Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: VEPZ01008273.1 Hibiscus syriacus cultivar Beakdansim tig00110930_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: 1042195
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
File 1 of 4
Found at i:5417 original size:2 final size:2
Alignment explanation
Indices: 5410--5471 Score: 124
Period size: 2 Copynumber: 31.0 Consensus size: 2
5400 TTACCCTAAC
5410 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
5452 TA TA TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA
5472 CACACTTTAA
Statistics
Matches: 60, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 60 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
TA
Found at i:7050 original size:15 final size:16
Alignment explanation
Indices: 7008--7053 Score: 74
Period size: 16 Copynumber: 2.8 Consensus size: 16
6998 TAATCTTGTT
7008 GGTTGAAAAAAACTGA
1 GGTTGAAAAAAACTGA
7024 GGTTGAAAAAAACTGA
1 GGTTGAAAAAAACTGA
*
7040 GGTTAATAAAAAAC
1 GGTTGA-AAAAAAC
7054 AAGAGACATC
Statistics
Matches: 28, Mismatches: 1, Indels: 1
0.93 0.03 0.03
Matches are distributed among these distances:
16 21 0.75
17 7 0.25
ACGTcount: A:0.52, C:0.07, G:0.22, T:0.20
Consensus pattern (16 bp):
GGTTGAAAAAAACTGA
Found at i:9889 original size:17 final size:18
Alignment explanation
Indices: 9869--9902 Score: 52
Period size: 17 Copynumber: 1.9 Consensus size: 18
9859 AGGTTAAATG
9869 AATTTTTAATT-TAATTT
1 AATTTTTAATTATAATTT
*
9886 AATTTTTTATTATAATT
1 AATTTTTAATTATAATT
9903 ATATATAATT
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
17 10 0.67
18 5 0.33
ACGTcount: A:0.35, C:0.00, G:0.00, T:0.65
Consensus pattern (18 bp):
AATTTTTAATTATAATTT
Found at i:15364 original size:12 final size:10
Alignment explanation
Indices: 15338--15367 Score: 51
Period size: 10 Copynumber: 2.9 Consensus size: 10
15328 CGGAGTCTGT
15338 TTTTTTAATA
1 TTTTTTAATA
15348 TTTTTTAATA
1 TTTTTTAATA
15358 TTCTTTTAAT
1 TT-TTTTAAT
15368 TCTATCAAGT
Statistics
Matches: 19, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
10 12 0.63
11 7 0.37
ACGTcount: A:0.27, C:0.03, G:0.00, T:0.70
Consensus pattern (10 bp):
TTTTTTAATA
Found at i:22501 original size:35 final size:34
Alignment explanation
Indices: 22460--22572 Score: 145
Period size: 35 Copynumber: 3.2 Consensus size: 34
22450 AAAACAATCC
*
22460 TCAATTTCATTTTAAACCACAAATTCCAAAATAAT
1 TCAATTTCATTTTAAACC-CAAATTCTAAAATAAT
*
22495 TCAATTTCATTCTAAACCCTAAATTCTAAAATAAT
1 TCAATTTCATTTTAAACCC-AAATTCTAAAATAAT
* * * *
22530 TCAATTACATTCTAAAACCCAAATTCTGAAATACT
1 TCAATTTCATT-TTAAACCCAAATTCTAAAATAAT
22565 TCAATTTC
1 TCAATTTC
22573 TGTCTTTTTT
Statistics
Matches: 68, Mismatches: 8, Indels: 4
0.85 0.10 0.05
Matches are distributed among these distances:
34 1 0.01
35 61 0.90
36 6 0.09
ACGTcount: A:0.42, C:0.21, G:0.01, T:0.35
Consensus pattern (34 bp):
TCAATTTCATTTTAAACCCAAATTCTAAAATAAT
Found at i:23670 original size:35 final size:34
Alignment explanation
Indices: 23622--23733 Score: 143
Period size: 35 Copynumber: 3.2 Consensus size: 34
23612 ATTCCTCCTT
* *
23622 AAATTGAAATATTTTAGAATTTGGGTTTTAGAATG
1 AAATTGAATTATTTTGGAATTTGGG-TTTAGAATG
* *
23657 TAATTGAATTATTTTGGAATTTAAGGTTTAGAATG
1 AAATTGAATTATTTTGGAATTT-GGGTTTAGAATG
*
23692 AAATTGAATTACTTTGGAATTTGGGGTTTAGAATG
1 AAATTGAATTATTTTGGAATTT-GGGTTTAGAATG
*
23727 AAGTTGA
1 AAATTGA
23734 GGAATGTTTT
Statistics
Matches: 67, Mismatches: 9, Indels: 2
0.86 0.12 0.03
Matches are distributed among these distances:
35 65 0.97
36 2 0.03
ACGTcount: A:0.35, C:0.01, G:0.22, T:0.42
Consensus pattern (34 bp):
AAATTGAATTATTTTGGAATTTGGGTTTAGAATG
Found at i:24230 original size:16 final size:16
Alignment explanation
Indices: 24209--24239 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
24199 TCAGGTTGAG
*
24209 GTGAGGTCGGGTGGAA
1 GTGAGGTCGAGTGGAA
24225 GTGAGGTCGAGTGGA
1 GTGAGGTCGAGTGGA
24240 GGTTCGGCGG
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
16 14 1.00
ACGTcount: A:0.19, C:0.06, G:0.55, T:0.19
Consensus pattern (16 bp):
GTGAGGTCGAGTGGAA
Found at i:25752 original size:253 final size:256
Alignment explanation
Indices: 25249--25762 Score: 740
Period size: 253 Copynumber: 2.0 Consensus size: 256
25239 ATTTTTATTC
25249 AATATATAAATTAGAAACCCGACCCGACACGACAAAAAATAATAAAAAAATATTTTTATTCAATA
1 AATATATAAATTAGAAACCCGACCCGACAC-AC-AAAAATAATAAAAAAATATTTTTATTCAATA
* *
25314 AAAACATTGACTTAATTGAAAAAAAAAATTATATATAGAGGGGTATTATTGTAATTATTCCTAAA
64 AAAACAATGACTTAATTGAAAAAAAAAATTATATAGAGAGGGGTATTATTGTAATTATTCCTAAA
*
25379 TATATAAGGTAAAATTATATATTTTTTCCGGGTCGGTCCAGTTTTTTCACCCTAAACCCGAAACC
129 TATATAAGGTAAAATTATATATATTTTCCGGGTCGGT-CAG-TTTTTCACCCTAAACCCGAAACC
25444 GACCCGAATATCACACTTAAAAAAACCCAACCCGACCCGAACAAAATAAAGTTTCACCCGACCCG
192 GACCCGAATATCACACTTAAAAAAACCCAACCCGACCCGAACAAAATAAAGTTTCACCCGACCCG
* * * *
25509 AATATATGAATTAGAAATCCGACCCGAC-C-C-GAAATAATAAAAAATTATTTTTATTCAATAAA
1 AATATATAAATTAGAAACCCGACCCGACACACAAAAATAATAAAAAAATATTTTTATTCAATAAA
*
25571 AACAATGACTTAATTG-AAAAAAATA-TATATAGAGAGGGGTATTATTGTAATTATTCCTAAATA
66 AACAATGACTTAATTGAAAAAAAAAATTATATAGAGAGGGGTATTATTGTAATTATTCCTAAATA
* *
25634 TATCAGTTAAAATTATATATATTTT-CGGGTCAGGT-A-TTTTTCACCCTAAACCCGAACTCGAC
131 TATAAGGTAAAATTATATATATTTTCCGGGTC-GGTCAGTTTTTCACCCTAAACCCGAA----A-
* * * * *
25696 CCGACTCGAATATCACACTTAAAAAAACCGACCCCGACCCG-ACCAAATTAAGTTTCACCCGACC
190 CCGACCCGAATATCACACTTAAAAAAACCCAACCCGACCCGAACAAAATAAAGTTTCACCCGACC
25760 CG
255 CG
25762 A
1 A
25763 CCCAAAATAA
Statistics
Matches: 233, Mismatches: 15, Indels: 19
0.87 0.06 0.07
Matches are distributed among these distances:
249 20 0.09
251 1 0.00
252 6 0.03
253 87 0.37
254 46 0.20
255 45 0.19
257 1 0.00
259 1 0.00
260 26 0.11
ACGTcount: A:0.42, C:0.20, G:0.11, T:0.27
Consensus pattern (256 bp):
AATATATAAATTAGAAACCCGACCCGACACACAAAAATAATAAAAAAATATTTTTATTCAATAAA
AACAATGACTTAATTGAAAAAAAAAATTATATAGAGAGGGGTATTATTGTAATTATTCCTAAATA
TATAAGGTAAAATTATATATATTTTCCGGGTCGGTCAGTTTTTCACCCTAAACCCGAAACCGACC
CGAATATCACACTTAAAAAAACCCAACCCGACCCGAACAAAATAAAGTTTCACCCGACCCG
Found at i:27066 original size:32 final size:32
Alignment explanation
Indices: 27025--27087 Score: 126
Period size: 32 Copynumber: 2.0 Consensus size: 32
27015 TATATTGTTC
27025 TCGATGATCAAATACAGTTTTGATAGTGCTAT
1 TCGATGATCAAATACAGTTTTGATAGTGCTAT
27057 TCGATGATCAAATACAGTTTTGATAGTGCTA
1 TCGATGATCAAATACAGTTTTGATAGTGCTA
27088 CTAGATGCTT
Statistics
Matches: 31, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
32 31 1.00
ACGTcount: A:0.32, C:0.13, G:0.19, T:0.37
Consensus pattern (32 bp):
TCGATGATCAAATACAGTTTTGATAGTGCTAT
Found at i:30101 original size:10 final size:10
Alignment explanation
Indices: 30086--30122 Score: 56
Period size: 10 Copynumber: 3.7 Consensus size: 10
30076 ACACCAAATC
30086 CTCTCAACTT
1 CTCTCAACTT
* *
30096 CTCTCAAATA
1 CTCTCAACTT
30106 CTCTCAACTT
1 CTCTCAACTT
30116 CTCTCAA
1 CTCTCAA
30123 ATATTCTTAT
Statistics
Matches: 23, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
10 23 1.00
ACGTcount: A:0.27, C:0.38, G:0.00, T:0.35
Consensus pattern (10 bp):
CTCTCAACTT
Found at i:30137 original size:20 final size:20
Alignment explanation
Indices: 30080--30125 Score: 83
Period size: 20 Copynumber: 2.3 Consensus size: 20
30070 TTCATCACAC
*
30080 CAAATCCTCTCAACTTCTCT
1 CAAATACTCTCAACTTCTCT
30100 CAAATACTCTCAACTTCTCT
1 CAAATACTCTCAACTTCTCT
30120 CAAATA
1 CAAATA
30126 TTCTTATATT
Statistics
Matches: 25, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
20 25 1.00
ACGTcount: A:0.33, C:0.35, G:0.00, T:0.33
Consensus pattern (20 bp):
CAAATACTCTCAACTTCTCT
Found at i:30204 original size:9 final size:8
Alignment explanation
Indices: 30169--30227 Score: 52
Period size: 8 Copynumber: 7.4 Consensus size: 8
30159 TTTTATTATA
*
30169 TTTAATAT
1 TTTAATTT
30177 TTT-A-TT
1 TTTAATTT
30183 TTTAATTT
1 TTTAATTT
30191 ATTTAAGTTT
1 -TTTAA-TTT
*
30201 TTTAATAT
1 TTTAATTT
30209 TTT-ATTT
1 TTTAATTT
30216 ATTTAATTT
1 -TTTAATTT
30225 TTT
1 TTT
30228 TTGCAGATAT
Statistics
Matches: 42, Mismatches: 3, Indels: 12
0.74 0.05 0.21
Matches are distributed among these distances:
6 4 0.10
7 5 0.12
8 16 0.38
9 14 0.33
10 3 0.07
ACGTcount: A:0.27, C:0.00, G:0.02, T:0.71
Consensus pattern (8 bp):
TTTAATTT
Found at i:30228 original size:25 final size:23
Alignment explanation
Indices: 30155--30227 Score: 94
Period size: 24 Copynumber: 3.0 Consensus size: 23
30145 CTATTTAAGG
*
30155 TATATTTTATTATATTTAATATTT
1 TATATTTTATT-TATTTAATTTTT
30179 TAT-TTTTAATTTATTTAAGTTTTT
1 TATATTTT-ATTTATTTAA-TTTTT
30203 TAATATTTTATTTATTTAATTTTT
1 T-ATATTTTATTTATTTAATTTTT
30227 T
1 T
30228 TTGCAGATAT
Statistics
Matches: 44, Mismatches: 1, Indels: 8
0.83 0.02 0.15
Matches are distributed among these distances:
23 11 0.25
24 17 0.39
25 12 0.27
26 4 0.09
ACGTcount: A:0.29, C:0.00, G:0.01, T:0.70
Consensus pattern (23 bp):
TATATTTTATTTATTTAATTTTT
Found at i:32374 original size:20 final size:20
Alignment explanation
Indices: 32351--32446 Score: 101
Period size: 20 Copynumber: 5.0 Consensus size: 20
32341 GAGGGATTAT
32351 CAGTGGTCCTTCGGGACAAA
1 CAGTGGTCCTTCGGGACAAA
*
32371 CAGTGGTCCTTCAGGAC--A
1 CAGTGGTCCTTCGGGACAAA
* * * *
32389 TAGTGGTTCTTCGGAACAAT
1 CAGTGGTCCTTCGGGACAAA
32409 CAGTGGTCCTTCGGGAC--A
1 CAGTGGTCCTTCGGGACAAA
* *
32427 TAGTGGTCATTCGGGACAAA
1 CAGTGGTCCTTCGGGACAAA
32447 TATTCAGTGC
Statistics
Matches: 60, Mismatches: 12, Indels: 8
0.75 0.15 0.10
Matches are distributed among these distances:
18 29 0.48
20 31 0.52
ACGTcount: A:0.24, C:0.22, G:0.29, T:0.25
Consensus pattern (20 bp):
CAGTGGTCCTTCGGGACAAA
Found at i:32395 original size:18 final size:18
Alignment explanation
Indices: 32352--32444 Score: 105
Period size: 18 Copynumber: 4.9 Consensus size: 18
32342 AGGGATTATC
*
32352 AGTGGTCCTTCGGGACAAAC
1 AGTGGTCCTTCGGGAC--AT
*
32372 AGTGGTCCTTCAGGACAT
1 AGTGGTCCTTCGGGACAT
* *
32390 AGTGGTTCTTCGGAACAAT
1 AGTGGTCCTTCGGGAC-AT
32409 CAGTGGTCCTTCGGGACAT
1 -AGTGGTCCTTCGGGACAT
*
32428 AGTGGTCATTCGGGACA
1 AGTGGTCCTTCGGGACA
32445 AATATTCAGT
Statistics
Matches: 63, Mismatches: 8, Indels: 6
0.82 0.10 0.08
Matches are distributed among these distances:
18 30 0.48
19 4 0.06
20 29 0.46
ACGTcount: A:0.23, C:0.22, G:0.30, T:0.26
Consensus pattern (18 bp):
AGTGGTCCTTCGGGACAT
Found at i:32413 original size:38 final size:38
Alignment explanation
Indices: 32352--32446 Score: 136
Period size: 38 Copynumber: 2.5 Consensus size: 38
32342 AGGGATTATC
*
32352 AGTGGTCCTTCGGGACAAACAGTGGTCCTTCAGGACAT
1 AGTGGTCCTTCGGAACAAACAGTGGTCCTTCAGGACAT
* * *
32390 AGTGGTTCTTCGGAACAATCAGTGGTCCTTCGGGACAT
1 AGTGGTCCTTCGGAACAAACAGTGGTCCTTCAGGACAT
* *
32428 AGTGGTCATTCGGGACAAA
1 AGTGGTCCTTCGGAACAAA
32447 TATTCAGTGC
Statistics
Matches: 49, Mismatches: 8, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
38 49 1.00
ACGTcount: A:0.24, C:0.21, G:0.29, T:0.25
Consensus pattern (38 bp):
AGTGGTCCTTCGGAACAAACAGTGGTCCTTCAGGACAT
Found at i:33747 original size:27 final size:27
Alignment explanation
Indices: 33709--33763 Score: 69
Period size: 27 Copynumber: 2.0 Consensus size: 27
33699 ATGCCGCCTT
*
33709 CGCCACTCTCACCTG-GTTTTATGACCC
1 CGCCACTCTCA-CAGAGTTTTATGACCC
33736 CGCCAC-CGTCACAGAGTTTTATGACCC
1 CGCCACTC-TCACAGAGTTTTATGACCC
33763 C
1 C
33764 TCCTGGAGGA
Statistics
Matches: 25, Mismatches: 1, Indels: 4
0.83 0.03 0.13
Matches are distributed among these distances:
26 3 0.12
27 22 0.88
ACGTcount: A:0.18, C:0.40, G:0.16, T:0.25
Consensus pattern (27 bp):
CGCCACTCTCACAGAGTTTTATGACCC
Found at i:34930 original size:16 final size:16
Alignment explanation
Indices: 34889--34931 Score: 59
Period size: 16 Copynumber: 2.7 Consensus size: 16
34879 AAGCTGCTAT
34889 CACATGAGAGCATGGA
1 CACATGAGAGCATGGA
*
34905 CGCATGAGAGCATGGA
1 CACATGAGAGCATGGA
* *
34921 TACATCAGAGC
1 CACATGAGAGC
34932 TTGAAAAAAC
Statistics
Matches: 23, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
16 23 1.00
ACGTcount: A:0.35, C:0.21, G:0.30, T:0.14
Consensus pattern (16 bp):
CACATGAGAGCATGGA
Found at i:38464 original size:28 final size:28
Alignment explanation
Indices: 38411--38465 Score: 74
Period size: 28 Copynumber: 2.0 Consensus size: 28
38401 CAATAGAATA
* * *
38411 GAATATCGGCTTTTTTTTTTGGATAATT
1 GAATATCGGCTTTTGTATTTAGATAATT
*
38439 GAATATCGGCTTTTGTATTTATATAAT
1 GAATATCGGCTTTTGTATTTAGATAAT
38466 ATAACACAAT
Statistics
Matches: 23, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
28 23 1.00
ACGTcount: A:0.25, C:0.07, G:0.16, T:0.51
Consensus pattern (28 bp):
GAATATCGGCTTTTGTATTTAGATAATT
Found at i:43472 original size:2 final size:2
Alignment explanation
Indices: 43465--43496 Score: 64
Period size: 2 Copynumber: 16.0 Consensus size: 2
43455 ATTGGCTGAA
43465 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
43497 TATTAGCTTT
Statistics
Matches: 30, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 30 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:50893 original size:93 final size:93
Alignment explanation
Indices: 50734--50919 Score: 363
Period size: 93 Copynumber: 2.0 Consensus size: 93
50724 TAAAAAAAAA
50734 AACAAATGGGGTGCTCCGAGAATCGAACTCGGGACCTCTCGCACCCGAAGCGAGAATCATACCAC
1 AACAAATGGGGTGCTCCGAGAATCGAACTCGGGACCTCTCGCACCCGAAGCGAGAATCATACCAC
*
50799 TAGATCAAGCACCCTTTGATAATGGCAC
66 TAGACCAAGCACCCTTTGATAATGGCAC
50827 AACAAATGGGGTGCTCCGAGAATCGAACTCGGGACCTCTCGCACCCGAAGCGAGAATCATACCAC
1 AACAAATGGGGTGCTCCGAGAATCGAACTCGGGACCTCTCGCACCCGAAGCGAGAATCATACCAC
50892 TAGACCAAGCACCCTTTGATAATGGCAC
66 TAGACCAAGCACCCTTTGATAATGGCAC
50920 CTGGATTATA
Statistics
Matches: 92, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
93 92 1.00
ACGTcount: A:0.31, C:0.30, G:0.23, T:0.17
Consensus pattern (93 bp):
AACAAATGGGGTGCTCCGAGAATCGAACTCGGGACCTCTCGCACCCGAAGCGAGAATCATACCAC
TAGACCAAGCACCCTTTGATAATGGCAC
Found at i:58895 original size:24 final size:24
Alignment explanation
Indices: 58853--58899 Score: 67
Period size: 24 Copynumber: 2.0 Consensus size: 24
58843 ATAACAAGAC
58853 TCAACCGTAAAAGAAAAGCAATGA
1 TCAACCGTAAAAGAAAAGCAATGA
* * *
58877 TCAACCGTGAGAGACAAGCAATG
1 TCAACCGTAAAAGAAAAGCAATG
58900 TTCACCCTTA
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
24 20 1.00
ACGTcount: A:0.47, C:0.19, G:0.21, T:0.13
Consensus pattern (24 bp):
TCAACCGTAAAAGAAAAGCAATGA
Found at i:60658 original size:21 final size:20
Alignment explanation
Indices: 60633--60681 Score: 55
Period size: 20 Copynumber: 2.4 Consensus size: 20
60623 TTAATTTTTT
60633 TAAAAATAAATAAAAATGT-AA
1 TAAAAATAAAT-AAAAT-TCAA
* *
60654 TAAAATTCAATAAAATTCAA
1 TAAAAATAAATAAAATTCAA
60674 TAAAAATA
1 TAAAAATA
60682 TAATGTAAAG
Statistics
Matches: 23, Mismatches: 4, Indels: 3
0.77 0.13 0.10
Matches are distributed among these distances:
19 1 0.04
20 13 0.57
21 9 0.39
ACGTcount: A:0.67, C:0.04, G:0.02, T:0.27
Consensus pattern (20 bp):
TAAAAATAAATAAAATTCAA
Found at i:60799 original size:29 final size:29
Alignment explanation
Indices: 60751--60815 Score: 71
Period size: 29 Copynumber: 2.2 Consensus size: 29
60741 AAAAAATATT
*
60751 AAATAAATATTAAATTTTAA-TTTTATTAA
1 AAATAAATA-TAAATTTTAACTGTTATTAA
*
60780 AAATAAATA-AACATTATTAACTGTTGTTAA
1 AAATAAATATAA-ATT-TTAACTGTTATTAA
60810 AAATAA
1 AAATAA
60816 TAATTAATGA
Statistics
Matches: 31, Mismatches: 2, Indels: 5
0.82 0.05 0.13
Matches are distributed among these distances:
27 2 0.06
28 3 0.10
29 13 0.42
30 13 0.42
ACGTcount: A:0.54, C:0.03, G:0.03, T:0.40
Consensus pattern (29 bp):
AAATAAATATAAATTTTAACTGTTATTAA
Found at i:61865 original size:10 final size:10
Alignment explanation
Indices: 61821--61868 Score: 51
Period size: 10 Copynumber: 4.7 Consensus size: 10
61811 TTTACATTAT
*
61821 ATTTTTATTA
1 ATTTTTATTC
* *
61831 AATTTAATTC
1 ATTTTTATTC
61841 ATTTTTATTAC
1 ATTTTTATT-C
*
61852 ATTTTTATTT
1 ATTTTTATTC
61862 ATTTTTA
1 ATTTTTA
61869 AAAAAGTGAA
Statistics
Matches: 31, Mismatches: 6, Indels: 2
0.79 0.15 0.05
Matches are distributed among these distances:
10 21 0.68
11 10 0.32
ACGTcount: A:0.29, C:0.04, G:0.00, T:0.67
Consensus pattern (10 bp):
ATTTTTATTC
Found at i:63529 original size:18 final size:18
Alignment explanation
Indices: 63490--63545 Score: 69
Period size: 18 Copynumber: 3.2 Consensus size: 18
63480 CGATATATAA
63490 TATTTTAAATAA-TATTT
1 TATTTTAAATAATTATTT
* *
63507 AATTTAAAATAATTATTT
1 TATTTTAAATAATTATTT
* *
63525 TATTTTTAATGATTATTT
1 TATTTTAAATAATTATTT
63543 TAT
1 TAT
63546 GTTTCATTAT
Statistics
Matches: 32, Mismatches: 6, Indels: 1
0.82 0.15 0.03
Matches are distributed among these distances:
17 10 0.31
18 22 0.69
ACGTcount: A:0.39, C:0.00, G:0.02, T:0.59
Consensus pattern (18 bp):
TATTTTAAATAATTATTT
Found at i:64467 original size:26 final size:25
Alignment explanation
Indices: 64438--64491 Score: 90
Period size: 26 Copynumber: 2.1 Consensus size: 25
64428 TTACTCCACC
*
64438 TAAAATTTTATAAGTTCTTCCATACT
1 TAAAATTTTATAAGTTCATCCAT-CT
64464 TAAAATTTTATAAGTTCATCCATCT
1 TAAAATTTTATAAGTTCATCCATCT
64489 TAA
1 TAA
64492 CATGAAATCT
Statistics
Matches: 27, Mismatches: 1, Indels: 1
0.93 0.03 0.03
Matches are distributed among these distances:
25 5 0.19
26 22 0.81
ACGTcount: A:0.37, C:0.15, G:0.04, T:0.44
Consensus pattern (25 bp):
TAAAATTTTATAAGTTCATCCATCT
Found at i:67161 original size:16 final size:16
Alignment explanation
Indices: 67126--67166 Score: 57
Period size: 16 Copynumber: 2.6 Consensus size: 16
67116 GTTTACTCCC
67126 GAATGATT-AAACGCT
1 GAATGATTCAAACGCT
* *
67141 GAATGATTCAAATGTT
1 GAATGATTCAAACGCT
67157 GAATGATTCA
1 GAATGATTCA
67167 GAGGCTCTGT
Statistics
Matches: 23, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
15 8 0.35
16 15 0.65
ACGTcount: A:0.39, C:0.10, G:0.20, T:0.32
Consensus pattern (16 bp):
GAATGATTCAAACGCT
Found at i:67267 original size:22 final size:22
Alignment explanation
Indices: 67239--67282 Score: 70
Period size: 22 Copynumber: 2.0 Consensus size: 22
67229 AGAATGTATC
*
67239 TTTGCTGAATCATTCAACACTG
1 TTTGCTGAATCAGTCAACACTG
*
67261 TTTGCTGAATCAGTCAGCACTG
1 TTTGCTGAATCAGTCAACACTG
67283 AATCATTCAG
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
22 20 1.00
ACGTcount: A:0.25, C:0.23, G:0.18, T:0.34
Consensus pattern (22 bp):
TTTGCTGAATCAGTCAACACTG
Found at i:68166 original size:20 final size:20
Alignment explanation
Indices: 67973--68169 Score: 147
Period size: 20 Copynumber: 9.8 Consensus size: 20
67963 CAACGTGATC
*
67973 TCAAATTCGCAACGCGA-AC
1 TCAAATTCGCAACGCGATAG
* * * *
67992 TCTAATTTCGCAACCCAAT-T
1 TC-AAATTCGCAACGCGATAG
* *
68012 TCCAATTTCGCAACGCGAATCTG
1 T-CAAATTCGCAACGCG-AT-AG
*
68035 T-AAA-TCGCAACGCGAATTTG
1 TCAAATTCGCAACGCG-A-TAG
*
68055 T-AAA-TCGCAACACAGA-AG
1 TCAAATTCGCAACGC-GATAG
68073 TCAAATTCGCAACGCGATAG
1 TCAAATTCGCAACGCGATAG
* * *
68093 TCAAATTCGCAACACAAAAG
1 TCAAATTCGCAACGCGATAG
68113 TCAAATTCGCAACGCGATAG
1 TCAAATTCGCAACGCGATAG
*
68133 CCAAATTCGCAACGCGATAG
1 TCAAATTCGCAACGCGATAG
* *
68153 TTAAATTCACAACGCGA
1 TCAAATTCGCAACGCGA
68170 AACACAATAT
Statistics
Matches: 146, Mismatches: 21, Indels: 21
0.78 0.11 0.11
Matches are distributed among these distances:
18 2 0.01
19 7 0.05
20 129 0.88
21 7 0.05
23 1 0.01
ACGTcount: A:0.37, C:0.26, G:0.16, T:0.21
Consensus pattern (20 bp):
TCAAATTCGCAACGCGATAG
Found at i:68740 original size:14 final size:14
Alignment explanation
Indices: 68693--68732 Score: 71
Period size: 14 Copynumber: 2.9 Consensus size: 14
68683 ACACGAAAAT
68693 GAAAATCGCAACAC
1 GAAAATCGCAACAC
*
68707 CAAAATCGCAACAC
1 GAAAATCGCAACAC
68721 GAAAATCGCAAC
1 GAAAATCGCAAC
68733 GTGAAAATGA
Statistics
Matches: 24, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
14 24 1.00
ACGTcount: A:0.50, C:0.30, G:0.12, T:0.07
Consensus pattern (14 bp):
GAAAATCGCAACAC
Found at i:68820 original size:20 final size:20
Alignment explanation
Indices: 68777--68820 Score: 61
Period size: 20 Copynumber: 2.2 Consensus size: 20
68767 GTATTGTGAT
* * *
68777 TTTCTCGTTGCGATTTTCAT
1 TTTCTCGTTGCGAATTTAAG
68797 TTTCTCGTTGCGAATTTAAG
1 TTTCTCGTTGCGAATTTAAG
68817 TTTC
1 TTTC
68821 AGAAACTACT
Statistics
Matches: 21, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
20 21 1.00
ACGTcount: A:0.14, C:0.18, G:0.16, T:0.52
Consensus pattern (20 bp):
TTTCTCGTTGCGAATTTAAG
Found at i:71024 original size:42 final size:42
Alignment explanation
Indices: 70977--71075 Score: 112
Period size: 42 Copynumber: 2.4 Consensus size: 42
70967 GATGCACCTA
*
70977 TCATCATTCAAGAGGCGC-CTCCTATCGTTCAAGAGGCCCCTC
1 TCATCATTCAAGAGGCGCACTCC-ACCGTTCAAGAGGCCCCTC
* * * *
71019 TCATCA-TCGAAGAAGCTCATTCCACCGTTCAAGAGGCCCCTG
1 TCATCATTC-AAGAGGCGCACTCCACCGTTCAAGAGGCCCCTC
*
71061 TCATCGTTCAAGAGG
1 TCATCATTCAAGAGG
71076 TCCCGTTCGC
Statistics
Matches: 47, Mismatches: 7, Indels: 6
0.78 0.12 0.10
Matches are distributed among these distances:
41 2 0.04
42 40 0.85
43 5 0.11
ACGTcount: A:0.24, C:0.32, G:0.20, T:0.23
Consensus pattern (42 bp):
TCATCATTCAAGAGGCGCACTCCACCGTTCAAGAGGCCCCTC
Found at i:71068 original size:21 final size:20
Alignment explanation
Indices: 70977--71095 Score: 78
Period size: 21 Copynumber: 5.7 Consensus size: 20
70967 GATGCACCTA
* *
70977 TCATCATTCAAGAGGCGCCT
1 TCATCGTTCAAGAGGCCCCT
*
70997 CCTATCGTTCAAGAGGCCCCT
1 TC-ATCGTTCAAGAGGCCCCT
* * * *
71018 CTCATC-ATCGAAGAAGCTCAT
1 -TCATCGTTC-AAGAGGCCCCT
*
71039 TCCACCGTTCAAGAGGCCCCT
1 T-CATCGTTCAAGAGGCCCCT
*
71060 GTCATCGTTCAAGAGGTCCCGT
1 -TCATCGTTCAAGAGG-CCCCT
**
71082 TCGCCGTTCAAGAG
1 TCATCGTTCAAGAG
71096 CTCGATTCAC
Statistics
Matches: 75, Mismatches: 17, Indels: 13
0.71 0.16 0.12
Matches are distributed among these distances:
20 4 0.05
21 63 0.84
22 8 0.11
ACGTcount: A:0.23, C:0.33, G:0.21, T:0.24
Consensus pattern (20 bp):
TCATCGTTCAAGAGGCCCCT
Found at i:71444 original size:11 final size:11
Alignment explanation
Indices: 71413--71445 Score: 57
Period size: 11 Copynumber: 3.0 Consensus size: 11
71403 GGGTGGTAAG
*
71413 TCTTATATTCT
1 TCTTATATTGT
71424 TCTTATATTGT
1 TCTTATATTGT
71435 TCTTATATTGT
1 TCTTATATTGT
71446 ATTTTGATTA
Statistics
Matches: 21, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
11 21 1.00
ACGTcount: A:0.18, C:0.12, G:0.06, T:0.64
Consensus pattern (11 bp):
TCTTATATTGT
Found at i:72547 original size:64 final size:66
Alignment explanation
Indices: 72465--72608 Score: 231
Period size: 66 Copynumber: 2.2 Consensus size: 66
72455 TTTTACATTG
*
72465 AAAGTTGATTTGTTTAA-TTGATGAAG-AAATAAGAATTA-TTTTTTGCTTATTTAATTGATTTG
1 AAAGTTGATTTGTTTAATTTGATG-AGTAAATAAAAATTATTTTTTTGCTTATTTAATTGATTTG
72527 TA
65 TA
* *
72529 AAAGTTGATTTGTTTAATTTGATGTGTAAATAAAAATTATTTTTTTGCTTGTTTAATTGATTTGT
1 AAAGTTGATTTGTTTAATTTGATGAGTAAATAAAAATTATTTTTTTGCTTATTTAATTGATTTGT
72594 A
66 A
72595 AAAGTTGATTTGTT
1 AAAGTTGATTTGTT
72609 GTTTTAAATT
Statistics
Matches: 74, Mismatches: 3, Indels: 4
0.91 0.04 0.05
Matches are distributed among these distances:
64 18 0.24
65 17 0.23
66 39 0.53
ACGTcount: A:0.32, C:0.01, G:0.16, T:0.51
Consensus pattern (66 bp):
AAAGTTGATTTGTTTAATTTGATGAGTAAATAAAAATTATTTTTTTGCTTATTTAATTGATTTGT
A
Found at i:72593 original size:66 final size:64
Alignment explanation
Indices: 72434--72608 Score: 228
Period size: 66 Copynumber: 2.6 Consensus size: 64
72424 TGGGGTACAC
*
72434 TTTTTTGCTTGTTTAATTGAATTT-TACATTGAAAGTTGATTTGTTTAATTGATGAAGAAATAAG
1 TTTTTTGCTTGTTTAATTG-ATTTGT--A---AAAGTTGATTTGTTTAATTGATGAAGAAATAAA
72498 AATTA
60 AATTA
* *
72503 TTTTTTGCTTATTTAATTGATTTGTAAAAGTTGATTTGTTTAATTTGATG-TGTAAATAAAAATT
1 TTTTTTGCTTGTTTAATTGATTTGTAAAAGTTGATTTGTTTAA-TTGATGAAG-AAATAAAAATT
72567 A
64 A
72568 TTTTTTTGCTTGTTTAATTGATTTGTAAAAGTTGATTTGTT
1 -TTTTTTGCTTGTTTAATTGATTTGTAAAAGTTGATTTGTT
72609 GTTTTAAATT
Statistics
Matches: 98, Mismatches: 4, Indels: 11
0.87 0.04 0.10
Matches are distributed among these distances:
64 18 0.18
65 17 0.17
66 39 0.40
67 1 0.01
68 4 0.04
69 19 0.19
ACGTcount: A:0.30, C:0.02, G:0.15, T:0.53
Consensus pattern (64 bp):
TTTTTTGCTTGTTTAATTGATTTGTAAAAGTTGATTTGTTTAATTGATGAAGAAATAAAAATTA
Found at i:72731 original size:20 final size:20
Alignment explanation
Indices: 72683--72731 Score: 53
Period size: 20 Copynumber: 2.5 Consensus size: 20
72673 CGCGAAATAA
*
72683 GCGTTGCGATAGTCAAATTC
1 GCGTTGCGAAAGTCAAATTC
****
72703 GTAACGCGAAAGTCAAATTC
1 GCGTTGCGAAAGTCAAATTC
72723 GCGTTGCGA
1 GCGTTGCGA
72732 TTTTCGGTTT
Statistics
Matches: 20, Mismatches: 9, Indels: 0
0.69 0.31 0.00
Matches are distributed among these distances:
20 20 1.00
ACGTcount: A:0.29, C:0.20, G:0.27, T:0.24
Consensus pattern (20 bp):
GCGTTGCGAAAGTCAAATTC
Found at i:72756 original size:13 final size:14
Alignment explanation
Indices: 72720--72758 Score: 55
Period size: 13 Copynumber: 2.9 Consensus size: 14
72710 GAAAGTCAAA
72720 TTCGCGTTGCGATT
1 TTCGCGTTGCGATT
72734 TTCG-GTTTGCGA-T
1 TTCGCG-TTGCGATT
72747 TTCGCGTTGCGA
1 TTCGCGTTGCGA
72759 ATTTGAATTT
Statistics
Matches: 23, Mismatches: 0, Indels: 5
0.82 0.00 0.18
Matches are distributed among these distances:
13 12 0.52
14 11 0.48
ACGTcount: A:0.08, C:0.21, G:0.31, T:0.41
Consensus pattern (14 bp):
TTCGCGTTGCGATT
Found at i:72762 original size:14 final size:14
Alignment explanation
Indices: 72720--72762 Score: 54
Period size: 14 Copynumber: 3.1 Consensus size: 14
72710 GAAAGTCAAA
*
72720 TTCGCGTTGCGATT
1 TTCGCGTTGCGAAT
72734 TTCG-GTTTGCG-AT
1 TTCGCG-TTGCGAAT
72747 TTCGCGTTGCGAAT
1 TTCGCGTTGCGAAT
72761 TT
1 TT
72763 GAATTTCGTG
Statistics
Matches: 25, Mismatches: 1, Indels: 6
0.78 0.03 0.19
Matches are distributed among these distances:
13 11 0.44
14 14 0.56
ACGTcount: A:0.09, C:0.19, G:0.28, T:0.44
Consensus pattern (14 bp):
TTCGCGTTGCGAAT
Found at i:73567 original size:20 final size:20
Alignment explanation
Indices: 73544--73624 Score: 110
Period size: 20 Copynumber: 4.0 Consensus size: 20
73534 TCGACAAGCC
*
73544 AATTTGACTATCGCGTTGCG
1 AATTTGACTATCGTGTTGCG
* *
73564 AATTTGACTTTTGTGTTGCG
1 AATTTGACTATCGTGTTGCG
*
73584 AATTTGACTATCGTGATGCG
1 AATTTGACTATCGTGTTGCG
73604 AATTTGACTTAT-GTGTTGCG
1 AATTTGAC-TATCGTGTTGCG
73624 A
1 A
73625 TTTACAAATT
Statistics
Matches: 53, Mismatches: 7, Indels: 2
0.85 0.11 0.03
Matches are distributed among these distances:
20 50 0.94
21 3 0.06
ACGTcount: A:0.21, C:0.14, G:0.25, T:0.41
Consensus pattern (20 bp):
AATTTGACTATCGTGTTGCG
Found at i:73604 original size:40 final size:40
Alignment explanation
Indices: 73544--73624 Score: 135
Period size: 40 Copynumber: 2.0 Consensus size: 40
73534 TCGACAAGCC
* *
73544 AATTTGACTATCGCGTTGCGAATTTGACTTTTGTGTTGCG
1 AATTTGACTATCGCGATGCGAATTTGACTTATGTGTTGCG
*
73584 AATTTGACTATCGTGATGCGAATTTGACTTATGTGTTGCG
1 AATTTGACTATCGCGATGCGAATTTGACTTATGTGTTGCG
73624 A
1 A
73625 TTTACAAATT
Statistics
Matches: 38, Mismatches: 3, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
40 38 1.00
ACGTcount: A:0.21, C:0.14, G:0.25, T:0.41
Consensus pattern (40 bp):
AATTTGACTATCGCGATGCGAATTTGACTTATGTGTTGCG
Found at i:73644 original size:40 final size:40
Alignment explanation
Indices: 73544--73645 Score: 127
Period size: 40 Copynumber: 2.5 Consensus size: 40
73534 TCGACAAGCC
* *
73544 AATTTGACTATCGCGTTGCGAATTTGACTTTTGTGTTGCG
1 AATTTGACAATCGCGTTGCGAATTTGACTTATGTGTTGCG
* * *
73584 AATTTGACTATCGTGATGCGAATTTGACTTATGTGTTGCG
1 AATTTGACAATCGCGTTGCGAATTTGACTTATGTGTTGCG
73624 -ATTT-ACAAATTCGCGTTGCGAA
1 AATTTGAC-AA-TCGCGTTGCGAA
73646 ATTGGAAACT
Statistics
Matches: 54, Mismatches: 6, Indels: 4
0.84 0.09 0.06
Matches are distributed among these distances:
38 2 0.04
39 5 0.09
40 47 0.87
ACGTcount: A:0.23, C:0.15, G:0.24, T:0.39
Consensus pattern (40 bp):
AATTTGACAATCGCGTTGCGAATTTGACTTATGTGTTGCG
Found at i:73667 original size:20 final size:20
Alignment explanation
Indices: 73642--73691 Score: 100
Period size: 20 Copynumber: 2.5 Consensus size: 20
73632 ATTCGCGTTG
73642 CGAAATTGGAAACTGGGTTA
1 CGAAATTGGAAACTGGGTTA
73662 CGAAATTGGAAACTGGGTTA
1 CGAAATTGGAAACTGGGTTA
73682 CGAAATTGGA
1 CGAAATTGGA
73692 GTTCGCGTTG
Statistics
Matches: 30, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 30 1.00
ACGTcount: A:0.36, C:0.10, G:0.30, T:0.24
Consensus pattern (20 bp):
CGAAATTGGAAACTGGGTTA
Found at i:77151 original size:28 final size:27
Alignment explanation
Indices: 77099--77152 Score: 74
Period size: 28 Copynumber: 2.0 Consensus size: 27
77089 AATATTTTAA
*
77099 ATAAAAATAATACAAAATCTTAATTTC
1 ATAAAAATAATACAAAATCTAAATTTC
77126 ATAAAATATAATACAAAAAT-TAAATTT
1 ATAAAA-ATAATAC-AAAATCTAAATTT
77153 TAAATATTAA
Statistics
Matches: 24, Mismatches: 1, Indels: 3
0.86 0.04 0.11
Matches are distributed among these distances:
27 6 0.25
28 13 0.54
29 5 0.21
ACGTcount: A:0.59, C:0.07, G:0.00, T:0.33
Consensus pattern (27 bp):
ATAAAAATAATACAAAATCTAAATTTC
Found at i:78616 original size:176 final size:178
Alignment explanation
Indices: 78323--78677 Score: 671
Period size: 176 Copynumber: 2.0 Consensus size: 178
78313 GGGTTATTCC
78323 AAGAGCAGTTCAACAGATTTTGGATACACTGGAGGCCAAAATGCGGAATACAGCGTAAAGTAACA
1 AAGAGCAGTTCAACAGATTTTGGATACACTGGAGGCCAAAATGCGGAATACAGCGTAAAGTAACA
78388 TTTCTGGAACTGTATAATGAAGAGATTACTGATTTGCTGGCACCGGAAGAAATTTCAAAAGTTGC
66 TTTCTGGAACTGTATAATGAAGAGATTACTGATTTGCTGGCACCGGAAGAAATTTCAAAAGTTGC
78453 TTTGGA-G-GAAACAGAAGAAGCAGTTGCCATTAATGG-AGATGGGAA
131 TTTGGAGGAGAAACAGAAGAAGCAGTTGCCATTAATGGAAGATGGGAA
*
78498 AAGAGCAGTTCAACAGATTTTTGATACACTGGAGGGCCAAAATGCGGAATACAGCGTAAAGTAAC
1 AAGAGCAGTTCAACAGATTTTGGATACACTGGA-GGCCAAAATGCGGAATACAGCGTAAAGTAAC
78563 ATTTCTGGAACTGTATAATGAAGAGATTACTGATTTGCTGGCACCGGAAGAAATTTCAAAAGTTG
65 ATTTCTGGAACTGTATAATGAAGAGATTACTGATTTGCTGGCACCGGAAGAAATTTCAAAAGTTG
78628 CTTTGGAGGAGAAACAGAAGAAGCAGTTGCCATTAATGGAAGATGGGAA
130 CTTTGGAGGAGAAACAGAAGAAGCAGTTGCCATTAATGGAAGATGGGAA
78677 A
1 A
78678 GGGGGAGTTC
Statistics
Matches: 175, Mismatches: 1, Indels: 4
0.97 0.01 0.02
Matches are distributed among these distances:
175 32 0.18
176 103 0.59
177 1 0.01
178 29 0.17
179 10 0.06
ACGTcount: A:0.37, C:0.14, G:0.26, T:0.23
Consensus pattern (178 bp):
AAGAGCAGTTCAACAGATTTTGGATACACTGGAGGCCAAAATGCGGAATACAGCGTAAAGTAACA
TTTCTGGAACTGTATAATGAAGAGATTACTGATTTGCTGGCACCGGAAGAAATTTCAAAAGTTGC
TTTGGAGGAGAAACAGAAGAAGCAGTTGCCATTAATGGAAGATGGGAA
Found at i:84600 original size:16 final size:15
Alignment explanation
Indices: 84561--84597 Score: 56
Period size: 15 Copynumber: 2.5 Consensus size: 15
84551 GTAACCGGTT
* *
84561 CGGTTTGAAAAAAAC
1 CGGTTTTAAAAAAAA
84576 CGGTTTTAAAAAAAA
1 CGGTTTTAAAAAAAA
84591 CGGTTTT
1 CGGTTTT
84598 TAATCTGTAA
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
15 20 1.00
ACGTcount: A:0.41, C:0.11, G:0.19, T:0.30
Consensus pattern (15 bp):
CGGTTTTAAAAAAAA
Found at i:92375 original size:29 final size:30
Alignment explanation
Indices: 92304--92363 Score: 104
Period size: 30 Copynumber: 2.0 Consensus size: 30
92294 CAATTTAAGG
92304 CAAAATGGTTTTTGGACTTGAATTGAATTTA
1 CAAAAT-GTTTTTGGACTTGAATTGAATTTA
92335 CAAAATGTTTTTGGACTT-AATTGAATTTA
1 CAAAATGTTTTTGGACTTGAATTGAATTTA
92364 TTCAAAGTTT
Statistics
Matches: 29, Mismatches: 0, Indels: 2
0.94 0.00 0.06
Matches are distributed among these distances:
29 11 0.38
30 12 0.41
31 6 0.21
ACGTcount: A:0.33, C:0.07, G:0.17, T:0.43
Consensus pattern (30 bp):
CAAAATGTTTTTGGACTTGAATTGAATTTA
Found at i:92560 original size:20 final size:22
Alignment explanation
Indices: 92522--92561 Score: 66
Period size: 20 Copynumber: 1.9 Consensus size: 22
92512 TTTGAGTATA
92522 AAAATCATCCCCAAACGGCTCC
1 AAAATCATCCCCAAACGGCTCC
92544 AAAA-CATCCCC-AACGGCT
1 AAAATCATCCCCAAACGGCT
92562 ATATACAACT
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
20 7 0.39
21 7 0.39
22 4 0.22
ACGTcount: A:0.38, C:0.40, G:0.10, T:0.12
Consensus pattern (22 bp):
AAAATCATCCCCAAACGGCTCC
Found at i:95730 original size:29 final size:30
Alignment explanation
Indices: 95659--95718 Score: 104
Period size: 30 Copynumber: 2.0 Consensus size: 30
95649 CAATTTAAGG
95659 CAAAATGGTTTTTGGACTTGAATTGAATTTA
1 CAAAAT-GTTTTTGGACTTGAATTGAATTTA
95690 CAAAATGTTTTTGGACTT-AATTGAATTTA
1 CAAAATGTTTTTGGACTTGAATTGAATTTA
95719 TTCAAAGTTT
Statistics
Matches: 29, Mismatches: 0, Indels: 2
0.94 0.00 0.06
Matches are distributed among these distances:
29 11 0.38
30 12 0.41
31 6 0.21
ACGTcount: A:0.33, C:0.07, G:0.17, T:0.43
Consensus pattern (30 bp):
CAAAATGTTTTTGGACTTGAATTGAATTTA
Found at i:95833 original size:21 final size:21
Alignment explanation
Indices: 95808--95885 Score: 80
Period size: 21 Copynumber: 4.0 Consensus size: 21
95798 TTCAAGATTG
* * *
95808 CCCAGTGGGTATAGATTCCCC
1 CCCAGGGGGTACAGATACCCC
95829 CCCAGGGGGTACAGATA---C
1 CCCAGGGGGTACAGATACCCC
95847 CCC---GGGTACAGATA-CCC
1 CCCAGGGGGTACAGATACCCC
95864 CCCAGGGGGTACAGATACCCC
1 CCCAGGGGGTACAGATACCCC
95885 C
1 C
95886 TGCAGGTTTT
Statistics
Matches: 48, Mismatches: 3, Indels: 12
0.76 0.05 0.19
Matches are distributed among these distances:
15 11 0.23
17 4 0.08
18 4 0.08
20 11 0.23
21 18 0.38
ACGTcount: A:0.23, C:0.36, G:0.27, T:0.14
Consensus pattern (21 bp):
CCCAGGGGGTACAGATACCCC
Found at i:95855 original size:15 final size:15
Alignment explanation
Indices: 95835--95864 Score: 60
Period size: 15 Copynumber: 2.0 Consensus size: 15
95825 CCCCCCCAGG
95835 GGGTACAGATACCCC
1 GGGTACAGATACCCC
95850 GGGTACAGATACCCC
1 GGGTACAGATACCCC
95865 CCAGGGGGTA
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 15 1.00
ACGTcount: A:0.27, C:0.33, G:0.27, T:0.13
Consensus pattern (15 bp):
GGGTACAGATACCCC
Found at i:95875 original size:20 final size:20
Alignment explanation
Indices: 95826--95885 Score: 85
Period size: 20 Copynumber: 3.2 Consensus size: 20
95816 GTATAGATTC
95826 CCCCCCAGGGGGTACAGATA
1 CCCCCCAGGGGGTACAGATA
95846 --CCCC---GGGTACAGATA
1 CCCCCCAGGGGGTACAGATA
95861 CCCCCCAGGGGGTACAGATA
1 CCCCCCAGGGGGTACAGATA
95881 CCCCC
1 CCCCC
95886 TGCAGGTTTT
Statistics
Matches: 35, Mismatches: 0, Indels: 10
0.78 0.00 0.22
Matches are distributed among these distances:
15 11 0.31
17 4 0.11
18 4 0.11
20 16 0.46
ACGTcount: A:0.23, C:0.40, G:0.27, T:0.10
Consensus pattern (20 bp):
CCCCCCAGGGGGTACAGATA
Found at i:96064 original size:20 final size:22
Alignment explanation
Indices: 96026--96065 Score: 66
Period size: 20 Copynumber: 1.9 Consensus size: 22
96016 TTTGAGTATA
96026 AAAATCATCCCCAAACGGCTCC
1 AAAATCATCCCCAAACGGCTCC
96048 AAAA-CATCCCC-AACGGCT
1 AAAATCATCCCCAAACGGCT
96066 ATATACGACT
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
20 7 0.39
21 7 0.39
22 4 0.22
ACGTcount: A:0.38, C:0.40, G:0.10, T:0.12
Consensus pattern (22 bp):
AAAATCATCCCCAAACGGCTCC
Found at i:96829 original size:17 final size:18
Alignment explanation
Indices: 96798--96831 Score: 52
Period size: 17 Copynumber: 1.9 Consensus size: 18
96788 TGCTTAACAA
*
96798 TTGAGTTAAACATAATAC
1 TTGAGTTAAAAATAATAC
96816 TTGA-TTAAAAATAATA
1 TTGAGTTAAAAATAATA
96832 TATATAAATA
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
17 11 0.73
18 4 0.27
ACGTcount: A:0.50, C:0.06, G:0.09, T:0.35
Consensus pattern (18 bp):
TTGAGTTAAAAATAATAC
Found at i:96941 original size:27 final size:29
Alignment explanation
Indices: 96862--96942 Score: 69
Period size: 27 Copynumber: 2.9 Consensus size: 29
96852 AAATTATAAT
* *
96862 TAAT-AACTATTAATATCATAATATATTAA
1 TAATAAACTATTAATATAATTA-ATATTAA
* * * * *
96891 TAATAAATTTTTAGTTTAAATAATA-TAA
1 TAATAAACTATTAATATAATTAATATTAA
96919 -AATAAACTATTAATATAATTAATA
1 TAATAAACTATTAATATAATTAATA
96943 ATATTTATAA
Statistics
Matches: 39, Mismatches: 12, Indels: 4
0.71 0.22 0.07
Matches are distributed among these distances:
27 19 0.49
28 3 0.08
29 7 0.18
30 10 0.26
ACGTcount: A:0.53, C:0.04, G:0.01, T:0.42
Consensus pattern (29 bp):
TAATAAACTATTAATATAATTAATATTAA
Found at i:96995 original size:18 final size:18
Alignment explanation
Indices: 96974--97021 Score: 53
Period size: 18 Copynumber: 2.6 Consensus size: 18
96964 TACTAATTAC
96974 ATTAATAATTCATTAT-AT
1 ATTAATAATT-ATTATAAT
*
96992 ATTATTAATATATTATAAT
1 ATTAATAAT-TATTATAAT
*
97011 TTTAATAATTA
1 ATTAATAATTA
97022 ATAATTATAT
Statistics
Matches: 25, Mismatches: 3, Indels: 4
0.78 0.09 0.12
Matches are distributed among these distances:
18 15 0.60
19 10 0.40
ACGTcount: A:0.46, C:0.02, G:0.00, T:0.52
Consensus pattern (18 bp):
ATTAATAATTATTATAAT
Found at i:97015 original size:16 final size:16
Alignment explanation
Indices: 96985--97029 Score: 56
Period size: 16 Copynumber: 2.7 Consensus size: 16
96975 TTAATAATTC
96985 ATTATATATTATTAATA
1 ATTATA-ATTATTAATA
97002 TATTATAATT-TTAATA
1 -ATTATAATTATTAATA
97018 ATTAATAATTAT
1 ATT-ATAATTAT
97030 ATTCAAAAAA
Statistics
Matches: 25, Mismatches: 0, Indels: 5
0.83 0.00 0.17
Matches are distributed among these distances:
15 3 0.12
16 12 0.48
17 4 0.16
18 6 0.24
ACGTcount: A:0.47, C:0.00, G:0.00, T:0.53
Consensus pattern (16 bp):
ATTATAATTATTAATA
Found at i:97877 original size:16 final size:18
Alignment explanation
Indices: 97855--97894 Score: 57
Period size: 17 Copynumber: 2.3 Consensus size: 18
97845 TAAATCTATA
97855 ATAAAATAT-AAAATATT
1 ATAAAATATAAAAATATT
*
97872 -TAAAATTTAAAAATATT
1 ATAAAATATAAAAATATT
97889 ATAAAA
1 ATAAAA
97895 ATTATATGTT
Statistics
Matches: 20, Mismatches: 1, Indels: 3
0.83 0.04 0.12
Matches are distributed among these distances:
16 7 0.35
17 8 0.40
18 5 0.25
ACGTcount: A:0.65, C:0.00, G:0.00, T:0.35
Consensus pattern (18 bp):
ATAAAATATAAAAATATT
Found at i:98570 original size:32 final size:32
Alignment explanation
Indices: 98529--98592 Score: 119
Period size: 32 Copynumber: 2.0 Consensus size: 32
98519 ACAACTACAA
98529 TAATAAATTATTTAAAATAAATCAATACATAC
1 TAATAAATTATTTAAAATAAATCAATACATAC
*
98561 TAATAAATTATTTAAAATAAATCAATTCATAC
1 TAATAAATTATTTAAAATAAATCAATACATAC
98593 AACTACAATA
Statistics
Matches: 31, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
32 31 1.00
ACGTcount: A:0.55, C:0.09, G:0.00, T:0.36
Consensus pattern (32 bp):
TAATAAATTATTTAAAATAAATCAATACATAC
Found at i:98609 original size:26 final size:26
Alignment explanation
Indices: 98576--98697 Score: 99
Period size: 26 Copynumber: 4.6 Consensus size: 26
98566 AATTATTTAA
*
98576 AATAAATCAATTCATACAACTACAAT
1 AATAAATCAATCCATACAACTACAAT
* **
98602 AATAAATCAATCCAT---ATTTTAA-
1 AATAAATCAATCCATACAACTACAAT
* * *
98624 AATAAATCAATACATACAAATAAATTATTT
1 AATAAATCAATCCATACAACTACA--A--T
98654 AAAATAAATCAATCCATACAACTACAAT
1 --AATAAATCAATCCATACAACTACAAT
98682 AATAAATCAATCCATA
1 AATAAATCAATCCATA
98698 TTTTAAAATA
Statistics
Matches: 75, Mismatches: 11, Indels: 20
0.71 0.10 0.19
Matches are distributed among these distances:
22 14 0.19
23 4 0.05
25 3 0.04
26 30 0.40
27 1 0.01
28 1 0.01
30 1 0.01
32 21 0.28
ACGTcount: A:0.55, C:0.16, G:0.00, T:0.29
Consensus pattern (26 bp):
AATAAATCAATCCATACAACTACAAT
Found at i:98632 original size:80 final size:80
Alignment explanation
Indices: 98539--98837 Score: 465
Period size: 80 Copynumber: 3.7 Consensus size: 80
98529 TAATAAATTA
*
98539 TTTAAAATAAATCAATACATACTAATAAATTATTTAAAATAAATCAATTCATACAACTACAATAA
1 TTTAAAATAAATCAATACATACAAATAAATTATTTAAAATAAATCAATTCATACAACTACAATAA
98604 TAAATCAATCCATAT
66 TAAATCAATCCATAT
*
98619 TTTAAAATAAATCAATACATACAAATAAATTATTTAAAATAAATCAATCCATACAACTACAATAA
1 TTTAAAATAAATCAATACATACAAATAAATTATTTAAAATAAATCAATTCATACAACTACAATAA
98684 TAAATCAATCCATAT
66 TAAATCAATCCATAT
* *
98699 TTTAAAATAAATCAATCCATACAAATAAATTATTTAAAATAAATCAATTCATACTAA-TAAATTA
1 TTTAAAATAAATCAATACATACAAATAAATTATTTAAAATAAATCAATTCATAC-AACTACA--A
*
98763 TTTAAAATAAATCAATCTATAT
63 --T--AATAAATCAATCCATAT
* *
98785 TTTAAAATAAATCAATCCATACTAATAAATTATTTAAAATAAATCAATTCATA
1 TTTAAAATAAATCAATACATACAAATAAATTATTTAAAATAAATCAATTCATA
98838 TTTTAAAGTA
Statistics
Matches: 205, Mismatches: 7, Indels: 8
0.93 0.03 0.04
Matches are distributed among these distances:
80 133 0.65
81 2 0.01
82 1 0.00
84 1 0.00
86 68 0.33
ACGTcount: A:0.54, C:0.13, G:0.00, T:0.33
Consensus pattern (80 bp):
TTTAAAATAAATCAATACATACAAATAAATTATTTAAAATAAATCAATTCATACAACTACAATAA
TAAATCAATCCATAT
Found at i:98666 original size:54 final size:54
Alignment explanation
Indices: 98602--98890 Score: 299
Period size: 54 Copynumber: 5.3 Consensus size: 54
98592 CAACTACAAT
*
98602 AATAAATCAATCCATATTTTAAAATAAATCAATACATACAAATAAATTATTTAA
1 AATAAATCAATCCATATTTTAAAATAAATCAATACATACTAATAAATTATTTAA
* * * **
98656 AATAAATCAATCCATA----CAACTACAAT-AATAAAT-C-AATCCA-TATTTTAA
1 AATAAATCAATCCATATTTTAAAATA-AATCAATACATACTAATAAATTA-TTTAA
*
98704 AATAAATCAATCCATACAAATAAATTATTTAAAATAAATCAATTCATACTAATAAATTATTTAA
1 AATAAATCAAT-C---C--AT--A-T-TTTAAAATAAATCAATACATACTAATAAATTATTTAA
* *
98768 AATAAATCAATCTATATTTTAAAATAAATCAATCCATACTAATAAATTATTTAA
1 AATAAATCAATCCATATTTTAAAATAAATCAATACATACTAATAAATTATTTAA
* * *
98822 AATAAATCAATTCATATTTTAAAGTAAATCAATTCATACTAATAAATTATTT-A
1 AATAAATCAATCCATATTTTAAAATAAATCAATACATACTAATAAATTATTTAA
98875 AATAAATCAATCCATA
1 AATAAATCAATCCATA
98891 CAACTACAAT
Statistics
Matches: 197, Mismatches: 18, Indels: 41
0.77 0.07 0.16
Matches are distributed among these distances:
47 2 0.01
48 20 0.10
49 2 0.01
50 10 0.05
51 3 0.02
52 1 0.01
53 16 0.08
54 102 0.52
55 1 0.01
56 2 0.01
58 2 0.01
61 3 0.02
62 9 0.05
63 2 0.01
64 20 0.10
65 2 0.01
ACGTcount: A:0.53, C:0.12, G:0.00, T:0.34
Consensus pattern (54 bp):
AATAAATCAATCCATATTTTAAAATAAATCAATACATACTAATAAATTATTTAA
Found at i:98728 original size:22 final size:22
Alignment explanation
Indices: 98655--98728 Score: 60
Period size: 22 Copynumber: 3.2 Consensus size: 22
98645 AAATTATTTA
*
98655 AAATAAATCAATCCATACAACTACA
1 AAATAAATCAATCCATACAA--A-T
***
98680 ATAATAAATCAATCCATA-TTTT
1 A-AATAAATCAATCCATACAAAT
98702 AAAATAAATCAATCCATACAAAT
1 -AAATAAATCAATCCATACAAAT
98725 AAAT
1 AAAT
98729 TATTTAAAAT
Statistics
Matches: 39, Mismatches: 7, Indels: 9
0.71 0.13 0.16
Matches are distributed among these distances:
22 20 0.51
23 2 0.05
25 1 0.03
26 16 0.41
ACGTcount: A:0.55, C:0.18, G:0.00, T:0.27
Consensus pattern (22 bp):
AAATAAATCAATCCATACAAAT
Found at i:98738 original size:14 final size:14
Alignment explanation
Indices: 98721--98774 Score: 54
Period size: 14 Copynumber: 3.6 Consensus size: 14
98711 CAATCCATAC
98721 AAATAAATTATTTA
1 AAATAAATTATTTA
*
98735 AAATAAATCAATTCATA
1 AAATAAAT-TATT--TA
*
98752 CTAATAAATTATTTA
1 -AAATAAATTATTTA
98767 AAATAAAT
1 AAATAAAT
98775 CAATCTATAT
Statistics
Matches: 32, Mismatches: 4, Indels: 8
0.73 0.09 0.18
Matches are distributed among these distances:
14 15 0.47
15 5 0.16
17 5 0.16
18 7 0.22
ACGTcount: A:0.57, C:0.06, G:0.00, T:0.37
Consensus pattern (14 bp):
AAATAAATTATTTA
Found at i:98738 original size:32 final size:31
Alignment explanation
Indices: 98699--99002 Score: 270
Period size: 32 Copynumber: 10.4 Consensus size: 31
98689 CAATCCATAT
*
98699 TTTAAAATAAATCAATCCATACAAATAAATTA
1 TTTAAAATAAATCAAT-CATACTAATAAATTA
98731 TTTAAAATAAATCAATTCATACTAATAAATTA
1 TTTAAAATAAATCAA-TCATACTAATAAATTA
98763 TTTAAAATAAATC-A--AT-CT-AT--A-T-
1 TTTAAAATAAATCAATCATACTAATAAATTA
98785 TTTAAAATAAATCAATCCATACTAATAAATTA
1 TTTAAAATAAATCAAT-CATACTAATAAATTA
98817 TTTAAAATAAATCAAT--T-C--AT--A-T-
1 TTTAAAATAAATCAATCATACTAATAAATTA
*
98839 TTTAAAGTAAATCAATTCATACTAATAAATTA
1 TTTAAAATAAATCAA-TCATACTAATAAATTA
98871 TTT-AAATAAATCAATCCATAC-AACTACAATAATAA
1 TTTAAAATAAATCAAT-CATACTAA-TA-AAT--T-A
*
98906 ATTAAAATAAATCAATCATACTAATAAATTA
1 TTTAAAATAAATCAATCATACTAATAAATTA
98937 TTTAAAATAAATC-A--AT-CT-AT--A-T-
1 TTTAAAATAAATCAATCATACTAATAAATTA
*
98959 TTTAAAATAAATAAATCAATACTAATAAATTA
1 TTTAAAATAAATCAATC-ATACTAATAAATTA
98991 TTTAAAATAAAT
1 TTTAAAATAAAT
99003 TATGTTAAAA
Statistics
Matches: 227, Mismatches: 6, Indels: 78
0.73 0.02 0.25
Matches are distributed among these distances:
22 39 0.17
23 6 0.03
24 3 0.01
25 1 0.00
26 11 0.05
27 8 0.04
28 11 0.05
29 1 0.00
30 7 0.03
31 34 0.15
32 77 0.34
33 1 0.00
34 4 0.02
35 10 0.04
36 14 0.06
ACGTcount: A:0.54, C:0.10, G:0.00, T:0.36
Consensus pattern (31 bp):
TTTAAAATAAATCAATCATACTAATAAATTA
Found at i:98814 original size:22 final size:22
Alignment explanation
Indices: 98765--98813 Score: 62
Period size: 22 Copynumber: 2.2 Consensus size: 22
98755 ATAAATTATT
* **
98765 TAAAATAAATCAATCTATATTT
1 TAAAATAAATCAATCCATATAA
98787 TAAAATAAATCAATCCATACTAA
1 TAAAATAAATCAATCCATA-TAA
98810 TAAA
1 TAAA
98814 TTATTTAAAA
Statistics
Matches: 23, Mismatches: 3, Indels: 1
0.85 0.11 0.04
Matches are distributed among these distances:
22 18 0.78
23 5 0.22
ACGTcount: A:0.55, C:0.12, G:0.00, T:0.33
Consensus pattern (22 bp):
TAAAATAAATCAATCCATATAA
Found at i:98843 original size:22 final size:22
Alignment explanation
Indices: 98817--98859 Score: 77
Period size: 22 Copynumber: 2.0 Consensus size: 22
98807 TAATAAATTA
98817 TTTAAAATAAATCAATTCATAT
1 TTTAAAATAAATCAATTCATAT
*
98839 TTTAAAGTAAATCAATTCATA
1 TTTAAAATAAATCAATTCATA
98860 CTAATAAATT
Statistics
Matches: 20, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
22 20 1.00
ACGTcount: A:0.49, C:0.09, G:0.02, T:0.40
Consensus pattern (22 bp):
TTTAAAATAAATCAATTCATAT
Found at i:98881 original size:31 final size:31
Alignment explanation
Indices: 98839--98952 Score: 124
Period size: 31 Copynumber: 3.5 Consensus size: 31
98829 CAATTCATAT
98839 TTTAAAGTAAATCAATTCATACTAATAAATTA
1 TTTAAA-TAAATCAATTCATACTAATAAATTA
*
98871 TTTAAATAAATCAATCCATAC-AACTACAATAATAAA
1 TTTAAATAAATCAATTCATACTAA-TA-AAT--T--A
*
98907 TTAAAATAAATCAA-TCATACTAATAAATTA
1 TTTAAATAAATCAATTCATACTAATAAATTA
98937 TTTAAAATAAATCAAT
1 TTT-AAATAAATCAAT
98953 CTATATTTTA
Statistics
Matches: 69, Mismatches: 4, Indels: 18
0.76 0.04 0.20
Matches are distributed among these distances:
30 5 0.07
31 27 0.39
32 10 0.14
34 4 0.06
35 7 0.10
36 16 0.23
ACGTcount: A:0.54, C:0.11, G:0.01, T:0.33
Consensus pattern (31 bp):
TTTAAATAAATCAATTCATACTAATAAATTA
Found at i:98914 original size:36 final size:32
Alignment explanation
Indices: 98905--99002 Score: 83
Period size: 31 Copynumber: 3.4 Consensus size: 32
98895 TACAATAATA
98905 AATTAAAATAAATCAAT-CATACTAATAAATT
1 AATTAAAATAAATCAATCCATACTAATAAATT
*
98936 ATTTAAAATAAATC-A---AT-CT-AT--ATT
1 AATTAAAATAAATCAATCCATACTAATAAATT
* *
98960 --TTAAAATAAATAAATCAATACTAATAAATT
1 AATTAAAATAAATCAATCCATACTAATAAATT
*
98990 ATTTAAAATAAAT
1 AATTAAAATAAAT
99003 TATGTTAAAA
Statistics
Matches: 55, Mismatches: 2, Indels: 19
0.72 0.03 0.25
Matches are distributed among these distances:
22 11 0.20
23 1 0.02
24 3 0.05
26 4 0.07
27 4 0.07
28 4 0.07
30 4 0.07
31 13 0.24
32 11 0.20
ACGTcount: A:0.57, C:0.07, G:0.00, T:0.36
Consensus pattern (32 bp):
AATTAAAATAAATCAATCCATACTAATAAATT
Found at i:98972 original size:67 final size:66
Alignment explanation
Indices: 98840--99031 Score: 201
Period size: 67 Copynumber: 2.8 Consensus size: 66
98830 AATTCATATT
* *** *
98840 TTAAAGTAAATCAATTCATACTAATAAATTATTT-AAATAAATCAATCCATACAACTACAATAAT
1 TTAAAATAAATCAA-TCATACTAATAAATTATTTAAAATAAATCAATCCATA-TTTTAAAATAAT
98904 AAA
64 AAA
*
98907 TTAAAATAAATCAATCATACTAATAAATTATTTAAAATAAATCAATCTATATTTTAAAATAAATA
1 TTAAAATAAATCAATCATACTAATAAATTATTTAAAATAAATCAATCCATATTTTAAAAT-AATA
98972 AA
65 AA
* * * * *
98974 TCAATACT-AATAAATTATTTA-AAATAAATTATGTTAAAATAAATCAATCCATATTTTA
1 TTAA-AATAAATCAATCA--TACTAATAAATTAT-TTAAAATAAATCAATCCATATTTTA
99032 TTTAAAATAA
Statistics
Matches: 107, Mismatches: 12, Indels: 10
0.83 0.09 0.08
Matches are distributed among these distances:
66 24 0.22
67 45 0.42
68 12 0.11
69 26 0.24
ACGTcount: A:0.54, C:0.10, G:0.01, T:0.35
Consensus pattern (66 bp):
TTAAAATAAATCAATCATACTAATAAATTATTTAAAATAAATCAATCCATATTTTAAAATAATAA
A
Found at i:99012 original size:15 final size:14
Alignment explanation
Indices: 98982--99063 Score: 69
Period size: 15 Copynumber: 5.9 Consensus size: 14
98972 AATCAATACT
98982 AATAAATTATTTAA
1 AATAAATTATTTAA
98996 AATAAATTATGTTAA
1 AATAAATTAT-TTAA
* * *
99011 AATAAATCA-AT-C
1 AATAAATTATTTAA
* **
99023 CATATTTTATTTAA
1 AATAAATTATTTAA
*
99037 AATAAATTATTTTAT
1 AATAAATTA-TTTAA
99052 AATAAATTATTT
1 AATAAATTATTT
99064 TATCATCTTG
Statistics
Matches: 51, Mismatches: 13, Indels: 8
0.71 0.18 0.11
Matches are distributed among these distances:
12 5 0.10
13 2 0.04
14 19 0.37
15 25 0.49
ACGTcount: A:0.50, C:0.04, G:0.01, T:0.45
Consensus pattern (14 bp):
AATAAATTATTTAA
Found at i:99927 original size:2 final size:2
Alignment explanation
Indices: 99920--99944 Score: 50
Period size: 2 Copynumber: 12.5 Consensus size: 2
99910 TCATGTATGC
99920 AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT A
99945 CAAAAAAATT
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 23 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:105409 original size:23 final size:24
Alignment explanation
Indices: 105378--105425 Score: 62
Period size: 24 Copynumber: 2.0 Consensus size: 24
105368 ATATATGGCC
*
105378 TTGTGACAT-ATTTTTCTTTGCTA
1 TTGTGACATGATTTTTCTATGCTA
* *
105401 TTGTTACATGCTTTTTCTATGCTA
1 TTGTGACATGATTTTTCTATGCTA
105425 T
1 T
105426 GTGGCACATT
Statistics
Matches: 21, Mismatches: 3, Indels: 1
0.84 0.12 0.04
Matches are distributed among these distances:
23 8 0.38
24 13 0.62
ACGTcount: A:0.17, C:0.15, G:0.12, T:0.56
Consensus pattern (24 bp):
TTGTGACATGATTTTTCTATGCTA
Found at i:105434 original size:25 final size:24
Alignment explanation
Indices: 105388--105439 Score: 59
Period size: 24 Copynumber: 2.1 Consensus size: 24
105378 TTGTGACATA
* **
105388 TTTTTCTTTGCTATTGTTACATGC
1 TTTTTCTATGCTATTGGCACATGC
*
105412 TTTTTCTATGCTATGTGGCACATTC
1 TTTTTCTATGCTAT-TGGCACATGC
105437 TTT
1 TTT
105440 ATGACTTTAG
Statistics
Matches: 23, Mismatches: 4, Indels: 1
0.82 0.14 0.04
Matches are distributed among these distances:
24 13 0.57
25 10 0.43
ACGTcount: A:0.13, C:0.17, G:0.13, T:0.56
Consensus pattern (24 bp):
TTTTTCTATGCTATTGGCACATGC
Found at i:106026 original size:13 final size:14
Alignment explanation
Indices: 105997--106039 Score: 52
Period size: 13 Copynumber: 3.1 Consensus size: 14
105987 CATCGTATGT
*
105997 AATATATATATTAAA
1 AATA-ATATAGTAAA
106012 AATAATATA-TAAA
1 AATAATATAGTAAA
*
106025 AATATTATAGTAAA
1 AATAATATAGTAAA
106039 A
1 A
106040 TACTTTTCAA
Statistics
Matches: 26, Mismatches: 1, Indels: 3
0.87 0.03 0.10
Matches are distributed among these distances:
13 12 0.46
14 10 0.38
15 4 0.15
ACGTcount: A:0.63, C:0.00, G:0.02, T:0.35
Consensus pattern (14 bp):
AATAATATAGTAAA
Found at i:106143 original size:21 final size:23
Alignment explanation
Indices: 106089--106144 Score: 80
Period size: 23 Copynumber: 2.5 Consensus size: 23
106079 TTTGTATATC
106089 TAAACACATTTACATATAATTATT
1 TAAA-ACATTTACATATAATTATT
*
106113 TAAAACATTTATATATAATTA-T
1 TAAAACATTTACATATAATTATT
106135 TAAAA-ATTTA
1 TAAAACATTTA
106145 AAGCATGAAA
Statistics
Matches: 31, Mismatches: 1, Indels: 3
0.89 0.03 0.09
Matches are distributed among these distances:
21 5 0.16
22 6 0.19
23 16 0.52
24 4 0.13
ACGTcount: A:0.50, C:0.07, G:0.00, T:0.43
Consensus pattern (23 bp):
TAAAACATTTACATATAATTATT
Found at i:109403 original size:8 final size:8
Alignment explanation
Indices: 109368--109412 Score: 56
Period size: 8 Copynumber: 5.5 Consensus size: 8
109358 CTAAACCTTC
109368 AAAAAGGA
1 AAAAAGGA
*
109376 AGAAA-GA
1 AAAAAGGA
109383 AAAGAAGGGA
1 AAA-AA-GGA
109393 AAAAAGGA
1 AAAAAGGA
109401 AAAAAGGA
1 AAAAAGGA
109409 AAAA
1 AAAA
109413 GTTATTTATG
Statistics
Matches: 32, Mismatches: 2, Indels: 6
0.80 0.05 0.15
Matches are distributed among these distances:
7 4 0.12
8 21 0.66
9 2 0.06
10 5 0.16
ACGTcount: A:0.73, C:0.00, G:0.27, T:0.00
Consensus pattern (8 bp):
AAAAAGGA
Found at i:112946 original size:28 final size:29
Alignment explanation
Indices: 112906--112963 Score: 91
Period size: 28 Copynumber: 2.0 Consensus size: 29
112896 GACTTGATAG
*
112906 TTCAGCTCATTAAAAGGAGA-TGAAACCT
1 TTCAGCTCATTAAAAGGAGACTAAAACCT
*
112934 TTCAGCTCATTAAAGGGAGACTAAAACCT
1 TTCAGCTCATTAAAAGGAGACTAAAACCT
112963 T
1 T
112964 ATCTATCTTT
Statistics
Matches: 27, Mismatches: 2, Indels: 1
0.90 0.07 0.03
Matches are distributed among these distances:
28 19 0.70
29 8 0.30
ACGTcount: A:0.38, C:0.19, G:0.17, T:0.26
Consensus pattern (29 bp):
TTCAGCTCATTAAAAGGAGACTAAAACCT
Found at i:121130 original size:20 final size:20
Alignment explanation
Indices: 121077--121134 Score: 57
Period size: 20 Copynumber: 2.9 Consensus size: 20
121067 CTCACTTTAG
* *
121077 ATTTTATTTTTATTTTAGTC
1 ATTTTATTTTCATTTTAGTA
*
121097 ATTTT-TGTTACATTTTA-TAA
1 ATTTTAT-TTTCATTTTAGT-A
121117 ATTTTATTTTCATTTTAG
1 ATTTTATTTTCATTTTAG
121135 CCTTTCCTCT
Statistics
Matches: 30, Mismatches: 4, Indels: 7
0.73 0.10 0.17
Matches are distributed among these distances:
19 2 0.07
20 27 0.90
21 1 0.03
ACGTcount: A:0.24, C:0.05, G:0.05, T:0.66
Consensus pattern (20 bp):
ATTTTATTTTCATTTTAGTA
Found at i:121152 original size:40 final size:40
Alignment explanation
Indices: 121077--121153 Score: 93
Period size: 40 Copynumber: 1.9 Consensus size: 40
121067 CTCACTTTAG
* * *
121077 ATTTTATTTTTATTTTAGTCATTTTTGTTACATTTTATAA
1 ATTTTATTTTCATTTTAGTCATTTCTCTTACATTTTATAA
* *
121117 ATTTTATTTTCATTTTAG-CCTTTCCTCTTATATTTTA
1 ATTTTATTTTCATTTTAGTCATTT-CTCTTACATTTTA
121154 CTGTGATTTT
Statistics
Matches: 31, Mismatches: 5, Indels: 2
0.82 0.13 0.05
Matches are distributed among these distances:
39 4 0.13
40 27 0.87
ACGTcount: A:0.22, C:0.10, G:0.04, T:0.64
Consensus pattern (40 bp):
ATTTTATTTTCATTTTAGTCATTTCTCTTACATTTTATAA
Found at i:121678 original size:41 final size:41
Alignment explanation
Indices: 121659--121772 Score: 210
Period size: 41 Copynumber: 2.8 Consensus size: 41
121649 TTGAAAAACG
*
121659 CGTTGCGATTTTTCATTTCGCGTTGCGATAGTCTACAGTGT
1 CGTTGCGATTTTCCATTTCGCGTTGCGATAGTCTACAGTGT
121700 CGTTGCGATTTTCCATTTCGCGTTGCGATAGTCTACAGTGT
1 CGTTGCGATTTTCCATTTCGCGTTGCGATAGTCTACAGTGT
*
121741 CGTTGTGATTTTCCATTTCGCGTTGCGATAGT
1 CGTTGCGATTTTCCATTTCGCGTTGCGATAGT
121773 TTTAAAAATG
Statistics
Matches: 71, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
41 71 1.00
ACGTcount: A:0.14, C:0.20, G:0.25, T:0.41
Consensus pattern (41 bp):
CGTTGCGATTTTCCATTTCGCGTTGCGATAGTCTACAGTGT
Found at i:121682 original size:20 final size:20
Alignment explanation
Indices: 121657--121769 Score: 72
Period size: 20 Copynumber: 5.5 Consensus size: 20
121647 AGTTGAAAAA
*
121657 CGCGTTGCGATTTTTCATTT
1 CGCGTTGCGATTTTACATTT
* *
121677 CGCGTTGCGATAGTCTACA-GT
1 CGCGTTGCGAT--TTTACATTT
*
121698 -GTCGTTGCGATTTTCCATTT
1 CG-CGTTGCGATTTTACATTT
* *
121718 CGCGTTGCGATAGTCTACA-GT
1 CGCGTTGCGAT--TTTACATTT
* *
121739 -GTCGTTGTGATTTTCCATTT
1 CG-CGTTGCGATTTTACATTT
121759 CGCGTTGCGAT
1 CGCGTTGCGAT
121770 AGTTTTAAAA
Statistics
Matches: 69, Mismatches: 14, Indels: 20
0.67 0.14 0.19
Matches are distributed among these distances:
19 8 0.12
20 32 0.46
21 21 0.30
22 8 0.12
ACGTcount: A:0.13, C:0.21, G:0.25, T:0.41
Consensus pattern (20 bp):
CGCGTTGCGATTTTACATTT
Found at i:121705 original size:21 final size:21
Alignment explanation
Indices: 121679--121745 Score: 68
Period size: 21 Copynumber: 3.2 Consensus size: 21
121669 TTTCATTTCG
121679 CGTTGCGATAGTCTACAGTGT
1 CGTTGCGATAGTCTACAGTGT
* * *
121700 CGTTGCGAT--TTTCCA-TTT
1 CGTTGCGATAGTCTACAGTGT
121718 CGCGTTGCGATAGTCTACAGTGT
1 --CGTTGCGATAGTCTACAGTGT
121741 CGTTG
1 CGTTG
121746 TGATTTTCCA
Statistics
Matches: 35, Mismatches: 6, Indels: 10
0.69 0.12 0.20
Matches are distributed among these distances:
18 2 0.06
19 4 0.11
20 9 0.26
21 14 0.40
22 4 0.11
23 2 0.06
ACGTcount: A:0.15, C:0.21, G:0.27, T:0.37
Consensus pattern (21 bp):
CGTTGCGATAGTCTACAGTGT
Found at i:121866 original size:6 final size:6
Alignment explanation
Indices: 121855--121891 Score: 74
Period size: 6 Copynumber: 6.2 Consensus size: 6
121845 GACACGTATT
121855 ACCACG ACCACG ACCACG ACCACG ACCACG ACCACG A
1 ACCACG ACCACG ACCACG ACCACG ACCACG ACCACG A
121892 GACGAGACGG
Statistics
Matches: 31, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 31 1.00
ACGTcount: A:0.35, C:0.49, G:0.16, T:0.00
Consensus pattern (6 bp):
ACCACG
Found at i:127936 original size:17 final size:17
Alignment explanation
Indices: 127914--127949 Score: 56
Period size: 17 Copynumber: 2.1 Consensus size: 17
127904 GGATCTGGTT
127914 AACGAGTT-AGATCAGTC
1 AACGAGTTGAG-TCAGTC
127931 AACGAGTTGAGTCAGTC
1 AACGAGTTGAGTCAGTC
127948 AA
1 AA
127950 TGGTCAATGG
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
17 16 0.89
18 2 0.11
ACGTcount: A:0.36, C:0.17, G:0.25, T:0.22
Consensus pattern (17 bp):
AACGAGTTGAGTCAGTC
Found at i:130052 original size:37 final size:36
Alignment explanation
Indices: 130004--130112 Score: 175
Period size: 35 Copynumber: 3.0 Consensus size: 36
129994 ATTTTTCAGC
*
130004 AAACATCTACCAAACTTTGAAAAACCATTTTTCAAAG
1 AAACATTTACCAAACTTTG-AAAACCATTTTTCAAAG
130041 AAACATTTACCAAACTTTGAAAACCA-TTTTCAAAG
1 AAACATTTACCAAACTTTGAAAACCATTTTTCAAAG
*
130076 AAACATTTACTAAACTTTGAAAACCATTTTTTCAAAG
1 AAACATTTACCAAACTTTGAAAACCA-TTTTTCAAAG
130113 TTGGTTGCCA
Statistics
Matches: 68, Mismatches: 2, Indels: 4
0.92 0.03 0.05
Matches are distributed among these distances:
35 34 0.50
36 7 0.10
37 27 0.40
ACGTcount: A:0.45, C:0.19, G:0.06, T:0.30
Consensus pattern (36 bp):
AAACATTTACCAAACTTTGAAAACCATTTTTCAAAG
Found at i:130068 original size:21 final size:21
Alignment explanation
Indices: 130044--130104 Score: 55
Period size: 21 Copynumber: 3.2 Consensus size: 21
130034 TTCAAAGAAA
130044 CATTTACCAAACTTTGAAAAC
1 CATTTACCAAACTTTGAAAAC
*
130065 CATTT-TCAAA----G-AAA-
1 CATTTACCAAACTTTGAAAAC
*
130079 CATTTACTAAACTTTGAAAAC
1 CATTTACCAAACTTTGAAAAC
130100 CATTT
1 CATTT
130105 TTTCAAAGTT
Statistics
Matches: 30, Mismatches: 3, Indels: 14
0.64 0.06 0.30
Matches are distributed among these distances:
14 5 0.17
15 6 0.20
16 1 0.03
19 1 0.03
20 7 0.23
21 10 0.33
ACGTcount: A:0.43, C:0.20, G:0.05, T:0.33
Consensus pattern (21 bp):
CATTTACCAAACTTTGAAAAC
Found at i:134633 original size:37 final size:36
Alignment explanation
Indices: 134581--134699 Score: 170
Period size: 37 Copynumber: 3.3 Consensus size: 36
134571 TCCCATTACA
* *
134581 ATTTTT-AAACAAACATCTACCAAACTTTGAAAACCC
1 ATTTTTCAAAGAAACATTTACCAAACTTTGAAAA-CC
134617 ATTTTTCAAAGAAACATTTACCAAACTTTGAAAACC
1 ATTTTTCAAAGAAACATTTACCAAACTTTGAAAACC
* *
134653 A-TTTTCAAAGAAACATTTACCAAATTTTGAAAATC
1 ATTTTTCAAAGAAACATTTACCAAACTTTGAAAACC
134688 ATTTTTTCAAAG
1 A-TTTTTCAAAG
134700 TTGGTTGCCA
Statistics
Matches: 76, Mismatches: 4, Indels: 5
0.89 0.05 0.06
Matches are distributed among these distances:
35 33 0.43
36 9 0.12
37 34 0.45
ACGTcount: A:0.44, C:0.18, G:0.05, T:0.33
Consensus pattern (36 bp):
ATTTTTCAAAGAAACATTTACCAAACTTTGAAAACC
Found at i:134665 original size:35 final size:35
Alignment explanation
Indices: 134581--134692 Score: 161
Period size: 35 Copynumber: 3.1 Consensus size: 35
134571 TCCCATTACA
* * *
134581 ATTTTTAAACAAACATCTACCAAACTTTGAAAACCC
1 ATTTTCAAAGAAACATTTACCAAACTTTGAAAA-CC
134617 ATTTTTCAAAGAAACATTTACCAAACTTTGAAAACC
1 A-TTTTCAAAGAAACATTTACCAAACTTTGAAAACC
* *
134653 ATTTTCAAAGAAACATTTACCAAATTTTGAAAATC
1 ATTTTCAAAGAAACATTTACCAAACTTTGAAAACC
134688 ATTTT
1 ATTTT
134693 TTCAAAGTTG
Statistics
Matches: 70, Mismatches: 5, Indels: 3
0.90 0.06 0.04
Matches are distributed among these distances:
35 37 0.53
36 4 0.06
37 29 0.41
ACGTcount: A:0.44, C:0.19, G:0.04, T:0.33
Consensus pattern (35 bp):
ATTTTCAAAGAAACATTTACCAAACTTTGAAAACC
Found at i:143074 original size:2 final size:2
Alignment explanation
Indices: 143069--143100 Score: 55
Period size: 2 Copynumber: 15.5 Consensus size: 2
143059 TTAAATATTA
143069 AT AT AT AT AT AT AT AT AT AT AT AT AT GAT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT -AT AT A
143101 ATTACTTAAA
Statistics
Matches: 29, Mismatches: 0, Indels: 2
0.94 0.00 0.06
Matches are distributed among these distances:
2 27 0.93
3 2 0.07
ACGTcount: A:0.50, C:0.00, G:0.03, T:0.47
Consensus pattern (2 bp):
AT
Found at i:144526 original size:41 final size:41
Alignment explanation
Indices: 144481--144878 Score: 602
Period size: 41 Copynumber: 9.9 Consensus size: 41
144471 ATTCGCGTTG
144481 CATTTCGCGTTGCGATAGTTGAAAATCGCGTTGCGATTTTC
1 CATTTCGCGTTGCGATAGTTGAAAATCGCGTTGCGATTTTC
* ***
144522 CATTTCGCATTGCGATAGTTGAAAATCGCAACGCGATTTTC
1 CATTTCGCGTTGCGATAGTTGAAAATCGCGTTGCGATTTTC
144563 CATTTCGCGTTGCGATAGTTGAAAATCGCGTTGCGATTTTC
1 CATTTCGCGTTGCGATAGTTGAAAATCGCGTTGCGATTTTC
* *
144604 CATTTCGCGTTGCGATAGTCT-ACAGTCGCGTTGCGATTTTC
1 CATTTCGCGTTGCGATAGT-TGAAAATCGCGTTGCGATTTTC
* *
144645 CATTTCGCGTTGCGATAGTCT-ACAGTCGCGTTGCGATTTTC
1 CATTTCGCGTTGCGATAGT-TGAAAATCGCGTTGCGATTTTC
* *
144686 CATTTCGCGTTGCGATAGTCT-ACAGTCGCGTTGCGATTTTC
1 CATTTCGCGTTGCGATAGT-TGAAAATCGCGTTGCGATTTTC
144727 CATTTCGCGTTGCGATAGTTGAAAATCGCGTT--G------
1 CATTTCGCGTTGCGATAGTTGAAAATCGCGTTGCGATTTTC
144760 CATTTCGCGTTGCGATAGTTGAAAATCGCGTTGCGATTTTC
1 CATTTCGCGTTGCGATAGTTGAAAATCGCGTTGCGATTTTC
144801 CATTTCGCGTTGCGATAGTTGAAAATCGCGTTGCGATTTTC
1 CATTTCGCGTTGCGATAGTTGAAAATCGCGTTGCGATTTTC
144842 CATTTCGCGTTGCGATAGTTGAAAATCGCGTTGCGAT
1 CATTTCGCGTTGCGATAGTTGAAAATCGCGTTGCGAT
144879 AGTTGAAAAT
Statistics
Matches: 335, Mismatches: 12, Indels: 20
0.91 0.03 0.05
Matches are distributed among these distances:
33 32 0.10
35 1 0.00
39 1 0.00
40 1 0.00
41 299 0.89
42 1 0.00
ACGTcount: A:0.19, C:0.21, G:0.24, T:0.35
Consensus pattern (41 bp):
CATTTCGCGTTGCGATAGTTGAAAATCGCGTTGCGATTTTC
Found at i:144720 original size:103 final size:102
Alignment explanation
Indices: 144481--145043 Score: 296
Period size: 103 Copynumber: 5.6 Consensus size: 102
144471 ATTCGCGTTG
* * ** *
144481 CATTTCGCGTTGCGATAGTTGAAAATCGCGTTGCGATTTTCCATTTCGCATTGCGATAGTTGAAA
1 CATTTCGCGTTGCGATAGTTGAAAATCGCGTTGCGATTTTCCATTTCGCGTTGCGATATTTCCAT
* *** * * * * *
144546 ATCGCAACGCGAT-TTTCCATTTCGCGTTGCGATAGTTG
66 TTCGCGTTGCGATAGTTACA-ATCGCGTTGCGAT-TTTC
* ** * ** ** * * *
144584 AAAATCGCGTTGCGAT-TTTCCATTTCGCGTTGCGATAGTCTACA-GTCGCGTTGCGAT-TTTCC
1 CATTTCGCGTTGCGATAGTTGAAAATCGCGTTGCGAT--TTTCCATTTCGCGTTGCGATATTTCC
*
144646 ATTTCGCGTTGCGATAGTCTACAGTCGCGTTGCGATTTTC
64 ATTTCGCGTTGCGATAGT-TACAATCGCGTTGCGATTTTC
* * * **
144686 CATTTCGCGTTGCGATAGTCT-ACAGTCGCGTTGCGATTTTCCATTTCGCGTTGCGATAGTTGAA
1 CATTTCGCGTTGCGATAGT-TGAAAATCGCGTTGCGATTTTCCATTTCGCGTTGCGATATTTCCA
** * *
144750 AATCGCGTTGC---A-TT----TCGCGTTGCGATAGTTG
65 TTTCGCGTTGCGATAGTTACAATCGCGTTGCGAT-TTTC
* ** * ** ** * ** **
144781 AAAATCGCGTTGCGAT-TTTCCATTTCGCGTTGCGATAGTTGAAAATCGCGTTGCGAT-TTTCCA
1 CATTTCGCGTTGCGATAGTTGAAAATCGCGTTGCGAT-TTTCCATTTCGCGTTGCGATATTTCCA
* * *
144844 TTTCGCGTTGCGATAGTTGAAAATCGCGTTGCGATAGTTG
65 TTTCGCGTTGCGATAGTT-ACAATCGCGTTGCGAT-TTTC
* ** * ** ** * ** **
144884 AAAATCGCGTTGCGAT-TTTCCATTTCGCGTTGCGATAGTTGAAAATCGCGTTGCGAT-TTTCCA
1 CATTTCGCGTTGCGATAGTTGAAAATCGCGTTGCGAT-TTTCCATTTCGCGTTGCGATATTTCCA
*
144947 TTTCGCGTTGCGATAGTTGAAAATCGCGTTGCGATTTTC
65 TTTCGCGTTGCGATAGTT-ACAATCGCGTTGCGATTTTC
* *
144986 CATTTCGCGTTGCGATAGTTGAAAATCGCGTTGCGATTTTTCATTTCACGTTGCGATA
1 CATTTCGCGTTGCGATAGTTGAAAATCGCGTTGCGATTTTCCATTTCGCGTTGCGATA
145044 GTTGAAAATA
Statistics
Matches: 361, Mismatches: 77, Indels: 44
0.75 0.16 0.09
Matches are distributed among these distances:
93 1 0.00
94 37 0.10
95 30 0.08
97 1 0.00
98 3 0.01
99 1 0.00
100 1 0.00
101 4 0.01
102 83 0.23
103 192 0.53
104 8 0.02
ACGTcount: A:0.20, C:0.20, G:0.24, T:0.36
Consensus pattern (102 bp):
CATTTCGCGTTGCGATAGTTGAAAATCGCGTTGCGATTTTCCATTTCGCGTTGCGATATTTCCAT
TTCGCGTTGCGATAGTTACAATCGCGTTGCGATTTTC
Found at i:144912 original size:41 final size:41
Alignment explanation
Indices: 144867--145124 Score: 419
Period size: 41 Copynumber: 6.3 Consensus size: 41
144857 TAGTTGAAAA
144867 TCGCGTTGCGATAGTTGAAAATCGCGTTGCGATTTTCCATT
1 TCGCGTTGCGATAGTTGAAAATCGCGTTGCGATTTTCCATT
144908 TCGCGTTGCGATAGTTGAAAATCGCGTTGCGATTTTCCATT
1 TCGCGTTGCGATAGTTGAAAATCGCGTTGCGATTTTCCATT
144949 TCGCGTTGCGATAGTTGAAAATCGCGTTGCGATTTTCCATT
1 TCGCGTTGCGATAGTTGAAAATCGCGTTGCGATTTTCCATT
*
144990 TCGCGTTGCGATAGTTGAAAATCGCGTTGCGATTTTTCATT
1 TCGCGTTGCGATAGTTGAAAATCGCGTTGCGATTTTCCATT
* *
145031 TCACGTTGCGATAGTTGAAAATAGCGTTGCGATTTTCCATT
1 TCGCGTTGCGATAGTTGAAAATCGCGTTGCGATTTTCCATT
* * * * *
145072 TCGCGTTGCGATAGTCT-ACAGTCGTGTTGCGATTTTTCGTT
1 TCGCGTTGCGATAGT-TGAAAATCGCGTTGCGATTTTCCATT
*
145113 TCGCGTTACGAT
1 TCGCGTTGCGAT
145125 TTTCCAAATT
Statistics
Matches: 204, Mismatches: 12, Indels: 2
0.94 0.06 0.01
Matches are distributed among these distances:
41 203 1.00
42 1 0.00
ACGTcount: A:0.19, C:0.19, G:0.24, T:0.38
Consensus pattern (41 bp):
TCGCGTTGCGATAGTTGAAAATCGCGTTGCGATTTTCCATT
Found at i:144912 original size:82 final size:82
Alignment explanation
Indices: 144481--144940 Score: 431
Period size: 82 Copynumber: 5.7 Consensus size: 82
144471 ATTCGCGTTG
* ** ** *
144481 CATTTCGCGTTGCGATAGTTGAAAATCGCGTTGCGATTTTCCATTTCGCATTGCGATAGTTGAAA
1 CATTTCGCGTTGCGATAGTTGAAAATCGCGTTGCGATGTTGAAAATCGCGTTGCGATAGTTGAAA
***
144546 ATCGCAACGCGATTTTC
66 ATCGCGTTGCGATTTTC
* ** ** *
144563 CATTTCGCGTTGCGATAGTTGAAAATCGCGTTGCGATTTTCCATTTCGCGTTGCGATAGTCT-AC
1 CATTTCGCGTTGCGATAGTTGAAAATCGCGTTGCGATGTTGAAAATCGCGTTGCGATAGT-TGAA
*
144627 AGTCGCGTTGCGATTTTC
65 AATCGCGTTGCGATTTTC
* * * ** **
144645 CATTTCGCGTTGCGATAGTCT-ACAGTCGCGTTGCGATTTTCCATTTCGCGTTGCGATAGTCT-A
1 CATTTCGCGTTGCGATAGT-TGAAAATCGCGTTGCGATGTTGAAAATCGCGTTGCGATAGT-TGA
* *
144708 CAGTCGCGTTGCGATTTTC
64 AAATCGCGTTGCGATTTTC
144727 CATTTCGCGTTGCGATAGTTGAAAATCGCGTTGC-A--TT-----TCGCGTTGCGATAGTTGAAA
1 CATTTCGCGTTGCGATAGTTGAAAATCGCGTTGCGATGTTGAAAATCGCGTTGCGATAGTTGAAA
144784 ATCGCGTTGCGATTTTC
66 ATCGCGTTGCGATTTTC
* ** **
144801 CATTTCGCGTTGCGATAGTTGAAAATCGCGTTGCGATTTTCCATTTCGCGTTGCGATAGTTGAAA
1 CATTTCGCGTTGCGATAGTTGAAAATCGCGTTGCGATGTTGAAAATCGCGTTGCGATAGTTGAAA
* *
144866 ATCGCGTTGCGATAGTTG
66 ATCGCGTTGCGAT-TTTC
* ** * ** **
144884 AAAATCGCGTTGCGAT-TTTCCATTTCGCGTTGCGATAGTTGAAAATCGCGTTGCGAT
1 CATTTCGCGTTGCGATAGTTGAAAATCGCGTTGCGAT-GTTGAAAATCGCGTTGCGAT
144941 TTTCCATTTC
Statistics
Matches: 337, Mismatches: 27, Indels: 27
0.86 0.07 0.07
Matches are distributed among these distances:
73 1 0.00
74 67 0.20
75 1 0.00
77 2 0.01
79 2 0.01
81 2 0.01
82 230 0.68
83 32 0.09
ACGTcount: A:0.20, C:0.21, G:0.25, T:0.35
Consensus pattern (82 bp):
CATTTCGCGTTGCGATAGTTGAAAATCGCGTTGCGATGTTGAAAATCGCGTTGCGATAGTTGAAA
ATCGCGTTGCGATTTTC
Found at i:145061 original size:62 final size:62
Alignment explanation
Indices: 144805--145063 Score: 333
Period size: 62 Copynumber: 4.2 Consensus size: 62
144795 ATTTTCCATT
144805 TCGCGTTGCGATAGTTGAAAATCGCGTTGCGATTTTCCATTTCGCGTTGCGATAGTTGAAAA
1 TCGCGTTGCGATAGTTGAAAATCGCGTTGCGATTTTCCATTTCGCGTTGCGATAGTTGAAAA
144867 TCGCGTTGCGATAGTTGAAAATCGCGTTGCGATTTTCCATTTCGCGTTGCGATAGTTGAAAA
1 TCGCGTTGCGATAGTTGAAAATCGCGTTGCGATTTTCCATTTCGCGTTGCGATAGTTGAAAA
* ** ** * ** ** * ** **
144929 TCGCGTTGCGAT-TTTCCATTTCGCGTTGCGATAGTTGAAAATCGCGTTGCGAT-TTTCCATT
1 TCGCGTTGCGATAGTTGAAAATCGCGTTGCGAT-TTTCCATTTCGCGTTGCGATAGTTGAAAA
* *
144990 TCGCGTTGCGATAGTTGAAAATCGCGTTGCGATTTTTCATTTCACGTTGCGATAGTTGAAAA
1 TCGCGTTGCGATAGTTGAAAATCGCGTTGCGATTTTCCATTTCGCGTTGCGATAGTTGAAAA
*
145052 TAGCGTTGCGAT
1 TCGCGTTGCGAT
145064 TTTCCATTTC
Statistics
Matches: 162, Mismatches: 32, Indels: 6
0.81 0.16 0.03
Matches are distributed among these distances:
61 44 0.27
62 118 0.73
ACGTcount: A:0.21, C:0.18, G:0.25, T:0.36
Consensus pattern (62 bp):
TCGCGTTGCGATAGTTGAAAATCGCGTTGCGATTTTCCATTTCGCGTTGCGATAGTTGAAAA
Found at i:145172 original size:6 final size:6
Alignment explanation
Indices: 145161--145199 Score: 78
Period size: 6 Copynumber: 6.5 Consensus size: 6
145151 GACACGTATT
145161 ACCACG ACCACG ACCACG ACCACG ACCACG ACCACG ACC
1 ACCACG ACCACG ACCACG ACCACG ACCACG ACCACG ACC
145200 CGAGACGAGA
Statistics
Matches: 33, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 33 1.00
ACGTcount: A:0.33, C:0.51, G:0.15, T:0.00
Consensus pattern (6 bp):
ACCACG
Found at i:145821 original size:19 final size:19
Alignment explanation
Indices: 145797--145862 Score: 60
Period size: 19 Copynumber: 3.3 Consensus size: 19
145787 TTAACTATCA
145797 CAACGAATTTGGAAAATCG
1 CAACGAATTTGGAAAATCG
* * **
145816 CAACGACAACTGTAGACTATCG
1 CAACG--AA-TTTGGAAAATCG
*
145838 CAACGAATTTGGAAAAGCG
1 CAACGAATTTGGAAAATCG
145857 CAACGA
1 CAACGA
145863 CAACTGTAGA
Statistics
Matches: 35, Mismatches: 9, Indels: 6
0.70 0.18 0.12
Matches are distributed among these distances:
19 18 0.51
20 2 0.06
21 2 0.06
22 13 0.37
ACGTcount: A:0.41, C:0.21, G:0.21, T:0.17
Consensus pattern (19 bp):
CAACGAATTTGGAAAATCG
Found at i:145847 original size:41 final size:40
Alignment explanation
Indices: 145806--146136 Score: 357
Period size: 41 Copynumber: 8.1 Consensus size: 40
145796 ACAACGAATT
* *
145806 TGGAAAATCGCAACGACAACTGTAGACTATCGCAA-CGAATT
1 TGGAAAATCGCAACG-CGACTGTAGACTATCGCAACCGAA-A
* *
145847 TGGAAAAGCGCAACGACAACTGTAGACTATCGCAACGCGAAA
1 TGGAAAATCGCAACG-CGACTGTAGACTATCGCAAC-CGAAA
* *
145889 CGAAAAATCGCAACGCGACTGTAGACTATCGCAACGCGAAA
1 TGGAAAATCGCAACGCGACTGTAGACTATCGCAAC-CGAAA
* *
145930 TGGAAAATCGCAACGCGATTTTCA-ACTATCGCAACGCGAAA
1 TGGAAAATCGCAACGCGACTGT-AGACTATCGCAAC-CGAAA
* *
145971 TGGGAAATCGCAACGCGACTGTAAACTATCGCAACACGAAA
1 TGGAAAATCGCAACGCGACTGTAGACTATCGCAAC-CGAAA
* *
146012 TGGAAAATCGCAACGCGATTTTCA-ACTATCGCAACGCGAAA
1 TGGAAAATCGCAACGCGACTGT-AGACTATCGCAAC-CGAAA
* *
146053 TGGAAAATCGCAACGCGATTTTCA-ACTATCGCAACGCGAAA
1 TGGAAAATCGCAACGCGACTGT-AGACTATCGCAAC-CGAAA
* *
146094 TGGAAAATCGCAACGCGATTTTCA-ACTATCGCAACGCGAAA
1 TGGAAAATCGCAACGCGACTGT-AGACTATCGCAAC-CGAAA
146135 TG
1 TG
146137 CAACACGAAT
Statistics
Matches: 267, Mismatches: 18, Indels: 10
0.91 0.06 0.03
Matches are distributed among these distances:
40 1 0.00
41 248 0.93
42 14 0.05
43 4 0.01
ACGTcount: A:0.38, C:0.24, G:0.21, T:0.17
Consensus pattern (40 bp):
TGGAAAATCGCAACGCGACTGTAGACTATCGCAACCGAAA
Found at i:145958 original size:82 final size:82
Alignment explanation
Indices: 145806--146136 Score: 472
Period size: 82 Copynumber: 4.0 Consensus size: 82
145796 ACAACGAATT
* * * * * *
145806 TGGAAAATCGCAACGACAACTGTAGACTATCGCAA--CGAATTTGGAAAAGCGCAACGACAACTG
1 TGGAAAATCGCAACG-CGACTGTAGACTATCGCAACGCGAA-ATGGAAAATCGCAACG-CGATTT
145869 T-AGACTATCGCAACGCGAAA
63 TCA-ACTATCGCAACGCGAAA
* *
145889 CGAAAAATCGCAACGCGACTGTAGACTATCGCAACGCGAAATGGAAAATCGCAACGCGATTTTCA
1 TGGAAAATCGCAACGCGACTGTAGACTATCGCAACGCGAAATGGAAAATCGCAACGCGATTTTCA
145954 ACTATCGCAACGCGAAA
66 ACTATCGCAACGCGAAA
* * *
145971 TGGGAAATCGCAACGCGACTGTAAACTATCGCAACACGAAATGGAAAATCGCAACGCGATTTTCA
1 TGGAAAATCGCAACGCGACTGTAGACTATCGCAACGCGAAATGGAAAATCGCAACGCGATTTTCA
146036 ACTATCGCAACGCGAAA
66 ACTATCGCAACGCGAAA
* *
146053 TGGAAAATCGCAACGCGATTTTCA-ACTATCGCAACGCGAAATGGAAAATCGCAACGCGATTTTC
1 TGGAAAATCGCAACGCGACTGT-AGACTATCGCAACGCGAAATGGAAAATCGCAACGCGATTTTC
146117 AACTATCGCAACGCGAAA
65 AACTATCGCAACGCGAAA
146135 TG
1 TG
146137 CAACACGAAT
Statistics
Matches: 227, Mismatches: 17, Indels: 9
0.90 0.07 0.04
Matches are distributed among these distances:
82 194 0.85
83 29 0.13
84 4 0.02
ACGTcount: A:0.38, C:0.24, G:0.21, T:0.17
Consensus pattern (82 bp):
TGGAAAATCGCAACGCGACTGTAGACTATCGCAACGCGAAATGGAAAATCGCAACGCGATTTTCA
ACTATCGCAACGCGAAA
Found at i:146135 original size:123 final size:123
Alignment explanation
Indices: 145831--146136 Score: 447
Period size: 123 Copynumber: 2.5 Consensus size: 123
145821 ACAACTGTAG
* * * * *
145831 ACTATCGCAA--CGAATTTGGAAAAGCGCAACGACAACTGTAGACTATCGCAACGCGAAACGAAA
1 ACTATCGCAACGCGAA-ATGGAAAATCGCAACG-CGACTGTAAACTATCGCAACGCGAAATGAAA
145894 AATCGCAACGCGACTGTAGACTATCGCAACGCGAAATGGAAAATCGCAACGCGATTTTCA
64 AATCGCAACGCGACTGTAGACTATCGCAACGCGAAATGGAAAATCGCAACGCGATTTTCA
* * *
145954 ACTATCGCAACGCGAAATGGGAAATCGCAACGCGACTGTAAACTATCGCAACACGAAATGGAAAA
1 ACTATCGCAACGCGAAATGGAAAATCGCAACGCGACTGTAAACTATCGCAACGCGAAATGAAAAA
* *
146019 TCGCAACGCGATTTTCA-ACTATCGCAACGCGAAATGGAAAATCGCAACGCGATTTTCA
66 TCGCAACGCGACTGT-AGACTATCGCAACGCGAAATGGAAAATCGCAACGCGATTTTCA
* * *
146077 ACTATCGCAACGCGAAATGGAAAATCGCAACGCGATTTTCAACTATCGCAACGCGAAATG
1 ACTATCGCAACGCGAAATGGAAAATCGCAACGCGACTGTAAACTATCGCAACGCGAAATG
146137 CAACACGAAT
Statistics
Matches: 165, Mismatches: 15, Indels: 6
0.89 0.08 0.03
Matches are distributed among these distances:
123 147 0.89
124 14 0.08
125 4 0.02
ACGTcount: A:0.38, C:0.25, G:0.21, T:0.17
Consensus pattern (123 bp):
ACTATCGCAACGCGAAATGGAAAATCGCAACGCGACTGTAAACTATCGCAACGCGAAATGAAAAA
TCGCAACGCGACTGTAGACTATCGCAACGCGAAATGGAAAATCGCAACGCGATTTTCA
Found at i:146153 original size:41 final size:41
Alignment explanation
Indices: 145872--146136 Score: 433
Period size: 41 Copynumber: 6.5 Consensus size: 41
145862 ACAACTGTAG
* * * *
145872 ACTATCGCAACGCGAAACGAAAAATCGCAACGCGACTGT-A
1 ACTATCGCAACGCGAAATGGAAAATCGCAACGCGATTTTCA
145912 GACTATCGCAACGCGAAATGGAAAATCGCAACGCGATTTTCA
1 -ACTATCGCAACGCGAAATGGAAAATCGCAACGCGATTTTCA
* * * *
145954 ACTATCGCAACGCGAAATGGGAAATCGCAACGCGACTGTAA
1 ACTATCGCAACGCGAAATGGAAAATCGCAACGCGATTTTCA
*
145995 ACTATCGCAACACGAAATGGAAAATCGCAACGCGATTTTCA
1 ACTATCGCAACGCGAAATGGAAAATCGCAACGCGATTTTCA
146036 ACTATCGCAACGCGAAATGGAAAATCGCAACGCGATTTTCA
1 ACTATCGCAACGCGAAATGGAAAATCGCAACGCGATTTTCA
146077 ACTATCGCAACGCGAAATGGAAAATCGCAACGCGATTTTCA
1 ACTATCGCAACGCGAAATGGAAAATCGCAACGCGATTTTCA
146118 ACTATCGCAACGCGAAATG
1 ACTATCGCAACGCGAAATG
146137 CAACACGAAT
Statistics
Matches: 209, Mismatches: 14, Indels: 2
0.93 0.06 0.01
Matches are distributed among these distances:
41 208 1.00
42 1 0.00
ACGTcount: A:0.37, C:0.25, G:0.20, T:0.17
Consensus pattern (41 bp):
ACTATCGCAACGCGAAATGGAAAATCGCAACGCGATTTTCA
Found at i:146686 original size:21 final size:21
Alignment explanation
Indices: 146626--146690 Score: 60
Period size: 21 Copynumber: 3.0 Consensus size: 21
146616 AAAGTGATCG
* *
146626 ATCTTTGCACAAAAAAAATCAAT
1 ATCTTTG--CAAAAATAATCGAT
* *
146649 CTCTTTG-AGAAAGTAATCGAT
1 ATCTTTGCA-AAAATAATCGAT
146670 ATCTTTGCAAAAATAATCGAT
1 ATCTTTGCAAAAATAATCGAT
146691 GATTTTCTTA
Statistics
Matches: 34, Mismatches: 6, Indels: 6
0.74 0.13 0.13
Matches are distributed among these distances:
20 1 0.03
21 26 0.76
22 1 0.03
23 6 0.18
ACGTcount: A:0.43, C:0.15, G:0.11, T:0.31
Consensus pattern (21 bp):
ATCTTTGCAAAAATAATCGAT
Found at i:150687 original size:21 final size:21
Alignment explanation
Indices: 150649--150689 Score: 55
Period size: 21 Copynumber: 2.0 Consensus size: 21
150639 TATATAAATT
* *
150649 CTATTTTTTTTTAATTTTTAC
1 CTATTTTTCTTGAATTTTTAC
*
150670 CTATTTTTCTTGATTTTTTA
1 CTATTTTTCTTGAATTTTTA
150690 ATAATTTTAT
Statistics
Matches: 17, Mismatches: 3, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
21 17 1.00
ACGTcount: A:0.17, C:0.10, G:0.02, T:0.71
Consensus pattern (21 bp):
CTATTTTTCTTGAATTTTTAC
Found at i:150914 original size:39 final size:39
Alignment explanation
Indices: 150848--150929 Score: 128
Period size: 39 Copynumber: 2.1 Consensus size: 39
150838 CATAATTCAC
* *
150848 ATATGAACTGCTACGTCAACATTGTATATTGTCGCATCA
1 ATATGAACTGCTACGTCAACATCGTATATTGTCACATCA
* *
150887 ATATGAACTGCTATGTCAGCATCGTATATTGTCACATCA
1 ATATGAACTGCTACGTCAACATCGTATATTGTCACATCA
150926 ATAT
1 ATAT
150930 AATTAACTAT
Statistics
Matches: 39, Mismatches: 4, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
39 39 1.00
ACGTcount: A:0.32, C:0.20, G:0.15, T:0.34
Consensus pattern (39 bp):
ATATGAACTGCTACGTCAACATCGTATATTGTCACATCA
Found at i:152615 original size:41 final size:40
Alignment explanation
Indices: 152569--152647 Score: 140
Period size: 41 Copynumber: 1.9 Consensus size: 40
152559 AACCTTTTAG
*
152569 ATTTAAGATTTTTAGTTTGATTATTTTATTATTACTTTTTT
1 ATTTAAGATTTTTAGTTTGATTATTTCATTATTA-TTTTTT
152610 ATTTAAGATTTTTAGTTTGATTATTTCATTATTATTTT
1 ATTTAAGATTTTTAGTTTGATTATTTCATTATTATTTT
152648 ATCTAGGAAT
Statistics
Matches: 37, Mismatches: 1, Indels: 1
0.95 0.03 0.03
Matches are distributed among these distances:
40 4 0.11
41 33 0.89
ACGTcount: A:0.25, C:0.03, G:0.08, T:0.65
Consensus pattern (40 bp):
ATTTAAGATTTTTAGTTTGATTATTTCATTATTATTTTTT
Found at i:154204 original size:18 final size:19
Alignment explanation
Indices: 154183--154220 Score: 51
Period size: 18 Copynumber: 2.1 Consensus size: 19
154173 TATTTTTGTA
154183 TTAAAAATTATAA-TTATT
1 TTAAAAATTATAACTTATT
* *
154201 TTAATAATTTTAACTTATT
1 TTAAAAATTATAACTTATT
154220 T
1 T
154221 AGGATTCGAA
Statistics
Matches: 17, Mismatches: 2, Indels: 1
0.85 0.10 0.05
Matches are distributed among these distances:
18 11 0.65
19 6 0.35
ACGTcount: A:0.42, C:0.03, G:0.00, T:0.55
Consensus pattern (19 bp):
TTAAAAATTATAACTTATT
Found at i:156196 original size:111 final size:108
Alignment explanation
Indices: 155957--156206 Score: 437
Period size: 108 Copynumber: 2.3 Consensus size: 108
155947 CATAATTCAA
*
155957 GCACGAAGTGATTCGTTCCCCTATCCAATTAACTTTGACTTGAATAGACTCCCAATAATATGCGA
1 GCACGAAGTGATTCGTTCCCCTATCCAATTAACTTTGACTTGAATAAACTCCCAATAATATGCGA
*
156022 TTGGATATTTTTTCCTCAATATTATGTATGGATAATAGCAAAG
66 TTGGATATTTTTTCCTCAATATTATGTATGGATAATAACAAAG
*
156065 GCACGAAGTGATTCGTTCCCCAATCCAATTAACTTTGACTTGAATAAACTCCCAATAATATGCGA
1 GCACGAAGTGATTCGTTCCCCTATCCAATTAACTTTGACTTGAATAAACTCCCAATAATATGCGA
*
156130 TTGGATACTTTTTTTCCCTCAATATTATGTATGGCTAATAACAAAG
66 TTGGATA--TTTTTT-CCTCAATATTATGTATGGATAATAACAAAG
156176 GCACGAAGTGATTCGTTCCCCTATCCAATTA
1 GCACGAAGTGATTCGTTCCCCTATCCAATTA
156207 TTGTACATAT
Statistics
Matches: 134, Mismatches: 5, Indels: 3
0.94 0.04 0.02
Matches are distributed among these distances:
108 70 0.52
110 6 0.04
111 58 0.43
ACGTcount: A:0.31, C:0.21, G:0.15, T:0.33
Consensus pattern (108 bp):
GCACGAAGTGATTCGTTCCCCTATCCAATTAACTTTGACTTGAATAAACTCCCAATAATATGCGA
TTGGATATTTTTTCCTCAATATTATGTATGGATAATAACAAAG
Found at i:163384 original size:3 final size:3
Alignment explanation
Indices: 163367--163418 Score: 61
Period size: 3 Copynumber: 17.3 Consensus size: 3
163357 TTATCCCGTT
* * *
163367 TTA TTA TT- TTT TTA TTA TTA TAA TTA TTA TTA TTA TTTA TTA ATA
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA -TTA TTA TTA
163412 TTA TTA T
1 TTA TTA T
163419 ATTTACAGGC
Statistics
Matches: 42, Mismatches: 5, Indels: 4
0.82 0.10 0.08
Matches are distributed among these distances:
2 2 0.05
3 37 0.88
4 3 0.07
ACGTcount: A:0.33, C:0.00, G:0.00, T:0.67
Consensus pattern (3 bp):
TTA
Found at i:170861 original size:16 final size:16
Alignment explanation
Indices: 170837--170868 Score: 55
Period size: 16 Copynumber: 2.0 Consensus size: 16
170827 GGTCTCCAGC
170837 GTTTATGTTCGTTTAT
1 GTTTATGTTCGTTTAT
*
170853 GTTTGTGTTCGTTTAT
1 GTTTATGTTCGTTTAT
170869 TTATTAAACG
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
16 15 1.00
ACGTcount: A:0.09, C:0.06, G:0.22, T:0.62
Consensus pattern (16 bp):
GTTTATGTTCGTTTAT
Found at i:174732 original size:79 final size:80
Alignment explanation
Indices: 174582--174740 Score: 275
Period size: 79 Copynumber: 2.0 Consensus size: 80
174572 ATTTCGTTAC
174582 GTAATCATAATTTCAGTCACAGAAAAATAATAATAATGGTGAAGAGAGCATCAGAAATAATTTCA
1 GTAATCATAATTTCAGTCACAGAAAAATAATAATAA--GTGAAGAGAGCATCAGAAATAATTTCA
*
174647 ATTTCTCAAAATAATTT
64 AATTCTCAAAATAATTT
*
174664 GTAATCATAATTTCAGTCACAGAAAAATAATAATAA-TGAAGAGAGTATCAGAAATAATTTCAAA
1 GTAATCATAATTTCAGTCACAGAAAAATAATAATAAGTGAAGAGAGCATCAGAAATAATTTCAAA
174728 TTCTCAAAATAAT
66 TTCTCAAAATAAT
174741 CTTAGGGGGG
Statistics
Matches: 75, Mismatches: 2, Indels: 3
0.94 0.03 0.04
Matches are distributed among these distances:
79 39 0.52
82 36 0.48
ACGTcount: A:0.48, C:0.11, G:0.11, T:0.30
Consensus pattern (80 bp):
GTAATCATAATTTCAGTCACAGAAAAATAATAATAAGTGAAGAGAGCATCAGAAATAATTTCAAA
TTCTCAAAATAATTT
Found at i:175392 original size:2 final size:2
Alignment explanation
Indices: 175385--175424 Score: 80
Period size: 2 Copynumber: 20.0 Consensus size: 2
175375 AATGGAAACA
175385 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
175425 TCCACTTTTC
Statistics
Matches: 38, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 38 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:185126 original size:16 final size:18
Alignment explanation
Indices: 185096--185131 Score: 58
Period size: 17 Copynumber: 2.1 Consensus size: 18
185086 ATTCGTAATT
185096 AACACTTATTACAT-ACC
1 AACACTTATTACATAACC
185113 AACACTTA-TACATAACC
1 AACACTTATTACATAACC
185130 AA
1 AA
185132 GTACATACTT
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
16 5 0.28
17 13 0.72
ACGTcount: A:0.47, C:0.28, G:0.00, T:0.25
Consensus pattern (18 bp):
AACACTTATTACATAACC
Found at i:185796 original size:22 final size:22
Alignment explanation
Indices: 185752--185796 Score: 65
Period size: 22 Copynumber: 2.0 Consensus size: 22
185742 ATATCACAGG
*
185752 TCATATCACATATCATATCATA
1 TCATATCACATAACATATCATA
185774 TCATATCACATGAACATAT-ATA
1 TCATATCACAT-AACATATCATA
185796 T
1 T
185797 ATCTTATGCA
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
22 15 0.71
23 6 0.29
ACGTcount: A:0.42, C:0.20, G:0.02, T:0.36
Consensus pattern (22 bp):
TCATATCACATAACATATCATA
Found at i:186201 original size:64 final size:64
Alignment explanation
Indices: 186093--186269 Score: 239
Period size: 64 Copynumber: 2.8 Consensus size: 64
186083 TAATGAAGGT
* * ** * *
186093 ATGCATCGATGCACTACTGATGCATCGGTGCATAAAAGGTATTCGATGTAGT-ATTATTGATGGG
1 ATGCATCGATGCACTACTTATGCATCGATGCATAAATTGCATTCGATGT-GTCATTATTAATGGG
* ** *
186157 ATGCATCGATGCACTCCTTATGCATCGATGCACCAATTGCATTCGATGTTTCATTATTAATGGG
1 ATGCATCGATGCACTACTTATGCATCGATGCATAAATTGCATTCGATGTGTCATTATTAATGGG
*
186221 ATGCATCGATGCACTACTTATGCATCGATGCATGAATTGCATTCGATGT
1 ATGCATCGATGCACTACTTATGCATCGATGCATAAATTGCATTCGATGT
186270 CTTTATTTTA
Statistics
Matches: 99, Mismatches: 13, Indels: 2
0.87 0.11 0.02
Matches are distributed among these distances:
63 1 0.01
64 98 0.99
ACGTcount: A:0.27, C:0.19, G:0.22, T:0.33
Consensus pattern (64 bp):
ATGCATCGATGCACTACTTATGCATCGATGCATAAATTGCATTCGATGTGTCATTATTAATGGG
Found at i:186290 original size:64 final size:64
Alignment explanation
Indices: 186093--186317 Score: 222
Period size: 64 Copynumber: 3.5 Consensus size: 64
186083 TAATGAAGGT
* * ** ** * * * * *
186093 ATGCATCGATGCACTACTGATGCATCGGTGCATAAAAGGTATTCGATGTAGT-ATTATTGATGGG
1 ATGCATCGATGCACTACTTATGCATCGATGCACCAATTGCATTCGATGT-TTCATTATTAAAGAG
* * *
186157 ATGCATCGATGCACTCCTTATGCATCGATGCACCAATTGCATTCGATGTTTCATTATTAATGGG
1 ATGCATCGATGCACTACTTATGCATCGATGCACCAATTGCATTCGATGTTTCATTATTAAAGAG
** *
186221 ATGCATCGATGCACTACTTATGCATCGATGCATGAATTGCATTCGATGTCTTTATT-TTAAA-AG
1 ATGCATCGATGCACTACTTATGCATCGATGCACCAATTGCATTCGATGT-TTCATTATTAAAGAG
** *
186284 AGTGCATCGATGCACTACCAATGCATCGGTGCAC
1 A-TGCATCGATGCACTACTTATGCATCGATGCAC
186318 ATTCAAACAA
Statistics
Matches: 138, Mismatches: 20, Indels: 6
0.84 0.12 0.04
Matches are distributed among these distances:
63 3 0.02
64 130 0.94
65 5 0.04
ACGTcount: A:0.27, C:0.20, G:0.21, T:0.32
Consensus pattern (64 bp):
ATGCATCGATGCACTACTTATGCATCGATGCACCAATTGCATTCGATGTTTCATTATTAAAGAG
Found at i:189371 original size:3 final size:3
Alignment explanation
Indices: 189363--189400 Score: 76
Period size: 3 Copynumber: 12.7 Consensus size: 3
189353 CAAGATAAAT
189363 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA AT
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA AT
189401 TTATGTGAGA
Statistics
Matches: 35, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 35 1.00
ACGTcount: A:0.66, C:0.00, G:0.00, T:0.34
Consensus pattern (3 bp):
ATA
Found at i:190184 original size:20 final size:19
Alignment explanation
Indices: 190140--190178 Score: 69
Period size: 19 Copynumber: 2.1 Consensus size: 19
190130 TAGCTTTAAT
*
190140 AATATTATTGAAAATTTTA
1 AATATTATTGAAAAATTTA
190159 AATATTATTGAAAAATTTA
1 AATATTATTGAAAAATTTA
190178 A
1 A
190179 CTTATTTAAT
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
19 19 1.00
ACGTcount: A:0.51, C:0.00, G:0.05, T:0.44
Consensus pattern (19 bp):
AATATTATTGAAAAATTTA
Found at i:192817 original size:23 final size:24
Alignment explanation
Indices: 192777--192826 Score: 59
Period size: 25 Copynumber: 2.1 Consensus size: 24
192767 TAAATCAAAG
*
192777 AAAAAATTATACAGAAATAAAAACA
1 AAAAAAATATACAGAAAT-AAAACA
*
192802 AAAAAAATATA-A-AAATATAACA
1 AAAAAAATATACAGAAATAAAACA
192824 AAA
1 AAA
192827 TTCCCAAAAA
Statistics
Matches: 23, Mismatches: 2, Indels: 3
0.82 0.07 0.11
Matches are distributed among these distances:
22 8 0.35
23 4 0.17
24 1 0.04
25 10 0.43
ACGTcount: A:0.76, C:0.06, G:0.02, T:0.16
Consensus pattern (24 bp):
AAAAAAATATACAGAAATAAAACA
Found at i:193429 original size:18 final size:18
Alignment explanation
Indices: 193394--193432 Score: 51
Period size: 18 Copynumber: 2.2 Consensus size: 18
193384 TATAATACCA
**
193394 ATTTAATAATAATTTATT
1 ATTTAATAATAAAATATT
*
193412 ATTTTATAATAAAATATT
1 ATTTAATAATAAAATATT
193430 ATT
1 ATT
193433 ATCCAACTAC
Statistics
Matches: 18, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
18 18 1.00
ACGTcount: A:0.46, C:0.00, G:0.00, T:0.54
Consensus pattern (18 bp):
ATTTAATAATAAAATATT
Done.