Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Chr04 ID=Chr04-JGI_221_v2.0
Parameters: 2 7 7 80 10 50 1000
Pmatch=0.80,Pindel=0.10
tuple sizes 0,4,5,7
tuple distances 0, 29, 159, 1000
Length: 62178258
ACGTcount: A:0.33, C:0.16, G:0.16, T:0.33
Warning! 912357 characters in sequence are not A, C, G, or T
File 68 of 198
Found at i:21164280 original size:92 final size:91
Alignment explanation
Indices: 21164170--21164411 Score: 330
Period size: 92 Copynumber: 2.7 Consensus size: 91
21164160 ACCCACCTCT
* *
21164170 GGCCTTTTTGATGTATTTTGACAATTTAAGTACCCAATTGAGTG-AAAAAAAATAGCAAAGGGCT
1 GGCCTTTTTGATGCATTTTGACAATTTAAGTACCCAATTGAGTGCAAAAAAAAAAG-AAAGGGCT
*
21164234 TAATTGCTTTTTATGAAAA-GTTTGAA
65 TAATTACTTTTTATGAAAACGTTTGAA
* * * * *
21164260 GGCCTTTTTTTTATGCATTTTGGCAATTCAAGTACCCAATTGAGTGCAAAAAAAAAAGTAGGGGC
1 GGCC--TTTTTGATGCATTTTGACAATTTAAGTACCCAATTGAGTGCAAAAAAAAAAGAAAGGGC
* *
21164325 TTAATTACTTTTTTTTAAAACGTTTGAA
64 TTAATTACTTTTTATGAAAACGTTTGAA
21164353 GGCCTTTTTGATGCATTTTGA-AAGTTTAAGTACCCAATTGAGTGC-AAAAAAAAAGAAAG
1 GGCCTTTTTGATGCATTTTGACAA-TTTAAGTACCCAATTGAGTGCAAAAAAAAAAGAAAG
21164412 AGCAGGGGCT
Statistics
Matches: 132, Mismatches: 15, Indels: 10
0.84 0.10 0.06
Matches are distributed among these distances:
90 18 0.14
91 35 0.27
92 58 0.44
93 21 0.16
ACGTcount: A:0.35, C:0.12, G:0.19, T:0.35
Consensus pattern (91 bp):
GGCCTTTTTGATGCATTTTGACAATTTAAGTACCCAATTGAGTGCAAAAAAAAAAGAAAGGGCTT
AATTACTTTTTATGAAAACGTTTGAA
Found at i:21165061 original size:4 final size:4
Alignment explanation
Indices: 21165052--21165143 Score: 57
Period size: 4 Copynumber: 22.2 Consensus size: 4
21165042 AAAACAAATA
**
21165052 AAAG AAAG AAAG AAAG AAAG AAAAG AAAG CCAAAG CCAAAG CCA- AAAG
1 AAAG AAAG AAAG AAAG AAAG -AAAG AAAG --AAAG --AAAG AAAG AAAG
* *
21165100 AAA- ACAG AAAGG GAAG AAAG AAA- AAAG AAA- AAGAG AAAG AAAG A
1 AAAG AAAG AAA-G AAAG AAAG AAAG AAAG AAAG AA-AG AAAG AAAG A
21165144 CCCATGTCAA
Statistics
Matches: 71, Mismatches: 8, Indels: 18
0.73 0.08 0.19
Matches are distributed among these distances:
3 8 0.11
4 44 0.62
5 9 0.13
6 10 0.14
ACGTcount: A:0.70, C:0.08, G:0.23, T:0.00
Consensus pattern (4 bp):
AAAG
Found at i:21165067 original size:12 final size:12
Alignment explanation
Indices: 21165052--21165143 Score: 57
Period size: 13 Copynumber: 7.4 Consensus size: 12
21165042 AAAACAAATA
21165052 AAAGAAAGAAAG
1 AAAGAAAGAAAG
21165064 AAAGAAAGAAAAG
1 AAAGAAAG-AAAG
21165077 AAAGCCAAAGCCAAAG
1 AAAG--AAAG--AAAG
**
21165093 CCA-AAAGAAA-
1 AAAGAAAGAAAG
* *
21165103 ACAGAAAGGGAAG
1 AAAGAAA-GAAAG
21165116 AAAGAAA-AAAG
1 AAAGAAAGAAAG
21165127 AAA-AAGAGAAAG
1 AAAGAA-AGAAAG
21165139 AAAGA
1 AAAGA
21165144 CCCATGTCAA
Statistics
Matches: 63, Mismatches: 7, Indels: 19
0.71 0.08 0.21
Matches are distributed among these distances:
10 4 0.06
11 13 0.21
12 18 0.29
13 19 0.30
15 4 0.06
16 5 0.08
ACGTcount: A:0.70, C:0.08, G:0.23, T:0.00
Consensus pattern (12 bp):
AAAGAAAGAAAG
Found at i:21166011 original size:40 final size:40
Alignment explanation
Indices: 21165890--21166027 Score: 97
Period size: 40 Copynumber: 3.5 Consensus size: 40
21165880 CTTCGAGTTC
* * * *
21165890 ATGAGACACTAGGTGTCAATTTACTGCTTC-AGATTAAT-TCG
1 ATGAGACACTGGGTGTCAAATTATTACTTCGA-ATT-ATCT-G
* * ** * *
21165931 ATGAGGCACTGGGTG-CCAA-T-TTACTTCGGTTTAGCCG
1 ATGAGACACTGGGTGTCAAATTATTACTTCGAATTATCTG
21165968 ATGAGACACTGGGTGTCAAATTATTACTTCGAATTATCTG
1 ATGAGACACTGGGTGTCAAATTATTACTTCGAATTATCTG
* * *
21166008 ATGAGCCAGTGGGTGCCAAA
1 ATGAGACACTGGGTGTCAAA
21166028 CTGGTGTGTT
Statistics
Matches: 73, Mismatches: 19, Indels: 11
0.71 0.18 0.11
Matches are distributed among these distances:
37 16 0.22
38 10 0.14
39 2 0.03
40 32 0.44
41 13 0.18
ACGTcount: A:0.27, C:0.18, G:0.25, T:0.30
Consensus pattern (40 bp):
ATGAGACACTGGGTGTCAAATTATTACTTCGAATTATCTG
Found at i:21167449 original size:3 final size:3
Alignment explanation
Indices: 21167441--21167493 Score: 106
Period size: 3 Copynumber: 17.7 Consensus size: 3
21167431 AGGGTTTTAA
21167441 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT
21167489 AAT AA
1 AAT AA
21167494 ATCATATACA
Statistics
Matches: 50, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 50 1.00
ACGTcount: A:0.68, C:0.00, G:0.00, T:0.32
Consensus pattern (3 bp):
AAT
Found at i:21167960 original size:16 final size:15
Alignment explanation
Indices: 21167935--21167974 Score: 62
Period size: 16 Copynumber: 2.6 Consensus size: 15
21167925 AAAGAGAAAT
*
21167935 TTTAAAATAAATTAA
1 TTTAAAATAAATAAA
21167950 TTTAAAGATAAATAAA
1 TTTAAA-ATAAATAAA
21167966 TTTAAAATA
1 TTTAAAATA
21167975 TCATATATAA
Statistics
Matches: 23, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
15 9 0.39
16 14 0.61
ACGTcount: A:0.60, C:0.00, G:0.03, T:0.38
Consensus pattern (15 bp):
TTTAAAATAAATAAA
Found at i:21177484 original size:2 final size:2
Alignment explanation
Indices: 21177477--21177522 Score: 92
Period size: 2 Copynumber: 23.0 Consensus size: 2
21177467 GATGTTGCAT
21177477 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
21177519 TA TA
1 TA TA
21177523 ATAATNNNNN
Statistics
Matches: 44, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 44 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
TA
Found at i:21178227 original size:2 final size:2
Alignment explanation
Indices: 21178220--21178264 Score: 90
Period size: 2 Copynumber: 22.5 Consensus size: 2
21178210 NNNNNNNNNN
21178220 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
21178262 AT A
1 AT A
21178265 AAATTATGAC
Statistics
Matches: 43, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 43 1.00
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (2 bp):
AT
Found at i:21184810 original size:15 final size:16
Alignment explanation
Indices: 21184790--21184819 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
21184780 TGGTGGCTCG
21184790 TTGAT-ATGTGTTAAT
1 TTGATAATGTGTTAAT
21184805 TTGATAATGTGTTAA
1 TTGATAATGTGTTAA
21184820 AGCATGTTTG
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
15 5 0.36
16 9 0.64
ACGTcount: A:0.30, C:0.00, G:0.20, T:0.50
Consensus pattern (16 bp):
TTGATAATGTGTTAAT
Found at i:21185159 original size:17 final size:17
Alignment explanation
Indices: 21185137--21185178 Score: 84
Period size: 17 Copynumber: 2.5 Consensus size: 17
21185127 TATGGTCAAG
21185137 TATGTATAAGTTAGATA
1 TATGTATAAGTTAGATA
21185154 TATGTATAAGTTAGATA
1 TATGTATAAGTTAGATA
21185171 TATGTATA
1 TATGTATA
21185179 TTTGGGATGC
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
17 25 1.00
ACGTcount: A:0.40, C:0.00, G:0.17, T:0.43
Consensus pattern (17 bp):
TATGTATAAGTTAGATA
Found at i:21187465 original size:41 final size:40
Alignment explanation
Indices: 21187420--21187723 Score: 351
Period size: 41 Copynumber: 7.5 Consensus size: 40
21187410 TCTCAAATCT
* * *
21187420 ATGAAAAGGTTGAAAAGGAAGTTATCCAAAAAGGATAACAA
1 ATGAAAAGGTTGAAAAGGACGATATCCAAAAA-GATATCAA
** **
21187461 ATGAAAATATTGAAAAGGACGATATTTGAAAAAGATATCAA
1 ATGAAAAGGTTGAAAAGGACGATA-TCCAAAAAGATATCAA
*
21187502 ATGAAAAGGTTGAAAAGGACGATATTCGAAAAAGATATCAA
1 ATGAAAAGGTTGAAAAGGACGATA-TCCAAAAAGATATCAA
* * *
21187543 ATGAAAAGGTTGAAAAGAACGATATCCAAAAAATATATCAC
1 ATGAAAAGGTTGAAAAGGACGATATCC-AAAAAGATATCAA
21187584 ATGAAAAGGTTGAAAAGGACGATATCCGAAAAAGATATCAA
1 ATGAAAAGGTTGAAAAGGACGATATCC-AAAAAGATATCAA
** **
21187625 ATGAAAATATTGAAAAGGACGATATTAAAAAAAGATATCAA
1 ATGAAAAGGTTGAAAAGGACGATA-TCCAAAAAGATATCAA
* **
21187666 ATGAAAAGGTTGAAAATGACGATATTTGAAGAAA-ATATC-A
1 ATGAAAAGGTTGAAAAGGACGATA-TCCAA-AAAGATATCAA
*
21187706 ATGAAAAGGTCGAAAAGG
1 ATGAAAAGGTTGAAAAGG
21187724 TTAGGAATGA
Statistics
Matches: 230, Mismatches: 29, Indels: 9
0.86 0.11 0.03
Matches are distributed among these distances:
40 19 0.08
41 201 0.87
42 10 0.04
ACGTcount: A:0.53, C:0.07, G:0.20, T:0.20
Consensus pattern (40 bp):
ATGAAAAGGTTGAAAAGGACGATATCCAAAAAGATATCAA
Found at i:21187704 original size:82 final size:82
Alignment explanation
Indices: 21187420--21187712 Score: 403
Period size: 82 Copynumber: 3.6 Consensus size: 82
21187410 TCTCAAATCT
* * * *
21187420 ATGAAAAGGTTGAAAAGGAAGTTA-TCCAAAAAGGATAACAAATGAAAATATTGAAAAGGACGAT
1 ATGAAAAGGTTGAAAAGGACGATATTCGAAAAA-GATATCAAATGAAAATATTGAAAAGGACGAT
**
21187484 ATTTGAAAAAGATATCAA
65 ATTAAAAAAAGATATCAA
** *
21187502 ATGAAAAGGTTGAAAAGGACGATATTCGAAAAAGATATCAAATGAAAAGGTTGAAAAGAACGATA
1 ATGAAAAGGTTGAAAAGGACGATATTCGAAAAAGATATCAAATGAAAATATTGAAAAGGACGATA
** * *
21187567 TCCAAAAAATATATCAC
66 TTAAAAAAAGATATCAA
*
21187584 ATGAAAAGGTTGAAAAGGACGATATCCGAAAAAGATATCAAATGAAAATATTGAAAAGGACGATA
1 ATGAAAAGGTTGAAAAGGACGATATTCGAAAAAGATATCAAATGAAAATATTGAAAAGGACGATA
21187649 TTAAAAAAAGATATCAA
66 TTAAAAAAAGATATCAA
* *
21187666 ATGAAAAGGTTGAAAATGACGATATTTGAAGAAA-ATATC-AATGAAAA
1 ATGAAAAGGTTGAAAAGGACGATATTCGAA-AAAGATATCAAATGAAAA
21187713 GGTCGAAAAG
Statistics
Matches: 186, Mismatches: 23, Indels: 5
0.87 0.11 0.02
Matches are distributed among these distances:
81 8 0.04
82 168 0.90
83 10 0.05
ACGTcount: A:0.54, C:0.07, G:0.19, T:0.20
Consensus pattern (82 bp):
ATGAAAAGGTTGAAAAGGACGATATTCGAAAAAGATATCAAATGAAAATATTGAAAAGGACGATA
TTAAAAAAAGATATCAA
Found at i:21187704 original size:123 final size:122
Alignment explanation
Indices: 21187420--21187723 Score: 398
Period size: 123 Copynumber: 2.5 Consensus size: 122
21187410 TCTCAAATCT
* ** * **
21187420 ATGAAAAGGTTGAAAAGGAA-GTTATCCAAAAAGGATAACAAATGAAAATATTGAAAAGGACGAT
1 ATGAAAAGGTTGAAAA-GAACGATATCCAAAAAATATATC-AATGAAAAGGTTGAAAAGGACGAT
** * **
21187484 ATTTGAAAAAGATATCAAATGAAAAGGTTGAAAAGGACGATATTCGAAAAAGATATCAA
64 ATCCGAAAAAGATATCAAATGAAAAGATTGAAAAGGACGATATTAAAAAAAGATATCAA
21187543 ATGAAAAGGTTGAAAAGAACGATATCCAAAAAATATATCACATGAAAAGGTTGAAAAGGACGATA
1 ATGAAAAGGTTGAAAAGAACGATATCCAAAAAATATATCA-ATGAAAAGGTTGAAAAGGACGATA
*
21187608 TCCGAAAAAGATATCAAATGAAAATATTGAAAAGGACGATATTAAAAAAAGATATCAA
65 TCCGAAAAAGATATCAAATGAAAAGATTGAAAAGGACGATATTAAAAAAAGATATCAA
** * *
21187666 ATGAAAAGGTTGAAAATG-ACGATATTTGAAGAAA-ATATCAATGAAAAGGTCGAAAAGG
1 ATGAAAAGGTTGAAAA-GAACGATA-TCCAAAAAATATATCAATGAAAAGGTTGAAAAGG
21187724 TTAGGAATGA
Statistics
Matches: 161, Mismatches: 16, Indels: 9
0.87 0.09 0.05
Matches are distributed among these distances:
122 21 0.13
123 133 0.83
124 7 0.04
ACGTcount: A:0.53, C:0.07, G:0.20, T:0.20
Consensus pattern (122 bp):
ATGAAAAGGTTGAAAAGAACGATATCCAAAAAATATATCAATGAAAAGGTTGAAAAGGACGATAT
CCGAAAAAGATATCAAATGAAAAGATTGAAAAGGACGATATTAAAAAAAGATATCAA
Found at i:21189499 original size:18 final size:18
Alignment explanation
Indices: 21189476--21189515 Score: 80
Period size: 18 Copynumber: 2.2 Consensus size: 18
21189466 AGTCGCCACC
21189476 GATCTTTTATTGAGGTGT
1 GATCTTTTATTGAGGTGT
21189494 GATCTTTTATTGAGGTGT
1 GATCTTTTATTGAGGTGT
21189512 GATC
1 GATC
21189516 GGATCACCTC
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
18 22 1.00
ACGTcount: A:0.17, C:0.07, G:0.28, T:0.47
Consensus pattern (18 bp):
GATCTTTTATTGAGGTGT
Found at i:21198658 original size:18 final size:18
Alignment explanation
Indices: 21198635--21198670 Score: 54
Period size: 18 Copynumber: 2.0 Consensus size: 18
21198625 CCCCACCGCT
*
21198635 GCCATGACCCTCTCCATA
1 GCCATGACCCTCGCCATA
*
21198653 GCCATGCCCCTCGCCATA
1 GCCATGACCCTCGCCATA
21198671 ACTTTCACCA
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
18 16 1.00
ACGTcount: A:0.19, C:0.47, G:0.14, T:0.19
Consensus pattern (18 bp):
GCCATGACCCTCGCCATA
Found at i:21198888 original size:12 final size:12
Alignment explanation
Indices: 21198873--21198909 Score: 65
Period size: 12 Copynumber: 3.1 Consensus size: 12
21198863 ACTTGAACTG
*
21198873 GAACTGGAACCA
1 GAACCGGAACCA
21198885 GAACCGGAACCA
1 GAACCGGAACCA
21198897 GAACCGGAACCA
1 GAACCGGAACCA
21198909 G
1 G
21198910 CCCCAGCTCC
Statistics
Matches: 24, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
12 24 1.00
ACGTcount: A:0.41, C:0.30, G:0.27, T:0.03
Consensus pattern (12 bp):
GAACCGGAACCA
Found at i:21198946 original size:22 final size:20
Alignment explanation
Indices: 21198908--21198947 Score: 53
Period size: 21 Copynumber: 1.9 Consensus size: 20
21198898 AACCGGAACC
*
21198908 AGCCCCAGCTCCAGACCCTG
1 AGCCCCACCTCCAGACCCTG
21198928 AGCCACCACCTCCGAGACCC
1 AGCC-CCACCTCC-AGACCC
21198948 AGCCCTACAC
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
20 4 0.24
21 7 0.41
22 6 0.35
ACGTcount: A:0.23, C:0.53, G:0.17, T:0.07
Consensus pattern (20 bp):
AGCCCCACCTCCAGACCCTG
Found at i:21202727 original size:60 final size:60
Alignment explanation
Indices: 21202630--21202755 Score: 180
Period size: 60 Copynumber: 2.1 Consensus size: 60
21202620 GCCTCGTCCT
* * * *
21202630 GACCCAGCTCGAGAGCCAGCATAGGAACCGGCAGATGAACCGGCTTCTGAACCTGCACCA
1 GACCCAGCTCGAGACCCAGCATAAGAACCGGCAGATGAACCAGCTTCAGAACCTGCACCA
* * * *
21202690 GACCCGGCTCGAGACCCAGCGTAAGAACCTGCGGATGAACCAGCTTCAGAACCTGCACCA
1 GACCCAGCTCGAGACCCAGCATAAGAACCGGCAGATGAACCAGCTTCAGAACCTGCACCA
21202750 GACCCA
1 GACCCA
21202756 CCAGATGAAC
Statistics
Matches: 57, Mismatches: 9, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
60 57 1.00
ACGTcount: A:0.29, C:0.35, G:0.25, T:0.11
Consensus pattern (60 bp):
GACCCAGCTCGAGACCCAGCATAAGAACCGGCAGATGAACCAGCTTCAGAACCTGCACCA
Found at i:21204064 original size:9 final size:9
Alignment explanation
Indices: 21204031--21204079 Score: 61
Period size: 9 Copynumber: 5.9 Consensus size: 9
21204021 CTGGCCATTT
21204031 TATTT-AAA
1 TATTTAAAA
21204039 -ATTTAAAA
1 TATTTAAAA
*
21204047 -A-TAAAAA
1 TATTTAAAA
21204054 TATTTAAAA
1 TATTTAAAA
21204063 TATTTAAAA
1 TATTTAAAA
21204072 TATTTAAA
1 TATTTAAA
21204080 TTTAAAAATT
Statistics
Matches: 36, Mismatches: 2, Indels: 5
0.84 0.05 0.12
Matches are distributed among these distances:
7 9 0.25
8 5 0.14
9 22 0.61
ACGTcount: A:0.59, C:0.00, G:0.00, T:0.41
Consensus pattern (9 bp):
TATTTAAAA
Found at i:21204086 original size:34 final size:33
Alignment explanation
Indices: 21204033--21204145 Score: 131
Period size: 33 Copynumber: 3.4 Consensus size: 33
21204023 GGCCATTTTA
* * **
21204033 TTTAAAAT-TTAAAAATAAAAATATTTAAAATA-
1 TTTAAAATATTTAAATTAAAAAT-TAAAAAATAT
21204065 TTTAAAATATTTAAATTTAAAAATTAAAAAAGTAT
1 TTTAAAATATTTAAA-TTAAAAATTAAAAAA-TAT
*
21204100 TTTAAAAATATTTTAATTAAAAATTAAAAAATAT
1 TTT-AAAATATTTAAATTAAAAATTAAAAAATAT
21204134 TTTAAAATATTT
1 TTTAAAATATTT
21204146 TAAAAATAAA
Statistics
Matches: 71, Mismatches: 5, Indels: 9
0.84 0.06 0.11
Matches are distributed among these distances:
32 8 0.11
33 19 0.27
34 15 0.21
35 18 0.25
36 11 0.15
ACGTcount: A:0.58, C:0.00, G:0.01, T:0.42
Consensus pattern (33 bp):
TTTAAAATATTTAAATTAAAAATTAAAAAATAT
Found at i:21204088 original size:8 final size:8
Alignment explanation
Indices: 21204032--21204094 Score: 55
Period size: 9 Copynumber: 8.1 Consensus size: 8
21204022 TGGCCATTTT
21204032 ATTT-AAA
1 ATTTAAAA
21204039 ATTTAAAA
1 ATTTAAAA
*
21204047 A-TAAAAA
1 ATTTAAAA
21204054 TATTTAAAA
1 -ATTTAAAA
21204063 TATTTAAAA
1 -ATTTAAAA
21204072 TATTT--AA
1 -ATTTAAAA
21204079 ATTTAAAA
1 ATTTAAAA
21204087 A-TTAAAA
1 ATTTAAAA
21204094 A
1 A
21204095 AGTATTTTAA
Statistics
Matches: 49, Mismatches: 2, Indels: 10
0.80 0.03 0.16
Matches are distributed among these distances:
6 4 0.08
7 18 0.37
8 8 0.16
9 19 0.39
ACGTcount: A:0.62, C:0.00, G:0.00, T:0.38
Consensus pattern (8 bp):
ATTTAAAA
Found at i:21204104 original size:13 final size:12
Alignment explanation
Indices: 21204088--21204151 Score: 59
Period size: 10 Copynumber: 5.6 Consensus size: 12
21204078 AATTTAAAAA
21204088 TTAAAAAAGTATT
1 TTAAAAAA-TATT
21204101 TT-AAAAATATT
1 TTAAAAAATATT
21204112 TTAATTAAAA-A--
1 TTAA--AAAATATT
21204123 TTAAAAAATATT
1 TTAAAAAATATT
21204135 TT--AAAATATT
1 TTAAAAAATATT
21204145 TTAAAAA
1 TTAAAAA
21204152 TAAAAAAATT
Statistics
Matches: 43, Mismatches: 0, Indels: 17
0.72 0.00 0.28
Matches are distributed among these distances:
9 4 0.09
10 11 0.26
11 10 0.23
12 11 0.26
13 3 0.07
14 4 0.09
ACGTcount: A:0.58, C:0.00, G:0.02, T:0.41
Consensus pattern (12 bp):
TTAAAAAATATT
Found at i:21204111 original size:11 final size:11
Alignment explanation
Indices: 21204091--21204153 Score: 67
Period size: 11 Copynumber: 5.6 Consensus size: 11
21204081 TTAAAAATTA
21204091 AAAAAGTATTTT
1 AAAAA-TATTTT
21204103 AAAAATATTTT
1 AAAAATATTTT
* *
21204114 AATTAAA-AATTA
1 AA--AAATATTTT
21204126 AAAAATATTTT
1 AAAAATATTTT
21204137 -AAAATATTTT
1 AAAAATATTTT
21204147 AAAAATA
1 AAAAATA
21204154 AAAAAATTAA
Statistics
Matches: 43, Mismatches: 4, Indels: 9
0.77 0.07 0.16
Matches are distributed among these distances:
10 13 0.30
11 17 0.40
12 10 0.23
13 3 0.07
ACGTcount: A:0.59, C:0.00, G:0.02, T:0.40
Consensus pattern (11 bp):
AAAAATATTTT
Found at i:21204120 original size:35 final size:36
Alignment explanation
Indices: 21204068--21204197 Score: 151
Period size: 35 Copynumber: 3.6 Consensus size: 36
21204058 TAAAATATTT
21204068 AAAATA-TTTAAATTTAAAAATTAAAAAAGTATTTTA
1 AAAATATTTTAAA-TTAAAAATTAAAAAAGTATTTTA
21204104 AAAATATTTT-AATTAAAAATTAAAAAA-TATTTT-
1 AAAATATTTTAAATTAAAAATTAAAAAAGTATTTTA
* * *
21204137 AAAATATTTTAAAAATAAAAAAATTAAAAAAAGTATGTAA
1 AAAATATTTT--AAAT-TAAAAATT-AAAAAAGTATTTTA
21204177 AAAATATTTTAAAATTAAAAA
1 AAAATATTTT-AAATTAAAAA
21204198 AATAAATATA
Statistics
Matches: 82, Mismatches: 4, Indels: 14
0.82 0.04 0.14
Matches are distributed among these distances:
33 10 0.12
34 6 0.07
35 15 0.18
36 11 0.13
37 10 0.12
38 11 0.13
39 9 0.11
40 10 0.12
ACGTcount: A:0.62, C:0.00, G:0.02, T:0.35
Consensus pattern (36 bp):
AAAATATTTTAAATTAAAAATTAAAAAAGTATTTTA
Found at i:21204205 original size:73 final size:68
Alignment explanation
Indices: 21204059--21204211 Score: 175
Period size: 73 Copynumber: 2.2 Consensus size: 68
21204049 AAAAATATTT
** * *
21204059 AAAATA-TTTAAAATATTTAAATTTAAAAATTAAAAAAGTATTTTAAAAATATTTTAATTAAAAA
1 AAAATATTTTAAAATATTTAAATAAAAAAATTAAAAAAGTATGTAAAAAATATTTTAATTAAAAA
21204123 TTAA
66 -TAA
21204127 AAAATATTTTAAAATATTTTAAAAATAAAAAAATTAAAAAAAGTATGTAAAAAATATTTTAAAAT
1 AAAATATTTTAAAATA-TTT--AAATAAAAAAATT-AAAAAAGTATGTAAAAAATATTTT--AAT
21204192 TAAAAA-AA
60 TAAAAATAA
*
21204200 TAAATATATTTA
1 AAAATAT-TTTA
21204212 TTATATCGGG
Statistics
Matches: 72, Mismatches: 5, Indels: 10
0.83 0.06 0.11
Matches are distributed among these distances:
68 6 0.08
69 9 0.12
70 3 0.04
72 11 0.15
73 30 0.42
74 4 0.06
75 9 0.12
ACGTcount: A:0.61, C:0.00, G:0.02, T:0.37
Consensus pattern (68 bp):
AAAATATTTTAAAATATTTAAATAAAAAAATTAAAAAAGTATGTAAAAAATATTTTAATTAAAAA
TAA
Found at i:21204524 original size:29 final size:30
Alignment explanation
Indices: 21204470--21204539 Score: 106
Period size: 29 Copynumber: 2.3 Consensus size: 30
21204460 ATCTCAAAAT
21204470 TATACATGAACTATGATTTAATGTATAATTG
1 TATACATGAACTATGATTT-ATGTATAATTG
* *
21204501 TATACATGAACTTTGATTT-TGTATAATTT
1 TATACATGAACTATGATTTATGTATAATTG
21204530 TATACATGAA
1 TATACATGAA
21204540 ATTTTAATTT
Statistics
Matches: 37, Mismatches: 2, Indels: 2
0.90 0.05 0.05
Matches are distributed among these distances:
29 19 0.51
31 18 0.49
ACGTcount: A:0.37, C:0.07, G:0.11, T:0.44
Consensus pattern (30 bp):
TATACATGAACTATGATTTATGTATAATTG
Found at i:21204550 original size:29 final size:29
Alignment explanation
Indices: 21204491--21204550 Score: 84
Period size: 29 Copynumber: 2.1 Consensus size: 29
21204481 TATGATTTAA
* *
21204491 TGTATAATTGTATACATGAACTTTGATTT
1 TGTATAATTGTATACATGAAATTTGAATT
* *
21204520 TGTATAATTTTATACATGAAATTTTAATT
1 TGTATAATTGTATACATGAAATTTGAATT
21204549 TG
1 TG
21204551 ATCCATTTTT
Statistics
Matches: 27, Mismatches: 4, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
29 27 1.00
ACGTcount: A:0.33, C:0.05, G:0.12, T:0.50
Consensus pattern (29 bp):
TGTATAATTGTATACATGAAATTTGAATT
Found at i:21204717 original size:29 final size:29
Alignment explanation
Indices: 21204655--21204755 Score: 89
Period size: 29 Copynumber: 3.3 Consensus size: 29
21204645 AAATAAATCG
* *
21204655 ATGTATACATTTGAACCACAATTAGAGTTTCAT
1 ATGTATA-A-TTGTACCA-AATTAAAG-TTCAT
21204688 ATGTATAATTGTACCAAATTAAAGTTCAT
1 ATGTATAATTGTACCAAATTAAAGTTCAT
* * *
21204717 ATATATAATTGTACATTAAATAAAAGTT--T
1 ATGTATAATTGTAC--CAAATTAAAGTTCAT
21204746 ATGTATAATT
1 ATGTATAATT
21204756 TTGAGATTTA
Statistics
Matches: 60, Mismatches: 6, Indels: 8
0.81 0.08 0.11
Matches are distributed among these distances:
29 28 0.47
30 7 0.12
31 17 0.28
32 1 0.02
33 7 0.12
ACGTcount: A:0.42, C:0.09, G:0.10, T:0.40
Consensus pattern (29 bp):
ATGTATAATTGTACCAAATTAAAGTTCAT
Found at i:21208469 original size:25 final size:25
Alignment explanation
Indices: 21208430--21208479 Score: 64
Period size: 25 Copynumber: 2.0 Consensus size: 25
21208420 GGCAAAGCAA
* *
21208430 GGATCACTAGTGGGCCTGGCGAGTT
1 GGATCACCAGCGGGCCTGGCGAGTT
* *
21208455 GGATCACCAGCGGGCTTGGTGAGTT
1 GGATCACCAGCGGGCCTGGCGAGTT
21208480 TTTATTGCTG
Statistics
Matches: 21, Mismatches: 4, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
25 21 1.00
ACGTcount: A:0.16, C:0.20, G:0.40, T:0.24
Consensus pattern (25 bp):
GGATCACCAGCGGGCCTGGCGAGTT
Found at i:21224682 original size:41 final size:40
Alignment explanation
Indices: 21224626--21224771 Score: 138
Period size: 41 Copynumber: 3.6 Consensus size: 40
21224616 TGATTCGATA
21224626 CACCGGC-TTATAGCCTGCTAGACCTATAGTCCGAAATGTAT
1 CACCGGCATTA-AGCCTGCTAGACCTATAGTCCGAAAT-TAT
* * *
21224667 CACCGGCATTAAGCCTGCTAGACGTAAAGTCTG-AATTAATT
1 CACCGGCATTAAGCCTGCTAGACCTATAGTCCGAAATT-A-T
* *
21224708 CACCGGCATTAAGCCTGCTAGGCAC-ATAG-CCTGAATTATAT
1 CACCGGCATTAAGCCTGCTAGAC-CTATAGTCC-GAAAT-TAT
**
21224749 CACCGGCATCCAGCCTGCTAGAC
1 CACCGGCATTAAGCCTGCTAGAC
21224772 AATAAGTCTG
Statistics
Matches: 87, Mismatches: 11, Indels: 14
0.78 0.10 0.12
Matches are distributed among these distances:
39 1 0.01
40 5 0.06
41 74 0.85
42 6 0.07
43 1 0.01
ACGTcount: A:0.28, C:0.28, G:0.20, T:0.24
Consensus pattern (40 bp):
CACCGGCATTAAGCCTGCTAGACCTATAGTCCGAAATTAT
Found at i:21224779 original size:82 final size:83
Alignment explanation
Indices: 21224626--21224791 Score: 198
Period size: 82 Copynumber: 2.0 Consensus size: 83
21224616 TGATTCGATA
* * *
21224626 CACCGGCTTATAGCCTGCTAGACCTATAGTCCGAAATGTATCACCGGCATTAAGCCTGCTAGACG
1 CACCGGCTTATAGCCTGCTAGACCTATAGTCCGAAATATATCACCGGCATCAAGCCTGCTAGACA
21224691 TAAAGTCTGAATTA-ATT
66 TAAAGTCTGAATTACATT
* * *
21224708 CACCGGCATTA-AGCCTGCTAGGCAC-ATAG-CCTGAATTATATCACCGGCATCCAGCCTGCTAG
1 CACCGGC-TTATAGCCTGCTAGAC-CTATAGTCC-GAAATATATCACCGGCATCAAGCCTGCTAG
*
21224770 ACA-ATAAGTCTGATTTACATT
63 ACATA-AAGTCTGAATTACATT
21224791 C
1 C
21224792 GATCACTTTA
Statistics
Matches: 72, Mismatches: 7, Indels: 9
0.82 0.08 0.10
Matches are distributed among these distances:
81 3 0.04
82 61 0.85
83 8 0.11
ACGTcount: A:0.29, C:0.27, G:0.19, T:0.26
Consensus pattern (83 bp):
CACCGGCTTATAGCCTGCTAGACCTATAGTCCGAAATATATCACCGGCATCAAGCCTGCTAGACA
TAAAGTCTGAATTACATT
Found at i:21232712 original size:41 final size:40
Alignment explanation
Indices: 21232656--21232801 Score: 138
Period size: 41 Copynumber: 3.6 Consensus size: 40
21232646 TGATTCAATA
21232656 CACCGGC-TTATAGCCTGCTAGACCTATAGTCCGAAATGTAT
1 CACCGGCATTA-AGCCTGCTAGACCTATAGTCCGAAAT-TAT
* * *
21232697 CACCGGCATTAAGCCTGCTAGACGTAAAGTCTG-AATTAATT
1 CACCGGCATTAAGCCTGCTAGACCTATAGTCCGAAATT-A-T
* *
21232738 CACCGGCATTAAGCCTGCTAGGCAC-ATAG-CCTGAATTATAT
1 CACCGGCATTAAGCCTGCTAGAC-CTATAGTCC-GAAAT-TAT
**
21232779 CACCGGCATCCAGCCTGCTAGAC
1 CACCGGCATTAAGCCTGCTAGAC
21232802 AATAAGTCTG
Statistics
Matches: 87, Mismatches: 11, Indels: 14
0.78 0.10 0.12
Matches are distributed among these distances:
39 1 0.01
40 5 0.06
41 74 0.85
42 6 0.07
43 1 0.01
ACGTcount: A:0.28, C:0.28, G:0.20, T:0.24
Consensus pattern (40 bp):
CACCGGCATTAAGCCTGCTAGACCTATAGTCCGAAATTAT
Found at i:21232809 original size:82 final size:83
Alignment explanation
Indices: 21232656--21232821 Score: 198
Period size: 82 Copynumber: 2.0 Consensus size: 83
21232646 TGATTCAATA
* * *
21232656 CACCGGCTTATAGCCTGCTAGACCTATAGTCCGAAATGTATCACCGGCATTAAGCCTGCTAGACG
1 CACCGGCTTATAGCCTGCTAGACCTATAGTCCGAAATATATCACCGGCATCAAGCCTGCTAGACA
21232721 TAAAGTCTGAATTA-ATT
66 TAAAGTCTGAATTACATT
* * *
21232738 CACCGGCATTA-AGCCTGCTAGGCAC-ATAG-CCTGAATTATATCACCGGCATCCAGCCTGCTAG
1 CACCGGC-TTATAGCCTGCTAGAC-CTATAGTCC-GAAATATATCACCGGCATCAAGCCTGCTAG
*
21232800 ACA-ATAAGTCTGATTTACATT
63 ACATA-AAGTCTGAATTACATT
21232821 C
1 C
21232822 GATCACTTTA
Statistics
Matches: 72, Mismatches: 7, Indels: 9
0.82 0.08 0.10
Matches are distributed among these distances:
81 3 0.04
82 61 0.85
83 8 0.11
ACGTcount: A:0.29, C:0.27, G:0.19, T:0.26
Consensus pattern (83 bp):
CACCGGCTTATAGCCTGCTAGACCTATAGTCCGAAATATATCACCGGCATCAAGCCTGCTAGACA
TAAAGTCTGAATTACATT
Found at i:21235935 original size:21 final size:22
Alignment explanation
Indices: 21235906--21235949 Score: 72
Period size: 22 Copynumber: 2.0 Consensus size: 22
21235896 AAACTTTCGT
*
21235906 ACTTTTAA-TTTTATTTTTGGG
1 ACTTATAATTTTTATTTTTGGG
21235927 ACTTATAATTTTTATTTTTGGG
1 ACTTATAATTTTTATTTTTGGG
21235949 A
1 A
21235950 TGATTTTATT
Statistics
Matches: 21, Mismatches: 1, Indels: 1
0.91 0.04 0.04
Matches are distributed among these distances:
21 7 0.33
22 14 0.67
ACGTcount: A:0.23, C:0.05, G:0.14, T:0.59
Consensus pattern (22 bp):
ACTTATAATTTTTATTTTTGGG
Found at i:21235961 original size:22 final size:23
Alignment explanation
Indices: 21235908--21235961 Score: 58
Period size: 22 Copynumber: 2.4 Consensus size: 23
21235898 ACTTTCGTAC
*
21235908 TTTTAATTTTATTTTTGGGACTTA
1 TTTT-ATTTTATTTTTGGGACTGA
**
21235932 TAAT-TTTTATTTTTGGGA-TGA
1 TTTTATTTTATTTTTGGGACTGA
21235953 TTTTATTTT
1 TTTTATTTT
21235962 GTTGGGAATT
Statistics
Matches: 24, Mismatches: 5, Indels: 4
0.73 0.15 0.12
Matches are distributed among these distances:
21 4 0.17
22 18 0.75
24 2 0.08
ACGTcount: A:0.20, C:0.02, G:0.13, T:0.65
Consensus pattern (23 bp):
TTTTATTTTATTTTTGGGACTGA
Found at i:21239312 original size:26 final size:26
Alignment explanation
Indices: 21239276--21239344 Score: 86
Period size: 26 Copynumber: 2.7 Consensus size: 26
21239266 TTCTCTAAAT
*
21239276 TTTACCAGGGGTAAAATCGTCAAAAC
1 TTTACTAGGGGTAAAATCGTCAAAAC
* *
21239302 TTTATCT-GGGGTAAAATCGTCCAAAT
1 TTTA-CTAGGGGTAAAATCGTCAAAAC
*
21239328 TTTACTAGGGATAAAAT
1 TTTACTAGGGGTAAAAT
21239345 AGGGATGAGA
Statistics
Matches: 37, Mismatches: 4, Indels: 4
0.82 0.09 0.09
Matches are distributed among these distances:
25 2 0.05
26 34 0.92
27 1 0.03
ACGTcount: A:0.36, C:0.14, G:0.19, T:0.30
Consensus pattern (26 bp):
TTTACTAGGGGTAAAATCGTCAAAAC
Found at i:21247056 original size:46 final size:46
Alignment explanation
Indices: 21246945--21247339 Score: 471
Period size: 46 Copynumber: 8.7 Consensus size: 46
21246935 ATGATTGAAG
* * * * *
21246945 GATGCCATGGTGTCTTTCAACCATGGTCTTATTTA-TACTCGGCT-T
1 GATGCCATAGTGTCTTTCAACCATGGTCTTATTCACT-TTCCGATAT
* *
21246990 GATGCCATAATGTCTTTCAACCATGGTCTTATTCACTTTCCGGTAT
1 GATGCCATAGTGTCTTTCAACCATGGTCTTATTCACTTTCCGATAT
*
21247036 GATGCCATAGTGTCTTTCAACCATGGTCTTATTCACTTTTCGATAT
1 GATGCCATAGTGTCTTTCAACCATGGTCTTATTCACTTTCCGATAT
* * *
21247082 GATGCCATAGTGT-TTTCAACCATAGTATTATTCACTTTTCGATAT
1 GATGCCATAGTGTCTTTCAACCATGGTCTTATTCACTTTCCGATAT
*
21247127 GATGCCATAGTGTCTTTCAACCATGGTCTTATTCACTTTCCAATAT
1 GATGCCATAGTGTCTTTCAACCATGGTCTTATTCACTTTCCGATAT
* **
21247173 GATGCCATAGTGTCATTCAACCATGGTCTTATTCACTTTCTAATAT
1 GATGCCATAGTGTCTTTCAACCATGGTCTTATTCACTTTCCGATAT
* * *
21247219 GATGCCATAGTGTCTTTCAACTATGGTCTTATTCA-TTTTCGATAG
1 GATGCCATAGTGTCTTTCAACCATGGTCTTATTCACTTTCCGATAT
*** * * *
21247264 GATGTTGTCGTGTCTTTCAACTATGGTCTTACTCA-TTT--GAATCAT
1 GATGCCATAGTGTCTTTCAACCATGGTCTTATTCACTTTCCG-AT-AT
* * *
21247309 GATGCCATAGCGTCTTTCAGCTATGGTCTTA
1 GATGCCATAGTGTCTTTCAACCATGGTCTTA
21247340 CTTGTCTAAA
Statistics
Matches: 310, Mismatches: 35, Indels: 10
0.87 0.10 0.03
Matches are distributed among these distances:
43 1 0.00
44 2 0.01
45 144 0.46
46 163 0.53
ACGTcount: A:0.22, C:0.21, G:0.16, T:0.41
Consensus pattern (46 bp):
GATGCCATAGTGTCTTTCAACCATGGTCTTATTCACTTTCCGATAT
Found at i:21247100 original size:91 final size:91
Alignment explanation
Indices: 21246945--21247339 Score: 476
Period size: 91 Copynumber: 4.3 Consensus size: 91
21246935 ATGATTGAAG
* * ** * *
21246945 GATGCCATGGTGTCTTTCAACCATGGTCTTATTTATACTCGGCT-TGATGCCATAATGTCTTTCA
1 GATGCCATAGTGTCTTTCAACCATGGTCTTATTCATTTTC-GATATGATGCCATAGTGTCTTTCA
*
21247009 ACCATGGTCTTATTCACTTTCCGGTAT
65 ACCATGGTCTTATTCACTTTCCGATAT
21247036 GATGCCATAGTGTCTTTCAACCATGGTCTTATTCACTTTTCGATATGATGCCATAGTGT-TTTCA
1 GATGCCATAGTGTCTTTCAACCATGGTCTTATTCA-TTTTCGATATGATGCCATAGTGTCTTTCA
* * *
21247100 ACCATAGTATTATTCACTTTTCGATAT
65 ACCATGGTCTTATTCACTTTCCGATAT
* * *
21247127 GATGCCATAGTGTCTTTCAACCATGGTCTTATTCACTTTCCAATATGATGCCATAGTGTCATTCA
1 GATGCCATAGTGTCTTTCAACCATGGTCTTATTCA-TTTTCGATATGATGCCATAGTGTCTTTCA
**
21247192 ACCATGGTCTTATTCACTTTCTAATAT
65 ACCATGGTCTTATTCACTTTCCGATAT
* * *** *
21247219 GATGCCATAGTGTCTTTCAACTATGGTCTTATTCATTTTCGATAGGATGTTGTCGTGTCTTTCAA
1 GATGCCATAGTGTCTTTCAACCATGGTCTTATTCATTTTCGATATGATGCCATAGTGTCTTTCAA
* *
21247284 CTATGGTCTTACTCA-TTT--GAATCAT
66 CCATGGTCTTATTCACTTTCCG-AT-AT
* * *
21247309 GATGCCATAGCGTCTTTCAGCTATGGTCTTA
1 GATGCCATAGTGTCTTTCAACCATGGTCTTA
21247340 CTTGTCTAAA
Statistics
Matches: 267, Mismatches: 32, Indels: 11
0.86 0.10 0.04
Matches are distributed among these distances:
89 2 0.01
90 34 0.13
91 155 0.58
92 76 0.28
ACGTcount: A:0.22, C:0.21, G:0.16, T:0.41
Consensus pattern (91 bp):
GATGCCATAGTGTCTTTCAACCATGGTCTTATTCATTTTCGATATGATGCCATAGTGTCTTTCAA
CCATGGTCTTATTCACTTTCCGATAT
Found at i:21247192 original size:137 final size:137
Alignment explanation
Indices: 21246945--21247339 Score: 485
Period size: 137 Copynumber: 2.9 Consensus size: 137
21246935 ATGATTGAAG
* * * * ** * *
21246945 GATGCCATGGTGTCTTTCAACCATGGTCTTATTTATACTCGGCT-TGATGCCATAATGTCTTTCA
1 GATGCCATAGTGTCTTTCAACCATAGTATTATTCATTTTC-GATATGATGCCATAGTGTCTTTCA
**
21247009 ACCATGGTCTTATTCACTTTCCGGTATGATGCCATAGTGTCTTTCAACCATGGTCTTATTCACTT
65 ACCATGGTCTTATTCACTTTCCAATATGATGCCATAGTGTCTTTCAACCATGGTCTTATTCACTT
*
21247074 T-TCGATAT
130 TCT-AATAT
21247082 GATGCCATAGTGT-TTTCAACCATAGTATTATTCACTTTTCGATATGATGCCATAGTGTCTTTCA
1 GATGCCATAGTGTCTTTCAACCATAGTATTATTCA-TTTTCGATATGATGCCATAGTGTCTTTCA
*
21247146 ACCATGGTCTTATTCACTTTCCAATATGATGCCATAGTGTCATTCAACCATGGTCTTATTCACTT
65 ACCATGGTCTTATTCACTTTCCAATATGATGCCATAGTGTCTTTCAACCATGGTCTTATTCACTT
21247211 TCTAATAT
130 TCTAATAT
* * * * *** *
21247219 GATGCCATAGTGTCTTTCAACTATGGTCTTATTCATTTTCGATAGGATGTTGTCGTGTCTTTCAA
1 GATGCCATAGTGTCTTTCAACCATAGTATTATTCATTTTCGATATGATGCCATAGTGTCTTTCAA
* * * * * *
21247284 CTATGGTCTTACTCA-TTT-GAATCATGATGCCATAGCGTCTTTCAGCTATGGTCTTA
66 CCATGGTCTTATTCACTTTCCAAT-ATGATGCCATAGTGTCTTTCAACCATGGTCTTA
21247340 CTTGTCTAAA
Statistics
Matches: 226, Mismatches: 27, Indels: 11
0.86 0.10 0.04
Matches are distributed among these distances:
135 3 0.01
136 52 0.23
137 152 0.67
138 19 0.08
ACGTcount: A:0.22, C:0.21, G:0.16, T:0.41
Consensus pattern (137 bp):
GATGCCATAGTGTCTTTCAACCATAGTATTATTCATTTTCGATATGATGCCATAGTGTCTTTCAA
CCATGGTCTTATTCACTTTCCAATATGATGCCATAGTGTCTTTCAACCATGGTCTTATTCACTTT
CTAATAT
Found at i:21247243 original size:24 final size:24
Alignment explanation
Indices: 21247124--21247243 Score: 63
Period size: 24 Copynumber: 5.2 Consensus size: 24
21247114 CACTTTTCGA
21247124 TATGATGCCATAGTGTCTTTCAAC
1 TATGATGCCATAGTGTCTTTCAAC
* * * * **
21247148 CATG--GTCTTATTCACTTTCCAA-
1 TATGATGCCATAGTGTCTTT-CAAC
*
21247170 TATGATGCCATAGTGTCATTCAAC
1 TATGATGCCATAGTGTCTTTCAAC
* * * * **
21247194 CATG--GTCTTATTCACTTTCTAA-
1 TATGATGCCATAGTGTCTTTC-AAC
21247216 TATGATGCCATAGTGTCTTTCAAC
1 TATGATGCCATAGTGTCTTTCAAC
21247240 TATG
1 TATG
21247244 GTCTTATTCA
Statistics
Matches: 62, Mismatches: 26, Indels: 16
0.60 0.25 0.15
Matches are distributed among these distances:
22 24 0.39
23 10 0.16
24 28 0.45
ACGTcount: A:0.25, C:0.22, G:0.14, T:0.39
Consensus pattern (24 bp):
TATGATGCCATAGTGTCTTTCAAC
Found at i:21247356 original size:45 final size:45
Alignment explanation
Indices: 21247275--21247391 Score: 162
Period size: 45 Copynumber: 2.6 Consensus size: 45
21247265 ATGTTGTCGT
* * * * *
21247275 GTCTTTCAACTATGGTCTTACTCATTTGAATCATGATGCCATAGC
1 GTCTTTCAGCTATGGTCTTACTCGTCTAAATAATGATGCCATAGC
* *
21247320 GTCTTTCAGCTATGGTCTTACTTGTCTAAATAATGATGTCATAGC
1 GTCTTTCAGCTATGGTCTTACTCGTCTAAATAATGATGCCATAGC
*
21247365 TTCTTTCAGCTATGGTCTTACTCGTCT
1 GTCTTTCAGCTATGGTCTTACTCGTCT
21247392 TCATCCTGAT
Statistics
Matches: 63, Mismatches: 9, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
45 63 1.00
ACGTcount: A:0.21, C:0.21, G:0.16, T:0.41
Consensus pattern (45 bp):
GTCTTTCAGCTATGGTCTTACTCGTCTAAATAATGATGCCATAGC
Found at i:21247358 original size:90 final size:90
Alignment explanation
Indices: 21246990--21247387 Score: 326
Period size: 91 Copynumber: 4.4 Consensus size: 90
21246980 TACTCGGCTT
* * * * * *
21246990 GATGCCATAATGTCTTTCAACCATGGTCTTATTCACTTTCCG-GTATGATGCCATAGTGTCTTTC
1 GATGTCATAGTGTCTTTCAACTATGGTCTTACTCACTTT-CGAATATGATGCCATAGCGTCTTTC
* ** *
21247054 AACCATGGTCTTATTCACTTTTCGATAT
65 AACTATGGTCTTA-TCA-TTTTAAATAG
* * * * * *
21247082 GATGCCATAGTGT-TTTCAACCATAGTATTATTCACTTTTCG-ATATGATGCCATAGTGTCTTTC
1 GATGTCATAGTGTCTTTCAACTATGGTCTTACTCAC-TTTCGAATATGATGCCATAGCGTCTTTC
* ** *
21247145 AACCATGGTCTTATTCACTTTCCAATAT
65 AACTATGGTCTTA-TCA-TTTTAAATAG
* * * * * *
21247173 GATGCCATAGTGTCATTCAACCATGGTCTTATTCACTTTCTAATATGATGCCATAGTGTCTTTCA
1 GATGTCATAGTGTCTTTCAACTATGGTCTTACTCACTTTCGAATATGATGCCATAGCGTCTTTCA
**
21247238 ACTATGGTCTTATTCATTTTCGATAG
66 ACTATGGTCTTA-TCATTTTAAATAG
** *
21247264 GATGTTGTCGTGTCTTTCAACTATGGTCTTACTCA-TTT-GAATCATGATGCCATAGCGTCTTTC
1 GATGTCATAGTGTCTTTCAACTATGGTCTTACTCACTTTCGAAT-ATGATGCCATAGCGTCTTTC
* *
21247327 AGCTATGGTCTTA-C-TTGTCTAAATAAT
65 AACTATGGTCTTATCATT-T-TAAAT-AG
*
21247354 GATGTCATAGCT-TCTTTCAGCTATGGTCTTACTC
1 GATGTCATAG-TGTCTTTCAACTATGGTCTTACTC
21247388 GTCTTCATCC
Statistics
Matches: 267, Mismatches: 31, Indels: 18
0.84 0.10 0.06
Matches are distributed among these distances:
87 2 0.01
88 2 0.01
89 6 0.02
90 63 0.24
91 122 0.46
92 72 0.27
ACGTcount: A:0.23, C:0.21, G:0.16, T:0.41
Consensus pattern (90 bp):
GATGTCATAGTGTCTTTCAACTATGGTCTTACTCACTTTCGAATATGATGCCATAGCGTCTTTCA
ACTATGGTCTTATCATTTTAAATAG
Found at i:21247402 original size:45 final size:45
Alignment explanation
Indices: 21247125--21247402 Score: 161
Period size: 45 Copynumber: 6.1 Consensus size: 45
21247115 ACTTTTCGAT
* * * * *
21247125 ATGATGCCATAGTGTCTTTCAACCATGGTCTTATTC-ACTTTCCAAT-
1 ATGATGCCATAGCGTCTTTCAGCTATGGTCTTACTCGTC-TT--AATC
* * * * * * *
21247171 ATGATGCCATAGTGTCATTCAACCATGGTCTTATTCACTTTCTAAT-
1 ATGATGCCATAGCGTCTTTCAGCTATGGTCTTACTC-GTCT-TAATC
* * * * * *
21247217 ATGATGCCATAGTGTCTTTCAACTATGGTCTTATTCATTTTCGAT-
1 ATGATGCCATAGCGTCTTTCAGCTATGGTCTTACTCGTCTT-AATC
* *** * * * *
21247262 AGGATGTTGTCGTGTCTTTCAACTATGGTCTTACTCAT-TTGAATC
1 ATGATGCCATAGCGTCTTTCAGCTATGGTCTTACTCGTCTT-AATC
* * *
21247307 ATGATGCCATAGCGTCTTTCAGCTATGGTCTTACTTGTCTAAATA
1 ATGATGCCATAGCGTCTTTCAGCTATGGTCTTACTCGTCTTAATC
* * *
21247352 ATGATGTCATAGCTTCTTTCAGCTATGGTCTTACTCGTCTTCATC
1 ATGATGCCATAGCGTCTTTCAGCTATGGTCTTACTCGTCTTAATC
*
21247397 CTGATG
1 ATGATG
21247403 AACCTACTCA
Statistics
Matches: 193, Mismatches: 33, Indels: 13
0.81 0.14 0.05
Matches are distributed among these distances:
44 5 0.03
45 113 0.59
46 73 0.38
47 1 0.01
48 1 0.01
ACGTcount: A:0.22, C:0.21, G:0.16, T:0.41
Consensus pattern (45 bp):
ATGATGCCATAGCGTCTTTCAGCTATGGTCTTACTCGTCTTAATC
Found at i:21253574 original size:44 final size:44
Alignment explanation
Indices: 21253525--21253620 Score: 147
Period size: 44 Copynumber: 2.2 Consensus size: 44
21253515 ATGTATATTG
* *
21253525 GTAGTGAATCTGACAAATTCAAGTATATGATGATTGGTGTCTGA
1 GTAGTGAATATGACAAATTCAAGTATATGATGATTGGTGTATGA
* *
21253569 GTAGTGAATATGATAAATTCAAGTATGTGATGATTGGTGTATGA
1 GTAGTGAATATGACAAATTCAAGTATATGATGATTGGTGTATGA
*
21253613 GTACTGAA
1 GTAGTGAA
21253621 ACGATGAATT
Statistics
Matches: 47, Mismatches: 5, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
44 47 1.00
ACGTcount: A:0.33, C:0.06, G:0.26, T:0.34
Consensus pattern (44 bp):
GTAGTGAATATGACAAATTCAAGTATATGATGATTGGTGTATGA
Found at i:21258986 original size:18 final size:18
Alignment explanation
Indices: 21258963--21259006 Score: 70
Period size: 18 Copynumber: 2.4 Consensus size: 18
21258953 CTCTTGAACT
21258963 AATAATGTTTACATTAGG
1 AATAATGTTTACATTAGG
*
21258981 AATAATGTTTCCATTAGG
1 AATAATGTTTACATTAGG
*
21258999 AATGATGT
1 AATAATGT
21259007 AGGGAAGTGT
Statistics
Matches: 24, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
18 24 1.00
ACGTcount: A:0.36, C:0.07, G:0.18, T:0.39
Consensus pattern (18 bp):
AATAATGTTTACATTAGG
Found at i:21260530 original size:15 final size:15
Alignment explanation
Indices: 21260500--21260538 Score: 55
Period size: 15 Copynumber: 2.7 Consensus size: 15
21260490 AAATCCTAAT
21260500 AAATACTAAT--AAA
1 AAATACTAATAGAAA
*
21260513 AAATCCTAATAGAAA
1 AAATACTAATAGAAA
21260528 AAATACTAATA
1 AAATACTAATA
21260539 TAATTAAACG
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
13 9 0.41
15 13 0.59
ACGTcount: A:0.64, C:0.10, G:0.03, T:0.23
Consensus pattern (15 bp):
AAATACTAATAGAAA
Found at i:21270634 original size:3 final size:3
Alignment explanation
Indices: 21270626--21270653 Score: 56
Period size: 3 Copynumber: 9.3 Consensus size: 3
21270616 CTTGAATTCA
21270626 AAT AAT AAT AAT AAT AAT AAT AAT AAT A
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT A
21270654 CTCCTCTGAT
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 25 1.00
ACGTcount: A:0.68, C:0.00, G:0.00, T:0.32
Consensus pattern (3 bp):
AAT
Found at i:21272880 original size:19 final size:20
Alignment explanation
Indices: 21272842--21272881 Score: 71
Period size: 20 Copynumber: 2.0 Consensus size: 20
21272832 TTTTAAAAAA
*
21272842 AAAGAAAGAACTATTTTTTT
1 AAAGAAAAAACTATTTTTTT
21272862 AAAGAAAAAACTATTTTTTT
1 AAAGAAAAAACTATTTTTTT
21272882 GGATTATTTA
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
20 19 1.00
ACGTcount: A:0.47, C:0.05, G:0.07, T:0.40
Consensus pattern (20 bp):
AAAGAAAAAACTATTTTTTT
Found at i:21273489 original size:103 final size:104
Alignment explanation
Indices: 21273336--21273637 Score: 421
Period size: 107 Copynumber: 2.9 Consensus size: 104
21273326 CAAAACAAGA
*
21273336 TAATATTTTGCGTTTTGAAAATCGAGAAAACGTGCCCTAA-AGTGCTGGGTTTCGATTTCTCGTT
1 TAATATTTTGCGTTTGGAAAATCGAGAAAACGTGCCCTAACA-TGCTGGGTTTCGATTTCTCGTT
*
21273400 TGACCAAATAAGCCAAATATCCTTTTAAAATTTC-A-AAGG
65 CGACCAAAT-AGCCAAATATCCTTTTAAAATTTCAAGAAGG
* * * *
21273439 TAATATTTTGCGTTTGGAAAATCGAGAGAATGTGCCCTAACATGCTGGGTTTCGATTTCTCATAC
1 TAATATTTTGCGTTTGGAAAATCGAGAAAACGTGCCCTAACATGCTGGGTTTCGATTTCTCGTTC
* * *
21273504 GACCAAATAGCCGAATATCATTTTTAAACTTTCAAAGTAAGG
66 GACCAAATAGCCAAATATC-CTTTTAAAATTTC-AAG-AAGG
* * * *
21273546 CAATATTTTACGTTTGGAAAATCGAGAAAACATGCCCTAACGTGCTGGGTTTCGATTTCTCGTTC
1 TAATATTTTGCGTTTGGAAAATCGAGAAAACGTGCCCTAACATGCTGGGTTTCGATTTCTCGTTC
21273611 GACCAAATAGCCAAATATCCTTTTAAA
66 GACCAAATAGCCAAATATCCTTTTAAA
21273638 TCTAAATCCA
Statistics
Matches: 174, Mismatches: 19, Indels: 9
0.86 0.09 0.04
Matches are distributed among these distances:
102 10 0.06
103 76 0.44
104 1 0.01
105 1 0.01
106 7 0.04
107 79 0.45
ACGTcount: A:0.32, C:0.18, G:0.18, T:0.33
Consensus pattern (104 bp):
TAATATTTTGCGTTTGGAAAATCGAGAAAACGTGCCCTAACATGCTGGGTTTCGATTTCTCGTTC
GACCAAATAGCCAAATATCCTTTTAAAATTTCAAGAAGG
Found at i:21285313 original size:40 final size:41
Alignment explanation
Indices: 21285267--21285506 Score: 265
Period size: 40 Copynumber: 5.8 Consensus size: 41
21285257 AAGATAGTAT
21285267 ATCTTATCTCCCTAAGCAGTAGTGGAGCAGATCACATCAAG
1 ATCTTATCTCCCTAAGCAGTAGTGGAGCAGATCACATCAAG
* * * * *
21285308 -TCTTATCTCCCTAAGCAGCAGTGGAGCAGATGAAAGAAACCAG
1 ATCTTATCTCCCTAAGCAGTAGTGGAGCAGAT--CA-CATCAAG
*
21285351 ATCCTATCTCCCTAAGCAGTAGTGGAGC-GAATCACATCAAG
1 ATCTTATCTCCCTAAGCAGTAGTGGAGCAG-ATCACATCAAG
* * * *
21285392 -TCTTATCTCCCTAAGCAGTAGTGGAGCAAACGA-AAGAAACTAG
1 ATCTTATCTCCCTAAGCAGTAGTGGAGC--A-GATCA-CATCAAG
* *
21285435 ATCTTATCTACCTAAGCAGTAGTGGAGCAAATCACATC-AG
1 ATCTTATCTCCCTAAGCAGTAGTGGAGCAGATCACATCAAG
21285475 ATCTTATCTCCCTAAGCAGTAGTGGAGCAGAT
1 ATCTTATCTCCCTAAGCAGTAGTGGAGCAGAT
21285507 GAAAAAAAAA
Statistics
Matches: 164, Mismatches: 23, Indels: 25
0.77 0.11 0.12
Matches are distributed among these distances:
40 88 0.54
41 7 0.04
42 5 0.03
43 10 0.06
44 54 0.33
ACGTcount: A:0.33, C:0.23, G:0.20, T:0.23
Consensus pattern (41 bp):
ATCTTATCTCCCTAAGCAGTAGTGGAGCAGATCACATCAAG
Found at i:21285374 original size:84 final size:84
Alignment explanation
Indices: 21285271--21285510 Score: 385
Period size: 84 Copynumber: 2.9 Consensus size: 84
21285261 TAGTATATCT
*
21285271 TATCTCCCTAAGCAGTAGTGGAGCAGATCACATCAAGTCTTATCTCCCTAAGCAGCAGTGGAGCA
1 TATCTCCCTAAGCAGTAGTGGAGCAGATCACATCAAGTCTTATCTCCCTAAGCAGTAGTGGAGCA
21285336 GATGAAAGAAACCAGATCC
66 GATGAAAGAAACCAGATCC
21285355 TATCTCCCTAAGCAGTAGTGGAGC-GAATCACATCAAGTCTTATCTCCCTAAGCAGTAGTGGAGC
1 TATCTCCCTAAGCAGTAGTGGAGCAG-ATCACATCAAGTCTTATCTCCCTAAGCAGTAGTGGAGC
* * * *
21285419 AAACGAAAGAAACTAGATCT
65 AGATGAAAGAAACCAGATCC
* *
21285439 TATCTACCTAAGCAGTAGTGGAGCAAATCACATC-AGATCTTATCTCCCTAAGCAGTAGTGGAGC
1 TATCTCCCTAAGCAGTAGTGGAGCAGATCACATCAAG-TCTTATCTCCCTAAGCAGTAGTGGAGC
21285503 AGATGAAA
65 AGATGAAA
21285511 AAAAAACAAT
Statistics
Matches: 144, Mismatches: 9, Indels: 6
0.91 0.06 0.04
Matches are distributed among these distances:
83 3 0.02
84 141 0.98
ACGTcount: A:0.34, C:0.23, G:0.21, T:0.22
Consensus pattern (84 bp):
TATCTCCCTAAGCAGTAGTGGAGCAGATCACATCAAGTCTTATCTCCCTAAGCAGTAGTGGAGCA
GATGAAAGAAACCAGATCC
Found at i:21287732 original size:107 final size:107
Alignment explanation
Indices: 21287534--21287834 Score: 487
Period size: 107 Copynumber: 2.8 Consensus size: 107
21287524 TCAAAACAAA
* *
21287534 GCAATATTTTGCGTTTAGAAAATCGAGAAAATGTGCCCTAACGTGCTGGGTTTCGATTTCTCGTT
1 GCAATATTTTGCGTTTGGAAAATCGAGAAAACGTGCCCTAACGTGCTGGGTTTCGATTTCTCGTT
* *
21287599 TGACCAAATAAGCCAAATATCC-TTTTAAAATTTGAAAGTAAG
66 CGACCAAAT-AGCCAAATATCCTTTTTAAAATTTCAAAGTAAG
* * * * *
21287641 GTAATATTTTGCGTTTGGAAAATCAAGAGAACGTGCCCTAACGTGCTGGGTTTCAATTTCTCGTA
1 GCAATATTTTGCGTTTGGAAAATCGAGAAAACGTGCCCTAACGTGCTGGGTTTCGATTTCTCGTT
*
21287706 CGACCAAATAGCCAAATATCCTTTTTAAACTTTCAAAGTAAG
66 CGACCAAATAGCCAAATATCCTTTTTAAAATTTCAAAGTAAG
*
21287748 GCAATATTTTGCGTTTGGAAAATCGAGAAAACATGCCCTAACGTGCTGGGTTTCGATTTCTCGTT
1 GCAATATTTTGCGTTTGGAAAATCGAGAAAACGTGCCCTAACGTGCTGGGTTTCGATTTCTCGTT
21287813 CGACCAAATAGCCAAATATCCT
66 CGACCAAATAGCCAAATATCCT
21287835 CTTAAATCTA
Statistics
Matches: 177, Mismatches: 16, Indels: 2
0.91 0.08 0.01
Matches are distributed among these distances:
106 12 0.07
107 165 0.93
ACGTcount: A:0.31, C:0.19, G:0.19, T:0.32
Consensus pattern (107 bp):
GCAATATTTTGCGTTTGGAAAATCGAGAAAACGTGCCCTAACGTGCTGGGTTTCGATTTCTCGTT
CGACCAAATAGCCAAATATCCTTTTTAAAATTTCAAAGTAAG
Found at i:21288299 original size:81 final size:81
Alignment explanation
Indices: 21288164--21288326 Score: 326
Period size: 81 Copynumber: 2.0 Consensus size: 81
21288154 CGACCCCGTT
21288164 TTCATCAAAAAATGGTGTCAACACCACCAACTTAAGCCATTTGCAATTCCTTTTTCAAATTCCCT
1 TTCATCAAAAAATGGTGTCAACACCACCAACTTAAGCCATTTGCAATTCCTTTTTCAAATTCCCT
21288229 TTTCATTTCCAGTAGC
66 TTTCATTTCCAGTAGC
21288245 TTCATCAAAAAATGGTGTCAACACCACCAACTTAAGCCATTTGCAATTCCTTTTTCAAATTCCCT
1 TTCATCAAAAAATGGTGTCAACACCACCAACTTAAGCCATTTGCAATTCCTTTTTCAAATTCCCT
21288310 TTTCATTTCCAGTAGC
66 TTTCATTTCCAGTAGC
21288326 T
1 T
21288327 AACCATCCGT
Statistics
Matches: 82, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
81 82 1.00
ACGTcount: A:0.29, C:0.27, G:0.09, T:0.35
Consensus pattern (81 bp):
TTCATCAAAAAATGGTGTCAACACCACCAACTTAAGCCATTTGCAATTCCTTTTTCAAATTCCCT
TTTCATTTCCAGTAGC
Found at i:21294541 original size:49 final size:49
Alignment explanation
Indices: 21294426--21294547 Score: 140
Period size: 49 Copynumber: 2.5 Consensus size: 49
21294416 ACTCAGTATA
* * *
21294426 CAGATACGATGGACCACTAGTAGGGCATGTTTGTTGCTAACTAAAATGG
1 CAGATAAGATGGACCACTAGTAGGGCATGCTAGTTGCTAACTAAAATGG
** *
21294475 CAGATGTGATGGACCACTAGTAGGGCATGCTAGTTGCTAAC-CAAATGG
1 CAGATAAGATGGACCACTAGTAGGGCATGCTAGTTGCTAACTAAAATGG
* *
21294523 GAGAATAAGAT-GAGCCACTAATAGG
1 CAG-ATAAGATGGA-CCACTAGTAGG
21294548 TCATTTTAAT
Statistics
Matches: 62, Mismatches: 9, Indels: 4
0.83 0.12 0.05
Matches are distributed among these distances:
48 10 0.16
49 52 0.84
ACGTcount: A:0.33, C:0.16, G:0.28, T:0.23
Consensus pattern (49 bp):
CAGATAAGATGGACCACTAGTAGGGCATGCTAGTTGCTAACTAAAATGG
Found at i:21300859 original size:42 final size:42
Alignment explanation
Indices: 21300800--21300879 Score: 142
Period size: 42 Copynumber: 1.9 Consensus size: 42
21300790 GTATCAACTG
21300800 TTGGAACAACTTCTGTAGCCATGGCCCCCCCAAAAAAAATTT
1 TTGGAACAACTTCTGTAGCCATGGCCCCCCCAAAAAAAATTT
* *
21300842 TTGGAACAACTTCTGTAGTCATGGCCCCCCCCAAAAAA
1 TTGGAACAACTTCTGTAGCCATGGCCCCCCCAAAAAAA
21300880 TTTACACCAA
Statistics
Matches: 36, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
42 36 1.00
ACGTcount: A:0.33, C:0.30, G:0.15, T:0.23
Consensus pattern (42 bp):
TTGGAACAACTTCTGTAGCCATGGCCCCCCCAAAAAAAATTT
Found at i:21302456 original size:21 final size:21
Alignment explanation
Indices: 21302431--21302471 Score: 64
Period size: 21 Copynumber: 2.0 Consensus size: 21
21302421 GTGAAATGAC
*
21302431 AACAAAACAGTGGAAAACAAT
1 AACAAAACAGTGAAAAACAAT
*
21302452 AACAAAATAGTGAAAAACAA
1 AACAAAACAGTGAAAAACAA
21302472 CAAATTTTTT
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
21 18 1.00
ACGTcount: A:0.66, C:0.12, G:0.12, T:0.10
Consensus pattern (21 bp):
AACAAAACAGTGAAAAACAAT
Found at i:21305647 original size:2 final size:2
Alignment explanation
Indices: 21305640--21305676 Score: 74
Period size: 2 Copynumber: 18.5 Consensus size: 2
21305630 AATAGTAATT
21305640 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
21305677 TATCTTTTAT
Statistics
Matches: 35, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 35 1.00
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (2 bp):
TA
Found at i:21307784 original size:23 final size:23
Alignment explanation
Indices: 21307753--21307839 Score: 129
Period size: 23 Copynumber: 3.8 Consensus size: 23
21307743 TCGGTTTTGG
* *
21307753 TTTGTTACGAAAGGGTAATGTGA
1 TTTGGTACGAAATGGTAATGTGA
* **
21307776 TTTGGTACGAAATGGTATTACGA
1 TTTGGTACGAAATGGTAATGTGA
21307799 TTTGGTACGAAATGGTAATGTGA
1 TTTGGTACGAAATGGTAATGTGA
21307822 TTTGGTACGAAATGGTAA
1 TTTGGTACGAAATGGTAA
21307840 AGGTTCAAAA
Statistics
Matches: 56, Mismatches: 8, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
23 56 1.00
ACGTcount: A:0.31, C:0.06, G:0.29, T:0.34
Consensus pattern (23 bp):
TTTGGTACGAAATGGTAATGTGA
Found at i:21312059 original size:19 final size:19
Alignment explanation
Indices: 21312035--21312079 Score: 56
Period size: 19 Copynumber: 2.3 Consensus size: 19
21312025 TTTTTCATTC
21312035 TCTTTTTTCGAATTTTC-TT
1 TCTTTTTTC-AATTTTCTTT
*
21312054 TCTTTTTTTCATTTTTCTTT
1 TC-TTTTTTCAATTTTCTTT
21312074 TCTTTT
1 TCTTTT
21312080 GTATTTTCTC
Statistics
Matches: 23, Mismatches: 1, Indels: 4
0.82 0.04 0.14
Matches are distributed among these distances:
19 12 0.52
20 11 0.48
ACGTcount: A:0.07, C:0.16, G:0.02, T:0.76
Consensus pattern (19 bp):
TCTTTTTTCAATTTTCTTT
Found at i:21312062 original size:20 final size:19
Alignment explanation
Indices: 21312026--21312079 Score: 63
Period size: 20 Copynumber: 2.7 Consensus size: 19
21312016 TCTCACTTTT
*
21312026 TTTTCATTCTCTTTTTTCGAA
1 TTTTCTTTCT-TTTTTTC-AA
*
21312047 TTTTCTTTCTTTTTTTCAT
1 TTTTCTTTCTTTTTTTCAA
21312066 TTTTCTTTTCTTTT
1 TTTTC-TTTCTTTT
21312080 GTATTTTCTC
Statistics
Matches: 30, Mismatches: 2, Indels: 3
0.86 0.06 0.09
Matches are distributed among these distances:
19 6 0.20
20 15 0.50
21 9 0.30
ACGTcount: A:0.07, C:0.17, G:0.02, T:0.74
Consensus pattern (19 bp):
TTTTCTTTCTTTTTTTCAA
Found at i:21314534 original size:23 final size:23
Alignment explanation
Indices: 21314503--21314589 Score: 120
Period size: 23 Copynumber: 3.8 Consensus size: 23
21314493 TCGGTTTTGG
* *
21314503 TTTGTTACGAAAGGGTAATGTGA
1 TTTGGTACGAAATGGTAATGTGA
* **
21314526 TTTGGTACGAAATGGTATTACGA
1 TTTGGTACGAAATGGTAATGTGA
*
21314549 TTTGGTACAAAATGGTAATGTGA
1 TTTGGTACGAAATGGTAATGTGA
21314572 TTTGGTACGAAATGGTAA
1 TTTGGTACGAAATGGTAA
21314590 AGGTTCAAAA
Statistics
Matches: 54, Mismatches: 10, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
23 54 1.00
ACGTcount: A:0.32, C:0.06, G:0.28, T:0.34
Consensus pattern (23 bp):
TTTGGTACGAAATGGTAATGTGA
Found at i:21316778 original size:18 final size:18
Alignment explanation
Indices: 21316702--21316780 Score: 67
Period size: 18 Copynumber: 4.5 Consensus size: 18
21316692 ATAAAAAATT
21316702 TAAAATAT-AATATTATA
1 TAAAATATAAATATTATA
*
21316719 TATAAA-ATAAATTTTA-A
1 TA-AAATATAAATATTATA
* * *
21316736 GTAAAAAATAATTA-CATA
1 -TAAAATATAAATATTATA
*
21316754 CAAAATATAAATATTATA
1 TAAAATATAAATATTATA
21316772 TAAAATATA
1 TAAAATATA
21316781 TTATAAGAGT
Statistics
Matches: 47, Mismatches: 9, Indels: 11
0.70 0.13 0.16
Matches are distributed among these distances:
17 19 0.40
18 28 0.60
ACGTcount: A:0.61, C:0.03, G:0.01, T:0.35
Consensus pattern (18 bp):
TAAAATATAAATATTATA
Found at i:21318650 original size:59 final size:60
Alignment explanation
Indices: 21318530--21318660 Score: 142
Period size: 59 Copynumber: 2.2 Consensus size: 60
21318520 TTATTGGTAT
* * * *
21318530 AATAATAAATTTAACCCTCAAATGTTTACAAATTTTCTCAATTTAGTTCTAATTCTAAAA
1 AATAATAAATTTAACCCTCAAATCTTTACAAATTCTATCAATTTAGTTCTAATCCTAAAA
* * * *
21318590 AATTAATAAATTTAGCCCTC-AA-CTTTACACATTCTATCAATTTAG-TCTTGATCCTTAAA
1 AA-TAATAAATTTAACCCTCAAATCTTTACAAATTCTATCAATTTAGTTC-TAATCCTAAAA
*
21318649 AATAAAAAATTT
1 AATAATAAATTT
21318661 TAAAAAATTA
Statistics
Matches: 60, Mismatches: 9, Indels: 6
0.80 0.12 0.08
Matches are distributed among these distances:
58 11 0.18
59 29 0.48
60 4 0.07
61 16 0.27
ACGTcount: A:0.41, C:0.16, G:0.04, T:0.39
Consensus pattern (60 bp):
AATAATAAATTTAACCCTCAAATCTTTACAAATTCTATCAATTTAGTTCTAATCCTAAAA
Found at i:21318745 original size:19 final size:19
Alignment explanation
Indices: 21318690--21318736 Score: 67
Period size: 19 Copynumber: 2.5 Consensus size: 19
21318680 TCATTTTTCA
* * *
21318690 ATAAAATTACATAAGATTT
1 ATAAAAATACATAAAAATT
21318709 ATAAAAATACATAAAAATT
1 ATAAAAATACATAAAAATT
21318728 ATAAAAATA
1 ATAAAAATA
21318737 TTTATAAATA
Statistics
Matches: 25, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
19 25 1.00
ACGTcount: A:0.64, C:0.04, G:0.02, T:0.30
Consensus pattern (19 bp):
ATAAAAATACATAAAAATT
Found at i:21325111 original size:39 final size:39
Alignment explanation
Indices: 21325057--21325155 Score: 144
Period size: 39 Copynumber: 2.5 Consensus size: 39
21325047 ATGTTTTTGA
*
21325057 GTATTGTGATATATGCTTGAATGTTATGTGATTATATGG
1 GTATTGTGATATATGCTTAAATGTTATGTGATTATATGG
* *
21325096 GTATTGTGATATATGCTTAAATGTTATGTGATTGTATGT
1 GTATTGTGATATATGCTTAAATGTTATGTGATTATATGG
* **
21325135 GTAATGTGATGCATGCTTAAA
1 GTATTGTGATATATGCTTAAA
21325156 AGTGAATATG
Statistics
Matches: 54, Mismatches: 6, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
39 54 1.00
ACGTcount: A:0.27, C:0.04, G:0.24, T:0.44
Consensus pattern (39 bp):
GTATTGTGATATATGCTTAAATGTTATGTGATTATATGG
Found at i:21328095 original size:42 final size:42
Alignment explanation
Indices: 21328036--21328164 Score: 190
Period size: 42 Copynumber: 3.1 Consensus size: 42
21328026 TTTATGTGAA
*
21328036 AAACGCCGCTATAGAACATGACCTTTAGCGGTGCTTTCCCAC
1 AAACGCCGCTATAGAACATGACCTTTAGCGGCGCTTTCCCAC
**
21328078 AAACGCCGCTATAGAACATGACCTTTAATGGCGCTTTTCCCAC
1 AAACGCCGCTATAGAACATGACCTTTAGCGGCGC-TTTCCCAC
*
21328121 AAAAC-CCGCTAAAGAACATGACCTTTAGCGGCGCTTTCCC-C
1 -AAACGCCGCTATAGAACATGACCTTTAGCGGCGCTTTCCCAC
21328162 AAA
1 AAA
21328165 AATGTCGCTA
Statistics
Matches: 79, Mismatches: 6, Indels: 6
0.87 0.07 0.07
Matches are distributed among these distances:
40 3 0.04
41 1 0.01
42 37 0.47
43 34 0.43
44 4 0.05
ACGTcount: A:0.29, C:0.31, G:0.17, T:0.22
Consensus pattern (42 bp):
AAACGCCGCTATAGAACATGACCTTTAGCGGCGCTTTCCCAC
Found at i:21328131 original size:43 final size:44
Alignment explanation
Indices: 21328035--21328184 Score: 191
Period size: 43 Copynumber: 3.5 Consensus size: 44
21328025 GTTTATGTGA
*
21328035 AAAACGCCGCTATAGAACATGACCTTTAGCGGTGC-TTTCCCAC
1 AAAACGCCGCTATAGAACATGACCTTTAGCGGCGCTTTTCCCAC
**
21328078 -AAACGCCGCTATAGAACATGACCTTTAATGGCGCTTTTCCCAC
1 AAAACGCCGCTATAGAACATGACCTTTAGCGGCGCTTTTCCCAC
* *
21328121 AAAAC-CCGCTAAAGAACATGACCTTTAGCGGCGCTTTCCCCA-
1 AAAACGCCGCTATAGAACATGACCTTTAGCGGCGCTTTTCCCAC
* * * *
21328163 AAAATGTCGCTAAAGAATATGA
1 AAAACGCCGCTATAGAACATGA
21328185 TTTTTAGTGG
Statistics
Matches: 94, Mismatches: 10, Indels: 6
0.85 0.09 0.05
Matches are distributed among these distances:
42 35 0.37
43 55 0.59
44 4 0.04
ACGTcount: A:0.32, C:0.28, G:0.17, T:0.23
Consensus pattern (44 bp):
AAAACGCCGCTATAGAACATGACCTTTAGCGGCGCTTTTCCCAC
Found at i:21328586 original size:21 final size:21
Alignment explanation
Indices: 21328543--21328588 Score: 56
Period size: 21 Copynumber: 2.2 Consensus size: 21
21328533 TTTCTGCTTA
* * **
21328543 CCTCTGCTTCTCTCGCTGTTG
1 CCTCTACTTCCCTCGCTACTG
21328564 CCTCTACTTCCCTCGCTACTG
1 CCTCTACTTCCCTCGCTACTG
21328585 CCTC
1 CCTC
21328589 CGCTTTAAGT
Statistics
Matches: 21, Mismatches: 4, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
21 21 1.00
ACGTcount: A:0.04, C:0.46, G:0.13, T:0.37
Consensus pattern (21 bp):
CCTCTACTTCCCTCGCTACTG
Found at i:21336911 original size:6 final size:6
Alignment explanation
Indices: 21336900--21336927 Score: 56
Period size: 6 Copynumber: 4.7 Consensus size: 6
21336890 TTTATGGAAG
21336900 AAAACA AAAACA AAAACA AAAACA AAAA
1 AAAACA AAAACA AAAACA AAAACA AAAA
21336928 ATTTCAAAAT
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:0.86, C:0.14, G:0.00, T:0.00
Consensus pattern (6 bp):
AAAACA
Found at i:21338045 original size:2 final size:2
Alignment explanation
Indices: 21338038--21338065 Score: 56
Period size: 2 Copynumber: 14.0 Consensus size: 2
21338028 NNNNNNNNNN
21338038 AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT
21338066 CTACAATCCT
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 26 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:21338322 original size:11 final size:11
Alignment explanation
Indices: 21338306--21338422 Score: 92
Period size: 11 Copynumber: 11.4 Consensus size: 11
21338296 CAAAAATTAA
21338306 AAAAATATTTT
1 AAAAATATTTT
21338317 AAAAATATTTT
1 AAAAATATTTT
**
21338328 -AAAAT-TAAT
1 AAAAATATTTT
21338337 -AAAA-A-TTT
1 AAAAATATTTT
*
21338345 AAAAAAATTTT
1 AAAAATATTTT
*
21338356 AAAAA-AATTT
1 AAAAATATTTT
21338366 -AAAA-A-TTT
1 AAAAATATTTT
21338374 AAAAA-ATTTT
1 AAAAATATTTT
21338384 AAAAAAGTATTTT
1 -AAAAA-TATTTT
*
21338397 AAAAGTATTTT
1 AAAAATATTTT
*
21338408 AAAAGTATTTT
1 AAAAATATTTT
21338419 AAAA
1 AAAA
21338423 TTAAAAAAAT
Statistics
Matches: 91, Mismatches: 6, Indels: 18
0.79 0.05 0.16
Matches are distributed among these distances:
8 4 0.04
9 20 0.22
10 13 0.14
11 45 0.49
12 4 0.04
13 5 0.05
ACGTcount: A:0.59, C:0.00, G:0.03, T:0.38
Consensus pattern (11 bp):
AAAAATATTTT
Found at i:21338388 original size:28 final size:26
Alignment explanation
Indices: 21338314--21338389 Score: 98
Period size: 28 Copynumber: 2.7 Consensus size: 26
21338304 AAAAAAATAT
*
21338314 TTTAAAAATATTTTAAAATTAATAAAAA
1 TTTAAAAA-ATTTTAAAA-AAATAAAAA
21338342 TTTAAAAAAATTTTAAAAAAATTTAAAAA
1 TTT-AAAAAATTTTAAAAAAA--TAAAAA
21338371 TTTAAAAAATTTTAAAAAA
1 TTTAAAAAATTTTAAAAAA
21338390 GTATTTTAAA
Statistics
Matches: 44, Mismatches: 1, Indels: 6
0.86 0.02 0.12
Matches are distributed among these distances:
27 2 0.05
28 28 0.64
29 14 0.32
ACGTcount: A:0.63, C:0.00, G:0.00, T:0.37
Consensus pattern (26 bp):
TTTAAAAAATTTTAAAAAAATAAAAA
Found at i:21338397 original size:80 final size:80
Alignment explanation
Indices: 21338282--21338442 Score: 209
Period size: 80 Copynumber: 2.0 Consensus size: 80
21338272 AAAAATTTAT
*
21338282 TTTAAAAATTAAAACAAAAATTAAAAAAATATTTTAAAAATATTTTAAAATTA-ATAAAAATTTA
1 TTTAAAAATTAAAACAAAAATTAAAAAAATATTTTAAAAATATTTTAAAAGTATATAAAAA-TTA
*
21338346 AAAAAATTTTAAAAAAA
65 AAAAAA-TTAAAAAAAA
* ** * * * *
21338363 TTTAAAAATTTAAA-AAATTTTAAAAAAGTATTTTAAAAGTATTTTAAAAGTATTTTAAAATTAA
1 TTTAAAAATTAAAACAAAAATTAAAAAAATATTTTAAAAATATTTTAAAAGTATATAAAAATTAA
21338427 AAAAATTAAAAAAAA
66 AAAAATTAAAAAAAA
21338442 T
1 T
21338443 AAAAATATTT
Statistics
Matches: 70, Mismatches: 9, Indels: 4
0.84 0.11 0.05
Matches are distributed among these distances:
79 10 0.14
80 42 0.60
81 18 0.26
ACGTcount: A:0.62, C:0.01, G:0.02, T:0.35
Consensus pattern (80 bp):
TTTAAAAATTAAAACAAAAATTAAAAAAATATTTTAAAAATATTTTAAAAGTATATAAAAATTAA
AAAAATTAAAAAAAA
Found at i:21346887 original size:59 final size:57
Alignment explanation
Indices: 21346824--21346950 Score: 148
Period size: 59 Copynumber: 2.2 Consensus size: 57
21346814 ATAAATGGTG
* * *
21346824 AAATGGAGAAATAGGAAACATTCAGGAAATGATTATGGTATTCTCCAAAATGAAAATGA
1 AAATGGAGAAATAGGAAACATT-AGAAAATAAATATGGTATTCT-CAAAATGAAAATGA
* * * * * *
21346883 AAATGGAGAAAAAGGAATCATTTGAAAATAAATGTGGTTTTCTCAAAATGGAAATGA
1 AAATGGAGAAATAGGAAACATTAGAAAATAAATATGGTATTCTCAAAATGAAAATGA
21346940 AAAT-GAGAAAT
1 AAATGGAGAAAT
21346951 GAATTCATTT
Statistics
Matches: 58, Mismatches: 10, Indels: 3
0.82 0.14 0.04
Matches are distributed among these distances:
56 6 0.10
57 17 0.29
58 15 0.26
59 20 0.34
ACGTcount: A:0.49, C:0.06, G:0.20, T:0.24
Consensus pattern (57 bp):
AAATGGAGAAATAGGAAACATTAGAAAATAAATATGGTATTCTCAAAATGAAAATGA
Found at i:21351014 original size:20 final size:21
Alignment explanation
Indices: 21350978--21351028 Score: 68
Period size: 20 Copynumber: 2.4 Consensus size: 21
21350968 ACTTATGTCT
*
21350978 GAAAACTTAATTTGAAAATTTG
1 GAAAACTT-ATTTGAAAATTTC
*
21351000 GAAAACTTA-TTGAAACTTTC
1 GAAAACTTATTTGAAAATTTC
21351020 GAAAACTTA
1 GAAAACTTA
21351029 GTATTAAATT
Statistics
Matches: 27, Mismatches: 2, Indels: 2
0.87 0.06 0.06
Matches are distributed among these distances:
20 18 0.67
21 1 0.04
22 8 0.30
ACGTcount: A:0.45, C:0.10, G:0.12, T:0.33
Consensus pattern (21 bp):
GAAAACTTATTTGAAAATTTC
Found at i:21351291 original size:34 final size:34
Alignment explanation
Indices: 21351253--21351494 Score: 337
Period size: 34 Copynumber: 7.2 Consensus size: 34
21351243 TCACTTGTCT
* * *
21351253 TTTCTTGCAGGGAATATTTCCTGTTCACGCATCA
1 TTTCTTGCAGGGAATCTCTCCTGTTCACACATCA
* * *
21351287 TTTCTTGCAGGGAATATTTCCTGTTCACGCATCA
1 TTTCTTGCAGGGAATCTCTCCTGTTCACACATCA
* * *
21351321 ATTCTTGCAGGGAATCTTTCCTGTTCGCACATCA
1 TTTCTTGCAGGGAATCTCTCCTGTTCACACATCA
* * *
21351355 TTTCTTGCAAGGAATATCTCCTGTTCGCACATCA
1 TTTCTTGCAGGGAATCTCTCCTGTTCACACATCA
21351389 -TTCTTGCAGGGAATCTCTCCTGTTCACACATCA
1 TTTCTTGCAGGGAATCTCTCCTGTTCACACATCA
21351422 -TTCTTGCAGGGAATCTCTCCTGTTCACACATCA
1 TTTCTTGCAGGGAATCTCTCCTGTTCACACATCA
* *
21351455 -TTCTTGCATGGAATCTCTCCTATTCACACATCA
1 TTTCTTGCAGGGAATCTCTCCTGTTCACACATCA
21351488 TTTCTTG
1 TTTCTTG
21351495 TATCATTTCT
Statistics
Matches: 194, Mismatches: 13, Indels: 2
0.93 0.06 0.01
Matches are distributed among these distances:
33 94 0.48
34 100 0.52
ACGTcount: A:0.21, C:0.27, G:0.15, T:0.37
Consensus pattern (34 bp):
TTTCTTGCAGGGAATCTCTCCTGTTCACACATCA
Found at i:21351458 original size:66 final size:67
Alignment explanation
Indices: 21351254--21351494 Score: 358
Period size: 66 Copynumber: 3.6 Consensus size: 67
21351244 CACTTGTCTT
* * * * *
21351254 TTCTTGCAGGGAATATTTCCTGTTCACGCATCATTTCTTGCAGGGAATATTTCCTGTTCACGCAT
1 TTCTTGCAGGGAATCTCTCCTGTTCACACATCATTTCTTGCAGGGAATATCTCCTGTTCACACAT
21351319 CAA
66 C-A
* * * *
21351322 TTCTTGCAGGGAATCTTTCCTGTTCGCACATCATTTCTTGCAAGGAATATCTCCTGTTCGCACAT
1 TTCTTGCAGGGAATCTCTCCTGTTCACACATCATTTCTTGCAGGGAATATCTCCTGTTCACACAT
21351387 CA
66 CA
*
21351389 TTCTTGCAGGGAATCTCTCCTGTTCACACATCA-TTCTTGCAGGGAATCTCTCCTGTTCACACAT
1 TTCTTGCAGGGAATCTCTCCTGTTCACACATCATTTCTTGCAGGGAATATCTCCTGTTCACACAT
21351453 CA
66 CA
* *
21351455 TTCTTGCATGGAATCTCTCCTATTCACACATCATTTCTTG
1 TTCTTGCAGGGAATCTCTCCTGTTCACACATCATTTCTTG
21351495 TATCATTTCT
Statistics
Matches: 158, Mismatches: 14, Indels: 3
0.90 0.08 0.02
Matches are distributed among these distances:
66 61 0.39
67 38 0.24
68 59 0.37
ACGTcount: A:0.21, C:0.27, G:0.15, T:0.37
Consensus pattern (67 bp):
TTCTTGCAGGGAATCTCTCCTGTTCACACATCATTTCTTGCAGGGAATATCTCCTGTTCACACAT
CA
Found at i:21354374 original size:21 final size:23
Alignment explanation
Indices: 21354350--21354392 Score: 54
Period size: 21 Copynumber: 2.0 Consensus size: 23
21354340 TTAATTTTTT
*
21354350 AAAACATATTT-CTTCT-TTTAG
1 AAAACAGATTTGCTTCTGTTTAG
*
21354371 AAAAGAGATTTGCTTCTGTTTA
1 AAAACAGATTTGCTTCTGTTTA
21354393 TAATTAATTA
Statistics
Matches: 18, Mismatches: 2, Indels: 2
0.82 0.09 0.09
Matches are distributed among these distances:
21 9 0.50
22 5 0.28
23 4 0.22
ACGTcount: A:0.33, C:0.12, G:0.12, T:0.44
Consensus pattern (23 bp):
AAAACAGATTTGCTTCTGTTTAG
Found at i:21362109 original size:90 final size:90
Alignment explanation
Indices: 21361948--21362114 Score: 255
Period size: 90 Copynumber: 1.9 Consensus size: 90
21361938 TTAAAATGTC
* * * *
21361948 AATCCTTCCTTTGTTGTAGGCATGAGAGTTTGGATTCAATCCCAAACAACCCCATTTCCCTCCTT
1 AATCCTTCCTTTGTTGTAGACATGAGAGCTTGGATTCAATACCAAACAACCCCATTCCCCTCCTT
**
21362013 TGATTATCAAAAAGAAAAAAATATT
66 CAATTATCAAAAAGAAAAAAATATT
*
21362038 AATCCTTCCTTTGTTGTCGACATGAGAGCTTGGATTCAATACCAAACAACCCCATTCCCCT-CTT
1 AATCCTTCCTTTGTTGTAGACATGAGAGCTTGGATTCAATACCAAACAACCCCATTCCCCTCCTT
21362102 CCAATTATCAAAA
66 -CAATTATCAAAA
21362115 CAAAAATGTC
Statistics
Matches: 69, Mismatches: 7, Indels: 2
0.88 0.09 0.03
Matches are distributed among these distances:
89 3 0.04
90 66 0.96
ACGTcount: A:0.32, C:0.26, G:0.11, T:0.31
Consensus pattern (90 bp):
AATCCTTCCTTTGTTGTAGACATGAGAGCTTGGATTCAATACCAAACAACCCCATTCCCCTCCTT
CAATTATCAAAAAGAAAAAAATATT
Found at i:21376101 original size:45 final size:45
Alignment explanation
Indices: 21376036--21376121 Score: 145
Period size: 45 Copynumber: 1.9 Consensus size: 45
21376026 CTCGGTAGAT
*
21376036 TCAGCACATAGCAACCACCTTATTAATCAATGATGTCCGGTGGAA
1 TCAGCACATAGCAACCACCTTACTAATCAATGATGTCCGGTGGAA
* *
21376081 TCAGCACATAGCAACTACCTTACTAATCAATGATGTTCGGT
1 TCAGCACATAGCAACCACCTTACTAATCAATGATGTCCGGT
21376122 TCACATAGTA
Statistics
Matches: 38, Mismatches: 3, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
45 38 1.00
ACGTcount: A:0.33, C:0.24, G:0.16, T:0.27
Consensus pattern (45 bp):
TCAGCACATAGCAACCACCTTACTAATCAATGATGTCCGGTGGAA
Found at i:21376202 original size:12 final size:12
Alignment explanation
Indices: 21376185--21376216 Score: 55
Period size: 12 Copynumber: 2.7 Consensus size: 12
21376175 ACGTAGTAGC
21376185 CTGCACATAGTA
1 CTGCACATAGTA
21376197 CTGCACATAGTA
1 CTGCACATAGTA
*
21376209 CTACACAT
1 CTGCACAT
21376217 GTGACGATTG
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
12 19 1.00
ACGTcount: A:0.34, C:0.28, G:0.12, T:0.25
Consensus pattern (12 bp):
CTGCACATAGTA
Found at i:21376209 original size:63 final size:63
Alignment explanation
Indices: 21376123--21376261 Score: 226
Period size: 63 Copynumber: 2.2 Consensus size: 63
21376113 ATGTTCGGTT
21376123 CACATAGTAGCATGCACACAGTACTACACATGTGACGATTGCCATCCGATACACGT-AGTAGCCT
1 CACATAGTA-C-TGCACACAGTACTACACATGTGACGATTGCCATCCGATACACGTGA-TAGCCT
21376187 G
63 G
* *
21376188 CACATAGTACTGCACATAGTACTACACATGTGACGATTGCCATCTGATACACGTGATAGCCTG
1 CACATAGTACTGCACACAGTACTACACATGTGACGATTGCCATCCGATACACGTGATAGCCTG
21376251 CACATAGTACT
1 CACATAGTACT
21376262 ATACACGTGA
Statistics
Matches: 71, Mismatches: 2, Indels: 4
0.92 0.03 0.05
Matches are distributed among these distances:
63 60 0.85
64 2 0.03
65 9 0.13
ACGTcount: A:0.31, C:0.27, G:0.19, T:0.24
Consensus pattern (63 bp):
CACATAGTACTGCACACAGTACTACACATGTGACGATTGCCATCCGATACACGTGATAGCCTG
Found at i:21376284 original size:51 final size:48
Alignment explanation
Indices: 21376197--21376373 Score: 149
Period size: 51 Copynumber: 3.5 Consensus size: 48
21376187 GCACATAGTA
* ***
21376197 CTGCACATAGTACTACACATGTGACGATTGCCATCTGATACACGT-GATAGC
1 CTGCACATAGTACTACACACGTGAC-A-AAACATCTG-TACACGTAG-TAGC
* ** *
21376248 CTGCACATAGTACTATACACGTGATCAAAACTATCTGGTATGCATAGTAGC
1 CTGCACATAGTACTACACACGTGA-CAAAAC-ATCT-GTACACGTAGTAGC
* * ** *
21376299 CTGCACATAGTACTACACATGCGACCTATCATTCCTGTACACGTAGTAGC
1 CTGCACATAGTACTACACACGTGACAAAACA-T-CTGTACACGTAGTAGC
21376349 CTGCACATAGTACTACACACGTGAC
1 CTGCACATAGTACTACACACGTGAC
21376374 CATCACCTTC
Statistics
Matches: 101, Mismatches: 19, Indels: 13
0.76 0.14 0.10
Matches are distributed among these distances:
49 1 0.01
50 39 0.39
51 58 0.57
52 3 0.03
ACGTcount: A:0.31, C:0.27, G:0.18, T:0.25
Consensus pattern (48 bp):
CTGCACATAGTACTACACACGTGACAAAACATCTGTACACGTAGTAGC
Found at i:21376396 original size:101 final size:101
Alignment explanation
Indices: 21376189--21376375 Score: 224
Period size: 101 Copynumber: 1.9 Consensus size: 101
21376179 AGTAGCCTGC
*
21376189 ACATAGTA--CTGCACATAGTACTACACATGTGACGATTGCCATCTGATACACGTGATAGCCTGC
1 ACATAGTAGCCTGCACATAGTACTACACATGCGACGATT-CCATCTGATACACGTGATAGCCTGC
* * **
21376252 ACATAGTACTATACACGTGATCAAAACTATCTGGTAT
65 ACATAGTACTACACACGTGACCAAAACTATCACGTAT
* *
21376289 GCATAGTAGCCTGCACATAGTACTACACATGCGAC-CTAT-CATTCCTG-TACACGT-AGTAGCC
1 ACATAGTAGCCTGCACATAGTACTACACATGCGACGAT-TCCA-T-CTGATACACGTGA-TAGCC
21376350 TGCACATAGTACTACACACGTGACCA
62 TGCACATAGTACTACACACGTGACCA
21376376 TCACCTTCAC
Statistics
Matches: 76, Mismatches: 5, Indels: 11
0.83 0.05 0.12
Matches are distributed among these distances:
100 10 0.13
101 38 0.50
102 28 0.37
ACGTcount: A:0.32, C:0.26, G:0.17, T:0.25
Consensus pattern (101 bp):
ACATAGTAGCCTGCACATAGTACTACACATGCGACGATTCCATCTGATACACGTGATAGCCTGCA
CATAGTACTACACACGTGACCAAAACTATCACGTAT
Found at i:21393293 original size:2 final size:2
Alignment explanation
Indices: 21393286--21393311 Score: 52
Period size: 2 Copynumber: 13.0 Consensus size: 2
21393276 GATAACCCAA
21393286 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
21393312 GCACAGAAGC
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 24 1.00
ACGTcount: A:0.00, C:0.00, G:0.50, T:0.50
Consensus pattern (2 bp):
TG
Found at i:21397794 original size:76 final size:76
Alignment explanation
Indices: 21397697--21397849 Score: 245
Period size: 76 Copynumber: 2.0 Consensus size: 76
21397687 AAATATGAAA
* *
21397697 TCTAACCAAACTACAAGCTAAAACCCTAAAA-TGAACTCCCCAAACTGATAGCTTAATGTAGTAT
1 TCTAACCAAAATACAAGCTAAAACCCTAAAACT-AACTCCCCAAACGGATAGCTTAATGTAGTAT
*
21397761 TTATAGTTTAAG
65 TTATAGTCTAAG
* *
21397773 TCTAACTAAAATACAAGCTAAAACCCTAAAACTAACTCCCCAAACGGATAGTTTAATGTAGTATT
1 TCTAACCAAAATACAAGCTAAAACCCTAAAACTAACTCCCCAAACGGATAGCTTAATGTAGTATT
21397838 TATAGTCTAAG
66 TATAGTCTAAG
21397849 T
1 T
21397850 GTATTATGAC
Statistics
Matches: 71, Mismatches: 5, Indels: 2
0.91 0.06 0.03
Matches are distributed among these distances:
76 70 0.99
77 1 0.01
ACGTcount: A:0.41, C:0.20, G:0.10, T:0.28
Consensus pattern (76 bp):
TCTAACCAAAATACAAGCTAAAACCCTAAAACTAACTCCCCAAACGGATAGCTTAATGTAGTATT
TATAGTCTAAG
Found at i:21399601 original size:23 final size:24
Alignment explanation
Indices: 21399551--21399601 Score: 63
Period size: 23 Copynumber: 2.2 Consensus size: 24
21399541 ATTTATTATA
*
21399551 ATAAAAAATAACTATTCACTAAAC
1 ATAATAAATAACTATTCACTAAAC
21399575 -TAATAAATAACTA-TCAC-AAACC
1 ATAATAAATAACTATTCACTAAA-C
21399597 ATAAT
1 ATAAT
21399602 CATTCATGTA
Statistics
Matches: 24, Mismatches: 1, Indels: 5
0.80 0.03 0.17
Matches are distributed among these distances:
21 3 0.12
22 5 0.21
23 16 0.67
ACGTcount: A:0.57, C:0.18, G:0.00, T:0.25
Consensus pattern (24 bp):
ATAATAAATAACTATTCACTAAAC
Found at i:21401210 original size:22 final size:23
Alignment explanation
Indices: 21401167--21401212 Score: 67
Period size: 22 Copynumber: 2.0 Consensus size: 23
21401157 AGCCCGGGTT
* *
21401167 ATTAAAATTATATTTTTATTAAA
1 ATTAAAACTATATTGTTATTAAA
21401190 ATTAAAACTA-ATTGTTATTAAA
1 ATTAAAACTATATTGTTATTAAA
21401212 A
1 A
21401213 CTATATCAAA
Statistics
Matches: 21, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
22 12 0.57
23 9 0.43
ACGTcount: A:0.50, C:0.02, G:0.02, T:0.46
Consensus pattern (23 bp):
ATTAAAACTATATTGTTATTAAA
Found at i:21401336 original size:33 final size:32
Alignment explanation
Indices: 21401268--21401341 Score: 87
Period size: 32 Copynumber: 2.3 Consensus size: 32
21401258 ATCTAACATT
* ***
21401268 TTGTTAGTAAAATTATTAATTAATTGTATTAA
1 TTGTTAGTAAAATTATAAATTAATCAAATTAA
21401300 TTGTTAGTAAAATTATCAAATTATATCAAATT-A
1 TTGTTAGTAAAATTAT-AAATTA-ATCAAATTAA
21401333 TTGTTAGTA
1 TTGTTAGTA
21401342 CCAGTCAAAA
Statistics
Matches: 36, Mismatches: 4, Indels: 3
0.84 0.09 0.07
Matches are distributed among these distances:
32 16 0.44
33 15 0.42
34 5 0.14
ACGTcount: A:0.41, C:0.03, G:0.09, T:0.47
Consensus pattern (32 bp):
TTGTTAGTAAAATTATAAATTAATCAAATTAA
Found at i:21401352 original size:105 final size:108
Alignment explanation
Indices: 21401208--21401440 Score: 355
Period size: 105 Copynumber: 2.2 Consensus size: 108
21401198 TAATTGTTAT
* * *
21401208 TAAAACTATATCAAATTATTTTTTTTGTACCAATCAAAACATTTTGTAAAATCTAACATTTTGTT
1 TAAAATTATATCAAATTA-TTTGTTAGTACCAATCAAAACATTTTGTAAAATCTAACATTTTGTT
*
21401273 AGTAAAATTATT-A-ATTAATTGTATTAATTGTTAGTAAAATTA
65 AGTAAAATTATTAATATTAATTGCATTAATTGTTAGTAAAATTA
* *
21401315 TCAAATTATATCAAATTA-TTGTTAGTACCAGTCAAAACATTTTGTAAAATCTAACATTTTGTTA
1 TAAAATTATATCAAATTATTTGTTAGTACCAATCAAAACATTTTGTAAAATCTAACATTTTGTTA
*
21401379 GTTAAATTATTAATTATTAATTGCATTAATTGTTAGTAAAATTA
66 GTAAAATTATTAA-TATTAATTGCATTAATTGTTAGTAAAATTA
*
21401423 TAAAATTATATCAGATTA
1 TAAAATTATATCAAATTA
21401441 GGGTTAGGGT
Statistics
Matches: 114, Mismatches: 9, Indels: 5
0.89 0.07 0.04
Matches are distributed among these distances:
105 53 0.46
106 1 0.01
107 16 0.14
108 44 0.39
ACGTcount: A:0.41, C:0.08, G:0.07, T:0.44
Consensus pattern (108 bp):
TAAAATTATATCAAATTATTTGTTAGTACCAATCAAAACATTTTGTAAAATCTAACATTTTGTTA
GTAAAATTATTAATATTAATTGCATTAATTGTTAGTAAAATTA
Found at i:21401449 original size:6 final size:6
Alignment explanation
Indices: 21401438--21401473 Score: 63
Period size: 6 Copynumber: 6.0 Consensus size: 6
21401428 TTATATCAGA
*
21401438 TTAGGG TTAGGG TTAGAG TTAGGG TTAGGG TTAGGG
1 TTAGGG TTAGGG TTAGGG TTAGGG TTAGGG TTAGGG
21401474 CTAAGGTTTT
Statistics
Matches: 28, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
6 28 1.00
ACGTcount: A:0.19, C:0.00, G:0.47, T:0.33
Consensus pattern (6 bp):
TTAGGG
Found at i:21401481 original size:18 final size:18
Alignment explanation
Indices: 21401442--21401481 Score: 53
Period size: 18 Copynumber: 2.2 Consensus size: 18
21401432 ATCAGATTAG
* *
21401442 GGTTAGGGTTAGAGTTAG
1 GGTTAGGGTTAGAGCTAA
*
21401460 GGTTAGGGTTAGGGCTAA
1 GGTTAGGGTTAGAGCTAA
21401478 GGTT
1 GGTT
21401482 TTTGTTAGGG
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:0.03, G:0.45, T:0.33
Consensus pattern (18 bp):
GGTTAGGGTTAGAGCTAA
Found at i:21401519 original size:15 final size:15
Alignment explanation
Indices: 21401499--21401576 Score: 67
Period size: 15 Copynumber: 5.2 Consensus size: 15
21401489 GGGTTTTGGT
21401499 GTTTTTAAGTTAAGG
1 GTTTTTAAGTTAAGG
21401514 GTTTTTAAGTTAAGG
1 GTTTTTAAGTTAAGG
21401529 G---TTAGAGTT-AGG
1 GTTTTTA-AGTTAAGG
*
21401541 GTTAGTGTTAGGGTT-AGG
1 GTT--T-TTA-AGTTAAGG
21401559 GTTTTTAAGTTAAGG
1 GTTTTTAAGTTAAGG
21401574 GTT
1 GTT
21401577 AGGGTTAGGG
Statistics
Matches: 53, Mismatches: 2, Indels: 16
0.75 0.03 0.23
Matches are distributed among these distances:
12 7 0.13
13 4 0.08
14 3 0.06
15 25 0.47
16 1 0.02
18 13 0.25
ACGTcount: A:0.23, C:0.00, G:0.33, T:0.44
Consensus pattern (15 bp):
GTTTTTAAGTTAAGG
Found at i:21401543 original size:12 final size:12
Alignment explanation
Indices: 21401521--21401557 Score: 56
Period size: 12 Copynumber: 3.0 Consensus size: 12
21401511 AGGGTTTTTA
21401521 AGTTAAGGGTTAG
1 AGTT-AGGGTTAG
21401534 AGTTAGGGTTAG
1 AGTTAGGGTTAG
*
21401546 TGTTAGGGTTAG
1 AGTTAGGGTTAG
21401558 GGTTTTTAAG
Statistics
Matches: 23, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
12 19 0.83
13 4 0.17
ACGTcount: A:0.24, C:0.00, G:0.41, T:0.35
Consensus pattern (12 bp):
AGTTAGGGTTAG
Found at i:21401544 original size:6 final size:6
Alignment explanation
Indices: 21401526--21401594 Score: 59
Period size: 6 Copynumber: 11.0 Consensus size: 6
21401516 TTTTAAGTTA
* * *
21401526 AGGGTT AGAGTT AGGGTT AGTGTT AGGGTT AGGGTTTTT A-AGTT AAGGGTT
1 AGGGTT AGGGTT AGGGTT AGGGTT AGGGTT AGGG---TT AGGGTT -AGGGTT
*
21401577 AGGGTT AGGGCT AGGGTT
1 AGGGTT AGGGTT AGGGTT
21401595 TTTGTTAGGG
Statistics
Matches: 50, Mismatches: 8, Indels: 10
0.74 0.12 0.15
Matches are distributed among these distances:
5 2 0.04
6 41 0.82
7 3 0.06
8 1 0.02
9 3 0.06
ACGTcount: A:0.20, C:0.01, G:0.42, T:0.36
Consensus pattern (6 bp):
AGGGTT
Found at i:21401576 original size:33 final size:32
Alignment explanation
Indices: 21401534--21401606 Score: 105
Period size: 33 Copynumber: 2.3 Consensus size: 32
21401524 TAAGGGTTAG
* *
21401534 AGTTAGGGTTAGTGTTAGGGTTAGGGTTTTTA
1 AGTTAGGGTTAGGGTTAGGGCTAGGGTTTTTA
21401566 AGTTAAGGGTTAGGGTTAGGGCTAGGGTTTTT-
1 AGTT-AGGGTTAGGGTTAGGGCTAGGGTTTTTA
21401598 -GTTAGGGTT
1 AGTTAGGGTT
21401607 TTGGTTTTTT
Statistics
Matches: 38, Mismatches: 2, Indels: 4
0.86 0.05 0.09
Matches are distributed among these distances:
30 6 0.16
31 3 0.08
32 4 0.11
33 25 0.66
ACGTcount: A:0.18, C:0.01, G:0.40, T:0.41
Consensus pattern (32 bp):
AGTTAGGGTTAGGGTTAGGGCTAGGGTTTTTA
Found at i:21401602 original size:45 final size:45
Alignment explanation
Indices: 21401511--21401608 Score: 142
Period size: 45 Copynumber: 2.2 Consensus size: 45
21401501 TTTTAAGTTA
* *
21401511 AGGGTTTTTAAGTTAAGGGTTAGAGTTAGGGTTAGTGTTAGGGTT
1 AGGGTTTTTAAGTTAAGGGTTAGAGTTAGGGCTAGGGTTAGGGTT
* ***
21401556 AGGGTTTTTAAGTTAAGGGTTAGGGTTAGGGCTAGGGTTTTTGTT
1 AGGGTTTTTAAGTTAAGGGTTAGAGTTAGGGCTAGGGTTAGGGTT
21401601 AGGGTTTT
1 AGGGTTTT
21401609 GGTTTTTTAA
Statistics
Matches: 47, Mismatches: 6, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
45 47 1.00
ACGTcount: A:0.19, C:0.01, G:0.38, T:0.42
Consensus pattern (45 bp):
AGGGTTTTTAAGTTAAGGGTTAGAGTTAGGGCTAGGGTTAGGGTT
Found at i:21401672 original size:7 final size:7
Alignment explanation
Indices: 21401660--21401699 Score: 57
Period size: 7 Copynumber: 5.9 Consensus size: 7
21401650 GTTTGTCAAT
21401660 TAAATTA
1 TAAATTA
21401667 TAAATT-
1 TAAATTA
21401673 T-AATTA
1 TAAATTA
21401679 TAAATTA
1 TAAATTA
21401686 TAAATTTA
1 TAAA-TTA
21401694 TAAATT
1 TAAATT
21401700 TTTAATAAAT
Statistics
Matches: 30, Mismatches: 0, Indels: 6
0.83 0.00 0.17
Matches are distributed among these distances:
5 4 0.13
6 2 0.07
7 17 0.57
8 7 0.23
ACGTcount: A:0.53, C:0.00, G:0.00, T:0.47
Consensus pattern (7 bp):
TAAATTA
Found at i:21404098 original size:51 final size:51
Alignment explanation
Indices: 21404017--21404116 Score: 130
Period size: 51 Copynumber: 2.0 Consensus size: 51
21404007 AAAAAATTAA
*
21404017 AAATAGGGATTTAAGAGAAATTTAAGAGGAAACTGAGAGCAAATTGAGATT
1 AAATAAGGATTTAAGAGAAATTTAAGAGGAAACTGAGAGCAAATTGAGATT
* ** * *
21404068 AAATAAGGATTTGAGA-AAATTTTGGAAGGAAATTGAGAGCAATTTGAGA
1 AAATAAGGATTTAAGAGAAATTTAAG-AGGAAACTGAGAGCAAATTGAGA
21404117 GGAAATTGAG
Statistics
Matches: 42, Mismatches: 6, Indels: 2
0.84 0.12 0.04
Matches are distributed among these distances:
50 7 0.17
51 35 0.83
ACGTcount: A:0.46, C:0.03, G:0.26, T:0.25
Consensus pattern (51 bp):
AAATAAGGATTTAAGAGAAATTTAAGAGGAAACTGAGAGCAAATTGAGATT
Found at i:21404104 original size:22 final size:22
Alignment explanation
Indices: 21404078--21404138 Score: 65
Period size: 22 Copynumber: 2.8 Consensus size: 22
21404068 AAATAAGGAT
21404078 TTGAGA-AAATTTTG-GAAGGAAA
1 TTGAGAGAAA-TTTGAG-AGGAAA
*
21404100 TTGAGAGCAATTTGAGAGGAAA
1 TTGAGAGAAATTTGAGAGGAAA
21404122 TTGAGACGAAA-TTGAGA
1 TTGAGA-GAAATTTGAGA
21404139 AAATAATTGA
Statistics
Matches: 34, Mismatches: 2, Indels: 6
0.81 0.05 0.14
Matches are distributed among these distances:
22 28 0.82
23 6 0.18
ACGTcount: A:0.43, C:0.03, G:0.30, T:0.25
Consensus pattern (22 bp):
TTGAGAGAAATTTGAGAGGAAA
Found at i:21404116 original size:11 final size:11
Alignment explanation
Indices: 21404097--21404138 Score: 50
Period size: 11 Copynumber: 3.8 Consensus size: 11
21404087 TTTTGGAAGG
21404097 AAATTGAGAGC
1 AAATTGAGAGC
* *
21404108 AATTTGAGAGG
1 AAATTGAGAGC
21404119 AAATTGAGA-C
1 AAATTGAGAGC
21404129 GAAATTGAGA
1 -AAATTGAGA
21404139 AAATAATTGA
Statistics
Matches: 26, Mismatches: 4, Indels: 2
0.81 0.12 0.06
Matches are distributed among these distances:
11 26 1.00
ACGTcount: A:0.45, C:0.05, G:0.29, T:0.21
Consensus pattern (11 bp):
AAATTGAGAGC
Found at i:21406152 original size:2 final size:2
Alignment explanation
Indices: 21406145--21406171 Score: 54
Period size: 2 Copynumber: 13.5 Consensus size: 2
21406135 TCAGATGATG
21406145 TA TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA T
21406172 GTGTTCTCAT
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 25 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Found at i:21407843 original size:20 final size:19
Alignment explanation
Indices: 21407800--21407844 Score: 54
Period size: 19 Copynumber: 2.3 Consensus size: 19
21407790 TAAGATGAAT
* *
21407800 ATTTAAATATTTTTAATTA
1 ATTTTAATAATTTTAATTA
*
21407819 TTTTTAATAATTTTAATTTA
1 ATTTTAATAATTTTAA-TTA
21407839 ATTTTA
1 ATTTTA
21407845 TATATTATAT
Statistics
Matches: 21, Mismatches: 4, Indels: 1
0.81 0.15 0.04
Matches are distributed among these distances:
19 13 0.62
20 8 0.38
ACGTcount: A:0.38, C:0.00, G:0.00, T:0.62
Consensus pattern (19 bp):
ATTTTAATAATTTTAATTA
Found at i:21409193 original size:17 final size:17
Alignment explanation
Indices: 21409162--21409195 Score: 50
Period size: 17 Copynumber: 2.0 Consensus size: 17
21409152 ATGATATTTG
*
21409162 AAATATTTCACATATCA
1 AAATATTTCAAATATCA
*
21409179 AAATATTTGAAATATCA
1 AAATATTTCAAATATCA
21409196 TATCCATAAT
Statistics
Matches: 15, Mismatches: 2, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
17 15 1.00
ACGTcount: A:0.50, C:0.12, G:0.03, T:0.35
Consensus pattern (17 bp):
AAATATTTCAAATATCA
Found at i:21410196 original size:9 final size:8
Alignment explanation
Indices: 21410177--21410246 Score: 63
Period size: 8 Copynumber: 8.6 Consensus size: 8
21410167 TAATTCGTTA
21410177 TTTTTAAT
1 TTTTTAAT
21410185 TTTTTAAT
1 TTTTTAAT
*
21410193 TTTTGTTA-
1 TTTT-TAAT
21410201 TTTTTAAT
1 TTTTTAAT
*
21410209 TTTTAAAT
1 TTTTTAAT
*
21410217 TTTTGTTA-
1 TTTT-TAAT
21410225 TTTTTAAT
1 TTTTTAAT
*
21410233 TATGTTAAT
1 T-TTTTAAT
21410242 TTTTT
1 TTTTT
21410247 TGATAAATCT
Statistics
Matches: 49, Mismatches: 8, Indels: 10
0.73 0.12 0.15
Matches are distributed among these distances:
7 4 0.08
8 35 0.71
9 10 0.20
ACGTcount: A:0.23, C:0.00, G:0.04, T:0.73
Consensus pattern (8 bp):
TTTTTAAT
Found at i:21410201 original size:24 final size:24
Alignment explanation
Indices: 21410173--21410245 Score: 119
Period size: 24 Copynumber: 3.0 Consensus size: 24
21410163 ATGGTAATTC
21410173 GTTATTTTTAATTTTTTAATTTTT
1 GTTATTTTTAATTTTTTAATTTTT
*
21410197 GTTATTTTTAATTTTTAAATTTTT
1 GTTATTTTTAATTTTTTAATTTTT
*
21410221 GTTATTTTTAATTATGTTAATTTTT
1 GTTATTTTTAATT-TTTTAATTTTT
21410246 TTGATAAATC
Statistics
Matches: 45, Mismatches: 3, Indels: 1
0.92 0.06 0.02
Matches are distributed among these distances:
24 36 0.80
25 9 0.20
ACGTcount: A:0.23, C:0.00, G:0.05, T:0.71
Consensus pattern (24 bp):
GTTATTTTTAATTTTTTAATTTTT
Found at i:21413289 original size:17 final size:18
Alignment explanation
Indices: 21413237--21413289 Score: 51
Period size: 17 Copynumber: 3.1 Consensus size: 18
21413227 GAACACTTTC
21413237 AAAAAACT--ATAAGCCCT
1 AAAAAACTCAATAA-CCCT
*
21413254 AAAAAACTCAA-AACACT
1 AAAAAACTCAATAACCCT
*
21413271 AAAAAA-TTAATAACCCT
1 AAAAAACTCAATAACCCT
21413288 AA
1 AA
21413290 CCCTGGAGAG
Statistics
Matches: 30, Mismatches: 3, Indels: 6
0.77 0.08 0.15
Matches are distributed among these distances:
16 3 0.10
17 24 0.80
18 2 0.07
19 1 0.03
ACGTcount: A:0.60, C:0.21, G:0.02, T:0.17
Consensus pattern (18 bp):
AAAAAACTCAATAACCCT
Found at i:21416400 original size:24 final size:25
Alignment explanation
Indices: 21416364--21416411 Score: 71
Period size: 24 Copynumber: 2.0 Consensus size: 25
21416354 GATCCCCATA
21416364 TTTTTTTCGTTTTAAGTACTTTAAT
1 TTTTTTTCGTTTTAAGTACTTTAAT
* *
21416389 TTTTTTTC-TTTTATGTTCTTTAA
1 TTTTTTTCGTTTTAAGTACTTTAA
21416412 ACTTTCCTTT
Statistics
Matches: 21, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
24 13 0.62
25 8 0.38
ACGTcount: A:0.17, C:0.08, G:0.06, T:0.69
Consensus pattern (25 bp):
TTTTTTTCGTTTTAAGTACTTTAAT
Found at i:21416559 original size:14 final size:14
Alignment explanation
Indices: 21416540--21416573 Score: 52
Period size: 14 Copynumber: 2.5 Consensus size: 14
21416530 TCATCATTTG
21416540 CCTATAACCAAAAC
1 CCTATAACCAAAAC
*
21416554 CCTATAACTAAAAC
1 CCTATAACCAAAAC
21416568 CC-ATAA
1 CCTATAA
21416574 ACCCATACCA
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
13 4 0.21
14 15 0.79
ACGTcount: A:0.50, C:0.32, G:0.00, T:0.18
Consensus pattern (14 bp):
CCTATAACCAAAAC
Found at i:21418887 original size:22 final size:21
Alignment explanation
Indices: 21418862--21418929 Score: 77
Period size: 22 Copynumber: 3.1 Consensus size: 21
21418852 GATTACTTAC
21418862 AATGAGCTAAAAAAATGACAAA
1 AATGA-CTAAAAAAATGACAAA
21418884 AATGAC-AAATAATAATGACAAA
1 AATGACTAAA-AA-AATGACAAA
21418906 AATGAACTAAAAAAA-GAACAAA
1 AATG-ACTAAAAAAATG-ACAAA
21418928 AA
1 AA
21418930 AATGAAAGAA
Statistics
Matches: 41, Mismatches: 0, Indels: 10
0.80 0.00 0.20
Matches are distributed among these distances:
20 3 0.07
21 4 0.10
22 27 0.66
23 4 0.10
24 3 0.07
ACGTcount: A:0.68, C:0.09, G:0.10, T:0.13
Consensus pattern (21 bp):
AATGACTAAAAAAATGACAAA
Found at i:21422910 original size:18 final size:18
Alignment explanation
Indices: 21422887--21422922 Score: 72
Period size: 18 Copynumber: 2.0 Consensus size: 18
21422877 CCTAAAATAC
21422887 GAGGGTTTTTGGATGCGT
1 GAGGGTTTTTGGATGCGT
21422905 GAGGGTTTTTGGATGCGT
1 GAGGGTTTTTGGATGCGT
21422923 CTAAGACAAC
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
18 18 1.00
ACGTcount: A:0.11, C:0.06, G:0.44, T:0.39
Consensus pattern (18 bp):
GAGGGTTTTTGGATGCGT
Found at i:21423870 original size:17 final size:17
Alignment explanation
Indices: 21423848--21423881 Score: 52
Period size: 17 Copynumber: 2.0 Consensus size: 17
21423838 AAATTTTCAG
21423848 AATT-AATTAAAATTAAA
1 AATTAAATT-AAATTAAA
21423865 AATTAAATTAAATTAAA
1 AATTAAATTAAATTAAA
21423882 TTCCTAAAAT
Statistics
Matches: 16, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
17 12 0.75
18 4 0.25
ACGTcount: A:0.65, C:0.00, G:0.00, T:0.35
Consensus pattern (17 bp):
AATTAAATTAAATTAAA
Found at i:21428969 original size:132 final size:131
Alignment explanation
Indices: 21428749--21429574 Score: 1034
Period size: 132 Copynumber: 6.3 Consensus size: 131
21428739 CAACTTCAGG
* * *
21428749 AAGATAAGACTT-GTCATCTTCGATCTGCTCCACTACTGCCTAGGGAGATAAGATCTGTAATCTT
1 AAGATAAGA-TTCGCCATCTTCGATCTGCTCCACTACTGCTTAGGGAGATAAGATCTATAATCTT
* * * * ** ** * * * *
21428813 TAATCTATTCCACTGTTG-TCCAGGGAAGTAGAATTATTGGATTCAATGTAC-T-CCACTATAAC
65 CAACCTACTCCACTGCTGCT-CAGGGAAGTAGGCTTGGTGGCTTAAATCTGCTTCCCACTAT---
**
21428875 CACAGA
126 CTTAGA
* * * * *
21428881 GAGGTAAAATCCGCCATCTTCGATCTGCTCCACTACTGCTTAGGGAGATAAGATCTACAATCTTC
1 AAGATAAGATTCGCCATCTTCGATCTGCTCCACTACTGCTTAGGGAGATAAGATCTATAATCTTC
** * * * ** * * * *
21428946 AATTTTCTCCGCTGCTACTCAGGGAGACAAGGTTTGGTGGCTCAAATCTGCTTCCCACTATATTG
66 AACCTACTCCACTGCTGCTCAGGGA-AGTAGGCTTGGTGGCTTAAATCTGCTTCCCACTATCTTA
21429011 GA
130 GA
*
21429013 AAGATAAGATTTGCCATCTTCGATCTGCTCCACTACTGCTTAGGGAGATAAGATCTATAATCTTC
1 AAGATAAGATTCGCCATCTTCGATCTGCTCCACTACTGCTTAGGGAGATAAGATCTATAATCTTC
21429078 AACCTACTCCACTGCTGCTCAGGG-AGATAAGGCTTGGTGGCTTAAATCTGCTTCCCACTATCTT
66 AACCTACTCCACTGCTGCTCAGGGAAG-T-AGGCTTGGTGGCTTAAATCTGCTTCCCACTATCTT
21429142 AGA
129 AGA
* * *
21429145 AAGATAAGATTCGCCGTCTTCAATCTGCTCCACTACTGCTTAGGGAGATAGGATCTATAATCTTC
1 AAGATAAGATTCGCCATCTTCGATCTGCTCCACTACTGCTTAGGGAGATAAGATCTATAATCTTC
*
21429210 AACCTACTCCACTGCTGCTCAGGG-AGATAAGGCTTGGTGTCTTAAATCTGCTTCCCACTATCTT
66 AACCTACTCCACTGCTGCTCAGGGAAG-T-AGGCTTGGTGGCTTAAATCTGCTTCCCACTATCTT
*
21429274 GGA
129 AGA
*
21429277 AAGATAAGATTCGCCGTCTTCGATCTGCTCCACTACTGCTTAGGGAGATAAGATCTATAATCTTC
1 AAGATAAGATTCGCCATCTTCGATCTGCTCCACTACTGCTTAGGGAGATAAGATCTATAATCTTC
** *
21429342 AACCTACTCCACTGCTGCTCAGGGAGACAAGGCTTGGTGGCTTAAATCTGCTTCCCACTATCTTG
66 AACCTACTCCACTGCTGCTCAGGGA-AGTAGGCTTGGTGGCTTAAATCTGCTTCCCACTATCTTA
21429407 GA
130 GA
* *
21429409 AAGATAAGATTCGCCGTCTTCGATCTGCTCCACTACTGCTTAGGGAGATAAGATCTACAATCTTC
1 AAGATAAGATTCGCCATCTTCGATCTGCTCCACTACTGCTTAGGGAGATAAGATCTATAATCTTC
* * ** *
21429474 AACCTTCTCCGCTGCTGCTCAGGGAGACAAGGCTTGGTGGCTTAAATCTGCTTCCCACTATCTTG
66 AACCTACTCCACTGCTGCTCAGGGA-AGTAGGCTTGGTGGCTTAAATCTGCTTCCCACTATCTTA
21429539 GA
130 GA
* *
21429541 AAGATAAGATTCACCGTCTTCGATCTGCTCCACT
1 AAGATAAGATTCGCCATCTTCGATCTGCTCCACT
21429575 GTCAATGCAG
Statistics
Matches: 623, Mismatches: 62, Indels: 18
0.89 0.09 0.03
Matches are distributed among these distances:
130 1 0.00
131 1 0.00
132 597 0.96
133 15 0.02
134 2 0.00
135 7 0.01
ACGTcount: A:0.26, C:0.25, G:0.19, T:0.30
Consensus pattern (131 bp):
AAGATAAGATTCGCCATCTTCGATCTGCTCCACTACTGCTTAGGGAGATAAGATCTATAATCTTC
AACCTACTCCACTGCTGCTCAGGGAAGTAGGCTTGGTGGCTTAAATCTGCTTCCCACTATCTTAG
A
Found at i:21429062 original size:44 final size:44
Alignment explanation
Indices: 21428897--21429462 Score: 265
Period size: 44 Copynumber: 12.9 Consensus size: 44
21428887 AAATCCGCCA
* * * **
21428897 TCTTCGATCTGCTCCACTACTGCTTAGGGAGATAAGATCTACAA
1 TCTTCAATCTGCTCCACTACTGCTTAGGGAGATAAGATTTGCCG
* * * * * * * * **
21428941 TCTTCAATTTTCTCCGCTGCTACTCAGGGAGACAAGGTTTGGTG
1 TCTTCAATCTGCTCCACTACTGCTTAGGGAGATAAGATTTGCCG
* * * *
21428985 GC-TCAAATCTGCTTCCCACTA-T-ATT-GGAAAGATAAGATTTGCCA
1 TCTTC-AATCTGC-T-CCACTACTGCTTAGG-GAGATAAGATTTGCCG
* * ****
21429029 TCTTCGATCTGCTCCACTACTGCTTAGGGAGATAAGATCTATAA
1 TCTTCAATCTGCTCCACTACTGCTTAGGGAGATAAGATTTGCCG
* * * * ** **
21429073 TCTTCAACCTACTCCACTGCTGCTCAGGGAGATAAGGCTTGGTG
1 TCTTCAATCTGCTCCACTACTGCTTAGGGAGATAAGATTTGCCG
* * ** *
21429117 GCTTAAATCTGCTTCCCACTA-T-CTTAGAAAGATAAGATTCGCCG
1 TCTTCAATCTGC-T-CCACTACTGCTTAGGGAGATAAGATTTGCCG
* * ****
21429161 TCTTCAATCTGCTCCACTACTGCTTAGGGAGATAGGATCTATAA
1 TCTTCAATCTGCTCCACTACTGCTTAGGGAGATAAGATTTGCCG
* * * * ** **
21429205 TCTTCAACCTACTCCACTGCTGCTCAGGGAGATAAGGCTTGGTG
1 TCTTCAATCTGCTCCACTACTGCTTAGGGAGATAAGATTTGCCG
* * *
21429249 TCTTAAATCTGCTTCCCACTA-T-CTT-GGAAAGATAAGATTCGCCG
1 TCTTCAATCTGC-T-CCACTACTGCTTAGG-GAGATAAGATTTGCCG
* * ****
21429293 TCTTCGATCTGCTCCACTACTGCTTAGGGAGATAAGATCTATAA
1 TCTTCAATCTGCTCCACTACTGCTTAGGGAGATAAGATTTGCCG
* * * * * ** **
21429337 TCTTCAACCTACTCCACTGCTGCTCAGGGAGACAAGGCTTGGTG
1 TCTTCAATCTGCTCCACTACTGCTTAGGGAGATAAGATTTGCCG
* * * *
21429381 GCTTAAATCTGCTTCCCACTA-T-CTT-GGAAAGATAAGATTCGCCG
1 TCTTCAATCTGC-T-CCACTACTGCTTAGG-GAGATAAGATTTGCCG
*
21429425 TCTTCGATCTGCTCCACTACTGCTTAGGGAGATAAGAT
1 TCTTCAATCTGCTCCACTACTGCTTAGGGAGATAAGAT
21429463 CTACAATCTT
Statistics
Matches: 365, Mismatches: 133, Indels: 48
0.67 0.24 0.09
Matches are distributed among these distances:
42 24 0.07
43 16 0.04
44 290 0.79
45 16 0.04
46 19 0.05
ACGTcount: A:0.25, C:0.25, G:0.20, T:0.30
Consensus pattern (44 bp):
TCTTCAATCTGCTCCACTACTGCTTAGGGAGATAAGATTTGCCG
Found at i:21429233 original size:264 final size:264
Alignment explanation
Indices: 21428749--21429574 Score: 1187
Period size: 264 Copynumber: 3.1 Consensus size: 264
21428739 CAACTTCAGG
* * *
21428749 AAGATAAGACTT-GTCATCTTCGATCTGCTCCACTACTGCCTAGGGAGATAAGATCTGTAATCTT
1 AAGATAAGA-TTCGCCATCTTCGATCTGCTCCACTACTGCTTAGGGAGATAAGATCTATAATCTT
* * * * ** ** * * * *
21428813 TAATCTATTCCACTGTTG-TCCAGGGA-AGT-AGAATTATTGGATTCAATGTAC-T-CCACTATA
65 CAACCTACTCCACTGCTGCT-CAGGGAGA-TAAGGCTTGGTGGCTTAAATCTGCTTCCCACTAT-
** * * * * *
21428873 ACCACAGAGAGGTAAAATCCGCCATCTTCGATCTGCTCCACTACTGCTTAGGGAGATAAGATCTA
127 --CTTAGAAAGATAAGATTCGCCGTCTTCGATCTGCTCCACTACTGCTTAGGGAGATAAGATCTA
** * * *
21428938 CAATCTTCAATTTTCTCCGCTGCTACTCAGGGAGACAAGGTTTGGTGGCTCAAATCTGCTTCCCA
190 CAATCTTCAACCTTCTCCGCTGCTGCTCAGGGAGACAAGGCTTGGTGGCTTAAATCTGCTTCCCA
*
21429003 CTATATTGGA
255 CTATCTTGGA
*
21429013 AAGATAAGATTTGCCATCTTCGATCTGCTCCACTACTGCTTAGGGAGATAAGATCTATAATCTTC
1 AAGATAAGATTCGCCATCTTCGATCTGCTCCACTACTGCTTAGGGAGATAAGATCTATAATCTTC
21429078 AACCTACTCCACTGCTGCTCAGGGAGATAAGGCTTGGTGGCTTAAATCTGCTTCCCACTATCTTA
66 AACCTACTCCACTGCTGCTCAGGGAGATAAGGCTTGGTGGCTTAAATCTGCTTCCCACTATCTTA
* * *
21429143 GAAAGATAAGATTCGCCGTCTTCAATCTGCTCCACTACTGCTTAGGGAGATAGGATCTATAATCT
131 GAAAGATAAGATTCGCCGTCTTCGATCTGCTCCACTACTGCTTAGGGAGATAAGATCTACAATCT
* * * *
21429208 TCAACCTACTCCACTGCTGCTCAGGGAGATAAGGCTTGGTGTCTTAAATCTGCTTCCCACTATCT
196 TCAACCTTCTCCGCTGCTGCTCAGGGAGACAAGGCTTGGTGGCTTAAATCTGCTTCCCACTATCT
21429273 TGGA
261 TGGA
*
21429277 AAGATAAGATTCGCCGTCTTCGATCTGCTCCACTACTGCTTAGGGAGATAAGATCTATAATCTTC
1 AAGATAAGATTCGCCATCTTCGATCTGCTCCACTACTGCTTAGGGAGATAAGATCTATAATCTTC
* *
21429342 AACCTACTCCACTGCTGCTCAGGGAGACAAGGCTTGGTGGCTTAAATCTGCTTCCCACTATCTTG
66 AACCTACTCCACTGCTGCTCAGGGAGATAAGGCTTGGTGGCTTAAATCTGCTTCCCACTATCTTA
21429407 GAAAGATAAGATTCGCCGTCTTCGATCTGCTCCACTACTGCTTAGGGAGATAAGATCTACAATCT
131 GAAAGATAAGATTCGCCGTCTTCGATCTGCTCCACTACTGCTTAGGGAGATAAGATCTACAATCT
21429472 TCAACCTTCTCCGCTGCTGCTCAGGGAGACAAGGCTTGGTGGCTTAAATCTGCTTCCCACTATCT
196 TCAACCTTCTCCGCTGCTGCTCAGGGAGACAAGGCTTGGTGGCTTAAATCTGCTTCCCACTATCT
21429537 TGGA
261 TGGA
* *
21429541 AAGATAAGATTCACCGTCTTCGATCTGCTCCACT
1 AAGATAAGATTCGCCATCTTCGATCTGCTCCACT
21429575 GTCAATGCAG
Statistics
Matches: 509, Mismatches: 47, Indels: 12
0.90 0.08 0.02
Matches are distributed among these distances:
263 2 0.00
264 483 0.95
265 16 0.03
266 1 0.00
267 7 0.01
ACGTcount: A:0.26, C:0.25, G:0.19, T:0.30
Consensus pattern (264 bp):
AAGATAAGATTCGCCATCTTCGATCTGCTCCACTACTGCTTAGGGAGATAAGATCTATAATCTTC
AACCTACTCCACTGCTGCTCAGGGAGATAAGGCTTGGTGGCTTAAATCTGCTTCCCACTATCTTA
GAAAGATAAGATTCGCCGTCTTCGATCTGCTCCACTACTGCTTAGGGAGATAAGATCTACAATCT
TCAACCTTCTCCGCTGCTGCTCAGGGAGACAAGGCTTGGTGGCTTAAATCTGCTTCCCACTATCT
TGGA
Found at i:21461447 original size:7 final size:7
Alignment explanation
Indices: 21461437--21461470 Score: 50
Period size: 7 Copynumber: 4.7 Consensus size: 7
21461427 ATAAAATAAA
21461437 AAAAATT
1 AAAAATT
21461444 AAAAATT
1 AAAAATT
*
21461451 AATTAATT
1 AA-AAATT
21461459 AAAAATT
1 AAAAATT
21461466 AAAAA
1 AAAAA
21461471 ATGCATAAAC
Statistics
Matches: 24, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
7 18 0.75
8 6 0.25
ACGTcount: A:0.71, C:0.00, G:0.00, T:0.29
Consensus pattern (7 bp):
AAAAATT
Found at i:21476543 original size:15 final size:15
Alignment explanation
Indices: 21476523--21476579 Score: 60
Period size: 15 Copynumber: 3.5 Consensus size: 15
21476513 ATTCAATATT
21476523 AATATTTTAATAATA
1 AATATTTTAATAATA
*
21476538 AATATTTATTACATTTATA
1 AATA-TT-TTA-A-TAATA
*
21476557 AATATATTAATAATA
1 AATATTTTAATAATA
21476572 AATATTTT
1 AATATTTT
21476580 GTAGTGTAAA
Statistics
Matches: 34, Mismatches: 4, Indels: 8
0.74 0.09 0.17
Matches are distributed among these distances:
15 15 0.44
16 3 0.09
17 6 0.18
18 2 0.06
19 8 0.24
ACGTcount: A:0.49, C:0.02, G:0.00, T:0.49
Consensus pattern (15 bp):
AATATTTTAATAATA
Found at i:21477064 original size:13 final size:14
Alignment explanation
Indices: 21477046--21477078 Score: 50
Period size: 13 Copynumber: 2.4 Consensus size: 14
21477036 AGTAGTTTAT
21477046 TTTTCAGAA-ATCA
1 TTTTCAGAAGATCA
*
21477059 TTTTCAGAAGGTCA
1 TTTTCAGAAGATCA
21477073 TTTTCA
1 TTTTCA
21477079 ATAAAACAAA
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
13 9 0.50
14 9 0.50
ACGTcount: A:0.30, C:0.15, G:0.12, T:0.42
Consensus pattern (14 bp):
TTTTCAGAAGATCA
Found at i:21483589 original size:9 final size:9
Alignment explanation
Indices: 21483575--21483604 Score: 51
Period size: 9 Copynumber: 3.2 Consensus size: 9
21483565 AGAAACAGGG
21483575 AGAAAAGAA
1 AGAAAAGAA
21483584 AGAAAAGAAA
1 AGAAAAG-AA
21483594 AGAAAAGAA
1 AGAAAAGAA
21483603 AG
1 AG
21483605 GGGGGTGTTG
Statistics
Matches: 20, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
9 11 0.55
10 9 0.45
ACGTcount: A:0.77, C:0.00, G:0.23, T:0.00
Consensus pattern (9 bp):
AGAAAAGAA
Found at i:21483604 original size:4 final size:5
Alignment explanation
Indices: 21483575--21483603 Score: 51
Period size: 5 Copynumber: 6.0 Consensus size: 5
21483565 AGAAACAGGG
21483575 AGAAA AG-AA AGAAA AGAAA AGAAA AGAAA
1 AGAAA AGAAA AGAAA AGAAA AGAAA AGAAA
21483604 GGGGGGTGTT
Statistics
Matches: 23, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
4 4 0.17
5 19 0.83
ACGTcount: A:0.79, C:0.00, G:0.21, T:0.00
Consensus pattern (5 bp):
AGAAA
Done.