Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: D07
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: 58101237
ACGTcount: A:0.32, C:0.16, G:0.16, T:0.32
Warning! 1550000 characters in sequence are not A, C, G, or T
File 67 of 199
Found at i:18916323 original size:9 final size:9
Alignment explanation
Indices: 18916301--18916349 Score: 55
Period size: 9 Copynumber: 5.4 Consensus size: 9
18916291 TAAAGTAAAT
*
18916301 AAAAGAAAC
1 AAAAGAAAG
*
18916310 TAAAGAAAG
1 AAAAGAAAG
18916319 AAAAGAAAG
1 AAAAGAAAG
18916328 AAAAG-AAG
1 AAAAGAAAG
*
18916336 TAAAAGAAAC
1 -AAAAGAAAG
18916346 AAAA
1 AAAA
18916350 AGAACACCAG
Statistics
Matches: 34, Mismatches: 4, Indels: 4
0.81 0.10 0.10
Matches are distributed among these distances:
8 3 0.09
9 29 0.85
10 2 0.06
ACGTcount: A:0.76, C:0.04, G:0.16, T:0.04
Consensus pattern (9 bp):
AAAAGAAAG
Found at i:18916349 original size:18 final size:19
Alignment explanation
Indices: 18916300--18916349 Score: 68
Period size: 18 Copynumber: 2.7 Consensus size: 19
18916290 ATAAAGTAAA
*
18916300 TAAAAGAAACTAAAGAAAG
1 TAAAAGAAACAAAAGAAAG
*
18916319 -AAAAGAAAGAAAAG-AAG
1 TAAAAGAAACAAAAGAAAG
18916336 TAAAAGAAACAAAA
1 TAAAAGAAACAAAA
18916350 AGAACACCAG
Statistics
Matches: 27, Mismatches: 3, Indels: 3
0.82 0.09 0.09
Matches are distributed among these distances:
17 3 0.11
18 24 0.89
ACGTcount: A:0.74, C:0.04, G:0.16, T:0.06
Consensus pattern (19 bp):
TAAAAGAAACAAAAGAAAG
Found at i:18916869 original size:3 final size:3
Alignment explanation
Indices: 18916861--18916891 Score: 62
Period size: 3 Copynumber: 10.3 Consensus size: 3
18916851 TAATTAATAG
18916861 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT T
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT T
18916892 TTCGTAGCTA
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 28 1.00
ACGTcount: A:0.32, C:0.00, G:0.00, T:0.68
Consensus pattern (3 bp):
TAT
Found at i:18917314 original size:23 final size:22
Alignment explanation
Indices: 18917288--18917371 Score: 100
Period size: 23 Copynumber: 3.8 Consensus size: 22
18917278 GCCTTGCCGA
*
18917288 TCAGACACTTTATGTGTCGTTT
1 TCAGGCACTTTATGTGTCGTTT
*
18917310 ATCAGGCACTTTATATGTCGTATT
1 -TCAGGCACTTTATGTGTCGT-TT
* *
18917334 TCAGGCACCTCATGTGTCG-TT
1 TCAGGCACTTTATGTGTCGTTT
18917355 TCAGGCAC-TTATGTGTC
1 TCAGGCACTTTATGTGTC
18917372 ATATACTGAT
Statistics
Matches: 54, Mismatches: 6, Indels: 5
0.83 0.09 0.08
Matches are distributed among these distances:
20 8 0.15
21 10 0.19
23 34 0.63
24 2 0.04
ACGTcount: A:0.19, C:0.21, G:0.20, T:0.39
Consensus pattern (22 bp):
TCAGGCACTTTATGTGTCGTTT
Found at i:18923764 original size:34 final size:34
Alignment explanation
Indices: 18923715--18923780 Score: 98
Period size: 34 Copynumber: 1.9 Consensus size: 34
18923705 CATCATTTAC
* *
18923715 TGCCAAGCAATAACTCCA-TTGACAATAATAGAAA
1 TGCCAAGAAAGAACTCCACTT-ACAATAATAGAAA
18923749 TGCCAAGAAAGAACTCCACTTACAATAATAGA
1 TGCCAAGAAAGAACTCCACTTACAATAATAGA
18923781 CACCCTACCA
Statistics
Matches: 29, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
34 27 0.93
35 2 0.07
ACGTcount: A:0.47, C:0.21, G:0.12, T:0.20
Consensus pattern (34 bp):
TGCCAAGAAAGAACTCCACTTACAATAATAGAAA
Found at i:18929438 original size:59 final size:59
Alignment explanation
Indices: 18929346--18929464 Score: 220
Period size: 59 Copynumber: 2.0 Consensus size: 59
18929336 GTTCAAAACC
*
18929346 TTGTTTATAATCTGTCGTTGTTGCCTTACTGTTGTTTCCTTACAATTCCATTTGTTTAG
1 TTGTTTATAATCTGTCGTTGTTGCCTTACTGTTGTTGCCTTACAATTCCATTTGTTTAG
*
18929405 TTGTTTATAATCTGTCGTTGTTGCCTTACTGTTGTTGCCTTACAGTTCCATTTGTTTAG
1 TTGTTTATAATCTGTCGTTGTTGCCTTACTGTTGTTGCCTTACAATTCCATTTGTTTAG
18929464 T
1 T
18929465 CGTTCAAAAG
Statistics
Matches: 58, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
59 58 1.00
ACGTcount: A:0.14, C:0.17, G:0.17, T:0.52
Consensus pattern (59 bp):
TTGTTTATAATCTGTCGTTGTTGCCTTACTGTTGTTGCCTTACAATTCCATTTGTTTAG
Found at i:18929440 original size:14 final size:14
Alignment explanation
Indices: 18929421--18929447 Score: 54
Period size: 14 Copynumber: 1.9 Consensus size: 14
18929411 ATAATCTGTC
18929421 GTTGTTGCCTTACT
1 GTTGTTGCCTTACT
18929435 GTTGTTGCCTTAC
1 GTTGTTGCCTTAC
18929448 AGTTCCATTT
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 13 1.00
ACGTcount: A:0.07, C:0.22, G:0.22, T:0.48
Consensus pattern (14 bp):
GTTGTTGCCTTACT
Found at i:18929649 original size:47 final size:47
Alignment explanation
Indices: 18929574--18929695 Score: 217
Period size: 47 Copynumber: 2.6 Consensus size: 47
18929564 TACTTTCTCT
* *
18929574 TATCTTAAATTTTATAATCTGGTTTATACCTTGTTGCTTCTTTTTTA
1 TATCTGAAATTTTATATTCTGGTTTATACCTTGTTGCTTCTTTTTTA
*
18929621 TATTTGAAATTTTATATTCTGGTTTATACCTTGTTGCTTCTTTTTTA
1 TATCTGAAATTTTATATTCTGGTTTATACCTTGTTGCTTCTTTTTTA
18929668 TATCTGAAATTTTATATTCTGGTTTATA
1 TATCTGAAATTTTATATTCTGGTTTATA
18929696 ATCTGGTTTA
Statistics
Matches: 71, Mismatches: 4, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
47 71 1.00
ACGTcount: A:0.22, C:0.11, G:0.10, T:0.57
Consensus pattern (47 bp):
TATCTGAAATTTTATATTCTGGTTTATACCTTGTTGCTTCTTTTTTA
Found at i:18929695 original size:12 final size:12
Alignment explanation
Indices: 18929678--18929707 Score: 51
Period size: 12 Copynumber: 2.5 Consensus size: 12
18929668 TATCTGAAAT
*
18929678 TTTATATTCTGG
1 TTTATAATCTGG
18929690 TTTATAATCTGG
1 TTTATAATCTGG
18929702 TTTATA
1 TTTATA
18929708 CCTTGTTGCT
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
12 17 1.00
ACGTcount: A:0.23, C:0.07, G:0.13, T:0.57
Consensus pattern (12 bp):
TTTATAATCTGG
Found at i:18941012 original size:16 final size:16
Alignment explanation
Indices: 18940991--18941022 Score: 64
Period size: 16 Copynumber: 2.0 Consensus size: 16
18940981 TAAAATTGTG
18940991 TTGCTAATTTTTATTT
1 TTGCTAATTTTTATTT
18941007 TTGCTAATTTTTATTT
1 TTGCTAATTTTTATTT
18941023 ACTACAGTTA
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:0.19, C:0.06, G:0.06, T:0.69
Consensus pattern (16 bp):
TTGCTAATTTTTATTT
Found at i:18941704 original size:27 final size:27
Alignment explanation
Indices: 18941666--18941720 Score: 110
Period size: 27 Copynumber: 2.0 Consensus size: 27
18941656 ATTATTTTTG
18941666 TAAAACATGTGATATATGCATATAAAA
1 TAAAACATGTGATATATGCATATAAAA
18941693 TAAAACATGTGATATATGCATATAAAA
1 TAAAACATGTGATATATGCATATAAAA
18941720 T
1 T
18941721 GTATTTACAA
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
27 28 1.00
ACGTcount: A:0.51, C:0.07, G:0.11, T:0.31
Consensus pattern (27 bp):
TAAAACATGTGATATATGCATATAAAA
Found at i:18943642 original size:27 final size:28
Alignment explanation
Indices: 18943612--18943666 Score: 103
Period size: 27 Copynumber: 2.0 Consensus size: 28
18943602 ATAACTTTTT
18943612 TTTATTTACCAAAATATAT-AAAAAAAA
1 TTTATTTACCAAAATATATCAAAAAAAA
18943639 TTTATTTACCAAAATATATCAAAAAAAA
1 TTTATTTACCAAAATATATCAAAAAAAA
18943667 CAAAAAAAAA
Statistics
Matches: 27, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
27 19 0.70
28 8 0.30
ACGTcount: A:0.58, C:0.09, G:0.00, T:0.33
Consensus pattern (28 bp):
TTTATTTACCAAAATATATCAAAAAAAA
Found at i:18943745 original size:27 final size:27
Alignment explanation
Indices: 18943715--18943781 Score: 91
Period size: 27 Copynumber: 2.5 Consensus size: 27
18943705 CGCCAATGGT
*
18943715 ATTGGCGGCACCAAAGGTGCCAAAAC-C
1 ATTGGCGGCACCAAAGGTGCC-AAACTA
* *
18943742 ATTGGCGGCACCAATGGTGCCATACTA
1 ATTGGCGGCACCAAAGGTGCCAAACTA
18943769 ATTGGCGGCACCA
1 ATTGGCGGCACCA
18943782 CTCGTATTAT
Statistics
Matches: 36, Mismatches: 3, Indels: 2
0.88 0.07 0.05
Matches are distributed among these distances:
26 3 0.08
27 33 0.92
ACGTcount: A:0.28, C:0.28, G:0.27, T:0.16
Consensus pattern (27 bp):
ATTGGCGGCACCAAAGGTGCCAAACTA
Found at i:18943951 original size:19 final size:21
Alignment explanation
Indices: 18943913--18943951 Score: 55
Period size: 19 Copynumber: 2.0 Consensus size: 21
18943903 AATAATTGAT
*
18943913 TATATTGTTGTTATTATTTTG
1 TATATTGTTGTTAATATTTTG
18943934 TATATT-TTG-TAATATTTT
1 TATATTGTTGTTAATATTTT
18943952 TTGTTTTAGT
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
19 8 0.47
20 3 0.18
21 6 0.35
ACGTcount: A:0.23, C:0.00, G:0.10, T:0.67
Consensus pattern (21 bp):
TATATTGTTGTTAATATTTTG
Found at i:18944003 original size:3 final size:3
Alignment explanation
Indices: 18943997--18944030 Score: 68
Period size: 3 Copynumber: 11.3 Consensus size: 3
18943987 AAAATAATAG
18943997 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT T
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT T
18944031 GTTGTTGTTG
Statistics
Matches: 31, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 31 1.00
ACGTcount: A:0.32, C:0.00, G:0.00, T:0.68
Consensus pattern (3 bp):
TAT
Found at i:18944035 original size:3 final size:3
Alignment explanation
Indices: 18944029--18944069 Score: 82
Period size: 3 Copynumber: 13.7 Consensus size: 3
18944019 ATTATTATTA
18944029 TTG TTG TTG TTG TTG TTG TTG TTG TTG TTG TTG TTG TTG TT
1 TTG TTG TTG TTG TTG TTG TTG TTG TTG TTG TTG TTG TTG TT
18944070 AGTATTAAGA
Statistics
Matches: 38, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 38 1.00
ACGTcount: A:0.00, C:0.00, G:0.32, T:0.68
Consensus pattern (3 bp):
TTG
Found at i:18944296 original size:26 final size:26
Alignment explanation
Indices: 18944263--18944315 Score: 88
Period size: 26 Copynumber: 2.0 Consensus size: 26
18944253 TTTTAGTGTG
* *
18944263 TATTATTTTGAGTATAAATTTATTAA
1 TATTATTTTGAGTATAAAATTAATAA
18944289 TATTATTTTGAGTATAAAATTAATAA
1 TATTATTTTGAGTATAAAATTAATAA
18944315 T
1 T
18944316 TTTAGTGTGT
Statistics
Matches: 25, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
26 25 1.00
ACGTcount: A:0.42, C:0.00, G:0.08, T:0.51
Consensus pattern (26 bp):
TATTATTTTGAGTATAAAATTAATAA
Found at i:18944338 original size:12 final size:12
Alignment explanation
Indices: 18944321--18944351 Score: 53
Period size: 12 Copynumber: 2.6 Consensus size: 12
18944311 ATAATTTTAG
18944321 TGTGTATTATTT
1 TGTGTATTATTT
18944333 TGTGTATTATTT
1 TGTGTATTATTT
*
18944345 TGAGTAT
1 TGTGTAT
18944352 AAATTTTTTT
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
12 18 1.00
ACGTcount: A:0.19, C:0.00, G:0.19, T:0.61
Consensus pattern (12 bp):
TGTGTATTATTT
Found at i:18944944 original size:18 final size:18
Alignment explanation
Indices: 18944901--18944945 Score: 63
Period size: 18 Copynumber: 2.5 Consensus size: 18
18944891 TTGACATGGT
*
18944901 TGGTGGTGAAGAAGAAGG
1 TGGTGGCGAAGAAGAAGG
**
18944919 TGCCGGCGAAGAAGAAGG
1 TGGTGGCGAAGAAGAAGG
18944937 TGGTGGCGA
1 TGGTGGCGA
18944946 TAATTGGGAT
Statistics
Matches: 22, Mismatches: 5, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
18 22 1.00
ACGTcount: A:0.29, C:0.09, G:0.49, T:0.13
Consensus pattern (18 bp):
TGGTGGCGAAGAAGAAGG
Found at i:18947308 original size:46 final size:46
Alignment explanation
Indices: 18947254--18947346 Score: 186
Period size: 46 Copynumber: 2.0 Consensus size: 46
18947244 CGAAAATAGA
18947254 GGCATTCATAATTTGATTGAGCTTTAATATAATGAAAAAAGTCGTG
1 GGCATTCATAATTTGATTGAGCTTTAATATAATGAAAAAAGTCGTG
18947300 GGCATTCATAATTTGATTGAGCTTTAATATAATGAAAAAAGTCGTG
1 GGCATTCATAATTTGATTGAGCTTTAATATAATGAAAAAAGTCGTG
18947346 G
1 G
18947347 CAATGGATAT
Statistics
Matches: 47, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
46 47 1.00
ACGTcount: A:0.37, C:0.09, G:0.20, T:0.34
Consensus pattern (46 bp):
GGCATTCATAATTTGATTGAGCTTTAATATAATGAAAAAAGTCGTG
Found at i:18950767 original size:18 final size:18
Alignment explanation
Indices: 18950744--18950837 Score: 77
Period size: 18 Copynumber: 5.1 Consensus size: 18
18950734 CCCTCCTTCC
18950744 CTCTTCTTCTTTTTTTTT
1 CTCTTCTTCTTTTTTTTT
* *
18950762 CTCTTCTCCTTTCTTTTT
1 CTCTTCTTCTTTTTTTTT
18950780 CT-TTCCTTCTTTCTTTCTTT
1 CTCTT-CTTCTTT-TTT-TTT
**
18950800 -T-TTCTTCTCTTTTCCTT
1 CTCTTCTTCT-TTTTTTTT
*
18950817 CTCTTCTTCTTCTTTCTTT
1 CTCTTCTTCTT-TTTTTTT
18950836 CT
1 CT
18950838 TTTTTTCTCT
Statistics
Matches: 62, Mismatches: 7, Indels: 13
0.76 0.09 0.16
Matches are distributed among these distances:
17 4 0.06
18 33 0.53
19 22 0.35
20 3 0.05
ACGTcount: A:0.00, C:0.30, G:0.00, T:0.70
Consensus pattern (18 bp):
CTCTTCTTCTTTTTTTTT
Found at i:18950777 original size:4 final size:4
Alignment explanation
Indices: 18950750--18950926 Score: 106
Period size: 4 Copynumber: 44.8 Consensus size: 4
18950740 TTCCCTCTTC
* *
18950750 TTCT TT-T TT-T TTCT CTTC- TCCT TTC- TT-T TTCT TTCC TTCT TTCT
1 TTCT TTCT TTCT TTCT -TTCT TTCT TTCT TTCT TTCT TTCT TTCT TTCT
* *
18950794 TTCT TT-T TTCT TCTCTT TTCC TTCT CTTC- TTC- TTCT TTCT TTCT TTTT
1 TTCT TTCT TTCT T-TC-T TTCT TTCT -TTCT TTCT TTCT TTCT TTCT TTCT
* * *
18950842 TTCT CTTC- TCCT TTCCCT TTCT TTCC TTC- TT-T TTCT TTCT TCCCT
1 TTCT -TTCT TTCT TT--CT TTCT TTCT TTCT TTCT TTCT TTCT T-TCT
* * *
18950887 CTCCT TTCT TCCT TTCT TTCT CTCT TTCT TTCT TTCT TTC
1 -TTCT TTCT TTCT TTCT TTCT TTCT TTCT TTCT TTCT TTC
18950927 CCTCTCCTTC
Statistics
Matches: 138, Mismatches: 17, Indels: 36
0.72 0.09 0.19
Matches are distributed among these distances:
3 27 0.20
4 86 0.62
5 18 0.13
6 7 0.05
ACGTcount: A:0.00, C:0.32, G:0.00, T:0.68
Consensus pattern (4 bp):
TTCT
Found at i:18950778 original size:22 final size:22
Alignment explanation
Indices: 18950750--18950821 Score: 83
Period size: 22 Copynumber: 3.2 Consensus size: 22
18950740 TTCCCTCTTC
18950750 TTCTTTTTTTTTCTCTTCTCCT
1 TTCTTTTTTTTTCTCTTCTCCT
* *
18950772 TTCTTTTTCTTTC-CTTCTTTCT
1 TTCTTTTTTTTTCTCTTC-TCCT
* *
18950794 TTCTTTTTTCTTCTCTTTTCCT
1 TTCTTTTTTTTTCTCTTCTCCT
18950816 TCTCTT
1 T-TCTT
18950822 CTTCTTCTTT
Statistics
Matches: 41, Mismatches: 6, Indels: 5
0.79 0.12 0.10
Matches are distributed among these distances:
21 4 0.10
22 30 0.73
23 7 0.17
ACGTcount: A:0.00, C:0.28, G:0.00, T:0.72
Consensus pattern (22 bp):
TTCTTTTTTTTTCTCTTCTCCT
Found at i:18950808 original size:44 final size:43
Alignment explanation
Indices: 18950750--18950926 Score: 176
Period size: 38 Copynumber: 4.2 Consensus size: 43
18950740 TTCCCTCTTC
*
18950750 TTCTTTTTTTTTCTCTTCTCCTTTCTTTTTCTTTCCTTCTTTCT
1 TTCTTTTTTCTTCTCTTCTCCTTTCTTTTTCTTT-CTTCTTTCT
* *
18950794 TTCTTTTTTCTTCTCTTTTCC-TTC-TCTTC-TTCTTCTTTCT
1 TTCTTTTTTCTTCTCTTCTCCTTTCTTTTTCTTTCTTCTTTCT
**
18950834 TTC-TTTTT-TTCTCTTCTCCTTTCCCTTTCTTTC--C-TTCT
1 TTCTTTTTTCTTCTCTTCTCCTTTCTTTTTCTTTCTTCTTTCT
* *
18950872 TT-TTCTTTCTTC-CCTCTCCTTTCTTCCTTTCTTTCTCTCTTTCT
1 TTCTTTTTTCTTCTCTTCTCCTTTCTT--TTTCTTTCT-TCTTTCT
18950916 TTCTTTCTTTC
1 TTCTTT-TTTC
18950927 CCTCTCCTTC
Statistics
Matches: 109, Mismatches: 11, Indels: 24
0.76 0.08 0.17
Matches are distributed among these distances:
38 30 0.28
39 12 0.11
40 23 0.21
41 5 0.05
42 4 0.04
43 4 0.04
44 25 0.23
45 2 0.02
46 4 0.04
ACGTcount: A:0.00, C:0.32, G:0.00, T:0.68
Consensus pattern (43 bp):
TTCTTTTTTCTTCTCTTCTCCTTTCTTTTTCTTTCTTCTTTCT
Found at i:18950811 original size:34 final size:33
Alignment explanation
Indices: 18950773--18950882 Score: 98
Period size: 34 Copynumber: 3.1 Consensus size: 33
18950763 TCTTCTCCTT
18950773 TCTTTTTCTTTCCTTCTTTCTTTCTTTTTTCTTC
1 TCTTTTTCTTTCCTTCTTTCTTTC-TTTTTCTTC
18950807 TCTTTTCCTTCTCTTCTTCTTCTTTCTTTCTTTTT-TTC
1 TC-TTT--TTCT-TTC--CTTCTTTCTTTCTTTTTCTTC
* * *
18950845 TCTTCTCCTTTCCCTTTCTTTCCTTCTTTTTCTT-
1 TCTTTTTCTTT-CC-TTCTTTCTTTCTTTTTCTTC
18950879 TCTT
1 TCTT
18950883 CCCTCTCCTT
Statistics
Matches: 64, Mismatches: 3, Indels: 18
0.75 0.04 0.21
Matches are distributed among these distances:
33 1 0.02
34 23 0.36
35 9 0.14
37 6 0.09
38 8 0.12
39 5 0.08
40 12 0.19
ACGTcount: A:0.00, C:0.30, G:0.00, T:0.70
Consensus pattern (33 bp):
TCTTTTTCTTTCCTTCTTTCTTTCTTTTTCTTC
Found at i:18950833 original size:70 final size:70
Alignment explanation
Indices: 18950722--18950927 Score: 183
Period size: 70 Copynumber: 2.9 Consensus size: 70
18950712 ATTACATTTT
* * * *
18950722 TTTCTTTTTTTTCCCTCCTTCCCTCTTCTTCTTTTTTTTTCTCTTCTCCTTTCTTTTTCTTTCC-
1 TTTCTTTTTTTTCTCT-TTTCCCTC-TCTTCTTCTTCTTTCT-TTCTCCTTTCTTTTTCTTTCCT
18950786 TT-CTTTC
63 TTCCTTTC
* *
18950793 TTTCTTTTTTCTTCTCTTTTCCTTCTCTTCTTCTTCTTTCTTTCT--TTT-TTTCTCTTCTCCTT
1 TTTCTTTTTT-TTCTCTTTTCCCTCTCTTCTTCTTCTTTCTTTCTCCTTTCTTTTTCTT-TCCTT
18950855 TCCCTTTC
64 T-CCTTTC
* *
18950863 TTTCCTTCTTTTTCT-TTCTTCCCTCTCCT-TTCTTCCTTTCTTTCTCTCTTTCTTTCTTTCTTT
1 TTT-CTTTTTTTTCTCTT-TTCCCTCTCTTCTTCTT-CTTTCTTTCTC-CTTTC-TT-TTTCTTT
18950926 CC
60 CC
18950928 CTCTCCTTCT
Statistics
Matches: 111, Mismatches: 10, Indels: 24
0.77 0.07 0.17
Matches are distributed among these distances:
66 7 0.06
67 6 0.05
68 2 0.02
69 11 0.10
70 45 0.41
71 22 0.20
72 5 0.05
73 3 0.03
75 5 0.05
76 5 0.05
ACGTcount: A:0.00, C:0.33, G:0.00, T:0.67
Consensus pattern (70 bp):
TTTCTTTTTTTTCTCTTTTCCCTCTCTTCTTCTTCTTTCTTTCTCCTTTCTTTTTCTTTCCTTTC
CTTTC
Found at i:18950855 original size:82 final size:79
Alignment explanation
Indices: 18950719--18950935 Score: 230
Period size: 82 Copynumber: 2.7 Consensus size: 79
18950709 AAAATTACAT
* * * **
18950719 TTTTTTCTT-TTTTTTCCCTCCTTCCCTCTTC-TTC-TT-TTTTTTTCTCTTCTCCTTTCTTTTT
1 TTTTTTCTTCTCTTTTCCTTCCTT-CTTCTTCTTTCTTTCTTTTTTTCTCTTCTCCTTTCCCTTT
18950780 CTTTCCTTCTTTCTTTC
65 CTTTCCTTC-TT-TTTC
18950797 TTTTTTCTTCTCTTTTCCTTCTCTTCTTCTTCTTTCTTTCTTTTTTTCTCTTCTCCTTTCCCTTT
1 TTTTTTCTTCTCTTTTCCTTC-CTTCTTCTTCTTTCTTTCTTTTTTTCTCTTCTCCTTTCCCTTT
18950862 CTTTCCTTCTTTTTC
65 CTTTCCTTCTTTTTC
* * * * *
18950877 TTTCTTCCCTCTCCTTT-CTTCCTTTCTTTCTCTCTTTCTTTCTTTCTTTC-CCTCTCCTT
1 TTT-TTTCTTCTCTTTTCCTTCC-TTC-TTCT-TCTTTCTTTCTTTTTTTCTCTTCTCCTT
18950936 CTGCCCCCCC
Statistics
Matches: 120, Mismatches: 10, Indels: 15
0.83 0.07 0.10
Matches are distributed among these distances:
78 9 0.08
79 16 0.13
80 20 0.17
81 26 0.22
82 49 0.41
ACGTcount: A:0.00, C:0.33, G:0.00, T:0.67
Consensus pattern (79 bp):
TTTTTTCTTCTCTTTTCCTTCCTTCTTCTTCTTTCTTTCTTTTTTTCTCTTCTCCTTTCCCTTTC
TTTCCTTCTTTTTC
Found at i:18950871 original size:48 final size:44
Alignment explanation
Indices: 18950750--18950925 Score: 140
Period size: 44 Copynumber: 4.1 Consensus size: 44
18950740 TTCCCTCTTC
* * * *
18950750 TTCTTTTTTTTTCTC-TTCTCCTT-TCTTTTTCTTTCCTTCTTTCT
1 TTCTTTTCTCTTCTCTTTC-CCTTCTCTTCTTC-TTCTTTCTTTCT
* *
18950794 TTCTTTTTTCTTCTCTTTTCCTTCTCTTCTTCTTCTTTCTTTCT
1 TTCTTTTCTCTTCTCTTTCCCTTCTCTTCTTCTTCTTTCTTTCT
18950838 TT-TTTTCTCTTCTCCTTTCCCTT-TCTTTCCTTCTT-TTTCTTTCT
1 TTCTTTTCTCTTCT-CTTTCCCTTCTC-TT-CTTCTTCTTTCTTTCT
* * * *
18950882 TCCCTCTC-CTT-TC-TTCCTTTCT-TTC-TC-TCTTTCTTTCT
1 TTCTTTTCTCTTCTCTTTCCCTTCTCTTCTTCTTCTTTCTTTCT
18950920 TTCTTT
1 TTCTTT
18950926 CCCTCTCCTT
Statistics
Matches: 111, Mismatches: 13, Indels: 22
0.76 0.09 0.15
Matches are distributed among these distances:
37 1 0.01
38 14 0.13
39 1 0.01
40 2 0.02
41 6 0.05
42 2 0.02
43 13 0.12
44 54 0.49
45 18 0.16
ACGTcount: A:0.00, C:0.31, G:0.00, T:0.69
Consensus pattern (44 bp):
TTCTTTTCTCTTCTCTTTCCCTTCTCTTCTTCTTCTTTCTTTCT
Found at i:18950999 original size:27 final size:28
Alignment explanation
Indices: 18950969--18951026 Score: 82
Period size: 27 Copynumber: 2.1 Consensus size: 28
18950959 TATTATTAAC
**
18950969 TGGTGCCGCCAATAGTATTGGC-ACCAT
1 TGGTGCCGCCAATACCATTGGCAACCAT
*
18950996 TGGTGCCGCCAATCCCATTGGCAACCAT
1 TGGTGCCGCCAATACCATTGGCAACCAT
18951024 TGG
1 TGG
18951027 CGTGGCTAGT
Statistics
Matches: 27, Mismatches: 3, Indels: 1
0.87 0.10 0.03
Matches are distributed among these distances:
27 19 0.70
28 8 0.30
ACGTcount: A:0.21, C:0.29, G:0.26, T:0.24
Consensus pattern (28 bp):
TGGTGCCGCCAATACCATTGGCAACCAT
Found at i:18951114 original size:28 final size:28
Alignment explanation
Indices: 18951082--18951135 Score: 108
Period size: 28 Copynumber: 1.9 Consensus size: 28
18951072 TTTTTTTTTG
18951082 TTTTTTTATATATTTTGGTAAATAAATT
1 TTTTTTTATATATTTTGGTAAATAAATT
18951110 TTTTTTTATATATTTTGGTAAATAAA
1 TTTTTTTATATATTTTGGTAAATAAA
18951136 AAAAGTTATA
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
28 26 1.00
ACGTcount: A:0.33, C:0.00, G:0.07, T:0.59
Consensus pattern (28 bp):
TTTTTTTATATATTTTGGTAAATAAATT
Found at i:18959467 original size:20 final size:19
Alignment explanation
Indices: 18959442--18959485 Score: 61
Period size: 19 Copynumber: 2.3 Consensus size: 19
18959432 TAGAAAATAA
18959442 TTTCTGAAAAATGATTTACT
1 TTTCTG-AAAATGATTTACT
* *
18959462 TTTCTGAGAATGATTTGCT
1 TTTCTGAAAATGATTTACT
18959481 TTTCT
1 TTTCT
18959486 AGTGTTTGGA
Statistics
Matches: 22, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
19 16 0.73
20 6 0.27
ACGTcount: A:0.25, C:0.11, G:0.14, T:0.50
Consensus pattern (19 bp):
TTTCTGAAAATGATTTACT
Found at i:18962753 original size:16 final size:16
Alignment explanation
Indices: 18962732--18962765 Score: 59
Period size: 16 Copynumber: 2.1 Consensus size: 16
18962722 GGACGAAGAG
*
18962732 GAAATGAGGAGGAAAT
1 GAAATGAGAAGGAAAT
18962748 GAAATGAGAAGGAAAT
1 GAAATGAGAAGGAAAT
18962764 GA
1 GA
18962766 GAGGCTGAGC
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:0.53, C:0.00, G:0.35, T:0.12
Consensus pattern (16 bp):
GAAATGAGAAGGAAAT
Found at i:18966543 original size:16 final size:16
Alignment explanation
Indices: 18966518--18966552 Score: 54
Period size: 16 Copynumber: 2.2 Consensus size: 16
18966508 CCAATTTGAC
18966518 TTTCTGTTTTTG-TCT
1 TTTCTGTTTTTGTTCT
18966533 TTTCTTGTTTTTGTTCT
1 TTTC-TGTTTTTGTTCT
18966550 TTT
1 TTT
18966553 TCTTTTAAAT
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
15 4 0.22
16 8 0.44
17 6 0.33
ACGTcount: A:0.00, C:0.11, G:0.11, T:0.77
Consensus pattern (16 bp):
TTTCTGTTTTTGTTCT
Found at i:18967936 original size:21 final size:21
Alignment explanation
Indices: 18967912--18967986 Score: 68
Period size: 21 Copynumber: 3.7 Consensus size: 21
18967902 TAAATCTTAT
18967912 ATTTTTTAATAATTTATATAA
1 ATTTTTTAATAATTTATATAA
* *
18967933 ATTTTTTTATAATTT-TCTAAA
1 ATTTTTTAATAATTTATAT-AA
*
18967954 ATTTTTATAATGATTTA-AT-A
1 ATTTTT-TAATAATTTATATAA
*
18967974 A-TTTCTAATAATT
1 ATTTTTTAATAATT
18967987 AAAAAAAATT
Statistics
Matches: 44, Mismatches: 7, Indels: 9
0.73 0.12 0.15
Matches are distributed among these distances:
18 7 0.16
19 3 0.07
20 4 0.09
21 22 0.50
22 8 0.18
ACGTcount: A:0.39, C:0.03, G:0.01, T:0.57
Consensus pattern (21 bp):
ATTTTTTAATAATTTATATAA
Found at i:18968364 original size:19 final size:18
Alignment explanation
Indices: 18968273--18968365 Score: 64
Period size: 19 Copynumber: 5.1 Consensus size: 18
18968263 TTTTTTTTTA
18968273 TAAT-TTTTTAATAATTT
1 TAATATTTTTAATAATTT
* * *
18968290 TCAAAAATTTTAATAAGTT
1 T-AATATTTTTAATAATTT
*
18968309 TAATAATTCTTTAATAATGT
1 TAAT-ATT-TTTAATAATTT
* * * *
18968329 T-CTTTTTTTTATCATTT
1 TAATATTTTTAATAATTT
18968346 TAATATTTTTATATAATTT
1 TAATATTTTTA-ATAATTT
18968365 T
1 T
18968366 CTATATATAT
Statistics
Matches: 54, Mismatches: 16, Indels: 10
0.68 0.20 0.12
Matches are distributed among these distances:
17 10 0.19
18 12 0.22
19 22 0.41
20 10 0.19
ACGTcount: A:0.34, C:0.04, G:0.02, T:0.59
Consensus pattern (18 bp):
TAATATTTTTAATAATTT
Found at i:18968416 original size:30 final size:31
Alignment explanation
Indices: 18968361--18968418 Score: 91
Period size: 30 Copynumber: 1.9 Consensus size: 31
18968351 TTTTTATATA
*
18968361 ATTTTCTATATATATATTTATAATATTTCAT
1 ATTTTCTATATATATATTGATAATATTTCAT
*
18968392 ATTTTCTATA-ATATGTTGATAATATTT
1 ATTTTCTATATATATATTGATAATATTT
18968419 GTTACATATT
Statistics
Matches: 25, Mismatches: 2, Indels: 1
0.89 0.07 0.04
Matches are distributed among these distances:
30 15 0.60
31 10 0.40
ACGTcount: A:0.34, C:0.05, G:0.03, T:0.57
Consensus pattern (31 bp):
ATTTTCTATATATATATTGATAATATTTCAT
Found at i:18968977 original size:24 final size:24
Alignment explanation
Indices: 18968940--18969006 Score: 89
Period size: 24 Copynumber: 2.8 Consensus size: 24
18968930 TTTTCTTATC
* * * *
18968940 ATTGTTTAGATACTGTTGACAAGT
1 ATTGTTTGGGTACTATTCACAAGT
18968964 ATTGTTTGGGTACTATTCACAAGT
1 ATTGTTTGGGTACTATTCACAAGT
*
18968988 ATTGTTTGGGTACTTTTCA
1 ATTGTTTGGGTACTATTCA
18969007 ACATTGTTTG
Statistics
Matches: 38, Mismatches: 5, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
24 38 1.00
ACGTcount: A:0.24, C:0.10, G:0.21, T:0.45
Consensus pattern (24 bp):
ATTGTTTGGGTACTATTCACAAGT
Found at i:18969014 original size:21 final size:24
Alignment explanation
Indices: 18968939--18969025 Score: 81
Period size: 24 Copynumber: 3.8 Consensus size: 24
18968929 TTTTTCTTAT
* * * *
18968939 CATTGTTTAGATACTGTTGACAAG
1 CATTGTTTGGGTACTATTCACAAG
*
18968963 TATTGTTTGGGTACTATTCACAAG
1 CATTGTTTGGGTACTATTCACAAG
* *
18968987 TATTGTTTGGGTACT-TT-TCAA-
1 CATTGTTTGGGTACTATTCACAAG
*
18969008 CATTGTTTGAGTACTATT
1 CATTGTTTGGGTACTATT
18969026 TTGGAAATTT
Statistics
Matches: 54, Mismatches: 8, Indels: 4
0.82 0.12 0.06
Matches are distributed among these distances:
21 13 0.24
22 5 0.09
23 2 0.04
24 34 0.63
ACGTcount: A:0.24, C:0.11, G:0.20, T:0.45
Consensus pattern (24 bp):
CATTGTTTGGGTACTATTCACAAG
Found at i:18971671 original size:114 final size:116
Alignment explanation
Indices: 18971471--18971696 Score: 393
Period size: 114 Copynumber: 1.9 Consensus size: 116
18971461 AAATCAGCAT
* *
18971471 ATATATATGTATATCTATTGTATATTTGATGAGCTATAATTAAAAATATATGAATTGAAATTAGT
1 ATATATATGTATATCTATTGTATATTTGATGAGCTATAATTAAAAATATATAAATTAAAATTAGT
18971536 TAAGTATGAATG-T-TATATATATGCATAAATGAAGTTCGAATATATGTAA
66 TAAGTATGAATGTTATATATATATGCATAAATGAAGTTCGAATATATGTAA
*
18971585 ATATATATGTATATCTATTGTATATTTGATGAGCTATAATTAAAAGTATATAAATTAAAATTAGT
1 ATATATATGTATATCTATTGTATATTTGATGAGCTATAATTAAAAATATATAAATTAAAATTAGT
18971650 TAAGTATGAATGTTATATATATATATGCATAAATGAAGTTCGAATAT
66 TAAGTATGAATG-T-TATATATATATGCATAAATGAAGTTCGAATAT
18971697 GTATATATGA
Statistics
Matches: 105, Mismatches: 3, Indels: 4
0.94 0.03 0.04
Matches are distributed among these distances:
114 74 0.70
117 1 0.01
118 30 0.29
ACGTcount: A:0.42, C:0.04, G:0.13, T:0.41
Consensus pattern (116 bp):
ATATATATGTATATCTATTGTATATTTGATGAGCTATAATTAAAAATATATAAATTAAAATTAGT
TAAGTATGAATGTTATATATATATGCATAAATGAAGTTCGAATATATGTAA
Found at i:18972230 original size:41 final size:41
Alignment explanation
Indices: 18972180--18972326 Score: 224
Period size: 41 Copynumber: 3.6 Consensus size: 41
18972170 CGGACTTTAC
*
18972180 GTCTAGCAGGCTAAGTGCCGGTGATCTGAAACAGGCTATAA
1 GTCTAGCAGGCTAAGTGCCGGTGATCTGAATCAGGCTATAA
*
18972221 GTCTAGCAGGCTAAGTGCCGGTGATCTGAATCAGGTTATAA
1 GTCTAGCAGGCTAAGTGCCGGTGATCTGAATCAGGCTATAA
** *
18972262 ACCTAGCAGGCTAAGTGCCAGTGATCTGAATCAGGCTATAA
1 GTCTAGCAGGCTAAGTGCCGGTGATCTGAATCAGGCTATAA
*
18972303 G-CTTAGCAGGTTAAGTGCCGGTGA
1 GTC-TAGCAGGCTAAGTGCCGGTGA
18972327 ATATGTTAAA
Statistics
Matches: 96, Mismatches: 9, Indels: 2
0.90 0.08 0.02
Matches are distributed among these distances:
40 1 0.01
41 95 0.99
ACGTcount: A:0.28, C:0.19, G:0.29, T:0.24
Consensus pattern (41 bp):
GTCTAGCAGGCTAAGTGCCGGTGATCTGAATCAGGCTATAA
Found at i:18975647 original size:23 final size:23
Alignment explanation
Indices: 18975610--18975860 Score: 279
Period size: 23 Copynumber: 10.7 Consensus size: 23
18975600 TCTACCCTAT
**
18975610 TTGGACAGC-TCTTATACATTAAA
1 TTGGACAGCAT-TTATACACCAAA
* *
18975633 TCGGACAGCATTTATACACCCAA
1 TTGGACAGCATTTATACACCAAA
*
18975656 TTGGACAGCATATATATATACCAAA
1 TTGGACAGCAT-T-TATACACCAAA
* *
18975681 GTGGATAGCATTTATACACCAAA
1 TTGGACAGCATTTATACACCAAA
* *
18975704 TTGGACAGAATTTATACACCCAA
1 TTGGACAGCATTTATACACCAAA
* *
18975727 TTGGATAGCAAATATATACACCAAA
1 TTGGACAGC--ATTTATACACCAAA
*
18975752 TTGGACAACATTTATACACCAAA
1 TTGGACAGCATTTATACACCAAA
**
18975775 TTGGACAATATTTATACACCAAA
1 TTGGACAGCATTTATACACCAAA
18975798 TTGGACAGCATTTTATACACCAAA
1 TTGGACAGCA-TTTATACACCAAA
* *
18975822 TTGAACAGCATATATACACCAAA
1 TTGGACAGCATTTATACACCAAA
* *
18975845 TTGGACAACATATATA
1 TTGGACAGCATTTATA
18975861 TATACCCAAT
Statistics
Matches: 194, Mismatches: 28, Indels: 12
0.83 0.12 0.05
Matches are distributed among these distances:
23 132 0.68
24 25 0.13
25 37 0.19
ACGTcount: A:0.41, C:0.20, G:0.12, T:0.27
Consensus pattern (23 bp):
TTGGACAGCATTTATACACCAAA
Found at i:18975695 original size:48 final size:48
Alignment explanation
Indices: 18975630--18975862 Score: 269
Period size: 48 Copynumber: 4.9 Consensus size: 48
18975620 CTTATACATT
* * *
18975630 AAATCGGACAGCATTTATACACCCAATTGGACAGCATATATATATACC
1 AAATTGGACAGCATTTATACACCAAATTGGACAGCATATATATACACC
* * *
18975678 AAAGTGGATAGCATTTATACACCAAATTGGACAG-A-ATTTATACACC
1 AAATTGGACAGCATTTATACACCAAATTGGACAGCATATATATACACC
* * * *
18975724 CAATTGGATAGCAAATATATACACCAAATTGGACAACAT-T-TATACACC
1 AAATTGGACAGC--ATTTATACACCAAATTGGACAGCATATATATACACC
** *
18975772 AAATTGGACAATATTTATACACCAAATTGGACAGCAT-TTTATACACC
1 AAATTGGACAGCATTTATACACCAAATTGGACAGCATATATATACACC
* * *
18975819 AAATTGAACAGCATATATACACCAAATTGGACAACATATATATA
1 AAATTGGACAGCATTTATACACCAAATTGGACAGCATATATATA
18975863 TACCCAATCA
Statistics
Matches: 157, Mismatches: 22, Indels: 12
0.82 0.12 0.06
Matches are distributed among these distances:
46 43 0.27
47 41 0.26
48 71 0.45
49 2 0.01
ACGTcount: A:0.43, C:0.19, G:0.12, T:0.26
Consensus pattern (48 bp):
AAATTGGACAGCATTTATACACCAAATTGGACAGCATATATATACACC
Found at i:18975742 original size:71 final size:71
Alignment explanation
Indices: 18975610--18975851 Score: 310
Period size: 71 Copynumber: 3.4 Consensus size: 71
18975600 TCTACCCTAT
** * * *
18975610 TTGGACAGC-TCTTATACATTAAATCGGACAGCATTTATACACCCAATTGGACAGCATATATATA
1 TTGGACAGCAT-TTATACACCAAATTGGACAGAATTTATACACCCAATTGGACAGCAAATATATA
*
18975674 TACCAAA
65 CACCAAA
* * *
18975681 GTGGATAGCATTTATACACCAAATTGGACAGAATTTATACACCCAATTGGATAGCAAATATATAC
1 TTGGACAGCATTTATACACCAAATTGGACAGAATTTATACACCCAATTGGACAGCAAATATATAC
18975746 ACCAAA
66 ACCAAA
* * * *
18975752 TTGGACAACATTTATACACCAAATTGGACA-ATATTTATACACCAAATTGGACAGC-ATTTTATA
1 TTGGACAGCATTTATACACCAAATTGGACAGA-ATTTATACACCCAATTGGACAGCAAATATATA
18975815 CACCAAA
65 CACCAAA
* *
18975822 TTGAACAGCATATATACACCAAATTGGACA
1 TTGGACAGCATTTATACACCAAATTGGACA
18975852 ACATATATAT
Statistics
Matches: 150, Mismatches: 19, Indels: 5
0.86 0.11 0.03
Matches are distributed among these distances:
70 41 0.27
71 108 0.72
72 1 0.01
ACGTcount: A:0.41, C:0.20, G:0.12, T:0.27
Consensus pattern (71 bp):
TTGGACAGCATTTATACACCAAATTGGACAGAATTTATACACCCAATTGGACAGCAAATATATAC
ACCAAA
Found at i:18976924 original size:43 final size:43
Alignment explanation
Indices: 18976877--18976958 Score: 107
Period size: 43 Copynumber: 1.9 Consensus size: 43
18976867 ATCACATAAC
18976877 GATGCC-ACTGTCCCAGATAG-GGTCTTACACG-TAAACACAAGTT
1 GATGCCAAC-GTCCCAGA-AGTGGTCTTACACGAT-AACACAAGTT
*
18976920 GATGCCAACGTCCCAGACGTGGTCTTACACGATAACACA
1 GATGCCAACGTCCCAGAAGTGGTCTTACACGATAACACA
18976959 TAACGGAATC
Statistics
Matches: 35, Mismatches: 1, Indels: 6
0.83 0.02 0.14
Matches are distributed among these distances:
42 1 0.03
43 31 0.89
44 3 0.09
ACGTcount: A:0.30, C:0.28, G:0.21, T:0.21
Consensus pattern (43 bp):
GATGCCAACGTCCCAGAAGTGGTCTTACACGATAACACAAGTT
Found at i:18978771 original size:48 final size:48
Alignment explanation
Indices: 18978713--18978806 Score: 116
Period size: 48 Copynumber: 2.0 Consensus size: 48
18978703 AGATTGTGAG
* * * *
18978713 CCATCATAGTTTGGCTATCTAGGATGGTAATATATTAAATGGTATAAA
1 CCATCATAGTTGGGCCATCCAGGATAGTAATATATTAAATGGTATAAA
* ** *
18978761 CCATCGTAGTTGGGCCATCCCTGATAGTAATATATTGAATGGTATA
1 CCATCATAGTTGGGCCATCCAGGATAGTAATATATTAAATGGTATA
18978807 GACTATTGTA
Statistics
Matches: 38, Mismatches: 8, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
48 38 1.00
ACGTcount: A:0.32, C:0.14, G:0.20, T:0.34
Consensus pattern (48 bp):
CCATCATAGTTGGGCCATCCAGGATAGTAATATATTAAATGGTATAAA
Found at i:18979063 original size:14 final size:15
Alignment explanation
Indices: 18979044--18979072 Score: 51
Period size: 15 Copynumber: 2.0 Consensus size: 15
18979034 GGATTTTTAT
18979044 GGTAT-AATGTGAAA
1 GGTATAAATGTGAAA
18979058 GGTATAAATGTGAAA
1 GGTATAAATGTGAAA
18979073 TTTCATGTAT
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
14 5 0.36
15 9 0.64
ACGTcount: A:0.45, C:0.00, G:0.28, T:0.28
Consensus pattern (15 bp):
GGTATAAATGTGAAA
Found at i:18980956 original size:16 final size:16
Alignment explanation
Indices: 18980935--18980968 Score: 50
Period size: 16 Copynumber: 2.1 Consensus size: 16
18980925 CCAATATTCA
* *
18980935 ATTATCATATTTGCAC
1 ATTATCACATTTACAC
18980951 ATTATCACATTTACAC
1 ATTATCACATTTACAC
18980967 AT
1 AT
18980969 ATATATTCAT
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
16 16 1.00
ACGTcount: A:0.35, C:0.21, G:0.03, T:0.41
Consensus pattern (16 bp):
ATTATCACATTTACAC
Found at i:18983720 original size:49 final size:48
Alignment explanation
Indices: 18983666--18983760 Score: 120
Period size: 49 Copynumber: 2.0 Consensus size: 48
18983656 ATAACATTTT
*
18983666 TTTATAATTTTTATAAAATTCTCTA-ATATTTTTAATCATTTGTAATAAA
1 TTTATAATTTTTATAAAATTCTATATATATTTTTAAT-ATTT-TAATAAA
* * * *
18983715 TTTATAGTTTTTCTATAATTTTATATATATTTTTAATATTTTAATA
1 TTTATAATTTTTATAAAATTCTATATATATTTTTAATATTTTAATA
18983761 TTTTATAGGC
Statistics
Matches: 40, Mismatches: 5, Indels: 3
0.83 0.10 0.06
Matches are distributed among these distances:
48 5 0.12
49 24 0.60
50 11 0.28
ACGTcount: A:0.36, C:0.04, G:0.02, T:0.58
Consensus pattern (48 bp):
TTTATAATTTTTATAAAATTCTATATATATTTTTAATATTTTAATAAA
Found at i:18989961 original size:15 final size:15
Alignment explanation
Indices: 18989929--18989962 Score: 50
Period size: 15 Copynumber: 2.3 Consensus size: 15
18989919 CAAATGCTAT
*
18989929 AATAATAAATAGAAC
1 AATAATAAATACAAC
*
18989944 AATAATAAATACATC
1 AATAATAAATACAAC
18989959 AATA
1 AATA
18989963 GCATAAAAAT
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
15 17 1.00
ACGTcount: A:0.65, C:0.09, G:0.03, T:0.24
Consensus pattern (15 bp):
AATAATAAATACAAC
Found at i:18989987 original size:13 final size:14
Alignment explanation
Indices: 18989969--18990005 Score: 51
Period size: 13 Copynumber: 2.7 Consensus size: 14
18989959 AATAGCATAA
18989969 AAATAATATAAAC-
1 AAATAATATAAACG
18989982 AAATAA-ATAAACG
1 AAATAATATAAACG
18989995 AAATGAATATA
1 AAAT-AATATA
18990006 TATGAAAGCA
Statistics
Matches: 21, Mismatches: 0, Indels: 4
0.84 0.00 0.16
Matches are distributed among these distances:
12 6 0.29
13 10 0.48
14 2 0.10
15 3 0.14
ACGTcount: A:0.68, C:0.05, G:0.05, T:0.22
Consensus pattern (14 bp):
AAATAATATAAACG
Found at i:18990653 original size:17 final size:19
Alignment explanation
Indices: 18990623--18990663 Score: 50
Period size: 18 Copynumber: 2.3 Consensus size: 19
18990613 AAATAAATTT
* *
18990623 AAAAAAAGCGAAATTG-TA
1 AAAAAAAACGAAATAGTTA
18990641 AAAAAAAAC-AAATAGTTA
1 AAAAAAAACGAAATAGTTA
18990659 AAAAA
1 AAAAA
18990664 CTACAATAAC
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
17 5 0.25
18 15 0.75
ACGTcount: A:0.71, C:0.05, G:0.10, T:0.15
Consensus pattern (19 bp):
AAAAAAAACGAAATAGTTA
Found at i:18991964 original size:132 final size:132
Alignment explanation
Indices: 18991782--18992303 Score: 875
Period size: 132 Copynumber: 4.0 Consensus size: 132
18991772 CTGCAACTGC
* * *
18991782 AGGGAGATAA-AACTTACAATCTTCAATCTATTTCACTATTGCCCAGGGAAGTAGAATTACTGGC
1 AGGGAGATAAGATCTGA-AATCTTCAATCTATTCCACTATTGCCCAGGGAAGTAGAATTACTGGC
* * * *
18991846 TTCAATGTACTCCACTGTAACCACAGGGAGGGAAAATCCGCAATCTTCGATCTGCTCCACTTCTG
65 TTCAATGTACTCCACTATAACCACAGGGAGGTAAAATCCGCCATCTTCGATCTGCTCCACTACTG
18991911 CTT
130 CTT
* * *
18991914 AGGGAGATAAGATCTGAAATCTTCAATCTATTCCACTGTTGTCCAAGGAAGTAGAATTACTGGCT
1 AGGGAGATAAGATCTGAAATCTTCAATCTATTCCACTATTGCCCAGGGAAGTAGAATTACTGGCT
*
18991979 TCAATGTACTCCACTATAACCACAGGGAGGTAAAATCCGCCATCTTCGATCTGCTCCACTGCTGC
66 TCAATGTACTCCACTATAACCACAGGGAGGTAAAATCCGCCATCTTCGATCTGCTCCACTACTGC
18992044 TT
131 TT
* *
18992046 AGGGAGATAAGATCTGAAATCTTCAATCTATTCCACTGTTGCCCAGGGAAGTAGAATTATTGGCT
1 AGGGAGATAAGATCTGAAATCTTCAATCTATTCCACTATTGCCCAGGGAAGTAGAATTACTGGCT
*
18992111 TCAATGTACTCCACTATAACCACAGGGAGGTAAAATCCGCCATCTTCGATCTGATCCACTACTGC
66 TCAATGTACTCCACTATAACCACAGGGAGGTAAAATCCGCCATCTTCGATCTGCTCCACTACTGC
18992176 TT
131 TT
*
18992178 AGGGAGATAAGATCTGAAATCTTCAATCTATTCCACTATTGCCTAGGGAAGTAGAATTACTGGCT
1 AGGGAGATAAGATCTGAAATCTTCAATCTATTCCACTATTGCCCAGGGAAGTAGAATTACTGGCT
* *
18992243 TCAATGTACTCCACTATAACCACAGGGAGGTAAAATCCGTCATATTCGATCTGCTCCACTA
66 TCAATGTACTCCACTATAACCACAGGGAGGTAAAATCCGCCATCTTCGATCTGCTCCACTA
18992304 TTAATACAGG
Statistics
Matches: 368, Mismatches: 21, Indels: 2
0.94 0.05 0.01
Matches are distributed among these distances:
132 364 0.99
133 4 0.01
ACGTcount: A:0.30, C:0.24, G:0.19, T:0.28
Consensus pattern (132 bp):
AGGGAGATAAGATCTGAAATCTTCAATCTATTCCACTATTGCCCAGGGAAGTAGAATTACTGGCT
TCAATGTACTCCACTATAACCACAGGGAGGTAAAATCCGCCATCTTCGATCTGCTCCACTACTGC
TT
Found at i:18992094 original size:44 final size:44
Alignment explanation
Indices: 18991887--18992226 Score: 128
Period size: 44 Copynumber: 7.7 Consensus size: 44
18991877 GAAAATCCGC
* * **
18991887 AATCTTCGATCTGCTCCACT-TCTGCTTAGGGAGATAAGATCTGA
1 AATCTTCAATCTACTCCACTAT-TGCCCAGGGAGATAAGATCTGA
* * * *
18991931 AATCTTCAATCTATTCCACTGTTGTCCAAGGA-AGT-AGAATTACTG-
1 AATCTTCAATCTACTCCACTATTGCCCAGGGAGA-TAAG-A-T-CTGA
* * ** * * * *
18991976 --GCTTCAATGTACTCCACTATAACCACAGGGAGGTAAAATCCGC
1 AATCTTCAATCTACTCCACTATTGCC-CAGGGAGATAAGATCTGA
* * * ** **
18992019 CATCTTCGATCTGCTCCACTGCTGCTTAGGGAGATAAGATCTGA
1 AATCTTCAATCTACTCCACTATTGCCCAGGGAGATAAGATCTGA
* *
18992063 AATCTTCAATCTATTCCACTGTTGCCCAGGGA-AGT-AGAAT-T--
1 AATCTTCAATCTACTCCACTATTGCCCAGGGAGA-TAAG-ATCTGA
* * ** * * * *
18992104 ATTGGCTTCAATGTACTCCACTATAACCACAGGGAGGTAAAATCCGC
1 AAT--CTTCAATCTACTCCACTATTGCC-CAGGGAGATAAGATCTGA
* * * **
18992151 CATCTTCGATCTGA-TCCACTACTGCTTAGGGAGATAAGATCTGA
1 AATCTTCAATCT-ACTCCACTATTGCCCAGGGAGATAAGATCTGA
* *
18992195 AATCTTCAATCTATTCCACTATTGCCTAGGGA
1 AATCTTCAATCTACTCCACTATTGCCCAGGGA
18992227 AGTAGAATTA
Statistics
Matches: 208, Mismatches: 65, Indels: 46
0.65 0.20 0.14
Matches are distributed among these distances:
41 2 0.01
42 2 0.01
43 44 0.21
44 121 0.58
45 34 0.16
46 4 0.02
47 1 0.00
ACGTcount: A:0.29, C:0.24, G:0.19, T:0.29
Consensus pattern (44 bp):
AATCTTCAATCTACTCCACTATTGCCCAGGGAGATAAGATCTGA
Found at i:18998059 original size:15 final size:15
Alignment explanation
Indices: 18998027--18998060 Score: 50
Period size: 15 Copynumber: 2.3 Consensus size: 15
18998017 CAAATGCTAT
*
18998027 AATAATAAATAGAAC
1 AATAATAAATACAAC
*
18998042 AATAATAAATACATC
1 AATAATAAATACAAC
18998057 AATA
1 AATA
18998061 GCATAAAAAT
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
15 17 1.00
ACGTcount: A:0.65, C:0.09, G:0.03, T:0.24
Consensus pattern (15 bp):
AATAATAAATACAAC
Found at i:18998085 original size:13 final size:14
Alignment explanation
Indices: 18998067--18998103 Score: 51
Period size: 13 Copynumber: 2.7 Consensus size: 14
18998057 AATAGCATAA
18998067 AAATAATATAAAC-
1 AAATAATATAAACG
18998080 AAATAA-ATAAACG
1 AAATAATATAAACG
18998093 AAATGAATATA
1 AAAT-AATATA
18998104 TATGAAAGCA
Statistics
Matches: 21, Mismatches: 0, Indels: 4
0.84 0.00 0.16
Matches are distributed among these distances:
12 6 0.29
13 10 0.48
14 2 0.10
15 3 0.14
ACGTcount: A:0.68, C:0.05, G:0.05, T:0.22
Consensus pattern (14 bp):
AAATAATATAAACG
Found at i:18998348 original size:6 final size:6
Alignment explanation
Indices: 18998339--18998369 Score: 62
Period size: 6 Copynumber: 5.2 Consensus size: 6
18998329 AAATAAATAA
18998339 ATATGT ATATGT ATATGT ATATGT ATATGT A
1 ATATGT ATATGT ATATGT ATATGT ATATGT A
18998370 AATTATAAAA
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 25 1.00
ACGTcount: A:0.35, C:0.00, G:0.16, T:0.48
Consensus pattern (6 bp):
ATATGT
Found at i:18998698 original size:3 final size:3
Alignment explanation
Indices: 18998692--18998717 Score: 52
Period size: 3 Copynumber: 8.7 Consensus size: 3
18998682 TTACAATACC
18998692 AAT AAT AAT AAT AAT AAT AAT AAT AA
1 AAT AAT AAT AAT AAT AAT AAT AAT AA
18998718 GGAGAAAATA
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 23 1.00
ACGTcount: A:0.69, C:0.00, G:0.00, T:0.31
Consensus pattern (3 bp):
AAT
Found at i:19002690 original size:22 final size:18
Alignment explanation
Indices: 19002649--19002685 Score: 74
Period size: 18 Copynumber: 2.1 Consensus size: 18
19002639 CTTTGATTTC
19002649 TTCATTAATTGTTTTTTT
1 TTCATTAATTGTTTTTTT
19002667 TTCATTAATTGTTTTTTT
1 TTCATTAATTGTTTTTTT
19002685 T
1 T
19002686 CTTTTTTGAC
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
18 19 1.00
ACGTcount: A:0.16, C:0.05, G:0.05, T:0.73
Consensus pattern (18 bp):
TTCATTAATTGTTTTTTT
Found at i:19004609 original size:28 final size:28
Alignment explanation
Indices: 19004577--19004634 Score: 107
Period size: 28 Copynumber: 2.1 Consensus size: 28
19004567 TTACCGCTGT
*
19004577 TTTATTAGCTTTTTTTGTTTATATCATG
1 TTTATTAGCTTTTGTTGTTTATATCATG
19004605 TTTATTAGCTTTTGTTGTTTATATCATG
1 TTTATTAGCTTTTGTTGTTTATATCATG
19004633 TT
1 TT
19004635 GGTTGGGGCT
Statistics
Matches: 29, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
28 29 1.00
ACGTcount: A:0.17, C:0.07, G:0.12, T:0.64
Consensus pattern (28 bp):
TTTATTAGCTTTTGTTGTTTATATCATG
Found at i:19018126 original size:12 final size:12
Alignment explanation
Indices: 19018109--19018134 Score: 52
Period size: 12 Copynumber: 2.2 Consensus size: 12
19018099 GACTCCACTT
19018109 GATTTATTAACA
1 GATTTATTAACA
19018121 GATTTATTAACA
1 GATTTATTAACA
19018133 GA
1 GA
19018135 AACCTTTATC
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 14 1.00
ACGTcount: A:0.42, C:0.08, G:0.12, T:0.38
Consensus pattern (12 bp):
GATTTATTAACA
Found at i:19025255 original size:103 final size:103
Alignment explanation
Indices: 19025072--19025272 Score: 287
Period size: 103 Copynumber: 2.0 Consensus size: 103
19025062 CATAGGTCTT
* ** * *
19025072 ACATCAAACACCTCTTTATAGGGATCAATAGATATTGTGTCAATAGATTGGAAGGAGAATTTTCC
1 ACATCAAACACCCCTCCATAGGGATCAATAGATATTGTGCCAATAGATAGGAAGGAGAATTTTCC
*
19025137 AAAAGTTATTCAAAGTATTTTCCCATGTCCACCCTTAG
66 AAAAGTCATTCAAAGTATTTTCCCATGTCCACCCTTAG
* *
19025175 ACATCAAACACCCCTCCATAAGGG-TCAATTGATATTGTGCCAATAGATAGGAAGGAGCATTTTC
1 ACATCAAACACCCCTCCAT-AGGGATCAATAGATATTGTGCCAATAGATAGGAAGGAGAATTTTC
* **
19025239 CAAAAGTCATTTAAAGTATTTTGTCATGTCCACC
65 CAAAAGTCATTCAAAGTATTTTCCCATGTCCACC
19025273 AGCAATTCAC
Statistics
Matches: 86, Mismatches: 11, Indels: 2
0.87 0.11 0.02
Matches are distributed among these distances:
103 82 0.95
104 4 0.05
ACGTcount: A:0.34, C:0.20, G:0.16, T:0.30
Consensus pattern (103 bp):
ACATCAAACACCCCTCCATAGGGATCAATAGATATTGTGCCAATAGATAGGAAGGAGAATTTTCC
AAAAGTCATTCAAAGTATTTTCCCATGTCCACCCTTAG
Found at i:19046353 original size:20 final size:20
Alignment explanation
Indices: 19046328--19046378 Score: 54
Period size: 18 Copynumber: 2.6 Consensus size: 20
19046318 ATACGAAGGT
19046328 AAGGTATCGATACCTTG-GAA
1 AAGGTATCGATACCTTGTG-A
*
19046348 AAGGTA--GATACTTTGTGA
1 AAGGTATCGATACCTTGTGA
*
19046366 CAGGTATCGATAC
1 AAGGTATCGATAC
19046379 ATTTGTTTTT
Statistics
Matches: 26, Mismatches: 2, Indels: 6
0.76 0.06 0.18
Matches are distributed among these distances:
18 14 0.54
19 1 0.04
20 11 0.42
ACGTcount: A:0.33, C:0.14, G:0.25, T:0.27
Consensus pattern (20 bp):
AAGGTATCGATACCTTGTGA
Found at i:19046923 original size:17 final size:18
Alignment explanation
Indices: 19046901--19046938 Score: 53
Period size: 17 Copynumber: 2.2 Consensus size: 18
19046891 TTTAAAATTT
19046901 ATATTT-CATATATT-ACA
1 ATATTTACA-ATATTAACA
19046918 ATATTTACAATATTAACA
1 ATATTTACAATATTAACA
19046936 ATA
1 ATA
19046939 GTCTAAGTTA
Statistics
Matches: 19, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
17 11 0.58
18 8 0.42
ACGTcount: A:0.47, C:0.11, G:0.00, T:0.42
Consensus pattern (18 bp):
ATATTTACAATATTAACA
Found at i:19054839 original size:39 final size:39
Alignment explanation
Indices: 19054784--19054861 Score: 129
Period size: 39 Copynumber: 2.0 Consensus size: 39
19054774 AGTAGCACCA
*
19054784 AAAATTTATATCTTTGATTTCTTCTGCAATTAAAATTTG
1 AAAATTTATATATTTGATTTCTTCTGCAATTAAAATTTG
* *
19054823 AAAATTTATATATTTGATTTCTTCTGTAATTAAATTTTG
1 AAAATTTATATATTTGATTTCTTCTGCAATTAAAATTTG
19054862 CAAAGAGAAG
Statistics
Matches: 36, Mismatches: 3, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
39 36 1.00
ACGTcount: A:0.33, C:0.08, G:0.08, T:0.51
Consensus pattern (39 bp):
AAAATTTATATATTTGATTTCTTCTGCAATTAAAATTTG
Found at i:19060369 original size:17 final size:19
Alignment explanation
Indices: 19060333--19060371 Score: 55
Period size: 17 Copynumber: 2.1 Consensus size: 19
19060323 AAGAGATTCG
19060333 TTTATTTTTATATGAAATAA
1 TTTATTTTTATA-GAAATAA
19060353 TTTA-TTTTATA-AAATAA
1 TTTATTTTTATAGAAATAA
19060370 TT
1 TT
19060372 ATTGTTCAAA
Statistics
Matches: 19, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
17 8 0.42
19 7 0.37
20 4 0.21
ACGTcount: A:0.41, C:0.00, G:0.03, T:0.56
Consensus pattern (19 bp):
TTTATTTTTATAGAAATAA
Found at i:19061124 original size:23 final size:23
Alignment explanation
Indices: 19061098--19061155 Score: 55
Period size: 23 Copynumber: 2.4 Consensus size: 23
19061088 GAATCACTCC
*
19061098 TAATATT-ATTTATAATAAATTTT
1 TAATATTAATTTATAA-AAATATT
* *
19061121 TAATTTTAATTTTTAAAAATATT
1 TAATATTAATTTATAAAAATATT
19061144 TAAAATATTAAT
1 T--AATATTAAT
19061156 ATAAATATTA
Statistics
Matches: 28, Mismatches: 4, Indels: 4
0.78 0.11 0.11
Matches are distributed among these distances:
23 13 0.46
24 7 0.25
25 8 0.29
ACGTcount: A:0.47, C:0.00, G:0.00, T:0.53
Consensus pattern (23 bp):
TAATATTAATTTATAAAAATATT
Found at i:19061362 original size:29 final size:27
Alignment explanation
Indices: 19061321--19061375 Score: 76
Period size: 29 Copynumber: 2.0 Consensus size: 27
19061311 TATAAAACTT
19061321 ACATATTTATA-TTTAATAACATAATTA
1 ACATATTTATATTTTAATAA-ATAATTA
19061348 ACATAATTTATTATTTTAATAAATAATT
1 ACAT-ATTTA-TATTTTAATAAATAATT
19061376 TTATATTGCA
Statistics
Matches: 25, Mismatches: 0, Indels: 4
0.86 0.00 0.14
Matches are distributed among these distances:
27 4 0.16
28 5 0.20
29 8 0.32
30 8 0.32
ACGTcount: A:0.47, C:0.05, G:0.00, T:0.47
Consensus pattern (27 bp):
ACATATTTATATTTTAATAAATAATTA
Found at i:19061945 original size:28 final size:27
Alignment explanation
Indices: 19061864--19061950 Score: 86
Period size: 28 Copynumber: 3.1 Consensus size: 27
19061854 TATATTACTC
* *
19061864 TTTTAATAATAAATATATTAAAAATTATAT
1 TTTTAATAATAAA-ATA-TGAATATT-TAT
19061894 TTTTAATAATAAAATATGAATATTTTAT
1 TTTTAATAATAAAATATGAATA-TTTAT
**
19061922 TTTT-ATAATATAAATATGTGTATTTAT
1 TTTTAATAATA-AAATATGAATATTTAT
19061949 TT
1 TT
19061951 AAATCATGCT
Statistics
Matches: 51, Mismatches: 4, Indels: 7
0.82 0.06 0.11
Matches are distributed among these distances:
27 13 0.25
28 20 0.39
29 5 0.10
30 13 0.25
ACGTcount: A:0.45, C:0.00, G:0.03, T:0.52
Consensus pattern (27 bp):
TTTTAATAATAAAATATGAATATTTAT
Found at i:19061950 original size:27 final size:28
Alignment explanation
Indices: 19061864--19061939 Score: 91
Period size: 28 Copynumber: 2.6 Consensus size: 28
19061854 TATATTACTC
* * *
19061864 TTTTAATAATAAATATATTAAAAATTATAT
1 TTTTAATAATAAA-ATA-TGAATATTTTAT
19061894 TTTTAATAATAAAATATGAATATTTTAT
1 TTTTAATAATAAAATATGAATATTTTAT
19061922 TTTT-ATAATATAAATATG
1 TTTTAATAATA-AAATATG
19061940 TGTATTTATT
Statistics
Matches: 42, Mismatches: 3, Indels: 4
0.86 0.06 0.08
Matches are distributed among these distances:
27 6 0.14
28 20 0.48
29 3 0.07
30 13 0.31
ACGTcount: A:0.49, C:0.00, G:0.03, T:0.49
Consensus pattern (28 bp):
TTTTAATAATAAAATATGAATATTTTAT
Found at i:19063434 original size:14 final size:14
Alignment explanation
Indices: 19063415--19063448 Score: 68
Period size: 14 Copynumber: 2.4 Consensus size: 14
19063405 AAAGGTTTTA
19063415 AAAAATATATATAT
1 AAAAATATATATAT
19063429 AAAAATATATATAT
1 AAAAATATATATAT
19063443 AAAAAT
1 AAAAAT
19063449 CGTATGAATG
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 20 1.00
ACGTcount: A:0.68, C:0.00, G:0.00, T:0.32
Consensus pattern (14 bp):
AAAAATATATATAT
Found at i:19063550 original size:27 final size:26
Alignment explanation
Indices: 19063494--19063571 Score: 86
Period size: 27 Copynumber: 3.0 Consensus size: 26
19063484 CTTAAAAACG
*
19063494 TATATAT-TAAAAAAATGCCTATATAT
1 TATATATAT-AAAAAATGCCTATATAC
* * *
19063520 TATATATATAAAAATATGCGTATGTGC
1 TATATATATAAAAA-ATGCCTATATAC
*
19063547 TATATATATAAAAAATGCATATATA
1 TATATATATAAAAAATGCCTATATA
19063572 AATATATTAT
Statistics
Matches: 43, Mismatches: 7, Indels: 4
0.80 0.13 0.07
Matches are distributed among these distances:
26 20 0.47
27 23 0.53
ACGTcount: A:0.49, C:0.06, G:0.08, T:0.37
Consensus pattern (26 bp):
TATATATATAAAAAATGCCTATATAC
Found at i:19063577 original size:27 final size:26
Alignment explanation
Indices: 19063494--19063588 Score: 84
Period size: 27 Copynumber: 3.5 Consensus size: 26
19063484 CTTAAAAACG
* *
19063494 TATATAT-TAAAAAAATGCCTATATAT
1 TATATATAT-AAAAAATGCATATATAA
* * **
19063520 TATATATATAAAAATATGCGTATGTGC
1 TATATATATAAAAA-ATGCATATATAA
19063547 TATATATATAAAAAATGCATATATAAA
1 TATATATATAAAAAATGCATATAT-AA
*
19063574 TATATTATGTAAAAA
1 TATA-TATATAAAAA
19063589 CCATGCGTGT
Statistics
Matches: 56, Mismatches: 9, Indels: 6
0.79 0.13 0.08
Matches are distributed among these distances:
26 20 0.36
27 27 0.48
28 9 0.16
ACGTcount: A:0.51, C:0.05, G:0.07, T:0.37
Consensus pattern (26 bp):
TATATATATAAAAAATGCATATATAA
Found at i:19064321 original size:16 final size:17
Alignment explanation
Indices: 19064288--19064321 Score: 52
Period size: 16 Copynumber: 2.1 Consensus size: 17
19064278 AATATAAAAT
19064288 AAATAAAACAAACAAAG
1 AAATAAAACAAACAAAG
*
19064305 AAATAAAA-AAACTAAG
1 AAATAAAACAAACAAAG
19064321 A
1 A
19064322 TGAAATTCAC
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
16 8 0.50
17 8 0.50
ACGTcount: A:0.76, C:0.09, G:0.06, T:0.09
Consensus pattern (17 bp):
AAATAAAACAAACAAAG
Found at i:19066670 original size:44 final size:45
Alignment explanation
Indices: 19066622--19066850 Score: 268
Period size: 51 Copynumber: 4.9 Consensus size: 45
19066612 CTTGCGTATG
19066622 ATCACTTATCACTTGTCC-CTGATCAGATAAGTGTAGCTGAAGCT
1 ATCACTTATCACTTGTCCACTGATCAGATAAGTGTAGCTGAAGCT
19066666 ATCACTTATCACTTGTCACTTGTCACTGATCAGATAAGTGTAGCTGAAGCT
1 ATCACTTATCACTTGT--C----CACTGATCAGATAAGTGTAGCTGAAGCT
* * *
19066717 ATCACTTATCACTT-TCCACTTGTCACTAATCAGATAATTGTAGCCGAATCT
1 ATCACTTATCACTTGTCCAC-TG------ATCAGATAAGTGTAGCTGAAGCT
*
19066768 ATCACTCATCACTT-TCCACTTGATCAGATAAGTGTAGCTGAAGCT
1 ATCACTTATCACTTGTCCAC-TGATCAGATAAGTGTAGCTGAAGCT
19066813 ATCACTTATCACTTGTCC-CTGATCAGATAAGTGTAGCT
1 ATCACTTATCACTTGTCCACTGATCAGATAAGTGTAGCT
19066851 AGGGGTGTTC
Statistics
Matches: 162, Mismatches: 8, Indels: 30
0.81 0.04 0.15
Matches are distributed among these distances:
44 38 0.23
45 36 0.22
46 4 0.02
48 1 0.01
50 2 0.01
51 81 0.50
ACGTcount: A:0.28, C:0.24, G:0.15, T:0.33
Consensus pattern (45 bp):
ATCACTTATCACTTGTCCACTGATCAGATAAGTGTAGCTGAAGCT
Found at i:19066698 original size:51 final size:50
Alignment explanation
Indices: 19066622--19066826 Score: 278
Period size: 51 Copynumber: 4.1 Consensus size: 50
19066612 CTTGCGTATG
*
19066622 ATCACTTATCACTTGTCCCTGATCAGATAAGTGTAGCTGAAGCTATCACTT
1 ATCACTT-TCACTTGTCACTGATCAGATAAGTGTAGCTGAAGCTATCACTT
19066673 ATCACTTGTCACTTGTCACTGATCAGATAAGTGTAGCTGAAGCTATCACTT
1 ATCACTT-TCACTTGTCACTGATCAGATAAGTGTAGCTGAAGCTATCACTT
* * * * *
19066724 ATCACTTTCCACTTGTCACTAATCAGATAATTGTAGCCGAATCTATCACTC
1 ATCACTTT-CACTTGTCACTGATCAGATAAGTGTAGCTGAAGCTATCACTT
19066775 ATCACTTT--C----CACTTGATCAGATAAGTGTAGCTGAAGCTATCACTT
1 ATCACTTTCACTTGTCAC-TGATCAGATAAGTGTAGCTGAAGCTATCACTT
19066820 ATCACTT
1 ATCACTT
19066827 GTCCCTGATC
Statistics
Matches: 140, Mismatches: 12, Indels: 10
0.86 0.07 0.06
Matches are distributed among these distances:
44 3 0.02
45 34 0.24
48 1 0.01
50 1 0.01
51 101 0.72
ACGTcount: A:0.28, C:0.24, G:0.14, T:0.34
Consensus pattern (50 bp):
ATCACTTTCACTTGTCACTGATCAGATAAGTGTAGCTGAAGCTATCACTT
Found at i:19066804 original size:45 final size:44
Alignment explanation
Indices: 19066733--19066849 Score: 155
Period size: 45 Copynumber: 2.6 Consensus size: 44
19066723 TATCACTTTC
* * * *
19066733 CACTTGTCACTAATCAGATAATTGTAGCCGAATCTATCACTCAT
1 CACTTGTCCCTGATCAGATAAGTGTAGCCGAAGCTATCACTCAT
* *
19066777 CACTT-TCCACTTGATCAGATAAGTGTAGCTGAAGCTATCACTTAT
1 CACTTGTCC-C-TGATCAGATAAGTGTAGCCGAAGCTATCACTCAT
19066822 CACTTGTCCCTGATCAGATAAGTGTAGC
1 CACTTGTCCCTGATCAGATAAGTGTAGC
19066850 TAGGGGTGTT
Statistics
Matches: 64, Mismatches: 6, Indels: 6
0.84 0.08 0.08
Matches are distributed among these distances:
43 2 0.03
44 24 0.38
45 35 0.55
46 3 0.05
ACGTcount: A:0.29, C:0.24, G:0.15, T:0.32
Consensus pattern (44 bp):
CACTTGTCCCTGATCAGATAAGTGTAGCCGAAGCTATCACTCAT
Found at i:19067050 original size:9 final size:9
Alignment explanation
Indices: 19067036--19067078 Score: 68
Period size: 9 Copynumber: 4.8 Consensus size: 9
19067026 TTTGGTTAAA
19067036 AATTACCCG
1 AATTACCCG
19067045 AATTACCCG
1 AATTACCCG
*
19067054 AATTAACCG
1 AATTACCCG
*
19067063 AATTAACCG
1 AATTACCCG
19067072 AATTACC
1 AATTACC
19067079 GAAAAATGCC
Statistics
Matches: 32, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
9 32 1.00
ACGTcount: A:0.40, C:0.28, G:0.09, T:0.23
Consensus pattern (9 bp):
AATTACCCG
Found at i:19067542 original size:46 final size:46
Alignment explanation
Indices: 19067475--19067658 Score: 341
Period size: 46 Copynumber: 4.0 Consensus size: 46
19067465 TGCACACCCC
*
19067475 TAAGTGTAGCTGAAGCTATCACTTATCACTTTGTCACTTGATCAGA
1 TAAGTGTAGCTAAAGCTATCACTTATCACTTTGTCACTTGATCAGA
*
19067521 TAAGTGTAGCTAAAGCTATCACTTATCACTTTGTCACTTGATTAGA
1 TAAGTGTAGCTAAAGCTATCACTTATCACTTTGTCACTTGATCAGA
*
19067567 TAAGTGTAGCTAAAGCTACCACTTATCACTTTGTCACTTGATCAGA
1 TAAGTGTAGCTAAAGCTATCACTTATCACTTTGTCACTTGATCAGA
19067613 TAAGTGTAGCTAAAGCTATCACTTATCACTTTGTCACTTGATCAGA
1 TAAGTGTAGCTAAAGCTATCACTTATCACTTTGTCACTTGATCAGA
19067659 AGTACTCAAA
Statistics
Matches: 133, Mismatches: 5, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
46 133 1.00
ACGTcount: A:0.30, C:0.20, G:0.16, T:0.35
Consensus pattern (46 bp):
TAAGTGTAGCTAAAGCTATCACTTATCACTTTGTCACTTGATCAGA
Found at i:19070971 original size:44 final size:44
Alignment explanation
Indices: 19070921--19071011 Score: 139
Period size: 44 Copynumber: 2.1 Consensus size: 44
19070911 AATTATGTTT
19070921 TTAGTTTACCACTTAAACTTTAATTAGTGTA-AGTTATTTTAATA
1 TTAGTTTACCACTTAAACTTTAATTAGTGTAGA-TTATTTTAATA
* * *
19070965 TTAGTTTTCCACTTAAATTTTGATTAGTGTAGATTATTTTAATA
1 TTAGTTTACCACTTAAACTTTAATTAGTGTAGATTATTTTAATA
19071009 TTA
1 TTA
19071012 TTTGACCTAC
Statistics
Matches: 43, Mismatches: 3, Indels: 2
0.90 0.06 0.04
Matches are distributed among these distances:
44 42 0.98
45 1 0.02
ACGTcount: A:0.32, C:0.08, G:0.10, T:0.51
Consensus pattern (44 bp):
TTAGTTTACCACTTAAACTTTAATTAGTGTAGATTATTTTAATA
Found at i:19079835 original size:16 final size:16
Alignment explanation
Indices: 19079811--19079864 Score: 65
Period size: 16 Copynumber: 3.4 Consensus size: 16
19079801 GAATATATAT
19079811 ATTTTCTATCATTCTA
1 ATTTTCTATCATTCTA
* *
19079827 ATTTACTATCCTTC-A
1 ATTTTCTATCATTCTA
* *
19079842 ATTTTTTATCTTTCTA
1 ATTTTCTATCATTCTA
19079858 ATTTTCT
1 ATTTTCT
19079865 TTAAAAGTTT
Statistics
Matches: 31, Mismatches: 6, Indels: 2
0.79 0.15 0.05
Matches are distributed among these distances:
15 12 0.39
16 19 0.61
ACGTcount: A:0.22, C:0.19, G:0.00, T:0.59
Consensus pattern (16 bp):
ATTTTCTATCATTCTA
Found at i:19090738 original size:16 final size:16
Alignment explanation
Indices: 19090717--19090747 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
19090707 TGGGTTGAGA
*
19090717 AAATTATTTAATTAAG
1 AAATTAATTAATTAAG
19090733 AAATTAATTAATTAA
1 AAATTAATTAATTAA
19090748 TTAAAATTAA
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
16 14 1.00
ACGTcount: A:0.55, C:0.00, G:0.03, T:0.42
Consensus pattern (16 bp):
AAATTAATTAATTAAG
Found at i:19095250 original size:19 final size:19
Alignment explanation
Indices: 19095214--19095252 Score: 51
Period size: 19 Copynumber: 2.1 Consensus size: 19
19095204 CTTTCATGCC
* **
19095214 TTGGTGTGTTGGTTGGATA
1 TTGGTGTGTTAGAGGGATA
19095233 TTGGTGTGTTAGAGGGATA
1 TTGGTGTGTTAGAGGGATA
19095252 T
1 T
19095253 GATTGATGCC
Statistics
Matches: 17, Mismatches: 3, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
19 17 1.00
ACGTcount: A:0.15, C:0.00, G:0.41, T:0.44
Consensus pattern (19 bp):
TTGGTGTGTTAGAGGGATA
Found at i:19104364 original size:6 final size:6
Alignment explanation
Indices: 19104353--19104397 Score: 90
Period size: 6 Copynumber: 7.5 Consensus size: 6
19104343 TCTCAACACC
19104353 ATACAT ATACAT ATACAT ATACAT ATACAT ATACAT ATACAT ATA
1 ATACAT ATACAT ATACAT ATACAT ATACAT ATACAT ATACAT ATA
19104398 AAGGGCCAAA
Statistics
Matches: 39, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 39 1.00
ACGTcount: A:0.51, C:0.16, G:0.00, T:0.33
Consensus pattern (6 bp):
ATACAT
Found at i:19104606 original size:6 final size:6
Alignment explanation
Indices: 19104596--19104635 Score: 62
Period size: 6 Copynumber: 6.7 Consensus size: 6
19104586 CACACACATG
* *
19104596 TATAGG TATAGA TATAGG TATAGA TATAGA TATAGA TATA
1 TATAGA TATAGA TATAGA TATAGA TATAGA TATAGA TATA
19104636 TCATATAAGG
Statistics
Matches: 31, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
6 31 1.00
ACGTcount: A:0.45, C:0.00, G:0.20, T:0.35
Consensus pattern (6 bp):
TATAGA
Found at i:19104613 original size:12 final size:12
Alignment explanation
Indices: 19104596--19104635 Score: 71
Period size: 12 Copynumber: 3.3 Consensus size: 12
19104586 CACACACATG
19104596 TATAGGTATAGA
1 TATAGGTATAGA
19104608 TATAGGTATAGA
1 TATAGGTATAGA
*
19104620 TATAGATATAGA
1 TATAGGTATAGA
19104632 TATA
1 TATA
19104636 TCATATAAGG
Statistics
Matches: 27, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
12 27 1.00
ACGTcount: A:0.45, C:0.00, G:0.20, T:0.35
Consensus pattern (12 bp):
TATAGGTATAGA
Found at i:19108360 original size:24 final size:25
Alignment explanation
Indices: 19108324--19108376 Score: 67
Period size: 24 Copynumber: 2.2 Consensus size: 25
19108314 AAATTGGGTT
*
19108324 TCTTCTTCCAGTTAAATTC-TATTA
1 TCTTCTTCCAGTTAAACTCTTATTA
19108348 TCTT-TTCCTAGTTAAACTCTTATTA
1 TCTTCTTCC-AGTTAAACTCTTATTA
19108373 -CTTC
1 TCTTC
19108377 AGGGATATTT
Statistics
Matches: 25, Mismatches: 1, Indels: 5
0.81 0.03 0.16
Matches are distributed among these distances:
23 4 0.16
24 16 0.64
25 5 0.20
ACGTcount: A:0.23, C:0.23, G:0.04, T:0.51
Consensus pattern (25 bp):
TCTTCTTCCAGTTAAACTCTTATTA
Found at i:19112983 original size:17 final size:17
Alignment explanation
Indices: 19112936--19113038 Score: 59
Period size: 17 Copynumber: 5.8 Consensus size: 17
19112926 AGGCATTTTA
19112936 TTAATTTAATATTAAAGT
1 TTAATTTAATATTAAA-T
19112954 GATT-ATCTTAATATTAAAT
1 --TTAAT-TTAATATTAAAT
*
19112973 TTAATTTAATATT-TAT
1 TTAATTTAATATTAAAT
* * *
19112989 CTACATTCTATTATTTTAA-
1 TTA-ATT-TAATA-TTAAAT
*
19113008 TAAGATTTAATATTAAAT
1 TTA-ATTTAATATTAAAT
*
19113026 TTAATCTAATATT
1 TTAATTTAATATT
19113039 TATCTTGATA
Statistics
Matches: 65, Mismatches: 11, Indels: 17
0.70 0.12 0.18
Matches are distributed among these distances:
16 4 0.06
17 26 0.40
18 12 0.18
19 9 0.14
20 14 0.22
ACGTcount: A:0.41, C:0.05, G:0.03, T:0.51
Consensus pattern (17 bp):
TTAATTTAATATTAAAT
Found at i:19113802 original size:49 final size:48
Alignment explanation
Indices: 19113676--19113926 Score: 202
Period size: 49 Copynumber: 5.2 Consensus size: 48
19113666 CCTCCGTGCA
* * * **
19113676 TCTGGGAGCAAGGTTAGTTTATTACTTTTCATAAGCCTCCCCCCATGTG
1 TCTGGGAGCAAGGTCACTTTATTACTTTCCATAAGCCT-CCCCCATACG
* * *
19113725 T-TCGGGAGTAAGGCCACTTTACTACTTTCCATAAGCCTCCCCCATACG
1 TCT-GGGAGCAAGGTCACTTTATTACTTTCCATAAGCCTCCCCCATACG
* * * * *
19113773 TCTGAGAGCAAGGTCACTTTCTTAGCTTT-CGTAAGCCTCCCCCTTACA
1 TCTGGGAGCAAGGTCACTTTATTA-CTTTCCATAAGCCTCCCCCATACG
* * ** *
19113821 TCTGGGAGCAGGGTCACTTTATTACTTTCCGTAAGCCTCATTCCATGCG
1 TCTGGGAGCAAGGTCACTTTATTACTTTCCATAAGCCTC-CCCCATACG
* * * * * * *
19113870 TCTAGGAACAAGTTTATTTTATTACTCTT-CATAAGTCTCCCCCCATGCG
1 TCTGGGAGCAAGGTCACTTTATTACT-TTCCATAAGCCT-CCCCCATACG
19113919 TCTGGGAG
1 TCTGGGAG
19113927 TAGGACATTC
Statistics
Matches: 159, Mismatches: 36, Indels: 14
0.76 0.17 0.07
Matches are distributed among these distances:
47 4 0.03
48 73 0.46
49 79 0.50
50 3 0.02
ACGTcount: A:0.21, C:0.28, G:0.19, T:0.32
Consensus pattern (48 bp):
TCTGGGAGCAAGGTCACTTTATTACTTTCCATAAGCCTCCCCCATACG
Found at i:19113808 original size:48 final size:48
Alignment explanation
Indices: 19113674--19113859 Score: 169
Period size: 48 Copynumber: 3.9 Consensus size: 48
19113664 CTCCTCCGTG
* * * * * *
19113674 CATCTGGGAGCAAGGTTAGTTTATTACTTTTCATAAGCCTCCCCCCATG
1 CATCTGAGAGCAAGGTCACTTTATTACTTTCCGTAAGCCT-CCCCCATA
** * * * * *
19113723 TGT-TCGGGAGTAAGGCCACTTTACTACTTTCCATAAGCCTCCCCCATA
1 CATCT-GAGAGCAAGGTCACTTTATTACTTTCCGTAAGCCTCCCCCATA
* * *
19113771 CGTCTGAGAGCAAGGTCACTTTCTTAGCTTT-CGTAAGCCTCCCCCTTA
1 CATCTGAGAGCAAGGTCACTTTATTA-CTTTCCGTAAGCCTCCCCCATA
* *
19113819 CATCTGGGAGCAGGGTCACTTTATTACTTTCCGTAAGCCTC
1 CATCTGAGAGCAAGGTCACTTTATTACTTTCCGTAAGCCTC
19113860 ATTCCATGCG
Statistics
Matches: 112, Mismatches: 21, Indels: 9
0.79 0.15 0.06
Matches are distributed among these distances:
47 4 0.04
48 73 0.65
49 35 0.31
ACGTcount: A:0.21, C:0.29, G:0.19, T:0.31
Consensus pattern (48 bp):
CATCTGAGAGCAAGGTCACTTTATTACTTTCCGTAAGCCTCCCCCATA
Found at i:19114972 original size:13 final size:13
Alignment explanation
Indices: 19114954--19114980 Score: 54
Period size: 13 Copynumber: 2.1 Consensus size: 13
19114944 TTGTTATTAC
19114954 CGAATAATTTTAT
1 CGAATAATTTTAT
19114967 CGAATAATTTTAT
1 CGAATAATTTTAT
19114980 C
1 C
19114981 AAAACATGTC
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 14 1.00
ACGTcount: A:0.37, C:0.11, G:0.07, T:0.44
Consensus pattern (13 bp):
CGAATAATTTTAT
Found at i:19116956 original size:12 final size:12
Alignment explanation
Indices: 19116931--19116969 Score: 51
Period size: 12 Copynumber: 3.2 Consensus size: 12
19116921 ACTCGCTTCT
* *
19116931 TTACTTACTCAC
1 TTACTTGCTTAC
*
19116943 TTACTTGTTTAC
1 TTACTTGCTTAC
19116955 TTACTTGCTTAC
1 TTACTTGCTTAC
19116967 TTA
1 TTA
19116970 AATAAATCAT
Statistics
Matches: 23, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
12 23 1.00
ACGTcount: A:0.21, C:0.23, G:0.05, T:0.51
Consensus pattern (12 bp):
TTACTTGCTTAC
Found at i:19117293 original size:50 final size:50
Alignment explanation
Indices: 19117168--19117360 Score: 183
Period size: 50 Copynumber: 3.8 Consensus size: 50
19117158 CTGATAATAC
* * * * *
19117168 ATGCCAAAGCTATGTCCCAGACATAGTCTTACATGGGATGTTTTC-TGTA-
1 ATGCCAATGCCATGTCCCAGACATGGTCTTACATGGGA-GTTCTCATATAG
* * *
19117217 CTGCCAATGCCATATCCCAGATATGGTCTTACATGGGAGTTCTCATATAG
1 ATGCCAATGCCATGTCCCAGACATGGTCTTACATGGGAGTTCTCATATAG
* * * * **
19117267 GTGCCAACGCCATGTCCCAAACATGGTCTTACATGAGACCTCTCATAATCTCAATG
1 ATGCCAATGCCATGTCCCAGACATGGTCTTACATGGGAGTTCTCAT-A--T--A-G
19117323 ATGCCAATGCCATGTCCCAGACATGGTCTTACATGGGA
1 ATGCCAATGCCATGTCCCAGACATGGTCTTACATGGGA
19117361 TCTCATTCCC
Statistics
Matches: 116, Mismatches: 20, Indels: 9
0.80 0.14 0.06
Matches are distributed among these distances:
48 5 0.04
49 35 0.30
50 38 0.33
51 1 0.01
53 1 0.01
55 1 0.01
56 35 0.30
ACGTcount: A:0.27, C:0.25, G:0.20, T:0.28
Consensus pattern (50 bp):
ATGCCAATGCCATGTCCCAGACATGGTCTTACATGGGAGTTCTCATATAG
Found at i:19122607 original size:21 final size:21
Alignment explanation
Indices: 19122567--19122608 Score: 59
Period size: 21 Copynumber: 2.0 Consensus size: 21
19122557 CCATATTTAT
*
19122567 TTTAATTTATTTGATTTTGAA
1 TTTAATTTATTTGATGTTGAA
19122588 TTTAATTTAATTT-ATGTTGAA
1 TTTAATTT-ATTTGATGTTGAA
19122609 AATAAAAAAT
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
21 15 0.79
22 4 0.21
ACGTcount: A:0.31, C:0.00, G:0.10, T:0.60
Consensus pattern (21 bp):
TTTAATTTATTTGATGTTGAA
Found at i:19126275 original size:27 final size:27
Alignment explanation
Indices: 19126245--19126297 Score: 106
Period size: 27 Copynumber: 2.0 Consensus size: 27
19126235 TATAACTTTT
19126245 TTTATTTACCAAAATATATAAAAAAAA
1 TTTATTTACCAAAATATATAAAAAAAA
19126272 TTTATTTACCAAAATATATAAAAAAA
1 TTTATTTACCAAAATATATAAAAAAA
19126298 CAAACAAAAA
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
27 26 1.00
ACGTcount: A:0.58, C:0.08, G:0.00, T:0.34
Consensus pattern (27 bp):
TTTATTTACCAAAATATATAAAAAAAA
Found at i:19126323 original size:12 final size:13
Alignment explanation
Indices: 19126291--19126323 Score: 50
Period size: 13 Copynumber: 2.6 Consensus size: 13
19126281 CAAAATATAT
19126291 AAAAAAACAAACA
1 AAAAAAACAAACA
*
19126304 AAAAAAACAGA-A
1 AAAAAAACAAACA
19126316 AAAAAAAC
1 AAAAAAAC
19126324 CTGAACTGAT
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
12 9 0.47
13 10 0.53
ACGTcount: A:0.85, C:0.12, G:0.03, T:0.00
Consensus pattern (13 bp):
AAAAAAACAAACA
Found at i:19126393 original size:27 final size:27
Alignment explanation
Indices: 19126357--19126429 Score: 101
Period size: 27 Copynumber: 2.7 Consensus size: 27
19126347 GGGTGGAGGA
19126357 AAGCAGGTTGGCGGCACCAAACAAGGG
1 AAGCAGGTTGGCGGCACCAAACAAGGG
****
19126384 AAGCAGGTTGGCGGCACCAGTGGAGGG
1 AAGCAGGTTGGCGGCACCAAACAAGGG
*
19126411 AACCAGGTTGGCGGCACCA
1 AAGCAGGTTGGCGGCACCA
19126430 CCCTTGAATT
Statistics
Matches: 41, Mismatches: 5, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
27 41 1.00
ACGTcount: A:0.27, C:0.23, G:0.40, T:0.10
Consensus pattern (27 bp):
AAGCAGGTTGGCGGCACCAAACAAGGG
Found at i:19126499 original size:18 final size:17
Alignment explanation
Indices: 19126476--19126553 Score: 72
Period size: 18 Copynumber: 4.5 Consensus size: 17
19126466 GAAGGAGAGG
19126476 GGAAG-AAGAAGAAAGAAA
1 GGAAGAAAGAA-AAAG-AA
19126494 GGAAGAAAGAAAAAGAA
1 GGAAGAAAGAAAAAGAA
* *
19126511 GG-A-AAAGGAAAGGAGA
1 GGAAGAAAGAAAAAGA-A
19126527 GGAAAGAAAGAAAAAGAA
1 GG-AAGAAAGAAAAAGAA
19126545 GGAAAGAAA
1 GG-AAGAAA
19126554 AGGAAATGGG
Statistics
Matches: 51, Mismatches: 4, Indels: 10
0.78 0.06 0.15
Matches are distributed among these distances:
15 9 0.18
16 4 0.08
17 4 0.08
18 20 0.39
19 14 0.27
ACGTcount: A:0.67, C:0.00, G:0.33, T:0.00
Consensus pattern (17 bp):
GGAAGAAAGAAAAAGAA
Found at i:19126509 original size:10 final size:10
Alignment explanation
Indices: 19126478--19126549 Score: 54
Period size: 10 Copynumber: 6.6 Consensus size: 10
19126468 AGGAGAGGGG
*
19126478 AAGAAGAAGA
1 AAGAAAAAGA
19126488 AAGAAAGGAAGA
1 AAGAAA--AAGA
19126500 AAGAAAAAGA
1 AAGAAAAAGA
* *
19126510 AGGAAAAGGA
1 AAGAAAAAGA
19126520 AAGGAGAGGAAAGA
1 AA-GA-A--AAAGA
19126534 AAGAAAAAGA
1 AAGAAAAAGA
*
19126544 AGGAAA
1 AAGAAA
19126550 GAAAAGGAAA
Statistics
Matches: 50, Mismatches: 6, Indels: 12
0.74 0.09 0.18
Matches are distributed among these distances:
10 28 0.56
11 2 0.04
12 12 0.24
13 2 0.04
14 6 0.12
ACGTcount: A:0.68, C:0.00, G:0.32, T:0.00
Consensus pattern (10 bp):
AAGAAAAAGA
Found at i:19126509 original size:22 final size:23
Alignment explanation
Indices: 19126478--19126686 Score: 74
Period size: 24 Copynumber: 8.8 Consensus size: 23
19126468 AGGAGAGGGG
*
19126478 AAGAAGAAGAAAG-AAAGGAAGA
1 AAGAAAAAGAAAGAAAAGGAAGA
*
19126500 AAGAAAAAGAAGGAAAAGGAA-A
1 AAGAAAAAGAAAGAAAAGGAAGA
* * *
19126522 GGAGAGGAAAGAAAGAAAAAGAAGGA
1 -AAGA-AAAAGAAAGAAAAGGAA-GA
* *
19126548 AAGAAAAGGAAATGGGACGAAAGAAAGA
1 AAGAAAAAGAAA---GA--AAAGGAAGA
*
19126576 AA-AATAAGGAAAGAAAAGGAA-A
1 AAGAA-AAAGAAAGAAAAGGAAGA
** * **
19126598 GGGGAGGAAAGAAAGAAAAATAAGGA
1 -AAGA-AAAAGAAAGAAAAGGAA-GA
* *
19126624 AAGAAAAGGAAAGGAGAA-G-AGA
1 AAGAAAAAGAAA-GAAAAGGAAGA
* **
19126646 AAAAAAAAGAAGAGCGAAGGAAGA
1 AAGAAAAAGAA-AGAAAAGGAAGA
19126670 AA-AAAAAGAAA-AAAAGG
1 AAGAAAAAGAAAGAAAAGG
19126687 TAATTTTTAT
Statistics
Matches: 138, Mismatches: 29, Indels: 41
0.66 0.14 0.20
Matches are distributed among these distances:
21 4 0.03
22 29 0.21
23 27 0.20
24 45 0.33
25 11 0.08
26 2 0.01
27 4 0.03
28 11 0.08
29 5 0.04
ACGTcount: A:0.67, C:0.01, G:0.31, T:0.01
Consensus pattern (23 bp):
AAGAAAAAGAAAGAAAAGGAAGA
Found at i:19126515 original size:14 final size:13
Alignment explanation
Indices: 19126481--19126554 Score: 51
Period size: 14 Copynumber: 5.1 Consensus size: 13
19126471 AGAGGGGAAG
19126481 AAGAAGAAAG-AA
1 AAGAAGAAAGAAA
*
19126493 AGGAAGAAAGAAA
1 AAGAAGAAAGAAA
19126506 AAGAAGGAAAAGGAAA
1 AAGAA-G-AAA-GAAA
19126522 GGAGAGGAAAGAAAGAAA
1 --A-A-G-AAGAAAGAAA
19126540 AAGAAGGAAAGAAA
1 AAGAA-GAAAGAAA
19126554 A
1 A
19126555 GGAAATGGGA
Statistics
Matches: 50, Mismatches: 2, Indels: 18
0.71 0.03 0.26
Matches are distributed among these distances:
12 9 0.18
13 8 0.16
14 11 0.22
15 4 0.08
16 5 0.10
18 5 0.10
19 4 0.08
20 2 0.04
21 2 0.04
ACGTcount: A:0.69, C:0.00, G:0.31, T:0.00
Consensus pattern (13 bp):
AAGAAGAAAGAAA
Found at i:19126554 original size:38 final size:38
Alignment explanation
Indices: 19126496--19126657 Score: 212
Period size: 38 Copynumber: 4.4 Consensus size: 38
19126486 GAAAGAAAGG
19126496 AAGAAAGAAAAAGAA-G---GAAAAGGAAAGGAGAGGA
1 AAGAAAGAAAAAGAAGGAAAGAAAAGGAAAGGAGAGGA
*
19126530 AAGAAAGAAAAAGAAGGAAAGAAAAGGAAATGG-GACGA
1 AAGAAAGAAAAAGAAGGAAAGAAAAGGAAA-GGAGAGGA
* *
19126568 AAGAAAGAAAAATAAGGAAAGAAAAGGAAAGGGGAGGA
1 AAGAAAGAAAAAGAAGGAAAGAAAAGGAAAGGAGAGGA
*
19126606 AAGAAAGAAAAATAAGGAAAGAAAAGGAAAGGAGA--A
1 AAGAAAGAAAAAGAAGGAAAGAAAAGGAAAGGAGAGGA
* *
19126642 GAGAAAAAAAAAGAAG
1 AAGAAAGAAAAAGAAG
19126658 AGCGAAGGAA
Statistics
Matches: 115, Mismatches: 7, Indels: 10
0.87 0.05 0.08
Matches are distributed among these distances:
34 15 0.13
35 1 0.01
36 14 0.12
37 2 0.02
38 81 0.70
39 2 0.02
ACGTcount: A:0.66, C:0.01, G:0.31, T:0.02
Consensus pattern (38 bp):
AAGAAAGAAAAAGAAGGAAAGAAAAGGAAAGGAGAGGA
Found at i:19126556 original size:10 final size:10
Alignment explanation
Indices: 19126498--19126636 Score: 82
Period size: 10 Copynumber: 14.5 Consensus size: 10
19126488 AAGAAAGGAA
*
19126498 GAAAGAAAAA
1 GAAAGAAAAG
*
19126508 GAAGGAAAAG
1 GAAAGAAAAG
* *
19126518 GAAAGGAGAG
1 GAAAGAAAAG
19126528 GAAAG-AAA-
1 GAAAGAAAAG
19126536 GAAA-AAGAAG
1 GAAAGAA-AAG
19126546 GAAAGAAAAG
1 GAAAGAAAAG
** *
19126556 GAAATG-GGAC
1 GAAA-GAAAAG
19126566 GAAAG-AAA-
1 GAAAGAAAAG
19126574 GAAA-AATAAG
1 GAAAGAA-AAG
19126584 GAAAGAAAAG
1 GAAAGAAAAG
***
19126594 GAAAGGGGAG
1 GAAAGAAAAG
19126604 GAAAG-AAA-
1 GAAAGAAAAG
19126612 GAAA-AATAAG
1 GAAAGAA-AAG
19126622 GAAAGAAAAG
1 GAAAGAAAAG
19126632 GAAAG
1 GAAAG
19126637 GAGAAGAGAA
Statistics
Matches: 100, Mismatches: 16, Indels: 26
0.70 0.11 0.18
Matches are distributed among these distances:
8 15 0.15
9 11 0.11
10 67 0.67
11 7 0.07
ACGTcount: A:0.65, C:0.01, G:0.32, T:0.02
Consensus pattern (10 bp):
GAAAGAAAAG
Found at i:19127399 original size:19 final size:18
Alignment explanation
Indices: 19127359--19127409 Score: 66
Period size: 18 Copynumber: 2.8 Consensus size: 18
19127349 AAAATATATA
**
19127359 TAATATTTTGGTATTTTT
1 TAATATTTTATTATTTTT
19127377 TAATATTTTATTATTTTT
1 TAATATTTTATTATTTTT
*
19127395 GTAATGTTTTATTAT
1 -TAATATTTTATTAT
19127410 GGGTTTTATA
Statistics
Matches: 29, Mismatches: 3, Indels: 1
0.88 0.09 0.03
Matches are distributed among these distances:
18 16 0.55
19 13 0.45
ACGTcount: A:0.25, C:0.00, G:0.08, T:0.67
Consensus pattern (18 bp):
TAATATTTTATTATTTTT
Found at i:19127496 original size:27 final size:28
Alignment explanation
Indices: 19127446--19127514 Score: 106
Period size: 27 Copynumber: 2.5 Consensus size: 28
19127436 AATAAAAAAA
19127446 TTACCAAAATAT-TATAACTTTTTTTTAT
1 TTACCAAAATATATATAAC-TTTTTTTAT
*
19127474 TTACCAAAAAATATATAA-TTTTTTTAT
1 TTACCAAAATATATATAACTTTTTTTAT
19127501 TTACCAAAATATAT
1 TTACCAAAATATAT
19127515 CAAAAAAAGT
Statistics
Matches: 38, Mismatches: 2, Indels: 3
0.88 0.05 0.07
Matches are distributed among these distances:
27 22 0.58
28 11 0.29
29 5 0.13
ACGTcount: A:0.42, C:0.10, G:0.00, T:0.48
Consensus pattern (28 bp):
TTACCAAAATATATATAACTTTTTTTAT
Found at i:19127539 original size:18 final size:18
Alignment explanation
Indices: 19127516--19127551 Score: 56
Period size: 17 Copynumber: 2.1 Consensus size: 18
19127506 AAAATATATC
*
19127516 AAAAAAAGTAAA-AAAAT
1 AAAAAAAATAAAGAAAAT
19127533 AAAAAAAATAAAGAAAAT
1 AAAAAAAATAAAGAAAAT
19127551 A
1 A
19127552 GGAAAAACAC
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
17 11 0.65
18 6 0.35
ACGTcount: A:0.83, C:0.00, G:0.06, T:0.11
Consensus pattern (18 bp):
AAAAAAAATAAAGAAAAT
Found at i:19127558 original size:18 final size:18
Alignment explanation
Indices: 19127516--19127551 Score: 56
Period size: 18 Copynumber: 2.0 Consensus size: 18
19127506 AAAATATATC
19127516 AAAAAAAGTAAAAAAATA
1 AAAAAAAGTAAAAAAATA
19127534 AAAAAAA-TAAAGAAAATA
1 AAAAAAAGTAAA-AAAATA
19127552 GGAAAAACAC
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
17 4 0.24
18 13 0.76
ACGTcount: A:0.83, C:0.00, G:0.06, T:0.11
Consensus pattern (18 bp):
AAAAAAAGTAAAAAAATA
Found at i:19128882 original size:17 final size:17
Alignment explanation
Indices: 19128860--19128896 Score: 74
Period size: 17 Copynumber: 2.2 Consensus size: 17
19128850 ATGGGGTAAG
19128860 ATGCTATTCTAATATTC
1 ATGCTATTCTAATATTC
19128877 ATGCTATTCTAATATTC
1 ATGCTATTCTAATATTC
19128894 ATG
1 ATG
19128897 ACATCTTATT
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
17 20 1.00
ACGTcount: A:0.30, C:0.16, G:0.08, T:0.46
Consensus pattern (17 bp):
ATGCTATTCTAATATTC
Found at i:19130346 original size:27 final size:27
Alignment explanation
Indices: 19130285--19130367 Score: 103
Period size: 27 Copynumber: 3.1 Consensus size: 27
19130275 GGTTGGCAGG
*
19130285 ACTGGTGCCGCCAACCTGGTTCCCTCC
1 ACTGGTGCCGCCAACCTGCTTCCCTCC
* **
19130312 ACTAGTGCCGCCAACCTGCTTCCCTTG
1 ACTGGTGCCGCCAACCTGCTTCCCTCC
** *
19130339 TTTGGTGCTGCCAACCTGCTTCCCTCC
1 ACTGGTGCCGCCAACCTGCTTCCCTCC
19130366 AC
1 AC
19130368 CCAGGGAGTT
Statistics
Matches: 44, Mismatches: 12, Indels: 0
0.79 0.21 0.00
Matches are distributed among these distances:
27 44 1.00
ACGTcount: A:0.12, C:0.42, G:0.19, T:0.27
Consensus pattern (27 bp):
ACTGGTGCCGCCAACCTGCTTCCCTCC
Found at i:19130457 original size:21 final size:21
Alignment explanation
Indices: 19130432--19130474 Score: 86
Period size: 21 Copynumber: 2.0 Consensus size: 21
19130422 TTATTTTTTG
19130432 ATATATTTTGGTAAATAAAAA
1 ATATATTTTGGTAAATAAAAA
19130453 ATATATTTTGGTAAATAAAAA
1 ATATATTTTGGTAAATAAAAA
19130474 A
1 A
19130475 AGTTATAACA
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
21 22 1.00
ACGTcount: A:0.53, C:0.00, G:0.09, T:0.37
Consensus pattern (21 bp):
ATATATTTTGGTAAATAAAAA
Found at i:19131175 original size:14 final size:14
Alignment explanation
Indices: 19131156--19131186 Score: 53
Period size: 14 Copynumber: 2.2 Consensus size: 14
19131146 TTTGATTGGT
*
19131156 GGAAAATATTTTCC
1 GGAAAATATTTTAC
19131170 GGAAAATATTTTAC
1 GGAAAATATTTTAC
19131184 GGA
1 GGA
19131187 TTTTCCAGTG
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
14 16 1.00
ACGTcount: A:0.39, C:0.10, G:0.19, T:0.32
Consensus pattern (14 bp):
GGAAAATATTTTAC
Found at i:19131684 original size:27 final size:27
Alignment explanation
Indices: 19131597--19131695 Score: 96
Period size: 27 Copynumber: 3.6 Consensus size: 27
19131587 AAAGGTATAT
19131597 TTTCTTGTCCATAGTTTTGTGAATCGG
1 TTTCTTGTCCATAGTTTTGTGAATCGG
* * * *
19131624 TTTCTGGGT---TAGTTCCTTTATGTTATTGG
1 TTTCT-TGTCCATAG-T--TTTGTG-AATCGG
19131653 TTTCTTGTCCATAGTTTTGTGAATCGG
1 TTTCTTGTCCATAGTTTTGTGAATCGG
19131680 TTTCTTGTCCATAGTT
1 TTTCTTGTCCATAGTT
19131696 AGAAAGATTT
Statistics
Matches: 56, Mismatches: 8, Indels: 16
0.70 0.10 0.20
Matches are distributed among these distances:
25 3 0.05
26 1 0.02
27 25 0.45
28 14 0.25
29 9 0.16
30 1 0.02
31 3 0.05
ACGTcount: A:0.13, C:0.14, G:0.21, T:0.52
Consensus pattern (27 bp):
TTTCTTGTCCATAGTTTTGTGAATCGG
Found at i:19133791 original size:26 final size:26
Alignment explanation
Indices: 19133762--19133819 Score: 107
Period size: 26 Copynumber: 2.2 Consensus size: 26
19133752 CATCCTCAAA
19133762 CTATAATCTAGATATTAAATTGGTCT
1 CTATAATCTAGATATTAAATTGGTCT
*
19133788 CTATAATCTAGATTTTAAATTGGTCT
1 CTATAATCTAGATATTAAATTGGTCT
19133814 CTATAA
1 CTATAA
19133820 ATTTTGATAT
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:0.34, C:0.12, G:0.10, T:0.43
Consensus pattern (26 bp):
CTATAATCTAGATATTAAATTGGTCT
Found at i:19134113 original size:32 final size:32
Alignment explanation
Indices: 19134077--19134155 Score: 97
Period size: 33 Copynumber: 2.4 Consensus size: 32
19134067 ACAACTTTTC
*
19134077 CAGAAAATATTTTCA-AGAAATCTATCAAACAA
1 CAGAAAATATTTTCACAG-AATCAATCAAACAA
* *
19134109 CAGAAAATATTTTACACAGATTCAATCAAACAC
1 CAGAAAATATTTT-CACAGAATCAATCAAACAA
*
19134142 CAAAAAATATTTTC
1 CAGAAAATATTTTC
19134156 CAGTAAATTA
Statistics
Matches: 41, Mismatches: 4, Indels: 4
0.84 0.08 0.08
Matches are distributed among these distances:
32 14 0.34
33 25 0.61
34 2 0.05
ACGTcount: A:0.51, C:0.18, G:0.05, T:0.27
Consensus pattern (32 bp):
CAGAAAATATTTTCACAGAATCAATCAAACAA
Found at i:19142408 original size:20 final size:19
Alignment explanation
Indices: 19142373--19142421 Score: 55
Period size: 20 Copynumber: 2.6 Consensus size: 19
19142363 TTTTTTTTAG
*
19142373 ATTTTTTTA-CTTTTTAAC
1 ATTTTTTTATATTTTTAAC
**
19142391 ATTTTTTTATATTCTTTAGG
1 ATTTTTTTATATT-TTTAAC
19142411 ATTTTTTTATA
1 ATTTTTTTATA
19142422 ATTTCTATAT
Statistics
Matches: 26, Mismatches: 3, Indels: 2
0.84 0.10 0.06
Matches are distributed among these distances:
18 9 0.35
19 2 0.08
20 15 0.58
ACGTcount: A:0.22, C:0.06, G:0.04, T:0.67
Consensus pattern (19 bp):
ATTTTTTTATATTTTTAAC
Found at i:19142465 original size:17 final size:17
Alignment explanation
Indices: 19142443--19142485 Score: 50
Period size: 18 Copynumber: 2.5 Consensus size: 17
19142433 TGTTAAAAAA
*
19142443 TATAAATTTTGGATTTT
1 TATAAATTTTGGAATTT
*
19142460 TATAAATATTTTGAATTT
1 TATAAAT-TTTGGAATTT
*
19142478 TAAAAATT
1 TATAAATT
19142486 ATTTTGAAAA
Statistics
Matches: 22, Mismatches: 3, Indels: 2
0.81 0.11 0.07
Matches are distributed among these distances:
17 8 0.36
18 14 0.64
ACGTcount: A:0.40, C:0.00, G:0.07, T:0.53
Consensus pattern (17 bp):
TATAAATTTTGGAATTT
Found at i:19142470 original size:19 final size:20
Alignment explanation
Indices: 19142448--19142503 Score: 62
Period size: 19 Copynumber: 2.9 Consensus size: 20
19142438 AAAAATATAA
* *
19142448 ATTTTGGATTTTTATAAA-T
1 ATTTTGGAATTTTAAAAATT
19142467 ATTTT-GAATTTTAAAAATT
1 ATTTTGGAATTTTAAAAATT
*
19142486 ATTTTGAAAATTTTAAAA
1 ATTTTG-GAATTTTAAAA
19142504 TTACCTGTGT
Statistics
Matches: 31, Mismatches: 3, Indels: 4
0.82 0.08 0.11
Matches are distributed among these distances:
18 10 0.32
19 11 0.35
21 10 0.32
ACGTcount: A:0.41, C:0.00, G:0.07, T:0.52
Consensus pattern (20 bp):
ATTTTGGAATTTTAAAAATT
Found at i:19142499 original size:21 final size:18
Alignment explanation
Indices: 19142457--19142503 Score: 58
Period size: 21 Copynumber: 2.4 Consensus size: 18
19142447 AATTTTGGAT
*
19142457 TTTTATAAATATTTTGAA
1 TTTTAAAAATATTTTGAA
19142475 TTTTAAAAATTATTTTGAAAA
1 TTTTAAAAA-TATTTTG--AA
19142496 TTTTAAAA
1 TTTTAAAA
19142504 TTACCTGTGT
Statistics
Matches: 25, Mismatches: 1, Indels: 3
0.86 0.03 0.10
Matches are distributed among these distances:
18 8 0.32
19 7 0.28
21 10 0.40
ACGTcount: A:0.45, C:0.00, G:0.04, T:0.51
Consensus pattern (18 bp):
TTTTAAAAATATTTTGAA
Found at i:19148924 original size:27 final size:27
Alignment explanation
Indices: 19148869--19148925 Score: 80
Period size: 27 Copynumber: 2.1 Consensus size: 27
19148859 ATTTTAAAAG
* *
19148869 ATTCTTTTAACTATAACTTAGGGATAA
1 ATTCTTTTAACTATAACTTAAGAATAA
19148896 ATTCTTTTAACTA-AACTTAAGAATCAA
1 ATTCTTTTAACTATAACTTAAGAAT-AA
19148923 ATT
1 ATT
19148926 AGCTATTAAC
Statistics
Matches: 27, Mismatches: 2, Indels: 2
0.87 0.06 0.06
Matches are distributed among these distances:
26 9 0.33
27 18 0.67
ACGTcount: A:0.40, C:0.12, G:0.07, T:0.40
Consensus pattern (27 bp):
ATTCTTTTAACTATAACTTAAGAATAA
Found at i:19149332 original size:20 final size:21
Alignment explanation
Indices: 19149304--19149348 Score: 58
Period size: 20 Copynumber: 2.2 Consensus size: 21
19149294 ATGAAACCAA
19149304 TTTATTTTTTC-TAATTTTCAT
1 TTTATTTTTTCATAATTTT-AT
*
19149325 TTTA-TTTTTCATTATTTTAT
1 TTTATTTTTTCATAATTTTAT
19149345 TTTA
1 TTTA
19149349 AAGTTCTCAC
Statistics
Matches: 22, Mismatches: 1, Indels: 3
0.85 0.04 0.12
Matches are distributed among these distances:
20 12 0.55
21 10 0.45
ACGTcount: A:0.20, C:0.07, G:0.00, T:0.73
Consensus pattern (21 bp):
TTTATTTTTTCATAATTTTAT
Found at i:19152062 original size:77 final size:78
Alignment explanation
Indices: 19151914--19152070 Score: 298
Period size: 77 Copynumber: 2.0 Consensus size: 78
19151904 TCAGTCTTAG
19151914 TTATTAGCAAATTTTGAAAACAAAGTACTGACATCTCAAATGATAGGAAATCTTAGAAATAACAA
1 TTATTAGCAAATTTTGAAAACAAAGTACTGACATCTCAAATGATAGGAAATCTTAGAAATAACAA
19151979 TTCTGTTAATACT
66 TTCTGTTAATACT
*
19151992 TTATTAGCAAATTTTGAAAACAAAGTACTGACATTTC-AATGATAGGAAATCTTAGAAATAACAA
1 TTATTAGCAAATTTTGAAAACAAAGTACTGACATCTCAAATGATAGGAAATCTTAGAAATAACAA
19152056 TTCTGTTAATACT
66 TTCTGTTAATACT
19152069 TT
1 TT
19152071 CTTCCAATAC
Statistics
Matches: 78, Mismatches: 1, Indels: 1
0.98 0.01 0.01
Matches are distributed among these distances:
77 42 0.54
78 36 0.46
ACGTcount: A:0.43, C:0.12, G:0.11, T:0.34
Consensus pattern (78 bp):
TTATTAGCAAATTTTGAAAACAAAGTACTGACATCTCAAATGATAGGAAATCTTAGAAATAACAA
TTCTGTTAATACT
Done.