Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Chr5
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: 43060996
ACGTcount: A:0.32, C:0.16, G:0.16, T:0.32
Warning! 2186021 characters in sequence are not A, C, G, or T
File 80 of 128
Found at i:26280934 original size:13 final size:13
Alignment explanation
Indices: 26280908--26280942 Score: 61
Period size: 13 Copynumber: 2.6 Consensus size: 13
26280898 TGTATTACTT
26280908 TTTATTTCATTTTA
1 TTTATTT-ATTTTA
26280922 TTTATTTATTTTA
1 TTTATTTATTTTA
26280935 TTTATTTA
1 TTTATTTA
26280943 CTAATTATTT
Statistics
Matches: 21, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
13 14 0.67
14 7 0.33
ACGTcount: A:0.23, C:0.03, G:0.00, T:0.74
Consensus pattern (13 bp):
TTTATTTATTTTA
Found at i:26281073 original size:19 final size:20
Alignment explanation
Indices: 26281033--26281074 Score: 59
Period size: 19 Copynumber: 2.1 Consensus size: 20
26281023 TTCATTTGCC
*
26281033 TTTATTATCGTTATTATTTA
1 TTTATTATCGTTATTATATA
*
26281053 TTTATTAT-GTTCTTATATA
1 TTTATTATCGTTATTATATA
26281072 TTT
1 TTT
26281075 TCAAAAATTA
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
19 12 0.60
20 8 0.40
ACGTcount: A:0.24, C:0.05, G:0.05, T:0.67
Consensus pattern (20 bp):
TTTATTATCGTTATTATATA
Found at i:26285917 original size:105 final size:105
Alignment explanation
Indices: 26285802--26286012 Score: 404
Period size: 105 Copynumber: 2.0 Consensus size: 105
26285792 TAAATATAGG
*
26285802 TTAGTTGTTACGAATTCATTTTAAAATATTGTTCTATAATGTTATTATCATTTTATGTCAAGTTT
1 TTAGTTGTTACGAATTCATTTCAAAATATTGTTCTATAATGTTATTATCATTTTATGTCAAGTTT
*
26285867 ATTTTAAGTTCATTTGTAATGTGAATAAAATCATTATTGT
66 ATTTTAAGTTCATGTGTAATGTGAATAAAATCATTATTGT
26285907 TTAGTTGTTACGAATTCATTTCAAAATATTGTTCTATAATGTTATTATCATTTTATGTCAAGTTT
1 TTAGTTGTTACGAATTCATTTCAAAATATTGTTCTATAATGTTATTATCATTTTATGTCAAGTTT
26285972 ATTTTAAGTTCATGTGTAATGTGAATAAAATCATTATTGT
66 ATTTTAAGTTCATGTGTAATGTGAATAAAATCATTATTGT
26286012 T
1 T
26286013 ACTTTATTTG
Statistics
Matches: 104, Mismatches: 2, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
105 104 1.00
ACGTcount: A:0.31, C:0.07, G:0.12, T:0.50
Consensus pattern (105 bp):
TTAGTTGTTACGAATTCATTTCAAAATATTGTTCTATAATGTTATTATCATTTTATGTCAAGTTT
ATTTTAAGTTCATGTGTAATGTGAATAAAATCATTATTGT
Found at i:26288551 original size:19 final size:20
Alignment explanation
Indices: 26288512--26288551 Score: 55
Period size: 19 Copynumber: 2.0 Consensus size: 20
26288502 TTCTCTTATA
*
26288512 TAAAATGTATTTCAATGTTT
1 TAAAATGTATTTCAATATTT
*
26288532 TAAAAT-TATTTGAATATTT
1 TAAAATGTATTTCAATATTT
26288551 T
1 T
26288552 GGTAGGTTAC
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
19 12 0.67
20 6 0.33
ACGTcount: A:0.38, C:0.03, G:0.07, T:0.53
Consensus pattern (20 bp):
TAAAATGTATTTCAATATTT
Found at i:26294880 original size:11 final size:11
Alignment explanation
Indices: 26294864--26294938 Score: 61
Period size: 11 Copynumber: 6.8 Consensus size: 11
26294854 TTTAATCATT
26294864 TTAATATTAAA
1 TTAATATTAAA
26294875 TTAATA--AAA
1 TTAATATTAAA
26294884 -TAATATT-AA
1 TTAATATTAAA
26294893 TTAAGTATTAAA
1 TTAA-TATTAAA
26294905 TTAA-ATTTAATA
1 TTAATA-TTAA-A
26294917 TTAAACTATTAAA
1 TT-AA-TATTAAA
*
26294930 ATAATATTA
1 TTAATATTA
26294939 TTTTTATAAT
Statistics
Matches: 53, Mismatches: 1, Indels: 20
0.72 0.01 0.27
Matches are distributed among these distances:
8 5 0.09
9 5 0.09
10 4 0.08
11 19 0.36
12 11 0.21
13 4 0.08
14 4 0.08
15 1 0.02
ACGTcount: A:0.55, C:0.01, G:0.01, T:0.43
Consensus pattern (11 bp):
TTAATATTAAA
Found at i:26294883 original size:397 final size:397
Alignment explanation
Indices: 26294367--26295167 Score: 1586
Period size: 397 Copynumber: 2.0 Consensus size: 397
26294357 TTTTCCTCTA
26294367 CAACTTTATCTTGAATTCAAGTGTGTGTAAATAATGACCCAAAACTCCTCTTTATATAGGGAGAG
1 CAACTTTATCTTGAATTCAAGTGTGTGTAAATAATGACCCAAAACTCCTCTTTATATAGGGAGAG
26294432 TTTAGAGAGTTCAATTATGATTAAATTTAATCATTTTAATATTAAATTAATAAAATAATATTAAT
66 TTTAGAGAGTTCAATTATGATTAAATTTAATCATTTTAATATTAAATTAATAAAATAATATTAAT
*
26294497 TAAGTATTAGATTAAATTTAATATTAAACTATTAAAATAATATTATTTTTATAATAATTAATCTG
131 TAAGTATTAAATTAAATTTAATATTAAACTATTAAAATAATATTATTTTTATAATAATTAATCTG
26294562 AAATTAAATTCTGTGTCTGGTGATGCAGGTGCGACACCCTTATAACACCCCAAGCCAGTTCGACT
196 AAATTAAATTCTGTGTCTGGTGATGCAGGTGCGACACCCTTATAACACCCCAAGCCAGTTCGACT
26294627 GTTGTCAGTTCAGTTAGGGCCAATGACAACCCGACCGATCTAGTCTAGCCACTGGTTGGACCGTC
261 GTTGTCAGTTCAGTTAGGGCCAATGACAACCCGACCGATCTAGTCTAGCCACTGGTTGGACCGTC
26294692 GGCCCGATTTCACATATTGGGCCCGGTTCGACTAGATTTTGAGTCTTGATCTTGGTTTTGGGCTC
326 GGCCCGATTTCACATATTGGGCCCGGTTCGACTAGATTTTGAGTCTTGATCTTGGTTTTGGGCTC
26294757 CCAGACT
391 CCAGACT
26294764 CAACTTTATCTTGAATTCAAGTGTGTGTAAATAATGACCCAAAACTCCTCTTTATATAGGGAGAG
1 CAACTTTATCTTGAATTCAAGTGTGTGTAAATAATGACCCAAAACTCCTCTTTATATAGGGAGAG
26294829 TTTAGAGAGTTCAATTATGATTAAATTTAATCATTTTAATATTAAATTAATAAAATAATATTAAT
66 TTTAGAGAGTTCAATTATGATTAAATTTAATCATTTTAATATTAAATTAATAAAATAATATTAAT
26294894 TAAGTATTAAATTAAATTTAATATTAAACTATTAAAATAATATTATTTTTATAATAATTAATCTG
131 TAAGTATTAAATTAAATTTAATATTAAACTATTAAAATAATATTATTTTTATAATAATTAATCTG
26294959 AAATTAAATTCTGTGTCTGGTGATGCAGGTGCGACACCCTTATAACACCCCAAGCCAGTTCGACT
196 AAATTAAATTCTGTGTCTGGTGATGCAGGTGCGACACCCTTATAACACCCCAAGCCAGTTCGACT
26295024 GTTGTCAGTTCAGTTAGGGCCAATGACAACCCGACCGATCTAGTCTAGCCACTGGTTGGACCGTC
261 GTTGTCAGTTCAGTTAGGGCCAATGACAACCCGACCGATCTAGTCTAGCCACTGGTTGGACCGTC
26295089 GGCCCGATTTCACATATTGGGCCCGGTTCGACTAGATTTTGAGTCTTGATCTTGGTTTTGGGCTC
326 GGCCCGATTTCACATATTGGGCCCGGTTCGACTAGATTTTGAGTCTTGATCTTGGTTTTGGGCTC
26295154 CCAGACT
391 CCAGACT
26295161 CAA-TTTA
1 CAACTTTA
26295168 CGATCTCAGA
Statistics
Matches: 403, Mismatches: 1, Indels: 1
1.00 0.00 0.00
Matches are distributed among these distances:
396 4 0.01
397 399 0.99
ACGTcount: A:0.32, C:0.17, G:0.17, T:0.35
Consensus pattern (397 bp):
CAACTTTATCTTGAATTCAAGTGTGTGTAAATAATGACCCAAAACTCCTCTTTATATAGGGAGAG
TTTAGAGAGTTCAATTATGATTAAATTTAATCATTTTAATATTAAATTAATAAAATAATATTAAT
TAAGTATTAAATTAAATTTAATATTAAACTATTAAAATAATATTATTTTTATAATAATTAATCTG
AAATTAAATTCTGTGTCTGGTGATGCAGGTGCGACACCCTTATAACACCCCAAGCCAGTTCGACT
GTTGTCAGTTCAGTTAGGGCCAATGACAACCCGACCGATCTAGTCTAGCCACTGGTTGGACCGTC
GGCCCGATTTCACATATTGGGCCCGGTTCGACTAGATTTTGAGTCTTGATCTTGGTTTTGGGCTC
CCAGACT
Found at i:26294893 original size:25 final size:25
Alignment explanation
Indices: 26294864--26294938 Score: 77
Period size: 25 Copynumber: 3.1 Consensus size: 25
26294854 TTTAATCATT
* *
26294864 TTAATATTAAATTAATAAAATAATA
1 TTAATATTAAACTATTAAAATAATA
* *
26294889 TT-A-ATT-AAGTATTAAATTAA-A
1 TTAATATTAAACTATTAAAATAATA
26294910 TTTAATATTAAACTATTAAAATAATA
1 -TTAATATTAAACTATTAAAATAATA
26294936 TTA
1 TTA
26294939 TTTTTATAAT
Statistics
Matches: 40, Mismatches: 5, Indels: 10
0.73 0.09 0.18
Matches are distributed among these distances:
21 1 0.03
22 13 0.32
23 4 0.10
24 4 0.10
25 17 0.43
26 1 0.03
ACGTcount: A:0.55, C:0.01, G:0.01, T:0.43
Consensus pattern (25 bp):
TTAATATTAAACTATTAAAATAATA
Found at i:26299568 original size:97 final size:98
Alignment explanation
Indices: 26299402--26299598 Score: 387
Period size: 97 Copynumber: 2.0 Consensus size: 98
26299392 ACTTACGTAA
26299402 TACATATGTATTACAATTGTTAGACATACATACCTCATTTGATTGCTAGTGTAATAATGAGTAAA
1 TACATATGTATTACAATTGTTAGACATACATACCTCATTTGATTGCTAGTGTAATAATGAGTAAA
26299467 AAAAATTATTTAATATATATGTA-TACAATTAT
66 AAAAATTATTTAATATATATGTATTACAATTAT
26299499 TACATATGTATTACAATTGTTAGACATACATACCTCATTTGATTGCTAGTGTAATAATGAGTAAA
1 TACATATGTATTACAATTGTTAGACATACATACCTCATTTGATTGCTAGTGTAATAATGAGTAAA
26299564 AAAAATTATTTAATATATATGTATTACAATTAT
66 AAAAATTATTTAATATATATGTATTACAATTAT
26299597 TA
1 TA
26299599 GACATAAAAT
Statistics
Matches: 99, Mismatches: 0, Indels: 1
0.99 0.00 0.01
Matches are distributed among these distances:
97 88 0.89
98 11 0.11
ACGTcount: A:0.41, C:0.09, G:0.10, T:0.40
Consensus pattern (98 bp):
TACATATGTATTACAATTGTTAGACATACATACCTCATTTGATTGCTAGTGTAATAATGAGTAAA
AAAAATTATTTAATATATATGTATTACAATTAT
Found at i:26302976 original size:11 final size:11
Alignment explanation
Indices: 26302954--26302987 Score: 50
Period size: 11 Copynumber: 3.1 Consensus size: 11
26302944 AATGCTAACT
*
26302954 ACAAAAGAAAC
1 ACAAATGAAAC
*
26302965 ATAAATGAAAC
1 ACAAATGAAAC
26302976 ACAAATGAAAC
1 ACAAATGAAAC
26302987 A
1 A
26302988 AATAAACTTA
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
11 20 1.00
ACGTcount: A:0.68, C:0.15, G:0.09, T:0.09
Consensus pattern (11 bp):
ACAAATGAAAC
Found at i:26304415 original size:41 final size:39
Alignment explanation
Indices: 26304300--26304433 Score: 128
Period size: 41 Copynumber: 3.4 Consensus size: 39
26304290 AACAGTTTGG
* * *
26304300 CACCCAGTGCCGCATCGAATAATTCGAAGTAATAAATTGA
1 CACCCAGTGCCTCATCGAATAA-TCCAAGTAGTAAATTGA
* ** ** * *
26304340 CACTCAGTATCTCATCGGCTAAACCAA--AGTAAATTGG
1 CACCCAGTGCCTCATCGAATAATCCAAGTAGTAAATTGA
26304377 CACCCAGTGCCTCATCGAATTAATCCAAAGTAGTAAATTGA
1 CACCCAGTGCCTCATCGAA-TAATCC-AAGTAGTAAATTGA
*
26304418 CACCCAGTGTCTCATC
1 CACCCAGTGCCTCATC
26304434 AACTCGAAGT
Statistics
Matches: 72, Mismatches: 18, Indels: 7
0.74 0.19 0.07
Matches are distributed among these distances:
37 22 0.31
38 5 0.07
39 5 0.07
40 16 0.22
41 24 0.33
ACGTcount: A:0.34, C:0.26, G:0.16, T:0.24
Consensus pattern (39 bp):
CACCCAGTGCCTCATCGAATAATCCAAGTAGTAAATTGA
Found at i:26304613 original size:15 final size:15
Alignment explanation
Indices: 26304566--26304615 Score: 57
Period size: 15 Copynumber: 3.2 Consensus size: 15
26304556 CAATTCAAAT
*
26304566 AATCAATATATATTC
1 AATCAATATAAATTC
26304581 AAT-ATATATACCAATTC
1 AATCA-ATATA--AATTC
26304598 AATCAATATAAATTC
1 AATCAATATAAATTC
26304613 AAT
1 AAT
26304616 AAATTTATCA
Statistics
Matches: 30, Mismatches: 1, Indels: 8
0.77 0.03 0.21
Matches are distributed among these distances:
14 1 0.03
15 16 0.53
17 12 0.40
18 1 0.03
ACGTcount: A:0.50, C:0.14, G:0.00, T:0.36
Consensus pattern (15 bp):
AATCAATATAAATTC
Found at i:26311826 original size:25 final size:25
Alignment explanation
Indices: 26311798--26311847 Score: 100
Period size: 25 Copynumber: 2.0 Consensus size: 25
26311788 ACCAAGCATG
26311798 CTATAATGCCCTCTAATTTGTTATT
1 CTATAATGCCCTCTAATTTGTTATT
26311823 CTATAATGCCCTCTAATTTGTTATT
1 CTATAATGCCCTCTAATTTGTTATT
26311848 GAATACTTAT
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
25 25 1.00
ACGTcount: A:0.24, C:0.20, G:0.08, T:0.48
Consensus pattern (25 bp):
CTATAATGCCCTCTAATTTGTTATT
Found at i:26312687 original size:18 final size:19
Alignment explanation
Indices: 26312645--26312689 Score: 83
Period size: 19 Copynumber: 2.4 Consensus size: 19
26312635 TCAAGATCTT
26312645 AAATTAATGTGGTCCAAAG
1 AAATTAATGTGGTCCAAAG
26312664 AAATTAATGTGGTCCAAA-
1 AAATTAATGTGGTCCAAAG
26312682 AAATTAAT
1 AAATTAAT
26312690 TAGTACATTT
Statistics
Matches: 26, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
18 8 0.31
19 18 0.69
ACGTcount: A:0.47, C:0.09, G:0.16, T:0.29
Consensus pattern (19 bp):
AAATTAATGTGGTCCAAAG
Found at i:26316112 original size:11 final size:11
Alignment explanation
Indices: 26316096--26316147 Score: 61
Period size: 11 Copynumber: 4.7 Consensus size: 11
26316086 TTATATCTTT
26316096 AATAATAATAC
1 AATAATAATAC
26316107 AATAATAATAC
1 AATAATAATAC
* **
26316118 TTATAAT-ATTT
1 -AATAATAATAC
26316129 AATAATAATAC
1 AATAATAATAC
26316140 AATAATAA
1 AATAATAA
26316148 AAAAATGTTT
Statistics
Matches: 33, Mismatches: 6, Indels: 4
0.77 0.14 0.09
Matches are distributed among these distances:
10 5 0.15
11 23 0.70
12 5 0.15
ACGTcount: A:0.60, C:0.06, G:0.00, T:0.35
Consensus pattern (11 bp):
AATAATAATAC
Found at i:26316135 original size:33 final size:32
Alignment explanation
Indices: 26316075--26316147 Score: 128
Period size: 33 Copynumber: 2.2 Consensus size: 32
26316065 TATGTTGAAT
*
26316075 AATAATAATACTTATATCTTTAATAATAATAC
1 AATAATAATACTTATATATTTAATAATAATAC
26316107 AATAATAATACTTATAATATTTAATAATAATAC
1 AATAATAATACTTAT-ATATTTAATAATAATAC
26316140 AATAATAA
1 AATAATAA
26316148 AAAAATGTTT
Statistics
Matches: 39, Mismatches: 1, Indels: 1
0.95 0.02 0.02
Matches are distributed among these distances:
32 15 0.38
33 24 0.62
ACGTcount: A:0.55, C:0.07, G:0.00, T:0.38
Consensus pattern (32 bp):
AATAATAATACTTATATATTTAATAATAATAC
Found at i:26319241 original size:55 final size:57
Alignment explanation
Indices: 26319137--26319243 Score: 130
Period size: 55 Copynumber: 1.9 Consensus size: 57
26319127 AATCTATTAT
* * * * * *
26319137 TATTTTTATTATTTATTTTTAACATAAATATGATTTTATTTATTATTTAATATTCAA
1 TATTTTTAATATATATTATTAACATAAATATGAATATATTAATTATTTAATATTCAA
26319194 TATTTTTAATATATATTATT-A-ATAAATATGAATATATATAATT-TTTAATA
1 TATTTTTAATATATATTATTAACATAAATATGAATATAT-TAATTATTTAATA
26319244 ATTTATTATT
Statistics
Matches: 43, Mismatches: 6, Indels: 4
0.81 0.11 0.08
Matches are distributed among these distances:
55 21 0.49
56 5 0.12
57 17 0.40
ACGTcount: A:0.40, C:0.02, G:0.02, T:0.56
Consensus pattern (57 bp):
TATTTTTAATATATATTATTAACATAAATATGAATATATTAATTATTTAATATTCAA
Found at i:26319563 original size:40 final size:40
Alignment explanation
Indices: 26319495--26319570 Score: 107
Period size: 40 Copynumber: 1.9 Consensus size: 40
26319485 GACGAGCCAG
* *
26319495 CAAATCGCGTCCACATCAGAGCGCTTTGCTGATGTGGCAA
1 CAAATCGCGTCCACATAAGAGCGATTTGCTGATGTGGCAA
* * *
26319535 CAAATCGCGTCCACGTAAGCGTGATTTGCTGATGTG
1 CAAATCGCGTCCACATAAGAGCGATTTGCTGATGTG
26319571 TAGCGCGCTC
Statistics
Matches: 31, Mismatches: 5, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
40 31 1.00
ACGTcount: A:0.24, C:0.25, G:0.26, T:0.25
Consensus pattern (40 bp):
CAAATCGCGTCCACATAAGAGCGATTTGCTGATGTGGCAA
Found at i:26319731 original size:23 final size:23
Alignment explanation
Indices: 26319704--26319756 Score: 67
Period size: 23 Copynumber: 2.3 Consensus size: 23
26319694 ACTAATCATT
26319704 TCTCAAATTTCC-TCTC-AATTTCC
1 TCTCAAATTTCCTTC-CAAATTT-C
26319727 TCTCAAA-TTCCTTCCAAATTTC
1 TCTCAAATTTCCTTCCAAATTTC
26319749 TCTCAAAT
1 TCTCAAAT
26319757 CCATATTTAA
Statistics
Matches: 27, Mismatches: 0, Indels: 6
0.82 0.00 0.18
Matches are distributed among these distances:
22 13 0.48
23 14 0.52
ACGTcount: A:0.26, C:0.32, G:0.00, T:0.42
Consensus pattern (23 bp):
TCTCAAATTTCCTTCCAAATTTC
Found at i:26319755 original size:11 final size:12
Alignment explanation
Indices: 26319704--26319756 Score: 69
Period size: 11 Copynumber: 4.7 Consensus size: 12
26319694 ACTAATCATT
26319704 TCTCAAATTTCC
1 TCTCAAATTTCC
26319716 TCTC-AATTTCC
1 TCTCAAATTTCC
26319727 TCTCAAA-TTCC
1 TCTCAAATTTCC
26319738 T-TCCAAATTT-C
1 TCT-CAAATTTCC
26319749 TCTCAAAT
1 TCTCAAAT
26319757 CCATATTTAA
Statistics
Matches: 37, Mismatches: 0, Indels: 9
0.80 0.00 0.20
Matches are distributed among these distances:
10 1 0.03
11 27 0.73
12 9 0.24
ACGTcount: A:0.26, C:0.32, G:0.00, T:0.42
Consensus pattern (12 bp):
TCTCAAATTTCC
Found at i:26321641 original size:18 final size:18
Alignment explanation
Indices: 26321614--26321651 Score: 58
Period size: 18 Copynumber: 2.1 Consensus size: 18
26321604 CAGGTGTGTT
* *
26321614 TCCTAGCCCTTTTATGTA
1 TCCTAACCCTTATATGTA
26321632 TCCTAACCCTTATATGTA
1 TCCTAACCCTTATATGTA
26321650 TC
1 TC
26321652 ATTTTCCGAG
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
18 18 1.00
ACGTcount: A:0.21, C:0.29, G:0.08, T:0.42
Consensus pattern (18 bp):
TCCTAACCCTTATATGTA
Found at i:26321951 original size:21 final size:21
Alignment explanation
Indices: 26321911--26321957 Score: 60
Period size: 21 Copynumber: 2.2 Consensus size: 21
26321901 ATGCCATACT
*
26321911 GGAAGAACCAGAATCCCTGCC
1 GGAAGAACCACAATCCCTGCC
*
26321932 TGAAGAACCACAA-CCGCTGCC
1 GGAAGAACCACAATCC-CTGCC
26321953 GGAAG
1 GGAAG
26321958 CTGGACAAAG
Statistics
Matches: 22, Mismatches: 3, Indels: 2
0.81 0.11 0.07
Matches are distributed among these distances:
20 2 0.09
21 20 0.91
ACGTcount: A:0.34, C:0.32, G:0.26, T:0.09
Consensus pattern (21 bp):
GGAAGAACCACAATCCCTGCC
Found at i:26322239 original size:21 final size:21
Alignment explanation
Indices: 26322204--26322335 Score: 128
Period size: 21 Copynumber: 6.2 Consensus size: 21
26322194 ACAAACCTTA
26322204 AACCCTTAA-TCT-AAAACCCT
1 AACCCTTAACT-TAAAAACCCT
* * *
26322224 AACCCATAACTTTAAAACCTT
1 AACCCTTAACTTAAAAACCCT
*
26322245 AACCCTTAAATTAAAAACCCT
1 AACCCTTAACTTAAAAACCCT
26322266 AAACCCTTAACTTAAAAACCCT
1 -AACCCTTAACTTAAAAACCCT
*
26322288 AAACCCTAAACCTT--AAACCCT
1 -AACCCTTAA-CTTAAAAACCCT
*
26322309 AAGCCCTTAACCTAAAAACCCTT
1 AA-CCCTTAACTTAAAAACCC-T
26322332 AACC
1 AACC
26322336 TAAAAACCTT
Statistics
Matches: 94, Mismatches: 10, Indels: 14
0.80 0.08 0.12
Matches are distributed among these distances:
20 13 0.14
21 38 0.40
22 37 0.39
23 6 0.06
ACGTcount: A:0.43, C:0.33, G:0.01, T:0.23
Consensus pattern (21 bp):
AACCCTTAACTTAAAAACCCT
Found at i:26322269 original size:7 final size:7
Alignment explanation
Indices: 26322259--26322324 Score: 55
Period size: 7 Copynumber: 9.4 Consensus size: 7
26322249 CTTAAATTAA
26322259 AAACCCT
1 AAACCCT
26322266 AAACCCT
1 AAACCCT
* *
26322273 TAA-CTT
1 AAACCCT
26322279 AAAAACCCT
1 --AAACCCT
26322288 AAACCCT
1 AAACCCT
*
26322295 AAACCTT
1 AAACCCT
26322302 AAACCCT
1 AAACCCT
*
26322309 AAGCCCT
1 AAACCCT
*
26322316 TAA-CCT
1 AAACCCT
26322322 AAA
1 AAA
26322325 AACCCTTAAC
Statistics
Matches: 46, Mismatches: 10, Indels: 7
0.73 0.16 0.11
Matches are distributed among these distances:
6 7 0.15
7 35 0.76
8 2 0.04
9 2 0.04
ACGTcount: A:0.44, C:0.35, G:0.02, T:0.20
Consensus pattern (7 bp):
AAACCCT
Found at i:26322285 original size:43 final size:43
Alignment explanation
Indices: 26322196--26322468 Score: 241
Period size: 43 Copynumber: 6.4 Consensus size: 43
26322186 TTTAGTTGAC
* *
26322196 AAACCTTAAACCCTT-AATCT-AAAACCCT-AACCCATAACTTTA
1 AAACCTT-AACCCTTAAAT-TAAAAACCCTAAACCCTTAACTTAA
26322238 AAACCTTAACCCTTAAATTAAAAACCCTAAACCCTTAACTTAA
1 AAACCTTAACCCTTAAATTAAAAACCCTAAACCCTTAACTTAA
* * *
26322281 AAACCCTAAACCC-TAAACCTT--AAACCCTAAGCCCTTAACCTAA
1 AAA-CCTTAACCCTTAAA--TTAAAAACCCTAAACCCTTAACTTAA
* *
26322324 AAACCCTTAA-CC------TAAAAACCTTAAACCCTTAAATTAA
1 AAA-CCTTAACCCTTAAATTAAAAACCCTAAACCCTTAACTTAA
* **
26322361 AAACCCTAA-CCTTAACCTAAAAACCCTAACCCTAACCCTTAACTTAA
1 AAACCTTAACCCTTAAATTAAAAACCCT-A----AACCCTTAACTTAA
*
26322408 AAACCTTAACCCTTAAATTAAAAACCCTAAACCCTTAACTTTA
1 AAACCTTAACCCTTAAATTAAAAACCCTAAACCCTTAACTTAA
*
26322451 AAACCGTAACCCTTAAAT
1 AAACCTTAACCCTTAAAT
26322469 ANNNNNNNNN
Statistics
Matches: 193, Mismatches: 18, Indels: 39
0.77 0.07 0.16
Matches are distributed among these distances:
35 1 0.01
36 7 0.04
37 21 0.11
41 8 0.04
42 29 0.15
43 79 0.41
44 8 0.04
45 2 0.01
47 22 0.11
48 16 0.08
ACGTcount: A:0.44, C:0.31, G:0.01, T:0.24
Consensus pattern (43 bp):
AAACCTTAACCCTTAAATTAAAAACCCTAAACCCTTAACTTAA
Found at i:26322345 original size:14 final size:15
Alignment explanation
Indices: 26322266--26322347 Score: 68
Period size: 15 Copynumber: 5.7 Consensus size: 15
26322256 TAAAAACCCT
*
26322266 AAACCCTTAACTTAA
1 AAACCCTTAACCTAA
*
26322281 AAACCCTAAACCCT--
1 AAACCCTTAA-CCTAA
26322295 AAA-CCTTAAACCCT--
1 AAACCCTT-AA-CCTAA
*
26322309 AAGCCCTTAACCTAA
1 AAACCCTTAACCTAA
26322324 AAACCCTTAACCTAA
1 AAACCCTTAACCTAA
26322339 AAA-CCTTAA
1 AAACCCTTAA
26322348 ACCCTTAAAT
Statistics
Matches: 57, Mismatches: 5, Indels: 11
0.78 0.07 0.15
Matches are distributed among these distances:
13 6 0.11
14 19 0.33
15 30 0.53
16 2 0.04
ACGTcount: A:0.45, C:0.33, G:0.01, T:0.21
Consensus pattern (15 bp):
AAACCCTTAACCTAA
Found at i:26322349 original size:7 final size:8
Alignment explanation
Indices: 26322281--26322356 Score: 51
Period size: 7 Copynumber: 10.4 Consensus size: 8
26322271 CTTAACTTAA
26322281 AAACCC-T
1 AAACCCTT
26322288 AAACCC-T
1 AAACCCTT
26322295 AAA-CCTT
1 AAACCCTT
26322302 AAACCC-T
1 AAACCCTT
*
26322309 AAGCCCTT
1 AAACCCTT
*
26322317 -AA-CCTAA
1 AAACCCT-T
26322324 AAACCCTT
1 AAACCCTT
*
26322332 -AA-CCTA
1 AAACCCTT
*
26322338 AAAACCTT
1 AAACCCTT
26322346 AAACCCTT
1 AAACCCTT
26322354 AAA
1 AAA
26322357 TTAAAAACCC
Statistics
Matches: 54, Mismatches: 7, Indels: 15
0.71 0.09 0.20
Matches are distributed among these distances:
6 8 0.15
7 25 0.46
8 18 0.33
9 3 0.06
ACGTcount: A:0.45, C:0.34, G:0.01, T:0.20
Consensus pattern (8 bp):
AAACCCTT
Found at i:26322395 original size:57 final size:56
Alignment explanation
Indices: 26322266--26322391 Score: 168
Period size: 58 Copynumber: 2.2 Consensus size: 56
26322256 TAAAAACCCT
*
26322266 AAACCCTTAACTTAAAAACCCTAAACCCTAAACCTTAAACCCTAAGCCCTTAACCTAA
1 AAACCCTTAACCTAAAAACCCTAAACCCTAAA-CTTAAACCCTAA-CCCTTAACCTAA
*
26322324 AAACCCTTAACCTAAAAACCTTAAACCCTTAAA-TTAAAAACCCTAA-CCTTAACCTAA
1 AAACCCTTAACCTAAAAACCCTAAACCC-TAAACTT--AAACCCTAACCCTTAACCTAA
26322381 AAACCC-TAACC
1 AAACCCTTAACC
26322392 CTAACCCTTA
Statistics
Matches: 63, Mismatches: 2, Indels: 8
0.86 0.03 0.11
Matches are distributed among these distances:
56 5 0.08
57 19 0.30
58 26 0.41
59 13 0.21
ACGTcount: A:0.45, C:0.33, G:0.01, T:0.21
Consensus pattern (56 bp):
AAACCCTTAACCTAAAAACCCTAAACCCTAAACTTAAACCCTAACCCTTAACCTAA
Found at i:26322440 original size:22 final size:22
Alignment explanation
Indices: 26322324--26322466 Score: 141
Period size: 22 Copynumber: 6.5 Consensus size: 22
26322314 CTTAACCTAA
* *
26322324 AAACCCTTAACCTAAAAACCTT
1 AAACCCTTAACTTAAAAACCCT
*
26322346 AAACCCTTAAATTAAAAACCCT
1 AAACCCTTAACTTAAAAACCCT
*
26322368 -AA-CCTTAACCTAAAAACCCT
1 AAACCCTTAACTTAAAAACCCT
26322388 AACCCTAACCCTTAACTTAAAAA-CCT
1 -A----AACCCTTAACTTAAAAACCCT
* *
26322414 TAACCCTTAAATTAAAAACCCT
1 AAACCCTTAACTTAAAAACCCT
* *
26322436 AAACCCTTAACTTTAAAACCGT
1 AAACCCTTAACTTAAAAACCCT
26322458 -AACCCTTAA
1 AAACCCTTAA
26322467 ATANNNNNNN
Statistics
Matches: 101, Mismatches: 12, Indels: 17
0.78 0.09 0.13
Matches are distributed among these distances:
20 16 0.16
21 27 0.27
22 40 0.40
26 5 0.05
27 13 0.13
ACGTcount: A:0.45, C:0.31, G:0.01, T:0.24
Consensus pattern (22 bp):
AAACCCTTAACTTAAAAACCCT
Found at i:26333332 original size:24 final size:25
Alignment explanation
Indices: 26333305--26333359 Score: 58
Period size: 27 Copynumber: 2.2 Consensus size: 25
26333295 GAAAAGGGAA
26333305 AAAAATCATTTT-TTCTTTACTAAT
1 AAAAATCATTTTGTTCTTTACTAAT
* * *
26333329 AAAAGTTATTTTGGATTGTTTACTAAT
1 AAAAATCATTTT-G-TTCTTTACTAAT
26333356 AAAA
1 AAAA
26333360 TTTAAATCCA
Statistics
Matches: 25, Mismatches: 3, Indels: 3
0.81 0.10 0.10
Matches are distributed among these distances:
24 10 0.40
27 15 0.60
ACGTcount: A:0.40, C:0.07, G:0.07, T:0.45
Consensus pattern (25 bp):
AAAAATCATTTTGTTCTTTACTAAT
Found at i:26346479 original size:6 final size:6
Alignment explanation
Indices: 26346468--26346495 Score: 56
Period size: 6 Copynumber: 4.7 Consensus size: 6
26346458 TCGCTCCTGT
26346468 TATTTA TATTTA TATTTA TATTTA TATT
1 TATTTA TATTTA TATTTA TATTTA TATT
26346496 AAGTCCTTAA
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 22 1.00
ACGTcount: A:0.32, C:0.00, G:0.00, T:0.68
Consensus pattern (6 bp):
TATTTA
Found at i:26346850 original size:31 final size:32
Alignment explanation
Indices: 26346783--26346850 Score: 77
Period size: 31 Copynumber: 2.2 Consensus size: 32
26346773 TGGGCACTAT
* * *
26346783 CATTACATACTTTTTATTATTTTAGTCAATGT
1 CATTACATACTATTTATCATTTTAGTCAATGC
*
26346815 CATTACATAC-ATTTATCATTTTA-TCACTTGC
1 CATTACATACTATTTATCATTTTAGTCA-ATGC
26346846 CATTA
1 CATTA
26346851 ATTTGTCATT
Statistics
Matches: 31, Mismatches: 4, Indels: 3
0.82 0.11 0.08
Matches are distributed among these distances:
30 3 0.10
31 18 0.58
32 10 0.32
ACGTcount: A:0.29, C:0.18, G:0.04, T:0.49
Consensus pattern (32 bp):
CATTACATACTATTTATCATTTTAGTCAATGC
Found at i:26348879 original size:18 final size:19
Alignment explanation
Indices: 26348847--26348892 Score: 60
Period size: 18 Copynumber: 2.4 Consensus size: 19
26348837 AATTTAATAC
26348847 TTTAAAAAATTATATAT-ATT
1 TTTAAAAAA-TATAT-TGATT
26348867 TTTAAAAAA-ATATTGATT
1 TTTAAAAAATATATTGATT
26348885 TTTAAAAA
1 TTTAAAAA
26348893 TTGTATAAAG
Statistics
Matches: 25, Mismatches: 0, Indels: 4
0.86 0.00 0.14
Matches are distributed among these distances:
17 1 0.04
18 15 0.60
20 9 0.36
ACGTcount: A:0.52, C:0.00, G:0.02, T:0.46
Consensus pattern (19 bp):
TTTAAAAAATATATTGATT
Found at i:26355533 original size:21 final size:21
Alignment explanation
Indices: 26355507--26355554 Score: 60
Period size: 21 Copynumber: 2.3 Consensus size: 21
26355497 AAAATCAATG
* *
26355507 TCACACGGTCATGTGGTTACT
1 TCACACGCTCATGTGGCTACT
**
26355528 TCACACGCTTGTGTGGCTACT
1 TCACACGCTCATGTGGCTACT
26355549 TCACAC
1 TCACAC
26355555 ACCCGTGTAT
Statistics
Matches: 23, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
21 23 1.00
ACGTcount: A:0.19, C:0.29, G:0.21, T:0.31
Consensus pattern (21 bp):
TCACACGCTCATGTGGCTACT
Found at i:26355562 original size:21 final size:21
Alignment explanation
Indices: 26355518--26355562 Score: 54
Period size: 21 Copynumber: 2.1 Consensus size: 21
26355508 CACACGGTCA
* * **
26355518 TGTGGTTACTTCACACGCTTG
1 TGTGGCTACTTCACACACCCG
26355539 TGTGGCTACTTCACACACCCG
1 TGTGGCTACTTCACACACCCG
26355560 TGT
1 TGT
26355563 ATGTTGACCG
Statistics
Matches: 20, Mismatches: 4, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
21 20 1.00
ACGTcount: A:0.16, C:0.29, G:0.22, T:0.33
Consensus pattern (21 bp):
TGTGGCTACTTCACACACCCG
Found at i:26360376 original size:16 final size:18
Alignment explanation
Indices: 26360344--26360376 Score: 52
Period size: 18 Copynumber: 1.9 Consensus size: 18
26360334 ATTTCAAAAA
26360344 TTTTAATACATTACTATT
1 TTTTAATACATTACTATT
26360362 TTTTAA-ACATT-CTAT
1 TTTTAATACATTACTAT
26360377 GATATAACTT
Statistics
Matches: 15, Mismatches: 0, Indels: 2
0.88 0.00 0.12
Matches are distributed among these distances:
16 4 0.27
17 5 0.33
18 6 0.40
ACGTcount: A:0.33, C:0.12, G:0.00, T:0.55
Consensus pattern (18 bp):
TTTTAATACATTACTATT
Found at i:26362240 original size:17 final size:17
Alignment explanation
Indices: 26362214--26362249 Score: 54
Period size: 17 Copynumber: 2.1 Consensus size: 17
26362204 TTCTATGATG
*
26362214 AAATGCCATGCAGTCAA
1 AAATGCCATGCAGCCAA
*
26362231 AAATGTCATGCAGCCAA
1 AAATGCCATGCAGCCAA
26362248 AA
1 AA
26362250 CAAAACACAC
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
17 17 1.00
ACGTcount: A:0.44, C:0.22, G:0.17, T:0.17
Consensus pattern (17 bp):
AAATGCCATGCAGCCAA
Found at i:26363763 original size:3 final size:3
Alignment explanation
Indices: 26363750--26363805 Score: 51
Period size: 3 Copynumber: 18.3 Consensus size: 3
26363740 TTGTATGTAC
* * * *
26363750 ATA AAA ATA ATA ATT A-A ATA TTAA ATAA ATA ATA ATA ATA ATG ATA
1 ATA ATA ATA ATA ATA ATA ATA AT-A AT-A ATA ATA ATA ATA ATA ATA
26363796 ATA ATA ATA A
1 ATA ATA ATA A
26363806 GGAGAAAATA
Statistics
Matches: 43, Mismatches: 8, Indels: 4
0.78 0.15 0.07
Matches are distributed among these distances:
2 1 0.02
3 36 0.84
4 6 0.14
ACGTcount: A:0.66, C:0.00, G:0.02, T:0.32
Consensus pattern (3 bp):
ATA
Found at i:26375532 original size:10 final size:10
Alignment explanation
Indices: 26375517--26375541 Score: 50
Period size: 10 Copynumber: 2.5 Consensus size: 10
26375507 CAAGTCTAAC
26375517 ATTATGTAAA
1 ATTATGTAAA
26375527 ATTATGTAAA
1 ATTATGTAAA
26375537 ATTAT
1 ATTAT
26375542 TAAGTCTCAA
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
10 15 1.00
ACGTcount: A:0.48, C:0.00, G:0.08, T:0.44
Consensus pattern (10 bp):
ATTATGTAAA
Found at i:26375586 original size:55 final size:54
Alignment explanation
Indices: 26375525--26375882 Score: 403
Period size: 55 Copynumber: 6.3 Consensus size: 54
26375515 ACATTATGTA
* *
26375525 AAATTATGTAAAATTATTAAGTCTCAAAGTTTTGTTAATGGTTAGTAAAATTATC
1 AAATTATGTAAAATTATTAAGTC-CAAAATTGTGTTAATGGTTAGTAAAATTATC
*** * **
26375580 AAATTATGTAAAATTATTAAG-CCAAAAAAATTTTAATTAAATTAGGTAAAATTATC
1 AAATTATGTAAAATTATTAAGTCCAAAATTGTGTTAA-T-GGTTA-GTAAAATTATC
26375636 AAATTATGTAAAATTATTAAGTCCAAAAATTGTGTTAATGGTTAGTAAAATTATC
1 AAATTATGTAAAATTATTAAGTCC-AAAATTGTGTTAATGGTTAGTAAAATTATC
* * * **
26375691 AAATTATGTAAAATTATGTAAAATTATTAAGCCAAAATTTTTTTAATTAAATTAAGTAAAATTAT
1 AAATTATGTAAAATTAT-T---A--AGT---CCAAAATTGTGTTAA-T-GGTT-AGTAAAATTAT
26375756 C
54 C
* *
26375757 AAATTAGGTAAAATTATTCAGTCCAAAAATTGTGTTAATGGTTAGTAAAATTATC
1 AAATTATGTAAAATTATTAAGTCC-AAAATTGTGTTAATGGTTAGTAAAATTATC
26375812 AAATTATGTAAAATTATTAAGTCCAACAATTGTGTTAATGGTTAGTAAAATTATC
1 AAATTATGTAAAATTATTAAGTCCAA-AATTGTGTTAATGGTTAGTAAAATTATC
26375867 AAATTATGTAAAATTA
1 AAATTATGTAAAATTA
26375883 GGTTAGGGTT
Statistics
Matches: 257, Mismatches: 27, Indels: 38
0.80 0.08 0.12
Matches are distributed among these distances:
53 9 0.04
54 4 0.02
55 130 0.51
56 38 0.15
57 6 0.02
58 20 0.08
59 1 0.00
60 2 0.01
61 2 0.01
63 11 0.04
64 3 0.01
65 3 0.01
66 28 0.11
ACGTcount: A:0.45, C:0.06, G:0.11, T:0.39
Consensus pattern (54 bp):
AAATTATGTAAAATTATTAAGTCCAAAATTGTGTTAATGGTTAGTAAAATTATC
Found at i:26375592 original size:18 final size:18
Alignment explanation
Indices: 26375569--26375652 Score: 62
Period size: 18 Copynumber: 4.6 Consensus size: 18
26375559 TTAATGGTTA
26375569 GTAAAATTATCAAATTAT
1 GTAAAATTATCAAATTAT
* ***
26375587 GTAAAATTATTAAGCCA-
1 GTAAAATTATCAAATTAT
** * *
26375604 AAAAAATTTTAATTAAATTAG
1 GTAAAA--TT-ATCAAATTAT
26375625 GTAAAATTATCAAATTAT
1 GTAAAATTATCAAATTAT
26375643 GTAAAATTAT
1 GTAAAATTAT
26375653 TAAGTCCAAA
Statistics
Matches: 49, Mismatches: 13, Indels: 8
0.70 0.19 0.11
Matches are distributed among these distances:
17 4 0.08
18 31 0.63
19 4 0.08
20 6 0.12
21 4 0.08
ACGTcount: A:0.51, C:0.05, G:0.07, T:0.37
Consensus pattern (18 bp):
GTAAAATTATCAAATTAT
Found at i:26375705 original size:65 final size:66
Alignment explanation
Indices: 26375636--26375773 Score: 192
Period size: 66 Copynumber: 2.1 Consensus size: 66
26375626 TAAAATTATC
** *
26375636 AAATTATGTAAAATTATTAAGTCCAAAAATTGTGTTAA-T-GGTT-AGTAAAATTATCAAATTAT
1 AAATTATGTAAAATTATTAAG-CC-AAAATTGTGTTAATTAAATTAAGTAAAATTATCAAATTAG
26375698 GTA
64 GTA
* *
26375701 AAATTATGTAAAATTATTAAGCCAAAATTTTTTTAATTAAATTAAGTAAAATTATCAAATTAGGT
1 AAATTATGTAAAATTATTAAGCCAAAATTGTGTTAATTAAATTAAGTAAAATTATCAAATTAGGT
26375766 A
66 A
26375767 AAATTAT
1 AAATTAT
26375774 TCAGTCCAAA
Statistics
Matches: 65, Mismatches: 5, Indels: 5
0.87 0.07 0.07
Matches are distributed among these distances:
63 11 0.17
64 3 0.05
65 23 0.35
66 28 0.43
ACGTcount: A:0.47, C:0.04, G:0.09, T:0.39
Consensus pattern (66 bp):
AAATTATGTAAAATTATTAAGCCAAAATTGTGTTAATTAAATTAAGTAAAATTATCAAATTAGGT
A
Found at i:26375706 original size:10 final size:10
Alignment explanation
Indices: 26375691--26375717 Score: 54
Period size: 10 Copynumber: 2.7 Consensus size: 10
26375681 TAAAATTATC
26375691 AAATTATGTA
1 AAATTATGTA
26375701 AAATTATGTA
1 AAATTATGTA
26375711 AAATTAT
1 AAATTAT
26375718 TAAGCCAAAA
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
10 17 1.00
ACGTcount: A:0.52, C:0.00, G:0.07, T:0.41
Consensus pattern (10 bp):
AAATTATGTA
Found at i:26375735 original size:121 final size:121
Alignment explanation
Indices: 26375580--26375828 Score: 444
Period size: 121 Copynumber: 2.1 Consensus size: 121
26375570 TAAAATTATC
* *
26375580 AAATTATGTAAAATTATTAAGCCAAAAAAATTTTAATTAAATTAGGTAAAATTATCAAATTATGT
1 AAATTATGTAAAATTATTAAGCCAAAAAAATTTTAATTAAATTAAGTAAAATTATCAAATTAGGT
26375645 AAAATTATTAAGTCCAAAAATTGTGTTAATGGTTAGTAAAATTATCAAATTATGTA
66 AAAATTATTAAGTCCAAAAATTGTGTTAATGGTTAGTAAAATTATCAAATTATGTA
***
26375701 AAATTATGTAAAATTATTAAGCCAAAATTTTTTTAATTAAATTAAGTAAAATTATCAAATTAGGT
1 AAATTATGTAAAATTATTAAGCCAAAAAAATTTTAATTAAATTAAGTAAAATTATCAAATTAGGT
*
26375766 AAAATTATTCAGTCCAAAAATTGTGTTAATGGTTAGTAAAATTATCAAATTATGTA
66 AAAATTATTAAGTCCAAAAATTGTGTTAATGGTTAGTAAAATTATCAAATTATGTA
26375822 AAATTAT
1 AAATTAT
26375829 TAAGTCCAAC
Statistics
Matches: 122, Mismatches: 6, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
121 122 1.00
ACGTcount: A:0.47, C:0.05, G:0.10, T:0.38
Consensus pattern (121 bp):
AAATTATGTAAAATTATTAAGCCAAAAAAATTTTAATTAAATTAAGTAAAATTATCAAATTAGGT
AAAATTATTAAGTCCAAAAATTGTGTTAATGGTTAGTAAAATTATCAAATTATGTA
Found at i:26375762 original size:18 final size:18
Alignment explanation
Indices: 26375739--26375773 Score: 61
Period size: 18 Copynumber: 1.9 Consensus size: 18
26375729 TTTTTTAATT
26375739 AAATTAAGTAAAATTATC
1 AAATTAAGTAAAATTATC
*
26375757 AAATTAGGTAAAATTAT
1 AAATTAAGTAAAATTAT
26375774 TCAGTCCAAA
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
18 16 1.00
ACGTcount: A:0.54, C:0.03, G:0.09, T:0.34
Consensus pattern (18 bp):
AAATTAAGTAAAATTATC
Found at i:26375787 original size:176 final size:174
Alignment explanation
Indices: 26375517--26375882 Score: 542
Period size: 176 Copynumber: 2.1 Consensus size: 174
26375507 CAAGTCTAAC
* **
26375517 ATTATGTAAAATTATGTAAAATTATTAAGTCTCAAAGTTTTGTTAATGGTTAGTAAAATTATCAA
1 ATTATGTAAAATTATGTAAAATTATTAAGTCTCAAAATTTTGTTAATAATTAGTAAAATTATCAA
* *
26375582 ATTATGTAAAATTATTAAGCCAAAAAAATTTTAATTAA-ATTAGGTAAAATTATCAAATTATGTA
66 ATTAGGTAAAATTATTAAGCC-AAAAAATTGT-ATTAAGATTA-GTAAAATTATCAAATTATGTA
26375646 AAATTATTAAGTCCAAAAATTGTGTTAATGGTTAGTAAAATTATCAA
128 AAATTATTAAGTCCAAAAATTGTGTTAATGGTTAGTAAAATTATCAA
*
26375693 ATTATGTAAAATTATGTAAAATTATTAAG-C-CAAAATTTTTTTAATTAAATTAAGTAAAATTAT
1 ATTATGTAAAATTATGTAAAATTATTAAGTCTCAAAATTTTGTTAA-T-AATT-AGTAAAATTAT
* * *
26375756 CAAATTAGGTAAAATTATTCAGTCC-AAAAATTGTGTTAATGGTTAGTAAAATTATCAAATTATG
63 CAAATTAGGTAAAATTATTAAG-CCAAAAAATTGTATTAA-GATTAGTAAAATTATCAAATTATG
*
26375820 TAAAATTATTAAGTCCAACAATTGTGTTAATGGTTAGTAAAATTATCAA
126 TAAAATTATTAAGTCCAAAAATTGTGTTAATGGTTAGTAAAATTATCAA
26375869 ATTATGTAAAATTA
1 ATTATGTAAAATTA
26375883 GGTTAGGGTT
Statistics
Matches: 174, Mismatches: 10, Indels: 12
0.89 0.05 0.06
Matches are distributed among these distances:
174 12 0.07
175 6 0.03
176 120 0.69
177 34 0.20
178 2 0.01
ACGTcount: A:0.45, C:0.05, G:0.11, T:0.39
Consensus pattern (174 bp):
ATTATGTAAAATTATGTAAAATTATTAAGTCTCAAAATTTTGTTAATAATTAGTAAAATTATCAA
ATTAGGTAAAATTATTAAGCCAAAAAATTGTATTAAGATTAGTAAAATTATCAAATTATGTAAAA
TTATTAAGTCCAAAAATTGTGTTAATGGTTAGTAAAATTATCAA
Found at i:26375913 original size:18 final size:18
Alignment explanation
Indices: 26375890--26376052 Score: 140
Period size: 18 Copynumber: 9.7 Consensus size: 18
26375880 TTAGGTTAGG
26375890 GTTAGGGTTTTTAATTAA
1 GTTAGGGTTTTTAATTAA
26375908 GTTAGGGTTTTTAATTAA
1 GTTAGGGTTTTTAATTAA
**
26375926 GTTA-GG---TT-A--GG
1 GTTAGGGTTTTTAATTAA
*
26375937 GTTAGGGTTTTTAACTAA
1 GTTAGGGTTTTTAATTAA
26375955 GTTAGGGTTTTTAATTAA
1 GTTAGGGTTTTTAATTAA
26375973 GTTAGGGTTTTTAATTAA
1 GTTAGGGTTTTTAATTAA
**
26375991 GTTA-GG---TT-A--GG
1 GTTAGGGTTTTTAATTAA
26376002 GTTAGGGTTTTTAATTAA
1 GTTAGGGTTTTTAATTAA
26376020 GTTAGGGTTTAATTAAATTAA
1 GTTAGGGTTT--TT-AATTAA
*
26376041 -ATAGGGTTTTTA
1 GTTAGGGTTTTTA
26376053 TTACATCAAA
Statistics
Matches: 118, Mismatches: 10, Indels: 35
0.72 0.06 0.21
Matches are distributed among these distances:
11 8 0.07
12 4 0.03
13 2 0.02
14 4 0.03
15 4 0.03
16 2 0.02
17 5 0.04
18 73 0.62
20 10 0.08
21 6 0.05
ACGTcount: A:0.28, C:0.01, G:0.25, T:0.47
Consensus pattern (18 bp):
GTTAGGGTTTTTAATTAA
Found at i:26375949 original size:47 final size:47
Alignment explanation
Indices: 26375880--26375978 Score: 189
Period size: 47 Copynumber: 2.1 Consensus size: 47
26375870 TTATGTAAAA
*
26375880 TTAGGTTAGGGTTAGGGTTTTTAATTAAGTTAGGGTTTTTAATTAAG
1 TTAGGTTAGGGTTAGGGTTTTTAACTAAGTTAGGGTTTTTAATTAAG
26375927 TTAGGTTAGGGTTAGGGTTTTTAACTAAGTTAGGGTTTTTAATTAAG
1 TTAGGTTAGGGTTAGGGTTTTTAACTAAGTTAGGGTTTTTAATTAAG
26375974 TTAGG
1 TTAGG
26375979 GTTTTTAATT
Statistics
Matches: 51, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
47 51 1.00
ACGTcount: A:0.25, C:0.01, G:0.28, T:0.45
Consensus pattern (47 bp):
TTAGGTTAGGGTTAGGGTTTTTAACTAAGTTAGGGTTTTTAATTAAG
Found at i:26375971 original size:65 final size:65
Alignment explanation
Indices: 26375890--26376052 Score: 274
Period size: 65 Copynumber: 2.5 Consensus size: 65
26375880 TTAGGTTAGG
26375890 GTTAGGGTTTTTAATTAAGTTAGGGTTTTTAATTAAGTTAGGTTAGGGTTAGGGTTTTTAACTAA
1 GTTAGGGTTTTTAATTAAGTTAGGGTTTTTAATTAAGTTAGGTTAGGGTTAGGGTTTTTAACTAA
*
26375955 GTTAGGGTTTTTAATTAAGTTAGGGTTTTTAATTAAGTTAGGTTAGGGTTAGGGTTTTTAATTAA
1 GTTAGGGTTTTTAATTAAGTTAGGGTTTTTAATTAAGTTAGGTTAGGGTTAGGGTTTTTAACTAA
*
26376020 GTTAGGGTTTAATTAAATTAA-ATAGGGTTTTTA
1 GTTAGGGTTT--TT-AATTAAGTTAGGGTTTTTA
26376053 TTACATCAAA
Statistics
Matches: 93, Mismatches: 2, Indels: 4
0.94 0.02 0.04
Matches are distributed among these distances:
65 74 0.80
67 13 0.14
68 6 0.06
ACGTcount: A:0.28, C:0.01, G:0.25, T:0.47
Consensus pattern (65 bp):
GTTAGGGTTTTTAATTAAGTTAGGGTTTTTAATTAAGTTAGGTTAGGGTTAGGGTTTTTAACTAA
Found at i:26376055 original size:21 final size:20
Alignment explanation
Indices: 26376022--26376065 Score: 52
Period size: 21 Copynumber: 2.1 Consensus size: 20
26376012 TTAATTAAGT
*
26376022 TAGGGTTTAATTAAATTAAA
1 TAGGGTTTAATTAAATCAAA
* *
26376042 TAGGGTTTTTATTACATCAAA
1 TAGGG-TTTAATTAAATCAAA
26376063 TAG
1 TAG
26376066 AACTTCTATT
Statistics
Matches: 20, Mismatches: 3, Indels: 1
0.83 0.12 0.04
Matches are distributed among these distances:
20 5 0.25
21 15 0.75
ACGTcount: A:0.39, C:0.05, G:0.16, T:0.41
Consensus pattern (20 bp):
TAGGGTTTAATTAAATCAAA
Found at i:26376100 original size:25 final size:26
Alignment explanation
Indices: 26376048--26376111 Score: 103
Period size: 25 Copynumber: 2.5 Consensus size: 26
26376038 TAAATAGGGT
26376048 TTTTATTACATCAAATAGAACTTCTA
1 TTTTATTACATCAAATAGAACTTCTA
* *
26376074 TTTTATTATATTAAATA-AACTTCTA
1 TTTTATTACATCAAATAGAACTTCTA
26376099 TTTTATTACATCA
1 TTTTATTACATCA
26376112 GATAATAAAT
Statistics
Matches: 34, Mismatches: 4, Indels: 1
0.87 0.10 0.03
Matches are distributed among these distances:
25 19 0.56
26 15 0.44
ACGTcount: A:0.38, C:0.12, G:0.02, T:0.48
Consensus pattern (26 bp):
TTTTATTACATCAAATAGAACTTCTA
Found at i:26376539 original size:18 final size:18
Alignment explanation
Indices: 26376512--26376546 Score: 52
Period size: 18 Copynumber: 1.9 Consensus size: 18
26376502 CGGAAAAGGA
* *
26376512 TACATGTAAGGGTTAGGG
1 TACATATAAGGGCTAGGG
26376530 TACATATAAGGGCTAGG
1 TACATATAAGGGCTAGG
26376547 AAACACACAT
Statistics
Matches: 15, Mismatches: 2, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
18 15 1.00
ACGTcount: A:0.31, C:0.09, G:0.34, T:0.26
Consensus pattern (18 bp):
TACATATAAGGGCTAGGG
Found at i:26377207 original size:7 final size:7
Alignment explanation
Indices: 26377197--26377221 Score: 50
Period size: 7 Copynumber: 3.6 Consensus size: 7
26377187 TTATATACAT
26377197 AATACTA
1 AATACTA
26377204 AATACTA
1 AATACTA
26377211 AATACTA
1 AATACTA
26377218 AATA
1 AATA
26377222 TCAATCGACT
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 18 1.00
ACGTcount: A:0.60, C:0.12, G:0.00, T:0.28
Consensus pattern (7 bp):
AATACTA
Found at i:26378291 original size:22 final size:22
Alignment explanation
Indices: 26378266--26378316 Score: 102
Period size: 22 Copynumber: 2.3 Consensus size: 22
26378256 AAATATGGGT
26378266 TTGAGAGAATTTTGGAAGGAAA
1 TTGAGAGAATTTTGGAAGGAAA
26378288 TTGAGAGAATTTTGGAAGGAAA
1 TTGAGAGAATTTTGGAAGGAAA
26378310 TTGAGAG
1 TTGAGAG
26378317 GATTAGAGAG
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
22 29 1.00
ACGTcount: A:0.39, C:0.00, G:0.33, T:0.27
Consensus pattern (22 bp):
TTGAGAGAATTTTGGAAGGAAA
Found at i:26380717 original size:21 final size:19
Alignment explanation
Indices: 26380684--26380725 Score: 50
Period size: 19 Copynumber: 2.1 Consensus size: 19
26380674 TTTTGTGTTT
26380684 AATATTTTAATAAATTTGATA
1 AATATTTTAAT-AA-TTGATA
26380705 AATA-TTTATATAATTGATA
1 AATATTTTA-ATAATTGATA
26380724 AA
1 AA
26380726 AATATAAAAC
Statistics
Matches: 20, Mismatches: 0, Indels: 4
0.83 0.00 0.17
Matches are distributed among these distances:
19 8 0.40
20 6 0.30
21 6 0.30
ACGTcount: A:0.50, C:0.00, G:0.05, T:0.45
Consensus pattern (19 bp):
AATATTTTAATAATTGATA
Found at i:26380994 original size:11 final size:11
Alignment explanation
Indices: 26380978--26381004 Score: 54
Period size: 11 Copynumber: 2.5 Consensus size: 11
26380968 GGATTGCGCT
26380978 TCCATTACTTA
1 TCCATTACTTA
26380989 TCCATTACTTA
1 TCCATTACTTA
26381000 TCCAT
1 TCCAT
26381005 GAGCATTCTT
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 16 1.00
ACGTcount: A:0.26, C:0.30, G:0.00, T:0.44
Consensus pattern (11 bp):
TCCATTACTTA
Found at i:26381514 original size:27 final size:27
Alignment explanation
Indices: 26381463--26381514 Score: 68
Period size: 27 Copynumber: 1.9 Consensus size: 27
26381453 ACACTAGGAA
* **
26381463 TAAGAAATTTCATTAGATTTTTTAAGT
1 TAAGAAATTTAATTAGATTAATTAAGT
*
26381490 TAAGTAATTTAATTAGATTAATTAA
1 TAAGAAATTTAATTAGATTAATTAA
26381515 TATTTAAATT
Statistics
Matches: 21, Mismatches: 4, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
27 21 1.00
ACGTcount: A:0.42, C:0.02, G:0.10, T:0.46
Consensus pattern (27 bp):
TAAGAAATTTAATTAGATTAATTAAGT
Found at i:26384217 original size:19 final size:20
Alignment explanation
Indices: 26384177--26384313 Score: 77
Period size: 19 Copynumber: 6.7 Consensus size: 20
26384167 AATATTATTT
26384177 AAATATTATAACAAATT-TAG
1 AAATATTATAA-AAATTATAG
*
26384197 AAAT-TTATAAAAATTAAAG
1 AAATATTATAAAAATTATAG
* *
26384216 AAA-ACTATAAAAAATACTA-
1 AAATATTATAAAAATTA-TAG
* *
26384235 AAATGTTATAAAAATTTATATTATT
1 AAATATTATAAAAA--T-TA-TA-G
*
26384260 AAATATTATAAAAGATTATTG
1 AAATATTATAAAA-ATTATAG
* * *
26384281 ATATATTATGAAAAAATATAA
1 AAATATTAT-AAAAATTATAG
26384302 AAATA-TATAAAA
1 AAATATTATAAAA
26384314 TTTGTAGATA
Statistics
Matches: 90, Mismatches: 16, Indels: 23
0.70 0.12 0.18
Matches are distributed among these distances:
18 5 0.06
19 28 0.31
20 16 0.18
21 16 0.18
22 5 0.06
23 6 0.07
24 1 0.01
25 12 0.13
26 1 0.01
ACGTcount: A:0.59, C:0.02, G:0.04, T:0.34
Consensus pattern (20 bp):
AAATATTATAAAAATTATAG
Found at i:26384288 original size:21 final size:21
Alignment explanation
Indices: 26384254--26384294 Score: 57
Period size: 21 Copynumber: 2.0 Consensus size: 21
26384244 AAAAATTTAT
26384254 ATTATTAAATATTAT-AAAAG
1 ATTATTAAATATTATGAAAAG
*
26384274 ATTATTGATATATTATGAAAA
1 ATTATT-AAATATTATGAAAA
26384295 AATATAAAAA
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
20 6 0.33
21 8 0.44
22 4 0.22
ACGTcount: A:0.51, C:0.00, G:0.07, T:0.41
Consensus pattern (21 bp):
ATTATTAAATATTATGAAAAG
Found at i:26388873 original size:28 final size:30
Alignment explanation
Indices: 26388810--26388873 Score: 87
Period size: 29 Copynumber: 2.2 Consensus size: 30
26388800 AAAAAAAGCC
*
26388810 ATTTTTTAATAAAATTATGGAAATAAGTTA
1 ATTTTTTAATAAAATTATGGAAATAAGCTA
*
26388840 ATTTTTTAA-AAATTTATGGAAAT-AGACTA
1 ATTTTTTAATAAAATTATGGAAATAAG-CTA
26388869 ATTTT
1 ATTTT
26388874 GGTGTCCATA
Statistics
Matches: 31, Mismatches: 2, Indels: 3
0.86 0.06 0.08
Matches are distributed among these distances:
28 2 0.06
29 20 0.65
30 9 0.29
ACGTcount: A:0.44, C:0.02, G:0.09, T:0.45
Consensus pattern (30 bp):
ATTTTTTAATAAAATTATGGAAATAAGCTA
Found at i:26390524 original size:28 final size:28
Alignment explanation
Indices: 26390476--26390529 Score: 65
Period size: 28 Copynumber: 1.9 Consensus size: 28
26390466 GTGACAATTT
* *
26390476 AGATGTAGATGCAAAACAAATTAGATAC
1 AGATGTAGATACAAAACAAATCAGATAC
*
26390504 AGATGTAGA-ACAAATCAAAATCAGAT
1 AGATGTAGATACAAAAC-AAATCAGAT
26390530 GCAGTTTCCT
Statistics
Matches: 22, Mismatches: 3, Indels: 2
0.81 0.11 0.07
Matches are distributed among these distances:
27 5 0.23
28 17 0.77
ACGTcount: A:0.52, C:0.11, G:0.17, T:0.20
Consensus pattern (28 bp):
AGATGTAGATACAAAACAAATCAGATAC
Found at i:26391935 original size:27 final size:25
Alignment explanation
Indices: 26391905--26391958 Score: 72
Period size: 26 Copynumber: 2.1 Consensus size: 25
26391895 AGCAAATCAA
*
26391905 AAATAAAGAAAATTAAAAAGAAATAAG
1 AAAT-AAGAAAAATAAAAAGAAA-AAG
*
26391932 AAATAAGAAAAATAAAAATAAAAAG
1 AAATAAGAAAAATAAAAAGAAAAAG
26391957 AA
1 AA
26391959 GAAGGAACGT
Statistics
Matches: 25, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
25 5 0.20
26 16 0.64
27 4 0.16
ACGTcount: A:0.78, C:0.00, G:0.09, T:0.13
Consensus pattern (25 bp):
AAATAAGAAAAATAAAAAGAAAAAG
Found at i:26396746 original size:35 final size:34
Alignment explanation
Indices: 26396665--26396874 Score: 146
Period size: 33 Copynumber: 6.2 Consensus size: 34
26396655 ACATTCGTAG
* * * *
26396665 TGCCATAACCCAGTTATGGTCTTATCAT-CAGAA-
1 TGCCATAGCCCAGCTATGGTCTTA-CATATAAAAC
*
26396698 TGCCATAGTCCAGCTATGGTCTTACATATAAACAC
1 TGCCATAGCCCAGCTATGGTCTTACATATAAA-AC
*
26396733 TGCCATAGCCCAGCTATGGTCTTATATATAAACAC
1 TGCCATAGCCCAGCTATGGTCTTACATATAAA-AC
* * * * * * *
26396768 TGACC-TGGTCCAACTATGGTCTTACGT-TCATAG
1 TG-CCATAGCCCAGCTATGGTCTTACATATAAAAC
* * *
26396801 TGCCAT-GACCTAGTTATGGTCTTATA-ATCAAAA-
1 TGCCATAG-CCCAGCTATGGTCTTACATAT-AAAAC
* *
26396834 TGCTATAGTCCAGCTATGGTCTTACATATAAATAC
1 TGCCATAGCCCAGCTATGGTCTTACATATAAA-AC
26396869 TGCCAT
1 TGCCAT
26396875 GGTCTAACCA
Statistics
Matches: 136, Mismatches: 29, Indels: 22
0.73 0.16 0.12
Matches are distributed among these distances:
32 6 0.04
33 62 0.46
34 9 0.07
35 57 0.42
36 2 0.01
ACGTcount: A:0.30, C:0.23, G:0.16, T:0.31
Consensus pattern (34 bp):
TGCCATAGCCCAGCTATGGTCTTACATATAAAAC
Found at i:26396891 original size:101 final size:101
Alignment explanation
Indices: 26396737--26396926 Score: 292
Period size: 101 Copynumber: 1.9 Consensus size: 101
26396727 AAACACTGCC
* * *
26396737 ATAGCCCAGCTATGGTCTTATATATAAACACTGACCTGGTCCAACTATGGTCTTACGTTCATAGT
1 ATAGCCCAGCTATGGTCTTACATATAAACACTGACCTGGTCCAACCATAGTCTTACGTTCATAGT
* *
26396802 GCCATGACCTAGTTATGGTCTTATAATCAAAATGCT
66 GCCATAACCCAGTTATGGTCTTATAATCAAAATGCT
* * *
26396838 ATAGTCCAGCTATGGTCTTACATATAAATACTG-CCATGGTCTAACCATAGTCTTACGTTCATAG
1 ATAGCCCAGCTATGGTCTTACATATAAACACTGACC-TGGTCCAACCATAGTCTTACGTTCATAG
26396902 TGCCATAACCCAGTTATGGTCTTAT
65 TGCCATAACCCAGTTATGGTCTTAT
26396927 CCGTTAATTC
Statistics
Matches: 80, Mismatches: 8, Indels: 2
0.89 0.09 0.02
Matches are distributed among these distances:
100 2 0.03
101 78 0.98
ACGTcount: A:0.28, C:0.22, G:0.16, T:0.33
Consensus pattern (101 bp):
ATAGCCCAGCTATGGTCTTACATATAAACACTGACCTGGTCCAACCATAGTCTTACGTTCATAGT
GCCATAACCCAGTTATGGTCTTATAATCAAAATGCT
Found at i:26398882 original size:11 final size:11
Alignment explanation
Indices: 26398866--26398952 Score: 56
Period size: 11 Copynumber: 8.1 Consensus size: 11
26398856 TTATATGCTA
26398866 AATAAAATAAT
1 AATAAAATAAT
26398877 AATAAAATAAT
1 AATAAAATAAT
* *
26398888 AA-AATAT-CT
1 AATAAAATAAT
* *
26398897 CATTAAAATATT
1 -AATAAAATAAT
26398909 AATAAAATAAT
1 AATAAAATAAT
* *
26398920 AA-AATAT-CT
1 AATAAAATAAT
* *
26398929 CATTAAAATATT
1 -AATAAAATAAT
26398941 AATAAAATAAT
1 AATAAAATAAT
26398952 A
1 A
26398953 TTTATCTAAT
Statistics
Matches: 56, Mismatches: 14, Indels: 12
0.68 0.17 0.15
Matches are distributed among these distances:
9 2 0.04
10 10 0.18
11 42 0.75
12 2 0.04
ACGTcount: A:0.63, C:0.05, G:0.00, T:0.32
Consensus pattern (11 bp):
AATAAAATAAT
Found at i:26398912 original size:32 final size:32
Alignment explanation
Indices: 26398868--26398952 Score: 161
Period size: 32 Copynumber: 2.7 Consensus size: 32
26398858 ATATGCTAAA
*
26398868 TAAAATAATAATAAAATAATAAAATATCTCAT
1 TAAAATATTAATAAAATAATAAAATATCTCAT
26398900 TAAAATATTAATAAAATAATAAAATATCTCAT
1 TAAAATATTAATAAAATAATAAAATATCTCAT
26398932 TAAAATATTAATAAAATAATA
1 TAAAATATTAATAAAATAATA
26398953 TTTATCTAAT
Statistics
Matches: 52, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
32 52 1.00
ACGTcount: A:0.62, C:0.05, G:0.00, T:0.33
Consensus pattern (32 bp):
TAAAATATTAATAAAATAATAAAATATCTCAT
Found at i:26403207 original size:16 final size:16
Alignment explanation
Indices: 26403188--26403245 Score: 55
Period size: 16 Copynumber: 3.6 Consensus size: 16
26403178 AATTGAAAGT
*
26403188 AAAGAAAATGAAAAAC
1 AAAGAAAAAGAAAAAC
*
26403204 AAAGAAAAAGAAAAAG
1 AAAGAAAAAGAAAAAC
* *
26403220 AAATAAGAAACAAGAAAC
1 AAAGAA-AAAGAA-AAAC
26403238 -AAGAAAAA
1 AAAGAAAAA
26403246 AAATATAAAA
Statistics
Matches: 34, Mismatches: 6, Indels: 4
0.77 0.14 0.09
Matches are distributed among these distances:
16 22 0.65
17 9 0.26
18 3 0.09
ACGTcount: A:0.78, C:0.05, G:0.14, T:0.03
Consensus pattern (16 bp):
AAAGAAAAAGAAAAAC
Found at i:26403213 original size:6 final size:6
Alignment explanation
Indices: 26403204--26403245 Score: 57
Period size: 7 Copynumber: 6.5 Consensus size: 6
26403194 AATGAAAAAC
26403204 AAAGAA AAAGAA AAAGAA ATAAGAA ACAAGAA ACAAGAA AAA
1 AAAGAA AAAGAA AAAGAA A-AAGAA A-AAGAA A-AAGAA AAA
26403246 AAATATAAAA
Statistics
Matches: 34, Mismatches: 1, Indels: 2
0.92 0.03 0.05
Matches are distributed among these distances:
6 15 0.44
7 19 0.56
ACGTcount: A:0.79, C:0.05, G:0.14, T:0.02
Consensus pattern (6 bp):
AAAGAA
Found at i:26403223 original size:27 final size:27
Alignment explanation
Indices: 26403200--26403250 Score: 79
Period size: 27 Copynumber: 1.9 Consensus size: 27
26403190 AGAAAATGAA
26403200 AAACAAAGAAA-AAGAAAAAGAAATAAG
1 AAAC-AAGAAACAAGAAAAAGAAATAAG
26403227 AAACAAGAAACAAGAAAAA-AAATA
1 AAACAAGAAACAAGAAAAAGAAATA
26403251 TAAAAGAAGA
Statistics
Matches: 23, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
26 11 0.48
27 12 0.52
ACGTcount: A:0.78, C:0.06, G:0.12, T:0.04
Consensus pattern (27 bp):
AAACAAGAAACAAGAAAAAGAAATAAG
Found at i:26403244 original size:26 final size:27
Alignment explanation
Indices: 26403183--26403253 Score: 74
Period size: 27 Copynumber: 2.6 Consensus size: 27
26403173 AAGCAAATTG
* *
26403183 AAAGTAAAGAAAATGAA-AAACAAAGAA
1 AAAGAAAAAAAAAT-AAGAAACAAAGAA
*
26403210 AAAGAAAAAGAAATAAGAAAC-AAGAA
1 AAAGAAAAAAAAATAAGAAACAAAGAA
26403236 ACAAGAAAAAAAATATAA
1 A-AAGAAAAAAAA-ATAA
26403254 AAGAAGAAGG
Statistics
Matches: 37, Mismatches: 4, Indels: 5
0.80 0.09 0.11
Matches are distributed among these distances:
26 8 0.22
27 25 0.68
28 4 0.11
ACGTcount: A:0.76, C:0.04, G:0.13, T:0.07
Consensus pattern (27 bp):
AAAGAAAAAAAAATAAGAAACAAAGAA
Found at i:26418076 original size:67 final size:67
Alignment explanation
Indices: 26418000--26418135 Score: 272
Period size: 67 Copynumber: 2.0 Consensus size: 67
26417990 ATGCCTCGAG
26418000 ACATGGCTTCATTATCTCAAGACATAAACTTGCATTTTGCTTGTTTGATCCCAAGATTCGTAACC
1 ACATGGCTTCATTATCTCAAGACATAAACTTGCATTTTGCTTGTTTGATCCCAAGATTCGTAACC
26418065 CA
66 CA
26418067 ACATGGCTTCATTATCTCAAGACATAAACTTGCATTTTGCTTGTTTGATCCCAAGATTCGTAACC
1 ACATGGCTTCATTATCTCAAGACATAAACTTGCATTTTGCTTGTTTGATCCCAAGATTCGTAACC
26418132 CA
66 CA
26418134 AC
1 AC
26418136 TTTGTATTTT
Statistics
Matches: 69, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
67 69 1.00
ACGTcount: A:0.29, C:0.24, G:0.13, T:0.34
Consensus pattern (67 bp):
ACATGGCTTCATTATCTCAAGACATAAACTTGCATTTTGCTTGTTTGATCCCAAGATTCGTAACC
CA
Found at i:26431538 original size:138 final size:136
Alignment explanation
Indices: 26431235--26431748 Score: 529
Period size: 138 Copynumber: 3.8 Consensus size: 136
26431225 CTTGGTATTA
* * * **
26431235 TATAAAGGTTTGTCAGTTTGTGATCGCAACCTCCAAAAATAGCTAGTGGACCTACGCTTCCATAT
1 TATAAAGGTTTGTCA-TTTATGATCACAACCTCCAAAAATAGCTAGTGGACCTACGCTCCCAGCT
* *
26431300 GATATTCCAAGAGCTCGCAAAGTTAAGCTTGCAACTCCAATACAGCT--A-A---ACGCTCCCAG
65 GATATTCCAAGAGCTCGCAAAGTTAAGCTCGCAACTCCAACACAGCTAGAGACCTACGCTCCCAG
26431359 TTGATGT
130 TTGATGT
* ** * * *
26431366 TATAAAGGTTTGCTGATTTATGATTGCAACCTCCAAAAACAACTAATGGACCTACGCTCCCAGCT
1 TATAAAGGTTTG-TCATTTATGATCACAACCTCCAAAAATAGCTAGTGGACCTACGCTCCCAGCT
** * *
26431431 GATATTCTGAGAGCTCGCAAAGTTAAGCTCGCAGCTCCAACACAACTAGCAGACCTACGCTCCCA
65 GATATTCCAAGAGCTCGCAAAGTTAAGCTCGCAACTCCAACACAGCTAG-AGACCTACGCTCCCA
*
26431496 GCTGATGT
129 GTTGATGT
* * * ** *
26431504 TATAAAGGTTTGTCATTTTATGATTACAACCTCCAAAAATAGCTAGCGAACCTATACTCCTAGCT
1 TATAAAGGTTTGTCA-TTTATGATCACAACCTCCAAAAATAGCTAGTGGACCTACGCTCCCAGCT
* * * * * * **
26431569 -AGTATTCCAAGAGTTCGCAGAGTTAAGGTCACAACTCCAACACAGCTAGTGAACCTATGCTTTC
65 GA-TATTCCAAGAGCTCGCAAAGTTAAGCTCGCAACTCCAACACAGCTAGAG-ACCTACGCTCCC
*
26431633 AATTGATGT
128 AGTTGATGT
* * **
26431642 TATAAGGGTTTGCCGATTTATGATCACAACCTTTAAAAATAGCTAGTGGACCTACGCTCCCAGCT
1 TATAAAGGTTTGTC-ATTTATGATCACAACCTCCAAAAATAGCTAGTGGACCTACGCTCCCAGCT
** * * * *
26431707 GATATTCTTAGAGCTCGTAGAGTTAAGCTCGTAGCTCCAACA
65 GATATTCCAAGAGCTCGCAAAGTTAAGCTCGCAACTCCAACA
26431749 TAGGTGGCGG
Statistics
Matches: 312, Mismatches: 58, Indels: 19
0.80 0.15 0.05
Matches are distributed among these distances:
131 94 0.30
132 2 0.01
134 1 0.00
135 1 0.00
137 4 0.01
138 208 0.67
139 2 0.01
ACGTcount: A:0.31, C:0.24, G:0.18, T:0.27
Consensus pattern (136 bp):
TATAAAGGTTTGTCATTTATGATCACAACCTCCAAAAATAGCTAGTGGACCTACGCTCCCAGCTG
ATATTCCAAGAGCTCGCAAAGTTAAGCTCGCAACTCCAACACAGCTAGAGACCTACGCTCCCAGT
TGATGT
Found at i:26431903 original size:17 final size:17
Alignment explanation
Indices: 26431883--26431991 Score: 119
Period size: 17 Copynumber: 6.4 Consensus size: 17
26431873 AAGTCTATTC
*
26431883 AAGTTCAGAATTTGCTT
1 AAGTTCAAAATTTGCTT
* *
26431900 AAGTTCAAAAATCGCTT
1 AAGTTCAAAATTTGCTT
** *
26431917 AAGCCCAAAATTTGTTT
1 AAGTTCAAAATTTGCTT
*
26431934 AAGTTCAAAATGTGCTT
1 AAGTTCAAAATTTGCTT
* *
26431951 AAGTTCAAGATTTGATT
1 AAGTTCAAAATTTGCTT
*
26431968 AAATTCAAAATTTGCTT
1 AAGTTCAAAATTTGCTT
*
26431985 GAGTTCA
1 AAGTTCA
26431992 CAAAAAGATA
Statistics
Matches: 72, Mismatches: 20, Indels: 0
0.78 0.22 0.00
Matches are distributed among these distances:
17 72 1.00
ACGTcount: A:0.36, C:0.13, G:0.15, T:0.37
Consensus pattern (17 bp):
AAGTTCAAAATTTGCTT
Found at i:26441837 original size:20 final size:19
Alignment explanation
Indices: 26441808--26441852 Score: 63
Period size: 20 Copynumber: 2.3 Consensus size: 19
26441798 ATTAGAATGT
*
26441808 AAAAATTAAATTAAAAACA
1 AAAAATTAAAATAAAAACA
*
26441827 AAAACATTAAAATAAAAATA
1 AAAA-ATTAAAATAAAAACA
26441847 AAAAAT
1 AAAAAT
26441853 GGTTAGATTA
Statistics
Matches: 23, Mismatches: 2, Indels: 2
0.85 0.07 0.07
Matches are distributed among these distances:
19 6 0.26
20 17 0.74
ACGTcount: A:0.76, C:0.04, G:0.00, T:0.20
Consensus pattern (19 bp):
AAAAATTAAAATAAAAACA
Found at i:26443498 original size:43 final size:43
Alignment explanation
Indices: 26443434--26443527 Score: 170
Period size: 43 Copynumber: 2.2 Consensus size: 43
26443424 TAGAATATAA
*
26443434 AACATAACTTACCATTTATTTGCATAACATAAAGTAAAAGCAT
1 AACATAACTTACCATTCATTTGCATAACATAAAGTAAAAGCAT
26443477 AACATAACTTACCATTCATTTGCATAACATAAAGTAAAAGCAT
1 AACATAACTTACCATTCATTTGCATAACATAAAGTAAAAGCAT
*
26443520 AATATAAC
1 AACATAAC
26443528 CCAAACCACA
Statistics
Matches: 49, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
43 49 1.00
ACGTcount: A:0.48, C:0.17, G:0.06, T:0.29
Consensus pattern (43 bp):
AACATAACTTACCATTCATTTGCATAACATAAAGTAAAAGCAT
Found at i:26446726 original size:25 final size:26
Alignment explanation
Indices: 26446637--26446777 Score: 98
Period size: 24 Copynumber: 5.7 Consensus size: 26
26446627 TCCCATTATG
26446637 TGGCTCTTCGTGAGCTTCCCGATTAA
1 TGGCTCTTCGTGAGCTTCCCGATTAA
** * * *
26446663 AAGCTTTTTGTGAGCTTCCTG-TTAA
1 TGGCTCTTCGTGAGCTTCCCGATTAA
* **
26446688 TGGC-CCTCCCGAGCTTCCCGATTAA
1 TGGCTCTTCGTGAGCTTCCCGATTAA
* * *
26446713 TGGCTCTTCG-GAGCTACCTG-TTAT
1 TGGCTCTTCGTGAGCTTCCCGATTAA
* *
26446737 TGGCTC-GCATGAGCTTCCCGATT-A
1 TGGCTCTTCGTGAGCTTCCCGATTAA
* *
26446761 TGGTTCTT-ATGAGCTTC
1 TGGCTCTTCGTGAGCTTC
26446778 TTGTTATACA
Statistics
Matches: 85, Mismatches: 25, Indels: 12
0.70 0.20 0.10
Matches are distributed among these distances:
23 1 0.01
24 41 0.48
25 24 0.28
26 19 0.22
ACGTcount: A:0.16, C:0.26, G:0.23, T:0.35
Consensus pattern (26 bp):
TGGCTCTTCGTGAGCTTCCCGATTAA
Found at i:26446751 original size:49 final size:50
Alignment explanation
Indices: 26446647--26446768 Score: 131
Period size: 49 Copynumber: 2.5 Consensus size: 50
26446637 TGGCTCTTCG
** * * * * *
26446647 TGAGCTTCCCGATTAAAAGCTTTTTGTGAGCTTCCTGTTAATGGCCCTCC
1 TGAGCTTCCCGATTAATGGCTCTTCGTGAGCTACCTGTTAATGGCCCGCA
* * *
26446697 CGAGCTTCCCGATTAATGGCTCTTCG-GAGCTACCTGTTATTGGCTCGCA
1 TGAGCTTCCCGATTAATGGCTCTTCGTGAGCTACCTGTTAATGGCCCGCA
*
26446746 TGAGCTTCCCGATT-ATGGTTCTT
1 TGAGCTTCCCGATTAATGGCTCTT
26446769 ATGAGCTTCT
Statistics
Matches: 60, Mismatches: 12, Indels: 2
0.81 0.16 0.03
Matches are distributed among these distances:
48 8 0.13
49 31 0.52
50 21 0.35
ACGTcount: A:0.16, C:0.26, G:0.22, T:0.35
Consensus pattern (50 bp):
TGAGCTTCCCGATTAATGGCTCTTCGTGAGCTACCTGTTAATGGCCCGCA
Found at i:26453547 original size:21 final size:20
Alignment explanation
Indices: 26453505--26453554 Score: 64
Period size: 21 Copynumber: 2.5 Consensus size: 20
26453495 TTACATTATC
* *
26453505 ACTATTCATGATTTGACTTT
1 ACTATTCATGACTTGACCTT
*
26453525 ACTGTTCATGGACTTGACCTT
1 ACTATTCAT-GACTTGACCTT
26453546 ACTATTCAT
1 ACTATTCAT
26453555 AAGACTGACA
Statistics
Matches: 25, Mismatches: 4, Indels: 1
0.83 0.13 0.03
Matches are distributed among these distances:
20 8 0.32
21 17 0.68
ACGTcount: A:0.24, C:0.20, G:0.12, T:0.44
Consensus pattern (20 bp):
ACTATTCATGACTTGACCTT
Found at i:26456770 original size:70 final size:70
Alignment explanation
Indices: 26456664--26457506 Score: 243
Period size: 70 Copynumber: 12.2 Consensus size: 70
26456654 GGGAGCATAG
* * *
26456664 GCTCGTGTTAACTGCTTTGGAGGCTGTGATATTAAACCTGCGAGCCTTGAG-ATTACAGCTGGGA
1 GCTCGTGTTAACTGCTTTGGAGGCTGAGATACTAAACCTGCGAGCCTTAAGAATT-CAGCTGGGA
26456728 GCTTGA
65 GCTTGA
* *
26456734 GCTCGTGTTAACTGCTTTGAAGGCTGCAG-TACTAAACCTGCGAGCCTTAAGAATTCAGGTGGGA
1 GCTCGTGTTAACTGCTTTGGAGGCTG-AGATACTAAACCTGCGAGCCTTAAGAATTCAGCTGGGA
26456798 GCTTGA
65 GCTTGA
* * * * * * * * * * *
26456804 ACTCGCGCTAACTGTTTTGGAGGCTGGGACATTGAACCTACAAGCCTTAA-AATTCAAGCTTGGA
1 GCTCGTGTTAACTGCTTTGGAGGCTGAGATACTAAACCTGCGAGCCTTAAGAATTC-AGCTGGGA
*
26456868 GCTTAA
65 GCTTGA
*** ** * *
26456874 GCTCACATTAACTATTTTGGAGGTTGCG--ACT--A-C-GCGA--CTTAAG-ATTACAGCTGGGA
1 GCTCGTGTTAACTGCTTTGGAGGCTGAGATACTAAACCTGCGAGCCTTAAGAATT-CAGCTGGGA
* *
26456930 TCTTAA
65 GCTTGA
*** * * * * * * * * *
26456936 GCT-GACACTAACAGTTTTAGAGGCTGCGGTATTAAACCTACGAGCCTTAAGATTTCAGCTAGGA
1 GCTCG-TGTTAACTGCTTTGGAGGCTGAGATACTAAACCTGCGAGCCTTAAGAATTCAGCTGGGA
26457000 GCTTGA
65 GCTTGA
* * ** ** * * * * * * **
26457006 ACTCGCGCAAACTATTTTGGAGGCTGCGACATTGAACCTACAAGCCTTAAG-ATTCAAGCTTAGA
1 GCTCGTGTTAACTGCTTTGGAGGCTGAGATACTAAACCTGCGAGCCTTAAGAATTC-AGCTGGGA
26457070 GCTTGA
65 GCTTGA
* * * ** * * * * * * * * * *
26457076 ACTCATGCTAACTATTTTGGAGGTTGCGATATTGAATCTACGAACCTTAAGACTACAGCTGGGAT
1 GCTCGTGTTAACTGCTTTGGAGGCTGAGATACTAAACCTGCGAGCCTTAAGAATTCAGCTGGGAG
*
26457141 CTTAA
66 CTTGA
* ** * * * * * * * * * *
26457146 GCTCATACTAA-TAGTTTTAGAGTCT-ACGATATTGAACCTACGAGCCTTAAGATTTTAGTTGAG
1 GCTCGTGTTAACT-GCTTTGGAGGCTGA-GATACTAAACCTGCGAGCCTTAAGAATTCAGCTGGG
26457209 AGCTTGA
64 AGCTTGA
* * ** * ** * * * * *
26457216 GCTCGAGTTAATTTTTTTTGAGGCTGCTATATTGAACCTGTGAGCCTTAA-TATTACAGTTGGGA
1 GCTCGTGTTAACTGCTTTGGAGGCTGAGATACTAAACCTGCGAGCCTTAAGAATT-CAGCTGGGA
*
26457280 GCTTAA
65 GCTTGA
* * * * * * * * * *
26457286 GCTCGAGCTAACT-ATTGTAGAGGCTGAAATATTGAACTTGCAAGCCTTAAG-ATTCTAGTTGGG
1 GCTCGTGTTAACTGCTT-TGGAGGCTGAGATACTAAACCTGCGAGCCTTAAGAATTC-AGCTGGG
26457349 AGCTTGA
64 AGCTTGA
*** ** * * ** * * * * *
26457356 GCTCGACCTAACTATTTTAGAGGCT-ACAGTTTTGAACCTACGAGCCTTAAGATTTTAGCTTGGA
1 GCTCGTGTTAACTGCTTTGGAGGCTGAGA-TACTAAACCTGCGAGCCTTAAGAATTCAGCTGGGA
26457420 GCTTGA
65 GCTTGA
* * ** ** * ** * * *
26457426 GCTCGCGCTAACTTTTTTGGAGGCT-ACGATACTAAACCTGTAAGCATTACTATTTTAGCTAGGA
1 GCTCGTGTTAACTGCTTTGGAGGCTGA-GATACTAAACCTGCGAGCCTTAAGAATTCAGCTGGGA
26457490 GCTTGA
65 GCTTGA
*
26457496 GCTCGCGTTAA
1 GCTCGTGTTAA
26457507 TTGTTTTTGA
Statistics
Matches: 603, Mismatches: 139, Indels: 62
0.75 0.17 0.08
Matches are distributed among these distances:
62 41 0.07
63 1 0.00
64 4 0.01
65 1 0.00
66 2 0.00
67 1 0.00
68 5 0.01
69 17 0.03
70 516 0.86
71 15 0.02
ACGTcount: A:0.27, C:0.19, G:0.23, T:0.31
Consensus pattern (70 bp):
GCTCGTGTTAACTGCTTTGGAGGCTGAGATACTAAACCTGCGAGCCTTAAGAATTCAGCTGGGAG
CTTGA
Found at i:26457063 original size:202 final size:208
Alignment explanation
Indices: 26456754--26457200 Score: 602
Period size: 202 Copynumber: 2.2 Consensus size: 208
26456744 ACTGCTTTGA
* * * * * * * *
26456754 AGGCTGCAGTACTAAACCTGCGAGCCTTAAGAATTCAGGTGGGAGCTTGAACTCGCGCTAACTGT
1 AGGCTGCGGTATTAAACCTACGAGCCTTAAGATTTCAGCTAGGAGCTTGAACTCGCGCAAACTAT
* * *
26456819 TTTGGAGGCTGGGACATTGAACCTACAAGCCTTAAAATTCAAGCTTGGAGCTT-AAGCTCACATT
66 TTTGGAGGCTGCGACATTGAACCTACAAGCCTTAAAATTCAAGCTTAGAGCTTGAA-CTCACACT
* * *
26456883 AACTATTTTGGAGGTTGCG-ACT-A-C-GCG-A-CTTAAGATTACAGCTGGGATCTTAAGCTGAC
130 AACTATTTTGGAGGTTGCGAACTAATCTACGAACCTTAAGACTACAGCTGGGATCTTAAGCTCAC
26456942 ACTAACAGTTTTAG
195 ACTAACAGTTTTAG
26456956 AGGCTGCGGTATTAAACCTACGAGCCTTAAGATTTCAGCTAGGAGCTTGAACTCGCGCAAACTAT
1 AGGCTGCGGTATTAAACCTACGAGCCTTAAGATTTCAGCTAGGAGCTTGAACTCGCGCAAACTAT
* **
26457021 TTTGGAGGCTGCGACATTGAACCTACAAGCCTTAAGATTCAAGCTTAGAGCTTGAACTCATGCTA
66 TTTGGAGGCTGCGACATTGAACCTACAAGCCTTAAAATTCAAGCTTAGAGCTTGAACTCACACTA
*
26457086 ACTATTTTGGAGGTTGCGATATTGAATCTACGAACCTTAAGACTACAGCTGGGATCTTAAGCTCA
131 ACTATTTTGGAGGTTGCGA-ACT-AATCTACGAACCTTAAGACTACAGCTGGGATCTTAAGCTCA
* *
26457151 TACTAATAGTTTTAG
194 CACTAACAGTTTTAG
* * * *
26457166 AGTCTACGATATTGAACCTACGAGCCTTAAGATTT
1 AGGCTGCGGTATTAAACCTACGAGCCTTAAGATTT
26457201 TAGTTGAGAG
Statistics
Matches: 212, Mismatches: 24, Indels: 10
0.86 0.10 0.04
Matches are distributed among these distances:
202 131 0.62
203 2 0.01
204 2 0.01
206 1 0.00
207 1 0.00
208 2 0.01
209 1 0.00
210 72 0.34
ACGTcount: A:0.29, C:0.20, G:0.22, T:0.28
Consensus pattern (208 bp):
AGGCTGCGGTATTAAACCTACGAGCCTTAAGATTTCAGCTAGGAGCTTGAACTCGCGCAAACTAT
TTTGGAGGCTGCGACATTGAACCTACAAGCCTTAAAATTCAAGCTTAGAGCTTGAACTCACACTA
ACTATTTTGGAGGTTGCGAACTAATCTACGAACCTTAAGACTACAGCTGGGATCTTAAGCTCACA
CTAACAGTTTTAG
Found at i:26457126 original size:140 final size:140
Alignment explanation
Indices: 26456683--26457583 Score: 557
Period size: 140 Copynumber: 6.5 Consensus size: 140
26456673 AACTGCTTTG
* * * * * * * *
26456683 GAGGCTGTGATATTAAACCTGCGAGCCTTGAGATTACAGCTGGGAGCTTGAGCTCGTGTTAACTG
1 GAGGCTGCGATATTGAACCTACGAGCCTTAAGATTACAGCTGGGAGCTTAAGCTCGCGCTAACTA
* * * * * * * * *
26456748 CTTT-GAAGGCTGC-AGTACTAAACCTGCGAGCCTTAAGAATTC-AGGTGGGAGCTTGAACTCGC
66 TTTTAG-AGGCTGCGA-TATTGAACCTACAAGCCTTAAG-ATTCTAGTTGAGAGCTTGAGCTCGA
* *
26456810 GCTAACTGTTTTG
128 GCTAACTATTTTA
* * * * * * **
26456823 GAGGCTGGGACATTGAACCTACAAGCCTTAAAATT-CAAGCTTGGAGCTTAAGCTCACATTAACT
1 GAGGCTGCGATATTGAACCTACGAGCCTTAAGATTAC-AGCTGGGAGCTTAAGCTCGCGCTAACT
* * ** * * * * *
26456887 ATTTTGGAGGTTGC------G-A-CTACGCGACTTAAGATTAC-AGCTGGGATCTTAAGCT-GAC
65 ATTTTAGAGGCTGCGATATTGAACCTACAAGCCTTAAGATT-CTAGTTGAGAGCTTGAGCTCGA-
*
26456942 ACTAAC-AGTTTTA
128 GCTAACTA-TTTTA
* * * * *
26456955 GAGGCTGCGGTATTAAACCTACGAGCCTTAAGATTTCAGCTAGGAGCTTGAA-CTCGCGCAAACT
1 GAGGCTGCGATATTGAACCTACGAGCCTTAAGATTACAGCTGGGAGCTT-AAGCTCGCGCTAACT
* * * *
26457019 ATTTTGGAGGCTGCGACATTGAACCTACAAGCCTTAAGATTCAAGCTT-AGAGCTTGAACTC-AT
65 ATTTTAGAGGCTGCGATATTGAACCTACAAGCCTTAAGATTCTAG-TTGAGAGCTTGAGCTCGA-
*
26457082 GCTAACTATTTTG
128 GCTAACTATTTTA
* * * * * ***
26457095 GAGGTTGCGATATTGAATCTACGAACCTTAAGACTACAGCTGGGATCTTAAGCTCATACTAA-TA
1 GAGGCTGCGATATTGAACCTACGAGCCTTAAGATTACAGCTGGGAGCTTAAGCTCGCGCTAACTA
* * * * *
26457159 GTTTTAGAGTCTACGATATTGAACCTACGAGCCTTAAGATTTTAGTTGAGAGCTTGAGCTCGAGT
66 -TTTTAGAGGCTGCGATATTGAACCTACAAGCCTTAAGATTCTAGTTGAGAGCTTGAGCTCGAGC
* * *
26457224 TAATTTTTTTT
130 TAACTATTTTA
* ** * * *
26457235 GAGGCTGCTATATTGAACCTGTGAGCCTTAATATTACAGTTGGGAGCTTAAGCTCGAGCTAACTA
1 GAGGCTGCGATATTGAACCTACGAGCCTTAAGATTACAGCTGGGAGCTTAAGCTCGCGCTAACTA
* ** * * * *
26457300 TTGTAGAGGCTGAAATATTGAACTTGCAAGCCTTAAGATTCTAGTTGGGAGCTTGAGCTCGACCT
66 TTTTAGAGGCTGCGATATTGAACCTACAAGCCTTAAGATTCTAGTTGAGAGCTTGAGCTCGAGCT
26457365 AACTATTTTA
131 AACTATTTTA
* * ** * *
26457375 GAGGCTAC-AGTTTTGAACCTACGAGCCTTAAGATTTTAGCTTGGAGCTTGAGCTCGCGCTAACT
1 GAGGCTGCGA-TATTGAACCTACGAGCCTTAAGATTACAGCTGGGAGCTTAAGCTCGCGCTAACT
* * * * * ** * ** * * *
26457439 TTTTTGGAGGCTACGATACTAAACCTGTAAGCATTACTATTTTAGCT-AGGAGCTTGAGCTCGCG
65 ATTTTAGAGGCTGCGATATTGAACCTACAAGCCTTAAGATTCTAGTTGA-GAGCTTGAGCTCGAG
* * * *
26457503 TTAATTGTTTTT
129 CTAACTATTTTA
* * * * * * * * * *
26457515 GAGGATGCTATATTGAACCTACAAGCCTTAATATTACAGCTGAGACCTTGAGCTCACACTAACTT
1 GAGGCTGCGATATTGAACCTACGAGCCTTAAGATTACAGCTGGGAGCTTAAGCTCGCGCTAACTA
26457580 TTTT
66 TTTT
26457584 GGGAGGGATC
Statistics
Matches: 586, Mismatches: 148, Indels: 54
0.74 0.19 0.07
Matches are distributed among these distances:
131 4 0.01
132 95 0.16
133 4 0.01
138 1 0.00
139 10 0.02
140 465 0.79
141 7 0.01
ACGTcount: A:0.27, C:0.19, G:0.23, T:0.31
Consensus pattern (140 bp):
GAGGCTGCGATATTGAACCTACGAGCCTTAAGATTACAGCTGGGAGCTTAAGCTCGCGCTAACTA
TTTTAGAGGCTGCGATATTGAACCTACAAGCCTTAAGATTCTAGTTGAGAGCTTGAGCTCGAGCT
AACTATTTTA
Found at i:26457215 original size:210 final size:205
Alignment explanation
Indices: 26456768--26457450 Score: 674
Period size: 210 Copynumber: 3.3 Consensus size: 205
26456758 TGCAGTACTA
* * * * * *
26456768 AACCTGCGAGCCTTAAGAATTCAGGTGGGAGCTTGAACTCGCGCTAACTGTTTTGGAGGCTGGGA
1 AACCTACGAGCCTTAAGATTTCAGTTGAGAGCTTGAACTCGCGCTAACTTTTTTGGAGGCTGCGA
26456833 CATTGAACCTACAAGCCTTAAAATTCAAGCTTGGAGCTTAAGCTCA-CATTAACTATTTTGGAGG
66 CATTGAACCTACAAGCCTTAAAATTCAAGCTTGGAGCTTAAGCTCAGC--TAACTATTTTGGAGG
* * * *
26456897 TTGCG--ACT--ACGCG-A-CTTAAGATTACAGCTGGGATCTTAAGCTGACACTAACAGTTTTAG
129 TTGCGATATTGAACTCGAACCTTAAGA-TACAGCTGGGATCTTAAGCTCA-ACTAATAGTTTTAG
* * *
26456956 AGGCTGCGGTATTA
192 AGGCTACGATATTG
* * *
26456970 AACCTACGAGCCTTAAGATTTCAGCT-AGGAGCTTGAACTCGCGCAAACTATTTTGGAGGCTGCG
1 AACCTACGAGCCTTAAGATTTCAGTTGA-GAGCTTGAACTCGCGCTAACTTTTTTGGAGGCTGCG
* *
26457034 ACATTGAACCTACAAGCCTTAAGATTCAAGCTTAGAGCTTGAA-CTCATGCTAACTATTTTGGAG
65 ACATTGAACCTACAAGCCTTAAAATTCAAGCTTGGAGCTT-AAGCTCA-GCTAACTATTTTGGAG
26457098 GTTGCGATATTGAATCTACGAACCTTAAGACTACAGCTGGGATCTTAAGCTCATACTAATAGTTT
128 GTTGCGATATTGAA-CT-CGAACCTTAAGA-TACAGCTGGGATCTTAAGCTCA-ACTAATAGTTT
*
26457163 TAGAGTCTACGATATTG
189 TAGAGGCTACGATATTG
* * * * * * *
26457180 AACCTACGAGCCTTAAGATTTTAGTTGAGAGCTTGAGCTCGAGTTAATTTTTTTTGAGGCTGCTA
1 AACCTACGAGCCTTAAGATTTCAGTTGAGAGCTTGAACTCGCGCTAACTTTTTTGGAGGCTGCGA
* *** * * *
26457245 TATTGAACCTGTGAGCCTTAATATT-ACAG-TTGGGAGCTTAAGCTCGAGCTAACTATTGTAGAG
66 CATTGAACCTACAAGCCTTAAAATTCA-AGCTT-GGAGCTTAAGCTC-AGCTAACTATTTTGGAG
* ** * * * * * *
26457308 GCTGAAATATTGAACTTGCAAGCCTTAAGATTCTAGTTGGGAGCTTGAGCTCGACCTAACTA-TT
128 GTTGCGATATTGAACTCG-AA-CCTTAAGATAC-AGCTGGGATCTTAAGCTC-AACTAA-TAGTT
*
26457372 TTAGAGGCTAC-AGTTTTG
188 TTAGAGGCTACGA-TATTG
* *
26457390 AACCTACGAGCCTTAAGATTTTAGCTTG-GAGCTTGAGCTCGCGCTAACTTTTTTGGAGGCT
1 AACCTACGAGCCTTAAGATTTCAG-TTGAGAGCTTGAACTCGCGCTAACTTTTTTGGAGGCT
26457451 ACGATACTAA
Statistics
Matches: 405, Mismatches: 52, Indels: 40
0.81 0.10 0.08
Matches are distributed among these distances:
202 118 0.29
203 2 0.00
204 3 0.01
206 1 0.00
207 1 0.00
208 3 0.01
209 13 0.03
210 256 0.63
211 8 0.02
ACGTcount: A:0.28, C:0.19, G:0.23, T:0.31
Consensus pattern (205 bp):
AACCTACGAGCCTTAAGATTTCAGTTGAGAGCTTGAACTCGCGCTAACTTTTTTGGAGGCTGCGA
CATTGAACCTACAAGCCTTAAAATTCAAGCTTGGAGCTTAAGCTCAGCTAACTATTTTGGAGGTT
GCGATATTGAACTCGAACCTTAAGATACAGCTGGGATCTTAAGCTCAACTAATAGTTTTAGAGGC
TACGATATTG
Found at i:26457530 original size:210 final size:209
Alignment explanation
Indices: 26456768--26457578 Score: 647
Period size: 210 Copynumber: 3.9 Consensus size: 209
26456758 TGCAGTACTA
* * * * * * * *
26456768 AACCTGCGAGCCTTAAGAATTCAGGTGGGAGCTTGAACTCGCGCTAACTGTTTTGGAGGCTGGGA
1 AACCTACGAGCCTTAAGATTTTAGCTTGGAGCTTGAGCTCGCGCTAACTTTTTTGGAGGCTGCGA
* ** * * * * *
26456833 CATTGAACCTACAAGCCTTAAAATTCAAGCTTGGAGCTTAAGCTC-A-CATTAACTATTTTGGAG
66 TATTGAACCTGTAAGCCTTAATATTAAAGCTAGGAGCTTGAGCTCGAGC--TAACTATTTTAGAG
* ** *
26456896 GTTGC------G-AC-TACGCGACTTAAGATTACAGCTGGGATCTTAAGCT-GACACTAAC-AGT
129 GATGCAATATTGAACTTACAAGCCTTAAGATT-CAGCTGGGATCTTAAGCTCGAC-CTAACTAGT
* *
26456951 TTTAGAGGCTGCGGTATTA
192 TTTAGAGGCTAC-GTATTG
* * * * *
26456970 AACCTACGAGCCTTAAGATTTCAGCTAGGAGCTTGAACTCGCGCAAACTATTTTGGAGGCTGCGA
1 AACCTACGAGCCTTAAGATTTTAGCTTGGAGCTTGAGCTCGCGCTAACTTTTTTGGAGGCTGCGA
* ** * * * *
26457035 CATTGAACCTACAAGCCTTAAGATTCAAGCTTA-GAGCTTGAACTC-ATGCTAACTATTTTGGAG
66 TATTGAACCTGTAAGCCTTAATATTAAAGC-TAGGAGCTTGAGCTCGA-GCTAACTATTTTAGAG
* * * *
26457098 GTTGCGATATTGAA-TCTACGAA-CCTTAAGACTACAGCTGGGATCTTAAGCTC-ATACTAA-TA
129 GATGCAATATTGAACT-TAC-AAGCCTTAAGA-TTCAGCTGGGATCTTAAGCTCGA-CCTAACTA
*
26457159 GTTTTAGAGTCTACGATATTG
190 GTTTTAGAGGCTACG-TATTG
* * * * *
26457180 AACCTACGAGCCTTAAGATTTTAG-TTGAGAGCTTGAGCTCGAGTTAATTTTTTTTGAGGCTGCT
1 AACCTACGAGCCTTAAGATTTTAGCTTG-GAGCTTGAGCTCGCGCTAACTTTTTTGGAGGCTGCG
* * * * * *
26457244 ATATTGAACCTGTGAGCCTTAATATTACAGTTGGGAGCTTAAGCTCGAGCTAACTATTGTAGAGG
65 ATATTGAACCTGTAAGCCTTAATATTAAAGCTAGGAGCTTGAGCTCGAGCTAACTATTTTAGAGG
* * * * * *
26457309 CTGAAATATTGAACTTGCAAGCCTTAAGATTCTAGTTGGGAGCTTGAGCTCGACCTAACTA-TTT
130 ATGCAATATTGAACTTACAAGCCTTAAGATTC-AGCTGGGATCTTAAGCTCGACCTAACTAGTTT
*
26457373 TAGAGGCTACAGTTTTG
194 TAGAGGCTAC-GTATTG
*
26457390 AACCTACGAGCCTTAAGATTTTAGCTTGGAGCTTGAGCTCGCGCTAACTTTTTTGGAGGCTACGA
1 AACCTACGAGCCTTAAGATTTTAGCTTGGAGCTTGAGCTCGCGCTAACTTTTTTGGAGGCTGCGA
* * * * ** * * * * *
26457455 TACTAAACCTGTAAGCATTACTATTTTAGCTAGGAGCTTGAGCTCGCGTTAATTGTTTTTGAGGA
66 TATTGAACCTGTAAGCCTTAATATTAAAGCTAGGAGCTTGAGCTCGAGCTAACTATTTTAGAGGA
* * * * * *
26457520 TGCTATATTGAACCTACAAGCCTTAATATTACAGCTGAGACCTTGAGCTC-ACACTAACT
131 TGCAATATTGAACTTACAAGCCTTAAGATT-CAGCTGGGATCTTAAGCTCGAC-CTAACT
26457579 TTTTTGGGAG
Statistics
Matches: 495, Mismatches: 84, Indels: 52
0.78 0.13 0.08
Matches are distributed among these distances:
202 117 0.24
203 1 0.00
204 1 0.00
208 1 0.00
209 11 0.02
210 353 0.71
211 11 0.02
ACGTcount: A:0.28, C:0.19, G:0.22, T:0.31
Consensus pattern (209 bp):
AACCTACGAGCCTTAAGATTTTAGCTTGGAGCTTGAGCTCGCGCTAACTTTTTTGGAGGCTGCGA
TATTGAACCTGTAAGCCTTAATATTAAAGCTAGGAGCTTGAGCTCGAGCTAACTATTTTAGAGGA
TGCAATATTGAACTTACAAGCCTTAAGATTCAGCTGGGATCTTAAGCTCGACCTAACTAGTTTTA
GAGGCTACGTATTG
Found at i:26457565 original size:70 final size:70
Alignment explanation
Indices: 26456950--26457569 Score: 387
Period size: 70 Copynumber: 8.9 Consensus size: 70
26456940 ACACTAACAG
** * * *
26456950 TTTTAGAGGCTGCGGTATTAAACCTACGAGCCTTAAGATTTCAGCT-AGGAGCTTGAACTCGCGC
1 TTTTAGAGGCTGCTATATTGAACCTACAAGCCTTAAGATTTCAGCTGA-GAGCTTGAGCTCGCGC
* *
26457014 AAACTA
65 TAATTA
* * * * * **
26457020 TTTTGGAGGCTGCGACATTGAACCTACAAGCCTTAAGA-TTCAAGCTTAGAGCTTGAACTCATGC
1 TTTTAGAGGCTGCTATATTGAACCTACAAGCCTTAAGATTTC-AGCTGAGAGCTTGAGCTCGCGC
*
26457084 TAACTA
65 TAATTA
* * * * * * * * * ***
26457090 TTTTGGAGGTTGCGATATTGAATCTACGAA-CCTTAAGACTACAGCTGGGATCTTAAGCTCATAC
1 TTTTAGAGGCTGCTATATTGAACCTAC-AAGCCTTAAGATTTCAGCTGAGAGCTTGAGCTCGCGC
26457154 TAA-TA
65 TAATTA
* * * * * * * *
26457159 GTTTTAGAGTCTACGATATTGAACCTACGAGCCTTAAGATTTTAGTTGAGAGCTTGAGCTCGAGT
1 -TTTTAGAGGCTGCTATATTGAACCTACAAGCCTTAAGATTTCAGCTGAGAGCTTGAGCTCGCGC
*
26457224 TAATTT
65 TAATTA
* *** * * * * * *
26457230 TTTTTGAGGCTGCTATATTGAACCTGTGAGCCTTAATATTACAGTTGGGAGCTTAAGCTCGAGCT
1 TTTTAGAGGCTGCTATATTGAACCTACAAGCCTTAAGATTTCAGCTGAGAGCTTGAGCTCGCGCT
*
26457295 AACTA
66 AATTA
* ** * * * *
26457300 TTGTAGAGGCTGAAATATTGAACTTGCAAGCCTTAAGA-TTCTAGTTGGGAGCTTGAGCTCGAC-
1 TTTTAGAGGCTGCTATATTGAACCTACAAGCCTTAAGATTTC-AGCTGAGAGCTTGAGCTCG-CG
*
26457363 CTAACTA
64 CTAATTA
* * * *
26457370 TTTTAGAGGCTAC-AGTTTTGAACCTACGAGCCTTAAGATTTTAGCTTG-GAGCTTGAGCTCGCG
1 TTTTAGAGGCTGCTA-TATTGAACCTACAAGCCTTAAGATTTCAGC-TGAGAGCTTGAGCTCGCG
26457433 CTAACTT-
64 CTAA-TTA
* * * * * ** * ** * *
26457440 TTTTGGAGGCTACGATACTAAACCTGTAAGCATTACTATTTTAGCT-AGGAGCTTGAGCTCGCGT
1 TTTTAGAGGCTGCTATATTGAACCTACAAGCCTTAAGATTTCAGCTGA-GAGCTTGAGCTCGCGC
*
26457504 TAATTG
65 TAATTA
* * * * *
26457510 TTTTTGAGGATGCTATATTGAACCTACAAGCCTTAATATTACAGCTGAGACCTTGAGCTC
1 TTTTAGAGGCTGCTATATTGAACCTACAAGCCTTAAGATTTCAGCTGAGAGCTTGAGCTC
26457570 ACACTAACTT
Statistics
Matches: 436, Mismatches: 95, Indels: 38
0.77 0.17 0.07
Matches are distributed among these distances:
69 13 0.03
70 410 0.94
71 13 0.03
ACGTcount: A:0.27, C:0.18, G:0.22, T:0.32
Consensus pattern (70 bp):
TTTTAGAGGCTGCTATATTGAACCTACAAGCCTTAAGATTTCAGCTGAGAGCTTGAGCTCGCGCT
AATTA
Found at i:26460429 original size:20 final size:20
Alignment explanation
Indices: 26460392--26460429 Score: 51
Period size: 20 Copynumber: 1.9 Consensus size: 20
26460382 ACAGCAGCAG
*
26460392 AAAATAGAATAAACAATAGA
1 AAAATAGAATAAAAAATAGA
26460412 AAAATAGTAA-AAAAAATA
1 AAAATAG-AATAAAAAATA
26460430 AGAATGTAAT
Statistics
Matches: 16, Mismatches: 1, Indels: 2
0.84 0.05 0.11
Matches are distributed among these distances:
20 14 0.88
21 2 0.12
ACGTcount: A:0.74, C:0.03, G:0.08, T:0.16
Consensus pattern (20 bp):
AAAATAGAATAAAAAATAGA
Found at i:26475143 original size:33 final size:33
Alignment explanation
Indices: 26475102--26475172 Score: 115
Period size: 33 Copynumber: 2.2 Consensus size: 33
26475092 AGTTGTATTT
26475102 TTAATTAATTACGCCTTTAGACCGATTTTAAAA
1 TTAATTAATTACGCCTTTAGACCGATTTTAAAA
* * *
26475135 TTAATTAATTAGGCCTTTAGGCCGGTTTTAAAA
1 TTAATTAATTACGCCTTTAGACCGATTTTAAAA
26475168 TTAAT
1 TTAAT
26475173 CACAGAAATA
Statistics
Matches: 35, Mismatches: 3, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
33 35 1.00
ACGTcount: A:0.34, C:0.13, G:0.13, T:0.41
Consensus pattern (33 bp):
TTAATTAATTACGCCTTTAGACCGATTTTAAAA
Found at i:26484881 original size:45 final size:45
Alignment explanation
Indices: 26484813--26484899 Score: 129
Period size: 45 Copynumber: 1.9 Consensus size: 45
26484803 TCTTGATTGA
* * * *
26484813 GAAAAGAAAAAGACCATGATTGAAATATATCATGGTATTATACTT
1 GAAAAAAAAAAGACCATGATTGAAAGATACCATGGCATTATACTT
*
26484858 GAAAAAAAAAAGACCATGGTTGAAAGATACCATGGCATTATA
1 GAAAAAAAAAAGACCATGATTGAAAGATACCATGGCATTATA
26484900 TTTGGTATTT
Statistics
Matches: 37, Mismatches: 5, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
45 37 1.00
ACGTcount: A:0.48, C:0.10, G:0.17, T:0.24
Consensus pattern (45 bp):
GAAAAAAAAAAGACCATGATTGAAAGATACCATGGCATTATACTT
Found at i:26486083 original size:23 final size:23
Alignment explanation
Indices: 26486057--26486109 Score: 61
Period size: 23 Copynumber: 2.3 Consensus size: 23
26486047 TTACGCTTAA
26486057 TGAGTGAACTTGAAATGTTGAAT
1 TGAGTGAACTTGAAATGTTGAAT
* * **
26486080 TGAGTCAAGTTGATGTGTTGAAT
1 TGAGTGAACTTGAAATGTTGAAT
26486103 TGTAGTG
1 TG-AGTG
26486110 TCAATTGATG
Statistics
Matches: 24, Mismatches: 5, Indels: 1
0.80 0.17 0.03
Matches are distributed among these distances:
23 21 0.88
24 3 0.12
ACGTcount: A:0.28, C:0.04, G:0.30, T:0.38
Consensus pattern (23 bp):
TGAGTGAACTTGAAATGTTGAAT
Found at i:26487259 original size:28 final size:28
Alignment explanation
Indices: 26487166--26487261 Score: 77
Period size: 28 Copynumber: 3.4 Consensus size: 28
26487156 GTAACTTAGC
* *
26487166 CTTGACAGATTTCCACT-TATAATATAGT
1 CTTGACAGACTTCCA-TATATAAGATAGT
* * * *
26487194 TTTGACATACTTTCACATATAAGATAGT
1 CTTGACAGACTTCCATATATAAGATAGT
** **
26487222 CCCGATGGACTTCCATATATAAGATAGT
1 CTTGACAGACTTCCATATATAAGATAGT
*
26487250 CTTGACGGACTT
1 CTTGACAGACTT
26487262 TTACATCTTT
Statistics
Matches: 50, Mismatches: 17, Indels: 2
0.72 0.25 0.03
Matches are distributed among these distances:
28 50 1.00
ACGTcount: A:0.31, C:0.19, G:0.15, T:0.35
Consensus pattern (28 bp):
CTTGACAGACTTCCATATATAAGATAGT
Found at i:26488837 original size:2 final size:2
Alignment explanation
Indices: 26488830--26489042 Score: 426
Period size: 2 Copynumber: 106.5 Consensus size: 2
26488820 TTGTTGTATA
26488830 TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG
1 TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG
26488872 TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG
1 TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG
26488914 TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG
1 TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG
26488956 TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG
1 TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG
26488998 TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG
1 TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG
26489040 TG T
1 TG T
26489043 TTCCTGAAGC
Statistics
Matches: 211, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 211 1.00
ACGTcount: A:0.00, C:0.00, G:0.50, T:0.50
Consensus pattern (2 bp):
TG
Found at i:26489629 original size:25 final size:26
Alignment explanation
Indices: 26489601--26489658 Score: 73
Period size: 26 Copynumber: 2.3 Consensus size: 26
26489591 AAAATCCTAT
*
26489601 GTGGCGTA-TTACTTAGGAAGCCTTA
1 GTGGCGAAGTTACTTAGGAAGCCTTA
* * *
26489626 GTGGCGAAGTTATTTGGGAAGCCTTT
1 GTGGCGAAGTTACTTAGGAAGCCTTA
26489652 GTGGCGA
1 GTGGCGA
26489659 TTTATCTAAA
Statistics
Matches: 28, Mismatches: 4, Indels: 1
0.85 0.12 0.03
Matches are distributed among these distances:
25 7 0.25
26 21 0.75
ACGTcount: A:0.21, C:0.14, G:0.34, T:0.31
Consensus pattern (26 bp):
GTGGCGAAGTTACTTAGGAAGCCTTA
Found at i:26495376 original size:17 final size:17
Alignment explanation
Indices: 26495354--26495386 Score: 57
Period size: 17 Copynumber: 1.9 Consensus size: 17
26495344 AATTAATATA
26495354 ATTATTAATTTGTTAAT
1 ATTATTAATTTGTTAAT
*
26495371 ATTATTAATTTTTTAA
1 ATTATTAATTTGTTAA
26495387 ATTTTATATG
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
17 15 1.00
ACGTcount: A:0.36, C:0.00, G:0.03, T:0.61
Consensus pattern (17 bp):
ATTATTAATTTGTTAAT
Found at i:26497549 original size:72 final size:75
Alignment explanation
Indices: 26497465--26497646 Score: 219
Period size: 75 Copynumber: 2.5 Consensus size: 75
26497455 TTGTTTATTT
* * *
26497465 TTTTTACATCAATATTATACTTATTTACAATTTACGAAGAAAAT-GAAA-AA-AAACTAT-TTGT
1 TTTTTACATCAATAATATACTTATTTAAAATTTAC-AAAAAAATGGAAACAATAAACTATATTGT
*
26497526 ATTGCATTGTA
65 ATTACATTGTA
****
26497537 TTTTTACATCAATAATATACTTATTTAAAATTTACAAAAAAATGGAAACAATTTTTTATATTGTA
1 TTTTTACATCAATAATATACTTATTTAAAATTTACAAAAAAATGGAAACAATAAACTATATTGTA
*
26497602 TTATATTGTA
66 TTACATTGTA
* * *
26497612 TTTTTACATAAATAATATACCTATTTAGAATTTAC
1 TTTTTACATCAATAATATACTTATTTAAAATTTAC
26497647 CCAAAAGTGG
Statistics
Matches: 94, Mismatches: 12, Indels: 5
0.85 0.11 0.05
Matches are distributed among these distances:
71 7 0.07
72 37 0.39
73 2 0.02
74 3 0.03
75 45 0.48
ACGTcount: A:0.42, C:0.09, G:0.06, T:0.43
Consensus pattern (75 bp):
TTTTTACATCAATAATATACTTATTTAAAATTTACAAAAAAATGGAAACAATAAACTATATTGTA
TTACATTGTA
Found at i:26499180 original size:85 final size:85
Alignment explanation
Indices: 26499026--26499195 Score: 205
Period size: 85 Copynumber: 2.0 Consensus size: 85
26499016 TAGATCACAC
* * * *
26499026 TTTCACCATAGGTAAGATAATGTCAGAGATCATGCCAGAATCCAATTTCGAATGATCTTATAACA
1 TTTCACCATACGTAAGACAATGTCAGAGATCAAGCCAGAATCCAATTTAGAATGATCTTATAACA
*
26499091 TACCTGCAACAACACAAGTA
66 TACCTACAACAACACAAGTA
* ** * * * * **
26499111 TTTCACCATACGTAAGACAATGTCAGAGGTCAAGTTAGAATCCAATTTAGGATGCTCTTGTGATG
1 TTTCACCATACGTAAGACAATGTCAGAGATCAAGCCAGAATCCAATTTAGAATGATCTTATAACA
*
26499176 TACCTACAATAACACAAGTA
66 TACCTACAACAACACAAGTA
26499196 CAAGAAGCAT
Statistics
Matches: 70, Mismatches: 15, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
85 70 1.00
ACGTcount: A:0.37, C:0.20, G:0.16, T:0.27
Consensus pattern (85 bp):
TTTCACCATACGTAAGACAATGTCAGAGATCAAGCCAGAATCCAATTTAGAATGATCTTATAACA
TACCTACAACAACACAAGTA
Found at i:26503049 original size:23 final size:22
Alignment explanation
Indices: 26503018--26503066 Score: 62
Period size: 23 Copynumber: 2.2 Consensus size: 22
26503008 TTTCTTGCAT
26503018 GTTTATTTTTCATTTTTAGTTTA
1 GTTTATTTTTCATTTTTA-TTTA
* * *
26503041 GTTTGTTTTTTATTTTTATTTG
1 GTTTATTTTTCATTTTTATTTA
26503063 GTTT
1 GTTT
26503067 TTATTTAGTT
Statistics
Matches: 23, Mismatches: 3, Indels: 1
0.85 0.11 0.04
Matches are distributed among these distances:
22 7 0.30
23 16 0.70
ACGTcount: A:0.12, C:0.02, G:0.12, T:0.73
Consensus pattern (22 bp):
GTTTATTTTTCATTTTTATTTA
Found at i:26503052 original size:17 final size:16
Alignment explanation
Indices: 26503030--26503078 Score: 55
Period size: 17 Copynumber: 2.9 Consensus size: 16
26503020 TTATTTTTCA
*
26503030 TTTTTAGTTTAGTTTGT
1 TTTTTA-TTTAGTTTGG
26503047 TTTTTATTTTTA-TTTGG
1 TTTTTA--TTTAGTTTGG
26503064 TTTTTATTTAGTTTG
1 TTTTTATTTAGTTTG
26503079 CTCGAGGATA
Statistics
Matches: 28, Mismatches: 2, Indels: 5
0.80 0.06 0.14
Matches are distributed among these distances:
15 4 0.14
16 4 0.14
17 16 0.57
18 4 0.14
ACGTcount: A:0.12, C:0.00, G:0.14, T:0.73
Consensus pattern (16 bp):
TTTTTATTTAGTTTGG
Found at i:26503069 original size:11 final size:11
Alignment explanation
Indices: 26503030--26503077 Score: 53
Period size: 11 Copynumber: 4.3 Consensus size: 11
26503020 TTATTTTTCA
26503030 TTTTTAGTTTAG
1 TTTTTA-TTTAG
*
26503042 TTTGTTTTTTA-
1 TTT-TTATTTAG
*
26503053 TTTTTATTTGG
1 TTTTTATTTAG
26503064 TTTTTATTTAG
1 TTTTTATTTAG
26503075 TTT
1 TTT
26503078 GCTCGAGGAT
Statistics
Matches: 30, Mismatches: 4, Indels: 5
0.77 0.10 0.13
Matches are distributed among these distances:
10 5 0.17
11 16 0.53
12 7 0.23
13 2 0.07
ACGTcount: A:0.12, C:0.00, G:0.12, T:0.75
Consensus pattern (11 bp):
TTTTTATTTAG
Found at i:26508237 original size:40 final size:40
Alignment explanation
Indices: 26508191--26508389 Score: 247
Period size: 40 Copynumber: 5.0 Consensus size: 40
26508181 ACTATTGTAT
** * *
26508191 GAATGCACATTTGTGCCCCTATTTTTACTTCGGTACCCCA
1 GAATGCACATACGTGCCCCTGTTTGTACTTCGGTACCCCA
*
26508231 GAATGCACATACGTGCCCCTGTTTGTACTTCGGTACCCCT
1 GAATGCACATACGTGCCCCTGTTTGTACTTCGGTACCCCA
* * * *
26508271 GAATGCAAATACGTTCCCCTGTTTGTACTTTGGTACCCCT
1 GAATGCACATACGTGCCCCTGTTTGTACTTCGGTACCCCA
* ** * * *
26508311 GAATGCACATACATGTTCCTTTTTGTACTTCAGTACCCTTA
1 GAATGCACATACGTGCCCCTGTTTGTACTTCGGTACCC-CA
26508352 -AATGCACATACGTGCCCCTGTTTGTACTTCGGTACCCC
1 GAATGCACATACGTGCCCCTGTTTGTACTTCGGTACCCC
26508390 TGAACACTTA
Statistics
Matches: 134, Mismatches: 24, Indels: 3
0.83 0.15 0.02
Matches are distributed among these distances:
40 134 1.00
ACGTcount: A:0.20, C:0.30, G:0.17, T:0.34
Consensus pattern (40 bp):
GAATGCACATACGTGCCCCTGTTTGTACTTCGGTACCCCA
Found at i:26508271 original size:20 final size:20
Alignment explanation
Indices: 26508246--26508311 Score: 53
Period size: 20 Copynumber: 3.3 Consensus size: 20
26508236 CACATACGTG
26508246 CCCCTGTTTGTACTTCGGTA
1 CCCCTGTTTGTACTTCGGTA
** * * * *
26508266 CCCCTGAATGCAAATAC-GTT
1 CCCCTGTTTG-TACTTCGGTA
*
26508286 CCCCTGTTTGTACTTTGGTA
1 CCCCTGTTTGTACTTCGGTA
26508306 CCCCTG
1 CCCCTG
26508312 AATGCACATA
Statistics
Matches: 31, Mismatches: 13, Indels: 4
0.65 0.27 0.08
Matches are distributed among these distances:
19 2 0.06
20 26 0.84
21 3 0.10
ACGTcount: A:0.15, C:0.32, G:0.18, T:0.35
Consensus pattern (20 bp):
CCCCTGTTTGTACTTCGGTA
Found at i:26508429 original size:80 final size:79
Alignment explanation
Indices: 26508192--26508429 Score: 248
Period size: 80 Copynumber: 3.0 Consensus size: 79
26508182 CTATTGTATG
** * * * * * *
26508192 AATGCACATTTGTGCCCCTATTTTTACTTCGGTACCCCAGAATGCACATACGTGCCCCTGTTTGT
1 AATGCACATACGTGCCCCTGTTTGTACTTCGGTACCCCTGAA-GCACATACATGTCCTTGTTTGT
* *
26508257 ACTTCGGTACCCCTG
65 ACTTCGGTACCCTTA
* * *
26508272 AATGCAAATACGTTCCCCTGTTTGTACTTTGGTACCCCTGAATGCACATACATGTTCCTT-TTTG
1 AATGCACATACGTGCCCCTGTTTGTACTTCGGTACCCCTGAA-GCACATACATG-TCCTTGTTTG
*
26508336 TACTTCAGTACCCTTA
64 TACTTCGGTACCCTTA
* *
26508352 AATGCACATACGTGCCCCTGTTTGTACTTCGGTACCCCTGAA-CACTTATGCATG-CCTTGTTTA
1 AATGCACATACGTGCCCCTGTTTGTACTTCGGTACCCCTGAAGCAC--ATACATGTCCTTGTTTG
*
26508415 TACTTTGGTAACCCT
64 TACTTCGGT-ACCCT
26508430 GAATCAAAGT
Statistics
Matches: 132, Mismatches: 21, Indels: 10
0.81 0.13 0.06
Matches are distributed among these distances:
78 7 0.05
79 10 0.08
80 112 0.85
81 3 0.02
ACGTcount: A:0.21, C:0.29, G:0.16, T:0.35
Consensus pattern (79 bp):
AATGCACATACGTGCCCCTGTTTGTACTTCGGTACCCCTGAAGCACATACATGTCCTTGTTTGTA
CTTCGGTACCCTTA
Found at i:26514674 original size:85 final size:85
Alignment explanation
Indices: 26514531--26514703 Score: 319
Period size: 85 Copynumber: 2.0 Consensus size: 85
26514521 CATTAGGAAC
*
26514531 AAGAGCCCTACCTGTTGACTCACCCCGTTCAACTGATAATGAAAAGGACCAGTGACGAGGACGTA
1 AAGAGCCCTACCTGTTGACTCACCCCGTTCAACTGATAACGAAAAGGACCAGTGACGAGGACGTA
26514596 GCTTGCAAATTGTATAGAAT
66 GCTTGCAAATTGTATAGAAT
*
26514616 AAGAGCCCTACCTGTTGACTCACCTCGTTCAACTGATAACGAAAAGGACCAGTGACGAGGACGTA
1 AAGAGCCCTACCTGTTGACTCACCCCGTTCAACTGATAACGAAAAGGACCAGTGACGAGGACGTA
*
26514681 GCTTGCAAATTGTGTAGAAT
66 GCTTGCAAATTGTATAGAAT
26514701 AAG
1 AAG
26514704 TTAATGGGCT
Statistics
Matches: 85, Mismatches: 3, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
85 85 1.00
ACGTcount: A:0.33, C:0.22, G:0.23, T:0.22
Consensus pattern (85 bp):
AAGAGCCCTACCTGTTGACTCACCCCGTTCAACTGATAACGAAAAGGACCAGTGACGAGGACGTA
GCTTGCAAATTGTATAGAAT
Found at i:26516079 original size:2 final size:2
Alignment explanation
Indices: 26516072--26516104 Score: 66
Period size: 2 Copynumber: 16.5 Consensus size: 2
26516062 TGTAAGTTTG
26516072 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
26516105 AACATACCAA
Statistics
Matches: 31, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 31 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:26534115 original size:18 final size:18
Alignment explanation
Indices: 26534084--26534123 Score: 53
Period size: 18 Copynumber: 2.2 Consensus size: 18
26534074 TGATCCACAT
* *
26534084 GGCCATAGTTTGTTACAC
1 GGCCACAGTCTGTTACAC
*
26534102 GGCCACAGTCTGTTACAT
1 GGCCACAGTCTGTTACAC
26534120 GGCC
1 GGCC
26534124 TAGTCACACA
Statistics
Matches: 19, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
18 19 1.00
ACGTcount: A:0.20, C:0.28, G:0.25, T:0.28
Consensus pattern (18 bp):
GGCCACAGTCTGTTACAC
Found at i:26534189 original size:50 final size:50
Alignment explanation
Indices: 26534114--26534210 Score: 167
Period size: 50 Copynumber: 1.9 Consensus size: 50
26534104 CCACAGTCTG
* *
26534114 TTACATGGCCTAGTCACACAGCCCAAGGCTTTTTATAGAGCCGTGTGCTA
1 TTACATGGCCTAGTCACACAGCCCAAGGCTTTTCACAGAGCCGTGTGCTA
*
26534164 TTACATGGCCTAGTCACACAGCCCAAGGCTTTTCACATAGCCGTGTG
1 TTACATGGCCTAGTCACACAGCCCAAGGCTTTTCACAGAGCCGTGTG
26534211 TCCCCTAAAA
Statistics
Matches: 44, Mismatches: 3, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
50 44 1.00
ACGTcount: A:0.24, C:0.28, G:0.22, T:0.27
Consensus pattern (50 bp):
TTACATGGCCTAGTCACACAGCCCAAGGCTTTTCACAGAGCCGTGTGCTA
Found at i:26537970 original size:26 final size:22
Alignment explanation
Indices: 26537947--26537996 Score: 73
Period size: 22 Copynumber: 2.2 Consensus size: 22
26537937 AATTATTAAA
26537947 AATTAATTTTAATTAAATAAATT
1 AATT-ATTTTAATTAAATAAATT
*
26537970 AGTTATTTTAATTAAATAAATTT
1 AATTATTTTAATTAAATAAA-TT
26537993 AATT
1 AATT
26537997 TAATTTCAAT
Statistics
Matches: 24, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
22 16 0.67
23 8 0.33
ACGTcount: A:0.48, C:0.00, G:0.02, T:0.50
Consensus pattern (22 bp):
AATTATTTTAATTAAATAAATT
Found at i:26548953 original size:21 final size:23
Alignment explanation
Indices: 26548928--26548977 Score: 86
Period size: 21 Copynumber: 2.3 Consensus size: 23
26548918 TCAAGAATAT
26548928 TTTATGTATA-TATTTTCCTT-A
1 TTTATGTATATTATTTTCCTTGA
26548949 TTTATGTATATTATTTTCCTTGA
1 TTTATGTATATTATTTTCCTTGA
26548972 TTTATG
1 TTTATG
26548978 AGCTAATTGG
Statistics
Matches: 27, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
21 10 0.37
22 10 0.37
23 7 0.26
ACGTcount: A:0.22, C:0.08, G:0.08, T:0.62
Consensus pattern (23 bp):
TTTATGTATATTATTTTCCTTGA
Found at i:26558506 original size:30 final size:31
Alignment explanation
Indices: 26558447--26558505 Score: 86
Period size: 30 Copynumber: 2.0 Consensus size: 31
26558437 AGAGGTGGGA
*
26558447 TGGGAAGGGAATAAAAGTTTTAGGGAAAAAG
1 TGGGAAGGGAATAAAAATTTTAGGGAAAAAG
*
26558478 TGGG-AGGGAGTAAAAATTTT-GGGAAAAA
1 TGGGAAGGGAATAAAAATTTTAGGGAAAAA
26558506 ATAAAAGATT
Statistics
Matches: 26, Mismatches: 2, Indels: 2
0.87 0.07 0.07
Matches are distributed among these distances:
29 8 0.31
30 14 0.54
31 4 0.15
ACGTcount: A:0.44, C:0.00, G:0.36, T:0.20
Consensus pattern (31 bp):
TGGGAAGGGAATAAAAATTTTAGGGAAAAAG
Found at i:26567387 original size:69 final size:69
Alignment explanation
Indices: 26567294--26567565 Score: 235
Period size: 69 Copynumber: 3.9 Consensus size: 69
26567284 TATTGTCGAC
* ** * *
26567294 AAAATCGAGGTTCGCTGGTAAAGAGCCGCGACCTCCAAAACAGTTAGCGAGAACAAAGCTCCCAG
1 AAAATCAAGGTTCGCAAGCAAAGAGCCACGACCTCCAAAACAGTTAGCGAGAACAAAGCTCCCAG
*
26567359 TTGT
66 ATGT
* * * * * *
26567363 AAAATCAAGGTTCGCAGGCAAAGAGCCAC-ATCCTCTAAAAAACTTAGCTAGAGCAAAGCTCCCA
1 AAAATCAAGGTTCGCAAGCAAAGAGCCACGA-CCTCCAAAACAGTTAGCGAGAACAAAGCTCCCA
26567427 GATGT
65 GATGT
* * * * * ** ** * * *
26567432 AAAATTAAGGTTTGTAAGCGAAGAGTCGTGACCTTTAAAACAGTTATCGAGAGCAAAGCTCTCAG
1 AAAATCAAGGTTCGCAAGCAAAGAGCCACGACCTCCAAAACAGTTAGCGAGAACAAAGCTCCCAG
26567497 CA-GT
66 -ATGT
* * * * *
26567501 AAAATCAAGGCTCGCAAGCGAAGAGTCATGACCTCCAAAATAGTTAGCGA-AAGCAAAGCTCCCA
1 AAAATCAAGGTTCGCAAGCAAAGAGCCACGACCTCCAAAACAGTTAGCGAGAA-CAAAGCTCCCA
26567565 G
65 G
26567566 CTATACAACA
Statistics
Matches: 164, Mismatches: 35, Indels: 8
0.79 0.17 0.04
Matches are distributed among these distances:
68 2 0.01
69 160 0.98
70 2 0.01
ACGTcount: A:0.37, C:0.22, G:0.22, T:0.18
Consensus pattern (69 bp):
AAAATCAAGGTTCGCAAGCAAAGAGCCACGACCTCCAAAACAGTTAGCGAGAACAAAGCTCCCAG
ATGT
Found at i:26577353 original size:14 final size:15
Alignment explanation
Indices: 26577327--26577359 Score: 50
Period size: 14 Copynumber: 2.3 Consensus size: 15
26577317 TGCTAAACTA
*
26577327 GGAAGGACCTTATGT
1 GGAAGGACCTTATCT
26577342 GGAAGG-CCTTATCT
1 GGAAGGACCTTATCT
26577356 GGAA
1 GGAA
26577360 AAACGTTGAT
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
14 11 0.65
15 6 0.35
ACGTcount: A:0.27, C:0.15, G:0.33, T:0.24
Consensus pattern (15 bp):
GGAAGGACCTTATCT
Found at i:26577473 original size:21 final size:21
Alignment explanation
Indices: 26577449--26577488 Score: 62
Period size: 21 Copynumber: 1.9 Consensus size: 21
26577439 AAAAAGAAGA
* *
26577449 AGAAGAAAGGAAAAGAAAAAT
1 AGAAAAAAGAAAAAGAAAAAT
26577470 AGAAAAAAGAAAAAGAAAA
1 AGAAAAAAGAAAAAGAAAA
26577489 GAAAAAAATG
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
21 17 1.00
ACGTcount: A:0.78, C:0.00, G:0.20, T:0.03
Consensus pattern (21 bp):
AGAAAAAAGAAAAAGAAAAAT
Found at i:26577494 original size:6 final size:6
Alignment explanation
Indices: 26577439--26577494 Score: 51
Period size: 6 Copynumber: 8.8 Consensus size: 6
26577429 AATATTTCAA
* *
26577439 AAAAAG AAGAAG AAGAAAG GAAAAG AAAAATAG AAAAAAG AAAAAG -AAAAG
1 AAAAAG AAAAAG AA-AAAG AAAAAG -AAAA-AG -AAAAAG AAAAAG AAAAAG
26577490 AAAAA
1 AAAAA
26577495 AATGAGAGGC
Statistics
Matches: 42, Mismatches: 4, Indels: 8
0.78 0.07 0.15
Matches are distributed among these distances:
5 5 0.12
6 21 0.50
7 9 0.21
8 7 0.17
ACGTcount: A:0.79, C:0.00, G:0.20, T:0.02
Consensus pattern (6 bp):
AAAAAG
Found at i:26579893 original size:50 final size:50
Alignment explanation
Indices: 26578898--26579912 Score: 1086
Period size: 50 Copynumber: 20.3 Consensus size: 50
26578888 TTATCCCCCT
* * **
26578898 GAATAGATTGAAGCTACAATAGCGAATCTTACTT-CCTTAGCGGTGCAGTG
1 GAATAGATTGAAGCTACAACAGCGAATCTTACTTCCCTGA-CATTGCAGTG
* * *
26578948 GAATAGATTGAAGCTACAACAGCGAATCTTGCTTCCCCGACATTGCAGTT
1 GAATAGATTGAAGCTACAACAGCGAATCTTACTTCCCTGACATTGCAGTG
* * * **
26578998 AAATAGATTGAAGCTACGACAGCGAATCTTACTTCCCTGGCGGTGCAGTG
1 GAATAGATTGAAGCTACAACAGCGAATCTTACTTCCCTGACATTGCAGTG
* * *
26579048 GAATAGATTGAAGCTACAACAGCGAATCTTGCTTCCCCGACATTGCAGTT
1 GAATAGATTGAAGCTACAACAGCGAATCTTACTTCCCTGACATTGCAGTG
* * *
26579098 AAATAGATTGAAGCTACAACAGTGAATCTTACTTCCCTGA-AGGTGCAGTG
1 GAATAGATTGAAGCTACAACAGCGAATCTTACTTCCCTGACA-TTGCAGTG
* * * *
26579148 GAACAGATTGAAGCTACAACAACGAATCTTGCTTCCC-GACATTGCAGTT
1 GAATAGATTGAAGCTACAACAGCGAATCTTACTTCCCTGACATTGCAGTG
* **** *
26579197 AAATAGATTGAAGCTACAACAGCGAATCTTACTTCCCTGGGGGTCCAGTG
1 GAATAGATTGAAGCTACAACAGCGAATCTTACTTCCCTGACATTGCAGTG
* * * *
26579247 GAACAGATTGAAGCTACAACAGTGAATCTTGCTTCCCTGACATTGCAGTT
1 GAATAGATTGAAGCTACAACAGCGAATCTTACTTCCCTGACATTGCAGTG
* * **
26579297 AAATAGATGGAAGCTACAACAGCGAATCTTACTTCCCTTG-CGGTGCAGTG
1 GAATAGATTGAAGCTACAACAGCGAATCTTACTTCCC-TGACATTGCAGTG
* * * * *
26579347 GAACAGATTGAAGCTACAATAGCGAATCTTGCTTCCCCGACATTGCAGTT
1 GAATAGATTGAAGCTACAACAGCGAATCTTACTTCCCTGACATTGCAGTG
* **** *
26579397 AAATAGATTGAAGCTACAACAGCGAATCTTACTTCCCTGGGGGTCCAGTG
1 GAATAGATTGAAGCTACAACAGCGAATCTTACTTCCCTGACATTGCAGTG
* * * ** *
26579447 GAACAGATTGAAGCTACAACAGTGAATCTTGCTTCCCCAACATTGCAGTT
1 GAATAGATTGAAGCTACAACAGCGAATCTTACTTCCCTGACATTGCAGTG
* * * * ** *
26579497 AAATAGATTCAAGCTACAACAGCGAATCTTACTTCTCTAACGGTGTAGTG
1 GAATAGATTGAAGCTACAACAGCGAATCTTACTTCCCTGACATTGCAGTG
* * * *
26579547 GAACAGATTGAAGCTACAACAGCGAATCTTGCTTCCCCGACATTGCAGTT
1 GAATAGATTGAAGCTACAACAGCGAATCTTACTTCCCTGACATTGCAGTG
* * * ** *
26579597 AAATAGATTGAAGCTACAACAGCAAATCTTACTTCCCTGGCGGTGTAGTG
1 GAATAGATTGAAGCTACAACAGCGAATCTTACTTCCCTGACATTGCAGTG
* * * *
26579647 GAACAGATTGAAGCTACAACAGCGAATCTTGCTTCCCTAACATTGCAGTT
1 GAATAGATTGAAGCTACAACAGCGAATCTTACTTCCCTGACATTGCAGTG
* * * * *
26579697 AAATAGATTGAAGCTACAACAACGAATCTTACTTCCCTGGCAGTGTAGTG
1 GAATAGATTGAAGCTACAACAGCGAATCTTACTTCCCTGACATTGCAGTG
* * ** *
26579747 GAATAGATTGAAGCTACAACAGTGAATCTTGCTTCCCTGACATTATAGTT
1 GAATAGATTGAAGCTACAACAGCGAATCTTACTTCCCTGACATTGCAGTG
* * * * * *
26579797 AAATAGATTGAAGCTGCCACAGCAAATCTTGCTT-CGTCGACATTGCAGTG
1 GAATAGATTGAAGCTACAACAGCGAATCTTACTTCCCT-GACATTGCAGTG
* * * **
26579847 GAATAGATTGAAGCTACAACAGCAAATCTTATTTCCCTGACGTTGCAACG
1 GAATAGATTGAAGCTACAACAGCGAATCTTACTTCCCTGACATTGCAGTG
* *
26579897 GAACAGATTAAAGCTA
1 GAATAGATTGAAGCTA
26579913 AAGCAGAGTA
Statistics
Matches: 782, Mismatches: 175, Indels: 16
0.80 0.18 0.02
Matches are distributed among these distances:
49 45 0.06
50 730 0.93
51 7 0.01
ACGTcount: A:0.32, C:0.22, G:0.21, T:0.26
Consensus pattern (50 bp):
GAATAGATTGAAGCTACAACAGCGAATCTTACTTCCCTGACATTGCAGTG
Found at i:26579905 original size:100 final size:100
Alignment explanation
Indices: 26578899--26579876 Score: 1501
Period size: 100 Copynumber: 9.8 Consensus size: 100
26578889 TATCCCCCTG
* * * *
26578899 AATAGATTGAAGCTACAATAGCGAATCTTACTTCCTTAGCGGTGCAGTGGAATAGATTGAAGCTA
1 AATAGATTGAAGCTACAACAGCGAATCTTACTTCCCTGGCGGTGCAGTGGAACAGATTGAAGCTA
26578964 CAACAGCGAATCTTGCTTCCCCGACATTGCAGTTA
66 CAACAGCGAATCTTGCTTCCCCGACATTGCAGTTA
* *
26578999 AATAGATTGAAGCTACGACAGCGAATCTTACTTCCCTGGCGGTGCAGTGGAATAGATTGAAGCTA
1 AATAGATTGAAGCTACAACAGCGAATCTTACTTCCCTGGCGGTGCAGTGGAACAGATTGAAGCTA
26579064 CAACAGCGAATCTTGCTTCCCCGACATTGCAGTTA
66 CAACAGCGAATCTTGCTTCCCCGACATTGCAGTTA
* **
26579099 AATAGATTGAAGCTACAACAGTGAATCTTACTTCCCTGAAGGTGCAGTGGAACAGATTGAAGCTA
1 AATAGATTGAAGCTACAACAGCGAATCTTACTTCCCTGGCGGTGCAGTGGAACAGATTGAAGCTA
*
26579164 CAACAACGAATCTTGCTT-CCCGACATTGCAGTTA
66 CAACAGCGAATCTTGCTTCCCCGACATTGCAGTTA
* *
26579198 AATAGATTGAAGCTACAACAGCGAATCTTACTTCCCTGGGGGTCCAGTGGAACAGATTGAAGCTA
1 AATAGATTGAAGCTACAACAGCGAATCTTACTTCCCTGGCGGTGCAGTGGAACAGATTGAAGCTA
* *
26579263 CAACAGTGAATCTTGCTTCCCTGACATTGCAGTTA
66 CAACAGCGAATCTTGCTTCCCCGACATTGCAGTTA
* *
26579298 AATAGATGGAAGCTACAACAGCGAATCTTACTTCCCTTGCGGTGCAGTGGAACAGATTGAAGCTA
1 AATAGATTGAAGCTACAACAGCGAATCTTACTTCCCTGGCGGTGCAGTGGAACAGATTGAAGCTA
*
26579363 CAATAGCGAATCTTGCTTCCCCGACATTGCAGTTA
66 CAACAGCGAATCTTGCTTCCCCGACATTGCAGTTA
* *
26579398 AATAGATTGAAGCTACAACAGCGAATCTTACTTCCCTGGGGGTCCAGTGGAACAGATTGAAGCTA
1 AATAGATTGAAGCTACAACAGCGAATCTTACTTCCCTGGCGGTGCAGTGGAACAGATTGAAGCTA
* *
26579463 CAACAGTGAATCTTGCTTCCCCAACATTGCAGTTA
66 CAACAGCGAATCTTGCTTCCCCGACATTGCAGTTA
* * ** *
26579498 AATAGATTCAAGCTACAACAGCGAATCTTACTTCTCTAACGGTGTAGTGGAACAGATTGAAGCTA
1 AATAGATTGAAGCTACAACAGCGAATCTTACTTCCCTGGCGGTGCAGTGGAACAGATTGAAGCTA
26579563 CAACAGCGAATCTTGCTTCCCCGACATTGCAGTTA
66 CAACAGCGAATCTTGCTTCCCCGACATTGCAGTTA
* *
26579598 AATAGATTGAAGCTACAACAGCAAATCTTACTTCCCTGGCGGTGTAGTGGAACAGATTGAAGCTA
1 AATAGATTGAAGCTACAACAGCGAATCTTACTTCCCTGGCGGTGCAGTGGAACAGATTGAAGCTA
**
26579663 CAACAGCGAATCTTGCTTCCCTAACATTGCAGTTA
66 CAACAGCGAATCTTGCTTCCCCGACATTGCAGTTA
* * * *
26579698 AATAGATTGAAGCTACAACAACGAATCTTACTTCCCTGGCAGTGTAGTGGAATAGATTGAAGCTA
1 AATAGATTGAAGCTACAACAGCGAATCTTACTTCCCTGGCGGTGCAGTGGAACAGATTGAAGCTA
* * **
26579763 CAACAGTGAATCTTGCTTCCCTGACATTATAGTTA
66 CAACAGCGAATCTTGCTTCCCCGACATTGCAGTTA
* * * * * * ** *
26579798 AATAGATTGAAGCTGCCACAGCAAATCTTGCTT-CGTCGACATTGCAGTGGAATAGATTGAAGCT
1 AATAGATTGAAGCTACAACAGCGAATCTTACTTCCCT-GGCGGTGCAGTGGAACAGATTGAAGCT
*
26579862 ACAACAGCAAATCTT
65 ACAACAGCGAATCTT
26579877 ATTTCCCTGA
Statistics
Matches: 810, Mismatches: 66, Indels: 4
0.92 0.08 0.00
Matches are distributed among these distances:
99 95 0.12
100 715 0.88
ACGTcount: A:0.31, C:0.22, G:0.21, T:0.26
Consensus pattern (100 bp):
AATAGATTGAAGCTACAACAGCGAATCTTACTTCCCTGGCGGTGCAGTGGAACAGATTGAAGCTA
CAACAGCGAATCTTGCTTCCCCGACATTGCAGTTA
Found at i:26581903 original size:12 final size:12
Alignment explanation
Indices: 26581883--26581918 Score: 54
Period size: 12 Copynumber: 3.0 Consensus size: 12
26581873 TTTTTAATTA
*
26581883 ATTAATATTATT
1 ATTACTATTATT
26581895 ATTACTATTATT
1 ATTACTATTATT
*
26581907 ATTGCTATTATT
1 ATTACTATTATT
26581919 TATATATTTC
Statistics
Matches: 22, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
12 22 1.00
ACGTcount: A:0.33, C:0.06, G:0.03, T:0.58
Consensus pattern (12 bp):
ATTACTATTATT
Found at i:26583306 original size:80 final size:80
Alignment explanation
Indices: 26583117--26583349 Score: 341
Period size: 82 Copynumber: 2.9 Consensus size: 80
26583107 TTGGCTACAT
* * *
26583117 TTTATAATTCCATTGAAAGCATCAGTTCCAAAATGTGTACACAAATTTCACCAGAAAAAAAAATA
1 TTTATAATT-CATTGAAAGCATTACTTTCAAAATGTGTACACAAATTTCACCAG-AAAAAAAATA
26583182 TAAAAATAATTAATAAA
64 TAAAAATAATTAATAAA
26583199 TTTATAATTTCATTGAAAGCATTACTTTCAAAATGTGTACACAAATTTCACCAGAAAAAAAATAT
1 TTTATAA-TTCATTGAAAGCATTACTTTCAAAATGTGTACACAAATTTCACCAGAAAAAAAATAT
26583264 AAACAA-AA-TAATAAA
65 AAA-AATAATTAATAAA
26583279 TTTATAA-TCATTGAAAGCGCATTACTTTCAAAATGTGTACA-AAATTTCACCAG-AAAAAAATA
1 TTTATAATTCATTGAAA--GCATTACTTTCAAAATGTGTACACAAATTTCACCAGAAAAAAAATA
*
26583341 AAAAAATAA
64 TAAAAATAA
26583350 ATTTATTTAT
Statistics
Matches: 142, Mismatches: 4, Indels: 14
0.89 0.03 0.09
Matches are distributed among these distances:
77 2 0.01
78 23 0.16
79 12 0.08
80 37 0.26
81 16 0.11
82 50 0.35
83 2 0.01
ACGTcount: A:0.51, C:0.13, G:0.07, T:0.29
Consensus pattern (80 bp):
TTTATAATTCATTGAAAGCATTACTTTCAAAATGTGTACACAAATTTCACCAGAAAAAAAATATA
AAAATAATTAATAAA
Found at i:26583676 original size:80 final size:80
Alignment explanation
Indices: 26583559--26583894 Score: 631
Period size: 80 Copynumber: 4.2 Consensus size: 80
26583549 GGCCCGGCCG
26583559 TTCACCAGAAAAAAAAATATAAA-AATAATTAATAAATTTATAATTTCATTGAAAGCATTACTTT
1 TTCACCAG-AAAAAAAATATAAACAA-AA-TAATAAATTTATAATTTCATTGAAAGCATTACTTT
26583623 CAAAATGTGTACACAAAT
63 CAAAATGTGTACACAAAT
26583641 TTCACCAGAAAAAAAATATAAACAAAATAATAAATTTATAATTTCATTGAAAGCATTACTTTCAA
1 TTCACCAGAAAAAAAATATAAACAAAATAATAAATTTATAATTTCATTGAAAGCATTACTTTCAA
26583706 AATGTGTACACAAAT
66 AATGTGTACACAAAT
26583721 TTCACCAGAAAAAAAATATAAACAAAATAATAAATTTATAATTTCATTGAAAGCATTACTTTCAA
1 TTCACCAGAAAAAAAATATAAACAAAATAATAAATTTATAATTTCATTGAAAGCATTACTTTCAA
26583786 AATGTGTACACAAAT
66 AATGTGTACACAAAT
26583801 TTCACCAGAAAAAAAATATAAACAAAATAATAAATTTATAATTTCATTGAAAGCATTACTTTCAA
1 TTCACCAGAAAAAAAATATAAACAAAATAATAAATTTATAATTTCATTGAAAGCATTACTTTCAA
26583866 AATGTGTACA-AAAT
66 AATGTGTACACAAAT
26583880 TTCACCAGAAAAAAA
1 TTCACCAGAAAAAAA
26583895 TAAAAAAATA
Statistics
Matches: 253, Mismatches: 0, Indels: 5
0.98 0.00 0.02
Matches are distributed among these distances:
79 19 0.08
80 208 0.82
81 16 0.06
82 10 0.04
ACGTcount: A:0.52, C:0.12, G:0.06, T:0.30
Consensus pattern (80 bp):
TTCACCAGAAAAAAAATATAAACAAAATAATAAATTTATAATTTCATTGAAAGCATTACTTTCAA
AATGTGTACACAAAT
Found at i:26584226 original size:11 final size:11
Alignment explanation
Indices: 26584206--26584235 Score: 51
Period size: 11 Copynumber: 2.6 Consensus size: 11
26584196 AGAAAATTAA
26584206 AAAAAGTATTTT
1 AAAAA-TATTTT
26584218 AAAAATATTTT
1 AAAAATATTTT
26584229 AAAAATA
1 AAAAATA
26584236 AAAAATATAT
Statistics
Matches: 18, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
11 13 0.72
12 5 0.28
ACGTcount: A:0.60, C:0.00, G:0.03, T:0.37
Consensus pattern (11 bp):
AAAAATATTTT
Found at i:26590001 original size:9 final size:9
Alignment explanation
Indices: 26589984--26590020 Score: 56
Period size: 9 Copynumber: 4.1 Consensus size: 9
26589974 TGAGTTTTCG
26589984 AATTCGAAT
1 AATTCGAAT
*
26589993 AACTCGAAT
1 AATTCGAAT
*
26590002 AATTCGAGT
1 AATTCGAAT
26590011 AATTCGAAT
1 AATTCGAAT
26590020 A
1 A
26590021 TAAAACTATA
Statistics
Matches: 24, Mismatches: 4, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
9 24 1.00
ACGTcount: A:0.43, C:0.14, G:0.14, T:0.30
Consensus pattern (9 bp):
AATTCGAAT
Found at i:26590294 original size:30 final size:31
Alignment explanation
Indices: 26590240--26590299 Score: 79
Period size: 30 Copynumber: 2.0 Consensus size: 31
26590230 AAATCTTTTA
26590240 TTTTCCCCCAAAATTTTTACTCCC-TCCCAC
1 TTTTCCCCCAAAATTTTTACTCCCTTCCCAC
* *
26590270 TTTTCCCCTAAAACTTTTT-TTCCCTTCCCA
1 TTTTCCCCCAAAA-TTTTTACTCCCTTCCCA
26590300 TCTCACCTCT
Statistics
Matches: 26, Mismatches: 2, Indels: 3
0.84 0.06 0.10
Matches are distributed among these distances:
30 16 0.62
31 10 0.38
ACGTcount: A:0.18, C:0.40, G:0.00, T:0.42
Consensus pattern (31 bp):
TTTTCCCCCAAAATTTTTACTCCCTTCCCAC
Found at i:26592171 original size:11 final size:11
Alignment explanation
Indices: 26592153--26592185 Score: 50
Period size: 11 Copynumber: 3.0 Consensus size: 11
26592143 GCATATAACT
26592153 TTAA-TATTAA
1 TTAAGTATTAA
26592163 TTAAGTATTAA
1 TTAAGTATTAA
26592174 TTAAGATATTAA
1 TTAAG-TATTAA
26592186 AACTCTATTC
Statistics
Matches: 21, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
10 4 0.19
11 11 0.52
12 6 0.29
ACGTcount: A:0.48, C:0.00, G:0.06, T:0.45
Consensus pattern (11 bp):
TTAAGTATTAA
Found at i:26592401 original size:112 final size:112
Alignment explanation
Indices: 26592273--26592532 Score: 495
Period size: 112 Copynumber: 2.3 Consensus size: 112
26592263 TTATGTCAAA
26592273 TTTTTAACTAATAATTTTTAAATTAAATTAAATTATAATAATTACAATTTTTTTATATTTTATGT
1 TTTTTAACTAATAATTTTTAAATTAAATTAAATTATAATAATTACAATTTTTTTATATTTTATGT
26592338 TTACTGTTCTGTTCGAATAATAACCCTATTTTAAAATTGGCACAATT
66 TTACTGTTCTGTTCGAATAATAACCCTATTTTAAAATTGGCACAATT
26592385 TTTTTAACTAATAATTTTTAAATTAAATTAAATTATAATAATTACAATTTTTTTATATTTTATGT
1 TTTTTAACTAATAATTTTTAAATTAAATTAAATTATAATAATTACAATTTTTTTATATTTTATGT
26592450 TTACTGTTCTGTTCGAATAATAACCCTATTTTAAAATTGGCACAATT
66 TTACTGTTCTGTTCGAATAATAACCCTATTTTAAAATTGGCACAATT
*
26592497 TTTTTAACTAATAA-TTCTAAATTAAATTAAAATTAT
1 TTTTTAACTAATAATTTTTAAATTAAATT-AAATTAT
26592533 TTTTAAATTA
Statistics
Matches: 146, Mismatches: 1, Indels: 2
0.98 0.01 0.01
Matches are distributed among these distances:
111 13 0.09
112 133 0.91
ACGTcount: A:0.38, C:0.08, G:0.05, T:0.49
Consensus pattern (112 bp):
TTTTTAACTAATAATTTTTAAATTAAATTAAATTATAATAATTACAATTTTTTTATATTTTATGT
TTACTGTTCTGTTCGAATAATAACCCTATTTTAAAATTGGCACAATT
Done.