Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Chr14
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: 244914714
ACGTcount: A:0.31, C:0.18, G:0.18, T:0.31
Warning! 4503000 characters in sequence are not A, C, G, or T
File 744 of 770
Found at i:235763892 original size:39 final size:40
Alignment explanation
Indices: 235763834--235763934 Score: 132
Period size: 39 Copynumber: 2.5 Consensus size: 40
235763824 AAATTGAATG
* *
235763834 ATATCCGGGCTAAGCCCCGAAGACAATTATGCT-GAAATT
1 ATATCCGGGCTAAGACCCGAAGACAATTATGCTAGAAACT
* * * * *
235763873 ATATCCGGGTTAAGACCCGAAGGCAATTGTGCTAGTAGCT
1 ATATCCGGGCTAAGACCCGAAGACAATTATGCTAGAAACT
235763913 ATATCCGGGCTAAGACCCGAAG
1 ATATCCGGGCTAAGACCCGAAG
235763935 GCATTCGTGC
Statistics
Matches: 53, Mismatches: 8, Indels: 1
0.85 0.13 0.02
Matches are distributed among these distances:
39 29 0.55
40 24 0.45
ACGTcount: A:0.31, C:0.23, G:0.25, T:0.22
Consensus pattern (40 bp):
ATATCCGGGCTAAGACCCGAAGACAATTATGCTAGAAACT
Found at i:235763927 original size:40 final size:40
Alignment explanation
Indices: 235763834--235764016 Score: 181
Period size: 40 Copynumber: 4.6 Consensus size: 40
235763824 AAATTGAATG
* * * * *
235763834 ATATCCGGGCTAAGCCCCGAAGACAATTATGCT-GAAATT
1 ATATCCGGGCTAAGACCCGAAGGCAATTGTGCTAGTAGTT
* *
235763873 ATATCCGGGTTAAGACCCGAAGGCAATTGTGCTAGTAGCT
1 ATATCCGGGCTAAGACCCGAAGGCAATTGTGCTAGTAGTT
* *
235763913 ATATCCGGGCTAAGACCCGAAGGC-ATTCGTGCAAGTTGTT
1 ATATCCGGGCTAAGACCCGAAGGCAATT-GTGCTAGTAGTT
* * * * * *
235763953 AAATCCGGGCTAAGACCCGAAGGCATTTGTGCAAATCGTG
1 ATATCCGGGCTAAGACCCGAAGGCAATTGTGCTAGTAGTT
* * *
235763993 ATATCCGGGTTAAGTCCCGTAGGC
1 ATATCCGGGCTAAGACCCGAAGGC
235764017 CTTGGTGCGG
Statistics
Matches: 121, Mismatches: 20, Indels: 5
0.83 0.14 0.03
Matches are distributed among these distances:
39 32 0.26
40 87 0.72
41 2 0.02
ACGTcount: A:0.28, C:0.22, G:0.26, T:0.23
Consensus pattern (40 bp):
ATATCCGGGCTAAGACCCGAAGGCAATTGTGCTAGTAGTT
Found at i:235771828 original size:40 final size:39
Alignment explanation
Indices: 235771660--235771830 Score: 159
Period size: 40 Copynumber: 4.3 Consensus size: 39
235771650 AGAAATTGAA
* *
235771660 TGATATCCGGGCTAAGCCCCGAAGACAATTATGCTG-AAAT-
1 TGATATCCGGGCTAAGACCCGAAGGC-ATT-TG-TGCAAATG
* * * * *
235771700 TTATATCCGGGTTAAGACCCGAAGGCAATTGTGCTAGTAG
1 TGATATCCGGGCTAAGACCCGAAGGCATTTGTGCAAAT-G
* *
235771740 CT-ATATCCGGGCTAAGACCCGAAGGCATTCGTGCAAGTTG
1 -TGATATCCGGGCTAAGACCCGAAGGCATTTGTGCAA-ATG
* *
235771780 TTAAATCCGGGCTAAGACCCGAAGGCATTTGTGCAAATCG
1 TGATATCCGGGCTAAGACCCGAAGGCATTTGTGCAAAT-G
235771820 TGATATCCGGG
1 TGATATCCGGG
235771831 TAAAGTCCCG
Statistics
Matches: 107, Mismatches: 17, Indels: 14
0.78 0.12 0.10
Matches are distributed among these distances:
37 2 0.02
38 4 0.04
39 4 0.04
40 95 0.89
41 2 0.02
ACGTcount: A:0.28, C:0.22, G:0.26, T:0.24
Consensus pattern (39 bp):
TGATATCCGGGCTAAGACCCGAAGGCATTTGTGCAAATG
Found at i:235779669 original size:40 final size:39
Alignment explanation
Indices: 235779501--235779671 Score: 159
Period size: 40 Copynumber: 4.3 Consensus size: 39
235779491 AGAAATTGAA
* *
235779501 TGATATCCGGGCTAAGCCCCGAAGACAATTATGCTG-AAAT-
1 TGATATCCGGGCTAAGACCCGAAGGC-ATT-TG-TGCAAATG
* * * * *
235779541 TTATATCCGGGTTAAGACCCGAAGGCAATTGTGCTAGTAG
1 TGATATCCGGGCTAAGACCCGAAGGCATTTGTGCAAAT-G
* *
235779581 CT-ATATCCGGGCTAAGACCCGAAGGCATTCGTGCAAGTTG
1 -TGATATCCGGGCTAAGACCCGAAGGCATTTGTGCAA-ATG
* *
235779621 TTAAATCCGGGCTAAGACCCGAAGGCATTTGTGCAAATCG
1 TGATATCCGGGCTAAGACCCGAAGGCATTTGTGCAAAT-G
235779661 TGATATCCGGG
1 TGATATCCGGG
235779672 TAAAGTCCCG
Statistics
Matches: 107, Mismatches: 17, Indels: 14
0.78 0.12 0.10
Matches are distributed among these distances:
37 2 0.02
38 4 0.04
39 4 0.04
40 95 0.89
41 2 0.02
ACGTcount: A:0.28, C:0.22, G:0.26, T:0.24
Consensus pattern (39 bp):
TGATATCCGGGCTAAGACCCGAAGGCATTTGTGCAAATG
Found at i:235781202 original size:42 final size:42
Alignment explanation
Indices: 235781155--235781258 Score: 115
Period size: 42 Copynumber: 2.5 Consensus size: 42
235781145 AGATTTATGC
* * *
235781155 GTAAGACCATGTTTGGGAGA-TCGACATCG-TATTTGATTT-CGT
1 GTAAGACCATGTCTGGGACAGT-G-CATCGATATTTG-TTTACAT
*
235781197 GTAAGACCCTGTCTGGGACAGTGCATCGATATTTGTTTACAT
1 GTAAGACCATGTCTGGGACAGTGCATCGATATTTGTTTACAT
*
235781239 GTAAGACCACGTCTGGGACA
1 GTAAGACCATGTCTGGGACA
235781259 TTAGCATTGT
Statistics
Matches: 53, Mismatches: 6, Indels: 6
0.82 0.09 0.09
Matches are distributed among these distances:
41 8 0.15
42 44 0.83
43 1 0.02
ACGTcount: A:0.25, C:0.18, G:0.26, T:0.31
Consensus pattern (42 bp):
GTAAGACCATGTCTGGGACAGTGCATCGATATTTGTTTACAT
Found at i:235783725 original size:53 final size:53
Alignment explanation
Indices: 235783644--235783794 Score: 214
Period size: 53 Copynumber: 2.8 Consensus size: 53
235783634 CTTACACGGT
* *
235783644 TCACATATCATACCGAAGCCATATCCCAGAC-ATGGTCTTATACGGAATCACATTA
1 TCACAT-T-ATACCGATGCCATAGCCCAG-CTATGGTCTTATACGGAATCACATTA
*
235783699 TCACATTATACCGATGCCATAGCCCAGCTATGGTCTTATACGGAGTCACATTA
1 TCACATTATACCGATGCCATAGCCCAGCTATGGTCTTATACGGAATCACATTA
** *
235783752 TCACATTGCACCGATGCCATAGCCCAGCTATGGTCTTAAACGG
1 TCACATTATACCGATGCCATAGCCCAGCTATGGTCTTATACGG
235783795 GCACACTTGT
Statistics
Matches: 89, Mismatches: 6, Indels: 4
0.90 0.06 0.04
Matches are distributed among these distances:
52 1 0.01
53 81 0.91
54 1 0.01
55 6 0.07
ACGTcount: A:0.30, C:0.28, G:0.17, T:0.26
Consensus pattern (53 bp):
TCACATTATACCGATGCCATAGCCCAGCTATGGTCTTATACGGAATCACATTA
Found at i:235791206 original size:53 final size:53
Alignment explanation
Indices: 235791125--235791275 Score: 214
Period size: 53 Copynumber: 2.8 Consensus size: 53
235791115 CTTACACGGT
* *
235791125 TCACATATCATACCGAAGCCATATCCCAGAC-ATGGTCTTATACGGAATCACATTA
1 TCACAT-T-ATACCGATGCCATAGCCCAG-CTATGGTCTTATACGGAATCACATTA
*
235791180 TCACATTATACCGATGCCATAGCCCAGCTATGGTCTTATACGGAGTCACATTA
1 TCACATTATACCGATGCCATAGCCCAGCTATGGTCTTATACGGAATCACATTA
** *
235791233 TCACATTGCACCGATGCCATAGCCCAGCTATGGTCTTAAACGG
1 TCACATTATACCGATGCCATAGCCCAGCTATGGTCTTATACGG
235791276 CACACTTGTC
Statistics
Matches: 89, Mismatches: 6, Indels: 4
0.90 0.06 0.04
Matches are distributed among these distances:
52 1 0.01
53 81 0.91
54 1 0.01
55 6 0.07
ACGTcount: A:0.30, C:0.28, G:0.17, T:0.26
Consensus pattern (53 bp):
TCACATTATACCGATGCCATAGCCCAGCTATGGTCTTATACGGAATCACATTA
Found at i:235793619 original size:30 final size:30
Alignment explanation
Indices: 235793561--235793621 Score: 86
Period size: 30 Copynumber: 2.0 Consensus size: 30
235793551 TTCCCGAGCC
* *
235793561 TAGGGGCAAAAGTGTAATTATGCAAAAGTT
1 TAGGGGCAAAAATGTAATTATACAAAAGTT
* *
235793591 TAGGGGCAAAAATGTAATTTTACCAAAGTT
1 TAGGGGCAAAAATGTAATTATACAAAAGTT
235793621 T
1 T
235793622 GTATTAAATG
Statistics
Matches: 27, Mismatches: 4, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
30 27 1.00
ACGTcount: A:0.39, C:0.08, G:0.23, T:0.30
Consensus pattern (30 bp):
TAGGGGCAAAAATGTAATTATACAAAAGTT
Found at i:235794059 original size:16 final size:16
Alignment explanation
Indices: 235794038--235794077 Score: 80
Period size: 16 Copynumber: 2.5 Consensus size: 16
235794028 CACTAGGATG
235794038 GTTGAGTTCCGAACTC
1 GTTGAGTTCCGAACTC
235794054 GTTGAGTTCCGAACTC
1 GTTGAGTTCCGAACTC
235794070 GTTGAGTT
1 GTTGAGTT
235794078 GAGTCCGAGT
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:0.17, C:0.20, G:0.28, T:0.35
Consensus pattern (16 bp):
GTTGAGTTCCGAACTC
Found at i:235801785 original size:23 final size:24
Alignment explanation
Indices: 235801755--235801811 Score: 98
Period size: 23 Copynumber: 2.4 Consensus size: 24
235801745 NNNNNNNNNN
*
235801755 GGCATAAGCCCTTTTAATAACT-G
1 GGCATAAGCCCTTTTAAAAACTGG
235801778 GGCATAAGCCCTTTTAAAAACTGG
1 GGCATAAGCCCTTTTAAAAACTGG
235801802 GGCATAAGCC
1 GGCATAAGCC
235801812 GTTTGCATTT
Statistics
Matches: 32, Mismatches: 1, Indels: 1
0.94 0.03 0.03
Matches are distributed among these distances:
23 21 0.66
24 11 0.34
ACGTcount: A:0.32, C:0.23, G:0.21, T:0.25
Consensus pattern (24 bp):
GGCATAAGCCCTTTTAAAAACTGG
Found at i:235801892 original size:20 final size:20
Alignment explanation
Indices: 235801869--235801911 Score: 86
Period size: 20 Copynumber: 2.1 Consensus size: 20
235801859 GAACATCTCG
235801869 TGTGCATATCATACATATCA
1 TGTGCATATCATACATATCA
235801889 TGTGCATATCATACATATCA
1 TGTGCATATCATACATATCA
235801909 TGT
1 TGT
235801912 TTATCAAAAT
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 23 1.00
ACGTcount: A:0.33, C:0.19, G:0.12, T:0.37
Consensus pattern (20 bp):
TGTGCATATCATACATATCA
Found at i:235803378 original size:40 final size:40
Alignment explanation
Indices: 235803333--235803500 Score: 185
Period size: 40 Copynumber: 4.2 Consensus size: 40
235803323 CGGAATATAA
235803333 CCGGATATAATCACGT-GCACAAATGCCTTCGGGTCTTAGC
1 CCGGATATAATCAC-TAGCACAAATGCCTTCGGGTCTTAGC
* * * *
235803373 CCGGATAGAATAACTCGCACGAATGCCTTCGGGTCTTAGC
1 CCGGATATAATCACTAGCACAAATGCCTTCGGGTCTTAGC
** * *
235803413 CCGGATATAGCCACTAGCACAATTGCCTTCGGGTCTTAAC
1 CCGGATATAATCACTAGCACAAATGCCTTCGGGTCTTAGC
** * * * * *
235803453 CCGGATATAATTTCCAGCATAATTGTCTTCGGGGCTTAGC
1 CCGGATATAATCACTAGCACAAATGCCTTCGGGTCTTAGC
235803493 CCGGATAT
1 CCGGATAT
235803501 CATTCAATTT
Statistics
Matches: 107, Mismatches: 20, Indels: 2
0.83 0.16 0.02
Matches are distributed among these distances:
39 1 0.01
40 106 0.99
ACGTcount: A:0.24, C:0.27, G:0.23, T:0.26
Consensus pattern (40 bp):
CCGGATATAATCACTAGCACAAATGCCTTCGGGTCTTAGC
Found at i:235810529 original size:40 final size:40
Alignment explanation
Indices: 235810484--235810650 Score: 185
Period size: 40 Copynumber: 4.2 Consensus size: 40
235810474 CGGAATATAA
235810484 CCGGATATAATCACGT-GCACAAATGCCTTCGGGTCTTAGC
1 CCGGATATAATCAC-TAGCACAAATGCCTTCGGGTCTTAGC
* * * *
235810524 CCGGATAGAATAACTCGCACGAATGCCTTCGGGTCTTAGC
1 CCGGATATAATCACTAGCACAAATGCCTTCGGGTCTTAGC
** * *
235810564 CCGGATATAGCCACTAGCACAATTGCCTTCGGGTCTTAAC
1 CCGGATATAATCACTAGCACAAATGCCTTCGGGTCTTAGC
** * * * *
235810604 CCGGATATAATTTCCAGCATAATTGTCTTCGGG-CTTAGC
1 CCGGATATAATCACTAGCACAAATGCCTTCGGGTCTTAGC
235810643 CCGGATAT
1 CCGGATAT
235810651 CATTCAATTT
Statistics
Matches: 107, Mismatches: 19, Indels: 3
0.83 0.15 0.02
Matches are distributed among these distances:
39 14 0.13
40 93 0.87
ACGTcount: A:0.25, C:0.27, G:0.22, T:0.26
Consensus pattern (40 bp):
CCGGATATAATCACTAGCACAAATGCCTTCGGGTCTTAGC
Found at i:235811979 original size:8 final size:8
Alignment explanation
Indices: 235811966--235812001 Score: 63
Period size: 8 Copynumber: 4.5 Consensus size: 8
235811956 AAATGCCAGA
235811966 ATTTCGGC
1 ATTTCGGC
235811974 ATTTCGGC
1 ATTTCGGC
*
235811982 TTTTCGGC
1 ATTTCGGC
235811990 ATTTCGGC
1 ATTTCGGC
235811998 ATTT
1 ATTT
235812002 ATCGCTTTAA
Statistics
Matches: 26, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
8 26 1.00
ACGTcount: A:0.11, C:0.22, G:0.22, T:0.44
Consensus pattern (8 bp):
ATTTCGGC
Found at i:235819075 original size:30 final size:31
Alignment explanation
Indices: 235819039--235819101 Score: 101
Period size: 31 Copynumber: 2.1 Consensus size: 31
235819029 CCTTTTCATA
235819039 TTTCATA-TTCATAACACTGGGCCGAAGCCT
1 TTTCATATTTCATAACACTGGGCCGAAGCCT
**
235819069 TTTCATATTTCATATTACTGGGCCGAAGCCT
1 TTTCATATTTCATAACACTGGGCCGAAGCCT
235819100 TT
1 TT
235819102 ACTGTAAAGG
Statistics
Matches: 30, Mismatches: 2, Indels: 1
0.91 0.06 0.03
Matches are distributed among these distances:
30 7 0.23
31 23 0.77
ACGTcount: A:0.24, C:0.24, G:0.16, T:0.37
Consensus pattern (31 bp):
TTTCATATTTCATAACACTGGGCCGAAGCCT
Found at i:235819338 original size:25 final size:24
Alignment explanation
Indices: 235819305--235819386 Score: 130
Period size: 23 Copynumber: 3.4 Consensus size: 24
235819295 CTGGAGGCCT
*
235819305 AGCCTCTTTTAATAACTGGGGCAAAA
1 AGCC-CTTTTAATAACTGGGGC-ATA
235819331 AGCCCTTTTAATAACTGGGGCATA
1 AGCCCTTTTAATAACTGGGGCATA
235819355 AGCCC-TTTAATAACTGGGGCATA
1 AGCCCTTTTAATAACTGGGGCATA
235819378 AGCCCTTTT
1 AGCCCTTTT
235819387 GAACCTTCCT
Statistics
Matches: 54, Mismatches: 1, Indels: 4
0.92 0.02 0.07
Matches are distributed among these distances:
23 23 0.43
24 10 0.19
25 17 0.31
26 4 0.07
ACGTcount: A:0.29, C:0.22, G:0.20, T:0.29
Consensus pattern (24 bp):
AGCCCTTTTAATAACTGGGGCATA
Found at i:235819457 original size:20 final size:20
Alignment explanation
Indices: 235819432--235819484 Score: 88
Period size: 20 Copynumber: 2.6 Consensus size: 20
235819422 TGCATTTATG
*
235819432 ATACATCTCATGTGCATATC
1 ATACATATCATGTGCATATC
*
235819452 ATACATGTCATGTGCATATC
1 ATACATATCATGTGCATATC
235819472 ATACATATCATGT
1 ATACATATCATGT
235819485 TTATCAAAAT
Statistics
Matches: 31, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
20 31 1.00
ACGTcount: A:0.32, C:0.21, G:0.11, T:0.36
Consensus pattern (20 bp):
ATACATATCATGTGCATATC
Found at i:235819567 original size:24 final size:25
Alignment explanation
Indices: 235819521--235819567 Score: 78
Period size: 24 Copynumber: 1.9 Consensus size: 25
235819511 ATATATAAAC
*
235819521 CCTAGGGGTATAATGGTCATTTTTA
1 CCTAGGGGTATAACGGTCATTTTTA
235819546 CCTAGGGGTA-AACGGTCATTTT
1 CCTAGGGGTATAACGGTCATTTT
235819568 CATGTTAAGG
Statistics
Matches: 21, Mismatches: 1, Indels: 1
0.91 0.04 0.04
Matches are distributed among these distances:
24 11 0.52
25 10 0.48
ACGTcount: A:0.23, C:0.15, G:0.26, T:0.36
Consensus pattern (25 bp):
CCTAGGGGTATAACGGTCATTTTTA
Found at i:235822450 original size:93 final size:93
Alignment explanation
Indices: 235822338--235822509 Score: 317
Period size: 93 Copynumber: 1.8 Consensus size: 93
235822328 GCCCATAAGT
* *
235822338 GAACTCGGACTCAACTCAACGAGCTCGGGCGTTCGCATCCATAAGTGAACTCGGACTCAACTCAA
1 GAACTCGGACTCAACTCAACGAGCTCGGACGCTCGCATCCATAAGTGAACTCGGACTCAACTCAA
235822403 CGAGTTCGGATGCCTAGTTACATCTCAC
66 CGAGTTCGGATGCCTAGTTACATCTCAC
*
235822431 GAACTCGGACTCAACTCAACGAGTTCGGACGCTCGCATCCATAAGTGAACTCGGACTCAACTCAA
1 GAACTCGGACTCAACTCAACGAGCTCGGACGCTCGCATCCATAAGTGAACTCGGACTCAACTCAA
235822496 CGAGTTCGGATGCC
66 CGAGTTCGGATGCC
235822510 CAAATATCCC
Statistics
Matches: 76, Mismatches: 3, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
93 76 1.00
ACGTcount: A:0.27, C:0.30, G:0.22, T:0.20
Consensus pattern (93 bp):
GAACTCGGACTCAACTCAACGAGCTCGGACGCTCGCATCCATAAGTGAACTCGGACTCAACTCAA
CGAGTTCGGATGCCTAGTTACATCTCAC
Found at i:235822505 original size:46 final size:46
Alignment explanation
Indices: 235822330--235822505 Score: 232
Period size: 46 Copynumber: 3.8 Consensus size: 46
235822320 TGTAACCCGC
* * *
235822330 CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGGGCGTTCGCAT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGACGCTCGCAT
* *
235822376 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGATGCCTAGTTACAT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGACG-CTCG---CAT
* *
235822426 -C-TCA-CGAACTCGGACTCAACTCAACGAGTTCGGACGCTCGCAT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGACGCTCGCAT
235822469 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGA
1 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGA
235822506 TGCCCAAATA
Statistics
Matches: 112, Mismatches: 11, Indels: 14
0.82 0.08 0.10
Matches are distributed among these distances:
43 3 0.03
44 1 0.01
45 2 0.02
46 68 0.61
47 32 0.29
48 2 0.02
49 1 0.01
50 3 0.03
ACGTcount: A:0.28, C:0.30, G:0.22, T:0.20
Consensus pattern (46 bp):
CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGACGCTCGCAT
Found at i:235824929 original size:30 final size:30
Alignment explanation
Indices: 235824885--235824973 Score: 101
Period size: 30 Copynumber: 3.0 Consensus size: 30
235824875 CAAAGATAAC
235824885 AAGAAAACC-GAATAAAGAAATCCAAGATA
1 AAGAAAACCAGAATAAAGAAATCCAAGATA
* *
235824914 GAGAAACCCAGAATAAAGAAATCC-AGAATA
1 AAGAAAACCAGAATAAAGAAATCCAAG-ATA
* * * *
235824944 AAGAGATCCAGGATAAAGAAACCCAAGATA
1 AAGAAAACCAGAATAAAGAAATCCAAGATA
235824974 CGATACTATG
Statistics
Matches: 50, Mismatches: 7, Indels: 5
0.81 0.11 0.08
Matches are distributed among these distances:
29 9 0.18
30 39 0.78
31 2 0.04
ACGTcount: A:0.57, C:0.16, G:0.17, T:0.10
Consensus pattern (30 bp):
AAGAAAACCAGAATAAAGAAATCCAAGATA
Found at i:235824933 original size:15 final size:15
Alignment explanation
Indices: 235824885--235824964 Score: 92
Period size: 15 Copynumber: 5.4 Consensus size: 15
235824875 CAAAGATAAC
*
235824885 AAGAAAACC-GAATA
1 AAGAAATCCAGAATA
235824899 AAGAAATCCA-AGATA
1 AAGAAATCCAGA-ATA
* *
235824914 GAGAAACCCAGAATA
1 AAGAAATCCAGAATA
235824929 AAGAAATCCAGAATA
1 AAGAAATCCAGAATA
* *
235824944 AAGAGATCCAGGATA
1 AAGAAATCCAGAATA
235824959 AAGAAA
1 AAGAAA
235824965 CCCAAGATAC
Statistics
Matches: 55, Mismatches: 8, Indels: 5
0.81 0.12 0.07
Matches are distributed among these distances:
14 9 0.16
15 45 0.82
16 1 0.02
ACGTcount: A:0.59, C:0.14, G:0.17, T:0.10
Consensus pattern (15 bp):
AAGAAATCCAGAATA
Found at i:235824973 original size:15 final size:15
Alignment explanation
Indices: 235824896--235824973 Score: 79
Period size: 15 Copynumber: 5.2 Consensus size: 15
235824886 AGAAAACCGA
235824896 ATAAAGAAATCCAAG
1 ATAAAGAAATCCAAG
* *
235824911 ATAGAGAAA-CCCAG
1 ATAAAGAAATCCAAG
235824925 AATAAAGAAATCC-AG
1 -ATAAAGAAATCCAAG
* *
235824940 AATAAAGAGATCCAGG
1 -ATAAAGAAATCCAAG
*
235824956 ATAAAGAAACCCAAG
1 ATAAAGAAATCCAAG
235824971 ATA
1 ATA
235824974 CGATACTATG
Statistics
Matches: 52, Mismatches: 8, Indels: 6
0.79 0.12 0.09
Matches are distributed among these distances:
14 4 0.08
15 45 0.87
16 3 0.06
ACGTcount: A:0.56, C:0.15, G:0.17, T:0.12
Consensus pattern (15 bp):
ATAAAGAAATCCAAG
Found at i:235828035 original size:93 final size:93
Alignment explanation
Indices: 235827923--235828094 Score: 317
Period size: 93 Copynumber: 1.8 Consensus size: 93
235827913 GCCCATAAGT
* *
235827923 GAACTCGGACTCAACTCAACGAGCTCGGGCGTTCGCATCCATAAGTGAACTCGGACTCAACTCAA
1 GAACTCGGACTCAACTCAACGAGCTCGGACGCTCGCATCCATAAGTGAACTCGGACTCAACTCAA
235827988 CGAGTTCGGATGCCTAGTTACATCTCAC
66 CGAGTTCGGATGCCTAGTTACATCTCAC
*
235828016 GAACTCGGACTCAACTCAACGAGTTCGGACGCTCGCATCCATAAGTGAACTCGGACTCAACTCAA
1 GAACTCGGACTCAACTCAACGAGCTCGGACGCTCGCATCCATAAGTGAACTCGGACTCAACTCAA
235828081 CGAGTTCGGATGCC
66 CGAGTTCGGATGCC
235828095 CAAATATCCC
Statistics
Matches: 76, Mismatches: 3, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
93 76 1.00
ACGTcount: A:0.27, C:0.30, G:0.22, T:0.20
Consensus pattern (93 bp):
GAACTCGGACTCAACTCAACGAGCTCGGACGCTCGCATCCATAAGTGAACTCGGACTCAACTCAA
CGAGTTCGGATGCCTAGTTACATCTCAC
Found at i:235828090 original size:46 final size:46
Alignment explanation
Indices: 235827915--235828090 Score: 232
Period size: 46 Copynumber: 3.8 Consensus size: 46
235827905 TGTAACCCGC
* * *
235827915 CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGGGCGTTCGCAT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGACGCTCGCAT
* *
235827961 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGATGCCTAGTTACAT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGACG-CTCG---CAT
* *
235828011 -C-TCA-CGAACTCGGACTCAACTCAACGAGTTCGGACGCTCGCAT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGACGCTCGCAT
235828054 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGA
1 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGA
235828091 TGCCCAAATA
Statistics
Matches: 112, Mismatches: 11, Indels: 14
0.82 0.08 0.10
Matches are distributed among these distances:
43 3 0.03
44 1 0.01
45 2 0.02
46 68 0.61
47 32 0.29
48 2 0.02
49 1 0.01
50 3 0.03
ACGTcount: A:0.28, C:0.30, G:0.22, T:0.20
Consensus pattern (46 bp):
CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGACGCTCGCAT
Found at i:235831629 original size:40 final size:40
Alignment explanation
Indices: 235831570--235831711 Score: 124
Period size: 40 Copynumber: 3.5 Consensus size: 40
235831560 AAATTGAATG
* * *
235831570 ATATCCGGGCTAAGCCCCGAAGACAATTATGCTGGAAATT
1 ATATCCGGGCTAAGACCCGAAGACAATTATGCTAGAAACT
* * * ***
235831610 ATATCCGGGTTAAGACCCGAAGGCAATTGTGCTAGTGGCT
1 ATATCCGGGCTAAGACCCGAAGACAATTATGCTAGAAACT
* * * ** *
235831650 ATATCCGGGCTAAGACCCGAAGGC-ATTCGTGCGAGTTATT
1 ATATCCGGGCTAAGACCCGAAGACAATT-ATGCTAGAAACT
*
235831690 CTATCCGGGCTAAGACCCGAAG
1 ATATCCGGGCTAAGACCCGAAG
235831712 GCATTTGTGC
Statistics
Matches: 86, Mismatches: 15, Indels: 2
0.83 0.15 0.02
Matches are distributed among these distances:
39 3 0.03
40 83 0.97
ACGTcount: A:0.27, C:0.23, G:0.27, T:0.23
Consensus pattern (40 bp):
ATATCCGGGCTAAGACCCGAAGACAATTATGCTAGAAACT
Found at i:235831712 original size:40 final size:39
Alignment explanation
Indices: 235831609--235831737 Score: 152
Period size: 40 Copynumber: 3.2 Consensus size: 39
235831599 TGCTGGAAAT
* * *
235831609 TATATCCGGGTTAAGACCCGAAGGCAATTGTGCTAGTGGC
1 TATATCCGGGCTAAGACCCGAAGGC-ATTGTGCGAGTGAC
* *
235831649 TATATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGTTAT
1 TATATCCGGGCTAAGACCCGAAGGCATT-GTGCGAGTGAC
* *
235831689 TCTATCCGGGCTAAGACCCGAAGGCATTTGTGC-ACGTGAT
1 TATATCCGGGCTAAGACCCGAAGGCA-TTGTGCGA-GTGAC
235831729 TATATCCGG
1 TATATCCGG
235831738 TTATATTCCG
Statistics
Matches: 78, Mismatches: 8, Indels: 6
0.85 0.09 0.07
Matches are distributed among these distances:
39 4 0.05
40 72 0.92
41 2 0.03
ACGTcount: A:0.24, C:0.22, G:0.28, T:0.26
Consensus pattern (39 bp):
TATATCCGGGCTAAGACCCGAAGGCATTGTGCGAGTGAC
Found at i:235842310 original size:40 final size:40
Alignment explanation
Indices: 235842265--235842394 Score: 165
Period size: 40 Copynumber: 3.2 Consensus size: 40
235842255 CGGAATACAA
235842265 CCGGATATAACCACGT-GCACGAATGCCTTCGGGTCTTAGC
1 CCGGATATAACCAC-TAGCACGAATGCCTTCGGGTCTTAGC
* * *
235842305 CCGGATAGAACGACTCGCACGAATGCCTTCGGGTCTTAGC
1 CCGGATATAACCACTAGCACGAATGCCTTCGGGTCTTAGC
* * * *
235842345 CCGGATGTAGCCGCTAGCAC-AATTGCCTTCGGGTCTTAAC
1 CCGGATATAACCACTAGCACGAA-TGCCTTCGGGTCTTAGC
235842385 CCGGATATAA
1 CCGGATATAA
235842395 TTTCCAGCAA
Statistics
Matches: 77, Mismatches: 11, Indels: 4
0.84 0.12 0.04
Matches are distributed among these distances:
39 3 0.04
40 74 0.96
ACGTcount: A:0.23, C:0.29, G:0.25, T:0.22
Consensus pattern (40 bp):
CCGGATATAACCACTAGCACGAATGCCTTCGGGTCTTAGC
Found at i:235850350 original size:40 final size:40
Alignment explanation
Indices: 235850305--235850434 Score: 165
Period size: 40 Copynumber: 3.2 Consensus size: 40
235850295 CGGAATACAA
235850305 CCGGATATAACCACGT-GCACGAATGCCTTCGGGTCTTAGC
1 CCGGATATAACCAC-TAGCACGAATGCCTTCGGGTCTTAGC
* * *
235850345 CCGGATAGAACGACTCGCACGAATGCCTTCGGGTCTTAGC
1 CCGGATATAACCACTAGCACGAATGCCTTCGGGTCTTAGC
* * * *
235850385 CCGGATGTAGCCGCTAGCAC-AATTGCCTTCGGGTCTTAAC
1 CCGGATATAACCACTAGCACGAA-TGCCTTCGGGTCTTAGC
235850425 CCGGATATAA
1 CCGGATATAA
235850435 TTTCCAGCAT
Statistics
Matches: 77, Mismatches: 11, Indels: 4
0.84 0.12 0.04
Matches are distributed among these distances:
39 3 0.04
40 74 0.96
ACGTcount: A:0.23, C:0.29, G:0.25, T:0.22
Consensus pattern (40 bp):
CCGGATATAACCACTAGCACGAATGCCTTCGGGTCTTAGC
Found at i:235852652 original size:13 final size:13
Alignment explanation
Indices: 235852634--235852660 Score: 54
Period size: 13 Copynumber: 2.1 Consensus size: 13
235852624 TGCCGGATAG
235852634 AACAGACAAGTGT
1 AACAGACAAGTGT
235852647 AACAGACAAGTGT
1 AACAGACAAGTGT
235852660 A
1 A
235852661 CATTCATCAC
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 14 1.00
ACGTcount: A:0.48, C:0.15, G:0.22, T:0.15
Consensus pattern (13 bp):
AACAGACAAGTGT
Found at i:235857372 original size:40 final size:40
Alignment explanation
Indices: 235857317--235857525 Score: 264
Period size: 40 Copynumber: 5.2 Consensus size: 40
235857307 CTCGAGGCCG
* * * *
235857317 TCGGGTCTTAGCCCGG-ATATGGTCACTAGCACAAATGCCT
1 TCGGGACTTAGCCCGGAAT-TAGTAACTCGCACAAATGCCT
235857357 TCGGGACTTAGCCCGG-ATATAGTAACTCGCACAAATGCCT
1 TCGGGACTTAGCCCGGAAT-TAGTAACTCGCACAAATGCCT
235857397 TC-GGACTTAGCCCGGAATTAGTAACTCGCACAAATGCCT
1 TCGGGACTTAGCCCGGAATTAGTAACTCGCACAAATGCCT
235857436 TCGGGACTTAGCCCGGAATTAGTAACTCGCACAAATGCCT
1 TCGGGACTTAGCCCGGAATTAGTAACTCGCACAAATGCCT
* ** * * *
235857476 TTGGGACTTAGCTTGGAATT-GATCACTAGCACAAATGTCT
1 TCGGGACTTAGCCCGGAATTAG-TAACTCGCACAAATGCCT
*
235857516 TCAGGACTTA
1 TCGGGACTTA
235857526 ACCCCGTTAG
Statistics
Matches: 154, Mismatches: 12, Indels: 6
0.90 0.07 0.03
Matches are distributed among these distances:
39 37 0.24
40 117 0.76
ACGTcount: A:0.27, C:0.25, G:0.22, T:0.25
Consensus pattern (40 bp):
TCGGGACTTAGCCCGGAATTAGTAACTCGCACAAATGCCT
Found at i:235857428 original size:79 final size:79
Alignment explanation
Indices: 235857323--235857525 Score: 284
Period size: 79 Copynumber: 2.5 Consensus size: 79
235857313 GCCGTCGGGT
*
235857323 CTTAGCCCGGATATGGTCACTAGCACAAATGCCTTCGGGACTTAGCCCGG-ATATAGTAACTCGC
1 CTTAGCCCGGA-ATTGTCACTAGCACAAATGCCTTCGGGACTTAGCCCGGAAT-TAGTAACTCGC
235857387 ACAAATGCC-TTCGGA
64 ACAAATGCCTTTCGGA
* *
235857402 CTTAGCCCGGAATTAGTAACTCGCACAAATGCCTTCGGGACTTAGCCCGGAATTAGTAACTCGCA
1 CTTAGCCCGGAATT-GTCACTAGCACAAATGCCTTCGGGACTTAGCCCGGAATTAGTAACTCGCA
*
235857467 CAAATGCCTTTGGGA
65 CAAATGCCTTTCGGA
** * *
235857482 CTTAGCTTGGAATTGATCACTAGCACAAATGTCTTCAGGACTTA
1 CTTAGCCCGGAATTG-TCACTAGCACAAATGCCTTCGGGACTTA
235857526 ACCCCGTTAG
Statistics
Matches: 110, Mismatches: 10, Indels: 7
0.87 0.08 0.06
Matches are distributed among these distances:
78 2 0.02
79 65 0.59
80 43 0.39
ACGTcount: A:0.28, C:0.26, G:0.22, T:0.25
Consensus pattern (79 bp):
CTTAGCCCGGAATTGTCACTAGCACAAATGCCTTCGGGACTTAGCCCGGAATTAGTAACTCGCAC
AAATGCCTTTCGGA
Found at i:235865824 original size:28 final size:28
Alignment explanation
Indices: 235865784--235865845 Score: 106
Period size: 28 Copynumber: 2.2 Consensus size: 28
235865774 ATGTACTAGA
*
235865784 ATACCCCTATGTATGCAAAATTACCATT
1 ATACCCCTATGTATGCAAAATGACCATT
*
235865812 ATACCCCTATGTATGCAAAATGACCTTT
1 ATACCCCTATGTATGCAAAATGACCATT
235865840 ATACCC
1 ATACCC
235865846 TAGGGTTAAT
Statistics
Matches: 32, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
28 32 1.00
ACGTcount: A:0.34, C:0.27, G:0.08, T:0.31
Consensus pattern (28 bp):
ATACCCCTATGTATGCAAAATGACCATT
Found at i:235866011 original size:27 final size:27
Alignment explanation
Indices: 235865953--235866042 Score: 119
Period size: 28 Copynumber: 3.2 Consensus size: 27
235865943 AGGAAGCGTC
235865953 CTGGTGGCTA-TGCCACAAATTATCTGTT
1 CTGGTGGC-ACTGCCACAAA-TATCTGTT
* *
235865981 CTGGTGGCCCTGCCACATATATCTGTT
1 CTGGTGGCACTGCCACAAATATCTGTT
235866008 CTGGTGGCACTGCCACAAAATATCTGTAT
1 CTGGTGGCACTGCCAC-AAATATCTGT-T
235866037 CTGGTG
1 CTGGTG
235866043 ACTCTGTCAC
Statistics
Matches: 55, Mismatches: 4, Indels: 5
0.86 0.06 0.08
Matches are distributed among these distances:
27 23 0.42
28 25 0.45
29 7 0.13
ACGTcount: A:0.20, C:0.24, G:0.23, T:0.32
Consensus pattern (27 bp):
CTGGTGGCACTGCCACAAATATCTGTT
Found at i:235866061 original size:55 final size:56
Alignment explanation
Indices: 235865953--235866067 Score: 146
Period size: 55 Copynumber: 2.1 Consensus size: 56
235865943 AGGAAGCGTC
* *
235865953 CTGGTGGCTATGCCACAAATTATCTGTTCTGGTGGCCCTGCCACATATATCTGT-T
1 CTGGTGGCTATGCCACAAAATATCTGTTCTGGTGACCCTGCCACATATATCTGTAT
* * *
235866008 CTGGTGGC-ACTGCCACAAAATATCTGTATCTGGTGACTCTGTCACAT-TTTCTGTAT
1 CTGGTGGCTA-TGCCACAAAATATCTGT-TCTGGTGACCCTGCCACATATATCTGTAT
235866064 CTGG
1 CTGG
235866068 CAGCCATGCT
Statistics
Matches: 52, Mismatches: 5, Indels: 5
0.84 0.08 0.08
Matches are distributed among these distances:
54 1 0.02
55 30 0.58
56 21 0.40
ACGTcount: A:0.19, C:0.24, G:0.22, T:0.35
Consensus pattern (56 bp):
CTGGTGGCTATGCCACAAAATATCTGTTCTGGTGACCCTGCCACATATATCTGTAT
Found at i:235867159 original size:11 final size:10
Alignment explanation
Indices: 235867131--235867164 Score: 50
Period size: 10 Copynumber: 3.3 Consensus size: 10
235867121 AGCCTGTAAG
235867131 TATTCTGAAT
1 TATTCTGAAT
*
235867141 TTTTCTGAAT
1 TATTCTGAAT
235867151 ATATTCTGAAT
1 -TATTCTGAAT
235867162 TAT
1 TAT
235867165 CTATCTGTAC
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
10 12 0.57
11 9 0.43
ACGTcount: A:0.29, C:0.09, G:0.09, T:0.53
Consensus pattern (10 bp):
TATTCTGAAT
Found at i:235871267 original size:15 final size:15
Alignment explanation
Indices: 235871247--235871278 Score: 64
Period size: 15 Copynumber: 2.1 Consensus size: 15
235871237 GCATACACAA
235871247 TAGTTATCAGTCGAG
1 TAGTTATCAGTCGAG
235871262 TAGTTATCAGTCGAG
1 TAGTTATCAGTCGAG
235871277 TA
1 TA
235871279 TTCGAATGGC
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 17 1.00
ACGTcount: A:0.28, C:0.12, G:0.25, T:0.34
Consensus pattern (15 bp):
TAGTTATCAGTCGAG
Found at i:235874106 original size:40 final size:39
Alignment explanation
Indices: 235874049--235874233 Score: 217
Period size: 40 Copynumber: 4.6 Consensus size: 39
235874039 ATTAAATGAT
* * *
235874049 ATCCGGGCTAAGTCCCGAAGACATTTATGCTAGTAGTTAA
1 ATCCGGGCTAAGACCCGAAGGCATTTATGCAAGT-GTTAA
* * * *
235874089 ATCCGGGTTAAGACCCGAAGGCAATTATGCTAGTGACTAA
1 ATCCGGGCTAAGACCCGAAGGCATTTATGCAAGTG-TTAA
**
235874129 ATCCGGGCTAAGACCCGAAGGCATTCGTGCAAGTTGTTAA
1 ATCCGGGCTAAGACCCGAAGGCATTTATGCAAG-TGTTAA
* * **
235874169 ATCCGGGCTAATACCCGAAGGCATTTGTGCAAGTCGTTCT
1 ATCCGGGCTAAGACCCGAAGGCATTTATGCAAGT-GTTAA
235874209 ATCCGGGCTAAGACCCGAAGGCATT
1 ATCCGGGCTAAGACCCGAAGGCATT
235874234 CGTGCATGTG
Statistics
Matches: 126, Mismatches: 16, Indels: 6
0.85 0.11 0.04
Matches are distributed among these distances:
39 2 0.02
40 122 0.97
41 2 0.02
ACGTcount: A:0.28, C:0.23, G:0.25, T:0.24
Consensus pattern (39 bp):
ATCCGGGCTAAGACCCGAAGGCATTTATGCAAGTGTTAA
Found at i:235874185 original size:80 final size:80
Alignment explanation
Indices: 235874048--235874254 Score: 247
Period size: 80 Copynumber: 2.6 Consensus size: 80
235874038 AATTAAATGA
* * ** * *
235874048 TATCCGGGCTAAGTCCCGAAGACATTTATGCTAGTAGTTAAATCCGGGTTAAGACCCGAAGGCAA
1 TATCCGGGCTAAGACCCGAAGGCATTCGTGCAAGTAGTTAAATCCGGGCTAAGACCCGAAGGCAA
*
235874113 TTATGCTAGT-G-AC
66 TTATGCAAGTCGTAC
* *
235874126 TAAATCCGGGCTAAGACCCGAAGGCATTCGTGCAAGTTGTTAAATCCGGGCTAATACCCGAAGGC
1 T--ATCCGGGCTAAGACCCGAAGGCATTCGTGCAAGTAGTTAAATCCGGGCTAAGACCCGAAGGC
* * *
235874191 ATTTGTGCAAGTCGTTC
64 AATTATGCAAGTCGTAC
* * *
235874208 TATCCGGGCTAAGACCCGAAGGCATTCGTGCATGTGGTTATATCCGG
1 TATCCGGGCTAAGACCCGAAGGCATTCGTGCAAGTAGTTAAATCCGG
235874255 TTGTATTCCG
Statistics
Matches: 110, Mismatches: 15, Indels: 6
0.84 0.11 0.05
Matches are distributed among these distances:
78 1 0.01
80 106 0.96
81 1 0.01
82 2 0.02
ACGTcount: A:0.27, C:0.22, G:0.26, T:0.25
Consensus pattern (80 bp):
TATCCGGGCTAAGACCCGAAGGCATTCGTGCAAGTAGTTAAATCCGGGCTAAGACCCGAAGGCAA
TTATGCAAGTCGTAC
Found at i:235874239 original size:40 final size:39
Alignment explanation
Indices: 235874047--235874254 Score: 211
Period size: 40 Copynumber: 5.2 Consensus size: 39
235874037 CAATTAAATG
* * ** *
235874047 ATATCCGGGCTAAGTCCCGAAGACATTTATGCTAGTAGTT
1 ATATCCGGGCTAAGACCCGAAGGCATTCGTGCAAGT-GTT
* * * * *
235874087 AAATCCGGGTTAAGACCCGAAGGCAATT-ATGCTAGTGACT
1 ATATCCGGGCTAAGACCCGAAGGC-ATTCGTGCAAGTG-TT
*
235874127 AAATCCGGGCTAAGACCCGAAGGCATTCGTGCAAGTTGTT
1 ATATCCGGGCTAAGACCCGAAGGCATTCGTGCAAG-TGTT
* * *
235874167 AAATCCGGGCTAATACCCGAAGGCATTTGTGCAAGTCGTT
1 ATATCCGGGCTAAGACCCGAAGGCATTCGTGCAAGT-GTT
* *
235874207 CTATCCGGGCTAAGACCCGAAGGCATTCGTGCATGTGGTT
1 ATATCCGGGCTAAGACCCGAAGGCATTCGTGCAAGT-GTT
235874247 ATATCCGG
1 ATATCCGG
235874255 TTGTATTCCG
Statistics
Matches: 145, Mismatches: 18, Indels: 10
0.84 0.10 0.06
Matches are distributed among these distances:
39 5 0.03
40 135 0.93
41 5 0.03
ACGTcount: A:0.27, C:0.22, G:0.26, T:0.25
Consensus pattern (39 bp):
ATATCCGGGCTAAGACCCGAAGGCATTCGTGCAAGTGTT
Found at i:235876128 original size:19 final size:19
Alignment explanation
Indices: 235876104--235876142 Score: 78
Period size: 19 Copynumber: 2.1 Consensus size: 19
235876094 CGACGGATGA
235876104 AGCTGAATTTTGGTTGGAC
1 AGCTGAATTTTGGTTGGAC
235876123 AGCTGAATTTTGGTTGGAC
1 AGCTGAATTTTGGTTGGAC
235876142 A
1 A
235876143 ACACTATCCG
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
19 20 1.00
ACGTcount: A:0.23, C:0.10, G:0.31, T:0.36
Consensus pattern (19 bp):
AGCTGAATTTTGGTTGGAC
Found at i:235880614 original size:29 final size:29
Alignment explanation
Indices: 235880572--235880644 Score: 146
Period size: 29 Copynumber: 2.5 Consensus size: 29
235880562 GTGACAAGAT
235880572 TGGCACTAAGTGTGCAAGCTTGAAAAGTA
1 TGGCACTAAGTGTGCAAGCTTGAAAAGTA
235880601 TGGCACTAAGTGTGCAAGCTTGAAAAGTA
1 TGGCACTAAGTGTGCAAGCTTGAAAAGTA
235880630 TGGCACTAAGTGTGC
1 TGGCACTAAGTGTGC
235880645 GAATTTAAAT
Statistics
Matches: 44, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
29 44 1.00
ACGTcount: A:0.32, C:0.15, G:0.29, T:0.25
Consensus pattern (29 bp):
TGGCACTAAGTGTGCAAGCTTGAAAAGTA
Found at i:235880663 original size:29 final size:29
Alignment explanation
Indices: 235880631--235880703 Score: 92
Period size: 29 Copynumber: 2.5 Consensus size: 29
235880621 TGAAAAGTAT
* * *
235880631 GGCACTAAGTGTGCGAATTTAAATTATAC
1 GGCACTAAGTGTGCGAACTTAAATCACAC
* * *
235880660 GGCACTATGTGTGCGAGCTTAAATCACAT
1 GGCACTAAGTGTGCGAACTTAAATCACAC
235880689 GGCACTAAGTGTGCG
1 GGCACTAAGTGTGCG
235880704 TGATCGATTA
Statistics
Matches: 37, Mismatches: 7, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
29 37 1.00
ACGTcount: A:0.29, C:0.18, G:0.26, T:0.27
Consensus pattern (29 bp):
GGCACTAAGTGTGCGAACTTAAATCACAC
Found at i:235889487 original size:40 final size:40
Alignment explanation
Indices: 235889442--235889608 Score: 176
Period size: 40 Copynumber: 4.2 Consensus size: 40
235889432 CGGAATATAA
235889442 CCGGATATAATCACGT-GCACAAATGCCTTCGGGTCTTAGC
1 CCGGATATAATCAC-TAGCACAAATGCCTTCGGGTCTTAGC
* * * *
235889482 CCGGATAGAATAACTCGCACGAATGCCTTCGGGTCTTAGC
1 CCGGATATAATCACTAGCACAAATGCCTTCGGGTCTTAGC
** * *
235889522 CCGGATATAGCCACTAGCACAATTGCCTTCGGGTCTTAAC
1 CCGGATATAATCACTAGCACAAATGCCTTCGGGTCTTAGC
** * * * * *
235889562 CCGGATATAATTTCCAGCATAATTGTC-TCGGGGCTTAGC
1 CCGGATATAATCACTAGCACAAATGCCTTCGGGTCTTAGC
235889601 CCGGATAT
1 CCGGATAT
235889609 CATTCAATTT
Statistics
Matches: 106, Mismatches: 20, Indels: 3
0.82 0.16 0.02
Matches are distributed among these distances:
39 19 0.18
40 87 0.82
ACGTcount: A:0.25, C:0.27, G:0.23, T:0.26
Consensus pattern (40 bp):
CCGGATATAATCACTAGCACAAATGCCTTCGGGTCTTAGC
Found at i:235896682 original size:40 final size:40
Alignment explanation
Indices: 235896637--235896804 Score: 187
Period size: 40 Copynumber: 4.2 Consensus size: 40
235896627 CGGAATATAA
235896637 CCGGATATAATCACGT-GCACAAATGCCTTCGGGTCTTAGC
1 CCGGATATAATCAC-TAGCACAAATGCCTTCGGGTCTTAGC
* * * *
235896677 CCGGATAGAATAACTCGCACGAATGCCTTCGGGTCTTAGC
1 CCGGATATAATCACTAGCACAAATGCCTTCGGGTCTTAGC
** * *
235896717 CCGGATATAGCCACTAGCACAATTGCCTTCGGGTCTTAAC
1 CCGGATATAATCACTAGCACAAATGCCTTCGGGTCTTAGC
** * * *
235896757 CCGGATATAATTTC-AGCATAATTGTCCTTCGGGGCTTAGC
1 CCGGATATAATCACTAGCACAAATG-CCTTCGGGTCTTAGC
235896797 CCGGATAT
1 CCGGATAT
235896805 CATTCAATTT
Statistics
Matches: 108, Mismatches: 18, Indels: 4
0.83 0.14 0.03
Matches are distributed among these distances:
39 10 0.09
40 98 0.91
ACGTcount: A:0.24, C:0.27, G:0.23, T:0.26
Consensus pattern (40 bp):
CCGGATATAATCACTAGCACAAATGCCTTCGGGTCTTAGC
Found at i:235898194 original size:50 final size:47
Alignment explanation
Indices: 235898105--235898223 Score: 125
Period size: 48 Copynumber: 2.5 Consensus size: 47
235898095 AGATGCCGAC
* *
235898105 GCCATTTCCCAGACATGGTCTTACACTGGCTTTCATATAGTGAGGCCAAT
1 GCCATGTCCCAGACA-GGTCTTACACTGGCTGTCATATAG-G-GGCCAAT
* * *
235898155 GCCATGTCCCAGACAGGTCTTACACTGG-TGTCATCTATAGGTGTCGAT
1 GCCATGTCCCAGACAGGTCTTACACTGGCTGTCA--TATAGGGGCCAAT
*
235898203 GTCATGTCCCAGACA-GTCTTA
1 GCCATGTCCCAGACAGGTCTTA
235898224 TGCTGACACC
Statistics
Matches: 61, Mismatches: 6, Indels: 7
0.82 0.08 0.09
Matches are distributed among these distances:
47 6 0.10
48 22 0.36
49 14 0.23
50 19 0.31
ACGTcount: A:0.23, C:0.26, G:0.22, T:0.29
Consensus pattern (47 bp):
GCCATGTCCCAGACAGGTCTTACACTGGCTGTCATATAGGGGCCAAT
Found at i:235900076 original size:39 final size:40
Alignment explanation
Indices: 235899990--235900093 Score: 165
Period size: 39 Copynumber: 2.6 Consensus size: 40
235899980 AGCCCGTTTA
* *
235899990 TAGTAACTCGTACAAATGCCTTCGGGACTTAACCCGGATT
1 TAGTAACTCGCACAAATGCCTTCGGGACTTAACCCGGAAT
* *
235900030 TAGTAACTCGCACCAATGCCTTCGGG-CTTATCCCGGAAT
1 TAGTAACTCGCACAAATGCCTTCGGGACTTAACCCGGAAT
235900069 TAGTAACTCGCACAAATGCCTTCGG
1 TAGTAACTCGCACAAATGCCTTCGG
235900094 ATCTTAGTCC
Statistics
Matches: 59, Mismatches: 5, Indels: 1
0.91 0.08 0.02
Matches are distributed among these distances:
39 35 0.59
40 24 0.41
ACGTcount: A:0.26, C:0.28, G:0.20, T:0.26
Consensus pattern (40 bp):
TAGTAACTCGCACAAATGCCTTCGGGACTTAACCCGGAAT
Found at i:235900144 original size:79 final size:78
Alignment explanation
Indices: 235899990--235900145 Score: 174
Period size: 79 Copynumber: 2.0 Consensus size: 78
235899980 AGCCCGTTTA
* * *
235899990 TAGTAACTCGTACAAATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCACCAATGCCTTCGG
1 TAGTAACTCGCACAAATGCCTTCGGGACTTAACCCGGA-TTAGTAACTAGCACCAAAGCCTTCGG
* *
235900055 GCTTATCCCGGAAT
65 ACTTAGCCCGGAAT
** *
235900069 TAGTAACTCGCACAAATGCCTTC-GGATCTTAGTCCGGA-TAGGTCACTTAGCA-CAAAGCCTTC
1 TAGTAACTCGCACAAATGCCTTCGGGA-CTTAACCCGGATTA-GTAAC-TAGCACCAAAGCCTTC
235900131 AGGACTTAGCCCGGA
63 -GGACTTAGCCCGGA
235900146 CATCATTCGA
Statistics
Matches: 65, Mismatches: 8, Indels: 8
0.80 0.10 0.10
Matches are distributed among these distances:
77 2 0.03
78 16 0.25
79 47 0.72
ACGTcount: A:0.26, C:0.28, G:0.21, T:0.25
Consensus pattern (78 bp):
TAGTAACTCGCACAAATGCCTTCGGGACTTAACCCGGATTAGTAACTAGCACCAAAGCCTTCGGA
CTTAGCCCGGAAT
Found at i:235906290 original size:40 final size:40
Alignment explanation
Indices: 235906235--235906404 Score: 225
Period size: 40 Copynumber: 4.2 Consensus size: 40
235906225 AACATTGGAA
235906235 ATATATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGTTG
1 ATATATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGTTG
235906275 ATATATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGTTG
1 ATATATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGTTG
* * * *
235906315 ATATATCCGGGCTAAGACCCGAAGGCCTTTGTGCAAG-TC
1 ATATATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGTTG
* * * * * *
235906354 ACCAAATCCGGGTTATGACCCGAAGGCAATCGTGCGAGTCG
1 A-TATATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGTTG
*
235906395 CTATATCCGG
1 ATATATCCGG
235906405 TTAAATCCCG
Statistics
Matches: 111, Mismatches: 17, Indels: 4
0.84 0.13 0.03
Matches are distributed among these distances:
39 2 0.02
40 109 0.98
ACGTcount: A:0.25, C:0.25, G:0.28, T:0.22
Consensus pattern (40 bp):
ATATATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGTTG
Found at i:235914386 original size:40 final size:40
Alignment explanation
Indices: 235914331--235914500 Score: 225
Period size: 40 Copynumber: 4.2 Consensus size: 40
235914321 AACATTGGAA
235914331 ATATATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGTTG
1 ATATATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGTTG
235914371 ATATATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGTTG
1 ATATATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGTTG
* * * *
235914411 ATATATCCGGGCTAAGACCCGAAGGCCTTTGTGCAAG-TC
1 ATATATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGTTG
* * * * * *
235914450 ACCAAATCCGGGTTATGACCCGAAGGCAATCGTGCGAGTCG
1 A-TATATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGTTG
*
235914491 CTATATCCGG
1 ATATATCCGG
235914501 TTAAATCCCG
Statistics
Matches: 111, Mismatches: 17, Indels: 4
0.84 0.13 0.03
Matches are distributed among these distances:
39 2 0.02
40 109 0.98
ACGTcount: A:0.25, C:0.25, G:0.28, T:0.22
Consensus pattern (40 bp):
ATATATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGTTG
Found at i:235921581 original size:25 final size:25
Alignment explanation
Indices: 235921552--235921599 Score: 69
Period size: 25 Copynumber: 1.9 Consensus size: 25
235921542 CCTTATAATG
* * *
235921552 AAAATGACCGTTTTGCCCCTAGGTA
1 AAAATGACCATTATACCCCTAGGTA
235921577 AAAATGACCATTATACCCCTAGG
1 AAAATGACCATTATACCCCTAGG
235921600 GTTTATGTAT
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
25 20 1.00
ACGTcount: A:0.33, C:0.25, G:0.17, T:0.25
Consensus pattern (25 bp):
AAAATGACCATTATACCCCTAGGTA
Found at i:235921683 original size:11 final size:11
Alignment explanation
Indices: 235921647--235921702 Score: 57
Period size: 11 Copynumber: 5.5 Consensus size: 11
235921637 TATGGTATGT
235921647 ATGATATGCAC
1 ATGATATGCAC
* *
235921658 ATGACATG--T
1 ATGATATGCAC
235921667 ATGATATGCAC
1 ATGATATGCAC
*
235921678 ATGATATG--T
1 ATGATATGCAC
235921687 ATGATATGCAC
1 ATGATATGCAC
235921698 ATGAT
1 ATGAT
235921703 GTAATCATAA
Statistics
Matches: 35, Mismatches: 6, Indels: 8
0.71 0.12 0.16
Matches are distributed among these distances:
9 15 0.43
11 20 0.57
ACGTcount: A:0.36, C:0.12, G:0.20, T:0.32
Consensus pattern (11 bp):
ATGATATGCAC
Found at i:235921702 original size:20 final size:20
Alignment explanation
Indices: 235921642--235921702 Score: 113
Period size: 20 Copynumber: 3.0 Consensus size: 20
235921632 ATAAATATGG
235921642 TATGTATGATATGCACATGA
1 TATGTATGATATGCACATGA
*
235921662 CATGTATGATATGCACATGA
1 TATGTATGATATGCACATGA
235921682 TATGTATGATATGCACATGA
1 TATGTATGATATGCACATGA
235921702 T
1 T
235921703 GTAATCATAA
Statistics
Matches: 39, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
20 39 1.00
ACGTcount: A:0.34, C:0.11, G:0.20, T:0.34
Consensus pattern (20 bp):
TATGTATGATATGCACATGA
Found at i:235921779 original size:24 final size:24
Alignment explanation
Indices: 235921752--235921894 Score: 209
Period size: 24 Copynumber: 6.0 Consensus size: 24
235921742 GAGGAAGTGA
235921752 AAAAGGGCTTATGCCCCAGTTATC
1 AAAAGGGCTTATGCCCCAGTTATC
235921776 AAAAGGGCTTATGCCCCAGTTATC
1 AAAAGGGCTTATGCCCCAGTTATC
235921800 AAAAGGGCTTATGCCCCAGTTAT-
1 AAAAGGGCTTATGCCCCAGTTATC
*
235921823 AAAAGGGCTTATGCCCCAGTTATT
1 AAAAGGGCTTATGCCCCAGTTATC
* * *
235921847 GAAAGGGCTTTTGCCCCAGTTATT
1 AAAAGGGCTTATGCCCCAGTTATC
*
235921871 AAAAGAGGC-TAGGCCTCCAGTTAT
1 AAAAG-GGCTTATGCC-CCAGTTAT
235921895 ATGATAAAGC
Statistics
Matches: 111, Mismatches: 5, Indels: 5
0.92 0.04 0.04
Matches are distributed among these distances:
23 23 0.21
24 77 0.69
25 11 0.10
ACGTcount: A:0.29, C:0.22, G:0.22, T:0.27
Consensus pattern (24 bp):
AAAAGGGCTTATGCCCCAGTTATC
Found at i:235921845 original size:47 final size:47
Alignment explanation
Indices: 235921752--235921894 Score: 207
Period size: 47 Copynumber: 3.0 Consensus size: 47
235921742 GAGGAAGTGA
235921752 AAAAGGGCTTATGCCCCAGTTATCAAAAGGGCTTATGCCCCAGTTATC
1 AAAAGGGCTTATGCCCCAGTTAT-AAAAGGGCTTATGCCCCAGTTATC
*
235921800 AAAAGGGCTTATGCCCCAGTTATAAAAGGGCTTATGCCCCAGTTATT
1 AAAAGGGCTTATGCCCCAGTTATAAAAGGGCTTATGCCCCAGTTATC
* * *
235921847 GAAAGGGCTTTTGCCCCAGTTATTAAAAGAGGC-TAGGCCTCCAGTTAT
1 AAAAGGGCTTATGCCCCAGTTA-TAAAAG-GGCTTATGCC-CCAGTTAT
235921895 ATGATAAAGC
Statistics
Matches: 88, Mismatches: 4, Indels: 5
0.91 0.04 0.05
Matches are distributed among these distances:
47 43 0.49
48 34 0.39
49 11 0.12
ACGTcount: A:0.29, C:0.22, G:0.22, T:0.27
Consensus pattern (47 bp):
AAAAGGGCTTATGCCCCAGTTATAAAAGGGCTTATGCCCCAGTTATC
Found at i:235921868 original size:71 final size:72
Alignment explanation
Indices: 235921752--235921895 Score: 220
Period size: 71 Copynumber: 2.0 Consensus size: 72
235921742 GAGGAAGTGA
*
235921752 AAAAGGGCTTATGCCCCAGTTATCAAAAGGGCTTATGCCCCAGTTATCAAAAG-GGCTTATGCC-
1 AAAAGGGCTTATGCCCCAGTTATCAAAAGGGCTTATGCCCCAGTTATCAAAAGAGGC-TAGGCCT
235921815 CCAGTTAT
65 CCAGTTAT
** * *
235921823 AAAAGGGCTTATGCCCCAGTTATTGAAAGGGCTTTTGCCCCAGTTATTAAAAGAGGCTAGGCCTC
1 AAAAGGGCTTATGCCCCAGTTATCAAAAGGGCTTATGCCCCAGTTATCAAAAGAGGCTAGGCCTC
235921888 CAGTTAT
66 CAGTTAT
235921895 A
1 A
235921896 TGATAAAGCA
Statistics
Matches: 66, Mismatches: 5, Indels: 3
0.89 0.07 0.04
Matches are distributed among these distances:
71 54 0.82
72 12 0.18
ACGTcount: A:0.29, C:0.22, G:0.22, T:0.26
Consensus pattern (72 bp):
AAAAGGGCTTATGCCCCAGTTATCAAAAGGGCTTATGCCCCAGTTATCAAAAGAGGCTAGGCCTC
CAGTTAT
Found at i:235922145 original size:30 final size:31
Alignment explanation
Indices: 235922085--235922147 Score: 101
Period size: 31 Copynumber: 2.1 Consensus size: 31
235922075 CGTTTACAGT
235922085 AAAGGCTTCGGCCCAGTAATATGAAATATGA
1 AAAGGCTTCGGCCCAGTAATATGAAATATGA
**
235922116 AAAGGCTTCGGCCCAGTGTTATG-AATATGA
1 AAAGGCTTCGGCCCAGTAATATGAAATATGA
235922146 AA
1 AA
235922148 TATGAAAAGG
Statistics
Matches: 30, Mismatches: 2, Indels: 1
0.91 0.06 0.03
Matches are distributed among these distances:
30 9 0.30
31 21 0.70
ACGTcount: A:0.37, C:0.16, G:0.24, T:0.24
Consensus pattern (31 bp):
AAAGGCTTCGGCCCAGTAATATGAAATATGA
Found at i:235929682 original size:25 final size:25
Alignment explanation
Indices: 235929653--235929700 Score: 69
Period size: 25 Copynumber: 1.9 Consensus size: 25
235929643 CCTTATAATG
* * *
235929653 AAAATGACCGTTTTGCCCCTAGGTA
1 AAAATGACCATTATACCCCTAGGTA
235929678 AAAATGACCATTATACCCCTAGG
1 AAAATGACCATTATACCCCTAGG
235929701 GTTTATGTAT
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
25 20 1.00
ACGTcount: A:0.33, C:0.25, G:0.17, T:0.25
Consensus pattern (25 bp):
AAAATGACCATTATACCCCTAGGTA
Found at i:235929781 original size:11 final size:11
Alignment explanation
Indices: 235929748--235929801 Score: 55
Period size: 11 Copynumber: 5.4 Consensus size: 11
235929738 TATGGTATGT
235929748 ATGATATGCAC
1 ATGATATGCAC
*
235929759 ATGA-ATG--T
1 ATGATATGCAC
235929767 ATGATATGCAC
1 ATGATATGCAC
*
235929778 ATGATATG--T
1 ATGATATGCAC
235929787 ATGATATGCAC
1 ATGATATGCAC
235929798 ATGA
1 ATGA
235929802 GGTAATCATA
Statistics
Matches: 34, Mismatches: 4, Indels: 10
0.71 0.08 0.21
Matches are distributed among these distances:
8 4 0.12
9 11 0.32
10 3 0.09
11 16 0.47
ACGTcount: A:0.37, C:0.11, G:0.20, T:0.31
Consensus pattern (11 bp):
ATGATATGCAC
Found at i:235929788 original size:20 final size:20
Alignment explanation
Indices: 235929743--235929801 Score: 111
Period size: 19 Copynumber: 3.0 Consensus size: 20
235929733 ATAAATATGG
235929743 TATGTATGATATGCACATGA
1 TATGTATGATATGCACATGA
235929763 -ATGTATGATATGCACATGA
1 TATGTATGATATGCACATGA
235929782 TATGTATGATATGCACATGA
1 TATGTATGATATGCACATGA
235929802 GGTAATCATA
Statistics
Matches: 38, Mismatches: 0, Indels: 2
0.95 0.00 0.05
Matches are distributed among these distances:
19 19 0.50
20 19 0.50
ACGTcount: A:0.36, C:0.10, G:0.20, T:0.34
Consensus pattern (20 bp):
TATGTATGATATGCACATGA
Found at i:235929879 original size:24 final size:24
Alignment explanation
Indices: 235929852--235929970 Score: 170
Period size: 24 Copynumber: 5.0 Consensus size: 24
235929842 GAGGAAGTGA
*
235929852 AAAAGGGCTTATGCCCCAGTTATC
1 AAAAGGGCTTATGCCCCAGTTATT
235929876 AAAAGGGCTTATGCCCCAGTTA-T
1 AAAAGGGCTTATGCCCCAGTTATT
235929899 AAAAGGGCTTATGCCCCAGTTATT
1 AAAAGGGCTTATGCCCCAGTTATT
* *
235929923 GAAAGGGCTTTTGCCCCAGTTATT
1 AAAAGGGCTTATGCCCCAGTTATT
*
235929947 AAAAGAGGC-TAGGCCTCCAGTTAT
1 AAAAG-GGCTTATGCC-CCAGTTAT
235929971 ATGATAAAGC
Statistics
Matches: 86, Mismatches: 6, Indels: 5
0.89 0.06 0.05
Matches are distributed among these distances:
23 22 0.26
24 53 0.62
25 11 0.13
ACGTcount: A:0.29, C:0.22, G:0.23, T:0.27
Consensus pattern (24 bp):
AAAAGGGCTTATGCCCCAGTTATT
Found at i:235929921 original size:47 final size:48
Alignment explanation
Indices: 235929852--235929970 Score: 170
Period size: 47 Copynumber: 2.5 Consensus size: 48
235929842 GAGGAAGTGA
235929852 AAAAGGGCTTATGCCCCAGTTATCAAAAGGGCTTATGCCCCAGTTA-T
1 AAAAGGGCTTATGCCCCAGTTATCAAAAGGGCTTATGCCCCAGTTATT
** *
235929899 AAAAGGGCTTATGCCCCAGTTATTGAAAGGGCTTTTGCCCCAGTTATT
1 AAAAGGGCTTATGCCCCAGTTATCAAAAGGGCTTATGCCCCAGTTATT
*
235929947 AAAAGAGGC-TAGGCCTCCAGTTAT
1 AAAAG-GGCTTATGCC-CCAGTTAT
235929971 ATGATAAAGC
Statistics
Matches: 65, Mismatches: 4, Indels: 4
0.89 0.05 0.05
Matches are distributed among these distances:
47 43 0.66
48 11 0.17
49 11 0.17
ACGTcount: A:0.29, C:0.22, G:0.23, T:0.27
Consensus pattern (48 bp):
AAAAGGGCTTATGCCCCAGTTATCAAAAGGGCTTATGCCCCAGTTATT
Found at i:235930222 original size:30 final size:31
Alignment explanation
Indices: 235930162--235930224 Score: 101
Period size: 31 Copynumber: 2.1 Consensus size: 31
235930152 CGTTTACAGT
235930162 AAAGGCTTCGGCCCAGTAATATGAAATATGA
1 AAAGGCTTCGGCCCAGTAATATGAAATATGA
**
235930193 AAAGGCTTCGGCCCAGTGTTATG-AATATGA
1 AAAGGCTTCGGCCCAGTAATATGAAATATGA
235930223 AA
1 AA
235930225 TATGAAAAGG
Statistics
Matches: 30, Mismatches: 2, Indels: 1
0.91 0.06 0.03
Matches are distributed among these distances:
30 9 0.30
31 21 0.70
ACGTcount: A:0.37, C:0.16, G:0.24, T:0.24
Consensus pattern (31 bp):
AAAGGCTTCGGCCCAGTAATATGAAATATGA
Found at i:235936685 original size:27 final size:27
Alignment explanation
Indices: 235936655--235936762 Score: 96
Period size: 27 Copynumber: 3.9 Consensus size: 27
235936645 GTAAATCTAC
235936655 AAACCAAGGGTATTTCAGTAATTTTGT
1 AAACCAAGGGTATTTCAGTAATTTTGT
*
235936682 AAACCAATGGTATTTCTA-TAATTTT-T
1 AAACCAAGGGTATTTC-AGTAATTTTGT
* *
235936708 AGAAAGTCAAGGGTATTTCTGTAATTTTGT
1 --AAA-CCAAGGGTATTTCAGTAATTTTGT
* **
235936738 AAATC-AGAGGTATTTTGGTAATTTT
1 AAACCAAG-GGTATTTCAGTAATTTT
235936763 ACAAATTGAG
Statistics
Matches: 68, Mismatches: 6, Indels: 14
0.77 0.07 0.16
Matches are distributed among these distances:
26 3 0.04
27 39 0.57
28 7 0.10
29 18 0.26
30 1 0.01
ACGTcount: A:0.32, C:0.08, G:0.18, T:0.42
Consensus pattern (27 bp):
AAACCAAGGGTATTTCAGTAATTTTGT
Found at i:235936804 original size:54 final size:54
Alignment explanation
Indices: 235936746--235936901 Score: 181
Period size: 54 Copynumber: 2.9 Consensus size: 54
235936736 GTAAATCAGA
* *
235936746 GGTATTTTGGTAATTTTACAAA-TTGAGGGTATTTCGGTAAGTTCACAAACCAGT
1 GGTATTTTGGTAATTTTACAAACTAG-GGGTATTTCGGTAAGTTCACAAACCAGG
* * * * *
235936800 GGTATTTCGGTAATTTTACAAACTAGGGGTATTTTGGTAATTTTACAAACTAGG
1 GGTATTTTGGTAATTTTACAAACTAGGGGTATTTCGGTAAGTTCACAAACCAGG
* * * *
235936854 GGTGTTTTGGTAATTTTACCATAC-AGGGGTATTTCAGTAATTTCACAA
1 GGTATTTTGGTAATTTTA-CAAACTAGGGGTATTTCGGTAAGTTCACAA
235936902 TCGAGGGTAA
Statistics
Matches: 87, Mismatches: 13, Indels: 4
0.84 0.12 0.04
Matches are distributed among these distances:
54 81 0.93
55 6 0.07
ACGTcount: A:0.29, C:0.11, G:0.22, T:0.38
Consensus pattern (54 bp):
GGTATTTTGGTAATTTTACAAACTAGGGGTATTTCGGTAAGTTCACAAACCAGG
Found at i:235936866 original size:81 final size:81
Alignment explanation
Indices: 235936718--235936901 Score: 203
Period size: 81 Copynumber: 2.3 Consensus size: 81
235936708 AGAAAGTCAA
* ** *
235936718 GGGTATTTCTGTAATTTTGTAAATCAGAGGTATTTTGGTAATTTTACAAATTGAGGGTATTTCGG
1 GGGTATTTCAGTAATTTTACAAATCAGAGGTATTTTGGTAATTTTACAAATAGAGGGTATTTCGG
235936783 TAAGTTCA-CAAACCAG
66 TAAGTTCACCAAA-CAG
* * * * *
235936799 TGGTATTTCGGTAATTTTACAAA-CTAGGGGTATTTTGGTAATTTTACAAACTAG-GGGTGTTTT
1 GGGTATTTCAGTAATTTTACAAATC-AGAGGTATTTTGGTAATTTTACAAA-TAGAGGGTATTTC
* * *
235936862 GGTAATTTTACCATACAG
64 GGTAAGTTCACCAAACAG
*
235936880 GGGTATTTCAGTAATTTCACAA
1 GGGTATTTCAGTAATTTTACAA
235936902 TCGAGGGTAA
Statistics
Matches: 86, Mismatches: 14, Indels: 6
0.81 0.13 0.06
Matches are distributed among these distances:
80 1 0.01
81 80 0.93
82 5 0.06
ACGTcount: A:0.29, C:0.10, G:0.22, T:0.39
Consensus pattern (81 bp):
GGGTATTTCAGTAATTTTACAAATCAGAGGTATTTTGGTAATTTTACAAATAGAGGGTATTTCGG
TAAGTTCACCAAACAG
Found at i:235936908 original size:27 final size:27
Alignment explanation
Indices: 235936718--235936908 Score: 163
Period size: 27 Copynumber: 7.1 Consensus size: 27
235936708 AGAAAGTCAA
* **
235936718 GGGTATTTCTGTAATTTTGTAAATC-AG
1 GGGTATTTCGGTAATTTTACAAA-CGAG
* * *
235936745 AGGTATTTTGGTAATTTTACAAATTGA-
1 GGGTATTTCGGTAATTTTACAAA-CGAG
* * *
235936772 GGGTATTTCGGTAAGTTCACAAACCAG
1 GGGTATTTCGGTAATTTTACAAACGAG
* *
235936799 TGGTATTTCGGTAATTTTACAAACTAG
1 GGGTATTTCGGTAATTTTACAAACGAG
* *
235936826 GGGTATTTTGGTAATTTTACAAACTAG
1 GGGTATTTCGGTAATTTTACAAACGAG
* * *
235936853 GGGTGTTTTGGTAATTTTACCATAC-AG
1 GGGTATTTCGGTAATTTTA-CAAACGAG
* * *
235936880 GGGTATTTCAGTAATTTCACAATCGAG
1 GGGTATTTCGGTAATTTTACAAACGAG
235936907 GG
1 GG
235936909 TAAAATGGTA
Statistics
Matches: 134, Mismatches: 26, Indels: 8
0.80 0.15 0.05
Matches are distributed among these distances:
26 4 0.03
27 125 0.93
28 5 0.04
ACGTcount: A:0.28, C:0.10, G:0.23, T:0.38
Consensus pattern (27 bp):
GGGTATTTCGGTAATTTTACAAACGAG
Found at i:235937017 original size:81 final size:81
Alignment explanation
Indices: 235936900--235937070 Score: 231
Period size: 81 Copynumber: 2.1 Consensus size: 81
235936890 GTAATTTCAC
* * * *
235936900 AATCGAGGGTAAAATGGTAATTTTGTAAACAGAGGGTAAAATGGTAATTTTGTAAA-CAGAGGGT
1 AATCGAGGGTAAAATGGTAATTCTATAAACAGAGGGTAAAACGATAATTTTGTAAATC-GAGGGT
*
235936964 AAAACGGTAATTCTATA
65 AAAACGGTAATTATATA
*
235936981 AATCGAGGGTAAAATGGTAATTCTATAAATTA-AGGGTAAAACGATAATTTTGTAAATCGAGGGT
1 AATCGAGGGTAAAATGGTAATTCTATAAA-CAGAGGGTAAAACGATAATTTTGTAAATCGAGGGT
* *
235937045 GAAACGGTAATTATGTA
65 AAAACGGTAATTATATA
235937062 AATCG-GGGT
1 AATCGAGGGT
235937071 GACACCCTAA
Statistics
Matches: 80, Mismatches: 8, Indels: 5
0.86 0.09 0.05
Matches are distributed among these distances:
80 4 0.05
81 74 0.93
82 2 0.03
ACGTcount: A:0.40, C:0.06, G:0.25, T:0.29
Consensus pattern (81 bp):
AATCGAGGGTAAAATGGTAATTCTATAAACAGAGGGTAAAACGATAATTTTGTAAATCGAGGGTA
AAACGGTAATTATATA
Found at i:235937066 original size:27 final size:27
Alignment explanation
Indices: 235936900--235937070 Score: 195
Period size: 27 Copynumber: 6.4 Consensus size: 27
235936890 GTAATTTCAC
*
235936900 AATCGAGGGTAAAATGGTAATTTTGTA
1 AATCGAGGGTAAAACGGTAATTTTGTA
*
235936927 AA-CAGAGGGTAAAATGGTAATTTTGTA
1 AATC-GAGGGTAAAACGGTAATTTTGTA
* *
235936954 AA-CAGAGGGTAAAACGGTAATTCTATA
1 AATC-GAGGGTAAAACGGTAATTTTGTA
* * *
235936981 AATCGAGGGTAAAATGGTAATTCTATA
1 AATCGAGGGTAAAACGGTAATTTTGTA
** *
235937008 AATTAAGGGTAAAACGATAATTTTGTA
1 AATCGAGGGTAAAACGGTAATTTTGTA
* *
235937035 AATCGAGGGTGAAACGGTAATTATGTA
1 AATCGAGGGTAAAACGGTAATTTTGTA
235937062 AATCG-GGGT
1 AATCGAGGGT
235937071 GACACCCTAA
Statistics
Matches: 127, Mismatches: 15, Indels: 5
0.86 0.10 0.03
Matches are distributed among these distances:
26 5 0.04
27 121 0.95
28 1 0.01
ACGTcount: A:0.40, C:0.06, G:0.25, T:0.29
Consensus pattern (27 bp):
AATCGAGGGTAAAACGGTAATTTTGTA
Found at i:235937081 original size:26 final size:27
Alignment explanation
Indices: 235937025--235937082 Score: 73
Period size: 27 Copynumber: 2.2 Consensus size: 27
235937015 GGTAAAACGA
* **
235937025 TAATTTTGTAAATCGAGGGTGAAACGG
1 TAATTATGTAAATCGAGGGTGAAACCC
*
235937052 TAATTATGTAAATCG-GGGTGACACCC
1 TAATTATGTAAATCGAGGGTGAAACCC
235937078 TAATT
1 TAATT
235937083 TGACCCTAGT
Statistics
Matches: 27, Mismatches: 4, Indels: 1
0.84 0.12 0.03
Matches are distributed among these distances:
26 13 0.48
27 14 0.52
ACGTcount: A:0.33, C:0.12, G:0.24, T:0.31
Consensus pattern (27 bp):
TAATTATGTAAATCGAGGGTGAAACCC
Found at i:235939476 original size:46 final size:46
Alignment explanation
Indices: 235939245--235939472 Score: 429
Period size: 46 Copynumber: 5.0 Consensus size: 46
235939235 AGTTAAATAT
235939245 ATATATGTGTGGTAAAGCCAAATGGCTAGTGTGAAATATGTATGTG
1 ATATATGTGTGGTAAAGCCAAATGGCTAGTGTGAAATATGTATGTG
235939291 ATATATGTGTGGTAAAGCCAAATGGCTAGTGTGAAATATGTATGTG
1 ATATATGTGTGGTAAAGCCAAATGGCTAGTGTGAAATATGTATGTG
235939337 ATATATGTGTGGTAAAGCCAAATGGCTAGTGTGAAATATGTATGTG
1 ATATATGTGTGGTAAAGCCAAATGGCTAGTGTGAAATATGTATGTG
*
235939383 ATATATGTGTGGTAAAGCCAAATGGCTAGTGTGAAATATGTATGAG
1 ATATATGTGTGGTAAAGCCAAATGGCTAGTGTGAAATATGTATGTG
* *
235939429 ATATATGTGTGGTAAAGCCAAATGGCTAGTATGAAACATGTATG
1 ATATATGTGTGGTAAAGCCAAATGGCTAGTGTGAAATATGTATG
235939473 AGATGTATAT
Statistics
Matches: 179, Mismatches: 3, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
46 179 1.00
ACGTcount: A:0.34, C:0.07, G:0.28, T:0.32
Consensus pattern (46 bp):
ATATATGTGTGGTAAAGCCAAATGGCTAGTGTGAAATATGTATGTG
Found at i:235939530 original size:47 final size:47
Alignment explanation
Indices: 235939476--235939586 Score: 168
Period size: 47 Copynumber: 2.4 Consensus size: 47
235939466 ATGTATGAGA
* * *
235939476 TGTATATATGTGATAAGGCCGAATGGCCGATGTGATGAATGTCAAAG
1 TGTATATATGTGATAAGGCCGAATGGCCAATGCGATGAATATCAAAG
* *
235939523 TGTATATAAGTGATAAGGCCGAATGGCCAATGCGATGAATATGAAAG
1 TGTATATATGTGATAAGGCCGAATGGCCAATGCGATGAATATCAAAG
*
235939570 TGTATAAATGTGATAAG
1 TGTATATATGTGATAAG
235939587 TCCCGAGGGG
Statistics
Matches: 57, Mismatches: 7, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
47 57 1.00
ACGTcount: A:0.36, C:0.09, G:0.28, T:0.27
Consensus pattern (47 bp):
TGTATATATGTGATAAGGCCGAATGGCCAATGCGATGAATATCAAAG
Found at i:235942253 original size:40 final size:40
Alignment explanation
Indices: 235942146--235942408 Score: 429
Period size: 40 Copynumber: 6.6 Consensus size: 40
235942136 CTCGACGATG
*
235942146 ATCCGGGCTAAGTCCCGAAGAGCATTCGTGCTAGTGATAT
1 ATCCGGGCTAAGTTCCGAAGAGCATTCGTGCTAGTGATAT
235942186 ATCCGGGCTAAG-TCCGAAGAGCATTCGTGCTAGTGATAT
1 ATCCGGGCTAAGTTCCGAAGAGCATTCGTGCTAGTGATAT
235942225 ATCCGGGCTAAGTTCCGAAGAGCATTCGTGCTAGTGATAT
1 ATCCGGGCTAAGTTCCGAAGAGCATTCGTGCTAGTGATAT
* **
235942265 ATCCGGGCTAAGTTCCGAAGAGCATTCATGCTAGTGACGT
1 ATCCGGGCTAAGTTCCGAAGAGCATTCGTGCTAGTGATAT
* *
235942305 ATCCGGACTAAGTTCCGAAGAGCATTCGTGCTAGTGATGT
1 ATCCGGGCTAAGTTCCGAAGAGCATTCGTGCTAGTGATAT
* *
235942345 ATCCGGACTAAGTTCCGAAGAGCATTCGTGCTAGTGATGT
1 ATCCGGGCTAAGTTCCGAAGAGCATTCGTGCTAGTGATAT
* *
235942385 ATCCGGGCTAGGTCCCGAAGAGCA
1 ATCCGGGCTAAGTTCCGAAGAGCA
235942409 ATCATGCTGG
Statistics
Matches: 212, Mismatches: 10, Indels: 2
0.95 0.04 0.01
Matches are distributed among these distances:
39 38 0.18
40 174 0.82
ACGTcount: A:0.25, C:0.22, G:0.28, T:0.25
Consensus pattern (40 bp):
ATCCGGGCTAAGTTCCGAAGAGCATTCGTGCTAGTGATAT
Found at i:235943136 original size:40 final size:40
Alignment explanation
Indices: 235943072--235943172 Score: 107
Period size: 40 Copynumber: 2.5 Consensus size: 40
235943062 AATGGTATCT
* ** * *
235943072 GGGCTAAGTCCCGAAGGCTTTTGTGCGAGTTACTA-AATCC
1 GGGCTAATTCCCGAAGGCAATTGTGCGAATCACTATAA-CC
*
235943112 GGGCTAATTCCCGAAGGCAATTGTGTGAATCACTATAACC
1 GGGCTAATTCCCGAAGGCAATTGTGCGAATCACTATAACC
*
235943152 GGGCT-ATGTCCCGAAGACAAT
1 GGGCTAAT-TCCCGAAGGCAAT
235943173 CGAGTGAGTC
Statistics
Matches: 52, Mismatches: 7, Indels: 4
0.83 0.11 0.06
Matches are distributed among these distances:
39 2 0.04
40 48 0.92
41 2 0.04
ACGTcount: A:0.27, C:0.23, G:0.26, T:0.25
Consensus pattern (40 bp):
GGGCTAATTCCCGAAGGCAATTGTGCGAATCACTATAACC
Found at i:235943188 original size:40 final size:40
Alignment explanation
Indices: 235943110--235943206 Score: 99
Period size: 40 Copynumber: 2.5 Consensus size: 40
235943100 GTTACTAAAT
* * *
235943110 CCGGGCTAATTCCCGAAGGCAATTGTGTGAATCACTATAA
1 CCGGGCTAATTCCCGAAGACAATCGAGTGAATCACTATAA
* * *
235943150 CCGGGCT-ATGTCCCGAAGACAATCGAGTGAGTCGCTATAT
1 CCGGGCTAAT-TCCCGAAGACAATCGAGTGAATCACTATAA
* *
235943190 CC-GGTTAAATCCCGAAG
1 CCGGGCTAATTCCCGAAG
235943207 GTACGTGATT
Statistics
Matches: 47, Mismatches: 8, Indels: 5
0.78 0.13 0.08
Matches are distributed among these distances:
39 13 0.28
40 34 0.72
ACGTcount: A:0.28, C:0.25, G:0.25, T:0.23
Consensus pattern (40 bp):
CCGGGCTAATTCCCGAAGACAATCGAGTGAATCACTATAA
Found at i:235945924 original size:46 final size:46
Alignment explanation
Indices: 235945873--235946054 Score: 337
Period size: 46 Copynumber: 4.0 Consensus size: 46
235945863 AGTTAAATAT
235945873 ATATATGTGTGGTAAAGCCAAATGGCTAGTGTGAAATATGTATGTG
1 ATATATGTGTGGTAAAGCCAAATGGCTAGTGTGAAATATGTATGTG
235945919 ATATATGTGTGGTAAAGCCAAATGGCTAGTGTGAAATATGTATGTG
1 ATATATGTGTGGTAAAGCCAAATGGCTAGTGTGAAATATGTATGTG
*
235945965 ATATATGTGTGGTAAAGCCAAATGGCTAGTGTGAAATATGTATGAG
1 ATATATGTGTGGTAAAGCCAAATGGCTAGTGTGAAATATGTATGTG
* *
235946011 ATATATGTGTGGTAAAGCCAAATGGCTAGTATGAAACATGTATG
1 ATATATGTGTGGTAAAGCCAAATGGCTAGTGTGAAATATGTATG
235946055 AGATGTATAT
Statistics
Matches: 133, Mismatches: 3, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
46 133 1.00
ACGTcount: A:0.34, C:0.07, G:0.27, T:0.31
Consensus pattern (46 bp):
ATATATGTGTGGTAAAGCCAAATGGCTAGTGTGAAATATGTATGTG
Found at i:235946112 original size:47 final size:47
Alignment explanation
Indices: 235946058--235946168 Score: 168
Period size: 47 Copynumber: 2.4 Consensus size: 47
235946048 ATGTATGAGA
* * *
235946058 TGTATATATGTGATAAGGCCGAATGGCCGATGTGATGAATGTCAAAG
1 TGTATATATGTGATAAGGCCGAATGGCCAATGCGATGAATATCAAAG
* *
235946105 TGTATATAAGTGATAAGGCCGAATGGCCAATGCGATGAATATGAAAG
1 TGTATATATGTGATAAGGCCGAATGGCCAATGCGATGAATATCAAAG
*
235946152 TGTATAAATGTGATAAG
1 TGTATATATGTGATAAG
235946169 TCCCGAGGGG
Statistics
Matches: 57, Mismatches: 7, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
47 57 1.00
ACGTcount: A:0.36, C:0.09, G:0.28, T:0.27
Consensus pattern (47 bp):
TGTATATATGTGATAAGGCCGAATGGCCAATGCGATGAATATCAAAG
Found at i:235948833 original size:40 final size:40
Alignment explanation
Indices: 235948726--235948988 Score: 429
Period size: 40 Copynumber: 6.6 Consensus size: 40
235948716 CTCGACGATG
*
235948726 ATCCGGGCTAAGTCCCGAAGAGCATTCGTGCTAGTGATAT
1 ATCCGGGCTAAGTTCCGAAGAGCATTCGTGCTAGTGATAT
235948766 ATCCGGGCTAAG-TCCGAAGAGCATTCGTGCTAGTGATAT
1 ATCCGGGCTAAGTTCCGAAGAGCATTCGTGCTAGTGATAT
235948805 ATCCGGGCTAAGTTCCGAAGAGCATTCGTGCTAGTGATAT
1 ATCCGGGCTAAGTTCCGAAGAGCATTCGTGCTAGTGATAT
* **
235948845 ATCCGGGCTAAGTTCCGAAGAGCATTCATGCTAGTGACGT
1 ATCCGGGCTAAGTTCCGAAGAGCATTCGTGCTAGTGATAT
* *
235948885 ATCCGGACTAAGTTCCGAAGAGCATTCGTGCTAGTGATGT
1 ATCCGGGCTAAGTTCCGAAGAGCATTCGTGCTAGTGATAT
* *
235948925 ATCCGGACTAAGTTCCGAAGAGCATTCGTGCTAGTGATGT
1 ATCCGGGCTAAGTTCCGAAGAGCATTCGTGCTAGTGATAT
* *
235948965 ATCCGGGCTAGGTCCCGAAGAGCA
1 ATCCGGGCTAAGTTCCGAAGAGCA
235948989 ATCATGCTGG
Statistics
Matches: 212, Mismatches: 10, Indels: 2
0.95 0.04 0.01
Matches are distributed among these distances:
39 38 0.18
40 174 0.82
ACGTcount: A:0.25, C:0.22, G:0.28, T:0.25
Consensus pattern (40 bp):
ATCCGGGCTAAGTTCCGAAGAGCATTCGTGCTAGTGATAT
Found at i:235949716 original size:40 final size:40
Alignment explanation
Indices: 235949652--235949787 Score: 116
Period size: 40 Copynumber: 3.4 Consensus size: 40
235949642 AATGGTATCT
* ** *
235949652 GGGCTAAGTCCCGAAGGCTTTTGTGCGAGTTACTAAATCC
1 GGGCTAATTCCCGAAGGCAATTGTGCGAGTCACTAAATCC
* *
235949692 GGGCTAATTCCCGAAGGCAATTGTGTGAATCACTATAA-CC
1 GGGCTAATTCCCGAAGGCAATTGTGCGAGTCACTA-AATCC
* * * * *
235949732 GGGCT-ATGTCCCGAAGACAATCGAGCGAGTCGCTATATCC
1 GGGCTAAT-TCCCGAAGGCAATTGTGCGAGTCACTAAATCC
* *
235949772 -GGTTAAATCCCGAAGG
1 GGGCTAATTCCCGAAGG
235949788 TACGTGATTC
Statistics
Matches: 76, Mismatches: 16, Indels: 9
0.75 0.16 0.09
Matches are distributed among these distances:
39 14 0.18
40 60 0.79
41 2 0.03
ACGTcount: A:0.26, C:0.24, G:0.26, T:0.24
Consensus pattern (40 bp):
GGGCTAATTCCCGAAGGCAATTGTGCGAGTCACTAAATCC
Found at i:235952506 original size:46 final size:46
Alignment explanation
Indices: 235952455--235952636 Score: 337
Period size: 46 Copynumber: 4.0 Consensus size: 46
235952445 AGTTAAATAT
235952455 ATATATGTGTGGTAAAGCCAAATGGCTAGTGTGAAATATGTATGTG
1 ATATATGTGTGGTAAAGCCAAATGGCTAGTGTGAAATATGTATGTG
235952501 ATATATGTGTGGTAAAGCCAAATGGCTAGTGTGAAATATGTATGTG
1 ATATATGTGTGGTAAAGCCAAATGGCTAGTGTGAAATATGTATGTG
*
235952547 ATATATGTGTGGTAAAGCCAAATGGCTAGTGTGAAATATGTATGAG
1 ATATATGTGTGGTAAAGCCAAATGGCTAGTGTGAAATATGTATGTG
* *
235952593 ATATATGTGTGGTAAAGCCAAATGGCTAGTATGAAACATGTATG
1 ATATATGTGTGGTAAAGCCAAATGGCTAGTGTGAAATATGTATG
235952637 AGATGTATAT
Statistics
Matches: 133, Mismatches: 3, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
46 133 1.00
ACGTcount: A:0.34, C:0.07, G:0.27, T:0.31
Consensus pattern (46 bp):
ATATATGTGTGGTAAAGCCAAATGGCTAGTGTGAAATATGTATGTG
Found at i:235952694 original size:47 final size:47
Alignment explanation
Indices: 235952640--235952750 Score: 168
Period size: 47 Copynumber: 2.4 Consensus size: 47
235952630 ATGTATGAGA
* * *
235952640 TGTATATATGTGATAAGGCCGAATGGCCGATGTGATGAATGTCAAAG
1 TGTATATATGTGATAAGGCCGAATGGCCAATGCGATGAATATCAAAG
* *
235952687 TGTATATAAGTGATAAGGCCGAATGGCCAATGCGATGAATATGAAAG
1 TGTATATATGTGATAAGGCCGAATGGCCAATGCGATGAATATCAAAG
*
235952734 TGTATAAATGTGATAAG
1 TGTATATATGTGATAAG
235952751 TCCCGAGGGG
Statistics
Matches: 57, Mismatches: 7, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
47 57 1.00
ACGTcount: A:0.36, C:0.09, G:0.28, T:0.27
Consensus pattern (47 bp):
TGTATATATGTGATAAGGCCGAATGGCCAATGCGATGAATATCAAAG
Found at i:235956683 original size:19 final size:20
Alignment explanation
Indices: 235956659--235956696 Score: 53
Period size: 19 Copynumber: 1.9 Consensus size: 20
235956649 GGTACCACCA
235956659 AAACAT-ATATCA-CATCTTT
1 AAACATCAT-TCATCATCTTT
235956678 AAACATCATTCATCATCTT
1 AAACATCATTCATCATCTT
235956697 ACCACCTTAT
Statistics
Matches: 17, Mismatches: 0, Indels: 3
0.85 0.00 0.15
Matches are distributed among these distances:
19 9 0.53
20 8 0.47
ACGTcount: A:0.39, C:0.24, G:0.00, T:0.37
Consensus pattern (20 bp):
AAACATCATTCATCATCTTT
Found at i:235975310 original size:40 final size:38
Alignment explanation
Indices: 235975251--235975492 Score: 181
Period size: 40 Copynumber: 6.2 Consensus size: 38
235975241 GATGATAACC
235975251 GGCTAAGTCCCG-AGAGCATTTGAGCTAGTGGCTA-ATTCCG
1 GGCTAAGTCCCGAAG-GCATTTG-GCTAGT-GCTATA-TCCG
* * *
235975291 GGCTAAGTCCCGAAGGCATTCGTGCGAGCTACTATATCCG
1 GGCTAAGTCCCGAAGGCATTTG-GCTAG-TGCTATATCCG
* * * **
235975331 GGCTAAGTCCCGAAGGCGTTTGTACGAGCTATTATATCCG
1 GGCTAAGTCCCGAAGGCATTTG-GCTAG-TGCTATATCCG
* * * *
235975371 GGCTAACTCTCGAAGGCATTTGTCTGAGT--TAT-TACTG
1 GGCTAAGTCCCGAAGGCATTTGGCT-AGTGCTATAT-CCG
* * *
235975408 GGCTAAGTCCCGAAGGCATTTGTGCAAGTTACTATAACCG
1 GGCTAAGTCCCGAAGGCATTTG-GCTAG-TGCTATATCCG
235975448 GGCTAAGTCCCGAAGGCATTTGAGCTAGTGGCTATATCC-
1 GGCTAAGTCCCGAAGGCATTTG-GCTAGT-GCTATATCCG
235975487 GGCTAA
1 GGCTAA
235975493 ACTCCGAAGG
Statistics
Matches: 167, Mismatches: 24, Indels: 23
0.78 0.11 0.11
Matches are distributed among these distances:
36 1 0.01
37 27 0.16
38 2 0.01
39 9 0.05
40 124 0.74
41 4 0.02
ACGTcount: A:0.24, C:0.23, G:0.27, T:0.26
Consensus pattern (38 bp):
GGCTAAGTCCCGAAGGCATTTGGCTAGTGCTATATCCG
Found at i:235975484 original size:117 final size:116
Alignment explanation
Indices: 235975290--235975502 Score: 297
Period size: 117 Copynumber: 1.8 Consensus size: 116
235975280 GGCTAATTCC
* * *
235975290 GGGCTAAGTCCCGAAGGCATTCGTGCGAGCTACTATATCCGGGCTAAGTCCCGAAGGCGTTTGTA
1 GGGCTAAGTCCCGAAGGCATTCGTGCAAGCTACTATAACCGGGCTAAGTCCCGAAGGCATTTGTA
*
235975355 CGAGCTATTATATCCGGGCT-AACTCTCGAAGGCATTTGTCTGAGTTATTACT
66 CGAGCTACTATATCC-GGCTAAACTC-CGAAGGCATTTGTCTGAGTTATTACT
* *
235975407 GGGCTAAGTCCCGAAGGCATTTGTGCAAGTTACTATAACCGGGCTAAGTCCCGAAGGCATTTG-A
1 GGGCTAAGTCCCGAAGGCATTCGTGCAAGCTACTATAACCGGGCTAAGTCCCGAAGGCATTTGTA
* *
235975471 GCTAG-TGGCTATATCCGGCTAAACTCCGAAGG
66 -CGAGCT-ACTATATCCGGCTAAACTCCGAAGG
235975503 TACTTGGTTT
Statistics
Matches: 85, Mismatches: 8, Indels: 7
0.85 0.08 0.07
Matches are distributed among these distances:
116 12 0.14
117 73 0.86
ACGTcount: A:0.24, C:0.23, G:0.27, T:0.26
Consensus pattern (116 bp):
GGGCTAAGTCCCGAAGGCATTCGTGCAAGCTACTATAACCGGGCTAAGTCCCGAAGGCATTTGTA
CGAGCTACTATATCCGGCTAAACTCCGAAGGCATTTGTCTGAGTTATTACT
Found at i:235983488 original size:40 final size:39
Alignment explanation
Indices: 235983323--235983506 Score: 138
Period size: 40 Copynumber: 4.6 Consensus size: 39
235983313 AAATTGAATG
* * *
235983323 ATATCCGGGCTAAGCCCCGAAGACAATTATGCTGGAAAT--T
1 ATATCCGGGCTAAGACCCGAAGGC-ATT-TG-TGCAAATCGT
* * * * * *
235983363 ATAACCGGGTTAAGACCCGAAGGCAATTGTGCTAGTGGCT
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCAAATCG-T
* * * * *
235983403 ACATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGTCATT
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCAAATC-GT
*
235983443 CTATCCGGGCTAAGACCCGAAGGCATTTGTGCAAATCGT
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCAAATCGT
* * *
235983482 GATATCCGGGTTAAGTCCCGTAGGC
1 -ATATCCGGGCTAAGACCCGAAGGC
235983507 CTTGGTGCGG
Statistics
Matches: 113, Mismatches: 26, Indels: 10
0.76 0.17 0.07
Matches are distributed among these distances:
37 4 0.04
38 2 0.02
39 3 0.03
40 104 0.92
ACGTcount: A:0.27, C:0.24, G:0.27, T:0.22
Consensus pattern (39 bp):
ATATCCGGGCTAAGACCCGAAGGCATTTGTGCAAATCGT
Found at i:235983531 original size:80 final size:81
Alignment explanation
Indices: 235983363--235983551 Score: 186
Period size: 80 Copynumber: 2.4 Consensus size: 81
235983353 GCTGGAAATT
* * * *
235983363 ATAACCGGGTTAAGACCCGAAGGCAATTGTGCTAGTGGCTACATCCGGGCTAAGACCCGAAGGCA
1 ATAACCGGGCTAAGACCCGAAGGCAATTGTGCAAATCGCTACATCCGGGCTAAGACCCGAAGGCA
*
235983428 TTCGTGCGAGTCATTC
66 TTCGTGCGAGTCATCC
* * * * * *
235983444 -TATCCGGGCTAAGACCCGAAGGCATTTGTGCAAATCG-TGATATCCGGGTTAAGTCCCGTAGGC
1 ATAACCGGGCTAAGACCCGAAGGCAATTGTGCAAATCGCT-ACATCCGGGCTAAGACCCGAAGGC
* * * *
235983507 CTTGGTGCGGGTTA-CC
65 ATTCGTGCGAGTCATCC
* * *
235983523 ATAACCGGGCTATGTCCCGAAGGCGATTG
1 ATAACCGGGCTAAGACCCGAAGGCAATTG
235983552 ATCGAGTAGC
Statistics
Matches: 86, Mismatches: 20, Indels: 5
0.77 0.18 0.05
Matches are distributed among these distances:
79 2 0.02
80 84 0.98
ACGTcount: A:0.23, C:0.24, G:0.30, T:0.23
Consensus pattern (81 bp):
ATAACCGGGCTAAGACCCGAAGGCAATTGTGCAAATCGCTACATCCGGGCTAAGACCCGAAGGCA
TTCGTGCGAGTCATCC
Found at i:235995504 original size:27 final size:28
Alignment explanation
Indices: 235995474--235995543 Score: 106
Period size: 27 Copynumber: 2.5 Consensus size: 28
235995464 ATAATAAGTC
*
235995474 CGCACACTTAGTGCTATATAATC-AGCT
1 CGCACACTTAGTGCTATATAATCAAACT
* *
235995501 CGCACACATAGTGCTATATAATCAAATT
1 CGCACACTTAGTGCTATATAATCAAACT
235995529 CGCACACTTAGTGCT
1 CGCACACTTAGTGCT
235995544 GTACAAATTT
Statistics
Matches: 38, Mismatches: 4, Indels: 1
0.88 0.09 0.02
Matches are distributed among these distances:
27 22 0.58
28 16 0.42
ACGTcount: A:0.31, C:0.26, G:0.14, T:0.29
Consensus pattern (28 bp):
CGCACACTTAGTGCTATATAATCAAACT
Found at i:236003409 original size:27 final size:28
Alignment explanation
Indices: 236003379--236003448 Score: 106
Period size: 27 Copynumber: 2.5 Consensus size: 28
236003369 ATAATAAGTC
*
236003379 CGCACACTTAGTGCTATATAATC-AGCT
1 CGCACACTTAGTGCTATATAATCAAACT
* *
236003406 CGCACACATAGTGCTATATAATCAAATT
1 CGCACACTTAGTGCTATATAATCAAACT
236003434 CGCACACTTAGTGCT
1 CGCACACTTAGTGCT
236003449 GTACAAATTT
Statistics
Matches: 38, Mismatches: 4, Indels: 1
0.88 0.09 0.02
Matches are distributed among these distances:
27 22 0.58
28 16 0.42
ACGTcount: A:0.31, C:0.26, G:0.14, T:0.29
Consensus pattern (28 bp):
CGCACACTTAGTGCTATATAATCAAACT
Found at i:236011254 original size:29 final size:28
Alignment explanation
Indices: 236011198--236011290 Score: 87
Period size: 29 Copynumber: 3.2 Consensus size: 28
236011188 CAATTAAGCC
*** *
236011198 GCACACACAGTGCCATACCCTTCGAGCT
1 GCACACACAGTGCCATATTTTTCCAGCT
* *
236011226 CGCACACCCAGTGCCGTATTTTTCCAGCTT
1 -GCACACACAGTGCCATATTTTTCCAGC-T
* *
236011256 GCACACATAGTGTCATATTTTTCCAGCAT
1 GCACACACAGTGCCATATTTTTCCAGC-T
236011285 GCACAC
1 GCACAC
236011291 TTAGTCTTAT
Statistics
Matches: 52, Mismatches: 11, Indels: 2
0.80 0.17 0.03
Matches are distributed among these distances:
29 51 0.98
30 1 0.02
ACGTcount: A:0.24, C:0.34, G:0.16, T:0.26
Consensus pattern (28 bp):
GCACACACAGTGCCATATTTTTCCAGCT
Found at i:236011341 original size:30 final size:29
Alignment explanation
Indices: 236011226--236011355 Score: 131
Period size: 29 Copynumber: 4.6 Consensus size: 29
236011216 CCTTCGAGCT
** * * *
236011226 CGCACACCCAGTGCCGTATTTTTCCAGCT
1 CGCACACTTAGTGCCATATATTTCCAGCA
* * * *
236011255 TGCACACATAGTGTCATATTTTTCCAGCA
1 CGCACACTTAGTGCCATATATTTCCAGCA
* *
236011284 TGCACACTTAGT--CTTATATTT-CAGCA
1 CGCACACTTAGTGCCATATATTTCCAGCA
236011310 CGCACACTTAGTGCCATATATTTCCCAGCA
1 CGCACACTTAGTGCCATATATTT-CCAGCA
236011340 CGCACACTTAGTGCCA
1 CGCACACTTAGTGCCA
236011356 ATCTCGTCAC
Statistics
Matches: 86, Mismatches: 11, Indels: 7
0.83 0.11 0.07
Matches are distributed among these distances:
26 16 0.19
27 7 0.08
28 8 0.09
29 34 0.40
30 21 0.24
ACGTcount: A:0.25, C:0.31, G:0.15, T:0.30
Consensus pattern (29 bp):
CGCACACTTAGTGCCATATATTTCCAGCA
Found at i:236019961 original size:28 final size:27
Alignment explanation
Indices: 236019898--236019967 Score: 122
Period size: 27 Copynumber: 2.6 Consensus size: 27
236019888 ATAGTGAGTC
236019898 CGCACACTTAGTGCTATATAATCAACT
1 CGCACACTTAGTGCTATATAATCAACT
*
236019925 CGCACACTTAGTGCTATATGATCAAACT
1 CGCACACTTAGTGCTATATAATC-AACT
236019953 CGCACACTTAGTGCT
1 CGCACACTTAGTGCT
236019968 GTACAAATTT
Statistics
Matches: 41, Mismatches: 1, Indels: 1
0.95 0.02 0.02
Matches are distributed among these distances:
27 22 0.54
28 19 0.46
ACGTcount: A:0.30, C:0.27, G:0.14, T:0.29
Consensus pattern (27 bp):
CGCACACTTAGTGCTATATAATCAACT
Found at i:236025125 original size:42 final size:42
Alignment explanation
Indices: 236025067--236025157 Score: 128
Period size: 42 Copynumber: 2.2 Consensus size: 42
236025057 GATGCTAGGG
* * * *
236025067 ACACACGGCCACACCACACGTTCGTACACATGGCCGTGTGTC
1 ACACACGACCAAACCACACGTCCGTACACATAGCCGTGTGTC
* *
236025109 ACACACGACCAAACCACACGTCCGTGCACATAGTCGTGTGTC
1 ACACACGACCAAACCACACGTCCGTACACATAGCCGTGTGTC
236025151 ACACACG
1 ACACACG
236025158 GTTGAGACAC
Statistics
Matches: 43, Mismatches: 6, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
42 43 1.00
ACGTcount: A:0.27, C:0.37, G:0.20, T:0.15
Consensus pattern (42 bp):
ACACACGACCAAACCACACGTCCGTACACATAGCCGTGTGTC
Found at i:236030059 original size:47 final size:47
Alignment explanation
Indices: 236029996--236030125 Score: 145
Period size: 47 Copynumber: 2.8 Consensus size: 47
236029986 GTGTGAATAA
* * * *
236029996 TACCTAGATTTGGCTACGGGCCATGGTATAGGT-TTTTAGAGAGGAGT
1 TACCTTGATTTGGCTACGGGCCATGGTATAGGTACTCT-GAGAGAAGT
* * * * *
236030043 TACCTTGACTTGGCTACGGGCCAAGGTATAGATACTCTGGGATAAGT
1 TACCTTGATTTGGCTACGGGCCATGGTATAGGTACTCTGAGAGAAGT
* *
236030090 TACCTTGATTTGGCTATGGGCCATTGTATAGGTACT
1 TACCTTGATTTGGCTACGGGCCATGGTATAGGTACT
236030126 ATAAAACAGA
Statistics
Matches: 68, Mismatches: 14, Indels: 2
0.81 0.17 0.02
Matches are distributed among these distances:
47 66 0.97
48 2 0.03
ACGTcount: A:0.23, C:0.16, G:0.28, T:0.32
Consensus pattern (47 bp):
TACCTTGATTTGGCTACGGGCCATGGTATAGGTACTCTGAGAGAAGT
Found at i:236033505 original size:40 final size:40
Alignment explanation
Indices: 236033460--236033626 Score: 185
Period size: 40 Copynumber: 4.2 Consensus size: 40
236033450 CGGAATATAA
236033460 CCGGATATAATCACGT-GCACAAATGCCTTCGGGTCTTAGC
1 CCGGATATAATCAC-TAGCACAAATGCCTTCGGGTCTTAGC
* * * * *
236033500 CCGGATAGAATAACTCGCACGAATGCCTTCGGGCCTTAGC
1 CCGGATATAATCACTAGCACAAATGCCTTCGGGTCTTAGC
* * *
236033540 CCGGATATAACCACTAGCACAATTGCCTTCGGGTCTTAAC
1 CCGGATATAATCACTAGCACAAATGCCTTCGGGTCTTAGC
** * * * *
236033580 CCGGATATAATTTCCAGCATAATTGTCTTCGGG-CTTAGC
1 CCGGATATAATCACTAGCACAAATGCCTTCGGGTCTTAGC
236033619 CCGGATAT
1 CCGGATAT
236033627 CATTCAATTT
Statistics
Matches: 107, Mismatches: 19, Indels: 3
0.83 0.15 0.02
Matches are distributed among these distances:
39 14 0.13
40 93 0.87
ACGTcount: A:0.25, C:0.28, G:0.22, T:0.26
Consensus pattern (40 bp):
CCGGATATAATCACTAGCACAAATGCCTTCGGGTCTTAGC
Found at i:236033610 original size:80 final size:79
Alignment explanation
Indices: 236033460--236033626 Score: 205
Period size: 80 Copynumber: 2.1 Consensus size: 79
236033450 CGGAATATAA
* *
236033460 CCGGATATAATCACGTGCACAAATGCCTTCGGGTCTTAGCCCGGATAGAATAACTCGCACGAATG
1 CCGGATATAACCACGTGCACAAATGCCTTCGGGTCTTAACCCGGATAGAATAACTCGCACGAATG
236033525 CCTTCGGGCCTTAGC
66 CCTTCGGG-CTTAGC
* * ** *
236033540 CCGGATATAACCAC-TAGCACAATTGCCTTCGGGTCTTAACCCGGATATAATTTC-CAGCA-TAA
1 CCGGATATAACCACGT-GCACAAATGCCTTCGGGTCTTAACCCGGATAGAATAACTC-GCACGAA
*
236033602 TTGTCTTCGGGCTTAGC
64 -TGCCTTCGGGCTTAGC
236033619 CCGGATAT
1 CCGGATAT
236033627 CATTCAATTT
Statistics
Matches: 76, Mismatches: 8, Indels: 7
0.84 0.09 0.08
Matches are distributed among these distances:
79 18 0.24
80 58 0.76
ACGTcount: A:0.25, C:0.28, G:0.22, T:0.26
Consensus pattern (79 bp):
CCGGATATAACCACGTGCACAAATGCCTTCGGGTCTTAACCCGGATAGAATAACTCGCACGAATG
CCTTCGGGCTTAGC
Found at i:236034474 original size:17 final size:19
Alignment explanation
Indices: 236034451--236034496 Score: 53
Period size: 17 Copynumber: 2.5 Consensus size: 19
236034441 AAGAAGCATG
236034451 AATCATGCTCAAGAATG-C
1 AATCATGCTCAAGAATGAC
*
236034469 -ATCATGGC-CAAGTATGAC
1 AATCAT-GCTCAAGAATGAC
236034487 AATCATGCTC
1 AATCATGCTC
236034497 CTTTTCAACT
Statistics
Matches: 23, Mismatches: 1, Indels: 7
0.74 0.03 0.23
Matches are distributed among these distances:
17 12 0.52
18 5 0.22
19 6 0.26
ACGTcount: A:0.35, C:0.24, G:0.17, T:0.24
Consensus pattern (19 bp):
AATCATGCTCAAGAATGAC
Found at i:236041513 original size:40 final size:40
Alignment explanation
Indices: 236041468--236041634 Score: 185
Period size: 40 Copynumber: 4.2 Consensus size: 40
236041458 CGGAATATAA
236041468 CCGGATATAATCACGT-GCACAAATGCCTTCGGGTCTTAGC
1 CCGGATATAATCAC-TAGCACAAATGCCTTCGGGTCTTAGC
* * * * *
236041508 CCGGATAGAATAACTCGCACGAATGCCTTCGGGCCTTAGC
1 CCGGATATAATCACTAGCACAAATGCCTTCGGGTCTTAGC
* * *
236041548 CCGGATATAACCACTAGCACAATTGCCTTCGGGTCTTAAC
1 CCGGATATAATCACTAGCACAAATGCCTTCGGGTCTTAGC
** * * * *
236041588 CCGGATATAATTTCCAGCATAATTGTCTTCGGG-CTTAGC
1 CCGGATATAATCACTAGCACAAATGCCTTCGGGTCTTAGC
236041627 CCGGATAT
1 CCGGATAT
236041635 CATTCAATTT
Statistics
Matches: 107, Mismatches: 19, Indels: 3
0.83 0.15 0.02
Matches are distributed among these distances:
39 14 0.13
40 93 0.87
ACGTcount: A:0.25, C:0.28, G:0.22, T:0.26
Consensus pattern (40 bp):
CCGGATATAATCACTAGCACAAATGCCTTCGGGTCTTAGC
Found at i:236041618 original size:80 final size:79
Alignment explanation
Indices: 236041468--236041634 Score: 205
Period size: 80 Copynumber: 2.1 Consensus size: 79
236041458 CGGAATATAA
* *
236041468 CCGGATATAATCACGTGCACAAATGCCTTCGGGTCTTAGCCCGGATAGAATAACTCGCACGAATG
1 CCGGATATAACCACGTGCACAAATGCCTTCGGGTCTTAACCCGGATAGAATAACTCGCACGAATG
236041533 CCTTCGGGCCTTAGC
66 CCTTCGGG-CTTAGC
* * ** *
236041548 CCGGATATAACCAC-TAGCACAATTGCCTTCGGGTCTTAACCCGGATATAATTTC-CAGCA-TAA
1 CCGGATATAACCACGT-GCACAAATGCCTTCGGGTCTTAACCCGGATAGAATAACTC-GCACGAA
*
236041610 TTGTCTTCGGGCTTAGC
64 -TGCCTTCGGGCTTAGC
236041627 CCGGATAT
1 CCGGATAT
236041635 CATTCAATTT
Statistics
Matches: 76, Mismatches: 8, Indels: 7
0.84 0.09 0.08
Matches are distributed among these distances:
79 18 0.24
80 58 0.76
ACGTcount: A:0.25, C:0.28, G:0.22, T:0.26
Consensus pattern (79 bp):
CCGGATATAACCACGTGCACAAATGCCTTCGGGTCTTAACCCGGATAGAATAACTCGCACGAATG
CCTTCGGGCTTAGC
Found at i:236042482 original size:17 final size:19
Alignment explanation
Indices: 236042459--236042504 Score: 53
Period size: 17 Copynumber: 2.5 Consensus size: 19
236042449 AAGAAGCATG
236042459 AATCATGCTCAAGAATG-C
1 AATCATGCTCAAGAATGAC
*
236042477 -ATCATGGC-CAAGTATGAC
1 AATCAT-GCTCAAGAATGAC
236042495 AATCATGCTC
1 AATCATGCTC
236042505 CTTTTCAACT
Statistics
Matches: 23, Mismatches: 1, Indels: 7
0.74 0.03 0.23
Matches are distributed among these distances:
17 12 0.52
18 5 0.22
19 6 0.26
ACGTcount: A:0.35, C:0.24, G:0.17, T:0.24
Consensus pattern (19 bp):
AATCATGCTCAAGAATGAC
Found at i:236047355 original size:29 final size:29
Alignment explanation
Indices: 236047296--236047452 Score: 194
Period size: 29 Copynumber: 5.4 Consensus size: 29
236047286 GACGAGATTA
236047296 GCACTAAGTGTGCATGC-GGAAATATATG
1 GCACTAAGTGTGCATGCTGGAAATATATG
236047324 GCACTAAGTGTGCATGCTGGAAATATATG
1 GCACTAAGTGTGCATGCTGGAAATATATG
236047353 GCACTAAGTGTGCATGCTGGAAATATATG
1 GCACTAAGTGTGCATGCTGGAAATATATG
* ***
236047382 GCACTAAGTGTGCGA-GCTCGAAGGGTATG
1 GCACTAAGTGTGC-ATGCTGGAAATATATG
* ** * *
236047411 GCACTATGTGTGCGGGCT-TAAATCTCATG
1 GCACTAAGTGTGCATGCTGGAAATAT-ATG
236047440 GCACTAAGTGTGC
1 GCACTAAGTGTGC
236047453 GAAATCGAGT
Statistics
Matches: 114, Mismatches: 11, Indels: 7
0.86 0.08 0.05
Matches are distributed among these distances:
28 20 0.18
29 93 0.82
30 1 0.01
ACGTcount: A:0.27, C:0.17, G:0.30, T:0.26
Consensus pattern (29 bp):
GCACTAAGTGTGCATGCTGGAAATATATG
Found at i:236055435 original size:40 final size:39
Alignment explanation
Indices: 236055399--236055505 Score: 151
Period size: 39 Copynumber: 2.7 Consensus size: 39
236055389 ATATCCGGAC
*
236055399 TAAGATCCGAAGGCGTTCGTGCGAGTTAATAAATCCGGGT
1 TAAG-TCCGAAGGCATTCGTGCGAGTTAATAAATCCGGGT
* * * *
236055439 TAAGCCCGAAGGCATTTGTGCGAGTTACTAAACCCGGGT
1 TAAGTCCGAAGGCATTCGTGCGAGTTAATAAATCCGGGT
236055478 TAAGTCCCGAAGGCATTCGTGCGAGTTA
1 TAAGT-CCGAAGGCATTCGTGCGAGTTA
236055506 CTATAACCGG
Statistics
Matches: 59, Mismatches: 7, Indels: 2
0.87 0.10 0.03
Matches are distributed among these distances:
39 34 0.58
40 25 0.42
ACGTcount: A:0.26, C:0.21, G:0.29, T:0.24
Consensus pattern (39 bp):
TAAGTCCGAAGGCATTCGTGCGAGTTAATAAATCCGGGT
Found at i:236055506 original size:40 final size:40
Alignment explanation
Indices: 236055405--236055534 Score: 183
Period size: 40 Copynumber: 3.3 Consensus size: 40
236055395 GGACTAAGAT
* * *
236055405 CCGAAGGCGTTCGTGCGAGTTAATAAATCCGGGTTAAG-C
1 CCGAAGGCATTCGTGCGAGTTACTAAACCCGGGTTAAGTC
*
236055444 CCGAAGGCATTTGTGCGAGTTACTAAACCCGGGTTAAGTC
1 CCGAAGGCATTCGTGCGAGTTACTAAACCCGGGTTAAGTC
* *
236055484 CCGAAGGCATTCGTGCGAGTTACTATAACCGGGGTT-TGTC
1 CCGAAGGCATTCGTGCGAGTTACTA-AACCCGGGTTAAGTC
236055524 CCGAAGGCATT
1 CCGAAGGCATT
236055535 TGAGCGTCGT
Statistics
Matches: 82, Mismatches: 7, Indels: 3
0.89 0.08 0.03
Matches are distributed among these distances:
39 34 0.41
40 39 0.48
41 9 0.11
ACGTcount: A:0.24, C:0.22, G:0.29, T:0.25
Consensus pattern (40 bp):
CCGAAGGCATTCGTGCGAGTTACTAAACCCGGGTTAAGTC
Found at i:236063535 original size:38 final size:39
Alignment explanation
Indices: 236063441--236063577 Score: 208
Period size: 38 Copynumber: 3.6 Consensus size: 39
236063431 GGACTAAGAT
*
236063441 CCGAAGGCGTTCGTGCGAGTTAATAAATCCGGGTTAAGC
1 CCGAAGGCATTCGTGCGAGTTAATAAATCCGGGTTAAGC
*
236063480 CC-AAGGCATTTGT-CGAGTTAATAAATCCGGGTTAAGC
1 CCGAAGGCATTCGTGCGAGTTAATAAATCCGGGTTAAGC
* *
236063517 CCGAAGGCATT-GTGCGAGTTACTAAACCCGGGTTAAGTC
1 CCGAAGGCATTCGTGCGAGTTAATAAATCCGGGTTAAG-C
236063556 CCGAAGGCATTCGTGCGAGTTA
1 CCGAAGGCATTCGTGCGAGTTA
236063578 CTATAACCGG
Statistics
Matches: 90, Mismatches: 4, Indels: 7
0.89 0.04 0.07
Matches are distributed among these distances:
37 28 0.31
38 38 0.42
39 14 0.16
40 10 0.11
ACGTcount: A:0.26, C:0.21, G:0.28, T:0.24
Consensus pattern (39 bp):
CCGAAGGCATTCGTGCGAGTTAATAAATCCGGGTTAAGC
Found at i:236063579 original size:40 final size:39
Alignment explanation
Indices: 236063441--236063606 Score: 205
Period size: 38 Copynumber: 4.3 Consensus size: 39
236063431 GGACTAAGAT
* *
236063441 CCGAAGGCGTTCGTGCGAGTTAATAAATCCGGGTTAAGC
1 CCGAAGGCATTCGTGCGAGTTAATAAACCCGGGTTAAGC
* *
236063480 CC-AAGGCATTTGT-CGAGTTAATAAATCCGGGTTAAGC
1 CCGAAGGCATTCGTGCGAGTTAATAAACCCGGGTTAAGC
*
236063517 CCGAAGGCATT-GTGCGAGTTACTAAACCCGGGTTAAGTC
1 CCGAAGGCATTCGTGCGAGTTAATAAACCCGGGTTAAG-C
* * *
236063556 CCGAAGGCATTCGTGCGAGTTACTATAACCGGGGTT-TGTC
1 CCGAAGGCATTCGTGCGAGTTAATA-AACCCGGGTTAAG-C
236063596 CCGAAGGCATT
1 CCGAAGGCATT
236063607 TGAGCTAGTC
Statistics
Matches: 116, Mismatches: 6, Indels: 9
0.89 0.05 0.07
Matches are distributed among these distances:
37 28 0.24
38 38 0.33
39 14 0.12
40 27 0.23
41 9 0.08
ACGTcount: A:0.25, C:0.22, G:0.28, T:0.25
Consensus pattern (39 bp):
CCGAAGGCATTCGTGCGAGTTAATAAACCCGGGTTAAGC
Found at i:236066214 original size:38 final size:39
Alignment explanation
Indices: 236066157--236066375 Score: 122
Period size: 40 Copynumber: 5.6 Consensus size: 39
236066147 TAATTGAATG
* * *
236066157 ATATCCGGGCTAAGTCCCGAAG-ATTTATGCTAGTAATT
1 ATATCCGGGCTAAGACCCGAAGCAATTATGCTAGTAACT
* * *
236066195 ATATCCGGGTTAAGACCCGAAGGCAATTGTGCTAGTGACT
1 ATATCCGGGCTAAGACCCGAA-GCAATTATGCTAGTAACT
* ** * ***
236066235 ACATCCGGGCTAAGACCCGAAGGC-ATTCGGCAAGTCGTT
1 ATATCCGGGCTAAGACCCGAA-GCAATTATGCTAGTAACT
* * * ***
236066274 AAATCCGGGCTAAGACCCGAAGGC-ATTCGTGCAAGTTGTT
1 ATATCCGGGCTAAGACCCGAA-GCAATT-ATGCTAGTAACT
* * * ***
236066314 AAATCCGGGCTAAGACCCGAAGGC-ATTCGTGCAAGTTGTT
1 ATATCCGGGCTAAGACCCGAA-GCAATT-ATGCTAGTAACT
*
236066354 AAATCCGGGCTAAGACCCGAAG
1 ATATCCGGGCTAAGACCCGAAG
236066376 GCATTCGTGC
Statistics
Matches: 160, Mismatches: 18, Indels: 5
0.87 0.10 0.03
Matches are distributed among these distances:
38 19 0.12
39 37 0.23
40 104 0.65
ACGTcount: A:0.28, C:0.23, G:0.26, T:0.22
Consensus pattern (39 bp):
ATATCCGGGCTAAGACCCGAAGCAATTATGCTAGTAACT
Found at i:236066241 original size:40 final size:40
Alignment explanation
Indices: 236066197--236066401 Score: 299
Period size: 40 Copynumber: 5.2 Consensus size: 40
236066187 TAGTAATTAT
* * * *
236066197 ATCCGGGTTAAGACCCGAAGGCAATT-GTGCTAG-TGACTAC
1 ATCCGGGCTAAGACCCGAAGGC-ATTCGTGCAAGTTG-TTAA
*
236066237 ATCCGGGCTAAGACCCGAAGGCATTCG-GCAAGTCGTTAA
1 ATCCGGGCTAAGACCCGAAGGCATTCGTGCAAGTTGTTAA
236066276 ATCCGGGCTAAGACCCGAAGGCATTCGTGCAAGTTGTTAA
1 ATCCGGGCTAAGACCCGAAGGCATTCGTGCAAGTTGTTAA
236066316 ATCCGGGCTAAGACCCGAAGGCATTCGTGCAAGTTGTTAA
1 ATCCGGGCTAAGACCCGAAGGCATTCGTGCAAGTTGTTAA
* * *
236066356 ATCCGGGCTAAGACCCGAAGGCATTCGTGCACGTGGTTAT
1 ATCCGGGCTAAGACCCGAAGGCATTCGTGCAAGTTGTTAA
236066396 ATCCGG
1 ATCCGG
236066402 TTGTATTCCG
Statistics
Matches: 153, Mismatches: 9, Indels: 6
0.91 0.05 0.04
Matches are distributed among these distances:
39 36 0.24
40 117 0.76
ACGTcount: A:0.26, C:0.24, G:0.28, T:0.21
Consensus pattern (40 bp):
ATCCGGGCTAAGACCCGAAGGCATTCGTGCAAGTTGTTAA
Found at i:236066295 original size:79 final size:81
Alignment explanation
Indices: 236066197--236066386 Score: 291
Period size: 79 Copynumber: 2.4 Consensus size: 81
236066187 TAGTAATTAT
* * *
236066197 ATCCGGGTTAAGACCCGAAGGCAATT-GTGCTAG-TGACTACATCCGGGCTAAGACCCGAAGGCA
1 ATCCGGGCTAAGACCCGAAGGCAATTCGTGCAAGTTG-CTAAATCCGGGCTAAGACCCGAAGGCA
236066260 TTCG-GCAAGTCGTTAA
65 TTCGTGCAAGTCGTTAA
*
236066276 ATCCGGGCTAAGACCCGAAGGC-ATTCGTGCAAGTTGTTAAATCCGGGCTAAGACCCGAAGGCAT
1 ATCCGGGCTAAGACCCGAAGGCAATTCGTGCAAGTTGCTAAATCCGGGCTAAGACCCGAAGGCAT
*
236066340 TCGTGCAAGTTGTTAA
66 TCGTGCAAGTCGTTAA
236066356 ATCCGGGCTAAGACCCGAAGGC-ATTCGTGCA
1 ATCCGGGCTAAGACCCGAAGGCAATTCGTGCA
236066387 CGTGGTTATA
Statistics
Matches: 103, Mismatches: 5, Indels: 5
0.91 0.04 0.04
Matches are distributed among these distances:
78 3 0.03
79 56 0.54
80 44 0.43
ACGTcount: A:0.27, C:0.24, G:0.28, T:0.21
Consensus pattern (81 bp):
ATCCGGGCTAAGACCCGAAGGCAATTCGTGCAAGTTGCTAAATCCGGGCTAAGACCCGAAGGCAT
TCGTGCAAGTCGTTAA
Found at i:236071815 original size:54 final size:54
Alignment explanation
Indices: 236071733--236071839 Score: 214
Period size: 54 Copynumber: 2.0 Consensus size: 54
236071723 GGTTTGTAAA
236071733 AGGATTCTCGATGATAGCCACACCCATGATGAAACTGCTTCAGAAAGATGTCAG
1 AGGATTCTCGATGATAGCCACACCCATGATGAAACTGCTTCAGAAAGATGTCAG
236071787 AGGATTCTCGATGATAGCCACACCCATGATGAAACTGCTTCAGAAAGATGTCA
1 AGGATTCTCGATGATAGCCACACCCATGATGAAACTGCTTCAGAAAGATGTCA
236071840 AGTTTGAATA
Statistics
Matches: 53, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
54 53 1.00
ACGTcount: A:0.34, C:0.22, G:0.21, T:0.22
Consensus pattern (54 bp):
AGGATTCTCGATGATAGCCACACCCATGATGAAACTGCTTCAGAAAGATGTCAG
Found at i:236075575 original size:17 final size:18
Alignment explanation
Indices: 236075533--236075581 Score: 50
Period size: 17 Copynumber: 2.8 Consensus size: 18
236075523 AGTTGAAAAG
236075533 GAGCATGATTGTCATACTT
1 GAGCATGA-TGTCATACTT
*
236075552 G-GCCATGATG-CATTCTT
1 GAG-CATGATGTCATACTT
236075569 GAGCATGAT-TCAT
1 GAGCATGATGTCAT
236075582 GCTTCTTGCA
Statistics
Matches: 26, Mismatches: 1, Indels: 8
0.74 0.03 0.23
Matches are distributed among these distances:
17 16 0.62
18 4 0.15
19 6 0.23
ACGTcount: A:0.24, C:0.18, G:0.22, T:0.35
Consensus pattern (18 bp):
GAGCATGATGTCATACTT
Found at i:236076469 original size:40 final size:40
Alignment explanation
Indices: 236076403--236076569 Score: 169
Period size: 40 Copynumber: 4.2 Consensus size: 40
236076393 AAATTGAATG
* * *
236076403 ATATCCGGGCTAAG-CCCGAAGACAATTATGCTGGAAATT
1 ATATCCGGGCTAAGACCCGAAGGCAATTGTGCTGGTAATT
* * **
236076442 ATATCCGGGTTAAGACCCGAAGGCAATTGTGCTAGTGGTT
1 ATATCCGGGCTAAGACCCGAAGGCAATTGTGCTGGTAATT
* *
236076482 ATATCCGGGCTAAGGCCCGAAGGC-ATTCGTGC-GAGTTATT
1 ATATCCGGGCTAAGACCCGAAGGCAATT-GTGCTG-GTAATT
* * ** *
236076522 CTATCCGGGCTAAGACCCGAAGGCATTTGTGCACGTGATT
1 ATATCCGGGCTAAGACCCGAAGGCAATTGTGCTGGTAATT
236076562 ATATCCGG
1 ATATCCGG
236076570 TTATATTCCG
Statistics
Matches: 105, Mismatches: 18, Indels: 9
0.80 0.14 0.07
Matches are distributed among these distances:
39 16 0.15
40 87 0.83
41 2 0.02
ACGTcount: A:0.26, C:0.22, G:0.28, T:0.25
Consensus pattern (40 bp):
ATATCCGGGCTAAGACCCGAAGGCAATTGTGCTGGTAATT
Found at i:236078023 original size:2 final size:2
Alignment explanation
Indices: 236078016--236078041 Score: 52
Period size: 2 Copynumber: 13.0 Consensus size: 2
236078006 CGGCTCTAGC
236078016 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
236078042 GTTTGCACAT
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:236078803 original size:40 final size:39
Alignment explanation
Indices: 236078748--236078925 Score: 205
Period size: 40 Copynumber: 4.5 Consensus size: 39
236078738 CGAATGGTAT
* * *
236078748 CCGGGCTAAGTCCCGAAGGCTTTTGTGCTAAGTGACTAAA
1 CCGGGCTAAGTCCCGAAGGCATTTGTGC-GAGTTACTAAA
* *
236078788 CCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTACCAAAA
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTA-CTAAA
* *
236078828 CCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTACTAAA
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAA
* * * *
236078867 TCCGGGCTAATTCCCGAAGGCAATTGTGCGAATCACTATAA
1 -CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTA-AA
236078908 CCGGGC-AATGTCCCGAAG
1 CCGGGCTAA-GTCCCGAAG
236078926 ACAATCGAGC
Statistics
Matches: 120, Mismatches: 14, Indels: 8
0.85 0.10 0.06
Matches are distributed among these distances:
39 10 0.08
40 108 0.90
41 2 0.02
ACGTcount: A:0.26, C:0.24, G:0.27, T:0.22
Consensus pattern (39 bp):
CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAA
Found at i:236078950 original size:80 final size:80
Alignment explanation
Indices: 236078782--236078951 Score: 182
Period size: 80 Copynumber: 2.1 Consensus size: 80
236078772 GTGCTAAGTG
* * * * *
236078782 ACTAAA-CCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTACCAAAACCGGGTTAAGTCCCGAAG
1 ACTAAATCCGGGCTAAGTCCCGAAGGCAATTGTGCGAATCACCAAAACCGGGTCAAGTCCCGAAG
* * * *
236078846 GCATTCGTGCGAGTT
66 ACAATCGAGCGAGTC
* * *
236078861 ACTAAATCCGGGCTAATTCCCGAAGGCAATTGTGCGAATCACTATAACCGGG-CAATGTCCCGAA
1 ACTAAATCCGGGCTAAGTCCCGAAGGCAATTGTGCGAATCACCAAAACCGGGTCAA-GTCCCGAA
*
236078925 GACAATCGAGCTAGTC
65 GACAATCGAGCGAGTC
* *
236078941 GCTATATCCGG
1 ACTAAATCCGG
236078952 TTAAATTCCG
Statistics
Matches: 74, Mismatches: 15, Indels: 3
0.80 0.16 0.03
Matches are distributed among these distances:
79 8 0.11
80 66 0.89
ACGTcount: A:0.28, C:0.25, G:0.25, T:0.22
Consensus pattern (80 bp):
ACTAAATCCGGGCTAAGTCCCGAAGGCAATTGTGCGAATCACCAAAACCGGGTCAAGTCCCGAAG
ACAATCGAGCGAGTC
Found at i:236086345 original size:41 final size:40
Alignment explanation
Indices: 236086236--236086414 Score: 191
Period size: 40 Copynumber: 4.5 Consensus size: 40
236086226 CGAATGGTAT
* * *
236086236 CCGGGCTAAGTCCCGAAGGCTTTTGTGCTAAGTGACTAAAA
1 CCGGGCTAAGTCCCGAAGGCATTTGTGC-GAGTTACTAAAA
* * *
236086277 TCGGGTTAA-TCCCGAAGGCATTTGTGCGAGTTACCAAAAA
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTA-CTAAAA
* * *
236086317 CCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTACTAAAT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAAA
* * * * *
236086357 CCGGGCTAATTCCCGAAGGCAATTGTGCGAATCACTATAA
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAAA
236086397 CCGGGC-AATGTCCCGAAG
1 CCGGGCTAA-GTCCCGAAG
236086415 ACAATCGAGC
Statistics
Matches: 116, Mismatches: 19, Indels: 7
0.82 0.13 0.05
Matches are distributed among these distances:
39 6 0.05
40 80 0.69
41 30 0.26
ACGTcount: A:0.27, C:0.23, G:0.26, T:0.23
Consensus pattern (40 bp):
CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAAA
Found at i:236086371 original size:81 final size:81
Alignment explanation
Indices: 236086236--236086386 Score: 207
Period size: 81 Copynumber: 1.9 Consensus size: 81
236086226 CGAATGGTAT
* * * *
236086236 CCGGGCTAAGTCCCGAAGGCTTTTGTGCTAAGTGACTAAAATCGGGTTAATCCCGAAGGCATTTG
1 CCGGGCTAAGTCCCGAAGGCATTCGTGCTAAGTGACTAAAATCGGGCTAATCCCGAAGGCAATTG
236086301 TGCGAGTTACCAAAAA
66 TGCGAGTTACCAAAAA
* * *
236086317 CCGGGTTAAGTCCCGAAGGCATTCGTGC-GAGTTACT-AAATCCGGGCTAATTCCCGAAGGCAAT
1 CCGGGCTAAGTCCCGAAGGCATTCGTGCTAAGTGACTAAAAT-CGGGCTAA-TCCCGAAGGCAAT
236086380 TGTGCGA
64 TGTGCGA
236086387 ATCACTATAA
Statistics
Matches: 61, Mismatches: 7, Indels: 4
0.85 0.10 0.06
Matches are distributed among these distances:
79 4 0.07
80 13 0.21
81 44 0.72
ACGTcount: A:0.26, C:0.23, G:0.27, T:0.24
Consensus pattern (81 bp):
CCGGGCTAAGTCCCGAAGGCATTCGTGCTAAGTGACTAAAATCGGGCTAATCCCGAAGGCAATTG
TGCGAGTTACCAAAAA
Found at i:236090322 original size:39 final size:40
Alignment explanation
Indices: 236090279--236090484 Score: 211
Period size: 40 Copynumber: 5.2 Consensus size: 40
236090269 CGGAATACAA
*
236090279 CCGGATATAACCACATGCACGAATGCCTTC-GGTCTTAGC
1 CCGGATATAACCACTTGCACGAATGCCTTCGGGTCTTAGC
* * * *
236090318 CCGGATAGAACGACTTGCACAAATGCCTTCGGGTATTAGC
1 CCGGATATAACCACTTGCACGAATGCCTTCGGGTCTTAGC
* *
236090358 CCGGATTTAACAACTTGCACGAATGCCTTCGGGTCTTAGC
1 CCGGATATAACCACTTGCACGAATGCCTTCGGGTCTTAGC
* ** * *
236090398 CCGGATGTAGTCACTAGCAC-AATTGCCTTCGGGTC-TAAC
1 CCGGATATAACCACTTGCACGAA-TGCCTTCGGGTCTTAGC
** * ** * *
236090437 CCGGATATAATTACTAGCATAAATGTCTTCGGGACTTAGC
1 CCGGATATAACCACTTGCACGAATGCCTTCGGGTCTTAGC
236090477 CCGGATAT
1 CCGGATAT
236090485 CATTCAATTG
Statistics
Matches: 140, Mismatches: 23, Indels: 7
0.82 0.14 0.04
Matches are distributed among these distances:
39 57 0.41
40 83 0.59
ACGTcount: A:0.26, C:0.26, G:0.22, T:0.26
Consensus pattern (40 bp):
CCGGATATAACCACTTGCACGAATGCCTTCGGGTCTTAGC
Found at i:236090440 original size:79 final size:81
Alignment explanation
Indices: 236090279--236090482 Score: 229
Period size: 79 Copynumber: 2.6 Consensus size: 81
236090269 CGGAATACAA
* * *
236090279 CCGGATATAACCACATGCACGAATGCCTTC-GGTCTTAGCCCGGA-TAGAACGACTTGCACAAAT
1 CCGGATATAACAACTTGCACGAATGCCTTCGGGTCTTAGCCCGGATTAGAACGACTAGCACAAAT
* *
236090342 GCCTTCGGGTATTAGC
66 GCCTTCGGGTACTAAC
* * *
236090358 CCGGATTTAACAACTTGCACGAATGCCTTCGGGTCTTAGCCCGGATGTAG-TC-ACTAGCACAAT
1 CCGGATATAACAACTTGCACGAATGCCTTCGGGTCTTAGCCCGGAT-TAGAACGACTAGCACAAA
236090421 TGCCTTCGGGT-CTAAC
65 TGCCTTCGGGTACTAAC
** * ** * *
236090437 CCGGATATAATTACTAGCATAAATGTCTTCGGGACTTAGCCCGGAT
1 CCGGATATAACAACTTGCACGAATGCCTTCGGGTCTTAGCCCGGAT
236090483 ATCATTCAAT
Statistics
Matches: 106, Mismatches: 16, Indels: 6
0.83 0.12 0.05
Matches are distributed among these distances:
79 68 0.64
80 34 0.32
81 1 0.01
82 3 0.03
ACGTcount: A:0.25, C:0.26, G:0.23, T:0.25
Consensus pattern (81 bp):
CCGGATATAACAACTTGCACGAATGCCTTCGGGTCTTAGCCCGGATTAGAACGACTAGCACAAAT
GCCTTCGGGTACTAAC
Found at i:236098014 original size:28 final size:28
Alignment explanation
Indices: 236097945--236098045 Score: 114
Period size: 28 Copynumber: 3.5 Consensus size: 28
236097935 GACAAGATTG
* * * *
236097945 GCACTAAGTGTGCGGGTTTAAAATTGTACA
1 GCACTAAGTGTGCGAGTTT--GATTATATA
236097975 GCACTAAGTGTGCGAGTTTGATTATATA
1 GCACTAAGTGTGCGAGTTTGATTATATA
*
236098003 GCACTAAGTGTGCGAG-TTGAATACATATA
1 GCACTAAGTGTGCGAGTTTG-AT-TATATA
236098032 GCACTAAGTGTGCG
1 GCACTAAGTGTGCG
236098046 GATTCACTAT
Statistics
Matches: 64, Mismatches: 5, Indels: 5
0.86 0.07 0.07
Matches are distributed among these distances:
27 3 0.05
28 24 0.38
29 19 0.30
30 18 0.28
ACGTcount: A:0.30, C:0.14, G:0.27, T:0.30
Consensus pattern (28 bp):
GCACTAAGTGTGCGAGTTTGATTATATA
Found at i:236105971 original size:28 final size:28
Alignment explanation
Indices: 236105902--236106002 Score: 114
Period size: 28 Copynumber: 3.5 Consensus size: 28
236105892 GACAAGATTG
* * * *
236105902 GCACTAAGTGTGCGGGTTTAAAATTGTACA
1 GCACTAAGTGTGCGAGTTT--GATTATATA
236105932 GCACTAAGTGTGCGAGTTTGATTATATA
1 GCACTAAGTGTGCGAGTTTGATTATATA
*
236105960 GCACTAAGTGTGCGAG-TTGAATACATATA
1 GCACTAAGTGTGCGAGTTTG-AT-TATATA
236105989 GCACTAAGTGTGCG
1 GCACTAAGTGTGCG
236106003 GATTCACTAT
Statistics
Matches: 64, Mismatches: 5, Indels: 5
0.86 0.07 0.07
Matches are distributed among these distances:
27 3 0.05
28 24 0.38
29 19 0.30
30 18 0.28
ACGTcount: A:0.30, C:0.14, G:0.27, T:0.30
Consensus pattern (28 bp):
GCACTAAGTGTGCGAGTTTGATTATATA
Found at i:236109518 original size:27 final size:27
Alignment explanation
Indices: 236109488--236109577 Score: 80
Period size: 27 Copynumber: 3.3 Consensus size: 27
236109478 ATATTTGGTA
236109488 ATAATAATATAAAATA-ATAATATGTAC
1 ATAATAATA-AAAATATATAATATGTAC
* * *
236109515 ATAA-AATACATATATATATATATGTGC
1 ATAATAATAAAAATATATA-ATATGTAC
*
236109542 AT-ATAATAAAAATATGTAATAATAGTA-
1 ATAATAATAAAAATATATAAT-AT-GTAC
236109569 ATAATAATA
1 ATAATAATA
236109578 TCTACAATAA
Statistics
Matches: 50, Mismatches: 7, Indels: 11
0.74 0.10 0.16
Matches are distributed among these distances:
25 4 0.08
26 10 0.20
27 28 0.56
28 8 0.16
ACGTcount: A:0.57, C:0.03, G:0.06, T:0.34
Consensus pattern (27 bp):
ATAATAATAAAAATATATAATATGTAC
Done.