAAAATTTTTGAAAAC
Found at i:32136398 original size:35 final size:34
Alignment explanation
Indices: 32136259--32136428 Score: 114
Period size: 35 Copynumber: 4.9 Consensus size: 34
32136249 AAATTTTTTT
* * *
32136259 TTTG-AAAACAAGAAAATTTTTGAAACACTAGAAT
1 TTTGTAAAACACG-AAATTTTTGAAACACGAGAAA
*
32136293 TTTG-AAAACACGAAGATTTTTGAAACATGAG-AA
1 TTTGTAAAACACGAA-ATTTTTGAAACACGAGAAA
* * * *
32136326 TTTTTAAAAGCACGAGGATTATTGAAAGAACGA-AAA
1 TTTGTAAAA-CACGA-AATTTTTGAAA-CACGAGAAA
* *
32136362 TTTGTAAAAAACGACAATTTTTGAAATACGAGAAA
1 TTTGTAAAACACGA-AATTTTTGAAACACGAGAAA
* * * *
32136397 TTTTTTAAACGCGAAAATTTTTTCAAACACGA
1 TTTGTAAAACACG-AAA-TTTTTGAAACACGA
32136429 AAACTTTTGA
Statistics
Matches: 106, Mismatches: 21, Indels: 16
0.74 0.15 0.11
Matches are distributed among these distances:
33 6 0.06
34 33 0.31
35 41 0.39
36 26 0.25
ACGTcount: A:0.46, C:0.10, G:0.15, T:0.29
Consensus pattern (34 bp):
TTTGTAAAACACGAAATTTTTGAAACACGAGAAA
Found at i:32143456 original size:100 final size:100
Alignment explanation
Indices: 32143290--32143482 Score: 377
Period size: 100 Copynumber: 1.9 Consensus size: 100
32143280 ACACAATAGG
*
32143290 AAATTTATCAACCTTCAGACACATTCATACAGATCATTTAGATACCATAAATTTCAACCTTCAAT
1 AAATTTATCAACCTTCAGACACATTCATACAGATCATTTAGATACCATAAATTTAAACCTTCAAT
32143355 CTCAATAATTCCAACATATAAAATATGTCAATATA
66 CTCAATAATTCCAACATATAAAATATGTCAATATA
32143390 AAATTTATCAACCTTCAGACACATTCATACAGATCATTTAGATACCATAAATTTAAACCTTCAAT
1 AAATTTATCAACCTTCAGACACATTCATACAGATCATTTAGATACCATAAATTTAAACCTTCAAT
32143455 CTCAATAATTCCAACATATAAAATATGT
66 CTCAATAATTCCAACATATAAAATATGT
32143483 TAATTTGCAT
Statistics
Matches: 92, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
100 92 1.00
ACGTcount: A:0.43, C:0.21, G:0.04, T:0.32
Consensus pattern (100 bp):
AAATTTATCAACCTTCAGACACATTCATACAGATCATTTAGATACCATAAATTTAAACCTTCAAT
CTCAATAATTCCAACATATAAAATATGTCAATATA
Found at i:32145772 original size:31 final size:31
Alignment explanation
Indices: 32145737--32145799 Score: 117
Period size: 31 Copynumber: 2.0 Consensus size: 31
32145727 TTCACATAAA
*
32145737 CAAAGTTTGACTGAGAAATCATAATCTTTTT
1 CAAAGTTTGACTGAGAAATCACAATCTTTTT
32145768 CAAAGTTTGACTGAGAAATCACAATCTTTTT
1 CAAAGTTTGACTGAGAAATCACAATCTTTTT
32145799 C
1 C
32145800 TTCCTCTTTA
Statistics
Matches: 31, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
31 31 1.00
ACGTcount: A:0.35, C:0.16, G:0.13, T:0.37
Consensus pattern (31 bp):
CAAAGTTTGACTGAGAAATCACAATCTTTTT
Found at i:32146576 original size:21 final size:22
Alignment explanation
Indices: 32146550--32146605 Score: 62
Period size: 23 Copynumber: 2.6 Consensus size: 22
32146540 TAATTTTATA
*
32146550 ATAAATA-ATATTTTTAAAATT
1 ATAAATATATAATTTTAAAATT
*
32146571 ATAAATTATATAATTTTATAATT
1 ATAAA-TATATAATTTTAAAATT
*
32146594 A-AAATTTATAAT
1 ATAAATATATAAT
32146606 ATCAAACATG
Statistics
Matches: 30, Mismatches: 3, Indels: 4
0.81 0.08 0.11
Matches are distributed among these distances:
21 12 0.40
22 5 0.17
23 13 0.43
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (22 bp):
ATAAATATATAATTTTAAAATT
Found at i:32146913 original size:14 final size:13
Alignment explanation
Indices: 32146869--32146910 Score: 66
Period size: 13 Copynumber: 3.2 Consensus size: 13
32146859 ATAAATTATT
*
32146869 TTATAAAAATATAA
1 TTATAAAAA-ACAA
32146883 TTATAAAAAACAA
1 TTATAAAAAACAA
32146896 TTATAAAAAACAA
1 TTATAAAAAACAA
32146909 TT
1 TT
32146911 TATTTTATCT
Statistics
Matches: 27, Mismatches: 1, Indels: 1
0.93 0.03 0.03
Matches are distributed among these distances:
13 18 0.67
14 9 0.33
ACGTcount: A:0.64, C:0.05, G:0.00, T:0.31
Consensus pattern (13 bp):
TTATAAAAAACAA
Found at i:32154165 original size:3 final size:3
Alignment explanation
Indices: 32154157--32154190 Score: 50
Period size: 3 Copynumber: 11.3 Consensus size: 3
32154147 TTTTACAGTC
* *
32154157 TCT TCT TCT TCT TCT TTT TCT TTT TCT TCT TCT T
1 TCT TCT TCT TCT TCT TCT TCT TCT TCT TCT TCT T
32154191 TTTAGGGTTT
Statistics
Matches: 27, Mismatches: 4, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
3 27 1.00
ACGTcount: A:0.00, C:0.26, G:0.00, T:0.74
Consensus pattern (3 bp):
TCT
Found at i:32154183 original size:18 final size:18
Alignment explanation
Indices: 32154157--32154193 Score: 65
Period size: 18 Copynumber: 2.1 Consensus size: 18
32154147 TTTTACAGTC
32154157 TCTTCTTCTTCTTCTTTT
1 TCTTCTTCTTCTTCTTTT
*
32154175 TCTTTTTCTTCTTCTTTT
1 TCTTCTTCTTCTTCTTTT
32154193 T
1 T
32154194 AGGGTTTTTT
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
18 18 1.00
ACGTcount: A:0.00, C:0.24, G:0.00, T:0.76
Consensus pattern (18 bp):
TCTTCTTCTTCTTCTTTT
Found at i:32154801 original size:29 final size:30
Alignment explanation
Indices: 32154755--32154814 Score: 104
Period size: 29 Copynumber: 2.0 Consensus size: 30
32154745 AAAATAAATA
32154755 TAAAAATTATAACCGCCATTACTT-AAGGT
1 TAAAAATTATAACCGCCATTACTTAAAGGT
*
32154784 TAAAAATTATAACTGCCATTACTTAAAGGT
1 TAAAAATTATAACCGCCATTACTTAAAGGT
32154814 T
1 T
32154815 TGTGTAATTA
Statistics
Matches: 29, Mismatches: 1, Indels: 1
0.94 0.03 0.03
Matches are distributed among these distances:
29 23 0.79
30 6 0.21
ACGTcount: A:0.42, C:0.15, G:0.10, T:0.33
Consensus pattern (30 bp):
TAAAAATTATAACCGCCATTACTTAAAGGT
Found at i:32155338 original size:3 final size:3
Alignment explanation
Indices: 32155332--32155359 Score: 56
Period size: 3 Copynumber: 9.3 Consensus size: 3
32155322 GATATGGTTG
32155332 TTA TTA TTA TTA TTA TTA TTA TTA TTA T
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA T
32155360 ATCATTAAGG
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 25 1.00
ACGTcount: A:0.32, C:0.00, G:0.00, T:0.68
Consensus pattern (3 bp):
TTA
Found at i:32155624 original size:13 final size:13
Alignment explanation
Indices: 32155594--32155627 Score: 52
Period size: 12 Copynumber: 2.7 Consensus size: 13
32155584 TCAAATGTCA
*
32155594 TATTTAACTTTTT
1 TATTTAAATTTTT
32155607 T-TTTAAATTTTT
1 TATTTAAATTTTT
32155619 TATTTAAAT
1 TATTTAAAT
32155628 ACGTAATAAT
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
12 11 0.58
13 8 0.42
ACGTcount: A:0.29, C:0.03, G:0.00, T:0.68
Consensus pattern (13 bp):
TATTTAAATTTTT
Found at i:32159901 original size:21 final size:20
Alignment explanation
Indices: 32159875--32159971 Score: 90
Period size: 20 Copynumber: 4.8 Consensus size: 20
32159865 GATGTATGAT
*
32159875 TTGCACTCCGGTGCCCTTGAA
1 TTGCACTCCGGTGCCCCTG-A
*
32159896 TTGCACTCTGGTGCCCCTGA
1 TTGCACTCCGGTGCCCCTGA
*
32159916 TTGCACTTCC-GTGCCCCTGG
1 TTGCAC-TCCGGTGCCCCTGA
** *
32159936 TTGCACTTTGGTGTCCCTG-
1 TTGCACTCCGGTGCCCCTGA
*
32159955 TATGCACTTCGGTGCCC
1 T-TGCACTCCGGTGCCC
32159972 TTATTGGTTT
Statistics
Matches: 64, Mismatches: 9, Indels: 7
0.80 0.11 0.09
Matches are distributed among these distances:
19 2 0.03
20 43 0.67
21 19 0.30
ACGTcount: A:0.09, C:0.34, G:0.25, T:0.32
Consensus pattern (20 bp):
TTGCACTCCGGTGCCCCTGA
Found at i:32159954 original size:40 final size:40
Alignment explanation
Indices: 32159896--32159971 Score: 109
Period size: 40 Copynumber: 1.9 Consensus size: 40
32159886 TGCCCTTGAA
32159896 TTGCACTCTGGTGCCCCTG-ATTGCACTTCCGTGCCCCTGG
1 TTGCACTCTGGTGCCCCTGTA-TGCACTTCCGTGCCCCTGG
* * *
32159936 TTGCACTTTGGTGTCCCTGTATGCACTTCGGTGCCC
1 TTGCACTCTGGTGCCCCTGTATGCACTTCCGTGCCC
32159972 TTATTGGTTT
Statistics
Matches: 32, Mismatches: 3, Indels: 2
0.86 0.08 0.05
Matches are distributed among these distances:
40 31 0.97
41 1 0.03
ACGTcount: A:0.08, C:0.34, G:0.25, T:0.33
Consensus pattern (40 bp):
TTGCACTCTGGTGCCCCTGTATGCACTTCCGTGCCCCTGG
Found at i:32160723 original size:47 final size:47
Alignment explanation
Indices: 32160667--32160825 Score: 230
Period size: 47 Copynumber: 3.4 Consensus size: 47
32160657 GTGCTAGTTG
32160667 TCTTTGAAATGTATGTGCAAGCAGTTTTACCATGCATGTGTGAGCTA
1 TCTTTGAAATGTATGTGCAAGCAGTTTTACCATGCATGTGTGAGCTA
** * * *
32160714 TCTTTGAAATGTATGCACGAGCTGTTTTACCATGCATGTGCT-AACTA
1 TCTTTGAAATGTATGTGCAAGCAGTTTTACCATGCATGTG-TGAGCTA
* *
32160761 TATTTGAAATGTATGTGCAAGCAGTTTTACCATGCATGTGTGAGCTG
1 TCTTTGAAATGTATGTGCAAGCAGTTTTACCATGCATGTGTGAGCTA
*
32160808 TCTTTGGAATGTATGTGC
1 TCTTTGAAATGTATGTGC
32160826 GAGTTGTCAT
Statistics
Matches: 96, Mismatches: 14, Indels: 4
0.84 0.12 0.04
Matches are distributed among these distances:
46 1 0.01
47 94 0.98
48 1 0.01
ACGTcount: A:0.25, C:0.15, G:0.23, T:0.37
Consensus pattern (47 bp):
TCTTTGAAATGTATGTGCAAGCAGTTTTACCATGCATGTGTGAGCTA
Found at i:32167146 original size:21 final size:21
Alignment explanation
Indices: 32167122--32167180 Score: 73
Period size: 21 Copynumber: 2.8 Consensus size: 21
32167112 GTCCCCATGG
*
32167122 CACACGGGCATGTGCCTTAGC
1 CACAAGGGCATGTGCCTTAGC
* *
32167143 CACAATGTCATGTGCCTTAGC
1 CACAAGGGCATGTGCCTTAGC
* *
32167164 CACAATGTCATGTGCCT
1 CACAAGGGCATGTGCCT
32167181 CCTTTCACAC
Statistics
Matches: 35, Mismatches: 3, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
21 35 1.00
ACGTcount: A:0.22, C:0.31, G:0.22, T:0.25
Consensus pattern (21 bp):
CACAAGGGCATGTGCCTTAGC
Found at i:32176697 original size:5 final size:5
Alignment explanation
Indices: 32176676--32176728 Score: 61
Period size: 5 Copynumber: 10.0 Consensus size: 5
32176666 TGTTAAAATA
* *
32176676 TATAT TAAAT TATTAT TATAT TATAG TATAT TATATT ATATAT TATAT
1 TATAT TATAT TA-TAT TATAT TATAT TATAT TATA-T -TATAT TATAT
32176724 TATAT
1 TATAT
32176729 AAATAAGTAA
Statistics
Matches: 41, Mismatches: 4, Indels: 6
0.80 0.08 0.12
Matches are distributed among these distances:
5 31 0.76
6 6 0.15
7 4 0.10
ACGTcount: A:0.42, C:0.00, G:0.02, T:0.57
Consensus pattern (5 bp):
TATAT
Found at i:32176707 original size:10 final size:9
Alignment explanation
Indices: 32176673--32176729 Score: 59
Period size: 8 Copynumber: 6.6 Consensus size: 9
32176663 ATGTGTTAAA
32176673 ATATATATT
1 ATATATATT
*
32176682 AAAT-TATT
1 ATATATATT
32176690 AT-TATATT
1 ATATATATT
32176698 ATAGTATATT
1 ATA-TATATT
32176708 ATAT-TA-T
1 ATATATATT
32176715 ATATTATATT
1 ATA-TATATT
32176725 ATATA
1 ATATA
32176730 AATAAGTAAA
Statistics
Matches: 40, Mismatches: 2, Indels: 12
0.74 0.04 0.22
Matches are distributed among these distances:
7 5 0.12
8 14 0.35
9 8 0.20
10 13 0.32
ACGTcount: A:0.44, C:0.00, G:0.02, T:0.54
Consensus pattern (9 bp):
ATATATATT
Found at i:32176719 original size:12 final size:12
Alignment explanation
Indices: 32176674--32176729 Score: 69
Period size: 12 Copynumber: 4.5 Consensus size: 12
32176664 TGTGTTAAAA
*
32176674 TATATATTAAAT
1 TATATATTATAT
32176686 TAT-TATTATATT
1 TATATATTATA-T
32176698 ATAGTATATTATAT
1 -TA-TATATTATAT
32176712 TATATATTATAT
1 TATATATTATAT
32176724 TATATA
1 TATATA
32176730 AATAAGTAAA
Statistics
Matches: 39, Mismatches: 1, Indels: 8
0.81 0.02 0.17
Matches are distributed among these distances:
11 6 0.15
12 20 0.51
13 4 0.10
14 2 0.05
15 7 0.18
ACGTcount: A:0.43, C:0.00, G:0.02, T:0.55
Consensus pattern (12 bp):
TATATATTATAT
Found at i:32178377 original size:39 final size:39
Alignment explanation
Indices: 32178267--32178400 Score: 103
Period size: 39 Copynumber: 3.4 Consensus size: 39
32178257 GACCTCGAGT
* * * * *
32178267 CGATGAGACACTGGGTGTCACTATATTTCTTCGGATAGATT
1 CGATGAGACACTGGGTATCA-AATATTACTTCGGCTAG-TC
* * * *
32178308 CGATGA-AGTACTGGGTACCAACT-TTACTTCGGCTAGGC
1 CGATGAGA-CACTGGGTATCAAATATTACTTCGGCTAGTC
* *
32178346 CGATGAGACACTGGGTATCAAATATTGCTTCGAACTA-TC
1 CGATGAGACACTGGGTATCAAATATTACTTCG-GCTAGTC
*
32178385 CGATGAGGCACTGGGT
1 CGATGAGACACTGGGT
32178401 GCCATATTGG
Statistics
Matches: 73, Mismatches: 16, Indels: 10
0.74 0.16 0.10
Matches are distributed among these distances:
38 18 0.25
39 35 0.48
40 5 0.07
41 15 0.21
ACGTcount: A:0.25, C:0.20, G:0.26, T:0.28
Consensus pattern (39 bp):
CGATGAGACACTGGGTATCAAATATTACTTCGGCTAGTC
Found at i:32178547 original size:18 final size:19
Alignment explanation
Indices: 32178524--32178564 Score: 59
Period size: 19 Copynumber: 2.2 Consensus size: 19
32178514 AATGAAATGA
32178524 GAAATTGA-AT-TGAGAATT
1 GAAATTGAGATATGAG-ATT
32178542 GAAATTGAGATATGAGATT
1 GAAATTGAGATATGAGATT
32178561 GAAA
1 GAAA
32178565 ACATGAACCA
Statistics
Matches: 21, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
18 8 0.38
19 9 0.43
20 4 0.19
ACGTcount: A:0.46, C:0.00, G:0.24, T:0.29
Consensus pattern (19 bp):
GAAATTGAGATATGAGATT
Found at i:32178562 original size:13 final size:13
Alignment explanation
Indices: 32178512--32178551 Score: 50
Period size: 13 Copynumber: 3.2 Consensus size: 13
32178502 TTGAGCTATT
32178512 AGAA-TGAAA-TG
1 AGAATTGAAATTG
32178523 AGAAATTG-AATTG
1 AG-AATTGAAATTG
32178536 AGAATTGAAATTG
1 AGAATTGAAATTG
32178549 AGA
1 AGA
32178552 TATGAGATTG
Statistics
Matches: 25, Mismatches: 0, Indels: 6
0.81 0.00 0.19
Matches are distributed among these distances:
11 2 0.08
12 9 0.36
13 14 0.56
ACGTcount: A:0.50, C:0.00, G:0.25, T:0.25
Consensus pattern (13 bp):
AGAATTGAAATTG
Found at i:32179728 original size:46 final size:47
Alignment explanation
Indices: 32179654--32179747 Score: 172
Period size: 46 Copynumber: 2.0 Consensus size: 47
32179644 TTTTACATGC
32179654 GTGCATCGATAACTCTCAGTGCTTTCGTTCCTGGTAGACTCATCACCG
1 GTGCATCGATAAC-CTCAGTGCTTTCGTTCCTGGTAGACTCATCACCG
32179702 GTGCATCGATAA-CTCAGTGCTTTCGTTCCTGGTAGACTCATCACCG
1 GTGCATCGATAACCTCAGTGCTTTCGTTCCTGGTAGACTCATCACCG
32179748 ATAACGTGCT
Statistics
Matches: 46, Mismatches: 0, Indels: 2
0.96 0.00 0.04
Matches are distributed among these distances:
46 34 0.74
48 12 0.26
ACGTcount: A:0.19, C:0.29, G:0.21, T:0.31
Consensus pattern (47 bp):
GTGCATCGATAACCTCAGTGCTTTCGTTCCTGGTAGACTCATCACCG
Found at i:32182467 original size:19 final size:19
Alignment explanation
Indices: 32182443--32182483 Score: 57
Period size: 19 Copynumber: 2.2 Consensus size: 19
32182433 GGTTGTTGGG
32182443 TTGTTTTT-TCTTTTGGTGT
1 TTGTTTTTGTCTTTTGGT-T
*
32182462 TTGTTTTTGTTTTTTGGTT
1 TTGTTTTTGTCTTTTGGTT
32182481 TTG
1 TTG
32182484 GCTTTTGTGG
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
19 12 0.60
20 8 0.40
ACGTcount: A:0.00, C:0.02, G:0.22, T:0.76
Consensus pattern (19 bp):
TTGTTTTTGTCTTTTGGTT
Found at i:32182489 original size:20 final size:20
Alignment explanation
Indices: 32182453--32182491 Score: 53
Period size: 20 Copynumber: 1.9 Consensus size: 20
32182443 TTGTTTTTTC
*
32182453 TTTTGGTGTTTGTTTTTGTT
1 TTTTGGTGTTTGCTTTTGTT
32182473 TTTTGGT-TTTGGCTTTTGT
1 TTTTGGTGTTT-GCTTTTGT
32182492 GGGCTTTTCT
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
19 3 0.18
20 14 0.82
ACGTcount: A:0.00, C:0.03, G:0.26, T:0.72
Consensus pattern (20 bp):
TTTTGGTGTTTGCTTTTGTT
Found at i:32187060 original size:6 final size:6
Alignment explanation
Indices: 32187041--32187071 Score: 53
Period size: 6 Copynumber: 5.2 Consensus size: 6
32187031 GGGTTTGTAT
*
32187041 TTTCTG TTTTTG TTTCTG TTTCTG TTTCTG T
1 TTTCTG TTTCTG TTTCTG TTTCTG TTTCTG T
32187072 GGGAAATATT
Statistics
Matches: 23, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
6 23 1.00
ACGTcount: A:0.00, C:0.13, G:0.16, T:0.71
Consensus pattern (6 bp):
TTTCTG
Found at i:32191408 original size:32 final size:33
Alignment explanation
Indices: 32191372--32191439 Score: 95
Period size: 35 Copynumber: 2.0 Consensus size: 33
32191362 TTGGTTAGAT
32191372 ATTG-ATTATGTTTTAA-CATTGTTGGATATTGA
1 ATTGTATTATGTTTTAAGC-TTGTTGGATATTGA
32191404 ATTGATTATTATGTTTTAAGCTTGTTGGATATTGA
1 ATTG--TATTATGTTTTAAGCTTGTTGGATATTGA
32191439 A
1 A
32191440 ATTATTGATA
Statistics
Matches: 32, Mismatches: 0, Indels: 5
0.86 0.00 0.14
Matches are distributed among these distances:
32 4 0.12
35 27 0.84
36 1 0.03
ACGTcount: A:0.28, C:0.03, G:0.19, T:0.50
Consensus pattern (33 bp):
ATTGTATTATGTTTTAAGCTTGTTGGATATTGA
Found at i:32192814 original size:34 final size:35
Alignment explanation
Indices: 32192748--32192814 Score: 109
Period size: 34 Copynumber: 1.9 Consensus size: 35
32192738 CAAACACCAG
32192748 AAAATATTTTCCAGTAAGTCATTTTACAGAAAAGT
1 AAAATATTTTCCAGTAAGTCATTTTACAGAAAAGT
* *
32192783 AAAATATTTTCCAG-AATTCATTTTACGGAAAA
1 AAAATATTTTCCAGTAAGTCATTTTACAGAAAA
32192815 CATTTTACAG
Statistics
Matches: 30, Mismatches: 2, Indels: 1
0.91 0.06 0.03
Matches are distributed among these distances:
34 16 0.53
35 14 0.47
ACGTcount: A:0.43, C:0.12, G:0.10, T:0.34
Consensus pattern (35 bp):
AAAATATTTTCCAGTAAGTCATTTTACAGAAAAGT
Found at i:32193441 original size:15 final size:15
Alignment explanation
Indices: 32193399--32193443 Score: 51
Period size: 15 Copynumber: 3.2 Consensus size: 15
32193389 ATAAAAGTTA
32193399 TTTATGTATTAATAG
1 TTTATGTATTAATAG
**
32193414 -TT-T-TATTGGTAG
1 TTTATGTATTAATAG
32193426 TTTATGTATTAATAG
1 TTTATGTATTAATAG
32193441 TTT
1 TTT
32193444 TAGTCATAGT
Statistics
Matches: 23, Mismatches: 4, Indels: 6
0.70 0.12 0.18
Matches are distributed among these distances:
12 7 0.30
13 3 0.13
14 3 0.13
15 10 0.43
ACGTcount: A:0.27, C:0.00, G:0.16, T:0.58
Consensus pattern (15 bp):
TTTATGTATTAATAG
Found at i:32193453 original size:27 final size:27
Alignment explanation
Indices: 32193399--32193454 Score: 85
Period size: 27 Copynumber: 2.1 Consensus size: 27
32193389 ATAAAAGTTA
* **
32193399 TTTATGTATTAATAGTTTTATTGGTAG
1 TTTATGTATTAATAGTTTTAGTCATAG
32193426 TTTATGTATTAATAGTTTTAGTCATAG
1 TTTATGTATTAATAGTTTTAGTCATAG
32193453 TT
1 TT
32193455 ACGTAGTATA
Statistics
Matches: 26, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
27 26 1.00
ACGTcount: A:0.27, C:0.02, G:0.16, T:0.55
Consensus pattern (27 bp):
TTTATGTATTAATAGTTTTAGTCATAG
Found at i:32193559 original size:46 final size:46
Alignment explanation
Indices: 32193509--32193597 Score: 142
Period size: 46 Copynumber: 1.9 Consensus size: 46
32193499 AGGGATGTTA
**
32193509 GGATATTATTATGTGATATTATCTTTTAGCAATTTGATTCCTAATG
1 GGATATTATTATGAAATATTATCTTTTAGCAATTTGATTCCTAATG
* *
32193555 GGATATTATTATGAAATATTATTTTTTAGGAATTTGATTCCTA
1 GGATATTATTATGAAATATTATCTTTTAGCAATTTGATTCCTA
32193598 CATAACTACT
Statistics
Matches: 39, Mismatches: 4, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
46 39 1.00
ACGTcount: A:0.30, C:0.07, G:0.15, T:0.48
Consensus pattern (46 bp):
GGATATTATTATGAAATATTATCTTTTAGCAATTTGATTCCTAATG
Found at i:32193713 original size:31 final size:31
Alignment explanation
Indices: 32193675--32193735 Score: 122
Period size: 31 Copynumber: 2.0 Consensus size: 31
32193665 TCTTGTCATG
32193675 ACATTTGAGTAAGTTTTTTGGCGCAATTTTA
1 ACATTTGAGTAAGTTTTTTGGCGCAATTTTA
32193706 ACATTTGAGTAAGTTTTTTGGCGCAATTTT
1 ACATTTGAGTAAGTTTTTTGGCGCAATTTT
32193736 TTTTTCTTTC
Statistics
Matches: 30, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
31 30 1.00
ACGTcount: A:0.25, C:0.10, G:0.20, T:0.46
Consensus pattern (31 bp):
ACATTTGAGTAAGTTTTTTGGCGCAATTTTA
Found at i:32203621 original size:5 final size:5
Alignment explanation
Indices: 32203611--32203638 Score: 56
Period size: 5 Copynumber: 5.6 Consensus size: 5
32203601 ACTTAAGTAA
32203611 ATATT ATATT ATATT ATATT ATATT ATA
1 ATATT ATATT ATATT ATATT ATATT ATA
32203639 ATAAAAGAAT
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 23 1.00
ACGTcount: A:0.43, C:0.00, G:0.00, T:0.57
Consensus pattern (5 bp):
ATATT
Found at i:32203691 original size:25 final size:24
Alignment explanation
Indices: 32203641--32203701 Score: 68
Period size: 24 Copynumber: 2.4 Consensus size: 24
32203631 ATATTATAAT
* *
32203641 AAAAGAATAAAAAAATAAATGAAAC
1 AAAAGAA-AAAAAAAGAAACGAAAC
32203666 AAAAGAAAAAAAAAGAAACGAGAAC
1 AAAAGAAAAAAAAAGAAACGA-AAC
32203691 ATAATAGAAAA
1 A-AA-AGAAAA
32203702 CGAAACAAGG
Statistics
Matches: 31, Mismatches: 2, Indels: 4
0.84 0.05 0.11
Matches are distributed among these distances:
24 12 0.39
25 11 0.35
26 2 0.06
27 6 0.19
ACGTcount: A:0.75, C:0.05, G:0.11, T:0.08
Consensus pattern (24 bp):
AAAAGAAAAAAAAAGAAACGAAAC
Found at i:32216587 original size:43 final size:44
Alignment explanation
Indices: 32216513--32216603 Score: 121
Period size: 43 Copynumber: 2.1 Consensus size: 44
32216503 ATTTTATATT
* *
32216513 ATTTCATAATTTTTTTAATAATATCATAATAATTTAACCGTTAA
1 ATTTCATAATTTTTCTAATAATATCATAATAATCTAACCGTTAA
* * * *
32216557 ATTTCATAA-TTTTCTATTAATATCTTAATAATCTAACCTTTGA
1 ATTTCATAATTTTTCTAATAATATCATAATAATCTAACCGTTAA
32216600 ATTT
1 ATTT
32216604 ATTAATAAAA
Statistics
Matches: 41, Mismatches: 6, Indels: 1
0.85 0.12 0.02
Matches are distributed among these distances:
43 32 0.78
44 9 0.22
ACGTcount: A:0.37, C:0.11, G:0.02, T:0.49
Consensus pattern (44 bp):
ATTTCATAATTTTTCTAATAATATCATAATAATCTAACCGTTAA
Found at i:32226934 original size:38 final size:35
Alignment explanation
Indices: 32226880--32226991 Score: 116
Period size: 37 Copynumber: 3.1 Consensus size: 35
32226870 TGTATCATTA
*
32226880 TATTAAATTATTTAAATATTATTTATTATTATATT
1 TATTAAAATATTTAAATATTATTTATTATTATATT
* * ** *
32226915 TTTCCTAAAAATGTTTAAATATTATTTACAAATATCATT
1 TAT--T-AAAATATTTAAATATTATTTATTATTAT-ATT
*
32226954 ATATTAAATTATTTAAATATTATTTATTATTATATT
1 -TATTAAAATATTTAAATATTATTTATTATTATATT
32226990 TA
1 TA
32226992 AAATTTTAAA
Statistics
Matches: 60, Mismatches: 12, Indels: 10
0.73 0.15 0.12
Matches are distributed among these distances:
35 4 0.07
36 3 0.05
37 24 0.40
38 24 0.40
39 3 0.05
40 2 0.03
ACGTcount: A:0.41, C:0.04, G:0.01, T:0.54
Consensus pattern (35 bp):
TATTAAAATATTTAAATATTATTTATTATTATATT
Found at i:32226978 original size:37 final size:37
Alignment explanation
Indices: 32226872--32226979 Score: 121
Period size: 38 Copynumber: 2.9 Consensus size: 37
32226862 TTATTTAATG
** *
32226872 TATCATTATATTAAATTATTTAAATATTATTTATTAT
1 TATCATTATATTAAATTATTTAAATATTATTTACAAA
* * *
32226909 TAT-ATT-TTTCCTAAAAATGTTTAAATATTATTTACAAA
1 TATCATTATAT--T-AAATTATTTAAATATTATTTACAAA
32226947 TATCATTATATTAAATTATTTAAATATTATTTA
1 TATCATTATATTAAATTATTTAAATATTATTTA
32226980 TTATTATATT
Statistics
Matches: 57, Mismatches: 9, Indels: 10
0.75 0.12 0.13
Matches are distributed among these distances:
35 2 0.04
36 3 0.05
37 23 0.40
38 24 0.42
39 3 0.05
40 2 0.04
ACGTcount: A:0.42, C:0.05, G:0.01, T:0.53
Consensus pattern (37 bp):
TATCATTATATTAAATTATTTAAATATTATTTACAAA
Found at i:32226995 original size:24 final size:25
Alignment explanation
Indices: 32226862--32226995 Score: 70
Period size: 24 Copynumber: 5.4 Consensus size: 25
32226852 ATATTAATTT
**
32226862 TTATTTAATGTATCATTATATTAAA
1 TTATTTAAAATATCATTATATTAAA
* *
32226887 TTATTT-AAATATTATTTATTATTATA
1 TTATTTAAAATATCA-TTA-TATTAAA
* *
32226913 TTTTTCCTAAAA-AT-GTT-TA--AATA
1 TTATT--TAAAATATCATTATATTAA-A
32226936 TTATTTACAAATATCATTATATTAAA
1 TTATTTA-AAATATCATTATATTAAA
* *
32226962 TTATTT-AAATATTATT-TATT-AT
1 TTATTTAAAATATCATTATATTAAA
32226984 TATATTTAAAAT
1 T-TATTTAAAAT
32226996 TTTAAAATGT
Statistics
Matches: 84, Mismatches: 11, Indels: 29
0.68 0.09 0.23
Matches are distributed among these distances:
21 2 0.02
22 6 0.07
23 16 0.19
24 22 0.26
25 11 0.13
26 19 0.23
27 2 0.02
28 3 0.04
29 3 0.04
ACGTcount: A:0.41, C:0.04, G:0.01, T:0.54
Consensus pattern (25 bp):
TTATTTAAAATATCATTATATTAAA
Found at i:32230780 original size:18 final size:18
Alignment explanation
Indices: 32230757--32230807 Score: 84
Period size: 18 Copynumber: 2.8 Consensus size: 18
32230747 CGTTTATGGT
32230757 ACTATTCACGTATACGGC
1 ACTATTCACGTATACGGC
*
32230775 ACTATTCACGTATACGGT
1 ACTATTCACGTATACGGC
*
32230793 ACTGTTCACGTATAC
1 ACTATTCACGTATAC
32230808 AATAGTTGGG
Statistics
Matches: 31, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
18 31 1.00
ACGTcount: A:0.27, C:0.25, G:0.16, T:0.31
Consensus pattern (18 bp):
ACTATTCACGTATACGGC
Found at i:32234869 original size:11 final size:11
Alignment explanation
Indices: 32234853--32234883 Score: 53
Period size: 11 Copynumber: 2.8 Consensus size: 11
32234843 TAGAATATAT
32234853 CCCATACCTTG
1 CCCATACCTTG
*
32234864 CCCATACCTTT
1 CCCATACCTTG
32234875 CCCATACCT
1 CCCATACCT
32234884 ACCCATACAT
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
11 19 1.00
ACGTcount: A:0.19, C:0.48, G:0.03, T:0.29
Consensus pattern (11 bp):
CCCATACCTTG
Done.