Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: VEPZ01003569.1 Hibiscus syriacus cultivar Beakdansim tig00007535_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: 130218
ACGTcount: A:0.33, C:0.17, G:0.16, T:0.33
Found at i:5894 original size:31 final size:31
Alignment explanation
Indices: 5859--5963 Score: 165
Period size: 31 Copynumber: 3.4 Consensus size: 31
5849 TTCAACGTCC
*
5859 AAGTGACCAAAACTTAATAAAATGATAACGT
1 AAGTGACAAAAACTTAATAAAATGATAACGT
*
5890 AAGTGACAAAAATTTAATAAAATGATAACGT
1 AAGTGACAAAAACTTAATAAAATGATAACGT
* *
5921 AAGTGACAAAAACTTAATAAAACGATAATGT
1 AAGTGACAAAAACTTAATAAAATGATAACGT
*
5952 AAGTGACCAAAA
1 AAGTGACAAAAA
5964 GTGTACAATA
Statistics
Matches: 68, Mismatches: 6, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
31 68 1.00
ACGTcount: A:0.54, C:0.10, G:0.13, T:0.22
Consensus pattern (31 bp):
AAGTGACAAAAACTTAATAAAATGATAACGT
Found at i:6138 original size:29 final size:30
Alignment explanation
Indices: 6068--6142 Score: 100
Period size: 29 Copynumber: 2.5 Consensus size: 30
6058 GTTAACTTTC
6068 AGTGACAATATCTTAATTAAACCGAAACGAA
1 AGTGACAA-ATCTTAATTAAACCGAAACGAA
*
6099 AGTGACAAAATCTTAA-TAAACC-AAATGAA
1 AGTGAC-AAATCTTAATTAAACCGAAACGAA
6128 AGTGATCAAATCTTA
1 AGTGA-CAAATCTTA
6143 TGATTTTTGA
Statistics
Matches: 41, Mismatches: 1, Indels: 6
0.85 0.02 0.12
Matches are distributed among these distances:
29 19 0.46
30 7 0.17
31 13 0.32
32 2 0.05
ACGTcount: A:0.49, C:0.15, G:0.12, T:0.24
Consensus pattern (30 bp):
AGTGACAAATCTTAATTAAACCGAAACGAA
Found at i:6516 original size:5 final size:5
Alignment explanation
Indices: 6485--6527 Score: 59
Period size: 5 Copynumber: 8.2 Consensus size: 5
6475 TGATAAACTA
*
6485 TTTAT TTAAT TATTAT TTTAGT TTTAT TTTAT TTTAT TTTAT T
1 TTTAT TTTAT T-TTAT TTTA-T TTTAT TTTAT TTTAT TTTAT T
6528 ATTTTTAAAA
Statistics
Matches: 34, Mismatches: 2, Indels: 4
0.85 0.05 0.10
Matches are distributed among these distances:
5 25 0.74
6 9 0.26
ACGTcount: A:0.23, C:0.00, G:0.02, T:0.74
Consensus pattern (5 bp):
TTTAT
Found at i:6521 original size:10 final size:10
Alignment explanation
Indices: 6485--6527 Score: 59
Period size: 11 Copynumber: 4.1 Consensus size: 10
6475 TGATAAACTA
*
6485 TTTATTTAAT
1 TTTATTTTAT
6495 TATTATTTTAGT
1 T-TTATTTTA-T
6507 TTTATTTTAT
1 TTTATTTTAT
6517 TTTATTTTAT
1 TTTATTTTAT
6527 T
1 T
6528 ATTTTTAAAA
Statistics
Matches: 30, Mismatches: 1, Indels: 4
0.86 0.03 0.11
Matches are distributed among these distances:
10 13 0.43
11 15 0.50
12 2 0.07
ACGTcount: A:0.23, C:0.00, G:0.02, T:0.74
Consensus pattern (10 bp):
TTTATTTTAT
Found at i:9974 original size:2 final size:2
Alignment explanation
Indices: 9967--10010 Score: 79
Period size: 2 Copynumber: 22.0 Consensus size: 2
9957 AATCATATGA
*
9967 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AA AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
10009 AT
1 AT
10011 CTAATTCATG
Statistics
Matches: 40, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
2 40 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:10592 original size:37 final size:38
Alignment explanation
Indices: 10488--10593 Score: 133
Period size: 37 Copynumber: 2.8 Consensus size: 38
10478 CATTTTCGTC
*
10488 CTACTAGGATTCAAACTCCTAAAAATAGGATAAAATTT
1 CTACTAGGATTCAAACTCCTAAAAATAGGATAAAAGTT
* * *
10526 TTGCTAGGATTCAAACTCCTAAAAATAGGAT-AGAGTT
1 CTACTAGGATTCAAACTCCTAAAAATAGGATAAAAGTT
* * * *
10563 CTACTAAGATTTAAATTCCTAAAGATAGGAT
1 CTACTAGGATTCAAACTCCTAAAAATAGGAT
10594 CCACAAGCAC
Statistics
Matches: 58, Mismatches: 10, Indels: 1
0.84 0.14 0.01
Matches are distributed among these distances:
37 29 0.50
38 29 0.50
ACGTcount: A:0.42, C:0.14, G:0.14, T:0.30
Consensus pattern (38 bp):
CTACTAGGATTCAAACTCCTAAAAATAGGATAAAAGTT
Found at i:10988 original size:18 final size:17
Alignment explanation
Indices: 10949--10991 Score: 61
Period size: 18 Copynumber: 2.5 Consensus size: 17
10939 ATTATATGGA
10949 TATT-TTATTCATTTAT
1 TATTATTATTCATTTAT
*
10965 TTTTATTATTCATGTTAT
1 TATTATTATTCAT-TTAT
10983 TATTATTAT
1 TATTATTAT
10992 ATGTATATAT
Statistics
Matches: 23, Mismatches: 2, Indels: 2
0.85 0.07 0.07
Matches are distributed among these distances:
16 3 0.13
17 8 0.35
18 12 0.52
ACGTcount: A:0.26, C:0.05, G:0.02, T:0.67
Consensus pattern (17 bp):
TATTATTATTCATTTAT
Found at i:11491 original size:9 final size:9
Alignment explanation
Indices: 11470--11503 Score: 52
Period size: 9 Copynumber: 3.8 Consensus size: 9
11460 ATTTTTTTTC
11470 TTTATCTTA-
1 TTTAT-TTAT
11479 TTTATTTAT
1 TTTATTTAT
11488 TTTATTTAT
1 TTTATTTAT
11497 TTTATTT
1 TTTATTT
11504 TCCCTTTTAC
Statistics
Matches: 24, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
8 3 0.12
9 21 0.88
ACGTcount: A:0.21, C:0.03, G:0.00, T:0.76
Consensus pattern (9 bp):
TTTATTTAT
Found at i:11492 original size:13 final size:13
Alignment explanation
Indices: 11459--11504 Score: 56
Period size: 13 Copynumber: 3.5 Consensus size: 13
11449 ATTACTTTAC
* *
11459 TATTTTTTTTCTT
1 TATTTTATTTATT
*
11472 TATCTTATTTATT
1 TATTTTATTTATT
11485 TATTTTATTTATTT
1 TATTTTATTTA-TT
11499 TATTTT
1 TATTTT
11505 CCCTTTTACC
Statistics
Matches: 28, Mismatches: 4, Indels: 1
0.85 0.12 0.03
Matches are distributed among these distances:
13 20 0.71
14 8 0.29
ACGTcount: A:0.17, C:0.04, G:0.00, T:0.78
Consensus pattern (13 bp):
TATTTTATTTATT
Found at i:16073 original size:16 final size:16
Alignment explanation
Indices: 16047--16124 Score: 78
Period size: 16 Copynumber: 5.1 Consensus size: 16
16037 AGATCCAATC
16047 AAGAA-CAAAAAAGAA
1 AAGAAGCAAAAAAGAA
16062 AAGAAGCAAAAAAGCAA
1 AAGAAGCAAAAAAG-AA
*
16079 AA-AAGCAAAGAA-AA
1 AAGAAGCAAAAAAGAA
16093 AAG-AG-AAAAAAGAA
1 AAGAAGCAAAAAAGAA
*
16107 CAAAAAG-AAAAAAGAA
1 -AAGAAGCAAAAAAGAA
16123 AA
1 AA
16125 AGGGACAAAA
Statistics
Matches: 54, Mismatches: 3, Indels: 12
0.78 0.04 0.17
Matches are distributed among these distances:
13 5 0.09
14 8 0.15
15 9 0.17
16 28 0.52
17 4 0.07
ACGTcount: A:0.78, C:0.06, G:0.15, T:0.00
Consensus pattern (16 bp):
AAGAAGCAAAAAAGAA
Found at i:16078 original size:8 final size:7
Alignment explanation
Indices: 16053--16125 Score: 67
Period size: 8 Copynumber: 9.7 Consensus size: 7
16043 AATCAAGAAC
16053 AAAAAAG
1 AAAAAAG
16060 AAAAGAAG
1 AAAA-AAG
16068 CAAAAAAG
1 -AAAAAAG
16076 CAAAAAAG
1 -AAAAAAG
*
16084 CAAAGAA-
1 -AAAAAAG
*
16091 AAAAGAG
1 AAAAAAG
16098 AAAAAAG
1 AAAAAAG
16105 AACAAAAAG
1 -A-AAAAAG
16114 AAAAAAG
1 AAAAAAG
16121 AAAAA
1 AAAAA
16126 GGGACAAAAA
Statistics
Matches: 57, Mismatches: 4, Indels: 10
0.80 0.06 0.14
Matches are distributed among these distances:
6 4 0.07
7 21 0.37
8 22 0.39
9 10 0.18
ACGTcount: A:0.79, C:0.05, G:0.15, T:0.00
Consensus pattern (7 bp):
AAAAAAG
Found at i:16966 original size:22 final size:22
Alignment explanation
Indices: 16892--16968 Score: 136
Period size: 22 Copynumber: 3.5 Consensus size: 22
16882 GCTACCCCAT
*
16892 CAAACCGTTGAGCATCAAATGC
1 CAAACCTTTGAGCATCAAATGC
*
16914 CAAACCTATGAGCATCAAATGC
1 CAAACCTTTGAGCATCAAATGC
16936 CAAACCTTTGAGCATCAAATGC
1 CAAACCTTTGAGCATCAAATGC
16958 CAAACCTTTGA
1 CAAACCTTTGA
16969 CCAAACATAA
Statistics
Matches: 52, Mismatches: 3, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
22 52 1.00
ACGTcount: A:0.38, C:0.27, G:0.14, T:0.21
Consensus pattern (22 bp):
CAAACCTTTGAGCATCAAATGC
Found at i:17960 original size:36 final size:36
Alignment explanation
Indices: 17913--18171 Score: 255
Period size: 36 Copynumber: 7.3 Consensus size: 36
17903 ATTGAAAACA
*
17913 TTTCCCTTGAAATAAATTTCGTCTCTCTTGAGATAG
1 TTTCCCTTGAAATAAATTTCGTCTCTCTTGAGACAG
* *
17949 TTTCCCTTGAAACAAAATTTTGTCTCTCTTGAGACAG
1 TTTCCCTTGAAA-TAAATTTCGTCTCTCTTGAGACAG
* *
17986 TTTCTCTTGAAATAAATTTTGTCTCTCTTGAGACAG
1 TTTCCCTTGAAATAAATTTCGTCTCTCTTGAGACAG
* * *
18022 TTTCCCTTGAAATAAA------ATAT-TTGA-ATATG
1 TTTCCCTTGAAATAAATTTCGTCTCTCTTGAGACA-G
* * * *
18051 TTTTCTTTGAAACAAATTTCGTCTCCCTTGAGACAG
1 TTTCCCTTGAAATAAATTTCGTCTCTCTTGAGACAG
** * * *
18087 TTTCTTTTGGAACTAAGTTTTGTCTCTCTTGAGACAG
1 TTTCCCTT-GAAATAAATTTCGTCTCTCTTGAGACAG
* * *
18124 TTTCTCTTGAAACAAATTTCGTCTATCTTGAGACAG
1 TTTCCCTTGAAATAAATTTCGTCTCTCTTGAGACAG
18160 TTTCCCTTGAAA
1 TTTCCCTTGAAA
18172 CAAAATCTTT
Statistics
Matches: 182, Mismatches: 30, Indels: 22
0.78 0.13 0.09
Matches are distributed among these distances:
28 2 0.01
29 18 0.10
30 2 0.01
35 1 0.01
36 95 0.52
37 64 0.35
ACGTcount: A:0.26, C:0.19, G:0.14, T:0.41
Consensus pattern (36 bp):
TTTCCCTTGAAATAAATTTCGTCTCTCTTGAGACAG
Found at i:18113 original size:138 final size:138
Alignment explanation
Indices: 17847--18238 Score: 493
Period size: 138 Copynumber: 2.8 Consensus size: 138
17837 ACTCATGATT
* * * * *
17847 GTTTTTCTTAAAACAAGA-TTTGTCTCTCTTGAGACAGTTTCTCTTGAAACATAAACA-TTGAAA
1 GTTTCTCTTGAAACAA-ATTTTGTCTCTCTTGAGACAGTTTCCCTTGAAACA-AAATATTTGAAT
* * * *
17910 ACATTTCCCTTGAAATAAATTTCGTCTCTCTTGAGATAGTTTCCCTTGAAACAAAATTTTGTCTC
64 ATATTTCCCTTGAAACAAATTTCGTCTCCCTTGAGACAGTTTCCCTTGAAACAAAATTTTGTCTC
17975 TCTTGAGACA
129 TCTTGAGACA
* *
17985 GTTTCTCTTGAAATAAATTTTGTCTCTCTTGAGACAGTTTCCCTTGAAATAAAATATTTGAATAT
1 GTTTCTCTTGAAACAAATTTTGTCTCTCTTGAGACAGTTTCCCTTGAAACAAAATATTTGAATAT
* * * ** * * *
18050 GTTTTCTTTGAAACAAATTTCGTCTCCCTTGAGACAGTTTCTTTTGGAACTAAGTTTTGTCTCTC
66 ATTTCCCTTGAAACAAATTTCGTCTCCCTTGAGACAGTTTCCCTTGAAACAAAATTTTGTCTCTC
18115 TTGAGACA
131 TTGAGACA
* * * *
18123 GTTTCTCTTGAAACAAATTTCGTCTATCTTGAGACAGTTTCCCTTGAAACAAAATCTTTGAATTT
1 GTTTCTCTTGAAACAAATTTTGTCTCTCTTGAGACAGTTTCCCTTGAAACAAAATATTTGAATAT
* * * *
18188 ATTTCCCCTAAAACAAA-TTCTGTCTCCCTTGAGACAGTTACTCTTGAAACA
66 ATTTCCCTTGAAACAAATTTC-GTCTCCCTTGAGACAGTTTCCCTTGAAACA
18239 CAAAATCTTC
Statistics
Matches: 217, Mismatches: 34, Indels: 6
0.84 0.13 0.02
Matches are distributed among these distances:
137 8 0.04
138 209 0.96
ACGTcount: A:0.29, C:0.19, G:0.13, T:0.39
Consensus pattern (138 bp):
GTTTCTCTTGAAACAAATTTTGTCTCTCTTGAGACAGTTTCCCTTGAAACAAAATATTTGAATAT
ATTTCCCTTGAAACAAATTTCGTCTCCCTTGAGACAGTTTCCCTTGAAACAAAATTTTGTCTCTC
TTGAGACA
Found at i:18237 original size:65 final size:64
Alignment explanation
Indices: 18133--18307 Score: 206
Period size: 67 Copynumber: 2.6 Consensus size: 64
18123 GTTTCTCTTG
** * **
18133 AAACAAATTTCGTCTATCTTGAGACAGTTTCCCTTGAAACAAAATCTTTGAATTTATTTCCCCTA
1 AAACAAATTT-GTCTCCCTTGAGACAGTTTCTCTTGAAACAAAATCTTCAAATTTATTTCCCCTA
* *
18198 AAACAAATTCTGTCTCCCTTGAGACAGTTACTCTTGAAACACAAAATCTTCAAATTTATTTCCCT
1 AAACAAATT-TGTCTCCCTTGAGACAGTTTCTCTTG-AA-ACAAAATCTTCAAATTTATTTCCCC
18263 TA
63 TA
* * *
18265 AAACATAATTTTGTTTCCCTTGAGACCGTTTCTCATGAAACAA
1 AAACA-AA-TTTGTCTCCCTTGAGACAGTTTCTCTTGAAACAA
18308 CATATATCTT
Statistics
Matches: 94, Mismatches: 11, Indels: 9
0.82 0.10 0.08
Matches are distributed among these distances:
65 30 0.32
66 7 0.07
67 31 0.33
68 24 0.26
69 2 0.02
ACGTcount: A:0.33, C:0.22, G:0.09, T:0.35
Consensus pattern (64 bp):
AAACAAATTTGTCTCCCTTGAGACAGTTTCTCTTGAAACAAAATCTTCAAATTTATTTCCCCTA
Found at i:19073 original size:105 final size:105
Alignment explanation
Indices: 18912--19781 Score: 1315
Period size: 105 Copynumber: 8.3 Consensus size: 105
18902 GCCATCCGCG
* * *
18912 ATTTCAACTCCACGACGGAGGATATCGTGGCAC-TCGAGACAACGCAAGTTCAACTTCACGACGA
1 ATTTCAACTTCACAACGAAGGATAT--TGG-ACTTC-AGACAACGCAAGTTCAACTTCACGACGA
18976 AGGGACCGCTGCTTGTCAACAACAACTTCTCAATTTCAGAGCCA
62 AGGGACCGCTGCTTGTCAACAACAACTTCTCAATTTCAGAGCCA
*
19020 ATTTCAACTTCACAATGAAGGATATTGGACTTCAGACAACGCAAGTTCAACTTCACGACGAAGGG
1 ATTTCAACTTCACAACGAAGGATATTGGACTTCAGACAACGCAAGTTCAACTTCACGACGAAGGG
*
19085 ACCGCTGCCTGTCAACAACAACTTCTCAATTTCAGAGCCA
66 ACCGCTGCTTGTCAACAACAACTTCTCAATTTCAGAGCCA
* *
19125 ATTTCAACTTCACAATGAAGGATATTGGACTTCAGACAACACAAGTTCAACTTCACGACGAAGGG
1 ATTTCAACTTCACAACGAAGGATATTGGACTTCAGACAACGCAAGTTCAACTTCACGACGAAGGG
19190 ACCGCTGCTTGTCAACAACAACTTCTCAATTTCAGAGCCA
66 ACCGCTGCTTGTCAACAACAACTTCTCAATTTCAGAGCCA
* *
19230 ATTTCAACTTCACAACGAAGGATATTGGACTCCAGACAACGCAAGTTGAACTTCACGACGAAGGG
1 ATTTCAACTTCACAACGAAGGATATTGGACTTCAGACAACGCAAGTTCAACTTCACGACGAAGGG
*
19295 ACCGCTGCTTGTCAACAATAACTTCTCAATTTCAGAGCCA
66 ACCGCTGCTTGTCAACAACAACTTCTCAATTTCAGAGCCA
19335 ATTTCAACTTCACAACGAAGGATATTGGACTTCAGACAACGCAAGTTCAACTTCACGACGAAGGG
1 ATTTCAACTTCACAACGAAGGATATTGGACTTCAGACAACGCAAGTTCAACTTCACGACGAAGGG
* *
19400 ACCGCTGCTTGTCAACAACAACTTCCCAATCTCAGAGCCA
66 ACCGCTGCTTGTCAACAACAACTTCTCAATTTCAGAGCCA
* * *
19440 ATTTCAACTTCACAACGAAGGATATTGGACTCCAGACAATGCAAGTTCAACTTCACGAGGAAGGG
1 ATTTCAACTTCACAACGAAGGATATTGGACTTCAGACAACGCAAGTTCAACTTCACGACGAAGGG
* *
19505 ACCGCTGCTTGTCAACAACAACTTCCCAATCTCAGAGCCA
66 ACCGCTGCTTGTCAACAACAACTTCTCAATTTCAGAGCCA
*
19545 ATTTCAACTTCACAACGAAGGATATTGGACTCCAGACAACGCAAGTTCAAC-TCTACGACGAAGG
1 ATTTCAACTTCACAACGAAGGATATTGGACTTCAGACAACGCAAGTTCAACTTC-ACGACGAAGG
* *
19609 GACCGCTGCTTGTCAATAA-AA-TT-TC-A-TTCAGAGTCA
65 GACCGCTGCTTGTCAACAACAACTTCTCAATTTCAGAGCCA
* * *
19645 ATTTCAACTTCACAGCGAAGGATATTGGAC-TCAAGACAACACAAGTTCAACTTCACAACGAAGG
1 ATTTCAACTTCACAACGAAGGATATTGGACTTC-AGACAACGCAAGTTCAACTTCACGACGAAGG
** * * * ** * *
19709 GATGGCTGGTTGTCAACAAACAATTTCCCGGTTCCAGAGCTA
65 GACCGCTGCTTGTCAAC-AACAACTTCTCAATTTCAGAGCCA
* *
19751 ATTTCAACTTCACGACGGAGGATATTGGACT
1 ATTTCAACTTCACAACGAAGGATATTGGACT
19782 CGGAACAATG
Statistics
Matches: 709, Mismatches: 42, Indels: 23
0.92 0.05 0.03
Matches are distributed among these distances:
99 1 0.00
100 76 0.11
101 5 0.01
102 3 0.00
103 4 0.01
104 5 0.01
105 555 0.78
106 39 0.06
108 21 0.03
ACGTcount: A:0.33, C:0.26, G:0.18, T:0.23
Consensus pattern (105 bp):
ATTTCAACTTCACAACGAAGGATATTGGACTTCAGACAACGCAAGTTCAACTTCACGACGAAGGG
ACCGCTGCTTGTCAACAACAACTTCTCAATTTCAGAGCCA
Found at i:20378 original size:37 final size:37
Alignment explanation
Indices: 20325--20429 Score: 138
Period size: 37 Copynumber: 2.8 Consensus size: 37
20315 CATTTTCGTC
20325 CTACTAGGATTCAAACTCCTAAAAATAGGATAAAATT
1 CTACTAGGATTCAAACTCCTAAAAATAGGATAAAATT
* * * *
20362 TTGCTAGGATTCAAACTCCTAAAAATAGGATAGAGTT
1 CTACTAGGATTCAAACTCCTAAAAATAGGATAAAATT
* * * *
20399 CTACTAAGATTTAAATTCCTAAAGATAGGAT
1 CTACTAGGATTCAAACTCCTAAAAATAGGAT
20430 CCACAAGCAC
Statistics
Matches: 58, Mismatches: 10, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
37 58 1.00
ACGTcount: A:0.42, C:0.14, G:0.14, T:0.30
Consensus pattern (37 bp):
CTACTAGGATTCAAACTCCTAAAAATAGGATAAAATT
Found at i:20824 original size:18 final size:17
Alignment explanation
Indices: 20785--20827 Score: 61
Period size: 18 Copynumber: 2.5 Consensus size: 17
20775 ATTATATGGA
20785 TATT-TTATTCATTTAT
1 TATTATTATTCATTTAT
*
20801 TTTTATTATTCATGTTAT
1 TATTATTATTCAT-TTAT
20819 TATTATTAT
1 TATTATTAT
20828 ATGTATATAT
Statistics
Matches: 23, Mismatches: 2, Indels: 2
0.85 0.07 0.07
Matches are distributed among these distances:
16 3 0.13
17 8 0.35
18 12 0.52
ACGTcount: A:0.26, C:0.05, G:0.02, T:0.67
Consensus pattern (17 bp):
TATTATTATTCATTTAT
Found at i:21326 original size:9 final size:9
Alignment explanation
Indices: 21305--21338 Score: 52
Period size: 9 Copynumber: 3.8 Consensus size: 9
21295 ATTTTTTTTC
21305 TTTATCTTA-
1 TTTAT-TTAT
21314 TTTATTTAT
1 TTTATTTAT
21323 TTTATTTAT
1 TTTATTTAT
21332 TTTATTT
1 TTTATTT
21339 TTCCCTTTTA
Statistics
Matches: 24, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
8 3 0.12
9 21 0.88
ACGTcount: A:0.21, C:0.03, G:0.00, T:0.76
Consensus pattern (9 bp):
TTTATTTAT
Found at i:21327 original size:13 final size:13
Alignment explanation
Indices: 21294--21339 Score: 56
Period size: 13 Copynumber: 3.5 Consensus size: 13
21284 ATTACTTTAC
* *
21294 TATTTTTTTTCTT
1 TATTTTATTTATT
*
21307 TATCTTATTTATT
1 TATTTTATTTATT
21320 TATTTTATTTATTT
1 TATTTTATTTA-TT
21334 TATTTT
1 TATTTT
21340 TCCCTTTTAC
Statistics
Matches: 28, Mismatches: 4, Indels: 1
0.85 0.12 0.03
Matches are distributed among these distances:
13 20 0.71
14 8 0.29
ACGTcount: A:0.17, C:0.04, G:0.00, T:0.78
Consensus pattern (13 bp):
TATTTTATTTATT
Found at i:22044 original size:28 final size:28
Alignment explanation
Indices: 22013--22075 Score: 117
Period size: 28 Copynumber: 2.2 Consensus size: 28
22003 ACATTTTTTA
22013 TATCATTTTCAGTTGATAATCGAAAATG
1 TATCATTTTCAGTTGATAATCGAAAATG
*
22041 TATCATTTTCAGTTGGTAATCGAAAATG
1 TATCATTTTCAGTTGATAATCGAAAATG
22069 TATCATT
1 TATCATT
22076 ATGCAAAAAA
Statistics
Matches: 34, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
28 34 1.00
ACGTcount: A:0.33, C:0.11, G:0.14, T:0.41
Consensus pattern (28 bp):
TATCATTTTCAGTTGATAATCGAAAATG
Found at i:25486 original size:23 final size:23
Alignment explanation
Indices: 25421--25553 Score: 186
Period size: 23 Copynumber: 5.9 Consensus size: 23
25411 CAGCTCATAA
*
25421 TTTGCACCGAAGTGCCACATA-A
1 TTTGCACCGAAGTGCCACATAGG
*
25443 TTAT-C-CCTAAG-GACCACATAGG
1 TT-TGCACCGAAGTG-CCACATAGG
25465 TTTGCACCGAAGTGCCACATAGG
1 TTTGCACCGAAGTGCCACATAGG
25488 TTTGCACCGAAGTGCCACATAGG
1 TTTGCACCGAAGTGCCACATAGG
25511 TTTGCACCGAAGTGCCACATAGG
1 TTTGCACCGAAGTGCCACATAGG
*
25534 -TTGCATCGAAGTGCCACATA
1 TTTGCACCGAAGTGCCACATA
25554 TTTTTCCCGA
Statistics
Matches: 101, Mismatches: 4, Indels: 12
0.86 0.03 0.10
Matches are distributed among these distances:
20 1 0.01
21 13 0.13
22 25 0.25
23 61 0.60
24 1 0.01
ACGTcount: A:0.29, C:0.26, G:0.23, T:0.23
Consensus pattern (23 bp):
TTTGCACCGAAGTGCCACATAGG
Found at i:25571 original size:21 final size:21
Alignment explanation
Indices: 25559--25598 Score: 71
Period size: 21 Copynumber: 1.9 Consensus size: 21
25549 ACATATTTTT
25559 CCCGAAGAACCACATAATTGC
1 CCCGAAGAACCACATAATTGC
*
25580 CCCGAAGGACCACATAATT
1 CCCGAAGAACCACATAATT
25599 ATTCTGAAGG
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
21 18 1.00
ACGTcount: A:0.38, C:0.33, G:0.15, T:0.15
Consensus pattern (21 bp):
CCCGAAGAACCACATAATTGC
Found at i:27532 original size:17 final size:17
Alignment explanation
Indices: 27510--27556 Score: 94
Period size: 17 Copynumber: 2.8 Consensus size: 17
27500 TTTCGGTTCA
27510 GTTCGGGTTTTTTAACG
1 GTTCGGGTTTTTTAACG
27527 GTTCGGGTTTTTTAACG
1 GTTCGGGTTTTTTAACG
27544 GTTCGGGTTTTTT
1 GTTCGGGTTTTTT
27557 GGTTCGATTC
Statistics
Matches: 30, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
17 30 1.00
ACGTcount: A:0.09, C:0.11, G:0.30, T:0.51
Consensus pattern (17 bp):
GTTCGGGTTTTTTAACG
Found at i:32863 original size:22 final size:22
Alignment explanation
Indices: 32838--32879 Score: 84
Period size: 22 Copynumber: 1.9 Consensus size: 22
32828 AACTTGTAAT
32838 TTGCACCGAAGTGCCACATAGG
1 TTGCACCGAAGTGCCACATAGG
32860 TTGCACCGAAGTGCCACATA
1 TTGCACCGAAGTGCCACATA
32880 TTTGTCTCGA
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
22 20 1.00
ACGTcount: A:0.29, C:0.29, G:0.24, T:0.19
Consensus pattern (22 bp):
TTGCACCGAAGTGCCACATAGG
Found at i:33970 original size:25 final size:25
Alignment explanation
Indices: 33942--33989 Score: 60
Period size: 25 Copynumber: 1.9 Consensus size: 25
33932 AAAAGCTACT
*
33942 CCATATCAAAATTTCATTTCTAAAC
1 CCATATCAAAATTTCATCTCTAAAC
* * *
33967 CCATTTTACAATTTCATCTCTAA
1 CCATATCAAAATTTCATCTCTAA
33990 TTTACTTTTC
Statistics
Matches: 19, Mismatches: 4, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
25 19 1.00
ACGTcount: A:0.35, C:0.25, G:0.00, T:0.40
Consensus pattern (25 bp):
CCATATCAAAATTTCATCTCTAAAC
Found at i:34747 original size:18 final size:19
Alignment explanation
Indices: 34713--34748 Score: 56
Period size: 19 Copynumber: 1.9 Consensus size: 19
34703 TATGAAATCC
34713 AATTTGATTAGAAGTAGAA
1 AATTTGATTAGAAGTAGAA
*
34732 AATTTTATTA-AAGTAGA
1 AATTTGATTAGAAGTAGA
34749 TTTCTAATTT
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
18 7 0.44
19 9 0.56
ACGTcount: A:0.47, C:0.00, G:0.17, T:0.36
Consensus pattern (19 bp):
AATTTGATTAGAAGTAGAA
Found at i:36631 original size:6 final size:6
Alignment explanation
Indices: 36622--36647 Score: 52
Period size: 6 Copynumber: 4.3 Consensus size: 6
36612 ATCTTCTTCT
36622 TCGTCA TCGTCA TCGTCA TCGTCA TC
1 TCGTCA TCGTCA TCGTCA TCGTCA TC
36648 AAAGCCTTGA
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 20 1.00
ACGTcount: A:0.15, C:0.35, G:0.15, T:0.35
Consensus pattern (6 bp):
TCGTCA
Found at i:38761 original size:2 final size:2
Alignment explanation
Indices: 38754--38793 Score: 80
Period size: 2 Copynumber: 20.0 Consensus size: 2
38744 ATAATAAACC
38754 AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG
1 AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG
38794 CTTTGTCGTT
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:0.50, T:0.00
Consensus pattern (2 bp):
AG
Found at i:43393 original size:2 final size:2
Alignment explanation
Indices: 43386--43412 Score: 54
Period size: 2 Copynumber: 13.5 Consensus size: 2
43376 CATATAAATT
43386 TA TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA T
43413 GGATAAAAGA
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 25 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Found at i:44898 original size:18 final size:18
Alignment explanation
Indices: 44855--44930 Score: 102
Period size: 18 Copynumber: 4.3 Consensus size: 18
44845 TAAAATAAAC
44855 TAGCATGCTTAAATGAAT
1 TAGCATGCTTAAATGAAT
*
44873 TA-CATGCTTAAATGAAG
1 TAGCATGCTTAAATGAAT
*
44890 TAGCATGCTTAAATGAAC
1 TAGCATGCTTAAATGAAT
*
44908 TA-CATGCTTTAGATGAAT
1 TAGCATGC-TTAAATGAAT
44926 TAGCA
1 TAGCA
44931 ATCTTATTTA
Statistics
Matches: 51, Mismatches: 4, Indels: 5
0.85 0.07 0.08
Matches are distributed among these distances:
17 21 0.41
18 28 0.55
19 2 0.04
ACGTcount: A:0.38, C:0.13, G:0.17, T:0.32
Consensus pattern (18 bp):
TAGCATGCTTAAATGAAT
Found at i:44898 original size:35 final size:36
Alignment explanation
Indices: 44855--44930 Score: 118
Period size: 35 Copynumber: 2.1 Consensus size: 36
44845 TAAAATAAAC
*
44855 TAGCATGCTTAAATGAATTACATGC-TTAAATGAAG
1 TAGCATGCTTAAATGAACTACATGCTTTAAATGAAG
* *
44890 TAGCATGCTTAAATGAACTACATGCTTTAGATGAAT
1 TAGCATGCTTAAATGAACTACATGCTTTAAATGAAG
44926 TAGCA
1 TAGCA
44931 ATCTTATTTA
Statistics
Matches: 37, Mismatches: 3, Indels: 1
0.90 0.07 0.02
Matches are distributed among these distances:
35 24 0.65
36 13 0.35
ACGTcount: A:0.38, C:0.13, G:0.17, T:0.32
Consensus pattern (36 bp):
TAGCATGCTTAAATGAACTACATGCTTTAAATGAAG
Found at i:56351 original size:47 final size:47
Alignment explanation
Indices: 56300--56397 Score: 187
Period size: 47 Copynumber: 2.1 Consensus size: 47
56290 TTAATATGCT
56300 TTACCTTAAAATTTATTTTCAGATTCAAATCCTCTATTTCATTTATA
1 TTACCTTAAAATTTATTTTCAGATTCAAATCCTCTATTTCATTTATA
*
56347 TTACCTTCAAATTTATTTTCAGATTCAAATCCTCTATTTCATTTATA
1 TTACCTTAAAATTTATTTTCAGATTCAAATCCTCTATTTCATTTATA
56394 TTAC
1 TTAC
56398 TATTTCTATT
Statistics
Matches: 50, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
47 50 1.00
ACGTcount: A:0.31, C:0.18, G:0.02, T:0.49
Consensus pattern (47 bp):
TTACCTTAAAATTTATTTTCAGATTCAAATCCTCTATTTCATTTATA
Found at i:56750 original size:15 final size:15
Alignment explanation
Indices: 56730--56759 Score: 60
Period size: 15 Copynumber: 2.0 Consensus size: 15
56720 TATTTCACCC
56730 TTTTATTATTATTAT
1 TTTTATTATTATTAT
56745 TTTTATTATTATTAT
1 TTTTATTATTATTAT
56760 ACAATTTAAG
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:0.00, G:0.00, T:0.73
Consensus pattern (15 bp):
TTTTATTATTATTAT
Found at i:56808 original size:23 final size:24
Alignment explanation
Indices: 56775--56831 Score: 71
Period size: 23 Copynumber: 2.4 Consensus size: 24
56765 TTAAGTAGAA
* * *
56775 AATATTGAAAGCTTTAAATTATTT
1 AATATTTAAAGATTTAAAGTATTT
*
56799 AAT-TTTAAAGATTTGAAGTATTT
1 AATATTTAAAGATTTAAAGTATTT
56822 AATATTTAAA
1 AATATTTAAA
56832 CTAAAAAAAT
Statistics
Matches: 28, Mismatches: 4, Indels: 2
0.82 0.12 0.06
Matches are distributed among these distances:
23 19 0.68
24 9 0.32
ACGTcount: A:0.44, C:0.02, G:0.09, T:0.46
Consensus pattern (24 bp):
AATATTTAAAGATTTAAAGTATTT
Found at i:60548 original size:29 final size:27
Alignment explanation
Indices: 60494--60557 Score: 76
Period size: 29 Copynumber: 2.3 Consensus size: 27
60484 TGATTCTCAT
*
60494 AAAATAATATTTTTTTTTAAAATTAAG
1 AAAATAATATTTTTTTTTAAAATTAAA
*
60521 TAAATAAT-TTTTAATTTTTAATAATTAAA
1 AAAATAATATTTT--TTTTTAA-AATTAAA
60550 AAAATAAT
1 AAAATAAT
60558 GAAACTCGTC
Statistics
Matches: 31, Mismatches: 3, Indels: 4
0.82 0.08 0.11
Matches are distributed among these distances:
26 4 0.13
27 7 0.23
28 7 0.23
29 13 0.42
ACGTcount: A:0.52, C:0.00, G:0.02, T:0.47
Consensus pattern (27 bp):
AAAATAATATTTTTTTTTAAAATTAAA
Found at i:62873 original size:12 final size:13
Alignment explanation
Indices: 62849--62877 Score: 51
Period size: 12 Copynumber: 2.3 Consensus size: 13
62839 ATTATTAAAT
62849 TTTTAATAAATTA
1 TTTTAATAAATTA
62862 TTTTAA-AAATTA
1 TTTTAATAAATTA
62874 TTTT
1 TTTT
62878 TTAATATGAA
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
12 10 0.62
13 6 0.38
ACGTcount: A:0.41, C:0.00, G:0.00, T:0.59
Consensus pattern (13 bp):
TTTTAATAAATTA
Found at i:62878 original size:13 final size:14
Alignment explanation
Indices: 62847--62883 Score: 51
Period size: 14 Copynumber: 2.7 Consensus size: 14
62837 TTATTATTAA
62847 ATTTTTAATAAATT
1 ATTTTTAATAAATT
62861 A-TTTTAA-AAATT
1 ATTTTTAATAAATT
62873 ATTTTTTAATA
1 A-TTTTTAATA
62884 TGAAATTCGA
Statistics
Matches: 20, Mismatches: 0, Indels: 5
0.80 0.00 0.20
Matches are distributed among these distances:
12 6 0.30
13 6 0.30
14 7 0.35
15 1 0.05
ACGTcount: A:0.43, C:0.00, G:0.00, T:0.57
Consensus pattern (14 bp):
ATTTTTAATAAATT
Found at i:63724 original size:7 final size:7
Alignment explanation
Indices: 63712--63787 Score: 152
Period size: 7 Copynumber: 10.9 Consensus size: 7
63702 AAATCCATCT
63712 CTTCTTC
1 CTTCTTC
63719 CTTCTTC
1 CTTCTTC
63726 CTTCTTC
1 CTTCTTC
63733 CTTCTTC
1 CTTCTTC
63740 CTTCTTC
1 CTTCTTC
63747 CTTCTTC
1 CTTCTTC
63754 CTTCTTC
1 CTTCTTC
63761 CTTCTTC
1 CTTCTTC
63768 CTTCTTC
1 CTTCTTC
63775 CTTCTTC
1 CTTCTTC
63782 CTTCTT
1 CTTCTT
63788 TTCGATTTTT
Statistics
Matches: 69, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 69 1.00
ACGTcount: A:0.00, C:0.42, G:0.00, T:0.58
Consensus pattern (7 bp):
CTTCTTC
Found at i:82031 original size:14 final size:14
Alignment explanation
Indices: 82012--82043 Score: 55
Period size: 14 Copynumber: 2.3 Consensus size: 14
82002 TCAATGCACC
82012 CATTGCCCTCCACA
1 CATTGCCCTCCACA
*
82026 CATTGCCCTGCACA
1 CATTGCCCTCCACA
82040 CATT
1 CATT
82044 AGGAAGTCGC
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
14 17 1.00
ACGTcount: A:0.22, C:0.44, G:0.09, T:0.25
Consensus pattern (14 bp):
CATTGCCCTCCACA
Found at i:83869 original size:83 final size:83
Alignment explanation
Indices: 83730--83976 Score: 381
Period size: 83 Copynumber: 3.0 Consensus size: 83
83720 AGAATTTCGA
* *
83730 GAGAGTTTTACTCCAGCTAAAACTCTTTTAATATATAAATTTAAACATATAATAATATCTTTTAA
1 GAGAGTTTTACTCCAACTAAAACTCTTTTAATATCTAAATTTAAACATATAATAATATCTTTTAA
*
83795 ATTTAAAATATTAAATTT
66 ATTTAAAATATTAAATAT
* *
83813 GAGAGTTTTAATCTAACTAAAACTCTTTTAATATCTAAATTTAAACATATAATAATATCTTTTAA
1 GAGAGTTTTACTCCAACTAAAACTCTTTTAATATCTAAATTTAAACATATAATAATATCTTTTAA
** *
83878 ATTTAAAACGTTAAACAT
66 ATTTAAAATATTAAATAT
* *
83896 GAGAGTTTTACTCCAACCATAACTCTTTTAATGA-CTAAATTTAAACATATAATAATATCTTTTA
1 GAGAGTTTTACTCCAACTAAAACTCTTTTAAT-ATCTAAATTTAAACATATAATAATATCTTTTA
83960 AATTT-AAATATTAAATA
65 AATTTAAAATATTAAATA
83977 AATATTTCTT
Statistics
Matches: 148, Mismatches: 15, Indels: 3
0.89 0.09 0.02
Matches are distributed among these distances:
82 9 0.06
83 138 0.93
84 1 0.01
ACGTcount: A:0.44, C:0.11, G:0.05, T:0.40
Consensus pattern (83 bp):
GAGAGTTTTACTCCAACTAAAACTCTTTTAATATCTAAATTTAAACATATAATAATATCTTTTAA
ATTTAAAATATTAAATAT
Found at i:83991 original size:34 final size:34
Alignment explanation
Indices: 83953--84020 Score: 86
Period size: 34 Copynumber: 2.0 Consensus size: 34
83943 TATAATAATA
83953 TCTTTTAA-ATTTAAATATTAAATAAATATT-TCTT
1 TCTTTTAATA-TTAAA-ATTAAATAAATATTATCTT
* *
83987 TCTTTTATTATTCAAATTAAATAAATATTATCTT
1 TCTTTTAATATTAAAATTAAATAAATATTATCTT
84021 AATTTGAAAT
Statistics
Matches: 30, Mismatches: 2, Indels: 4
0.83 0.06 0.11
Matches are distributed among these distances:
33 14 0.47
34 15 0.50
35 1 0.03
ACGTcount: A:0.40, C:0.07, G:0.00, T:0.53
Consensus pattern (34 bp):
TCTTTTAATATTAAAATTAAATAAATATTATCTT
Found at i:85465 original size:18 final size:18
Alignment explanation
Indices: 85438--85472 Score: 61
Period size: 18 Copynumber: 1.9 Consensus size: 18
85428 ATTTTACACT
85438 TAGGGAACCGATTCCCCA
1 TAGGGAACCGATTCCCCA
*
85456 TAGGGTACCGATTCCCC
1 TAGGGAACCGATTCCCC
85473 CCACGCTCCA
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
18 16 1.00
ACGTcount: A:0.23, C:0.34, G:0.23, T:0.20
Consensus pattern (18 bp):
TAGGGAACCGATTCCCCA
Found at i:89913 original size:17 final size:17
Alignment explanation
Indices: 89891--89929 Score: 78
Period size: 17 Copynumber: 2.3 Consensus size: 17
89881 AACGGTCAAC
89891 GGTCAACGGTCGGGTCG
1 GGTCAACGGTCGGGTCG
89908 GGTCAACGGTCGGGTCG
1 GGTCAACGGTCGGGTCG
89925 GGTCA
1 GGTCA
89930 GACCGGTCAA
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
17 22 1.00
ACGTcount: A:0.13, C:0.23, G:0.46, T:0.18
Consensus pattern (17 bp):
GGTCAACGGTCGGGTCG
Found at i:89991 original size:19 final size:19
Alignment explanation
Indices: 89927--90023 Score: 108
Period size: 19 Copynumber: 5.1 Consensus size: 19
89917 TCGGGTCGGG
*
89927 TCAGACCGGTCAAACAGGT
1 TCAGACCGGTCAAACCGGT
*
89946 TCAGACCGGTCAAAACGGT
1 TCAGACCGGTCAAACCGGT
89965 TCAGACCGGTCAAACCGGT
1 TCAGACCGGTCAAACCGGT
*
89984 TC-GAACCGGTTGAAACCGG-
1 TCAG-ACCGG-TCAAACCGGT
* *
90003 TCAAACTGGTCAGAACCGGT
1 TCAGACCGGTCA-AACCGGT
90023 T
1 T
90024 AAACCGATTT
Statistics
Matches: 66, Mismatches: 7, Indels: 9
0.80 0.09 0.11
Matches are distributed among these distances:
18 3 0.05
19 54 0.82
20 9 0.14
ACGTcount: A:0.29, C:0.27, G:0.27, T:0.18
Consensus pattern (19 bp):
TCAGACCGGTCAAACCGGT
Found at i:90001 original size:29 final size:28
Alignment explanation
Indices: 89925--90029 Score: 99
Period size: 29 Copynumber: 3.7 Consensus size: 28
89915 GGTCGGGTCG
* * *
89925 GGTCAG-ACCGGTCAAACAGGTTCAGACC
1 GGTCAGAACCGGTTAAACCGG-TCAAACC
* *
89953 GGTCA-AAACGGTTCAGACCGGTCAAACC
1 GGTCAGAACCGGTT-AAACCGGTCAAACC
*
89981 GGTTC-GAACCGGTTGAAACCGGTCAAACT
1 GG-TCAGAACCGGTT-AAACCGGTCAAACC
90010 GGTCAGAACCGGTTAAACCG
1 GGTCAGAACCGGTTAAACCG
90030 ATTTCCAGCA
Statistics
Matches: 63, Mismatches: 9, Indels: 10
0.77 0.11 0.12
Matches are distributed among these distances:
28 26 0.41
29 37 0.59
ACGTcount: A:0.30, C:0.27, G:0.28, T:0.16
Consensus pattern (28 bp):
GGTCAGAACCGGTTAAACCGGTCAAACC
Found at i:97227 original size:17 final size:17
Alignment explanation
Indices: 97207--97243 Score: 65
Period size: 17 Copynumber: 2.2 Consensus size: 17
97197 AAGTCAACGA
97207 TCAACGGTCGAGTCGGG
1 TCAACGGTCGAGTCGGG
*
97224 TCAACGGTCGGGTCGGG
1 TCAACGGTCGAGTCGGG
97241 TCA
1 TCA
97244 GGTCAATGGT
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
17 19 1.00
ACGTcount: A:0.16, C:0.24, G:0.41, T:0.19
Consensus pattern (17 bp):
TCAACGGTCGAGTCGGG
Found at i:97247 original size:22 final size:22
Alignment explanation
Indices: 97212--97266 Score: 83
Period size: 22 Copynumber: 2.5 Consensus size: 22
97202 AACGATCAAC
* *
97212 GGTCGAGTCGGGTCAACGGTCG
1 GGTCGGGTCAGGTCAACGGTCG
*
97234 GGTCGGGTCAGGTCAATGGTCG
1 GGTCGGGTCAGGTCAACGGTCG
97256 GGTCGGGTCAG
1 GGTCGGGTCAG
97267 ACCGGTCAAA
Statistics
Matches: 30, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
22 30 1.00
ACGTcount: A:0.13, C:0.20, G:0.47, T:0.20
Consensus pattern (22 bp):
GGTCGGGTCAGGTCAACGGTCG
Found at i:97279 original size:9 final size:9
Alignment explanation
Indices: 97261--97359 Score: 72
Period size: 9 Copynumber: 10.3 Consensus size: 9
97251 GGTCGGGTCG
*
97261 GGTCAGACC
1 GGTCAAACC
97270 GGTCAAACC
1 GGTCAAACC
*
97279 GGTTCAGACC
1 GG-TCAAACC
*
97289 GGTCAAAAC
1 GGTCAAACC
*
97298 GGTTCAGACC
1 GG-TCAAACC
*
97308 GGTCAGACC
1 GGTCAAACC
*
97317 GGTTGAAACC
1 GG-TCAAACC
97327 GGTCAGAACC
1 GGTCA-AACC
*
97337 GGTTGAAAACC
1 GG-T-CAAACC
*
97348 GGTTAAACC
1 GGTCAAACC
97357 GGT
1 GGT
97360 TTCCAGCAGC
Statistics
Matches: 73, Mismatches: 11, Indels: 12
0.76 0.11 0.12
Matches are distributed among these distances:
9 36 0.49
10 29 0.40
11 7 0.10
12 1 0.01
ACGTcount: A:0.28, C:0.26, G:0.29, T:0.16
Consensus pattern (9 bp):
GGTCAAACC
Found at i:97285 original size:19 final size:19
Alignment explanation
Indices: 97263--97360 Score: 115
Period size: 19 Copynumber: 5.1 Consensus size: 19
97253 TCGGGTCGGG
97263 TCAGACCGGTCAAACCGGT
1 TCAGACCGGTCAAACCGGT
*
97282 TCAGACCGGTCAAAACGGT
1 TCAGACCGGTCAAACCGGT
*
97301 TCAGACCGGTCAGACCGGT
1 TCAGACCGGTCAAACCGGT
* *
97320 TGAAACCGGTCAGAACCGGT
1 TCAGACCGGTCA-AACCGGT
* * *
97340 TGAAAACCGGTTAAACCGGT
1 T-CAGACCGGTCAAACCGGT
97360 T
1 T
97361 TCCAGCAGCC
Statistics
Matches: 69, Mismatches: 8, Indels: 3
0.86 0.10 0.04
Matches are distributed among these distances:
19 45 0.65
20 15 0.22
21 9 0.13
ACGTcount: A:0.29, C:0.27, G:0.28, T:0.17
Consensus pattern (19 bp):
TCAGACCGGTCAAACCGGT
Found at i:97291 original size:10 final size:9
Alignment explanation
Indices: 97261--97339 Score: 77
Period size: 9 Copynumber: 8.3 Consensus size: 9
97251 GGTCGGGTCG
97261 GGTCAGACC
1 GGTCAGACC
*
97270 GGTCAAACC
1 GGTCAGACC
97279 GGTTCAGACC
1 GG-TCAGACC
* *
97289 GGTCAAAAC
1 GGTCAGACC
97298 GGTTCAGACC
1 GG-TCAGACC
97308 GGTCAGACC
1 GGTCAGACC
* *
97317 GGTTGAAACC
1 GG-TCAGACC
97327 GGTCAGAACC
1 GGTCAG-ACC
97337 GGT
1 GGT
97340 TGAAAACCGG
Statistics
Matches: 56, Mismatches: 10, Indels: 7
0.77 0.14 0.10
Matches are distributed among these distances:
9 28 0.50
10 28 0.50
ACGTcount: A:0.27, C:0.28, G:0.30, T:0.15
Consensus pattern (9 bp):
GGTCAGACC
Found at i:110081 original size:19 final size:20
Alignment explanation
Indices: 110038--110083 Score: 67
Period size: 20 Copynumber: 2.4 Consensus size: 20
110028 GTACTATCTG
* *
110038 GAAATTAATGTTAGAGTGTT
1 GAAATTGATGTTAGAATGTT
110058 GAAATTGATGTTAGAATG-T
1 GAAATTGATGTTAGAATGTT
110077 GAAATTG
1 GAAATTG
110084 GATCATTTTG
Statistics
Matches: 24, Mismatches: 2, Indels: 1
0.89 0.07 0.04
Matches are distributed among these distances:
19 8 0.33
20 16 0.67
ACGTcount: A:0.37, C:0.00, G:0.26, T:0.37
Consensus pattern (20 bp):
GAAATTGATGTTAGAATGTT
Found at i:111734 original size:6 final size:6
Alignment explanation
Indices: 111723--111756 Score: 50
Period size: 6 Copynumber: 5.7 Consensus size: 6
111713 TGAGGTGGAG
* *
111723 TGATTC TGATTC TGATTC TAATTC TGATTT TGAT
1 TGATTC TGATTC TGATTC TGATTC TGATTC TGAT
111757 CTGGTACATT
Statistics
Matches: 25, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
6 25 1.00
ACGTcount: A:0.21, C:0.12, G:0.15, T:0.53
Consensus pattern (6 bp):
TGATTC
Found at i:111994 original size:16 final size:16
Alignment explanation
Indices: 111973--112003 Score: 62
Period size: 16 Copynumber: 1.9 Consensus size: 16
111963 ATTATCATGG
111973 TTTTGACAAAATCATC
1 TTTTGACAAAATCATC
111989 TTTTGACAAAATCAT
1 TTTTGACAAAATCAT
112004 GAGATGATGA
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 15 1.00
ACGTcount: A:0.39, C:0.16, G:0.06, T:0.39
Consensus pattern (16 bp):
TTTTGACAAAATCATC
Found at i:112354 original size:6 final size:6
Alignment explanation
Indices: 112345--112369 Score: 50
Period size: 6 Copynumber: 4.2 Consensus size: 6
112335 GATATATAGT
112345 TATAAA TATAAA TATAAA TATAAA T
1 TATAAA TATAAA TATAAA TATAAA T
112370 CTAAGATATG
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 19 1.00
ACGTcount: A:0.64, C:0.00, G:0.00, T:0.36
Consensus pattern (6 bp):
TATAAA
Found at i:115598 original size:8 final size:7
Alignment explanation
Indices: 115581--115633 Score: 52
Period size: 8 Copynumber: 7.0 Consensus size: 7
115571 TCATCAACCA
115581 CAAATAAT
1 CAAAT-AT
115589 CAAATCAT
1 CAAAT-AT
*
115597 CAACTAT
1 CAAATAT
115604 CAAATAAT
1 CAAAT-AT
115612 CAAATCAT
1 CAAAT-AT
*
115620 CAACTAT
1 CAAATAT
115627 CAAATAT
1 CAAATAT
115634 TAGAATCATA
Statistics
Matches: 38, Mismatches: 6, Indels: 3
0.81 0.13 0.06
Matches are distributed among these distances:
7 14 0.37
8 24 0.63
ACGTcount: A:0.53, C:0.21, G:0.00, T:0.26
Consensus pattern (7 bp):
CAAATAT
Found at i:115642 original size:23 final size:23
Alignment explanation
Indices: 115571--115632 Score: 108
Period size: 23 Copynumber: 2.7 Consensus size: 23
115561 AAGAATTGAT
*
115571 TCATCAACCA-CAAATAATCAAA
1 TCATCAACTATCAAATAATCAAA
115593 TCATCAACTATCAAATAATCAAA
1 TCATCAACTATCAAATAATCAAA
115616 TCATCAACTATCAAATA
1 TCATCAACTATCAAATA
115633 TTAGAATCAT
Statistics
Matches: 38, Mismatches: 1, Indels: 1
0.95 0.03 0.03
Matches are distributed among these distances:
22 9 0.24
23 29 0.76
ACGTcount: A:0.52, C:0.24, G:0.00, T:0.24
Consensus pattern (23 bp):
TCATCAACTATCAAATAATCAAA
Found at i:121242 original size:28 final size:29
Alignment explanation
Indices: 121219--121275 Score: 89
Period size: 30 Copynumber: 2.0 Consensus size: 29
121209 TTGACCATCG
121219 AACTTTTT-TTGAATCAATCAGACCACTA
1 AACTTTTTATTGAATCAATCAGACCACTA
*
121247 AACTTTTTAATTGATTCAATCAGACCACT
1 AACTTTTT-ATTGAATCAATCAGACCACT
121276 CTTCGTTAAA
Statistics
Matches: 26, Mismatches: 1, Indels: 2
0.90 0.03 0.07
Matches are distributed among these distances:
28 8 0.31
30 18 0.69
ACGTcount: A:0.35, C:0.21, G:0.07, T:0.37
Consensus pattern (29 bp):
AACTTTTTATTGAATCAATCAGACCACTA
Found at i:121932 original size:26 final size:26
Alignment explanation
Indices: 121903--122010 Score: 198
Period size: 26 Copynumber: 4.2 Consensus size: 26
121893 GATAATAGAT
121903 TTGTGTTAGAAATGAAGATGCAAGAC
1 TTGTGTTAGAAATGAAGATGCAAGAC
121929 TTGTGTTAGAAATGAAGATGCAAGAC
1 TTGTGTTAGAAATGAAGATGCAAGAC
*
121955 TTGTGTTAGAAAAGAAGATGCAAGAC
1 TTGTGTTAGAAATGAAGATGCAAGAC
*
121981 TTGTGTTAGAAATGAAGATGCAGGAC
1 TTGTGTTAGAAATGAAGATGCAAGAC
122007 TTGT
1 TTGT
122011 AACATGTTAT
Statistics
Matches: 79, Mismatches: 3, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
26 79 1.00
ACGTcount: A:0.37, C:0.07, G:0.28, T:0.28
Consensus pattern (26 bp):
TTGTGTTAGAAATGAAGATGCAAGAC
Found at i:122561 original size:16 final size:15
Alignment explanation
Indices: 122537--122650 Score: 79
Period size: 16 Copynumber: 7.1 Consensus size: 15
122527 AACTGTAATA
122537 AAAAACAAATACAATC
1 AAAAACAAAT-CAATC
*
122553 AATAACAAATTCAAT-
1 AAAAACAAA-TCAATC
*
122568 ATAAAACAAATGCAAGC
1 A-AAAACAAAT-CAATC
*
122585 TAAAACAAAGTCAATC
1 AAAAACAAA-TCAATC
* *
122601 CAAAACAAATACGAT-
1 AAAAACAAAT-CAATC
*
122616 AAAAACAAACTCAATAA
1 AAAAACAAA-TCAAT-C
122633 AAAAACAAATGCAATC
1 AAAAACAAAT-CAATC
122649 AA
1 AA
122651 TAAGAAATTC
Statistics
Matches: 78, Mismatches: 10, Indels: 20
0.72 0.09 0.19
Matches are distributed among these distances:
15 14 0.18
16 49 0.63
17 15 0.19
ACGTcount: A:0.63, C:0.18, G:0.04, T:0.15
Consensus pattern (15 bp):
AAAAACAAATCAATC
Found at i:122577 original size:32 final size:32
Alignment explanation
Indices: 122533--122662 Score: 129
Period size: 32 Copynumber: 4.1 Consensus size: 32
122523 TCTAAACTGT
122533 AATAAAAAACAAATACAATCAATAACAAATTC
1 AATAAAAAACAAATACAATCAATAACAAATTC
* * * *
122565 AATATAAAACAAATGCAAGCTAA-AACAAAGTC
1 AATAAAAAACAAATACAATC-AATAACAAATTC
** * * *
122597 AATCCAAAACAAATACGAT-AAAAACAAACTC
1 AATAAAAAACAAATACAATCAATAACAAATTC
* *
122628 AATAAAAAAACAAATGCAATCAATAAGAAATTC
1 AAT-AAAAAACAAATACAATCAATAACAAATTC
122661 AA
1 AA
122663 CTACAACACA
Statistics
Matches: 77, Mismatches: 17, Indels: 7
0.76 0.17 0.07
Matches are distributed among these distances:
30 2 0.03
31 11 0.14
32 51 0.66
33 13 0.17
ACGTcount: A:0.63, C:0.16, G:0.05, T:0.16
Consensus pattern (32 bp):
AATAAAAAACAAATACAATCAATAACAAATTC
Found at i:123343 original size:15 final size:13
Alignment explanation
Indices: 123314--123463 Score: 126
Period size: 13 Copynumber: 11.2 Consensus size: 13
123304 AACATTAACA
123314 CAATAACAATATG
1 CAATAACAATATG
123327 CAATAACAAGTTATG
1 CAATAACAA--TATG
*
123342 CAATAACAATATT
1 CAATAACAATATG
*
123355 CAATTATTCCAATATG
1 CAA-TA--ACAATATG
123371 CAATAACAATATG
1 CAATAACAATATG
*
123384 C-ATGAGCAATATG
1 CAAT-AACAATATG
* * *
123397 TAATAACAGTATA
1 CAATAACAATATG
123410 C-ATGAACAATATG
1 CAAT-AACAATATG
*
123423 CAATAACATTATG
1 CAATAACAATATG
*
123436 CAGTAACAATATG
1 CAATAACAATATG
*
123449 TAATAA-AACTATG
1 CAATAACAA-TATG
123462 CA
1 CA
123464 TGAAGAATAT
Statistics
Matches: 109, Mismatches: 18, Indels: 20
0.74 0.12 0.14
Matches are distributed among these distances:
12 6 0.06
13 73 0.67
14 6 0.06
15 15 0.14
16 9 0.08
ACGTcount: A:0.48, C:0.15, G:0.10, T:0.27
Consensus pattern (13 bp):
CAATAACAATATG
Found at i:123380 original size:22 final size:21
Alignment explanation
Indices: 123320--123380 Score: 61
Period size: 22 Copynumber: 2.8 Consensus size: 21
123310 AACACAATAA
*
123320 CAATATGCAATAACAAGTTATG
1 CAATATGCAATAACAA-TTATC
* *
123342 CAATA-ACAATATTCAATTATTC
1 CAATATGCAATA-ACAATTA-TC
123364 CAATATGCAATAACAAT
1 CAATATGCAATAACAAT
123381 ATGCATGAGC
Statistics
Matches: 31, Mismatches: 5, Indels: 6
0.74 0.12 0.14
Matches are distributed among these distances:
21 8 0.26
22 18 0.58
23 5 0.16
ACGTcount: A:0.48, C:0.16, G:0.07, T:0.30
Consensus pattern (21 bp):
CAATATGCAATAACAATTATC
Found at i:123401 original size:26 final size:27
Alignment explanation
Indices: 123364--123476 Score: 110
Period size: 26 Copynumber: 4.3 Consensus size: 27
123354 TCAATTATTC
* *
123364 CAATATGCAATAACAATATGCATG-AG
1 CAATATGTAATAACAATATGCATGAAA
* *
123390 CAATATGTAATAACAGTATACATG-AA
1 CAATATGTAATAACAATATGCATGAAA
* * *
123416 CAATATGCAATAACATTATGCA-GTAA
1 CAATATGTAATAACAATATGCATGAAA
123442 CAATATGTAATAA-AACTATGCATG-AA
1 CAATATGTAATAACAA-TATGCATGAAA
*
123468 GAATATGTA
1 CAATATGTA
123477 TTAGCAAGTT
Statistics
Matches: 74, Mismatches: 10, Indels: 6
0.82 0.11 0.07
Matches are distributed among these distances:
25 2 0.03
26 71 0.96
27 1 0.01
ACGTcount: A:0.48, C:0.12, G:0.13, T:0.27
Consensus pattern (27 bp):
CAATATGTAATAACAATATGCATGAAA
Found at i:123430 original size:52 final size:52
Alignment explanation
Indices: 123364--123474 Score: 152
Period size: 52 Copynumber: 2.1 Consensus size: 52
123354 TCAATTATTC
* * *
123364 CAATATGCAATAACAATATGCA-TGAGCAATATGTAATAACAGTATACATGAA
1 CAATATGCAATAACAATATGCAGT-AACAATATGTAATAAAACTATACATGAA
* *
123416 CAATATGCAATAACATTATGCAGTAACAATATGTAATAAAACTATGCATGAA
1 CAATATGCAATAACAATATGCAGTAACAATATGTAATAAAACTATACATGAA
*
123468 GAATATG
1 CAATATG
123475 TATTAGCAAG
Statistics
Matches: 52, Mismatches: 6, Indels: 2
0.87 0.10 0.03
Matches are distributed among these distances:
52 51 0.98
53 1 0.02
ACGTcount: A:0.48, C:0.13, G:0.14, T:0.26
Consensus pattern (52 bp):
CAATATGCAATAACAATATGCAGTAACAATATGTAATAAAACTATACATGAA
Found at i:124269 original size:46 final size:46
Alignment explanation
Indices: 124202--124293 Score: 184
Period size: 46 Copynumber: 2.0 Consensus size: 46
124192 ATACACAAAC
124202 CAAACTAAAAGATTAGAAATCAAATTTAACATGATTTAAAATAAAT
1 CAAACTAAAAGATTAGAAATCAAATTTAACATGATTTAAAATAAAT
124248 CAAACTAAAAGATTAGAAATCAAATTTAACATGATTTAAAATAAAT
1 CAAACTAAAAGATTAGAAATCAAATTTAACATGATTTAAAATAAAT
124294 ATAATTTTAA
Statistics
Matches: 46, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
46 46 1.00
ACGTcount: A:0.57, C:0.09, G:0.07, T:0.28
Consensus pattern (46 bp):
CAAACTAAAAGATTAGAAATCAAATTTAACATGATTTAAAATAAAT
Found at i:125447 original size:30 final size:30
Alignment explanation
Indices: 125411--125483 Score: 128
Period size: 30 Copynumber: 2.4 Consensus size: 30
125401 ATCAATTTCA
*
125411 GGTTCATTAATTTCTAGCTCAGCTGGTTCT
1 GGTTCATTAATTTCTAGCTCAGCTGGTTCC
*
125441 GGTTCATTAATTTCTGGCTCAGCTGGTTCC
1 GGTTCATTAATTTCTAGCTCAGCTGGTTCC
125471 GGTTCATTAATTT
1 GGTTCATTAATTT
125484 TGGGTTCACT
Statistics
Matches: 41, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
30 41 1.00
ACGTcount: A:0.16, C:0.19, G:0.21, T:0.44
Consensus pattern (30 bp):
GGTTCATTAATTTCTAGCTCAGCTGGTTCC
Found at i:125455 original size:15 final size:15
Alignment explanation
Indices: 125437--125539 Score: 61
Period size: 15 Copynumber: 6.9 Consensus size: 15
125427 GCTCAGCTGG
125437 TTCTGGTTCATTAAT
1 TTCTGGTTCATTAAT
* * **
125452 TTCTGGCTCAGCT-GG
1 TTCTGGTTCA-TTAAT
*
125467 TTCCGGTTCATTAAT
1 TTCTGGTTCATTAAT
*
125482 TT-TGGGTTCACTAAT
1 TTCT-GGTTCATTAAT
*
125497 TTCTGGTTCA--ACT
1 TTCTGGTTCATTAAT
*
125510 GGTTCTGGTTCATCAAT
1 --TTCTGGTTCATTAAT
*
125527 TTCAGGTTCATTA
1 TTCTGGTTCATTA
125540 TGTTTAGACC
Statistics
Matches: 65, Mismatches: 15, Indels: 16
0.68 0.16 0.17
Matches are distributed among these distances:
13 2 0.03
14 1 0.02
15 58 0.89
16 2 0.03
17 2 0.03
ACGTcount: A:0.17, C:0.18, G:0.19, T:0.45
Consensus pattern (15 bp):
TTCTGGTTCATTAAT
Found at i:125490 original size:45 final size:45
Alignment explanation
Indices: 125441--125539 Score: 135
Period size: 45 Copynumber: 2.2 Consensus size: 45
125431 AGCTGGTTCT
* * **
125441 GGTTCATTAATTTCTGGCTCAGCTGGTTCCGGTTCATTAATTTTG
1 GGTTCATTAATTTCTGGCTCAACTGGTTCCGGTTCATCAATTTCA
* * *
125486 GGTTCACTAATTTCTGGTTCAACTGGTTCTGGTTCATCAATTTCA
1 GGTTCATTAATTTCTGGCTCAACTGGTTCCGGTTCATCAATTTCA
125531 GGTTCATTA
1 GGTTCATTA
125540 TGTTTAGACC
Statistics
Matches: 46, Mismatches: 8, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
45 46 1.00
ACGTcount: A:0.18, C:0.18, G:0.20, T:0.43
Consensus pattern (45 bp):
GGTTCATTAATTTCTGGCTCAACTGGTTCCGGTTCATCAATTTCA
Found at i:126242 original size:17 final size:17
Alignment explanation
Indices: 126222--126265 Score: 65
Period size: 15 Copynumber: 2.7 Consensus size: 17
126212 TTCACTAAAC
126222 ACATATATTCATGCAGA
1 ACATATATTCATGCAGA
*
126239 ACATATA--CATGCAGT
1 ACATATATTCATGCAGA
126254 ACATATATTCAT
1 ACATATATTCAT
126266 TGATTTCATG
Statistics
Matches: 24, Mismatches: 1, Indels: 4
0.83 0.03 0.14
Matches are distributed among these distances:
15 14 0.58
17 10 0.42
ACGTcount: A:0.41, C:0.18, G:0.09, T:0.32
Consensus pattern (17 bp):
ACATATATTCATGCAGA
Found at i:126380 original size:29 final size:29
Alignment explanation
Indices: 126348--126424 Score: 82
Period size: 34 Copynumber: 2.5 Consensus size: 29
126338 TAAATTATCC
126348 AAAAAAACATATCAGAACATATATTCTAT
1 AAAAAAACATATCAGAACATATATTCTAT
*
126377 AAAACAAATTATTCTATCAGAACATATATTCTAT
1 AAAA-AAA-CA---TATCAGAACATATATTCTAT
* *
126411 TAATAAACATATCA
1 AAAAAAACATATCA
126425 TTAATAAACA
Statistics
Matches: 39, Mismatches: 4, Indels: 10
0.74 0.08 0.19
Matches are distributed among these distances:
29 9 0.23
30 3 0.08
31 1 0.03
32 1 0.03
33 3 0.08
34 22 0.56
ACGTcount: A:0.52, C:0.14, G:0.03, T:0.31
Consensus pattern (29 bp):
AAAAAAACATATCAGAACATATATTCTAT
Found at i:126406 original size:17 final size:17
Alignment explanation
Indices: 126357--126410 Score: 74
Period size: 17 Copynumber: 3.2 Consensus size: 17
126347 CAAAAAAACA
126357 TATCAGAACATATATTC
1 TATCAGAACATATATTC
* *
126374 TAT-AAAACAAATTATTC
1 TATCAGAACATA-TATTC
126391 TATCAGAACATATATTC
1 TATCAGAACATATATTC
126408 TAT
1 TAT
126411 TAATAAACAT
Statistics
Matches: 31, Mismatches: 4, Indels: 4
0.79 0.10 0.10
Matches are distributed among these distances:
16 6 0.19
17 19 0.61
18 6 0.19
ACGTcount: A:0.44, C:0.15, G:0.04, T:0.37
Consensus pattern (17 bp):
TATCAGAACATATATTC
Found at i:126421 original size:19 final size:18
Alignment explanation
Indices: 126397--126440 Score: 58
Period size: 15 Copynumber: 2.6 Consensus size: 18
126387 ATTCTATCAG
126397 AACATATATTCTATTAATA
1 AACATATATTC-ATTAATA
126416 AAC--ATA-TCATTAATA
1 AACATATATTCATTAATA
126431 AACATATATT
1 AACATATATT
126441 AATCTCTAAC
Statistics
Matches: 22, Mismatches: 0, Indels: 7
0.76 0.00 0.24
Matches are distributed among these distances:
15 10 0.45
16 2 0.09
17 6 0.27
18 1 0.05
19 3 0.14
ACGTcount: A:0.50, C:0.11, G:0.00, T:0.39
Consensus pattern (18 bp):
AACATATATTCATTAATA
Found at i:126443 original size:14 final size:14
Alignment explanation
Indices: 126408--126443 Score: 63
Period size: 15 Copynumber: 2.5 Consensus size: 14
126398 ACATATATTC
126408 TATTAATAAACATA
1 TATTAATAAACATA
126422 TCATTAATAAACATA
1 T-ATTAATAAACATA
126437 TATTAAT
1 TATTAAT
126444 CTCTAACATA
Statistics
Matches: 21, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
14 7 0.33
15 14 0.67
ACGTcount: A:0.53, C:0.08, G:0.00, T:0.39
Consensus pattern (14 bp):
TATTAATAAACATA
Found at i:127108 original size:49 final size:49
Alignment explanation
Indices: 127024--127120 Score: 149
Period size: 49 Copynumber: 2.0 Consensus size: 49
127014 ATTTTTAGAA
*
127024 GAGGGAAATGAAAATGGTTTGAAGCAGAATGGGTTTTGTGCGAAAAAAT
1 GAGGGAAATGAAAATGGTTTGAAACAGAATGGGTTTTGTGCGAAAAAAT
* * * *
127073 GAGGGTAATGAAAATGGTTTGAAACCGAATTGGTTTTGTGTGAAAAAA
1 GAGGGAAATGAAAATGGTTTGAAACAGAATGGGTTTTGTGCGAAAAAA
127121 CTCATGTGTC
Statistics
Matches: 43, Mismatches: 5, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
49 43 1.00
ACGTcount: A:0.38, C:0.04, G:0.31, T:0.27
Consensus pattern (49 bp):
GAGGGAAATGAAAATGGTTTGAAACAGAATGGGTTTTGTGCGAAAAAAT
Found at i:127278 original size:27 final size:29
Alignment explanation
Indices: 127219--127289 Score: 83
Period size: 27 Copynumber: 2.5 Consensus size: 29
127209 TTAACGGGGA
* * *
127219 GTGGCCTGATTGAATCAACTAAAAGGTTTG
1 GTGGTCTGATTGATTCAAC-AAAAGGTTCG
127249 GTGGTCTGATTGATTCAA-AAAA-GTTCG
1 GTGGTCTGATTGATTCAACAAAAGGTTCG
*
127276 GTGGTCAGATTGAT
1 GTGGTCTGATTGAT
127290 AATTGACCAT
Statistics
Matches: 37, Mismatches: 4, Indels: 3
0.84 0.09 0.07
Matches are distributed among these distances:
27 17 0.46
28 4 0.11
30 16 0.43
ACGTcount: A:0.28, C:0.11, G:0.28, T:0.32
Consensus pattern (29 bp):
GTGGTCTGATTGATTCAACAAAAGGTTCG
Done.