Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Gbar_A02
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: 100057689
ACGTcount: A:0.31, C:0.17, G:0.17, T:0.31
Warning! 3589301 characters in sequence are not A, C, G, or T
File 276 of 295
Found at i:94203925 original size:25 final size:24
Alignment explanation
Indices: 94203878--94203925 Score: 62
Period size: 25 Copynumber: 2.0 Consensus size: 24
94203868 TTTTGTTTTA
*
94203878 ATATTTGTTTTTATGTTTTTAAAT
1 ATATTTGTTTATATGTTTTTAAAT
94203902 ATATTTGATTTAT-TGTATTTTAAA
1 ATATTTG-TTTATATGT-TTTTAAA
94203926 GTTTTTTATT
Statistics
Matches: 21, Mismatches: 1, Indels: 3
0.84 0.04 0.12
Matches are distributed among these distances:
24 10 0.48
25 11 0.52
ACGTcount: A:0.29, C:0.00, G:0.08, T:0.62
Consensus pattern (24 bp):
ATATTTGTTTATATGTTTTTAAAT
Found at i:94204349 original size:41 final size:41
Alignment explanation
Indices: 94204292--94204377 Score: 172
Period size: 41 Copynumber: 2.1 Consensus size: 41
94204282 TTGCCAAACT
94204292 TATAAATTTCAAATGATACTAGATAATTTGGTATTCTTAAG
1 TATAAATTTCAAATGATACTAGATAATTTGGTATTCTTAAG
94204333 TATAAATTTCAAATGATACTAGATAATTTGGTATTCTTAAG
1 TATAAATTTCAAATGATACTAGATAATTTGGTATTCTTAAG
94204374 TATA
1 TATA
94204378 GACTAATTAG
Statistics
Matches: 45, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
41 45 1.00
ACGTcount: A:0.40, C:0.07, G:0.12, T:0.42
Consensus pattern (41 bp):
TATAAATTTCAAATGATACTAGATAATTTGGTATTCTTAAG
Found at i:94204358 original size:21 final size:21
Alignment explanation
Indices: 94204293--94204358 Score: 50
Period size: 21 Copynumber: 3.2 Consensus size: 21
94204283 TGCCAAACTT
94204293 ATAAATTTCAAATGATACTAG
1 ATAAATTTCAAATGATACTAG
** *
94204314 AT-AATTT--GGT-ATTCTTAAG
1 ATAAATTTCAAATGATAC-T-AG
94204333 TATAAATTTCAAATGATACTAG
1 -ATAAATTTCAAATGATACTAG
94204355 ATAA
1 ATAA
94204359 TTTGGTATTC
Statistics
Matches: 32, Mismatches: 6, Indels: 14
0.62 0.12 0.27
Matches are distributed among these distances:
17 3 0.09
18 2 0.06
19 2 0.06
20 7 0.22
21 11 0.34
22 2 0.06
23 2 0.06
24 3 0.09
ACGTcount: A:0.44, C:0.08, G:0.11, T:0.38
Consensus pattern (21 bp):
ATAAATTTCAAATGATACTAG
Found at i:94206004 original size:12 final size:11
Alignment explanation
Indices: 94205971--94206005 Score: 54
Period size: 11 Copynumber: 3.3 Consensus size: 11
94205961 TTAATTTAGG
94205971 CTTAGTTTTCT
1 CTTAGTTTTCT
*
94205982 CTTGGTTTTCT
1 CTTAGTTTTCT
94205993 CTTAGTTTT-T
1 CTTAGTTTTCT
94206003 CTT
1 CTT
94206006 CTTCTTCTTC
Statistics
Matches: 22, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
10 4 0.18
11 18 0.82
ACGTcount: A:0.06, C:0.17, G:0.11, T:0.66
Consensus pattern (11 bp):
CTTAGTTTTCT
Found at i:94206017 original size:22 final size:22
Alignment explanation
Indices: 94205971--94206013 Score: 54
Period size: 22 Copynumber: 2.0 Consensus size: 22
94205961 TTAATTTAGG
*
94205971 CTTAGTTTTCTCTTGGTTTTCT
1 CTTAGTTTTCTCTTGCTTTTCT
94205993 CTTAGTTTT-TCTT-CTTCTTCT
1 CTTAGTTTTCTCTTGCTT-TTCT
94206014 TCTTCTAGGG
Statistics
Matches: 19, Mismatches: 1, Indels: 3
0.83 0.04 0.13
Matches are distributed among these distances:
20 2 0.11
21 8 0.42
22 9 0.47
ACGTcount: A:0.05, C:0.21, G:0.09, T:0.65
Consensus pattern (22 bp):
CTTAGTTTTCTCTTGCTTTTCT
Found at i:94216099 original size:40 final size:40
Alignment explanation
Indices: 94216014--94216229 Score: 296
Period size: 40 Copynumber: 5.5 Consensus size: 40
94216004 AAGCCAAGTA
* * * *
94216014 CCTTCGGGATTTA-ACCAGATATAGCT-ACTCGCTC-AATG
1 CCTTCGGGACTTAGCCCGGATATAG-TAACTCGCACAAATG
* *
94216052 CCTTCGGGACATAGCCCGGATATAGTAACTCGCACCAATG
1 CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATG
*
94216092 CCTTCGGGACTTAGCCCGGATATAGTAGCTCGCACAAATG
1 CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATG
* *
94216132 CC-TCGGGACTTAGCCCGGATGTAATAACTCGCACAAATG
1 CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATG
* *
94216171 CCTTCGGGACTTAGCCCGGATGTAATAACTCGCACAAATG
1 CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATG
94216211 CCTTCGGGACTTAGCCCGG
1 CCTTCGGGACTTAGCCCGG
94216230 TTATCATCCG
Statistics
Matches: 163, Mismatches: 11, Indels: 6
0.91 0.06 0.03
Matches are distributed among these distances:
38 12 0.07
39 52 0.32
40 99 0.61
ACGTcount: A:0.25, C:0.29, G:0.23, T:0.23
Consensus pattern (40 bp):
CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATG
Found at i:94216146 original size:79 final size:79
Alignment explanation
Indices: 94216014--94216229 Score: 294
Period size: 79 Copynumber: 2.7 Consensus size: 79
94216004 AAGCCAAGTA
* * * * * *
94216014 CCTTCGGGATTTA-ACCAGATATAGCTACTCGCTC-AATGCCTTCGGGACATAGCCCGGATATAG
1 CCTTCGGGACTTAGCCCGGATATAG-TACTCGCACAAATGCCTTCGGGACTTAGCCCGGATATAA
*
94216077 TAACTCGCACCAATG
65 TAACTCGCACAAATG
*
94216092 CCTTCGGGACTTAGCCCGGATATAGTAGCTCGCACAAATGCC-TCGGGACTTAGCCCGGATGTAA
1 CCTTCGGGACTTAGCCCGGATATAGTA-CTCGCACAAATGCCTTCGGGACTTAGCCCGGATATAA
94216156 TAACTCGCACAAATG
65 TAACTCGCACAAATG
* *
94216171 CCTTCGGGACTTAGCCCGGATGTAATAACTCGCACAAATGCCTTCGGGACTTAGCCCGG
1 CCTTCGGGACTTAGCCCGGATATAGT-ACTCGCACAAATGCCTTCGGGACTTAGCCCGG
94216230 TTATCATCCG
Statistics
Matches: 123, Mismatches: 10, Indels: 8
0.87 0.07 0.06
Matches are distributed among these distances:
78 14 0.11
79 86 0.70
80 23 0.19
ACGTcount: A:0.25, C:0.29, G:0.23, T:0.23
Consensus pattern (79 bp):
CCTTCGGGACTTAGCCCGGATATAGTACTCGCACAAATGCCTTCGGGACTTAGCCCGGATATAAT
AACTCGCACAAATG
Found at i:94218804 original size:11 final size:11
Alignment explanation
Indices: 94218788--94218813 Score: 52
Period size: 11 Copynumber: 2.4 Consensus size: 11
94218778 TGTCACTACC
94218788 TTTAGCTAAAA
1 TTTAGCTAAAA
94218799 TTTAGCTAAAA
1 TTTAGCTAAAA
94218810 TTTA
1 TTTA
94218814 CCCTAATCTA
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 15 1.00
ACGTcount: A:0.42, C:0.08, G:0.08, T:0.42
Consensus pattern (11 bp):
TTTAGCTAAAA
Found at i:94222690 original size:31 final size:32
Alignment explanation
Indices: 94222655--94222731 Score: 88
Period size: 31 Copynumber: 2.5 Consensus size: 32
94222645 ATGATGCTAG
* *
94222655 AGATATTTTAATATTTTA-TAATTA-TTTAATT
1 AGATATTTTATTATTTTATTAA-TACTTTAATA
**
94222686 AGATA-AATATTATTTTATTAATACTTTAATA
1 AGATATTTTATTATTTTATTAATACTTTAATA
94222717 AGATATTTTATTATT
1 AGATATTTTATTATT
94222732 ATTTTATTAG
Statistics
Matches: 37, Mismatches: 6, Indels: 5
0.77 0.12 0.10
Matches are distributed among these distances:
30 11 0.30
31 19 0.51
32 7 0.19
ACGTcount: A:0.40, C:0.01, G:0.04, T:0.55
Consensus pattern (32 bp):
AGATATTTTATTATTTTATTAATACTTTAATA
Found at i:94224930 original size:46 final size:46
Alignment explanation
Indices: 94224863--94225078 Score: 310
Period size: 46 Copynumber: 4.7 Consensus size: 46
94224853 TGGCAACCTG
*
94224863 TGTGTAAGACCATGGTTGAAAGATACCATGGCAACCTGATATGAAA
1 TGTGTAAGACCATGGTTGAAAGATACCATGGCAACCTGACATGAAA
* *
94224909 TGTGTAAGACCATGGTTGAAAGATACCATGGCAACCTGATATGAGA
1 TGTGTAAGACCATGGTTGAAAGATACCATGGCAACCTGACATGAAA
*
94224955 TGTGTAAGACCATGGTTGAAAGATACCATGGCAACGTGACATGAAA
1 TGTGTAAGACCATGGTTGAAAGATACCATGGCAACCTGACATGAAA
** *
94225001 -GACTAAGACCATGGTTGAAAGATACCATGGCAACATGACA-GAAAA
1 TGTGTAAGACCATGGTTGAAAGATACCATGGCAACCTGACATG-AAA
* * * *
94225046 TGAGTAAGACCATAGTTGAAAGACACTATGGCA
1 TGTGTAAGACCATGGTTGAAAGATACCATGGCA
94225079 TCACGTCAAA
Statistics
Matches: 157, Mismatches: 11, Indels: 4
0.91 0.06 0.02
Matches are distributed among these distances:
44 1 0.01
45 40 0.25
46 116 0.74
ACGTcount: A:0.38, C:0.16, G:0.25, T:0.21
Consensus pattern (46 bp):
TGTGTAAGACCATGGTTGAAAGATACCATGGCAACCTGACATGAAA
Found at i:94225057 original size:137 final size:130
Alignment explanation
Indices: 94224814--94225078 Score: 370
Period size: 137 Copynumber: 2.0 Consensus size: 130
94224804 AGTGTGCTCT
*
94224814 CTGATATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAACCTGTGTGTAAGACCATGGT
1 CTGATATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAACCTGTGAGTAAGACCATGGT
* * * * *
94224879 TGAAAGATACCATGGCAACCTGATATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAAC
66 TGAAAGATACCATGGCAACATGACATGAAATGAGTAAGACCATAGTTGAAAGACACCATGGCAAC
* *
94224944 CTGATATGAGATGTGTAAGACCATGGTTGAAAGATACCATGGCAACGTGACATGAAAGACTAAGA
1 CTGATATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAACCTG---TG--AG--TAAGA
*
94225009 CCATGGTTGAAAGATACCATGGCAACATGACA-GAAAATGAGTAAGACCATAGTTGAAAGACACT
59 CCATGGTTGAAAGATACCATGGCAACATGACATG-AAATGAGTAAGACCATAGTTGAAAGACACC
94225073 ATGGCA
123 ATGGCA
94225079 TCACGTCAAA
Statistics
Matches: 118, Mismatches: 9, Indels: 9
0.87 0.07 0.07
Matches are distributed among these distances:
130 47 0.40
133 2 0.02
135 1 0.01
136 1 0.01
137 67 0.57
ACGTcount: A:0.38, C:0.16, G:0.25, T:0.22
Consensus pattern (130 bp):
CTGATATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAACCTGTGAGTAAGACCATGGT
TGAAAGATACCATGGCAACATGACATGAAATGAGTAAGACCATAGTTGAAAGACACCATGGCAAC
Found at i:94225058 original size:91 final size:92
Alignment explanation
Indices: 94224866--94225078 Score: 304
Period size: 91 Copynumber: 2.3 Consensus size: 92
94224856 CAACCTGTGT
* **
94224866 GTAAGACCATGGTTGAAAGATACCATGGCAACCTGATATGAAATGTGTAAGACCATGGTTGAAAG
1 GTAAGACCATGGTTGAAAGATACCATGGCAACCTGACATGAAATGACTAAGACCATGGTTGAAAG
* * * *
94224931 ATACCATGGCAACCTGATATGAGATGT
66 ATACCATGGCAACATGACATGAAATGA
*
94224958 GTAAGACCATGGTTGAAAGATACCATGGCAACGTGACATGAAA-GACTAAGACCATGGTTGAAAG
1 GTAAGACCATGGTTGAAAGATACCATGGCAACCTGACATGAAATGACTAAGACCATGGTTGAAAG
94225022 ATACCATGGCAACATGACA-GAAAATGA
66 ATACCATGGCAACATGACATG-AAATGA
* * *
94225049 GTAAGACCATAGTTGAAAGACACTATGGCA
1 GTAAGACCATGGTTGAAAGATACCATGGCA
94225079 TCACGTCAAA
Statistics
Matches: 109, Mismatches: 11, Indels: 3
0.89 0.09 0.02
Matches are distributed among these distances:
90 1 0.01
91 67 0.61
92 41 0.38
ACGTcount: A:0.39, C:0.16, G:0.24, T:0.21
Consensus pattern (92 bp):
GTAAGACCATGGTTGAAAGATACCATGGCAACCTGACATGAAATGACTAAGACCATGGTTGAAAG
ATACCATGGCAACATGACATGAAATGA
Found at i:94227754 original size:2 final size:2
Alignment explanation
Indices: 94227747--94227772 Score: 52
Period size: 2 Copynumber: 13.0 Consensus size: 2
94227737 ATGCTTGAAC
94227747 AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT
94227773 GAGTGTGTGT
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 24 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:94232587 original size:20 final size:20
Alignment explanation
Indices: 94232562--94232623 Score: 54
Period size: 20 Copynumber: 3.1 Consensus size: 20
94232552 TCAATTTGTG
94232562 GACAAGTCACCAGTAATGCA
1 GACAAGTCACCAGTAATGCA
* * **
94232582 GACAAG-CTGCCAATAATGTG
1 GACAAGTC-ACCAGTAATGCA
* *
94232602 GTCGAGTCACCAGTAATGCA
1 GACAAGTCACCAGTAATGCA
94232622 GA
1 GA
94232624 TAAACTGCCA
Statistics
Matches: 29, Mismatches: 11, Indels: 4
0.66 0.25 0.09
Matches are distributed among these distances:
19 1 0.03
20 27 0.93
21 1 0.03
ACGTcount: A:0.35, C:0.23, G:0.24, T:0.18
Consensus pattern (20 bp):
GACAAGTCACCAGTAATGCA
Found at i:94235691 original size:46 final size:45
Alignment explanation
Indices: 94235582--94235803 Score: 209
Period size: 46 Copynumber: 4.9 Consensus size: 45
94235572 TGGCTCTCAC
* *
94235582 ACATC-CGTGCCGATGCATGTCCCAAACATGTCTTACACTAGC--
1 ACATCTCGAGCCGATGCATGTCCCAGACATGTCTTACACTAGCTT
94235624 ACATCTCGTAGCCGATGCATGTCCCAGACATGTCTTACACTAGCTT
1 ACATCTCG-AGCCGATGCATGTCCCAGACATGTCTTACACTAGCTT
* * * * *
94235670 ACATCTCGAGGCCGATGCATGTCCTAGACATGTTTTACATTGGCACT
1 ACATCTCGA-GCCGATGCATGTCCCAGACATGTCTTACACTAGC-TT
* * * *
94235717 -CGTCTCAATGCCGATGCCATGCCCCAGACATGGTCTTACACTGGCTT
1 ACATCTCGA-GCCGATG-CATGTCCCAGACAT-GTCTTACACTAGCTT
* * ** *
94235764 TCATAATATAGCCGATGCATGTCACAGACATGTCTTACAC
1 ACAT-CTCGAGCCGATGCATGTCCCAGACATGTCTTACAC
94235804 AGGCCCACAT
Statistics
Matches: 149, Mismatches: 21, Indels: 16
0.80 0.11 0.09
Matches are distributed among these distances:
42 5 0.03
43 2 0.01
44 33 0.22
45 1 0.01
46 60 0.40
47 26 0.17
48 20 0.13
49 2 0.01
ACGTcount: A:0.25, C:0.30, G:0.18, T:0.27
Consensus pattern (45 bp):
ACATCTCGAGCCGATGCATGTCCCAGACATGTCTTACACTAGCTT
Found at i:94235783 original size:94 final size:92
Alignment explanation
Indices: 94235590--94235802 Score: 231
Period size: 94 Copynumber: 2.3 Consensus size: 92
94235580 ACACATCCGT
* * * * *
94235590 GCCGATGCATGTCCCAAACATGTCTTACACTAGCACATC-TCGT--A-GCCGATGCATGTCCCAG
1 GCCGATGCATGTCACAGACATGTCTTACATTGGCAC-TCGTC-TCAATGCCGATGCATGCCCCAG
* *
94235651 ACATGTCTTACACTAGCTTACATCTCGAG
64 ACATGTCTTACACTAGCTTACATATAGAG
*
94235680 GCCGATGCATGTC-CTAGACATGTTTTACATTGGCACTCGTCTCAATGCCGATGCCATGCCCCAG
1 GCCGATGCATGTCAC-AGACATGTCTTACATTGGCACTCGTCTCAATGCCGATG-CATGCCCCAG
* * *
94235744 ACATGGTCTTACACTGGCTTTCATAATATA-
64 ACAT-GTCTTACACTAGCTTACAT-ATAGAG
94235774 GCCGATGCATGTCACAGACATGTCTTACA
1 GCCGATGCATGTCACAGACATGTCTTACA
94235803 CAGGCCCACA
Statistics
Matches: 103, Mismatches: 11, Indels: 14
0.80 0.09 0.11
Matches are distributed among these distances:
89 4 0.04
90 32 0.31
91 1 0.01
92 7 0.07
93 13 0.13
94 43 0.42
95 3 0.03
ACGTcount: A:0.25, C:0.29, G:0.19, T:0.27
Consensus pattern (92 bp):
GCCGATGCATGTCACAGACATGTCTTACATTGGCACTCGTCTCAATGCCGATGCATGCCCCAGAC
ATGTCTTACACTAGCTTACATATAGAG
Found at i:94235815 original size:46 final size:48
Alignment explanation
Indices: 94235726--94235815 Score: 112
Period size: 46 Copynumber: 1.9 Consensus size: 48
94235716 TCGTCTCAAT
* * ***
94235726 GCCGATGCCATGCCCCAGACATGGTCTTACACTGGCTTTCATAATATA
1 GCCGATGCCATGCCACAGACATGGTCTTACACAGGCCCACATAATATA
*
94235774 GCCGATG-CATGTCACAGACAT-GTCTTACACAGGCCCACATAA
1 GCCGATGCCATGCCACAGACATGGTCTTACACAGGCCCACATAA
94235816 CAGCAGTGTC
Statistics
Matches: 36, Mismatches: 6, Indels: 2
0.82 0.14 0.05
Matches are distributed among these distances:
46 17 0.47
47 12 0.33
48 7 0.19
ACGTcount: A:0.28, C:0.30, G:0.19, T:0.23
Consensus pattern (48 bp):
GCCGATGCCATGCCACAGACATGGTCTTACACAGGCCCACATAATATA
Found at i:94240652 original size:165 final size:165
Alignment explanation
Indices: 94240374--94240697 Score: 585
Period size: 165 Copynumber: 2.0 Consensus size: 165
94240364 GACAGGGCGA
94240374 AGACCTCGGATGGATTATGCATTGTCTAGTACATGGCGTGTAGGAAACCTTTTTTATTTGGTGGG
1 AGACCTCGGATGGATTATGCATTGTCTAGTACATGGCGTGTAGGAAACCTTTTTTATTTGGTGGG
*
94240439 AAAACAATGCTAGTCCCTTCATACATGGAAAGACTAGGGCACCTCTCCCAACGCATGTCACATCT
66 AAAACAATGCTAGTCCCTTCACACATGGAAAGACTAGGGCACCTCTCCCAACGCATGTCACATCT
* *
94240504 GCCTTCTGCACCCGAACCGGAGCTCGCACGGGCAG
131 ACCTTCTGCACCCGAACCAGAGCTCGCACGGGCAG
94240539 AGACCTCGGATGGATTATGCATTGTCTAGTACATGGCGTGTAGGAAACCTTTTTTATTTGGTGGG
1 AGACCTCGGATGGATTATGCATTGTCTAGTACATGGCGTGTAGGAAACCTTTTTTATTTGGTGGG
* * * *
94240604 CAAACAATGCTAGTCCCTTTACACATGGAAAGACTAGGGCATCTCTCCCAACGTATGTCACATCT
66 AAAACAATGCTAGTCCCTTCACACATGGAAAGACTAGGGCACCTCTCCCAACGCATGTCACATCT
94240669 ACCTTCTGCACCCGAACCAGAGCTCGCAC
131 ACCTTCTGCACCCGAACCAGAGCTCGCAC
94240698 CTGAACCGAA
Statistics
Matches: 152, Mismatches: 7, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
165 152 1.00
ACGTcount: A:0.25, C:0.26, G:0.23, T:0.26
Consensus pattern (165 bp):
AGACCTCGGATGGATTATGCATTGTCTAGTACATGGCGTGTAGGAAACCTTTTTTATTTGGTGGG
AAAACAATGCTAGTCCCTTCACACATGGAAAGACTAGGGCACCTCTCCCAACGCATGTCACATCT
ACCTTCTGCACCCGAACCAGAGCTCGCACGGGCAG
Found at i:94243585 original size:55 final size:53
Alignment explanation
Indices: 94243461--94243656 Score: 144
Period size: 55 Copynumber: 3.6 Consensus size: 53
94243451 ATTAGGGTTT
* * * * * * * *
94243461 AAGGATACCATGTAAGACCATGCCAAGGCTTGGAAATTGGTAAGGTTTC-TAAGGT
1 AAGGAAACCATGTAAGACCATGTCAAGACATGG-CATTGATAA-G-TTCATAAAGC
* * *
94243516 AAGGATATCATGTAAGACAATGTCAAGACATGGCATTGATAAGTTACTATAAAGC
1 AAGGAAACCATGTAAGACCATGTCAAGACATGGCATTGATAAGTT-C-ATAAAGC
** * * * * * *
94243571 AAAGG-TCCCATGTAAAACCATGCCAAGGCATGGCATTGGTGAGTTCATAAGGC
1 -AAGGAAACCATGTAAGACCATGTCAAGACATGGCATTGATAAGTTCATAAAGC
*
94243624 AAGGAAACCATGTAAGACCATGTTAAGACATGG
1 AAGGAAACCATGTAAGACCATGTCAAGACATGG
94243657 AAATGGTAAG
Statistics
Matches: 112, Mismatches: 24, Indels: 12
0.76 0.16 0.08
Matches are distributed among these distances:
52 6 0.05
53 30 0.27
54 8 0.07
55 64 0.57
56 4 0.04
ACGTcount: A:0.37, C:0.16, G:0.24, T:0.23
Consensus pattern (53 bp):
AAGGAAACCATGTAAGACCATGTCAAGACATGGCATTGATAAGTTCATAAAGC
Found at i:94243667 original size:108 final size:110
Alignment explanation
Indices: 94243468--94243668 Score: 264
Period size: 108 Copynumber: 1.8 Consensus size: 110
94243458 TTTAAGGATA
* * * * *
94243468 CCATGTAAGACCATGCCAAGGCTTGGAAATTGGTAAGGTTTCTAAGGTAAGGATATCATGTAAGA
1 CCATGTAAAACCATGCCAAGGCATGGAAATTGGTAAGGTTTCTAAGGCAAGGAAACCATGTAAGA
* *
94243533 CAATGTCAAGACATGGCATTGATAAGTTACTATAAAGCAAAGGTC
66 CAATGTCAAGACATGGAAATGATAAGTTACTATAAAGCAAAGGTC
* *
94243578 CCATGTAAAACCATGCCAAGGCATGG-CATTGGTGA-G-TTCATAAGGCAAGGAAACCATGTAAG
1 CCATGTAAAACCATGCCAAGGCATGGAAATTGGTAAGGTTTC-TAAGGCAAGGAAACCATGTAAG
* * *
94243640 ACCATGTTAAGACATGGAAATGGTAAGTT
65 ACAATGTCAAGACATGGAAATGATAAGTT
94243669 TTAAAAGGAT
Statistics
Matches: 78, Mismatches: 12, Indels: 4
0.83 0.13 0.04
Matches are distributed among these distances:
107 3 0.04
108 44 0.56
109 7 0.09
110 24 0.31
ACGTcount: A:0.36, C:0.15, G:0.24, T:0.24
Consensus pattern (110 bp):
CCATGTAAAACCATGCCAAGGCATGGAAATTGGTAAGGTTTCTAAGGCAAGGAAACCATGTAAGA
CAATGTCAAGACATGGAAATGATAAGTTACTATAAAGCAAAGGTC
Found at i:94243929 original size:16 final size:16
Alignment explanation
Indices: 94243908--94243938 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
94243898 ATAAATTTGA
94243908 TTAAGTAAGTAAGTAT
1 TTAAGTAAGTAAGTAT
*
94243924 TTAAGTAAGTGAGTA
1 TTAAGTAAGTAAGTA
94243939 AGTGAAGAAG
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
16 14 1.00
ACGTcount: A:0.42, C:0.00, G:0.23, T:0.35
Consensus pattern (16 bp):
TTAAGTAAGTAAGTAT
Found at i:94247159 original size:27 final size:27
Alignment explanation
Indices: 94247106--94247160 Score: 83
Period size: 27 Copynumber: 2.0 Consensus size: 27
94247096 GTGTTGCCTT
*
94247106 TTTCTCACCCTCCACTGGAGCCGCCTC
1 TTTCTCACCCTCCACTGGAGCCACCTC
* *
94247133 TTTCTCACCCTCCACTGGTGTCACCTC
1 TTTCTCACCCTCCACTGGAGCCACCTC
94247160 T
1 T
94247161 CTTACCTTCC
Statistics
Matches: 25, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
27 25 1.00
ACGTcount: A:0.11, C:0.45, G:0.13, T:0.31
Consensus pattern (27 bp):
TTTCTCACCCTCCACTGGAGCCACCTC
Found at i:94249122 original size:17 final size:18
Alignment explanation
Indices: 94249095--94249132 Score: 51
Period size: 17 Copynumber: 2.2 Consensus size: 18
94249085 CATTTTAATT
*
94249095 AATTATGTTATCATTTTA
1 AATTATGTTATCATATTA
*
94249113 AATTAT-TTATTATATTA
1 AATTATGTTATCATATTA
94249130 AAT
1 AAT
94249133 AATAAATATT
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
17 12 0.67
18 6 0.33
ACGTcount: A:0.39, C:0.03, G:0.03, T:0.55
Consensus pattern (18 bp):
AATTATGTTATCATATTA
Found at i:94250244 original size:15 final size:12
Alignment explanation
Indices: 94250198--94250247 Score: 55
Period size: 12 Copynumber: 3.9 Consensus size: 12
94250188 GGATATGGCA
*
94250198 GGGGCGGAGGCG
1 GGGGCGGAGGTG
*
94250210 GAGGCGGAGGTG
1 GGGGCGGAGGTG
94250222 GGGGCGGAGGCTGG
1 GGGGCGGAGG-T-G
94250236 GGCGGCGGAGGT
1 GG-GGCGGAGGT
94250248 AGCTCATAGT
Statistics
Matches: 32, Mismatches: 3, Indels: 4
0.82 0.08 0.10
Matches are distributed among these distances:
12 19 0.59
13 1 0.03
14 4 0.12
15 8 0.25
ACGTcount: A:0.10, C:0.14, G:0.70, T:0.06
Consensus pattern (12 bp):
GGGGCGGAGGTG
Found at i:94251553 original size:3 final size:3
Alignment explanation
Indices: 94251545--94251580 Score: 72
Period size: 3 Copynumber: 12.0 Consensus size: 3
94251535 ATTGAGTCCT
94251545 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA
1 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA
94251581 AACTAATCAA
Statistics
Matches: 33, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 33 1.00
ACGTcount: A:0.67, C:0.00, G:0.00, T:0.33
Consensus pattern (3 bp):
TAA
Found at i:94251860 original size:8 final size:8
Alignment explanation
Indices: 94251841--94251882 Score: 54
Period size: 7 Copynumber: 5.6 Consensus size: 8
94251831 AGACCAGTAC
94251841 AAAAATAT
1 AAAAATAT
94251849 -AAAATAT
1 AAAAATAT
94251856 AAAAATA-
1 AAAAATAT
94251863 AAAAA-AT
1 AAAAATAT
*
94251870 TAAAATAT
1 AAAAATAT
94251878 AAAAA
1 AAAAA
94251883 ATTCAAAAAA
Statistics
Matches: 29, Mismatches: 2, Indels: 6
0.78 0.05 0.16
Matches are distributed among these distances:
6 1 0.03
7 16 0.55
8 12 0.41
ACGTcount: A:0.79, C:0.00, G:0.00, T:0.21
Consensus pattern (8 bp):
AAAAATAT
Found at i:94251868 original size:16 final size:16
Alignment explanation
Indices: 94251849--94251883 Score: 54
Period size: 16 Copynumber: 2.2 Consensus size: 16
94251839 ACAAAAATAT
94251849 AAAATATAAAA-ATAAA
1 AAAAT-TAAAATATAAA
94251865 AAAATTAAAATATAAA
1 AAAATTAAAATATAAA
94251881 AAA
1 AAA
94251884 TTCAAAAAAA
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
15 5 0.28
16 13 0.72
ACGTcount: A:0.80, C:0.00, G:0.00, T:0.20
Consensus pattern (16 bp):
AAAATTAAAATATAAA
Found at i:94251882 original size:15 final size:15
Alignment explanation
Indices: 94251842--94251890 Score: 64
Period size: 15 Copynumber: 3.3 Consensus size: 15
94251832 GACCAGTACA
* *
94251842 AAAATATAAAATATA
1 AAAATATAAAAAATT
94251857 AAAATA-AAAAAATT
1 AAAATATAAAAAATT
94251871 AAAATATAAAAAATT
1 AAAATATAAAAAATT
94251886 CAAAA
1 -AAAA
94251891 AAAATGTATT
Statistics
Matches: 30, Mismatches: 2, Indels: 3
0.86 0.06 0.09
Matches are distributed among these distances:
14 12 0.40
15 14 0.47
16 4 0.13
ACGTcount: A:0.76, C:0.02, G:0.00, T:0.22
Consensus pattern (15 bp):
AAAATATAAAAAATT
Found at i:94252057 original size:20 final size:20
Alignment explanation
Indices: 94252015--94252065 Score: 63
Period size: 19 Copynumber: 2.7 Consensus size: 20
94252005 CTTAAATTTT
* *
94252015 ATAAAAATAT-TAATAATTC
1 ATAAAAATATATAAAAAATC
94252034 -TAAAAATATATAAAAAATC
1 ATAAAAATATATAAAAAATC
94252053 ATAAAAAT-TATAA
1 ATAAAAATATATAA
94252066 CTTATTTCAC
Statistics
Matches: 28, Mismatches: 2, Indels: 4
0.82 0.06 0.12
Matches are distributed among these distances:
18 9 0.32
19 12 0.43
20 7 0.25
ACGTcount: A:0.65, C:0.04, G:0.00, T:0.31
Consensus pattern (20 bp):
ATAAAAATATATAAAAAATC
Found at i:94256500 original size:12 final size:12
Alignment explanation
Indices: 94256481--94256510 Score: 51
Period size: 12 Copynumber: 2.5 Consensus size: 12
94256471 ACCCACACAC
94256481 CCGTGTGCTAGG
1 CCGTGTGCTAGG
*
94256493 CTGTGTGCTAGG
1 CCGTGTGCTAGG
94256505 CCGTGT
1 CCGTGT
94256511 AAATGATTGA
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
12 16 1.00
ACGTcount: A:0.07, C:0.23, G:0.40, T:0.30
Consensus pattern (12 bp):
CCGTGTGCTAGG
Found at i:94257476 original size:35 final size:35
Alignment explanation
Indices: 94257391--94257517 Score: 128
Period size: 35 Copynumber: 3.6 Consensus size: 35
94257381 GTACTTTGTC
** * *
94257391 AGTCCAACCAAAACACACCAGATGCTCACAAGAGCC
1 AGTCCAACTGAAACACACCA-ATGCTCATAAGAGCT
* ** ** * *
94257427 AATCCCTCCAAAACACACTAATGGTCATAAGAGCT
1 AGTCCAACTGAAACACACCAATGCTCATAAGAGCT
94257462 AGTCCAACTGAAACACACCAATGCTCATAAGAGCT
1 AGTCCAACTGAAACACACCAATGCTCATAAGAGCT
**
94257497 AGTCCCTCTGAAACACACCAA
1 AGTCCAACTGAAACACACCAA
94257518 ACAGATAGCA
Statistics
Matches: 75, Mismatches: 16, Indels: 1
0.82 0.17 0.01
Matches are distributed among these distances:
35 59 0.79
36 16 0.21
ACGTcount: A:0.40, C:0.32, G:0.13, T:0.15
Consensus pattern (35 bp):
AGTCCAACTGAAACACACCAATGCTCATAAGAGCT
Found at i:94266257 original size:15 final size:15
Alignment explanation
Indices: 94266237--94266266 Score: 51
Period size: 15 Copynumber: 2.0 Consensus size: 15
94266227 TTTATTAGTA
94266237 TTTATTTATAAATTT
1 TTTATTTATAAATTT
*
94266252 TTTATTTTTAAATTT
1 TTTATTTATAAATTT
94266267 AATAATAATA
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
15 14 1.00
ACGTcount: A:0.30, C:0.00, G:0.00, T:0.70
Consensus pattern (15 bp):
TTTATTTATAAATTT
Found at i:94268037 original size:28 final size:29
Alignment explanation
Indices: 94268005--94268061 Score: 98
Period size: 28 Copynumber: 2.0 Consensus size: 29
94267995 TCTTTTATTA
94268005 CATTTCTTATATATTTATT-TTTAGATAG
1 CATTTCTTATATATTTATTATTTAGATAG
94268033 CATTTCTTATATATTTATTAATTTAGATA
1 CATTTCTTATATATTTATT-ATTTAGATA
94268062 TTTAAGGAAA
Statistics
Matches: 27, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
28 19 0.70
30 8 0.30
ACGTcount: A:0.32, C:0.07, G:0.05, T:0.56
Consensus pattern (29 bp):
CATTTCTTATATATTTATTATTTAGATAG
Found at i:94268328 original size:5 final size:5
Alignment explanation
Indices: 94268318--94268346 Score: 58
Period size: 5 Copynumber: 5.8 Consensus size: 5
94268308 TACAAGTACT
94268318 TTTTC TTTTC TTTTC TTTTC TTTTC TTTT
1 TTTTC TTTTC TTTTC TTTTC TTTTC TTTT
94268347 TTGCCATCTG
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 24 1.00
ACGTcount: A:0.00, C:0.17, G:0.00, T:0.83
Consensus pattern (5 bp):
TTTTC
Found at i:94273103 original size:10 final size:10
Alignment explanation
Indices: 94273006--94273105 Score: 50
Period size: 10 Copynumber: 10.4 Consensus size: 10
94272996 ATTTAAATAT
*
94273006 TAAAAATTTA
1 TAAAAAATTA
* *
94273016 TTAAGAATTA
1 TAAAAAATTA
94273026 -AAAAAA-TA
1 TAAAAAATTA
*
94273034 T-AAAAATTG
1 TAAAAAATTA
*
94273043 TAAAAAAATTTC
1 T-AAAAAA-TTA
**
94273055 TAAAAAATCG
1 TAAAAAATTA
*
94273065 TAAAAAATTT
1 TAAAAAATTA
*
94273075 TAAAATA-TA
1 TAAAAAATTA
*
94273084 T-AGAAA-TA
1 TAAAAAATTA
94273092 TAAAAAATTA
1 TAAAAAATTA
94273102 TAAA
1 TAAA
94273106 TGTTTATAAA
Statistics
Matches: 67, Mismatches: 16, Indels: 14
0.69 0.16 0.14
Matches are distributed among these distances:
8 13 0.19
9 12 0.18
10 28 0.42
11 11 0.16
12 3 0.04
ACGTcount: A:0.63, C:0.02, G:0.04, T:0.31
Consensus pattern (10 bp):
TAAAAAATTA
Found at i:94273405 original size:9 final size:9
Alignment explanation
Indices: 94273385--94273471 Score: 54
Period size: 9 Copynumber: 9.4 Consensus size: 9
94273375 TAAATTCTCA
94273385 TTTTTAAA-
1 TTTTTAAAT
94273393 TTTTTAAAT
1 TTTTTAAAT
*
94273402 TTTTTATATT
1 TTTTTA-AAT
94273412 TTTATTAAAAT
1 TTT-TT-AAAT
**
94273423 TTAATAAAT
1 TTTTTAAAT
*
94273432 TTTCTAAAAT
1 TTT-TTAAAT
*
94273442 TTATT--AT
1 TTTTTAAAT
*
94273449 TTATTATAAT
1 TTTTTA-AAT
94273459 TTTTTAAAT
1 TTTTTAAAT
94273468 TTTT
1 TTTT
94273472 AATAAGAGCA
Statistics
Matches: 61, Mismatches: 10, Indels: 15
0.71 0.12 0.17
Matches are distributed among these distances:
7 7 0.11
8 8 0.13
9 20 0.33
10 19 0.31
11 6 0.10
12 1 0.02
ACGTcount: A:0.36, C:0.01, G:0.00, T:0.63
Consensus pattern (9 bp):
TTTTTAAAT
Found at i:94273476 original size:19 final size:18
Alignment explanation
Indices: 94273385--94273473 Score: 67
Period size: 19 Copynumber: 4.8 Consensus size: 18
94273375 TAAATTCTCA
94273385 TTTTTAAATTTTT-AAAT
1 TTTTTAAATTTTTAAAAT
*
94273402 TTTTTATATTTTTATTAAAAT
1 TTTTTA-A-ATTT-TTAAAAT
**
94273423 TTAATAAATTTTCTAAAAT
1 TTTTTAAATTTT-TAAAAT
* *
94273442 TTATT--ATTTATTATAAT
1 TTTTTAAATTT-TTAAAAT
94273459 TTTTTAAATTTTTAA
1 TTTTTAAATTTTTAA
94273474 TAAGAGCAGG
Statistics
Matches: 56, Mismatches: 8, Indels: 15
0.71 0.10 0.19
Matches are distributed among these distances:
17 19 0.34
18 6 0.11
19 20 0.36
20 3 0.05
21 8 0.14
ACGTcount: A:0.37, C:0.01, G:0.00, T:0.62
Consensus pattern (18 bp):
TTTTTAAATTTTTAAAAT
Found at i:94273584 original size:85 final size:87
Alignment explanation
Indices: 94273482--94273650 Score: 234
Period size: 86 Copynumber: 2.0 Consensus size: 87
94273472 AATAAGAGCA
* * *
94273482 GGGGCTTAATTGCTTTTTTGAAAAATTTTGAGGGC-CTTTTGATGCATTTTGAAACTTTAAGTAC
1 GGGGCTTAATTGCTTTTTTGAAAAAGTTTGAGGGCTCTTTTGATACATTTTGAAACTTCAAGTAC
94273546 CCAATTGAGTG-AAAAAAAGTT
66 CCAATTGAGTGCAAAAAAAGTT
** * * * *
94273567 GGGGCTTAATTTTTTTTTTGAAGAAGTTTGAGGGCTTTTTTGATACATTTTGAAAGTTCAAGTGC
1 GGGGCTTAATTGCTTTTTTGAAAAAGTTTGAGGGCTCTTTTGATACATTTTGAAACTTCAAGTAC
*
94273632 TCAATTGAGTGCAAAAAAA
66 CCAATTGAGTGCAAAAAAA
94273651 AAATGAGGGA
Statistics
Matches: 72, Mismatches: 10, Indels: 2
0.86 0.12 0.02
Matches are distributed among these distances:
85 31 0.43
86 34 0.47
87 7 0.10
ACGTcount: A:0.30, C:0.09, G:0.22, T:0.38
Consensus pattern (87 bp):
GGGGCTTAATTGCTTTTTTGAAAAAGTTTGAGGGCTCTTTTGATACATTTTGAAACTTCAAGTAC
CCAATTGAGTGCAAAAAAAGTT
Found at i:94273874 original size:31 final size:31
Alignment explanation
Indices: 94273839--94273897 Score: 91
Period size: 31 Copynumber: 1.9 Consensus size: 31
94273829 TTTTGCCGAT
**
94273839 TTCAATCCCTATTATTATCAAACGTTTTTAA
1 TTCAATCCCTAACATTATCAAACGTTTTTAA
*
94273870 TTCAATCCCTAACATTATCAAATGTTTT
1 TTCAATCCCTAACATTATCAAACGTTTT
94273898 CGATTTAGAT
Statistics
Matches: 25, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
31 25 1.00
ACGTcount: A:0.32, C:0.20, G:0.03, T:0.44
Consensus pattern (31 bp):
TTCAATCCCTAACATTATCAAACGTTTTTAA
Found at i:94274131 original size:18 final size:17
Alignment explanation
Indices: 94274081--94274132 Score: 50
Period size: 18 Copynumber: 2.8 Consensus size: 17
94274071 AAAAAAATCT
94274081 ATAAAAACTATAAACATTA
1 ATAAAAA-TATAAA-ATTA
* *
94274100 TTAGAAAATGTAAAATATA
1 ATA-AAAATATAAAAT-TA
94274119 ATAAAAATATAAAA
1 ATAAAAATATAAAA
94274133 ATTATTAGTA
Statistics
Matches: 27, Mismatches: 4, Indels: 5
0.75 0.11 0.14
Matches are distributed among these distances:
18 12 0.44
19 11 0.41
20 4 0.15
ACGTcount: A:0.65, C:0.04, G:0.04, T:0.27
Consensus pattern (17 bp):
ATAAAAATATAAAATTA
Found at i:94274181 original size:30 final size:29
Alignment explanation
Indices: 94274119--94274181 Score: 69
Period size: 30 Copynumber: 2.2 Consensus size: 29
94274109 GTAAAATATA
**
94274119 ATAAAA-A-TATAAAAATTATTAGTAATC
1 ATAAAAGATTATAAAAATTATTACAAATC
94274146 ATAAAAGATTATAACAAATTATTACAAACTC
1 ATAAAAGATTATAA-AAATTATTACAAA-TC
94274177 -TAAAA
1 ATAAAA
94274182 ACAGTAAAAA
Statistics
Matches: 30, Mismatches: 2, Indels: 5
0.81 0.05 0.14
Matches are distributed among these distances:
27 6 0.20
28 1 0.03
29 5 0.17
30 16 0.53
31 2 0.07
ACGTcount: A:0.59, C:0.08, G:0.03, T:0.30
Consensus pattern (29 bp):
ATAAAAGATTATAAAAATTATTACAAATC
Found at i:94276136 original size:44 final size:44
Alignment explanation
Indices: 94276069--94276157 Score: 169
Period size: 44 Copynumber: 2.0 Consensus size: 44
94276059 AACGGTGAGG
*
94276069 TCCCATGCCTATCTTTTTTAGAATGAGCCAGGAGTACGCAACTT
1 TCCCATGCCTATCTTTTTGAGAATGAGCCAGGAGTACGCAACTT
94276113 TCCCATGCCTATCTTTTTGAGAATGAGCCAGGAGTACGCAACTT
1 TCCCATGCCTATCTTTTTGAGAATGAGCCAGGAGTACGCAACTT
94276157 T
1 T
94276158 AGTTGTATAT
Statistics
Matches: 44, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
44 44 1.00
ACGTcount: A:0.25, C:0.25, G:0.19, T:0.31
Consensus pattern (44 bp):
TCCCATGCCTATCTTTTTGAGAATGAGCCAGGAGTACGCAACTT
Found at i:94276967 original size:127 final size:127
Alignment explanation
Indices: 94276741--94277122 Score: 764
Period size: 127 Copynumber: 3.0 Consensus size: 127
94276731 TCATATGTTC
94276741 AATAATACCATCACTTTGTAATGCCATTGGCAAATGCATAAACTGCTAAGGCAAAAACCCAGTAT
1 AATAATACCATCACTTTGTAATGCCATTGGCAAATGCATAAACTGCTAAGGCAAAAACCCAGTAT
94276806 TTTTCTTGGTTTATCTTCTAAACTTTGAATTTTTTAGTGACGTGATTGAATAAAGGAGTGAG
66 TTTTCTTGGTTTATCTTCTAAACTTTGAATTTTTTAGTGACGTGATTGAATAAAGGAGTGAG
94276868 AATAATACCATCACTTTGTAATGCCATTGGCAAATGCATAAACTGCTAAGGCAAAAACCCAGTAT
1 AATAATACCATCACTTTGTAATGCCATTGGCAAATGCATAAACTGCTAAGGCAAAAACCCAGTAT
94276933 TTTTCTTGGTTTATCTTCTAAACTTTGAATTTTTTAGTGACGTGATTGAATAAAGGAGTGAG
66 TTTTCTTGGTTTATCTTCTAAACTTTGAATTTTTTAGTGACGTGATTGAATAAAGGAGTGAG
94276995 AATAATACCATCACTTTGTAATGCCATTGGCAAATGCATAAACTGCTAAGGCAAAAACCCAGTAT
1 AATAATACCATCACTTTGTAATGCCATTGGCAAATGCATAAACTGCTAAGGCAAAAACCCAGTAT
94277060 TTTTCTTGGTTTATCTTCTAAACTTTGAATTTTTTAGTGACGTGATTGAATAAAGGAGTGAG
66 TTTTCTTGGTTTATCTTCTAAACTTTGAATTTTTTAGTGACGTGATTGAATAAAGGAGTGAG
94277122 A
1 A
94277123 CATACAAAAT
Statistics
Matches: 255, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
127 255 1.00
ACGTcount: A:0.33, C:0.15, G:0.17, T:0.35
Consensus pattern (127 bp):
AATAATACCATCACTTTGTAATGCCATTGGCAAATGCATAAACTGCTAAGGCAAAAACCCAGTAT
TTTTCTTGGTTTATCTTCTAAACTTTGAATTTTTTAGTGACGTGATTGAATAAAGGAGTGAG
Found at i:94291124 original size:47 final size:48
Alignment explanation
Indices: 94291072--94291177 Score: 133
Period size: 54 Copynumber: 2.1 Consensus size: 48
94291062 AGGTTGGACC
*
94291072 ATGGC-AACAAGTGATAAGTGATATCCGTATAAGACCATAGCTGGGCT
1 ATGGCAAACAAGTGATAAGTGATATCCGTATAAAACCATAGCTGGGCT
*
94291119 ATGGCATCAAAAAACAAGTGATAAGTGATTTCCGTATAAAACCATAGCTGGGCT
1 ATGG---C---AAACAAGTGATAAGTGATATCCGTATAAAACCATAGCTGGGCT
94291173 ATGGC
1 ATGGC
94291178 TTCGGATTAA
Statistics
Matches: 50, Mismatches: 2, Indels: 10
0.81 0.03 0.16
Matches are distributed among these distances:
47 4 0.08
50 1 0.02
51 1 0.02
54 44 0.88
ACGTcount: A:0.36, C:0.17, G:0.24, T:0.24
Consensus pattern (48 bp):
ATGGCAAACAAGTGATAAGTGATATCCGTATAAAACCATAGCTGGGCT
Found at i:94291141 original size:54 final size:53
Alignment explanation
Indices: 94291080--94291284 Score: 227
Period size: 53 Copynumber: 3.9 Consensus size: 53
94291070 CCATGGCAAC
**
94291080 AAGTGATAAGTGATATCCGTATAAGACCATAGCTGGGCTATGGCATCAAAAAA
1 AAGTGATAAGTGATATCCGTATAAGACCATAGCTGGGCTATGGCATCGGAAAA
* * * **
94291133 CAAGTGATAAGTGATTTCCGTATAAAACCATAGCTGGGCTATGGCTTCGGATTA
1 -AAGTGATAAGTGATATCCGTATAAGACCATAGCTGGGCTATGGCATCGGAAAA
* *
94291187 AAGTGATACAAGTG--ATCCGTATAAGACCATAGCTAGGCTATGGCATCGGAGAA
1 AAGTGAT--AAGTGATATCCGTATAAGACCATAGCTGGGCTATGGCATCGGAAAA
* * * * * *
94291240 AAGTGATAAGTGCT-CCCGTGTAAGACCATATCCGGGATATGGCAT
1 AAGTGATAAGTGATATCCGTATAAGACCATAGCTGGGCTATGGCAT
94291285 TGGTATGATA
Statistics
Matches: 128, Mismatches: 19, Indels: 10
0.82 0.12 0.06
Matches are distributed among these distances:
51 5 0.04
52 25 0.20
53 47 0.37
54 46 0.36
55 5 0.04
ACGTcount: A:0.34, C:0.17, G:0.25, T:0.24
Consensus pattern (53 bp):
AAGTGATAAGTGATATCCGTATAAGACCATAGCTGGGCTATGGCATCGGAAAA
Found at i:94299553 original size:16 final size:16
Alignment explanation
Indices: 94299532--94299574 Score: 56
Period size: 13 Copynumber: 2.9 Consensus size: 16
94299522 CTTGTAATCT
94299532 TTTCTTGTGTTCATCA
1 TTTCTTGTGTTCATCA
*
94299548 TTTC-T-TGTT-ATCT
1 TTTCTTGTGTTCATCA
94299561 TTTCTTGTGTTCAT
1 TTTCTTGTGTTCAT
94299575 TTGTCTGGGT
Statistics
Matches: 23, Mismatches: 1, Indels: 6
0.77 0.03 0.20
Matches are distributed among these distances:
13 7 0.30
14 5 0.22
15 5 0.22
16 6 0.26
ACGTcount: A:0.09, C:0.16, G:0.12, T:0.63
Consensus pattern (16 bp):
TTTCTTGTGTTCATCA
Found at i:94299555 original size:29 final size:29
Alignment explanation
Indices: 94299515--94299574 Score: 111
Period size: 29 Copynumber: 2.1 Consensus size: 29
94299505 GTTTTTTAGT
94299515 ATCATTTCTTGTAATCTTTTCTTGTGTTC
1 ATCATTTCTTGTAATCTTTTCTTGTGTTC
*
94299544 ATCATTTCTTGTTATCTTTTCTTGTGTTC
1 ATCATTTCTTGTAATCTTTTCTTGTGTTC
94299573 AT
1 AT
94299575 TTGTCTGGGT
Statistics
Matches: 30, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
29 30 1.00
ACGTcount: A:0.13, C:0.17, G:0.10, T:0.60
Consensus pattern (29 bp):
ATCATTTCTTGTAATCTTTTCTTGTGTTC
Found at i:94304072 original size:131 final size:131
Alignment explanation
Indices: 94303838--94304087 Score: 351
Period size: 131 Copynumber: 1.9 Consensus size: 131
94303828 ATTCATTTAA
*
94303838 AAAAATTCTTTAAAACGAAGGCAATACTCGATGTTTGTCAATTCGGGAATCGTGCCCTATCGTGA
1 AAAAATTCTTCAAAACGAAGGCAATACTCGATGTTTGTCAATTCGGGAATCGTGCCCTATCGTGA
* ** *
94303903 TGGGTTGCGATTTCCCCGTTTGTTTGAAACAAACGAATATTCCTTTGGAATTTCGTTCATGTCTT
66 TGGGTTGCGATCTCCCCGTTTGTTCCAAACAAACGAATATTCCTTTAGAATTTCGTTCATGTCTT
94303968 T
131 T
* **
94303969 AAAAATTCTTCAAAACGAAGGTAATGTTCGATGTTTGGT-AATTCGGGGAATCGTGCCCTATCGT
1 AAAAATTCTTCAAAACGAAGGCAATACTCGATGTTT-GTCAATTC-GGGAATCGTGCCCTATCGT
* ** * *
94304033 GCTGGGTTGCGATCT-CTTGTTTGTTCCAAATAATCGAATATTCCTTTAGAATTTC
64 GATGGGTTGCGATCTCCCCGTTTGTTCCAAACAAACGAATATTCCTTTAGAATTTC
94304088 ACTCATTCTA
Statistics
Matches: 104, Mismatches: 13, Indels: 4
0.86 0.11 0.03
Matches are distributed among these distances:
131 70 0.67
132 34 0.33
ACGTcount: A:0.26, C:0.18, G:0.20, T:0.36
Consensus pattern (131 bp):
AAAAATTCTTCAAAACGAAGGCAATACTCGATGTTTGTCAATTCGGGAATCGTGCCCTATCGTGA
TGGGTTGCGATCTCCCCGTTTGTTCCAAACAAACGAATATTCCTTTAGAATTTCGTTCATGTCTT
T
Found at i:94304887 original size:43 final size:42
Alignment explanation
Indices: 94304816--94304938 Score: 142
Period size: 42 Copynumber: 2.9 Consensus size: 42
94304806 TCGTAAACTC
* * *
94304816 ATACAATGCCAAC-GTCCCAGAGAAGGTCTTACATGTAATCAA
1 ATACGATGCC-ACTGTCCCAGACAAGGTCTTACACGTAATCAA
* *
94304858 ATATCGATGCCACTGTCCCAGACAGGGTCTTACACG-AGATCAT
1 ATA-CGATGCCACTGTCCCAGACAAGGTCTTACACGTA-ATCAA
* *
94304901 ATACGATGCCAATGTCCCAGACATGGTCTTACACGTAA
1 ATACGATGCCACTGTCCCAGACAAGGTCTTACACGTAA
94304939 ATCTGAAATC
Statistics
Matches: 70, Mismatches: 7, Indels: 8
0.82 0.08 0.09
Matches are distributed among these distances:
42 37 0.53
43 33 0.47
ACGTcount: A:0.33, C:0.26, G:0.19, T:0.23
Consensus pattern (42 bp):
ATACGATGCCACTGTCCCAGACAAGGTCTTACACGTAATCAA
Found at i:94304921 original size:42 final size:42
Alignment explanation
Indices: 94304816--94304985 Score: 155
Period size: 43 Copynumber: 4.0 Consensus size: 42
94304806 TCGTAAACTC
* * * *
94304816 ATACAATGCCAACGTCCCAGAGAAGGTCTTACATGTAATCAA
1 ATACGATGCCAATGTCCCAGACAAGGTCTTACACGTAATCAA
* * *
94304858 ATATCGATGCCACTGTCCCAGACAGGGTCTTACACG-AGATCAT
1 ATA-CGATGCCAATGTCCCAGACAAGGTCTTACACGTA-ATCAA
*
94304901 ATACGATGCCAATGTCCCAGACATGGTCTTACACGTAAATCTGAA
1 ATACGATGCCAATGTCCCAGACAAGGTCTTACACGT-AATC--AA
* * * ** *
94304946 AT-CGATACCAACGTCCCAAACGTGGTCTTACACGAAATCA
1 ATACGATGCCAATGTCCCAGACAAGGTCTTACACGTAATCA
94304986 CATATCGGAA
Statistics
Matches: 107, Mismatches: 15, Indels: 13
0.79 0.11 0.10
Matches are distributed among these distances:
41 1 0.01
42 34 0.32
43 40 0.37
44 29 0.27
45 3 0.03
ACGTcount: A:0.34, C:0.26, G:0.18, T:0.22
Consensus pattern (42 bp):
ATACGATGCCAATGTCCCAGACAAGGTCTTACACGTAATCAA
Found at i:94304980 original size:86 final size:85
Alignment explanation
Indices: 94304816--94304985 Score: 202
Period size: 86 Copynumber: 2.0 Consensus size: 85
94304806 TCGTAAACTC
* * * *
94304816 ATACAATGCCAACGTCCCAGAGAAGGTCTTACATGTAATCAAATATCGATGCCACTGTCCCAGAC
1 ATACAATGCCAACGTCCCAGACAAGGTCTTACACGTAATCAAATATCGATACCACTGTCCCAAAC
*
94304881 AGGGTCTTACACGAGATCAT
66 AGGGTCTTACACGAAATCAT
* * * *
94304901 ATACGATGCCAATGTCCCAGACATGGTCTTACACGTAAATCTGAA-ATCGATACCAAC-GTCCCA
1 ATACAATGCCAACGTCCCAGACAAGGTCTTACACGT-AATC-AAATATCGATACC-ACTGTCCCA
94304964 AAC-GTGGTCTTACACGAAATCA
63 AACAG-GGTCTTACACGAAATCA
94304986 CATATCGGAA
Statistics
Matches: 72, Mismatches: 9, Indels: 7
0.82 0.10 0.08
Matches are distributed among these distances:
85 32 0.44
86 36 0.50
87 4 0.06
ACGTcount: A:0.34, C:0.26, G:0.18, T:0.22
Consensus pattern (85 bp):
ATACAATGCCAACGTCCCAGACAAGGTCTTACACGTAATCAAATATCGATACCACTGTCCCAAAC
AGGGTCTTACACGAAATCAT
Found at i:94307681 original size:32 final size:32
Alignment explanation
Indices: 94307639--94307734 Score: 102
Period size: 32 Copynumber: 3.0 Consensus size: 32
94307629 AATGGTACAA
*
94307639 CTTGAAAAGGTTATGTACACTTTATGTGTACT
1 CTTGAAAAGGTTATGTATACTTTATGTGTACT
* * * *
94307671 CTTGGAAAGGTTAGGTATACTTAATGTATACT
1 CTTGAAAAGGTTATGTATACTTTATGTGTACT
* ** *
94307703 ATATGAAAAGGAAATGTATACTTTGTGTGTAC
1 CT-TGAAAAGGTTATGTATACTTTATGTGTAC
94307735 CACTTGGAAA
Statistics
Matches: 50, Mismatches: 13, Indels: 1
0.78 0.20 0.02
Matches are distributed among these distances:
32 28 0.56
33 22 0.44
ACGTcount: A:0.32, C:0.09, G:0.21, T:0.38
Consensus pattern (32 bp):
CTTGAAAAGGTTATGTATACTTTATGTGTACT
Found at i:94315370 original size:43 final size:44
Alignment explanation
Indices: 94315321--94315471 Score: 164
Period size: 43 Copynumber: 3.5 Consensus size: 44
94315311 TATTATCGAG
* *
94315321 ATGTGATTACATGTAAGACCATGTCTGAGACATTGGCATTGTAT
1 ATGTGATTACATGTAAGACCATGTCTGGGACATTGGCATCGTAT
* * *
94315365 -TGTGATTTCGTGTAAGACCTTGTCTGGGACATTGGCATCGT-T
1 ATGTGATTACATGTAAGACCATGTCTGGGACATTGGCATCGTAT
* * * * * * *
94315407 ATATGATTTCGTATAAGACCCTGTCTGGGATAGTGGCATCG-AT
1 ATGTGATTACATGTAAGACCATGTCTGGGACATTGGCATCGTAT
*
94315450 ATGTGATAACATGTAAGACCAT
1 ATGTGATTACATGTAAGACCAT
94315472 ATCCGGGATA
Statistics
Matches: 89, Mismatches: 16, Indels: 5
0.81 0.15 0.05
Matches are distributed among these distances:
42 1 0.01
43 88 0.99
ACGTcount: A:0.26, C:0.15, G:0.25, T:0.34
Consensus pattern (44 bp):
ATGTGATTACATGTAAGACCATGTCTGGGACATTGGCATCGTAT
Found at i:94317823 original size:21 final size:20
Alignment explanation
Indices: 94317799--94317853 Score: 55
Period size: 19 Copynumber: 2.8 Consensus size: 20
94317789 TATTATATGA
94317799 ATTTTGATTTATTATATATAT
1 ATTTT-ATTTATTATATATAT
94317820 A-TTTATATT-TTATA-ATAT
1 ATTTTAT-TTATTATATATAT
94317838 -TTTTATTATATTATAT
1 ATTTTATT-TATTATAT
94317854 TTTAATTATT
Statistics
Matches: 29, Mismatches: 0, Indels: 11
0.73 0.00 0.28
Matches are distributed among these distances:
17 1 0.03
18 10 0.34
19 12 0.41
20 5 0.17
21 1 0.03
ACGTcount: A:0.35, C:0.00, G:0.02, T:0.64
Consensus pattern (20 bp):
ATTTTATTTATTATATATAT
Found at i:94317833 original size:38 final size:36
Alignment explanation
Indices: 94317753--94317869 Score: 111
Period size: 36 Copynumber: 3.3 Consensus size: 36
94317743 TTTTGATGTG
*
94317753 TTATATTGTTATAAATTTTGA--TATGATA-ATA-AT
1 TTATATT-TTATAAATTTTGATTTATTATATATATAT
* *
94317786 TTATATTATATGAATTTTGATTTATTATATATATAT
1 TTATATTTTATAAATTTTGATTTATTATATATATAT
* * *
94317822 TTATATTTTATAATATTTTTATTATATTATAT-TTTAA
1 TTATATTTTATAA-ATTTTGATT-TATTATATATATAT
94317859 TTAT-TTTTATA
1 TTATATTTTATA
94317870 TGTGTATTTT
Statistics
Matches: 70, Mismatches: 8, Indels: 9
0.80 0.09 0.10
Matches are distributed among these distances:
32 11 0.16
33 7 0.10
34 6 0.09
35 3 0.04
36 20 0.29
37 15 0.21
38 8 0.11
ACGTcount: A:0.36, C:0.00, G:0.04, T:0.60
Consensus pattern (36 bp):
TTATATTTTATAAATTTTGATTTATTATATATATAT
Found at i:94317837 original size:22 final size:23
Alignment explanation
Indices: 94317806--94317897 Score: 53
Period size: 22 Copynumber: 3.9 Consensus size: 23
94317796 TGAATTTTGA
*
94317806 TTTATTATATATA-TATTTATAT
1 TTTATAATATATACTATTTATAT
* *
94317828 TTTATAATATTTTTATTATATTATAT
1 TTTATAATA--TATACTAT-TTATAT
* * * * *
94317854 TTTAATTATTTTTA-TATGTGTAT
1 TTT-ATAATATATACTATTTATAT
*
94317877 TTTATAATTTATACTATTTAT
1 TTTATAATATATACTATTTAT
94317898 TAAGTGTTTT
Statistics
Matches: 54, Mismatches: 10, Indels: 11
0.72 0.13 0.15
Matches are distributed among these distances:
22 16 0.30
23 12 0.22
24 6 0.11
25 7 0.13
26 9 0.17
27 4 0.07
ACGTcount: A:0.33, C:0.01, G:0.02, T:0.64
Consensus pattern (23 bp):
TTTATAATATATACTATTTATAT
Found at i:94317839 original size:16 final size:16
Alignment explanation
Indices: 94317778--94317855 Score: 68
Period size: 16 Copynumber: 4.6 Consensus size: 16
94317768 TTTTGATATG
94317778 ATAATAATTTATATTAT
1 ATAAT-ATTTATATTAT
94317795 ATGAAT-TTTGATTTATTAT
1 AT-AATATTT-A--TATTAT
*
94317814 ATATATATTTATATTTT
1 ATA-ATATTTATATTAT
*
94317831 ATAATATTTTTATTAT
1 ATAATATTTATATTAT
*
94317847 ATTATATTT
1 ATAATATTT
94317856 TAATTATTTT
Statistics
Matches: 51, Mismatches: 4, Indels: 13
0.75 0.06 0.19
Matches are distributed among these distances:
16 22 0.43
17 11 0.22
18 4 0.08
19 11 0.22
20 3 0.06
ACGTcount: A:0.37, C:0.00, G:0.03, T:0.60
Consensus pattern (16 bp):
ATAATATTTATATTAT
Found at i:94317856 original size:16 final size:16
Alignment explanation
Indices: 94317806--94317862 Score: 69
Period size: 16 Copynumber: 3.5 Consensus size: 16
94317796 TGAATTTTGA
94317806 TTTATTATATATATATT
1 TTTATTATAT-TATATT
* * *
94317823 TATATTTTATAATATT
1 TTTATTATATTATATT
94317839 TTTATTATATTATATT
1 TTTATTATATTATATT
*
94317855 TTAATTAT
1 TTTATTAT
94317863 TTTTATATGT
Statistics
Matches: 33, Mismatches: 7, Indels: 1
0.80 0.17 0.02
Matches are distributed among these distances:
16 25 0.76
17 8 0.24
ACGTcount: A:0.35, C:0.00, G:0.00, T:0.65
Consensus pattern (16 bp):
TTTATTATATTATATT
Found at i:94317884 original size:25 final size:25
Alignment explanation
Indices: 94317825--94317885 Score: 74
Period size: 25 Copynumber: 2.5 Consensus size: 25
94317815 TATATATTTA
94317825 TATTTTATAA-TATTTTTATTATAT
1 TATTTTATAATTATTTTTATTATAT
*
94317849 TATATTT-TAATTATTTTTA-TATGT
1 TAT-TTTATAATTATTTTTATTATAT
94317873 GTATTTTATAATT
1 -TATTTTATAATT
94317886 TATACTATTT
Statistics
Matches: 32, Mismatches: 1, Indels: 7
0.80 0.03 0.17
Matches are distributed among these distances:
24 13 0.41
25 19 0.59
ACGTcount: A:0.31, C:0.00, G:0.03, T:0.66
Consensus pattern (25 bp):
TATTTTATAATTATTTTTATTATAT
Found at i:94318478 original size:2 final size:2
Alignment explanation
Indices: 94318471--94318496 Score: 52
Period size: 2 Copynumber: 13.0 Consensus size: 2
94318461 TTTTAGACAA
94318471 AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT
94318497 TAAGAAGAAT
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 24 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:94321561 original size:8 final size:8
Alignment explanation
Indices: 94321550--94321597 Score: 57
Period size: 8 Copynumber: 6.4 Consensus size: 8
94321540 TTTAAGAAAT
94321550 TAATATAA
1 TAATATAA
*
94321558 TAATATAT
1 TAATATAA
94321566 TAATATAA
1 TAATATAA
94321574 T--T-TAA
1 TAATATAA
*
94321579 TAATTTAA
1 TAATATAA
94321587 TAATATAA
1 TAATATAA
94321595 TAA
1 TAA
94321598 AACATAAAAG
Statistics
Matches: 34, Mismatches: 3, Indels: 6
0.79 0.07 0.14
Matches are distributed among these distances:
5 4 0.12
6 1 0.03
7 1 0.03
8 28 0.82
ACGTcount: A:0.56, C:0.00, G:0.00, T:0.44
Consensus pattern (8 bp):
TAATATAA
Found at i:94321579 original size:21 final size:21
Alignment explanation
Indices: 94321550--94321596 Score: 67
Period size: 21 Copynumber: 2.2 Consensus size: 21
94321540 TTTAAGAAAT
*
94321550 TAATATAATAATATATTAATA
1 TAATATAATAATATAATAATA
* *
94321571 TAATTTAATAATTTAATAATA
1 TAATATAATAATATAATAATA
94321592 TAATA
1 TAATA
94321597 AAACATAAAA
Statistics
Matches: 22, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
21 22 1.00
ACGTcount: A:0.55, C:0.00, G:0.00, T:0.45
Consensus pattern (21 bp):
TAATATAATAATATAATAATA
Found at i:94326958 original size:13 final size:13
Alignment explanation
Indices: 94326940--94326967 Score: 56
Period size: 13 Copynumber: 2.2 Consensus size: 13
94326930 ATGATGTTCC
94326940 TGTTTGTTTCTAT
1 TGTTTGTTTCTAT
94326953 TGTTTGTTTCTAT
1 TGTTTGTTTCTAT
94326966 TG
1 TG
94326968 CAAATAGACT
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 15 1.00
ACGTcount: A:0.07, C:0.07, G:0.18, T:0.68
Consensus pattern (13 bp):
TGTTTGTTTCTAT
Found at i:94331859 original size:93 final size:92
Alignment explanation
Indices: 94331730--94332046 Score: 501
Period size: 93 Copynumber: 3.4 Consensus size: 92
94331720 CGCCCATAAG
* * **
94331730 CGAACTCGGATTCAACTCAACGAGCTCAGG-TGTTCGCATCCATAAGTGAACTCGGACTCAACTC
1 CGAACTCGGACTCAACTCAACGAGTTC-GGACATTCGCATCCATAAGTGAACTCGGACTCAACTC
*
94331794 AACGAGTTCAGATGCCTAGTTACATTTCA
65 AATGAGTTC-GATGCCTAGTTACATTTCA
*
94331823 CGAACTCGGACTCAACTCAATGAGTTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCA
1 CGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCA
94331888 ATGAGTTCGAATGCCTAGTTACATTTCA
66 ATGAGTTCG-ATGCCTAGTTACATTTCA
* *
94331916 TGAACTCGAACTCAACTCAACGAGTTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCA
1 CGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCA
* *
94331981 ATGAGCTTGGATGCCTAGTTATATTTCA
66 ATGAG-TTCGATGCCTAGTTACATTTCA
94332009 CGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCA
1 CGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCA
94332047 ATGCCTAGTT
Statistics
Matches: 208, Mismatches: 13, Indels: 6
0.92 0.06 0.03
Matches are distributed among these distances:
92 3 0.01
93 202 0.97
94 3 0.01
ACGTcount: A:0.30, C:0.26, G:0.19, T:0.25
Consensus pattern (92 bp):
CGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCA
ATGAGTTCGATGCCTAGTTACATTTCA
Found at i:94332056 original size:56 final size:56
Alignment explanation
Indices: 94331991--94332195 Score: 205
Period size: 56 Copynumber: 4.0 Consensus size: 56
94331981 ATGAGCTTGG
*
94331991 ATGCCTAGTTATATTTCACGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCA
1 ATGCCTAGTTACATTTCACGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCA
* * * *
94332047 ATGCCTAGTTACATTTCACGAACTCAGACTCAACTCAACAAGTTCAGAAATTCGC-
1 ATGCCTAGTTACATTTCACGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCA
* *
94332102 AT-CC-A--TA-A-GT---GAACTCGGACTCAACTCAACGA-----G-C--TCG-G
1 ATGCCTAGTTACATTTCACGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCA
*
94332140 ATGCCTAGTTACATTTCACGAAGTCGGACTCAACTCAACGAGTTCGGACATTCGCA
1 ATGCCTAGTTACATTTCACGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCA
94332196 TCCATAAGTG
Statistics
Matches: 118, Mismatches: 12, Indels: 38
0.70 0.07 0.23
Matches are distributed among these distances:
38 5 0.04
39 2 0.02
40 1 0.01
41 1 0.01
42 2 0.02
43 1 0.01
44 1 0.01
46 20 0.17
47 21 0.18
49 1 0.01
50 1 0.01
51 2 0.02
52 1 0.01
53 2 0.02
54 2 0.02
55 5 0.04
56 50 0.42
ACGTcount: A:0.31, C:0.27, G:0.18, T:0.24
Consensus pattern (56 bp):
ATGCCTAGTTACATTTCACGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCA
Found at i:94332070 original size:149 final size:149
Alignment explanation
Indices: 94331893--94332195 Score: 511
Period size: 149 Copynumber: 2.0 Consensus size: 149
94331883 ACTCAATGAG
* * * *
94331893 TTCG-AATGCCTAGTTACATTTCATGAACTC-GAACTCAACTCAACGAGTTCGGACATTCGCATC
1 TTCGCAATGCCTAGTTACATTTCACGAACTCAG-ACTCAACTCAACAAGTTCAGAAATTCGCATC
* * *
94331956 CATAAGTGAACTCGGACTCAACTCAATGAGCTTGGATGCCTAGTTATATTTCACGAACTCGGACT
65 CATAAGTGAACTCGGACTCAACTCAACGAGCTCGGATGCCTAGTTACATTTCACGAACTCGGACT
94332021 CAACTCAACGAGTTCGGACA
130 CAACTCAACGAGTTCGGACA
94332041 TTCGCAATGCCTAGTTACATTTCACGAACTCAGACTCAACTCAACAAGTTCAGAAATTCGCATCC
1 TTCGCAATGCCTAGTTACATTTCACGAACTCAGACTCAACTCAACAAGTTCAGAAATTCGCATCC
*
94332106 ATAAGTGAACTCGGACTCAACTCAACGAGCTCGGATGCCTAGTTACATTTCACGAAGTCGGACTC
66 ATAAGTGAACTCGGACTCAACTCAACGAGCTCGGATGCCTAGTTACATTTCACGAACTCGGACTC
94332171 AACTCAACGAGTTCGGACA
131 AACTCAACGAGTTCGGACA
94332190 TTCGCA
1 TTCGCA
94332196 TCCATAAGTG
Statistics
Matches: 145, Mismatches: 8, Indels: 3
0.93 0.05 0.02
Matches are distributed among these distances:
148 4 0.03
149 140 0.97
150 1 0.01
ACGTcount: A:0.30, C:0.27, G:0.18, T:0.25
Consensus pattern (149 bp):
TTCGCAATGCCTAGTTACATTTCACGAACTCAGACTCAACTCAACAAGTTCAGAAATTCGCATCC
ATAAGTGAACTCGGACTCAACTCAACGAGCTCGGATGCCTAGTTACATTTCACGAACTCGGACTC
AACTCAACGAGTTCGGACA
Found at i:94332151 original size:93 final size:93
Alignment explanation
Indices: 94332046--94332236 Score: 328
Period size: 93 Copynumber: 2.1 Consensus size: 93
94332036 GGACATTCGC
94332046 AATGCCTAGTTACATTTCACGAACTCAGACTCAACTCAACAAGTTCAGAAATTCGCATCCATAAG
1 AATGCCTAGTTACATTTCACGAACTCAGACTCAACTCAACAAGTTCAGAAATTCGCATCCATAAG
94332111 TGAACTCGGACTCAACTCAACGAGCTCG
66 TGAACTCGGACTCAACTCAACGAGCTCG
* * * * * *
94332139 GATGCCTAGTTACATTTCACGAAGTCGGACTCAACTCAACGAGTTCGGACATTCGCATCCATAAG
1 AATGCCTAGTTACATTTCACGAACTCAGACTCAACTCAACAAGTTCAGAAATTCGCATCCATAAG
94332204 TGAACTCGGACTCAACTCAACGAGCTCG
66 TGAACTCGGACTCAACTCAACGAGCTCG
94332232 AATGC
1 AATGC
94332237 TCAAATATCC
Statistics
Matches: 91, Mismatches: 7, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
93 91 1.00
ACGTcount: A:0.32, C:0.28, G:0.18, T:0.23
Consensus pattern (93 bp):
AATGCCTAGTTACATTTCACGAACTCAGACTCAACTCAACAAGTTCAGAAATTCGCATCCATAAG
TGAACTCGGACTCAACTCAACGAGCTCG
Found at i:94335175 original size:22 final size:24
Alignment explanation
Indices: 94335132--94335176 Score: 67
Period size: 22 Copynumber: 2.0 Consensus size: 24
94335122 TGATAATATG
94335132 TTTTGATATAACAAATTAAAGTAT
1 TTTTGATATAACAAATTAAAGTAT
*
94335156 TTTTGA-ATAA-AATTTAAAGTA
1 TTTTGATATAACAAATTAAAGTA
94335177 GAAAAAAATT
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
22 10 0.50
23 4 0.20
24 6 0.30
ACGTcount: A:0.47, C:0.02, G:0.09, T:0.42
Consensus pattern (24 bp):
TTTTGATATAACAAATTAAAGTAT
Found at i:94337965 original size:33 final size:34
Alignment explanation
Indices: 94337887--94337965 Score: 83
Period size: 33 Copynumber: 2.4 Consensus size: 34
94337877 TGTTTTGGTT
*
94337887 CTGTTATTTTTCTGCTGTTGTTTTTGTTATTTGTA
1 CTGTTATTTTT-TGCTGTTGTTTTTGCTATTTGTA
* *
94337922 CTGTTA-TTTTTGCT-TCTGTTTTTGCTGTTTG-G
1 CTGTTATTTTTTGCTGT-TGTTTTTGCTATTTGTA
*
94337954 GTGTTATTTTTT
1 CTGTTATTTTTT
94337966 TGTGCATTTT
Statistics
Matches: 38, Mismatches: 4, Indels: 6
0.79 0.08 0.12
Matches are distributed among these distances:
32 6 0.16
33 22 0.58
34 4 0.11
35 6 0.16
ACGTcount: A:0.06, C:0.09, G:0.19, T:0.66
Consensus pattern (34 bp):
CTGTTATTTTTTGCTGTTGTTTTTGCTATTTGTA
Found at i:94342390 original size:20 final size:19
Alignment explanation
Indices: 94342367--94342405 Score: 51
Period size: 20 Copynumber: 2.0 Consensus size: 19
94342357 GCATGGTAAC
*
94342367 TATTTCTTATCCGTTTTTAG
1 TATTTCTTATAC-TTTTTAG
*
94342387 TATTTTTTATACTTTTTAG
1 TATTTCTTATACTTTTTAG
94342406 ATCGTTGTAC
Statistics
Matches: 17, Mismatches: 2, Indels: 1
0.85 0.10 0.05
Matches are distributed among these distances:
19 7 0.41
20 10 0.59
ACGTcount: A:0.18, C:0.10, G:0.08, T:0.64
Consensus pattern (19 bp):
TATTTCTTATACTTTTTAG
Found at i:94346118 original size:35 final size:35
Alignment explanation
Indices: 94346079--94346148 Score: 113
Period size: 35 Copynumber: 2.0 Consensus size: 35
94346069 ATCTCCGGAA
* *
94346079 CTTGGCAAATATGGAAAGTGATCTTCAAAGATATG
1 CTTGGCAAATATGGAAAGAGACCTTCAAAGATATG
*
94346114 CTTGGCAAATATGGAAGGAGACCTTCAAAGATATG
1 CTTGGCAAATATGGAAAGAGACCTTCAAAGATATG
94346149 TGATCCTAGA
Statistics
Matches: 32, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
35 32 1.00
ACGTcount: A:0.37, C:0.13, G:0.24, T:0.26
Consensus pattern (35 bp):
CTTGGCAAATATGGAAAGAGACCTTCAAAGATATG
Found at i:94353266 original size:39 final size:39
Alignment explanation
Indices: 94353127--94353247 Score: 224
Period size: 39 Copynumber: 3.1 Consensus size: 39
94353117 GCTCTGATGA
* *
94353127 GCTTCAATTAGCCTTCGGGCTTCCGTTTAGCACTTATGT
1 GCTTCAGTTAGCCTCCGGGCTTCCGTTTAGCACTTATGT
94353166 GCTTCAGTTAGCCTCCGGGCTTCCGTTTAGCACTTATGT
1 GCTTCAGTTAGCCTCCGGGCTTCCGTTTAGCACTTATGT
94353205 GCTTCAGTTAGCCTCCGGGCTTCCGTTTAGCACTTATGT
1 GCTTCAGTTAGCCTCCGGGCTTCCGTTTAGCACTTATGT
94353244 GCTT
1 GCTT
94353248 TAGCTAGATT
Statistics
Matches: 80, Mismatches: 2, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
39 80 1.00
ACGTcount: A:0.13, C:0.27, G:0.22, T:0.37
Consensus pattern (39 bp):
GCTTCAGTTAGCCTCCGGGCTTCCGTTTAGCACTTATGT
Found at i:94358923 original size:14 final size:14
Alignment explanation
Indices: 94358904--94358933 Score: 51
Period size: 14 Copynumber: 2.1 Consensus size: 14
94358894 CATATTTTAT
94358904 AATAAAAAAAATAA
1 AATAAAAAAAATAA
*
94358918 AATAAACAAAATAA
1 AATAAAAAAAATAA
94358932 AA
1 AA
94358934 GCCATTTTAA
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
14 15 1.00
ACGTcount: A:0.83, C:0.03, G:0.00, T:0.13
Consensus pattern (14 bp):
AATAAAAAAAATAA
Found at i:94360457 original size:5 final size:5
Alignment explanation
Indices: 94360447--94360478 Score: 57
Period size: 5 Copynumber: 6.6 Consensus size: 5
94360437 TACCTGTGAA
94360447 AAAAT AAAAT AAAAT AAAAT -AAAT AAAAT AAA
1 AAAAT AAAAT AAAAT AAAAT AAAAT AAAAT AAA
94360479 GAACACACAA
Statistics
Matches: 26, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
4 4 0.15
5 22 0.85
ACGTcount: A:0.81, C:0.00, G:0.00, T:0.19
Consensus pattern (5 bp):
AAAAT
Found at i:94360472 original size:9 final size:9
Alignment explanation
Indices: 94360448--94360478 Score: 53
Period size: 9 Copynumber: 3.3 Consensus size: 9
94360438 ACCTGTGAAA
94360448 AAATAAAAT
1 AAATAAAAT
94360457 AAAATAAAAT
1 -AAATAAAAT
94360467 AAATAAAAT
1 AAATAAAAT
94360476 AAA
1 AAA
94360479 GAACACACAA
Statistics
Matches: 21, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
9 12 0.57
10 9 0.43
ACGTcount: A:0.81, C:0.00, G:0.00, T:0.19
Consensus pattern (9 bp):
AAATAAAAT
Found at i:94368522 original size:43 final size:43
Alignment explanation
Indices: 94368394--94368535 Score: 139
Period size: 42 Copynumber: 3.3 Consensus size: 43
94368384 ATATGTGTTA
* * * *
94368394 TCGTGTAAGACCACGTCTGTGAC-GTTGGCGTCGAT-TTGTGATT
1 TCGTGTAAGACCATGTATGGGACAG-TGGCATCGATATT-TGATT
* * *
94368437 TACGTGTAAGACCATGTCTGGGACATTGGCATCG-TATATGATT
1 T-CGTGTAAGACCATGTATGGGACAGTGGCATCGATATTTGATT
94368480 TCGTGTAAGACTC-TGTATGGGACAGTGGCATCGATATTTGATT
1 TCGTGTAAGAC-CATGTATGGGACAGTGGCATCGATATTTGATT
* *
94368523 ACATGTAAGACCA
1 TCGTGTAAGACCA
94368536 CATCTGGGAC
Statistics
Matches: 83, Mismatches: 10, Indels: 12
0.79 0.10 0.11
Matches are distributed among these distances:
42 29 0.35
43 26 0.31
44 28 0.34
ACGTcount: A:0.24, C:0.17, G:0.27, T:0.32
Consensus pattern (43 bp):
TCGTGTAAGACCATGTATGGGACAGTGGCATCGATATTTGATT
Found at i:94368544 original size:43 final size:43
Alignment explanation
Indices: 94368382--94368551 Score: 152
Period size: 43 Copynumber: 4.0 Consensus size: 43
94368372 CATAGGATTC
* * *
94368382 CGATATGTG-TTATCGTGTAAGACCACGTCTGTGAC-GTTGGCGT
1 CGATATTTGATTA-CGTGTAAGACCACGTCTGGGACAG-TGGCAT
* *
94368425 CGAT-TTGTGATTTACGTGTAAGACCATGTCTGGGACATTGGCAT
1 CGATATT-TGA-TTACGTGTAAGACCACGTCTGGGACAGTGGCAT
* * * *
94368469 CG-TATATGATTTCGTGTAAGACTC-TGTATGGGACAGTGGCAT
1 CGATATTTGATTACGTGTAAGAC-CACGTCTGGGACAGTGGCAT
* * *
94368511 CGATATTTGATTACATGTAAGACCACATCTGGGACATTGGC
1 CGATATTTGATTACGTGTAAGACCACGTCTGGGACAGTGGC
94368552 GTTGTATGAG
Statistics
Matches: 103, Mismatches: 16, Indels: 16
0.76 0.12 0.12
Matches are distributed among these distances:
42 32 0.31
43 40 0.39
44 28 0.27
45 3 0.03
ACGTcount: A:0.24, C:0.17, G:0.27, T:0.32
Consensus pattern (43 bp):
CGATATTTGATTACGTGTAAGACCACGTCTGGGACAGTGGCAT
Found at i:94384810 original size:117 final size:117
Alignment explanation
Indices: 94384657--94384882 Score: 353
Period size: 117 Copynumber: 1.9 Consensus size: 117
94384647 TTCTTTAAAA
* * * *
94384657 ACAGTTATTGCCTATATTACTCAGACTAGGAATGAATGTTGAATCAAATACAAATATTTTAAATT
1 ACAGTTATTGCCTATATTACTCAGACTAAGAATGAATATCGAACCAAATACAAATATTTTAAATT
*
94384722 TTTAATAACTTCTTTTATATTTTTAGAAAATCATACCTTAACATCGATCATG
66 TTTAATAACTTCTTTTATATCTTTAGAAAATCATACCTTAACATCGATCATG
* * * *
94384774 ACAGTTATTGCTTATATTACTCAGACTAAGAATGAATATCGGACCAGATACAAATATTTTGAATT
1 ACAGTTATTGCCTATATTACTCAGACTAAGAATGAATATCGAACCAAATACAAATATTTTAAATT
* *
94384839 TTTAATAATTTCTTTTATATCTTTAGAGAATCATACCTTAACAT
66 TTTAATAACTTCTTTTATATCTTTAGAAAATCATACCTTAACAT
94384883 TCATAATGAC
Statistics
Matches: 98, Mismatches: 11, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
117 98 1.00
ACGTcount: A:0.37, C:0.14, G:0.10, T:0.39
Consensus pattern (117 bp):
ACAGTTATTGCCTATATTACTCAGACTAAGAATGAATATCGAACCAAATACAAATATTTTAAATT
TTTAATAACTTCTTTTATATCTTTAGAAAATCATACCTTAACATCGATCATG
Found at i:94385299 original size:26 final size:27
Alignment explanation
Indices: 94385263--94385318 Score: 78
Period size: 26 Copynumber: 2.1 Consensus size: 27
94385253 AAGATTTTTC
* *
94385263 TTAGATTTTATTAAT-TATTATTGTTA
1 TTAGAATTTATTAATATATTATTATTA
94385289 TTAGAATTTATTAATAATATTATTATTA
1 TTAGAATTTATTAAT-ATATTATTATTA
94385317 TT
1 TT
94385319 TGATTTAAAA
Statistics
Matches: 26, Mismatches: 2, Indels: 2
0.87 0.07 0.07
Matches are distributed among these distances:
26 14 0.54
28 12 0.46
ACGTcount: A:0.36, C:0.00, G:0.05, T:0.59
Consensus pattern (27 bp):
TTAGAATTTATTAATATATTATTATTA
Found at i:94385813 original size:16 final size:16
Alignment explanation
Indices: 94385789--94385820 Score: 55
Period size: 16 Copynumber: 2.0 Consensus size: 16
94385779 CCAAAACAGG
*
94385789 GGAAGAAAAAGGGAAA
1 GGAAAAAAAAGGGAAA
94385805 GGAAAAAAAAGGGAAA
1 GGAAAAAAAAGGGAAA
94385821 ATTTGGATTT
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
16 15 1.00
ACGTcount: A:0.66, C:0.00, G:0.34, T:0.00
Consensus pattern (16 bp):
GGAAAAAAAAGGGAAA
Found at i:94388287 original size:30 final size:30
Alignment explanation
Indices: 94388248--94388318 Score: 115
Period size: 30 Copynumber: 2.4 Consensus size: 30
94388238 AGCTTTGAAG
* * *
94388248 GAGAAGATCAATGAGTTTAAGGGGGAGCTC
1 GAGATGATCAATGAGCTTAAGGGAGAGCTC
94388278 GAGATGATCAATGAGCTTAAGGGAGAGCTC
1 GAGATGATCAATGAGCTTAAGGGAGAGCTC
94388308 GAGATGATCAA
1 GAGATGATCAA
94388319 GGCTGCCATA
Statistics
Matches: 38, Mismatches: 3, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
30 38 1.00
ACGTcount: A:0.35, C:0.11, G:0.34, T:0.20
Consensus pattern (30 bp):
GAGATGATCAATGAGCTTAAGGGAGAGCTC
Found at i:94397041 original size:17 final size:17
Alignment explanation
Indices: 94397002--94397048 Score: 60
Period size: 17 Copynumber: 2.8 Consensus size: 17
94396992 AGCCCACTTA
*
94397002 CATTAAAACCCAAACCC
1 CATTAAACCCCAAACCC
*
94397019 CTTTAAACCCTCAAA-CC
1 CATTAAACCC-CAAACCC
94397036 CATTAAACCCCAA
1 CATTAAACCCCAA
94397049 CCCAACATCA
Statistics
Matches: 26, Mismatches: 3, Indels: 3
0.81 0.09 0.09
Matches are distributed among these distances:
16 3 0.12
17 19 0.73
18 4 0.15
ACGTcount: A:0.43, C:0.40, G:0.00, T:0.17
Consensus pattern (17 bp):
CATTAAACCCCAAACCC
Found at i:94398299 original size:24 final size:25
Alignment explanation
Indices: 94398252--94398302 Score: 79
Period size: 24 Copynumber: 2.1 Consensus size: 25
94398242 AGTATTTGTA
94398252 ATATTAGTTTTGCTATATTATTATT
1 ATATTAGTTTTGCTATATTATTATT
94398277 ATATTA-TTGTTGCT-TATTATTATT
1 ATATTAGTT-TTGCTATATTATTATT
94398301 AT
1 AT
94398303 TGTTGTAAAC
Statistics
Matches: 25, Mismatches: 0, Indels: 3
0.89 0.00 0.11
Matches are distributed among these distances:
24 14 0.56
25 11 0.44
ACGTcount: A:0.27, C:0.04, G:0.08, T:0.61
Consensus pattern (25 bp):
ATATTAGTTTTGCTATATTATTATT
Found at i:94398302 original size:19 final size:18
Alignment explanation
Indices: 94398272--94398307 Score: 63
Period size: 19 Copynumber: 1.9 Consensus size: 18
94398262 TGCTATATTA
94398272 TTATTATATTATTGTTGC
1 TTATTATATTATTGTTGC
94398290 TTATTATTATTATTGTTG
1 TTATTA-TATTATTGTTG
94398308 TAAACATATT
Statistics
Matches: 17, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
18 6 0.35
19 11 0.65
ACGTcount: A:0.22, C:0.03, G:0.11, T:0.64
Consensus pattern (18 bp):
TTATTATATTATTGTTGC
Found at i:94404061 original size:19 final size:18
Alignment explanation
Indices: 94404028--94404063 Score: 54
Period size: 18 Copynumber: 1.9 Consensus size: 18
94404018 AAACAGTTTA
*
94404028 TATAATAAAATTAAAATG
1 TATAAAAAAATTAAAATG
94404046 TATAAAAAATATTAAAAT
1 TATAAAAAA-ATTAAAAT
94404064 AAAACTTTTG
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
18 8 0.50
19 8 0.50
ACGTcount: A:0.64, C:0.00, G:0.03, T:0.33
Consensus pattern (18 bp):
TATAAAAAAATTAAAATG
Found at i:94409505 original size:14 final size:15
Alignment explanation
Indices: 94409474--94409507 Score: 52
Period size: 15 Copynumber: 2.3 Consensus size: 15
94409464 TTGTCCTTAT
*
94409474 TTATTTATTTTATTA
1 TTATTGATTTTATTA
94409489 TTATTGATTTT-TTA
1 TTATTGATTTTATTA
94409503 TTATT
1 TTATT
94409508 TGTTCTATTA
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
14 8 0.44
15 10 0.56
ACGTcount: A:0.24, C:0.00, G:0.03, T:0.74
Consensus pattern (15 bp):
TTATTGATTTTATTA
Found at i:94409527 original size:9 final size:9
Alignment explanation
Indices: 94409515--94409567 Score: 56
Period size: 9 Copynumber: 6.0 Consensus size: 9
94409505 ATTTGTTCTA
94409515 TTAATTTTT
1 TTAATTTTT
94409524 TTAACTTTTT
1 TTAA-TTTTT
*
94409534 TT-ACTTTT
1 TTAATTTTT
*
94409542 TAAATTTTT
1 TTAATTTTT
*
94409551 TTAACTTTT
1 TTAATTTTT
94409560 TT-ATTTTT
1 TTAATTTTT
94409568 CCTTATTTAT
Statistics
Matches: 36, Mismatches: 6, Indels: 5
0.77 0.13 0.11
Matches are distributed among these distances:
8 10 0.28
9 19 0.53
10 7 0.19
ACGTcount: A:0.21, C:0.06, G:0.00, T:0.74
Consensus pattern (9 bp):
TTAATTTTT
Found at i:94409534 original size:10 final size:10
Alignment explanation
Indices: 94409515--94409561 Score: 57
Period size: 10 Copynumber: 5.1 Consensus size: 10
94409505 ATTTGTTCTA
94409515 TTAA-TTTTT
1 TTAACTTTTT
94409524 TTAACTTTTT
1 TTAACTTTTT
94409534 TT-AC--TTT
1 TTAACTTTTT
*
94409541 TTAAATTTTT
1 TTAACTTTTT
94409551 TTAACTTTTT
1 TTAACTTTTT
94409561 T
1 T
94409562 ATTTTTCCTT
Statistics
Matches: 32, Mismatches: 2, Indels: 7
0.78 0.05 0.17
Matches are distributed among these distances:
7 5 0.16
8 1 0.03
9 6 0.19
10 20 0.62
ACGTcount: A:0.21, C:0.06, G:0.00, T:0.72
Consensus pattern (10 bp):
TTAACTTTTT
Found at i:94409543 original size:17 final size:18
Alignment explanation
Indices: 94409521--94409560 Score: 64
Period size: 17 Copynumber: 2.3 Consensus size: 18
94409511 TCTATTAATT
*
94409521 TTTTTAACTTTTTTT-AC
1 TTTTTAAATTTTTTTAAC
94409538 TTTTTAAATTTTTTTAAC
1 TTTTTAAATTTTTTTAAC
94409556 TTTTT
1 TTTTT
94409561 TATTTTTCCT
Statistics
Matches: 21, Mismatches: 1, Indels: 1
0.91 0.04 0.04
Matches are distributed among these distances:
17 14 0.67
18 7 0.33
ACGTcount: A:0.20, C:0.07, G:0.00, T:0.72
Consensus pattern (18 bp):
TTTTTAAATTTTTTTAAC
Found at i:94409571 original size:100 final size:103
Alignment explanation
Indices: 94409397--94409594 Score: 296
Period size: 100 Copynumber: 2.0 Consensus size: 103
94409387 AGTTTTGTCC
** *
94409397 TTTATTACTTTGATCTATTATTTCTTTCTCTTTTTTTTACTTTTTTAATTTTTTTTAACTTTTTT
1 TTTATTACTTTGATCTATTATTTCTTTAACTTTTTTTTACTTTTTTAAATTTTTTTAACTTTTTT
94409462 ATTTGTCCTTATTTATTTATTT-TATTATTATTGATTT
66 ATTTGTCCTTATTTATTTATTTATATTATTATTGATTT
* *
94409499 TTTATTA-TTTGTTCTATTAATTTTTTTAAC-TTTTTTTAC-TTTTTAAATTTTTTTAACTTTTT
1 TTTATTACTTTGATCTATT-ATTTCTTTAACTTTTTTTTACTTTTTTAAATTTTTTTAACTTTTT
* *
94409561 TATTTTTCCTTATTTATTTATTTATTTTATTATT
65 TATTTGTCCTTATTTATTTATTTATATTATTATT
94409595 ATTAATTTTA
Statistics
Matches: 87, Mismatches: 7, Indels: 5
0.88 0.07 0.05
Matches are distributed among these distances:
100 44 0.51
101 28 0.32
102 15 0.17
ACGTcount: A:0.19, C:0.08, G:0.02, T:0.71
Consensus pattern (103 bp):
TTTATTACTTTGATCTATTATTTCTTTAACTTTTTTTTACTTTTTTAAATTTTTTTAACTTTTTT
ATTTGTCCTTATTTATTTATTTATATTATTATTGATTT
Found at i:94409602 original size:27 final size:26
Alignment explanation
Indices: 94409470--94409602 Score: 73
Period size: 27 Copynumber: 5.1 Consensus size: 26
94409460 TTATTTGTCC
*
94409470 TTATTTATTTATTTTATTATTATTGAT
1 TTATTTATTTATTTTATT-TTATTAAT
* *
94409497 TT-TTTA-TTA-TTTGTTCTATTAAT
1 TTATTTATTTATTTTATTTTATTAAT
* *
94409520 TTTTTTAACTTT-TTTTACTTTT-TAAAT
1 TTATTT-A-TTTATTTTA-TTTTATTAAT
* * *
94409547 TTTTTTAACTT-TTTTATTTT-TCCTTAT
1 TTATTT-ATTTATTTTATTTTAT--TAAT
94409574 TTATTTATTTATTTTATTATTATTAAT
1 TTATTTATTTATTTTATT-TTATTAAT
94409601 TT
1 TT
94409603 TAAAAAATTT
Statistics
Matches: 83, Mismatches: 12, Indels: 22
0.71 0.10 0.19
Matches are distributed among these distances:
23 8 0.10
24 8 0.10
25 9 0.11
26 14 0.17
27 38 0.46
28 5 0.06
29 1 0.01
ACGTcount: A:0.23, C:0.05, G:0.02, T:0.71
Consensus pattern (26 bp):
TTATTTATTTATTTTATTTTATTAAT
Found at i:94409805 original size:17 final size:18
Alignment explanation
Indices: 94409773--94409809 Score: 58
Period size: 17 Copynumber: 2.1 Consensus size: 18
94409763 TTATATAATA
*
94409773 TTTTAAATATTTTTATTT
1 TTTTAAATATTATTATTT
94409791 TTTTAAATA-TATTATTT
1 TTTTAAATATTATTATTT
94409808 TT
1 TT
94409810 AAAGATGACT
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
17 9 0.50
18 9 0.50
ACGTcount: A:0.30, C:0.00, G:0.00, T:0.70
Consensus pattern (18 bp):
TTTTAAATATTATTATTT
Found at i:94410699 original size:17 final size:17
Alignment explanation
Indices: 94410671--94410752 Score: 51
Period size: 19 Copynumber: 4.7 Consensus size: 17
94410661 GTTGGCACTC
94410671 ATATA-TTT-AAAAATA
1 ATATATTTTAAAAAATA
94410686 ATATATTTTAAAAAAATTA
1 ATATATTTT-AAAAAA-TA
* * **
94410705 AAAAATTTTAAAATTTA
1 ATATATTTTAAAAAATA
* *
94410722 AAATATTATAAAATTAATA
1 ATATATTTTAAAA--AATA
*
94410741 ATAAATTTTAAA
1 ATATATTTTAAA
94410753 GGTCATATCT
Statistics
Matches: 50, Mismatches: 11, Indels: 8
0.72 0.16 0.12
Matches are distributed among these distances:
15 5 0.10
16 3 0.06
17 13 0.26
18 9 0.18
19 20 0.40
ACGTcount: A:0.60, C:0.00, G:0.00, T:0.40
Consensus pattern (17 bp):
ATATATTTTAAAAAATA
Found at i:94410796 original size:19 final size:19
Alignment explanation
Indices: 94410774--94410840 Score: 68
Period size: 19 Copynumber: 3.4 Consensus size: 19
94410764 TAAAATATTT
94410774 AAATAT-TTTATATTATTAA
1 AAATATATTTA-ATTATTAA
94410793 AAATATATTTAA-TATTTAA
1 AAATATATTTAATTA-TTAA
94410812 AAATAATATTTAAAATT-TTAA
1 AAAT-ATATTT--AATTATTAA
94410833 AAATATAT
1 AAATATAT
94410841 ATTATAAAAC
Statistics
Matches: 42, Mismatches: 0, Indels: 11
0.79 0.00 0.21
Matches are distributed among these distances:
18 2 0.05
19 15 0.36
20 14 0.33
21 8 0.19
22 2 0.05
23 1 0.02
ACGTcount: A:0.54, C:0.00, G:0.00, T:0.46
Consensus pattern (19 bp):
AAATATATTTAATTATTAA
Found at i:94410814 original size:20 final size:20
Alignment explanation
Indices: 94410776--94410840 Score: 87
Period size: 21 Copynumber: 3.2 Consensus size: 20
94410766 AAATATTTAA
*
94410776 ATATTTTATATTATTAAAAAT
1 ATATTTAATATT-TTAAAAAT
94410797 ATATTTAATA-TTTAAAAAT
1 ATATTTAATATTTTAAAAAT
*
94410816 AATATTTAAAATTTTAAAAAT
1 -ATATTTAATATTTTAAAAAT
94410837 ATAT
1 ATAT
94410841 ATTATAAAAC
Statistics
Matches: 40, Mismatches: 2, Indels: 5
0.85 0.04 0.11
Matches are distributed among these distances:
19 8 0.20
20 14 0.35
21 18 0.45
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (20 bp):
ATATTTAATATTTTAAAAAT
Found at i:94410820 original size:13 final size:13
Alignment explanation
Indices: 94410802--94410826 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
94410792 AAAATATATT
94410802 TAATATTTAAAAA
1 TAATATTTAAAAA
94410815 TAATATTTAAAA
1 TAATATTTAAAA
94410827 TTTTAAAAAT
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.60, C:0.00, G:0.00, T:0.40
Consensus pattern (13 bp):
TAATATTTAAAAA
Found at i:94410842 original size:22 final size:21
Alignment explanation
Indices: 94410791--94410849 Score: 77
Period size: 20 Copynumber: 2.8 Consensus size: 21
94410781 TTATATTATT
*
94410791 AAAA-ATATATTTAATATTTA
1 AAAATATATATTTAAAATTTA
94410811 AAAATA-ATATTTAAAATTTTA
1 AAAATATATATTTAAAA-TTTA
94410832 AAAATATATATTATAAAA
1 AAAATATATATT-TAAAA
94410850 CATTTCAAAT
Statistics
Matches: 34, Mismatches: 1, Indels: 5
0.85 0.03 0.12
Matches are distributed among these distances:
20 13 0.38
21 11 0.32
22 5 0.15
23 5 0.15
ACGTcount: A:0.59, C:0.00, G:0.00, T:0.41
Consensus pattern (21 bp):
AAAATATATATTTAAAATTTA
Found at i:94413124 original size:14 final size:14
Alignment explanation
Indices: 94413101--94413138 Score: 58
Period size: 15 Copynumber: 2.6 Consensus size: 14
94413091 GTTTAGTCCC
*
94413101 TAGGGTTTTTTGGTT
1 TAGGGTTTTTAGG-T
94413116 TAGGGTTTTTAGGT
1 TAGGGTTTTTAGGT
94413130 TAGGGTTTT
1 TAGGGTTTT
94413139 GTTAAAATAA
Statistics
Matches: 22, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
14 10 0.45
15 12 0.55
ACGTcount: A:0.11, C:0.00, G:0.34, T:0.55
Consensus pattern (14 bp):
TAGGGTTTTTAGGT
Found at i:94413153 original size:21 final size:21
Alignment explanation
Indices: 94413129--94413178 Score: 91
Period size: 21 Copynumber: 2.4 Consensus size: 21
94413119 GGTTTTTAGG
94413129 TTAGGGTTTTGTTAAAATAAT
1 TTAGGGTTTTGTTAAAATAAT
94413150 TTAGGGTTTTGTTAAAATAAT
1 TTAGGGTTTTGTTAAAATAAT
*
94413171 TTAAGGTT
1 TTAGGGTT
94413179 CTAGGTTTTA
Statistics
Matches: 28, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
21 28 1.00
ACGTcount: A:0.32, C:0.00, G:0.20, T:0.48
Consensus pattern (21 bp):
TTAGGGTTTTGTTAAAATAAT
Found at i:94413328 original size:34 final size:33
Alignment explanation
Indices: 94413223--94413328 Score: 126
Period size: 34 Copynumber: 3.2 Consensus size: 33
94413213 CTTAGTGTTC
**
94413223 TTTTTTAAAAAA-TAATTAAATTAAGGTTTAGG
1 TTTTTTAAAAAATTAATTAAATTTGGGTTTAGG
** *
94413255 GGTTTAAAATAAATTAATTAAATTTGGGTTTA-G
1 TTTTTTAAA-AAATTAATTAAATTTGGGTTTAGG
94413288 TATTTTTAAGAAAATTAATTAAATTTGGGTTTAGG
1 T-TTTTTAA-AAAATTAATTAAATTTGGGTTTAGG
94413323 TTTTTT
1 TTTTTT
94413329 TTAAATAATA
Statistics
Matches: 61, Mismatches: 8, Indels: 8
0.79 0.10 0.10
Matches are distributed among these distances:
32 6 0.10
33 4 0.07
34 48 0.79
35 3 0.05
ACGTcount: A:0.38, C:0.00, G:0.15, T:0.47
Consensus pattern (33 bp):
TTTTTTAAAAAATTAATTAAATTTGGGTTTAGG
Found at i:94413678 original size:126 final size:125
Alignment explanation
Indices: 94413395--94413876 Score: 496
Period size: 126 Copynumber: 3.9 Consensus size: 125
94413385 ATTTTTGGTT
* * * * * * * *
94413395 TTTTTCTAGAATAGTTCCTGACAAACTAATTTTGAAAAAATGGTTCTGAATAAATAGTGTCAAAA
1 TTTTTCTACAGTAGTTCCTGAAAAAATAATTTTGAGAAAA-CGTTCTAAACAAATAGTGTCAAAA
* * * * * * * * *
94413460 ACGTTTCAAACAGGATGAATTGTTAGC-AAATTTACTGGAAAAAGCTCCCTTGTGG--GCT-
65 ACGCTTCAAGCAGGATGCACTGTCAGCAAAATTGACTGAAAAAAACT-CCATGTGGACGCTC
* * * * * *
94413518 TTTTTTTACAGTAATTCTTGAAAAAATAATTTTGA-AAGGACGATTTTGAACAAATAGTGTCAAA
1 TTTTTCTACAGTAGTTCCTGAAAAAATAATTTTGAGAA-AACG-TTCTAAACAAATAGTGTCAAA
* *
94413582 AACGCTTCAAGCAGAATGCACTGTCAGCAAAATTGA-TGAAAAAAACTCTCACGTGGACGCTC
64 AACGCTTCAAGCAGGATGCACTGTCAGCAAAATTGACTGAAAAAAACTC-CATGTGGACGCTC
*
94413644 TTTTTCTACAGTAGTTCTTGAAAAAATAATTTTGAGAAAACGTTTCTAAACAAATAGTGTCAAAA
1 TTTTTCTACAGTAGTTCCTGAAAAAATAATTTTGAGAAAACG-TTCTAAACAAATAGTGTCAAAA
* * * * *
94413709 ACGCTTTAAGTAGTATGCACTGTGAGCAAAATTGA-TAAAAAAAAGCTCCTATGTGGACGCTC
65 ACGCTTCAAGCAGGATGCACTGTCAGCAAAATTGACTGAAAAAAA-CTCC-ATGTGGACGCTC
* *
94413771 TTTTTCTATAGTAGTTCCT-AAAAAATAATTTTGAGAATACGCTTCTAAACAAATAGTGTCAAAA
1 TTTTTCTACAGTAGTTCCTGAAAAAATAATTTTGAGAAAACG-TTCTAAACAAATAGTGTCAAAA
** *
94413835 ATACTTCAAGCAGGATGCACTGTCAGTAAAATT-ACTGAAAAA
65 ACGCTTCAAGCAGGATGCACTGTCAGCAAAATTGACTGAAAAA
94413877 GCTCCCACAC
Statistics
Matches: 302, Mismatches: 46, Indels: 19
0.82 0.13 0.05
Matches are distributed among these distances:
122 4 0.01
123 84 0.28
124 6 0.02
125 4 0.01
126 171 0.57
127 33 0.11
ACGTcount: A:0.39, C:0.15, G:0.16, T:0.31
Consensus pattern (125 bp):
TTTTTCTACAGTAGTTCCTGAAAAAATAATTTTGAGAAAACGTTCTAAACAAATAGTGTCAAAAA
CGCTTCAAGCAGGATGCACTGTCAGCAAAATTGACTGAAAAAAACTCCATGTGGACGCTC
Found at i:94417446 original size:18 final size:18
Alignment explanation
Indices: 94417425--94417459 Score: 61
Period size: 18 Copynumber: 1.9 Consensus size: 18
94417415 AAAAGGAAAC
94417425 ATATAAAGGTTAGGATAT
1 ATATAAAGGTTAGGATAT
*
94417443 ATATAAGGGTTAGGATA
1 ATATAAAGGTTAGGATA
94417460 CGTACTTGGT
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
18 16 1.00
ACGTcount: A:0.43, C:0.00, G:0.26, T:0.31
Consensus pattern (18 bp):
ATATAAAGGTTAGGATAT
Found at i:94418055 original size:7 final size:7
Alignment explanation
Indices: 94418045--94418069 Score: 50
Period size: 7 Copynumber: 3.6 Consensus size: 7
94418035 TTATATACAT
94418045 AATACTA
1 AATACTA
94418052 AATACTA
1 AATACTA
94418059 AATACTA
1 AATACTA
94418066 AATA
1 AATA
94418070 TGAAACGACT
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 18 1.00
ACGTcount: A:0.60, C:0.12, G:0.00, T:0.28
Consensus pattern (7 bp):
AATACTA
Found at i:94419237 original size:12 final size:12
Alignment explanation
Indices: 94419220--94419252 Score: 57
Period size: 12 Copynumber: 2.8 Consensus size: 12
94419210 AGAGAGCTTT
94419220 GAGAAATTTAAG
1 GAGAAATTTAAG
*
94419232 GAGAAATTTAGG
1 GAGAAATTTAAG
94419244 GAGAAATTT
1 GAGAAATTT
94419253 GAGAGTTTTT
Statistics
Matches: 20, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
12 20 1.00
ACGTcount: A:0.45, C:0.00, G:0.27, T:0.27
Consensus pattern (12 bp):
GAGAAATTTAAG
Found at i:94426153 original size:42 final size:42
Alignment explanation
Indices: 94426086--94426173 Score: 104
Period size: 42 Copynumber: 2.1 Consensus size: 42
94426076 AAATCAAATC
* *
94426086 TCTTCATTTTTCTATATCCCAAGCATACAAACGCATTTATGT
1 TCTTCATTTCTCTATATCCCAAGCATACAAACGCATTTAAGT
* * * ** *
94426128 TCTTCATTTCTCTATTTTCCTAGCATATGAATGCATTTAAGT
1 TCTTCATTTCTCTATATCCCAAGCATACAAACGCATTTAAGT
94426170 TCTT
1 TCTT
94426174 AGGTGAAGAT
Statistics
Matches: 38, Mismatches: 8, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
42 38 1.00
ACGTcount: A:0.25, C:0.22, G:0.08, T:0.45
Consensus pattern (42 bp):
TCTTCATTTCTCTATATCCCAAGCATACAAACGCATTTAAGT
Found at i:94427024 original size:12 final size:12
Alignment explanation
Indices: 94427007--94427032 Score: 52
Period size: 12 Copynumber: 2.2 Consensus size: 12
94426997 TACAAGCAGA
94427007 GAGCCAAAGTTG
1 GAGCCAAAGTTG
94427019 GAGCCAAAGTTG
1 GAGCCAAAGTTG
94427031 GA
1 GA
94427033 TGAAGTAGGG
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:0.35, C:0.15, G:0.35, T:0.15
Consensus pattern (12 bp):
GAGCCAAAGTTG
Found at i:94427279 original size:24 final size:24
Alignment explanation
Indices: 94427242--94427290 Score: 71
Period size: 24 Copynumber: 2.0 Consensus size: 24
94427232 GTTGAGATAA
* * *
94427242 TACGAGGTTTTTAAGTTTCAGTAG
1 TACGAAGTTATTAAATTTCAGTAG
94427266 TACGAAGTTATTAAATTTCAGTAG
1 TACGAAGTTATTAAATTTCAGTAG
94427290 T
1 T
94427291 CCCTTAGTGG
Statistics
Matches: 22, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
24 22 1.00
ACGTcount: A:0.31, C:0.08, G:0.20, T:0.41
Consensus pattern (24 bp):
TACGAAGTTATTAAATTTCAGTAG
Found at i:94434030 original size:42 final size:43
Alignment explanation
Indices: 94433976--94434101 Score: 152
Period size: 43 Copynumber: 3.0 Consensus size: 43
94433966 TAAAAATATC
* * *
94433976 AAGCAACGTGGGAAGGCAACATCTATGTCTAGACAAAAAAAG-
1 AAGCAACTTGGGAAAGCAACATCTAAGTCTAGACAAAAAAAGA
*
94434018 AAGCAACTTGGGAAAACAACAT-TCAAGATC-AGACAAAAAAAGA
1 AAGCAACTTGGGAAAGCAACATCT-AAG-TCTAGACAAAAAAAGA
*
94434061 AAGCAACTTGGGAAAGCAACATCCAAGT-TCAGACAAAAAAA
1 AAGCAACTTGGGAAAGCAACATCTAAGTCT-AGACAAAAAAA
94434102 AGCAACGTGG
Statistics
Matches: 72, Mismatches: 6, Indels: 11
0.81 0.07 0.12
Matches are distributed among these distances:
41 1 0.01
42 34 0.47
43 37 0.51
ACGTcount: A:0.51, C:0.17, G:0.19, T:0.13
Consensus pattern (43 bp):
AAGCAACTTGGGAAAGCAACATCTAAGTCTAGACAAAAAAAGA
Found at i:94434071 original size:43 final size:42
Alignment explanation
Indices: 94434006--94434101 Score: 156
Period size: 43 Copynumber: 2.3 Consensus size: 42
94433996 ATCTATGTCT
*
94434006 AGACAAAAAAAGAAGCAACTTGGGAAAACAACATTCAAGATC
1 AGACAAAAAAAGAAGCAACTTGGGAAAACAACATCCAAGATC
* *
94434048 AGACAAAAAAAGAAAGCAACTTGGGAAAGCAACATCCAAGTTC
1 AGACAAAAAAAG-AAGCAACTTGGGAAAACAACATCCAAGATC
94434091 AGACAAAAAAA
1 AGACAAAAAAA
94434102 AGCAACGTGG
Statistics
Matches: 50, Mismatches: 3, Indels: 1
0.93 0.06 0.02
Matches are distributed among these distances:
42 12 0.24
43 38 0.76
ACGTcount: A:0.56, C:0.17, G:0.17, T:0.10
Consensus pattern (42 bp):
AGACAAAAAAAGAAGCAACTTGGGAAAACAACATCCAAGATC
Found at i:94437701 original size:55 final size:53
Alignment explanation
Indices: 94437593--94437826 Score: 241
Period size: 55 Copynumber: 4.4 Consensus size: 53
94437583 ATTAGGGTTT
* *
94437593 AAGGATACCATGTAAGACCATGCCAATG-CATGACAATTGGTAAGGTTTC-TAAGGC
1 AAGGATACCATGTAAGACCATGTCAA-GACATGGC-ATTGGTAA-G-TTCATAAGGC
* * *
94437648 AAGGAAATCATGTAAGACCATGTCAAGACATGGCATTGATAAGTTACTATAAGGC
1 AAGGATACCATGTAAGACCATGTCAAGACATGGCATTGGTAAGTT-C-ATAAGGC
* * * * *
94437703 AAAGG-TCCCATGTAATACCATGCCAAGGCATGGCATTGGTGAGTTCATAAGGC
1 -AAGGATACCATGTAAGACCATGTCAAGACATGGCATTGGTAAGTTCATAAGGC
*
94437756 AAGGATACCATGTAAGACCATGTCAAGACATGGCAATGGTAAGTT--TCAA---
1 AAGGATACCATGTAAGACCATGTCAAGACATGGCATTGGTAAGTTCAT-AAGGC
94437805 AAGGATACCATGTAAGACCATG
1 AAGGATACCATGTAAGACCATG
94437827 AAAAGTCATG
Statistics
Matches: 153, Mismatches: 19, Indels: 20
0.80 0.10 0.10
Matches are distributed among these distances:
49 22 0.14
51 1 0.01
52 8 0.05
53 43 0.28
54 9 0.06
55 66 0.43
56 4 0.03
ACGTcount: A:0.36, C:0.18, G:0.24, T:0.23
Consensus pattern (53 bp):
AAGGATACCATGTAAGACCATGTCAAGACATGGCATTGGTAAGTTCATAAGGC
Found at i:94437799 original size:108 final size:110
Alignment explanation
Indices: 94437600--94437800 Score: 300
Period size: 108 Copynumber: 1.8 Consensus size: 110
94437590 TTTAAGGATA
* *
94437600 CCATGTAAGACCATGCCAATGCATGACAATTGGTAAGGTTTCTAAGGCAAGGAAATCATGTAAGA
1 CCATGTAAGACCATGCCAAGGCATGACAATTGGTAAGGTTTCTAAGGCAAGGAAACCATGTAAGA
*
94437665 CCATGTCAAGACATGGCATTGATAAGTTACTATAAGGCAAAGGTC
66 CCATGTCAAGACATGGCAATGATAAGTTACTATAAGGCAAAGGTC
* * * *
94437710 CCATGTAATACCATGCCAAGGCATGGC-ATTGGTGA-G-TTCATAAGGCAAGGATACCATGTAAG
1 CCATGTAAGACCATGCCAAGGCATGACAATTGGTAAGGTTTC-TAAGGCAAGGAAACCATGTAAG
*
94437772 ACCATGTCAAGACATGGCAATGGTAAGTT
65 ACCATGTCAAGACATGGCAATGATAAGTT
94437801 TCAAAAGGAT
Statistics
Matches: 82, Mismatches: 8, Indels: 4
0.87 0.09 0.04
Matches are distributed among these distances:
107 3 0.04
108 48 0.59
109 7 0.09
110 24 0.29
ACGTcount: A:0.35, C:0.18, G:0.24, T:0.23
Consensus pattern (110 bp):
CCATGTAAGACCATGCCAAGGCATGACAATTGGTAAGGTTTCTAAGGCAAGGAAACCATGTAAGA
CCATGTCAAGACATGGCAATGATAAGTTACTATAAGGCAAAGGTC
Found at i:94437942 original size:23 final size:24
Alignment explanation
Indices: 94437916--94437960 Score: 74
Period size: 23 Copynumber: 1.9 Consensus size: 24
94437906 AAGGTAAAGT
*
94437916 AAGGTAAGACGAGTT-ATGCTAAA
1 AAGGTAAGACAAGTTCATGCTAAA
94437939 AAGGTAAGACAAGTTCATGCTA
1 AAGGTAAGACAAGTTCATGCTA
94437961 GAAGAGCAAA
Statistics
Matches: 20, Mismatches: 1, Indels: 1
0.91 0.05 0.05
Matches are distributed among these distances:
23 14 0.70
24 6 0.30
ACGTcount: A:0.42, C:0.11, G:0.24, T:0.22
Consensus pattern (24 bp):
AAGGTAAGACAAGTTCATGCTAAA
Found at i:94451736 original size:23 final size:23
Alignment explanation
Indices: 94451710--94451765 Score: 58
Period size: 25 Copynumber: 2.3 Consensus size: 23
94451700 GGACGCTCCG
94451710 AAGAGCTATAACGAGAAGCTCAC
1 AAGAGCTATAACGAGAAGCTCAC
* * *
94451733 AAGAACGATATATCGAGAAGCTCAT
1 AAG-A-GCTATAACGAGAAGCTCAC
*
94451758 GAGAGCTA
1 AAGAGCTA
94451766 ATAATAGGAC
Statistics
Matches: 26, Mismatches: 5, Indels: 4
0.74 0.14 0.11
Matches are distributed among these distances:
23 6 0.23
24 2 0.08
25 18 0.69
ACGTcount: A:0.43, C:0.18, G:0.23, T:0.16
Consensus pattern (23 bp):
AAGAGCTATAACGAGAAGCTCAC
Found at i:94462841 original size:39 final size:39
Alignment explanation
Indices: 94462787--94462986 Score: 240
Period size: 39 Copynumber: 5.2 Consensus size: 39
94462777 GTTTTCAATA
* * *
94462787 CACCGGCACACAGCCTGCTAGGCACATAAACCGAATAAG
1 CACCGGCACAAAGCCTGCTAGGCACATAACCCGAATAAT
* *
94462826 CACCGGCACAAAGCCTACTAGGCACATAGCCCGAATAAT
1 CACCGGCACAAAGCCTGCTAGGCACATAACCCGAATAAT
** * *
94462865 CATTGGCACAAAGCCTGCTAGGCATATAGCCCGAATAAT
1 CACCGGCACAAAGCCTGCTAGGCACATAACCCGAATAAT
* * * *
94462904 CACCGGCACAAAGACTGCTAGGCACATAGCCTGATTAAT
1 CACCGGCACAAAGCCTGCTAGGCACATAACCCGAATAAT
* * * *
94462943 CACCAGCACAAAGCTTGCTAGGCAGA-AGCCCGAATAAT
1 CACCGGCACAAAGCCTGCTAGGCACATAACCCGAATAAT
94462981 CACCGG
1 CACCGG
94462987 ATTTCTATTT
Statistics
Matches: 139, Mismatches: 22, Indels: 1
0.86 0.14 0.01
Matches are distributed among these distances:
38 15 0.11
39 124 0.89
ACGTcount: A:0.34, C:0.30, G:0.20, T:0.14
Consensus pattern (39 bp):
CACCGGCACAAAGCCTGCTAGGCACATAACCCGAATAAT
Found at i:94462925 original size:78 final size:78
Alignment explanation
Indices: 94462787--94462986 Score: 267
Period size: 78 Copynumber: 2.6 Consensus size: 78
94462777 GTTTTCAATA
* ** * *
94462787 CACCGGCACACAGCCTGCTAGGCACATAAACCGAATAAGCACCGGCACAAAGCCTACTAGGCACA
1 CACCGGCACAAAGCCTGCTAGGCACATAGCCCGAATAATCACCGGCACAAAGACTACTAGGCACA
94462852 TAGCCCGAATAAT
66 TAGCCCGAATAAT
** * *
94462865 CATTGGCACAAAGCCTGCTAGGCATATAGCCCGAATAATCACCGGCACAAAGACTGCTAGGCACA
1 CACCGGCACAAAGCCTGCTAGGCACATAGCCCGAATAATCACCGGCACAAAGACTACTAGGCACA
* *
94462930 TAGCCTGATTAAT
66 TAGCCCGAATAAT
* * *
94462943 CACCAGCACAAAGCTTGCTAGGCAGA-AGCCCGAATAATCACCGG
1 CACCGGCACAAAGCCTGCTAGGCACATAGCCCGAATAATCACCGG
94462987 ATTTCTATTT
Statistics
Matches: 106, Mismatches: 16, Indels: 1
0.86 0.13 0.01
Matches are distributed among these distances:
77 18 0.17
78 88 0.83
ACGTcount: A:0.34, C:0.30, G:0.20, T:0.14
Consensus pattern (78 bp):
CACCGGCACAAAGCCTGCTAGGCACATAGCCCGAATAATCACCGGCACAAAGACTACTAGGCACA
TAGCCCGAATAAT
Found at i:94466813 original size:21 final size:21
Alignment explanation
Indices: 94466789--94466830 Score: 84
Period size: 21 Copynumber: 2.0 Consensus size: 21
94466779 TTTGGATTTC
94466789 CCAAAATCCAAAAGACTTGAA
1 CCAAAATCCAAAAGACTTGAA
94466810 CCAAAATCCAAAAGACTTGAA
1 CCAAAATCCAAAAGACTTGAA
94466831 AATCACCAAA
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
21 21 1.00
ACGTcount: A:0.52, C:0.24, G:0.10, T:0.14
Consensus pattern (21 bp):
CCAAAATCCAAAAGACTTGAA
Found at i:94467333 original size:16 final size:16
Alignment explanation
Indices: 94467294--94467334 Score: 66
Period size: 17 Copynumber: 2.6 Consensus size: 16
94467284 ATTTTCATTC
94467294 AAAT-ATATAATAAAA
1 AAATCATATAATAAAA
94467309 AAATGCATATAATAAAA
1 AAAT-CATATAATAAAA
94467326 AAATCATAT
1 AAATCATAT
94467335 CTTATCAAAA
Statistics
Matches: 24, Mismatches: 0, Indels: 3
0.89 0.00 0.11
Matches are distributed among these distances:
15 4 0.17
16 5 0.21
17 15 0.62
ACGTcount: A:0.66, C:0.05, G:0.02, T:0.27
Consensus pattern (16 bp):
AAATCATATAATAAAA
Found at i:94468136 original size:16 final size:18
Alignment explanation
Indices: 94468110--94468142 Score: 52
Period size: 17 Copynumber: 1.9 Consensus size: 18
94468100 TTAAATTAAC
94468110 TAAACTAA-TTTCTCAAT
1 TAAACTAATTTTCTCAAT
94468127 TAAA-TAATTTTCTCAA
1 TAAACTAATTTTCTCAA
94468143 CCCAATTCTA
Statistics
Matches: 15, Mismatches: 0, Indels: 2
0.88 0.00 0.12
Matches are distributed among these distances:
16 3 0.20
17 12 0.80
ACGTcount: A:0.42, C:0.15, G:0.00, T:0.42
Consensus pattern (18 bp):
TAAACTAATTTTCTCAAT
Found at i:94476605 original size:19 final size:17
Alignment explanation
Indices: 94476565--94476615 Score: 52
Period size: 15 Copynumber: 3.0 Consensus size: 17
94476555 AATTCGGATG
*
94476565 TAAAAATTAAACTAAAA
1 TAAAAATTAAAATAAAA
*
94476582 CAAAAATATGAAAATAAAA
1 TAAAAAT-T-AAAATAAAA
94476601 T-AAAA-TAAAATAAAA
1 TAAAAATTAAAATAAAA
94476616 ATAGCTAAAG
Statistics
Matches: 29, Mismatches: 3, Indels: 6
0.76 0.08 0.16
Matches are distributed among these distances:
15 9 0.31
16 1 0.03
17 6 0.21
18 5 0.17
19 8 0.28
ACGTcount: A:0.75, C:0.04, G:0.02, T:0.20
Consensus pattern (17 bp):
TAAAAATTAAAATAAAA
Found at i:94479134 original size:19 final size:20
Alignment explanation
Indices: 94479110--94479154 Score: 74
Period size: 20 Copynumber: 2.3 Consensus size: 20
94479100 CTCCAACAGT
94479110 AAAAAAA-ACTGAAAAAGAA
1 AAAAAAACACTGAAAAAGAA
*
94479129 AAAAAAACACTGAAAACGAA
1 AAAAAAACACTGAAAAAGAA
94479149 AAAAAA
1 AAAAAA
94479155 TGGGTCATGT
Statistics
Matches: 24, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
19 7 0.29
20 17 0.71
ACGTcount: A:0.78, C:0.09, G:0.09, T:0.04
Consensus pattern (20 bp):
AAAAAAACACTGAAAAAGAA
Done.