Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: VEPZ01008094.1 Hibiscus syriacus cultivar Beakdansim tig00110610_pilon, whole genome shotgun sequence
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: 9952466
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
File 31 of 43
Found at i:6637029 original size:10 final size:10
Alignment explanation
Indices: 6637016--6637046 Score: 62
Period size: 10 Copynumber: 3.1 Consensus size: 10
6637006 ACAATATTAC
6637016 TTGAAAGTTA
1 TTGAAAGTTA
6637026 TTGAAAGTTA
1 TTGAAAGTTA
6637036 TTGAAAGTTA
1 TTGAAAGTTA
6637046 T
1 T
6637047 ATTAAAATTT
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
10 21 1.00
ACGTcount: A:0.39, C:0.00, G:0.19, T:0.42
Consensus pattern (10 bp):
TTGAAAGTTA
Found at i:6637388 original size:108 final size:108
Alignment explanation
Indices: 6637197--6637406 Score: 237
Period size: 108 Copynumber: 1.9 Consensus size: 108
6637187 TGGAAGTCCG
* * * * * *
6637197 ATCTAATCTTTAATATAAAATATTACTTTTGAGTAAGTCGCGTTGATAACGTGTTATAAAATAAT
1 ATCTAATCTTTAATATAAAATATTACTTCTCAATAAGTCGCGTTGATAACG-ATTATAAAAGAAA
*
6637262 CTAAACAAAACAATAAGAAGAAGA-ATATAAAAATAATAAAAAA
65 CAAAACAAAACAATAAGAAGAAGAGATATAAAAATAATAAAAAA
* * *
6637305 ATCTAATCTTTAATATAAAATATTACTTCTCAATAAGTCGTGTTGGTAAC-ATTATAAACGAAAC
1 ATCTAATCTTTAATATAAAATATTACTTCTCAATAAGTCGCGTTGATAACGATTATAAAAGAAAC
* * * *
6637369 AATAAGAAGAA-TATGAAGAATAAGAGATATAATAATAA
66 AA-AACAA-AACAAT-AAGAAGAAGAGATATAAAAATAA
6637407 AGGGAGAGAA
Statistics
Matches: 84, Mismatches: 14, Indels: 7
0.80 0.13 0.07
Matches are distributed among these distances:
106 11 0.13
107 6 0.07
108 56 0.67
109 11 0.13
ACGTcount: A:0.50, C:0.09, G:0.11, T:0.30
Consensus pattern (108 bp):
ATCTAATCTTTAATATAAAATATTACTTCTCAATAAGTCGCGTTGATAACGATTATAAAAGAAAC
AAAACAAAACAATAAGAAGAAGAGATATAAAAATAATAAAAAA
Found at i:6638626 original size:29 final size:29
Alignment explanation
Indices: 6638593--6638657 Score: 96
Period size: 29 Copynumber: 2.2 Consensus size: 29
6638583 TTATTTCAAG
6638593 CTAACTACTAACTTTTATTTTATTGCATAT
1 CTAACTACTAACTTTTATTTTATTGCAT-T
* *
6638623 -TAACCACTGACTTTTATTTTATTGCATT
1 CTAACTACTAACTTTTATTTTATTGCATT
6638651 CTAACTA
1 CTAACTA
6638658 TTGTTTATTT
Statistics
Matches: 31, Mismatches: 3, Indels: 3
0.84 0.08 0.08
Matches are distributed among these distances:
28 1 0.03
29 30 0.97
ACGTcount: A:0.29, C:0.18, G:0.05, T:0.48
Consensus pattern (29 bp):
CTAACTACTAACTTTTATTTTATTGCATT
Found at i:6638935 original size:24 final size:25
Alignment explanation
Indices: 6638903--6638958 Score: 96
Period size: 25 Copynumber: 2.3 Consensus size: 25
6638893 TACTAACATT
6638903 CTAACTTTTA-TTTTATTGTTCATA
1 CTAACTTTTATTTTTATTGTTCATA
*
6638927 CTAACTTTTATTTTTATTGTTCTTA
1 CTAACTTTTATTTTTATTGTTCATA
6638952 CTAACTT
1 CTAACTT
6638959 AATAACATTT
Statistics
Matches: 30, Mismatches: 1, Indels: 1
0.94 0.03 0.03
Matches are distributed among these distances:
24 10 0.33
25 20 0.67
ACGTcount: A:0.23, C:0.14, G:0.04, T:0.59
Consensus pattern (25 bp):
CTAACTTTTATTTTTATTGTTCATA
Found at i:6639036 original size:5 final size:5
Alignment explanation
Indices: 6639026--6639054 Score: 58
Period size: 5 Copynumber: 5.8 Consensus size: 5
6639016 TATTTCTGCT
6639026 TTTTA TTTTA TTTTA TTTTA TTTTA TTTT
1 TTTTA TTTTA TTTTA TTTTA TTTTA TTTT
6639055 CAAGCACTTT
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 24 1.00
ACGTcount: A:0.17, C:0.00, G:0.00, T:0.83
Consensus pattern (5 bp):
TTTTA
Found at i:6642848 original size:11 final size:11
Alignment explanation
Indices: 6642834--6642876 Score: 59
Period size: 11 Copynumber: 3.9 Consensus size: 11
6642824 AAAAATACAT
6642834 AAAAAAGAAAA
1 AAAAAAGAAAA
6642845 AAAAAAGAAAA
1 AAAAAAGAAAA
*
6642856 AAAAGAGAAAA
1 AAAAAAGAAAA
**
6642867 TGAAAAGAAA
1 AAAAAAGAAA
6642877 TGAGGATGAA
Statistics
Matches: 28, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
11 28 1.00
ACGTcount: A:0.84, C:0.00, G:0.14, T:0.02
Consensus pattern (11 bp):
AAAAAAGAAAA
Found at i:6642872 original size:22 final size:20
Alignment explanation
Indices: 6642834--6642876 Score: 59
Period size: 20 Copynumber: 2.0 Consensus size: 20
6642824 AAAAATACAT
6642834 AAAAAAGAAAAAAAAAAGAA
1 AAAAAAGAAAAAAAAAAGAA
*
6642854 AAAAAAGAGAAAATGAAAAGAA
1 AAAAAAGA-AAAA-AAAAAGAA
6642876 A
1 A
6642877 TGAGGATGAA
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
20 8 0.40
21 4 0.20
22 8 0.40
ACGTcount: A:0.84, C:0.00, G:0.14, T:0.02
Consensus pattern (20 bp):
AAAAAAGAAAAAAAAAAGAA
Found at i:6644674 original size:42 final size:41
Alignment explanation
Indices: 6644616--6644728 Score: 138
Period size: 42 Copynumber: 2.7 Consensus size: 41
6644606 AGGGTTTCTT
* **
6644616 GATGAGTAAGTCCTTCGGGCCATC-AGTAAGTCTTTCGAGCGT
1 GATGA-TAAATCCTTCGGGCCATCTA-TAAGTCTTTCGAGCAA
*
6644658 GATGCATAAATCCTTCGGGTCATCTATAAGTCTTTCGAGCAA
1 GATG-ATAAATCCTTCGGGCCATCTATAAGTCTTTCGAGCAA
* *
6644700 GATGATAAGTCCTTTGGGCCATCTATAAG
1 GATGATAAATCCTTCGGGCCATCTATAAG
6644729 ACCTTCGGGC
Statistics
Matches: 62, Mismatches: 7, Indels: 5
0.84 0.09 0.07
Matches are distributed among these distances:
41 22 0.35
42 38 0.61
43 2 0.03
ACGTcount: A:0.26, C:0.20, G:0.24, T:0.30
Consensus pattern (41 bp):
GATGATAAATCCTTCGGGCCATCTATAAGTCTTTCGAGCAA
Found at i:6644694 original size:20 final size:19
Alignment explanation
Indices: 6644622--6644694 Score: 56
Period size: 20 Copynumber: 3.6 Consensus size: 19
6644612 TCTTGATGAG
*
6644622 TAAGTCCTTCGGGCCATCA
1 TAAGTCCTTCGGGTCATCA
* *
6644641 GTAAGTCTTTCGAGCGTGATGCA
1 -TAAGTCCTTCG-G-GTCAT-CA
*
6644664 TAAATCCTTCGGGTCATCTA
1 TAAGTCCTTCGGGTCATC-A
*
6644684 TAAGTCTTTCG
1 TAAGTCCTTCG
6644695 AGCAAGATGA
Statistics
Matches: 41, Mismatches: 8, Indels: 8
0.72 0.14 0.14
Matches are distributed among these distances:
19 1 0.02
20 24 0.59
21 2 0.05
22 12 0.29
23 2 0.05
ACGTcount: A:0.22, C:0.23, G:0.22, T:0.33
Consensus pattern (19 bp):
TAAGTCCTTCGGGTCATCA
Found at i:6644950 original size:42 final size:42
Alignment explanation
Indices: 6644891--6644979 Score: 124
Period size: 42 Copynumber: 2.1 Consensus size: 42
6644881 AAGGGTTTCT
* * *
6644891 TGATGTGTAAGTCCTTCGGGCCATCAGTAAGTCTTTTGAGCA
1 TGATGTGTAAATCCTTCGGGCCATCAATAAGTCTTTCGAGCA
* *
6644933 TGATGTTTAAATCCTTCGGGTCATCAATAAGTCTTTCGAGCA
1 TGATGTGTAAATCCTTCGGGCCATCAATAAGTCTTTCGAGCA
*
6644975 AGATG
1 TGATG
6644980 ATAAGTCTTT
Statistics
Matches: 41, Mismatches: 6, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
42 41 1.00
ACGTcount: A:0.25, C:0.18, G:0.24, T:0.34
Consensus pattern (42 bp):
TGATGTGTAAATCCTTCGGGCCATCAATAAGTCTTTCGAGCA
Found at i:6644968 original size:276 final size:274
Alignment explanation
Indices: 6644476--6645124 Score: 923
Period size: 276 Copynumber: 2.4 Consensus size: 274
6644466 TTTTCAAAAG
* * * * * *
6644476 AATGAGTTTTTAGAAACTAAGCTTGATTTTCAAGTGTTTCTTGATGATTATCTCCAAAGAGTTTT
1 AATGAGTTTTTAGAAACTAAGCCTGATTTTCAGGGGTTTCTTGATGA-TATTTTCAAAGAATTTT
* * * *
6644541 TAAAAGGAATCTAAGCCTAATTTTTAGGTGTTTCTTGACAACAAAGAAACTAAGTTTGATTTTCA
65 TAAAAGAAAGCTAAGCCTAATTTTTAGGGGTTTCTTGACAACAAAGAAACTAAGCTTGATTTTCA
*
6644606 AGGGTTTCTTGATGAGTAAGTCCTTCGGGCCATCAGTAAGTCTTTCGAGCGTGATGCATAAATCC
130 AGGGTTTCTTGATGAGTAAGTCCTTCGGGCCATCAGTAAGTCTTTCGAGCATGATGCATAAATCC
* *
6644671 TTCGGGTCATCTATAAGTCTTTCGAGCAAGATGATAAGTCCTTTGGGCCATCTATAAGACCTTCG
195 TTCGGGTCATCAATAAGTCTTTCGAGCAAGATGATAAGTCCTTTGAGCCATCTATAAGACCTTCG
6644736 GGCAGGATGTTTTCA
260 GGCAGGATGTTTTCA
* * *
6644751 AATGAGTTTTTAGAAGCTAAGCCTGATTTTCAGGGGTTTCTTTATGATATTTTCAAAGAAATTTT
1 AATGAGTTTTTAGAAACTAAGCCTGATTTTCAGGGGTTTCTTGATGATATTTTCAAAGAATTTTT
* ** * *
6644816 -AAAGAAAGCTAAGCCTAATTTTTAGGGGTTCATTTATGATGACTAAGAAATTAAGCTTGATTTT
66 AAAAGAAAGCTAAGCCTAATTTTTAGGGGTT--TCT-TGACAACAAAGAAACTAAGCTTGATTTT
* * **
6644880 CAAGGGTTTCTTGATGTGTAAGTCCTTCGGGCCATCAGTAAGTCTTTTGAGCATGATGTTTAAAT
128 CAAGGGTTTCTTGATGAGTAAGTCCTTCGGGCCATCAGTAAGTCTTTCGAGCATGATGCATAAAT
*
6644945 CCTTCGGGTCATCAATAAGTCTTTCGAGCAAGATGATAAGTCTTTTGAGCCATCTATAAGACCTT
193 CCTTCGGGTCATCAATAAGTCTTTCGAGCAAGATGATAAGTCCTTTGAGCCATCTATAAGACCTT
6645010 CGGGCAGGATGTTTTCA
258 CGGGCAGGATGTTTTCA
* * *
6645027 AATGAGTTTTTAGAAACTAATCCTGATTTTTAGGGGTTTCTTGATG-T-TTTT-AAATTAATTTT
1 AATGAGTTTTTAGAAACTAAGCCTGATTTTCAGGGGTTTCTTGATGATATTTTCAAA-GAATTTT
** *
6645089 TGCAA-TAAGCTAAGCCTAA-TTTTAGGGGTTTCTTGA
65 TAAAAGAAAGCTAAGCCTAATTTTTAGGGGTTTCTTGA
6645125 TAACTGTAAA
Statistics
Matches: 334, Mismatches: 35, Indels: 15
0.87 0.09 0.04
Matches are distributed among these distances:
270 3 0.01
271 2 0.01
273 41 0.12
274 37 0.11
275 47 0.14
276 204 0.61
ACGTcount: A:0.28, C:0.14, G:0.20, T:0.37
Consensus pattern (274 bp):
AATGAGTTTTTAGAAACTAAGCCTGATTTTCAGGGGTTTCTTGATGATATTTTCAAAGAATTTTT
AAAAGAAAGCTAAGCCTAATTTTTAGGGGTTTCTTGACAACAAAGAAACTAAGCTTGATTTTCAA
GGGTTTCTTGATGAGTAAGTCCTTCGGGCCATCAGTAAGTCTTTCGAGCATGATGCATAAATCCT
TCGGGTCATCAATAAGTCTTTCGAGCAAGATGATAAGTCCTTTGAGCCATCTATAAGACCTTCGG
GCAGGATGTTTTCA
Found at i:6645915 original size:20 final size:19
Alignment explanation
Indices: 6645853--6645916 Score: 51
Period size: 17 Copynumber: 3.3 Consensus size: 19
6645843 CAAATGGTGA
6645853 GTTCATAATGAGAAGAACT
1 GTTCATAATGAGAAGAACT
* * *
6645872 CATCCGATAAGGGAGAAGAA--
1 -GTTC-ATAA-TGAGAAGAACT
6645892 GTTCATAATGAGAAGAACTT
1 GTTCATAATGAGAAGAAC-T
6645912 GTTCA
1 GTTCA
6645917 ACCTTATCTC
Statistics
Matches: 33, Mismatches: 6, Indels: 10
0.67 0.12 0.20
Matches are distributed among these distances:
17 8 0.24
18 4 0.12
19 2 0.06
20 7 0.21
21 4 0.12
22 8 0.24
ACGTcount: A:0.41, C:0.12, G:0.23, T:0.23
Consensus pattern (19 bp):
GTTCATAATGAGAAGAACT
Found at i:6646240 original size:39 final size:39
Alignment explanation
Indices: 6646193--6646344 Score: 134
Period size: 39 Copynumber: 3.8 Consensus size: 39
6646183 CATTTCCAGT
*
6646193 GAAGAGTTCATAATGAAAAGAACTCATCT-AACGAGGGA
1 GAAGAGTTCATAATGAGAAGAACTCATCTCAACGAGGGA
* * ** *
6646231 GAAGAAGTTCAAAATGAGAAGAACTTGA-CTCAAC-ATTTCTAGT
1 GAAG-AGTTCATAATGAGAAGAAC-TCATCTCAACGA----GGGA
*
6646274 GAAGAGTTCATAATGAGAAGAACTCAT-TCGACGAGGGA
1 GAAGAGTTCATAATGAGAAGAACTCATCTCAACGAGGGA
*
6646312 GAAGAAGTTCATAATGAGAAGAACTTAT-TCAAC
1 GAAG-AGTTCATAATGAGAAGAACTCATCTCAAC
6646345 TTTGTTCGAT
Statistics
Matches: 90, Mismatches: 14, Indels: 19
0.73 0.11 0.15
Matches are distributed among these distances:
38 9 0.10
39 46 0.51
40 5 0.06
41 6 0.07
42 19 0.21
43 5 0.06
ACGTcount: A:0.43, C:0.13, G:0.22, T:0.22
Consensus pattern (39 bp):
GAAGAGTTCATAATGAGAAGAACTCATCTCAACGAGGGA
Found at i:6646289 original size:42 final size:42
Alignment explanation
Indices: 6646174--6646297 Score: 116
Period size: 42 Copynumber: 3.0 Consensus size: 42
6646164 TTGTTCAGCT
*
6646174 TTGACTCAACATTTCCAGTGAAGAGTTCATAATGAAAAGAAC
1 TTGACTCAACATTTCCAGTGAAGAGTTCATAATGAGAAGAAC
* ** * *
6646216 -TCA-TCTAACGA----GGGAGAAGAAGTTCAAAATGAGAAGAAC
1 TTGACTC-AAC-ATTTCCAGTGAAG-AGTTCATAATGAGAAGAAC
*
6646255 TTGACTCAACATTTCTAGTGAAGAGTTCATAATGAGAAGAAC
1 TTGACTCAACATTTCCAGTGAAGAGTTCATAATGAGAAGAAC
6646297 T
1 T
6646298 CATTCGACGA
Statistics
Matches: 62, Mismatches: 11, Indels: 18
0.68 0.12 0.20
Matches are distributed among these distances:
38 5 0.08
39 18 0.29
40 7 0.11
41 7 0.11
42 20 0.32
43 5 0.08
ACGTcount: A:0.41, C:0.15, G:0.20, T:0.24
Consensus pattern (42 bp):
TTGACTCAACATTTCCAGTGAAGAGTTCATAATGAGAAGAAC
Found at i:6646309 original size:81 final size:81
Alignment explanation
Indices: 6646174--6646337 Score: 276
Period size: 81 Copynumber: 2.0 Consensus size: 81
6646164 TTGTTCAGCT
6646174 TTGACTCAACATTTCCAGTGAAGAGTTCATAATGAAAAGAACTCATCTAACGAGGGAGAAGAAGT
1 TTGACTCAACATTTCCAGTGAAGAGTTCATAATGAAAAGAACTCATCTAACGAGGGAGAAGAAGT
6646239 TCAAAATGAGAAGAAC
66 TCAAAATGAGAAGAAC
* * *
6646255 TTGACTCAACATTTCTAGTGAAGAGTTCATAATGAGAAGAACTCAT-TCGACGAGGGAGAAGAAG
1 TTGACTCAACATTTCCAGTGAAGAGTTCATAATGAAAAGAACTCATCT-AACGAGGGAGAAGAAG
*
6646319 TTCATAATGAGAAGAAC
65 TTCAAAATGAGAAGAAC
6646336 TT
1 TT
6646338 ATTCAACTTT
Statistics
Matches: 78, Mismatches: 4, Indels: 2
0.93 0.05 0.02
Matches are distributed among these distances:
80 1 0.01
81 77 0.99
ACGTcount: A:0.41, C:0.14, G:0.22, T:0.23
Consensus pattern (81 bp):
TTGACTCAACATTTCCAGTGAAGAGTTCATAATGAAAAGAACTCATCTAACGAGGGAGAAGAAGT
TCAAAATGAGAAGAAC
Found at i:6646574 original size:117 final size:117
Alignment explanation
Indices: 6646276--6646576 Score: 453
Period size: 117 Copynumber: 2.6 Consensus size: 117
6646266 TTTCTAGTGA
* * *
6646276 AGAGTTCATAATGAGAAGAACTCAT-TCGACGAGGGAGAAGAAGTTCATAATGAGAAGAACTTAT
1 AGAGTTTATAATGAGAAGAACTCATCT-GATGAGGGAGAAGAAGTTCATAATGAGAAGAACTTGT
*
6646340 TCAACTTTGTTCGATTTCATCACAGAAGAAAGTATATCAACATTTCCAACGGG
65 TCAACTTTGTTCGATTTCATCACAGAAGAAAGTAGATCAACATTTCCAACGGG
* * **
6646393 AGAGTTTATAATGAGAAGAACTCGTCCGAAT-AGAAAGAAGAAGTTCATAATGAGAAGAACTTGT
1 AGAGTTTATAATGAGAAGAACTCATCTG-ATGAGGGAGAAGAAGTTCATAATGAGAAGAACTTGT
* *
6646457 TCAACTTTGTTCGATTTCATCACAGAAGAAGGTAGATCAACATTTCCAATGGG
65 TCAACTTTGTTCGATTTCATCACAGAAGAAAGTAGATCAACATTTCCAACGGG
* * *
6646510 AGAGTTTATAATGAGAAAAACTCATCTGATGAGGGAGAAGAAGTTCATAATGAGAAAAATTTGTT
1 AGAGTTTATAATGAGAAGAACTCATCTGATGAGGGAGAAGAAGTTCATAATGAGAAGAACTTGTT
6646575 CA
66 CA
6646577 GCCTTGGTGA
Statistics
Matches: 164, Mismatches: 17, Indels: 6
0.88 0.09 0.03
Matches are distributed among these distances:
116 2 0.01
117 161 0.98
118 1 0.01
ACGTcount: A:0.40, C:0.13, G:0.21, T:0.26
Consensus pattern (117 bp):
AGAGTTTATAATGAGAAGAACTCATCTGATGAGGGAGAAGAAGTTCATAATGAGAAGAACTTGTT
CAACTTTGTTCGATTTCATCACAGAAGAAAGTAGATCAACATTTCCAACGGG
Found at i:6647654 original size:29 final size:30
Alignment explanation
Indices: 6647592--6647647 Score: 87
Period size: 29 Copynumber: 1.9 Consensus size: 30
6647582 TTATTTCAAG
*
6647592 CTAACTACTAACTTTTATTTTATTGCACAT
1 CTAACCACTAACTTTTATTTTATTGCACAT
*
6647622 -TAACCACTGACTTTTATTTTATTGCA
1 CTAACCACTAACTTTTATTTTATTGCA
6647648 TTCTAACTAT
Statistics
Matches: 24, Mismatches: 2, Indels: 1
0.89 0.07 0.04
Matches are distributed among these distances:
29 24 1.00
ACGTcount: A:0.29, C:0.20, G:0.05, T:0.46
Consensus pattern (30 bp):
CTAACCACTAACTTTTATTTTATTGCACAT
Found at i:6647782 original size:110 final size:113
Alignment explanation
Indices: 6647650--6647881 Score: 278
Period size: 115 Copynumber: 2.1 Consensus size: 113
6647640 TTATTGCATT
* *
6647650 CTAACTATTGTTTATTTATTTA-TTTATTTA-TTGTTT-CTCTTA-T-TACTCGACCTTGTGGTG
1 CTAACT-TTGTTTATTTATTTATTTTATATATTTGTTTGC-ATTATTCTACTCGACCTTGTGGTG
* *
6647710 AACCGATCCGGGTAACACCCACATTATTATGGTTCGGACTCTACTAACCA
64 AACCGATCCAGGTAACACCCACATTATTATGGTTCGAACTCTACTAACCA
* *
6647760 CTAACTTT-TTTATTTTATTTTATTTTTATATATTTGTTTGCATTATTCTATTTGACCTTGTGGT
1 CTAACTTTGTTTA-TTTA-TTTA-TTTTATATATTTGTTTGCATTATTCTACTCGACCTTGTGGT
* * * * *
6647824 GACCCGATCCAGGTAAGACCCACATTATTATGGTTCGAACTTTGCTAACCG
63 GAACCGATCCAGGTAACACCCACATTATTATGGTTCGAACTCTACTAACCA
6647875 CTAACTT
1 CTAACTT
6647882 GTCTAATTTA
Statistics
Matches: 103, Mismatches: 11, Indels: 11
0.82 0.09 0.09
Matches are distributed among these distances:
108 4 0.04
109 6 0.06
110 10 0.10
112 7 0.07
113 9 0.09
114 2 0.02
115 65 0.63
ACGTcount: A:0.23, C:0.19, G:0.13, T:0.44
Consensus pattern (113 bp):
CTAACTTTGTTTATTTATTTATTTTATATATTTGTTTGCATTATTCTACTCGACCTTGTGGTGAA
CCGATCCAGGTAACACCCACATTATTATGGTTCGAACTCTACTAACCA
Found at i:6647930 original size:24 final size:25
Alignment explanation
Indices: 6647900--6647955 Score: 71
Period size: 25 Copynumber: 2.3 Consensus size: 25
6647890 TACTAACATT
*
6647900 CTAACTTTTA-ATTTATT-TTTTATA
1 CTAACTTTTATATTTATTGTTCT-TA
*
6647924 CTAACTTTTATTTTTATTGTTCTTA
1 CTAACTTTTATATTTATTGTTCTTA
6647949 CTAACTT
1 CTAACTT
6647956 ACTAACATTT
Statistics
Matches: 28, Mismatches: 2, Indels: 3
0.85 0.06 0.09
Matches are distributed among these distances:
24 10 0.36
25 15 0.54
26 3 0.11
ACGTcount: A:0.25, C:0.12, G:0.02, T:0.61
Consensus pattern (25 bp):
CTAACTTTTATATTTATTGTTCTTA
Found at i:6663208 original size:3 final size:3
Alignment explanation
Indices: 6663200--6663247 Score: 87
Period size: 3 Copynumber: 16.0 Consensus size: 3
6663190 CCATTTTTAT
*
6663200 TTA TTA TTA TTA TTA TTA TTA TTA TTA TAA TTA TTA TTA TTA TTA TTA
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA
6663248 AAAAAATAAT
Statistics
Matches: 43, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
3 43 1.00
ACGTcount: A:0.35, C:0.00, G:0.00, T:0.65
Consensus pattern (3 bp):
TTA
Found at i:6664932 original size:23 final size:25
Alignment explanation
Indices: 6664900--6664948 Score: 66
Period size: 23 Copynumber: 2.0 Consensus size: 25
6664890 CCTTTTCTGA
*
6664900 TATTTCTAAATA-A-ATAAATATTT
1 TATTTATAAATATATATAAATATTT
*
6664923 TATTTATAAATATATATAAATTTTT
1 TATTTATAAATATATATAAATATTT
6664948 T
1 T
6664949 CCTTCTCATA
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
23 11 0.50
24 1 0.05
25 10 0.45
ACGTcount: A:0.45, C:0.02, G:0.00, T:0.53
Consensus pattern (25 bp):
TATTTATAAATATATATAAATATTT
Found at i:6668822 original size:15 final size:15
Alignment explanation
Indices: 6668802--6668833 Score: 55
Period size: 15 Copynumber: 2.1 Consensus size: 15
6668792 ATCAATACCT
6668802 TTTTGCATACATACA
1 TTTTGCATACATACA
*
6668817 TTTTGCATACATTCA
1 TTTTGCATACATACA
6668832 TT
1 TT
6668834 ATTCATTTCA
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
15 16 1.00
ACGTcount: A:0.28, C:0.19, G:0.06, T:0.47
Consensus pattern (15 bp):
TTTTGCATACATACA
Found at i:6671676 original size:23 final size:23
Alignment explanation
Indices: 6671650--6671694 Score: 63
Period size: 23 Copynumber: 2.0 Consensus size: 23
6671640 CACCACAGCT
*
6671650 CGTATAAATGCACCGAAGTGCCC
1 CGTAGAAATGCACCGAAGTGCCC
* *
6671673 CGTAGAATTGCACCGTAGTGCC
1 CGTAGAAATGCACCGAAGTGCC
6671695 ATATAATGAT
Statistics
Matches: 19, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
23 19 1.00
ACGTcount: A:0.27, C:0.29, G:0.24, T:0.20
Consensus pattern (23 bp):
CGTAGAAATGCACCGAAGTGCCC
Found at i:6672413 original size:67 final size:66
Alignment explanation
Indices: 6672305--6672455 Score: 230
Period size: 67 Copynumber: 2.3 Consensus size: 66
6672295 TTTTTCTCAT
* * * *
6672305 GGGGGAATCAGTTCCCCCCCTGGGGTATCGGTTCCCCTCTAGCATTCTGGAATTTCATATCCGTT
1 GGGGGTATCGGTT-CCCCCCTGGGGTATCGATTCCCCTCTAGCATTCTGGAAATTCATATCCGTT
6672370 GA
65 GA
* *
6672372 GGGGGTATCGGTTCCCCCCTGGGGGTATCGATTCCCCTCTAGTATTCTGGAAATTCATATTCGTT
1 GGGGGTATCGGTTCCCCCCT-GGGGTATCGATTCCCCTCTAGCATTCTGGAAATTCATATCCGTT
6672437 GA
65 GA
6672439 GGGGGTATCGGTTCCCC
1 GGGGGTATCGGTTCCCC
6672456 TTGAATGGGT
Statistics
Matches: 77, Mismatches: 6, Indels: 2
0.91 0.07 0.02
Matches are distributed among these distances:
66 7 0.09
67 70 0.91
ACGTcount: A:0.15, C:0.26, G:0.28, T:0.30
Consensus pattern (66 bp):
GGGGGTATCGGTTCCCCCCTGGGGTATCGATTCCCCTCTAGCATTCTGGAAATTCATATCCGTTG
A
Found at i:6678014 original size:43 final size:43
Alignment explanation
Indices: 6677933--6678018 Score: 136
Period size: 43 Copynumber: 2.0 Consensus size: 43
6677923 TCTGATACCA
* *
6677933 TTAAATGTAACACCCCCAACCCATACCCGACTCAGATATGAGT
1 TTAAATGTAACACCCCCAACCCATACCCAACCCAGATATGAGT
* *
6677976 TTAAATGTAACACCCCCAACCCATACCTAACCCGGATATGAGT
1 TTAAATGTAACACCCCCAACCCATACCCAACCCAGATATGAGT
6678019 CAGAGATACT
Statistics
Matches: 39, Mismatches: 4, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
43 39 1.00
ACGTcount: A:0.35, C:0.33, G:0.12, T:0.21
Consensus pattern (43 bp):
TTAAATGTAACACCCCCAACCCATACCCAACCCAGATATGAGT
Found at i:6678577 original size:23 final size:23
Alignment explanation
Indices: 6678559--6678618 Score: 93
Period size: 23 Copynumber: 2.6 Consensus size: 23
6678549 CTCGTATAAA
6678559 TGCACCGAAGTGCCCCGTAGAAT
1 TGCACCGAAGTGCCCCGTAGAAT
* *
6678582 TGCACTGAAGTGCCCTGTAGAAT
1 TGCACCGAAGTGCCCCGTAGAAT
*
6678605 TGCACCGTAGTGCC
1 TGCACCGAAGTGCC
6678619 ATATAATGAT
Statistics
Matches: 33, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
23 33 1.00
ACGTcount: A:0.23, C:0.28, G:0.27, T:0.22
Consensus pattern (23 bp):
TGCACCGAAGTGCCCCGTAGAAT
Found at i:6679474 original size:67 final size:66
Alignment explanation
Indices: 6679365--6679516 Score: 241
Period size: 67 Copynumber: 2.3 Consensus size: 66
6679355 TTTTTCTCAT
* * *
6679365 GGGGGAATCGGTTCCCCCCCCTGGGGTATCGGTTCCCCTCTAGTATTCTGGAATTTCATATCCGT
1 GGGGGTATCGGTT--CCCCCCTGGGGTATCGATTCCCCTCTAGTATTCTGGAAATTCATATCCGT
6679430 TGA
64 TGA
*
6679433 GGGGGTATCGGTTCCCCCCTGGGGGTATCGATTCCCCTCTAGTATTCTGGAAATTCATATTCGTT
1 GGGGGTATCGGTTCCCCCCT-GGGGTATCGATTCCCCTCTAGTATTCTGGAAATTCATATCCGTT
6679498 GA
65 GA
6679500 GGGGGTATCGGTTCCCC
1 GGGGGTATCGGTTCCCC
6679517 TTGAATGGGT
Statistics
Matches: 79, Mismatches: 4, Indels: 3
0.92 0.05 0.03
Matches are distributed among these distances:
66 7 0.09
67 60 0.76
68 12 0.15
ACGTcount: A:0.14, C:0.26, G:0.28, T:0.31
Consensus pattern (66 bp):
GGGGGTATCGGTTCCCCCCTGGGGTATCGATTCCCCTCTAGTATTCTGGAAATTCATATCCGTTG
A
Found at i:6685361 original size:10 final size:10
Alignment explanation
Indices: 6685343--6685401 Score: 57
Period size: 10 Copynumber: 5.7 Consensus size: 10
6685333 ATGCTTGAAG
*
6685343 AAAAAAGAAC
1 AAAAAAGAAA
*
6685353 AAGAAAGAAA
1 AAAAAAGAAA
6685363 AAAAAAGAAA
1 AAAAAAGAAA
6685373 GAAAAAA-AAA
1 -AAAAAAGAAA
*
6685383 AAGAAAAAAAA
1 AA-AAAAGAAA
6685394 GAAAAAAG
1 -AAAAAAG
6685402 GGGGTCAAGA
Statistics
Matches: 41, Mismatches: 4, Indels: 7
0.79 0.08 0.13
Matches are distributed among these distances:
9 2 0.05
10 24 0.59
11 13 0.32
12 2 0.05
ACGTcount: A:0.85, C:0.02, G:0.14, T:0.00
Consensus pattern (10 bp):
AAAAAAGAAA
Found at i:6685372 original size:14 final size:13
Alignment explanation
Indices: 6685340--6685397 Score: 75
Period size: 13 Copynumber: 4.5 Consensus size: 13
6685330 ATTATGCTTG
*
6685340 AAGAAA-AAAGAAC
1 AAGAAAGAAA-AAA
6685353 AAGAAAGAAAAAAA
1 AAGAAAG-AAAAAA
6685367 AAGAAAGAAAAAA
1 AAGAAAGAAAAAA
6685380 AA-AAAGAAAAAA
1 AAGAAAGAAAAAA
6685392 AAGAAA
1 AAGAAA
6685398 AAAGGGGGTC
Statistics
Matches: 41, Mismatches: 1, Indels: 6
0.85 0.02 0.12
Matches are distributed among these distances:
12 12 0.29
13 17 0.41
14 9 0.22
15 3 0.07
ACGTcount: A:0.84, C:0.02, G:0.14, T:0.00
Consensus pattern (13 bp):
AAGAAAGAAAAAA
Found at i:6685398 original size:14 final size:14
Alignment explanation
Indices: 6685343--6685398 Score: 60
Period size: 14 Copynumber: 3.8 Consensus size: 14
6685333 ATGCTTGAAG
6685343 AAAAAAGAACAAGAA
1 AAAAAAGAA-AAGAA
6685358 AGAAAAA-AAAAGAAA
1 A-AAAAAGAAAAG-AA
*
6685373 GAAAAAAAAAAAGAA
1 -AAAAAAGAAAAGAA
6685388 AAAAAAGAAAA
1 AAAAAAGAAAA
6685399 AAGGGGGTCA
Statistics
Matches: 36, Mismatches: 1, Indels: 9
0.78 0.02 0.20
Matches are distributed among these distances:
14 13 0.36
15 12 0.33
16 11 0.31
ACGTcount: A:0.86, C:0.02, G:0.12, T:0.00
Consensus pattern (14 bp):
AAAAAAGAAAAGAA
Found at i:6687654 original size:113 final size:113
Alignment explanation
Indices: 6687451--6687991 Score: 653
Period size: 113 Copynumber: 4.8 Consensus size: 113
6687441 GCAAAGATTC
* * * ** *
6687451 AAATCCATCATT-AGATGGATCAGCTTTTCCAGAGAAAGTTCATAATAAGAAGAACTCATCTGAA
1 AAATTCATCATTCA-ATGGATCAGCATTACCAGTTAGAGTTCATAATAAGAAGAACTCATCTGAA
*
6687515 GAAGGAAGAAAAAGTTCATAATGAGAAGAACTTGTTCAACTTTTTGCTT
65 GAAGGAAGAAGAAGTTCATAATGAGAAGAACTTGTTCAACTTTTTGCTT
* *
6687564 GAATTCATCATTCAATGGATCAGCATTACCAGTTCGAGTTCATAATAAGAAGAACTCATCTGAAG
1 AAATTCATCATTCAATGGATCAGCATTACCAGTTAGAGTTCATAATAAGAAGAACTCATCTGAAG
*
6687629 AAGGAAGAAGAAGTTCACAATGAGAAGAACTTGTT-AACCTTTTTGCTT
66 AAGGAAGAAGAAGTTCATAATGAGAAGAACTTGTTCAA-CTTTTTGCTT
*
6687677 ATAA-TCATCATTCAATGGATCAGCATTACCAGTTCGAGTTCATAATAAGAAGAACTCATCTGAA
1 A-AATTCATCATTCAATGGATCAGCATTACCAGTTAGAGTTCATAATAAGAAGAACTCATCTGAA
* * *
6687741 GAAGGAAGAAGAAGTTCATAATGAGAAGAATTTGTTCAACCTTTTGTTT
65 GAAGGAAGAAGAAGTTCATAATGAGAAGAACTTGTTCAACTTTTTGCTT
** * * * * *
6687790 AAATTCATCATTTGATGGATTAACATTGCCAGGTAGAGTTCATAATGAGAAGAACTCGTCATCTG
1 AAATTCATCATTCAATGGATCAGCATTACCAGTTAGAGTTCATAATAAGAAGAA--C-TCATCTG
* *
6687855 AAGAA-GAAG-A-AA-TTCATAATGAGAAGAATTTGTTCAACTTTTTGCTC
63 AAGAAGGAAGAAGAAGTTCATAATGAGAAGAACTTGTTCAACTTTTTGCTT
* * * * *
6687902 AAATCCATCACTT-GAT-GATCAGCTTTTCCAG--AGAAGTTCATAATGAGAAGAACTCATCT-A
1 AAATTCATCA-TTCAATGGATCAGCATTACCAGTTAG-AGTTCATAATAAGAAGAACTCATCTGA
6687962 A-AA--AAGAAGAAGTTCATAATGAGAAGAACT
64 AGAAGGAAGAAGAAGTTCATAATGAGAAGAACT
6687992 CATCTGAAGA
Statistics
Matches: 383, Mismatches: 32, Indels: 32
0.86 0.07 0.07
Matches are distributed among these distances:
104 3 0.01
105 3 0.01
106 4 0.01
107 23 0.06
108 1 0.00
109 2 0.01
110 18 0.05
111 11 0.03
112 48 0.13
113 247 0.64
114 6 0.02
115 5 0.01
116 12 0.03
ACGTcount: A:0.39, C:0.15, G:0.18, T:0.29
Consensus pattern (113 bp):
AAATTCATCATTCAATGGATCAGCATTACCAGTTAGAGTTCATAATAAGAAGAACTCATCTGAAG
AAGGAAGAAGAAGTTCATAATGAGAAGAACTTGTTCAACTTTTTGCTT
Found at i:6687977 original size:36 final size:36
Alignment explanation
Indices: 6687933--6688096 Score: 301
Period size: 36 Copynumber: 4.6 Consensus size: 36
6687923 GCTTTTCCAG
* *
6687933 AGAAGTTCATAATGAGAAGAACTCATCTAAAAAAGA
1 AGAAGTTCATAATGAGAAGAACTCATCTGAAGAAGA
6687969 AGAAGTTCATAATGAGAAGAACTCATCTGAAGAAGA
1 AGAAGTTCATAATGAGAAGAACTCATCTGAAGAAGA
6688005 AGAAGTTCATAATGAGAAGAACTCATCTGAAGAAGA
1 AGAAGTTCATAATGAGAAGAACTCATCTGAAGAAGA
6688041 AGAAGTTCATAATGAGAAGAACTCATCTGAAGAAGA
1 AGAAGTTCATAATGAGAAGAACTCATCTGAAGAAGA
*
6688077 AGAAGTTCACAATGAGAAGA
1 AGAAGTTCATAATGAGAAGA
6688097 GCTTGTTCAA
Statistics
Matches: 125, Mismatches: 3, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
36 125 1.00
ACGTcount: A:0.49, C:0.11, G:0.21, T:0.19
Consensus pattern (36 bp):
AGAAGTTCATAATGAGAAGAACTCATCTGAAGAAGA
Found at i:6688320 original size:120 final size:118
Alignment explanation
Indices: 6688043--6688311 Score: 364
Period size: 120 Copynumber: 2.3 Consensus size: 118
6688033 GAAGAAGAAG
*
6688043 AAGTTCATAATGAGAAGAACTCATCTGAAGAAGAAGAAGTTCACAATGAGAAGAGCTTGTTCAAC
1 AAGTTCATAATGAGAAGAACTCATCTGAAGAAGAAGAAGTTCACAATGAGAAGAGCTTATTCAAC
* * * * * * *
6688108 CTTTTGCATAATTCTATTACAGAAATAGATAGATTAGCATCAACCTTTCCAGAGA
66 CTTTTGAATAACTCTATCACAGAAAGAAATAGATCAACATCAACC--TCCAGAGA
6688163 AAGTTCATAATGAGAAGAACTCATCTGAAGAAGAAGAAGTTCACAATGAGAAGAGCTTATTCAAC
1 AAGTTCATAATGAGAAGAACTCATCTGAAGAAGAAGAAGTTCACAATGAGAAGAGCTTATTCAAC
* * * * *
6688228 CTTTTGAATGACTCTATCACAGAAGGAAATAGGTCAACTTCATCC-CCATCG-GA
66 CTTTTGAATAACTCTATCACAGAAAGAAATAGATCAACATCAACCTCCA--GAGA
6688281 AAGTTCATAATGAGAAG-ACTCATCTGAAGAA
1 AAGTTCATAATGAGAAGAACTCATCTGAAGAA
6688312 AGAAAAGAAT
Statistics
Matches: 134, Mismatches: 13, Indels: 7
0.87 0.08 0.05
Matches are distributed among these distances:
117 17 0.13
118 19 0.14
119 1 0.01
120 97 0.72
ACGTcount: A:0.40, C:0.17, G:0.18, T:0.25
Consensus pattern (118 bp):
AAGTTCATAATGAGAAGAACTCATCTGAAGAAGAAGAAGTTCACAATGAGAAGAGCTTATTCAAC
CTTTTGAATAACTCTATCACAGAAAGAAATAGATCAACATCAACCTCCAGAGA
Found at i:6688472 original size:3 final size:3
Alignment explanation
Indices: 6688464--6688517 Score: 74
Period size: 3 Copynumber: 18.0 Consensus size: 3
6688454 CCATTTTTAT
* *
6688464 TTA TTA TTA TTA TTA TAA TTA TTA TTA TTA -TA ATA TATA TTA TTA
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA T-TA TTA TTA
6688509 TTA TTA TTA
1 TTA TTA TTA
6688518 AAAAAATAAT
Statistics
Matches: 46, Mismatches: 3, Indels: 4
0.87 0.06 0.08
Matches are distributed among these distances:
2 2 0.04
3 41 0.89
4 3 0.07
ACGTcount: A:0.39, C:0.00, G:0.00, T:0.61
Consensus pattern (3 bp):
TTA
Found at i:6688487 original size:18 final size:19
Alignment explanation
Indices: 6688464--6688517 Score: 83
Period size: 21 Copynumber: 2.8 Consensus size: 19
6688454 CCATTTTTAT
6688464 TTATTATTATTATTATA-A
1 TTATTATTATTATTATATA
6688482 TTATTATTATTATAATATATA
1 TTATTATTATTAT--TATATA
6688503 TTATTATTATTATTA
1 TTATTATTATTATTA
6688518 AAAAAATAAT
Statistics
Matches: 33, Mismatches: 0, Indels: 5
0.87 0.00 0.13
Matches are distributed among these distances:
18 13 0.39
19 2 0.06
20 4 0.12
21 14 0.42
ACGTcount: A:0.39, C:0.00, G:0.00, T:0.61
Consensus pattern (19 bp):
TTATTATTATTATTATATA
Found at i:6688525 original size:27 final size:27
Alignment explanation
Indices: 6688474--6688525 Score: 68
Period size: 27 Copynumber: 1.9 Consensus size: 27
6688464 TTATTATTAT
** *
6688474 TATTATAATTATTATTATTATAATATA
1 TATTATAATTATTATTAAAAAAATATA
*
6688501 TATTATTATTATTATTAAAAAAATA
1 TATTATAATTATTATTAAAAAAATA
6688526 ATAGTTACAA
Statistics
Matches: 21, Mismatches: 4, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
27 21 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (27 bp):
TATTATAATTATTATTAAAAAAATATA
Found at i:6698530 original size:3 final size:3
Alignment explanation
Indices: 6698522--6698704 Score: 79
Period size: 3 Copynumber: 59.7 Consensus size: 3
6698512 TATGTATATC
* **
6698522 TAA TAA TAA TAA TAA TAA TAA TAC TAA TGT TAA TAA TAA TAA TAA TAA
1 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA
* * * * *
6698570 TAA -AGA CTTA TGA TAA -AA -AA TAA TAA TATG TGA TAT TAA TAA TATA
1 TAA TA-A -TAA TAA TAA TAA TAA TAA TAA TA-A TAA TAA TAA TAA TA-A
* * * * *
6698616 TAA T-A TTA TAC TAA TAA CATG TAA TAAA TAA TAA TTAG TAA TAA -AA
1 TAA TAA TAA TAA TAA TAA TA-A TAA T-AA TAA TAA -TAA TAA TAA TAA
* * * * * *
6698662 TAA AAA GAGA AAA TAA TAA TGA TAA TCTA TTA TAA TAA TAA TA
1 TAA TAA TA-A TAA TAA TAA TAA TAA T-AA TAA TAA TAA TAA TA
6698705 TAAAATATAC
Statistics
Matches: 135, Mismatches: 32, Indels: 26
0.70 0.17 0.13
Matches are distributed among these distances:
2 9 0.07
3 111 0.82
4 15 0.11
ACGTcount: A:0.58, C:0.03, G:0.05, T:0.34
Consensus pattern (3 bp):
TAA
Found at i:6700699 original size:17 final size:18
Alignment explanation
Indices: 6700666--6700699 Score: 52
Period size: 17 Copynumber: 1.9 Consensus size: 18
6700656 TCTTATGATA
6700666 TTTAATCTCCAAGGAATC
1 TTTAATCTCCAAGGAATC
*
6700684 TTTAAT-TCCAATGAAT
1 TTTAATCTCCAAGGAAT
6700700 ATACTATAAT
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
17 9 0.60
18 6 0.40
ACGTcount: A:0.35, C:0.18, G:0.09, T:0.38
Consensus pattern (18 bp):
TTTAATCTCCAAGGAATC
Found at i:6701609 original size:21 final size:21
Alignment explanation
Indices: 6701565--6701609 Score: 63
Period size: 21 Copynumber: 2.1 Consensus size: 21
6701555 GATTTCTGGG
* *
6701565 CAAGGGGAATCGATACCCATT
1 CAAGGGGAACCGATACCCACT
*
6701586 CAAGGGGAACCGATACCCCCT
1 CAAGGGGAACCGATACCCACT
6701607 CAA
1 CAA
6701610 ACGAACCAGA
Statistics
Matches: 21, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
21 21 1.00
ACGTcount: A:0.33, C:0.31, G:0.22, T:0.13
Consensus pattern (21 bp):
CAAGGGGAACCGATACCCACT
Found at i:6703722 original size:103 final size:103
Alignment explanation
Indices: 6703296--6703714 Score: 766
Period size: 103 Copynumber: 4.1 Consensus size: 103
6703286 GGGTCTACGC
*
6703296 GGTCCTTCGGGATATATATGTATTCTTTGGAACATGTGTGAAGTCTGGTGAGACACATACTTGAT
1 GGTCCTTCGGGACATATATGTATTCTTTGGAACATGTGTGAAGTCTGGTGAGACACATACTTGAT
6703361 CCTTGGCATATGTATATGATTCTTAAGGAATGATATGT
66 CCTTGGCATATGTATATGATTCTTAAGGAATGATATGT
6703399 GGTCCTTCGGGACATATATGTATTCTTTGGAACATGTGTGAAGTCTGGTGAGACACATACTTGAT
1 GGTCCTTCGGGACATATATGTATTCTTTGGAACATGTGTGAAGTCTGGTGAGACACATACTTGAT
*
6703464 CATTGGCATATGTATATGATTCTTAAGGAATGATATGT
66 CCTTGGCATATGTATATGATTCTTAAGGAATGATATGT
6703502 GGTCCTTCGGGACATATATGTATTCTTTGGAACATGTGTGAAGTCTGGTGAGACACATACTTGAT
1 GGTCCTTCGGGACATATATGTATTCTTTGGAACATGTGTGAAGTCTGGTGAGACACATACTTGAT
*
6703567 CCTTGGAATATGTATATGATTCTTAAGGAATGATATGT
66 CCTTGGCATATGTATATGATTCTTAAGGAATGATATGT
6703605 GGTCCTTCGGGACATATATGTATTCTTTGGAACATGTGTGAAGTCTGGTGAGACACATACTTGAT
1 GGTCCTTCGGGACATATATGTATTCTTTGGAACATGTGTGAAGTCTGGTGAGACACATACTTGAT
* * * *
6703670 CCCTAGTATATGTATATGATTCTTGAGGAATGATATGT
66 CCTTGGCATATGTATATGATTCTTAAGGAATGATATGT
*
6703708 AGTCCTT
1 GGTCCTT
6703715 ATGGACATTA
Statistics
Matches: 307, Mismatches: 9, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
103 307 1.00
ACGTcount: A:0.26, C:0.13, G:0.24, T:0.36
Consensus pattern (103 bp):
GGTCCTTCGGGACATATATGTATTCTTTGGAACATGTGTGAAGTCTGGTGAGACACATACTTGAT
CCTTGGCATATGTATATGATTCTTAAGGAATGATATGT
Found at i:6703768 original size:23 final size:23
Alignment explanation
Indices: 6703738--6703793 Score: 94
Period size: 23 Copynumber: 2.4 Consensus size: 23
6703728 TATGGTACTA
6703738 CGGTGCAATTCTACGCGGCACTC
1 CGGTGCAATTCTACGCGGCACTC
* *
6703761 CGGTGCAATTCTACGTGGCACTT
1 CGGTGCAATTCTACGCGGCACTC
6703784 CGGTGCAATT
1 CGGTGCAATT
6703794 ATATGAGCTG
Statistics
Matches: 31, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
23 31 1.00
ACGTcount: A:0.18, C:0.29, G:0.27, T:0.27
Consensus pattern (23 bp):
CGGTGCAATTCTACGCGGCACTC
Found at i:6704837 original size:59 final size:59
Alignment explanation
Indices: 6704627--6704829 Score: 347
Period size: 59 Copynumber: 3.5 Consensus size: 59
6704617 ATATTTTCAA
* *
6704627 TATGATTTCTTTATCA-TTTAGCACACTCAGTGCTCCATATGGAAAATC-ATACACTTAG
1 TATGATTTCCTTATCATTTTAGCACACTCAGTGCTCCATATGG-AAATCTATACACTCAG
*
6704685 TATGATTTCCTTATCATTTTAGCACACTCAGTGCTCTATATGGAAATCTATACACTCAG
1 TATGATTTCCTTATCATTTTAGCACACTCAGTGCTCCATATGGAAATCTATACACTCAG
*
6704744 TATGATTTCCTTATCATTTTAGCACATTCAGTGCTCCATATGGAAATCTATACACTCAG
1 TATGATTTCCTTATCATTTTAGCACACTCAGTGCTCCATATGGAAATCTATACACTCAG
6704803 TATGATTTCCTTATCATTTTAGCACAC
1 TATGATTTCCTTATCATTTTAGCACAC
6704830 AAAGTGCTAT
Statistics
Matches: 137, Mismatches: 6, Indels: 3
0.94 0.04 0.02
Matches are distributed among these distances:
58 20 0.15
59 117 0.85
ACGTcount: A:0.29, C:0.22, G:0.11, T:0.38
Consensus pattern (59 bp):
TATGATTTCCTTATCATTTTAGCACACTCAGTGCTCCATATGGAAATCTATACACTCAG
Found at i:6710716 original size:17 final size:18
Alignment explanation
Indices: 6710683--6710716 Score: 52
Period size: 17 Copynumber: 1.9 Consensus size: 18
6710673 TCTTATGATA
6710683 TTTAATCTCCAAGGAATC
1 TTTAATCTCCAAGGAATC
*
6710701 TTTAAT-TCCAATGAAT
1 TTTAATCTCCAAGGAAT
6710717 ATATTATAAT
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
17 9 0.60
18 6 0.40
ACGTcount: A:0.35, C:0.18, G:0.09, T:0.38
Consensus pattern (18 bp):
TTTAATCTCCAAGGAATC
Found at i:6710896 original size:59 final size:58
Alignment explanation
Indices: 6710833--6711191 Score: 336
Period size: 59 Copynumber: 6.1 Consensus size: 58
6710823 TAGCACTATC
* * * *
6710833 AGTGCTCCATCTGGAAAATCATACACTTAGTATGCTTCCCTTTTCATTTTAGCACACAA
1 AGTGCTCCATATGG-AAATCATACACTTAGTATGATTTCCTTATCATTTTAGCACACAA
* ** * * *
6710892 AGTGC-CC-TATTCGAAAATCCATAC-CATTAGTATGATTTTGTTACCGTTTTAGCACATAA
1 AGTGCTCCATA-T-GGAAAT-CATACAC-TTAGTATGATTTCCTTATCATTTTAGCACACAA
* * ** * **
6710951 TA-TGC-CTTATCTGGAAATCCATA-TTTTCAATATGATTTCCTTATCA-TTTAGCACACTC
1 -AGTGCTC-CATATGGAAAT-CATACACTT-AGTATGATTTCCTTATCATTTTAGCACACAA
**
6711009 AGTGCTCCATATGGAAAATCATACACTTAGTATGATTTCCTTATCATTTTAGCACACTC
1 AGTGCTCCATATGG-AAATCATACACTTAGTATGATTTCCTTATCATTTTAGCACACAA
* * **
6711068 AGTGCTCCATATGGAAATCTATACACTCAATATGATTTCCTTATCATTTTAGCACACTC
1 AGTGCTCCATATGGAAATC-ATACACTTAGTATGATTTCCTTATCATTTTAGCACACAA
* *
6711127 AGTGCTCCATATGGAAATCTATAAACTCAGTATGATTTCCTTATCATTTTAGCACACAA
1 AGTGCTCCATATGGAAATC-ATACACTTAGTATGATTTCCTTATCATTTTAGCACACAA
6711186 AGTGCT
1 AGTGCT
6711192 ATTCAGTAAT
Statistics
Matches: 252, Mismatches: 33, Indels: 30
0.80 0.10 0.10
Matches are distributed among these distances:
57 2 0.01
58 53 0.21
59 194 0.77
60 2 0.01
61 1 0.00
ACGTcount: A:0.30, C:0.22, G:0.12, T:0.36
Consensus pattern (58 bp):
AGTGCTCCATATGGAAATCATACACTTAGTATGATTTCCTTATCATTTTAGCACACAA
Found at i:6711039 original size:117 final size:118
Alignment explanation
Indices: 6710835--6711191 Score: 372
Period size: 118 Copynumber: 3.0 Consensus size: 118
6710825 GCACTATCAG
* * * * * * **
6710835 TGCTCCATCTGGAAAAT-CATACACTTAGTATGCTTCCCTTTTCATTTTAGCACACAAAGTGC-C
1 TGCTCCATATGG-AAATCCATACACTCAATATGATTTCCTTATCATTTTAGCACACTCAGTGCTC
* ** * *
6710898 C-TATTCGAAAATCCATAC-CATTAGTATGATTTTGTTACCGTTTTAGCACA-TAATA
65 CATA-TGGAAAAT-CATACAC-TTAGTATGATTTCCTTATCATTTTAGCACACTAA-A
* * ***
6710953 TGC-CTTATCTGGAAATCCATATTTTCAATATGATTTCCTTATCA-TTTAGCACACTCAGTGCTC
1 TGCTC-CATATGGAAATCCATACACTCAATATGATTTCCTTATCATTTTAGCACACTCAGTGCTC
* *
6711016 CATATGGAAAATCATACACTTAGTATGATTTCCTTATCATTTTAGCACACTCAG
65 CATATGGAAAATCATACACTTAGTATGATTTCCTTATCATTTTAGCACACTAAA
*
6711070 TGCTCCATATGGAAATCTATACACTCAATATGATTTCCTTATCATTTTAGCACACTCAGTGCTCC
1 TGCTCCATATGGAAATCCATACACTCAATATGATTTCCTTATCATTTTAGCACACTCAGTGCTCC
* *
6711135 ATATGG-AAATCTATAAACTCAGTATGATTTCCTTATCATTTTAGCACAC-AAA
66 ATATGGAAAATC-ATACACTTAGTATGATTTCCTTATCATTTTAGCACACTAAA
6711187 GTGCT
1 -TGCT
6711192 ATTCAGTAAT
Statistics
Matches: 201, Mismatches: 28, Indels: 20
0.81 0.11 0.08
Matches are distributed among these distances:
117 93 0.46
118 106 0.53
119 2 0.01
ACGTcount: A:0.30, C:0.22, G:0.11, T:0.36
Consensus pattern (118 bp):
TGCTCCATATGGAAATCCATACACTCAATATGATTTCCTTATCATTTTAGCACACTCAGTGCTCC
ATATGGAAAATCATACACTTAGTATGATTTCCTTATCATTTTAGCACACTAAA
Found at i:6711144 original size:176 final size:176
Alignment explanation
Indices: 6710808--6711183 Score: 413
Period size: 176 Copynumber: 2.1 Consensus size: 176
6710798 AATTCAAGTA
* * * *
6710808 ATTTCCTTTTAATATTAGCACTA-TCAGTGCTCCATCTGGAAAATCATACACTTAGTATGCTTCC
1 ATTTCCTTATCAT-TTAGCAC-ACTCAGTGCTCCATATGGAAAATCATACACTTAGTATGATTCC
* * * **
6710872 CTTTTCATTTTAGCACACAAAGTGCCCTATTCGAAAATCCATACCATTAGTATGATTTTGTTACC
64 CTTATCATTTTAGCACACAAAGTGCCCTATTCGAAAATCCATACCATCAATATGATTTCCTTACC
* * * ***
6710937 GTTTTAGCACATAATATGCCTTATCTGGAAATCCATATTTTCAATATG
129 ATTTTAGCACATAATATGCCTCATATGGAAATCCATAAACTCAATATG
*
6710985 ATTTCCTTATCATTTAGCACACTCAGTGCTCCATATGGAAAATCATACACTTAGTATGATTTCCT
1 ATTTCCTTATCATTTAGCACACTCAGTGCTCCATATGGAAAATCATACACTTAGTATGATTCCCT
** * * *
6711050 TATCATTTTAGCACACTCAGTGCTCC-ATAT-GGAAATCTATA-CACTCAATATGATTTCCTTAT
66 TATCATTTTAGCACACAAAGTGC-CCTAT-TCGAAAATCCATACCA-TCAATATGATTTCCTTAC
* * * *
6711112 CATTTTAGCACACTCA-GTG-CTCCATATGGAAATCTATAAACTCAGTATG
128 CATTTTAGCACA-TAATATGCCT-CATATGGAAATCCATAAACTCAATATG
6711161 ATTTCCTTATCATTTTAGCACAC
1 ATTTCCTTATCA-TTTAGCACAC
6711184 AAAGTGCTAT
Statistics
Matches: 167, Mismatches: 25, Indels: 14
0.81 0.12 0.07
Matches are distributed among these distances:
175 5 0.03
176 136 0.81
177 26 0.16
ACGTcount: A:0.30, C:0.22, G:0.11, T:0.37
Consensus pattern (176 bp):
ATTTCCTTATCATTTAGCACACTCAGTGCTCCATATGGAAAATCATACACTTAGTATGATTCCCT
TATCATTTTAGCACACAAAGTGCCCTATTCGAAAATCCATACCATCAATATGATTTCCTTACCAT
TTTAGCACATAATATGCCTCATATGGAAATCCATAAACTCAATATG
Found at i:6715753 original size:18 final size:18
Alignment explanation
Indices: 6715722--6715759 Score: 51
Period size: 18 Copynumber: 2.1 Consensus size: 18
6715712 TAAAACATGG
*
6715722 TATATTTTATATATAGTA
1 TATATTTTATATATAATA
6715740 TATAGTTTTA-ATATAATA
1 TATA-TTTTATATATAATA
6715758 TA
1 TA
6715760 ACATATATTT
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
18 13 0.72
19 5 0.28
ACGTcount: A:0.42, C:0.00, G:0.05, T:0.53
Consensus pattern (18 bp):
TATATTTTATATATAATA
Found at i:6717910 original size:18 final size:18
Alignment explanation
Indices: 6717889--6717923 Score: 54
Period size: 18 Copynumber: 1.9 Consensus size: 18
6717879 TTAATTTTTT
6717889 ATTCTTTTAT-TTTCTTTA
1 ATTC-TTTATCTTTCTTTA
6717907 ATTCTTTATCTTTCTTT
1 ATTCTTTATCTTTCTTT
6717924 TATTTATATA
Statistics
Matches: 16, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
17 5 0.31
18 11 0.69
ACGTcount: A:0.14, C:0.14, G:0.00, T:0.71
Consensus pattern (18 bp):
ATTCTTTATCTTTCTTTA
Found at i:6718545 original size:90 final size:90
Alignment explanation
Indices: 6718392--6718572 Score: 344
Period size: 90 Copynumber: 2.0 Consensus size: 90
6718382 AAATTTTGCT
6718392 TAAGTACCCAAATAAGTGTACACAGGGGAGAAATTATCTATAACTTTTTATTCTGAATCAATGCA
1 TAAGTACCCAAATAAGTGTACACAGGGGAGAAATTATCTATAACTTTTTATTCTGAATCAATGCA
*
6718457 TTTGAACTAGAAAATCATACGGGCA
66 TTTGAACTAGAAAATCATACGAGCA
*
6718482 TAAGTACCCAAATAAGTGTACACATGGGAGAAATTATCTATAACTTTTTATTCTGAATCAATGCA
1 TAAGTACCCAAATAAGTGTACACAGGGGAGAAATTATCTATAACTTTTTATTCTGAATCAATGCA
6718547 TTTGAACTAGAAAATCATACGAGCA
66 TTTGAACTAGAAAATCATACGAGCA
6718572 T
1 T
6718573 GAGTCATTAT
Statistics
Matches: 89, Mismatches: 2, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
90 89 1.00
ACGTcount: A:0.39, C:0.15, G:0.15, T:0.30
Consensus pattern (90 bp):
TAAGTACCCAAATAAGTGTACACAGGGGAGAAATTATCTATAACTTTTTATTCTGAATCAATGCA
TTTGAACTAGAAAATCATACGAGCA
Found at i:6729818 original size:3 final size:3
Alignment explanation
Indices: 6729810--6729834 Score: 50
Period size: 3 Copynumber: 8.3 Consensus size: 3
6729800 CTTTTAATAC
6729810 ATT ATT ATT ATT ATT ATT ATT ATT A
1 ATT ATT ATT ATT ATT ATT ATT ATT A
6729835 ATGTTACATA
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 22 1.00
ACGTcount: A:0.36, C:0.00, G:0.00, T:0.64
Consensus pattern (3 bp):
ATT
Found at i:6732000 original size:17 final size:18
Alignment explanation
Indices: 6731966--6732002 Score: 58
Period size: 18 Copynumber: 2.1 Consensus size: 18
6731956 TGTTGAGTAC
6731966 ATATTTTAATTACTTTTA
1 ATATTTTAATTACTTTTA
*
6731984 ATATTTTTATT-CTTTTA
1 ATATTTTAATTACTTTTA
6732001 AT
1 AT
6732003 TTAATTCTTG
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
17 8 0.44
18 10 0.56
ACGTcount: A:0.30, C:0.05, G:0.00, T:0.65
Consensus pattern (18 bp):
ATATTTTAATTACTTTTA
Found at i:6738394 original size:21 final size:20
Alignment explanation
Indices: 6738370--6738418 Score: 57
Period size: 18 Copynumber: 2.5 Consensus size: 20
6738360 CTTTATTCTC
*
6738370 TTATTTTTATTTAAATTGCTT
1 TTATTTTTATTT-AATCGCTT
6738391 TTA--TTTATTTAATCGCTT
1 TTATTTTTATTTAATCGCTT
6738409 TTATTATTTA
1 TTATT-TTTA
6738419 AATATCTCAT
Statistics
Matches: 24, Mismatches: 1, Indels: 6
0.77 0.03 0.19
Matches are distributed among these distances:
18 10 0.42
19 7 0.29
21 7 0.29
ACGTcount: A:0.24, C:0.06, G:0.04, T:0.65
Consensus pattern (20 bp):
TTATTTTTATTTAATCGCTT
Found at i:6738410 original size:18 final size:18
Alignment explanation
Indices: 6738375--6738419 Score: 65
Period size: 18 Copynumber: 2.5 Consensus size: 18
6738365 TTCTCTTATT
*
6738375 TTTATTTAAATTGCTTTTA
1 TTTATTT-AATCGCTTTTA
6738394 TTTATTTAATCGCTTTTA
1 TTTATTTAATCGCTTTTA
6738412 -TTATTTAA
1 TTTATTTAA
6738420 ATATCTCATT
Statistics
Matches: 25, Mismatches: 1, Indels: 2
0.89 0.04 0.07
Matches are distributed among these distances:
17 8 0.32
18 10 0.40
19 7 0.28
ACGTcount: A:0.27, C:0.07, G:0.04, T:0.62
Consensus pattern (18 bp):
TTTATTTAATCGCTTTTA
Found at i:6754645 original size:23 final size:23
Alignment explanation
Indices: 6754614--6754668 Score: 94
Period size: 23 Copynumber: 2.4 Consensus size: 23
6754604 CGGAGTTATC
*
6754614 AATAT-ATATAGTATATAGTTTT
1 AATATGATATAGCATATAGTTTT
6754636 AATATGATATAGCATATAGTTTT
1 AATATGATATAGCATATAGTTTT
6754659 AATATGATAT
1 AATATGATAT
6754669 CATATAATTT
Statistics
Matches: 31, Mismatches: 1, Indels: 1
0.94 0.03 0.03
Matches are distributed among these distances:
22 5 0.16
23 26 0.84
ACGTcount: A:0.42, C:0.02, G:0.11, T:0.45
Consensus pattern (23 bp):
AATATGATATAGCATATAGTTTT
Found at i:6754674 original size:21 final size:22
Alignment explanation
Indices: 6754626--6754674 Score: 82
Period size: 23 Copynumber: 2.2 Consensus size: 22
6754616 TATATATAGT
6754626 ATATAGTTTTAATATGATATAGC
1 ATATAGTTTTAATATGATATA-C
6754649 ATATAGTTTTAATATGATAT-C
1 ATATAGTTTTAATATGATATAC
6754670 ATATA
1 ATATA
6754675 ATTTGTTTTT
Statistics
Matches: 26, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
21 6 0.23
23 20 0.77
ACGTcount: A:0.41, C:0.04, G:0.10, T:0.45
Consensus pattern (22 bp):
ATATAGTTTTAATATGATATAC
Found at i:6754694 original size:26 final size:26
Alignment explanation
Indices: 6754655--6754709 Score: 101
Period size: 26 Copynumber: 2.1 Consensus size: 26
6754645 TAGCATATAG
*
6754655 TTTTAATATGATATCATATAATTTGT
1 TTTTAATATAATATCATATAATTTGT
6754681 TTTTAATATAATATCATATAATTTGT
1 TTTTAATATAATATCATATAATTTGT
6754707 TTT
1 TTT
6754710 CTTATAAAGT
Statistics
Matches: 28, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
26 28 1.00
ACGTcount: A:0.35, C:0.04, G:0.05, T:0.56
Consensus pattern (26 bp):
TTTTAATATAATATCATATAATTTGT
Found at i:6755525 original size:5 final size:5
Alignment explanation
Indices: 6755509--6755539 Score: 53
Period size: 5 Copynumber: 6.0 Consensus size: 5
6755499 AGAACTTAAG
6755509 AAAGA TAAAGA AAAGA AAAGA AAAGA AAAGA
1 AAAGA -AAAGA AAAGA AAAGA AAAGA AAAGA
6755540 GTGGATGGTT
Statistics
Matches: 25, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
5 20 0.80
6 5 0.20
ACGTcount: A:0.77, C:0.00, G:0.19, T:0.03
Consensus pattern (5 bp):
AAAGA
Found at i:6757586 original size:33 final size:35
Alignment explanation
Indices: 6757544--6757612 Score: 115
Period size: 33 Copynumber: 2.0 Consensus size: 35
6757534 ATTAAGCGTA
6757544 ATATTTAGAAATGATG-T-TGATAGCTGATTGTGT
1 ATATTTAGAAATGATGTTCTGATAGCTGATTGTGT
6757577 ATATTTAGAAATGATGTTGCTGATAGCTGATTGTGT
1 ATATTTAGAAATGATGTT-CTGATAGCTGATTGTGT
6757613 GTTTGAGTAT
Statistics
Matches: 33, Mismatches: 0, Indels: 3
0.92 0.00 0.08
Matches are distributed among these distances:
33 16 0.48
34 1 0.03
36 16 0.48
ACGTcount: A:0.29, C:0.04, G:0.25, T:0.42
Consensus pattern (35 bp):
ATATTTAGAAATGATGTTCTGATAGCTGATTGTGT
Found at i:6758408 original size:42 final size:42
Alignment explanation
Indices: 6758346--6758572 Score: 339
Period size: 42 Copynumber: 5.4 Consensus size: 42
6758336 AGCAAAAGAG
*
6758346 CCTGGGGAAACTGTAAGGCTTACCCTTGCACACAGCAAAGGAA
1 CCTGGGG-AACTGTAAGGCTTACCCTTGCACACAACAAAGGAA
** *
6758389 CCTGGAAAACTGTATGGCTTACCCTTGCACACAACAAATGG-A
1 CCTGGGGAACTGTAAGGCTTACCCTTGCACACAACAAA-GGAA
** *
6758431 CCTGGGGAACTGTAAGGCTTACCCTTGCACACAGTAAAGGGA
1 CCTGGGGAACTGTAAGGCTTACCCTTGCACACAACAAAGGAA
*
6758473 CCTGGGGAACTGTAAGGCTTACCCTTGCACACAACAAAGGGA
1 CCTGGGGAACTGTAAGGCTTACCCTTGCACACAACAAAGGAA
*
6758515 CCTGGGGAACTATAAGGCTTACCCTTGCACACAACAAAGGAA
1 CCTGGGGAACTGTAAGGCTTACCCTTGCACACAACAAAGGAA
6758557 CCTGGGGGAACTGTAA
1 CCT-GGGGAACTGTAA
6758573 CGGTAATTAA
Statistics
Matches: 167, Mismatches: 14, Indels: 6
0.89 0.07 0.03
Matches are distributed among these distances:
41 2 0.01
42 147 0.88
43 18 0.11
ACGTcount: A:0.32, C:0.25, G:0.25, T:0.18
Consensus pattern (42 bp):
CCTGGGGAACTGTAAGGCTTACCCTTGCACACAACAAAGGAA
Found at i:6761479 original size:22 final size:23
Alignment explanation
Indices: 6761449--6761496 Score: 64
Period size: 22 Copynumber: 2.1 Consensus size: 23
6761439 CACATTCTGG
6761449 AAATATTTAC-CAAACTAACACCC
1 AAATATTTACACAAAC-AACACCC
*
6761472 AAAT-TTTACACAAACAGCACCC
1 AAATATTTACACAAACAACACCC
6761494 AAA
1 AAA
6761497 CATAAATTAA
Statistics
Matches: 23, Mismatches: 1, Indels: 3
0.85 0.04 0.11
Matches are distributed among these distances:
22 14 0.61
23 9 0.39
ACGTcount: A:0.50, C:0.29, G:0.02, T:0.19
Consensus pattern (23 bp):
AAATATTTACACAAACAACACCC
Found at i:6763494 original size:42 final size:42
Alignment explanation
Indices: 6763412--6763660 Score: 268
Period size: 42 Copynumber: 5.8 Consensus size: 42
6763402 AGGTCTTATA
* * * * *
6763412 CTTGCACATAGCAAAAGAGCGTGGGGAAACTGTAACGCTTACC
1 CTTGCACACAGCAAAGGAACCT-GGGAAACTGTAAGGCTTACC
*
6763455 CTTGCACACAGCAAAGGAACCTGGAAAACTGTAAGGCTTACC
1 CTTGCACACAGCAAAGGAACCTGGGAAACTGTAAGGCTTACC
* * * *
6763497 CTTGCACATAGCAAATGAACCTGGGGGGAAACTGCAAGGCTTACT
1 CTTGCACACAGCAAAGGAACCT---GGGAAACTGTAAGGCTTACC
* * *
6763542 CTTGCACACATCAAAGGGACCTGGGGGAACTGTAAGGCTTACC
1 CTTGCACACAGCAAAGGAACCT-GGGAAACTGTAAGGCTTACC
* * *
6763585 CTTGCACATAACAAATGG-ACCTGGGGAACTGTAAGGCTTACC
1 CTTGCACACAGCAAA-GGAACCTGGGAAACTGTAAGGCTTACC
*
6763627 CTTGCACACAGCAAA-GAGACCTGGGGAACTGTAA
1 CTTGCACACAGCAAAGGA-ACCTGGGAAACTGTAA
6763661 CGGTAATCAA
Statistics
Matches: 178, Mismatches: 22, Indels: 13
0.84 0.10 0.06
Matches are distributed among these distances:
40 1 0.01
42 87 0.49
43 53 0.30
44 2 0.01
45 35 0.20
ACGTcount: A:0.32, C:0.24, G:0.25, T:0.18
Consensus pattern (42 bp):
CTTGCACACAGCAAAGGAACCTGGGAAACTGTAAGGCTTACC
Found at i:6763510 original size:85 final size:85
Alignment explanation
Indices: 6763412--6763660 Score: 324
Period size: 85 Copynumber: 2.9 Consensus size: 85
6763402 AGGTCTTATA
* *
6763412 CTTGCACATAGCAAAAGAGCGTGGGGAAACTGTAACGCTTACCCTTGCACACAGCAAAGGAACCT
1 CTTGCACATAGCAAATGAGCGTGGGGAAACTGTAAGGCTTACCCTTGCACACAGCAAAGGAACCT
**
6763477 GGAAAACTGTAAGGCTTACC
66 GGGGAACTGTAAGGCTTACC
* * * * * *
6763497 CTTGCACATAGCAAATGAACCTGGGGGGAAACTGCAAGGCTTACTCTTGCACACATCAAAGGGAC
1 CTTGCACATAGCAAATG-AGC-GTGGGGAAACTGTAAGGCTTACCCTTGCACACAGCAAAGGAAC
6763562 CTGGGGGAACTGTAAGGCTTACC
64 CT-GGGGAACTGTAAGGCTTACC
* *
6763585 CTTGCACATAACAAATG-GACCTGGGG-AACTGTAAGGCTTACCCTTGCACACAGCAAA-GAGAC
1 CTTGCACATAGCAAATGAG-CGTGGGGAAACTGTAAGGCTTACCCTTGCACACAGCAAAGGA-AC
6763647 CTGGGGAACTGTAA
64 CTGGGGAACTGTAA
6763661 CGGTAATCAA
Statistics
Matches: 141, Mismatches: 18, Indels: 11
0.83 0.11 0.06
Matches are distributed among these distances:
84 13 0.09
85 48 0.34
86 6 0.04
87 40 0.28
88 34 0.24
ACGTcount: A:0.32, C:0.24, G:0.25, T:0.18
Consensus pattern (85 bp):
CTTGCACATAGCAAATGAGCGTGGGGAAACTGTAAGGCTTACCCTTGCACACAGCAAAGGAACCT
GGGGAACTGTAAGGCTTACC
Found at i:6768583 original size:42 final size:43
Alignment explanation
Indices: 6768498--6768746 Score: 315
Period size: 42 Copynumber: 5.8 Consensus size: 43
6768488 AGGTCTTATA
* * * *
6768498 CTTGCACATAGCAAAAGAGCCTGGGGAAACTATAAGGCTTACC
1 CTTGCACACAGCAAAGGAACCTGGGGAAACTGTAAGGCTTACC
*
6768541 CTTGCACACAGCAAAGGAACCT-GGAAAACTGTAAGGCTTACC
1 CTTGCACACAGCAAAGGAACCTGGGGAAACTGTAAGGCTTACC
* *
6768583 CTTGCACACAACAAATGAACCTGGGGGAAAACTGTAAGGCTTACC
1 CTTGCACACAGCAAAGGAACCT-GGGG-AAACTGTAAGGCTTACC
* ** * *
6768628 CTTGCACAAATTAAAGGGACCTGGGGGAACTGTAAGGCTTACC
1 CTTGCACACAGCAAAGGAACCTGGGGAAACTGTAAGGCTTACC
* *
6768671 CTTGCACACAACAAAGGGACCTGGGG-AACTGTAAGGCTTACC
1 CTTGCACACAGCAAAGGAACCTGGGGAAACTGTAAGGCTTACC
* *
6768713 TTTGCACACAGCAAAGGGACCTGGGG-AACTGTAA
1 CTTGCACACAGCAAAGGAACCTGGGGAAACTGTAA
6768747 CGGTAATCAA
Statistics
Matches: 184, Mismatches: 19, Indels: 7
0.88 0.09 0.03
Matches are distributed among these distances:
42 86 0.47
43 58 0.32
44 6 0.03
45 34 0.18
ACGTcount: A:0.33, C:0.24, G:0.25, T:0.18
Consensus pattern (43 bp):
CTTGCACACAGCAAAGGAACCTGGGGAAACTGTAAGGCTTACC
Found at i:6771033 original size:35 final size:35
Alignment explanation
Indices: 6770978--6771045 Score: 93
Period size: 35 Copynumber: 1.9 Consensus size: 35
6770968 TATTGCAAGA
**
6770978 ATGGTACCGATACCTCCACTTTGGTATCGATACTC
1 ATGGTACCGATACCTCCACTTCAGTATCGATACTC
*
6771013 ATGGTACCGATA-CTATCACTTCAGTATCGATAC
1 ATGGTACCGATACCT-CCACTTCAGTATCGATAC
6771046 CCCATGAAGA
Statistics
Matches: 29, Mismatches: 3, Indels: 2
0.85 0.09 0.06
Matches are distributed among these distances:
34 2 0.07
35 27 0.93
ACGTcount: A:0.26, C:0.26, G:0.16, T:0.31
Consensus pattern (35 bp):
ATGGTACCGATACCTCCACTTCAGTATCGATACTC
Found at i:6772001 original size:14 final size:14
Alignment explanation
Indices: 6771965--6772002 Score: 58
Period size: 14 Copynumber: 2.7 Consensus size: 14
6771955 TCTAACAAAA
*
6771965 CACCTTGGCTTGCT
1 CACCTTGGTTTGCT
6771979 CACCTTGGTTTGCT
1 CACCTTGGTTTGCT
*
6771993 CGCCTTGGTT
1 CACCTTGGTT
6772003 AACACCACTA
Statistics
Matches: 22, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
14 22 1.00
ACGTcount: A:0.05, C:0.32, G:0.24, T:0.39
Consensus pattern (14 bp):
CACCTTGGTTTGCT
Found at i:6774140 original size:117 final size:117
Alignment explanation
Indices: 6774010--6774221 Score: 259
Period size: 117 Copynumber: 1.8 Consensus size: 117
6774000 TTTCACGCCG
* * * * *
6774010 AGCTTTACTTCATTT-GTACAATCACGCTCCTTGTGTGGTCCCC--CATACTGGAAACACTTCAA
1 AGCTTTACTTCATTTGGGAAAATCACG-GCCTTATGTGATCCCCAACATA--GGAAACACTTCAA
* * *
6774072 TGGCTCTTGCTTCTTTACCCTCGGCTTTTCTGCTTCGCCGCTTGCATTGGCACCA
63 TGGATCTTGCTTATTTACCCTCGGCTTTCCTGCTTCGCCGCTTGCATTGGCACCA
* ** * *
6774127 AGCTTTTCTTCATTTGGGAAAATCTTGGCCTTATGTGATCCCTAACATAGGAAACACTTCAGTGG
1 AGCTTTACTTCATTTGGGAAAATCACGGCCTTATGTGATCCCCAACATAGGAAACACTTCAATGG
6774192 ATCTTGCTTATTTACCCTCGGCTTTCCTGC
66 ATCTTGCTTATTTACCCTCGGCTTTCCTGC
6774222 GCCACTCGCA
Statistics
Matches: 79, Mismatches: 13, Indels: 6
0.81 0.13 0.06
Matches are distributed among these distances:
117 68 0.86
118 7 0.09
119 4 0.05
ACGTcount: A:0.18, C:0.28, G:0.17, T:0.36
Consensus pattern (117 bp):
AGCTTTACTTCATTTGGGAAAATCACGGCCTTATGTGATCCCCAACATAGGAAACACTTCAATGG
ATCTTGCTTATTTACCCTCGGCTTTCCTGCTTCGCCGCTTGCATTGGCACCA
Found at i:6776159 original size:45 final size:44
Alignment explanation
Indices: 6776110--6776229 Score: 159
Period size: 45 Copynumber: 2.7 Consensus size: 44
6776100 ATAGCATCCA
**
6776110 TTCATGCTTATAATGCACCATTATGCATTTCAATTATGACATCAT
1 TTCATGCCGATAATGCACCA-TATGCATTTCAATTATGACATCAT
* * *
6776155 TTCATGCCGATAATACACCCATATGCATTTCAATTATGGCATCTT
1 TTCATGCCGATAATGCA-CCATATGCATTTCAATTATGACATCAT
*
6776200 TTCATGCCGATAATGCACCCATATACATTT
1 TTCATGCCGATAATGCA-CCATATGCATTT
6776230 ATTATTATTA
Statistics
Matches: 67, Mismatches: 7, Indels: 2
0.88 0.09 0.03
Matches are distributed among these distances:
45 64 0.96
46 3 0.04
ACGTcount: A:0.30, C:0.23, G:0.10, T:0.37
Consensus pattern (44 bp):
TTCATGCCGATAATGCACCATATGCATTTCAATTATGACATCAT
Found at i:6783023 original size:45 final size:45
Alignment explanation
Indices: 6782974--6783309 Score: 494
Period size: 45 Copynumber: 7.5 Consensus size: 45
6782964 ATTAATGCTT
* *
6782974 ATAATGCA-CCATTATGCATTTCAATTATGGTATCATTTCATGCCG
1 ATAATGCACCCA-TATGCATTTCAATTATGGCATCCTTTCATGCCG
* * * *
6783019 ATAATGCACCCATATGAATTTCAATTAAGGCATCTTTTCATGTCG
1 ATAATGCACCCATATGCATTTCAATTATGGCATCCTTTCATGCCG
* * *
6783064 ATAATGCACCCATATGCATTTCACTTATGGGATCCTTTCATGCTG
1 ATAATGCACCCATATGCATTTCAATTATGGCATCCTTTCATGCCG
* *
6783109 ATAATGCACCCATATGCATTTCAATTATGACATCCTTTCATGCTG
1 ATAATGCACCCATATGCATTTCAATTATGGCATCCTTTCATGCCG
*
6783154 ATAATGCACCCATATGTATTTCAATTATGGCATCCTTTCATGCCG
1 ATAATGCACCCATATGCATTTCAATTATGGCATCCTTTCATGCCG
* *
6783199 ATAATGCACCTATATGCATTTCAATTATGGCATCATTTCATGCCG
1 ATAATGCACCCATATGCATTTCAATTATGGCATCCTTTCATGCCG
* * * *
6783244 ATAATTCACCCATATGCATTTCAATTATGACATTCTTTCATGTCG
1 ATAATGCACCCATATGCATTTCAATTATGGCATCCTTTCATGCCG
6783289 ATAATGCACCCATATGCATTT
1 ATAATGCACCCATATGCATTT
6783310 ATTATTATTA
Statistics
Matches: 262, Mismatches: 28, Indels: 2
0.90 0.10 0.01
Matches are distributed among these distances:
45 259 0.99
46 3 0.01
ACGTcount: A:0.29, C:0.23, G:0.12, T:0.36
Consensus pattern (45 bp):
ATAATGCACCCATATGCATTTCAATTATGGCATCCTTTCATGCCG
Found at i:6789846 original size:18 final size:18
Alignment explanation
Indices: 6789823--6789902 Score: 83
Period size: 17 Copynumber: 4.6 Consensus size: 18
6789813 TTTATGAGGA
*
6789823 AATTAGAATTTGTGAAGG
1 AATTAGAATCTGTGAAGG
* *
6789841 AATTAGAATCTGT-CAGA
1 AATTAGAATCTGTGAAGG
* *
6789858 AATTGGAACCTGTGAAGG
1 AATTAGAATCTGTGAAGG
*
6789876 AATTAGAATCTGT-CAGG
1 AATTAGAATCTGTGAAGG
*
6789893 AATTGGAATC
1 AATTAGAATC
6789903 CAGTTCCATA
Statistics
Matches: 50, Mismatches: 11, Indels: 3
0.78 0.17 0.05
Matches are distributed among these distances:
17 25 0.50
18 25 0.50
ACGTcount: A:0.38, C:0.09, G:0.25, T:0.29
Consensus pattern (18 bp):
AATTAGAATCTGTGAAGG
Found at i:6789872 original size:35 final size:35
Alignment explanation
Indices: 6789833--6789900 Score: 127
Period size: 35 Copynumber: 1.9 Consensus size: 35
6789823 AATTAGAATT
6789833 TGTGAAGGAATTAGAATCTGTCAGAAATTGGAACC
1 TGTGAAGGAATTAGAATCTGTCAGAAATTGGAACC
*
6789868 TGTGAAGGAATTAGAATCTGTCAGGAATTGGAA
1 TGTGAAGGAATTAGAATCTGTCAGAAATTGGAA
6789901 TCCAGTTCCA
Statistics
Matches: 32, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
35 32 1.00
ACGTcount: A:0.37, C:0.09, G:0.28, T:0.26
Consensus pattern (35 bp):
TGTGAAGGAATTAGAATCTGTCAGAAATTGGAACC
Found at i:6791031 original size:10 final size:10
Alignment explanation
Indices: 6791016--6791043 Score: 56
Period size: 10 Copynumber: 2.8 Consensus size: 10
6791006 GAATTAGATT
6791016 CCAATTCCCA
1 CCAATTCCCA
6791026 CCAATTCCCA
1 CCAATTCCCA
6791036 CCAATTCC
1 CCAATTCC
6791044 AAGAGATTCA
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
10 18 1.00
ACGTcount: A:0.29, C:0.50, G:0.00, T:0.21
Consensus pattern (10 bp):
CCAATTCCCA
Found at i:6792269 original size:12 final size:12
Alignment explanation
Indices: 6792222--6792271 Score: 50
Period size: 12 Copynumber: 4.2 Consensus size: 12
6792212 TTTGGCTACG
*
6792222 TAAGTATTAAGA
1 TAAGTATTAAAA
* *
6792234 TAAGGA-AAAAA
1 TAAGTATTAAAA
6792245 TTAAGTATT-AAA
1 -TAAGTATTAAAA
6792257 TAAGTATTAAAA
1 TAAGTATTAAAA
6792269 TAA
1 TAA
6792272 TTTGTCATAA
Statistics
Matches: 30, Mismatches: 5, Indels: 6
0.73 0.12 0.15
Matches are distributed among these distances:
11 11 0.37
12 19 0.63
ACGTcount: A:0.58, C:0.00, G:0.12, T:0.30
Consensus pattern (12 bp):
TAAGTATTAAAA
Found at i:6794006 original size:29 final size:29
Alignment explanation
Indices: 6793944--6794166 Score: 347
Period size: 29 Copynumber: 7.7 Consensus size: 29
6793934 CCACATTCAA
* *
6793944 AATTACAAAAATATCACCTTTTTTAAAAAT
1 AATTACCAAAATATCACC-GTTTTAAAAAT
*
6793974 AATTACCAGAATATCACCGTTTTAAAAAT
1 AATTACCAAAATATCACCGTTTTAAAAAT
*
6794003 AATTACCAGAATATCACCGTTTTAAAAAT
1 AATTACCAAAATATCACCGTTTTAAAAAT
* **
6794032 AATTACCAGAATATCACTATTTTAAAAAT
1 AATTACCAAAATATCACCGTTTTAAAAAT
6794061 AATTACCAAAATATCACCGTTTTAAAAAT
1 AATTACCAAAATATCACCGTTTTAAAAAT
* *
6794090 AATTACCAAAATATCACCATTTTAAAAGT
1 AATTACCAAAATATCACCGTTTTAAAAAT
6794119 AATTACCAAAATATCACCGTTTTAAAAAT
1 AATTACCAAAATATCACCGTTTTAAAAAT
*
6794148 AATTCCCAAAATATCACCG
1 AATTACCAAAATATCACCG
6794167 AGTCGGGCCG
Statistics
Matches: 180, Mismatches: 13, Indels: 1
0.93 0.07 0.01
Matches are distributed among these distances:
29 164 0.91
30 16 0.09
ACGTcount: A:0.47, C:0.17, G:0.04, T:0.31
Consensus pattern (29 bp):
AATTACCAAAATATCACCGTTTTAAAAAT
Found at i:6794191 original size:18 final size:18
Alignment explanation
Indices: 6794178--6794212 Score: 70
Period size: 18 Copynumber: 1.9 Consensus size: 18
6794168 GTCGGGCCGT
6794178 GTCAACGGGTCGGGTCAG
1 GTCAACGGGTCGGGTCAG
6794196 GTCAACGGGTCGGGTCA
1 GTCAACGGGTCGGGTCA
6794213 ACCCAGTCGG
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
18 17 1.00
ACGTcount: A:0.17, C:0.23, G:0.43, T:0.17
Consensus pattern (18 bp):
GTCAACGGGTCGGGTCAG
Found at i:6794225 original size:19 final size:19
Alignment explanation
Indices: 6794201--6794255 Score: 56
Period size: 24 Copynumber: 2.6 Consensus size: 19
6794191 GTCAGGTCAA
6794201 CGGGTCGGGTCAACCCAGT
1 CGGGTCGGGTCAACCCAGT
6794220 CGGGTCGAGTCGGTTCAACCCAGT
1 CGGGTC--G--GG-TCAACCCAGT
*
6794244 CAGGTCGGGTCA
1 CGGGTCGGGTCA
6794256 GACCGGTTCA
Statistics
Matches: 30, Mismatches: 1, Indels: 10
0.73 0.02 0.24
Matches are distributed among these distances:
19 9 0.30
20 2 0.07
21 1 0.03
22 1 0.03
23 2 0.07
24 15 0.50
ACGTcount: A:0.16, C:0.29, G:0.36, T:0.18
Consensus pattern (19 bp):
CGGGTCGGGTCAACCCAGT
Found at i:6794237 original size:24 final size:24
Alignment explanation
Indices: 6794204--6794250 Score: 76
Period size: 24 Copynumber: 2.0 Consensus size: 24
6794194 AGGTCAACGG
*
6794204 GTCGGGTCAACCCAGTCGGGTCGA
1 GTCGGGTCAACCCAGTCAGGTCGA
*
6794228 GTCGGTTCAACCCAGTCAGGTCG
1 GTCGGGTCAACCCAGTCAGGTCG
6794251 GGTCAGACCG
Statistics
Matches: 21, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
24 21 1.00
ACGTcount: A:0.17, C:0.30, G:0.34, T:0.19
Consensus pattern (24 bp):
GTCGGGTCAACCCAGTCAGGTCGA
Found at i:6795743 original size:16 final size:16
Alignment explanation
Indices: 6795722--6795757 Score: 63
Period size: 16 Copynumber: 2.2 Consensus size: 16
6795712 TTATTGTAAG
6795722 CAAATTCAGCCAACGA
1 CAAATTCAGCCAACGA
*
6795738 CAAATTCAGCCAACGG
1 CAAATTCAGCCAACGA
6795754 CAAA
1 CAAA
6795758 AAGTTCTCCC
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
16 19 1.00
ACGTcount: A:0.44, C:0.31, G:0.14, T:0.11
Consensus pattern (16 bp):
CAAATTCAGCCAACGA
Found at i:6801581 original size:29 final size:29
Alignment explanation
Indices: 6801519--6801709 Score: 285
Period size: 29 Copynumber: 6.6 Consensus size: 29
6801509 CACATTCGAA
* * *
6801519 AATTACAAAAATATCACCTTTTTTTAAAAT
1 AATTACCAAAATATCA-CTGTTTTAAAAAT
6801549 AATTACCAAAATATCACTGTTTTAAAAAT
1 AATTACCAAAATATCACTGTTTTAAAAAT
*
6801578 AATTACCAGAATATCACTGTTTTAAAAAT
1 AATTACCAAAATATCACTGTTTTAAAAAT
*
6801607 AATTACCAAAATATCACCG-TTTAAAAAT
1 AATTACCAAAATATCACTGTTTTAAAAAT
*
6801635 AATTACCAAAATATCAATGTTTTAAAAAT
1 AATTACCAAAATATCACTGTTTTAAAAAT
* *
6801664 AATTACCAAAATATCACCGATTTAAAAAT
1 AATTACCAAAATATCACTGTTTTAAAAAT
*
6801693 AATTGCCAAAATATCAC
1 AATTACCAAAATATCAC
6801710 AGGGTCGGGT
Statistics
Matches: 148, Mismatches: 12, Indels: 3
0.91 0.07 0.02
Matches are distributed among these distances:
28 26 0.18
29 107 0.72
30 15 0.10
ACGTcount: A:0.49, C:0.15, G:0.04, T:0.32
Consensus pattern (29 bp):
AATTACCAAAATATCACTGTTTTAAAAAT
Found at i:6801635 original size:57 final size:58
Alignment explanation
Indices: 6801519--6801709 Score: 294
Period size: 57 Copynumber: 3.3 Consensus size: 58
6801509 CACATTCGAA
* * * * *
6801519 AATTACAAAAATATCACCTTTTTTTAAAATAATTACCAAAATATCACTGTTTTAAAAAT
1 AATTACCAAAATATCA-CTGTTTTAAAAATAATTACCAAAATATCACCGATTTAAAAAT
*
6801578 AATTACCAGAATATCACTGTTTTAAAAATAATTACCAAAATATCACCG-TTTAAAAAT
1 AATTACCAAAATATCACTGTTTTAAAAATAATTACCAAAATATCACCGATTTAAAAAT
*
6801635 AATTACCAAAATATCAATGTTTTAAAAATAATTACCAAAATATCACCGATTTAAAAAT
1 AATTACCAAAATATCACTGTTTTAAAAATAATTACCAAAATATCACCGATTTAAAAAT
*
6801693 AATTGCCAAAATATCAC
1 AATTACCAAAATATCAC
6801710 AGGGTCGGGT
Statistics
Matches: 122, Mismatches: 9, Indels: 3
0.91 0.07 0.02
Matches are distributed among these distances:
57 55 0.45
58 53 0.43
59 14 0.11
ACGTcount: A:0.49, C:0.15, G:0.04, T:0.32
Consensus pattern (58 bp):
AATTACCAAAATATCACTGTTTTAAAAATAATTACCAAAATATCACCGATTTAAAAAT
Found at i:6801661 original size:86 final size:87
Alignment explanation
Indices: 6801519--6801709 Score: 294
Period size: 86 Copynumber: 2.2 Consensus size: 87
6801509 CACATTCGAA
* * * *
6801519 AATTACAAAAATATCACCTTTTTTTAAAATAATTACCAAAATATCACTGTTTTAAAAATAATTAC
1 AATTACCAAAATATCACC-TGTTTAAAAATAATTACCAAAATATCAATGTTTTAAAAATAATTAC
* * *
6801584 CAGAATATCACTGTTTTAAAAAT
65 CAAAATATCACCGATTTAAAAAT
6801607 AATTACCAAAATATCACC-GTTTAAAAATAATTACCAAAATATCAATGTTTTAAAAATAATTACC
1 AATTACCAAAATATCACCTGTTTAAAAATAATTACCAAAATATCAATGTTTTAAAAATAATTACC
6801671 AAAATATCACCGATTTAAAAAT
66 AAAATATCACCGATTTAAAAAT
*
6801693 AATTGCCAAAATATCAC
1 AATTACCAAAATATCAC
6801710 AGGGTCGGGT
Statistics
Matches: 95, Mismatches: 8, Indels: 2
0.90 0.08 0.02
Matches are distributed among these distances:
86 78 0.82
88 17 0.18
ACGTcount: A:0.49, C:0.15, G:0.04, T:0.32
Consensus pattern (87 bp):
AATTACCAAAATATCACCTGTTTAAAAATAATTACCAAAATATCAATGTTTTAAAAATAATTACC
AAAATATCACCGATTTAAAAAT
Found at i:6804081 original size:23 final size:24
Alignment explanation
Indices: 6804033--6804096 Score: 78
Period size: 23 Copynumber: 2.7 Consensus size: 24
6804023 TAATAATAGA
*
6804033 ATGTTATTAATTCATGTAACATTGC
1 ATGTCATTAATTCATG-AACATTGC
6804058 ATGTCATTAATTCATG-ACATTGC
1 ATGTCATTAATTCATGAACATTGC
*
6804081 ATG-CTTTTAATTCATG
1 ATGTC-ATTAATTCATG
6804097 TGGCATTACA
Statistics
Matches: 36, Mismatches: 2, Indels: 4
0.86 0.05 0.10
Matches are distributed among these distances:
22 1 0.03
23 20 0.56
25 15 0.42
ACGTcount: A:0.30, C:0.14, G:0.12, T:0.44
Consensus pattern (24 bp):
ATGTCATTAATTCATGAACATTGC
Found at i:6804127 original size:25 final size:25
Alignment explanation
Indices: 6804033--6804127 Score: 115
Period size: 25 Copynumber: 3.9 Consensus size: 25
6804023 TAATAATAGA
*
6804033 ATGTTATTAATTCATGTAACATTGC
1 ATGTTATTAATTCATGTAGCATTGC
*
6804058 ATGTCATTAATTCATG-A-CATTGC
1 ATGTTATTAATTCATGTAGCATTGC
* *
6804081 ATGCTT-TTAATTCATGTGGCATTAC
1 ATG-TTATTAATTCATGTAGCATTGC
*
6804106 ATGTTATTAATTTATGTAGCAT
1 ATGTTATTAATTCATGTAGCAT
6804128 GTTAAATAGT
Statistics
Matches: 60, Mismatches: 6, Indels: 8
0.81 0.08 0.11
Matches are distributed among these distances:
23 19 0.32
24 4 0.07
25 37 0.62
ACGTcount: A:0.29, C:0.13, G:0.14, T:0.44
Consensus pattern (25 bp):
ATGTTATTAATTCATGTAGCATTGC
Found at i:6805089 original size:20 final size:20
Alignment explanation
Indices: 6805064--6805103 Score: 64
Period size: 20 Copynumber: 2.0 Consensus size: 20
6805054 GTTACTAATA
6805064 TTAATT-AGTCCTTAGGTTTT
1 TTAATTAAG-CCTTAGGTTTT
6805084 TTAATTAAGCCTTAGGTTTT
1 TTAATTAAGCCTTAGGTTTT
6805104 AGGCTCTTTA
Statistics
Matches: 19, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
20 17 0.89
21 2 0.11
ACGTcount: A:0.23, C:0.10, G:0.15, T:0.53
Consensus pattern (20 bp):
TTAATTAAGCCTTAGGTTTT
Found at i:6805233 original size:34 final size:28
Alignment explanation
Indices: 6805202--6805255 Score: 108
Period size: 28 Copynumber: 1.9 Consensus size: 28
6805192 TTAATAATAT
6805202 TAATTAGAAACACATGAACATAAATCCA
1 TAATTAGAAACACATGAACATAAATCCA
6805230 TAATTAGAAACACATGAACATAAATC
1 TAATTAGAAACACATGAACATAAATC
6805256 ACAGGCCAAA
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
28 26 1.00
ACGTcount: A:0.54, C:0.17, G:0.07, T:0.22
Consensus pattern (28 bp):
TAATTAGAAACACATGAACATAAATCCA
Found at i:6817244 original size:20 final size:20
Alignment explanation
Indices: 6817219--6817277 Score: 75
Period size: 20 Copynumber: 2.9 Consensus size: 20
6817209 TTTTGGTGCA
6817219 GAGGGAATCGATACCCCCAC
1 GAGGGAATCGATACCCCCAC
* *
6817239 GAGGGAACCGATTCCCCCCAC
1 GAGGGAATCGA-TACCCCCAC
6817260 -AGGGGAATCGATACCCCC
1 GA-GGGAATCGATACCCCC
6817278 TGGGGTTCTG
Statistics
Matches: 33, Mismatches: 4, Indels: 4
0.80 0.10 0.10
Matches are distributed among these distances:
20 17 0.52
21 16 0.48
ACGTcount: A:0.27, C:0.37, G:0.25, T:0.10
Consensus pattern (20 bp):
GAGGGAATCGATACCCCCAC
Found at i:6817258 original size:21 final size:21
Alignment explanation
Indices: 6817219--6817277 Score: 68
Period size: 21 Copynumber: 2.9 Consensus size: 21
6817209 TTTTGGTGCA
*
6817219 GAGGGAATCGA-TACCCCCAC
1 GAGGGAATCGATTCCCCCCAC
*
6817239 GAGGGAACCGATTCCCCCCAC
1 GAGGGAATCGATTCCCCCCAC
*
6817260 -AGGGGAATCGATACCCCC
1 GA-GGGAATCGATTCCCCC
6817278 TGGGGTTCTG
Statistics
Matches: 33, Mismatches: 4, Indels: 3
0.82 0.10 0.08
Matches are distributed among these distances:
20 11 0.33
21 22 0.67
ACGTcount: A:0.27, C:0.37, G:0.25, T:0.10
Consensus pattern (21 bp):
GAGGGAATCGATTCCCCCCAC
Found at i:6819890 original size:22 final size:22
Alignment explanation
Indices: 6819865--6819906 Score: 66
Period size: 22 Copynumber: 1.9 Consensus size: 22
6819855 CAAATTGCTC
*
6819865 AGAGGGAACTGATTCCCCCCCA
1 AGAGGGAACCGATTCCCCCCCA
*
6819887 AGAGGGTACCGATTCCCCCC
1 AGAGGGAACCGATTCCCCCC
6819907 TGAATGGTTT
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
22 18 1.00
ACGTcount: A:0.24, C:0.38, G:0.24, T:0.14
Consensus pattern (22 bp):
AGAGGGAACCGATTCCCCCCCA
Found at i:6821100 original size:19 final size:19
Alignment explanation
Indices: 6821056--6821093 Score: 76
Period size: 19 Copynumber: 2.0 Consensus size: 19
6821046 TCGTACACAA
6821056 AAGGAAGTTCGAGGGTTCC
1 AAGGAAGTTCGAGGGTTCC
6821075 AAGGAAGTTCGAGGGTTCC
1 AAGGAAGTTCGAGGGTTCC
6821094 TGGGAAGACT
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
19 19 1.00
ACGTcount: A:0.26, C:0.16, G:0.37, T:0.21
Consensus pattern (19 bp):
AAGGAAGTTCGAGGGTTCC
Found at i:6824197 original size:21 final size:21
Alignment explanation
Indices: 6824171--6824243 Score: 78
Period size: 21 Copynumber: 3.5 Consensus size: 21
6824161 GTTGTCGATT
6824171 AAGAAGAAAAAAAGAAAAAAG
1 AAGAAGAAAAAAAGAAAAAAG
* *
6824192 AAGAAGATAAAAAGATAAAAGG
1 AAGAAGAAAAAAAGA-AAAAAG
* *
6824214 AAAGAAG-GAAGAAGAAAAAAG
1 -AAGAAGAAAAAAAGAAAAAAG
6824235 AA-AAGAAAA
1 AAGAAGAAAA
6824244 GAAAACTAAA
Statistics
Matches: 43, Mismatches: 6, Indels: 7
0.77 0.11 0.12
Matches are distributed among these distances:
19 3 0.07
20 4 0.09
21 19 0.44
22 11 0.26
23 6 0.14
ACGTcount: A:0.75, C:0.00, G:0.22, T:0.03
Consensus pattern (21 bp):
AAGAAGAAAAAAAGAAAAAAG
Found at i:6824206 original size:8 final size:7
Alignment explanation
Indices: 6824178--6824238 Score: 52
Period size: 7 Copynumber: 8.6 Consensus size: 7
6824168 ATTAAGAAGA
6824178 AAAAAAG
1 AAAAAAG
6824185 AAAAAAG
1 AAAAAAG
*
6824192 -AAGAAG
1 AAAAAAG
6824198 ATAAAAAG
1 A-AAAAAG
*
6824206 ATAAAAGG
1 A-AAAAAG
*
6824214 AAAGAAG
1 AAAAAAG
* *
6824221 GAAGAAG
1 AAAAAAG
6824228 AAAAAAG
1 AAAAAAG
6824235 AAAA
1 AAAA
6824239 GAAAAGAAAA
Statistics
Matches: 44, Mismatches: 8, Indels: 4
0.79 0.14 0.07
Matches are distributed among these distances:
6 5 0.11
7 26 0.59
8 13 0.30
ACGTcount: A:0.75, C:0.00, G:0.21, T:0.03
Consensus pattern (7 bp):
AAAAAAG
Found at i:6824211 original size:29 final size:29
Alignment explanation
Indices: 6824174--6824247 Score: 87
Period size: 29 Copynumber: 2.5 Consensus size: 29
6824164 GTCGATTAAG
6824174 AAGAAAAAAAGAAA-AAAGAAGAAGATAAA
1 AAGAAAAAAAGAAAGAAAGAAGAAGA-AAA
* * *
6824203 AAGATAAAAGGAAAGAAGGAAGAAGAAAA
1 AAGAAAAAAAGAAAGAAAGAAGAAGAAAA
6824232 AAGAAAAGAAAAGAAA
1 AAG-AAA-AAAAGAAA
6824248 ACTAAAGTGA
Statistics
Matches: 37, Mismatches: 5, Indels: 4
0.80 0.11 0.09
Matches are distributed among these distances:
29 18 0.49
30 12 0.32
31 7 0.19
ACGTcount: A:0.76, C:0.00, G:0.22, T:0.03
Consensus pattern (29 bp):
AAGAAAAAAAGAAAGAAAGAAGAAGAAAA
Found at i:6825118 original size:21 final size:21
Alignment explanation
Indices: 6825068--6825109 Score: 75
Period size: 21 Copynumber: 2.0 Consensus size: 21
6825058 ACAAACTTTT
6825068 CACTTGATCATTCACATAATG
1 CACTTGATCATTCACATAATG
*
6825089 CACTTGATCCTTCACATAATG
1 CACTTGATCATTCACATAATG
6825110 AGTTGGATCA
Statistics
Matches: 20, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
21 20 1.00
ACGTcount: A:0.31, C:0.26, G:0.10, T:0.33
Consensus pattern (21 bp):
CACTTGATCATTCACATAATG
Found at i:6825873 original size:25 final size:24
Alignment explanation
Indices: 6825840--6825935 Score: 95
Period size: 25 Copynumber: 3.9 Consensus size: 24
6825830 ATAATAATAT
**
6825840 CATGTTATTAATTCATGTAATATTG
1 CATGTTATTAATTCATGT-GCATTG
*
6825865 CATGTTATTAATTGATG-GCATTG
1 CATGTTATTAATTCATGTGCATTG
* * *
6825888 CACGTTATTAATTCTTGTGGCATTA
1 CATGTTATTAATTCATGT-GCATTG
*
6825913 TATGTTATTAATTCATGTTGCAT
1 CATGTTATTAATTCATG-TGCAT
6825936 GTTAAATAGT
Statistics
Matches: 58, Mismatches: 10, Indels: 6
0.78 0.14 0.08
Matches are distributed among these distances:
23 18 0.31
25 39 0.67
26 1 0.02
ACGTcount: A:0.27, C:0.10, G:0.16, T:0.47
Consensus pattern (24 bp):
CATGTTATTAATTCATGTGCATTG
Found at i:6836817 original size:22 final size:21
Alignment explanation
Indices: 6836791--6836834 Score: 52
Period size: 22 Copynumber: 2.0 Consensus size: 21
6836781 GGCCTGAAAA
*
6836791 AATAAAAAACAATTTAATTAAT
1 AATAAAAAACAATATAA-TAAT
* *
6836813 AATAATAAATAATATAATAAT
1 AATAAAAAACAATATAATAAT
6836834 A
1 A
6836835 GCGGGATAAA
Statistics
Matches: 19, Mismatches: 3, Indels: 1
0.83 0.13 0.04
Matches are distributed among these distances:
21 5 0.26
22 14 0.74
ACGTcount: A:0.66, C:0.02, G:0.00, T:0.32
Consensus pattern (21 bp):
AATAAAAAACAATATAATAAT
Found at i:6837197 original size:134 final size:134
Alignment explanation
Indices: 6837002--6837713 Score: 883
Period size: 134 Copynumber: 5.3 Consensus size: 134
6836992 AGATCGAGAA
* * * * *
6837002 ACGTTGATTCATTCCTCTGTTC-TTTAGGGAAAATTTAATCGAGGCAGACTTGTTCCACTGTTAC
1 ACGTTGATTCATTCCACTG-TCACTCAGGGAAGATTGAATCGAGGCAGACTTGTTCCACTGTTAC
* * * *
6837066 TCAGGGAATATCAATTCTTGAAAGAGAGGGATATGTTTCACTTTTTCTCT-AGGCAAAATCATAT
65 TCAGGGAATATCAAATCTTGAAAGAGAGGGATATGTTCCACTTTTTCT-TGAGGGAAAATCAGAT
6837130 ATGGGG
129 ATGGGG
* * * * *
6837136 ACGCTGATTCATTCTAGTGTCACTCAGGGAAGATTGAATCGAGGTAGACTTGTTCCGCTGTTA-T
1 ACGTTGATTCATTCCACTGTCACTCAGGGAAGATTGAATCGAGGCAGACTTGTTCCACTGTTACT
* * * * * *
6837200 ATAGGGAATATCAAATATTGAAAGAGAAGGATATGTTCCACTTCTTCTTGAAGGAAAATCAGATC
66 -CAGGGAATATCAAATCTTGAAAGAGAGGGATATGTTCCACTTTTTCTTGAGGGAAAATCAGATA
6837265 TGGGG
130 TGGGG
* ** *
6837270 ACATAAATTCATTCCACTGTCACTTAGGGAAGATTGAATCGAGGCAGACTTGTTCCACTGTTACT
1 ACGTTGATTCATTCCACTGTCACTCAGGGAAGATTGAATCGAGGCAGACTTGTTCCACTGTTACT
* * ** *
6837335 CAGGGAATATCAAATCTTGAAAGAGATGGATCTGTTCTGCTTTTTCTTGAGGGAAAATAAGATAT
66 CAGGGAATATCAAATCTTGAAAGAGAGGGATATGTTCCACTTTTTCTTGAGGGAAAATCAGATAT
6837400 GGGG
131 GGGG
* * * * * **
6837404 ATGTTGGTTCATTCCACTATCACTCAGGGAAGATTGAATCGAGGTAAACTTGTTCCACTGTTAAA
1 ACGTTGATTCATTCCACTGTCACTCAGGGAAGATTGAATCGAGGCAGACTTGTTCCACTGTTACT
* * *
6837469 CAGGGAATATCAAATCTTGAAAGAGAGGGATATGTTCCACTTTTTCTTGAAGAAAAATCATATAT
66 CAGGGAATATCAAATCTTGAAAGAGAGGGATATGTTCCACTTTTTCTTGAGGGAAAATCAGATAT
6837534 GGGG
131 GGGG
* * * * * * *
6837538 ACTTTCATTCATTCTACTATCACTCAGGGAAGATTGAATCAAGGCAGACTTGTTCCATTATTACT
1 ACGTTGATTCATTCCACTGTCACTCAGGGAAGATTGAATCGAGGCAGACTTGTTCCACTGTTACT
* * * * * *
6837603 CAGGGAATATCAAATC-TGAAAGAGATGGATTTGTTCCACTTATTCCTGAGGGTAAATCAGATCT
66 CAGGGAATATCAAATCTTGAAAGAGAGGGATATGTTCCACTTTTTCTTGAGGGAAAATCAGATAT
6837667 GGGG
131 GGGG
* *
6837671 ACGTTGATTCATTCCATTGTTACTCAGGGAAGATTGAATCGAG
1 ACGTTGATTCATTCCACTGTCACTCAGGGAAGATTGAATCGAG
6837714 ATCGATTTGC
Statistics
Matches: 488, Mismatches: 86, Indels: 9
0.84 0.15 0.02
Matches are distributed among these distances:
133 83 0.17
134 404 0.83
135 1 0.00
ACGTcount: A:0.30, C:0.16, G:0.22, T:0.32
Consensus pattern (134 bp):
ACGTTGATTCATTCCACTGTCACTCAGGGAAGATTGAATCGAGGCAGACTTGTTCCACTGTTACT
CAGGGAATATCAAATCTTGAAAGAGAGGGATATGTTCCACTTTTTCTTGAGGGAAAATCAGATAT
GGGG
Found at i:6837940 original size:13 final size:12
Alignment explanation
Indices: 6837915--6838037 Score: 57
Period size: 12 Copynumber: 10.4 Consensus size: 12
6837905 TTTTTCCTTG
*
6837915 TTTTCTTTCTTT
1 TTTTCATTCTTT
*
6837927 TTTTCATTCATT
1 TTTTCATTCTTT
*
6837939 TTTTCAGTCTTT
1 TTTTCATTCTTT
6837951 CTTTTCTATT-TTCAT
1 -TTTTC-ATTCTT--T
*
6837966 TCATTCATTCTTT
1 T-TTTCATTCTTT
*
6837979 TTTTCGTT-TTT
1 TTTTCATTCTTT
*
6837990 CTTT--TTCTTT
1 TTTTCATTCTTT
6838000 TTCTT--TT-TTT
1 TT-TTCATTCTTT
*
6838010 CTTTCATTCTTCT
1 TTTTCATTCTT-T
6838023 TTTTC-TT-TTT
1 TTTTCATTCTTT
6838033 TTTTC
1 TTTTC
6838038 TTTTTCAGTT
Statistics
Matches: 87, Mismatches: 12, Indels: 26
0.70 0.10 0.21
Matches are distributed among these distances:
9 4 0.05
10 14 0.16
11 14 0.16
12 29 0.33
13 14 0.16
14 6 0.07
15 6 0.07
ACGTcount: A:0.07, C:0.18, G:0.02, T:0.74
Consensus pattern (12 bp):
TTTTCATTCTTT
Found at i:6837951 original size:20 final size:19
Alignment explanation
Indices: 6837928--6837981 Score: 54
Period size: 20 Copynumber: 2.7 Consensus size: 19
6837918 TCTTTCTTTT
6837928 TTTCATTCATTTTTTCAGTC
1 TTTCATTC-TTTTTTCAGTC
* * *
6837948 TTTCTTTTCTATTTTCATTC
1 TTTC-ATTCTTTTTTCAGTC
*
6837968 ATTCATTCTTTTTT
1 TTTCATTCTTTTTT
6837982 TCGTTTTTCT
Statistics
Matches: 27, Mismatches: 6, Indels: 3
0.75 0.17 0.08
Matches are distributed among these distances:
19 8 0.30
20 16 0.59
21 3 0.11
ACGTcount: A:0.13, C:0.19, G:0.02, T:0.67
Consensus pattern (19 bp):
TTTCATTCTTTTTTCAGTC
Found at i:6837964 original size:28 final size:27
Alignment explanation
Indices: 6837933--6837995 Score: 67
Period size: 28 Copynumber: 2.3 Consensus size: 27
6837923 CTTTTTTTCA
6837933 TTCATTTTTTCAGTCTTTCTTTTC-TATT
1 TTCATTTTTTCAGTCTTT-TTTTCGT-TT
** *
6837961 TTCATTCATTCATTCTTTTTTTCGTTT
1 TTCATTTTTTCAGTCTTTTTTTCGTTT
6837988 TTC-TTTTT
1 TTCATTTTT
6837996 CTTTTTCTTT
Statistics
Matches: 29, Mismatches: 5, Indels: 4
0.76 0.13 0.11
Matches are distributed among these distances:
26 3 0.10
27 10 0.34
28 16 0.55
ACGTcount: A:0.10, C:0.17, G:0.03, T:0.70
Consensus pattern (27 bp):
TTCATTTTTTCAGTCTTTTTTTCGTTT
Found at i:6837994 original size:6 final size:6
Alignment explanation
Indices: 6837978--6838056 Score: 83
Period size: 6 Copynumber: 13.0 Consensus size: 6
6837968 ATTCATTCTT
*
6837978 TTTTTC GTTTTTC TTTTTC TTTTTC TTTTT- TTCTTTC ATTCTTC TTTTTC
1 TTTTTC -TTTTTC TTTTTC TTTTTC TTTTTC TT-TTTC -TTTTTC TTTTTC
*
6838028 -TTTT- TTTTTC TTTTTC AGTTTTC TTTTTC
1 TTTTTC TTTTTC TTTTTC -TTTTTC TTTTTC
6838057 AGGCAAAGTA
Statistics
Matches: 62, Mismatches: 4, Indels: 13
0.78 0.05 0.16
Matches are distributed among these distances:
5 10 0.16
6 36 0.58
7 14 0.23
8 2 0.03
ACGTcount: A:0.03, C:0.16, G:0.03, T:0.78
Consensus pattern (6 bp):
TTTTTC
Found at i:6837995 original size:54 final size:48
Alignment explanation
Indices: 6837920--6838055 Score: 134
Period size: 51 Copynumber: 2.7 Consensus size: 48
6837910 CCTTGTTTTC
6837920 TTTCTTTTTTTCATTCATTTTTTCAGTCTTTCTTTTCTAT-TTTCATTCATTCATT
1 TTTCTTTTTTT--TTC--TTTTTCAGT-TTTCTTTT-TATCTTTCATTC-TTC-TT
* *
6837975 CTTT-TTTTCGTTTTTCTTTTTC-TTTTTCTTTTTTTCTTTCATTCTTCTT
1 -TTTCTTTT--TTTTTCTTTTTCAGTTTTCTTTTTATCTTTCATTCTTCTT
6838024 TTTCTTTTTTTTTCTTTTTCAGTTTTCTTTTT
1 TTTCTTTTTTTTTCTTTTTCAGTTTTCTTTTT
6838056 CAGGCAAAGT
Statistics
Matches: 72, Mismatches: 3, Indels: 18
0.77 0.03 0.19
Matches are distributed among these distances:
47 12 0.17
48 13 0.18
49 6 0.08
50 5 0.07
51 16 0.22
52 1 0.01
53 6 0.08
55 7 0.10
56 3 0.04
57 3 0.04
ACGTcount: A:0.07, C:0.17, G:0.02, T:0.74
Consensus pattern (48 bp):
TTTCTTTTTTTTTCTTTTTCAGTTTTCTTTTTATCTTTCATTCTTCTT
Found at i:6838000 original size:19 final size:18
Alignment explanation
Indices: 6837978--6838056 Score: 83
Period size: 19 Copynumber: 4.3 Consensus size: 18
6837968 ATTCATTCTT
6837978 TTTTTCGTTTTTCTTTTTC
1 TTTTTC-TTTTTCTTTTTC
6837997 TTTTTCTTTTT-TTCTTTC
1 TTTTTCTTTTTCTT-TTTC
*
6838015 ATTCTTCTTTTTC-TTTT-
1 -TTTTTCTTTTTCTTTTTC
*
6838032 TTTTTCTTTTTCAGTTTTC
1 TTTTTCTTTTTC-TTTTTC
6838051 TTTTTC
1 TTTTTC
6838057 AGGCAAAGTA
Statistics
Matches: 52, Mismatches: 2, Indels: 12
0.79 0.03 0.18
Matches are distributed among these distances:
16 11 0.21
17 2 0.04
18 16 0.31
19 23 0.44
ACGTcount: A:0.03, C:0.16, G:0.03, T:0.78
Consensus pattern (18 bp):
TTTTTCTTTTTCTTTTTC
Found at i:6838016 original size:47 final size:48
Alignment explanation
Indices: 6837959--6838055 Score: 135
Period size: 47 Copynumber: 2.0 Consensus size: 48
6837949 TTCTTTTCTA
*
6837959 TTTTCATTCATTCATTCTTTTT-TTCGTTTTTCTTTTTC-TTTTTCTTT
1 TTTTCATTCATTC-TTCTTTTTCTTCGTTTTTCTTTTTCAGTTTTCTTT
* **
6838006 TTTTCTTTCATTCTTCTTTTTCTTTTTTTTTCTTTTTCAGTTTTCTTT
1 TTTTCATTCATTCTTCTTTTTCTTCGTTTTTCTTTTTCAGTTTTCTTT
6838054 TT
1 TT
6838056 CAGGCAAAGT
Statistics
Matches: 44, Mismatches: 4, Indels: 3
0.86 0.08 0.06
Matches are distributed among these distances:
46 8 0.18
47 26 0.59
48 10 0.23
ACGTcount: A:0.05, C:0.16, G:0.02, T:0.76
Consensus pattern (48 bp):
TTTTCATTCATTCTTCTTTTTCTTCGTTTTTCTTTTTCAGTTTTCTTT
Found at i:6838051 original size:13 final size:13
Alignment explanation
Indices: 6838033--6838058 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
6838023 TTTTCTTTTT
6838033 TTTTCTTTTTCAG
1 TTTTCTTTTTCAG
6838046 TTTTCTTTTTCAG
1 TTTTCTTTTTCAG
6838059 GCAAAGTACT
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.08, C:0.15, G:0.08, T:0.69
Consensus pattern (13 bp):
TTTTCTTTTTCAG
Found at i:6847055 original size:131 final size:131
Alignment explanation
Indices: 6846817--6847157 Score: 391
Period size: 131 Copynumber: 2.6 Consensus size: 131
6846807 CACCCAAAAT
* * * * * *
6846817 AAGTGAAAACGATAATATCTAATTTTTTCCAATCGAGAATAAATGACCTTTCGTGCATTAAAACA
1 AAGTGAAAACGATAATATCTAATTATTTCCAATCGAGAATAAATGACCTCTCATACCTTAAAGCA
** * * * *
6846882 ATCATTTATTAC-CCAAATTGAAATAAAGAGATATTACAATTTCGTCTTAAAATTCAATATCGAT
66 ATCATTTATTACTCCAAATCAAAATAAAGAGATATCACAATTTCATCTTAAAAAT-AATATCAAT
6846946 TC
130 TC
* * *
6846948 AAGTGAAAATGATAATATCTAATGATTTCCAATCGAGAATAAATGACCCCTCATACCTTAAAGCA
1 AAGTGAAAACGATAATATCTAATTATTTCCAATCGAGAATAAATGACCTCTCATACCTTAAAGCA
* * * * * *
6847013 GTCATTTATTGCTCC-AATCAAAATGAAGAGATATCACTATTTCATCTTAAAAATGATATTAATT
66 ATCATTTATTACTCCAAATCAAAATAAAGAGATATCACAATTTCATCTTAAAAATAATATCAATT
6847077 C
131 C
* * * * * * *
6847078 GAGAGAAAACGACAATATCGAATTATTTTCAATCGAGAAT-AATCAATCTCTCATACCTTAAAGC
1 AAGTGAAAACGATAATATCTAATTATTTCCAATCGAGAATAAAT-GACCTCTCATACCTTAAAGC
6847142 AATCATTTATTACTCC
65 AATCATTTATTACTCC
6847158 GACTGAAATG
Statistics
Matches: 175, Mismatches: 33, Indels: 5
0.82 0.15 0.02
Matches are distributed among these distances:
129 3 0.02
130 72 0.41
131 98 0.56
132 2 0.01
ACGTcount: A:0.41, C:0.17, G:0.10, T:0.32
Consensus pattern (131 bp):
AAGTGAAAACGATAATATCTAATTATTTCCAATCGAGAATAAATGACCTCTCATACCTTAAAGCA
ATCATTTATTACTCCAAATCAAAATAAAGAGATATCACAATTTCATCTTAAAAATAATATCAATT
C
Found at i:6847167 original size:130 final size:130
Alignment explanation
Indices: 6846821--6847184 Score: 385
Period size: 130 Copynumber: 2.8 Consensus size: 130
6846811 CAAAATAAGT
* * * * *
6846821 GAAAACGATAATATCTAATT-TTTTCCAATCGAGAATAAATGACCTTTCGTGCATTAAAACAATC
1 GAAAACGATAATATCTAATTATTTT-CAATCGAGAATAAATGACCTCTCATACCTTAAAGCAATC
* * * * *
6846885 ATTTATTAC-CCAAATTGAAATAAAGAGATATTACAATTTCGTCTTAAAATTCAATATCGATTCA
65 ATTTATTACTCC-AA-TGAAATGAAGAGATATTACTATTTCATCTTAAAAATCAATATCAATTCA
*
6846949 AGT
128 AGA
* * * * *
6846952 GAAAATGATAATATCTAATGATTTCCAATCGAGAATAAATGACCCCTCATACCTTAAAGCAGTCA
1 GAAAACGATAATATCTAATTATTTTCAATCGAGAATAAATGACCTCTCATACCTTAAAGCAATCA
* * * * * *
6847017 TTTATTGCTCCAATCAAAATGAAGAGATATCACTATTTCATCTTAAAAAT-GATATTAATTCGAG
66 TTTATTACTCCAAT-GAAATGAAGAGATATTACTATTTCATCTTAAAAATCAATATCAATTCAAG
6847081 A
130 A
* * * *
6847082 GAAAACGACAATATCGAATTATTTTCAATCGAGAAT-AATCAATCTCTCATACCTTAAAGCAATC
1 GAAAACGATAATATCTAATTATTTTCAATCGAGAATAAAT-GACCTCTCATACCTTAAAGCAATC
* * *
6847146 ATTTATTACTCCGACTGAAATGAAAATATATTACTATTT
65 ATTTATTACTCC-AATGAAATGAAGAGATATTACTATTT
6847185 GTTTTACCAA
Statistics
Matches: 191, Mismatches: 37, Indels: 11
0.80 0.15 0.05
Matches are distributed among these distances:
129 3 0.02
130 92 0.48
131 91 0.48
132 5 0.03
ACGTcount: A:0.41, C:0.16, G:0.10, T:0.32
Consensus pattern (130 bp):
GAAAACGATAATATCTAATTATTTTCAATCGAGAATAAATGACCTCTCATACCTTAAAGCAATCA
TTTATTACTCCAATGAAATGAAGAGATATTACTATTTCATCTTAAAAATCAATATCAATTCAAGA
Found at i:6848817 original size:20 final size:20
Alignment explanation
Indices: 6848792--6848832 Score: 73
Period size: 20 Copynumber: 2.0 Consensus size: 20
6848782 TTTGGGTTCA
*
6848792 AGTATTGATATTGGATGAAT
1 AGTATTGATACTGGATGAAT
6848812 AGTATTGATACTGGATGAAT
1 AGTATTGATACTGGATGAAT
6848832 A
1 A
6848833 AGGATGAATT
Statistics
Matches: 20, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
20 20 1.00
ACGTcount: A:0.37, C:0.02, G:0.24, T:0.37
Consensus pattern (20 bp):
AGTATTGATACTGGATGAAT
Found at i:6857558 original size:22 final size:21
Alignment explanation
Indices: 6857528--6857586 Score: 82
Period size: 22 Copynumber: 2.7 Consensus size: 21
6857518 ATACTCTTAG
6857528 CTAGAGTATCAATACCTCTGAA
1 CTAG-GTATCAATACCTCTGAA
6857550 CTAAGGTATCAATACCTCTGAA
1 CT-AGGTATCAATACCTCTGAA
*
6857572 GTAGGTTATCAATAC
1 CTAGG-TATCAATAC
6857587 TATCATGAGT
Statistics
Matches: 34, Mismatches: 1, Indels: 4
0.87 0.03 0.10
Matches are distributed among these distances:
21 3 0.09
22 29 0.85
23 2 0.06
ACGTcount: A:0.36, C:0.20, G:0.15, T:0.29
Consensus pattern (21 bp):
CTAGGTATCAATACCTCTGAA
Found at i:6857695 original size:18 final size:19
Alignment explanation
Indices: 6857648--6857702 Score: 58
Period size: 18 Copynumber: 2.8 Consensus size: 19
6857638 AATATCGATA
*
6857648 CCCTTAGTATCGATACTCTAC
1 CCCTAAGTATCGATA--CTAC
*
6857669 CCCTCAGTATCGATACT-C
1 CCCTAAGTATCGATACTAC
*
6857687 CCCTAAGTATCAATAC
1 CCCTAAGTATCGATAC
6857703 CATAATTGGC
Statistics
Matches: 31, Mismatches: 3, Indels: 3
0.84 0.08 0.08
Matches are distributed among these distances:
18 15 0.48
19 2 0.06
21 14 0.45
ACGTcount: A:0.27, C:0.35, G:0.09, T:0.29
Consensus pattern (19 bp):
CCCTAAGTATCGATACTAC
Found at i:6863345 original size:16 final size:16
Alignment explanation
Indices: 6863316--6863399 Score: 69
Period size: 16 Copynumber: 5.2 Consensus size: 16
6863306 TTAGCTTTGA
**
6863316 GTTGATTTAAGTTCGG
1 GTTGATTTTGGTTCGG
* *
6863332 GTTAATTTTGGTTCGA
1 GTTGATTTTGGTTCGG
* *
6863348 CTTGATTTCGGTTCGG
1 GTTGATTTTGGTTCGG
* * *
6863364 CTTGTTTTTGGTTCGT
1 GTTGATTTTGGTTCGG
* *
6863380 GTTGCTTTTGGTTTGG
1 GTTGATTTTGGTTCGG
6863396 GTTG
1 GTTG
6863400 CTTTCAGTTC
Statistics
Matches: 53, Mismatches: 15, Indels: 0
0.78 0.22 0.00
Matches are distributed among these distances:
16 53 1.00
ACGTcount: A:0.08, C:0.10, G:0.31, T:0.51
Consensus pattern (16 bp):
GTTGATTTTGGTTCGG
Found at i:6863354 original size:32 final size:32
Alignment explanation
Indices: 6863317--6863378 Score: 79
Period size: 32 Copynumber: 1.9 Consensus size: 32
6863307 TAGCTTTGAG
*
6863317 TTGATTTAAGTTCGGGTTAATTTTGGTTCGAC
1 TTGATTTAAGTTCGGCTTAATTTTGGTTCGAC
** **
6863349 TTGATTTCGGTTCGGCTTGTTTTTGGTTCG
1 TTGATTTAAGTTCGGCTTAATTTTGGTTCG
6863379 TGTTGCTTTT
Statistics
Matches: 25, Mismatches: 5, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
32 25 1.00
ACGTcount: A:0.11, C:0.11, G:0.27, T:0.50
Consensus pattern (32 bp):
TTGATTTAAGTTCGGCTTAATTTTGGTTCGAC
Found at i:6868424 original size:26 final size:26
Alignment explanation
Indices: 6868388--6868440 Score: 106
Period size: 26 Copynumber: 2.0 Consensus size: 26
6868378 CTCATACATA
6868388 CTAGAGAGAGTCGCCATAAGACCTAC
1 CTAGAGAGAGTCGCCATAAGACCTAC
6868414 CTAGAGAGAGTCGCCATAAGACCTAC
1 CTAGAGAGAGTCGCCATAAGACCTAC
6868440 C
1 C
6868441 GTGGTCTTTT
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
26 27 1.00
ACGTcount: A:0.34, C:0.28, G:0.23, T:0.15
Consensus pattern (26 bp):
CTAGAGAGAGTCGCCATAAGACCTAC
Found at i:6871897 original size:16 final size:13
Alignment explanation
Indices: 6871867--6871914 Score: 62
Period size: 13 Copynumber: 3.7 Consensus size: 13
6871857 AAAATAAATA
6871867 TAATAATATTAAT
1 TAATAATATTAAT
6871880 TAATAATATTAAT
1 TAATAATATTAAT
*
6871893 TATTAA-ATATAAT
1 TAATAATAT-TAAT
*
6871906 AAATAATAT
1 TAATAATAT
6871915 ATTTTGAAAT
Statistics
Matches: 30, Mismatches: 3, Indels: 3
0.83 0.08 0.08
Matches are distributed among these distances:
12 2 0.07
13 26 0.87
14 2 0.07
ACGTcount: A:0.56, C:0.00, G:0.00, T:0.44
Consensus pattern (13 bp):
TAATAATATTAAT
Found at i:6873602 original size:11 final size:10
Alignment explanation
Indices: 6873576--6873607 Score: 55
Period size: 10 Copynumber: 3.1 Consensus size: 10
6873566 TTGGTTCACT
6873576 GGTTCAACCG
1 GGTTCAACCG
6873586 GGTTCAACCG
1 GGTTCAACCG
6873596 CGGTTCAACCG
1 -GGTTCAACCG
6873607 G
1 G
6873608 ATTTTATATA
Statistics
Matches: 21, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
10 11 0.52
11 10 0.48
ACGTcount: A:0.19, C:0.31, G:0.31, T:0.19
Consensus pattern (10 bp):
GGTTCAACCG
Found at i:6874635 original size:26 final size:26
Alignment explanation
Indices: 6874571--6874728 Score: 167
Period size: 26 Copynumber: 6.5 Consensus size: 26
6874561 CAAAACGAAT
*
6874571 CCATAAATGAAATGCTTGAAAGGATG
1 CCATAAATGAAATGCATGAAAGGATG
* *
6874597 -CAT---T--AAGGCATGAAAAGATG
1 CCATAAATGAAATGCATGAAAGGATG
* *
6874617 CCATAAATAAAATGCATGAAATGATG
1 CCATAAATGAAATGCATGAAAGGATG
*
6874643 CAATAAATGAAATGCATGAAAGGATG
1 CCATAAATGAAATGCATGAAAGGATG
*
6874669 CAATAAATGAAATGCATGAAAGGATG
1 CCATAAATGAAATGCATGAAAGGATG
*
6874695 -CAT---T-AAAGGCATGAAAGGATG
1 CCATAAATGAAATGCATGAAAGGATG
6874716 CCATAAATGAAAT
1 CCATAAATGAAAT
6874729 TAATGAATTA
Statistics
Matches: 110, Mismatches: 11, Indels: 22
0.77 0.08 0.15
Matches are distributed among these distances:
20 13 0.12
21 19 0.17
22 5 0.05
24 1 0.01
25 6 0.05
26 66 0.60
ACGTcount: A:0.47, C:0.10, G:0.22, T:0.21
Consensus pattern (26 bp):
CCATAAATGAAATGCATGAAAGGATG
Found at i:6874663 original size:9 final size:9
Alignment explanation
Indices: 6874626--6874689 Score: 51
Period size: 9 Copynumber: 7.3 Consensus size: 9
6874616 GCCATAAATA
6874626 AAATGCATG
1 AAATGCATG
6874635 AAATG-ATG
1 AAATGCATG
* **
6874643 CAATAAATG
1 AAATGCATG
6874652 AAATGCATG
1 AAATGCATG
*
6874661 AAA-GGATG
1 AAATGCATG
* **
6874669 CAATAAATG
1 AAATGCATG
6874678 AAATGCATG
1 AAATGCATG
6874687 AAA
1 AAA
6874690 GGATGCATTA
Statistics
Matches: 41, Mismatches: 12, Indels: 4
0.72 0.21 0.07
Matches are distributed among these distances:
8 12 0.29
9 29 0.71
ACGTcount: A:0.52, C:0.08, G:0.20, T:0.20
Consensus pattern (9 bp):
AAATGCATG
Found at i:6874697 original size:12 final size:12
Alignment explanation
Indices: 6874654--6874716 Score: 53
Period size: 12 Copynumber: 5.3 Consensus size: 12
6874644 AATAAATGAA
6874654 ATGCATGAAAGG
1 ATGCATGAAAGG
*
6874666 ATGCAAT-AAATGAA
1 ATGC-ATGAAA-G-G
6874680 ATGCATGAAAGG
1 ATGCATGAAAGG
*
6874692 ATGCATTAAA-G
1 ATGCATGAAAGG
6874703 --GCATGAAAGG
1 ATGCATGAAAGG
6874713 ATGC
1 ATGC
6874717 CATAAATGAA
Statistics
Matches: 40, Mismatches: 4, Indels: 14
0.69 0.07 0.24
Matches are distributed among these distances:
9 7 0.17
10 1 0.03
11 1 0.03
12 18 0.45
13 6 0.15
14 7 0.17
ACGTcount: A:0.44, C:0.10, G:0.27, T:0.19
Consensus pattern (12 bp):
ATGCATGAAAGG
Found at i:6874735 original size:47 final size:47
Alignment explanation
Indices: 6874571--6874728 Score: 210
Period size: 52 Copynumber: 3.3 Consensus size: 47
6874561 CAAAACGAAT
* *
6874571 CCATAAATGAAATGCTTGAAAGGATGCATT-AAGGCATGAAAAGATG
1 CCATAAATGAAATGCATGAAAGGATGCATTAAAGGCATGAAAGGATG
* * *
6874617 CCATAAATAAAATGCATGAAATGATGCAATAAATGAAATGCATGAAAGGATG
1 CCATAAATGAAATGCATGAAAGGATGC-AT---T-AAAGGCATGAAAGGATG
*
6874669 CAATAAATGAAATGCATGAAAGGATGCATTAAAGGCATGAAAGGATG
1 CCATAAATGAAATGCATGAAAGGATGCATTAAAGGCATGAAAGGATG
6874716 CCATAAATGAAAT
1 CCATAAATGAAAT
6874729 TAATGAATTA
Statistics
Matches: 96, Mismatches: 10, Indels: 11
0.82 0.09 0.09
Matches are distributed among these distances:
46 24 0.25
47 30 0.31
48 1 0.01
50 1 0.01
51 2 0.02
52 38 0.40
ACGTcount: A:0.47, C:0.10, G:0.22, T:0.21
Consensus pattern (47 bp):
CCATAAATGAAATGCATGAAAGGATGCATTAAAGGCATGAAAGGATG
Found at i:6880444 original size:55 final size:54
Alignment explanation
Indices: 6880303--6880864 Score: 553
Period size: 55 Copynumber: 10.3 Consensus size: 54
6880293 TTTATTAAGA
* *
6880303 TGCACACGTAGTGCCTATACGG-TAGTTCATCAACTCATGATGAATTAT-GTGCG--T
1 TGCACACATAGTGCCTGTACGGTTA-TTCATCAACT-ATGATGAATT-TCGTG-GATT
* * * *
6880357 TGTACACATCGTGCCTATATGGTTATTCATCAACTATTGATGAATTTCGTGGATT
1 TGCACACATAGTGCCTGTACGGTTATTCATCAACTA-TGATGAATTTCGTGGATT
** * *
6880412 TGCACACATAGTGTTTGTACGGTTATTCATCAACTCATGATGAATTCCATGGATT
1 TGCACACATAGTGCCTGTACGGTTATTCATCAACT-ATGATGAATTTCGTGGATT
* *
6880467 TGCACACATAGTGCCTATACGGTTATTCATCAACTCATGATGAATTTCGTGAATT
1 TGCACACATAGTGCCTGTACGGTTATTCATCAACT-ATGATGAATTTCGTGGATT
** * * * * *
6880522 TGCGGACATAGTGTCTGTATGGTTATTCATCAACACATGATGAATTCCGTGAATT
1 TGCACACATAGTGCCTGTACGGTTATTCATCAAC-TATGATGAATTTCGTGGATT
* * * * *
6880577 TG--CACATAGTGCATGTATGTTTATTCATCAACTAATGATGAATTCCATGGATT
1 TGCACACATAGTGCCTGTACGGTTATTCATCAACT-ATGATGAATTTCGTGGATT
* *
6880630 TGCATACATAGTGCCTGTA-GGTTATTCATCAACTCATGATGAATTTCGTGAATT
1 TGCACACATAGTGCCTGTACGGTTATTCATCAACT-ATGATGAATTTCGTGGATT
* * * * *
6880684 TGCAGACATAGTGCCTATACGATTATTCATCAACTCGTGATGAATTTCGTGAATT
1 TGCACACATAGTGCCTGTACGGTTATTCATCAACT-ATGATGAATTTCGTGGATT
* * * * * * *
6880739 TGCATAAATAGTGCTTGTACGTTTATTCATCAACTAATGATGAATTCCATTGATT
1 TGCACACATAGTGCCTGTACGGTTATTCATCAACT-ATGATGAATTTCGTGGATT
* * * * * *
6880794 TGTACACATAGTGCCTCTACAGTTATTCTTCAACTCATAATGAATTTTGTGGATT
1 TGCACACATAGTGCCTGTACGGTTATTCATCAACT-ATGATGAATTTCGTGGATT
*
6880849 TGCACACATAATGCCT
1 TGCACACATAGTGCCT
6880865 ATAGTACACA
Statistics
Matches: 427, Mismatches: 70, Indels: 21
0.82 0.14 0.04
Matches are distributed among these distances:
53 48 0.11
54 87 0.20
55 291 0.68
56 1 0.00
ACGTcount: A:0.28, C:0.18, G:0.18, T:0.36
Consensus pattern (54 bp):
TGCACACATAGTGCCTGTACGGTTATTCATCAACTATGATGAATTTCGTGGATT
Found at i:6880512 original size:110 final size:110
Alignment explanation
Indices: 6880303--6880864 Score: 643
Period size: 110 Copynumber: 5.1 Consensus size: 110
6880293 TTTATTAAGA
* * ** *
6880303 TGCACACGTAGTGCCTATACGG-TAGTTCATCAACTCATGATGAATT--ATGTGCGTTGTACACA
1 TGCACACATAGTGCCTGTACGGTTA-TTCATCAACTCATGATGAATTCCATG-GATTTGCACACA
* *
6880365 TCGTGCCTATATGGTTATTCATCAACT-ATTGATGAATTTCGTGGATT
64 TAGTGCCTATACGGTTATTCATCAACTCA-TGATGAATTTCGTGGATT
**
6880412 TGCACACATAGTGTTTGTACGGTTATTCATCAACTCATGATGAATTCCATGGATTTGCACACATA
1 TGCACACATAGTGCCTGTACGGTTATTCATCAACTCATGATGAATTCCATGGATTTGCACACATA
*
6880477 GTGCCTATACGGTTATTCATCAACTCATGATGAATTTCGTGAATT
66 GTGCCTATACGGTTATTCATCAACTCATGATGAATTTCGTGGATT
** * * * * *
6880522 TGCGGACATAGTGTCTGTATGGTTATTCATCAACACATGATGAATTCCGTGAATTTG--CACATA
1 TGCACACATAGTGCCTGTACGGTTATTCATCAACTCATGATGAATTCCATGGATTTGCACACATA
* * * * * * *
6880585 GTGCATGTATGTTTATTCATCAACTAATGATGAATTCCATGGATT
66 GTGCCTATACGGTTATTCATCAACTCATGATGAATTTCGTGGATT
* * * * *
6880630 TGCATACATAGTGCCTGTA-GGTTATTCATCAACTCATGATGAATTTCGTGAATTTGCAGACATA
1 TGCACACATAGTGCCTGTACGGTTATTCATCAACTCATGATGAATTCCATGGATTTGCACACATA
* * *
6880694 GTGCCTATACGATTATTCATCAACTCGTGATGAATTTCGTGAATT
66 GTGCCTATACGGTTATTCATCAACTCATGATGAATTTCGTGGATT
* * * * * * *
6880739 TGCATAAATAGTGCTTGTACGTTTATTCATCAACTAATGATGAATTCCATTGATTTGTACACATA
1 TGCACACATAGTGCCTGTACGGTTATTCATCAACTCATGATGAATTCCATGGATTTGCACACATA
* * * * *
6880804 GTGCCTCTACAGTTATTCTTCAACTCATAATGAATTTTGTGGATT
66 GTGCCTATACGGTTATTCATCAACTCATGATGAATTTCGTGGATT
*
6880849 TGCACACATAATGCCT
1 TGCACACATAGTGCCT
6880865 ATAGTACACA
Statistics
Matches: 384, Mismatches: 62, Indels: 13
0.84 0.14 0.03
Matches are distributed among these distances:
107 35 0.09
108 59 0.15
109 97 0.25
110 189 0.49
111 4 0.01
ACGTcount: A:0.28, C:0.18, G:0.18, T:0.36
Consensus pattern (110 bp):
TGCACACATAGTGCCTGTACGGTTATTCATCAACTCATGATGAATTCCATGGATTTGCACACATA
GTGCCTATACGGTTATTCATCAACTCATGATGAATTTCGTGGATT
Found at i:6880821 original size:272 final size:272
Alignment explanation
Indices: 6880328--6880854 Score: 648
Period size: 272 Copynumber: 1.9 Consensus size: 272
6880318 TATACGGTAG
* * * *
6880328 TTCATCAACTCATGATGAATTATGTGCGTTGTACACATCGTGCCTATATGGTTATTCATCAACTA
1 TTCATCAACTAATGATGAATTATGTGAGTTGCACACATAGTGCCTATATGGTTATTCATCAACTA
* ** * *
6880393 TTGATGAATTTCGTGGATTTGCACACATAGTGTTTGTACGGTTATTCATCAACTCATGATGAATT
66 TTGATGAATTTCGTGAATTTGCACACATAGTGCCTATACGATTATTCATCAACTCATGATGAATT
* * * *
6880458 CCATGGATTTGCACACATAGTGCCTATACGGTTATTCATCAACTCATGATGAATTTCGTGAATTT
131 CCATGAATTTGCACAAATAGTGCCTATACGGTTATTCATCAACTAATGATGAATTCCGTGAATTT
** * * ** *
6880523 GCGGACATAGTGTCTGTATGGTTATTCATCAACACATGATGAATTCCGTGAATTTGCACATAGTG
196 GCACACATAGTGCCTCTACAGTTATTCATCAACACATAATGAATTCCGTGAATTTGCACATAGTG
6880588 CATGTATGTTTA
261 CATGTATGTTTA
* * *
6880600 TTCATCAACTAATGATGAATTCCATG-GATTTGCATACATAGTGCCTGTA-GGTTATTCATCAAC
1 TTCATCAACTAATGATGAATT--ATGTGAGTTGCACACATAGTGCCTATATGGTTATTCATCAAC
* *
6880663 TCA-TGATGAATTTCGTGAATTTGCAGACATAGTGCCTATACGATTATTCATCAACTCGTGATGA
64 T-ATTGATGAATTTCGTGAATTTGCACACATAGTGCCTATACGATTATTCATCAACTCATGATGA
* * * * * * *
6880727 ATTTCGTGAATTTGCATAAATAGTGCTTGTACGTTTATTCATCAACTAATGATGAATTCCATTG-
128 ATTCCATGAATTTGCACAAATAGTGCCTATACGGTTATTCATCAACTAATGATGAATTCC-GTGA
* * * ** *
6880791 ATTTGTACACATAGTGCCTCTACAGTTATTCTTCAACTCATAATGAATTTTGTGGATTTGCACA
192 ATTTGCACACATAGTGCCTCTACAGTTATTCATCAACACATAATGAATTCCGTGAATTTGCACA
6880855 CATAATGCCT
Statistics
Matches: 213, Mismatches: 38, Indels: 8
0.82 0.15 0.03
Matches are distributed among these distances:
272 190 0.89
273 20 0.09
274 3 0.01
ACGTcount: A:0.28, C:0.17, G:0.17, T:0.37
Consensus pattern (272 bp):
TTCATCAACTAATGATGAATTATGTGAGTTGCACACATAGTGCCTATATGGTTATTCATCAACTA
TTGATGAATTTCGTGAATTTGCACACATAGTGCCTATACGATTATTCATCAACTCATGATGAATT
CCATGAATTTGCACAAATAGTGCCTATACGGTTATTCATCAACTAATGATGAATTCCGTGAATTT
GCACACATAGTGCCTCTACAGTTATTCATCAACACATAATGAATTCCGTGAATTTGCACATAGTG
CATGTATGTTTA
Done.