Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: VEPZ01006721.1 Hibiscus syriacus cultivar Beakdansim tig00016821_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: 124414
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
Found at i:7655 original size:4 final size:4
Alignment explanation
Indices: 7646--7672 Score: 54
Period size: 4 Copynumber: 6.8 Consensus size: 4
7636 TCTCTTAATC
7646 TTTA TTTA TTTA TTTA TTTA TTTA TTT
1 TTTA TTTA TTTA TTTA TTTA TTTA TTT
7673 TTACTTTTTT
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
4 23 1.00
ACGTcount: A:0.22, C:0.00, G:0.00, T:0.78
Consensus pattern (4 bp):
TTTA
Found at i:8340 original size:29 final size:29
Alignment explanation
Indices: 8298--8370 Score: 128
Period size: 29 Copynumber: 2.5 Consensus size: 29
8288 GGAAATTGGC
*
8298 CTCATTTCATTGGCCAAACTAAAAACGCT
1 CTCATTTGATTGGCCAAACTAAAAACGCT
*
8327 CTCATTTGATTGGCCAAACTAAGAACGCT
1 CTCATTTGATTGGCCAAACTAAAAACGCT
8356 CTCATTTGATTGGCC
1 CTCATTTGATTGGCC
8371 GCTTAGATTT
Statistics
Matches: 42, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
29 42 1.00
ACGTcount: A:0.29, C:0.26, G:0.15, T:0.30
Consensus pattern (29 bp):
CTCATTTGATTGGCCAAACTAAAAACGCT
Found at i:9098 original size:20 final size:20
Alignment explanation
Indices: 9070--9112 Score: 52
Period size: 20 Copynumber: 2.1 Consensus size: 20
9060 TGCTTGTTTG
*
9070 TTTGTTTTTGTTGTT-TGTAT
1 TTTGATTTT-TTGTTCTGTAT
*
9090 TTTGATTTTTTTTTCTGTAT
1 TTTGATTTTTTGTTCTGTAT
9110 TTT
1 TTT
9113 TTAAAAGGCT
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
19 4 0.20
20 16 0.80
ACGTcount: A:0.07, C:0.02, G:0.14, T:0.77
Consensus pattern (20 bp):
TTTGATTTTTTGTTCTGTAT
Found at i:13794 original size:4 final size:4
Alignment explanation
Indices: 13785--13810 Score: 52
Period size: 4 Copynumber: 6.5 Consensus size: 4
13775 TGTTCGAGTT
13785 TTTA TTTA TTTA TTTA TTTA TTTA TT
1 TTTA TTTA TTTA TTTA TTTA TTTA TT
13811 ATTCTTATCA
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
4 22 1.00
ACGTcount: A:0.23, C:0.00, G:0.00, T:0.77
Consensus pattern (4 bp):
TTTA
Found at i:14682 original size:26 final size:26
Alignment explanation
Indices: 14650--14701 Score: 104
Period size: 26 Copynumber: 2.0 Consensus size: 26
14640 ATCTAGTGCC
14650 GAAAGTACACATAATACTGATACGAA
1 GAAAGTACACATAATACTGATACGAA
14676 GAAAGTACACATAATACTGATACGAA
1 GAAAGTACACATAATACTGATACGAA
14702 AATGCAACAT
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
26 26 1.00
ACGTcount: A:0.50, C:0.15, G:0.15, T:0.19
Consensus pattern (26 bp):
GAAAGTACACATAATACTGATACGAA
Found at i:23111 original size:30 final size:30
Alignment explanation
Indices: 23075--23147 Score: 128
Period size: 30 Copynumber: 2.4 Consensus size: 30
23065 CCTGAAGGAC
*
23075 CTATCCAGAGGTCATAAAGATCCTCGGTAA
1 CTATCCAGAGGTCATAAAGATCCTCGATAA
23105 CTATCCAGAGGTCATAAAGATCCTCGATAA
1 CTATCCAGAGGTCATAAAGATCCTCGATAA
*
23135 CTATCCATAGGTC
1 CTATCCAGAGGTC
23148 CCGAAGAACC
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:0.33, C:0.25, G:0.18, T:0.25
Consensus pattern (30 bp):
CTATCCAGAGGTCATAAAGATCCTCGATAA
Found at i:25377 original size:23 final size:23
Alignment explanation
Indices: 25347--25436 Score: 139
Period size: 23 Copynumber: 4.0 Consensus size: 23
25337 CGATACTCCC
25347 TTGAAGGGGAACCGATTCCCCCT
1 TTGAAGGGGAACCGATTCCCCCT
25370 TTGAAGGGGAACCGATTCCCCCT
1 TTGAAGGGGAACCGATTCCCCCT
25393 TTGAAGGGGAACCGATTCCCCC-
1 TTGAAGGGGAACCGATTCCCCCT
* * *
25415 -TGTAGGGGAATCGATACCCCCT
1 TTGAAGGGGAACCGATTCCCCCT
25437 GGGGTTCTAT
Statistics
Matches: 63, Mismatches: 3, Indels: 3
0.91 0.04 0.04
Matches are distributed among these distances:
21 18 0.29
23 45 0.71
ACGTcount: A:0.22, C:0.30, G:0.27, T:0.21
Consensus pattern (23 bp):
TTGAAGGGGAACCGATTCCCCCT
Found at i:25410 original size:46 final size:44
Alignment explanation
Indices: 25332--25436 Score: 140
Period size: 46 Copynumber: 2.4 Consensus size: 44
25322 TGGTGCAGAT
* *
25332 GGAATCGATACTCCC-TTGAAGGGGAACCGATTCCCCCTTTGAAGG
1 GGAACCGATACCCCCTTTGAAGGGGAACCGATTCCCCC--TGAAGG
* *
25377 GGAACCGATTCCCCCTTTGAAGGGGAACCGATTCCCCCTGTAGG
1 GGAACCGATACCCCCTTTGAAGGGGAACCGATTCCCCCTGAAGG
*
25421 GGAATCGATACCCCCT
1 GGAACCGATACCCCCT
25437 GGGGTTCTAT
Statistics
Matches: 53, Mismatches: 6, Indels: 3
0.85 0.10 0.05
Matches are distributed among these distances:
44 19 0.36
45 12 0.23
46 22 0.42
ACGTcount: A:0.23, C:0.30, G:0.26, T:0.21
Consensus pattern (44 bp):
GGAACCGATACCCCCTTTGAAGGGGAACCGATTCCCCCTGAAGG
Found at i:27342 original size:17 final size:16
Alignment explanation
Indices: 27313--27378 Score: 64
Period size: 16 Copynumber: 4.1 Consensus size: 16
27303 CATTTTGGAT
*
27313 ATTTTGGAATGTTTGA
1 ATTTTGGATTGTTTGA
27329 ATTTGTGGATTGTTTG-
1 ATTT-TGGATTGTTTGA
* *
27345 ACTTTGAATTTGTTTGA
1 ATTTTGGA-TTGTTTGA
27362 ATTTATGGA-TGTTTGA
1 ATTT-TGGATTGTTTGA
27378 A
1 A
27379 CTTATATTTC
Statistics
Matches: 41, Mismatches: 5, Indels: 8
0.76 0.09 0.15
Matches are distributed among these distances:
15 3 0.07
16 22 0.54
17 13 0.32
18 3 0.07
ACGTcount: A:0.23, C:0.02, G:0.24, T:0.52
Consensus pattern (16 bp):
ATTTTGGATTGTTTGA
Found at i:27824 original size:13 final size:13
Alignment explanation
Indices: 27806--27830 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
27796 AATGAATTTT
27806 AAGATTTTCTAAA
1 AAGATTTTCTAAA
27819 AAGATTTTCTAA
1 AAGATTTTCTAA
27831 GTATATTCGA
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.44, C:0.08, G:0.08, T:0.40
Consensus pattern (13 bp):
AAGATTTTCTAAA
Found at i:31858 original size:17 final size:17
Alignment explanation
Indices: 31836--31896 Score: 52
Period size: 17 Copynumber: 3.4 Consensus size: 17
31826 AATATCCTTA
31836 AGAGTTGAACTAAAGCT
1 AGAGTTGAACTAAAGCT
* *
31853 AGAGTT-ATCATAAATATCCTT
1 AGAGTTGAAC-T-AA-A-GC-T
31874 AGAGTTGAACTAAAGCT
1 AGAGTTGAACTAAAGCT
31891 AGAGTT
1 AGAGTT
31897 ATTGGCTGTA
Statistics
Matches: 34, Mismatches: 4, Indels: 12
0.68 0.08 0.24
Matches are distributed among these distances:
16 2 0.06
17 14 0.41
18 3 0.09
19 2 0.06
20 3 0.09
21 8 0.24
22 2 0.06
ACGTcount: A:0.39, C:0.11, G:0.20, T:0.30
Consensus pattern (17 bp):
AGAGTTGAACTAAAGCT
Found at i:31887 original size:21 final size:21
Alignment explanation
Indices: 31824--31887 Score: 57
Period size: 21 Copynumber: 3.2 Consensus size: 21
31814 TATCACATCA
31824 TAAATATCCTTAAGAGTTGAAC
1 TAAATATCCTT-AGAGTTGAAC
* *
31846 T-AA-A-GC-TAGAGTT-ATC
1 TAAATATCCTTAGAGTTGAAC
31862 ATAAATATCCTTAGAGTTGAAC
1 -TAAATATCCTTAGAGTTGAAC
31884 TAAA
1 TAAA
31888 GCTAGAGTTA
Statistics
Matches: 32, Mismatches: 4, Indels: 13
0.65 0.08 0.27
Matches are distributed among these distances:
16 2 0.06
17 7 0.22
18 3 0.09
19 2 0.06
20 2 0.06
21 13 0.41
22 3 0.09
ACGTcount: A:0.42, C:0.12, G:0.14, T:0.31
Consensus pattern (21 bp):
TAAATATCCTTAGAGTTGAAC
Found at i:31887 original size:38 final size:39
Alignment explanation
Indices: 31820--31898 Score: 151
Period size: 38 Copynumber: 2.1 Consensus size: 39
31810 CATGTATCAC
31820 ATCATAAATATCCTTAAGAGTTGAACTAAAGCTAGAGTT
1 ATCATAAATATCCTTAAGAGTTGAACTAAAGCTAGAGTT
31859 ATCATAAATATCCTT-AGAGTTGAACTAAAGCTAGAGTT
1 ATCATAAATATCCTTAAGAGTTGAACTAAAGCTAGAGTT
31897 AT
1 AT
31899 TGGCTGTAAC
Statistics
Matches: 40, Mismatches: 0, Indels: 1
0.98 0.00 0.02
Matches are distributed among these distances:
38 25 0.62
39 15 0.38
ACGTcount: A:0.41, C:0.13, G:0.15, T:0.32
Consensus pattern (39 bp):
ATCATAAATATCCTTAAGAGTTGAACTAAAGCTAGAGTT
Found at i:33547 original size:3 final size:3
Alignment explanation
Indices: 33539--33580 Score: 68
Period size: 3 Copynumber: 14.3 Consensus size: 3
33529 TTAATAGTAT
*
33539 TAA TAA TAA T-A TAA TAA TAA TAA TAA TAA TAT TAA TAA TAA T
1 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA T
33581 CTATTATATA
Statistics
Matches: 36, Mismatches: 2, Indels: 2
0.90 0.05 0.05
Matches are distributed among these distances:
2 2 0.06
3 34 0.94
ACGTcount: A:0.62, C:0.00, G:0.00, T:0.38
Consensus pattern (3 bp):
TAA
Found at i:34278 original size:84 final size:85
Alignment explanation
Indices: 34138--34496 Score: 433
Period size: 85 Copynumber: 4.3 Consensus size: 85
34128 ATGTGTCATC
* * * * * * *
34138 GAGCTGAACGAAATCGAACTCGATA--AT-TTT-GTTGACAGATAGCCCTTCTTGCCTTGAGCTA
1 GAGCTGAATGAAATCGAACTCGA-AGGCTCTTTGGTTGACAGATAACCCTTCTCGACTTAAGTTA
*
34199 TGCTGCAAATGATGGTGCCTTG
65 TGCTGCAAATGAT-GCGCCTTG
* * * * * * * *
34221 GAGCTGAGTGGAATCAAACTCGAAGG-TATTT-GTTGACAGATAACTCTTCTAGCCTTGAGTTAT
1 GAGCTGAATGAAATCGAACTCGAAGGCTCTTTGGTTGACAGATAACCCTTCTCGACTTAAGTTAT
34284 GCTGCAAATGATGCGCCTTG
66 GCTGCAAATGATGCGCCTTG
*
34304 GAGCTGAATGAAATCGAACTCGAAGGCTCTTTGGTTGGCAGATAACCCTTCTCGACTTAAGTTAT
1 GAGCTGAATGAAATCGAACTCGAAGGCTCTTTGGTTGACAGATAACCCTTCTCGACTTAAGTTAT
34369 GCTGCAAATGATGCGCCTTG
66 GCTGCAAATGATGCGCCTTG
*
34389 GAGCTGAATGAAATCGAACTCGAAGGCTCTTTGGTTGGCAGATAACCCTTCTCGACTTAAGTTAT
1 GAGCTGAATGAAATCGAACTCGAAGGCTCTTTGGTTGACAGATAACCCTTCTCGACTTAAGTTAT
* * *
34454 GCTGTAAATGATGTGCCCTCG
66 GCTGCAAATGATGCG-CCTTG
* * *
34475 AAGCTGAGTGTAATCGAACTCG
1 GAGCTGAATGAAATCGAACTCG
34497 GGGGTTTTCG
Statistics
Matches: 246, Mismatches: 24, Indels: 9
0.88 0.09 0.03
Matches are distributed among these distances:
82 1 0.00
83 50 0.20
84 47 0.19
85 125 0.51
86 23 0.09
ACGTcount: A:0.26, C:0.20, G:0.25, T:0.29
Consensus pattern (85 bp):
GAGCTGAATGAAATCGAACTCGAAGGCTCTTTGGTTGACAGATAACCCTTCTCGACTTAAGTTAT
GCTGCAAATGATGCGCCTTG
Found at i:34884 original size:106 final size:106
Alignment explanation
Indices: 34699--36333 Score: 2801
Period size: 106 Copynumber: 15.4 Consensus size: 106
34689 GCATTGTTCC
* * * * * **
34699 GAGTCCAATATCCTCCGTCGTGAAGTTGAAATTGGCCCTGAGATTGGGAAACTGTTTATTGACAA
1 GAGTCCAATATCCTTCGTTGTGAAGTTGAAATTGGCTCTGAAATTGAGAAGTTGTTTATTGACAA
* * *
34764 CCAGCGGTCCCTTCGTTGTGCAGTTGAACTTGCGTTGTCTA
66 CCAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTG
* *
34805 GAGTCCAATATCCTTCGTTGTGAAGTTAAAATTGGCTCTGAAATTGAGAAGTTATTTATTGACAA
1 GAGTCCAATATCCTTCGTTGTGAAGTTGAAATTGGCTCTGAAATTGAGAAGTTGTTTATTGACAA
34870 CCAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTG
66 CCAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTG
34911 GAGTCCAATATCCTTCGTTGTGAAGTTGAAATTGGCTCTGAAATTGAGAAGTTGTTTATTGACAA
1 GAGTCCAATATCCTTCGTTGTGAAGTTGAAATTGGCTCTGAAATTGAGAAGTTGTTTATTGACAA
* *
34976 CCAGCGGTCCTTTCGTCGTGAAGTTGAACTTACGTTGTCTG
66 CCAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTG
* * **
35017 GAGTCCAATATCCTTCGTTGTGAAGTTGAAATTGGCTCTAATTGGCCCTGAGATTGGGAAACTGT
1 GAGTCCAATATCCTTCGTTGTGAAGTTGAAATTGG--C----T----CTGAAATTGAGAAGTTGT
* *
35082 TTATTGACAACCAGCGGTCCCTTCGTCGTGCAGTTGAACTTGCGTTGTCTA
56 TTATTGACAACCAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTG
35133 GAGTCCAATATCCTTCGTTGTGAAGTTGAAATTGGCTCTGAAATTGAGAAGTTGTTTATTGACAA
1 GAGTCCAATATCCTTCGTTGTGAAGTTGAAATTGGCTCTGAAATTGAGAAGTTGTTTATTGACAA
35198 CCAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTG
66 CCAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTG
*
35239 GAGTCCAATATCCTTCGTTGTGAAGTTGAAATTGGCTCTGAAATTGAGAAGTTGTTTATTGAAAA
1 GAGTCCAATATCCTTCGTTGTGAAGTTGAAATTGGCTCTGAAATTGAGAAGTTGTTTATTGACAA
*
35304 CCAGCGGTCCCTTCGTCGTGAAGTTGAACTTACGTTGTCTG
66 CCAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTG
35345 GAGTCCAATATCCTTCGTTGTGAAGTTGAAATTGGCTCTGAAATTGAGAAGTTGTTTATTGACAA
1 GAGTCCAATATCCTTCGTTGTGAAGTTGAAATTGGCTCTGAAATTGAGAAGTTGTTTATTGACAA
*
35410 CCAGTGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTG
66 CCAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTG
*
35451 GAGTCCAATATCCTTCGTTGTGAAGTTGAAATTGGCTCTGAAATTGAGAAGTTGGTTATTGACAA
1 GAGTCCAATATCCTTCGTTGTGAAGTTGAAATTGGCTCTGAAATTGAGAAGTTGTTTATTGACAA
35516 CCAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTG
66 CCAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTG
35557 GAGTCCAATATCCTTCGTTGTGAAGTTGAAATTGGCTCTGAAATTGAGAAGTTGTTTATTGACAA
1 GAGTCCAATATCCTTCGTTGTGAAGTTGAAATTGGCTCTGAAATTGAGAAGTTGTTTATTGACAA
*
35622 CCAGCGGTCCCTTCGTCGTGAAGTTGAACTTACGTTGTCTG
66 CCAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTG
*
35663 GAGTCCAATATCCTTCGTTGTGAAGTTGAAATTGGCTCTGAAATTGAGAAGTTGGTTATTGACAA
1 GAGTCCAATATCCTTCGTTGTGAAGTTGAAATTGGCTCTGAAATTGAGAAGTTGTTTATTGACAA
*
35728 CCAGCGGTCCCTTCGTCGTGAAGTTGAACTTACGTTGTCTG
66 CCAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTG
* *
35769 GAATCCAATATCCTTCGTTGTGAAGTTGAAATTGGCTCT--AATCGAGAAGTTGTTTATTGACAA
1 GAGTCCAATATCCTTCGTTGTGAAGTTGAAATTGGCTCTGAAATTGAGAAGTTGTTTATTGACAA
*
35832 CCAGCGGTCCCTTCGTCGTGAAGTTGAACTTACGTTGTCTG
66 CCAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTG
*
35873 GAGTCCAATATCCTTCGTTGTGAAGTTGAAATTGGCTCTGAAATTGAGAAGTTGGTTATTGACAA
1 GAGTCCAATATCCTTCGTTGTGAAGTTGAAATTGGCTCTGAAATTGAGAAGTTGTTTATTGACAA
35938 CCAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTG
66 CCAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTG
*
35979 GAGTCCAATATCCTTCGTTGTGAAGTTGAAATTGGCTCT--AATCGAGAAGTTGTTTATTGACAA
1 GAGTCCAATATCCTTCGTTGTGAAGTTGAAATTGGCTCTGAAATTGAGAAGTTGTTTATTGACAA
*
36042 CCAGCGGTCCCTTCGTCGTGAAGTTGAACTTACGTTGTCTG
66 CCAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTG
*
36083 GAGTCCAATATCCTTCGTTGTGAAGTTGAAATTGGCTCTGAAATTGAGAAGTTGGTTATTGACAA
1 GAGTCCAATATCCTTCGTTGTGAAGTTGAAATTGGCTCTGAAATTGAGAAGTTGTTTATTGACAA
* *
36148 CCAGCAGTCTCTTCGTCGTGAAGTTGAACTTGCGTTGTCTG
66 CCAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTG
*
36189 GAGTCCAATATCCTTCGTTGTGAAGTTGAAATTGGCTCTGAAATTGAGAAGTTGGTTATTGACAA
1 GAGTCCAATATCCTTCGTTGTGAAGTTGAAATTGGCTCTGAAATTGAGAAGTTGTTTATTGACAA
* *
36254 CCAGCGGTTCCTTCGTCGTAAAGTTGAACTTGCGTTGTCTG
66 CCAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTG
36295 GAGTCCAATATCCTTCGTTGTGAAGTTGAAATTGGCTCT
1 GAGTCCAATATCCTTCGTTGTGAAGTTGAAATTGGCTCT
36334 AAAGGCTGTA
Statistics
Matches: 1456, Mismatches: 59, Indels: 28
0.94 0.04 0.02
Matches are distributed among these distances:
104 202 0.14
106 1154 0.79
108 1 0.00
110 1 0.00
112 1 0.00
114 1 0.00
116 96 0.07
ACGTcount: A:0.23, C:0.18, G:0.25, T:0.34
Consensus pattern (106 bp):
GAGTCCAATATCCTTCGTTGTGAAGTTGAAATTGGCTCTGAAATTGAGAAGTTGTTTATTGACAA
CCAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTG
Found at i:40100 original size:17 final size:17
Alignment explanation
Indices: 40078--40138 Score: 52
Period size: 17 Copynumber: 3.4 Consensus size: 17
40068 AATATCCTTA
40078 AGAGTTGAACTAAAGCT
1 AGAGTTGAACTAAAGCT
* *
40095 AGAGTT-ATCATAAATATCCTT
1 AGAGTTGAAC-T-AA-A-GC-T
40116 AGAGTTGAACTAAAGCT
1 AGAGTTGAACTAAAGCT
40133 AGAGTT
1 AGAGTT
40139 ATTGGCTGTA
Statistics
Matches: 34, Mismatches: 4, Indels: 12
0.68 0.08 0.24
Matches are distributed among these distances:
16 2 0.06
17 14 0.41
18 3 0.09
19 2 0.06
20 3 0.09
21 8 0.24
22 2 0.06
ACGTcount: A:0.39, C:0.11, G:0.20, T:0.30
Consensus pattern (17 bp):
AGAGTTGAACTAAAGCT
Found at i:40129 original size:21 final size:21
Alignment explanation
Indices: 40066--40129 Score: 57
Period size: 21 Copynumber: 3.2 Consensus size: 21
40056 TATCACATCA
40066 TAAATATCCTTAAGAGTTGAAC
1 TAAATATCCTT-AGAGTTGAAC
* *
40088 T-AA-A-GC-TAGAGTT-ATC
1 TAAATATCCTTAGAGTTGAAC
40104 ATAAATATCCTTAGAGTTGAAC
1 -TAAATATCCTTAGAGTTGAAC
40126 TAAA
1 TAAA
40130 GCTAGAGTTA
Statistics
Matches: 32, Mismatches: 4, Indels: 13
0.65 0.08 0.27
Matches are distributed among these distances:
16 2 0.06
17 7 0.22
18 3 0.09
19 2 0.06
20 2 0.06
21 13 0.41
22 3 0.09
ACGTcount: A:0.42, C:0.12, G:0.14, T:0.31
Consensus pattern (21 bp):
TAAATATCCTTAGAGTTGAAC
Found at i:40129 original size:38 final size:39
Alignment explanation
Indices: 40062--40140 Score: 151
Period size: 38 Copynumber: 2.1 Consensus size: 39
40052 CATGTATCAC
40062 ATCATAAATATCCTTAAGAGTTGAACTAAAGCTAGAGTT
1 ATCATAAATATCCTTAAGAGTTGAACTAAAGCTAGAGTT
40101 ATCATAAATATCCTT-AGAGTTGAACTAAAGCTAGAGTT
1 ATCATAAATATCCTTAAGAGTTGAACTAAAGCTAGAGTT
40139 AT
1 AT
40141 TGGCTGTAAC
Statistics
Matches: 40, Mismatches: 0, Indels: 1
0.98 0.00 0.02
Matches are distributed among these distances:
38 25 0.62
39 15 0.38
ACGTcount: A:0.41, C:0.13, G:0.15, T:0.32
Consensus pattern (39 bp):
ATCATAAATATCCTTAAGAGTTGAACTAAAGCTAGAGTT
Found at i:41792 original size:3 final size:3
Alignment explanation
Indices: 41784--41813 Score: 53
Period size: 3 Copynumber: 10.3 Consensus size: 3
41774 TTAATAGTAT
41784 TAA TAA TAA TAA TAA T-A TAA TAA TAA TAA T
1 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA T
41814 CTATTATATA
Statistics
Matches: 26, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
2 2 0.08
3 24 0.92
ACGTcount: A:0.63, C:0.00, G:0.00, T:0.37
Consensus pattern (3 bp):
TAA
Found at i:41805 original size:14 final size:14
Alignment explanation
Indices: 41786--41813 Score: 56
Period size: 14 Copynumber: 2.0 Consensus size: 14
41776 AATAGTATTA
41786 ATAATAATAATAAT
1 ATAATAATAATAAT
41800 ATAATAATAATAAT
1 ATAATAATAATAAT
41814 CTATTATATA
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 14 1.00
ACGTcount: A:0.64, C:0.00, G:0.00, T:0.36
Consensus pattern (14 bp):
ATAATAATAATAAT
Found at i:41867 original size:2 final size:2
Alignment explanation
Indices: 41842--41883 Score: 52
Period size: 2 Copynumber: 21.5 Consensus size: 2
41832 CAAAAAAAAT
*
41842 TA TA T- TA TA T- TA CTA TA AA 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
41883 T
1 T
41884 GGAAAAAAAC
Statistics
Matches: 35, Mismatches: 2, Indels: 6
0.81 0.05 0.14
Matches are distributed among these distances:
1 2 0.06
2 31 0.89
3 2 0.06
ACGTcount: A:0.48, C:0.02, G:0.00, T:0.50
Consensus pattern (2 bp):
TA
Found at i:42614 original size:18 final size:17
Alignment explanation
Indices: 42593--42638 Score: 53
Period size: 18 Copynumber: 2.8 Consensus size: 17
42583 AATACTCAAT
42593 TATATTATAATTATATAA
1 TATATTAT-ATTATATAA
42611 TATATTATTATTA-ATAA
1 TATATTA-TATTATATAA
42628 -AT-TTATATTAT
1 TATATTATATTAT
42639 TTGTTAATTT
Statistics
Matches: 26, Mismatches: 0, Indels: 7
0.79 0.00 0.21
Matches are distributed among these distances:
14 5 0.19
15 3 0.12
16 2 0.08
17 4 0.15
18 11 0.42
19 1 0.04
ACGTcount: A:0.46, C:0.00, G:0.00, T:0.54
Consensus pattern (17 bp):
TATATTATATTATATAA
Found at i:42752 original size:23 final size:23
Alignment explanation
Indices: 42725--42776 Score: 61
Period size: 23 Copynumber: 2.3 Consensus size: 23
42715 ATAATCTAAT
*
42725 AATATTTTAATAAAGA-TATTTAA
1 AATATATTAATAAAGACT-TTTAA
* *
42748 AATATATTAATTAATACTTTTAA
1 AATATATTAATAAAGACTTTTAA
42771 AATATA
1 AATATA
42777 ATATAATACT
Statistics
Matches: 25, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
23 24 0.96
24 1 0.04
ACGTcount: A:0.52, C:0.02, G:0.02, T:0.44
Consensus pattern (23 bp):
AATATATTAATAAAGACTTTTAA
Found at i:48783 original size:14 final size:14
Alignment explanation
Indices: 48764--48796 Score: 50
Period size: 14 Copynumber: 2.4 Consensus size: 14
48754 TTTGGGTAAT
48764 AATATAGTA-TTTAA
1 AATATA-TATTTTAA
48778 AATATATATTTTAA
1 AATATATATTTTAA
48792 AATAT
1 AATAT
48797 GGTCTATCTC
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
13 2 0.11
14 16 0.89
ACGTcount: A:0.52, C:0.00, G:0.03, T:0.45
Consensus pattern (14 bp):
AATATATATTTTAA
Found at i:58773 original size:16 final size:16
Alignment explanation
Indices: 58752--58806 Score: 92
Period size: 16 Copynumber: 3.4 Consensus size: 16
58742 CATTTAATAA
*
58752 ATAAACGAACACAAAC
1 ATAAACGAACACGAAC
58768 ATAAACGAACACGAAC
1 ATAAACGAACACGAAC
*
58784 ATAAATGAACACGAAC
1 ATAAACGAACACGAAC
58800 ATAAACG
1 ATAAACG
58807 TTGGAGACCC
Statistics
Matches: 36, Mismatches: 3, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
16 36 1.00
ACGTcount: A:0.58, C:0.22, G:0.11, T:0.09
Consensus pattern (16 bp):
ATAAACGAACACGAAC
Found at i:61478 original size:34 final size:34
Alignment explanation
Indices: 61435--61505 Score: 133
Period size: 34 Copynumber: 2.1 Consensus size: 34
61425 AAAAAGGTCA
61435 AAAGAAAATGTTACCAATCATATTGAAATGACTT
1 AAAGAAAATGTTACCAATCATATTGAAATGACTT
*
61469 AAAGAAAATGTTACCAATTATATTGAAATGACTT
1 AAAGAAAATGTTACCAATCATATTGAAATGACTT
61503 AAA
1 AAA
61506 CTACCTTAAA
Statistics
Matches: 36, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
34 36 1.00
ACGTcount: A:0.49, C:0.10, G:0.11, T:0.30
Consensus pattern (34 bp):
AAAGAAAATGTTACCAATCATATTGAAATGACTT
Found at i:63597 original size:26 final size:26
Alignment explanation
Indices: 63547--63598 Score: 86
Period size: 26 Copynumber: 2.0 Consensus size: 26
63537 ATATTTTCTT
* *
63547 TTTGGAAATTAAATAAAATTTTTTGC
1 TTTGGAAATTAAATAAAAATATTTGC
63573 TTTGGAAATTAAATAAAAATATTTGC
1 TTTGGAAATTAAATAAAAATATTTGC
63599 ATGCAAATTA
Statistics
Matches: 24, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
26 24 1.00
ACGTcount: A:0.42, C:0.04, G:0.12, T:0.42
Consensus pattern (26 bp):
TTTGGAAATTAAATAAAAATATTTGC
Found at i:66089 original size:19 final size:20
Alignment explanation
Indices: 66048--66096 Score: 55
Period size: 21 Copynumber: 2.4 Consensus size: 20
66038 AAACAATGAA
66048 TAAAAAATATAATAAAATATT
1 TAAAAAATATAAT-AAATATT
* *
66069 TAAAACATATAAT-AATTTT
1 TAAAAAATATAATAAATATT
66088 TAATAAAAT
1 TAA-AAAAT
66097 TTCAAATTTT
Statistics
Matches: 24, Mismatches: 3, Indels: 3
0.80 0.10 0.10
Matches are distributed among these distances:
19 8 0.33
20 4 0.17
21 12 0.50
ACGTcount: A:0.61, C:0.02, G:0.00, T:0.37
Consensus pattern (20 bp):
TAAAAAATATAATAAATATT
Found at i:66742 original size:22 final size:22
Alignment explanation
Indices: 66714--66766 Score: 106
Period size: 22 Copynumber: 2.4 Consensus size: 22
66704 TGTGTTCAGT
66714 TTGTTTATGTTCACAAACAAGC
1 TTGTTTATGTTCACAAACAAGC
66736 TTGTTTATGTTCACAAACAAGC
1 TTGTTTATGTTCACAAACAAGC
66758 TTGTTTATG
1 TTGTTTATG
66767 ATCTCGTTTA
Statistics
Matches: 31, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
22 31 1.00
ACGTcount: A:0.28, C:0.15, G:0.15, T:0.42
Consensus pattern (22 bp):
TTGTTTATGTTCACAAACAAGC
Found at i:66804 original size:19 final size:19
Alignment explanation
Indices: 66777--66813 Score: 56
Period size: 19 Copynumber: 1.9 Consensus size: 19
66767 ATCTCGTTTA
*
66777 TAAGCTCGTTTATCGATTT
1 TAAGCTCGTTTACCGATTT
*
66796 TAAGTTCGTTTACCGATT
1 TAAGCTCGTTTACCGATT
66814 CTCCTTTTCC
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
19 16 1.00
ACGTcount: A:0.22, C:0.16, G:0.16, T:0.46
Consensus pattern (19 bp):
TAAGCTCGTTTACCGATTT
Found at i:74611 original size:23 final size:22
Alignment explanation
Indices: 74581--74651 Score: 70
Period size: 23 Copynumber: 3.1 Consensus size: 22
74571 AACCCATCAA
*
74581 CAAGCATAGTCACTAAGACCCAT
1 CAAGCATAGCCACTAAG-CCCAT
* * *
74604 CAAGCATAACCACTAAGGTCCAC
1 CAAGCATAGCCACTAA-GCCCAT
* *
74627 CAAGTATAGCCACTTAGCCCAT
1 CAAGCATAGCCACTAAGCCCAT
74649 CAA
1 CAA
74652 ATAAACATCT
Statistics
Matches: 38, Mismatches: 9, Indels: 3
0.76 0.18 0.06
Matches are distributed among these distances:
22 7 0.18
23 30 0.79
24 1 0.03
ACGTcount: A:0.38, C:0.32, G:0.13, T:0.17
Consensus pattern (22 bp):
CAAGCATAGCCACTAAGCCCAT
Found at i:75839 original size:3 final size:3
Alignment explanation
Indices: 75831--75858 Score: 56
Period size: 3 Copynumber: 9.3 Consensus size: 3
75821 GAGATATTCA
75831 ATT ATT ATT ATT ATT ATT ATT ATT ATT A
1 ATT ATT ATT ATT ATT ATT ATT ATT ATT A
75859 CAATAATAAT
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 25 1.00
ACGTcount: A:0.36, C:0.00, G:0.00, T:0.64
Consensus pattern (3 bp):
ATT
Found at i:93865 original size:20 final size:19
Alignment explanation
Indices: 93821--94173 Score: 196
Period size: 20 Copynumber: 17.5 Consensus size: 19
93811 AATGACCAAC
93821 AAAATCGCAACGCGATATC-
1 AAAATCGCAACGCGAT-TCA
*
93840 AAAATCGCAACGCGATTTA
1 AAAATCGCAACGCGATTCA
* **
93859 GAAAATCGCAACGTTGA-AAA
1 -AAAATCGCAACG-CGATTCA
93879 GAAAATCGCAACG-G--TCAAAA
1 -AAAATCGCAACGCGATTC---A
93899 GAAAATCGCAACGCGATCTTCCA
1 -AAAATCGCAACGCGA--TT-CA
* * *
93922 AGAATCGCAATGCGATCCA
1 AAAATCGCAACGCGATTCA
* *
93941 AAGAATCGCAATGCGATCCA
1 AA-AATCGCAACGCGATTCA
*
93961 AAGAATCGCAATGCGATTCCA
1 AA-AATCGCAACGCGATT-CA
* * **
93982 AGAATCGCAATGCGAGCCA
1 AAAATCGCAACGCGATTCA
*
94001 AAGAATCGCAATGCGATTCCA
1 AA-AATCGCAACGCGATT-CA
* *
94022 AGAATCGCAATGCGATCTTCGA
1 AAAATCGCAACGCGA--TTC-A
*
94044 AGAATCGCAACGCGA-TCGA
1 AAAATCGCAACGCGATTC-A
94063 GAAAATCGCAACGCGATTCCA
1 -AAAATCGCAACGCGATT-CA
* *
94084 ATAATCGCAACGCGATTGA
1 AAAATCGCAACGCGATTCA
*
94103 GAAAATCGGAACGCGATTCCA
1 -AAAATCGCAACGCGATT-CA
* *
94124 AGAATCGCAACGCGATTGA
1 AAAATCGCAACGCGATTCA
* *
94143 GAAAATCTCAATGCGATTCCA
1 -AAAATCGCAACGCGATT-CA
*
94164 AGAATCGCAA
1 AAAATCGCAA
94174 AACGGCAAAA
Statistics
Matches: 274, Mismatches: 34, Indels: 51
0.76 0.09 0.14
Matches are distributed among these distances:
18 2 0.01
19 28 0.10
20 196 0.72
21 14 0.05
22 31 0.11
23 1 0.00
25 1 0.00
26 1 0.00
ACGTcount: A:0.39, C:0.24, G:0.20, T:0.16
Consensus pattern (19 bp):
AAAATCGCAACGCGATTCA
Found at i:93974 original size:40 final size:39
Alignment explanation
Indices: 93898--94173 Score: 252
Period size: 40 Copynumber: 6.8 Consensus size: 39
93888 AACGGTCAAA
* *
93898 AGAAAATCGCAACGCGATCTTCCAAGAATCGCAATGCGATCC
1 AGAAAATCGCAATGCGA---TCCAAGAATCGCAACGCGATCC
*
93940 A-AAGAATCGCAATGCGATCCAAAGAATCGCAATGCGATTCC
1 AGAA-AATCGCAATGCGATCC-AAGAATCGCAACGCGA-TCC
* * *
93981 A-AGAATCGCAATGCGAGCCAAAGAATCGCAATGCGATTCC
1 AGAAAATCGCAATGCGATCC-AAGAATCGCAACGCGA-TCC
* *
94021 A-AGAATCGCAATGCGATCTTCGAAGAATCGCAACGCGATCG
1 AGAAAATCGCAATGCGATC--C-AAGAATCGCAACGCGATCC
* * **
94062 AGAAAATCGCAACGCGATTCCAATAATCGCAACGCGATTG
1 AGAAAATCGCAATGCGA-TCCAAGAATCGCAACGCGATCC
* * **
94102 AGAAAATCGGAACGCGATTCCAAGAATCGCAACGCGATTG
1 AGAAAATCGCAATGCGA-TCCAAGAATCGCAACGCGATCC
*
94142 AGAAAATCTCAATGCGATTCCAAGAATCGCAA
1 AGAAAATCGCAATGCGA-TCCAAGAATCGCAA
94174 AACGGCAAAA
Statistics
Matches: 211, Mismatches: 16, Indels: 16
0.87 0.07 0.07
Matches are distributed among these distances:
39 3 0.01
40 153 0.73
41 11 0.05
42 42 0.20
43 2 0.01
ACGTcount: A:0.38, C:0.25, G:0.21, T:0.17
Consensus pattern (39 bp):
AGAAAATCGCAATGCGATCCAAGAATCGCAACGCGATCC
Found at i:94002 original size:60 final size:60
Alignment explanation
Indices: 93902--94173 Score: 284
Period size: 60 Copynumber: 4.5 Consensus size: 60
93892 GTCAAAAGAA
* * *
93902 AATCGCAACGCGATCTTCCAAGAATCGCAATGCGATCCAAAGAATCGCAATGCGA-TCCAAAG
1 AATCGCAATGCGA--TTCCAAGAATCGCAACGCGATCCAAAGAATCGCAACGCGATTCC-AAG
* * *
93964 AATCGCAATGCGATTCCAAGAATCGCAATGCGAGCCAAAGAATCGCAATGCGATTCCAAG
1 AATCGCAATGCGATTCCAAGAATCGCAACGCGATCCAAAGAATCGCAACGCGATTCCAAG
* * *
94024 AATCGCAATGCGATCTTCGAAGAATCGCAACGCGATCGAGAA-AATCGCAACGCGATTCCAAT
1 AATCGCAATGCGA--TTCCAAGAATCGCAACGCGATCCA-AAGAATCGCAACGCGATTCCAAG
* * * * * *
94086 AATCGCAACGCGATT-GAGAAAATCGGAACGCGATTCC-AAGAATCGCAACGCGATT-GAGAA
1 AATCGCAATGCGATTCCA-AGAATCGCAACGCGA-TCCAAAGAATCGCAACGCGATTCCA-AG
*
94146 AATCTCAATGCGATTCCAAGAATCGCAA
1 AATCGCAATGCGATTCCAAGAATCGCAA
94174 AACGGCAAAA
Statistics
Matches: 182, Mismatches: 19, Indels: 20
0.82 0.09 0.09
Matches are distributed among these distances:
59 5 0.03
60 107 0.59
61 6 0.03
62 62 0.34
63 2 0.01
ACGTcount: A:0.37, C:0.25, G:0.21, T:0.17
Consensus pattern (60 bp):
AATCGCAATGCGATTCCAAGAATCGCAACGCGATCCAAAGAATCGCAACGCGATTCCAAG
Found at i:94295 original size:6 final size:6
Alignment explanation
Indices: 94284--94364 Score: 162
Period size: 6 Copynumber: 13.5 Consensus size: 6
94274 GACACGTATT
94284 ACCACG ACCACG ACCACG ACCACG ACCACG ACCACG ACCACG ACCACG
1 ACCACG ACCACG ACCACG ACCACG ACCACG ACCACG ACCACG ACCACG
94332 ACCACG ACCACG ACCACG ACCACG ACCACG ACC
1 ACCACG ACCACG ACCACG ACCACG ACCACG ACC
94365 CGAGACGAGA
Statistics
Matches: 75, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 75 1.00
ACGTcount: A:0.33, C:0.51, G:0.16, T:0.00
Consensus pattern (6 bp):
ACCACG
Found at i:95130 original size:6 final size:6
Alignment explanation
Indices: 95119--95151 Score: 66
Period size: 6 Copynumber: 5.5 Consensus size: 6
95109 TCTCGTCTCG
95119 GGTCGT GGTCGT GGTCGT GGTCGT GGTCGT GGT
1 GGTCGT GGTCGT GGTCGT GGTCGT GGTCGT GGT
95152 AATACGTGTC
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 27 1.00
ACGTcount: A:0.00, C:0.15, G:0.52, T:0.33
Consensus pattern (6 bp):
GGTCGT
Found at i:95287 original size:20 final size:20
Alignment explanation
Indices: 95262--95391 Score: 138
Period size: 20 Copynumber: 6.4 Consensus size: 20
95252 TTTTGCCGTT
95262 TTGCGATTCTTGGAATCGCG
1 TTGCGATTCTTGGAATCGCG
** *
95282 TTGCGATT-TTCTCAATCGCA
1 TTGCGATTCTT-GGAATCGCG
*
95302 TTGCGATTCCTGGAATCGCG
1 TTGCGATTCTTGGAATCGCG
**
95322 TTGCGATT-TTCTCAATCGCG
1 TTGCGATTCTT-GGAATCGCG
* *
95342 TTGCGATTCTTTGAATCGCA
1 TTGCGATTCTTGGAATCGCG
95362 TTGCGATTCTTGGAAGATCGCG
1 TTGCGATTCTTGG-A-ATCGCG
95384 TTGCGATT
1 TTGCGATT
95392 TTCTTTTGAC
Statistics
Matches: 90, Mismatches: 14, Indels: 10
0.79 0.12 0.09
Matches are distributed among these distances:
19 3 0.03
20 70 0.78
21 4 0.04
22 13 0.14
ACGTcount: A:0.17, C:0.22, G:0.25, T:0.37
Consensus pattern (20 bp):
TTGCGATTCTTGGAATCGCG
Found at i:95309 original size:40 final size:40
Alignment explanation
Indices: 95262--95369 Score: 180
Period size: 40 Copynumber: 2.7 Consensus size: 40
95252 TTTTGCCGTT
95262 TTGCGATTCTTGGAATCGCGTTGCGATTTTCTCAATCGCA
1 TTGCGATTCTTGGAATCGCGTTGCGATTTTCTCAATCGCA
* *
95302 TTGCGATTCCTGGAATCGCGTTGCGATTTTCTCAATCGCG
1 TTGCGATTCTTGGAATCGCGTTGCGATTTTCTCAATCGCA
* *
95342 TTGCGATTCTTTGAATCGCATTGCGATT
1 TTGCGATTCTTGGAATCGCGTTGCGATT
95370 CTTGGAAGAT
Statistics
Matches: 63, Mismatches: 5, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
40 63 1.00
ACGTcount: A:0.17, C:0.22, G:0.23, T:0.38
Consensus pattern (40 bp):
TTGCGATTCTTGGAATCGCGTTGCGATTTTCTCAATCGCA
Found at i:95359 original size:60 final size:62
Alignment explanation
Indices: 95275--95395 Score: 194
Period size: 60 Copynumber: 2.0 Consensus size: 62
95265 CGATTCTTGG
95275 AATCGCGTTGCGATTTTCTCAATCGCATTGCGATTCCTGG-A-ATCGCGTTGCGATTTTCTC
1 AATCGCGTTGCGATTTTCTCAATCGCATTGCGATTCCTGGAAGATCGCGTTGCGATTTTCTC
* *
95335 AATCGCGTTGCGATTCTT-TGAATCGCATTGCGATTCTTGGAAGATCGCGTTGCGATTTTCT
1 AATCGCGTTGCGATT-TTCTCAATCGCATTGCGATTCCTGGAAGATCGCGTTGCGATTTTCT
95396 TTTGACCGTT
Statistics
Matches: 56, Mismatches: 2, Indels: 4
0.90 0.03 0.06
Matches are distributed among these distances:
60 35 0.62
61 3 0.05
62 18 0.32
ACGTcount: A:0.17, C:0.22, G:0.23, T:0.37
Consensus pattern (62 bp):
AATCGCGTTGCGATTTTCTCAATCGCATTGCGATTCCTGGAAGATCGCGTTGCGATTTTCTC
Found at i:95447 original size:20 final size:19
Alignment explanation
Indices: 95275--95453 Score: 121
Period size: 20 Copynumber: 8.9 Consensus size: 19
95265 CGATTCTTGG
95275 AATCGCGTTGCGATTTTCT
1 AATCGCGTTGCGATTTTCT
* *
95294 CAATCGCATTGCGA-TTCCT
1 -AATCGCGTTGCGATTTTCT
95313 GGAATCGCGTTGCGATTTTCT
1 --AATCGCGTTGCGATTTTCT
95334 CAATCGCGTTGCGATTCTT-T
1 -AATCGCGTTGCGATT-TTCT
* **
95354 GAATCGCATTGCGATTCTTGGA
1 -AATCGCGTTGCGATT-TT-CT
95376 AGATCGCGTTGCGATTTTCT
1 A-ATCGCGTTGCGATTTTCT
* *
95396 -TTTGACCGTTGCGATTTTCT
1 AATCG--CGTTGCGATTTTCT
** * *
95416 TTTCAACATTGCGATTTTCT
1 AATC-GCGTTGCGATTTTCT
95436 AAATCGCGTTGCGATTTT
1 -AATCGCGTTGCGATTTT
95454 TGTTTCGCAT
Statistics
Matches: 127, Mismatches: 21, Indels: 22
0.75 0.12 0.13
Matches are distributed among these distances:
18 2 0.02
19 4 0.03
20 95 0.75
21 13 0.10
22 13 0.10
ACGTcount: A:0.17, C:0.21, G:0.21, T:0.40
Consensus pattern (19 bp):
AATCGCGTTGCGATTTTCT
Found at i:100561 original size:18 final size:17
Alignment explanation
Indices: 100530--100563 Score: 59
Period size: 17 Copynumber: 1.9 Consensus size: 17
100520 CATAACTTAG
100530 TATAATTTTATATTATT
1 TATAATTTTATATTATT
100547 TATAATTTATATATTAT
1 TATAATTT-TATATTAT
100564 ATACAAATAA
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
17 8 0.50
18 8 0.50
ACGTcount: A:0.38, C:0.00, G:0.00, T:0.62
Consensus pattern (17 bp):
TATAATTTTATATTATT
Found at i:100737 original size:51 final size:48
Alignment explanation
Indices: 100695--100808 Score: 138
Period size: 49 Copynumber: 2.3 Consensus size: 48
100685 TATACTAGTA
100695 TAAGTATGTATTAAGTGATACACTTTCTTATTTTATTCACTTACACCAGTG
1 TAAGTATGTATT-AGTGATACA-TTTCTTATTTTATTCACTTACA-CAGTG
** * * *
100746 TAAGTATGGGTTATTGCTACATTTTTTATTTTATTCACTTACACAGGTG
1 TAAGTATGTATTAGTGATACATTTCTTATTTTATTCACTTACACA-GTG
*
100795 TAAGTATGTGTTAG
1 TAAGTATGTATTAG
100809 AAGAATGATT
Statistics
Matches: 55, Mismatches: 7, Indels: 4
0.83 0.11 0.06
Matches are distributed among these distances:
48 2 0.04
49 36 0.65
50 7 0.13
51 10 0.18
ACGTcount: A:0.27, C:0.12, G:0.16, T:0.45
Consensus pattern (48 bp):
TAAGTATGTATTAGTGATACATTTCTTATTTTATTCACTTACACAGTG
Found at i:100778 original size:49 final size:50
Alignment explanation
Indices: 100713--100807 Score: 149
Period size: 49 Copynumber: 1.9 Consensus size: 50
100703 TATTAAGTGA
100713 TACACTTTCTTATTTTATTCACTTACACCA-GTGTAAGTATGGGTTATTGC
1 TACACTTTCTTATTTTATTCACTTACA-CAGGTGTAAGTATGGGTTATTGC
* *
100763 TACA-TTTTTTATTTTATTCACTTACACAGGTGTAAGTATGTGTTA
1 TACACTTTCTTATTTTATTCACTTACACAGGTGTAAGTATGGGTTA
100808 GAAGAATGAT
Statistics
Matches: 42, Mismatches: 2, Indels: 3
0.89 0.04 0.06
Matches are distributed among these distances:
48 2 0.05
49 36 0.86
50 4 0.10
ACGTcount: A:0.25, C:0.15, G:0.14, T:0.46
Consensus pattern (50 bp):
TACACTTTCTTATTTTATTCACTTACACAGGTGTAAGTATGGGTTATTGC
Found at i:111595 original size:21 final size:21
Alignment explanation
Indices: 111571--111688 Score: 96
Period size: 21 Copynumber: 5.7 Consensus size: 21
111561 TATCGCAAAT
*
111571 TCGCGTTGCGATAATTGAAAA
1 TCGCGTTGCGATAGTTGAAAA
*
111592 TCGCATTGCGATAGTTGAAAA
1 TCGCGTTGCGATAGTTGAAAA
** * ** **
111613 TCGCGTTTTGAT-TTTCCATT
1 TCGCGTTGCGATAGTTGAAAA
* ** **
111633 TCGCGTTGCGAT-TTTCTATT
1 TCGCGTTGCGATAGTTGAAAA
111653 TCGCGTTGCGATAGTTGAAAA
1 TCGCGTTGCGATAGTTGAAAA
111674 TCGCGTTGCGATAGT
1 TCGCGTTGCGATAGT
111689 CTACAGTTGT
Statistics
Matches: 78, Mismatches: 18, Indels: 2
0.80 0.18 0.02
Matches are distributed among these distances:
20 32 0.41
21 46 0.59
ACGTcount: A:0.22, C:0.17, G:0.24, T:0.37
Consensus pattern (21 bp):
TCGCGTTGCGATAGTTGAAAA
Found at i:111638 original size:20 final size:20
Alignment explanation
Indices: 111622--111664 Score: 77
Period size: 20 Copynumber: 2.1 Consensus size: 20
111612 ATCGCGTTTT
111622 GATTTTCCATTTCGCGTTGC
1 GATTTTCCATTTCGCGTTGC
*
111642 GATTTTCTATTTCGCGTTGC
1 GATTTTCCATTTCGCGTTGC
111662 GAT
1 GAT
111665 AGTTGAAAAT
Statistics
Matches: 22, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
20 22 1.00
ACGTcount: A:0.12, C:0.21, G:0.21, T:0.47
Consensus pattern (20 bp):
GATTTTCCATTTCGCGTTGC
Found at i:111722 original size:19 final size:19
Alignment explanation
Indices: 111698--111838 Score: 116
Period size: 19 Copynumber: 7.5 Consensus size: 19
111688 TCTACAGTTG
111698 TCGTTGCGATTTTCCAAAT
1 TCGTTGCGATTTTCCAAAT
* * **
111717 TCGTTGCGATAGTCTACAGTT
1 TCGTTGCGAT--TTTCCAAAT
*
111738 GTCGTTGCGATTTTCTAAAT
1 -TCGTTGCGATTTTCCAAAT
111758 TCGTTGCGA------AAAT
1 TCGTTGCGATTTTCCAAAT
* *
111771 CGCGTTGCGATTTTCC-AGT
1 -TCGTTGCGATTTTCCAAAT
111790 TCGCGTTGCGATTTTCCAAAT
1 T--CGTTGCGATTTTCCAAAT
111811 TCGTTGCGATTTTCCAAAT
1 TCGTTGCGATTTTCCAAAT
111830 TCGTTGCGA
1 TCGTTGCGA
111839 AAATTCGTTG
Statistics
Matches: 96, Mismatches: 13, Indels: 26
0.71 0.10 0.19
Matches are distributed among these distances:
13 4 0.04
14 8 0.08
19 48 0.50
20 18 0.19
21 8 0.08
22 10 0.10
ACGTcount: A:0.19, C:0.21, G:0.21, T:0.39
Consensus pattern (19 bp):
TCGTTGCGATTTTCCAAAT
Found at i:111722 original size:41 final size:41
Alignment explanation
Indices: 111677--111766 Score: 171
Period size: 41 Copynumber: 2.2 Consensus size: 41
111667 TTGAAAATCG
111677 CGTTGCGATAGTCTACAGTTGTCGTTGCGATTTTCCAAATT
1 CGTTGCGATAGTCTACAGTTGTCGTTGCGATTTTCCAAATT
*
111718 CGTTGCGATAGTCTACAGTTGTCGTTGCGATTTTCTAAATT
1 CGTTGCGATAGTCTACAGTTGTCGTTGCGATTTTCCAAATT
111759 CGTTGCGA
1 CGTTGCGA
111767 AAATCGCGTT
Statistics
Matches: 48, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
41 48 1.00
ACGTcount: A:0.19, C:0.19, G:0.23, T:0.39
Consensus pattern (41 bp):
CGTTGCGATAGTCTACAGTTGTCGTTGCGATTTTCCAAATT
Found at i:111722 original size:82 final size:81
Alignment explanation
Indices: 111570--111726 Score: 192
Period size: 82 Copynumber: 1.9 Consensus size: 81
111560 CTATCGCAAA
** *
111570 TTCGCGTTGCGATAATTGAAAATCGCATTGCGATAGTTGAAAATCGCGTTTTGATTTTCCATTTC
1 TTCGCGTTGCGATAATTGAAAATCGCATTGCGATAGTTGAAAATCGCGTTGCGATTTTCCAATTC
111635 GCGTTGCGATTTTCTAT
66 -CGTTGCGATTTTCTAT
* * * * *
111652 TTCGCGTTGCGATAGTTGAAAATCGCGTTGCGATAGTCT-ACAGTTGTCGTTGCGATTTTCCAAA
1 TTCGCGTTGCGATAATTGAAAATCGCATTGCGATAGT-TGAAAATCG-CGTTGCGATTTTCC-AA
111716 TT-CGTTGCGAT
63 TTCCGTTGCGAT
111727 AGTCTACAGT
Statistics
Matches: 64, Mismatches: 8, Indels: 6
0.82 0.10 0.08
Matches are distributed among these distances:
82 48 0.75
83 13 0.20
84 3 0.05
ACGTcount: A:0.21, C:0.18, G:0.23, T:0.38
Consensus pattern (81 bp):
TTCGCGTTGCGATAATTGAAAATCGCATTGCGATAGTTGAAAATCGCGTTGCGATTTTCCAATTC
CGTTGCGATTTTCTAT
Found at i:111754 original size:22 final size:22
Alignment explanation
Indices: 111677--111748 Score: 87
Period size: 22 Copynumber: 3.4 Consensus size: 22
111667 TTGAAAATCG
111677 CGTTGCGATAGTCTACAGTTGT
1 CGTTGCGATAGTCTACAGTTGT
* * **
111699 CGTTGCGAT--TTTCCAAAT-T
1 CGTTGCGATAGTCTACAGTTGT
111718 CGTTGCGATAGTCTACAGTTGT
1 CGTTGCGATAGTCTACAGTTGT
111740 CGTTGCGAT
1 CGTTGCGAT
111749 TTTCTAAATT
Statistics
Matches: 39, Mismatches: 8, Indels: 6
0.74 0.15 0.11
Matches are distributed among these distances:
19 10 0.26
20 5 0.13
21 5 0.13
22 19 0.49
ACGTcount: A:0.18, C:0.19, G:0.25, T:0.38
Consensus pattern (22 bp):
CGTTGCGATAGTCTACAGTTGT
Found at i:111958 original size:5 final size:5
Alignment explanation
Indices: 111948--111983 Score: 56
Period size: 5 Copynumber: 7.4 Consensus size: 5
111938 GACCACGACC
*
111948 CGAGA CGAGA CGAGA CGAGA CGAGA CGGGA CG-GA CG
1 CGAGA CGAGA CGAGA CGAGA CGAGA CGAGA CGAGA CG
111984 GCGGCGGCGG
Statistics
Matches: 30, Mismatches: 1, Indels: 1
0.94 0.03 0.03
Matches are distributed among these distances:
4 4 0.13
5 26 0.87
ACGTcount: A:0.33, C:0.22, G:0.44, T:0.00
Consensus pattern (5 bp):
CGAGA
Found at i:112229 original size:22 final size:22
Alignment explanation
Indices: 112200--112253 Score: 90
Period size: 22 Copynumber: 2.5 Consensus size: 22
112190 AATTTGGAAA
112200 ATCGCAACGACAACTGTAGACT
1 ATCGCAACGACAACTGTAGACT
* *
112222 TTCGCAACAACAACTGTAGACT
1 ATCGCAACGACAACTGTAGACT
112244 ATCGCAACGA
1 ATCGCAACGA
112254 ATTTGGAAAA
Statistics
Matches: 28, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
22 28 1.00
ACGTcount: A:0.37, C:0.28, G:0.17, T:0.19
Consensus pattern (22 bp):
ATCGCAACGACAACTGTAGACT
Found at i:112302 original size:41 final size:40
Alignment explanation
Indices: 112236--112356 Score: 122
Period size: 41 Copynumber: 3.0 Consensus size: 40
112226 CAACAACAAC
*
112236 TGTAGACTATCGCAA-CGAATTTGGAAAACCGCAACGAC-AT
1 TGTAGACTATCGCAAGCGAA-ATGGAAAACCGCAACG-CGAT
*
112276 TGTAGACTATCGCAATGCGAAATGGAAAATCGCAACGCGAT
1 TGTAGACTATCGCAA-GCGAAATGGAAAACCGCAACGCGAT
* * * *
112317 TTTCA-ACTATAGCAACGCGAAATGGAAAATCGTAACGCGA
1 TGT-AGACTATCGCAA-GCGAAATGGAAAACCGCAACGCGA
112357 AATGGAAAAT
Statistics
Matches: 71, Mismatches: 6, Indels: 7
0.85 0.07 0.08
Matches are distributed among these distances:
40 16 0.23
41 50 0.70
42 5 0.07
ACGTcount: A:0.38, C:0.21, G:0.21, T:0.20
Consensus pattern (40 bp):
TGTAGACTATCGCAAGCGAAATGGAAAACCGCAACGCGAT
Found at i:112361 original size:61 final size:61
Alignment explanation
Indices: 112284--112521 Score: 271
Period size: 61 Copynumber: 3.9 Consensus size: 61
112274 ATTGTAGACT
* *
112284 ATCGCAATGCGAAATGGAAAATCGCAACGCGATTTTCAACTATAGCAACGCGAAATGGAAA
1 ATCGCAACGCGAAATGGAAAATCGCAACGCGATTTTCAACTATCGCAACGCGAAATGGAAA
* *
112345 ATCGTAACGCGAAATGGAAAATCGCAACGTGATTTTCAACTATCGCAACGCGAAATGGAAA
1 ATCGCAACGCGAAATGGAAAATCGCAACGCGATTTTCAACTATCGCAACGCGAAATGGAAA
** ** * * ** ** * ** ** *
112406 ATCGCAACGCGATTTTCAACTATAGCAACGCGAAATGGAA-AATCGCAACGCGATTTTCAACT
1 ATCGCAACGCGAAATGGAA-AATCGCAACGCGATTTTCAACTATCGCAACGCGAAATGGAA-A
112468 ATCGCAACGCGAAATGGAAAATCGCAACGCGATTTTCAACTATCGCAACGCGAA
1 ATCGCAACGCGAAATGGAAAATCGCAACGCGATTTTCAACTATCGCAACGCGAA
112522 TTTGCGATAG
Statistics
Matches: 140, Mismatches: 34, Indels: 5
0.78 0.19 0.03
Matches are distributed among these distances:
61 100 0.71
62 40 0.29
ACGTcount: A:0.38, C:0.22, G:0.20, T:0.19
Consensus pattern (61 bp):
ATCGCAACGCGAAATGGAAAATCGCAACGCGATTTTCAACTATCGCAACGCGAAATGGAAA
Found at i:112389 original size:21 final size:21
Alignment explanation
Indices: 112365--112520 Score: 138
Period size: 21 Copynumber: 7.6 Consensus size: 21
112355 GAAATGGAAA
*
112365 ATCGCAACGTGATTTTCAACT
1 ATCGCAACGCGATTTTCAACT
** ** *
112386 ATCGCAACGCGAAATGGAA-A
1 ATCGCAACGCGATTTTCAACT
112406 ATCGCAACGCGATTTTCAACT
1 ATCGCAACGCGATTTTCAACT
* ** ** *
112427 ATAGCAACGCGAAATGGAA-A
1 ATCGCAACGCGATTTTCAACT
112447 ATCGCAACGCGATTTTCAACT
1 ATCGCAACGCGATTTTCAACT
** ** *
112468 ATCGCAACGCGAAATGGAA-A
1 ATCGCAACGCGATTTTCAACT
112488 ATCGCAACGCGATTTTCAACT
1 ATCGCAACGCGATTTTCAACT
112509 ATCGCAACGCGA
1 ATCGCAACGCGA
112521 ATTTGCGATA
Statistics
Matches: 99, Mismatches: 33, Indels: 6
0.72 0.24 0.04
Matches are distributed among these distances:
20 44 0.44
21 55 0.56
ACGTcount: A:0.36, C:0.24, G:0.19, T:0.21
Consensus pattern (21 bp):
ATCGCAACGCGATTTTCAACT
Found at i:112390 original size:82 final size:82
Alignment explanation
Indices: 112325--112499 Score: 235
Period size: 82 Copynumber: 2.1 Consensus size: 82
112315 ATTTTCAACT
* * * *
112325 ATAGCAACGCGAAATGGAA-AATCGTAACGCGAAATGGAAAATCGCAACGTGATTTTCAACTATC
1 ATAGCAACGCGAAATGCAACAATAGCAACGCGAAATGGAAAATCGCAACGCGATTTTCAACTATC
*
112389 GCAACGCGAAATGGAAA
66 GCAACGCGAAATGCAAA
* ** * *
112406 ATCGCAACGCGATTTTCAACTATAGCAACGCGAAATGGAAAATCGCAACGCGATTTTCAACTATC
1 ATAGCAACGCGAAATGCAACAATAGCAACGCGAAATGGAAAATCGCAACGCGATTTTCAACTATC
*
112471 GCAACGCGAAATGGAAA
66 GCAACGCGAAATGCAAA
*
112488 ATCGCAACGCGA
1 ATAGCAACGCGA
112500 TTTTCAACTA
Statistics
Matches: 84, Mismatches: 9, Indels: 1
0.89 0.10 0.01
Matches are distributed among these distances:
81 14 0.17
82 70 0.83
ACGTcount: A:0.39, C:0.22, G:0.21, T:0.18
Consensus pattern (82 bp):
ATAGCAACGCGAAATGCAACAATAGCAACGCGAAATGGAAAATCGCAACGCGATTTTCAACTATC
GCAACGCGAAATGCAAA
Found at i:112395 original size:41 final size:41
Alignment explanation
Indices: 112345--112521 Score: 327
Period size: 41 Copynumber: 4.3 Consensus size: 41
112335 GAAATGGAAA
* *
112345 ATCGTAACGCGAAATGGAAAATCGCAACGTGATTTTCAACT
1 ATCGCAACGCGAAATGGAAAATCGCAACGCGATTTTCAACT
112386 ATCGCAACGCGAAATGGAAAATCGCAACGCGATTTTCAACT
1 ATCGCAACGCGAAATGGAAAATCGCAACGCGATTTTCAACT
*
112427 ATAGCAACGCGAAATGGAAAATCGCAACGCGATTTTCAACT
1 ATCGCAACGCGAAATGGAAAATCGCAACGCGATTTTCAACT
112468 ATCGCAACGCGAAATGGAAAATCGCAACGCGATTTTCAACT
1 ATCGCAACGCGAAATGGAAAATCGCAACGCGATTTTCAACT
112509 ATCGCAACGCGAA
1 ATCGCAACGCGAA
112522 TTTGCGATAG
Statistics
Matches: 132, Mismatches: 4, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
41 132 1.00
ACGTcount: A:0.37, C:0.23, G:0.20, T:0.20
Consensus pattern (41 bp):
ATCGCAACGCGAAATGGAAAATCGCAACGCGATTTTCAACT
Found at i:112492 original size:102 final size:102
Alignment explanation
Indices: 112284--112499 Score: 299
Period size: 102 Copynumber: 2.1 Consensus size: 102
112274 ATTGTAGACT
*
112284 ATCGCAATGCGAAATGGAAAATCGCAACGCGATTTTCAACTATAGCAACGCGAAATGGAAAATCG
1 ATCGCAACGCGAAATGGAAAATCGCAACGCGATTTTCAACTATAGCAACGCGAAATGGAAAATCG
* * * ** * *
112349 TAACGCGAAATGGAAAATCGCAACGTGATTTTCAACT
66 CAACGCGAAATGCAAAATCGCAACGCGAAATGCAACA
112386 ATCGCAACGCGAAATGGAAAATCGCAACGCGATTTTCAACTATAGCAACGCGAAATGGAAAATCG
1 ATCGCAACGCGAAATGGAAAATCGCAACGCGATTTTCAACTATAGCAACGCGAAATGGAAAATCG
** * * *
112451 CAACGCGATTTTCAACTATCGCAACGCGAAATGGAA-A
66 CAACGCGAAATGCAA-AATCGCAACGCGAAATGCAACA
112488 ATCGCAACGCGA
1 ATCGCAACGCGA
112500 TTTTCAACTA
Statistics
Matches: 100, Mismatches: 13, Indels: 2
0.87 0.11 0.02
Matches are distributed among these distances:
102 86 0.86
103 14 0.14
ACGTcount: A:0.39, C:0.22, G:0.21, T:0.19
Consensus pattern (102 bp):
ATCGCAACGCGAAATGGAAAATCGCAACGCGATTTTCAACTATAGCAACGCGAAATGGAAAATCG
CAACGCGAAATGCAAAATCGCAACGCGAAATGCAACA
Found at i:115030 original size:276 final size:277
Alignment explanation
Indices: 114563--115080 Score: 830
Period size: 280 Copynumber: 1.9 Consensus size: 277
114553 AGTTTTAAAA
* * *
114563 TATTATAAAAAATACTCGAACTTTTATTTTAGATGTAAATTGTATTCATAATAAATGGTTTATTT
1 TATTATAAAAAACACTCAAACTTTTATTTTAGATGTAAATTGTATTCATAATAAATGATTTATTT
*
114628 AAATAATAAAATTAAACCTAACATCAATTTGAATAAAATGGTTAAATTAAGATATCTAATTCAGA
66 AAATAATAAAATTAAACCTAACA-CAATTCGAATAAAATGGTTAAATTAAGATATCTAATT-AGA
*
114693 AAAAAAAATTAAAATATCAAATAGAACTTTAAAATTATATTCAAATACATAATTAAATAAAAAAT
129 AAAAAAAATTAAAATATCAAATAGAACTTTAAAATTATATTCAAATACACAATTAAAT-AAAAAT
* *
114758 ATTTAAATACCGAATAA-AATATTTAAATTATTATTATTTTGATTAAGCAATCATATTTGTACAA
193 ATTTAAATAACAAATAATAA-ATTTAAATTATTATTATTTTGATTAAGCAATCATATTTGTACAA
114822 TTTTAAAATATTATAGCAAAG
257 TTTTAAAATATTATAGCAAAG
**
114843 TATTATAAAAAACACTCAAACTTTTATTTTTTATGTAAATTAGTATT-ATAATAAATGATTTATT
1 TATTATAAAAAACACTCAAACTTTTATTTTAGATGTAAATT-GTATTCATAATAAATGATTTATT
* * *
114907 TAAATAAT-AAATTAAATCTAGAC-CAATTCGAATACAATGGTTAAATTAAGGTATCTAATT-GA
65 TAAATAATAAAATTAAACCTA-ACACAATTCGAATAAAATGGTTAAATTAAGATATCTAATTAGA
*
114969 GAAAAAAATTAAAATATCAAATAGAACTTTAAAATTATATTCAAATACACAATTAAATAAAAATA
129 AAAAAAAATTAAAATATCAAATAGAACTTTAAAATTATATTCAAATACACAATTAAATAAAAATA
115034 TTTAAATAACAAATAATAAATTTAAATTATTATTATTTTGATTAAGC
194 TTTAAATAACAAATAATAAATTTAAATTATTATTATTTTGATTAAGC
115081 TAATGTGATT
Statistics
Matches: 222, Mismatches: 13, Indels: 11
0.90 0.05 0.04
Matches are distributed among these distances:
275 49 0.22
276 60 0.27
278 34 0.15
279 11 0.05
280 63 0.28
281 5 0.02
ACGTcount: A:0.49, C:0.07, G:0.06, T:0.37
Consensus pattern (277 bp):
TATTATAAAAAACACTCAAACTTTTATTTTAGATGTAAATTGTATTCATAATAAATGATTTATTT
AAATAATAAAATTAAACCTAACACAATTCGAATAAAATGGTTAAATTAAGATATCTAATTAGAAA
AAAAAATTAAAATATCAAATAGAACTTTAAAATTATATTCAAATACACAATTAAATAAAAATATT
TAAATAACAAATAATAAATTTAAATTATTATTATTTTGATTAAGCAATCATATTTGTACAATTTT
AAAATATTATAGCAAAG
Found at i:115040 original size:26 final size:24
Alignment explanation
Indices: 115005--115053 Score: 62
Period size: 26 Copynumber: 2.0 Consensus size: 24
114995 CTTTAAAATT
*
115005 ATATTCAAATACACAATTAAATAAAA
1 ATATTCAAATA-ACAAAT-AATAAAA
*
115031 ATATTTAAATAACAAATAATAAA
1 ATATTCAAATAACAAATAATAAA
115054 TTTAAATTAT
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
24 6 0.29
25 5 0.24
26 10 0.48
ACGTcount: A:0.63, C:0.08, G:0.00, T:0.29
Consensus pattern (24 bp):
ATATTCAAATAACAAATAATAAAA
Done.