Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Gbar_A13
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: 109233746
ACGTcount: A:0.32, C:0.17, G:0.17, T:0.32
Warning! 2708888 characters in sequence are not A, C, G, or T
File 38 of 332
Found at i:11625687 original size:6 final size:6
Alignment explanation
Indices: 11625648--11625709 Score: 52
Period size: 6 Copynumber: 10.0 Consensus size: 6
11625638 AAGAAGTCTA
* * * *
11625648 AAAACAT AACAAT AAACAT AAAAAT AGAAAT AAAACT AAAAAT AAAAAAT
1 AAAA-AT AAAAAT AAAAAT AAAAAT AAAAAT AAAAAT AAAAAT -AAAAAT
* *
11625698 TAAAAT TAAAAT
1 AAAAAT AAAAAT
11625710 TAAATGATAA
Statistics
Matches: 45, Mismatches: 9, Indels: 3
0.79 0.16 0.05
Matches are distributed among these distances:
6 36 0.80
7 9 0.20
ACGTcount: A:0.73, C:0.06, G:0.02, T:0.19
Consensus pattern (6 bp):
AAAAAT
Found at i:11625697 original size:19 final size:20
Alignment explanation
Indices: 11625661--11625713 Score: 56
Period size: 20 Copynumber: 2.7 Consensus size: 20
11625651 ACATAACAAT
*
11625661 AAACATAAAAAT-AGAAA-TA
1 AAAC-TAAAAATAAAAAATTA
11625680 AAACTAAAAATAAAAAATTA
1 AAACTAAAAATAAAAAATTA
* *
11625700 AAATTAAAATTAAA
1 AAACTAAAAATAAA
11625714 TGATAAATAG
Statistics
Matches: 29, Mismatches: 3, Indels: 3
0.83 0.09 0.09
Matches are distributed among these distances:
18 7 0.24
19 8 0.28
20 14 0.48
ACGTcount: A:0.74, C:0.04, G:0.02, T:0.21
Consensus pattern (20 bp):
AAACTAAAAATAAAAAATTA
Found at i:11627332 original size:3 final size:3
Alignment explanation
Indices: 11627318--11627363 Score: 51
Period size: 3 Copynumber: 15.7 Consensus size: 3
11627308 TGAATAAATA
* *
11627318 AAT AAT ATT AAT AAT AGA- AAT AAT AAT AA- AAT AAT AAT TAT AAT
1 AAT AAT AAT AAT AAT A-AT AAT AAT AAT AAT AAT AAT AAT AAT AAT
11627362 AA
1 AA
11627364 AAAATAAAAT
Statistics
Matches: 36, Mismatches: 4, Indels: 6
0.78 0.09 0.13
Matches are distributed among these distances:
2 3 0.08
3 32 0.89
4 1 0.03
ACGTcount: A:0.65, C:0.00, G:0.02, T:0.33
Consensus pattern (3 bp):
AAT
Found at i:11627343 original size:29 final size:28
Alignment explanation
Indices: 11627310--11627371 Score: 76
Period size: 29 Copynumber: 2.2 Consensus size: 28
11627300 TAAAGGAATG
11627310 AATAAAT-AAATAAT-ATTAATAATAGAAA
1 AATAAATAAAATAATAATT-ATAATA-AAA
11627338 TAAT-AATAAAATAATAATTATAATAAAA
1 -AATAAATAAAATAATAATTATAATAAAA
11627366 AATAAA
1 AATAAA
11627372 ATGGGTAAAG
Statistics
Matches: 30, Mismatches: 0, Indels: 7
0.81 0.00 0.19
Matches are distributed among these distances:
27 3 0.10
28 8 0.27
29 16 0.53
30 3 0.10
ACGTcount: A:0.69, C:0.00, G:0.02, T:0.29
Consensus pattern (28 bp):
AATAAATAAAATAATAATTATAATAAAA
Found at i:11627346 original size:32 final size:30
Alignment explanation
Indices: 11627275--11627370 Score: 76
Period size: 30 Copynumber: 3.2 Consensus size: 30
11627265 AAGCAGTAAG
* *
11627275 AATAACTAATAAACATAAT-ATGAT-ATAAAGG
1 AATAA-TAATAAA-ATAATAATTATAATAAA-A
*
11627306 AATGAATAA-ATAAATAAT-ATTAATAAT-AGA
1 AAT-AATAATA-AAATAATAATT-ATAATAAAA
11627336 AATAATAATAAAATAATAATTATAATAAAA
1 AATAATAATAAAATAATAATTATAATAAAA
11627366 AATAA
1 AATAA
11627371 AATGGGTAAA
Statistics
Matches: 54, Mismatches: 4, Indels: 15
0.74 0.05 0.21
Matches are distributed among these distances:
29 17 0.31
30 22 0.41
31 11 0.20
32 4 0.07
ACGTcount: A:0.65, C:0.02, G:0.05, T:0.28
Consensus pattern (30 bp):
AATAATAATAAAATAATAATTATAATAAAA
Found at i:11627351 original size:11 final size:12
Alignment explanation
Indices: 11627326--11627355 Score: 53
Period size: 11 Copynumber: 2.6 Consensus size: 12
11627316 TAAATAATAT
11627326 TAATAATAGAAA
1 TAATAATAGAAA
11627338 TAATAATA-AAA
1 TAATAATAGAAA
11627349 TAATAAT
1 TAATAAT
11627356 TATAATAAAA
Statistics
Matches: 18, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
11 10 0.56
12 8 0.44
ACGTcount: A:0.67, C:0.00, G:0.03, T:0.30
Consensus pattern (12 bp):
TAATAATAGAAA
Found at i:11627781 original size:21 final size:21
Alignment explanation
Indices: 11627732--11627771 Score: 80
Period size: 21 Copynumber: 1.9 Consensus size: 21
11627722 AAGGCGCACG
11627732 CCCGTGTGGAAGGGCAACACA
1 CCCGTGTGGAAGGGCAACACA
11627753 CCCGTGTGGAAGGGCAACA
1 CCCGTGTGGAAGGGCAACA
11627772 TGCTCGTGTG
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
21 19 1.00
ACGTcount: A:0.28, C:0.28, G:0.35, T:0.10
Consensus pattern (21 bp):
CCCGTGTGGAAGGGCAACACA
Found at i:11629063 original size:46 final size:46
Alignment explanation
Indices: 11628906--11629160 Score: 182
Period size: 46 Copynumber: 5.5 Consensus size: 46
11628896 ATACCGATGC
* * * **
11628906 CATGTCCCAGACATGGTCTTGCACTGGCTCTCA-CGTTAA-GTCGGTG
1 CATGTCCCAGACAT-GTCTTACACTGGCTCTCATC-TCAAGGCCAATG
* * * *
11628952 CCATGTCCCAGACATGGTCTTACACTGACACATCATGT--A-GCCGATG
1 -CATGTCCCAGACAT-GTCTTACACTGGCTC-TCATCTCAAGGCCAATG
* * *
11628998 CATGTCCCAGACATATCTTACACTGGCT-TATATCTCGAGGCCAATG
1 CATGTCCCAGACATGTCTTACACTGGCTCT-CATCTCAAGGCCAATG
* * * *
11629044 CATGTCCCAAACATGTCTTACACTAGCTCTCATCTCAATGCCGATG
1 CATGTCCCAGACATGTCTTACACTGGCTCTCATCTCAAGGCCAATG
* * * **
11629090 CCATATCCCAGACATGGTCTTACACTGGCTCTCATAAT-ATGGCTGATG
1 -CATGTCCCAGACAT-GTCTTACACTGGCTCTCAT-CTCAAGGCCAATG
*
11629138 CACGTCCCAGACATGTCTTACAC
1 CATGTCCCAGACATGTCTTACAC
11629161 CAGCCCACAA
Statistics
Matches: 170, Mismatches: 28, Indels: 21
0.78 0.13 0.10
Matches are distributed among these distances:
42 1 0.01
43 3 0.02
44 11 0.06
45 15 0.09
46 58 0.34
47 52 0.31
48 29 0.17
49 1 0.01
ACGTcount: A:0.24, C:0.30, G:0.18, T:0.27
Consensus pattern (46 bp):
CATGTCCCAGACATGTCTTACACTGGCTCTCATCTCAAGGCCAATG
Found at i:11637632 original size:33 final size:33
Alignment explanation
Indices: 11637595--11637658 Score: 110
Period size: 33 Copynumber: 1.9 Consensus size: 33
11637585 GTTAAGTACG
11637595 GATTCTAGACCTCAAGAAACCTTTTTGGGGACA
1 GATTCTAGACCTCAAGAAACCTTTTTGGGGACA
* *
11637628 GATTCTAGGCCTCAAGAACCCTTTTTGGGGA
1 GATTCTAGACCTCAAGAAACCTTTTTGGGGA
11637659 ATATTGATAG
Statistics
Matches: 29, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
33 29 1.00
ACGTcount: A:0.27, C:0.22, G:0.23, T:0.28
Consensus pattern (33 bp):
GATTCTAGACCTCAAGAAACCTTTTTGGGGACA
Found at i:11637924 original size:20 final size:20
Alignment explanation
Indices: 11637886--11637933 Score: 62
Period size: 20 Copynumber: 2.5 Consensus size: 20
11637876 TAAATTCTAA
* **
11637886 AAAGATAAATACATTTAATT
1 AAAGATAAATAAAAATAATT
11637906 AAAGATAAATAAAAATAATT
1 AAAGATAAATAAAAATAATT
11637926 AAA-ATAAA
1 AAAGATAAA
11637934 ATCCTAAAAT
Statistics
Matches: 25, Mismatches: 3, Indels: 1
0.86 0.10 0.03
Matches are distributed among these distances:
19 5 0.20
20 20 0.80
ACGTcount: A:0.67, C:0.02, G:0.04, T:0.27
Consensus pattern (20 bp):
AAAGATAAATAAAAATAATT
Found at i:11640500 original size:30 final size:31
Alignment explanation
Indices: 11640459--11640518 Score: 104
Period size: 30 Copynumber: 2.0 Consensus size: 31
11640449 GGGGGTGGGA
*
11640459 TGGGAAGGAAGTAAAAGTTTTGGGGGAAAAG
1 TGGGAAGGAAGTAAAAGTTTAGGGGGAAAAG
11640490 TGGG-AGGAAGTAAAAGTTTAGGGGGAAAA
1 TGGGAAGGAAGTAAAAGTTTAGGGGGAAAA
11640519 TAAAAATTTT
Statistics
Matches: 28, Mismatches: 1, Indels: 1
0.93 0.03 0.03
Matches are distributed among these distances:
30 24 0.86
31 4 0.14
ACGTcount: A:0.40, C:0.00, G:0.42, T:0.18
Consensus pattern (31 bp):
TGGGAAGGAAGTAAAAGTTTAGGGGGAAAAG
Found at i:11648064 original size:17 final size:17
Alignment explanation
Indices: 11648042--11648077 Score: 54
Period size: 17 Copynumber: 2.1 Consensus size: 17
11648032 CGTAACACCT
* *
11648042 TTTTTTATATTAAAATA
1 TTTTTTAAAATAAAATA
11648059 TTTTTTAAAATAAAATA
1 TTTTTTAAAATAAAATA
11648076 TT
1 TT
11648078 ATTATTTTAT
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
17 17 1.00
ACGTcount: A:0.44, C:0.00, G:0.00, T:0.56
Consensus pattern (17 bp):
TTTTTTAAAATAAAATA
Found at i:11648921 original size:28 final size:28
Alignment explanation
Indices: 11648889--11648971 Score: 123
Period size: 27 Copynumber: 3.0 Consensus size: 28
11648879 ATTGACCTGC
11648889 AAAAAAAATATTTTATTATAAAAAAAGA
1 AAAAAAAATATTTTATTATAAAAAAAGA
* *
11648917 CAAAAAAATATTTTATT-TAAAAAAACA
1 AAAAAAAATATTTTATTATAAAAAAAGA
*
11648944 AAAAAAAATATTTTAATATAAACAAAAG
1 AAAAAAAATATTTTATTATAAA-AAAAG
11648972 GTGTTGCGTC
Statistics
Matches: 48, Mismatches: 5, Indels: 3
0.86 0.09 0.05
Matches are distributed among these distances:
27 24 0.50
28 20 0.42
29 4 0.08
ACGTcount: A:0.66, C:0.04, G:0.02, T:0.28
Consensus pattern (28 bp):
AAAAAAAATATTTTATTATAAAAAAAGA
Found at i:11649634 original size:14 final size:14
Alignment explanation
Indices: 11649588--11649637 Score: 64
Period size: 14 Copynumber: 3.5 Consensus size: 14
11649578 ATTAATGTTG
*
11649588 AATTAAGTTAATTA
1 AATTAAGTTAATTT
* *
11649602 AATTATGTTTATGTT
1 AATTAAGTTAAT-TT
11649617 AATTAAGTTAATTT
1 AATTAAGTTAATTT
11649631 AATTAAG
1 AATTAAG
11649638 CTTTAATCCA
Statistics
Matches: 30, Mismatches: 5, Indels: 2
0.81 0.14 0.05
Matches are distributed among these distances:
14 19 0.63
15 11 0.37
ACGTcount: A:0.42, C:0.00, G:0.10, T:0.48
Consensus pattern (14 bp):
AATTAAGTTAATTT
Found at i:11650323 original size:73 final size:73
Alignment explanation
Indices: 11650174--11650559 Score: 345
Period size: 73 Copynumber: 5.3 Consensus size: 73
11650164 ATGCCGACCT
* * * ** *
11650174 TTAAAAAGGGTTGGGATAGACC-TAGT-TAAGACCAACCTTTGAAAAAA-GTTGTAATAAACCTG
1 TTAAAAA-GGTTGAGATAGACCAT-GTCTAAG-GCAA-CTTTTAAAAAAGGTTGGGATAGACCTG
*
11650236 TCTAAGACAACC
62 TCTAAGGCAACC
* * ** * * *
11650248 TTAAAAAGGTCGATATAGTTCTTGTTTAAGGCAACTTTTAAAAACGGTTGGGATAGAGCC-GTCT
1 TTAAAAAGGTTGAGATAGACCATGTCTAAGGCAACTTTTAAAAAAGGTTGGGATAGA-CCTGTCT
*
11650312 AATGCAACC
65 AAGGCAACC
* * ** * * *
11650321 TTAAAAAGGTTGGGATCGA-CATTGTCTAAAACAACCTATAAAAAAAGGTTGGGATAGACCTATC
1 TTAAAAAGGTTGAGATAGACCA-TGTCTAAGGCAA-CTTTTAAAAAAGGTTGGGATAGACCTGTC
11650385 TAAGGCAACC
64 TAAGGCAACC
* * * * *
11650395 TTAAACAGGTT-AGGATAGACCATATCTAAGGCAACCTTTAAAAAAGGTCGGAATAGA-CTCGTC
1 TTAAAAAGGTTGA-GATAGACCATGTCTAAGGCAACTTTTAAAAAAGGTTGGGATAGACCT-GTC
11650458 TAAGGCAACC
64 TAAGGCAACC
* * * *
11650468 TTAAAAAGGTTGGGATAGACCATGTCTAAGGTAACTTTTAAAAAAAGTTGGGATAGACCTGTTTA
1 TTAAAAAGGTTGAGATAGACCATGTCTAAGGCAACTTTTAAAAAAGGTTGGGATAGACCTGTCTA
*
11650533 AAGCAACC
66 AGGCAACC
*
11650541 TTAAAAAGGTTGGGATAGA
1 TTAAAAAGGTTGAGATAGA
11650560 TATTATTTAA
Statistics
Matches: 251, Mismatches: 49, Indels: 25
0.77 0.15 0.08
Matches are distributed among these distances:
72 12 0.05
73 166 0.66
74 71 0.28
75 2 0.01
ACGTcount: A:0.38, C:0.15, G:0.21, T:0.25
Consensus pattern (73 bp):
TTAAAAAGGTTGAGATAGACCATGTCTAAGGCAACTTTTAAAAAAGGTTGGGATAGACCTGTCTA
AGGCAACC
Found at i:11650348 original size:36 final size:34
Alignment explanation
Indices: 11650174--11650559 Score: 261
Period size: 35 Copynumber: 10.6 Consensus size: 34
11650164 ATGCCGACCT
*
11650174 TTAAAAAGGGTTGGGATAGACCTAGT-TAAGACCAACC
1 TTAAAAA-GGTTGGGATAGA-CT-GTCTAAG-GCAACC
* ** * *
11650211 TTTGAAAAAAGTTGTAATAAACCTGTCTAAGACAACC
1 -TT-AAAAAGGTTGGGATAGA-CTGTCTAAGGCAACC
* ** * * *
11650248 TTAAAAAGGTCGATATAGTTCTTGTTTAAGGCAACTT
1 TTAAAAAGGTTGGGATAG-AC-TGTCTAAGGCAAC-C
* *
11650285 TTAAAAACGGTTGGGATAGAGCCGTCTAATGCAACC
1 TTAAAAA-GGTTGGGATAGA-CTGTCTAAGGCAACC
* **
11650321 TTAAAAAGGTTGGGATCGACATTGTCTAAAACAACC
1 TTAAAAAGGTTGGGATAGAC--TGTCTAAGGCAACC
*
11650357 TATAAAAAAAGGTTGGGATAGACCTATCTAAGGCAACC
1 T-T--AAAAAGGTTGGGATAGA-CTGTCTAAGGCAACC
* * *
11650395 TTAAACAGGTTAGGATAGACCATATCTAAGGCAACC
1 TTAAAAAGGTTGGGATAGA-C-TGTCTAAGGCAACC
* *
11650431 TTTAAAAAAGGTCGGAATAGACTCGTCTAAGGCAACC
1 -TT-AAAAAGGTTGGGATAGACT-GTCTAAGGCAACC
* *
11650468 TTAAAAAGGTTGGGATAGACCATGTCTAAGGTAACTT
1 TTAAAAAGGTTGGGATAGA-C-TGTCTAAGGCAAC-C
* * *
11650505 TTAAAAAAAGTTGGGATAGACCTGTTTAAAGCAACC
1 TT-AAAAAGGTTGGGATAGA-CTGTCTAAGGCAACC
11650541 TTAAAAAGGTTGGGATAGA
1 TTAAAAAGGTTGGGATAGA
11650560 TATTATTTAA
Statistics
Matches: 280, Mismatches: 47, Indels: 45
0.75 0.13 0.12
Matches are distributed among these distances:
34 1 0.00
35 71 0.25
36 63 0.22
37 54 0.19
38 69 0.25
39 21 0.08
40 1 0.00
ACGTcount: A:0.38, C:0.15, G:0.21, T:0.25
Consensus pattern (34 bp):
TTAAAAAGGTTGGGATAGACTGTCTAAGGCAACC
Found at i:11650451 original size:147 final size:146
Alignment explanation
Indices: 11650174--11650559 Score: 388
Period size: 147 Copynumber: 2.6 Consensus size: 146
11650164 ATGCCGACCT
* * * ** * *
11650174 TTAAAAAGGGTTGGGATAGACC-TAGT-TAAGACCAACCTTTGAAAAAAGTTGTAATAAACCTGT
1 TTAAAAA-GGTTGGGATAGACCAT-GTCTAA-AACAACCTATAAAAAAAGTTGGGATAGACCTAT
* * ** * * * * * * *
11650237 CT-AAGACAACCTTAAAAAGG-TCGATATAGTTCTTGTTTAAGGCAACTTTTAAAAACGGTTGGG
63 CTAAAG-CAACCTTAAAAAGGTTAG-GATAGACCATATCTAAGGCAACCTTTAAAAAAGGTCGGA
*
11650300 ATAGAGC-CGTCTAATGCAACC
126 ATAGA-CTCGTCTAAGGCAACC
*
11650321 TTAAAAAGGTTGGGATCGA-CATTGTCTAAAACAACCTATAAAAAAAGGTTGGGATAGACCTATC
1 TTAAAAAGGTTGGGATAGACCA-TGTCTAAAACAACCTATAAAAAAA-GTTGGGATAGACCTATC
* *
11650385 TAAGGCAACCTTAAACAGGTTAGGATAGACCATATCTAAGGCAACCTTTAAAAAAGGTCGGAATA
64 TAAAGCAACCTTAAAAAGGTTAGGATAGACCATATCTAAGGCAACCTTTAAAAAAGGTCGGAATA
11650450 GACTCGTCTAAGGCAACC
129 GACTCGTCTAAGGCAACC
*** * * * *
11650468 TTAAAAAGGTTGGGATAGACCATGTCTAAGGTAACTTTTAAAAAAAGTTGGGATAGACCTGTTTA
1 TTAAAAAGGTTGGGATAGACCATGTCTAAAACAACCTATAAAAAAAGTTGGGATAGACCTATCTA
*
11650533 AAGCAACCTTAAAAAGGTTGGGATAGA
66 AAGCAACCTTAAAAAGGTTAGGATAGA
11650560 TATTATTTAA
Statistics
Matches: 198, Mismatches: 33, Indels: 17
0.80 0.13 0.07
Matches are distributed among these distances:
145 1 0.01
146 69 0.35
147 122 0.62
148 6 0.03
ACGTcount: A:0.38, C:0.15, G:0.21, T:0.25
Consensus pattern (146 bp):
TTAAAAAGGTTGGGATAGACCATGTCTAAAACAACCTATAAAAAAAGTTGGGATAGACCTATCTA
AAGCAACCTTAAAAAGGTTAGGATAGACCATATCTAAGGCAACCTTTAAAAAAGGTCGGAATAGA
CTCGTCTAAGGCAACC
Found at i:11650576 original size:36 final size:35
Alignment explanation
Indices: 11650234--11650559 Score: 215
Period size: 36 Copynumber: 8.9 Consensus size: 35
11650224 GTAATAAACC
* * ** **
11650234 TGTCTAAGACAACCTTAAAAAGGTCGATATAGTTCT
1 TGTCTAAGGCAACCTTAAAAAGGTTGGGATAG-AAT
* * **
11650270 TGTTTAAGGCAACTTTTAAAAACGGTTGGGATAGAGC
1 TGTCTAAGGCAAC-CTTAAAAA-GGTTGGGATAGAAT
* * *
11650307 CGTCTAATGCAACCTTAAAAAGGTTGGGATCGACAT
1 TGTCTAAGGCAACCTTAAAAAGGTTGGGATAGA-AT
** **
11650343 TGTCTAAAACAACCTATAAAAAAAGGTTGGGATAGACC
1 TGTCTAAGGCAACCT-T--AAAAAGGTTGGGATAGAAT
* * *
11650381 TATCTAAGGCAACCTTAAACAGGTTAGGATAGACCA-
1 TGTCTAAGGCAACCTTAAAAAGGTTGGGATAGA--AT
* * * *
11650417 TATCTAAGGCAACCTTTAAAAAAGGTCGGAATAGACT
1 TGTCTAAGGCAACC-TT-AAAAAGGTTGGGATAGAAT
*
11650454 CGTCTAAGGCAACCTTAAAAAGGTTGGGATAGACCA-
1 TGTCTAAGGCAACCTTAAAAAGGTTGGGATAGA--AT
* * * **
11650490 TGTCTAAGGTAACTTTTAAAAAAAGTTGGGATAGACC
1 TGTCTAAGGCAAC-CTT-AAAAAGGTTGGGATAGAAT
* *
11650527 TGTTTAAAGCAACCTTAAAAAGGTTGGGATAGA
1 TGTCTAAGGCAACCTTAAAAAGGTTGGGATAGA
11650560 TATTATTTAA
Statistics
Matches: 226, Mismatches: 48, Indels: 33
0.74 0.16 0.11
Matches are distributed among these distances:
35 57 0.25
36 59 0.26
37 45 0.20
38 49 0.22
39 16 0.07
ACGTcount: A:0.38, C:0.15, G:0.21, T:0.25
Consensus pattern (35 bp):
TGTCTAAGGCAACCTTAAAAAGGTTGGGATAGAAT
Found at i:11650728 original size:20 final size:19
Alignment explanation
Indices: 11650705--11650749 Score: 63
Period size: 19 Copynumber: 2.3 Consensus size: 19
11650695 ATACAACTAA
11650705 AAAAATTTAAAATTTAAAAT
1 AAAAATTTAAAA-TTAAAAT
*
11650725 AAAAAATTAAAATTAAAAT
1 AAAAATTTAAAATTAAAAT
*
11650744 TAAAAT
1 AAAAAT
11650750 AAAGATTGAA
Statistics
Matches: 22, Mismatches: 3, Indels: 1
0.85 0.12 0.04
Matches are distributed among these distances:
19 11 0.50
20 11 0.50
ACGTcount: A:0.69, C:0.00, G:0.00, T:0.31
Consensus pattern (19 bp):
AAAAATTTAAAATTAAAAT
Found at i:11650736 original size:6 final size:6
Alignment explanation
Indices: 11650706--11650749 Score: 52
Period size: 6 Copynumber: 6.8 Consensus size: 6
11650696 TACAACTAAA
*
11650706 AAAATTT AAAATTT AAAATAA AAAATT AAAATT AAAATT AAAAT
1 AAAA-TT AAAA-TT AAAAT-T AAAATT AAAATT AAAATT AAAAT
11650750 AAAGATTGAA
Statistics
Matches: 34, Mismatches: 2, Indels: 3
0.87 0.05 0.08
Matches are distributed among these distances:
6 18 0.53
7 16 0.47
ACGTcount: A:0.68, C:0.00, G:0.00, T:0.32
Consensus pattern (6 bp):
AAAATT
Found at i:11653932 original size:21 final size:22
Alignment explanation
Indices: 11653907--11653948 Score: 59
Period size: 21 Copynumber: 2.0 Consensus size: 22
11653897 CAAAACCCTA
*
11653907 AAACCATAAGCCTTAA-ACCAC
1 AAACCATAAACCTTAAGACCAC
*
11653928 AAACCCTAAACCTTAAGACCA
1 AAACCATAAACCTTAAGACCA
11653949 TAAAATCCTA
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
21 14 0.78
22 4 0.22
ACGTcount: A:0.48, C:0.33, G:0.05, T:0.14
Consensus pattern (22 bp):
AAACCATAAACCTTAAGACCAC
Found at i:11654131 original size:22 final size:22
Alignment explanation
Indices: 11654106--11654149 Score: 79
Period size: 22 Copynumber: 2.0 Consensus size: 22
11654096 AGATTAATTG
11654106 CAAACCCATAATCATAAAACCC
1 CAAACCCATAATCATAAAACCC
*
11654128 CAAATCCATAATCATAAAACCC
1 CAAACCCATAATCATAAAACCC
11654150 TAAAATCATA
Statistics
Matches: 21, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
22 21 1.00
ACGTcount: A:0.50, C:0.34, G:0.00, T:0.16
Consensus pattern (22 bp):
CAAACCCATAATCATAAAACCC
Found at i:11654159 original size:22 final size:22
Alignment explanation
Indices: 11654111--11654160 Score: 75
Period size: 22 Copynumber: 2.3 Consensus size: 22
11654101 AATTGCAAAC
*
11654111 CCATAATCATAAAACCCCAAAT
1 CCATAATCATAAAACCCAAAAT
11654133 CCATAATCATAAAACCCTAAAAT
1 CCATAATCATAAAACCC-AAAAT
11654156 -CATAA
1 CCATAA
11654161 ACCCCAAACC
Statistics
Matches: 26, Mismatches: 1, Indels: 2
0.90 0.03 0.07
Matches are distributed among these distances:
22 22 0.85
23 4 0.15
ACGTcount: A:0.52, C:0.28, G:0.00, T:0.20
Consensus pattern (22 bp):
CCATAATCATAAAACCCAAAAT
Found at i:11654184 original size:37 final size:38
Alignment explanation
Indices: 11654107--11654191 Score: 104
Period size: 37 Copynumber: 2.3 Consensus size: 38
11654097 GATTAATTGC
* * *
11654107 AAACCC-ATAATCATAAAACCCCAAATCCATAATCATA
1 AAACCCTAAAATCATAAAACCCCAAATCCATAAACACA
11654144 AAACCCTAAAATCAT-AAACCCCAAA-CCTATAAACACA
1 AAACCCTAAAATCATAAAACCCCAAATCC-ATAAACACA
*
11654181 AAACTCTAAAA
1 AAACCCTAAAA
11654192 CCTTAAACTA
Statistics
Matches: 42, Mismatches: 4, Indels: 4
0.84 0.08 0.08
Matches are distributed among these distances:
36 2 0.05
37 33 0.79
38 7 0.17
ACGTcount: A:0.54, C:0.29, G:0.00, T:0.16
Consensus pattern (38 bp):
AAACCCTAAAATCATAAAACCCCAAATCCATAAACACA
Found at i:11654199 original size:37 final size:37
Alignment explanation
Indices: 11654122--11654199 Score: 95
Period size: 37 Copynumber: 2.1 Consensus size: 37
11654112 CATAATCATA
* * *
11654122 AAACCCCAAATCCATAATCATAAAACCCTAAAATCAT
1 AAACCCCAAATCCATAAACACAAAACCCTAAAACCAT
* *
11654159 AAACCCCAAA-CCTATAAACACAAAACTCTAAAACCTT
1 AAACCCCAAATCC-ATAAACACAAAACCCTAAAACCAT
11654196 AAAC
1 AAAC
11654200 TATATAAACT
Statistics
Matches: 35, Mismatches: 5, Indels: 2
0.83 0.12 0.05
Matches are distributed among these distances:
36 2 0.06
37 33 0.94
ACGTcount: A:0.53, C:0.31, G:0.00, T:0.17
Consensus pattern (37 bp):
AAACCCCAAATCCATAAACACAAAACCCTAAAACCAT
Found at i:11654731 original size:132 final size:132
Alignment explanation
Indices: 11654494--11654994 Score: 799
Period size: 132 Copynumber: 3.8 Consensus size: 132
11654484 CTGACAAGTG
* *
11654494 TATCCCAACACTTAGGAAAGTGTCGCC-CTAAAACTGTCGTCTTAGGACTAGACAAAAGCCAACT
1 TATCCCAACACTTAGGAAAGTGTCGCCAC-AAAAGTGTCGTCTTAGGACTACACAAAAGCCAACT
* * **
11654558 CTTATTCAAGCATTGTCTTAGGCATACATATCCCAACCCTTATACAAAGAGTTGGCCAAAGTGTA
65 CTTATTCAAGCGTTGCCTTAGGCATACATATCCCAACCCTTATACAAAGAGTTGGCCAAAGCATA
11654623 GTC
130 GTC
* *
11654626 TATCCCAACACTTAGAAAAGTGTCGCCACAAAAGTGTCGTCTTAGGACTAGACAAAAGCCAACTC
1 TATCCCAACACTTAGGAAAGTGTCGCCACAAAAGTGTCGTCTTAGGACTACACAAAAGCCAACTC
*
11654691 TGATTCAAGCGTTGCCTTAGGCATACATATCCCAACCCTTATACAAAGAGTTGGCCAAAGCATAG
66 TTATTCAAGCGTTGCCTTAGGCATACATATCCCAACCCTTATACAAAGAGTTGGCCAAAGCATAG
11654756 TC
131 TC
* * * *
11654758 TATCCCAACACTTAGGGAAGTGTCACCACAAAAGTGTCTTCTTAGGACTACACAGAAGCCAACTC
1 TATCCCAACACTTAGGAAAGTGTCGCCACAAAAGTGTCGTCTTAGGACTACACAAAAGCCAACTC
*
11654823 TTATTCAAGCGTTGCCTTAGGCATACATATCCTAACCCTTATACAAAGAGTTGGCCAAAGCATAG
66 TTATTCAAGCGTTGCCTTAGGCATACATATCCCAACCCTTATACAAAGAGTTGGCCAAAGCATAG
11654888 TC
131 TC
* *
11654890 TATCCCAACACTTAGGAAA-TGTCGTCACAAAAGTGTCGTCTTAGGACTACACAAAAACCAACTC
1 TATCCCAACACTTAGGAAAGTGTCGCCACAAAAGTGTCGTCTTAGGACTACACAAAAGCCAACTC
* * * *
11654954 TTATTCATGCGTTACTTTAGGCATACATATACCAACCCTTA
66 TTATTCAAGCGTTGCCTTAGGCATACATATCCCAACCCTTA
11654995 GGAAAATGTC
Statistics
Matches: 342, Mismatches: 26, Indels: 3
0.92 0.07 0.01
Matches are distributed among these distances:
131 76 0.22
132 265 0.77
133 1 0.00
ACGTcount: A:0.33, C:0.26, G:0.16, T:0.25
Consensus pattern (132 bp):
TATCCCAACACTTAGGAAAGTGTCGCCACAAAAGTGTCGTCTTAGGACTACACAAAAGCCAACTC
TTATTCAAGCGTTGCCTTAGGCATACATATCCCAACCCTTATACAAAGAGTTGGCCAAAGCATAG
TC
Found at i:11655063 original size:91 final size:91
Alignment explanation
Indices: 11654894--11655085 Score: 260
Period size: 91 Copynumber: 2.1 Consensus size: 91
11654884 ATAGTCTATC
* * *
11654894 CCAACACTTAGGAAATGTCGTCACAAAAGTGTCGTCTTAGGACTACACAAAAACCAACTCTTATT
1 CCAACCCTTAGGAAATGTCGCCACAAAAGTATCGTCTTAGGACTACACAAAAACCAACTCTTATT
* *
11654959 CATGCGTTACTTTAGGCATACATATA
66 CAAGCGTTACTTTAGACATACATATA
**
11654985 CCAACCCTTAGGAAAATGTCGCCACAAAAGTATCGTCTTAGGACTACAC-AAAGGCAACTCTTAT
1 CCAACCCTTAGG-AAATGTCGCCACAAAAGTATCGTCTTAGGACTACACAAAAACCAACTCTTAT
* * * * *
11655049 TTAAGCGTTGCTTTAGACATGCATCTC
65 TCAAGCGTTACTTTAGACATACATATA
11655076 CCAACCCTTA
1 CCAACCCTTA
11655086 TACAAAGAGT
Statistics
Matches: 88, Mismatches: 12, Indels: 2
0.86 0.12 0.02
Matches are distributed among these distances:
91 54 0.61
92 34 0.39
ACGTcount: A:0.33, C:0.26, G:0.15, T:0.27
Consensus pattern (91 bp):
CCAACCCTTAGGAAATGTCGCCACAAAAGTATCGTCTTAGGACTACACAAAAACCAACTCTTATT
CAAGCGTTACTTTAGACATACATATA
Found at i:11656709 original size:16 final size:16
Alignment explanation
Indices: 11656688--11656720 Score: 57
Period size: 16 Copynumber: 2.1 Consensus size: 16
11656678 TAGGTGGGTT
*
11656688 TGTTGAAGTTGGTAAA
1 TGTTGAAGATGGTAAA
11656704 TGTTGAAGATGGTAAA
1 TGTTGAAGATGGTAAA
11656720 T
1 T
11656721 AAGTTGTTAT
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
16 16 1.00
ACGTcount: A:0.33, C:0.00, G:0.30, T:0.36
Consensus pattern (16 bp):
TGTTGAAGATGGTAAA
Found at i:11662146 original size:19 final size:17
Alignment explanation
Indices: 11662104--11662171 Score: 73
Period size: 17 Copynumber: 3.7 Consensus size: 17
11662094 CAGCAGCAAG
11662104 GAGAAGAAAATAAAGGAGAA
1 GAGAAGAAAA-AAA-GA-AA
11662124 GAGAATGAAGAAAAAGAAA
1 GAGAA-GAA-AAAAAGAAA
*
11662143 GAGAAGGAAAAAAGAAA
1 GAGAAGAAAAAAAGAAA
*
11662160 GAAAAGAAAAAA
1 GAGAAGAAAAAA
11662172 GAATGTATAA
Statistics
Matches: 43, Mismatches: 3, Indels: 7
0.81 0.06 0.13
Matches are distributed among these distances:
17 19 0.44
18 2 0.05
19 7 0.16
20 7 0.16
21 6 0.14
22 2 0.05
ACGTcount: A:0.71, C:0.00, G:0.26, T:0.03
Consensus pattern (17 bp):
GAGAAGAAAAAAAGAAA
Found at i:11662156 original size:17 final size:16
Alignment explanation
Indices: 11662134--11662174 Score: 64
Period size: 16 Copynumber: 2.5 Consensus size: 16
11662124 GAGAATGAAG
*
11662134 AAAAAGAAAGAGAAGGA
1 AAAAAGAAAGA-AAAGA
11662151 AAAAAGAAAGAAAAGA
1 AAAAAGAAAGAAAAGA
11662167 AAAAAGAA
1 AAAAAGAA
11662175 TGTATAATTT
Statistics
Matches: 23, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
16 12 0.52
17 11 0.48
ACGTcount: A:0.78, C:0.00, G:0.22, T:0.00
Consensus pattern (16 bp):
AAAAAGAAAGAAAAGA
Found at i:11667659 original size:72 final size:72
Alignment explanation
Indices: 11667542--11667682 Score: 212
Period size: 72 Copynumber: 2.0 Consensus size: 72
11667532 GCCCCCCAAT
* *
11667542 GAGCCTGGGAAATAGTCATTGCCCGCCAAATCCAGATTATAAGAAGTATCAGCCGAATGTGAATG
1 GAGCCCGGGAAATAGTCATTGCCCGCCAAATCCAGATGATAAGAAGTATCAGCCGAATGTGAATG
11667607 CGATGAC
66 CGATGAC
* * * *
11667614 GAGCCCGGGAAATAGTTATTGCCTGCCAAATTC-GAATGATAAGAAGTATCAGTCGAATGTGAAT
1 GAGCCCGGGAAATAGTCATTGCCCGCCAAATCCAG-ATGATAAGAAGTATCAGCCGAATGTGAAT
11667678 GCGAT
65 GCGAT
11667683 CGCTCAGACT
Statistics
Matches: 62, Mismatches: 6, Indels: 2
0.89 0.09 0.03
Matches are distributed among these distances:
71 1 0.02
72 61 0.98
ACGTcount: A:0.33, C:0.18, G:0.26, T:0.23
Consensus pattern (72 bp):
GAGCCCGGGAAATAGTCATTGCCCGCCAAATCCAGATGATAAGAAGTATCAGCCGAATGTGAATG
CGATGAC
Found at i:11670318 original size:297 final size:298
Alignment explanation
Indices: 11669556--11670766 Score: 1645
Period size: 297 Copynumber: 4.1 Consensus size: 298
11669546 ATAAGTAAAA
* * * * *
11669556 TATTTTCGTATATTATTT-TTTATATTATTTTAGCAAAAAATGTTTCAAATGTATTATGTAAGTG
1 TATTTTCGTATTTTATTTCTTTATATTATTTTAGTACATAATGTTTCAAATGTATTATTTAAGTG
* * ** *
11669620 TTTTTTATATTAATTAAATAAATAACCCTGATTTTGGCACTTTCTTCGTATTTTTTATTTTCGTA
66 TTTTTTATATT-TTTTAATAAATAACCCTGATTTTAACACTTTATTCGTA--TTTTATTTTCGTA
* * * * *
11669685 TCTTCTTTTTTAAAATATATTATTTTCGTATTTTATTTCTTTATATTATTTTAGTACATAATGTT
128 TATTATTTTTTAAAATATATTATTTTCGTATTTTATTT-TTTATATTATTTTAGCAAAAAATGTT
* **
11669750 TCAAATGTATTATTTAAGTA-TTATTTATATTTTTTTTAATAAATAACCCTGATTTT-AGCACTT
192 TCAAATGTATTATTTAAGTATTTTTTTATA-TTAATTTAATAAATAACCCTGATTTTGA-CACTT
*
11669813 TATTCGTATTTTTTTA-----GTATCTTATTTTTTTTAAAATATAT
255 TCTTCGTATTTTTTTATTTTTGTATCTTA--TTTTTTAAAATATAT
*
11669854 TATTTTCATATTTTATTTCTTTATATTATTTTAGTACATAATGTTTCAAATGTATTATTTAAGTG
1 TATTTTCGTATTTTATTTCTTTATATTATTTTAGTACATAATGTTTCAAATGTATTATTTAAGTG
11669919 TTTTTTATATTTTTTAATAAATAACCCTGATTTTAACACTTTATTCGTA--TT-TTTTCGTATAT
66 TTTTTTATATTTTTTAATAAATAACCCTGATTTTAACACTTTATTCGTATTTTATTTTCGTATAT
11669981 TATTTTTTAAAAATATATTATTTTCGTATTTTATTTTTTTATATTATTTTAGCAAAAAATGTTTC
131 TATTTTTT-AAAATATATTATTTTCGTATTTTA-TTTTTTATATTATTTTAGCAAAAAATGTTTC
* *
11670046 AAATGTATTGTGTAAGTATTTTTTTATATTAATTTAATAAATAACCCTGATTTTGACACTTTCTT
194 AAATGTATTATTTAAGTATTTTTTTATATTAATTTAATAAATAACCCTGATTTTGACACTTTCTT
11670111 CGTATTTTTTTATTTTTGTATCTTATTTTTTAAAATATAT
259 CGTATTTTTTTATTTTTGTATCTTATTTTTTAAAATATAT
* *
11670151 TATTTTCGTATTTTATTTCTTCATATTATTTTAGTACATAATGTTTCAAATGTATTATTTAAGTA
1 TATTTTCGTATTTTATTTCTTTATATTATTTTAGTACATAATGTTTCAAATGTATTATTTAAGTG
*
11670216 TTTTTTATATTTTTTCAATAAATAACCCTGATTTTAGCACTTTATTCGTA-TTT-TTTTCGTATA
66 TTTTTTATATTTTTT-AATAAATAACCCTGATTTTAACACTTTATTCGTATTTTATTTTCGTATA
* *
11670279 TTATTTTTTAAAATATATTATTTTTGTATTTTATTTTTTATATTATTTTAGTAAAAAATGTTTCA
130 TTATTTTTTAAAATATATTATTTTCGTATTTTATTTTTTATATTATTTTAGCAAAAAATGTTTCA
* * * *
11670344 AATGTATTACTTAAGTGTTTCTTTATATTAATTTAATAAATAACCTTGATTTTGACACTTTCTTC
195 AATGTATTATTTAAGTATTTTTTTATATTAATTTAATAAATAACCCTGATTTTGACACTTTCTTC
* *
11670409 CTAATTTTTTTATTTTCGTATCTTA-TTTTTAAAATATAT
260 GT-ATTTTTTTATTTTTGTATCTTATTTTTTAAAATATAT
*
11670448 TATTTTCGTATTTTATTTCTTTATATTATTTTAGTATATAATGTTTCAAATGTATTATTTAAGTG
1 TATTTTCGTATTTTATTTCTTTATATTATTTTAGTACATAATGTTTCAAATGTATTATTTAAGTG
11670513 TTTTTTTATATTTTTTTAATAAATAACCCTGATTTTAACACTTTATTCGTATTTTTATTTTCGTA
66 -TTTTTTATA-TTTTTTAATAAATAACCCTGATTTTAACACTTTATTCGTA-TTTTATTTTCGTA
* * *
11670578 TAGTA-TTTTTAAAATATATTATTTTCG-----TA-----T-T-TTATTTTAGCATAAAATCTTT
128 TATTATTTTTTAAAATATATTATTTTCGTATTTTATTTTTTATATTATTTTAGCAAAAAATGTTT
* * * * * *
11670630 CAAATGTATTATTTAAG--TTTTTTTATGTTAATTTAATAAATAACCCCGACTTTGGCACATTGT
193 CAAATGTATTATTTAAGTATTTTTTTATATTAATTTAATAAATAACCCTGATTTTGACACTTTCT
* * *
11670693 TCGTATTTTTTTTATTTTTGGATTTTATTTTTTAAAATATAC
258 TCGTA-TTTTTTTATTTTTGTATCTTATTTTTTAAAATATAT
*
11670735 TATTTTCATATTTTATTT-TTTATATTATTTTA
1 TATTTTCGTATTTTATTTCTTTATATTATTTTA
11670767 ACAAAAAACT
Statistics
Matches: 833, Mismatches: 60, Indels: 52
0.88 0.06 0.06
Matches are distributed among these distances:
285 1 0.00
286 73 0.09
287 30 0.04
288 34 0.04
289 1 0.00
290 1 0.00
293 17 0.02
294 111 0.13
295 14 0.02
297 259 0.31
298 168 0.20
299 88 0.11
300 24 0.03
301 12 0.01
ACGTcount: A:0.29, C:0.08, G:0.07, T:0.56
Consensus pattern (298 bp):
TATTTTCGTATTTTATTTCTTTATATTATTTTAGTACATAATGTTTCAAATGTATTATTTAAGTG
TTTTTTATATTTTTTAATAAATAACCCTGATTTTAACACTTTATTCGTATTTTATTTTCGTATAT
TATTTTTTAAAATATATTATTTTCGTATTTTATTTTTTATATTATTTTAGCAAAAAATGTTTCAA
ATGTATTATTTAAGTATTTTTTTATATTAATTTAATAAATAACCCTGATTTTGACACTTTCTTCG
TATTTTTTTATTTTTGTATCTTATTTTTTAAAATATAT
Found at i:11670324 original size:12 final size:13
Alignment explanation
Indices: 11670292--11670327 Score: 56
Period size: 13 Copynumber: 2.8 Consensus size: 13
11670282 TTTTTTAAAA
11670292 TATATTATTTTTG
1 TATATTATTTTTG
*
11670305 TATTTTATTTTT-
1 TATATTATTTTTG
11670317 TATATTATTTT
1 TATATTATTTT
11670328 AGTAAAAAAT
Statistics
Matches: 21, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
12 10 0.48
13 11 0.52
ACGTcount: A:0.22, C:0.00, G:0.03, T:0.75
Consensus pattern (13 bp):
TATATTATTTTTG
Found at i:11670631 original size:136 final size:136
Alignment explanation
Indices: 11670473--11670753 Score: 350
Period size: 134 Copynumber: 2.1 Consensus size: 136
11670463 TTTCTTTATA
* * * **
11670473 TTATTTTAGTATATAATGTTTCAAATGTATTATTTAAGTGTTTTTTTATATTTTTTTAATAAATA
1 TTATTTTAGCATAAAATCTTTCAAATGTATTATTTAA--GTTTTTTTATATTAATTTAATAAATA
* * * * *
11670538 ACCCTGATTTTAACACTTTATTCGTA-TTTTTATTTTCGTATAGTA-TTTTTAAAATATATTATT
64 ACCCCGACTTTAACACATTATTCGTATTTTTTATTTTCGGATAGTATTTTTTAAAATATACTATT
*
11670601 TTCGTATT
129 TTCATATT
*
11670609 TTATTTTAGCATAAAATCTTTCAAATGTATTATTTAAGTTTTTTTATGTTAATTTAATAAATAAC
1 TTATTTTAGCATAAAATCTTTCAAATGTATTATTTAAGTTTTTTTATATTAATTTAATAAATAAC
** * * **
11670674 CCCGACTTTGGCACATTGTTCGTATTTTTTTTATTTTTGGATTTTATTTTTTAAAATATACTATT
66 CCCGACTTTAACACATTATTCGTA--TTTTTTATTTTCGGATAGTATTTTTTAAAATATACTATT
11670739 TTCATATT
129 TTCATATT
11670747 TTATTTT
1 TTATTTT
11670754 TTATATTATT
Statistics
Matches: 123, Mismatches: 18, Indels: 6
0.84 0.12 0.04
Matches are distributed among these distances:
134 43 0.35
136 34 0.28
137 15 0.12
138 31 0.25
ACGTcount: A:0.29, C:0.08, G:0.07, T:0.56
Consensus pattern (136 bp):
TTATTTTAGCATAAAATCTTTCAAATGTATTATTTAAGTTTTTTTATATTAATTTAATAAATAAC
CCCGACTTTAACACATTATTCGTATTTTTTATTTTCGGATAGTATTTTTTAAAATATACTATTTT
CATATT
Found at i:11671327 original size:14 final size:14
Alignment explanation
Indices: 11671310--11671366 Score: 53
Period size: 15 Copynumber: 4.0 Consensus size: 14
11671300 TCTCCTCCTC
11671310 TCTTTCTTTTTCTT
1 TCTTTCTTTTTCTT
*
11671324 TC-TTCTTCTTCTCT
1 TCTTTCTTTTTCT-T
* * *
11671338 TCTTTCCTTCTCCT
1 TCTTTCTTTTTCTT
11671352 TCTTTCCTTTTTCTT
1 TCTTT-CTTTTTCTT
11671367 CTCCTTCGTT
Statistics
Matches: 32, Mismatches: 8, Indels: 5
0.71 0.18 0.11
Matches are distributed among these distances:
13 9 0.28
14 11 0.34
15 12 0.38
ACGTcount: A:0.00, C:0.32, G:0.00, T:0.68
Consensus pattern (14 bp):
TCTTTCTTTTTCTT
Found at i:11671347 original size:19 final size:18
Alignment explanation
Indices: 11671319--11671373 Score: 58
Period size: 19 Copynumber: 2.9 Consensus size: 18
11671309 CTCTTTCTTT
*
11671319 TTCTTTCTTCTTCTTCTC
1 TTCTTTCTTCTCCTTCTC
11671337 TTCTTTCCTTCTCCTTCT-
1 TTCTTT-CTTCTCCTTCTC
11671355 TTCCTTTTTCTTCTCCTTC
1 TT-C--TTTCTTCTCCTTC
11671374 GTTGTTCCCG
Statistics
Matches: 32, Mismatches: 1, Indels: 6
0.82 0.03 0.15
Matches are distributed among these distances:
18 8 0.25
19 11 0.34
20 10 0.31
21 3 0.09
ACGTcount: A:0.00, C:0.36, G:0.00, T:0.64
Consensus pattern (18 bp):
TTCTTTCTTCTCCTTCTC
Found at i:11671512 original size:27 final size:27
Alignment explanation
Indices: 11671482--11671575 Score: 161
Period size: 27 Copynumber: 3.5 Consensus size: 27
11671472 ACCTGGCACC
* *
11671482 GGTGTCGCCTCTGCCAGAGGAAACACT
1 GGTGCCGCCTCTGCCAGAGGCAACACT
11671509 GGTGCCGCCTCTGCCAGAGGCAACACT
1 GGTGCCGCCTCTGCCAGAGGCAACACT
11671536 GGTGCCGCCTCTGCCAGAGGCAACACT
1 GGTGCCGCCTCTGCCAGAGGCAACACT
*
11671563 AGTGCCGCCTCTG
1 GGTGCCGCCTCTG
11671576 GCACCAACAT
Statistics
Matches: 64, Mismatches: 3, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
27 64 1.00
ACGTcount: A:0.18, C:0.35, G:0.30, T:0.17
Consensus pattern (27 bp):
GGTGCCGCCTCTGCCAGAGGCAACACT
Found at i:11671616 original size:18 final size:16
Alignment explanation
Indices: 11671593--11671637 Score: 54
Period size: 16 Copynumber: 2.6 Consensus size: 16
11671583 CATGACCCAT
11671593 TTTTTTTTTGGTTTTCAG
1 TTTTTTTTT--TTTTCAG
*
11671611 TTTTTTTCTTTTTCAG
1 TTTTTTTTTTTTTCAG
11671627 TGTTTTTTTTT
1 T-TTTTTTTTT
11671638 ACTGTTGTGG
Statistics
Matches: 24, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
16 8 0.33
17 8 0.33
18 8 0.33
ACGTcount: A:0.04, C:0.07, G:0.11, T:0.78
Consensus pattern (16 bp):
TTTTTTTTTTTTTCAG
Found at i:11674204 original size:27 final size:27
Alignment explanation
Indices: 11674166--11674220 Score: 110
Period size: 27 Copynumber: 2.0 Consensus size: 27
11674156 AATTTTCAAA
11674166 AGTTAATTCTCAAAATTTATAAATATT
1 AGTTAATTCTCAAAATTTATAAATATT
11674193 AGTTAATTCTCAAAATTTATAAATATT
1 AGTTAATTCTCAAAATTTATAAATATT
11674220 A
1 A
11674221 TCAATTTGGT
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:0.45, C:0.07, G:0.04, T:0.44
Consensus pattern (27 bp):
AGTTAATTCTCAAAATTTATAAATATT
Found at i:11676978 original size:18 final size:17
Alignment explanation
Indices: 11676955--11676988 Score: 50
Period size: 17 Copynumber: 1.9 Consensus size: 17
11676945 AAAAAATCAC
11676955 TTAACAAAACAAGTTTAT
1 TTAAC-AAACAAGTTTAT
*
11676973 TTAACAATCAAGTTTA
1 TTAACAAACAAGTTTA
11676989 ATAATATATC
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
17 10 0.67
18 5 0.33
ACGTcount: A:0.47, C:0.12, G:0.06, T:0.35
Consensus pattern (17 bp):
TTAACAAACAAGTTTAT
Found at i:11680107 original size:15 final size:15
Alignment explanation
Indices: 11680087--11680115 Score: 58
Period size: 15 Copynumber: 1.9 Consensus size: 15
11680077 ATACTTCACA
11680087 CACCGTGTTATCAAT
1 CACCGTGTTATCAAT
11680102 CACCGTGTTATCAA
1 CACCGTGTTATCAA
11680116 GCAACAATAC
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 14 1.00
ACGTcount: A:0.28, C:0.28, G:0.14, T:0.31
Consensus pattern (15 bp):
CACCGTGTTATCAAT
Found at i:11686512 original size:240 final size:240
Alignment explanation
Indices: 11686083--11686563 Score: 876
Period size: 240 Copynumber: 2.0 Consensus size: 240
11686073 TTTACATTTT
11686083 TAACAATTTAATCATTATTTGCAATTTCATTAAAAATCACTTAACAAAACATGTTTATTTTACAA
1 TAACAATTTAATCATTATTTGCAATTTCATTAAAAATCACTTAACAAAACATGTTTATTTTACAA
*
11686148 CCAAGATTATTAATTTATCAAATAACTTGAAAATCTATTCAAAAACAACCATGGCAAGTCCCTTA
66 CCAAGATTATTAATTTATCAAATAACTTGAAAATCTATTCAAAAAAAACCATGGCAAGTCCCTTA
11686213 ACCTTTAACAGTTTTGCAAATTAACCCCCTTGCTAGCTAGATTAAGCTAAAATGAACTTAAAAAC
131 ACCTTTAACAGTTTTGCAAATTAACCCCCTTGCTAGCTAGATTAAGCTAAAATGAACTTAAAAAC
11686278 ATAAAAACCATTAAAAACGAGACATAAAATCTGTAACGCCCCAAA
196 ATAAAAACCATTAAAAACGAGACATAAAATCTGTAACGCCCCAAA
*
11686323 TAACAATTTAATCATTTTTTGCAATTTCATTAAAAATCACTTAA-AAAACATGTTTATTTTACAA
1 TAACAATTTAATCATTATTTGCAATTTCATTAAAAATCACTTAACAAAACATGTTTATTTTACAA
* *
11686387 CCAAGATTTTTAATTTATCAAATAACTTGAAAATCTATTCAAAAAAAACCGTGGCAAGTCCCTTA
66 CCAAGATTATTAATTTATCAAATAACTTGAAAATCTATTCAAAAAAAACCATGGCAAGTCCCTTA
11686452 ACCTTTAACAGTTTTGCAAATTAA-CCCCTAGTGCTAGCTAGATTAAGCTAAAATGAACTTAAAA
131 ACCTTTAACAGTTTTGCAAATTAACCCCCT--TGCTAGCTAGATTAAGCTAAAATGAACTTAAAA
* *
11686516 ACATAAAAACCATTAAAAATGAGACATAAAATCTGTAACGCCCTAAA
194 ACATAAAAACCATTAAAAACGAGACATAAAATCTGTAACGCCCCAAA
11686563 T
1 T
11686564 TTTATATTTT
Statistics
Matches: 233, Mismatches: 6, Indels: 4
0.96 0.02 0.02
Matches are distributed among these distances:
238 5 0.02
239 106 0.45
240 122 0.52
ACGTcount: A:0.43, C:0.18, G:0.08, T:0.31
Consensus pattern (240 bp):
TAACAATTTAATCATTATTTGCAATTTCATTAAAAATCACTTAACAAAACATGTTTATTTTACAA
CCAAGATTATTAATTTATCAAATAACTTGAAAATCTATTCAAAAAAAACCATGGCAAGTCCCTTA
ACCTTTAACAGTTTTGCAAATTAACCCCCTTGCTAGCTAGATTAAGCTAAAATGAACTTAAAAAC
ATAAAAACCATTAAAAACGAGACATAAAATCTGTAACGCCCCAAA
Found at i:11689452 original size:17 final size:18
Alignment explanation
Indices: 11689419--11689454 Score: 56
Period size: 17 Copynumber: 2.1 Consensus size: 18
11689409 TAAAAAAATC
11689419 ATTTAACAAAACAAGTTT
1 ATTTAACAAAACAAGTTT
*
11689437 ATTTAAC-AACCAAGTTT
1 ATTTAACAAAACAAGTTT
11689454 A
1 A
11689455 ATAATATATC
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
17 10 0.59
18 7 0.41
ACGTcount: A:0.47, C:0.14, G:0.06, T:0.33
Consensus pattern (18 bp):
ATTTAACAAAACAAGTTT
Found at i:11695404 original size:27 final size:27
Alignment explanation
Indices: 11695374--11695427 Score: 83
Period size: 27 Copynumber: 2.0 Consensus size: 27
11695364 ACCCAAATTT
*
11695374 GGTAAAATGACT-ATTATACCCCTATGA
1 GGTAAAATAACTGA-TATACCCCTATGA
11695401 GGTAAAATAACTGATATACCCCTATGA
1 GGTAAAATAACTGATATACCCCTATGA
11695428 TATGTATTCG
Statistics
Matches: 25, Mismatches: 1, Indels: 2
0.89 0.04 0.07
Matches are distributed among these distances:
27 24 0.96
28 1 0.04
ACGTcount: A:0.39, C:0.19, G:0.15, T:0.28
Consensus pattern (27 bp):
GGTAAAATAACTGATATACCCCTATGA
Found at i:11696843 original size:25 final size:28
Alignment explanation
Indices: 11696793--11696844 Score: 74
Period size: 25 Copynumber: 2.0 Consensus size: 28
11696783 CAATATTTTT
*
11696793 GCATGAAAATTGATATGATAGGAAAATC
1 GCATGAAAATTGATATGATAGAAAAATC
11696821 GCATGAAAA-T-AT-TGATAGAAAAAT
1 GCATGAAAATTGATATGATAGAAAAAT
11696845 TTTATCGATT
Statistics
Matches: 23, Mismatches: 1, Indels: 3
0.85 0.04 0.11
Matches are distributed among these distances:
25 11 0.48
26 2 0.09
27 1 0.04
28 9 0.39
ACGTcount: A:0.50, C:0.06, G:0.19, T:0.25
Consensus pattern (28 bp):
GCATGAAAATTGATATGATAGAAAAATC
Found at i:11705890 original size:30 final size:30
Alignment explanation
Indices: 11705856--11705916 Score: 122
Period size: 30 Copynumber: 2.0 Consensus size: 30
11705846 ATTCTATTGT
11705856 TAGAAATGAATTATTGTTGGAATTATAATA
1 TAGAAATGAATTATTGTTGGAATTATAATA
11705886 TAGAAATGAATTATTGTTGGAATTATAATA
1 TAGAAATGAATTATTGTTGGAATTATAATA
11705916 T
1 T
11705917 TGAATTAGAT
Statistics
Matches: 31, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
30 31 1.00
ACGTcount: A:0.43, C:0.00, G:0.16, T:0.41
Consensus pattern (30 bp):
TAGAAATGAATTATTGTTGGAATTATAATA
Found at i:11709988 original size:28 final size:29
Alignment explanation
Indices: 11709934--11709999 Score: 77
Period size: 28 Copynumber: 2.3 Consensus size: 29
11709924 AACATAAATA
11709934 TAATATT--AATATTTTTAGTTATCA-TT
1 TAATATTAAAATATTTTTAGTTATCATTT
*
11709960 TAATATTAAAATATTTTTATTTTAT-ATTT
1 TAATATTAAAATATTTTTA-GTTATCATTT
11709989 TAATTATTAAA
1 TAA-TATTAAA
11710000 TATAAATATA
Statistics
Matches: 34, Mismatches: 1, Indels: 6
0.83 0.02 0.15
Matches are distributed among these distances:
26 7 0.21
28 11 0.32
29 9 0.26
30 7 0.21
ACGTcount: A:0.39, C:0.02, G:0.02, T:0.58
Consensus pattern (29 bp):
TAATATTAAAATATTTTTAGTTATCATTT
Found at i:11710000 original size:29 final size:27
Alignment explanation
Indices: 11709934--11710002 Score: 79
Period size: 29 Copynumber: 2.5 Consensus size: 27
11709924 AACATAAATA
11709934 TAATATT-AATATTTTTAGTTATCATT
1 TAATATTAAATATTTTTAGTTATCATT
*
11709960 TAATATTAAAATATTTTTATTTTAT-ATTT
1 TAATATT-AAATATTTTTA-GTTATCA-TT
11709989 TAATTATTAAATAT
1 TAA-TATTAAATAT
11710003 AAATATATTT
Statistics
Matches: 37, Mismatches: 1, Indels: 7
0.82 0.02 0.16
Matches are distributed among these distances:
26 7 0.19
28 11 0.30
29 15 0.41
30 4 0.11
ACGTcount: A:0.39, C:0.01, G:0.01, T:0.58
Consensus pattern (27 bp):
TAATATTAAATATTTTTAGTTATCATT
Found at i:11710518 original size:26 final size:26
Alignment explanation
Indices: 11710480--11710615 Score: 209
Period size: 26 Copynumber: 5.2 Consensus size: 26
11710470 TGATACAAAT
* *
11710480 TGATAATATGTTAGGTAAATGTTTCA
1 TGATAATAGGTTAGGTAAATGTTCCA
*
11710506 TGATAATAGGTTAGATAAATGTTCCA
1 TGATAATAGGTTAGGTAAATGTTCCA
*
11710532 TGATAATAGGTTAGGTAAATATTCCA
1 TGATAATAGGTTAGGTAAATGTTCCA
*
11710558 TGATAATGGGTTAGGTAAATGTTCCA
1 TGATAATAGGTTAGGTAAATGTTCCA
* *
11710584 TGATAATTGGTTAGGTAAATGTTTCA
1 TGATAATAGGTTAGGTAAATGTTCCA
11710610 TGATAA
1 TGATAA
11710616 GAATTTCATG
Statistics
Matches: 101, Mismatches: 9, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
26 101 1.00
ACGTcount: A:0.35, C:0.06, G:0.21, T:0.38
Consensus pattern (26 bp):
TGATAATAGGTTAGGTAAATGTTCCA
Found at i:11712301 original size:28 final size:27
Alignment explanation
Indices: 11712235--11712321 Score: 106
Period size: 27 Copynumber: 3.2 Consensus size: 27
11712225 GAGGAAGCGT
* *
11712235 TCTGGTGGCTATGCCACAAATATCTG-A
1 TCTGGTGGCTCTGCCAC-ATTATCTGTA
11712262 TCTGGTGGCTCTGCCACGATTATCTGTA
1 TCTGGTGGCTCTGCCAC-ATTATCTGTA
* *
11712290 TCTGGTGACTCTGTCACATTATCTGT-
1 TCTGGTGGCTCTGCCACATTATCTGTA
11712316 TCTGGT
1 TCTGGT
11712322 AGCCATGCTG
Statistics
Matches: 54, Mismatches: 5, Indels: 3
0.87 0.08 0.05
Matches are distributed among these distances:
26 6 0.11
27 32 0.59
28 16 0.30
ACGTcount: A:0.17, C:0.23, G:0.23, T:0.37
Consensus pattern (27 bp):
TCTGGTGGCTCTGCCACATTATCTGTA
Found at i:11720835 original size:91 final size:91
Alignment explanation
Indices: 11720697--11720904 Score: 335
Period size: 91 Copynumber: 2.3 Consensus size: 91
11720687 TTGATTTTAG
* *
11720697 TAAATTCATATAAGAACATTTTATTATTAAGAATTTTATGAAATTATATATCATTATTAAATTAT
1 TAAATTCATATAAGAA-AATTTATTATCAAGAATTTTATGAAATTATATATCATTATTAAATTAT
* * *
11720762 ATTTAATATTAATTATTTTAAATTGTA
65 ATGTAATAATAATTATTTTAAATTATA
*
11720789 TAAATTCATATAAGAAAATTTATTATCAAGAATTTTATGAAATTATATATTATTATTAAATTATA
1 TAAATTCATATAAGAAAATTTATTATCAAGAATTTTATGAAATTATATATCATTATTAAATTATA
11720854 TGTAATAATAATTATTTTAAATTATA
66 TGTAATAATAATTATTTTAAATTATA
* *
11720880 CAAATTCATATAAGATAATTTATTA
1 TAAATTCATATAAGAAAATTTATTA
11720905 GTTATAATTA
Statistics
Matches: 108, Mismatches: 8, Indels: 1
0.92 0.07 0.01
Matches are distributed among these distances:
91 92 0.85
92 16 0.15
ACGTcount: A:0.46, C:0.03, G:0.04, T:0.47
Consensus pattern (91 bp):
TAAATTCATATAAGAAAATTTATTATCAAGAATTTTATGAAATTATATATCATTATTAAATTATA
TGTAATAATAATTATTTTAAATTATA
Found at i:11720873 original size:26 final size:28
Alignment explanation
Indices: 11720819--11720879 Score: 81
Period size: 28 Copynumber: 2.2 Consensus size: 28
11720809 TATTATCAAG
* *
11720819 AATTTTATGAAATTATATATTATTATTA
1 AATTATATGAAATAATATATTATTATTA
*
11720847 AATTATATGTAATAATA-ATTATT-TTA
1 AATTATATGAAATAATATATTATTATTA
11720873 AATTATA
1 AATTATA
11720880 CAAATTCATA
Statistics
Matches: 30, Mismatches: 3, Indels: 2
0.86 0.09 0.06
Matches are distributed among these distances:
26 10 0.33
27 6 0.20
28 14 0.47
ACGTcount: A:0.46, C:0.00, G:0.03, T:0.51
Consensus pattern (28 bp):
AATTATATGAAATAATATATTATTATTA
Found at i:11720879 original size:44 final size:43
Alignment explanation
Indices: 11720737--11720879 Score: 121
Period size: 44 Copynumber: 3.2 Consensus size: 43
11720727 GAATTTTATG
* *
11720737 AAATTATATATCATTATTAAATTATATTTAATATTAATTATTTT
1 AAATTATATATTATTATTAAATTATA-TTAATAATAATTATTTT
* ** * *
11720781 AAATTGTATAAATTCATATAAGAAAATT-TATT-ATCAAGAATT-TTATG
1 AAA-T-TATATATT-AT-T-ATTAAATTATATTAAT-AATAATTATT-TT
11720828 AAATTATATATTATTATTAAATTATATGTAATAATAATTATTTT
1 AAATTATATATTATTATTAAATTATAT-TAATAATAATTATTTT
11720872 AAATTATA
1 AAATTATA
11720880 CAAATTCATA
Statistics
Matches: 76, Mismatches: 12, Indels: 22
0.69 0.11 0.20
Matches are distributed among these distances:
42 6 0.08
43 4 0.05
44 21 0.28
45 12 0.16
46 11 0.14
47 13 0.17
48 3 0.04
49 6 0.08
ACGTcount: A:0.46, C:0.02, G:0.03, T:0.48
Consensus pattern (43 bp):
AAATTATATATTATTATTAAATTATATTAATAATAATTATTTT
Found at i:11720997 original size:59 final size:57
Alignment explanation
Indices: 11720931--11721119 Score: 152
Period size: 59 Copynumber: 3.2 Consensus size: 57
11720921 ATTTTATTAA
11720931 ATCATATATTTTAATTAAAATATATTTAATATTAATTATTTCAAATTATCTTTTATAGT
1 ATCATATATTTTAATTAAAATATATTTAATATTAATTATTT-AAATTAT-TTTTATAGT
* * ** * *
11720990 ATCATATATTATGATTTGAGTAAATTCATATAAGAATATTAATTATTAAGAATT-TTATTA-A--
1 ATCATATATT-TTAATT-A--AAA-T-ATAT-TTAATATTAATTATTTA-AATTATTTTTATAGT
* * * *
11721051 ATTATATATTTTAATTATAATATATTTAATAATAATTATGTTAATTTATATTTTATAGT
1 ATCATATATTTTAATTAAAATATATTTAATATTAATTAT-TTAAATTAT-TTTTATAGT
11721110 ATCATATATT
1 ATCATATATT
11721120 ATGATTTGAG
Statistics
Matches: 99, Mismatches: 17, Indels: 28
0.69 0.12 0.19
Matches are distributed among these distances:
54 14 0.14
55 7 0.07
56 5 0.05
57 3 0.03
59 20 0.20
60 8 0.08
61 10 0.10
63 4 0.04
64 5 0.05
65 6 0.06
66 17 0.17
ACGTcount: A:0.42, C:0.03, G:0.04, T:0.51
Consensus pattern (57 bp):
ATCATATATTTTAATTAAAATATATTTAATATTAATTATTTAAATTATTTTTATAGT
Found at i:11721028 original size:66 final size:64
Alignment explanation
Indices: 11720958--11721158 Score: 183
Period size: 66 Copynumber: 3.2 Consensus size: 64
11720948 AAATATATTT
11720958 AATATTAATTATTTCAAATTATCTTTTATAGTATCATATATTATGATTTGAGTAAATTCATATAA
1 AATATTAATTATTT-AAATTAT-TTTTATAGTATCATATATTATGATTTGAGTAAATTCATATAA
11721023 G
64 G
* * * * * **
11721024 AATATTAATTATTAAGAATT-TTATTA-A--ATTATATATT-TTAATT-A-T-AA-T-ATAT-TT
1 AATATTAATTATTTA-AATTATTTTTATAGTATCATATATTATGATTTGAGTAAATTCATATAAG
* *
11721078 AATAATAATTATGTTAATTTATATTTTATAGTATCATATATTATGATTTGAGTAAATTCATATAA
1 AATATTAATTAT-TTAAATTAT-TTTTATAGTATCATATATTATGATTTGAGTAAATTCATATAA
11721143 G
64 G
*
11721144 AATATTGATT-TTTAA
1 AATATTAATTATTTAA
11721159 GAATTTTATT
Statistics
Matches: 103, Mismatches: 18, Indels: 30
0.68 0.12 0.20
Matches are distributed among these distances:
54 14 0.14
55 7 0.07
56 5 0.05
57 3 0.03
58 1 0.01
59 10 0.10
60 8 0.08
61 10 0.10
62 1 0.01
63 3 0.03
64 9 0.09
65 7 0.07
66 25 0.24
ACGTcount: A:0.41, C:0.03, G:0.06, T:0.49
Consensus pattern (64 bp):
AATATTAATTATTTAAATTATTTTTATAGTATCATATATTATGATTTGAGTAAATTCATATAAG
Found at i:11721044 original size:120 final size:120
Alignment explanation
Indices: 11720920--11721217 Score: 508
Period size: 120 Copynumber: 2.5 Consensus size: 120
11720910 AATTATTTTA
* * *
11720920 AATTTTATTAAATCATATATTTTAATTAAAATATATTTAATATTAATTAT-TTCAAATTATCTTT
1 AATTTTATTAAATTATATATTTTAATTAAAATATATTTAATAATAATTATGTT-AAATTATATTT
11720984 TATAGTATCATATATTATGATTTGAGTAAATTCATATAAGAATATTAATTATTAAG
65 TATAGTATCATATATTATGATTTGAGTAAATTCATATAAGAATATTAATTATTAAG
* *
11721040 AATTTTATTAAATTATATATTTTAATTATAATATATTTAATAATAATTATGTTAATTTATATTTT
1 AATTTTATTAAATTATATATTTTAATTAAAATATATTTAATAATAATTATGTTAAATTATATTTT
* *
11721105 ATAGTATCATATATTATGATTTGAGTAAATTCATATAAGAATATTGATTTTTAAG
66 ATAGTATCATATATTATGATTTGAGTAAATTCATATAAGAATATTAATTATTAAG
11721160 AATTTTATTAAATTATATATTTTAATTAAAATATATTTAATAATAATTATGTTTAAAT
1 AATTTTATTAAATTATATATTTTAATTAAAATATATTTAATAATAATTATG-TTAAAT
11721218 ATGATTAAAT
Statistics
Matches: 167, Mismatches: 9, Indels: 3
0.93 0.05 0.02
Matches are distributed among these distances:
120 160 0.96
121 7 0.04
ACGTcount: A:0.43, C:0.02, G:0.05, T:0.50
Consensus pattern (120 bp):
AATTTTATTAAATTATATATTTTAATTAAAATATATTTAATAATAATTATGTTAAATTATATTTT
ATAGTATCATATATTATGATTTGAGTAAATTCATATAAGAATATTAATTATTAAG
Found at i:11721080 original size:15 final size:15
Alignment explanation
Indices: 11721045--11721096 Score: 56
Period size: 15 Copynumber: 3.6 Consensus size: 15
11721035 TTAAGAATTT
*
11721045 TATTAAATTAT-ATA
1 TATTTAATTATAATA
11721059 T-TTTAATTATAATA
1 TATTTAATTATAATA
*
11721073 TATTTAATAATAAT-
1 TATTTAATTATAATA
11721087 TATGTTAATT
1 TAT-TTAATT
11721097 TATATTTTAT
Statistics
Matches: 32, Mismatches: 3, Indels: 5
0.80 0.08 0.12
Matches are distributed among these distances:
13 8 0.25
14 8 0.25
15 16 0.50
ACGTcount: A:0.44, C:0.00, G:0.02, T:0.54
Consensus pattern (15 bp):
TATTTAATTATAATA
Found at i:11721189 original size:18 final size:17
Alignment explanation
Indices: 11721161--11721195 Score: 52
Period size: 18 Copynumber: 2.0 Consensus size: 17
11721151 ATTTTTAAGA
*
11721161 ATTTTATTAAATTATAT
1 ATTTTATTAAAATATAT
11721178 ATTTTAATTAAAATATAT
1 ATTTT-ATTAAAATATAT
11721196 TTAATAATAA
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
17 5 0.31
18 11 0.69
ACGTcount: A:0.46, C:0.00, G:0.00, T:0.54
Consensus pattern (17 bp):
ATTTTATTAAAATATAT
Found at i:11721425 original size:44 final size:45
Alignment explanation
Indices: 11721360--11721450 Score: 121
Period size: 45 Copynumber: 2.0 Consensus size: 45
11721350 ACCTCTATTC
* * *
11721360 CATTCAACCAAACACAAGATTA-CTATTACGCCTCTATTCCATTA
1 CATTCAACCAAACACAAGATTAGCTATTACACCTCTAATCCAATA
***
11721404 CATTCAACCAAACAGTGGATTAGCTATTACACCTCTAATCCAATA
1 CATTCAACCAAACACAAGATTAGCTATTACACCTCTAATCCAATA
11721449 CA
1 CA
11721451 CCTCTAATCC
Statistics
Matches: 40, Mismatches: 6, Indels: 1
0.85 0.13 0.02
Matches are distributed among these distances:
44 19 0.47
45 21 0.52
ACGTcount: A:0.37, C:0.29, G:0.07, T:0.27
Consensus pattern (45 bp):
CATTCAACCAAACACAAGATTAGCTATTACACCTCTAATCCAATA
Found at i:11721452 original size:16 final size:16
Alignment explanation
Indices: 11721431--11721499 Score: 129
Period size: 16 Copynumber: 4.2 Consensus size: 16
11721421 GATTAGCTAT
11721431 TACACCTCTAATCCAA
1 TACACCTCTAATCCAA
11721447 TACACCTCTAATCCCAA
1 TACACCTCTAAT-CCAA
11721464 TACACCTCTAATCCAA
1 TACACCTCTAATCCAA
11721480 TACACCTCTAATCCAA
1 TACACCTCTAATCCAA
11721496 TACA
1 TACA
11721500 GCGAACCAAA
Statistics
Matches: 52, Mismatches: 0, Indels: 2
0.96 0.00 0.04
Matches are distributed among these distances:
16 36 0.69
17 16 0.31
ACGTcount: A:0.38, C:0.38, G:0.00, T:0.25
Consensus pattern (16 bp):
TACACCTCTAATCCAA
Found at i:11721473 original size:33 final size:32
Alignment explanation
Indices: 11721431--11721499 Score: 129
Period size: 33 Copynumber: 2.1 Consensus size: 32
11721421 GATTAGCTAT
11721431 TACACCTCTAATCCAATACACCTCTAATCCCAA
1 TACACCTCTAATCCAATACACCTCTAAT-CCAA
11721464 TACACCTCTAATCCAATACACCTCTAATCCAA
1 TACACCTCTAATCCAATACACCTCTAATCCAA
11721496 TACA
1 TACA
11721500 GCGAACCAAA
Statistics
Matches: 36, Mismatches: 0, Indels: 1
0.97 0.00 0.03
Matches are distributed among these distances:
32 8 0.22
33 28 0.78
ACGTcount: A:0.38, C:0.38, G:0.00, T:0.25
Consensus pattern (32 bp):
TACACCTCTAATCCAATACACCTCTAATCCAA
Found at i:11724224 original size:15 final size:15
Alignment explanation
Indices: 11724162--11724236 Score: 56
Period size: 15 Copynumber: 5.3 Consensus size: 15
11724152 CTGTAAAATT
11724162 TAATATATATTATAA
1 TAATATATATTATAA
* *
11724177 TAAAATATATT-TAC
1 TAATATATATTATAA
*
11724191 T--TA-ACATT-TAA
1 TAATATATATTATAA
11724202 GT-ATATATATTATAA
1 -TAATATATATTATAA
11724217 TAATATAT-TATATAA
1 TAATATATAT-TATAA
11724232 TAATA
1 TAATA
11724237 AAACAATTAA
Statistics
Matches: 48, Mismatches: 6, Indels: 12
0.73 0.09 0.18
Matches are distributed among these distances:
11 6 0.12
12 2 0.04
13 2 0.04
14 9 0.19
15 29 0.60
ACGTcount: A:0.51, C:0.03, G:0.01, T:0.45
Consensus pattern (15 bp):
TAATATATATTATAA
Found at i:11724234 original size:18 final size:17
Alignment explanation
Indices: 11724162--11724237 Score: 55
Period size: 18 Copynumber: 4.2 Consensus size: 17
11724152 CTGTAAAATT
11724162 TAATATATATTATAATAA
1 TAATATATA-TATAATAA
* * *
11724180 -AATATATTTACTTAACATT
1 TAATATATATA--TAATA-A
*
11724199 TAAGTATATATATTATAA
1 TAA-TATATATATAATAA
11724217 TAATATATTATATAATAA
1 TAATATA-TATATAATAA
11724235 TAA
1 TAA
11724238 AACAATTAAA
Statistics
Matches: 44, Mismatches: 8, Indels: 12
0.69 0.12 0.19
Matches are distributed among these distances:
16 2 0.05
17 11 0.25
18 19 0.43
19 3 0.07
20 2 0.05
21 7 0.16
ACGTcount: A:0.51, C:0.03, G:0.01, T:0.45
Consensus pattern (17 bp):
TAATATATATATAATAA
Found at i:11725282 original size:40 final size:40
Alignment explanation
Indices: 11725160--11725293 Score: 123
Period size: 40 Copynumber: 3.4 Consensus size: 40
11725150 GCTTCGAGTC
*
11725160 GATGAGACACTGGGTGTCAAATCATTACTTCGGATATAT-T
1 GATGAGACACTGGGTGTCAAATTATTACTTCGGAT-TATCT
* * * * * * *
11725200 CAATGAGGCACTGGGTG-CCAA-T-TTACTTTGGTTTAACC
1 -GATGAGACACTGGGTGTCAAATTATTACTTCGGATTATCT
* *
11725238 GATGAGACACTAGGTGTCAAATTATTACTTCGAATTATCT
1 GATGAGACACTGGGTGTCAAATTATTACTTCGGATTATCT
*
11725278 GATGAGGCACTGGGTG
1 GATGAGACACTGGGTG
11725294 CCAACCTGGT
Statistics
Matches: 70, Mismatches: 19, Indels: 9
0.71 0.19 0.09
Matches are distributed among these distances:
37 15 0.21
38 12 0.17
39 1 0.01
40 28 0.40
41 14 0.20
ACGTcount: A:0.28, C:0.16, G:0.25, T:0.31
Consensus pattern (40 bp):
GATGAGACACTGGGTGTCAAATTATTACTTCGGATTATCT
Found at i:11729699 original size:12 final size:12
Alignment explanation
Indices: 11729682--11729706 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
11729672 ATTAAATTGT
11729682 AAAAATTAAATA
1 AAAAATTAAATA
11729694 AAAAATTAAATA
1 AAAAATTAAATA
11729706 A
1 A
11729707 TATTAAAAAA
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 13 1.00
ACGTcount: A:0.76, C:0.00, G:0.00, T:0.24
Consensus pattern (12 bp):
AAAAATTAAATA
Found at i:11730120 original size:20 final size:20
Alignment explanation
Indices: 11730095--11730136 Score: 75
Period size: 20 Copynumber: 2.1 Consensus size: 20
11730085 GTGCTTTTGC
11730095 CTGACACAAGGAGAAAAGCA
1 CTGACACAAGGAGAAAAGCA
*
11730115 CTGACATAAGGAGAAAAGCA
1 CTGACACAAGGAGAAAAGCA
11730135 CT
1 CT
11730137 AACTTGGACA
Statistics
Matches: 21, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
20 21 1.00
ACGTcount: A:0.48, C:0.19, G:0.24, T:0.10
Consensus pattern (20 bp):
CTGACACAAGGAGAAAAGCA
Found at i:11747210 original size:15 final size:16
Alignment explanation
Indices: 11747190--11747220 Score: 55
Period size: 16 Copynumber: 2.0 Consensus size: 16
11747180 AATAATATAA
11747190 TTTAAAA-TTATTATT
1 TTTAAAATTTATTATT
11747205 TTTAAAATTTATTATT
1 TTTAAAATTTATTATT
11747221 AAAATAAATT
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
15 7 0.47
16 8 0.53
ACGTcount: A:0.39, C:0.00, G:0.00, T:0.61
Consensus pattern (16 bp):
TTTAAAATTTATTATT
Found at i:11747273 original size:22 final size:22
Alignment explanation
Indices: 11747233--11747288 Score: 62
Period size: 22 Copynumber: 2.6 Consensus size: 22
11747223 AATAAATTTG
*
11747233 AAATATTAAA-TA-ATTTATTA
1 AAATAATAAATTATATTTATTA
11747253 AAATAATAAATTATATTTATTA
1 AAATAATAAATTATATTTATTA
* * *
11747275 TATTAATAATTTAT
1 AAATAATAAATTAT
11747289 TAGACTAAAT
Statistics
Matches: 30, Mismatches: 4, Indels: 2
0.83 0.11 0.06
Matches are distributed among these distances:
20 9 0.30
21 2 0.07
22 19 0.63
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (22 bp):
AAATAATAAATTATATTTATTA
Found at i:11747385 original size:24 final size:23
Alignment explanation
Indices: 11747349--11747395 Score: 58
Period size: 24 Copynumber: 2.0 Consensus size: 23
11747339 ATAATATTTT
*
11747349 AAATTTTTTTTAAAATAAAAATA
1 AAATTTTTATTAAAATAAAAATA
* *
11747372 AAATTTATTATTAATATAATAATA
1 AAATTT-TTATTAAAATAAAAATA
11747396 TTAAGCTTGA
Statistics
Matches: 20, Mismatches: 3, Indels: 1
0.83 0.12 0.04
Matches are distributed among these distances:
23 6 0.30
24 14 0.70
ACGTcount: A:0.55, C:0.00, G:0.00, T:0.45
Consensus pattern (23 bp):
AAATTTTTATTAAAATAAAAATA
Found at i:11748558 original size:26 final size:26
Alignment explanation
Indices: 11748522--11748580 Score: 118
Period size: 26 Copynumber: 2.3 Consensus size: 26
11748512 ATCGTATTAA
11748522 GTGCTTGCAATCACTCCAAATATGTC
1 GTGCTTGCAATCACTCCAAATATGTC
11748548 GTGCTTGCAATCACTCCAAATATGTC
1 GTGCTTGCAATCACTCCAAATATGTC
11748574 GTGCTTG
1 GTGCTTG
11748581 AGTTGTGACA
Statistics
Matches: 33, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
26 33 1.00
ACGTcount: A:0.24, C:0.25, G:0.19, T:0.32
Consensus pattern (26 bp):
GTGCTTGCAATCACTCCAAATATGTC
Found at i:11753588 original size:40 final size:40
Alignment explanation
Indices: 11753539--11753619 Score: 144
Period size: 40 Copynumber: 2.0 Consensus size: 40
11753529 GATAATTAGG
11753539 ACTAAATTGCATAAAGAGTGAAAGTTGAATTATAAATTAA
1 ACTAAATTGCATAAAGAGTGAAAGTTGAATTATAAATTAA
* *
11753579 ACTAGATTGCATAAAGAGTGAAAGTTGAATTATCAATTAA
1 ACTAAATTGCATAAAGAGTGAAAGTTGAATTATAAATTAA
11753619 A
1 A
11753620 GAATAATTAA
Statistics
Matches: 39, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
40 39 1.00
ACGTcount: A:0.48, C:0.06, G:0.16, T:0.30
Consensus pattern (40 bp):
ACTAAATTGCATAAAGAGTGAAAGTTGAATTATAAATTAA
Found at i:11763223 original size:36 final size:36
Alignment explanation
Indices: 11763176--11763245 Score: 122
Period size: 36 Copynumber: 1.9 Consensus size: 36
11763166 AAGTTCAACT
*
11763176 TACTAATCTCCCTAATGTAAATCGTTATGCAGCACC
1 TACTAATCTCCCCAATGTAAATCGTTATGCAGCACC
*
11763212 TACTAATCTCCCCACTGTAAATCGTTATGCAGCA
1 TACTAATCTCCCCAATGTAAATCGTTATGCAGCA
11763246 TACAAAAAGG
Statistics
Matches: 32, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
36 32 1.00
ACGTcount: A:0.30, C:0.29, G:0.11, T:0.30
Consensus pattern (36 bp):
TACTAATCTCCCCAATGTAAATCGTTATGCAGCACC
Found at i:11775522 original size:17 final size:18
Alignment explanation
Indices: 11775489--11775522 Score: 52
Period size: 18 Copynumber: 1.9 Consensus size: 18
11775479 TATCTATTAT
*
11775489 TTAAAAAATATATATTTA
1 TTAAAAAATATAAATTTA
11775507 TTAAAAAAT-TAAATTT
1 TTAAAAAATATAAATTT
11775523 TTTATTATAA
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
17 6 0.40
18 9 0.60
ACGTcount: A:0.56, C:0.00, G:0.00, T:0.44
Consensus pattern (18 bp):
TTAAAAAATATAAATTTA
Found at i:11783031 original size:84 final size:83
Alignment explanation
Indices: 11782824--11783034 Score: 269
Period size: 84 Copynumber: 2.5 Consensus size: 83
11782814 CAGGAGCTGC
* * ** *
11782824 TTCCGGGGTTTCTGTTGGCAAGGGAGAAGTTTCGGGGGCCAGATACACGGATGGTGGGAGAGAAG
1 TTCCGGGGTTTCCGTTGGC-AGGGAGAAGTTTCGGGAGCTGGATACACGGATGGTGGGAAAGAAG
* * * *
11782889 GCGAGGTTTCTGGAGCTAT
65 GCGAAGTTTCCGGAGCCAA
*
11782908 TTCCGGGGTTTCCATTGGCATGGGAGAAGTTTCGGGAGCTGGATACACGGATGGTGGGAAAGAAG
1 TTCCGGGGTTTCCGTTGGCA-GGGAGAAGTTTCGGGAGCTGGATACACGGATGGTGGGAAAGAAG
11782973 GCGAAGTTTCCGGAGCCAA
65 GCGAAGTTTCCGGAGCCAA
* * * *
11782992 TTCCGGAGTTTCGGCTGGCGAGGGAGAAGTTTCCGGAGCTGGA
1 TTCCGGGGTTTCCGTTGGC-AGGGAGAAGTTTCGGGAGCTGGA
11783035 GAGGCCGAGG
Statistics
Matches: 110, Mismatches: 15, Indels: 4
0.85 0.12 0.03
Matches are distributed among these distances:
83 1 0.01
84 108 0.98
85 1 0.01
ACGTcount: A:0.21, C:0.16, G:0.40, T:0.23
Consensus pattern (83 bp):
TTCCGGGGTTTCCGTTGGCAGGGAGAAGTTTCGGGAGCTGGATACACGGATGGTGGGAAAGAAGG
CGAAGTTTCCGGAGCCAA
Found at i:11784296 original size:17 final size:18
Alignment explanation
Indices: 11784274--11784308 Score: 63
Period size: 17 Copynumber: 2.0 Consensus size: 18
11784264 TCACAAATGG
11784274 ACTTATTCTTAA-TTTTC
1 ACTTATTCTTAACTTTTC
11784291 ACTTATTCTTAACTTTTC
1 ACTTATTCTTAACTTTTC
11784309 TAACTTAACT
Statistics
Matches: 17, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
17 12 0.71
18 5 0.29
ACGTcount: A:0.23, C:0.20, G:0.00, T:0.57
Consensus pattern (18 bp):
ACTTATTCTTAACTTTTC
Found at i:11787124 original size:19 final size:17
Alignment explanation
Indices: 11787102--11787137 Score: 54
Period size: 19 Copynumber: 2.0 Consensus size: 17
11787092 TTTTTAAGGA
11787102 TAATTTTTATATATTTTTT
1 TAATTTTTA-AT-TTTTTT
11787121 TAATTTTTAATTTTTTT
1 TAATTTTTAATTTTTTT
11787138 AAAAAATTAA
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
17 6 0.35
18 2 0.12
19 9 0.53
ACGTcount: A:0.25, C:0.00, G:0.00, T:0.75
Consensus pattern (17 bp):
TAATTTTTAATTTTTTT
Found at i:11788459 original size:27 final size:27
Alignment explanation
Indices: 11788388--11788460 Score: 101
Period size: 27 Copynumber: 2.7 Consensus size: 27
11788378 ATCGAGCCTT
* * * *
11788388 TCTCTGAGGTGCAAATGATTGTGCCTA
1 TCTCAGAGGCGCAAATGGTTGTACCTA
*
11788415 CCTCAGAGGCGCAAATGGTTGTACCTA
1 TCTCAGAGGCGCAAATGGTTGTACCTA
11788442 TCTCAGAGGCGCAAATGGT
1 TCTCAGAGGCGCAAATGGT
11788461 GGAGCCCACA
Statistics
Matches: 40, Mismatches: 6, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
27 40 1.00
ACGTcount: A:0.25, C:0.22, G:0.27, T:0.26
Consensus pattern (27 bp):
TCTCAGAGGCGCAAATGGTTGTACCTA
Found at i:11795257 original size:60 final size:60
Alignment explanation
Indices: 11795173--11795291 Score: 195
Period size: 60 Copynumber: 2.0 Consensus size: 60
11795163 ATACTAAACT
* *
11795173 AAACACAACAATTTATAACTTAATCCTAAATTACTAATAAATTAATTTTAAAATAATTAC
1 AAACACAACAATTTATAACATAATCCTAAATTACTAACAAATTAATTTTAAAATAATTAC
*
11795233 AAACACAA-AATTTTTTAACATAATCCTAAATTACTAACAAATTAATTTTAAAATAATTA
1 AAACACAACAA-TTTATAACATAATCCTAAATTACTAACAAATTAATTTTAAAATAATTA
11795292 TAAAAAACAA
Statistics
Matches: 55, Mismatches: 3, Indels: 2
0.92 0.05 0.03
Matches are distributed among these distances:
59 2 0.04
60 53 0.96
ACGTcount: A:0.52, C:0.13, G:0.00, T:0.35
Consensus pattern (60 bp):
AAACACAACAATTTATAACATAATCCTAAATTACTAACAAATTAATTTTAAAATAATTAC
Found at i:11795488 original size:17 final size:17
Alignment explanation
Indices: 11795458--11795497 Score: 55
Period size: 17 Copynumber: 2.4 Consensus size: 17
11795448 ACATTTTTTT
11795458 TTCTTTTTTCTTTCTTC
1 TTCTTTTTTCTTTCTTC
11795475 TTCTTCTTTT-TTTCTTC
1 TTCTT-TTTTCTTTCTTC
*
11795492 TCCTTT
1 TTCTTT
11795498 CTCCCTTTTT
Statistics
Matches: 21, Mismatches: 1, Indels: 3
0.84 0.04 0.12
Matches are distributed among these distances:
16 1 0.05
17 16 0.76
18 4 0.19
ACGTcount: A:0.00, C:0.25, G:0.00, T:0.75
Consensus pattern (17 bp):
TTCTTTTTTCTTTCTTC
Found at i:11795499 original size:21 final size:23
Alignment explanation
Indices: 11795461--11795519 Score: 65
Period size: 21 Copynumber: 2.8 Consensus size: 23
11795451 TTTTTTTTTC
* *
11795461 TTTTTTCTT-TCTTCTTCT-TCT
1 TTTTTTCTTCTCCTCTTCTCCCT
11795482 TTTTTTCTTCTCCT-TTCTCCCT
1 TTTTTTCTTCTCCTCTTCTCCCT
11795504 TTTTTT-TTCT-CTCTTC
1 TTTTTTCTTCTCCTCTTC
11795520 CGGTGTGTGG
Statistics
Matches: 33, Mismatches: 2, Indels: 6
0.80 0.05 0.15
Matches are distributed among these distances:
20 2 0.06
21 20 0.61
22 11 0.33
ACGTcount: A:0.00, C:0.29, G:0.00, T:0.71
Consensus pattern (23 bp):
TTTTTTCTTCTCCTCTTCTCCCT
Found at i:11795499 original size:24 final size:21
Alignment explanation
Indices: 11795461--11795519 Score: 57
Period size: 24 Copynumber: 2.7 Consensus size: 21
11795451 TTTTTTTTTC
*
11795461 TTTTTTCTTTCTTCT-TCTTCT
1 TTTTTTCTTTCTTCTCCCTT-T
11795482 TTTTTTCTTCTCCTTTCTCCCTTT
1 TTTTTTCTT-T-C-TTCTCCCTTT
*
11795506 TTTTTTCTCTCTTC
1 TTTTTTCTTTCTTC
11795520 CGGTGTGTGG
Statistics
Matches: 32, Mismatches: 2, Indels: 8
0.76 0.05 0.19
Matches are distributed among these distances:
21 12 0.38
22 2 0.06
23 2 0.06
24 13 0.41
25 3 0.09
ACGTcount: A:0.00, C:0.29, G:0.00, T:0.71
Consensus pattern (21 bp):
TTTTTTCTTTCTTCTCCCTTT
Found at i:11814262 original size:28 final size:27
Alignment explanation
Indices: 11814199--11814350 Score: 241
Period size: 27 Copynumber: 5.6 Consensus size: 27
11814189 ATATTAAGTC
* * *
11814199 CGCACACTCAGTGCTATATAATCAACT
1 CGCACACTTAGTGCTACATAGTCAACT
*
11814226 CGCACACTTAGTGCTACATAATCAAACT
1 CGCACACTTAGTGCTACATAGTC-AACT
11814254 CGCACACTTAGTGCTACATAGTCAACT
1 CGCACACTTAGTGCTACATAGTCAACT
11814281 CGCACACTTAGTGCTACATAGTCAAACT
1 CGCACACTTAGTGCTACATAGTC-AACT
*
11814309 CGCACACTTAGTGCTACATAGTCAATT
1 CGCACACTTAGTGCTACATAGTCAACT
11814336 CGCACACTTAGTGCT
1 CGCACACTTAGTGCT
11814351 GCACAATTTA
Statistics
Matches: 119, Mismatches: 4, Indels: 4
0.94 0.03 0.03
Matches are distributed among these distances:
27 66 0.55
28 53 0.45
ACGTcount: A:0.31, C:0.29, G:0.14, T:0.26
Consensus pattern (27 bp):
CGCACACTTAGTGCTACATAGTCAACT
Found at i:11814283 original size:55 final size:55
Alignment explanation
Indices: 11814199--11814350 Score: 259
Period size: 55 Copynumber: 2.8 Consensus size: 55
11814189 ATATTAAGTC
* * *
11814199 CGCACACTCAGTGCTATATAATCAACTCGCACACTTAGTGCTACATAATCAAACT
1 CGCACACTTAGTGCTACATAGTCAACTCGCACACTTAGTGCTACATAATCAAACT
*
11814254 CGCACACTTAGTGCTACATAGTCAACTCGCACACTTAGTGCTACATAGTCAAACT
1 CGCACACTTAGTGCTACATAGTCAACTCGCACACTTAGTGCTACATAATCAAACT
*
11814309 CGCACACTTAGTGCTACATAGTCAATTCGCACACTTAGTGCT
1 CGCACACTTAGTGCTACATAGTCAACTCGCACACTTAGTGCT
11814351 GCACAATTTA
Statistics
Matches: 92, Mismatches: 5, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
55 92 1.00
ACGTcount: A:0.31, C:0.29, G:0.14, T:0.26
Consensus pattern (55 bp):
CGCACACTTAGTGCTACATAGTCAACTCGCACACTTAGTGCTACATAATCAAACT
Found at i:11822267 original size:28 final size:27
Alignment explanation
Indices: 11822204--11822355 Score: 241
Period size: 27 Copynumber: 5.6 Consensus size: 27
11822194 ATATTAAGTC
* * *
11822204 CGCACACTCAGTGCTATATAATCAACT
1 CGCACACTTAGTGCTACATAGTCAACT
*
11822231 CGCACACTTAGTGCTACATAATCAAACT
1 CGCACACTTAGTGCTACATAGTC-AACT
11822259 CGCACACTTAGTGCTACATAGTCAACT
1 CGCACACTTAGTGCTACATAGTCAACT
11822286 CGCACACTTAGTGCTACATAGTCAAACT
1 CGCACACTTAGTGCTACATAGTC-AACT
*
11822314 CGCACACTTAGTGCTACATAGTCAATT
1 CGCACACTTAGTGCTACATAGTCAACT
11822341 CGCACACTTAGTGCT
1 CGCACACTTAGTGCT
11822356 GCACAATTTA
Statistics
Matches: 119, Mismatches: 4, Indels: 4
0.94 0.03 0.03
Matches are distributed among these distances:
27 66 0.55
28 53 0.45
ACGTcount: A:0.31, C:0.29, G:0.14, T:0.26
Consensus pattern (27 bp):
CGCACACTTAGTGCTACATAGTCAACT
Found at i:11822288 original size:55 final size:55
Alignment explanation
Indices: 11822204--11822355 Score: 259
Period size: 55 Copynumber: 2.8 Consensus size: 55
11822194 ATATTAAGTC
* * *
11822204 CGCACACTCAGTGCTATATAATCAACTCGCACACTTAGTGCTACATAATCAAACT
1 CGCACACTTAGTGCTACATAGTCAACTCGCACACTTAGTGCTACATAATCAAACT
*
11822259 CGCACACTTAGTGCTACATAGTCAACTCGCACACTTAGTGCTACATAGTCAAACT
1 CGCACACTTAGTGCTACATAGTCAACTCGCACACTTAGTGCTACATAATCAAACT
*
11822314 CGCACACTTAGTGCTACATAGTCAATTCGCACACTTAGTGCT
1 CGCACACTTAGTGCTACATAGTCAACTCGCACACTTAGTGCT
11822356 GCACAATTTA
Statistics
Matches: 92, Mismatches: 5, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
55 92 1.00
ACGTcount: A:0.31, C:0.29, G:0.14, T:0.26
Consensus pattern (55 bp):
CGCACACTTAGTGCTACATAGTCAACTCGCACACTTAGTGCTACATAATCAAACT
Found at i:11823917 original size:18 final size:18
Alignment explanation
Indices: 11823894--11823933 Score: 80
Period size: 18 Copynumber: 2.2 Consensus size: 18
11823884 AAATGTTTGA
11823894 AGTGGCCAAATAAATAGG
1 AGTGGCCAAATAAATAGG
11823912 AGTGGCCAAATAAATAGG
1 AGTGGCCAAATAAATAGG
11823930 AGTG
1 AGTG
11823934 CAAAATAAGA
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
18 22 1.00
ACGTcount: A:0.42, C:0.10, G:0.30, T:0.17
Consensus pattern (18 bp):
AGTGGCCAAATAAATAGG
Found at i:11823941 original size:17 final size:18
Alignment explanation
Indices: 11823894--11823941 Score: 71
Period size: 18 Copynumber: 2.7 Consensus size: 18
11823884 AAATGTTTGA
*
11823894 AGTGGCCAAATAAATAGG
1 AGTGGCAAAATAAATAGG
*
11823912 AGTGGCCAAATAAATAGG
1 AGTGGCAAAATAAATAGG
11823930 AGT-GCAAAATAA
1 AGTGGCAAAATAA
11823942 GAGGATTTGC
Statistics
Matches: 29, Mismatches: 1, Indels: 1
0.94 0.03 0.03
Matches are distributed among these distances:
17 8 0.28
18 21 0.72
ACGTcount: A:0.48, C:0.10, G:0.25, T:0.17
Consensus pattern (18 bp):
AGTGGCAAAATAAATAGG
Found at i:11824082 original size:26 final size:26
Alignment explanation
Indices: 11824053--11824136 Score: 150
Period size: 26 Copynumber: 3.2 Consensus size: 26
11824043 TGATACAAAT
*
11824053 TGATAATGGGTTAGGTAAATGTTCCA
1 TGATAATGGGTTAGGTAAATGTTTCA
*
11824079 TGATAATGAGTTAGGTAAATGTTTCA
1 TGATAATGGGTTAGGTAAATGTTTCA
11824105 TGATAATGGGTTAGGTAAATGTTTCA
1 TGATAATGGGTTAGGTAAATGTTTCA
11824131 TGATAA
1 TGATAA
11824137 GAATTTCAGG
Statistics
Matches: 55, Mismatches: 3, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
26 55 1.00
ACGTcount: A:0.33, C:0.05, G:0.25, T:0.37
Consensus pattern (26 bp):
TGATAATGGGTTAGGTAAATGTTTCA
Found at i:11825642 original size:25 final size:26
Alignment explanation
Indices: 11825613--11825664 Score: 70
Period size: 25 Copynumber: 2.0 Consensus size: 26
11825603 TTTATAGTTT
11825613 TACCCCTAGAGATAAATT-ACCGAAA
1 TACCCCTAGAGATAAATTGACCGAAA
* * *
11825638 TACCCCTAGGGTTAAATTGACCTAAA
1 TACCCCTAGAGATAAATTGACCGAAA
11825664 T
1 T
11825665 GCATGTTTGA
Statistics
Matches: 23, Mismatches: 3, Indels: 1
0.85 0.11 0.04
Matches are distributed among these distances:
25 16 0.70
26 7 0.30
ACGTcount: A:0.38, C:0.23, G:0.13, T:0.25
Consensus pattern (26 bp):
TACCCCTAGAGATAAATTGACCGAAA
Found at i:11831093 original size:25 final size:25
Alignment explanation
Indices: 11831035--11831116 Score: 155
Period size: 25 Copynumber: 3.2 Consensus size: 25
11831025 TGATACAAAT
11831035 TGATAATGGGTTAGGTAAATGTTCCA
1 TGATAATGGGTTAGGTAAATGTT-CA
11831061 TGATAATGGGTTAGGTAAATGTTCA
1 TGATAATGGGTTAGGTAAATGTTCA
11831086 TGATAATGGGTTAGGTAAATGTTCA
1 TGATAATGGGTTAGGTAAATGTTCA
11831111 TGATAA
1 TGATAA
11831117 GAATTTCATG
Statistics
Matches: 56, Mismatches: 0, Indels: 1
0.98 0.00 0.02
Matches are distributed among these distances:
25 33 0.59
26 23 0.41
ACGTcount: A:0.33, C:0.05, G:0.27, T:0.35
Consensus pattern (25 bp):
TGATAATGGGTTAGGTAAATGTTCA
Found at i:11832615 original size:25 final size:26
Alignment explanation
Indices: 11832587--11832638 Score: 70
Period size: 25 Copynumber: 2.0 Consensus size: 26
11832577 TTTACAGTTT
11832587 TACCCCTAGAGATAAATT-ACCGAAA
1 TACCCCTAGAGATAAATTGACCGAAA
* * *
11832612 TACCCCTAGGGTTAAATTGACCTAAA
1 TACCCCTAGAGATAAATTGACCGAAA
11832638 T
1 T
11832639 GCATGTTTGA
Statistics
Matches: 23, Mismatches: 3, Indels: 1
0.85 0.11 0.04
Matches are distributed among these distances:
25 16 0.70
26 7 0.30
ACGTcount: A:0.38, C:0.23, G:0.13, T:0.25
Consensus pattern (26 bp):
TACCCCTAGAGATAAATTGACCGAAA
Found at i:11843096 original size:12 final size:12
Alignment explanation
Indices: 11843079--11843103 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
11843069 GTATACATCA
11843079 GTTGTTGGAAAG
1 GTTGTTGGAAAG
11843091 GTTGTTGGAAAG
1 GTTGTTGGAAAG
11843103 G
1 G
11843104 ACAGTACAAT
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 13 1.00
ACGTcount: A:0.24, C:0.00, G:0.44, T:0.32
Consensus pattern (12 bp):
GTTGTTGGAAAG
Found at i:11844516 original size:59 final size:59
Alignment explanation
Indices: 11844445--11844563 Score: 229
Period size: 59 Copynumber: 2.0 Consensus size: 59
11844435 ATTACATATA
11844445 TCATTATGTATTTTATTGATCAATTAAAATATTTATAAAACTTCTCTAAAGTCTCTATT
1 TCATTATGTATTTTATTGATCAATTAAAATATTTATAAAACTTCTCTAAAGTCTCTATT
*
11844504 TCATTATGTATTTTATTGATCAATTAAAATATTTATAAAACTTCTCTAAAGTCTTTATT
1 TCATTATGTATTTTATTGATCAATTAAAATATTTATAAAACTTCTCTAAAGTCTCTATT
11844563 T
1 T
11844564 ATAAGCATAA
Statistics
Matches: 59, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
59 59 1.00
ACGTcount: A:0.35, C:0.11, G:0.05, T:0.49
Consensus pattern (59 bp):
TCATTATGTATTTTATTGATCAATTAAAATATTTATAAAACTTCTCTAAAGTCTCTATT
Found at i:11847454 original size:22 final size:22
Alignment explanation
Indices: 11847411--11847454 Score: 54
Period size: 22 Copynumber: 2.0 Consensus size: 22
11847401 GGTTAAAGGC
*
11847411 ATTACCAGAAAATCAGAAACAT
1 ATTACCAGAAAATCACAAACAT
*
11847433 ATTACCA-AAAATTCACATACAT
1 ATTACCAGAAAA-TCACAAACAT
11847455 CATCCACAAA
Statistics
Matches: 19, Mismatches: 2, Indels: 2
0.83 0.09 0.09
Matches are distributed among these distances:
21 4 0.21
22 15 0.79
ACGTcount: A:0.52, C:0.20, G:0.05, T:0.23
Consensus pattern (22 bp):
ATTACCAGAAAATCACAAACAT
Found at i:11848286 original size:23 final size:23
Alignment explanation
Indices: 11848260--11848312 Score: 54
Period size: 23 Copynumber: 2.3 Consensus size: 23
11848250 ATTTGCATCA
11848260 CATATCAT-ATACCATAATCAAGC
1 CATATCATCA-ACCATAATCAAGC
*** *
11848283 CATAAGTTCAACCATAATTAAGC
1 CATATCATCAACCATAATCAAGC
11848306 CATATCA
1 CATATCA
11848313 CATGGCTAAA
Statistics
Matches: 22, Mismatches: 7, Indels: 2
0.71 0.23 0.06
Matches are distributed among these distances:
23 21 0.95
24 1 0.05
ACGTcount: A:0.43, C:0.25, G:0.06, T:0.26
Consensus pattern (23 bp):
CATATCATCAACCATAATCAAGC
Found at i:11848982 original size:42 final size:42
Alignment explanation
Indices: 11848893--11849006 Score: 101
Period size: 43 Copynumber: 2.7 Consensus size: 42
11848883 CAAAAGGTGG
* **
11848893 TCTTACATGTAATCAAATATCGATGCCACTAACCCAGACAGGG
1 TCTTACATGAAATCAAATATCGATGCCACT-ACCCAGACAGAA
11848936 TCTTACATGAAATCAAATAT-GATGCCAACGT-CCCAGAC-GTAA
1 TCTTACATGAAATCAAATATCGATGCC-AC-TACCCAGACAG-AA
* *
11848978 TCTTACACGTAAATCATAA-GTCGATGCCA
1 TCTTACATG-AAATCA-AATATCGATGCCA
11849007 ATGTTTCAGA
Statistics
Matches: 60, Mismatches: 5, Indels: 12
0.78 0.06 0.16
Matches are distributed among these distances:
41 1 0.02
42 21 0.35
43 29 0.48
44 9 0.15
ACGTcount: A:0.36, C:0.25, G:0.15, T:0.25
Consensus pattern (42 bp):
TCTTACATGAAATCAAATATCGATGCCACTACCCAGACAGAA
Found at i:11853108 original size:24 final size:24
Alignment explanation
Indices: 11853021--11853111 Score: 94
Period size: 24 Copynumber: 3.8 Consensus size: 24
11853011 ACACACCGCA
*
11853021 GCTCTTATGAGCGTCCCGATATATG
1 GCTCTTATGAGCTTCCCGATAT-TG
** *
11853046 GCTCTTCGGAGCTTCCCAATATTG
1 GCTCTTATGAGCTTCCCGATATTG
* *
11853070 GCTCGCT-TGAACTTCCCGATATTG
1 GCTC-TTATGAGCTTCCCGATATTG
*
11853094 GCTCATATGAGCTTCCCG
1 GCTCTTATGAGCTTCCCG
11853112 TTAATAGCTC
Statistics
Matches: 54, Mismatches: 10, Indels: 5
0.78 0.14 0.07
Matches are distributed among these distances:
23 1 0.02
24 34 0.63
25 19 0.35
ACGTcount: A:0.18, C:0.29, G:0.22, T:0.32
Consensus pattern (24 bp):
GCTCTTATGAGCTTCCCGATATTG
Found at i:11853157 original size:25 final size:25
Alignment explanation
Indices: 11853079--11853171 Score: 84
Period size: 24 Copynumber: 3.8 Consensus size: 25
11853069 GGCTCGCTTG
* * *
11853079 AACTTCCCGATAT-TGGCTCATATG
1 AACTTCCCGTTATATGGCTCACATA
* * *
11853103 AGCTTCCCGTTA-ATAGCTCTCCA-A
1 AACTTCCCGTTATATGGCTC-ACATA
*
11853127 AGCTTCCCGTTATATGGCTCACATA
1 AACTTCCCGTTATATGGCTCACATA
*
11853152 AACTTCCTGTTATATGGCTC
1 AACTTCCCGTTATATGGCTC
11853172 GAAAGAGCTT
Statistics
Matches: 55, Mismatches: 10, Indels: 7
0.76 0.14 0.10
Matches are distributed among these distances:
24 29 0.53
25 26 0.47
ACGTcount: A:0.24, C:0.28, G:0.15, T:0.33
Consensus pattern (25 bp):
AACTTCCCGTTATATGGCTCACATA
Found at i:11854069 original size:17 final size:17
Alignment explanation
Indices: 11854047--11854080 Score: 59
Period size: 17 Copynumber: 2.0 Consensus size: 17
11854037 TAGGGGAAAG
*
11854047 AAAGAAGGAAGGAAAAA
1 AAAGAAAGAAGGAAAAA
11854064 AAAGAAAGAAGGAAAAA
1 AAAGAAAGAAGGAAAAA
11854081 GGGAAAAATT
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
17 16 1.00
ACGTcount: A:0.74, C:0.00, G:0.26, T:0.00
Consensus pattern (17 bp):
AAAGAAAGAAGGAAAAA
Found at i:11854087 original size:21 final size:22
Alignment explanation
Indices: 11854038--11854087 Score: 52
Period size: 21 Copynumber: 2.4 Consensus size: 22
11854028 AACTGAGAGT
*
11854038 AGGGGAAAGAAAGAAGGAAGGAA
1 AGGGAAAAGAAAGAAGGAA-GAA
*
11854061 A--AAAAAGAAAGAAGGAA-AA
1 AGGGAAAAGAAAGAAGGAAGAA
11854080 AGGGAAAA
1 AGGGAAAA
11854088 ATTGGGATTT
Statistics
Matches: 22, Mismatches: 3, Indels: 6
0.71 0.10 0.19
Matches are distributed among these distances:
19 3 0.14
21 18 0.82
23 1 0.05
ACGTcount: A:0.66, C:0.00, G:0.34, T:0.00
Consensus pattern (22 bp):
AGGGAAAAGAAAGAAGGAAGAA
Found at i:11855320 original size:51 final size:51
Alignment explanation
Indices: 11855234--11855353 Score: 177
Period size: 51 Copynumber: 2.4 Consensus size: 51
11855224 AACTAAGTTA
* * *
11855234 TCCGGATAAAATATGAAGCTCTTGTTAAAGCTAGAGCAACAAAGTAATTAT
1 TCCGGATGAAATATGAAGCTCTTATTAAAGCTAGAGCAACAAAGTAATAAT
* * *
11855285 TCCGGATGAAATATGAAGCTCTTATTGAAGTTAGAGCAACAAGGTAATAAT
1 TCCGGATGAAATATGAAGCTCTTATTAAAGCTAGAGCAACAAAGTAATAAT
*
11855336 TCCGGATGAAGTATGAAG
1 TCCGGATGAAATATGAAG
11855354 TAAGTTTCAG
Statistics
Matches: 62, Mismatches: 7, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
51 62 1.00
ACGTcount: A:0.39, C:0.12, G:0.22, T:0.27
Consensus pattern (51 bp):
TCCGGATGAAATATGAAGCTCTTATTAAAGCTAGAGCAACAAAGTAATAAT
Found at i:11860789 original size:17 final size:16
Alignment explanation
Indices: 11860754--11860792 Score: 51
Period size: 17 Copynumber: 2.4 Consensus size: 16
11860744 AATAAAAAAT
11860754 AGAGAATAAAGAACAA
1 AGAGAATAAAGAACAA
* *
11860770 AGAGAATGAGAGAGCAA
1 AGAGAAT-AAAGAACAA
11860787 AGAGAA
1 AGAGAA
11860793 AGCATATTTT
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
16 7 0.35
17 13 0.65
ACGTcount: A:0.62, C:0.05, G:0.28, T:0.05
Consensus pattern (16 bp):
AGAGAATAAAGAACAA
Found at i:11861545 original size:17 final size:17
Alignment explanation
Indices: 11861523--11861555 Score: 50
Period size: 17 Copynumber: 1.9 Consensus size: 17
11861513 TTTGCATTCC
11861523 CATAAC-TAATATTATAA
1 CATAACATAA-ATTATAA
11861540 CATAACATAAATTATA
1 CATAACATAAATTATA
11861556 TAAGGACTTA
Statistics
Matches: 15, Mismatches: 0, Indels: 2
0.88 0.00 0.12
Matches are distributed among these distances:
17 12 0.80
18 3 0.20
ACGTcount: A:0.55, C:0.12, G:0.00, T:0.33
Consensus pattern (17 bp):
CATAACATAAATTATAA
Found at i:11865591 original size:33 final size:33
Alignment explanation
Indices: 11865529--11865594 Score: 96
Period size: 33 Copynumber: 2.0 Consensus size: 33
11865519 ATTGTTTTAT
*
11865529 TTTATTTTAGTTATTTTAAAATAAGATAACTAA
1 TTTATTTTAGTTATTTTAAAATAAAATAACTAA
***
11865562 TTTATTTTAGTTATTTTATTTTAAAATAACTAA
1 TTTATTTTAGTTATTTTAAAATAAAATAACTAA
11865595 CTCCTTTTAA
Statistics
Matches: 29, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
33 29 1.00
ACGTcount: A:0.39, C:0.03, G:0.05, T:0.53
Consensus pattern (33 bp):
TTTATTTTAGTTATTTTAAAATAAAATAACTAA
Found at i:11869253 original size:12 final size:12
Alignment explanation
Indices: 11869236--11869266 Score: 53
Period size: 12 Copynumber: 2.6 Consensus size: 12
11869226 CCTCACAGAC
11869236 CCGTGTGCCAGG
1 CCGTGTGCCAGG
*
11869248 CCGTGTGCTAGG
1 CCGTGTGCCAGG
11869260 CCGTGTG
1 CCGTGTG
11869267 AAGCTACTGA
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:0.06, C:0.29, G:0.42, T:0.23
Consensus pattern (12 bp):
CCGTGTGCCAGG
Found at i:11872606 original size:49 final size:49
Alignment explanation
Indices: 11872542--11872737 Score: 223
Period size: 49 Copynumber: 3.9 Consensus size: 49
11872532 TAGACAAGGC
* *
11872542 TATCTGGTACGCATAGTAACCTGCACTTAGTACTACACATGCGACCAAT
1 TATCTGGTACACATAGTAGCCTGCACTTAGTACTACACATGCGACCAAT
* * * *
11872591 TATCCGGTACACATAGTAGCCTGCACTTAGTACTACACACGTGACCTAAC
1 TATCTGGTACACATAGTAGCCTGCACTTAGTACTACACATGCGACC-AAT
* ** * * *
11872641 CATCTAATACACGTAGTAGCCTGCACTTAGTACTACACACCTG-AACAAAAT
1 TATCTGGTACACATAGTAGCCTGCACTTAGTACTACACA--TGCGAC-CAAT
* *
11872692 TATCGGGTACGCATAGTAGCCTGCACTTAGTACTACACATGCGACC
1 TATCTGGTACACATAGTAGCCTGCACTTAGTACTACACATGCGACC
11872738 TCACAATAGA
Statistics
Matches: 119, Mismatches: 23, Indels: 10
0.78 0.15 0.07
Matches are distributed among these distances:
49 43 0.36
50 38 0.32
51 37 0.31
52 1 0.01
ACGTcount: A:0.31, C:0.28, G:0.16, T:0.24
Consensus pattern (49 bp):
TATCTGGTACACATAGTAGCCTGCACTTAGTACTACACATGCGACCAAT
Found at i:11872738 original size:101 final size:99
Alignment explanation
Indices: 11872555--11872738 Score: 271
Period size: 101 Copynumber: 1.8 Consensus size: 99
11872545 CTGGTACGCA
* *
11872555 TAGTAACCTGCACTTAGTACTACACATGCGACCAATTATCCGGTACACATAGTAGCCTGCACTTA
1 TAGTAACCTGCACTTAGTACTACACATGCAACAAATTATCCGGTACACATAGTAGCCTGCACTTA
*
11872620 GTACTACACACGTGACCTAACCATCTAATACACG
66 GTACTACACACGCGACCTAACCATCTAATACACG
* * *
11872654 TAGTAGCCTGCACTTAGTACTACACACCTG-AACAAAATTATCGGGTACGCATAGTAGCCTGCAC
1 TAGTAACCTGCACTTAGTACTACACA--TGCAAC-AAATTATCCGGTACACATAGTAGCCTGCAC
*
11872718 TTAGTACTACACATGCGACCT
63 TTAGTACTACACACGCGACCT
11872739 CACAATAGAT
Statistics
Matches: 75, Mismatches: 7, Indels: 4
0.87 0.08 0.05
Matches are distributed among these distances:
99 25 0.33
100 2 0.03
101 48 0.64
ACGTcount: A:0.32, C:0.28, G:0.16, T:0.24
Consensus pattern (99 bp):
TAGTAACCTGCACTTAGTACTACACATGCAACAAATTATCCGGTACACATAGTAGCCTGCACTTA
GTACTACACACGCGACCTAACCATCTAATACACG
Found at i:11873004 original size:27 final size:27
Alignment explanation
Indices: 11872964--11873017 Score: 72
Period size: 27 Copynumber: 2.0 Consensus size: 27
11872954 AGGTACAACC
* *
11872964 CATGTAATAGTAATTTAACATTCAATT
1 CATGTAACAATAATTTAACATTCAATT
**
11872991 CATGTAACAATAATTTGCCATTCAATT
1 CATGTAACAATAATTTAACATTCAATT
11873018 TCACATGACA
Statistics
Matches: 23, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
27 23 1.00
ACGTcount: A:0.39, C:0.15, G:0.07, T:0.39
Consensus pattern (27 bp):
CATGTAACAATAATTTAACATTCAATT
Found at i:11878291 original size:32 final size:32
Alignment explanation
Indices: 11878255--11878319 Score: 121
Period size: 32 Copynumber: 2.0 Consensus size: 32
11878245 AATATTATGA
11878255 GAAAATCACTTAAACACAAGACCAAATTCAGG
1 GAAAATCACTTAAACACAAGACCAAATTCAGG
*
11878287 GAAAATCACTTAAACACAAGACCAAATTTAGG
1 GAAAATCACTTAAACACAAGACCAAATTCAGG
11878319 G
1 G
11878320 GTTTGAGAAT
Statistics
Matches: 32, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
32 32 1.00
ACGTcount: A:0.49, C:0.20, G:0.14, T:0.17
Consensus pattern (32 bp):
GAAAATCACTTAAACACAAGACCAAATTCAGG
Found at i:11878820 original size:79 final size:79
Alignment explanation
Indices: 11878714--11878876 Score: 326
Period size: 79 Copynumber: 2.1 Consensus size: 79
11878704 TGAAGAAAGT
11878714 AAAATTTACTAAAATAAGTCGTTCAAAACAAAATAATAAAGTTGAAATGAAAATAGAAATAGAAA
1 AAAATTTACTAAAATAAGTCGTTCAAAACAAAATAATAAAGTTGAAATGAAAATAGAAATAGAAA
11878779 TAAAGAGAAAAATA
66 TAAAGAGAAAAATA
11878793 AAAATTTACTAAAATAAGTCGTTCAAAACAAAATAATAAAGTTGAAATGAAAATAGAAATAGAAA
1 AAAATTTACTAAAATAAGTCGTTCAAAACAAAATAATAAAGTTGAAATGAAAATAGAAATAGAAA
11878858 TAAAGAGAAAAATA
66 TAAAGAGAAAAATA
11878872 AAAAT
1 AAAAT
11878877 AAAAATAAAA
Statistics
Matches: 84, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
79 84 1.00
ACGTcount: A:0.63, C:0.05, G:0.11, T:0.21
Consensus pattern (79 bp):
AAAATTTACTAAAATAAGTCGTTCAAAACAAAATAATAAAGTTGAAATGAAAATAGAAATAGAAA
TAAAGAGAAAAATA
Found at i:11878870 original size:12 final size:12
Alignment explanation
Indices: 11878855--11878894 Score: 53
Period size: 12 Copynumber: 3.2 Consensus size: 12
11878845 ATAGAAATAG
*
11878855 AAATAAAGAGAA
1 AAATAAAAAGAA
*
11878867 AAATAAAAATAA
1 AAATAAAAAGAA
11878879 AAATAAAAAGATA
1 AAATAAAAAGA-A
11878892 AAA
1 AAA
11878895 AGATAAGAGG
Statistics
Matches: 24, Mismatches: 3, Indels: 1
0.86 0.11 0.04
Matches are distributed among these distances:
12 20 0.83
13 4 0.17
ACGTcount: A:0.80, C:0.00, G:0.07, T:0.12
Consensus pattern (12 bp):
AAATAAAAAGAA
Found at i:11878874 original size:6 final size:6
Alignment explanation
Indices: 11878837--11878887 Score: 57
Period size: 6 Copynumber: 8.5 Consensus size: 6
11878827 AATAAAGTTG
* * * * *
11878837 AAATGA AAATAG AAATAG AAATAA AGAGAA AAATAA AAATAA AAATAA
1 AAATAA AAATAA AAATAA AAATAA AAATAA AAATAA AAATAA AAATAA
11878885 AAA
1 AAA
11878888 GATAAAAAGA
Statistics
Matches: 38, Mismatches: 7, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
6 38 1.00
ACGTcount: A:0.76, C:0.00, G:0.10, T:0.14
Consensus pattern (6 bp):
AAATAA
Found at i:11878876 original size:24 final size:25
Alignment explanation
Indices: 11878842--11878894 Score: 72
Period size: 24 Copynumber: 2.2 Consensus size: 25
11878832 AGTTGAAATG
* * *
11878842 AAAATAGAAATAGAAATAAAGAGA-
1 AAAATAAAAATAAAAATAAAAAGAT
11878866 AAAATAAAAATAAAAATAAAAAGAT
1 AAAATAAAAATAAAAATAAAAAGAT
11878891 AAAA
1 AAAA
11878895 AGATAAGAGG
Statistics
Matches: 25, Mismatches: 3, Indels: 1
0.86 0.10 0.03
Matches are distributed among these distances:
24 21 0.84
25 4 0.16
ACGTcount: A:0.77, C:0.00, G:0.09, T:0.13
Consensus pattern (25 bp):
AAAATAAAAATAAAAATAAAAAGAT
Found at i:11900423 original size:64 final size:66
Alignment explanation
Indices: 11900319--11900494 Score: 178
Period size: 67 Copynumber: 2.6 Consensus size: 66
11900309 CATCATGTGT
* * *
11900319 ACAAGAGAGCTACAAGACATTATTATGTAGCTAGGTCGCATGGGTGATACCA-TG-TGTACACCA
1 ACAAGAGAGCTAC--GAGA-TA-TATGTAGCTAGGTCGCATGGGTGATACCAGTGAAGGACACCA
11900382 TGTAG
62 TGTAG
* * * * *
11900387 ACAAGAGAGCTACGGGGTATATGTAGCTAGGTCGCATGCGTGGTTCCAGGTGAAGGACACCATGT
1 ACAAGAGAGCTACGAGATATATGTAGCTAGGTCGCATGGGTGATACCA-GTGAAGGACACCATGT
11900452 AG
65 AG
* * * *
11900454 ACAAGAGAGTTACGAGATAAAT-TGGCTAGGTCACATGGGTG
1 ACAAGAGAGCTACGAGATATATGTAGCTAGGTCGCATGGGTG
11900495 GTACTGAGTG
Statistics
Matches: 90, Mismatches: 15, Indels: 8
0.80 0.13 0.07
Matches are distributed among these distances:
64 26 0.29
65 2 0.02
66 19 0.21
67 30 0.33
68 13 0.14
ACGTcount: A:0.31, C:0.16, G:0.30, T:0.23
Consensus pattern (66 bp):
ACAAGAGAGCTACGAGATATATGTAGCTAGGTCGCATGGGTGATACCAGTGAAGGACACCATGTA
G
Found at i:11900461 original size:67 final size:64
Alignment explanation
Indices: 11900342--11900467 Score: 171
Period size: 64 Copynumber: 1.9 Consensus size: 64
11900332 AAGACATTAT
* * *
11900342 TATGTAGCTAGGTCGCATGGGTGATACCATGTGTACACCATGTAGACAAGAGAGCTACGGGGTA
1 TATGTAGCTAGGTCGCATGCGTGATACCATGAGGACACCATGTAGACAAGAGAGCTACGGGGTA
* * *
11900406 TATGTAGCTAGGTCGCATGCGTGGTTCCAGGTGAAGGACACCATGTAGACAAGAGAGTTACG
1 TATGTAGCTAGGTCGCATGCGTGATACCA--TG-AGGACACCATGTAGACAAGAGAGCTACG
11900468 AGATAAATTG
Statistics
Matches: 53, Mismatches: 6, Indels: 3
0.85 0.10 0.05
Matches are distributed among these distances:
64 26 0.49
66 2 0.04
67 25 0.47
ACGTcount: A:0.28, C:0.17, G:0.32, T:0.23
Consensus pattern (64 bp):
TATGTAGCTAGGTCGCATGCGTGATACCATGAGGACACCATGTAGACAAGAGAGCTACGGGGTA
Found at i:11904625 original size:29 final size:29
Alignment explanation
Indices: 11904590--11904663 Score: 105
Period size: 29 Copynumber: 2.6 Consensus size: 29
11904580 GTTGTGAGAT
* *
11904590 TGGCACTAAGTGTGCGGGCTTGAAA-TGCA
1 TGGCACTAAGTGTGCGAG-TTGAAAGTACA
*
11904619 TGGCACTAAGTGTGCGAGTTTAAAGTACA
1 TGGCACTAAGTGTGCGAGTTGAAAGTACA
11904648 TGGCACTAAGTGTGCG
1 TGGCACTAAGTGTGCG
11904664 TGGTTGATTA
Statistics
Matches: 41, Mismatches: 3, Indels: 2
0.89 0.07 0.04
Matches are distributed among these distances:
28 5 0.12
29 36 0.88
ACGTcount: A:0.26, C:0.16, G:0.32, T:0.26
Consensus pattern (29 bp):
TGGCACTAAGTGTGCGAGTTGAAAGTACA
Found at i:11912988 original size:29 final size:29
Alignment explanation
Indices: 11912953--11913026 Score: 105
Period size: 29 Copynumber: 2.6 Consensus size: 29
11912943 GTTGTGAGAT
* *
11912953 TGGCACTAAGTGTGCGGGCTTGAAA-TGCA
1 TGGCACTAAGTGTGCGAG-TTGAAAGTACA
*
11912982 TGGCACTAAGTGTGCGAGTTTAAAGTACA
1 TGGCACTAAGTGTGCGAGTTGAAAGTACA
11913011 TGGCACTAAGTGTGCG
1 TGGCACTAAGTGTGCG
11913027 TGGTTGATTA
Statistics
Matches: 41, Mismatches: 3, Indels: 2
0.89 0.07 0.04
Matches are distributed among these distances:
28 5 0.12
29 36 0.88
ACGTcount: A:0.26, C:0.16, G:0.32, T:0.26
Consensus pattern (29 bp):
TGGCACTAAGTGTGCGAGTTGAAAGTACA
Found at i:11921467 original size:55 final size:55
Alignment explanation
Indices: 11921363--11921474 Score: 145
Period size: 55 Copynumber: 2.0 Consensus size: 55
11921353 TATATAAGTC
* * *** *
11921363 CACGCCCGTGTTAATTTAACAGGTTCGTCCACAGTTGCTTGGCACGGGCGTGTCG
1 CACGCCCCTGTTAATTTAACAGGTTCGGCCACAGTTGAAAGGCAAGGGCGTGTCG
*
11921418 CACGCCCCTGTTAATTTGACAGGTTCGGCCACAGGTT-AAAGGCAAGGGCGTGTCG
1 CACGCCCCTGTTAATTTAACAGGTTCGGCCACA-GTTGAAAGGCAAGGGCGTGTCG
11921473 CA
1 CA
11921475 TTCCCGTGTG
Statistics
Matches: 49, Mismatches: 7, Indels: 2
0.84 0.12 0.03
Matches are distributed among these distances:
55 46 0.94
56 3 0.06
ACGTcount: A:0.20, C:0.27, G:0.29, T:0.24
Consensus pattern (55 bp):
CACGCCCCTGTTAATTTAACAGGTTCGGCCACAGTTGAAAGGCAAGGGCGTGTCG
Found at i:11937078 original size:27 final size:25
Alignment explanation
Indices: 11937048--11937098 Score: 66
Period size: 27 Copynumber: 2.0 Consensus size: 25
11937038 GAGAAGGAAA
*
11937048 AAAAGTAAATTGATAAGGAATAATAAT
1 AAAAGTAAATTG-CAAGGAA-AATAAT
*
11937075 AAAATTAAATTGCAAGGAAAATAA
1 AAAAGTAAATTGCAAGGAAAATAA
11937099 ATGGCTAAAG
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
25 5 0.23
26 6 0.27
27 11 0.50
ACGTcount: A:0.61, C:0.02, G:0.14, T:0.24
Consensus pattern (25 bp):
AAAAGTAAATTGCAAGGAAAATAAT
Found at i:11937975 original size:16 final size:16
Alignment explanation
Indices: 11937954--11937993 Score: 80
Period size: 16 Copynumber: 2.5 Consensus size: 16
11937944 TCTCAGAATA
11937954 ATAAAGAATACAAAAC
1 ATAAAGAATACAAAAC
11937970 ATAAAGAATACAAAAC
1 ATAAAGAATACAAAAC
11937986 ATAAAGAA
1 ATAAAGAA
11937994 AACCCAAAAC
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 24 1.00
ACGTcount: A:0.70, C:0.10, G:0.07, T:0.12
Consensus pattern (16 bp):
ATAAAGAATACAAAAC
Done.