Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Chr02 ID=Chr02-JGI_221_v2.0
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: 62769430
ACGTcount: A:0.33, C:0.16, G:0.16, T:0.33
Warning! 1067035 characters in sequence are not A, C, G, or T
File 91 of 206
Found at i:26396394 original size:27 final size:26
Alignment explanation
Indices: 26396356--26396844 Score: 436
Period size: 27 Copynumber: 18.1 Consensus size: 26
26396346 AATGGGCCAC
*
26396356 AAATTA-CTGAAATACCCTGATAGGGTT
1 AAATTATC-GAAATACCCTGA-AGGGTA
* *
26396383 AAATTACCGAAATGCCCTCGAAGGGTA
1 AAATTATCGAAATACCCT-GAAGGGTA
* *
26396410 AAATTATCAAAATACCCTTGAAGGGCA
1 AAATTATCGAAATACCC-TGAAGGGTA
* * *
26396437 AAATTACCGAAATAACCCT-ATTGGGTG
1 AAATTATCGAAAT-ACCCTGA-AGGGTA
* *
26396464 AAATTATCGAAATGCCCTTTAAGGGTA
1 AAATTATCGAAATACCC-TGAAGGGTA
* *
26396491 AAATTACCGAAATACCCTCAAAGGGTA
1 AAATTATCGAAATACCCT-GAAGGGTA
** * *
26396518 AAATTA-CTGAAATACCCCCATTGTGTA
1 AAATTATC-GAAATACCCTGA-AGGGTA
26396545 AAATTATCGAAATACCCTCGAAGGGTA
1 AAATTATCGAAATACCCT-GAAGGGTA
26396572 AAATTATCGAAATACCCTCGAAGGGTA
1 AAATTATCGAAATACCCT-GAAGGGTA
*
26396599 AAATTA-CTGAAATA-CCTCCATAGGGTA
1 AAATTATC-GAAATACCCT-GA-AGGGTA
*
26396626 AAATTATCGAAATACCCTCGAAGGGTG
1 AAATTATCGAAATACCCT-GAAGGGTA
26396653 AAATTATCGAAATACCCCT-ATAGGGTA
1 AAATTATCGAAATA-CCCTGA-AGGGTA
*
26396680 AAATTATCGAAATACTCTCGAAGGGTA
1 AAATTATCGAAATACCCT-GAAGGGTA
* **
26396707 AAGTTA-CTGAAATACCCCCATAGGGTA
1 AAATTATC-GAAATACCCTGA-AGGGTA
26396734 AAATTATCGAAATACCCTGGAAGGGTA
1 AAATTATCGAAATACCCT-GAAGGGTA
* * *
26396761 AAATTACCAAAATACCCTCGAAGGTTA
1 AAATTATCGAAATACCCT-GAAGGGTA
26396788 AAATTATCGAAATAGCCCT-ATAGGGTA
1 AAATTATCGAAATA-CCCTGA-AGGGTA
* * *
26396815 AAATTATCAAAAGACCCTCGTAGGGTA
1 AAATTATCGAAATACCCT-GAAGGGTA
26396842 AAA
1 AAA
26396845 AGACCAAAAT
Statistics
Matches: 386, Mismatches: 48, Indels: 56
0.79 0.10 0.11
Matches are distributed among these distances:
26 24 0.06
27 334 0.87
28 28 0.07
ACGTcount: A:0.40, C:0.18, G:0.17, T:0.24
Consensus pattern (26 bp):
AAATTATCGAAATACCCTGAAGGGTA
Found at i:26396441 original size:54 final size:54
Alignment explanation
Indices: 26396356--26396872 Score: 525
Period size: 54 Copynumber: 9.6 Consensus size: 54
26396346 AATGGGCCAC
* *
26396356 AAATTA-CTGAAATACCCT-GATAGGGTTAAATTACCGAAATGCCCTCGAAGGGTA
1 AAATTATC-GAAATACCCTCGA-AGGGTAAAATTACCGAAATACCCTCGAAGGGTA
* * * * *
26396410 AAATTATCAAAATACCCTTGAAGGGCAAAATTACCGAAATAACCCT--ATTGGGTG
1 AAATTATCGAAATACCCTCGAAGGGTAAAATTACCGAAAT-ACCCTCGA-AGGGTA
* ** *
26396464 AAATTATCGAAATGCCCTTTAAGGGTAAAATTACCGAAATACCCTCAAAGGGTA
1 AAATTATCGAAATACCCTCGAAGGGTAAAATTACCGAAATACCCTCGAAGGGTA
* * * *
26396518 AAATTA-CTGAAATACCC-CCATTGTGTAAAATTATCGAAATACCCTCGAAGGGTA
1 AAATTATC-GAAATACCCTCGA-AGGGTAAAATTACCGAAATACCCTCGAAGGGTA
* *
26396572 AAATTATCGAAATACCCTCGAAGGGTAAAATTACTGAAATA-CCTCCATAGGGTA
1 AAATTATCGAAATACCCTCGAAGGGTAAAATTACCGAAATACCCTCGA-AGGGTA
* * *
26396626 AAATTATCGAAATACCCTCGAAGGGTGAAATTATCGAAATACCC-CTATAGGGTA
1 AAATTATCGAAATACCCTCGAAGGGTAAAATTACCGAAATACCCTCGA-AGGGTA
* * * *
26396680 AAATTATCGAAATACTCTCGAAGGGTAAAGTTACTGAAATACCC-CCATAGGGTA
1 AAATTATCGAAATACCCTCGAAGGGTAAAATTACCGAAATACCCTCGA-AGGGTA
* * *
26396734 AAATTATCGAAATACCCTGGAAGGGTAAAATTACCAAAATACCCTCGAAGGTTA
1 AAATTATCGAAATACCCTCGAAGGGTAAAATTACCGAAATACCCTCGAAGGGTA
* * * *
26396788 AAATTATCGAAATAGCCCT--ATAGGGTAAAATTATCAAAAGACCCTCGTAGGGTA
1 AAATTATCGAAATA-CCCTCGA-AGGGTAAAATTACCGAAATACCCTCGAAGGGTA
** * * * *
26396842 AAAAGACCAAAATACCCCCGAAGGTTAAAAT
1 AAATTATCGAAATACCCTCGAAGGGTAAAAT
26396873 GACTGTTATA
Statistics
Matches: 394, Mismatches: 52, Indels: 34
0.82 0.11 0.07
Matches are distributed among these distances:
53 17 0.04
54 357 0.91
55 20 0.05
ACGTcount: A:0.41, C:0.19, G:0.17, T:0.23
Consensus pattern (54 bp):
AAATTATCGAAATACCCTCGAAGGGTAAAATTACCGAAATACCCTCGAAGGGTA
Found at i:26396491 original size:81 final size:80
Alignment explanation
Indices: 26396356--26396858 Score: 525
Period size: 81 Copynumber: 6.2 Consensus size: 80
26396346 AATGGGCCAC
* * * * *
26396356 AAATTACTGAAATACCCTGATAGGGTTAAATTACCGAAATGCCCTCGAAGGGTAAAATTATCAAA
1 AAATTACCGAAATACCCT-ATAGGGTAAAATTATCGAAATACCCTCGAAGGGTAAAATTATCGAA
* *
26396421 ATACCCTTGAAGGGCA
65 ATACCCTCGAAGGGTA
* * * ** *
26396437 AAATTACCGAAATAACCCTATTGGGTGAAATTATCGAAATGCCCTTTAAGGGTAAAATTACCGAA
1 AAATTACCGAAAT-ACCCTATAGGGTAAAATTATCGAAATACCCTCGAAGGGTAAAATTATCGAA
*
26396502 ATACCCTCAAAGGGTA
65 ATACCCTCGAAGGGTA
* * * *
26396518 AAATTACTGAAATACCCCCATTGTGTAAAATTATCGAAATACCCTCGAAGGGTAAAATTATCGAA
1 AAATTACCGAAATA-CCCTATAGGGTAAAATTATCGAAATACCCTCGAAGGGTAAAATTATCGAA
26396583 ATACCCTCGAAGGGTA
65 ATACCCTCGAAGGGTA
* * *
26396599 AAATTACTGAAATACCTCCATAGGGTAAAATTATCGAAATACCCTCGAAGGGTGAAATTATCGAA
1 AAATTACCGAAATACC-CTATAGGGTAAAATTATCGAAATACCCTCGAAGGGTAAAATTATCGAA
*
26396664 ATACCC-CTATAGGGTA
65 ATACCCTCGA-AGGGTA
* * * *
26396680 AAATTATCGAAATACTCTCGA-AGGGTAAAGTTA-CTGAAATACCC-CCATAGGGTAAAATTATC
1 AAATTACCGAAATAC-C-CTATAGGGTAAAATTATC-GAAATACCCTCGA-AGGGTAAAATTATC
*
26396742 GAAATACCCTGGAAGGGTA
62 GAAATACCCTCGAAGGGTA
* *
26396761 AAATTACCAAAATACCCTCGA-AGGTTAAAATTATCGAAATAGCCCT--ATAGGGTAAAATTATC
1 AAATTACCGAAATACCCT--ATAGGGTAAAATTATCGAAATA-CCCTCGA-AGGGTAAAATTATC
* * *
26396823 AAAAGACCCTCGTAGGGTA
62 GAAATACCCTCGAAGGGTA
** *
26396842 AAAAGACCAAAATACCC
1 AAATTACCGAAATACCC
26396859 CCGAAGGTTA
Statistics
Matches: 366, Mismatches: 43, Indels: 26
0.84 0.10 0.06
Matches are distributed among these distances:
79 1 0.00
80 9 0.02
81 342 0.93
82 14 0.04
ACGTcount: A:0.41, C:0.19, G:0.17, T:0.23
Consensus pattern (80 bp):
AAATTACCGAAATACCCTATAGGGTAAAATTATCGAAATACCCTCGAAGGGTAAAATTATCGAAA
TACCCTCGAAGGGTA
Found at i:26398417 original size:104 final size:104
Alignment explanation
Indices: 26398238--26398504 Score: 403
Period size: 104 Copynumber: 2.6 Consensus size: 104
26398228 TAACCGTTAT
* * *
26398238 TGGTGGATCCCGCACTTAGCACCACCACTGAATCGGGGAATCAACACTTAGCAACCCCTCGGGGG
1 TGGTGGATCACGCACTTAGCACCACCAATGAATCGGGGAATCAGCACTTAGCAACCCCTCGGGGG
*
26398303 AATCAGCACATAGCAACCCCCTTT-TCATTTCAAAGATA
66 AATCAGCACATAGCAACCCCCTTTCACATTTCAAAGATA
*
26398341 TGGTGGAT-ATTGCACTTAGCACCACCAATGAAATCGGGGAATCAGCACTTAGCAACCCCTCGGG
1 TGGTGGATCA-CGCACTTAGCACCACCAATG-AATCGGGGAATCAGCACTTAGCAACCCCTCGGG
26398405 GGAATCAGCACATAGCAACCCCCTTTCACATTTCAAAGATA
64 GGAATCAGCACATAGCAACCCCCTTTCACATTTCAAAGATA
* * * * **
26398446 TGGTGGATCACACACATAGCACCACCCATGAATCGGGGAATTAGCACACAGCAACCCCT
1 TGGTGGATCACGCACTTAGCACCACCAATGAATCGGGGAATCAGCACTTAGCAACCCCT
26398505 TTTATATACA
Statistics
Matches: 148, Mismatches: 12, Indels: 7
0.89 0.07 0.04
Matches are distributed among these distances:
103 26 0.18
104 84 0.57
105 37 0.25
106 1 0.01
ACGTcount: A:0.31, C:0.30, G:0.20, T:0.19
Consensus pattern (104 bp):
TGGTGGATCACGCACTTAGCACCACCAATGAATCGGGGAATCAGCACTTAGCAACCCCTCGGGGG
AATCAGCACATAGCAACCCCCTTTCACATTTCAAAGATA
Found at i:26398866 original size:29 final size:29
Alignment explanation
Indices: 26398833--26398896 Score: 76
Period size: 30 Copynumber: 2.2 Consensus size: 29
26398823 TAATCCACCA
26398833 CCCAACTTTTTG-AAAATTACAATTTTGCC
1 CCCAAC-TTTTGCAAAATTACAATTTTGCC
* * *
26398862 CCCAAACTTTTGCATAATTACACTTTTGTC
1 CCC-AACTTTTGCAAAATTACAATTTTGCC
26398892 CCCAA
1 CCCAA
26398897 GCTCGGAAAT
Statistics
Matches: 30, Mismatches: 3, Indels: 4
0.81 0.08 0.11
Matches are distributed among these distances:
29 10 0.33
30 20 0.67
ACGTcount: A:0.30, C:0.28, G:0.06, T:0.36
Consensus pattern (29 bp):
CCCAACTTTTGCAAAATTACAATTTTGCC
Found at i:26398870 original size:30 final size:30
Alignment explanation
Indices: 26398840--26398896 Score: 80
Period size: 30 Copynumber: 1.9 Consensus size: 30
26398830 CCACCCAACT
26398840 TTTTG-AAAATTACAATTTTGCCCCCAAAC
1 TTTTGCAAAATTACAATTTTGCCCCCAAAC
* * *
26398869 TTTTGCATAATTACACTTTTGTCCCCAA
1 TTTTGCAAAATTACAATTTTGCCCCCAA
26398897 GCTCGGAAAT
Statistics
Matches: 24, Mismatches: 3, Indels: 1
0.86 0.11 0.04
Matches are distributed among these distances:
29 5 0.21
30 19 0.79
ACGTcount: A:0.30, C:0.25, G:0.07, T:0.39
Consensus pattern (30 bp):
TTTTGCAAAATTACAATTTTGCCCCCAAAC
Found at i:26399806 original size:26 final size:26
Alignment explanation
Indices: 26399777--26399850 Score: 103
Period size: 26 Copynumber: 2.8 Consensus size: 26
26399767 TTTCCATATA
*
26399777 TACTGTTACTGGCAGCTTTGCTACGT
1 TACTGTTACTGGCAGCTTTGCTACAT
* *
26399803 TACTGTTACTGGTAGCTTTGCTGCAT
1 TACTGTTACTGGCAGCTTTGCTACAT
* *
26399829 TATTATTACTGGCAGCTTTGCT
1 TACTGTTACTGGCAGCTTTGCT
26399851 GCGATATTAG
Statistics
Matches: 42, Mismatches: 6, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
26 42 1.00
ACGTcount: A:0.16, C:0.20, G:0.22, T:0.42
Consensus pattern (26 bp):
TACTGTTACTGGCAGCTTTGCTACAT
Found at i:26399858 original size:26 final size:26
Alignment explanation
Indices: 26399782--26399859 Score: 95
Period size: 26 Copynumber: 3.0 Consensus size: 26
26399772 ATATATACTG
* * * *
26399782 TTACTGGCAGCTTTGCTACGTTACTG
1 TTACTGGCAGCTTTGCTGCGATATTA
*
26399808 TTACTGGTAGCTTTGCTGC-ATTATTA
1 TTACTGGCAGCTTTGCTGCGA-TATTA
26399834 TTACTGGCAGCTTTGCTGCGATATTA
1 TTACTGGCAGCTTTGCTGCGATATTA
26399860 GTGTGTTGGC
Statistics
Matches: 44, Mismatches: 6, Indels: 4
0.81 0.11 0.07
Matches are distributed among these distances:
26 43 0.98
27 1 0.02
ACGTcount: A:0.18, C:0.19, G:0.22, T:0.41
Consensus pattern (26 bp):
TTACTGGCAGCTTTGCTGCGATATTA
Found at i:26402870 original size:45 final size:46
Alignment explanation
Indices: 26402769--26403260 Score: 299
Period size: 45 Copynumber: 10.8 Consensus size: 46
26402759 TTCTTGAAGG
* * * * * **
26402769 AAATGATTAAGACCATAGTAGAAAGACACTACGACA-CTAT-ATCGG
1 AAATGAATAAGACCATAGTTGAAAGACACTATGGCATC-ATGACCAT
* *
26402814 AAATAAATAAGACCATAGTTGAAAGACACTATGGCACCAT-ACCAT
1 AAATGAATAAGACCATAGTTGAAAGACACTATGGCATCATGACCAT
* * ** *
26402859 AAATGAGTAAGACCATAGCTGAAAGACGTTATGGCATCATGATTC-T
1 AAATGAATAAGACCATAGTTGAAAGACACTATGGCATCATGA-CCAT
* * * * * *** * * *
26402905 --ATCGAGTAAAACTATAGCTGAACGATGTTATGGAATCACGATTC-T
1 AAAT-GAATAAGACCATAGTTGAAAGACACTATGGCATCATGA-CCAT
* * *
26402950 -ATTGAGTAAGACCATAGCTGAAAGACACTATGGCATCATGA--AT
1 AAATGAATAAGACCATAGTTGAAAGACACTATGGCATCATGACCAT
* * * * * *
26402993 CAAACGAATAAGACCATAGTTGAAATACACTATGACAACACGA-CAGA
1 -AAATGAATAAGACCATAGTTGAAAGACACTATGGCATCATGACCA-T
* * * ** *
26403040 AAATGAATAAAACCATAATTGAAAGACACTATGGCAACATGATGAA
1 AAATGAATAAGACCATAGTTGAAAGACACTATGGCATCATGACCAT
* * * *
26403086 AAATGAATAAGACCATGGTTGAAAAACACTATGGCATCAAGTCCA-
1 AAATGAATAAGACCATAGTTGAAAGACACTATGGCATCATGACCAT
* * * * * ** *
26403131 GAATAAAAAAGACCATGGTTGAAAGACACTATGGCAACATGATGAA
1 AAATGAATAAGACCATAGTTGAAAGACACTATGGCATCATGACCAT
* * * *
26403177 AAATGAATAAGACCATGGTTGAAAAACACTATGGCATCAAGTCCA-
1 AAATGAATAAGACCATAGTTGAAAGACACTATGGCATCATGACCAT
* * * *
26403222 GAATAAAAAAGACCATGGTTGAAAGACACTATGGCATCA
1 AAATGAATAAGACCATAGTTGAAAGACACTATGGCATCA
26403261 AGTCTAGAAT
Statistics
Matches: 358, Mismatches: 77, Indels: 24
0.78 0.17 0.05
Matches are distributed among these distances:
43 1 0.00
44 2 0.01
45 239 0.67
46 114 0.32
47 2 0.01
ACGTcount: A:0.44, C:0.17, G:0.18, T:0.21
Consensus pattern (46 bp):
AAATGAATAAGACCATAGTTGAAAGACACTATGGCATCATGACCAT
Found at i:26403035 original size:90 final size:90
Alignment explanation
Indices: 26402819--26403260 Score: 245
Period size: 91 Copynumber: 4.9 Consensus size: 90
26402809 ATCGGAAATA
*
26402819 AATAAGACCATAGTTGAAAGACACTATGGC-AC-C-ATACCATAAATGAGTAAGACCATAGCTGA
1 AATAAGACCATAGTTGAAAGACACTATGACAACACGAT-CC-T-AATGAGTAAGACCATAGCTGA
** * * *
26402881 AAGACGTTATGGCATCATGATTCTATCG
63 AAGACACTATGGCATCATGAATCAAACG
* * * * * *** * * *
26402909 AGTAAAACTATAGCTGAACGATGTTATGGA-ATCACGATTCTATTGAGTAAGACCATAGCTGAAA
1 AATAAGACCATAGTTGAAAGACACTAT-GACAACACGATCCTAATGAGTAAGACCATAGCTGAAA
26402973 GACACTATGGCATCATGAATCAAACG
65 GACACTATGGCATCATGAATCAAACG
* ** * * **
26402999 AATAAGACCATAGTTGAAATACACTATGACAACACGA-CAGAAAATGAATAAAACCATAATTGAA
1 AATAAGACCATAGTTGAAAGACACTATGACAACACGATC--CTAATGAGTAAGACCATAGCTGAA
* * *
26403063 AGACACTATGGCAACATG-ATGAAAAATG
64 AGACACTATGGCATCATGAAT--CAAACG
* * * * * * * ** * *
26403091 AATAAGACCATGGTTGAAAAACACTATGGCATCAAG-TCCAGAATAAAAAAGACCATGGTTGAAA
1 AATAAGACCATAGTTGAAAGACACTATGACAACACGATCC-TAATGAGTAAGACCATAGCTGAAA
* * *
26403155 GACACTATGGCAACATG-ATGAAAAATG
65 GACACTATGGCATCATGAAT--CAAACG
* * * * * * * ** * *
26403182 AATAAGACCATGGTTGAAAAACACTATGGCATCAAG-TCCAGAATAAAAAAGACCATGGTTGAAA
1 AATAAGACCATAGTTGAAAGACACTATGACAACACGATCC-TAATGAGTAAGACCATAGCTGAAA
26403246 GACACTATGGCATCA
65 GACACTATGGCATCA
26403261 AGTCTAGAAT
Statistics
Matches: 290, Mismatches: 51, Indels: 21
0.80 0.14 0.06
Matches are distributed among these distances:
89 2 0.01
90 88 0.30
91 160 0.55
92 38 0.13
93 2 0.01
ACGTcount: A:0.44, C:0.17, G:0.19, T:0.21
Consensus pattern (90 bp):
AATAAGACCATAGTTGAAAGACACTATGACAACACGATCCTAATGAGTAAGACCATAGCTGAAAG
ACACTATGGCATCATGAATCAAACG
Found at i:26403062 original size:46 final size:46
Alignment explanation
Indices: 26402956--26403209 Score: 203
Period size: 46 Copynumber: 5.6 Consensus size: 46
26402946 TTCTATTGAG
* * * * * ** *
26402956 TAAGACCATAGCTGAAAGACACTATGGCATCATGAA-TCAAACGAA
1 TAAGACCATAGTTGAAAAACACTATGACAACACGAAGAAAAATGAA
*
26403001 TAAGACCATAGTTGAAATACACTATGACAACACGACAG-AAAATGAA
1 TAAGACCATAGTTGAAAAACACTATGACAACACGA-AGAAAAATGAA
* * * * * *
26403047 TAAAACCATAATTGAAAGACACTATGGCAACATGATGAAAAATGAA
1 TAAGACCATAGTTGAAAAACACTATGACAACACGAAGAAAAATGAA
* * * * * *
26403093 TAAGACCATGGTTGAAAAACACTATGGCATCAAGTCCAGAATAA--AA
1 TAAGACCATAGTTGAAAAACACTATGACAACACG--AAGAAAAATGAA
* * * * *
26403139 -AAGACCATGGTTGAAAGACACTATGGCAACATGATGAAAAATGAA
1 TAAGACCATAGTTGAAAAACACTATGACAACACGAAGAAAAATGAA
*
26403184 TAAGACCATGGTTGAAAAACACTATG
1 TAAGACCATAGTTGAAAAACACTATG
26403210 GCATCAAGTC
Statistics
Matches: 172, Mismatches: 29, Indels: 15
0.80 0.13 0.07
Matches are distributed among these distances:
43 5 0.03
45 63 0.37
46 99 0.58
48 5 0.03
ACGTcount: A:0.47, C:0.16, G:0.18, T:0.19
Consensus pattern (46 bp):
TAAGACCATAGTTGAAAAACACTATGACAACACGAAGAAAAATGAA
Found at i:26403070 original size:91 final size:90
Alignment explanation
Indices: 26402957--26403257 Score: 401
Period size: 91 Copynumber: 3.3 Consensus size: 90
26402947 TCTATTGAGT
* * * * * * *
26402957 AAGACCATAGCTGAAAGACACTATGGCATCATGA-ATCAAACGAATAAGACCATAGTTGAAATAC
1 AAGACCATGGTTGAAAGACACTATGGCAACATGATA-AAAATGAATAAGACCATGGTTGAAAAAC
* * * *
26403021 ACTATGACAACACG-ACAGAA-AATGAA
65 ACTATGGCATCAAGTCCAGAATAA--AA
* **
26403047 TAAAACCATAATTGAAAGACACTATGGCAACATGATGAAAAATGAATAAGACCATGGTTGAAAAA
1 -AAGACCATGGTTGAAAGACACTATGGCAACATGAT-AAAAATGAATAAGACCATGGTTGAAAAA
26403112 CACTATGGCATCAAGTCCAGAATAAAA
64 CACTATGGCATCAAGTCCAGAATAAAA
26403139 AAGACCATGGTTGAAAGACACTATGGCAACATGATGAAAAATGAATAAGACCATGGTTGAAAAAC
1 AAGACCATGGTTGAAAGACACTATGGCAACATGAT-AAAAATGAATAAGACCATGGTTGAAAAAC
26403204 ACTATGGCATCAAGTCCAGAATAAAA
65 ACTATGGCATCAAGTCCAGAATAAAA
26403230 AAGACCATGGTTGAAAGACACTATGGCA
1 AAGACCATGGTTGAAAGACACTATGGCA
26403258 TCAAGTCTAG
Statistics
Matches: 191, Mismatches: 15, Indels: 8
0.89 0.07 0.04
Matches are distributed among these distances:
91 146 0.76
92 37 0.19
93 6 0.03
94 2 0.01
ACGTcount: A:0.47, C:0.17, G:0.18, T:0.18
Consensus pattern (90 bp):
AAGACCATGGTTGAAAGACACTATGGCAACATGATAAAAATGAATAAGACCATGGTTGAAAAACA
CTATGGCATCAAGTCCAGAATAAAA
Found at i:26403210 original size:46 final size:46
Alignment explanation
Indices: 26402956--26403295 Score: 314
Period size: 45 Copynumber: 7.5 Consensus size: 46
26402946 TTCTATTGAG
* * * *
26402956 TAAGACCATAGCTGAAAGACACTATGGCATCATGAATC--AAACGAA
1 TAAGACCATGGTTGAAAGACACTATGGCAACATG-ATCAAAAATGAA
* * * *
26403001 TAAGACCATAGTTGAAATACACTATGACAACACGA-CAGAAAATGAA
1 TAAGACCATGGTTGAAAGACACTATGGCAACATGATCA-AAAATGAA
* ** *
26403047 TAAAACCATAATTGAAAGACACTATGGCAACATGATGAAAAATGAA
1 TAAGACCATGGTTGAAAGACACTATGGCAACATGATCAAAAATGAA
* * * * * *
26403093 TAAGACCATGGTTGAAAAACACTATGGCATCAAG-TCCAGAATAAA
1 TAAGACCATGGTTGAAAGACACTATGGCAACATGATCAAAAATGAA
* *
26403138 AAAGACCATGGTTGAAAGACACTATGGCAACATGATGAAAAATGAA
1 TAAGACCATGGTTGAAAGACACTATGGCAACATGATCAAAAATGAA
* * * * * *
26403184 TAAGACCATGGTTGAAAAACACTATGGCATCAAG-TCCAGAATAAA
1 TAAGACCATGGTTGAAAGACACTATGGCAACATGATCAAAAATGAA
* * * * * *
26403229 AAAGACCATGGTTGAAAGACACTATGGCATCAAG-TCTAGAATAAA
1 TAAGACCATGGTTGAAAGACACTATGGCAACATGATCAAAAATGAA
* *
26403274 AAAGACCATGTTTGAAAGACAC
1 TAAGACCATGGTTGAAAGACAC
26403296 CGTGGCACCC
Statistics
Matches: 248, Mismatches: 42, Indels: 10
0.83 0.14 0.03
Matches are distributed among these distances:
43 1 0.00
44 1 0.00
45 136 0.55
46 109 0.44
47 1 0.00
ACGTcount: A:0.47, C:0.16, G:0.18, T:0.19
Consensus pattern (46 bp):
TAAGACCATGGTTGAAAGACACTATGGCAACATGATCAAAAATGAA
Found at i:26403302 original size:136 final size:137
Alignment explanation
Indices: 26403002--26403302 Score: 381
Period size: 136 Copynumber: 2.2 Consensus size: 137
26402992 TCAAACGAAT
* * * * * * *
26403002 AAGACCATAGTTGAAATACACTATGACAACACGA-CAGAAAATGAATAAAACCATAATTGAAAGA
1 AAGACCATGGTTGAAAGACACCATGGCAACATGATGA-AAAATGAATAAAACCATAATTGAAAAA
* * * *
26403066 CACTATGGCAACATGATGAAAAATGAATAAGACCATGGTTGAAAAACACTATGGCATCAAGTCCA
65 CACTATGGCAACAAGATCAAAAATAAAAAAGACCATGGTTGAAAAACACTATGGCATCAAGTCCA
26403131 GAATAAAA
130 GAATAAAA
* * **
26403139 AAGACCATGGTTGAAAGACACTATGGCAACATGATGAAAAATGAATAAGACCATGGTTGAAAAAC
1 AAGACCATGGTTGAAAGACACCATGGCAACATGATGAAAAATGAATAAAACCATAATTGAAAAAC
* * * * *
26403204 ACTATGGCATCAAG-TCCAGAATAAAAAAGACCATGGTTGAAAGACACTATGGCATCAAGTCTAG
66 ACTATGGCAACAAGATCAAAAATAAAAAAGACCATGGTTGAAAAACACTATGGCATCAAGTCCAG
26403268 AATAAAA
131 AATAAAA
* *
26403275 AAGACCATGTTTGAAAGACACCGTGGCA
1 AAGACCATGGTTGAAAGACACCATGGCA
26403303 CCCTCAGATC
Statistics
Matches: 142, Mismatches: 21, Indels: 3
0.86 0.13 0.02
Matches are distributed among these distances:
136 75 0.53
137 66 0.46
138 1 0.01
ACGTcount: A:0.47, C:0.16, G:0.19, T:0.19
Consensus pattern (137 bp):
AAGACCATGGTTGAAAGACACCATGGCAACATGATGAAAAATGAATAAAACCATAATTGAAAAAC
ACTATGGCAACAAGATCAAAAATAAAAAAGACCATGGTTGAAAAACACTATGGCATCAAGTCCAG
AATAAAA
Found at i:26417450 original size:29 final size:29
Alignment explanation
Indices: 26417408--26417468 Score: 122
Period size: 29 Copynumber: 2.1 Consensus size: 29
26417398 CAGTCTCGTG
26417408 ATACCTTAACATCACGATCTATGATCTAA
1 ATACCTTAACATCACGATCTATGATCTAA
26417437 ATACCTTAACATCACGATCTATGATCTAA
1 ATACCTTAACATCACGATCTATGATCTAA
26417466 ATA
1 ATA
26417469 GGTTCCTCCT
Statistics
Matches: 32, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
29 32 1.00
ACGTcount: A:0.39, C:0.23, G:0.07, T:0.31
Consensus pattern (29 bp):
ATACCTTAACATCACGATCTATGATCTAA
Found at i:26422954 original size:42 final size:42
Alignment explanation
Indices: 26422877--26422981 Score: 122
Period size: 42 Copynumber: 2.5 Consensus size: 42
26422867 ATGCCACATG
**
26422877 GCCTGGACACACT-CCCATGTCCTTGTCCATATGACTCACACA
1 GCCTGGACACA-TGCCCATGTCCTTACCCATATGACTCACACA
* * **
26422919 GCCTGGACACATGCCCATGTCCTTACCCGTGTGACTCACATG
1 GCCTGGACACATGCCCATGTCCTTACCCATATGACTCACACA
* *
26422961 GCATGGGCACATGCCCATGTC
1 GCCTGGACACATGCCCATGTC
26422982 TTCTACCTAT
Statistics
Matches: 54, Mismatches: 8, Indels: 2
0.84 0.12 0.03
Matches are distributed among these distances:
41 1 0.02
42 53 0.98
ACGTcount: A:0.21, C:0.36, G:0.20, T:0.23
Consensus pattern (42 bp):
GCCTGGACACATGCCCATGTCCTTACCCATATGACTCACACA
Found at i:26427434 original size:8 final size:8
Alignment explanation
Indices: 26427421--26427457 Score: 53
Period size: 8 Copynumber: 5.0 Consensus size: 8
26427411 AAAAATTAAG
26427421 ATAATAAA
1 ATAATAAA
26427429 ATAAT--A
1 ATAATAAA
26427435 A-AATAAA
1 ATAATAAA
26427442 ATAATAAA
1 ATAATAAA
26427450 ATAATAAA
1 ATAATAAA
26427458 GGGAAAAATA
Statistics
Matches: 26, Mismatches: 0, Indels: 6
0.81 0.00 0.19
Matches are distributed among these distances:
5 3 0.12
6 2 0.08
7 2 0.08
8 19 0.73
ACGTcount: A:0.76, C:0.00, G:0.00, T:0.24
Consensus pattern (8 bp):
ATAATAAA
Found at i:26427441 original size:13 final size:13
Alignment explanation
Indices: 26427423--26427453 Score: 62
Period size: 13 Copynumber: 2.4 Consensus size: 13
26427413 AAATTAAGAT
26427423 AATAAAATAATAA
1 AATAAAATAATAA
26427436 AATAAAATAATAA
1 AATAAAATAATAA
26427449 AATAA
1 AATAA
26427454 TAAAGGGAAA
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 18 1.00
ACGTcount: A:0.77, C:0.00, G:0.00, T:0.23
Consensus pattern (13 bp):
AATAAAATAATAA
Found at i:26427447 original size:21 final size:21
Alignment explanation
Indices: 26427399--26427457 Score: 75
Period size: 21 Copynumber: 2.9 Consensus size: 21
26427389 GAAGTATAAT
* * *
26427399 AAATAATTAATTAA-AAATTA
1 AAATAATAAAATAATAAAATA
*
26427419 AGATAATAAAATAATAAAATA
1 AAATAATAAAATAATAAAATA
26427440 AAATAATAAAATAATAAA
1 AAATAATAAAATAATAAA
26427458 GGGAAAAATA
Statistics
Matches: 33, Mismatches: 5, Indels: 1
0.85 0.13 0.03
Matches are distributed among these distances:
20 11 0.33
21 22 0.67
ACGTcount: A:0.71, C:0.00, G:0.02, T:0.27
Consensus pattern (21 bp):
AAATAATAAAATAATAAAATA
Found at i:26429177 original size:45 final size:45
Alignment explanation
Indices: 26429112--26429212 Score: 130
Period size: 45 Copynumber: 2.2 Consensus size: 45
26429102 ACGTGTATCG
* * *
26429112 GGTACCATTGATTATAAAGGTGGTTGTTGTATGCTGATTCCACCA
1 GGTACCATTGATTATAAAGGTAGTTGCTATATGCTGATTCCACCA
* * *
26429157 GGTACTATTGATTATGAAGGTAGTTGCTATGTGCTGATTCCACCA
1 GGTACCATTGATTATAAAGGTAGTTGCTATATGCTGATTCCACCA
* *
26429202 AGTATCATTGA
1 GGTACCATTGA
26429213 CCATAAGGGT
Statistics
Matches: 47, Mismatches: 9, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
45 47 1.00
ACGTcount: A:0.26, C:0.15, G:0.24, T:0.36
Consensus pattern (45 bp):
GGTACCATTGATTATAAAGGTAGTTGCTATATGCTGATTCCACCA
Found at i:26434008 original size:45 final size:45
Alignment explanation
Indices: 26433955--26434059 Score: 156
Period size: 45 Copynumber: 2.3 Consensus size: 45
26433945 TACTACGTGT
*
26433955 ACCGGGTACCATTGATTATAAATGTGGTTGCTATGTGCTGATTCC
1 ACCGGGTACCATTGATTATAAAGGTGGTTGCTATGTGCTGATTCC
* * *
26434000 ATCGGGTACTATTGATTATGAAGGTGGTTGCTATGTGCTGATTCC
1 ACCGGGTACCATTGATTATAAAGGTGGTTGCTATGTGCTGATTCC
* *
26434045 ACCGAGTATCATTGA
1 ACCGGGTACCATTGA
26434060 CCCTATGATG
Statistics
Matches: 52, Mismatches: 8, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
45 52 1.00
ACGTcount: A:0.23, C:0.16, G:0.26, T:0.35
Consensus pattern (45 bp):
ACCGGGTACCATTGATTATAAAGGTGGTTGCTATGTGCTGATTCC
Found at i:26438635 original size:53 final size:53
Alignment explanation
Indices: 26438555--26438665 Score: 213
Period size: 53 Copynumber: 2.1 Consensus size: 53
26438545 TATTTCGAAT
26438555 TGAATCATCTCTAATTTTTGCATATTTCCAATAAGTTTGTTGCTAATTGTGCA
1 TGAATCATCTCTAATTTTTGCATATTTCCAATAAGTTTGTTGCTAATTGTGCA
*
26438608 TGAATCATCTCTAATTTTTGCATATTTCCAGTAAGTTTGTTGCTAATTGTGCA
1 TGAATCATCTCTAATTTTTGCATATTTCCAATAAGTTTGTTGCTAATTGTGCA
26438661 TGAAT
1 TGAAT
26438666 TTTAACATAT
Statistics
Matches: 57, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
53 57 1.00
ACGTcount: A:0.26, C:0.14, G:0.14, T:0.45
Consensus pattern (53 bp):
TGAATCATCTCTAATTTTTGCATATTTCCAATAAGTTTGTTGCTAATTGTGCA
Found at i:26449773 original size:14 final size:14
Alignment explanation
Indices: 26449749--26449794 Score: 58
Period size: 14 Copynumber: 3.3 Consensus size: 14
26449739 CAAACAAACA
26449749 AAAATATTAAAATAT
1 AAAA-ATTAAAATAT
* *
26449764 AAAAATTAAATTAA
1 AAAAATTAAAATAT
26449778 AAAAATTAAAAT-T
1 AAAAATTAAAATAT
26449791 AAAA
1 AAAA
26449795 TAAAATAATG
Statistics
Matches: 27, Mismatches: 4, Indels: 2
0.82 0.12 0.06
Matches are distributed among these distances:
13 4 0.15
14 19 0.70
15 4 0.15
ACGTcount: A:0.72, C:0.00, G:0.00, T:0.28
Consensus pattern (14 bp):
AAAAATTAAAATAT
Found at i:26450917 original size:14 final size:12
Alignment explanation
Indices: 26450888--26450919 Score: 55
Period size: 12 Copynumber: 2.7 Consensus size: 12
26450878 GTCACATGGT
26450888 TGTGTGGCAGCC
1 TGTGTGGCAGCC
*
26450900 TGTGTGGCAGTC
1 TGTGTGGCAGCC
26450912 TGTGTGGC
1 TGTGTGGC
26450920 TCACACGACC
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
12 19 1.00
ACGTcount: A:0.06, C:0.19, G:0.44, T:0.31
Consensus pattern (12 bp):
TGTGTGGCAGCC
Found at i:26460140 original size:14 final size:13
Alignment explanation
Indices: 26460104--26460157 Score: 54
Period size: 13 Copynumber: 4.1 Consensus size: 13
26460094 TAAGATGAAT
*
26460104 TAAAATAAATAAA
1 TAAAAGAAATAAA
26460117 TAAAAGAAATAAA
1 TAAAAGAAATAAA
*
26460130 TAATGAGAAATAAA
1 TAA-AAGAAATAAA
* * *
26460144 CAAATGAACTAAA
1 TAAAAGAAATAAA
26460157 T
1 T
26460158 CGATAAACCT
Statistics
Matches: 33, Mismatches: 7, Indels: 2
0.79 0.17 0.05
Matches are distributed among these distances:
13 22 0.67
14 11 0.33
ACGTcount: A:0.69, C:0.04, G:0.07, T:0.20
Consensus pattern (13 bp):
TAAAAGAAATAAA
Found at i:26462670 original size:13 final size:13
Alignment explanation
Indices: 26462652--26462680 Score: 58
Period size: 13 Copynumber: 2.2 Consensus size: 13
26462642 TCAAATGAAC
26462652 AATACTATAGTGG
1 AATACTATAGTGG
26462665 AATACTATAGTGG
1 AATACTATAGTGG
26462678 AAT
1 AAT
26462681 GTCACAATAC
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 16 1.00
ACGTcount: A:0.41, C:0.07, G:0.21, T:0.31
Consensus pattern (13 bp):
AATACTATAGTGG
Found at i:26462691 original size:21 final size:21
Alignment explanation
Indices: 26462665--26462705 Score: 82
Period size: 21 Copynumber: 2.0 Consensus size: 21
26462655 ACTATAGTGG
26462665 AATACTATAGTGGAATGTCAC
1 AATACTATAGTGGAATGTCAC
26462686 AATACTATAGTGGAATGTCA
1 AATACTATAGTGGAATGTCA
26462706 TCGGTCTCTC
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
21 20 1.00
ACGTcount: A:0.39, C:0.12, G:0.20, T:0.29
Consensus pattern (21 bp):
AATACTATAGTGGAATGTCAC
Found at i:26462906 original size:19 final size:18
Alignment explanation
Indices: 26462867--26462911 Score: 56
Period size: 19 Copynumber: 2.4 Consensus size: 18
26462857 ATTTAAAATT
26462867 TTAAATTTTAATTAAATAA
1 TTAAATTTTAA-TAAATAA
26462886 TTAAATTTTAA-AAATGGAA
1 TTAAATTTTAATAAAT--AA
26462905 TTAAATT
1 TTAAATT
26462912 AATTAGTCAT
Statistics
Matches: 24, Mismatches: 0, Indels: 4
0.86 0.00 0.14
Matches are distributed among these distances:
17 4 0.17
19 20 0.83
ACGTcount: A:0.51, C:0.00, G:0.04, T:0.44
Consensus pattern (18 bp):
TTAAATTTTAATAAATAA
Found at i:26464501 original size:12 final size:12
Alignment explanation
Indices: 26464486--26464510 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
26464476 CTCATTCCTT
26464486 CATTCATCATCC
1 CATTCATCATCC
26464498 CATTCATCATCC
1 CATTCATCATCC
26464510 C
1 C
26464511 TCAATCATTC
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 13 1.00
ACGTcount: A:0.24, C:0.44, G:0.00, T:0.32
Consensus pattern (12 bp):
CATTCATCATCC
Found at i:26466836 original size:27 final size:26
Alignment explanation
Indices: 26466806--26467188 Score: 363
Period size: 27 Copynumber: 14.2 Consensus size: 26
26466796 TCACACTGTT
* *
26466806 ATGACCAAAATACTTCCATAGGGTAAA
1 ATGACCGAAATAC-CCCATAGGGTAAA
* *
26466833 ATGACCAAAATACCCCCATAGGGTAGA
1 ATGACCGAAATA-CCCCATAGGGTAAA
26466860 ATGACCGAAATACCTCCATAGGGTAAA
1 ATGACCGAAATACC-CCATAGGGTAAA
*
26466887 ATGACTGAAATACCCTCAT-GTGGTAAA
1 ATGACCGAAATACCC-CATAG-GGTAAA
*
26466914 ATGATCGAAATACCCTCATAGGGTAAA
1 ATGACCGAAATACCC-CATAGGGTAAA
*
26466941 ATGACCGAAATACCCCCATAGGATAAA
1 ATGACCGAAATA-CCCCATAGGGTAAA
* * * *
26466968 ATAATCGGAATACCCCTATAAGGTAAA
1 ATGACCGAAATACCCC-ATAGGGTAAA
* * *
26466995 ATGATCGAAATACCCTTATAGGGTAGA
1 ATGACCGAAATACCC-CATAGGGTAAA
* * * *
26467022 CTAACTGAAATACCCCCATAGGCTAAA
1 ATGACCGAAATA-CCCCATAGGGTAAA
* *
26467049 ATGACTGAAATACCCCCATAGGATAAA
1 ATGACCGAAATA-CCCCATAGGGTAAA
* *
26467076 ATGACTGGAATACCCCCATAGGGTAAA
1 ATGACCGAAATA-CCCCATAGGGTAAA
*
26467103 ATGACCGAAATACCCTCATAGGGTAGA
1 ATGACCGAAATACCC-CATAGGGTAAA
* * * *
26467130 ATAACTGAAATACTCCCATAGGCTAAC
1 ATGACCGAAATAC-CCCATAGGGTAAA
* *
26467157 ATGATCAAAATACCCCTATAGGGTAAA
1 ATGACCGAAATACCCC-ATAGGGTAAA
26467184 ATGAC
1 ATGAC
26467189 TATTATACCT
Statistics
Matches: 298, Mismatches: 46, Indels: 24
0.81 0.12 0.07
Matches are distributed among these distances:
26 14 0.05
27 274 0.92
28 10 0.03
ACGTcount: A:0.41, C:0.22, G:0.17, T:0.20
Consensus pattern (26 bp):
ATGACCGAAATACCCCATAGGGTAAA
Found at i:26466944 original size:81 final size:80
Alignment explanation
Indices: 26466821--26467188 Score: 427
Period size: 81 Copynumber: 4.5 Consensus size: 80
26466811 CAAAATACTT
* * * *
26466821 CCATAGGGTAAAATGACCAAAATACCCCCATAGGGTAGAATGACCGAAATACCTCCATAGGGTAA
1 CCATAGGGTAAAATGATCGAAATACCCCCATAGGGTAAAATGACCGAAATACCCCCATAGGGTAA
26466886 AATGACTGAAATACC
66 AATGACTGAAATACC
* *
26466901 CTCAT-GTGGTAAAATGATCGAAATACCCTCATAGGGTAAAATGACCGAAATACCCCCATAGGAT
1 C-CATAG-GGTAAAATGATCGAAATACCCCCATAGGGTAAAATGACCGAAATACCCCCATAGGGT
* *
26466965 AAAAT-AATCGGAATACC
64 AAAATGACT-GAAATACC
* ** * * * * *
26466982 CCTATAAGGTAAAATGATCGAAATACCCTTATAGGGTAGACTAACTGAAATACCCCCATAGGCTA
1 CC-ATAGGGTAAAATGATCGAAATACCCCCATAGGGTAAAATGACCGAAATACCCCCATAGGGTA
26467047 AAATGACTGAAATACCC
65 AAATGACTGAAATA-CC
* * *
26467064 CCATAGGATAAAATGA-CTGGAATACCCCCATAGGGTAAAATGACCGAAATACCCTCATAGGGTA
1 CCATAGGGTAAAATGATC-GAAATACCCCCATAGGGTAAAATGACCGAAATACCCCCATAGGGTA
* *
26467128 GAATAACTGAAATACTC
65 AAATGACTGAAATAC-C
* * * *
26467145 CCATAGGCTAACATGATCAAAATACCCCTATAGGGTAAAATGAC
1 CCATAGGGTAAAATGATCGAAATACCCCCATAGGGTAAAATGAC
26467189 TATTATACCT
Statistics
Matches: 243, Mismatches: 35, Indels: 19
0.82 0.12 0.06
Matches are distributed among these distances:
80 7 0.03
81 229 0.94
82 7 0.03
ACGTcount: A:0.41, C:0.22, G:0.17, T:0.20
Consensus pattern (80 bp):
CCATAGGGTAAAATGATCGAAATACCCCCATAGGGTAAAATGACCGAAATACCCCCATAGGGTAA
AATGACTGAAATACC
Found at i:26467215 original size:108 final size:107
Alignment explanation
Indices: 26466813--26467188 Score: 452
Period size: 108 Copynumber: 3.5 Consensus size: 107
26466803 GTTATGACCA
* * * *
26466813 AAATACTTCCATAGGGTAAAATGACCAAAATACCCCCATAGGGTAGAATGACCGAAATACCTCCA
1 AAATACTCCCATAGGCTAAAATGACCAAAATACCCCCATAGGATAAAATGACCGAAATACC-CCA
* * *
26466878 TAGGGTAAAATGACTGAAATACCCTCAT-GTGGTAAAATGA-TCG
65 TAGGGTAAAATGACCGAAATACCCTCATAG-GGTAGAATAACT-G
* * * * *
26466921 AAATAC-CCTCATAGGGTAAAATGACCGAAATACCCCCATAGGATAAAATAATCGGAATACCCCT
1 AAATACTCC-CATAGGCTAAAATGACCAAAATACCCCCATAGGATAAAATGACCGAAATACCCC-
* * * *
26466985 ATAAGGTAAAATGATCGAAATACCCTTATAGGGTAGACTAACTG
64 ATAGGGTAAAATGACCGAAATACCCTCATAGGGTAGAATAACTG
* ** * *
26467029 AAATACCCCCATAGGCTAAAATGACTGAAATACCCCCATAGGATAAAATGACTGGAATACCCCCA
1 AAATACTCCCATAGGCTAAAATGACCAAAATACCCCCATAGGATAAAATGACCGAAATA-CCCCA
26467094 TAGGGTAAAATGACCGAAATACCCTCATAGGGTAGAATAACTG
65 TAGGGTAAAATGACCGAAATACCCTCATAGGGTAGAATAACTG
* * * *
26467137 AAATACTCCCATAGGCTAACATGATCAAAATACCCCTATAGGGTAAAATGAC
1 AAATACTCCCATAGGCTAAAATGACCAAAATACCCCCATAGGATAAAATGAC
26467189 TATTATACCT
Statistics
Matches: 232, Mismatches: 30, Indels: 12
0.85 0.11 0.04
Matches are distributed among these distances:
107 3 0.01
108 221 0.95
109 8 0.03
ACGTcount: A:0.41, C:0.22, G:0.17, T:0.20
Consensus pattern (107 bp):
AAATACTCCCATAGGCTAAAATGACCAAAATACCCCCATAGGATAAAATGACCGAAATACCCCAT
AGGGTAAAATGACCGAAATACCCTCATAGGGTAGAATAACTG
Found at i:26470684 original size:28 final size:28
Alignment explanation
Indices: 26470644--26470701 Score: 116
Period size: 28 Copynumber: 2.1 Consensus size: 28
26470634 AAGATGAGGT
26470644 AACTTAGTCATGTGTGCCTATCAAGGAG
1 AACTTAGTCATGTGTGCCTATCAAGGAG
26470672 AACTTAGTCATGTGTGCCTATCAAGGAG
1 AACTTAGTCATGTGTGCCTATCAAGGAG
26470700 AA
1 AA
26470702 TTTCCTAGAT
Statistics
Matches: 30, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
28 30 1.00
ACGTcount: A:0.31, C:0.17, G:0.24, T:0.28
Consensus pattern (28 bp):
AACTTAGTCATGTGTGCCTATCAAGGAG
Found at i:26472265 original size:20 final size:20
Alignment explanation
Indices: 26472192--26472265 Score: 50
Period size: 21 Copynumber: 3.8 Consensus size: 20
26472182 TGTTAAGAAG
26472192 AAATTTTCTA-GTTAAGAA-TT
1 AAATTTT-TATGTTAA-AATTT
*
26472212 AAATTTTT-T-TTTAAATTT
1 AAATTTTTATGTTAAAATTT
* *
26472230 -CATTTGTTCTGTTTAAAATTT
1 AAATTT-TTATG-TTAAAATTT
26472251 AAATTTTTATGTTAA
1 AAATTTTTATGTTAA
26472266 TAAAGGGGGT
Statistics
Matches: 42, Mismatches: 5, Indels: 14
0.69 0.08 0.23
Matches are distributed among these distances:
17 6 0.14
18 7 0.17
19 2 0.05
20 11 0.26
21 12 0.29
22 4 0.10
ACGTcount: A:0.34, C:0.04, G:0.07, T:0.55
Consensus pattern (20 bp):
AAATTTTTATGTTAAAATTT
Found at i:26493349 original size:25 final size:26
Alignment explanation
Indices: 26493296--26493349 Score: 67
Period size: 25 Copynumber: 2.1 Consensus size: 26
26493286 TTCTCCTAAA
* *
26493296 TTTCAATTTTATTTAATTATTTAATT
1 TTTCAATTTTATTGAATTATTAAATT
26493322 TTTCAA-TTTATTGAATTA-TAAATAT
1 TTTCAATTTTATTGAATTATTAAAT-T
26493347 TTT
1 TTT
26493350 ATACTAATTA
Statistics
Matches: 25, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
24 4 0.16
25 15 0.60
26 6 0.24
ACGTcount: A:0.33, C:0.04, G:0.02, T:0.61
Consensus pattern (26 bp):
TTTCAATTTTATTGAATTATTAAATT
Found at i:26495065 original size:50 final size:50
Alignment explanation
Indices: 26494978--26495075 Score: 133
Period size: 50 Copynumber: 2.0 Consensus size: 50
26494968 TTATTAGATA
* * ** *
26494978 TCCCACGTAAGACCATGTCTGGGATATGGTGTTGGCACCGAGATGAGAGG
1 TCCCACGTAAGACCATGTATGGGACATGGCATAGGCACCGAGATGAGAGG
* *
26495028 TCCCCCGTAAGACCATGTATGGGACATGGCATAGGCACCGATATGAGA
1 TCCCACGTAAGACCATGTATGGGACATGGCATAGGCACCGAGATGAGA
26495076 ACTCTCATAT
Statistics
Matches: 41, Mismatches: 7, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
50 41 1.00
ACGTcount: A:0.27, C:0.22, G:0.31, T:0.20
Consensus pattern (50 bp):
TCCCACGTAAGACCATGTATGGGACATGGCATAGGCACCGAGATGAGAGG
Found at i:26495156 original size:49 final size:50
Alignment explanation
Indices: 26495034--26495160 Score: 125
Period size: 49 Copynumber: 2.6 Consensus size: 50
26495024 GAGGTCCCCC
* ** * * *
26495034 GTAAGACCATGTATGGGACATGGCATAGGCACCGATATGAGAACTCTCAT
1 GTAAGACCATGTCTGGGACATGGCATTTGCACAGACAGGAGAACTCTCAT
* * * * *
26495084 ATAAGACCATATCCGGGATATGGCATTTGCA-ATACAGGA-AACATCTCAT
1 GTAAGACCATGTCTGGGACATGGCATTTGCACAGACAGGAGAAC-TCTCAT
26495133 GTAAGACCATGTCTGGGACATGGC-TTTG
1 GTAAGACCATGTCTGGGACATGGCATTTG
26495161 GCATGTTATT
Statistics
Matches: 61, Mismatches: 15, Indels: 4
0.76 0.19 0.05
Matches are distributed among these distances:
48 7 0.11
49 30 0.49
50 24 0.39
ACGTcount: A:0.31, C:0.20, G:0.24, T:0.24
Consensus pattern (50 bp):
GTAAGACCATGTCTGGGACATGGCATTTGCACAGACAGGAGAACTCTCAT
Found at i:26495390 original size:20 final size:20
Alignment explanation
Indices: 26495365--26495413 Score: 57
Period size: 20 Copynumber: 2.5 Consensus size: 20
26495355 TGGGTTATTT
26495365 AAGTAAGCAAGTAAATAAAC
1 AAGTAAGCAAGTAAATAAAC
* *
26495385 AAGTAAG-AGAGTAAGTAAAG
1 AAGTAAGCA-AGTAAATAAAC
26495405 AA-TAAGCAA
1 AAGTAAGCAA
26495414 AGACCATAAT
Statistics
Matches: 25, Mismatches: 2, Indels: 5
0.78 0.06 0.16
Matches are distributed among these distances:
19 6 0.24
20 19 0.76
ACGTcount: A:0.59, C:0.06, G:0.20, T:0.14
Consensus pattern (20 bp):
AAGTAAGCAAGTAAATAAAC
Found at i:26499394 original size:21 final size:21
Alignment explanation
Indices: 26499365--26499406 Score: 59
Period size: 21 Copynumber: 2.0 Consensus size: 21
26499355 TATTAATTCA
26499365 TAATATAA-TTAATTTTAATTT
1 TAATATAATTTAA-TTTAATTT
*
26499386 TAATCTAATTTAATTTAATTT
1 TAATATAATTTAATTTAATTT
26499407 AGGTTAAATA
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
21 15 0.79
22 4 0.21
ACGTcount: A:0.40, C:0.02, G:0.00, T:0.57
Consensus pattern (21 bp):
TAATATAATTTAATTTAATTT
Found at i:26502580 original size:27 final size:27
Alignment explanation
Indices: 26502550--26502719 Score: 134
Period size: 27 Copynumber: 6.3 Consensus size: 27
26502540 TGTCAAGAAT
*
26502550 GGAATGCCTTTGTGGTG-AATTATGAAA
1 GGAAAGCCTTTGTGGTGCAA-TATGAAA
26502577 GG-AA-CACTTTGTGGTGCAATATGAAA
1 GGAAAGC-CTTTGTGGTGCAATATGAAA
* *
26502603 GGAAAGCCTTTATGGCGCAATATGAAA
1 GGAAAGCCTTTGTGGTGCAATATGAAA
* * * *
26502630 -GAAATGTCGTTGTGGCG-AATTATAAAA
1 GGAAA-GCCTTTGTGGTGCAA-TATGAAA
* * * *
26502657 GGAACGTCTATGTGGTGCAATATAAAA
1 GGAAAGCCTTTGTGGTGCAATATGAAA
* * *
26502684 GGAAAGCCTTTTTAGCGCAATATGAAA
1 GGAAAGCCTTTGTGGTGCAATATGAAA
*
26502711 GGAACGCCT
1 GGAAAGCCT
26502720 CTATGGAGAA
Statistics
Matches: 116, Mismatches: 19, Indels: 16
0.77 0.13 0.11
Matches are distributed among these distances:
25 1 0.01
26 26 0.22
27 83 0.72
28 6 0.05
ACGTcount: A:0.35, C:0.12, G:0.26, T:0.26
Consensus pattern (27 bp):
GGAAAGCCTTTGTGGTGCAATATGAAA
Found at i:26502693 original size:81 final size:80
Alignment explanation
Indices: 26502559--26502711 Score: 234
Period size: 81 Copynumber: 1.9 Consensus size: 80
26502549 TGGAATGCCT
* * * * *
26502559 TTGTGGTGAATTATGAAAGGAACACTTTGTGGTGCAATATGAAAGGAAAGCCTTTATGGCGCAAT
1 TTGTGGCGAATTATAAAAGGAACACTATGTGGTGCAATATAAAAGGAAAGCCTTTATAGCGCAAT
26502624 ATGAAAGAAATGTCG
66 ATGAAAGAAATGTCG
* *
26502639 TTGTGGCGAATTATAAAAGGAACGTCTATGTGGTGCAATATAAAAGGAAAGCCTTTTTAGCGCAA
1 TTGTGGCGAATTATAAAAGGAAC-ACTATGTGGTGCAATATAAAAGGAAAGCCTTTATAGCGCAA
26502704 TATGAAAG
65 TATGAAAG
26502712 GAACGCCTCT
Statistics
Matches: 65, Mismatches: 7, Indels: 1
0.89 0.10 0.01
Matches are distributed among these distances:
80 21 0.32
81 44 0.68
ACGTcount: A:0.36, C:0.10, G:0.26, T:0.27
Consensus pattern (80 bp):
TTGTGGCGAATTATAAAAGGAACACTATGTGGTGCAATATAAAAGGAAAGCCTTTATAGCGCAAT
ATGAAAGAAATGTCG
Found at i:26504603 original size:18 final size:18
Alignment explanation
Indices: 26504562--26504604 Score: 50
Period size: 18 Copynumber: 2.4 Consensus size: 18
26504552 ATTCTTCATA
26504562 TTCATCTTTACCTTGAGC
1 TTCATCTTTACCTTGAGC
* * * *
26504580 TCCATCTTTATCTTTATC
1 TTCATCTTTACCTTGAGC
26504598 TTCATCT
1 TTCATCT
26504605 CATTCATCCA
Statistics
Matches: 20, Mismatches: 5, Indels: 0
0.80 0.20 0.00
Matches are distributed among these distances:
18 20 1.00
ACGTcount: A:0.16, C:0.28, G:0.05, T:0.51
Consensus pattern (18 bp):
TTCATCTTTACCTTGAGC
Found at i:26507103 original size:2 final size:2
Alignment explanation
Indices: 26507092--26507124 Score: 50
Period size: 2 Copynumber: 17.0 Consensus size: 2
26507082 TCGATCTAAA
*
26507092 AT AT -T AT AT AT AT AT AT AT AT AT AT AT GT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
26507125 CAATTGAAAA
Statistics
Matches: 28, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
1 1 0.04
2 27 0.96
ACGTcount: A:0.45, C:0.00, G:0.03, T:0.52
Consensus pattern (2 bp):
AT
Found at i:26511721 original size:41 final size:42
Alignment explanation
Indices: 26511675--26511760 Score: 113
Period size: 41 Copynumber: 2.1 Consensus size: 42
26511665 CTCATTTGAC
*
26511675 TTTTGATTTAATTAAATTATGA-AAAGGTTTGATGATAAG-GT
1 TTTTGATTTAATTAAATTATGACAAA-GTTTCATGATAAGTGT
* * *
26511716 TTTTGATTTAATTTATTTATTACAAAGTTTCATGATAAGTGT
1 TTTTGATTTAATTAAATTATGACAAAGTTTCATGATAAGTGT
26511758 TTT
1 TTT
26511761 GTGAATAATT
Statistics
Matches: 39, Mismatches: 4, Indels: 3
0.85 0.09 0.07
Matches are distributed among these distances:
41 31 0.79
42 8 0.21
ACGTcount: A:0.33, C:0.02, G:0.15, T:0.50
Consensus pattern (42 bp):
TTTTGATTTAATTAAATTATGACAAAGTTTCATGATAAGTGT
Found at i:26515083 original size:17 final size:17
Alignment explanation
Indices: 26515061--26515099 Score: 60
Period size: 17 Copynumber: 2.3 Consensus size: 17
26515051 AAGTTAGATA
*
26515061 AAATAATTAAAATAAAT
1 AAATAACTAAAATAAAT
*
26515078 AAATAACTAAGATAAAT
1 AAATAACTAAAATAAAT
26515095 AAATA
1 AAATA
26515100 GAACAATAAA
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
17 20 1.00
ACGTcount: A:0.69, C:0.03, G:0.03, T:0.26
Consensus pattern (17 bp):
AAATAACTAAAATAAAT
Found at i:26516027 original size:27 final size:27
Alignment explanation
Indices: 26515997--26516051 Score: 101
Period size: 27 Copynumber: 2.0 Consensus size: 27
26515987 CATCGATACT
26515997 CATAGGAAGGTGTATCGAAACTTCGTA
1 CATAGGAAGGTGTATCGAAACTTCGTA
*
26516024 CATAGGAAGGTGTATCGAGACTTCGTA
1 CATAGGAAGGTGTATCGAAACTTCGTA
26516051 C
1 C
26516052 TGTAAGTTTG
Statistics
Matches: 27, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
27 27 1.00
ACGTcount: A:0.31, C:0.16, G:0.27, T:0.25
Consensus pattern (27 bp):
CATAGGAAGGTGTATCGAAACTTCGTA
Found at i:26517539 original size:20 final size:22
Alignment explanation
Indices: 26517491--26517539 Score: 57
Period size: 20 Copynumber: 2.3 Consensus size: 22
26517481 GTGATAAAGT
*
26517491 CTCAATTAAGGATAATTATTGA
1 CTCAATTAAGGATAATTAGTGA
* *
26517513 CTTAATT-AGG-TAATTAGTGG
1 CTCAATTAAGGATAATTAGTGA
26517533 CTCAATT
1 CTCAATT
26517540 GATAATAGGC
Statistics
Matches: 23, Mismatches: 4, Indels: 2
0.79 0.14 0.07
Matches are distributed among these distances:
20 14 0.61
21 3 0.13
22 6 0.26
ACGTcount: A:0.35, C:0.10, G:0.16, T:0.39
Consensus pattern (22 bp):
CTCAATTAAGGATAATTAGTGA
Found at i:26518026 original size:33 final size:33
Alignment explanation
Indices: 26517985--26518056 Score: 99
Period size: 33 Copynumber: 2.2 Consensus size: 33
26517975 AGTATTCTAT
* *
26517985 TTTTTGTAGATAATTAACTATTTTAATTTTGAA
1 TTTTTGTAGATAATTAAATATTTTAATTTTAAA
* *
26518018 TTTTTGTAGTTAATTAAATATTTTTATTTTAAA
1 TTTTTGTAGATAATTAAATATTTTAATTTTAAA
26518051 TATTTT
1 T-TTTT
26518057 TACTTACCTT
Statistics
Matches: 34, Mismatches: 4, Indels: 1
0.87 0.10 0.03
Matches are distributed among these distances:
33 30 0.88
34 4 0.12
ACGTcount: A:0.32, C:0.01, G:0.07, T:0.60
Consensus pattern (33 bp):
TTTTTGTAGATAATTAAATATTTTAATTTTAAA
Found at i:26519403 original size:27 final size:27
Alignment explanation
Indices: 26519352--26519403 Score: 70
Period size: 27 Copynumber: 1.9 Consensus size: 27
26519342 CAAAATTGGC
*
26519352 AATCCTAGTTCACCAACCTATTGGCAA
1 AATCCTAGTTCACCAACCTACTGGCAA
*
26519379 AATCCT-GTTCACCAAACGTACTGGC
1 AATCCTAGTTCACC-AACCTACTGGC
26519404 TAACCCTTGT
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
26 7 0.32
27 15 0.68
ACGTcount: A:0.31, C:0.31, G:0.13, T:0.25
Consensus pattern (27 bp):
AATCCTAGTTCACCAACCTACTGGCAA
Found at i:26525795 original size:55 final size:54
Alignment explanation
Indices: 26525729--26525865 Score: 141
Period size: 55 Copynumber: 2.5 Consensus size: 54
26525719 GGTATAGGTT
*
26525729 TCACACAGCCTGCGACACGGCCGTGTGACCGCATTTCGAATA-TACACAAGATCTA
1 TCACACAGCCTGCGACACGGCCGTGTGACCGCATTTCGAATATTACAC-A-ATCAA
* * * ** ** * *
26525784 TCACACGGCCTGTGACATGATCGTGTGAGGGTATTTCGATTATTACACAATCAA
1 TCACACAGCCTGCGACACGGCCGTGTGACCGCATTTCGAATATTACACAATCAA
* *
26525838 GCACACAGCTTGCGACACGGCCGTGTGA
1 TCACACAGCCTGCGACACGGCCGTGTGA
26525866 AATTATTTCG
Statistics
Matches: 64, Mismatches: 17, Indels: 3
0.76 0.20 0.04
Matches are distributed among these distances:
54 25 0.39
55 34 0.53
56 5 0.08
ACGTcount: A:0.27, C:0.27, G:0.23, T:0.23
Consensus pattern (54 bp):
TCACACAGCCTGCGACACGGCCGTGTGACCGCATTTCGAATATTACACAATCAA
Found at i:26533775 original size:6 final size:6
Alignment explanation
Indices: 26533764--26533795 Score: 64
Period size: 6 Copynumber: 5.3 Consensus size: 6
26533754 GAGTATATCA
26533764 TTTTAT TTTTAT TTTTAT TTTTAT TTTTAT TT
1 TTTTAT TTTTAT TTTTAT TTTTAT TTTTAT TT
26533796 CAAATCCATT
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 26 1.00
ACGTcount: A:0.16, C:0.00, G:0.00, T:0.84
Consensus pattern (6 bp):
TTTTAT
Found at i:26536591 original size:54 final size:54
Alignment explanation
Indices: 26536520--26536629 Score: 157
Period size: 54 Copynumber: 2.0 Consensus size: 54
26536510 AATTGAGTTA
* * * *
26536520 AATAATTAAGCTTTATTAAAATATGAAATAGAATAAAAGGATAAAACACACTTG
1 AATAATTAAACTCTATTAAAATATAAAATAGAATAAAAGAATAAAACACACTTG
** *
26536574 AATAATTAAACTCTATTAAAATATAAAATAGAATAGGAGAATAAAACGCACTTG
1 AATAATTAAACTCTATTAAAATATAAAATAGAATAAAAGAATAAAACACACTTG
26536628 AA
1 AA
26536630 CATGATTGAT
Statistics
Matches: 49, Mismatches: 7, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
54 49 1.00
ACGTcount: A:0.55, C:0.08, G:0.11, T:0.26
Consensus pattern (54 bp):
AATAATTAAACTCTATTAAAATATAAAATAGAATAAAAGAATAAAACACACTTG
Found at i:26537512 original size:13 final size:11
Alignment explanation
Indices: 26537476--26537506 Score: 53
Period size: 11 Copynumber: 2.8 Consensus size: 11
26537466 CCGTCCGTAT
26537476 TAATTTTTATA
1 TAATTTTTATA
*
26537487 TTATTTTTATA
1 TAATTTTTATA
26537498 TAATTTTTA
1 TAATTTTTA
26537507 AATATATATA
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
11 18 1.00
ACGTcount: A:0.32, C:0.00, G:0.00, T:0.68
Consensus pattern (11 bp):
TAATTTTTATA
Found at i:26537707 original size:14 final size:14
Alignment explanation
Indices: 26537684--26537720 Score: 56
Period size: 14 Copynumber: 2.6 Consensus size: 14
26537674 TACAATATCC
*
26537684 AAATAATAACAACA
1 AAATAGTAACAACA
26537698 AAATAGTAACAACA
1 AAATAGTAACAACA
*
26537712 TAATAGTAA
1 AAATAGTAA
26537721 AATGGTAGCA
Statistics
Matches: 21, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
14 21 1.00
ACGTcount: A:0.65, C:0.11, G:0.05, T:0.19
Consensus pattern (14 bp):
AAATAGTAACAACA
Found at i:26538980 original size:20 final size:20
Alignment explanation
Indices: 26538946--26538999 Score: 56
Period size: 20 Copynumber: 2.8 Consensus size: 20
26538936 AATTATTGTT
* * *
26538946 TTTTTTTACTATTTTCTTGC
1 TTTTTTTATTGTTTTCTTAC
*
26538966 TTTTTTTATTGTTTTGTTAC
1 TTTTTTTATTGTTTTCTTAC
*
26538986 -TATTTTATTGTTTT
1 TTTTTTTATTGTTTT
26539000 TTTATCACTA
Statistics
Matches: 29, Mismatches: 5, Indels: 1
0.83 0.14 0.03
Matches are distributed among these distances:
19 13 0.45
20 16 0.55
ACGTcount: A:0.11, C:0.07, G:0.07, T:0.74
Consensus pattern (20 bp):
TTTTTTTATTGTTTTCTTAC
Found at i:26538989 original size:31 final size:30
Alignment explanation
Indices: 26538946--26539004 Score: 91
Period size: 31 Copynumber: 1.9 Consensus size: 30
26538936 AATTATTGTT
* *
26538946 TTTTTTTACTATTTTCTTGCTTTTTTTATTG
1 TTTTGTTACTATTTTATTG-TTTTTTTATTG
26538977 TTTTGTTACTATTTTATTGTTTTTTTAT
1 TTTTGTTACTATTTTATTGTTTTTTTAT
26539005 CACTATTTTG
Statistics
Matches: 26, Mismatches: 2, Indels: 1
0.90 0.07 0.03
Matches are distributed among these distances:
30 9 0.35
31 17 0.65
ACGTcount: A:0.12, C:0.07, G:0.07, T:0.75
Consensus pattern (30 bp):
TTTTGTTACTATTTTATTGTTTTTTTATTG
Found at i:26542992 original size:21 final size:21
Alignment explanation
Indices: 26542968--26543016 Score: 89
Period size: 21 Copynumber: 2.3 Consensus size: 21
26542958 TGTAAATATT
26542968 TTATTAAATATTTACGAAGTG
1 TTATTAAATATTTACGAAGTG
*
26542989 TTATTAAATATTTATGAAGTG
1 TTATTAAATATTTACGAAGTG
26543010 TTATTAA
1 TTATTAA
26543017 GGTTGTATTA
Statistics
Matches: 27, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
21 27 1.00
ACGTcount: A:0.39, C:0.02, G:0.12, T:0.47
Consensus pattern (21 bp):
TTATTAAATATTTACGAAGTG
Found at i:26548686 original size:20 final size:20
Alignment explanation
Indices: 26548656--26548693 Score: 60
Period size: 20 Copynumber: 1.9 Consensus size: 20
26548646 TTGAAAGAAA
26548656 AACTCAAAGAGAA-TTGATG
1 AACTCAAAGAGAAGTTGATG
26548675 AACTCAAAAGAGAAGTTGA
1 AACTC-AAAGAGAAGTTGA
26548694 ATAATACTTA
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
19 5 0.29
20 8 0.47
21 4 0.24
ACGTcount: A:0.50, C:0.11, G:0.21, T:0.18
Consensus pattern (20 bp):
AACTCAAAGAGAAGTTGATG
Found at i:26552072 original size:18 final size:19
Alignment explanation
Indices: 26552044--26552079 Score: 56
Period size: 18 Copynumber: 1.9 Consensus size: 19
26552034 TTGATCGAAA
26552044 GGATGTTGAATTATACTTT
1 GGATGTTGAATTATACTTT
*
26552063 GGAT-TTGAATTTTACTT
1 GGATGTTGAATTATACTT
26552080 GCCAACCCAT
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
18 12 0.75
19 4 0.25
ACGTcount: A:0.25, C:0.06, G:0.19, T:0.50
Consensus pattern (19 bp):
GGATGTTGAATTATACTTT
Found at i:26561148 original size:50 final size:50
Alignment explanation
Indices: 26561038--26561237 Score: 206
Period size: 50 Copynumber: 3.9 Consensus size: 50
26561028 ACATTTGGGT
* * *
26561038 GATGAGA--TCCCATGTAAGACCATGTTTGGAACATGGCATTGGCATCATTGA
1 GATGAGAGGTCCCATGTAAGACCATGTCTGGGACATGGCATTGGCA-C--CGA
* *
26561089 GATTATGAGAGGTCTCATGTAAGACCATGTCTGGGACATGGCGTTGGCACCGA
1 G---ATGAGAGGTCCCATGTAAGACCATGTCTGGGACATGGCATTGGCACCGA
** *
26561142 GATGAGAGGTCCCCCGTAAGACCATGTCTGGGACATGGCATGGGCACCGA
1 GATGAGAGGTCCCATGTAAGACCATGTCTGGGACATGGCATTGGCACCGA
* ** * * *
26561192 TATGAGAACTCCCATGTAAGACCATATCTGGGATATGACATTGGCA
1 GATGAGAGGTCCCATGTAAGACCATGTCTGGGACATGGCATTGGCA
26561238 GTACAAGAAA
Statistics
Matches: 125, Mismatches: 19, Indels: 11
0.81 0.12 0.07
Matches are distributed among these distances:
50 81 0.65
51 1 0.01
53 3 0.02
54 6 0.05
55 1 0.01
56 33 0.26
ACGTcount: A:0.28, C:0.20, G:0.28, T:0.23
Consensus pattern (50 bp):
GATGAGAGGTCCCATGTAAGACCATGTCTGGGACATGGCATTGGCACCGA
Found at i:26565964 original size:16 final size:17
Alignment explanation
Indices: 26565936--26565968 Score: 59
Period size: 16 Copynumber: 2.0 Consensus size: 17
26565926 AAGAATAGGA
26565936 ATAAGTTAGAAAATTAG
1 ATAAGTTAGAAAATTAG
26565953 ATAAGTTA-AAAATTAG
1 ATAAGTTAGAAAATTAG
26565969 CAATCGTATC
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
16 8 0.50
17 8 0.50
ACGTcount: A:0.55, C:0.00, G:0.15, T:0.30
Consensus pattern (17 bp):
ATAAGTTAGAAAATTAG
Found at i:26577372 original size:16 final size:16
Alignment explanation
Indices: 26577351--26577384 Score: 68
Period size: 16 Copynumber: 2.1 Consensus size: 16
26577341 AGCTAATAGA
26577351 ATTCAATAAACTTTAT
1 ATTCAATAAACTTTAT
26577367 ATTCAATAAACTTTAT
1 ATTCAATAAACTTTAT
26577383 AT
1 AT
26577385 GAAATTGTGC
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 18 1.00
ACGTcount: A:0.44, C:0.12, G:0.00, T:0.44
Consensus pattern (16 bp):
ATTCAATAAACTTTAT
Found at i:26588439 original size:4 final size:4
Alignment explanation
Indices: 26588430--26588459 Score: 60
Period size: 4 Copynumber: 7.5 Consensus size: 4
26588420 ATTATACAGC
26588430 AATA AATA AATA AATA AATA AATA AATA AA
1 AATA AATA AATA AATA AATA AATA AATA AA
26588460 AGAAATCTTA
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
4 26 1.00
ACGTcount: A:0.77, C:0.00, G:0.00, T:0.23
Consensus pattern (4 bp):
AATA
Found at i:26590544 original size:18 final size:17
Alignment explanation
Indices: 26590504--26590547 Score: 52
Period size: 18 Copynumber: 2.5 Consensus size: 17
26590494 TAGAATACAT
*
26590504 AAAAAAATATAAAATTC
1 AAAAAAATAAAAAATTC
*
26590521 AGAAAATATAAAAAATTCC
1 A-AAAAAATAAAAAATT-C
26590540 AAAAAAAT
1 AAAAAAAT
26590548 TAAATTATTT
Statistics
Matches: 22, Mismatches: 3, Indels: 3
0.79 0.11 0.11
Matches are distributed among these distances:
17 1 0.05
18 19 0.86
19 2 0.09
ACGTcount: A:0.70, C:0.07, G:0.02, T:0.20
Consensus pattern (17 bp):
AAAAAAATAAAAAATTC
Found at i:26592736 original size:15 final size:15
Alignment explanation
Indices: 26592716--26592749 Score: 59
Period size: 15 Copynumber: 2.3 Consensus size: 15
26592706 AAAAGAACAC
*
26592716 AAAAGAGATCCTAAA
1 AAAAGAGATCCCAAA
26592731 AAAAGAGATCCCAAA
1 AAAAGAGATCCCAAA
26592746 AAAA
1 AAAA
26592750 ACTTAGCAAA
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
15 18 1.00
ACGTcount: A:0.65, C:0.15, G:0.12, T:0.09
Consensus pattern (15 bp):
AAAAGAGATCCCAAA
Found at i:26595851 original size:18 final size:19
Alignment explanation
Indices: 26595823--26595964 Score: 86
Period size: 18 Copynumber: 7.6 Consensus size: 19
26595813 GGAGAGGGAA
*
26595823 AGAAAGAAAGAAAGAAAGG
1 AGAAGGAAAGAAAGAAAGG
*
26595842 AG-AGGAAAGAAAGAAA-A
1 AGAAGGAAAGAAAGAAAGG
26595859 AGAAGGAAAGAAAAGGAAAGG
1 AGAAGGAAAG-AAA-GAAAGG
* *
26595880 AGAAGAGAAAAAAAGAAAGAA
1 AGAAG-GAAAGAAAGAAAG-G
* *
26595901 AGAAGAAGAAGAAAAGGAAAAG
1 AGAAGGA-AAG-AAA-GAAAGG
26595923 AG-AGG-AA-AAAG-AA-G
1 AGAAGGAAAGAAAGAAAGG
*
26595937 AAAAGGAAAG-AAGAAA-G
1 AGAAGGAAAGAAAGAAAGG
*
26595954 AAAAGGAAAGA
1 AGAAGGAAAGA
26595965 GAAAAAAAAA
Statistics
Matches: 98, Mismatches: 11, Indels: 29
0.71 0.08 0.21
Matches are distributed among these distances:
14 2 0.02
15 5 0.05
16 6 0.06
17 18 0.18
18 20 0.20
19 7 0.07
20 10 0.10
21 17 0.17
22 9 0.09
23 4 0.04
ACGTcount: A:0.69, C:0.00, G:0.31, T:0.00
Consensus pattern (19 bp):
AGAAGGAAAGAAAGAAAGG
Found at i:26595860 original size:10 final size:10
Alignment explanation
Indices: 26595847--26595975 Score: 59
Period size: 10 Copynumber: 12.4 Consensus size: 10
26595837 AAAGGAGAGG
26595847 AAAGAAAGAA
1 AAAGAAAGAA
*
26595857 AAAGAAGGAA
1 AAAGAAAGAA
* *
26595867 AGA-AAAGGA
1 AAAGAAAGAA
*
26595876 AAGGAGAAGAGA
1 AAAGA-AAGA-A
26595888 AAA-AAAGAA
1 AAAGAAAGAA
26595897 AGAA-AGAAGAA
1 A-AAGA-AAGAA
* *
26595908 GAAGAAAAGGA
1 AAAG-AAAGAA
*
26595919 AAAGAGAGGAA
1 AAAGA-AAGAA
26595930 AAAG-AAGAA
1 AAAGAAAGAA
*
26595939 AAGGAAAGAA
1 AAAGAAAGAA
26595949 GAAAGAAAAGGAA
1 -AAAG-AAA-GAA
* *
26595962 AGAGAAAAAA
1 AAAGAAAGAA
26595972 AAAG
1 AAAG
26595976 NNNNNNNNNN
Statistics
Matches: 88, Mismatches: 19, Indels: 24
0.67 0.15 0.18
Matches are distributed among these distances:
9 14 0.16
10 32 0.36
11 29 0.33
12 10 0.11
13 3 0.03
ACGTcount: A:0.71, C:0.00, G:0.29, T:0.00
Consensus pattern (10 bp):
AAAGAAAGAA
Found at i:26595899 original size:38 final size:38
Alignment explanation
Indices: 26595820--26595972 Score: 140
Period size: 38 Copynumber: 4.0 Consensus size: 38
26595810 AAAGGAGAGG
26595820 GAAAGAAAGAAAG-AAAG-AAAGGAG-AG-GAAAGAAAGA
1 GAAAGAAAGAAAGAAAAGAAAAGGAGAAGAGAAA-AAA-A
* * *
26595856 AAAAGAAGGAAAGAAAAGGAAAGGAGAAGAGAAAAAAA
1 GAAAGAAAGAAAGAAAAGAAAAGGAGAAGAGAAAAAAA
* *
26595894 GAAAGAAAG-AAGAAGAAGAAAAGGAAAAGAGAGGAAAAA
1 GAAAGAAAGAAAGAA-AAGAAAAGGAGAAGAGA-AAAAAA
26595933 G-AAGAAAAGGAAAGAAGAAAGAAAAGGA-AAGAGAAAAAAA
1 GAAAG-AAA-GAAAG-A-AAAGAAAAGGAGAAGAGAAAAAAA
26595973 AAGNNNNNNN
Statistics
Matches: 98, Mismatches: 8, Indels: 18
0.79 0.06 0.15
Matches are distributed among these distances:
36 11 0.11
37 9 0.09
38 33 0.34
39 14 0.14
40 10 0.10
41 9 0.09
42 11 0.11
43 1 0.01
ACGTcount: A:0.70, C:0.00, G:0.30, T:0.00
Consensus pattern (38 bp):
GAAAGAAAGAAAGAAAAGAAAAGGAGAAGAGAAAAAAA
Found at i:26595922 original size:62 final size:62
Alignment explanation
Indices: 26595809--26595964 Score: 169
Period size: 62 Copynumber: 2.5 Consensus size: 62
26595799 GGTGGGGGGC
* * * *
26595809 AAAAGGAGAGG-GAA-AGAAAGAAAGAAAGAAAGGAGAGGAAAGAAAGAAAAAGA-AGGAAA
1 AAAAGGAAAGGAGAAGAGAAAAAAAGAAAGAAAGAAGAAGAAAGAAAGAAAAAGAGAGGAAA
*
26595868 GAAAAGGAAAGGAGAAGAGAAAAAAAGAAAGAAAGAAGAAG-AAGAAAAGGAAAAGAGAGGAAA
1 -AAAAGGAAAGGAGAAGAGAAAAAAAGAAAGAAAGAAGAAGAAAG-AAAGAAAAAGAGAGGAAA
*
26595931 AAGAAGAAAAGGA-AAGAAGAAAGAAAAGGAAAGA
1 AA-AAGGAAAGGAGAAG-AGAAA-AAAA-GAAAGA
26595965 GAAAAAAAAA
Statistics
Matches: 82, Mismatches: 6, Indels: 11
0.83 0.06 0.11
Matches are distributed among these distances:
60 10 0.12
61 6 0.07
62 36 0.44
63 20 0.24
64 4 0.05
65 6 0.07
ACGTcount: A:0.68, C:0.00, G:0.32, T:0.00
Consensus pattern (62 bp):
AAAAGGAAAGGAGAAGAGAAAAAAAGAAAGAAAGAAGAAGAAAGAAAGAAAAAGAGAGGAAA
Found at i:26595923 original size:17 final size:16
Alignment explanation
Indices: 26595844--26595964 Score: 92
Period size: 15 Copynumber: 7.5 Consensus size: 16
26595834 AAGAAAGGAG
*
26595844 AGGAAAGAAAGAAAAAGA
1 AGGAAAG-AAGAAGAA-A
*
26595862 AGGAAAGAA-AAGGAA
1 AGGAAAGAAGAAGAAA
26595877 AGGAGAAG-AGAA-AAA
1 AGGA-AAGAAGAAGAAA
*
26595892 AAGAAAGAAAGAAGAAGA
1 AGGAAAG-AAGAAGAA-A
* *
26595910 AGAAAAGGAA-AAG-AG
1 AGGAAA-GAAGAAGAAA
26595925 AGGAAA-AAGAAGAAA
1 AGGAAAGAAGAAGAAA
26595940 AGGAAAGAAGAAAGAAA
1 AGGAAAGAAG-AAGAAA
26595957 AGGAAAGA
1 AGGAAAGA
26595965 GAAAAAAAAA
Statistics
Matches: 83, Mismatches: 9, Indels: 23
0.72 0.08 0.20
Matches are distributed among these distances:
13 2 0.02
14 6 0.07
15 23 0.28
16 16 0.19
17 21 0.25
18 14 0.17
19 1 0.01
ACGTcount: A:0.69, C:0.00, G:0.31, T:0.00
Consensus pattern (16 bp):
AGGAAAGAAGAAGAAA
Found at i:26595946 original size:48 final size:49
Alignment explanation
Indices: 26595844--26595969 Score: 145
Period size: 48 Copynumber: 2.6 Consensus size: 49
26595834 AAGAAAGGAG
* *
26595844 AGGAAAGAAAGAAAAAGAAGGAAA-GAAAAGGAAAGGAGAAGAGAAAAA
1 AGGAAAGAAAGAAGAAGAAGGAAAGGAAAAGGAAAGGAGAAAAGAAAAA
* * *
26595892 AAGAAAGAAAGAAGAAGAAGAAAAGGAAAA-GAGAGGA-AAAAGAAGAAA
1 AGGAAAGAAAGAAGAAGAAGGAAAGGAAAAGGAAAGGAGAAAAGAA-AAA
26595940 AGGAAAG-AAGAAAGAA-AAGGAAAGAGAAAA
1 AGGAAAGAAAG-AAGAAGAAGGAAAG-GAAAA
26595970 AAAAAGNNNN
Statistics
Matches: 67, Mismatches: 7, Indels: 8
0.82 0.09 0.10
Matches are distributed among these distances:
47 16 0.24
48 46 0.69
49 5 0.07
ACGTcount: A:0.70, C:0.00, G:0.30, T:0.00
Consensus pattern (49 bp):
AGGAAAGAAAGAAGAAGAAGGAAAGGAAAAGGAAAGGAGAAAAGAAAAA
Found at i:26595956 original size:4 final size:4
Alignment explanation
Indices: 26595820--26595904 Score: 68
Period size: 4 Copynumber: 20.8 Consensus size: 4
26595810 AAAGGAGAGG
* *
26595820 GAAA GAAA GAAA GAAA GAAA GGAGAG GAAA GAAA G-AA -AAA GAAG GAAA
1 GAAA GAAA GAAA GAAA GAAA -GA-AA GAAA GAAA GAAA GAAA GAAA GAAA
* *
26595868 GAAAA GGAAA G-GA GAAGA GAAA AAAA GAAA GAAA GAA
1 G-AAA -GAAA GAAA GAA-A GAAA GAAA GAAA GAAA GAA
26595905 GAAGAAGAAA
Statistics
Matches: 65, Mismatches: 8, Indels: 16
0.73 0.09 0.18
Matches are distributed among these distances:
3 6 0.09
4 43 0.66
5 14 0.22
6 2 0.03
ACGTcount: A:0.69, C:0.00, G:0.31, T:0.00
Consensus pattern (4 bp):
GAAA
Found at i:26599376 original size:3 final size:3
Alignment explanation
Indices: 26599368--26599402 Score: 70
Period size: 3 Copynumber: 11.7 Consensus size: 3
26599358 TCTTAATACT
26599368 AAC AAC AAC AAC AAC AAC AAC AAC AAC AAC AAC AA
1 AAC AAC AAC AAC AAC AAC AAC AAC AAC AAC AAC AA
26599403 TAATAATAAT
Statistics
Matches: 32, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 32 1.00
ACGTcount: A:0.69, C:0.31, G:0.00, T:0.00
Consensus pattern (3 bp):
AAC
Found at i:26599495 original size:19 final size:21
Alignment explanation
Indices: 26599471--26599509 Score: 55
Period size: 20 Copynumber: 2.0 Consensus size: 21
26599461 ACTAAAACAA
*
26599471 AAAAT-ATTACAA-AATATAC
1 AAAATAATAACAACAATATAC
26599490 AAAATAATAACAACAATATA
1 AAAATAATAACAACAATATA
26599510 ATCAAAAAAT
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
19 5 0.29
20 6 0.35
21 6 0.35
ACGTcount: A:0.67, C:0.10, G:0.00, T:0.23
Consensus pattern (21 bp):
AAAATAATAACAACAATATAC
Found at i:26599547 original size:11 final size:11
Alignment explanation
Indices: 26599533--26599572 Score: 64
Period size: 11 Copynumber: 3.7 Consensus size: 11
26599523 AAAAAAATAC
26599533 CTTCTTTTTCT
1 CTTCTTTTTCT
26599544 CTTCTTTTTCT
1 CTTCTTTTTCT
*
26599555 C-TCATTTTCT
1 CTTCTTTTTCT
26599565 CTTCTTTT
1 CTTCTTTT
26599573 CCGCAGCAAC
Statistics
Matches: 26, Mismatches: 2, Indels: 2
0.87 0.07 0.07
Matches are distributed among these distances:
10 9 0.35
11 17 0.65
ACGTcount: A:0.03, C:0.28, G:0.00, T:0.70
Consensus pattern (11 bp):
CTTCTTTTTCT
Found at i:26599572 original size:10 final size:11
Alignment explanation
Indices: 26599533--26599573 Score: 50
Period size: 10 Copynumber: 3.9 Consensus size: 11
26599523 AAAAAAATAC
*
26599533 CTTCTTTTTCT
1 CTTCATTTTCT
*
26599544 CTTCTTTTTCT
1 CTTCATTTTCT
26599555 C-TCATTTTCT
1 CTTCATTTTCT
26599565 CTTC-TTTTC
1 CTTCATTTTC
26599574 CGCAGCAACT
Statistics
Matches: 28, Mismatches: 1, Indels: 3
0.88 0.03 0.09
Matches are distributed among these distances:
10 14 0.50
11 14 0.50
ACGTcount: A:0.02, C:0.29, G:0.00, T:0.68
Consensus pattern (11 bp):
CTTCATTTTCT
Found at i:26599727 original size:27 final size:27
Alignment explanation
Indices: 26599655--26599728 Score: 87
Period size: 27 Copynumber: 2.7 Consensus size: 27
26599645 AATACGAATA
26599655 GTGCCGCCAAT-CAATATGGCACCATTG
1 GTGCCGCCAATGCAAT-TGGCACCATTG
*** *
26599682 GTGCCGCCAATGGTTTTGGCACCTTTG
1 GTGCCGCCAATGCAATTGGCACCATTG
*
26599709 GTGCCGCCAATGCCATTGGC
1 GTGCCGCCAATGCAATTGGC
26599729 GTGACCAAGG
Statistics
Matches: 39, Mismatches: 7, Indels: 2
0.81 0.15 0.04
Matches are distributed among these distances:
27 38 0.97
28 1 0.03
ACGTcount: A:0.18, C:0.30, G:0.27, T:0.26
Consensus pattern (27 bp):
GTGCCGCCAATGCAATTGGCACCATTG
Found at i:26599857 original size:25 final size:27
Alignment explanation
Indices: 26599791--26599858 Score: 95
Period size: 27 Copynumber: 2.6 Consensus size: 27
26599781 TGTTTTTTTG
*
26599791 ATATATTTTGGTAAATAAAAAAATTAT
1 ATATATTTTGGTAATTAAAAAAATTAT
*
26599818 ATATTTTTTGGTAATTAAAAAAA-TAT
1 ATATATTTTGGTAATTAAAAAAATTAT
*
26599844 A-ATATTTTGATAATT
1 ATATATTTTGGTAATT
26599859 TTTTATTTTT
Statistics
Matches: 37, Mismatches: 4, Indels: 2
0.86 0.09 0.05
Matches are distributed among these distances:
25 12 0.32
26 4 0.11
27 21 0.57
ACGTcount: A:0.47, C:0.00, G:0.07, T:0.46
Consensus pattern (27 bp):
ATATATTTTGGTAATTAAAAAAATTAT
Found at i:26618390 original size:16 final size:18
Alignment explanation
Indices: 26618364--26618403 Score: 57
Period size: 17 Copynumber: 2.3 Consensus size: 18
26618354 TTTAATTAGA
26618364 TAAATTAATTTT-TCAAT
1 TAAATTAATTTTCTCAAT
26618381 TAAA-TAATTTTCTCAAT
1 TAAATTAATTTTCTCAAT
*
26618398 TCAATT
1 TAAATT
26618404 CTAATTCTAT
Statistics
Matches: 20, Mismatches: 1, Indels: 3
0.83 0.04 0.12
Matches are distributed among these distances:
16 7 0.35
17 12 0.60
18 1 0.05
ACGTcount: A:0.40, C:0.10, G:0.00, T:0.50
Consensus pattern (18 bp):
TAAATTAATTTTCTCAAT
Found at i:26619897 original size:50 final size:50
Alignment explanation
Indices: 26619773--26620010 Score: 217
Period size: 50 Copynumber: 4.7 Consensus size: 50
26619763 GATGAGATCT
* * * * *
26619773 CATGTAAGACCATGTTTGGAACATGGCATTGGCATCATTGAGATTATGAGGGCCC
1 CATGTAAGACCATGTCTGGGACATGGCATTGGCA-C-CT-AGATGA-GA-GGTCC
26619828 CATGTAAGACCATGTCTGGGACATGGCATTGGCACCTAGATGAGAGGTCC
1 CATGTAAGACCATGTCTGGGACATGGCATTGGCACCTAGATGAGAGGTCC
** * * * **
26619878 CCCGTAAGACCATGTCTGGGACATGGCATGGGCACCGATATGAGAACTCC
1 CATGTAAGACCATGTCTGGGACATGGCATTGGCACCTAGATGAGAGGTCC
* * * * * * * * **
26619928 CATGTAAGACCATATATGGGATATAGCATTGGCA-GTACAGGAAACATCC
1 CATGTAAGACCATGTCTGGGACATGGCATTGGCACCTAGATGAGAGGTCC
*
26619977 CATGTAAGACCATGTCTGGGACATGGCTTTGGCA
1 CATGTAAGACCATGTCTGGGACATGGCATTGGCA
26620011 TGTTATTATC
Statistics
Matches: 152, Mismatches: 31, Indels: 6
0.80 0.16 0.03
Matches are distributed among these distances:
49 37 0.24
50 74 0.49
51 2 0.01
52 5 0.03
53 1 0.01
54 1 0.01
55 32 0.21
ACGTcount: A:0.28, C:0.21, G:0.27, T:0.23
Consensus pattern (50 bp):
CATGTAAGACCATGTCTGGGACATGGCATTGGCACCTAGATGAGAGGTCC
Found at i:26622409 original size:15 final size:16
Alignment explanation
Indices: 26622379--26622410 Score: 57
Period size: 16 Copynumber: 2.1 Consensus size: 16
26622369 TTATATTATA
26622379 AAAATATTATTAAATT
1 AAAATATTATTAAATT
26622395 AAAATATTA-TAAATT
1 AAAATATTATTAAATT
26622410 A
1 A
26622411 TATTAATTAA
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
15 7 0.44
16 9 0.56
ACGTcount: A:0.59, C:0.00, G:0.00, T:0.41
Consensus pattern (16 bp):
AAAATATTATTAAATT
Found at i:26622414 original size:25 final size:26
Alignment explanation
Indices: 26622371--26622424 Score: 76
Period size: 24 Copynumber: 2.1 Consensus size: 26
26622361 TTCTTGATTT
26622371 ATATTATAAAAATATTATTAAATTAAA
1 ATATTATAAAAATATTATT-AATTAAA
*
26622398 ATATTAT-AAATTA-TATTAATTAAA
1 ATATTATAAAAATATTATTAATTAAA
26622422 ATA
1 ATA
26622425 AAAATAATAT
Statistics
Matches: 26, Mismatches: 1, Indels: 3
0.87 0.03 0.10
Matches are distributed among these distances:
24 10 0.38
25 4 0.15
26 5 0.19
27 7 0.27
ACGTcount: A:0.57, C:0.00, G:0.00, T:0.43
Consensus pattern (26 bp):
ATATTATAAAAATATTATTAATTAAA
Found at i:26622438 original size:28 final size:28
Alignment explanation
Indices: 26622382--26622440 Score: 75
Period size: 28 Copynumber: 2.1 Consensus size: 28
26622372 TATTATAAAA
* *
26622382 ATATTATTAAATTAAAATATTATAAATT
1 ATATTATTAAAATAAAATATAATAAATT
*
26622410 ATATTAATTAAAATAAAA-ATAATATATT
1 ATATT-ATTAAAATAAAATATAATAAATT
26622438 ATA
1 ATA
26622441 GGGAACAAAT
Statistics
Matches: 27, Mismatches: 3, Indels: 2
0.84 0.09 0.06
Matches are distributed among these distances:
28 16 0.59
29 11 0.41
ACGTcount: A:0.58, C:0.00, G:0.00, T:0.42
Consensus pattern (28 bp):
ATATTATTAAAATAAAATATAATAAATT
Found at i:26623127 original size:108 final size:106
Alignment explanation
Indices: 26622940--26623139 Score: 328
Period size: 108 Copynumber: 1.9 Consensus size: 106
26622930 TGGATTGAGA
* *
26622940 TTTAAGAGGATATTTGGCTATTTGGTCAAACGAGAAATCGAAACCCAGCACATTAGGGCACGTTT
1 TTTAAAAGGATATTTGGATATTTGGTCAAACGAGAAATCGAAACCCAGCACATTAGGGCACGTTT
*
26623005 CCTCGAATTTCCAAACGCAAAATATTGTCTTACTTCGAAAT
66 CCTCGAATTTCCAAACGCAAAACATTGTCTTACTTCGAAAT
* *
26623046 TTTAAAAGGATATTTGGATATTTGGTCGAACGAGAAAAATCGAAACCCAGCACATTAGGGCGCGT
1 TTTAAAAGGATATTTGGATATTTGGTCAAACGAG--AAATCGAAACCCAGCACATTAGGGCACGT
*
26623111 TTTCTCGAATTTCCAAACGCAAAACATTG
64 TTCCTCGAATTTCCAAACGCAAAACATTG
26623140 CCTTTATTAT
Statistics
Matches: 86, Mismatches: 6, Indels: 2
0.91 0.06 0.02
Matches are distributed among these distances:
106 31 0.36
108 55 0.64
ACGTcount: A:0.34, C:0.19, G:0.19, T:0.28
Consensus pattern (106 bp):
TTTAAAAGGATATTTGGATATTTGGTCAAACGAGAAATCGAAACCCAGCACATTAGGGCACGTTT
CCTCGAATTTCCAAACGCAAAACATTGTCTTACTTCGAAAT
Found at i:26624481 original size:11 final size:12
Alignment explanation
Indices: 26624452--26624481 Score: 53
Period size: 12 Copynumber: 2.6 Consensus size: 12
26624442 ATACACGTAT
26624452 ATGTATATAAAA
1 ATGTATATAAAA
26624464 ATGTATATAAAA
1 ATGTATATAAAA
26624476 AT-TATA
1 ATGTATA
26624482 AAATATAAAA
Statistics
Matches: 18, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
11 4 0.22
12 14 0.78
ACGTcount: A:0.57, C:0.00, G:0.07, T:0.37
Consensus pattern (12 bp):
ATGTATATAAAA
Found at i:26625081 original size:23 final size:24
Alignment explanation
Indices: 26625055--26625099 Score: 56
Period size: 23 Copynumber: 1.9 Consensus size: 24
26625045 TTGGAAGCCT
26625055 ATTTAAGTCAGTTTTT-TTTCTAG
1 ATTTAAGTCAGTTTTTCTTTCTAG
* * *
26625078 ATTTCATTCATTTTTTCTTTCT
1 ATTTAAGTCAGTTTTTCTTTCT
26625100 TCAAAAAAAC
Statistics
Matches: 18, Mismatches: 3, Indels: 1
0.82 0.14 0.05
Matches are distributed among these distances:
23 13 0.72
24 5 0.28
ACGTcount: A:0.18, C:0.13, G:0.07, T:0.62
Consensus pattern (24 bp):
ATTTAAGTCAGTTTTTCTTTCTAG
Found at i:26625868 original size:22 final size:22
Alignment explanation
Indices: 26625843--26625887 Score: 56
Period size: 22 Copynumber: 2.0 Consensus size: 22
26625833 GTAAGTAAGT
26625843 AAAACAA-AAAAGAAAAAGAAAC
1 AAAACAAGAAAAG-AAAAGAAAC
* *
26625865 AAAAGAAGAACAGAAAAGAAAC
1 AAAACAAGAAAAGAAAAGAAAC
26625887 A
1 A
26625888 GAGAAAGAGA
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
22 16 0.80
23 4 0.20
ACGTcount: A:0.78, C:0.09, G:0.13, T:0.00
Consensus pattern (22 bp):
AAAACAAGAAAAGAAAAGAAAC
Found at i:26626392 original size:23 final size:22
Alignment explanation
Indices: 26626365--26626448 Score: 102
Period size: 21 Copynumber: 3.9 Consensus size: 22
26626355 TTTGCCGATT
26626365 AGGCACTTTATGTGTCGTATCTC
1 AGGCACTTTATGTGTCGTAT-TC
*
26626388 AGGCACTTTATATGTCGTA-TC
1 AGGCACTTTATGTGTCGTATTC
* **
26626409 AGGCACCTCGTGTGTCGT-TTC
1 AGGCACTTTATGTGTCGTATTC
26626430 AGGCAC-TTATGTGTCGTAT
1 AGGCACTTTATGTGTCGTAT
26626449 ACTGATCAGG
Statistics
Matches: 52, Mismatches: 7, Indels: 6
0.80 0.11 0.09
Matches are distributed among these distances:
20 9 0.17
21 25 0.48
23 18 0.35
ACGTcount: A:0.18, C:0.21, G:0.24, T:0.37
Consensus pattern (22 bp):
AGGCACTTTATGTGTCGTATTC
Found at i:26629948 original size:22 final size:21
Alignment explanation
Indices: 26629921--26630005 Score: 59
Period size: 22 Copynumber: 4.0 Consensus size: 21
26629911 CAAGAGTTAT
26629921 AAAATAACAACAAAATAGTAG
1 AAAATAACAACAAAATAGTAG
**
26629942 AACAATAGTGAA-AAAATA--AG
1 AA-AATA-ACAACAAAATAGTAG
* * *
26629962 AAAATAGCAACAAAACAGTAAA
1 AAAATAACAACAAAATAGT-AG
*
26629984 AAAACAACAACAAAAATAGTAG
1 AAAATAACAAC-AAAATAGTAG
26630006 TTTTTTTGCA
Statistics
Matches: 47, Mismatches: 10, Indels: 13
0.67 0.14 0.19
Matches are distributed among these distances:
18 2 0.04
19 9 0.19
20 4 0.09
21 2 0.04
22 21 0.45
23 9 0.19
ACGTcount: A:0.67, C:0.11, G:0.11, T:0.12
Consensus pattern (21 bp):
AAAATAACAACAAAATAGTAG
Found at i:26632888 original size:20 final size:20
Alignment explanation
Indices: 26632855--26632904 Score: 64
Period size: 20 Copynumber: 2.5 Consensus size: 20
26632845 TTGTACAGGT
* * *
26632855 TTAATAAATTTATTTAAAAA
1 TTAATTAATATATTGAAAAA
26632875 TTAATTAATATATTGAAAAA
1 TTAATTAATATATTGAAAAA
26632895 TTAATGTAAT
1 TTAAT-TAAT
26632905 TATAAAATAT
Statistics
Matches: 26, Mismatches: 3, Indels: 1
0.87 0.10 0.03
Matches are distributed among these distances:
20 22 0.85
21 4 0.15
ACGTcount: A:0.52, C:0.00, G:0.04, T:0.44
Consensus pattern (20 bp):
TTAATTAATATATTGAAAAA
Found at i:26633371 original size:15 final size:16
Alignment explanation
Indices: 26633338--26633372 Score: 54
Period size: 15 Copynumber: 2.2 Consensus size: 16
26633328 TAAGTTTAAT
*
26633338 AATTTAATAATTATTA
1 AATTTAATAATTATAA
26633354 AATTTAAT-ATTATAA
1 AATTTAATAATTATAA
26633369 AATT
1 AATT
26633373 AAAAGCTAAT
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
15 10 0.56
16 8 0.44
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (16 bp):
AATTTAATAATTATAA
Found at i:26641925 original size:53 final size:53
Alignment explanation
Indices: 26641841--26641945 Score: 201
Period size: 53 Copynumber: 2.0 Consensus size: 53
26641831 CCGTATTGGA
26641841 AACATTGTACCGAGAGATGTGCGGGGCGACACCACCAAATAAAGCCAAAATCC
1 AACATTGTACCGAGAGATGTGCGGGGCGACACCACCAAATAAAGCCAAAATCC
*
26641894 AACATTGTACCGAGAGATGTGCGGGGTGACACCACCAAATAAAGCCAAAATC
1 AACATTGTACCGAGAGATGTGCGGGGCGACACCACCAAATAAAGCCAAAATC
26641946 GGAGGTTGCC
Statistics
Matches: 51, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
53 51 1.00
ACGTcount: A:0.38, C:0.25, G:0.23, T:0.14
Consensus pattern (53 bp):
AACATTGTACCGAGAGATGTGCGGGGCGACACCACCAAATAAAGCCAAAATCC
Found at i:26642637 original size:15 final size:14
Alignment explanation
Indices: 26642610--26642639 Score: 51
Period size: 15 Copynumber: 2.1 Consensus size: 14
26642600 CGGGATCACT
26642610 ACTAATATAATCTA
1 ACTAATATAATCTA
26642624 ACTAATACTAATCTA
1 ACTAATA-TAATCTA
26642639 A
1 A
26642640 TACTAATAGA
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
14 7 0.47
15 8 0.53
ACGTcount: A:0.50, C:0.17, G:0.00, T:0.33
Consensus pattern (14 bp):
ACTAATATAATCTA
Found at i:26642641 original size:11 final size:11
Alignment explanation
Indices: 26642609--26642646 Score: 53
Period size: 11 Copynumber: 3.6 Consensus size: 11
26642599 CCGGGATCAC
*
26642609 TACTAATATAA
1 TACTAATCTAA
26642620 T-CTAA-CTAA
1 TACTAATCTAA
26642629 TACTAATCTAA
1 TACTAATCTAA
26642640 TACTAAT
1 TACTAAT
26642647 AGAATATAAT
Statistics
Matches: 24, Mismatches: 1, Indels: 4
0.83 0.03 0.14
Matches are distributed among these distances:
9 4 0.17
10 8 0.33
11 12 0.50
ACGTcount: A:0.47, C:0.16, G:0.00, T:0.37
Consensus pattern (11 bp):
TACTAATCTAA
Found at i:26643366 original size:18 final size:18
Alignment explanation
Indices: 26643339--26643374 Score: 63
Period size: 18 Copynumber: 2.0 Consensus size: 18
26643329 TGCCAGGTGC
*
26643339 GTATCCTAACCCTTATAT
1 GTATCATAACCCTTATAT
26643357 GTATCATAACCCTTATAT
1 GTATCATAACCCTTATAT
26643375 ATTTCATTTT
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
18 17 1.00
ACGTcount: A:0.31, C:0.25, G:0.06, T:0.39
Consensus pattern (18 bp):
GTATCATAACCCTTATAT
Found at i:26643381 original size:18 final size:18
Alignment explanation
Indices: 26643340--26643381 Score: 57
Period size: 18 Copynumber: 2.3 Consensus size: 18
26643330 GCCAGGTGCG
* *
26643340 TATCCTAACCCTTATATG
1 TATCATAACCCTTATATA
26643358 TATCATAACCCTTATATA
1 TATCATAACCCTTATATA
*
26643376 TTTCAT
1 TATCAT
26643382 TTTCCCAGTC
Statistics
Matches: 21, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
18 21 1.00
ACGTcount: A:0.31, C:0.24, G:0.02, T:0.43
Consensus pattern (18 bp):
TATCATAACCCTTATATA
Found at i:26643858 original size:62 final size:60
Alignment explanation
Indices: 26643738--26643862 Score: 162
Period size: 62 Copynumber: 2.0 Consensus size: 60
26643728 TATATTTGTA
* * ***
26643738 CAAATTGTTTTTATATTCTTTCATTTAATAAAATAAAAGTTGTTTTGAATATTTTAATAG
1 CAAATTATTTTTATATTCTTTCATTTAATAAAATAAAAGTTCTTTTGAATAAGGTAATAG
*
26643798 CAAATTATTTTTATATT-TTGTCTTATTTAATAAAATAGAAGTTCTTTTGAATAAGGTAATAG
1 CAAATTATTTTTATATTCTT-TC--ATTTAATAAAATAAAAGTTCTTTTGAATAAGGTAATAG
26643860 CAA
1 CAA
26643863 TAATGCAACA
Statistics
Matches: 56, Mismatches: 6, Indels: 4
0.85 0.09 0.06
Matches are distributed among these distances:
59 2 0.04
60 18 0.32
62 36 0.64
ACGTcount: A:0.38, C:0.06, G:0.10, T:0.47
Consensus pattern (60 bp):
CAAATTATTTTTATATTCTTTCATTTAATAAAATAAAAGTTCTTTTGAATAAGGTAATAG
Found at i:26647101 original size:126 final size:125
Alignment explanation
Indices: 26646876--26647375 Score: 712
Period size: 126 Copynumber: 4.0 Consensus size: 125
26646866 GGCCAAATAG
* * *
26646876 GAACTACTGTAGAAAAAGAACGTCCATGTGGGAGCCTTTTTCAGTAATTTTGCTGACAGTGCATA
1 GAACTACTGTAGAAAAAGAACGTCCACGTGGGAGCTTTTTTCAGTAATTTTGCTGACAGTGCATC
* * ** * * *
26646941 TTGCTTGAAGTATTTTTGACACTATTTTTTCAGAACTGTCTTCTCAAAATTATTTTTATAA
66 CTGCTTAAAGCGTTTTTGACATTATCTTTTCAGAACCGTCTTCTCAAAATTATTTTT-TAA
* * * *
26647002 GAACTACTGTAGAAAAAGAGCGTTCACGTGGGAGCTTTTTTCAGTAATTTTGCTGATAATGCATC
1 GAACTACTGTAGAAAAAGAACGTCCACGTGGGAGCTTTTTTCAGTAATTTTGCTGACAGTGCATC
* * * *
26647067 CTGCTTGAAGCTTTTTTGACATTATTTTTTCAGAACCGTTTTCTCAAAATTATTTTTTCAA
66 CTGCTTAAAGCGTTTTTGACATTATCTTTTCAGAACCGTCTTCTCAAAATTATTTTTT-AA
* * * *
26647128 GAACTACTGTAGAAAAAGAGCATCCACGTAGGAGCTTTTTTCATTAATTTTGCTGACAGTGCATC
1 GAACTACTGTAGAAAAAGAACGTCCACGTGGGAGCTTTTTTCAGTAATTTTGCTGACAGTGCATC
* *
26647193 TTGCTTAAAGCGTTTTTGACATTATCTTTTCAGAACCGTCTTCTCAAAATTATTTTTTAG
66 CTGCTTAAAGCGTTTTTGACATTATCTTTTCAGAACCGTCTTCTCAAAATTATTTTTTAA
* * * *
26647253 GAACTACTATAGAAAAATAACGTCTACGTGGGAGCTTTTTTCAGTAATTTTGCTGACGGTGCATC
1 GAACTACTGTAGAAAAAGAACGTCCACGTGGGAGCTTTTTTCAGTAATTTTGCTGACAGTGCATC
* *
26647318 CTACTTAAAGCGTTTTTGACATTATCTTTTCAGAACCGTCTTCTCAAAATTAATTTTT
66 CTGCTTAAAGCGTTTTTGACATTATCTTTTCAGAACCGTCTTCTCAAAATTATTTTTT
26647376 CTGAAACTAC
Statistics
Matches: 337, Mismatches: 36, Indels: 3
0.90 0.10 0.01
Matches are distributed among these distances:
125 114 0.34
126 223 0.66
ACGTcount: A:0.28, C:0.17, G:0.16, T:0.39
Consensus pattern (125 bp):
GAACTACTGTAGAAAAAGAACGTCCACGTGGGAGCTTTTTTCAGTAATTTTGCTGACAGTGCATC
CTGCTTAAAGCGTTTTTGACATTATCTTTTCAGAACCGTCTTCTCAAAATTATTTTTTAA
Found at i:26647386 original size:251 final size:252
Alignment explanation
Indices: 26646876--26647376 Score: 745
Period size: 251 Copynumber: 2.0 Consensus size: 252
26646866 GGCCAAATAG
* * *
26646876 GAACTACTGTAGAAAAAGAACGTCCATGTGGGAGCCTTTTTCAGTAATTTTGCTGACAGTGCATA
1 GAACTACTGTAGAAAAAGAACATCCACGTAGGAGCCTTTTTCAGTAATTTTGCTGACAGTGCATA
* * * *
26646941 TTGCTTGAAGTATTTTTGACACTATTTTTTCAGAACTGTCTTCTCAAAATTATTTTTATAAGAAC
66 TTGCTTAAAGCATTTTTGACACTATCTTTTCAGAACCGTCTTCTCAAAATTATTTTTATAAGAAC
* * * *
26647006 TACTGTAGAAAAAGAGCGTTCACGTGGGAGCTTTTTTCAGTAATTTTGCTGATAATGCATCCTGC
131 TACTATAGAAAAAGAACGTTCACGTGGGAGCTTTTTTCAGTAATTTTGCTGACAATGCATCCTAC
* * * * *
26647071 TTGAAGCTTTTTTGACATTATTTTTTCAGAACCGTTTTCTCAAAATTATTTTTTCAA
196 TTAAAGCGTTTTTGACATTATCTTTTCAGAACCGTCTTCTCAAAATTAATTTTTCAA
* * * *
26647128 GAACTACTGTAGAAAAAGAGCATCCACGTAGGAGCTTTTTTCATTAATTTTGCTGACAGTGCATC
1 GAACTACTGTAGAAAAAGAACATCCACGTAGGAGCCTTTTTCAGTAATTTTGCTGACAGTGCATA
* * *
26647193 TTGCTTAAAGCGTTTTTGACATTATCTTTTCAGAACCGTCTTCTCAAAATTATTTTT-TAGGAAC
66 TTGCTTAAAGCATTTTTGACACTATCTTTTCAGAACCGTCTTCTCAAAATTATTTTTATAAGAAC
* **
26647257 TACTATAGAAAAATAACG-TCTACGTGGGAGCTTTTTTCAGTAATTTTGCTGACGGTGCATCCTA
131 TACTATAGAAAAAGAACGTTC-ACGTGGGAGCTTTTTTCAGTAATTTTGCTGACAATGCATCCTA
26647321 CTTAAAGCGTTTTTGACATTATCTTTTCAGAACCGTCTTCTCAAAATTAATTTTTC
195 CTTAAAGCGTTTTTGACATTATCTTTTCAGAACCGTCTTCTCAAAATTAATTTTTC
26647377 TGAAACTACT
Statistics
Matches: 222, Mismatches: 26, Indels: 3
0.88 0.10 0.01
Matches are distributed among these distances:
250 2 0.01
251 111 0.50
252 109 0.49
ACGTcount: A:0.28, C:0.17, G:0.16, T:0.39
Consensus pattern (252 bp):
GAACTACTGTAGAAAAAGAACATCCACGTAGGAGCCTTTTTCAGTAATTTTGCTGACAGTGCATA
TTGCTTAAAGCATTTTTGACACTATCTTTTCAGAACCGTCTTCTCAAAATTATTTTTATAAGAAC
TACTATAGAAAAAGAACGTTCACGTGGGAGCTTTTTTCAGTAATTTTGCTGACAATGCATCCTAC
TTAAAGCGTTTTTGACATTATCTTTTCAGAACCGTCTTCTCAAAATTAATTTTTCAA
Found at i:26647515 original size:34 final size:33
Alignment explanation
Indices: 26647481--26647606 Score: 128
Period size: 34 Copynumber: 3.7 Consensus size: 33
26647471 CAAAAATTAT
* *
26647481 TTTAAAAAACTAAACCCTAATTTAATTAATTTA
1 TTTAAAAACCTAAAACCTAATTTAATTAATTTA
* **
26647514 TTTAAAACCCCTAAAATATAATTTAATTAATTTA
1 TTTAAAA-ACCTAAAACCTAATTTAATTAATTTA
*
26647548 TTTAAAACCCTTAAAACCTAATTTAATTAATTT-
1 TTTAAAAACC-TAAAACCTAATTTAATTAATTTA
* * *
26647581 TTAGAAAAATTCTAAACCCTAATTTA
1 TT-TAAAAA-CCTAAAACCTAATTTA
26647607 TTTTTTAAAA
Statistics
Matches: 78, Mismatches: 11, Indels: 7
0.81 0.11 0.07
Matches are distributed among these distances:
33 12 0.15
34 65 0.83
35 1 0.01
ACGTcount: A:0.46, C:0.13, G:0.01, T:0.40
Consensus pattern (33 bp):
TTTAAAAACCTAAAACCTAATTTAATTAATTTA
Found at i:26661866 original size:51 final size:51
Alignment explanation
Indices: 26661746--26661984 Score: 252
Period size: 51 Copynumber: 4.7 Consensus size: 51
26661736 AAAGTGATGG
* * *** *
26661746 TCACGTGTGCAGTACTATGTGAAGGCTACTACGTGTACCGGA-A-TGAAAGG
1 TCACGTGTGTAGTACTATGTGCAGGCTACTACGTGTACCGGATAGT-TTTGA
* * * * *
26661796 TCTCATGTGTAGTACTATGTGCAGGCTACTATGCGTACCAGATAGTTTTGA
1 TCACGTGTGTAGTACTATGTGCAGGCTACTACGTGTACCGGATAGTTTTGA
* * * * *
26661847 TCACGTGTGTAGTACTATGTGCAAGCTACTACATGTATCGGATA-TTAATGG
1 TCACGTGTGTAGTACTATGTGCAGGCTACTACGTGTACCGGATAGTT-TTGA
* *
26661898 TCACGTGTGTAGTACTATGTGCAGGCTACTACGTGAACCGGAAAG-TTTGA
1 TCACGTGTGTAGTACTATGTGCAGGCTACTACGTGTACCGGATAGTTTTGA
* *
26661948 TCACGTGTGTAATACTATGTGAAGGCTACTACGTGTA
1 TCACGTGTGTAGTACTATGTGCAGGCTACTACGTGTA
26661985 TTGAATGATA
Statistics
Matches: 154, Mismatches: 31, Indels: 8
0.80 0.16 0.04
Matches are distributed among these distances:
50 73 0.47
51 80 0.52
52 1 0.01
ACGTcount: A:0.26, C:0.17, G:0.26, T:0.31
Consensus pattern (51 bp):
TCACGTGTGTAGTACTATGTGCAGGCTACTACGTGTACCGGATAGTTTTGA
Found at i:26661985 original size:101 final size:101
Alignment explanation
Indices: 26661746--26661985 Score: 331
Period size: 101 Copynumber: 2.4 Consensus size: 101
26661736 AAAGTGATGG
* * *
26661746 TCACGTGTGCAGTACTATGTGAAGGCTACTACGTGTACCGGAATGAAAGGTCTCATGTGTAGTAC
1 TCACGTGTGTAGTACTATGTGAAGGCTACTACGTGTATCGGAATGAAAGGTCACATGTGTAGTAC
* * *
26661811 TATGTGCAGGCTACTATGCGTACCAGATAGTTTTGA
66 TATGTGCAGGCTACTACGCGAACCAGAAAGTTTTGA
* * * *
26661847 TCACGTGTGTAGTACTATGTGCAA-GCTACTACATGTATCGGATATTAATGGTCACGTGTGTAGT
1 TCACGTGTGTAGTACTATGTG-AAGGCTACTACGTGTATCGGA-ATGAAAGGTCACATGTGTAGT
* *
26661911 ACTATGTGCAGGCTACTACGTGAACCGGAAAG-TTTGA
64 ACTATGTGCAGGCTACTACGCGAACCAGAAAGTTTTGA
*
26661948 TCACGTGTGTAATACTATGTGAAGGCTACTACGTGTAT
1 TCACGTGTGTAGTACTATGTGAAGGCTACTACGTGTAT
26661986 TGAATGATAA
Statistics
Matches: 122, Mismatches: 14, Indels: 6
0.86 0.10 0.04
Matches are distributed among these distances:
100 2 0.02
101 74 0.61
102 46 0.38
ACGTcount: A:0.26, C:0.17, G:0.26, T:0.31
Consensus pattern (101 bp):
TCACGTGTGTAGTACTATGTGAAGGCTACTACGTGTATCGGAATGAAAGGTCACATGTGTAGTAC
TATGTGCAGGCTACTACGCGAACCAGAAAGTTTTGA
Found at i:26662014 original size:101 final size:100
Alignment explanation
Indices: 26661746--26662021 Score: 308
Period size: 101 Copynumber: 2.7 Consensus size: 100
26661736 AAAGTGATGG
* * * * *
26661746 TCACGTGTGCAGTACTATGTGAAGGCTACTACGTGTACCGGAATGA-AAGGTCTCATGTGTAGTA
1 TCACGTGTGTAGTACTATGTGAAGGCTACTACGTGTATC-GAATGATAATGT-TCACGGGTAGTA
* * *
26661810 CTATGTGCAGGCTACTATGCGTACCAGATAGTTTTGA
64 CTATGTGCAGGCTACTACGCGAACCAGAAAGTTTTGA
* * *
26661847 TCACGTGTGTAGTACTATGTGCAA-GCTACTACATGTATCGGAT-ATTAATGGTCACGTGTGTAG
1 TCACGTGTGTAGTACTATGTG-AAGGCTACTACGTGTATCGAATGA-TAATGTTCACG-G-GTAG
* *
26661910 TACTATGTGCAGGCTACTACGTGAACCGGAAAG-TTTGA
62 TACTATGTGCAGGCTACTACGCGAACCAGAAAGTTTTGA
* * *
26661948 TCACGTGTGTAATACTATGTGAAGGCTACTACGTGTATTGAATGATAATAGTTACACGGGTGGTA
1 TCACGTGTGTAGTACTATGTGAAGGCTACTACGTGTATCGAATGATAAT-GTT-CACGGGTAGTA
26662013 CTATGTGCA
64 CTATGTGCA
26662022 AACCACCGAA
Statistics
Matches: 147, Mismatches: 19, Indels: 18
0.80 0.10 0.10
Matches are distributed among these distances:
99 1 0.01
100 9 0.06
101 95 0.65
102 38 0.26
103 4 0.03
ACGTcount: A:0.27, C:0.16, G:0.26, T:0.31
Consensus pattern (100 bp):
TCACGTGTGTAGTACTATGTGAAGGCTACTACGTGTATCGAATGATAATGTTCACGGGTAGTACT
ATGTGCAGGCTACTACGCGAACCAGAAAGTTTTGA
Found at i:26664617 original size:25 final size:24
Alignment explanation
Indices: 26664570--26664622 Score: 61
Period size: 25 Copynumber: 2.2 Consensus size: 24
26664560 ACATATCGCA
26664570 GCTCTTTATGAGCGTCCCAATATAG
1 GCTCTTTATGAGCGTCCCAATAT-G
* * **
26664595 GCTCTTTGTGAGCTTCCTGATATG
1 GCTCTTTATGAGCGTCCCAATATG
26664619 GCTC
1 GCTC
26664623 GCTTGAACTT
Statistics
Matches: 24, Mismatches: 4, Indels: 1
0.83 0.14 0.03
Matches are distributed among these distances:
24 5 0.21
25 19 0.79
ACGTcount: A:0.17, C:0.25, G:0.23, T:0.36
Consensus pattern (24 bp):
GCTCTTTATGAGCGTCCCAATATG
Found at i:26665510 original size:26 final size:26
Alignment explanation
Indices: 26665479--26665562 Score: 73
Period size: 26 Copynumber: 3.3 Consensus size: 26
26665469 GTTTAGAATT
26665479 AGCATAATTGATAAAGCATGCCTATG
1 AGCATAATTGATAAAGCATGCCTATG
* ** ** ** *
26665505 AGCATAAATG-TGTA-TTTGGCGAATT
1 AGCATAATTGATAAAGCAT-GCCTATG
26665530 AGCATAATTGATAAAGCATGCCTATG
1 AGCATAATTGATAAAGCATGCCTATG
26665556 AGCATAA
1 AGCATAA
26665563 ATGTGTATTT
Statistics
Matches: 39, Mismatches: 16, Indels: 6
0.64 0.26 0.10
Matches are distributed among these distances:
24 1 0.03
25 15 0.38
26 22 0.56
27 1 0.03
ACGTcount: A:0.38, C:0.13, G:0.20, T:0.29
Consensus pattern (26 bp):
AGCATAATTGATAAAGCATGCCTATG
Found at i:26665534 original size:51 final size:51
Alignment explanation
Indices: 26665474--26665575 Score: 204
Period size: 51 Copynumber: 2.0 Consensus size: 51
26665464 GAATGGTTTA
26665474 GAATTAGCATAATTGATAAAGCATGCCTATGAGCATAAATGTGTATTTGGC
1 GAATTAGCATAATTGATAAAGCATGCCTATGAGCATAAATGTGTATTTGGC
26665525 GAATTAGCATAATTGATAAAGCATGCCTATGAGCATAAATGTGTATTTGGC
1 GAATTAGCATAATTGATAAAGCATGCCTATGAGCATAAATGTGTATTTGGC
26665576 AAGTTTAAAA
Statistics
Matches: 51, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
51 51 1.00
ACGTcount: A:0.35, C:0.12, G:0.22, T:0.31
Consensus pattern (51 bp):
GAATTAGCATAATTGATAAAGCATGCCTATGAGCATAAATGTGTATTTGGC
Found at i:26669331 original size:7 final size:7
Alignment explanation
Indices: 26669316--26669389 Score: 76
Period size: 7 Copynumber: 10.6 Consensus size: 7
26669306 TAGATCGAGC
26669316 TTTATGG
1 TTTATGG
*
26669323 TTTAAGG
1 TTTATGG
26669330 TTTATGG
1 TTTATGG
26669337 TTTATGG
1 TTTATGG
26669344 TTTATGG
1 TTTATGG
*
26669351 TTTAAGG
1 TTTATGG
* **
26669358 GTTGGGG
1 TTTATGG
*
26669365 TTTAGGG
1 TTTATGG
*
26669372 TTTATGT
1 TTTATGG
*
26669379 TTTATGA
1 TTTATGG
26669386 TTTA
1 TTTA
26669390 GGATTTAGGG
Statistics
Matches: 56, Mismatches: 11, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
7 56 1.00
ACGTcount: A:0.18, C:0.00, G:0.30, T:0.53
Consensus pattern (7 bp):
TTTATGG
Found at i:26669356 original size:28 final size:28
Alignment explanation
Indices: 26669316--26669382 Score: 89
Period size: 28 Copynumber: 2.4 Consensus size: 28
26669306 TAGATCGAGC
* * *
26669316 TTTATGGTTTAAGGTTTATGGTTTATGG
1 TTTATGGTTTAAGGGTTAGGGTTTAGGG
*
26669344 TTTATGGTTTAAGGGTTGGGGTTTAGGG
1 TTTATGGTTTAAGGGTTAGGGTTTAGGG
*
26669372 TTTATGTTTTA
1 TTTATGGTTTA
26669383 TGATTTAGGA
Statistics
Matches: 34, Mismatches: 5, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
28 34 1.00
ACGTcount: A:0.16, C:0.00, G:0.31, T:0.52
Consensus pattern (28 bp):
TTTATGGTTTAAGGGTTAGGGTTTAGGG
Found at i:26669414 original size:7 final size:7
Alignment explanation
Indices: 26669316--26669414 Score: 56
Period size: 7 Copynumber: 14.0 Consensus size: 7
26669306 TAGATCGAGC
*
26669316 TTTATGG
1 TTTAGGG
*
26669323 TTTAAGG
1 TTTAGGG
*
26669330 TTTATGG
1 TTTAGGG
*
26669337 TTTATGG
1 TTTAGGG
*
26669344 TTTATGG
1 TTTAGGG
26669351 TTTAAGGG
1 TTT-AGGG
*
26669359 -TTGGGG
1 TTTAGGG
26669365 TTTAGGG
1 TTTAGGG
* *
26669372 TTTATGT
1 TTTAGGG
* *
26669379 TTTATGA
1 TTTAGGG
*
26669386 TTTAGGA
1 TTTAGGG
26669393 TTTAGGGG
1 TTTA-GGG
* *
26669401 ATAAGGG
1 TTTAGGG
26669408 TTTAGGG
1 TTTAGGG
26669415 CTTAATTAGT
Statistics
Matches: 75, Mismatches: 14, Indels: 6
0.79 0.15 0.06
Matches are distributed among these distances:
6 3 0.04
7 65 0.87
8 7 0.09
ACGTcount: A:0.19, C:0.00, G:0.34, T:0.46
Consensus pattern (7 bp):
TTTAGGG
Found at i:26669574 original size:15 final size:14
Alignment explanation
Indices: 26669544--26669585 Score: 50
Period size: 14 Copynumber: 2.9 Consensus size: 14
26669534 AGTTACTATT
26669544 TTAAGGTTTATGGA
1 TTAAGGTTTATGGA
26669558 TTAAGAGTTTA-GAGA
1 TTAAG-GTTTATG-GA
*
26669573 TTATGGTTTATGG
1 TTAAGGTTTATGG
26669586 TTTATGGTGT
Statistics
Matches: 24, Mismatches: 1, Indels: 6
0.77 0.03 0.19
Matches are distributed among these distances:
14 12 0.50
15 12 0.50
ACGTcount: A:0.29, C:0.00, G:0.29, T:0.43
Consensus pattern (14 bp):
TTAAGGTTTATGGA
Found at i:26669590 original size:14 final size:14
Alignment explanation
Indices: 26669577--26669653 Score: 64
Period size: 14 Copynumber: 5.4 Consensus size: 14
26669567 TAGAGATTAT
* *
26669577 GGTTTATGGTTTAT
1 GGTTTAAGGTTTAG
* * *
26669591 GGTGTAAGGGTTGG
1 GGTTTAAGGTTTAG
26669605 GGTTTAAGGTTTAG
1 GGTTTAAGGTTTAG
* *
26669619 GGGTTAAGGGTTAAG
1 GGTTTAA-GGTTTAG
* *
26669634 AGTTTAGGGTTTAG
1 GGTTTAAGGTTTAG
26669648 GGTTTA
1 GGTTTA
26669654 TGTTTTATAA
Statistics
Matches: 47, Mismatches: 15, Indels: 2
0.73 0.23 0.03
Matches are distributed among these distances:
14 37 0.79
15 10 0.21
ACGTcount: A:0.19, C:0.00, G:0.40, T:0.40
Consensus pattern (14 bp):
GGTTTAAGGTTTAG
Found at i:26669617 original size:28 final size:28
Alignment explanation
Indices: 26669577--26669649 Score: 76
Period size: 28 Copynumber: 2.6 Consensus size: 28
26669567 TAGAGATTAT
* *
26669577 GGTTTATGGTTTA-TGGTGTAAGGGTTGG
1 GGTTTAAGGTTTAGGGGT-TAAGGGTTGG
*
26669605 GGTTTAAGGTTTAGGGGTTAAGGGTTAAG
1 GGTTTAAGGTTTAGGGGTTAAGGGTT-GG
* *
26669634 AGTTTAGGGTTTAGGG
1 GGTTTAAGGTTTAGGG
26669650 TTTATGTTTT
Statistics
Matches: 38, Mismatches: 5, Indels: 3
0.83 0.11 0.07
Matches are distributed among these distances:
28 20 0.53
29 18 0.47
ACGTcount: A:0.19, C:0.00, G:0.42, T:0.38
Consensus pattern (28 bp):
GGTTTAAGGTTTAGGGGTTAAGGGTTGG
Found at i:26669622 original size:21 final size:21
Alignment explanation
Indices: 26669584--26669653 Score: 70
Period size: 21 Copynumber: 3.3 Consensus size: 21
26669574 TATGGTTTAT
* * * *
26669584 GGTTTATGGTGTAAGGGTTGG
1 GGTTTAAGGTTTAGGGGTTAG
26669605 GGTTTAAGGTTTAGGGGTTAAG
1 GGTTTAAGGTTTAGGGGTT-AG
*
26669627 GG-TTAAGAGTTTAGGGTTTAG
1 GGTTTAAG-GTTTAGGGGTTAG
26669648 GGTTTA
1 GGTTTA
26669654 TGTTTTATAA
Statistics
Matches: 41, Mismatches: 5, Indels: 5
0.80 0.10 0.10
Matches are distributed among these distances:
21 25 0.61
22 16 0.39
ACGTcount: A:0.20, C:0.00, G:0.41, T:0.39
Consensus pattern (21 bp):
GGTTTAAGGTTTAGGGGTTAG
Found at i:26670079 original size:19 final size:19
Alignment explanation
Indices: 26670052--26670100 Score: 71
Period size: 19 Copynumber: 2.5 Consensus size: 19
26670042 AAATTATAAC
* *
26670052 AAATGAAAATGAAATGCAA
1 AAATAAAAATGAAATACAA
26670071 AAATAAAAATGAAATACAA
1 AAATAAAAATGAAATACAA
26670090 AAACTAAAAAT
1 AAA-TAAAAAT
26670101 TATAATTTTA
Statistics
Matches: 27, Mismatches: 2, Indels: 1
0.90 0.07 0.03
Matches are distributed among these distances:
19 20 0.74
20 7 0.26
ACGTcount: A:0.69, C:0.06, G:0.08, T:0.16
Consensus pattern (19 bp):
AAATAAAAATGAAATACAA
Found at i:26670233 original size:42 final size:41
Alignment explanation
Indices: 26670177--26670255 Score: 104
Period size: 42 Copynumber: 1.9 Consensus size: 41
26670167 AAAAGGCCGC
* *
26670177 AAAAAGTAAGCAATAGCGACATTTTTGTTGCAAACGCTGCA
1 AAAAAGTAAGCAATAGCGACATTTTTGGTCCAAACGCTGCA
* * *
26670218 AAAAAGTTGAGCAATAGTGACGTTTTTGGTCCAAACGC
1 AAAAAG-TAAGCAATAGCGACATTTTTGGTCCAAACGC
26670256 CACTAAAAGT
Statistics
Matches: 32, Mismatches: 5, Indels: 1
0.84 0.13 0.03
Matches are distributed among these distances:
41 6 0.19
42 26 0.81
ACGTcount: A:0.37, C:0.16, G:0.22, T:0.25
Consensus pattern (41 bp):
AAAAAGTAAGCAATAGCGACATTTTTGGTCCAAACGCTGCA
Found at i:26673739 original size:43 final size:44
Alignment explanation
Indices: 26673594--26673727 Score: 157
Period size: 43 Copynumber: 3.1 Consensus size: 44
26673584 ATTTGTTACT
* * *
26673594 TTTAGCGGCGTTTGTAATAAAAGTGC--CGCTAAAGGTTATGTTC
1 TTTAGCGGCGTTTGTGATAAAA-AGCATTGCTAAAGGTTATGTTC
*
26673637 TTTAGCGGCGTTTGTGATAAAAAGCATTGCTAAAGGTTATGCTC
1 TTTAGCGGCGTTTGTGATAAAAAGCATTGCTAAAGGTTATGTTC
** * * *
26673681 TTTAGCAACGTTTGTGAT-AAAAGCGTTGCTAAAGATCATGTTC
1 TTTAGCGGCGTTTGTGATAAAAAGCATTGCTAAAGGTTATGTTC
26673724 TTTA
1 TTTA
26673728 ATGGCATTTG
Statistics
Matches: 79, Mismatches: 10, Indels: 4
0.85 0.11 0.04
Matches are distributed among these distances:
42 2 0.03
43 46 0.58
44 31 0.39
ACGTcount: A:0.28, C:0.13, G:0.23, T:0.36
Consensus pattern (44 bp):
TTTAGCGGCGTTTGTGATAAAAAGCATTGCTAAAGGTTATGTTC
Found at i:26674038 original size:32 final size:32
Alignment explanation
Indices: 26673978--26674040 Score: 81
Period size: 32 Copynumber: 2.0 Consensus size: 32
26673968 ATTAATCAAT
* *
26673978 ATGAGTTATCAAATTAAATTAATTAATTTATC
1 ATGAGTTATCAAATTAAAGTAATCAATTTATC
** *
26674010 ATGAGTTATTGAATTCAAGTAATCAATTTAT
1 ATGAGTTATCAAATTAAAGTAATCAATTTAT
26674041 AAGTTTATGA
Statistics
Matches: 26, Mismatches: 5, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
32 26 1.00
ACGTcount: A:0.41, C:0.06, G:0.10, T:0.43
Consensus pattern (32 bp):
ATGAGTTATCAAATTAAAGTAATCAATTTATC
Found at i:26674301 original size:16 final size:17
Alignment explanation
Indices: 26674280--26674316 Score: 51
Period size: 17 Copynumber: 2.3 Consensus size: 17
26674270 GAAGATTAAC
26674280 ATTTT-ATTAAAATAAT
1 ATTTTAATTAAAATAAT
*
26674296 ATTTTAATTAAGATAAT
1 ATTTTAATTAAAATAAT
26674313 -TTTT
1 ATTTT
26674317 GTTCAATAAA
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
16 9 0.47
17 10 0.53
ACGTcount: A:0.43, C:0.00, G:0.03, T:0.54
Consensus pattern (17 bp):
ATTTTAATTAAAATAAT
Found at i:26681335 original size:29 final size:29
Alignment explanation
Indices: 26681291--26681372 Score: 94
Period size: 29 Copynumber: 2.8 Consensus size: 29
26681281 TATCGACGAT
* *
26681291 CATCGATGAATGAAAATGGATGGATTT-AAC
1 CATCGAT-TATGAAAAAGGATGG-TTTCAAC
* *
26681321 CATCGATTATGAAAAGGGATAGTTTCAAC
1 CATCGATTATGAAAAAGGATGGTTTCAAC
*
26681350 TATCGATTATGAAAAAGGATGGT
1 CATCGATTATGAAAAAGGATGGT
26681373 AACGACCATC
Statistics
Matches: 45, Mismatches: 6, Indels: 3
0.83 0.11 0.06
Matches are distributed among these distances:
28 3 0.07
29 35 0.78
30 7 0.16
ACGTcount: A:0.39, C:0.10, G:0.23, T:0.28
Consensus pattern (29 bp):
CATCGATTATGAAAAAGGATGGTTTCAAC
Found at i:26681383 original size:29 final size:29
Alignment explanation
Indices: 26681319--26681495 Score: 116
Period size: 29 Copynumber: 6.2 Consensus size: 29
26681309 GATGGATTTA
* * ** *
26681319 ACCATCGATTATGAAAAGGGATAGTTTCA
1 ACCATCGATTATGAAAAAGGATGGTGACG
* *
26681348 ACTATCGATTATGAAAAAGGATGGTAACG
1 ACCATCGATTATGAAAAAGGATGGTGACG
*
26681377 ACCATCG-TATATGAAAATA-G-T--T-TCG
1 ACCATCGAT-TATGAAAA-AGGATGGTGACG
* * *
26681402 ACAATCAAATAT-AAAAATGGATGGTGACG
1 ACCATCGATTATGAAAAA-GGATGGTGACG
* * *
26681431 ACCATCAACTATGAAAAGGGATGGTGACG
1 ACCATCGATTATGAAAAAGGATGGTGACG
* ** *
26681460 ACCATCGAATATGAAATGGGATGGTTACG
1 ACCATCGATTATGAAAAAGGATGGTGACG
26681489 ACCATCG
1 ACCATCG
26681496 TTAACACACT
Statistics
Matches: 119, Mismatches: 19, Indels: 20
0.75 0.12 0.13
Matches are distributed among these distances:
23 1 0.01
24 4 0.03
25 11 0.09
26 2 0.02
28 3 0.03
29 93 0.78
30 5 0.04
ACGTcount: A:0.39, C:0.15, G:0.23, T:0.24
Consensus pattern (29 bp):
ACCATCGATTATGAAAAAGGATGGTGACG
Done.